BLASTP 2.2.22 [Sep-27-2009]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.


Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.


Reference for composition-based statistics starting in round 2:
Schaffer, Alejandro A., L. Aravind, Thomas L. Madden,
Sergei Shavirin, John L. Spouge, Yuri I. Wolf,  
Eugene V. Koonin, and Stephen F. Altschul (2001), 
"Improving the accuracy of PSI-BLAST protein database searches with 
composition-based statistics and other refinements",  Nucleic Acids Res. 29:2994-3005.

Query= gi|254780788|ref|YP_003065201.1| transcription elongation
factor NusA [Candidatus Liberibacter asiaticus str. psy62]
         (526 letters)

Database: nr 
           14,124,377 sequences; 4,842,793,630 total letters

Searching..................................................done


Results from round 1


>gi|254780788|ref|YP_003065201.1| transcription elongation factor NusA [Candidatus Liberibacter
           asiaticus str. psy62]
 gi|254040465|gb|ACT57261.1| transcription elongation factor NusA [Candidatus Liberibacter
           asiaticus str. psy62]
          Length = 526

 Score = 1057 bits (2734), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 526/526 (100%), Positives = 526/526 (100%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI
Sbjct: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ
Sbjct: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD
Sbjct: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA
Sbjct: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV
Sbjct: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ
Sbjct: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
           FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI
Sbjct: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN
Sbjct: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDAS 526
           IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDAS
Sbjct: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDAS 526


>gi|315122010|ref|YP_004062499.1| transcription elongation factor NusA [Candidatus Liberibacter
           solanacearum CLso-ZC1]
 gi|313495412|gb|ADR52011.1| transcription elongation factor NusA [Candidatus Liberibacter
           solanacearum CLso-ZC1]
          Length = 536

 Score =  910 bits (2353), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 449/525 (85%), Positives = 490/525 (93%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           +VSANRLELLQIADAVA EKSIDRDVVLSVMA+SIQKAARSLYGT+SDIRVEIN ETG+I
Sbjct: 2   VVSANRLELLQIADAVACEKSIDRDVVLSVMAESIQKAARSLYGTLSDIRVEINRETGNI 61

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           S+ R LEVVEEVENY CQISL++ARDRDP+I+IG V+ DPLPP+DFGRVAVQSAKQVIIQ
Sbjct: 62  SICRSLEVVEEVENYACQISLQLARDRDPNINIGDVLFDPLPPIDFGRVAVQSAKQVIIQ 121

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG+SDGVIRRDETISRENLR GD
Sbjct: 122 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGHSDGVIRRDETISRENLRLGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV+SYIYDVRREQRGPQVLLSRTHPQFMVKLF++EVPEIYNGIVQ+KAVSRDPGSRAKLA
Sbjct: 182 RVRSYIYDVRREQRGPQVLLSRTHPQFMVKLFYLEVPEIYNGIVQIKAVSRDPGSRAKLA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           VFSSDSSIDPVGACVGMRGSRVQAVV ELRDEKIDIVVWSPD ATFVIN+LRPAIVTKVV
Sbjct: 242 VFSSDSSIDPVGACVGMRGSRVQAVVGELRDEKIDIVVWSPDPATFVINSLRPAIVTKVV 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDEDVGRIEV+VPK+QLSLAIGRRGQNVRLASQLTGW IDI+TEEEDS+NRQK FNERTQ
Sbjct: 302 LDEDVGRIEVVVPKDQLSLAIGRRGQNVRLASQLTGWAIDIVTEEEDSVNRQKHFNERTQ 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
           FFMQAINVDEII HLL AEGF+D+EELACVK+SEIASIEGFDEETA EIQGRAREY+EG+
Sbjct: 362 FFMQAINVDEIIGHLLAAEGFSDIEELACVKLSEIASIEGFDEETASEIQGRAREYMEGL 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           ++  ++KI+ LGVSEEL SIPG++++I VALGENGIKTMEDLAGCSVDDLLGW E K G 
Sbjct: 422 EVARREKIKGLGVSEELFSIPGMNTEIGVALGENGIKTMEDLAGCSVDDLLGWGEVKNGK 481

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
           +E F+GFLS LG  K+Q ESMIIHARY +GWI +E +ADE V  A
Sbjct: 482 VENFEGFLSQLGVLKEQAESMIIHARYHLGWIVREDIADESVDCA 526


>gi|150398625|ref|YP_001329092.1| transcription elongation factor NusA [Sinorhizobium medicae WSM419]
 gi|150030140|gb|ABR62257.1| NusA antitermination factor [Sinorhizobium medicae WSM419]
          Length = 552

 Score =  745 bits (1924), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 356/517 (68%), Positives = 439/517 (84%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK IDR++VL+ MAD+IQKAARS YG+ S+IR +INP+TG+I 
Sbjct: 13  VSANRLELLQIADAVAREKVIDREIVLAAMADAIQKAARSRYGSESNIRADINPKTGEIR 72

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE+ E+Y+ QI +++ARDR+P   +G  ++DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 73  LQRLLEVVEKAEDYSTQIPIELARDRNPDAKLGDFIADPLPPMDFGRIAAQSAKQVIVQK 132

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD+VGEI++GTVKRVEYGNVIVDLG  +G+IRRDE I REN+R GDR
Sbjct: 133 VREAERDRQYDEFKDRVGEIVNGTVKRVEYGNVIVDLGRGEGIIRRDEMIPRENMRYGDR 192

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++++YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+G++Q+K+V+RDPGSRAK+AV
Sbjct: 193 VRAFVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGVIQIKSVARDPGSRAKIAV 252

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD A+F++NAL+PA V KVVL
Sbjct: 253 VSNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSPDPASFIVNALQPAEVAKVVL 312

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+FNERTQ 
Sbjct: 313 DEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDILTEQEESERRQKEFNERTQL 372

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A++VDE++  +L +EGFA VEELA V + EIASIEGFDEET+ EIQ RAREYLE I+
Sbjct: 373 FMEALDVDEMVGQVLASEGFAQVEELAYVDLDEIASIEGFDEETSNEIQTRAREYLEKIE 432

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             +  K +ELGV++EL +I G++S++ VALGE GIKT+ED AGC+ DDL+GW E K G  
Sbjct: 433 AEMDAKRKELGVADELRTINGLNSQMLVALGEEGIKTIEDFAGCAADDLVGWVERKDGET 492

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
           ++F+G  S L   +++ E+MI+ AR   GWI +E +A
Sbjct: 493 KRFEGTFSKLEVTREEAEAMIVQARLAAGWITEEDLA 529


>gi|15963990|ref|NP_384343.1| transcription elongation factor NusA [Sinorhizobium meliloti 1021]
 gi|307306402|ref|ZP_07586146.1| NusA antitermination factor [Sinorhizobium meliloti BL225C]
 gi|307319289|ref|ZP_07598718.1| NusA antitermination factor [Sinorhizobium meliloti AK83]
 gi|15073166|emb|CAC41674.1| Probable N utilization substance protein A [Sinorhizobium meliloti
           1021]
 gi|306895125|gb|EFN25882.1| NusA antitermination factor [Sinorhizobium meliloti AK83]
 gi|306902244|gb|EFN32841.1| NusA antitermination factor [Sinorhizobium meliloti BL225C]
          Length = 542

 Score =  742 bits (1916), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 354/514 (68%), Positives = 436/514 (84%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK IDR++VL+ MAD+IQKAARS YG+ S+IR +INP+TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKVIDREIVLAAMADAIQKAARSRYGSESNIRADINPKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE+ E+Y+ QI +++ARDR+P   +G  ++DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVEKAEDYSTQIPIELARDRNPDAKLGDFIADPLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD+VGEI++GTVKRVEYGNVIVDLG  +G+IRRDE I REN+R GDR
Sbjct: 123 VREAERDRQYDEFKDRVGEIVNGTVKRVEYGNVIVDLGRGEGIIRRDEMIPRENMRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++++YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+Q+K+V+RDPGSRAK+AV
Sbjct: 183 VRAFVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIQIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD A+F++NAL+PA V KVVL
Sbjct: 243 VSNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSPDPASFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+FNERTQ 
Sbjct: 303 DEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDILTEQEESERRQKEFNERTQL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM A++VDE++  +L +EGFA VEELA V++ EI+SIEGFDE+TA E+Q RAREYLE I+
Sbjct: 363 FMDALDVDEMVGQVLASEGFAQVEELAYVELDEISSIEGFDEDTANELQTRAREYLEKIE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             +  K +ELGVS+EL +I G+ S++ VALGE GIKT+ED AGC+ DDL+GW+E K G  
Sbjct: 423 AEMDAKRKELGVSDELRTIDGLTSQMLVALGEEGIKTIEDFAGCAADDLVGWTERKDGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
           ++F+G  S     +++ E+MI+ AR   GWI +E
Sbjct: 483 KRFEGIFSKFEVTREEAETMIVQARLAAGWITEE 516


>gi|227824069|ref|YP_002828042.1| transcription elongation factor NusA [Sinorhizobium fredii NGR234]
 gi|227343071|gb|ACP27289.1| transcription termination factor, NusA [Sinorhizobium fredii
           NGR234]
          Length = 536

 Score =  741 bits (1914), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 355/517 (68%), Positives = 437/517 (84%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK IDR++VL+ MAD+IQKAARS YG+ S+IR +IN +TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKVIDREIVLAAMADAIQKAARSRYGSESNIRADINSKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE+ ++Y+ QI L++ARDR+P   +G  ++DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVEKADDYSTQIPLELARDRNPDAKLGDFIADPLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD+VGEI++GTVKRVEYGNVIVDLG  +G+IRRDE I REN+R GDR
Sbjct: 123 VREAERDRQYEEFKDRVGEIVNGTVKRVEYGNVIVDLGRGEGIIRRDEMIPRENMRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++++YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+Q+K+V+RDPGSRAK+AV
Sbjct: 183 VRAFVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIQIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD A+F++NAL+PA VTKVVL
Sbjct: 243 VSNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSPDPASFIVNALQPAEVTKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+FNERTQ 
Sbjct: 303 DEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDILTEQEESERRQKEFNERTQL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM A++VDE++  +L +EGFA VEELA V + EI+SI+GFDEETA EIQ RAREYL+ ++
Sbjct: 363 FMDALDVDEMVGQVLASEGFAQVEELAYVDLDEISSIDGFDEETATEIQTRAREYLDKVE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             +  K +ELGVS+EL  I G+ S++ VALGE GIKT+ED AGC+ DDL+GW+E K G  
Sbjct: 423 AEMDAKRKELGVSDELRQIDGLTSQMLVALGEEGIKTIEDFAGCAADDLVGWTERKDGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
           ++F+G  S L   +++ E+MI+ AR   GWI +E +A
Sbjct: 483 KRFEGTFSKLEVSREEAEAMIVQARLAAGWITEEDLA 519


>gi|222084328|ref|YP_002542857.1| N-utilization substance protein A [Agrobacterium radiobacter K84]
 gi|221721776|gb|ACM24932.1| N-utilization substance protein A [Agrobacterium radiobacter K84]
          Length = 534

 Score =  736 bits (1901), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 357/519 (68%), Positives = 434/519 (83%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK IDR++VL+ MAD+IQKAARS YGT S+IR +INP+TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKVIDREIVLAAMADAIQKAARSRYGTESNIRADINPKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE+ E+Y+ QI L++ARDR+P   +G  ++DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVEKAEDYSTQIPLELARDRNPDAALGDFIADPLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQ+ EFKD+VGEI++GTVKRVEYGNVIVDLG  +G+IRRDE I REN R GDR
Sbjct: 123 VREAERDRQFDEFKDRVGEIVNGTVKRVEYGNVIVDLGRGEGIIRRDEMIPRENFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+QVK+V+RDPGSRAK+AV
Sbjct: 183 VRAYVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIQVKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS + A FV+NAL+PA V+KVVL
Sbjct: 243 ISNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSNEPANFVVNALQPAEVSKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+FNERT  
Sbjct: 303 DEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDIMTEAEESERRQKEFNERTNL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM A++VDE++  +L +EGFA VEELA V++ EIASI+GFDEETA EIQ RAREYLE ++
Sbjct: 363 FMDALDVDEMVGQVLASEGFAAVEELAYVELDEIASIDGFDEETAQEIQQRAREYLERLE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             + +K + LGV++EL  I G+ +++ VALGE+GIKT+ED AGC+ DDL+GWSE K G  
Sbjct: 423 AEMDEKRKALGVADELRQINGMTAQMMVALGEDGIKTIEDFAGCAADDLVGWSERKNGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADE 520
           +KF+G  S L   + + E MI+ AR   GWI +  +A+E
Sbjct: 483 KKFEGLFSKLEISRVEAEQMIVQARLSAGWITEADLANE 521


>gi|86355778|ref|YP_467670.1| transcription elongation factor NusA [Rhizobium etli CFN 42]
 gi|86279880|gb|ABC88943.1| N-utilization substance protein A [Rhizobium etli CFN 42]
          Length = 533

 Score =  731 bits (1887), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 354/517 (68%), Positives = 431/517 (83%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK IDR++VL+ MAD+IQKAARS YGT S+IR +INP+TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKVIDREIVLAAMADAIQKAARSRYGTESNIRADINPKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVV++ E+Y+ QI L++ARDR+P   +G  ++DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVDKAEDYSTQIPLELARDRNPDAALGDFIADPLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQ+ EFKD+VGEI++GTVKRVEYGNVIVDLG  +G+IRRDE I REN+R GDR
Sbjct: 123 VREAERDRQFDEFKDRVGEIVNGTVKRVEYGNVIVDLGRGEGIIRRDEMIPRENVRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+QVK+V+RDPGSRAK+AV
Sbjct: 183 VRAYVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIQVKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATFV+NAL+PA V KVVL
Sbjct: 243 ISNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSQDPATFVVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+FNERT  
Sbjct: 303 DEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDIMTEAEESERRQKEFNERTNL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM +++VDE++  +L +EGFA VEELA V + EIASI+GFDE+TA EIQ RAREYLE ++
Sbjct: 363 FMDSLDVDEMVGQVLASEGFAAVEELAYVDLDEIASIDGFDEDTAQEIQTRAREYLEKLE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             + +K + LGV +EL  I G+ +++ VALGE+GIKT+ED AGC+ DDL+GW+E K G  
Sbjct: 423 AEMDEKRKALGVKDELRQIDGMTAQMMVALGEDGIKTIEDFAGCAADDLVGWTERKNGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
           +KF+G  S     + + E MI+ AR   GWI +E +A
Sbjct: 483 KKFEGLFSKFDLSRVEAEQMIVQARLAAGWITEEDLA 519


>gi|325291533|ref|YP_004277397.1| transcription elongation factor NusA [Agrobacterium sp. H13-3]
 gi|325059386|gb|ADY63077.1| transcription elongation factor NusA [Agrobacterium sp. H13-3]
          Length = 538

 Score =  731 bits (1887), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 353/524 (67%), Positives = 436/524 (83%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK IDR++VL+ MAD+IQKAARS YG+ ++IR +IN +TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKVIDREIVLAAMADAIQKAARSRYGSETNIRADINSKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE  E+Y+ QI L++ARDR+P   +G  ++DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVETAEDYSTQIPLELARDRNPDAKLGDFIADPLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++GEI++GTVKRVEYGNVIVDLG  +G+IRRDE I REN+R GDR
Sbjct: 123 VREAERDRQYDEFKDRIGEIVNGTVKRVEYGNVIVDLGRGEGIIRRDEMIPRENMRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+Q+K+V+RDPGSRAK+AV
Sbjct: 183 VRAYVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIQIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS + A+F++NAL+PA V KVVL
Sbjct: 243 ISNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSQEPASFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+FNERT  
Sbjct: 303 DEESERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDIMTEQEESERRQKEFNERTAL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM A++VDE++  +L +EGFA VEELA V + EI+SI+GFD++TA EIQ RAREYLE ++
Sbjct: 363 FMDALDVDEMVGQVLASEGFAQVEELAYVDLGEISSIDGFDDDTADEIQTRAREYLERLE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             +  K +ELGV++EL  I G+ S++ VALGE+GIKT+ED AGC+ DDL+GWSE K G  
Sbjct: 423 AEMDAKRKELGVADELRQIEGLTSQMMVALGEDGIKTIEDFAGCAADDLVGWSERKDGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
           +KF+G  S L   + + E+M++ AR   GWI  E +A EE  DA
Sbjct: 483 KKFEGIFSKLDVSRVEAENMVVQARLLAGWITAEDLASEEEVDA 526


>gi|209551640|ref|YP_002283557.1| transcription elongation factor NusA [Rhizobium leguminosarum bv.
           trifolii WSM2304]
 gi|209537396|gb|ACI57331.1| NusA antitermination factor [Rhizobium leguminosarum bv. trifolii
           WSM2304]
          Length = 535

 Score =  731 bits (1886), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 355/517 (68%), Positives = 431/517 (83%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK IDR++VL+ MAD+IQKAARS YGT S+IR +INP+TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKVIDREIVLAAMADAIQKAARSRYGTESNIRADINPKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVV++ E+Y+ QI L++ARDR+P   +G  ++DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVDKAEDYSTQIPLELARDRNPDAALGDFIADPLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQ+ EFKD+VGEI++GTVKRVEYGNVIVDLG  +G+IRRDE I REN+R GDR
Sbjct: 123 VREAERDRQFDEFKDRVGEIVNGTVKRVEYGNVIVDLGRGEGIIRRDEMIPRENVRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+QVK+V+RDPGSRAK+AV
Sbjct: 183 VRAYVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIQVKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATFV+NAL+PA V KVVL
Sbjct: 243 ISNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSQDPATFVVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+FNERT  
Sbjct: 303 DEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDIMTEAEESERRQKEFNERTNL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM +++VDE++  +L +EGFA VEELA V + EI+SI+GFDEETA EIQ RARE+LE ++
Sbjct: 363 FMDSLDVDEMVGQVLASEGFAAVEELAYVDLDEISSIDGFDEETAQEIQQRAREFLERLE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             + +K + LGV +EL  I GI +++ VALGE+GIKT+ED AGC+ DDL+GWSE K G  
Sbjct: 423 AEMDEKRKALGVQDELREINGITAQMMVALGEDGIKTIEDFAGCAADDLVGWSERKNGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
           +KF+G  S     + + E MI+ AR   GWI +E +A
Sbjct: 483 KKFEGLFSKFDVSRVEAEQMIVQARLSAGWITEEDLA 519


>gi|116249893|ref|YP_765731.1| transcription elongation factor NusA [Rhizobium leguminosarum bv.
           viciae 3841]
 gi|115254541|emb|CAK05615.1| putative transcription elongation protein (N utilization substance
           protein A) (L factor) [Rhizobium leguminosarum bv.
           viciae 3841]
          Length = 533

 Score =  730 bits (1885), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 354/517 (68%), Positives = 431/517 (83%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK IDR++VL+ MAD+IQKAARS YGT S+IR +INP+TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKVIDREIVLAAMADAIQKAARSRYGTESNIRADINPKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE+ E+Y+ QI L++ARDR+P   +G  ++DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVEKAEDYSTQIPLELARDRNPDAALGDFIADPLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQ+ EFKD+VGEI++GTVKRVEYGNVIVDLG  +G+IRRDE I REN+R GDR
Sbjct: 123 VREAERDRQFDEFKDRVGEIVNGTVKRVEYGNVIVDLGRGEGIIRRDEMIPRENVRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+QVK+V+RDPGSRAK+AV
Sbjct: 183 VRAYVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIQVKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATFV+NAL+PA V KVVL
Sbjct: 243 ISNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSQDPATFVVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+FNERT  
Sbjct: 303 DEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDIMTEAEESERRQKEFNERTNL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM +++VDE++  +L +EGFA VEELA V + EI+SI+GFDEETA EIQ RARE+LE ++
Sbjct: 363 FMDSLDVDEMVGQVLASEGFAAVEELAYVDLDEISSIDGFDEETAQEIQQRAREFLERLE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             + +K + LGV +EL  I G+ +++ VALGE+GIK++ED AGC+ DDL+GWSE K G  
Sbjct: 423 AEMDEKRKALGVQDELREINGMTAQMMVALGEDGIKSIEDFAGCAADDLVGWSERKNGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
           +KF+G  S     + + E MI+ AR   GWI +E +A
Sbjct: 483 KKFEGLFSKFDVSRVEAEQMIVQARLSAGWITQEDLA 519


>gi|241207071|ref|YP_002978167.1| transcription elongation factor NusA [Rhizobium leguminosarum bv.
           trifolii WSM1325]
 gi|240860961|gb|ACS58628.1| NusA antitermination factor [Rhizobium leguminosarum bv. trifolii
           WSM1325]
          Length = 533

 Score =  729 bits (1883), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 353/514 (68%), Positives = 429/514 (83%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK IDR++VL+ MAD+IQKAARS YGT S+IR +INP+TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKVIDREIVLAAMADAIQKAARSRYGTESNIRADINPKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE+ E+Y+ QI L++ARDR+P   +G  ++DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVEKAEDYSTQIPLELARDRNPDAALGDFIADPLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQ+ EFKD+VGEI++GTVKRVEYGNVIVDLG  +G+IRRDE I REN+R GDR
Sbjct: 123 VREAERDRQFDEFKDRVGEIVNGTVKRVEYGNVIVDLGRGEGIIRRDEMIPRENVRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+QVK+V+RDPGSRAK+AV
Sbjct: 183 VRAYVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIQVKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATFV+NAL+PA V KVVL
Sbjct: 243 ISNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSQDPATFVVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+FNERT  
Sbjct: 303 DEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDIMTEAEESERRQKEFNERTNL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM +++VDE++  +L +EGFA VEELA V + EI+SI+GFDEETA EIQ RARE+LE ++
Sbjct: 363 FMDSLDVDEMVGQVLASEGFAAVEELAYVDLDEISSIDGFDEETAQEIQQRAREFLERLE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             + +K + LGV +EL  I G+ +++ VALGE+GIK++ED AGC+ DDL+GWSE K G  
Sbjct: 423 AEMDEKRKALGVQDELREINGMTAQMMVALGEDGIKSIEDFAGCAADDLVGWSERKNGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
           +KF+G  S     + + E MI+ AR   GWI +E
Sbjct: 483 KKFEGLFSKFDVSRVEAEQMIVQARLSAGWITQE 516


>gi|190889787|ref|YP_001976329.1| N-utilization substance protein (transcription elongation factor)
           [Rhizobium etli CIAT 652]
 gi|190695066|gb|ACE89151.1| N-utilization substance protein (transcription elongation factor)
           [Rhizobium etli CIAT 652]
 gi|327192408|gb|EGE59368.1| N-utilization substance protein (transcription elongation factor)
           [Rhizobium etli CNPAF512]
          Length = 533

 Score =  728 bits (1878), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 352/517 (68%), Positives = 431/517 (83%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK IDR++VL+ MAD+IQKAARS YGT S+IR +INP+TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKVIDREIVLAAMADAIQKAARSRYGTESNIRADINPKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVV++ E+Y+ QI L++ARDR+P   +G  ++DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVDKAEDYSTQIPLELARDRNPDAALGDFIADPLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQ+ EFKD+VGEI++GTVKRVEYGNVIVDLG  +G+IRRDE I REN+R GDR
Sbjct: 123 VREAERDRQFDEFKDRVGEIVNGTVKRVEYGNVIVDLGRGEGIIRRDEMIPRENVRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+QVK+V+RDPGSRAK+AV
Sbjct: 183 VRAYVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIQVKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATFV+NAL+PA V KVVL
Sbjct: 243 ISNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSQDPATFVVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+FNERT  
Sbjct: 303 DEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDIMTEAEESERRQKEFNERTNL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM +++VDE++  +L +EGFA VEELA V + EI+SI+GFDE+TA EIQ RARE+LE ++
Sbjct: 363 FMDSLDVDEMVGQVLASEGFAAVEELAYVDLDEISSIDGFDEDTAQEIQTRAREFLERLE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             + +K + LGV +EL  I G+ +++ VALGE+GIKT+ED AGC+ DDL+GW+E K G  
Sbjct: 423 AEMDEKRKALGVEDELRGIDGMTAQMMVALGEDGIKTIEDFAGCAADDLVGWTERKNGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
           +KF+G  S     + + E MI+ AR   GWI +E +A
Sbjct: 483 KKFEGLFSKFDVSRVEAEQMIVQARLAAGWITEEDLA 519


>gi|15887443|ref|NP_353124.1| transcription elongation factor NusA [Agrobacterium tumefaciens
           str. C58]
 gi|15154956|gb|AAK85909.1| N-utilization substance protein A [Agrobacterium tumefaciens str.
           C58]
          Length = 538

 Score =  726 bits (1873), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 349/516 (67%), Positives = 432/516 (83%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK IDR++VL+ MAD+IQKAARS YG+ ++IR +IN +TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKVIDREIVLAAMADAIQKAARSRYGSETNIRADINSKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE  E+Y+ QI L++ARDR+P   +G  ++DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVEAAEDYSTQIPLELARDRNPDAKLGDFIADPLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++GEI++GTVKRVEYGNVIVDLG  +G+IRRDE I REN+R GDR
Sbjct: 123 VREAERDRQYDEFKDRIGEIVNGTVKRVEYGNVIVDLGRGEGIIRRDEMIPRENMRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+Q+K+V+RDPGSRAK+AV
Sbjct: 183 VRAYVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIQIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS + A+F++NAL+PA V KVVL
Sbjct: 243 ISNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSQEPASFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+FNERT  
Sbjct: 303 DEESERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDIMTEQEESERRQKEFNERTAL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A++VDE++  +L +EGFA VEELA V + EI SI+GFDE+TA EIQ RAREYLE ++
Sbjct: 363 FMEALDVDEMVGQVLASEGFAQVEELAYVDLDEITSIDGFDEDTADEIQTRAREYLERLE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             +  K +ELGV++EL  I G+ S++ VALGE+GIKT+ED AGC+ DDL+GWSE K G  
Sbjct: 423 AEMDAKRKELGVTDELRQIDGLTSQMMVALGEDGIKTIEDFAGCAADDLVGWSERKDGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
           +KF+G  S L   + + E+M++ AR   GWI  E++
Sbjct: 483 KKFEGIFSKLDVSRVEAENMVVQARLLAGWITAEEL 518


>gi|163757748|ref|ZP_02164837.1| transcription elongation factor NusA [Hoeflea phototrophica DFL-43]
 gi|162285250|gb|EDQ35532.1| transcription elongation factor NusA [Hoeflea phototrophica DFL-43]
          Length = 550

 Score =  724 bits (1869), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 344/516 (66%), Positives = 431/516 (83%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR++V++ MAD+IQKAARS YG+ S+IR +IN +TG+I 
Sbjct: 7   VSANRLELLQIADAVAREKSIDREIVIAAMADAIQKAARSRYGSESNIRADINAKTGEIK 66

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE  E+Y+ QI L +ARDR+P   +G  ++DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 67  LQRLLEVVEHAEDYSTQIPLMLARDRNPDAQLGDFIADPLPPMDFGRIAAQSAKQVIVQK 126

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQ+ EFKD++GE+++GTVKRVEYGNVIVDLG  +G++RRDETI RE  R GDR
Sbjct: 127 VREAERDRQFDEFKDRIGEVVNGTVKRVEYGNVIVDLGRGEGIVRRDETIPREAFRYGDR 186

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++Y+YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+++++V+RDPGSRAK+AV
Sbjct: 187 IRAYVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIEIRSVARDPGSRAKIAV 246

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSP  ATF++NAL+PA V KVVL
Sbjct: 247 ISNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSPSPATFIVNALQPAEVAKVVL 306

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TEEE+S  RQK+FNERTQ 
Sbjct: 307 DEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDILTEEEESQRRQKEFNERTQL 366

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A++VDE++  +L +EGF+ VEE+A V + EI +IEGFD+ETA E+Q RAREYL+ ++
Sbjct: 367 FMEALDVDEMVGQVLASEGFSQVEEVAYVDLGEITAIEGFDDETAEELQTRAREYLDKVE 426

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L  K +ELGV +EL SI G+ + + VALG + IKT+ED AGC+VDDL GWSE K G  
Sbjct: 427 AELDAKRKELGVEDELRSIAGMTTAMMVALGGDEIKTVEDFAGCAVDDLTGWSERKDGET 486

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
           ++FDG  + +   + + ESMI+ AR  +GWI ++++
Sbjct: 487 KRFDGLFTGMDITRAEAESMILSARLAVGWITEDEL 522


>gi|222147147|ref|YP_002548104.1| transcription elongation factor NusA [Agrobacterium vitis S4]
 gi|221734137|gb|ACM35100.1| N-utilization substance protein A [Agrobacterium vitis S4]
          Length = 538

 Score =  718 bits (1854), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 349/511 (68%), Positives = 424/511 (82%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK IDR++VL+ MAD+IQKAARS YG+ ++IR +IN +TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKVIDREIVLAAMADAIQKAARSRYGSETNIRADINSKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE VE+Y  QI+L++ARDR+    +G  ++DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVETVEDYGTQIALELARDRNVDAKLGDYIADPLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQ+ EFKD+VGEII+GTVKRVEYGNVIVDLG  +G+IRRDE I RE +R GDR
Sbjct: 123 VREAERDRQFDEFKDRVGEIINGTVKRVEYGNVIVDLGRGEGIIRRDEMIPRETMRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+G++Q+K+V+RDPGSRAK+AV
Sbjct: 183 VRAYVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGVIQIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D A+F++NAL+PA V KVVL
Sbjct: 243 ISNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSADPASFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+FNERT  
Sbjct: 303 DEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDIMTEAEESERRQKEFNERTNL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM A++VDE++  +L +EGFA VEELA V + EIASI+GFD +TA EIQ RAREYLE ++
Sbjct: 363 FMDALDVDEMVGQVLASEGFAQVEELAYVDLEEIASIDGFDGDTAEEIQTRAREYLEKLE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L  K + LGVS+EL SI G+ +++ VALG +GIKT+ED AGC+ DDL+GWSE K G  
Sbjct: 423 AELDAKRKALGVSDELRSIDGMTTQMLVALGGDGIKTVEDFAGCAADDLIGWSERKDGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
           +KF+G  S +   + + E MI+ AR   GWI
Sbjct: 483 KKFEGLFSKIDISRTEAEQMIVQARLAAGWI 513


>gi|237816502|ref|ZP_04595495.1| transcription termination factor NusA [Brucella abortus str. 2308
           A]
 gi|237788569|gb|EEP62784.1| transcription termination factor NusA [Brucella abortus str. 2308
           A]
          Length = 575

 Score =  707 bits (1826), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 341/517 (65%), Positives = 423/517 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR++VL+ MAD+IQKAARS YG  S+IR +IN ++G+I 
Sbjct: 41  VSANRLELLQIADAVAREKSIDREIVLAAMADAIQKAARSRYGQESNIRADINAKSGEIK 100

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE VE+Y  QISL +ARDR+P   +G  ++D LPPMDFGR+A QSAKQVI+QK
Sbjct: 101 LQRLLEVVENVEDYATQISLFMARDRNPDAQVGDFIADQLPPMDFGRIAAQSAKQVIVQK 160

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD+VGEI++GTVKRVEYGNVIVDLG  + ++RRDE I RE  R GDR
Sbjct: 161 VREAERDRQYDEYKDRVGEIVNGTVKRVEYGNVIVDLGRGEAIVRRDELIPREAFRYGDR 220

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++Y+YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 221 IRAYVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 280

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+A+F++NAL+PA V KVVL
Sbjct: 281 VSRDASIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAASFIVNALQPAEVAKVVL 340

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER+  
Sbjct: 341 DEDAERIEVVVPNDQLSLAIGRRGQNVRLASQLTGWDIDILTEDEESERRQKEFAERSNL 400

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+NVDE++  +L +EGFA VEELA V   EI+SI+GFDE+TA EIQ RAREYLE I+
Sbjct: 401 FMEALNVDEMVGQVLASEGFASVEELAYVDAGEISSIDGFDEDTAGEIQDRAREYLERIE 460

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                + +ELGV++EL  +PG+ + + VA+GE+G+KTMED AG +VDDL+GW E K G+ 
Sbjct: 461 AEQDARRKELGVADELRELPGMTTAMLVAVGEDGVKTMEDFAGYAVDDLVGWRERKDGDT 520

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
               G L+     +   E M++ AR K GWI +E++A
Sbjct: 521 INHSGVLTPFDLSRVDAEQMVLAARLKAGWITEEELA 557


>gi|254718200|ref|ZP_05180011.1| transcription elongation factor NusA [Brucella sp. 83/13]
 gi|265983158|ref|ZP_06095893.1| transcription elongation factor NusA [Brucella sp. 83/13]
 gi|306837714|ref|ZP_07470583.1| transcription termination factor NusA [Brucella sp. NF 2653]
 gi|306842729|ref|ZP_07475371.1| transcription termination factor NusA [Brucella sp. BO2]
 gi|306843580|ref|ZP_07476181.1| transcription termination factor NusA [Brucella sp. BO1]
 gi|264661750|gb|EEZ32011.1| transcription elongation factor NusA [Brucella sp. 83/13]
 gi|306276271|gb|EFM57971.1| transcription termination factor NusA [Brucella sp. BO1]
 gi|306287073|gb|EFM58578.1| transcription termination factor NusA [Brucella sp. BO2]
 gi|306407272|gb|EFM63482.1| transcription termination factor NusA [Brucella sp. NF 2653]
          Length = 537

 Score =  707 bits (1825), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 341/517 (65%), Positives = 423/517 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR++VL+ MAD+IQKAARS YG  S+IR +IN ++G+I 
Sbjct: 3   VSANRLELLQIADAVAREKSIDREIVLAAMADAIQKAARSRYGQESNIRADINAKSGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE VE+Y  QISL +ARDR+P   +G  ++D LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVENVEDYATQISLFMARDRNPDAQVGDFIADQLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD+VGEI++GTVKRVEYGNVIVDLG  + ++RRDE I RE  R GDR
Sbjct: 123 VREAERDRQYDEYKDRVGEIVNGTVKRVEYGNVIVDLGRGEAIVRRDELIPREAFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++Y+YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAYVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+A+F++NAL+PA V KVVL
Sbjct: 243 VSRDASIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAASFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER+  
Sbjct: 303 DEDAERIEVVVPNDQLSLAIGRRGQNVRLASQLTGWDIDILTEDEESERRQKEFAERSNL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+NVDE++  +L +EGFA VEELA V   EI+SI+GFDE+TA EIQ RAREYLE I+
Sbjct: 363 FMEALNVDEMVGQVLASEGFASVEELAYVDAGEISSIDGFDEDTAGEIQDRAREYLERIE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                + +ELGV++EL  +PG+ + + VA+GE+G+KTMED AG +VDDL+GW E K G+ 
Sbjct: 423 AEQDARRKELGVADELRELPGMTTAMLVAVGEDGVKTMEDFAGYAVDDLVGWRERKDGDT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
               G L+     +   E M++ AR K GWI +E++A
Sbjct: 483 INHSGVLTPFDLSRVDAEQMVLAARLKAGWITEEELA 519


>gi|225626528|ref|ZP_03784567.1| transcription termination factor NusA [Brucella ceti str. Cudo]
 gi|225618185|gb|EEH15228.1| transcription termination factor NusA [Brucella ceti str. Cudo]
          Length = 575

 Score =  707 bits (1825), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 341/517 (65%), Positives = 423/517 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR++VL+ MAD+IQKAARS YG  S+IR +IN ++G+I 
Sbjct: 41  VSANRLELLQIADAVAREKSIDREIVLAAMADAIQKAARSRYGQESNIRADINAKSGEIK 100

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE VE+Y  QISL +ARDR+P   +G  ++D LPPMDFGR+A QSAKQVI+QK
Sbjct: 101 LQRLLEVVENVEDYATQISLFMARDRNPDAQVGDFIADQLPPMDFGRIAAQSAKQVIVQK 160

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD+VGEI++GTVKRVEYGNVIVDLG  + ++RRDE I RE  R GDR
Sbjct: 161 VREAERDRQYDEYKDRVGEIVNGTVKRVEYGNVIVDLGRGEAIVRRDELIPREAFRYGDR 220

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++Y+YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 221 IRAYVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 280

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+A+F++NAL+PA V KVVL
Sbjct: 281 VSRDASIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAASFIVNALQPAEVAKVVL 340

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER+  
Sbjct: 341 DEDAERIEVVVPNDQLSLAIGRRGQNVRLASQLTGWDIDILTEDEESERRQKEFAERSNL 400

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+NVDE++  +L +EGFA VEELA V   EI+SI+GFDE+TA EIQ RAREYLE I+
Sbjct: 401 FMEALNVDEMVGQVLASEGFASVEELAYVDAGEISSIDGFDEDTAGEIQDRAREYLERIE 460

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                + +ELGV++EL  +PG+ + + VA+GE+G+KTMED AG +VDDL+GW E K G+ 
Sbjct: 461 AEQDARRKELGVADELRELPGMTTAMLVAVGEDGVKTMEDFAGYAVDDLVGWRERKDGDT 520

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
               G L+     +   E M++ AR K GWI +E++A
Sbjct: 521 INHSGVLTPFDLSRVDAEQMVLAARLKAGWITEEELA 557


>gi|17988250|ref|NP_540884.1| transcription elongation factor NusA [Brucella melitensis bv. 1
           str. 16M]
 gi|23503011|ref|NP_699138.1| transcription elongation factor NusA [Brucella suis 1330]
 gi|62291000|ref|YP_222793.1| transcription elongation factor NusA [Brucella abortus bv. 1 str.
           9-941]
 gi|82700909|ref|YP_415483.1| transcription elongation factor NusA [Brucella melitensis biovar
           Abortus 2308]
 gi|148559551|ref|YP_001259957.1| transcription elongation factor NusA [Brucella ovis ATCC 25840]
 gi|161620071|ref|YP_001593958.1| transcription elongation factor NusA [Brucella canis ATCC 23365]
 gi|189025212|ref|YP_001935980.1| transcription elongation factor NusA [Brucella abortus S19]
 gi|254690294|ref|ZP_05153548.1| transcription elongation factor NusA [Brucella abortus bv. 6 str.
           870]
 gi|254694782|ref|ZP_05156610.1| transcription elongation factor NusA [Brucella abortus bv. 3 str.
           Tulya]
 gi|254696410|ref|ZP_05158238.1| transcription elongation factor NusA [Brucella abortus bv. 2 str.
           86/8/59]
 gi|254705161|ref|ZP_05166989.1| transcription elongation factor NusA [Brucella suis bv. 3 str. 686]
 gi|254707321|ref|ZP_05169149.1| transcription elongation factor NusA [Brucella pinnipedialis
           M163/99/10]
 gi|254709137|ref|ZP_05170948.1| transcription elongation factor NusA [Brucella pinnipedialis B2/94]
 gi|254731323|ref|ZP_05189901.1| transcription elongation factor NusA [Brucella abortus bv. 4 str.
           292]
 gi|256030662|ref|ZP_05444276.1| transcription elongation factor NusA [Brucella pinnipedialis
           M292/94/1]
 gi|256045766|ref|ZP_05448644.1| transcription elongation factor NusA [Brucella melitensis bv. 1
           str. Rev.1]
 gi|256060123|ref|ZP_05450305.1| transcription elongation factor NusA [Brucella neotomae 5K33]
 gi|256112485|ref|ZP_05453406.1| transcription elongation factor NusA [Brucella melitensis bv. 3
           str. Ether]
 gi|256158664|ref|ZP_05456547.1| transcription elongation factor NusA [Brucella ceti M490/95/1]
 gi|256254068|ref|ZP_05459604.1| transcription elongation factor NusA [Brucella ceti B1/94]
 gi|256258547|ref|ZP_05464083.1| transcription elongation factor NusA [Brucella abortus bv. 9 str.
           C68]
 gi|256370558|ref|YP_003108069.1| transcription elongation factor NusA [Brucella microti CCM 4915]
 gi|260169566|ref|ZP_05756377.1| transcription elongation factor NusA [Brucella sp. F5/99]
 gi|260546263|ref|ZP_05822003.1| ribosomal protein S1 [Brucella abortus NCTC 8038]
 gi|260563062|ref|ZP_05833548.1| ribosomal protein S1 [Brucella melitensis bv. 1 str. 16M]
 gi|260755834|ref|ZP_05868182.1| transcription elongation factor NusA [Brucella abortus bv. 6 str.
           870]
 gi|260759057|ref|ZP_05871405.1| transcription elongation factor NusA [Brucella abortus bv. 4 str.
           292]
 gi|260760782|ref|ZP_05873125.1| transcription elongation factor NusA [Brucella abortus bv. 2 str.
           86/8/59]
 gi|260884859|ref|ZP_05896473.1| transcription elongation factor NusA [Brucella abortus bv. 9 str.
           C68]
 gi|261215109|ref|ZP_05929390.1| transcription elongation factor NusA [Brucella abortus bv. 3 str.
           Tulya]
 gi|261221209|ref|ZP_05935490.1| transcription elongation factor NusA [Brucella ceti B1/94]
 gi|261314803|ref|ZP_05954000.1| transcription elongation factor NusA [Brucella pinnipedialis
           M163/99/10]
 gi|261316637|ref|ZP_05955834.1| transcription elongation factor NusA [Brucella pinnipedialis B2/94]
 gi|261324100|ref|ZP_05963297.1| transcription elongation factor NusA [Brucella neotomae 5K33]
 gi|261755866|ref|ZP_05999575.1| transcription elongation factor NusA [Brucella suis bv. 3 str. 686]
 gi|261759094|ref|ZP_06002803.1| ribosomal protein S1 [Brucella sp. F5/99]
 gi|265987709|ref|ZP_06100266.1| transcription elongation factor NusA [Brucella pinnipedialis
           M292/94/1]
 gi|265992183|ref|ZP_06104740.1| transcription elongation factor NusA [Brucella melitensis bv. 1
           str. Rev.1]
 gi|265993921|ref|ZP_06106478.1| transcription elongation factor NusA [Brucella melitensis bv. 3
           str. Ether]
 gi|265997170|ref|ZP_06109727.1| transcription elongation factor NusA [Brucella ceti M490/95/1]
 gi|297247386|ref|ZP_06931104.1| transcription termination protein NusA [Brucella abortus bv. 5 str.
           B3196]
 gi|17984018|gb|AAL53148.1| n utilization substance protein a [Brucella melitensis bv. 1 str.
           16M]
 gi|23349051|gb|AAN31053.1| N utilization substance protein A [Brucella suis 1330]
 gi|62197132|gb|AAX75432.1| MusA, N utilization substance protein A [Brucella abortus bv. 1
           str. 9-941]
 gi|82617010|emb|CAJ12119.1| Ribosomal protein S1:RNA binding S1:KH domain:KH domain, type 1
           [Brucella melitensis biovar Abortus 2308]
 gi|148370808|gb|ABQ60787.1| N utilization substance protein A [Brucella ovis ATCC 25840]
 gi|161336882|gb|ABX63187.1| transcription termination factor NusA [Brucella canis ATCC 23365]
 gi|189020784|gb|ACD73506.1| Ribosomal protein S1 [Brucella abortus S19]
 gi|256000721|gb|ACU49120.1| transcription elongation factor NusA [Brucella microti CCM 4915]
 gi|260096370|gb|EEW80246.1| ribosomal protein S1 [Brucella abortus NCTC 8038]
 gi|260153078|gb|EEW88170.1| ribosomal protein S1 [Brucella melitensis bv. 1 str. 16M]
 gi|260669375|gb|EEX56315.1| transcription elongation factor NusA [Brucella abortus bv. 4 str.
           292]
 gi|260671214|gb|EEX58035.1| transcription elongation factor NusA [Brucella abortus bv. 2 str.
           86/8/59]
 gi|260675942|gb|EEX62763.1| transcription elongation factor NusA [Brucella abortus bv. 6 str.
           870]
 gi|260874387|gb|EEX81456.1| transcription elongation factor NusA [Brucella abortus bv. 9 str.
           C68]
 gi|260916716|gb|EEX83577.1| transcription elongation factor NusA [Brucella abortus bv. 3 str.
           Tulya]
 gi|260919793|gb|EEX86446.1| transcription elongation factor NusA [Brucella ceti B1/94]
 gi|261295860|gb|EEX99356.1| transcription elongation factor NusA [Brucella pinnipedialis B2/94]
 gi|261300080|gb|EEY03577.1| transcription elongation factor NusA [Brucella neotomae 5K33]
 gi|261303829|gb|EEY07326.1| transcription elongation factor NusA [Brucella pinnipedialis
           M163/99/10]
 gi|261739078|gb|EEY27074.1| ribosomal protein S1 [Brucella sp. F5/99]
 gi|261745619|gb|EEY33545.1| transcription elongation factor NusA [Brucella suis bv. 3 str. 686]
 gi|262551638|gb|EEZ07628.1| transcription elongation factor NusA [Brucella ceti M490/95/1]
 gi|262764902|gb|EEZ10823.1| transcription elongation factor NusA [Brucella melitensis bv. 3
           str. Ether]
 gi|263003249|gb|EEZ15542.1| transcription elongation factor NusA [Brucella melitensis bv. 1
           str. Rev.1]
 gi|264659906|gb|EEZ30167.1| transcription elongation factor NusA [Brucella pinnipedialis
           M292/94/1]
 gi|297174555|gb|EFH33902.1| transcription termination protein NusA [Brucella abortus bv. 5 str.
           B3196]
          Length = 537

 Score =  707 bits (1824), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 341/517 (65%), Positives = 423/517 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR++VL+ MAD+IQKAARS YG  S+IR +IN ++G+I 
Sbjct: 3   VSANRLELLQIADAVAREKSIDREIVLAAMADAIQKAARSRYGQESNIRADINAKSGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE VE+Y  QISL +ARDR+P   +G  ++D LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVENVEDYATQISLFMARDRNPDAQVGDFIADQLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD+VGEI++GTVKRVEYGNVIVDLG  + ++RRDE I RE  R GDR
Sbjct: 123 VREAERDRQYDEYKDRVGEIVNGTVKRVEYGNVIVDLGRGEAIVRRDELIPREAFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++Y+YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAYVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+A+F++NAL+PA V KVVL
Sbjct: 243 VSRDASIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAASFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER+  
Sbjct: 303 DEDAERIEVVVPNDQLSLAIGRRGQNVRLASQLTGWDIDILTEDEESERRQKEFAERSNL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+NVDE++  +L +EGFA VEELA V   EI+SI+GFDE+TA EIQ RAREYLE I+
Sbjct: 363 FMEALNVDEMVGQVLASEGFASVEELAYVDAGEISSIDGFDEDTAGEIQDRAREYLERIE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                + +ELGV++EL  +PG+ + + VA+GE+G+KTMED AG +VDDL+GW E K G+ 
Sbjct: 423 AEQDARRKELGVADELRELPGMTTAMLVAVGEDGVKTMEDFAGYAVDDLVGWRERKDGDT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
               G L+     +   E M++ AR K GWI +E++A
Sbjct: 483 INHSGVLTPFDLSRVDAEQMVLAARLKAGWITEEELA 519


>gi|163844176|ref|YP_001628581.1| transcription elongation factor NusA [Brucella suis ATCC 23445]
 gi|163674899|gb|ABY39010.1| transcription termination factor NusA [Brucella suis ATCC 23445]
          Length = 537

 Score =  705 bits (1819), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 341/517 (65%), Positives = 423/517 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR++VL+ MAD+IQKAARS YG  S+IR +IN ++G+I 
Sbjct: 3   VSANRLELLQIADAVAREKSIDREIVLAAMADAIQKAARSRYGQESNIRADINAKSGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE VE+Y  QISL +ARDR+P   +G  ++D LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVENVEDYATQISLFMARDRNPDAQVGDFIADQLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD+VGEI++GTVKRVEYGNVIVDLG  + ++RRDE I RE  R GDR
Sbjct: 123 VREAERDRQYDEYKDRVGEIVNGTVKRVEYGNVIVDLGRGEAIVRRDELIPREAFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++Y+YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAYVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSP +A+F++NAL+PA VTKVVL
Sbjct: 243 VSRDASIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPVAASFIVNALQPAEVTKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER+  
Sbjct: 303 DEDAERIEVVVPNDQLSLAIGRRGQNVRLASQLTGWDIDILTEDEESERRQKEFAERSNL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+NVDE++  +L +EGFA VEELA V   EI+SI+GFDE+TA EIQ RAREYLE I+
Sbjct: 363 FMEALNVDEMVGQVLASEGFASVEELAYVDAGEISSIDGFDEDTAGEIQDRAREYLERIE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                + +ELGV++EL  +PG+ + + VA+GE+G+KTMED AG +VDDL+GW E K G+ 
Sbjct: 423 AEQDARRKELGVADELRELPGMTTAMLVAVGEDGVKTMEDFAGYAVDDLVGWRERKDGDT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
               G L+     +   E M++ AR K GWI +E++A
Sbjct: 483 INHSGVLTPFDLSRVDAEQMVLAARLKAGWITEEELA 519


>gi|254713438|ref|ZP_05175249.1| transcription elongation factor NusA [Brucella ceti M644/93/1]
 gi|254716206|ref|ZP_05178017.1| transcription elongation factor NusA [Brucella ceti M13/05/1]
 gi|261217980|ref|ZP_05932261.1| transcription elongation factor NusA [Brucella ceti M13/05/1]
 gi|261321170|ref|ZP_05960367.1| transcription elongation factor NusA [Brucella ceti M644/93/1]
 gi|260923069|gb|EEX89637.1| transcription elongation factor NusA [Brucella ceti M13/05/1]
 gi|261293860|gb|EEX97356.1| transcription elongation factor NusA [Brucella ceti M644/93/1]
          Length = 537

 Score =  704 bits (1818), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 340/517 (65%), Positives = 422/517 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR++VL+ MAD+IQKAARS YG  S+IR +IN ++G+I 
Sbjct: 3   VSANRLELLQIADAVAREKSIDREIVLAAMADAIQKAARSRYGQESNIRADINAKSGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE VE+Y  QISL +ARDR+P   +G  ++D LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVENVEDYATQISLFMARDRNPDAQVGDFIADQLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD+VGEI++GTVKRVEYGNVIVDLG  + ++RRDE I RE  R GDR
Sbjct: 123 VREAERDRQYDEYKDRVGEIVNGTVKRVEYGNVIVDLGRGEAIVRRDELIPREAFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++Y+YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAYVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+A+F++NAL+PA V KVVL
Sbjct: 243 VSRDASIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAASFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER+  
Sbjct: 303 DEDAERIEVVVPNDQLSLAIGRRGQNVRLASQLTGWDIDILTEDEESERRQKEFAERSNL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+NVDE++  +L +EGFA VEELA V   EI+SI+GFDE+TA EIQ RAREYLE I+
Sbjct: 363 FMEALNVDEMVGQVLASEGFASVEELAYVDAGEISSIDGFDEDTAGEIQDRAREYLERIE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                + +ELGV++EL  +PG+ + + VA+GE+G+KT ED AG +VDDL+GW E K G+ 
Sbjct: 423 AEQDARRKELGVADELRELPGMTTAMLVAVGEDGVKTKEDFAGYAVDDLVGWRERKDGDT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
               G L+     +   E M++ AR K GWI +E++A
Sbjct: 483 INHSGVLTPFDLSRVDAEQMVLAARLKAGWITEEELA 519


>gi|260567370|ref|ZP_05837840.1| ribosomal protein S1 [Brucella suis bv. 4 str. 40]
 gi|260156888|gb|EEW91968.1| ribosomal protein S1 [Brucella suis bv. 4 str. 40]
          Length = 537

 Score =  704 bits (1818), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 340/517 (65%), Positives = 422/517 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR++VL+ MAD+IQKAARS YG  S+IR +IN ++G+I 
Sbjct: 3   VSANRLELLQIADAVAREKSIDREIVLAAMADAIQKAARSRYGQESNIRADINAKSGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE VE+Y  QISL +ARDR+P   +G  ++D LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVENVEDYATQISLFMARDRNPDAQVGDFIADQLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD+VGEI++GTVKRVEYGNVIVDLG  + ++RRDE I RE  R GDR
Sbjct: 123 VREAERDRQYDEYKDRVGEIVNGTVKRVEYGNVIVDLGRGEAIVRRDELIPREAFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++Y+YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAYVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRG RVQAVV EL+ EKIDI+ WSPD+A+F++NAL+PA V KVVL
Sbjct: 243 VSRDASIDPVGACVGMRGFRVQAVVAELQGEKIDIIPWSPDAASFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER+  
Sbjct: 303 DEDAERIEVVVPNDQLSLAIGRRGQNVRLASQLTGWDIDILTEDEESERRQKEFAERSNL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+NVDE++  +L +EGFA VEELA V   EI+SI+GFDE+TA EIQ RAREYLE I+
Sbjct: 363 FMEALNVDEMVGQVLASEGFASVEELAYVDAGEISSIDGFDEDTAGEIQDRAREYLERIE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                + +ELGV++EL  +PG+ + + VA+GE+G+KTMED AG +VDDL+GW E K G+ 
Sbjct: 423 AEQDARRKELGVADELRELPGMTTAMLVAVGEDGVKTMEDFAGYAVDDLVGWRERKDGDT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
               G L+     +   E M++ AR K GWI +E++A
Sbjct: 483 INHSGVLTPFDLSRVDAEQMVLAARLKAGWITEEELA 519


>gi|328545919|ref|YP_004306028.1| transcription elongation protein (N utilization substance protein
           A) (L factor) [polymorphum gilvum SL003B-26A1]
 gi|326415659|gb|ADZ72722.1| Putative transcription elongation protein (N utilization substance
           protein A) (L factor) [Polymorphum gilvum SL003B-26A1]
          Length = 544

 Score =  704 bits (1817), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 340/526 (64%), Positives = 425/526 (80%), Gaps = 2/526 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIADAVA EKSIDR +V++ M D+IQKAARS YGT +++R EIN +TG+I 
Sbjct: 3   ISANRLELLQIADAVAREKSIDRGIVIAAMEDAIQKAARSRYGTETEVRAEINSKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL+VVE VEN + +ISL  A+ R+P   +G  +++PLPP+DFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLQVVETVENVSTEISLADAKARNPEATLGDFIAEPLPPLDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++GEI++G VKR EYGNVIVDLG  +G++RRDE I RE  R GDR
Sbjct: 123 VREAERDRQYDEFKDRIGEIVNGVVKRAEYGNVIVDLGRGEGIVRRDELIPREIFRTGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++YIYDVRREQRGPQ+ LSRTHPQFM KLF  EVPEIY+G++++KAV+RDPGSRAK+AV
Sbjct: 183 IRAYIYDVRREQRGPQIFLSRTHPQFMAKLFAQEVPEIYDGVIEIKAVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+PD+ATF++NAL+PA V KVVL
Sbjct: 243 ISKDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWNPDAATFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER+  
Sbjct: 303 DEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWAIDIMTEQEESERRQKEFQERSTL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+NVDE++  LL  EGF  VEE+A V + EIA IEGFDE+TA EIQ RAR+YL  ++
Sbjct: 363 FMEALNVDEMVGQLLATEGFTSVEEVAYVDLEEIAMIEGFDEDTAEEIQARARDYLAELE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L  + RELGV +EL SI G+ + + VALG++G+KT+EDLAGC+ DDL+GW+E K G  
Sbjct: 423 AKLDDERRELGVQDELRSIDGLTTAMLVALGKDGVKTIEDLAGCATDDLVGWTERKEGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADE--EVQDA 525
            + DG LS     +   E+MI+ AR   GWI +E++A++  E+ DA
Sbjct: 483 IRHDGALSGFDVSRADAEAMILAARLAAGWITEEELANQNDEIGDA 528


>gi|153008085|ref|YP_001369300.1| transcription elongation factor NusA [Ochrobactrum anthropi ATCC
           49188]
 gi|151559973|gb|ABS13471.1| NusA antitermination factor [Ochrobactrum anthropi ATCC 49188]
          Length = 535

 Score =  703 bits (1815), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 342/517 (66%), Positives = 419/517 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR++VL+ MAD+IQKAARS YG  S+IR +IN ++G+I 
Sbjct: 3   VSANRLELLQIADAVAREKSIDREIVLAAMADAIQKAARSRYGQESNIRADINAKSGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE VE+Y  QISL  ARDR+P   +G  ++D LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVEHVEDYATQISLFTARDRNPDAQVGDFIADQLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD+VGEI++GTVKRVEYGNVIVDLG  + ++RRDE I RE  R GDR
Sbjct: 123 VREAERDRQYDEYKDRVGEIVNGTVKRVEYGNVIVDLGRGEAIVRRDELIPREAFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++Y+YDVRREQRGPQ+ LSRTHP FM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAYVYDVRREQRGPQIFLSRTHPSFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+A+F++NAL+PA V KVVL
Sbjct: 243 VSRDASIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSPDAASFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER+  
Sbjct: 303 DEDAERIEVVVPNDQLSLAIGRRGQNVRLASQLTGWDIDILTEDEESERRQKEFTERSTL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM A+NVDE++  +L +EGFA VEELA V+  EIASI+GFDE+TA EIQ RAREYL+ I+
Sbjct: 363 FMDALNVDEMVGQVLASEGFASVEELAYVEPGEIASIDGFDEDTAGEIQERAREYLDRIE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                + +ELGV +EL  +PGI + + VA+GE+G+KTMED AG +VDDL+GW E K G  
Sbjct: 423 SEQDDRRKELGVEDELRELPGITTAMLVAVGEDGVKTMEDFAGYAVDDLVGWRERKDGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
               G  SS    +   E M++ AR K GWI +E++A
Sbjct: 483 VAHSGIFSSFDVSRVDAEQMVLTARLKAGWITEEELA 519


>gi|225853588|ref|YP_002733821.1| transcription elongation factor NusA [Brucella melitensis ATCC
           23457]
 gi|256262928|ref|ZP_05465460.1| ribosomal protein S1 [Brucella melitensis bv. 2 str. 63/9]
 gi|225641953|gb|ACO01867.1| transcription termination factor NusA [Brucella melitensis ATCC
           23457]
 gi|263092802|gb|EEZ16977.1| ribosomal protein S1 [Brucella melitensis bv. 2 str. 63/9]
 gi|326410161|gb|ADZ67226.1| transcription elongation factor NusA [Brucella melitensis M28]
 gi|326539879|gb|ADZ88094.1| transcription termination factor NusA [Brucella melitensis M5-90]
          Length = 537

 Score =  702 bits (1812), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 339/517 (65%), Positives = 421/517 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR++VL+ MAD+IQKAARS YG  S+IR +IN ++G+I 
Sbjct: 3   VSANRLELLQIADAVAREKSIDREIVLAAMADAIQKAARSRYGQESNIRADINAKSGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE VE+Y  QISL +ARDR+P   +G  ++D LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVENVEDYATQISLFMARDRNPDAQVGDFIADQLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD+VGEI++GTVKRVEYGNVIVDLG  + ++RRDE I RE  R GDR
Sbjct: 123 VREAERDRQYDEYKDRVGEIVNGTVKRVEYGNVIVDLGRGEAIVRRDELIPREAFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++Y+YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAYVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+A+F++NAL+PA V KVVL
Sbjct: 243 VSRDASIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAASFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLA QLTGW IDI+TE+E+S  R K+F ER+  
Sbjct: 303 DEDAERIEVVVPNDQLSLAIGRRGQNVRLALQLTGWDIDILTEDEESERRHKEFAERSNL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+NVDE++  +L +EGFA VEELA V   EI+SI+GFDE+TA EIQ RAREYLE I+
Sbjct: 363 FMEALNVDEMVGQVLASEGFASVEELAYVDAGEISSIDGFDEDTAGEIQDRAREYLERIE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                + +ELGV++EL  +PG+ + + VA+GE+G+KTMED AG +VDDL+GW E K G+ 
Sbjct: 423 AEQDARRKELGVADELRELPGMTTAMLVAVGEDGVKTMEDFAGYAVDDLVGWRERKDGDT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
               G L+     +   E M++ AR K GWI +E++A
Sbjct: 483 INHSGVLTPFDLSRVDAEQMVLAARLKAGWITEEELA 519


>gi|294851387|ref|ZP_06792060.1| N utilization substance protein A [Brucella sp. NVSL 07-0026]
 gi|294819976|gb|EFG36975.1| N utilization substance protein A [Brucella sp. NVSL 07-0026]
          Length = 591

 Score =  701 bits (1809), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 339/517 (65%), Positives = 422/517 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR++VL+ MAD+IQKAARS YG  S+IR +IN ++G+I 
Sbjct: 57  VSANRLELLQIADAVAREKSIDREIVLAAMADAIQKAARSRYGQESNIRADINAKSGEIK 116

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE VE+Y  QISL +ARDR+P   +G  ++D LPPMDFGR+A QSAKQVI+QK
Sbjct: 117 LQRLLEVVENVEDYATQISLFMARDRNPDAQVGDFIADQLPPMDFGRIAAQSAKQVIVQK 176

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD+VGEI++GTVKRVEYGNVIVDLG  + ++RRDE I RE  R GDR
Sbjct: 177 VREAERDRQYDEYKDRVGEIVNGTVKRVEYGNVIVDLGRGEAIVRRDELIPREAFRYGDR 236

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++Y+YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 237 IRAYVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 296

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+A+ ++NAL+PA V KVVL
Sbjct: 297 VSRDASIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAASVIVNALQPAEVAKVVL 356

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER+  
Sbjct: 357 DEDAERIEVVVPNDQLSLAIGRRGQNVRLASQLTGWDIDILTEDEESERRQKEFAERSNL 416

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+NVDE++  +L +EGFA VEELA V   EI+SI+GFD++TA EIQ RAREYLE I+
Sbjct: 417 FMEALNVDEMVGQVLASEGFASVEELAYVDAGEISSIDGFDKDTAGEIQDRAREYLERIE 476

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                + +ELGV++EL  +PG+ + + VA+GE+G+KTMED AG +VDDL+GW E K G+ 
Sbjct: 477 AEQDARRKELGVADELRELPGMTTAMLVAVGEDGVKTMEDFAGYAVDDLVGWRERKDGDT 536

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
               G L+     +   E M++ AR K GWI +E++A
Sbjct: 537 INHSGVLTPFDLSRVDAEQMVLAARLKAGWITEEELA 573


>gi|319779771|ref|YP_004139247.1| transcription termination factor NusA [Mesorhizobium ciceri biovar
           biserrulae WSM1271]
 gi|317165659|gb|ADV09197.1| transcription termination factor NusA [Mesorhizobium ciceri biovar
           biserrulae WSM1271]
          Length = 531

 Score =  699 bits (1804), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 335/522 (64%), Positives = 423/522 (81%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           +VSANRLELLQIADAVA EKSID+ +V++ MAD+IQKAARS YG  ++IR +INP TG++
Sbjct: 2   VVSANRLELLQIADAVAREKSIDKSIVIAAMADAIQKAARSRYGQETNIRADINPNTGEM 61

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            L RL+EVVE+V++Y  QI++  AR+R+P   +G  +++ LPPMDFGR+A QSAKQVI+Q
Sbjct: 62  KLQRLMEVVEKVDDYATQIAISSARERNPDAQLGDFIAEQLPPMDFGRIAAQSAKQVIVQ 121

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVREAERDRQY E+KD++GEI++GTVKRVEYGNVIVDLG  + +IRRDE I REN + GD
Sbjct: 122 KVREAERDRQYDEYKDRIGEIVNGTVKRVEYGNVIVDLGRGEAIIRRDELIPRENYKYGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV++Y+YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+A
Sbjct: 182 RVRAYVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSP +A+F++NAL+PA V KVV
Sbjct: 242 VISRDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSPSAASFIVNALQPAEVAKVV 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F ER+ 
Sbjct: 302 LDEDAERIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESERRQKEFVERSS 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+A++VDE++  +L +EGF  VEE+A V   EIASI+GFDE+TA EIQ RAREYLE I
Sbjct: 362 LFMEALDVDEMVGQVLASEGFTSVEEVAYVDSGEIASIDGFDEDTASEIQTRAREYLEKI 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +     K + LGVS+EL  IPG+ + + V LGE+G+KT+ED AG + DDL GW E K G 
Sbjct: 422 EAEHDDKRKALGVSDELREIPGVTTAMMVTLGEDGVKTIEDFAGYAADDLTGWKERKDGE 481

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEV 522
            + + G L++ G  +   E M++ AR K GWI ++++A EEV
Sbjct: 482 TKVYPGVLANHGVTRADAEQMVLAARLKAGWITEDELAAEEV 523


>gi|114705359|ref|ZP_01438267.1| transcription elongation factor NusA [Fulvimarina pelagi HTCC2506]
 gi|114540144|gb|EAU43264.1| transcription elongation factor NusA [Fulvimarina pelagi HTCC2506]
          Length = 533

 Score =  697 bits (1799), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 338/517 (65%), Positives = 422/517 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK+IDR++V+  MAD+IQKAARS YG  ++IR +IN +TG++ 
Sbjct: 3   VSANRLELLQIADAVAREKTIDREIVIEAMADAIQKAARSRYGQETNIRCDINTKTGEMK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE+VE+   QI L++ARD++P  + G  +++ LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVEDVEDPATQIYLELARDKNPDAEPGDFIAEQLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERD QY E+KD+VGEII+G VKRVEYGNVIVDLG  + +IRRDE I RE  RPGDR
Sbjct: 123 VREAERDMQYDEYKDRVGEIINGQVKRVEYGNVIVDLGKGEAIIRRDEQIPRELYRPGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRRE RGPQ+ LSRTHPQFM KLF MEVPEIY+GI+ +K+V+RDPGSRAK+AV
Sbjct: 183 VRAYVYDVRREPRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIITLKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            SSDSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+A+F++NAL+PA V KVVL
Sbjct: 243 VSSDSSVDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSPDAASFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TEEE+S  RQK+FNER++ 
Sbjct: 303 DEDAERIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEEEESERRQKEFNERSEI 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+NVDE++  LL +EGFA VEE+A V   E++SIEGFDE+TA E+Q RARE+LE  +
Sbjct: 363 FMEALNVDEMVGQLLASEGFATVEEVAYVDAEEVSSIEGFDEDTAEELQSRAREFLERRE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                K  ELGV++EL  IPG+ +++ VALGE+G KT+ED AG +VDDL GW+E   G  
Sbjct: 423 AEFDAKRVELGVADELKQIPGLTTEMLVALGEDGTKTIEDFAGYAVDDLCGWTERSKGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
           ++F+G LS     +   E M+++AR K GWI +E +A
Sbjct: 483 KRFEGTLSKFDVSRADAEQMVLNARLKAGWITEEDLA 519


>gi|260461982|ref|ZP_05810227.1| NusA antitermination factor [Mesorhizobium opportunistum WSM2075]
 gi|259032229|gb|EEW33495.1| NusA antitermination factor [Mesorhizobium opportunistum WSM2075]
          Length = 531

 Score =  693 bits (1789), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 332/512 (64%), Positives = 416/512 (81%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           +VSANRLELLQIADAVA EKSID+ +V++ MAD+IQKAARS YG  ++IR +INP TG++
Sbjct: 2   VVSANRLELLQIADAVAREKSIDKSIVIAAMADAIQKAARSRYGQETNIRADINPNTGEM 61

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            L RL+EVVE+V++Y  QI++  AR+R+P   +G  +++ LPPMDFGR+A QSAKQVI+Q
Sbjct: 62  KLQRLMEVVEKVDDYATQIAISSARERNPDAQLGDFIAEQLPPMDFGRIAAQSAKQVIVQ 121

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVREAERDRQY E+KD++GEI++GTVKRVEYGNVIVDLG  + +IRRDE I REN + GD
Sbjct: 122 KVREAERDRQYDEYKDRIGEIVNGTVKRVEYGNVIVDLGRGEAIIRRDELIPRENYKYGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV++Y+YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+A
Sbjct: 182 RVRAYVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSP +A+F++NAL+PA V KVV
Sbjct: 242 VISRDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSPSAASFIVNALQPAEVAKVV 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F ER+ 
Sbjct: 302 LDEDAERIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESERRQKEFVERSA 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+A++VDE++  +L +EGF  VEE+A V   EIASI+GFDE+TA EIQ RAREYLE I
Sbjct: 362 LFMEALDVDEMVGQVLASEGFTSVEEVAYVDAGEIASIDGFDEDTASEIQTRAREYLEKI 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +     K + LGVS+EL  IPGI + + V LGE+G+KT+ED AG + DDL GW E K G 
Sbjct: 422 EAEHDDKRKALGVSDELREIPGITTAMMVTLGEDGVKTIEDFAGYAADDLTGWKERKDGE 481

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
            + + G L++ G  +   E M+++AR K GWI
Sbjct: 482 TKVYPGVLANHGVSRADAEQMVLNARLKAGWI 513


>gi|239833211|ref|ZP_04681540.1| transcription termination factor NusA [Ochrobactrum intermedium LMG
           3301]
 gi|239825478|gb|EEQ97046.1| transcription termination factor NusA [Ochrobactrum intermedium LMG
           3301]
          Length = 535

 Score =  693 bits (1789), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 336/511 (65%), Positives = 415/511 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR++VL+ MAD+IQKAARS YG  S+IR +IN ++G+I 
Sbjct: 3   VSANRLELLQIADAVAREKSIDREIVLAAMADAIQKAARSRYGQESNIRADINAKSGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE VE+Y  QISL  ARDR+P   IG  ++D LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVEHVEDYATQISLFTARDRNPDAQIGDFIADQLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD+VGEI++GTVKRVEYGNVIVDLG  + ++RRDE I RE  R GDR
Sbjct: 123 VREAERDRQYDEYKDRVGEIVNGTVKRVEYGNVIVDLGRGEAIVRRDELIPREAFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++Y+YDVRREQRGPQ+ LSRTHP FM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAYVYDVRREQRGPQIFLSRTHPSFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+A+F++NAL+PA V KVVL
Sbjct: 243 VSRDASIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSPDAASFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER+  
Sbjct: 303 DEDAERIEVVVPNDQLSLAIGRRGQNVRLASQLTGWDIDILTEDEESERRQKEFAERSTL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A++VDE++  +L +EGFA +EELA V+  EIASI+GFD++TA EIQ RAREYL+ I+
Sbjct: 363 FMEALDVDEMVGQVLASEGFASIEELAYVEPGEIASIDGFDDDTAGEIQERAREYLDRIE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                + +ELGV++EL  +PGI + + VA+GE+G+KT+ED AG +VDDL+GW E K G  
Sbjct: 423 SEQDNRRKELGVADELRELPGITTAMLVAVGEDGVKTIEDFAGYAVDDLVGWRERKDGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
               G  S     +   E M++ AR K GWI
Sbjct: 483 VAHSGIFSPFDVSRVDAEQMVLTARLKAGWI 513


>gi|319408013|emb|CBI81667.1| transcription elongation protein [Bartonella schoenbuchensis R1]
          Length = 537

 Score =  692 bits (1787), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 333/511 (65%), Positives = 421/511 (82%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIADAVA EKSIDR++V+S MAD+IQKAARS YG  ++IR EIN +TG+I 
Sbjct: 3   ISANRLELLQIADAVAREKSIDREIVISAMADAIQKAARSRYGQETNIRAEINSKTGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL+VV+ VE+YT +I+L  A      I IG    DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLQVVDIVEDYTNEIALSDALKHQVDIKIGDFFCDPLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AERD+Q+ EFK+KVGEIISGTVKRVEYGNVIVDLG  + +IRRDE I RE+   GDR
Sbjct: 123 VRDAERDQQFEEFKNKVGEIISGTVKRVEYGNVIVDLGRGEAIIRRDELIPRESFHYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++++ DV REQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAFVNDVHREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+ATF++NAL+PA V+KVVL
Sbjct: 243 VSRDGSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAATFIVNALQPAEVSKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW+IDI+TE+E+S NRQK+FNER++ 
Sbjct: 303 DEDAERIEVVVPDDQLSLAIGRRGQNVRLASQLTGWSIDILTEQEESENRQKEFNERSKL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM++++VDE++  ++ +EGFA +EE+A V + EIASI+GFD ETA EIQ RAREYLE  +
Sbjct: 363 FMESLDVDEMVGQVMASEGFASIEEIAYVDLEEIASIDGFDNETASEIQSRAREYLERKE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L +K ++LGV++EL S+PG+ + + VA+GE+GIKT++D AG +VDDL+GW E KGG +
Sbjct: 423 KELDEKRKKLGVADELRSLPGMTNAMLVAIGEDGIKTIDDFAGYAVDDLIGWRERKGGQV 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
           + F G L+     +   E+MI+ AR + GWI
Sbjct: 483 QNFSGILTPFDITRTDAEAMILAARVQAGWI 513


>gi|90420533|ref|ZP_01228440.1| transcription termination/elongation factor nusA [Aurantimonas
           manganoxydans SI85-9A1]
 gi|90335261|gb|EAS49014.1| transcription termination/elongation factor nusA [Aurantimonas
           manganoxydans SI85-9A1]
          Length = 537

 Score =  692 bits (1785), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 337/517 (65%), Positives = 420/517 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR++V+  MAD+IQKAARS YG  ++IRV+IN +TG++ 
Sbjct: 3   VSANRLELLQIADAVAREKSIDREIVIGAMADAIQKAARSRYGQETNIRVDINQKTGEMK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVV+EVE+   QI L +ARD++P  + G  +++ LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVDEVEDPNTQIYLDLARDKNPDAEPGDFIAEQLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AERDRQY E+KD+VGEI++GTVKRVEYGNVIVDLG  +G+IRRDE I RE  R GDR
Sbjct: 123 VRDAERDRQYDEYKDRVGEIVNGTVKRVEYGNVIVDLGRGEGIIRRDEQIPRELFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++++YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+ +KAV+RDPGSRAK+AV
Sbjct: 183 VRAFVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIITIKAVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            SSDSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+A+F++NAL+PA V KVVL
Sbjct: 243 TSSDSSVDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSPDAASFLVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER++ 
Sbjct: 303 DEDAERIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEQEESERRQKEFAERSET 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM A+NVDE++  +L +EGFA VEE+A V   E+A+IEGFD+ETA EIQ RARE+LE  +
Sbjct: 363 FMNALNVDEMVGQVLASEGFATVEEIAYVDQDEVAAIEGFDDETASEIQERAREFLERRE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                K  ELGVS++L  I G+ + + VALGE+G+KTMED AGC+ DDL+GW+E K G  
Sbjct: 423 AEFDAKRVELGVSDDLRQINGVTTPMLVALGEDGVKTMEDFAGCAADDLIGWTERKDGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
            +F G LS+    +   + M++ AR   GWI +  +A
Sbjct: 483 TRFPGALSAFDVSRADADQMVLQARLIAGWITEADLA 519


>gi|182678035|ref|YP_001832181.1| NusA antitermination factor [Beijerinckia indica subsp. indica ATCC
           9039]
 gi|182633918|gb|ACB94692.1| NusA antitermination factor [Beijerinckia indica subsp. indica ATCC
           9039]
          Length = 538

 Score =  691 bits (1784), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 337/534 (63%), Positives = 415/534 (77%), Gaps = 9/534 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR +VL+ M D+IQKAARS YG  +++R EINP+TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKSIDRQIVLASMEDAIQKAARSRYGQETEVRAEINPKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             RLL VV+E++N   QI+L  AR ++P+ ++G  +++ LPP DFGR+A QSAKQVI+QK
Sbjct: 63  FSRLLHVVDEIDNDAVQITLAEARKKNPAAELGDWIAETLPPFDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD++G+I++G VKRVEYGNVI+DLG  +  IRRDE I RE  RPGDR
Sbjct: 123 VREAERDRQYQEYKDRIGDIVNGVVKRVEYGNVIIDLGRGEATIRRDEMIPREVFRPGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRREQRGPQ+ LSRTHPQFM KLF  EVPEIY+G+++VKAV+RDPGSRAK+AV
Sbjct: 183 VRAYVYDVRREQRGPQIFLSRTHPQFMAKLFRQEVPEIYDGVIEVKAVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+ATF++NAL+PA V KVVL
Sbjct: 243 ISRDTSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDAATFIVNALQPAEVVKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F ERT  
Sbjct: 303 DEDSARIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESARRQKEFTERTAM 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM A++VDE++  LL +EGF  VEELA V+ SE+A IEGFDEETA EIQ RA  YL  I+
Sbjct: 363 FMGALDVDEVVGQLLASEGFRSVEELAFVEPSELAVIEGFDEETAAEIQARANAYLARIE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
              + + RELGVS++L  I G+ + + V  GEN IKT+EDLAGC+ DDL+GWSE K G  
Sbjct: 423 AEHETRRRELGVSDDLLEIDGLTNAMLVKFGENDIKTVEDLAGCATDDLVGWSERKDGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWI---------EKEKVADEEVQDAS 526
            +  G L      +++ E +I+ AR K GWI         E+E  A+ E Q  S
Sbjct: 483 TRHPGILDGFEVSREEAEGLIMKARVKAGWIDALPEASEPEQETFAEAETQSES 536


>gi|323136838|ref|ZP_08071919.1| NusA antitermination factor [Methylocystis sp. ATCC 49242]
 gi|322398155|gb|EFY00676.1| NusA antitermination factor [Methylocystis sp. ATCC 49242]
          Length = 532

 Score =  691 bits (1784), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 333/513 (64%), Positives = 414/513 (80%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLE+LQIADAVA EKSIDR +V++ M D++QKAARS YG  +++R EINP TG++ 
Sbjct: 3   VSANRLEILQIADAVAREKSIDRSIVIASMEDALQKAARSRYGQETEVRAEINPRTGEVR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             RLLEVV++VEN   QI+++ AR R+P+   G  +S+ LPP DFGR+A QSAKQ+I+QK
Sbjct: 63  FSRLLEVVDKVENDATQIAIEDARKRNPAAQAGDWISETLPPFDFGRIAAQSAKQIIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++GEI++G VKRVEYGNVI+DLG  +GVIRRDE I RE  RPGDR
Sbjct: 123 VREAERDRQYEEFKDRIGEIVNGVVKRVEYGNVIIDLGRGEGVIRRDEMIPREMFRPGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
            ++Y+YDVRREQRGPQ+ LSRTHPQFM KLF  EVPEIY+G+++VK+V+RDPGSRAK+AV
Sbjct: 183 ARAYVYDVRREQRGPQIFLSRTHPQFMAKLFKQEVPEIYDGVIEVKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGMRGSRVQAVV EL+ E+IDI+ WS D+ATF++NAL+PA V KVVL
Sbjct: 243 VSRDSSIDPVGACVGMRGSRVQAVVQELQGERIDIIPWSVDAATFIVNALQPAEVVKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F ERT  
Sbjct: 303 DEDSSRIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESERRQKEFVERTNT 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM AI+VDE++  LL +EGF  VE+LA V++SE+ASIEGFDE+TA EIQ RAR YL+ ++
Sbjct: 363 FMTAIDVDEVVGRLLASEGFRSVEDLAYVELSELASIEGFDEDTATEIQNRARAYLDKLE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
              + +  ELGVS+EL  I G+ + + V LGEN +KTMED AGC  DDL+GWSE K G  
Sbjct: 423 AENEARRVELGVSDELREIDGMTTAMMVRLGENDVKTMEDFAGCVPDDLVGWSEKKDGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
            K +GF   +   +++ E+MI+ AR ++GWIEK
Sbjct: 483 TKHEGFFEGIELSREEAEAMIMAARVRVGWIEK 515


>gi|13474627|ref|NP_106196.1| transcription elongation factor NusA [Mesorhizobium loti
           MAFF303099]
 gi|14025381|dbj|BAB51982.1| N utilization substance protein A [Mesorhizobium loti MAFF303099]
          Length = 531

 Score =  691 bits (1782), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 330/512 (64%), Positives = 416/512 (81%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           +VSANRLELLQIADAVA EKSID+ +V++ MAD+IQKAARS YG  ++IR +INP TG++
Sbjct: 2   VVSANRLELLQIADAVAREKSIDKSIVIAAMADAIQKAARSRYGQETNIRADINPNTGEM 61

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            L RL+EVVE+V++Y  QI++  AR+R+P   +G  +++ LPPMDFGR+A QSAKQVI+Q
Sbjct: 62  KLQRLMEVVEKVDDYATQIAISSARERNPDAQLGDFIAEQLPPMDFGRIAAQSAKQVIVQ 121

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVREAERDRQY E+KD++GEI++GTVKRVEYGNVIVDLG  + +IRRDE I REN + GD
Sbjct: 122 KVREAERDRQYDEYKDRIGEIVNGTVKRVEYGNVIVDLGRGEAIIRRDELIPRENYKYGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV++Y+YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+A
Sbjct: 182 RVRAYVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSP +A+F++NAL+PA V KVV
Sbjct: 242 VISRDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSPSAASFIVNALQPAEVAKVV 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F ER+ 
Sbjct: 302 LDEDAERIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESERRQKEFVERSA 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+A++VDE++  +L +EGF  VEE+A V   EIASI+GFD++TA EIQ RAREYLE I
Sbjct: 362 LFMEALDVDEMVGQVLASEGFTSVEEVAYVDAGEIASIDGFDDDTASEIQTRAREYLEKI 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +    +K + LGV +EL  IPGI + + V LGE+G+KT+ED AG + DDL GW E K G 
Sbjct: 422 EAEHDEKRKALGVKDELREIPGITTAMMVTLGEDGVKTIEDFAGYAADDLTGWKERKDGE 481

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
            + + G L++ G  +   E M+++AR K GWI
Sbjct: 482 TKVYPGVLANHGVSRADAEQMVLNARLKAGWI 513


>gi|254502609|ref|ZP_05114760.1| NusA N-terminal domain family [Labrenzia alexandrii DFL-11]
 gi|222438680|gb|EEE45359.1| NusA N-terminal domain family [Labrenzia alexandrii DFL-11]
          Length = 550

 Score =  690 bits (1781), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 333/517 (64%), Positives = 420/517 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIADAVA EKSIDR +V++ M D+IQKAARS YGT +++R EINP+TGDI 
Sbjct: 3   ISANRLELLQIADAVAREKSIDRMIVINAMEDAIQKAARSRYGTETEVRAEINPKTGDIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL+VVE VEN + +ISL  A  R+P   +G  +++PLPP+DFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLQVVETVENVSTEISLDDAAARNPEAGVGDFIAEPLPPLDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD+VGE+I+G VKR EYGNVIVDLG  +G++RRDE I RE  R GDR
Sbjct: 123 VREAERDRQYDEFKDRVGEVINGVVKRAEYGNVIVDLGRGEGIVRRDELIPREIFRTGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++ IYDVRREQRGPQ+ LSRTHPQFM KLF  EVPEIY+G++++K+V+RDPGSRAK+AV
Sbjct: 183 IRAIIYDVRREQRGPQIFLSRTHPQFMSKLFAQEVPEIYDGVIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ ++ATF++NAL+PA V KVVL
Sbjct: 243 ISKDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWNDEAATFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  R K+F ER+Q 
Sbjct: 303 DEDAERIEVVVPDDQLSLAIGRRGQNVRLASQLTGWAIDIMTEQEESERRSKEFQERSQL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM A+NVDE++  LL  EGF  VEE+A V+I EI+ IEGFD++TAVEIQ RAR++L  ++
Sbjct: 363 FMDALNVDEMVGQLLATEGFTSVEEVAYVEIEEISMIEGFDDDTAVEIQARARDFLNELE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L ++  ELGV +EL SI G+ S + VALG++ +KTMEDLAGC+ DDL+GW+E K G  
Sbjct: 423 AKLDEERIELGVLDELRSIDGLTSAMLVALGKDDVKTMEDLAGCAADDLVGWTERKDGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
           +++DG LS+    +   E+M++ AR   GWI +E++A
Sbjct: 483 KRYDGALSAYDVSRADAENMVMAARLAAGWITEEELA 519


>gi|110636252|ref|YP_676460.1| transcription elongation factor NusA [Mesorhizobium sp. BNC1]
 gi|110287236|gb|ABG65295.1| NusA antitermination factor [Chelativorans sp. BNC1]
          Length = 534

 Score =  689 bits (1779), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 335/514 (65%), Positives = 415/514 (80%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSID+ +V+  MAD+IQKAARS YG  ++IR +IN +TG++ 
Sbjct: 3   VSANRLELLQIADAVAREKSIDKTIVIQAMADAIQKAARSRYGQETNIRADINAQTGEMK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RL+EVVE VE    QIS+  AR R+P    G  +++ LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLMEVVENVEEPARQISIVDARTRNPDAQAGDFIAEQLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD+VGEI++GTVKRVEYGNVIVDLG  +G+IRRDE I RE+ + GDR
Sbjct: 123 VREAERDRQYEEYKDRVGEIVNGTVKRVEYGNVIVDLGRGEGIIRRDELIPRESFKYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 VRAYVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ ++A+F++NAL+PA V+KVVL
Sbjct: 243 ISHDSSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWNENAASFIVNALQPAEVSKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TEEE+S  RQK+F ER+  
Sbjct: 303 DEDAERIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEEEESQRRQKEFTERSNL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM A+NVDE++  +L +EGF  VEE+A V   EI+SI+GFDE+TA EIQ RAREYLE I+
Sbjct: 363 FMDALNVDEMVGQVLASEGFTSVEEIAYVDADEISSIDGFDEDTAEEIQARAREYLERIE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                K RELGVS++L  IPG+ + + V LGE+G+KT+ED AG +VDDL+GW E K G  
Sbjct: 423 AERDAKRRELGVSDDLREIPGMTTAMMVKLGEDGVKTIEDFAGYAVDDLVGWRERKDGEN 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
           + F G  S L   + + E M++ AR KMGWI ++
Sbjct: 483 KFFPGVFSDLDLSRAEAEQMVVAARLKMGWISED 516


>gi|118590498|ref|ZP_01547900.1| transcription elongation factor NusA [Stappia aggregata IAM 12614]
 gi|118436961|gb|EAV43600.1| transcription elongation factor NusA [Stappia aggregata IAM 12614]
          Length = 551

 Score =  687 bits (1773), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 328/511 (64%), Positives = 419/511 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIADAVA EKSIDR +V++ M D+IQKAARS YGT +++R EINP+TG+I 
Sbjct: 3   ISANRLELLQIADAVAREKSIDRMIVINAMEDAIQKAARSRYGTETEVRAEINPKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL+VV+ VEN +  ISL+ A+ R+P   IG  +++PLPP+DFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLQVVDSVENVSTDISLEDAQARNPEASIGDFIAEPLPPLDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD+VGE+++G VKR EYGNVIVDLG  +G++RRDE I RE  R GDR
Sbjct: 123 VREAERDRQYEEFKDRVGEVVNGVVKRAEYGNVIVDLGRGEGIVRRDELIPREIFRTGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++ IYDVRREQRGPQ+ LSRTHPQFM KLF  EVPEIY+G++++K+V+RDPGSRAK+AV
Sbjct: 183 IRAIIYDVRREQRGPQIFLSRTHPQFMAKLFAQEVPEIYDGVIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ ++ATF++NAL+PA V KVVL
Sbjct: 243 ISKDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWNEEAATFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER+Q 
Sbjct: 303 DEDAERIEVVVPDDQLSLAIGRRGQNVRLASQLTGWAIDIMTEQEESDRRQKEFLERSQL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+NVDE++  LL  EGF  VEE+A V++ EI+ IEGFD++TAVEIQ RAR+YL  ++
Sbjct: 363 FMEALNVDEMVGQLLATEGFTSVEEVAYVELDEISMIEGFDDDTAVEIQARARDYLAELE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L ++   LGV+++L SI G+ + + VALG++GIKTMEDLAGC+ DDL+GW+E K G  
Sbjct: 423 AKLDEERVSLGVADDLRSIDGLTTAMLVALGKDGIKTMEDLAGCAADDLVGWTERKDGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
           ++F+G LS     + + E++++ AR   GWI
Sbjct: 483 KRFEGALSEFDMSRAEAENVVMAARLAAGWI 513


>gi|319898339|ref|YP_004158432.1| transcription elongation protein [Bartonella clarridgeiae 73]
 gi|319402303|emb|CBI75842.1| transcription elongation protein [Bartonella clarridgeiae 73]
          Length = 536

 Score =  684 bits (1765), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 328/524 (62%), Positives = 423/524 (80%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIADAVA EKSIDR++V+S MAD+IQKAARS YG  ++IR EIN +TG+I 
Sbjct: 3   ISANRLELLQIADAVAREKSIDREIVISAMADAIQKAARSRYGQETNIRAEINSKTGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL+VV+ VE+YT +I+L  A  R     +G  +SD LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLKVVDIVEDYTTEIALSDALKRKKDAKVGDFLSDLLPPMDFGRIATQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+ Q+ EFK+K+GEIISGTVKRVEYGNVIVD+G  + ++RRDE I RE+ R GDR
Sbjct: 123 VRDAERNHQFEEFKNKIGEIISGTVKRVEYGNVIVDVGRGEAIVRRDELIPRESFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++++++DV RE RGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAFVHDVHREPRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+ATF++NAL+PA V+KVVL
Sbjct: 243 VSRDGSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAATFIVNALQPAEVSKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S NRQK+F ER++ 
Sbjct: 303 DEDAERIEVVVPDDQLSLAIGRRGQNVRLASQLTGWNIDILTEQEESENRQKEFTERSKL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+ ++VDE++  ++ +EGF  +EE+A V + EI SI+GFD +TA+EIQ RAREYLE  +
Sbjct: 363 FMETLDVDEMVGQVMASEGFTSIEEIAYVDLEEITSIDGFDHDTALEIQNRAREYLECKE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L +K ++LGVS+EL ++PG+ + + VALGE+GIKTMED AG +VDDL+GW E K G  
Sbjct: 423 KELNEKRKKLGVSDELQTLPGMTNAMLVALGEDGIKTMEDFAGYAVDDLVGWRECKEGQT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
           + F G L++    +   E+M++ AR + GWI +  +    V+DA
Sbjct: 483 QTFPGILTAFDITRADAETMVLAARVQAGWINQTDLPQHPVEDA 526


>gi|296448218|ref|ZP_06890114.1| transcription termination factor NusA [Methylosinus trichosporium
           OB3b]
 gi|296254258|gb|EFH01389.1| transcription termination factor NusA [Methylosinus trichosporium
           OB3b]
          Length = 555

 Score =  683 bits (1763), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 329/524 (62%), Positives = 418/524 (79%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLE+LQIADAVA EKSIDR +V++ M D++QKAARS YG  +++R EINP++G++ 
Sbjct: 3   VSANRLEILQIADAVAREKSIDRQIVIASMEDALQKAARSRYGQETEVRAEINPKSGEVR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             RLL VV+ V+N   QIS++ AR R+P+  +G  +S+ LPP DFGR+A QSAKQ+I+QK
Sbjct: 63  FSRLLLVVDLVDNDATQISIEDARKRNPAAQVGDWISETLPPFDFGRIAAQSAKQIIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++GEI++G VKRVEYGNVI+DLG  + +IRRDE I RE  RPGDR
Sbjct: 123 VREAERDRQYEEFKDRIGEIVNGVVKRVEYGNVIIDLGRGEAIIRRDEMIPRETFRPGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRREQRGPQ+ LSRTHPQFM KLF  EVPEIY+ +++VK+V+RDPGSRAK+AV
Sbjct: 183 VRAYVYDVRREQRGPQIFLSRTHPQFMAKLFRQEVPEIYDNVIEVKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGMRGSRVQAVV EL+ E+IDI+ WS D+ATF++NAL+PA V KVVL
Sbjct: 243 ISRDSSIDPVGACVGMRGSRVQAVVGELQGERIDIIPWSADAATFIVNALQPAEVVKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQ++F ERT+ 
Sbjct: 303 DEDTARIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESERRQREFIERTKV 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM AI+VDE++  LL +EGF  VE+LA V ++E+A+IEGFDE+TA EIQ RAR YLE ++
Sbjct: 363 FMNAIDVDEVVGRLLASEGFTSVEDLAFVDLAELATIEGFDEDTAAEIQNRARNYLERVE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
              + + +ELGV +EL  I GI + I V LGEN +K++EDLAGC  DDL+GW+E K G  
Sbjct: 423 AENEARRKELGVLDELKEIDGITTAIMVKLGENDVKSIEDLAGCVPDDLVGWTEKKNGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
            K  GFL  +   +++ E+MI+ AR + GWIE    A+E  ++A
Sbjct: 483 IKQTGFLDGVDISREEAEAMIMAARVRAGWIEAPAPAEESGEEA 526


>gi|307942744|ref|ZP_07658089.1| transcription elongation protein NusA [Roseibium sp. TrichSKD4]
 gi|307773540|gb|EFO32756.1| transcription elongation protein NusA [Roseibium sp. TrichSKD4]
          Length = 559

 Score =  683 bits (1762), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 332/517 (64%), Positives = 423/517 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIADAVA EKSIDR +V+S M D+IQKAARS YGT +++R EINP+TGDI 
Sbjct: 3   ISANRLELLQIADAVAREKSIDRTIVISAMEDAIQKAARSRYGTETEVRAEINPKTGDIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL+VVE VEN + +I+++ AR R+P   +G  ++DPLPP+DFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLQVVEVVENVSTEIAVEDARQRNPEAALGDFIADPLPPLDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD+VGE+I+G VKR EYGNVIVDLG ++ ++RRDE I RE  R GDR
Sbjct: 123 VREAERDRQYDEYKDRVGEVINGVVKRAEYGNVIVDLGRAEAIVRRDELIPREIFRTGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++YI+DVRREQRGPQ+ LSRTHPQFM KLF  EVPEIY+G+++++ V+RDPGSRAK+AV
Sbjct: 183 IRAYIHDVRREQRGPQIFLSRTHPQFMAKLFTSEVPEIYDGVIEIRTVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D ATF++NAL+PA V KVVL
Sbjct: 243 ISKDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWNEDPATFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER+Q 
Sbjct: 303 DEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWAIDIMTEQEESDRRQKEFVERSQL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM A+NVDE++  LL  EGF  VEE+A V++ EI+ IEGFD+ETA EIQ RAR+YLE ++
Sbjct: 363 FMDALNVDEMVGQLLATEGFTSVEEVAYVELDEISMIEGFDDETAEEIQARARDYLEELE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L  + +ELGVS++L SI G+   + VALG++ +K+MEDLAGC+ DDL+GW+E K G  
Sbjct: 423 AKLDAERQELGVSDDLRSIDGLTLAMMVALGKDDVKSMEDLAGCAADDLVGWTERKDGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
           ++++G LS+    + + E+M++ AR   GWI +E++A
Sbjct: 483 KRYEGALSAFDLSRAEAEAMVMAARVAAGWITEEELA 519


>gi|49475029|ref|YP_033070.1| transcription elongation factor NusA [Bartonella henselae str.
           Houston-1]
 gi|49237834|emb|CAF27029.1| N utilization substance protein A [Bartonella henselae str.
           Houston-1]
          Length = 528

 Score =  680 bits (1755), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 325/519 (62%), Positives = 418/519 (80%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
            SANRLE+LQIADAVA EKSIDR++V+S MAD+IQKAARS YG  ++IR EIN +TG+I 
Sbjct: 3   TSANRLEILQIADAVAREKSIDREIVISAMADAIQKAARSRYGQETNIRAEINSKTGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL++V+ +E+YT +I+L  A  R     +G   +D LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLKIVDIIEDYTSEITLSDALKRQADAKVGDFFADLLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER++QY EFK+K+GEIISGTVKRVEYGNVIVDLG  + ++RRDE I RE+ R GDR
Sbjct: 123 VRDAEREQQYEEFKNKIGEIISGTVKRVEYGNVIVDLGRGEAIVRRDELIPRESFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++++++DV RE RGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAFVHDVHREPRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+ATF++NAL+PA V+KVVL
Sbjct: 243 VSRDGSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAATFIVNALQPAEVSKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEVIVP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S NRQK+F ER++ 
Sbjct: 303 DEDAERIEVIVPDDQLSLAIGRRGQNVRLASQLTGWNIDILTEQEESENRQKEFTERSKL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM++++VDE+I  ++ +EGF+ +EE+A + + EIASI+GFD ETA EIQ RA+EYLE  +
Sbjct: 363 FMESLDVDEMIGQVMASEGFSSIEEIAYIDLEEIASIDGFDHETAAEIQNRAQEYLERKE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L +K ++LGV +EL  +PG+ S + VA+GE+G+KTMED AG +VDDL GW E K G  
Sbjct: 423 KELDEKRKKLGVCDELRMLPGMTSAMLVAIGEDGVKTMEDFAGYAVDDLAGWRERKEGQT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADE 520
           + F G L+     +   E+M++ AR + GWI +  +  E
Sbjct: 483 QNFSGILTPFDITRADAEAMVLAARVQAGWINQADLVTE 521


>gi|217978443|ref|YP_002362590.1| NusA antitermination factor [Methylocella silvestris BL2]
 gi|217503819|gb|ACK51228.1| NusA antitermination factor [Methylocella silvestris BL2]
          Length = 532

 Score =  680 bits (1754), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 327/512 (63%), Positives = 409/512 (79%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR +VLS M D+IQKAARS YG  +++R EINP+TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKSIDRQIVLSSMEDAIQKAARSRYGQETEVRAEINPKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             RLL VV+++EN    I+L+ AR ++P+  +G  +++ LPP DFGR+A QSAKQVI+QK
Sbjct: 63  FSRLLLVVDQIENDAIHITLEDARKKNPAAQVGDWIAETLPPFDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD++G+I++G VKRVEYGNVI+DLG  +  IRRDE I RE  RPGDR
Sbjct: 123 VREAERDRQYQEYKDRIGDIVNGVVKRVEYGNVIIDLGRGEATIRRDEMIPREMFRPGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
            ++Y+YDVRREQRGPQ+ LSRTHPQFM KLF  EVPEIY+ I+QVKAV+RDPGSRAK+AV
Sbjct: 183 ARAYVYDVRREQRGPQIFLSRTHPQFMAKLFQQEVPEIYDNIIQVKAVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+ATF++NAL+PA V KVVL
Sbjct: 243 ISRDASIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDAATFIVNALQPAEVVKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F ERT  
Sbjct: 303 DEDSARIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESERRQKEFVERTNA 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM A++VDE++  LL +EGF  VEELA V+ +E+A+IEGFDE+TAVEIQ RA++YL  I+
Sbjct: 363 FMNALDVDEVVGQLLASEGFRSVEELAFVEPAELAAIEGFDEDTAVEIQARAQDYLARIE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
               ++  ELGV++EL  + G+ + + V  GEN +KT+EDLAGC+ DDL+GW+E K G  
Sbjct: 423 AEQDQRRIELGVADELREVAGVTTAMLVKFGENDVKTVEDLAGCATDDLIGWTERKEGES 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
            K  G+L      +++ E+MI+ AR   GWI+
Sbjct: 483 VKHAGYLDGFELTREEAETMIMTARVHAGWID 514


>gi|163867513|ref|YP_001608712.1| transcription elongation factor NusA [Bartonella tribocorum CIP
           105476]
 gi|161017159|emb|CAK00717.1| transcription elongation protein [Bartonella tribocorum CIP 105476]
          Length = 543

 Score =  680 bits (1754), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 331/524 (63%), Positives = 422/524 (80%), Gaps = 1/524 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
            SANRLE+LQIADAVA EKSIDR++V+S MAD+IQKAARS YG  ++IR EIN +TG+I 
Sbjct: 3   TSANRLEILQIADAVAREKSIDREIVISAMADAIQKAARSRYGQETNIRAEINSKTGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL++V+ VE+YT +I+L  A        IG   +D LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLKIVDVVEDYTTEIALSDALKCQEEAKIGDFFADLLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AERD+QY EFK+KVGEIISGTVKRVEYGNVIVDLG  + ++RRDE I RE+ R GDR
Sbjct: 123 VRDAERDQQYEEFKNKVGEIISGTVKRVEYGNVIVDLGRGEAIVRRDELIPRESFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++++ DV RE RGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAFVNDVHRETRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+ATFV+NAL+PA V+K++L
Sbjct: 243 VSRDGSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAATFVVNALQPAEVSKIIL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEVIVP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S NRQK+F ER++ 
Sbjct: 303 DEDAERIEVIVPDDQLSLAIGRRGQNVRLASQLTGWNIDILTEKEESENRQKEFTERSKL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+ VDE+I  ++ +EGF+ +EE+A + + EIASI+GFD +TA EIQ RAREYLE  +
Sbjct: 363 FMEALEVDEMIGQVMASEGFSSIEEIAYIDLEEIASIDGFDHDTASEIQSRAREYLEHQE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L  K ++LGVS+EL ++PG+ S + VA+GE+G+KT+ED AG +VDDL GW E K G  
Sbjct: 423 KELDDKRKKLGVSDELRTLPGMTSAMLVAVGEDGVKTIEDFAGYAVDDLTGWRERKEGQT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK-EKVADEEVQD 524
           + F G L+     +   E+M++ AR + GWI++ + VA+  V+D
Sbjct: 483 KSFSGVLTPFDITRADAEAMVLAARVQAGWIDQADLVAENPVED 526


>gi|240849883|ref|YP_002971271.1| transcription elongation factor NusA [Bartonella grahamii as4aup]
 gi|240267006|gb|ACS50594.1| transcription elongation factor NusA [Bartonella grahamii as4aup]
          Length = 543

 Score =  679 bits (1753), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 325/513 (63%), Positives = 416/513 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
            SANRLE+LQIADAVA EKSIDR++V+S MAD+IQKAARS YG  ++IR EIN +TG+I 
Sbjct: 3   TSANRLEILQIADAVAREKSIDREIVISAMADAIQKAARSRYGQETNIRAEINSKTGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL++V+ VE+YT +I+L  A        IG   +D LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLKIVDVVEDYTTEITLSDALKHQAEAKIGDFFADLLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER++QY EFK+KVGEIISGTVKRVEYGNVIVDLG  + ++RRDE I RE+ R GDR
Sbjct: 123 VRDAEREQQYEEFKNKVGEIISGTVKRVEYGNVIVDLGRGEAIVRRDELIPRESFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++++ DV RE RGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAFVNDVHRETRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+ATFV+NAL+PA V+K++L
Sbjct: 243 VSRDGSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAATFVVNALQPAEVSKIIL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEVIVP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S NRQK+F ER++ 
Sbjct: 303 DEDAERIEVIVPDDQLSLAIGRRGQNVRLASQLTGWNIDILTEKEESENRQKEFTERSKL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+ VDE+I  ++ +EGF+ +EE+A + + EIASI+GFD +TA EIQ RAREYL+  +
Sbjct: 363 FMEALEVDEMIGQVMASEGFSSIEEIAYIDLEEIASIDGFDHDTAAEIQSRAREYLDHQE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L +K ++LGVS+EL ++PG+ S + VA+GE+G+KT+ED AG +VDDL GW E K G  
Sbjct: 423 KELDEKRKKLGVSDELRTLPGMTSAMLVAVGEDGVKTIEDFAGYAVDDLAGWRERKEGQT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
           + F G L+     +   E+M++ AR + GWI++
Sbjct: 483 QNFSGILTPFDITRADAEAMVLAARVQAGWIDQ 515


>gi|49473872|ref|YP_031914.1| transcription elongation factor NusA [Bartonella quintana str.
           Toulouse]
 gi|49239375|emb|CAF25708.1| N utilization substance protein A [Bartonella quintana str.
           Toulouse]
          Length = 543

 Score =  679 bits (1753), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 327/513 (63%), Positives = 415/513 (80%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
            SANRLE+LQIADAVA EKSIDR++V+S MAD+IQKAARS YG  ++I  EIN +TG+I 
Sbjct: 3   TSANRLEILQIADAVAREKSIDREIVISAMADAIQKAARSRYGQETNIHAEINSKTGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL++V+ VE+YT +I+L  A  R     IG   +D LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLKIVDIVEDYTTEITLSDALKRQADAKIGDFFADLLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           V +AERD+QY EFK+K+GEIISGTVKRVEYGNVIVDLG  + ++RRDE I RE+   GDR
Sbjct: 123 VHDAERDQQYEEFKNKIGEIISGTVKRVEYGNVIVDLGRGEAIVRRDELIPRESFHYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++++ DV RE RGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAFVSDVHREPRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+ATF++NAL+PA V+KVVL
Sbjct: 243 VSRDGSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAATFIVNALQPAEVSKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DEDV RIEVIVP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S NRQK+F ER++ 
Sbjct: 303 DEDVERIEVIVPDDQLSLAIGRRGQNVRLASQLTGWNIDILTEQEESENRQKEFTERSKL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM++++VDE+I  ++ +EGF+ +EE+A + + EIASI+GFD ETA EIQ RAREYLE  +
Sbjct: 363 FMESLDVDEMIGQVMASEGFSSIEEIAYIDLEEIASIDGFDHETAAEIQSRAREYLERKE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L +K ++LGVS+EL  +PGI + + VA+GE+G+KT+ED AG +VDDL GW E K G  
Sbjct: 423 KELDEKRKKLGVSDELRMLPGITNAMLVAIGEDGVKTIEDFAGYAVDDLAGWKERKEGQT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
           + F G L+     +   E+M++ AR + GWI+K
Sbjct: 483 QNFSGILTPFDITRFDAEAMVLAARVQAGWIDK 515


>gi|154254057|ref|YP_001414881.1| NusA antitermination factor [Parvibaculum lavamentivorans DS-1]
 gi|154158007|gb|ABS65224.1| NusA antitermination factor [Parvibaculum lavamentivorans DS-1]
          Length = 536

 Score =  677 bits (1748), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 327/517 (63%), Positives = 408/517 (78%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR+VV+  MA++IQKAARS YG  ++IR  INP+TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKSIDREVVIEAMAEAIQKAARSRYGAENEIRARINPQTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVV+ VEN   QI LK A+ R+P+  +G ++ D LPP+DFGR+A Q+AKQVI+QK
Sbjct: 63  LVRLLEVVDTVENDAVQIDLKSAQRRNPAAQLGDLIEDELPPVDFGRIAAQTAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+RQY E+KD++GEI++G VKRVEYGNVIVDLG  + ++RRDE + RE  R GDR
Sbjct: 123 VRDAERERQYDEYKDRIGEIVNGIVKRVEYGNVIVDLGRGEAIVRRDELLPRETFRNGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YIYDVRREQRGPQ+ LSR+HPQFM KLF  EVPEIY+GI+++KAV+RDPGSRAK+AV
Sbjct: 183 VRAYIYDVRREQRGPQIFLSRSHPQFMAKLFAQEVPEIYDGIIEIKAVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+ATF++N L PA V KVVL
Sbjct: 243 LSNDSSIDPVGACVGMRGSRVQAVVNELQGEKIDIIQWSPDAATFIVNGLAPAEVVKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQ +F  RT  
Sbjct: 303 DEDAQRIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESERRQAEFLSRTAT 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F +A++VDE+IA LL +EGFA +EE+A V + EIA IEGFDE+TA EIQ RA EY+E  +
Sbjct: 363 FAEALDVDEMIAQLLASEGFASIEEVAYVDLDEIAEIEGFDEDTAQEIQSRALEYIERQN 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                K RELGV++E+  +PG+  K+ VA GEN +KT+EDLAGC+ DDL+GW+E   G  
Sbjct: 423 AEFDAKRRELGVADEVADVPGVTPKMMVAFGENDVKTVEDLAGCATDDLIGWNETVNGER 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
           +   G +       ++   +I+ AR K GWI +  +A
Sbjct: 483 KHQQGIIEGFDLTAEEANDLIMQARLKAGWITEADLA 519


>gi|209883664|ref|YP_002287521.1| transcription elongation factor NusA [Oligotropha carboxidovorans
           OM5]
 gi|209871860|gb|ACI91656.1| transcription elongation factor NusA [Oligotropha carboxidovorans
           OM5]
          Length = 541

 Score =  677 bits (1746), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 326/517 (63%), Positives = 409/517 (79%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSAN+LELLQIADAVA EKSIDR +V++ M D+I KAAR+ YG+ +D+  EI+ + G++ 
Sbjct: 4   VSANKLELLQIADAVAREKSIDRSIVIAAMEDAIAKAARARYGSETDVHAEIDSKKGELR 63

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VVE VEN   QISL+ A+  +P+  IG  ++D LPP+++GR+A QSAKQVI+QK
Sbjct: 64  LSRHMLVVETVENPANQISLEDAKRANPTAQIGDTIADTLPPLEYGRIAAQSAKQVIVQK 123

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++GEI++G VKRVEYG+VIVDLG  + ++RRDE + RE LR GDR
Sbjct: 124 VREAERDRQYQEFKDRIGEIVNGIVKRVEYGSVIVDLGRGEAIVRRDEMLPREALRNGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++YI+DVRRE RGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 184 IRAYIFDVRRETRGPQIFLSRTHPQFMAKLFAQEVPEIYDGIVEIKAVARDPGSRAKIGV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V KVV+
Sbjct: 244 ISRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVAKVVI 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP  QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQ DF   T+ 
Sbjct: 304 DEDRERIEVVVPDTQLSLAIGRRGQNVRLASQLTGWDIDILTEQEESERRQADFENSTRV 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+NVDE++  LL +EGF+ VEEL  V + E+A IEGFDEETA E+Q RAREYLE ++
Sbjct: 364 FMEALNVDEVVGQLLASEGFSSVEELVLVDVRELAGIEGFDEETANELQSRAREYLEHLE 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L+ K +ELGV + +  +PGI  KI V LGEN +KT+EDLAGC+ DDL+GW+E K G  
Sbjct: 424 AELEAKRKELGVEDAMKDVPGITGKILVKLGENDVKTVEDLAGCATDDLVGWTERKDGET 483

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
            K DGFL +  T +D+ E++I+ AR   GWI +  +A
Sbjct: 484 VKHDGFLDASETSRDEAEALIMQARLAAGWITEADLA 520


>gi|254471028|ref|ZP_05084431.1| N-utilization substance protein A [Pseudovibrio sp. JE062]
 gi|211960170|gb|EEA95367.1| N-utilization substance protein A [Pseudovibrio sp. JE062]
          Length = 572

 Score =  677 bits (1746), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 327/514 (63%), Positives = 411/514 (79%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIADAVA EKSIDR +V++ + D+IQKAARS YGT +++R EINP+TG+I 
Sbjct: 3   ISANRLELLQIADAVAREKSIDRSIVIAALEDAIQKAARSRYGTETEVRAEINPKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL+VVE VEN + +I+L  A++R+P   IG  ++DPLPP+DFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLQVVEVVENISTEIALVDAQERNPDATIGDFMADPLPPLDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERD+QY EFKD++GE+++  VKRVEYGNV+VD G  + ++RRDE I RE  R GDR
Sbjct: 123 VREAERDQQYDEFKDRIGEVLNAVVKRVEYGNVVVDTGKGEAIVRRDELIPREIFRNGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++ I+DVRREQRGPQV LSRTHPQFM KLF  EVPEIY+G++++KAV+RDPGSRAK+AV
Sbjct: 183 IRALIFDVRREQRGPQVFLSRTHPQFMAKLFAQEVPEIYDGVIEIKAVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D+ATF++NAL+PA V KVVL
Sbjct: 243 LSNDGSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWNDDAATFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F  R+  
Sbjct: 303 DEDSERIEVVVPNDQLSLAIGRRGQNVRLASQLTGWGIDIMTEAEESERRQKEFQIRSDL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F   +NVDE+++ LL +EGF  VEE+A V I EI+SIEGFDEETA EIQ RAREYLE  +
Sbjct: 363 FQNTLNVDEMVSQLLASEGFTSVEEVAYVDIDEISSIEGFDEETADEIQARAREYLEEQE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L ++ R+LGVSEEL  +PG+ S + VALG++ IKTMEDLAGC+ DDL+GW+E K    
Sbjct: 423 AKLAEERRQLGVSEELVQVPGLTSAMLVALGKDEIKTMEDLAGCAADDLVGWTERKDKET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
            + +G LS     +   E++++ AR   GWI  E
Sbjct: 483 IRVEGTLSGFDLSRADAEAIVMSARVAAGWISPE 516


>gi|299133375|ref|ZP_07026570.1| transcription termination factor NusA [Afipia sp. 1NLS2]
 gi|298593512|gb|EFI53712.1| transcription termination factor NusA [Afipia sp. 1NLS2]
          Length = 535

 Score =  675 bits (1742), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 327/517 (63%), Positives = 407/517 (78%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSAN+LELLQIADAVA EKSIDR +V++ M D+I KAAR+ YG+ +D+  EI+ + G++ 
Sbjct: 4   VSANKLELLQIADAVAREKSIDRSIVIAAMEDAIAKAARARYGSETDVHAEIDAKKGELR 63

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VVE VEN   QISLK A+  +P+  IG  ++D LPP+++GR+A QSAKQVI+QK
Sbjct: 64  LSRHMLVVETVENAANQISLKDAQRANPTAQIGDTIADTLPPLEYGRIAAQSAKQVIVQK 123

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++GEI++G VKRVEYG+VIVDLG  + ++RRDE + RE LR GDR
Sbjct: 124 VREAERDRQYQEFKDRIGEIVNGIVKRVEYGSVIVDLGRGEAIVRRDEMLPREALRNGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++YI+DVRRE RGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 184 IRAYIFDVRRETRGPQIFLSRTHPQFMAKLFAQEVPEIYDGIVEIKAVARDPGSRAKIGV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V KVV+
Sbjct: 244 ISRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVAKVVI 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP  QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQ DF   T+ 
Sbjct: 304 DEDRERIEVVVPDTQLSLAIGRRGQNVRLASQLTGWDIDILTEQEESERRQADFENSTRV 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+NVDE++  LL +EGF+ VEELA V + E+A IEGFDEETA E+Q RAREYLE +D
Sbjct: 364 FMEALNVDEVVGQLLASEGFSSVEELALVDVRELAGIEGFDEETANELQSRAREYLEQLD 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L+ K +ELGV + L  IPG+  K+ V  GEN +KT+EDLAGC+ DDL+GW E K G  
Sbjct: 424 AELEAKRKELGVDDALKDIPGVTGKMLVKFGENDVKTVEDLAGCATDDLVGWVERKDGET 483

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
            K  GFL +  T +D+ E++I+ AR   GWI +  +A
Sbjct: 484 VKHAGFLDASETSRDEAEAIIMQARLAAGWITEADLA 520


>gi|319406547|emb|CBI80189.1| transcription elongation protein [Bartonella sp. 1-1C]
          Length = 537

 Score =  675 bits (1742), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 323/513 (62%), Positives = 413/513 (80%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIADAVA EKSIDR++V+S MAD+IQKAARS YG  ++IR EIN +TG+I 
Sbjct: 3   ISANRLELLQIADAVAREKSIDREIVISAMADAIQKAARSRYGQETNIRAEINSKTGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL+VV+ VE+YT +I+L  A  R     +G  +SD LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLKVVDVVEDYTTEIALSDALKRKEDAKVGDFLSDLLPPMDFGRIATQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+ Q+ EFK+K+GEIISGTVKRVEYGNVIVD+G  + ++RRDE I RE+   GDR
Sbjct: 123 VRDAERNHQFEEFKNKIGEIISGTVKRVEYGNVIVDIGRGEAIVRRDELIPRESFHYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++++++DV RE RGPQV LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAFVHDVHREPRGPQVFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+ATFV+NAL+PA V+KVVL
Sbjct: 243 VSRDGSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAATFVVNALQPAEVSKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S NR K+F ER++ 
Sbjct: 303 DEDAERIEVVVPSDQLSLAIGRRGQNVRLASQLTGWNIDILTEQEESENRHKEFTERSKL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+ ++VDE++  ++ +EGF  +EE+A V + EI SI+GFD +TA EIQ RAREYLE  +
Sbjct: 363 FMETLDVDEMVGQVMASEGFTSIEEIAYVNLEEIESIDGFDHDTASEIQNRAREYLEHKE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L +K +ELGVS+EL ++P I + + VA+GE+G+KT+ED AG +VDDL+GW E K G  
Sbjct: 423 KELNEKRKELGVSDELQTLPSITNAMLVAIGEDGVKTIEDFAGYAVDDLVGWRECKEGQT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
           + F G L+     +   E+M++ AR + GWI +
Sbjct: 483 QNFPGILTPFDITRADAEAMVLAARVQAGWINQ 515


>gi|319405101|emb|CBI78705.1| transcription elongation protein [Bartonella sp. AR 15-3]
          Length = 537

 Score =  674 bits (1740), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 324/513 (63%), Positives = 415/513 (80%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIADAVA EKSIDR++V+S MAD+IQKAARS YG  ++IR EIN +TG+I 
Sbjct: 3   ISANRLELLQIADAVAREKSIDREIVISAMADAIQKAARSRYGQETNIRAEINSKTGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL+VV+ VE+YT +I+L  A  R     +G  +SD LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLKVVDIVEDYTTEIALSDALKRKEDAKVGDFLSDLLPPMDFGRIATQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+ Q+ EFK+K+GEIISGTVKRVEYGNVIVD+G  + ++RRDE I RE+ R GDR
Sbjct: 123 VRDAERNHQFEEFKNKIGEIISGTVKRVEYGNVIVDIGRGEAIVRRDELIPRESFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++++++DV RE RGPQV LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAFVHDVHREPRGPQVFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+ATF++NAL+PA V+KVVL
Sbjct: 243 VSRDGSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAATFIVNALQPAEVSKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S NR K+F+ER++ 
Sbjct: 303 DEDAERIEVVVPDDQLSLAIGRRGQNVRLASQLTGWNIDILTEQEESENRHKEFSERSKL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+ ++VDE++  ++ +EGF  +EE+A V + EI SI+GFD +TA EIQ RAR+YLE  +
Sbjct: 363 FMETLDVDEMVGQVMASEGFISIEEIAYVDLEEIKSIDGFDHDTASEIQNRARKYLERKE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L +K ++LGVS+EL  +PGI + + VA+GE+GIKTMED AG +VDDL+GW E K G  
Sbjct: 423 KELNEKRKKLGVSDELQLLPGITNAMLVAIGEDGIKTMEDFAGYAVDDLVGWREFKEGQT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
           + F G L+     +   E+M++ AR + GWI +
Sbjct: 483 QNFPGILTPFDVTRADAEAMVLAARVQAGWINQ 515


>gi|319403631|emb|CBI77216.1| transcription elongation protein [Bartonella rochalimae ATCC
           BAA-1498]
          Length = 537

 Score =  674 bits (1738), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 322/513 (62%), Positives = 413/513 (80%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIADAVA EKSIDR++V+S MAD+IQKAARS YG  ++IR EIN +TG+I 
Sbjct: 3   ISANRLELLQIADAVAREKSIDREIVISAMADAIQKAARSRYGQETNIRAEINSKTGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL+VV+ VE+YT +I+L  A  R     +G  +SD LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLKVVDVVEDYTTEIALSDALKRKEDAKVGDFLSDLLPPMDFGRIATQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+ Q+ EFK+K+GEIISGTVKRVEYGNVIVD+G  + ++RRDE I RE+   GDR
Sbjct: 123 VRDAERNHQFEEFKNKIGEIISGTVKRVEYGNVIVDIGRGEAIVRRDELIPRESFHYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++++++DV RE RGPQV LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAFVHDVHREPRGPQVFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+ATF++NAL+PA V+KVVL
Sbjct: 243 VSRDGSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAATFIVNALQPAEVSKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S NR K+F ER++ 
Sbjct: 303 DEDAERIEVVVPGDQLSLAIGRRGQNVRLASQLTGWNIDILTEQEESENRHKEFTERSKL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+ ++VDE++  ++ +EGF  +EE+A V + EI SI+GFD +TA EIQ RAREYLE  +
Sbjct: 363 FMETLDVDEMVGQVMASEGFTSIEEIAYVNLEEIESIDGFDHDTASEIQNRAREYLERKE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L +K +ELGVS+EL ++PGI + + V +GE+G+KT+ED AG +VDDL+GW E K G  
Sbjct: 423 KELNEKRKELGVSDELQTLPGITNAMLVVIGEDGVKTIEDFAGYAVDDLVGWRECKEGQT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
           + F G L+     +   E+M++ AR + GWI +
Sbjct: 483 QNFPGILTPFDITRADAEAMVLAARVQAGWINQ 515


>gi|300024995|ref|YP_003757606.1| NusA antitermination factor [Hyphomicrobium denitrificans ATCC
           51888]
 gi|299526816|gb|ADJ25285.1| NusA antitermination factor [Hyphomicrobium denitrificans ATCC
           51888]
          Length = 543

 Score =  669 bits (1727), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 326/517 (63%), Positives = 412/517 (79%), Gaps = 3/517 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIADAVA EK+ID+ +V+  M D+IQKAA+S YG  +DIR EI+P+TG+  
Sbjct: 6   ISANRLELLQIADAVAREKTIDKKIVIEAMEDAIQKAAKSRYGAENDIRCEIDPKTGEAK 65

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R+L VVE VEN   QI+++ A+ R+P    G ++++ LPP++FGRVA Q+AKQVI+QK
Sbjct: 66  LTRVLAVVEAVENDATQITVEDAKKRNPEAKAGDMIAETLPPLEFGRVAAQNAKQVIVQK 125

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQ+ E+KD+VG+  +GTVKRVEYGNVIVDLG ++G+IRRDE I REN+R GDR
Sbjct: 126 VREAERDRQFAEYKDRVGDTTNGTVKRVEYGNVIVDLGRAEGIIRRDEMIPRENVRLGDR 185

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++++IYDVRREQRGPQ+ L+R  P+FM  LF  EVPEIY+G+V++K+V+RDPGSRAK+AV
Sbjct: 186 IRAFIYDVRREQRGPQIFLTRARPEFMSSLFRAEVPEIYDGVVEIKSVARDPGSRAKIAV 245

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGMRG+RVQAVV EL+ EK+DI+ W+PD+A+F++NAL PA VTKVVL
Sbjct: 246 ISKDSSIDPVGACVGMRGARVQAVVNELQGEKVDIIQWNPDAASFIVNALAPAEVTKVVL 305

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP+ QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ERTQ 
Sbjct: 306 DEDSNRIEVVVPEAQLSLAIGRRGQNVRLASQLTGWDIDILTEQEESERRQKEFAERTQL 365

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
            M A++VDE+IA LLV EGFA VEE+A V ISEIA IEGFDE TA +IQ RARE++E  +
Sbjct: 366 LMDALDVDEVIAQLLVTEGFASVEEVAYVDISEIAHIEGFDEGTAEQIQIRAREFIEQQE 425

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                K RELGV++EL  IPGI++ + VALGENGIKT+ED A C+ D+L+GW++ K    
Sbjct: 426 AERDAKRRELGVADELAEIPGINTAMMVALGENGIKTVEDFADCATDELVGWTDRKKDKD 485

Query: 482 E---KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
               K  GFL      +  VE+MI+ AR   GWI+ E
Sbjct: 486 TEPVKHKGFLDGFELSRTDVENMIMAARVHAGWIKAE 522


>gi|316931577|ref|YP_004106559.1| transcription termination factor NusA [Rhodopseudomonas palustris
           DX-1]
 gi|315599291|gb|ADU41826.1| transcription termination factor NusA [Rhodopseudomonas palustris
           DX-1]
          Length = 537

 Score =  668 bits (1724), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 331/527 (62%), Positives = 412/527 (78%), Gaps = 4/527 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK+IDR +V++ M D+I KAAR+ YG+ +D+  EI+P+ G++ 
Sbjct: 3   VSANRLELLQIADAVAREKTIDRGIVIAAMEDAIAKAARARYGSETDVHAEIDPKKGELR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VVE+VEN   QISLK A+  +P   IG  ++D LPP+++GR+A QSAKQVI+QK
Sbjct: 63  LSRHMLVVEQVENPANQISLKDAQRANPGAQIGDTIADTLPPLEYGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY+EFKD++G+I++G VKRVEYG+VIVDLG  + +IRRDE + RE+ R GDR
Sbjct: 123 VREAERDRQYMEFKDRIGDIVNGVVKRVEYGSVIVDLGRGEAIIRRDEMLPRESFRNGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y++DVRRE RGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 183 VRAYVFDVRRETRGPQIFLSRTHPQFMAKLFAQEVPEIYDGIVEIKAVARDPGSRAKIGV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V+KVV+
Sbjct: 243 VSRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVSKVVI 302

Query: 302 DEDVGRIEVIVP--KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           DED  RIEV+VP    QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQ DF + T
Sbjct: 303 DEDRERIEVVVPDTNNQLSLAIGRRGQNVRLASQLTGWDIDILTETEESERRQADFEKTT 362

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM A+NVDEI+  LL +EGF  VEELA V   E+ASIEGFDEETA E+Q RAREYL+ 
Sbjct: 363 RAFMDALNVDEIVGQLLASEGFTSVEELALVDPRELASIEGFDEETAAELQTRAREYLDQ 422

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK-G 478
           I+  L+ +  ELGV + L  +PG+ SK+ V  GEN +KT+EDLAGC+ DDL+GW+E K G
Sbjct: 423 IESELEARRTELGVEDALKDVPGVTSKMLVKFGENDVKTVEDLAGCATDDLVGWTERKDG 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI-EKEKVADEEVQD 524
           G   K+ G L  +   ++  E +I+ AR K GWI E E  +DEE  D
Sbjct: 483 GEPVKYPGILDGMELSREDAEHLIMQARVKAGWIDESELASDEEPAD 529


>gi|158421642|ref|YP_001522934.1| transcription elongation factor NusA [Azorhizobium caulinodans ORS
           571]
 gi|158328531|dbj|BAF86016.1| transcription termination factor [Azorhizobium caulinodans ORS 571]
          Length = 532

 Score =  668 bits (1723), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 320/511 (62%), Positives = 404/511 (79%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK+IDR +V++ M D+I KAARS YG  +DI  EINP TG++ 
Sbjct: 4   VSANRLELLQIADAVAREKTIDRGIVIAAMEDAIAKAARSRYGQETDIHAEINPRTGELR 63

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R L VV+EVEN   +I+L  AR  +P+  +G  ++D LPP DFGR+A QSAKQVI+QK
Sbjct: 64  LARHLLVVDEVENSATEITLDGARRHNPAAQVGDTIADTLPPFDFGRIAAQSAKQVIVQK 123

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++ E+++G VKRVEYGNV+VDLG  + ++RRDE + RE ++ GDR
Sbjct: 124 VREAERDRQYDEFKDRISEVVNGLVKRVEYGNVVVDLGRGEAILRRDELLPREVVKTGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++YIYDVRRE RGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+AV
Sbjct: 184 IRAYIYDVRREPRGPQIFLSRTHPQFMAKLFAQEVPEIYDGIVEIKAVARDPGSRAKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D S+DPVGACVGMRGSRVQAVV EL+ EKIDI+ W+PD ATF++NAL PA V KVVL
Sbjct: 244 ISRDQSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNPDIATFIVNALAPAEVVKVVL 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP  QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ERT+ 
Sbjct: 304 DEDRERIEVVVPDAQLSLAIGRRGQNVRLASQLTGWDIDILTEQEESERRQKEFAERTKM 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F +A+++DE++  LL +EGF  VEE+A V +SE+ASIEGFDEETA E+Q RA ++L  ++
Sbjct: 364 FAEALDLDEMMGQLLTSEGFTSVEEIAYVPVSELASIEGFDEETAAELQARALKHLSDVE 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L  + RELGV ++L ++PG+ SK+ VA G+N IK++EDLAGC+ DDL+GW+E K G  
Sbjct: 424 EALDNERRELGVEDDLKTVPGVTSKMLVAFGKNDIKSVEDLAGCATDDLVGWTERKDGET 483

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
            +F G L      ++  ES+I+ AR   GWI
Sbjct: 484 VRFPGALDGFELSREDAESLIMQARIAAGWI 514


>gi|312115896|ref|YP_004013492.1| NusA antitermination factor [Rhodomicrobium vannielii ATCC 17100]
 gi|311221025|gb|ADP72393.1| NusA antitermination factor [Rhodomicrobium vannielii ATCC 17100]
          Length = 581

 Score =  668 bits (1723), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 325/511 (63%), Positives = 405/511 (79%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIADAVA EKSIDR +VLS M D+IQKAA+S YG+ ++IR EI+P TG+I 
Sbjct: 6   ISANRLELLQIADAVAREKSIDRTLVLSAMEDAIQKAAKSRYGSENEIRAEIDPRTGEIR 65

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE V     +ISLK A  R+P  ++G  +++PLPP+DFGRVA Q+AKQVI+QK
Sbjct: 66  LSRLLEVVERVTLDATEISLKDAMKRNPEAEVGDFIAEPLPPLDFGRVAAQNAKQVIVQK 125

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAER+RQ+ E+KD++ EI+SG VKR EYGNV++DLG ++ +IRRDET+ REN + GDR
Sbjct: 126 VREAERERQFEEYKDRMSEIVSGVVKRAEYGNVMIDLGRAEAIIRRDETLPRENYKLGDR 185

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRRE RGPQ+ LSRT P+FM KLF  EVPEIY+GIV++K+V+RDPGSRAK+AV
Sbjct: 186 VRAYVYDVRRENRGPQIFLSRTRPEFMAKLFAQEVPEIYDGIVEIKSVARDPGSRAKIAV 245

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S ++S+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATF++NAL PA V KVVL
Sbjct: 246 VSKETSVDPVGACVGMRGSRVQAVVNELQGEKIDIIQWSGDPATFIVNALAPAEVAKVVL 305

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  RIEV+VP EQLSLAIGR+GQNVRLASQLTGW IDI+TE E+S  RQK+F ERT  
Sbjct: 306 DEESERIEVVVPDEQLSLAIGRKGQNVRLASQLTGWDIDILTEAEESERRQKEFAERTAA 365

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F+ A++VDE+IA LLV+EGFA VEELA V   E+A IEGFDE TA+EIQ RARE+LE  +
Sbjct: 366 FVNALDVDEMIAQLLVSEGFASVEELAFVDSHEVAIIEGFDENTALEIQERAREFLERQE 425

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L +K R LGV++EL  +PG+ + + VA GEN IKT+EDLA C+ D+L GW+E   G  
Sbjct: 426 AELNEKRRALGVADELAEVPGVTTAMLVAFGENNIKTVEDLADCATDELAGWTERAHGQT 485

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
           ++  G L      K  +E +II AR K GWI
Sbjct: 486 KQNPGILQGFDLSKSDIEHLIIAARVKAGWI 516


>gi|146337225|ref|YP_001202273.1| transcription elongation factor NusA [Bradyrhizobium sp. ORS278]
 gi|146190031|emb|CAL74023.1| Transcription elongation protein nusA (N utilization substance
           protein A) (L factor) [Bradyrhizobium sp. ORS278]
          Length = 535

 Score =  667 bits (1722), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 328/526 (62%), Positives = 409/526 (77%), Gaps = 3/526 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR +V++ M D+I KAAR+ YG+ +D+  EI+P  G++ 
Sbjct: 3   VSANRLELLQIADAVAREKSIDRGIVIAAMEDAIAKAARARYGSETDVHAEIDPRKGELR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VVE+VEN + QISL  AR  +P   IG  ++D LPP+++GR+A QSAKQVI+QK
Sbjct: 63  LSRHMLVVEKVENPSNQISLDDARRANPGAQIGDTIADTLPPLEYGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++G+I++G VKRVEYG+VI+DLG  + +IRRDE + RE  R GDR
Sbjct: 123 VREAERDRQYQEFKDRIGDIVNGVVKRVEYGSVILDLGRGEAIIRRDEMLPREVFRNGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y++DVRRE RGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 183 VRAYVFDVRRETRGPQIFLSRTHPQFMAKLFAQEVPEIYDGIVEIKAVARDPGSRAKIGV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V KVV+
Sbjct: 243 VSRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVAKVVI 302

Query: 302 DEDVGRIEVIVP--KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           DED  RIEV+VP    QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQ DF   T
Sbjct: 303 DEDRERIEVVVPDTNNQLSLAIGRRGQNVRLASQLTGWDIDILTEQEESERRQADFENST 362

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM+++NVDE++  LL +EGF  VEELA V + ++ASIEGFDEETA E+Q RARE+LE 
Sbjct: 363 RVFMESLNVDEVVGQLLASEGFTSVEELALVDLKDLASIEGFDEETATELQTRAREFLEQ 422

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK-G 478
            +  L+ K +ELGV + L  +PG+ SK+ V  GEN IKT++DLAGC+ DDL+GW E K G
Sbjct: 423 QEAELEAKRKELGVEDALKDVPGVTSKMLVKFGENDIKTVDDLAGCATDDLVGWVERKDG 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQD 524
           G   KF G L  L   +D  E+M++ AR K GWI +  +A  E +D
Sbjct: 483 GEQTKFAGILDGLDVSRDDAEAMVMQARVKAGWITEADLAKGEAED 528


>gi|27375896|ref|NP_767425.1| transcription elongation factor NusA [Bradyrhizobium japonicum USDA
           110]
 gi|27349034|dbj|BAC46050.1| N-utilization substance protein A [Bradyrhizobium japonicum USDA
           110]
          Length = 536

 Score =  666 bits (1719), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 327/520 (62%), Positives = 408/520 (78%), Gaps = 3/520 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR +V++ M D+I KAAR+ YG+ +D+  EI+P+ G++ 
Sbjct: 3   VSANRLELLQIADAVAREKSIDRGIVIAAMEDAIAKAARARYGSETDVHAEIDPKKGELR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VVE+VEN++ QISL  A+  +P   +G  ++D LPP+++GR+A QSAKQVI+QK
Sbjct: 63  LSRHMLVVEKVENHSNQISLVDAQRANPGAQVGDTIADTLPPLEYGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++G+I++G VKRVEYG+VIVDLG  + +IRRDE + RE  R GDR
Sbjct: 123 VREAERDRQYQEFKDRIGDIVNGVVKRVEYGSVIVDLGRGEAIIRRDEMLPREVFRNGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YI+DVRRE RGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 183 VRAYIFDVRRETRGPQIFLSRTHPQFMAKLFAQEVPEIYDGIVEIKAVARDPGSRAKIGV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V+KVV+
Sbjct: 243 ISRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVSKVVI 302

Query: 302 DEDVGRIEVIVP--KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           DED  RIEV+VP    QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQ DF   T
Sbjct: 303 DEDRERIEVVVPDTNNQLSLAIGRRGQNVRLASQLTGWDIDILTEQEESERRQADFENST 362

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM+++NVDE++  LL +EGF  VEELA V I E+A IEGFDEETA E+Q RAREYLE 
Sbjct: 363 RVFMESLNVDEVVGQLLASEGFTSVEELAMVDIKELAGIEGFDEETAQELQNRAREYLEQ 422

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK-G 478
            +  L+ K  ELGV + L  +PG+ SK+ V  GEN IKT++DLAGC+ DDL+GW+E K G
Sbjct: 423 QEAELEAKRVELGVEDALKDVPGVTSKMLVKFGENDIKTVDDLAGCATDDLVGWTERKEG 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
           G   K+ G L  +   +D  E+MI+ AR K GWI +  +A
Sbjct: 483 GETTKYPGALDGIEISRDDAEAMIMQARVKAGWITEADLA 522


>gi|121602814|ref|YP_989501.1| transcription elongation factor NusA [Bartonella bacilliformis
           KC583]
 gi|120614991|gb|ABM45592.1| transcription elongation protein nusA [Bartonella bacilliformis
           KC583]
          Length = 537

 Score =  665 bits (1716), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 321/520 (61%), Positives = 414/520 (79%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLE+LQIADAVA EKSIDR++V+S MAD+IQKAARS YG  ++IR EIN +TG+I 
Sbjct: 3   ISANRLEILQIADAVAREKSIDREIVISAMADAIQKAARSRYGQETNIRAEINSKTGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL++V+ VE+YT +ISL  A        IG  + D LP MDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLQIVDIVEDYTTEISLSDALKHQADAKIGDFIFDLLPSMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+ Q+ EFK+KVGEIISGTVKRVEYGNVIVDLG  + V+RRDE I  E+   GDR
Sbjct: 123 VRDAERNHQFEEFKNKVGEIISGTVKRVEYGNVIVDLGRGEAVVRRDELIPCESFHYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++++ DV RE RGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAFVNDVHREPRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+ATFV+NAL+PA V+KV+L
Sbjct: 243 VSRDGSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAATFVVNALQPAEVSKVIL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S NRQK+F ER++ 
Sbjct: 303 DEDAERIEVVVPDDQLSLAIGRRGQNVRLASQLTGWNIDILTEQEESENRQKEFTERSKL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM++++VD+I+  ++ +EGF+ +EE+A V + EIASI+GFD E A EIQ RAREYLE  +
Sbjct: 363 FMESLDVDKIVGQVMASEGFSSIEEIAYVGLDEIASIDGFDSEIATEIQKRAREYLENKE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L +K + L V++EL ++PGI + + +A+GE+G+KTM+D AG +VDDL+GW E K G  
Sbjct: 423 KELDEKRKSLCVADELQTLPGITNAMLIAIGEDGVKTMDDFAGYAVDDLVGWRERKKGQT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEE 521
           + F G L+     +   E+MI++AR + GWI +  +  E+
Sbjct: 483 QNFPGILTPFDITRADAEAMILYARVQAGWITQTDLTTED 522


>gi|92115662|ref|YP_575391.1| transcription elongation factor NusA [Nitrobacter hamburgensis X14]
 gi|91798556|gb|ABE60931.1| NusA antitermination factor [Nitrobacter hamburgensis X14]
          Length = 536

 Score =  664 bits (1714), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 322/519 (62%), Positives = 407/519 (78%), Gaps = 2/519 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSAN+LELLQIADAVA EKSIDR +V++ M D+I KAAR+ YG+ +D+  EI+P+TG + 
Sbjct: 4   VSANKLELLQIADAVAREKSIDRGIVIAAMEDAIAKAARARYGSETDVHAEIHPKTGQLQ 63

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VV+E+EN   QISLK A+  +P   IG  ++D LPP+++GR+A QSAKQVI+QK
Sbjct: 64  LTRHMLVVDEIENAANQISLKDAQRANPGAQIGDTIADTLPPLEYGRIAAQSAKQVIVQK 123

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++G+I++G VKRVEYG+VIVDLG  + V+RRDE + RE  R GDR
Sbjct: 124 VREAERDRQYQEFKDRIGDIVNGIVKRVEYGSVIVDLGRGEAVVRRDEMLPREVFRNGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YI+DVRRE RGPQ+ LSRTHPQFMVKLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 184 VRAYIFDVRRETRGPQIFLSRTHPQFMVKLFTQEVPEIYDGIVEIKAVARDPGSRAKIGV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V KVV+
Sbjct: 244 ISRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVAKVVI 303

Query: 302 DEDVGRIEVIVP--KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           DED  RIEV+VP    QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQ DF   T
Sbjct: 304 DEDRERIEVVVPDTNNQLSLAIGRRGQNVRLASQLTGWDIDILTEQEESERRQADFENAT 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM+A+NVDE++  LL +EGF  VEEL  V+  E+A IEGFD+ETA E+Q RAREYLE 
Sbjct: 364 RMFMEALNVDEVVGQLLASEGFMSVEELTLVETRELAGIEGFDDETANELQSRAREYLEQ 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           ++  L  + +ELGV + L ++PG+ SK+ V LGEN ++T+EDLAGC+ DDL+GW+E K G
Sbjct: 424 LEAELDNRRKELGVDDALKTVPGVTSKMLVKLGENEVRTVEDLAGCATDDLVGWTERKDG 483

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
              K  G+L  +   ++  E++I+ AR   GWI +  +A
Sbjct: 484 EAVKHAGYLDGIEVSREDAEAIIMQARLIAGWITEADLA 522


>gi|115522227|ref|YP_779138.1| transcription elongation factor NusA [Rhodopseudomonas palustris
           BisA53]
 gi|115516174|gb|ABJ04158.1| NusA antitermination factor [Rhodopseudomonas palustris BisA53]
          Length = 538

 Score =  664 bits (1714), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 329/521 (63%), Positives = 409/521 (78%), Gaps = 4/521 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK+IDR +V++ M D+I KAAR+ YG+ +D+  EI+P+TG + 
Sbjct: 4   VSANRLELLQIADAVAREKTIDRGIVIAAMEDAIAKAARARYGSETDVHAEIHPKTGQLQ 63

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VVE+VEN   QISL  A+  +P   IG  ++D LPP+++GR+A QSAKQVI+QK
Sbjct: 64  LTRHMLVVEQVENSANQISLVDAQRANPGAMIGDTIADTLPPLEYGRIAAQSAKQVIVQK 123

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++G+I++G VKRVEYG+VIVDLG  + +IRRDE + RE  R GDR
Sbjct: 124 VREAERDRQYQEFKDRIGDIVNGVVKRVEYGSVIVDLGRGEAIIRRDEMLPREVFRNGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YI+DVRRE RGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 184 VRAYIFDVRRETRGPQIFLSRTHPQFMAKLFAQEVPEIYDGIVEIKAVARDPGSRAKIGV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V+KVV+
Sbjct: 244 VSRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVSKVVI 303

Query: 302 DEDVGRIEVIVP--KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           DED  RIEV+VP    QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQ DF   T
Sbjct: 304 DEDRERIEVVVPDTNNQLSLAIGRRGQNVRLASQLTGWDIDILTESEESERRQADFENST 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM+++NVDE++  LL +EGF  VEELA V   E+ASIEGFD+ETA E+Q RAREYLE 
Sbjct: 364 RVFMESLNVDEVVGQLLASEGFTSVEELALVDARELASIEGFDDETAGELQSRAREYLEQ 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           ++  L+ K +ELGV +EL ++PG+ SK+ V  GEN IKT+EDLAGC+ DDL+GWSE K G
Sbjct: 424 LESELEAKRKELGVEDELKTVPGVTSKMLVKFGENDIKTVEDLAGCATDDLVGWSERKEG 483

Query: 480 NIE--KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
             E  KF G L +    +   E++I+ AR K GWI + ++A
Sbjct: 484 VAEPVKFPGILDANEISRADAEALIMQARVKAGWITEAELA 524


>gi|39933515|ref|NP_945791.1| transcription elongation factor NusA [Rhodopseudomonas palustris
           CGA009]
 gi|39647361|emb|CAE25882.1| putative NusA protein, transcriptional termination factor
           [Rhodopseudomonas palustris CGA009]
          Length = 537

 Score =  664 bits (1714), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 325/523 (62%), Positives = 410/523 (78%), Gaps = 3/523 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK+IDR +V++ M D+I KAAR+ YG+ +D+  EI+P+ G++ 
Sbjct: 3   VSANRLELLQIADAVAREKTIDRSIVIAAMEDAIAKAARARYGSETDVHAEIDPKKGELR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VVE+VEN   QISLK A+  +P   IG  ++D LPP+++GR+A QSAKQVI+QK
Sbjct: 63  LSRHMLVVEQVENPANQISLKDAQRANPGAQIGDTIADTLPPLEYGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY+EFKD++G+I++G VKRVEYG+VIVDLG  + +IRRDE + RE+ R GDR
Sbjct: 123 VREAERDRQYMEFKDRIGDIVNGVVKRVEYGSVIVDLGRGEAIIRRDEMLPRESFRNGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y++DVRRE RGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 183 VRAYVFDVRRETRGPQIFLSRTHPQFMAKLFAQEVPEIYDGIVEIKAVARDPGSRAKIGV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V+KVV+
Sbjct: 243 VSRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVSKVVI 302

Query: 302 DEDVGRIEVIVP--KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           DED  RIEV+VP    QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQ DF + T
Sbjct: 303 DEDRERIEVVVPDTNNQLSLAIGRRGQNVRLASQLTGWDIDILTESEESERRQADFEKTT 362

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM A+NVDE++  LL +EGF  VEELA V   E+ASIEGFDEETA E+Q RA EYL+ 
Sbjct: 363 RAFMDALNVDEVVGQLLASEGFTSVEELALVDPRELASIEGFDEETAAELQTRASEYLDR 422

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK-G 478
           I+  L+ +  ELGV + L  +PG+ SK+ V  GEN +KT+EDLAGC+ DDL+GW+E K G
Sbjct: 423 IESELEARRLELGVEDALKDVPGVTSKMLVKFGENDVKTVEDLAGCATDDLVGWTERKDG 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEE 521
               K+ G L  +   ++  E +I+ AR K GWI++ ++A EE
Sbjct: 483 AEPVKYPGILDGMEMSREDAEHLIMQARVKAGWIDESELASEE 525


>gi|75674221|ref|YP_316642.1| transcription elongation factor NusA [Nitrobacter winogradskyi
           Nb-255]
 gi|74419091|gb|ABA03290.1| NusA antitermination factor [Nitrobacter winogradskyi Nb-255]
          Length = 538

 Score =  664 bits (1714), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 321/519 (61%), Positives = 406/519 (78%), Gaps = 2/519 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSAN+LELLQIADAVA EK+IDR +V++ M D+I KAAR+ YG+ +D+  EI+P+TG + 
Sbjct: 4   VSANKLELLQIADAVAREKTIDRGIVIAAMEDAIAKAARARYGSETDVHAEIHPKTGQLQ 63

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VVE+VEN   QISLK A+  +P   IG  ++D LPP+++GR++ QSAKQVI+QK
Sbjct: 64  LTRHMLVVEQVENAANQISLKDAQRANPGAQIGDTIADTLPPLEYGRISAQSAKQVIVQK 123

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++G+I++G VKRVEYG+VIVDLG  + VIRRDE + RE  R GDR
Sbjct: 124 VREAERDRQYQEFKDRIGDIVNGIVKRVEYGSVIVDLGRGEAVIRRDEMLPREVFRNGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YI+DVRRE RGPQ+ LSRTHPQFMVKLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 184 VRAYIFDVRRETRGPQIFLSRTHPQFMVKLFTQEVPEIYDGIVEIKAVARDPGSRAKIGV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V KVV+
Sbjct: 244 VSRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVAKVVI 303

Query: 302 DEDVGRIEVIVP--KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           DED  RIEV+VP    QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQ DF   T
Sbjct: 304 DEDRERIEVVVPDTNNQLSLAIGRRGQNVRLASQLTGWDIDILTEQEESERRQADFENAT 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM+ +NVDE++  LL +EGF  VEEL  V   EIA IEGFD+ETA E+Q RAREYLE 
Sbjct: 364 RMFMETLNVDEVVGQLLASEGFTSVEELTLVDTREIAGIEGFDDETATELQNRAREYLEQ 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           ++  L+ + +ELGV + L ++PG+ SK+ V LGEN ++T+EDLAGC+ DDL+GW+E K G
Sbjct: 424 LEAELENRRKELGVDDALKTVPGVTSKMLVKLGENEVRTIEDLAGCATDDLVGWTERKEG 483

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
              K  G+   +   ++  E++I+ AR  +GWI +  +A
Sbjct: 484 EAVKHAGYFDGIEISREDAEAIIMQARLSVGWINEADLA 522


>gi|192288873|ref|YP_001989478.1| transcription elongation factor NusA [Rhodopseudomonas palustris
           TIE-1]
 gi|192282622|gb|ACE99002.1| NusA antitermination factor [Rhodopseudomonas palustris TIE-1]
          Length = 537

 Score =  664 bits (1713), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 325/523 (62%), Positives = 410/523 (78%), Gaps = 3/523 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK+IDR +V++ M D+I KAAR+ YG+ +D+  EI+P+ G++ 
Sbjct: 3   VSANRLELLQIADAVAREKTIDRSIVIAAMEDAIAKAARARYGSETDVHAEIDPKKGELR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VVE+VEN   QISLK A+  +P   IG  ++D LPP+++GR+A QSAKQVI+QK
Sbjct: 63  LSRHMLVVEQVENPANQISLKDAQRANPGAQIGDTIADTLPPLEYGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY+EFKD++G+I++G VKRVEYG+VIVDLG  + +IRRDE + RE+ R GDR
Sbjct: 123 VREAERDRQYMEFKDRIGDIVNGVVKRVEYGSVIVDLGRGEAIIRRDEMLPRESFRNGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y++DVRRE RGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 183 VRAYVFDVRRETRGPQIFLSRTHPQFMAKLFAQEVPEIYDGIVEIKAVARDPGSRAKIGV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V+KVV+
Sbjct: 243 VSRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVSKVVI 302

Query: 302 DEDVGRIEVIVP--KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           DED  RIEV+VP    QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQ DF + T
Sbjct: 303 DEDRERIEVVVPDTNNQLSLAIGRRGQNVRLASQLTGWDIDILTESEESERRQADFEKTT 362

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM A+NVDE++  LL +EGF  VEELA V   E+ASIEGFDEETA E+Q RA EYL+ 
Sbjct: 363 RAFMDALNVDEVVGQLLASEGFTSVEELALVDPRELASIEGFDEETAAELQTRASEYLDR 422

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK-G 478
           I+  L+ +  ELGV + L  +PG+ SK+ V  GEN +KT+EDLAGC+ DDL+GW+E K G
Sbjct: 423 IESELEARRLELGVEDALKDVPGVTSKMLVKFGENDVKTVEDLAGCATDDLVGWTERKDG 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEE 521
               K+ G L  +   ++  E +I+ AR K GWI++ ++A EE
Sbjct: 483 AEPVKYPGILDGMEMSREDAEHLIMQARVKAGWIDESELASEE 525


>gi|91974715|ref|YP_567374.1| transcription elongation factor NusA [Rhodopseudomonas palustris
           BisB5]
 gi|91681171|gb|ABE37473.1| NusA antitermination factor [Rhodopseudomonas palustris BisB5]
          Length = 540

 Score =  664 bits (1712), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 322/520 (61%), Positives = 409/520 (78%), Gaps = 3/520 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSAN+LELLQIADAVA EKSIDR +V++ M D+I KAAR+ YG+ +D+  EI+ + G++ 
Sbjct: 3   VSANKLELLQIADAVAREKSIDRGIVIAAMEDAIAKAARARYGSETDVHAEIDAKKGELR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VV++VEN   QISLK A+  +P   IG  ++D LPP+++GR+A QSAKQVI+QK
Sbjct: 63  LSRHMLVVDKVENAANQISLKDAQRANPGAQIGDTIADTLPPLEYGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY+EFKD++G++++G VKRVEYG+VIVDLG  + ++RRDE + RE+ R GDR
Sbjct: 123 VREAERDRQYMEFKDRIGDVVNGVVKRVEYGSVIVDLGRGEAIVRRDEMLPRESFRNGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YI+DVRRE RGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 183 VRAYIFDVRRETRGPQIFLSRTHPQFMAKLFQQEVPEIYDGIVEIKAVARDPGSRAKIGV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V+KVV+
Sbjct: 243 VSRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVSKVVI 302

Query: 302 DEDVGRIEVIVP--KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           DED  RIEV+VP    QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQ DF   T
Sbjct: 303 DEDRERIEVVVPDTNNQLSLAIGRRGQNVRLASQLTGWDIDILTETEESERRQADFENST 362

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM+A+NVDE++  LL +EGF  VEELA V I E+ASIEGFDEETA E+Q RA EYL+ 
Sbjct: 363 RVFMEALNVDEVVGQLLASEGFTSVEELAMVDIRELASIEGFDEETATELQARAAEYLDR 422

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK-G 478
           ++  L+ + +ELGV + L  +PG+ SK+ V LGE  +KT+EDLAGC+ DDL+GW+E K G
Sbjct: 423 VETELEARRQELGVEDALKDVPGVTSKMLVKLGEGDVKTVEDLAGCATDDLVGWTERKEG 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
               K+ G L  +   +D  E +I+ AR K GWI +E++A
Sbjct: 483 AEPVKYAGILDGVEMTRDDAEHLIMQARVKAGWITEEELA 522


>gi|86747724|ref|YP_484220.1| transcription elongation factor NusA [Rhodopseudomonas palustris
           HaA2]
 gi|86570752|gb|ABD05309.1| NusA antitermination factor [Rhodopseudomonas palustris HaA2]
          Length = 539

 Score =  663 bits (1711), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 327/521 (62%), Positives = 408/521 (78%), Gaps = 4/521 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSAN+LELLQIADAVA EKSIDR +V++ M D+I KAAR+ YG+ +D+  EI+ + G++ 
Sbjct: 3   VSANKLELLQIADAVAREKSIDRGIVIAAMEDAIAKAARARYGSETDVHAEIDAKKGELR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VVE VEN   QISLK A+  +P   IG  ++D LPP+++GR+A QSAKQVI+QK
Sbjct: 63  LSRHMLVVENVENPANQISLKAAQRANPGAQIGDTIADTLPPLEYGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++G+I++G VKRVEYG+VIVDLG  + ++RRDE + RE+ R GDR
Sbjct: 123 VREAERDRQYSEFKDRIGDIVNGVVKRVEYGSVIVDLGRGEAIVRRDEMLPRESFRNGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YI+DVRRE RGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 183 VRAYIFDVRRETRGPQIFLSRTHPQFMAKLFAQEVPEIYDGIVEIKAVARDPGSRAKIGV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V+KVV+
Sbjct: 243 VSRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVSKVVI 302

Query: 302 DEDVGRIEVIVP--KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           DED  RIEV+VP    QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQ DF   T
Sbjct: 303 DEDRERIEVVVPDTNNQLSLAIGRRGQNVRLASQLTGWDIDILTETEESERRQADFENST 362

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM+A+NVDE++  LL +EGF  VEELA V I E+ASIEGFDEETA E+Q RA EYL+ 
Sbjct: 363 RVFMEALNVDEVVGQLLASEGFTSVEELALVDIRELASIEGFDEETATELQARASEYLDR 422

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK-G 478
           ++  ++ +  ELGV + L  +PGI SKI V LGE  +KT+EDLAGC+ DDL+GW+E K G
Sbjct: 423 VETEMEARRLELGVEDALKDVPGITSKILVKLGEGDVKTVEDLAGCATDDLVGWTERKEG 482

Query: 479 GNIEKFDGFLSSL-GTPKDQVESMIIHARYKMGWIEKEKVA 518
               KF G L  + G  +D+ E +I+ AR K GWI +E++A
Sbjct: 483 AEPVKFAGILDGVEGVTRDEAEDLIMQARVKAGWITEEELA 523


>gi|148251679|ref|YP_001236264.1| transcription elongation factor NusA [Bradyrhizobium sp. BTAi1]
 gi|146403852|gb|ABQ32358.1| NusA antitermination factor [Bradyrhizobium sp. BTAi1]
          Length = 537

 Score =  662 bits (1709), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 324/526 (61%), Positives = 408/526 (77%), Gaps = 3/526 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR +V++ M D+I KAAR+ YG+ +D+  EI+P  G++ 
Sbjct: 3   VSANRLELLQIADAVAREKSIDRGIVIAAMEDAIAKAARARYGSETDVHAEIDPRRGELR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VVE+VEN + QISL  AR  +P   IG  ++D LPP+++GR+A QSAKQVI+QK
Sbjct: 63  LSRHMLVVEKVENPSNQISLDDARRANPGAQIGDTIADTLPPLEYGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++G+I++G VKRVEYG+VI+DLG  + +IRRDE + RE  R GDR
Sbjct: 123 VREAERDRQYQEFKDRIGDIVNGVVKRVEYGSVILDLGRGEAIIRRDEMLPREVFRNGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y++DVRRE RGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 183 VRAYVFDVRRETRGPQIFLSRTHPQFMAKLFAQEVPEIYDGIVEIKAVARDPGSRAKIGV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V KVV+
Sbjct: 243 VSRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVAKVVI 302

Query: 302 DEDVGRIEVIVP--KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           DED  RIEV+VP    QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQ DF   T
Sbjct: 303 DEDRERIEVVVPDTNNQLSLAIGRRGQNVRLASQLTGWDIDILTEQEESERRQADFENST 362

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM+++NVDE++  LL +EGF  VEELA V + ++A IEGFDEETA E+Q RARE+LE 
Sbjct: 363 RVFMESLNVDEVVGQLLASEGFTSVEELALVDLKDLAGIEGFDEETATELQTRAREFLEQ 422

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK-G 478
            +  L+ K +ELGV + + ++PG+ SK+ V  GEN IKT++DLAGC+ DDL+GW+E K  
Sbjct: 423 QEAELEAKRKELGVEDAVKTVPGVTSKMLVKFGENDIKTVDDLAGCATDDLVGWTERKDS 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQD 524
           G   K  G L  L   +D  E+M++ AR K GWI +  +A  E +D
Sbjct: 483 GEQTKHAGILDGLEVSRDDAEAMVMQARVKAGWISEADIAKPEAED 528


>gi|170740831|ref|YP_001769486.1| NusA antitermination factor [Methylobacterium sp. 4-46]
 gi|168195105|gb|ACA17052.1| NusA antitermination factor [Methylobacterium sp. 4-46]
          Length = 544

 Score =  662 bits (1707), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 327/525 (62%), Positives = 407/525 (77%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           +VSANRLELLQIADAVA EK IDR +V+  M ++I KAARS YG  +D+  EI+P TG +
Sbjct: 3   VVSANRLELLQIADAVAREKVIDRSIVIGAMEEAIAKAARSRYGAETDVHAEIDPRTGAL 62

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            L R L VVE+VEN   +I L+ AR  +P+  IG V++D LPP DFGRVA QSAKQVI+Q
Sbjct: 63  RLSRHLLVVEQVENDAREIDLETARRHNPAAQIGDVIADTLPPFDFGRVAAQSAKQVIVQ 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVR+AERDRQY E+KD++GEI++G VKRVEYGN IVDLG  +G++RRDE+I RE  RPGD
Sbjct: 123 KVRDAERDRQYEEYKDRIGEIVNGLVKRVEYGNTIVDLGRGEGIVRRDESIPRETFRPGD 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+++Y++DVRRE RGPQ+ LSR+HPQFM KLF  EVPEIY+GIV+VKAV+RDPGSRAK+A
Sbjct: 183 RIRAYLFDVRREVRGPQIFLSRSHPQFMAKLFAQEVPEIYDGIVEVKAVARDPGSRAKIA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATF++NAL+PA V KVV
Sbjct: 243 VISRDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSQDQATFIVNALQPAEVVKVV 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDE+  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F ERT 
Sbjct: 303 LDEEADRIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESERRQKEFVERTN 362

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FMQA++VDE +  LL AEGF  VEE+A V+  +IA+I+G DEET  EIQ RA+EYL  I
Sbjct: 363 TFMQALDVDETVGQLLAAEGFRSVEEIAYVEPGDIANIQGLDEETGAEIQSRAQEYLARI 422

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +     + RELGV +EL  I GI + + VALGEN ++T+EDLAGC+ DDL+G++E +G  
Sbjct: 423 EAENDARRRELGVEDELREIDGITTPMMVALGENEVRTVEDLAGCATDDLVGYTEGRGPE 482

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
             +  G+L      + + E+MI+ AR + GWIE  + A  E + A
Sbjct: 483 AVRHPGYLDGFDLSRAEAEAMIVAARVRAGWIEAPEEAPAEDEQA 527


>gi|85714177|ref|ZP_01045166.1| transcription elongation factor NusA [Nitrobacter sp. Nb-311A]
 gi|85699303|gb|EAQ37171.1| transcription elongation factor NusA [Nitrobacter sp. Nb-311A]
          Length = 535

 Score =  662 bits (1707), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 320/519 (61%), Positives = 406/519 (78%), Gaps = 2/519 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSAN+LELLQIADAVA EKSIDR +V++ M D+I KAAR+ YG+ +D+  EI+P+TG + 
Sbjct: 4   VSANKLELLQIADAVAREKSIDRSIVIAAMEDAIAKAARARYGSETDVHAEIHPKTGQLQ 63

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VV++VEN   QISLK A+  +P   +G  ++D LPP+++GR++ QSAKQVI+QK
Sbjct: 64  LTRHMLVVDQVENAANQISLKDAQRANPGAQVGDTIADTLPPLEYGRISAQSAKQVIVQK 123

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++G+I++G VKRVEYG+VIVDLG  + VIRRDE + RE  R GDR
Sbjct: 124 VREAERDRQYQEFKDRIGDIVNGIVKRVEYGSVIVDLGRGEAVIRRDEMLPREVFRNGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YI+DVRRE RGPQ+ LSRTHPQFMVKLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 184 VRAYIFDVRRETRGPQIFLSRTHPQFMVKLFAQEVPEIYDGIVEIKAVARDPGSRAKIGV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V KVV+
Sbjct: 244 VSRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVAKVVI 303

Query: 302 DEDVGRIEVIVP--KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           DED  RIEV+VP    QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQ DF   T
Sbjct: 304 DEDRERIEVVVPDTNNQLSLAIGRRGQNVRLASQLTGWDIDILTEQEESERRQADFENAT 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM+A+NVDE++  LL +EGF  VEEL  V   EIA IEGFD+ETA E+Q RAREYLE 
Sbjct: 364 RMFMEALNVDEVVGQLLASEGFTSVEELTLVDAREIAGIEGFDDETANELQNRAREYLEQ 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           ++  L+ + +ELGV + + ++PG+ SK+ V LGEN ++T+EDLAGC+ DDL+GW+E K G
Sbjct: 424 LEAELENRRKELGVDDAMKTVPGVTSKMLVKLGENDVRTVEDLAGCATDDLIGWTERKEG 483

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
              K  G+   +   ++  E++I+ AR   GWI +  +A
Sbjct: 484 EAVKHAGYFDGIEISREDAEAIIMQARLIAGWITEADLA 522


>gi|154244252|ref|YP_001415210.1| transcription elongation factor NusA [Xanthobacter autotrophicus
           Py2]
 gi|154158337|gb|ABS65553.1| NusA antitermination factor [Xanthobacter autotrophicus Py2]
          Length = 531

 Score =  660 bits (1704), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 314/512 (61%), Positives = 405/512 (79%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR +V++ M D+I KAARS YG  +DI  +IN +TG++ 
Sbjct: 4   VSANRLELLQIADAVAREKSIDRSIVIAAMEDAIAKAARSRYGQETDIHADINAKTGELR 63

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R L VV+EVEN   +I+L  AR  +P+  +G  ++D LPP DFGR+A QSAKQVI+QK
Sbjct: 64  LARHLLVVDEVENTATEITLDGARRHNPAAQVGDTIADTLPPFDFGRIAAQSAKQVIVQK 123

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD++G++++G VKRVEYGNV+VDLG  +G++RRDE + RE ++ GDR
Sbjct: 124 VREAERDRQYDEYKDRIGDVVNGLVKRVEYGNVVVDLGRGEGILRRDELLPRETVKTGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++Y+YDVRRE RGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+AV
Sbjct: 184 IRAYVYDVRREPRGPQIFLSRTHPQFMAKLFAQEVPEIYDGIVEIKAVARDPGSRAKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D S+DPVGACVGMRGSRVQAVV EL+ EKIDI+ W+PD ATF++NAL PA V KVVL
Sbjct: 244 ISRDQSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNPDIATFIVNALAPAEVVKVVL 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP  QLSLAIGRRGQNVRLA+QLTGW IDI+TE+E+S  RQK+F ERT+ 
Sbjct: 304 DEDRERIEVVVPDAQLSLAIGRRGQNVRLATQLTGWDIDIMTEQEESERRQKEFAERTKM 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F +A+++DE++  LL +EGF  VEE+A V++ E+ASIEGFDE+TA E+Q RA ++L  ++
Sbjct: 364 FAEALDLDEMMGQLLTSEGFTSVEEIAYVQLQELASIEGFDEDTAAELQARALKHLAEVE 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L  +  ELGV ++L S+PG+ SK+ VA GEN IK++EDLAGC+ DDL+GW+E K G  
Sbjct: 424 EALDARRIELGVDDDLKSVPGVTSKMLVAFGENDIKSVEDLAGCATDDLIGWTERKDGET 483

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
            +  G L      ++  E++++ AR   GWIE
Sbjct: 484 VRHAGALDGFELSREDAEALVMQARVAAGWIE 515


>gi|90422002|ref|YP_530372.1| transcription elongation factor NusA [Rhodopseudomonas palustris
           BisB18]
 gi|90104016|gb|ABD86053.1| NusA antitermination factor [Rhodopseudomonas palustris BisB18]
          Length = 541

 Score =  660 bits (1703), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 325/514 (63%), Positives = 405/514 (78%), Gaps = 3/514 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSAN+LELLQIADAVA EKSIDR +V++ M D+I KAAR+ YG+ +D+  EI+ + G++ 
Sbjct: 4   VSANKLELLQIADAVAREKSIDRSIVIAAMEDAIAKAARARYGSETDVHAEIDAKKGELR 63

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VVEEVEN + QISLK A+  +P   IG  ++D LPP+++GR+A QSAKQVI+QK
Sbjct: 64  LSRHMLVVEEVENSSNQISLKDAQRANPGAQIGDTIADTLPPLEYGRIAAQSAKQVIVQK 123

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++G+I++G VKRVEYG+VIVDLG  + ++RRDE + RE  R GDR
Sbjct: 124 VREAERDRQYQEFKDRIGDIVNGVVKRVEYGSVIVDLGRGEAIVRRDEMLPREVFRNGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YI+DVRRE RGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 184 VRAYIFDVRRETRGPQIFLSRTHPQFMAKLFAQEVPEIYDGIVEIKAVARDPGSRAKIGV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V+KVV+
Sbjct: 244 ISRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVSKVVI 303

Query: 302 DEDVGRIEVIVP--KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           DED  RIEV+VP    QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQ DF   T
Sbjct: 304 DEDRERIEVVVPDTNNQLSLAIGRRGQNVRLASQLTGWDIDILTETEESERRQADFENST 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM+++NVDE++  LL +EGF  VEELA V + E+ASIEGFD+ETA E+Q RAREYLE 
Sbjct: 364 RVFMESLNVDEVVGQLLASEGFTSVEELAMVDVRELASIEGFDDETANELQSRAREYLEQ 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK-G 478
           ++  L+ K +ELGV + L ++PG+ SK+ V  GEN IKT+EDLAGC+ DDL+GWSE K G
Sbjct: 424 LESELEAKRKELGVEDALKTVPGVTSKMLVKFGENDIKTVEDLAGCATDDLVGWSERKEG 483

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
           G   KF G L +    +   E++I+ AR   GWI
Sbjct: 484 GEPVKFPGILDANEISRADAETLIMQARVIAGWI 517


>gi|220924484|ref|YP_002499786.1| NusA antitermination factor [Methylobacterium nodulans ORS 2060]
 gi|219949091|gb|ACL59483.1| NusA antitermination factor [Methylobacterium nodulans ORS 2060]
          Length = 536

 Score =  660 bits (1702), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 325/525 (61%), Positives = 408/525 (77%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           +VSANRLELLQIADAVA EK IDR +V+  M ++I KAARS YG  +D+  EI+P TG +
Sbjct: 3   VVSANRLELLQIADAVAREKVIDRSIVIGAMEEAIAKAARSRYGAETDVHAEIDPRTGAL 62

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            L R + VV++VEN   +I L+ AR  +P+  +G V++D LPP DFGRVA QSAKQVI+Q
Sbjct: 63  RLSRHMLVVDQVENDAREIDLETARRHNPAAQVGDVIADTLPPFDFGRVAAQSAKQVIVQ 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVR+AERDRQY E+KD++GEI++G VKRVEYGNVIVDLG  +G++RRDE+I RE  RPGD
Sbjct: 123 KVRDAERDRQYEEYKDRIGEIVNGLVKRVEYGNVIVDLGRGEGIVRRDESIPRETFRPGD 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+++Y++DVRRE RGPQ+ LSR+HPQFM KLF  EVPEIY+GIV+VKAV+RDPGSRAK+A
Sbjct: 183 RIRAYLFDVRREVRGPQIFLSRSHPQFMAKLFAQEVPEIYDGIVEVKAVARDPGSRAKIA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATF++NAL+PA V KVV
Sbjct: 243 VISRDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSQDQATFIVNALQPAEVVKVV 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDE+  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F ERT 
Sbjct: 303 LDEEADRIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESERRQKEFIERTN 362

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+A++VDE +  LL AEGF  VEE+A V+  +IA+I+G DEET  EIQ RAR+YL  I
Sbjct: 363 AFMEALDVDETVGQLLAAEGFRSVEEIAYVEPGDIANIQGLDEETGAEIQTRARDYLARI 422

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +     + +ELGVS+EL  I GI + + VALGEN +KT+EDLAGC+ DDL+G++E +G  
Sbjct: 423 ESENDARRKELGVSDELREIDGITTPMLVALGENDVKTIEDLAGCATDDLVGYTEGRGAE 482

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
             +  G+L      + + E+MI+ AR + GWIE    A  E + A
Sbjct: 483 AVRHAGYLDGFDLSRAEAEAMIVAARVRAGWIEAAPEAPAEDEQA 527


>gi|298293854|ref|YP_003695793.1| transcription termination factor NusA [Starkeya novella DSM 506]
 gi|296930365|gb|ADH91174.1| transcription termination factor NusA [Starkeya novella DSM 506]
          Length = 536

 Score =  659 bits (1699), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 319/512 (62%), Positives = 399/512 (77%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           +VSANRLELLQIADAVA EKSIDR +V++ M D+I KAARS YG  +DI  EI+P TG++
Sbjct: 3   VVSANRLELLQIADAVAREKSIDRSIVIAAMEDAIAKAARSRYGAETDIHAEISPRTGEL 62

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            L R L VV++V+N   +I L  AR  +P+  +G  ++D LPP DFGR+A QSAKQVI+Q
Sbjct: 63  RLARHLLVVDQVDNPAVEIDLDGARRLNPAAQVGDSIADTLPPFDFGRIAAQSAKQVIVQ 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVREAERDRQY E+KD++GEI +G VKRVEYGNV+VDLG  +  +RRDE + RE  + GD
Sbjct: 123 KVREAERDRQYEEYKDRIGEITNGAVKRVEYGNVVVDLGRGEASLRRDELLPREVFKTGD 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+++Y+YDVRREQRGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+A
Sbjct: 183 RIRAYVYDVRREQRGPQIFLSRTHPQFMAKLFAQEVPEIYDGIVEIKAVARDPGSRAKIA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATF++NAL PA V KVV
Sbjct: 243 VTSRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDVATFIVNALAPAEVVKVV 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDED  RIEV+VP  QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F ERT+
Sbjct: 303 LDEDRERIEVVVPDAQLSLAIGRRGQNVRLASQLTGWDIDIMTEAEESERRQKEFAERTK 362

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F +A+++DE++  LL +EGFA VEE+A V ++E+ASIEGFDE+TA E+Q RA  +L  I
Sbjct: 363 MFAEALDLDEMMGQLLASEGFASVEEIAYVPVNELASIEGFDEDTAQELQNRALNHLAQI 422

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +  L  + +ELGV + L  +PG+ S + VA GEN IKT+EDLAGC+ DDL GW+E K G 
Sbjct: 423 EADLDARRKELGVEDALREVPGVTSAMLVAFGENDIKTVEDLAGCATDDLTGWTERKDGE 482

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
             +  G L      ++  E++I+ AR + GWI
Sbjct: 483 TVRIAGALDGFDLSREDAEALIMQARVRAGWI 514


>gi|188582066|ref|YP_001925511.1| NusA antitermination factor [Methylobacterium populi BJ001]
 gi|179345564|gb|ACB80976.1| NusA antitermination factor [Methylobacterium populi BJ001]
          Length = 560

 Score =  651 bits (1679), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 318/513 (61%), Positives = 402/513 (78%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           +VSANRLELLQIADAVA EK IDR +V+  M ++I KAARS YG  +D+  EI+P++G +
Sbjct: 3   VVSANRLELLQIADAVAREKVIDRQIVIEAMEEAIAKAARSRYGAETDVHAEIDPKSGAL 62

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            L R L VV++VEN   +I+L  AR  +P   +G V+SD LPP DFGRVA QSAKQVI+Q
Sbjct: 63  RLSRHLLVVDQVENDAREITLDQARRYNPGALVGDVISDTLPPFDFGRVAAQSAKQVIVQ 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVR+AER RQY E+KD++GEI++G VKRVEYGNVIVDLG  +G++RRDE I RE  RPGD
Sbjct: 123 KVRDAERARQYDEYKDRIGEILNGVVKRVEYGNVIVDLGRGEGIVRRDEMIPRETFRPGD 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+++Y++DVR E RGPQ+ LSR+HPQFM KLF  EVPEIY+GIV+VKAV+RDPGSRAK+A
Sbjct: 183 RIRAYLFDVRSEVRGPQIFLSRSHPQFMAKLFGQEVPEIYDGIVEVKAVARDPGSRAKIA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATF++NAL+PA V KVV
Sbjct: 243 VISRDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSEDQATFIVNALQPAEVVKVV 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDE+  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F ERTQ
Sbjct: 303 LDEEADRIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESERRQKEFAERTQ 362

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+A++VDE +  LL AEGF +VEE+A V ++E+++I+G DEET  EIQ RA++YL  I
Sbjct: 363 VFMEALDVDETVGQLLAAEGFRNVEEIAFVDVAELSNIQGLDEETGAEIQARAQDYLARI 422

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +     + RELGV +EL  I G+ + + VALGEN +KT+EDLAGC+ DDL+G++E +G  
Sbjct: 423 EQEQDDRRRELGVEDELREIDGVTTAMMVALGENEVKTVEDLAGCATDDLVGYTEGRGPE 482

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
             +  G+L      + + E++I+ AR   GWIE
Sbjct: 483 AVRHAGYLDGFELSRAEAEALIMAARLHAGWIE 515


>gi|170750127|ref|YP_001756387.1| NusA antitermination factor [Methylobacterium radiotolerans JCM
           2831]
 gi|170656649|gb|ACB25704.1| NusA antitermination factor [Methylobacterium radiotolerans JCM
           2831]
          Length = 545

 Score =  650 bits (1676), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 320/513 (62%), Positives = 401/513 (78%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           +VSANRLELLQIADAVA EK IDR +V+  M ++I KAARS YG  +D+  EI+P+TG +
Sbjct: 3   VVSANRLELLQIADAVAREKVIDRSIVIDAMEEAIAKAARSRYGAETDVHAEIDPKTGAL 62

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            L R L VV++VEN   +I+L  AR  +P   +G V+SD LPP DFGRVA QSAKQVI+Q
Sbjct: 63  RLSRHLLVVDQVENDAREITLDQARRYNPGALVGDVISDTLPPFDFGRVAAQSAKQVIVQ 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVR+AER RQ+ E+KD++GEI++G VKRVEYGNVIVDLG  +G++RRDE I RE  RPGD
Sbjct: 123 KVRDAERARQFDEYKDRIGEILNGIVKRVEYGNVIVDLGRGEGIVRRDEMIPRETFRPGD 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R++SY++DVR E RGPQ+ LSR+HPQFM KLF  EVPEIY+GIV+VKAV+RDPGSRAK+A
Sbjct: 183 RIRSYLFDVRSEVRGPQIFLSRSHPQFMAKLFGQEVPEIYDGIVEVKAVARDPGSRAKIA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATF++NAL+PA V KVV
Sbjct: 243 VISRDGSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSEDEATFIVNALQPAEVVKVV 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDE+  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F ERTQ
Sbjct: 303 LDEEADRIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESERRQKEFAERTQ 362

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+A++VDE +  LL AEGF +VEE+A V I E++ I+G DEET  EIQ RA+++L  I
Sbjct: 363 VFMEALDVDETVGQLLAAEGFRNVEEIAYVDIQELSGIQGLDEETGTEIQARAQDHLARI 422

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +     +  ELGVS+EL  I GI + + VALGEN +KT+EDLAGC+ DDL+G++E +G +
Sbjct: 423 EQAHDARRTELGVSDELREIEGITTPMMVALGENDVKTVEDLAGCATDDLVGYTEGRGPD 482

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
             +  G+L      + + E++I+ AR K GWIE
Sbjct: 483 AVRHAGYLDGFDLSRAEAEALIMAARLKAGWIE 515


>gi|240139447|ref|YP_002963922.1| transcription termination/antitermination L factor
           [Methylobacterium extorquens AM1]
 gi|240009419|gb|ACS40645.1| transcription termination/antitermination L factor
           [Methylobacterium extorquens AM1]
          Length = 545

 Score =  647 bits (1668), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 318/513 (61%), Positives = 402/513 (78%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           +VSANRLELLQIA+AVA EK IDR +V+  M ++I KAARS YG  +D+  EI+ ++G +
Sbjct: 3   VVSANRLELLQIAEAVAREKVIDRQIVIEAMEEAIAKAARSRYGAETDVHAEIDTKSGAL 62

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            L R L VV++VEN   +I+L  AR  +P   IG V+SD LPP DFGRVA QSAKQVI+Q
Sbjct: 63  RLSRHLLVVDQVENDAREITLDQARRYNPGALIGDVISDTLPPFDFGRVAAQSAKQVIVQ 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVR+AER RQY E+KD++GEI++G VKRVEYGNVIVDLG  +G++RRDE I RE  RPGD
Sbjct: 123 KVRDAERARQYDEYKDRIGEILNGVVKRVEYGNVIVDLGRGEGIVRRDEMIPRETFRPGD 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+++Y++DVR E RGPQ+ LSR+HPQFM KLF  EVPEIY+GIV+VKAV+RDPGSRAK+A
Sbjct: 183 RIRAYLFDVRSEVRGPQIFLSRSHPQFMAKLFGQEVPEIYDGIVEVKAVARDPGSRAKIA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATF++NAL+PA V KVV
Sbjct: 243 VISRDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSEDQATFIVNALQPAEVVKVV 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDE+  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F ERTQ
Sbjct: 303 LDEEADRIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESERRQKEFAERTQ 362

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+A++VDE +  LL AEGF +VEE+A V ++E+++I+G DEET  EIQ RA++YL  I
Sbjct: 363 AFMEALDVDETVGQLLAAEGFRNVEEIAFVDVAELSNIQGLDEETGAEIQARAQDYLARI 422

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +     + RELGV +EL  I GI + + VALGEN +KT+EDLAGC+ DDL+G++E +G  
Sbjct: 423 EQEQDDRRRELGVEDELREIDGITTAMMVALGENEVKTVEDLAGCATDDLVGYTEGRGPE 482

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
             +  G+L      + + E++I+ AR K GWI+
Sbjct: 483 AVRHAGYLDGFELSRAEAEALIMAARLKAGWID 515


>gi|163852118|ref|YP_001640161.1| transcription termination factor NusA [Methylobacterium extorquens
           PA1]
 gi|163663723|gb|ABY31090.1| transcription termination factor NusA [Methylobacterium extorquens
           PA1]
          Length = 545

 Score =  647 bits (1668), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 318/513 (61%), Positives = 402/513 (78%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           +VSANRLELLQIA+AVA EK IDR +V+  M ++I KAARS YG  +D+  EI+ ++G +
Sbjct: 3   VVSANRLELLQIAEAVAREKVIDRQIVIEAMEEAIAKAARSRYGAETDVHAEIDTKSGAL 62

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            L R L VV++VEN   +I+L  AR  +P   IG V+SD LPP DFGRVA QSAKQVI+Q
Sbjct: 63  RLSRHLLVVDQVENDAREITLDQARRYNPGALIGDVISDTLPPFDFGRVAAQSAKQVIVQ 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVR+AER RQY E+KD++GEI++G VKRVEYGNVIVDLG  +G++RRDE I RE  RPGD
Sbjct: 123 KVRDAERARQYDEYKDRIGEILNGVVKRVEYGNVIVDLGRGEGIVRRDEMIPRETFRPGD 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+++Y++DVR E RGPQ+ LSR+HPQFM KLF  EVPEIY+GIV+VKAV+RDPGSRAK+A
Sbjct: 183 RIRAYLFDVRSEVRGPQIFLSRSHPQFMAKLFGQEVPEIYDGIVEVKAVARDPGSRAKIA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATF++NAL+PA V KVV
Sbjct: 243 VISRDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSEDQATFIVNALQPAEVVKVV 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDE+  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F ERTQ
Sbjct: 303 LDEEADRIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESERRQKEFAERTQ 362

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+A++VDE +  LL AEGF +VEE+A V ++E+++I+G DEET  EIQ RA++YL  I
Sbjct: 363 AFMEALDVDETVGQLLAAEGFRNVEEIAFVDVAELSNIQGLDEETGAEIQARAQDYLARI 422

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +     + RELGV +EL  I GI + + VALGEN +KT+EDLAGC+ DDL+G++E +G  
Sbjct: 423 EQEQDDRRRELGVEDELREIDGITTAMMVALGENEVKTVEDLAGCATDDLVGYTEGRGPE 482

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
             +  G+L      + + E++I+ AR K GWI+
Sbjct: 483 AVRHAGYLDGFELSRAEAEALIMAARLKAGWID 515


>gi|218530876|ref|YP_002421692.1| NusA antitermination factor [Methylobacterium chloromethanicum CM4]
 gi|254561862|ref|YP_003068957.1| transcription termination/antitermination L factor
           [Methylobacterium extorquens DM4]
 gi|218523179|gb|ACK83764.1| NusA antitermination factor [Methylobacterium chloromethanicum CM4]
 gi|254269140|emb|CAX25104.1| transcription termination/antitermination L factor
           [Methylobacterium extorquens DM4]
          Length = 545

 Score =  647 bits (1668), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 318/513 (61%), Positives = 402/513 (78%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           +VSANRLELLQIA+AVA EK IDR +V+  M ++I KAARS YG  +D+  EI+ ++G +
Sbjct: 3   VVSANRLELLQIAEAVAREKVIDRQIVIEAMEEAIAKAARSRYGAETDVHAEIDTKSGAL 62

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            L R L VV++VEN   +I+L  AR  +P   IG V+SD LPP DFGRVA QSAKQVI+Q
Sbjct: 63  RLSRHLLVVDQVENDAREITLDQARRYNPGALIGDVISDTLPPFDFGRVAAQSAKQVIVQ 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVR+AER RQY E+KD++GEI++G VKRVEYGNVIVDLG  +G++RRDE I RE  RPGD
Sbjct: 123 KVRDAERARQYDEYKDRIGEILNGVVKRVEYGNVIVDLGRGEGIVRRDEMIPRETFRPGD 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+++Y++DVR E RGPQ+ LSR+HPQFM KLF  EVPEIY+GIV+VKAV+RDPGSRAK+A
Sbjct: 183 RIRAYLFDVRSEVRGPQIFLSRSHPQFMAKLFGQEVPEIYDGIVEVKAVARDPGSRAKIA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATF++NAL+PA V KVV
Sbjct: 243 VISRDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSEDQATFIVNALQPAEVVKVV 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDE+  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F ERTQ
Sbjct: 303 LDEEADRIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESERRQKEFAERTQ 362

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+A++VDE +  LL AEGF +VEE+A V ++E+++I+G DEET  EIQ RA++YL  I
Sbjct: 363 AFMEALDVDETVGQLLAAEGFRNVEEIAFVDVAELSNIQGLDEETGAEIQARAQDYLARI 422

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +     + RELGV +EL  I GI + + VALGEN +KT+EDLAGC+ DDL+G++E +G  
Sbjct: 423 EQEQDDRRRELGVEDELREIDGITTAMMVALGENEVKTVEDLAGCATDDLVGYTEGRGPE 482

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
             +  G+L      + + E++I+ AR K GWI+
Sbjct: 483 AVRHAGYLDGFELSRAEAEALIMAARLKAGWID 515


>gi|304392764|ref|ZP_07374704.1| transcription elongation protein NusA [Ahrensia sp. R2A130]
 gi|303295394|gb|EFL89754.1| transcription elongation protein NusA [Ahrensia sp. R2A130]
          Length = 553

 Score =  645 bits (1664), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 317/516 (61%), Positives = 412/516 (79%), Gaps = 2/516 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           V+ANRLEL+QIADAVA EKSIDR +VL  MAD+I+KAA++ YG  ++IR +IN +TG+I 
Sbjct: 3   VAANRLELMQIADAVAREKSIDRKIVLDAMADAIEKAAKARYGLETNIRADINEKTGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL VVE+VE+   +I L  A+ ++ + ++G  + + LPPMDFGRVA QSAKQVI+QK
Sbjct: 63  LQRLLLVVEKVEDPDTEILLADAKHKNEAAELGVHIGELLPPMDFGRVAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AERDRQ+ EF+++ GEII+GTVKRVEYGNVIVDLG ++ +IRRDE I RE  R GDR
Sbjct: 123 VRDAERDRQFAEFENRTGEIINGTVKRVEYGNVIVDLGRAEAIIRRDELIPREMYRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YIYDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+G+++++AV+RDPGSRAK+AV
Sbjct: 183 VRAYIYDVRREQRGPQIFLSRTHPQFMAKLFQMEVPEIYDGVIEIRAVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DS IDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS ++A F++NAL+PA V KVVL
Sbjct: 243 ISNDSGIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSEEAAGFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TEEE+S  RQ +F+  T  
Sbjct: 303 DEDKARIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDILTEEEESGRRQAEFSANTST 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F +A+NVDE++  LL +EGF+D+EE+A V+  E+A IEGFD++TA E+Q RA+E+LE  +
Sbjct: 363 FTEALNVDEMVGQLLASEGFSDLEEVAYVEQDELAMIEGFDDDTAAELQARAKEFLEKKE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENG--IKTMEDLAGCSVDDLLGWSENKGG 479
             L  K +ELGV+++L  +PGI + + VALGE+   IK++ED AG   DDL+G++E K G
Sbjct: 423 QGLDAKRKELGVADDLRQVPGITTAMMVALGESDEEIKSLEDFAGSVADDLIGYNERKDG 482

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
            + +  G LS+ G  + Q + MI+ AR + GW+ +E
Sbjct: 483 ELIRHTGPLSTFGLSRVQADEMIMAARIEAGWVTEE 518


>gi|304320433|ref|YP_003854076.1| transcription elongation factor NusA [Parvularcula bermudensis
           HTCC2503]
 gi|303299335|gb|ADM08934.1| transcription elongation factor NusA [Parvularcula bermudensis
           HTCC2503]
          Length = 525

 Score =  624 bits (1608), Expect = e-176,   Method: Compositional matrix adjust.
 Identities = 312/510 (61%), Positives = 395/510 (77%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           V+AN++EL+QIA AVA EK ID  +V+  M D++ +AARS YG  +++R EI+P TG+  
Sbjct: 3   VTANKIELIQIARAVAQEKMIDPSIVIEAMEDALSRAARSRYGAETNVRAEIDPRTGETR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+RL+EVVE VEN   ++SLK A+ ++P  +IG  +SDPLPP+DFGRVA   AKQVI QK
Sbjct: 63  LWRLMEVVESVENDAVEVSLKAAQKQNPEAEIGDFISDPLPPIDFGRVAALGAKQVINQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AERD QY E+KD+VGEIISG +KR+EYG+VIVDLG  + +IRRD+ I RE LR GDR
Sbjct: 123 VRDAERDNQYNEYKDRVGEIISGLIKRIEYGHVIVDLGKGEAIIRRDQQIPREPLRQGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YI DVRRE RGPQ+ LSR HPQFM +LF  EVPE+Y+G++++KAV+RDPGSRAK+ V
Sbjct: 183 VRAYIADVRREPRGPQIFLSRNHPQFMARLFEQEVPEVYDGVIEIKAVARDPGSRAKIGV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S+DSSIDPVGACVGMRGSRVQAVV EL  EKIDIV WS D+ATFV+NAL PA V KVVL
Sbjct: 243 YSNDSSIDPVGACVGMRGSRVQAVVGELGGEKIDIVPWSEDTATFVVNALAPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE++ RIEV+VP EQLSLAIGRRGQNVRLASQLTG+ IDI+TEEE+S  RQK++ ER++ 
Sbjct: 303 DEELERIEVVVPDEQLSLAIGRRGQNVRLASQLTGYEIDIMTEEEESAKRQKEYQERSEI 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+ ++VD++IA+LLVAEGFA +EE+A V++ EIA IEGFD+ETA E+Q RA E+LE   
Sbjct: 363 FMKVLDVDDMIANLLVAEGFARIEEIAYVEVEEIAEIEGFDDETAQELQARALEWLEREQ 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L  + RELGV + L  I G+  K  VAL E G+ T+ED AGC  DDL GW+E   G  
Sbjct: 423 AELDARRRELGVEDALLEIEGMTLKWSVALAEEGVLTVEDFAGCVADDLTGWTERVDGEK 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGW 511
           + ++G L       D  E MI  AR ++GW
Sbjct: 483 KHYEGMLEKFRVKPDLAEQMIAEARRQVGW 512


>gi|114571580|ref|YP_758260.1| transcription elongation factor NusA [Maricaulis maris MCS10]
 gi|114342042|gb|ABI67322.1| NusA antitermination factor [Maricaulis maris MCS10]
          Length = 572

 Score =  623 bits (1607), Expect = e-176,   Method: Compositional matrix adjust.
 Identities = 312/514 (60%), Positives = 390/514 (75%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIA AVA EKSID  +V+  + ++IQKAARS YG  +DIR +I+P+TG++S
Sbjct: 5   VSANRLELLQIARAVAAEKSIDESIVIEAIEEAIQKAARSRYGAENDIRAKIDPKTGELS 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VVEEVEN + +++L  A+  D + +IG V SD LPP++FGRVA Q+AKQVI QK
Sbjct: 65  LTRNMTVVEEVENDSQELTLADAKKIDKTAEIGTVFSDELPPIEFGRVASQTAKQVITQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAER RQ+ E+KD+VGEIISG VKRVEYGNVI+DLG ++ +IRR + I RENL+  +R
Sbjct: 125 VREAERQRQFEEYKDRVGEIISGIVKRVEYGNVIIDLGRAEAIIRRADGIPRENLQNNER 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YIYDVR E RGPQ+ LSR HP FM  LF  EVPE+Y GI+++ +V+RDPGSRAK+AV
Sbjct: 185 VRAYIYDVREEVRGPQIFLSRAHPDFMAALFAQEVPEVYEGIIEIPSVARDPGSRAKIAV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+D SIDPVGACVGMRGSRVQAVV+EL  EKIDI+ WS D ATF++NAL+PA V KVVL
Sbjct: 245 ISNDGSIDPVGACVGMRGSRVQAVVSELAGEKIDIIPWSDDPATFIVNALQPAEVAKVVL 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW+IDI+TEEE+S  RQK+F ERTQ 
Sbjct: 305 DEEDQRIEVVVPDEQLSLAIGRRGQNVRLASQLTGWSIDILTEEEESERRQKEFAERTQI 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F+ A++VDE+IA LL  EGF DVE+LA   + EI +IEGFDE+TA EIQ RAR+YL+ + 
Sbjct: 365 FIAALDVDEVIAQLLATEGFTDVEDLAYADLGEIGAIEGFDEDTAEEIQARARDYLDRLS 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                K +ELGV + +  + G+   + V  GEN +KT++DLAG   DDL GW E K G  
Sbjct: 425 AEQDAKRKELGVEDAVLEVEGVVLAMAVKFGENDVKTVDDLAGLVTDDLRGWFETKNGER 484

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
            +  G L       +  E MI+ AR   GWI +E
Sbjct: 485 VREPGILEEFNLAAEDAEMMIMRARVAAGWISEE 518


>gi|83945005|ref|ZP_00957371.1| transcription elongation factor NusA [Oceanicaulis alexandrii
           HTCC2633]
 gi|83851787|gb|EAP89642.1| transcription elongation factor NusA [Oceanicaulis alexandrii
           HTCC2633]
          Length = 578

 Score =  610 bits (1574), Expect = e-172,   Method: Compositional matrix adjust.
 Identities = 304/514 (59%), Positives = 385/514 (74%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSAN+LE+LQIA AVA EK ID  +VL  + ++IQKAARS YG   DI  +INP+TG++ 
Sbjct: 5   VSANKLEILQIARAVAQEKMIDESIVLEAIEEAIQKAARSRYGAELDIHCKINPKTGEMR 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L     VVEEVEN   QI+L  A+ RDP  +IG    + LPP++FGRVA Q+AKQVI QK
Sbjct: 65  LTSRTTVVEEVENEAHQITLDEAKKRDPEAEIGSFYEEELPPIEFGRVASQTAKQVITQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAER RQ+ E+KD++GEI++G VKRVEYGNVI+DLG ++G+IRR + I RE+L+  DR
Sbjct: 125 VREAERKRQFNEYKDRIGEIVNGIVKRVEYGNVIIDLGKAEGIIRRSDGIPRESLQVNDR 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YIYDVR E RGPQ+ LSR HP FM  LF  EVPE+Y G++++  V+RDPGSRAK+AV
Sbjct: 185 VRAYIYDVREETRGPQIFLSRAHPDFMAALFAQEVPEVYEGVIEIPRVARDPGSRAKIAV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL  EKIDI+ W+PD ATF++NAL+PA V KVVL
Sbjct: 245 ISNDSSIDPVGACVGMRGSRVQAVVNELAGEKIDIIPWNPDPATFIVNALQPAEVAKVVL 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           D++  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TEEE+S  RQK+F+ERT  
Sbjct: 305 DDEAERIEVVVPDDQLSLAIGRRGQNVRLASQLTGWAIDILTEEEESERRQKEFSERTST 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM A++VDE+IA LL  EGFA+VE++A V++ EIA IEGFD++TA EIQ RARE+LE   
Sbjct: 365 FMNALDVDEVIAQLLATEGFAEVEDIAFVELDEIAVIEGFDDDTAQEIQTRAREFLEKRA 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                + +ELGV + +  + G+D  + V  GEN + T+EDLAG + DDL GW E + G  
Sbjct: 425 AEQDARRKELGVEDAVLDVEGVDLPMAVKFGENEVCTIEDLAGLTPDDLRGWYETRDGER 484

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
            +  G L       +  E +I+ AR   GWI +E
Sbjct: 485 VREPGILEGSDMSPEDAEMLIMRARVIAGWISEE 518


>gi|302381338|ref|YP_003817161.1| NusA antitermination factor [Brevundimonas subvibrioides ATCC
           15264]
 gi|302191966|gb|ADK99537.1| NusA antitermination factor [Brevundimonas subvibrioides ATCC
           15264]
          Length = 580

 Score =  597 bits (1538), Expect = e-168,   Method: Compositional matrix adjust.
 Identities = 298/521 (57%), Positives = 385/521 (73%), Gaps = 9/521 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIA+AVA EK+IDR++V+  + ++IQK A+S YG   DIR  I+P+TG+++
Sbjct: 6   ISANRLELLQIANAVAQEKNIDREIVIEALEEAIQKGAKSRYGAHHDIRARIDPKTGELA 65

Query: 62  LFRLLEVVE-------EVENY--TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQ 112
           L R + +VE       E+E +  +  + L  A  RDP   +G    + LPP +FGRV  Q
Sbjct: 66  LTRHVTIVEDDWMPEDELEEFNDSAMVRLTDASKRDPEAVVGKEYVEDLPPFEFGRVQTQ 125

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETIS 172
            A+QVI  KVREAER  QY EFKD+VGEI++GTVKRVEYGN IVDLG  +G++RRD++I 
Sbjct: 126 MARQVITGKVREAERANQYEEFKDRVGEIVNGTVKRVEYGNTIVDLGRGEGIMRRDQSIP 185

Query: 173 RENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRD 232
           RE    GDR+++YIYDVR E +GPQ++LSR HP FM KLF  EVPE+Y+G+++++A +RD
Sbjct: 186 REVFNIGDRIRTYIYDVRPEAKGPQIMLSRAHPGFMAKLFAQEVPEVYDGVIEIRAAARD 245

Query: 233 PGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALR 292
            GSRAK+AV S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+PD  TF++NAL 
Sbjct: 246 AGSRAKMAVLSNDSSIDPVGACVGMRGSRVQAVVAELQGEKIDIIQWNPDEPTFIVNALA 305

Query: 293 PAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
           PA V+KVVLDE+  R+EV+VP EQLSLAIGRRGQNVRLASQLTGW IDIITE +DS  RQ
Sbjct: 306 PAEVSKVVLDEEADRVEVVVPDEQLSLAIGRRGQNVRLASQLTGWQIDIITESQDSERRQ 365

Query: 353 KDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGR 412
           ++F+ERT  F +A++VDE+IA LLV EGFA VE+LA V   E+A IEGFDE+TA E+Q R
Sbjct: 366 REFSERTTLFQEALDVDEVIAQLLVTEGFATVEDLAFVDNYEVAEIEGFDEDTAEELQAR 425

Query: 413 AREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG 472
           AR++LE     L  K  ELGV + + ++PG+   I VALGE G+KT+EDLA  + D++ G
Sbjct: 426 ARDFLERQAAILDAKRVELGVEDGVMAVPGVTGAIAVALGEGGVKTVEDLADLATDEIRG 485

Query: 473 WSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
             E K G   K  G L S    ++  E +I+ AR   GWI+
Sbjct: 486 GYEMKNGERVKVPGVLESFNLAQEDAELLILQARVAAGWID 526


>gi|209966175|ref|YP_002299090.1| transcription elongation factor NusA [Rhodospirillum centenum SW]
 gi|209959641|gb|ACJ00278.1| transcription elongation factor NusA [Rhodospirillum centenum SW]
          Length = 511

 Score =  596 bits (1536), Expect = e-168,   Method: Compositional matrix adjust.
 Identities = 286/464 (61%), Positives = 373/464 (80%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +ELLQ+ADAVA EK+ID++ VL  M ++I+KA RS YG   DIR  I+ +TG+I L R L
Sbjct: 1   MELLQVADAVAREKNIDKEHVLEAMEEAIKKAGRSKYGHEHDIRARIDRKTGEIQLTRYL 60

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           EVVE VEN   QI L  A+ ++P+  +G  + DPLPP+DFGR+A Q+AKQVI+QKVREAE
Sbjct: 61  EVVETVENEALQIDLAKAKRKNPAAKVGDFIVDPLPPIDFGRIAAQTAKQVIVQKVREAE 120

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R+RQ+ E+KD++GEI++G VKRVEYGNV VDLG ++GV+RRDE++ RE+ + GDRV++YI
Sbjct: 121 RERQFNEYKDRMGEIVNGLVKRVEYGNVTVDLGRAEGVLRRDESLPREHFKTGDRVRAYI 180

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           YDVRREQRGPQ+ LSRTHP FM  LF  EVPEIY+GI+++KAV+RDPGSRAK+AV S DS
Sbjct: 181 YDVRREQRGPQIFLSRTHPMFMAGLFKQEVPEIYDGIIEIKAVARDPGSRAKIAVISKDS 240

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D ATFV+NAL PA V KVVLDE+ G
Sbjct: 241 SIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWNRDPATFVVNALAPAEVAKVVLDEENG 300

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
           +IEV+VP +QLSLAIGRRGQNVRLAS LTGW IDI+TE+E+S  RQ++F  R+Q FM+A+
Sbjct: 301 KIEVVVPDDQLSLAIGRRGQNVRLASMLTGWDIDIMTEKEESDRRQEEFRTRSQLFMEAL 360

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           +VD++IAHLLVAEGF  VEE+A V + E+ +I+ FDE+ A E+Q RA+ +LE  +  L++
Sbjct: 361 DVDDVIAHLLVAEGFTSVEEIAFVDLDELTAIDAFDEDVAAELQNRAQAFLEEQNARLEE 420

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           K R LGV +++ ++  +   + V LGENG+KT++DLA  + D+L
Sbjct: 421 KRRALGVDDDVAAVEALTPAMLVKLGENGVKTLDDLADLAGDEL 464


>gi|16124300|ref|NP_418864.1| transcription elongation factor NusA [Caulobacter crescentus CB15]
 gi|221232982|ref|YP_002515418.1| transcription elongation factor NusA [Caulobacter crescentus
           NA1000]
 gi|13421138|gb|AAK22032.1| N utilization substance protein A [Caulobacter crescentus CB15]
 gi|220962154|gb|ACL93510.1| N utilization substance protein A [Caulobacter crescentus NA1000]
          Length = 548

 Score =  594 bits (1531), Expect = e-167,   Method: Compositional matrix adjust.
 Identities = 300/514 (58%), Positives = 393/514 (76%), Gaps = 3/514 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           ++ANRLELLQIADAVA EK I+++VV+  + D++QKAAR+ YG   DIRV+I+P+TG+ +
Sbjct: 5   IAANRLELLQIADAVAREKGIEKEVVIEAIEDALQKAARARYGAEHDIRVKIDPKTGETT 64

Query: 62  LFRLLEVVE---EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
             R++EVV    E+E    ++   +A+      +IG V  + LPP + GRV  Q A+QV+
Sbjct: 65  QKRVIEVVSDDAELEGEIGKMPFSIAKRTWRDAEIGKVYEEVLPPFEIGRVQTQMARQVV 124

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           + KVREAER+RQY E+KD+VGEI++G+VKRVEYGNVIVDLG  +G++RRD++I REN   
Sbjct: 125 MHKVREAERERQYDEYKDRVGEIVNGSVKRVEYGNVIVDLGRGEGIMRRDQSIPRENFNV 184

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDR+++YIYDVRRE +GPQ++LSR H  FM KLF  EVPE+Y+G+++++AV+RDPGSRAK
Sbjct: 185 GDRIRAYIYDVRRETKGPQIMLSRAHGGFMAKLFAQEVPEVYDGVIEIRAVARDPGSRAK 244

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S+D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATF++NAL PA V+K
Sbjct: 245 MAVISNDGSIDPVGACVGMRGSRVQAVVAELQGEKIDIIQWSEDEATFIVNALAPAEVSK 304

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VV+DE+  R+EV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE ++S  RQ++F ER
Sbjct: 305 VVMDEEDERVEVVVPDEQLSLAIGRRGQNVRLASQLTGWQIDIMTESQESERRQREFAER 364

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T  F +A++VDE+IA LLV EGFA VE++A V+  EIASIEGFDEETA E+Q RARE+LE
Sbjct: 365 TALFQEALDVDEVIAQLLVTEGFAAVEDVAYVEPHEIASIEGFDEETAEELQTRAREFLE 424

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                L  K + LGV +EL +I G+   + VALGE  +K++EDLAG   DD+ GW ENKG
Sbjct: 425 KEAAELDAKRKALGVEDELLTIEGVTLAMAVALGEGDVKSIEDLAGLVPDDMRGWFENKG 484

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
           G   +  G L S     +  E++I+ AR  MGW+
Sbjct: 485 GERVREPGILESFNLSPEDAEALIMRARIAMGWV 518


>gi|295687485|ref|YP_003591178.1| transcription termination factor NusA [Caulobacter segnis ATCC
           21756]
 gi|295429388|gb|ADG08560.1| transcription termination factor NusA [Caulobacter segnis ATCC
           21756]
          Length = 560

 Score =  593 bits (1530), Expect = e-167,   Method: Compositional matrix adjust.
 Identities = 298/514 (57%), Positives = 394/514 (76%), Gaps = 3/514 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           ++ANRLELLQIADAVA EK I+++VV+  + D++QKAAR+ YG   DIRV+I+P+TG+ +
Sbjct: 5   IAANRLELLQIADAVAREKGIEKEVVIEAIEDALQKAARARYGAEHDIRVKIDPKTGETT 64

Query: 62  LFRLLEVVE---EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
             R++EVV    E+E    ++ L +A+      +IG V  + LPP + GRV  Q A+QV+
Sbjct: 65  QKRVIEVVSDDAELEGEIGKMPLSIAKRAWRDAEIGKVYEEALPPFEIGRVQTQMARQVV 124

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           + KVREAER+RQY E+KD+VGEI++G+VKRVEYGNVIVDLG  +G++RRD++I REN   
Sbjct: 125 MHKVREAERERQYDEYKDRVGEIVNGSVKRVEYGNVIVDLGRGEGIMRRDQSIPRENFNV 184

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDR+++YIYDVRRE +GPQ++LSR H  FM KLF  EVPE+Y+G+++++AV+RDPGSRAK
Sbjct: 185 GDRIRAYIYDVRRETKGPQIMLSRAHGGFMAKLFAQEVPEVYDGVIEIRAVARDPGSRAK 244

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATF++NAL PA V+K
Sbjct: 245 MAVISNDSSIDPVGACVGMRGSRVQAVVAELQGEKIDIIQWSEDEATFIVNALAPAEVSK 304

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VV+DE+  R+EV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE ++S  RQ++F ER
Sbjct: 305 VVMDEEDERVEVVVPDEQLSLAIGRRGQNVRLASQLTGWQIDIMTESQESERRQREFTER 364

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T  F +A++VDE+IA LLV EGFA VE++A V+  EIA+IEGFDEETA E+Q RARE+LE
Sbjct: 365 TALFQEALDVDEVIAQLLVTEGFAAVEDVAYVEPHEIAAIEGFDEETAEELQARAREFLE 424

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                L  K + LGV +E+ +I G+   + VALGE  +KT+EDLAG   DD+ GW E+K 
Sbjct: 425 KEAAELDAKRKALGVEDEVLAIEGVTLAMAVALGEGDVKTVEDLAGLVPDDMRGWFESKN 484

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
           G   +  G L +     +  E++I+ AR  MGW+
Sbjct: 485 GERVREPGILETFNLSPEDAEALIMRARVAMGWV 518


>gi|254418431|ref|ZP_05032155.1| NusA N-terminal domain family [Brevundimonas sp. BAL3]
 gi|196184608|gb|EDX79584.1| NusA N-terminal domain family [Brevundimonas sp. BAL3]
          Length = 587

 Score =  593 bits (1528), Expect = e-167,   Method: Compositional matrix adjust.
 Identities = 297/521 (57%), Positives = 386/521 (74%), Gaps = 9/521 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIA+AVA EK+I+R+VV+  + ++IQK A+S YG   DIR +I+ +TG+++
Sbjct: 6   ISANRLELLQIAEAVAREKNIEREVVIEAIEEAIQKGAKSRYGAHHDIRAKIDHKTGELA 65

Query: 62  LFRLLEVVE-------EVENY--TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQ 112
           L R + +VE       E+E +  +  + LK A  RDP   +G    + LPP +FGRV  Q
Sbjct: 66  LTRHVTIVEDDWQPEDELEEFNDSAMVRLKDALKRDPEAVVGKEYVETLPPFEFGRVQTQ 125

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETIS 172
            A+QV+  KVREAER  QY EFKD+VGEI++GTVKRVEYGN IVDLG  +GV+RRD++I 
Sbjct: 126 MARQVVTGKVREAERANQYEEFKDRVGEIVNGTVKRVEYGNTIVDLGRGEGVMRRDQSIP 185

Query: 173 RENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRD 232
           RE    GDR+++YIYDVR E +GPQV+LSR HP FM KLF  EVPE+Y+G+++++A +RD
Sbjct: 186 REVFNIGDRIRTYIYDVRPEAKGPQVMLSRAHPGFMAKLFAQEVPEVYDGVIEIRAAARD 245

Query: 233 PGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALR 292
            GSRAK+AV S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+PD  TF++NAL 
Sbjct: 246 SGSRAKMAVLSNDSSIDPVGACVGMRGSRVQAVVAELQGEKIDIIQWNPDEPTFIVNALA 305

Query: 293 PAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
           PA V+KVVLDE+ GR+EV+VP EQLSLAIGRRGQNVRLASQLTGW IDIITE +DS  RQ
Sbjct: 306 PAEVSKVVLDEEAGRVEVVVPDEQLSLAIGRRGQNVRLASQLTGWQIDIITESQDSERRQ 365

Query: 353 KDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGR 412
           ++F+ERT  F +A++VDE+IA LLV EGFA +E+LA V   E++ IEGFDEETA E+Q R
Sbjct: 366 REFSERTGLFQEALDVDEVIAQLLVTEGFATIEDLAYVDPYEVSEIEGFDEETAEELQAR 425

Query: 413 AREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG 472
           AR++L+     L  K  ELGV + +  +PG+   + VALGE G+KT+EDLA  + D++ G
Sbjct: 426 ARDFLDRKAAELDAKRVELGVEDGVLQVPGVTLAMAVALGEGGVKTVEDLADLATDEIRG 485

Query: 473 WSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
             E K G   K  G L S    ++  E +I+ AR   GWI+
Sbjct: 486 GYEVKNGERVKVPGVLESFNLAQEDAEMLILQARVAAGWID 526


>gi|329891253|ref|ZP_08269596.1| transcription elongation protein nusA [Brevundimonas diminuta ATCC
           11568]
 gi|328846554|gb|EGF96118.1| transcription elongation protein nusA [Brevundimonas diminuta ATCC
           11568]
          Length = 576

 Score =  586 bits (1510), Expect = e-165,   Method: Compositional matrix adjust.
 Identities = 296/521 (56%), Positives = 382/521 (73%), Gaps = 9/521 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELL IADAVA EK+IDR++V+  + ++IQK A+S YG   DIR +I+ +TG++S
Sbjct: 4   ISANRLELLSIADAVAREKNIDREIVIEAIEEAIQKGAKSRYGAHHDIRAQIDHKTGELS 63

Query: 62  LFRLLEVV-------EEVENY--TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQ 112
           L R + +V       +E+E +  +  + L+ A  RD   ++G    + LPP +FGRV  Q
Sbjct: 64  LTRHVTIVADDWQPEDELEEFNDSAMVRLRDALKRDAEAEVGKEYVEVLPPFEFGRVQTQ 123

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETIS 172
            A+QV+  KVREAER  QY EFKD+VGEI++GTVKRVEYGN IVDLG  +G++RRD++I 
Sbjct: 124 MARQVVTGKVREAERANQYEEFKDRVGEIVNGTVKRVEYGNTIVDLGRGEGIMRRDQSIP 183

Query: 173 RENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRD 232
           RE    GDRV++YIYDVR E +GPQV+LSR HP FM KLF  EVPE+Y+G+++++A +RD
Sbjct: 184 REVFNVGDRVRTYIYDVRPEAKGPQVMLSRAHPGFMAKLFAQEVPEVYDGVIEIRAAARD 243

Query: 233 PGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALR 292
            GSRAK+AV S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL 
Sbjct: 244 AGSRAKMAVLSNDSSIDPVGACVGMRGSRVQAVVAELQGEKIDIIQWNEDEPTFIVNALA 303

Query: 293 PAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
           PA V KVVLDE+  R+EV+VP EQLSLAIGRRGQNVRLASQLTGW IDIITE +DS  RQ
Sbjct: 304 PAEVAKVVLDEEADRVEVVVPDEQLSLAIGRRGQNVRLASQLTGWQIDIITESQDSERRQ 363

Query: 353 KDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGR 412
           ++F ERT  F +A++VDE IA LLV EGFA VE+LA V+  EI+ IEGFDE+TA E+Q R
Sbjct: 364 REFAERTALFQEALDVDETIAQLLVTEGFATVEDLAFVEAYEISEIEGFDEDTAEELQTR 423

Query: 413 AREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG 472
           ARE+LE     L  K   LGV + +  +PG+ + I VALGE G+KT+EDLA  + D++ G
Sbjct: 424 AREHLERQAAELDAKRVALGVEDGVLDVPGVTAAIAVALGEGGVKTVEDLADLATDEIRG 483

Query: 473 WSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
             E +GG   K  G L S    ++  E +I+ AR   GWI+
Sbjct: 484 GYEVRGGERVKVPGVLESFNLSQEDAEMLILQARVAAGWID 524


>gi|197106902|ref|YP_002132279.1| N utilization substance protein A [Phenylobacterium zucineum HLK1]
 gi|196480322|gb|ACG79850.1| N utilization substance protein A [Phenylobacterium zucineum HLK1]
          Length = 561

 Score =  586 bits (1510), Expect = e-165,   Method: Compositional matrix adjust.
 Identities = 304/528 (57%), Positives = 389/528 (73%), Gaps = 17/528 (3%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIA+AVA EK+ID+++V+  + ++IQK AR+ YG   DIRV I+P+TG+ +
Sbjct: 6   ISANRLELLQIAEAVAREKAIDKEIVIEAIEEAIQKGARARYGAEHDIRVHIDPKTGETT 65

Query: 62  LFRLLEVVEE-----------------VENYTCQISLKVARDRDPSIDIGGVVSDPLPPM 104
           + R++ VV +                 +E     I L  A+ RD   ++G V  + LPP 
Sbjct: 66  IKRVVTVVADDATFGGGVDPETGEELPIEEPPGIIRLAEAKRRDKDAEVGKVYEELLPPF 125

Query: 105 DFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV 164
           +FGRV  Q A+QV++ KVR+AER+RQY E+KD+VGEI++GTVKRVEYGNV+VDLG  +G+
Sbjct: 126 EFGRVQTQMARQVVMGKVRDAERERQYEEYKDRVGEIVNGTVKRVEYGNVVVDLGRGEGI 185

Query: 165 IRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           +RRD++I REN   GDR++ YIYDVRRE +GPQ+LLSR H  FM KLF  EVPE+Y+G++
Sbjct: 186 MRRDQSIPRENFNIGDRIRCYIYDVRRETKGPQILLSRAHGGFMAKLFAQEVPEVYDGVI 245

Query: 225 QVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSA 284
           +++AV+RDPGSRAK+AV S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D A
Sbjct: 246 EIRAVARDPGSRAKMAVVSNDSSIDPVGACVGMRGSRVQAVVAELQGEKIDIIQWSQDDA 305

Query: 285 TFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           TF++NAL PA V+KVV+DE+  R+EV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE
Sbjct: 306 TFIVNALAPAEVSKVVMDEEDERVEVVVPDEQLSLAIGRRGQNVRLASQLTGWQIDIMTE 365

Query: 345 EEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEE 404
            ++S  RQ++F ERT  F +A++VDE+IA LLV EGFA VE++  V  SEI++IEGFDE+
Sbjct: 366 SQESERRQREFTERTALFQEALDVDEVIAQLLVTEGFATVEDVGYVDPSEISAIEGFDED 425

Query: 405 TAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAG 464
           TA EIQ RAREYLE        K RELGV + L  I GI   + VALGE GIKT+EDLAG
Sbjct: 426 TAEEIQTRAREYLEKEAAEYDAKRRELGVEDGLLDIEGITLPMAVALGEGGIKTVEDLAG 485

Query: 465 CSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
              DDL GW E K G   +  G L + G      E +I+ AR  MGW+
Sbjct: 486 LVPDDLRGWFETKNGERVREPGILETFGLDAQDAELLIMRARIVMGWV 533


>gi|315497224|ref|YP_004086028.1| nusa antitermination factor [Asticcacaulis excentricus CB 48]
 gi|315415236|gb|ADU11877.1| NusA antitermination factor [Asticcacaulis excentricus CB 48]
          Length = 546

 Score =  585 bits (1509), Expect = e-165,   Method: Compositional matrix adjust.
 Identities = 300/513 (58%), Positives = 385/513 (75%), Gaps = 2/513 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANR ELLQIADAVA EK ID+ VVL+ + +++QKAARS YG   DIRV ++P TG+++
Sbjct: 6   ISANRQELLQIADAVAREKQIDKSVVLASIEEAVQKAARSRYGADHDIRVRVDPRTGEMT 65

Query: 62  LFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           + R + VV  EE+EN   Q  L  A   D    +G    + LPP + GRV  Q A+QV+ 
Sbjct: 66  ITRYVTVVPDEELENEYAQRGLTEALREDKDAFVGKTYDEVLPPFELGRVQSQMARQVVT 125

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPG 179
            KVREAER+RQY EFKD+VGEI++GTVKRVEYGNVIVDLG  +G++RRD++I RE  +  
Sbjct: 126 HKVREAERERQYDEFKDRVGEIVNGTVKRVEYGNVIVDLGRGEGIMRRDQSIPREAFQVN 185

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR+++YIYDVRRE +GPQ++LSR H  FM KLF  EVPE+Y+G++++K+V+RDPGSRAK+
Sbjct: 186 DRIRAYIYDVRRETKGPQIMLSRAHGGFMAKLFAQEVPEVYDGVIEIKSVARDPGSRAKM 245

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S+D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATF++NAL PA V+KV
Sbjct: 246 AVLSNDNSIDPVGACVGMRGSRVQAVVGELQGEKIDIIQWSPDEATFIVNALAPAEVSKV 305

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           VLDE+  R+EV+VP EQLSLAIGRRGQNVRLASQLTGW +DIITE +DS  RQK+F ERT
Sbjct: 306 VLDEEEDRVEVVVPDEQLSLAIGRRGQNVRLASQLTGWQVDIITESQDSERRQKEFAERT 365

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             F +A++ DE+IA LLV EGF+ VE+LA V   EIA+IEGFDE+TA E+Q RAR+YLE 
Sbjct: 366 ALFQEALDADEVIAQLLVTEGFSTVEDLAYVDQMEIAAIEGFDEDTAAELQARARDYLER 425

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
            +     K  ELGV +E+ ++PGI   + VALGE G+KT+EDLA  + D++ G  E +G 
Sbjct: 426 FEAEQNAKRVELGVEDEVLNVPGITLAMAVALGEAGVKTVEDLADLATDEVRGGFEQRGA 485

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
              +  G L S        E++I++AR   GWI
Sbjct: 486 EKVRVPGALESFSLSVADAEALILNARIAAGWI 518


>gi|329847354|ref|ZP_08262382.1| transcription elongation protein nusA [Asticcacaulis biprosthecum
           C19]
 gi|328842417|gb|EGF91986.1| transcription elongation protein nusA [Asticcacaulis biprosthecum
           C19]
          Length = 564

 Score =  583 bits (1502), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 303/513 (59%), Positives = 384/513 (74%), Gaps = 2/513 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANR ELLQIADAVA EK ID+ VV++ + ++IQKAARS YG   DIRV I+P+ G+++
Sbjct: 6   ISANRQELLQIADAVAREKQIDKSVVIASIEEAIQKAARSRYGADHDIRVHIDPKWGEMT 65

Query: 62  LFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           + R + VV  EEVEN   Q SL  A   D    +G    + LPP + GRV  Q A+QV+ 
Sbjct: 66  ITRHVTVVGDEEVENEYAQKSLSDALREDKEAFVGKEYVETLPPFELGRVQTQMARQVVT 125

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPG 179
            KVREAER+RQY EFKD+VGEI++GTV+RVEYGNVIVDLG  +G++RRD++I RE  +  
Sbjct: 126 HKVREAERERQYDEFKDRVGEIVNGTVRRVEYGNVIVDLGRGEGIMRRDQSIPREAFQVN 185

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR+++YIYDVRRE +GPQ++LSR H  FM KLF  EVPEIY+G++++K+V+RDPGSRAK+
Sbjct: 186 DRIRAYIYDVRRETKGPQIMLSRAHGGFMAKLFAQEVPEIYDGVIEIKSVARDPGSRAKM 245

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S+D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATF++NAL PA VTKV
Sbjct: 246 AVLSNDNSIDPVGACVGMRGSRVQAVVAELQGEKIDIIQWSPDEATFIVNALAPAEVTKV 305

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           VLDE+  R+EV+VP EQLSLAIGRRGQNVRL SQLTGW +DIITE +DS  RQK+F ERT
Sbjct: 306 VLDEEEDRVEVVVPDEQLSLAIGRRGQNVRLGSQLTGWQVDIITESQDSERRQKEFAERT 365

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             F +A++VDE+IA LLV EGF  VE+LA V  +EIA+IEGFDE+TA E+Q RAR++LE 
Sbjct: 366 ALFQEALDVDEVIAQLLVTEGFTSVEDLAYVDENEIAAIEGFDEDTAQELQARARDFLER 425

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
                  K +ELGV + +  + G+   + VALGE G+KT+EDLA  + D+L G  E KGG
Sbjct: 426 ETAEQDAKRKELGVEDGVLEVQGVTLPMAVALGEAGVKTVEDLADLATDELRGGFEQKGG 485

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
              +  G L S        ES+I++AR   GWI
Sbjct: 486 ERVRVPGALESFTLSVPDAESLILNARVTAGWI 518


>gi|114769758|ref|ZP_01447368.1| transcription elongation factor NusA [alpha proteobacterium
           HTCC2255]
 gi|114549463|gb|EAU52345.1| transcription elongation factor NusA [alpha proteobacterium
           HTCC2255]
          Length = 542

 Score =  580 bits (1495), Expect = e-163,   Method: Compositional matrix adjust.
 Identities = 294/519 (56%), Positives = 386/519 (74%), Gaps = 2/519 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SANRLELLQIAD+VA EK ID D+VL  M +S  KAA+S YG   DIR  I+ ++G++
Sbjct: 3   ITSANRLELLQIADSVAREKMIDPDLVLQAMEESYAKAAKSKYGAELDIRAFIDRKSGEL 62

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            + R+  VVE  E EN   +++++ A+       +G ++ D LPPMDFGR+  QSAKQVI
Sbjct: 63  EMTRVRVVVEGTEAENMYTEMTVEEAKAHKEEPSVGDLIIDKLPPMDFGRIGAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ GEII+G VKRVEYGNVIVD+G  + V RRD+ ++RE  R 
Sbjct: 123 LQKVREAERDRQYEEFKDRQGEIINGLVKRVEYGNVIVDVGRGEAVCRRDQLVNREMFRN 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDR++++I +VR E RGPQV LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 GDRIRAFIKEVRSEMRGPQVFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           + V S D+SIDPVGACVGMRGSRVQAVV EL  EKIDI+ W+ D+ TF++NAL+PA VTK
Sbjct: 243 IGVISFDNSIDPVGACVGMRGSRVQAVVNELGGEKIDIIPWNEDAPTFLVNALQPAEVTK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDED  RIEV+VP EQLSLAIGRRGQNVRLASQLTG  IDI+TE ++S  RQK+F ER
Sbjct: 303 VVLDEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGLDIDIMTETDESERRQKEFEER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           +Q FM  +NVDE++A LLV+EGF+ +EE+A V+  E+  IEGFD++T  E+Q RARE LE
Sbjct: 363 SQLFMDTMNVDEVVAQLLVSEGFSSLEEVAYVETDELLMIEGFDQDTVDELQARARESLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            I+     + RELGV+++L    G+  ++ VALG++ +K++ED A C+  +L G      
Sbjct: 423 EINAKSIAEARELGVAQDLIDFEGLSPQMLVALGKDDVKSLEDFATCADWELAGGYTTVD 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
           G   K DG L S      + + MI+ AR ++GW+ +E++
Sbjct: 483 GERHKDDGVLESFEVNIQEAQDMIMRARLQIGWVTEEQL 521


>gi|161170254|gb|ABX59224.1| transcription elongation factor [uncultured marine bacterium
           EB000_55B11]
 gi|297183783|gb|ADI19906.1| hypothetical protein [uncultured marine bacterium EB000_55B11]
          Length = 542

 Score =  578 bits (1489), Expect = e-162,   Method: Compositional matrix adjust.
 Identities = 293/514 (57%), Positives = 382/514 (74%), Gaps = 2/514 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SANRLELLQIAD+VA EK ID D+VL  M +S  KAA+S YG   DIR  I+ ++G++
Sbjct: 3   ITSANRLELLQIADSVAREKMIDPDLVLQAMEESYAKAAKSKYGAELDIRAFIDRKSGEL 62

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            + R+  VVE  E EN   +++++ A+       +G ++ D LPPMDFGR+  QSAKQVI
Sbjct: 63  EMTRVRVVVEGTEAENMYTEMTVEEAKAHKEEPSVGDLIIDKLPPMDFGRIGAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ GEII+G VKRVEYGNVIVD+G  + V RRD+ ++RE  R 
Sbjct: 123 LQKVREAERDRQYEEFKDRQGEIINGLVKRVEYGNVIVDVGRGEAVCRRDQLVNREMFRN 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDR++++I +VR E RGPQV LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 GDRIRAFIKEVRSEMRGPQVFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           + V S D+SIDPVGACVGMRGSRVQAVV EL  EKIDI+ W+ D+ TF++NAL+PA VTK
Sbjct: 243 IGVISFDNSIDPVGACVGMRGSRVQAVVNELGGEKIDIIPWNEDAPTFLVNALQPAEVTK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDED  RIEV+VP EQLSLAIGRRGQNVRLASQLTG  IDI+TE ++S  RQK+F ER
Sbjct: 303 VVLDEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGLDIDIMTETDESERRQKEFEER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           +Q FM  +NVDE++A LLV+EGF+ +EE+A V+  E+  IEGFD++T  E+Q RARE LE
Sbjct: 363 SQLFMDTMNVDEVVAQLLVSEGFSSLEEVAYVETDELLMIEGFDQDTVDELQARARESLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            I+     + RELGV+++L    G+  ++ VALG++ +K++ED A C+  +L G      
Sbjct: 423 EINAKSIAEARELGVAQDLIDFEGLSPQMLVALGKDDVKSLEDFATCADWELAGGYTTVD 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
           G   K DG L S      + + MI+ AR ++GW+
Sbjct: 483 GERHKDDGVLESFEVNIQEAQDMIMRARLQIGWV 516


>gi|167644004|ref|YP_001681667.1| transcription elongation factor NusA [Caulobacter sp. K31]
 gi|167346434|gb|ABZ69169.1| NusA antitermination factor [Caulobacter sp. K31]
          Length = 568

 Score =  577 bits (1487), Expect = e-162,   Method: Compositional matrix adjust.
 Identities = 295/514 (57%), Positives = 386/514 (75%), Gaps = 3/514 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIADAVA EK I+++VV+  + D++QKAAR+ YG   DIRV+I+ +TG+ +
Sbjct: 5   ISANRLELLQIADAVAREKGIEKEVVIEAIEDALQKAARARYGAEHDIRVKIDTKTGETT 64

Query: 62  LFRLLEVVE---EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
             R++EVV    E+E    ++ L  A+      ++G +  + LPP + GRV  Q A+QV+
Sbjct: 65  QKRVIEVVPDDFELEGEIGKVQLSSAKRTWRDAEVGKIYEESLPPFEIGRVQTQMARQVV 124

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           + KVREAER+RQY E+KD+ GEI++G+VKRVEYGNVIVDLG  +G++RRD++I REN   
Sbjct: 125 MHKVREAERERQYDEYKDRAGEIVNGSVKRVEYGNVIVDLGRGEGIMRRDQSIPRENFNV 184

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDR+++YIYDVRRE +GPQ++LSR H  FM KLF  EVPE+Y+G+++++AV+RDPGSRAK
Sbjct: 185 GDRIRAYIYDVRRETKGPQIMLSRAHGGFMAKLFAQEVPEVYDGVIEIRAVARDPGSRAK 244

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATF++NAL PA V+K
Sbjct: 245 MAVISNDSSIDPVGACVGMRGSRVQAVVAELQGEKIDIIQWSEDEATFIVNALAPAEVSK 304

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VV+DE+  R+EV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE ++S  RQK F E 
Sbjct: 305 VVMDEEDERVEVVVPDEQLSLAIGRRGQNVRLASQLTGWQIDIMTESQESERRQKQFTET 364

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T  F +A++VDE+IA LLV EGFA VE++A V+  EIA+IEGFD+ETA E+Q RARE+L+
Sbjct: 365 TALFQEALDVDEVIAQLLVTEGFATVEDVAYVEPHEIAAIEGFDDETADELQTRAREFLD 424

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                L  K  ELGV + L  I G+   + VALGE  +K++EDLAG   DDL GW E K 
Sbjct: 425 KEAAALDAKRVELGVEDGLLEIEGVTLPVAVALGEGDVKSVEDLAGLIPDDLRGWFETKD 484

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
           G   +  G L S     +  E++I+ AR  MGW+
Sbjct: 485 GERTREAGILDSFNLSPEDAEALIMRARVVMGWV 518


>gi|126728006|ref|ZP_01743822.1| transcription elongation factor NusA [Sagittula stellata E-37]
 gi|126710971|gb|EBA10021.1| transcription elongation factor NusA [Sagittula stellata E-37]
          Length = 538

 Score =  575 bits (1482), Expect = e-162,   Method: Compositional matrix adjust.
 Identities = 289/520 (55%), Positives = 385/520 (74%), Gaps = 4/520 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVVEAMEESLARAAKSRYGAEMDIRVSIDRKTGRA 62

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE  E+ENY  +++++ A+       +G    + +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEDEELENYQAELTVQQAKQYMADPKVGDTFVEEVPPVELGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRAGTIINGLVKREEYGNVIVDVGRGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDR++ Y+ DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+GI++VKAV+RDPGSRAK
Sbjct: 183 GDRIRCYVKDVRRETRGPQIFLSRTAPEFMRELFKMEVPEIYDGIIEVKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D+ IDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDNGIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDVPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+  RIEV+VP EQLSLAIGRRGQNVRLASQLTG  IDI+TEEE+S  RQK+F ER
Sbjct: 303 VVLDEEAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGLDIDIMTEEEESKRRQKEFEER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           TQ FM  +++DE  A LLV+EGF ++EE+A V++ E+  I+G DE TA E+Q RA+EYLE
Sbjct: 363 TQLFMDTLDLDEFFAQLLVSEGFTNLEEVAYVEMDELLVIDGVDEGTAAELQTRAQEYLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-GWSENK 477
                 + + RELG  + L +  G+  ++ VAL E+G+KT+ED A C+  +L  GW+   
Sbjct: 423 EQARQAEARARELGADDSLLAFEGLTPQMVVALAEDGVKTLEDFATCADWELAGGWTTQD 482

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
           G  + K DG L   G   D+ ++M++ AR  +GW++ E++
Sbjct: 483 GQRV-KDDGLLEKFGIDLDEAQNMVMTARVMLGWVDPEEL 521


>gi|294675770|ref|YP_003576385.1| transcription elongation factor NusA [Rhodobacter capsulatus SB
           1003]
 gi|294474590|gb|ADE83978.1| transcription elongation factor NusA [Rhodobacter capsulatus SB
           1003]
          Length = 536

 Score =  572 bits (1474), Expect = e-161,   Method: Compositional matrix adjust.
 Identities = 286/516 (55%), Positives = 386/516 (74%), Gaps = 4/516 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID D+V+  M DS+ +AA+S YG+  DIRV+I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPDLVIQAMEDSLARAAKSRYGSEMDIRVKIDRKTGRA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           S  R+  VVE+  VENY  Q+++  A+    +  +G  + D +PP+D GR+A QSAKQVI
Sbjct: 63  SFTRVRTVVEDEAVENYQAQLTVAQAKQYKTNPQLGDEIVDEVPPVDLGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQ+ EFKD+ G II+G VKR EYGN+IVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQFDEFKDRKGTIINGVVKREEYGNIIVDIGRGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR+++Y+ DVRRE RGPQV LSRT PQFM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRAYVKDVRRETRGPQVFLSRTDPQFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S+D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D+ATF++NAL+PA V K
Sbjct: 243 IAVISNDNSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWNADAATFLVNALQPAEVAK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VV+DE+ G+IEV+VP EQLSLAIGRRGQNVRLASQLTG  IDI+TE E+S  RQ +F ER
Sbjct: 303 VVIDEEAGKIEVVVPDEQLSLAIGRRGQNVRLASQLTGLDIDILTEAEESSRRQAEFAER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ F+ A+++DE  A LLVAEGF ++EE+A V + E+ SIEG D+ TA E+Q RAR+Y+E
Sbjct: 363 TKLFVDALDLDEFFAQLLVAEGFTNLEEVAYVDLDELLSIEGVDDGTAEELQARARDYIE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-GWSENK 477
             +       +ELGV + L +  G+  ++  AL ++ +KT+ED A C+  +L  GW+   
Sbjct: 423 AQNAKAIAAAKELGVEDSLFNFEGLTPQMIEALAKDDVKTLEDFATCADWELAGGWTTVN 482

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           G  + K +G L   G   +  + +I+ AR ++GW++
Sbjct: 483 GARV-KDEGILEKFGMSLEDAQKLIMTARIQLGWVD 517


>gi|84500726|ref|ZP_00998975.1| transcription elongation factor NusA [Oceanicola batsensis
           HTCC2597]
 gi|84391679|gb|EAQ04011.1| transcription elongation factor NusA [Oceanicola batsensis
           HTCC2597]
          Length = 536

 Score =  572 bits (1473), Expect = e-161,   Method: Compositional matrix adjust.
 Identities = 287/516 (55%), Positives = 380/516 (73%), Gaps = 4/516 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVVEAMEESLARAAKSRYGAEMDIRVSIDRKTGRA 62

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE  E+ENY  +++++ AR       +G   ++ +PP+D GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEDEELENYQAEMTVEQARQYMADPQVGDTFTEEVPPVDMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGN+IVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRAGTIINGVVKREEYGNIIVDVGRGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ YI DVRREQRGPQ+ LSRT PQFM +LF MEVPEIY GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRCYIKDVRREQRGPQIFLSRTDPQFMAELFKMEVPEIYEGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA VTK
Sbjct: 243 IAVISYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVTK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+  RIEV+VP+EQLSLAIGRRGQNVRLASQLT   IDI+TEEE+S  RQK+F ER
Sbjct: 303 VVLDEEAERIEVVVPEEQLSLAIGRRGQNVRLASQLTALDIDIMTEEEESARRQKEFEER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ F+  +++DE  A LLV+EGF ++EE+A V+I E+  I+G DEETA E+Q RAR+ LE
Sbjct: 363 TKLFVDTLDLDEFFAQLLVSEGFTNLEEVAYVEIDELLVIDGVDEETANELQARARDVLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-GWSENK 477
                  ++ RELG  + L    G+  ++  AL E+G+KT+ED A C+  +L  GW+  +
Sbjct: 423 AQAKAAMERARELGAEDSLIEFEGLTPQMIQALAEDGVKTLEDFATCADWELAGGWTTVE 482

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           G  + K DG L       ++ + M+++AR  +GW++
Sbjct: 483 GERV-KDDGLLEPFDVSLEEAQHMVMNARVMLGWVD 517


>gi|260429111|ref|ZP_05783088.1| NusA antitermination factor [Citreicella sp. SE45]
 gi|260419734|gb|EEX12987.1| NusA antitermination factor [Citreicella sp. SE45]
          Length = 543

 Score =  571 bits (1472), Expect = e-161,   Method: Compositional matrix adjust.
 Identities = 289/515 (56%), Positives = 379/515 (73%), Gaps = 2/515 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG+  DIRV+I+  TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVIEAMEESLARAAKSRYGSEMDIRVKIDRRTGRA 62

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE  E+ENY  ++++K A+       +G    + +PP+D GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEDEELENYQAELTVKQAKQYMADPKVGDQFIEEVPPVDMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+GTVKR EYGNVIVD+G  +G++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYDEFKDRAGTIINGTVKREEYGNVIVDIGRGEGILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDR++ YI DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 GDRIRCYIKDVRREARGPQIFLSRTSPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDVPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDED  RIEV+VP EQLSLAIGRRGQNVRLASQLTG  IDI+TEEE+S  RQ +F +R
Sbjct: 303 VVLDEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGLDIDIMTEEEESKRRQAEFEQR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ FM  +++DE  A LLVAEGF ++EE+A V++ E+  I+G DE+TA E+Q RARE+LE
Sbjct: 363 TKLFMDTLDLDEFFAQLLVAEGFTNLEEVAYVELDELLVIDGVDEDTAQELQTRAREFLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                  +  RELG  + L    G+  ++  AL E+G+KT+ED A C+  +L G    +G
Sbjct: 423 EQARKALEHARELGAEDSLIEFEGLTPQMVEALAEDGVKTLEDFATCADWELAGGWTTEG 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           G   K DG L        + +++I+ AR  +GW++
Sbjct: 483 GERVKDDGLLEKFDVDLAEAQNLIMTARVLLGWVD 517


>gi|119385319|ref|YP_916375.1| transcription elongation factor NusA [Paracoccus denitrificans
           PD1222]
 gi|119375086|gb|ABL70679.1| NusA antitermination factor [Paracoccus denitrificans PD1222]
          Length = 559

 Score =  571 bits (1471), Expect = e-160,   Method: Compositional matrix adjust.
 Identities = 297/546 (54%), Positives = 388/546 (71%), Gaps = 27/546 (4%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID D+V+  M DS+ +AA+S YG+  DIRV I+ +TG+ 
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPDLVIEAMEDSLARAAKSRYGSEMDIRVHIDRKTGNA 62

Query: 61  SLFRLLEVVEE--VENYTCQISL-KVARDRDPSID--------------------IGGVV 97
           +  R   VVE+  VENY  Q +  + A   +PS D                     G V 
Sbjct: 63  TFTRARTVVEDEAVENYQAQFTADQAAPYFEPSKDGRAHWLRDGAQLADFSGRPQPGDVF 122

Query: 98  SDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVD 157
            + +PP+D GR+A QSAKQVI+Q+VREAERDRQY EFKD+VG II+G VKR EYGN+IVD
Sbjct: 123 EEQVPPVDLGRIAAQSAKQVILQRVREAERDRQYEEFKDRVGSIINGVVKREEYGNIIVD 182

Query: 158 LGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVP 217
           +G  + ++RR+E I RE+ RP DR+++Y+ DVRRE RGPQ+ LSRT PQFM +LF MEVP
Sbjct: 183 VGRGEAILRRNEKIGRESYRPNDRIRAYVKDVRREARGPQIFLSRTDPQFMAELFKMEVP 242

Query: 218 EIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIV 277
           EIY+G++++KAV+RDPGSRAK+AV S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+
Sbjct: 243 EIYDGVIEIKAVARDPGSRAKIAVISYDNSIDPVGACVGMRGSRVQAVVGELQGEKIDII 302

Query: 278 VWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
            WS D ATF++NAL+PA V KVV DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTG 
Sbjct: 303 PWSDDQATFLVNALQPAEVAKVVFDEDATRIEVVVPDEQLSLAIGRRGQNVRLASQLTGL 362

Query: 338 TIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIAS 397
            IDI+TEEE+S  RQ +FN RT+ FM A+++DE  A LLVAEGF ++EE+A V + E+ S
Sbjct: 363 DIDILTEEEESKRRQAEFNARTKLFMDALDLDEFFAQLLVAEGFTNLEEVAYVDLDELLS 422

Query: 398 IEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIK 457
           IEG DE TA E+Q RARE+LE  +    +  R LGV + L    G+  ++  AL ++G+K
Sbjct: 423 IEGVDEGTAEELQTRAREHLEAANKAALENARALGVEDSLIEFEGLTPQMVEALAKDGVK 482

Query: 458 TMEDLAGCSVDDLL-GWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
           T+ED A C+  +L  GW+   G  + K DG L       ++ ++M++ AR  +GW++  +
Sbjct: 483 TLEDFATCADWELAGGWTTQNGQRV-KDDGILEPFDVSLEEAQTMVMTARVMLGWVDPTE 541

Query: 517 V--ADE 520
           +  ADE
Sbjct: 542 LESADE 547


>gi|260576186|ref|ZP_05844179.1| NusA antitermination factor [Rhodobacter sp. SW2]
 gi|259021666|gb|EEW24969.1| NusA antitermination factor [Rhodobacter sp. SW2]
          Length = 533

 Score =  571 bits (1471), Expect = e-160,   Method: Compositional matrix adjust.
 Identities = 286/516 (55%), Positives = 383/516 (74%), Gaps = 4/516 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID D+V+  M +S+ +AA+S YG   DIRV+I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPDLVIQAMEESLARAAKSRYGAELDIRVKIDRKTGRA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE+  +EN+  Q++LK A    P   +G  V D +PP+D GR+A QSAKQVI
Sbjct: 63  TFARIRTVVEDEALENHHAQLTLKQAVAIKPDAVVGDEVIDEVPPVDLGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQ+ EFKD+ G II+G VKR EYGN+IVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQFEEFKDRKGSIINGVVKREEYGNIIVDIGRGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR+++YI DVRRE RGPQV LSRT PQFM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRAYIKDVRREARGPQVFLSRTDPQFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D ATF++NAL+PA V+K
Sbjct: 243 IAVISYDNSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNQDQATFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VV+DE+ G+I V+VP EQLSLAIGRRGQNVRLASQLT   IDI+TE +DS  RQ +F ER
Sbjct: 303 VVIDEEAGKIVVVVPDEQLSLAIGRRGQNVRLASQLTALDIDIVTETDDSARRQAEFTER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ FM  +++DE++A LLV+EGF ++EE+A V + E+ SI+GFDE TA E+Q RAR+ LE
Sbjct: 363 TKLFMDTLDIDEMMAQLLVSEGFTNLEEVAYVDLDELLSIDGFDEATAGELQARARDNLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-GWSENK 477
             +I   +  R LGV + L +  G+  ++  AL ++GIKT+ED A C+  +L  GW+   
Sbjct: 423 AANIKAMENARALGVEDSLVNFEGLTPQMLEALAKDGIKTLEDFATCADWELAGGWTTVN 482

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           G  + K  G L       ++ + +++ AR  +GW++
Sbjct: 483 GARV-KDQGVLEEFDVSLEEAQHLVMTARVMLGWVD 517


>gi|77464744|ref|YP_354248.1| transcription elongation factor NusA [Rhodobacter sphaeroides
           2.4.1]
 gi|126463584|ref|YP_001044698.1| transcription elongation factor NusA [Rhodobacter sphaeroides ATCC
           17029]
 gi|221640658|ref|YP_002526920.1| transcription elongation factor NusA [Rhodobacter sphaeroides
           KD131]
 gi|332559637|ref|ZP_08413959.1| transcription elongation factor NusA [Rhodobacter sphaeroides WS8N]
 gi|77389162|gb|ABA80347.1| N-utilization substance protein A [Rhodobacter sphaeroides 2.4.1]
 gi|126105248|gb|ABN77926.1| NusA antitermination factor [Rhodobacter sphaeroides ATCC 17029]
 gi|221161439|gb|ACM02419.1| NusA antitermination factor [Rhodobacter sphaeroides KD131]
 gi|332277349|gb|EGJ22664.1| transcription elongation factor NusA [Rhodobacter sphaeroides WS8N]
          Length = 535

 Score =  571 bits (1471), Expect = e-160,   Method: Compositional matrix adjust.
 Identities = 285/516 (55%), Positives = 386/516 (74%), Gaps = 4/516 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID D+V+  M +S+ +AA+S YG+  DIRV+I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPDLVIQAMEESLARAAKSRYGSDLDIRVKIDRKTGRA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE+  +EN+  Q+++K AR       IG  + D +PP+D GR+A QSAKQVI
Sbjct: 63  TFARIRTVVEDELIENHHAQVTVKQARSYLADPKIGDEIIDEVPPVDLGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGN+IVD+G  +G++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYDEFKDRKGTIINGVVKREEYGNIIVDIGRGEGILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR+++YI DVRRE RGPQV LSRT PQFM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRAYIKDVRREARGPQVFLSRTDPQFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D ATF++NAL+PA V+K
Sbjct: 243 IAVISYDNSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNQDQATFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VV+DE+ G+IEV+VP EQLSLAIGRRGQNVRLASQLT   IDI+TE ++S  RQ +F ER
Sbjct: 303 VVIDEEAGKIEVVVPDEQLSLAIGRRGQNVRLASQLTALDIDIMTEADESARRQAEFAER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T  FM+ +++DE++A LLV+EGF ++EE+A V   E+ SI+GFDE+TA E+Q RAR++LE
Sbjct: 363 TNLFMETLDIDEMMAQLLVSEGFTNLEEVAYVDPEELLSIDGFDEDTAAELQARARDHLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-GWSENK 477
             +    +  R LG+ + L    G+  ++  AL ++GIKT+ED A C+  +L  GW+   
Sbjct: 423 EANRKALESARALGLEDSLAGFEGLTPQMLEALAKDGIKTLEDFATCADWELAGGWTTVN 482

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           G  + K +G L       ++ + +++ AR  +GW++
Sbjct: 483 GQRV-KDEGVLEKFDVSLEEAQHLVMTARVMLGWVD 517


>gi|146278788|ref|YP_001168947.1| transcription elongation factor NusA [Rhodobacter sphaeroides ATCC
           17025]
 gi|145557029|gb|ABP71642.1| NusA antitermination factor [Rhodobacter sphaeroides ATCC 17025]
          Length = 534

 Score =  570 bits (1470), Expect = e-160,   Method: Compositional matrix adjust.
 Identities = 286/516 (55%), Positives = 385/516 (74%), Gaps = 4/516 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID D+V+  M +S+ +AA+S YG+  DIRV+I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPDLVIQAMEESLARAAKSRYGSDLDIRVKIDRKTGRA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE+  VEN+  QI++K A+       IG  + D +PP+D GR+A QSAKQVI
Sbjct: 63  TFARIRTVVEDEAVENHHAQITVKQAKSYKSDPQIGDEIIDEVPPVDLGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGN+IVD+G  +G++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYDEFKDRKGSIINGVVKREEYGNIIVDIGRGEGILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR+++YI DVRRE RGPQV LSRT PQFM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRAYIKDVRREARGPQVFLSRTDPQFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D ATF++NAL+PA V+K
Sbjct: 243 IAVISYDNSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNQDQATFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VV+DE+ G+IEV+VP EQLSLAIGRRGQNVRLASQLT   IDI+TE ++S  RQ +F ER
Sbjct: 303 VVIDEEAGKIEVVVPDEQLSLAIGRRGQNVRLASQLTALDIDIMTEADESARRQAEFAER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T  FM+   +DE++A LLV+EGF ++EE+A V   E+ SI+GFDE+TA E+Q RAR++LE
Sbjct: 363 TNLFMETPGIDEMMAQLLVSEGFTNLEEVAYVDPEELLSIDGFDEDTAAELQARARDHLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-GWSENK 477
             +    +  R LG+ + L +  G+  ++  AL ++GIKT+ED A C+  +L  GW+   
Sbjct: 423 EANRKALESARALGLEDSLANFEGLTPQMLEALAKDGIKTLEDFATCADWELAGGWTTVN 482

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           G  + K +G L       ++ + +++ AR  +GW++
Sbjct: 483 GQRV-KDEGVLEKFDVSLEEAQHLVMTARVMLGWVD 517


>gi|254466388|ref|ZP_05079799.1| transcription termination factor NusA [Rhodobacterales bacterium
           Y4I]
 gi|206687296|gb|EDZ47778.1| transcription termination factor NusA [Rhodobacterales bacterium
           Y4I]
          Length = 538

 Score =  568 bits (1464), Expect = e-160,   Method: Compositional matrix adjust.
 Identities = 286/516 (55%), Positives = 380/516 (73%), Gaps = 4/516 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVIEAMEESLARAAKSRYGAEMDIRVSIDRKTGRA 62

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VV  +E+ENY  +++++ AR    + ++G    + +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVADDELENYQAEMTVEQARQYMANPEVGQTYVEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRAGTIINGLVKREEYGNVIVDVGAGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DRV+ YI DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRVRCYIKDVRREPRGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA VTK
Sbjct: 243 IAVVSYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVTK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TEEE+S  RQK+F  R
Sbjct: 303 VVLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEEEESARRQKEFEAR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ FM+ +++DE  A LLV+EGF ++EE+A V++ E+  I+G DE TA E+Q RAR+YLE
Sbjct: 363 TKLFMETLDLDEFFAQLLVSEGFTNLEEVAYVELDELLVIDGVDEGTAEELQARARDYLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-GWSENK 477
                     RELG  E L    G+  ++  AL ++ +K++ED A C+  +L  GW+ N 
Sbjct: 423 AQAKAALDAARELGAEESLIQFEGLTPQMVEALAKDDVKSLEDFATCADWELAGGWTSN- 481

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           GG   K DG L   G   ++ + M++ AR  +GW++
Sbjct: 482 GGERVKDDGILEPFGVSLEEAQDMVMTARIMLGWVD 517


>gi|114799070|ref|YP_758846.1| transcription termination factor NusA [Hyphomonas neptunium ATCC
           15444]
 gi|114739244|gb|ABI77369.1| transcription termination factor NusA [Hyphomonas neptunium ATCC
           15444]
          Length = 592

 Score =  567 bits (1461), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 288/519 (55%), Positives = 374/519 (72%), Gaps = 3/519 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLE+LQIA AVA EKSID+ +V+  M ++I+KAA++ YG   DIR +I+P TG+ +
Sbjct: 6   VSANRLEILQIAKAVAEEKSIDQRIVIEAMQEAIEKAAKAKYGQEHDIRAKIDPATGEQT 65

Query: 62  LFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           L+R+  VV  E  E+   Q+ L  A+  D ++  G  + + LPP DFGRVA Q+AKQVI 
Sbjct: 66  LWRIQTVVDDETFEDEAKQLRLSEAKRIDATLVAGSELKEELPPFDFGRVAAQTAKQVIT 125

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPG 179
           QKVR+AER+RQY E+KD+VGEI+SG VKRVEYG+VIVDLG ++G+IRR++ I REN +P 
Sbjct: 126 QKVRDAERERQYNEYKDRVGEIVSGIVKRVEYGHVIVDLGRAEGIIRRNDGIPRENFQPN 185

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DRV++Y+Y V RE +GPQ+ LSR  P FM KLF  EVPE+Y G++Q+KA +RDPGSRAK+
Sbjct: 186 DRVRAYLYKVSREVKGPQIFLSRAAPDFMRKLFAQEVPEVYEGVIQIKACARDPGSRAKI 245

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
            V S+DSSIDPVGACVGMRG+RVQAVV EL  EKIDI+ WS D+ATF++N L+PA V+KV
Sbjct: 246 GVISNDSSIDPVGACVGMRGARVQAVVGELSGEKIDIIPWSFDAATFIVNGLQPAEVSKV 305

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           VLDED  R+EV+V  +Q  LAIGRRGQNVRLASQLTGW ID+ITE  DS   QK+F ERT
Sbjct: 306 VLDEDERRVEVVVADDQFPLAIGRRGQNVRLASQLTGWQIDLITESADSERYQKEFQERT 365

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             FM+A++ DE +A LL +EGF  VEE+A V   +  +IEGFD++ A E+Q RAREYL+ 
Sbjct: 366 DLFMKALDADETLAQLLASEGFESVEEIAFVAPEDFITIEGFDKDVAEELQERAREYLDR 425

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSE-NKG 478
           +      K RELGV++E+  + G+     V LGE G+KT+ED+AG   DD+ G+ E    
Sbjct: 426 VATENDAKRRELGVADEVMELEGVTPSFAVKLGEQGVKTVEDVAGLVPDDITGYREPGPD 485

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
           G     +G L      KD     ++ AR   GWIE E +
Sbjct: 486 GKPVWVEGILKKGEMRKDDANLFVMKARVAAGWIEPEAI 524


>gi|126724629|ref|ZP_01740472.1| transcription elongation factor NusA [Rhodobacterales bacterium
           HTCC2150]
 gi|126705793|gb|EBA04883.1| transcription elongation factor NusA [Rhodobacterales bacterium
           HTCC2150]
          Length = 534

 Score =  566 bits (1460), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 283/514 (55%), Positives = 382/514 (74%), Gaps = 2/514 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPSLVIEAMEESLARAAKSRYGAEMDIRVSIDRKTGRA 62

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +  R+  VVEEVENY  + +++ A+      ++G  V+D +PP++ GR+A QSAKQVI+Q
Sbjct: 63  TFTRVRTVVEEVENYQAEFTVEEAKPYKADAEVGDEVTDEVPPVEMGRIAAQSAKQVILQ 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           K+REAERDRQ+ EF+D+ G II+G VKR EYGNVIVD+G  +GV+RR+E I RE+ RP D
Sbjct: 123 KIREAERDRQFEEFQDRAGTIINGVVKREEYGNVIVDVGRGEGVLRRNEKIGRESYRPND 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R++ +I DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+GI+ +KAV+RDPGSRAK+A
Sbjct: 183 RIRCFIKDVRREARGPQIFLSRTAPEFMAELFKMEVPEIYDGIIDIKAVARDPGSRAKIA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D+ TF++NAL+PA V+KVV
Sbjct: 243 VISHDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDAPTFLVNALQPAEVSKVV 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDE+  RIEV+VP EQLSLAIGRRGQNVRLASQLTG  IDI+TE E+S  RQ +FNERT 
Sbjct: 303 LDEEAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGLDIDILTEAEESKRRQAEFNERTG 362

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+A+++DE  A LLVAEGF  +EE+A V++ E+  I+G DE TA E+Q RAR+Y+E +
Sbjct: 363 LFMEALDLDEFFAQLLVAEGFRTLEEVAYVEVDELLVIDGVDEGTAGELQARARDYIEAL 422

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-GWSENKGG 479
           +    ++  ELGV + L    G+  ++  AL E+G+ ++ED A C+  +L  GW+   G 
Sbjct: 423 NKKALERAVELGVVQSLIDFEGLTPQMIEALAEDGVLSLEDFATCADWELAGGWTTVDGE 482

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
            + K DG L       ++ ++M++ AR ++GW++
Sbjct: 483 RV-KDDGVLEKFDVALEEAQNMVMTARIQLGWVD 515


>gi|114762088|ref|ZP_01441556.1| transcription elongation factor NusA [Pelagibaca bermudensis
           HTCC2601]
 gi|114545112|gb|EAU48115.1| transcription elongation factor NusA [Roseovarius sp. HTCC2601]
          Length = 542

 Score =  566 bits (1459), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 289/516 (56%), Positives = 379/516 (73%), Gaps = 4/516 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG+  DIRV+I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPALVIEAMEESLARAAKSRYGSEMDIRVKIDRKTGRA 62

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE  E+ENY  ++++K A+       +G    + +PP+D GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEDEELENYQAEMTVKQAKQYMADPQVGDQYVEEVPPVDMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+GTVKR EYGNVIVD+G  +G++RR+E I RE  RP
Sbjct: 123 LQKVREAERDRQYDEFKDRNGTIINGTVKREEYGNVIVDIGRGEGILRRNEKIGREAYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDR++ YI DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 GDRIRCYIKDVRREARGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           + V S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IGVISYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDMPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDED  RIEV+VP EQLSLAIGRRGQNVRLASQLTG  IDI+TEEE+S  RQK+F ER
Sbjct: 303 VVLDEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGLDIDIMTEEEESARRQKEFEER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ FM  +++DE  A LLVAEGF ++EE+A V++ E+  I+G D++TA E+Q RARE+LE
Sbjct: 363 TKLFMDTLDLDEFFAQLLVAEGFTNLEEVAYVELDELLVIDGVDDDTAQELQTRAREFLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-GWSENK 477
                     RELG  + L    G+  ++  AL E+G+KT+ED A C+  +L  GW+   
Sbjct: 423 EQARKALAHARELGAEDSLIEFDGLTPQMVEALAEDGVKTLEDFATCADWELAGGWTTVN 482

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           G  + K DG L        + +++I+ AR  +GW++
Sbjct: 483 GERV-KDDGLLEKFDVDLAEAQNLIMTARVLLGWVD 517


>gi|126738452|ref|ZP_01754157.1| transcription elongation factor NusA [Roseobacter sp. SK209-2-6]
 gi|126720251|gb|EBA16957.1| transcription elongation factor NusA [Roseobacter sp. SK209-2-6]
          Length = 539

 Score =  566 bits (1458), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 285/519 (54%), Positives = 382/519 (73%), Gaps = 2/519 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG+  DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVVDAMEESLARAAKSRYGSEMDIRVTIDRKTGKA 62

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VV  +E+ENY  +++++ AR    + ++G V S+ +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVADDELENYQAEMTVEQARQYMENPEVGDVFSEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G  +G++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRNGTIINGVVKREEYGNVIVDVGAGEGILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ YI DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRCYIKDVRREPRGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISHDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLT   IDI+TEEE+S  RQK+F  R
Sbjct: 303 VVLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTALDIDIMTEEEESARRQKEFEAR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T  FM+ +++DE  A LLV+EGF ++EE+A V+I E+  I+G DE TA E+Q RAR+YLE
Sbjct: 363 TGLFMETLDLDEFFAQLLVSEGFTNLEEVAYVEIEELLVIDGVDEGTAEELQARARDYLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                     R LG  + L    G+  ++  AL ++ +KT+ED A C+  +L G   N G
Sbjct: 423 AQAKAAIDAARALGAEDSLIQFDGLTPQMVEALAKDDVKTLEDFATCADWELAGGWTNDG 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
           G   K DG L   G   ++ + +++ AR  +GW++ E++
Sbjct: 483 GERIKDDGILEPFGMSLEEAQDLVMTARIMLGWVDPEEL 521


>gi|254460407|ref|ZP_05073823.1| transcription termination factor NusA [Rhodobacterales bacterium
           HTCC2083]
 gi|206676996|gb|EDZ41483.1| transcription termination factor NusA [Rhodobacteraceae bacterium
           HTCC2083]
          Length = 537

 Score =  566 bits (1458), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 286/516 (55%), Positives = 380/516 (73%), Gaps = 4/516 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVIEAMEESLARAAKSRYGAEMDIRVAIDRKTGRA 62

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE  E+ENY  + +++ A+    + ++G    + +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEDEELENYQAEFTVEQAKQYMENPEVGATFVEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQ+ EF+D+ G II+G VKR EYGNVIVD+G  +G++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQFEEFQDRAGTIINGVVKREEYGNVIVDVGRGEGILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ +I DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+ I+++KAV+RDPGSRAK
Sbjct: 183 NDRIRCFIKDVRREARGPQIFLSRTAPEFMAELFKMEVPEIYDNIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISHDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP EQLSLAIGRRGQNVRLASQLT   IDI+TEEE+S  RQ +F  R
Sbjct: 303 VVLDEEAGKIEVVVPDEQLSLAIGRRGQNVRLASQLTNLDIDIMTEEEESKRRQAEFELR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ FM+A++VDE  A LLVAEGF ++EE+A V+I E+  I+G DE+TA E+Q RARE+LE
Sbjct: 363 TKLFMEALDVDEFFAQLLVAEGFTNLEEVAYVEIDELLVIDGVDEDTAGELQTRAREFLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-GWSENK 477
                   K RELG  + L +  GI  ++   L E+G+KT+ED A C+  +L  GW+   
Sbjct: 423 AKAAAALAKARELGADDSLLTFEGITPQMAEVLAEDGVKTLEDFATCADWELAGGWTTVD 482

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           G  + K DG L   G   ++ +SMI+ AR  +GW++
Sbjct: 483 GERV-KDDGLLEQFGMELEEAQSMIMTARVLLGWVD 517


>gi|23016102|ref|ZP_00055862.1| COG0195: Transcription elongation factor [Magnetospirillum
           magnetotacticum MS-1]
          Length = 502

 Score =  565 bits (1455), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 289/466 (62%), Positives = 360/466 (77%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
           R ELLQ+ADAVA +K IDRD VL  M  +IQKA RS YG   DIR  I+ +TG+I L R 
Sbjct: 9   RPELLQVADAVARDKGIDRDEVLEAMEQAIQKAGRSKYGHEHDIRAHIDRKTGEIQLARY 68

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           +EVVEEVEN   Q +LK    + P   +G  + DPLPP+DFGR+A Q+AKQVI+QKVR+A
Sbjct: 69  IEVVEEVENEATQQTLKQVLKKKPDAQVGDFLVDPLPPIDFGRIAAQTAKQVIVQKVRDA 128

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER RQ+ E+KD+VGEI +G VKRVE+GNVIVDLG ++ ++RRDE I RE  R GDRV++Y
Sbjct: 129 ERQRQFNEYKDRVGEISNGLVKRVEFGNVIVDLGRAEALLRRDELIPRETFRTGDRVRAY 188

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           IYDVR+E RGPQ+ LSRTHP FM KLF  EVPEIY+GI+++KAV+RDPGSRAK+AV S D
Sbjct: 189 IYDVRQEPRGPQIFLSRTHPIFMAKLFAQEVPEIYDGIIEIKAVARDPGSRAKIAVQSHD 248

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           SSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+N L PA VTKVVLDE+ 
Sbjct: 249 SSIDPVGACVGMRGSRVQAVVAELQGEKIDIIQWSPDVATFVVNGLAPAEVTKVVLDEEA 308

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
           GRIEV+VP +QLSLAIGRRGQNVRLASQLT W IDI+TE E+S  R ++F  R+  F+QA
Sbjct: 309 GRIEVVVPDDQLSLAIGRRGQNVRLASQLTQWNIDILTEAEESERRTEEFRSRSNMFIQA 368

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VD++IAHLLV EGF+ VEE+A V   +IA IEGFDE  A E+Q RAR +L   D    
Sbjct: 369 LDVDDVIAHLLVTEGFSSVEEVAYVPSEDIADIEGFDENVAEELQTRARNFLAEQDERYD 428

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           +  +++GV++E+ +I G+   + V LG+ GIKT++DL   + D+LL
Sbjct: 429 QMRKDMGVADEMAAIEGLAPSMLVKLGDKGIKTLDDLGDLAGDELL 474


>gi|149202949|ref|ZP_01879920.1| transcription elongation factor NusA [Roseovarius sp. TM1035]
 gi|149143495|gb|EDM31531.1| transcription elongation factor NusA [Roseovarius sp. TM1035]
          Length = 540

 Score =  564 bits (1454), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 285/516 (55%), Positives = 382/516 (74%), Gaps = 4/516 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG+  DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPALVVEAMEESLARAAKSRYGSEMDIRVNIDRKTGRA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
              R+  VVE+  VENY  ++++  A+       +G    + +PP++ GR+A QSAKQVI
Sbjct: 63  KFTRVRTVVEDEAVENYQAEMTVAQAKQYLDDPKVGDTYVEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQ+ EFKD++G II+G VKR EYGNVIVD+G  + ++RR+E I RE  RP
Sbjct: 123 LQKVREAERDRQFEEFKDRLGTIINGVVKREEYGNVIVDVGRGEAILRRNEKIGREAYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DRV+ YI DVRREQRGPQ+ LSRT PQFM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRVRCYIKDVRREQRGPQIFLSRTDPQFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D ATF++NAL+PA V+K
Sbjct: 243 IAVISYDNSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQATFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VV+DED  RIEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TE EDS  RQK+F ER
Sbjct: 303 VVIDEDAQRIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEAEDSERRQKEFEER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ F+ A+++DE  A LLV+EGF ++EE+A V + E+  I+G DE+TA E+Q RAR+ +E
Sbjct: 363 TKLFVDALDLDEFFAQLLVSEGFTNLEEVAYVDVDELLVIDGVDEDTAAELQARARDMIE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-GWSENK 477
                   K RELGV + L +  G+  ++ +AL E+ +K++ED A C+  +L  GW+  K
Sbjct: 423 AQAKAALDKARELGVEDSLIAFEGLTPQMVLALAEDDVKSLEDFATCADWELAGGWTTVK 482

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           G  + K +G L       ++ ++M++ AR  +GW++
Sbjct: 483 GERV-KDEGILEKFDVSLEEAQNMVMTARVMLGWVD 517


>gi|85705698|ref|ZP_01036795.1| transcription elongation factor NusA [Roseovarius sp. 217]
 gi|85669688|gb|EAQ24552.1| transcription elongation factor NusA [Roseovarius sp. 217]
          Length = 539

 Score =  564 bits (1453), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 285/516 (55%), Positives = 381/516 (73%), Gaps = 4/516 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG+  DIRVEI+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPALVVEAMEESLARAAKSRYGSEMDIRVEIDRKTGRA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
              R+  VV +  +ENY  +++++ A+       +G    + +PP++ GR+A QSAKQVI
Sbjct: 63  KFTRVRTVVADDALENYQAEMTVEQAKQFLDDPKVGDAFVEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQ+ EFKD+VG II+G VKR EYGNVIVD+G  + ++RR+E I RE  RP
Sbjct: 123 LQKVREAERDRQFEEFKDRVGTIINGVVKREEYGNVIVDVGRGEAILRRNEKIGREAYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DRV+ YI DVRREQRGPQ+ LSRT PQFM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRVRCYIKDVRREQRGPQIFLSRTDPQFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D ATF++NAL+PA V+K
Sbjct: 243 IAVISYDSSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQATFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VV+DED  RIEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TE EDS  RQK+F ER
Sbjct: 303 VVIDEDAQRIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEAEDSERRQKEFEER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ F+  +++DE  A LLV+EGF ++EE+A V + E+  I+G DE+TA E+Q RAR+ +E
Sbjct: 363 TKLFVDTLDLDEFFAQLLVSEGFTNLEEVAYVDLDELLVIDGVDEDTAAELQARARDVIE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-GWSENK 477
                   K RELGV + L +  G+  ++ +AL E+ +K++ED A C+  +L  GW+  K
Sbjct: 423 AQTKAALDKARELGVEDSLIAFEGLTPQMVLALAEDDVKSLEDFATCADWELAGGWTTVK 482

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           G  + K +G L       ++ + M++ AR  +GW++
Sbjct: 483 GERV-KDEGILEKFDVSLEEAQHMVMTARVMLGWVD 517


>gi|83313172|ref|YP_423436.1| transcription elongation factor NusA [Magnetospirillum magneticum
           AMB-1]
 gi|82948013|dbj|BAE52877.1| Transcription elongation factor [Magnetospirillum magneticum AMB-1]
          Length = 503

 Score =  564 bits (1453), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 296/511 (57%), Positives = 374/511 (73%), Gaps = 16/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
           R ELLQ+ADAVA +K IDRD VL  M  +IQKA RS YG   DIR  I+ +TG+I L R 
Sbjct: 9   RPELLQVADAVARDKGIDRDEVLEAMEQAIQKAGRSKYGHEHDIRAHIDRKTGEIQLARY 68

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           +EVVEEVEN   Q +LK    + P   +G  + DPLPP+DFGR+A Q+AKQVI+QKVR+A
Sbjct: 69  IEVVEEVENEATQQTLKQVLKKKPDAVVGDFLVDPLPPIDFGRIAAQTAKQVIVQKVRDA 128

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER RQ+ E+KD+VGEI +G VKRVE+GNVIVDLG ++ ++RRDE I RE  R GDRV++Y
Sbjct: 129 ERQRQFNEYKDRVGEISNGLVKRVEFGNVIVDLGRAEALLRRDELIPRETFRTGDRVRAY 188

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           IYDVR+E RGPQ+ LSRTHP FM KLF  EVPEIY+GI+++KAV+RDPGSRAK+AV S D
Sbjct: 189 IYDVRQEPRGPQIFLSRTHPIFMAKLFAQEVPEIYDGIIEIKAVARDPGSRAKIAVLSHD 248

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           SSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+N L PA VTKVVLDE+ 
Sbjct: 249 SSIDPVGACVGMRGSRVQAVVAELQGEKIDIIQWSPDVATFVVNGLAPAEVTKVVLDEEA 308

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
           GRIEV+VP +QLSLAIGRRGQNVRLASQLT W IDI+TE E+S  R ++F  R+  F+QA
Sbjct: 309 GRIEVVVPDDQLSLAIGRRGQNVRLASQLTQWNIDILTEAEESERRTEEFRSRSNMFIQA 368

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VD++IAHLLV EGF+ VEE+A V   +IA IEGFDE  A E+Q RAR +L   D    
Sbjct: 369 LDVDDVIAHLLVTEGFSSVEEVAYVPAEDIADIEGFDENVAEELQTRARNFLAEQDERYD 428

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFD 485
           +  +++GV++E+ +I G+   + V LG+ GIKT++DL   + D+L+              
Sbjct: 429 QMRKDMGVADEMAAIEGLAPSMLVKLGDKGIKTLDDLGDLAGDELI-------------- 474

Query: 486 GFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
             L      +D+  ++I+ AR    W E+ K
Sbjct: 475 DILGKDAMTEDEANAVIMAARAH--WFEEGK 503


>gi|254295403|ref|YP_003061426.1| NusA antitermination factor [Hirschia baltica ATCC 49814]
 gi|254043934|gb|ACT60729.1| NusA antitermination factor [Hirschia baltica ATCC 49814]
          Length = 572

 Score =  563 bits (1450), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 286/511 (55%), Positives = 382/511 (74%), Gaps = 1/511 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSAN+LE+L IA+ +A EK ID+ +VL  MA++IQKAARS YG   DI V I+P++G+ +
Sbjct: 6   VSANKLEILAIANILAAEKQIDKMIVLEAMAEAIQKAARSRYGQEHDIHVHIDPKSGETT 65

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           + R+  VVEEVE+    +SL+ AR+ DP+ +IG    + LPP +FGRVA Q+AKQVI  K
Sbjct: 66  ITRVQTVVEEVEDPAHHLSLEEAREIDPNAEIGTEFKEILPPFEFGRVAAQTAKQVITGK 125

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AERDRQY EFKDK G+II+G VKRVE+GN+IVDLG  +G+IRR++ + RENL PGDR
Sbjct: 126 VRDAERDRQYEEFKDKEGQIINGIVKRVEHGNIIVDLGRGEGIIRRNDGLPRENLNPGDR 185

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ +Y V RE +GPQ+ LSR HP FMV LF  EVPE+Y G++++KA SRDPGSRAK+ V
Sbjct: 186 VRAILYKVSREPKGPQLFLSRAHPTFMVALFSQEVPEVYEGVIEIKACSRDPGSRAKIGV 245

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+S+DPVGACVGMRG+RVQAVV+EL+ EKIDI+ WS D ATF++NAL+PA V+KVV+
Sbjct: 246 LSHDASVDPVGACVGMRGARVQAVVSELQGEKIDIIPWSEDEATFIVNALQPAEVSKVVV 305

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  R+EV+V + Q  LAIGRRGQNVRLASQLTGW ID+ TE +DS  RQK+F ER+  
Sbjct: 306 DEDEERVEVVVEESQFPLAIGRRGQNVRLASQLTGWQIDLTTEAQDSERRQKEFQERSGL 365

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A++ DE++A LL +EGF ++EE+A V + + ASI+GFDE  A E+Q RAREYLE + 
Sbjct: 366 FMRALDADEMLAQLLASEGFENIEEIAYVDLEDFASIDGFDEAVASELQTRAREYLELLA 425

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             + KK ++LGV++E+  + G+   + V  G++GIKT++DLAG   DDL+GW E      
Sbjct: 426 AAMDKKRKDLGVTDEVAFMDGVTPVMAVRFGDDGIKTIDDLAGLVPDDLIGWKEPDAKGK 485

Query: 482 EKFD-GFLSSLGTPKDQVESMIIHARYKMGW 511
            ++  G L+     +D  E  I+ AR   GW
Sbjct: 486 SRWQPGLLAKGEMTRDAAELFILRARVLAGW 516


>gi|159046101|ref|YP_001534895.1| transcription elongation factor NusA [Dinoroseobacter shibae DFL
           12]
 gi|157913861|gb|ABV95294.1| transcription elongation protein nusA [Dinoroseobacter shibae DFL
           12]
          Length = 544

 Score =  563 bits (1450), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 290/530 (54%), Positives = 390/530 (73%), Gaps = 10/530 (1%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG+  DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVIEAMEESLARAAKSRYGSEMDIRVSIDRKTGVA 62

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSID---IGGVVSDPLPPMDFGRVAVQSAK 115
           +  R+  VVE  E+ENY  +++++ A+   P +D   +G  + D +PP++ GR+A QSAK
Sbjct: 63  TFTRVRTVVEDEELENYQAELTVEQAK---PYLDDPKVGDTIVDQVPPVEMGRIAAQSAK 119

Query: 116 QVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISREN 175
           QVI+QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G  +GV+RR+E I RE+
Sbjct: 120 QVILQKVREAERDRQYEEFKDRAGTIINGVVKREEYGNVIVDIGRGEGVLRRNEKIGRES 179

Query: 176 LRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
            RP DR++ YI DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGS
Sbjct: 180 YRPNDRIRCYIKDVRREVRGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGS 239

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA 
Sbjct: 240 RAKIAVISYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAE 299

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF 355
           V+KVVLDED  RIEV+VP EQLSLAIGRRGQNVRLASQLTG  IDI+TE ++S  RQ +F
Sbjct: 300 VSKVVLDEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGLDIDIMTEAQESERRQAEF 359

Query: 356 NERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
            ERT  F++A++VDE++A LLV+EGF ++EE+A V+  E+  I+GFDE+TA E+Q RARE
Sbjct: 360 AERTNMFVEALDVDEVLAQLLVSEGFTNLEEVAYVEQEELLVIDGFDEDTAEELQTRARE 419

Query: 416 YLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-GWS 474
           +LE       ++ RE+GV + L    G+  ++  AL  +G+KT+ED A C+  +L  GW+
Sbjct: 420 FLEEQAKKALERAREMGVEDSLVEFEGLTPQMLEALAADGVKTLEDFATCADWELAGGWT 479

Query: 475 ENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQD 524
              G  + K +G L       ++ + +++ AR ++GW+  E +  EE  D
Sbjct: 480 TVDGERV-KDEGVLEKFDVSLEEAQLLVMTARVQLGWVNPEDLEIEEDAD 528


>gi|149912925|ref|ZP_01901459.1| transcription elongation factor NusA [Roseobacter sp. AzwK-3b]
 gi|149813331|gb|EDM73157.1| transcription elongation factor NusA [Roseobacter sp. AzwK-3b]
          Length = 540

 Score =  560 bits (1442), Expect = e-157,   Method: Compositional matrix adjust.
 Identities = 284/516 (55%), Positives = 381/516 (73%), Gaps = 4/516 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVVEAMEESLARAAKSRYGAEMDIRVSIDRKTGKA 62

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VV  +E+ENY  ++++  A+       IG    + +PP+D GR+A QSAKQVI
Sbjct: 63  NFTRVRTVVADDELENYQAEMTVDQAKQYLDDPKIGDEFIEEIPPVDLGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRAGTIINGVVKREEYGNVIVDVGRGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDRV++YI DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 GDRVRAYIKDVRREARGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDNSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+  RIEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TE EDS  RQK+F ER
Sbjct: 303 VVLDEEAERIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEAEDSERRQKEFEER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ F+  +++DE  A LLV+EGF ++EE+A V++ E+  I+G D++TA E+Q RAR+ L+
Sbjct: 363 TKLFVDTLDLDEFFAQLLVSEGFTNLEEVAYVELDELLVIDGVDQDTANELQARARDVLD 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-GWSENK 477
                  +K RELG  + L    G+  ++ VAL E+G+KT+ED A C+  +L  GW+   
Sbjct: 423 AQAREAMEKARELGAEDSLIEFEGLTPQMIVALAEDGVKTLEDFATCADWELAGGWTTVD 482

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           G  + K +G L       ++ ++M++ AR  +GW++
Sbjct: 483 GQRV-KDEGVLEPFEVSLEEAQNMVMTARVMLGWVD 517


>gi|254475265|ref|ZP_05088651.1| NusA antitermination factor [Ruegeria sp. R11]
 gi|214029508|gb|EEB70343.1| NusA antitermination factor [Ruegeria sp. R11]
          Length = 541

 Score =  559 bits (1441), Expect = e-157,   Method: Compositional matrix adjust.
 Identities = 287/530 (54%), Positives = 387/530 (73%), Gaps = 8/530 (1%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG+  DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPSLVVDAMEESLARAAKSRYGSEMDIRVSIDRKTGRA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDR--DPSIDIGGVVSDPLPPMDFGRVAVQSAKQ 116
           +  R+  VVE+  +ENY  +++++ A+    DPS+  G V  + +PP++ GR+A QSAKQ
Sbjct: 63  TFTRVRTVVEDDALENYQAEMTVEQAKQYMADPSV--GDVFVEEVPPVEMGRIAAQSAKQ 120

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENL 176
           VI+QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G  + ++RR+E I RE+ 
Sbjct: 121 VILQKVREAERDRQYEEFKDRAGTIINGLVKREEYGNVIVDVGAGEAILRRNEKIGRESY 180

Query: 177 RPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
           RP DR++ +I DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+G++++KAV+RDPGSR
Sbjct: 181 RPNDRIRCFIKDVRREPRGPQIFLSRTAPEFMAELFKMEVPEIYDGVIEIKAVARDPGSR 240

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           AK+AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V
Sbjct: 241 AKIAVISYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEV 300

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN 356
           +KVVLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLT   IDI+TEEE+S  RQK+F 
Sbjct: 301 SKVVLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTNLDIDIMTEEEESARRQKEFE 360

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
            RTQ FM+ +++DE  A LLV+EGF ++EE+A V++ E+  I+G DE TA E+Q RA +Y
Sbjct: 361 ARTQLFMETLDLDEFFAQLLVSEGFTNLEEVAYVELDELLVIDGVDEGTAQELQARAADY 420

Query: 417 LEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-GWSE 475
           LE          R LGV + L    G+  ++  AL ++GIKT+ED A C+  +L  GW+ 
Sbjct: 421 LEAQAKAAIDAARALGVEDSLIDFDGLTPQMIEALAKDGIKTLEDFATCADWELAGGWTS 480

Query: 476 NKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
           NKG  + K DG L       +  +++++ AR  +GW++  ++  E   DA
Sbjct: 481 NKGERV-KDDGILEPFDVSLEDAQNLVMTARVLLGWVDPAELEAEAEDDA 529


>gi|148259243|ref|YP_001233370.1| transcription elongation factor NusA [Acidiphilium cryptum JF-5]
 gi|326402396|ref|YP_004282477.1| transcription elongation protein NusA [Acidiphilium multivorum
           AIU301]
 gi|146400924|gb|ABQ29451.1| NusA antitermination factor [Acidiphilium cryptum JF-5]
 gi|325049257|dbj|BAJ79595.1| transcription elongation protein NusA [Acidiphilium multivorum
           AIU301]
          Length = 506

 Score =  559 bits (1440), Expect = e-157,   Method: Compositional matrix adjust.
 Identities = 286/466 (61%), Positives = 359/466 (77%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
           R ELL +ADAVA EK IDR+ VL  M  +IQKA R+ YG   DIR  I+ +TGD+ L R 
Sbjct: 9   RPELLLVADAVAREKQIDREEVLEAMEQAIQKAGRAKYGHEKDIRATIDRKTGDVRLSRW 68

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            E VE VEN   QI + +AR   P I++GG + DPLPP+DFGR+A Q+AKQVI+Q+VRE 
Sbjct: 69  TEAVETVENEETQIPIHIARKFKPDIEVGGHLVDPLPPIDFGRIAAQTAKQVIVQRVREY 128

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER RQY E+KD+VGEII+G VKR EYGN++VDLG S+ ++RRDETI RENL  GDRV+++
Sbjct: 129 ERKRQYDEYKDRVGEIITGVVKRTEYGNLMVDLGRSEALLRRDETIPRENLHNGDRVRAF 188

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           IYDVR E RGPQ+ LSRTHP F+ KLF  EVPEIY GI+++KAV+RDPGSRAK+AV S D
Sbjct: 189 IYDVREEPRGPQIFLSRTHPGFLAKLFAQEVPEIYEGIIEIKAVARDPGSRAKMAVISRD 248

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           SSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSP+ ATFV+NAL PA V+KVVLDE+ 
Sbjct: 249 SSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPNPATFVVNALAPAEVSKVVLDEEA 308

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
           G++EV+VP  QLSLAIGRRGQNVRLASQLT W IDI+TE E+S  RQ++F  R+  F++A
Sbjct: 309 GKVEVVVPDTQLSLAIGRRGQNVRLASQLTRWDIDILTEAEESERRQEEFRRRSGLFVEA 368

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VD++IA LLV EGF  VE+LA   + E+A+IEGFDE  A E+Q RA   LE     L+
Sbjct: 369 LDVDDVIAGLLVTEGFEGVEDLAATPVEELAAIEGFDEGIAAELQRRAEVALERKATELE 428

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
            K R LGV+++L  + G+   + VALGE G+KT++DLA  + D+L+
Sbjct: 429 DKRRALGVADDLAGLEGLSPAMLVALGEKGVKTLDDLADLASDELI 474


>gi|58040013|ref|YP_191977.1| transcription elongation factor NusA [Gluconobacter oxydans 621H]
 gi|58002427|gb|AAW61321.1| N utilization substance protein A NusA [Gluconobacter oxydans 621H]
          Length = 517

 Score =  559 bits (1440), Expect = e-157,   Method: Compositional matrix adjust.
 Identities = 274/470 (58%), Positives = 357/470 (75%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
            S  R ELL +ADAV+ EK+IDR+ VL  M  +IQKA R+ YG   DIR  I+ +TG++ 
Sbjct: 3   TSVTRPELLLVADAVSREKNIDREEVLEAMEQAIQKAGRAKYGHEKDIRATIDRKTGEVR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R  E VE VEN   QI L +AR   P I  G  + DPLPP+DFGR+A Q+AKQVI+Q+
Sbjct: 63  LSRWTEAVEHVENEDTQIPLHIARKFQPEIQAGEHLVDPLPPIDFGRIAAQTAKQVIVQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VRE ER RQY EFKD+VGEI++GTVKR EYGN++V++G+++ ++RRDE I RE+ R  DR
Sbjct: 123 VREYERKRQYNEFKDRVGEIVNGTVKRTEYGNLMVEIGHTEALLRRDELIPRESFRNSDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YIYDVR E RGPQ+ LSRTHP F+ KLF  EVPEIY+GI+++KAVSRDPGSRAK+AV
Sbjct: 183 VRAYIYDVRDEPRGPQIFLSRTHPAFLAKLFAQEVPEIYDGIIEIKAVSRDPGSRAKMAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D++IDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSP +ATFV+NAL PA V+KVV+
Sbjct: 243 ISRDAAIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPQAATFVVNALAPAEVSKVVM 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+ GR+EV+VP EQLSLAIGRRGQNVRLASQLT W IDI+TE E+S  RQ++F +R+  
Sbjct: 303 DEEAGRVEVVVPDEQLSLAIGRRGQNVRLASQLTRWDIDILTEAEESERRQEEFRKRSSQ 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F++A++VD++IA LLV EGF  +EELA     E+  IEGFDE  A E+  RA +YL   +
Sbjct: 363 FVEALDVDDVIAGLLVTEGFHTIEELAYTDPGELNDIEGFDESVAEELMHRANDYLASKE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
             L  + + LGV++++  +    +++ V LGE G+KT++DLA  + D+L+
Sbjct: 423 QALDDQRKALGVTDDVAELGTFTNQMLVTLGEKGVKTLDDLADLAGDELV 472


>gi|87200505|ref|YP_497762.1| transcription elongation factor NusA [Novosphingobium
           aromaticivorans DSM 12444]
 gi|87136186|gb|ABD26928.1| NusA antitermination factor [Novosphingobium aromaticivorans DSM
           12444]
          Length = 544

 Score =  558 bits (1439), Expect = e-157,   Method: Compositional matrix adjust.
 Identities = 291/534 (54%), Positives = 389/534 (72%), Gaps = 17/534 (3%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANR ELL IA+AVA EK ID+ +V+  M ++IQK+AR+ YG  +DIR +++P TGD+ 
Sbjct: 5   ISANRAELLAIANAVATEKMIDKSIVIEAMEEAIQKSARNRYGAENDIRAKLDPRTGDLR 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+R++EVVE VE+Y  Q+ LK A    P   IG  + DPLPP+D GR+  QSAKQVI QK
Sbjct: 65  LWRVVEVVEVVEDYFKQVDLKQAEKLQPGAKIGDFIVDPLPPVDLGRIDAQSAKQVIFQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AERDRQY EFKD+ GE+I+G +K VE+G+VIV+LG ++GVIRRD+ I RE  R G+R
Sbjct: 125 VRDAERDRQYDEFKDRAGEVITGVIKSVEFGHVIVNLGRAEGVIRRDQQIPREVPRVGER 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I  V R+ RGPQ+ LSR HP+FM KLF  EVPEIY+GI+++KA +RDPGSRAK+ V
Sbjct: 185 VRALILKVERQNRGPQIFLSRAHPEFMKKLFAQEVPEIYDGIIEIKAAARDPGSRAKIGV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGM+GSRVQAVV EL+ EKIDI+ WS D+ATFV+NAL+PA V++VV+
Sbjct: 245 ISRDSSIDPVGACVGMKGSRVQAVVQELQGEKIDIIPWSEDTATFVVNALQPATVSRVVI 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  RIEV+VP +QLSLAIGRRGQNVRLAS LTG  IDI+TE E S  RQK+F ER++ 
Sbjct: 305 DEEESRIEVVVPDDQLSLAIGRRGQNVRLASSLTGSAIDIMTEAEASEKRQKEFAERSKM 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + ++VDE ++ LLVAEGF ++EE+A ++++E+A+IEGFDEE A E+Q RA E +E  +
Sbjct: 365 FEEELDVDETLSQLLVAEGFTELEEVAYIEMAELAAIEGFDEELAEELQSRASEAIERRE 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWS------E 475
             L+++ R LGV + L  +P +   + VALG+ GIKT++DLA  + D+L+          
Sbjct: 425 EALREQRRALGVDDALAELPHLTEAMLVALGKAGIKTLDDLADLATDELIAKKRAEQRRR 484

Query: 476 NKGGNIEKFD---------GFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADE 520
           N  G  E+ +         G L   G  ++Q   +I+ AR    W E E VA+E
Sbjct: 485 NDKGPRERTERSERTEDKGGVLGEFGLSEEQGNEIIMAARAH--WFEDEPVAEE 536


>gi|310817128|ref|YP_003965092.1| transcription elongation factor NusA [Ketogulonicigenium vulgare
           Y25]
 gi|308755863|gb|ADO43792.1| transcription elongation factor NusA [Ketogulonicigenium vulgare
           Y25]
          Length = 533

 Score =  558 bits (1437), Expect = e-156,   Method: Compositional matrix adjust.
 Identities = 280/516 (54%), Positives = 379/516 (73%), Gaps = 4/516 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKLIDPSLVVEAMEESLARAAKSRYGADMDIRVHIDRKTGRA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
              R+  VVE+  VENY  ++++  A+    + ++G +  + +PP+D GR+A QSAKQVI
Sbjct: 63  HFSRVRTVVEDDAVENYHAEMTVDQAKLYMSNPEVGDIFEEEIPPVDLGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QK+REAERDRQY EFK + G II+GTVKR EYGN+IVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKIREAERDRQYEEFKHRQGTIINGTVKREEYGNLIVDVGAGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ Y+ DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY G++++KAV+RDPGSRAK
Sbjct: 183 NDRIRCYVKDVRREVRGPQIFLSRTAPEFMRELFKMEVPEIYEGVIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA VTK
Sbjct: 243 IAVLSNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWNEDMPTFLVNALQPAEVTK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDED  RIEV+VP +QLSLAIGRRGQNVRLASQLT   IDI+TE E+S  RQ +F  R
Sbjct: 303 VVLDEDAERIEVVVPDDQLSLAIGRRGQNVRLASQLTNLDIDIMTESEESKRRQAEFEAR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ FM+ +++DE  A LLVAEGF ++EE+A V + E+ +IEG DE TA E+Q RAR+++E
Sbjct: 363 TKLFMETLDLDEFFAQLLVAEGFTNLEEVAYVDLDELTTIEGVDEATAGEVQARARDHIE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-GWSENK 477
             +    +  R LG  + L S PG+  ++  AL ++G+KT+ED A C+  +L  GW+  +
Sbjct: 423 SQNEKALEAARALGAEDSLISFPGLTPQMVEALAKDGVKTLEDFATCADWELAGGWTTVE 482

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           G  + K DG L       ++ ++MI+ AR  +GW++
Sbjct: 483 GKRV-KDDGVLEPFDLSLEEAQTMIMTARVSLGWVD 517


>gi|288959698|ref|YP_003450039.1| N utilization substance protein A [Azospirillum sp. B510]
 gi|288912006|dbj|BAI73495.1| N utilization substance protein A [Azospirillum sp. B510]
          Length = 510

 Score =  556 bits (1434), Expect = e-156,   Method: Compositional matrix adjust.
 Identities = 289/510 (56%), Positives = 373/510 (73%), Gaps = 16/510 (3%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +ELLQ+ADAVA EK+IDRD VL  M  +IQKA RS YG   DIR  I+ +TGDI L R L
Sbjct: 1   MELLQVADAVAREKNIDRDEVLEAMEQAIQKAGRSKYGHEHDIRARIDRKTGDIHLTRHL 60

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           EVVE VEN   Q++L  A+ R     +G  + DPLPP+DFGR+A Q+AKQVI+QKVR+AE
Sbjct: 61  EVVETVENEATQVTLPYAQRRKAGAKLGDFLVDPLPPIDFGRIAAQTAKQVIVQKVRDAE 120

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R RQ+ E+KD+ GEI++G VKRVEYGNV VDLG ++ ++RRDE + RE+ + GDRV++YI
Sbjct: 121 RKRQFNEYKDRNGEIVNGLVKRVEYGNVTVDLGRAEAILRRDELLPREHFKNGDRVRAYI 180

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           +DVR E RGPQ+ LSRTHP FM KLF  EVPEIY+GI+++KAV+RDPGSRAK+AV S DS
Sbjct: 181 FDVREEPRGPQIFLSRTHPMFMAKLFAQEVPEIYDGIIEIKAVARDPGSRAKIAVLSHDS 240

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ ++ TFV+NAL PA V KVVLD+D  
Sbjct: 241 SIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWNGEAPTFVVNALAPAEVAKVVLDDDNH 300

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
           RIEV+VP +QLSLAIGRRGQNVRLAS LTGW IDI+TE+E+S  R ++ + R+  FMQA+
Sbjct: 301 RIEVVVPDDQLSLAIGRRGQNVRLASMLTGWDIDILTEQEESERRSEEIHNRSALFMQAL 360

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           +VD++IAHLLVAEGF  VEE+A V+  E+A IEGFDE  A E++ RA  +L+  D     
Sbjct: 361 DVDDVIAHLLVAEGFTSVEEIAFVETEELAEIEGFDESVADELKQRALAFLDVQDEQANL 420

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDG 486
           +  ELGV + +  + G ++   V LGENG+KT++DLA  + D+L+               
Sbjct: 421 RRLELGVEDIVAELTGFNATQLVKLGENGVKTLDDLADLAGDELV--------------E 466

Query: 487 FLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
            L   G  +++  ++I+ AR    W E E+
Sbjct: 467 ILGKDGPSEEEANAIIMAARAH--WFEGEE 494


>gi|163796764|ref|ZP_02190722.1| Transcription elongation factor [alpha proteobacterium BAL199]
 gi|159178018|gb|EDP62565.1| Transcription elongation factor [alpha proteobacterium BAL199]
          Length = 517

 Score =  556 bits (1434), Expect = e-156,   Method: Compositional matrix adjust.
 Identities = 276/471 (58%), Positives = 363/471 (77%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + +  +LEL+Q+AD VA +K IDR+ VL  M  +IQKA RS YG   DIR  I+  TG+I
Sbjct: 3   IATQPKLELIQVADVVARDKGIDREEVLIAMEQAIQKAGRSKYGPDHDIRATIDRRTGEI 62

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           SL R   VVEE+E+   QI+L  A+  DP+++IG V+S+PLPP+DFGR+A Q+AKQVI+Q
Sbjct: 63  SLKRCTTVVEEIEDEISQITLAQAQKIDPALEIGSVISEPLPPIDFGRIAAQTAKQVIVQ 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVRE ER RQY E+KD+ GEII+G+VKRVEYGNV V++  ++ ++RRD  + RE  R GD
Sbjct: 123 KVREFERQRQYEEYKDRSGEIINGSVKRVEYGNVTVEIQRAEAILRRDRLLPRETFRQGD 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+++YI DVR E RGPQ+ LSRTHP+FM +LF  EVPE+Y+GI+++KAV+RDPGSRAK+A
Sbjct: 183 RIRAYIEDVRSEPRGPQIFLSRTHPEFMRQLFRQEVPEVYDGIIEIKAVARDPGSRAKIA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATFV+NAL PA V+KVV
Sbjct: 243 VISYDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSDDPATFVVNALAPAEVSKVV 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           L ED GRIEV+VP EQLSLAIGRRGQNVRLAS LTGW IDI+TE+E+S  R+++F  R+ 
Sbjct: 303 LHEDAGRIEVVVPDEQLSLAIGRRGQNVRLASMLTGWDIDILTEQEESDRRKEEFRVRSD 362

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F+ A+++D++IA LLVAEGF  VEE+A V + ++A IEGFD + A E+Q RA  ++E  
Sbjct: 363 TFITALDIDDVIAGLLVAEGFTSVEEIADVDLEDLAEIEGFDVDIAGELQMRALNHVEAE 422

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
            + L+    ELGV++E+ ++  +   + VALGE G+KT++D A  + D+LL
Sbjct: 423 RVRLEALRTELGVTDEVAALEALSPAMLVALGEKGVKTLDDFADLASDELL 473


>gi|114329058|ref|YP_746215.1| transcription elongation factor NusA [Granulibacter bethesdensis
           CGDNIH1]
 gi|114317232|gb|ABI63292.1| n utilization substance protein A [Granulibacter bethesdensis
           CGDNIH1]
          Length = 512

 Score =  556 bits (1434), Expect = e-156,   Method: Compositional matrix adjust.
 Identities = 285/467 (61%), Positives = 357/467 (76%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           +R ELL +ADAVA EKSIDR+ VL  M  +IQKA R+ YG   DIR  I+ +TGD+ L R
Sbjct: 11  SRPELLLVADAVAREKSIDREEVLEAMEQAIQKAGRAKYGHEKDIRATIDRKTGDVRLSR 70

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
             E VE VEN   QI + +AR   P I++GG + DPLPP+DFGR+A Q+AKQVI+Q+VRE
Sbjct: 71  WTEAVEVVENEETQIPIHIARKFKPDIELGGHLVDPLPPIDFGRIAAQTAKQVIVQRVRE 130

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
            ER RQY EFKD+VGEII+G VKR EYGN++VDLG S+ ++RRDE I+RE+ R GDRV++
Sbjct: 131 YERRRQYDEFKDRVGEIINGVVKRTEYGNLMVDLGKSEALLRRDELIARESFRNGDRVRA 190

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YIYDVR E RGPQ+ LSRTHP F+ KLF  EVPEIY+GI+++KAVSRDPGSRAK+AV S 
Sbjct: 191 YIYDVREEPRGPQIFLSRTHPNFLAKLFAQEVPEIYDGIIEIKAVSRDPGSRAKMAVISR 250

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSP +ATFV+NAL PA VTKVV+DE+
Sbjct: 251 DQSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPQAATFVVNALAPAEVTKVVMDEE 310

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
            GR+EV+VP +QLSLAIGRRGQNVRLASQLT W IDI+TE E+S  RQ++F +RT  F+ 
Sbjct: 311 AGRVEVVVPDDQLSLAIGRRGQNVRLASQLTRWDIDILTEAEESERRQEEFRKRTSLFVD 370

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
           A++VD++IA LLV EGF  VEELA   + E++ IEGFDE  A E+  RA   L      +
Sbjct: 371 ALDVDDVIAGLLVTEGFTTVEELAFSPVEELSEIEGFDENVAEELIRRAEVDLTRRANEM 430

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
             K + LGV++E+  I  +   + VALGE G+KT++DLA  + D+L+
Sbjct: 431 DDKRKALGVTDEIADIETLTPAMLVALGEKGVKTLDDLADLAGDELV 477


>gi|56694991|ref|YP_165337.1| transcription elongation factor NusA [Ruegeria pomeroyi DSS-3]
 gi|56676728|gb|AAV93394.1| transcription termination factor NusA [Ruegeria pomeroyi DSS-3]
          Length = 541

 Score =  556 bits (1432), Expect = e-156,   Method: Compositional matrix adjust.
 Identities = 281/516 (54%), Positives = 373/516 (72%), Gaps = 4/516 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVIEAMEESLARAAKSRYGAEMDIRVSIDRKTGKA 62

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VV  EE+ENY  + ++  A+    +  IG    + +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVADEELENYQAEFTVDQAKQYMENPQIGDTFVEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRAGTIINGLVKREEYGNVIVDVGAGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ YI DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRCYIKDVRREPRGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDNSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TE E+S  RQK+F  R
Sbjct: 303 VVLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEAEESARRQKEFESR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T  FM+ +++DE  A LLV+EGF ++EE+A V++ E+  I+G DE TA E+Q RAR+YLE
Sbjct: 363 TNLFMETLDLDEFFAQLLVSEGFTNLEEVAYVELDELLVIDGVDEGTAEELQARARDYLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-GWSENK 477
                     R LG  + L    G+  ++  AL ++ +KT+ED A C+  +L  GW+   
Sbjct: 423 AQAKAALDNARALGAEDSLIQFEGLTPQMVEALAKDDVKTLEDFATCADWELAGGWTTVD 482

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           G  + K DG L   G   +  + M++ AR  +GW++
Sbjct: 483 GQRV-KDDGILEPFGVSLEDAQDMVMTARVMLGWVD 517


>gi|163737947|ref|ZP_02145363.1| transcription elongation factor NusA [Phaeobacter gallaeciensis
           BS107]
 gi|163742658|ref|ZP_02150044.1| transcription elongation factor NusA [Phaeobacter gallaeciensis
           2.10]
 gi|161384243|gb|EDQ08626.1| transcription elongation factor NusA [Phaeobacter gallaeciensis
           2.10]
 gi|161388563|gb|EDQ12916.1| transcription elongation factor NusA [Phaeobacter gallaeciensis
           BS107]
          Length = 541

 Score =  556 bits (1432), Expect = e-156,   Method: Compositional matrix adjust.
 Identities = 285/530 (53%), Positives = 387/530 (73%), Gaps = 8/530 (1%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG+  DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVVDAMEESLARAAKSRYGSEMDIRVSIDRKTGRA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDR--DPSIDIGGVVSDPLPPMDFGRVAVQSAKQ 116
           +  R+  VVE+  +ENY  +++++ A+    DPS+  G V  + +PP++ GR+A QSAKQ
Sbjct: 63  TFTRVRTVVEDDALENYQAELTVEQAKQYMADPSV--GDVFVEEVPPVEMGRIAAQSAKQ 120

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENL 176
           VI+QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G  + ++RR+E I RE+ 
Sbjct: 121 VILQKVREAERDRQYEEFKDRAGTIINGLVKREEYGNVIVDVGAGEAILRRNEKIGRESY 180

Query: 177 RPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
           RP DR++ +I DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+G++++KAV+RDPGSR
Sbjct: 181 RPNDRIRCFIKDVRREPRGPQIFLSRTAPEFMAELFKMEVPEIYDGVIEIKAVARDPGSR 240

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           AK+AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V
Sbjct: 241 AKIAVISYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEV 300

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN 356
           +KVVLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLT   IDI+TEEE+S  RQK+F 
Sbjct: 301 SKVVLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTALDIDIMTEEEESARRQKEFE 360

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
            RT+ FM+ +++DE  A LLV+EGF ++EE+A V++ E+  I+G DE TA E+Q RA +Y
Sbjct: 361 ARTKLFMETLDLDEFFAQLLVSEGFTNLEEVAYVELDELLVIDGVDEGTAQELQARAADY 420

Query: 417 LEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-GWSE 475
           LE          R LGV + L    G+  ++  AL ++GIKT+ED A C+  +L  GW+ 
Sbjct: 421 LEAQAKAAIDAARALGVEDSLIDFDGLTPQMVEALAKDGIKTLEDFATCADWELAGGWTT 480

Query: 476 NKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
           NKG  + K DG L       +  +++++ AR  +GW++  ++  +   DA
Sbjct: 481 NKGERV-KDDGILEPFDVSLEDAQTLVMTARVLLGWVDPTELEADAEDDA 529


>gi|89067479|ref|ZP_01154992.1| transcription elongation factor NusA [Oceanicola granulosus
           HTCC2516]
 gi|89047048|gb|EAR53102.1| transcription elongation factor NusA [Oceanicola granulosus
           HTCC2516]
          Length = 542

 Score =  555 bits (1431), Expect = e-156,   Method: Compositional matrix adjust.
 Identities = 285/523 (54%), Positives = 379/523 (72%), Gaps = 4/523 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+  TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVVEAMEESLARAAKSRYGAEMDIRVSIDRRTGRA 62

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE  E+ENY  +++++ A+       +G    + +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEDEELENYQAELTVEQAKQYLDDPKVGDQYIEEIPPVELGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERD+QY EFKD+ G II+  VKR EYGNVIVD+G  + V+RR+E I RE+ RP
Sbjct: 123 LQKVREAERDKQYEEFKDRAGTIINALVKREEYGNVIVDVGAGEAVLRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDR++ YI DVRREQRGPQ+ LSRT P+FM +LF MEVPEIY GI+++KAV+RDPGSRAK
Sbjct: 183 GDRIRCYIKDVRREQRGPQIFLSRTAPEFMAELFKMEVPEIYEGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           + V S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IGVVSYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDMPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDED  RIEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TEEE+S  RQ +F ER
Sbjct: 303 VVLDEDAERIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEEEESKRRQAEFEER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ FM  +++DE  A LLV+EGF ++EE+A V+  E+  I+G DE TA E+Q RAR+ L+
Sbjct: 363 TKLFMDTLDLDEFFAQLLVSEGFTNLEEVAYVEQDELLVIDGVDEGTAQELQARARDVLD 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-GWSENK 477
             +    +K RELGV + L +  G+   + +AL E+G+KT+ED A C+  +L  GW+   
Sbjct: 423 EQNRVALEKARELGVEDSLVNFEGLTPAMVLALAEDGVKTLEDFATCADWELAGGWTTVN 482

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADE 520
           G  + K DG L       ++ + M++ AR  +GW++ + +  E
Sbjct: 483 GERV-KDDGVLEKFDVSLEEAQDMVMTARVLLGWVDPDDLMPE 524


>gi|259417192|ref|ZP_05741111.1| transcription elongation factor NusA [Silicibacter sp. TrichCH4B]
 gi|259346098|gb|EEW57912.1| transcription elongation factor NusA [Silicibacter sp. TrichCH4B]
          Length = 538

 Score =  554 bits (1428), Expect = e-155,   Method: Compositional matrix adjust.
 Identities = 277/516 (53%), Positives = 379/516 (73%), Gaps = 4/516 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID ++V+  M +S+ +AA+S YG+  DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPNLVVEAMEESLARAAKSRYGSEMDIRVSIDRKTGKA 62

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE  E+ENY  ++++  A+    S  +G  + D +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEDEELENYQSELTVAQAKQYMESPSVGDTIVDEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G+ +G++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRNGTIINGVVKREEYGNVIVDIGSGEGILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ +I DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRCFIKDVRREPRGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVVSYDNSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP EQLSLAIGRRGQNVRLASQLT   IDI+TEEE+S  RQK+F  R
Sbjct: 303 VVLDEEAGKIEVVVPDEQLSLAIGRRGQNVRLASQLTNLDIDIMTEEEESARRQKEFEAR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T  FM+ +++DE  A LLV+EGF ++EE+A V++ E+  I+G DE TA E+Q RAR+YLE
Sbjct: 363 TALFMETLDLDEFFAQLLVSEGFTNLEEVAYVELDELLVIDGVDEGTAEELQARARDYLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-GWSENK 477
                     R +G  + L    G+  ++  AL ++ +K++ED A C+  +L  GW+   
Sbjct: 423 AQAKAALDNARSMGAEDSLIDFEGLTPQMVEALAKDDVKSLEDFATCADWELAGGWTTVN 482

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           G  + K +G L       ++ +++++ AR  +GW++
Sbjct: 483 GERV-KDEGILEPFDMSLEEAQNLVMTARIMLGWVD 517


>gi|254510431|ref|ZP_05122498.1| transcription termination factor NusA [Rhodobacteraceae bacterium
           KLH11]
 gi|221534142|gb|EEE37130.1| transcription termination factor NusA [Rhodobacteraceae bacterium
           KLH11]
          Length = 537

 Score =  553 bits (1425), Expect = e-155,   Method: Compositional matrix adjust.
 Identities = 282/516 (54%), Positives = 379/516 (73%), Gaps = 4/516 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVVEAMEESLARAAKSRYGAEMDIRVSIDRKTGKA 62

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE  E+ENY  +++++ A+    + ++G V  + +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEDEELENYQAEMTVEQAKQYMEAPEVGQVFIEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR E+GNVIVDLG ++ V+RR++ I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRAGTIINGAVKREEFGNVIVDLGGAEAVLRRNDKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DRV++YI +VRRE RG Q+ LSRT P+FM +LF MEVPEIY+GI++VKAV+RDPGSRAK
Sbjct: 183 NDRVRAYIKEVRREVRGHQIFLSRTAPEFMAELFKMEVPEIYDGIIEVKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLT   IDI+TE E+S  RQK+F  R
Sbjct: 303 VVLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTNLDIDIMTEAEESARRQKEFEAR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           TQ FM+ +++DE  A LLV+EGF ++EE+A V++ E+  I+G DE TA E+Q RARE+LE
Sbjct: 363 TQLFMETLDLDEFFAQLLVSEGFTNLEEVAYVELDELLVIDGVDEGTAQELQTRAREFLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-GWSENK 477
                     R LGV + L    G+  ++  AL ++ +KT+ED A C+  +L  GW+   
Sbjct: 423 AQAKAALDAARALGVEDSLIEFEGLTPQMVEALAKDDVKTLEDFATCADWELAGGWTTVD 482

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           G  I K DG L   G   ++ + +++ AR  +GW++
Sbjct: 483 GERI-KDDGVLEPFGVTLEEAQDLVMTARIMLGWVD 517


>gi|126734454|ref|ZP_01750201.1| transcription termination factor NusA, putative [Roseobacter sp.
           CCS2]
 gi|126717320|gb|EBA14184.1| transcription termination factor NusA, putative [Roseobacter sp.
           CCS2]
          Length = 538

 Score =  553 bits (1424), Expect = e-155,   Method: Compositional matrix adjust.
 Identities = 280/519 (53%), Positives = 379/519 (73%), Gaps = 4/519 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
            SAN+LELLQ A+AVA EK+I+  +V+  M +S+ +AA+S YG   DIRV I+ +TG  +
Sbjct: 4   TSANQLELLQTAEAVAREKNIEPGLVVEAMEESLARAAKSRYGAEMDIRVAIDRKTGKAT 63

Query: 62  LFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
             R+  VVEE  +ENY  + ++  A++     ++G    + +PP++ GR+A QSAKQVI+
Sbjct: 64  FTRVRTVVEEEELENYQAEFTVAQAKEYMEDPEVGQQFIEEVPPVELGRIAAQSAKQVIL 123

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPG 179
           QKVREAERD+QY EFKD+ G II+  VKR EYGNVIVD+G  + V+RR+E I RE  RP 
Sbjct: 124 QKVREAERDKQYEEFKDRAGTIINALVKREEYGNVIVDVGAGEAVLRRNEKIGREAYRPN 183

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR++ +I +VRREQRGPQ+ LSRT P+FM +LF MEVPEIY GI+++KAV+RDPGSRAK+
Sbjct: 184 DRIRCFIKEVRREQRGPQIFLSRTAPEFMAELFKMEVPEIYEGIIEIKAVARDPGSRAKI 243

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+KV
Sbjct: 244 AVISYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDMPTFLVNALQPAEVSKV 303

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           VLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TEEE+S  RQ +F  RT
Sbjct: 304 VLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEEEESKRRQAEFELRT 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM  +++DE  A LLV+EGF ++EE+A V++ E+  IEG DE+TA E+Q RAR+YLE 
Sbjct: 364 KLFMDTLDLDEFFAQLLVSEGFTNLEEVAYVEVDELLVIEGVDEDTASELQARARDYLEA 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-GWSENKG 478
                 +  R LGV + L +  G+   +  ALG++G+KT+ED A C+  +L  GW+   G
Sbjct: 424 KAKEAMEAARALGVEDSLANFEGLTPAMLEALGQDGVKTLEDFATCADWELAGGWTTVDG 483

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
             + K DG L       ++ + M++ AR  +GW++ +++
Sbjct: 484 ERV-KDDGVLEPFEVSLEEAQDMVMTARVMLGWVDPDEL 521


>gi|83595108|ref|YP_428860.1| transcription elongation factor NusA [Rhodospirillum rubrum ATCC
           11170]
 gi|83578022|gb|ABC24573.1| NusA antitermination factor [Rhodospirillum rubrum ATCC 11170]
          Length = 516

 Score =  552 bits (1423), Expect = e-155,   Method: Compositional matrix adjust.
 Identities = 279/470 (59%), Positives = 371/470 (78%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           V  +R EL+Q+AD VA +KSI+R+ V + M  +IQKA RS YG   DIR  I+ +TG+I 
Sbjct: 5   VGMSRPELVQVADTVARDKSIEREEVFAAMEQAIQKAGRSKYGHEHDIRARIDRKTGEIR 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R +EVVEEVEN   QI+L  A+ +   I++G  + DPLPP+DFGR+A Q+AKQVI+QK
Sbjct: 65  LARYIEVVEEVENEFTQITLAGAKRKKADIELGEFLVDPLPPIDFGRIAAQTAKQVIVQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+RQ+ E+KD++GEII+G VKRVE+GNVIVD+G ++ ++RRDE I RE+ + GDR
Sbjct: 125 VRDAERERQFAEYKDRLGEIINGLVKRVEFGNVIVDMGRAEALLRRDEVIPREHFKNGDR 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++YI DVR+E RGPQ+ LSRTH QFM KLF  EVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 185 IRAYIMDVRQEPRGPQIFLSRTHEQFMAKLFAQEVPEIYDGIIEIKSVARDPGSRAKIAV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+D +IDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D ATFV+NAL PA V KVVL
Sbjct: 245 LSNDHAIDPVGACVGMRGSRVQAVVAELQGEKIDIIQWATDPATFVVNALAPAEVAKVVL 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  RIEV+VP EQLSLAIGRRGQNVRLAS+LTGW IDI+TE E+S  RQ +F  RTQ 
Sbjct: 305 DEEANRIEVVVPDEQLSLAIGRRGQNVRLASKLTGWDIDILTEAEESERRQDEFRIRTQA 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F++A++VD++IAHLLV EGF  VE++A V I+E++ IEGFDE+ A E+Q RA+ +L   +
Sbjct: 365 FIEALDVDDVIAHLLVTEGFTTVEDVAFVAIAELSEIEGFDEDVASELQNRAQVFLAERE 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
              +++ +ELGV +E+  I G+ + + VALGE G+KT++DL   + D+L+
Sbjct: 425 RLNEERRKELGVVDEMAEIEGLTAAMLVALGEKGVKTLDDLGDLASDELI 474


>gi|163745072|ref|ZP_02152432.1| transcription elongation factor NusA [Oceanibulbus indolifex
           HEL-45]
 gi|161381890|gb|EDQ06299.1| transcription elongation factor NusA [Oceanibulbus indolifex
           HEL-45]
          Length = 542

 Score =  552 bits (1422), Expect = e-155,   Method: Compositional matrix adjust.
 Identities = 284/527 (53%), Positives = 381/527 (72%), Gaps = 7/527 (1%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV+IN +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVVEAMEESLARAAKSRYGAEMDIRVDINRKTGKA 62

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VV  E++ENY  + ++  A+       +G    + +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVADEDLENYQAEFTVDQAKQYMAEPKVGDTYVEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQ+ EFKD+ G II+G VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQFEEFKDRAGTIINGLVKREEYGNVIVDVGAGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ YI DVRREQRGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRVYIKDVRREQRGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISHDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TEE++S  RQ +F  R
Sbjct: 303 VVLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEEQESQRRQAEFELR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ FM  +++DE  A LLV+EGF+++EE+A V++ E+  I+G DE+TA E+Q RAR+ LE
Sbjct: 363 TKLFMDNLDLDEFFAQLLVSEGFSNLEEVAYVEVDELLVIDGVDEDTAGELQARARDVLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-GWSENK 477
             +       R LGV + L    G+  ++  AL ++ +KT+ED A C+  +L  GW+   
Sbjct: 423 AQNKAALDNARALGVEDSLVEFEGLTPQMLEALAKDDVKTLEDFATCADWELAGGWTTVN 482

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI---EKEKVADEE 521
           G  + K DG L       +  ++MI+ AR  +GW+   E E  ADE+
Sbjct: 483 GERV-KDDGALEPFEVSLEDAQAMIMTARVMLGWVDPTELEGDADED 528


>gi|84514878|ref|ZP_01002241.1| transcription elongation factor NusA [Loktanella vestfoldensis
           SKA53]
 gi|84511037|gb|EAQ07491.1| transcription elongation factor NusA [Loktanella vestfoldensis
           SKA53]
          Length = 533

 Score =  552 bits (1422), Expect = e-155,   Method: Compositional matrix adjust.
 Identities = 282/519 (54%), Positives = 374/519 (72%), Gaps = 4/519 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
            SAN+LELLQ A+AVA EK+I+  +V+  M +S+ +AA+S YG   DIRV I+ +TG  +
Sbjct: 4   TSANQLELLQTAEAVAREKNIEPGLVVEAMEESLARAAKSRYGAEMDIRVNIDRKTGRAT 63

Query: 62  LFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
             R+  VV +  VENY  + ++  A+D      IG   S+ +PP++ GR+A QSAKQVI+
Sbjct: 64  FTRVRTVVADDAVENYQAEFTVAQAKDYMTDPQIGQEYSEEVPPVELGRIAAQSAKQVIL 123

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPG 179
           QKVREAERD+QY EFKD+ G II+  VKR EYGNVIVD+G+ + V+RR+E I RE  RP 
Sbjct: 124 QKVREAERDKQYEEFKDRAGTIINALVKREEYGNVIVDVGSGEAVLRRNEKIGREAYRPN 183

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR++ YI +VRREQRGPQ+ LSRT P+FM +LF MEVPEIY G++++KAV+RDPGSRAK+
Sbjct: 184 DRIRCYIKEVRREQRGPQIFLSRTAPEFMAELFKMEVPEIYEGVIEIKAVARDPGSRAKI 243

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA VTKV
Sbjct: 244 AVISYDSSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDMPTFLVNALQPAEVTKV 303

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           VLDE+ G+IEV+VP EQLSLAIGRRGQNVRLAS LTG  IDI+TEEE+S  RQ +F  RT
Sbjct: 304 VLDEEAGKIEVVVPDEQLSLAIGRRGQNVRLASMLTGLDIDILTEEEESKRRQAEFETRT 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM  +++DE  A LLVAEGF ++EE+A V+  E+  IEG DE TA E+Q RAR+YLE 
Sbjct: 364 KLFMDTLDLDEFFAQLLVAEGFTNLEEVAYVEQDELLVIEGVDEGTAGELQARARDYLEA 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-GWSENKG 478
                       GV + L    G+  ++  ALG++G+KT+ED A C+  +L  GW+   G
Sbjct: 424 QAKKAMDAAIATGVEQSLIDFEGLTPQMLEALGKDGVKTLEDFATCADWELAGGWTTVNG 483

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
             + K DG L       ++ ++M++ AR  +GW++ +++
Sbjct: 484 ERV-KDDGVLEPFDVSLEEAQTMVMTARVMLGWVDPDEL 521


>gi|99082750|ref|YP_614904.1| transcription elongation factor NusA [Ruegeria sp. TM1040]
 gi|99039030|gb|ABF65642.1| NusA antitermination factor [Ruegeria sp. TM1040]
          Length = 538

 Score =  551 bits (1420), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 277/516 (53%), Positives = 377/516 (73%), Gaps = 4/516 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG+  DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVVEAMEESLARAAKSRYGSEMDIRVSIDRKTGKA 62

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE  E+ENY  ++++  A+       +G  + D +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEDEELENYQSELTVAQAKQYMEDPKVGDTIVDEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G+ +G++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRNGTIINGVVKREEYGNVIVDIGSGEGILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ +I DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRCFIKDVRREPRGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVVSYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP EQLSLAIGRRGQNVRLASQLT   IDI+TEEE+S  RQK+F  R
Sbjct: 303 VVLDEEAGKIEVVVPDEQLSLAIGRRGQNVRLASQLTNLDIDIMTEEEESARRQKEFEAR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T  FM+ +++DE  A LLV+EGF ++EE+A V++ E+  I+G DE TA E+Q RAR+YLE
Sbjct: 363 TALFMETLDLDEFFAQLLVSEGFTNLEEVAYVELDELLVIDGVDEGTAEELQARARDYLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-GWSENK 477
                     R +GV + L    G+  ++  AL ++ +K++ED A C+  +L  GW+   
Sbjct: 423 AKAKAALDNARSMGVEDSLIDFDGLTPQMVEALAKDDVKSLEDFATCADWELAGGWTTVN 482

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           G  + K +G L       ++ +++++ AR  +GW++
Sbjct: 483 GERV-KDEGILEPFDVSLEEAQNLVMTARIMLGWVD 517


>gi|84684618|ref|ZP_01012519.1| transcription elongation factor NusA [Maritimibacter alkaliphilus
           HTCC2654]
 gi|84667597|gb|EAQ14066.1| transcription elongation factor NusA [Rhodobacterales bacterium
           HTCC2654]
          Length = 539

 Score =  551 bits (1419), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 277/515 (53%), Positives = 376/515 (73%), Gaps = 2/515 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPSLVIEAMEESLARAAKSRYGAEMDIRVSIDRKTGRA 62

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE  E+ENY  +++++ A+    +  +G  + D +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEDEELENYQAELTVEQAKQYLDNPVVGDTIVDEVPPVELGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRAGTIINGVVKREEYGNVIVDVGAGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ Y+ DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRCYVKDVRRETRGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           + V S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V K
Sbjct: 243 IGVVSYDNSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDMPTFLVNALQPAEVAK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDED  RIEV+VP +QLSLAIGRRGQNVRLASQLTG  IDI+TEEE+S  RQ +F ER
Sbjct: 303 VVLDEDAERIEVVVPDDQLSLAIGRRGQNVRLASQLTGLDIDILTEEEESARRQAEFAER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ FM  +++DE  A LLV+EGF ++EE+A V++ E+  I+G DE+TA E+Q RAR++L+
Sbjct: 363 TKLFMDTLDLDEFFAQLLVSEGFTNLEEVAYVEVDELLVIDGVDEDTANELQARARDFLD 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             +    +  + LGV + L    G+  ++  AL ++G+ T+ED A C+  +L G      
Sbjct: 423 EQNRKALENAKALGVQDSLIGFEGLTPQMIEALAKDGVFTLEDFATCADWELAGGWTTVD 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           G   K DG L       ++ ++MI+ AR ++GW++
Sbjct: 483 GERSKDDGVLEPFDVGLEEAQNMIMTARIQLGWVD 517


>gi|254486422|ref|ZP_05099627.1| transcription termination factor NusA [Roseobacter sp. GAI101]
 gi|214043291|gb|EEB83929.1| transcription termination factor NusA [Roseobacter sp. GAI101]
          Length = 537

 Score =  551 bits (1419), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 279/515 (54%), Positives = 376/515 (73%), Gaps = 2/515 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID ++V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPNLVVEAMEESLARAAKSRYGAEMDIRVSIDRKTGRA 62

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VV  +E+ENY  + +++ A+    + +IG   S+ +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVADDELENYQAEFTVEQAKQYMANPEIGQEFSEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRAGTIINGLVKREEYGNVIVDVGAGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ YI DVRREQRGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRVYIKDVRREQRGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLTG TIDI+TEE++S  RQ +F  R
Sbjct: 303 VVLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTGLTIDIMTEEQESARRQAEFELR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ FM  +++DE  A LLV+EGF ++EE+A V++ E+  I+G DE TA E+Q RAR+ LE
Sbjct: 363 TKLFMDNLDLDEFFAQLLVSEGFTNLEEVAYVEVDELLVIDGVDEATAGELQARARDVLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             +       R LGV + L    G+  ++  AL ++ +KT+ED A C+  +L G      
Sbjct: 423 AKNKAALDAARALGVDDTLIEFDGLTPQMIEALAKDDVKTLEDFATCADWELAGGWTTVD 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           G   K +G L       ++ + +I+ AR  +GW++
Sbjct: 483 GVRTKDEGTLEPFEMTLEEAQHLIMTARVLLGWVD 517


>gi|85373514|ref|YP_457576.1| transcription elongation factor NusA [Erythrobacter litoralis
           HTCC2594]
 gi|84786597|gb|ABC62779.1| N-utilization substance protein A [Erythrobacter litoralis
           HTCC2594]
          Length = 557

 Score =  550 bits (1416), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 276/470 (58%), Positives = 368/470 (78%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SAN+ ELL IA+AVA EK ID+ +V+  M ++IQK+AR+ YG  +DIR +++P+TGD+ 
Sbjct: 5   ISANKAELLAIANAVASEKMIDKAIVIEAMEEAIQKSARNRYGAENDIRAKLDPQTGDLR 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+R++EVVEEVE+Y  Q+ LK A+  +    IG  + DPLPP+D GR+  QSAKQVI QK
Sbjct: 65  LWRVVEVVEEVEDYFKQVDLKSAQKLEEGAAIGDFIVDPLPPVDLGRIDAQSAKQVIFQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+RQ+ EFKD+ GE+I+G +K VE+G+VIV+LG ++GVIRRD+ I RE  R G+R
Sbjct: 125 VRDAERERQFEEFKDRAGEVITGVIKSVEFGHVIVNLGRAEGVIRRDQQIPREAARVGER 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I  V R  RGPQ+ LSR HP FM KLF  EVPEIY+GI+++KA +RDPGSRAK+ V
Sbjct: 185 VRAIITKVERNNRGPQIFLSRAHPDFMRKLFAQEVPEIYDGIIEIKAAARDPGSRAKIGV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGM+GSRVQAVV EL+ EKIDI+ WS D ATF++NAL+PA V++VVL
Sbjct: 245 ISHDSSIDPVGACVGMKGSRVQAVVQELQGEKIDIIPWSEDQATFIVNALQPATVSRVVL 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTG  IDI+TEEE S  + K+F ER++ 
Sbjct: 305 DEDESRIEVVVPDDQLSLAIGRRGQNVRLASQLTGNQIDIMTEEEASEKQSKEFAERSKM 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + ++VDE ++ LLVAEGFA++EE+A V + E+A+IEGFDEE A E+Q RA+E LE   
Sbjct: 365 FEEELDVDETLSQLLVAEGFAELEEVAYVAMEELAAIEGFDEELAEELQSRAQEALERQA 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
              +K+ RELGV ++L  +P +  ++ V LG++GIKT++DLA  + D+L+
Sbjct: 425 EAYRKERRELGVEDDLAELPHLSEQMLVTLGKSGIKTLDDLADLATDELI 474


>gi|297717896|gb|ADI50091.1| transcription termination protein NusA [Candidatus Odyssella
           thessalonicensis L13]
          Length = 513

 Score =  549 bits (1415), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 277/517 (53%), Positives = 378/517 (73%), Gaps = 16/517 (3%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +S  R E+L +A+AVA EK I+RD VL  M  +IQKAAR+ YG   D+R +++  TGD++
Sbjct: 13  ISQPRHEILAVAEAVAREKGIERDEVLYAMEQAIQKAARAKYGFEKDVRAKVDKHTGDVN 72

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++++L VVEEVE+   QISL  A   D S ++G  + +PLPP++FGRVA QSA+QVIIQK
Sbjct: 73  IWKVLTVVEEVEDPLVQISLTDAHQIDKSYNVGDELVEPLPPIEFGRVAAQSARQVIIQK 132

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER  QY EFKD+  +IISG VKRVE+GNVIVDLG ++G++RR++ I RE  R GDR
Sbjct: 133 VRDAERAHQYAEFKDRANQIISGVVKRVEFGNVIVDLGRAEGILRREDLIQREVFRSGDR 192

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+ DVR + RGP V LSRTHPQFM +LF  EVPEIY+G++++K+V+RDPGSRAK+AV
Sbjct: 193 VRAYVSDVRPDARGPMVSLSRTHPQFMARLFESEVPEIYDGVIEIKSVARDPGSRAKIAV 252

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +++D SIDPVG+CVG+RG RVQAVVTEL+ EKIDIV WS + ATFV+NAL PA V KVVL
Sbjct: 253 YTADPSIDPVGSCVGLRGVRVQAVVTELQGEKIDIVPWSSNPATFVVNALAPAEVIKVVL 312

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  R++++V ++QLSLAIGRRGQNVRLASQLTGW IDI+TEE+++  R +++N RTQ 
Sbjct: 313 DEEAHRVDMVVAEDQLSLAIGRRGQNVRLASQLTGWNIDIMTEEQEAKLRTEEYNTRTQL 372

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM A++VDE+IA LL A+GF  VEEL+   + E+ +IEGFDE  A EIQ RA  ++E   
Sbjct: 373 FMNALDVDEVIAQLLAADGFTTVEELSFAPLEELTAIEGFDEAIAQEIQSRALSFVEQRA 432

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
               +K ++LGVSEE+  I G+ +++ + L E+ IK+++D A  S D+ L  ++     +
Sbjct: 433 KASLEKAKDLGVSEEILEIDGMTAEMLLKLAEHNIKSLDDFADLSGDEFLEIAQEDQLTL 492

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
           E              Q  +MI+ AR    W ++E  A
Sbjct: 493 E--------------QANAMIMAARAH--WFDEEPKA 513


>gi|255262084|ref|ZP_05341426.1| transcription elongation factor NusA [Thalassiobium sp. R2A62]
 gi|255104419|gb|EET47093.1| transcription elongation factor NusA [Thalassiobium sp. R2A62]
          Length = 538

 Score =  549 bits (1414), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 284/516 (55%), Positives = 375/516 (72%), Gaps = 4/516 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPSLVIEAMEESLARAAKSRYGAEMDIRVSIDRKTGKA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVEE  +ENY  + +++ A+      ++G    + +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEEEELENYQAEFTVEQAKQYMEDPEVGQAFVEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKDK G II+  VKR EYGNVIVD+G+ + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDKAGTIINALVKREEYGNVIVDVGSGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ YI DVRREQRGPQ+ LSRT P+FM KLF MEVPEIY+ I+++KAV+RDPGSRAK
Sbjct: 183 NDRIRCYIKDVRREQRGPQIFLSRTAPEFMAKLFEMEVPEIYDNIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDMPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+  RIEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TEEEDS  RQ +F  R
Sbjct: 303 VVLDEEAERIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEEEDSKRRQAEFETR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ FM  +++DE  A LLV+EGF ++EE+A V++ E+  I+G DE TA E+Q RAR++LE
Sbjct: 363 TKLFMDTLDLDEFFAQLLVSEGFTNLEEVAYVEVEELLVIDGVDEGTAGELQARARDFLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-GWSENK 477
             +    +  R LGV   L    G+  ++  AL E+G+KT+ED A C+  +L  GW+   
Sbjct: 423 AQNKKALENARALGVENSLVEFEGLTPQMVEALAEDGVKTLEDFATCADWELAGGWTTQD 482

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           G  I K DG L       ++ + M++ AR  +GW++
Sbjct: 483 GERI-KDDGVLEKFEISLEEAQDMVMTARIMLGWVD 517


>gi|83953120|ref|ZP_00961842.1| transcription elongation factor NusA [Sulfitobacter sp. NAS-14.1]
 gi|83842088|gb|EAP81256.1| transcription elongation factor NusA [Sulfitobacter sp. NAS-14.1]
          Length = 546

 Score =  548 bits (1413), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 276/515 (53%), Positives = 375/515 (72%), Gaps = 2/515 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID ++V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPNLVVEAMEESLARAAKSRYGAEMDIRVSIDRKTGRA 62

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VV  +E+ENY  + +++ A+    + ++G   S+ +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVADDELENYQAEFTVEQAKQYMANPEVGQEFSEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRAGTIINGLVKREEYGNVIVDVGAGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ YI DVRREQRGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRVYIKDVRREQRGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TEE++S  RQ +F  R
Sbjct: 303 VVLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEEQESQRRQAEFELR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ FM  +++DE  A LLV+EGF ++EE+A V++ E+  I+G DE+TA E+Q RAR+ +E
Sbjct: 363 TKLFMDNLDLDEFFAQLLVSEGFTNLEEVAYVEVDELLVIDGVDEDTASELQARARDVIE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             +       R LGV + L    G+  ++  AL ++ +KT+ED A C+  +L G      
Sbjct: 423 AQNKAALDAARALGVDDTLIEFDGLTPQMIEALAKDDVKTLEDFATCADWELAGGWTTVN 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           G   K +G L       +  + +I+ AR  +GW++
Sbjct: 483 GERTKDEGTLEPFDLSLEDAQKLIMTARVLLGWVD 517


>gi|83942070|ref|ZP_00954532.1| transcription elongation factor NusA [Sulfitobacter sp. EE-36]
 gi|83847890|gb|EAP85765.1| transcription elongation factor NusA [Sulfitobacter sp. EE-36]
          Length = 542

 Score =  548 bits (1412), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 276/515 (53%), Positives = 375/515 (72%), Gaps = 2/515 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID ++V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPNLVVEAMEESLARAAKSRYGAEMDIRVSIDRKTGRA 62

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VV  +E+ENY  + +++ A+    + ++G   S+ +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVADDELENYQAEFTVEQAKQYMANPEVGQEFSEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRAGTIINGLVKREEYGNVIVDVGAGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ YI DVRREQRGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRVYIKDVRREQRGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TEE++S  RQ +F  R
Sbjct: 303 VVLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEEQESQRRQAEFELR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ FM  +++DE  A LLV+EGF ++EE+A V++ E+  I+G DE+TA E+Q RAR+ +E
Sbjct: 363 TKLFMDNLDLDEFFAQLLVSEGFTNLEEVAYVEVDELLVIDGVDEDTASELQARARDVIE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             +       R LGV + L    G+  ++  AL ++ +KT+ED A C+  +L G      
Sbjct: 423 AQNKAALDAARALGVDDTLIEFDGLTPQMIEALAKDDVKTLEDFATCADWELAGGWTTVN 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           G   K +G L       +  + +I+ AR  +GW++
Sbjct: 483 GERTKDEGTLEPFDLSLEDAQKLIMTARVLLGWVD 517


>gi|86136807|ref|ZP_01055385.1| transcription elongation factor NusA [Roseobacter sp. MED193]
 gi|85826131|gb|EAQ46328.1| transcription elongation factor NusA [Roseobacter sp. MED193]
          Length = 541

 Score =  548 bits (1412), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 276/516 (53%), Positives = 377/516 (73%), Gaps = 4/516 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG+  DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVVDAMEESLARAAKSRYGSEMDIRVSIDRKTGKA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE+  +ENY  +++++ A+    +  +G    + +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRSVVEDEALENYQAEMTVEQAKQYMANPAVGDTFVEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +Q+VREAERDRQ+ EF+D+ G II+  VKR EYGNVIVD+G  +G++RR+E I RE+ RP
Sbjct: 123 LQRVREAERDRQFEEFQDRAGTIINALVKREEYGNVIVDVGAGEGILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ YI DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+GI+Q+KAV+RDPGSRAK
Sbjct: 183 NDRIRCYIKDVRREPRGPQIFLSRTAPEFMAELFKMEVPEIYDGIIQIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S+D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISNDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNDDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TEEE+S  RQK+F  R
Sbjct: 303 VVLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEEEESARRQKEFEAR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T  FM+ +++DE  A LLV+EGF ++EE+A V++ E+  I+G D+ TA E+Q RAR++LE
Sbjct: 363 TGLFMETLDLDEFFAQLLVSEGFTNLEEVAYVELDELTVIDGVDDGTAEELQARARDFLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-GWSENK 477
                     R LG  + L    G+   +  AL ++ I T+ED A C+  +L  GW+ + 
Sbjct: 423 AKAKAAIDAARALGAEDSLIQFDGLTPPMVEALAKDEILTLEDFATCADWELAGGWTNDN 482

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           G  I K DG L   G   ++ + +++ AR  +GW++
Sbjct: 483 GERI-KDDGILEPFGMSLEEAQELVMTARVMLGWVD 517


>gi|110677786|ref|YP_680793.1| transcription elongation factor NusA [Roseobacter denitrificans OCh
           114]
 gi|109453902|gb|ABG30107.1| transcription termination factor NusA, putative [Roseobacter
           denitrificans OCh 114]
          Length = 538

 Score =  547 bits (1409), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 276/515 (53%), Positives = 375/515 (72%), Gaps = 2/515 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVVEAMEESLARAAKSRYGAEMDIRVHIDRKTGRA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE+  +ENY  + +++ A+    + ++G  + + +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEDELLENYQAEFTVEQAKQYMENPEVGQQLIEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRAGTIINGLVKREEYGNVIVDVGAGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ YI DVRREQRGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRVYIKDVRREQRGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TEE++S  RQ +F  R
Sbjct: 303 VVLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEEQESARRQAEFELR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ F+  +++DE  A LLV+EGF  +EE+A V++ E+  I+G DE+TA E+Q RAR+ LE
Sbjct: 363 TKLFVDNLDLDEFFAQLLVSEGFTSLEEVAYVEVDELLVIDGVDEDTANELQARARDVLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             +    +  R LGV + L    G+  ++  AL ++ +KT+ED A C+  +L G      
Sbjct: 423 AQNKAALESARALGVEDSLIEFEGLTPQMIEALAKDDVKTLEDFATCADWELAGGWTTVD 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           G   K DG L       ++ + +I+ AR  +GW++
Sbjct: 483 GERSKDDGVLEPFDVTLEEAQDLIMTARVMLGWVD 517


>gi|149185835|ref|ZP_01864150.1| transcription elongation factor NusA [Erythrobacter sp. SD-21]
 gi|148830396|gb|EDL48832.1| transcription elongation factor NusA [Erythrobacter sp. SD-21]
          Length = 554

 Score =  547 bits (1409), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 287/534 (53%), Positives = 388/534 (72%), Gaps = 19/534 (3%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SAN+ ELL IA+AVA EK ID+ +V+  M ++IQK+AR+ YG  +DIR +++P+TGD+ 
Sbjct: 5   ISANKAELLAIANAVASEKMIDKSIVIEAMEEAIQKSARNRYGAENDIRAKLDPQTGDLR 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+R++EVVEEVE+Y  Q+ LK A+  +    IG  + DPLPP+D GR+  QSAKQVI QK
Sbjct: 65  LWRVVEVVEEVEDYFKQVDLKAAQKLEADARIGDFIVDPLPPVDLGRIDAQSAKQVIFQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+RQ+ EF+D+ GE+I+G +K VE+G+VIV+LG ++GVIRRD+ I RE  R G+R
Sbjct: 125 VRDAERERQFNEFQDRAGEVITGVIKSVEFGHVIVNLGRAEGVIRRDQQIPREAARVGER 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I  V R  RGPQ+ LSR HP FM KLF  EVPEIY+GI+++KA +RDPGSRAK+ V
Sbjct: 185 VRALITKVERNNRGPQIFLSRAHPDFMKKLFAQEVPEIYDGIIEIKAAARDPGSRAKIGV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGM+GSRVQAVV EL+ EKIDI+ WS D ATF++NAL+PA V++VVL
Sbjct: 245 ISHDSSIDPVGACVGMKGSRVQAVVQELQGEKIDIIPWSEDGATFIVNALQPATVSRVVL 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+ GRIEV+VP +QLSLAIGRRGQNVRLASQLTG  IDI+TEEE S  RQK+F ER++ 
Sbjct: 305 DEEDGRIEVVVPDDQLSLAIGRRGQNVRLASQLTGNQIDIMTEEEASEKRQKEFAERSKM 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + ++VDE ++ LLVAEGFA++EE+A V++ E+ASIEGFDEE A E+Q RA+E L+  +
Sbjct: 365 FEEELDVDETLSQLLVAEGFAELEEVAYVELEELASIEGFDEELAEELQSRAQEALDRQE 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG--------W 473
              ++  +ELGV + L  +P +   + V LG+ G+KT++D+A  + D+L+          
Sbjct: 425 AAHREVRQELGVDDALAELPHMTEAMLVTLGKAGLKTLDDVADLATDELIAKKREAPRRR 484

Query: 474 SENKGGNIEKFD---------GFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
           + N  G   + D         G L   G  ++Q   +I+ AR    W E E  A
Sbjct: 485 NNNPDGPPMRRDRPMREQDKGGVLGEYGLTEEQGNEIIMAARAH--WFEDEDEA 536


>gi|260431715|ref|ZP_05785686.1| transcription elongation factor NusA [Silicibacter lacuscaerulensis
           ITI-1157]
 gi|260415543|gb|EEX08802.1| transcription elongation factor NusA [Silicibacter lacuscaerulensis
           ITI-1157]
          Length = 560

 Score =  546 bits (1408), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 283/537 (52%), Positives = 383/537 (71%), Gaps = 25/537 (4%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVVEAMEESLARAAKSRYGAEMDIRVSIDRKTGRA 62

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDR-DPSID--------------------IGGVV 97
           +  R+  VV  EE+ENY  ++++  AR   +PS D                    +G V+
Sbjct: 63  TFTRVRTVVDDEELENYQAEMTVDQARAYFEPSKDGRAVWLRDGQPIEDFSTGPQVGDVL 122

Query: 98  SDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVD 157
            + +PP++ GR+A QSAKQVI+QKVREAERDRQY +FKD+VG II+G VKR E+GNVIVD
Sbjct: 123 QEEVPPVEMGRIAAQSAKQVILQKVREAERDRQYEDFKDRVGTIINGAVKREEFGNVIVD 182

Query: 158 LGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVP 217
           LG ++ V+RR++ I RE+ RP DRV++YI +VRRE RG Q+ LSRT P+FM +LF MEVP
Sbjct: 183 LGGAEAVLRRNDKIGRESYRPNDRVRAYIKEVRREPRGHQIFLSRTAPEFMAELFKMEVP 242

Query: 218 EIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIV 277
           EIY+GI+++KAV+RDPGSRAK+AV S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+
Sbjct: 243 EIYDGIIEIKAVARDPGSRAKIAVISHDNSIDPVGACVGMRGSRVQAVVNELQGEKIDII 302

Query: 278 VWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
            W+ D  TF++NAL+PA V+KVVLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLTG 
Sbjct: 303 PWNEDQPTFLVNALQPAEVSKVVLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTGL 362

Query: 338 TIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIAS 397
            IDI+TE E+S  RQK+F  RT+ FM ++++DE  A LLVAEGF ++EE+A V++ E+  
Sbjct: 363 DIDIMTEAEESARRQKEFEARTKLFMDSLDLDEFFAQLLVAEGFTNLEEVAYVELDELLV 422

Query: 398 IEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIK 457
           I+G DE TA E+Q RAR+ +E          R LG  + L    G+  ++  AL ++G+K
Sbjct: 423 IDGVDEGTAQELQARARDVIEAQAKAALDNARALGAEDSLIEFEGLTPQMVEALAKDGVK 482

Query: 458 TMEDLAGCSVDDLL-GWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           T+ED A C+  +L  GW+   G  + K DG L   G   ++ + +++ AR  +GW++
Sbjct: 483 TLEDFATCADWELAGGWTTVDGQRV-KDDGILEPFGVTLEEAQDLVMTARVMLGWVD 538


>gi|163733005|ref|ZP_02140449.1| transcription elongation factor NusA [Roseobacter litoralis Och
           149]
 gi|161393540|gb|EDQ17865.1| transcription elongation factor NusA [Roseobacter litoralis Och
           149]
          Length = 538

 Score =  546 bits (1406), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 275/515 (53%), Positives = 375/515 (72%), Gaps = 2/515 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVVEAMEESLARAAKSRYGAEMDIRVHIDRKTGKA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE+  +ENY  + +++ A+    + ++G  + + +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEDELLENYQAEFTVEQAKQYMENPEVGQQLIEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQ+ EFKD+ G II+G VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQFEEFKDRAGSIINGLVKREEYGNVIVDVGAGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ YI DVRREQRGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRVYIKDVRREQRGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDNSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TEE++S  RQ +F  R
Sbjct: 303 VVLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEEQESARRQAEFELR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           TQ F+  +++DE  A LLV+EGF  +EE+A V++ E+  I+G D +TA E+Q RAR+ LE
Sbjct: 363 TQLFVDNLDLDEFFAQLLVSEGFTSLEEVAYVEVDELLVIDGVDADTANELQARARDVLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             +    +  R LGV + L    G+  ++  AL ++ +KT+ED A C+  +L G      
Sbjct: 423 AQNKAAIESARALGVEDSLIEFEGLTPQMIEALAKDDVKTLEDFATCADWELAGGWTTVD 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           G   K DG L       ++ + +I+ AR  +GW++
Sbjct: 483 GERSKDDGVLEPFEMTLEEAQDLIMTARVMLGWVD 517


>gi|89052531|ref|YP_507982.1| transcription elongation factor NusA [Jannaschia sp. CCS1]
 gi|88862080|gb|ABD52957.1| NusA antitermination factor [Jannaschia sp. CCS1]
          Length = 590

 Score =  545 bits (1404), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 289/565 (51%), Positives = 386/565 (68%), Gaps = 53/565 (9%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID ++V+  M +S+ +AA+S YG+  DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPNLVVEAMEESLARAAKSRYGSELDIRVSIDRKTGRA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVA------------------------------RD-- 86
           +  R+  V +E  +EN   ++ L  A                              RD  
Sbjct: 63  TFTRVRTVADEDTLENDKAEMLLADADATVAAERPNVVVFNAKSHVYDEEGEVVETRDVR 122

Query: 87  ----RDPSID---------------IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
               R P+ +               IG +++D +PP++ GR+A QSAKQVI+QKVREAER
Sbjct: 123 RFVMRKPTENDKLLTEGVDQSTGPVIGDMIADEVPPVEMGRIAAQSAKQVILQKVREAER 182

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           DRQ+ EFKD+VGEII+G VKR EYGNVIVD+G+ +  +RR+E I RE  R GDR++ YI 
Sbjct: 183 DRQFAEFKDRVGEIINGVVKREEYGNVIVDVGSGEAQLRRNEKIGREAYRNGDRIRCYIK 242

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           DVRRE RG Q+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK+AV S D+ 
Sbjct: 243 DVRRENRGHQIFLSRTAPEFMRELFKMEVPEIYDGIIEIKAVARDPGSRAKIAVISYDNG 302

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D+ TF++NAL+PA V+KVVLDED G+
Sbjct: 303 IDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDAPTFLVNALQPAEVSKVVLDEDAGK 362

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           IEV+VP EQLSLAIGRRGQNVRLASQLT   IDI+TEEE+S  RQ +F ERT+ FM  ++
Sbjct: 363 IEVVVPDEQLSLAIGRRGQNVRLASQLTNLDIDILTEEEESKRRQAEFEERTKLFMDTLD 422

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           +DE  A LLV+EGF  +EE+A V+  E+  I+G DE TA E+Q RAR+YLE  +    +K
Sbjct: 423 LDEFFAQLLVSEGFTALEEVAYVEADELLVIDGVDEGTAEELQARARDYLEAQNKLALEK 482

Query: 428 IRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGF 487
            +E+GV E L +  G+  ++ VALGE+G+KT+ED A C+  +L G    +GG   K DG 
Sbjct: 483 AKEMGVEESLIAFEGLTPQMLVALGEDGVKTLEDFATCADWELAGGWTTEGGERIKDDGL 542

Query: 488 LSSLGTPKDQVESMIIHARYKMGWI 512
           L       ++ ++M++ AR ++GW+
Sbjct: 543 LEPFEVSLEEAQNMVMTARLQLGWV 567


>gi|254438705|ref|ZP_05052199.1| NusA N-terminal domain family [Octadecabacter antarcticus 307]
 gi|198254151|gb|EDY78465.1| NusA N-terminal domain family [Octadecabacter antarcticus 307]
          Length = 537

 Score =  545 bits (1403), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 279/527 (52%), Positives = 378/527 (71%), Gaps = 6/527 (1%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG+  DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKQIDPILVVEAMEESLARAAKSRYGSEMDIRVHIDRKTGKA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VV E  +ENY  + +++ AR+     ++G    + +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVAEAELENYQAEFTVEQAREYMEDPEVGQEFIEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERD+QY +FKD+ G II+  VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDKQYEDFKDRAGTIINAQVKREEYGNVIVDVGTGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ +I +VRREQRGPQ+ LSRT PQFM +LF MEVPEIY GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRCFIKEVRREQRGPQIFLSRTDPQFMAELFKMEVPEIYEGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDNSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDMPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VV DED  RIEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TEEE+S  RQ +F  R
Sbjct: 303 VVFDEDAERIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDILTEEEESKRRQAEFELR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T  F++++++DE  A LLV+EGF  +EE+A V + E+  I+G D +TA E+Q RAR+ +E
Sbjct: 363 TGLFIESLDLDEFFAQLLVSEGFTTLEEVAYVDVDELLVIDGVDADTASELQARARDVIE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             +    +  RELGV + L    G+  ++  AL  +G+KT+ED A C+  +L G      
Sbjct: 423 AKNNKAMENARELGVEDSLVEFEGLTPQMIEALANDGVKTLEDFATCADWELAGGWTVTD 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
           G   K DG L       ++ ++MI+ AR  +GW++     D+ V+DA
Sbjct: 483 GERTKDDGSLEPFEVSLEEAQTMIMTARVMLGWVD----PDDLVKDA 525


>gi|241761099|ref|ZP_04759188.1| NusA antitermination factor [Zymomonas mobilis subsp. mobilis ATCC
           10988]
 gi|241374718|gb|EER64179.1| NusA antitermination factor [Zymomonas mobilis subsp. mobilis ATCC
           10988]
          Length = 538

 Score =  545 bits (1403), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 282/518 (54%), Positives = 385/518 (74%), Gaps = 9/518 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SAN+ ELL IADAVA EK IDR +V+  M ++IQ+AAR+ YG  +DIR +I+P+TGD+ 
Sbjct: 5   ISANKAELLAIADAVAREKLIDRAIVIEAMEEAIQRAARARYGAENDIRAKIDPKTGDMR 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+R++EVV++V+++  Q+S+  A+       +G  + DPLPP++FGR+A Q+AKQVI QK
Sbjct: 65  LWRVVEVVDQVDDFFKQVSVVDAQKLQNGASVGDFIVDPLPPIEFGRIAAQAAKQVIFQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+RQY EFKD++GEII+G VKR+E+G+V+VDLG ++G +RRD+ I RE  R GDR
Sbjct: 125 VRDAERERQYAEFKDRIGEIITGIVKRIEFGHVVVDLGRAEGALRRDQQIPRETFRVGDR 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+S I +VRRE RGPQ+LLSR+HP FM KLF  EVPEIY+GI+++KA SRDPGSRAK+AV
Sbjct: 185 VRSLIMNVRRENRGPQILLSRSHPNFMKKLFAQEVPEIYDGIIEIKACSRDPGSRAKIAV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D++IDPVGACVGM+GSRVQAVV E++ EKIDI+ WS D ATFV+N+L+PA V++VV+
Sbjct: 245 VSQDNTIDPVGACVGMKGSRVQAVVQEVQGEKIDIIPWSEDLATFVVNSLQPAQVSRVVI 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIE +VP +QLSLAIGRRGQNVRLASQLTG  IDI+TE + S  RQK+F   ++ 
Sbjct: 305 DEDDSRIEAVVPDDQLSLAIGRRGQNVRLASQLTGSAIDILTEADASERRQKEFVAHSEL 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F   ++VDE +A LLVAEGF  +EE+A V  +EI++IEG DEE A E+Q RARE LE  +
Sbjct: 365 FQHDLDVDETLAQLLVAEGFGSLEEVAYVDQAEISAIEGIDEELASELQNRAREALEQRE 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWS------E 475
              +++ R+LGV + L  +P +   + + LG+ GIKT++DL   S D+L+          
Sbjct: 425 AEAREERRKLGVEDALADLPYMTEAMLLTLGKAGIKTLDDLGDLSTDELVHKKRQDQRRR 484

Query: 476 NKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           +   N E+ DG L+  G  ++Q   +I+ AR    W +
Sbjct: 485 HSSDNNEE-DGILAEYGLSQEQGNEIIMAARAH--WFD 519


>gi|260752935|ref|YP_003225828.1| transcription elongation factor NusA [Zymomonas mobilis subsp.
           mobilis NCIMB 11163]
 gi|283856277|ref|YP_162291.2| transcription elongation factor NusA [Zymomonas mobilis subsp.
           mobilis ZM4]
 gi|258552298|gb|ACV75244.1| NusA antitermination factor [Zymomonas mobilis subsp. mobilis NCIMB
           11163]
 gi|283775273|gb|AAV89180.2| NusA antitermination factor [Zymomonas mobilis subsp. mobilis ZM4]
          Length = 538

 Score =  544 bits (1402), Expect = e-152,   Method: Compositional matrix adjust.
 Identities = 282/518 (54%), Positives = 385/518 (74%), Gaps = 9/518 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SAN+ ELL IADAVA EK IDR +V+  M ++IQ+AAR+ YG  +DIR +I+P+TGD+ 
Sbjct: 5   ISANKAELLAIADAVAREKLIDRAIVIEAMEEAIQRAARARYGAENDIRAKIDPKTGDMR 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+R++EVV++V+++  Q+S+  A+       +G  + DPLPP++FGR+A Q+AKQVI QK
Sbjct: 65  LWRVVEVVDQVDDFFKQVSVVDAQKLQNGAAVGDFIVDPLPPIEFGRIAAQAAKQVIFQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+RQY EFKD++GEII+G VKR+E+G+V+VDLG ++G +RRD+ I RE  R GDR
Sbjct: 125 VRDAERERQYAEFKDRIGEIITGIVKRIEFGHVVVDLGRAEGALRRDQQIPRETFRVGDR 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+S I +VRRE RGPQ+LLSR+HP FM KLF  EVPEIY+GI+++KA SRDPGSRAK+AV
Sbjct: 185 VRSLIMNVRRENRGPQILLSRSHPNFMKKLFAQEVPEIYDGIIEIKACSRDPGSRAKIAV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D++IDPVGACVGM+GSRVQAVV E++ EKIDI+ WS D ATFV+N+L+PA V++VV+
Sbjct: 245 VSQDNTIDPVGACVGMKGSRVQAVVQEVQGEKIDIIPWSEDLATFVVNSLQPAQVSRVVI 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIE +VP +QLSLAIGRRGQNVRLASQLTG  IDI+TE + S  RQK+F   ++ 
Sbjct: 305 DEDDSRIEAVVPDDQLSLAIGRRGQNVRLASQLTGSAIDILTEADASERRQKEFVAHSEL 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F   ++VDE +A LLVAEGF  +EE+A V  +EI++IEG DEE A E+Q RARE LE  +
Sbjct: 365 FQHDLDVDETLAQLLVAEGFGSLEEVAYVDQAEISAIEGIDEELASELQNRAREALEQRE 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWS------E 475
              +++ R+LGV + L  +P +   + + LG+ GIKT++DL   S D+L+          
Sbjct: 425 AEAREERRKLGVEDALADLPYMTEAMLLTLGKAGIKTLDDLGDLSTDELVHKKRQDQRRR 484

Query: 476 NKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           +   N E+ DG L+  G  ++Q   +I+ AR    W +
Sbjct: 485 HSSDNNEE-DGILAEYGLSQEQGNEIIMAARAH--WFD 519


>gi|332188268|ref|ZP_08389995.1| transcription termination factor NusA [Sphingomonas sp. S17]
 gi|332011664|gb|EGI53742.1| transcription termination factor NusA [Sphingomonas sp. S17]
          Length = 538

 Score =  543 bits (1399), Expect = e-152,   Method: Compositional matrix adjust.
 Identities = 284/525 (54%), Positives = 384/525 (73%), Gaps = 7/525 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SAN+ EL+ IA+AVA EK ID+ +V+  M D+IQ+AAR+ YG  +DIR +++P +GD+ 
Sbjct: 5   ISANKAELIAIANAVASEKMIDKGIVIEAMEDAIQRAARARYGAENDIRAKLDPNSGDLR 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+R++EVVE+V++Y  QI LK A        IG  + DPLPP++FGR+A Q+AKQVI QK
Sbjct: 65  LWRVVEVVEQVDDYYKQIDLKGAEKLQKGAAIGDFIVDPLPPIEFGRIAAQAAKQVIFQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AERDRQY EFKD+ GEII+G VKRVE+G+++VDLG ++GVIRRD+ I RE +R  DR
Sbjct: 125 VRDAERDRQYDEFKDRQGEIITGVVKRVEFGHIVVDLGRAEGVIRRDQQIPREVVRVNDR 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++S I +VRRE RGPQ+ LSR HP FM KLF  EVPEIY+GI+++KA +RDPGSRAK+ V
Sbjct: 185 IRSLILNVRRENRGPQIFLSRAHPDFMKKLFAQEVPEIYDGIIEIKAAARDPGSRAKIGV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGM+GSRVQAVV E++ EKIDI+ WSPD+ATFV+NAL+PA V++VV+
Sbjct: 245 ISHDSSIDPVGACVGMKGSRVQAVVQEMQGEKIDIIPWSPDTATFVVNALQPANVSRVVI 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  RIEV+VP +QLSLAIGRRGQNVRLASQLT   IDI+TE + S  RQK+F   ++ 
Sbjct: 305 DEEEDRIEVVVPDDQLSLAIGRRGQNVRLASQLTAKAIDILTEADASEKRQKEFVANSEM 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F   ++VDE +A LLVAEGF  +EE+A V++ E+A+IEGFDE+ A E+Q RA+E L+  +
Sbjct: 365 FQNELDVDETLAQLLVAEGFGALEEVAYVELDELAAIEGFDEDLAQELQSRAQEALDRRE 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL----GWSENK 477
              + + R LGV + L  +P +   + V LG+ GIKT++DLA  + D+L+         +
Sbjct: 425 QAARDERRALGVEDALAEMPYLTEAMLVTLGKAGIKTLDDLADLATDELVEKKRSEPRRR 484

Query: 478 GGNIEKF---DGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVAD 519
           G +  +     G L+  G   +Q   +I+ AR      E E VA+
Sbjct: 485 GDDAPRAAPKGGILAEYGLSDEQGNEIIMAARAHWFTDEDEPVAE 529


>gi|83950734|ref|ZP_00959467.1| transcription elongation factor NusA [Roseovarius nubinhibens ISM]
 gi|83838633|gb|EAP77929.1| transcription elongation factor NusA [Roseovarius nubinhibens ISM]
          Length = 544

 Score =  543 bits (1398), Expect = e-152,   Method: Compositional matrix adjust.
 Identities = 283/516 (54%), Positives = 378/516 (73%), Gaps = 4/516 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVVEAMEESLARAAKSRYGAEMDIRVSIDRKTGRA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVEE  +ENY  +++++ A+       +G    + +PP+D GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEEEELENYQAELTVEQAKQYLDDPKVGDQYIEEVPPVDMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRAGTIINGMVKREEYGNVIVDVGRGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            +R++ YI DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NERIRCYIKDVRREARGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+  RIEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TE EDS  RQ++F ER
Sbjct: 303 VVLDEEAERIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEAEDSERRQREFEER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ FM  +++DE  A LLV+EGF ++EE+A V+  E+  I+G DE+TA E+Q RAR+ LE
Sbjct: 363 TKLFMDTLDLDEFFAQLLVSEGFTNLEEVAYVEQDELLVIDGVDEDTAGELQARARDVLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-GWSENK 477
                  ++ RELGV + L    G+  ++  AL E+G+KT+ED A C+  +L  GW+   
Sbjct: 423 ARAKAALERARELGVEDSLVEFEGLTPQMIQALAEDGVKTLEDFATCADWELAGGWTMQD 482

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           G  + K DG L       ++ ++M++ AR  +GW++
Sbjct: 483 GQRV-KDDGILEPFDVSLEEAQAMVMTARVMLGWVD 517


>gi|254700792|ref|ZP_05162620.1| transcription elongation factor NusA [Brucella suis bv. 5 str. 513]
 gi|261751301|ref|ZP_05995010.1| transcription elongation protein nusA [Brucella suis bv. 5 str.
           513]
 gi|261741054|gb|EEY28980.1| transcription elongation protein nusA [Brucella suis bv. 5 str.
           513]
          Length = 356

 Score =  541 bits (1393), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 259/354 (73%), Positives = 309/354 (87%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR++VL+ MAD+IQKAARS YG  S+IR +IN ++G+I 
Sbjct: 3   VSANRLELLQIADAVAREKSIDREIVLAAMADAIQKAARSRYGQESNIRADINAKSGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE VE+Y  QISL +ARDR+P   +G  ++D LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVENVEDYATQISLFMARDRNPDAQVGDFIADQLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD+VGEI++GTVKRVEYGNVIVDLG  + ++RRDE I RE  R GDR
Sbjct: 123 VREAERDRQYDEYKDRVGEIVNGTVKRVEYGNVIVDLGRGEAIVRRDELIPREAFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++Y+YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAYVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+A+F++NAL+PA V KVVL
Sbjct: 243 VSRDASIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAASFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF 355
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F
Sbjct: 303 DEDAERIEVVVPNDQLSLAIGRRGQNVRLASQLTGWDIDILTEDEESERRQKEF 356


>gi|296285012|ref|ZP_06863010.1| transcription elongation factor NusA [Citromicrobium bathyomarinum
           JL354]
          Length = 557

 Score =  540 bits (1392), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 285/535 (53%), Positives = 383/535 (71%), Gaps = 20/535 (3%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANR ELL IA++VA EK ID+ +V+  M ++IQK+AR+ YG  +DIR +++P+TGD+ 
Sbjct: 5   ISANRAELLAIANSVASEKMIDKSIVIEAMEEAIQKSARNRYGAENDIRAKLDPQTGDLR 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+R++EVVEEVE+Y  Q+ LK A+       +G  + DPLPP+D GR+  QSAKQVI QK
Sbjct: 65  LWRVVEVVEEVEDYFKQVDLKQAQKLQDGAAVGDFIVDPLPPVDLGRIDAQSAKQVIFQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+RQY EFKD+ GEII+G +K VE+G+VIV+LG ++GVIRRD+ I RE  R G+R
Sbjct: 125 VRDAERERQYDEFKDRAGEIITGVIKSVEFGHVIVNLGRAEGVIRRDQQIPREAARVGER 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I  V R  RGPQ+ L+R HP FM KLF  EVPEIY+GI+++KA +RDPGSRAK+ V
Sbjct: 185 VRALISKVERNNRGPQIFLTRAHPDFMKKLFAQEVPEIYDGIIEIKAAARDPGSRAKIGV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGM+GSRVQAVV EL+ EKIDI+ WS + ATF++NAL+PA V++VVL
Sbjct: 245 ISHDSSIDPVGACVGMKGSRVQAVVQELQGEKIDIIPWSEEEATFIVNALQPATVSRVVL 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTG  IDI+TEEE S  + K+F  R++ 
Sbjct: 305 DEDESRIEVVVPDDQLSLAIGRRGQNVRLASQLTGNQIDIMTEEEASEKQSKEFAARSKM 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + ++VDE ++ LLVAEGFA++EE+A V++ E+A IEGFDEE A E+Q RA E LE  +
Sbjct: 365 FEEELDVDETLSQLLVAEGFAELEEVAYVQLDELAMIEGFDEELAEELQSRATEALERQE 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGW-------- 473
              ++  RELGV + L  +P +   + V LG+ G+KT++D+A  + D+L+          
Sbjct: 425 AAHREARRELGVEDALADLPHLSEAMLVTLGKAGLKTLDDVADLATDELIAKKREAPRRR 484

Query: 474 -SENKGGNIEKFD---------GFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
            + N  G   + D         G L   G  ++Q   +I+ AR    W E E+ A
Sbjct: 485 NNANADGPPMRRDRPQREQDKGGVLGEYGLTEEQGNEIIMAARAH--WFEDEEPA 537


>gi|296533459|ref|ZP_06896041.1| transcription elongation factor NusA [Roseomonas cervicalis ATCC
           49957]
 gi|296266214|gb|EFH12257.1| transcription elongation factor NusA [Roseomonas cervicalis ATCC
           49957]
          Length = 525

 Score =  539 bits (1389), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 270/459 (58%), Positives = 347/459 (75%), Gaps = 2/459 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           V+  R ELLQ+A+AVA EK I+RD VL  M  +IQKA R+ YG   DIR  I+  TG++ 
Sbjct: 5   VAIARPELLQVAEAVAREKMIERDEVLEAMEQAIQKAGRAKYGHEKDIRAVIDRRTGEVK 64

Query: 62  LFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           L R  EVVE+  VEN   QI  ++A+   P I +G  + DPLPP+DFGR+A Q+AKQVI+
Sbjct: 65  LSRWTEVVEQEPVENEATQIPHRIAQKIKPGIAVGEFIVDPLPPIDFGRIAAQTAKQVIV 124

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPG 179
           Q+VRE ER +Q+ E+KD+VGEII+G VKR EYGN++VDLG ++ ++RRDETI RE  R G
Sbjct: 125 QRVREVERSKQFNEYKDRVGEIINGVVKRTEYGNLMVDLGRAEALLRRDETIPREAFRNG 184

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DRV++YIYDVR E RGPQ+ LSRTHP F+ KLF  EVPEIY+GI+++KAV+RDPGSRAK+
Sbjct: 185 DRVRAYIYDVREEPRGPQIFLSRTHPGFLAKLFAQEVPEIYDGIIEIKAVARDPGSRAKM 244

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D+ TFV+NAL PA V+KV
Sbjct: 245 AVISRDSSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSADNPTFVVNALAPAEVSKV 304

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           V+D+D  R+EV+VP +QLSLAIGRRGQNVRLASQLT W IDI+TE E+S  RQ++F +RT
Sbjct: 305 VMDDDSKRVEVVVPDDQLSLAIGRRGQNVRLASQLTRWDIDILTEAEESERRQEEFRKRT 364

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             F++A++VD++IA LLV EGF  +EEL  V   ++A IEGFDE  A E++ R++ +L+ 
Sbjct: 365 GLFVEALDVDDVIAGLLVTEGFGSIEELMEVPDEDLAEIEGFDENVAAELKRRSQAFLDR 424

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKT 458
            D  L +K + LGV + +    G    + V LGE G+KT
Sbjct: 425 RDQELDEKRQALGVEDAVAEAGGFTPAMLVTLGEKGVKT 463


>gi|326388032|ref|ZP_08209636.1| transcription elongation factor NusA [Novosphingobium
           nitrogenifigens DSM 19370]
 gi|326207533|gb|EGD58346.1| transcription elongation factor NusA [Novosphingobium
           nitrogenifigens DSM 19370]
          Length = 551

 Score =  539 bits (1388), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 283/525 (53%), Positives = 377/525 (71%), Gaps = 27/525 (5%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANR ELL IA+AVA EK ID+ +V+  M ++IQK+AR+ YG  +DIR +++P +GD+ 
Sbjct: 5   ISANRAELLAIANAVASEKMIDKSIVIEAMEEAIQKSARNRYGAENDIRAKLDPRSGDLR 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+R++EVVE VE+Y  Q+ LK A    P   IG  + DPLPP+D GR+  QSAKQVI QK
Sbjct: 65  LWRVVEVVEHVEDYFKQVDLKQAEKLQPGAKIGDFIVDPLPPVDLGRIDAQSAKQVIFQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+RQY EFKD+ GEII+G +K VE+G+VIV+LG ++GVIRRD+ I RE  R G+R
Sbjct: 125 VRDAERERQYDEFKDRAGEIITGVIKSVEFGHVIVNLGRAEGVIRRDQQIPREVPRVGER 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I  V R  RGPQ+ LSR HP FM +LF  EVPEIY+GI+++KA +RDPGSRAK+ V
Sbjct: 185 VRALILRVERTNRGPQIFLSRAHPDFMKRLFAQEVPEIYDGIIEIKAAARDPGSRAKIGV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGM+GSRVQAVV EL+ EKIDI+ WS D+ATFV+NAL+PA V++VV+
Sbjct: 245 ISRDSSIDPVGACVGMKGSRVQAVVQELQGEKIDIIPWSEDTATFVVNALQPATVSRVVI 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  RIEV+VP +QLSLAIGRRGQNVRLAS LTG  IDI+TE E S  RQK+F ER++ 
Sbjct: 305 DEEESRIEVVVPDDQLSLAIGRRGQNVRLASSLTGSAIDIMTEAEASEKRQKEFTERSKT 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + ++VDE ++ LLVAEGF+++EE+  + I+E+A+IEGFDEE A E+Q RA E LE  +
Sbjct: 365 FEEELDVDETLSQLLVAEGFSELEEVGYIDIAELATIEGFDEELATELQNRALEALERRE 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGW-------- 473
              +++ R LGV + L  +P +   + V LG+ GIKT++DLA  + D+L+          
Sbjct: 425 EGQRQERRALGVEDALADLPHLTEAMLVTLGKAGIKTLDDLADLATDELIARKRGGEQRR 484

Query: 474 ------------SENKGGNIEKFDGFLSSLGTPKDQVESMIIHAR 506
                       SE+KG       G L   G  ++Q   +I+ AR
Sbjct: 485 RGGNDRRDRSERSEDKG-------GVLGEYGLNEEQGNEIIMAAR 522


>gi|103486103|ref|YP_615664.1| transcription elongation factor NusA [Sphingopyxis alaskensis
           RB2256]
 gi|98976180|gb|ABF52331.1| NusA antitermination factor [Sphingopyxis alaskensis RB2256]
          Length = 548

 Score =  538 bits (1386), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 285/522 (54%), Positives = 382/522 (73%), Gaps = 9/522 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SAN+ ELL IA++VA EK ID+ +V+  + ++IQ+AAR+ YG  +DIR +++P+TGD+ 
Sbjct: 5   ISANKAELLAIANSVASEKMIDKAIVIEAIEEAIQRAARARYGAENDIRAKLDPQTGDLR 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+R++EVVE VE+Y  Q+ L   +       IG  + DPLP +D GR+  QSAKQVI QK
Sbjct: 65  LWRVVEVVETVEDYFKQVDLAAGQKLQKDARIGDFIVDPLPAVDLGRIDAQSAKQVIFQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREA+R+RQY EFKD+ GEII+G VK VE+G+++V+LG ++GVIRRD+ I RE +R GDR
Sbjct: 125 VREADRERQYQEFKDRAGEIITGVVKSVEFGHIVVNLGRAEGVIRRDQQIPRELMRVGDR 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I  VR E RGPQ+ LSR HP FM KLF  EVPEIY+GI+++KA +RDPGSRAK+ V
Sbjct: 185 VRALILSVRSETRGPQIFLSRAHPDFMKKLFAQEVPEIYDGIIEIKAAARDPGSRAKIGV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGM+GSRVQAVV EL+ EKIDI+ WS D+ATFV+NAL+PA V +VV+
Sbjct: 245 ISYDSSIDPVGACVGMKGSRVQAVVQELQGEKIDIIPWSEDTATFVVNALQPATVQRVVI 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED GRIEV+VP +QLSLAIGRRGQNVRLASQLTG  IDI+TE + S  RQ++F ER+  
Sbjct: 305 DEDDGRIEVVVPDDQLSLAIGRRGQNVRLASQLTGKQIDIMTEADASEKRQREFVERSTM 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + ++VDE +A LLVAEGF+++EE+A V + E+ASIEGFDEE A E+Q RA E LE  +
Sbjct: 365 FQEELDVDETLAQLLVAEGFSELEEVAYVPLDELASIEGFDEELAQELQSRAAEGLERRE 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG--WSENKGG 479
              + + RELGV + L  IP +   + V LG+ GI+T++DLA  + D+L+    ++N+ G
Sbjct: 425 EAARAERRELGVEDALADIPHLTEAMLVTLGKAGIRTLDDLADLATDELIAKKRTDNRRG 484

Query: 480 -----NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                  E   G L   G  ++Q   +I+ AR    W + E+
Sbjct: 485 PARSERAEDKGGVLGEYGLSEEQGNEIIMAARAH--WFDDEE 524


>gi|144897846|emb|CAM74710.1| transcription elongation protein [Magnetospirillum gryphiswaldense
           MSR-1]
          Length = 503

 Score =  538 bits (1385), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 275/467 (58%), Positives = 353/467 (75%), Gaps = 1/467 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
           R ELLQ+ADAVA +K IDRD VL  M  +IQKA RS YG   DIR  I+ +TG+I L R 
Sbjct: 9   RPELLQVADAVARDKGIDRDEVLEAMEQAIQKAGRSKYGHEHDIRAHIDRKTGEIQLARY 68

Query: 66  LEVVEEVENY-TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           +EVVEE       Q+ L  A  ++P    G  + DPLPP+DFGR+A Q+AKQVI+QKVR+
Sbjct: 69  IEVVEEEVENEATQLPLARALKKNPGAKAGDFLVDPLPPIDFGRIAAQTAKQVIVQKVRD 128

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER RQ+ E+KD+VGEI +G VKRVE+GNVIVDLG ++ ++RRDE I RE  R GDRV++
Sbjct: 129 AERQRQFNEYKDRVGEISNGLVKRVEFGNVIVDLGRAEALLRRDELIPRETFRTGDRVRA 188

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI DVR+E RGPQ+ LSRT P FM KLF  EVPEIY+GI+++KAV+RDPGSRAK+AV S 
Sbjct: 189 YIADVRQEPRGPQIFLSRTSPIFMSKLFAQEVPEIYDGIIEIKAVARDPGSRAKIAVISH 248

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS + ATFV+NAL PA V+KVVLD++
Sbjct: 249 DSSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSGEYATFVVNALAPAEVSKVVLDDE 308

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +EV+VP +QLSLAIGRRGQNVRLASQLTGW+IDI+TE E+S  R ++F  R++ F+ 
Sbjct: 309 THTMEVVVPDDQLSLAIGRRGQNVRLASQLTGWSIDIMTEAEESERRNEEFRSRSKLFID 368

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
           A++VD++IAHLLV EGF  VEE+A V + +++ IEGFDE+ A E+Q RAR +L   D   
Sbjct: 369 ALDVDDVIAHLLVTEGFTTVEEVAYVPLEDLSGIEGFDEDVAAELQQRARTFLAEQDERY 428

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
               ++LGVS+E+ ++ G+   + V LG   IKT++DL   + D+L+
Sbjct: 429 DAMRKDLGVSDEMAALEGLSPAMLVKLGHREIKTLDDLGDLASDELI 475


>gi|85710531|ref|ZP_01041595.1| transcription elongation factor NusA [Erythrobacter sp. NAP1]
 gi|85687709|gb|EAQ27714.1| transcription elongation factor NusA [Erythrobacter sp. NAP1]
          Length = 547

 Score =  537 bits (1383), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 272/471 (57%), Positives = 364/471 (77%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SAN+ ELL IA++VA EK ID+ +V+  M ++IQK+AR+ YG  +DIR +++P TGD++
Sbjct: 5   ISANKAELLAIANSVASEKMIDKTIVIEAMEEAIQKSARNRYGAENDIRAKLDPNTGDLT 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+R++EVVEEVE+Y  Q+ LK A+       +G  + DPLPP+D GR+  QSAKQVI QK
Sbjct: 65  LWRVVEVVEEVEDYFKQVDLKQAQKLQDGASVGDFIVDPLPPVDLGRIDAQSAKQVIFQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+RQ+ EFKD+ GEII+G +K VE+G+VIV+LG ++GVIRRD+ I RE  R G+R
Sbjct: 125 VRDAERERQFEEFKDRAGEIITGVIKSVEFGHVIVNLGRAEGVIRRDQQIPREAARVGER 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I  V R  RGPQ+ LSR  P FM KLF  EVPEIY+GI+++KA +RDPGSRAK+ V
Sbjct: 185 VRALITKVERNNRGPQIFLSRAAPDFMRKLFAQEVPEIYDGIIEIKAAARDPGSRAKIGV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGM+GSRVQAVV EL+ EKIDI+ WS D+ATFV+NAL+PA V +VVL
Sbjct: 245 ISHDSSIDPVGACVGMKGSRVQAVVQELQGEKIDIIPWSEDTATFVVNALQPATVARVVL 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+ GRIEV+VP +QLSLAIGRRGQNVRLASQLTG  IDI+TEEE S  R K+F ER++ 
Sbjct: 305 DEEDGRIEVVVPDDQLSLAIGRRGQNVRLASQLTGHQIDIMTEEEASEKRSKEFAERSKM 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + ++VDE ++ LLVAEGFA +EE+A V+++E+A+IEGFDEE A E+Q RA E LE  +
Sbjct: 365 FEEELDVDETLSQLLVAEGFAMLEEVAYVEMAELAAIEGFDEELAEELQSRAIEALERQE 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG 472
              +   RELGV + +  +P ++  + V LG+ G+KT++D+A  + D+L+ 
Sbjct: 425 EAHRTARRELGVEDAIAELPHLNEAMLVTLGKAGLKTLDDVADLATDELIA 475


>gi|258543556|ref|YP_003188989.1| transcription elongation factor NusA [Acetobacter pasteurianus IFO
           3283-01]
 gi|329113267|ref|ZP_08242050.1| Transcription elongation protein NusA [Acetobacter pomorum DM001]
 gi|256634634|dbj|BAI00610.1| transcription termination/elongation factor NusA [Acetobacter
           pasteurianus IFO 3283-01]
 gi|256637690|dbj|BAI03659.1| transcription termination/elongation factor NusA [Acetobacter
           pasteurianus IFO 3283-03]
 gi|256640744|dbj|BAI06706.1| transcription termination/elongation factor NusA [Acetobacter
           pasteurianus IFO 3283-07]
 gi|256643799|dbj|BAI09754.1| transcription termination/elongation factor NusA [Acetobacter
           pasteurianus IFO 3283-22]
 gi|256646854|dbj|BAI12802.1| transcription termination/elongation factor NusA [Acetobacter
           pasteurianus IFO 3283-26]
 gi|256649907|dbj|BAI15848.1| transcription termination/elongation factor NusA [Acetobacter
           pasteurianus IFO 3283-32]
 gi|256652897|dbj|BAI18831.1| transcription termination/elongation factor NusA [Acetobacter
           pasteurianus IFO 3283-01-42C]
 gi|256655951|dbj|BAI21878.1| transcription termination/elongation factor NusA [Acetobacter
           pasteurianus IFO 3283-12]
 gi|326697408|gb|EGE49066.1| Transcription elongation protein NusA [Acetobacter pomorum DM001]
          Length = 514

 Score =  536 bits (1382), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 276/470 (58%), Positives = 356/470 (75%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
            S +R ELL +ADAV+ EK I+R+ VL  M  +IQKA R+ YG   DIR  I+ +TGD+ 
Sbjct: 3   TSVSRPELLLVADAVSREKGIEREEVLEAMEQAIQKAGRAKYGHEKDIRATIDRKTGDVR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R  EVV+EVEN   QI+L +AR   P I  G  + DPLPP+DFGR+A Q+AKQVI+Q+
Sbjct: 63  LSRWTEVVDEVENEDTQIALSIARKFRPEIQAGEYLIDPLPPIDFGRIAAQTAKQVIVQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VRE ER RQY EFKD+VGEI++GTVKR EYGN++V++G+++ ++RRDE I RE  R  DR
Sbjct: 123 VREYERKRQYNEFKDRVGEIVNGTVKRTEYGNLLVEIGSAEALLRRDELIPRETFRNSDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YIYDVR E RGPQ+ LSRTHP F+ KLF  EVPEIY+GI+++KAV+RDPGSRAK+AV
Sbjct: 183 VRAYIYDVRDEPRGPQIFLSRTHPAFLAKLFAQEVPEIYDGIIEIKAVARDPGSRAKMAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSP +ATFV+NAL PA V+KVV+
Sbjct: 243 ISRDASIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPQAATFVVNALAPAEVSKVVM 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+ GR+EV+VP EQLSLAIGRRGQNVRLASQLT W IDI+TE E+S  RQ++F  RT  
Sbjct: 303 DEEAGRVEVVVPDEQLSLAIGRRGQNVRLASQLTRWDIDILTEAEESERRQEEFRRRTAL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F++A++VD++IA LLV EGF  +EELA     E+  IEGFDE    E+  RA  YL   +
Sbjct: 363 FVEALDVDDVIAGLLVTEGFHSIEELAFADPDELIGIEGFDESVVQELVQRAESYLVQQE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
             L  + +ELGV +++  +    +++ V LGE G+KT++DLA  + D+L+
Sbjct: 423 QKLDDRRKELGVVDDIADMGVFTNQMLVTLGEKGVKTLDDLADLAGDELV 472


>gi|162147158|ref|YP_001601619.1| transcription elongation factor NusA [Gluconacetobacter
           diazotrophicus PAl 5]
 gi|209544214|ref|YP_002276443.1| transcription elongation factor NusA [Gluconacetobacter
           diazotrophicus PAl 5]
 gi|161785735|emb|CAP55306.1| Transcription elongation protein nusA [Gluconacetobacter
           diazotrophicus PAl 5]
 gi|209531891|gb|ACI51828.1| NusA antitermination factor [Gluconacetobacter diazotrophicus PAl
           5]
          Length = 523

 Score =  530 bits (1364), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 281/470 (59%), Positives = 362/470 (77%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
            S +R ELL +ADAVA EK+IDR+ VL  M  +IQKA R+ YG   DIR  I+ +TGD+ 
Sbjct: 3   TSVSRPELLLVADAVAREKAIDREEVLEAMEQAIQKAGRAKYGHEKDIRATIDRKTGDVR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R  E VEEVEN   QI L +AR   P I +G  + DPLPP+DFGR+A Q+AKQVI+Q+
Sbjct: 63  LSRWTEAVEEVENEETQIPLHIARKFKPEIQLGEHLVDPLPPIDFGRIAAQTAKQVIVQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VRE ER RQY EFKD+VGEI++GTVKR EYGN++V++G+S+ ++RRDE I RE+ R  DR
Sbjct: 123 VREYERKRQYDEFKDRVGEIVNGTVKRTEYGNLMVEIGSSEALLRRDELIPRESFRNSDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YIYDVR E RGPQ+ LSRTHP F+ KLF  EVPEIY+GI+++KAV+RDPGSRAK+AV
Sbjct: 183 VRAYIYDVRDEPRGPQIFLSRTHPAFLAKLFAQEVPEIYDGIIEIKAVARDPGSRAKMAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSP +ATFV+NAL PA VTKVV+
Sbjct: 243 ISRDASIDPVGACVGMRGSRVQAVVQELQGEKIDIIPWSPQAATFVVNALAPAEVTKVVM 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+ GR+EV+VP EQLSLAIGRRGQNVRLASQLT W IDI+TE E+S  RQ++F  R+  
Sbjct: 303 DEEAGRVEVVVPDEQLSLAIGRRGQNVRLASQLTRWDIDILTEAEESERRQEEFRRRSGL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F++A++VD++IA LLV EGF  +EELA     E+A IEGFDE+ A E+  RA  +L   +
Sbjct: 363 FVEALDVDDVIAGLLVTEGFHSIEELAYADPDELAEIEGFDEDVAGELVRRAEGFLARRE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
             L +K R LGVS+++ ++    +++ V LGE G+K+++DLA  + D+L+
Sbjct: 423 DELDEKRRGLGVSDDVAALGVFSNQMLVTLGEKGVKSLDDLADLAGDELV 472


>gi|330813317|ref|YP_004357556.1| transcription termination protein NusA [Candidatus Pelagibacter sp.
           IMCC9063]
 gi|327486412|gb|AEA80817.1| transcription termination protein NusA [Candidatus Pelagibacter sp.
           IMCC9063]
          Length = 514

 Score =  530 bits (1364), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 263/502 (52%), Positives = 365/502 (72%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL++IADAVA EKSI +D+VL+ M  +I+KAA++ YG  ++I V I+  TG I L R L+
Sbjct: 10  ELIRIADAVADEKSISKDLVLTSMESAIEKAAKTRYGNENEIYVVIDRATGKIELGRKLK 69

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE+V N   +I L  A +++    I  +V++ LPP+DFGR+A Q+AKQVI  ++R+AER
Sbjct: 70  VVEKVMNTHSEIGLGEALEKNSEAKIDDIVNEELPPVDFGRIAAQTAKQVISHQIRDAER 129

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           DRQ+ EFKDKVGEI+SG VKR EYGNVIVDL  S+ +IRR+E I RENL+ GDR+K+Y Y
Sbjct: 130 DRQFEEFKDKVGEILSGIVKRSEYGNVIVDLQKSEAIIRREELIPRENLKNGDRIKAYCY 189

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           DVRRE +GPQ+ LSR HPQF+ KLFH EVPEIY G + +K+V+RDPGSRAK+ V S DSS
Sbjct: 190 DVRRESKGPQIFLSRAHPQFLAKLFHQEVPEIYEGTIGIKSVARDPGSRAKICVQSKDSS 249

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVGACVGMRGSRVQA+V EL+ EKIDI+ W+ D+++ V +AL PA V KV++ ED  R
Sbjct: 250 IDPVGACVGMRGSRVQAIVNELQGEKIDIINWTEDASSLVKSALSPAEVMKVIIAEDDRR 309

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           IEV++ ++ LS AIGRRGQNVRLAS+L  + IDI+T++E+S  RQ +F + T+  ++++ 
Sbjct: 310 IEVVIDEDNLSKAIGRRGQNVRLASKLLDYEIDILTDKEESEKRQTEFKDNTEKLVKSLE 369

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           +D  +A LLVAEGF  +  +A   + E   IEGFDEET+ E+Q RA+EY++     + KK
Sbjct: 370 IDTTMAQLLVAEGFPTINAIANASLPEFLKIEGFDEETSTELQNRAKEYIQEEAEEVSKK 429

Query: 428 IRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGF 487
           ++ELG+ ++L +  G+   + + LGE+ IKT++D A  + D+L+G  +   G  EKFDG 
Sbjct: 430 VKELGIEDDLATHKGLSLGMLLILGEDNIKTLKDFAELATDELIGGYDEIKGKREKFDGI 489

Query: 488 LSSLGTPKDQVESMIIHARYKM 509
           L      +   + +I+ AR K+
Sbjct: 490 LEEFDISRKDADDLIMRARKKV 511


>gi|330991197|ref|ZP_08315149.1| Transcription elongation protein nusA [Gluconacetobacter sp.
           SXCC-1]
 gi|329761690|gb|EGG78182.1| Transcription elongation protein nusA [Gluconacetobacter sp.
           SXCC-1]
          Length = 523

 Score =  530 bits (1364), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 285/520 (54%), Positives = 371/520 (71%), Gaps = 16/520 (3%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
            S  R ELL +ADAVA EKSIDR+ VL  M  +IQKA R+ YG   DIR  I+  TGD+ 
Sbjct: 11  TSVARPELLLVADAVAREKSIDREEVLEAMEQAIQKAGRAKYGHEKDIRATIDRRTGDVR 70

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R  E VE VEN   QI L +AR   P I +G  + DPLPP+DFGR+A Q+AKQVI+Q+
Sbjct: 71  LSRWTEAVETVENEETQIPLYIARKFKPEIQLGEYLIDPLPPIDFGRIAAQTAKQVIVQR 130

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VRE ER RQ+ +FKD+VGEII+GTVKR EYGN++V++G+++ ++RRDE I RE+ R  DR
Sbjct: 131 VREYERRRQFNDFKDRVGEIINGTVKRTEYGNLLVEIGDAEALLRRDELIPRESFRNSDR 190

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YIYDVR E RGPQ+ LSRTHP F+ KLF  EVPEIY+GI+++KAV+RDPGSRAK+AV
Sbjct: 191 VRAYIYDVRDEPRGPQIFLSRTHPAFLAKLFAQEVPEIYDGIIEIKAVARDPGSRAKMAV 250

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D++IDPVGACVG+RG RVQ VV EL+ EKIDI+ WSP +ATFV+NAL PA V+KVV+
Sbjct: 251 ISRDAAIDPVGACVGVRGRRVQEVVKELQGEKIDIIPWSPQAATFVVNALAPAEVSKVVM 310

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+ GR+EV+VP +QLSLAIGRRGQNVRLASQLT W IDI+TE E+S  RQ++F  R+  
Sbjct: 311 DEEAGRVEVVVPDDQLSLAIGRRGQNVRLASQLTRWDIDILTEAEESERRQEEFRRRSSQ 370

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F+ +++VD++IA LLV EGF  VEELA     E+A+IEGFDE+ A E+  RA  +L   +
Sbjct: 371 FVTSLDVDDVIAGLLVTEGFHSVEELAFADPEELANIEGFDEDVAGELVLRAERHLAQQE 430

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L +K RELGVS+++  +    +++ V LGE G+KT++DLA  + D+L+          
Sbjct: 431 EQLDEKRRELGVSDDIAVLGVFTNQMLVTLGEKGVKTLDDLADLAGDELV---------- 480

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEE 521
                 L S    +D    +I+ AR    W E +   D E
Sbjct: 481 ----EILGSDAIDEDAANEIIMAARAH--WFEGDDRGDAE 514


>gi|254452567|ref|ZP_05066004.1| transcription termination factor NusA [Octadecabacter antarcticus
           238]
 gi|198266973|gb|EDY91243.1| transcription termination factor NusA [Octadecabacter antarcticus
           238]
          Length = 538

 Score =  530 bits (1364), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 274/515 (53%), Positives = 371/515 (72%), Gaps = 2/515 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG+  DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKQIDPILVVEAMEESLARAAKSRYGSEMDIRVHIDRKTGKA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VV E  +ENY  + +++ A++     ++G    + +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVAEAELENYQSEFTVEQAKEYMEDPEVGQEFIEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERD+QY +FKD+ G II+  VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDKQYEDFKDRAGTIINAQVKREEYGNVIVDVGTGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ YI +VRREQRGPQ+ LSRT PQFM +LF MEVPEIY GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRCYIKEVRREQRGPQIFLSRTDPQFMAELFKMEVPEIYEGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDNSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDMPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VV DED  RIEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TEEE+S  RQ +F  R
Sbjct: 303 VVFDEDAERIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDILTEEEESKRRQAEFELR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T  F++++++DE  A LLV+EGF  +EE+A V++ E+  I+G D +TA E+Q RAR+ +E
Sbjct: 363 TGLFIESLDLDEFFAQLLVSEGFTTLEEVAYVEVEELLVIDGVDADTASELQARARDVIE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             +    +  R LGV + L    G+  ++  AL  +G+KT+ED A C+  +L G      
Sbjct: 423 AKNNKAMENARALGVEDSLVEFEGLTPQMIEALANDGVKTLEDFATCADWELAGGWTVTD 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           G   K DG L       ++ + MI+ AR  +GW++
Sbjct: 483 GERTKDDGSLEPFEVSLEEAQKMIMTARVMLGWVD 517


>gi|296114401|ref|ZP_06833055.1| transcription elongation factor NusA [Gluconacetobacter hansenii
           ATCC 23769]
 gi|295979162|gb|EFG85886.1| transcription elongation factor NusA [Gluconacetobacter hansenii
           ATCC 23769]
          Length = 516

 Score =  528 bits (1359), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 280/470 (59%), Positives = 361/470 (76%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
            S +R ELL +ADAVA EKSIDR+ VL  M  +IQKA R+ YG   DIR  I+ +TGD+ 
Sbjct: 3   TSVSRPELLLVADAVAREKSIDREEVLEAMEQAIQKAGRAKYGHEKDIRATIDRKTGDVR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R  E VEEVEN   QI L +AR   P I +G  + DPLPP+DFGR+A Q+AKQVI+Q+
Sbjct: 63  LSRWTEAVEEVENEETQIPLHIARKFRPEIQLGEHLIDPLPPIDFGRIAAQTAKQVIVQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VRE ER RQY +FKD+VGEI++GTVKR EYGN++V++G+S+ ++RRDE I RE+ R  DR
Sbjct: 123 VREYERKRQYNDFKDRVGEIVNGTVKRTEYGNLMVEIGSSEALLRRDELIPRESFRNSDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YIYDVR E RGPQ+ LSRTHP F+ KLF  EVPEIY+GI+++KAV+RDPGSRAK+AV
Sbjct: 183 VRAYIYDVRDEPRGPQIFLSRTHPAFLAKLFAQEVPEIYDGIIEIKAVARDPGSRAKMAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSP +ATFV+NAL PA V+KVV+
Sbjct: 243 ISRDASIDPVGACVGMRGSRVQAVVQELQGEKIDIIPWSPQAATFVVNALAPAEVSKVVM 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+ GR+EV+VP EQLSLAIGRRGQNVRLASQLT W IDI+TE E+S  RQ++F  R+  
Sbjct: 303 DEEAGRVEVVVPDEQLSLAIGRRGQNVRLASQLTRWDIDILTEAEESERRQEEFRRRSNQ 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F++A++VD++IA LLV EGF  +EELA     E+A IEGFDE+ A E+  RA  +L   +
Sbjct: 363 FVEALDVDDVIAGLLVTEGFHSIEELAFADADELAGIEGFDEDVASELVRRAEGFLARRE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
             + +K R LGVS+++ ++     ++ V LGE G+KT++DLA  + D+L+
Sbjct: 423 EEMDEKRRALGVSDDIAALGVFTVQMLVTLGEKGVKTLDDLADLAGDELV 472


>gi|262277759|ref|ZP_06055552.1| transcription termination factor [alpha proteobacterium HIMB114]
 gi|262224862|gb|EEY75321.1| transcription termination factor [alpha proteobacterium HIMB114]
          Length = 514

 Score =  526 bits (1355), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 270/502 (53%), Positives = 367/502 (73%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL++IADAVA EKSID+D+VLS M  +I+KAAR+ YG+ ++I V I+ ETG I L R L+
Sbjct: 10  ELIRIADAVAAEKSIDKDLVLSSMETAIEKAARTRYGSENEIYVSIDRETGIIELGRKLK 69

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE+V     +ISL  A+ +DPS +IGG + + LPP+DFGR+A Q+AKQVI  ++R+AER
Sbjct: 70  VVEKVLESHSEISLDEAKQKDPSAEIGGEIKEELPPIDFGRIAAQTAKQVISVQIRDAER 129

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           DRQ+ EFKDKVGEI+SG VKR E+GN+IVDL  S+ +IRR+E I RENL+ GDRVK+Y Y
Sbjct: 130 DRQFNEFKDKVGEILSGIVKRSEFGNIIVDLQKSEAIIRREELIPRENLKNGDRVKAYCY 189

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           DVRRE +GPQ+ LSR HPQF+ KLF  EVPEIY G + +K+V+RDPGSRAK+ V S DSS
Sbjct: 190 DVRRENKGPQIFLSRAHPQFLAKLFQQEVPEIYEGTISIKSVARDPGSRAKICVQSKDSS 249

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVGACVGMRGSRVQ +V EL+ EKIDI+ W+ D  + V++AL PA V KVVLD++  R
Sbjct: 250 IDPVGACVGMRGSRVQTIVNELQGEKIDIINWTEDVGSLVVSALAPAEVMKVVLDQENRR 309

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
            EV++ +  LS AIGRRGQNVRLAS+L  + IDI+T++E+S  RQ +F E +   ++A+ 
Sbjct: 310 AEVVIDENNLSKAIGRRGQNVRLASKLLDYEIDILTDKEESEKRQSEFKENSSKLIKALE 369

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           +D  +A LLV+EGF  ++++    + E   I+GFDEETA E+Q RA+E+LE  +  +  K
Sbjct: 370 IDTTMAQLLVSEGFNTIKDINNANVDEFLKIDGFDEETAKELQDRAKEFLEEEEKEIASK 429

Query: 428 IRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGF 487
           ++ELG+ E+L +  G+   + + LGE  IKT++D A  S D+++G  +   G  EKFDG 
Sbjct: 430 VQELGIEEDLANHKGLTLGMLLTLGEENIKTLKDFAELSTDEIVGGYDEIKGKREKFDGV 489

Query: 488 LSSLGTPKDQVESMIIHARYKM 509
           L     P+   E +I+ AR K+
Sbjct: 490 LEEFNIPRKDAEDLIMRARKKV 511


>gi|294011603|ref|YP_003545063.1| N utilization substance protein A [Sphingobium japonicum UT26S]
 gi|292674933|dbj|BAI96451.1| N utilization substance protein A [Sphingobium japonicum UT26S]
          Length = 523

 Score =  526 bits (1354), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 283/523 (54%), Positives = 386/523 (73%), Gaps = 13/523 (2%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SAN+ ELL IA++VA EK ID+ +V+  M D+IQ+AAR+ YG  +DIR +++PETGD+ 
Sbjct: 5   ISANKAELLAIANSVASEKMIDKAIVIEAMEDAIQRAARARYGAENDIRAKLDPETGDLR 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+R++EVVE V++Y  Q+ L+ A+       IG  + DPLPP+D GR+  QSAKQVI QK
Sbjct: 65  LWRVVEVVEVVDDYFKQVDLRQAQKLKKDAVIGDFIVDPLPPIDLGRIDAQSAKQVIFQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+RQ+ EFKD+VGEII+G VK VE+G+V+V+LG ++GVIRRD+ I RE +R GDR
Sbjct: 125 VRDAERERQHEEFKDRVGEIITGVVKSVEFGHVVVNLGRAEGVIRRDQQIPREVVRVGDR 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++S I +VRRE RGPQ+ LSR HP+FM KLF  EVPEIY+G++++KA +RDPGSRAK+ V
Sbjct: 185 IRSVILNVRRENRGPQIFLSRAHPEFMKKLFAQEVPEIYDGVIEIKAAARDPGSRAKIGV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGM+GSRVQAVV E++ EKIDI+ WS D+ATFV+NAL+PA V +VV+
Sbjct: 245 ISRDSSIDPVGACVGMKGSRVQAVVQEMQGEKIDIIPWSEDTATFVVNALQPAQVARVVI 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  RIEV+VP +QLSLAIGRRGQNVRLASQLTG  IDI+TE + S  RQK+F  R++ 
Sbjct: 305 DEEEERIEVVVPDDQLSLAIGRRGQNVRLASQLTGKAIDIMTEADASEKRQKEFVARSEM 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F   ++VDE ++ LLVAEGF ++EE+A V + E+A+IEGFDE+ A E+Q RA+E L+  +
Sbjct: 365 FQNELDVDETLSQLLVAEGFGELEEVAYVGVEELAAIEGFDEDLAAELQSRAQEALDRRE 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWS------- 474
              +++ + LGV + L  +P +   + V LG+ GIKT++DLA  + D+L+          
Sbjct: 425 AAAREERQALGVEDALADMPHLTEAMLVTLGKAGIKTLDDLADLATDELVAKKRVDQRRR 484

Query: 475 -ENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
            ENK    E   G L+  G  ++Q   +I+ AR    W E E+
Sbjct: 485 RENKE---EDKGGILAEYGLTEEQGNEIIMAARAH--WFEGEE 522


>gi|307293340|ref|ZP_07573186.1| transcription termination factor NusA [Sphingobium chlorophenolicum
           L-1]
 gi|306881406|gb|EFN12622.1| transcription termination factor NusA [Sphingobium chlorophenolicum
           L-1]
          Length = 523

 Score =  525 bits (1351), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 283/523 (54%), Positives = 386/523 (73%), Gaps = 13/523 (2%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SAN+ ELL IA++VA EK ID+ +V+  M D+IQ+AAR+ YG  +DIR +++PETGD+ 
Sbjct: 5   ISANKAELLAIANSVASEKMIDKAIVIEAMEDAIQRAARARYGAENDIRAKLDPETGDLR 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+R++EVVE V++Y  Q+ L+ A+       IG  + DPLPP+D GR+  QSAKQVI QK
Sbjct: 65  LWRVVEVVEAVDDYFKQVDLRQAQKLKKDAVIGDFIVDPLPPIDLGRIDAQSAKQVIFQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+RQ+ EFKD+VGEII+G VK VE+G+V+V+LG ++GVIRRD+ I RE +R GDR
Sbjct: 125 VRDAERERQHEEFKDRVGEIITGVVKSVEFGHVVVNLGRAEGVIRRDQQIPREVVRVGDR 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++S I +VRRE RGPQ+ LSR HP+FM KLF  EVPEIY+G++++KA +RDPGSRAK+ V
Sbjct: 185 IRSVILNVRRENRGPQIFLSRAHPEFMKKLFAQEVPEIYDGVIEIKAAARDPGSRAKIGV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGM+GSRVQAVV E++ EKIDI+ WS D+ATFV+NAL+PA V +VV+
Sbjct: 245 ISRDSSIDPVGACVGMKGSRVQAVVQEMQGEKIDIIPWSEDTATFVVNALQPAQVARVVI 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  RIEV+VP +QLSLAIGRRGQNVRLASQLTG  IDI+TE + S  RQK+F  R++ 
Sbjct: 305 DEEEERIEVVVPDDQLSLAIGRRGQNVRLASQLTGKAIDIMTEADASEKRQKEFVARSEL 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F   ++VDE ++ LLVAEGF ++EE+A V + E+A+IEGFDE+ A E+Q RA+E L+  +
Sbjct: 365 FQNELDVDETLSQLLVAEGFGELEEVAYVGVEELAAIEGFDEDLAAELQSRAQEALDRRE 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWS------- 474
              +++ + LGV + L  +P +   + V LG+ GIKT++DLA  + D+L+          
Sbjct: 425 AAAREERQALGVEDALADMPHLTEAMLVTLGKAGIKTLDDLADLATDELVAKKRVDQRRR 484

Query: 475 -ENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
            ENK    E   G L+  G  ++Q   +I+ AR    W E E+
Sbjct: 485 RENKE---EDKGGILAEYGLSEEQGNEIIMAARAH--WFEGEE 522


>gi|148556720|ref|YP_001264302.1| transcription elongation factor NusA [Sphingomonas wittichii RW1]
 gi|148501910|gb|ABQ70164.1| NusA antitermination factor [Sphingomonas wittichii RW1]
          Length = 529

 Score =  523 bits (1347), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 289/526 (54%), Positives = 384/526 (73%), Gaps = 14/526 (2%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANR ELL IADAVA EK IDR++V+  M D+IQ+AAR+ YG  +DIR +I+ +TGD+ 
Sbjct: 5   ISANRAELLAIADAVAREKLIDREIVIEAMEDAIQRAARARYGAENDIRAKIDGKTGDMR 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+R++EVVE+V++Y  Q+S+  A+       IG  + DPLPP++FGR+A Q+AKQVI QK
Sbjct: 65  LWRVVEVVEQVDDYFKQVSVADAQKLQKDAAIGDFIVDPLPPIEFGRIAAQAAKQVIFQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+RQY EFKD+  EII+G VKRVE+G+V+VDLG ++GVIRRD+ I RE +R GDR
Sbjct: 125 VRDAERERQYEEFKDRANEIITGVVKRVEFGHVVVDLGRAEGVIRRDQQIPREVVRVGDR 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+S I  VRRE RGPQ+ LSR HP+FM KLF  EVPEIY+GI+++KA +RDPGSRAK+ V
Sbjct: 185 VRSLILSVRRENRGPQIFLSRAHPEFMKKLFAQEVPEIYDGIIEIKAAARDPGSRAKIGV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D SIDPVGACVGM+GSRVQAVV E++ EKIDI+ WSPD+ATFV+NAL+PA V++VV+
Sbjct: 245 ISHDGSIDPVGACVGMKGSRVQAVVQEMQGEKIDIIPWSPDTATFVVNALQPAQVSRVVI 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  RIEV+VP +QLSLAIGRRGQNVRLASQLTG  IDI+TE + S  RQK+F + ++ 
Sbjct: 305 DEEEERIEVVVPDDQLSLAIGRRGQNVRLASQLTGKAIDILTEADASEKRQKEFLQNSEM 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F   ++VDE +A LLVAEGF  +EE+A V++ E+ASIEGFDEE   E+Q RA+E LE  +
Sbjct: 365 FQNELDVDETLAQLLVAEGFGALEEVAYVELDELASIEGFDEELGAELQSRAQEALERRE 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSE------ 475
              +++ R LGV + L  +P +   + V LG+ GIKT++DLA  + D+L+          
Sbjct: 425 AAAREERRSLGVEDALAELPYLTEAMLVTLGKAGIKTLDDLADLATDELIQKKRPEQRRR 484

Query: 476 ------NKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  +G   E   G L+  G  ++Q   +I+ AR    W   E
Sbjct: 485 QNSDRPERGDREENKGGVLAEYGLSEEQGNEIIMAARAH--WFTDE 528


>gi|94497164|ref|ZP_01303736.1| NusA antitermination factor [Sphingomonas sp. SKA58]
 gi|94423269|gb|EAT08298.1| NusA antitermination factor [Sphingomonas sp. SKA58]
          Length = 522

 Score =  518 bits (1333), Expect = e-144,   Method: Compositional matrix adjust.
 Identities = 277/519 (53%), Positives = 380/519 (73%), Gaps = 7/519 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SAN+ EL+ IA++VA EK ID+ +V+  M D+IQ+AAR+ YG  +DIR +++P++GD+ 
Sbjct: 5   ISANKAELIAIANSVASEKMIDKAIVIEAMEDAIQRAARARYGAENDIRAKLDPDSGDLR 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+R++EVVE VE+Y  Q+ LK  +       IG  + DPLP +D GR+  QSAKQVI QK
Sbjct: 65  LWRVVEVVETVEDYFKQVDLKQGQKLKKDAVIGDFIVDPLPAIDLGRIDAQSAKQVIFQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+RQY E+KD+VGEII+G VK VE+G+V+V+LG ++GVIRRD+ I RE +R GDR
Sbjct: 125 VRDAERERQYEEYKDRVGEIITGVVKSVEFGHVVVNLGRAEGVIRRDQQIPREVVRVGDR 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++S + +VRRE RGPQ+ LSR HP+FM KLF  EVPEIY+G++ + A +RDPGSRAK+ V
Sbjct: 185 IRSVVLNVRRENRGPQIFLSRAHPEFMKKLFAQEVPEIYDGVITIMAAARDPGSRAKIGV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGM+GSRVQAVV E++ EKIDI+ WS D+ATFV+NAL+PA V +VV+
Sbjct: 245 ISRDSSIDPVGACVGMKGSRVQAVVQEMQGEKIDIIPWSEDTATFVVNALQPAQVARVVI 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  RIEV+VP +QLSLAIGRRGQNVRLASQLTG  IDI+TE + S  RQK+F  R++ 
Sbjct: 305 DEEEERIEVVVPDDQLSLAIGRRGQNVRLASQLTGKAIDIMTEADASEKRQKEFVARSEM 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F   ++VDE ++ LLVAEGF ++EE+A V + E+A IEGFDE+ A E+Q RA+E L+  +
Sbjct: 365 FQNELDVDETLSQLLVAEGFGELEEVAYVTVEELAGIEGFDEDLAAELQSRAQEALDRRE 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG-----WSEN 476
              +++ + LGV + L  +P +   + V LG+ GIKT++DLA  + D+L+          
Sbjct: 425 AAAREERQALGVDDALADMPHLTEAMLVTLGKAGIKTLDDLADLATDELIAKKRVDQRRR 484

Query: 477 KGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
           K    E   G LS+ G  ++Q   +I+ AR    W E+E
Sbjct: 485 KSETTEDKGGILSAYGLNEEQGNEIIMAARAH--WFEEE 521


>gi|157825875|ref|YP_001493595.1| transcription elongation factor NusA [Rickettsia akari str.
           Hartford]
 gi|157799833|gb|ABV75087.1| transcription elongation factor NusA [Rickettsia akari str.
           Hartford]
          Length = 503

 Score =  493 bits (1268), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 240/479 (50%), Positives = 351/479 (73%), Gaps = 3/479 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +   +E+LQI D+VA EK I +++++S +  ++Q A R  YG   +I+ +IN +TG+I
Sbjct: 1   MSNIGNVEILQIIDSVAREKGISKEILVSTVEQAVQVAGRKKYGNEYNIKAQINRKTGEI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +L R+L++VE+V++Y  QISL  A  ++P   IG  + + LPP+D  RV+ Q+AKQVI Q
Sbjct: 61  NLLRILKIVEDVQDYLTQISLAEALRKNPEAKIGDEIYEYLPPIDHARVSAQAAKQVITQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +V EAER++QY +FKD+ GEII+G VKR+EYG++IVDL  ++ +I++D+ I+ EN +P D
Sbjct: 121 RVIEAEREKQYHDFKDRKGEIINGIVKRIEYGDIIVDLSRAEAIIKKDQLINGENFKPND 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K+Y+ DVR+E +GPQ+ LSR   Q +VKLF +EVPEI   I+Q+K+V+RDPGSRAK+A
Sbjct: 181 RIKAYVQDVRQETKGPQIFLSRVDNQMLVKLFKIEVPEILEDIIQIKSVARDPGSRAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI---VT 297
           VF+SDSSIDPVG+CVG+RG+RV+AV  EL  EKIDIV+WS D A F++NAL P     +T
Sbjct: 241 VFASDSSIDPVGSCVGIRGNRVKAVTNELNGEKIDIVLWSNDLAQFIVNALAPLAPGEIT 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           K+++DED  ++EV+V +E  S+AIGRRGQNVRLAS+LTGW IDI+TEE++S  R ++F  
Sbjct: 301 KILIDEDRHKVEVVVSQENQSIAIGRRGQNVRLASKLTGWNIDIMTEEQESKRRNEEFVT 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
            TQ FM+A++V+E+I  LL   GF  VE++A  ++S +  IEGF+EE AVEI+ RA  Y+
Sbjct: 361 STQLFMEALDVEEVIGQLLSVTGFNSVEQIASSEVSTLTRIEGFEEELAVEIKNRAVNYV 420

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN 476
           +  +  + KK+ +LGV +EL  I  +  ++ +   E GIKT+EDL   SV++    + N
Sbjct: 421 DLKNEKIIKKLEDLGVEQELIDILALPLELILKFAEYGIKTIEDLGEMSVNEFKNLAPN 479


>gi|157964683|ref|YP_001499507.1| transcription elongation factor NusA [Rickettsia massiliae MTU5]
 gi|157844459|gb|ABV84960.1| N utilization substance protein A, transcription termination factor
           NusA [Rickettsia massiliae MTU5]
          Length = 503

 Score =  492 bits (1266), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 241/479 (50%), Positives = 351/479 (73%), Gaps = 3/479 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +   +E+LQI D+VA EK I +++++S +  ++Q A R  YG   +I+ +IN +TG+I
Sbjct: 1   MSNIGNVEILQIIDSVAREKGISKEILISTVEQAVQAAGRKKYGNEYNIKAQINRKTGEI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +L R+L++VE+VE+Y  QISL+ A  ++P   IG  + + LPP+D  RV+ Q+AKQVI Q
Sbjct: 61  NLLRILKIVEDVEDYLTQISLEEALIKNPEAKIGDEIYEYLPPIDHARVSAQAAKQVITQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +V EAER++QY +FKD+ GEII+G VKR+EYG++IVDL  ++ +I++D+ I  EN +P D
Sbjct: 121 RVIEAEREKQYHDFKDRKGEIINGIVKRIEYGDIIVDLSRAEAIIKKDQLIKGENFKPND 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K+Y+ DVR+E +GPQ+ LSR   Q +VKLF +EVPEI   I+Q+K+V+RDPGS+AK+A
Sbjct: 181 RIKAYVQDVRQETKGPQIFLSRVDNQMLVKLFKLEVPEILEAIIQIKSVARDPGSKAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI---VT 297
           VF+SDSSIDPVG+CVG+RG+RV+AV  EL  EKIDIV+WS D A F++NAL P     +T
Sbjct: 241 VFASDSSIDPVGSCVGIRGNRVKAVTNELNGEKIDIVLWSNDLAQFIVNALAPLAPGEIT 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           K+++DED  ++EV+V +E  S+AIGRRGQNVRLASQLTGW IDI+TEE++S  R ++F  
Sbjct: 301 KILIDEDRHKVEVVVSQENQSIAIGRRGQNVRLASQLTGWNIDIMTEEQESKRRNEEFLT 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
            T+ FM+A++V+E+I  LL   GF  VE++A  +IS +  IEGF+EE AVEI+ RA  Y+
Sbjct: 361 STELFMEALDVEEVIGQLLSVTGFNSVEQIASSEISTLTRIEGFEEELAVEIKNRAINYV 420

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN 476
           +  +  + KK+ +LGV +EL  I  +  ++ +   E GIKT+EDL   SV++    + N
Sbjct: 421 DLKNEKIIKKLEDLGVEQELIDILELSLELILKFAEYGIKTIEDLGEMSVNEFKNLAPN 479


>gi|15892740|ref|NP_360454.1| transcription elongation factor NusA [Rickettsia conorii str.
           Malish 7]
 gi|20139038|sp|Q92HF4|NUSA_RICCN RecName: Full=Transcription elongation protein nusA
 gi|15619917|gb|AAL03355.1| N utilization substance protein A [Rickettsia conorii str. Malish
           7]
          Length = 503

 Score =  491 bits (1264), Expect = e-136,   Method: Compositional matrix adjust.
 Identities = 241/479 (50%), Positives = 350/479 (73%), Gaps = 3/479 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +   +E+LQI D+VA EK I +++++S +  ++Q A R  YG   DI+ +IN +TG+I
Sbjct: 1   MSNIGNVEILQIIDSVAREKGISKEILISTVEQAVQAAGRKKYGNEYDIKAQINRKTGEI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +L R+L++VE+VE+Y  QISL+ A  ++P   IG  + + LPP+D  RV+ Q+AKQVI Q
Sbjct: 61  NLLRILKIVEDVEDYLTQISLEEALIKNPEAKIGDEIYEYLPPIDHARVSAQAAKQVITQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +V EAER++QY +FKD+ GEII+G VKR+EYG++IVDL  ++ +I++D+ I  EN +P D
Sbjct: 121 RVIEAEREKQYHDFKDRKGEIINGIVKRIEYGDIIVDLSRAEAIIKKDQLIKGENFKPND 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K+Y+ DVR+E +GPQ+ LSR   Q +VKLF +EVPEI   I+Q+K+V+RDPGS+AK+A
Sbjct: 181 RIKAYVQDVRQETKGPQIFLSRVDNQMLVKLFKLEVPEILESIIQIKSVARDPGSKAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI---VT 297
           VF++DSSIDPVG+CVG+RG+RV+AV  EL  EKIDIV+WS D A F++NAL P     +T
Sbjct: 241 VFAADSSIDPVGSCVGIRGNRVKAVTNELNGEKIDIVLWSNDLAQFIVNALAPLAPGEIT 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           K+++DED  ++EV+V +E  S+AIGRRGQNVRLASQLTGW IDI+TEE++S  R ++F  
Sbjct: 301 KILIDEDRHKVEVVVSQENQSIAIGRRGQNVRLASQLTGWNIDIMTEEQESKRRNEEFLT 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
            T  FM+A++V+E+I  LL   GF  VE++A  +IS +  IEGF+EE AVEI+ RA  Y+
Sbjct: 361 STALFMEALDVEEVIGQLLSVTGFNSVEQIASSEISTLTRIEGFEEELAVEIKNRAINYV 420

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN 476
           +  +  + KK+ +LGV +EL  I  +  ++ +   E GIKT+EDL   SV++    + N
Sbjct: 421 DLKNEKIIKKLEDLGVEQELIDILELSLELILQFAEYGIKTIEDLGEMSVNEFKNLAPN 479


>gi|157828686|ref|YP_001494928.1| transcription elongation factor NusA [Rickettsia rickettsii str.
           'Sheila Smith']
 gi|165933405|ref|YP_001650194.1| transcription elongation factor NusA [Rickettsia rickettsii str.
           Iowa]
 gi|157801167|gb|ABV76420.1| transcription elongation factor NusA [Rickettsia rickettsii str.
           'Sheila Smith']
 gi|165908492|gb|ABY72788.1| N utilization substance protein A [Rickettsia rickettsii str. Iowa]
          Length = 503

 Score =  491 bits (1264), Expect = e-136,   Method: Compositional matrix adjust.
 Identities = 241/479 (50%), Positives = 350/479 (73%), Gaps = 3/479 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +   +E+LQI D+VA EK I +++++S +  ++Q A R  YG   +I+ +IN +TG+I
Sbjct: 1   MSNVGNVEILQIIDSVAREKGISKEILISTVEQAVQAAGRKKYGNEYNIKAQINRKTGEI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +L R+L++VE+VE+Y  QISL+ A  ++P   IG  + + LPP+D  RV+ Q+AKQVI Q
Sbjct: 61  NLLRILKIVEDVEDYLTQISLEEALIKNPEAKIGDEIYEYLPPIDHARVSAQAAKQVITQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +V EAER++QY +FKD+ GEII+G VKR+EYG++IVDL  ++ +I++D+ I  EN +P D
Sbjct: 121 RVIEAEREKQYHDFKDRKGEIINGIVKRIEYGDIIVDLSRAEAIIKKDQLIKGENFKPND 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K+Y+ DVR+E +GPQ+ LSR   Q +VKLF +EVPEI   I+Q+K+V+RDPGS+AK+A
Sbjct: 181 RIKAYVQDVRQETKGPQIFLSRVDNQMLVKLFKLEVPEILESIIQIKSVARDPGSKAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI---VT 297
           VF+SDSSIDPVG+CVG+RG+RV+AV  EL  EKIDIV+WS D A F++NAL P     +T
Sbjct: 241 VFASDSSIDPVGSCVGIRGNRVKAVTNELNGEKIDIVLWSNDLAQFIVNALAPLAPGEIT 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           K+++DED  ++EV+V +E  S+AIGRRGQNVRLASQLTGW IDI+TEE++S  R ++F  
Sbjct: 301 KILIDEDRHKVEVVVSQENQSIAIGRRGQNVRLASQLTGWNIDIMTEEQESKRRNEEFLT 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
            T  FM+A++V+E+I  LL   GF  VE++A  +IS +  IEGF+EE AVEI+ RA  Y+
Sbjct: 361 STALFMEALDVEEVIGQLLSVTGFNSVEQIASSEISTLTRIEGFEEELAVEIKNRAINYV 420

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN 476
           +  +  + KK+ +LGV +EL  I  +  ++ +   E GIKT+EDL   SV++    + N
Sbjct: 421 DLKNEKIIKKLEDLGVEQELIDILELSLELILQFAEYGIKTIEDLGEMSVNEFKNLAPN 479


>gi|238650318|ref|YP_002916170.1| transcription elongation factor NusA [Rickettsia peacockii str.
           Rustic]
 gi|238624416|gb|ACR47122.1| transcription elongation factor NusA [Rickettsia peacockii str.
           Rustic]
          Length = 503

 Score =  491 bits (1263), Expect = e-136,   Method: Compositional matrix adjust.
 Identities = 241/479 (50%), Positives = 350/479 (73%), Gaps = 3/479 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +   +E+LQI D+VA EK I +++++S +  ++Q A R  YG   +I+ +IN +TG+I
Sbjct: 1   MSNIGNVEILQIIDSVAREKGISKEILISTVEQAVQAAGRKKYGNEYNIKAQINRKTGEI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +L R+L++VE+VE+Y  QISL+ A  ++P   IG  + + LPP+D  RV+ Q+AKQVI Q
Sbjct: 61  NLLRILKIVEDVEDYLTQISLEEALIKNPEAKIGDEIYEYLPPIDHARVSAQTAKQVITQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +V EAER++QY +FKD+ GEII+G VKR+EYG++IVDL  ++ +I++D+ I  EN +P D
Sbjct: 121 RVIEAEREKQYHDFKDRKGEIINGIVKRIEYGDIIVDLSRAEAIIKKDQLIKGENFKPND 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K+Y+ DVR+E +GPQ+ LSR   Q +VKLF +EVPEI   I+Q+K+V+RDPGS+AK+A
Sbjct: 181 RIKAYVQDVRQETKGPQIFLSRVDNQMLVKLFKLEVPEILESIIQIKSVARDPGSKAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI---VT 297
           VF+SDSSIDPVG+CVG+RG+RV+AV  EL  EKIDIV+WS D A F++NAL P     +T
Sbjct: 241 VFASDSSIDPVGSCVGIRGNRVKAVTNELNGEKIDIVLWSNDLAQFIVNALAPLAPGEIT 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           K+++DED  ++EV+V +E  S+AIGRRGQNVRLASQLTGW IDI+TEE++S  R ++F  
Sbjct: 301 KILIDEDRHKVEVVVSQENQSIAIGRRGQNVRLASQLTGWNIDIMTEEQESKRRNEEFLT 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
            T  FM+A++V+E+I  LL   GF  VE++A  +IS +  IEGF+EE AVEI+ RA  Y+
Sbjct: 361 STALFMEALDVEEVIGQLLSVTGFNSVEQIASSEISTLTRIEGFEEELAVEIKNRAINYV 420

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN 476
           +  +  + KK+ +LGV +EL  I  +  ++ +   E GIKT+EDL   SV++    + N
Sbjct: 421 DLKNEKIIKKLEDLGVEQELIDILELSLELILQFAEYGIKTIEDLGEMSVNEFKNLAPN 479


>gi|229586874|ref|YP_002845375.1| transcription elongation factor NusA [Rickettsia africae ESF-5]
 gi|228021924|gb|ACP53632.1| N utilization substance protein A, transcription termination factor
           NusA [Rickettsia africae ESF-5]
          Length = 503

 Score =  491 bits (1263), Expect = e-136,   Method: Compositional matrix adjust.
 Identities = 241/479 (50%), Positives = 350/479 (73%), Gaps = 3/479 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +   +E+LQI D+VA EK I +++++S +  ++Q A R  YG   +I+ +IN +TG+I
Sbjct: 1   MSNIGNVEILQIIDSVAREKGISKEILISTVEQAVQAAGRKKYGNEYNIKAQINRKTGEI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +L R+L++VE+VE+Y  QISL+ A  ++P   IG  + + LPP+D  RV+ Q+AKQVI Q
Sbjct: 61  NLLRILKIVEDVEDYLTQISLEEALIKNPEAKIGDEIYEYLPPIDHARVSAQAAKQVITQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +V EAER++QY +FKD+ GEII+G VKR+EYG++IVDL  ++ +I++D+ I  EN +P D
Sbjct: 121 RVIEAEREKQYHDFKDRKGEIINGIVKRIEYGDIIVDLSRAEAIIKKDQLIKGENFKPND 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K+Y+ DVR+E +GPQ+ LSR   Q +VKLF +EVPEI   I+Q+K+V+RDPGS+AK+A
Sbjct: 181 RIKAYVQDVRQETKGPQIFLSRVDNQMLVKLFKLEVPEILESIIQIKSVARDPGSKAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI---VT 297
           VF+SDSSIDPVG+CVG+RG+RV+AV  EL  EKIDIV+WS D A F++NAL P     +T
Sbjct: 241 VFASDSSIDPVGSCVGIRGNRVKAVTNELNGEKIDIVLWSNDLAQFIVNALAPLAPGEIT 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           K+++DED  ++EV+V +E  S+AIGRRGQNVRLASQLTGW IDI+TEE++S  R ++F  
Sbjct: 301 KILIDEDRHKVEVVVSQENQSIAIGRRGQNVRLASQLTGWNIDIMTEEQESKRRNEEFLT 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
            T  FM+A++V+E+I  LL   GF  VE++A  +IS +  IEGF+EE AVEI+ RA  Y+
Sbjct: 361 STALFMEALDVEEVIGQLLSVTGFNSVEQIASSEISTLTRIEGFEEELAVEIKNRAINYV 420

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN 476
           +  +  + KK+ +LGV +EL  I  +  ++ +   E GIKT+EDL   SV++    + N
Sbjct: 421 DLKNEKIIKKLEDLGVEQELIDILELSLELILQFAEYGIKTIEDLGEMSVNEFKNLAPN 479


>gi|34581537|ref|ZP_00143017.1| N utilization substance protein A [Rickettsia sibirica 246]
 gi|28262922|gb|EAA26426.1| N utilization substance protein A [Rickettsia sibirica 246]
          Length = 503

 Score =  490 bits (1262), Expect = e-136,   Method: Compositional matrix adjust.
 Identities = 240/479 (50%), Positives = 350/479 (73%), Gaps = 3/479 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +   +E+LQI D+VA EK I +++++S +  ++Q A R  YG   +I+ +IN +TG+I
Sbjct: 1   MSNIGNVEILQIIDSVAREKGISKEILISTVEQAVQAAGRKKYGNEYNIKAQINRKTGEI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +L R+L++VE+VE+Y  QISL+ A  ++P   IG  + + LPP+D  RV+ Q+AKQVI Q
Sbjct: 61  NLLRILKIVEDVEDYLTQISLEEALIKNPEAKIGDEIYEYLPPIDHARVSAQAAKQVITQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +V EAER++QY +FKD+ GEII+G VKR+EYG++IVDL  ++ +I++D+ I  EN +P D
Sbjct: 121 RVIEAEREKQYHDFKDRKGEIINGIVKRIEYGDIIVDLSRAEAIIKKDQLIKGENFKPND 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K+Y+ DVR+E +GPQ+ LSR   Q ++KLF +EVPEI   I+Q+K+V+RDPGS+AK+A
Sbjct: 181 RIKAYVQDVRQETKGPQIFLSRVDNQMLIKLFKLEVPEILESIIQIKSVARDPGSKAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI---VT 297
           VF+SDSSIDPVG+CVG+RG+RV+AV  EL  EKIDIV+WS D A F++NAL P     +T
Sbjct: 241 VFASDSSIDPVGSCVGIRGNRVKAVTNELNGEKIDIVLWSNDLAQFIVNALAPLAPGEIT 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           K+++DED  ++EV+V +E  S+AIGRRGQNVRLASQLTGW IDI+TEE++S  R ++F  
Sbjct: 301 KILIDEDRHKVEVVVSQENQSIAIGRRGQNVRLASQLTGWNIDIMTEEQESKRRNEEFLT 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
            T  FM+A++V+E+I  LL   GF  VE++A  +IS +  IEGF+EE AVEI+ RA  Y+
Sbjct: 361 STALFMEALDVEEVIGQLLSVTGFNSVEQIASSEISTLTRIEGFEEELAVEIKNRAINYV 420

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN 476
           +  +  + KK+ +LGV +EL  I  +  ++ +   E GIKT+EDL   SV++    + N
Sbjct: 421 DLKNEKIIKKLEDLGVEQELIDILELSLELILQFAEYGIKTIEDLGEMSVNEFKNLAPN 479


>gi|51473734|ref|YP_067491.1| transcription elongation factor NusA [Rickettsia typhi str.
           Wilmington]
 gi|51460046|gb|AAU04009.1| transcription elongation protein NusA (N utilization substance
           protein A) [Rickettsia typhi str. Wilmington]
          Length = 503

 Score =  488 bits (1256), Expect = e-136,   Method: Compositional matrix adjust.
 Identities = 239/479 (49%), Positives = 355/479 (74%), Gaps = 3/479 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +   +E+LQI D+VA EK I ++++++ +  +IQ A R  YG   +I+ +IN +TG+I
Sbjct: 1   MSNIYNVEILQIIDSVAREKGISKEILIATVEQAIQVAGRKKYGNEYNIKAQINRKTGEI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +L R+L++VE+VE+Y  QISL+ A  ++P   IG  + + LPP+D+ RV+ Q+AKQVI Q
Sbjct: 61  NLLRILKIVEDVEDYLTQISLEDALVKNPEAKIGDEIYEYLPPIDYARVSAQAAKQVITQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +V EAER++QY +FKD+ G+II+G VKR+EYG++IVDLG ++ +I++D+ I  E+ +P D
Sbjct: 121 RVIEAEREKQYNDFKDRKGDIINGIVKRIEYGDIIVDLGRAEAIIKKDQLIKGEHFKPND 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K+Y+ DVR+E +GPQ+ LSR   + +VKLF +EVPEI   I+QVK+V+RDPGS+AK+A
Sbjct: 181 RIKAYVQDVRQETKGPQIFLSRVDNKMLVKLFKLEVPEILEDIIQVKSVARDPGSKAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA---LRPAIVT 297
           VF+SDSSIDPVG+CVG+RG+RV+AV  EL  EKIDIV+WS D A F++N+   L P+ +T
Sbjct: 241 VFASDSSIDPVGSCVGIRGNRVKAVTNELNGEKIDIVLWSNDLAQFIVNSLVPLAPSEIT 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           K+++DED  ++EV+V +E  S+AIGRRGQNVRLAS+LTGW IDI+TEE++S  R ++F+ 
Sbjct: 301 KILIDEDSHKVEVVVSQENQSIAIGRRGQNVRLASKLTGWNIDIMTEEQESKRRNEEFST 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
            T+ FM+A++V+E+I  LL   GF  VE++A  +IS +  IEGF+EE AVEI+ RA  Y+
Sbjct: 361 STELFMEALDVEEVIGQLLSVTGFNSVEQIASSEISTLTRIEGFEEELAVEIKNRAIRYV 420

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN 476
           +  +  + KK+ ELGV +EL  I  +  ++ +   E GIKT+EDL   SV++    + N
Sbjct: 421 DLKNEQIIKKLEELGVEQELIDILELPLELILKFAEYGIKTIEDLGEMSVNEFKNLAPN 479


>gi|15604408|ref|NP_220925.1| transcription elongation factor NusA [Rickettsia prowazekii str.
           Madrid E]
 gi|20139314|sp|Q9ZCZ7|NUSA_RICPR RecName: Full=Transcription elongation protein nusA
 gi|3861102|emb|CAA15002.1| N UTILIZATION SUBSTANCE PROTEIN A (nusA) [Rickettsia prowazekii]
 gi|292572170|gb|ADE30085.1| N utilization substanceprotein A,transcription termination factor
           NusA [Rickettsia prowazekii Rp22]
          Length = 503

 Score =  488 bits (1255), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 238/479 (49%), Positives = 353/479 (73%), Gaps = 3/479 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +   +E+LQI D+VA EK I +++++S +  ++Q A R  YG   +I+ +IN +TG+I
Sbjct: 1   MSNIYNIEILQIIDSVAREKGISKEILISTVEQAVQVAGRKKYGNEYNIKAQINRKTGEI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +L R+L++VE+VE+Y  QISL+ A  ++P   IG  + + LPP+D  RV+ Q+AKQVI Q
Sbjct: 61  NLLRILKIVEDVEDYLTQISLEDALVKNPEAKIGDEIYEYLPPIDHARVSAQAAKQVITQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +V EAER++QY +FKD+ G+II+G VKR+EYG++IVDL  ++ +I++D+ I  E+ +P D
Sbjct: 121 RVIEAEREKQYHDFKDRKGDIINGIVKRIEYGDIIVDLSRAEAIIKKDQLIKGEHFKPND 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K+Y+ DVR+E +GPQ+ LSR   Q +VKLF +EVPEI   I+Q+K+V+RDPGS+AK+A
Sbjct: 181 RIKAYVQDVRQETKGPQIFLSRVDNQMLVKLFKLEVPEILEDIIQIKSVARDPGSKAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA---LRPAIVT 297
           VF+SDSSIDPVG+CVG+RG+RV+AV  EL  EKIDIV+WS D A F++N+   L P+ +T
Sbjct: 241 VFASDSSIDPVGSCVGIRGNRVKAVTNELNGEKIDIVLWSNDLAQFIVNSLIPLAPSEIT 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           K+++DED  ++EV+V +E  S+AIGRRGQNVRLAS+LTGW IDI+TEE++S  R ++F+ 
Sbjct: 301 KILIDEDSHKVEVVVSQEHQSIAIGRRGQNVRLASKLTGWNIDIMTEEQESKRRNEEFST 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
            T+ FM+A++V+E+I  LL   GF  VE++A  +IS +  IEGF+EE AVEI+ RA  Y+
Sbjct: 361 STELFMEALDVEEVIGQLLSVTGFNSVEQIASSEISTLTRIEGFEEELAVEIKNRAIHYV 420

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN 476
           +  +  + KK+ ELGV +EL  I  +  ++ +   E GIKT+EDL   SV++    + N
Sbjct: 421 DLKNEKIIKKLEELGVEQELIDILELPLELILKFAEYGIKTIEDLGEMSVNEFKNLAPN 479


>gi|239946885|ref|ZP_04698638.1| transcription elongation factor NusA [Rickettsia endosymbiont of
           Ixodes scapularis]
 gi|239921161|gb|EER21185.1| transcription elongation factor NusA [Rickettsia endosymbiont of
           Ixodes scapularis]
          Length = 503

 Score =  487 bits (1254), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 239/479 (49%), Positives = 350/479 (73%), Gaps = 3/479 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +   +E+LQI D+VA EK I +++++S +  ++Q A R  YG   +I+ +IN +TG+I
Sbjct: 1   MSNIGNVEILQIIDSVAREKGISKEILISTVEQAVQVAGRKKYGNEYNIKAQINRKTGEI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +L R+L++VE VE+Y  QISL+ A  ++P   IG  + + LPP+D  RV+ Q+AKQVI Q
Sbjct: 61  NLLRILKIVENVEDYLTQISLEEALIKNPEAKIGDEIYEYLPPIDHARVSAQAAKQVITQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +V EAER++QY +FKD+ GEII+G VKR+EYG++IVDL  ++ +I++D+ I  EN +P D
Sbjct: 121 RVIEAEREKQYHDFKDRKGEIINGIVKRIEYGDIIVDLSRAEAIIKKDQLIKGENFKPND 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K+Y+ DVR+E +GPQ+ LSR   Q +VKLF +EVPEI   I+Q+K+++RDPGS+AK+A
Sbjct: 181 RIKAYVQDVRQETKGPQIFLSRVDNQMLVKLFKLEVPEILEDIIQIKSIARDPGSKAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI---VT 297
           VF+SDSSIDPVG+CVG+RG+RV+AV  EL  EKIDIV+WS D A F++NAL P     +T
Sbjct: 241 VFASDSSIDPVGSCVGIRGNRVKAVTNELNGEKIDIVLWSNDLAQFIVNALAPLAPGEIT 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           K+++DED  ++EV+V +E  S+AIGRRGQNVRLAS+LTGW IDI+TEE++S  R ++F  
Sbjct: 301 KILIDEDRHKVEVVVSQENQSIAIGRRGQNVRLASKLTGWNIDIMTEEQESKRRNEEFLT 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
            T+ FM+A++V+E+I  LL   GF  VE++A  +IS +  IEGF+EE AVEI+ RA  Y+
Sbjct: 361 STELFMEALDVEEVIGQLLSVTGFNSVEQIASSEISTLTRIEGFEEELAVEIKNRAINYV 420

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN 476
           +  +  + KK+ +LGV +EL  I  +  ++ +   E GIKT+EDL   SV++    + N
Sbjct: 421 DLKNEKIIKKLEDLGVEQELIDILELPLELILKFAEYGIKTIEDLGEMSVNEFKNLAPN 479


>gi|67459264|ref|YP_246888.1| transcription elongation factor NusA [Rickettsia felis URRWXCal2]
 gi|67004797|gb|AAY61723.1| N utilization substance protein A, transcription termination factor
           NusA [Rickettsia felis URRWXCal2]
          Length = 503

 Score =  486 bits (1251), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 238/479 (49%), Positives = 350/479 (73%), Gaps = 3/479 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +   +E+LQI D+VA EK I +++++S +  ++Q A R  YG   +I+ +IN +TG+I
Sbjct: 1   MSNIGNVEILQIIDSVAREKGISKEILISTVEQAVQVAGRKKYGNEYNIKAQINRKTGEI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +L R+L++VE+VE+Y  QISL+ A  ++P   IG  + + LPP+D  RV+ Q+AKQVI Q
Sbjct: 61  NLLRILKIVEDVEDYLTQISLEEALIKNPEAKIGDEIYEYLPPIDHARVSAQAAKQVITQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +V EAER++QY +FKD+ GEII+G VKR+EYG++IVDL  ++ +I++D+ I  EN +P D
Sbjct: 121 RVIEAEREKQYHDFKDRKGEIINGIVKRIEYGDIIVDLSRAEAIIKKDQLIKGENFKPND 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K Y+ DVR+E +GPQ+ LSR   Q +VKLF +EVPEI   I+Q+K+V+RDPGS+AK+A
Sbjct: 181 RIKVYVQDVRQETKGPQIFLSRVDNQMLVKLFKLEVPEILEDIIQIKSVARDPGSKAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI---VT 297
           VF+SDSSIDPVG+CVG+RG+RV+A+  EL  EKIDIV+WS D A F++NAL P     +T
Sbjct: 241 VFASDSSIDPVGSCVGIRGNRVKAITNELNGEKIDIVLWSNDLAQFIVNALAPLAPGEIT 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           K+++DED  ++EV+V +E  S+AIGRRGQNVRLAS+LTGW IDI+TEE++S  R ++F  
Sbjct: 301 KILIDEDRHKVEVVVSQENQSIAIGRRGQNVRLASKLTGWNIDIMTEEQESKRRNEEFLT 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
            T+ FM+A++V+E+I  LL   GF  VE++A  ++S +  IEGF+EE AVEI+ RA  Y+
Sbjct: 361 STELFMEALDVEEVIGQLLSVTGFNSVEQIATSEVSALTRIEGFEEELAVEIKNRAINYV 420

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN 476
           +  +  + KK+ +LGV +EL  I  +  ++ +   E GIKT+EDL   SV++    + N
Sbjct: 421 DLKNEKIIKKLEDLGVEQELIDILELPLELILKFAEYGIKTIEDLGEMSVNEFKNLAPN 479


>gi|294085149|ref|YP_003551909.1| NusA antitermination factor [Candidatus Puniceispirillum marinum
           IMCC1322]
 gi|292664724|gb|ADE39825.1| NusA antitermination factor [Candidatus Puniceispirillum marinum
           IMCC1322]
          Length = 531

 Score =  479 bits (1234), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 250/450 (55%), Positives = 337/450 (74%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +EL+Q+AD VA EKSIDR+ V+  M ++IQKA R+ YG   DIR  I+ ++G I L R +
Sbjct: 9   MELIQVADVVAREKSIDREEVMLAMEEAIQKAGRAKYGLERDIRAMIDRKSGAIRLERWM 68

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           EVVEEVE+   QIS+       P++ +G      LPP++FGR+A Q+AKQVI QKVR+AE
Sbjct: 69  EVVEEVEDDETQISVDEGAKLTPAVGLGEFSKQSLPPIEFGRIAAQTAKQVISQKVRDAE 128

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R RQ+ E+KD+VGEI+ GT+KR E  ++ VDLG ++ VIRR+E I RENLR GDRV++YI
Sbjct: 129 RARQFEEYKDRVGEIVVGTIKRAESYSITVDLGRAEAVIRREEMIPRENLRQGDRVRAYI 188

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            DVR EQRGPQ+ LSR   +FM KLF  EVPEIY+GI+++K V+R+ GSRAK++V S+D 
Sbjct: 189 IDVREEQRGPQIFLSRACNEFMAKLFTQEVPEIYDGIIEIKGVAREAGSRAKISVLSNDP 248

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRGSRVQAVV EL+ EK++I+ ++ D A FV+NAL PA V KVV+DE  G
Sbjct: 249 GIDPVGACVGMRGSRVQAVVGELQGEKVEIIPFNDDPAAFVVNALAPAEVAKVVMDEVAG 308

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
           R+EV+VP +QLSLAIGRRGQNVRLASQL+GW IDI+TE E+S  RQ++F  R+  F++A+
Sbjct: 309 RMEVVVPDDQLSLAIGRRGQNVRLASQLSGWYIDILTEAEESERRQEEFRTRSTGFIEAL 368

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           N+D++IAHLLVAEGF   EE+A   I E+A+I+GFDE+ A E+Q RA +Y+E     + +
Sbjct: 369 NIDDVIAHLLVAEGFVLPEEIAESTIEELANIQGFDEDIATELQNRAVDYVERETTRINE 428

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGI 456
            + +L V+++L +   I   + ++L EN I
Sbjct: 429 ALDKLKVADDLRAFEYISLAMLLSLAENNI 458


>gi|91205427|ref|YP_537782.1| transcription elongation factor NusA [Rickettsia bellii RML369-C]
 gi|91068971|gb|ABE04693.1| N utilization substance protein A, transcription termination factor
           NusA [Rickettsia bellii RML369-C]
          Length = 500

 Score =  478 bits (1231), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 231/476 (48%), Positives = 343/476 (72%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +   +E+LQI D+VA EK I ++V++S +  ++Q A R  YG   +I+ +IN +TG+I
Sbjct: 1   MSNIGNIEILQIIDSVAREKGISKEVLISTVEQAVQVAVRKKYGNEYNIKAQINRKTGEI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +L R+L+VVE VE+Y  QIS+  A  +DP   I G + + LP +D  RVA Q+AKQVI Q
Sbjct: 61  NLLRVLKVVENVEDYLTQISITEALQKDPEAKIDGEIYEYLPSIDHARVAAQAAKQVITQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           ++ EAER++QY +FKD+ GE+I+G VKR+EYG++IVDL  ++ +I+R++ I  EN + GD
Sbjct: 121 RIIEAEREKQYHDFKDRKGEVINGVVKRIEYGDIIVDLNRAEAIIKREQQIKGENFKVGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RVK+Y+ DVR E +GPQ+ LSR   + + KLF +EV EIY G +++KAV+RDPGS+AK+A
Sbjct: 181 RVKAYVQDVRHETKGPQIFLSRADDRMLAKLFELEVTEIYEGGIEIKAVARDPGSKAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           VF+S++ IDP+G+CVG++G+RV+A+  EL  EKIDI++W+ D A F+INAL PA + K++
Sbjct: 241 VFASENGIDPIGSCVGIKGNRVRAITNELNGEKIDIILWNRDVAQFIINALAPAEILKIL 300

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED  ++EV+V +E  SLAIGRRGQNVRLA++LTGW IDI+TEE++S  R ++F   T+
Sbjct: 301 IDEDKRKVEVVVSQENQSLAIGRRGQNVRLAAKLTGWNIDIMTEEQESKRRNEEFVTSTE 360

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+A++V+E+I  LL   GF  VE++    I+ + +IEGF+EE AVEI+ RA  Y+   
Sbjct: 361 LFMEALDVEEVIGQLLSVSGFNTVEQIVNSDINALMNIEGFEEELAVEIRNRAINYVNLR 420

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN 476
           +  + K++ ELGV +EL  I  I  ++ +   E GIKT+EDL   SV++    + N
Sbjct: 421 NEKIVKELEELGVEQELIDILEIQPELILKFAEYGIKTIEDLGEMSVNEFKNLASN 476


>gi|157827030|ref|YP_001496094.1| transcription elongation factor NusA [Rickettsia bellii OSU 85-389]
 gi|157802334|gb|ABV79057.1| transcription elongation factor NusA [Rickettsia bellii OSU 85-389]
          Length = 500

 Score =  477 bits (1228), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 231/476 (48%), Positives = 343/476 (72%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +   +E+LQI D+VA EK I ++V++S +  ++Q A R  YG   +I+ +IN +TG+I
Sbjct: 1   MSNIGNIEILQIIDSVAREKGISKEVLISTVEQAVQVAGRKKYGNEYNIKAQINRKTGEI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +L R+L+VVE VE+Y  QIS+  A  +DP   I G + + LP +D  RVA Q+AKQVI Q
Sbjct: 61  NLLRVLKVVENVEDYLTQISITEALQKDPEAKIDGEIYEYLPSIDHARVAAQAAKQVITQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           ++ EAER++QY +FKD+ GE+I+G VKR+EYG++IVDL  ++ +I+R++ I  EN + GD
Sbjct: 121 RIIEAEREKQYHDFKDRKGEVINGVVKRIEYGDIIVDLNRAEAIIKREQQIKGENFKVGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RVK+Y+ DVR E +GPQ+ LSR   + + KLF +EV EIY G +++KAV+RDPGS+AK+A
Sbjct: 181 RVKAYVQDVRHETKGPQIFLSRADDRMLAKLFELEVTEIYEGGIEIKAVARDPGSKAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           VF+S++ IDP+G+CVG++G+RV+A+  EL  EKIDI++W+ D A F+INAL PA + K++
Sbjct: 241 VFASENGIDPIGSCVGIKGNRVRAITNELNGEKIDIILWNRDVAQFIINALAPAEILKIL 300

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED  ++EV+V +E  SLAIGRRGQNVRLA++LTGW IDI+TEE++S  R ++F   T+
Sbjct: 301 IDEDKRKVEVVVSQENQSLAIGRRGQNVRLAAKLTGWNIDIMTEEQESKRRNEEFVTSTE 360

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+A++V+E+I  LL   GF  VE++    I+ + +IEGF+EE AVEI+ RA  Y+   
Sbjct: 361 LFMEALDVEEVIGQLLSVSGFNTVEQIVNSDINALMNIEGFEEELAVEIRNRAINYVNLR 420

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN 476
           +  + K++ ELGV +EL  I  I  ++ +   E GIKT+EDL   SV++    + N
Sbjct: 421 NEKIVKELEELGVEQELIDILEIQPELILKFAEYGIKTIEDLGEMSVNEFKNLAPN 476


>gi|157803622|ref|YP_001492171.1| transcription elongation factor NusA [Rickettsia canadensis str.
           McKiel]
 gi|157784885|gb|ABV73386.1| transcription elongation factor NusA [Rickettsia canadensis str.
           McKiel]
          Length = 503

 Score =  475 bits (1223), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 235/473 (49%), Positives = 344/473 (72%), Gaps = 3/473 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +   +E+LQI ++VA EK I +++++S +  ++Q A R  YG   +I+ +IN +TG+I
Sbjct: 1   MSNIGNVEILQIINSVAREKGISKEILISTVEQAVQVAGRKKYGNEYNIKAQINRKTGEI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +L R+L++VE VE+Y  QIS + A  ++P+  IG  + + LPP+D  RV+ Q+AKQVI Q
Sbjct: 61  NLLRILKIVENVEDYLTQISFEEALIKNPAAKIGDEIYEYLPPIDHARVSAQAAKQVITQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +V EAER +QY +FKD+ GEII+G VKR+EYG++IVDL  ++ +I++D+ I  EN +P D
Sbjct: 121 RVIEAERAKQYHDFKDRKGEIINGIVKRIEYGDIIVDLSRAEAIIKKDQLIKGENFKPND 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K+Y+ DVR+E +GPQ+ LSR   Q +V LF +EVPEI+  I+Q+K+V+RDPGS+AK+A
Sbjct: 181 RIKAYVQDVRQETKGPQIFLSRVDNQMLVNLFKLEVPEIFEDIIQIKSVARDPGSKAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVIN---ALRPAIVT 297
           VF+SDSSIDPVG+CVG+RG+RV+AV  EL  EKIDIV+WS D A F++N    L  A +T
Sbjct: 241 VFASDSSIDPVGSCVGIRGNRVKAVTNELNGEKIDIVLWSNDLAQFIVNALAPLAAAAIT 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           K+++DED  ++EV+V +E  S+AIGRRGQNVRLAS+LTGW IDI+TEE++S  R ++F  
Sbjct: 301 KILIDEDSHKVEVVVSQENQSIAIGRRGQNVRLASKLTGWNIDIMTEEQESKRRNEEFLT 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
            T  FM+A++V+E+I  LL   GF  VE++A  +IS +  IEGF+EE AVEI+ RA  Y+
Sbjct: 361 STGLFMEALDVEEVIGQLLSVTGFNSVEQIANSEISTLTRIEGFEEELAVEIKNRAINYV 420

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
              +  + KK+ ELGV +E+  I  +  ++ +   E GIKT+EDL   SV++ 
Sbjct: 421 NLKNEKIIKKLEELGVEQEVIDILELPLELILKFAEYGIKTIEDLGEMSVNEF 473


>gi|254456337|ref|ZP_05069766.1| transcription termination factor [Candidatus Pelagibacter sp.
           HTCC7211]
 gi|207083339|gb|EDZ60765.1| transcription termination factor [Candidatus Pelagibacter sp.
           HTCC7211]
          Length = 517

 Score =  474 bits (1220), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 243/506 (48%), Positives = 352/506 (69%), Gaps = 3/506 (0%)

Query: 4   ANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLF 63
           A++LELL+IA+AVA EKSID+++++S M   I KAA+S +G  ++I+V I+ ++GDI +F
Sbjct: 6   ADKLELLRIAEAVALEKSIDKELIISSMETGIAKAAKSKFGQDNEIKVSIDRDSGDIEIF 65

Query: 64  RLLEVVEEVENYTCQISLK---VARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           R L V E  EN   +I L+   +  + +    +G  V  PLP  DFGR+A Q+AKQVI  
Sbjct: 66  RKLIVAENPENSNTEIKLEDAIILNEINKDKAVGDEVLQPLPSFDFGRIAAQTAKQVISF 125

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
            VREAER+RQY +F DK   I+SG VKR+E+GNVI DLG ++ +I+++E I REN++ GD
Sbjct: 126 NVREAERERQYNDFIDKKDTILSGIVKRLEFGNVIADLGRTEAIIQKNEMIPRENIKAGD 185

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K+Y YDVRRE RG Q+ LSR HP+FM KLF  EVPEIY+G++++K+ SRDPGSRAK+ 
Sbjct: 186 RIKAYCYDVRREPRGQQIFLSRAHPKFMEKLFVQEVPEIYDGLIEIKSSSRDPGSRAKIC 245

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V + D+S+DPVGACVGMRGSRVQAVV EL+ EKIDIV WS D A  V NAL PA V +V 
Sbjct: 246 VKAVDTSLDPVGACVGMRGSRVQAVVNELQGEKIDIVNWSEDPAILVSNALSPAEVQRVN 305

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +D +  +++VI+ +E LS AIGRRGQNVRLA++L  + I+I+T+ EDS  RQ +F E+T+
Sbjct: 306 VDIERKKLDVILTEENLSKAIGRRGQNVRLATKLLNYEINIMTDAEDSERRQVEFKEKTE 365

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F++ + +DE +  LLVAEGF+ ++++       +  IEG +E+TA+ +  RA+E+ +  
Sbjct: 366 NFVKNLELDETLGQLLVAEGFSSIDDIKDTTAENLMKIEGIEEDTAIALIERAKEFHQKD 425

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
              + ++I+ELG+ + L ++ G+   + V LGE  I T+ED A  + D+L G  +   G 
Sbjct: 426 QEDISERIKELGLQDSLINLKGLTPGMLVTLGEQKILTLEDFADLASDELTGGYDVVKGE 485

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHAR 506
             K  G+L      K++ + +I+ AR
Sbjct: 486 RVKIQGYLEDFALSKEEADELIMSAR 511


>gi|117927003|ref|YP_867620.1| NusA antitermination factor [Magnetococcus sp. MC-1]
 gi|117610759|gb|ABK46214.1| NusA antitermination factor [Magnetococcus sp. MC-1]
          Length = 506

 Score =  466 bits (1198), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 250/516 (48%), Positives = 357/516 (69%), Gaps = 21/516 (4%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +E+LQ+AD VA EK IDR VV+  M  +IQ A+R  YG   +I+   +P++G+  L +L 
Sbjct: 3   VEILQVADQVAREKGIDRKVVIEAMESAIQTASRKKYGANKNIQARFDPKSGEFQLNQLR 62

Query: 67  EVV-----EEVE-NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           EVV     E+++ +    ISL+ A   +P    G  +++ LPPM+FGR+A Q+AKQVI+Q
Sbjct: 63  EVVDLDQDEDLDFDEDIHISLEKALTMNPEAVPGDFIAEQLPPMEFGRIAAQTAKQVIVQ 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVR+AER+R + E+ D+ GE+++G VKRVE  N+ VDLG + G +  +E + RE+ RPGD
Sbjct: 123 KVRDAERERIFEEYADRQGEMVNGLVKRVERNNIHVDLGRTSGFLPHEEQLPREHYRPGD 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R++++I +VR   RGPQ++LSRTHPQ +V+LF MEVPEIY+GIV++KAV+RDPG R+K+A
Sbjct: 183 RIRAFIKEVREVTRGPQIILSRTHPQMVVRLFEMEVPEIYDGIVEIKAVARDPGHRSKIA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D+ +DPVGACVGMRGSRVQ+VVTEL+ E+IDI+ WS D A FV NAL PA V KVV
Sbjct: 243 VRSNDAHVDPVGACVGMRGSRVQSVVTELQGERIDIIEWSHDPAVFVCNALAPAEVVKVV 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DE+   I+V+V +  LSLAIGRRGQNVRLAS+LTGW IDIITE+E+   R++ F E  Q
Sbjct: 303 VDEEDRNIKVVVDETALSLAIGRRGQNVRLASELTGWRIDIITEQEERNLREEMFGELQQ 362

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+ +++ E +A +LV EGF   EE+A V ++E+ SIEGFDEE A E++ RAR+ L   
Sbjct: 363 TFMKDLDLGEEVAAVLVNEGFTSAEEVAYVPLNELTSIEGFDEEIAQELRNRARDTLLQQ 422

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  +++  EL + E L  +  +     +AL E  + T++DLA  + D+L          
Sbjct: 423 ALQTEERKAELHIDERLAQLGLLTDDALIALAEKNVNTLDDLADLATDEL---------- 472

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
           +E FDG L++     +  E++I+ AR   GW + E+
Sbjct: 473 VEMFDGELTT-----EDAETLILGARRAAGWFDDEE 503


>gi|71083093|ref|YP_265812.1| transcription termination factor [Candidatus Pelagibacter ubique
           HTCC1062]
 gi|71062206|gb|AAZ21209.1| transcription termination factor [Candidatus Pelagibacter ubique
           HTCC1062]
          Length = 517

 Score =  463 bits (1192), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 241/506 (47%), Positives = 350/506 (69%), Gaps = 3/506 (0%)

Query: 4   ANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLF 63
           +++LELL+IA+AVA EKSID+++++  M   I KAA+S +G  ++I+V I+ E+GDI +F
Sbjct: 6   SDKLELLRIAEAVALEKSIDKELIIDSMETGIAKAAKSKFGQDNEIKVLIDRESGDIGIF 65

Query: 64  RLLEVVEEVENYTCQISLK---VARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           R L VVE+ EN   +I+L+   +  + +    IG  +  PLP  DFGR+A Q+AKQVI  
Sbjct: 66  RKLIVVEKPENTNTEINLQDAIILNEANKDKKIGDEILQPLPSFDFGRIAAQTAKQVISF 125

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
            VREAER+RQY +F DK   I+SG VKR+E+GNVIVDLG ++ +I+++E I REN++ GD
Sbjct: 126 NVREAERERQYNDFIDKKDSILSGIVKRLEFGNVIVDLGRTEAIIQKNEMIPRENIKAGD 185

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RVK+Y YDV+RE RG Q+ LSR HP+FM KLF  EVPEIY+G++++K+ +RDPGSRAK+ 
Sbjct: 186 RVKAYCYDVKREARGQQIFLSRAHPKFMEKLFVQEVPEIYDGLIEIKSSARDPGSRAKIC 245

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V + D+S+DPVGACVGMRGSRVQAVV EL+ EKIDIV WS D A  V NAL PA V +V 
Sbjct: 246 VKAVDTSLDPVGACVGMRGSRVQAVVNELQGEKIDIVNWSEDPAIVVSNALSPAEVQRVN 305

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +D    +++VI+ +E LS AIGRRGQNVRLA++L  + I+I+T+ EDS  RQ +F E+T+
Sbjct: 306 VDSVAKKLDVILTEENLSKAIGRRGQNVRLATKLLNYEINIMTDAEDSERRQSEFKEKTE 365

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F++ + +DE +  LLVAEGF+ + ++       +  IEG +E+TA  +  RA+E+ +  
Sbjct: 366 NFVKNLELDETLGQLLVAEGFSSISDIKDSSPENLMKIEGIEEDTAKALIERAKEFYQKD 425

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
              + ++I++LG+ ++L +  G+   + V LGE  I  +ED A  + D+L G  +   G 
Sbjct: 426 QEDITQRIKDLGLQDDLINHKGLTPGMLVTLGEQKILKLEDFADLASDELTGGYDVVKGE 485

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHAR 506
             K  G+L      K + + +I+ AR
Sbjct: 486 RIKIQGYLEDFALSKTEADELIMSAR 511


>gi|91762480|ref|ZP_01264445.1| transcription termination factor [Candidatus Pelagibacter ubique
           HTCC1002]
 gi|91718282|gb|EAS84932.1| transcription termination factor [Candidatus Pelagibacter ubique
           HTCC1002]
          Length = 530

 Score =  462 bits (1189), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 241/506 (47%), Positives = 350/506 (69%), Gaps = 3/506 (0%)

Query: 4   ANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLF 63
           +++LELL+IA+AVA EKSID+++++  M   I KAA+S +G  ++I+V I+ E+GDI +F
Sbjct: 19  SDKLELLRIAEAVALEKSIDKELIIDSMETGIAKAAKSKFGQDNEIKVLIDRESGDIGIF 78

Query: 64  RLLEVVEEVENYTCQISLK---VARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           R L VVE+ EN   +I+L+   +  + +    IG  +  PLP  DFGR+A Q+AKQVI  
Sbjct: 79  RKLIVVEKPENTNTEINLQDAIILNEVNKDKKIGDEILQPLPSFDFGRIAAQTAKQVISF 138

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
            VREAER+RQY +F DK   I+SG VKR+E+GNVIVDLG ++ +I+++E I REN++ GD
Sbjct: 139 NVREAERERQYNDFIDKKDSILSGIVKRLEFGNVIVDLGRTEAIIQKNEMIPRENIKAGD 198

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RVK+Y YDV+RE RG Q+ LSR HP+FM KLF  EVPEIY+G++++K+ +RDPGSRAK+ 
Sbjct: 199 RVKAYCYDVKREARGQQIFLSRAHPKFMEKLFVQEVPEIYDGLIEIKSSARDPGSRAKIC 258

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V + D+S+DPVGACVGMRGSRVQAVV EL+ EKIDIV WS D A  V NAL PA V +V 
Sbjct: 259 VKAVDTSLDPVGACVGMRGSRVQAVVNELQGEKIDIVNWSEDPAIVVSNALSPAEVQRVN 318

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +D    +++VI+ +E LS AIGRRGQNVRLA++L  + I+I+T+ EDS  RQ +F E+T+
Sbjct: 319 VDSVAKKLDVILTEENLSKAIGRRGQNVRLATKLLNYEINIMTDAEDSERRQSEFKEKTE 378

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F++ + +DE +  LLVAEGF+ + ++       +  IEG +E+TA  +  RA+E+ +  
Sbjct: 379 NFVKNLELDETLGQLLVAEGFSSISDIKDSSPENLMKIEGIEEDTAKALIERAKEFYQKD 438

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
              + ++I++LG+ ++L +  G+   + V LGE  I  +ED A  + D+L G  +   G 
Sbjct: 439 QEDITQRIKDLGLQDDLINHKGLTPGMLVTLGEQKILKLEDFADLASDELTGGYDVVKGE 498

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHAR 506
             K  G+L      K + + +I+ AR
Sbjct: 499 RIKIQGYLEDFALSKTEADELIMSAR 524


>gi|255019834|ref|ZP_05291910.1| Transcription termination protein NusA [Acidithiobacillus caldus
           ATCC 51756]
 gi|254970763|gb|EET28249.1| Transcription termination protein NusA [Acidithiobacillus caldus
           ATCC 51756]
          Length = 493

 Score =  441 bits (1133), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 227/466 (48%), Positives = 326/466 (69%), Gaps = 3/466 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL +ADAVA+EK +DR+V+   +  S+  A++  YG   DI V ++ +TGD +  R   
Sbjct: 4   ELLYLADAVAHEKEVDREVIFQALEASLVSASKKKYGPNWDIVVTVDRKTGDYTTRRRWT 63

Query: 68  VV-EEVENYTC--QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV ++ E++    QI L  AR RD  I +G V+ + LP ++FGR+A Q+AKQVI+Q+VR+
Sbjct: 64  VVADDAEDFEAEAQIRLSDARARDQGIAVGDVIEEELPDVEFGRIAAQTAKQVIVQRVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AERDR   +F  + GEIISG VKR+E GN I+D+G ++ ++ ++E I RE +RPGDR+K 
Sbjct: 124 AERDRIVADFAMRQGEIISGVVKRMEKGNAIIDMGRAEAILPKEEMIPREAIRPGDRIKV 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           ++ +VRR  RGPQ+ LSRT P+ ++KLF  EVPEI NG++++   +RDPG RAKLAV S+
Sbjct: 184 HLKEVRRVPRGPQLFLSRTSPELLMKLFAQEVPEIANGMIEIMGAARDPGLRAKLAVRSN 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           +  +DPVGACVGMRG+RVQ V+ EL+ E++DIVVWSP+ A+FVINAL PA V+ +++DE+
Sbjct: 244 EPRVDPVGACVGMRGNRVQTVINELKGERVDIVVWSPEPASFVINALSPAEVSSIIVDEN 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V  EQLSLAIGR GQNVRLASQLTGWTI+I+TE+E    R+++     Q FM 
Sbjct: 304 THSMDVVVDPEQLSLAIGRGGQNVRLASQLTGWTINILTEDEARAKREEEDARFRQQFMD 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + +DE +A LLV EGF  +EE+A V ++E+  IEG DEE   E++ RAR+ L    I  
Sbjct: 364 DLGIDEDLATLLVNEGFTSIEEVAYVPVAEMLEIEGLDEELVTELRRRARDVLLNKAIAR 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           ++++     +E+L ++ G+D  +   L   GI T E LA  +VD+L
Sbjct: 424 EEQVVLSEPAEDLLALEGMDKGLAHLLASKGITTAESLAELAVDEL 469


>gi|189183523|ref|YP_001937308.1| transcription elongation factor NusA [Orientia tsutsugamushi str.
           Ikeda]
 gi|189180294|dbj|BAG40074.1| N utilization substance protein A [Orientia tsutsugamushi str.
           Ikeda]
          Length = 500

 Score =  424 bits (1091), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 214/485 (44%), Positives = 321/485 (66%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           MV+    E+L++ + +A +K I +D ++S++ + IQ  ++ +YG   +I+VEIN ++G+ 
Sbjct: 1   MVNPINAEVLRVVNYIARDKDISQDALISIVEEMIQLISKKIYGAEHNIKVEINKKSGEC 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            L+R+L+VVEE E+   QISL  A   + +I +G  + + LPP++ GRV+ Q+A+  I Q
Sbjct: 61  KLYRVLDVVEETEDMYSQISLNDALQLNANIKVGEQIFETLPPINLGRVSAQTARHFIAQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           K+ E ER +QYLE KD+VGEII+  V R++ GN+I + G  + +I RD+ I  E  +  D
Sbjct: 121 KIAEIERRKQYLEVKDRVGEIITVIVSRIDAGNIIGEFGGVEVIIPRDQLIKSEAYKKND 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RVK+Y+  V  E +GP + LSRT  Q +VKL  MEVPEIY G + +KAV+RDPGSRAK+A
Sbjct: 181 RVKAYVQRVNEELKGPLMFLSRTDNQMLVKLLEMEVPEIYEGTIIIKAVARDPGSRAKVA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           VFS DSSID VG+C+GMRG+R++ +  EL  E+I+++ WS D A F INA+ P  +TKV+
Sbjct: 241 VFSPDSSIDAVGSCIGMRGNRIKNISHELAGERINVIKWSQDIAGFAINAMSPVQITKVI 300

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DE    IE+IV   QLS+AIGRRGQNVRL S+L GW IDIITEE++S  R  +F   T 
Sbjct: 301 IDESRRLIELIVSANQLSIAIGRRGQNVRLVSKLLGWNIDIITEEQESSRRTDEFTSATD 360

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F + + +DE++A LLVAEGF  +E++A   ++ + SI+  + E  +E+Q +A +Y+   
Sbjct: 361 LFTKNLGIDEMLAQLLVAEGFISIEQIAHADLNALTSIDKLNSELVLELQQKAIDYVNNQ 420

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +  +  K+ ELGV +EL     I  +  + L ENGIK +EDL   +  +     +N   +
Sbjct: 421 NKLILTKLEELGVEQELLETLEIPLESFITLAENGIKNLEDLEELTFSEFNTLVQNNCLS 480

Query: 481 IEKFD 485
            E+F+
Sbjct: 481 EEEFN 485


>gi|198282694|ref|YP_002219015.1| NusA antitermination factor [Acidithiobacillus ferrooxidans ATCC
           53993]
 gi|218667138|ref|YP_002424886.1| transcription termination factor NusA [Acidithiobacillus
           ferrooxidans ATCC 23270]
 gi|198247215|gb|ACH82808.1| NusA antitermination factor [Acidithiobacillus ferrooxidans ATCC
           53993]
 gi|218519351|gb|ACK79937.1| transcription termination factor NusA [Acidithiobacillus
           ferrooxidans ATCC 23270]
          Length = 493

 Score =  424 bits (1089), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 220/466 (47%), Positives = 320/466 (68%), Gaps = 3/466 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL +ADAVA+EK +DR+V+   +  S+  A++  YG    I V+++ +TGD    RL E
Sbjct: 4   ELLYLADAVAHEKDVDREVIFLALEASLVSASKKKYGQDWHIAVDVDRKTGDYVTRRLWE 63

Query: 68  VVEEVENYTC---QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +         QI L  AR   P  + G  + + LPP++FGR+A Q+AKQVI+QKVR+
Sbjct: 64  VVADDVADYDVDQQIRLSDARKTRPEAEPGDYLEEVLPPVEFGRIAAQTAKQVIVQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AERDR   +F  + G+I+SG VKR+E GN IVD+G ++ ++ ++E + RE +RPGDRV++
Sbjct: 124 AERDRIVSDFAIRKGDIVSGLVKRMEKGNAIVDMGRAEAILPKEEMMPREAIRPGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           ++ DVRR QRGPQ+ LSRT P+ ++KLF  EVPEI NG++++   +RDPG RAKLAV S+
Sbjct: 184 HLQDVRRVQRGPQLFLSRTSPELLIKLFAQEVPEIGNGMIEIMGAARDPGLRAKLAVRSN 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  +DPVGACVG+RG+RVQ V+ EL+ E+IDIV+W+ D A++VINAL PA V+ +V+DE+
Sbjct: 244 DPRVDPVGACVGLRGNRVQTVINELKGERIDIVIWAADPASYVINALSPAEVSSIVVDEN 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V  E LS AIGR GQNVRLA+QLTGWTI+I+TEEE    R+++ +     F+Q
Sbjct: 304 THSMDVVVGPEHLSQAIGRGGQNVRLATQLTGWTINILTEEEAQAKREEEESTFLNHFIQ 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + VDE +A LLV+EGF  +EE+A V ++E+  I+G DE    E++ RAR+ L    I  
Sbjct: 364 DLGVDEDLAALLVSEGFTSIEEVAYVPVAEMMEIDGLDENLVGELRRRARDVLLNKAIAQ 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           ++++     +E+L S+ G+D  +   L   G+ T EDLA  +  +L
Sbjct: 424 EEQVALSEPAEDLLSLKGMDKGLAHLLASKGVVTSEDLAELAASEL 469


>gi|218509055|ref|ZP_03506933.1| transcription elongation factor NusA [Rhizobium etli Brasil 5]
          Length = 266

 Score =  421 bits (1082), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 201/264 (76%), Positives = 238/264 (90%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK IDR++VL+ MAD+IQKAARS YGT S+IR +INP+TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKVIDREIVLAAMADAIQKAARSRYGTESNIRADINPKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVV++ E+Y+ QI L++ARDR+P   +G  ++DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVDKAEDYSTQIPLELARDRNPDAALGDFIADPLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQ+ EFKD+VGEI++GTVKRVEYGNVIVDLG  +G+IRRDE I REN+R GDR
Sbjct: 123 VREAERDRQFDEFKDRVGEIVNGTVKRVEYGNVIVDLGRGEGIIRRDEMIPRENVRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+QVK+V+RDPGSRAK+AV
Sbjct: 183 VRAYVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIQVKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAV 265
            S+DSSIDPVGACVGMRGSRVQAV
Sbjct: 243 ISNDSSIDPVGACVGMRGSRVQAV 266


>gi|121998529|ref|YP_001003316.1| transcription elongation factor NusA [Halorhodospira halophila SL1]
 gi|121589934|gb|ABM62514.1| NusA antitermination factor [Halorhodospira halophila SL1]
          Length = 501

 Score =  420 bits (1080), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 219/481 (45%), Positives = 329/481 (68%), Gaps = 9/481 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +A + EK +DR+V+   +  ++  A R  +    D RV ++ ++GD + +R  E
Sbjct: 4   EILLVVEATSNEKGVDREVIFEAIEAALASATRKRHLEDIDARVAVDRQSGDYATYRRWE 63

Query: 68  VV---EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV   E VE    QISL+ AR+RD + ++GG V +P+  +DFGR+A Q+AKQVI+QKVRE
Sbjct: 64  VVPDEESVEEPQRQISLERARERDENAEVGGYVEEPIESVDFGRIAAQTAKQVIVQKVRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVK 183
           AER +    ++ ++GE+++G+VKR+E G+ I+DLG N++ ++ R++ I RE +RP DR++
Sbjct: 124 AERAQIVDAYQHRIGELVNGSVKRMERGSAIIDLGENTEALVSREDLIPREAVRPNDRIR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            Y+ DVR E RGPQ+ +SRT  +F+V+LF +EVPE+  G++++   +RDPG RAK++V +
Sbjct: 184 GYLRDVRSEPRGPQLFVSRTANEFLVELFKIEVPEVGQGLIEILGAARDPGMRAKISVRA 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D  IDPVGACVGMRGSRVQAV  EL  E+IDI+ W  + A FVINAL PA V  +V+DE
Sbjct: 244 LDPRIDPVGACVGMRGSRVQAVSNELSGERIDIIPWDENPAQFVINALAPAEVESIVVDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D G ++V V +EQLS AIGR GQNVRLAS+LTGW ++++T EE     +++  E  Q F+
Sbjct: 304 DRGAMDVAVAEEQLSQAIGRGGQNVRLASELTGWELNVMTAEEAEAKSEREAGELVQLFV 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
           + ++VDE +A +LV EGF+ +EE+A V  +E+  IE FDE+    ++ RAR+ L  +   
Sbjct: 364 EHLDVDEDVAGVLVQEGFSSIEEVAYVPTAELLEIEEFDEDIVEALRSRARDVL--LAQA 421

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGN 480
           + ++  E   SEEL ++ G+D +   AL E G+ T+EDLA  SVDDL+   G  E++ G 
Sbjct: 422 IAEEANENQPSEELLALEGMDEQTAKALAERGVATVEDLADQSVDDLMEVEGMDEDRAGQ 481

Query: 481 I 481
           +
Sbjct: 482 L 482


>gi|88657698|ref|YP_507374.1| transcription elongation factor NusA [Ehrlichia chaffeensis str.
           Arkansas]
 gi|88599155|gb|ABD44624.1| N utilization substance protein A [Ehrlichia chaffeensis str.
           Arkansas]
          Length = 517

 Score =  420 bits (1080), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 214/526 (40%), Positives = 344/526 (65%), Gaps = 34/526 (6%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           + LEL+++A  +A +K ++ DV++  + ++IQ  +RS YG    I+V ++ +TG ++ +R
Sbjct: 8   DNLELIRVAKDIADQKGLNLDVIIRAIEEAIQLTSRSRYGNCK-IKVTVDKKTGVVATYR 66

Query: 65  LLEVVE------------------EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDF 106
            + V+                   +V  Y   I+L  A+  D ++++G ++ +PLP +D 
Sbjct: 67  QVLVINNNGDISVPEGKENEIDFSDVSKYKL-ITLAEAKQIDKNVEVGDIMLEPLPVIDL 125

Query: 107 GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIR 166
              + + AKQ I Q +   ER +QY +FKD+VG+I+ GT KR+EY NVIVDL  ++G + 
Sbjct: 126 DYSSAKIAKQKIAQVIISEERKKQYEDFKDRVGDIVYGTAKRIEYNNVIVDLNGNEGYLS 185

Query: 167 RDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
               I  E  R GDRVK++I DVR+E  GPQ+ LSR +  FM +LF  E+PEIY+GIV +
Sbjct: 186 ASNLIKGEVFRVGDRVKAHIEDVRKENSGPQIFLSRINKGFMEQLFKQEIPEIYDGIVTI 245

Query: 227 KAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATF 286
           KA++RDPGSR+K+AVFSSD +IDPVGACVG RG R+Q +++EL  EKID++++SP+ A F
Sbjct: 246 KAIARDPGSRSKVAVFSSDKNIDPVGACVGARGVRIQGIISELHGEKIDVILYSPELAKF 305

Query: 287 VINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           ++NA+ PA V KV++DED  ++E+I+P+ QLSLAIGR GQN+RLAS+L GW I++I +E 
Sbjct: 306 IVNAIAPAEVLKVIIDEDKEKVELIIPENQLSLAIGRYGQNIRLASELVGWKINVIGDET 365

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
           +S  + K+ +  ++ F++ ++V+EII  LL  EGF  +E++    +S+I++I+GF+EE A
Sbjct: 366 ESSRKAKELSAGSKIFVEGLDVEEIIGQLLFTEGFVSIEDIDQASVSDISAIDGFNEEIA 425

Query: 407 VEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
            E++ RA +YL   D  +++ +  L V +++  +P +     +AL +NGI ++ED+AG  
Sbjct: 426 EELKSRAADYLVRKDAEMKQILDNLSVDKDVTMLPFLRPSDIIALSKNGINSLEDIAGLC 485

Query: 467 VDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
            D+              FD  +  +   KDQV+S+I+ +R K+GW+
Sbjct: 486 TDEF-------------FD-IIPDIALTKDQVDSVILESRKKIGWL 517


>gi|148284846|ref|YP_001248936.1| transcription elongation factor NusA [Orientia tsutsugamushi str.
           Boryong]
 gi|146740285|emb|CAM80660.1| N utilization substance protein A, transcription termination factor
           [Orientia tsutsugamushi str. Boryong]
          Length = 500

 Score =  417 bits (1071), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 210/485 (43%), Positives = 318/485 (65%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           MV+    E+L++ + +A +K I +D ++S++ + IQ  ++  YG   +I+VEIN ++G+ 
Sbjct: 1   MVNPINAEVLRVVNYIARDKDISQDALISIVEEMIQLISKKKYGAEHNIKVEINKKSGEC 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            L+R+L+VVEE E+   QISL  A   + +I +G  + + LPP++ GRV+ Q+A+  I Q
Sbjct: 61  KLYRVLDVVEETEDMCSQISLNDALQLNANIKVGEQIFETLPPINLGRVSAQTARYFIAQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           K+ E ER +QYLE KD+VGEII+  V R++ GN+I + G  + +I RD+ I  E  +  D
Sbjct: 121 KIAEIERRKQYLEVKDRVGEIITVIVSRIDAGNIIGEFGGVEVIIPRDQLIKSEAYKKND 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K+Y+  V  E +GP + LSRT  Q +VKL  MEVPEIY G + +KAV+RDPGSRAK+A
Sbjct: 181 RIKAYVQRVNEELKGPLMFLSRTDNQMLVKLLEMEVPEIYEGTISIKAVARDPGSRAKVA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           VFS DSSID VG+C+GMRG+R++ +  EL  E+I+++ W+ D A F INA+ P  +TKV+
Sbjct: 241 VFSPDSSIDAVGSCIGMRGNRIKNISNELSGERINVIKWNQDIAGFAINAMSPVQITKVI 300

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DE    IE+IV   QLS++IGRRGQNVRL S+L GW IDIITEE++S  R  +F   T 
Sbjct: 301 IDESRHLIELIVSANQLSISIGRRGQNVRLVSKLLGWNIDIITEEQESSRRTDEFTSATD 360

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F + + +DE++A LLVAEG   +E++A   ++ + SI+  + E  +E+Q +A +Y+   
Sbjct: 361 LFTKNLGIDEMLAQLLVAEGLISIEQIAHADLNVLTSIDRLNSELVLELQQKAIDYVNNQ 420

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +  +  K+ ELGV +EL     I  +  + L ENGIK +EDL   +  +      N   +
Sbjct: 421 NKLILTKLEELGVEQELLETLEIPLESFITLAENGIKNLEDLEELTFSEFNTLVPNNCLS 480

Query: 481 IEKFD 485
            E+F+
Sbjct: 481 EEEFN 485


>gi|114321098|ref|YP_742781.1| transcription elongation factor NusA [Alkalilimnicola ehrlichii
           MLHE-1]
 gi|114227492|gb|ABI57291.1| NusA antitermination factor [Alkalilimnicola ehrlichii MLHE-1]
          Length = 498

 Score =  416 bits (1070), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 220/481 (45%), Positives = 325/481 (67%), Gaps = 9/481 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +A + EK +DR+V+   +  ++  A R  +    D RVE+N  TGD S FR   
Sbjct: 4   EILLVVEATSNEKGVDREVIFEAIEAALASATRKRHPEDIDARVEVNRNTGDYSTFRRWW 63

Query: 68  VVE---EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VVE   +VE+   QI+L+ AR R P I++G  + +P+  ++FGR+A Q+AKQVI+QKVRE
Sbjct: 64  VVESDEDVESPARQITLEEARQRQPDIEVGECLEEPMESVEFGRIAAQTAKQVIVQKVRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVK 183
           AER +    F+D++GE+++GTVKR+E G+VI+DLG N++ +I R+  I RE +R  DR++
Sbjct: 124 AERAKVVEAFQDRIGELVTGTVKRLERGSVIMDLGGNAEALIPREAMIPREAVRREDRLR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            Y+ DVR E RGPQ+ +SRT P+F+V+LF +EVPE+   ++++   +RDPG RAK+AV +
Sbjct: 184 GYLKDVRPEPRGPQLFVSRTAPEFLVELFKLEVPEVGQELIEIMGAARDPGVRAKIAVRA 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D  IDPVGACVGMRGSRVQAV  EL  E+IDI++W  + A FVINAL PA V  +V+DE
Sbjct: 244 LDPRIDPVGACVGMRGSRVQAVSNELAGERIDIILWDDNPAQFVINALAPAEVESIVVDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   +++ V +EQLS AIGR GQNVRLAS+LTGW ++++T EE     Q++  +  Q F 
Sbjct: 304 DRHSMDIAVAEEQLSQAIGRGGQNVRLASELTGWELNVMTAEEAEAKNQEEAAQYQQLFQ 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
           + ++VDE IA +LV EGF+ +EE+A V  +E+  +E FDE+   E++ RAR+ L  +   
Sbjct: 364 EKLDVDEEIAAILVQEGFSSLEEVAYVPAAELLEVEEFDEDIVDELRARARDVL--VSEA 421

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGN 480
            +++      +E+L ++ G+D  +  AL   G+ TMEDLA  SVD+L+   G  E + G 
Sbjct: 422 EERESAGTEPAEDLLTMEGMDEDLARALAARGVCTMEDLAEQSVDELMEIEGMDETRAGQ 481

Query: 481 I 481
           +
Sbjct: 482 L 482


>gi|57239198|ref|YP_180334.1| transcription elongation factor NusA [Ehrlichia ruminantium str.
           Welgevonden]
 gi|58579156|ref|YP_197368.1| transcription elongation factor NusA [Ehrlichia ruminantium str.
           Welgevonden]
 gi|58617209|ref|YP_196408.1| transcription elongation factor NusA [Ehrlichia ruminantium str.
           Gardel]
 gi|57161277|emb|CAH58198.1| putative N utilization substance protein A [Ehrlichia ruminantium
           str. Welgevonden]
 gi|58416821|emb|CAI27934.1| Transcription elongation protein nusA [Ehrlichia ruminantium str.
           Gardel]
 gi|58417782|emb|CAI26986.1| Transcription elongation protein nusA [Ehrlichia ruminantium str.
           Welgevonden]
          Length = 517

 Score =  416 bits (1069), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 212/526 (40%), Positives = 338/526 (64%), Gaps = 34/526 (6%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           + LEL+++A  +A +K ++ DV++  + ++IQ  +RS YG    I+V ++ +TG IS +R
Sbjct: 8   DNLELIRVAKDIADQKGLNLDVIIRAIEEAIQLTSRSRYGNCK-IKVTVDKKTGLISTYR 66

Query: 65  LLEVVEE------------------VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDF 106
            + V+ +                  V  Y   I+L  A+  D +  +G ++ +PLP +D 
Sbjct: 67  QVLVISDNGEVVIPEGKENEIDHADVNKYKL-ITLTEAKQIDENAKLGDIMLEPLPVIDL 125

Query: 107 GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIR 166
              + + AKQ I Q +   ER +QY  FKD++G+I+ GT KR+EY NVIVDL  ++G + 
Sbjct: 126 DYSSAKIAKQKIAQVIVSEERKKQYESFKDRIGDIVYGTAKRIEYNNVIVDLNGNEGYLS 185

Query: 167 RDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
               I  E  R GDRVK++I DVR+E  GPQ+ LSR +  FM +LF  E+PEIY+GIV +
Sbjct: 186 ASNLIKGEVFRVGDRVKAHIEDVRKENSGPQIFLSRVNKGFMEQLFKQEIPEIYDGIVTI 245

Query: 227 KAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATF 286
           KA++RDPGSR+K+AVFSSD +IDPVGACVG RG R+Q+++ EL  EKID+V++SP+   F
Sbjct: 246 KAIARDPGSRSKVAVFSSDKNIDPVGACVGARGVRIQSIIAELHGEKIDVVLYSPELPKF 305

Query: 287 VINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           ++NA+ PA V KV++DED  ++E+I+P+ QLSLAIGR GQN+RLAS+L  W ID+I +E 
Sbjct: 306 IVNAIAPAEVLKVIIDEDKEKVELIIPENQLSLAIGRYGQNIRLASELVNWKIDVIGDET 365

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
           +S  + K+    ++ F++ ++V+EII  LL  EGF  +E++    +S+I++I+GF+EE A
Sbjct: 366 ESTRKAKELTVGSRIFVEGLDVEEIIGQLLFTEGFVSIEDIDQASVSDISAIDGFNEEIA 425

Query: 407 VEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
           +E++ RA +YL   D  +++ +  L + +++  +P +     +AL E+GI  +ED+AG  
Sbjct: 426 IELKNRASDYLTRKDAEIKQILESLPIDKDVAVLPFLKPSDIIALSESGINNLEDIAGLC 485

Query: 467 VDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
            D+              F   + ++   KDQ++S+I+ +R K+GW+
Sbjct: 486 TDE--------------FYEIVPNVALTKDQIDSIILESRRKIGWL 517


>gi|73667087|ref|YP_303103.1| transcription elongation factor NusA [Ehrlichia canis str. Jake]
 gi|72394228|gb|AAZ68505.1| Transcription termination factor NusA C-terminal duplication
           [Ehrlichia canis str. Jake]
          Length = 517

 Score =  415 bits (1067), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 216/525 (41%), Positives = 346/525 (65%), Gaps = 32/525 (6%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           + LEL+++A  +A +K ++ D+++  + ++IQ  +RS YG    I+V ++ +TG +S +R
Sbjct: 8   DNLELIRVAKDIADQKGLNLDIIIRAIEEAIQLTSRSKYGNCK-IKVTVDRKTGVVSTYR 66

Query: 65  LLEVVEE------VENYTCQI-----------SLKVARDRDPSIDIGGVVSDPLPPMDFG 107
            + V+ +       EN   +I           +L  A+  D + ++G ++ + LP +D  
Sbjct: 67  QVLVINDNGEIVIPENKKSEIDSSDISKYKLITLTEAKQIDENAEVGDIMLEHLPVIDLD 126

Query: 108 RVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRR 167
             + + AKQ I Q +   ER +QY +FKD++G+I+ GT KR+EY NVIVDL  ++G +  
Sbjct: 127 YSSAKIAKQKIAQVIISEERKKQYEDFKDRIGDIVYGTAKRIEYNNVIVDLNGNEGYLSA 186

Query: 168 DETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVK 227
              I  E  R GDRVK++I DVR+E  GPQ+ LSR    FM +LF  E+PEIY+GIV +K
Sbjct: 187 ANLIKGEVFRVGDRVKAHIEDVRKENSGPQIFLSRISKGFMEQLFKQEIPEIYDGIVTIK 246

Query: 228 AVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFV 287
           A++RDPGSR+K+AVFSSD +IDPVGACVG RG R+Q+++ EL  EKID++++SP+ A F+
Sbjct: 247 AIARDPGSRSKVAVFSSDKNIDPVGACVGARGVRIQSIIYELHGEKIDVILYSPELAKFI 306

Query: 288 INALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
           +NA+ PA V KV++DED  ++E+I+P+ QLSLAIGR GQN+RLAS+L GW ID+I +E +
Sbjct: 307 VNAIAPAEVLKVIIDEDKEKVELIIPENQLSLAIGRYGQNIRLASELIGWKIDVIGDETE 366

Query: 348 SINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV 407
           S  + K+ +E ++ F++ ++V+EII  LL  EGF  +E++    +S+IA+I+GF+EE A 
Sbjct: 367 SSRKAKELSEGSKIFVEGLDVEEIIGQLLFTEGFVSIEDIDQASVSDIAAIDGFNEEIAE 426

Query: 408 EIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSV 467
           E++ RA +YL   D  +++ +  L V +++ ++P +     +AL ENGIK++ED+AG   
Sbjct: 427 ELKSRAADYLTRKDAEIKQILDNLSVDKDVTTLPFLKPSDIIALSENGIKSLEDIAGLCT 486

Query: 468 DDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
           D+              FD  + ++   KDQ++S+I+ +R K+GW+
Sbjct: 487 DEF-------------FD-IVPNIALTKDQIDSVILESRKKIGWL 517


>gi|255611947|ref|XP_002539363.1| Transcription elongation protein nusA, putative [Ricinus communis]
 gi|223506838|gb|EEF23020.1| Transcription elongation protein nusA, putative [Ricinus communis]
          Length = 316

 Score =  415 bits (1066), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 203/313 (64%), Positives = 250/313 (79%)

Query: 208 MVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVT 267
           MVKLF MEVP IY+GI+QV++V+RDPGSRAK+AV S+DSSIDPVGACVGMRGSRVQAVV 
Sbjct: 1   MVKLFTMEVPGIYDGIIQVRSVARDPGSRAKIAVISNDSSIDPVGACVGMRGSRVQAVVG 60

Query: 268 ELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQN 327
           EL+ EKIDI+ WS D ATFV+NAL+PA V KVVLDED  RIEV+VP EQLSLAIGRRGQN
Sbjct: 61  ELQGEKIDIIPWSQDPATFVVNALQPAEVAKVVLDEDAERIEVVVPDEQLSLAIGRRGQN 120

Query: 328 VRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEEL 387
           VRLASQLTGW IDI+TE E+S  RQK+FNERT  FM A++VDE++  +L +EGFA VEEL
Sbjct: 121 VRLASQLTGWDIDIMTEAEESERRQKEFNERTNLFMDALDVDEMVGQVLASEGFAAVEEL 180

Query: 388 ACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKI 447
           A V + EIASI+GFDE+TA EIQ RAREYLE ++  + +K + LGV++EL  I GI +++
Sbjct: 181 AYVDLDEIASIDGFDEDTAQEIQTRAREYLEKLEAEMDEKRKALGVTDELRQINGITAQM 240

Query: 448 KVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARY 507
            VALGE+GIKT+ED AGC+ DDL+GW+E K G  +KF+G  S     + + E M++ AR 
Sbjct: 241 MVALGEDGIKTVEDFAGCAADDLVGWTERKNGETKKFEGLFSKFDVSRVEAEQMVVQARL 300

Query: 508 KMGWIEKEKVADE 520
             GWI +E +A E
Sbjct: 301 LAGWITEEDLAKE 313


>gi|224825864|ref|ZP_03698968.1| NusA antitermination factor [Lutiella nitroferrum 2002]
 gi|224602088|gb|EEG08267.1| NusA antitermination factor [Lutiella nitroferrum 2002]
          Length = 493

 Score =  413 bits (1062), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 216/468 (46%), Positives = 323/468 (69%), Gaps = 6/468 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS-DIRVEINPETGDISLFRLL 66
           E+L + DA+A EKS+ +DVV + +  ++  A +  +     DIRVEI+  TG    FR  
Sbjct: 4   EILLLVDALASEKSVSKDVVFTALELALASATKKKFNQDDVDIRVEIDRHTGQYHTFRRW 63

Query: 67  EVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
            VVE+  +E    +I L  AR+RDPSI++G V+ +P+  ++FGR+  Q+AKQVI+QK+R+
Sbjct: 64  TVVEDDMLEFDDKEIELADARERDPSIEVGAVIEEPMEAVEFGRIGAQAAKQVILQKIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   EF  +   ++SGTVKR+E GN I++ G  + V+ R++ I +ENLR GDRVK+
Sbjct: 124 AEREQLLSEFLQRREHLVSGTVKRIERGNAIIECGKLEAVLPREQMIPKENLRVGDRVKA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+  + R  RGPQ++LSRT  +F++KLF +EVPEI  G++++K  +RDPG RAK+AV ++
Sbjct: 184 YLMRIDRLGRGPQLVLSRTSREFLIKLFELEVPEIEEGLLEIKEAARDPGLRAKIAVKAN 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP G C+GMRGSRVQ+V  EL  E++DIV+W+P+ A FVINAL PA V ++++DED
Sbjct: 244 DPRIDPQGTCIGMRGSRVQSVTQELAGERVDIVLWAPEPAQFVINALSPAEVNRIMIDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V ++QL+LAIGR GQNVRLA++LTGW ++I+T  E     Q++     + FM+
Sbjct: 304 NHAMDVVVEEDQLALAIGRSGQNVRLAAELTGWYLNIMTVTEAEEKHQEEDAALRETFMK 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + VDE  A  LV EGFA +EE+A V I+E+  IEGF+EE   E++ RAR+ L  + I  
Sbjct: 364 HLGVDEATAMTLVQEGFATLEEVAYVPIAEMLEIEGFEEEQVNELRSRARDALLTLAIAS 423

Query: 425 QKKIRELGVSEELCSIPGI-DSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+    VS++L  I G+ D+ +   L ENG+ T ++LA  +VDDL+
Sbjct: 424 EEKVE--SVSDDLKGIEGLEDADLVRKLAENGVTTRDELADLAVDDLV 469


>gi|119898399|ref|YP_933612.1| transcription elongation factor NusA [Azoarcus sp. BH72]
 gi|119670812|emb|CAL94725.1| putative N utilization substance protein A [Azoarcus sp. BH72]
          Length = 491

 Score =  410 bits (1054), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 209/484 (43%), Positives = 331/484 (68%), Gaps = 7/484 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++ +D+V   +  ++  A +      +D+RV I+ ETGD   FR   
Sbjct: 4   EILLLVDALAREKNVAKDIVFGALESALASATKKRIHDEADVRVSIDRETGDYESFRRWI 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           V+  EEV N   ++ +  AR+ D  I +G  + +PL P+DFGR+  Q+AKQVI+Q++R+A
Sbjct: 64  VMPDEEVTNDEAEMGIIDARELDSKIQLGEYIEEPLEPIDFGRIGAQAAKQVILQRIRDA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F D+   ++SG++KR+E GN I+++G  + V+ RD+ I RENLR GDRVK++
Sbjct: 124 EREQVLNDFLDRKEFLVSGSIKRMERGNAIIEVGRLEAVLPRDQQIPRENLRVGDRVKAF 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  + R  RGPQ++LSRT P+F++KLF +EVPEI +G++++KA +RDPG RAK+AV S+D
Sbjct: 184 LLKIDRGARGPQLILSRTAPEFLMKLFELEVPEIEDGLLEIKACARDPGLRAKIAVKSND 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDP+G CVG+RGSRV AV  E+  E+IDI+VW+ D A FVI AL+PA V  +V+DE+ 
Sbjct: 244 QRIDPIGTCVGLRGSRVTAVRNEIGGEQIDIIVWAADPAQFVIAALQPAEVVSIVVDEEA 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++V+V +  L++AIGR GQNV+LAS+LTGWTI++++E+E +   +++ +     FM+ 
Sbjct: 304 HAMDVVVDESNLAIAIGRNGQNVKLASELTGWTINLMSEQESAEKSEQEKSGIRSLFMEK 363

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE +A +L+ EGF+ +EE+A V ++E+  IE FDEET  E++ RAR  L    I  +
Sbjct: 364 LDVDEEVADILIDEGFSSLEEIAYVPLAEMLEIEAFDEETVTELRNRARNVLLTEAIVTE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFD 485
           +++    VS++L  + G+D  +   L   GI+T +DLA  +VD+L+   E  G ++E+  
Sbjct: 424 EQLE--NVSDDLLGLDGMDKSLAAKLAGKGIRTRDDLADLAVDELV---EMAGLDVEQAK 478

Query: 486 GFLS 489
             +S
Sbjct: 479 ALIS 482


>gi|192361293|ref|YP_001980958.1| transcription elongation factor NusA [Cellvibrio japonicus Ueda107]
 gi|190687458|gb|ACE85136.1| N utilization substance protein A [Cellvibrio japonicus Ueda107]
          Length = 493

 Score =  409 bits (1052), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 211/467 (45%), Positives = 321/467 (68%), Gaps = 3/467 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +ADAV+ EK +D++++   +  ++  A +  +   S I V IN  TGD   +R  +
Sbjct: 4   EILLVADAVSNEKGVDKELIFQAIETALATATKKRFDEDSTIEVIINRTTGDYETWRSWD 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV +  +     Q +L+ A ++D S+  G V  + +   +FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVSDDILAELGTQFTLEEAHEKDTSLKAGDVYREKIENAEFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   E++D++GE++SGTVK+V   ++IVDLGN ++GV+ RD+ I RE  R GDRV++
Sbjct: 124 ERAQMVDEYRDRMGELVSGTVKKVTRDSIIVDLGNNAEGVLPRDQLIGREIFRMGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + DVR E RGPQ+LLSR+ PQ +V+LF +EVPEI   ++++K  +RDPG RAK+AV ++
Sbjct: 184 LLLDVRTEARGPQLLLSRSAPQMLVELFKIEVPEIAEEVIEIKGAARDPGLRAKIAVKTN 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA +  +V+DED
Sbjct: 244 DGRIDPVGACVGMRGSRVQAVSNELGGERVDIVLWDDNPAQFVINAMSPAEIESIVVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V +E L++AIGR GQNVRLA +LTGW I++++  +    ++ +     Q FM 
Sbjct: 304 ARSMDLAVNEENLAMAIGRGGQNVRLACELTGWNINVMSVADWQAKQEAESGSYIQIFMS 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
           A++VDE IA +LV EGF  +EE+A V + E+ +I+GFD++ A E++ RA++ L    +  
Sbjct: 364 ALDVDEDIAGVLVEEGFTTLEEVAYVPLEEMLAIDGFDQDIAEELRARAKDALLTQALAS 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++++  +  +E+L S+ G+DS++ + L   GI TMEDLA  S+DDLL
Sbjct: 424 EERLEGVAPAEDLLSMEGMDSQLAIRLASRGIVTMEDLAEQSIDDLL 470


>gi|313199846|ref|YP_004038504.1| nusa antitermination factor [Methylovorus sp. MP688]
 gi|312439162|gb|ADQ83268.1| NusA antitermination factor [Methylovorus sp. MP688]
          Length = 488

 Score =  409 bits (1052), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 205/466 (43%), Positives = 322/466 (69%), Gaps = 6/466 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A+EK++ ++V+ + +  ++  A +  +   +D+RVEI  ++G+   FR  +
Sbjct: 4   EILLLVDALAHEKNVAKEVIFTALELALASATKKRFTEDADVRVEIERDSGNYHSFRRWQ 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           +V  +++EN   Q  +    +R   +++G    +PL  ++FGR+  Q+AKQVI+QKVREA
Sbjct: 64  IVSDDDLENPAAQ--MYTDDERAEGLNLGDYYEEPLESVEFGRIGAQAAKQVILQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F  +   +++G +KR+E GN I+++G  + V+ RD+ I +ENLR GDRV++Y
Sbjct: 122 EREQILNDFLARKEHLVTGVIKRMEKGNAIIEVGRIESVLPRDQMIPKENLRVGDRVRAY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  + R  RGPQ++LSR  P+F++KLF +EVPEI  G++++K+ SRDPG R+K+AV S+D
Sbjct: 182 LSRIERTGRGPQLVLSRIAPEFLIKLFELEVPEIEEGLLEIKSASRDPGLRSKIAVKSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVG CVGMRGSRVQAV  EL  E++DIV+WS + A FVINA+ PA V+ +V+DED 
Sbjct: 242 QRLDPVGTCVGMRGSRVQAVTGELAGERVDIVLWSMEPAQFVINAMAPAEVSSIVVDEDA 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++V+V +EQL+ AIGR GQNVRLAS+LTGWT++I+TE E +   ++++ +  Q F+  
Sbjct: 302 HSMDVVVDEEQLAQAIGRNGQNVRLASELTGWTLNILTEAEAAQKHEEEYTKTRQLFIDK 361

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE +A +LV EGF  +EE+A V I+E++ I+ FDEET  E++ RAR  L    I  +
Sbjct: 362 LDVDEEVADILVQEGFNTLEEIAYVPIAEMSEIDAFDEETINELRKRARAALLTEAIAKE 421

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           +K+ E   SE L ++ G+D      L   G+ TMEDLA  +VD+L+
Sbjct: 422 EKLEE--ASESLLTMDGMDDATAHLLASKGVSTMEDLADLAVDELM 465


>gi|253997782|ref|YP_003049845.1| transcription elongation factor NusA [Methylovorus sp. SIP3-4]
 gi|253984461|gb|ACT49318.1| NusA antitermination factor [Methylovorus sp. SIP3-4]
          Length = 488

 Score =  409 bits (1051), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 206/466 (44%), Positives = 321/466 (68%), Gaps = 6/466 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A+EK++ ++V+ + +  ++  A +  +   +D+RVEI  ++G+   FR  +
Sbjct: 4   EILLLVDALAHEKNVAKEVIFTALELALASATKKRFTEDADVRVEIERDSGNYHSFRRWQ 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV  +++EN   Q  +    +R   + +G    +PL  ++FGR+  Q+AKQVI+QKVREA
Sbjct: 64  VVSDDDLENPAAQ--MYTDDERAEGLSLGDYYEEPLESVEFGRIGAQAAKQVILQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F  +   +++G +KR+E GN I+++G  + V+ RD+ I +ENLR GDRV++Y
Sbjct: 122 EREQILNDFLARKEHLVTGVIKRMEKGNAIIEVGRIESVLPRDQMIPKENLRVGDRVRAY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  + R  RGPQ++LSR  P+F++KLF +EVPEI  G++++K+ SRDPG R+K+AV S+D
Sbjct: 182 LSRIERTGRGPQLVLSRIAPEFLIKLFELEVPEIEEGLLEIKSASRDPGLRSKIAVKSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVG CVGMRGSRVQAV  EL  E++DIV+WS + A FVINA+ PA V+ +V+DED 
Sbjct: 242 QRLDPVGTCVGMRGSRVQAVTGELAGERVDIVLWSMEPAQFVINAMAPAEVSSIVVDEDA 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++V+V +EQL+ AIGR GQNVRLAS+LTGWT++I+TE E +   ++++ +  Q F+  
Sbjct: 302 HSMDVVVDEEQLAQAIGRNGQNVRLASELTGWTLNILTEAEAAQKHEEEYTKTRQLFIDK 361

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE +A +LV EGF  +EE+A V I+E++ I+ FDEET  E++ RAR  L    I  +
Sbjct: 362 LDVDEEVADILVQEGFNTLEEIAYVPIAEMSEIDAFDEETINELRKRARAALLTEAIAKE 421

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           +K+ E   SE L ++ G+D      L   G+ TMEDLA  +VD+L+
Sbjct: 422 EKLEE--ASESLLTMDGMDDATAHLLASKGVSTMEDLADLAVDELM 465


>gi|74316716|ref|YP_314456.1| NusA antitermination factor [Thiobacillus denitrificans ATCC 25259]
 gi|74056211|gb|AAZ96651.1| NusA antitermination factor [Thiobacillus denitrificans ATCC 25259]
          Length = 492

 Score =  408 bits (1048), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 207/465 (44%), Positives = 316/465 (67%), Gaps = 4/465 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +ADA+A EK++D++VV   +  ++  A +  +   SD+RV I+ ETGD   FR   
Sbjct: 4   EMLMLADALAREKNVDKEVVFEALEQALASATKKRFKEESDVRVAIDRETGDYESFRRWL 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV E  +E+   QI L  A+D+ P I+IG  + +PL  ++FGR+  Q+AKQVI+QK+R+A
Sbjct: 64  VVTEAELESEGYQILLVDAQDKIPDIEIGDYIEEPLENVEFGRIGAQAAKQVILQKIRDA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F  +   +++G VKR++ GN I++ G  +G + RD+ I RENLR GDRV++Y
Sbjct: 124 EREQIISDFLARKEHLVNGVVKRIDRGNAIIESGRVEGFLHRDQMIPRENLRVGDRVRAY 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  + R  RGPQV+LSRT P+F++KLF +EVPEI  G++++KA +RDPG RAK+AV S D
Sbjct: 184 LLRIDRGNRGPQVVLSRTAPEFIMKLFELEVPEIEEGLLEIKAAARDPGLRAKIAVVSHD 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDP+G C+G+RGSRV +V  EL  E++DI+ WS D A +VINAL PA V+ +V+DED 
Sbjct: 244 PRIDPIGTCIGLRGSRVTSVTNELAGERVDIIHWSADPAQYVINALAPAEVSSIVVDEDT 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++V+V +EQL++AIGR GQNVRLAS+LTGW ++I++ E     +  +  +  Q F++ 
Sbjct: 304 HSMDVVVDEEQLAMAIGRGGQNVRLASELTGWELNIMSREAAEEKQSSESQKTLQLFIEK 363

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE +A +LV EGF+ +EE+A V ++E+  IE FDE    E++ RAR  L    I  +
Sbjct: 364 LDVDEEVAQILVDEGFSTLEEVAYVPLNEMLEIEAFDEALVNELRNRARNALLTAAIVGE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           +++     + +L S+ G+D++    L   G+ T EDLA  +VD+L
Sbjct: 424 EQVE--ASAGDLLSLDGMDAETARLLASKGVHTTEDLAELAVDEL 466


>gi|218670845|ref|ZP_03520516.1| transcription elongation factor NusA [Rhizobium etli GR56]
          Length = 276

 Score =  408 bits (1048), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 199/274 (72%), Positives = 235/274 (85%)

Query: 164 VIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGI 223
           +IRRDE I REN+R GDRV++Y+YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+GI
Sbjct: 1   IIRRDEMIPRENVRYGDRVRAYVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGI 60

Query: 224 VQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDS 283
           +QVK+V+RDPGSRAK+AV S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D 
Sbjct: 61  IQVKSVARDPGSRAKIAVISNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSQDP 120

Query: 284 ATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           ATFV+NAL+PA V KVVLDED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+T
Sbjct: 121 ATFVVNALQPAEVAKVVLDEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDIMT 180

Query: 344 EEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
           E E+S  RQK+FNERT  FM +++VDE++  +L +EGFA VEELA V + EIASI+GFDE
Sbjct: 181 EAEESERRQKEFNERTNLFMDSLDVDEMVGQVLASEGFAAVEELAYVDLDEIASIDGFDE 240

Query: 404 ETAVEIQGRAREYLEGIDITLQKKIRELGVSEEL 437
           ETA EIQ RARE+LE ++  + +K + LGV +EL
Sbjct: 241 ETAQEIQQRAREFLERLEAEMDEKRKALGVEDEL 274


>gi|292492785|ref|YP_003528224.1| transcription termination factor NusA [Nitrosococcus halophilus
           Nc4]
 gi|291581380|gb|ADE15837.1| transcription termination factor NusA [Nitrosococcus halophilus
           Nc4]
          Length = 506

 Score =  406 bits (1043), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 218/468 (46%), Positives = 314/468 (67%), Gaps = 4/468 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DAV+ EK + ++V+   +  ++  A R  Y     +RV I+  TGD   FR  E
Sbjct: 4   EILMVVDAVSNEKGVGKEVIFQAIEAALAMATRKRYQEDIAVRVAIDRATGDYQSFRTWE 63

Query: 68  VVE---EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VVE   E+E    QI L  A  RDP+I++GG + +P+  + FGR+A Q+AKQVI+QKVRE
Sbjct: 64  VVEDEAELEAPQRQICLGEALKRDPNIEVGGFIEEPMESIAFGRIAAQTAKQVIVQKVRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVK 183
           AER +    +KD+VGE++ G VKR + GNVI+DLG N++G+I ++E I RE +RPGDR++
Sbjct: 124 AERAKVVAAYKDRVGEMVMGVVKRTDRGNVILDLGDNAEGIIPQEEMIPREAIRPGDRLR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            Y+ +VR E RGPQ++LSRT P+ +++LF +EVPEI    +++K  +RDPG RAK+AV +
Sbjct: 184 GYLKEVRTEGRGPQLVLSRTAPELLIELFKLEVPEINENRIEIKGAARDPGLRAKIAVKT 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +++ IDPVGACVGMRGSRVQAV  EL  E++DIV+W  D A FVINA+ PA V  +V+DE
Sbjct: 244 NEARIDPVGACVGMRGSRVQAVSNELAGERVDIVLWDEDPAHFVINAMAPAEVASIVVDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           +   ++V V +  LS AIGR GQN+RLASQLTGW ++++TEEE     + +     Q FM
Sbjct: 304 ESHSMDVAVAEGNLSQAIGRGGQNIRLASQLTGWELNVMTEEEAGEKGEAEAKALQQMFM 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
           + ++VDE +A +LV EGF+ +EE+A V   EI ++E FD +   E++ RAR+ L    I 
Sbjct: 364 EQLDVDEEVAAILVHEGFSSIEEVAYVPEQEILAVEEFDSQIVQELRNRARDVLLTRAIA 423

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
            ++ I  +   +EL  +  ID ++   L   GI T +DLA  SVDDL+
Sbjct: 424 NEETIETMQPDQELLDMEEIDYELAGILASKGIVTKDDLAEQSVDDLM 471


>gi|222475232|ref|YP_002563648.1| transcription termination factor nusA (nusA) [Anaplasma marginale
           str. Florida]
 gi|255003215|ref|ZP_05278179.1| transcription elongation factor NusA [Anaplasma marginale str.
           Puerto Rico]
 gi|255004343|ref|ZP_05279144.1| transcription elongation factor NusA [Anaplasma marginale str.
           Virginia]
 gi|222419369|gb|ACM49392.1| transcription termination factor nusA (nusA) [Anaplasma marginale
           str. Florida]
          Length = 515

 Score =  405 bits (1040), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 220/529 (41%), Positives = 343/529 (64%), Gaps = 34/529 (6%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + + + LEL+++A  VA +K ++ ++V+  +  +++  +RS YG    I+  I+ +TG +
Sbjct: 4   LYNFDNLELIRVARDVAEQKGLNLEMVVDAIEQALELVSRSKYGDCK-IKASIDRKTGVV 62

Query: 61  SLFRLLEVVE---------------EVENYT-CQISLKVARDRDPSIDIGGVVSDPLPPM 104
           S+ R   VV                EV  Y   ++S  VA  +D  + +G ++ +PLPP+
Sbjct: 63  SISRQALVVNDDMSFDSEQYGIPPGEVSKYKLVKVSDAVADGKD--VKVGDILFEPLPPV 120

Query: 105 DFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV 164
           D    + + A+Q + Q +   ER RQY EFKD+VG+++ G VKRVEY NV+VDL  S+G 
Sbjct: 121 DVDYNSAKVARQKVAQLIMIQERKRQYEEFKDRVGDLVYGVVKRVEYNNVVVDLNGSEGY 180

Query: 165 IRRDETISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGI 223
           +    TI  E  RP DRVK+++ +VR+E+  GPQ+ LSR   +FM  LF  E+PE+Y+GI
Sbjct: 181 LPVYNTIRGEVFRPNDRVKAHVEEVRQEELSGPQIFLSRVSKRFMELLFKQEIPEVYDGI 240

Query: 224 VQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDS 283
           V +KA++RDPGSR+K+AVFSSD ++DPVGAC+G RG R+Q +V+EL  EKID+V++S D 
Sbjct: 241 VSIKALARDPGSRSKVAVFSSDKNVDPVGACIGARGVRIQNIVSELHGEKIDVVLYSSDL 300

Query: 284 ATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           A FV++A+ PA V KV++DEDV +IE++VP+ Q+SLAIGR GQN+RLAS+L GW ID+I 
Sbjct: 301 AKFVVSAIAPAEVVKVIIDEDVEKIELVVPENQVSLAIGRYGQNIRLASELVGWEIDVIG 360

Query: 344 EEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
           +E +S  + K+ +   + F+  ++V+EII  LLV+EGF+ +E+L  V ++EI +I+GF+E
Sbjct: 361 DETESTRKAKELSSGAKVFVDGLDVEEIIGQLLVSEGFSTIEDLDKVDVAEITAIDGFNE 420

Query: 404 ETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLA 463
           E AVE++ RA EYL        + ++ + VSEE+  +P ++ +  V L E GI+++ED+A
Sbjct: 421 EIAVELKKRAAEYLTRRREEALETLKNMSVSEEVLELPYLEIEDVVKLCEGGIRSVEDIA 480

Query: 464 GCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
               D+              F   +      K+QV+S+I+ +R +MGWI
Sbjct: 481 SMCTDE--------------FYDMVPKARLSKEQVDSIILESRKRMGWI 515


>gi|71908071|ref|YP_285658.1| transcription elongation factor NusA [Dechloromonas aromatica RCB]
 gi|71847692|gb|AAZ47188.1| NusA antitermination factor [Dechloromonas aromatica RCB]
          Length = 490

 Score =  404 bits (1039), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 204/465 (43%), Positives = 318/465 (68%), Gaps = 4/465 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++ +++V   +  ++  A +      +D+R+ I+ +TG    FR  +
Sbjct: 4   EILLLVDALAREKNVSKEIVFGALELALASATKKRINDEADVRISIDRDTGSFESFRRWQ 63

Query: 68  VVEEVE--NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV + E  N   +I L  A+  DP I+ G  + +PL P+DFGR+  Q+AKQVI+QK+R+A
Sbjct: 64  VVPDNEYVNEFLEIPLSDAQKDDPEIEPGDSLEEPLEPIDFGRIGAQAAKQVILQKIRDA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F  +   ++SGT+KR+E GN I++ G  + ++ RD+ I +ENLR GDRV++Y
Sbjct: 124 EREQILADFLGRGEHVVSGTIKRMERGNAIIEAGKIEAMLPRDQMIPKENLRVGDRVRAY 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  + R  RGPQ++LSRT P+F++KLF MEVPEI +G++++KA +RDPG RAK+AV S+D
Sbjct: 184 LLRIDRNARGPQIILSRTAPEFVIKLFDMEVPEISDGLMELKACARDPGLRAKIAVKSND 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DP+G CVG+RGSRV AV  E+  E IDIV+WS D A FVI AL PA V+ +V+DE+ 
Sbjct: 244 PRVDPIGTCVGLRGSRVTAVRNEIGGENIDIVLWSADPAQFVIGALSPAEVSSIVVDEEK 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++V+V ++ L++AIGR GQNVRLAS+LTGWTI+++T++E +   + +F E    FM+ 
Sbjct: 304 HAMDVVVDEDNLAIAIGRNGQNVRLASELTGWTINLMTQDESAKKSEAEFAETRVVFMEK 363

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           +++DE +A LL+ EGF+ +EE+A V ++E+  IEG DEE   E++ RAR  L    I  +
Sbjct: 364 LDIDEELADLLIEEGFSTLEEVAYVPLAEMLEIEGLDEEIVNELRNRARNVLLTEAIATE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           +K+    VSE+L  + G+  ++   L  + +KT +DLA  +VD+L
Sbjct: 424 EKLE--SVSEDLIGLEGMSKELAAKLAGHDVKTRDDLAELAVDEL 466


>gi|269958718|ref|YP_003328505.1| transcription elongation factor [Anaplasma centrale str. Israel]
 gi|269848547|gb|ACZ49191.1| transcription elongation factor [Anaplasma centrale str. Israel]
          Length = 524

 Score =  404 bits (1037), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 224/534 (41%), Positives = 345/534 (64%), Gaps = 44/534 (8%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + + + LEL+++A  VA +K ++ ++V+  +  +++  +RS YG    I+  I+ +TG I
Sbjct: 13  LYNFDNLELIRVARDVAEQKGLNLEMVVDAIEQALELVSRSKYGDCK-IKASIDRKTGVI 71

Query: 61  SLFRLLEVVE---------------EVENYTC-QISLKVARDRDPSIDIGGVVSDPLPPM 104
           S+ R   VV                EV  Y   +IS  VA  +D  + +G ++ +PLPP+
Sbjct: 72  SISRQALVVNDDMSFDGEQYGIPSGEVNKYKLIKISDAVADGKD--VKVGDILLEPLPPV 129

Query: 105 DFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV 164
           D    + + AKQ + Q +   ER RQY EFKD+VG+++ G VKRVEY NV+VDL  S+G 
Sbjct: 130 DVDYNSAKVAKQKVAQLILIQERKRQYEEFKDRVGDLVYGVVKRVEYNNVVVDLNGSEGY 189

Query: 165 IRRDETISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGI 223
           +    TI  E  RP DRVK+++ +VR+E+  GPQ+ LSR   +FM  LF  E+PE+Y+GI
Sbjct: 190 LPVYNTIRGEVFRPNDRVKAHVEEVRQEELSGPQIFLSRVSKRFMELLFKQEIPEVYDGI 249

Query: 224 VQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDS 283
           V +KA++RDPGSR+K+AVFSSD ++DPVGAC+G RG R+Q +V+EL  EKID+V++S D 
Sbjct: 250 VSIKALARDPGSRSKVAVFSSDKNVDPVGACIGARGVRIQNIVSELHGEKIDVVLYSSDL 309

Query: 284 ATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           A FV++A+ PA V KV++DEDV +IE++VP+ Q+SLAIGR GQN+RLAS+L GW ID+I 
Sbjct: 310 AKFVVSAIAPAEVVKVIIDEDVEKIELVVPENQVSLAIGRYGQNIRLASELVGWEIDVIG 369

Query: 344 EEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
           +E +S  + K+ +   + F+  ++V+EII  LLV+EGF+ +E+L  V ++EI +I+GF+E
Sbjct: 370 DETESTRKAKELSSGAKVFVDGLDVEEIIGQLLVSEGFSTIEDLDKVDVAEITAIDGFNE 429

Query: 404 ETAVEIQGRAREYL-----EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKT 458
           E AVE++ RA EYL     E ++I     ++ + VSEE+  +P ++ +  V L E GI+ 
Sbjct: 430 EIAVELKKRAAEYLVRRREEALEI-----LKSMSVSEEVLELPYLEIEDVVKLCEGGIRN 484

Query: 459 MEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
           +ED+A    D+              F   +      K+QV+S+I+ +R +MGW+
Sbjct: 485 VEDIASMCTDE--------------FYDTVPKARLSKEQVDSIILESRRRMGWV 524


>gi|238027585|ref|YP_002911816.1| transcription elongation factor NusA [Burkholderia glumae BGR1]
 gi|237876779|gb|ACR29112.1| Transcription elongation factor NusA [Burkholderia glumae BGR1]
          Length = 491

 Score =  403 bits (1036), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 209/467 (44%), Positives = 326/467 (69%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV+I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVQIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P +D+G  + + +P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQQPGVDVGDYIEESVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR  DRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVSDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E ++ + ++ +     FM 
Sbjct: 304 KHSMDVVVDESELAVAIGRSGQNVRLASELTGWQINIMTPDESALKQNEERDRLRGLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDEET  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEETVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+    +  +L S+ G+ S++   L ENG++T +DLA  +VD+L+
Sbjct: 424 EEKVENAAL--DLKSLEGMTSELLAKLAENGVQTRDDLAELAVDELV 468


>gi|56416867|ref|YP_153941.1| transcription elongation factor NusA [Anaplasma marginale str. St.
           Maries]
 gi|56388099|gb|AAV86686.1| transcription termination factor A [Anaplasma marginale str. St.
           Maries]
          Length = 515

 Score =  403 bits (1035), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 219/529 (41%), Positives = 343/529 (64%), Gaps = 34/529 (6%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + + + LEL+++A  VA +K ++ ++V+  +  +++  +RS YG    I+  I+ +TG +
Sbjct: 4   LYNFDNLELIRVARDVAEQKGLNLEMVVDAIEQALELVSRSKYGDCK-IKASIDRKTGVV 62

Query: 61  SLFRLLEVVE---------------EVENYT-CQISLKVARDRDPSIDIGGVVSDPLPPM 104
           S+ R   VV                EV  Y   ++S  VA  +D  + +G ++ +PLPP+
Sbjct: 63  SISRQALVVNDDMSFDSEQYGIPPGEVSKYKLVKVSDAVADGKD--VKVGDILFEPLPPV 120

Query: 105 DFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV 164
           D    + + A+Q + Q +   ER RQY EFKD+VG+++ G VKRVEY NV+VDL  S+G 
Sbjct: 121 DVDYNSAKVARQKVAQLIMIQERKRQYEEFKDRVGDLVYGVVKRVEYNNVVVDLNGSEGY 180

Query: 165 IRRDETISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGI 223
           +    TI  E  RP DRVK+++ +VR+E+  GPQ+ LSR   +FM  LF  E+PE+Y+GI
Sbjct: 181 LPVYNTIRGEVFRPNDRVKAHVEEVRQEELSGPQIFLSRVSKRFMELLFKQEIPEVYDGI 240

Query: 224 VQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDS 283
           V +KA++RDPGSR+K+AVFSSD ++DPVGAC+G RG R+Q +V+EL  EKID+V++S D 
Sbjct: 241 VSIKALARDPGSRSKVAVFSSDKNVDPVGACIGARGVRIQNIVSELHGEKIDVVLYSSDL 300

Query: 284 ATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           A FV++A+ PA V KV++DEDV +IE++VP+ Q+SLAIGR GQN+RLAS+L GW ID+I 
Sbjct: 301 AKFVVSAIAPAEVVKVIIDEDVEKIELVVPENQVSLAIGRYGQNIRLASELVGWEIDVIG 360

Query: 344 EEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
           +E +S  + K+ +   + F+  ++V+EII  LLV+EGF+ +E+L  V ++EI +I+GF+E
Sbjct: 361 DETESTRKAKELSSGAKVFVDGLDVEEIIGQLLVSEGFSTIEDLDKVDVAEITAIDGFNE 420

Query: 404 ETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLA 463
           E AVE++ RA EYL        + ++ + VSEE+  +P ++ +  V L E GI+++ED+A
Sbjct: 421 EIAVELKKRAAEYLTRRREEALETLKNMSVSEEVLELPYLEIEDVVKLCEGGIRSVEDIA 480

Query: 464 GCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
               D+              F   +      K+QV+S+I+ +R ++GWI
Sbjct: 481 SMCTDE--------------FYDMVPKARLSKEQVDSIILESRKRVGWI 515


>gi|82702986|ref|YP_412552.1| transcription elongation factor NusA [Nitrosospira multiformis ATCC
           25196]
 gi|82411051|gb|ABB75160.1| NusA antitermination factor [Nitrosospira multiformis ATCC 25196]
          Length = 495

 Score =  403 bits (1035), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 203/466 (43%), Positives = 321/466 (68%), Gaps = 4/466 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++++++V + +  ++  A +  +   +D+RV I+ +TGD    R  +
Sbjct: 4   EVLLLVDALAREKNVEKNIVFAALELALASATKKRFNEDADVRVSIDHQTGDYQSLRRWQ 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV +  VE+   QISL  A  ++P I +   + + L P++FGR+  Q+AKQVI QK+R+A
Sbjct: 64  VVADDAVEDPARQISLSEAFRQNPEIQLDEYIEEILEPVEFGRIGAQAAKQVIFQKIRDA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F ++   +++GT+KR+E GN I++ G  + V+ RD+ I +ENLR GDRV++Y
Sbjct: 124 EREQILNDFLERKEYMVTGTIKRMERGNAIIESGRVEAVLPRDQMIPKENLRVGDRVRAY 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           ++ + R  RGPQ++LSR  P+F++KLF +EVPEI  G++++K  +RDPGSRAK+AV S+D
Sbjct: 184 LHRIDRTTRGPQLILSRIVPEFLIKLFELEVPEIEEGLLEIKVAARDPGSRAKIAVKSND 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DP+G CVGMRGSRVQAV  EL  E++DI++WS D ATFVINAL PA ++ +++DE+ 
Sbjct: 244 QRVDPIGTCVGMRGSRVQAVTGELAGERVDIILWSDDPATFVINALAPAEISSILVDEEK 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++++V +  L+ AIGR GQNVRLAS+LTGW ++I+T EE     +++F+     FM+ 
Sbjct: 304 HSMDIVVDEGNLAQAIGRGGQNVRLASELTGWELNIMTMEESQAKNEEEFSVLRHLFMEK 363

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE +A +L  EGF  +EE+A V +SE+  IE FDE+T  E++ RAR  L    I  +
Sbjct: 364 LDVDEEVADILAQEGFTTLEEVAYVPLSEMMEIEAFDEQTVNELRNRARNALLTEAIVSE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           +K+    ++E+L ++ G+DS+    L   G+ T EDLA  +VDDL+
Sbjct: 424 EKVEH--IAEDLLALEGMDSQTARELAAKGVSTQEDLADLAVDDLV 467


>gi|78066110|ref|YP_368879.1| transcription elongation factor NusA [Burkholderia sp. 383]
 gi|77966855|gb|ABB08235.1| NusA antitermination factor [Burkholderia sp. 383]
          Length = 491

 Score =  402 bits (1034), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 209/467 (44%), Positives = 326/467 (69%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  ARD++P +++G  V +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEARDQNPDVEVGEYVEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVIAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLA +LTGW I+I+T +E ++ + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLAGELTGWQINIMTPDESALKQGEERDRLRALFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+    +  +L S+ GI  ++   L E+G++T +DLA  +VD+L+
Sbjct: 424 EEKVENAAL--DLKSLDGITPELLAKLAEHGVQTRDDLAELAVDELV 468


>gi|257094534|ref|YP_003168175.1| transcription elongation factor NusA [Candidatus Accumulibacter
           phosphatis clade IIA str. UW-1]
 gi|257047058|gb|ACV36246.1| NusA antitermination factor [Candidatus Accumulibacter phosphatis
           clade IIA str. UW-1]
          Length = 490

 Score =  402 bits (1033), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 204/465 (43%), Positives = 320/465 (68%), Gaps = 4/465 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + D +A EK++ +D+V   +  ++  A +      +++RV ++ ETGD   FR  E
Sbjct: 4   EILLLVDVLAREKNVTKDIVFGALEMALASATKKRVHDNANVRVVVDRETGDFETFRRWE 63

Query: 68  VVEEVE--NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV + +  +   QI L  A+++DP ++IG  + + L P+DFGR+  Q+AKQVI+Q++R+A
Sbjct: 64  VVADGDFLDEEQQIPLSDAQEQDPEVEIGDFLEESLEPIDFGRIGAQAAKQVILQRIRDA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F  +   +++GT+KR+E GN I++ G  + V+ RD+ I RENLR GDRVK+Y
Sbjct: 124 EREQILNDFLARKEHLVTGTIKRMERGNAIIETGKIEAVLPRDQMIPRENLRIGDRVKAY 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  + R  RGPQ++LSRT P+F+++LF +EVPE+ +G++++KA +RDPG RAK+AV S+D
Sbjct: 184 LLRIDRAARGPQLILSRTAPEFIIRLFALEVPEVDDGLLEIKAAARDPGMRAKIAVKSND 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDP+G CVGMRG RV AV  EL  E++DIV+WS D A FVI AL PA V+ +++DE+ 
Sbjct: 244 QRIDPIGTCVGMRGMRVTAVTNELAGERVDIVLWSADPAQFVIGALAPAEVSSIIVDEEK 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++V+V ++ L++AIGR GQNVRLAS++TGWTI+++TEEE     + +       FM+ 
Sbjct: 304 HSMDVVVDEQNLAIAIGRGGQNVRLASEMTGWTINLMTEEESKTLVEAEAAAIRVLFMEK 363

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE +A++L+ EGF+ +EE+A V + E+  IE FDE T  E++ RAR  L    I  +
Sbjct: 364 LDVDEELANILIEEGFSTLEEVAYVPLHEMIEIESFDEATVQELRERARNVLLTDAIVTE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           +KI E  V+E++ ++ G+D  +   L  +GIKT +DLA  +VD+L
Sbjct: 424 EKIGE--VAEDMLNLEGMDKVLAGKLASSGIKTRDDLADLAVDEL 466


>gi|134295573|ref|YP_001119308.1| transcription elongation factor NusA [Burkholderia vietnamiensis
           G4]
 gi|134138730|gb|ABO54473.1| NusA antitermination factor [Burkholderia vietnamiensis G4]
          Length = 491

 Score =  400 bits (1029), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 208/467 (44%), Positives = 325/467 (69%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P +++G  + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKPDVEVGEFIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVIAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E ++ + ++       FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESALKQGEERERLRALFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+    +  +L S+ GI  ++   L E+G++T +DLA  +VD+L+
Sbjct: 424 EEKVENAAL--DLKSLDGITPELLTKLAEHGVQTRDDLAELAVDELV 468


>gi|325981567|ref|YP_004293969.1| NusA antitermination factor [Nitrosomonas sp. AL212]
 gi|325531086|gb|ADZ25807.1| NusA antitermination factor [Nitrosomonas sp. AL212]
          Length = 490

 Score =  400 bits (1029), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 206/453 (45%), Positives = 311/453 (68%), Gaps = 4/453 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EKS+++++V + +  ++  A +  +    + R+ I+ ETGD   FR   
Sbjct: 4   EILLLVDALAREKSVEKEIVFTALELALSSATKKRFQEDIETRISIDRETGDHQSFRRWL 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV +  VE+   Q++L  A   D +I +G  +  PL P++FGR+  Q+AKQVI QK+REA
Sbjct: 64  VVNDDSVEDSARQVALSDAIKIDANIQVGDHLEKPLEPIEFGRIGAQAAKQVIFQKIREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F ++   +I+GT+KR+E GN I++ G  +  ++RD+ I +ENLR GDRV++Y
Sbjct: 124 EREQTLNDFLEREDYLINGTIKRMERGNAIIESGKIEAELQRDQMIPKENLRVGDRVRAY 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V R  RGPQ+ LSR  P+F++KLF +EVPEI  G++++KA +RDPGSRAK+AV S+D
Sbjct: 184 LYKVDRAARGPQLKLSRISPEFLMKLFELEVPEIEEGLLEIKAAARDPGSRAKIAVKSND 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDP+G CVGMRGSRVQAV++EL  E++DIV+WS D ATF+INAL PA ++ +++DE+ 
Sbjct: 244 QRIDPIGTCVGMRGSRVQAVISELAGERVDIVLWSDDPATFIINALAPAEISSIMVDEEK 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++++V  + L+ AIGR GQNVRLAS+LTGW ++I+T EE     +++ ++  Q FMQ 
Sbjct: 304 HSMDIVVDDDNLAQAIGRGGQNVRLASELTGWELNIMTIEESKTKHEQETSQICQLFMQK 363

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE IA +L+ EGF  +EE+A + ++E+  IE  DEET  EI+ RAR  L    I  +
Sbjct: 364 LDVDEEIAEILMQEGFVSLEEVAYIPLNEMLEIESLDEETVNEIRNRARNVLLTDAIANE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKT 458
           +K+    V+E+L SI G+D  I   L   GI T
Sbjct: 424 EKVEH--VAEDLLSIEGMDINIIRELAAKGIIT 454


>gi|254252537|ref|ZP_04945855.1| Transcription elongation factor [Burkholderia dolosa AUO158]
 gi|124895146|gb|EAY69026.1| Transcription elongation factor [Burkholderia dolosa AUO158]
          Length = 491

 Score =  400 bits (1029), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 207/467 (44%), Positives = 326/467 (69%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P +++G  + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKPDVEVGEYIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVIAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E ++ + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESALKQGEERDRLRTLFMT 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+    +  +L S+ G+  ++   L E+G++T +DLA  +VD+L+
Sbjct: 424 EEKVENAAL--DLKSLDGVTPELLAKLAEHGVQTRDDLAELAVDELV 468


>gi|34496916|ref|NP_901131.1| transcription elongation factor NusA [Chromobacterium violaceum
           ATCC 12472]
 gi|34102772|gb|AAQ59136.1| N utilization substance transcription regulator protein
           [Chromobacterium violaceum ATCC 12472]
          Length = 492

 Score =  400 bits (1029), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 206/454 (45%), Positives = 313/454 (68%), Gaps = 5/454 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGT-MSDIRVEINPETGDISLFRLL 66
           E+L + DA+A EK++ +DVV S +  ++  A +  +     D+RVEI+  TG    FR  
Sbjct: 4   EILLLVDALASEKNVSKDVVFSALEMALASATKKKFTDDEMDVRVEIDRHTGQYQTFRRW 63

Query: 67  EVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
            VVE+  +E+ + +I L  ARDRDP I++G  + +P+  ++FGR+  Q+AKQVI+Q++R+
Sbjct: 64  LVVEDELLESESKEIGLIDARDRDPRIELGAFIEEPMEAVEFGRIGAQTAKQVILQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   EF  +   ++ GT+KR+E GN IV+ G  + V+ RD+ I +ENLR GDRVK+
Sbjct: 124 AEREQLLNEFLQRREHLVIGTIKRIERGNAIVECGKLEAVLPRDQMIPKENLRVGDRVKA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+  + R+ RGPQ++LSRT P+F+VKLF +EVPEI  G+++++A  RDPG RAK+AV ++
Sbjct: 184 YLLRIDRQGRGPQLILSRTAPEFLVKLFELEVPEIEEGMLEIRAAVRDPGMRAKIAVKAN 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D+ IDP G C+GMRGSRVQAV  EL  E++DIV+W+P+ A FVINAL PA V+++++DED
Sbjct: 244 DARIDPQGTCIGMRGSRVQAVTQELAGERVDIVLWAPEPAQFVINALSPAEVSRIMVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++VIV +EQL+LAIGR GQNV+LA++LTGW ++I+T  E     Q +     Q F+ 
Sbjct: 304 NHSMDVIVEEEQLALAIGRSGQNVKLAAELTGWYLNIMTVAEAEEKHQAEDAALRQLFVS 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
           A++VDE  A  LV EGFA +EE+A V + E+  IEGF+EE   E++ RAR+ L    I  
Sbjct: 364 ALSVDEDTAAKLVEEGFAALEEVAYVPLEEMLEIEGFNEELVGELRSRARDALLTQAIAS 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKT 458
           ++++    V+++L  + G+D+++   L   G+ T
Sbjct: 424 EEQVE--NVADDLKDVEGLDAELVRKLAAGGVTT 455


>gi|325526251|gb|EGD03870.1| transcription elongation factor NusA [Burkholderia sp. TJI49]
          Length = 491

 Score =  400 bits (1028), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 207/467 (44%), Positives = 325/467 (69%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P +++G  + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKPDVEVGEFIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVIAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E ++ + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESALKQGEERDRLRALFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+    +  +L S+ G+  ++   L E+G+ T +DLA  +VD+L+
Sbjct: 424 EEKVENAAL--DLKSLDGVTPELLAKLAEHGVATRDDLAELAVDELV 468


>gi|56478754|ref|YP_160343.1| transcription elongation factor NusA [Aromatoleum aromaticum EbN1]
 gi|56314797|emb|CAI09442.1| N utilization substance protein A [Aromatoleum aromaticum EbN1]
          Length = 491

 Score =  400 bits (1028), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 207/469 (44%), Positives = 323/469 (68%), Gaps = 10/469 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++ +D+V   +  ++  A +      +D+RV I+ +TGD   FR   
Sbjct: 4   EILLLVDALAREKNVAKDIVFGALESALASATKKRINDEADVRVTIDRDTGDYESFRRWV 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           V+  EEV N   ++ +  AR+  P I++G  + +PL P+DFGR+  Q+AKQVI+Q++R+A
Sbjct: 64  VMPDEEVVNDEAEMGIIDAREMVPGIELGEYIEEPLEPIDFGRIGAQAAKQVILQRIRDA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F ++   ++SG++KR+E GN I+++G  + VI RD+ I RENLR GDRVK++
Sbjct: 124 EREQILNDFLERKEHLVSGSIKRMERGNAIIEIGRLEAVIPRDQMIPRENLRVGDRVKAF 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  + R  RGPQ++LSRT P+F+ KLF +EVPEI +G++++KA +RDPG RAK+AV S+D
Sbjct: 184 LLRIDRGARGPQLILSRTAPEFVGKLFELEVPEIEDGLLEIKACARDPGLRAKIAVQSND 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDP+G CVG+RGSRV AV  E+  E+IDI+VWS D A FVI AL+PA V  +V+DE+ 
Sbjct: 244 PRIDPIGTCVGLRGSRVTAVRNEIAGEQIDIIVWSADPAQFVIAALQPAEVVSIVVDEES 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT---QFF 362
             ++V+V +  L++AIGR GQNV+LAS+LTGWTI++++EEE +   QK   ER    + F
Sbjct: 304 HAMDVVVDENNLAIAIGRNGQNVKLASELTGWTINLMSEEESA---QKTGQEREGLRELF 360

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+ ++VD+ +A +L+ EGF+ +EE+A V ++E+  IE FDE T  E++ RAR  L    I
Sbjct: 361 MEKLDVDDELADILIDEGFSSLEEIAYVPLAEMLEIEAFDEGTVNELRNRARNVLLTEAI 420

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
             ++ +    VS++L ++ G+D  +   L  +G+ T +DLA  +VD+L+
Sbjct: 421 VTEEHLE--NVSDDLINLEGMDKSLAATLARHGVLTRDDLADLAVDELV 467


>gi|302878488|ref|YP_003847052.1| NusA antitermination factor [Gallionella capsiferriformans ES-2]
 gi|302581277|gb|ADL55288.1| NusA antitermination factor [Gallionella capsiferriformans ES-2]
          Length = 490

 Score =  400 bits (1028), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 207/469 (44%), Positives = 314/469 (66%), Gaps = 4/469 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA++ EK++D++VV S +  ++  A +  +   +D+RV I+  TG+   FR  E
Sbjct: 4   EVLLLVDALSREKNVDKEVVFSALESALASATKKRFEDEADVRVAIDRNTGEFESFRCWE 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           V+  E  E     I L+ A  RDP+I +GG + +PL  +DFGR+  Q+AKQVI QK+R+A
Sbjct: 64  VMDDETFETPDLHIKLEEALKRDPAIALGGFIEEPLESVDFGRIGAQAAKQVIFQKIRDA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F D+   ++SGTVKR+E G+ IV+ G  + ++ RD+ I +EN+R GDRV+++
Sbjct: 124 EREQILADFMDRKEHLVSGTVKRLERGSAIVEFGKIEALLPRDQMIPKENMRIGDRVRAH 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V R  RGPQV+LSRT    +VKLF +EVPEI   ++++   +RDPGSRAK+AV S D
Sbjct: 184 LLRVDRGPRGPQVILSRTSTDLLVKLFELEVPEIEENLLEIVGAARDPGSRAKIAVQSHD 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDP+G CVGMRGSRVQ+V  EL  E++DI++WS D AT+VIN+L PA V+ +V+DED 
Sbjct: 244 QRIDPIGTCVGMRGSRVQSVTNELAGERVDIILWSEDPATYVINSLAPAEVSSIVVDEDR 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++V+V +E L+ AIGR GQNVRLAS++TGW ++I+T E+      ++F +    FM+ 
Sbjct: 304 HSMDVVVEEENLAQAIGRGGQNVRLASEMTGWELNIMTVEQAQEKHDQEFVKTRAIFMEK 363

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE +A +LV EGFA +EE+A V + E+  IE FDE+T  E++ RAR  L    +  +
Sbjct: 364 LDVDEEVADILVQEGFATLEEVAYVPVEEMLEIETFDEDTVNELRSRARNALLNAALVSE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWS 474
           +K+ E G+ + L  + G++ ++   L   G+ T E LA   VD+L+  S
Sbjct: 424 EKV-EHGI-DGLLKLDGMNDELARELAVKGVTTQEQLADLDVDELVELS 470


>gi|297537315|ref|YP_003673084.1| transcription termination factor NusA [Methylotenera sp. 301]
 gi|297256662|gb|ADI28507.1| transcription termination factor NusA [Methylotenera sp. 301]
          Length = 488

 Score =  400 bits (1027), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 202/465 (43%), Positives = 321/465 (69%), Gaps = 6/465 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A+EK++ ++V+ + +  ++  A +  +   +D+RV I+ E+G+   FR  +
Sbjct: 4   EILLLVDALAHEKNVSKEVIFTALELALASATKKKHHDDADVRVSIDRESGEYETFRRWQ 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            VE   +EN   QI  +   +    +++G    +PL  ++FGR+  Q+AKQVI+QKVREA
Sbjct: 64  YVEYDLLENSAYQIDEE--SEHAKGLNVGDYYEEPLESIEFGRIGAQAAKQVILQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F  +  ++++G +KR+E GN I+++G  + ++ R++ I +ENLR GDRV+++
Sbjct: 122 EREQILEDFLARDEKLVTGVIKRMEKGNAIIEVGRIESLLPREQMIPKENLRVGDRVRAF 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  + R  RGPQ++LSR  P F+V+LF +EVPEI  G+++++A +RDPG R+K+AV S+D
Sbjct: 182 LSRIERGGRGPQLILSRITPDFLVRLFELEVPEIEEGLLEIRAAARDPGLRSKIAVKSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVG CVGMRGSRVQAV  EL  E++DIV+WS + A FVINA+ PA V+ +V+DED 
Sbjct: 242 QRIDPVGTCVGMRGSRVQAVTGELAGERVDIVLWSMEPAQFVINAMSPAEVSSIVVDEDA 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++V+V +EQL+LAIGR GQNVRLAS+LTGWT++I+T ++ +   Q +F   +Q FM  
Sbjct: 302 HSMDVVVDEEQLALAIGRNGQNVRLASELTGWTLNILTVDQAAQKNQDEFAGVSQLFMDK 361

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VD  +A +LV EGF+ +EE+A V ++E+  IE FDE+T  E++ RAR  L    I  +
Sbjct: 362 LDVDAEVAEILVQEGFSTLEEIAYVPLAEMNEIEAFDEDTIEELRKRARAALLTEAIAKE 421

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           +K+ E   SE+L ++ G+D++    L   G+ TM+DLA  +VD+L
Sbjct: 422 EKVEE--ASEDLLAMEGMDAETAHLLASKGVATMDDLAELAVDEL 464


>gi|53804603|ref|YP_113778.1| transcription elongation factor NusA [Methylococcus capsulatus str.
           Bath]
 gi|53758364|gb|AAU92655.1| N utilization substance protein A [Methylococcus capsulatus str.
           Bath]
          Length = 499

 Score =  400 bits (1027), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 210/476 (44%), Positives = 316/476 (66%), Gaps = 9/476 (1%)

Query: 4   ANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLF 63
           AN+ E+L + D V+ EK I+++V+ S + ++++ A    +    D+RV I+ +TGD   F
Sbjct: 2   ANK-EILLVVDVVSNEKDIEKEVIFSAIEEALRTATIKRHDGRYDVRVSIDRKTGDYETF 60

Query: 64  RLLEVVEEVENYTC-------QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQ 116
           R  +VVE  E +         +ISL+ AR   P I +G  V +P   ++FGR+A Q+AKQ
Sbjct: 61  RRWQVVEPREEFGNGVEFPEREISLEEARKTHPGITVGEFVEEPFDSIEFGRIAAQTAKQ 120

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISREN 175
           VI+QKVREAER +    ++ +VGE+++G +KR+E GNV +DLG N +  I RDE I RE+
Sbjct: 121 VIVQKVREAERRKIADAYQSRVGELVTGVIKRIERGNVFLDLGGNVEAFIPRDEMIPRES 180

Query: 176 LRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           +R GDR++  +  VR + RGPQ+ +SRT P+ ++ LF +EVPE+   ++++K  +RDPG 
Sbjct: 181 VRSGDRLRGILSAVRPDARGPQLFVSRTAPELLIALFRLEVPEVSENLIEIKGAARDPGV 240

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV S+D  +DPVGACVGMRGSRVQAV  EL  E+IDI++W+ + A FV+NA+ PA 
Sbjct: 241 RAKVAVKSNDPRLDPVGACVGMRGSRVQAVSNELAGERIDIILWNENEAQFVVNAMSPAE 300

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF 355
           +  +V+DED   +++ V  E LS AIGR GQNVRLAS+LTGWT+++++  +     Q++ 
Sbjct: 301 IVSIVVDEDRHSMDIAVADENLSQAIGRGGQNVRLASELTGWTLNVMSSTQADAKTQEET 360

Query: 356 NERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
               Q F++ + VD  +A +LV EGF+ VEELA V   E+  IE FDE+   E++ RAR+
Sbjct: 361 RRLIQTFVEQLGVDGEVAEILVREGFSSVEELAYVPTKELLEIEEFDEDIVEELRNRARD 420

Query: 416 YLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
            L    I  ++K+ E+  SE+L  + G+D ++   L  +GI+T+EDLA  +V DLL
Sbjct: 421 ALLIKAIASEEKLEEVEPSEDLLELEGMDRELAYRLARHGIRTLEDLADQAVPDLL 476


>gi|107022573|ref|YP_620900.1| transcription elongation factor NusA [Burkholderia cenocepacia AU
           1054]
 gi|116689521|ref|YP_835144.1| transcription elongation factor NusA [Burkholderia cenocepacia
           HI2424]
 gi|254245586|ref|ZP_04938907.1| Transcription elongation factor [Burkholderia cenocepacia PC184]
 gi|105892762|gb|ABF75927.1| NusA antitermination factor [Burkholderia cenocepacia AU 1054]
 gi|116647610|gb|ABK08251.1| NusA antitermination factor [Burkholderia cenocepacia HI2424]
 gi|124870362|gb|EAY62078.1| Transcription elongation factor [Burkholderia cenocepacia PC184]
          Length = 491

 Score =  400 bits (1027), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 208/467 (44%), Positives = 325/467 (69%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P +++G  V +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKPDVEVGEYVEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVIAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLA +LTGW I+I+T +E ++ + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLAGELTGWQINIMTPDESALKQGEERDRLRALFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+    +  +L S+ GI  ++   L E+G++T +DLA  +VD+L+
Sbjct: 424 EEKVENAAL--DLKSLDGITPELLAKLAEHGVQTRDDLAELAVDELV 468


>gi|170732825|ref|YP_001764772.1| transcription elongation factor NusA [Burkholderia cenocepacia
           MC0-3]
 gi|169816067|gb|ACA90650.1| NusA antitermination factor [Burkholderia cenocepacia MC0-3]
          Length = 491

 Score =  400 bits (1027), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 208/467 (44%), Positives = 325/467 (69%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P +++G  V +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKPGVEVGEYVEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVIAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLA +LTGW I+I+T +E ++ + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLAGELTGWQINIMTPDESALKQGEERDRLRALFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+    +  +L S+ GI  ++   L E+G++T +DLA  +VD+L+
Sbjct: 424 EEKVENAAL--DLKSLDGITPELLAKLAEHGVQTRDDLAELAVDELV 468


>gi|300113656|ref|YP_003760231.1| transcription termination factor NusA [Nitrosococcus watsonii
           C-113]
 gi|299539593|gb|ADJ27910.1| transcription termination factor NusA [Nitrosococcus watsonii
           C-113]
          Length = 506

 Score =  399 bits (1025), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 209/468 (44%), Positives = 313/468 (66%), Gaps = 4/468 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DAV+ EK ++++V+   +  ++  A R  Y     ++V I+  TGD   FR  E
Sbjct: 4   EILMVVDAVSNEKGVNKEVIFQAIEAALAMATRKRYQEDIAVQVVIDRTTGDYQSFRSWE 63

Query: 68  VVE---EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           V+E   E+E    Q+ L  A  RD S ++GGVV +P+  + FGR+A Q+AKQVI+QKVRE
Sbjct: 64  VIEDEAELEAPERQMCLSEACKRDSSAEVGGVVKEPMESIAFGRIAAQTAKQVIVQKVRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVK 183
           AER +    ++ +V E++ G VKR++ GN+I+DLG N++G+I ++E I RE +RPGDR++
Sbjct: 124 AERAKVAAAYQGRVKEMVMGVVKRMDRGNIILDLGDNAEGIIPQEEMIPREAVRPGDRLR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            Y+ +VR E RGPQ+++SRT P+ +++LF +EVPEI    ++VK  +RDPG RAK+AV +
Sbjct: 184 GYLKEVRAEGRGPQLVISRTAPELLIELFKLEVPEINENRIEVKGAARDPGLRAKIAVKT 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +++ IDPVGACVGMRGSRVQAV  EL  E++DIV+W  D A FVINA+ PA    +V+DE
Sbjct: 244 NETRIDPVGACVGMRGSRVQAVSNELAGERVDIVLWDEDPARFVINAMAPAEAVSIVVDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           +   ++V V +  LS AIGR GQN+RLASQLTGW ++++TE+E     + +     Q FM
Sbjct: 304 ERHSMDVAVAEGNLSQAIGRGGQNIRLASQLTGWELNVMTEQEAEEKGESEAKSLQQMFM 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
           + ++VDE +A +LV EGF+ +EE+A V   EI +IE FD +   E++ RAR+ L    I 
Sbjct: 364 EQLDVDEEVAAILVHEGFSSIEEMAYVPEQEILAIEEFDSQIVQELRNRARDVLLTRAIA 423

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
            ++ I  + + +EL  +  +D  +  AL   GI T E+LA  +VD+L+
Sbjct: 424 NEETIETVQLDQELLDMEEVDHGLASALASKGITTKENLAEQAVDELM 471


>gi|289207909|ref|YP_003459975.1| NusA antitermination factor [Thioalkalivibrio sp. K90mix]
 gi|288943540|gb|ADC71239.1| NusA antitermination factor [Thioalkalivibrio sp. K90mix]
          Length = 495

 Score =  399 bits (1025), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 205/469 (43%), Positives = 314/469 (66%), Gaps = 8/469 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +ADAVA EK +D+D++   +  ++  A R  +G   D+RV I+ E GD   FR   
Sbjct: 4   EILLVADAVANEKGVDKDIIFDALESALAMATRKYHGGKMDVRVSIDREEGDYEAFRRWT 63

Query: 68  VVE----EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           VV+    E E+   QI L  A+ ++P   +G V+ +P+  +DFGR+A Q+AKQVI+QKVR
Sbjct: 64  VVDDEDPEFESPEYQILLSYAQQKNPDAQVGDVIEEPVEAVDFGRIAAQTAKQVIVQKVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +   E++D+VG ++ G VKR +     VDLGN ++ +I R+  I RE +R  DR+
Sbjct: 124 EAERAKVVEEYQDRVGTLVMGIVKRTDRNGTYVDLGNNAEALIPREHMIPRETVRTNDRL 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           + Y+ ++R + RGPQ++LSR+ P+F+++LF +EVPE+   I+ +   +RDPG RAK+AV 
Sbjct: 184 RGYLKEIRPDARGPQLILSRSAPEFLIELFKLEVPEVGQEIIDIMGAARDPGQRAKIAVR 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D  +DPVGACVGMRGSRVQ+V  EL  E+IDI+VW  + A FVINA+ PA V  +V+D
Sbjct: 244 SNDPRLDPVGACVGMRGSRVQSVSNELAGERIDIIVWDENPAQFVINAMSPAEVLSIVVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V +++LSLAIGR GQN+RLASQLTGW ++++TEE+ +   + +  +   FF
Sbjct: 304 EDKQSMDIAVEEDKLSLAIGRGGQNIRLASQLTGWELNVMTEEQAAEKSEAEAQQLVTFF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+A++VDE +A +LV EGF+ ++E+A V  +E+ +IE FDE+   E++ RA + L    I
Sbjct: 364 MEALDVDEEVAGILVQEGFSTLDEVAYVDEAELLAIEEFDEDIVAELRNRASDALLTRAI 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
              +  +    +E+L S+ G+   +   L  +G+ TMEDLA  + DD++
Sbjct: 424 AGGENYQP---AEDLLSMDGMTQGVANKLASHGVCTMEDLAEQAADDVV 469


>gi|171317091|ref|ZP_02906294.1| NusA antitermination factor [Burkholderia ambifaria MEX-5]
 gi|171097725|gb|EDT42552.1| NusA antitermination factor [Burkholderia ambifaria MEX-5]
          Length = 491

 Score =  399 bits (1024), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 207/467 (44%), Positives = 325/467 (69%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR+++P +++G  V +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQNPDVEVGEFVEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVIAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLA +LTGW I+I+T +E ++ + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLAGELTGWQINIMTPDESALKQGEERDRLRALFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+    +  +L  + GI  ++   L E+G++T +DLA  +VD+L+
Sbjct: 424 EEKVENAAL--DLKGLDGITPELLAKLAEHGMQTRDDLAELAVDELV 468


>gi|167570129|ref|ZP_02363003.1| transcription elongation factor NusA [Burkholderia oklahomensis
           C6786]
          Length = 491

 Score =  399 bits (1024), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 206/467 (44%), Positives = 326/467 (69%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P ++IG  + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKPDVEIGDYIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ + +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLVPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E ++ + ++ +     F+ 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESALKQNEERDALRGLFIA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ R+R+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRSRDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+    +  +L S+ G+ S++   L E G++T +DLA  +VD+L+
Sbjct: 424 EEKVETAAL--DLKSLDGVTSELLAKLAEQGVQTRDDLAELAVDELV 468


>gi|167562940|ref|ZP_02355856.1| transcription elongation factor NusA [Burkholderia oklahomensis
           EO147]
          Length = 491

 Score =  399 bits (1024), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 206/467 (44%), Positives = 326/467 (69%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P +++G  + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKPDVEVGDYIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E ++ + ++ +     F+ 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESALKQNEERDALRGLFIA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ R+R+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRSRDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+    +  +L S+ G+ S++   L E G++T +DLA  +VD+L+
Sbjct: 424 EEKVETAAL--DLKSLDGVTSELLAKLAEQGVQTRDDLAELAVDELV 468


>gi|167836822|ref|ZP_02463705.1| transcription elongation factor NusA [Burkholderia thailandensis
           MSMB43]
          Length = 491

 Score =  399 bits (1024), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 207/467 (44%), Positives = 325/467 (69%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P +++G  + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKPEVEVGDYIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQNEERDALRGLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +LV EGF  +EE+A V ++E+  IE FDE+T  E++ R+R+ L  + I  
Sbjct: 364 RLDVDEEVADILVDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRSRDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+    +  +L S+ G+ +++   L E G++T +DLA  +VD+L+
Sbjct: 424 EEKVETAAL--DLKSLDGVTAELLTKLAEQGVQTRDDLAELAVDELV 468


>gi|115351434|ref|YP_773273.1| transcription elongation factor NusA [Burkholderia ambifaria AMMD]
 gi|170700023|ref|ZP_02891048.1| NusA antitermination factor [Burkholderia ambifaria IOP40-10]
 gi|172060473|ref|YP_001808125.1| transcription elongation factor NusA [Burkholderia ambifaria
           MC40-6]
 gi|115281422|gb|ABI86939.1| NusA antitermination factor [Burkholderia ambifaria AMMD]
 gi|170135082|gb|EDT03385.1| NusA antitermination factor [Burkholderia ambifaria IOP40-10]
 gi|171992990|gb|ACB63909.1| NusA antitermination factor [Burkholderia ambifaria MC40-6]
          Length = 491

 Score =  398 bits (1022), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 206/467 (44%), Positives = 325/467 (69%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR+++P +++G  V +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQNPDVEVGEFVEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVIAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLA +LTGW I+I+T +E ++ + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLAGELTGWQINIMTPDESALKQGEERDRLRALFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+    +  +L  + G+  ++   L E+G++T +DLA  +VD+L+
Sbjct: 424 EEKVENAAL--DLKGLDGVTPELLAKLAEHGMQTRDDLAELAVDELV 468


>gi|221214880|ref|ZP_03587848.1| transcription termination factor NusA [Burkholderia multivorans
           CGD1]
 gi|221165107|gb|EED97585.1| transcription termination factor NusA [Burkholderia multivorans
           CGD1]
          Length = 491

 Score =  398 bits (1022), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 207/467 (44%), Positives = 324/467 (69%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P +++G  + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKPDVEVGEYIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVIAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQGEERDRLRALFMT 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+    +  +L S+ G+  ++   L E+G+ T +DLA  +VD+L+
Sbjct: 424 EEKVENAAL--DLKSLDGVTPELLAKLAEHGVATRDDLAELAVDELV 468


>gi|206559872|ref|YP_002230636.1| transcription elongation factor NusA [Burkholderia cenocepacia
           J2315]
 gi|198035913|emb|CAR51805.1| N utilization substance protein A [Burkholderia cenocepacia J2315]
          Length = 491

 Score =  397 bits (1021), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 207/467 (44%), Positives = 324/467 (69%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P +++G  V +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKPDVEVGEYVEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVIAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLA +LTGW I+I+T +E ++ + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLAGELTGWQINIMTPDESALKQGEERDRLRALFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+    +  +L S+ GI  ++   L E+ ++T +DLA  +VD+L+
Sbjct: 424 EEKVENAAL--DLKSLDGITPELLAKLAEHAVQTRDDLAELAVDELV 468


>gi|77165586|ref|YP_344111.1| transcription elongation factor NusA [Nitrosococcus oceani ATCC
           19707]
 gi|76883900|gb|ABA58581.1| NusA antitermination factor [Nitrosococcus oceani ATCC 19707]
          Length = 506

 Score =  397 bits (1021), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 211/480 (43%), Positives = 319/480 (66%), Gaps = 7/480 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DAV+ EK ++++V+   +  ++  A R  Y     ++V I+  TGD   FR  E
Sbjct: 4   EILMVVDAVSNEKGVNKEVIFQAIEAALAMATRKRYQEDIAVQVVIDRTTGDYQSFRSWE 63

Query: 68  VVE---EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           V+E   E++    Q+ L  A  RDP+ ++ G V +P+  + FGR+A Q+AKQVI+QKVRE
Sbjct: 64  VIEDEAELDAPERQMHLSEACKRDPNAEVSGFVKEPMESIAFGRIAAQTAKQVIVQKVRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVK 183
           AER +    ++ ++ E++ G VKR++ GN+I+DLG N++G++ ++E I RE +RPGDR++
Sbjct: 124 AERAKVVAAYRGRIKEMVMGVVKRMDRGNIILDLGDNAEGIVPQEEMIPREAVRPGDRLR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            Y+ +VR E RGPQ+++SRT P+ +++LF +EVPEI    ++VK  +RDPG RAK+AV +
Sbjct: 184 GYLKEVRAEGRGPQLVISRTAPELLIELFKLEVPEINENRIEVKGAARDPGLRAKIAVKT 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +++ IDPVGACVGMRGSRVQAV  EL  E++DIV+W  D A FVINA+ PA V  +V+DE
Sbjct: 244 NETRIDPVGACVGMRGSRVQAVSNELAGERVDIVLWDEDPARFVINAMAPAEVASIVVDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           +   ++V V +  LS AIGR GQN+RLASQLTGW ++++TE+E     + +     Q FM
Sbjct: 304 ERHSMDVAVAEGNLSQAIGRGGQNIRLASQLTGWELNVMTEQEAEEKGESEAKSLQQMFM 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
           + ++VDE +A +LV EGF+ +EE+A V   EI +IE FD +   E++ RAR+ L    I 
Sbjct: 364 EQLDVDEEVAAILVHEGFSSIEEMAYVPEQEILAIEEFDSQIVQELRNRARDVLLTRAIA 423

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            ++ I  + + +EL  +  ID  +  AL   GI T E+LA  +VD+L+   E +G N EK
Sbjct: 424 NEETIETVQLDQELLDMEEIDHGLASALASKGIVTKENLAEQAVDELM---EIEGMNREK 480


>gi|161524929|ref|YP_001579941.1| transcription elongation factor NusA [Burkholderia multivorans ATCC
           17616]
 gi|189350321|ref|YP_001945949.1| transcription elongation factor NusA [Burkholderia multivorans ATCC
           17616]
 gi|221197756|ref|ZP_03570802.1| transcription termination factor NusA [Burkholderia multivorans
           CGD2M]
 gi|221204686|ref|ZP_03577703.1| transcription termination factor NusA [Burkholderia multivorans
           CGD2]
 gi|160342358|gb|ABX15444.1| NusA antitermination factor [Burkholderia multivorans ATCC 17616]
 gi|189334343|dbj|BAG43413.1| N utilization substance protein A [Burkholderia multivorans ATCC
           17616]
 gi|221175543|gb|EEE07973.1| transcription termination factor NusA [Burkholderia multivorans
           CGD2]
 gi|221181688|gb|EEE14089.1| transcription termination factor NusA [Burkholderia multivorans
           CGD2M]
          Length = 491

 Score =  397 bits (1021), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 207/467 (44%), Positives = 324/467 (69%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P +++G  + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKPDVEVGEYIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQGEERDRLRALFMT 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+    +  +L S+ G+  ++   L E+G+ T +DLA  +VD+L+
Sbjct: 424 EEKVENAAL--DLKSLDGVTPELLAKLAEHGVATRDDLAELAVDELV 468


>gi|119477402|ref|ZP_01617593.1| N utilization substance protein A [marine gamma proteobacterium
           HTCC2143]
 gi|119449328|gb|EAW30567.1| N utilization substance protein A [marine gamma proteobacterium
           HTCC2143]
          Length = 502

 Score =  397 bits (1020), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 213/480 (44%), Positives = 322/480 (67%), Gaps = 6/480 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK + RD++   +  ++  A +  Y   +DI V I+ E+G    FR  E
Sbjct: 4   EILLVAEAVSNEKGVPRDIIFEAIEQALATATKKRYDEDADIHVIIDRESGGYETFRRWE 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV  +E+     Q + + A ++D S+ IG V  + +  + FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVSDDEMALLGTQFTTEEAAEKDTSLQIGDVYEEKIENVGFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   E++ +VGE+ISGTVK+V   N+IVDLGN ++G + R+E + RE  R GDRV++
Sbjct: 124 ERAQVVEEYEGRVGELISGTVKKVTRDNIIVDLGNNAEGSLPREELVGREVFRMGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + DVR E RGPQ+ LSR   + +++LF +EVPEI   ++ ++A +RDPGSRAK+AV ++
Sbjct: 184 ILQDVRPEARGPQLFLSRACSEMLIELFKVEVPEISEEVIDIRAAARDPGSRAKIAVKTN 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+GACVGMRGSRVQAV  EL +E++DI++W  + A  VINA+ PA V  +V+DED
Sbjct: 244 DGRIDPIGACVGMRGSRVQAVSGELGNERVDIILWDDNPAQLVINAMAPAEVESIVVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V V  + L+ AIGR GQNVRLAS LTGWTI++++ E+ S   +K+       FM+
Sbjct: 304 SRSMDVAVAADNLAQAIGRSGQNVRLASDLTGWTINVMSLEDASEKHEKESGAVIAEFME 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
           +++VDE IA +LV EGF  +EE+A V + E+A IEGFDE+ A E++ RA++ L    I  
Sbjct: 364 SLDVDEDIAEVLVDEGFTSLEEVAYVPLEELAGIEGFDEDIAEELRARAKDALLTQAIAS 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
           ++++ ++  +E+L ++ G++  +   L   GI TMEDLA  +V+DL+   G  E + G +
Sbjct: 424 EEQLGDVEPAEDLLTMDGMERHLAFVLASKGIITMEDLAEQAVEDLMDIEGLEEKQAGEL 483


>gi|167582087|ref|ZP_02374961.1| transcription elongation factor NusA [Burkholderia thailandensis
           TXDOH]
          Length = 491

 Score =  397 bits (1020), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 206/467 (44%), Positives = 324/467 (69%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P +++G  + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKPGVEVGDYIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQNEERDALRGLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ R+R+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRSRDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+    +  +L S+ G+  ++   L E G++T +DLA  +VD+L+
Sbjct: 424 EEKVETAAL--DLKSLDGVTPELLAKLAEQGVQTRDDLAELAVDELV 468


>gi|149375756|ref|ZP_01893524.1| N utilization substance protein A [Marinobacter algicola DG893]
 gi|149359881|gb|EDM48337.1| N utilization substance protein A [Marinobacter algicola DG893]
          Length = 497

 Score =  397 bits (1019), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 208/481 (43%), Positives = 319/481 (66%), Gaps = 7/481 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+L + ++V+ EK +++DV+   +  ++  AA+  Y    +DIRV I+  TG+   FR  
Sbjct: 4   EILLVVESVSNEKGVEKDVIFEAIELALATAAKKRYDDEEADIRVSIDRRTGEYETFRRW 63

Query: 67  EVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
            VV+   V     +++++ A D D S+  G    + +  + FGR+  Q+AKQ+I QKVRE
Sbjct: 64  LVVDNDAVPALGTELTMQEAEDIDKSLQPGDTHEEKVESVAFGRIGAQAAKQIIFQKVRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVK 183
           AER +    ++D+VGE++SGTVK+V   NVIVDLG N++ ++ R+  I RE  R GDRV+
Sbjct: 124 AERTKIVDSYRDRVGELVSGTVKKVTRDNVIVDLGANAEALLPREHLIPRETFRMGDRVR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           S + ++R + RGPQ++LSRT PQ +++LF +EVPEI   +++++  +RDPGSRAK+AV +
Sbjct: 184 SLLQEIRTDHRGPQLILSRTDPQMLIELFRIEVPEIAEELIEIRGAARDPGSRAKIAVKT 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  IDPVGACVGMRGSRVQAV  EL  E++DIV+W  + A  VINA+ PA V  +V+DE
Sbjct: 244 NDRRIDPVGACVGMRGSRVQAVSNELGGERVDIVLWDDNPAQLVINAMAPAEVASIVMDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   +EV V ++ L+ AIGR GQNVRLA+ LTGWT++++TEEE    +++++N   + F 
Sbjct: 304 DRHTMEVAVAEDNLAQAIGRNGQNVRLATDLTGWTLNVMTEEEAGERQEQEYNSLLEHFT 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
             ++VDE  A +L+ EGF  +EE+A + + E+ +I+GFDEET  E++ RA++ L    + 
Sbjct: 364 GNLDVDEEFAGVLIEEGFTSIEEVAYIPMEEMLAIDGFDEETVTELRRRAKDALLNQALA 423

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGN 480
            ++ +     +E+L ++ G+D  +   L   GI+TMEDLA  SVDDLL   G  E + G 
Sbjct: 424 SEEALEGAEPAEDLLAMDGMDRGLAFKLAGMGIRTMEDLAEQSVDDLLDIEGMEEERAGQ 483

Query: 481 I 481
           +
Sbjct: 484 L 484


>gi|312796186|ref|YP_004029108.1| N utilization substance protein A [Burkholderia rhizoxinica HKI
           454]
 gi|312167961|emb|CBW74964.1| N utilization substance protein A [Burkholderia rhizoxinica HKI
           454]
          Length = 491

 Score =  396 bits (1018), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 206/467 (44%), Positives = 322/467 (68%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++++DVV + +  ++  A + L+    DIRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVNKDVVFAALEAALASATKKLFDEDVDIRVSIDRESGEHETFRRWR 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           +V +   ++    +I L  AR++DP   + G + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  IVPDEAGLQQPDQEILLFEAREQDPDAQLDGYIEEPIPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F ++  +I++G+VKR++ GN++V+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDFLERGEKIMTGSVKRLDKGNLVVESGRVEALLRRDQLIPKENLRIGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF  EVPEI  G++++K+ +RDPG RAK+AV + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEFEVPEIEQGLLEIKSAARDPGVRAKIAVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENVDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++       FM+
Sbjct: 304 KHAMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAEKQSQERKVLRDLFME 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+     S EL S+ G+D ++   L E+ I T +DLA  +VD+L+
Sbjct: 424 EEKVE--NASLELKSLEGMDRELLAKLAEHEIHTRDDLAELAVDELV 468


>gi|186476488|ref|YP_001857958.1| transcription elongation factor NusA [Burkholderia phymatum STM815]
 gi|184192947|gb|ACC70912.1| NusA antitermination factor [Burkholderia phymatum STM815]
          Length = 491

 Score =  396 bits (1018), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 209/467 (44%), Positives = 323/467 (69%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV + +  ++  A++ L+   +DIRV I+ E+G+   FR  +
Sbjct: 4   EVLMLVDALAREKNVDKDVVFAALEAALASASKKLFDEDADIRVHIDRESGEHETFRRWK 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++     I   + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDQEILLFEAREQKADAQIDDFLEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F ++   I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDFLERGESIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENVDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++       FM 
Sbjct: 304 KHSMDVVVDESELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQNQERGVLRDLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+   GV+ +L S+ G+D+++   L E+ I+T +DLA  +VD+L+
Sbjct: 424 EEKVE--GVALDLKSLDGMDAELLAKLAEHQIQTRDDLAELAVDELV 468


>gi|226946308|ref|YP_002801381.1| transcription elongation factor NusA [Azotobacter vinelandii DJ]
 gi|226721235|gb|ACO80406.1| Transcription termination factor NusA [Azotobacter vinelandii DJ]
          Length = 493

 Score =  396 bits (1018), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 215/480 (44%), Positives = 324/480 (67%), Gaps = 6/480 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + ++V+ EK +   V+   +  ++  A +  Y    D+RV+IN ++G    FR   
Sbjct: 4   EVLLVVESVSNEKGVPAGVIFEALELALATATKKRYEDDVDLRVQINRQSGAYDTFRRWT 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VVE+  +EN   +++L  AR+R P + +G V+ + +  ++FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVEDDLLENPAAELTLDEARERKPDVRVGDVIEEKIESIEFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +    ++++VGEIISGTVK+V   NVIVDLGN ++ ++ R++ I RE  R G RV++
Sbjct: 124 ERAQVVDVYRERVGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIIPRETFRVGARVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + ++R E RGPQ++LSRT P  +++LF +EVPEI  G+++VKA SRDPGSRAK+AV S 
Sbjct: 184 LLKEIRPENRGPQLILSRTAPGMLIELFRIEVPEIAEGLIEVKAASRDPGSRAKIAVRSK 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++DED
Sbjct: 244 DKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMAPAEVAAIIVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V V  + L+ AIGR GQNVRLASQLTGWT++++TE +    ++ +  +  + F++
Sbjct: 304 AHAMDVAVADDNLAQAIGRGGQNVRLASQLTGWTLNVMTEGDIQAKQRAETGDILRSFVE 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + VDE +A +LV EGF  +EE+A V + E+ +I+GFDEE   E++ RA++ L    I  
Sbjct: 364 ELEVDEELAQVLVEEGFTSLEEIAYVPMEEMLAIDGFDEEIVNELRARAKDRLLTKAIAT 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
           ++K+ E   +E+L S+ G+D ++ V L   G+ T EDLA  S+DDLL   G  E + G +
Sbjct: 424 EEKLVEAHPAEDLLSLEGMDKELAVELAMRGVITREDLAEQSIDDLLDIDGMDEERAGKL 483


>gi|323525724|ref|YP_004227877.1| NusA antitermination factor [Burkholderia sp. CCGE1001]
 gi|323382726|gb|ADX54817.1| NusA antitermination factor [Burkholderia sp. CCGE1001]
          Length = 491

 Score =  396 bits (1018), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 208/467 (44%), Positives = 323/467 (69%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV + +  ++  A++ L+   +DIRV I+ E+G+   FR  +
Sbjct: 4   EVLMLVDALAREKNVDKDVVFAALEAALASASKKLFEEDADIRVHIDRESGEHETFRRWK 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P I I   + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDQEILLFEAREQKPEIQIDDYIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F ++   I++G+VKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDFLERGEHIMTGSVKRLDKGNFIVETGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENVDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++       FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQNQERGVLRDLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+    V+ +L S+ G+D+ +   L E+ I+T ++LA  +VD+L+
Sbjct: 424 EEKVE--NVALDLKSLDGMDADLLAKLAEHQIQTRDELAELAVDELV 468


>gi|307730029|ref|YP_003907253.1| transcription termination factor NusA [Burkholderia sp. CCGE1003]
 gi|307584564|gb|ADN57962.1| transcription termination factor NusA [Burkholderia sp. CCGE1003]
          Length = 491

 Score =  396 bits (1017), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 208/467 (44%), Positives = 323/467 (69%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV + +  ++  A++ L+   +DIRV I+ E+G+   FR  +
Sbjct: 4   EVLMLVDALAREKNVDKDVVFAALEAALASASKKLFEEDADIRVHIDRESGEHETFRRWK 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P I I   + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDQEILLFEAREQKPEIQIDEYIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F ++   I++G+VKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDFLERGEHIMTGSVKRLDKGNFIVETGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENVDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++       FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQNQERGVLRDLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+    V+ +L S+ G+D+ +   L E+ I+T ++LA  +VD+L+
Sbjct: 424 EEKVE--NVALDLKSLDGMDADLLAKLAEHQIQTRDELAELAVDELV 468


>gi|118594129|ref|ZP_01551476.1| NusA antitermination factor [Methylophilales bacterium HTCC2181]
 gi|118439907|gb|EAV46534.1| NusA antitermination factor [Methylophilales bacterium HTCC2181]
          Length = 488

 Score =  396 bits (1017), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 198/464 (42%), Positives = 316/464 (68%), Gaps = 2/464 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A+EK++ RD++ + +  ++  A +  +    DIRVEI+ E+G+   FR   
Sbjct: 4   EILLLVDALAHEKNVARDIIFTALELALASATKKKFEADVDIRVEIDKESGEYESFRCWT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VE+      +  L    DR   +++G V+ + +  ++FGR+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEDELLEIPEAELSPTDDRAKDLEVGDVIKEAIDSVEFGRIGAQAAKQVILQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           ++   +F  +  +++SG ++R+E GN I+++G  D V+ RD  I +ENLR GDRV++ + 
Sbjct: 124 EQILNDFLARDEKLVSGQIRRMERGNAIIEVGRLDAVLPRDHMIPKENLRVGDRVRAILS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            +    RGPQ++LSRT P+F+++LF +EVPEI  G++++ + SRDPG R+K+AV ++D  
Sbjct: 184 KIETGMRGPQLILSRTAPEFLIRLFELEVPEIEEGLLEIMSASRDPGLRSKIAVKANDQR 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG CVGMRGSRVQAV  EL  E++DIV+WS + A FVINA+ PA V+ +V+DED   
Sbjct: 244 LDPVGTCVGMRGSRVQAVTGELAGERVDIVLWSIEPAQFVINAMAPAEVSSIVVDEDKHS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           ++++V ++QL+ AIGR GQN+RLAS+LTGW ++I+TEEE     ++++   +Q F++ ++
Sbjct: 304 MDLVVVEDQLAQAIGRNGQNIRLASELTGWELNILTEEESDQKNKEEYTSASQLFIEKLD 363

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           VDE +A +LV EGF+ +EE+A V + E+  IE FDE+T  E++ RA   +    I  ++ 
Sbjct: 364 VDEDVADILVQEGFSSIEEVAYVPLEEMVQIEAFDEDTVNELRSRASAAILTAAIAKEES 423

Query: 428 IRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           +  +  +E+L S+ G+D  +   +   GI TMEDLA  SVD+LL
Sbjct: 424 V--VDPAEDLKSMDGMDIDMAKLMASKGIVTMEDLAELSVDELL 465


>gi|261856064|ref|YP_003263347.1| NusA antitermination factor [Halothiobacillus neapolitanus c2]
 gi|261836533|gb|ACX96300.1| NusA antitermination factor [Halothiobacillus neapolitanus c2]
          Length = 491

 Score =  395 bits (1015), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 215/471 (45%), Positives = 314/471 (66%), Gaps = 9/471 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +ADAV+ EK +DR+V+   +  ++ +AAR  +G   D RV+I+ ETGD   FR  +
Sbjct: 4   EILFVADAVSNEKGVDREVIFEAIEAALAQAARKRHGGDIDTRVQIDHETGDYRTFRRWQ 63

Query: 68  VVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VVE    E    ++ L+ A+  DP I +G  V + +  ++FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVEGDSSEFPEREMILEAAQMDDPDIKVGEFVEEEIESVEFGRIAAQAAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER +    + D+ G +I G +KR++ GNVI+DLG N + +I RDE I RE +RPGDR++ 
Sbjct: 124 ERRQIVDAYIDRKGSLIMGLIKRIDRGNVILDLGGNVEALIPRDEMIGREAVRPGDRLRG 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+ DVR E RGPQ+ +SRT PQF+++LF +EVPEI  G++++K  +RDPG RAK+AV S 
Sbjct: 184 YLADVRHEPRGPQLFVSRTAPQFLIELFKLEVPEIEQGLIEIKGAARDPGLRAKIAVESR 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           DS IDPVG CVGMRGSRVQ+V  EL  E++DI++W  + A FVINA+ PA V  +V+DED
Sbjct: 244 DSRIDPVGTCVGMRGSRVQSVTNELNGERVDIIIWDSNPAQFVINAMSPAEVVSIVVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V V +E+LS AIGR GQNVRLASQLTGW ++++ EEE     + +    T+ FM+
Sbjct: 304 RHSMDVAVTEEKLSQAIGRGGQNVRLASQLTGWHLNVMGEEEAVAKVETETRRATEAFMR 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL--EGIDI 422
            ++VDE +A +LV  GF+ +EE+A V  +E+  +EGFDE    E++ RAR+ L  + I  
Sbjct: 364 DLDVDEDVAAVLVEAGFSSLEEIAYVPTAELLDVEGFDEGIVEELRNRARDALLVQAISD 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGW 473
              +   EL    ++  + G+  ++   L   G+ T +DLA  SVD++  +
Sbjct: 424 DAGESTEEL----DIAQLEGMTPELLTILNAAGVHTSDDLAELSVDEMTAF 470


>gi|170696460|ref|ZP_02887586.1| NusA antitermination factor [Burkholderia graminis C4D1M]
 gi|170138613|gb|EDT06815.1| NusA antitermination factor [Burkholderia graminis C4D1M]
          Length = 491

 Score =  395 bits (1015), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 207/467 (44%), Positives = 323/467 (69%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV + +  ++  A++ L+   +DIRV I+ E+G+   FR  +
Sbjct: 4   EVLMLVDALAREKNVDKDVVFAALEAALASASKKLFEEDADIRVHIDRESGEHETFRRWK 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P I I   + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDQEILLFEAREQKPEIQIDDYIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F ++   I++G+VKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDFLERGEHIMTGSVKRLDKGNFIVETGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENVDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++       FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQNQERGVLRDLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ R+R+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRSRDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+    V+ +L S+ G+D+ +   L E+ I+T ++LA  +VD+L+
Sbjct: 424 EEKVE--NVALDLKSLDGMDADLLAKLAEHQIQTRDELAELAVDELV 468


>gi|270158099|ref|ZP_06186756.1| transcription elongation protein NusA [Legionella longbeachae
           D-4968]
 gi|289163636|ref|YP_003453774.1| Transcription elongation protein nusA [Legionella longbeachae
           NSW150]
 gi|269990124|gb|EEZ96378.1| transcription elongation protein NusA [Legionella longbeachae
           D-4968]
 gi|288856809|emb|CBJ10620.1| Transcription elongation protein nusA [Legionella longbeachae
           NSW150]
          Length = 492

 Score =  395 bits (1014), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 200/480 (41%), Positives = 327/480 (68%), Gaps = 7/480 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL +A+A++ E+ + +DV++  +  +++ A R ++G    +R++++P TGD   FR  +
Sbjct: 4   ELLLVAEALSNERGVSKDVIILAIQAALESATRKIFGLDIGVRIKLDPRTGDYETFRYWD 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV  +++E+   Q++L+ A+ R+PS+++G  + + +P ++FGR+  Q+A+QVI+QKVREA
Sbjct: 64  VVTDDDLEDPDRQLTLEQAKTRNPSVNVGDRIEESIPSIEFGRIEAQAARQVIMQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER+    +F+ K+G++I GTVK+V   N+I+DLG  ++  + R E +  E  RP DRV++
Sbjct: 124 ERELVIDQFRGKLGQLIYGTVKKVTRDNIIIDLGGKAEAFLPRTEMLPHEMFRPNDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+Y++  + RGPQ+ +SRT  + +++LF +EVPEI   +++VKA +RDPG+RAK+AV ++
Sbjct: 184 YLYEITPQARGPQLFVSRTRNEMLIELFRIEVPEIGENVIEVKAAARDPGNRAKIAVKTN 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E++DI++W  + A  VINA+ PA ++ +V+DED
Sbjct: 244 DGRIDPVGACVGMRGARVQAVSSELGGERVDIILWDDNPAQLVINAMAPADISSIVVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V K+QLS AIGR GQNVRLASQLTGWT++++T +E      ++ ++  + F  
Sbjct: 304 THTMDLAVEKDQLSQAIGRNGQNVRLASQLTGWTLNVMTTDEFENKNLEESSKIIKLFTS 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
           A+ +DE IA LLVA GF+ +EE+A V   E+ +IE FD+E   E++ RA + L  + ++ 
Sbjct: 364 ALEIDEEIATLLVAHGFSSLEEIAYVPKEELLAIEEFDDEIVEELRNRANDNLLTMALSS 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            K +      + L ++ G+   +   L   GI +MEDLA  SVD+LL   G +E+K   +
Sbjct: 424 NKDLSG-QPDDSLLTMEGMTQDLANQLATRGITSMEDLAEQSVDELLELDGMTEDKAAAL 482


>gi|85712989|ref|ZP_01044027.1| transcription elongation factor NusA [Idiomarina baltica OS145]
 gi|85693158|gb|EAQ31118.1| transcription elongation factor NusA [Idiomarina baltica OS145]
          Length = 497

 Score =  395 bits (1014), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 201/473 (42%), Positives = 315/473 (66%), Gaps = 5/473 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK++ R+ +   +  ++  A +  Y    D+R++I+  TG+   FR   
Sbjct: 4   EILLVAEAVSNEKAVPREKIFEALESALAHATKKKYDGDIDVRIDIDRATGEFDTFRRWL 63

Query: 68  VVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           VVE+    +E+   +ISL  A+  DPS+ +G  V + +  + F R+  Q+AKQVI+QKVR
Sbjct: 64  VVEDTDTGLEHPYREISLSAAQYEDPSLQLGDYVEEQIESIQFDRITTQTAKQVIVQKVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +   E++D+VGE+++GTVKR    +VI+DLGN ++ +I R+E + RE++RPGDRV
Sbjct: 124 EAERAQVVDEYRDQVGELVTGTVKRANREHVILDLGNNAEAIIYREEMLPRESVRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  +YDVR E RG Q+ ++R+ P+F+++LF +EVPEI   ++++K  +RDPGSRAK+AV 
Sbjct: 184 RGLLYDVRPEARGAQLFVTRSRPEFLMELFRIEVPEIGEEMIELKGAARDPGSRAKIAVK 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D  IDPVGACVGMRG+RVQAV  EL  E++DIV+W  + A FVINA+ PA V  +V+D
Sbjct: 244 SNDRRIDPVGACVGMRGARVQAVSGELGGERVDIVLWDDNPAQFVINAMAPAEVASIVVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIG+ GQNVRLASQL+GWT++++T ++ +   + + N     F
Sbjct: 304 EDAHTMDIAVAADNLAQAIGKSGQNVRLASQLSGWTLNVMTVDDFNEKNEAETNRLLNLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           + ++++DE  A +LV EGF+ +EE+A V ++E   IEG DE+   E++GRAR YL    +
Sbjct: 364 ITSLDIDEDFASVLVDEGFSSLEEVAYVPVAEFLEIEGMDEDIVEELRGRARAYLTTKAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSE 475
             ++ +      E L  + G+D  +   L   G+ ++E+LA   +DDL G  E
Sbjct: 424 ADEESLESAEPDESLLGLEGMDRHLAYVLASRGVTSLEELAEQGIDDLAGIEE 476


>gi|253995583|ref|YP_003047647.1| transcription elongation factor NusA [Methylotenera mobilis JLW8]
 gi|253982262|gb|ACT47120.1| NusA antitermination factor [Methylotenera mobilis JLW8]
          Length = 488

 Score =  395 bits (1014), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 200/466 (42%), Positives = 323/466 (69%), Gaps = 6/466 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A+EK++D+ V+ + +  ++  A +  +   +D+RV I+ E+G+   FR  +
Sbjct: 4   EILLLVDALAHEKNVDKSVIFTALELALASATKKKHHDDADVRVAIDRESGEYQTFRRWQ 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            V+   +EN   QI  +   +R   + IG    +PL  ++FGR+  Q+AKQVI+QKVREA
Sbjct: 64  YVDYDLLENSAYQIDEE--DERSKGLTIGDYYEEPLENLEFGRIGAQAAKQVILQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F  +  ++++G +KR+E GN I+++G  + ++ R++ I +ENLR GDRV++Y
Sbjct: 122 EREQILQDFLARDEKLVTGVIKRMEKGNAIIEVGRIESLLPREQMIPKENLRVGDRVRAY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  + R  RGPQ++LSR  P+F+V+LF +EVPEI  G++++++ +RDPG R+K+AV S+D
Sbjct: 182 LLRIERSGRGPQLILSRIIPEFLVRLFELEVPEIEEGLLEIRSAARDPGLRSKIAVKSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVG CVGMRGSRVQAV  EL  E++DIV+WS + A FVINA+ PA V+ +V+DED 
Sbjct: 242 QRLDPVGTCVGMRGSRVQAVTGELAGERVDIVLWSMEPAQFVINAMSPAEVSSIVVDEDA 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++V+V +EQL+LAIGR GQNVRLAS+LTGWT++I+T ++ +   Q+++   +Q FM+ 
Sbjct: 302 HSMDVVVEEEQLALAIGRSGQNVRLASELTGWTLNILTVDQAAQKNQEEYAGVSQLFMEK 361

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE +A +LV EGF+ +EE+A V ++E+  IE FDE+T  E++ RAR  L  +   + 
Sbjct: 362 LDVDEEVAEILVQEGFSTLEEIAYVPLAEMNQIEAFDEDTVEELRKRARAAL--LTEAIA 419

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           K+ +    +E+L ++ G+D      L   GI TM+DLA  ++D+L+
Sbjct: 420 KEEKVEEAAEDLLTLEGMDDATAHQLAAKGISTMDDLAELAIDELV 465


>gi|88607683|ref|YP_505048.1| transcription elongation factor NusA [Anaplasma phagocytophilum HZ]
 gi|88598746|gb|ABD44216.1| N utilization substance protein A [Anaplasma phagocytophilum HZ]
          Length = 514

 Score =  394 bits (1013), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 212/526 (40%), Positives = 339/526 (64%), Gaps = 29/526 (5%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + + + LEL+++A  VA ++ +D  V++  +  +++  +   YG  S I+V I+ +TG I
Sbjct: 4   LYNFDNLELIRVARDVAEQRGLDLGVIVEAIEQALEVVSHVKYGD-SKIKVSIDRKTGVI 62

Query: 61  SLFRLLEVVEE---VENYTCQIS------LKVARDRDP-----SIDIGGVVSDPLPPMDF 106
           S+ R + VV++    ++  C I+       K+ R  D       +++G ++ +PLPP+D 
Sbjct: 63  SVARQVLVVKDDFTFDSEECGIAAEEVNKYKLVRISDALADGEQVEVGDILLEPLPPIDI 122

Query: 107 GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIR 166
              + + AKQ + Q +   ER RQY EFKD+VG+++ G VKRVEY N+IVDL  S+G + 
Sbjct: 123 DYNSAKLAKQKVAQLIMMQERKRQYEEFKDRVGDLVYGVVKRVEYNNIIVDLNGSEGYLP 182

Query: 167 RDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
              TI  E  RP  RVK+++ DVRRE  GPQ+ LSR   +FM  LF  E+ E+Y+GIV +
Sbjct: 183 VYNTIRGEVFRPNARVKAHVEDVRREATGPQIFLSRVSKRFMELLFKQEISEVYDGIVTI 242

Query: 227 KAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATF 286
           KA++RD GSR+K+AV+SSD ++DPVGAC+G RG R+Q +V EL  EKID++ +SPD A F
Sbjct: 243 KALARDAGSRSKVAVYSSDKNVDPVGACIGARGVRIQNIVAELNGEKIDVIPYSPDLAKF 302

Query: 287 VINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           V++A+ PA V KV++DEDV +IE++VP+ Q+SLAIGR GQN+RLAS+L GW+ID+I +E 
Sbjct: 303 VVSAIAPAEVVKVIIDEDVEKIELVVPESQVSLAIGRYGQNIRLASELVGWSIDVIGDET 362

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
           +S  + K+ +   + F++ ++V+EII  LLV+EGF+ +E+L   ++ +IA+++GF+EE A
Sbjct: 363 ESTRKAKELSSGAKVFVEDLDVEEIIGQLLVSEGFSSIEDLDRAEVGDIAAVDGFNEEIA 422

Query: 407 VEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
            E++ RA E L        + +  + VSEE+  +P +  +  V L ENG++++ED+A   
Sbjct: 423 RELKTRAAECLARKRKEAIEMLESMSVSEEVMQLPFLQVEDIVKLSENGVRSVEDIASLC 482

Query: 467 VDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
            D+              F   +      K+QV+S+I+ +R ++GW+
Sbjct: 483 TDE--------------FYDIVPRAKLSKEQVDSVILESRKRVGWV 514


>gi|83719213|ref|YP_443082.1| transcription elongation factor NusA [Burkholderia thailandensis
           E264]
 gi|167620248|ref|ZP_02388879.1| transcription elongation factor NusA [Burkholderia thailandensis
           Bt4]
 gi|257139311|ref|ZP_05587573.1| transcription elongation factor NusA [Burkholderia thailandensis
           E264]
 gi|83653038|gb|ABC37101.1| N utilization substance protein A [Burkholderia thailandensis E264]
          Length = 491

 Score =  394 bits (1013), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 205/467 (43%), Positives = 323/467 (69%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P +++G  + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKPGVEVGDYIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQNEERDALRGLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ R+R+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRSRDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+    +  +L S+ G+  ++   L E  ++T +DLA  +VD+L+
Sbjct: 424 EEKVETAAL--DLKSLDGVTPELLAKLAEQSVQTRDDLAELAVDELV 468


>gi|91782988|ref|YP_558194.1| transcription elongation factor NusA [Burkholderia xenovorans
           LB400]
 gi|296158771|ref|ZP_06841600.1| NusA antitermination factor [Burkholderia sp. Ch1-1]
 gi|91686942|gb|ABE30142.1| NusA antitermination factor [Burkholderia xenovorans LB400]
 gi|295890976|gb|EFG70765.1| NusA antitermination factor [Burkholderia sp. Ch1-1]
          Length = 491

 Score =  394 bits (1012), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 206/467 (44%), Positives = 323/467 (69%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV + +  ++  A++ L+   +DIRV I+ E+G+   FR  +
Sbjct: 4   EVLMLVDALAREKNVDKDVVFAALEAALASASKKLFEEDADIRVHIDRESGEHETFRRWK 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P I +   + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDQEILLFEAREQKPEIQLDEYIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F ++   I++G+VKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDFLERGEHIMTGSVKRLDKGNFIVETGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENVDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++       FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQNQERGVLRDLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ R+R+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRSRDALLTLAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+    V+ +L S+ G+D+ +   L E+ I+T ++LA  +VD+L+
Sbjct: 424 EEKVE--NVALDLKSLDGMDADLLAKLAEHQIQTRDELAELAVDELV 468


>gi|295676260|ref|YP_003604784.1| transcription termination factor NusA [Burkholderia sp. CCGE1002]
 gi|295436103|gb|ADG15273.1| transcription termination factor NusA [Burkholderia sp. CCGE1002]
          Length = 491

 Score =  394 bits (1012), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 206/467 (44%), Positives = 324/467 (69%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV + +  ++  A++ L+   +DIRV I+ E+G+   FR  +
Sbjct: 4   EVLMLVDALAREKNVDKDVVFAALEAALASASKKLFEEDADIRVHIDRESGEHETFRRWK 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P+I +   + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDQEILLFEAREQQPNIQLDEFIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F ++   I++G+VKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDFLERGEHIMTGSVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENVDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++       FM 
Sbjct: 304 RHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQNQERGVLRDLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ R+R+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRSRDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+    V+ +L S+ G+D+ +   L E+ I+T ++LA  +VD+L+
Sbjct: 424 EEKVE--NVALDLKSLDGMDADLLAKLAEHQIQTRDELAELAVDELV 468


>gi|89095215|ref|ZP_01168138.1| transcription elongation factor NusA [Oceanospirillum sp. MED92]
 gi|89080512|gb|EAR59761.1| transcription elongation factor NusA [Oceanospirillum sp. MED92]
          Length = 495

 Score =  394 bits (1012), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 207/480 (43%), Positives = 320/480 (66%), Gaps = 6/480 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK + ++V+   +  ++  A +  Y   +DIRV I+  TGD   FR   
Sbjct: 4   EILLVAEAVSNEKDVPKEVIFEAIEVALATATKKRYDEEADIRVVIDRATGDYETFRRWL 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV  EEV     +++++ A + D ++  G +  + +  + FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVSNEEVPALGTELTMEEAEEIDTALQPGDIHEEQVESVAFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +++D+ GE+ISG+VK+V   N+IVDLGN ++ ++ RD+ I RE  R GDRV++
Sbjct: 124 ERAKVVEQYRDRQGELISGSVKKVTRDNIIVDLGNNAEALLPRDQLIQREAFRMGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + +VR E RGPQ+++SR+  + +++LF +EVPEI   +++++A SRDPGSRAK+AV ++
Sbjct: 184 VLKEVRSEGRGPQLIMSRSCNEMLIELFRIEVPEISEEVIEIRAASRDPGSRAKIAVKTN 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E++DIV+W  + A  VINA+ PA V  +VLDE+
Sbjct: 244 DGRIDPVGACVGMRGARVQAVSNELGGERVDIVLWDDNPAQLVINAMAPAEVASIVLDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V V +E L++AIGR GQNVRLAS+LTGW ++++TEE+     Q +       F+ 
Sbjct: 304 THSMDVAVAEENLAMAIGRSGQNVRLASELTGWELNVMTEEDAQAKHQSEVGSVIDNFIN 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +LV EGF  +EE+A V + E+  I+GFDE+   E++ RA++ L  + I  
Sbjct: 364 HLDVDEDVAEVLVEEGFTTLEEVAYVPVDEMLEIDGFDEDIVEELRKRAKDALLNLAIAS 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
           ++K+ +   +E+L ++ G+D  +   +   GI TMEDLA  S+DDLL   G  E K   +
Sbjct: 424 EEKLDKAEPAEDLLTMEGMDKHLAFLMAAQGIITMEDLAEQSIDDLLDIEGLDEEKAAAL 483


>gi|254496140|ref|ZP_05109038.1| transcription elongation factor NusA [Legionella drancourtii
           LLAP12]
 gi|254354627|gb|EET13264.1| transcription elongation factor NusA [Legionella drancourtii
           LLAP12]
          Length = 502

 Score =  394 bits (1011), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 206/490 (42%), Positives = 326/490 (66%), Gaps = 17/490 (3%)

Query: 8   ELLQIADA---------VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETG 58
           ELL +A+A         V  E+ + ++V++  +  +++ A R ++G    +R++++P TG
Sbjct: 4   ELLLVAEALSKISKPLSVPTERGVSKEVIILAIQAALESATRKIFGLEIGVRIKLDPRTG 63

Query: 59  DISLFRLLEVV---EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAK 115
           +   FR  +VV   ++VE    Q++L  A++R+P+I +G  + + +P ++FGR+  Q+A+
Sbjct: 64  EYETFRFWDVVADEDDVEFPEHQLTLAQAKERNPAITVGERIEESIPSIEFGRIEAQAAR 123

Query: 116 QVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRE 174
           QVI+QKVREAERD    +F+ K+G++I G+VK+V   N+I+DLG  ++  + R E +  E
Sbjct: 124 QVIMQKVREAERDLVIEQFRSKLGQLIYGSVKKVTRDNIIIDLGGKAEAFLPRTEMLPHE 183

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
             RP DRV++Y+Y++  + RGPQ+ +SRT  + +++LF +EVPEI   ++ VKA +R+PG
Sbjct: 184 MFRPNDRVRAYLYEIIPQARGPQLFVSRTRNEMLIELFRIEVPEIGENVIDVKAAAREPG 243

Query: 235 SRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA 294
           +RAK+AV ++D  IDPVGACVGMRG+RVQAV +EL  E++DI++W  + A  VINA+ PA
Sbjct: 244 NRAKIAVKTNDGRIDPVGACVGMRGARVQAVSSELGGERVDIILWDDNPAQLVINAMAPA 303

Query: 295 IVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
            +T +V+DED   +++ V K+QLS AIGR GQNVRLASQLTGWT++++T +E     Q++
Sbjct: 304 DITSIVVDEDTHTMDLAVEKDQLSQAIGRNGQNVRLASQLTGWTLNVMTTDEFENKNQEE 363

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
            ++  + F  A+ +DE IA LLVA GF+ +EE+A V   E+ +IE FD+E   E++ RA 
Sbjct: 364 SSKIVKLFTSALEIDEEIATLLVAHGFSSLEEVAYVPKEELLAIEEFDDEIVEELRNRAN 423

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL--- 471
           + L  + +T  K +      E L ++ G+  ++   L E GI +MEDLA  SVD+LL   
Sbjct: 424 DNLLTMALTSGKGLAG-APDESLLAMDGMTEELANKLAEKGITSMEDLAEQSVDELLEID 482

Query: 472 GWSENKGGNI 481
           G SE K G +
Sbjct: 483 GMSEEKAGAL 492


>gi|209520195|ref|ZP_03268966.1| NusA antitermination factor [Burkholderia sp. H160]
 gi|209499354|gb|EDZ99438.1| NusA antitermination factor [Burkholderia sp. H160]
          Length = 491

 Score =  394 bits (1011), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 206/467 (44%), Positives = 323/467 (69%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV + +  ++  A++ L+   +DIRV I+ E+G+   FR  +
Sbjct: 4   EVLMLVDALAREKNVDKDVVFAALEAALASASKKLFEEDADIRVHIDRESGEHETFRRWK 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P I +   + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDQEILLFEAREQQPDIQLDEYIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F ++   I++G+VKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILSDFLERGEHIMTGSVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENVDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++       FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQNQERGVLRDLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ R+R+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRSRDALLTLAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+    V+ +L S+ G+D+ +   L E+ I+T ++LA  +VD+L+
Sbjct: 424 EEKVE--NVALDLKSLDGMDADLLAKLAEHQIQTRDELAELAVDELV 468


>gi|254447046|ref|ZP_05060513.1| NusA antitermination factor [gamma proteobacterium HTCC5015]
 gi|198263185|gb|EDY87463.1| NusA antitermination factor [gamma proteobacterium HTCC5015]
          Length = 499

 Score =  394 bits (1011), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 209/468 (44%), Positives = 313/468 (66%), Gaps = 6/468 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +ADAV+ EK +D+DV+   +  ++  A R  +    D RV IN E G    FR   
Sbjct: 5   EILLVADAVSNEKGVDKDVIFEALEIALATATRKKHPDDIDARVSINREDGSYETFRRWL 64

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           V+E+   +EN   ++    A D DPS  +G  V +P+  +D+GR+A Q+AKQVI+QKVRE
Sbjct: 65  VIEDDLVMENVDAELRHMDAIDIDPSYKVGDYVEEPIESVDYGRIAAQTAKQVIVQKVRE 124

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVK 183
           AER +   EF+D+ GE++ G VKRVE GNV VDLG N++G I R+E I RE++RPGDR++
Sbjct: 125 AERMQVVEEFQDREGELVMGLVKRVERGNVYVDLGGNAEGFIPREEMIPRESVRPGDRIR 184

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
             + +VR E RGPQ+ +SRT PQF+++LF +EVPEI  G++ + + SRDPG RAK+AV S
Sbjct: 185 GLLREVRSELRGPQLFVSRTDPQFLIELFKIEVPEIGQGMIDILSASRDPGVRAKIAVRS 244

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  +DPVGACVGMRGSRVQ+V  EL  E++DI+++  + A FVINA+ PA V  +V+DE
Sbjct: 245 NDPRLDPVGACVGMRGSRVQSVSNELSGERVDIILFDDNPAQFVINAMSPAEVVSIVVDE 304

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   +++ V  E+LS AIGR GQN+RLAS+LT W ++++ EE  +   +++ ++  + FM
Sbjct: 305 DNNSMDLAVTNEKLSQAIGRGGQNIRLASELTDWQLNVMDEESYAAKNEEEAHKYVEVFM 364

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
           + ++VDE +A +LV EGF  +EE+A V ++E   IE FD+    E++ RAR+ L  +   
Sbjct: 365 EQLDVDEEVATILVQEGFTSIEEVAYVPMAEFQEIEEFDDGIIEELRNRARDAL--LTKA 422

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           +  +  +    ++L  +  +D ++  AL   G+ TME+LA  +VDDL+
Sbjct: 423 ILNEESDAQPEQDLLDMETMDEEMAYALAAIGVTTMEELAEQAVDDLM 470


>gi|307825109|ref|ZP_07655330.1| transcription termination factor NusA [Methylobacter tundripaludum
           SV96]
 gi|307733857|gb|EFO04713.1| transcription termination factor NusA [Methylobacter tundripaludum
           SV96]
          Length = 505

 Score =  394 bits (1011), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 208/478 (43%), Positives = 313/478 (65%), Gaps = 9/478 (1%)

Query: 4   ANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLF 63
           AN+ E+L + D  + EK I++++V   +  +++ A    +      RV IN +TGD   +
Sbjct: 2   ANK-EILLVVDVFSNEKDIEKEIVFQAIESALEAATIKRHANQIKARVSINRKTGDYVTY 60

Query: 64  RLLEVVE-------EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQ 116
           R+ EVV+       +VE    Q+ L+VAR  +P + IG +V + +  +DFGR+A Q+AKQ
Sbjct: 61  RVWEVVDANSQIDGDVEFPETQVLLEVARFDNPDVQIGDLVEEEIESVDFGRIAAQTAKQ 120

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS-DGVIRRDETISREN 175
           VII KVREAER +    ++ +VGE+I+G VKR+E G+V +DLG   +  I +++ I RE 
Sbjct: 121 VIIHKVREAERKKIVDAYQSRVGELITGIVKRIEKGSVYLDLGGHVEAYIAKEDMIPREA 180

Query: 176 LRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           +R GDR++ Y+ DVR E RGPQ+ +SRT P+ ++ LF +EVPE+  G+++V   +RDPGS
Sbjct: 181 IRIGDRIRGYLKDVRSEPRGPQLFVSRTAPELLIALFRLEVPEVGEGLIEVMGAARDPGS 240

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV  +D  +DPVGACVGMRGSRVQ+V  EL  E++DI++W+P  A FVINA+ PA 
Sbjct: 241 RAKIAVKGNDPRLDPVGACVGMRGSRVQSVSNELAGERVDIILWNPSDAQFVINAMSPAE 300

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF 355
           +  +V+DED   +++ V  + LS AIGR GQNVRLA+QLTGW +++I   +   N + + 
Sbjct: 301 IQSIVVDEDKHSMDLAVSSDNLSQAIGRGGQNVRLATQLTGWELNVIDASKAEQNSEAEA 360

Query: 356 NERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           ++  Q F+  +++DE IA +LV EGF  VEE+A V +SE+  IEGFDEE    ++ RA++
Sbjct: 361 DKIKQMFIDQLDIDEDIALILVEEGFNTVEEIAYVPVSEMLEIEGFDEELVNALRSRAKD 420

Query: 416 YLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGW 473
            L    I  ++KI     +++L  + G+D  +   +   GI TM+DLA  SVDDLL +
Sbjct: 421 ALLISAIAAEEKIETAEPAQDLLEMEGMDRDLAYDMASQGIITMDDLAEQSVDDLLNF 478


>gi|53719533|ref|YP_108519.1| transcription elongation factor NusA [Burkholderia pseudomallei
           K96243]
 gi|53724824|ref|YP_102761.1| transcription elongation factor NusA [Burkholderia mallei ATCC
           23344]
 gi|76808602|ref|YP_333313.1| transcription elongation factor NusA [Burkholderia pseudomallei
           1710b]
 gi|121598320|ref|YP_992838.1| transcription elongation factor NusA [Burkholderia mallei SAVP1]
 gi|124384704|ref|YP_001026181.1| transcription elongation factor NusA [Burkholderia mallei NCTC
           10229]
 gi|126439048|ref|YP_001058778.1| transcription elongation factor NusA [Burkholderia pseudomallei
           668]
 gi|126449841|ref|YP_001080549.1| transcription elongation factor NusA [Burkholderia mallei NCTC
           10247]
 gi|126455004|ref|YP_001066030.1| transcription elongation factor NusA [Burkholderia pseudomallei
           1106a]
 gi|134282331|ref|ZP_01769036.1| transcription termination factor NusA [Burkholderia pseudomallei
           305]
 gi|167004351|ref|ZP_02270109.1| transcription termination factor NusA [Burkholderia mallei PRL-20]
 gi|167719819|ref|ZP_02403055.1| transcription elongation factor NusA [Burkholderia pseudomallei
           DM98]
 gi|167738820|ref|ZP_02411594.1| transcription elongation factor NusA [Burkholderia pseudomallei 14]
 gi|167816041|ref|ZP_02447721.1| transcription elongation factor NusA [Burkholderia pseudomallei 91]
 gi|167824417|ref|ZP_02455888.1| transcription elongation factor NusA [Burkholderia pseudomallei 9]
 gi|167845949|ref|ZP_02471457.1| transcription elongation factor NusA [Burkholderia pseudomallei
           B7210]
 gi|167894526|ref|ZP_02481928.1| transcription elongation factor NusA [Burkholderia pseudomallei
           7894]
 gi|167902931|ref|ZP_02490136.1| transcription elongation factor NusA [Burkholderia pseudomallei
           NCTC 13177]
 gi|167911167|ref|ZP_02498258.1| transcription elongation factor NusA [Burkholderia pseudomallei
           112]
 gi|167919191|ref|ZP_02506282.1| transcription elongation factor NusA [Burkholderia pseudomallei
           BCC215]
 gi|217423351|ref|ZP_03454852.1| transcription termination factor NusA [Burkholderia pseudomallei
           576]
 gi|226199712|ref|ZP_03795265.1| transcription termination factor NusA [Burkholderia pseudomallei
           Pakistan 9]
 gi|237812041|ref|YP_002896492.1| transcription elongation factor NusA [Burkholderia pseudomallei
           MSHR346]
 gi|238562584|ref|ZP_00440122.2| transcription termination factor NusA [Burkholderia mallei GB8
           horse 4]
 gi|242314941|ref|ZP_04813957.1| transcription termination factor NusA [Burkholderia pseudomallei
           1106b]
 gi|254178511|ref|ZP_04885166.1| transcription termination factor NusA [Burkholderia mallei ATCC
           10399]
 gi|254179981|ref|ZP_04886580.1| transcription termination factor NusA [Burkholderia pseudomallei
           1655]
 gi|254188607|ref|ZP_04895118.1| transcription termination factor NusA [Burkholderia pseudomallei
           Pasteur 52237]
 gi|254198017|ref|ZP_04904439.1| transcription termination factor NusA [Burkholderia pseudomallei
           S13]
 gi|254206031|ref|ZP_04912383.1| transcription termination factor NusA [Burkholderia mallei JHU]
 gi|254260843|ref|ZP_04951897.1| transcription termination factor NusA [Burkholderia pseudomallei
           1710a]
 gi|254358405|ref|ZP_04974678.1| transcription termination factor NusA [Burkholderia mallei
           2002721280]
 gi|52209947|emb|CAH35919.1| N utilization substance protein A [Burkholderia pseudomallei
           K96243]
 gi|52428247|gb|AAU48840.1| N utilization substance protein A [Burkholderia mallei ATCC 23344]
 gi|76578055|gb|ABA47530.1| N utilization substance protein A [Burkholderia pseudomallei 1710b]
 gi|121227130|gb|ABM49648.1| transcription termination factor NusA [Burkholderia mallei SAVP1]
 gi|124292724|gb|ABN01993.1| N utilization substance protein A [Burkholderia mallei NCTC 10229]
 gi|126218541|gb|ABN82047.1| transcription termination factor NusA [Burkholderia pseudomallei
           668]
 gi|126228646|gb|ABN92186.1| transcription termination factor NusA [Burkholderia pseudomallei
           1106a]
 gi|126242711|gb|ABO05804.1| transcription termination factor NusA [Burkholderia mallei NCTC
           10247]
 gi|134246369|gb|EBA46458.1| transcription termination factor NusA [Burkholderia pseudomallei
           305]
 gi|147753474|gb|EDK60539.1| transcription termination factor NusA [Burkholderia mallei JHU]
 gi|148027532|gb|EDK85553.1| transcription termination factor NusA [Burkholderia mallei
           2002721280]
 gi|157936286|gb|EDO91956.1| transcription termination factor NusA [Burkholderia pseudomallei
           Pasteur 52237]
 gi|160699550|gb|EDP89520.1| transcription termination factor NusA [Burkholderia mallei ATCC
           10399]
 gi|169654758|gb|EDS87451.1| transcription termination factor NusA [Burkholderia pseudomallei
           S13]
 gi|184210521|gb|EDU07564.1| transcription termination factor NusA [Burkholderia pseudomallei
           1655]
 gi|217393209|gb|EEC33230.1| transcription termination factor NusA [Burkholderia pseudomallei
           576]
 gi|225928298|gb|EEH24332.1| transcription termination factor NusA [Burkholderia pseudomallei
           Pakistan 9]
 gi|237503145|gb|ACQ95463.1| transcription elongation factor NusA [Burkholderia pseudomallei
           MSHR346]
 gi|238522259|gb|EEP85704.1| transcription termination factor NusA [Burkholderia mallei GB8
           horse 4]
 gi|242138180|gb|EES24582.1| transcription termination factor NusA [Burkholderia pseudomallei
           1106b]
 gi|243060319|gb|EES42505.1| transcription termination factor NusA [Burkholderia mallei PRL-20]
 gi|254219532|gb|EET08916.1| transcription termination factor NusA [Burkholderia pseudomallei
           1710a]
          Length = 491

 Score =  394 bits (1011), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 205/467 (43%), Positives = 323/467 (69%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P +++G  + + +P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKPDVEVGDYIEESVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQNEERDALRGLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ R+R+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRSRDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+    +  +L S+ G+  ++   L E G++T +DLA  +VD+L+
Sbjct: 424 EEKVETAAL--DLKSLDGVTPELLAKLAEQGVQTRDDLAELAVDELV 468


>gi|237746613|ref|ZP_04577093.1| transcription pausing [Oxalobacter formigenes HOxBLS]
 gi|229377964|gb|EEO28055.1| transcription pausing [Oxalobacter formigenes HOxBLS]
          Length = 518

 Score =  393 bits (1009), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 204/467 (43%), Positives = 313/467 (67%), Gaps = 5/467 (1%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           LE+LQ+ DA+A EK++D+++VL  +  ++  A +  Y    DIRV I+ ++G++  FR  
Sbjct: 3   LEILQLVDALAREKNVDKEIVLGALEHALALATKKRYPGDVDIRVAIDRQSGEVETFRRW 62

Query: 67  EVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
            VV +   ++    ++    A+++ P I++G  + D +  +D GR   Q  KQ+++Q++R
Sbjct: 63  HVVPDEAGLQQPDQEMLFFEAKEQFPDIEVGDYIEDHVESVDLGRRFAQDTKQIVLQRIR 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           +AER++   +F D+   +++GTVKR+E G+ IV+ G  +  + R++ I +ENLR GDRV+
Sbjct: 123 DAEREQILQDFLDRGDSLVTGTVKRMERGDAIVESGKVEARLPREQMIPKENLRIGDRVR 182

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           +YI  V R  RGPQV+LSRT P+F+VKLF +EVPEI  G++++K+ +RDPG RAK+AV++
Sbjct: 183 AYILRVERGARGPQVILSRTAPEFIVKLFELEVPEIEQGLLEIKSAARDPGVRAKIAVYT 242

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  IDP+G CVGMRGSRVQAV  EL  E++DIV+WS D A FVI AL PA V+ +V+DE
Sbjct: 243 ADKRIDPIGTCVGMRGSRVQAVTGELGGERVDIVLWSEDPAQFVIGALAPANVSSIVVDE 302

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   ++VIV +E L++AIGR GQNVRLA++LTGW I+I+T EE +     +  E  + FM
Sbjct: 303 DKHAMDVIVDEENLAIAIGRSGQNVRLATELTGWKINIMTAEESADKTALEKAELQKLFM 362

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
           + ++VD  +A +L+ EGF  +EE+A V I+E+  IE FDEET  EI+ RAR+ L    I 
Sbjct: 363 EKLDVDSEVADILIEEGFTSLEEIAYVPINEMLDIEAFDEETVNEIRQRARDALITEAIV 422

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
            ++ +   G+ E L  + G+   +   LG  G+KT+E  AG + D+ 
Sbjct: 423 SEEGM--AGMEEALSGLEGMSRSVAGKLGLAGVKTLERFAGLAYDEF 467


>gi|187923623|ref|YP_001895265.1| transcription elongation factor NusA [Burkholderia phytofirmans
           PsJN]
 gi|187714817|gb|ACD16041.1| NusA antitermination factor [Burkholderia phytofirmans PsJN]
          Length = 491

 Score =  393 bits (1009), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 206/467 (44%), Positives = 323/467 (69%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV + +  ++  A++ L+   +DIRV+I+ E+G+   FR  +
Sbjct: 4   EVLMLVDALAREKNVDKDVVFAALEAALASASKKLFEEDADIRVQIDRESGEHETFRRWK 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P I +   + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDQEILLFEAREQKPEIQLDEFIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F ++   I++G+VKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDFLERGEHIMTGSVKRLDKGNFIVETGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENVDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++       FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQNQERGVLRDLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ R+R+ L    I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRSRDALLTQAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+    V+ +L S+ G+D+ +   L E+ I+T ++LA  +VD+L+
Sbjct: 424 EEKVE--NVALDLKSLDGMDADLLAKLAEHQIQTRDELAELAVDELV 468


>gi|311695959|gb|ADP98832.1| transcription elongation factor NusA [marine bacterium HP15]
          Length = 497

 Score =  392 bits (1008), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 206/481 (42%), Positives = 319/481 (66%), Gaps = 7/481 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFRLL 66
           E+L + ++V+ EK +++DV+   +  ++  AA+  +    +DIRV I+ +TG+   FR  
Sbjct: 4   EILLVVESVSNEKGVEKDVIFEAIELALATAAKKRFEDEEADIRVSIDRKTGEYETFRRW 63

Query: 67  EVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
            VV+   V     +++L+ A + DP++  G +  + +    FGR+  Q+AKQ+I QKVRE
Sbjct: 64  LVVDNDAVPALGTELTLQEAEEIDPALKPGDIHEEKIESEAFGRIGAQAAKQIIFQKVRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVK 183
           AER +    ++D+VGE++SGTVK+V   NVIVDLG N++ ++ R+  I RE  R GDRV+
Sbjct: 124 AERTKIVDSYRDRVGELVSGTVKKVTRDNVIVDLGANAEALLPREFLIPRETFRMGDRVR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           S + ++R + RGPQ++LSRT PQ +++LF +EVPEI   +++++  +RDPGSRAK+AV +
Sbjct: 184 SLLLEIRTDHRGPQLILSRTSPQMLIELFRIEVPEIAEDLIEIRGAARDPGSRAKIAVKT 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  IDPVGACVGMRGSRVQAV  EL  E++DIV+W  + A  VINA+ PA V  +V+DE
Sbjct: 244 NDRRIDPVGACVGMRGSRVQAVSNELGGERVDIVLWDDNPAQLVINAMAPAEVASIVMDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   +EV V ++ L+ AIGR GQNVRLA+ LTGWT++++TEEE    ++++++   + F 
Sbjct: 304 DRHTMEVAVAEDNLAQAIGRNGQNVRLATDLTGWTLNVMTEEEAGERQEQEYSRLVEHFT 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
             ++VDE  A +L+ EGF  +EE+A V + E+ +IEGFDEET  E++ RA++ L    + 
Sbjct: 364 GNLDVDEEFAGVLIEEGFTSIEEVAYVPMEEMLAIEGFDEETVTELRRRAKDVLLNQALA 423

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGN 480
            ++ +     +E+L  + G+D  +   L   G++TMEDLA  SV DLL   G  E + G 
Sbjct: 424 SEEALEGAEPAEDLLGMDGMDRSLAFKLAGMGVRTMEDLAEQSVGDLLEIEGMDEERAGQ 483

Query: 481 I 481
           +
Sbjct: 484 L 484


>gi|254297816|ref|ZP_04965269.1| transcription termination factor NusA [Burkholderia pseudomallei
           406e]
 gi|157807196|gb|EDO84366.1| transcription termination factor NusA [Burkholderia pseudomallei
           406e]
          Length = 487

 Score =  392 bits (1007), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 204/466 (43%), Positives = 322/466 (69%), Gaps = 5/466 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   V
Sbjct: 1   MLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWLV 60

Query: 69  VEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           V +   ++    +I L  AR++ P +++G  + + +P ++FGR+  Q+AKQVI+QKVR+A
Sbjct: 61  VPDEAGLQEPDREILLFEAREQKPDVEVGDYIEESVPSIEFGRIGAQAAKQVILQKVRDA 120

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++Y
Sbjct: 121 EREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRAY 180

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + D
Sbjct: 181 IAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAYD 240

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+ 
Sbjct: 241 KRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEEK 300

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++ +     FM  
Sbjct: 301 HSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQNEERDALRGLFMAR 360

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ R+R+ L  + I  +
Sbjct: 361 LDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRSRDALLTMAIANE 420

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           +K+    +  +L S+ G+  ++   L E G++T +DLA  +VD+L+
Sbjct: 421 EKVETAAL--DLKSLDGVTPELLAKLAEQGVQTRDDLAELAVDELV 464


>gi|254490591|ref|ZP_05103777.1| NusA N-terminal domain family [Methylophaga thiooxidans DMS010]
 gi|224464335|gb|EEF80598.1| NusA N-terminal domain family [Methylophaga thiooxydans DMS010]
          Length = 505

 Score =  392 bits (1007), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 201/473 (42%), Positives = 310/473 (65%), Gaps = 6/473 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  E+L + DA++ EK + ++V+   +  ++  A R  Y    D  V+I+  TGD   FR
Sbjct: 2   NNKEILLVVDAMSNEKGVSKEVIFQAIEAALAMATRKRYEMALDAHVQIDRVTGDYETFR 61

Query: 65  LLEVVEE-----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
              +VE+     +E+   QI+L  A  +    ++GG + +P+  ++FGR+A Q+AKQVI+
Sbjct: 62  QWLIVEDDDEEALESEETQITLSEALKKQDDAEVGGYIREPMESVEFGRIAAQTAKQVIV 121

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           QKVREAER +    +++KVG++I GTVKRV+ GNV +DLG N++  + R+E I RE+ R 
Sbjct: 122 QKVREAERAQVVDMYREKVGQMIHGTVKRVDRGNVTLDLGGNAEAFLPREEMIPRESFRT 181

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDR++ Y+ ++R E RGPQ+++SR  P+ +++LF +EVPEI +G++ +K  +RDPG RAK
Sbjct: 182 GDRIRGYLKEIRPEGRGPQLIVSRIAPELLIELFTLEVPEISDGMIDIKGAARDPGLRAK 241

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV + +S IDPVGACVGMRGSRVQAV  EL  E++DI++W  D A F INA+ PA V  
Sbjct: 242 IAVLAKESRIDPVGACVGMRGSRVQAVTNELGGERVDIILWDEDVARFAINAMAPAEVLS 301

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   +++ V   QLS AIGR GQNVRLASQLTGW +++++  +     + +  E 
Sbjct: 302 IVVDEDAHSMDIAVEDGQLSQAIGRSGQNVRLASQLTGWELNVMSSSDADKKAETEIGEL 361

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            Q FM+ ++VDE +A +L  EGF+ +EE+A V   E+  IE FD++   E++ RAR+ L 
Sbjct: 362 IQDFMKDLDVDEDVALILAQEGFSSLEEVAYVPEQEMLDIEEFDDDIVAELRSRARDVLL 421

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
              I  ++++     S+EL  + GI   + + L  N + T++DLA  +VD+L+
Sbjct: 422 TRAIASEEQLESAEPSQELLDMEGITKDLALTLASNSVTTLDDLADLAVDELV 474


>gi|238897563|ref|YP_002923242.1| transcription pausing; L factor [Candidatus Hamiltonella defensa
           5AT (Acyrthosiphon pisum)]
 gi|229465320|gb|ACQ67094.1| transcription pausing; L factor [Candidatus Hamiltonella defensa
           5AT (Acyrthosiphon pisum)]
          Length = 494

 Score =  392 bits (1007), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 204/478 (42%), Positives = 310/478 (64%), Gaps = 6/478 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++R++IN +TGD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALESALATATKKKYDQDVEVRIKINRKTGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            V+ V + T +I+L+ A+ +D  I +G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  AVDIVTSPTREITLEAAQFQDSQIQLGDYVEDQIESVIFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F+   G+I++G VK+    N+ +DLGN ++G+I R++ + REN+R GDR++  +
Sbjct: 124 AMLVEQFRQHQGKIVTGVVKKATRENIYLDLGNNTEGIIGREDMLPRENIRTGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           YDVR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDP SRAK+AV S+D 
Sbjct: 184 YDVRPEARGAQLFISRSRPEMLIELFRIEVPEIGEELIEIKAAARDPASRAKIAVKSNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV TEL  E+IDI++W  +   FVINA+ PA V  V +DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSTELGGERIDIILWDDNPVQFVINAMAPAEVVSVTIDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLAS+L+GW ++++T EE     Q + +     F+Q +
Sbjct: 304 TMDIAVEATHLAQAIGRNGQNVRLASRLSGWELNVMTAEELQSKNQAEVDSIVHTFIQHL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           N+D+  A +L+ EG + +EEL CV I E+  IEG DEET   ++ RA++ L    + L +
Sbjct: 364 NIDKEFAEVLIEEGLSSLEELVCVPIEELLEIEGLDEETVNALRDRAKKTL--TTLALAE 421

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
                  S++L ++P +DSKI   L  +GI T+EDLA  S+DDL    G S +K G +
Sbjct: 422 NFSGNSPSDDLLNLPNMDSKIAFRLSASGISTLEDLAEQSIDDLADIEGLSNDKAGEL 479


>gi|217970108|ref|YP_002355342.1| transcription elongation factor NusA [Thauera sp. MZ1T]
 gi|217507435|gb|ACK54446.1| NusA antitermination factor [Thauera sp. MZ1T]
          Length = 491

 Score =  392 bits (1006), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 200/466 (42%), Positives = 321/466 (68%), Gaps = 4/466 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR--L 65
           E+L + DA+A EK++ +D+V S +  ++  A +      +D+ V I+ ++GD +  R  L
Sbjct: 4   EILLLVDALAREKNVAKDIVFSALETALASATKKRIHDDADVVVSIDRDSGDYTSKRRWL 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           + + EEV N   ++ +  AR+    + IG  + + L P+DFGR+  Q+AKQVI+QK+R+A
Sbjct: 64  VMLDEEVANDEAEMGIIDARELRADVQIGDYIEEELEPIDFGRIGAQAAKQVILQKIRDA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F D+   ++SG++KR+E GN I+++G  + V+ RD+ I RENLR GDRVK++
Sbjct: 124 EREQVLNDFLDRKEFLVSGSIKRMERGNAIIEVGRMEAVLPRDQQIPRENLRVGDRVKAF 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  + R  RGPQ++LSRT P+F++KLF +EVPEI +G++++KA +RD G RAK+AV S+D
Sbjct: 184 LLRIDRGARGPQLVLSRTAPEFLMKLFELEVPEIEDGLLELKACARDAGLRAKIAVKSND 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDP+G CVG+RGSRV AV  E+  E+IDI+VWS D A FV+ AL+PA V  +V+DE+ 
Sbjct: 244 QRIDPIGTCVGLRGSRVTAVRNEIAGEQIDIIVWSQDPAQFVVAALQPAEVVSIVVDEES 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++V+V +  L++AIGR GQNV+LAS+LTGWTI++++E+E +    ++       FM+ 
Sbjct: 304 HAMDVVVDENNLAIAIGRSGQNVKLASELTGWTINLMSEQESAEKTAQEQQGLRALFMEK 363

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE +A +L+ EGF+ +EE+A V +SE+  IE FDE+T  E++ RAR  L    I  +
Sbjct: 364 LDVDEEVADILIEEGFSSLEEVAYVPLSEMLEIEAFDEDTVNELRNRARNVLLTEAIVTE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           +++ +  VS++L  + G+D  +   L + GI+T +DLA  +VD+L+
Sbjct: 424 EQLEK--VSDDLLGLEGMDKSLAATLAQQGIRTRDDLADLAVDELV 467


>gi|124267111|ref|YP_001021115.1| NusA antitermination factor [Methylibium petroleiphilum PM1]
 gi|124259886|gb|ABM94880.1| NusA antitermination factor [Methylibium petroleiphilum PM1]
          Length = 492

 Score =  392 bits (1006), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 206/469 (43%), Positives = 317/469 (67%), Gaps = 6/469 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           NR +LL   DA+A EKS++RDVV   +  ++  A++ L+G   DIRV ++ +TG+   FR
Sbjct: 2   NR-DLLDFVDAIAREKSVERDVVFEAVEAALASASKKLHGGEVDIRVSVDRDTGEYETFR 60

Query: 65  LLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
              VV +   ++N   +  L  ARDR   I+ G  + + +  +  GR+  Q+AKQVI+QK
Sbjct: 61  RWLVVPDSAGLQNADAEELLTDARDRIEDIEEGDYIEEAIESVSIGRIGAQAAKQVILQK 120

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER++   +F  +  +I  GTVKR++ G+++V+ G  +G ++R E I++ENLR GDR
Sbjct: 121 VRDAEREQLLNDFLSRGDKIFVGTVKRLDKGDLVVESGRVEGRLKRSELIAKENLRTGDR 180

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YI +V   QRGPQ++LSR+ P FMV+LF  EVPEI  G++++K+ +RD GSRAK+AV
Sbjct: 181 VRAYITEVDTTQRGPQIMLSRSAPGFMVELFRHEVPEIEQGLLEIKSCARDAGSRAKIAV 240

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  +DP+G CVG+RGSRV AV  EL  E++DIV+WS D A FVI AL PA V  +V+
Sbjct: 241 LSHDKRVDPIGTCVGVRGSRVNAVTNELAGERVDIVLWSADPAQFVIGALAPANVQSIVV 300

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+   ++V+V +E L++AIGR GQNVRLAS+LTGW I+I++ EE    +  +     + 
Sbjct: 301 DEEKHAMDVVVDEENLAIAIGRGGQNVRLASELTGWRINIMSAEESQDKQATESESIRKL 360

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F++ ++VD  +A +L+AEGF  +EE+A V + E+  +E FDE+T  E++ RA++ L  ++
Sbjct: 361 FVEKLDVDAEVADILIAEGFTSLEEVAYVPLQEMLEMESFDEDTVHELRTRAKDALLTME 420

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           I  ++K+    VS++L  + G+D+++   L E GI T +DLA  +VD+L
Sbjct: 421 IAQEEKLE--SVSQDLRDLEGLDAELIARLAEGGIHTRDDLADLAVDEL 467


>gi|15599939|ref|NP_253433.1| transcription elongation factor NusA [Pseudomonas aeruginosa PAO1]
 gi|107103844|ref|ZP_01367762.1| hypothetical protein PaerPA_01004915 [Pseudomonas aeruginosa PACS2]
 gi|116052892|ref|YP_793209.1| transcription elongation factor NusA [Pseudomonas aeruginosa
           UCBPP-PA14]
 gi|152989172|ref|YP_001350787.1| transcription elongation factor NusA [Pseudomonas aeruginosa PA7]
 gi|218893840|ref|YP_002442709.1| transcription elongation factor NusA [Pseudomonas aeruginosa
           LESB58]
 gi|254238519|ref|ZP_04931842.1| N utilization substance protein A [Pseudomonas aeruginosa C3719]
 gi|254244353|ref|ZP_04937675.1| N utilization substance protein A [Pseudomonas aeruginosa 2192]
 gi|296391572|ref|ZP_06881047.1| transcription elongation factor NusA [Pseudomonas aeruginosa PAb1]
 gi|313109726|ref|ZP_07795666.1| N utilization substance protein A [Pseudomonas aeruginosa 39016]
 gi|9951007|gb|AAG08131.1|AE004888_6 N utilization substance protein A [Pseudomonas aeruginosa PAO1]
 gi|115588113|gb|ABJ14128.1| N utilization substance protein A [Pseudomonas aeruginosa
           UCBPP-PA14]
 gi|126170450|gb|EAZ55961.1| N utilization substance protein A [Pseudomonas aeruginosa C3719]
 gi|126197731|gb|EAZ61794.1| N utilization substance protein A [Pseudomonas aeruginosa 2192]
 gi|150964330|gb|ABR86355.1| N utilization substance protein A [Pseudomonas aeruginosa PA7]
 gi|218774068|emb|CAW29884.1| N utilization substance protein A [Pseudomonas aeruginosa LESB58]
 gi|310882168|gb|EFQ40762.1| N utilization substance protein A [Pseudomonas aeruginosa 39016]
          Length = 493

 Score =  392 bits (1006), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 206/480 (42%), Positives = 318/480 (66%), Gaps = 6/480 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + ++V+ EK +   V+   +  ++  A +  +    D+RVEIN   G    FR   
Sbjct: 4   EVLLVVESVSNEKGVPAGVIFEALELALATATKKRFEDEVDLRVEINRHNGSYETFRRWH 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV  E+ ++   +I+++  +++ P   +G V+ + +  ++FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVADEDYQDPATEITVEDVQEQKPGAKVGEVIEEKIESIEFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +    +++KVGEIISGTVK+V   NVIVDLGN ++ ++ RD+ I RE  R G RV++
Sbjct: 124 ERAQVVDAYREKVGEIISGTVKKVTRDNVIVDLGNNAEALLARDQIIPRETFRVGTRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + ++R E RGPQ++LSRT P+ +++LF +EVPEI   ++ V A +RDPGSRAK+AV S 
Sbjct: 184 LLKEIRTENRGPQLVLSRTAPEMLIELFRIEVPEIAEQLIDVMAAARDPGSRAKIAVRSK 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP GAC+GMRGSRVQAV  E+  E++DIV+W  + A FVINA+ PA V  +++DED
Sbjct: 244 DKRIDPQGACIGMRGSRVQAVSGEIGGERVDIVLWDDNPAQFVINAMAPAEVAAIIVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V ++ L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  Q F+ 
Sbjct: 304 THTMDIAVAEDNLAQAIGRSGQNVRLASQLTGWTLNVMTEADIQAKQQAETGDILQRFVD 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +LV EGF  +EE+A V + E+ SI+GFDE+   E++ RA++ L    I  
Sbjct: 364 ELDVDEELAQVLVEEGFTTLEEIAYVPMEEMLSIDGFDEDIVNELRSRAKDRLLTKAIAT 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
           ++K+ +   +E+L S+ G+  ++ + L   G+ T EDLA  S+DDLL   G  E + G +
Sbjct: 424 EEKLADAQPAEDLLSLDGMSKELALDLALRGVTTREDLAEQSIDDLLDIDGMDEERAGKL 483


>gi|330816693|ref|YP_004360398.1| NusA antitermination factor [Burkholderia gladioli BSR3]
 gi|327369086|gb|AEA60442.1| NusA antitermination factor [Burkholderia gladioli BSR3]
          Length = 491

 Score =  391 bits (1005), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 205/467 (43%), Positives = 322/467 (68%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+D+VL  +  ++  A++ L+   ++IRV I+ E+G+   +R   
Sbjct: 4   EVLMLVDALAREKNVDKDIVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETYRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++   I++G  + + +P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKAEIEVGDYIEESVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSDDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E ++ + ++ +     FM 
Sbjct: 304 KHSMDVVVDESELAVAIGRSGQNVRLASELTGWQINIMTPDESALKQGEERDRLRSLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDEET  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEETVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+    +  +L S+ GI  ++   L E+ + T +DLA  +VD+L+
Sbjct: 424 EEKVENAAL--DLKSLDGITPELLAKLAEHSVATRDDLAELAVDELV 468


>gi|251791036|ref|YP_003005757.1| transcription elongation factor NusA [Dickeya zeae Ech1591]
 gi|247539657|gb|ACT08278.1| NusA antitermination factor [Dickeya zeae Ech1591]
          Length = 496

 Score =  391 bits (1004), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 204/478 (42%), Positives = 312/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR  +
Sbjct: 4   EILAVVEAVSNEKAVPREKIFEALETALATATKKKYEQEIDVRVCIDRKTGDFDTFRRWQ 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV EV   T +I+L+ A+  +PSID+GG + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVNEVTQPTREITLEAAQFEEPSIDLGGYIEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
                +F+++ GEI++G VK+V   N+ +DLG N++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDQFREQEGEIVTGVVKKVNRDNITLDLGSNAEAVIGREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YAVRPEARGAQLFVSRSRPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T E+     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTIEDLQAKHQAEAHAAIDIFTKHL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A  LV EGF+ +EELA V I+E+  I+G DEET   ++ RA+  L  + +  ++
Sbjct: 364 DIDEEFATALVEEGFSSLEELAYVPINELQEIDGLDEETIEALRERAKAALTTLALANEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
                  +E+L ++ G+  ++   L   G+ T+EDLA   VDDL    G  E + G +
Sbjct: 424 NRGNGQPAEDLLNLSGLSRELAFKLAARGVCTLEDLAEQGVDDLADIEGLDEEQAGEL 481


>gi|15602625|ref|NP_245697.1| transcription elongation factor NusA [Pasteurella multocida subsp.
           multocida str. Pm70]
 gi|12721058|gb|AAK02844.1| NusA [Pasteurella multocida subsp. multocida str. Pm70]
          Length = 494

 Score =  391 bits (1004), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 197/465 (42%), Positives = 312/465 (67%), Gaps = 2/465 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL  A+AV+ EK + R+ +   +  ++  + +  Y    D+RV IN +TG+   FR   
Sbjct: 4   ELLLAAEAVSNEKLLPREKIFEALESALALSTKKKYEQEIDVRVVINTKTGEFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV N T +I+L+ A+  DP++ +G  V D +  + F R+ +Q+A+QVI  K+REAER
Sbjct: 64  VVDEVTNPTKEITLEAAQFDDPNVQLGDYVEDQIESVAFDRITMQTARQVISTKIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
           ++   +F+ + GEI++GTVK+V   N+++DLG  ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 NKIVEQFRSQEGEIVTGTVKKVNRDNIVLDLGQQAEAVILREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E +G Q+ ++R  P+ +++LF +EVPEI   ++++K  +RDPGSRAK+AV S+D 
Sbjct: 184 YKVSPESKGAQLFVTRAKPEMLIELFRIEVPEIGEELIEIKNAARDPGSRAKIAVKSNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA VT +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAITNELGGERVDIVLWDDNPAQFVINAMAPADVTSIVVDEDSH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLA+QLT WT++++T +E +   Q + N+  + FM A+
Sbjct: 304 AMDIAVEPANLAQAIGRNGQNVRLATQLTSWTLNVMTTDELNQKHQAEDNKVLKLFMNAL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV-EIQGRAREYLEGIDITLQ 425
            +DE  AH+L+ EGF+ +EELA V +SE+ +I+G ++E  V E+Q RA+  +    +  +
Sbjct: 364 EIDEDFAHILIEEGFSTLEELAYVSVSELTAIDGLEDEDLVEELQARAKNAITAAALAEE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           + +++  + + L ++ G++  I + L E  I T+E+LA   VDDL
Sbjct: 424 EALKQAHIEDRLLALEGMNRHIALKLAEKQITTLEELAEQGVDDL 468


>gi|167587339|ref|ZP_02379727.1| NusA antitermination factor [Burkholderia ubonensis Bu]
          Length = 491

 Score =  390 bits (1002), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 206/467 (44%), Positives = 322/467 (68%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++   +++G  + + +P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKGDVEVGDYIEESVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQGEERDRLRALFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+    +  +L S+ GI  ++   L E+G+ T +DLA  +VD+L+
Sbjct: 424 EEKVENAAL--DLKSLDGITPELLSKLAEHGVATRDDLAELAVDELV 468


>gi|260914257|ref|ZP_05920730.1| N utilization substance A [Pasteurella dagmatis ATCC 43325]
 gi|260631890|gb|EEX50068.1| N utilization substance A [Pasteurella dagmatis ATCC 43325]
          Length = 494

 Score =  390 bits (1002), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 194/465 (41%), Positives = 312/465 (67%), Gaps = 2/465 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + R+ +   +  ++  + +  Y    D+RV IN +TG+   FR   
Sbjct: 4   EILLAAEAVSNEKLLPREKIFEALESALALSTKKKYEQEIDVRVVINTKTGEFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV N T +I+L+ A+  DP++ +G  V D +  + F R+ +Q+A+QVI  K+REAER
Sbjct: 64  VVEEVTNPTKEITLEAAQFEDPNVQLGDYVEDQIESVAFDRITMQTARQVISTKIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
           ++   +F+ + GEI++GTVK+V   N+++DLG  ++ V+ R++ + REN RPGDRV+  +
Sbjct: 124 NKIVEQFRSQEGEIVTGTVKKVNRDNIVLDLGQQAEAVMLREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E +G Q+ ++R  P+ +++LF +EVPEI   ++++K  +RDPGSRAK+AV ++D 
Sbjct: 184 YKVSPENKGAQLFVTRAKPEMLIELFRIEVPEIGEELIEIKNAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIVVDEDSH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLA+QLTGWT++++T +E +   Q + N+  + FM  +
Sbjct: 304 SMDIAVESANLAQAIGRNGQNVRLATQLTGWTLNVMTTDELNQKHQAEDNKVLKLFMNTL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV-EIQGRAREYLEGIDITLQ 425
            +DE  AH+L+ EGF+ +EELA V ++E+ SI+G ++E  V E+Q RA+  +    +  +
Sbjct: 364 EIDEEFAHILIEEGFSTLEELAYVSVNELTSIDGLEDEDLVEELQTRAKNAITAAALAEE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           + +++  + + L ++ G++  I + L E  I T+E+LA   VDDL
Sbjct: 424 EALKQAHIEDRLLALDGMNRHIALKLAEKNITTLEELAEQGVDDL 468


>gi|146283631|ref|YP_001173784.1| transcription elongation factor NusA [Pseudomonas stutzeri A1501]
 gi|145571836|gb|ABP80942.1| N utilization substance protein A [Pseudomonas stutzeri A1501]
 gi|327482026|gb|AEA85336.1| transcription elongation factor NusA [Pseudomonas stutzeri DSM
           4166]
          Length = 493

 Score =  390 bits (1002), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 204/462 (44%), Positives = 311/462 (67%), Gaps = 3/462 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + ++V+ EK +   V+   +  ++  A +  Y    D+RVEIN   G    FR   
Sbjct: 4   EVLLVVESVSNEKGVPASVIFEALELALATATKKRYEDDVDLRVEINRHNGSYETFRRWT 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV  E  E+   Q++L  A++R+P   +G V  + +  ++FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVDDEHFEDPAHQLALDQAQERNPDAKLGDVFEEKIESIEFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +    ++D+VGEIISGTVK+V   +VIVDLGN ++ ++ R++ I+RE  R G RV++
Sbjct: 124 ERAQVVEAYRDRVGEIISGTVKKVTRDSVIVDLGNNAEALLAREDIIARETFRVGARVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + ++R E RGPQ++LSRT PQ +++LF +EVPEI  G+++V   SRDPGSRAK+AV S 
Sbjct: 184 LLKEIRTENRGPQLILSRTAPQMLIELFRIEVPEIAEGLIEVMGASRDPGSRAKIAVRSK 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP GAC+GMRGSRVQAV  E+  E++DIV+W  + A FVINA+ PA V  +++DED
Sbjct: 244 DKRIDPQGACIGMRGSRVQAVSGEIGGERVDIVLWDENPAQFVINAMAPAEVAAIIVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V ++ L+ AIGR GQNVRLASQLTGWT++++TE +    +Q++  +  + F++
Sbjct: 304 AHAMDIAVAEDNLAQAIGRGGQNVRLASQLTGWTLNVMTEADIQAKQQEETGDILRNFIE 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +LV EGF  +EE+A V + E+  IEGFDE+   E++ RA++ L    I  
Sbjct: 364 ELDVDEELAQVLVEEGFTSLEEIAYVPMEEMLGIEGFDEDIVNELRTRAKDRLLTKAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
           ++K+ +   +E+L ++ G+D ++ V L   G+ T EDLA  S
Sbjct: 424 EEKLADAQPAEDLLALDGMDKELAVELAVRGVITREDLAEQS 465


>gi|325921396|ref|ZP_08183253.1| transcription termination factor NusA [Xanthomonas gardneri ATCC
           19865]
 gi|325548154|gb|EGD19151.1| transcription termination factor NusA [Xanthomonas gardneri ATCC
           19865]
          Length = 503

 Score =  390 bits (1002), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 203/472 (43%), Positives = 316/472 (66%), Gaps = 5/472 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI-RVEINPETGDISLFRLL 66
           ELL + DAVA EK + R+V+   +  ++  AA+  Y     + RV I+ + G+   +R  
Sbjct: 4   ELLLVVDAVANEKGVPREVIFDAIEAALASAAKKRYPDQDVLARVTIDHKDGNYETYRRW 63

Query: 67  EVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           EVV +   +E+   Q+ L  A D    +D+G  + + +   DFGR+A Q+AKQVI+Q+VR
Sbjct: 64  EVVADDVVMESPDRQVRLMDAIDEADGVDVGDYIEEQIENPDFGRIAAQAAKQVIVQRVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER +    +KD+VGE+I+G VKR E GN+ VDLG N++  I +D+ I R+ LRPGDRV
Sbjct: 124 EAERQQVVDAWKDRVGELITGVVKRAERGNIFVDLGGNAEAFIPKDKGIPRDVLRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           + Y+ +VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++KA +RDPG RAK+AV 
Sbjct: 184 RGYLAEVRSEPRGPQLFISRAAPEFMIELFKLEVPEVGQGLVEIKACARDPGDRAKIAVI 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           + D+  DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  +++D
Sbjct: 244 AHDTRTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNENPANFVINAMAPAEVQSIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T ++ +   + +     Q F
Sbjct: 304 EDKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTADQVAAKSEAEQTSARQLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M  + VDE IA +LV EGF  VEE+A V + E+ ++EGFDE+   E++ RAR+ L    +
Sbjct: 364 MDRLEVDEEIAAILVTEGFNTVEEIAYVPVGELLAVEGFDEDIVEELRARARDALLNAAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWS 474
             ++ +     +E+L ++ G+D +   AL E+G++T EDL+  + D+++ + 
Sbjct: 424 AEEEGLEGTQPTEDLLALEGMDEETAFALAEHGVRTSEDLSDLAADEIVDFG 475


>gi|113868282|ref|YP_726771.1| transcription elongation factor NusA [Ralstonia eutropha H16]
 gi|113527058|emb|CAJ93403.1| transcription pausing factor L [Ralstonia eutropha H16]
          Length = 491

 Score =  390 bits (1001), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 208/502 (41%), Positives = 333/502 (66%), Gaps = 22/502 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV   +  ++  A +  +    DIRV I+ E+G+   FR   
Sbjct: 4   EVLLLVDALAREKNVDKDVVFGALEAALASATKKRFEEDVDIRVAIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    QI L  ARD +PSI++G  +   +  ++FGR+  Q+AKQVI+Q++R+
Sbjct: 64  VVPDELGLQEPDKQILLFEARDENPSIELGDFIEQQIESVEFGRIGAQAAKQVILQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ D+  +I++GTVKR +   +IV+ G  + ++ RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLDRGEKIMTGTVKRADKKGLIVESGRVEALLARDQIIPKENLRTGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +V R  RGPQ+ LSRT P+F++KLF  EVPE+  G++++KA +RDPG RAK+AV + 
Sbjct: 184 YILNVDRAARGPQIELSRTAPEFLIKLFENEVPEMEQGLLEIKAAARDPGVRAKIAVVAH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RG+RV AV  E+  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGVRGTRVTAVRNEIGGEAVDIVLWSEDPAQFVIGALAPAQVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L+++IGR GQNVRLA++LTGW I+I+T+EE +  + ++ +   + FM 
Sbjct: 304 KHSMDVVVDEENLAVSIGRSGQNVRLATELTGWQINIMTQEESAQKQAEESDVVRKLFMS 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF+ +EE+A V ISE+  IE FDE+T  E++ RAR+ L  +++  
Sbjct: 364 KLDVDEEVADILIEEGFSTLEEVAYVPISEMMEIEAFDEDTVNELRNRARDALLTMELAR 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+ E  VS++L S+ G++ ++   L E  I T +DLA  +VD+L+  +          
Sbjct: 424 EEKVEE--VSQDLRSLDGLNPELIGKLAEGDIHTRDDLAELAVDELVEMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHAR 506
                  G  +++ +S+I+ AR
Sbjct: 472 -------GVSEEEAKSLIMKAR 486


>gi|148361087|ref|YP_001252294.1| N utilization substance protein A [Legionella pneumophila str.
           Corby]
 gi|148282860|gb|ABQ56948.1| N utilization substance protein A [Legionella pneumophila str.
           Corby]
          Length = 492

 Score =  390 bits (1001), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 211/481 (43%), Positives = 325/481 (67%), Gaps = 9/481 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL +A+A++ E+ + +DV++  +  +++ A R + G    +R++I+P+TGD   FR  +
Sbjct: 4   ELLLVAEALSNERGVSKDVIILAIQAALESATRKILGLDIGVRIKIDPKTGDYETFRYWD 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV  EE+E    Q+SL+ A++R PS  +G  + + +P ++FGR+  Q+A+QVI+QKVREA
Sbjct: 64  VVNEEELEFPDRQLSLEQAKERKPSAAVGDRIEEIIPSIEFGRIEAQTARQVIMQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER+    +F+ K+G++I GTVK+V   N+I+DLG  ++  + R E +  E  RP DRV++
Sbjct: 124 ERELIIDQFRSKLGQLIYGTVKKVTRDNIIIDLGGKAEAFLPRSEMLPHEMFRPNDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+Y++  + RGPQ+ +SRT  + +++LF +EVPEI   I+ +KA +RDPG+RAK+AV ++
Sbjct: 184 YLYEITPQARGPQLFVSRTRNEMLIELFRIEVPEIGENIIDIKAAARDPGNRAKIAVKTN 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+GACVGMRG+RVQAV +EL  E++DI++W  + A  VINA+ PA +T +V+DED
Sbjct: 244 DGRIDPIGACVGMRGARVQAVSSELGGERVDIILWDDNPAQLVINAMAPADITSIVVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V KEQLS AIGR GQNVRLASQLTGWT++++T EE     Q++ ++    F  
Sbjct: 304 THTMDLAVAKEQLSQAIGRNGQNVRLASQLTGWTLNVMTTEEFESKNQEESSKIVNLFTS 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
           A+ +DE IA LLVA GF+ +EE+A V   E+ +IE FDEE   E++ RA + L  + ++ 
Sbjct: 364 ALEIDEEIATLLVAHGFSSLEEVAYVPKEELLAIEEFDEEIVEELRNRANDKLLEMALSS 423

Query: 425 QKKIRELGVSEE-LCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGN 480
            K +   G  ++ L ++ G+   +   L   GI TMEDLA  SVD+L+   G SE K G 
Sbjct: 424 GKGLS--GTPDDSLINMEGMTEDLANKLASKGITTMEDLAEQSVDELMEIEGISEEKAGA 481

Query: 481 I 481
           +
Sbjct: 482 L 482


>gi|237730089|ref|ZP_04560570.1| transcription elongation factor NusA [Citrobacter sp. 30_2]
 gi|226908695|gb|EEH94613.1| transcription elongation factor NusA [Citrobacter sp. 30_2]
          Length = 495

 Score =  389 bits (1000), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 200/478 (41%), Positives = 314/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEEVTQPTKEITLEAARFEDESLNVGEYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
                +F++  GEI++G VK+V   N+ +DLG N++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDQFREHEGEIVTGVVKKVNRDNISLDLGSNAEAVILREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGFA +EELA V + E+  I+G DE+T   ++ RA+  L  + +  ++
Sbjct: 364 DIDEDFATVLVEEGFATLEELAYVPMKELLEIDGLDEQTVEALRERAKNALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +++L ++ G+D ++   L   G+ T+EDLA   +DDL    G ++ K G +
Sbjct: 424 SLGDNKPADDLLNLEGLDREMAFKLAARGVCTLEDLAEQGIDDLADIEGLTDEKAGEL 481


>gi|307129384|ref|YP_003881400.1| transcription termination/antitermination L factor [Dickeya
           dadantii 3937]
 gi|306526913|gb|ADM96843.1| transcription termination/antitermination L factor [Dickeya
           dadantii 3937]
          Length = 496

 Score =  389 bits (1000), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 204/478 (42%), Positives = 311/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR  +
Sbjct: 4   EILAVVEAVSNEKAVPREKIFEALETALATATKKKYEQEIDVRVCIDRKTGDFDTFRRWQ 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV EV   T +I+L+ A+  +PSID+GG + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVNEVTQPTREITLEAAQFEEPSIDLGGYIEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
                +F+++ GEI++G VK+V   N+ +DLG N++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDQFREQEGEIVTGVVKKVNRDNISLDLGSNAEAVIGREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YAVRPEARGAQLFVSRSRPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T E+     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTIEDLQAKHQAEAHAAIDIFTKHL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A  LV EGF+ +EELA V I E+  I+G DEET   ++ RA+  L  + +  ++
Sbjct: 364 DIDEEFATALVEEGFSSLEELAYVPIHELQEIDGLDEETIEALRERAKAALTTLALANEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
                  +E+L ++ G+  ++   L   G+ T+EDLA   VDDL    G  E + G +
Sbjct: 424 NRGNGQPAEDLLNLSGLSRELAFKLAARGVCTLEDLAEQGVDDLADIEGLDEAQAGEL 481


>gi|271499173|ref|YP_003332198.1| transcription termination factor NusA [Dickeya dadantii Ech586]
 gi|270342728|gb|ACZ75493.1| transcription termination factor NusA [Dickeya dadantii Ech586]
          Length = 496

 Score =  389 bits (1000), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 204/478 (42%), Positives = 311/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR   
Sbjct: 4   EILAVVEAVSNEKAVPREKIFEALETALATATKKKYEQEIDVRVCIDRKTGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV EV   T +I+L+ A+  +PSID+GG + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVNEVTQPTREITLEAAQFEEPSIDLGGYIEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
                +F+++ GEI++G VK+V   N+ +DLG N++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDQFREQEGEIVTGVVKKVNRDNITLDLGSNAEAVIGREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YAVRPEARGAQLFVSRSRPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T E+     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTIEDLQAKHQAEAHAAIDIFTKHL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A  LV EGF+ +EELA V I E+  I+G DEET   ++ RA+  L  + +  ++
Sbjct: 364 DIDEEFATALVEEGFSSLEELAYVPIHELQEIDGLDEETIEALRERAKAALTTLALANEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
                  +E+L ++ G+  ++   L   G+ T+EDLA   VDDL    G +E + G +
Sbjct: 424 NRGNGQPAEDLLNLSGLSRELAFKLAARGVCTLEDLAEQGVDDLADIEGLNEEQAGEL 481


>gi|156935695|ref|YP_001439611.1| transcription elongation factor NusA [Cronobacter sakazakii ATCC
           BAA-894]
 gi|156533949|gb|ABU78775.1| hypothetical protein ESA_03562 [Cronobacter sakazakii ATCC BAA-894]
          Length = 495

 Score =  389 bits (1000), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 201/478 (42%), Positives = 311/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKAVPREKIFEALESALATATKKKYEQEIDVRVSIDRKSGDFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEV   T +I+L+ AR  DPS+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEEVTQPTREITLEAARYEDPSLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
                +F++  GEII+G VK+V   N+ +DLG N++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDQFREHEGEIITGVVKKVNRENITLDLGSNAEAVILREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R  P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YAVRPEARGAQLFVTRAKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T E+     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVEDLQAKHQAEAHAAIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  + +  ++
Sbjct: 364 DIDEEFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +++L ++ G+D  +   L   G+ T++DLA   VDDL    G ++ K G +
Sbjct: 424 SLGDNKPADDLLNLEGMDRTLAYKLAARGVCTLDDLADQGVDDLADIEGLTDEKAGEL 481


>gi|56460077|ref|YP_155358.1| transcription elongation factor NusA [Idiomarina loihiensis L2TR]
 gi|56179087|gb|AAV81809.1| Transcription elongation factor NusA [Idiomarina loihiensis L2TR]
          Length = 499

 Score =  389 bits (1000), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 198/468 (42%), Positives = 311/468 (66%), Gaps = 5/468 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK++ R+ +   +  ++  A +  Y    ++R++I+  TG+   FR   
Sbjct: 4   EILLVAEAVSNEKAVPREKIFEALESALAHATKKKYDGDIEVRIDIDRTTGEFDTFRRWL 63

Query: 68  VVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           VVE+    +E+   +ISL  A+  DPS+  G  V + +  + F R+  Q+AKQVI+QKVR
Sbjct: 64  VVEDTDSGLEHPYREISLSAAQYEDPSVQAGDYVEEQIDSIQFDRITTQTAKQVIVQKVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +   E++++VGE++SG VKR    +VI+DLGN ++ +I RDE + RE++RPGDR+
Sbjct: 124 EAERAQVVDEYREQVGEMVSGIVKRANREHVILDLGNNAEAIIYRDEMLPRESVRPGDRI 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  +YDVR E RG Q+ +SRT+P F+++LF +EVPEI   +++++  +RDPGSRAK+AV 
Sbjct: 184 RGLLYDVRPEARGAQLFVSRTNPNFLLELFRIEVPEIGEEMIELRGAARDPGSRAKIAVK 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D  IDPVGACVGMRG+RVQAV  EL  E++DIV+W  + A +VINA+ PA V  +V+D
Sbjct: 244 SNDKRIDPVGACVGMRGARVQAVSGELGGERVDIVLWDDNPAQYVINAMAPAEVASIVVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIG+ GQNVRLASQLTGWT++++TE+E +   + +       F
Sbjct: 304 EDAHTMDIAVAADNLAQAIGKGGQNVRLASQLTGWTLNVMTEDEFNEKNEAETQRLLNLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           +  +++DE  A++LV EGF+ +EE+A V ++E   IEG DE+   E++ RAR YL    +
Sbjct: 364 VSTLDIDEDFANVLVDEGFSSLEEVAYVPVAEFLDIEGMDEDIVEELRSRARAYLTTKAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
             ++ +      + L ++ G++  +   L   G+ T+E+LA   VDDL
Sbjct: 424 ATEESLESAEPDDTLLNLEGMERHLAYVLASKGVTTLEELAEQGVDDL 471


>gi|194289950|ref|YP_002005857.1| transcription elongation factor nusa [Cupriavidus taiwanensis LMG
           19424]
 gi|193223785|emb|CAQ69792.1| transcription termination/antitermination L factor [Cupriavidus
           taiwanensis LMG 19424]
          Length = 491

 Score =  389 bits (1000), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 209/502 (41%), Positives = 332/502 (66%), Gaps = 22/502 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV   +  ++  A +  +    DIRV I+ E+G+   FR   
Sbjct: 4   EVLLLVDALAREKNVDKDVVFGALEAALASATKKRFEEDVDIRVAIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    QI L  AR+ +PSI++G  +   +  ++FGR+  Q+AKQVI+Q++R+
Sbjct: 64  VVPDELGLQEPDKQILLFEAREENPSIELGDYIEQQIESVEFGRIGAQAAKQVILQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ D+  +I++GTVKR +   +IV+ G  + ++ RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLDRGEKIMTGTVKRADKKGLIVESGRVEALLARDQIIPKENLRTGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +V R  RGPQ+ LSRT P F++KLF  EVPE+  G++++KA +RDPG RAK+AV + 
Sbjct: 184 YILNVDRAARGPQIELSRTAPDFLIKLFENEVPEMEQGLLEIKAAARDPGVRAKIAVVAH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RG+RV AV  E+  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGVRGTRVTAVRNEIGGEAVDIVLWSEDPAQFVIGALAPAQVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+T+EE +  + ++ +   + FM 
Sbjct: 304 KHSMDVVVDEENLAVAIGRSGQNVRLASELTGWQINIMTQEESAQKQAEESDVVRKLFMS 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF+ +EE+A V ISE+  IE FDE+T  E++ RAR+ L  +++  
Sbjct: 364 KLDVDEEVADILIEEGFSTLEEVAYVPISEMMEIEAFDEDTVNELRNRARDALLTMELAR 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+ E  VS++L S+ G++ ++   L E  I T +DLA  +VD+L+  +          
Sbjct: 424 EEKVEE--VSQDLRSLDGLNPELIGKLAEGDIHTRDDLAELAVDELVEMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHAR 506
                  G  +++ +S+I+ AR
Sbjct: 472 -------GVSEEEAKSLIMKAR 486


>gi|283788203|ref|YP_003368068.1| transcription elongation protein [Citrobacter rodentium ICC168]
 gi|282951657|emb|CBG91357.1| transcription elongation protein [Citrobacter rodentium ICC168]
          Length = 495

 Score =  389 bits (999), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 201/478 (42%), Positives = 314/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEV   T +I+L+ AR  D S+++GG V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEEVTQPTKEITLEAARFEDESLNLGGYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+ P+ +V+LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YAVRPEARGAQLFVTRSKPEMLVELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  + +  ++
Sbjct: 364 DIDEEFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +++L ++ G++ ++   L   G+ T+EDLA   +DDL    G ++ K G +
Sbjct: 424 SLGDNKPADDLLNLEGMNRELAFKLAARGVCTLEDLAEQGIDDLADIEGLTDEKAGEL 481


>gi|37528349|ref|NP_931694.1| transcription elongation factor NusA [Photorhabdus luminescens
           subsp. laumondii TTO1]
 gi|36787787|emb|CAE16902.1| N utilization substance protein A (nusA protein) (L factor)
           [Photorhabdus luminescens subsp. laumondii TTO1]
          Length = 502

 Score =  389 bits (998), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 211/484 (43%), Positives = 312/484 (64%), Gaps = 11/484 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQDIDVRVSIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV   T +I+L+ AR  +P ID+G    D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVEEVTQPTREITLEAARFEEPEIDLGSYTEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F+++ GEII+  VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AMVVDQFREQQGEIITSVVKKVNRENITLDLGNNAEAVILREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           YDVR E RG Q+ +SR+ P+ +V+LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YDVRPEARGAQLFVSRSRPEMLVELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKC 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLT-------GWTIDIITEEEDSINRQKDFNERT 359
            ++V V    L+ AIGR GQNVRLA+QL         W ++++T EE     Q + +   
Sbjct: 304 TMDVAVESNNLAQAIGRNGQNVRLAAQLLKKHRGDDKWELNVMTAEELQAKHQAEAHASI 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             F + +++DE  A +LV EGF+ +EELA V I E+  IEG DEET   ++ RA+  L  
Sbjct: 364 DTFTKHLDIDEEFATVLVEEGFSTLEELAYVPIKELLEIEGLDEETIEVLRERAKAALTT 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           +++  ++ + +   +EEL ++ G++  +   L   GI T+EDLA   +DDL   S+ +G 
Sbjct: 424 LELAQKESLSDKQPTEELLNLTGMNRTLAFDLAARGICTLEDLAEQGIDDL---SDIEGL 480

Query: 480 NIEK 483
           N EK
Sbjct: 481 NDEK 484


>gi|66767928|ref|YP_242690.1| transcription elongation factor NusA [Xanthomonas campestris pv.
           campestris str. 8004]
 gi|66573260|gb|AAY48670.1| N utilization substance protein A [Xanthomonas campestris pv.
           campestris str. 8004]
          Length = 503

 Score =  389 bits (998), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 203/472 (43%), Positives = 317/472 (67%), Gaps = 5/472 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI-RVEINPETGDISLFRLL 66
           ELL + DAVA EK + R+V+   +  ++  AA+  Y     + RV I+ + G+   FR  
Sbjct: 4   ELLLVVDAVANEKGVPREVIFDAIEAALASAAKKRYPDQDVLTRVTIDHKDGNYETFRRW 63

Query: 67  EVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           EVV +   +E+   Q+ L  A +    +D+G  V + +   DFGR+A Q+AKQVI+Q+VR
Sbjct: 64  EVVADDVVMESPDRQVRLMDAIEEADGVDVGDYVEEQIENPDFGRIAAQAAKQVIVQRVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER +    +KD+VGE+I+G VKR E GN+ VDLG N++  I +D+ I R+ LRPGDRV
Sbjct: 124 EAERQQVVDAWKDRVGELITGVVKRAERGNIFVDLGGNAEAFIPKDKGIPRDVLRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           + Y+ +VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++KA +RDPG RAK+AV 
Sbjct: 184 RGYLAEVRSEPRGPQLFISRAAPEFMIELFKLEVPEVGQGLVEIKACARDPGDRAKIAVI 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           + D+  DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  +++D
Sbjct: 244 AHDTRTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNENPANFVINAMAPAEVQSIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T ++ +   + +     Q F
Sbjct: 304 EDKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTADQVAAKSEAEQASARQLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M  + VDE I+ +LV+EGF  VEE+A V + E+ ++EGFDE+   E++ RAR+ L    +
Sbjct: 364 MDRLEVDEEISAILVSEGFNTVEEIAYVPVGELLAVEGFDEDIVEELRARARDALVNAAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWS 474
             ++ +     +E+L ++ G+D +   AL E+G++T EDL+  + D+++ + 
Sbjct: 424 AEEEGLEGTQPTEDLLALEGMDEETAFALAEHGVRTSEDLSDLAADEIVDFG 475


>gi|21231945|ref|NP_637862.1| transcription elongation factor NusA [Xanthomonas campestris pv.
           campestris str. ATCC 33913]
 gi|188991044|ref|YP_001903054.1| transcription elongation factor NusA [Xanthomonas campestris pv.
           campestris str. B100]
 gi|21113674|gb|AAM41786.1| N utilization substance protein A [Xanthomonas campestris pv.
           campestris str. ATCC 33913]
 gi|167732804|emb|CAP50998.1| N utilization substance (transcription elongation) protein A
           [Xanthomonas campestris pv. campestris]
          Length = 503

 Score =  389 bits (998), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 203/472 (43%), Positives = 317/472 (67%), Gaps = 5/472 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI-RVEINPETGDISLFRLL 66
           ELL + DAVA EK + R+V+   +  ++  AA+  Y     + RV I+ + G+   FR  
Sbjct: 4   ELLLVVDAVANEKGVPREVIFDAIEAALASAAKKRYPDQDVLTRVTIDHKDGNYETFRRW 63

Query: 67  EVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           EVV +   +E+   Q+ L  A +    +D+G  V + +   DFGR+A Q+AKQVI+Q+VR
Sbjct: 64  EVVADDVVMESPDRQVRLMDAIEEADGVDVGDYVEEQIENPDFGRIAAQAAKQVIVQRVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER +    +KD+VGE+I+G VKR E GN+ VDLG N++  I +D+ I R+ LRPGDRV
Sbjct: 124 EAERQQVVDAWKDRVGELITGVVKRAERGNIFVDLGGNAEAFIPKDKGIPRDVLRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           + Y+ +VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++KA +RDPG RAK+AV 
Sbjct: 184 RGYLAEVRSEPRGPQLFISRAAPEFMIELFKLEVPEVGQGLVEIKACARDPGDRAKIAVI 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           + D+  DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  +++D
Sbjct: 244 AHDTRTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNENPANFVINAMAPAEVQSIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T ++ +   + +     Q F
Sbjct: 304 EDKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTADQVAAKSEAEQASARQLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M  + VDE I+ +LV+EGF  VEE+A V + E+ ++EGFDE+   E++ RAR+ L    +
Sbjct: 364 MDRLEVDEEISAILVSEGFNTVEEIAYVPVGELLAVEGFDEDIVEELRARARDALLNAAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWS 474
             ++ +     +E+L ++ G+D +   AL E+G++T EDL+  + D+++ + 
Sbjct: 424 AEEEGLEGTQPTEDLLALEGMDEETAFALAEHGVRTSEDLSDLAADEIVDFG 475


>gi|269961979|ref|ZP_06176334.1| N utilization substance protein A [Vibrio harveyi 1DA3]
 gi|269833302|gb|EEZ87406.1| N utilization substance protein A [Vibrio harveyi 1DA3]
          Length = 495

 Score =  389 bits (998), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 205/482 (42%), Positives = 314/482 (65%), Gaps = 12/482 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG+   FR   
Sbjct: 4   EILAVAEAVSNEKAVPRERIFEALEIALATSTKKKYEIEIDVRVAIDRKTGEFETFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE+VEN T +ISL+ A+  D  I +G  V D +P + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVEDVENPTKEISLEAAQYEDADIQLGDFVEDDIPSVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  G++I+G VK+V    V++DLGN ++ VI RD+ + REN RPGDRV+  +
Sbjct: 124 AQIVEQFIDNEGDLITGVVKKVNRETVVMDLGNNAEAVILRDDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   I+++K  +RDPGSRAK+AV ++D 
Sbjct: 184 YKVAPEARGFQLFITRSKPEMLAELFRVEVPEIAEEIIELKGAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDEDAH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF----F 362
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T      + QK   E +Q     F
Sbjct: 304 SMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMT----VADLQKKHAEESQASIENF 359

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+ ++++E  A LLV EGF+ +EE+A V ++E+  ++G +EE   E++ RA++ L  I +
Sbjct: 360 MKYLDIEEDFAQLLVEEGFSTLEEIAYVPVNELLDVDGLNEELVEELRSRAKDALTTIAL 419

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL---LGWSENKGG 479
             ++    L  +E+L  + G++ ++   L   G+ T+EDLA   +DDL    G +E + G
Sbjct: 420 AQEESFEGLEPAEDLLGLEGLEREMAFKLAAKGVATLEDLADQGIDDLEGIEGLTEERAG 479

Query: 480 NI 481
            +
Sbjct: 480 EL 481


>gi|319787428|ref|YP_004146903.1| NusA antitermination factor [Pseudoxanthomonas suwonensis 11-1]
 gi|317465940|gb|ADV27672.1| NusA antitermination factor [Pseudoxanthomonas suwonensis 11-1]
          Length = 503

 Score =  389 bits (998), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 203/469 (43%), Positives = 320/469 (68%), Gaps = 5/469 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI-RVEINPETGDISLFRLL 66
           ELL + DAVA EK + R+V+   +  ++  AA+  Y     + RV I+ + G    FR  
Sbjct: 4   ELLLVVDAVANEKGVPREVIFEALEAALASAAKKRYVDQDVVTRVAIDRKDGSYETFRRW 63

Query: 67  EVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           EVV +   +E+   QI L  A D    +++G  + + +   +FGR+A Q+AKQVI+Q+VR
Sbjct: 64  EVVADDVVMESPDRQIRLMDAVDEADGVEVGDYIEEQIENPEFGRIAAQAAKQVIVQRVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER +    +KD+VGE+++G VKRVE GN+ VDLG N++  I +D+ I R+ LR GDRV
Sbjct: 124 EAERQQVVDAWKDRVGELVTGVVKRVERGNIYVDLGGNAEAFIPKDKGIPRDVLRAGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           + Y+Y+VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++KA +RDPG RAK+AV 
Sbjct: 184 RGYLYEVRSEPRGPQLFISRAAPEFMIELFKLEVPEVGQGLVEIKACARDPGDRAKIAVI 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           + D+  DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  +++D
Sbjct: 244 AHDNRTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNENPANFVINAMAPAEVQSIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T+++ +   + +     Q F
Sbjct: 304 EEKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTQDQVAAKSEAEQAVARQLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M  + VDE IA +LV+EGF+ VEE+A V + E+ ++EGFDE+   E++ RAR+ L    +
Sbjct: 364 MDKLEVDEEIAGILVSEGFSTVEEIAYVPVGELLAVEGFDEDIVEELRARARDALLNDAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
            +++++ E G +E+L ++ G+D     AL  +G++T EDL+  + D+++
Sbjct: 424 AVEEQMGEEGPAEDLLALEGMDEDTAFALAAHGVRTSEDLSDLAADEVV 472


>gi|90416134|ref|ZP_01224066.1| transcription elongation factor NusA [marine gamma proteobacterium
           HTCC2207]
 gi|90331859|gb|EAS47073.1| transcription elongation factor NusA [marine gamma proteobacterium
           HTCC2207]
          Length = 497

 Score =  389 bits (998), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 199/467 (42%), Positives = 314/467 (67%), Gaps = 3/467 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK +D++V+   +  ++  A +  Y   ++IRV I+ ETGD   FR  +
Sbjct: 4   EILMVAEAVSNEKGVDQEVIFQAIEQALSTATKKRYDEGANIRVVIDRETGDYDSFRWWD 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV +  +     Q + + A ++DP++ +G    + +  + FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVADDVMAELGTQFTTEEAHEKDPTLAVGDTFEETVENIAFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER+     F +++GE+++GTVK+V   ++IVD G N++G++ R+E + RE  R  DR + 
Sbjct: 124 ERELIISRFVNRIGEMLNGTVKKVTRDHIIVDFGDNAEGLLPREELVGREIFRINDRTRV 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  +R + RGPQ+L+SR   + +V+LFH+EVPEI  GI+++K  +RDPG RAK+AV S 
Sbjct: 184 ILTSIRDDTRGPQLLVSRAASEMLVQLFHIEVPEISEGIIEIKGAARDPGQRAKIAVKSK 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D+ IDPVGACVGMRG+RVQAV  +L DE+IDI++W  + A  VINA+ PA V  +V+DED
Sbjct: 244 DARIDPVGACVGMRGARVQAVSNDLDDERIDIILWDDNPAQLVINAMAPAEVESIVVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V V +E L+ AIG+ GQNVRLAS+LTGWTI+++T ++    +Q++     +  M 
Sbjct: 304 SHSMDVAVSEENLAQAIGKGGQNVRLASELTGWTINVMTMDQAQEKQQEESLNVVENLMT 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
           A+++DE +A +LV EGF  +EE+A V + E+  IEGFDE  A E++ RA++ L  + +  
Sbjct: 364 ALDIDEDVAIVLVEEGFTSLEEVAYVPLEEMIDIEGFDEGIATELRARAKDALLTMALAS 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++++     +E+L ++ G++  +   L   GI TMEDLA  +VDDL+
Sbjct: 424 EEQLANAQPAEDLLTMDGMNDALANTLAGKGIITMEDLAEQAVDDLM 470


>gi|156975664|ref|YP_001446571.1| transcription elongation factor NusA [Vibrio harveyi ATCC BAA-1116]
 gi|156527258|gb|ABU72344.1| hypothetical protein VIBHAR_03397 [Vibrio harveyi ATCC BAA-1116]
          Length = 495

 Score =  389 bits (998), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 205/482 (42%), Positives = 314/482 (65%), Gaps = 12/482 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG+   FR   
Sbjct: 4   EILAVAEAVSNEKAVPRERIFEALEIALATSTKKKYEIEIDVRVAIDRKTGEFETFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE+VEN T +ISL+ A+  D  I +G  V D +P + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVEDVENPTKEISLEAAQYEDADIQLGDFVEDDIPSVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  G++I+G VK+V    V++DLGN ++ VI RD+ + REN RPGDRV+  +
Sbjct: 124 AQIVEQFIDNEGDLITGVVKKVNRETVVLDLGNNAEAVILRDDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   I+++K  +RDPGSRAK+AV ++D 
Sbjct: 184 YKVAPEARGFQLFITRSKPEMLAELFRVEVPEIAEEIIELKGAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDEDAH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF----F 362
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T      + QK   E +Q     F
Sbjct: 304 SMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMT----VADLQKKHAEESQASIENF 359

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+ ++++E  A LLV EGF+ +EE+A V ++E+  ++G +EE   E++ RA++ L  I +
Sbjct: 360 MKYLDIEEDFAQLLVEEGFSTLEEIAYVPVNELLDVDGLNEELVEELRSRAKDALTTIAL 419

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL---LGWSENKGG 479
             ++    L  +E+L  + G++ ++   L   G+ T+EDLA   +DDL    G +E + G
Sbjct: 420 AQEESFEGLEPAEDLLGLEGLEREMAFKLAAKGVATLEDLADQGIDDLEGIEGLTEERAG 479

Query: 480 NI 481
            +
Sbjct: 480 EL 481


>gi|152972093|ref|YP_001337239.1| transcription elongation factor NusA [Klebsiella pneumoniae subsp.
           pneumoniae MGH 78578]
 gi|238896676|ref|YP_002921421.1| transcription elongation factor NusA [Klebsiella pneumoniae
           NTUH-K2044]
 gi|262042727|ref|ZP_06015881.1| N utilization substance A [Klebsiella pneumoniae subsp.
           rhinoscleromatis ATCC 13884]
 gi|329997774|ref|ZP_08302913.1| transcription termination factor NusA [Klebsiella sp. MS 92-3]
 gi|150956942|gb|ABR78972.1| transcription elongation factor NusA [Klebsiella pneumoniae subsp.
           pneumoniae MGH 78578]
 gi|238549003|dbj|BAH65354.1| transcription elongation factor [Klebsiella pneumoniae subsp.
           pneumoniae NTUH-K2044]
 gi|259039952|gb|EEW41069.1| N utilization substance A [Klebsiella pneumoniae subsp.
           rhinoscleromatis ATCC 13884]
 gi|328538908|gb|EGF64969.1| transcription termination factor NusA [Klebsiella sp. MS 92-3]
          Length = 495

 Score =  388 bits (997), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 202/478 (42%), Positives = 312/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVEEVTQPTREITLEAARFEDESMNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDQFREHEGEIITGVVKKVNRDNITLDLGNNAEAVILREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVLEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  + +  ++
Sbjct: 364 DIDEDFATVLVEEGFSSLEELAYVPMKELLEIDGLDEATVEALRERAKNALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +++L ++ G+D  +   L   G+ T+EDLA   VDDL    G ++ K G +
Sbjct: 424 SLGDNKPADDLLNLEGLDRALAFKLAARGVCTLEDLAEQGVDDLADIEGMTDEKAGEL 481


>gi|237748745|ref|ZP_04579225.1| transcription elongation protein [Oxalobacter formigenes OXCC13]
 gi|229380107|gb|EEO30198.1| transcription elongation protein [Oxalobacter formigenes OXCC13]
          Length = 519

 Score =  388 bits (997), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 206/467 (44%), Positives = 314/467 (67%), Gaps = 5/467 (1%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           LE+LQ+ DA+A EK++D+++VL  +  ++  A +  Y   +DIRV I+  TG++  FR  
Sbjct: 3   LEILQLVDALAREKNVDKEIVLGALEHALALATKKRYPGDADIRVSIDRTTGEVETFRRW 62

Query: 67  EVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
            VV +   ++    ++    A+++ P I++   + D +  +D GR   Q  KQ+++Q++R
Sbjct: 63  HVVPDEAGLQQPDQEMLYFEAKEQFPDIEVDDYIEDHIESIDLGRRFAQDTKQIVLQRIR 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           +AER++   +F D+   +++GTVKR+E G+ IV+ G  +  + R++ I +ENLR GDRV+
Sbjct: 123 DAEREQVLQDFLDRGDSLVTGTVKRMERGDAIVESGKVEARLPREQMIPKENLRVGDRVR 182

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           +YI  V R  RGPQV+LSRT P+F+VKLF +EVPEI  G++++K+ +RDPG RAK+AVF+
Sbjct: 183 AYILRVERGARGPQVILSRTAPEFIVKLFELEVPEIEQGLLEIKSAARDPGVRAKIAVFT 242

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           SD  IDP+G CVGMRGSRVQAV  EL  E++DIV+WS D A FVI AL PA VT +V+DE
Sbjct: 243 SDKRIDPIGTCVGMRGSRVQAVTGELGGERVDIVLWSEDPAQFVIGALAPANVTSIVVDE 302

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   ++VIV +E L++AIGR GQNVRLA++LTGW I+I+T EE +     +  E  + FM
Sbjct: 303 DKHAMDVIVDEENLAIAIGRSGQNVRLATELTGWKINIMTAEESADKSALEKAELQKLFM 362

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
           + ++VD+ +A +L+ EGF  +EE+A V I E+  IE FDE+T  EI+ RAR+ L  I   
Sbjct: 363 ERLDVDQEVADILIEEGFTALEEIAYVPIGEMLEIEAFDEDTVNEIRQRARDAL--ITEA 420

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           +  +    G+ EEL ++ G+D ++   LG  G+KT++  A  + D+ 
Sbjct: 421 IASEEGMAGMEEELVNLEGMDRQVAGKLGLAGVKTLQRFAELAYDEF 467


>gi|325915554|ref|ZP_08177865.1| transcription termination factor NusA [Xanthomonas vesicatoria ATCC
           35937]
 gi|325538270|gb|EGD09955.1| transcription termination factor NusA [Xanthomonas vesicatoria ATCC
           35937]
          Length = 503

 Score =  388 bits (997), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 202/472 (42%), Positives = 317/472 (67%), Gaps = 5/472 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI-RVEINPETGDISLFRLL 66
           ELL + DAVA EK + R+V+   +  ++  AA+  Y     + RV I+ + G+   FR  
Sbjct: 4   ELLLVVDAVANEKGVPREVIFDAIEAALASAAKKRYPDQDVLTRVTIDHKDGNYETFRRW 63

Query: 67  EVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           EVV +   +E+   Q+ L  A D    +++G  + + +   DFGR+A Q+AKQVI+Q+VR
Sbjct: 64  EVVADDVVMESPDRQVRLMDAIDEADGVEVGDYIEEQIENPDFGRIAAQAAKQVIVQRVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER +    +KD+VGE+I+G VKR E GN+ VDLG N++  I +D+ I R+ LRPGDRV
Sbjct: 124 EAERQQVVDAWKDRVGELITGVVKRAERGNIFVDLGGNAEAFIPKDKGIPRDVLRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           + Y+ +VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++KA +RDPG RAK+AV 
Sbjct: 184 RGYLAEVRSEPRGPQLFISRAAPEFMIELFKLEVPEVGQGLVEIKACARDPGDRAKIAVI 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           + D+  DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  +++D
Sbjct: 244 AHDTRTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNENPANFVINAMAPAEVQSIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T ++ +   + +     Q F
Sbjct: 304 EDKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTADQVAAKSEAEQASARQLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M  + VDE I+ +LV+EGF  VEE+A V + E+ ++EGFDE+   E++ RAR+ L    +
Sbjct: 364 MDRLEVDEEISAILVSEGFNTVEEIAYVPVGELLAVEGFDEDIVEELRARARDALLNAAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWS 474
             ++ +     +E+L ++ G+D +   AL E+G++T EDL+  + D+++ + 
Sbjct: 424 AEEEGLEGTQPTEDLLALEGMDEETAFALAEHGVRTSEDLSDLAADEIVDFG 475


>gi|206577127|ref|YP_002236420.1| transcription termination factor NusA [Klebsiella pneumoniae 342]
 gi|288933403|ref|YP_003437462.1| NusA antitermination factor [Klebsiella variicola At-22]
 gi|290511546|ref|ZP_06550915.1| N utilization substance protein A [Klebsiella sp. 1_1_55]
 gi|206566185|gb|ACI07961.1| transcription termination factor NusA [Klebsiella pneumoniae 342]
 gi|288888132|gb|ADC56450.1| NusA antitermination factor [Klebsiella variicola At-22]
 gi|289776539|gb|EFD84538.1| N utilization substance protein A [Klebsiella sp. 1_1_55]
          Length = 495

 Score =  388 bits (997), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 202/478 (42%), Positives = 312/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVEEVTQPTREITLEAARYEDESMNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDQFREHEGEIITGVVKKVNRDNITLDLGNNAEAVILREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVLEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  + +  ++
Sbjct: 364 DIDEDFATVLVEEGFSSLEELAYVPMKELLEIDGLDEATVEALRERAKNALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +++L ++ G+D  +   L   G+ T+EDLA   VDDL    G ++ K G +
Sbjct: 424 SLGDNKPADDLLNLEGLDRALAFKLAARGVCTLEDLAEQGVDDLADIEGMTDEKAGEL 481


>gi|166712599|ref|ZP_02243806.1| transcription elongation factor NusA [Xanthomonas oryzae pv.
           oryzicola BLS256]
          Length = 503

 Score =  388 bits (997), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 202/472 (42%), Positives = 317/472 (67%), Gaps = 5/472 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI-RVEINPETGDISLFRLL 66
           ELL + DAVA EK + R+V+   +  ++  AA+  Y     + RV I+ + G    +R  
Sbjct: 4   ELLLVVDAVANEKGVPREVIFDAIEAALASAAKKRYPDQDVLARVTIDHKDGTYETYRRW 63

Query: 67  EVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           EVV +   +E+   Q+ L  A D    +D+G  + + +   DFGR+A Q+AKQVI+Q+VR
Sbjct: 64  EVVADDVVMESPDRQVRLMDAIDEADGVDVGDYIEEQIENPDFGRIAAQAAKQVIVQRVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER +    +KD+VGE+I+G VKR E GN+ VDLG N++  I +D+ I R+ LRPGDRV
Sbjct: 124 EAERQQVVDAWKDRVGELITGVVKRAERGNIFVDLGGNAEAFIPKDKGIPRDVLRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           + Y+ +VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++KA +RDPG RAK+AV 
Sbjct: 184 RGYLAEVRSEPRGPQLFISRAAPEFMIELFKLEVPEVGQGLVEIKACARDPGDRAKIAVI 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           + D+  DP+GAC+GMRGSRVQA+  EL  E++DIV+W+ + A FVINA+ PA V  +++D
Sbjct: 244 AHDARTDPIGACIGMRGSRVQAISNELNGERVDIVLWNENPANFVINAMAPAEVQSIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T ++ +   + +     Q F
Sbjct: 304 EDKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTADQVAAKSEAEQAAARQLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M  + VDE I+ +LV+EGF  VEE+A V + E+ ++EGFDE+   E++ RAR+ L    +
Sbjct: 364 MDRLEVDEEISAILVSEGFNTVEEIAYVPVGELLAVEGFDEDIVEELRARARDALLNAAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWS 474
             ++ +     +E+L ++ G+D +  VAL E+G++T EDL+  + D+++ + 
Sbjct: 424 AEEEGLEGTQPTEDLLALEGMDEETAVALAEHGVRTSEDLSDLAADEIVDFG 475


>gi|291613948|ref|YP_003524105.1| NusA antitermination factor [Sideroxydans lithotrophicus ES-1]
 gi|291584060|gb|ADE11718.1| NusA antitermination factor [Sideroxydans lithotrophicus ES-1]
          Length = 491

 Score =  388 bits (997), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 204/490 (41%), Positives = 320/490 (65%), Gaps = 8/490 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+L + DA+A EK++D+++V   +  ++  A +  +    +D+RV I+ ++G+   FR  
Sbjct: 4   EVLLLVDALAREKNVDKEIVFGALESALASATKKRFSDEEADVRVSIDRQSGEYESFRRW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           +V+  E  E     I L+ A+ RDP I +   + +PL  +DFGR+  Q+AKQVI QK+R+
Sbjct: 64  QVMDDETFETPELHIKLEEAQKRDPHIQLEEFIEEPLENIDFGRIGAQAAKQVIFQKIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F ++   ++SGT+KR+E GN IV+ G  + ++ RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILADFMERNEHLVSGTIKRIERGNAIVEFGKIEALLPRDQMIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+  V R  RGPQ++LSR   +F+ KLF +EVPEI  G++++ + +RDPGSRAK+AV S 
Sbjct: 184 YLLRVDRTVRGPQIILSRITTEFLSKLFELEVPEIEEGLLEIVSAARDPGSRAKIAVRSH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  +DP+G CVGMRGSRVQAV  EL  E++DI++WS + AT+VINAL PA VT +V+DE+
Sbjct: 244 DQRLDPIGTCVGMRGSRVQAVTNELAGERVDIILWSEEPATYVINALAPAEVTSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L+ AIGR GQNVRLAS +TGW I+++T E+ +   +++F++    F+ 
Sbjct: 304 KHSMDVVVEEENLAQAIGRGGQNVRLASDMTGWEINLMTVEQSAEKNEQEFSKIRDLFVA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +LV EGF  +EE+A V + E+ +IE FDE T  E++ RAR  L    I  
Sbjct: 364 KLDVDEEVADILVQEGFNTLEEVAYVPLEEMQAIESFDEATVNELRSRARNALLTAAIVN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++++ E  + E+L  I G+D +    L   G+ T E LA    D+L+   E  G + E+ 
Sbjct: 424 EEQV-EHNI-EDLLKIAGMDEETARTLAGKGVGTQEQLADLDGDELV---EMTGMDAERA 478

Query: 485 DGFLSSLGTP 494
           +  + +   P
Sbjct: 479 NQLIMTARAP 488


>gi|238761767|ref|ZP_04622741.1| Transcription termination factor NusA [Yersinia kristensenii ATCC
           33638]
 gi|238699881|gb|EEP92624.1| Transcription termination factor NusA [Yersinia kristensenii ATCC
           33638]
          Length = 495

 Score =  388 bits (996), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 199/478 (41%), Positives = 312/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RV I+ +TGD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIEVRVSIDRKTGDFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            V+EV   T +I+L  A+  DPSI +G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  AVDEVTMPTREITLDAAQYEDPSIQLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
                +F+  +GEI++GTVK+V   ++ +DLG N++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVEQFRQYLGEIVTGTVKKVNRDSIALDLGHNAEAVINREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           YDVR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YDVRPEARGAQLFVSRSRPEMLIELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            ++V V    L+ AIGR GQNVRLA+QL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDVAVEASNLAQAIGRNGQNVRLAAQLSGWELNVMTADDLQAKHQAEAHAAIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V + E+  I+G DE+T   ++ RA+  L  + +  ++
Sbjct: 364 DIDEDFATILVEEGFSSLEELAYVPMKELLEIDGLDEDTVEALRDRAKAALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +++L ++ G++  +   L   G+ T+EDLA   +DDL    G S+ + G +
Sbjct: 424 SLGDQKPADDLLNLAGLERSMAFKLAARGVCTLEDLAEQGIDDLADIEGLSDEQAGEL 481


>gi|254468012|ref|ZP_05081418.1| transcription termination factor NusA [beta proteobacterium KB13]
 gi|207086822|gb|EDZ64105.1| transcription termination factor NusA [beta proteobacterium KB13]
          Length = 485

 Score =  388 bits (996), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 198/463 (42%), Positives = 317/463 (68%), Gaps = 2/463 (0%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +L + DA+A+EK++ +++V + +  ++  A +  Y   +DIRV+I+PE+G    FR   V
Sbjct: 1   MLILVDALAHEKNVSKEIVFNALELALASATKKKYPHGTDIRVKIDPESGAYESFRCWTV 60

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VEE      +  + +  DR     IG V+ + +P  +FGR+  Q+AKQVI+QKVREAER+
Sbjct: 61  VEEENLENEEAEILLIDDRAKDKQIGDVIEESIPSEEFGRIGAQAAKQVILQKVREAERE 120

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
           +   EF  +  +++ G ++R+E GN I+++G  + ++ RD+ I +ENLR GDR+++ +  
Sbjct: 121 QVLNEFLARDEKLVMGQIRRMERGNAIIEIGKLEAILPRDQMIPKENLRVGDRIRAALLK 180

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           +    RGPQ++LSRT P+F++KLF +EVPEI  G++++ + SRDPGSR+K+AV ++D  +
Sbjct: 181 IETSMRGPQLILSRTSPEFIIKLFEIEVPEIEEGLLEIMSASRDPGSRSKIAVKANDQRL 240

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI 308
           DPVG CVGMRGSRVQAV TEL  E++DIV+WS + A FVIN++ PA V+ +V+DE+   +
Sbjct: 241 DPVGTCVGMRGSRVQAVTTELSGERVDIVLWSIEPAQFVINSMAPAEVSSIVVDEEKRSM 300

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINV 368
           +++V ++QL+LAIGR GQN+RLASQLTGW ++I+TEEE     +++++  +Q F++ ++V
Sbjct: 301 DIVVDEDQLALAIGRNGQNIRLASQLTGWELNIMTEEESEKKHEEEYSTVSQLFIEKLDV 360

Query: 369 DEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKI 428
           DE +A +LV EGF  +EE+A V   E+  ++ FDE+T  E++ RA+  +    I  ++K+
Sbjct: 361 DEEVADILVKEGFTSLEEIAYVPTEELNQMDIFDEDTIEELRSRAKAAILTAAIANEEKV 420

Query: 429 RELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
            E    E+L ++ G+D      L   GI +MEDLA  +VD+LL
Sbjct: 421 PE--AQEDLLTMEGMDQNTANLLASKGIVSMEDLAELAVDELL 461


>gi|260596201|ref|YP_003208772.1| transcription elongation factor NusA [Cronobacter turicensis z3032]
 gi|260215378|emb|CBA27401.1| Transcription elongation protein nusA [Cronobacter turicensis
           z3032]
          Length = 495

 Score =  387 bits (995), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 199/478 (41%), Positives = 311/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKAVPREKIFEALESALATATKKKYEQEIDVRVSIDRKSGDFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEV   T +I+L+ AR  DPS+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEEVTQPTREITLEAARYEDPSLNVGEYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
                +F++  GEII+G VK+V   N+ +DLG N++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDQFREHEGEIITGVVKKVNRENITLDLGSNAEAVILREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R  P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YAVRPEARGAQLFVTRAKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V + E+  ++G DE T   ++ RA+  L  + +  ++
Sbjct: 364 DIDEEFATILVEEGFSTLEELAYVPMKELLEVDGLDEPTVEALRERAKNALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +++L ++ G+D  +   L   G+ T++DLA   VDDL    G ++ K G +
Sbjct: 424 SLGDNKPADDLLNLEGMDRTLAYKLAARGVCTLDDLADQGVDDLADIDGLTDEKAGEL 481


>gi|327396260|dbj|BAK13682.1| transcription elongation protein NusA [Pantoea ananatis AJ13355]
          Length = 495

 Score =  387 bits (995), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 200/478 (41%), Positives = 313/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ ++GD   FR  E
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVSIDRKSGDFDTFRRWE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VE+V   T +I+L  AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEQVTQPTREITLDAARYEDESLNLGEYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F+++ GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDQFREQEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVLEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDNH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDMFTKHL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EE+A V I+E+  I+G DEET   ++ RA+  L  + +  ++
Sbjct: 364 DIDEEFATILVEEGFSTLEEMAYVPINELLEIDGLDEETIEALRERAKNALTTLALAKEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            +     +E+L ++ G+D  +   L   G+ T+EDLA   VDDL    G ++ + G +
Sbjct: 424 SLGNQEPAEDLLNLEGLDRALAFRLASKGVCTLEDLAEQGVDDLTDIEGLTDEQAGAL 481


>gi|289665188|ref|ZP_06486769.1| transcription elongation factor NusA [Xanthomonas campestris pv.
           vasculorum NCPPB702]
 gi|289667364|ref|ZP_06488439.1| transcription elongation factor NusA [Xanthomonas campestris pv.
           musacearum NCPPB4381]
          Length = 503

 Score =  387 bits (995), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 202/472 (42%), Positives = 316/472 (66%), Gaps = 5/472 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI-RVEINPETGDISLFRLL 66
           ELL + DAVA EK + R+V+   +  ++  AA+  Y     + RV I+ + G    +R  
Sbjct: 4   ELLLVVDAVANEKGVPREVIFDAIEAALASAAKKRYPDQDVLARVTIDHKDGTYETYRRW 63

Query: 67  EVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           EVV +   +E+   Q+ L  A D    +D+G  + + +   DFGR+A Q+AKQVI+Q+VR
Sbjct: 64  EVVADDVVMESPDRQVRLMDAIDEADGVDVGDYIEEQIENPDFGRIAAQAAKQVIVQRVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER +    +KD+VGE+I+G VKR E GN+ VDLG N++  I +D+ I R+ LRPGDRV
Sbjct: 124 EAERQQVVDAWKDRVGELITGVVKRAERGNIFVDLGGNAEAFIPKDKGIPRDVLRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           + Y+ +VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++KA +RDPG RAK+AV 
Sbjct: 184 RGYLAEVRSEPRGPQLFISRAAPEFMIELFKLEVPEVGQGLVEIKACARDPGDRAKIAVI 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           + D+  DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  +++D
Sbjct: 244 AHDTRTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNENPANFVINAMAPAEVQSIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T ++ +   + +     Q F
Sbjct: 304 EDKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTADQVAAKSEAEQAAARQLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M  + VDE I+ +LV+EGF  VEE+A V + E+ ++EGFDE+   E++ RAR+ L    +
Sbjct: 364 MDRLEVDEEISAILVSEGFNTVEEIAYVPVGELLAVEGFDEDIVEELRARARDALLNAAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWS 474
             ++ +     +E+L ++ G+D +   AL E+G++T EDL+  + D+++ + 
Sbjct: 424 AEEEGLEGTQPTEDLLALEGMDEETAFALAEHGVRTSEDLSDLAADEIVDFG 475


>gi|190575263|ref|YP_001973108.1| transcription elongation factor NusA [Stenotrophomonas maltophilia
           K279a]
 gi|190013185|emb|CAQ46818.1| putative N utilization substance protein A [Stenotrophomonas
           maltophilia K279a]
          Length = 503

 Score =  387 bits (995), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 204/472 (43%), Positives = 316/472 (66%), Gaps = 5/472 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI-RVEINPETGDISLFRLL 66
           ELL + DAVA EK + R+V+   +  ++  AA+  Y     + RV I+ + G    FR  
Sbjct: 4   ELLLVVDAVANEKGVPREVIFDAIEAALASAAKKRYPDEEVLTRVVIDHKDGSYETFRRW 63

Query: 67  EVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           EVV +   +E+   QI L  A D    +D+G  + + +   DFGR+A Q+AKQVI+Q+VR
Sbjct: 64  EVVADDVVMESPDRQIRLMDAVDEAEGVDVGDYIEEQIENPDFGRIAAQAAKQVIVQRVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER +    +KD+VGE+I+G VKR E GN+ VDLG N++G I +D+ I R+ LR GDRV
Sbjct: 124 EAERQQVVDAWKDRVGELITGVVKRAERGNIYVDLGGNAEGFIPKDKGIPRDVLRAGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           + Y+ +VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++KA +RDPG RAK+AV 
Sbjct: 184 RGYLAEVRSEPRGPQLFISRAAPEFMIELFKLEVPEVGQGLVEIKACARDPGDRAKIAVL 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           + D   DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  +++D
Sbjct: 244 AQDQRTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNDNPANFVINAMAPAEVQSIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T+++ +   + +     Q F
Sbjct: 304 EDKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTQDQVTAKSEAEQASARQLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M  + VDE IA +LV+EGF  VEE+A V + E+ ++EGFDE+   E++ RAR+ L    +
Sbjct: 364 MDKLEVDEEIAGILVSEGFGTVEEIAYVPVGELLAVEGFDEDIVEELRARARDALLNEAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWS 474
            +++ + +   +++L S+ G+D     AL  +G++T EDL+  + D+++ + 
Sbjct: 424 AVEEGLEDGQPAQDLLSLKGMDEATAYALAGHGVRTSEDLSDLAADEVMDFG 475


>gi|73541717|ref|YP_296237.1| transcription elongation factor NusA [Ralstonia eutropha JMP134]
 gi|72119130|gb|AAZ61393.1| Transcription termination factor NusA:Transcription termination
           factor NusA, C-terminal duplication [Ralstonia eutropha
           JMP134]
          Length = 491

 Score =  387 bits (995), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 204/467 (43%), Positives = 320/467 (68%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV   +  ++  A +  +    DIRV I+ E+G+   FR   
Sbjct: 4   EVLLLVDALAREKNVDKDVVFGALEAALASATKKRFEEDVDIRVAIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    QI L  ARD D S+++G  V   +  ++FGR+  Q+AKQVI+Q++R+
Sbjct: 64  VVPDEQGLQEPDKQILLFEARDDDASLELGDYVEQQIESVEFGRIGAQAAKQVILQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR +   +IV+ G  + ++ RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRADKKGLIVESGRVEALLARDQIIPKENLRTGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +V R  RGPQ+ LSRT P+F++KLF  EVPE+  G++++KA +RDPG RAK+AV + 
Sbjct: 184 YILNVDRAARGPQIELSRTAPEFLIKLFENEVPEMEQGLLEIKAAARDPGVRAKIAVVAH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RG+RV AV  E+  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGVRGTRVTAVRNEIGGEAVDIVLWSEDPAQFVIGALAPAQVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+T+EE +  + ++ +   + FM 
Sbjct: 304 KHCMDVVVDEENLAVAIGRSGQNVRLASELTGWQINIMTQEESAQKQAEESDAVRKLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF+ +EE+A V ISE+  IE FDE+T  E++ RAR+ L  +++  
Sbjct: 364 KLDVDEEVADILIEEGFSTLEEVAYVPISEMMEIEAFDEDTVNELRNRARDALLTMELAR 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+ E  VS++L S+ G++ ++   L E  I T +DLA  +VD+L+
Sbjct: 424 EEKVEE--VSQDLRSLDGLNPELIGKLAEGDIHTRDDLAELAVDELV 468


>gi|291616009|ref|YP_003518751.1| NusA [Pantoea ananatis LMG 20103]
 gi|291151039|gb|ADD75623.1| NusA [Pantoea ananatis LMG 20103]
          Length = 500

 Score =  387 bits (995), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 200/478 (41%), Positives = 313/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ ++GD   FR  E
Sbjct: 9   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVSIDRKSGDFDTFRRWE 68

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VE+V   T +I+L  AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 69  IVEQVTQPTREITLDAARYEDESLNLGEYVEDQIESVTFDRITTQTAKQVIVQKVREAER 128

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F+++ GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDR++  +
Sbjct: 129 AMVVDQFREQEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDRIRGVL 188

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 189 YAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVLEIKAAARDPGSRAKIAVKTNDK 248

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 249 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDNH 308

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F + +
Sbjct: 309 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDMFTKHL 368

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EE+A V I+E+  I+G DEET   ++ RA+  L  + +  ++
Sbjct: 369 DIDEEFATILVEEGFSTLEEMAYVPINELLEIDGLDEETIEALRERAKNALTTLALAKEE 428

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            +     +E+L ++ G+D  +   L   G+ T+EDLA   VDDL    G ++ + G +
Sbjct: 429 SLGNQEPAEDLLNLEGLDRALAFRLASKGVCTLEDLAEQGVDDLTDIEGLTDEQAGAL 486


>gi|113460963|ref|YP_719030.1| transcription elongation factor NusA [Haemophilus somnus 129PT]
 gi|112823006|gb|ABI25095.1| transcription elongation protein, N utilization substance protein A
           [Haemophilus somnus 129PT]
          Length = 493

 Score =  387 bits (995), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 201/465 (43%), Positives = 309/465 (66%), Gaps = 2/465 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + R+ +   +  +I  + +  Y    D+RV IN +TG+ S FR   
Sbjct: 4   EILLAAEAVSNEKLLPREKIFEALESAIALSTKKKYEQEIDVRVVINTKTGEFSTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE V N T +I+L+ A+  DP I +G  + D +  + F R+A+Q+A+QVI  K+REAER
Sbjct: 64  VVETVLNPTKEITLEAAQFEDPEIKLGDYIEDEIDSIAFDRIAMQTARQVISTKIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
           ++   +F+ + GEI+SGTVK+V   ++I+DL   ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 NKIVEQFRSQEGEIVSGTVKKVNRDSIILDLSQQAEAVILREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E +G Q+ ++R  P+ +V+LF +EVPEI   ++++K  SRDPG RAK+AV S+D 
Sbjct: 184 YKVSPENKGIQLFVTRAKPEMLVELFRIEVPEIGEELIEIKGASRDPGLRAKIAVKSNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRGSRVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +V+DED  
Sbjct: 244 RIDPVGACVGMRGSRVQAITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIVVDEDNH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  E L+ AIGR GQNVRLA+QLTGW ++++T ++ +   Q + N+    FM A+
Sbjct: 304 SMDIAVEPENLAQAIGRNGQNVRLATQLTGWVLNVMTIDDLNAKHQAEDNKILALFMTAL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV-EIQGRAREYLEGIDITLQ 425
            +DE  AH+LV EGF ++EE+A V ++E+ +I+G ++E  V E+Q RA+  +    +  +
Sbjct: 364 EIDEEFAHILVDEGFTNLEEIAYVAVNELTAIDGLEDEDLVEELQARAKNAITARMLAEE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           + +++  V E+L ++ G+   I   L E  I T+E+LA   VDDL
Sbjct: 424 EALKQAHVEEKLLNLEGMSRHIAFRLSEKQITTLEELAEQGVDDL 468


>gi|269137762|ref|YP_003294462.1| transcription elongation factor [Edwardsiella tarda EIB202]
 gi|267983422|gb|ACY83251.1| transcription elongation factor [Edwardsiella tarda EIB202]
 gi|304557819|gb|ADM40483.1| Transcription termination protein NusA [Edwardsiella tarda FL6-60]
          Length = 495

 Score =  387 bits (994), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 197/464 (42%), Positives = 305/464 (65%), Gaps = 1/464 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALETALATATKKKYEQEIDVRVAIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +V+EV   T +I+L  AR  DP++D+G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVDEVTQPTREITLDAARFEDPALDLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                 F++  GEI++G VK+V   ++ +DLGN ++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDAFREHEGEIVTGVVKKVNRDSISLDLGNNAEAVIGREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++K  +RDPGSRAK+AV ++D 
Sbjct: 184 YAVRPEARGAQLFVTRSRPEMLIELFRIEVPEIGEEVIEIKGAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T E+     Q + +     F + +
Sbjct: 304 TMDIAVEASNLAQAIGRNGQNVRLASQLSGWELNVMTAEDLQAKHQAEAHAAIDTFTKHL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A LLV EGF+ +EELA V   E+ SI+G DEET   ++ RA+  L  + +  ++
Sbjct: 364 DIDEEFATLLVEEGFSTLEELAYVPERELLSIDGLDEETVEALRTRAKNALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
            + +   +++L ++PG++  +   L   G+ T+EDLA   VDDL
Sbjct: 424 SLGDNKPADDLLNLPGMERSVAFKLAARGVCTLEDLAEQGVDDL 467


>gi|123440812|ref|YP_001004803.1| transcription elongation factor NusA [Yersinia enterocolitica
           subsp. enterocolitica 8081]
 gi|332160078|ref|YP_004296655.1| transcription elongation factor NusA [Yersinia enterocolitica
           subsp. palearctica 105.5R(r)]
 gi|122087773|emb|CAL10559.1| N utilization substance protein A [Yersinia enterocolitica subsp.
           enterocolitica 8081]
 gi|318607362|emb|CBY28860.1| transcription termination protein NusA [Yersinia enterocolitica
           subsp. palearctica Y11]
 gi|325664308|gb|ADZ40952.1| transcription elongation factor NusA [Yersinia enterocolitica
           subsp. palearctica 105.5R(r)]
 gi|330862029|emb|CBX72196.1| transcription elongation protein nusA [Yersinia enterocolitica
           W22703]
          Length = 495

 Score =  387 bits (994), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 198/478 (41%), Positives = 313/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RV I+ +TGD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIEVRVSIDRKTGDFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            V+EV   T +I+L+ A+  DPS+ +G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  AVDEVTMPTREITLEAAQYEDPSLQLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F+  +GEI++GTVK+V   ++ +DLGN ++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVEQFRQYLGEIVTGTVKKVNRDSIALDLGNNAEAVINREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           YDVR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YDVRPEARGAQLFVSRSRPEMLIELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            ++V V    L+ AIGR GQNVRLA+QL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDVAVEASNLAQAIGRNGQNVRLAAQLSGWELNVMTADDLQAKHQAEAHAAIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V + E+  I+G DE+T   ++ RA+  L  + +  ++
Sbjct: 364 DIDEDFATVLVEEGFSSLEELAYVPMKELLEIDGLDEDTVEALRDRAKAALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +++L ++ G++  +   L   G+ T+EDLA   +DDL    G S+ + G +
Sbjct: 424 SLGDQKPADDLLNLAGLERSMAFKLAARGVCTLEDLAEQGIDDLADIEGLSDEQAGEL 481


>gi|54298757|ref|YP_125126.1| transcription elongation factor NusA [Legionella pneumophila str.
           Paris]
 gi|53752542|emb|CAH13974.1| Transcription elongation protein nusA [Legionella pneumophila str.
           Paris]
          Length = 492

 Score =  387 bits (994), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 211/481 (43%), Positives = 324/481 (67%), Gaps = 9/481 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL +A+A++ E+ + +DV++  +  +++ A R + G    +R++I+ +TGD   FR  +
Sbjct: 4   ELLLVAEALSNERGVSKDVIILAIQAALESATRKILGLDIGVRIKIDSKTGDYETFRYWD 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV  EE+E    Q+SL+ A++R PS  +G  + + +P ++FGR+  Q+A+QVI+QKVREA
Sbjct: 64  VVNEEELEFPDRQLSLEQAKERKPSAAVGDRIEEIIPSIEFGRIEAQTARQVIMQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER+    +F+ K+G++I GTVK+V   NVI+DLG  ++  + R E +  E  RP DRV++
Sbjct: 124 ERELIIDQFRSKLGQLIYGTVKKVTRDNVIIDLGGKAEAFLPRSEMLPHEMFRPNDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+Y++  + RGPQ+ +SRT  + +++LF +EVPEI   I+ +KA +RDPG+RAK+AV ++
Sbjct: 184 YLYEITPQARGPQLFVSRTRNEMLIELFRIEVPEIGENIIDIKAAARDPGNRAKIAVKTN 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+GACVGMRG+RVQAV +EL  E++DI++W  + A  VINA+ PA +T +V+DED
Sbjct: 244 DGRIDPIGACVGMRGARVQAVSSELGGERVDIILWDDNPAQLVINAMAPADITSIVVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V KEQLS AIGR GQNVRLASQLTGWT++++T EE     Q++ ++    F  
Sbjct: 304 THTMDLAVAKEQLSQAIGRNGQNVRLASQLTGWTLNVMTTEEFESKNQEESSKIVNLFTN 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
           A+ +DE IA LLVA GF+ +EE+A V   E+ +IE FDEE   E++ RA + L  + ++ 
Sbjct: 364 ALEIDEEIATLLVAHGFSSLEEVAYVPKEELLAIEEFDEEIVEELRNRANDKLLEMALSS 423

Query: 425 QKKIRELGVSEE-LCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGN 480
            K +   G  ++ L ++ G+   +   L   GI TMEDLA  SVD+L+   G SE K G 
Sbjct: 424 GKGLS--GTPDDSLINMEGMTEDLANKLASKGITTMEDLAEQSVDELMEIEGISEEKAGA 481

Query: 481 I 481
           +
Sbjct: 482 L 482


>gi|91228266|ref|ZP_01262202.1| transcription elongation factor NusA [Vibrio alginolyticus 12G01]
 gi|254229307|ref|ZP_04922724.1| transcription termination factor NusA domain protein [Vibrio sp.
           Ex25]
 gi|262393381|ref|YP_003285235.1| transcription termination protein NusA [Vibrio sp. Ex25]
 gi|269966859|ref|ZP_06180932.1| N utilization substance protein A [Vibrio alginolyticus 40B]
 gi|91188143|gb|EAS74445.1| transcription elongation factor NusA [Vibrio alginolyticus 12G01]
 gi|151938115|gb|EDN56956.1| transcription termination factor NusA domain protein [Vibrio sp.
           Ex25]
 gi|262336975|gb|ACY50770.1| transcription termination protein NusA [Vibrio sp. Ex25]
 gi|269828526|gb|EEZ82787.1| N utilization substance protein A [Vibrio alginolyticus 40B]
          Length = 495

 Score =  387 bits (994), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 204/482 (42%), Positives = 317/482 (65%), Gaps = 12/482 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG+   +R   
Sbjct: 4   EILAVAEAVSNEKAVPRERIFEALEIALATSTKKKYEIEIDVRVAIDRKTGEFVTYRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV++VEN T +ISL+ A+  D SI++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVDDVENPTKEISLEAAQYEDDSIELGDYVEDEIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  G++I+G VK+V    +++DLGN ++ VI RD+ + REN RPGDRV+  +
Sbjct: 124 AQIVEQFIDNEGDLITGVVKKVNRDTIVLDLGNNAEAVILRDDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   I+++K  +RDPGSRAK+AV ++D 
Sbjct: 184 YKVAPEARGFQLFITRSKPEMLAELFRVEVPEIAEDIIELKGAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDEDAH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF----F 362
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T      + QK   E +Q     F
Sbjct: 304 SMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMT----VADLQKKHAEESQASIENF 359

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+ ++++E  A LLV EGF+ +EE+A V ++E+  I+G +EE   E++GRA++ L  I +
Sbjct: 360 MKYLDIEEDFAQLLVEEGFSTLEEIAYVPVNELLEIDGLNEELIEELRGRAKDALTTIAL 419

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL---LGWSENKGG 479
             ++    L  +E+L ++ G++ ++   L   G+ T+EDLA   +DDL    G +E + G
Sbjct: 420 AQEESFEGLEPAEDLLALEGLEREMAFKLAAKGVATLEDLADQGIDDLEGIEGLTEERAG 479

Query: 480 NI 481
            +
Sbjct: 480 EL 481


>gi|170717519|ref|YP_001784611.1| transcription elongation factor NusA [Haemophilus somnus 2336]
 gi|168825648|gb|ACA31019.1| NusA antitermination factor [Haemophilus somnus 2336]
          Length = 493

 Score =  387 bits (994), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 201/465 (43%), Positives = 309/465 (66%), Gaps = 2/465 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + R+ +   +  +I  + +  Y    D+RV IN +TG+ S FR   
Sbjct: 4   EILLAAEAVSNEKLLPREKIFEALESAIALSTKKKYEQEIDVRVVINTKTGEFSTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE V N T +I+L+ A+  DP I +G  + D +  + F R+A+Q+A+QVI  K+REAER
Sbjct: 64  VVETVLNPTKEITLEAAQFEDPEIKLGDYIEDEIDSIAFDRIAMQTARQVISTKIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
           ++   +F+ + GEI+SGTVK+V   ++I+DL   ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 NKIVEQFRSQEGEIVSGTVKKVNRDSIILDLSQQAEAVILREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E +G Q+ ++R  P+ +V+LF +EVPEI   ++++K  SRDPG RAK+AV S+D 
Sbjct: 184 YKVSPENKGIQLFVTRAKPEMLVELFRIEVPEIGEELIEIKGASRDPGLRAKIAVKSNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRGSRVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +V+DED  
Sbjct: 244 RIDPVGACVGMRGSRVQAITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIVVDEDNH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  E L+ AIGR GQNVRLA+QLTGW ++++T ++ +   Q + N+    FM A+
Sbjct: 304 SMDIAVEPENLAQAIGRNGQNVRLATQLTGWVLNVMTIDDLNAKHQAEDNKILALFMTAL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV-EIQGRAREYLEGIDITLQ 425
            +DE  AH+LV EGF ++EE+A V ++E+ +I+G ++E  V E+Q RA+  +    +  +
Sbjct: 364 EIDEEFAHILVDEGFTNLEEIAYVAVNELTAIDGLEDEDLVEELQARAKNAITARMLAEE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           + +++  V E+L ++ G+   I   L E  I T+E+LA   VDDL
Sbjct: 424 EALKQAQVEEKLLNLEGMSRHIAFRLSEKQITTLEELAEQGVDDL 468


>gi|295097658|emb|CBK86748.1| transcription termination factor NusA/transcription termination
           factor NusA, C-terminal duplication [Enterobacter
           cloacae subsp. cloacae NCTC 9394]
          Length = 500

 Score =  387 bits (994), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 203/483 (42%), Positives = 313/483 (64%), Gaps = 9/483 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEEVTQPTKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPGDR 181
                +F+D+ GEII+G VK+V   N+ +++      GN++ VI R++ + REN RPGDR
Sbjct: 124 ALVVDQFRDQEGEIITGVVKKVNRDNISLEIKSEGLPGNAEAVILREDMLPRENFRPGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++  +Y VR E RG Q+ ++R+ P+ +V+LF +EVPEI   ++++KA +RDPGSRAK+AV
Sbjct: 184 IRGVLYAVRPEARGAQLFVTRSKPEMLVELFRIEVPEIGEEVIEIKAAARDPGSRAKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+
Sbjct: 244 KTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVV 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     
Sbjct: 304 DEDKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDT 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  + 
Sbjct: 364 FTKYLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALTTLA 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKG 478
           +  ++ + +   +++L ++ G+D  I   L   G+ T+EDLA   VDDL    G ++ K 
Sbjct: 424 LAQEESLGDKKPADDLLNLEGLDRAIAFKLAARGVCTLEDLAEQGVDDLADIEGLTDEKA 483

Query: 479 GNI 481
           G +
Sbjct: 484 GEL 486


>gi|296104883|ref|YP_003615029.1| transcription elongation factor NusA [Enterobacter cloacae subsp.
           cloacae ATCC 13047]
 gi|295059342|gb|ADF64080.1| transcription elongation factor NusA [Enterobacter cloacae subsp.
           cloacae ATCC 13047]
          Length = 500

 Score =  387 bits (994), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 203/483 (42%), Positives = 313/483 (64%), Gaps = 9/483 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEEVTQPTKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPGDR 181
                +F+D+ GEII+G VK+V   N+ +++      GN++ VI R++ + REN RPGDR
Sbjct: 124 ALVVDQFRDQEGEIITGVVKKVNRDNISLEIKSEGMPGNAEAVILREDMLPRENFRPGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++  +Y VR E RG Q+ ++R+ P+ +V+LF +EVPEI   ++++KA +RDPGSRAK+AV
Sbjct: 184 IRGVLYAVRPEARGAQLFVTRSKPEMLVELFRIEVPEIGEEVIEIKAAARDPGSRAKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+
Sbjct: 244 KTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVV 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     
Sbjct: 304 DEDKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDT 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  + 
Sbjct: 364 FTKYLDIDEEFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALTTLA 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKG 478
           +  ++ + +   +++L ++ G+D  I   L   G+ T+EDLA   VDDL    G ++ K 
Sbjct: 424 LAQEESLGDKKPADDLLNLEGLDRAIAFKLAARGVCTLEDLAEQGVDDLADIEGLTDEKA 483

Query: 479 GNI 481
           G +
Sbjct: 484 GEL 486


>gi|261342615|ref|ZP_05970473.1| L factor [Enterobacter cancerogenus ATCC 35316]
 gi|288315263|gb|EFC54201.1| L factor [Enterobacter cancerogenus ATCC 35316]
          Length = 500

 Score =  387 bits (993), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 203/483 (42%), Positives = 313/483 (64%), Gaps = 9/483 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEEVTQPTKEITLEAARYEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPGDR 181
                +F+D+ GEII+G VK+V   N+ +++      GN++ VI R++ + REN RPGDR
Sbjct: 124 ALVVDQFRDQEGEIITGVVKKVNRDNISLEIKSEGMPGNAEAVILREDMLPRENFRPGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++  +Y VR E RG Q+ ++R+ P+ +V+LF +EVPEI   ++++KA +RDPGSRAK+AV
Sbjct: 184 IRGVLYAVRPEARGAQLFVTRSKPEMLVELFRIEVPEIGEEVIEIKAAARDPGSRAKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+
Sbjct: 244 KTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVV 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     
Sbjct: 304 DEDKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDT 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  + 
Sbjct: 364 FTKYLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIDGLDEATVEALRERAKNALTTLA 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKG 478
           +  ++ + +   +++L ++ G+D  I   L   G+ T+EDLA   VDDL    G ++ K 
Sbjct: 424 LAQEESLGDNKPADDLLNLEGLDRAIAFKLAARGVCTLEDLAEQGVDDLADIEGLTDEKA 483

Query: 479 GNI 481
           G +
Sbjct: 484 GEL 486


>gi|293393154|ref|ZP_06637469.1| N utilization substance A [Serratia odorifera DSM 4582]
 gi|291424300|gb|EFE97514.1| N utilization substance A [Serratia odorifera DSM 4582]
          Length = 495

 Score =  387 bits (993), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 201/478 (42%), Positives = 310/478 (64%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIDVRVSIDRKTGDFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            V+EV   T +I+L+ A+  DPSI++GG V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  AVDEVTQPTREITLEAAQYEDPSIELGGYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
                 F+   GEI++G VK+V   ++ +DLG N++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDAFRQHEGEIVTGVVKKVNRDSIALDLGGNAEAVIGREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ +SR+ P+ + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YAVRPEARGAQLFVSRSSPEMLKELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDRH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDIAVEASNLAQAIGRNGQNVRLASQLSGWELNVMTADDLQAKHQAEAHAAIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V I E+  I+G DE+    ++ RA+  L  + +  ++
Sbjct: 364 DIDEEFATVLVEEGFSTLEELAYVPIKELLEIDGLDEDMVEALRDRAKAALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +++L ++PG++  +   L   G+ T+EDLA   VDDL    G S+ + G +
Sbjct: 424 SLGDQKPADDLLNLPGLERSMAFKLAARGVCTLEDLAEQGVDDLADIEGLSDQQAGEL 481


>gi|304396347|ref|ZP_07378228.1| transcription termination factor NusA [Pantoea sp. aB]
 gi|304355856|gb|EFM20222.1| transcription termination factor NusA [Pantoea sp. aB]
          Length = 495

 Score =  387 bits (993), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 200/478 (41%), Positives = 311/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    ++RV I+  +GD   FR  E
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIEVRVSIDRRSGDFDTFRRWE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEV   T +I+L  AR  D + ++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEEVTQPTREITLDAARFEDEAFNLGEYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
                +F+++ GEII+G VK+V   N+ +DLG N++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDQFREQEGEIITGVVKKVNRDNISLDLGSNAEAVILREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDNH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDMFTKHL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V I+E+  ++G DEET   ++ RA+  L  + +  ++
Sbjct: 364 DIDEEFATVLVEEGFSSLEELAYVPINELLEVDGLDEETIEALRERAKNALTTLALAKEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            +     +E+L ++ G+D  +   L   G+ T+EDLA   VDDL    G S+ + G +
Sbjct: 424 SLGNQEPAEDLLNLEGLDRALAFRLASKGVCTLEDLAEQGVDDLTDIEGLSDEQAGAL 481


>gi|82778483|ref|YP_404832.1| transcription elongation factor NusA [Shigella dysenteriae Sd197]
 gi|309785496|ref|ZP_07680127.1| transcription elongation protein nusA [Shigella dysenteriae 1617]
 gi|81242631|gb|ABB63341.1| transcription pausing [Shigella dysenteriae Sd197]
 gi|308926616|gb|EFP72092.1| transcription elongation protein nusA [Shigella dysenteriae 1617]
          Length = 495

 Score =  387 bits (993), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 203/478 (42%), Positives = 311/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVDEVTQPTKEITLEAARYEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L  I    ++
Sbjct: 364 DIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALATIAQAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +++L ++ GID  +   L   G+ T+EDLA   +DDL    G ++ K G +
Sbjct: 424 SLGDNKPADDLLNLEGIDRDLTFKLAARGVCTLEDLAEQGIDDLADIEGLTDEKAGAL 481


>gi|308189112|ref|YP_003933243.1| Transcription elongation protein nusA [Pantoea vagans C9-1]
 gi|308059622|gb|ADO11794.1| Transcription elongation protein nusA [Pantoea vagans C9-1]
          Length = 495

 Score =  387 bits (993), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 200/478 (41%), Positives = 311/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    ++RV I+  +GD   FR  E
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIEVRVSIDRRSGDFDTFRRWE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEV   T +I+L  AR  D + ++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEEVTQPTREITLDAARFEDEAFNLGEYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
                +F+++ GEII+G VK+V   N+ +DLG N++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDQFREQEGEIITGVVKKVNRDNISLDLGSNAEAVILREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDNH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDMFTKHL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V I+E+  ++G DEET   ++ RA+  L  + +  ++
Sbjct: 364 DIDEEFATVLVEEGFSSLEELAYVPINELLEVDGLDEETIEALRERAKNALTTLALAKEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            +     +E+L ++ G+D  +   L   G+ T+EDLA   VDDL    G S+ + G +
Sbjct: 424 SLGNQEPAEDLLNLEGLDRALAFRLASKGVCTLEDLAEQGVDDLTDIEGMSDEQAGAL 481


>gi|242240750|ref|YP_002988931.1| transcription elongation factor NusA [Dickeya dadantii Ech703]
 gi|242132807|gb|ACS87109.1| NusA antitermination factor [Dickeya dadantii Ech703]
          Length = 496

 Score =  387 bits (993), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 202/478 (42%), Positives = 311/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR   
Sbjct: 4   EILAVVEAVSNEKAVPREKIFEALETALATATKKKYEQDIDVRVCIDRKTGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV EV   T +I+L+ A+  +P +D+GG + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVNEVTQPTREITLEAAQFEEPEVDLGGYIEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
                +F+++ GEI++G VK+V   N+ +DLG N++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDQFREQEGEIVTGVVKKVNRDNITLDLGSNAEAVIGREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YAVRPEARGAQLFVSRSRPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T E+     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTIEDLQAKHQAEAHAAIDVFTRYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A  LV EGF+ +EELA V I+E+  I+G DEET   ++ RA+  L  + +  ++
Sbjct: 364 DIDEEFATALVEEGFSSLEELAYVPITELQEIDGLDEETIEALRERAKAALTTLALAREE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
                  +E+L ++ G+  ++   L   G+ T+EDLA   VDDL    G +E + G +
Sbjct: 424 NRGAGQPAEDLLNLAGLPREMAFTLAARGVCTLEDLAEQGVDDLTDIDGLNEERAGEL 481


>gi|52842972|ref|YP_096771.1| transcription elongation factor NusA [Legionella pneumophila subsp.
           pneumophila str. Philadelphia 1]
 gi|52630083|gb|AAU28824.1| N utilization substance protein A [Legionella pneumophila subsp.
           pneumophila str. Philadelphia 1]
          Length = 492

 Score =  387 bits (993), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 210/481 (43%), Positives = 324/481 (67%), Gaps = 9/481 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL +A+A++ E+ + +DV++  +  +++ A R + G    +R++I+ +TGD   FR  +
Sbjct: 4   ELLLVAEALSNERGVSKDVIILAIQAALESATRKILGLDIGVRIKIDSKTGDYETFRYWD 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV  EE+E    Q+SL+ A++R PS  +G  + + +P ++FGR+  Q+A+QVI+QKVREA
Sbjct: 64  VVNEEELEFPDRQLSLEQAKERKPSAAVGDRIEEIIPSIEFGRIEAQTARQVIMQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER+    +F+ K+G++I GTVK+V   N+I+DLG  ++  + R E +  E  RP DRV++
Sbjct: 124 ERELIIDQFRSKLGQLIYGTVKKVTRDNIIIDLGGKAEAFLPRSEMLPHEMFRPNDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+Y++  + RGPQ+ +SRT  + +++LF +EVPEI   I+ +KA +RDPG+RAK+AV ++
Sbjct: 184 YLYEITPQARGPQLFVSRTRNEMLIELFRIEVPEIGENIIDIKAAARDPGNRAKIAVKTN 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+GACVGMRG+RVQAV +EL  E++DI++W  + A  VINA+ PA +T +V+DED
Sbjct: 244 DGRIDPIGACVGMRGARVQAVSSELGGERVDIILWDDNPAQLVINAMAPADITSIVVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V KEQLS AIGR GQNVRLASQLTGWT++++T EE     Q++ ++    F  
Sbjct: 304 THTMDLAVAKEQLSQAIGRNGQNVRLASQLTGWTLNVMTTEEFESKNQEESSKIVNLFTS 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
           A+ +DE IA LLVA GF+ +EE+A V   E+ +IE FDEE   E++ RA + L  + ++ 
Sbjct: 364 ALEIDEEIATLLVAHGFSSLEEVAYVPKEELLAIEEFDEEIVEELRNRANDKLLEMALSS 423

Query: 425 QKKIRELGVSEE-LCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGN 480
            K +   G  ++ L ++ G+   +   L   GI TMEDLA  SVD+L+   G SE K G 
Sbjct: 424 GKGLS--GTPDDSLINMEGMTEDLANKLASKGITTMEDLAEQSVDELMEIEGISEEKAGA 481

Query: 481 I 481
           +
Sbjct: 482 L 482


>gi|170680571|ref|YP_001745443.1| transcription elongation factor NusA [Escherichia coli SMS-3-5]
 gi|191168053|ref|ZP_03029853.1| transcription termination/antitermination factor NusA [Escherichia
           coli B7A]
 gi|193067419|ref|ZP_03048387.1| transcription termination/antitermination factor NusA [Escherichia
           coli E110019]
 gi|209920646|ref|YP_002294730.1| transcription elongation factor NusA [Escherichia coli SE11]
 gi|218701940|ref|YP_002409569.1| transcription elongation factor NusA [Escherichia coli IAI39]
 gi|218706791|ref|YP_002414310.1| transcription elongation factor NusA [Escherichia coli UMN026]
 gi|260857298|ref|YP_003231189.1| transcription termination/antitermination L factor NusA
           [Escherichia coli O26:H11 str. 11368]
 gi|260869921|ref|YP_003236323.1| transcription termination/antitermination L factor NusA
           [Escherichia coli O111:H- str. 11128]
 gi|293406780|ref|ZP_06650706.1| nusA [Escherichia coli FVEC1412]
 gi|293412544|ref|ZP_06655267.1| nusA [Escherichia coli B354]
 gi|298382521|ref|ZP_06992118.1| N utilization substance protein A [Escherichia coli FVEC1302]
 gi|300897933|ref|ZP_07116312.1| transcription termination factor NusA [Escherichia coli MS 198-1]
 gi|300938079|ref|ZP_07152857.1| transcription termination factor NusA [Escherichia coli MS 21-1]
 gi|301022024|ref|ZP_07185967.1| transcription termination factor NusA [Escherichia coli MS 69-1]
 gi|309793747|ref|ZP_07688173.1| transcription termination factor NusA [Escherichia coli MS 145-7]
 gi|331664783|ref|ZP_08365688.1| L factor [Escherichia coli TA143]
 gi|170518289|gb|ACB16467.1| transcription termination/antitermination factor NusA [Escherichia
           coli SMS-3-5]
 gi|190901922|gb|EDV61671.1| transcription termination/antitermination factor NusA [Escherichia
           coli B7A]
 gi|192959376|gb|EDV89811.1| transcription termination/antitermination factor NusA [Escherichia
           coli E110019]
 gi|209913905|dbj|BAG78979.1| N utilization substance protein A [Escherichia coli SE11]
 gi|218371926|emb|CAR19782.1| transcription termination/antitermination L factor [Escherichia
           coli IAI39]
 gi|218433888|emb|CAR14805.1| transcription termination/antitermination L factor [Escherichia
           coli UMN026]
 gi|257755947|dbj|BAI27449.1| transcription termination/antitermination L factor NusA
           [Escherichia coli O26:H11 str. 11368]
 gi|257766277|dbj|BAI37772.1| transcription termination/antitermination L factor NusA
           [Escherichia coli O111:H- str. 11128]
 gi|284923193|emb|CBG36287.1| transcription elongation protein [Escherichia coli 042]
 gi|291426786|gb|EFE99818.1| nusA [Escherichia coli FVEC1412]
 gi|291469315|gb|EFF11806.1| nusA [Escherichia coli B354]
 gi|298277661|gb|EFI19177.1| N utilization substance protein A [Escherichia coli FVEC1302]
 gi|300358363|gb|EFJ74233.1| transcription termination factor NusA [Escherichia coli MS 198-1]
 gi|300397739|gb|EFJ81277.1| transcription termination factor NusA [Escherichia coli MS 69-1]
 gi|300456939|gb|EFK20432.1| transcription termination factor NusA [Escherichia coli MS 21-1]
 gi|308122704|gb|EFO59966.1| transcription termination factor NusA [Escherichia coli MS 145-7]
 gi|323154383|gb|EFZ40584.1| transcription elongation protein nusA [Escherichia coli EPECa14]
 gi|323178882|gb|EFZ64458.1| transcription elongation protein nusA [Escherichia coli 1180]
 gi|323183124|gb|EFZ68522.1| transcription elongation protein nusA [Escherichia coli 1357]
 gi|324008768|gb|EGB77987.1| transcription termination factor NusA [Escherichia coli MS 57-2]
 gi|324018307|gb|EGB87526.1| transcription termination factor NusA [Escherichia coli MS 117-3]
 gi|331058031|gb|EGI30013.1| L factor [Escherichia coli TA143]
          Length = 495

 Score =  386 bits (992), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 203/478 (42%), Positives = 311/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVDEVTQPTKEITLEAARYEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L  I    ++
Sbjct: 364 DIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALATIAQAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +++L ++ GID  +   L   G+ T+EDLA   +DDL    G ++ K G +
Sbjct: 424 SLGDNKPADDLLNLEGIDRDLAFKLAARGVCTLEDLAEQGIDDLADIEGLTDEKAGAL 481


>gi|256821530|ref|YP_003145493.1| NusA antitermination factor [Kangiella koreensis DSM 16069]
 gi|256795069|gb|ACV25725.1| NusA antitermination factor [Kangiella koreensis DSM 16069]
          Length = 497

 Score =  386 bits (992), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 200/463 (43%), Positives = 308/463 (66%), Gaps = 3/463 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK +  +V+   +  ++  A +  +G   D+RV+I+  TGD   +RL  
Sbjct: 5   EILLVVEAVSNEKDVQPEVIFGAIEAALATATKKKHGVDIDVRVDIDRHTGDYDTYRLWT 64

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV +  VE+   + +L  A+  DP I IG  V + +  ++FGR+A Q+AKQVI+QKVREA
Sbjct: 65  VVADDAVEDPLTETTLSAAQVEDPEIQIGDYVEEQIESIEFGRIAAQTAKQVIVQKVREA 124

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER +    F+D+VG++++G VK+V    + +DLG N++ VI+R+E + RE +R GDRV+ 
Sbjct: 125 ERAKTVEAFRDRVGDLVTGVVKKVTRDYIFIDLGSNAEAVIQREEMMPRETVRTGDRVRG 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y +  E RGPQ+ +SRT P+ + +LF +EVPEI   ++++K  +RDPGSRAK+AV ++
Sbjct: 185 LLYAISTENRGPQLFVSRTRPEMLEELFRIEVPEIGEEVIEIKGAARDPGSRAKVAVKTN 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV++  + A +VINA+ PA V  +V+DED
Sbjct: 245 DKRIDPVGACVGMRGARVQAVTGELNGERIDIVLYDDNPAQYVINAMAPAEVVSIVVDED 304

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V ++QL+ AIGR GQN+RLAS+LTGW ++++TEE+ +   Q +       F+ 
Sbjct: 305 RRSMDIAVNEDQLAQAIGRNGQNIRLASELTGWELNVMTEEDFATKNQSETESIVSMFVA 364

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + VDE +A +LV EGF  +EE+A V  SE+  IEGFDE+    ++ RA++ L    I  
Sbjct: 365 DLGVDEDLADILVQEGFTTLEEVAYVPQSEMLEIEGFDEDLVDALKSRAKDVLLTKAIAN 424

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSV 467
           ++++ E+  +E+L ++ G+D  +   L   GI TMEDLA  SV
Sbjct: 425 EEQLEEVEPAEDLLTMDGMDRHLAFVLASKGIVTMEDLAEQSV 467


>gi|254521780|ref|ZP_05133835.1| N utilization substance protein A [Stenotrophomonas sp. SKA14]
 gi|219719371|gb|EED37896.1| N utilization substance protein A [Stenotrophomonas sp. SKA14]
          Length = 503

 Score =  386 bits (992), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 203/472 (43%), Positives = 316/472 (66%), Gaps = 5/472 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI-RVEINPETGDISLFRLL 66
           ELL + DAVA EK + R+V+   +  ++  AA+  Y     + RV I+ + G    +R  
Sbjct: 4   ELLLVVDAVANEKGVPREVIFDAIEAALASAAKKRYPDEEVLTRVVIDHKDGSYETYRRW 63

Query: 67  EVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           EVV +   +E+   QI L  A D    +D+G  + + +   DFGR+A Q+AKQVI+Q+VR
Sbjct: 64  EVVADDVVMESPDRQIRLMDAVDEAEGVDVGDYIEEQIENPDFGRIAAQAAKQVIVQRVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER +    +KD+VGE+I+G VKR E GN+ VDLG N++G I +D+ I R+ LR GDRV
Sbjct: 124 EAERQQVVDAWKDRVGELITGVVKRAERGNIYVDLGGNAEGFIPKDKGIPRDVLRAGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           + Y+ +VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++KA +RDPG RAK+AV 
Sbjct: 184 RGYLAEVRSEPRGPQLFISRAAPEFMIELFKLEVPEVGQGLVEIKACARDPGDRAKIAVL 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           + D   DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  +++D
Sbjct: 244 AHDQRTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNDNPANFVINAMAPAEVQSIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T+++ +   + +     Q F
Sbjct: 304 EDKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTQDQVTAKSEAEQASARQLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M  + VDE IA +LV+EGF  VEE+A V + E+ ++EGFDE+   E++ RAR+ L    +
Sbjct: 364 MDKLEVDEEIAGILVSEGFGTVEEIAYVPVGELLAVEGFDEDIVEELRARARDALLNEAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWS 474
            +++ + +   +++L S+ G+D     AL  +G++T EDL+  + D+++ + 
Sbjct: 424 AVEEGLEDGQPAQDLLSLKGMDEATAYALAGHGVRTSEDLSDLAADEVMDFG 475


>gi|218550454|ref|YP_002384245.1| transcription elongation factor NusA [Escherichia fergusonii ATCC
           35469]
 gi|218357995|emb|CAQ90641.1| transcription termination/antitermination L factor [Escherichia
           fergusonii ATCC 35469]
 gi|323966351|gb|EGB61785.1| transcription termination protein NusA [Escherichia coli M863]
 gi|324115225|gb|EGC09189.1| transcription termination protein NusA [Escherichia fergusonii
           B253]
 gi|325498752|gb|EGC96611.1| transcription elongation factor NusA [Escherichia fergusonii
           ECD227]
 gi|327255185|gb|EGE66785.1| transcription elongation protein nusA [Escherichia coli STEC_7v]
          Length = 495

 Score =  386 bits (992), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 203/478 (42%), Positives = 311/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVDEVTQPTKEITLEAARFEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L  I    ++
Sbjct: 364 DIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALATIAQAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +++L ++ GID  +   L   G+ T+EDLA   +DDL    G ++ K G +
Sbjct: 424 SLGDNKPADDLLNLEGIDRDLAFKLAARGVCTLEDLAEQGIDDLADIEGLTDEKAGAL 481


>gi|294634514|ref|ZP_06713049.1| L factor [Edwardsiella tarda ATCC 23685]
 gi|291092028|gb|EFE24589.1| L factor [Edwardsiella tarda ATCC 23685]
          Length = 495

 Score =  386 bits (992), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 198/478 (41%), Positives = 310/478 (64%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALETALATATKKKYEQEIDVRVAIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEV   T +I+L+ AR  DP+ D+G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEEVTQPTREITLEAARFEDPAFDLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                 F++  GEI++G VK+V   ++ +DLGN ++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDAFREHEGEIVTGVVKKVNRDSISLDLGNNAEAVIGREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++K  +RDPGSRAK+AV ++D 
Sbjct: 184 YAVRPEARGAQLFVTRSRPEMLIELFRIEVPEIGEEVIEIKGAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T E+     Q + +     F + +
Sbjct: 304 TMDIAVEASNLAQAIGRNGQNVRLASQLSGWELNVMTAEDLQAKHQAEAHAAIDTFTKHL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A LLV EGF+ +EELA V   E+ +I+G DEE+   ++ RA+  L  + +  ++
Sbjct: 364 DIDEEFATLLVEEGFSTLEELAYVPERELLAIDGLDEESVEALRTRAKNALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +++L ++PG++  +   L   G+ T+EDLA   VDDL    G + +  G +
Sbjct: 424 SLGDNKPADDLLNLPGMERSVAFKLAARGVCTLEDLAEQGVDDLTDIEGLNHDSAGEL 481


>gi|296135767|ref|YP_003643009.1| transcription termination factor NusA [Thiomonas intermedia K12]
 gi|294339930|emb|CAZ88293.1| transcription pausing; L factor [Thiomonas sp. 3As]
 gi|295795889|gb|ADG30679.1| transcription termination factor NusA [Thiomonas intermedia K12]
          Length = 492

 Score =  386 bits (992), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 201/468 (42%), Positives = 313/468 (66%), Gaps = 5/468 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++DRDVV   +  ++  A + LY   +D+RV+I+  TG+   FR   
Sbjct: 4   EILMLVDALAREKNVDRDVVFGAVEAALASATKRLYEGEADVRVQIDRNTGEYESFRRWH 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P I++G  + +P+  + FGR+  Q+AKQVI+QK+R+
Sbjct: 64  VVPDEAGLQLPDSEILLFEAREQIPDIEVGDYIEEPIESIAFGRIGAQAAKQVILQKIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F  +  +I +G+VKR++ G++I++ G  D  +RR + I +ENLR GDRV++
Sbjct: 124 AEREQILNDFLARNDKIFNGSVKRLDKGDLIIESGKVDARLRRSDLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            I  + R  RGPQ+ +SRT P+FM++LF +EVPEI  G++++K+ +R+PG RAK+AV S 
Sbjct: 184 VITKIDRTARGPQIEISRTAPEFMIELFRLEVPEIEQGLMEIKSCAREPGVRAKIAVVSH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  +DP+G CVG+RGSRV AV  EL  E++DIV+WS D A FVI AL PA V+ +V+DE+
Sbjct: 244 DRRVDPIGTCVGIRGSRVTAVTNELGGERVDIVLWSEDPAQFVIGALAPANVSSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V V +E L+LAIGR GQNVRLAS+LTGW I+I++ EE      ++  +    F++
Sbjct: 304 KHAMDVAVDEENLALAIGRTGQNVRLASELTGWKINILSAEESDARNTQETQKMRSLFVE 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VD+ +A +L+AEGF  +EELA V I+E+  IE FDE+T  E++ RAR  L   +I  
Sbjct: 364 KLDVDQEVADILIAEGFTSLEELAYVPINEMLEIEAFDEDTVNELRERARNALLTQEIAR 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG 472
           ++K+ E  V   L ++ G+ +     L E G+ T++DL   + D+L G
Sbjct: 424 EQKLDE--VDPALKALDGLSADELALLAEAGVLTLDDLGDLATDELTG 469


>gi|332992817|gb|AEF02872.1| transcription elongation factor NusA [Alteromonas sp. SN2]
          Length = 497

 Score =  386 bits (991), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 201/467 (43%), Positives = 303/467 (64%), Gaps = 4/467 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK + R+ +   +  +I  A +       ++RV I+  +GD   FR   
Sbjct: 4   EILLVAEAVSNEKQVPREKIFEALEFAIASATKKKNEGDIEVRVSIDRTSGDFDTFRRWL 63

Query: 68  VV---EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           ++   +E EN   +I+L  A+  +P + +G  V D +  + F R+  Q+AKQVI+QKVRE
Sbjct: 64  IIPDDQEQENPFAEITLSAAQVEEPELQLGDYVEDQIESIKFDRITTQTAKQVIVQKVRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVK 183
           AER +   E++DKVGE+++GTVK+V   N+I+DLGN ++GVI RD+ + RE  RPGDRV+
Sbjct: 124 AERAQMIAEYEDKVGELVTGTVKKVNRDNIIIDLGNNAEGVIYRDDMLPRETFRPGDRVR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
             +Y +R E RG Q+ +SRTHP  +V+LF +EVPEI    +++KA +RDPGSRAK+AV +
Sbjct: 184 GLLYVIRPEARGAQLFISRTHPDMLVELFRLEVPEIAEETLEIKAAARDPGSRAKIAVKT 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  +DPVGACVGMRGSRVQAV  EL  E++DIV+W  +SA FVINA+ PA V  +V+DE
Sbjct: 244 NDKRLDPVGACVGMRGSRVQAVSGELGGERVDIVLWDENSAQFVINAMAPAEVASIVVDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   ++V V  + L+ AIGR GQNVRLASQLTGW ++++T E+ +   +++  +    F 
Sbjct: 304 DSHMMDVAVEADNLAQAIGRSGQNVRLASQLTGWELNVMTVEDLNKKHEEENAKVLNIFT 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
             ++VDE  A +LV EGF  +EE+A V  SE+ +I+G DE+T  E++ RAR +L    + 
Sbjct: 364 AGLDVDEEFAAMLVDEGFTTLEEVAYVPASELLAIDGLDEDTVEELRNRARAFLTTRALA 423

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
            ++ +     +E L  + G+   +   L   GI  +E+LA    D++
Sbjct: 424 NEESLEGAEPTEALLGLEGMSKHVAYVLASRGITDLEELAEQGTDEI 470


>gi|296108417|ref|YP_003620118.1| N utilization substance protein A [Legionella pneumophila 2300/99
           Alcoy]
 gi|295650319|gb|ADG26166.1| N utilization substance protein A [Legionella pneumophila 2300/99
           Alcoy]
          Length = 492

 Score =  386 bits (991), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 210/481 (43%), Positives = 324/481 (67%), Gaps = 9/481 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL +A+A++ E+ + +DV++  +  +++ A R + G    +R++I+ +TGD   FR  +
Sbjct: 4   ELLLVAEALSNERGVSKDVIILAIQAALESATRKILGLDIGVRIKIDSKTGDYETFRYWD 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV  EE+E    Q+SL+ A++R PS  +G  + + +P ++FGR+  Q+A+QVI+QKVREA
Sbjct: 64  VVNEEELEFPDRQLSLEQAKERKPSAAVGDRIEEIIPSIEFGRIEAQTARQVIMQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER+    +F+ K+G++I GTVK+V   N+I+DLG  ++  + R E +  E  RP DRV++
Sbjct: 124 ERELIIDQFRSKLGQLIYGTVKKVTRDNIIIDLGGKAEAFLPRSEMLPHEMFRPNDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+Y++  + RGPQ+ +SRT  + +++LF +EVPEI   I+ +KA +RDPG+RAK+AV ++
Sbjct: 184 YLYEITPQARGPQLFVSRTRNEMLIELFRIEVPEIGENIIDIKAAARDPGNRAKIAVKTN 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+GACVGMRG+RVQAV +EL  E++DI++W  + A  VINA+ PA +T +V+DED
Sbjct: 244 DGRIDPIGACVGMRGARVQAVSSELGGERVDIILWDDNPAQLVINAMAPADITSIVVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V KEQLS AIGR GQNVRLASQLTGWT++++T EE     Q++ ++    F  
Sbjct: 304 THTMDLAVAKEQLSQAIGRNGQNVRLASQLTGWTLNVMTMEEFESKNQEESSKIVNLFTS 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
           A+ +DE IA LLVA GF+ +EE+A V   E+ +IE FDEE   E++ RA + L  + ++ 
Sbjct: 364 ALEIDEEIATLLVAHGFSSLEEVAYVPKEELLAIEEFDEEIVEELRNRANDKLLEMALSS 423

Query: 425 QKKIRELGVSEE-LCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGN 480
            K +   G  ++ L ++ G+   +   L   GI TMEDLA  SVD+L+   G SE K G 
Sbjct: 424 GKGLS--GTPDDSLINMEGMTEDLANKLASKGITTMEDLAEQSVDELMEIEGISEEKAGA 481

Query: 481 I 481
           +
Sbjct: 482 L 482


>gi|15803711|ref|NP_289745.1| transcription elongation factor NusA [Escherichia coli O157:H7
           EDL933]
 gi|15833304|ref|NP_312077.1| transcription elongation factor NusA [Escherichia coli O157:H7 str.
           Sakai]
 gi|16131061|ref|NP_417638.1| transcription termination/antitermination L factor [Escherichia
           coli str. K-12 substr. MG1655]
 gi|24114460|ref|NP_708970.1| transcription elongation factor NusA [Shigella flexneri 2a str.
           301]
 gi|26249753|ref|NP_755793.1| transcription elongation factor NusA [Escherichia coli CFT073]
 gi|30064509|ref|NP_838680.1| transcription elongation factor NusA [Shigella flexneri 2a str.
           2457T]
 gi|74313706|ref|YP_312125.1| transcription elongation factor NusA [Shigella sonnei Ss046]
 gi|89109934|ref|AP_003714.1| transcription termination/antitermination L factor [Escherichia
           coli str. K-12 substr. W3110]
 gi|91212591|ref|YP_542577.1| transcription elongation factor NusA [Escherichia coli UTI89]
 gi|117625465|ref|YP_858788.1| transcription elongation factor NusA [Escherichia coli APEC O1]
 gi|157155683|ref|YP_001464646.1| transcription elongation factor NusA [Escherichia coli E24377A]
 gi|157162654|ref|YP_001459972.1| transcription elongation factor NusA [Escherichia coli HS]
 gi|168762136|ref|ZP_02787143.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4501]
 gi|168786054|ref|ZP_02811061.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC869]
 gi|168797770|ref|ZP_02822777.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC508]
 gi|170018579|ref|YP_001723533.1| transcription elongation factor NusA [Escherichia coli ATCC 8739]
 gi|170082706|ref|YP_001732026.1| transcription termination/antitermination L factor [Escherichia
           coli str. K-12 substr. DH10B]
 gi|188492867|ref|ZP_03000137.1| transcription termination/antitermination factor NusA [Escherichia
           coli 53638]
 gi|191172236|ref|ZP_03033779.1| transcription termination/antitermination factor NusA [Escherichia
           coli F11]
 gi|193062170|ref|ZP_03043266.1| transcription termination/antitermination factor NusA [Escherichia
           coli E22]
 gi|194433789|ref|ZP_03066064.1| transcription termination/antitermination factor NusA [Shigella
           dysenteriae 1012]
 gi|215488487|ref|YP_002330918.1| transcription elongation factor NusA [Escherichia coli O127:H6 str.
           E2348/69]
 gi|217326723|ref|ZP_03442806.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. TW14588]
 gi|218555741|ref|YP_002388654.1| transcription elongation factor NusA [Escherichia coli IAI1]
 gi|218560241|ref|YP_002393154.1| transcription elongation factor NusA [Escherichia coli S88]
 gi|218691461|ref|YP_002399673.1| transcription elongation factor NusA [Escherichia coli ED1a]
 gi|218696876|ref|YP_002404543.1| transcription elongation factor NusA [Escherichia coli 55989]
 gi|227887892|ref|ZP_04005697.1| N utilization substance A [Escherichia coli 83972]
 gi|237706078|ref|ZP_04536559.1| transcription termination/antitermination factor NusA [Escherichia
           sp. 3_2_53FAA]
 gi|238902273|ref|YP_002928069.1| transcription termination/antitermination L factor [Escherichia
           coli BW2952]
 gi|253771995|ref|YP_003034826.1| transcription elongation factor NusA [Escherichia coli
           'BL21-Gold(DE3)pLysS AG']
 gi|254038335|ref|ZP_04872393.1| transcription termination/antitermination factor NusA [Escherichia
           sp. 1_1_43]
 gi|254163113|ref|YP_003046221.1| transcription elongation factor NusA [Escherichia coli B str.
           REL606]
 gi|256018911|ref|ZP_05432776.1| transcription elongation factor NusA [Shigella sp. D9]
 gi|256024255|ref|ZP_05438120.1| transcription elongation factor NusA [Escherichia sp. 4_1_40B]
 gi|260845984|ref|YP_003223762.1| transcription termination/antitermination L factor NusA
           [Escherichia coli O103:H2 str. 12009]
 gi|261228181|ref|ZP_05942462.1| transcription elongation factor NusA [Escherichia coli O157:H7 str.
           FRIK2000]
 gi|261255037|ref|ZP_05947570.1| transcription termination/antitermination L factor NusA
           [Escherichia coli O157:H7 str. FRIK966]
 gi|291284545|ref|YP_003501363.1| Transcription elongation protein nusA [Escherichia coli O55:H7 str.
           CB9615]
 gi|293416602|ref|ZP_06659241.1| transcription elongation protein nusA [Escherichia coli B185]
 gi|293449505|ref|ZP_06663926.1| transcription elongation protein nusA [Escherichia coli B088]
 gi|300817579|ref|ZP_07097795.1| transcription termination factor NusA [Escherichia coli MS 107-1]
 gi|300823868|ref|ZP_07103992.1| transcription termination factor NusA [Escherichia coli MS 119-7]
 gi|300904355|ref|ZP_07122208.1| transcription termination factor NusA [Escherichia coli MS 84-1]
 gi|300918924|ref|ZP_07135483.1| transcription termination factor NusA [Escherichia coli MS 115-1]
 gi|300926092|ref|ZP_07141910.1| transcription termination factor NusA [Escherichia coli MS 182-1]
 gi|300929859|ref|ZP_07145305.1| transcription termination factor NusA [Escherichia coli MS 187-1]
 gi|300948819|ref|ZP_07162887.1| transcription termination factor NusA [Escherichia coli MS 116-1]
 gi|300955755|ref|ZP_07168100.1| transcription termination factor NusA [Escherichia coli MS 175-1]
 gi|300977836|ref|ZP_07174076.1| transcription termination factor NusA [Escherichia coli MS 200-1]
 gi|300990769|ref|ZP_07179341.1| transcription termination factor NusA [Escherichia coli MS 45-1]
 gi|301025986|ref|ZP_07189468.1| transcription termination factor NusA [Escherichia coli MS 196-1]
 gi|301047988|ref|ZP_07195030.1| transcription termination factor NusA [Escherichia coli MS 185-1]
 gi|301301775|ref|ZP_07207909.1| transcription termination factor NusA [Escherichia coli MS 124-1]
 gi|301326408|ref|ZP_07219762.1| transcription termination factor NusA [Escherichia coli MS 78-1]
 gi|301644880|ref|ZP_07244852.1| transcription termination factor NusA [Escherichia coli MS 146-1]
 gi|306816487|ref|ZP_07450619.1| transcription elongation factor NusA [Escherichia coli NC101]
 gi|307139856|ref|ZP_07499212.1| transcription elongation factor NusA [Escherichia coli H736]
 gi|307313124|ref|ZP_07592750.1| transcription termination factor NusA [Escherichia coli W]
 gi|312968492|ref|ZP_07782701.1| transcription elongation protein nusA [Escherichia coli 2362-75]
 gi|331643869|ref|ZP_08345000.1| L factor [Escherichia coli H736]
 gi|331648970|ref|ZP_08350058.1| L factor [Escherichia coli M605]
 gi|331654775|ref|ZP_08355775.1| L factor [Escherichia coli M718]
 gi|331659458|ref|ZP_08360400.1| L factor [Escherichia coli TA206]
 gi|331669998|ref|ZP_08370843.1| L factor [Escherichia coli TA271]
 gi|331674707|ref|ZP_08375466.1| L factor [Escherichia coli TA280]
 gi|331679250|ref|ZP_08379922.1| L factor [Escherichia coli H591]
 gi|331684818|ref|ZP_08385410.1| L factor [Escherichia coli H299]
 gi|332280000|ref|ZP_08392413.1| transcription pausing [Shigella sp. D9]
 gi|84028773|sp|P0AFF8|NUSA_ECO57 RecName: Full=Transcription elongation protein nusA; AltName:
           Full=L factor; AltName: Full=N utilization substance
           protein A
 gi|84028774|sp|P0AFF7|NUSA_ECOL6 RecName: Full=Transcription elongation protein nusA; AltName:
           Full=L factor; AltName: Full=N utilization substance
           protein A
 gi|84028775|sp|P0AFF6|NUSA_ECOLI RecName: Full=Transcription elongation protein nusA; AltName:
           Full=L factor; AltName: Full=N utilization substance
           protein A
 gi|84028776|sp|P0AFF9|NUSA_SHIFL RecName: Full=Transcription elongation protein nusA; AltName:
           Full=L factor; AltName: Full=N utilization substance
           protein A
 gi|12517780|gb|AAG58305.1|AE005545_7 transcription pausing; L factor [Escherichia coli O157:H7 str.
           EDL933]
 gi|26110181|gb|AAN82367.1|AE016767_127 N utilization substance protein A [Escherichia coli CFT073]
 gi|606109|gb|AAA57972.1| L factor [Escherichia coli str. K-12 substr. MG1655]
 gi|1789560|gb|AAC76203.1| transcription termination/antitermination L factor [Escherichia
           coli str. K-12 substr. MG1655]
 gi|13363523|dbj|BAB37473.1| transcription termination-antitermination factor NusA [Escherichia
           coli O157:H7 str. Sakai]
 gi|24053641|gb|AAN44677.1| transcription pausing; L factor [Shigella flexneri 2a str. 301]
 gi|30042768|gb|AAP18491.1| transcription pausing; L factor [Shigella flexneri 2a str. 2457T]
 gi|73857183|gb|AAZ89890.1| transcription pausing; L factor [Shigella sonnei Ss046]
 gi|85675965|dbj|BAE77215.1| transcription termination/antitermination L factor [Escherichia
           coli str. K12 substr. W3110]
 gi|91074165|gb|ABE09046.1| transcription pausing; L factor [Escherichia coli UTI89]
 gi|115514589|gb|ABJ02664.1| transcription elongation factor NusA [Escherichia coli APEC O1]
 gi|157068334|gb|ABV07589.1| transcription termination/antitermination factor NusA [Escherichia
           coli HS]
 gi|157077713|gb|ABV17421.1| transcription termination/antitermination factor NusA [Escherichia
           coli E24377A]
 gi|169753507|gb|ACA76206.1| NusA antitermination factor [Escherichia coli ATCC 8739]
 gi|169890541|gb|ACB04248.1| transcription termination/antitermination L factor [Escherichia
           coli str. K-12 substr. DH10B]
 gi|188488066|gb|EDU63169.1| transcription termination/antitermination factor NusA [Escherichia
           coli 53638]
 gi|189367615|gb|EDU86031.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4501]
 gi|189374081|gb|EDU92497.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC869]
 gi|189379809|gb|EDU98225.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC508]
 gi|190907546|gb|EDV67142.1| transcription termination/antitermination factor NusA [Escherichia
           coli F11]
 gi|192932390|gb|EDV84988.1| transcription termination/antitermination factor NusA [Escherichia
           coli E22]
 gi|194418052|gb|EDX34146.1| transcription termination/antitermination factor NusA [Shigella
           dysenteriae 1012]
 gi|209758328|gb|ACI77476.1| transcription termination-antitermination factor NusA [Escherichia
           coli]
 gi|209758330|gb|ACI77477.1| transcription termination-antitermination factor NusA [Escherichia
           coli]
 gi|209758332|gb|ACI77478.1| transcription termination-antitermination factor NusA [Escherichia
           coli]
 gi|209758334|gb|ACI77479.1| transcription termination-antitermination factor NusA [Escherichia
           coli]
 gi|215266559|emb|CAS10998.1| transcription termination/antitermination L factor [Escherichia
           coli O127:H6 str. E2348/69]
 gi|217319090|gb|EEC27515.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. TW14588]
 gi|218353608|emb|CAU99800.1| transcription termination/antitermination L factor [Escherichia
           coli 55989]
 gi|218362509|emb|CAR00133.1| transcription termination/antitermination L factor [Escherichia
           coli IAI1]
 gi|218367010|emb|CAR04781.1| transcription termination/antitermination L factor [Escherichia
           coli S88]
 gi|218429025|emb|CAR09972.2| transcription termination/antitermination L factor [Escherichia
           coli ED1a]
 gi|222034888|emb|CAP77631.1| Transcription elongation protein nusA [Escherichia coli LF82]
 gi|226839959|gb|EEH71980.1| transcription termination/antitermination factor NusA [Escherichia
           sp. 1_1_43]
 gi|226899118|gb|EEH85377.1| transcription termination/antitermination factor NusA [Escherichia
           sp. 3_2_53FAA]
 gi|227835288|gb|EEJ45754.1| N utilization substance A [Escherichia coli 83972]
 gi|238863681|gb|ACR65679.1| transcription termination/antitermination L factor [Escherichia
           coli BW2952]
 gi|242378714|emb|CAQ33504.1| transcription termination/antitermination L factor [Escherichia
           coli BL21(DE3)]
 gi|253323039|gb|ACT27641.1| NusA antitermination factor [Escherichia coli 'BL21-Gold(DE3)pLysS
           AG']
 gi|253975014|gb|ACT40685.1| transcription elongation factor NusA [Escherichia coli B str.
           REL606]
 gi|253979170|gb|ACT44840.1| transcription elongation factor NusA [Escherichia coli BL21(DE3)]
 gi|257761131|dbj|BAI32628.1| transcription termination/antitermination L factor NusA
           [Escherichia coli O103:H2 str. 12009]
 gi|260447802|gb|ACX38224.1| NusA antitermination factor [Escherichia coli DH1]
 gi|281180213|dbj|BAI56543.1| N utilization substance protein A [Escherichia coli SE15]
 gi|281602553|gb|ADA75537.1| Transcription elongation protein nusA [Shigella flexneri 2002017]
 gi|290764418|gb|ADD58379.1| Transcription elongation protein nusA [Escherichia coli O55:H7 str.
           CB9615]
 gi|291322595|gb|EFE62024.1| transcription elongation protein nusA [Escherichia coli B088]
 gi|291431958|gb|EFF04941.1| transcription elongation protein nusA [Escherichia coli B185]
 gi|294490229|gb|ADE88985.1| transcription termination/antitermination factor NusA [Escherichia
           coli IHE3034]
 gi|299879881|gb|EFI88092.1| transcription termination factor NusA [Escherichia coli MS 196-1]
 gi|300300131|gb|EFJ56516.1| transcription termination factor NusA [Escherichia coli MS 185-1]
 gi|300308213|gb|EFJ62733.1| transcription termination factor NusA [Escherichia coli MS 200-1]
 gi|300317388|gb|EFJ67172.1| transcription termination factor NusA [Escherichia coli MS 175-1]
 gi|300403706|gb|EFJ87244.1| transcription termination factor NusA [Escherichia coli MS 84-1]
 gi|300407077|gb|EFJ90615.1| transcription termination factor NusA [Escherichia coli MS 45-1]
 gi|300413950|gb|EFJ97260.1| transcription termination factor NusA [Escherichia coli MS 115-1]
 gi|300417857|gb|EFK01168.1| transcription termination factor NusA [Escherichia coli MS 182-1]
 gi|300451708|gb|EFK15328.1| transcription termination factor NusA [Escherichia coli MS 116-1]
 gi|300462221|gb|EFK25714.1| transcription termination factor NusA [Escherichia coli MS 187-1]
 gi|300523636|gb|EFK44705.1| transcription termination factor NusA [Escherichia coli MS 119-7]
 gi|300529877|gb|EFK50939.1| transcription termination factor NusA [Escherichia coli MS 107-1]
 gi|300842756|gb|EFK70516.1| transcription termination factor NusA [Escherichia coli MS 124-1]
 gi|300846897|gb|EFK74657.1| transcription termination factor NusA [Escherichia coli MS 78-1]
 gi|301076825|gb|EFK91631.1| transcription termination factor NusA [Escherichia coli MS 146-1]
 gi|305850052|gb|EFM50511.1| transcription elongation factor NusA [Escherichia coli NC101]
 gi|306907035|gb|EFN37543.1| transcription termination factor NusA [Escherichia coli W]
 gi|307555265|gb|ADN48040.1| transcription pausing [Escherichia coli ABU 83972]
 gi|307625230|gb|ADN69534.1| transcription elongation factor NusA [Escherichia coli UM146]
 gi|309703597|emb|CBJ02937.1| transcription elongation protein [Escherichia coli ETEC H10407]
 gi|312286710|gb|EFR14621.1| transcription elongation protein nusA [Escherichia coli 2362-75]
 gi|312947728|gb|ADR28555.1| transcription elongation factor NusA [Escherichia coli O83:H1 str.
           NRG 857C]
 gi|313648589|gb|EFS13031.1| transcription elongation protein nusA [Shigella flexneri 2a str.
           2457T]
 gi|315062477|gb|ADT76804.1| transcription termination/antitermination L factor [Escherichia
           coli W]
 gi|315137757|dbj|BAJ44916.1| transcription elongation protein nusA [Escherichia coli DH1]
 gi|315257095|gb|EFU37063.1| transcription termination factor NusA [Escherichia coli MS 85-1]
 gi|315297879|gb|EFU57149.1| transcription termination factor NusA [Escherichia coli MS 16-3]
 gi|315617252|gb|EFU97861.1| transcription elongation protein nusA [Escherichia coli 3431]
 gi|320181445|gb|EFW56363.1| Transcription termination protein NusA [Shigella boydii ATCC 9905]
 gi|320189523|gb|EFW64182.1| Transcription termination protein NusA [Escherichia coli O157:H7
           str. EC1212]
 gi|320194655|gb|EFW69285.1| Transcription termination protein NusA [Escherichia coli WV_060327]
 gi|320202083|gb|EFW76658.1| Transcription termination protein NusA [Escherichia coli EC4100B]
 gi|320640241|gb|EFX09813.1| transcription elongation factor NusA [Escherichia coli O157:H7 str.
           G5101]
 gi|320645538|gb|EFX14547.1| transcription elongation factor NusA [Escherichia coli O157:H- str.
           493-89]
 gi|320650848|gb|EFX19305.1| transcription elongation factor NusA [Escherichia coli O157:H- str.
           H 2687]
 gi|320656229|gb|EFX24141.1| transcription elongation factor NusA [Escherichia coli O55:H7 str.
           3256-97 TW 07815]
 gi|320661919|gb|EFX29327.1| transcription elongation factor NusA [Escherichia coli O55:H7 str.
           USDA 5905]
 gi|320666754|gb|EFX33733.1| transcription elongation factor NusA [Escherichia coli O157:H7 str.
           LSU-61]
 gi|323162863|gb|EFZ48698.1| transcription elongation protein nusA [Escherichia coli E128010]
 gi|323165127|gb|EFZ50917.1| transcription elongation protein nusA [Shigella sonnei 53G]
 gi|323189208|gb|EFZ74492.1| transcription elongation protein nusA [Escherichia coli RN587/1]
 gi|323376935|gb|ADX49203.1| NusA antitermination factor [Escherichia coli KO11]
 gi|323936135|gb|EGB32429.1| transcription termination protein NusA [Escherichia coli E1520]
 gi|323941729|gb|EGB37908.1| transcription termination protein NusA [Escherichia coli E482]
 gi|323946975|gb|EGB42991.1| transcription termination protein NusA [Escherichia coli H120]
 gi|323951311|gb|EGB47186.1| transcription termination protein NusA [Escherichia coli H252]
 gi|323957682|gb|EGB53396.1| transcription termination protein NusA [Escherichia coli H263]
 gi|323961059|gb|EGB56674.1| transcription termination protein NusA [Escherichia coli H489]
 gi|323970266|gb|EGB65537.1| transcription termination protein NusA [Escherichia coli TA007]
 gi|324012105|gb|EGB81324.1| transcription termination factor NusA [Escherichia coli MS 60-1]
 gi|324119536|gb|EGC13418.1| transcription termination protein NusA [Escherichia coli E1167]
 gi|326337871|gb|EGD61705.1| Transcription termination protein NusA [Escherichia coli O157:H7
           str. 1125]
 gi|326347440|gb|EGD71165.1| Transcription termination protein NusA [Escherichia coli O157:H7
           str. 1044]
 gi|330909225|gb|EGH37739.1| transcription termination protein NusA [Escherichia coli AA86]
 gi|331037340|gb|EGI09564.1| L factor [Escherichia coli H736]
 gi|331042717|gb|EGI14859.1| L factor [Escherichia coli M605]
 gi|331048157|gb|EGI20234.1| L factor [Escherichia coli M718]
 gi|331054040|gb|EGI26069.1| L factor [Escherichia coli TA206]
 gi|331062911|gb|EGI34825.1| L factor [Escherichia coli TA271]
 gi|331068146|gb|EGI39542.1| L factor [Escherichia coli TA280]
 gi|331073315|gb|EGI44638.1| L factor [Escherichia coli H591]
 gi|331078433|gb|EGI49639.1| L factor [Escherichia coli H299]
 gi|332086099|gb|EGI91261.1| transcription elongation protein nusA [Shigella boydii 5216-82]
 gi|332086431|gb|EGI91578.1| transcription elongation protein nusA [Shigella dysenteriae 155-74]
 gi|332102352|gb|EGJ05698.1| transcription pausing [Shigella sp. D9]
 gi|332345126|gb|AEE58460.1| transcription elongation protein NusA [Escherichia coli UMNK88]
 gi|332752329|gb|EGJ82719.1| transcription elongation protein nusA [Shigella flexneri 4343-70]
 gi|332752856|gb|EGJ83241.1| transcription elongation protein nusA [Shigella flexneri K-671]
 gi|332754694|gb|EGJ85060.1| transcription elongation protein nusA [Shigella flexneri 2747-71]
 gi|332765166|gb|EGJ95393.1| transcription termination/antitermination L factor [Shigella
           flexneri 2930-71]
 gi|332998811|gb|EGK18407.1| transcription elongation protein nusA [Shigella flexneri VA-6]
 gi|332999248|gb|EGK18834.1| transcription elongation protein nusA [Shigella flexneri K-272]
 gi|333014625|gb|EGK33972.1| transcription elongation protein nusA [Shigella flexneri K-304]
 gi|333014970|gb|EGK34314.1| transcription elongation protein nusA [Shigella flexneri K-227]
          Length = 495

 Score =  386 bits (991), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 202/478 (42%), Positives = 311/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVDEVTQPTKEITLEAARYEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L  I    ++
Sbjct: 364 DIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALATIAQAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL    G ++ K G +
Sbjct: 424 SLGDNKPADDLLNLEGVDRDLAFKLAARGVCTLEDLAEQGIDDLADIEGLTDEKAGAL 481


>gi|238918423|ref|YP_002931937.1| transcription elongation factor NusA [Edwardsiella ictaluri 93-146]
 gi|238867991|gb|ACR67702.1| transcription elongation factor NusA, putative [Edwardsiella
           ictaluri 93-146]
          Length = 495

 Score =  386 bits (991), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 197/464 (42%), Positives = 305/464 (65%), Gaps = 1/464 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALETALATATKKKYEQEIDVRVAIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEV   T +I+L  AR  DP++D+G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEEVTQPTREITLDAARFEDPALDLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                 F++  GEI++G VK+V   ++ +DLGN ++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDAFREHEGEIVTGVVKKVNRDSISLDLGNNAEAVIGREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++K  +RDPGSRAK+AV ++D 
Sbjct: 184 YAVRPEARGAQLFVTRSRPEMLIELFRIEVPEIGEEVIEIKGAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T E+     Q + +     F + +
Sbjct: 304 TMDIAVEASNLAQAIGRNGQNVRLASQLSGWELNVMTAEDLQAKHQAEAHAAIDTFTKHL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A LLV EGF+ +EELA V   E+ SI+G DE+T   ++ RA+  L  + +  ++
Sbjct: 364 DIDEEFATLLVEEGFSSLEELAYVPERELLSIDGLDEDTVEVLRTRAKNALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
            + +   +++L ++PG++  +   L   G+ T+EDLA   VDDL
Sbjct: 424 SLGDNKPADDLLNLPGMERSVAFKLAARGVCTLEDLAEQGVDDL 467


>gi|91774422|ref|YP_544178.1| transcription elongation factor NusA [Methylobacillus flagellatus
           KT]
 gi|91708409|gb|ABE48337.1| NusA antitermination factor [Methylobacillus flagellatus KT]
          Length = 488

 Score =  386 bits (991), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 202/454 (44%), Positives = 313/454 (68%), Gaps = 6/454 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A+EK++ + V+ + +  ++  A +  +   +D+RVEI+ ++G+   FR  +
Sbjct: 4   EILLLVDALAHEKNVAKTVIFTALELALASATKKRFTEDADVRVEIDRDSGEYRSFRRWQ 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VVE   +EN   QI++  AR       +G  + +PL  ++FGR+  Q+AKQVI+QKVREA
Sbjct: 64  VVEADALENPAAQIAVDDARAE--GFAVGDYIEEPLESVEFGRIGAQAAKQVILQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F  +   +++G +KR+E GN I+++G  + V+ R++ I +ENLR GDRV++Y
Sbjct: 122 EREQILDDFLARKEHLVTGVIKRMEKGNAIIEVGRLESVLPREQMIPKENLRVGDRVRAY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  + R  RGPQ++LSR  P+F++KLF +EVPEI  G++++K+ +RDPG R+K+AV S+D
Sbjct: 182 LSRIERSGRGPQLILSRVAPEFLIKLFELEVPEIEEGLLEIKSAARDPGLRSKIAVKSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVG CVGMRGSRVQAV  EL  E++DIV+WS D A FVINA+ PA V+ +V+DED 
Sbjct: 242 QRLDPVGTCVGMRGSRVQAVTGELAGERVDIVLWSMDPAQFVINAMAPAEVSGIVVDEDA 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++VIV +EQL+ AIGR GQNVRLAS+LTGWT++I+TEEE +   +++ +   Q F++ 
Sbjct: 302 HSMDVIVDEEQLAQAIGRNGQNVRLASELTGWTLNILTEEEAAKKSEEEHSSILQLFVEK 361

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE +A +LV EGF+ +EE+A V ++E++ IE FDE+T  E++ RAR  L    I  +
Sbjct: 362 LDVDEEVADILVQEGFSTLEEIAYVPLAEMSEIEAFDEDTINELRKRARAALLTEAIAKE 421

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTM 459
           +K  E   SE+L  + G+D      L   G+ TM
Sbjct: 422 EKAGE--ASEDLLHMEGMDEATARTLAGKGVATM 453


>gi|146313241|ref|YP_001178315.1| transcription elongation factor NusA [Enterobacter sp. 638]
 gi|145320117|gb|ABP62264.1| NusA antitermination factor [Enterobacter sp. 638]
          Length = 495

 Score =  386 bits (991), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 202/478 (42%), Positives = 309/478 (64%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEV   T +I+L+ AR  D S ++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEEVTQPTKEITLEAARYEDESFNVGEYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
                +F+   GEII+G VK+V   N+ +DLG N++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDQFRSHEGEIITGVVKKVNRDNIALDLGSNAEAVILREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+  + +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YAVRPEARGAQLFVTRSKAEMLIELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV TEL  E+IDI++W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSTELGGERIDIILWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWDLNVMTVDDLQAKHQAEAHAAIATFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
            +DE  A +LV EGF+ +EELA V I E+  I+G DE T   ++ RA+  L  + +  ++
Sbjct: 364 EIDEDFATVLVEEGFSSLEELAYVPIKELLEIDGLDEATVEALRERAKNALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +++L ++ G+D  I   L  +G+ T+EDLA   VDDL    G ++ K G +
Sbjct: 424 SLGDNKPADDLLNLEGLDRAIAFKLAAHGVCTLEDLAEQGVDDLADIEGLTDEKAGEL 481


>gi|261253851|ref|ZP_05946424.1| transcription termination protein NusA [Vibrio orientalis CIP
           102891]
 gi|260937242|gb|EEX93231.1| transcription termination protein NusA [Vibrio orientalis CIP
           102891]
          Length = 495

 Score =  386 bits (991), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 197/478 (41%), Positives = 313/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  + +  +    D+RVEI+ +TG+   FR  E
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALEIALATSTKKKHEMEIDVRVEIDRKTGEFETFRRWE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE+ T +ISL+ A+  DP +++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVEVVESPTKEISLEAAQYEDPELNVGDFVEDDIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  GE+++G VK+V    V++DLGN ++ VI RD+ + REN RPGDRV+  +
Sbjct: 124 AQIVEQFIDNEGELVTGVVKKVNRETVVLDLGNNAEAVILRDDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   I+++K  +RDPGSRAK+AV ++D 
Sbjct: 184 YKVAPEARGFQLFITRSKPEMLAELFRVEVPEIAEEIIELKGAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDEDTN 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T E+      ++     + FM+ +
Sbjct: 304 TMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVEDLHKKHAEESQAAIESFMKHL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           +++E  A LLV EGF+ +EE+A V ++E+  ++G DE+   E++ RA+  L  + +  ++
Sbjct: 364 DIEEDFAQLLVEEGFSTLEEVAYVPVNELLEVDGLDEDLVEELRSRAKNALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDD---LLGWSENKGGNI 481
               +  +E+L  + G++ ++   L   G+ T+EDLA   +DD   + G +E + G +
Sbjct: 424 SFEGVEPAEDLLGLEGLEREMAFKLAAKGVATLEDLADQGIDDIEGIEGLTEERAGEL 481


>gi|168754150|ref|ZP_02779157.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4401]
 gi|168769587|ref|ZP_02794594.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4486]
 gi|168773164|ref|ZP_02798171.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4196]
 gi|168781312|ref|ZP_02806319.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4076]
 gi|195938389|ref|ZP_03083771.1| transcription elongation factor NusA [Escherichia coli O157:H7 str.
           EC4024]
 gi|208806905|ref|ZP_03249242.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4206]
 gi|208814506|ref|ZP_03255835.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4045]
 gi|208820220|ref|ZP_03260540.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4042]
 gi|209398727|ref|YP_002272640.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4115]
 gi|254795120|ref|YP_003079957.1| transcription elongation factor NusA [Escherichia coli O157:H7 str.
           TW14359]
 gi|187770909|gb|EDU34753.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4196]
 gi|189001070|gb|EDU70056.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4076]
 gi|189358578|gb|EDU76997.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4401]
 gi|189361406|gb|EDU79825.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4486]
 gi|208726706|gb|EDZ76307.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4206]
 gi|208735783|gb|EDZ84470.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4045]
 gi|208740343|gb|EDZ88025.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4042]
 gi|209160127|gb|ACI37560.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4115]
 gi|209758336|gb|ACI77480.1| transcription termination-antitermination factor NusA [Escherichia
           coli]
 gi|254594520|gb|ACT73881.1| transcription termination/antitermination L factor [Escherichia
           coli O157:H7 str. TW14359]
          Length = 495

 Score =  386 bits (991), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 202/478 (42%), Positives = 311/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVDEVTQPTKEITLEAARYEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L  I    ++
Sbjct: 364 DIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALATIAQVQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL    G ++ K G +
Sbjct: 424 SLGDNKPADDLLNLEGVDRDLAFKLAARGVCTLEDLAEQGIDDLADIEGLTDEKAGAL 481


>gi|54295603|ref|YP_128018.1| transcription elongation factor NusA [Legionella pneumophila str.
           Lens]
 gi|53755435|emb|CAH16931.1| Transcription elongation protein nusA [Legionella pneumophila str.
           Lens]
 gi|307611645|emb|CBX01332.1| transcription elongation protein nusA [Legionella pneumophila 130b]
          Length = 492

 Score =  386 bits (991), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 210/481 (43%), Positives = 324/481 (67%), Gaps = 9/481 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL +A+A++ E+ + +DV++  +  +++ A R + G    +R++I+ +TGD   FR  +
Sbjct: 4   ELLLVAEALSNERGVSKDVIILAIQAALESATRKILGLDIGVRIKIDSKTGDYETFRYWD 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV  EE+E    Q+SL+ A++R PS  +G  + + +P ++FGR+  Q+A+QVI+QKVREA
Sbjct: 64  VVNEEELEFPDRQLSLEQAKERKPSAAVGDRIEEIIPSIEFGRIEAQTARQVIMQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER+    +F+ K+G++I GTVK+V   N+I+DLG  ++  + R E +  E  RP DRV++
Sbjct: 124 ERELIIDQFRSKLGQLIYGTVKKVTRDNIIIDLGGKAEAFLPRSEMLPHEMFRPNDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+Y++  + RGPQ+ +SRT  + +++LF +EVPEI   I+ +KA +RDPG+RAK+AV ++
Sbjct: 184 YLYEITPQARGPQLFVSRTRNEMLIELFRIEVPEIGENIIDIKAAARDPGNRAKIAVKTN 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+GACVGMRG+RVQAV +EL  E++DI++W  + A  VINA+ PA +T +V+DED
Sbjct: 244 DGRIDPIGACVGMRGARVQAVSSELGGERVDIILWDDNPAQLVINAMAPADITSIVVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V KEQLS AIGR GQNVRLASQLTGWT++++T EE     Q++ ++    F  
Sbjct: 304 THTMDLAVVKEQLSQAIGRNGQNVRLASQLTGWTLNVMTTEEFESKNQEESSKIVNLFTS 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
           A+ +DE IA LLVA GF+ +EE+A V   E+ +IE FDEE   E++ RA + L  + ++ 
Sbjct: 364 ALEIDEEIATLLVAHGFSSLEEVAYVPKEELLAIEEFDEEIVEELRNRANDKLLEMALSS 423

Query: 425 QKKIRELGVSEE-LCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGN 480
            K +   G  ++ L ++ G+   +   L   GI TMEDLA  SVD+L+   G SE K G 
Sbjct: 424 GKGLS--GTPDDSLINMEGMTEDLANKLASKGITTMEDLAEQSVDELMEIEGISEEKAGA 481

Query: 481 I 481
           +
Sbjct: 482 L 482


>gi|315288929|gb|EFU48327.1| transcription termination factor NusA [Escherichia coli MS 110-3]
          Length = 495

 Score =  386 bits (991), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 202/478 (42%), Positives = 311/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVDEVTQPTKEITLEAARYEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AMVVDQFREHEGEIITGVVKKVNCDNISLDLGNNAEAVILREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L  I    ++
Sbjct: 364 DIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALATIAQAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL    G ++ K G +
Sbjct: 424 SLGDNKPADDLLNLEGVDRDLAFKLAARGVCTLEDLAEQGIDDLADIEGLTDEKAGAL 481


>gi|308050585|ref|YP_003914151.1| NusA antitermination factor [Ferrimonas balearica DSM 9799]
 gi|307632775|gb|ADN77077.1| NusA antitermination factor [Ferrimonas balearica DSM 9799]
          Length = 500

 Score =  385 bits (990), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 202/469 (43%), Positives = 313/469 (66%), Gaps = 6/469 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+  TG+   FR  E
Sbjct: 4   EILLVAEAVSNEKAVPREKIFEALEFALATATKKKYELEIDVRVAIDQRTGEFDTFRRWE 63

Query: 68  VVE---EVENYTCQISLKVAR--DRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E   E+E  T Q+ L  AR  + D +I++G  V + +  + F R+  Q+AKQVI+QKV
Sbjct: 64  VIEDDAEMEVPTRQVFLSSARAMEEDETIEVGDFVEEQIESITFDRITTQTAKQVIVQKV 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDR 181
           REAER +   +FKDK GE+++G VK+V   ++IVDLGN +D ++ R+E + REN RPGDR
Sbjct: 124 REAERAQVVEQFKDKEGELVTGVVKKVNRDSIIVDLGNNADAILFREEMLPRENFRPGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ ++ VR E RG Q+ LSRT P+ +++LF +EVPEI   ++++   +RDPGSRAK+AV
Sbjct: 184 VRALLHSVRLESRGSQLFLSRTRPEMLIELFRIEVPEIGEEMIEIVGAARDPGSRAKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W+ ++A +VINA+ PA V+ +V+
Sbjct: 244 KSNDKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWNDNTAQYVINAMAPADVSSIVV 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   ++V V K+ L+ AIGR GQNVRLASQ+TGW ++++T E+     Q +  +    
Sbjct: 304 DEDAKSMDVAVEKDSLAQAIGRNGQNVRLASQVTGWELNVMTTEDMQEKHQAESAKLVTQ 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F++++++D+  A +LV EGF  +EE+A V ++E+  IEG DEET   ++ RA+  L    
Sbjct: 364 FVESLDIDDEFASVLVDEGFTSLEEIAYVPVNELLEIEGLDEETVEALRERAKAALTTRA 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           +  ++ +     +E+L ++ G++  +   L   G+ T+EDLA   +DDL
Sbjct: 424 LASEEALDGAEPAEDLLNLEGMERHLAYVLASRGVVTLEDLADQGIDDL 472


>gi|78048394|ref|YP_364569.1| transcription elongation factor NusA [Xanthomonas campestris pv.
           vesicatoria str. 85-10]
 gi|294666762|ref|ZP_06731996.1| transcription elongation factor NusA [Xanthomonas fuscans subsp.
           aurantifolii str. ICPB 10535]
 gi|325924690|ref|ZP_08186128.1| transcription termination factor NusA [Xanthomonas perforans
           91-118]
 gi|78036824|emb|CAJ24517.1| N utilization substance (transcription elongation) protein A
           [Xanthomonas campestris pv. vesicatoria str. 85-10]
 gi|292603423|gb|EFF46840.1| transcription elongation factor NusA [Xanthomonas fuscans subsp.
           aurantifolii str. ICPB 10535]
 gi|325544896|gb|EGD16241.1| transcription termination factor NusA [Xanthomonas perforans
           91-118]
          Length = 503

 Score =  385 bits (990), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 201/472 (42%), Positives = 316/472 (66%), Gaps = 5/472 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI-RVEINPETGDISLFRLL 66
           ELL + DAVA EK + R+V+   +  ++  AA+  Y     + RV I+ + G    +R  
Sbjct: 4   ELLLVVDAVANEKGVPREVIFEAIEAALASAAKKRYPDQDVLARVTIDHKDGTYETYRRW 63

Query: 67  EVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           EVV +   +E+   Q+ L  A D    +++G  + + +   DFGR+A Q+AKQVI+Q+VR
Sbjct: 64  EVVADDVVMESPDRQVRLMDAIDEADGVEVGDYIEEQIENPDFGRIAAQAAKQVIVQRVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER +    +KD+VGE+I+G VKR E GN+ VDLG N++  I +D+ I R+ LRPGDRV
Sbjct: 124 EAERQQVVDAWKDRVGELITGVVKRAERGNIFVDLGGNAEAFIPKDKGIPRDVLRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           + Y+ +VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++KA +RDPG RAK+AV 
Sbjct: 184 RGYLAEVRSEPRGPQLFISRAAPEFMIELFKLEVPEVGQGLVEIKACARDPGDRAKIAVI 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           + D+  DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  +++D
Sbjct: 244 AHDARTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNENPANFVINAMAPAEVQSIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T ++ +   + +     Q F
Sbjct: 304 EDKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTADQVAAKSEAEQAAARQLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M  + VDE I+ +LV+EGF  VEE+A V + E+ ++EGFDE+   E++ RAR+ L    +
Sbjct: 364 MDRLEVDEEISAILVSEGFNTVEEIAYVPVGELLAVEGFDEDIVEELRARARDALLNAAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWS 474
             ++ +     +E+L ++ G+D +   AL E+G++T EDL+  + D+++ + 
Sbjct: 424 AEEEGLEGTQPTEDLLALEGMDEETAFALAEHGVRTSEDLSDLAADEIVDFG 475


>gi|194366589|ref|YP_002029199.1| transcription elongation factor NusA [Stenotrophomonas maltophilia
           R551-3]
 gi|194349393|gb|ACF52516.1| NusA antitermination factor [Stenotrophomonas maltophilia R551-3]
          Length = 503

 Score =  385 bits (990), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 203/472 (43%), Positives = 316/472 (66%), Gaps = 5/472 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI-RVEINPETGDISLFRLL 66
           ELL + DAVA EK + R+V+   +  ++  AA+  Y     + RV I+ + G    FR  
Sbjct: 4   ELLLVVDAVANEKGVPREVIFDAIEAALASAAKKRYPDEEVLTRVVIDHKDGSYETFRRW 63

Query: 67  EVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           EVV +   +E+   QI L  A D    +D+G  + + +   DFGR+A Q+AKQVI+Q+VR
Sbjct: 64  EVVADDVVMESPDRQIRLMDAVDEAEGVDVGDYIEEQIENPDFGRIAAQAAKQVIVQRVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER +    +KD+VGE+I+G VKR E GN+ VDLG N++G I +D+ I R+ LR GDRV
Sbjct: 124 EAERQQVVDAWKDRVGELITGVVKRAERGNIYVDLGGNAEGFIPKDKGIPRDVLRAGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           + Y+ +VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++KA +RDPG RAK+AV 
Sbjct: 184 RGYLAEVRSEPRGPQLFISRAAPEFMIELFKLEVPEVGQGLVEIKACARDPGDRAKIAVL 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           + D   DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  +++D
Sbjct: 244 AHDQRTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNDNPANFVINAMAPAEVQSIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T+++ +   + +     Q F
Sbjct: 304 EDKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTQDQVTAKSEAEQASARQLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M  + VDE IA +LV+EGF  VEE+A V + E+ ++EGFDE+   E++ RAR+ L    +
Sbjct: 364 MDKLEVDEEIAGILVSEGFGTVEEIAYVPVGELLAVEGFDEDIVEELRARARDALLNEAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWS 474
            +++ + +   +++L S+ G+D     AL  +G++T E+L+  + D+++ + 
Sbjct: 424 AVEEGLEDGQPAQDLLSLKGMDEATAYALAGHGVRTSEELSDLAADEVMDFG 475


>gi|323979112|gb|EGB74190.1| transcription termination protein NusA [Escherichia coli TW10509]
          Length = 495

 Score =  385 bits (990), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 203/478 (42%), Positives = 311/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVDEVTQPTKEITLEAARFEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L  I    ++
Sbjct: 364 DIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALATIAQPQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +++L ++ GID  +   L   G+ T+EDLA   +DDL    G ++ K G +
Sbjct: 424 SLGDNKPADDLLNLEGIDRDLAFKLAARGVCTLEDLAEQGIDDLADIEGLTDEKAGAL 481


>gi|238750125|ref|ZP_04611628.1| Transcription termination factor NusA [Yersinia rohdei ATCC 43380]
 gi|238711669|gb|EEQ03884.1| Transcription termination factor NusA [Yersinia rohdei ATCC 43380]
          Length = 495

 Score =  385 bits (990), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 197/478 (41%), Positives = 313/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RV I+ +TGD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIEVRVSIDRKTGDFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            V+EV   T +I+++ A+  DPS+ +G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  AVDEVTMPTREITIEAAQFEDPSLQLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F+  +GEI++GTVK+V   ++ +DLGN ++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVEQFRQYLGEIVTGTVKKVNRDSIALDLGNNAEAVIGREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           YDVR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YDVRPEARGAQLFVSRSRPEMLIELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            ++V V    L+ AIGR GQNVRLA+QL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDVAVEASNLAQAIGRNGQNVRLAAQLSGWELNVMTADDLQAKHQAEAHAAIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V + E+  I+G DE+T   ++ RA+  L  + +  ++
Sbjct: 364 DIDEDFATILVEEGFSSLEELAYVPVKELLEIDGLDEDTVEALRDRAKAALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +++L ++ G++  +   L   G+ T+EDLA   +DDL    G S+ + G +
Sbjct: 424 SLGDQKPADDLLNLAGLERSMAFKLAARGVCTLEDLAEQGIDDLADIEGLSDEQAGEL 481


>gi|70734336|ref|YP_257976.1| transcription elongation factor NusA [Pseudomonas fluorescens Pf-5]
 gi|68348635|gb|AAY96241.1| N utilization substance protein A [Pseudomonas fluorescens Pf-5]
          Length = 493

 Score =  385 bits (990), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 202/462 (43%), Positives = 308/462 (66%), Gaps = 3/462 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + ++V+ EK +   V+   +  ++  A +  +    D+RVEIN  TG    FR   
Sbjct: 4   EVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVDLRVEINRHTGSYETFRRWT 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VVEE  +++   +  L  AR+  P   +G V+ + +  ++FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVEEADLDDPAVETWLSKARETHPDAKVGDVIEEKIESIEFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G R+++
Sbjct: 124 ERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRLRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV S 
Sbjct: 184 LLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVRSK 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++DED
Sbjct: 244 DKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDENPAQFVINAMSPAEVAAIIVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F+ 
Sbjct: 304 AHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNFID 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L    I  
Sbjct: 364 ELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDIVNELRARAKDRLLTKAIAT 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
           ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S
Sbjct: 424 EEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLAEQS 465


>gi|88812961|ref|ZP_01128204.1| transcription elongation factor NusA [Nitrococcus mobilis Nb-231]
 gi|88789739|gb|EAR20863.1| transcription elongation factor NusA [Nitrococcus mobilis Nb-231]
          Length = 500

 Score =  385 bits (990), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 202/496 (40%), Positives = 321/496 (64%), Gaps = 9/496 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA++ EK + ++V+   +  ++  A R  +    D RV +N  TG+   FR   
Sbjct: 4   EVLLVVDAISNEKGVSKEVIFEAVEAALASATRKRHPEDIDARVAVNRTTGEYETFRRWL 63

Query: 68  VVEEVENYTC---QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV++ E+      +I+L  AR ++P+I+ G  +  P+  ++FGR+A Q+AKQVI+QKVRE
Sbjct: 64  VVDDAESVQVPQREIALAEARAQEPTIEAGQYIEQPMESVEFGRIAAQTAKQVIVQKVRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVK 183
           AER +    +KD+ GE+++G VKRVE G+V +DLG N++  I R+E I RE +RPGDR++
Sbjct: 124 AERAKVITAYKDRQGELMTGIVKRVERGHVYLDLGGNAEAFIAREEMIPREAVRPGDRLR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            ++ ++  E RGPQ+++SRT P+F+++LF +EVPE+   ++Q+   +RD G RAK+AV +
Sbjct: 184 GWLREICTEARGPQLVVSRTAPEFLIELFKLEVPEVGQDLLQLMGAARDAGQRAKIAVRA 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D+ IDPVGACVGMRGSRVQAV  EL  E+IDI++W  + A +VINA+ PA V  +++DE
Sbjct: 244 LDARIDPVGACVGMRGSRVQAVSNELAGERIDIILWDENPAQYVINAMAPAEVESIIVDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   +++ V +EQLS AIGR GQNVRLA +LTGW ++++T EE     + + +E  + F+
Sbjct: 304 DRHSMDIAVSQEQLSQAIGRGGQNVRLAGELTGWELNVMTSEEAQAKSEAEADELIELFV 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
            +++VDE +A +L  EGF+ VEE+A V ++E   IE FDE+    ++ RAR+ L   ++ 
Sbjct: 364 SSLDVDEEVAEILAREGFSSVEEIAYVPVAEFLEIEEFDEDIVELLRNRARDALLTRELA 423

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGN 480
             ++      + EL ++ G+D  +       G+ T+EDLA  SVD+L+   G  E +   
Sbjct: 424 EVEQDSPAKPTPELLALEGMDEALAWQFAARGVVTVEDLADQSVDELMEIEGMDEQRAAA 483

Query: 481 I--EKFDGFLSSLGTP 494
           +  +  + + + LG P
Sbjct: 484 LIMKAREPWFADLGDP 499


>gi|58582842|ref|YP_201858.1| transcription elongation factor NusA [Xanthomonas oryzae pv. oryzae
           KACC10331]
 gi|84624709|ref|YP_452081.1| transcription elongation factor NusA [Xanthomonas oryzae pv. oryzae
           MAFF 311018]
 gi|58427436|gb|AAW76473.1| N utilization substance protein A [Xanthomonas oryzae pv. oryzae
           KACC10331]
 gi|84368649|dbj|BAE69807.1| N utilization substance protein A [Xanthomonas oryzae pv. oryzae
           MAFF 311018]
          Length = 503

 Score =  385 bits (989), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 201/472 (42%), Positives = 316/472 (66%), Gaps = 5/472 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI-RVEINPETGDISLFRLL 66
           ELL + DAVA EK + R+V+   +  ++  AA+  Y     + RV I+ + G    +R  
Sbjct: 4   ELLLVVDAVANEKGVPREVIFDAIEAALASAAKKRYPDQDVLARVTIDHKDGTYETYRRW 63

Query: 67  EVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           EVV +   +E+   Q+ L  A D    +D+G  + + +   DFGR+A Q+AKQVI+Q+VR
Sbjct: 64  EVVADDVVMESPDRQVRLMDAIDEADGVDVGDYIEEQIENPDFGRIAAQAAKQVIVQRVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER +    +KD+VGE+I+G VKR E GN+ VDLG N++  I +D+ I R+ LRPGDRV
Sbjct: 124 EAERQQVVDAWKDRVGELITGVVKRAERGNIFVDLGGNAEAFIPKDKGIPRDVLRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           + Y+ +VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++ A +RDPG RAK+AV 
Sbjct: 184 RGYLAEVRSEPRGPQLFISRAAPEFMIELFKLEVPEVGQGLVEINACARDPGDRAKIAVI 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           + D+  DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  +++D
Sbjct: 244 AHDARTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNENPANFVINAMAPAEVQSIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T ++ +   + +     + F
Sbjct: 304 EDKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTADQVAAKSEAEQAAARKLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M  + VDE I+ +LV+EGF  VEE+A V + E+ ++EGFDE+   E++ RAR+ L    +
Sbjct: 364 MDRLEVDEEISAILVSEGFNTVEEIAYVPVGELLAVEGFDEDIVEELRARARDALLNAAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWS 474
             ++ +     +E+L ++ G+D +  VAL E+G++T EDL+  + D+++ + 
Sbjct: 424 AEEEGLEGTQPTEDLLALEGMDEETAVALAEHGVRTSEDLSDLAADEIVDFG 475


>gi|167950226|ref|ZP_02537300.1| transcription elongation factor NusA [Endoriftia persephone
           'Hot96_1+Hot96_2']
 gi|110589422|gb|ABG77220.1| N utilization substance protein A [Endoriftia persephone
           'Hot96_1+Hot96_2']
          Length = 497

 Score =  385 bits (989), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 207/483 (42%), Positives = 315/483 (65%), Gaps = 11/483 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DAV+ EK +++ ++   +  ++  A R   G    +RVEI+  +GD   FR  E
Sbjct: 4   EILLVVDAVSNEKGVEKVIIFEAIEAALASATRKKNGDDILVRVEIDRTSGDYESFRRWE 63

Query: 68  VVE-----EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           VVE     E +    QI    A+++ P I IG  + + +  ++FGR+A Q+AKQVI+QKV
Sbjct: 64  VVEDYSSDEPDAPLRQIIFDAAKEQQPDIQIGDFIEEEIDSIEFGRIAAQAAKQVIVQKV 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER +    ++D+ GE+++G VKRV+ GNV +DLG N++  I R+  I +E +R GDR
Sbjct: 124 REAERAKVVAAYEDRKGELVTGVVKRVDRGNVFLDLGGNAEAFIGREHMIPKEAVRVGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ Y+Y++R E RGPQ+ +SRT P+ +++LF +EVPE+  G+++++  +RD G RAK+AV
Sbjct: 184 IRGYLYEIRSEVRGPQLFVSRTMPELLIELFKLEVPEVGEGLIEIRGAARDAGLRAKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            + DS IDPVGACVGMRGSRVQAV  EL  E++DI++W+ + A FVI+A+ PA V  +V+
Sbjct: 244 KALDSRIDPVGACVGMRGSRVQAVSNELNGERVDIILWNDNPAQFVIDAMSPADVVSIVV 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   ++V V +E LS AIGR GQNVRLASQLTGW ++++ E + +    ++     + 
Sbjct: 304 DEDRHAMDVAVSEENLSQAIGRGGQNVRLASQLTGWELNVMDEAQAAEKSDQESRGFIEA 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+ + VDE +A +LV EGF  V+E+A V I E+  IE FD++   E++ RA++ L    
Sbjct: 364 FMEHLGVDEDVATILVQEGFTSVDEVAYVPIEEMLGIEEFDDDLVDELRNRAKDVLLTKA 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKG 478
           I  ++   E   +E+L ++ G+D  +   L  +GI TMEDLA  SVDDL+   G  E + 
Sbjct: 424 IAKEEAFAE--PAEDLLTMDGMDKDLAYLLASHGIATMEDLAEQSVDDLMDVEGMDEERA 481

Query: 479 GNI 481
           G +
Sbjct: 482 GKL 484


>gi|220934178|ref|YP_002513077.1| NusA antitermination factor [Thioalkalivibrio sp. HL-EbGR7]
 gi|219995488|gb|ACL72090.1| NusA antitermination factor [Thioalkalivibrio sp. HL-EbGR7]
          Length = 501

 Score =  385 bits (989), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 216/485 (44%), Positives = 315/485 (64%), Gaps = 15/485 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DAV+ EK ++++V+   +  ++  A R  +G   D+RV I+ ETGD   FR   
Sbjct: 4   EILMVVDAVSNEKGVEKEVIFEAIEAALGSATRKKHGGEIDVRVSIHRETGDYETFRRWL 63

Query: 68  VVE----EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           VV+    E E+   Q  L  A    P I +G  + +P+  +DFGR+A Q+AKQVI+QKVR
Sbjct: 64  VVDDEDPEFESPERQKLLSYAHQTHPDIQVGEYIEEPMESVDFGRIAAQTAKQVIVQKVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER +   EF+ +VGE++ G VKR E   V +DLG N++  I R+E I RE +RP DR+
Sbjct: 124 EAERAKVVEEFRHRVGELVMGVVKRTERSGVFLDLGGNAEAFIPREEMIPRETVRPNDRL 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           + Y+ +VR E RGPQ+ +SRT P+F++++F +EVPE+  G++ +   +RDPG RAK+AV 
Sbjct: 184 RGYLKEVRSEPRGPQLFVSRTAPEFLIEMFKLEVPEVGQGLIDIMGAARDPGLRAKIAVR 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+DS +DPVGACVGMRGSRVQ+V  EL  E++DI++W  + A FVINA+ PA V  +V+D
Sbjct: 244 SNDSRLDPVGACVGMRGSRVQSVSNELAGERVDIILWDDNPAQFVINAMSPAEVLSIVMD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V +E+LS AIGR GQN+RLASQLTGW ++++ E + +   + +  E  + F
Sbjct: 304 EDRHSMDIAVAEEKLSQAIGRGGQNIRLASQLTGWELNVMNEAQAAEKSEAEAAELQRMF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+ ++VDE +A +LV EGF+ +EE+A V  SEI  IE FDEE   E++ RAR+ L    +
Sbjct: 364 MENLDVDEEVAAILVQEGFSSIEEVAYVPTSEIMQIEEFDEEIVEELRARARDAL----L 419

Query: 423 TLQKKIRELG---VSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSEN 476
           T      E G    +E+L ++ G+D  +   L   GI TMEDLA  +VDDL+   G    
Sbjct: 420 TKAIATEEQGGGEPAEDLLNMEGMDRDLAFKLAAKGICTMEDLAEQAVDDLVEISGLDAE 479

Query: 477 KGGNI 481
           K G +
Sbjct: 480 KAGEL 484


>gi|21243417|ref|NP_642999.1| transcription elongation factor NusA [Xanthomonas axonopodis pv.
           citri str. 306]
 gi|21108968|gb|AAM37535.1| N utilization substance protein A [Xanthomonas axonopodis pv. citri
           str. 306]
          Length = 503

 Score =  385 bits (989), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 201/472 (42%), Positives = 316/472 (66%), Gaps = 5/472 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI-RVEINPETGDISLFRLL 66
           ELL + DAVA EK + R+V+   +  ++  AA+  Y     + RV I+ + G    +R  
Sbjct: 4   ELLLVVDAVANEKGVPREVIFEAIEAALASAAKKRYPDQDVLARVTIDHKDGTYETYRRW 63

Query: 67  EVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           EVV +   +E+   Q+ L  A D    +++G  + + +   DFGR+A Q+AKQVI+Q+VR
Sbjct: 64  EVVADDVVMESPDRQVRLMDAIDEADGVEVGDYIEEQIENPDFGRIAAQAAKQVIVQRVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER +    +KD+VGE+I+G VKR E GN+ VDLG N++  I +D+ I R+ LRPGDRV
Sbjct: 124 EAERQQVVDAWKDRVGELITGVVKRAERGNIFVDLGGNAEAFIPKDKGIPRDVLRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           + Y+ +VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++KA +RDPG RAK+AV 
Sbjct: 184 RGYLAEVRSEPRGPQLFVSRAAPEFMIELFKLEVPEVGQGLVEIKACARDPGDRAKIAVI 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           + D+  DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  +++D
Sbjct: 244 AHDARTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNENPANFVINAMAPAEVQSIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T ++ +   + +     Q F
Sbjct: 304 EDKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTADQVAAKSEAEQAAARQLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M  + VDE I+ +LV+EGF  VEE+A V + E+ ++EGFDE+   E++ RAR+ L    +
Sbjct: 364 MDRLEVDEEISAILVSEGFNTVEEIAYVPVGELLAVEGFDEDIVEELRARARDALLNAAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWS 474
             ++ +     +E+L ++ G+D +   AL E+G++T EDL+  + D+++ + 
Sbjct: 424 AEEEGLEGTQPTEDLLALEGMDEETAFALAEHGVRTSEDLSDLAADEIVDFG 475


>gi|283836285|ref|ZP_06356026.1| L factor [Citrobacter youngae ATCC 29220]
 gi|291067648|gb|EFE05757.1| L factor [Citrobacter youngae ATCC 29220]
          Length = 500

 Score =  385 bits (989), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 200/483 (41%), Positives = 313/483 (64%), Gaps = 9/483 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEEVTQPTKEITLEAARFEDESLNVGEYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPGDR 181
                +F+D+ GEI++G VK+V   N+ +++      GN++ VI R++ + REN RPGDR
Sbjct: 124 AMVVDQFRDQEGEIVTGVVKKVNRDNISLEIKSEGMAGNAEAVILREDMLPRENFRPGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++  +Y VR E RG Q+ ++R+ P+ +V+LF +EVPEI   ++++KA +RDPGSRAK+AV
Sbjct: 184 IRGVLYAVRPEARGAQLFVTRSKPEMLVELFRIEVPEIGEEVIEIKAAARDPGSRAKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+
Sbjct: 244 KTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVV 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     
Sbjct: 304 DEDKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDT 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + +++DE  A +LV EGFA +EELA V + E+  I+G DE T   ++ RA+  L  + 
Sbjct: 364 FTKYLDIDEDFATVLVEEGFATLEELAYVPMKELLEIDGLDEPTVEALRERAKNALTTLA 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKG 478
           +  ++ + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL    G ++ K 
Sbjct: 424 LAQEESLGDNKPADDLLNLEGLDRDMAFKLAARGVCTLEDLAEQGIDDLADIEGLTDEKA 483

Query: 479 GNI 481
           G +
Sbjct: 484 GEL 486


>gi|170765858|ref|ZP_02900669.1| transcription termination/antitermination factor NusA [Escherichia
           albertii TW07627]
 gi|170125004|gb|EDS93935.1| transcription termination/antitermination factor NusA [Escherichia
           albertii TW07627]
          Length = 495

 Score =  385 bits (988), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 202/478 (42%), Positives = 311/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVDEVTQPTKEITLEAARFEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTRYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L  I    ++
Sbjct: 364 DIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALATIAQAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL    G ++ K G +
Sbjct: 424 SLGDNKPADDLLNLEGMDRDLAFKLAARGVCTLEDLAEQGIDDLADIEGLTDEKAGAL 481


>gi|323491074|ref|ZP_08096266.1| transcription elongation factor NusA [Vibrio brasiliensis LMG
           20546]
 gi|323314738|gb|EGA67810.1| transcription elongation factor NusA [Vibrio brasiliensis LMG
           20546]
          Length = 495

 Score =  385 bits (988), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 199/478 (41%), Positives = 311/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  + +  +    D+RVEI+ +TG+   FR   
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALEIALATSTKKKHEIEIDVRVEIDRKTGEFETFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVEN T +ISL+ A+  D  I +G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVEEVENPTKEISLEAAQYEDAEIQLGDFVEDDIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  GE+++G VK+V    V++DLGN ++ VI RD+ + REN RPGDRV+  +
Sbjct: 124 AQIVEQFIDNEGELVTGVVKKVNRETVVLDLGNNAEAVILRDDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   I+++K  +RDPGSRAK+AV ++D 
Sbjct: 184 YKVAPEARGFQLFITRSKPEMLAELFRVEVPEIAEEIIELKGAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDEDAN 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T E+      ++     + FM+ +
Sbjct: 304 AMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVEDLHKKHAEESQAAIEGFMKHL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           +++E  A LLV EGF+ +EE+A V ++E+  ++G DE+   E++ RA+  L  + +  ++
Sbjct: 364 DIEEDFAQLLVEEGFSTLEEVAYVPVNELLEVDGLDEDLVEELRNRAKNALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL---LGWSENKGGNI 481
               +  +E+L  + G++ ++   L   G+ T+EDLA   +DDL    G +E + G +
Sbjct: 424 SFEGVEPAEDLLGLEGLEREMAFKLAAKGVATLEDLADQGIDDLEGIEGLTEERAGEL 481


>gi|260775410|ref|ZP_05884307.1| transcription termination protein NusA [Vibrio coralliilyticus ATCC
           BAA-450]
 gi|260608591|gb|EEX34756.1| transcription termination protein NusA [Vibrio coralliilyticus ATCC
           BAA-450]
          Length = 495

 Score =  385 bits (988), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 198/466 (42%), Positives = 310/466 (66%), Gaps = 1/466 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK + R+ +   +  ++  + +  +    D+RVEI+ +TG+   FR   
Sbjct: 4   EILAVAEAVSNEKGVPRERIFEALEIALATSTKKKHEIEIDVRVEIDRKTGEFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+ T +ISL+ A+  D +I+IG  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVEEVESPTKEISLEAAQFDDETIEIGDYVEDEIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  GE+++G VK+V    +++DLGN ++ VI RD+ + REN RPGDRV+  +
Sbjct: 124 AQIVEQFIDNEGELVTGVVKKVNRETIVLDLGNNAEAVILRDDQLPRENHRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   I+++K  +RDPGSRAK+AV ++D 
Sbjct: 184 YRVAPEARGFQLFITRSKPEMLAELFRVEVPEIAEEIIELKGAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDEDAH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T E+      ++     + FM+ +
Sbjct: 304 AMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVEDLQKKHAEESQASIENFMKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           +++E  A LLV EGF+ +EE+A V ++E+  ++G DE+   E++ RA++ L  + +  ++
Sbjct: 364 DIEEDFAQLLVEEGFSSLEEVAYVPVNELLEVDGLDEDLVEELRNRAKDALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG 472
               L  +E+L ++ G++ ++   L   G+ T+EDLA   +DDL G
Sbjct: 424 SFEGLEPAEDLLALEGLEREMAFKLAAKGVATLEDLADQGIDDLEG 469


>gi|258624683|ref|ZP_05719617.1| N utilization substance protein A [Vibrio mimicus VM603]
 gi|258582970|gb|EEW07785.1| N utilization substance protein A [Vibrio mimicus VM603]
          Length = 495

 Score =  385 bits (988), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 200/478 (41%), Positives = 312/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG    FR   
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALETALATSTKKKYEIEIDVRVAIDRKTGAFETFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE+ T +IS + A   D S+ +G  + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVENVEHPTKEISFEAASFDDESVQMGDYIEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  GE+++G VK+V    VI+DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AQIVEQFIDNEGELVTGVVKKVNRETVILDLGNNAEAVILREDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E RG Q+ ++R+ P+ +V+LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YKVAPEARGFQLFITRSKPEMLVELFRVEVPEIGEELIELKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIMDEDTH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +     Q++     + FM+ +
Sbjct: 304 SMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADLQKKHQEESMASIENFMKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++++  A LLV EGF+ +EE+A V ++E+  ++G DE+ A E++ RA+E L  I +  ++
Sbjct: 364 DIEQDFAELLVEEGFSTLEEIAYVPMNELLDVDGMDEDLAEELRSRAKEALTTIALAKEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL---LGWSENKGGNI 481
               L  +E+L ++ G++ ++   L   G+ T+EDLA   VDDL    G +E + G +
Sbjct: 424 SFEGLEPAEDLLALAGLEREMAFKLAAKGVATLEDLADQGVDDLEGIEGLTEQRAGEL 481


>gi|253991503|ref|YP_003042859.1| transcription elongation factor NusA [Photorhabdus asymbiotica
           subsp. asymbiotica ATCC 43949]
 gi|211638381|emb|CAR67003.1| n utilization substance protein a (nusa protein) (l factor)
           [Photorhabdus asymbiotica subsp. asymbiotica ATCC 43949]
 gi|253782953|emb|CAQ86118.1| n utilization substance protein a (nusa protein) (l factor)
           [Photorhabdus asymbiotica]
          Length = 502

 Score =  385 bits (988), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 207/485 (42%), Positives = 311/485 (64%), Gaps = 11/485 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQDIDVRVSIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV   T +I+L+ AR  +P I +G    D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVEEVTQPTREITLEAARFEEPEITLGSYTEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F+++ GEII+  VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AMVVDQFREQQGEIITSVVKKVNRENITLDLGNNAEAVILREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           YDVR E RG Q+ +SR+ P+ +V+LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YDVRPEARGAQLFVSRSRPEMLVELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKC 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLT-------GWTIDIITEEEDSINRQKDFNERT 359
            ++V V    L+ AIGR GQNVRLA+QL         W ++++T +E     Q + +   
Sbjct: 304 TMDVAVESNNLAQAIGRNGQNVRLAAQLLKKHRGDDKWELNVMTADELQAKHQAEAHASI 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             F + +++DE  A +LV EGF+ +EELA V I+E+  IEG DEET   ++ RA+  L  
Sbjct: 364 DIFTKHLDIDEEFATVLVEEGFSTLEELAYVPINELLEIEGLDEETIEVLRERAKAALTT 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSEN 476
           +++  ++ + +   +EEL ++ G++  +   L   GI T+EDLA   +DDL    G ++ 
Sbjct: 424 LELAQKESLSDKQPTEELLNLTGMNRTLAFDLAACGICTLEDLAEQGIDDLSDIEGLNDE 483

Query: 477 KGGNI 481
           K G +
Sbjct: 484 KAGEL 488


>gi|110807038|ref|YP_690558.1| transcription elongation factor NusA [Shigella flexneri 5 str.
           8401]
 gi|110616586|gb|ABF05253.1| transcription elongation factor NusA [Shigella flexneri 5 str.
           8401]
          Length = 495

 Score =  385 bits (988), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 202/478 (42%), Positives = 311/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVDEVTQPTKEITLEAARYEDESLNLGDYVEDQIESVIFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L  I    ++
Sbjct: 364 DIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALATIAQAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL    G ++ K G +
Sbjct: 424 SLGDNKPADDLLNLEGVDRDLAFKLAARGVCTLEDLAEQGIDDLADIEGLTDEKAGAL 481


>gi|85058354|ref|YP_454056.1| transcription elongation factor NusA [Sodalis glossinidius str.
           'morsitans']
 gi|84778874|dbj|BAE73651.1| transcription pausing L factor [Sodalis glossinidius str.
           'morsitans']
          Length = 495

 Score =  385 bits (988), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 206/479 (43%), Positives = 311/479 (64%), Gaps = 6/479 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    ++RV I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKAVPREKIFEALETALATATKKKYEQEIEVRVSIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +V+EV   T +I+L  A+  DP+  IGG + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVDEVTQPTREITLDAAQFDDPTAQIGGYIEDEIESVVFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
                +F+   GEI++G VK+V   ++ +DLG N++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDQFRSHEGEIVTGVVKKVNRDSISLDLGSNAEAVIGREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ +SR+ P+ +V+LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YSVRPEARGAQLFVSRSRPEMLVELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T E+     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVEDLQAKHQAEAHAAIDIFTRNL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V I+E+  IEG DEET   ++ RA+  L  + +  Q+
Sbjct: 364 DIDEEFATVLVEEGFSSLEELAYVPINELLEIEGLDEETVEALRERAKNALTTLALA-QE 422

Query: 427 KIRELGV-SEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
           + R  GV +E+L  +P ++  +   L   G+ T+EDLA   VDDL    G S  K G +
Sbjct: 423 ENRGAGVPAEDLLGLPELERDMAFKLAARGVCTLEDLAEQGVDDLTDIEGLSSEKAGEL 481


>gi|317493625|ref|ZP_07952046.1| transcription termination factor NusA [Enterobacteriaceae bacterium
           9_2_54FAA]
 gi|316918568|gb|EFV39906.1| transcription termination factor NusA [Enterobacteriaceae bacterium
           9_2_54FAA]
          Length = 495

 Score =  385 bits (988), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 201/478 (42%), Positives = 309/478 (64%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIDVRVCIDRKTGDFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +V+EV   T +I+L  A+  DP++ +G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVDEVTQPTREITLDAAQFEDPALQLGEYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
                 F+   GEI++G VK+V   N+ +DLG N++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDAFRQHQGEIVTGVVKKVSRDNISLDLGSNAEAVIGREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           YDVR E RG Q+ +SR+ P+ +V+LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YDVRPEARGAQLFVSRSRPEMLVELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLA+QL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDIAVEASNLAQAIGRNGQNVRLAAQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A LLV EGF+ +EELA V   E+ +I+G DE+T   ++ RA+  L  + +  ++
Sbjct: 364 DIDEDFATLLVEEGFSTLEELAYVPEQELLAIDGLDEDTVDALRERAKNALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +E+L ++ G+D  I   +   G+ T+EDLA   +DDL    G +  K G +
Sbjct: 424 SLGDQKPAEDLLALEGLDRGIAFKMAARGVCTLEDLAEQGIDDLADIEGLNSEKAGEL 481


>gi|304310506|ref|YP_003810104.1| N utilization substance protein A [gamma proteobacterium HdN1]
 gi|301796239|emb|CBL44447.1| N utilization substance protein A [gamma proteobacterium HdN1]
          Length = 494

 Score =  385 bits (988), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 205/468 (43%), Positives = 311/468 (66%), Gaps = 4/468 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+L + + V+ EK + RDV+   +  ++  A +  +    +D+RV IN  TG    +R  
Sbjct: 4   EILLVVETVSNEKGVPRDVIFEAVETALATATKKRFPNEDADVRVSINRTTGAYDTWRRW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
            VV  E+ E     ++L  A D D    IG +  + +P +DFGR+A Q+AKQVI+QKVRE
Sbjct: 64  TVVLDEDFEFPGRHMTLDEAHDHDTKYKIGDIYEEKIPSIDFGRIAAQTAKQVIVQKVRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVK 183
           AER +    F DK+G +++G VK+V   NVI+DLG N++ ++ R++ I RE LR  DRV+
Sbjct: 124 AERAQIADAFSDKIGHLVNGVVKKVTRDNVILDLGGNAEALLPREDLIGRETLRVNDRVR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
             ++ + +E RG Q+ +SR  P+ +++LF +EVPEI   I+++KA +RDPGSRAK+AV +
Sbjct: 184 GVLFSINKENRGAQLYVSRARPEMLIELFKIEVPEIGEDIIEIKAAARDPGSRAKIAVKT 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  IDPVGACVGMRGSRVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +V+DE
Sbjct: 244 NDQRIDPVGACVGMRGSRVQAVSNELGGERIDIVLWDDNPAQFVINAMSPAEVVSIVVDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           +   +++ V +EQL+LAIGR GQN+RLAS+L+GW ++++T ++    ++++     + FM
Sbjct: 304 ESHSMDIAVEEEQLALAIGRGGQNIRLASELSGWELNVMTVKDAEAKQRQESESYLKVFM 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
             + VDE +A +LV EGFA VEE+A V   E+ SIEGFDE+   E++ RA+  L    + 
Sbjct: 364 DELGVDEELAQVLVDEGFASVEEVAYVPKEEMLSIEGFDEDLVDELRSRAKNALLTRALV 423

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
            +++ +    +++L S+ G+D ++ +AL + GI TMEDLA  +VDDLL
Sbjct: 424 DEEQNQGGSPADDLLSMEGMDKELALALAKKGICTMEDLAEQAVDDLL 471


>gi|165976050|ref|YP_001651643.1| transcription elongation factor NusA [Actinobacillus
           pleuropneumoniae serovar 3 str. JL03]
 gi|190149948|ref|YP_001968473.1| transcription elongation protein NusA [Actinobacillus
           pleuropneumoniae serovar 7 str. AP76]
 gi|303249647|ref|ZP_07335852.1| transcription elongation factor NusA [Actinobacillus
           pleuropneumoniae serovar 6 str. Femo]
 gi|303253712|ref|ZP_07339849.1| transcription elongation factor NusA [Actinobacillus
           pleuropneumoniae serovar 2 str. 4226]
 gi|307247608|ref|ZP_07529651.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 2 str. S1536]
 gi|307249837|ref|ZP_07531813.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 4 str. M62]
 gi|307252189|ref|ZP_07534087.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 6 str. Femo]
 gi|307263276|ref|ZP_07544894.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 13 str. N273]
 gi|165876151|gb|ABY69199.1| transcription termination-antitermination factor, N utilization
           substance protein A [Actinobacillus pleuropneumoniae
           serovar 3 str. JL03]
 gi|189915079|gb|ACE61331.1| transcription elongation protein NusA [Actinobacillus
           pleuropneumoniae serovar 7 str. AP76]
 gi|302647437|gb|EFL77656.1| transcription elongation factor NusA [Actinobacillus
           pleuropneumoniae serovar 2 str. 4226]
 gi|302651459|gb|EFL81610.1| transcription elongation factor NusA [Actinobacillus
           pleuropneumoniae serovar 6 str. Femo]
 gi|306855878|gb|EFM88038.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 2 str. S1536]
 gi|306858139|gb|EFM90219.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 4 str. M62]
 gi|306860333|gb|EFM92348.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 6 str. Femo]
 gi|306871338|gb|EFN03064.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 13 str. N273]
          Length = 493

 Score =  385 bits (988), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 195/465 (41%), Positives = 307/465 (66%), Gaps = 2/465 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + ++ +   +  ++  + +       D+RV I+ +TGD   FR   
Sbjct: 4   EILLAAEAVSNEKLLPKEAIFEALETALAISTKKKKEMDIDVRVVIDRKTGDFQTFRRWI 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE+V N T +ISL+ A+  +PS+ +G +V D +  + F R+ +Q+A+QVI  K+REAER
Sbjct: 64  VVEQVHNMTREISLEAAQYENPSVQLGDIVEDEVDSIPFDRITMQTARQVISTKIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
           ++   +F+ ++  II+ TVK+V    +I+DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 NKVIEQFRSQLNTIITATVKKVNREQIILDLGNQAEAVIVREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y ++ E +GPQ+ L+R  P  + +LF +EVPEI   ++++K  SRDPGSRAK+AV S D 
Sbjct: 184 YAIKPESKGPQLFLTRAKPVMLEELFKLEVPEIGEDVIEIKGASRDPGSRAKIAVKSHDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAISNELGGERVDIVLWDDNPAQFVINAMAPAEVSAIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T E+     Q + N+    F+ A+
Sbjct: 304 AMDIAVEGKNLAQAIGRNGQNVRLATQLTGWTLNVMTTEDLDKKHQAEDNKVISLFVSAL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLEGIDITLQ 425
            +D+  A LLV EGF+ +EE+A + +SE+ +I+G  DE  A E+Q RA+  +    +  +
Sbjct: 364 EIDDEFAQLLVDEGFSSLEEIAFIPVSELTAIDGIEDENLAEELQTRAKNAITAKALAEE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           + +++  + + L ++ G+D  I   L E GI T+E+LA  + DDL
Sbjct: 424 EALKQAHIEDRLLNLEGLDRHIAFKLAEKGITTLEELAEQATDDL 468


>gi|194438826|ref|ZP_03070912.1| transcription termination/antitermination factor NusA [Escherichia
           coli 101-1]
 gi|194422298|gb|EDX38299.1| transcription termination/antitermination factor NusA [Escherichia
           coli 101-1]
          Length = 495

 Score =  385 bits (988), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 201/478 (42%), Positives = 310/478 (64%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVDEVTQPTKEITLEAARYEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQ V TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQTVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L  I    ++
Sbjct: 364 DIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALATIAQAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL    G ++ K G +
Sbjct: 424 SLGDNKPADDLLNLEGVDRDLAFKLAARGVCTLEDLAEQGIDDLADIEGLTDEKAGAL 481


>gi|285017807|ref|YP_003375518.1| transcription elongation protein nusa [Xanthomonas albilineans GPE
           PC73]
 gi|283473025|emb|CBA15530.1| probable transcription elongation protein nusa [Xanthomonas
           albilineans]
          Length = 503

 Score =  384 bits (987), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 205/469 (43%), Positives = 311/469 (66%), Gaps = 5/469 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI-RVEINPETGDISLFRLL 66
           ELL + DAVA EK + R+V+   +  ++  AA+  Y     + RV I+ + G    FR  
Sbjct: 4   ELLLVVDAVANEKGVPREVIFDAIEAALASAAKKRYPDQDVLTRVTIDHKEGSYETFRRW 63

Query: 67  EVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           EVV +   +E+   QI L  A D    +D+G  + + +   DFGR+A Q+AKQVI+Q+VR
Sbjct: 64  EVVADDVVMESPDRQIRLMDAVDEAEGVDVGDYIEEQIENPDFGRIAAQAAKQVIVQRVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER +    +KD+VGE+++G VKR E GN+ VDLG N++  I +D+ I R+ LR GDRV
Sbjct: 124 EAERQQVVDAWKDRVGELVTGVVKRAERGNIYVDLGGNAEAFIPKDKGIPRDVLRAGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           + Y+ +VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++KA +RDPG RAK+AV 
Sbjct: 184 RGYLAEVRSEPRGPQLFISRAAPEFMIELFKLEVPEVGQGLVEIKACARDPGDRAKIAVL 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           + D+  DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  +++D
Sbjct: 244 AHDTRTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNDNPANFVINAMAPAEVQSIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T E+ +   + +     Q F
Sbjct: 304 EEKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTAEQVAAKSEAEQAVARQLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M  + VDE IA +LVAEGF  VEE+A V + E+ ++EGFDE+   E++ RAR+ L    +
Sbjct: 364 MDKLEVDEEIAAILVAEGFNSVEEIAYVPVGELLAVEGFDEDIVEELRARARDALLNEAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
             ++       + +L S+PG+D     AL  +G++T EDL+  + D++L
Sbjct: 424 AAEESDDGGVPAADLLSLPGMDEATAYALAGHGVRTSEDLSDLAADEIL 472


>gi|30248764|ref|NP_840834.1| transcription elongation factor NusA [Nitrosomonas europaea ATCC
           19718]
 gi|30180359|emb|CAD84671.1| S1 RNA binding domain:KH domain:Type 1 KH domain [Nitrosomonas
           europaea ATCC 19718]
          Length = 490

 Score =  384 bits (987), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 204/466 (43%), Positives = 313/466 (67%), Gaps = 4/466 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +A+A+EK++D+++V + +  ++  AA+       D+RV I+ +TG    FR   
Sbjct: 4   EILLLVNALAHEKNVDKNIVFTALEMALASAAKKHTRDDIDVRVSIDRDTGGFHCFRRWL 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           +V +  VE+   QI++  A  R+P    G  + D +  + F R+  Q+AKQVI QK+R+A
Sbjct: 64  IVADDPVEHPERQITVSEAVGRNPQAVPGEYIEDLMEDVTFDRIGAQAAKQVIFQKIRDA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F D+   ++ G +KR++ GN I++ G  + V+ RD+ IS ENLR GDRV++Y
Sbjct: 124 EREQNLNDFLDRGEYLVYGVIKRMDRGNAIIEFGKIEAVLPRDQMISHENLRMGDRVRAY 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  + R  RGPQ++LSRT P F+ KLF +EVPEI  GI+++KA +RDPGSRAK+AV S+D
Sbjct: 184 LLRIDRSVRGPQLVLSRTSPAFLAKLFELEVPEIEEGILEIKAAARDPGSRAKIAVKSND 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           S +DP+G CVGMRGSRVQAV +EL  E++DI+ WS D ATFV+NAL PA+++ +V+DE+ 
Sbjct: 244 SRVDPIGTCVGMRGSRVQAVTSELAGERVDIIQWSDDQATFVVNALAPAVISSIVVDEEK 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++++V +E L+ AIGR GQNVRLAS+LTGW ++I+TEEE     +++     + FM+ 
Sbjct: 304 HCMDIVVDEENLAQAIGRGGQNVRLASELTGWQLNIMTEEESQEKTEEEAASICELFMEK 363

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE +  +LV EGF+ +EE+A + I E+  I+ FD ET  E++ RAR  L    I  +
Sbjct: 364 LDVDEDVGRILVEEGFSTLEEVAYIPIEEMLEIQEFDRETIEELRNRARNALLTDAIATE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           +KI     SE L ++ G+D ++   L E GI T E+LA  + DDL+
Sbjct: 424 EKIGH--ASEALLALEGMDIELVRELAEKGISTQEELADLAADDLV 467


>gi|152980158|ref|YP_001354186.1| N utilization substance protein A [Janthinobacterium sp. Marseille]
 gi|151280235|gb|ABR88645.1| N utilization substance protein A [Janthinobacterium sp. Marseille]
          Length = 519

 Score =  384 bits (987), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 203/466 (43%), Positives = 309/466 (66%), Gaps = 5/466 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+D+V   +  ++ +A +  Y    DIRV I+ ETG+   FR   
Sbjct: 4   EILLLVDALAREKNVDKDIVFGALEHALAQATKKRYEGDVDIRVSIDRETGEFESFRRWH 63

Query: 68  VVEEVENYTC---QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +         +I    A+++   I++   + +P+  +DFGR   Q  KQV++Q++R+
Sbjct: 64  VVPDEAGLQLPDQEILHFEAKEQIGDIEVDDYIEEPIESVDFGRRFAQDTKQVVLQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F ++   +++GT+KR+E G+ IV+ G  +  + RD+TI +ENLR GDRV++
Sbjct: 124 AEREQILADFLERGDSLVTGTIKRMERGDAIVESGRIEARLPRDQTIPKENLRIGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  + R  RGPQV+LSRT P+F++KLF +EVPEI  G++++K+ +RD G RAK+AVF+S
Sbjct: 184 YILRIDRNARGPQVILSRTAPEFIMKLFELEVPEIEQGLLEIKSAARDAGVRAKIAVFTS 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVGMRGSRVQAV  EL  E++DIV+WS D A FVI AL PA V+ +V+DE+
Sbjct: 244 DKRIDPIGTCVGMRGSRVQAVTGELGGERVDIVLWSEDPAQFVIGALAPANVSSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+T EE +   Q +       FM+
Sbjct: 304 KHAMDVVVDEENLAIAIGRGGQNVRLASELTGWQINIMTAEESADKSQLETAAIRTLFME 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VD+ +A +LV EGFA +EE+A V ISE+  IE FDE+T  E++ RAR+ L    I  
Sbjct: 364 KLDVDQEVADILVDEGFASLEEIAYVPISEMLDIESFDEDTVNELRNRARDALVTEAIAS 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           ++ +   G+ E L ++ G+D  +   LG  GIKT+   +  + D+ 
Sbjct: 424 EEGLE--GMEEALANLEGMDRVMAGKLGLAGIKTLAAFSALAYDEF 467


>gi|32033691|ref|ZP_00133986.1| COG0195: Transcription elongation factor [Actinobacillus
           pleuropneumoniae serovar 1 str. 4074]
 gi|126208120|ref|YP_001053345.1| transcription elongation factor NusA [Actinobacillus
           pleuropneumoniae L20]
 gi|126096912|gb|ABN73740.1| transcription elongation protein NusA [Actinobacillus
           pleuropneumoniae serovar 5b str. L20]
          Length = 493

 Score =  384 bits (986), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 195/465 (41%), Positives = 306/465 (65%), Gaps = 2/465 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + ++ +   +  ++  + +       D+RV I+ +TGD   FR   
Sbjct: 4   EILLAAEAVSNEKLLPKEAIFEALETALAISTKKKKEMDIDVRVVIDRKTGDFQTFRRWI 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE+V N T +ISL  A+  +PS+ +G +V D +  + F R+ +Q+A+QVI  K+REAER
Sbjct: 64  VVEQVHNMTREISLDAAQYENPSVQLGDIVEDEVDSIPFDRITMQTARQVISTKIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
           ++   +F+ ++  II+ TVK+V    +I+DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 NKVIEQFRSQLNTIITATVKKVNREQIILDLGNQAEAVIVREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y ++ E +GPQ+ L+R  P  + +LF +EVPEI   ++++K  SRDPGSRAK+AV S D 
Sbjct: 184 YAIKPESKGPQLFLTRAKPVMLEELFKLEVPEIGEDVIEIKGASRDPGSRAKIAVKSHDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAISNELGGERVDIVLWDDNPAQFVINAMAPAEVSAIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T E+     Q + N+    F+ A+
Sbjct: 304 AMDIAVEGKNLAQAIGRNGQNVRLATQLTGWTLNVMTTEDLDKKHQAEDNKVISLFVSAL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLEGIDITLQ 425
            +D+  A LLV EGF+ +EE+A + +SE+ +I+G  DE  A E+Q RA+  +    +  +
Sbjct: 364 EIDDEFAQLLVDEGFSSLEEIAFIPVSELTAIDGIEDENLAEELQTRAKNAITAKALAEE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           + +++  + + L ++ G+D  I   L E GI T+E+LA  + DDL
Sbjct: 424 EALKQAHIEDRLLNLEGLDRHIAFKLAEKGITTLEELAEQATDDL 468


>gi|148976708|ref|ZP_01813395.1| transcription elongation factor NusA [Vibrionales bacterium SWAT-3]
 gi|145964059|gb|EDK29317.1| transcription elongation factor NusA [Vibrionales bacterium SWAT-3]
          Length = 495

 Score =  384 bits (986), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 197/466 (42%), Positives = 309/466 (66%), Gaps = 1/466 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +       ++RVEI+ +TGD   FR  E
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALEIALATATKKKSELEIEVRVEIDRKTGDFETFRRWE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VE VEN T +ISL+ A+  DP I++GG + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  AVEVVENPTKEISLEAAKYDDPEIELGGFIEDDIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  GE+++G VK+V    +I+DLGN ++ VI RD+ + REN RPGDRV+  +
Sbjct: 124 AQIVEQFIDNEGELVTGVVKKVNRDTIILDLGNNAEAVILRDDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V+ E RG Q+ ++R+ P+ + +LF +EVPEI   ++++K  +RD GSRAK+AV ++D 
Sbjct: 184 YAVKPEARGFQLFITRSKPEMLAELFRVEVPEIGEELIELKGAARDAGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDEDAH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T E+     Q++     + FM+ +
Sbjct: 304 SMDIAVEADNLAQAIGRSGQNVRLASQLTGWELNVMTVEDLQKKHQEEAVASIENFMKHL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           +++E  A LLV EGF+ +EE+A V ++E+  ++G DE    E++ RA++ L  + +  ++
Sbjct: 364 DIEEDFAQLLVEEGFSTLEEVAYVPVNELLEVDGLDEGIVEELRNRAKDALTTLALAKEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG 472
               +  +E+L ++ G++ ++   L   G+ T+EDLA   VD+L G
Sbjct: 424 TFDGVEPAEDLLALEGLEREMAYKLAAKGVATLEDLADQGVDELEG 469


>gi|82545591|ref|YP_409538.1| transcription elongation factor NusA [Shigella boydii Sb227]
 gi|187731710|ref|YP_001881914.1| transcription elongation factor NusA [Shigella boydii CDC 3083-94]
 gi|81247002|gb|ABB67710.1| NusA [Shigella boydii Sb227]
 gi|187428702|gb|ACD07976.1| transcription termination/antitermination factor NusA [Shigella
           boydii CDC 3083-94]
 gi|320175533|gb|EFW50629.1| Transcription termination protein NusA [Shigella dysenteriae CDC
           74-1112]
 gi|320186658|gb|EFW61382.1| Transcription termination protein NusA [Shigella flexneri CDC
           796-83]
 gi|332090718|gb|EGI95812.1| transcription elongation protein nusA [Shigella boydii 3594-74]
          Length = 495

 Score =  384 bits (985), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 202/478 (42%), Positives = 311/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVDEVTQPTKEITLEAARYEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F++  GEII+G VK+V   N+ ++LGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AMVVDQFREHEGEIITGVVKKVNRDNISLELGNNAEAVILREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L  I    ++
Sbjct: 364 DIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALATIAQAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +++L ++ GID  +   L   G+ T+EDLA   +DDL    G ++ K G +
Sbjct: 424 SLGDNKPADDLLNLEGIDRDLAFKLAARGVCTLEDLAEQGIDDLADIEGVTDEKAGAL 481


>gi|311277858|ref|YP_003940089.1| NusA antitermination factor [Enterobacter cloacae SCF1]
 gi|308747053|gb|ADO46805.1| NusA antitermination factor [Enterobacter cloacae SCF1]
          Length = 500

 Score =  384 bits (985), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 197/469 (42%), Positives = 307/469 (65%), Gaps = 6/469 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEEVTQPTKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPGDR 181
                +F+D+ GEI++G VK+V   N+ +++      GN++ VI R++ + REN RPGDR
Sbjct: 124 AMVVDQFRDQEGEIVTGMVKKVNRDNISLEIKSEGMAGNAEAVILREDMLPRENFRPGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++  +Y VR E RG Q+ ++R+ P+ +V+LF +EVPEI   ++++KA +RDPGSRAK+AV
Sbjct: 184 IRGVLYAVRPEARGAQLFVTRSKPEMLVELFRIEVPEIGEEVIEIKAAARDPGSRAKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+
Sbjct: 244 KTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVV 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     
Sbjct: 304 DEDKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDT 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + +++DE  A +LV EGF+ +EELA V + E+  I+G DE+T   ++ RA+  L  + 
Sbjct: 364 FTKYLDIDEEFATVLVEEGFSSLEELAYVPMKELLEIDGLDEDTVEALRERAKNALTTLA 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           +  ++ +     +++L ++ G+D  +   L   G+ T+EDLA   VDDL
Sbjct: 424 LAQEESLGNNKPADDLLNLEGLDRAMAFKLAARGVCTLEDLAEQGVDDL 472


>gi|238787593|ref|ZP_04631391.1| Transcription termination factor NusA [Yersinia frederiksenii ATCC
           33641]
 gi|238724380|gb|EEQ16022.1| Transcription termination factor NusA [Yersinia frederiksenii ATCC
           33641]
          Length = 495

 Score =  384 bits (985), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 197/478 (41%), Positives = 311/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RV I+ +TGD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIEVRVSIDRKTGDFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            V EV   T +I++  A+  DPS+ +G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  AVNEVTMPTREITIDAAQFEDPSLQLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F+  +GEI++GTVK+V   ++ +DLGN ++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVEQFRQYLGEIVTGTVKKVNRDSIALDLGNNAEAVIGREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           YDVR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YDVRPEARGAQLFVSRSRPEMLIELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            ++V V    L+ AIGR GQNVRLA+QL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDVAVEASNLAQAIGRNGQNVRLAAQLSGWELNVMTADDLQAKHQAEAHAAIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V + E+  I+G DE+T   ++ RA+  L  + +  ++
Sbjct: 364 DIDEDFATVLVEEGFSSLEELAYVPMKELLEIDGLDEDTVEALRDRAKAALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +++L ++ G++  +   L   G+ T+EDLA   +DDL    G S+ + G +
Sbjct: 424 SLGDQKPADDLLNLAGLERSMAFKLAARGVCTLEDLAEQGIDDLADIEGLSDEQAGEL 481


>gi|261212247|ref|ZP_05926533.1| transcription termination protein NusA [Vibrio sp. RC341]
 gi|260838855|gb|EEX65506.1| transcription termination protein NusA [Vibrio sp. RC341]
          Length = 495

 Score =  384 bits (985), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 199/478 (41%), Positives = 311/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG    FR   
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALETALATSTKKKYEIEIDVRVAIDRKTGAFETFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE+ T +IS + A   D S+ +G  + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVENVEHPTKEISFEAANFDDESVQMGDYIEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  GE+++G VK+V    VI+DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AQIVEQFIDNEGELVTGVVKKVNRETVILDLGNNAEAVILREDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YKVAPEARGFQLFITRSKPEMLTELFRVEVPEIGEELIELKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIMDEDTH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +     Q++     + FM+ +
Sbjct: 304 SMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADLQKKHQEESMASIENFMKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++++  A LLV EGF+ +EE+A V ++E+  ++G DE+ A E++ RA+E L  I +  ++
Sbjct: 364 DIEQDFAELLVEEGFSTLEEIAYVPMNELLDVDGMDEDLAEELRSRAKEALTTIALAKEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL---LGWSENKGGNI 481
               L  +E+L ++ G++ ++   L   G+ T+EDLA   VDDL    G +E + G +
Sbjct: 424 SFEGLEPAEDLLALAGLEREMAFKLAAKGVATLEDLADQGVDDLEGIEGLTEQRAGEL 481


>gi|52425500|ref|YP_088637.1| transcription elongation factor NusA [Mannheimia succiniciproducens
           MBEL55E]
 gi|52307552|gb|AAU38052.1| NusA protein [Mannheimia succiniciproducens MBEL55E]
          Length = 501

 Score =  384 bits (985), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 202/471 (42%), Positives = 308/471 (65%), Gaps = 8/471 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + R+ +   +  +I  + +  Y    D+RV IN +TG+   FR   
Sbjct: 4   EILLAAEAVSNEKLLPREKIFEALESAIALSTKKKYEQEIDVRVAINQKTGEFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV N T +I+L+ A+  DP I +G  V D +  + F R+ +Q+A+QVI  K+REAER
Sbjct: 64  VVDEVVNPTKEITLEAAQFEDPDIQLGDYVEDQIDSVAFDRITMQTARQVISTKIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GN------SDGVIRRDETISRENLRPGD 180
           ++   +F+ + G+I++GTVK+V   ++I+DL GN      ++ VI R++ + REN RPGD
Sbjct: 124 NKVVEQFRSEEGKIVTGTVKKVTRDSIILDLTGNKEDPAKAEAVITREDMLPRENFRPGD 183

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV+  +Y V  E +G Q+ ++R  P  + +LF +EVPEI   ++++K  SRD G RAK+A
Sbjct: 184 RVRGVLYKVNPESKGAQLFVTRAKPVMLEELFRLEVPEIGEELIEIKGASRDAGLRAKIA 243

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDPVGACVGMRGSRVQA+  EL  E++DIV+W  + A FVINA+ PA V  +V
Sbjct: 244 VKSNDKRIDPVGACVGMRGSRVQAITNELGGERVDIVLWDDNPAQFVINAMAPADVNSIV 303

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V +E L+ AIGR GQNVRLA+QLTGWT++++T EE     Q + N+   
Sbjct: 304 VDEDNHSMDIAVEQENLAQAIGRNGQNVRLATQLTGWTLNVMTTEELQQKHQAEDNKVLN 363

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV-EIQGRAREYLEG 419
            FM ++ +DE  A LL+ EGF+ +EELA V +SE+ +I+G ++E  V E+Q RA++ L  
Sbjct: 364 LFMTSLELDEDFAQLLIDEGFSSLEELAYVPVSELTAIDGLEDEDLVEELQNRAKDALTA 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
             +  ++ +++  V + L ++ G++  I   L E  IKT+E+LA   VDDL
Sbjct: 424 KAVAEEEALKQAEVEDRLLNLEGMERHIAFRLAEKNIKTLEELAEQGVDDL 474


>gi|238783516|ref|ZP_04627538.1| Transcription termination factor NusA [Yersinia bercovieri ATCC
           43970]
 gi|238797553|ref|ZP_04641050.1| Transcription termination factor NusA [Yersinia mollaretii ATCC
           43969]
 gi|238715571|gb|EEQ07561.1| Transcription termination factor NusA [Yersinia bercovieri ATCC
           43970]
 gi|238718550|gb|EEQ10369.1| Transcription termination factor NusA [Yersinia mollaretii ATCC
           43969]
          Length = 495

 Score =  384 bits (985), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 197/478 (41%), Positives = 311/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RV I+ +TGD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIEVRVSIDRKTGDFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            V EV   T +I+L+ A+  DPS+ +G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  AVNEVTMPTREITLEAAQYEDPSLQLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F+  +GEI++G VK+V   ++ +DLGN ++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVEQFRQYLGEIVTGIVKKVNRDSIALDLGNNAEAVIGREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           YDVR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YDVRPEARGAQLFVSRSRPEMLIELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDRH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            ++V V    L+ AIGR GQNVRLA+QL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDVAVEASNLAQAIGRNGQNVRLAAQLSGWELNVMTADDLQAKHQAEAHAAIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V + E+  I+G DE+T   ++ RA+  L  + +  ++
Sbjct: 364 DIDEDFATVLVEEGFSSLEELAYVPMKELLEIDGLDEDTVEALRDRAKAALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +++L ++ G++  +   L   G+ T+EDLA   +DDL    G S+ + G +
Sbjct: 424 SLGDQKPADDLLNLAGLERSMAFKLAARGVCTLEDLAEQGIDDLADIEGLSDEQAGEL 481


>gi|262274884|ref|ZP_06052695.1| transcription termination protein NusA [Grimontia hollisae CIP
           101886]
 gi|262221447|gb|EEY72761.1| transcription termination protein NusA [Grimontia hollisae CIP
           101886]
          Length = 495

 Score =  383 bits (984), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 203/478 (42%), Positives = 309/478 (64%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TG+   FR   
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALETALATATKKKYDADIDVRVAIDRKTGEFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV   T +I+L+ A+  D ++++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVEEVTLPTREITLEAAQFDDETLELGSYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F +  GE+I+G VK+V    VIVDLGN ++  I+RD+ + REN RPGDRV+  +
Sbjct: 124 AQVVEQFMENEGELITGVVKKVNRDVVIVDLGNNAEAAIQRDDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   +++V   +RDPGSRAK+AV ++D 
Sbjct: 184 YAVRPEARGFQLFMTRSKPEMLIELFRIEVPEIGEEMIEVMGAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDEDTH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T ++     Q++  +  + F + +
Sbjct: 304 TMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVQDLQKKHQEEAGQSIELFSKHL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF  +EE+A V  +E+  I G DE+T  E++ RA+E L  I +  ++
Sbjct: 364 DIDEDFAAVLVEEGFTTLEEVAYVPAAELLEINGLDEDTVEELRSRAKEALTTIALAKEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            +     +E+L  + G++  +   L   GI T+EDLA    DDLL   G  E K G +
Sbjct: 424 ILEGAEPAEDLLGLEGLERDLAFRLAAKGICTLEDLADQGTDDLLDIEGMDEVKAGEL 481


>gi|157148740|ref|YP_001456059.1| transcription elongation factor NusA [Citrobacter koseri ATCC
           BAA-895]
 gi|157085945|gb|ABV15623.1| hypothetical protein CKO_04570 [Citrobacter koseri ATCC BAA-895]
          Length = 495

 Score =  383 bits (984), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 199/478 (41%), Positives = 311/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEEVTLPTKEITLEAARFEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
                +F++  GEII+G VK+V   N+ +DLG N++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDQFREHEGEIITGVVKKVNRDNISLDLGSNAEAVILREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLA+QL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLAAQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGFA +EELA V + E+  I+G DE T   ++ RA+  L  + +  ++
Sbjct: 364 DIDEEFATVLVEEGFATLEELAYVPMKELLEIDGLDEPTVEALRERAKNALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   S++L ++ G+   +   L   G+ T+EDLA   +DDL    G ++ K G +
Sbjct: 424 SLGDNKPSDDLLNLEGLGRDLAFKLAARGVCTLEDLAEQGIDDLADIEGLTDEKAGEL 481


>gi|241764251|ref|ZP_04762282.1| NusA antitermination factor [Acidovorax delafieldii 2AN]
 gi|241366374|gb|EER60896.1| NusA antitermination factor [Acidovorax delafieldii 2AN]
          Length = 494

 Score =  383 bits (984), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 199/469 (42%), Positives = 317/469 (67%), Gaps = 6/469 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           NR ELL + +A++ EK+++RDVVL  +  ++ +A + LY    DIRV ++ ++G+   FR
Sbjct: 2   NR-ELLMLVEAISREKNVERDVVLGAVESALAQATKKLYQGEVDIRVSVDRDSGNYETFR 60

Query: 65  LLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
              VV +   ++N   +  L  AR+R P +++G  + + +  +  GR+   +AKQVI+QK
Sbjct: 61  RWLVVPDDAGLQNPDAEELLMDARERVPDVEVGEYIEEAIESVPIGRIGAMAAKQVILQK 120

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+    +F  +  +I +GTVKR++ G++IV+ G  +G +RR E I +ENLR GDR
Sbjct: 121 IRDAEREMLLNDFMSRGEKIFTGTVKRMDKGDIIVESGRVEGRLRRGEMIPKENLRSGDR 180

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I +V    RG  ++LSR+ P+FM++LF  EVPEI  G++++K+ +RDPGSRAK+AV
Sbjct: 181 VRAMIMEVDLTLRGAPIILSRSAPEFMIELFRNEVPEIEQGLLEIKSCARDPGSRAKIAV 240

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  +DP+G CVG+RG+RV AV  EL  E++DIV+WS D A FVI AL PA V+ +V+
Sbjct: 241 LSHDKRVDPIGTCVGVRGTRVNAVTNELAGERVDIVLWSEDPAQFVIGALAPANVSSIVV 300

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+   ++V+V +E L++AIGR GQNVRLAS LTGW I+I+   E +  +  + +   + 
Sbjct: 301 DEEKHAMDVVVDEENLAIAIGRGGQNVRLASDLTGWKINIMDAAESAQKQANETDTARKL 360

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+ ++VDE IA +L++EGFA +EE+A V + E+  IE FDE+T  E++ RA++ L  ++
Sbjct: 361 FMEKLDVDEEIADILISEGFASLEEVAYVPLQEMLEIESFDEDTVNELRARAKDALLTME 420

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           I  ++ + E  VS++L  + G+  ++   L ENG+ T +DLA  ++D+L
Sbjct: 421 IAREESVGE--VSQDLRDLEGLTPELIAKLAENGVHTRDDLADLAIDEL 467


>gi|254507512|ref|ZP_05119646.1| transcription elongation factor NusA [Vibrio parahaemolyticus 16]
 gi|219549582|gb|EED26573.1| transcription elongation factor NusA [Vibrio parahaemolyticus 16]
          Length = 495

 Score =  383 bits (984), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 202/482 (41%), Positives = 312/482 (64%), Gaps = 12/482 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  + +  +    D+RVEI+ +TG+   FR   
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALEIALATSTKKKHEIEIDVRVEIDRKTGEFETFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVEN T +ISL+ A+  D  I +G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVEEVENPTKEISLEAAQYEDAEIQLGDFVEDDIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  GE+++G VK+V    V++DLGN ++ VI RD+ + REN RPGDRV+  +
Sbjct: 124 AQIVEQFIDNEGELVTGVVKKVNRETVVLDLGNNAEAVILRDDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   I+++K  +RDPGSRAK+AV ++D 
Sbjct: 184 YKVAPEARGFQLFITRSKPEMLAELFRVEVPEIAEEIIELKGAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDEDAH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ----FF 362
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T      + QK   E +Q     F
Sbjct: 304 SMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMT----VADLQKKHAEESQAAIDAF 359

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+ ++++E  A LLV EGF+ +EE+A V ++E+  ++G DE+   E++ RA+  L  + +
Sbjct: 360 MKHLDIEEDFAQLLVEEGFSTLEEVAYVPVNELLEVDGLDEDLVEELRNRAKNALTTLAL 419

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL---LGWSENKGG 479
             ++    +  +E+L  + G++ ++   L   G+ T+EDLA   +DDL    G +E + G
Sbjct: 420 AQEESFEGVEPAEDLLGLEGLEREMAFKLAAKGVATLEDLADQGIDDLEGIEGLTEERAG 479

Query: 480 NI 481
            +
Sbjct: 480 EL 481


>gi|134095611|ref|YP_001100686.1| transcription pausing; L factor [Herminiimonas arsenicoxydans]
 gi|133739514|emb|CAL62565.1| Transcription elongation protein nusA (N utilization substance
           protein A) (L factor) [Herminiimonas arsenicoxydans]
          Length = 519

 Score =  383 bits (984), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 202/466 (43%), Positives = 310/466 (66%), Gaps = 5/466 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+LQ+ DA+A EK++D D+V   +  ++ +A +  Y    DIRV I+ +TG+   FR   
Sbjct: 4   EILQLVDALAREKNVDPDIVFGALEHALAQATKKRYEGDVDIRVSIDRDTGEFESFRRWH 63

Query: 68  VVEEVENYTC---QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +         +I    A+++   I++   + +P+  ++FGR   Q  KQV++Q++R+
Sbjct: 64  VVPDDAGLQLPDQEILHFEAKEQIGDIEVDDHIEEPIESVEFGRRFAQDTKQVVLQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F ++   +++GT+KR+E G+ IV+ G  +  + RD+TI +ENLR GDRV++
Sbjct: 124 AEREQILADFLERGDSLVTGTIKRMERGDAIVESGRIEARLPRDQTIPKENLRIGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  + R  RGPQV+LSRT P+F++KLF +EVPEI  G++++K+ +RD G RAK+AVF+S
Sbjct: 184 YILRIDRNARGPQVILSRTAPEFIMKLFELEVPEIEQGLLEIKSAARDAGVRAKIAVFTS 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVGMRGSRVQAV  EL  E++DIV+WS D A FVI AL PA V+ +V+DE+
Sbjct: 244 DKRIDPIGTCVGMRGSRVQAVTGELGGERVDIVLWSEDPAQFVIGALAPANVSSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+T EE +   Q +       FM+
Sbjct: 304 KHAMDVVVDEENLAIAIGRGGQNVRLASELTGWQINIMTAEESADKSQLETAATRILFME 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VD+ +A +LV EGFA +EE+A V I E+  IE FDE+T  E++ RAR+ L    I  
Sbjct: 364 KLDVDQEVADILVDEGFASLEEIAYVPIGEMLDIESFDEDTVNELRNRARDALVTEAIAS 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           ++ +   G+ E L ++ G+D  +   LG  G+KT++  AG + D+ 
Sbjct: 424 EEGME--GMDEALANLEGMDRIVAGKLGLAGVKTLDAFAGLAYDEF 467


>gi|161506147|ref|YP_001573259.1| transcription elongation factor NusA [Salmonella enterica subsp.
           arizonae serovar 62:z4,z23:-- str. RSK2980]
 gi|160867494|gb|ABX24117.1| hypothetical protein SARI_04337 [Salmonella enterica subsp.
           arizonae serovar 62:z4,z23:--]
          Length = 500

 Score =  383 bits (983), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 198/483 (40%), Positives = 313/483 (64%), Gaps = 9/483 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEEVTMPTKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPGDR 181
                +F+D+ GEI++G VK+V   N+ +++      GN++ VI R++ + REN RPGDR
Sbjct: 124 AMVVDQFRDQEGEIVTGVVKKVNRDNISLEIKSEGMAGNAEAVILREDMLPRENFRPGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++  +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV
Sbjct: 184 IRGVLYAVRPEARGAQLFVTRSRPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+
Sbjct: 244 KTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVV 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +   + 
Sbjct: 304 DEDKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAETHAAIEI 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  + 
Sbjct: 364 FTKHLDIDEEFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALATLA 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKG 478
              ++ + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL    G ++ K 
Sbjct: 424 QAQEESLGDNKPADDLLNLEGLDRDMAFKLAARGVCTLEDLADQGIDDLADIEGLTDEKA 483

Query: 479 GNI 481
           G +
Sbjct: 484 GEL 486


>gi|119774097|ref|YP_926837.1| transcription elongation factor NusA [Shewanella amazonensis SB2B]
 gi|119766597|gb|ABL99167.1| NusA antitermination factor [Shewanella amazonensis SB2B]
          Length = 499

 Score =  383 bits (983), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 200/467 (42%), Positives = 308/467 (65%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR   
Sbjct: 4   EILLVAEAVSNEKAVPREKIFEALETALATATKKKYEGDIDVRVAIDRKTGDYETFRRWM 63

Query: 68  VVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           VVE+    +EN   +I+L+ A+  +P I +G  + D +  + F R+  Q+AKQVI+QKVR
Sbjct: 64  VVEDNGEALENPYREITLEAAQYENPEIQVGEFIEDEIESVVFDRITTQTAKQVIVQKVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +   +F DK GEII+G VK+    +VIVDLGN +DGV+ +++ I+RE+ RPGDRV
Sbjct: 124 EAERAQVVEQFYDKEGEIITGVVKKSNRDSVIVDLGNNADGVLYKEDLIARESFRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ +Y VR E RG Q+ L+RT P+ +++LF +EVPEI + ++QV   +RDPGSRAK+AV 
Sbjct: 184 RALLYAVRPEARGAQLYLTRTKPEMLIELFRVEVPEIADEMIQVMGAARDPGSRAKIAVK 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 244 SNDRRIDPIGACVGMRGARVQAVSNELGGERVDIVLWDDNPAQFVINAMAPADVASIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLA+QLTGW ++++T  + +   Q +  +    F
Sbjct: 304 EDNHSMDIAVEADSLAQAIGRNGQNVRLATQLTGWELNVMTVADMNAKHQAESAKVVALF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M +++VDE  A +L  EGF  +EE+A V ++E+ +I+GFDE+    ++ RA+  +    +
Sbjct: 364 MASLDVDEDFAQVLADEGFTSLEEVAYVPVAELLAIDGFDEDIVEALRERAKAAISTRAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDD 469
             ++ +     SEEL ++ G+D  +   L   G+ T+EDLA   +DD
Sbjct: 424 ASEEALDGAEPSEELLNLEGMDRHLAFVLASRGVVTLEDLAEQGIDD 470


>gi|239997162|ref|ZP_04717686.1| transcription elongation factor NusA [Alteromonas macleodii ATCC
           27126]
          Length = 498

 Score =  383 bits (983), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 198/467 (42%), Positives = 302/467 (64%), Gaps = 4/467 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK + R+ +   +  +I  A +       ++RV I+  +GD   FR   
Sbjct: 4   EILLVAEAVSNEKQVPREKIFEALEFAIASATKKKNEGEIEVRVSIDRTSGDFDTFRRWL 63

Query: 68  VV---EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           V+   +E EN   +I++  A+  +P I +G  V + +  + F R+  Q+AKQVI+QKVRE
Sbjct: 64  VIPDDQEQENPFAEITISAAQIDEPEIQLGDYVEEQIESIKFDRITTQTAKQVIVQKVRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVK 183
           AER +   E++DKVGE+++GTVK+V   N+I+DLGN ++GVI RD+ + RE  RPGDRV+
Sbjct: 124 AERQQMIAEYEDKVGELVTGTVKKVNRDNIIIDLGNNAEGVIYRDDMLPRETFRPGDRVR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
             +Y +R E RG Q+ +SRTHP  +V+LF +EVPEI    +++K+ +RDPGSRAK+AV +
Sbjct: 184 GLLYVIRPEARGAQLFISRTHPDMLVELFRLEVPEIAEETLEIKSAARDPGSRAKIAVKT 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  +DPVGACVGMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +V+DE
Sbjct: 244 NDKRLDPVGACVGMRGSRVQAVSGELGGERVDIVLWDENPAQFVINAMAPAEVASIVVDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   ++V V  + L+ AIGR GQNVRLASQLTGW ++++T E+ +   +++  +    F 
Sbjct: 304 DSNSMDVAVEADNLAQAIGRSGQNVRLASQLTGWELNVMTVEDLNKKHEEENAKVLDLFT 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
             +++DE  A +LV EGF  +EE+A V  SE+ ++EG DEE   E++ RAR +L    + 
Sbjct: 364 AGLDIDEEFASVLVDEGFTTLEEVAYVPASELLAVEGLDEEMVEELRNRARAFLTTRALA 423

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
            ++ +     +E L ++ G+   +   L   G+  +E+LA    DD+
Sbjct: 424 NEESLEGAEPTEALLNLEGMSKHVAYVLASRGVTDLEELAEQGTDDI 470


>gi|221134838|ref|ZP_03561141.1| transcription elongation factor NusA [Glaciecola sp. HTCC2999]
          Length = 494

 Score =  383 bits (983), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 204/481 (42%), Positives = 310/481 (64%), Gaps = 10/481 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK + ++ +   +  ++  A +       ++RV I+  TGD   FR   
Sbjct: 4   EILLVAEAVSNEKQVPKEKIFEALEFALSTATKKKNEGEIEVRVAIDRATGDFDTFRQWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           V+ +    EN   ++++  A+  +P I IG  V + +  + F R+  Q+AKQVI QKVRE
Sbjct: 64  VIPDDQVQENPYAEMTISAAQIDEPEIQIGDFVEEQIESIKFDRITTQTAKQVIFQKVRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVK 183
           AER +   E++D+VGE+++GTVK+V   NVI+DLGN ++GVI RD+ + REN RPGDRV+
Sbjct: 124 AERAQMIAEYEDRVGELVTGTVKKVNRDNVIIDLGNNAEGVIYRDDMLPRENFRPGDRVR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
             +Y +R E RG Q+ +SRTHP  +V+LF +EVPEI    +++K+ +RDPGSRAK+AV +
Sbjct: 184 GLLYVIRPEARGAQLFISRTHPDMIVELFRLEVPEIAEETLEIKSAARDPGSRAKIAVKT 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  +DPVGACVGMRGSRVQAV +EL  E++DIV+W  ++  FVINA+ PA V  +V DE
Sbjct: 244 NDKRLDPVGACVGMRGSRVQAVSSELGGERVDIVLWDEEAPQFVINAMAPAEVASIVADE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   ++V V  + L+ AIG+ GQNVRLASQLTGW ++++T E+    +Q +  +    F+
Sbjct: 304 DTMTMDVAVEPDNLAQAIGKSGQNVRLASQLTGWELNVMTIEDLEKKQQDESAQIIDVFV 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
             +++DE  A +L +EGF  +EE+A V +SE+  IEG DE+   E++ RAR YL    + 
Sbjct: 364 TGLDIDEEFAGVLASEGFTSLEEIAYVPVSELLEIEGLDEDIIEELRNRARAYLTTKALA 423

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVD---DLLGWSENKGGN 480
            ++    L   EEL ++ G+ ++I VAL + G+  +E+LA    D   D+ G  E   G+
Sbjct: 424 DEES---LEPKEELLNLAGMTNEIAVALAKQGVTDLEELAEQGTDEICDIEGLDEKSAGD 480

Query: 481 I 481
            
Sbjct: 481 F 481


>gi|188532503|ref|YP_001906300.1| transcription elongation factor NusA [Erwinia tasmaniensis Et1/99]
 gi|188027545|emb|CAO95392.1| Transcription elongation protein NusA (N utilization substance
           protein A) [Erwinia tasmaniensis Et1/99]
          Length = 501

 Score =  383 bits (983), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 202/484 (41%), Positives = 312/484 (64%), Gaps = 10/484 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALESALATATKKKYEQEIDVRVSIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +V+EV   T +I+L+ A   D S  +GG V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVDEVTQPTREITLEAALYEDESFSLGGFVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-------VIRRDETISRENLRPGD 180
                +F+++ GEII+G VK+V   N+ +++  +DG       VI R++ + REN RPGD
Sbjct: 124 AMVVDQFREQEGEIITGVVKKVSRDNISLEVRPNDGSSTNAEAVIIREDMLPRENFRPGD 183

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R++  +Y VR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+A
Sbjct: 184 RIRGVLYAVRPEARGAQLFVSRSKPEMLIELFRIEVPEIAEEVLEIKAAARDPGSRAKIA 243

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V ++D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V
Sbjct: 244 VKTNDKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIV 303

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +    
Sbjct: 304 VDEDNHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAID 363

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F + +++DE  A LLV EGF+ +EELA V I+E+  I+G DEET   ++ RA+  L  +
Sbjct: 364 VFTKHLDIDEDFATLLVEEGFSSLEELAYVPINELLEIDGLDEETVEALRDRAKNALTTL 423

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENK 477
            +  ++ + +   +E+L S+ G++ ++   L   G+ T+EDLA   VDDL    G S+ +
Sbjct: 424 ALAKEESLGDTQPAEDLLSLEGLERELAFKLAAKGVCTLEDLAEQGVDDLSDIEGLSDER 483

Query: 478 GGNI 481
            G +
Sbjct: 484 AGEL 487


>gi|120556256|ref|YP_960607.1| transcription elongation factor NusA [Marinobacter aquaeolei VT8]
 gi|120326105|gb|ABM20420.1| NusA antitermination factor [Marinobacter aquaeolei VT8]
          Length = 497

 Score =  383 bits (983), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 200/481 (41%), Positives = 319/481 (66%), Gaps = 7/481 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFRLL 66
           E+L + ++V+ EK +++DV+   +  ++  AA+  Y    +DIRV I+  TG+   FR  
Sbjct: 4   EILLVVESVSNEKGVEKDVIFEAIELALATAAKKRYEDEEADIRVAIDRRTGEYETFRRW 63

Query: 67  EVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
            VV+   V     +++L+ A + D ++  G +  + +  + FGR+  Q+AKQ+I QKVRE
Sbjct: 64  LVVDNDAVPALGTELTLQEAEEIDTNLKPGDMYEEKVESVAFGRIGAQAAKQIIFQKVRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVK 183
           AER +    ++D++GE++SGTVK+V   NVIVDLG N++ ++ R+  I RE  R GDRV+
Sbjct: 124 AERMKIVDSYRDRIGELVSGTVKKVTRDNVIVDLGGNAEALLPREHLIPRETFRMGDRVR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           + + ++R + RGPQ++LSRT  Q +++LF +EVPEI   +++++  +RDPGSRAK+AV +
Sbjct: 184 ALLLEIRTDHRGPQLILSRTDSQMLIELFRIEVPEIAEELIEIRGAARDPGSRAKIAVKT 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  IDPVGACVGMRGSRVQAV  EL  E++DIV++  + A  VINA+ PA V  +V+DE
Sbjct: 244 NDRRIDPVGACVGMRGSRVQAVSNELGGERVDIVLYDDNPAQLVINAMAPAEVASIVMDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   ++V V ++ L+ AIGR GQNVRLA++LTGWT++++TEEE    +++++N   + F 
Sbjct: 304 DRHTMDVAVAEDNLAQAIGRNGQNVRLATELTGWTLNVMTEEEAGERQEQEYNRLLEHFT 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
             ++VDE  A +L+ EGF  +EE+A V + E+ +IEGFDEET  E++ RA++ L    + 
Sbjct: 364 AHLDVDEEFAGVLIEEGFTSIEEVAYVPMEEMLAIEGFDEETVTELRRRAKDVLLNQALA 423

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGN 480
            ++ +      ++L ++ G+D  +   L   G++TMEDLA  S+D+LL   G  E + G 
Sbjct: 424 SEEALEGAEPEDDLLNMDGMDRALAFKLAGMGVRTMEDLAEQSIDELLEIEGMDEERAGQ 483

Query: 481 I 481
           +
Sbjct: 484 L 484


>gi|254516618|ref|ZP_05128677.1| N utilization substance protein A [gamma proteobacterium NOR5-3]
 gi|219675041|gb|EED31408.1| N utilization substance protein A [gamma proteobacterium NOR5-3]
          Length = 497

 Score =  382 bits (982), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 206/470 (43%), Positives = 315/470 (67%), Gaps = 9/470 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK +  D++   +  ++  A +  Y   +DI V I+ ETGD    R   
Sbjct: 4   EILLVAEAVSNEKGVSEDIIFEAIESALAMATKKRYDEDADIEVTIDRETGDYETVRRWL 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV  +E+     Q + + A ++DPS+  G V  + +  + FGR+A Q+AKQVI+QKVR+A
Sbjct: 64  VVPDDEMALLGTQFTTEEAIEQDPSLKPGDVYQEQVENVGFGRIAAQTAKQVIVQKVRDA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +++ +VGE+I+GTVK+V   NVIVDLGN ++G++ R++ + RE  R  DRV++
Sbjct: 124 ERAQVVEQYESRVGELIAGTVKKVTRDNVIVDLGNNAEGLLPREQLVGRETFRINDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + ++  E RGPQ++LSR  P+ +++LF +EVPEI   ++Q+++ +RDPGSRAK+AV ++
Sbjct: 184 ILKEISTETRGPQLILSRACPEMLIELFKIEVPEISEEVIQIRSAARDPGSRAKIAVKTN 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRGSRVQAV  EL +E++DIV+W  + A  VINA+ PA V  +V+DE+
Sbjct: 244 DQRIDPVGACVGMRGSRVQAVSNELDNERVDIVLWDDNPAQLVINAMSPAEVESIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V V ++ L+ AIGR GQNVRLAS+LTGWTI++++ +E    ++ +  +  Q FM 
Sbjct: 304 SNTMDVAVAEDNLAQAIGRAGQNVRLASELTGWTINVMSVDEAVEKQEAEAGQVIQTFMD 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +LV EGF  +EE+A V I E+ SI+GFDE+ A E++ RA++ L  + I  
Sbjct: 364 KLDVDEDVAGILVDEGFTTLEEVAYVPIDEMTSIDGFDEDIAEELRARAKDALLTLAIAS 423

Query: 425 QKKIRELGVSE---ELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++   ELG  E   +L  + G+D  +   L   GI TMEDLA   VD+L+
Sbjct: 424 EE---ELGAQEPAADLLGMDGMDRHLAFILSSRGIVTMEDLAEQGVDELM 470


>gi|262189773|ref|ZP_06048124.1| transcription termination protein NusA [Vibrio cholerae CT 5369-93]
 gi|262034350|gb|EEY52739.1| transcription termination protein NusA [Vibrio cholerae CT 5369-93]
          Length = 504

 Score =  382 bits (982), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 199/478 (41%), Positives = 310/478 (64%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG    FR   
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALETALATSTKKKYEIEIDVRVAIDRKTGAFETFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE+ T +IS + A   D S+ +G  + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVENVEHPTKEISFEAASFDDDSVQLGDYIEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  GE+++G VK+V    VI+DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AQIVEQFIDNEGELVTGVVKKVNRETVILDLGNNAEAVILREDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YKVAPEARGFQLFITRSKPEMLAELFRVEVPEIGEELIELKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIMDEDAH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +     Q++     + FM+ +
Sbjct: 304 SMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADLQKKHQEESMASIENFMKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++++  A LLV EGF+ +EE+A V ++E+  ++G DE+ A E++ RA+E L  I +  ++
Sbjct: 364 DIEQDFAELLVEEGFSTLEEIAYVPMNELLDVDGMDEDLADELRSRAKEALTTIALAKEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL---LGWSENKGGNI 481
               L  +E+L ++ G++  +   L   G+ T+EDLA   VDDL    G +E + G +
Sbjct: 424 SFEGLEPAEDLLALAGLERDMAFKLAAKGVATLEDLADQGVDDLEGIEGLTEQRAGEL 481


>gi|229592637|ref|YP_002874756.1| transcription elongation factor NusA [Pseudomonas fluorescens
           SBW25]
 gi|229364503|emb|CAY52353.1| transcription termination factor [Pseudomonas fluorescens SBW25]
          Length = 493

 Score =  382 bits (982), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 202/467 (43%), Positives = 309/467 (66%), Gaps = 13/467 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + ++V+ EK +  +V+   +  ++  A +  +    D+RVEIN  TG    FR   
Sbjct: 4   EVLLVVESVSNEKGVPANVIFEALELALATATKKRFEDEVDLRVEINRHTGAYETFRRWT 63

Query: 68  VVEE-------VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           VVEE       +E +  +++     +  P   +G VV + +  ++FGR+A Q+AKQVI+Q
Sbjct: 64  VVEEADLDDPAIETWPSKVA-----ETHPGAQVGDVVEEKIESIEFGRIAAQTAKQVIVQ 118

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPG 179
           KVREAER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G
Sbjct: 119 KVREAERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVG 178

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
            R+++ + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+
Sbjct: 179 VRLRALLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKI 238

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +
Sbjct: 239 AVRSKDKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAI 298

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           ++DED   +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  
Sbjct: 299 IVDEDAHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDIL 358

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + F+  + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+T  E++ RA++ L  
Sbjct: 359 RNFIDELEVDEDLAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDTVNELRARAKDRLLT 418

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
             I  ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S
Sbjct: 419 KAIATEEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLAEQS 465


>gi|188577681|ref|YP_001914610.1| transcription elongation factor NusA [Xanthomonas oryzae pv. oryzae
           PXO99A]
 gi|188522133|gb|ACD60078.1| N utilization substance protein A [Xanthomonas oryzae pv. oryzae
           PXO99A]
          Length = 495

 Score =  382 bits (982), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 199/466 (42%), Positives = 312/466 (66%), Gaps = 5/466 (1%)

Query: 14  DAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI-RVEINPETGDISLFRLLEVVEE- 71
           DAVA EK + R+V+   +  ++  AA+  Y     + RV I+ + G    +R  EVV + 
Sbjct: 2   DAVANEKGVPREVIFDAIEAALASAAKKRYPDQDVLARVTIDHKDGTYETYRRWEVVADD 61

Query: 72  --VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
             +E+   Q+ L  A D    +D+G  + + +   DFGR+A Q+AKQVI+Q+VREAER +
Sbjct: 62  VVMESPDRQVRLMDAIDEADGVDVGDYIEEQIENPDFGRIAAQAAKQVIVQRVREAERQQ 121

Query: 130 QYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYD 188
               +KD+VGE+I+G VKR E GN+ VDLG N++  I +D+ I R+ LRPGDRV+ Y+ +
Sbjct: 122 VVDAWKDRVGELITGVVKRAERGNIFVDLGGNAEAFIPKDKGIPRDVLRPGDRVRGYLAE 181

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++ A +RDPG RAK+AV + D+  
Sbjct: 182 VRSEPRGPQLFISRAAPEFMIELFKLEVPEVGQGLVEINACARDPGDRAKIAVIAHDART 241

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI 308
           DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  +++DED   +
Sbjct: 242 DPIGACIGMRGSRVQAVSNELNGERVDIVLWNENPANFVINAMAPAEVQSIIVDEDKHSM 301

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINV 368
           ++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T ++ +   + +     Q FM  + V
Sbjct: 302 DLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTADQVAAKSEAEQAAARQLFMDRLEV 361

Query: 369 DEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKI 428
           DE I+ +LV+EGF  VEE+A V + E+ ++EGFDE+   E++ RAR+ L    +  ++ +
Sbjct: 362 DEEISAILVSEGFNTVEEIAYVPVGELLAVEGFDEDIVEELRARARDALLNAALAEEEGL 421

Query: 429 RELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWS 474
                +E+L ++ G+D +  VAL E+G++T EDL+  + D+++ + 
Sbjct: 422 EGTQPTEDLLALEGMDEETAVALAEHGVRTSEDLSDLAADEIVDFG 467


>gi|269103408|ref|ZP_06156105.1| transcription termination protein NusA [Photobacterium damselae
           subsp. damselae CIP 102761]
 gi|268163306|gb|EEZ41802.1| transcription termination protein NusA [Photobacterium damselae
           subsp. damselae CIP 102761]
          Length = 494

 Score =  382 bits (982), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 201/478 (42%), Positives = 311/478 (65%), Gaps = 5/478 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TG+   FR  +
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALEIALATATKKKYEAEIDVRVTIDRKTGEFETFRRWK 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            V+EV   T +I+L+ A+  D ++++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  AVDEVTQPTLEITLEAAQFEDETVELGDFVEDEIQSVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  G++I+G VK+V    VIVDLGN ++ VI RD+ + REN RPGDRV+  +
Sbjct: 124 AQIVAQFVDNEGDLITGVVKKVNRDAVIVDLGNNAEAVIGRDDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E RG Q+ ++R+ P  + +LF +EVPEI   ++++   +RDPGSRAK+AV ++D 
Sbjct: 184 YKVAPEARGFQLFMTRSKPAMLSELFRIEVPEIGEELIELMGAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A +VINA+ PA V+ +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELGGERIDIVLWDENPAQYVINAMAPAEVSSIIVDEDSH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V K  L+ AIGR GQNVRLASQLTGW ++++T E+     Q++  E    F + +
Sbjct: 304 TMDIAVEKANLAQAIGRNGQNVRLASQLTGWELNVMTVEDLQKKHQEEAQESIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF  +EE+A V ++E+  +EG +EET  E++ RA+E L  I +  ++
Sbjct: 364 DIDEDFASVLVTEGFTTLEEIAYVPVNELLEVEGLNEETIDELRNRAKEALTTIALAKEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +E+L ++ G++ ++   L   GI T+EDLA    DDL+   G  E K G +
Sbjct: 424 SL-DAEPAEDLLALEGLERELAFKLAAKGILTLEDLADQGTDDLIDIEGVDEAKAGEL 480


>gi|292486836|ref|YP_003529706.1| transcription elongation protein nusA [Erwinia amylovora CFBP1430]
 gi|292900766|ref|YP_003540135.1| transcription elongation protein [Erwinia amylovora ATCC 49946]
 gi|291200614|emb|CBJ47746.1| transcription elongation protein [Erwinia amylovora ATCC 49946]
 gi|291552253|emb|CBA19290.1| Transcription elongation protein nusA [Erwinia amylovora CFBP1430]
 gi|312170904|emb|CBX79163.1| Transcription elongation protein nusA [Erwinia amylovora ATCC
           BAA-2158]
          Length = 501

 Score =  382 bits (981), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 202/484 (41%), Positives = 312/484 (64%), Gaps = 10/484 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALESALATATKKKYEQEIDVRVSIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +V+EV   T +I+L+ A   D S+ +GG V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVDEVTQPTREITLEAALYEDESLSLGGFVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-------VIRRDETISRENLRPGD 180
                +F+++ GEII+G VK+V   N+ +++  +DG       VI R++ + REN RPGD
Sbjct: 124 AMVVDQFREQEGEIITGVVKKVNRDNISLEVRPNDGSNTNAEAVIIREDMLPRENFRPGD 183

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R++  +Y VR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+A
Sbjct: 184 RIRGVLYAVRPEARGAQLFVSRSKPEMLIELFRIEVPEIAEEVLEIKAAARDPGSRAKIA 243

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V ++D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V
Sbjct: 244 VKTNDKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIV 303

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +    
Sbjct: 304 VDEDNHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWDLNVMTVDDLQAKHQAEAHAAID 363

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F + +++DE  A LLV EGF+ +EELA V I+E+  I+G DEET   ++ RA+  L  +
Sbjct: 364 VFTKHLDIDEDFATLLVEEGFSSLEELAYVPINELLEIDGLDEETVEALRDRAKNALTTL 423

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENK 477
            +  ++ + +   +E+L S+ G++ ++   L   G+ T+EDLA   VDDL    G S  +
Sbjct: 424 ALAKEESLGDTQPAEDLLSLEGLERELAFKLAAKGVCTLEDLAEQGVDDLSDIDGLSNER 483

Query: 478 GGNI 481
            G +
Sbjct: 484 AGEL 487


>gi|258620312|ref|ZP_05715350.1| N utilization substance protein A [Vibrio mimicus VM573]
 gi|262172282|ref|ZP_06039960.1| transcription termination protein NusA [Vibrio mimicus MB-451]
 gi|262401660|ref|ZP_06078226.1| transcription termination protein NusA [Vibrio sp. RC586]
 gi|258587191|gb|EEW11902.1| N utilization substance protein A [Vibrio mimicus VM573]
 gi|261893358|gb|EEY39344.1| transcription termination protein NusA [Vibrio mimicus MB-451]
 gi|262352077|gb|EEZ01207.1| transcription termination protein NusA [Vibrio sp. RC586]
          Length = 495

 Score =  382 bits (981), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 198/478 (41%), Positives = 311/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG    FR   
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALETALATSTKKKYEIEIDVRVAIDRKTGAFETFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE+ T +IS + A   D S+ +G  + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVENVEHPTKEISFEAASFDDESVQMGDYIEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  GE+++G VK+V    VI+DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AQIVEQFIDNEGELVTGVVKKVNRETVILDLGNNAEAVILREDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           + V  E RG Q+ ++R+ P+ + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 FKVAPEARGFQLFITRSKPEMLAELFRVEVPEIGEELIELKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIMDEDTH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +     Q++     + FM+ +
Sbjct: 304 SMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADLQKKHQEESMASIENFMKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++++  A LLV EGF+ +EE+A V ++E+  ++G DE+ A E++ RA+E L  I +  ++
Sbjct: 364 DIEQDFAELLVEEGFSTLEEIAYVPMNELLDVDGMDEDLAEELRSRAKEALTTIALAKEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL---LGWSENKGGNI 481
               L  +E+L ++ G++ ++   L   G+ T+EDLA   VDDL    G +E + G +
Sbjct: 424 SFEGLEPAEDLLALAGLEREMAFKLAAKGVATLEDLADQGVDDLEGIEGLTEQRAGEL 481


>gi|121587876|ref|ZP_01677633.1| N utilization substance protein A [Vibrio cholerae 2740-80]
 gi|153215844|ref|ZP_01950176.1| N utilization substance protein A [Vibrio cholerae 1587]
 gi|229512904|ref|ZP_04402371.1| transcription termination protein NusA [Vibrio cholerae TMA 21]
 gi|229520933|ref|ZP_04410355.1| transcription termination protein NusA [Vibrio cholerae TM
           11079-80]
 gi|229530447|ref|ZP_04419835.1| transcription termination protein NusA [Vibrio cholerae 12129(1)]
 gi|121547912|gb|EAX57996.1| N utilization substance protein A [Vibrio cholerae 2740-80]
 gi|124114561|gb|EAY33381.1| N utilization substance protein A [Vibrio cholerae 1587]
 gi|229332220|gb|EEN97708.1| transcription termination protein NusA [Vibrio cholerae 12129(1)]
 gi|229342166|gb|EEO07162.1| transcription termination protein NusA [Vibrio cholerae TM
           11079-80]
 gi|229350153|gb|EEO15106.1| transcription termination protein NusA [Vibrio cholerae TMA 21]
 gi|327483444|gb|AEA77851.1| Transcription termination protein NusA [Vibrio cholerae LMA3894-4]
          Length = 495

 Score =  382 bits (981), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 199/478 (41%), Positives = 310/478 (64%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG    FR   
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALETALATSTKKKYEIEIDVRVAIDRKTGAFETFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE+ T +IS + A   D S+ +G  + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVENVEHPTKEISFEAASFDDESVQLGDYIEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  GE+++G VK+V    VI+DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AQIVEQFIDNEGELVTGVVKKVNRETVILDLGNNAEAVILREDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YKVAPEARGFQLFITRSKPEMLAELFRVEVPEIGEELIELKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIMDEDAH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +     Q++     + FM+ +
Sbjct: 304 SMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADLQKKHQEESMASIENFMKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++++  A LLV EGF+ +EE+A V ++E+  ++G DE+ A E++ RA+E L  I +  ++
Sbjct: 364 DIEQDFAELLVEEGFSTLEEIAYVPMNELLDVDGMDEDLADELRSRAKEALTTIALAKEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL---LGWSENKGGNI 481
               L  +E+L ++ G++  +   L   G+ T+EDLA   VDDL    G +E + G +
Sbjct: 424 SFEGLEPAEDLLALAGLERDMAFKLAAKGVATLEDLADQGVDDLEGIEGLTEQRAGEL 481


>gi|307261095|ref|ZP_07542774.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 12 str. 1096]
 gi|306869227|gb|EFN01025.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 12 str. 1096]
          Length = 493

 Score =  382 bits (981), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 194/465 (41%), Positives = 306/465 (65%), Gaps = 2/465 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + ++ +   +  ++  + +       D+RV I+ +TGD   FR   
Sbjct: 4   EILLAAEAVSNEKLLPKEAIFEALETALAISTKKKKEMDIDVRVVIDRKTGDFQTFRRWI 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE+V N T +ISL  A+  +PS+ +G +V D +  + F R+ +Q+A+QVI  K+REAER
Sbjct: 64  VVEQVHNMTREISLDAAQYENPSVQLGDIVEDEVDSIPFDRITMQTARQVISTKIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
           ++   +F+ ++  II+ TVK+V    +I+DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 NKVIEQFRSQLNTIITATVKKVNREQIILDLGNQAEAVIVREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y ++ E +GPQ+ ++R  P  + +LF +EVPEI   ++++K  SRDPGSRAK+AV S D 
Sbjct: 184 YAIKPESKGPQLFVTRAKPVMLEELFKLEVPEIGEDVIEIKGASRDPGSRAKIAVKSHDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAISNELGGERVDIVLWDDNPAQFVINAMAPAEVSAIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T E+     Q + N+    F+ A+
Sbjct: 304 AMDIAVEGKNLAQAIGRNGQNVRLATQLTGWTLNVMTTEDLDKKHQAEDNKVISLFVSAL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLEGIDITLQ 425
            +D+  A LLV EGF+ +EE+A + +SE+ +I+G  DE  A E+Q RA+  +    +  +
Sbjct: 364 EIDDEFAQLLVDEGFSSLEEIAFIPVSELTAIDGIEDENLAEELQTRAKNAITAKALAEE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           + +++  + + L ++ G+D  I   L E GI T+E+LA  + DDL
Sbjct: 424 EALKQAHIEDRLLNLEGLDRHIAFKLAEKGITTLEELAEQATDDL 468


>gi|238793021|ref|ZP_04636650.1| Transcription termination factor NusA [Yersinia intermedia ATCC
           29909]
 gi|238727621|gb|EEQ19146.1| Transcription termination factor NusA [Yersinia intermedia ATCC
           29909]
          Length = 495

 Score =  382 bits (981), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 196/478 (41%), Positives = 310/478 (64%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RV I+ +TGD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIEVRVSIDRKTGDFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            V EV   T +I+L  A+  DP++ +G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  AVNEVTMPTREITLDAAQYEDPTLQLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F+  +GEI++G VK+V   ++ +DLGN ++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDQFRQYLGEIVTGVVKKVNRDSIALDLGNNAEAVIGREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           YDVR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YDVRPEARGAQLFVSRSRPEMLIELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDRH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            ++V V    L+ AIGR GQNVRLA+QL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDVAVEASNLAQAIGRNGQNVRLAAQLSGWELNVMTADDLQAKHQAEAHAAIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V + E+  I+G DE+T   ++ RA+  L  + +  ++
Sbjct: 364 DIDEDFATILVEEGFSSLEELAYVPMKELLEIDGLDEDTVEALRDRAKAALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +++L ++ G++  +   L   G+ T+EDLA   +DDL    G S+ + G +
Sbjct: 424 SLGDQKPADDLLNLAGLERSMAFKLAARGVCTLEDLAEQGIDDLADIEGLSDEQAGEL 481


>gi|110643410|ref|YP_671140.1| transcription elongation factor NusA [Escherichia coli 536]
 gi|110345002|gb|ABG71239.1| N utilization substance protein A [Escherichia coli 536]
          Length = 495

 Score =  382 bits (981), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 201/478 (42%), Positives = 310/478 (64%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVDEVTQPTKEITLEAARYEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YSVRPEARGVQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L  I    ++
Sbjct: 364 DIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALATIAQAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +    ++L ++ G+D  +   L   G+ ++EDLA   +DDL    G ++ K G +
Sbjct: 424 SLGDNKPCDDLLNLEGVDRDLAFKLAARGVCSLEDLAEQGIDDLADIEGLTDEKAGAL 481


>gi|113969369|ref|YP_733162.1| transcription elongation factor NusA [Shewanella sp. MR-4]
 gi|114046596|ref|YP_737146.1| transcription elongation factor NusA [Shewanella sp. MR-7]
 gi|113884053|gb|ABI38105.1| NusA antitermination factor [Shewanella sp. MR-4]
 gi|113888038|gb|ABI42089.1| NusA antitermination factor [Shewanella sp. MR-7]
          Length = 499

 Score =  382 bits (981), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 198/467 (42%), Positives = 309/467 (66%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TG    FR   
Sbjct: 4   EILLVAEAVSNEKAVPREKIFEALETALATATKKKYEGDIDVRVAIDRKTGAYETFRRWM 63

Query: 68  VVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           V+++    +EN   +I+L+ AR  +P I  G  + D +  + F R+  Q+AKQVI+QKVR
Sbjct: 64  VIDDNGVALENPYREITLEAARFENPEIQPGDFIEDEIESVAFDRITTQTAKQVIVQKVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +   +F+DK GE+I+G VK+    +V+VDLGN +DGV+ R++ ISRE+ RPGDRV
Sbjct: 124 EAERAQVVEQFQDKEGELITGVVKKATRESVVVDLGNNADGVLFREDLISRESFRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ +Y VR E RG Q+ L+RT P  +++LF +EVPEI + +++V   +RDPG+RAK+AV 
Sbjct: 184 RALLYSVRPEARGAQLFLTRTKPDMLIELFRVEVPEIADELIEVMGAARDPGARAKIAVK 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A +VINA+ PA V  +++D
Sbjct: 244 SNDRRIDPIGACVGMRGARVQAVSNELGGERVDIVLWDDNPAQYVINAMAPADVASIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  E L+ AIGR GQNVRLA+QLTGW ++++T E+ +   Q +  +    F
Sbjct: 304 EDNHSMDIAVEAESLAQAIGRNGQNVRLATQLTGWELNVMTVEDMNKKHQAESAKVKSLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M++++VDE  A +L  EGF  +EE+A V +SE+ +I+GFDE+    ++ RA+  +    +
Sbjct: 364 MKSLDVDEDFAQVLADEGFTSLEEVAYVPVSELLAIDGFDEDIVEALRERAKAAISTRAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDD 469
             ++ +  +  SEEL ++ G++  +   L   GI T+EDLA   +DD
Sbjct: 424 ASEEALDGVEPSEELLALEGVERHLAYVLASKGIVTLEDLAEQGIDD 470


>gi|330807482|ref|YP_004351944.1| transcription elongation factor [Pseudomonas brassicacearum subsp.
           brassicacearum NFM421]
 gi|327375590|gb|AEA66940.1| Putative transcription elongation factor [Pseudomonas
           brassicacearum subsp. brassicacearum NFM421]
          Length = 493

 Score =  382 bits (981), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 202/467 (43%), Positives = 308/467 (65%), Gaps = 13/467 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + ++V+ EK +  +V+   +  ++  A +  +    D+RVEIN  TG    FR   
Sbjct: 4   EVLLVVESVSNEKGVPANVIFEALELALATATKKRFEDEVDLRVEINRHTGAYETFRRWT 63

Query: 68  VVEE-------VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           VVEE       +E +  +++     +  P   +G VV + +  ++FGR+A Q+AKQVI+Q
Sbjct: 64  VVEEADLDDPAIETWPSKVA-----ETHPGAKVGDVVEEKIESIEFGRIAAQTAKQVIVQ 118

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPG 179
           KVREAER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G
Sbjct: 119 KVREAERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVG 178

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
            R+++ + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+
Sbjct: 179 VRLRALLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKI 238

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +
Sbjct: 239 AVRSKDKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAI 298

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           ++DED   +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  
Sbjct: 299 IVDEDAHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDIL 358

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + F+  + VDE +A +LV EGF  +EE+A V + E+ +I+GFDEE   E++ RA++ L  
Sbjct: 359 RNFIDELEVDEELAQVLVDEGFTSLEEIAYVPVEEMLNIDGFDEEIVNELRARAKDRLLT 418

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
             I  ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S
Sbjct: 419 KAIATEEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLAEQS 465


>gi|26991396|ref|NP_746821.1| transcription elongation factor NusA [Pseudomonas putida KT2440]
 gi|148549780|ref|YP_001269882.1| transcription elongation factor NusA [Pseudomonas putida F1]
 gi|24986465|gb|AAN70285.1|AE016669_3 N utilization substance protein A [Pseudomonas putida KT2440]
 gi|148513838|gb|ABQ80698.1| NusA antitermination factor [Pseudomonas putida F1]
 gi|313500621|gb|ADR61987.1| NusA [Pseudomonas putida BIRD-1]
          Length = 493

 Score =  382 bits (981), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 200/462 (43%), Positives = 307/462 (66%), Gaps = 3/462 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + ++V+ EK +   V+   +  ++  A +  +    D+RVEIN  TG    FR   
Sbjct: 4   EVLLVVESVSNEKGVPPGVIFEALEVALATATKKRFEDEVDLRVEINRHTGSYETFRRWT 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV+E  +++   +  L   +D  P   +G V+ + +  ++FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVDEADLDDPAIETWLDKIKDTHPEAKVGDVIEEKIESIEFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +    ++++VGEIISGTVK+V   NVIVDLGN ++ ++ R++ I RE  R G R+++
Sbjct: 124 ERAQVVDAYRERVGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIIPRETFRVGVRLRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + ++R E RGPQ++LSRT PQ +++LF +EVPEI  G+++V A SRDPGSRAK+AV S 
Sbjct: 184 LLKEIRTENRGPQLILSRTAPQMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVRSK 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++DED
Sbjct: 244 DKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V ++ L+ AIGR GQNVRLASQLTGWT++++TE++    +Q +  +  + F++
Sbjct: 304 AHAMDIAVAEDNLAQAIGRGGQNVRLASQLTGWTLNVMTEKDIQAKQQAETGDILRNFIE 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L    I  
Sbjct: 364 ELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDIVNELRARAKDRLLTKAIAT 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
           ++K+ +   +E+L S+ G+D  +   L   G+   EDLA  S
Sbjct: 424 EEKLADAHPAEDLLSLEGMDKDLAAELAVRGVVNREDLAEQS 465


>gi|153826517|ref|ZP_01979184.1| N utilization substance protein A [Vibrio cholerae MZO-2]
 gi|149739697|gb|EDM53904.1| N utilization substance protein A [Vibrio cholerae MZO-2]
          Length = 495

 Score =  382 bits (981), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 200/478 (41%), Positives = 310/478 (64%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG    FR   
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALETALATSTKKKYEIEIDVRVAIDRKTGAFETFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE+ T +IS + A   D S+ +G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVENVEHPTKEISFEAASFDDDSVQLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  GE+++G VK+V    VI+DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AQIVEQFIDNEGELVTGVVKKVNRETVILDLGNNAEAVILREDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YKVAPEARGFQLFITRSKPEMLAELFRVEVPEIGEELIELKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIMDEDAH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +     Q++     + FM+ +
Sbjct: 304 SMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADLQKKHQEESMASIENFMKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++++  A LLV EGF+ +EE+A V ++E+  ++G DE+ A E++ RA+E L  I +  ++
Sbjct: 364 DIEQDFAELLVEEGFSTLEEIAYVPMNELLDVDGMDEDLADELRSRAKEALTTIALAKEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL---LGWSENKGGNI 481
               L  +E+L ++ G++  +   L   G+ T+EDLA   VDDL    G +E + G +
Sbjct: 424 SFEGLEPAEDLLALAGLERDMAFKLAAKGVATLEDLADQGVDDLEGIEGLTEQRAGEL 481


>gi|148827021|ref|YP_001291774.1| transcription elongation factor NusA [Haemophilus influenzae
           PittGG]
 gi|148718263|gb|ABQ99390.1| transcription elongation factor NusA [Haemophilus influenzae
           PittGG]
          Length = 495

 Score =  382 bits (980), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 191/465 (41%), Positives = 314/465 (67%), Gaps = 2/465 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + R+ +   +  +I  + +  +   +DIRV INP+TG+   FR   
Sbjct: 4   EILLAAEAVSNEKLLPREKIFEALESAIAISTKKKFEYETDIRVSINPKTGEFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV+  T +I+L+ A+  DP++ +G  V D +  + F R+A+Q+A+QVI  K+REAER
Sbjct: 64  VVDEVKVPTKEITLEAAQFDDPNLQLGEYVEDQIESIAFDRIAMQTARQVISTKIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F+++ G+I++GTVK+V   ++I+DLGN ++ +I R++ + REN RPGDRV+  +
Sbjct: 124 AKVVEQFREEEGKIVTGTVKKVSRDSIILDLGNKAEAMIAREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E +  Q+ ++R+ P+ +++LF +EVPEI   +++++  +RD GSRAK+AV S+D 
Sbjct: 184 YKVNPEGKTAQLFVTRSKPEMLIELFRIEVPEIGEEMIEIRGAARDAGSRAKIAVKSNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIIVDEDNH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T +E +   Q + N+    FM A+
Sbjct: 304 SMDIAVEADNLAQAIGRNGQNVRLATQLTGWTLNVMTTDELNTKHQAEDNKVLNLFMNAL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV-EIQGRAREYLEGIDITLQ 425
            +DE  A +LV EGF  +EE+A V ++E+ +I+G ++E  V E+Q RA+  +    +  +
Sbjct: 364 ELDEEFAQILVEEGFTSLEEIAYVPMNELTAIDGLEDEDLVEELQTRAKNAITVAAVAEE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           + +++  V + L ++ G++  + + L E  I T+E+LA   VDDL
Sbjct: 424 EALKKANVEDRLLNLEGMNRHVAIKLAEKQITTLEELAEQGVDDL 468


>gi|312885214|ref|ZP_07744893.1| transcription elongation factor NusA [Vibrio caribbenthicus ATCC
           BAA-2122]
 gi|309367154|gb|EFP94727.1| transcription elongation factor NusA [Vibrio caribbenthicus ATCC
           BAA-2122]
          Length = 495

 Score =  382 bits (980), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 196/478 (41%), Positives = 310/478 (64%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  + +  +    D+RVEI+ +TG+   FR   
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALEIALATSTKKKHEIEIDVRVEIDRKTGEFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVEN T +ISL+ A+  D  I +G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVEEVENPTKEISLEAAQYEDAEIQLGDFVEDDIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  GE+++G VK+V    +++DLGN ++ VI RD+ + REN RPGDRV+  +
Sbjct: 124 AQIVEQFIDNEGELVTGVVKKVNRDTIVLDLGNNAEAVILRDDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E RG Q+ ++R+ P  + +LF +EVPEI   I+++K  +RDPGSRAK+AV ++D 
Sbjct: 184 YKVAPEARGFQLFITRSKPDMLAELFRVEVPEIAEEIIELKGAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDEDTN 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T ++      ++     + FM+ +
Sbjct: 304 TMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVDDLHKKHAEESQAAIENFMKHL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           +++E  A LLV EGF+ +EE+A V ++E+  ++G DEE   E++ RA+  L  + +  ++
Sbjct: 364 DIEEDFAQLLVEEGFSTLEEVAYVPVNELLEVDGLDEELVEELRNRAKNALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDD---LLGWSENKGGNI 481
               +  +++L  + G++ ++   L   G+ T+EDLA   +DD   + G +E + G +
Sbjct: 424 SFEGVEPADDLLGLEGLEREMAFKLAARGVATLEDLAEQGIDDIESIEGLTEERAGEL 481


>gi|90409004|ref|ZP_01217134.1| transcription elongation factor NusA [Psychromonas sp. CNPT3]
 gi|90309889|gb|EAS38044.1| transcription elongation factor NusA [Psychromonas sp. CNPT3]
          Length = 500

 Score =  382 bits (980), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 196/484 (40%), Positives = 308/484 (63%), Gaps = 7/484 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  E+L + +AV+ EK + R+ +   +  ++  A +  Y    ++RVEI+ ETG    FR
Sbjct: 2   NNKEILLVVEAVSNEKGLPREAIFEALESALAIATKKKYEMEIEVRVEIDRETGTFETFR 61

Query: 65  LLEVVE---EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
              V+    E+EN   +++ + A    P I IG  + D +P + F R+  Q+AKQVI+QK
Sbjct: 62  RWLVLAPDAEMENSCAEMTYEAAVYDQPEIQIGEFIEDDIPSVTFDRITTQTAKQVIVQK 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGD 180
           VREAER +   ++ ++ GE+++G VKR+   ++++DLG N++ VI RDE + REN RPGD
Sbjct: 122 VREAERAQVVEQYIEQKGELVTGVVKRMTRDSILLDLGGNAEAVIFRDEMLPRENFRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R++  +YDVR E RG Q+ ++RT P+ +++LF +EVPEI   ++ + A +RDPGSRAK+A
Sbjct: 182 RLRGLLYDVRPEARGAQLFMTRTQPEMLIELFRLEVPEIAEEMIDLMAAARDPGSRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDP+GACVGMRG+RVQA+ +EL  E++DI++W  +SA F INA+ PA V  +V
Sbjct: 242 VKSNDQRIDPIGACVGMRGARVQAISSELGGERVDIILWDDNSAQFAINAMSPAEVVSIV 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V +E L+ AIGR GQN+RLASQLTGW ++++T  +     Q + +    
Sbjct: 302 VDEDSHSMDIAVEEENLAQAIGRNGQNIRLASQLTGWELNVMTVAQLQEKHQAEADSVIG 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F +A+ +D   A +LV EGF  +EE+A V ++E+  I+G DE    E++ RA+  L   
Sbjct: 362 VFTKALEIDADFAAVLVDEGFTSLEEIAYVPVTELLEIDGLDENMVDELRTRAKNVLATK 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG---WSENK 477
            +  ++ I     +E+L ++ G+D+ +       GI T+EDLA  +VDDL+     +E K
Sbjct: 422 ALAAEENIEGAKPAEDLLALEGLDAHLAYVFASKGIITLEDLAEQAVDDLIDIEELNEEK 481

Query: 478 GGNI 481
            G +
Sbjct: 482 AGTL 485


>gi|117919478|ref|YP_868670.1| transcription elongation factor NusA [Shewanella sp. ANA-3]
 gi|117611810|gb|ABK47264.1| NusA antitermination factor [Shewanella sp. ANA-3]
          Length = 499

 Score =  382 bits (980), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 198/467 (42%), Positives = 308/467 (65%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TG    FR   
Sbjct: 4   EILLVAEAVSNEKAVPREKIFEALETALATATKKKYEGDIDVRVSIDRKTGAYETFRRWM 63

Query: 68  VVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           V+++    +EN   +I+L+ AR  +P I  G  + D +  + F R+  Q+AKQVI+QKVR
Sbjct: 64  VIDDNGVALENPYREITLEAARYENPEIQPGDYIEDQIESVAFDRITTQTAKQVIVQKVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +   +F+DK GE+I+G VK+    +V+VDLGN +DGV+ R++ ISRE+ RPGDRV
Sbjct: 124 EAERAQVVEQFQDKEGELITGVVKKATRESVVVDLGNNADGVLFREDLISRESFRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ +Y VR E RG Q+ L+RT P  +++LF +EVPEI + +++V   +RDPG+RAK+AV 
Sbjct: 184 RALLYSVRPEARGAQLFLTRTKPDMLIELFRVEVPEIADELIEVMGAARDPGARAKIAVK 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A +VINA+ PA V  +++D
Sbjct: 244 SNDRRIDPIGACVGMRGARVQAVSNELGGERVDIVLWDDNPAQYVINAMAPADVASIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  E L+ AIGR GQNVRLA+QLTGW ++++T E+ +   Q +  +    F
Sbjct: 304 EDNHSMDIAVEAESLAQAIGRNGQNVRLATQLTGWELNVMTVEDMNKKHQAESAKVKSLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           + A++VDE  A +L  EGF  +EE+A V +SE+ +I+GFDE+    ++ RA+  +    +
Sbjct: 364 INALDVDEDFAQVLADEGFTSLEEVAYVPVSELLAIDGFDEDIVEALRERAKAAISTRAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDD 469
             ++ +  +  SEEL ++ G++  +   L   GI T+EDLA   +DD
Sbjct: 424 ATEEALDGVEPSEELLALEGVERHLAYVLASKGIVTLEDLAEQGIDD 470


>gi|15640662|ref|NP_230291.1| transcription elongation factor NusA [Vibrio cholerae O1 biovar El
           Tor str. N16961]
 gi|121728410|ref|ZP_01681438.1| N utilization substance protein A [Vibrio cholerae V52]
 gi|147674353|ref|YP_001216136.1| transcription elongation factor NusA [Vibrio cholerae O395]
 gi|153801994|ref|ZP_01956580.1| N utilization substance protein A [Vibrio cholerae MZO-3]
 gi|153818700|ref|ZP_01971367.1| N utilization substance protein A [Vibrio cholerae NCTC 8457]
 gi|153822531|ref|ZP_01975198.1| N utilization substance protein A [Vibrio cholerae B33]
 gi|153829178|ref|ZP_01981845.1| N utilization substance protein A [Vibrio cholerae 623-39]
 gi|227080823|ref|YP_002809374.1| N utilization substance protein A [Vibrio cholerae M66-2]
 gi|229505736|ref|ZP_04395246.1| transcription termination protein NusA [Vibrio cholerae BX 330286]
 gi|229509231|ref|ZP_04398716.1| transcription termination protein NusA [Vibrio cholerae B33]
 gi|229519560|ref|ZP_04409003.1| transcription termination protein NusA [Vibrio cholerae RC9]
 gi|229608847|ref|YP_002879495.1| transcription elongation factor NusA [Vibrio cholerae MJ-1236]
 gi|254850876|ref|ZP_05240226.1| conserved hypothetical protein [Vibrio cholerae MO10]
 gi|255744141|ref|ZP_05418094.1| transcription termination protein NusA [Vibrio cholera CIRS 101]
 gi|262156117|ref|ZP_06029236.1| transcription termination protein NusA [Vibrio cholerae INDRE 91/1]
 gi|262169941|ref|ZP_06037631.1| transcription termination protein NusA [Vibrio cholerae RC27]
 gi|297580768|ref|ZP_06942694.1| N utilization substance protein A [Vibrio cholerae RC385]
 gi|298500758|ref|ZP_07010561.1| transcription elongation factor NusA [Vibrio cholerae MAK 757]
 gi|9655078|gb|AAF93808.1| N utilization substance protein A [Vibrio cholerae O1 biovar El Tor
           str. N16961]
 gi|121629344|gb|EAX61776.1| N utilization substance protein A [Vibrio cholerae V52]
 gi|124122453|gb|EAY41196.1| N utilization substance protein A [Vibrio cholerae MZO-3]
 gi|126510780|gb|EAZ73374.1| N utilization substance protein A [Vibrio cholerae NCTC 8457]
 gi|126519949|gb|EAZ77172.1| N utilization substance protein A [Vibrio cholerae B33]
 gi|146316236|gb|ABQ20775.1| N utilization substance protein A [Vibrio cholerae O395]
 gi|148875367|gb|EDL73502.1| N utilization substance protein A [Vibrio cholerae 623-39]
 gi|227008711|gb|ACP04923.1| N utilization substance protein A [Vibrio cholerae M66-2]
 gi|227012467|gb|ACP08677.1| N utilization substance protein A [Vibrio cholerae O395]
 gi|229344249|gb|EEO09224.1| transcription termination protein NusA [Vibrio cholerae RC9]
 gi|229353803|gb|EEO18739.1| transcription termination protein NusA [Vibrio cholerae B33]
 gi|229357959|gb|EEO22876.1| transcription termination protein NusA [Vibrio cholerae BX 330286]
 gi|229371502|gb|ACQ61925.1| transcription termination protein NusA [Vibrio cholerae MJ-1236]
 gi|254846581|gb|EET24995.1| conserved hypothetical protein [Vibrio cholerae MO10]
 gi|255738081|gb|EET93473.1| transcription termination protein NusA [Vibrio cholera CIRS 101]
 gi|262021675|gb|EEY40386.1| transcription termination protein NusA [Vibrio cholerae RC27]
 gi|262030153|gb|EEY48798.1| transcription termination protein NusA [Vibrio cholerae INDRE 91/1]
 gi|297535184|gb|EFH74019.1| N utilization substance protein A [Vibrio cholerae RC385]
 gi|297540539|gb|EFH76597.1| transcription elongation factor NusA [Vibrio cholerae MAK 757]
          Length = 495

 Score =  382 bits (980), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 199/478 (41%), Positives = 310/478 (64%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG    FR   
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALETALATSTKKKYEIEIDVRVAIDRKTGAFETFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE+ T +IS + A   D S+ +G  + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVENVEHPTKEISFEAASFDDDSVQLGDYIEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  GE+++G VK+V    VI+DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AQIVEQFIDNEGELVTGVVKKVNRETVILDLGNNAEAVILREDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YKVAPEARGFQLFITRSKPEMLAELFRVEVPEIGEELIELKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIMDEDAH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +     Q++     + FM+ +
Sbjct: 304 SMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADLQKKHQEESMASIENFMKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++++  A LLV EGF+ +EE+A V ++E+  ++G DE+ A E++ RA+E L  I +  ++
Sbjct: 364 DIEQDFAELLVEEGFSTLEEIAYVPMNELLDVDGMDEDLADELRSRAKEALTTIALAKEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL---LGWSENKGGNI 481
               L  +E+L ++ G++  +   L   G+ T+EDLA   VDDL    G +E + G +
Sbjct: 424 SFEGLEPAEDLLALAGLERDMAFKLAAKGVATLEDLADQGVDDLEGIEGLTEQRAGEL 481


>gi|315634096|ref|ZP_07889385.1| N utilization substance A [Aggregatibacter segnis ATCC 33393]
 gi|315477346|gb|EFU68089.1| N utilization substance A [Aggregatibacter segnis ATCC 33393]
          Length = 498

 Score =  382 bits (980), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 196/469 (41%), Positives = 307/469 (65%), Gaps = 6/469 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + R+ +   +  +I  + +  Y    D+RV IN +TG+   FR   
Sbjct: 4   EILLAAEAVSNEKLLPREKIFEALESAIALSTKKKYEYDVDVRVAINTKTGEFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV N T +I+L+ AR  DP+  IG  V D +  + F R+A+Q+A+QVI  K+REAER
Sbjct: 64  VVEEVNNPTKEITLEAARFEDPNAQIGDYVEDQIESIAFDRIAMQTARQVISTKIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-----VIRRDETISRENLRPGDRV 182
            +   +F+ K G+II+ TVK+    +VI+D+   DG     V+ R++ + REN RPGDRV
Sbjct: 124 SKIVDQFRSKEGQIITATVKKSNRDSVILDVNGEDGNKAEAVMLREDMLPRENFRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  +Y V  E +G Q+ ++R  P+ +++LF +EVPEI   ++++++ +RDPGSRAK+AV 
Sbjct: 184 RGVLYKVSPESKGAQLFVTRAKPEMLIELFRLEVPEIGEELIEIRSAARDPGSRAKIAVK 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +V+D
Sbjct: 244 SNDKRIDPVGACVGMRGARVQAITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIVVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V +  L+ AIGR GQNVRLA+QLTGW ++++T ++ +   Q + ++    F
Sbjct: 304 EDKHAMDIAVEEANLAQAIGRNGQNVRLATQLTGWVLNVMTTQDLNAKHQAEDDKVLNLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV-EIQGRAREYLEGID 421
           + A+ +DE  A LL+ EGF+ +EELA V +SE+ +I+G ++E  V E+Q RA+  +    
Sbjct: 364 IDALEIDEEFAQLLIDEGFSTLEELAYVSVSELTAIDGLEDEDLVEELQTRAKNAITAKA 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           +  ++ +++  + + L ++ G++  I   L E  I T+EDLA   VDDL
Sbjct: 424 LAEEEALKKAKIEDRLLNLEGMNRHIAFKLAEKQITTLEDLAEQGVDDL 472


>gi|315294914|gb|EFU54253.1| transcription termination factor NusA [Escherichia coli MS 153-1]
          Length = 495

 Score =  382 bits (980), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 201/478 (42%), Positives = 310/478 (64%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVDEVTQPTKEITLEAARYEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            ID VGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDLVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L  I    ++
Sbjct: 364 DIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALATIAQAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL    G ++ K G +
Sbjct: 424 SLGDNKPADDLLNLEGVDRDLAFKLAARGVCTLEDLAEQGIDDLADIEGLTDEKAGAL 481


>gi|163802303|ref|ZP_02196197.1| transcription elongation factor NusA [Vibrio sp. AND4]
 gi|159173832|gb|EDP58646.1| transcription elongation factor NusA [Vibrio sp. AND4]
          Length = 495

 Score =  382 bits (980), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 203/482 (42%), Positives = 312/482 (64%), Gaps = 12/482 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG+   FR   
Sbjct: 4   EILAVAEAVSNEKAVPRERIFEALEIALATSTKKKYEIEIDVRVAIDRKTGEFETFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VEN T +IS++ A+  D    +G  V D +P + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVENVENPTKEISIEAAQYEDADAQLGDFVEDDIPSVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  G++I+G VK+V    V++DLGN ++ VI RD+ + RENLRPGDRV+  +
Sbjct: 124 AQIVEQFIDNEGDLITGVVKKVNRETVVLDLGNNAEAVILRDDQLPRENLRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   I+++K  +RDPGSRAK+AV ++D 
Sbjct: 184 YKVAPEARGFQLFITRSKPEMLAELFRVEVPEIAEEIIELKGAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
             DPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RTDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDEDAH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF----F 362
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T      + QK   E +Q     F
Sbjct: 304 SMDIAVEADNLAQAIGRSGQNVRLASQLTGWELNVMT----VADLQKKHAEESQASIENF 359

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+ ++++E  A LLV EGF+ +EE+A V ++E+  ++G +EE   E++ RA++ L  I +
Sbjct: 360 MKYLDIEEDFAQLLVEEGFSTLEEIAYVPVNELLDVDGLNEELIEELRTRAKDALTTIAL 419

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL---LGWSENKGG 479
             ++    L  +E+L  + G++ ++   L   G+ T+EDLA   +DDL    G +E + G
Sbjct: 420 AQEESFDGLEPAEDLLGLEGLEREMAFKLAAKGVVTLEDLADQGIDDLEGTEGLTEERAG 479

Query: 480 NI 481
            +
Sbjct: 480 EL 481


>gi|259907041|ref|YP_002647397.1| transcription elongation factor NusA [Erwinia pyrifoliae Ep1/96]
 gi|224962663|emb|CAX54118.1| Transcription elongation protein NusA (N utilization substance
           protein A) [Erwinia pyrifoliae Ep1/96]
 gi|283476837|emb|CAY72675.1| Transcription elongation protein nusA [Erwinia pyrifoliae DSM
           12163]
 gi|310766253|gb|ADP11203.1| transcription elongation factor NusA [Erwinia sp. Ejp617]
          Length = 501

 Score =  381 bits (979), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 202/484 (41%), Positives = 312/484 (64%), Gaps = 10/484 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALESALATATKKKYEQEIDVRVSIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +V+EV   T +I+L+ A   D S+ +GG V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVDEVTQPTREITLEAAIYEDESLSLGGFVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-------VIRRDETISRENLRPGD 180
                +F+++ GEII+G VK+V   N+ +++  +DG       VI R++ + REN RPGD
Sbjct: 124 AMVVDQFREQEGEIITGVVKKVNRDNISLEVRPNDGSNTNAEAVIIREDMLPRENFRPGD 183

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R++  +Y VR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+A
Sbjct: 184 RIRGVLYAVRPEARGAQLFVSRSKPEMLIELFRIEVPEIAEEVLEIKAAARDPGSRAKIA 243

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V ++D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V
Sbjct: 244 VKTNDKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIV 303

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +    
Sbjct: 304 VDEDNHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWDLNVMTVDDLQAKHQAEAHAAID 363

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F + +++DE  A LLV EGF+ +EELA V I E+  I+G DEET   ++ RA+  L  +
Sbjct: 364 VFTKHLDIDEDFATLLVEEGFSSLEELAYVPIKELLEIDGLDEETVEALRDRAKNALTTL 423

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENK 477
            +  ++ + +   +E+L S+ G++ ++   L   G+ T+EDLA   VDDL    G S+ +
Sbjct: 424 ALAKEESLGDTQPAEDLLSLEGLERELAFKLAAKGVCTLEDLAEQGVDDLSDIDGLSDER 483

Query: 478 GGNI 481
            G +
Sbjct: 484 AGEL 487


>gi|149926272|ref|ZP_01914534.1| transcription elongation factor NusA [Limnobacter sp. MED105]
 gi|149825090|gb|EDM84302.1| transcription elongation factor NusA [Limnobacter sp. MED105]
          Length = 489

 Score =  381 bits (979), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 208/479 (43%), Positives = 310/479 (64%), Gaps = 8/479 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL + DA+A EK++D+D+V   +  ++  A +  +    D+RV I+ +TGD   FR  E
Sbjct: 4   ELLLLVDALAREKNVDKDIVFGALELALASATKKRFDEEVDVRVSIDRDTGDYDTFRRWE 63

Query: 68  VVEEVENY--TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV E + Y    Q+ L  A   D   ++G  + + L P++FGR+  Q+AKQVI+Q+VR+A
Sbjct: 64  VVTEEDFYDPAYQMVLDQALKHDEEAEMGDFIEEELEPVEFGRIGAQAAKQVILQRVRDA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F D+  +I+ G VKR+E G+ IV+ G  +  + RD+ I RE+LRPGDRV++Y
Sbjct: 124 EREQILQDFLDRGDKIVIGQVKRMERGDAIVESGRIEARLPRDQMIPRESLRPGDRVRAY 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           ++ V R  RG QV+LSRT P+F+  LF MEVPEI  G +++K  +RDPG RAK+AV + D
Sbjct: 184 LWKVDRMARGQQVILSRTSPEFIKALFAMEVPEIEQGHLEIKGAARDPGMRAKIAVLAHD 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDP+G CVG+RGSRVQAV  EL  E++DIV+WS D A FVI AL PA V  +V+DED 
Sbjct: 244 RRIDPIGTCVGVRGSRVQAVTQELGGERVDIVLWSEDPAQFVIGALSPATVQSIVVDEDQ 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             +EV+V + +L+ AIGR GQNVRLAS LTGW I+I+T EE +   +++  +  + F   
Sbjct: 304 HVMEVVVDEAELAQAIGRSGQNVRLASDLTGWQINIMTPEESAKRSEEEIGKLRELFTSK 363

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE +A++L+ EGF+ ++++A V I+E+  IE FD +T  E++ RAR  L    I  +
Sbjct: 364 LDVDEKVANILIEEGFSGLQKVAYVPIAEMQEIEAFDADTVEELRTRARNALLTEAIARE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
           + +   G   +L SI G+D+ +   L    I   E LA  +VD+L+   G  E++  +I
Sbjct: 424 EMVEGAG---DLMSIEGVDADLVGKLAAAEISDREGLAELAVDELVEIAGIEEDRARDI 479


>gi|307245494|ref|ZP_07527581.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 1 str. 4074]
 gi|307254448|ref|ZP_07536285.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 9 str. CVJ13261]
 gi|307258907|ref|ZP_07540638.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 11 str. 56153]
 gi|306853553|gb|EFM85771.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 1 str. 4074]
 gi|306862589|gb|EFM94546.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 9 str. CVJ13261]
 gi|306866931|gb|EFM98788.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 11 str. 56153]
          Length = 493

 Score =  381 bits (979), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 194/465 (41%), Positives = 305/465 (65%), Gaps = 2/465 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + ++ +   +  ++  + +       D+RV I+ +TGD   FR   
Sbjct: 4   EILLAAEAVSNEKLLPKEAIFEALETALAISTKKKKEMDIDVRVVIDRKTGDFQTFRRWI 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE+V N T +ISL  A+  +PS+ +G +V D +  + F R+ +Q+A+QVI  K+REAER
Sbjct: 64  VVEQVHNMTREISLDAAQYENPSVQLGDIVEDEVDSIPFDRITMQTARQVISTKIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
           ++   +F+ ++  II+ TVK+V    +I+DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 NKVIEQFRSQLNTIITATVKKVNREQIILDLGNQAEAVIVREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y ++ E +GPQ+ ++R  P  + +LF +EVPEI   ++++K  SRDPGSRAK+AV S D 
Sbjct: 184 YAIKPESKGPQLFVTRAKPVMLEELFKLEVPEIGEDVIEIKGASRDPGSRAKIAVKSHDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAISNELGGERVDIVLWDDNPAQFVINAMAPAEVSAIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T E+     Q + N+    F+ A+
Sbjct: 304 AMDIAVEGKNLAQAIGRNGQNVRLATQLTGWTLNVMTTEDLDKKHQAEDNKVISLFVSAL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLEGIDITLQ 425
            +D+  A LLV EGF+ +EE+A + +SE+ +I+G  DE  A E+Q RA+  +    +  +
Sbjct: 364 EIDDEFAQLLVDEGFSSLEEIAFIPVSELTAIDGIEDENLAEELQTRAKNAITAKALAEE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           + +++  + + L ++ G+D  I   L E GI T+E LA  + DDL
Sbjct: 424 EALKQAHIEDRLLNLEGLDRHIAFKLAEKGITTLEGLAEQATDDL 468


>gi|24372786|ref|NP_716828.1| transcription elongation factor NusA [Shewanella oneidensis MR-1]
 gi|24346871|gb|AAN54273.1|AE015564_4 N utilization substance protein A [Shewanella oneidensis MR-1]
          Length = 499

 Score =  381 bits (979), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 198/467 (42%), Positives = 309/467 (66%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TG    FR   
Sbjct: 4   EILLVAEAVSNEKAVPREKIFEALETALATATKKKYEGDIDVRVAIDRKTGAYETFRRWM 63

Query: 68  VVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           V+++    +EN   +I+L+ AR  +P I  G  + D +  + F R+  Q+AKQVI+QKVR
Sbjct: 64  VIDDNGVALENPYREITLEAARFEEPEIQPGEYIEDQIESVAFDRITTQTAKQVIVQKVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +   +F+DK GE+I+G VK+    +V+VDLGN +DGV+ R++ ISRE+ RPGDRV
Sbjct: 124 EAERAQVVEQFQDKEGELITGVVKKATRESVVVDLGNNADGVLFREDLISRESFRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ +Y VR E RG Q+ L+RT P  +++LF +EVPEI + +++V   +RDPG+RAK+AV 
Sbjct: 184 RALLYSVRPEARGAQLFLTRTKPDMLIELFRVEVPEIADELIEVMGAARDPGARAKIAVK 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A +VINA+ PA V  +++D
Sbjct: 244 SNDRRIDPIGACVGMRGARVQAVSNELGGERVDIVLWDDNPAQYVINAMAPADVASIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  E L+ AIGR GQNVRLA+QLTGW ++++T E+ +   Q +  +    F
Sbjct: 304 EDNHSMDIAVEAESLAQAIGRNGQNVRLATQLTGWELNVMTVEDMNKKHQAESAKVKSLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M++++VDE  A +L  EGF  +EE+A V +SE+ +I+GFDE+    ++ RA+  +    +
Sbjct: 364 MKSLDVDEDFAQVLADEGFTSLEEVAYVPVSELLAIDGFDEDLVEALRERAKAAISTRAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDD 469
             ++ +  +  SEEL ++ G++  +   L   GI T+EDLA   +DD
Sbjct: 424 ASEEALDGVEPSEELLALEGVERHLAYVLASKGIVTLEDLAEQGIDD 470


>gi|94310970|ref|YP_584180.1| transcription elongation factor NusA [Cupriavidus metallidurans
           CH34]
 gi|93354822|gb|ABF08911.1| transcription termination/antitermination L factor [Cupriavidus
           metallidurans CH34]
          Length = 491

 Score =  381 bits (979), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 200/467 (42%), Positives = 317/467 (67%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV   +  ++  A +  +    DIRV I+ E+G+   FR   
Sbjct: 4   EVLLLVDALAREKNVDKDVVFGALEAALASATKKRFEEDVDIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    QI L  AR+++  I +   + + +  ++FGR+  Q+AKQVI+Q++R+
Sbjct: 64  VVPDEQGLQEPDKQILLFEAREQNADIQLDDYIEEQIESVEFGRIGAQAAKQVILQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ D+  +I++GTVKR +   +IV+ G  + ++ RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLDRGEKIMTGTVKRADKKGLIVESGRVEALLARDQIIPKENLRTGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +V R  RGPQ+ LSRT P+F++KLF  EVPE+  G++++KA +RDPG RAK+AV + 
Sbjct: 184 YILNVDRAARGPQIELSRTAPEFLIKLFENEVPEMEQGLLEIKAAARDPGVRAKIAVVAH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RG+RV AV  E+  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGVRGTRVTAVRNEIGGEAVDIVLWSEDPAQFVIGALAPAQVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L+++IGR GQNVRLAS+LTGW I+I+T+EE +  + ++     + FM 
Sbjct: 304 KHSMDVVVDEENLAVSIGRSGQNVRLASELTGWQINIMTQEESAQKQAEESEVVRKLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF+ +EE+A V ISE+  IE FDE+T  E++ RAR+ L  +++  
Sbjct: 364 KLDVDEEVADILIEEGFSSLEEVAYVPISEMMEIEAFDEDTVNELRNRARDALLTMELAR 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K+ E  VS++L S+ G+  ++   L E  I T +DLA  +VD+L+
Sbjct: 424 EEKVEE--VSQDLRSLDGLTPELIGKLAEGNIHTRDDLAELAVDELV 468


>gi|168237988|ref|ZP_02663046.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Schwarzengrund str.
           SL480]
 gi|194733934|ref|YP_002116237.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Schwarzengrund str. CVM19633]
 gi|194709436|gb|ACF88657.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Schwarzengrund str.
           CVM19633]
 gi|197289151|gb|EDY28520.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Schwarzengrund str.
           SL480]
          Length = 500

 Score =  381 bits (979), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 198/483 (40%), Positives = 312/483 (64%), Gaps = 9/483 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEEVTMPTKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPGDR 181
                +F+D+ GEI++G VK+V   N+ +++      GN++ VI R++ + REN RPGDR
Sbjct: 124 AMVVDQFRDQEGEIVTGVVKKVNRDNISLEIKSEGMAGNAEAVILREDMLPRENFRPGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++  +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV
Sbjct: 184 IRGVLYAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+
Sbjct: 244 KTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVV 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +   + 
Sbjct: 304 DEDKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIEI 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  + 
Sbjct: 364 FTKYLDIDEEFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALTTLA 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKG 478
              +  + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL    G ++ K 
Sbjct: 424 QDQEASLGDNKPADDLLNLEGLDRDMAFKLAARGVCTLEDLADQGIDDLADIEGLTDEKA 483

Query: 479 GNI 481
           G +
Sbjct: 484 GEL 486


>gi|16766585|ref|NP_462200.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhimurium str. LT2]
 gi|56415219|ref|YP_152294.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Paratyphi A str. ATCC 9150]
 gi|62181798|ref|YP_218215.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Choleraesuis str. SC-B67]
 gi|161616293|ref|YP_001590258.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Paratyphi B str. SPB7]
 gi|167552065|ref|ZP_02345818.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Saintpaul str. SARA29]
 gi|167990148|ref|ZP_02571248.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar 4,[5],12:i:- str.
           CVM23701]
 gi|168231896|ref|ZP_02656954.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Kentucky str. CDC 191]
 gi|168243121|ref|ZP_02668053.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Heidelberg str. SL486]
 gi|168262702|ref|ZP_02684675.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Hadar str. RI_05P066]
 gi|168463490|ref|ZP_02697407.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Newport str. SL317]
 gi|168819644|ref|ZP_02831644.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Weltevreden str.
           HI_N05-537]
 gi|194442917|ref|YP_002042544.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Newport str. SL254]
 gi|194450306|ref|YP_002047316.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Heidelberg str. SL476]
 gi|194469393|ref|ZP_03075377.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Kentucky str. CVM29188]
 gi|197248686|ref|YP_002148213.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Agona str. SL483]
 gi|197265797|ref|ZP_03165871.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Saintpaul str. SARA23]
 gi|197364149|ref|YP_002143786.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Paratyphi A str. AKU_12601]
 gi|198243925|ref|YP_002217260.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Dublin str. CT_02021853]
 gi|200388465|ref|ZP_03215077.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Virchow str. SL491]
 gi|204928046|ref|ZP_03219246.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Javiana str.
           GA_MM04042433]
 gi|207858537|ref|YP_002245188.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Enteritidis str. P125109]
 gi|224585085|ref|YP_002638884.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Paratyphi C strain RKS4594]
 gi|238910082|ref|ZP_04653919.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Tennessee str. CDC07-0191]
 gi|20141550|sp|P37430|NUSA_SALTY RecName: Full=Transcription elongation protein nusA; AltName:
           Full=L factor; AltName: Full=N utilization substance
           protein A
 gi|16421846|gb|AAL22159.1| L factor [Salmonella enterica subsp. enterica serovar Typhimurium
           str. LT2]
 gi|56129476|gb|AAV78982.1| L factor [Salmonella enterica subsp. enterica serovar Paratyphi A
           str. ATCC 9150]
 gi|62129431|gb|AAX67134.1| transcription pausing; L factor [Salmonella enterica subsp.
           enterica serovar Choleraesuis str. SC-B67]
 gi|161365657|gb|ABX69425.1| hypothetical protein SPAB_04099 [Salmonella enterica subsp.
           enterica serovar Paratyphi B str. SPB7]
 gi|194401580|gb|ACF61802.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Newport str. SL254]
 gi|194408610|gb|ACF68829.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Heidelberg str. SL476]
 gi|194455757|gb|EDX44596.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Kentucky str. CVM29188]
 gi|195633199|gb|EDX51613.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Newport str. SL317]
 gi|197095626|emb|CAR61194.1| L factor [Salmonella enterica subsp. enterica serovar Paratyphi A
           str. AKU_12601]
 gi|197212389|gb|ACH49786.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Agona str. SL483]
 gi|197244052|gb|EDY26672.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Saintpaul str. SARA23]
 gi|197938441|gb|ACH75774.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Dublin str.
           CT_02021853]
 gi|199605563|gb|EDZ04108.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Virchow str. SL491]
 gi|204322368|gb|EDZ07565.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Javiana str.
           GA_MM04042433]
 gi|205323222|gb|EDZ11061.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Saintpaul str. SARA29]
 gi|205331138|gb|EDZ17902.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar 4,[5],12:i:- str.
           CVM23701]
 gi|205333927|gb|EDZ20691.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Kentucky str. CDC 191]
 gi|205337851|gb|EDZ24615.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Heidelberg str. SL486]
 gi|205343493|gb|EDZ30257.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Weltevreden str.
           HI_N05-537]
 gi|205348590|gb|EDZ35221.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Hadar str. RI_05P066]
 gi|206710340|emb|CAR34698.1| L factor [Salmonella enterica subsp. enterica serovar Enteritidis
           str. P125109]
 gi|224469613|gb|ACN47443.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Paratyphi C strain RKS4594]
 gi|261248453|emb|CBG26290.1| L factor [Salmonella enterica subsp. enterica serovar Typhimurium
           str. D23580]
 gi|267995484|gb|ACY90369.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhimurium str. 14028S]
 gi|301159837|emb|CBW19356.1| transcription termination/antitermination L factor [Salmonella
           enterica subsp. enterica serovar Typhimurium str.
           SL1344]
 gi|312914313|dbj|BAJ38287.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhimurium str. T000240]
 gi|320087734|emb|CBY97498.1| Transcription elongation protein nusA N utilization substance
           protein A; L factor [Salmonella enterica subsp. enterica
           serovar Weltevreden str. 2007-60-3289-1]
 gi|321225971|gb|EFX51025.1| Transcription termination protein NusA [Salmonella enterica subsp.
           enterica serovar Typhimurium str. TN061786]
 gi|322615292|gb|EFY12213.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 315996572]
 gi|322618349|gb|EFY15240.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 495297-1]
 gi|322622846|gb|EFY19690.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 495297-3]
 gi|322626832|gb|EFY23629.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 495297-4]
 gi|322631401|gb|EFY28161.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 515920-1]
 gi|322635332|gb|EFY32046.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 515920-2]
 gi|322643467|gb|EFY40030.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 531954]
 gi|322647097|gb|EFY43598.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. NC_MB110209-0054]
 gi|322648900|gb|EFY45345.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. OH_2009072675]
 gi|322655092|gb|EFY51403.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. CASC_09SCPH15965]
 gi|322657695|gb|EFY53963.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 19N]
 gi|322664191|gb|EFY60389.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 81038-01]
 gi|322667474|gb|EFY63636.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. MD_MDA09249507]
 gi|322674722|gb|EFY70814.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 414877]
 gi|322675645|gb|EFY71718.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 366867]
 gi|322682281|gb|EFY78304.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 413180]
 gi|322684884|gb|EFY80882.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 446600]
 gi|322716285|gb|EFZ07856.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Choleraesuis str. A50]
 gi|323131647|gb|ADX19077.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhimurium str. 4/74]
 gi|323191869|gb|EFZ77117.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 609458-1]
 gi|323199028|gb|EFZ84125.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 556150-1]
 gi|323204272|gb|EFZ89281.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 609460]
 gi|323207619|gb|EFZ92566.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 507440-20]
 gi|323211328|gb|EFZ96172.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 556152]
 gi|323214730|gb|EFZ99479.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. MB101509-0077]
 gi|323221210|gb|EGA05636.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. MB102109-0047]
 gi|323224049|gb|EGA08342.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. MB110209-0055]
 gi|323230302|gb|EGA14421.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. MB111609-0052]
 gi|323233278|gb|EGA17372.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 2009083312]
 gi|323239315|gb|EGA23365.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 2009085258]
 gi|323242434|gb|EGA26460.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 315731156]
 gi|323246944|gb|EGA30910.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. IA_2009159199]
 gi|323254123|gb|EGA37943.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. IA_2010008282]
 gi|323255240|gb|EGA39017.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. IA_2010008283]
 gi|323262703|gb|EGA46259.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. IA_2010008284]
 gi|323264013|gb|EGA47521.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. IA_2010008285]
 gi|323269399|gb|EGA52854.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. IA_2010008287]
 gi|326625038|gb|EGE31383.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Dublin str. 3246]
 gi|332990145|gb|AEF09128.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhimurium str. UK-1]
          Length = 500

 Score =  381 bits (979), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 198/483 (40%), Positives = 312/483 (64%), Gaps = 9/483 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEEVTMPTKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPGDR 181
                +F+D+ GEI++G VK+V   N+ +++      GN++ VI R++ + REN RPGDR
Sbjct: 124 AMVVDQFRDQEGEIVTGVVKKVNRDNISLEIKSEGMAGNAEAVILREDMLPRENFRPGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++  +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV
Sbjct: 184 IRGVLYAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+
Sbjct: 244 KTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVV 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +   + 
Sbjct: 304 DEDKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIEI 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  + 
Sbjct: 364 FTKYLDIDEEFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALATLA 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKG 478
              +  + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL    G ++ K 
Sbjct: 424 QDQEASLGDNKPADDLLNLEGLDRDMAFKLAARGVCTLEDLADQGIDDLADIEGLTDEKA 483

Query: 479 GNI 481
           G +
Sbjct: 484 GEL 486


>gi|332141181|ref|YP_004426919.1| transcription elongation factor NusA [Alteromonas macleodii str.
           'Deep ecotype']
 gi|327551203|gb|AEA97921.1| transcription elongation factor NusA [Alteromonas macleodii str.
           'Deep ecotype']
          Length = 498

 Score =  381 bits (978), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 197/467 (42%), Positives = 302/467 (64%), Gaps = 4/467 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK + R+ +   +  +I  A +       ++RV I+  +GD   FR   
Sbjct: 4   EILLVAEAVSNEKQVPREKIFEALEFAIASATKKKNEGEIEVRVSIDRTSGDFDTFRRWL 63

Query: 68  VV---EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           V+   +E EN   +I++  A+  +P I +G  V + +  + F R+  Q+AKQVI+QKVRE
Sbjct: 64  VIPDDQEQENPFAEITISAAQIDEPEIQLGDYVEEQIESIKFDRITTQTAKQVIVQKVRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVK 183
           AER +   E++DKVGE+++GTVK+V   N+I+DLGN ++GVI RD+ + RE  RPGDRV+
Sbjct: 124 AERQQMIAEYEDKVGELVTGTVKKVNRDNIIIDLGNNAEGVIYRDDMLPRETFRPGDRVR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
             +Y +R E RG Q+ +SRTHP  +V+LF +EVPEI    +++K+ +RDPGSRAK+AV +
Sbjct: 184 GLLYVIRPEARGAQLFISRTHPDMLVELFRLEVPEIAEETLEIKSAARDPGSRAKIAVKT 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  +DPVGACVGMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +V+DE
Sbjct: 244 NDKRLDPVGACVGMRGSRVQAVSGELGGERVDIVLWDENPAQFVINAMAPAEVASIVVDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   ++V V  + L+ AIGR GQNVRLASQLTGW ++++T E+ +   +++  +    F 
Sbjct: 304 DSNNMDVAVEADNLAQAIGRSGQNVRLASQLTGWELNVMTVEDLNKKHEEENAKVLNLFT 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
             +++DE  A +LV EGF  +EE+A V  SE+ ++EG DE+   E++ RAR +L    + 
Sbjct: 364 AGLDIDEEFASVLVDEGFTTLEEVAYVPASELLAVEGLDEDMVEELRNRARAFLTTRALA 423

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
            ++ +     +E L ++ G+   +   L   G+  +E+LA    DD+
Sbjct: 424 NEESLEGAEPTEALLNLEGMSKHVAYVLASRGVIDLEELAEQGTDDI 470


>gi|300718578|ref|YP_003743381.1| transcription elongation protein [Erwinia billingiae Eb661]
 gi|299064414|emb|CAX61534.1| Transcription elongation protein [Erwinia billingiae Eb661]
          Length = 495

 Score =  381 bits (978), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 199/478 (41%), Positives = 313/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RV I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALESALATATKKKYEQEIEVRVSIDRKSGDFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +V+EV   T +I+L  AR  D ++++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVDEVTMPTREITLDAARYEDEALNLGEYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
                +F+ + GEII+G VK+V   N+ +DLG N++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDQFRQQEGEIITGVVKKVNRDNISLDLGSNAEAVIIREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YAVRPEARGAQLFVSRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDNH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLA+QL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLAAQLSGWELNVMTVDDLQAKHQAEAHAAIDVFTKHL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V I+E+  I+G DEET   ++ RA+  L  + +  ++
Sbjct: 364 DIDEDFATVLVEEGFSSLEELAYVPINELLEIDGLDEETVEALRDRAKNALTTLALAKEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            + +   +E+L ++ G+D ++   L   G+ T+EDLA   VDDL    G ++ + G +
Sbjct: 424 SLGDNQPAEDLLNLEGLDRELAFKLAAIGVCTLEDLAEQGVDDLTDIEGLNDEQAGEL 481


>gi|229525295|ref|ZP_04414700.1| transcription termination protein NusA [Vibrio cholerae bv.
           albensis VL426]
 gi|229338876|gb|EEO03893.1| transcription termination protein NusA [Vibrio cholerae bv.
           albensis VL426]
          Length = 495

 Score =  381 bits (978), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 199/478 (41%), Positives = 309/478 (64%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG    FR   
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALETALATSTKKKYEIEIDVRVAIDRKTGAFETFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE+ T +IS   A   D S+ +G  + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVENVEHPTKEISFDAASFDDDSVQLGDYIEDQIDSVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  GE+++G VK+V    VI+DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AQIVEQFIDNEGELVTGVVKKVNRETVILDLGNNAEAVILREDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YKVAPEARGFQLFITRSKPEMLAELFRVEVPEIGEELIELKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIMDEDAH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +     Q++     + FM+ +
Sbjct: 304 SMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADLQKKHQEESMASIENFMKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++++  A LLV EGF+ +EE+A V ++E+  ++G DE+ A E++ RA+E L  I +  ++
Sbjct: 364 DIEQDFAELLVEEGFSTLEEIAYVPMNELLDVDGMDEDLADELRSRAKEALTTIALAKEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL---LGWSENKGGNI 481
               L  +E+L ++ G++  +   L   G+ T+EDLA   VDDL    G +E + G +
Sbjct: 424 SFEGLEPAEDLLALAGLERDMAFKLAAKGVATLEDLADQGVDDLEGIEGLTEQRAGEL 481


>gi|262163944|ref|ZP_06031683.1| transcription termination protein NusA [Vibrio mimicus VM223]
 gi|262027472|gb|EEY46138.1| transcription termination protein NusA [Vibrio mimicus VM223]
          Length = 495

 Score =  381 bits (978), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 198/478 (41%), Positives = 310/478 (64%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG    FR   
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALETALATSTKKKYEIEIDVRVAIDRKTGAFETFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE+ T +IS + A   D S+ +G  + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVENVEHPTKEISFEAASFDDESVQMGDYIEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  GE+++G VK+V    VI+DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AQIVEQFIDNEGELVTGVVKKVNRETVILDLGNNAEAVILREDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           + V  E RG Q+ ++R+ P+ + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 FKVAPEARGFQLFITRSKPEMLAELFRVEVPEIGEELIELKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIMDEDTH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +     Q++     + FM+ +
Sbjct: 304 SMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADLQKKHQEESMASIENFMKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           +++   A LLV EGF+ +EE+A V ++E+  ++G DE+ A E++ RA+E L  I +  ++
Sbjct: 364 DIEPDFAELLVEEGFSTLEEIAYVPMNELLDVDGMDEDLAEELRSRAKEALTTIALAKEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL---LGWSENKGGNI 481
               L  +E+L ++ G++ ++   L   G+ T+EDLA   VDDL    G +E + G +
Sbjct: 424 SFEGLEPAEDLLALAGLEREMAFKLAAKGVATLEDLADQGVDDLEGIEGLTEQRAGEL 481


>gi|28899231|ref|NP_798836.1| transcription elongation factor NusA [Vibrio parahaemolyticus RIMD
           2210633]
 gi|153838305|ref|ZP_01990972.1| transcription elongation factor NusA [Vibrio parahaemolyticus
           AQ3810]
 gi|260362206|ref|ZP_05775190.1| transcription termination factor NusA [Vibrio parahaemolyticus
           K5030]
 gi|260879074|ref|ZP_05891429.1| transcription termination factor NusA [Vibrio parahaemolyticus
           AN-5034]
 gi|260897745|ref|ZP_05906241.1| transcription termination factor NusA [Vibrio parahaemolyticus
           Peru-466]
 gi|260900801|ref|ZP_05909196.1| transcription termination factor NusA [Vibrio parahaemolyticus
           AQ4037]
 gi|28807455|dbj|BAC60720.1| N utilization substance protein A [Vibrio parahaemolyticus RIMD
           2210633]
 gi|149748294|gb|EDM59153.1| transcription elongation factor NusA [Vibrio parahaemolyticus
           AQ3810]
 gi|308088968|gb|EFO38663.1| transcription termination factor NusA [Vibrio parahaemolyticus
           Peru-466]
 gi|308089567|gb|EFO39262.1| transcription termination factor NusA [Vibrio parahaemolyticus
           AN-5034]
 gi|308108198|gb|EFO45738.1| transcription termination factor NusA [Vibrio parahaemolyticus
           AQ4037]
 gi|308111470|gb|EFO49010.1| transcription termination factor NusA [Vibrio parahaemolyticus
           K5030]
 gi|328474233|gb|EGF45038.1| transcription elongation factor NusA [Vibrio parahaemolyticus
           10329]
          Length = 495

 Score =  381 bits (978), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 201/482 (41%), Positives = 316/482 (65%), Gaps = 12/482 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG+   +R   
Sbjct: 4   EILAVAEAVSNEKAVPRERIFEALEIALATSTKKKYEIEIDVRVAIDRKTGEFVTYRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV++VE+ T +ISL+ A+  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVDQVESPTKEISLEAAQYEDDSVELGDYVEDEIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  G++I+G VK+V    +++DLGN ++ VI RD+ + REN RPGDRV+  +
Sbjct: 124 AQIVEQFIDNEGDLITGVVKKVNRDTIVLDLGNNAEAVILRDDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   I+++K  +RDPGSRAK+AV ++D 
Sbjct: 184 YKVAPEARGFQLFITRSKPEMLEELFRVEVPEIAEEIIELKGAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDEDAH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF----F 362
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T      + QK   E +Q     F
Sbjct: 304 SMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMT----VADLQKKHAEESQASIENF 359

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+ ++++E  A LLV EGF+ +EE+A V ++E+  I+G +EE   E++GRA++ L  I +
Sbjct: 360 MKYLDIEEDFAQLLVEEGFSTLEEIAYVPVNELLEIDGLNEELVEELRGRAKDALTTIAL 419

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL---LGWSENKGG 479
             ++    L  +++L  + G++ ++   L   G+ T+EDLA   +DDL    G +E + G
Sbjct: 420 AQEESFEGLEPADDLLGLEGLEREMAFKLAAKGVATLEDLADQGIDDLEGIEGLTEERAG 479

Query: 480 NI 481
            +
Sbjct: 480 EL 481


>gi|205354191|ref|YP_002227992.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Gallinarum str. 287/91]
 gi|205273972|emb|CAR38977.1| L factor [Salmonella enterica subsp. enterica serovar Gallinarum
           str. 287/91]
 gi|326629312|gb|EGE35655.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Gallinarum str. 9]
          Length = 500

 Score =  380 bits (977), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 197/483 (40%), Positives = 312/483 (64%), Gaps = 9/483 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEEVTMPTKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPGDR 181
                +F+D+ GEI++G VK+V   N+ +++      GN++ VI R++ + REN RPGDR
Sbjct: 124 AMVVDQFRDQEGEIVTGVVKKVNRDNISLEIKSEGMAGNAEAVILREDMLPRENFRPGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++  +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV
Sbjct: 184 IRGVLYAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA +  +V+
Sbjct: 244 KTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADIASIVV 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +   + 
Sbjct: 304 DEDKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIEI 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  + 
Sbjct: 364 FTKYLDIDEEFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALATLA 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKG 478
              +  + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL    G ++ K 
Sbjct: 424 QDQEASLGDNKPADDLLNLEGLDRDMAFKLAARGVCTLEDLADQGIDDLADIEGLTDEKA 483

Query: 479 GNI 481
           G +
Sbjct: 484 GEL 486


>gi|167035704|ref|YP_001670935.1| transcription elongation factor NusA [Pseudomonas putida GB-1]
 gi|325276164|ref|ZP_08141969.1| transcription elongation factor NusA [Pseudomonas sp. TJI-51]
 gi|166862192|gb|ABZ00600.1| NusA antitermination factor [Pseudomonas putida GB-1]
 gi|324098701|gb|EGB96742.1| transcription elongation factor NusA [Pseudomonas sp. TJI-51]
          Length = 493

 Score =  380 bits (977), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 200/462 (43%), Positives = 306/462 (66%), Gaps = 3/462 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + ++V+ EK +   V+   +  ++  A +  +    D+RVEIN  TG    FR   
Sbjct: 4   EVLLVVESVSNEKGVPPGVIFEALEVALATATKKRFEDEVDLRVEINRHTGSYETFRRWT 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV+E  +++   +  L   +D  P   +G V+ + +  ++FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVDEADLDDPAIETWLDKIKDTHPEAKVGDVIEEKIESIEFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +    ++++VGEIISGTVK+V   NVIVDLGN ++ ++ R++ I RE  R G R+++
Sbjct: 124 ERAQVVDAYRERVGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIIPRETFRVGVRLRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + ++R E RGPQ++LSRT PQ +++LF +EVPEI  G+++V A SRDPGSRAK+AV S 
Sbjct: 184 LLKEIRTENRGPQLILSRTAPQMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVRSK 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++DED
Sbjct: 244 DKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V ++ L+ AIGR GQNVRLASQLTGWT++++TE++    +Q +  +  + F+ 
Sbjct: 304 AHAMDIAVAEDNLAQAIGRGGQNVRLASQLTGWTLNVMTEKDIQAKQQAETGDILRNFID 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L    I  
Sbjct: 364 ELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDIVNELRARAKDRLLTKAIAT 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
           ++K+ +   +E+L S+ G+D  +   L   G+   EDLA  S
Sbjct: 424 EEKLADAHPAEDLLSLEGMDKDLAAELAVRGVVNREDLAEQS 465


>gi|71734581|ref|YP_276312.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           phaseolicola 1448A]
 gi|257482262|ref|ZP_05636303.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           tabaci ATCC 11528]
 gi|289646960|ref|ZP_06478303.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           aesculi str. 2250]
 gi|298488455|ref|ZP_07006486.1| Transcription termination protein NusA [Pseudomonas savastanoi pv.
           savastanoi NCPPB 3335]
 gi|71555134|gb|AAZ34345.1| N utilization substance protein A [Pseudomonas syringae pv.
           phaseolicola 1448A]
 gi|298157080|gb|EFH98169.1| Transcription termination protein NusA [Pseudomonas savastanoi pv.
           savastanoi NCPPB 3335]
 gi|330987054|gb|EGH85157.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           lachrymans str. M301315]
 gi|331011498|gb|EGH91554.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           tabaci ATCC 11528]
          Length = 493

 Score =  380 bits (977), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 199/462 (43%), Positives = 312/462 (67%), Gaps = 3/462 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + ++V+ EK +   V+   +  ++  A +  +    ++RVEIN +TG+   FR   
Sbjct: 4   EVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVELRVEINRQTGNYETFRRWT 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VVE+  +++   ++++  A+ + P    G ++ + +  ++FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVEDEDLDDPAYELAVDQAQVKKPGAVAGDLIEEKIDSIEFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G RV++
Sbjct: 124 ERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV S 
Sbjct: 184 LLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVRSK 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++DED
Sbjct: 244 DKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F++
Sbjct: 304 AHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNFIE 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + VDE +A +LV EGF  +EE+A V + E+ +I+GFDEE   E++ RA++ L    I  
Sbjct: 364 ELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEEIVNELRARAKDRLLTKAIAT 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
           ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S
Sbjct: 424 EEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLAEQS 465


>gi|289624601|ref|ZP_06457555.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           aesculi str. NCPPB3681]
 gi|330868245|gb|EGH02954.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           aesculi str. 0893_23]
          Length = 493

 Score =  380 bits (977), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 199/462 (43%), Positives = 312/462 (67%), Gaps = 3/462 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + ++V+ EK +   V+   +  ++  A +  +    ++RVEIN +TG+   FR   
Sbjct: 4   EVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVELRVEINRQTGNYETFRRWT 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VVE+  +++   ++++  A+ + P    G ++ + +  ++FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVEDEDLDDPAYELAVDQAQVKKPGAVAGDLIEEKIDSIEFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G RV++
Sbjct: 124 ERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV S 
Sbjct: 184 LLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVRSK 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++DED
Sbjct: 244 DKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F++
Sbjct: 304 AHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIHAKQQAETGDILRNFIE 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + VDE +A +LV EGF  +EE+A V + E+ +I+GFDEE   E++ RA++ L    I  
Sbjct: 364 ELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEEIVNELRARAKDRLLTKAIAT 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
           ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S
Sbjct: 424 EEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLAEQS 465


>gi|320322529|gb|EFW78622.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           glycinea str. B076]
          Length = 493

 Score =  380 bits (977), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 199/462 (43%), Positives = 312/462 (67%), Gaps = 3/462 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + ++V+ EK +   V+   +  ++  A +  +    ++RVEIN +TG+   FR   
Sbjct: 4   EVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVELRVEINRQTGNYETFRRWT 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VVE+  +++   ++++  A+ + P    G ++ + +  ++FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVEDEDLDDPAYELAVDQAQVKKPGAVAGDLIEEKIDSIEFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G RV++
Sbjct: 124 ERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRIGVRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV S 
Sbjct: 184 LLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVRSK 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++DED
Sbjct: 244 DKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F++
Sbjct: 304 AHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNFIE 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + VDE +A +LV EGF  +EE+A V + E+ +I+GFDEE   E++ RA++ L    I  
Sbjct: 364 ELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEEIVNELRARAKDRLLTKAIAT 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
           ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S
Sbjct: 424 EEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLAEQS 465


>gi|254787150|ref|YP_003074579.1| transcription elongation factor NusA [Teredinibacter turnerae
           T7901]
 gi|237684737|gb|ACR12001.1| transcription elongation / termination protein, N utilization
           substance A [Teredinibacter turnerae T7901]
          Length = 496

 Score =  380 bits (976), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 204/467 (43%), Positives = 316/467 (67%), Gaps = 3/467 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +ADAV+ EK +DRDV+   +  ++  A +  Y   SDI V I+  TGD    R   
Sbjct: 4   EILLVADAVSNEKGVDRDVIFQAIELALATATKKRYDEDSDIEVLIDRRTGDYVTKRRWL 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV++  +     Q +L+ A ++D ++  G V  + +  ++FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVDDDTLAELGTQFTLEEAHEKDTALVAGDVYEEVVENVEFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +++ +VGE++SG+VK+V   N+IVDLGN ++G++ R+E + RE  R  DRV++
Sbjct: 124 ERAQIVDQYRSRVGELVSGSVKKVTRDNIIVDLGNNAEGLLPREELVGREVFRMNDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + DVR E RGPQ+ LSR   + +++LF +EVPEI   ++ +K  +RDPGSRAK+AV ++
Sbjct: 184 LLMDVRPEARGPQLYLSRACSEMLIELFKIEVPEIAEEVIALKGAARDPGSRAKIAVSTN 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRGSRVQAV  EL +E+IDIV+W  + A FVINA+ PA +  +VLDE+
Sbjct: 244 DGRIDPVGACVGMRGSRVQAVSNELGNERIDIVLWDDNPAQFVINAMAPAEIESIVLDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V ++ L+ AIGR GQNVRLAS+LTGW I++++ E+ +  + ++     + FM+
Sbjct: 304 THAMDLAVDEDNLAQAIGRGGQNVRLASELTGWEINVMSVEQWNEKQAQEAGSSKEVFME 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
           A++VDE +A +LV EGF  +EE+A V + E  +IEGFDE+ A E++ RA++ L    +  
Sbjct: 364 ALDVDEDVADVLVDEGFTTLEEVAYVPLEEFLAIEGFDEDIANELRSRAKDALLTQALAT 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           +++      +E+L ++ G+D+++   L   G+  MEDLA  SVD+L+
Sbjct: 424 EEQTVGQEPAEDLLTMEGMDNELAFVLASRGVTCMEDLAEQSVDELM 470


>gi|238755155|ref|ZP_04616501.1| Transcription termination factor NusA [Yersinia ruckeri ATCC 29473]
 gi|238706602|gb|EEP98973.1| Transcription termination factor NusA [Yersinia ruckeri ATCC 29473]
          Length = 495

 Score =  380 bits (975), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 195/464 (42%), Positives = 304/464 (65%), Gaps = 1/464 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RV I+ +TGD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIEVRVSIDRKTGDFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            V+EV   T +I+L+ A+  DPS  +G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  AVDEVTMPTREITLEAAQFEDPSTQLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F+  +GEI++GTVK+V   ++ +DLGN ++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVEQFRQYLGEIVTGTVKKVNRDSIALDLGNNAEAVIGREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           YDVR E RG Q+ +SR+  + +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YDVRPEARGAQLFVSRSRSEMLIELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDRH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            ++V V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDVAVEASNLAQAIGRNGQNVRLASQLSGWELNVMTADDLQAKHQAEAHAAIDTFTKHL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V I E+  I+G DE+    ++ RA+  L  + +  ++
Sbjct: 364 DIDEDFATVLVEEGFSSLEELAYVPIKELLEIDGLDEDMVEALRDRAKAALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
            + +   +++L ++ G++  +   L   G+ T+EDLA   +DDL
Sbjct: 424 SLGDQKPADDLLNLEGLERSMAFKLAARGVCTLEDLAEQGIDDL 467


>gi|312963084|ref|ZP_07777569.1| N utilization substance protein A [Pseudomonas fluorescens WH6]
 gi|311282595|gb|EFQ61191.1| N utilization substance protein A [Pseudomonas fluorescens WH6]
          Length = 493

 Score =  380 bits (975), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 201/467 (43%), Positives = 307/467 (65%), Gaps = 13/467 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + ++V+ EK +   V+   +  ++  A +  +    D+RVEIN  TG    FR   
Sbjct: 4   EVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVDLRVEINRHTGAYETFRRWT 63

Query: 68  VVEE-------VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           VVEE       +E +  +++        P   +G VV + +  ++FGR+A Q+AKQVI+Q
Sbjct: 64  VVEEDDLDDPAIETWPSKVA-----QTHPGAQVGDVVEEKIESIEFGRIAAQTAKQVIVQ 118

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPG 179
           KVREAER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G
Sbjct: 119 KVREAERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVG 178

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
            R+++ + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+
Sbjct: 179 VRLRALLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKI 238

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +
Sbjct: 239 AVRSKDKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAI 298

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           ++DED   +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  
Sbjct: 299 IVDEDAHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDIL 358

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + F++ + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L  
Sbjct: 359 RNFIEELEVDEELAQVLVDEGFTSLEEIAYVPVEEMLNIDGFDEDIVNELRARAKDRLLT 418

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
             I  ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S
Sbjct: 419 KAIATEEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLAEQS 465


>gi|28871625|ref|NP_794244.1| N utilization substance protein A [Pseudomonas syringae pv. tomato
           str. DC3000]
 gi|213966648|ref|ZP_03394799.1| N utilization substance protein A [Pseudomonas syringae pv. tomato
           T1]
 gi|301383158|ref|ZP_07231576.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           tomato Max13]
 gi|302063407|ref|ZP_07254948.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           tomato K40]
 gi|302133780|ref|ZP_07259770.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           tomato NCPPB 1108]
 gi|28854877|gb|AAO57939.1| N utilization substance protein A [Pseudomonas syringae pv. tomato
           str. DC3000]
 gi|213928498|gb|EEB62042.1| N utilization substance protein A [Pseudomonas syringae pv. tomato
           T1]
 gi|330877234|gb|EGH11383.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           morsprunorum str. M302280PT]
 gi|331016647|gb|EGH96703.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           lachrymans str. M302278PT]
          Length = 493

 Score =  380 bits (975), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 198/462 (42%), Positives = 312/462 (67%), Gaps = 3/462 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + ++V+ EK +   V+   +  ++  A +  +    ++RVEIN +TG+   FR   
Sbjct: 4   EVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVELRVEINRQTGNYETFRRWT 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VVE+  +++   ++++  A+ + P    G ++ + +  ++FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVEDEDLDDPAYELAVDQAQAKKPGAVAGDLIEEKIDSIEFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G RV++
Sbjct: 124 ERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV S 
Sbjct: 184 LLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVRSK 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++DED
Sbjct: 244 DKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F++
Sbjct: 304 AHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNFIE 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L    I  
Sbjct: 364 ELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDIVNELRARAKDRLLTKAIAT 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
           ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S
Sbjct: 424 EEKLADAHPAEDLLSLEGMDKDLAMELAVRGVVTREDLAEQS 465


>gi|293390259|ref|ZP_06634593.1| transcription elongation factor NusA [Aggregatibacter
           actinomycetemcomitans D7S-1]
 gi|290950793|gb|EFE00912.1| transcription elongation factor NusA [Aggregatibacter
           actinomycetemcomitans D7S-1]
          Length = 498

 Score =  380 bits (975), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 194/469 (41%), Positives = 305/469 (65%), Gaps = 6/469 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + R+ +   +  +I  + +  Y    D+RV INP+TG+   FR   
Sbjct: 4   EILLAAEAVSNEKLLPREKIFEALESAIALSTKKKYEYDVDVRVAINPKTGEFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV N T +I+L+ AR  DP   +G  V D +  + F R+ +Q+A+QVI  K+REAER
Sbjct: 64  VVEEVNNPTKEITLEAARFEDPDAQVGDYVEDQIESIAFDRITMQTARQVISTKIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-----VIRRDETISRENLRPGDRV 182
            +   +F+ K G+II+ TVK+    +VI+D+   DG     V+ R++ + REN RPGDRV
Sbjct: 124 SKIVDQFRSKEGQIITATVKKSNRDSVILDVNGEDGNKAEAVMLREDMLPRENFRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  +Y V  E +G Q+ ++R  P+ +++LF +EVPEI   ++++++ +RDPGSRAK+AV 
Sbjct: 184 RGVLYKVSPESKGTQLFVTRAKPEMLIELFRLEVPEIGEELIEIRSAARDPGSRAKIAVK 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +V+D
Sbjct: 244 SNDKRIDPVGACVGMRGARVQAITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIVVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V +  L+ AIGR GQNVRLA+QLTGW ++++T +E +   Q + ++    F
Sbjct: 304 EDKHSMDIAVEEVNLAQAIGRNGQNVRLATQLTGWVLNVMTTQELNAKHQAEDDKVLNLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV-EIQGRAREYLEGID 421
           +  + +DE  A LL+ EGF+ +EELA V +SE+ +I+G ++E  V E+Q RA+  +    
Sbjct: 364 IDTLEIDEEFAQLLIDEGFSTLEELAYVSVSELTAIDGLEDEDLVEELQTRAKNAITAQA 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           +  ++ +++  + + L ++ G++  I   L E  I T+E+LA   VDDL
Sbjct: 424 LAEEEALKQAKIEDRLLNLEGMNRHIAFKLSEKQITTLEELAEQGVDDL 472


>gi|320330002|gb|EFW85989.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           glycinea str. race 4]
 gi|330875221|gb|EGH09370.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           glycinea str. race 4]
          Length = 493

 Score =  380 bits (975), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 199/462 (43%), Positives = 312/462 (67%), Gaps = 3/462 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + ++V+ EK +   V+   +  ++  A +  +    ++RVEIN +TG+   FR   
Sbjct: 4   EVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVELRVEINRQTGNYETFRRWT 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VVE+  +++   ++++  A+ + P    G ++ + +  ++FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVEDEDLDDPAYELAVDQAQVKKPGAVAGDLIEEKIDSIEFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G RV++
Sbjct: 124 ERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRIGVRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV S 
Sbjct: 184 LLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVRSK 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++DED
Sbjct: 244 DKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F++
Sbjct: 304 AHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNFIE 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + VDE +A +LV EGF  +EE+A V + E+ +I+GFDEE   E++ RA++ L    I  
Sbjct: 364 ELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEEIVNELRARAKDRLLTKAIAT 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
           ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S
Sbjct: 424 EEKLADAHPAEDLLSLGGMDKDLAMELAVRGVITREDLAEQS 465


>gi|88705684|ref|ZP_01103394.1| Transcription elongation protein nusA [Congregibacter litoralis
           KT71]
 gi|88700197|gb|EAQ97306.1| Transcription elongation protein nusA [Congregibacter litoralis
           KT71]
          Length = 497

 Score =  380 bits (975), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 203/480 (42%), Positives = 320/480 (66%), Gaps = 6/480 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK +  D++   +  ++  A +  Y   +DI V I+ ETGD    R   
Sbjct: 4   EILLVAEAVSNEKGVSEDIIFEAIESALAMATKKRYDEDADIEVTIDRETGDYETVRRWL 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV  +E+     Q + + A ++DPS+  G V  + +  + FGR+A Q+AKQVI+QKVR+A
Sbjct: 64  VVPDDELALLGTQFTTEEAIEQDPSLKPGDVHEEKVENVGFGRIAAQTAKQVIVQKVRDA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +    ++ +VGE+++GTVK+V   NVIVDLGN ++G++ R++ + RE  R  DRV++
Sbjct: 124 ERAQVVELYESRVGELVAGTVKKVTRDNVIVDLGNNAEGLLPREQLVGRETFRINDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + ++  E RGPQ++LSR  P+ +++LF +EVPEI   ++Q+++ +RDPGSRAK+AV ++
Sbjct: 184 ILKEISTETRGPQLILSRACPEMLIELFKIEVPEISEEVIQIRSAARDPGSRAKIAVKTN 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRGSRVQAV  EL +E++DIV+W  + A  VINA+ PA V  +V+DE+
Sbjct: 244 DQRIDPVGACVGMRGSRVQAVSNELDNERVDIVLWDDNPAQLVINAMSPAEVESIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V V ++ L+ AIGR GQNVRLAS+LTGWTI++++ +E    ++ +  +  Q FM 
Sbjct: 304 NVTMDVAVAEDNLAQAIGRAGQNVRLASELTGWTINVMSVDEALEKQEAEAGQVIQTFMD 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +LV EGF  +EE+A V + E+ SI+GFDE+ A E++ RA++ L  + I  
Sbjct: 364 KLDVDEDVAGILVDEGFTTLEEVAYVPLEEMTSIDGFDEDIAEELRARAKDALLTLAIAS 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
           ++++     +E+L ++ G+D  +   L   GI TMEDLA   VD+L+     +E + G +
Sbjct: 424 EEELGAQEPAEDLLTMDGMDRHLAFILSSRGIVTMEDLAEQGVDELMDIEDMTEERAGEL 483


>gi|170719906|ref|YP_001747594.1| transcription elongation factor NusA [Pseudomonas putida W619]
 gi|169757909|gb|ACA71225.1| NusA antitermination factor [Pseudomonas putida W619]
          Length = 493

 Score =  380 bits (975), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 199/462 (43%), Positives = 306/462 (66%), Gaps = 3/462 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + ++V+ EK +   V+   +  ++  A +  +    D+RVEIN  TG    FR   
Sbjct: 4   EVLLVVESVSNEKGVPPGVIFEALEVALATATKKRFEDEVDLRVEINRHTGSYETFRRWT 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV+E  +++   +  L    +  P   +G V+ + +  ++FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVDEADLDDPAIETWLAKIHETHPEAKVGDVIEEKIESIEFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +    ++++VGEIISGTVK+V   NVIVDLGN ++ ++ R++ I RE  R G R+++
Sbjct: 124 ERAQVVDAYRERVGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIIPRETFRVGVRLRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + ++R E RGPQ++LSRT PQ +++LF +EVPEI  G+++V A SRDPGSRAK+AV S 
Sbjct: 184 LLKEIRTENRGPQLILSRTAPQMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVRSK 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++DED
Sbjct: 244 DKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDENPAQFVINAMSPAEVAAIIVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V ++ L+ AIGR GQNVRLASQLTGWT++++TE++    +Q +  +  + F++
Sbjct: 304 AHAMDIAVAEDNLAQAIGRGGQNVRLASQLTGWTLNVMTEKDIQAKQQAETGDILRNFIE 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L    I  
Sbjct: 364 ELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDIVNELRARAKDRLLTKAIAT 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
           ++K+ +   +E+L S+ G+D  +   L   G+   EDLA  S
Sbjct: 424 EEKLADAHPAEDLLSLEGMDKDLAAELAVRGVVNREDLAEQS 465


>gi|329295928|ref|ZP_08253264.1| transcription elongation factor NusA [Plautia stali symbiont]
          Length = 495

 Score =  380 bits (975), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 200/478 (41%), Positives = 307/478 (64%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A R  Y    D+RV I+  +GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATRKKYEQEIDVRVSIDRRSGDFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV   T + +L+ AR  D + ++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVEEVTQPTRETTLEAARFEDEAFNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F+++ GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDQFREQEGEIITGVVKKVNRDNISLDLGNNAEAVIVREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDNH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLAS L+ W ++++T ++     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASLLSSWELNVMTVDDLQAKHQAEAHAAIDMFTKHL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V I+E+  I+G DEET   ++ RA+  L  + +  ++
Sbjct: 364 DIDEEFATVLVEEGFSSLEELAYVPINELLEIDGLDEETIEALRERAKNALTTLALAKEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            +     +E+L ++ G+D  +   L   G+ T+EDLA   VDDL    G  + K G +
Sbjct: 424 SLGNQEPAEDLLNLEGLDRALAYRLASKGVCTLEDLAEQGVDDLTDIEGLDDEKAGAL 481


>gi|126664888|ref|ZP_01735872.1| transcription elongation factor NusA [Marinobacter sp. ELB17]
 gi|126631214|gb|EBA01828.1| transcription elongation factor NusA [Marinobacter sp. ELB17]
          Length = 497

 Score =  380 bits (975), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 200/481 (41%), Positives = 317/481 (65%), Gaps = 7/481 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+L + ++V+ EK +++DV+   +  ++  AA+  +    +DIRV I+  TG+   FR  
Sbjct: 4   EILLVVESVSNEKGVEKDVIFEAIELALATAAKKRFDDEDADIRVSIDRRTGEYDTFRRW 63

Query: 67  EVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
            VV+   V     +++ + A D  P +  G +  + +  + FGR+  Q+AKQ+I QKVRE
Sbjct: 64  LVVDNDAVPALGTELTFQEAEDISPDLQPGDMHEERIDSVAFGRIGAQAAKQIIFQKVRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVK 183
           AER +    ++ +VGE++SGTVK+V   NVIVDLGN ++ ++ R+  I+RE  R GDRV+
Sbjct: 124 AERTKIVDSYRGRVGELVSGTVKKVTRDNVIVDLGNNAEALLPREHLIARETFRMGDRVR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           S + ++R + RGPQ++LSR+  + +++LF +EVPEI   +++++  +RDPGSRAK+AV +
Sbjct: 184 SLLLEIRTDHRGPQLILSRSDSKMLIELFRIEVPEIAEELIEIRGAARDPGSRAKIAVKT 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  IDPVGACVGMRGSRVQAV  EL  E++DIV+W  + A  VINA+ PA V  +V+DE
Sbjct: 244 NDRRIDPVGACVGMRGSRVQAVSNELNGERVDIVLWDDNPAQLVINAMAPAEVASIVMDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   ++V V  + L+ AIGR GQNVRLA++LTGWT++++TEEE    ++++     + F 
Sbjct: 304 DRHTMDVAVAADNLAQAIGRNGQNVRLATELTGWTLNVMTEEEAGERQEQEQGRLLEHFT 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
           + +++DE  A +L+ EGF+ +EE+A + + E+ +IEGFDEET  E++ RA++ L    + 
Sbjct: 364 KHLDIDEEFAGVLIDEGFSSIEEVAYIPMEEMLAIEGFDEETVTELRKRAKDALLNQALA 423

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGN 480
            ++ +     +E+L ++ GID  +   L   GI+TMEDLA  SV DLL   G +E + G 
Sbjct: 424 NEEALDGAEPAEDLLAMEGIDRGLAFKLAGMGIRTMEDLAEQSVGDLLEIEGMNEERAGQ 483

Query: 481 I 481
           +
Sbjct: 484 L 484


>gi|77457005|ref|YP_346510.1| transcription elongation factor NusA [Pseudomonas fluorescens
           Pf0-1]
 gi|77381008|gb|ABA72521.1| transcription termination factor [Pseudomonas fluorescens Pf0-1]
          Length = 493

 Score =  380 bits (975), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 201/467 (43%), Positives = 307/467 (65%), Gaps = 13/467 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + ++V+ EK +   V+   +  ++  A +  +    D+RVEIN  TG    FR   
Sbjct: 4   EVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVDLRVEINRHTGSYETFRRWT 63

Query: 68  VVEE-------VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           VVEE       +E +  +++     +  P   +G VV + +  ++FGR+A Q+AKQVI+Q
Sbjct: 64  VVEENDLDDPAIETWPSKVA-----ETHPGAKVGDVVEEKIESIEFGRIAAQTAKQVIVQ 118

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPG 179
           KVREAER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G
Sbjct: 119 KVREAERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVG 178

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
            R+++ + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+
Sbjct: 179 VRLRALLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKI 238

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +
Sbjct: 239 AVRSKDKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAI 298

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           ++DED   +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  
Sbjct: 299 IVDEDAHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDIL 358

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + F+  + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L  
Sbjct: 359 RNFIDELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDIVNELRARAKDRLLT 418

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
             I  ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S
Sbjct: 419 KAIATEEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLAEQS 465


>gi|66047408|ref|YP_237249.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           syringae B728a]
 gi|289676023|ref|ZP_06496913.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           syringae FF5]
 gi|302185431|ref|ZP_07262104.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           syringae 642]
 gi|63258115|gb|AAY39211.1| Transcription termination factor NusA:Transcription termination
           factor NusA, C-terminal duplication [Pseudomonas
           syringae pv. syringae B728a]
 gi|330937945|gb|EGH41732.1| transcription elongation factor NusA [Pseudomonas syringae pv. pisi
           str. 1704B]
          Length = 493

 Score =  379 bits (974), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 198/462 (42%), Positives = 312/462 (67%), Gaps = 3/462 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + ++V+ EK +   V+   +  ++  A +  +    ++RVEIN +TG+   FR   
Sbjct: 4   EVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVELRVEINRQTGNYETFRRWT 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VVE+  +++   ++++  A+ + P    G ++ + +  ++FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVEDEDLDDPAYELAVDQAQAKKPGAVAGDLIEEKIDSIEFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G RV++
Sbjct: 124 ERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV S 
Sbjct: 184 LLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVRSK 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++DED
Sbjct: 244 DKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F++
Sbjct: 304 AHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNFIE 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L    I  
Sbjct: 364 ELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDIVNELRARAKDRLLTKAIAT 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
           ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S
Sbjct: 424 EEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLAEQS 465


>gi|126175440|ref|YP_001051589.1| transcription elongation factor NusA [Shewanella baltica OS155]
 gi|125998645|gb|ABN62720.1| NusA antitermination factor [Shewanella baltica OS155]
          Length = 499

 Score =  379 bits (974), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 197/467 (42%), Positives = 309/467 (66%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TG    FR   
Sbjct: 4   EILLVAEAVSNEKAVPREKIFEALEIALATATKKKYEGDIDVRVAIDRKTGGYDTFRRWM 63

Query: 68  VV----EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           VV    E +EN   +I+L+ AR  +P I  G  + D +  + F R+  Q+AKQVI+QKVR
Sbjct: 64  VVDDHGEALENPYREITLEAARYENPDIQPGEFIEDDIESVVFDRITTQTAKQVIVQKVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +   +F+D+ GE+I+G VK+    +V+VDLGN +DGV+ R++ ISRE+ RPGDRV
Sbjct: 124 EAERAQVVEQFQDQEGELITGIVKKATRESVVVDLGNNADGVLFREDLISRESFRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ +Y VR E RG Q+ LSRT P+ +++LF +EVPEI + ++++   +RDPG+RAK+AV 
Sbjct: 184 RALLYSVRPEARGAQLFLSRTKPEMLIELFRVEVPEIADELIEIMGAARDPGARAKIAVK 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A +VINA+ PA V  +++D
Sbjct: 244 SNDRRIDPIGACVGMRGARVQAVSNELGGERVDIVLWDDNPAQYVINAMAPADVASIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLA+QLTGW ++++T E+ +   Q +  +  + F
Sbjct: 304 EDNHSMDIAVEADSLAQAIGRNGQNVRLATQLTGWVLNVMTVEDMNKKHQAESAKVVELF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           + +++VDE  A +L  EGF  +EE+A V +SE+ +I+GFDE+    ++ RA+  +    +
Sbjct: 364 VNSLDVDEDFAQVLADEGFTSLEEVAYVPVSELLAIDGFDEDLVEALRERAKAAISTRAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDD 469
             ++ +  +  SEEL ++ G+D  +       GI+T+EDLA   +DD
Sbjct: 424 ATEEALDGVEPSEELLALEGVDRHLAYVFASKGIETLEDLAEQGIDD 470


>gi|330963974|gb|EGH64234.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           actinidiae str. M302091]
          Length = 493

 Score =  379 bits (974), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 198/462 (42%), Positives = 312/462 (67%), Gaps = 3/462 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + ++V+ EK +   V+   +  ++  A +  +    ++RVEIN +TG+   FR   
Sbjct: 4   EVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVELRVEINRQTGNYETFRRWT 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VVE+  +++   ++++  A+ + P    G ++ + +  ++FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVEDEDLDDPAYELAVDQAQAKKPGAVAGDLIEEKIDSIEFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G RV++
Sbjct: 124 ERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV S 
Sbjct: 184 LLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVRSK 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++DED
Sbjct: 244 DKRIDPQGACIGMRGSRVQAVSGELVGERVDIVLWDDNPAQFVINAMSPAEVAAIIVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F++
Sbjct: 304 AHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNFIE 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L    I  
Sbjct: 364 ELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDIVNELRARAKDRLLTKAIAT 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
           ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S
Sbjct: 424 EEKLADAHPAEDLLSLEGMDKDLAMELAVRGVVTREDLAEQS 465


>gi|16762052|ref|NP_457669.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. CT18]
 gi|29143541|ref|NP_806883.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. Ty2]
 gi|213621934|ref|ZP_03374717.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. E98-2068]
 gi|213645859|ref|ZP_03375912.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. J185]
 gi|25299784|pir||AI0901 L factor [imported] - Salmonella enterica subsp. enterica serovar
           Typhi (strain CT18)
 gi|16504355|emb|CAD07807.1| L factor [Salmonella enterica subsp. enterica serovar Typhi]
 gi|29139175|gb|AAO70743.1| L factor [Salmonella enterica subsp. enterica serovar Typhi str.
           Ty2]
          Length = 500

 Score =  379 bits (974), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 197/483 (40%), Positives = 311/483 (64%), Gaps = 9/483 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEEVTMPTKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPGDR 181
                +F+D+ GEI++G VK+V   N+ +++      GN++ VI R++ + REN RPGDR
Sbjct: 124 AMVVDQFRDQEGEIVTGVVKKVNRDNISLEIKSEGMAGNAEAVILREDMLPRENFRPGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++  +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV
Sbjct: 184 IRGVLYAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+
Sbjct: 244 KTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVV 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   +++ V    L+ AIGR GQNV LASQL+GW ++++T ++     Q + +   + 
Sbjct: 304 DEDKHTMDIAVEAGNLAQAIGRNGQNVHLASQLSGWELNVMTVDDLQAKHQAEAHAAIEI 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  + 
Sbjct: 364 FTKYLDIDEEFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALATLA 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKG 478
              +  + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL    G ++ K 
Sbjct: 424 QDQEASLGDNKPADDLLNLEGLDRDMAFKLAARGVCTLEDLADQGIDDLADIEGLTDEKA 483

Query: 479 GNI 481
           G +
Sbjct: 484 GEL 486


>gi|330969650|gb|EGH69716.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           aceris str. M302273PT]
          Length = 493

 Score =  379 bits (974), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 198/462 (42%), Positives = 312/462 (67%), Gaps = 3/462 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + ++V+ EK +   V+   +  ++  A +  +    ++RVEIN +TG+   FR   
Sbjct: 4   EVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVELRVEINRQTGNYETFRRWT 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VVE+  +++   ++++  A+ + P    G ++ + +  ++FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVEDEDLDDPAYELAVDQAQAKKPGAVAGDLIEEKIDSIEFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G RV++
Sbjct: 124 ERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV S 
Sbjct: 184 LLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKVAVRSK 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++DED
Sbjct: 244 DKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F++
Sbjct: 304 AHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNFIE 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L    I  
Sbjct: 364 ELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDIVNELRARAKDRLLTKAIAT 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
           ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S
Sbjct: 424 EEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLAEQS 465


>gi|226940848|ref|YP_002795922.1| transcription elongation factor NusA [Laribacter hongkongensis
           HLHK9]
 gi|226715775|gb|ACO74913.1| NusA [Laribacter hongkongensis HLHK9]
          Length = 497

 Score =  379 bits (974), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 201/470 (42%), Positives = 311/470 (66%), Gaps = 9/470 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS-----DIRVEINPETGDISL 62
           E+L + DA+A EK++ +D+V   +  ++  A +      +     D+RV I+  TG    
Sbjct: 4   EILLLVDALAREKNVSKDIVFGALELALASATKKKISQDTNQDEIDVRVSIDRHTGAYET 63

Query: 63  FRLLEVVEEVENY--TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           FR   VVE+ ++   + QI++  A + +    +G +  +P+  ++FGR+  Q+AKQVI+Q
Sbjct: 64  FRRWTVVEDNDHEFPSRQIAMSDAAEHEVEAVVGTIKEEPVEAIEFGRIGAQTAKQVILQ 123

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           K+R+AER++   +F D+  +++SGT+KR+E GNVI+DLG  + ++ R++ I +ENLR GD
Sbjct: 124 KIRDAEREQVLNDFLDRNEKLVSGTIKRIERGNVIIDLGKLEALLPREQQIPKENLRVGD 183

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RVK+Y+  V R  RGPQ++LSR  PQF+ +LF  EVPEI +G++++K  +RD GSRAK+A
Sbjct: 184 RVKAYLLRVDRMGRGPQIILSRIAPQFITELFRQEVPEIDDGMLEIKGCARDAGSRAKIA 243

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V ++D  +DP G C+GMRGSRVQAV  EL  E++DIV+W+ D   +VINAL PA V +++
Sbjct: 244 VKANDPRLDPQGTCIGMRGSRVQAVTNELGGERVDIVLWAGDIVQYVINALSPAEVQRIL 303

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   ++V+V ++QL+LAIGR GQNVRLAS+LTGW ++I+T  E     + +     Q
Sbjct: 304 IDEDKHAMDVVVDEDQLALAIGRGGQNVRLASELTGWVLNIMTVAEAEEKHEAEDAAMKQ 363

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM A++VD+ +A +L +EGF  +EE+A V + E+  I  FD ET  E++ RARE L   
Sbjct: 364 LFMDALDVDQDVADVLASEGFTTLEEIAYVPLEEMLQISYFDAETVNELRSRAREALLTQ 423

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
            I  ++K+    V + L  +PG+   + V L ENG+ T +DLA  +VD+L
Sbjct: 424 AIASEEKMN--SVEDALRELPGMTQDVLVKLAENGVTTRDDLADLAVDEL 471


>gi|330888659|gb|EGH21320.1| transcription elongation factor NusA [Pseudomonas syringae pv. mori
           str. 301020]
          Length = 493

 Score =  379 bits (974), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 198/462 (42%), Positives = 312/462 (67%), Gaps = 3/462 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + ++V+ EK +   V+   +  ++  A +  +    ++RVEIN +TG+   FR   
Sbjct: 4   EVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVELRVEINRQTGNYETFRRWT 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VVE+  +++   ++++  A+ + P    G ++ + +  ++FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVEDEDLDDPAYELAVDQAQVKKPGAVAGDLIEEKIDSIEFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G RV++
Sbjct: 124 ERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSR+K+AV S 
Sbjct: 184 LLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRSKIAVRSK 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++DED
Sbjct: 244 DKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F++
Sbjct: 304 AHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNFIE 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + VDE +A +LV EGF  +EE+A V + E+ +I+GFDEE   E++ RA++ L    I  
Sbjct: 364 ELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEEIVNELRARAKDRLLTKAIAT 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
           ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S
Sbjct: 424 EEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLAEQS 465


>gi|251792720|ref|YP_003007446.1| transcription elongation factor NusA [Aggregatibacter aphrophilus
           NJ8700]
 gi|247534113|gb|ACS97359.1| transcription elongation factor NusA [Aggregatibacter aphrophilus
           NJ8700]
          Length = 498

 Score =  379 bits (974), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 195/469 (41%), Positives = 306/469 (65%), Gaps = 6/469 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + R+ +   +  +I  + +  Y    D+RV INP+TG+   FR   
Sbjct: 4   EILLAAEAVSNEKLLPREKIFEALESAIALSTKKKYEYEVDVRVTINPKTGEFDTFRRWA 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE V + T +I+L+ AR  +P I +G  V D +  + F R+A+Q+A+QVI  K+REAER
Sbjct: 64  VVENVMSPTKEITLEAARFENPDIQLGDYVEDQIESIAFDRIAMQTARQVISTKIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-----VIRRDETISRENLRPGDRV 182
            +   +F+ K G+I++ TVK+    ++I+D+   DG     V+ R++ + REN RPGDRV
Sbjct: 124 SKIVDQFRAKEGQIVTATVKKSNRDSIILDVNGEDGNKAEAVMLREDMLPRENFRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  +Y V  E +G Q+ ++R  P+ +++LF +EVPEI   ++++++ +RDPGSRAK+AV 
Sbjct: 184 RGVLYKVNPESKGTQLFVTRAKPEMLIELFRLEVPEIGEELIEIRSAARDPGSRAKIAVK 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D  IDPVGACVGMRGSRVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +V+D
Sbjct: 244 SNDKRIDPVGACVGMRGSRVQAITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIVVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V +  L+ AIGR GQNVRLA+QLTGWT++++T EE S   Q + N+    F
Sbjct: 304 EDKHAMDIAVEEVNLAQAIGRNGQNVRLATQLTGWTLNVMTTEELSEKHQAEDNKVLNLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV-EIQGRAREYLEGID 421
           + A+ +DE  A LL+ EGF+ +EELA V + E+ +I+G ++   V E+Q RA+  +    
Sbjct: 364 IDALEIDEEFAQLLIDEGFSTLEELAYVPVRELTAIDGLEDGDLVEELQTRAKNAITAKA 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           +  ++ +++  + + L ++ G++  I   L E  I T+E+LA   VDDL
Sbjct: 424 LAEEEALKKAQIEDRLLNLEGMNRHIAFKLAEKQITTLEELAEQGVDDL 472


>gi|330950306|gb|EGH50566.1| transcription elongation factor NusA [Pseudomonas syringae Cit 7]
          Length = 493

 Score =  379 bits (974), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 197/459 (42%), Positives = 310/459 (67%), Gaps = 3/459 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + ++V+ EK +   V+   +  ++  A +  +    ++RVEIN +TG+   FR   
Sbjct: 4   EVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVELRVEINRQTGNYETFRRWT 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VVE+  +++   + ++  A+ + P    G ++ + +  ++FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVEDEDLDDPAHEFAVDQAQAKKPGAVAGDLIEEKIESIEFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G RV++
Sbjct: 124 ERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV S 
Sbjct: 184 LLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVRSK 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++DED
Sbjct: 244 DKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F++
Sbjct: 304 AHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNFIE 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + V+E +A +LV EGF  +EE+A V + E+ +I+GFDEE   E++ RA++ L    I  
Sbjct: 364 ELQVEEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEEIVNELRARAKDCLLTKAIAT 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLA 463
           ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA
Sbjct: 424 EEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLA 462


>gi|238760242|ref|ZP_04621387.1| Transcription termination factor NusA [Yersinia aldovae ATCC 35236]
 gi|238701565|gb|EEP94137.1| Transcription termination factor NusA [Yersinia aldovae ATCC 35236]
          Length = 495

 Score =  379 bits (973), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 193/464 (41%), Positives = 303/464 (65%), Gaps = 1/464 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RV I+ +TGD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIEVRVSIDRKTGDFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            V+EV   T +I+L  A+  DP++ +G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  AVDEVTMPTREITLDAAQYEDPTLQLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F+  +GEI++G VK+V   ++ +DLGN ++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVEQFRQYLGEIVTGIVKKVNRDSIALDLGNNAEAVIGREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           YDVR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YDVRPEARGAQLFVSRSRPEMLIELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDRH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            ++V V    L+ AIGR GQNVRLA+QL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDVAVEASNLAQAIGRNGQNVRLAAQLSGWELNVMTADDLQAKHQAEAHAAIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
            +DE  A  LV EGF+ +EELA V + E+  I+G DE+T   ++ RA+  L  + +  ++
Sbjct: 364 AIDEDFATTLVEEGFSSLEELAYVPMKELLEIDGLDEDTVEALRDRAKAALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
            + +   +++L ++ G++  +   L   G+ T+EDLA   +DDL
Sbjct: 424 SLGDQKPADDLLNLAGLERSMAFKLAARGVCTLEDLAEQGIDDL 467


>gi|317046740|ref|YP_004114388.1| transcription termination factor NusA [Pantoea sp. At-9b]
 gi|316948357|gb|ADU67832.1| transcription termination factor NusA [Pantoea sp. At-9b]
          Length = 495

 Score =  379 bits (973), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 198/478 (41%), Positives = 309/478 (64%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+  +GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVSIDRRSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +V+EV   T +I+L+ AR  D + ++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVDEVTQPTREITLEAARFEDEAFNLGDFVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
                +F+++ G+II+G VK+V   N+ +DLG N++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDQFREQEGDIITGVVKKVNRDNITLDLGSNAEAVIVREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDNH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDMFTKHL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V I+E+  I+G DE+T   ++ RA+  L  + +  ++
Sbjct: 364 DIDEEFATILVEEGFSSLEELAYVPINELLEIDGLDEDTVEALRERAKNALTTLALAKEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
                  +E+L ++ G+D  +   L   G+ T+EDLA   VDDL    G  + K G +
Sbjct: 424 SRGNQEPAEDLLNLEGLDRALAYRLAAIGVCTLEDLAEQGVDDLTDIEGLDDEKAGAL 481


>gi|332306994|ref|YP_004434845.1| NusA antitermination factor [Glaciecola agarilytica 4H-3-7+YE-5]
 gi|332174323|gb|AEE23577.1| NusA antitermination factor [Glaciecola agarilytica 4H-3-7+YE-5]
          Length = 497

 Score =  379 bits (973), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 202/481 (41%), Positives = 310/481 (64%), Gaps = 7/481 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK + R+ +   +  +I  A +       ++RV I+  TGD   FR   
Sbjct: 4   EILLVAEAVSNEKQVPREKIFEALEFAIASATKKKTEGEIEVRVSIDRVTGDFDTFRRWM 63

Query: 68  VV---EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           V+   ++ EN   +++L  A+  +P I +G  V D +  + F R+  Q+AKQVI+QKVRE
Sbjct: 64  VIADDQKQENPFAEMTLSAAQIDEPDIQLGEYVEDQIESIKFDRITTQTAKQVIVQKVRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVK 183
           AER +   E++++VG++I+GTVK+V   N+I+DLGN ++GVI RD+ + RE  RPGDRV+
Sbjct: 124 AERAQVMAEYEERVGDLITGTVKKVNRDNIIIDLGNNAEGVIYRDDMLPRETFRPGDRVR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
             +Y +R E RG Q+ +SRTHP  +V+LF +EVPEI    +++KA +RDPGSRAK+AV +
Sbjct: 184 GLLYVIRPEARGAQLFISRTHPDMLVELFRLEVPEIAEETLEIKAAARDPGSRAKIAVKT 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  +DPVGACVGMRGSRVQAV +EL  E++DIV+W  + A FVINA+ PA V  +V+DE
Sbjct: 244 NDKRLDPVGACVGMRGSRVQAVSSELSGERVDIVLWDDNPAQFVINAMAPAEVASIVVDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   ++V V  + L+ AIGR GQNVRLA+QLTGW ++++T E+ +   +++ ++    F+
Sbjct: 304 DNHTMDVAVESDNLAQAIGRSGQNVRLAAQLTGWELNVMTVEDLNSKHEEENSKVLAVFV 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
             +++DE  A +LV EGF+ +EE+A V I+E+  I+G DE+   +++ RAR  L    + 
Sbjct: 364 NGLDIDEDFAAVLVDEGFSTLEEIAYVPINELLEIDGLDEDIVEDLRSRARAALTTQALA 423

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVD---DLLGWSENKGGN 480
            ++ +      EEL S+ G++  +   L   GI  +E LA   VD   D+    E K G 
Sbjct: 424 NEETLEASEPKEELLSLAGMERHVAYTLASRGITDLEALAEQGVDEISDIEELDEEKAGQ 483

Query: 481 I 481
           +
Sbjct: 484 L 484


>gi|261867879|ref|YP_003255801.1| transcription elongation factor NusA [Aggregatibacter
           actinomycetemcomitans D11S-1]
 gi|261413211|gb|ACX82582.1| transcription elongation factor NusA [Aggregatibacter
           actinomycetemcomitans D11S-1]
          Length = 498

 Score =  379 bits (973), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 194/469 (41%), Positives = 305/469 (65%), Gaps = 6/469 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + R+ +   +  +I  + +  Y    D+RV INP+TG+   FR   
Sbjct: 4   EILLAAEAVSNEKLLPREKIFEALESAIALSTKKKYEYDVDVRVAINPKTGEFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV N T +I+L+ AR  DP   +G  V D +  + F R+ +Q+A+QVI  K+REAER
Sbjct: 64  VVEEVNNPTKEITLEAARFEDPDAQVGDYVEDQIESIAFDRITMQTARQVISTKIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-----VIRRDETISRENLRPGDRV 182
            +   +F+ K G+II+ TVK+    +VI+D+   DG     V+ R++ + REN RPGDRV
Sbjct: 124 SKIVDQFRSKEGQIITATVKKSNRDSVILDVNGEDGNKAEAVMLREDMLPRENFRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  +Y V  E +G Q+ ++R  P+ +++LF +EVPEI   ++++++ +RDPGSRAK+AV 
Sbjct: 184 RGVLYKVSPESKGTQLFVTRAKPEMLIELFRLEVPEIGEELIEIRSAARDPGSRAKIAVK 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +V+D
Sbjct: 244 SNDKRIDPVGACVGMRGARVQAITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIVVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V +  L+ AIGR GQNVRLA+QLTGW ++++T +E +   Q + ++    F
Sbjct: 304 EDKHAMDIAVEEVNLAQAIGRNGQNVRLATQLTGWVLNVMTTQELNAKHQAEDDKVLNLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV-EIQGRAREYLEGID 421
           +  + +DE  A LL+ EGF+ +EELA V +SE+ +I+G ++E  V E+Q RA+  +    
Sbjct: 364 IDTLEIDEEFAQLLIDEGFSTLEELAYVSVSELTAIDGLEDEDLVEELQTRAKNAITAQV 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           +  ++ +++  + + L ++ G++  I   L E  I T+E+LA   VDDL
Sbjct: 424 LAEEEALKQAKIEDRLLNLEGMNRHIAFKLSEKQITTLEELAEQGVDDL 472


>gi|237798562|ref|ZP_04587023.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           oryzae str. 1_6]
 gi|331021415|gb|EGI01472.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           oryzae str. 1_6]
          Length = 493

 Score =  379 bits (972), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 198/462 (42%), Positives = 312/462 (67%), Gaps = 3/462 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + ++V+ EK +   V+   +  ++  A +  +    ++RVEIN +TG+   FR   
Sbjct: 4   EVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVELRVEINRQTGNYETFRRWT 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VVE+  +++   ++++  A+ + P    G ++ + +  ++FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVEDEDLDDPAYELAVDQAQAKRPGAVAGELIEEKIDSIEFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G RV++
Sbjct: 124 ERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV S 
Sbjct: 184 LLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVRSK 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++DED
Sbjct: 244 DKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F++
Sbjct: 304 AHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNFIE 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L    I  
Sbjct: 364 ELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDIVNELRARAKDRLLTKAIAT 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
           ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S
Sbjct: 424 EEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLAEQS 465


>gi|22124601|ref|NP_668024.1| transcription elongation factor NusA [Yersinia pestis KIM 10]
 gi|45440440|ref|NP_991979.1| transcription elongation factor NusA [Yersinia pestis biovar
           Microtus str. 91001]
 gi|21957405|gb|AAM84275.1|AE013671_2 transcription pausing L factor [Yersinia pestis KIM 10]
 gi|45435297|gb|AAS60856.1| N utilization substance protein A [Yersinia pestis biovar Microtus
           str. 91001]
          Length = 501

 Score =  379 bits (972), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 199/487 (40%), Positives = 313/487 (64%), Gaps = 6/487 (1%)

Query: 1   MVSANRL--ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETG 58
           M  A R+  E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RV I+ +TG
Sbjct: 1   MDEATRMNKEILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIEVRVSIDRKTG 60

Query: 59  DISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           D   FR    V+EV   T +I+L  A+  DPS+ +G  V D +  + F R+  Q+AKQVI
Sbjct: 61  DFDTFRRWVAVDEVTMPTREITLDAAQFEDPSLQLGDYVEDQIESVTFDRITTQTAKQVI 120

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLR 177
           +QKVREAER     +F+  +G+I++G VK+V   ++ +DLG N++ VI R++ + REN R
Sbjct: 121 VQKVREAERAMVVEQFRQYLGQIVTGIVKKVSRDSIALDLGHNAEAVIGREDMLPRENFR 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
           PGDR++  +YDVR E RG Q+ +SR+  + +V+LF +EVPEI   ++++KA +RDPGSRA
Sbjct: 181 PGDRIRGVLYDVRPEARGAQLFVSRSRSEMLVELFRIEVPEIGEELIEIKAAARDPGSRA 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV ++D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V 
Sbjct: 241 KIAVKTNDKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVA 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            +V+DED   ++V V    L+ AIGR GQNVRLA+QL+GW ++++T ++     Q + + 
Sbjct: 301 SIVVDEDKHTMDVAVEASNLAQAIGRNGQNVRLAAQLSGWELNVMTADDLQAKHQAEAHA 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F + +++DE  A +LV EGF+ +EELA V + E+  I+G DE+T   ++ RA+  L
Sbjct: 361 AIDTFTKYLDIDEDFATVLVEEGFSSLEELAYVPMKELLEIDGLDEDTVEALRDRAKAAL 420

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWS 474
             + +  ++   +   +++L ++ G++  +   L   G+ T+EDLA   +DDL    G S
Sbjct: 421 TTLALAQEESFGDQKPADDLLNLAGLERSMAFKLAARGVCTLEDLAEQGIDDLADIEGLS 480

Query: 475 ENKGGNI 481
           + + G +
Sbjct: 481 DEQAGEL 487


>gi|114331633|ref|YP_747855.1| transcription elongation factor NusA [Nitrosomonas eutropha C91]
 gi|114308647|gb|ABI59890.1| NusA antitermination factor [Nitrosomonas eutropha C91]
          Length = 490

 Score =  379 bits (972), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 201/466 (43%), Positives = 310/466 (66%), Gaps = 4/466 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +A+A+EK++D+++V + +  ++  AA+       D+RV I+ +TG+   FR   
Sbjct: 4   EILLLVNALAHEKNVDKNIVFTALEMALASAAKKHARDDIDVRVSIDRDTGEFQCFRRWL 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           +V +  VE+   QI+L  A  ++P    G    + +  + F R+  Q+AKQVI QK+R+A
Sbjct: 64  IVADDVVEHPERQIALVEAVKQNPQSVPGEYTEELMEDVTFDRIGAQAAKQVIFQKIRDA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F ++   ++SG +KR++ GN I++ G  + V+ RD+ IS ENLR GDRV++Y
Sbjct: 124 EREQNLNDFLERGEYLVSGVIKRMDRGNAIIEFGKIEAVLPRDQMISHENLRMGDRVRAY 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  + R  RGPQ++LSRT   F+VKLF +EVPEI  GI++++A +RDPGSRAK+AV S+D
Sbjct: 184 LLKIDRAVRGPQLVLSRTSADFLVKLFELEVPEIEEGILEIRAAARDPGSRAKIAVKSND 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           + +DP+G CVGMRGSRVQAV  EL  E++DI+ WS D ATFV+NAL PA+++ +V+DED 
Sbjct: 244 ARVDPIGTCVGMRGSRVQAVTGELAGERVDIIQWSDDQATFVVNALAPAVISSIVMDEDK 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++V+V +E L+ AIGR GQNVRLAS+LTGW ++I+T EE     +++     + FM+ 
Sbjct: 304 HSMDVVVDEENLAQAIGRGGQNVRLASELTGWQLNIMTVEESHEKSEEEAASICELFMEK 363

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE +  +LV EGF+ +EE+A + I E+  I+ FD ET  E++ RAR  L    I  +
Sbjct: 364 LDVDEEVGRILVDEGFSTLEEIAYIPIEEMLEIQEFDHETIEELRNRARNVLLTAAIVTE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           +KI     SE L ++ G+D  +   L   GI T E+LA  + DDL+
Sbjct: 424 EKIGH--ASEALLALEGMDIDLVRELAAKGISTQEELADLAADDLV 467


>gi|330958050|gb|EGH58310.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           maculicola str. ES4326]
          Length = 493

 Score =  379 bits (972), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 197/462 (42%), Positives = 312/462 (67%), Gaps = 3/462 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + ++V+ EK +   V+   +  ++  A +  +    ++RVEIN +TG+   FR   
Sbjct: 4   EVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVELRVEINRQTGNYETFRRWT 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VVE+  +++   ++++  A+ + P    G ++ + +  ++FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVEDEDLDDPAYELAVDQAQAKKPGAVAGDLIEEKIDSIEFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G R+++
Sbjct: 124 ERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRMRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV S 
Sbjct: 184 LLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVRSK 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++DED
Sbjct: 244 DKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F++
Sbjct: 304 AHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNFIE 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L    I  
Sbjct: 364 ELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDIVNELRARAKDRLLTKAIAT 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
           ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S
Sbjct: 424 EEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLAEQS 465


>gi|332290219|ref|YP_004421071.1| transcription elongation factor NusA [Gallibacterium anatis UMN179]
 gi|330433115|gb|AEC18174.1| transcription elongation factor NusA [Gallibacterium anatis UMN179]
          Length = 495

 Score =  379 bits (972), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 193/464 (41%), Positives = 303/464 (65%), Gaps = 1/464 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + R+ +   +  ++  + +  Y    D+RV I+ +TGD   FR   
Sbjct: 4   EILLAAEAVSNEKLLPREKIFEALESALAISTKKKYEQDIDVRVSIDQKTGDFVTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE V + T +I+L+ A+  +P I +G  + D +  + F R+ +Q+ +QVI  K+R+AER
Sbjct: 64  VVENVTHPTKEITLEAAQIEEPEIQLGEYIEDEIESIPFDRITMQTVRQVISAKIRDAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
           ++   +FK++ GEII+G VK+V   NVI+DLGN ++ +I R++ + REN R GDRV+  +
Sbjct: 124 NKVVEQFKEREGEIITGIVKKVNRENVILDLGNQAEAIILREDLLPRENFRAGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  + +GPQ+ ++R+ P+ +++LF +EVPEI  G++++KA +RD G RAK+AV S D 
Sbjct: 184 YRVSSDPKGPQLFVTRSKPEMLIELFKIEVPEIGEGVIEIKAATRDAGVRAKIAVKSHDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAITNELDGERVDIVLWDDNPAQFVINAMAPADVVSIVVDEDKK 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNV LAS+LTGW +++++ +E     Q +  +    FM+++
Sbjct: 304 SMDIAVEAANLAQAIGRNGQNVNLASRLTGWKLNVMSSDELENKHQLENQKTVNLFMESL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A+LL  EGF  +EE+A V   E+  I+GFDE+ A E++ RA+E L  I +  ++
Sbjct: 364 DLDEEFANLLTEEGFRTLEEIAYVPTEELLEIDGFDEDLAEELRNRAKEVLTKIALAEEQ 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
            +  + V E L  + G++  + V L E  I T+E+LA   VDDL
Sbjct: 424 ALANIDVEEALLKLDGMNRHLAVKLAEKKITTLEELAEQGVDDL 467


>gi|254284119|ref|ZP_04959087.1| N utilization substance protein A [gamma proteobacterium NOR51-B]
 gi|219680322|gb|EED36671.1| N utilization substance protein A [gamma proteobacterium NOR51-B]
          Length = 499

 Score =  379 bits (972), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 204/472 (43%), Positives = 318/472 (67%), Gaps = 13/472 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK +  D++   +  ++  AA+  Y   SDI V+I+ ETGD    R   
Sbjct: 4   EILMVAEAVSNEKGVSEDIIFEAIELALATAAKKRYDEESDIEVQIDRETGDYVTTRRWL 63

Query: 68  VVEEVE------NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           VV + E       +T + +++V  +  P    G V  + +  +DFGR+A Q+AKQVI+Q+
Sbjct: 64  VVPDSELALLGTQFTTEEAIEVNAELKP----GDVHEEVVDNVDFGRIAAQTAKQVIVQR 119

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGD 180
           VR+AER +   +++ +VGE+++GTVK+V   NVIVDLG N++G++ R E + RE  R  D
Sbjct: 120 VRDAERAQIVEQYQSRVGELLAGTVKKVTRDNVIVDLGGNAEGLLPRTELVGRETFRIND 179

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV++ + ++  E RGPQ++LSR   + +++LF +EVPEI  G++Q++A +RDPGSRAK+A
Sbjct: 180 RVRAILTEINTESRGPQLILSRACKEMLIELFKIEVPEIAEGVIQIRAAARDPGSRAKIA 239

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V + D  IDPVGACVGMRGSRVQAV  EL +E++DI++W  ++A  VINA+ PA V  +V
Sbjct: 240 VKTGDQRIDPVGACVGMRGSRVQAVSNELDNERVDIILWDDNAAQLVINAMSPAEVESIV 299

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK-DFNERT 359
           +DED   +EV V ++ L+ AIGR GQNVRLAS LT WTI++++  +D+I +Q+ +  +  
Sbjct: 300 VDEDSNTMEVAVAEDNLAQAIGRGGQNVRLASDLTEWTINVMS-VDDAIEKQEAEAIQVM 358

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM A++VDE +A +LV EGF  +EE+A V + E+ SIEGFDE+ + E++ RA++ L  
Sbjct: 359 ETFMNALDVDEDVAGVLVEEGFTTLEEVAYVPLEEMMSIEGFDEDISEELRARAKDALLT 418

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + I  ++++     +E+L ++ G++  +   L   GI TMEDLA   VDD++
Sbjct: 419 MAIASEEQLGANEPAEDLLAMEGMERHLAFVLASRGIVTMEDLAEQGVDDIM 470


>gi|120597899|ref|YP_962473.1| transcription elongation factor NusA [Shewanella sp. W3-18-1]
 gi|146293929|ref|YP_001184353.1| transcription elongation factor NusA [Shewanella putrefaciens
           CN-32]
 gi|120557992|gb|ABM23919.1| NusA antitermination factor [Shewanella sp. W3-18-1]
 gi|145565619|gb|ABP76554.1| NusA antitermination factor [Shewanella putrefaciens CN-32]
          Length = 499

 Score =  379 bits (972), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 198/467 (42%), Positives = 308/467 (65%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TG    FR   
Sbjct: 4   EILLVAEAVSNEKAVPREKIFEALEIALATATKKKYDGDIDVRVAIDRKTGGYETFRRWM 63

Query: 68  VV----EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           VV    E +EN   +I+L+ AR  +P I  G  + D +  + F R+  Q+AKQVI+QKVR
Sbjct: 64  VVDDHGEALENPFREITLEAARYENPDIQPGEFIEDDIESVVFDRITTQTAKQVIVQKVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +   +F+DK GE+I+G VK+    +V+VDLGN +DGV+ R++ ISRE+ RPGDRV
Sbjct: 124 EAERAQVVEQFRDKEGELITGVVKKATRESVVVDLGNNADGVLFREDLISRESFRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ +Y VR E RG Q+ LSRT P+ +++LF +EVPEI + +++V   +RDPG+RAK+AV 
Sbjct: 184 RALLYSVRPEARGAQLFLSRTKPEMLIELFRVEVPEIADELIEVMGAARDPGARAKIAVK 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A +VINA+ PA V  +++D
Sbjct: 244 SNDRRIDPIGACVGMRGARVQAVSNELGGERVDIVLWDDNPAQYVINAMAPADVASIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLA+QLTGW ++++T E+ +   Q +  +    F
Sbjct: 304 EDNHSMDIAVEADSLAQAIGRNGQNVRLATQLTGWELNVMTVEDMNKKHQAESAKVVSLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           + +++VDE  A +L  EGF  +EE+A V +SE+ +I+GFDE+    ++ RA+  +    +
Sbjct: 364 INSLDVDEDFAQVLANEGFTSLEEVAYVPVSELLAIDGFDEDLVEALRERAKAAISTRAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDD 469
             ++ +  +  S+EL ++ G++  +   L   GI T+EDLA   +DD
Sbjct: 424 ASEEALDGVEPSDELLALEGVERHLAYVLASKGIVTLEDLAEQGIDD 470


>gi|213052982|ref|ZP_03345860.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. E00-7866]
          Length = 495

 Score =  378 bits (971), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 196/481 (40%), Positives = 310/481 (64%), Gaps = 9/481 (1%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           + + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR   +V
Sbjct: 1   MAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRRWLIV 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
           EEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER  
Sbjct: 61  EEVTMPTKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREAERAM 120

Query: 130 QYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPGDRVK 183
              +F+D+ GEI++G VK+V   N+ +++      GN++ VI R++ + REN RPGDR++
Sbjct: 121 VVDQFRDQEGEIVTGVVKKVNRDNISLEIKSEGMAGNAEAVILREDMLPRENFRPGDRIR 180

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
             +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV +
Sbjct: 181 GVLYAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKT 240

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DE
Sbjct: 241 NDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDE 300

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +   + F 
Sbjct: 301 DKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIEIFT 360

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
           + +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  +   
Sbjct: 361 KYLDIDEEFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALATLAQD 420

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGN 480
            +  + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL    G ++ K G 
Sbjct: 421 QEASLGDNKPADDLLNLEGLDRDMAFKLAARGVCTLEDLADQGIDDLADIEGLTDEKAGE 480

Query: 481 I 481
           +
Sbjct: 481 L 481


>gi|51594831|ref|YP_069022.1| transcription elongation factor NusA [Yersinia pseudotuberculosis
           IP 32953]
 gi|108806045|ref|YP_649961.1| transcription elongation factor NusA [Yersinia pestis Antiqua]
 gi|108813401|ref|YP_649168.1| transcription elongation factor NusA [Yersinia pestis Nepal516]
 gi|145600793|ref|YP_001164869.1| transcription elongation factor NusA [Yersinia pestis Pestoides F]
 gi|153947426|ref|YP_001402551.1| transcription elongation factor NusA [Yersinia pseudotuberculosis
           IP 31758]
 gi|153997274|ref|ZP_02022374.1| N utilization substance protein A [Yersinia pestis CA88-4125]
 gi|162418514|ref|YP_001608285.1| transcription elongation factor NusA [Yersinia pestis Angola]
 gi|165925730|ref|ZP_02221562.1| transcription termination factor NusA [Yersinia pestis biovar
           Orientalis str. F1991016]
 gi|165936779|ref|ZP_02225346.1| transcription termination factor NusA [Yersinia pestis biovar
           Orientalis str. IP275]
 gi|166010132|ref|ZP_02231030.1| transcription termination factor NusA [Yersinia pestis biovar
           Antiqua str. E1979001]
 gi|166214620|ref|ZP_02240655.1| transcription termination factor NusA [Yersinia pestis biovar
           Antiqua str. B42003004]
 gi|167401309|ref|ZP_02306809.1| transcription termination factor NusA [Yersinia pestis biovar
           Antiqua str. UG05-0454]
 gi|167420758|ref|ZP_02312511.1| transcription termination factor NusA [Yersinia pestis biovar
           Orientalis str. MG05-1020]
 gi|167423617|ref|ZP_02315370.1| transcription termination factor NusA [Yersinia pestis biovar
           Mediaevalis str. K1973002]
 gi|170025946|ref|YP_001722451.1| transcription elongation factor NusA [Yersinia pseudotuberculosis
           YPIII]
 gi|186893840|ref|YP_001870952.1| transcription elongation factor NusA [Yersinia pseudotuberculosis
           PB1/+]
 gi|218930511|ref|YP_002348386.1| transcription elongation factor NusA [Yersinia pestis CO92]
 gi|229839149|ref|ZP_04459308.1| transcription termination/antitermination L factor [Yersinia pestis
           biovar Orientalis str. PEXU2]
 gi|229896638|ref|ZP_04511805.1| transcription termination/antitermination L factor [Yersinia pestis
           Pestoides A]
 gi|229899713|ref|ZP_04514854.1| transcription termination/antitermination L factor [Yersinia pestis
           biovar Orientalis str. India 195]
 gi|229903875|ref|ZP_04518988.1| transcription termination/antitermination L factor [Yersinia pestis
           Nepal516]
 gi|270489135|ref|ZP_06206209.1| transcription termination factor NusA [Yersinia pestis KIM D27]
 gi|294505370|ref|YP_003569432.1| transcription elongation factor NusA [Yersinia pestis Z176003]
 gi|51588113|emb|CAH19719.1| N utilization substance protein A [Yersinia pseudotuberculosis IP
           32953]
 gi|108777049|gb|ABG19568.1| N utilization substance protein A [Yersinia pestis Nepal516]
 gi|108777958|gb|ABG12016.1| N utilization substance protein A [Yersinia pestis Antiqua]
 gi|115349122|emb|CAL22085.1| N utilization substance protein A [Yersinia pestis CO92]
 gi|145212489|gb|ABP41896.1| N utilization substance protein A [Yersinia pestis Pestoides F]
 gi|149288911|gb|EDM38991.1| N utilization substance protein A [Yersinia pestis CA88-4125]
 gi|152958921|gb|ABS46382.1| transcription termination factor NusA [Yersinia pseudotuberculosis
           IP 31758]
 gi|162351329|gb|ABX85277.1| transcription termination factor NusA [Yersinia pestis Angola]
 gi|165915428|gb|EDR34038.1| transcription termination factor NusA [Yersinia pestis biovar
           Orientalis str. IP275]
 gi|165922342|gb|EDR39519.1| transcription termination factor NusA [Yersinia pestis biovar
           Orientalis str. F1991016]
 gi|165991039|gb|EDR43340.1| transcription termination factor NusA [Yersinia pestis biovar
           Antiqua str. E1979001]
 gi|166204195|gb|EDR48675.1| transcription termination factor NusA [Yersinia pestis biovar
           Antiqua str. B42003004]
 gi|166961564|gb|EDR57585.1| transcription termination factor NusA [Yersinia pestis biovar
           Orientalis str. MG05-1020]
 gi|167049334|gb|EDR60742.1| transcription termination factor NusA [Yersinia pestis biovar
           Antiqua str. UG05-0454]
 gi|167057787|gb|EDR67533.1| transcription termination factor NusA [Yersinia pestis biovar
           Mediaevalis str. K1973002]
 gi|169752480|gb|ACA69998.1| NusA antitermination factor [Yersinia pseudotuberculosis YPIII]
 gi|186696866|gb|ACC87495.1| NusA antitermination factor [Yersinia pseudotuberculosis PB1/+]
 gi|229679645|gb|EEO75748.1| transcription termination/antitermination L factor [Yersinia pestis
           Nepal516]
 gi|229687205|gb|EEO79280.1| transcription termination/antitermination L factor [Yersinia pestis
           biovar Orientalis str. India 195]
 gi|229695515|gb|EEO85562.1| transcription termination/antitermination L factor [Yersinia pestis
           biovar Orientalis str. PEXU2]
 gi|229700416|gb|EEO88448.1| transcription termination/antitermination L factor [Yersinia pestis
           Pestoides A]
 gi|262363436|gb|ACY60157.1| transcription elongation factor NusA [Yersinia pestis D106004]
 gi|262367189|gb|ACY63746.1| transcription elongation factor NusA [Yersinia pestis D182038]
 gi|270337639|gb|EFA48416.1| transcription termination factor NusA [Yersinia pestis KIM D27]
 gi|294355829|gb|ADE66170.1| transcription elongation factor NusA [Yersinia pestis Z176003]
 gi|320013700|gb|ADV97271.1| transcription termination/antitermination L factor [Yersinia pestis
           biovar Medievalis str. Harbin 35]
          Length = 495

 Score =  378 bits (971), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 196/478 (41%), Positives = 309/478 (64%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RV I+ +TGD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIEVRVSIDRKTGDFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            V+EV   T +I+L  A+  DPS+ +G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  AVDEVTMPTREITLDAAQFEDPSLQLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
                +F+  +G+I++G VK+V   ++ +DLG N++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVEQFRQYLGQIVTGIVKKVSRDSIALDLGHNAEAVIGREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           YDVR E RG Q+ +SR+  + +V+LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YDVRPEARGAQLFVSRSRSEMLVELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            ++V V    L+ AIGR GQNVRLA+QL+GW ++++T ++     Q + +     F + +
Sbjct: 304 TMDVAVEASNLAQAIGRNGQNVRLAAQLSGWELNVMTADDLQAKHQAEAHAAIDTFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF+ +EELA V + E+  I+G DE+T   ++ RA+  L  + +  ++
Sbjct: 364 DIDEDFATVLVEEGFSSLEELAYVPMKELLEIDGLDEDTVEALRDRAKAALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
              +   +++L ++ G++  +   L   G+ T+EDLA   +DDL    G S+ + G +
Sbjct: 424 SFGDQKPADDLLNLAGLERSMAFKLAARGVCTLEDLAEQGIDDLADIEGLSDEQAGEL 481


>gi|153001790|ref|YP_001367471.1| transcription elongation factor NusA [Shewanella baltica OS185]
 gi|160876524|ref|YP_001555840.1| transcription elongation factor NusA [Shewanella baltica OS195]
 gi|217972314|ref|YP_002357065.1| transcription elongation factor NusA [Shewanella baltica OS223]
 gi|304410266|ref|ZP_07391885.1| transcription termination factor NusA [Shewanella baltica OS183]
 gi|307302023|ref|ZP_07581781.1| transcription termination factor NusA [Shewanella baltica BA175]
 gi|151366408|gb|ABS09408.1| NusA antitermination factor [Shewanella baltica OS185]
 gi|160862046|gb|ABX50580.1| NusA antitermination factor [Shewanella baltica OS195]
 gi|217497449|gb|ACK45642.1| NusA antitermination factor [Shewanella baltica OS223]
 gi|304351675|gb|EFM16074.1| transcription termination factor NusA [Shewanella baltica OS183]
 gi|306914061|gb|EFN44482.1| transcription termination factor NusA [Shewanella baltica BA175]
 gi|315268718|gb|ADT95571.1| NusA antitermination factor [Shewanella baltica OS678]
          Length = 499

 Score =  378 bits (971), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 197/467 (42%), Positives = 308/467 (65%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TG    FR   
Sbjct: 4   EILLVAEAVSNEKAVPREKIFEALEIALATATKKKYEGDIDVRVAIDRKTGGYDTFRRWM 63

Query: 68  VV----EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           VV    E +EN   +I+L+ AR  +P I  G  + D +  + F R+  Q+AKQVI+QKVR
Sbjct: 64  VVDDHGEALENPYREITLEAARYENPDIQPGEFIEDDIESVVFDRITTQTAKQVIVQKVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +   +F+D+ GE+I+G VK+    +V+VDLGN +DGV+ R++ ISRE+ RPGDRV
Sbjct: 124 EAERAQVVEQFQDQEGELITGIVKKATRESVVVDLGNNADGVLFREDLISRESFRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ +Y VR E RG Q+ LSRT P+ +++LF +EVPEI + ++++   +RDPG+RAK+AV 
Sbjct: 184 RALLYSVRPEARGAQLFLSRTKPEMLIELFRVEVPEIADELIEIMGAARDPGARAKIAVK 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A +VINA+ PA V  +++D
Sbjct: 244 SNDRRIDPIGACVGMRGARVQAVSNELGGERVDIVLWDDNPAQYVINAMAPADVASIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLA+QLTGW ++++T E+ +   Q +  +  + F
Sbjct: 304 EDNHSMDIAVEADSLAQAIGRNGQNVRLATQLTGWVLNVMTVEDMNKKHQAESAKVVELF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           + +++VDE  A +L  EGF  +EE+A V +SE+ +I+GFDE+    ++ RA+  +    +
Sbjct: 364 VNSLDVDEDFAQVLADEGFTSLEEVAYVPVSELLAIDGFDEDLVEALRERAKAAISTRAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDD 469
             ++ +  +  SEEL ++ G+D  +       GI T+EDLA   +DD
Sbjct: 424 ATEEALDGVEPSEELLALEGVDRHLAYVFASKGIVTLEDLAEQGIDD 470


>gi|90022354|ref|YP_528181.1| transcription elongation factor NusA [Saccharophagus degradans
           2-40]
 gi|89951954|gb|ABD81969.1| transcription termination factor NusA [Saccharophagus degradans
           2-40]
          Length = 493

 Score =  378 bits (971), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 201/467 (43%), Positives = 314/467 (67%), Gaps = 6/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +ADAV+ EK +D+ ++   +  ++  A +  Y   +DI+V I+ + GD    R   
Sbjct: 4   EILLVADAVSNEKGVDKGIIFEAIELALASATKKRYDEDADIKVTIDRKDGDYVTVRRWL 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV++  +     Q + + A ++DPS+  G V  + +  +DFGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVDDDTLAELGTQFTTEEAIEKDPSLKPGDVYEEVIENVDFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER +   E++ +VGE+I+GTVK+V   N+IVDLG N++G++ R+E + RE  R  DRV++
Sbjct: 124 ERAQIVDEYRGRVGELIAGTVKKVTRDNIIVDLGGNAEGLLPREELVGREVFRMNDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + DVR E RGPQ+ LSR  P+ +++LF +EVPEI   ++ + A +RDPGSRAK+AV ++
Sbjct: 184 VLADVRPEARGPQLFLSRACPEMLIELFKIEVPEIAEEVISLNAAARDPGSRAKIAVATN 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRGSRVQAV  EL +E+IDI++W  + A FVINA+ PA +  +V+DE+
Sbjct: 244 DGRIDPVGACVGMRGSRVQAVSNELGNERIDIILWDDNPAQFVINAMAPAEIESIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
            G ++V V ++ L+ AIGR GQNVRLAS+LTGW I++++ ++ +  +  +       F+ 
Sbjct: 304 AGSMDVAVAEDNLAQAIGRGGQNVRLASELTGWEINVMSVDQWNEKQAAEAGSARDVFIN 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
           A+++DE +A +LV EGF  +EE+A V + E  +IEGFDEE A E++ RA++ L    +  
Sbjct: 364 ALDIDEDVADVLVDEGFTTLEEVAYVPLEEFLAIEGFDEEIAEELRNRAKDALLTQALAG 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++K +    +++L ++ G+D  +   L   G+  MEDLA  +VD+L+
Sbjct: 424 EEKNQP---ADDLVNMEGMDDALAQTLAARGVICMEDLAEQAVDELM 467


>gi|27365056|ref|NP_760584.1| transcription elongation factor NusA [Vibrio vulnificus CMCP6]
 gi|37680893|ref|NP_935502.1| transcription elongation factor NusA [Vibrio vulnificus YJ016]
 gi|320155440|ref|YP_004187819.1| transcription termination protein NusA [Vibrio vulnificus MO6-24/O]
 gi|27361202|gb|AAO10111.1| Transcription termination protein NusA [Vibrio vulnificus CMCP6]
 gi|37199642|dbj|BAC95473.1| n utilization substance protein A [Vibrio vulnificus YJ016]
 gi|319930752|gb|ADV85616.1| transcription termination protein NusA [Vibrio vulnificus MO6-24/O]
          Length = 495

 Score =  378 bits (971), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 200/482 (41%), Positives = 313/482 (64%), Gaps = 12/482 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG+   FR   
Sbjct: 4   EILAVAEAVSNEKAVPRERIFEALEIALATSTKKKYEIEIDVRVAIDRKTGEFVTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EVEN T +IS + A   D S+ +G  + + +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVDEVENPTKEISFEAANYDDESVQLGDFIEEEIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  G++++G VK+V    V++DLGN ++ VI RD+ + REN RPGDRV+  +
Sbjct: 124 AQIVEQFIDNEGDLVTGVVKKVNRETVVLDLGNNAEAVILRDDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   I+++K  +RDPGSRAK+AV ++D 
Sbjct: 184 YKVAPEARGFQLFITRSKPEMLAELFRVEVPEIAEEIIELKGAARDPGSRAKIAVKTNDR 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDEDAH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF----F 362
            +++ V    L+ AIGR GQNVRLASQLTGW ++++T E    + QK   E +Q     F
Sbjct: 304 SMDIAVEAGNLAQAIGRNGQNVRLASQLTGWELNVMTVE----DLQKKHAEESQASIDNF 359

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+ ++++E  A LLV EGF+ +EE+A V ++E+  +EG DE+   E++ RA++ L  I +
Sbjct: 360 MKYLDIEEDFAQLLVEEGFSTLEEVAYVPVNELLEVEGLDEDLIEELRSRAKDALTTIAL 419

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGG 479
             ++    +  +E+L ++ G++ ++   L   G+ ++EDLA   +DDL    G +E + G
Sbjct: 420 AREESFEGVEPAEDLLNLEGLEREMAFKLAAKGVASLEDLADQGIDDLEGIDGLTEERAG 479

Query: 480 NI 481
            +
Sbjct: 480 QL 481


>gi|15836839|ref|NP_297527.1| transcription elongation factor NusA [Xylella fastidiosa 9a5c]
 gi|9105045|gb|AAF83047.1|AE003877_2 N utilization substance protein A [Xylella fastidiosa 9a5c]
          Length = 503

 Score =  378 bits (971), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 195/470 (41%), Positives = 313/470 (66%), Gaps = 7/470 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI--RVEINPETGDISLFRL 65
           ELL + D VA EK + R ++   +  ++  AA+  Y    DI  RV I+ ++G+   +R 
Sbjct: 4   ELLLVVDVVANEKGVPRQIIFDAIEVALASAAKKRYQD-RDILTRVTIDQKSGNYETYRR 62

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            EVV +   +E+   QI L  A D    +++G  + + +   DFGR++ Q+AKQVI+Q+V
Sbjct: 63  WEVVADDVVMESPERQIRLMDALDEADGVEVGDYIEEQIENPDFGRISAQAAKQVIVQRV 122

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDR 181
           REAER +    +K++VGE+++G VKRVE GN+ VDLG  ++  I +D+ I R+ +RPGDR
Sbjct: 123 REAERQQVVDAWKNRVGELVTGVVKRVERGNIYVDLGGGTEAFIPKDKGIPRDVIRPGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+ Y+ +VR E RGPQ+ +SR+ P+FM++LF +EVPE+  G+V++K  +RDPG RAK+AV
Sbjct: 183 VRGYLAEVRSESRGPQLFISRSAPEFMIELFKLEVPEVGQGLVEIKGCARDPGDRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            + D+  DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  +++
Sbjct: 243 IAHDNRTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNENPANFVINAMAPAEVQSIIV 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T E+ +   + +     + 
Sbjct: 303 DEEKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTAEQVAAKSEAEQVAARRL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+ + VDE IA +LV EGF  +EE+A V + E+ ++EGFDE+   E++ RAR+ L    
Sbjct: 363 FMERLEVDEEIASILVMEGFNTIEEIAYVPVGELLAVEGFDEDIVEELRARARDALLNAA 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           +  ++ +   G + +L  + G+D     AL  +G++T EDL+  + D+++
Sbjct: 423 LAEEEGLEHSGPAPDLLELNGMDEITAHALAAHGVRTSEDLSDLAADEIV 472


>gi|332528133|ref|ZP_08404164.1| NusA antitermination factor [Rubrivivax benzoatilyticus JA2]
 gi|332112704|gb|EGJ12497.1| NusA antitermination factor [Rubrivivax benzoatilyticus JA2]
          Length = 492

 Score =  378 bits (971), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 200/470 (42%), Positives = 316/470 (67%), Gaps = 6/470 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           NR E+L + DA++ EK++DRDVV   +  ++  A + L+G   DIRV ++ ETG+   FR
Sbjct: 2   NR-EMLMLVDAISREKTVDRDVVFGAVEAALASATKKLHGGEVDIRVAVDRETGEYETFR 60

Query: 65  LLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
              VV     ++N   ++ L  A+++   I++   + + +  +  GR+  Q+AKQVI+QK
Sbjct: 61  RWHVVPNEAGLQNADAEVLLFEAQEQIADIEVDDYIEESVDSVPIGRIGAQAAKQVILQK 120

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER++   +F  +  +I  GTVKR++ G++IV+ G  +G ++R E I +ENLR GDR
Sbjct: 121 IRDAEREQLLNDFLARGDKIFVGTVKRLDKGDIIVESGRVEGRLKRSEMIPKENLRSGDR 180

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+++I  V   QRGPQ++LSR+ P FMV+LF  EVPEI  G++++K+ +RDPGSRAK+AV
Sbjct: 181 VRAFILGVDPTQRGPQIMLSRSAPGFMVELFGQEVPEIELGLLEIKSCARDPGSRAKIAV 240

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  +DP+G CVG+RGSRV  V TEL  E++DIV+WS D A FVI AL PA V  +V+
Sbjct: 241 VSHDRRVDPIGTCVGVRGSRVNGVTTELAGERVDIVLWSEDPAQFVIGALAPANVQSIVV 300

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+   ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+T EE    +  +     + 
Sbjct: 301 DEERHAMDVVVDEENLAIAIGRGGQNVRLASELTGWRINIMTAEESQAKQATETESVRKI 360

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F++ ++VDE +A +L+AEGF  +EE+A V + E+  IE FDE+T  E++ RA++ L  + 
Sbjct: 361 FVEKLDVDEEVADILIAEGFTSLEEVAYVPLQEMLEIEAFDEDTVQELRTRAKDAL--LT 418

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + ++++ +   VS++L  + G+  ++   L + G+ T +DLA  +VD+L+
Sbjct: 419 MEIEREEKVEEVSQDLRDLEGLTPELIGKLSDGGVNTRDDLADLAVDELV 468


>gi|89072574|ref|ZP_01159146.1| transcription elongation factor NusA [Photobacterium sp. SKA34]
 gi|89051678|gb|EAR57131.1| transcription elongation factor NusA [Photobacterium sp. SKA34]
          Length = 495

 Score =  378 bits (971), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 197/478 (41%), Positives = 309/478 (64%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  +    ++RV I+ +TG+   FR  +
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALEIALATATKKKHEAEIEVRVAIDRKTGEFETFRRWK 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VEEV   T +I+L+ A+  DP+I  G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  AVEEVTQPTLEITLEAAQFEDPTIVAGDYVEDDIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  GE+I+G VK+V    VI+DLG N++ VI+RD+ + REN RPGDRV+  +
Sbjct: 124 AQIVEQFIDNEGELITGIVKKVNRDAVIIDLGSNAEAVIQRDDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E RG Q+ ++R+ P+ + +LF +EVPE+   ++++   +RDPGSRAK+AV ++D 
Sbjct: 184 YKVAPEARGFQLFMTRSKPEMLCELFRIEVPEMGEELIELMGAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A +VINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELAGERIDIVLWDENPAQYVINAMAPAEVDSIIVDEDNH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V K+ L+ AIGR GQNVRLASQLTGW ++++T E+     Q++  E  + F + +
Sbjct: 304 TMDIAVQKDNLAQAIGRSGQNVRLASQLTGWELNVMTVEDLQKKHQEEAKESIEVFTKHL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF  +EE+A V +SE+  ++G DEET  +++ RA+  L  + +  ++
Sbjct: 364 DIDEDFATVLVEEGFTTLEEIAYVPLSELMDVDGLDEETIDQLRSRAKAALTTLALAKEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            +     +E+L  + G++ ++       GI T+EDLA    DDL    G  + K G +
Sbjct: 424 TLDGAEPAEDLLGLEGLERELAFKFAAKGICTLEDLADQGTDDLTDIEGVDDAKAGEL 481


>gi|323495468|ref|ZP_08100543.1| transcription elongation factor NusA [Vibrio sinaloensis DSM 21326]
 gi|323319465|gb|EGA72401.1| transcription elongation factor NusA [Vibrio sinaloensis DSM 21326]
          Length = 495

 Score =  378 bits (971), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 197/482 (40%), Positives = 313/482 (64%), Gaps = 12/482 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  + +  +    D+RVEI+ +TG+   FR   
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALEIALATSTKKKHEIEIDVRVEIDRKTGEFETFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VE+VEN T +ISL+ A+  +  +++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEDVENPTKEISLEAAKFENEELELGDYVEDDIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  GE+++G VK+V    V++DLGN ++ VI RD+ + REN RPGDRV+  +
Sbjct: 124 AQIVEQFIDNEGELVTGVVKKVNRDTVVLDLGNNAEAVILRDDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   I+++K  +RDPGSRAK+AV ++D 
Sbjct: 184 YKVAPEARGFQLFITRSKPEMLAELFRVEVPEIAEEIIELKGAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDEDAH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF----F 362
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T      + QK   E +Q     F
Sbjct: 304 AMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMT----VADLQKKHAEESQAAIEGF 359

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+ ++++E  A LLV EGF+ +EE+A V ++E+  ++G DE+   E++ RA+  L  + +
Sbjct: 360 MKHLDIEEDFAQLLVEEGFSTLEEVAYVPVNELLEVDGLDEDLVEELRSRAKNALTTLAL 419

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVD---DLLGWSENKGG 479
             ++    +  +E+L  + G++ ++   L   G+ T+EDLA   +D   D+ G +E + G
Sbjct: 420 AQEESFEGVEPAEDLLGLEGLEREMAFKLAAKGVATLEDLADQGIDDIEDIEGLTEERAG 479

Query: 480 NI 481
            +
Sbjct: 480 EL 481


>gi|260771174|ref|ZP_05880101.1| transcription termination protein NusA [Vibrio furnissii CIP
           102972]
 gi|260613771|gb|EEX38963.1| transcription termination protein NusA [Vibrio furnissii CIP
           102972]
 gi|315179220|gb|ADT86134.1| transcription elongation factor NusA [Vibrio furnissii NCTC 11218]
          Length = 495

 Score =  378 bits (970), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 197/478 (41%), Positives = 312/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG+ + FR   
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALEIALATSTKKKYEIEIDVRVAIDRKTGEFNTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EVEN T +ISL+ A   D S+ +G  + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVDEVENPTKEISLEAAVYDDESVKLGDFIEDEIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  G++I+G VK+V    VI+DLG N++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AQIVEQFIDNEGDLITGVVKKVNRDTVILDLGSNAEAVILREDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   ++++K  +RDPGSRAK+AV ++D 
Sbjct: 184 YKVAPEARGFQLFITRSKPEMLAELFRVEVPEIGEELIELKGAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELCGERIDIVLWDDNPAQFVINAMAPADVASIIVDEDAH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +     Q++     + FM+ +
Sbjct: 304 AMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADLQKKHQEESMASIENFMKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++++  A LLV EGF+ +EE+A V + E+  ++G DE+   E++ RA++ L  I +  ++
Sbjct: 364 DIEQDFAELLVEEGFSTLEEIAYVPVHELLEVDGLDEDLVEELRTRAKDALTTIALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL---LGWSENKGGNI 481
               L  +E+L ++ G++ ++   L   G+ T+EDLA   +DDL    G +E + G +
Sbjct: 424 SYEGLEPAEDLLALEGLEREMAFKLAAKGVATLEDLADQGIDDLEGIEGLTEERAGEL 481


>gi|84387286|ref|ZP_00990307.1| transcription elongation factor NusA [Vibrio splendidus 12B01]
 gi|84377933|gb|EAP94795.1| transcription elongation factor NusA [Vibrio splendidus 12B01]
          Length = 495

 Score =  378 bits (970), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 193/466 (41%), Positives = 308/466 (66%), Gaps = 1/466 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +       ++RVEI+ +TG+   FR  E
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALEIALATATKKKSELEIEVRVEIDRKTGNFETFRRWE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VEEVE  T +IS++ A+  DP I++GG + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  AVEEVEFPTKEISIEAAKYDDPEIELGGFIEDDIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  GE+++G VK+V    VI+DLGN ++ VI RD+ + REN RPGDRV+  +
Sbjct: 124 AQIVEQFIDNEGELVTGAVKKVNRDTVILDLGNNAEAVILRDDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V+ E RG Q+ ++R+ P+ + +LF +EVPEI   ++++K  +RD GSRAK+AV ++D 
Sbjct: 184 YAVKPEARGFQLFVTRSKPEMLAELFRVEVPEIGEELIELKGAARDAGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  +L  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSNDLGGERIDIVLWDDNPAQFVINAMAPADVASIIVDEDAH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +     Q++     + FM+ +
Sbjct: 304 SMDIAVEADNLAQAIGRSGQNVRLASQLTGWELNVMTVADLEKKHQEEAVASIENFMKHL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           +++E  A +LV EGF+ +EE+A V ++E+  ++G DE    E++ RA++ L  + +  ++
Sbjct: 364 DIEEDFAQMLVEEGFSTLEEVAYVPVNELLEVDGLDEGIVEELRNRAKDALTTLALAKEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG 472
               +  +E+L ++ G++ ++   L   G+ T+EDLA   VD+L G
Sbjct: 424 TFDGVEPAEDLLALEGLEREMAYKLAAKGVATLEDLADQGVDELEG 469


>gi|227327826|ref|ZP_03831850.1| transcription elongation factor NusA [Pectobacterium carotovorum
           subsp. carotovorum WPP14]
          Length = 509

 Score =  378 bits (970), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 201/477 (42%), Positives = 305/477 (63%), Gaps = 14/477 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALETALATATKKKYEQEIDVRVSIDRKTGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV EV   T +I+L+ A+  DP++D+GG V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVNEVTQPTREITLEAAQFEDPALDVGGYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-------VIRRDETISRENLRPGD 180
                +F+++ GEII+G VK+V   N+ +++   DG       VI R++ + REN RPGD
Sbjct: 124 AMVVDQFREQEGEIITGVVKKVNRDNISLEVRPIDGSNTSAEAVIGREDMLPRENFRPGD 183

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R++  +Y VR E RG Q+ +SR+ P+ +V+LF +EVPEI   ++++KA +RDPGSRAK+A
Sbjct: 184 RIRGVLYSVRPEARGAQLFVSRSRPEMLVELFRIEVPEIGEEVIEIKAAARDPGSRAKIA 243

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V ++D  IDPVGACVGMRG+RVQAV +EL  E+IDI++W  + A FVINA+ PA V  +V
Sbjct: 244 VKTNDKRIDPVGACVGMRGARVQAVSSELGGERIDIILWDDNPAQFVINAMAPADVVSIV 303

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTG-------WTIDIITEEEDSINRQK 353
           +DED   +++ V    L+ AIGR GQNVRLASQL         W ++++T E+     Q 
Sbjct: 304 VDEDTCTMDIAVESSNLAQAIGRNGQNVRLASQLLKQHRSDDRWELNVMTVEDLQAKHQA 363

Query: 354 DFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           + +     F + +++DE  A +LV EGF+ +EELA V I E+ +IEG DEET   ++ RA
Sbjct: 364 EAHAAIDVFTKHLDIDEEFATVLVEEGFSSLEELAYVPIKELLAIEGLDEETVEALRERA 423

Query: 414 REYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           +  L  + +  ++ + +   +E+L  +PG+  ++   L   G+ T+EDLA   VDDL
Sbjct: 424 KAALTTLALAHEESLGDGQPAEDLLGLPGLSRELAFKLAAIGVCTLEDLAEQGVDDL 480


>gi|213852790|ref|ZP_03382322.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. M223]
          Length = 485

 Score =  378 bits (970), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 194/469 (41%), Positives = 305/469 (65%), Gaps = 6/469 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEEVTMPTKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPGDR 181
                +F+D+ GEI++G VK+V   N+ +++      GN++ VI R++ + REN RPGDR
Sbjct: 124 AMVVDQFRDQEGEIVTGVVKKVNRDNISLEIKSEGMAGNAEAVILREDMLPRENFRPGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++  +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV
Sbjct: 184 IRGVLYAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+
Sbjct: 244 KTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVV 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   +++ V    L+ AIGR GQNV LASQL+GW ++++T ++     Q + +   + 
Sbjct: 304 DEDKHTMDIAVEAGNLAQAIGRNGQNVHLASQLSGWELNVMTVDDLQAKHQAEAHAAIEI 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  + 
Sbjct: 364 FTKYLDIDEEFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALATLA 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
              +  + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL
Sbjct: 424 QDQEASLGDNKPADDLLNLEGLDRDMAFKLAARGVCTLEDLADQGIDDL 472


>gi|86148618|ref|ZP_01066901.1| transcription elongation factor NusA [Vibrio sp. MED222]
 gi|218710446|ref|YP_002418067.1| transcription elongation factor NusA [Vibrio splendidus LGP32]
 gi|85833609|gb|EAQ51784.1| transcription elongation factor NusA [Vibrio sp. MED222]
 gi|218323465|emb|CAV19642.1| Transcription elongation protein nusA [Vibrio splendidus LGP32]
          Length = 495

 Score =  378 bits (970), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 193/466 (41%), Positives = 308/466 (66%), Gaps = 1/466 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +       ++RVEI+ +TG+   FR  E
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALEIALATATKKKSELEIEVRVEIDRKTGNFETFRRWE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VEEVE  T +IS++ A+  DP I++GG + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  AVEEVEFPTKEISIEAAKYDDPEIELGGFIEDDIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  GE+++G VK+V    VI+DLGN ++ VI RD+ + REN RPGDRV+  +
Sbjct: 124 AQIVEQFIDNEGELVTGAVKKVNRDTVILDLGNNAEAVILRDDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V+ E RG Q+ ++R+ P+ + +LF +EVPEI   ++++K  +RD GSRAK+AV ++D 
Sbjct: 184 YAVKPEARGFQLFVTRSKPEMLAELFRVEVPEIGEELIELKGAARDAGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  +L  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSNDLGGERIDIVLWDDNPAQFVINAMAPADVASIIVDEDTH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +     Q++     + FM+ +
Sbjct: 304 SMDIAVEADNLAQAIGRSGQNVRLASQLTGWELNVMTVADLEKKHQEEAVASIENFMKHL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           +++E  A +LV EGF+ +EE+A V ++E+  ++G DE    E++ RA++ L  + +  ++
Sbjct: 364 DIEEDFAQMLVEEGFSTLEEVAYVPVNELLEVDGLDEGIVEELRNRAKDALTTLALAKEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG 472
               +  +E+L ++ G++ ++   L   G+ T+EDLA   VD+L G
Sbjct: 424 TFDGVEPAEDLLALEGLEREMAYKLAAKGVATLEDLADQGVDELEG 469


>gi|222110449|ref|YP_002552713.1| nusa antitermination factor [Acidovorax ebreus TPSY]
 gi|221729893|gb|ACM32713.1| NusA antitermination factor [Acidovorax ebreus TPSY]
          Length = 494

 Score =  378 bits (970), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 199/469 (42%), Positives = 314/469 (66%), Gaps = 6/469 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           NR ELL + +A++ EK+++RDVVL  +  ++ +A + LY    DIRV I+ ++G+   FR
Sbjct: 2   NR-ELLMLVEAISREKNVERDVVLGAVESALAQATKKLYQGEVDIRVSIDRDSGEYETFR 60

Query: 65  LLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
              VV +   ++N   +  L  AR+R   I++G  + + +  +  GR+   +AKQVI+QK
Sbjct: 61  RWLVVPDDAGLQNPDAEELLMDARERVADIEVGEYIEEAVESVPIGRIGAMAAKQVILQK 120

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+    +F  +  +I +GTVKR++ G++IV+ G  +G +RR E I +ENLR GDR
Sbjct: 121 IRDAEREMLLNDFMSRGEKIFTGTVKRMDKGDIIVESGRVEGRLRRGEMIPKENLRNGDR 180

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I +V    RG  ++LSR+ P+FM++LF  EVPEI  G++++K+ +RDPGSRAK+AV
Sbjct: 181 VRAMIMEVDLTLRGAPIILSRSAPEFMIELFRNEVPEIEQGLLEIKSCARDPGSRAKIAV 240

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  +DP+G CVG+RG+RV AV  EL  E++DIV+WS D A FVI AL PA VT +V+
Sbjct: 241 LSHDKRVDPIGTCVGVRGTRVNAVTNELAGERVDIVLWSDDPAQFVIGALAPANVTSIVV 300

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+   ++V+V +E L++AIGR GQNVRLAS LTGW I+I+   E +  +  + +   + 
Sbjct: 301 DEEKHAMDVVVDEENLAIAIGRGGQNVRLASDLTGWKINIMDAAESAQKQANETDAARRL 360

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+ ++VDE IA++L+ EGFA +EE+A V + E+  IE FDE+T  E++ RA++ L  ++
Sbjct: 361 FMEKLDVDEEIANILIEEGFASLEEVAYVPLQEMLEIESFDEDTVNELRARAKDALLTME 420

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           I  ++ +    VS++L  + G+  ++   L E G+ T +DLA  ++D+L
Sbjct: 421 IVREESVE--SVSQDLRDLEGLTPELIAKLAEGGVHTRDDLADLAIDEL 467


>gi|68250159|ref|YP_249271.1| transcription elongation factor NusA [Haemophilus influenzae
           86-028NP]
 gi|145629346|ref|ZP_01785145.1| transcription elongation factor NusA [Haemophilus influenzae
           22.1-21]
 gi|145638849|ref|ZP_01794457.1| transcription elongation factor NusA [Haemophilus influenzae
           PittII]
 gi|68058358|gb|AAX88611.1| transcription elongation protein NusA [Haemophilus influenzae
           86-028NP]
 gi|144978849|gb|EDJ88572.1| transcription elongation factor NusA [Haemophilus influenzae
           22.1-21]
 gi|145271821|gb|EDK11730.1| transcription elongation factor NusA [Haemophilus influenzae
           PittII]
 gi|309750830|gb|ADO80814.1| Transcription elongation factor NusA [Haemophilus influenzae R2866]
          Length = 495

 Score =  378 bits (970), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 190/465 (40%), Positives = 314/465 (67%), Gaps = 2/465 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + R+ +   +  +I  + +  +   +DIRV INP+TG+   FR   
Sbjct: 4   EILLAAEAVSNEKLLPREKIFEALESAIAISTKKKFEYETDIRVSINPKTGEFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV+  T +I+L+ A+  DP++ +G  V D +  + F R+A+Q+A+QVI  K+REAER
Sbjct: 64  VVDEVKVPTKEITLEAAQFDDPNLQLGEYVEDQIESIAFDRIAMQTARQVISTKIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F+++ G+I++GTVK+V   ++I+DLGN ++ +I R++ + REN RPGDRV+  +
Sbjct: 124 AKVVEQFREEEGKIVTGTVKKVSRDSIILDLGNKAEAMIAREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E +  Q+ ++R+ P+ +++LF +EVPEI   +++++  +RD GSRAK+AV S+D 
Sbjct: 184 YKVNPEGKTAQLFVTRSKPEMLIELFRIEVPEIGEEMIEIRGAARDAGSRAKIAVKSNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIIVDEDNH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T +E +   Q + N+    F+ A+
Sbjct: 304 SMDIAVEADNLAQAIGRNGQNVRLATQLTGWTLNVMTTDELNAKHQAEDNKVLNLFINAL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV-EIQGRAREYLEGIDITLQ 425
            +DE  A +LV EGF  +EE+A V ++E+ +I+G ++E  V E+Q RA+  +    +  +
Sbjct: 364 ELDEEFAQILVEEGFTSLEEIAYVPMNELTAIDGLEDEDLVEELQTRAKNAITAAAVAEE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           + +++  V + L ++ G++  + + L E  I T+E+LA   VDDL
Sbjct: 424 EALKKANVEDRLLNLEGMNRHVAIKLAEKQITTLEELAEQGVDDL 468


>gi|104780027|ref|YP_606525.1| transcription elongation factor NusA [Pseudomonas entomophila L48]
 gi|95109014|emb|CAK13710.1| transcription termination/antitermination, L factor (N utilization
           substance protein A) [Pseudomonas entomophila L48]
          Length = 493

 Score =  378 bits (970), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 199/462 (43%), Positives = 305/462 (66%), Gaps = 3/462 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + ++V+ EK +   V+   +  ++  A +  +    D+RVEIN  TG    FR   
Sbjct: 4   EVLLVVESVSNEKGVPPGVIFEALEVALATATKKRFEDEVDLRVEINRHTGSYETFRRWT 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV+E  +++   +  L   +D  P   IG V+ + +  ++FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVDENDLDDPAIETWLSKIQDTHPDAKIGDVIEEKIESIEFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +    ++++VGEIISGTVK+V   NVIVDLGN ++ ++ R++ I RE  R G R+++
Sbjct: 124 ERAQVVDAYRERVGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIIPRETFRVGVRLRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + ++R E RGPQ++LSRT PQ +++LF +EVPEI  G+++V A SRDPGSRAK+AV S 
Sbjct: 184 LLKEIRTENRGPQLVLSRTAPQMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVRSK 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++DED
Sbjct: 244 DKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDENPAQFVINAMSPAEVAAIIVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V ++ L+ AIGR GQNVRLASQLT WT++++TE++    +Q +  +  + F+ 
Sbjct: 304 AHAMDIAVAEDNLAQAIGRGGQNVRLASQLTAWTLNVMTEKDIQAKQQAETGDILRNFID 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L    I  
Sbjct: 364 ELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDIVNELRARAKDRLLTKAIAT 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
           ++K+ +   +++L S+ G+D  +   L   G+   EDLA  S
Sbjct: 424 EEKLADAHPADDLLSLEGMDKDLAAELAVRGVVNREDLAEQS 465


>gi|329896244|ref|ZP_08271422.1| Transcription termination protein NusA [gamma proteobacterium
           IMCC3088]
 gi|328921915|gb|EGG29282.1| Transcription termination protein NusA [gamma proteobacterium
           IMCC3088]
          Length = 496

 Score =  377 bits (969), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 199/467 (42%), Positives = 316/467 (67%), Gaps = 3/467 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK +  D++   +  ++  A +  Y   SDI V IN +TGD    R   
Sbjct: 4   EILLVAEAVSNEKGVSEDIIFEAIELALATATKKRYDEDSDIHVTINRKTGDYVTVRRWL 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV  +E+     Q++ + A ++DPS+  G V  + +  + FGR+A Q+AKQVI+Q+VREA
Sbjct: 64  VVPDDELALLGTQLTTEEAIEKDPSLVPGDVFEETVENVGFGRIAAQTAKQVIVQRVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +++ +VGE+++G+VK+V   N+IVDLGN ++G++ R   + RE  R  DR+++
Sbjct: 124 ERAQIVDQYRGRVGELVAGSVKKVTRDNIIVDLGNNAEGLLPRGNLVGRETFRVNDRLRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + ++  E RGPQ++LSR+  + +++LF +EVPEI  G++Q++A +RDPGSRAK+AV ++
Sbjct: 184 ILTEISTEIRGPQLILSRSCSEMLIELFRIEVPEIAEGVIQIRAAARDPGSRAKIAVKTN 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRGSRVQAV  EL +E++DI++W  + A  VINA+ PA V  +V+DED
Sbjct: 244 DQRIDPVGACVGMRGSRVQAVSNELDNERVDIILWDDNPAQLVINAMSPAEVESIVVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V V ++ L+ AIGR GQNVRLAS+LTGW I++++ EE    ++ +  +  Q F++
Sbjct: 304 THTMDVAVSEDNLAQAIGRSGQNVRLASELTGWMINVMSTEEAQEKQEAEVGQVLQLFVE 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +LV EGF  +EE+A V + E+ +IEGFDEE + E++ RA++ L  + I  
Sbjct: 364 RLDVDEDVAEVLVEEGFTTLEEVAYVPLEEMMAIEGFDEEISEELRARAKDALLTMAIAS 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++++     +++L ++ G+D  +   L   GI TMEDLA   VDDL+
Sbjct: 424 EEQLGANEPADDLLNMEGMDRHLAFILASRGIVTMEDLAEQGVDDLM 470


>gi|319427306|gb|ADV55380.1| NusA antitermination factor [Shewanella putrefaciens 200]
          Length = 499

 Score =  377 bits (969), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 197/467 (42%), Positives = 308/467 (65%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TG    FR   
Sbjct: 4   EILLVAEAVSNEKAVPREKIFEALEIALATATKKKYDGDIDVRVAIDRKTGGYETFRRWM 63

Query: 68  VV----EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           V+    E +EN   +I+L+ AR  +P I  G  + D +  + F R+  Q+AKQVI+QKVR
Sbjct: 64  VIDDHGEALENPFREITLEAARYENPDIQPGEFIEDDIESVVFDRITTQTAKQVIVQKVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +   +F+DK GE+I+G VK+    +V+VDLGN +DGV+ R++ ISRE+ RPGDRV
Sbjct: 124 EAERAQVVEQFRDKEGELITGVVKKATRESVVVDLGNNADGVLFREDLISRESFRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ +Y VR E RG Q+ LSRT P+ +++LF +EVPEI + +++V   +RDPG+RAK+AV 
Sbjct: 184 RALLYSVRPEARGAQLFLSRTKPEMLIELFRVEVPEIADELIEVMGAARDPGARAKIAVK 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A +VINA+ PA V  +++D
Sbjct: 244 SNDRRIDPIGACVGMRGARVQAVSNELGGERVDIVLWDDNPAQYVINAMAPADVASIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLA+QLTGW ++++T E+ +   Q +  +    F
Sbjct: 304 EDNHSMDIAVEADSLAQAIGRNGQNVRLATQLTGWELNVMTVEDMNKKHQAESAKVVSLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           + +++VDE  A +L  EGF  +EE+A V +SE+ +I+GFDE+    ++ RA+  +    +
Sbjct: 364 INSLDVDEDFAQVLANEGFTSLEEVAYVPVSELLAIDGFDEDLVEALRERAKAAISTRAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDD 469
             ++ +  +  S+EL ++ G++  +   L   GI T+EDLA   +DD
Sbjct: 424 ASEEALDGVEPSDELLALEGVERHLAYVLASKGIVTLEDLAEQGIDD 470


>gi|161830897|ref|YP_001597277.1| transcription elongation factor NusA [Coxiella burnetii RSA 331]
 gi|161762764|gb|ABX78406.1| transcription termination factor NusA [Coxiella burnetii RSA 331]
          Length = 503

 Score =  377 bits (969), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 204/470 (43%), Positives = 319/470 (67%), Gaps = 8/470 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS-DIRVEINPETGDISLFRLL 66
           ++L I D+++ E+ + ++V+   +  ++       Y      IRV I+ +TGD   FR  
Sbjct: 4   DILLIVDSMSNERGVSKEVIFEAIEAALAAVTAKRYEEDDVKIRVAIDQKTGDYESFRCW 63

Query: 67  EVVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            VVE+    +E    +++LK AR+ D  +++G V+ +P+  + FGR+AVQ AKQVI+QKV
Sbjct: 64  TVVEDTNESLEFPNQEMTLKQAREIDSDLEVGDVIEEPVESVKFGRIAVQQAKQVIVQKV 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER +   +++ +VGE++ G VKRV   ++I+D+G N++ ++ R+E I RE  R  DR
Sbjct: 124 REAERAKIIRQYEKRVGELVIGVVKRVTRESIILDMGENAEALLLREEMIPREAFRINDR 183

Query: 182 VKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           +++Y+Y V + ++RGPQ+L+SRT P+F+V+LF +EVPEI   ++++K  +RDPGSRAK+A
Sbjct: 184 LRAYLYSVCQDKKRGPQLLVSRTRPEFLVELFKIEVPEIGEEVIEIKGAARDPGSRAKIA 243

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V ++D  IDP+GACVGMRGSRVQAV  EL  E+IDIV+W  + A  VINA+ PA V  +V
Sbjct: 244 VKTNDGRIDPIGACVGMRGSRVQAVSNELGGERIDIVLWDDNPAQLVINAMAPAEVASIV 303

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V K+QLS AIGR GQNVRLAS+LTGWT+++++E E +   +K+ ++   
Sbjct: 304 VDEDSHTMDIAVNKDQLSQAIGRSGQNVRLASELTGWTLNVMSEAEMAQKHEKEADKIKT 363

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+ ++VDE +A  LV  GF ++EE+A V   E+  +EGFDE+ + E+Q RA + L   
Sbjct: 364 AFMEKLDVDEEVADALVQAGFMNLEEVAYVPKEELQGVEGFDEDISAELQRRAGDVLLTQ 423

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           +I  Q ++ E   +E+L ++PG+ +++   L EN + T +DLA  SV DL
Sbjct: 424 EIAKQ-ELDEKKPAEDLLTLPGMTTELARQLVENEVLTRDDLAEKSVLDL 472


>gi|330895306|gb|EGH27644.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           japonica str. M301072PT]
          Length = 493

 Score =  377 bits (969), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 197/462 (42%), Positives = 311/462 (67%), Gaps = 3/462 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + ++V+ EK +   V+   +  ++  A +  +    ++RVEIN +TG+   FR   
Sbjct: 4   EVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVELRVEINRQTGNYETFRRWT 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VVE+  +++   ++++  A+ + P    G ++ + +  ++FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVEDEDLDDPAYELAVDQAQAKKPGAVAGDLIEEKIDSIEFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G RV++
Sbjct: 124 ERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV S 
Sbjct: 184 LLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVRSK 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++DED
Sbjct: 244 DKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ A GR GQNVRLASQLTGWT++++TE +    +Q +  +  + F++
Sbjct: 304 AHAMDIAVGADNLAQASGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNFIE 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L    I  
Sbjct: 364 ELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDIVNELRARAKDRLLTKAIAT 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
           ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S
Sbjct: 424 EEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLAEQS 465


>gi|121594900|ref|YP_986796.1| NusA antitermination factor [Acidovorax sp. JS42]
 gi|120606980|gb|ABM42720.1| NusA antitermination factor [Acidovorax sp. JS42]
          Length = 494

 Score =  377 bits (968), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 199/469 (42%), Positives = 313/469 (66%), Gaps = 6/469 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           NR ELL + +A++ EK+++RDVVL  +  ++ +A + LY    DIRV I  ++G+   FR
Sbjct: 2   NR-ELLMLVEAISREKNVERDVVLGAVESALAQATKKLYQGEVDIRVSIERDSGEYETFR 60

Query: 65  LLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
              VV +   ++N   +  L  AR+R   I++G  + + +  +  GR+   +AKQVI+QK
Sbjct: 61  RWLVVPDDAGLQNPDAEELLMDARERVADIEVGEYIEEAVESVPIGRIGAMAAKQVILQK 120

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+    +F  +  +I +GTVKR++ G++IV+ G  +G +RR E I +ENLR GDR
Sbjct: 121 IRDAEREMLLNDFMSRGEKIFTGTVKRMDKGDIIVESGRVEGRLRRGEMIPKENLRNGDR 180

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I +V    RG  ++LSR+ P+FM++LF  EVPEI  G++++K+ +RDPGSRAK+AV
Sbjct: 181 VRAMIMEVDLTLRGAPIILSRSAPEFMIELFRNEVPEIEQGLLEIKSCARDPGSRAKIAV 240

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  +DP+G CVG+RG+RV AV  EL  E++DIV+WS D A FVI AL PA VT +V+
Sbjct: 241 LSHDKRVDPIGTCVGVRGTRVNAVTNELAGERVDIVLWSDDPAQFVIGALAPANVTSIVV 300

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+   ++V+V +E L++AIGR GQNVRLAS LTGW I+I+   E +  +  + +   + 
Sbjct: 301 DEEKHAMDVVVDEENLAIAIGRGGQNVRLASDLTGWKINIMDAAESAQKQANETDAARRL 360

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+ ++VDE IA++L+ EGFA +EE+A V + E+  IE FDE+T  E++ RA++ L  ++
Sbjct: 361 FMEKLDVDEEIANILIEEGFASLEEVAYVPLQEMLEIESFDEDTVNELRARAKDALLTME 420

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           I  ++ +    VS++L  + G+  ++   L E G+ T +DLA  ++D+L
Sbjct: 421 IVREESVE--SVSQDLRDLEGLTPELIAKLAEGGVHTRDDLADLAIDEL 467


>gi|253686985|ref|YP_003016175.1| NusA antitermination factor [Pectobacterium carotovorum subsp.
           carotovorum PC1]
 gi|251753563|gb|ACT11639.1| NusA antitermination factor [Pectobacterium carotovorum subsp.
           carotovorum PC1]
          Length = 509

 Score =  377 bits (968), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 203/491 (41%), Positives = 311/491 (63%), Gaps = 17/491 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR   
Sbjct: 4   EILAVVEAVSNEKAVPREKIFEALETALATATKKKYEQEIDVRVSIDRKTGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV EV   T +I+L+ A+  D S+D+GG V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVNEVTQPTREITLEAAQFEDSSLDVGGYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-------VIRRDETISRENLRPGD 180
                +F+++ GEII+G VK+V   N+ +++   DG       VI R++ + REN RPGD
Sbjct: 124 AMVVDQFREQEGEIITGVVKKVNRDNISLEVRPIDGSNTSAEAVIGREDMLPRENFRPGD 183

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R++  +Y VR E RG Q+ +SR+ P+ +V+LF +EVPEI   ++++KA +RDPGSRAK+A
Sbjct: 184 RIRGVLYSVRPEARGAQLFVSRSRPEMLVELFRIEVPEIGEEVIEIKAAARDPGSRAKIA 243

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V ++D  IDPVGACVGMRG+RVQAV +EL  E+IDI++W  + A FVINA+ PA V  +V
Sbjct: 244 VKTNDKRIDPVGACVGMRGARVQAVSSELGGERIDIILWDDNPAQFVINAMAPADVVSIV 303

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTG-------WTIDIITEEEDSINRQK 353
           +DED   +++ V    L+ AIGR GQNVRLASQL         W ++++T E+     Q 
Sbjct: 304 VDEDTCTMDIAVESSNLAQAIGRNGQNVRLASQLLKQHRSDDRWELNVMTVEDLQAKHQA 363

Query: 354 DFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           + +     F + +++D+  A +LV EGF+ +EELA V I E+ +IEG DEET   ++ RA
Sbjct: 364 EAHAAIDVFTKHLDIDDEFATVLVEEGFSSLEELAYVPIKELLAIEGLDEETVEALRERA 423

Query: 414 REYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-- 471
           +  L  + +  ++ + +   +E+L S+PG+  ++   L   G+ T+EDLA   VDDL   
Sbjct: 424 KAALTTLALAHEESLGDGQPAEDLLSLPGLSRELAFKLAAIGVCTLEDLAEQGVDDLTDI 483

Query: 472 -GWSENKGGNI 481
            G ++ + G +
Sbjct: 484 EGLNDEQAGEL 494


>gi|322514415|ref|ZP_08067458.1| N utilization substance A [Actinobacillus ureae ATCC 25976]
 gi|322119663|gb|EFX91721.1| N utilization substance A [Actinobacillus ureae ATCC 25976]
          Length = 493

 Score =  377 bits (967), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 191/465 (41%), Positives = 307/465 (66%), Gaps = 2/465 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + ++ +   +  ++  + +       D+RV I+ +TGD   FR   
Sbjct: 4   EILLAAEAVSNEKLLPKEAIFEALETALAISTKKKKEMDIDVRVVIDRKTGDFQTFRRWI 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE+V N T +ISL+ A+  +PS+ +G +V D +  + F R+ +Q+A+QVI  K+REAER
Sbjct: 64  VVEQVHNMTREISLEAAQYENPSVQLGDIVEDEVDSIPFNRITMQTARQVISTKIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
           ++   +F+ ++  II+ TVK+V    +I+DLGN ++ VI R++ + REN R GDRV+  +
Sbjct: 124 NKVIDQFRSQLNTIITATVKKVNRDQIILDLGNQAEAVIVREDMLPRENFRLGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y ++ E +GPQ+ ++R  P  + +LF +EVPEI   ++++K  SRDPGSRAK+AV S D 
Sbjct: 184 YAIKPESKGPQLFVTRAKPIMLEELFKLEVPEIGEDVIEIKGASRDPGSRAKIAVKSHDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAISNELGGERVDIVLWDDNPAQFVINAMAPADVSSIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T E+     Q + N+    F+ ++
Sbjct: 304 AMDIAVESKNLAQAIGRNGQNVRLATQLTGWTLNVMTTEDLDKKHQAEDNKVIDLFVTSL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV-EIQGRAREYLEGIDITLQ 425
            +D+  A +LV EGF+ +EELA + +SE+ +I+G ++E  V E+Q RA+  +    +  +
Sbjct: 364 EIDQEFAQILVDEGFSSLEELAFIPVSELTAIDGLEDEDLVEELQTRAKNVITAKALAEE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           + +++  + + L ++ G+D  I   L E GI T+E+LA  + DDL
Sbjct: 424 EALQQAHIEDRLLNLEGLDRHIAFKLAEKGITTLEELAEQATDDL 468


>gi|319762633|ref|YP_004126570.1| transcription termination factor nusa [Alicycliphilus denitrificans
           BC]
 gi|330824723|ref|YP_004388026.1| NusA antitermination factor [Alicycliphilus denitrificans K601]
 gi|317117194|gb|ADU99682.1| transcription termination factor NusA [Alicycliphilus denitrificans
           BC]
 gi|329310095|gb|AEB84510.1| NusA antitermination factor [Alicycliphilus denitrificans K601]
          Length = 494

 Score =  377 bits (967), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 198/469 (42%), Positives = 315/469 (67%), Gaps = 6/469 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           NR ELL + +A++ EK+++RDVVL  +  ++ +A + LY    D+RV I+ ++GD   FR
Sbjct: 2   NR-ELLMLVEAISREKNVERDVVLGAVESALAQATKKLYQGDVDLRVSIDRDSGDYETFR 60

Query: 65  LLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
              VV +   ++N   +  L  AR+R P I++G  + +P+  +  GR+   +AKQVI+QK
Sbjct: 61  RWLVVPDDAGLQNPDAEELLMDARERVPDIEVGEYIEEPVESVPIGRIGAMAAKQVILQK 120

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+    +F  +  +I +GTVKR++ G++I++ G  +G +RR E I +ENLR GDR
Sbjct: 121 IRDAEREMLLNDFMSRGEKIFTGTVKRMDKGDLIIESGRVEGRLRRSEMIPKENLRNGDR 180

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I +V    RG  ++LSR+ P+FM++LF  EVPEI  G++++K+ +RDPGSRAK+AV
Sbjct: 181 VRAMIMEVDLTLRGAPIILSRSAPEFMIELFRNEVPEIEQGLLEIKSCARDPGSRAKIAV 240

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  +DP+G CVG+RG+RV AV  EL  E++DIV+WS D A FVI AL PA V  +V+
Sbjct: 241 LSHDKRVDPIGTCVGVRGTRVNAVTNELAGERVDIVLWSDDPAQFVIGALAPANVQSIVV 300

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+   ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+   E +  +  + +   + 
Sbjct: 301 DEEKHAMDVVVDEENLAIAIGRGGQNVRLASELTGWKINIMDAAESAQKQADETDAARRL 360

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+ ++VDE IA +L+AEGF  +EE+A V + E+  IE FDE+T  E++ RA++ L  ++
Sbjct: 361 FMEKLDVDEEIADILIAEGFESLEEVAYVPLQEMLEIESFDEDTVNELRVRAKDALLTME 420

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           I  ++ +    VS++L  + G+  ++   L + G+ T +DLA  ++D+L
Sbjct: 421 IAREESMG--SVSQDLRDLEGLTPELIAKLADAGVNTRDDLADLAIDEL 467


>gi|29654724|ref|NP_820416.1| transcription elongation factor NusA [Coxiella burnetii RSA 493]
 gi|81628742|sp|Q83BS0|NUSA_COXBU RecName: Full=Transcription elongation protein nusA
 gi|29541992|gb|AAO90930.1| N utilization substance protein A [Coxiella burnetii RSA 493]
          Length = 503

 Score =  377 bits (967), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 204/470 (43%), Positives = 318/470 (67%), Gaps = 8/470 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS-DIRVEINPETGDISLFRLL 66
           ++L I D+++ E+ + ++V+   +  ++       Y      IRV I+ +TGD   FR  
Sbjct: 4   DILLIVDSMSNERGVSKEVIFEAIEAALAAVTAKRYEEDDVKIRVAIDQKTGDYESFRCW 63

Query: 67  EVVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            VVE+    +E    +++LK AR+ D  +++G V+ +P+  + FGR+AVQ AKQVI+QKV
Sbjct: 64  TVVEDTNESLEFPNQEMTLKQAREIDSDLEVGDVIEEPVESVKFGRIAVQQAKQVIVQKV 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER +   +++ +VGE++ G VKRV   ++I+D+G N++ ++ R+E I RE  R  DR
Sbjct: 124 REAERAKIIRQYEKRVGELVIGVVKRVTRESIILDMGENAEALLLREEMIPREAFRINDR 183

Query: 182 VKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           +++Y+Y V + ++RGPQ+L+SRT P+F+V+LF +EVPEI   ++++K  +RDPGSRAK+A
Sbjct: 184 LRAYLYSVCQDKKRGPQLLVSRTRPEFLVELFKIEVPEIGEEVIEIKGAARDPGSRAKIA 243

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V ++D  IDP+GACVGMRGSRVQAV  EL  E+IDIV+W  + A  VINA+ PA V  +V
Sbjct: 244 VKTNDGRIDPIGACVGMRGSRVQAVSNELGGERIDIVLWDDNPAQLVINAMAPAEVASIV 303

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V K+QLS AIGR GQNVRLAS+LTGWT+++++E E +   +K+  +   
Sbjct: 304 VDEDSHTMDIAVNKDQLSQAIGRSGQNVRLASELTGWTLNVMSEAEMAQKHEKEAGKIKT 363

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+ ++VDE +A  LV  GF ++EE+A V   E+  +EGFDE+ + E+Q RA + L   
Sbjct: 364 AFMEKLDVDEEVADALVQAGFMNLEEVAYVPKEELQGVEGFDEDISAELQRRAGDVLLTQ 423

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           +I  Q ++ E   +E+L ++PG+ +++   L EN + T +DLA  SV DL
Sbjct: 424 EIAKQ-ELDEKKPAEDLLTLPGMTTELARQLVENEVLTRDDLAEKSVLDL 472


>gi|330722350|gb|EGH00207.1| Transcription termination protein NusA [gamma proteobacterium
           IMCC2047]
          Length = 503

 Score =  377 bits (967), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 204/485 (42%), Positives = 317/485 (65%), Gaps = 11/485 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGT--MSDIRVEINPETGDISLFRL 65
           E+L +A+AV+ EK +   V++  +  ++  A R  YG     DIRV I+  TGD   +R 
Sbjct: 4   EVLLVAEAVSNEKGVPESVIIEALELALATATRKRYGEDEQVDIRVTIDRRTGDYESYRR 63

Query: 66  LEVVEE----VENY-TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
             V+ +    +E + T  ++   A+ +D S+++G V  + +  ++FGR+A Q+AKQVI+Q
Sbjct: 64  WTVISDDDMDIEFHDTMHLTPAEAKKKDASLEVGDVWEEQIENVEFGRIAAQTAKQVIVQ 123

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPG 179
           KVREAER +    ++D+VGE+++GTVK+V    VI+DLGN ++  + RD  I +E  R  
Sbjct: 124 KVREAERAKVVEAYRDRVGEVLNGTVKKVTRDQVIIDLGNNAEAQLTRDHLIPKEIFRMN 183

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR+++ +  V  E RGPQ+++SRT P+F+++LF +EVPEI   +V+++A +RD G+RAK+
Sbjct: 184 DRLRALLVSVGEETRGPQLVVSRTAPEFLIELFKIEVPEIAEQVVEIRAAARDAGTRAKI 243

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV ++D  IDPVGACVGMRGSRVQAV  EL  E+IDIV+W  + A  VINAL PA V  +
Sbjct: 244 AVKTNDGRIDPVGACVGMRGSRVQAVSNELAGERIDIVLWDDNPAQMVINALAPAEVESI 303

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           ++DE+   ++V V  + L++AIGR GQNVRLAS+LTGWTI+++T E+    ++++     
Sbjct: 304 IMDEESNTMDVAVSGDNLAIAIGRSGQNVRLASELTGWTINVMTAEDAEAKQEEEMVAII 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM+ ++V+E +A LLV EGF  +EE+A V I E+  I+GFDEE    ++ RA++ L  
Sbjct: 364 ERFMERLDVEEDLAVLLVEEGFTSLEEIAYVPIEEMLEIDGFDEEIVEALRLRAKDVLLT 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSEN 476
             I  ++++     +++L  + G+D  +   L   G+ TMEDLA  +VDDLL   G  E 
Sbjct: 424 QAIASEEELEGTEPAQDLLEMDGMDKHLAYVLASKGVITMEDLAEQAVDDLLGIEGLDEE 483

Query: 477 KGGNI 481
           +  N+
Sbjct: 484 RAANL 488


>gi|71276363|ref|ZP_00652640.1| Transcription termination factor NusA:Transcription termination
           factor NusA, C-terminal duplication [Xylella fastidiosa
           Dixon]
 gi|71901435|ref|ZP_00683525.1| Transcription termination factor NusA:Transcription termination
           factor NusA, C-terminal duplication [Xylella fastidiosa
           Ann-1]
 gi|170729432|ref|YP_001774865.1| transcription elongation factor NusA [Xylella fastidiosa M12]
 gi|71162825|gb|EAO12550.1| Transcription termination factor NusA:Transcription termination
           factor NusA, C-terminal duplication [Xylella fastidiosa
           Dixon]
 gi|71728806|gb|EAO30947.1| Transcription termination factor NusA:Transcription termination
           factor NusA, C-terminal duplication [Xylella fastidiosa
           Ann-1]
 gi|167964225|gb|ACA11235.1| N utilization substance protein A [Xylella fastidiosa M12]
          Length = 503

 Score =  376 bits (966), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 195/470 (41%), Positives = 311/470 (66%), Gaps = 7/470 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI--RVEINPETGDISLFRL 65
           ELL + D VA EK + R ++   +  ++  AA+  Y    DI  RV I+ + G+   +R 
Sbjct: 4   ELLLVVDVVANEKGVPRQIIFDAIEVALASAAKKRYQD-RDILTRVTIDQKNGNYETYRR 62

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            EVV +   +E+   QI L  A D    +++G  + + +   DFGR++ Q+AKQVI+Q+V
Sbjct: 63  WEVVADDVVMESPERQIRLMDALDEADGVEVGDYIEEQIENPDFGRISAQAAKQVIVQRV 122

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDR 181
           REAER +    +K++VGE+++G VKRVE GN+ VDLG  ++  I +D+ I R+ +RPGDR
Sbjct: 123 REAERQQVVDAWKNRVGELVTGVVKRVERGNIYVDLGGGTEAFIPKDKGIPRDVIRPGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+ Y+ +VR E RGPQ+ +SR+ P+FM++LF +EVPE+  G+V++K  +RDPG RAK+AV
Sbjct: 183 VRGYLAEVRSESRGPQLFISRSAPEFMIELFKLEVPEVGQGLVEIKGCARDPGDRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            + D+  DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  +++
Sbjct: 243 IAHDNRTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNENPANFVINAMAPAEVQSIIV 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T E+ +   + +     + 
Sbjct: 303 DEERHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTAEQVAAKSEAEQVAARRL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM  + VDE IA +LV EGF  +EE+A V + E+ ++EGFDE+   E++ RAR+ L    
Sbjct: 363 FMDRLEVDEEIASILVMEGFNTIEEIAYVPVGELLAVEGFDEDIVEELRARARDALLNAA 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           +  ++ +   G + +L  + G+D     AL  +G++T EDL+  + D+++
Sbjct: 423 LAEEEVLEHSGPAPDLLELNGMDEITAHALAAHGVRTSEDLSDLAADEIV 472


>gi|167856225|ref|ZP_02478960.1| translation initiation factor IF-2 [Haemophilus parasuis 29755]
 gi|167852645|gb|EDS23924.1| translation initiation factor IF-2 [Haemophilus parasuis 29755]
          Length = 510

 Score =  376 bits (966), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 197/482 (40%), Positives = 313/482 (64%), Gaps = 19/482 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVL----SVMADSIQKAA-------RSLYGTMSDIRVEINPE 56
           E+L  A+AV+ EK + +D +     + +A S +K A       ++  G   D+RV I+ +
Sbjct: 4   EILLAAEAVSNEKLLPKDAIFEALETALAISTKKKAAAEREDRKTGNGIDIDVRVVIDRK 63

Query: 57  TGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQ 116
           TG  + +R   VVE+V ++T +I+L+ A+  DP+I +G  V D +  + F R+ +Q+A+Q
Sbjct: 64  TGAFTTYRRWLVVEKVHHHTREITLEAAQFEDPNIQLGDYVEDEIESIAFDRITMQTARQ 123

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-------NSDGVIRRDE 169
           VI  K+REAER++   +F+ + G+I+ GTVK+V   ++I++L         ++ VI R++
Sbjct: 124 VITMKIREAERNKVIEQFRSEEGKIVIGTVKKVSRESIILELAGKKDDTTKAEAVIVRED 183

Query: 170 TISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAV 229
            + REN RPGDRV+  +Y ++ E +GPQ+ ++R  P  + +LF +EVPEI   ++++K  
Sbjct: 184 MLPRENFRPGDRVRGVLYAIKPESKGPQLFVTRAKPVMLQELFKLEVPEIGEEVIEIKGA 243

Query: 230 SRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVIN 289
           SRDPGSRAK+AV S+D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A F+IN
Sbjct: 244 SRDPGSRAKIAVKSNDKRIDPVGACVGMRGARVQAITNELGGERVDIVLWDDNPAQFLIN 303

Query: 290 ALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           A+ PA V+ +V+DED   +++ V    L+ AIGR GQNVRLA+QLTGWT++++T +E   
Sbjct: 304 AMAPADVSSIVVDEDNHSMDIAVEANALAQAIGRNGQNVRLATQLTGWTLNVMTTDELEK 363

Query: 350 NRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV-E 408
             Q + N+    FM A+ +DE  AHLL+ EGF  +EE+A V + E+ +I+G ++E  V E
Sbjct: 364 KHQAEDNKVINLFMDALEIDEEFAHLLIEEGFTSLEEIAYVPVKELTAIDGLEDEDLVEE 423

Query: 409 IQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVD 468
           +Q RA+  +    +  ++ +++  + ++L ++ G+D  I   L E  I T+EDLA  SVD
Sbjct: 424 LQVRAKNAITAKALAEEEALKQAHIEDKLLNLEGMDRHIAFKLAEKQITTLEDLAEQSVD 483

Query: 469 DL 470
           DL
Sbjct: 484 DL 485


>gi|241662813|ref|YP_002981173.1| transcription elongation factor NusA [Ralstonia pickettii 12D]
 gi|309782264|ref|ZP_07676992.1| transcription termination/antitermination protein NusA [Ralstonia
           sp. 5_7_47FAA]
 gi|240864840|gb|ACS62501.1| NusA antitermination factor [Ralstonia pickettii 12D]
 gi|308918957|gb|EFP64626.1| transcription termination/antitermination protein NusA [Ralstonia
           sp. 5_7_47FAA]
          Length = 491

 Score =  376 bits (966), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 202/502 (40%), Positives = 327/502 (65%), Gaps = 22/502 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV   +  ++  A +  +    D+RV I+ E+G+   FR   
Sbjct: 4   EVLLLVDALAREKNVDKDVVFGALEAALASATKKRFEEDVDVRVAIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    QI L  A++++P +D+   V + +  ++FGR+  Q+AKQVI+Q++R+
Sbjct: 64  VVPDDAGLQEPDKQILLFEAKEQNPDLDVDDFVEEQIESVEFGRIGAQAAKQVILQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ D+  ++++GT+KR +   +IV+ G  + ++ RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLDRGEKVMTGTIKRADKKGLIVETGRVEALLARDQMIPKENLRTGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +V R  RGPQ+ LSRT P+F++KLF  EVPE+  G++++KA +RDPG RAK+AV + 
Sbjct: 184 YILNVDRTARGPQIELSRTCPEFLIKLFENEVPEMEQGLLEIKAAARDPGVRAKIAVVAH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RG+RV AV  E+  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGVRGTRVTAVRNEVGGEAVDIVLWSEDPAQFVIGALAPAQVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+T  E +  + ++ +   Q FM 
Sbjct: 304 KHSMDVVVDEENLAVAIGRSGQNVRLASELTGWQINIMTPAESAQKQAEESSVVRQLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF+ +EE+A V + E+  IE FDE+T  E++ RAR+ L  + + L
Sbjct: 364 KLDVDEEVADILIEEGFSSLEEVAYVPLQEMLEIEAFDEDTVNELRNRARDVL--LTMEL 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
            K+ R   VS++L  + G+  ++   L E  I+T +DLA  +VD+L+  +          
Sbjct: 422 AKEERVEKVSQDLRDLEGLTPELIGKLAEGNIQTRDDLAELAVDELVEMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHAR 506
                  G  ++Q +++I+ AR
Sbjct: 472 -------GVDEEQAKALIMKAR 486


>gi|28198121|ref|NP_778435.1| transcription elongation factor NusA [Xylella fastidiosa Temecula1]
 gi|71898654|ref|ZP_00680824.1| Transcription termination factor NusA:Transcription termination
           factor NusA, C-terminal duplication [Xylella fastidiosa
           Ann-1]
 gi|182680749|ref|YP_001828909.1| transcription elongation factor NusA [Xylella fastidiosa M23]
 gi|28056181|gb|AAO28084.1| N utilization substance protein A [Xylella fastidiosa Temecula1]
 gi|71731601|gb|EAO33662.1| Transcription termination factor NusA:Transcription termination
           factor NusA, C-terminal duplication [Xylella fastidiosa
           Ann-1]
 gi|182630859|gb|ACB91635.1| NusA antitermination factor [Xylella fastidiosa M23]
 gi|307579213|gb|ADN63182.1| transcription elongation factor NusA [Xylella fastidiosa subsp.
           fastidiosa GB514]
          Length = 503

 Score =  376 bits (966), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 195/470 (41%), Positives = 311/470 (66%), Gaps = 7/470 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI--RVEINPETGDISLFRL 65
           ELL + D VA EK + R ++   +  ++  AA+  Y    DI  RV I+ + G+   +R 
Sbjct: 4   ELLLVVDVVANEKGVPRQIIFDAIEVALASAAKKRYQD-RDILTRVTIDQKNGNYETYRR 62

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            EVV +   +E+   QI L  A D    +++G  + + +   DFGR++ Q+AKQVI+Q+V
Sbjct: 63  WEVVADDVVMESPERQIRLMDALDEADGVEVGDYIEEQIENPDFGRISAQAAKQVIVQRV 122

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDR 181
           REAER +    +K++VGE+++G VKRVE GN+ VDLG  ++  I +D+ I R+ +RPGDR
Sbjct: 123 REAERQQVVDAWKNRVGELVTGVVKRVERGNIYVDLGGGTEAFIPKDKGIPRDVIRPGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+ Y+ +VR E RGPQ+ +SR+ P+FM++LF +EVPE+  G+V++K  +RDPG RAK+AV
Sbjct: 183 VRGYLAEVRSESRGPQLFISRSAPEFMIELFKLEVPEVGQGLVEIKGCARDPGDRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            + D+  DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  +++
Sbjct: 243 IAHDNRTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNENPANFVINAMAPAEVQSIIV 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T E+ +   + +     + 
Sbjct: 303 DEERHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTAEQVAAKSEAEQLAARRL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM  + VDE IA +LV EGF  +EE+A V + E+ ++EGFDE+   E++ RAR+ L    
Sbjct: 363 FMDRLEVDEEIASILVMEGFNTIEEIAYVPVGELLAVEGFDEDIVEELRARARDALLNAA 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           +  ++ +   G + +L  + G+D     AL  +G++T EDL+  + D+++
Sbjct: 423 LAEEEVLEHSGPAPDLLELNGMDEITAHALAAHGVRTSEDLSDLAADEIV 472


>gi|515637|gb|AAA20049.1| transcription factor [Salmonella enterica subsp. enterica serovar
           Typhimurium]
          Length = 500

 Score =  376 bits (965), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 196/483 (40%), Positives = 311/483 (64%), Gaps = 9/483 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEEVTMPTKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPGDR 181
                +F+D+ GEI++G VK+V   N+ +++      GN++ VI R++ + REN RPGDR
Sbjct: 124 AMVVDQFRDQEGEIVTGVVKKVNRDNISLEIKSEGMAGNAEAVILREDMLPRENFRPGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++  +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV
Sbjct: 184 IRGVLYAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGACVGMR +RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+
Sbjct: 244 KTNDKRIDPVGACVGMRRARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVV 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +   + 
Sbjct: 304 DEDKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIEI 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  + 
Sbjct: 364 FTKYLDIDEEFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALATLA 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVD---DLLGWSENKG 478
              +  + +   +++L ++ G+D  +   L   G+ T+EDLA   +D   D+ G ++ K 
Sbjct: 424 QDQEASLGDNKPADDLLNLEGVDRDMAFKLAARGVCTLEDLAQQGIDHLADIEGLTDEKA 483

Query: 479 GNI 481
           G +
Sbjct: 484 GAL 486


>gi|145637799|ref|ZP_01793448.1| transcription elongation factor NusA [Haemophilus influenzae
           PittHH]
 gi|145268992|gb|EDK08946.1| transcription elongation factor NusA [Haemophilus influenzae
           PittHH]
          Length = 495

 Score =  376 bits (965), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 189/465 (40%), Positives = 313/465 (67%), Gaps = 2/465 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + R+ +   +  +I  + +  +   +DIRV INP+TG+   FR   
Sbjct: 4   EILLAAEAVSNEKLLPREKIFEALESAIAISTKKKFEYETDIRVSINPKTGEFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV+  T +I+L+ A+  DP++ +G  V D +  + F R+A+Q+A+QVI  K+REAER
Sbjct: 64  VVDEVKVPTKEITLEAAQFDDPNLQLGEYVEDQIESIAFDRIAMQTARQVISTKIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F+++ G+I++GTVK+V   ++I+DLGN ++ +I R++ + REN RPGDRV+  +
Sbjct: 124 AKVVEQFREEEGKIVTGTVKKVSRDSIILDLGNKAEAMITREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E +  Q+ ++R+ P+ +++LF +EVPEI   +++++  +RD GSRAK+AV S+D 
Sbjct: 184 YKVNPEGKTAQLFVTRSKPEMLIELFRIEVPEIGEEMIEIRGAARDAGSRAKIAVKSNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIIVDEDNH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T +E +   Q + N+    F+ A+
Sbjct: 304 SMDIAVEADNLAQAIGRNGQNVRLATQLTGWTLNVMTTDELNAKHQAEDNKVLNLFINAL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV-EIQGRAREYLEGIDITLQ 425
            +DE  A +LV EGF  +EE+A V ++E+ +I+G ++E  V E+Q RA+  +    +  +
Sbjct: 364 ELDEEFAQILVEEGFTSLEEIAYVPMNELTAIDGLEDEDLVEELQTRAKNAITAAAVAEE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           + +++  + + L ++ G++  +   L E  I T+E+LA   VDDL
Sbjct: 424 EALKKANIEDRLLNLDGMNRHVAFRLAEKQITTLEELAEQGVDDL 468


>gi|1075364|pir||D64114 transcription termination-antitermination factor nusA - Haemophilus
           influenzae (strain Rd KW20)
          Length = 507

 Score =  376 bits (965), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 189/465 (40%), Positives = 313/465 (67%), Gaps = 2/465 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + R+ +   +  +I  + +  +   +DIRV INP+TG+   FR   
Sbjct: 16  EILLAAEAVSNEKLLPREKIFEALESAIAISTKKKFEYETDIRVSINPKTGEFDTFRRWL 75

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV+  T +I+L+ A+  DP++ +G  V D +  + F R+A+Q+A+QVI  K+REAER
Sbjct: 76  VVDEVKVPTKEITLEAAQFDDPNLQLGEYVEDQIESIAFDRIAMQTARQVISTKIREAER 135

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F+++ G+I++GTVK+V   ++I+DLGN ++ +I R++ + REN RPGDRV+  +
Sbjct: 136 AKVVEQFREEEGKIVTGTVKKVSRDSIILDLGNKAEAMIAREDMLPRENFRPGDRVRGVL 195

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E +  Q+ ++R+ P+ +++LF +EVPEI   +++++  +RD GSRAK+AV S+D 
Sbjct: 196 YKVNPEGKTAQLFVTRSKPEMLIELFRIEVPEIGEEMIEIRGAARDAGSRAKIAVKSNDK 255

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQ +  EL  E++DIV+W  + A FVINA+ PA V+ +++DED  
Sbjct: 256 RIDPVGACVGMRGARVQVITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIIVDEDNH 315

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T +E +   Q + N+    F+ A+
Sbjct: 316 SMDIAVEADNLAQAIGRNGQNVRLATQLTGWTLNVMTTDELNAKHQAEDNKVLNLFINAL 375

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV-EIQGRAREYLEGIDITLQ 425
            +DE  A +LV EGF  +EE+A V ++E+ +I+G ++E  V E+Q RA+  +    +  +
Sbjct: 376 ELDEEFAQILVEEGFTSLEEIAYVPMNELTAIDGLEDEDLVEELQTRAKNAITAAAVAEE 435

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           + +++  V + L ++ G++  + + L E  I T+E+LA   VDDL
Sbjct: 436 EALKKANVEDRLLNLEGMNRHVAIKLAEKQITTLEELAEQGVDDL 480


>gi|145630836|ref|ZP_01786614.1| transcription elongation factor NusA [Haemophilus influenzae R3021]
 gi|145633248|ref|ZP_01788979.1| transcription elongation factor NusA [Haemophilus influenzae 3655]
 gi|145634372|ref|ZP_01790082.1| transcription elongation factor NusA [Haemophilus influenzae
           PittAA]
 gi|145641320|ref|ZP_01796899.1| transcription elongation factor NusA [Haemophilus influenzae R3021]
 gi|148825866|ref|YP_001290619.1| transcription elongation factor NusA [Haemophilus influenzae
           PittEE]
 gi|229845094|ref|ZP_04465229.1| transcription elongation factor NusA [Haemophilus influenzae
           6P18H1]
 gi|229846821|ref|ZP_04466928.1| transcription elongation factor NusA [Haemophilus influenzae
           7P49H1]
 gi|144983718|gb|EDJ91178.1| transcription elongation factor NusA [Haemophilus influenzae R3021]
 gi|144986094|gb|EDJ92684.1| transcription elongation factor NusA [Haemophilus influenzae 3655]
 gi|145268352|gb|EDK08346.1| transcription elongation factor NusA [Haemophilus influenzae
           PittAA]
 gi|145273863|gb|EDK13730.1| transcription elongation factor NusA [Haemophilus influenzae
           22.4-21]
 gi|148716026|gb|ABQ98236.1| transcription elongation factor NusA [Haemophilus influenzae
           PittEE]
 gi|229810310|gb|EEP46029.1| transcription elongation factor NusA [Haemophilus influenzae
           7P49H1]
 gi|229811930|gb|EEP47624.1| transcription elongation factor NusA [Haemophilus influenzae
           6P18H1]
 gi|309973011|gb|ADO96212.1| Transcription elongation factor NusA [Haemophilus influenzae R2846]
          Length = 495

 Score =  376 bits (965), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 189/465 (40%), Positives = 313/465 (67%), Gaps = 2/465 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + R+ +   +  +I  + +  +   +DIRV INP+TG+   FR   
Sbjct: 4   EILLAAEAVSNEKLLPREKIFEALESAIAISTKKKFEYETDIRVSINPKTGEFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV+  T +I+L+ A+  DP++ +G  V D +  + F R+A+Q+A+QVI  K+REAER
Sbjct: 64  VVDEVKVPTKEITLEAAQFDDPNLQLGEYVEDQIESIAFDRIAMQTARQVISTKIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F+++ G+I++GTVK+V   ++I+DLGN ++ +I R++ + REN RPGDRV+  +
Sbjct: 124 AKVVEQFREEEGKIVTGTVKKVSRDSIILDLGNKAEAMIAREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E +  Q+ ++R+ P+ +++LF +EVPEI   +++++  +RD GSRAK+AV S+D 
Sbjct: 184 YKVNPEGKTAQLFVTRSKPEMLIELFRIEVPEIGEEMIEIRGAARDAGSRAKIAVKSNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIIVDEDNH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T +E +   Q + N+    F+ A+
Sbjct: 304 SMDIAVEADNLAQAIGRNGQNVRLATQLTGWTLNVMTTDELNAKHQAEDNKVLNLFINAL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV-EIQGRAREYLEGIDITLQ 425
            +DE  A +LV EGF  +EE+A V ++E+ +I+G ++E  V E+Q RA+  +    +  +
Sbjct: 364 ELDEEFAQILVEEGFTSLEEIAYVPMNELTAIDGLEDEDLVEELQTRAKNAITAAAVAEE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           + +++  + + L ++ G++  +   L E  I T+E+LA   VDDL
Sbjct: 424 EALKKANIEDRLLNLDGMNRHVAFRLAEKQITTLEELAEQGVDDL 468


>gi|239815725|ref|YP_002944635.1| NusA antitermination factor [Variovorax paradoxus S110]
 gi|239802302|gb|ACS19369.1| NusA antitermination factor [Variovorax paradoxus S110]
          Length = 494

 Score =  376 bits (965), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 198/469 (42%), Positives = 311/469 (66%), Gaps = 6/469 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           NR E+L + DA++ EK+++RDVV   +  ++ +A + L+    DIRV ++ ++GD   FR
Sbjct: 2   NR-EMLMLVDAISREKNVERDVVFGAVESALAQATKKLHQGDVDIRVSVDRDSGDYETFR 60

Query: 65  LLEVVEEVENYTC---QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
              VV +         +I L  A++  P I++G  + + +  +  GR+   +AKQVI+QK
Sbjct: 61  RWHVVPDEAGLQLPDQEILLFEAKEEMPDIEVGEYIEEAVDSVPIGRIGAMAAKQVILQK 120

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+    +F  +  +I  GTVKR++ G++IV+ G  +G +RR E I++ENLR GDR
Sbjct: 121 IRDAEREMLLNDFMSRGDKIFVGTVKRLDKGDIIVEAGRVEGRLRRSEMIAKENLRNGDR 180

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I +V    RG  ++LSR+ P+FM++LF  EVPEI  G++++K+ +RDPGSRAK+AV
Sbjct: 181 VRAMIMEVDLTLRGAPIILSRSAPEFMIELFRQEVPEIEQGLLEIKSCARDPGSRAKIAV 240

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  +DP+G CVG+RG+RV AV  EL  E++DIV+WS D A FVI AL PA V+ +V+
Sbjct: 241 LSHDKRVDPIGTCVGVRGTRVNAVTNELAGERVDIVLWSEDPAQFVIGALAPANVSSIVV 300

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+   ++V+V +E L++AIGR GQNVRLAS LTGW I+I+   E +  +  + +   + 
Sbjct: 301 DEEKHAMDVVVDEENLAIAIGRGGQNVRLASDLTGWKINIMDANESAQKQASETDASRKL 360

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+ ++VDE IA +L++EGF  +EE+A V ISE+  IE FDE+T  E++ RA++ L  ++
Sbjct: 361 FMEKLDVDEEIADILISEGFNSLEEVAYVPISEMLEIEAFDEDTINELRSRAKDALLTME 420

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           I  ++ +    VS+ L  + G+D ++   L E G+ T +DLA  +VD+L
Sbjct: 421 IAKEEGVE--TVSQNLRDLEGLDPELIPKLAEAGVHTRDDLADLAVDEL 467


>gi|94501385|ref|ZP_01307905.1| N utilization substance protein A [Oceanobacter sp. RED65]
 gi|94426498|gb|EAT11486.1| N utilization substance protein A [Oceanobacter sp. RED65]
          Length = 497

 Score =  376 bits (965), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 204/481 (42%), Positives = 319/481 (66%), Gaps = 7/481 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFRLL 66
           E+L +A+AV+ EK ++++V+   +  ++  AA+  Y     DIRV I+  +G+   +R  
Sbjct: 4   EILLVAEAVSNEKGVEKEVIFEAIELALAAAAKKRYEDEEPDIRVAIDRRSGEYETYRHW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
            +V  E V     +++++ A D D ++  G    + +   +FGR+A Q+AKQ+I+QKVRE
Sbjct: 64  TIVSNEVVPALGSELNMQEAADIDTNLKEGDSYEEQIENPEFGRIAAQAAKQIIMQKVRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVK 183
           AER +    ++D++GE++ GTVK+V   N+IVDLGN ++G++ R++ ++RE  R GDR++
Sbjct: 124 AERAKITAAYEDRIGELVHGTVKKVTRDNIIVDLGNNAEGLLPREQLVAREVFRIGDRLR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           + +  V  E RGPQ++LSR     +++LF +EVPEI   ++++KA +RDPGSRAK+AV S
Sbjct: 184 AVLTSVNPENRGPQLILSRAAGSMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKS 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  IDPVGACVGMRG+RVQAV  EL +E++DIV+W  + A  VINAL PA V  +V+DE
Sbjct: 244 NDQRIDPVGACVGMRGARVQAVSNELGNERVDIVLWDDNPAQLVINALAPAEVESIVMDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           +   ++V V ++QL++AIGR GQNV+LAS+LTGW I+++TEEE    +Q++     Q  M
Sbjct: 304 ETNSMDVAVAEDQLAIAIGRGGQNVKLASELTGWVINVMTEEEAGEKQQQEQGSLVQKLM 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
            A+++DE +A +LV EGF  ++E+A V   E+  I+GFDEE   E+Q RA++ L    I 
Sbjct: 364 DALDIDEDMAAVLVGEGFTGLDEVAYVPREEMLEIDGFDEEVVDELQARAKDVLLTQAIA 423

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDD---LLGWSENKGGN 480
            ++K+ +   +E+L ++ G+D  + + L  +GI TMEDLA   VDD   L G  E K   
Sbjct: 424 SEEKLEDAQPAEDLLNMEGMDQHLALVLASHGIVTMEDLAEQGVDDISSLEGLDEEKAAQ 483

Query: 481 I 481
           +
Sbjct: 484 L 484


>gi|325578298|ref|ZP_08148433.1| N utilization substance A [Haemophilus parainfluenzae ATCC 33392]
 gi|325160034|gb|EGC72163.1| N utilization substance A [Haemophilus parainfluenzae ATCC 33392]
          Length = 495

 Score =  376 bits (965), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 193/465 (41%), Positives = 312/465 (67%), Gaps = 2/465 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + R+ +   +  +I  + +  Y   +DIRV INP+TG+   FR   
Sbjct: 4   EILLAAEAVSNEKLLPREKIFEALESAIALSTKKKYDYETDIRVSINPKTGEFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV+  T +++L+ A+  DP+I +G  V D +  + F R+A+Q+A+QVI  K+REAER
Sbjct: 64  VVDEVKVPTKEMTLEAAQFEDPNIQLGDYVEDQIESIAFDRIAMQTARQVISTKIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F+ + G+I++GTVK+V   ++I+DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AKVVEQFRSEEGKIVTGTVKKVNRESIILDLGNKAEAVIMREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E +  Q+ ++R  P+ +++LF +EVPEI   +++++  +RDPGSRAK+AV S+D 
Sbjct: 184 YKVNPESKTAQLFVTRAKPEMLIELFRIEVPEIGEEMLEIRGAARDPGSRAKIAVKSNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A +VINA+ PA VT +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAITNELGGERVDIVLWDDNPAQYVINAMAPADVTSIIVDEDNH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T E+ +   Q +  +    FM  +
Sbjct: 304 SMDIAVNADNLAQAIGRNGQNVRLATQLTGWTLNVMTTEQLNEKHQAEDTKVLNLFMDKL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV-EIQGRAREYLEGIDITLQ 425
            +DE  A +LV EGF  +EE+A V +SE+++I+G ++E  + E+QGRA++ +       +
Sbjct: 364 GLDEEFAQILVDEGFTSLEEVAYVPVSELSAIDGLEDEDLIEELQGRAKDAITAAAAAEE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           + +++  + + L ++ G++  I   L E  I T+E+LA   VDDL
Sbjct: 424 EALKKANIEDRLLNLEGMNRHIAFKLAEKQITTLEELAEQGVDDL 468


>gi|300691722|ref|YP_003752717.1| transcription termination/antitermination L factor [Ralstonia
           solanacearum PSI07]
 gi|299078782|emb|CBJ51442.1| transcription termination/antitermination L factor [Ralstonia
           solanacearum PSI07]
          Length = 491

 Score =  375 bits (964), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 199/502 (39%), Positives = 329/502 (65%), Gaps = 22/502 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV   +  ++  A +  +    ++RV I+ E+G+   FR   
Sbjct: 4   EVLLLVDALAREKNVDKDVVFGALEAALASATKKRFEEDVEVRVAIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    QI L  AR+++P + I   + + +  ++FGR+  Q+AKQVI+Q++R+
Sbjct: 64  VVPDDAGLQEPDKQILLFEAREQNPDVSIDEFIEEQIESVEFGRIGAQAAKQVILQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ D+  +I++GT+KR +   +IV+ G  + ++ RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLDRGEKIMTGTIKRADKKGLIVESGRVEALLARDQMIPKENLRTGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +V R  RGPQ+ LSRT P+F++KLF  EVPE+  G++++KA +RDPG RAK+AV + 
Sbjct: 184 YILNVDRTARGPQIELSRTCPEFLIKLFENEVPEMEQGLLEIKAAARDPGVRAKIAVVAH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RG+RV AV  E+  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGVRGTRVTAVRNEVGGEAVDIVLWSEDPAQFVIGALAPAQVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+T  E +  ++++ +   + FM+
Sbjct: 304 KHSMDVVVDEENLAVAIGRSGQNVRLASELTGWQINIMTPTESAQKQEEESSAVRKLFME 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RAR+ L  +++  
Sbjct: 364 KLDVDEEVADILIEEGFTSLEEVAYVPLQEMLEIEAFDEDTVNELRNRARDVLLTMELAK 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+ +  VS++L  + G+  ++   L E  I+T +DLA  +VD+L+  +          
Sbjct: 424 EEKVEK--VSQDLRDLEGLTPELIGKLAEGNIQTRDDLAELAVDELVDMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHAR 506
                  G  ++Q +++I+ AR
Sbjct: 472 -------GVDEEQAKALIMKAR 486


>gi|16273197|ref|NP_439435.1| transcription elongation factor NusA [Haemophilus influenzae Rd
           KW20]
 gi|260581405|ref|ZP_05849219.1| transcription termination factor NusA [Haemophilus influenzae RdAW]
 gi|260582501|ref|ZP_05850292.1| transcription termination factor NusA [Haemophilus influenzae
           NT127]
 gi|1171872|sp|P43915|NUSA_HAEIN RecName: Full=Transcription elongation protein nusA
 gi|1574741|gb|AAC22932.1| N utilization substance protein A (nusA) [Haemophilus influenzae Rd
           KW20]
 gi|260091947|gb|EEW75896.1| transcription termination factor NusA [Haemophilus influenzae RdAW]
 gi|260094481|gb|EEW78378.1| transcription termination factor NusA [Haemophilus influenzae
           NT127]
          Length = 495

 Score =  375 bits (964), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 189/465 (40%), Positives = 313/465 (67%), Gaps = 2/465 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + R+ +   +  +I  + +  +   +DIRV INP+TG+   FR   
Sbjct: 4   EILLAAEAVSNEKLLPREKIFEALESAIAISTKKKFEYETDIRVSINPKTGEFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV+  T +I+L+ A+  DP++ +G  V D +  + F R+A+Q+A+QVI  K+REAER
Sbjct: 64  VVDEVKVPTKEITLEAAQFDDPNLQLGEYVEDQIESIAFDRIAMQTARQVISTKIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F+++ G+I++GTVK+V   ++I+DLGN ++ +I R++ + REN RPGDRV+  +
Sbjct: 124 AKVVEQFREEEGKIVTGTVKKVSRDSIILDLGNKAEAMIAREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E +  Q+ ++R+ P+ +++LF +EVPEI   +++++  +RD GSRAK+AV S+D 
Sbjct: 184 YKVNPEGKTAQLFVTRSKPEMLIELFRIEVPEIGEEMIEIRGAARDAGSRAKIAVKSNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQ +  EL  E++DIV+W  + A FVINA+ PA V+ +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQVITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIIVDEDNH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T +E +   Q + N+    F+ A+
Sbjct: 304 SMDIAVEADNLAQAIGRNGQNVRLATQLTGWTLNVMTTDELNAKHQAEDNKVLNLFINAL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV-EIQGRAREYLEGIDITLQ 425
            +DE  A +LV EGF  +EE+A V ++E+ +I+G ++E  V E+Q RA+  +    +  +
Sbjct: 364 ELDEEFAQILVEEGFTSLEEIAYVPMNELTAIDGLEDEDLVEELQTRAKNAITAAAVAEE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           + +++  V + L ++ G++  + + L E  I T+E+LA   VDDL
Sbjct: 424 EALKKANVEDRLLNLEGMNRHVAIKLAEKQITTLEELAEQGVDDL 468


>gi|146308624|ref|YP_001189089.1| transcription elongation factor NusA [Pseudomonas mendocina ymp]
 gi|145576825|gb|ABP86357.1| NusA antitermination factor [Pseudomonas mendocina ymp]
          Length = 493

 Score =  375 bits (964), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 199/462 (43%), Positives = 305/462 (66%), Gaps = 3/462 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + ++V+ EK +   V+   +  ++  A +  +    D+RV IN + G    FR   
Sbjct: 4   EVLLVVESVSNEKGVPAGVIFEALELALATATKKRFEDEVDLRVSINRQNGSYETFRRWT 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV+E   E+   Q++  + +  +    IG V+ + +  ++FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVDESEFEDPAYQLTEDMPQAVEAKAKIGDVLEEKVESIEFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ I RE  R G R+++
Sbjct: 124 ERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIIPRETFRVGVRLRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G++ VKA SRDPGSRAK+AV S 
Sbjct: 184 LLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIDVKAASRDPGSRAKIAVRSK 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++DED
Sbjct: 244 DKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V ++ L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  Q F+ 
Sbjct: 304 AHAMDIAVAEDNLAQAIGRGGQNVRLASQLTGWTLNVMTEADIQAKQQAETGDIMQSFID 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + VDE +A +LV EGF  +EE+A V + E+ SI+GFDEE   E++ RA++ L    I  
Sbjct: 364 ELEVDEELAQVLVEEGFTSLEEIAYVPMEEMLSIDGFDEEIVNELRARAKDRLLTKAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
           ++K+ +   +++L  + G+D  + + L   G+ T EDLA  S
Sbjct: 424 EEKLADAHPADDLLELEGMDKALALELALRGVITREDLAEQS 465


>gi|307256660|ref|ZP_07538439.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 10 str. D13039]
 gi|306864708|gb|EFM96612.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 10 str. D13039]
          Length = 453

 Score =  375 bits (963), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 188/425 (44%), Positives = 288/425 (67%), Gaps = 2/425 (0%)

Query: 48  DIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFG 107
           D+RV I+ +TGD   FR   VVE+V N T +ISL+ A+  +PS+ +G +V D +  + F 
Sbjct: 4   DVRVVIDRKTGDFQTFRRWIVVEQVHNMTREISLEAAQYENPSVQLGDIVEDEVDSIPFD 63

Query: 108 RVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIR 166
           R+ +Q+A+QVI  K+REAER++   +F+ ++  II+ TVK+V    +I+DLGN ++ VI 
Sbjct: 64  RITMQTARQVISTKIREAERNKVIEQFRSQLNTIITATVKKVNREQIILDLGNQAEAVIV 123

Query: 167 RDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
           R++ + REN RPGDRV+  +Y ++ E +GPQ+ L+R  P  + +LF +EVPEI   ++++
Sbjct: 124 REDMLPRENFRPGDRVRGVLYAIKPESKGPQLFLTRAKPVMLEELFKLEVPEIGEDVIEI 183

Query: 227 KAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATF 286
           K  SRDPGSRAK+AV S D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A F
Sbjct: 184 KGASRDPGSRAKIAVKSHDKRIDPVGACVGMRGARVQAISNELGGERVDIVLWDDNPAQF 243

Query: 287 VINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           VINA+ PA V+ +V+DED   +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T E+
Sbjct: 244 VINAMAPAEVSAIVVDEDKHAMDIAVEGKNLAQAIGRNGQNVRLATQLTGWTLNVMTTED 303

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEET 405
                Q + N+    F+ A+ +D+  A LLV EGF+ +EE+A + +SE+ +I+G  DE  
Sbjct: 304 LDKKHQAEDNKVISLFVSALEIDDEFAQLLVDEGFSSLEEIAFIPVSELTAIDGIEDENL 363

Query: 406 AVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGC 465
           A E+Q RA+  +    +  ++ +++  + + L ++ G+D  I   L E GI T+E+LA  
Sbjct: 364 AEELQTRAKNAITAKALAEEEALKQAHIEDRLLNLEGLDRHIAFKLAEKGITTLEELAEQ 423

Query: 466 SVDDL 470
           + DDL
Sbjct: 424 ATDDL 428


>gi|167625060|ref|YP_001675354.1| transcription elongation factor NusA [Shewanella halifaxensis
           HAW-EB4]
 gi|167355082|gb|ABZ77695.1| NusA antitermination factor [Shewanella halifaxensis HAW-EB4]
          Length = 499

 Score =  375 bits (963), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 195/467 (41%), Positives = 306/467 (65%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK + R+ +   +  ++  A +  Y    ++RV I+ +TG    FR   
Sbjct: 4   EILLVAEAVSNEKGVPREKIFEALEIALATATKKKYEGDIEVRVAIDRKTGAYETFRRWM 63

Query: 68  VVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           VVE+    +EN   +I+L+ A+  DP I++GG + D +  + F R+  Q+AKQVI+QKVR
Sbjct: 64  VVEDAGVPLENPFREITLEAAKYDDPEIELGGYIEDEIDSVAFDRITTQTAKQVIVQKVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +   +F+D+ GE+I G VK+    +V+VDLGN +DGV+ R++ ISRE+ RPGDRV
Sbjct: 124 EAERAQIVDQFRDREGELIVGVVKKSNRESVVVDLGNNADGVLFREDLISRESFRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ +Y VR E RG Q+ L+RT P  +++LF +EVPEI + ++++   +RDPGSRAK+AV 
Sbjct: 184 RALLYSVRPEARGAQLFLTRTKPDMLIELFRVEVPEIQDEMIEIMGAARDPGSRAKIAVK 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A +VIN + PA V  +++D
Sbjct: 244 SNDRRIDPIGACVGMRGARVQAVSNELGGERVDIVLWDDNPAQYVINCMAPADVASIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQN+RLA+QL+GW ++++T ++     Q +  +    F
Sbjct: 304 EDNHSMDIAVEADSLAQAIGRNGQNIRLATQLSGWELNVMTVDDMKAKHQAESVKVVNLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           +QA++VDE  A LL  EGF  +EE+A V  SE+  I+GFDE+    ++GRA+  +    +
Sbjct: 364 IQALDVDEDFAQLLSDEGFTSLEEIAYVPESELLEIDGFDEDIVESLRGRAKAAISTRAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDD 469
             ++ +     SE+L ++ G+D  +   +   G+ T+EDLA   +DD
Sbjct: 424 ATEEALDGAEPSEDLLALEGLDRHLAFVMASKGVITLEDLAEQGIDD 470


>gi|109898014|ref|YP_661269.1| NusA antitermination factor [Pseudoalteromonas atlantica T6c]
 gi|109700295|gb|ABG40215.1| NusA antitermination factor [Pseudoalteromonas atlantica T6c]
          Length = 497

 Score =  375 bits (963), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 203/482 (42%), Positives = 309/482 (64%), Gaps = 9/482 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK + R+ +   +  +I  A +       ++RV I+  TGD   FR   
Sbjct: 4   EILLVAEAVSNEKQVPREKIFEALEFAIASATKKKTEGEIEVRVAIDRITGDFDTFRRWM 63

Query: 68  VV---EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           V+   ++ EN   ++++  A+  +P I +G  V D +  + F R+  Q+AKQVI+QKVRE
Sbjct: 64  VIADDQKQENPFAEMTISAAQIDEPDIQLGDYVEDQIESIKFDRITTQTAKQVIVQKVRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVK 183
           AER +   E++++VG++++GTVK+V   N+I+DLGN ++GVI RD+ + RE  RPGDRV+
Sbjct: 124 AERAQVMAEYEERVGDLVTGTVKKVNRDNIIIDLGNNAEGVIYRDDMLPRETFRPGDRVR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
             +Y +R E RG Q+ +SRTHP  +V+LF +EVPEI    +++KA +RDPGSRAK+AV +
Sbjct: 184 GLLYVIRPEARGAQLFVSRTHPDMLVELFRLEVPEIAEETLEIKAAARDPGSRAKIAVKT 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  +DPVGACVGMRGSRVQAV +EL  E++DIV+W  + A FVINA+ PA V  +V+DE
Sbjct: 244 NDKRLDPVGACVGMRGSRVQAVSSELSGERVDIVLWDDNPAQFVINAMAPAEVASIVVDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT-QFF 362
           D   ++V V  + L+ AIGR GQNVRLA+QLTGW ++++T  ED  N+  + N +    F
Sbjct: 304 DNHTMDVAVESDNLAQAIGRSGQNVRLAAQLTGWELNVMT-VEDLNNKHDEENSKVLAVF 362

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           +  +++DE  A +LV EGF+ +EE+A V I+E+  I+G DE+   +++ RAR  L    +
Sbjct: 363 VNGLDIDEEFAAVLVDEGFSTLEEIAYVPINELLEIDGLDEDIVDDLRSRARAALTTQAL 422

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVD---DLLGWSENKGG 479
             ++ +      EEL S+ G++  +   L   GI  +E LA   VD   D+    E K G
Sbjct: 423 ANEETLEASEPKEELLSLAGMERHVAYTLASRGITDLEALAEQGVDEISDIEELDEEKAG 482

Query: 480 NI 481
            +
Sbjct: 483 QL 484


>gi|260771815|ref|ZP_05880733.1| transcription termination protein NusA [Vibrio metschnikovii CIP
           69.14]
 gi|260613107|gb|EEX38308.1| transcription termination protein NusA [Vibrio metschnikovii CIP
           69.14]
          Length = 495

 Score =  375 bits (963), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 195/478 (40%), Positives = 309/478 (64%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  + +  +    ++RV I+ +TG+   FR   
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALETALATSTKKKHEMEIEVRVAIDRKTGEFETFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE+ T +IS   A   D ++ +G  + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVENVEHPTKEISFDAANYDDETVQLGDYIEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  GE+++G VK+V   +VIVDLGN ++ VI R++ + REN R GDRV+  +
Sbjct: 124 AQIVEQFIDNEGELVTGVVKKVNRDSVIVDLGNNAEAVILREDQLPRENFRSGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           + V  E RG Q+ ++R+ P+ + +LF +EVPEI   ++++K  +RDPGSRAK+AV S+D 
Sbjct: 184 FKVAPEARGFQLFITRSKPEMLAELFRVEVPEIGEEMIELKGAARDPGSRAKIAVKSNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDEDAH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +     Q++     + FM+ +
Sbjct: 304 SMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADLQKKHQEESTASIEKFMKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++++  A +LV EGF+ +EE+A V +SE+  I+G +EE   EI+ RA+E L  I +T ++
Sbjct: 364 DIEQDFAEMLVEEGFSTLEEIAYVPVSELLEIDGLNEEIIEEIRARAKEALTTIALTQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL---LGWSENKGGNI 481
               L  +++L  + G++  +   L   G+ T+EDLA   +DDL    G +E + G +
Sbjct: 424 SFEGLEPADDLLGLAGLERDMAFKLAAKGVATLEDLADQGIDDLEGIEGLTEERAGEL 481


>gi|145589410|ref|YP_001156007.1| transcription elongation factor NusA [Polynucleobacter necessarius
           subsp. asymbioticus QLW-P1DMWA-1]
 gi|145047816|gb|ABP34443.1| NusA antitermination factor [Polynucleobacter necessarius subsp.
           asymbioticus QLW-P1DMWA-1]
          Length = 493

 Score =  375 bits (963), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 196/468 (41%), Positives = 317/468 (67%), Gaps = 6/468 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS-DIRVEINPETGDISLFRLL 66
           E+L +ADA+A EK++D+ +V   +  ++  A +  Y T   DIRV I+ E+G+   FR  
Sbjct: 4   EVLMLADALAREKNVDQAIVFEALEMALASATKKRYATEDVDIRVSIDRESGEYETFRRW 63

Query: 67  EVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
            VV +   ++    +I    A+++   I++G  + + +  + FGR+  Q+AKQVI+Q++R
Sbjct: 64  LVVPDEAGLQEPDKEILQFEAKEQLSDIEVGDYIEEQIESLAFGRIGAQAAKQVILQRIR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           +AER++   ++ ++  ++++GTVKR +   +I++ G  + ++RRD+ I +ENLR GDRV+
Sbjct: 124 DAEREQILNDYLERGEKVMTGTVKRADKNGLIIESGRVEALLRRDQMIPKENLRSGDRVR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           +YI  V RE RGPQ+ LSRT P F++KLF  EVPE+  G++++K  +RDPG RAK+AV +
Sbjct: 184 AYILKVDREARGPQIELSRTCPDFLIKLFENEVPEMEQGLLEIKGAARDPGIRAKIAVIT 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D  IDP+G CVG+RG+RV AV  E+  E +DIV+WS D A FVI AL PA V+ +V+DE
Sbjct: 244 YDKRIDPIGTCVGVRGTRVTAVRNEVAGEAVDIVLWSEDPAQFVIGALAPAQVSSIVVDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           +   ++V+V +E L++AIGR GQNVRLAS LTGW I+I+T EE +   +K+ +   Q FM
Sbjct: 304 ERHAMDVVVDEENLAIAIGRSGQNVRLASDLTGWQINIMTPEESAEKTEKEASSVRQLFM 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
             ++VD+ +A +L+ EGF  +EE+A V +SE+  I+ FDE+T  E++ RAR+ L  +++ 
Sbjct: 364 DKLDVDQEVADILIEEGFNTLEEVAYVPLSEMLEIDSFDEDTVNELRTRARDSLLTMELA 423

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
            +++I E  VS++L S+ G+ +++   L +N + T +DLA  +VD+L+
Sbjct: 424 KEERIGE--VSQDLRSLDGMTTELIAKLADNQVHTRDDLAELAVDELV 469


>gi|149909281|ref|ZP_01897937.1| N utilization substance protein A [Moritella sp. PE36]
 gi|149807598|gb|EDM67546.1| N utilization substance protein A [Moritella sp. PE36]
          Length = 499

 Score =  375 bits (963), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 196/468 (41%), Positives = 302/468 (64%), Gaps = 5/468 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DAV+ EK++ R+ +   M  ++  A +  Y    ++RVEI+ +TG+   FR   
Sbjct: 4   EILLVVDAVSNEKALPREKIFEAMEIALATATKKRYEGDIEVRVEIDRKTGNFETFRRWL 63

Query: 68  VV----EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           V+    E +EN   +I+L  A+  D +I++GG + D +  + F RV  Q+AKQVIIQKVR
Sbjct: 64  VIDDKGEPLENPFSEITLDAAKYDDETIEVGGYIEDTIDSVVFDRVTTQTAKQVIIQKVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAERD     +    GE+I+G VKR     V++DLGN ++ V+ RDE + RE+ R GDR+
Sbjct: 124 EAERDLIVQHYAKHEGELITGLVKRANRETVVLDLGNNAEAVMFRDEMLPRESFRTGDRI 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           K  + +V+ E RG Q+ +SR   + +++LF +EVPE    ++++KA +RDPGSRAK+AV 
Sbjct: 184 KGLLKEVKPEARGTQLFISRACNEMLIELFRIEVPEFNEEMLELKAAARDPGSRAKIAVK 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D  IDPVGACVGMRG+RVQAV  EL  E++DI++W  + A FVINA+ PA V  +++D
Sbjct: 244 SNDKRIDPVGACVGMRGARVQAVSNELNGERVDIILWDDNPAQFVINAMAPAEVASIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V +E L+ AIGR GQNVRLASQLTGW ++++T  E +   QK+ +     F
Sbjct: 304 EDQHSMDIAVEQENLAQAIGRNGQNVRLASQLTGWELNVMTVAEANEKHQKENDRLMNIF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
              +++DE +A LL+ EGF+ +EE+A V ++E   I+GFDE+   E++GRA+  L    +
Sbjct: 364 TDKLDIDEDMAELLIEEGFSSLEEIAYVPVNEFLQIDGFDEDLVDELRGRAKNALTTSAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
             ++ +     S +L ++ G++  +   L   G+ T+E+LA  S+DDL
Sbjct: 424 AAEESLESAEPSADLLALEGLEKHLAYVLASIGVITLEELAEQSIDDL 471


>gi|221067737|ref|ZP_03543842.1| NusA antitermination factor [Comamonas testosteroni KF-1]
 gi|220712760|gb|EED68128.1| NusA antitermination factor [Comamonas testosteroni KF-1]
          Length = 495

 Score =  375 bits (963), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 201/469 (42%), Positives = 310/469 (66%), Gaps = 6/469 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           NR ELL + +A++ EK+++RDVV   +  ++ +A + LY    DIRV I+ E+GD   FR
Sbjct: 2   NR-ELLMLVEAISREKNVERDVVFGAVESALAQATKKLYQGEVDIRVSIDRESGDYDTFR 60

Query: 65  LLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
              VV +   ++N   +  L  A DR P I IG  + + +  +  GR+   +AKQVI+QK
Sbjct: 61  RWVVVSDDAGLQNPDAEEMLMDAEDRVPGIQIGEFIEEQIESLPIGRIGAMAAKQVILQK 120

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+    EF  +  +I +GTVKR++ G++IV+ G  +G ++R E I +ENLR GDR
Sbjct: 121 IRDAEREMLLNEFLARGDKIFTGTVKRMDKGDIIVESGRVEGRLKRGEMIPKENLRNGDR 180

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I +V    RG  +LLSR+ P+FMV+LF  EVPEI  G++++K+ +RD GSRAK+AV
Sbjct: 181 VRAMIMEVDATLRGAPILLSRSAPEFMVELFRNEVPEIEQGLLEIKSCARDAGSRAKIAV 240

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  +DP+G CVG+RG+RV AV  EL  E++DIV+WS D A FVI AL PA V+ +V+
Sbjct: 241 LSHDKRVDPIGTCVGVRGTRVNAVTNELAGERVDIVLWSEDPAQFVIGALAPANVSSIVV 300

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+   ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+   E +  +  +     + 
Sbjct: 301 DEEKHAMDVVVDEENLAIAIGRGGQNVRLASELTGWKINIMDAAESAQKQADESAVSRKL 360

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+ ++VDE IA++L+ EGF  +EE+A V + E+  IE FDEET  E++ RA++ L   +
Sbjct: 361 FMEKLDVDEEIANILIEEGFETLEEVAYVPLQEMLEIESFDEETVNELRSRAKDALLSQE 420

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           I  ++ + +   SE+L S+ G+ +++   L +  + T +DLA  ++D+L
Sbjct: 421 IAREENVSK--ASEDLVSLDGMTAELLDKLAQADVHTRDDLADLAIDEL 467


>gi|153207276|ref|ZP_01946040.1| transcription termination factor NusA [Coxiella burnetii 'MSU Goat
           Q177']
 gi|154706434|ref|YP_001423972.1| transcription elongation factor NusA [Coxiella burnetii Dugway
           5J108-111]
 gi|165918786|ref|ZP_02218872.1| transcription termination factor NusA [Coxiella burnetii RSA 334]
 gi|212212197|ref|YP_002303133.1| transcription elongation factor NusA [Coxiella burnetii CbuG_Q212]
 gi|212218228|ref|YP_002305015.1| transcription elongation factor NusA [Coxiella burnetii CbuK_Q154]
 gi|120576764|gb|EAX33388.1| transcription termination factor NusA [Coxiella burnetii 'MSU Goat
           Q177']
 gi|154355720|gb|ABS77182.1| N utilization substance protein A [Coxiella burnetii Dugway
           5J108-111]
 gi|165917510|gb|EDR36114.1| transcription termination factor NusA [Coxiella burnetii RSA 334]
 gi|212010607|gb|ACJ17988.1| N utilization substance protein A [Coxiella burnetii CbuG_Q212]
 gi|212012490|gb|ACJ19870.1| N utilization substance protein A [Coxiella burnetii CbuK_Q154]
          Length = 503

 Score =  375 bits (962), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 203/470 (43%), Positives = 317/470 (67%), Gaps = 8/470 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS-DIRVEINPETGDISLFRLL 66
           ++L I D+++ E+ + ++V+   +  ++       Y      IRV I+ +TGD   FR  
Sbjct: 4   DILLIVDSMSNERGVSKEVIFEAIEAALAAVTAKRYEEDDVKIRVAIDQKTGDYESFRCW 63

Query: 67  EVVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            VVE+    +E    +++LK AR+ D  +++G V+ +P+  + FGR+A Q AKQVI+QKV
Sbjct: 64  TVVEDTNESLEFPNQEMTLKQAREIDSDLEVGDVIEEPVESVKFGRIAAQQAKQVIVQKV 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER +   +++ +VGE++ G VKRV   ++I+D+G N++ ++ R+E I RE  R  DR
Sbjct: 124 REAERAKIIRQYEKRVGELVIGVVKRVTRESIILDMGENAEALLLREEMIPREAFRINDR 183

Query: 182 VKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           +++Y+Y V + ++RGPQ+L+SRT P+F+V+LF +EVPEI   ++++K  +RDPGSRAK+A
Sbjct: 184 LRAYLYSVCQDKKRGPQLLVSRTRPEFLVELFKIEVPEIGEEVIEIKGAARDPGSRAKIA 243

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V ++D  IDP+GACVGMRGSRVQAV  EL  E+IDIV+W  + A  VINA+ PA V  +V
Sbjct: 244 VKTNDGRIDPIGACVGMRGSRVQAVSNELGGERIDIVLWDDNPAQLVINAMAPAEVASIV 303

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V K+QLS AIGR GQNVRLAS+LTGWT+++++E E +   +K+  +   
Sbjct: 304 VDEDSHTMDIAVNKDQLSQAIGRSGQNVRLASELTGWTLNVMSEAEMAQKHEKEAGKIKT 363

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+ ++VDE +A  LV  GF ++EE+A V   E+  +EGFDE+ + E+Q RA + L   
Sbjct: 364 AFMEKLDVDEEVADALVQAGFMNLEEVAYVPKEELQGVEGFDEDISAELQRRAGDVLLTQ 423

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           +I  Q ++ E   +E+L ++PG+ +++   L EN + T +DLA  SV DL
Sbjct: 424 EIAKQ-ELDEKKPAEDLLTLPGMTTELARQLVENEVLTRDDLAEKSVLDL 472


>gi|326316665|ref|YP_004234337.1| NusA antitermination factor [Acidovorax avenae subsp. avenae ATCC
           19860]
 gi|323373501|gb|ADX45770.1| NusA antitermination factor [Acidovorax avenae subsp. avenae ATCC
           19860]
          Length = 494

 Score =  375 bits (962), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 196/466 (42%), Positives = 312/466 (66%), Gaps = 5/466 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL + +A++ EK+++RDVV   +  ++ +A + LY    DIRV I+ ++G+   FR   
Sbjct: 4   ELLMLVEAISREKNVERDVVFGAVELALAQATKKLYPGEVDIRVAIDRDSGNYETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++N   +  L  A++R   I++G  + + +  +  GR+   +AKQVI+QK+R+
Sbjct: 64  VVPDDAGLQNPDAEELLMDAQERIADIEVGEYIEEGIESVPIGRIGAMAAKQVILQKIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER+    +F  +  +I +GTVKR++ G++IV+ G  +G +RR E I +ENLR GDRV++
Sbjct: 124 AEREMLLNDFMSRGEKIFTGTVKRMDKGDIIVESGRVEGRLRRSEMIPKENLRNGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            I +V    RG  ++LSR+ P+FM++LF  EVPEI  G++++K+ +RDPGSRAK+AV S 
Sbjct: 184 MIMEVDLTLRGAPIILSRSAPEFMIELFRNEVPEIEQGLLEIKSCARDPGSRAKIAVLSH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  +DP+G CVG+RG+RV AV  EL  E++DIV+WS D A FVI AL PA V+ +V+DE+
Sbjct: 244 DKRVDPIGTCVGVRGTRVNAVTNELAGERVDIVLWSEDPAQFVIGALAPANVSSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLAS LTGW I+I+   E +  +  + +   + FM+
Sbjct: 304 KHAMDVVVDEENLAIAIGRGGQNVRLASDLTGWKINIMDAAESAQKQANETDASRRLFME 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE IA++L+ EGFA +EE+A V + E+  IE FDE+T  E++ RA++ L  ++I  
Sbjct: 364 KLDVDEEIANILIEEGFASLEEVAYVPLQEMLEIESFDEDTVNELRARAKDALLTMEIAR 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           ++ +   GVS+ L  + G+ S++   L E G+ T +DLA  ++D+L
Sbjct: 424 EESVE--GVSQNLRDLDGMTSELIGKLAEGGVHTRDDLADLAIDEL 467


>gi|264677930|ref|YP_003277837.1| NusA antitermination factor [Comamonas testosteroni CNB-2]
 gi|299530199|ref|ZP_07043625.1| NusA antitermination factor [Comamonas testosteroni S44]
 gi|262208443|gb|ACY32541.1| NusA antitermination factor [Comamonas testosteroni CNB-2]
 gi|298721856|gb|EFI62787.1| NusA antitermination factor [Comamonas testosteroni S44]
          Length = 495

 Score =  375 bits (962), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 201/469 (42%), Positives = 310/469 (66%), Gaps = 6/469 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           NR ELL + +A++ EK+++RDVV   +  ++ +A + LY    DIRV I+ E+GD   FR
Sbjct: 2   NR-ELLMLVEAISREKNVERDVVFGAVESALAQATKKLYQGEVDIRVSIDRESGDYDTFR 60

Query: 65  LLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
              VV +   ++N   +  L  A DR P I IG  + + +  +  GR+   +AKQVI+QK
Sbjct: 61  RWVVVSDDAGLQNPDAEEMLMDAEDRVPGIQIGEFIEEQIESLPIGRIGAMAAKQVILQK 120

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+    EF  +  +I +GTVKR++ G++IV+ G  +G ++R E I +ENLR GDR
Sbjct: 121 IRDAEREMLLNEFLARGEKIFTGTVKRMDKGDIIVESGRVEGRLKRGEMIPKENLRNGDR 180

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I +V    RG  +LLSR+ P+FMV+LF  EVPEI  G++++K+ +RD GSRAK+AV
Sbjct: 181 VRAMIMEVDATLRGAPILLSRSAPEFMVELFRNEVPEIEQGLLEIKSCARDAGSRAKIAV 240

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  +DP+G CVG+RG+RV AV  EL  E++DIV+WS D A FVI AL PA V+ +V+
Sbjct: 241 LSHDKRVDPIGTCVGVRGTRVNAVTNELAGERVDIVLWSEDPAQFVIGALAPANVSSIVV 300

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+   ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+   E +  +  +     + 
Sbjct: 301 DEEKHAMDVVVDEENLAIAIGRGGQNVRLASELTGWKINIMDAAESAQKQADESAVSRKL 360

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+ ++VDE IA++L+ EGF  +EE+A V + E+  IE FDEET  E++ RA++ L   +
Sbjct: 361 FMEKLDVDEEIANILIEEGFETLEEVAYVPLQEMLEIESFDEETVNELRSRAKDALLSQE 420

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           I  ++ + +   SE+L S+ G+ +++   L +  + T +DLA  ++D+L
Sbjct: 421 IAREENVSK--ASEDLVSLDGMTAELLDKLAQADVHTRDDLADLAIDEL 467


>gi|160871616|ref|ZP_02061748.1| NusA antitermination factor [Rickettsiella grylli]
 gi|159120415|gb|EDP45753.1| NusA antitermination factor [Rickettsiella grylli]
          Length = 512

 Score =  375 bits (962), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 204/482 (42%), Positives = 302/482 (62%), Gaps = 18/482 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+ V+ EK +D++++   +  ++  A +   G   D+R+ I+  TGD   FR   
Sbjct: 4   EILLVAETVSNEKDVDKELIFKAIEAALAMATKKKAGEDIDVRIAIDRRTGDYETFRTWT 63

Query: 68  VVEEVENYTC------------QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAK 115
           VV +   +               I L  A+ R P+  IG ++ + +P ++FGR+A Q+AK
Sbjct: 64  VVADEAEFNHSDEIPVSFDPLKHIQLSEAKKRHPNSQIGDIIEERMPSVEFGRIAAQTAK 123

Query: 116 QVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS-DGVIRRDETISRE 174
           QVIIQKVREAER +    + ++VGE++SG VKRV    +IVDLG S +  + R+E I RE
Sbjct: 124 QVIIQKVREAERAKIAEAYTNRVGELLSGIVKRVTREGLIVDLGASVEAFVPREEMIPRE 183

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
            +R  DR++ Y+Y V  + RGPQ+L+SRT P+ +++LF +EVPEI   ++++K+ +RDPG
Sbjct: 184 EIRSEDRLRGYLYAVNPQVRGPQLLMSRTRPEMLIELFKIEVPEIGEELIEIKSAARDPG 243

Query: 235 SRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA 294
           SRAK+AV ++D  IDP+GACVGMRG+RVQAV +EL  E+IDIV+W  +    VINA+ PA
Sbjct: 244 SRAKIAVKTNDGRIDPIGACVGMRGARVQAVSSELAGERIDIVLWDDNPVQLVINAMAPA 303

Query: 295 IVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
            V  +V+DED   ++V V ++QLS AIGR GQNVRLAS+LTGW I++IT EE +    K+
Sbjct: 304 EVASIVVDEDTKVMDVAVQEDQLSQAIGRNGQNVRLASELTGWIINVITVEEAAKKIVKE 363

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
                  F++ + +DE +A +LV EGF  +EE+A V   E+ +IEGFD      +Q RA+
Sbjct: 364 SENLQNLFIEQLTIDEALAEMLVREGFTSLEEIAYVSAQELLAIEGFDSILVEMLQTRAK 423

Query: 415 EYLEGIDITLQKKI-----RELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDD 469
           E L     T QK       + L    +L S+ G+  +I   L + G+ + E LA  +VDD
Sbjct: 424 EVLALQAPTKQKSSTTEHEKFLEPHRDLLSLEGMTEEIATTLAKRGVSSREALAELAVDD 483

Query: 470 LL 471
           LL
Sbjct: 484 LL 485


>gi|121604913|ref|YP_982242.1| NusA antitermination factor [Polaromonas naphthalenivorans CJ2]
 gi|120593882|gb|ABM37321.1| NusA antitermination factor [Polaromonas naphthalenivorans CJ2]
          Length = 506

 Score =  375 bits (962), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 197/469 (42%), Positives = 308/469 (65%), Gaps = 6/469 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           NR ELL + DA++ EK+++RDVV   +  ++  A + +Y    DIRV ++ ++G+   FR
Sbjct: 2   NR-ELLMLVDAISREKNVERDVVFGAVELALASATKKVYADGVDIRVAVDRDSGNYETFR 60

Query: 65  LLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
              VV +   ++N   +  +  ARD  P I+ G  +  P+  +  GR+  Q+AKQVI+QK
Sbjct: 61  RWLVVADEAGLQNPEAEELVTDARDEIPDIEEGDYIEKPVESLPIGRIGAQAAKQVILQK 120

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+    +F  +  +I  GTVKR++ G++IV+ G  +G +RR + I +ENLR GDR
Sbjct: 121 IRDAEREMLLNDFMSRGDKIFVGTVKRMDKGDLIVESGRVEGRLRRSDMIPKENLRTGDR 180

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I +V    RG  ++LSRT P++M++LF  EVPEI  G++++K  +RDPGSRAK+AV
Sbjct: 181 VRAMIMEVDTTLRGAPIILSRTSPEYMIELFRQEVPEIEQGLLEIKTCARDPGSRAKIAV 240

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  +DP+G CVG+RG+RV  V  EL  E++DIV+WS D A FVI AL PA V+ +V+
Sbjct: 241 LSHDKRVDPIGTCVGVRGTRVNGVTNELAGERVDIVLWSEDPAQFVIGALAPANVSSIVV 300

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+   ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+   E +  +  + +   + 
Sbjct: 301 DEERHAMDVVVDEENLAIAIGRGGQNVRLASELTGWKINIMDANESAQKQATETDSSRKL 360

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM  ++VD+ IA +L+AEGF  +EE+A V + E+  IE FDE+T  E++ RA++ L  ++
Sbjct: 361 FMAKLDVDQEIADILIAEGFTSLEEVAYVPLQEMLEIESFDEDTVNELRTRAKDALLTME 420

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           I  ++ +   GVS+ L  + G+  ++   L E G+ T +DLA  +VD+L
Sbjct: 421 IAQEENVG--GVSQNLRDVEGLTPELIAKLTEAGVATRDDLADLAVDEL 467


>gi|219870469|ref|YP_002474844.1| transcription elongation factor NusA [Haemophilus parasuis SH0165]
 gi|219690673|gb|ACL31896.1| transcription elongation factor NusA [Haemophilus parasuis SH0165]
          Length = 510

 Score =  374 bits (961), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 196/482 (40%), Positives = 312/482 (64%), Gaps = 19/482 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVL----SVMADSIQKAA-------RSLYGTMSDIRVEINPE 56
           E+L  A+AV+ EK + +D +     + +A S +K A       ++  G   D+RV I+ +
Sbjct: 4   EILLAAEAVSNEKLLPKDAIFEALETALAISTKKKAAAEREDRKTGNGIDIDVRVVIDRK 63

Query: 57  TGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQ 116
           TG  + +R   VVE+V ++T +I+L+ A+  DP+I +G  V D +  + F R+ +Q+A+Q
Sbjct: 64  TGAFTTYRRWLVVEKVHHHTREITLEAAQFEDPNIQLGDYVEDEIESIAFDRITMQTARQ 123

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-------NSDGVIRRDE 169
           VI  K+REAER++   +F+ + G+I+ GTVK+V   ++I++L         ++ VI R++
Sbjct: 124 VITMKIREAERNKVIEQFRSEEGKIVIGTVKKVSRESIILELAGKKDDTTKAEAVIVRED 183

Query: 170 TISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAV 229
            + REN RPGDRV+  +Y ++ E +GPQ+ ++R  P  + +LF +EVPEI   ++++K  
Sbjct: 184 MLPRENFRPGDRVRGVLYAIKPESKGPQLFVTRAKPVMLQELFKLEVPEIGEEVIEIKGA 243

Query: 230 SRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVIN 289
           SRDPGSRAK+AV S+D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A F+IN
Sbjct: 244 SRDPGSRAKIAVKSNDKRIDPVGACVGMRGARVQAITNELGGERVDIVLWDDNPAQFLIN 303

Query: 290 ALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           A+ PA V+ +V+DED   +++ V    L+ AIGR GQNVRLA+QLTGWT++++T +E   
Sbjct: 304 AMAPADVSSIVVDEDNHSMDIAVEANALAQAIGRNGQNVRLATQLTGWTLNVMTTDELEK 363

Query: 350 NRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV-E 408
             Q + N+    FM A+ +DE  AHLL+ EGF  +EE+A V + E+ +I+G ++E  V E
Sbjct: 364 KHQAEDNKVINLFMDALEIDEEFAHLLIEEGFTSLEEIAYVPVKELTAIDGLEDEDLVEE 423

Query: 409 IQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVD 468
           +Q RA+  +    +  ++ +++  + ++L ++ G+D  I   L E  I T+EDLA   VD
Sbjct: 424 LQVRAKNAITAKALAEEEALKQAHIEDKLLNLEGMDRHIAFKLAEKQITTLEDLAEQGVD 483

Query: 469 DL 470
           DL
Sbjct: 484 DL 485


>gi|301156201|emb|CBW15672.1| transcription termination/antitermination L factor [Haemophilus
           parainfluenzae T3T1]
          Length = 495

 Score =  374 bits (961), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 192/465 (41%), Positives = 311/465 (66%), Gaps = 2/465 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + R+ +   +  +I  + +  Y   +DIRV INP+TG+   FR   
Sbjct: 4   EILLAAEAVSNEKLLPREKIFEALESAIALSTKKKYDYETDIRVSINPKTGEFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV+  T +++L+ A+  DP++ +G  V D +  + F R+A+Q+A+QVI  K+REAER
Sbjct: 64  VVDEVKVPTKEMTLEAAQFEDPNVQLGDYVEDQIESIAFDRIAMQTARQVISTKIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F+ + G+I++GTVK+V   ++I+DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AKVVEQFRSEEGKIVTGTVKKVNRESIILDLGNKAEAVIMREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E +  Q+ ++R  P+ +++LF +EVPEI   +++++  +RDPGSRAK+AV S+D 
Sbjct: 184 YKVNPESKTAQLFVTRAKPEMLIELFRIEVPEIGEEMLEIRGAARDPGSRAKIAVKSNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A +VINA+ PA VT +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAITNELGGERVDIVLWDDNPAQYVINAMAPADVTSIIVDEDNH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T E+ +   Q +  +    FM  +
Sbjct: 304 SMDIAVNADNLAQAIGRNGQNVRLATQLTGWTLNVMTTEQLNEKHQAEDTKVLNLFMDKL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV-EIQGRAREYLEGIDITLQ 425
            +DE  A +LV EGF  +EE+A V +SE+ +I+G ++E  + E+QGRA++ +       +
Sbjct: 364 GLDEDFAQILVDEGFTSLEEVAYVPVSELTAIDGLEDEDLIEELQGRAKDAITAAAAAEE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           + +++  + + L ++ G++  I   L E  I T+E+LA   VDDL
Sbjct: 424 EALKKANIEDRLLNLEGMNRHIAFKLAEKQITTLEELAEQGVDDL 468


>gi|227112574|ref|ZP_03826230.1| transcription elongation factor NusA [Pectobacterium carotovorum
           subsp. brasiliensis PBR1692]
          Length = 509

 Score =  374 bits (961), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 200/477 (41%), Positives = 304/477 (63%), Gaps = 14/477 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALETALATATKKKYEQEIDVRVSIDRKTGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV EV   T +I+L+ A+  DP++D+GG V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVNEVTQPTREITLEAAQFEDPALDVGGYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-------VIRRDETISRENLRPGD 180
                +F+++ GEII+G VK+V   N+ +++   DG       VI R++ + REN RPGD
Sbjct: 124 AMVVDQFREQEGEIITGVVKKVNRDNISLEVRPIDGSNTSAEAVIGREDMLPRENFRPGD 183

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R++  +Y VR E RG Q+ +SR+ P+ +V+LF +EVPEI   ++++KA +RDPGSRAK+A
Sbjct: 184 RIRGVLYSVRPEARGAQLFVSRSRPEMLVELFRIEVPEIGEEVIEIKAAARDPGSRAKIA 243

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V ++D  IDPVGACVGMRG+RVQAV +EL  E+IDI++W  + A FVINA+ PA V  +V
Sbjct: 244 VKTNDKRIDPVGACVGMRGARVQAVSSELGGERIDIILWDDNPAQFVINAMAPADVVSIV 303

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTG-------WTIDIITEEEDSINRQK 353
           +DED   +++ V    L+ AIGR GQNVRLASQL         W ++++T E+     Q 
Sbjct: 304 VDEDTCTMDIAVESSNLAQAIGRNGQNVRLASQLLKQHRSDDRWELNVMTVEDLQAKHQA 363

Query: 354 DFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           + +     F + +++D+  A +LV EGF+ +EELA V I E+ +IEG DEET   ++ RA
Sbjct: 364 EAHAAIDVFTKHLDIDDEFATVLVEEGFSSLEELAYVPIKELLAIEGLDEETVEALRERA 423

Query: 414 REYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           +  L  + +  ++   +   +E+L  +PG+  ++   L   G+ T+EDLA   VDDL
Sbjct: 424 KAALTTLALAHEESRGDGQPAEDLLGLPGLSRELAFKLAAIGVCTLEDLAEQGVDDL 480


>gi|90412484|ref|ZP_01220487.1| transcription elongation factor NusA [Photobacterium profundum
           3TCK]
 gi|90326521|gb|EAS42927.1| transcription elongation factor NusA [Photobacterium profundum
           3TCK]
          Length = 495

 Score =  374 bits (961), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 191/469 (40%), Positives = 305/469 (65%), Gaps = 1/469 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  +    D+RV I+ +TG    FR   
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALEIALATATKKKHEAEIDVRVAIDRKTGQFETFRRWI 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            V+EV   T +++++ A+  D +I++GG V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  AVDEVTQPTLEMTIEAAQYDDETIELGGFVEDEIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
           ++   +F D  GE+I+G VK+V    V++DLGN ++ VI+RD+ + REN R GDR++  +
Sbjct: 124 EQIVEQFMDNEGELITGIVKKVNRDAVVIDLGNNAEAVIQRDDQLPRENFRSGDRIRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+  + +++LF +EVPEI   ++++   +RDPGSRAK+AV ++D 
Sbjct: 184 YAVRPEARGFQLFMTRSKAEMLLELFRIEVPEIGEELIELMGAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  ++A +VINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELAGERIDIVLWDENAAQYVINAMAPAEVASIIVDEDNH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V K+ L+ AIGR GQN+RLASQLTGW ++++T E+     Q++       F + +
Sbjct: 304 TMDIAVEKDNLAQAIGRSGQNIRLASQLTGWELNVMTVEDLQKKHQEEAQVSIDTFTKHL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A LLV EGF  +EE+A V +SE+  +EG DE+   E++ RA+  L  + +  ++
Sbjct: 364 DIDEDFATLLVQEGFTTLEEIAYVPVSELMDVEGLDEDAINELRDRAKAALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSE 475
               +  + +L  + G++ ++   L   GI T+EDLA    DDLL   E
Sbjct: 424 SFEGVEPAADLLGLDGLERELAFKLAAKGICTLEDLADQGTDDLLDLEE 472


>gi|227357076|ref|ZP_03841446.1| transcription elongation protein (N utilization substance protein
           A) [Proteus mirabilis ATCC 29906]
 gi|227162768|gb|EEI47731.1| transcription elongation protein (N utilization substance protein
           A) [Proteus mirabilis ATCC 29906]
          Length = 502

 Score =  374 bits (961), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 206/485 (42%), Positives = 316/485 (65%), Gaps = 11/485 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIDVRVCIDRKTGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV   T +I+L+ A+  +P I++GG + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVEEVTQPTREITLEAAKYEEPEIELGGFIEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F++++GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AMVVDQFREQLGEIITGVVKKVNRDNITLDLGNNAEAVILREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           YDVR E RG Q+ ++R+ P+ +++LF +EVPEI   I+++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YDVRTETRGAQLFVTRSRPEMLIELFRIEVPEIGEEIIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKC 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLT-------GWTIDIITEEEDSINRQKDFNERT 359
            ++V V    L+ AIGR GQNVRLA+QL         W ++++T +E +   Q + N   
Sbjct: 304 TMDVAVESSNLAQAIGRNGQNVRLAAQLLKKHRGDDKWELNVMTADELNAKHQAEANAAI 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + F + +++DE  A +LV EGF+ +EEL  V I E+ +I+G DEET   ++ RA+  L  
Sbjct: 364 EIFTKHLDIDEDFATVLVEEGFSTLEELVYVPIDELLAIDGLDEETVEALRERAKAALTT 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSEN 476
           I++  ++ + +   +E+L ++ G++  +   L   GI T+EDLA   +DDL    G +  
Sbjct: 424 IELAQKESLGDNQPAEDLLALEGMERSLAFDLAARGICTLEDLAEQGIDDLTDIDGLNSE 483

Query: 477 KGGNI 481
           + G +
Sbjct: 484 RAGEL 488


>gi|299067340|emb|CBJ38537.1| transcription termination/antitermination L factor [Ralstonia
           solanacearum CMR15]
          Length = 491

 Score =  374 bits (960), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 198/502 (39%), Positives = 329/502 (65%), Gaps = 22/502 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV   +  ++  A +  +    ++RV I+ E+G+   FR   
Sbjct: 4   EVLLLVDALAREKNVDKDVVFGALEAALASATKKRFEEDVEVRVAIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    QI L  AR+++PS+++   + + +  ++FGR+  Q+AKQVI+Q++R+
Sbjct: 64  VVPDDAGLQEPDKQILLFEAREQNPSVNLDEFIEEQIESVEFGRIGAQAAKQVILQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ D+  +I++GT+KR +   +IV+ G  + ++ RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLDRGEKIMTGTIKRADKKGLIVESGRVEALLARDQMIPKENLRTGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +V R  RGPQ+ LSRT P+F++KLF  EVPE+  G++++KA +RDPG RAK+AV + 
Sbjct: 184 YILNVDRTARGPQIELSRTCPEFLIKLFENEVPEMEQGLLEIKAAARDPGVRAKIAVVAH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RG+RV AV  E+  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGVRGTRVTAVRNEVGGEAVDIVLWSEDPAQFVIGALAPAQVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLAS+LT W I+I+T  E +  + ++ +   + FM+
Sbjct: 304 KHSMDVVVDEENLAVAIGRSGQNVRLASELTNWQINIMTPAESAQKQAEESSTVRKLFME 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RAR+ L  +++  
Sbjct: 364 KLDVDEEVADILIEEGFTSLEEVAYVPLQEMLEIEAFDEDTVNELRNRARDVLLTMELAK 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+ +  VS++L  + G+  ++   L E  I+T +DLA  +VD+L+  +          
Sbjct: 424 EEKVEK--VSQDLRDLEGLTPELIGKLAEGNIQTRDDLAELAVDELVDMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHAR 506
                  G  ++Q +++I+ AR
Sbjct: 472 -------GVDEEQAKALIMKAR 486


>gi|33152524|ref|NP_873877.1| transcription elongation factor NusA [Haemophilus ducreyi 35000HP]
 gi|33148747|gb|AAP96266.1| transcription termination-antitermination factor nusA, N
           utilization substance protein A [Haemophilus ducreyi
           35000HP]
          Length = 493

 Score =  374 bits (960), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 189/465 (40%), Positives = 306/465 (65%), Gaps = 2/465 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + ++ +   +  ++  + +   G   DIRV IN +TG+   FR   
Sbjct: 4   EILLAAEAVSNEKLLPKEAIFEALETALAISTKKKKGIDIDIRVVINRKTGEFQTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VE+V N T +ISL  A+  DP++ +G  V D +  + F R+ +Q+A+QVI  K+REAER
Sbjct: 64  IVEQVHNMTREISLAAAQYEDPNVQLGDFVEDEIESIPFDRITMQTARQVISTKIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
           ++   +F+ ++  I++ TVK+V    +I+DLGN ++ VI R++ + REN RPGDR++  +
Sbjct: 124 NKVIEQFRTQLNCIVTATVKKVNREQIILDLGNQAEAVIIREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y ++ E +GPQ+ ++R  P  +  LF +EVPEI   ++++K  SRD GSR+K+AV S+D 
Sbjct: 184 YAIKPESKGPQLFVTRAKPVMLEVLFKLEVPEIGEEVIEIKGASRDAGSRSKIAVKSNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAISNELGGERVDIVLWDDNPAQFVINAMSPAEVSHIVVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLA+QLTGW+++++T E+ +   Q + N+    F+ ++
Sbjct: 304 AMDIAVETKNLAQAIGRNGQNVRLATQLTGWSLNVMTTEDLNEKHQAEDNKIIDLFVTSL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEET-AVEIQGRAREYLEGIDITLQ 425
            +DE  AHLLV EGF+ +EE+A + ++E+  I+G D+E  A E+Q RA+  +    +  +
Sbjct: 364 QIDEEFAHLLVDEGFSSLEEIAFIAVNELVDIDGIDDENLAEELQTRAKAAITEKALAEE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           + ++   + + L ++ G++  I   L E GI T+E+LA   +DDL
Sbjct: 424 EALKRADIEDRLLNLDGLERHIAFKLAEKGIVTLEELAEQGIDDL 468


>gi|187928209|ref|YP_001898696.1| transcription elongation factor NusA [Ralstonia pickettii 12J]
 gi|187725099|gb|ACD26264.1| NusA antitermination factor [Ralstonia pickettii 12J]
          Length = 491

 Score =  374 bits (960), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 202/502 (40%), Positives = 326/502 (64%), Gaps = 22/502 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV   +  ++  A +  +    D+RV I+ E+G+   FR   
Sbjct: 4   EVLLLVDALAREKNVDKDVVFGALEAALASATKKRFEEDVDVRVAIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    QI L  A+++D  I++   V + +  ++FGR+  Q+AKQVI+Q++R+
Sbjct: 64  VVPDDAGLQEPDKQILLFEAKEQDADIEVDDFVEEQIESVEFGRIGAQAAKQVILQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ D+  ++++GT+KR +   +IV+ G  + ++ RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLDRGEKVMTGTIKRADKKGLIVETGRVEALLARDQMIPKENLRTGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +V R  RGPQ+ LSRT P+F++KLF  EVPE+  G++++KA +RDPG RAK+AV + 
Sbjct: 184 YILNVDRTARGPQIELSRTCPEFLIKLFENEVPEMEQGLLEIKAAARDPGVRAKIAVVAH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RG+RV AV  E+  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGVRGTRVTAVRNEVGGEAVDIVLWSEDPAQFVIGALAPAQVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+T  E +  + ++ +   Q FM 
Sbjct: 304 KHSMDVVVDEENLAVAIGRSGQNVRLASELTGWQINIMTPAESAQKQAEESSVVRQLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF+ +EE+A V + E+  IE FDE+T  E++ RAR+ L  + + L
Sbjct: 364 KLDVDEEVADILIEEGFSSLEEVAYVPLQEMLEIEAFDEDTVNELRNRARDVL--LTMEL 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
            K+ R   VS++L  + G+  ++   L E  I+T +DLA  +VD+L+  +          
Sbjct: 422 AKEERVEKVSQDLRDLEGLTPELIGKLAEGNIQTRDDLAELAVDELVEMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHAR 506
                  G  ++Q +++I+ AR
Sbjct: 472 -------GVDEEQAKALIMKAR 486


>gi|117619535|ref|YP_857795.1| transcription elongation factor NusA [Aeromonas hydrophila subsp.
           hydrophila ATCC 7966]
 gi|117560942|gb|ABK37890.1| transcription elongation protein NusA [Aeromonas hydrophila subsp.
           hydrophila ATCC 7966]
          Length = 500

 Score =  374 bits (960), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 199/481 (41%), Positives = 306/481 (63%), Gaps = 7/481 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DAV+ EK++ R+ +   +  ++  A +  Y    ++RVEI+ +TGD   +R   
Sbjct: 4   EILLVVDAVSNEKAVPREKIFQALETALATATKKKYEGEIEVRVEIDRKTGDYDTYRRWV 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           V+ +   +EN   +I+L+ A+   P I IG  V D +  + F R+  Q+AKQVI+QKVRE
Sbjct: 64  VIADQAAMENPYAEITLEAAQIEQPEIQIGEYVEDQIDSVTFDRITTQTAKQVIVQKVRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVK 183
           AER +   +FKDK G IISG VK+    NVI+DLG N++ VI RD+ + RE  RPGDR++
Sbjct: 124 AERSQVVDQFKDKEGTIISGVVKKSNRDNVILDLGSNAEAVIFRDDMLPRETFRPGDRIR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
             +Y VR E RG Q+ +SR+ P F+ +LF +EVPEI   ++++   +RDPGSRAK+AV +
Sbjct: 184 GLLYAVRPEARGSQLFVSRSSPDFLKELFRIEVPEIGEEMIEIMGAARDPGSRAKIAVKT 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  IDP+GAC+GMRG+RVQAV  EL  E+ DIV++  + A +VINA+ PA V  +++DE
Sbjct: 244 NDRRIDPIGACIGMRGARVQAVSAELSGERADIVLYDDNPAQYVINAMAPADVASIIVDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   +++ V    L+ AIGR GQNVRLASQLTGW ++++T E+     Q + +     F 
Sbjct: 304 DNHTMDIAVEAANLAQAIGRNGQNVRLASQLTGWELNVMTVEDMRAKHQAENDRILTLFT 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
             +++D+  A LL+ EGF+ +EE+A V ++E+ +I+G DE+   E++ RA++ L    + 
Sbjct: 364 STLDIDDDFASLLMEEGFSTLEEIAFVPVNELLAIDGLDEDMVEELRKRAKDALTTKALA 423

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGN 480
            ++    +  SEEL ++ G+  ++  AL   GI T+EDLA   +DDL    G +  K G 
Sbjct: 424 KEESFEGVEPSEELLNLNGLGREMAYALAARGIGTLEDLAEQGIDDLADIEGLTAEKAGE 483

Query: 481 I 481
           +
Sbjct: 484 L 484


>gi|120612038|ref|YP_971716.1| NusA antitermination factor [Acidovorax citrulli AAC00-1]
 gi|120590502|gb|ABM33942.1| NusA antitermination factor [Acidovorax citrulli AAC00-1]
          Length = 494

 Score =  374 bits (960), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 195/466 (41%), Positives = 312/466 (66%), Gaps = 5/466 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL + +A++ EK+++RDVV   +  ++ +A + LY    DIRV I+ ++G+   FR   
Sbjct: 4   ELLMLVEAISREKNVERDVVFGAVELALAQATKKLYPGEVDIRVAIDRDSGNYETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++N   +  L  A++R   I++G  + + +  +  GR+   +AKQVI+QK+R+
Sbjct: 64  VVPDDAGLQNPDAEELLMDAQERIADIEVGEYIEEGIESLPIGRIGAMAAKQVILQKIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER+    +F  +  +I +GTVKR++ G++IV+ G  +G +RR E I +ENLR GDRV++
Sbjct: 124 AEREMLLNDFMSRGEKIFTGTVKRMDKGDIIVESGRVEGRLRRSEMIPKENLRNGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            I +V    RG  ++LSR+ P+FM++LF  EVPEI  G++++K+ +RDPGSRAK+AV S 
Sbjct: 184 MIMEVDLTLRGAPIILSRSAPEFMIELFRNEVPEIEQGLLEIKSCARDPGSRAKIAVLSH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  +DP+G CVG+RG+RV AV  EL  E++DIV+WS D A FVI AL PA V+ +V+DE+
Sbjct: 244 DKRVDPIGTCVGVRGTRVNAVTNELAGERVDIVLWSEDPAQFVIGALAPANVSSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLAS LTGW I+I+   E +  +  + +   + FM+
Sbjct: 304 KHAMDVVVDEENLAIAIGRGGQNVRLASDLTGWKINIMDAAESAQKQANETDASRRLFME 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE IA++L+ EGF+ +EE+A V + E+  IE FDE+T  E++ RA++ L  ++I  
Sbjct: 364 KLDVDEEIANILIEEGFSSLEEVAYVPLQEMLEIESFDEDTVNELRARAKDALLTMEIAR 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           ++ +   GVS+ L  + G+ S++   L E G+ T +DLA  ++D+L
Sbjct: 424 EESVE--GVSQNLRDLDGMTSELIGKLAEGGVHTRDDLADLAIDEL 467


>gi|54307814|ref|YP_128834.1| transcription elongation factor NusA [Photobacterium profundum SS9]
 gi|46912237|emb|CAG19032.1| putative transcription pausing L factor [Photobacterium profundum
           SS9]
          Length = 495

 Score =  374 bits (960), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 195/473 (41%), Positives = 308/473 (65%), Gaps = 9/473 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  +    D+RV I+ +TG ++ FR   
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALEIALATATKKKHEAEIDVRVAIDRKTGQVATFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            V+EV   T +++++ A+  D +I++GG V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  AVDEVTQPTLEMTIEAAQYDDETIELGGFVEDEIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
           ++   +F D  GE+I+G VK+V    VI+DLGN ++ VI+RD+ + REN R GDR++  +
Sbjct: 124 EQIVEQFMDNEGELITGIVKKVNRDAVIIDLGNNAEAVIQRDDQLPRENFRSGDRIRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ ++R+  + +++LF +EVPEI   ++++   +RDPGSRAK+AV ++D 
Sbjct: 184 YAVRPEARGFQLFMTRSKAEMLLELFRIEVPEIGEELIELMGAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  ++A +VINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELAGERIDIVLWDENAAQYVINAMAPAEVASIIVDEDSH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF----F 362
            +++ V K+ L+ AIGR GQN+RLASQLTGW ++++T E    + QK   E  Q     F
Sbjct: 304 TMDIAVEKDNLAQAIGRSGQNIRLASQLTGWELNVMTVE----DLQKKHKEEAQVSIDTF 359

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
            + +++DE  A LLV EGF  +EE+A V +SE+  +EG DE+   E++  A+E L  + +
Sbjct: 360 TKYLDIDEDFATLLVQEGFTTLEEIAYVPVSELMDVEGLDEDAINELRKCAKEALTTLAL 419

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSE 475
             ++    +  + +L  + G++ ++   L   GI T+EDLA    DDLL   E
Sbjct: 420 AQEESFEGVEPAADLLGLDGLERELAFRLAAKGICTLEDLADQGTDDLLDLEE 472


>gi|226329684|ref|ZP_03805202.1| hypothetical protein PROPEN_03594 [Proteus penneri ATCC 35198]
 gi|225202870|gb|EEG85224.1| hypothetical protein PROPEN_03594 [Proteus penneri ATCC 35198]
          Length = 502

 Score =  374 bits (960), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 206/485 (42%), Positives = 317/485 (65%), Gaps = 11/485 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIDVRVCIDRKTGDFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            V+EV   T +I+L+ A+  DPSI++GG + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  AVDEVTQPTREITLEAAQYEDPSIELGGYIEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F++++GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDQFREQLGEIITGVVKKVNRENITLDLGNNAEAVILREDMLPRENFRPGDRLRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           YDVR E RG Q+ ++R+ P+ +V+LF +EVPEI   I+++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YDVRTETRGAQLFVTRSRPEMLVELFRIEVPEIGEEIIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKC 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLT-------GWTIDIITEEEDSINRQKDFNERT 359
            ++V V    L+ AIGR GQNVRLA+QL         W ++++T +E +   Q + N   
Sbjct: 304 TMDVAVESSNLAQAIGRNGQNVRLAAQLLKKHRGDDKWELNVMTADELNAKHQAEANAAI 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + F + +++DE  A +LV EGF+ +EEL  V ISE+ +I+G DE+T   ++ RA+  L  
Sbjct: 364 EIFTKHLDIDEDFATVLVEEGFSTLEELVYVPISELLAIDGLDEDTVEALRERAKAALTT 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSEN 476
           I++  ++ + +   +E+L ++ G++  +   L   GI T+EDLA   +DDL    G +  
Sbjct: 424 IELAQKESLGDNQPAEDLLALEGLERSLAFDLAARGICTLEDLAEQGIDDLTDIEGLNSE 483

Query: 477 KGGNI 481
           + G +
Sbjct: 484 RAGEL 488


>gi|319793511|ref|YP_004155151.1| nusa antitermination factor [Variovorax paradoxus EPS]
 gi|315595974|gb|ADU37040.1| NusA antitermination factor [Variovorax paradoxus EPS]
          Length = 497

 Score =  374 bits (959), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 198/470 (42%), Positives = 311/470 (66%), Gaps = 5/470 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           NR E+L + DA++ EK+++RDVV   +  ++ +A + L+    DIRV ++ ++GD   FR
Sbjct: 2   NR-EMLMLVDAISREKNVERDVVFGAVESALAQATKKLHQGDVDIRVAVDRDSGDYETFR 60

Query: 65  LLEVVEEVENYTC---QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
              VV +         +I L  A++    I++G  + + +  +  GR+   +AKQVI+QK
Sbjct: 61  RWHVVPDEAGLQLPDQEILLFEAKEEMSDIEVGEYIEEAVDSVPIGRIGAMAAKQVILQK 120

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+    +F  +  +I  GTVKR++ G++IV+ G  +G +RR E I++ENLR GDR
Sbjct: 121 IRDAEREMLLNDFMSRGDKIFVGTVKRLDKGDIIVEAGRVEGRLRRSEMIAKENLRNGDR 180

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I +V    RG  ++LSR+ P+FM++LF  EVPEI  G++++K+ +RDPGSRAK+AV
Sbjct: 181 VRAMIMEVDLTLRGAPIILSRSAPEFMIELFRQEVPEIEQGLLEIKSCARDPGSRAKIAV 240

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  +DP+G CVG+RG+RV AV  EL  E++DIV+WS D A FVI AL PA V+ +V+
Sbjct: 241 LSHDKRVDPIGTCVGVRGTRVNAVTNELAGERVDIVLWSEDPAQFVIGALAPANVSSIVV 300

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+   ++V+V +E L++AIGR GQNVRLAS LTGW I+I+   E +  +  + +   + 
Sbjct: 301 DEEKHAMDVVVDEENLAIAIGRGGQNVRLASDLTGWKINIMDANESAQKQATETDASRKL 360

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+ ++VDE IA +L+AEGF  +EE+A V ISE+  IE FDE+T  E++ RA++ L  ++
Sbjct: 361 FMEKLDVDEEIADILIAEGFNSLEEVAYVPISEMLEIEAFDEDTINELRSRAKDALLTME 420

Query: 422 ITLQKKIR-ELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           I  ++ +  +  VS+ L  + G+D ++   L E G+ T +DLA  +VD+L
Sbjct: 421 IAKEEGVETQSSVSQNLRDLEGLDPELIPKLAEAGVNTRDDLADLAVDEL 470


>gi|254482493|ref|ZP_05095732.1| NusA N-terminal domain family [marine gamma proteobacterium
           HTCC2148]
 gi|214037184|gb|EEB77852.1| NusA N-terminal domain family [marine gamma proteobacterium
           HTCC2148]
          Length = 497

 Score =  374 bits (959), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 201/480 (41%), Positives = 316/480 (65%), Gaps = 6/480 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK +   ++   +  ++  A +  Y   SDI V I+  TGD    R   
Sbjct: 4   EILLVAEAVSNEKGVAESIIFEAIELALATATKKRYDEESDIEVTIDRSTGDYVTKRRWL 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV  +E+     Q + + A ++D S+  G +  + +  + FGR+A Q+AKQVI+Q+VR+A
Sbjct: 64  VVPDDELALLGTQFTTEEAAEQDTSLQPGDIYEEVIDNVGFGRIAAQTAKQVIVQRVRDA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER++   ++  +VGE+++GTVK+V   NVIVDLGN ++G++ R E + RE  R  DRV++
Sbjct: 124 EREQVVEQYMGRVGELVAGTVKKVTRDNVIVDLGNNAEGLLPRSELVGRETFRVNDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + ++  E RGPQ++LSR  P+ +++LF +EVPEI   ++Q++A +RDPGSRAK+AV ++
Sbjct: 184 ILKEISTEARGPQLILSRACPEMLIELFKIEVPEISEEVIQIRAAARDPGSRAKIAVKTN 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRGSRVQAV  EL +E++DIV+W  + A  VINA+ PA V  +V+DED
Sbjct: 244 DQRIDPVGACVGMRGSRVQAVSNELDNERVDIVLWDDNPAQLVINAMAPAEVESIVVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
            G ++V V +E L+ AIGR GQNVRLA++LT WTI++++ EE +   + +  E    F +
Sbjct: 304 SGTMDVAVSEENLAQAIGRSGQNVRLAAELTEWTINVMSLEEAADKHEAEAGEVIGVFCK 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
           A++VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+ A E++ RA++ L    I  
Sbjct: 364 ALDVDEDVAEILVEEGFTTLEEVAYVPLEEMTAIDGFDEDIAEELRARAKDALLTQAIAS 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
           ++++     +E+L ++ G+D  +   L    I TMEDLA  +V+DL+     +E + G +
Sbjct: 424 EEQLGANEPAEDLLTMEGMDRHLAYILSSREIVTMEDLAEQAVEDLMDIEDMTEERAGEL 483


>gi|170727895|ref|YP_001761921.1| transcription elongation factor NusA [Shewanella woodyi ATCC 51908]
 gi|169813242|gb|ACA87826.1| NusA antitermination factor [Shewanella woodyi ATCC 51908]
          Length = 499

 Score =  374 bits (959), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 198/482 (41%), Positives = 309/482 (64%), Gaps = 8/482 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK + R+ +   +  ++  A +  Y    ++RV+I+ +TG    FR   
Sbjct: 4   EILLVAEAVSNEKGVPREKIFEALEIALATATKKKYEGDIEVRVQIDRKTGGYETFRRWM 63

Query: 68  VVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           VVE+    +EN   +I+L+ A+  DP I +G  + D +  + F R+  Q+AKQVI+QKVR
Sbjct: 64  VVEDTGEPLENPFSEITLEAAQFEDPEIQLGDYIEDDIESVVFDRITTQTAKQVIVQKVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +   +F+DK GE+I+G VK+    +V+VDLGN +D V+ +++ ISRE+ RPGDRV
Sbjct: 124 EAERAQVVDQFRDKEGELITGVVKKSNRESVVVDLGNNADAVLFKEDLISRESFRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ +Y VR E RG Q+ L+RT P  +++LF +EVPEI + ++++   +RDPGSRAK+AV 
Sbjct: 184 RALLYAVRPEARGAQLFLTRTKPDMLIELFRVEVPEIQDEMIEIMGAARDPGSRAKIAVK 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 244 SNDKRIDPIGACVGMRGARVQAVSNELNGERVDIVLWDDNPAQFVINAMSPADVASIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLA+QL+GW ++++T  +     Q +  +    F
Sbjct: 304 EDNHSMDIAVEADSLAQAIGRNGQNVRLATQLSGWELNVMTVADMQAKHQAESAKIVNLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           + A+ VDE  A +L  EGF  +EE+A V  SE+  I+GFDEE    ++ RA+  +    +
Sbjct: 364 VSALEVDEDFAQVLADEGFTSLEEVAYVPESELMEIDGFDEEIVEALRERAKAAISTRAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG---WSENKGG 479
             ++ +     SE+L ++ G++  +   L   G+ T+EDLA   +DDL+     +E K G
Sbjct: 424 ASEEALDGAEPSEDLLALEGLERHLAFVLASKGVITLEDLAEQGIDDLIDIEELTEEKAG 483

Query: 480 NI 481
            +
Sbjct: 484 EL 485


>gi|330504828|ref|YP_004381697.1| transcription elongation factor NusA [Pseudomonas mendocina NK-01]
 gi|328919114|gb|AEB59945.1| transcription elongation factor NusA [Pseudomonas mendocina NK-01]
          Length = 493

 Score =  374 bits (959), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 198/462 (42%), Positives = 305/462 (66%), Gaps = 3/462 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + ++V+ EK +   V+   +  ++  A +  +    D+RV IN + G    FR   
Sbjct: 4   EVLLVVESVSNEKGVPAGVIFEALELALATATKKRFEDEVDLRVSINRQNGSYETFRRWT 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV+E   E+   Q++  + +  +    IG V+ + +  ++FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVDESEFEDPAYQLTEDMPQAVEAKAKIGDVLEEKVESIEFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ I RE  R G R+++
Sbjct: 124 ERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIIPRETFRVGVRLRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G++ VKA SRDPGSRAK+AV S 
Sbjct: 184 LLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIDVKAASRDPGSRAKIAVRSK 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++DED
Sbjct: 244 DKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V ++ L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  Q F+ 
Sbjct: 304 AHAMDIAVGEDNLAQAIGRGGQNVRLASQLTGWTLNVMTEADIQAKQQAETGDIMQSFID 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + VDE +A +LV EGF  +EE+A V + E+ SI+GFDE+   E++ RA++ L    I  
Sbjct: 364 ELEVDEELAQVLVEEGFTSLEEIAYVPMEEMLSIDGFDEDIVNELRARAKDRLLTKAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
           ++K+ +   +++L  + G+D  + + L   G+ T EDLA  S
Sbjct: 424 EEKLADAHPADDLLELEGMDKALALELALRGVITREDLAEQS 465


>gi|91788290|ref|YP_549242.1| NusA antitermination factor [Polaromonas sp. JS666]
 gi|91697515|gb|ABE44344.1| NusA antitermination factor [Polaromonas sp. JS666]
          Length = 506

 Score =  373 bits (958), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 196/469 (41%), Positives = 311/469 (66%), Gaps = 6/469 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           NR ELL + DA++ EK+++RDVV   +  ++  A + +Y    DIRV ++ ++G+   FR
Sbjct: 2   NR-ELLMLVDAISREKNVERDVVFGAVELALASATKKVYEDGVDIRVVVDRDSGNYETFR 60

Query: 65  LLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
              VV +   ++N   +  +  AR+  P I+ G  +  P+  +  GR+  Q+AKQVI+QK
Sbjct: 61  RWLVVPDEAGLQNPEAEELVSDAREEIPDIEEGDYIEKPVESLPIGRIGAQAAKQVILQK 120

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+    +F  +  +I  GTVKR++ G++IV+ G  +G +RR + I +ENLR GDR
Sbjct: 121 IRDAEREMLLNDFMSRGDKIFVGTVKRMDKGDIIVESGRVEGRLRRSDMIPKENLRAGDR 180

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I +V    RG  ++LSRT P++M++LF  EVPEI  G++++K+ +RDPGSRAK+AV
Sbjct: 181 VRAMIMEVDTTLRGAPIILSRTAPEYMIELFRQEVPEIEQGLLEIKSCARDPGSRAKIAV 240

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  +DP+G CVG+RG+RV  V  EL  E++DIV+WS D A FVI AL PA V+ +V+
Sbjct: 241 LSHDKRVDPIGTCVGVRGTRVNGVTNELAGERVDIVLWSEDPAQFVIGALAPANVSSIVV 300

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+   ++V+V +E L+++IGR GQNVRLA++LTGW I+I+T +E +  +  + +   + 
Sbjct: 301 DEERHAMDVVVDEENLAISIGRGGQNVRLAAELTGWKINIMTADESAQKQATETDTSRKL 360

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+ ++VDE IA +L++EGF  +EE+A V + E+  IE FDE+T  E++ RA++ L  ++
Sbjct: 361 FMEKLDVDEEIADILISEGFTSLEEVAYVPLQEMLEIESFDEDTVNELRTRAKDALLTME 420

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           I  ++     GVS+ L  + GI  ++   L E G+ T +DLA  +VD+L
Sbjct: 421 IAKEENAE--GVSQNLRDVEGITPELIAKLTEAGVHTRDDLADLAVDEL 467


>gi|330447378|ref|ZP_08311027.1| transcription termination/antitermination L factor [Photobacterium
           leiognathi subsp. mandapamensis svers.1.1.]
 gi|328491569|dbj|GAA05524.1| transcription termination/antitermination L factor [Photobacterium
           leiognathi subsp. mandapamensis svers.1.1.]
          Length = 495

 Score =  373 bits (958), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 196/478 (41%), Positives = 307/478 (64%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  +    D+RV I+ +TG+   FR  +
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALEIALATATKKKHEAEIDVRVTIDRKTGEFETFRRWK 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VEEV   T +I+L+ A+  +P +  G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  AVEEVTQPTLEITLEAAQFENPELVEGDYVEDEIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  GE+I+G VK+V    VI+DLGN ++ VI+RD+ + REN RPGDRV+  +
Sbjct: 124 AQIVEQFIDNEGELITGIVKKVNRDAVIIDLGNNAEAVIQRDDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E RG Q+ ++R+ P+ + +LF +EVPE+   ++++   +RDPGSRAK+AV ++D 
Sbjct: 184 YKVAPEARGFQLFMTRSKPEMLSELFRIEVPEMGEELIELMGAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A +VINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELGGERIDIVLWDENPAQYVINAMAPAEVDSIIVDEDNH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V K+ L+ AIGR GQNVRLASQLTGW ++++T E+     Q++  E  + F + +
Sbjct: 304 TMDIAVQKDNLAQAIGRSGQNVRLASQLTGWELNVMTVEDLQKKHQEEAKESIEVFTKHL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF  +EE+A V +SE+  +EG DE+   +++ RA+  L  + +  ++
Sbjct: 364 DIDEEFATVLVEEGFTTLEEIAYVPVSELMEVEGLDEDLIEQLRSRAKAALTTLALAKEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            +     +E+L  + G++ ++   L   GI T+EDLA    DDL    G  + K G +
Sbjct: 424 SLDGAEPAEDLLGLEGLERELAFKLAAKGICTLEDLADQGTDDLTDIEGVDDAKAGEL 481


>gi|163752374|ref|ZP_02159569.1| transcription elongation factor NusA [Shewanella benthica KT99]
 gi|161327746|gb|EDP98933.1| transcription elongation factor NusA [Shewanella benthica KT99]
          Length = 499

 Score =  373 bits (958), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 194/482 (40%), Positives = 310/482 (64%), Gaps = 8/482 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK + R+ +   +  ++  A +  +    ++RVEI+ +TG    FR  +
Sbjct: 4   EILLVAEAVSNEKGVPREKIFEALEIALATATKKKHVGEIEVRVEIDRKTGAYETFRRWQ 63

Query: 68  VVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           VVE+    +EN   +I+L+ A+  DP + +G  V D +  + F R+  Q+AKQVI+QKVR
Sbjct: 64  VVEDTGEPLENPYGEITLEAAQYEDPELQVGDYVEDDMESVTFDRITTQTAKQVIVQKVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER +    FKD+ GE+I+G VK+    +V+VDLG N+D V+ +++ ISREN RPGDR+
Sbjct: 124 EAERAQVVELFKDREGELITGIVKKSNRESVVVDLGGNADAVLFKEDLISRENFRPGDRI 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ ++ VR E RG Q+ ++RT  + +++LF +EVPEI + ++++   +RDPGSRAK+AV 
Sbjct: 184 RALLFSVRPEARGAQLFMTRTKSEMLIELFRIEVPEIADEMIEIMGAARDPGSRAKIAVK 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A FVINA+ PA V  +V+D
Sbjct: 244 SNDRRIDPIGACVGMRGARVQAVSNELNGERVDIVLWDDNPAQFVINAMAPAEVASIVVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLA+QL+GW ++++T E+     Q +  +    F
Sbjct: 304 EDSHSMDIAVEADSLAQAIGRNGQNVRLAAQLSGWELNVMTVEDLQKKHQAESAKVVSLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           + ++ VDE  A +L  EGF  +EE+A V  +E+  I+GFDE+T   ++ RA+  +    +
Sbjct: 364 VASLEVDEDFAQVLADEGFTSLEEVAYVPAAELMEIDGFDEDTVEALRERAKAAISTRAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG---WSENKGG 479
             ++ +     SE+L ++ G+D  +       G+ T+E+LA   +DDL+     +E K G
Sbjct: 424 ATEEALDGAAPSEDLLALEGLDKHLAFVFASKGVITLENLAEQGIDDLIDIEELTEEKAG 483

Query: 480 NI 481
            +
Sbjct: 484 EL 485


>gi|17546007|ref|NP_519409.1| transcription elongation factor NusA [Ralstonia solanacearum
           GMI1000]
 gi|17428302|emb|CAD14990.1| probable n utilization substance transcription regulator protein
           [Ralstonia solanacearum GMI1000]
          Length = 491

 Score =  373 bits (958), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 198/502 (39%), Positives = 329/502 (65%), Gaps = 22/502 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV   +  ++  A +  +    ++RV I+ E+G+   FR   
Sbjct: 4   EVLLLVDALAREKNVDKDVVFGALEAALASATKKRFEEDVEVRVAIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    QI L  AR+++PSI++   + + +  ++FGR+  Q+AKQVI+Q++R+
Sbjct: 64  VVPDDAGLQEPDKQILLFEAREQNPSINLDEFIEEQIESVEFGRIGAQAAKQVILQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GT+KR +   +IV+ G  + ++ RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTIKRADKKGLIVESGRVEALLARDQMIPKENLRTGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +V R  RGPQ+ LSRT P+F++KLF  EVPE+  G++++KA +RDPG RAK+AV + 
Sbjct: 184 YILNVDRTARGPQIELSRTCPEFLIKLFENEVPEMEQGLLEIKAAARDPGVRAKIAVVAH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RG+RV AV  E+  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGVRGTRVTAVRNEVGGEAVDIVLWSEDPAQFVIGALAPAQVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLAS+LT W I+I+T  E +  + ++ +   + FM+
Sbjct: 304 KHSMDVVVDEENLAVAIGRSGQNVRLASELTSWQINIMTPAESAQKQAEESSTVRKLFME 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RAR+ L  +++  
Sbjct: 364 KLDVDEEVADILIEEGFTSLEEVAYVPLQEMLEIEAFDEDTVNELRNRARDVLLTMELAK 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+ +  VS++L  + G+  ++   L E  I+T +DLA  +VD+L+  +          
Sbjct: 424 EEKVEK--VSQDLRDLEGLTPELIGKLAEGNIQTRDDLAELAVDELVDMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHAR 506
                  G  ++Q +++I+ AR
Sbjct: 472 -------GVDEEQAKALIMKAR 486


>gi|121609702|ref|YP_997509.1| NusA antitermination factor [Verminephrobacter eiseniae EF01-2]
 gi|121554342|gb|ABM58491.1| NusA antitermination factor [Verminephrobacter eiseniae EF01-2]
          Length = 494

 Score =  373 bits (957), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 198/478 (41%), Positives = 315/478 (65%), Gaps = 8/478 (1%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           LELL + DA++ EK+++RDVVL  +  ++ +A + LY    DIRV ++ ++G    FR  
Sbjct: 3   LELLMLIDAISREKNVERDVVLDAVESALAQATKKLYQGEVDIRVAVDRKSGGHETFRRW 62

Query: 67  EVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
            VV +   ++N   +  L  A++R   I++G  + + +  +  GR+   +AKQVI+QK+R
Sbjct: 63  LVVPDEAGLQNPDAEELLMDAKERIADIEVGEYIEETVDSVPIGRIGAMAAKQVILQKIR 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           +AER+    +F  +  +I +GTVKR++ G++IV+ G  +G +RR E I +ENLR GDRV+
Sbjct: 123 DAEREMLLNDFMSRGEKIFTGTVKRMDKGDIIVESGRVEGRLRRSELIPKENLRSGDRVR 182

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           + I +V    RG  ++LSR+ P+FM++LF  EVPEI   ++++K+ +RDPGSRAK+AV S
Sbjct: 183 AMIMEVDLSLRGAPIILSRSAPEFMIELFRQEVPEIEQSLLEIKSCARDPGSRAKIAVLS 242

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D  +DP+G CVG+RG+RV AV  EL  E++DIV+WS D A FVI AL PA V+ +V+DE
Sbjct: 243 HDKRVDPIGTCVGVRGTRVNAVTNELAGERVDIVLWSEDPAQFVIGALAPANVSSIVVDE 302

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           +   ++V+V +E L++AIGR GQNVRLA+ LTGW I+I+   E +  + K+ +   + FM
Sbjct: 303 EKHAMDVVVDEENLAIAIGRGGQNVRLAADLTGWKINIMDAAESAQKQAKESDTARRLFM 362

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
           + ++VDE IA +L+AEGF  +EE+A V + E+  I+ FDE+T  E++ RA++ L  ++I 
Sbjct: 363 EKLDVDEEIADILIAEGFNSLEEVAYVPLQEMLEIDSFDEDTVNELRARAKDALLTMEIA 422

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVD---DLLGWSENKG 478
            ++ + E  VS++L  + G+   +   L + G+ T +DLA  ++D   DL G SE + 
Sbjct: 423 REESVEE--VSQDLRDLGGLSPALIAQLAKGGVHTRDDLADLAIDELTDLTGQSEEEA 478


>gi|33592374|ref|NP_880018.1| transcription elongation factor NusA [Bordetella pertussis Tohama
           I]
 gi|33602223|ref|NP_889783.1| transcription elongation factor NusA [Bordetella bronchiseptica
           RB50]
 gi|33572019|emb|CAE41542.1| N utilization substance protein A [Bordetella pertussis Tohama I]
 gi|33576661|emb|CAE33739.1| N utilization substance protein A [Bordetella bronchiseptica RB50]
 gi|332381790|gb|AEE66637.1| transcription elongation factor NusA [Bordetella pertussis CS]
          Length = 492

 Score =  373 bits (957), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 207/469 (44%), Positives = 304/469 (64%), Gaps = 12/469 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++ R+VV   +  ++  A +  +   +DIRV I+ ETG    FR   
Sbjct: 4   EILLLVDALAREKNVTREVVFGALESALASAMKKRFKDDADIRVSIDRETGGHEGFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    Q  L  AR+  P I++G  + + L P++FGR+  Q+AKQ I+QK+R+
Sbjct: 64  VVPDEAGLQEPDKQELLSEAREMAPDIEVGEYIEEALEPVEFGRIGAQAAKQAILQKIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F D+   IISG++KR++ G+VI++ G  +  + R E I +ENLR GDRV++
Sbjct: 124 AEREQVLNDFLDRGETIISGSIKRMDKGDVIIETGKIEARLPRSEMIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           ++  V    RG QV+LSRT P+F+ +LF  EVPEI  G++++KA +RDPG RAK+AV + 
Sbjct: 184 FVLRVDHAARGQQVILSRTSPEFIRQLFENEVPEIEQGLLEIKAAARDPGVRAKIAVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVGMRGSRV AV  EL  E++DIV+WS D A FVI AL PA V  +V+DED
Sbjct: 244 DKRIDPIGTCVGMRGSRVTAVRNELGGEQVDIVLWSEDPAQFVIGALAPANVESIVVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF--- 361
              ++V+V +E L  AIG +GQNVRLAS+LTGW I+I+T EE S+NRQ+   ER      
Sbjct: 304 KHAMDVVVDEENLPKAIGAKGQNVRLASELTGWQINIMTPEE-SLNRQE--TERAALRAT 360

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM  ++VDE +A +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RAR  L    
Sbjct: 361 FMSKLDVDEEVADILIDEGFTGIEEIAYVPMQELLEIEAFDEDTINELRARARNALLTEA 420

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           I  +++   L  +++L  + GI  ++   L E  + T +DLA  S D+L
Sbjct: 421 IAQEER---LETAQDLLELEGITPELAAKLAERQVHTRDDLAELSTDEL 466


>gi|320540176|ref|ZP_08039831.1| putative transcription termination/antitermination L factor
           [Serratia symbiotica str. Tucson]
 gi|320029842|gb|EFW11866.1| putative transcription termination/antitermination L factor
           [Serratia symbiotica str. Tucson]
          Length = 502

 Score =  373 bits (957), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 198/485 (40%), Positives = 307/485 (63%), Gaps = 11/485 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIDVRVSIDRKTGDFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV   T +I+L+ A+  +P  ++GG + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVDEVTQPTREITLEAAQYEEPDTELGGYIEDQIDSVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
                 F++  GEI++G VK+V   ++ +DLG N++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDAFREHEGEIVTGVVKKVNRDSIALDLGSNAEAVIGREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ +SR+ P+ + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YAVRPEARGAQLFVSRSSPEMLKELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDI++W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIILWDDNPAQFVINAMAPADVASIVVDEDNC 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTG-------WTIDIITEEEDSINRQKDFNERT 359
            +++ V    L+ AIGR GQNVRLASQL         W ++++T ++  +  Q + +   
Sbjct: 304 TMDIAVEASNLAQAIGRNGQNVRLASQLLKQHRDDDRWELNVMTADDLQVKHQAEAHAAI 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             F + +++DE  A +LV EGF+ +EELA V I E+  I+G DE+T   ++ RAR     
Sbjct: 364 DTFTKYLDIDEDFATVLVEEGFSTLEELAYVPIKELLEIDGLDEDTVEALRDRARAASTT 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSEN 476
           + +  ++ +     +E+L ++PG++  +   L   G+ T+EDLA   VDDL    G S  
Sbjct: 424 LALAQKESLGGQEPAEDLLNLPGLERSMAFKLAARGVGTLEDLAEQGVDDLADIEGLSNQ 483

Query: 477 KGGNI 481
           + G +
Sbjct: 484 QAGEL 488


>gi|294142061|ref|YP_003558039.1| N utilization substance protein A [Shewanella violacea DSS12]
 gi|293328530|dbj|BAJ03261.1| N utilization substance protein A [Shewanella violacea DSS12]
          Length = 499

 Score =  373 bits (957), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 192/482 (39%), Positives = 311/482 (64%), Gaps = 8/482 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK + R+ +   +  ++  A +  +    ++RVEI+ +TG    FR  +
Sbjct: 4   EILLVAEAVSNEKGVPREKIFEALEIALATATKKKHVGEIEVRVEIDRKTGAYETFRRWQ 63

Query: 68  VVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           VVE+    +EN   +I+L+ A+  +  + +G  V D +  + F R+  Q+AKQVI+QKVR
Sbjct: 64  VVEDTGEPLENPYGEITLEAAQYENAELQVGDFVEDDMESVTFDRITTQTAKQVIVQKVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER +   +F+D+ GE+I+G VK+    +V+VDLG N+D V+ +++ ISREN RPGDR+
Sbjct: 124 EAERAQVVEQFQDREGELITGIVKKSNRESVVVDLGGNADAVLFKEDLISRENFRPGDRI 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ ++ VR E RG Q+ ++RT P  +++LF +EVPEI + ++++   +RDPGSRAK+AV 
Sbjct: 184 RALLFSVRPEARGAQLFMTRTQPDMLIELFRVEVPEIADEMIEIMGAARDPGSRAKIAVK 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A FVINA+ PA V  +V+D
Sbjct: 244 SNDRRIDPIGACVGMRGARVQAVSNELNGERVDIVLWDDNPAQFVINAMAPADVASIVVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLA+QL+GW ++++T E+     Q +  +    F
Sbjct: 304 EDTHSMDIAVEADSLAQAIGRNGQNVRLATQLSGWVLNVMTVEDLQAKHQAESAKVVSLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           + +++VDE  A +L  EGF  +EE+A V  +E+  I+GFDE+T   ++ RA+  +    +
Sbjct: 364 VSSLDVDEDFAQILADEGFTSLEEVAYVPSAELMEIDGFDEDTVEALRERAKAAISTRAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG---WSENKGG 479
             ++ +     SE+L ++ G++  +       G+ T+EDLA   +DDL+     +E K G
Sbjct: 424 ATEEALDGAEPSEDLLALEGLEKHLAFVFASKGVITLEDLAEQGIDDLIDIEELTEEKAG 483

Query: 480 NI 481
            +
Sbjct: 484 EL 485


>gi|301170017|emb|CBW29621.1| transcription termination/antitermination L factor [Haemophilus
           influenzae 10810]
          Length = 495

 Score =  373 bits (957), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 187/465 (40%), Positives = 312/465 (67%), Gaps = 2/465 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + R+ +   +  +I  + +  +   +DIRV INP+TG+   FR   
Sbjct: 4   EILLAAEAVSNEKLLPREKIFEALESAIAISTKKKFEYETDIRVSINPKTGEFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV+  T +I+L+ A+  DP++ +G  V D +  + F R+A+Q+A+QVI  K+REAER
Sbjct: 64  VVDEVKVPTKEITLEAAQFDDPNLQLGEYVEDQIESIAFDRIAMQTARQVISTKIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F+++ G+I++GTVK+V   ++I+DLGN ++ +I R++ + REN RPGDRV+  +
Sbjct: 124 AKVVEQFREEEGKIVTGTVKKVSRDSIILDLGNKAEAMIAREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E +  Q+ ++R+ P+ +++LF +EVPEI   +++++  +RD GSRAK+AV S+D 
Sbjct: 184 YKVNPEGKTAQLFVTRSKPEMLIELFRIEVPEIGEEMIEIRGAARDAGSRAKIAVKSNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQ +  EL  E++DIV+W  + A FVINA+ PA V+ +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQVITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIIVDEDNH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T +E +   Q +  +    F+ A+
Sbjct: 304 SMDIAVEADNLAQAIGRNGQNVRLATQLTGWTLNVMTTDELNAKHQAEDKKVLNLFINAL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV-EIQGRAREYLEGIDITLQ 425
            +DE  A +LV EGF  +EE+A V ++E+ +I+G ++E  V E+Q RA+  +    +  +
Sbjct: 364 ELDEEFAQILVEEGFTSLEEIAYVPMNELTAIDGLEDEDLVEELQTRAKNAITAAAVAEE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           + +++  + + L ++ G++  + + L E  I T+E+LA   VDDL
Sbjct: 424 EALKKANIEDRLLNLEGMNRHVAIKLAEKQITTLEELAEQGVDDL 468


>gi|330830889|ref|YP_004393841.1| transcription elongation factor NusA [Aeromonas veronii B565]
 gi|328806025|gb|AEB51224.1| transcription elongation factor NusA [Aeromonas veronii B565]
          Length = 500

 Score =  373 bits (957), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 199/481 (41%), Positives = 306/481 (63%), Gaps = 7/481 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DAV+ EK++ R+ +   +  ++  A +  Y    ++RVEI+ +TGD   +R   
Sbjct: 4   EILLVVDAVSNEKAVPREKIFQALETALATATKKKYEGEIEVRVEIDRKTGDYDTYRRWV 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           V+ +   +EN   +I+L+ A+   P I IG  V D +  + F R+  Q+AKQVI+QKVRE
Sbjct: 64  VIADQAAMENPYAEITLEAAQIDQPEIQIGEYVEDQIDSVTFDRITTQTAKQVIVQKVRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVK 183
           AER +   +FKDK G IISG VK+    NVI+DLG N++ VI RD+ + RE  RPGDRV+
Sbjct: 124 AERSQVVDQFKDKEGTIISGVVKKSNRDNVILDLGSNAEAVIFRDDMLPRETFRPGDRVR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
             +Y VR E RG Q+ +SR+ P F+ +LF +EVPEI   ++++   +RDPGSRAK+AV +
Sbjct: 184 GLLYAVRPEARGSQLFVSRSSPDFLKELFRIEVPEIGEEMIEIMGAARDPGSRAKIAVKT 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  IDP+GAC+GMRG+RVQAV  EL  E+ DIV++  + A +VINA+ PA V  +++DE
Sbjct: 244 NDRRIDPIGACIGMRGARVQAVSAELSGERADIVLYDDNPAQYVINAMAPADVASIIVDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   +++ V    L+ AIGR GQNVRLASQLTGW ++++T E+     Q + +     F 
Sbjct: 304 DNHTMDIAVEAANLAQAIGRNGQNVRLASQLTGWELNVMTVEDMRAKHQAENDRIMNLFT 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
             +++D+  A LL+ EGF+ +EE+A V ++E+ +I+G DE+   E++ RA++ L    + 
Sbjct: 364 STLDIDDDFAGLLMEEGFSTLEEIAFVPVNELLAIDGLDEDMVEELRKRAKDALTTKALA 423

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGN 480
            ++    +  SEEL ++ G+  ++  AL   G+ T+EDLA   +DDL    G +  K G 
Sbjct: 424 KEESFDGVEPSEELLNLNGLSRELAYALAGRGVGTLEDLAEQGIDDLADIEGLTAEKAGE 483

Query: 481 I 481
           +
Sbjct: 484 L 484


>gi|157962879|ref|YP_001502913.1| transcription elongation factor NusA [Shewanella pealeana ATCC
           700345]
 gi|157847879|gb|ABV88378.1| NusA antitermination factor [Shewanella pealeana ATCC 700345]
          Length = 499

 Score =  372 bits (956), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 193/467 (41%), Positives = 304/467 (65%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK + R+ +   +  ++  A +  Y    ++RV I+ +TG    FR   
Sbjct: 4   EILLVAEAVSNEKGVPREKIFEALEIALATATKKKYEGDIEVRVAIDRKTGAYETFRRWM 63

Query: 68  VVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           VVE+    +EN   +I+L+ A+  DP I++GG + D +  + F R+  Q+AKQVI+QKVR
Sbjct: 64  VVEDAGVPLENPFREITLEAAKYDDPEIELGGYIEDEIESVAFDRITTQTAKQVIVQKVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER +   +F+D+ GE+I G VK+    +V+VDLG N+DGV+ +++ ISRE+ RPGDRV
Sbjct: 124 EAERAQIVDQFRDREGELIVGVVKKSNRESVVVDLGTNADGVLFKEDLISRESFRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ +Y VR E RG Q+ L+RT P  +++LF +EVPEI + ++++   +RDPGSRAK+AV 
Sbjct: 184 RALLYSVRPEARGAQLFLTRTKPDMLIELFRVEVPEIQDEMIEIMGAARDPGSRAKIAVK 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A +VIN + PA V  +++D
Sbjct: 244 SNDRRIDPIGACVGMRGARVQAVSNELGGERVDIVLWDDNPAQYVINCMAPADVASIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQN+RLA+QL+GW ++++T  +     Q +  +    F
Sbjct: 304 EDNHSMDIAVEADSLAQAIGRNGQNIRLATQLSGWELNVMTVADMKAKHQAESAKVVNLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           +QA++VDE  A LL  EGF  +EE+A V  SE+  I+GFDE+    ++ RA+  +    +
Sbjct: 364 IQALDVDEEFAQLLSDEGFTSLEEIAYVPASELLEIDGFDEDIVESLRERAKAAISTRAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDD 469
             ++ +     SE+L ++ G+D  +   +   G+ T+EDLA   +DD
Sbjct: 424 ATEEALDGAEPSEDLLALEGLDRHLAFVMASKGVITLEDLAEQGIDD 470


>gi|218782565|ref|YP_002433883.1| transcription elongation factor NusA [Desulfatibacillum
           alkenivorans AK-01]
 gi|218763949|gb|ACL06415.1| NusA antitermination factor [Desulfatibacillum alkenivorans AK-01]
          Length = 488

 Score =  372 bits (956), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 190/392 (48%), Positives = 269/392 (68%), Gaps = 4/392 (1%)

Query: 11  QIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE 70
           ++ D V+ +K ID++V+++ + +++Q AAR   G  +DI V+ N E G++ +F+  EVVE
Sbjct: 8   RVIDQVSRDKGIDKNVLIATLEEALQAAARKKLGPRADIEVQYNEEAGELEVFQFREVVE 67

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           EV     ++S++  R+ DP  ++G  +   +    FGR+A QSAKQVIIQK+++AERD  
Sbjct: 68  EVTEPDLEMSMEDGRELDPDCELGDSLGSKMDTATFGRIAAQSAKQVIIQKLKDAERDAV 127

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVR 190
           Y  F D+ GEII+G ++R++ G++IV+LG ++GV+   E + RE    GDR++++I DV 
Sbjct: 128 YSSFMDRKGEIINGIMQRMDRGDIIVNLGQTEGVLPSREQVPRETYHRGDRIRAFILDVV 187

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDP 250
            E RGPQ++LSRTHP F+  LF MEVPEI  G+V V A +R+PG RAK+AV SSDS ID 
Sbjct: 188 LEGRGPQIILSRTHPNFLTSLFKMEVPEIGEGVVSVMAGAREPGVRAKIAVASSDSDIDA 247

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEV 310
           VGACVGM+GSRVQ VV ELR EKIDIV W  DSA FV NAL PA +++V++DE+   +EV
Sbjct: 248 VGACVGMKGSRVQNVVHELRGEKIDIVPWHADSAKFVCNALAPAQISRVIIDEENHAMEV 307

Query: 311 IVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDE 370
           IVP E LS+AIG++GQNVRLAS+LTGW +D+ +E   S   Q  +N      M+   +DE
Sbjct: 308 IVPDEFLSVAIGKKGQNVRLASKLTGWHLDVKSETRYSRTMQDGYNS----LMELAELDE 363

Query: 371 IIAHLLVAEGFADVEELACVKISEIASIEGFD 402
            IA  L  +GF  VEEL+     ++  I+G D
Sbjct: 364 NIADALYEKGFYSVEELSAADPDDLVQIKGID 395


>gi|33596482|ref|NP_884125.1| transcription elongation factor NusA [Bordetella parapertussis
           12822]
 gi|33566251|emb|CAE37162.1| N utilization substance protein A [Bordetella parapertussis]
          Length = 492

 Score =  372 bits (956), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 206/469 (43%), Positives = 304/469 (64%), Gaps = 12/469 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++ R+VV   +  ++  A +  +   +DIRV I+ ETG    FR   
Sbjct: 4   EILLLVDALAREKNVTREVVFGALESALASAMKKRFKDDADIRVSIDRETGGHEGFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    Q  L  AR+  P I++G  + + L P++FGR+  Q+AKQ I+QK+R+
Sbjct: 64  VVPDEAGLQEPDKQELLSEAREMAPDIEVGEYIEEALEPVEFGRIGAQAAKQAILQKIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F D+   IISG++KR++ G+VI++ G  +  + R E I +ENLR GDRV++
Sbjct: 124 AEREQVLNDFLDRGETIISGSIKRMDKGDVIIETGKIEARLPRSEMIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           ++  V    RG Q++LSRT P+F+ +LF  EVPEI  G++++KA +RDPG RAK+AV + 
Sbjct: 184 FVLRVDHAARGQQLILSRTSPEFIRQLFENEVPEIEQGLLEIKATARDPGVRAKIAVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVGMRGSRV AV  EL  E++DIV+WS D A FVI AL PA V  +V+DED
Sbjct: 244 DKRIDPIGTCVGMRGSRVTAVRNELGGEQVDIVLWSEDPAQFVIGALAPANVESIVVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF--- 361
              ++V+V +E L  AIG +GQNVRLAS+LTGW I+I+T EE S+NRQ+   ER      
Sbjct: 304 KHAMDVVVDEENLPKAIGAKGQNVRLASELTGWQINIMTPEE-SLNRQE--TERAALRAT 360

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM  ++VDE +A +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RAR  L    
Sbjct: 361 FMSKLDVDEEVADILIDEGFTGIEEIAYVPMQELLEIEAFDEDTINELRARARNALLTEA 420

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           I  +++   L  +++L  + GI  ++   L E  + T +DLA  S D+L
Sbjct: 421 IAQEER---LETAQDLLELEGITPELAAKLAERQVHTRDDLAELSTDEL 466


>gi|90581550|ref|ZP_01237343.1| transcription elongation factor NusA [Vibrio angustum S14]
 gi|90437312|gb|EAS62510.1| transcription elongation factor NusA [Vibrio angustum S14]
          Length = 495

 Score =  372 bits (956), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 196/478 (41%), Positives = 306/478 (64%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  +    D+RV I+ +TG+   FR  +
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALEIALATATKKKHEAEIDVRVAIDRKTGEFETFRRWK 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VEEV   T +I+L+ A+  D +I  G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  AVEEVTQPTLEITLEAAQFEDSTIVAGDYVEDDIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  GE+I+G VK+V    VI+DLGN ++ VI+RD+ + REN RPGDRV+  +
Sbjct: 124 AQIVEQFIDNEGELITGIVKKVNRDAVIIDLGNNAEAVIQRDDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E RG Q+ ++R+ P+ + +LF +EVPE+   ++++   +RDPGSRAK+AV ++D 
Sbjct: 184 YKVAPEARGFQLFMTRSKPEMLSELFRIEVPEMGEELIELMGAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A +VINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELGGERIDIVLWDENPAQYVINAMAPAEVDSIIVDEDNH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V K+ L+ AIGR GQNVRLASQLTGW ++++T E+     Q++  E  + F + +
Sbjct: 304 TMDIAVQKDNLAQAIGRSGQNVRLASQLTGWELNVMTVEDLQKKHQEEAKESIEVFTKHL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++DE  A +LV EGF  +EE+A V +SE+  ++G DEE   +++ RA+  L  + +  ++
Sbjct: 364 DIDEEFATVLVEEGFTTLEEIAYVPVSELMDVDGLDEEIIDQLRSRAKAALTTLALAKEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            +     +E+L  + G++ ++       GI T+EDLA    DDL    G  + K G +
Sbjct: 424 TLDGAEPAEDLLGLEGLERELAFKFAAKGICTLEDLADQGTDDLTDIEGVDDAKAGEL 481


>gi|187478885|ref|YP_786909.1| transcription elongation factor NusA [Bordetella avium 197N]
 gi|115423471|emb|CAJ50005.1| transcription elongation protein (N utilization substance protein)
           [Bordetella avium 197N]
          Length = 492

 Score =  372 bits (955), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 209/483 (43%), Positives = 309/483 (63%), Gaps = 15/483 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++ R+VV   +  ++  A +  +   +DIRV I+ ETG    FR   
Sbjct: 4   EILLLVDALAREKNVTREVVFGALESALASAMKKRFKEDADIRVSIDRETGGHEGFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    Q  L  A +  P +++G  + +PL P++FGR+  Q+AKQ I+QK+R+
Sbjct: 64  VVPDEAGLQEPDKQELLSDAHEISPDLEVGDFIEEPLEPVEFGRIGAQAAKQAILQKIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F D+   IISGT+KR++ G+ IV+ G  +  + R E I +ENLR GDRV++
Sbjct: 124 AEREQVLNDFLDRGETIISGTIKRMDKGDYIVETGKIEARLPRTEMIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           ++  V    RG QV+LSRT P+F+ +LF  EVPEI  G++++KA +RDPG RAK+AV + 
Sbjct: 184 FVLRVDHAARGQQVILSRTSPEFIRQLFENEVPEIEQGLLEIKAAARDPGVRAKIAVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVGMRGSRV AV  EL  E++DIV+WS D A FVI AL PA V  +V+DED
Sbjct: 244 DKRIDPIGTCVGMRGSRVTAVRNELGGEQVDIVLWSEDPAQFVIGALAPANVESIVVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF--- 361
              ++V+V +E L  AIG +GQNVRLAS+LTGW I+I+T EE S+NRQ+  NER      
Sbjct: 304 KHAMDVVVDEENLPKAIGAKGQNVRLASELTGWQINIMTPEE-SLNRQE--NERVSLRAT 360

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM  ++VDE +A +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RAR  L    
Sbjct: 361 FMDKLDVDEEVADILIDEGFTGLEEIAYVPMQELLEIEAFDEDTINELRVRARNALLTEA 420

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL---LGWSENKG 478
           I  +++   L  +++L  + G+   +   L E  + T +DLA  + D+L    G SE + 
Sbjct: 421 IAQEER---LETAQDLLELEGVTPDLAAKLAERNVHTRDDLAELATDELAEIAGMSEQEA 477

Query: 479 GNI 481
            ++
Sbjct: 478 SDL 480


>gi|329123362|ref|ZP_08251927.1| N utilization substance A [Haemophilus aegyptius ATCC 11116]
 gi|327471362|gb|EGF16814.1| N utilization substance A [Haemophilus aegyptius ATCC 11116]
          Length = 507

 Score =  372 bits (955), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 188/465 (40%), Positives = 312/465 (67%), Gaps = 2/465 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + R+ +   +  +I  + +  +   +DIRV INP+TG+   FR   
Sbjct: 16  EILLAAEAVSNEKLLPREKIFEALESAIAISTKKKFEYETDIRVSINPKTGEFDTFRRWL 75

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV+  T +I+L+ A+  DP++ +G  V D +  + F R+A+Q+A+QVI  K+REAER
Sbjct: 76  VVDEVKVPTKEITLEAAQFDDPNLQLGEYVEDQIESIAFDRIAMQTARQVISTKIREAER 135

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F+++ G+I++GTVK+V   ++I+DLGN ++ +I R++ + REN R GDRV+  +
Sbjct: 136 AKVVEQFREEEGKIVTGTVKKVSRDSIILDLGNKAEAMIAREDMLPRENFRLGDRVRGVL 195

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E +  Q+ ++R+ P+ +++LF +EVPEI   +++++  +RD GSRAK+AV S+D 
Sbjct: 196 YKVNPEGKTAQLFVTRSKPEMLIELFRIEVPEIGEEMIEIRGAARDAGSRAKIAVKSNDK 255

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQ +  EL  E++DIV+W  + A FVINA+ PA V+ +++DED  
Sbjct: 256 RIDPVGACVGMRGARVQVITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIIVDEDNH 315

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T +E +   Q + N+    F+ A+
Sbjct: 316 SMDIAVEADNLAQAIGRNGQNVRLATQLTGWTLNVMTTDELNAKHQAEDNKVLNLFINAL 375

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV-EIQGRAREYLEGIDITLQ 425
            +DE  A +LV EGF  +EE+A V ++E+ +I+G ++E  V E+Q RA+  +    +  +
Sbjct: 376 KLDEEFAQILVEEGFTSLEEIAYVPMNELTAIDGLEDEDLVEELQTRAKNAITAAAVAEE 435

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           + +++  V + L ++ G++  + + L E  I T+E+LA   VDDL
Sbjct: 436 EALKKANVEDRLLNLEGMNRHVAIKLAEKQITTLEELAEQGVDDL 480


>gi|319776227|ref|YP_004138715.1| Transcription elongation protein NusA [Haemophilus influenzae
           F3047]
 gi|317450818|emb|CBY87040.1| Transcription elongation protein NusA [Haemophilus influenzae
           F3047]
          Length = 495

 Score =  372 bits (955), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 188/465 (40%), Positives = 312/465 (67%), Gaps = 2/465 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + R+ +   +  +I  + +  +   +DIRV INP+TG+   FR   
Sbjct: 4   EILLAAEAVSNEKLLPREKIFEALESAIAISTKKKFEYETDIRVSINPKTGEFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV+  T +I+L+ A+  DP++ +G  V D +  + F R+A+Q+A+QVI  K+REAER
Sbjct: 64  VVDEVKVPTKEITLEAAQFDDPNLQLGEYVEDQIESIAFDRIAMQTARQVISTKIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F+++ G+I++GTVK+V   ++I+DLGN ++ +I R++ + REN R GDRV+  +
Sbjct: 124 AKVVEQFREEEGKIVTGTVKKVSRDSIILDLGNKAEAMIAREDMLPRENFRLGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E +  Q+ ++R+ P+ +++LF +EVPEI   +++++  +RD GSRAK+AV S+D 
Sbjct: 184 YKVNPEGKTAQLFVTRSKPEMLIELFRIEVPEIGEEMIEIRGAARDAGSRAKIAVKSNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQ +  EL  E++DIV+W  + A FVINA+ PA V+ +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQVITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIIVDEDNH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T +E +   Q + N+    F+ A+
Sbjct: 304 SMDIAVEADNLAQAIGRNGQNVRLATQLTGWTLNVMTTDELNAKHQAEDNKVLNLFINAL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV-EIQGRAREYLEGIDITLQ 425
            +DE  A +LV EGF  +EE+A V ++E+ +I+G ++E  V E+Q RA+  +    +  +
Sbjct: 364 KLDEEFAQILVEEGFTSLEEIAYVPMNELTAIDGLEDEDLVEELQTRAKNAITAAAVAEE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           + +++  V + L ++ G++  + + L E  I T+E+LA   VDDL
Sbjct: 424 EALKKANVEDRLLNLEGMNRHVAIKLAEKQITTLEELAEQGVDDL 468


>gi|197287229|ref|YP_002153101.1| transcription elongation factor NusA [Proteus mirabilis HI4320]
 gi|194684716|emb|CAR46696.1| transcription elongation protein (N utilization substance protein
           A) [Proteus mirabilis HI4320]
          Length = 502

 Score =  372 bits (955), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 205/485 (42%), Positives = 315/485 (64%), Gaps = 11/485 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIDVRVCIDRKTGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV   T +I+L+ A+  +P I++GG + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVEEVTQPTREITLEAAKYEEPEIELGGFIEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F++++GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AMVVDQFREQLGEIITGVVKKVNRDNITLDLGNNAEAVILREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           YDVR E RG Q+ ++R+ P+ +++LF +EVPEI   I+++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YDVRTETRGAQLFVTRSRPEMLIELFRIEVPEIGEEIIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKC 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLT-------GWTIDIITEEEDSINRQKDFNERT 359
            ++V V    L+ AIGR GQNVRLA+QL         W ++++T +E +   Q + N   
Sbjct: 304 TMDVAVESSNLAQAIGRNGQNVRLAAQLLKKHRGDDKWELNVMTADELNAKHQAEANAAI 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + F + +++DE  A +LV EGF+ +EEL  V I E+ +I+  DEET   ++ RA+  L  
Sbjct: 364 EIFTKHLDIDEDFATVLVEEGFSTLEELVYVPIDELLAIDSLDEETVEALRERAKAALTT 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSEN 476
           I++  ++ + +   +E+L ++ G++  +   L   GI T+EDLA   +DDL    G +  
Sbjct: 424 IELAQKESLGDNQPAEDLLALEGMERSLAFDLAARGICTLEDLAEQGIDDLTDIDGLNSE 483

Query: 477 KGGNI 481
           + G +
Sbjct: 484 RAGEL 488


>gi|326794269|ref|YP_004312089.1| NusA antitermination factor [Marinomonas mediterranea MMB-1]
 gi|326545033|gb|ADZ90253.1| NusA antitermination factor [Marinomonas mediterranea MMB-1]
          Length = 496

 Score =  372 bits (955), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 192/481 (39%), Positives = 317/481 (65%), Gaps = 8/481 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK + + V+   +  ++  AA+  +     IRV I+  TGD + FR   
Sbjct: 4   EILLVAEAVSNEKDVPKQVIFEAVETALASAAKRRFEEDVKIRVSIDQRTGDYNTFRQWN 63

Query: 68  VVEEVENYT---CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           +V + E+Y+    ++++  + ++   + IG +  + +P  +FGR+A Q+AKQVI+QKVRE
Sbjct: 64  IVAD-EDYSYPDSELTIDDSVEQSLGLAIGEIYEEEIPSEEFGRIAAQTAKQVIVQKVRE 122

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVK 183
           AER +    + +KVG+++ G VK+V   ++IVDLG N++  + +D+ I+RE  R  DR++
Sbjct: 123 AERAKVVARYSEKVGKLVHGQVKKVTRDSLIVDLGENAEAALPKDQLINREMFRMNDRIR 182

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           + + ++R + RGPQ++LSR  P+FM++LF +EVPEI   +++++  SRDPG RAK+AV +
Sbjct: 183 ALLSEIREDGRGPQLVLSRNVPEFMIELFKLEVPEIAEEVIEIRGASRDPGLRAKIAVKT 242

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  IDP+GACVGMRG+RVQAV  E+  E++DIV+W  + A  VINA+ PA V  +V+DE
Sbjct: 243 NDRRIDPIGACVGMRGARVQAVSNEMNGERVDIVLWDDNPAQLVINAMAPAEVDSIVIDE 302

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   ++V V  + L+ AIGR GQNVRLA+ LTGW ++++T EE    +Q++  +    F+
Sbjct: 303 DAHSMDVAVKSDNLAQAIGRNGQNVRLATSLTGWALNVMTSEEAQSKQQEESQKLIDVFV 362

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
            ++++D+ +A  LV EGF  +EE+A V + E+  I+GFDE+   E++ RA+E L    + 
Sbjct: 363 NSLDIDDDLALQLVDEGFETLEEVAYVPMEEMLDIDGFDEDLVNELRSRAKESLLNQALQ 422

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGN 480
            ++K+ +   +E+L ++ G+DS + +     GI TMEDLA  SVD+LL   G +E +  +
Sbjct: 423 AEEKLDDAKPAEDLLTMEGMDSHLALVFASKGIITMEDLAEQSVDELLEIEGITEERAAS 482

Query: 481 I 481
           +
Sbjct: 483 L 483


>gi|322831213|ref|YP_004211240.1| NusA antitermination factor [Rahnella sp. Y9602]
 gi|321166414|gb|ADW72113.1| NusA antitermination factor [Rahnella sp. Y9602]
          Length = 502

 Score =  372 bits (954), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 196/485 (40%), Positives = 311/485 (64%), Gaps = 11/485 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RV I+ +TGD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALEIALSTATKKKYEQEIEVRVSIDRKTGDFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            V EV   T +I+L+ A+  DPSID+GG + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  AVNEVTQPTREITLEAAQYEDPSIDLGGYIEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
                +F+++ GEI++G VK+V   ++ +DLG N++ VI R++ + REN R GDR++  +
Sbjct: 124 AMVVDQFREQQGEIVTGVVKKVNRDSIALDLGSNAEAVILREDMLPRENFRSGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           YDVR E RG Q+ +SR+  + +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YDVRPEARGAQLFVSRSRNEMLIELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDI++W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIILWDDNPAQFVINAMAPADVASIVVDEDKC 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLT-------GWTIDIITEEEDSINRQKDFNERT 359
            +++ V    L+ AIGR GQNVRLASQL         W ++++T ++     Q + +   
Sbjct: 304 TMDIAVEASNLAQAIGRNGQNVRLASQLLKQHRGDDKWELNVMTADDLQAKHQAEAHAAI 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             F + + +DE  A +LV EGF+ +EELA V ++E+  I+G DE+T   ++ RA+E L  
Sbjct: 364 DTFTKYLAIDEDFATVLVEEGFSTLEELAYVPVNELLEIDGLDEDTVDALRERAKEALTT 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSEN 476
           + +  ++ + +   +++L ++ G++  +   L   G+ T+EDLA   VDDL    G ++ 
Sbjct: 424 LALAQEESLGDKKPADDLLNLAGLERSMAFKLAAQGVCTLEDLAEQGVDDLADIEGLTDE 483

Query: 477 KGGNI 481
           + G +
Sbjct: 484 QAGEL 488


>gi|319896984|ref|YP_004135179.1| transcription elongation protein nusa [Haemophilus influenzae
           F3031]
 gi|317432488|emb|CBY80845.1| Transcription elongation protein NusA [Haemophilus influenzae
           F3031]
          Length = 495

 Score =  371 bits (953), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 188/465 (40%), Positives = 312/465 (67%), Gaps = 2/465 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + R+ +   +  +I  + +  +   +DIRV INP+TG+   FR   
Sbjct: 4   EILLAAEAVSNEKLLPREKIFEALESAIAISTKKKFEYETDIRVSINPKTGEFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV+  T +I+L+ A+  DP++ +G  V D +  + F R+A+Q+A+QVI  K+REAER
Sbjct: 64  VVDEVKVPTKEITLEAAQFDDPNLQLGEYVEDQIESIAFDRIAMQTARQVISTKIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F+++ G+I++GTVK+V   ++I+DLGN ++ +I R++ + REN R GDRV+  +
Sbjct: 124 AKVVEQFREEEGKIVTGTVKKVSRDSIILDLGNKAEAMIAREDMLPRENFRLGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E +  Q+ ++R+ P+ +++LF +EVPEI   +++++  +RD GSRAK+AV S+D 
Sbjct: 184 YKVNPEGKTAQLFVTRSKPEMLIELFRIEVPEIGEEMIEIRGAARDAGSRAKIAVKSNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQ +  EL  E++DIV+W  + A FVINA+ PA V+ +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQVITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIIVDEDNH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T +E +   Q + N+    F+ A+
Sbjct: 304 SMDIAVEADNLAQAIGRNGQNVRLATQLTGWTLNVMTTDELNAKHQAEDNKVLNLFINAL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV-EIQGRAREYLEGIDITLQ 425
            +DE  A +LV EGF  +EE+A V ++E+ +I+G ++E  V E+Q RA+  +    +  +
Sbjct: 364 ELDEEFAQILVEEGFTSLEEIAYVPMNELTAIDGLEDEDLVEELQTRAKNAITAAAVAEE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           + +++  V + L ++ G++  + + L E  I T+E+LA   VDDL
Sbjct: 424 EALKKANVEDRLLNLEGMNRHVAIKLAEKQITTLEELAEQGVDDL 468


>gi|207723239|ref|YP_002253638.1| n utilization substance protein [Ralstonia solanacearum MolK2]
 gi|206588435|emb|CAQ35398.1| n utilization substance protein [Ralstonia solanacearum MolK2]
          Length = 491

 Score =  371 bits (953), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 197/502 (39%), Positives = 328/502 (65%), Gaps = 22/502 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV   +  ++  A +  +    ++RV I+ E+G+   FR   
Sbjct: 4   EVLLLVDALAREKNVDKDVVFGALEAALASATKKRFEEDVEVRVAIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    QI L  AR+++P + I   + + +  ++FGR+  Q+AKQVI+Q++R+
Sbjct: 64  VVPDDAGLQEPDKQILLFEAREQNPDVSIDEFIEEQIESVEFGRIGAQAAKQVILQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GT+KR +   +IV+ G  + ++ RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTIKRADKKGLIVESGRVEALLARDQMIPKENLRTGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +V R  RGPQ+ LSRT P+F++KLF  EVPE+  G++++KA +RDPG RAK+AV + 
Sbjct: 184 YILNVDRTARGPQIELSRTCPEFLIKLFENEVPEMEQGLLEIKAAARDPGVRAKIAVVAH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RG+RV AV  E+  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGVRGTRVTAVRNEVGGEAVDIVLWSEDPAQFVIGALAPAQVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+T  E +  + ++ +   + FM+
Sbjct: 304 KHSMDVVVDEENLAVAIGRSGQNVRLASELTGWQINIMTPAESAQKQAEESSVVRKLFME 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VD+ +A +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RAR+ L  +++  
Sbjct: 364 RLDVDQEVADILIEEGFTSLEEVAYVPLQEMLEIEAFDEDTVNELRNRARDVLLTMELAK 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+ +  VS++L  + G+  ++   L E  I+T +DLA  +VD+L+  +          
Sbjct: 424 EEKVEK--VSQDLRDLEGLTPELIGKLAEGNIQTRDDLAELAVDELVDMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHAR 506
                  G  ++Q +++I+ AR
Sbjct: 472 -------GVDEEQAKALIMKAR 486


>gi|300704337|ref|YP_003745940.1| transcription termination/antitermination l factor [Ralstonia
           solanacearum CFBP2957]
 gi|299072001|emb|CBJ43331.1| transcription termination/antitermination L factor [Ralstonia
           solanacearum CFBP2957]
          Length = 491

 Score =  371 bits (953), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 197/502 (39%), Positives = 328/502 (65%), Gaps = 22/502 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV   +  ++  A +  +    ++RV I+ E+G+   FR   
Sbjct: 4   EVLLLVDALAREKNVDKDVVFGALEAALASATKKRFEEDVEVRVAIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR+++P + I   + + +  ++FGR+  Q+AKQVI+Q++R+
Sbjct: 64  VVPDDAGLQEPDKEILLFEAREQNPDVSIDDFIEEQIESVEFGRIGAQAAKQVILQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ D+  +I++GT+KR +   +IV+ G  + ++ RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLDRGEKIMTGTIKRADKKGLIVESGRVEALLARDQMIPKENLRTGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +V R  RGPQ+ LSRT P+F++KLF  EVPE+  G++++KA +RDPG RAK+AV + 
Sbjct: 184 YILNVDRTARGPQIELSRTCPEFLIKLFENEVPEMEQGLLEIKAAARDPGVRAKIAVVAH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RG+RV AV  E+  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGVRGTRVTAVRNEVGGEAVDIVLWSEDPAQFVIGALAPAQVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+T  E +  + ++ +   + FM+
Sbjct: 304 KHSMDVVVDEENLAVAIGRSGQNVRLASELTGWQINIMTPTESAQKQAEESSVVRKLFME 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VD+ +A +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RAR+ L  +++  
Sbjct: 364 RLDVDQEVADILIEEGFTSLEEVAYVPLQEMLEIEAFDEDTVNELRNRARDVLLTMELAK 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+ +  VS++L  + G+  ++   L E  I+T +DLA  +VD+L+  +          
Sbjct: 424 EEKVEK--VSQDLRDLEGLTPELIGKLAEGNIQTRDDLAELAVDELVDMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHAR 506
                  G  ++Q +++I+ AR
Sbjct: 472 -------GVDEEQAKALIMKAR 486


>gi|83748667|ref|ZP_00945684.1| N utilization substance protein A [Ralstonia solanacearum UW551]
 gi|207743364|ref|YP_002259756.1| n utilization substance protein [Ralstonia solanacearum IPO1609]
 gi|83724629|gb|EAP71790.1| N utilization substance protein A [Ralstonia solanacearum UW551]
 gi|206594761|emb|CAQ61688.1| n utilization substance protein [Ralstonia solanacearum IPO1609]
          Length = 491

 Score =  371 bits (952), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 197/502 (39%), Positives = 328/502 (65%), Gaps = 22/502 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV   +  ++  A +  +    ++RV I+ E+G+   FR   
Sbjct: 4   EVLLLVDALAREKNVDKDVVFGALEAALASATKKRFEEDVEVRVAIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    QI L  AR+++P + I   + + +  ++FGR+  Q+AKQVI+Q++R+
Sbjct: 64  VVPDDAGLQEPDKQILLFEAREQNPDVSIDEFIEEQIESVEFGRIGAQAAKQVILQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GT+KR +   +IV+ G  + ++ RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTIKRADKKGLIVESGRVEALLARDQMIPKENLRTGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +V R  RGPQ+ LSRT P+F++KLF  EVPE+  G++++KA +RDPG RAK+AV + 
Sbjct: 184 YILNVDRTARGPQIELSRTCPEFLIKLFENEVPEMEQGLLEIKAAARDPGVRAKIAVVAH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RG+RV AV  E+  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGVRGTRVTAVRNEVGGEAVDIVLWSEDPAQFVIGALAPAQVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+T  E +  + ++ +   + FM+
Sbjct: 304 KHSMDVVVDEENLAVAIGRSGQNVRLASELTGWQINIMTPTESAQKQAEESSVVRKLFME 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VD+ +A +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RAR+ L  +++  
Sbjct: 364 RLDVDQEVADILIEEGFTSLEEVAYVPLQEMLEIEAFDEDTVNELRNRARDVLLTMELAK 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+ +  VS++L  + G+  ++   L E  I+T +DLA  +VD+L+  +          
Sbjct: 424 EEKVEK--VSQDLRDLEGLTPELIGKLAEGNIQTRDDLAELAVDELVDMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHAR 506
                  G  ++Q +++I+ AR
Sbjct: 472 -------GVDEEQAKALIMKAR 486


>gi|171463768|ref|YP_001797881.1| NusA antitermination factor [Polynucleobacter necessarius subsp.
           necessarius STIR1]
 gi|171193306|gb|ACB44267.1| NusA antitermination factor [Polynucleobacter necessarius subsp.
           necessarius STIR1]
          Length = 493

 Score =  371 bits (952), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 196/471 (41%), Positives = 314/471 (66%), Gaps = 12/471 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS-DIRVEINPETGDISLFRLL 66
           E+L +ADA+A EK++ + +V   +  ++  A +  Y T   DIRV I+ ETG+   FR  
Sbjct: 4   EVLMLADALAREKNVGQAIVFEALEMALASATKKCYATEDVDIRVSIDRETGEYETFRRW 63

Query: 67  EVV------EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            VV      +E +    Q     A+++   +++G  + + +  + FGR+  Q+AKQVI+Q
Sbjct: 64  LVVPNEAGLQEPDKEILQFE---AQEQLADMEVGDYIEEQIESLAFGRIGAQAAKQVILQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           ++R+AER++   +  ++  ++++GTVKR +   VI++ G  + ++RRD+ I +ENLR GD
Sbjct: 121 RIRDAEREQILNDHLERGEKVMTGTVKRADKNGVIIESGRVEALLRRDQMIPKENLRSGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV++YI  V RE RGPQ+ LSRT P F++KLF  EVPE+  G++++K  +RDPG RAK+A
Sbjct: 181 RVRAYILKVDREARGPQIELSRTCPDFLIKLFENEVPEMEQGLLEIKGAARDPGIRAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V + D  IDP+G CVG+RG+RV AV  E+  E +DIV+WS D A FVI AL PA V+ +V
Sbjct: 241 VITYDKRIDPIGTCVGVRGTRVTAVRNEVAGEAVDIVLWSEDPAQFVIGALAPAQVSSIV 300

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DE+   ++V+V +E L++AIGR GQNVRLAS LTGW I+I+T EE +   +K+ +   Q
Sbjct: 301 VDEERHAMDVVVDEENLAIAIGRSGQNVRLASDLTGWQINIMTPEESAEKTEKEASSVRQ 360

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM  ++VD+ +A +L+ EGF  +EE+A V +SE+  I+ FD++T  E++ RAR+ L  +
Sbjct: 361 LFMDKLDVDQEVADILIEEGFNTLEEVAYVPLSEMLEIDSFDKDTVNELRTRARDSLLTM 420

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ++  +++I E  VS++L S+ G+ +++   L +N + T +DLA  +VD+L+
Sbjct: 421 ELAKEERIGE--VSQDLRSLEGMTTELIAKLADNQVHTRDDLAELAVDELV 469


>gi|300312899|ref|YP_003776991.1| transcription elongation factor protein [Herbaspirillum seropedicae
           SmR1]
 gi|300075684|gb|ADJ65083.1| transcription elongation factor protein [Herbaspirillum seropedicae
           SmR1]
          Length = 519

 Score =  371 bits (952), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 199/466 (42%), Positives = 307/466 (65%), Gaps = 5/466 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D++VV   +  ++ +A +  Y    DIRV I+ E+G+   FR   
Sbjct: 4   EILLLVDALAREKNVDKEVVFGALEHALAQATKKRYEGEVDIRVSIDRESGEFESFRRWH 63

Query: 68  VVEEVENYTC---QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +         ++ L  A+++ P I++   + DP+  ++FGR   Q  KQV++Q++R+
Sbjct: 64  VVPDEAGLQLPDQEVLLFEAKEQFPDIEVDEYIEDPIESVEFGRRFAQDTKQVVLQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F  +   +++GT+KR+E G+ I++ G  +  + RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILADFLARGDALVTGTIKRMERGDAIIESGKIEARLPRDQMIPKENLRIGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQV+LSRT P+F++KLF +EVPEI  G +++K+ +RDPG RAK+AV+++
Sbjct: 184 YILRVDRSARGPQVILSRTAPEFIMKLFELEVPEIEQGSLEIKSAARDPGVRAKIAVYTA 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVGMRGSRVQAV  EL  E++DIV+WS D A FVI AL PA VT +V+DE+
Sbjct: 244 DKRIDPIGTCVGMRGSRVQAVTGELGGERVDIVLWSEDPAQFVIGALAPANVTSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLA++LT W I+I+T EE +     +       FM+
Sbjct: 304 KHAMDVVVDEENLAIAIGRGGQNVRLAAELTRWQINIMTAEESADKSAAETALIRTLFME 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VD+ +A +LV EGF+ +EE+A V I+E+  IE FDEET  E++ RAR+ L  +   +
Sbjct: 364 KLDVDQEVADILVEEGFSTLEEIAYVPINEMLEIESFDEETVNELRNRARDAL--VTEAI 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
             +    G+ EEL +  G+D  +   LG  G+KT+   AG + D+ 
Sbjct: 422 ASEEGLEGMEEELINFEGLDRVLAGKLGLAGVKTLPAFAGLAYDEF 467


>gi|58696914|ref|ZP_00372417.1| N utilization substance protein A [Wolbachia endosymbiont of
           Drosophila simulans]
 gi|58698399|ref|ZP_00373311.1| N utilization substance protein A, putative [Wolbachia endosymbiont
           of Drosophila ananassae]
 gi|225631019|ref|YP_002727810.1| transcription elongation factor NusA [Wolbachia sp. wRi]
 gi|13569584|gb|AAK31158.1|AF348330_4 N utilization substance protein A [Wolbachia sp. wRi]
 gi|58535081|gb|EAL59168.1| N utilization substance protein A, putative [Wolbachia endosymbiont
           of Drosophila ananassae]
 gi|58536861|gb|EAL60065.1| N utilization substance protein A [Wolbachia endosymbiont of
           Drosophila simulans]
 gi|225593000|gb|ACN96019.1| transcription elongation factor NusA [Wolbachia sp. wRi]
          Length = 520

 Score =  371 bits (952), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 204/512 (39%), Positives = 330/512 (64%), Gaps = 19/512 (3%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           L++++ A  ++ +K +D DVV+  +  +I+  A   YG+ S I V+I+  TG ++ +R L
Sbjct: 22  LDVIKTAGELSLQKGLDFDVVIKALESAIEAVAHQKYGSKSKIVVDIDRNTGKVTSYRKL 81

Query: 67  EVVE----EVENYTCQ-ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +V++    E EN  C+ I+L  A+       +G  VS+ L  ++    + + A+Q I Q 
Sbjct: 82  KVIDDESNEKENTECESITLTQAKLIKGDAKVGDTVSELLS-LNTDLASARIAQQTIAQI 140

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +++ E  +QY EFKDKVGEI  G VK+VEY ++I+D+  +   +        E+ R GD+
Sbjct: 141 IKDEESKKQYEEFKDKVGEIRYGIVKQVEYSDLIIDINGTRAYLPLRNLTGGESFREGDK 200

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           VK+YI  V+R   G Q++LSRTH  F+  L + E+PEI +G+V +K ++RD GSR+K+AV
Sbjct: 201 VKAYIQTVKRSDDGRQIILSRTHEGFLEALLNQEIPEIADGLVTIKGIARDAGSRSKVAV 260

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           FS D +IDPVGACVG++G R++ ++ EL  EKID++ +S D   FVI A+ PA V+KV++
Sbjct: 261 FSPDKNIDPVGACVGVKGDRIKTIIHELNGEKIDVINYSSDLGQFVIKAITPAEVSKVII 320

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+   IE+IV ++QLSLAIG++GQNVRLAS+L GW I+I++ +++S  R K+ ++ +  
Sbjct: 321 DENENCIELIVAEDQLSLAIGKKGQNVRLASELVGWKIEILSTQQESERRSKELSQCSAL 380

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F +A+N++EI+  LLV EGF+ VE+++   I E+ASIEGF+E+ A E+  RA +YL+  +
Sbjct: 381 FAEALNLEEIMGQLLVTEGFSSVEDISSASIKELASIEGFNEDIANELHNRANKYLKAEN 440

Query: 422 ITLQKKIRELGVSEELCSIP-GIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
               ++++ LG+ +++ ++   ID+KI  AL ++ IKT+ED+A  S  +      +   +
Sbjct: 441 DRKIEELKSLGMEDDVINLTLSIDNKI--ALSKHDIKTLEDIADLSSYEFCSILSSSSDS 498

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
            E            KD V+S+II AR K+G I
Sbjct: 499 KEDL----------KDIVDSIIIEARKKLGLI 520


>gi|330981089|gb|EGH79192.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           aptata str. DSM 50252]
          Length = 453

 Score =  370 bits (951), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 191/448 (42%), Positives = 304/448 (67%), Gaps = 3/448 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + ++V+ EK +   V+   +  ++  A +  +    ++RVEIN +TG+   FR   
Sbjct: 4   EVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVELRVEINRQTGNYETFRRWT 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VVE+  +++   ++++  A+ + P    G ++ + +  ++FGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVEDEDLDDPAYELAVDQAQAKKPGAVAGDLIEEKIDSIEFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G RV++
Sbjct: 124 ERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV S 
Sbjct: 184 LLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVRSK 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++DED
Sbjct: 244 DKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F++
Sbjct: 304 AHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNFIE 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L    I  
Sbjct: 364 ELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDIVNELRARAKDRLLTKAIAT 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALG 452
           ++K+ +   +E+L S+ G+D  + + L 
Sbjct: 424 EEKLADAHPAEDLLSLEGMDKDLAMELA 451


>gi|284006667|emb|CBA71929.1| transcription elongation protein (N utilization substance protein
           A) [Arsenophonus nasoniae]
          Length = 504

 Score =  370 bits (951), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 210/486 (43%), Positives = 312/486 (64%), Gaps = 12/486 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIDVRVNIDRKTGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV   T +I+L  A+  D  I +G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVEEVTQPTREITLDAAKFEDSEIKLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F+++ GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AMVVEQFREQQGEIITGVVKKVNRENITLDLGNNAEAVILREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           YDVR E RG Q+ +SR+ P+ +V+LF +EVPEI   I+++KA +RDPGSR K+AV ++D 
Sbjct: 184 YDVRPEARGAQLFVSRSRPEMLVELFRIEVPEIGEEIIEIKAAARDPGSRTKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKC 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTG-------WTIDIITEEEDSINRQKDFNERT 359
            ++V V    L+ AIGR GQNVRLASQL         W ++++T EE     Q + +   
Sbjct: 304 TMDVAVESSNLAQAIGRNGQNVRLASQLLKKHRGDDRWELNVMTAEELEAKHQAEAHASI 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             F++ +++DE  A  LV EGF+ +EELA V I+E+  IEG DE T   ++ RA+  L  
Sbjct: 364 NSFVKHLDIDEEFATALVEEGFSTLEELAYVPINELLEIEGLDETTIEVLRERAKAALTT 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL----GWSE 475
           +++  ++ + +   +E+L ++PG++  + + L  +GI T+EDLA   +DDL     G ++
Sbjct: 424 LELAQKESMGDNQRTEDLLNLPGMNHALAMNLAAHGICTLEDLAEQGIDDLRDIEEGLND 483

Query: 476 NKGGNI 481
            + G I
Sbjct: 484 EQAGEI 489


>gi|171058383|ref|YP_001790732.1| NusA antitermination factor [Leptothrix cholodnii SP-6]
 gi|170775828|gb|ACB33967.1| NusA antitermination factor [Leptothrix cholodnii SP-6]
          Length = 492

 Score =  370 bits (951), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 199/469 (42%), Positives = 315/469 (67%), Gaps = 6/469 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           NR ELL + DA++ EK++DR+VV   +  ++  A + LY    DIRV ++ +TG    FR
Sbjct: 2   NR-ELLMLVDAISREKNVDREVVFGAVEAALASATKKLYEGEVDIRVAVDRDTGVYETFR 60

Query: 65  LLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
              VV +   ++    +I    A+++   I++   + + +  +  GR+  Q+AKQVI+QK
Sbjct: 61  RWHVVPDEAGLQLPEAEILHFEAKEQIDDIEVDDYLEESVESVPIGRIGAQAAKQVILQK 120

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER++   +F  +  +I  GTVKR++ G+++V+ G  +G +RR E I +ENLR GDR
Sbjct: 121 IRDAEREQLLNDFMSRGEKIFVGTVKRLDKGDLVVESGRVEGRLRRSELIPKENLRTGDR 180

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I +V    RGPQ++LSR+ P+FM++LF +EVPEI  G++++K+ +RD GSRAK+AV
Sbjct: 181 VRAIIVEVDPTLRGPQIVLSRSAPEFMIELFRLEVPEIEQGLLEIKSCARDSGSRAKIAV 240

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  +DP+G CVG+RGSRV AV  EL  E++DIV+WS D A FVI AL PA V  +V+
Sbjct: 241 VSHDRRVDPIGTCVGVRGSRVNAVTNELAGERVDIVLWSEDPAQFVIGALAPANVQSIVV 300

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+   ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+T EE    +  + +   + 
Sbjct: 301 DEEKHAMDVVVDEENLAIAIGRGGQNVRLASELTGWRINIMTAEESQAKQATESDSIRKL 360

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F+  ++VDE +A +L+AEGF  +EE+A V + E+  IE FDE+T  E++ RA++ L  ++
Sbjct: 361 FVDKLDVDEDVADILIAEGFTSLEEVAYVPMQEMLEIESFDEDTVHELRTRAKDALLTME 420

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           I  ++K+ E  VS++L  + G+++++   L + GI T +DLA  +VD+L
Sbjct: 421 IVNEEKVDE--VSQDLRDLEGLNAELIGKLSDGGIHTRDDLADLAVDEL 467


>gi|149189795|ref|ZP_01868076.1| transcription elongation factor NusA [Vibrio shilonii AK1]
 gi|148836444|gb|EDL53400.1| transcription elongation factor NusA [Vibrio shilonii AK1]
          Length = 495

 Score =  370 bits (951), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 192/478 (40%), Positives = 311/478 (65%), Gaps = 4/478 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  + +  +    D+RV I+ +TG+   FR   
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALEIALATSTKKKHEIEIDVRVAIDRKTGEFETFRRWM 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VEEVE  T +IS++ A+  D SI +G  V + +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  AVEEVEFPTKEISIEAAQFDDESIQVGDFVEEEIDSVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            +   +F D  G++++G VK+V    +I+DLGN ++ VI RD+ + REN RPGDRV+  +
Sbjct: 124 AQIVEQFIDNEGDLVTGVVKKVNRDTIILDLGNNAEAVILRDDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   ++++K  +RDPGSRAK+AV ++D 
Sbjct: 184 YKVAPEARGFQLFITRSKPEMLAELFRVEVPEIAEELIELKGAARDPGSRAKIAVKTNDR 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDEDAH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +     Q++     + FM+ +
Sbjct: 304 SMDIAVEADNLAQAIGRSGQNVRLASQLTGWELNVMTVADLQKKHQEEAIASIENFMKHL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++++  A +LV EGF+ +EE+A V ++E+  I+G +EE   E++ RA++ L  + +  ++
Sbjct: 364 DIEQDFAEMLVEEGFSTLEEVAYVPVNELLEIDGLNEELVEELRSRAKDALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL---LGWSENKGGNI 481
               +  +E+L ++ G++ ++   L   G+ T+EDLA   VD+L    G +E + G +
Sbjct: 424 SFEGVEPAEDLLALEGLEREMAFKLAAKGVATLEDLADQGVDELEGIEGLTEERAGEL 481


>gi|212709946|ref|ZP_03318074.1| hypothetical protein PROVALCAL_00996 [Providencia alcalifaciens DSM
           30120]
 gi|212687458|gb|EEB46986.1| hypothetical protein PROVALCAL_00996 [Providencia alcalifaciens DSM
           30120]
          Length = 502

 Score =  370 bits (950), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 207/485 (42%), Positives = 315/485 (64%), Gaps = 11/485 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIDVRVEIDRKSGDFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEV   T +I+L+ A+  DP++ +G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEEVTMPTREITLEAAQFEDPALQLGEYVEDQIESVVFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F+++ GEII+  VK+V   N+ +DLGN ++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDQFREQQGEIITAQVKKVNRENITLDLGNNAEAVILREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           YDVR E RG Q+ ++R+ P+ +V+LF +EVPEI   I+++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YDVRPEARGAQLFVTRSRPEMLVELFRIEVPEIGEEIIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDNC 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLT-------GWTIDIITEEEDSINRQKDFNERT 359
            ++V V    L+ AIGR GQNVRLA+QL         W ++++T EE +   Q + +   
Sbjct: 304 TMDVAVESSNLAQAIGRNGQNVRLAAQLLKIHRGDDKWELNVMTAEELNAKHQAEAHASI 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + F + +++DE  A  LV EGF+ +EELA V I E+  I+G DEET   ++ RA+  L  
Sbjct: 364 ETFTKHLDIDEEFATTLVEEGFSTLEELAYVPIKELLEIDGLDEETVEVLRERAKAALTT 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSEN 476
           I++  ++ + +   +E+L ++ G+D  +   L  +GI T+EDLA   +DDL+   G +  
Sbjct: 424 IELAQKESLGDNQPAEDLLNLDGMDRTLAYNLATHGICTLEDLAEQGIDDLIDIEGLNNE 483

Query: 477 KGGNI 481
           K G +
Sbjct: 484 KAGEL 488


>gi|319944110|ref|ZP_08018388.1| N utilization substance A [Lautropia mirabilis ATCC 51599]
 gi|319742604|gb|EFV95013.1| N utilization substance A [Lautropia mirabilis ATCC 51599]
          Length = 496

 Score =  370 bits (949), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 205/473 (43%), Positives = 320/473 (67%), Gaps = 10/473 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL + DA+A EK++ RDVV + +  ++  A +  Y    DIRV I+ E G    FR  +
Sbjct: 5   ELLLMVDALAREKNVPRDVVFAALESALASAMKKRYKDEVDIRVAISREDGSYRGFRRWQ 64

Query: 68  VVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV   E++++  QI L  AR +DP I +   + + L  ++FGR+  Q+AKQVI+QK+R+A
Sbjct: 65  VVPDGELDDHDLQIILSEARKQDPDIQLEEFIEEELEEIEFGRIGAQAAKQVILQKIRDA 124

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F  +   ++SGT+KRV+    I++ G  +  + RD+ I +ENLR GDRV+++
Sbjct: 125 EREQIINDFLSRGDSLLSGTIKRVDREGAIIESGRIEARLPRDQMIPKENLRNGDRVRAW 184

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  + RE RGPQ+ LSRT P+F++KLF +EVPEI  G++Q++A +RDPG RAK+AV ++D
Sbjct: 185 VSRINREGRGPQLFLSRTAPEFIMKLFELEVPEIEQGLLQIRAAARDPGVRAKIAVHATD 244

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           S +DP+G CVG+RGSRVQAV  EL  E++DIV+WS D A FVI AL PA V+ +++DE+ 
Sbjct: 245 SRVDPIGTCVGVRGSRVQAVTQELAGERVDIVLWSEDPAQFVIGALAPANVSSILVDEER 304

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF---F 362
             ++V+V ++ L+LAIG  G+NVRLAS+LTGW I++++ EE   + +K  +ER      F
Sbjct: 305 HVMDVVVDEDNLALAIGTGGRNVRLASELTGWQINLMSAEE---SEKKQEDERAAIRGVF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+ ++VD  +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR  L    I
Sbjct: 362 MERLDVDAEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVNELRERARNALLTQAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSE 475
             ++K+ E   +++L S+ G+D ++ V L E  ++T +DLA  +VD+L+  +E
Sbjct: 422 ATEEKLNE--TADDLLSLEGMDRELAVKLAEANVRTRDDLAELAVDELIEITE 472


>gi|91792366|ref|YP_562017.1| transcription elongation factor NusA [Shewanella denitrificans
           OS217]
 gi|91714368|gb|ABE54294.1| NusA antitermination factor [Shewanella denitrificans OS217]
          Length = 499

 Score =  369 bits (948), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 195/482 (40%), Positives = 311/482 (64%), Gaps = 8/482 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK++ R+ +   +  ++  A +  Y    ++RV I+ +TG    FR   
Sbjct: 4   EILLVAEAVSNEKAVPREKIFEALEIALATATKKKYEGDIEVRVAIDRKTGHYDTFRRWM 63

Query: 68  VV----EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           VV    E +EN   +I+L+ AR  +P I+ G  + D +  + F R+  Q+AKQVI+QKVR
Sbjct: 64  VVDDQGEALENPYSEITLEAARYEEPGIEPGQYIEDQIDSVVFDRITTQTAKQVIVQKVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +   +F +K GEI++G VK+    NV+VDLGN +DGV+ +++ ISRE+ RPGDRV
Sbjct: 124 EAERAQVVEQFIEKEGEIVTGIVKKSSRENVVVDLGNNADGVLFKEDLISRESFRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ +Y VR E RG Q+ L+R+ P+ +++LF +EVPEIY+ ++++   +RDPG+RAK+AV 
Sbjct: 184 RALLYSVRPEARGAQLFLTRSKPEMLIELFRVEVPEIYDEMIEIMGAARDPGARAKIAVK 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A +VINA+ PA V  +++D
Sbjct: 244 SNDRRIDPIGACVGMRGARVQAVSNELGGERVDIVLWDENPAQYVINAMAPADVASIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLA+QLTGW ++++T E+ +   Q +  +    F
Sbjct: 304 EDNHSMDIAVEADSLAQAIGRNGQNVRLATQLTGWELNVMTVEDMNKKHQAESAKVIDLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           + A+ VD   A +L  EGF  +EE+A V  +E+ +I+GFD +    ++ RA+  +    +
Sbjct: 364 VSALEVDTDFATVLAEEGFTSLEEIAYVPEAELLAIDGFDSDIVETLRERAKAAISTRAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGG 479
             ++ +     SE+L ++ G++  +   L   G+ T+EDLA   +DDL+     +E K G
Sbjct: 424 ATEEALDGAEPSEDLLALEGLERHLAYVLASKGVVTLEDLAEQGIDDLIEIEELTEAKAG 483

Query: 480 NI 481
            +
Sbjct: 484 EL 485


>gi|145298043|ref|YP_001140884.1| transcription elongation factor NusA [Aeromonas salmonicida subsp.
           salmonicida A449]
 gi|142850815|gb|ABO89136.1| transcription elongation factor nusA [Aeromonas salmonicida subsp.
           salmonicida A449]
          Length = 500

 Score =  369 bits (948), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 194/467 (41%), Positives = 302/467 (64%), Gaps = 4/467 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DAV+ EK++ R+ +   +  ++  A +  Y    ++RVEI+ +TGD   +R   
Sbjct: 4   EILLVVDAVSNEKAVPREKIFQALETALATATKKKYEGEIEVRVEIDRKTGDYETYRRWV 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   +EN   +I+L+ A+   P I +G  V D +  + F R+  Q+AKQVI+QKVRE
Sbjct: 64  VVADQAAMENPYGEITLEAAQIEQPEIQLGDYVEDQIDSVTFDRITTQTAKQVIVQKVRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVK 183
           AER +   +FKDK G IISG VK+    NVI+DLG N++ VI RD+ + RE  RPGDR++
Sbjct: 124 AERSQVVDQFKDKEGTIISGVVKKSNRDNVILDLGSNAEAVIFRDDMLPRETFRPGDRIR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
             +Y VR E RG Q+ +SR+ P F+ +LF +EVPEI   ++++   +RDPGSRAK++V +
Sbjct: 184 GLLYAVRPEARGSQLFVSRSSPDFLKELFRIEVPEIGEEMIEIMGAARDPGSRAKISVKT 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  IDP+GAC+GMRG+RVQAV  EL  E+ DIV++  + A +VINA+ PA V  +++DE
Sbjct: 244 NDRRIDPIGACIGMRGARVQAVSAELSGERADIVLYDDNPAQYVINAMAPADVASIIVDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   +++ V    L+ AIGR GQNVRLASQLTGW ++++T E+     Q + +     F 
Sbjct: 304 DNHTMDIAVEAANLAQAIGRNGQNVRLASQLTGWELNVMTVEDMRSKHQAENDRILTLFT 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
            A+++D+  A LL+ EGF+ +EE+A V ++E+ +I+G DE+   E++ RA++ L    + 
Sbjct: 364 SALDIDDDFAGLLMEEGFSTLEEIAFVPVNELLAIDGLDEDMVEELRKRAKDVLTTKALA 423

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
            ++ +  +  SE+L ++ G+   +  AL   G+ T+EDLA   +DDL
Sbjct: 424 KEESLDGVEPSEDLLNLAGLGRDMAYALAARGVGTLEDLAEQGIDDL 470


>gi|300721537|ref|YP_003710812.1| transcription pausing L factor [Xenorhabdus nematophila ATCC 19061]
 gi|297628029|emb|CBJ88578.1| transcription pausing; L factor [Xenorhabdus nematophila ATCC
           19061]
          Length = 502

 Score =  369 bits (948), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 206/485 (42%), Positives = 315/485 (64%), Gaps = 11/485 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALEIALATATKKKYEQEIDVRVCIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV   T +I+L  A+  DP I++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVEEVTLPTREITLDAAKFEDPEIELGSYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F+++ GEI++  VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AMVVDQFREQQGEIVTAQVKKVNRENITLDLGNNAEAVILREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           YDVR E RG Q+ ++R+ P+ +V+LF +EVPEI   I+++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YDVRPEARGAQLFITRSRPEMLVELFRIEVPEIGEEIIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDNC 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLT-------GWTIDIITEEEDSINRQKDFNERT 359
            ++V V    L+ AIGR GQNVRLA+QL         W ++++T EE     Q + +   
Sbjct: 304 TMDVAVENSNLAQAIGRNGQNVRLAAQLLKKHRGDDKWELNVMTAEELQAKHQAEAHASI 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             F + +++DE  A +LV EGF+ +EELA V I+E+ ++EG DEE+   ++ RA+  L  
Sbjct: 364 DTFTKHLDIDEDFATVLVEEGFSTLEELAYVPINELLAVEGLDEESVEVLRERAKAALTT 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSEN 476
           +++  ++ + +   +E+L ++PG++  +   L  +GI T+EDLA   +DDL    G ++ 
Sbjct: 424 LELAQKESLSDQQPAEDLLNLPGMERTLAFNLAAHGICTLEDLAEQGIDDLSDIEGLNDE 483

Query: 477 KGGNI 481
           K G +
Sbjct: 484 KAGEL 488


>gi|225677161|ref|ZP_03788159.1| transcription elongation factor NusA [Wolbachia endosymbiont of
           Muscidifurax uniraptor]
 gi|225590785|gb|EEH12014.1| transcription elongation factor NusA [Wolbachia endosymbiont of
           Muscidifurax uniraptor]
          Length = 523

 Score =  369 bits (947), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 207/519 (39%), Positives = 330/519 (63%), Gaps = 30/519 (5%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           L++++ A  ++ +K +D DVV+  +  +I+  A   YG+ S I V I+  TG ++ +R L
Sbjct: 22  LDVIKTAGELSLQKGLDFDVVIKALESAIEAVAYQKYGSKSKIVVNIDRNTGKVTSYRKL 81

Query: 67  EVVEEVEN------YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +V+++  N      Y   I+L  A+       IG  VS+ L  ++    + + A+Q I Q
Sbjct: 82  KVIDDESNREENTEYES-ITLTQAKLIKEDAKIGDTVSELLS-LNTDLASARIAQQKIAQ 139

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
            +++ E  +QY EFKDKVGEI  G VK+VEY ++I+D+  +   +        E+ R GD
Sbjct: 140 IIKDEESKKQYEEFKDKVGEIRYGIVKQVEYSDLIIDINGTKAYLPLRNLTGGESFREGD 199

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           +VK+YI  V+R   G Q++LSRTH  F+  L + E+PEI +G+V +K ++RD GSR+K+A
Sbjct: 200 KVKTYIQTVKRSDDGRQIILSRTHEGFLEALLNQEIPEIADGLVTIKGIARDAGSRSKVA 259

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           VFS D +IDPVGACVG++G R++ ++ EL  EKID++ +S D   FVI A+ PA V+KV+
Sbjct: 260 VFSPDKNIDPVGACVGVKGDRIKTIIHELNGEKIDVINYSSDLGQFVIKAITPAEVSKVI 319

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DE+   IE+IV ++QLSLAIG++GQNVRLAS+L GW I+I++ +++S  R K+ ++ + 
Sbjct: 320 IDENENCIELIVAEDQLSLAIGKKGQNVRLASELVGWKIEILSTQQESERRSKELSQCSA 379

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F +A+N++EI+  LLV EGF+ VE+++   I E+ASIEGF+E+ A E+  RA +YL+  
Sbjct: 380 LFAEALNLEEIMGQLLVTEGFSSVEDISSASIKELASIEGFNEDIANELHNRANKYLKAE 439

Query: 421 DITLQKKIRELGVSEELCSIP-GIDSKIKVALGENGIKTMEDLAG------CSVDDLLGW 473
           +    ++++ LG+ +++ ++   ID+KI  AL ++ IKT+ED+A       CS+   L  
Sbjct: 440 NDRKIEELKSLGMEDDVINLTLSIDNKI--ALSKHDIKTLEDIADLSSYEFCSI---LSS 494

Query: 474 SENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
           S +   N E            KD V+S+II AR K+G I
Sbjct: 495 SADNKMNSENL----------KDTVDSIIIEARKKLGLI 523


>gi|78485466|ref|YP_391391.1| NusA antitermination factor [Thiomicrospira crunogena XCL-2]
 gi|78363752|gb|ABB41717.1| NusA antitermination factor [Thiomicrospira crunogena XCL-2]
          Length = 495

 Score =  369 bits (947), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 193/469 (41%), Positives = 302/469 (64%), Gaps = 5/469 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + + ++ EK ++++++   +  ++  A R  +    D RV I+  TGD   FR  E
Sbjct: 4   EVLAVVEIMSNEKGVEKEIIFEAIEAALATATRKSHNDEIDARVSIDRHTGDYETFRRWE 63

Query: 68  VVE---EVENYT-CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           V+E   E+E++    I    A D +P I+ G  + +P+  ++FGR+  Q+AKQVIIQKVR
Sbjct: 64  VIEDDVEIEDHVGWYIRHMDAVDIEPHIEPGEFIEEPMESIEFGRIGAQTAKQVIIQKVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER +   E+  ++GEI++G VKR++ G+VI+DLG N D VI R E I+REN + GDRV
Sbjct: 124 EAERKKVVEEYSKRIGEILTGQVKRIDRGDVILDLGDNVDAVIPRSELINRENFKMGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++Y+ DV    RGPQ+ +SR   + +++LF +EVPEI + ++ + + +RD G RAK+AV 
Sbjct: 184 RAYVQDVSFRPRGPQIFMSRACKEMLMELFKIEVPEIGDDLIDIMSAARDVGLRAKVAVR 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           ++D  +DP+GACVGMRG RVQAV  EL  E+IDI++W  + A FVINA+ PA VT +++D
Sbjct: 244 ANDPRLDPIGACVGMRGGRVQAVTNELNGERIDIILWDSNDAQFVINAMAPAEVTSIMVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  EQLS AIG+ GQN+RLA++LTGW +++++E + +   + +   +   F
Sbjct: 304 EDKHTMDLAVDDEQLSQAIGKNGQNIRLATELTGWELNVMSETDMAAKHETESKGQMDLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           +  + VDE +A +LVAEGF  +EE+A V  +E+  IEGFDEE    ++ RA++ L    I
Sbjct: 364 VNGLEVDEELAEVLVAEGFTTLEEVAYVPAAEMLEIEGFDEEIVAALKERAKDALLTQAI 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
             ++K      +++L  + G+  ++   L   GI T EDLA    D+LL
Sbjct: 424 ANEEKTAMAEPAQDLLDLEGMTEEMAKTLASKGIITQEDLAELGTDELL 472


>gi|42521112|ref|NP_967027.1| transcription elongation factor NusA [Wolbachia endosymbiont of
           Drosophila melanogaster]
 gi|42410853|gb|AAS14961.1| N utilization substance protein A [Wolbachia endosymbiont of
           Drosophila melanogaster]
          Length = 520

 Score =  369 bits (947), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 203/512 (39%), Positives = 329/512 (64%), Gaps = 19/512 (3%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           L++++ A  ++ +K +D DVV+  +  +I+  A   YG+ S I V+I+  TG ++ +R L
Sbjct: 22  LDVIKTAGELSLQKGLDFDVVIKALESAIEAVAHQKYGSKSKIVVDIDRNTGKVTSYRKL 81

Query: 67  EVVE----EVENYTCQ-ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +V++    E EN  C+ I+L  A+       +G  VS+ L  ++    + + A+Q I Q 
Sbjct: 82  KVIDDESNEKENTECESITLTQAKLIKGDAKVGDTVSELLS-LNTDLASARIAQQKIAQV 140

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +++ E  +QY EFKDKVGEI  G VK+VEY ++I+D+  +   +        E+ R GD+
Sbjct: 141 IKDEESKKQYEEFKDKVGEIRYGIVKQVEYSDLIIDINGTRAYLPLRNLTGGESFREGDK 200

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           VK+YI  V+    G Q++LSRTH  F+  L + E+PEI +G+V +K ++RD GSR+K+AV
Sbjct: 201 VKAYIQTVKHSDDGRQIILSRTHEGFLEALLNQEIPEIADGLVTIKGIARDAGSRSKVAV 260

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           FS D +IDPVGACVG++G R++ ++ EL  EKID++ +S D   FVI A+ PA V+KV++
Sbjct: 261 FSPDKNIDPVGACVGVKGDRIKTIIHELNGEKIDVINYSSDLGQFVIKAITPAEVSKVII 320

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+   IE+IV ++QLSLAIG++GQNVRLAS+L GW I+I++ +++S  R K+ ++ +  
Sbjct: 321 DENENCIELIVAEDQLSLAIGKKGQNVRLASELVGWKIEILSTQQESERRSKELSQCSAL 380

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F +A+N++EI+  LLV EGF+ VE+++   I E+ASIEGF+E+ A E+  RA +YL+  +
Sbjct: 381 FAEALNLEEIMGQLLVTEGFSSVEDISSASIKELASIEGFNEDIANELHNRANKYLKAEN 440

Query: 422 ITLQKKIRELGVSEELCSIP-GIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
               ++++ LG+ +++ ++   ID+KI  AL ++ IKT+ED+A  S  +      +   +
Sbjct: 441 DRKIEELKSLGMEDDVINLTLSIDNKI--ALSKHDIKTLEDIADLSSYEFCSILSSSSDS 498

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
            E            KD V+S+II AR K+G I
Sbjct: 499 KEDL----------KDTVDSIIIEARKKLGLI 520


>gi|268592826|ref|ZP_06127047.1| L factor [Providencia rettgeri DSM 1131]
 gi|291311611|gb|EFE52064.1| L factor [Providencia rettgeri DSM 1131]
          Length = 502

 Score =  369 bits (946), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 206/485 (42%), Positives = 314/485 (64%), Gaps = 11/485 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIDVRVEIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEV   T +I+L+ A+  DP++ +G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEEVTMPTREITLEAAQYEDPALQLGEYVEDQIESVVFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F+++ GEII+  VK+V   N+ +DLGN ++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDQFREQQGEIITAQVKKVNRENITLDLGNNAEAVILREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           YDVR E RG Q+ ++R+ P+ +++LF +EVPEI   I+++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YDVRPEARGAQLFVTRSRPEMLIELFRIEVPEIGEEIIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKC 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLT-------GWTIDIITEEEDSINRQKDFNERT 359
            ++V V    L+ AIGR GQNVRLA+QL         W ++++T EE +   Q + +   
Sbjct: 304 TMDVAVESSNLAQAIGRNGQNVRLAAQLLKKHRGDDKWELNVMTAEELNAKHQAEAHASI 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             F + +++DE  A  LV EGF+ +EELA V I+E+  I+G DEET   ++ RA+  L  
Sbjct: 364 DTFTKHLDIDEEFATALVEEGFSTLEELAYVPINELLEIDGLDEETVEVLRERAKAALTT 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSEN 476
           I++  ++ + +   +E+L ++ G+D  +   L   GI T+EDLA   +DDL+   G  + 
Sbjct: 424 IELAQKESLGDNQPAEDLLNLEGMDRTLAYNLATRGICTLEDLAEQGIDDLIDIEGLDDE 483

Query: 477 KGGNI 481
           K G +
Sbjct: 484 KAGTL 488


>gi|301063436|ref|ZP_07203968.1| transcription termination factor NusA [delta proteobacterium
           NaphS2]
 gi|300442375|gb|EFK06608.1| transcription termination factor NusA [delta proteobacterium
           NaphS2]
          Length = 474

 Score =  369 bits (946), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 192/410 (46%), Positives = 271/410 (66%), Gaps = 4/410 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L ++ D V+ EK +D+ V++  + ++++ AAR  YG   D+ V  N E G++  F   E
Sbjct: 4   DLRKVIDQVSREKGVDQAVLIGALEEAVKAAARKKYGNEYDLEVIYNEEMGEVEAFEFKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEE EN   QISLK A + DP  +IG  +   + P  FGR+A QSAKQVI+Q+++EAER
Sbjct: 64  VVEETENPNLQISLKEALELDPETEIGDSLGIKMDPDTFGRIAAQSAKQVIMQRLKEAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           D  Y +F D+ GEI++G V+R + G++IV+LG ++  +   E I RE+ + GDRV++YI 
Sbjct: 124 DIVYDDFIDRRGEIVNGIVQRFDRGSIIVNLGRAEAELPHKEQIPRESYKQGDRVRAYIL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           DVR+  RGPQ++LSRTHP  +  LF  EVPEI  GIVQ+  V+R+PG RAK+AV S D  
Sbjct: 184 DVRKISRGPQIILSRTHPNIVAILFENEVPEISEGIVQIIQVAREPGGRAKIAVSSKDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGM+G RVQAVV ELR EKIDIV W PDSA F+ NAL PA +T+V++DED   
Sbjct: 244 VDPVGACVGMKGRRVQAVVQELRGEKIDIVTWDPDSAKFICNALAPAEITRVIVDEDNHS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           +EV+VP +QLSLAIG+RGQNVRLA++LTGW +D++ E + +   +  F    +  +    
Sbjct: 304 MEVVVPDDQLSLAIGKRGQNVRLAAKLTGWRLDVVGETKYNETLKDGF----RSLLDLNG 359

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
           V E IA  L    F    ++A   + ++  ++G  +E A  +   A  YL
Sbjct: 360 VGEKIATELYDADFRSARDIAGSTVEDLMVVKGISQEKAEALIAEANAYL 409


>gi|254428350|ref|ZP_05042057.1| NusA N-terminal domain family [Alcanivorax sp. DG881]
 gi|196194519|gb|EDX89478.1| NusA N-terminal domain family [Alcanivorax sp. DG881]
          Length = 502

 Score =  368 bits (945), Expect = 1e-99,   Method: Compositional matrix adjust.
 Identities = 199/482 (41%), Positives = 318/482 (65%), Gaps = 8/482 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS-DIRVEINPETGDISLFRLL 66
           E+L +A+ V+ EK + RDV+   +  ++  A +  +     +IRV+I+  +G+   FR+ 
Sbjct: 4   EILLVAETVSNEKGVSRDVIFEAIELALAAATKKRFKQEDVEIRVDIDRVSGNAKSFRVW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
            VV  EE+  +  Q++L  A ++D S+ IG +  + +    FGR+A Q+AKQVI+QKVRE
Sbjct: 64  HVVPDEELYEFGKQLTLDEAHEQDTSLQIGDIWEEEVESEAFGRIAAQTAKQVIVQKVRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVK 183
           AER +   E++D++G+++SGTVK+    ++I+DLG N++ +I R+  I RE +R  DR++
Sbjct: 124 AERRQIVEEYRDRIGDLVSGTVKKASRDSIILDLGGNAEALITREHMIPREAVRQNDRIR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           +Y+  V  E RGPQ+  SR  P  +++LF +EVPEI   ++++K  +RDPGSRAK+AV +
Sbjct: 184 AYLLGVNEENRGPQLFASRACPDMLIELFKIEVPEIGEELIEIKGAARDPGSRAKIAVKT 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A  VINA++PA V  +V+DE
Sbjct: 244 NDQRIDPVGACVGMRGARVQAVSNELAGERIDIVLWDDNPAQLVINAMQPAEVASIVMDE 303

Query: 304 DVGRIEVIVPKEQ-LSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           +   +++ V  E  L+ AIGR GQN+RLAS+LTGW ++++T ++    ++++  +  Q F
Sbjct: 304 ESHSMDIAVEDESALAQAIGRSGQNIRLASELTGWELNVMTIDDAETKQEEEAEQALQTF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           +  ++VDE +A +LV EGF+ +EE+A V   E+ +I+GFDEE    ++ RA++ L    +
Sbjct: 364 INELDVDEDVAGVLVDEGFSTLEEVAYVPEEEMLAIDGFDEEIVELLRQRAKDALLTKAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGG 479
             ++K  +   +E+L ++ G+D ++ V L   GI TMEDLA  +VDDLL   G SE +  
Sbjct: 424 VSEEKFEQAEPAEDLLNMEGMDRELAVELASRGIVTMEDLAEQAVDDLLEIEGLSEERAA 483

Query: 480 NI 481
            +
Sbjct: 484 EL 485


>gi|83644100|ref|YP_432535.1| transcription elongation factor NusA [Hahella chejuensis KCTC 2396]
 gi|83632143|gb|ABC28110.1| N utilization substance protein A [Hahella chejuensis KCTC 2396]
          Length = 497

 Score =  368 bits (944), Expect = 1e-99,   Method: Compositional matrix adjust.
 Identities = 195/472 (41%), Positives = 314/472 (66%), Gaps = 4/472 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFRLL 66
           E+L + +AV+ EK +D+DV+   +  ++  A +  Y    +DIRV+I+ +TG+   FR  
Sbjct: 4   EILLVVEAVSNEKGVDKDVIFEAIELALATATKKRYEDEEADIRVDIDRKTGEYQAFRRW 63

Query: 67  EVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
            VV+   V     +++L+   +    +  G    + +  + FGR+  Q+AKQ+I+QKVRE
Sbjct: 64  LVVDNDAVPALGTELTLEEVHESGLDLKPGDTHEEEVEAVAFGRIGAQAAKQIIVQKVRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVK 183
           AER +    +++KVG++++G VK+V   N+IVDLG N++ ++ +D+ ISRE  R GDRV+
Sbjct: 124 AERTKIVDSYREKVGDLVNGVVKKVTRDNIIVDLGANAEALLPKDQLISRETYRVGDRVR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           + + D+R + RGPQ++LSR   Q +++LF +EVPEI   ++++KA +RDPGSRAK+AV +
Sbjct: 184 ALLLDIRMDNRGPQLILSRACSQMLIELFRIEVPEIAEEVIEIKAAARDPGSRAKIAVKT 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  IDPVGACVGMRGSRVQAV +EL +E+IDIV+W  + A  VINA+ PA V  +++DE
Sbjct: 244 NDGRIDPVGACVGMRGSRVQAVSSELGNERIDIVLWDDNPAQLVINAMAPAEVASIIMDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   ++V V ++ L++AIGR GQNV+LAS++TGW I+++TEE+    ++++F      F+
Sbjct: 304 DSHTMQVAVSEDNLAMAIGRSGQNVKLASEMTGWEINVLTEEQAGQQQEEEFRRYVDCFI 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
             + V+E +A +L +EGF  +EE+A V + E+ +I+ FDE+   E++ RA+  L    + 
Sbjct: 364 DQLGVEEDLAEVLASEGFTSLEEVAYVPMEEMLAIDDFDEDLVTELRKRAKNVLINQALA 423

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSE 475
            ++++ +   +E+L ++ G+D  +   L   GI TMEDLA  SVDDLL   E
Sbjct: 424 SEEQLEKAEPAEDLLNMEGMDRHLAFVLASKGIVTMEDLAEQSVDDLLDIDE 475


>gi|119944578|ref|YP_942258.1| NusA antitermination factor [Psychromonas ingrahamii 37]
 gi|119863182|gb|ABM02659.1| NusA antitermination factor [Psychromonas ingrahamii 37]
          Length = 499

 Score =  368 bits (944), Expect = 1e-99,   Method: Compositional matrix adjust.
 Identities = 188/468 (40%), Positives = 304/468 (64%), Gaps = 4/468 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK + R+ +   +  ++  A +  Y    ++RVEI+ E+G    FR   
Sbjct: 4   EILLVVEAVSNEKGLPREAIFQALESALAIATKKKYENDIEVRVEIDRESGKFDTFRRWL 63

Query: 68  VVE---EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           V+E   ++EN   +++ + A    P I +G  + D +  + F R+  Q+AKQVI+QKVRE
Sbjct: 64  VLEPDAKMENPCKEMTFEAAEYETPEIKVGDYIEDEIESVTFDRITTQTAKQVIVQKVRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVK 183
           AER +   ++ ++ GE+I+G VKR+   N+++DLG N++ VI RDE + REN RPGDR++
Sbjct: 124 AERAQVVAQYAEQEGELITGIVKRMNRDNILLDLGGNAEAVIFRDEMLPRENFRPGDRLR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
             ++ VR E RG Q+ ++RT P+ +++LF +EVPEI   ++ +   +RDPGSRAK+AV S
Sbjct: 184 GLLFAVRPEARGAQLFVTRTQPEMLIELFRLEVPEIAEEMIDLMGAARDPGSRAKIAVKS 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  IDPVGACVGMRG+RVQAV +EL  E++DI++W  + A + INA+ PA V  VV+DE
Sbjct: 244 NDKRIDPVGACVGMRGARVQAVSSELGGERVDIILWDENPAQYAINAMSPADVVSVVIDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   +++ V ++ L+ AIGR GQNVRLASQLTGW ++++T  +     Q +       F 
Sbjct: 304 DAHSMDIAVEEDNLAQAIGRNGQNVRLASQLTGWELNVMTVVQLREKHQAEAASVISVFT 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
           +A+ +DE  A +LV EGF+ +EE+A V ++E+ +I+G DE    E++ RA+++L    + 
Sbjct: 364 EALEIDEEFAAVLVEEGFSSLEEIAYVPLNELLAIDGLDEALIDELRVRAKDFLATKALV 423

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
            ++ + +   +++L ++ G++  +   L   GI T+E+LA  +VDDLL
Sbjct: 424 DEEGLEDTKPADDLLALEGLEGHLAYVLASKGIITLENLAEQAVDDLL 471


>gi|290473446|ref|YP_003466313.1| transcription pausing; L factor [Xenorhabdus bovienii SS-2004]
 gi|289172746|emb|CBJ79517.1| transcription pausing; L factor [Xenorhabdus bovienii SS-2004]
          Length = 502

 Score =  368 bits (944), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 206/485 (42%), Positives = 314/485 (64%), Gaps = 11/485 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALEIALATATKKKYEQEIDVRVCIDRKSGDFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VEEV   T +I+L+ A+  DP +++GG + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  AVEEVTLPTREITLEAAKYEDPEMELGGYIEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F+++ GEI++  VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AMVVDQFREQQGEIVTAQVKKVNRENITLDLGNNAEAVILREDMLPRENFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           YDVR E RG Q+ ++R+ P+ +V+LF +EVPEI   I+++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YDVRPEARGAQLFITRSRPEMLVELFRIEVPEIGEEIIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDNC 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLT-------GWTIDIITEEEDSINRQKDFNERT 359
            ++V V    L+ AIGR GQNVRLA+QL         W ++++T EE     Q + +   
Sbjct: 304 TMDVAVESSNLAQAIGRNGQNVRLAAQLLKKHRGDDKWELNVMTAEELQAKHQAEAHASI 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             F + +++D   A +LV EGF+ +EELA V I+E+ +IEG DEET   ++ RA+  L  
Sbjct: 364 DTFTKHLDIDVDFATVLVEEGFSTLEELAYVPINELLAIEGLDEETVEVLRERAKAALTT 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSEN 476
           +++  ++ + +   +E+L ++ G+D  +   L  +GI T+EDLA   +DDL    G S+ 
Sbjct: 424 LELAQKESLGDQQPAEDLLNLSGMDRTLAFNLAAHGICTLEDLAEQGIDDLSDIEGLSDE 483

Query: 477 KGGNI 481
           K G +
Sbjct: 484 KAGEL 488


>gi|119470821|ref|ZP_01613432.1| transcription elongation factor NusA [Alteromonadales bacterium
           TW-7]
 gi|119446048|gb|EAW27327.1| transcription elongation factor NusA [Alteromonadales bacterium
           TW-7]
          Length = 499

 Score =  367 bits (943), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 187/474 (39%), Positives = 313/474 (66%), Gaps = 6/474 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR--- 64
           E+L +A+AV+ EK++ ++ +   +  ++  A +  +    ++RV I+ +TGD   FR   
Sbjct: 4   EILLVAEAVSNEKAVPKEKIFEALEFALATATKKKHDGEIEVRVSIDRKTGDYDTFRRWQ 63

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           + EV+E+  +EN   +I+L+ A+  +P + +G  V + +  + F R+  Q AKQVI+QKV
Sbjct: 64  IAEVLEDGSLENPYSEITLEAAQVEEPDLQLGDFVEEQIDSIKFDRITTQMAKQVIVQKV 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDR 181
           REAER      +KD+VGE+++G VK+    ++++DLGN ++ VI RD+ + REN RPGDR
Sbjct: 124 REAERALVVDAYKDQVGELVTGVVKKATRDSIVLDLGNNAEAVIYRDDMLPRENFRPGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++  +Y+V+ E RG Q+ ++R+ P+ +++LF +EVPEI   +++++A +RDPGSRAK+AV
Sbjct: 184 IRGLLYEVKPEARGAQLFVTRSKPEMLMELFRIEVPEIGEEMIELRAAARDPGSRAKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+D  IDP+GACVGMRG+RVQAV +EL  E++DIV++  + A FVINA+ PA V  +VL
Sbjct: 244 KSNDKRIDPIGACVGMRGARVQAVSSELGGERVDIVLYDDNPAQFVINAMSPAEVASIVL 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   +++ V  + L+ AIGR GQNVRLASQLTGW ++++T +E     + + ++    
Sbjct: 304 DEDTHSMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVDEMRTKNEAESDKLLNL 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + +++D+  A LL+ EGF+ +EE+A V  SE   I+G DEET   ++ RA++ L    
Sbjct: 364 FTENLDIDDEFATLLINEGFSTLEEVAYVPASEFLEIDGLDEETVDVLRSRAKDALTTKA 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSE 475
           +  ++ +     +E+L ++ G++  +   +   G+ T+EDLA   +D+L+  +E
Sbjct: 424 LKTEESLEGAEPAEDLLALEGLERHLAFVMASKGVVTLEDLAEQGIDELVDITE 477


>gi|127513756|ref|YP_001094953.1| transcription elongation factor NusA [Shewanella loihica PV-4]
 gi|126639051|gb|ABO24694.1| NusA antitermination factor [Shewanella loihica PV-4]
          Length = 499

 Score =  367 bits (943), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 194/467 (41%), Positives = 304/467 (65%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK++ R+ +   +  ++  A +  Y    ++RV I+ +TG+   FR   
Sbjct: 4   EILLVAEAVSNEKAVPREKIFEALEIALATATKKKYEGDIEVRVAIDRKTGEYETFRRWM 63

Query: 68  VVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           VVE+    +EN   +I+L+ AR  +P I +G  + D +  + F R+  Q+AKQVI+QKVR
Sbjct: 64  VVEDEGQALENPFREITLEAARYENPEIQVGEYIEDEIESVVFDRITTQTAKQVIVQKVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +   +F +K GE+I+G VK+    +V+VDLGN +D V+ +++ ISRE+ RPGDRV
Sbjct: 124 EAERAQIVDQFLEKEGELITGVVKKSNRESVVVDLGNNADAVLFKEDLISRESFRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ +Y VR E RG Q+ L+RT P  +++LF +EVPEI + ++++   +RDPGSRAK+AV 
Sbjct: 184 RALLYAVRPEARGAQLFLTRTKPDMLIELFRVEVPEIADEMIEIMGAARDPGSRAKIAVK 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 244 SNDRRIDPIGACVGMRGARVQAVSNELGGERVDIVLWDDNPAQFVINAMAPADVASIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLA+QL+GW ++++T E+     Q +  +    F
Sbjct: 304 EDNHSMDIAVEADSLAQAIGRNGQNVRLATQLSGWELNVMTVEDMQAKHQAESAKIVNLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           + A++VDE  A +L  EGF  +EE+A V  SE+  I+GFDEE    ++ RA+  +    +
Sbjct: 364 VSALDVDEDFAQVLADEGFTSLEEVAYVPESELLEIDGFDEEIVEALRERAKAAISTRAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDD 469
             ++ +     SE+L ++ G++  +   L   G+ T+EDLA   +DD
Sbjct: 424 ASEEALDGAEPSEDLLALEGLERHLAYVLASKGVITLEDLAEQGIDD 470


>gi|261345162|ref|ZP_05972806.1| L factor protein [Providencia rustigianii DSM 4541]
 gi|282566853|gb|EFB72388.1| L factor protein [Providencia rustigianii DSM 4541]
          Length = 502

 Score =  367 bits (943), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 205/485 (42%), Positives = 313/485 (64%), Gaps = 11/485 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RVEI+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIEVRVEIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +V+EV   T +I+L  A+  DP + +GG V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVDEVTMPTREITLDAAQFEDPELQLGGYVEDQIESVVFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F+++ GEII+  VK+V   N+ +DLGN ++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDQFREQQGEIITAQVKKVNRENITLDLGNNAEAVILREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           YDVR E RG Q+ ++R+ P+ +++LF +EVPEI   I+++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YDVRPEARGAQLFVTRSRPEMLIELFRIEVPEIGEEIIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDNC 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLT-------GWTIDIITEEEDSINRQKDFNERT 359
            ++V V    L+ AIGR GQNVRLA+QL         W ++++T EE +   Q + +   
Sbjct: 304 TMDVAVESSNLAQAIGRNGQNVRLAAQLLKIHRGDDKWELNVMTAEELNAKHQAEAHASI 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + F + +++DE  A  LV EGF+ +EELA V I E+  I+G DEET   ++ RA+  L  
Sbjct: 364 ETFTKHLDIDEEFATTLVEEGFSTLEELAYVPIKELLEIDGLDEETVEVLRERAKAALTT 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSEN 476
           I++  ++ + +   +E+L ++ G+D  +   L   GI T+EDLA   +DDL+   G +  
Sbjct: 424 IELAQKESLGDNQPAEDLLNLDGMDRTLAYNLATRGICTLEDLAEQGIDDLIDIEGLNNE 483

Query: 477 KGGNI 481
           K G +
Sbjct: 484 KAGEL 488


>gi|293604237|ref|ZP_06686645.1| N utilization substance A [Achromobacter piechaudii ATCC 43553]
 gi|292817462|gb|EFF76535.1| N utilization substance A [Achromobacter piechaudii ATCC 43553]
          Length = 492

 Score =  367 bits (942), Expect = 3e-99,   Method: Compositional matrix adjust.
 Identities = 208/483 (43%), Positives = 308/483 (63%), Gaps = 15/483 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++ RDVV   +  ++  A +  +   +DIRV I+ ETGD   FR   
Sbjct: 4   EILLLVDALAREKNVTRDVVFGALESALASAMKKRFKDDADIRVAIDRETGDHEGFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    Q  L  A++  P I  G  + +PL P++FGR+  Q+AKQ I+QK+R+
Sbjct: 64  VVPDEAGLQEPDKQEMLSDAQEIVPDIQEGEYIEEPLEPIEFGRIGAQAAKQAILQKIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F D+   I+SGT+KR++ G+ IV+ G  +  + R E I +ENLR  DRV++
Sbjct: 124 AEREQVLNDFLDRGETIVSGTIKRMDKGDAIVETGKIEARLPRSEMIPKENLRVADRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+  V    RG QV+LSRT P+F+ +LF  EVPEI  G++++KA +RD G RAK+AV + 
Sbjct: 184 YVLRVDHAARGQQVILSRTSPEFIRQLFENEVPEIEQGLLEIKAAARDAGVRAKIAVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVGMRGSRV AV  EL  E++DIV+WS D A FVI AL PA V  +V+DED
Sbjct: 244 DKRIDPIGTCVGMRGSRVTAVRNELGGEQVDIVLWSEDPAQFVIGALAPANVESIVVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF--- 361
              ++V+V +E L  AIG +GQNVRLAS+LTGW I+I+T EE S+NRQ+   ER+     
Sbjct: 304 KHAMDVVVDEENLPKAIGAKGQNVRLASELTGWQINIMTPEE-SLNRQE--VERSGLRTT 360

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM  ++VDE +A +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RAR  L    
Sbjct: 361 FMSKLDVDEEVADILIDEGFTGIEEIAYVPMQELLEIEAFDEDTINELRARARNALLTEA 420

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL---LGWSENKG 478
           I  +++   L  +++L  + G+  ++   L E  + T +DLA  + D+L    G +E + 
Sbjct: 421 IAQEER---LETAQDLLELEGMTQELAAKLAERQVHTRDDLAELATDELAEIAGLTEQEA 477

Query: 479 GNI 481
            ++
Sbjct: 478 SDL 480


>gi|329915249|ref|ZP_08276237.1| Transcription termination protein NusA [Oxalobacteraceae bacterium
           IMCC9480]
 gi|327544954|gb|EGF30295.1| Transcription termination protein NusA [Oxalobacteraceae bacterium
           IMCC9480]
          Length = 519

 Score =  367 bits (942), Expect = 3e-99,   Method: Compositional matrix adjust.
 Identities = 197/466 (42%), Positives = 302/466 (64%), Gaps = 5/466 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+D+V   +  ++ +A +  Y    DIRV I+ +TG    FR   
Sbjct: 4   EVLLLVDALAREKNVDKDIVFGALEHALSQATKKRYEGDVDIRVTIDRDTGLFESFRRWH 63

Query: 68  VVEEVENYTC---QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +         +I    A ++   I++   + +P+  +DFGR   Q  KQV++Q++R+
Sbjct: 64  VVPDEAGLQLPDQEILHFEALEQISDIEVDDHIEEPIESVDFGRRFAQDTKQVVLQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F ++   +++GT+KR+E G+ IV+ G  +  + RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILQDFLERGDSMVTGTIKRMERGDAIVESGKIEARLPRDQMIPKENLRIGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           +I  V R  RGPQV+LSRT P+F++KLF +EVPEI  G++ +K+ +RD G RAK+AVF+S
Sbjct: 184 FILRVDRNARGPQVILSRTSPEFIMKLFELEVPEIEQGLLIIKSAARDAGVRAKIAVFTS 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVGMRGSRVQAV  EL  E++DIV+WS D A FVI AL PA V+ +V+DE+
Sbjct: 244 DKRIDPIGTCVGMRGSRVQAVTGELGGERVDIVLWSEDPAQFVIGALAPANVSSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLA++LT W I+I+T EE +     +       FM 
Sbjct: 304 KHAMDVVVDEENLAIAIGRGGQNVRLAAELTNWQINIMTAEESASKSANETAAIRALFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VD+ +A +LV EGFA +EE+A V ISE+  IE FDE+T  E++ RAR+ L    I  
Sbjct: 364 KLDVDQEVADILVDEGFASLEEIAYVPISEMLEIESFDEDTVNELRTRARDALVTEAIAS 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           ++ +   G+ + L ++ G+D      LG  G+KT+   +G + D+ 
Sbjct: 424 EEGLE--GMDDALATMEGMDRVTAGKLGLAGVKTLAAFSGLAYDEF 467


>gi|332283701|ref|YP_004415612.1| transcription elongation protein [Pusillimonas sp. T7-7]
 gi|330427654|gb|AEC18988.1| transcription elongation protein [Pusillimonas sp. T7-7]
          Length = 494

 Score =  367 bits (941), Expect = 3e-99,   Method: Compositional matrix adjust.
 Identities = 212/514 (41%), Positives = 323/514 (62%), Gaps = 30/514 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++ R+VV   + +++  A +  +   +DIRV I+  +G+   FR   
Sbjct: 4   EILLLVDALAREKNVGREVVFGALENALASAMKKRFKEDADIRVTIDRMSGEHEGFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    Q  L  A++  P I++G  + + L P +FGR+  Q+AKQ I+QK+R+
Sbjct: 64  VVPDDAGLQEPDQQELLSDAQEIVPGIEVGEYIEEQLEPEEFGRIGAQAAKQAILQKIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F ++   IISGTVKR++ G+ I++ G  +  + R ETI +EN+R GDR+++
Sbjct: 124 AEREQVLNDFLERGENIISGTVKRMDKGDAIIETGKIEARLPRSETIPKENIRIGDRIRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           ++  V    RG QV+LSRT P F+ +LF  EVPEI  G++++KA +RDPG RAK+AV + 
Sbjct: 184 WVLKVDHTARGQQVILSRTAPDFIRQLFENEVPEIEQGLLEIKAAARDPGVRAKIAVIAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVGMRGSRV AV  EL  E++DIV+W+ D A FVI AL PA V  +V+DED
Sbjct: 244 DKRIDPIGTCVGMRGSRVTAVRNELGGEQVDIVLWAEDPAEFVIGALAPAHVDSIVVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT---QF 361
              ++V+V  E L  AIG RGQNVRLAS+LTGW I+I+T EE S NRQ++  ERT   Q 
Sbjct: 304 KHAMDVVVDAENLPKAIGARGQNVRLASELTGWQINIMTPEE-SQNRQEE--ERTGLRQA 360

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F+  ++VDE +A +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RAR  L    
Sbjct: 361 FITKLDVDEEVADILIDEGFTGLEEIAYVPLQELLEIEAFDEDTINELRTRARNALLTEA 420

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           I  +++++   V+++L  + G++ ++   L EN + T++DLA  + D+L   S       
Sbjct: 421 IAQEERVQ--TVAQDLLEVEGMNPELVAKLAENEVLTLDDLAELATDELAEIS------- 471

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                     G  +D+   MI+ AR    W ++E
Sbjct: 472 ----------GMSEDEASQMIMRARAH--WFDEE 493


>gi|190571750|ref|YP_001976108.1| N utilization substance protein A [Wolbachia endosymbiont of Culex
           quinquefasciatus Pel]
 gi|213019234|ref|ZP_03335041.1| N utilization substance protein A [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
 gi|190358022|emb|CAQ55491.1| N utilization substance protein A [Wolbachia endosymbiont of Culex
           quinquefasciatus Pel]
 gi|212995343|gb|EEB55984.1| N utilization substance protein A [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
          Length = 517

 Score =  367 bits (941), Expect = 3e-99,   Method: Compositional matrix adjust.
 Identities = 202/513 (39%), Positives = 330/513 (64%), Gaps = 24/513 (4%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           L++++ A  ++ +K +D +++++ +  +I+  A+  YG+ S I V I+  TG ++ +R L
Sbjct: 22  LDVIKTAGELSLQKGLDFNIIINALKSAIEAVAQQKYGSKSKIVVNIDRNTGKVTSYRQL 81

Query: 67  EVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           +V+  E  EN    I L  A+       +G  +S+ L  ++   V+ + A+Q I + ++ 
Sbjct: 82  KVINDESNENECDLIKLTQAKLIKEDAKVGDTISE-LISLNTDLVSARIAQQKISEIIKN 140

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
            E  +QY EFKDKVGE+  G VK+VEY ++I+D+      +     I  E+ R GD+VK+
Sbjct: 141 EELKKQYEEFKDKVGEMRYGIVKQVEYSDLIIDINGIGAYLPLRNLIGGESFREGDKVKA 200

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V+R   G Q++LSRTH  F+  L + EVPEI +G++ +K ++RD GSR+K+AVFSS
Sbjct: 201 YIQAVKRSDDGRQIILSRTHEGFLEALLNQEVPEIADGLITIKGIARDAGSRSKIAVFSS 260

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D +IDPVGACVG++G R++ ++ EL  EKID++ +S D   F+I A+ PA V+KV++DE+
Sbjct: 261 DRNIDPVGACVGVKGDRIKTIIHELNGEKIDVIHYSSDLGQFIIKAITPAEVSKVIIDEN 320

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              IE+IV ++QLSLAIG++GQNVRLAS+L GW I+I++ +++S  R K+F++ +  F +
Sbjct: 321 ENCIELIVAEDQLSLAIGKKGQNVRLASELVGWKIEILSTQQESERRNKEFSQCSVLFAE 380

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
           A+N++EI+  LLV EGF+ VE+++   I E+ASIEGF+E+ A E+  RA  YL+  +   
Sbjct: 381 ALNLEEIMGQLLVTEGFSSVEDISNTSIKELASIEGFNEDIANELHNRANNYLKAENDRK 440

Query: 425 QKKIRELGVSEELCSIP-GIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            ++++ LG+ +++ ++   ID+KI  AL ++ IKT+ED+A     DL  +         +
Sbjct: 441 IEELKNLGMEDDVINLALSIDNKI--ALSKHNIKTLEDIA-----DLSNY---------E 484

Query: 484 FDGFLSSLGTPKDQVES----MIIHARYKMGWI 512
           F   LSS    KD ++     +II AR K+G I
Sbjct: 485 FCSILSSSTNNKDNLKDTADLIIIEARKKLGLI 517


>gi|152978792|ref|YP_001344421.1| transcription elongation factor NusA [Actinobacillus succinogenes
           130Z]
 gi|150840515|gb|ABR74486.1| NusA antitermination factor [Actinobacillus succinogenes 130Z]
          Length = 511

 Score =  366 bits (940), Expect = 4e-99,   Method: Compositional matrix adjust.
 Identities = 199/482 (41%), Positives = 308/482 (63%), Gaps = 19/482 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS-----------DIRVEINPE 56
           E+L  A+AV+ EK++ ++V+   +  +I  + +  +               D+RV I+P+
Sbjct: 4   EILLAAEAVSNEKALPKEVIFEALEAAIALSTKKKHAQKQERLGVDKPSEIDVRVAIDPK 63

Query: 57  TGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQ 116
           TG+   FR   VVEEV N T +I+L+ AR  DP+I +G VV D +  + F R+ +Q+A+Q
Sbjct: 64  TGEFDTFRRWTVVEEVVNPTREITLEAARLDDPAIQLGDVVEDQIESVAFDRITMQTARQ 123

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GN------SDGVIRRDE 169
           VI  K+R+AER +   +F  + G+I+ GTVK+V   +++++L GN      ++ VI R++
Sbjct: 124 VISTKIRDAERSKVVEQFLSEEGKIVIGTVKKVNRESIVLELLGNKEDPAKAEAVIARED 183

Query: 170 TISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAV 229
            I REN RPGDRV+  +Y V  E +G Q+ ++R+ P  + +LF +EVPEI   I+++K  
Sbjct: 184 MIPRENFRPGDRVRGVLYKVSPESKGAQLFVTRSKPIMLEELFRLEVPEIGEQIIEIKGS 243

Query: 230 SRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVIN 289
           +RD GSRAK+AV SSD  IDPVGACVGMRGSRVQ++  EL  E++DIV+W  + A +VIN
Sbjct: 244 ARDAGSRAKIAVKSSDKRIDPVGACVGMRGSRVQSITNELGGERVDIVLWDENPAQYVIN 303

Query: 290 ALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           A+ PA V+ +V+DED   +++ V    L+ AIGR GQNVRLA+QLTGWT++++T EE + 
Sbjct: 304 AMAPADVSSIVVDEDNHSMDIAVEASNLAQAIGRNGQNVRLATQLTGWTLNVMTTEELAQ 363

Query: 350 NRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV-E 408
             Q + N+    FM A+ +DE  A +LV EGF  +EELA V +SE+ +I+G ++E  V E
Sbjct: 364 KHQAEDNKILNLFMTALEIDEDFAQILVDEGFTKLEELAYVSVSELTAIDGLEDEDLVEE 423

Query: 409 IQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVD 468
           +Q RA++ +    +  +K +    + + L ++ G++  +   L E  I T+E+LA   VD
Sbjct: 424 LQTRAKDAITAAALAEEKALENAQIEDRLLNLEGMERHLAFKLAEKQITTLEELAEQGVD 483

Query: 469 DL 470
           DL
Sbjct: 484 DL 485


>gi|119504358|ref|ZP_01626438.1| transcription elongation factor NusA [marine gamma proteobacterium
           HTCC2080]
 gi|119459866|gb|EAW40961.1| transcription elongation factor NusA [marine gamma proteobacterium
           HTCC2080]
          Length = 490

 Score =  366 bits (940), Expect = 5e-99,   Method: Compositional matrix adjust.
 Identities = 196/463 (42%), Positives = 306/463 (66%), Gaps = 4/463 (0%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           +A+AV+ EK +  D++   +  ++  AA+  Y   +DI V I+  +G+    R   VV +
Sbjct: 2   VAEAVSAEKGVSEDIIFEAIELALATAAKKRYEEEADIEVVIDRVSGEYQTRRRWLVVPD 61

Query: 72  VEN--YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
            E      Q + + A + D ++ IG V  + +   DFGR+A Q+AKQVI+Q+VR+AER +
Sbjct: 62  TELALLGTQFTTEEAAEADANLQIGDVHEEIIENADFGRIAAQTAKQVIVQRVRDAERAQ 121

Query: 130 QYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYIYD 188
               ++D++GE+++G VK+V   NVIVDLGN ++G++ R E + RE  R  DRV++ + +
Sbjct: 122 IVDLYRDRIGELLAGIVKKVTRDNVIVDLGNNAEGLLPRGELVGRETFRINDRVRAILSE 181

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           +  E RGPQ+++SR   + + +LF +EVPEI  G++Q++A +RDPGSRAK+AV + D  I
Sbjct: 182 INTESRGPQLVMSRACREMLTELFKIEVPEISEGVIQIRAAARDPGSRAKIAVKTGDQRI 241

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI 308
           DPVGACVGMRGSRVQAV  EL +E++DI++W  + A  VINA+ PA V  +V+DED   +
Sbjct: 242 DPVGACVGMRGSRVQAVSNELDNERVDIILWDDNPAQLVINAMSPAEVESIVVDEDSNTM 301

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINV 368
           EV V ++ L+ AIGR GQNVRLAS LTGWTI++++ +E    ++ +  E  + FM A++V
Sbjct: 302 EVAVAEDNLAQAIGRGGQNVRLASDLTGWTINVMSTDEAVERQEAEAVEIIETFMNALDV 361

Query: 369 DEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKI 428
           DE +A +LV EGF  ++E+A V + E+  IEGFDE  + E++ RA++ L  + I  ++K+
Sbjct: 362 DEDVAVVLVEEGFTTLDEVAYVPLEEMMGIEGFDEAISEELRARAKDALLTMAIATEEKL 421

Query: 429 RELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
            ++  +E+L ++ G++  +       GI TMEDLA   VDDL+
Sbjct: 422 -DVEPAEDLLTMDGMERHLAFVFASRGIVTMEDLAEQGVDDLM 463


>gi|317402909|gb|EFV83450.1| N utilization substance protein A [Achromobacter xylosoxidans C54]
          Length = 492

 Score =  366 bits (939), Expect = 5e-99,   Method: Compositional matrix adjust.
 Identities = 206/483 (42%), Positives = 309/483 (63%), Gaps = 15/483 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++ RDVV   +  ++  A +  +   +DIRV I+ ETGD   FR   
Sbjct: 4   EILLLVDALAREKNVTRDVVFGALESALASAMKKRFKDDADIRVAIDRETGDHEGFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    Q  L  A +  P+I +G  + +PL P++FGR+  Q+AKQ I+QK+R+
Sbjct: 64  VVPDEAGLQEPDKQEMLSDAVEIVPNIQVGEYIEEPLEPIEFGRIGAQAAKQAILQKIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F D+   I+SGT+KR++ G+ I++ G  +  + R E I +ENLR  DRV++
Sbjct: 124 AEREQVLNDFLDRGETIVSGTIKRMDKGDAIIETGKIEARLPRSEMIPKENLRVADRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           ++  V    RG QV+LSRT P+F+ +LF  EVPEI  G++++KA +RD G RAK+AV + 
Sbjct: 184 FVLRVDHAARGQQVILSRTSPEFIRQLFENEVPEIEQGLLEIKAAARDAGVRAKIAVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVGMRGSRV AV  EL  E++DIV+WS D A FVI AL PA V  +V+DED
Sbjct: 244 DKRIDPIGTCVGMRGSRVTAVRNELGGEQVDIVLWSEDPAQFVIGALAPANVESIVVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF--- 361
              ++V+V +E L  AIG +GQNVRLAS+LTGW I+I+T EE S+NRQ+   ER+     
Sbjct: 304 KHAMDVVVDEENLPKAIGAKGQNVRLASELTGWQINIMTPEE-SLNRQE--VERSGLRAT 360

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM  ++VDE +A +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RAR  L    
Sbjct: 361 FMNKLDVDEEVADILIDEGFTGIEEIAYVPMQELLEIEAFDEDTINELRARARNALLTEA 420

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL---LGWSENKG 478
           I  +++   L  +++L  + G+  ++   L E  + T +DLA  + D+L    G +E + 
Sbjct: 421 IAQEER---LETAQDLLELEGVTPELAAKLAERQVHTRDDLAELATDELAEIAGLTEQEA 477

Query: 479 GNI 481
            ++
Sbjct: 478 SDL 480


>gi|157368735|ref|YP_001476724.1| transcription elongation factor NusA [Serratia proteamaculans 568]
 gi|157320499|gb|ABV39596.1| NusA antitermination factor [Serratia proteamaculans 568]
          Length = 502

 Score =  366 bits (939), Expect = 5e-99,   Method: Compositional matrix adjust.
 Identities = 194/485 (40%), Positives = 306/485 (63%), Gaps = 11/485 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RV I+ +TGD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIEVRVSIDRKTGDFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            V+EV   T +I+L+ A+  +P I++GG + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  AVDEVTQPTREITLEAAQYEEPGIELGGYIEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
                 F+   GEI++G VK+V   ++ +DLG N++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDAFRQHEGEIVTGVVKKVNRDSIALDLGSNAEAVIGREDMLPRENFRPGDRIRGIL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ +SR+  + + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YAVRPEARGAQLFVSRSSAEMLKELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDI++W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIILWDDNPAQFVINAMAPADVASIVVDEDNC 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTG-------WTIDIITEEEDSINRQKDFNERT 359
            +++ V    L+ AIGR GQNVRLASQL         W ++++T ++     Q + +   
Sbjct: 304 TMDIAVEASNLAQAIGRNGQNVRLASQLLKQHRDDDRWELNVMTADDLQAKHQAEAHAAI 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             F + +++DE  A +LV EGF+ +EELA V I E+  I+G DE+    ++ RA+  L  
Sbjct: 364 DTFTKHLDIDEDFATVLVEEGFSTLEELAYVPIKELLEIDGLDEDMVEALRDRAKAALTT 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSEN 476
           + +  ++ + +   +++L ++PG++  +   L   G+ T+EDLA   VDDL    G S+ 
Sbjct: 424 LALAQEESLGDQKPADDLLNLPGLERSMAFKLAARGVCTLEDLAEQGVDDLADIEGLSDE 483

Query: 477 KGGNI 481
           + G +
Sbjct: 484 QAGEL 488


>gi|110833189|ref|YP_692048.1| transcription elongation factor [Alcanivorax borkumensis SK2]
 gi|110646300|emb|CAL15776.1| transcription elongation factor [Alcanivorax borkumensis SK2]
          Length = 525

 Score =  366 bits (939), Expect = 6e-99,   Method: Compositional matrix adjust.
 Identities = 200/482 (41%), Positives = 317/482 (65%), Gaps = 8/482 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS-DIRVEINPETGDISLFRLL 66
           E+L +A+ V+ EK + RDV+   +  ++  A +  +     +IRV+I+ E+G+   FR+ 
Sbjct: 27  EILLVAETVSNEKGVSRDVIFEAIELALAAATKKRFKQEDVEIRVDIDRESGNARSFRVW 86

Query: 67  EVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
            VV  EE+  +  Q++L  A ++D S+ IG +  + +    FGR+A Q+AKQVI+QKVRE
Sbjct: 87  HVVPDEELFEFGKQLTLDEAHEQDTSLQIGDIWEEEVESEAFGRIAAQTAKQVIVQKVRE 146

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVK 183
           AER +   E++D++G+++SGTVK+    ++++DLG N++ +I R+  I RE +R  DRV+
Sbjct: 147 AERRQIVEEYRDRIGDLVSGTVKKASRDSIVLDLGGNAEALITREHMIPREAVRQNDRVR 206

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           +Y+  V  E RGPQ+  SR  P  +V+LF +EVPEI   ++++K  +RDPGSRAK+AV +
Sbjct: 207 AYLLGVNEENRGPQLFASRACPDMLVELFKIEVPEIGEELIEIKGAARDPGSRAKIAVKT 266

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A  VINA++PA V  +V+DE
Sbjct: 267 NDQRIDPVGACVGMRGARVQAVSNELAGERIDIVLWDDNPAQLVINAMQPAEVASIVMDE 326

Query: 304 DVGRIEVIVPKEQ-LSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           +   +++ V  E  L+ AIGR GQN+RLAS+LTGW ++++T ++    ++++  +  Q F
Sbjct: 327 ESHSMDIAVEDESALAQAIGRSGQNIRLASELTGWELNVMTIDDAESKQEQEAEQALQTF 386

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           +  + VDE +A +LV EGF+ +EE+A V   E+ +I+GFDEE    ++ RA++ L    +
Sbjct: 387 INELEVDEDVAGVLVDEGFSTLEEVAYVPEEEMLAIDGFDEEIVELLRQRAKDALLTKAL 446

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGG 479
             ++K  +   +E+L ++ G+D ++ V L    I TMEDLA  +VDDLL   G SE +  
Sbjct: 447 VSEEKFDQAEPAEDLLNMEGMDRELAVELASRDIVTMEDLAEQAVDDLLEIEGLSEERAA 506

Query: 480 NI 481
            +
Sbjct: 507 EL 508


>gi|270265058|ref|ZP_06193321.1| transcription elongation protein NusA [Serratia odorifera 4Rx13]
 gi|270040992|gb|EFA14093.1| transcription elongation protein NusA [Serratia odorifera 4Rx13]
          Length = 502

 Score =  365 bits (938), Expect = 7e-99,   Method: Compositional matrix adjust.
 Identities = 194/485 (40%), Positives = 306/485 (63%), Gaps = 11/485 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RV I+ +TGD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIEVRVSIDRKTGDFDTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            V+EV   T +I+L+ A+  +P I++GG + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  AVDEVTQPTREITLEAAQYEEPGIELGGYIEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
                 F+   GEI++G VK+V   ++ +DLG N++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDAFRQHEGEIVTGVVKKVNRDSIALDLGSNAEAVIGREDMLPRENFRPGDRIRGIL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR E RG Q+ +SR+  + + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YAVRPEARGAQLFVSRSSAEMLKELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDI++W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIILWDDNPAQFVINAMAPADVASIVVDEDNC 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTG-------WTIDIITEEEDSINRQKDFNERT 359
            +++ V    L+ AIGR GQNVRLASQL         W ++++T ++     Q + +   
Sbjct: 304 TMDIAVEASNLAQAIGRNGQNVRLASQLLKQHRDDDRWELNVMTADDLQAKHQAEAHAAI 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             F + +++DE  A +LV EGF+ +EELA V I E+  I+G DE+    ++ RA+  L  
Sbjct: 364 DTFTKYLDIDEDFATVLVEEGFSTLEELAYVPIKELLEIDGLDEDMVEALRDRAKAALTT 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSEN 476
           + +  ++ + +   +++L ++PG++  +   L   G+ T+EDLA   VDDL    G S+ 
Sbjct: 424 LALAQEESLGDQKPADDLLNLPGLERSMAFKLAARGVCTLEDLAEQGVDDLADIEGLSDE 483

Query: 477 KGGNI 481
           + G +
Sbjct: 484 QAGEL 488


>gi|332528893|ref|ZP_08404863.1| NusA antitermination factor [Hylemonella gracilis ATCC 19624]
 gi|332041650|gb|EGI78006.1| NusA antitermination factor [Hylemonella gracilis ATCC 19624]
          Length = 511

 Score =  365 bits (938), Expect = 7e-99,   Method: Compositional matrix adjust.
 Identities = 193/477 (40%), Positives = 310/477 (64%), Gaps = 9/477 (1%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M S    ELL + +A++ EK+++RDVV   +  ++ +A + LY    DIRV ++ +TG  
Sbjct: 1   MSSIKNSELLMLVEAISREKNVERDVVFGAVEAALAQATKKLYEGDVDIRVAVDRDTGLY 60

Query: 61  SLFRLLEVVEEVENYTC---QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQV 117
             FR   VV +         +I L  A+++ P I++   + + +  +  GR+   +AKQV
Sbjct: 61  ETFRRWHVVPDEAGLQLPDQEILLFEAKEQIPDIEVDEYIEEAVESVPIGRIGAMAAKQV 120

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR 177
           I+QK+R+AER+    +F  +  +I  G+VKR++ G++IV+ G  +G ++R+E I +EN R
Sbjct: 121 ILQKIRDAEREMLLNDFMSRGEKIFVGSVKRMDKGDLIVESGRVEGRLKRNEMIPKENFR 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            GDRV++ I +V  EQRGP +LLSR+ P+FM++LF  EVPEI  G++++K+ +RD GSRA
Sbjct: 181 AGDRVRAMIMEVNTEQRGPAILLSRSAPEFMIELFRQEVPEIEQGLLEIKSCARDAGSRA 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  +DP+G CVG+RG+RV AV  EL  E++DIV+WS D A FVI AL PA V+
Sbjct: 241 KIAVLSHDKRVDPIGTCVGVRGARVNAVTNELAGERVDIVLWSEDPAQFVIGALAPANVS 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            +V+DE+   ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+   E +  +  +   
Sbjct: 301 SIVVDEEKHAMDVVVDEENLAIAIGRGGQNVRLASELTGWKINIMDAAESAQKQADETTT 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
             + FM+ ++VDE IA +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RA++ L
Sbjct: 361 LRKLFMEKLDVDEEIADILITEGFTSLEEVAYVPLQEMLEIESFDEDTVNELRARAKDAL 420

Query: 418 EGIDITLQKKIRELGVSEELCSI----PGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
             ++I  ++ + E  VS++L  +      + + +   L + G+ T++DLA  ++D+L
Sbjct: 421 LTLEIAREESVDE--VSQDLRDLQFQGKPLSADVIAKLADGGVHTLDDLADLAIDEL 475


>gi|304386889|ref|ZP_07369151.1| transcription termination/antitermination protein NusA [Neisseria
           meningitidis ATCC 13091]
 gi|304339048|gb|EFM05140.1| transcription termination/antitermination protein NusA [Neisseria
           meningitidis ATCC 13091]
          Length = 503

 Score =  365 bits (938), Expect = 7e-99,   Method: Compositional matrix adjust.
 Identities = 214/477 (44%), Positives = 321/477 (67%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 7   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 66

Query: 67  EVVEEVENYT---CQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT    + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 67  LIVAD-EDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQR 125

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R G
Sbjct: 126 IRDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSG 185

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++    +R E+ G     QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG 
Sbjct: 186 DRIRALF--LRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQ 243

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA 
Sbjct: 244 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAE 303

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKD 354
           V+++V+DED   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T  E D  N  +D
Sbjct: 304 VSRIVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAED 363

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR
Sbjct: 364 AAIR-RLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRAR 422

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  SVD+L+
Sbjct: 423 DAILTMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELSVDELI 477


>gi|297180949|gb|ADI17152.1| transcription elongation factor [uncultured gamma proteobacterium
           HF0070_08D07]
          Length = 506

 Score =  365 bits (938), Expect = 7e-99,   Method: Compositional matrix adjust.
 Identities = 204/479 (42%), Positives = 302/479 (63%), Gaps = 18/479 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + D+V+ EK + ++ +   +  ++  A R  YG   D RV I+   G    FR   
Sbjct: 4   EILMVVDSVSNEKGVPKETLFEAVELALAVATRKRYGETFDFRVAIDRNDGSYETFRRWT 63

Query: 68  VVEEVE-----------NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQ 116
           VV+E             N    ++L  A+ +D     G V  + +  + FGR+A Q+AKQ
Sbjct: 64  VVDEENMVDEEGEEKEFNPDAHLNLSQAQIKDSESSFGSVFEEQVESVGFGRIAAQTAKQ 123

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISREN 175
           VI+QKVREAERD+    +  K+  I+SGTVK++   +VIVDLGN ++G++ R+  I RE 
Sbjct: 124 VIVQKVREAERDQIAAAYDGKINSIVSGTVKKLGRDSVIVDLGNNAEGILTREHLIPREI 183

Query: 176 LRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
            R GDR+++ + +++ + RGPQ++LSRT  Q +V+LF +EVPEI   ++Q+   +RDPGS
Sbjct: 184 FRVGDRLRAMLVEIKSDNRGPQLMLSRTSRQMLVELFKIEVPEISEDVIQILGAARDPGS 243

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDPVGACVGMRGSRVQAV  EL  E+IDIV+W  + A   INA+ PA 
Sbjct: 244 RAKIAVKTNDGRIDPVGACVGMRGSRVQAVSGELAGERIDIVLWDDNPAQLTINAMAPAE 303

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF 355
           V  +VLDE+   ++V V +E L+ AIGR GQNVRLAS L+GW+++I+TE+E +   QK  
Sbjct: 304 VASIVLDEESHSMDVAVTEENLAQAIGRGGQNVRLASDLSGWSLNIMTEQEAA---QKQD 360

Query: 356 NERTQF---FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGR 412
           +E   F   F++ ++VDE +A  LV EGF  +EE+A V I E++SIEGFDEE   E++ R
Sbjct: 361 DEAKSFIDDFIKYLSVDEDVAGALVEEGFTTLEEVAYVPIEELSSIEGFDEEIVSELRDR 420

Query: 413 AREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           A++ L    I  ++     G +E+L  + G+  ++   L  N + +MEDLA  SV +L+
Sbjct: 421 AKDSLLTKAIADEEANNLAGPNEDLLQMEGMTVELAKILSRNSVSSMEDLAELSVSELI 479


>gi|254995056|ref|ZP_05277246.1| transcription elongation factor NusA [Anaplasma marginale str.
           Mississippi]
          Length = 512

 Score =  365 bits (937), Expect = 9e-99,   Method: Compositional matrix adjust.
 Identities = 213/530 (40%), Positives = 331/530 (62%), Gaps = 39/530 (7%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + + + LEL+++A  VA +K ++ ++V+  +  +++  +RS YG    I+  I+ +TG +
Sbjct: 4   LYNFDNLELIRVARDVAEQKGLNLEMVVDAIEQALELVSRSKYGDCK-IKASIDRKTGVV 62

Query: 61  SLFRLLEVVE---------------EVENYT-CQISLKVARDRDPSIDIGGVVSDPLPPM 104
           S+ R   VV                EV  Y   ++S  VA  +D  + +G ++ +PLPP+
Sbjct: 63  SISRQALVVNDDMSFDSEQYGIPLGEVSKYKLVKVSDAVADGKD--VKVGDILFEPLPPV 120

Query: 105 DFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV 164
           D    + + A++ + Q +   ER RQY EFKD+VG+++ G VKRVEY NV+VDL  S+G 
Sbjct: 121 DVDYNSAKVARRKVAQLIMIQERKRQYEEFKDRVGDLVYGVVKRVEYNNVVVDLNGSEGY 180

Query: 165 IRRDETISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGI 223
           +    TI  E  RP DRVK  + +VR+E+  GPQ+ LSR   +FM  LF  E+PE+Y+GI
Sbjct: 181 LPVYNTIRGEVFRPNDRVKD-VEEVRQEELSGPQIFLSRVSKRFMELLFKQEIPEVYDGI 239

Query: 224 VQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVW-SPD 282
           V +KA++RDPGSR+K+AVFSSD ++DPVGAC+G RG R+Q +V+ELR E    VV+  P 
Sbjct: 240 VSIKALARDPGSRSKVAVFSSDKNVDPVGACIGARGVRIQNIVSELRGEDRRCVVFIRPR 299

Query: 283 SATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
               V +    A V KV++DEDV +IE++VP+ Q+SLAIGR GQN+RLAS+L GW ID+I
Sbjct: 300 E---VCSERDSAEVVKVIIDEDVEKIELVVPENQVSLAIGRYGQNIRLASELVGWEIDVI 356

Query: 343 TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
            +E +S  + K+ +   + F+  ++V+EII  LLV+EGF+ +E+L  V ++EI +I+GF+
Sbjct: 357 GDETESTRKAKELSSGAKVFVDGLDVEEIIGQLLVSEGFSTIEDLDKVDVAEITAIDGFN 416

Query: 403 EETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDL 462
           EE AVE++ RA EYL        + ++ + VSEE+  +P ++ +  V L E GI+++ED+
Sbjct: 417 EEIAVELKKRAAEYLTRRREEALETLKNMSVSEEVLELPYLEIEDVVKLCEGGIRSVEDI 476

Query: 463 AGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
           A    D+              F   +      K+QV+S+I+ +R +MGWI
Sbjct: 477 ASMCTDE--------------FYDMVPKARLSKEQVDSIILESRKRMGWI 512


>gi|315126157|ref|YP_004068160.1| transcription elongation factor NusA [Pseudoalteromonas sp. SM9913]
 gi|315014671|gb|ADT68009.1| transcription elongation factor NusA [Pseudoalteromonas sp. SM9913]
          Length = 499

 Score =  365 bits (937), Expect = 9e-99,   Method: Compositional matrix adjust.
 Identities = 187/474 (39%), Positives = 311/474 (65%), Gaps = 6/474 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR--- 64
           E+L +A+AV+ EK++ ++ +   +  ++  A +  +    D+RV I+ +TGD   FR   
Sbjct: 4   EILLVAEAVSNEKAVPKEKIFEALEFALATATKKKHDGEIDVRVAIDRKTGDYDTFRRWQ 63

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           + EV+E+  +EN   +I+L+ A+  +P + +G  V + +  + F R+  Q AKQVI+QKV
Sbjct: 64  IAEVLEDGSLENPYSEITLEAAQVEEPDLKMGDYVEEQIESIKFDRITTQMAKQVIVQKV 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDR 181
           REAER      +KD+ GE+++G VK+     +++DLGN ++ VI RD+ + REN RPGDR
Sbjct: 124 REAERALVVEAYKDQEGELVTGVVKKATRDAIVLDLGNNAEAVIYRDDMLPRENFRPGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++  +Y+V+ E RG Q+ ++R+ P+ +++LF +EVPEI   +++++A +RDPGSRAK+AV
Sbjct: 184 IRGLLYEVKPEARGAQLFVTRSKPEMLMELFRIEVPEIGEEMIELRAAARDPGSRAKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+D  IDPVGACVGMRG+RVQAV +EL  E++DIV++  + A FVINA+ PA V  +V+
Sbjct: 244 KSNDKRIDPVGACVGMRGARVQAVSSELGGERVDIVLYDDNPAQFVINAMAPAEVASIVM 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   +++ V  + L+ AIGR GQNVRLASQLTGW ++++T +E     + + ++    
Sbjct: 304 DEDTHSMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVDEMRAKNEAESDKLINL 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + +++D+  A LL+ EGF+ +EE+A V  SE   I+G DEET   ++ RA++ L    
Sbjct: 364 FTENLDIDDEFASLLINEGFSTLEEVAYVPASEFLEIDGLDEETVDVLRSRAKDALTTKA 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSE 475
           +  ++ +     +E+L ++ G++  +   +   G+ T+EDLA   +D+L+  +E
Sbjct: 424 LKTEESLEGAEPAEDLLALEGLERHLAFVMASKGVVTLEDLAEQGIDELVDITE 477


>gi|325136708|gb|EGC59308.1| transcription termination/antitermination protein nusA [Neisseria
           meningitidis M0579]
          Length = 500

 Score =  365 bits (937), Expect = 9e-99,   Method: Compositional matrix adjust.
 Identities = 214/477 (44%), Positives = 321/477 (67%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVVEEVENYT---CQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT    + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 64  LIVAD-EDYTYPDVEKTIEEIQEEIPGTAIQIGEYYEEQLPNEGFGRQAAQTAKQIILQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R G
Sbjct: 123 IRDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSG 182

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++    +R E+ G     QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG 
Sbjct: 183 DRIRALF--LRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQ 240

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA 
Sbjct: 241 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAE 300

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKD 354
           V+++V+DED   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T  E D  N  +D
Sbjct: 301 VSRIVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAED 360

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR
Sbjct: 361 AAIR-RLFMDYLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRAR 419

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  SVD+L+
Sbjct: 420 DAILTMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELSVDELI 474


>gi|325204603|gb|ADZ00057.1| transcription termination/antitermination protein nusA [Neisseria
           meningitidis M01-240355]
          Length = 500

 Score =  365 bits (937), Expect = 9e-99,   Method: Compositional matrix adjust.
 Identities = 214/477 (44%), Positives = 321/477 (67%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVVEEVENYT---CQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT    + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 64  LIVAD-EDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R G
Sbjct: 123 IRDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSG 182

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++    +R E+ G     QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG 
Sbjct: 183 DRIRALF--LRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQ 240

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA 
Sbjct: 241 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAE 300

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKD 354
           V+++V+DED   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T  E D  N  +D
Sbjct: 301 VSRIVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAED 360

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR
Sbjct: 361 AAIR-RLFMDYLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRAR 419

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  SVD+L+
Sbjct: 420 DAILTMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELSVDELI 474


>gi|157376522|ref|YP_001475122.1| transcription elongation factor NusA [Shewanella sediminis HAW-EB3]
 gi|157318896|gb|ABV37994.1| NusA antitermination factor [Shewanella sediminis HAW-EB3]
          Length = 499

 Score =  365 bits (937), Expect = 1e-98,   Method: Compositional matrix adjust.
 Identities = 193/482 (40%), Positives = 307/482 (63%), Gaps = 8/482 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK + R+ +   +  ++  A +  Y    ++RVEI+ +TG    FR   
Sbjct: 4   EILLVTEAVSNEKGVPREKIFEALEIALATATKKKYEGDIEVRVEIDRKTGAYETFRRWM 63

Query: 68  VVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           VVE+    +EN   +I+L+ A+  +P I +G  + D +  + F R+  Q+AKQVI+QKVR
Sbjct: 64  VVEDTGEPLENPFSEITLEAAQFEEPEIQLGEYIEDDIESVVFDRITTQTAKQVIVQKVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER +   +FKDK GE+I+G VK+    +V+VDLG N+D V+ +++ ISRE+ RPGDRV
Sbjct: 124 EAERAQIVDQFKDKEGELITGVVKKSNRESVVVDLGSNADAVLFKEDLISRESFRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ ++ VR E RG Q+ L+RT P  +++LF +EVPEI + ++++   +RDPGSRAK+AV 
Sbjct: 184 RALLFAVRPEARGAQLFLTRTKPDMLIELFRVEVPEIADEMIEIMGAARDPGSRAKIAVK 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A +VINA+ PA V  +++D
Sbjct: 244 SNDRRIDPIGACVGMRGARVQAVSNELNGERVDIVLWDDNPAQYVINAMAPADVASIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLA+QL+GW ++++T  +     Q +  +    F
Sbjct: 304 EDNHSMDIAVEADSLAQAIGRNGQNVRLATQLSGWELNVMTVADMQAKHQAESAKVVNLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           + ++ VDE  A +L  EGF  +EE+A V  SE+  I+GFDE+    ++ RA+  +    +
Sbjct: 364 VTSLEVDEDFAQVLADEGFTSLEEVAYVPASELMDIDGFDEDIVETLRERAKAAISTRAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG---WSENKGG 479
             ++ +     SE+L ++ G++  +       G+ T+EDLA   +DDL+     +E K G
Sbjct: 424 ASEEALDGAEPSEDLLALEGLERHLAFVFASKGVITLEDLAEQGIDDLIDIEELTEEKAG 483

Query: 480 NI 481
            +
Sbjct: 484 EL 485


>gi|209694189|ref|YP_002262117.1| transcription elongation factor NusA [Aliivibrio salmonicida
           LFI1238]
 gi|208008140|emb|CAQ78282.1| transcription elongation protein NusA [Aliivibrio salmonicida
           LFI1238]
          Length = 495

 Score =  365 bits (936), Expect = 1e-98,   Method: Compositional matrix adjust.
 Identities = 189/464 (40%), Positives = 302/464 (65%), Gaps = 1/464 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +       ++RV I+ +TG +  FR   
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALEIALATATKKKSALEIEVRVAIDRKTGAVETFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            V +VE+ T +IS++ A+  D +I+IGG + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  AVAQVEHPTLEISIEAAQFEDETIEIGGFIEDDIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
                +F D  GE+I+G VK+V    +IVDLG N++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AMIVEQFIDNEGELITGIVKKVNRDAIIVDLGSNAEAVILREDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V+ E RG Q+ ++R+    + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YAVKPEARGFQLFMTRSKGVMLTELFRVEVPEIGEELIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  +L  E+IDIV+W  + A FVIN++ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSNDLGGERIDIVLWDDNPAQFVINSMAPAEVASIIVDEDNN 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  + +   Q++       F++ +
Sbjct: 304 TMDIAVEADNLAQAIGRSGQNVRLASQLTGWELNVMTVADLNKKHQEEAQGSIDAFVKHL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++D   A LLV EGF  +EE+A V ++E+  +E  DEET   ++ RA+E L  + +  ++
Sbjct: 364 DIDADFAQLLVEEGFTTLEEIAYVPVNELLEVEALDEETVDLLRTRAKEALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
            +  +  +E+L ++ G++ ++       G+ T+EDLA   VD+L
Sbjct: 424 SLDGIEPAEDLLALEGLERELAFKFAAKGVITLEDLADQGVDEL 467


>gi|261392135|emb|CAX49635.1| transcription elongation protein nusA (N utilization substance
           protein A; L factor) [Neisseria meningitidis 8013]
 gi|325134692|gb|EGC57331.1| transcription termination/antitermination protein nusA [Neisseria
           meningitidis M13399]
          Length = 500

 Score =  365 bits (936), Expect = 1e-98,   Method: Compositional matrix adjust.
 Identities = 213/477 (44%), Positives = 321/477 (67%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVVEEVENYT---CQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT    + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 64  LIVAD-EDYTYPDVEKTIEEIQEEIPGTAIQIGEYYEEQLPNEGFGRQAAQTAKQIILQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R G
Sbjct: 123 IRDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSG 182

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++    +R E+ G     QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG 
Sbjct: 183 DRIRALF--LRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQ 240

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA 
Sbjct: 241 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAE 300

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKD 354
           V+++V+DED   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T  E D  N  +D
Sbjct: 301 VSRIVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAED 360

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR
Sbjct: 361 AAIR-RLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRAR 419

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  +VD+L+
Sbjct: 420 DAILTMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELI 474


>gi|88797622|ref|ZP_01113211.1| N utilization substance protein A [Reinekea sp. MED297]
 gi|88779794|gb|EAR10980.1| N utilization substance protein A [Reinekea sp. MED297]
          Length = 503

 Score =  365 bits (936), Expect = 1e-98,   Method: Compositional matrix adjust.
 Identities = 192/472 (40%), Positives = 311/472 (65%), Gaps = 5/472 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS--DIRVEINPETGDISLFRL 65
           E+L + DAVA EK + RDV+   M  ++  AA+         D+ V I+ +TG+   FR 
Sbjct: 10  EILLVVDAVANEKGVSRDVIFDAMELALATAAKKRLDDEGEPDVYVVIDRKTGEYETFRR 69

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
            EV+ +  V     Q + + A + D ++  G V    +    FGR++ Q+AKQ+I+QKVR
Sbjct: 70  WEVMGDDVVPELGSQWTTEEAHEVDTNLKPGDVYEVQIENEGFGRISAQAAKQIIVQKVR 129

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           +AER R    ++++VGE+++GTVK+V    +I+DLGN ++ V+ RD+ I RE  R  DRV
Sbjct: 130 DAERARIVDNYRERVGEMVTGTVKKVTRDALIIDLGNNAEAVLPRDQMIGREAFRLADRV 189

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + +++ E RGPQ++LSRT  + +V+LF +EVPEI   ++++++ +RDPGSRAK+AV 
Sbjct: 190 RAVLQEIKSEGRGPQLVLSRTSNEMLVELFRIEVPEIQEELIEIRSCARDPGSRAKIAVK 249

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           ++D  IDPVGACVGMRGSRVQAV  EL +E++DI++W  + A  VINA+ PA V  +V+D
Sbjct: 250 TNDGRIDPVGACVGMRGSRVQAVSNELGNERVDIILWDDNPAQLVINAMAPAEVASIVMD 309

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +EV V ++ L++AIGR GQNVRLA+ LTGW I+++TE+E    ++++  +    F
Sbjct: 310 EDTNTMEVAVAEDNLAIAIGRNGQNVRLAADLTGWIINVMTEDEAGARQEQEAGQLVSHF 369

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           ++ + VD+ +A +LV EGF  +EE+A V I+E+  I+GF+E+   E++ RA++ L   ++
Sbjct: 370 VEKLGVDDELAMILVEEGFTTLEEVAYVPINEMLDIDGFEEDLVNELRQRAKDELLTQEL 429

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWS 474
             ++++      E+L  + G+   +   L  NG+ +MED+A  S+D+L+ +S
Sbjct: 430 ATEERLDSAEPQEDLLGLDGMTDHLARVLASNGVVSMEDVAELSIDELMEFS 481


>gi|15677491|ref|NP_274647.1| transcription elongation factor NusA [Neisseria meningitidis MC58]
 gi|7226892|gb|AAF41991.1| N utilization substance protein A [Neisseria meningitidis MC58]
 gi|319410895|emb|CBY91289.1| transcription elongation protein nusA (N utilization substance
           protein A; L factor) [Neisseria meningitidis WUE 2594]
 gi|325140713|gb|EGC63227.1| transcription termination/antitermination protein nusA [Neisseria
           meningitidis CU385]
 gi|325144892|gb|EGC67179.1| transcription termination/antitermination protein nusA [Neisseria
           meningitidis M01-240013]
 gi|325199764|gb|ADY95219.1| transcription termination/antitermination protein nusA [Neisseria
           meningitidis H44/76]
          Length = 500

 Score =  364 bits (935), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 213/477 (44%), Positives = 321/477 (67%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVVEEVENYT---CQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT    + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 64  LIVAD-EDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R G
Sbjct: 123 IRDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSG 182

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++    +R E+ G     QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG 
Sbjct: 183 DRIRALF--LRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQ 240

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA 
Sbjct: 241 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAE 300

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKD 354
           V+++V+DED   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T  E D  N  +D
Sbjct: 301 VSRIVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAED 360

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR
Sbjct: 361 AAIR-RLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRAR 419

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  +VD+L+
Sbjct: 420 DAILTMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELI 474


>gi|260221430|emb|CBA29985.1| Transcription elongation protein nusA [Curvibacter putative
           symbiont of Hydra magnipapillata]
          Length = 498

 Score =  364 bits (935), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 194/469 (41%), Positives = 308/469 (65%), Gaps = 6/469 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           NR ELL + +A++ EK+++RDVVL  +  ++ +A + LY    DIRV ++ ++G+   FR
Sbjct: 2   NR-ELLMLVEAISREKNVERDVVLGAVEAALAQATKKLYAGDVDIRVALDRDSGNYETFR 60

Query: 65  LLEVVEEVENYTC---QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
              VV +         +I L  A+++   I++   + +P+  +  GR+   +AKQVI+QK
Sbjct: 61  RWHVVPDEAGLQLPDQEILLFEAKEQIADIEVDEYIEEPVASVPIGRIGAMAAKQVILQK 120

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+    +F  +  +I  GTVKR++ G++IV+ G  +G +RR E I +ENLR GDR
Sbjct: 121 IRDAEREMLLNDFMSRGEKIFVGTVKRMDKGDIIVESGRVEGRLRRGEMIPKENLRTGDR 180

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I +V    RG  ++LSR+ P+FM++LF  EVPEI  G++++K+ +RD GSRAK+AV
Sbjct: 181 VRAMIMEVDLTLRGAPIVLSRSAPEFMIELFRQEVPEIEQGLLEIKSCARDAGSRAKIAV 240

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  +DP+G CVG+RG+RV  V  EL  E++DIV+WS D A FVI AL PA VT +V+
Sbjct: 241 LSHDKRVDPIGTCVGVRGTRVNGVTNELAGERVDIVLWSEDPAQFVIGALAPANVTSIVV 300

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+   ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+   E +     + +   + 
Sbjct: 301 DEERHAMDVVVDEENLAIAIGRGGQNVRLASELTGWKINIMDAAESAQKLANETDSGRKL 360

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+ ++VDE IA +L+AEGF  +EE+A V + E+  IE FDE+T  E++ RA++ L  ++
Sbjct: 361 FMEKLDVDEEIADILIAEGFTSLEEVAYVPLQEMLEIESFDEDTVHELRNRAKDALLTME 420

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           I  ++ + E  VS+ L  + G+  ++   L + G+ T ++LA  +VD+L
Sbjct: 421 IAHEESVEE--VSQNLRDLEGLTPELIGKLADGGVHTRDELADLAVDEL 467


>gi|325205639|gb|ADZ01092.1| transcription termination/antitermination protein nusA [Neisseria
           meningitidis M04-240196]
          Length = 500

 Score =  364 bits (935), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 212/477 (44%), Positives = 322/477 (67%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVVEEVENYT---CQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT    + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 64  LIVAD-EDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R G
Sbjct: 123 IRDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSG 182

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++    +R E+ G     QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG 
Sbjct: 183 DRIRALF--LRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQ 240

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA 
Sbjct: 241 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAE 300

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKD 354
           V+++V+DED   ++VIV ++QL+LAIGR GQNVRLAS+LTGW ++I+T  E D  N  +D
Sbjct: 301 VSRIVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASELTGWQLNIMTSAEADERNAAED 360

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR
Sbjct: 361 AAIR-RLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRAR 419

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  + I  ++K+ E  VS+++ ++ G+D+ +  +L E GI T +DLA  +VD+L+
Sbjct: 420 DAILTMAIAAEEKLGE--VSDDMRNLEGVDADMLRSLAEAGITTRDDLAELAVDELI 474


>gi|161572974|ref|YP_208351.2| transcription elongation factor NusA [Neisseria gonorrhoeae FA
           1090]
 gi|240014533|ref|ZP_04721446.1| transcription elongation factor NusA [Neisseria gonorrhoeae DGI18]
 gi|240121055|ref|ZP_04734017.1| transcription elongation factor NusA [Neisseria gonorrhoeae
           PID24-1]
          Length = 500

 Score =  364 bits (935), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 211/477 (44%), Positives = 318/477 (66%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVVEEVENYTCQISLKVARD-----RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT     K   +      D +I IG    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 64  LIVAD-EDYTYPDVEKTIEEIQEEIPDTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R G
Sbjct: 123 IRDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSG 182

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++    +R E+ G     Q++LSRT   F+VKL+  EVPEI +G+++++AV+RDPG 
Sbjct: 183 DRIRALF--LRVEEIGNTGRKQIILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQ 240

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA 
Sbjct: 241 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAE 300

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKD 354
           V+++V+DED   ++VIV +++L+LAIGR GQNVRLAS LTGW ++I+T  E D  N  +D
Sbjct: 301 VSRIVIDEDKHAVDVIVAEDRLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAED 360

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR
Sbjct: 361 AAIR-RLFMNHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRAR 419

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  + I  ++K+ E  VS+++ ++ G+D+ + ++L E GI T +DLA  +VD+L+
Sbjct: 420 DAILTMAIAAEEKLGE--VSDDMRNLEGVDADMLLSLAEAGITTRDDLAELAVDELI 474


>gi|293398726|ref|ZP_06642902.1| N utilization substance protein A [Neisseria gonorrhoeae F62]
 gi|59718534|gb|AAW89939.1| putative N utilisation substance protein A [Neisseria gonorrhoeae
           FA 1090]
 gi|291610866|gb|EFF39965.1| N utilization substance protein A [Neisseria gonorrhoeae F62]
          Length = 505

 Score =  364 bits (935), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 211/477 (44%), Positives = 318/477 (66%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 9   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 68

Query: 67  EVVEEVENYTCQISLKVARD-----RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT     K   +      D +I IG    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 69  LIVAD-EDYTYPDVEKTIEEIQEEIPDTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQR 127

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R G
Sbjct: 128 IRDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSG 187

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++    +R E+ G     Q++LSRT   F+VKL+  EVPEI +G+++++AV+RDPG 
Sbjct: 188 DRIRALF--LRVEEIGNTGRKQIILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQ 245

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA 
Sbjct: 246 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAE 305

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKD 354
           V+++V+DED   ++VIV +++L+LAIGR GQNVRLAS LTGW ++I+T  E D  N  +D
Sbjct: 306 VSRIVIDEDKHAVDVIVAEDRLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAED 365

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR
Sbjct: 366 AAIR-RLFMNHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRAR 424

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  + I  ++K+ E  VS+++ ++ G+D+ + ++L E GI T +DLA  +VD+L+
Sbjct: 425 DAILTMAIAAEEKLGE--VSDDMRNLEGVDADMLLSLAEAGITTRDDLAELAVDELI 479


>gi|50119658|ref|YP_048825.1| transcription elongation factor NusA [Pectobacterium atrosepticum
           SCRI1043]
 gi|49610184|emb|CAG73626.1| N utilization substance protein A [Pectobacterium atrosepticum
           SCRI1043]
          Length = 509

 Score =  364 bits (935), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 205/477 (42%), Positives = 305/477 (63%), Gaps = 14/477 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIDVRVSIDRKTGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV EV   T +I+L  A+  DPS+D+GG V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVNEVTLPTREITLDAAQFEDPSLDVGGYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-------VIRRDETISRENLRPGD 180
                +F+ + GEII+G VK+V   N+ +++   DG       VI R++ + REN RPGD
Sbjct: 124 AMVVDQFRQQEGEIITGVVKKVNRDNISLEVRPIDGSNTSAEAVIGREDMLPRENFRPGD 183

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R++  +Y VR E RG Q+ +SR+ P+ +V+LF +EVPEI   I+++KA +RDPGSRAK+A
Sbjct: 184 RIRGVLYSVRPEARGAQLFVSRSRPEMLVELFRIEVPEIGEEIIEIKAAARDPGSRAKIA 243

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V ++D  IDPVGACVGMRG+RVQAV +EL  E+ID+++W  + A FVINA+ PA V  +V
Sbjct: 244 VKTNDKRIDPVGACVGMRGARVQAVSSELGGERIDVILWDDNPAQFVINAMAPADVVSIV 303

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTG-------WTIDIITEEEDSINRQK 353
           +DED   +++ V    L+ AIGR GQNVRLASQL         W ++++T E+     Q 
Sbjct: 304 VDEDTYTMDIAVESSNLAQAIGRNGQNVRLASQLLKQHRSEDRWELNVMTVEDLQAKHQA 363

Query: 354 DFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           + +     F + +++DE  A +LV EGF+ +EELA V I E+ +IEGFDEET   ++ RA
Sbjct: 364 EAHAAIDVFTKHLDIDEEFATVLVEEGFSSLEELAYVPIKELLAIEGFDEETVEALRERA 423

Query: 414 REYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           +  L  + +  ++ + +   +E+L S+PG+  ++   L   G+ T+EDLA   VDDL
Sbjct: 424 KAALTTLALAHEESLGDGQPAEDLLSLPGLSRELAFKLAAIGVCTLEDLAEQGVDDL 480


>gi|218768664|ref|YP_002343176.1| transcription elongation factor NusA [Neisseria meningitidis Z2491]
 gi|121052672|emb|CAM09013.1| N utilisation substance protein A [Neisseria meningitidis Z2491]
          Length = 505

 Score =  364 bits (935), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 213/477 (44%), Positives = 321/477 (67%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 9   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 68

Query: 67  EVVEEVENYT---CQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT    + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 69  LIVAD-EDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQR 127

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R G
Sbjct: 128 IRDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSG 187

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++    +R E+ G     QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG 
Sbjct: 188 DRIRALF--LRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQ 245

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA 
Sbjct: 246 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAE 305

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKD 354
           V+++V+DED   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T  E D  N  +D
Sbjct: 306 VSRIVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAED 365

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR
Sbjct: 366 AAIR-RLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRAR 424

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  +VD+L+
Sbjct: 425 DAILTMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELI 479


>gi|239999349|ref|ZP_04719273.1| transcription elongation factor NusA [Neisseria gonorrhoeae 35/02]
 gi|240113616|ref|ZP_04728106.1| transcription elongation factor NusA [Neisseria gonorrhoeae MS11]
 gi|240126085|ref|ZP_04738971.1| transcription elongation factor NusA [Neisseria gonorrhoeae
           SK-92-679]
          Length = 500

 Score =  364 bits (935), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 212/477 (44%), Positives = 317/477 (66%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVVEEVENYTCQISLKVARD-----RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT     K   +      D +I IG    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 64  LIVAD-EDYTYPDVEKTIEEIQEEIPDTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R G
Sbjct: 123 IRDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSG 182

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++    +R E+ G     QV+LSRT   F+VKL+  EVPEI  G+++++AV+RDPG 
Sbjct: 183 DRIRALF--LRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIAGGMLEIRAVARDPGQ 240

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA 
Sbjct: 241 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAE 300

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKD 354
           V+++V+DED   ++VIV +++L+LAIGR GQNVRLAS LTGW ++I+T  E D  N  +D
Sbjct: 301 VSRIVIDEDKHAVDVIVAEDRLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAED 360

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR
Sbjct: 361 AAIR-RLFMNHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRAR 419

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  + I  ++K+ E  VS+++ ++ G+D+ + ++L E GI T +DLA  +VD+L+
Sbjct: 420 DAILTMAIAAEEKLGE--VSDDMRNLEGVDADMLLSLAEAGITTRDDLAELAVDELI 474


>gi|212634073|ref|YP_002310598.1| transcription elongation factor NusA [Shewanella piezotolerans WP3]
 gi|212555557|gb|ACJ28011.1| Transcription termination factor NusA [Shewanella piezotolerans
           WP3]
          Length = 499

 Score =  364 bits (935), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 189/467 (40%), Positives = 303/467 (64%), Gaps = 5/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK + R+ +   +  ++  A +  Y    ++RV I+ +TG    FR   
Sbjct: 4   EILLVAEAVSNEKGVPREKIFEALEIALATATKKKYEGDIEVRVAIDRKTGGYETFRRWM 63

Query: 68  VVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           VVE+    +EN   +I+L+ A   DP I++GG + D +  + F R+  Q+AKQVI+QKVR
Sbjct: 64  VVEDTGEPLENPFREITLEAAVYDDPEIELGGFIEDEIDSVAFDRITTQTAKQVIVQKVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER +   +F+D+ GE+I G VK+    +V+VDLG N+DGV+ +++ ISRE+ RPGDRV
Sbjct: 124 EAERAQIVDQFRDREGELIVGVVKKSNRESVVVDLGSNADGVLFKEDLISRESFRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ +Y VR E RG Q+ L+RT  + +++LF +EVPEI + ++++   +RDPGSRAK+AV 
Sbjct: 184 RALLYSVRPEARGAQLFLTRTKSEMLIELFRVEVPEIQDEMIEIMGAARDPGSRAKIAVK 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A +VIN + PA V  +++D
Sbjct: 244 SNDRRIDPIGACVGMRGARVQAVSNELGGERVDIVLWDDNPAQYVINCMAPADVASIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQN+RLA+QL+GW ++++T ++     Q +  +    F
Sbjct: 304 EDNHSMDIAVEADSLAQAIGRNGQNIRLATQLSGWELNVMTVDDMKAKHQAESAKVVNLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           +++++VD   A +L  EGF  +EE+A V  SE+  IEGFDE+    ++ RA+  +    +
Sbjct: 364 IESLDVDSEFAQVLADEGFTSLEEIAYVPSSELLEIEGFDEDIVESLRERAKAAISTRAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDD 469
             ++ +     SE+L ++ G+D  +   +   G+ T+EDLA   +DD
Sbjct: 424 ATEEALDGAEPSEDLLALEGLDRHLAFVMASKGVITLEDLAEQGIDD 470


>gi|240949224|ref|ZP_04753568.1| transcription elongation factor NusA [Actinobacillus minor NM305]
 gi|240296340|gb|EER46984.1| transcription elongation factor NusA [Actinobacillus minor NM305]
          Length = 498

 Score =  364 bits (934), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 186/470 (39%), Positives = 299/470 (63%), Gaps = 7/470 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + ++ +   +  ++  A +       D+RV ++ +TG+   FR   
Sbjct: 4   EILFAAEAVSNEKQLPKEAIFEALETALTIATKKSSDLDIDVRVSVDRKTGNFQTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV N T +ISL+ A+  DP+I +G +V D +  ++FGRVA+Q+  QV+  K+REAE+
Sbjct: 64  VVEEVHNMTREISLEAAQFEDPNIQLGDIVEDEVESIEFGRVAIQTFGQVVKTKIREAEK 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG------NSDGVIRRDETISRENLRPGDR 181
            +   EF+   G+IIS TVK+V   N+ ++L         + VI R++ + REN RPGDR
Sbjct: 124 GKIIDEFRSDEGKIISATVKKVTRDNIFLELQGKTEDIKGEAVIVREDMLPRENFRPGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+  +Y ++ E +GPQ+ L+R  P  + +LF +EVPEI    +++K  +RDPGSRAK+AV
Sbjct: 184 VRGVLYAIKPESKGPQIFLTRAKPVMLTELFKLEVPEIGEQTIEIKGAARDPGSRAKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +++
Sbjct: 244 KSNDKRIDPVGACVGMRGARVQAISNELGGERVDIVLWDDNPAQFVINAMAPADVSSIII 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           +++   +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T EE     Q++  +    
Sbjct: 304 NDETHSMDIAVEAKNLAQAIGRNGQNVRLATQLTGWTLNVMTVEELEKKNQEEDGKVINL 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV-EIQGRAREYLEGI 420
              A+ +DE  A +L+ EGF  +E +A V +  + +I+G ++E  V E+Q RA+  +   
Sbjct: 364 LTSALEIDEEFAQVLIEEGFTSLEAIAYVPVDALTAIDGLEDEDLVEELQARAKNAITKQ 423

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
            +  ++ +++  + E+L ++ G++  I   L E GI T+EDLA    D+L
Sbjct: 424 ALAEEEALKQAHIDEKLLNLEGMERHIAFRLAEKGITTLEDLAEQGTDEL 473


>gi|325198741|gb|ADY94197.1| transcription termination/antitermination protein nusA [Neisseria
           meningitidis G2136]
          Length = 500

 Score =  364 bits (934), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 213/477 (44%), Positives = 321/477 (67%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVVEEVENYT---CQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT    + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 64  LIVAD-EDYTYPDVEKTIEEIQEEIPGTAIQIGEYYEEQLPNEGFGRQAAQTAKQIILQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R G
Sbjct: 123 IRDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSG 182

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++    +R E+ G     QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG 
Sbjct: 183 DRIRALF--LRVEEIGNIGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQ 240

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA 
Sbjct: 241 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAE 300

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKD 354
           V+++V+DED   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T  E D  N  +D
Sbjct: 301 VSRIVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAED 360

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR
Sbjct: 361 AAIR-RLFMDYLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRAR 419

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  +VD+L+
Sbjct: 420 DAILTMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELI 474


>gi|194099046|ref|YP_002002127.1| transcription elongation factor NusA [Neisseria gonorrhoeae
           NCCP11945]
 gi|254494079|ref|ZP_05107250.1| transcription elongation factor NusA [Neisseria gonorrhoeae 1291]
 gi|268595172|ref|ZP_06129339.1| transcription elongation factor NusA [Neisseria gonorrhoeae 35/02]
 gi|268599676|ref|ZP_06133843.1| transcription elongation factor NusA [Neisseria gonorrhoeae MS11]
 gi|268684674|ref|ZP_06151536.1| transcription elongation factor NusA [Neisseria gonorrhoeae
           SK-92-679]
 gi|193934336|gb|ACF30160.1| transcription elongation factor NusA [Neisseria gonorrhoeae
           NCCP11945]
 gi|226513119|gb|EEH62464.1| transcription elongation factor NusA [Neisseria gonorrhoeae 1291]
 gi|268548561|gb|EEZ43979.1| transcription elongation factor NusA [Neisseria gonorrhoeae 35/02]
 gi|268583807|gb|EEZ48483.1| transcription elongation factor NusA [Neisseria gonorrhoeae MS11]
 gi|268624958|gb|EEZ57358.1| transcription elongation factor NusA [Neisseria gonorrhoeae
           SK-92-679]
 gi|317164606|gb|ADV08147.1| transcription elongation factor NusA [Neisseria gonorrhoeae
           TCDC-NG08107]
          Length = 503

 Score =  364 bits (934), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 212/477 (44%), Positives = 317/477 (66%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 7   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 66

Query: 67  EVVEEVENYTCQISLKVARD-----RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT     K   +      D +I IG    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 67  LIVAD-EDYTYPDVEKTIEEIQEEIPDTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQR 125

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R G
Sbjct: 126 IRDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSG 185

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++    +R E+ G     QV+LSRT   F+VKL+  EVPEI  G+++++AV+RDPG 
Sbjct: 186 DRIRALF--LRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIAGGMLEIRAVARDPGQ 243

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA 
Sbjct: 244 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAE 303

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKD 354
           V+++V+DED   ++VIV +++L+LAIGR GQNVRLAS LTGW ++I+T  E D  N  +D
Sbjct: 304 VSRIVIDEDKHAVDVIVAEDRLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAED 363

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR
Sbjct: 364 AAIR-RLFMNHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRAR 422

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  + I  ++K+ E  VS+++ ++ G+D+ + ++L E GI T +DLA  +VD+L+
Sbjct: 423 DAILTMAIAAEEKLGE--VSDDMRNLEGVDADMLLSLAEAGITTRDDLAELAVDELI 477


>gi|291043424|ref|ZP_06569145.1| transcription elongation factor NusA [Neisseria gonorrhoeae DGI2]
 gi|291012660|gb|EFE04645.1| transcription elongation factor NusA [Neisseria gonorrhoeae DGI2]
          Length = 505

 Score =  364 bits (934), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 211/477 (44%), Positives = 317/477 (66%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 9   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 68

Query: 67  EVVEEVENYTCQISLKVARD-----RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT     K   +      D +I IG    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 69  LIVAD-EDYTYPDVEKTIEEIQEEIPDTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQR 127

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R G
Sbjct: 128 IRDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSG 187

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++    +R E+ G     Q++LSRT   F+VKL+  EVPEI  G+++++AV+RDPG 
Sbjct: 188 DRIRALF--LRVEEIGNTGRKQIILSRTSGDFLVKLYANEVPEIAGGMLEIRAVARDPGQ 245

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA 
Sbjct: 246 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAE 305

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKD 354
           V+++V+DED   ++VIV +++L+LAIGR GQNVRLAS LTGW ++I+T  E D  N  +D
Sbjct: 306 VSRIVIDEDKHAVDVIVAEDRLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAED 365

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR
Sbjct: 366 AAIR-RLFMNHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRAR 424

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  + I  ++K+ E  VS+++ ++ G+D+ + ++L E GI T +DLA  +VD+L+
Sbjct: 425 DAILTMAIAAEEKLGE--VSDDMRNLEGVDADMLLSLAEAGITTRDDLAELAVDELI 479


>gi|254805397|ref|YP_003083618.1| N utilization substance protein A [Neisseria meningitidis alpha14]
 gi|254668939|emb|CBA07185.1| N utilization substance protein A [Neisseria meningitidis alpha14]
          Length = 500

 Score =  364 bits (934), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 213/477 (44%), Positives = 320/477 (67%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVVEEVENYT---CQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT    + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 64  LIVAD-EDYTYPDVEKTIEEIQEEIPGTAIQIGEYYEEQLPNESFGRQAAQTAKQIILQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R G
Sbjct: 123 IRDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSG 182

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++    +R E+ G     QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG 
Sbjct: 183 DRIRALF--LRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQ 240

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA 
Sbjct: 241 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAE 300

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKD 354
           V+++V+DED   ++VIV + QL+LAIGR GQNVRLAS LTGW ++I+T  E D  N  +D
Sbjct: 301 VSRIVIDEDKHAVDVIVDENQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAED 360

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR
Sbjct: 361 AAIR-RLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRAR 419

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  +VD+L+
Sbjct: 420 DAILTMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELI 474


>gi|325130689|gb|EGC53429.1| transcription termination/antitermination protein nusA [Neisseria
           meningitidis OX99.30304]
          Length = 500

 Score =  363 bits (933), Expect = 3e-98,   Method: Compositional matrix adjust.
 Identities = 213/477 (44%), Positives = 321/477 (67%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALAGEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVVEEVENYT---CQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT    + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 64  LIVAD-EDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R G
Sbjct: 123 IRDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSG 182

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++    +R E+ G     QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG 
Sbjct: 183 DRIRALF--LRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQ 240

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA 
Sbjct: 241 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAE 300

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKD 354
           V+++V+DED   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T  E D  N  +D
Sbjct: 301 VSRIVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAED 360

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR
Sbjct: 361 AAIR-RLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRAR 419

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  +VD+L+
Sbjct: 420 DAILTMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELI 474


>gi|308389761|gb|ADO32081.1| N utilization substance protein A [Neisseria meningitidis alpha710]
          Length = 500

 Score =  363 bits (933), Expect = 3e-98,   Method: Compositional matrix adjust.
 Identities = 213/477 (44%), Positives = 321/477 (67%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVVEEVENYT---CQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT    + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 64  LIVAD-EDYTYPDVEKTIEEIQEEIPGTAIQIGEYYEEQLPNEGFGRQAAQTAKQIILQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R G
Sbjct: 123 IRDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSG 182

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++    +R E+ G     QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG 
Sbjct: 183 DRIRALF--LRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQ 240

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA 
Sbjct: 241 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAE 300

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKD 354
           V+++V+DED   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T  E D  N  +D
Sbjct: 301 VSRIVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAED 360

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR
Sbjct: 361 AAIR-RLFMDYLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRAR 419

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  +VD+L+
Sbjct: 420 DAILTMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELI 474


>gi|163857446|ref|YP_001631744.1| transcription elongation factor NusA [Bordetella petrii DSM 12804]
 gi|163261174|emb|CAP43476.1| N utilization substance protein A [Bordetella petrii]
          Length = 492

 Score =  363 bits (933), Expect = 3e-98,   Method: Compositional matrix adjust.
 Identities = 202/469 (43%), Positives = 303/469 (64%), Gaps = 12/469 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++ R+VV   +  ++  A +  +   ++IRV I+ ETG    FR   
Sbjct: 4   EILLLVDALAREKNVTREVVFGALESALASAMKKRFKEDAEIRVAIDRETGSHEGFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    Q  L  A +  P+I +G  + +PL P++FGR+  Q+AKQ I+QK+R+
Sbjct: 64  VVPDEAGLQEPDKQEMLSDALELVPNIQVGEYIEEPLEPIEFGRIGAQAAKQAILQKIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F D+   IISGT+KR++ G++IV+ G  +  + R E I +EN R GDR+++
Sbjct: 124 AEREQVLNDFLDRGETIISGTIKRMDKGDIIVETGKIEARLPRSEMIPKENFRVGDRLRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           ++  V    RG QV+LSRT P+F+ +LF  EVPEI  G++++KA +RDPG RAK+AV + 
Sbjct: 184 FVLRVDHAARGQQVILSRTSPEFIRQLFENEVPEIEQGLLEIKAAARDPGVRAKIAVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVGMRGSRV AV  EL  E++DIV+WS D A FVI AL PA V  +V+DED
Sbjct: 244 DKRIDPIGTCVGMRGSRVTAVRNELGGEQVDIVLWSEDPAQFVIGALAPANVESIVVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF--- 361
              ++V+V +E L  AIG +GQNVRLAS+LTGW I+I+T EE S++RQ+   ER      
Sbjct: 304 KHAMDVVVDEENLPKAIGAKGQNVRLASELTGWQINIMTPEE-SLSRQE--TERAGLRAA 360

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM  ++VDE +A +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RAR  L    
Sbjct: 361 FMSKLDVDEEVADILIDEGFTGIEEIAYVPMQELLEIEAFDEDTINELRARARNALLTEA 420

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           I  +++   L  +++L  + G+  ++   L E  + T +DLA  + D+L
Sbjct: 421 IAQEER---LETAQDLLELEGMTPELAAKLAERQVLTRDDLAELATDEL 466


>gi|313667982|ref|YP_004048266.1| N utilisation substance protein A [Neisseria lactamica ST-640]
 gi|313005444|emb|CBN86879.1| N utilisation substance protein A [Neisseria lactamica 020-06]
          Length = 500

 Score =  363 bits (933), Expect = 3e-98,   Method: Compositional matrix adjust.
 Identities = 211/477 (44%), Positives = 320/477 (67%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+   G    D+RV+I+ +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKAGREHMDVRVQIDRDTGEYQTFRRW 63

Query: 67  EVVEEVENYT---CQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT    + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 64  LIVAD-EDYTYPDVEKTIEEIQEEIPGTAIQIGEYYEEQLPNEGFGRQAAQTAKQIILQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I++GTVKRVE   +IV++  G  D +I RD++I REN R G
Sbjct: 123 IRDAEREQNLNEFLATREDIVAGTVKRVERHGIIVEVVAGKLDALIPRDQSIPRENFRSG 182

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++     R E+ G     QV+LSRT   F+ KL+  EVPEI +G++++++V+RDPG 
Sbjct: 183 DRIRALFQ--RVEEIGNTGRKQVILSRTSADFLAKLYANEVPEISDGLLEIRSVARDPGQ 240

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA 
Sbjct: 241 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAE 300

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKD 354
           V+++V+DED   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T  E D  N  +D
Sbjct: 301 VSRIVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAED 360

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR
Sbjct: 361 AAIR-RLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRAR 419

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  + I  ++K+ E  VSE++ ++ G+D+ +   L E GI T +DLA  SVD+L+
Sbjct: 420 DAILTMAIAAEEKLGE--VSEDMRNLEGVDADMLRNLAEAGITTRDDLAELSVDELI 474


>gi|240016979|ref|ZP_04723519.1| transcription elongation factor NusA [Neisseria gonorrhoeae FA6140]
 gi|240081421|ref|ZP_04725964.1| transcription elongation factor NusA [Neisseria gonorrhoeae FA19]
 gi|240116051|ref|ZP_04730113.1| transcription elongation factor NusA [Neisseria gonorrhoeae PID18]
 gi|240118338|ref|ZP_04732400.1| transcription elongation factor NusA [Neisseria gonorrhoeae PID1]
 gi|240123886|ref|ZP_04736842.1| transcription elongation factor NusA [Neisseria gonorrhoeae PID332]
 gi|240128559|ref|ZP_04741220.1| transcription elongation factor NusA [Neisseria gonorrhoeae
           SK-93-1035]
 gi|260440135|ref|ZP_05793951.1| transcription elongation factor NusA [Neisseria gonorrhoeae DGI2]
          Length = 500

 Score =  363 bits (933), Expect = 3e-98,   Method: Compositional matrix adjust.
 Identities = 211/477 (44%), Positives = 317/477 (66%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVVEEVENYTCQISLKVARD-----RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT     K   +      D +I IG    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 64  LIVAD-EDYTYPDVEKTIEEIQEEIPDTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R G
Sbjct: 123 IRDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSG 182

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++    +R E+ G     Q++LSRT   F+VKL+  EVPEI  G+++++AV+RDPG 
Sbjct: 183 DRIRALF--LRVEEIGNTGRKQIILSRTSGDFLVKLYANEVPEIAGGMLEIRAVARDPGQ 240

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA 
Sbjct: 241 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAE 300

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKD 354
           V+++V+DED   ++VIV +++L+LAIGR GQNVRLAS LTGW ++I+T  E D  N  +D
Sbjct: 301 VSRIVIDEDKHAVDVIVAEDRLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAED 360

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR
Sbjct: 361 AAIR-RLFMNHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRAR 419

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  + I  ++K+ E  VS+++ ++ G+D+ + ++L E GI T +DLA  +VD+L+
Sbjct: 420 DAILTMAIAAEEKLGE--VSDDMRNLEGVDADMLLSLAEAGITTRDDLAELAVDELI 474


>gi|183600365|ref|ZP_02961858.1| hypothetical protein PROSTU_03930 [Providencia stuartii ATCC 25827]
 gi|188020156|gb|EDU58196.1| hypothetical protein PROSTU_03930 [Providencia stuartii ATCC 25827]
          Length = 502

 Score =  363 bits (933), Expect = 3e-98,   Method: Compositional matrix adjust.
 Identities = 206/487 (42%), Positives = 313/487 (64%), Gaps = 16/487 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIDVRVEIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VE+V   T +I+L+ A+  +P + +G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEDVTMPTREITLEAAQFENPELKLGEYVEDQIESVAFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F+++ GEII+  VK+V   N+ +DLGN ++ VI R++ + REN RPGDR++  +
Sbjct: 124 AMVVDQFREQQGEIITAQVKKVNRENITLDLGNNAEAVILREDMLPRENFRPGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           YDVR E RG Q+ ++R+ P+ +V+LF +EVPEI   I+++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YDVRPEARGAQLFVTRSRPEMLVELFRIEVPEIGEEIIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKC 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLT-------GWTIDIITEEEDSINRQKDFNERT 359
            ++V V    L+ AIGR GQNVRLA+QL         W ++++T EE +   Q + +   
Sbjct: 304 TMDVAVESSNLAQAIGRNGQNVRLAAQLLKKHRGDDKWELNVMTAEELNAKHQAEAHASI 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             F + +++DE  A  LV EGF+ +EELA V I E+  I+G DEET   ++ RA+  L  
Sbjct: 364 DTFTKHLDIDEEFATALVEEGFSTLEELAYVPIKELLEIDGLDEETVEVLRERAKAALTT 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           I++  ++ + +   +E+L ++ G+D+ +   L   GI T+EDLA   +DDL+        
Sbjct: 424 IELAQKESLGDNQPAEDLLNLDGMDNTLAYNLAIRGICTLEDLAEQGIDDLI-------- 475

Query: 480 NIEKFDG 486
           +IE  DG
Sbjct: 476 DIEGLDG 482


>gi|325132774|gb|EGC55456.1| transcription termination/antitermination protein nusA [Neisseria
           meningitidis M6190]
          Length = 500

 Score =  363 bits (932), Expect = 3e-98,   Method: Compositional matrix adjust.
 Identities = 213/477 (44%), Positives = 320/477 (67%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVVEEVENYT---CQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT    + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 64  LIVAD-EDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R G
Sbjct: 123 IRDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSG 182

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++    +R E+ G     QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG 
Sbjct: 183 DRIRALF--LRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQ 240

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA 
Sbjct: 241 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAE 300

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKD 354
           V+++V+DED   ++VIV + QL+LAIGR GQNVRLAS LTGW ++I+T  E D  N  +D
Sbjct: 301 VSRIVIDEDKHAVDVIVDENQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAED 360

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR
Sbjct: 361 AAIR-RLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRAR 419

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  +VD+L+
Sbjct: 420 DAILTMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELI 474


>gi|268597521|ref|ZP_06131688.1| transcription elongation factor NusA [Neisseria gonorrhoeae FA19]
 gi|268601718|ref|ZP_06135885.1| transcription elongation factor NusA [Neisseria gonorrhoeae PID18]
 gi|268604051|ref|ZP_06138218.1| transcription elongation factor NusA [Neisseria gonorrhoeae PID1]
 gi|268682510|ref|ZP_06149372.1| transcription elongation factor NusA [Neisseria gonorrhoeae PID332]
 gi|268686952|ref|ZP_06153814.1| transcription elongation factor NusA [Neisseria gonorrhoeae
           SK-93-1035]
 gi|268551309|gb|EEZ46328.1| transcription elongation factor NusA [Neisseria gonorrhoeae FA19]
 gi|268585849|gb|EEZ50525.1| transcription elongation factor NusA [Neisseria gonorrhoeae PID18]
 gi|268588182|gb|EEZ52858.1| transcription elongation factor NusA [Neisseria gonorrhoeae PID1]
 gi|268622794|gb|EEZ55194.1| transcription elongation factor NusA [Neisseria gonorrhoeae PID332]
 gi|268627236|gb|EEZ59636.1| transcription elongation factor NusA [Neisseria gonorrhoeae
           SK-93-1035]
          Length = 503

 Score =  363 bits (932), Expect = 4e-98,   Method: Compositional matrix adjust.
 Identities = 211/477 (44%), Positives = 317/477 (66%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 7   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 66

Query: 67  EVVEEVENYTCQISLKVARD-----RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT     K   +      D +I IG    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 67  LIVAD-EDYTYPDVEKTIEEIQEEIPDTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQR 125

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R G
Sbjct: 126 IRDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSG 185

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++    +R E+ G     Q++LSRT   F+VKL+  EVPEI  G+++++AV+RDPG 
Sbjct: 186 DRIRALF--LRVEEIGNTGRKQIILSRTSGDFLVKLYANEVPEIAGGMLEIRAVARDPGQ 243

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA 
Sbjct: 244 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAE 303

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKD 354
           V+++V+DED   ++VIV +++L+LAIGR GQNVRLAS LTGW ++I+T  E D  N  +D
Sbjct: 304 VSRIVIDEDKHAVDVIVAEDRLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAED 363

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR
Sbjct: 364 AAIR-RLFMNHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRAR 422

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  + I  ++K+ E  VS+++ ++ G+D+ + ++L E GI T +DLA  +VD+L+
Sbjct: 423 DAILTMAIAAEEKLGE--VSDDMRNLEGVDADMLLSLAEAGITTRDDLAELAVDELI 477


>gi|77359942|ref|YP_339517.1| transcription elongation factor NusA [Pseudoalteromonas
           haloplanktis TAC125]
 gi|76874853|emb|CAI86074.1| transcription elongation protein (N utilization substance protein
           A) (L factor) [Pseudoalteromonas haloplanktis TAC125]
          Length = 499

 Score =  363 bits (932), Expect = 4e-98,   Method: Compositional matrix adjust.
 Identities = 186/474 (39%), Positives = 310/474 (65%), Gaps = 6/474 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR--- 64
           E+L +A+AV+ EK++ ++ +   +  ++  A +  +G   D+RV I+ +TGD   +R   
Sbjct: 4   EILLVAEAVSNEKAVPKEKIFEALEFALATATKKKHGGDIDVRVAIDRKTGDYDTYRRWQ 63

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           +  V+E+  +EN   +I+L+ A+  +P + +G  V + +  + F R+  Q AKQVI+QKV
Sbjct: 64  IAAVLEDGSLENPYSEITLEAAQVEEPDLQMGDFVEEQIDSIKFDRITTQMAKQVIVQKV 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDR 181
           REAER     E+K K GE+++G VK+     +++DLGN ++ VI RD+ + REN RPGDR
Sbjct: 124 REAERALVVEEYKSKEGELVTGVVKKATRDAIVLDLGNNAEAVIYRDDMLPRENFRPGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++  +Y+V+ E RG Q+ ++R+ P+ +++LF +EVPEI   +++++A +RDPGSRAK+AV
Sbjct: 184 IRGLLYEVKPEARGAQLFVTRSKPEMLMELFRIEVPEIGEEMIELRAAARDPGSRAKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+D  IDP+GACVGMRG+RVQAV +EL  E++DIV++  + A FVINA+ PA V  +V+
Sbjct: 244 KSNDKRIDPIGACVGMRGARVQAVSSELGGERVDIVLYDDNPAQFVINAMAPAEVASIVM 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   +++ V  + L+ AIGR GQNVRLASQLTGW ++++T E+     + + ++    
Sbjct: 304 DEDTHSMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVEDMRSKNEAESDKLLNL 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + + +D+  A LL+ EGF+ +EE+A V  SE   I+G DEET   ++ RA++ L    
Sbjct: 364 FTENLEIDDEFASLLINEGFSSLEEVAYVPASEFLEIDGLDEETVDLLRSRAKDALTTKA 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSE 475
           +  ++ +     +E+L ++ G++  +   +   G+ T+EDLA   +D+L+  +E
Sbjct: 424 LKTEESLDGAEPAEDLLALEGLERHLAFVMASKGVITLEDLAEQGIDELVDITE 477


>gi|261820127|ref|YP_003258233.1| transcription elongation factor NusA [Pectobacterium wasabiae
           WPP163]
 gi|261604140|gb|ACX86626.1| NusA antitermination factor [Pectobacterium wasabiae WPP163]
          Length = 509

 Score =  363 bits (932), Expect = 4e-98,   Method: Compositional matrix adjust.
 Identities = 205/477 (42%), Positives = 305/477 (63%), Gaps = 14/477 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIDVRVSIDRKTGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV EV   T +I+L  A+  DPS+D+GG V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVNEVTLPTREITLDAAQFEDPSLDVGGYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-------VIRRDETISRENLRPGD 180
                +F+++ GEII+G VK+V   N+ +++   DG       VI R++ + REN RPGD
Sbjct: 124 AMVVDQFREQEGEIITGVVKKVNRDNISLEVRPIDGSNTGAEAVIGREDMLPRENFRPGD 183

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R++  +Y VR E RG Q+ +SR+ P+ +V+LF +EVPEI   I+++KA +RDPGSRAK+A
Sbjct: 184 RIRGVLYSVRPEARGAQLFVSRSRPEMLVELFRIEVPEIGEEIIEIKAAARDPGSRAKIA 243

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V ++D  IDPVGACVGMRG+RVQAV +EL  E+IDI++W  + A FVINA+ PA V  +V
Sbjct: 244 VKTNDKRIDPVGACVGMRGARVQAVSSELGGERIDIILWDDNPAQFVINAMAPADVVSIV 303

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTG-------WTIDIITEEEDSINRQK 353
           +DED   +++ V    L+ AIGR GQNVRLASQL         W ++++T E+     Q 
Sbjct: 304 VDEDTCTMDIAVESSNLAQAIGRNGQNVRLASQLLKQHRSDDRWELNVMTVEDLQAKHQA 363

Query: 354 DFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           + +     F + +++DE  A +LV EGF+ +EELA V I E+ +IEG DEET   ++ RA
Sbjct: 364 EAHAAIDVFTKHLDIDEEFATVLVEEGFSSLEELAYVPIKELLAIEGLDEETVEALRERA 423

Query: 414 REYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           +  L  + +  ++ + +   +E+L S+PG+  ++   L   G+ T+EDLA   VDDL
Sbjct: 424 KAALTTLALAHEESLGDGQPAEDLLSLPGLSRELAFKLAAIGVCTLEDLAEQGVDDL 480


>gi|121635282|ref|YP_975527.1| transcription elongation factor NusA [Neisseria meningitidis FAM18]
 gi|120866988|emb|CAM10751.1| N utilisation substance protein A [Neisseria meningitidis FAM18]
          Length = 505

 Score =  363 bits (932), Expect = 4e-98,   Method: Compositional matrix adjust.
 Identities = 213/477 (44%), Positives = 320/477 (67%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 9   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 68

Query: 67  EVVEEVENYT---CQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT    + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 69  LIVAD-EDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQR 127

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R G
Sbjct: 128 IRDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSG 187

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++    +R E+ G     QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG 
Sbjct: 188 DRIRALF--LRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQ 245

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA 
Sbjct: 246 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAE 305

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKD 354
           V+++V+DED   ++VIV + QL+LAIGR GQNVRLAS LTGW ++I+T  E D  N  +D
Sbjct: 306 VSRIVIDEDKHAVDVIVDENQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAED 365

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR
Sbjct: 366 AAIR-RLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRAR 424

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  +VD+L+
Sbjct: 425 DAILTMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELI 479


>gi|325142812|gb|EGC65183.1| transcription termination/antitermination protein nusA [Neisseria
           meningitidis 961-5945]
 gi|325201699|gb|ADY97153.1| transcription termination/antitermination protein nusA [Neisseria
           meningitidis M01-240149]
 gi|325208565|gb|ADZ04017.1| transcription termination/antitermination protein nusA [Neisseria
           meningitidis NZ-05/33]
          Length = 500

 Score =  363 bits (932), Expect = 4e-98,   Method: Compositional matrix adjust.
 Identities = 213/477 (44%), Positives = 320/477 (67%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVVEEVENYT---CQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT    + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 64  LIVAD-EDYTYPDVEKTIEEIQEEIPGTAIQIGEYYEEQLPNEGFGRQAAQTAKQIILQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R G
Sbjct: 123 IRDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSG 182

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++    +R E+ G     QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG 
Sbjct: 183 DRIRALF--LRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQ 240

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA 
Sbjct: 241 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAE 300

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKD 354
           V+++V+DED   ++VIV + QL+LAIGR GQNVRLAS LTGW ++I+T  E D  N  +D
Sbjct: 301 VSRIVIDEDKHAVDVIVDENQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAED 360

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR
Sbjct: 361 AAIR-RLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRAR 419

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  +VD+L+
Sbjct: 420 DAILTMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELI 474


>gi|161870486|ref|YP_001599658.1| transcription elongation factor NusA [Neisseria meningitidis
           053442]
 gi|161596039|gb|ABX73699.1| N utilisation substance protein A [Neisseria meningitidis 053442]
          Length = 496

 Score =  363 bits (932), Expect = 4e-98,   Method: Compositional matrix adjust.
 Identities = 212/476 (44%), Positives = 321/476 (67%), Gaps = 19/476 (3%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLLE 67
           +LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR   
Sbjct: 1   MLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRWL 60

Query: 68  VVEEVENYT---CQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           +V + E+YT    + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 61  IVAD-EDYTYPDVEKTIEEIQEEIPGIAIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 119

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R GD
Sbjct: 120 RDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSGD 179

Query: 181 RVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
           R+++    +R E+ G     QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG R
Sbjct: 180 RIRALF--LRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQR 237

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           AK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V
Sbjct: 238 AKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEV 297

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKDF 355
           +++V+DED   ++VIV ++QL+LAIGR GQNVRLAS+LTGW ++I+T  E D  N  +D 
Sbjct: 298 SRIVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASELTGWQLNIMTSAEADERNAAEDA 357

Query: 356 NERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
             R + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+
Sbjct: 358 AIR-RLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARD 416

Query: 416 YLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
            +  + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  +VD+L+
Sbjct: 417 AILTMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELI 470


>gi|311104987|ref|YP_003977840.1| transcription elongation protein NusA [Achromobacter xylosoxidans
           A8]
 gi|310759676|gb|ADP15125.1| transcription elongation protein NusA [Achromobacter xylosoxidans
           A8]
          Length = 492

 Score =  363 bits (931), Expect = 5e-98,   Method: Compositional matrix adjust.
 Identities = 206/483 (42%), Positives = 307/483 (63%), Gaps = 15/483 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++ RDVV   +  ++  A +  +   +DIRV I+ +TGD   FR   
Sbjct: 4   EILLLVDALAREKNVTRDVVFGALESALASAMKKRFKDDADIRVAIDRDTGDHEGFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    Q  L  A++  P I  G  + +PL P++FGR+  Q+AKQ I+QK+R+
Sbjct: 64  VVPDEAGLQEPDKQEMLSDAQEIVPGIQEGEYIEEPLEPIEFGRIGAQAAKQAILQKIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F D+   I+SGT+KR++ G+ IV+ G  +  + R E I +ENLR  DRV++
Sbjct: 124 AEREQVLNDFLDRGESIVSGTIKRMDKGDAIVETGKIEARLPRSEMIPKENLRVADRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           ++  V    RG QV+LSRT P F+ +LF  EVPEI  G++++KA +RD G RAK+AV + 
Sbjct: 184 FVLRVDHAARGQQVILSRTAPDFIRQLFENEVPEIEQGLLEIKAAARDAGVRAKIAVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVGMRGSRV AV  EL  E++DIV+WS D A FVI AL PA V  +V+DED
Sbjct: 244 DKRIDPIGTCVGMRGSRVTAVRNELGGEQVDIVLWSEDPAQFVIGALAPANVESIVVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF--- 361
              ++V+V +E L  AIG +GQNVRLAS+LTGW I+I+T EE S+NRQ+   ER+     
Sbjct: 304 KHAMDVVVDEENLPKAIGAKGQNVRLASELTGWQINIMTPEE-SLNRQE--VERSGLRAT 360

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM  ++VDE +A +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RAR  L    
Sbjct: 361 FMSKLDVDEEVADILIDEGFTGIEEIAYVPMQELLEIEAFDEDTINELRARARNALLTEA 420

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL---LGWSENKG 478
           I  +++   L  +++L  + G+  ++   L E  + T +DLA  + D+L    G +E + 
Sbjct: 421 IAQEER---LETAQDLLELEGMTPELAAKLAERQVHTRDDLAELATDELAEIAGLTEQEA 477

Query: 479 GNI 481
            ++
Sbjct: 478 SDL 480


>gi|114562167|ref|YP_749680.1| transcription elongation factor NusA [Shewanella frigidimarina
           NCIMB 400]
 gi|114333460|gb|ABI70842.1| NusA antitermination factor [Shewanella frigidimarina NCIMB 400]
          Length = 499

 Score =  362 bits (930), Expect = 6e-98,   Method: Compositional matrix adjust.
 Identities = 192/482 (39%), Positives = 309/482 (64%), Gaps = 8/482 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK + R+ +   +  ++  A +  Y    ++RV I+ +TG    FR   
Sbjct: 4   EILLVAEAVSNEKGLPREKIFEALEIALATATKKKYEGDIEVRVAIDRKTGHYDTFRRWM 63

Query: 68  VV----EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           VV    E +EN   +I+ + AR  +P I +G  + D +  + F R+  Q+AKQVI+QKVR
Sbjct: 64  VVDDQGEALENPYSEITFEAARYEEPEIQVGEFIEDQIDSVAFDRITTQTAKQVIVQKVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +   +F ++ GEI++G VK+    +V+VDLGN +DGV+ +++ ISRE+ RPGDRV
Sbjct: 124 EAERAQIVEQFIEREGEIVTGVVKKSTRESVVVDLGNNADGVLFKEDLISRESFRPGDRV 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ +Y VR E RG Q+ L+R+  + +++LF +EVPEIY+ +++V   +RDPG+RAK+AV 
Sbjct: 184 RALLYSVRPEARGAQLFLTRSKAEMLIELFRVEVPEIYDELIEVMGAARDPGARAKIAVK 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A +VINA+ PA V  +++D
Sbjct: 244 SNDRRIDPIGACVGMRGARVQAVSNELGGERVDIVLWDDNPAQYVINAMAPADVASIIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLA+QLTGW ++++T E+ +   Q +  +    F
Sbjct: 304 EDNHSMDIAVEADSLAQAIGRNGQNVRLATQLTGWELNVMTVEDMNKKHQAESAKVIDLF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           +  ++VD+  A +L  EGF  +EE+A V  SE+ ++EGFDE     ++ RA+  +    +
Sbjct: 364 VAYLDVDKDFAAVLADEGFTSLEEIAYVPESELLAVEGFDEGIVEALRERAKAAISTRAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG---WSENKGG 479
             ++ +     S++L ++ G++  +   L   G+ T+EDLA   +DDL+     +E K G
Sbjct: 424 ASEEALDGAEPSDDLLALEGLERHLAYVLASKGVVTLEDLAEQGIDDLIDIEELTEEKAG 483

Query: 480 NI 481
            +
Sbjct: 484 EL 485


>gi|289825801|ref|ZP_06544969.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. E98-3139]
          Length = 472

 Score =  362 bits (930), Expect = 6e-98,   Method: Compositional matrix adjust.
 Identities = 189/448 (42%), Positives = 291/448 (64%), Gaps = 9/448 (2%)

Query: 43  YGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLP 102
           Y    D+RVEI+ ++GD   FR   +VEEV   T +I+L+ AR  D S+++G  V D + 
Sbjct: 11  YEQEIDVRVEIDRKSGDFDTFRRWLIVEEVTMPTKEITLEAARFEDESLNVGDYVEDQIE 70

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL---- 158
            + F R+  Q+AKQVI+QKVREAER     +F+D+ GEI++G VK+V   N+ +++    
Sbjct: 71  SVTFDRITTQTAKQVIVQKVREAERAMVVDQFRDQEGEIVTGVVKKVNRDNISLEIKSEG 130

Query: 159 --GNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEV 216
             GN++ VI R++ + REN RPGDR++  +Y VR E RG Q+ ++R+ P+ +++LF +EV
Sbjct: 131 MAGNAEAVILREDMLPRENFRPGDRIRGVLYAVRPEARGAQLFVTRSKPEMLIELFRIEV 190

Query: 217 PEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDI 276
           PEI   ++++KA +RDPGSRAK+AV ++D  IDPVGACVGMRG+RVQAV TEL  E+IDI
Sbjct: 191 PEIGEEVIEIKAAARDPGSRAKIAVKTNDKRIDPVGACVGMRGARVQAVSTELGGERIDI 250

Query: 277 VVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTG 336
           V+W  + A FVINA+ PA V  +V+DED   +++ V    L+ AIGR GQNV LASQL+G
Sbjct: 251 VLWDDNPAQFVINAMAPADVASIVVDEDKHTMDIAVEAGNLAQAIGRNGQNVHLASQLSG 310

Query: 337 WTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIA 396
           W ++++T ++     Q + +   + F + +++DE  A +LV EGF+ +EELA V + E+ 
Sbjct: 311 WELNVMTVDDLQAKHQAEAHAAIEIFTKYLDIDEEFATVLVEEGFSTLEELAYVPMKELL 370

Query: 397 SIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGI 456
            I+G DE T   ++ RA+  L  +    +  + +   +++L ++ G+D  +   L   G+
Sbjct: 371 EIDGLDEPTVEALRERAKNALATLAQDQEASLGDNKPADDLLNLEGLDRDMAFKLAARGV 430

Query: 457 KTMEDLAGCSVDDLL---GWSENKGGNI 481
            T+EDLA   +DDL    G ++ K G +
Sbjct: 431 CTLEDLADQGIDDLADIEGLTDEKAGEL 458


>gi|213580130|ref|ZP_03361956.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. E98-0664]
          Length = 464

 Score =  362 bits (930), Expect = 6e-98,   Method: Compositional matrix adjust.
 Identities = 188/443 (42%), Positives = 290/443 (65%), Gaps = 9/443 (2%)

Query: 48  DIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFG 107
           D+RVEI+ ++GD   FR   +VEEV   T +I+L+ AR  D S+++G  V D +  + F 
Sbjct: 8   DVRVEIDRKSGDFDTFRRWLIVEEVTMPTKEITLEAARFEDESLNVGDYVEDQIESVTFD 67

Query: 108 RVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNS 161
           R+  Q+AKQVI+QKVREAER     +F+D+ GEI++G VK+V   N+ +++      GN+
Sbjct: 68  RITTQTAKQVIVQKVREAERAMVVDQFRDQEGEIVTGVVKKVNRDNISLEIKSEGMAGNA 127

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           + VI R++ + REN RPGDR++  +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI  
Sbjct: 128 EAVILREDMLPRENFRPGDRIRGVLYAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGE 187

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
            ++++KA +RDPGSRAK+AV ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  
Sbjct: 188 EVIEIKAAARDPGSRAKIAVKTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDD 247

Query: 282 DSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           + A FVINA+ PA V  +V+DED   +++ V    L+ AIGR GQNV LASQL+GW +++
Sbjct: 248 NPAQFVINAMAPADVASIVVDEDKHTMDIAVEAGNLAQAIGRNGQNVHLASQLSGWELNV 307

Query: 342 ITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
           +T ++     Q + +   + F + +++DE  A +LV EGF+ +EELA V + E+  I+G 
Sbjct: 308 MTVDDLQAKHQAEAHAAIEIFTKYLDIDEEFATVLVEEGFSTLEELAYVPMKELLEIDGL 367

Query: 402 DEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMED 461
           DE T   ++ RA+  L  +    +  + +   +++L ++ G+D  +   L   G+ T+ED
Sbjct: 368 DEPTVEALRERAKNALATLAQDQEASLGDNKPADDLLNLEGLDRDMAFKLAARGVCTLED 427

Query: 462 LAGCSVDDLL---GWSENKGGNI 481
           LA   +DDL    G ++ K G +
Sbjct: 428 LADQGIDDLADIEGLTDEKAGEL 450


>gi|325128688|gb|EGC51554.1| transcription termination/antitermination protein nusA [Neisseria
           meningitidis N1568]
          Length = 500

 Score =  362 bits (930), Expect = 7e-98,   Method: Compositional matrix adjust.
 Identities = 213/477 (44%), Positives = 320/477 (67%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVVEEVENYT---CQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT    + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 64  LIVAD-EDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R G
Sbjct: 123 IRDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRCG 182

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++    +R E+ G     QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG 
Sbjct: 183 DRIRALF--LRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQ 240

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA 
Sbjct: 241 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAE 300

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKD 354
           V+++V+DED   ++VIV + QL+LAIGR GQNVRLAS LTGW ++I+T  E D  N  +D
Sbjct: 301 VSRIVIDEDKHAVDVIVDENQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAED 360

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR
Sbjct: 361 AAIR-RLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRAR 419

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  +VD+L+
Sbjct: 420 DAILTMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELI 474


>gi|316984984|gb|EFV63938.1| transcription elongation protein nusA [Neisseria meningitidis
           H44/76]
          Length = 496

 Score =  362 bits (929), Expect = 8e-98,   Method: Compositional matrix adjust.
 Identities = 212/476 (44%), Positives = 320/476 (67%), Gaps = 19/476 (3%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLLE 67
           +LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR   
Sbjct: 1   MLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRWL 60

Query: 68  VVEEVENYT---CQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           +V + E+YT    + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 61  IVAD-EDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 119

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R GD
Sbjct: 120 RDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSGD 179

Query: 181 RVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
           R+++    +R E+ G     QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG R
Sbjct: 180 RIRALF--LRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQR 237

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           AK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V
Sbjct: 238 AKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEV 297

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKDF 355
           +++V+DED   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T  E D  N  +D 
Sbjct: 298 SRIVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDA 357

Query: 356 NERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
             R + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+
Sbjct: 358 AIR-RLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARD 416

Query: 416 YLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
            +  + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  +VD+L+
Sbjct: 417 AILTMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELI 470


>gi|261400895|ref|ZP_05987020.1| transcription termination/antitermination protein NusA [Neisseria
           lactamica ATCC 23970]
 gi|269209254|gb|EEZ75709.1| transcription termination/antitermination protein NusA [Neisseria
           lactamica ATCC 23970]
          Length = 500

 Score =  362 bits (929), Expect = 8e-98,   Method: Compositional matrix adjust.
 Identities = 210/477 (44%), Positives = 320/477 (67%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+   G    D+RV+I+ +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKAGREHMDVRVQIDRDTGEYQTFRRW 63

Query: 67  EVVEEVENYT---CQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT    + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 64  LIVAD-EDYTYPDVEKTIEEIQEEIPGTAIQIGEYYEEQLPNEGFGRQAAQTAKQIILQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I++GTVKRVE   +IV++  G  D +I RD++I REN R G
Sbjct: 123 IRDAEREQNLNEFLATREDIVAGTVKRVERHGIIVEVVAGKLDALIPRDQSIPRENFRSG 182

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++     R E+ G     QV+LSRT   F+ KL+  EVPEI +G++++++V+RDPG 
Sbjct: 183 DRIRALFQ--RVEEIGNTGRKQVILSRTSADFLAKLYANEVPEISDGLLEIRSVARDPGQ 240

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA 
Sbjct: 241 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAE 300

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKD 354
           V+++V+DED   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T  E D  N  +D
Sbjct: 301 VSRIVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAED 360

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR
Sbjct: 361 AAIR-RLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRAR 419

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  + I  ++K+ E  VS+++ ++ G+D+ +   L E GI T +DLA  SVD+L+
Sbjct: 420 DAILTMAIAAEEKLGE--VSDDMRNLEGVDADMLRNLAEAGITTRDDLAELSVDELI 474


>gi|309378387|emb|CBX22988.1| unnamed protein product [Neisseria lactamica Y92-1009]
          Length = 496

 Score =  361 bits (927), Expect = 1e-97,   Method: Compositional matrix adjust.
 Identities = 210/476 (44%), Positives = 318/476 (66%), Gaps = 19/476 (3%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLLE 67
           +LQ+A+A+A EK++D +VV   +  ++  AA+   G    D+RV+I+ +TG+   FR   
Sbjct: 1   MLQLAEALASEKNVDAEVVFQALEFALSTAAKKKAGREHMDVRVQIDRDTGEYQTFRRWL 60

Query: 68  VVEEVENYT---CQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           +V + E+YT    + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 61  IVAD-EDYTYPDIEKTIEEIQEEIPGTAIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 119

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I++GTVKRVE   +IV++  G  D +I RD++I REN R GD
Sbjct: 120 RDAEREQNLNEFLATREDIVTGTVKRVERHGIIVEVVAGKLDALIPRDQSIPRENFRSGD 179

Query: 181 RVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
           R+++     R E+ G     QV+LSRT   F+ KL+  EVPEI +G+++++AV+RDPG R
Sbjct: 180 RIRALFQ--RVEEIGNTGRKQVILSRTSADFLAKLYANEVPEISDGLLEIRAVARDPGQR 237

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           AK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP  A FV++AL PA V
Sbjct: 238 AKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPKPAQFVMSALSPAEV 297

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKDF 355
           +++V+DED   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T  E D  N  +D 
Sbjct: 298 SRIVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDA 357

Query: 356 NERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
             R + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+
Sbjct: 358 AIR-RLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARD 416

Query: 416 YLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
            +  + I  ++K+ E  VS+++ ++ G+D+ +   L E GI T +DLA  SVD+L+
Sbjct: 417 AILTMAIAAEEKLGE--VSDDMRNLEGVDADMLRNLAEAGITTRDDLAELSVDELI 470


>gi|160898430|ref|YP_001564012.1| NusA antitermination factor [Delftia acidovorans SPH-1]
 gi|160364014|gb|ABX35627.1| NusA antitermination factor [Delftia acidovorans SPH-1]
          Length = 495

 Score =  361 bits (927), Expect = 2e-97,   Method: Compositional matrix adjust.
 Identities = 199/469 (42%), Positives = 310/469 (66%), Gaps = 6/469 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           NR ELL + +A++ EK+++RD+V   +  ++ +A + LY    DIRV I+ ++G+   FR
Sbjct: 2   NR-ELLMLVEAISREKNVERDLVFGAVESALAQATKKLYQGEVDIRVAIDRDSGNYDTFR 60

Query: 65  LLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
              VV +   ++N   +  L  A+DR P I  G  + + +  +  GR+   +AKQVI+QK
Sbjct: 61  RWLVVPDDAGLQNPDAEEMLMDAQDRVPGISEGEYIEEEIESVPIGRIGAMAAKQVILQK 120

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+    EF  +   I +GTVKR++ G++IV+ G  +G +RR+E I +ENLR GDR
Sbjct: 121 IRDAEREMLLNEFLSRGDRIFTGTVKRMDKGDIIVEAGRVEGRLRRNEMIPKENLRNGDR 180

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I +V    RG  ++LSR+ P+FMV+LF  EVPEI  G++++K+ +RD GSRAK+AV
Sbjct: 181 VRAMIMEVDATLRGAPIILSRSAPEFMVELFRNEVPEIEQGLLEIKSCARDSGSRAKIAV 240

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  +DP+G CVG+RG+RV AV  EL  E++DIV+WS D A FVI AL PA V+ +V+
Sbjct: 241 LSHDKRVDPIGTCVGVRGTRVNAVTNELAGERVDIVLWSEDPAQFVIGALAPANVSSIVV 300

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+   ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+   E +  +  +     Q 
Sbjct: 301 DEEKHAMDVVVDEENLAIAIGRGGQNVRLASELTGWKINIMDAAESAQKQADESAVARQL 360

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+ ++VDE IA++L+ EGF  +EE+A V + E+  IE FDEET  E++ RA++ L   +
Sbjct: 361 FMEKLDVDEEIANILIEEGFETLEEVAYVPLQEMLEIEAFDEETVNELRTRAKDALLTQE 420

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           I  ++ + +  VS++L ++ G+  +I   L E  + T +DLA  ++D+L
Sbjct: 421 IAHEENVGK--VSQDLLTLEGMTPEIVDKLAEADVHTRDDLADLAIDEL 467


>gi|87119792|ref|ZP_01075689.1| transcription elongation factor NusA [Marinomonas sp. MED121]
 gi|86165268|gb|EAQ66536.1| transcription elongation factor NusA [Marinomonas sp. MED121]
          Length = 496

 Score =  361 bits (926), Expect = 2e-97,   Method: Compositional matrix adjust.
 Identities = 187/472 (39%), Positives = 311/472 (65%), Gaps = 5/472 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L + +AV+ EK + + V+   +  ++  AA+  +   + IRV I+  TGD + +R  +
Sbjct: 4   DILLVVEAVSNEKDVPKQVIFEAVEIALASAAKRRFEEEAKIRVSIDQRTGDYTTYRQWD 63

Query: 68  VVEEVENYT---CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           +V + E+Y     ++++  + +++  + IG +  + +    FGR+A Q+AKQVI+QKVRE
Sbjct: 64  IVAD-EDYAQPAHELTIDDSVEQNLGLAIGEIFEEEVESEAFGRIAAQTAKQVIVQKVRE 122

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVK 183
           AER +    + +KVG+ + G VK+V   ++IVDLG N++ V+ +D+ I+RE  R  DR++
Sbjct: 123 AERAKVVARYSEKVGKPVHGQVKKVTRDSLIVDLGENAEAVLPKDQLIARETFRMNDRIR 182

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           + + ++R + RG Q++LSR  P FMV+LF +EVPEI   +++++  +RDPG RAK+AV +
Sbjct: 183 ALLLEIRDDSRGAQLILSRNDPAFMVELFRLEVPEIAEEMIEIRGAARDPGLRAKIAVKT 242

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A  VINA+ PA V  +V+DE
Sbjct: 243 NDRRIDPIGACVGMRGARVQAVSNELNGERVDIVLWDDNPAQLVINAMSPAEVDSIVIDE 302

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   ++V V  + L+ AIGR GQNVRLAS LTGW ++++T E+    +Q++ ++    F+
Sbjct: 303 DTHSMQVAVNADNLAQAIGRNGQNVRLASNLTGWQLNVMTSEDAVAKQQEESDKLINLFV 362

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
            ++++D+ +A  L  EGFA +EE+A V + E+  I+ FDE+   E++ RA+E L  + + 
Sbjct: 363 NSLDIDDDLAGQLADEGFATLEEIAYVPMEEMLDIDDFDEDLVNELRSRAKEALLNLALQ 422

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSE 475
            ++++ E   +E+L ++ G+D+ + + L   GI TMEDLA  SVDDL+   E
Sbjct: 423 AEEQLEEATPAEDLLTMEGMDNHLALVLASKGICTMEDLAEQSVDDLIDIEE 474


>gi|88860547|ref|ZP_01135185.1| transcription elongation factor NusA [Pseudoalteromonas tunicata
           D2]
 gi|88817745|gb|EAR27562.1| transcription elongation factor NusA [Pseudoalteromonas tunicata
           D2]
          Length = 498

 Score =  361 bits (926), Expect = 2e-97,   Method: Compositional matrix adjust.
 Identities = 185/473 (39%), Positives = 308/473 (65%), Gaps = 5/473 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK++ ++ +   +  ++  A +  +    D+RV I+ +TG    FR  +
Sbjct: 4   EILLVAEAVSNEKAVPKEKIFEALEFALATATKKKHDGDIDVRVCIDRKTGAYDTFRRWQ 63

Query: 68  VVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           +VE+    +EN   +I+++ A   DP+  +G  + + +  + F R+  Q+AKQVI+QKVR
Sbjct: 64  IVEDREGGLENPYREITIEAAVYDDPNAKLGDFIEEQIESIKFDRITTQTAKQVIVQKVR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER      ++D+ GE+++G VK+     +++DLGN ++ VI RD+ + REN RPGDR+
Sbjct: 124 EAERALIVEAYQDQEGEMVTGVVKKASREAIVLDLGNNAEAVIYRDDMLPRENFRPGDRI 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  +Y V+ E RG Q+ ++R+ P+ +++LF +EVPEI   +++++  +RDPGSRAK+AV 
Sbjct: 184 RGLLYSVKPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEMIEIRGAARDPGSRAKIAVK 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D  IDPVGACVGMRG+RVQAV TEL  E+IDIV++  + A FVINA+ PA V  +V+D
Sbjct: 244 SNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLYDDNPAQFVINAMAPAEVASIVMD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLASQLTGW ++++T ++ +   Q++  +  + F
Sbjct: 304 EDSRSMDIAVESDNLAQAIGRNGQNVRLASQLTGWELNVMTVDDMNKKNQEESGKAIKVF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
            + +++DE  A LL+ EGF+ +EE+A V  SE   I+G DE+T  E++ RA+  L    +
Sbjct: 364 TEGLDIDEDFAQLLIDEGFSTLEEVAYVPTSEFLEIDGIDEDTVEELRARAKASLTTQAL 423

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSE 475
             ++ +     + +L ++ G++  +   L   G+ T+EDLA   +D+L+  +E
Sbjct: 424 ASEESLEGATPAADLLALEGLERHLAFVLASKGVVTLEDLAEQGIDELVDITE 476


>gi|237808991|ref|YP_002893431.1| transcription elongation factor NusA [Tolumonas auensis DSM 9187]
 gi|237501252|gb|ACQ93845.1| NusA antitermination factor [Tolumonas auensis DSM 9187]
          Length = 499

 Score =  361 bits (926), Expect = 2e-97,   Method: Compositional matrix adjust.
 Identities = 204/481 (42%), Positives = 310/481 (64%), Gaps = 7/481 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DAV+ EK++ R+ +   +  ++  A +  Y    ++RV I+ +TGD   FR  +
Sbjct: 4   EILLVVDAVSNEKAVPREKIFQALETALATATKKKYEGDIEVRVTIDRKTGDFDTFRRWQ 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VVE    ++N   +ISL  A+  DPSI +G  V + +  + F R+  Q+AKQVI+QKVRE
Sbjct: 64  VVEGDGIMQNPYREISLDAAQYDDPSIQLGDYVEEQVESITFDRITTQTAKQVIVQKVRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVK 183
           AER +   +F+D+ G I++G VK+V   ++I+DLG N++GV+ R++ + RE+ R GDRVK
Sbjct: 124 AERAQIVEQFRDQEGTIVTGVVKKVNRDSIIMDLGSNAEGVLYREDMLPRESFRNGDRVK 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
             +  V+ E RG Q+ +SRTHP F+ +LF +EVPEI   I+++K  +RDPGSRAK+AV +
Sbjct: 184 GLLAAVKPEARGSQLFISRTHPDFLKELFRIEVPEIGEEIIEIKGAARDPGSRAKIAVKT 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DE
Sbjct: 244 NDRRIDPVGACVGMRGARVQAVSGELAGERIDIVLWDDNPAQFVINAMAPADVASLIVDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   +++ V    L+ AIGR GQNVRLASQL+GW ++++T E+     Q + +     F 
Sbjct: 304 DNHTMDIAVISSNLAQAIGRNGQNVRLASQLSGWELNVMTVEDMQTKHQAEKDRILTLFT 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
           QA+++D+  A LLV EGF+ VEE+A V +SE+  I+G D E   E++ RA++ L    + 
Sbjct: 364 QALDIDDDFAELLVEEGFSTVEEIAYVPLSELQRIDGLDNEQIEELRERAKQALSTQALA 423

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGN 480
            ++ +     +++L ++ G+   +   L   GI T+EDLA   +DDL    G +E K G 
Sbjct: 424 KEETLAGAKPADDLLALQGMTLDLAYELAARGIPTLEDLAEQGIDDLSGIPGMTEEKAGE 483

Query: 481 I 481
           +
Sbjct: 484 L 484


>gi|332532410|ref|ZP_08408288.1| transcription termination protein NusA [Pseudoalteromonas
           haloplanktis ANT/505]
 gi|332038053|gb|EGI74500.1| transcription termination protein NusA [Pseudoalteromonas
           haloplanktis ANT/505]
          Length = 499

 Score =  360 bits (925), Expect = 2e-97,   Method: Compositional matrix adjust.
 Identities = 184/474 (38%), Positives = 310/474 (65%), Gaps = 6/474 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR--- 64
           E+L +A+AV+ EK++ ++ +   +  ++  A +  +    ++RV I+ +TGD   FR   
Sbjct: 4   EILLVAEAVSNEKAVPKEKIFEALEFALATATKKKHDGEIEVRVAIDRKTGDYDTFRRWQ 63

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           +  V+E+  +EN   +I+L+ A+  +P + +G  V + +  + F R+  Q AKQVI+QKV
Sbjct: 64  IAAVLEDGSLENPYSEITLEAAQVEEPDLQMGDYVEEQIDSIKFDRITTQMAKQVIVQKV 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDR 181
           REAER      +KD+ GE+++G VK+     +++DLGN ++ VI RD+ + REN RPGDR
Sbjct: 124 REAERALVVEAYKDQEGELVTGVVKKATRDAIVLDLGNNAEAVIYRDDMLPRENFRPGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++  +Y+V+ E RG Q+ ++R+ P+ +++LF +EVPEI   +++++A +RDPGSRAK+AV
Sbjct: 184 IRGLLYEVKPEARGAQLFVTRSKPEMLMELFRIEVPEIGEEMIELRAAARDPGSRAKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+D  IDP+GACVGMRG+RVQAV +EL  E++DIV++  + A FVINA+ PA V  +V+
Sbjct: 244 KSNDKRIDPIGACVGMRGARVQAVSSELGGERVDIVLYDDNPAQFVINAMAPAEVASIVM 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   +++ V  + L+ AIGR GQNVRLASQLTGW ++++T E+     + + ++    
Sbjct: 304 DEDTHSMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVEDMRTKNEAESDKLLNL 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + +++D+  A LL+ EGF+ +EE+A V  SE   I+G DEET   ++ RA++ L    
Sbjct: 364 FTENLDIDDEFASLLINEGFSTLEEVAYVPASEFLEIDGLDEETVDLLRSRAKDALTTKA 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSE 475
           +  ++ +     +E+L ++ G++  +   +   G+ T+EDLA   +D+L+  +E
Sbjct: 424 LKTEESLDGAEPAEDLLALEGLERHLAFVMASKGVVTLEDLAEQGIDELVDITE 477


>gi|261379110|ref|ZP_05983683.1| L Factor [Neisseria cinerea ATCC 14685]
 gi|269144431|gb|EEZ70849.1| L Factor [Neisseria cinerea ATCC 14685]
          Length = 500

 Score =  360 bits (924), Expect = 3e-97,   Method: Compositional matrix adjust.
 Identities = 210/477 (44%), Positives = 319/477 (66%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EILQLAEALASEKNVDAEVVFQALEFALSSAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVVEEVENYT---CQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT    + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 64  LIVAD-EDYTYPDIEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I++GTVKRVE   +IV++  G  D +I RD+ I REN R G
Sbjct: 123 IRDAEREQNLNEFLAVKEDIVTGTVKRVERHGIIVEIIAGKLDALIPRDQAIPRENFRSG 182

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++    +R ++ G     QV+LSRT   F+ KL+  EVPEI +G+++++AV+RDPG 
Sbjct: 183 DRIRALF--LRVDEIGNTGRKQVILSRTSGDFLAKLYANEVPEISDGMLEIRAVARDPGQ 240

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV+ AL PA 
Sbjct: 241 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMGALSPAE 300

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKD 354
           V+++V+DE+   ++VIV ++QL+LAIGR GQNVRLAS+LTGW ++I+T  E D  N  +D
Sbjct: 301 VSRIVIDEEKHAVDVIVSEDQLALAIGRGGQNVRLASELTGWQLNIMTSAEADKRNAAED 360

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              RT  F+  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR
Sbjct: 361 AAIRT-LFVSHLNVDEETADILVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRAR 419

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  I I  ++K+ E  VS+++ S+ G+D+ + + L E  I T +DLA  SVD+L+
Sbjct: 420 DAILTIAIAAEEKLGE--VSDDMRSLEGVDADMLLKLAEADITTRDDLAELSVDELI 474


>gi|302342324|ref|YP_003806853.1| transcription termination factor NusA [Desulfarculus baarsii DSM
           2075]
 gi|301638937|gb|ADK84259.1| transcription termination factor NusA [Desulfarculus baarsii DSM
           2075]
          Length = 436

 Score =  360 bits (924), Expect = 3e-97,   Method: Compositional matrix adjust.
 Identities = 191/411 (46%), Positives = 280/411 (68%), Gaps = 4/411 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL ++ D VA EK +DR++++S + +++Q AAR   G+  ++ V  N E G++ +F   E
Sbjct: 3   ELRRMIDHVAREKGLDREILISTLEEAMQSAARRKLGSKVEVDVAYNDEIGEVEVFEFKE 62

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEE+ +   QI  + AR  DP  ++G  +   +   DFGR+A QSAKQVIIQ++++AER
Sbjct: 63  VVEELTDPDTQIGFEDARRLDPDCELGDELGIKVETADFGRIAAQSAKQVIIQRMKDAER 122

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           D  + +FKD+ GEII+G V+R + G+++V+LG ++ ++   E + RE  RPGDRV++Y+ 
Sbjct: 123 DIIFEDFKDRKGEIINGIVQRFDKGSIVVNLGRTEAILLAREQVPREGYRPGDRVRAYVL 182

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           DV+R  RGPQ++LSRTHP F+  LF +EVPEI  GIV ++ V+R+ GSR KL V SSD  
Sbjct: 183 DVKRVSRGPQIILSRTHPGFVEALFELEVPEIAEGIVTIEGVAREAGSRTKLGVSSSDRD 242

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGM+GSRVQAVV ELR EKIDI+ +  D A +V+NAL PA +++VV+DE    
Sbjct: 243 VDPVGACVGMKGSRVQAVVQELRGEKIDIIAYDSDPARYVVNALAPAEISRVVVDESNNT 302

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           +EVIV  E LSLAIGRRGQNVRLAS+LTGW ID+ +E + S    +   +  +  +  + 
Sbjct: 303 MEVIVADEMLSLAIGRRGQNVRLASKLTGWKIDVKSESKYS----ESLRDGYRSLLDVVG 358

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           V +I A  L   G+A  + LA    +++A++ G D+E A  +   AR+Y++
Sbjct: 359 VSDIGADTLFQAGYASADALAYANAADLAALPGIDDERAQRLIDDARDYIQ 409


>gi|223042074|ref|ZP_03612250.1| transcription elongation protein NusA [Actinobacillus minor 202]
 gi|223017149|gb|EEF15585.1| transcription elongation protein NusA [Actinobacillus minor 202]
          Length = 498

 Score =  360 bits (923), Expect = 4e-97,   Method: Compositional matrix adjust.
 Identities = 185/470 (39%), Positives = 297/470 (63%), Gaps = 7/470 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + ++ +   +  ++  A +       D+RV ++ +TG    FR   
Sbjct: 4   EILFAAEAVSNEKQLPKEAIFEALETALTIATKKSSELDIDVRVVVDRKTGSFQTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE+V N T +ISL+ A+  +P I +G VV D +  ++FGRVA+Q+  QV+  K+REAE+
Sbjct: 64  VVEDVHNMTREISLEAAQFENPDIQLGDVVEDEVESIEFGRVAIQTFGQVVKTKIREAEK 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG------NSDGVIRRDETISRENLRPGDR 181
            +   EF+   G+IIS TVK+V   N+ ++L         + VI R++ + REN RPGDR
Sbjct: 124 GKIIDEFRSDEGKIISATVKKVTRDNIFLELQGKTEDIKGEAVIAREDMLPRENFRPGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+  +Y ++ E +GPQ+ L+R  P  + +LF +EVPEI    +++K  +RDPGSRAK+AV
Sbjct: 184 VRGVLYAIKPESKGPQIFLTRAKPVMLTELFKLEVPEIGEQTIEIKGAARDPGSRAKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ + +
Sbjct: 244 KSNDKRIDPVGACVGMRGARVQAISNELGGERVDIVLWDDNPAQFVINAMAPADVSSITI 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           +++   +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T EE +   Q++  +    
Sbjct: 304 NDETHSMDIAVEAKNLAQAIGRNGQNVRLATQLTGWTLNVMTVEELAKKNQEEDGKVINL 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV-EIQGRAREYLEGI 420
              A+ +DE  A +L+ EGF  +E +A V +  + +I+G ++E  V E+Q RA+  +   
Sbjct: 364 LTSALEIDEEFAQVLIEEGFTSLEAIAYVPVDALTAIDGLEDEDLVEELQARAKNAITKQ 423

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
            +  ++ +++  + E+L ++ G++  I   L E GI T+EDLA    D+L
Sbjct: 424 ALAEEEALKQAHIDEQLLNLEGMERHIAFRLAEKGITTLEDLAEQGTDEL 473


>gi|94676752|ref|YP_589057.1| transcription termination factor NusA [Baumannia cicadellinicola
           str. Hc (Homalodisca coagulata)]
 gi|94219902|gb|ABF14061.1| transcription termination factor NusA [Baumannia cicadellinicola
           str. Hc (Homalodisca coagulata)]
          Length = 495

 Score =  359 bits (921), Expect = 6e-97,   Method: Compositional matrix adjust.
 Identities = 194/505 (38%), Positives = 312/505 (61%), Gaps = 19/505 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++R+ I+ ++GD    R   
Sbjct: 4   EILAVVEAVSNEKSVPREKIFEALETALATATKKKYEQEIEVRINIDRKSGDFETLRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VE+V   T +I+L+ A+  +P+  +GG + D +  + F R+  Q+AKQVI+QKVR AER
Sbjct: 64  IVEKVTQPTREITLEAAKFDNPNAQVGGYIEDIIESVTFDRITTQTAKQVIVQKVRAAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F+   G+I+ G VK+V   N+ +D+GN ++ +I R++ + REN R GDR++  +
Sbjct: 124 AMIIEQFRKYKGQILIGLVKKVHRDNMSIDIGNNAEAIINREDMLPRENFRIGDRIRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y +R E RG Q+ +SRT P+ +V+LF +EVPEI   ++++KAV+RDPGSRAK+AV ++D 
Sbjct: 184 YSIRPEVRGTQLFVSRTCPEMLVELFRIEVPEIGEELIEIKAVARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  +   FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPVQFVINAMAPADVASIIVDEDTQ 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V +  L+ AIGR GQNVRLASQL+GW +++IT  E     + + +   + F + +
Sbjct: 304 IMDIAVEESNLAQAIGRNGQNVRLASQLSGWELNVITLSEMQEKHRAETSAAIEIFTKTL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           N++E +A +L+  G + +EELA V I E+  I+  DE    E++ +A++ +  + IT+Q+
Sbjct: 364 NINEELATILIEGGISSLEELAYVPIKELLVIDKLDENIVEELRKKAKQAITQLTITMQE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDG 486
                   ++L  +  ++  I   L   GI T+E+LA   +DDLL        NIE    
Sbjct: 424 NNLAKKPDQDLLELSKLERHIAFKLAARGICTLENLAEQGIDDLL--------NIE---- 471

Query: 487 FLSSLGTPKDQVESMIIHARYKMGW 511
                G   +Q   +I+ AR K+ W
Sbjct: 472 -----GLSSEQAGELIMAAR-KICW 490


>gi|71281620|ref|YP_268927.1| transcription termination factor NusA [Colwellia psychrerythraea
           34H]
 gi|71147360|gb|AAZ27833.1| transcription termination factor NusA [Colwellia psychrerythraea
           34H]
          Length = 497

 Score =  359 bits (921), Expect = 8e-97,   Method: Compositional matrix adjust.
 Identities = 191/481 (39%), Positives = 303/481 (62%), Gaps = 7/481 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR--- 64
           E+L + DAV+ EK++ R+ +   M  +++ A +  Y     +RV I+  +G+   FR   
Sbjct: 4   EILLVVDAVSNEKALPRESIFEAMETALETATKKKYEGDIIVRVSIDRISGEFDTFRRWL 63

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           ++E  E +EN   +I L  A+   P +++G    D +  + F RV  Q+AKQVI+QK+RE
Sbjct: 64  IIEDGEPMENPYAEIGLAAAQYDAPELNVGDYSEDQIESVKFDRVTTQTAKQVIVQKIRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVK 183
           AER      +++ +GEI++G VK+    +VIVDLGN ++ VI RD+ + RE  RPGDRV+
Sbjct: 124 AERALVTEAYQEHLGEIVTGVVKKASRESVIVDLGNNAEAVIYRDDMLPRETFRPGDRVR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
             +Y+++ E RG Q+ LSRT P+ +++LF +EVPEI   ++++K  +RDPGSRAK+AV S
Sbjct: 184 GLLYEIKPEARGAQLFLSRTKPEMLIELFRVEVPEIGEEMLEIKGAARDPGSRAKIAVKS 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  IDPVGACVGMRGSRVQAV  EL  E++DIV++  + A +VINA+ PA V  +++DE
Sbjct: 244 NDKRIDPVGACVGMRGSRVQAVSGELGGERVDIVLYDDNVAQYVINAMSPAEVASIIVDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D G +++ V +  L++AIGR GQN+RLASQLTGW ++++T  +     Q + ++    F+
Sbjct: 304 DKGTMDIAVEEANLAMAIGRSGQNIRLASQLTGWELNVMTVADMKEKHQAENDKVLNLFI 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
             +++DE  A LL  EGF  +EE+A V  +E+  I+G DEE    ++ RA+E L    + 
Sbjct: 364 DKLDLDEDFATLLAEEGFTSLEEIAYVPTAEMLDIDGLDEEIIEALRERAKEALTTQALA 423

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVD---DLLGWSENKGGN 480
            ++ +     +++L  + G++  +   L   G++T+EDLA   +D   D+    E K G 
Sbjct: 424 SEETLEGSEPAQDLLDLDGLERHLAFVLASRGVRTLEDLAEQGIDEISDIEELDETKAGE 483

Query: 481 I 481
           +
Sbjct: 484 L 484


>gi|89900917|ref|YP_523388.1| NusA antitermination factor [Rhodoferax ferrireducens T118]
 gi|89345654|gb|ABD69857.1| NusA antitermination factor [Rhodoferax ferrireducens T118]
          Length = 498

 Score =  358 bits (919), Expect = 1e-96,   Method: Compositional matrix adjust.
 Identities = 190/469 (40%), Positives = 307/469 (65%), Gaps = 6/469 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           NR E+L + +A++ EK+++ DVV   +  ++ +A R +Y    DIRV ++ ++G+   FR
Sbjct: 2   NR-EMLMLVEAISREKNVELDVVFGAVEAALAQATRKIYPGDVDIRVALDRDSGNYETFR 60

Query: 65  LLEVVEEVENYTC---QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
              VV +         +I L  A+++ P I++   + + +  +  GR+   +AKQVI+QK
Sbjct: 61  RWHVVPDEAGLQLPDQEILLFEAKEQIPDIEVDEYIEETVESLPIGRIGAMAAKQVILQK 120

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+    +F  +   I  GTVKR++ G++IV+ G  +G +RR E I +ENLR GDR
Sbjct: 121 IRDAEREMLLNDFMSRGDNIFVGTVKRMDKGDLIVESGRVEGRLRRTEMIPKENLRVGDR 180

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I +V    RG  ++LSR+ P+FM++LF  EVPEI  G++++K+ +RD GSRAK+AV
Sbjct: 181 VRAMIMEVDLTLRGAPIILSRSAPEFMIELFRQEVPEIEQGLLEIKSCARDVGSRAKIAV 240

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  +DP+G CVG+RG+RV  V  EL  E++DIV+WS D A FVI AL PA V+ +V+
Sbjct: 241 LSHDKRVDPIGTCVGVRGTRVNGVTNELAGERVDIVLWSEDPAQFVIGALAPANVSSIVV 300

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+   ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+   E +  +  + +   + 
Sbjct: 301 DEERHAMDVVVDEENLAIAIGRGGQNVRLASELTGWKINILDAAESAQKQASETDSGRKL 360

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+ ++VDE IA LL+AEGF  +E++A V + E+  IE FDE+TA E++ RA++ L  ++
Sbjct: 361 FMEHLDVDEEIADLLIAEGFTSLEQVAYVPLEEMLEIESFDEDTANELRTRAKDALLTME 420

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           I  ++ ++   VS +L  + G+  ++   L  +G+  ++DLA  +VD+L
Sbjct: 421 IAHEESVQ--AVSLDLRDLQGLTPELIAKLATSGVNNLDDLADLAVDEL 467


>gi|328953957|ref|YP_004371291.1| NusA antitermination factor [Desulfobacca acetoxidans DSM 11109]
 gi|328454281|gb|AEB10110.1| NusA antitermination factor [Desulfobacca acetoxidans DSM 11109]
          Length = 442

 Score =  358 bits (919), Expect = 1e-96,   Method: Compositional matrix adjust.
 Identities = 184/413 (44%), Positives = 279/413 (67%), Gaps = 5/413 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD-IRVEINPETGDISLFRLL 66
           +L ++ + V+ +K ID+D++L+ + ++++ AA+  YG   D I V  + +TG+I +F+  
Sbjct: 4   DLRRLIEQVSRDKGIDKDLLLNTVMEAVRSAAKKRYGAKQDNIEVGFSEDTGEIEVFQFK 63

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           EVV+EV +   QI+L  AR  DP  D+G  +   L    FGR+A QSAKQVIIQ +R+AE
Sbjct: 64  EVVDEVIDSDRQITLPEARQLDPECDLGDSLGIKLDAGSFGRIAAQSAKQVIIQGMRDAE 123

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           RD  + ++KD+ GEII+G V+R +   +IV+LG ++ ++   E + RE  R GDR+++Y+
Sbjct: 124 RDIVFEDYKDRKGEIINGIVQRQDKSGIIVNLGRTEALLPITEQVPRELYRQGDRIRAYV 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            DV+R+ +GPQ++LSR    F++ LF  EVPEI  GIV++ AV+R+PGSR+K+AV S D+
Sbjct: 184 VDVKRQTKGPQIILSRVDENFLIMLFEAEVPEIQEGIVKIMAVAREPGSRSKIAVASRDA 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVGM+GSRVQ +V ELR EKIDI+ W+PD A FV  AL PA V+++++DED  
Sbjct: 244 DVDPVGACVGMKGSRVQNIVQELRGEKIDIIPWNPDPAKFVTQALAPAEVSRIIIDEDSQ 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +E+IVP +QL LAIG+RGQNVRLA++LTGW ID+ +E + S    K   E     ++  
Sbjct: 304 NMEIIVPDDQLFLAIGKRGQNVRLAAKLTGWKIDVKSESKYS----KSMKEGYLSLLKIP 359

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
            V E+ A  L   GF   +E+A   ++E+  + G +E+ A +I G A+  ++ 
Sbjct: 360 GVGEMTASALYEAGFTSAKEVAEANLAELMQVPGINEKKATQILGAAQTLMKA 412


>gi|288940250|ref|YP_003442490.1| NusA antitermination factor [Allochromatium vinosum DSM 180]
 gi|288895622|gb|ADC61458.1| NusA antitermination factor [Allochromatium vinosum DSM 180]
          Length = 499

 Score =  358 bits (919), Expect = 1e-96,   Method: Compositional matrix adjust.
 Identities = 187/457 (40%), Positives = 294/457 (64%), Gaps = 8/457 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK +   V+   +  ++  A R  +G   D+RV I+ +TG    FR  E
Sbjct: 4   EILNVVEAVSNEKDVPEGVIFEAIEAALASATRKKHGGEIDVRVTIDRKTGSYRTFRRWE 63

Query: 68  VVEEVENYTC-----QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           +V + E+        QI+   A   +P + IG  + + +    FGR+A Q+AKQVI+QKV
Sbjct: 64  IVSDPESGMLEAPARQITASAAAILEPELSIGDFMEEEIESELFGRIAAQTAKQVIVQKV 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDR 181
           R+AER +    F  + G++++G VK+ E G +++DLGN ++ ++ RD  I RE++RPGDR
Sbjct: 124 RDAERAKIVDAFASRQGQLVTGIVKKAERGTILLDLGNNAEALVPRDHVIPRESVRPGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ Y+YDVR EQ+GPQ+ +SRT P+ +++LF +EVPE+  G++++   +RDPG RAK+AV
Sbjct: 184 LRGYLYDVRSEQKGPQLFVSRTAPELLIELFKLEVPEVGEGLIEILGAARDPGVRAKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            + D  IDPVGACVGMRGSRVQAV  EL  E++DI++W  + A FVINA+ PA V  +V+
Sbjct: 244 RTRDPRIDPVGACVGMRGSRVQAVSNELNGERVDIILWDENPAQFVINAMSPADVVSIVI 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+   ++V V +E L+ AIGR GQNVRLA+QL+GW ++++ E++ +   +++     Q 
Sbjct: 304 DEEARSMDVAVKEENLAQAIGRFGQNVRLATQLSGWELNVMNEKDAAAKSEQEARRSAQV 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM  + +DE +A LLV EGF+ V+E+A V + E+ +I+  D+ET   ++ RA + L    
Sbjct: 364 FMDQLGIDEGLATLLVEEGFSSVDEVAYVPLDEMRAIDELDDETIELLRERANDVLVTRA 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKT 458
           I  ++     G+S  L ++ G+D  +   L E GI T
Sbjct: 424 IATEEVDEVGGMS--LSALEGMDEALVEVLAERGIAT 458


>gi|297180708|gb|ADI16917.1| transcription elongation factor [uncultured gamma proteobacterium
           HF0010_16J05]
          Length = 512

 Score =  358 bits (918), Expect = 2e-96,   Method: Compositional matrix adjust.
 Identities = 197/474 (41%), Positives = 308/474 (64%), Gaps = 10/474 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + ++V++EK + +DV+   +  ++  A +  YG  ++ RV I+ E+G+   FR   
Sbjct: 4   EILLVVESVSHEKGVSKDVLFGAIESALAVATKKKYGENAEFRVAIDRESGEYETFRTWA 63

Query: 68  VVE---------EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           VV+            N   Q S+  A+   P   +G V+ + +  + FGR+A Q+AKQVI
Sbjct: 64  VVDFGEIEAEEEAEVNPEAQYSVDQAQSFKPGAVLGDVIEEQVESVAFGRIAAQTAKQVI 123

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLR 177
           +QKVREAER +    +  +V E++SGTVK++   +VIVDLGN ++G++ R+  I RE  R
Sbjct: 124 VQKVREAERAQVVEAYTSRVNELVSGTVKKLGRDSVIVDLGNNAEGILTREHLIPREIFR 183

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            GDR+++ + ++R + RGPQ++LSRT    +V+LF +EVPEI   ++Q+   +RDPGSRA
Sbjct: 184 VGDRLRAMLVEIRPDNRGPQLILSRTARSMLVELFKVEVPEISEDVIQILGAARDPGSRA 243

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV ++D  IDPVGACVGMRGSRVQAV  EL  E+IDIV+W  + A   INA+ PA V 
Sbjct: 244 KIAVKTNDGRIDPVGACVGMRGSRVQAVSGELAGERIDIVLWDDNPAQLTINAMAPAEVA 303

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            +VLDE+   +++ V +E L+ AIGR GQNVRLAS L GW+++I+TEEE +   + + ++
Sbjct: 304 SIVLDEETHAMDIAVTEENLAQAIGRGGQNVRLASDLCGWSLNIMTEEEAAEKLEAESSK 363

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               FM+A++VDE +A +LV EGF  +EE+A V + E+ +IEGFDEE   E++ RA++ L
Sbjct: 364 FISEFMEALSVDEDVAAVLVEEGFTTLEEIAYVPVEEVMAIEGFDEEIVNELRNRAKDAL 423

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
               I  ++ + +   +++L  + G++ ++   L  + + TMEDLA  +V +LL
Sbjct: 424 LTRAIASEEALGDNKPADDLLEMEGMERELAFKLAAHEVITMEDLAELAVPELL 477


>gi|39996686|ref|NP_952637.1| transcription elongation factor NusA [Geobacter sulfurreducens PCA]
 gi|39983567|gb|AAR34960.1| N utilization substance protein A [Geobacter sulfurreducens PCA]
 gi|298505697|gb|ADI84420.1| transcription elongation factor NusA [Geobacter sulfurreducens
           KN400]
          Length = 385

 Score =  357 bits (917), Expect = 2e-96,   Method: Compositional matrix adjust.
 Identities = 173/338 (51%), Positives = 241/338 (71%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
             L  I D +  EK IDR +V+  +  ++  AA   +    D+    NPE G++ LF  +
Sbjct: 5   FNLKHIIDQIVKEKGIDRHIVVEALEQAVLTAANKKFRNTRDLEAHYNPEVGEVELFEFV 64

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VV+EV++   +I ++ AR+ DP +++G  +   L    F R+A Q+AKQVIIQKVREAE
Sbjct: 65  TVVDEVQDSYKEIDMEEAREIDPDVEVGDSLGMKLDASGFTRIAAQTAKQVIIQKVREAE 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R+  + EFKD++GE+++G V+R E G++++DLG ++ V+   E   RE  R GDRVK+ I
Sbjct: 125 RETIFNEFKDRIGELVTGVVRRFEKGDLVIDLGRAEAVLSHKEQAPREVYRQGDRVKTLI 184

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            D+R   +GPQ++LSRTHP  + KLF  EVPEI  GIV++KAV R+PGSRAK+AV+S DS
Sbjct: 185 TDIRMTPKGPQIVLSRTHPGVLAKLFEAEVPEIAEGIVEIKAVVREPGSRAKIAVYSHDS 244

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVGMRGSRVQ VV+ELR EKIDI+ WS D+A F  NAL+PA+V+KV +D++  
Sbjct: 245 DVDPVGACVGMRGSRVQNVVSELRGEKIDIIPWSDDAARFACNALQPAVVSKVYIDDENR 304

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            +E+IV  +QLSLAIG++GQNVRLA++LTGW IDI +E
Sbjct: 305 SMEIIVADDQLSLAIGKKGQNVRLAAKLTGWRIDIKSE 342


>gi|254361245|ref|ZP_04977388.1| N utilization substance A [Mannheimia haemolytica PHL213]
 gi|261492531|ref|ZP_05989084.1| N utilization substance A [Mannheimia haemolytica serotype A2 str.
           BOVINE]
 gi|261496806|ref|ZP_05993180.1| N utilization substance A [Mannheimia haemolytica serotype A2 str.
           OVINE]
 gi|153092741|gb|EDN73784.1| N utilization substance A [Mannheimia haemolytica PHL213]
 gi|261307553|gb|EEY08882.1| N utilization substance A [Mannheimia haemolytica serotype A2 str.
           OVINE]
 gi|261311690|gb|EEY12840.1| N utilization substance A [Mannheimia haemolytica serotype A2 str.
           BOVINE]
          Length = 498

 Score =  357 bits (916), Expect = 3e-96,   Method: Compositional matrix adjust.
 Identities = 189/484 (39%), Positives = 304/484 (62%), Gaps = 10/484 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L  A+AV+ EK + ++ +   +  ++  A +       D+RV ++ +TGD   FR   
Sbjct: 4   EILLAAEAVSNEKQLPKEAIFEALETALTIATKKSRDLDIDVRVVVDRKTGDFQTFRRWA 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE V N T +ISL+ A+  DP++ +G  + D +  ++FGRVA+Q+  QV+  K+REAE+
Sbjct: 64  VVENVNNMTREISLEAAQFEDPNVQLGDFIEDEVESIEFGRVAIQTFGQVVKTKIREAEK 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSD-----GVIRRDETISRENLRPGDR 181
            +   EF+  +G+II  TVK+V   N+ ++L G S+      VI R++ I REN RPGDR
Sbjct: 124 TKIIDEFRSDLGKIILATVKKVTRDNIFLELQGKSEDIKGEAVIVREDMIPRENFRPGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+  +Y+++ E +GPQ+ ++R  P  + +LF +EVPEI  G++++K  +RD GSRAK+AV
Sbjct: 184 VRGVLYEIKPESKGPQLFVTRAKPVMLEELFKLEVPEIGEGVIEIKGSARDVGSRAKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            + D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +V+
Sbjct: 244 KTHDKRIDPVGACVGMRGARVQAISNELGGERVDIVLWDENPAQFVINAMAPADVSSIVI 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           +++   +++ V  + L+ AIGR GQNVRLA+QLTGW ++++T EE +   +++  +    
Sbjct: 304 NDETHSMDIAVEAKNLAQAIGRNGQNVRLATQLTGWALNVMTVEELTKKSEEEDGKVINL 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV-EIQGRAREYLEGI 420
              A+ +DE  A +L+ EGF  +E +A V +  + +I+G ++E  V E+Q RA+  +   
Sbjct: 364 LTSALEIDEEFAQVLIEEGFTSLEAIAYVPVDTLTAIDGLEDEDLVEELQSRAKNAITKK 423

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG---WSENK 477
            +  +K ++   + E+L ++ G+D  I   L E  I T+E+LA   VDDL      SE K
Sbjct: 424 ALEEEKLLKSAQIEEKLLTLEGMDRHIAFKLAEKQITTLEELAEQGVDDLADIEELSEEK 483

Query: 478 GGNI 481
            G +
Sbjct: 484 AGEL 487


>gi|78222794|ref|YP_384541.1| transcription elongation factor NusA [Geobacter metallireducens
           GS-15]
 gi|78194049|gb|ABB31816.1| NusA antitermination factor [Geobacter metallireducens GS-15]
          Length = 381

 Score =  356 bits (914), Expect = 5e-96,   Method: Compositional matrix adjust.
 Identities = 174/338 (51%), Positives = 239/338 (70%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
             L  I D +  EK IDRD+V+  +  ++  AA   Y    D+    NPE G++ LF  +
Sbjct: 5   FNLKHIIDQIVKEKGIDRDIVVEALEQAVLSAANKKYRNTRDLEAHYNPEVGEVELFEFV 64

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VV+EV +   +I L+ AR+ DP +++G  +   +    F R+A Q+AKQVIIQKVREAE
Sbjct: 65  TVVDEVMDSYKEIDLEEAREIDPDVEVGDSLGMKMDASGFTRIAAQTAKQVIIQKVREAE 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R+  + EFKD++GE+I+G V+R E G+++VDLG ++ ++   E   RE  R GDR+K+ I
Sbjct: 125 RETIFNEFKDRIGELINGVVRRFEKGDLVVDLGRAEALLSNKEQAPREVYRQGDRIKALI 184

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            D+R   +GPQ++LSRTHP  + KLF  EVPEI  GIV++K+V R+PGSR+K+AV+S DS
Sbjct: 185 MDIRMTPKGPQIILSRTHPGVLAKLFEAEVPEIAEGIVEIKSVVREPGSRSKIAVYSHDS 244

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVGMRGSRVQ VV+ELR EKIDI+ WS D A F  NAL+PA V+KV +DE+  
Sbjct: 245 DVDPVGACVGMRGSRVQNVVSELRGEKIDIIPWSEDPARFACNALQPAAVSKVYIDEENK 304

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            +E+IV  +QLSLAIG++GQNVRLA++LTGW IDI +E
Sbjct: 305 ALEIIVADDQLSLAIGKKGQNVRLAAKLTGWRIDIKSE 342


>gi|261379745|ref|ZP_05984318.1| L factor [Neisseria subflava NJ9703]
 gi|284797423|gb|EFC52770.1| L factor [Neisseria subflava NJ9703]
          Length = 501

 Score =  356 bits (913), Expect = 7e-96,   Method: Compositional matrix adjust.
 Identities = 209/477 (43%), Positives = 316/477 (66%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK+++ +VV   +  ++  AA+        D+RVEI+ +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVETEVVFKALEFALSTAAKKKADREHMDVRVEIDRDTGEYQTFRRW 63

Query: 67  EVVEEVENYT---CQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT    + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 64  LIVAD-EDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I R+E I REN R G
Sbjct: 123 IRDAEREQNLNEFLASKEDIVSGTVKRVERHGIIVEVVAGKLDALIPREEMIPRENFRSG 182

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++    +R ++ G     QV+LSRT   F+ KL+  EVPEI +G+++++ V+RDPG 
Sbjct: 183 DRIRALF--LRVDEIGNTGRKQVILSRTSGDFLAKLYANEVPEIADGLLEIREVARDPGQ 240

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+IDIV+WSP++A FV+NAL PA 
Sbjct: 241 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDIVLWSPETAQFVMNALSPAE 300

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT-EEEDSINRQKD 354
           V+++V+DED   ++VIV + QL+LAIGR GQNVRLAS LTGW ++I+T EE D  N  +D
Sbjct: 301 VSRIVIDEDKHAVDVIVDENQLALAIGRGGQNVRLASILTGWQLNIMTVEEADERNAAED 360

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R   F   +N+D+  A +LV EGFA +EE+A V  +E+ +I+GFDEE    ++ RAR
Sbjct: 361 AVIRN-LFTTHLNIDDETADILVEEGFATLEEVAYVPAAELLAIDGFDEEIVETLRNRAR 419

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  I I  ++K+ E  VSE++ ++ G+DS +   L E G+   +DLA  SVD+L+
Sbjct: 420 DAILTITIAAEEKLGE--VSEDMRNLDGVDSDMLRKLAEAGVTQRDDLAELSVDELV 474


>gi|59711092|ref|YP_203868.1| transcription elongation factor NusA [Vibrio fischeri ES114]
 gi|59479193|gb|AAW84980.1| transcription termination/antitermination L factor NusA [Vibrio
           fischeri ES114]
          Length = 495

 Score =  355 bits (912), Expect = 7e-96,   Method: Compositional matrix adjust.
 Identities = 195/464 (42%), Positives = 302/464 (65%), Gaps = 1/464 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +       ++RV I+ +TGD   FR   
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALEIALATATKKKSEMEIEVRVAIDRKTGDFETFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VE VEN T +IS++ A+  D +I+IGG V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  AVENVENPTLEISIEAAQFEDETIEIGGYVEDDIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F D  GE+I+G VK+V    +IVDLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AMIVEQFIDNEGELITGIVKKVNRDAIIVDLGNNAEAVILREDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V+ E RG Q+ ++R+    + +LF +EVPEI   ++++K  +RDPGSRAK+AV ++D 
Sbjct: 184 YAVKPEARGFQLFMTRSKGVMLTELFRVEVPEIGEELIELKGAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPAEVASIIVDEDNN 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  + +   Q++       F++ +
Sbjct: 304 TMDIAVEADNLAQAIGRSGQNVRLASQLTGWELNVMTVADLNKKHQEEAQGSIDAFVKHL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++D   A LLV EGF  +EE+A V ++E+  IE  DE+T   ++ RA+E L  + +  ++
Sbjct: 364 DIDADFAQLLVEEGFTTLEEVAYVPVNELLEIEELDEDTVDALRTRAKEALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
            +  +  +E+L ++ G++ ++   L   G+ T+EDLA   VD+L
Sbjct: 424 SLDGVEPAEDLLALEGLERELAFKLAAKGVITLEDLADQGVDEL 467


>gi|241760381|ref|ZP_04758476.1| transcription elongation factor NusA [Neisseria flavescens SK114]
 gi|241319259|gb|EER55737.1| transcription elongation factor NusA [Neisseria flavescens SK114]
          Length = 501

 Score =  355 bits (912), Expect = 7e-96,   Method: Compositional matrix adjust.
 Identities = 210/477 (44%), Positives = 315/477 (66%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK+++ +VV   +  ++  AA+        D+RVEI+ +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVETEVVFKALEFALSTAAKKKADREHMDVRVEIDRDTGEYQTFRRW 63

Query: 67  EVVEEVENYT---CQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT    + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 64  LIVAD-EDYTYPEVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I R+E I REN R G
Sbjct: 123 IRDAEREQNLNEFLASKEDIVSGTVKRVERHGIIVEVVAGKLDALIPREEMIPRENFRSG 182

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++    +R ++ G     QV+LSRT   F+ KL+  EVPEI +G+++++ V+RDPG 
Sbjct: 183 DRIRALF--LRVDEIGNTGRKQVILSRTSGDFLAKLYANEVPEIADGLLEIREVARDPGQ 240

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+IDIV+WSP+ A FV+NAL PA 
Sbjct: 241 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDIVLWSPEPAQFVMNALSPAE 300

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT-EEEDSINRQKD 354
           V+++V+DED   ++VIV + QL+LAIGR GQNVRLAS LTGW ++I+T EE D  N  +D
Sbjct: 301 VSRIVIDEDKHAVDVIVDENQLALAIGRGGQNVRLASILTGWQLNIMTVEEADERNAAED 360

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R   F   +N+D+  A +LV EGFA +EE+A V  +E+ SI+GFDEE    ++ RAR
Sbjct: 361 AVIRN-LFTTHLNIDDETADILVEEGFATLEEVAYVPAAELLSIDGFDEEIVETLRNRAR 419

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  I I  ++K+ E  VSE++ ++ G+DS +   L E G+   +DLA  SVD+L+
Sbjct: 420 DAILTITIAAEEKLGE--VSEDMRNLDGVDSDMLRKLAEAGVTQRDDLAELSVDELV 474


>gi|148263956|ref|YP_001230662.1| transcription elongation factor NusA [Geobacter uraniireducens Rf4]
 gi|146397456|gb|ABQ26089.1| NusA antitermination factor [Geobacter uraniireducens Rf4]
          Length = 383

 Score =  355 bits (912), Expect = 8e-96,   Method: Compositional matrix adjust.
 Identities = 175/338 (51%), Positives = 237/338 (70%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
             L    D +  EK ID+DVVL  +  ++  AA   +    D+    NPE G++ LF  +
Sbjct: 5   FNLKHTIDQIVKEKGIDKDVVLEALEQAVLTAANKKFRNTRDLEAHYNPEIGEVELFEFV 64

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VVEEV++   +I L  AR+ DP +++G  +   +    F R+A Q+AKQVIIQKVREAE
Sbjct: 65  TVVEEVQDSYKEIDLDEAREIDPDVEVGDSLGMKMDASGFSRIAAQTAKQVIIQKVREAE 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R+  + EF+++ GE+I+G V+R E G+++VDLG ++ ++   E   RE  R GDRVK+ I
Sbjct: 125 RETIFNEFQERHGEVINGVVRRFEKGDLVVDLGRAEALLPHKEQAPREVYRQGDRVKALI 184

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            ++R   +GPQ+LLSRTHP  + KLF  EVPEI  GIV++K+V R+PGSRAK+AV+S DS
Sbjct: 185 TEIRMTTKGPQILLSRTHPMMLAKLFEAEVPEIAEGIVEIKSVVREPGSRAKIAVYSHDS 244

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVGMRGSRVQ VV+ELR EKIDI+ WS D A F  NAL PA+V+KV +DED  
Sbjct: 245 DVDPVGACVGMRGSRVQNVVSELRGEKIDIIPWSEDVARFACNALAPAVVSKVYVDEDNR 304

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            +E++V  +QLSLAIG+RGQNVRLA++LTGW IDI +E
Sbjct: 305 SMEIVVADDQLSLAIGKRGQNVRLAAKLTGWRIDIKSE 342


>gi|225075066|ref|ZP_03718265.1| hypothetical protein NEIFLAOT_00065 [Neisseria flavescens
           NRL30031/H210]
 gi|224953550|gb|EEG34759.1| hypothetical protein NEIFLAOT_00065 [Neisseria flavescens
           NRL30031/H210]
          Length = 501

 Score =  355 bits (912), Expect = 8e-96,   Method: Compositional matrix adjust.
 Identities = 210/477 (44%), Positives = 315/477 (66%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK+++ +VV   +  ++  AA+        D+RVEI+ +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVETEVVFKALEFALSTAAKKKADREHMDVRVEIDRDTGEYQTFRRW 63

Query: 67  EVVEEVENYT---CQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT    + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 64  LIVAD-EDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I R+E I REN R G
Sbjct: 123 IRDAEREQNLNEFLASKEDIVSGTVKRVERHGIIVEVVAGKLDALIPREEMIPRENFRSG 182

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++    +R ++ G     QV+LSRT   F+ KL+  EVPEI +G+++++ V+RDPG 
Sbjct: 183 DRIRALF--LRVDEIGNTGRKQVILSRTSGDFLAKLYANEVPEIADGLLEIREVARDPGQ 240

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+IDIV+WSP+ A FV+NAL PA 
Sbjct: 241 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDIVLWSPEPAQFVMNALSPAE 300

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT-EEEDSINRQKD 354
           V+++V+DED   ++VIV + QL+LAIGR GQNVRLAS LTGW ++I+T EE D  N  +D
Sbjct: 301 VSRIVIDEDKHAVDVIVDENQLALAIGRGGQNVRLASILTGWQLNIMTVEEADERNAAED 360

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R   F   +N+D+  A +LV EGFA +EE+A V  +E+ SI+GFDEE    ++ RAR
Sbjct: 361 AVIRN-LFTTHLNIDDETADILVEEGFATLEEVAYVPAAELLSIDGFDEEIVETLRNRAR 419

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  I I  ++K+ E  VSE++ ++ G+DS +   L E G+   +DLA  SVD+L+
Sbjct: 420 DAILTITIAAEEKLGE--VSEDMRNLDGVDSDMLRKLAEAGVTQRDDLAELSVDELV 474


>gi|197335920|ref|YP_002155240.1| transcription termination factor NusA [Vibrio fischeri MJ11]
 gi|197317410|gb|ACH66857.1| transcription termination factor NusA [Vibrio fischeri MJ11]
          Length = 495

 Score =  355 bits (910), Expect = 1e-95,   Method: Compositional matrix adjust.
 Identities = 193/464 (41%), Positives = 302/464 (65%), Gaps = 1/464 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +       ++RV I+ +TGD   FR   
Sbjct: 4   EILAVVEAVSNEKAVPRERIFEALEIALATATKKKSEMEIEVRVAIDRKTGDFETFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VE VEN T +IS++ A+  D +I++GG + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  AVENVENPTLEISIEAAQFEDETIEVGGYIEDDIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F D  GE+I+G VK+V    +IVDLGN ++ VI R++ + REN RPGDRV+  +
Sbjct: 124 AMIVEQFIDNEGELITGIVKKVNRDAIIVDLGNNAEAVILREDQLPRENFRPGDRVRGLL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V+ E RG Q+ ++R+    + +LF +EVPEI   ++++K  +RDPGSRAK+AV ++D 
Sbjct: 184 YAVKPEARGFQLFMTRSKGVMLTELFRVEVPEIGEELIELKGAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPAEVASIIVDEDNN 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  + +   Q++       F++ +
Sbjct: 304 TMDIAVEADNLAQAIGRSGQNVRLASQLTGWELNVMTVADLNKKHQEEAQGSIDAFVKHL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           ++D   A LLV EGF  +EE+A V ++E+  IE  DE+T   ++ RA+E L  + +  ++
Sbjct: 364 DIDADFAQLLVEEGFTTLEEIAYVPVNELLEIEELDEDTVDALRTRAKEALTTLALAQEE 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
            +  +  +E+L ++ G++ ++   L   G+ T+EDLA   VD+L
Sbjct: 424 SLDGVEPAEDLLALEGLERELAFKLAAKGVITLEDLADQGVDEL 467


>gi|307546728|ref|YP_003899207.1| transcription elongation factor NusA [Halomonas elongata DSM 2581]
 gi|307218752|emb|CBV44022.1| transcription elongation factor NusA [Halomonas elongata DSM 2581]
          Length = 497

 Score =  355 bits (910), Expect = 1e-95,   Method: Compositional matrix adjust.
 Identities = 208/513 (40%), Positives = 320/513 (62%), Gaps = 23/513 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFRLL 66
           E+L + DA++ EK + R+V+   +  ++  A+R  +    + +RV I+  TGD   FR  
Sbjct: 4   EILAVVDAISNEKGVPREVIFEAVEAALASASRKRFEDEEASVRVHIDRNTGDYETFRRW 63

Query: 67  EVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           EVVE+   +    QI L  A  RDP + +G VV + +    FGR+A Q+AKQVI+QKVRE
Sbjct: 64  EVVEDDDFDGPDAQIKLSFAERRDPPLGLGDVVEERIENAVFGRIAAQTAKQVIVQKVRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVK 183
           AER      + ++ GE+++G VK+     +I+DLG N++  + R E I  E  R  +RV+
Sbjct: 124 AERAEVVSLYAEREGELVAGIVKKTTRDGLIIDLGDNAEAFLPRSEMIPGERYRMNERVR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           + +  V  E RG Q++LSRT P+ +++LF +EVPEI   ++++K  +RDPGSRAK+AV +
Sbjct: 184 ALLTKVDPEARGAQLILSRTCPELIIELFKIEVPEIAEQLIEIKGAARDPGSRAKIAVKT 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  IDPVGACVGMRGSRVQAV TEL++E++DIV+W  + A  VINA+ PA V  +++DE
Sbjct: 244 NDRRIDPVGACVGMRGSRVQAVSTELQNERVDIVLWDDNPAQLVINAMAPADVASILVDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   ++V V ++ L+ AIGR GQNVRLAS+LTGW ++++TE E    R ++ +   + F+
Sbjct: 304 DAHAMDVAVGEDNLAQAIGRSGQNVRLASELTGWRLNVMTEAEAETKRDQEIDSLVEHFI 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
           Q ++VD+ +A LLV EGF  +EE+A V + E+  IE  DEE   E++ RA++ L  + I 
Sbjct: 364 QHLDVDDDVARLLVEEGFTSLEEVAYVPVEEMLEIEELDEELIEELRARAKDELLNLAIA 423

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            ++++     +++L ++ G++  +   L   GI TMEDLA  SVDDL         +IE+
Sbjct: 424 SEEELDGAQPADDLLAMDGMERHLAFILASRGIVTMEDLAEQSVDDLT--------DIEE 475

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
            D          ++  S+I+ AR    W E E+
Sbjct: 476 LD---------DERAASLIMTARAP--WFESEQ 497


>gi|152995057|ref|YP_001339892.1| NusA antitermination factor [Marinomonas sp. MWYL1]
 gi|150835981|gb|ABR69957.1| NusA antitermination factor [Marinomonas sp. MWYL1]
          Length = 496

 Score =  354 bits (909), Expect = 2e-95,   Method: Compositional matrix adjust.
 Identities = 182/481 (37%), Positives = 314/481 (65%), Gaps = 8/481 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK + + V+   +  ++  AA+  +   + IRV I+  TGD   +R   
Sbjct: 4   EILLVVEAVSNEKDVPKQVIFEAVEIALASAAKRRFEEDALIRVSIDQRTGDYKTYRQWH 63

Query: 68  VVEEVENYTC---QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           +V + E+Y+    ++++  + +++  + IG +  + +    FGR+A Q+AKQVI+QKVRE
Sbjct: 64  IVAD-EDYSAPAFELTIDDSEEQNLGVPIGEIYEEEVESEVFGRIAAQTAKQVIVQKVRE 122

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVK 183
           AER +    + +KVG+++ G VK+V   ++I+DLG N++  + +D+ I+RE+ R  DR++
Sbjct: 123 AERAKMVALYTEKVGKLVHGQVKKVTRDSLIIDLGENAEASLPKDQLIARESFRMNDRIR 182

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           + + ++R + RG Q++LSR  P FM++LF +EVPEI   +++++  +RDPG RAK+AV +
Sbjct: 183 ALLLEIRDDSRGAQLILSRNAPAFMIELFRLEVPEISEEVIEIRGAARDPGLRAKIAVKT 242

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  IDP+GACVGMRG+RVQAV  E+  E++DIV+W  + A  VINA+ PA V  +V+DE
Sbjct: 243 NDRRIDPIGACVGMRGARVQAVSNEMNGERVDIVLWDDNPAQLVINAMAPAEVDSIVIDE 302

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   ++V V  + L+ AIGR GQNVRLAS LTGW+++++T E+    +Q++  +    F+
Sbjct: 303 DAHSMDVAVKSDNLAQAIGRNGQNVRLASTLTGWSLNVMTSEDAEAKQQEESQKLIDIFV 362

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
             +++D+ +A  +V EGF  +EE+A + + E+  I+GFDE+   E++ RA+E L    + 
Sbjct: 363 NGLDIDDDLAIQMVDEGFTSLEEVAYIPMEEMLDIDGFDEDLVNELRSRAKEALLNQALQ 422

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGN 480
            ++++ +   + +L ++ G+D+ + + L   G+ TMEDLA  SVD+LL   G +E + G 
Sbjct: 423 AEEQLDDAKPAADLLAMEGMDNHLALVLASMGVITMEDLAEQSVDELLSVEGMTEERAGR 482

Query: 481 I 481
           +
Sbjct: 483 L 483


>gi|308272453|emb|CBX29057.1| Transcription elongation protein nusA [uncultured Desulfobacterium
           sp.]
          Length = 432

 Score =  354 bits (909), Expect = 2e-95,   Method: Compositional matrix adjust.
 Identities = 181/411 (44%), Positives = 275/411 (66%), Gaps = 5/411 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+ ++ D V+ ++ ID++V++  + ++++ AAR  YG   DI ++ N E+GDI  F+  +
Sbjct: 5   EIKRVVDQVSRDRGIDKNVLIKAIEEALKSAARKKYGNKIDIEIQYNEESGDIEAFQFKK 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE V +   QISL+  +  DP  +IG  +   +    FGR+A QSAKQVIIQK+++AER
Sbjct: 65  VVETVTDSMTQISLEEGQTLDPECEIGDSLGTKMDTTAFGRIAAQSAKQVIIQKMKDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           +  Y  F ++ GEII+G V+R+E+ G++IV+LG ++G++  +E IS+E  + GDR+++ +
Sbjct: 125 NAVYSSFIERKGEIINGIVQRIEHSGDIIVNLGQTEGILPINEQISKETYKRGDRIRALL 184

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V ++ RGPQ++LSRTH  F+  LF  EVPEI  GIV++    R+PG RAK+AV S+DS
Sbjct: 185 LEVLQDSRGPQIVLSRTHSNFLANLFKTEVPEISEGIVKIMGAVREPGVRAKIAVSSNDS 244

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            I PVGACVGM+GSRVQ VV ELR EKIDI+ W  DSA +V NAL PA + +V++DED  
Sbjct: 245 DIHPVGACVGMKGSRVQNVVQELRGEKIDIIPWHVDSAKYVCNALAPAEIIRVIIDEDNH 304

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +EVIVP E LS+AIG+RGQNVRLAS+LTGW +D+ +E   +   +  ++         I
Sbjct: 305 AMEVIVPDESLSIAIGKRGQNVRLASKLTGWNLDVQSESHYNEVLKNGYDSLVSLPGVGI 364

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
           N    + + L+ +GF  V+E++    S++  I+G  +E A ++   A E +
Sbjct: 365 N----LVNSLIEKGFTSVDEISNASASDLMQIKGIAKEKAEKLINSATEAI 411


>gi|222055779|ref|YP_002538141.1| NusA antitermination factor [Geobacter sp. FRC-32]
 gi|221565068|gb|ACM21040.1| NusA antitermination factor [Geobacter sp. FRC-32]
          Length = 380

 Score =  354 bits (908), Expect = 2e-95,   Method: Compositional matrix adjust.
 Identities = 175/338 (51%), Positives = 236/338 (69%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
             L    D +  EK ID+DVVL  +  ++  AA   +    D+    NPE G++ LF  +
Sbjct: 5   FNLKHTIDQIVKEKGIDKDVVLEALEQAVLTAANKKFRNTRDLEAHYNPEIGEVELFEFV 64

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VV+EV++   +I L  AR+ DP +++G  +   +    F R+A Q+AKQVIIQKVREAE
Sbjct: 65  TVVDEVQDSYKEIDLDEAREIDPEVEVGDSLGMKMDASGFSRIAAQTAKQVIIQKVREAE 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R+  + EF+++ GE+I+G V+R E G+++VDLG ++ ++   E   RE  R GDRVK+ I
Sbjct: 125 RETIFNEFQERQGEVINGVVRRFEKGDLVVDLGRAEALLSHKEQAPREVYRQGDRVKALI 184

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            ++R   +GPQ+LLSRTHP  + KLF  EVPEI  GIV+VK V R+PGSRAK+AV+S DS
Sbjct: 185 TEIRMTTKGPQILLSRTHPMMLAKLFEAEVPEIAEGIVEVKNVVREPGSRAKIAVYSHDS 244

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVGMRGSRVQ VV+ELR EKIDI+ WS D A F  NAL PA+V+KV +DED  
Sbjct: 245 DVDPVGACVGMRGSRVQNVVSELRGEKIDIIPWSEDVARFACNALAPAVVSKVYVDEDNR 304

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            +E++V  +QLSLAIG+RGQNVRLA++LTGW IDI +E
Sbjct: 305 AMEIVVADDQLSLAIGKRGQNVRLAAKLTGWRIDIKSE 342


>gi|319637701|ref|ZP_07992467.1| N utilization substance protein A [Neisseria mucosa C102]
 gi|317400856|gb|EFV81511.1| N utilization substance protein A [Neisseria mucosa C102]
          Length = 497

 Score =  353 bits (906), Expect = 4e-95,   Method: Compositional matrix adjust.
 Identities = 208/476 (43%), Positives = 314/476 (65%), Gaps = 19/476 (3%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLLE 67
           +LQ+A+A+A EK+++ +VV   +  ++  AA+        D+RVEI+ +TG+   FR   
Sbjct: 1   MLQLAEALASEKNVETEVVFKALEFALSTAAKKKADREHMDVRVEIDRDTGEYQTFRRWL 60

Query: 68  VVEEVENYT---CQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           +V + E+YT    + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 61  IVAD-EDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 119

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I R+E I REN R GD
Sbjct: 120 RDAEREQNLNEFLASKEDIVSGTVKRVERHGIIVEVVAGKLDALIPREEMIPRENFRSGD 179

Query: 181 RVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
           R+++    +R ++ G     QV+LSRT   F+ KL+  EVPEI +G+++++ V+RDPG R
Sbjct: 180 RIRALF--LRVDEIGNTGRKQVILSRTSGDFLAKLYANEVPEIADGLLEIREVARDPGQR 237

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           AK+AV ++D  IDP G C+G+RGSRV AV  EL  E+IDIV+WSP+ A FV+NAL PA V
Sbjct: 238 AKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDIVLWSPEPAQFVMNALSPAEV 297

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT-EEEDSINRQKDF 355
           +++V+DED   ++VIV + QL+LAIGR GQNVRLAS LTGW ++I+T EE D  N  +D 
Sbjct: 298 SRIVIDEDKHAVDVIVDENQLALAIGRGGQNVRLASILTGWQLNIMTVEEADERNAAEDA 357

Query: 356 NERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
             R   F   +N+D+  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+
Sbjct: 358 VIRN-LFTTHLNIDDETADILVEEGFATLEEVAYVPAAELLAIEGFDEEIVETLRNRARD 416

Query: 416 YLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
            +  + I  ++K+ E  VSE++ ++ G+DS +   L E G+   +DLA  SVD+L+
Sbjct: 417 AILTMTIAAEEKLGE--VSEDMRNLDGVDSDMLRKLAEAGVTQRDDLAELSVDELV 470


>gi|261364309|ref|ZP_05977192.1| transcription termination/antitermination protein NusA [Neisseria
           mucosa ATCC 25996]
 gi|288567563|gb|EFC89123.1| transcription termination/antitermination protein NusA [Neisseria
           mucosa ATCC 25996]
          Length = 500

 Score =  353 bits (905), Expect = 5e-95,   Method: Compositional matrix adjust.
 Identities = 205/477 (42%), Positives = 316/477 (66%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK+++ +VV   +  ++  AA+        D+RVEI+ +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVEAEVVFQALEFALSTAAKKKADREHMDVRVEIDRDTGEYHTFRRW 63

Query: 67  EVVEEVENYT---CQISLKVARDRDPSIDI--GGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT    + +++  ++  P  DI  G    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 64  LIVAD-EDYTYPDLEKTIEEIQEEIPGTDIQIGDYYEETLPNEGFGRQAAQTAKQIILQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I R++ I REN R G
Sbjct: 123 IRDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVPGKLDALIPREQMIPRENFRGG 182

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++    +R ++ G     QV+LSRT   F+ KL+ MEVPEI +G+++++ V+RDPG 
Sbjct: 183 DRIRALF--LRVDEIGNTGRKQVILSRTSGDFLAKLYEMEVPEIADGLLEIREVARDPGQ 240

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WS ++A FV+NAL PA 
Sbjct: 241 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELAGERIDVVLWSSETAEFVMNALSPAE 300

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT-EEEDSINRQKD 354
           V+++V+DED   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T EE D     +D
Sbjct: 301 VSRIVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTVEEADERTAAED 360

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R   F   +N+D+  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR
Sbjct: 361 AAIR-DLFTAHLNIDDETADILVEEGFATLEEVAYVPAAELLAIEGFDEEIVETLRNRAR 419

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  + I  ++K+ E  VS+++ ++ G+DS +   L E G+ T +DLA  +VD+L+
Sbjct: 420 DAILTMAIASEEKLEE--VSDDMRNLDGVDSDMLRKLAEAGVTTRDDLAELAVDELI 474


>gi|58584795|ref|YP_198368.1| transcription elongation factor NusA [Wolbachia endosymbiont strain
           TRS of Brugia malayi]
 gi|58419111|gb|AAW71126.1| Transcription elongation factor, NusA [Wolbachia endosymbiont
           strain TRS of Brugia malayi]
          Length = 520

 Score =  353 bits (905), Expect = 5e-95,   Method: Compositional matrix adjust.
 Identities = 200/516 (38%), Positives = 324/516 (62%), Gaps = 27/516 (5%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           L++++ A  ++ +K +D +V++  +  +I+  A   YG+ S + V I+  TG++  +R L
Sbjct: 22  LDIIKTAGEISLQKGLDFEVIMKALESAIEAVAYQKYGSKSKVVVNIDRSTGEVISYREL 81

Query: 67  EVVE-----EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +VV+     E  N    I+L  A+       +G  +++ L  ++    + + A+Q I Q 
Sbjct: 82  KVVDDEPNGEEHNGYGSITLTQAKLIKEDAKVGDTINELLS-LNTDLASARIAQQRIAQV 140

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++  E  +QY EFKDKVGEI  G VK+VEY ++I+D+  +   +     I  E  R GD+
Sbjct: 141 IKYEELKKQYEEFKDKVGEIRYGIVKQVEYSDLIIDINGTRAYLPLRNLIGGELFREGDK 200

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K+YI  V+R   G Q++LSR    F+  L   E+PEI +G+V VK ++RD GSR+K+AV
Sbjct: 201 IKAYIQTVKRSDDGRQIILSRASEGFLEALLSQEIPEIADGLVTVKGIARDAGSRSKVAV 260

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           FS D +IDPVGACVG++G R++A++ EL  EKID+V +  D   FVI A+ PA V+KV++
Sbjct: 261 FSPDKNIDPVGACVGVKGERIKAIIHELNGEKIDVVHYFSDLGQFVIKAITPAEVSKVII 320

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE    +E+IV ++QLSLAIG++GQNVRLAS+L GW I+I++ +++S  R ++ ++ +  
Sbjct: 321 DESENCVELIVAEDQLSLAIGKKGQNVRLASELIGWKIEILSTQQESERRNRELSQCSAL 380

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F +A+N++EI+  LLV EGF+ VE+++   I E+ASIEGF+E+ A E++ RA  YL+  +
Sbjct: 381 FAEALNLEEIMGQLLVTEGFSSVEDISNASIKELASIEGFNEDIASELRNRANRYLKAEN 440

Query: 422 ITLQKKIRELGVSEELCSIP-GIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
               ++++ LG+  ++ ++P  ID KI  AL E+GIKT+E++A     DL  +       
Sbjct: 441 DRKIEELKSLGMESDVINLPLSIDDKI--ALSEHGIKTLENIA-----DLSSY------- 486

Query: 481 IEKFDGFLSSLGTPKDQ----VESMIIHARYKMGWI 512
             +F   LSS  + K+     V S+I+ AR K+G I
Sbjct: 487 --EFCSILSSSASDKENLKNTVNSIIMEARKKLGVI 520


>gi|219682291|ref|YP_002468675.1| transcription elongation factor NusA [Buchnera aphidicola str. Tuc7
           (Acyrthosiphon pisum)]
 gi|219622024|gb|ACL30180.1| transcription elongation factor NusA [Buchnera aphidicola str. Tuc7
           (Acyrthosiphon pisum)]
 gi|311086115|gb|ADP66197.1| transcription elongation factor NusA [Buchnera aphidicola str. LL01
           (Acyrthosiphon pisum)]
 gi|311086688|gb|ADP66769.1| transcription elongation factor NusA [Buchnera aphidicola str.
           TLW03 (Acyrthosiphon pisum)]
          Length = 496

 Score =  353 bits (905), Expect = 6e-95,   Method: Compositional matrix adjust.
 Identities = 186/465 (40%), Positives = 297/465 (63%), Gaps = 2/465 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  +    DIRV IN +TG  + FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALEMALATATKKKHEQEIDIRVSINRKTGGFTTFRRWM 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE V   T +I+L+ A      + +   + + +  +DF R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVETVTQPTREITLEAACFDGEKVYLNDYIEEQIESVDFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F+   G+II+G VK++   N+++DLGN ++ +I R+  + REN RPGDR++  +
Sbjct: 124 AMLVEQFRKYTGQIITGIVKKINRDNIMLDLGNNAEALILREGMLPRENFRPGDRIRGIL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E RG Q+ +SR+  + + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YGVYPEARGAQLFISRSKTEMLTELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDI++W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELCGERIDIILWDDNPAQFVINAMAPADVASIVVDEDCH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQ++GW ++++T E+     +++ +    FF + +
Sbjct: 304 TMDIAVDVNNLAQAIGRNGQNVRLASQISGWELNVMTTEDLHSKHKEEAHTAFNFFKKNL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           N++E I  +LV EGF+ +EELA +  +E+  ++   E+ A +++  A+  L  ++    K
Sbjct: 364 NINENIIKILVKEGFSSLEELAYIPFNELLEVKNLTEDQAKKVREGAKSKLLLMESDKNK 423

Query: 427 K-IRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
             I+E    +EL  I G+++ + + L E  I T+E+LA   +DDL
Sbjct: 424 MIIQERKTEKELLKINGMNAVLALQLAEKNIFTIEELADQGIDDL 468


>gi|298369368|ref|ZP_06980686.1| transcription termination/antitermination protein NusA [Neisseria
           sp. oral taxon 014 str. F0314]
 gi|298283371|gb|EFI24858.1| transcription termination/antitermination protein NusA [Neisseria
           sp. oral taxon 014 str. F0314]
          Length = 500

 Score =  352 bits (904), Expect = 6e-95,   Method: Compositional matrix adjust.
 Identities = 206/477 (43%), Positives = 319/477 (66%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RVEI+ +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDTEVVFQALEFALSTAAKKKANREHMDVRVEIDRDTGEYRTFRRW 63

Query: 67  EVVEEVENYT---CQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT    + +++  ++  P   I IG    + L    FGR A Q+AKQ+I+Q+
Sbjct: 64  LIVAD-EDYTYPDVEKTIEEIQEEIPGTEIQIGEYYEEQLENEGFGRQAAQTAKQIILQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF  +  +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R G
Sbjct: 123 IRDAEREQILNEFLARKEDIVSGTVKRVERHGIIVEVVSGKLDALIPRDQMIPRENFRSG 182

Query: 180 DRVKSYIYDVRREQRGP----QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++ +  +R ++ G     QV+LSRT   F+ KL+ MEVPEI +G ++++AV+RDPG 
Sbjct: 183 DRIRALL--LRVDEIGSTGRKQVILSRTDKNFLAKLYAMEVPEIEDGSLEIRAVARDPGQ 240

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP++A FVINAL PA 
Sbjct: 241 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPETAQFVINALSPAE 300

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT-EEEDSINRQKD 354
           VT++V+DED   ++V+V ++QL+LAIGR GQNVRLAS LT W ++I+T  E D  N  +D
Sbjct: 301 VTRIVIDEDKHAVDVVVAEDQLALAIGRGGQNVRLASDLTEWQLNIMTVAEADERNEAED 360

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R + F + +N+DE  A +L+ EGFA +EE+A V  +E+  I+GFDEE    ++ RAR
Sbjct: 361 EAIR-KLFTEHLNIDEETADILLQEGFATLEEVAYVPAAELLEIDGFDEEIVEVLRNRAR 419

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  + I  ++K+ +  V+++L S+ G+D+++   L + GI T +DLA  +VD+L+
Sbjct: 420 DAILTLAIASEEKLED--VADDLRSLEGLDTEMLRDLAQAGIITRDDLAELAVDELI 474


>gi|15616983|ref|NP_240196.1| transcription elongation factor NusA [Buchnera aphidicola str. APS
           (Acyrthosiphon pisum)]
 gi|219681736|ref|YP_002468122.1| transcription elongation factor NusA [Buchnera aphidicola str. 5A
           (Acyrthosiphon pisum)]
 gi|257471436|ref|ZP_05635435.1| transcription elongation factor NusA [Buchnera aphidicola str. LSR1
           (Acyrthosiphon pisum)]
 gi|11386974|sp|P57459|NUSA_BUCAI RecName: Full=Transcription elongation protein nusA
 gi|25299780|pir||B84974 N utilization substance protein A [imported] - Buchnera sp.
           (strain APS)
 gi|10039048|dbj|BAB13082.1| N utilization substance protein A [Buchnera aphidicola str. APS
           (Acyrthosiphon pisum)]
 gi|219624579|gb|ACL30734.1| transcription elongation factor NusA [Buchnera aphidicola str. 5A
           (Acyrthosiphon pisum)]
 gi|311087273|gb|ADP67353.1| transcription elongation factor NusA [Buchnera aphidicola str. JF99
           (Acyrthosiphon pisum)]
          Length = 496

 Score =  352 bits (904), Expect = 7e-95,   Method: Compositional matrix adjust.
 Identities = 186/465 (40%), Positives = 297/465 (63%), Gaps = 2/465 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  +    DIRV IN +TG  + FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALEMALATATKKKHEQEIDIRVSINRKTGGFTTFRRWM 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE V   T +I+L+ A      + +   + + +  +DF R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVETVTQPTREITLEAACFDGEKVYLNDYIEEQIESVDFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F+   G+II+G VK++   N+++DLGN ++ +I R+  + REN RPGDR++  +
Sbjct: 124 AMLVEQFRKYTGQIITGIVKKINRDNIMLDLGNNAEALILREGMLPRENFRPGDRIRGIL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E RG Q+ +SR+  + + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YGVYPEARGAQLFISRSKTEMLTELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV +EL  E+IDI++W  + A FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSSELCGERIDIILWDDNPAQFVINAMAPADVASIVVDEDCH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQ++GW ++++T E+     +++ +    FF + +
Sbjct: 304 TMDIAVDINNLAQAIGRNGQNVRLASQISGWELNVMTTEDLHSKHKEEAHTAFNFFKKNL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           N++E I  +LV EGF+ +EELA +  +E+  ++   E+ A +++  A+  L  ++    K
Sbjct: 364 NINENIIKILVKEGFSSLEELAYIPFNELLEVKNLTEDQAKKVREGAKSKLLLMESDKNK 423

Query: 427 K-IRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
             I+E    +EL  I G+++ + + L E  I T+E+LA   +DDL
Sbjct: 424 MIIQERKTEKELLKINGMNAVLALQLAEKNIFTIEELADQGIDDL 468


>gi|92115190|ref|YP_575118.1| NusA antitermination factor [Chromohalobacter salexigens DSM 3043]
 gi|91798280|gb|ABE60419.1| NusA antitermination factor [Chromohalobacter salexigens DSM 3043]
          Length = 497

 Score =  352 bits (902), Expect = 1e-94,   Method: Compositional matrix adjust.
 Identities = 195/464 (42%), Positives = 297/464 (64%), Gaps = 4/464 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFRLL 66
           E+L + DA++ EK + R+V+   +  ++  A+R  + G     RV+I+  TGD   FR  
Sbjct: 4   EILLVVDAISNEKGVPREVIFEAVESALASASRKRFDGQEVSTRVKIDRATGDYDTFRRW 63

Query: 67  EVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
            VVE+   EN   +I L  A  RDP + +G VV + +  + FGR+A Q+AKQVI+QKVRE
Sbjct: 64  TVVEDEAFENPDSEIPLSEAERRDPPLALGDVVEEQVESVAFGRIAAQTAKQVIVQKVRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVK 183
           AER     ++ ++ GE+++G VK+     +IVDLG N++  + R E I  E  R  +RV+
Sbjct: 124 AERAEVVRQYAEREGELVAGIVKKTTREGLIVDLGENAEAFLPRSEMIPGERYRMNERVR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           + ++ V  E RG Q++L+RT P  +V+LF +EVPEI   ++++K  +RDPG+RAK+AV +
Sbjct: 184 ALLWKVDAEARGSQLILTRTRPDMIVELFKIEVPEIAEQLIEIKGAARDPGARAKIAVKT 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  IDPVGACVGMRGSRVQAV  ELR+E++DI++W  + A  VINA+ PA V  +++DE
Sbjct: 244 NDKRIDPVGACVGMRGSRVQAVSNELRNERVDIIMWDDNPAQLVINAMAPAEVGSILVDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   ++V V ++ L+ AIGR GQNVRLAS+LTGWT++++TEEE    R+++ +   ++F+
Sbjct: 304 DAHSMDVAVAEDNLAQAIGRSGQNVRLASELTGWTLNVMTEEEAEGKREQEIDSLIEYFI 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
             + VDE +A LLV EGF  +EELA V + E+  IE  DE     ++ RA++ L  + I 
Sbjct: 364 NHLEVDEELARLLVEEGFTSLEELAYVPLEELLEIEELDEALIETLRARAKDELLTLAIA 423

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSV 467
            ++ +      ++L  + G+D  +   L   GI T EDLA  S+
Sbjct: 424 SEEALDGAQPDDDLLEMEGMDRHLAFTLASRGIVTREDLAEQSI 467


>gi|21672641|ref|NP_660708.1| transcription elongation factor NusA [Buchnera aphidicola str. Sg
           (Schizaphis graminum)]
 gi|25090841|sp|Q8K9H0|NUSA_BUCAP RecName: Full=Transcription elongation protein nusA
 gi|21623276|gb|AAM67919.1| N utilization substance protein A [Buchnera aphidicola str. Sg
           (Schizaphis graminum)]
          Length = 495

 Score =  351 bits (901), Expect = 1e-94,   Method: Compositional matrix adjust.
 Identities = 182/465 (39%), Positives = 295/465 (63%), Gaps = 1/465 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV IN +TG+ S FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALEIALATATKKKYEQEIDVRVSINRKTGNFSTFRRWM 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V + T +I+L+ A      + I   V D +  ++F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVDIVVHPTKEITLEAACFEGEQVKINDYVEDKIESVNFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F+  +G+II+G VK++   N+ +DLGN ++ +I R+  + REN RPGDR++  +
Sbjct: 124 AMLVDQFRKHIGQIITGIVKKISRDNLTLDLGNNAEALILREGMLPRENFRPGDRIRGIL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V  E RG Q+ LSR+  + +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D 
Sbjct: 184 YGVYPEARGAQLFLSRSKTEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDP+GACVGMRG+RVQAV +EL  E+IDI++W  + A FVINA+ PA V  +++DED  
Sbjct: 244 RIDPIGACVGMRGARVQAVSSELCGERIDIILWDDNPAQFVINAMAPADVVSIIVDEDHH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V    L+ AIGR GQNVRLASQ++GW ++++T E+     +++       F + +
Sbjct: 304 TMDIAVDSSNLAQAIGRNGQNVRLASQISGWELNVMTTEDLRSKHKEEAYAAFNIFKKNL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           NV E +   LV EGF+ +EELA + ++E+  I    E     ++  A+  L  +++  + 
Sbjct: 364 NVSEKVIKTLVKEGFSSLEELAYIPLNELLEINNLTEREVQLVREGAKNGLLLLELDQKN 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           +I+   + + L ++ G++  + + L E  I T+E+LA   +DDL+
Sbjct: 424 QIKNKKIEQALLNVNGMNELLALKLAEKNIFTVEELANQGIDDLI 468


>gi|94272101|ref|ZP_01292067.1| Transcription termination factor NusA [delta proteobacterium
           MLMS-1]
 gi|93450237|gb|EAT01518.1| Transcription termination factor NusA [delta proteobacterium
           MLMS-1]
          Length = 476

 Score =  350 bits (899), Expect = 2e-94,   Method: Compositional matrix adjust.
 Identities = 184/397 (46%), Positives = 266/397 (67%), Gaps = 7/397 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL +I D +  +K IDR++++  + +++  AA+  YG   ++    N E G++ LF+   
Sbjct: 4   ELKRIIDQICRDKGIDRELLIEAIEEAVMSAAKKRYGMRREVEARFNDELGEVELFQFRA 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM-DFGRVAVQSAKQVIIQKVREAE 126
           VV+EVE+   QIS   A+  DP +++G  +   +  + D GR+A QSAKQVIIQK++EAE
Sbjct: 64  VVDEVEDEQTQISYADAKALDPEVEMGDELGSKMESVADLGRIAAQSAKQVIIQKMKEAE 123

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
            D  +  FKD+ G+I++G V+R E GN+IV+LG +D ++   E + R++ R GDR+++Y+
Sbjct: 124 SDVVFDMFKDRKGDIVNGIVQRFERGNMIVNLGRTDAILPSREQMPRKSYRQGDRIRAYL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            DVR+  + PQ++LSRT  +F++KLF +EVPE+  GIV +  V+R+PGSRAK+AV S+++
Sbjct: 184 LDVRQSSKDPQLILSRTCNEFLIKLFALEVPEVAEGIVNILGVAREPGSRAKIAVSSTET 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVGM+GSRVQ VV EL+ EKIDIV WSPD A FV NAL PA V+ VV+DE+  
Sbjct: 244 DVDPVGACVGMKGSRVQNVVQELQGEKIDIVPWSPDPARFVSNALSPAQVSLVVVDEESK 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT-QFFMQA 365
            + V+VP +QLSLAIGR+GQNVRLAS L  W ID+ +E     +R   F E   Q  ++ 
Sbjct: 304 TLLVVVPDDQLSLAIGRQGQNVRLASALLDWRIDVKSE-----SRYARFIEDGFQSLLEL 358

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
             + E  A LL   G+  V ELA     E+  I+GFD
Sbjct: 359 AGMTEKRAELLAENGYGSVTELAAASAEELQEIDGFD 395


>gi|197117688|ref|YP_002138115.1| transcription elongation factor NusA [Geobacter bemidjiensis Bem]
 gi|197087048|gb|ACH38319.1| transcription termination factor NusA [Geobacter bemidjiensis Bem]
          Length = 383

 Score =  350 bits (899), Expect = 3e-94,   Method: Compositional matrix adjust.
 Identities = 173/338 (51%), Positives = 234/338 (69%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
             L    D +  EK ID+ +V+  +  ++  AA   +    D+    NPE G++ LF  +
Sbjct: 5   FNLKHTIDQIVKEKGIDKSIVVEALEQAVLTAANKKFRNTRDLEAHYNPEEGEVELFEFV 64

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VVEEV++   +I L  AR+ DP ++IG  +   +    F R+A Q+AKQVIIQ+VREAE
Sbjct: 65  TVVEEVQDSYREIELDEAREEDPEVEIGDSIGMKMDASGFSRIAAQTAKQVIIQRVREAE 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R+  + EF ++ GEI++G V+R E G++IVDLG ++ ++   E   RE  R GDRVK+ I
Sbjct: 125 RETIFNEFMERQGEIVNGVVRRFEKGDLIVDLGRAEALLPHKEQAPREVYRQGDRVKALI 184

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            ++R   +GPQ++LSRTHP  + KLF  EVPEI  GIV++K+V R+PG RAK+AV+S DS
Sbjct: 185 TEIRMTTKGPQIMLSRTHPTMLAKLFEAEVPEIAEGIVEIKSVVREPGGRAKIAVYSHDS 244

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVGMRGSRVQ VV+ELR EKIDI+ WS D A F  NAL PA+VTKV +DE+  
Sbjct: 245 DVDPVGACVGMRGSRVQNVVSELRGEKIDIIPWSEDIARFACNALAPAVVTKVYVDEEEY 304

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            +EVIV  +QLSLAIG+RGQNVRLA++LTGW IDI +E
Sbjct: 305 AMEVIVADDQLSLAIGKRGQNVRLAAKLTGWKIDIKSE 342


>gi|71891890|ref|YP_277620.1| transcription elongation factor NusA [Candidatus Blochmannia
           pennsylvanicus str. BPEN]
 gi|71795996|gb|AAZ40747.1| L factor [Candidatus Blochmannia pennsylvanicus str. BPEN]
          Length = 505

 Score =  350 bits (899), Expect = 3e-94,   Method: Compositional matrix adjust.
 Identities = 191/472 (40%), Positives = 302/472 (63%), Gaps = 9/472 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ ++ +   +  ++  A +  Y    ++RV I+ ++G I+ FR   
Sbjct: 4   EILAVIEAVSNEKAVPQEKIFEALETALAAATKKKYEQDVEVRVVIDRKSGQINTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE+V   T +I+L  AR  +P + I   V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVEQVTQPTKEITLDAARFENPKVQICDYVEDVIESISFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F ++ G+I++G VK++   ++ +DLGN ++G+I R+E + REN R GDR++  +
Sbjct: 124 AIIIEQFLNRQGDIVTGIVKKINRDSISIDLGNNAEGMINREEMLPRENFRLGDRIRGIL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y VR + +GPQ+L+SRT  + +++LF +EVPEI   ++ +KA +RDPGSRAK+AV ++D 
Sbjct: 184 YLVRPDFKGPQLLISRTRTEMLIELFRIEVPEIGEELITIKAAARDPGSRAKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQAV  EL  E++D+++W  +   FVINA+ PA V  +V+DED  
Sbjct: 244 RIDPVGACVGMRGARVQAVSGELGGERVDVILWDDNPVQFVINAMSPADVASIVIDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V +  L  AIGR GQN+RL SQL+GW ++I+T +E    RQ +    T  F+ ++
Sbjct: 304 TMDISVEETNLPQAIGRNGQNIRLVSQLSGWELNIMTVDELEKKRQVEICTITNIFIHSL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID-ITLQ 425
           N+ E  A +L+  GF+ +EELA V ++E+ SI+ FD +T   I+ RA+  L+    I  +
Sbjct: 364 NISEQFAKILIDSGFSSLEELAYVPMTELLSIKEFDRKTVEIIRDRAKSALKNFSVIHNE 423

Query: 426 KKIRELGVSEE-------LCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           K I+E   +         L  +P I+ K+ + L E GI T+E+LA   + DL
Sbjct: 424 KNIKEDNYTAAVIHPVTGLLRLPNIEYKLALTLVERGISTLEELAEQDISDL 475


>gi|253701581|ref|YP_003022770.1| transcription elongation factor NusA [Geobacter sp. M21]
 gi|251776431|gb|ACT19012.1| NusA antitermination factor [Geobacter sp. M21]
          Length = 382

 Score =  350 bits (898), Expect = 3e-94,   Method: Compositional matrix adjust.
 Identities = 173/338 (51%), Positives = 234/338 (69%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
             L    D +  EK ID+ +V+  +  ++  AA   +    D+    NPE G++ LF  +
Sbjct: 5   FNLKHTIDQIVKEKGIDKSIVVEALEQAVLTAANKKFRNTRDLEAHYNPEEGEVELFEFV 64

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VVEEV++   +I L  AR+ DP ++IG  +   +    F R+A Q+AKQVIIQ+VREAE
Sbjct: 65  TVVEEVQDSYREIELDEAREEDPEVEIGDSIGMKMDASGFSRIAAQTAKQVIIQRVREAE 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R+  + EF ++ GEI++G V+R E G++IVDLG ++ ++   E   RE  R GDRVK+ I
Sbjct: 125 RETIFNEFMERQGEIVNGVVRRFEKGDLIVDLGRAEALLPHKEQAPREVYRQGDRVKALI 184

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            ++R   +GPQ++LSRTHP  + KLF  EVPEI  GIV++K+V R+PG RAK+AV+S DS
Sbjct: 185 TEIRMTTKGPQIMLSRTHPTMLAKLFEAEVPEIAEGIVEIKSVVREPGGRAKIAVYSHDS 244

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVGMRGSRVQ VV+ELR EKIDI+ WS D A F  NAL PA+VTKV +DE+  
Sbjct: 245 DVDPVGACVGMRGSRVQNVVSELRGEKIDIIPWSEDIARFACNALAPAVVTKVYVDEEEY 304

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            +EVIV  +QLSLAIG+RGQNVRLA++LTGW IDI +E
Sbjct: 305 AMEVIVADDQLSLAIGKRGQNVRLAAKLTGWKIDIKSE 342


>gi|323144579|ref|ZP_08079168.1| transcription termination factor NusA [Succinatimonas hippei YIT
           12066]
 gi|322415655|gb|EFY06400.1| transcription termination factor NusA [Succinatimonas hippei YIT
           12066]
          Length = 493

 Score =  350 bits (898), Expect = 3e-94,   Method: Compositional matrix adjust.
 Identities = 196/481 (40%), Positives = 304/481 (63%), Gaps = 12/481 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E++ IA+A++ E++I RD +   +  ++  A +  Y     +RV I+ + G    +R   
Sbjct: 4   EIIAIAEALSNERAIPRDKIFEALETALATATKKKYPVDIAVRVAIDRKDGSYRTYRRWN 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           V++    +EN   ++SL  A++    I  G VV + +P + F R+ +Q+AKQV+ QKV++
Sbjct: 64  VIDTDGPLENPASEVSLAAAKEDHQGIQAGDVVEEEIPSVKFDRITIQTAKQVLSQKVKD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVK 183
           AER++   E ++ +G +++ TVK+     +I+DLGN ++ V+RRD+ I  E    GDR+K
Sbjct: 124 AEREQIIAEQREHLGHVVNATVKKQGRDFLILDLGNNAEAVLRRDQIIPHETFGRGDRIK 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
             + ++R + +GPQ++ SRT  +F+ +LF +EVPEI   I+++ +V+RDPGSRAK++V S
Sbjct: 184 VLLSEIRADGKGPQIICSRTANEFLSELFRIEVPEIGEDIIEIMSVARDPGSRAKISVRS 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D  IDP GAC+GMRG+RV AV  EL  EKID+V+W  + A +V NA+ PA V+K++++E
Sbjct: 244 KDRRIDPRGACIGMRGARVMAVSNELAGEKIDVVLWDENLAQYVNNAMEPAEVSKIIINE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   I+V V  E L+LAIGR GQNVRLASQ+ GW + ++TE E     + +  +  + F+
Sbjct: 304 DSHTIDVAVADENLALAIGRNGQNVRLASQILGWNLKVMTESEMEEGLKAEEGKVIKTFV 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
            A+N+D+  A  L + GF  +EE+A V I E  SIEG D ETA+ +Q  AR+ L      
Sbjct: 364 DALNIDDEFAEALSSVGFTTLEEIAYVPIEEFESIEGIDRETAIILQENARKAL----AE 419

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGN 480
            ++K++E G SE L  + GIDS + + L   GIK  E+LA  +VDDLL   G +E K G 
Sbjct: 420 REEKLKESG-SESLTKLEGIDSDLAMKLVAVGIKDPEELAEQAVDDLLDIEGMTEEKAGQ 478

Query: 481 I 481
           I
Sbjct: 479 I 479


>gi|158523046|ref|YP_001530916.1| transcription elongation factor NusA [Desulfococcus oleovorans
           Hxd3]
 gi|158511872|gb|ABW68839.1| NusA antitermination factor [Desulfococcus oleovorans Hxd3]
          Length = 475

 Score =  350 bits (898), Expect = 3e-94,   Method: Compositional matrix adjust.
 Identities = 180/396 (45%), Positives = 259/396 (65%), Gaps = 4/396 (1%)

Query: 11  QIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE 70
           ++ + V+ +K IDRD ++  + ++I+ AAR  YG   DI    + +TG+I +F+  EVVE
Sbjct: 8   RVVEQVSRDKGIDRDTLVKALEEAIKSAARKRYGAAIDIETMYDEDTGEIEIFQFKEVVE 67

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
            V++   QI+    R  DP  ++G  +   +    FGR+A QSAKQVIIQK+REAER   
Sbjct: 68  TVQDPDLQITFVEGRALDPECELGDSLGVKMDTQSFGRIAAQSAKQVIIQKMREAERSAV 127

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVR 190
           Y  F +K GEII+G V R+E GNVIV++G ++ ++   E I  E  R GDRV++ +  V 
Sbjct: 128 YKNFVEKEGEIINGIVSRMERGNVIVNIGEAEAILNSREQIPGEGYRRGDRVRANVMKVL 187

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDP 250
            E  GPQ++LSR HP F+V LF  EVPEI  GI+ +KA++R+ G R K+AV S+D  IDP
Sbjct: 188 EETAGPQIILSRAHPDFVVNLFKTEVPEISEGIITIKAIAREAGGRTKIAVVSNDMDIDP 247

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEV 310
           VGACVG+RG+R+Q VV EL+ EKIDIV W+PD A FV NAL PA + +V++DED   +E+
Sbjct: 248 VGACVGVRGNRIQNVVKELKGEKIDIVPWNPDPAKFVCNALSPAEIARVIIDEDNAAMEI 307

Query: 311 IVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDE 370
           IVP E  SLAIGRRGQNVRLAS+LTGW +D+ +E   +   ++ ++      +Q   VD 
Sbjct: 308 IVPDESHSLAIGRRGQNVRLASKLTGWHLDVQSESIYTQAMERGYD----TLLQIPGVDG 363

Query: 371 IIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
            +A+ L   GF   ++++   + ++  +EG DE +A
Sbjct: 364 SLANALCEVGFFSADDISGAAVDDLIELEGIDEASA 399



 Score = 38.5 bits (88), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 56/230 (24%), Positives = 102/230 (44%), Gaps = 31/230 (13%)

Query: 258 RGSRVQAVVTELRDEKIDI-VVWSPDSATFVINALRPA--------IVTKVVLDEDVGRI 308
           RG RV+A V ++ +E     ++ S     FV+N  +          I  K +  E  GR 
Sbjct: 175 RGDRVRANVMKVLEETAGPQIILSRAHPDFVVNLFKTEVPEISEGIITIKAIAREAGGRT 234

Query: 309 EVIVPKEQLSL-----AIGRRGQNVR-LASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ++ V    + +      +G RG  ++ +  +L G  IDI+    D            +F 
Sbjct: 235 KIAVVSNDMDIDPVGACVGVRGNRIQNVVKELKGEKIDIVPWNPDP----------AKFV 284

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIA-SIEGFDEETAVEIQGRAREYLEGID 421
             A++  EI A +++ E  A +E +   +   +A    G +   A ++ G    +L+   
Sbjct: 285 CNALSPAEI-ARVIIDEDNAAMEIIVPDESHSLAIGRRGQNVRLASKLTGW---HLDVQS 340

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
            ++  +  E G  + L  IPG+D  +  AL E G  + +D++G +VDDL+
Sbjct: 341 ESIYTQAMERGY-DTLLQIPGVDGSLANALCEVGFFSADDISGAAVDDLI 389


>gi|255066627|ref|ZP_05318482.1| transcription termination/antitermination protein NusA [Neisseria
           sicca ATCC 29256]
 gi|255049211|gb|EET44675.1| transcription termination/antitermination protein NusA [Neisseria
           sicca ATCC 29256]
          Length = 500

 Score =  350 bits (898), Expect = 3e-94,   Method: Compositional matrix adjust.
 Identities = 203/477 (42%), Positives = 316/477 (66%), Gaps = 19/477 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK+++ +VV   +  ++  AA+        D+RVEI+ +TG+   +R  
Sbjct: 4   EMLQLAEALASEKNVEAEVVFQALEFALSTAAKKKADREHMDVRVEIDRDTGEYHTYRRW 63

Query: 67  EVVEEVENYT---CQISLKVARDRDPSIDI--GGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT    + +++  ++  P  DI  G    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 64  LIVAD-EDYTYPDLEKTIEEIQEEIPGTDIQIGDYYEETLPNEGFGRQAAQTAKQIILQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I R++ I REN R G
Sbjct: 123 IRDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVPGKLDALIPREQMIPRENFRGG 182

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++    +R ++ G     QV+LSRT   F+ KL+ MEVPEI +G+++++ V+RDPG 
Sbjct: 183 DRIRALF--LRVDEIGNTGRKQVILSRTSGDFLAKLYEMEVPEIADGLLEIREVARDPGQ 240

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WS ++A FV+NAL PA 
Sbjct: 241 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELAGERIDVVLWSSETAEFVMNALSPAE 300

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT-EEEDSINRQKD 354
           V+++V+D+D   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T EE D     +D
Sbjct: 301 VSRIVIDDDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTVEEADERTAAED 360

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R   F   +N+D+  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR
Sbjct: 361 AAIR-DLFTAHLNIDDETADILVEEGFATLEEVAYVPAAELFAIEGFDEEIVETLRNRAR 419

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + +  + I  ++K+ E  VS+++ ++ G+DS +   L E G+ T +DLA  +VD+L+
Sbjct: 420 DAILTMAIASEEKLEE--VSDDMRNLDGVDSDMLRKLAEAGVTTRDDLAELAVDELI 474


>gi|94263057|ref|ZP_01286876.1| Transcription termination factor NusA [delta proteobacterium
           MLMS-1]
 gi|93456600|gb|EAT06708.1| Transcription termination factor NusA [delta proteobacterium
           MLMS-1]
          Length = 472

 Score =  348 bits (893), Expect = 1e-93,   Method: Compositional matrix adjust.
 Identities = 183/397 (46%), Positives = 265/397 (66%), Gaps = 7/397 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL +I D +  +K IDR++++  + +++  AA+  YG   ++    N E G++ LF+   
Sbjct: 4   ELKRIIDQICRDKGIDRELLIEAIEEAVMSAAKKRYGMRREVEARFNDELGEVELFQFRA 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM-DFGRVAVQSAKQVIIQKVREAE 126
           VV+EV +   QIS   A+  DP +++G  +   +  + D GR+A QSAKQVIIQK++EAE
Sbjct: 64  VVDEVADEQTQISYADAKALDPEVEMGDELGSKMESVADLGRIAAQSAKQVIIQKMKEAE 123

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
            D  +  FKD+ G+I++G V+R E GN+IV+LG +D ++   E + R++ R GDR+++Y+
Sbjct: 124 SDVVFDMFKDRKGDIVNGIVQRFERGNMIVNLGRTDAILPSREQMPRKSYRQGDRIRAYL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            DVR+  + PQ++LSRT  +F++KLF +EVPE+  GIV +  V+R+PGSRAK+AV S+++
Sbjct: 184 LDVRQSSKDPQLILSRTCNEFLIKLFALEVPEVAEGIVNILGVAREPGSRAKIAVSSTET 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVGM+GSRVQ VV EL+ EKIDIV WSPD A FV NAL PA V+ VV+DE+  
Sbjct: 244 DVDPVGACVGMKGSRVQNVVQELQGEKIDIVPWSPDPARFVSNALSPAQVSLVVVDEESK 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT-QFFMQA 365
            + V+VP +QLSLAIGR+GQNVRLAS L  W ID+ +E     +R   F E   Q  ++ 
Sbjct: 304 TLLVVVPDDQLSLAIGRQGQNVRLASALLDWRIDVKSE-----SRYARFIEDGFQSLLEL 358

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
             + E  A LL   G+  V ELA     E+  I+GFD
Sbjct: 359 AGMTEKRAELLAENGYGSVTELAAASAEELQEIDGFD 395


>gi|78358201|ref|YP_389650.1| transcription elongation factor NusA [Desulfovibrio desulfuricans
           subsp. desulfuricans str. G20]
 gi|78220606|gb|ABB39955.1| NusA antitermination factor [Desulfovibrio desulfuricans subsp.
           desulfuricans str. G20]
          Length = 429

 Score =  348 bits (893), Expect = 1e-93,   Method: Compositional matrix adjust.
 Identities = 178/395 (45%), Positives = 267/395 (67%), Gaps = 5/395 (1%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +EL +  D ++ ++ +DR +++  + ++++ +    YG   D+ V  N ETG+I +++  
Sbjct: 3   MELKKAIDQISKDRGLDRALLIETLEEAVRTSVIRKYGDELDLEVNFNEETGEIEVYQFK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            V EEVE+   QISL+ AR  DPS+ +   +   L   D GR+A QSAKQVIIQ++R+AE
Sbjct: 63  IVTEEVEDEASQISLEDARAHDPSVQLDDEMGFRLKIEDLGRIAAQSAKQVIIQRMRDAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           ++  Y EFKD++ E+ SG ++R +    I++LG ++ ++ +DE I RE+ + GDRV++ I
Sbjct: 123 QEIIYEEFKDRLNEVASGIIQRRDKTGWIINLGRTEALLPKDEQIPREHYKRGDRVQAII 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +VR+E RGPQV++SR+HP +M  LF  EVPE+ +  VQV  V+RDPGSRAK+AV S D 
Sbjct: 183 IEVRKEGRGPQVVVSRSHPDYMAALFKREVPEVDDETVQVMGVARDPGSRAKVAVTSRDR 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVG+RGSR+Q +V ELR E+IDIVVWSPD AT+  NAL PA+++++++DE+  
Sbjct: 243 DVDPVGACVGIRGSRIQNIVQELRGERIDIVVWSPDIATYARNALSPAVISRIIVDEEEN 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +EV+VP +QL+ AIGR+GQNV+LAS+L GW IDI TE      R  + N   +   Q  
Sbjct: 303 MLEVVVPDDQLTNAIGRKGQNVKLASKLLGWKIDIYTE-----TRYNEANAIGRGLEQLA 357

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
           +V E+     VA GF+ +EEL      E+ ++EG 
Sbjct: 358 SVAEVPIEQFVAAGFSSIEELRDATDEELMAVEGL 392


>gi|32490976|ref|NP_871230.1| transcription elongation factor NusA [Wigglesworthia glossinidia
           endosymbiont of Glossina brevipalpis]
 gi|25166182|dbj|BAC24373.1| nusA [Wigglesworthia glossinidia endosymbiont of Glossina
           brevipalpis]
          Length = 494

 Score =  347 bits (890), Expect = 3e-93,   Method: Compositional matrix adjust.
 Identities = 185/466 (39%), Positives = 305/466 (65%), Gaps = 6/466 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  +    D+R+ I+ ++G    FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALEKALAAATKKKHEKDIDVRISIDRKSGSFGTFRRWM 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +V+EV   T +I+L+ A+  +P   +   + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVDEVTQPTKEITLEAAKIENPEAKLKEYIEDKIKSVLFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
                +FK++ GEII+G VK++    V +DLG +++ VI +++ + +E  RPGDRV+  +
Sbjct: 124 SMIVNKFKERKGEIITGIVKKLNRDGVSLDLGSHAEAVINKEDMLPKEYFRPGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y +  E +G Q+ +SR+  + +++LF +EVPEI   ++ +KA +RDPG R+K+AV ++D 
Sbjct: 184 YYINPESKGAQLFISRSKKEMLIELFRIEVPEIGEEVINIKATARDPGLRSKIAVQTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDP+GACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA VT +V+DED  
Sbjct: 244 RIDPIGACVGMRGARVQAVSRELGGERIDIVLWDENPAQFVINAMSPADVTSIVIDEDNH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT-QFFMQA 365
            +++ V  E L+ AIG+ GQN+RLASQL+GW ++++T E+D  N+ K   E +   F++ 
Sbjct: 304 TMDIAVNSENLAQAIGKNGQNIRLASQLSGWELNVMT-EKDLKNKNKAEEENSMNLFLEH 362

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           +N+++ +A  LV EGF+ +E++A + I+E+ SI+  +E+TA  ++ +A+  L    I L 
Sbjct: 363 LNINQELAKNLVKEGFSKIEDIAYIPINELLSIDILNEKTAKLLKEQAQYAL--TKIALM 420

Query: 426 KKIREL-GVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           K+ +EL  + E+L  + G++S I     E GI T+EDLA   +DD+
Sbjct: 421 KEEKELTSLDEKLIKLSGVNSNIAYKFAEKGIFTLEDLAEQGIDDI 466


>gi|119713529|gb|ABL97582.1| transcription elongation factor NusA [uncultured marine bacterium
           EB0_35D03]
          Length = 491

 Score =  346 bits (887), Expect = 7e-93,   Method: Compositional matrix adjust.
 Identities = 191/512 (37%), Positives = 311/512 (60%), Gaps = 31/512 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL  + +A++ EK+I +D V+  + +++  A +       D+RVE++  +G+ + FR  +
Sbjct: 5   ELFLMIEAISNEKNITKDDVIESLEEALAVATKKRNNI--DVRVEVDRHSGEFNTFRRWQ 62

Query: 68  VVEEVENY------TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           V+E+ E +      T    L + +     +++   V +P+  M+FGR+A Q AKQVIIQK
Sbjct: 63  VIEDGEQFVDDDGNTFDSELHIYQAESGGLEVDAYVEEPMESMEFGRIAAQVAKQVIIQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAER      F  +VGE++  TVKRV+ GNV VD+G  DG+I + + I  E++R  DR
Sbjct: 123 VREAERTVVVDNFTQRVGEVVMATVKRVDRGNVFVDMGGIDGMISKYDLIPNESIRKNDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++YI +V+   RG Q+ LSRT    M++LF MEVPEI  G++++KA +RDPG R+KLAV
Sbjct: 183 LRAYIKEVKSTPRGAQIFLSRTVNDMMIELFEMEVPEISEGVIEIKAGARDPGLRSKLAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            + D  IDP+G+C+GMRG+RVQAV  EL  E++DI++W  D A FVINA+ PA V+ +V+
Sbjct: 243 KAKDKRIDPIGSCIGMRGARVQAVSNELNGERVDIILWDEDPAQFVINAMAPAEVSSIVV 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+ G +++ V ++QL+LAIGR GQN++LAS+LTGW +++++  +    + K+  +  + 
Sbjct: 303 DEEKGSMDIAVEEDQLALAIGRGGQNIKLASKLTGWKLNVMSLADADDMQAKELQKTGEK 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
             + + VD  +A +L+ EG+  ++E+A  +   ++ IE FD E   E+Q RA+      D
Sbjct: 363 LAEKLGVDAEVAGVLIDEGYTSLDEIADAESDVLSKIEEFDSEMVGELQERAQ------D 416

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L K + +   +E L  + G+D  +  +L +  I T+E LA  ++ +LL          
Sbjct: 417 AQLVKALNDSEATEILLGVEGVDDALANSLVDAEITTVEALAELAIVELLE--------- 467

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                 +  +G   D   ++I+ AR K GW +
Sbjct: 468 ------IQDVGN--DNASAIIMAAREKEGWFD 491


>gi|224367580|ref|YP_002601743.1| transcription elongation factor NusA [Desulfobacterium
           autotrophicum HRM2]
 gi|223690296|gb|ACN13579.1| NusA [Desulfobacterium autotrophicum HRM2]
          Length = 482

 Score =  345 bits (885), Expect = 1e-92,   Method: Compositional matrix adjust.
 Identities = 177/409 (43%), Positives = 274/409 (66%), Gaps = 4/409 (0%)

Query: 11  QIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE 70
           ++ + V+ EK I+ +V++S + ++++ AA+   GT +DI V    ++G++ +F+  EVV 
Sbjct: 8   RVIEQVSREKGINIEVLISTIKEAVESAAKKKLGTRADIEVHYEEKSGEVEVFQFKEVVL 67

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           EV +   +++LK  +  DP+ +IG  +   +   +FGR+A QSAKQVIIQK++EAER+  
Sbjct: 68  EVNDPDIELTLKDGQQYDPACEIGDSLGIKVDTSEFGRIAAQSAKQVIIQKMKEAERNAV 127

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVR 190
           Y  F  K GEII+G V+R++ GN+IV+LG ++ V+   E + RE+ R GDR+++YI DV 
Sbjct: 128 YENFIHKKGEIINGIVQRIDRGNIIVNLGQAEAVLTSREQMPRESYRRGDRIRAYILDVL 187

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDP 250
            E RG QV+LSRTHP+F+ KLF  EVPEI  GIV ++  +R+ G R+K+AV S+DS +DP
Sbjct: 188 EEARGSQVILSRTHPEFVAKLFATEVPEIAEGIVTIRGTAREAGVRSKIAVSSTDSDVDP 247

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEV 310
           VGACVGM+G+RVQ++V ELR EK+DIV W+PD A FV NAL PA + +V++DED   +EV
Sbjct: 248 VGACVGMKGNRVQSIVQELRGEKVDIVPWNPDVAKFVCNALAPAEIARVIIDEDNRSMEV 307

Query: 311 IVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDE 370
           IVP + LS+AIG+ GQNVRLA +LTGW +++++E+E S   ++ ++      M    V  
Sbjct: 308 IVPDDFLSIAIGKNGQNVRLACRLTGWHLEVMSEDEYSSELKQGYDS----LMSIPGVSL 363

Query: 371 IIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
            +A  L   GF+  ++++     ++ S+    E     +  RA++ LE 
Sbjct: 364 ALAEKLFKGGFSSFKDVSLANPGDLISVTDLSESDVEALVLRAKKMLEA 412


>gi|332704826|ref|ZP_08424914.1| NusA antitermination factor [Desulfovibrio africanus str. Walvis
           Bay]
 gi|332554975|gb|EGJ52019.1| NusA antitermination factor [Desulfovibrio africanus str. Walvis
           Bay]
          Length = 494

 Score =  345 bits (885), Expect = 1e-92,   Method: Compositional matrix adjust.
 Identities = 174/396 (43%), Positives = 265/396 (66%), Gaps = 5/396 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL +  D ++ ++ IDRD+++  + ++++ +    YG   DI V  + +TG+I +F    
Sbjct: 4   ELRKAIDQISKDRGIDRDLLVDTLEEAVRSSVVRKYGDELDIEVNFSEDTGEIEVFHYKV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EVE+   +IS++ AR  DP + +   +   L   D GR+A QSAKQVIIQ++R+AE+
Sbjct: 64  VVDEVEDPNTEISMEDARQHDPGVQMDDDIGFKLNIEDLGRIAAQSAKQVIIQRMRDAEQ 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + E+KD++GEI+SG ++R +    I++LG ++ ++ R+E I +E  + GDRV+ YI 
Sbjct: 124 EIIFEEYKDRMGEIVSGIIQRRDRSGWIINLGRTEALLPREEQIPKERYKRGDRVQGYII 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V +E RGPQV+LSR+HP++M  LF  EVPE+ + +V++  V+RDPGSRAK+AV S D  
Sbjct: 184 NVLKEGRGPQVILSRSHPEYMSALFRREVPEVADSVVKIMGVARDPGSRAKVAVMSRDRD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG+RGSR+Q +V E R E+IDIVVW PD A +  NAL PA++T++ +DE+   
Sbjct: 244 VDPVGACVGIRGSRIQNIVQEFRGERIDIVVWKPDIADYARNALSPALITRITVDEEETL 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           +EV+VP +QL+LAIGR+GQNV+LAS+L GW IDI TE     +R  + +   Q   Q  N
Sbjct: 304 LEVVVPDDQLTLAIGRKGQNVKLASKLLGWKIDIFTE-----SRYGELHAARQTLEQVAN 358

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
           V EI     +  GF  +EE+A  +  ++  I G  E
Sbjct: 359 VVEINIERFLEAGFDSLEEVARAEDEDLLKIRGMSE 394


>gi|218887601|ref|YP_002436922.1| transcription elongation factor NusA [Desulfovibrio vulgaris str.
           'Miyazaki F']
 gi|218758555|gb|ACL09454.1| NusA antitermination factor [Desulfovibrio vulgaris str. 'Miyazaki
           F']
          Length = 443

 Score =  345 bits (885), Expect = 1e-92,   Method: Compositional matrix adjust.
 Identities = 178/395 (45%), Positives = 264/395 (66%), Gaps = 5/395 (1%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           LEL +  D ++ +K +DRD+++  + ++++ +    +G   D  V  N ETG+I +++  
Sbjct: 3   LELKKAIDQISKDKGLDRDMLIDTLEEAVRTSVARKFGDEMDAEVSYNDETGEIDVYQFK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VV++VEN   +ISL+ AR  DPS+ +   +   +   D GR+A QSAKQVIIQ++R+AE
Sbjct: 63  IVVKKVENPNSEISLEDARTHDPSVQLDDEMGFRVKIEDLGRIAAQSAKQVIIQRMRDAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           ++  Y E+KD+ GEI+SG ++R +    I++LG ++ ++ ++E I RE+ + GDRV++ +
Sbjct: 123 QEIIYEEYKDRRGEIVSGIIQRRDKAGWIINLGRTEALLPKEEQIPREHYKRGDRVQAIL 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            DVR+E RGPQV++SR H  +M  LF  EVPE+ +G VQ+  VSRDPGSRAK AV S D 
Sbjct: 183 IDVRKEGRGPQVIVSRAHRDYMAALFRREVPEVDDGTVQIMGVSRDPGSRAKAAVMSRDR 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVG+RGSR+Q +V E+R E+IDIVVWSPD AT+  NAL PA+++++V+DE+  
Sbjct: 243 DVDPVGACVGIRGSRIQNIVQEMRGERIDIVVWSPDIATYARNALSPAVISRIVVDEEEN 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +EVIVP +QL+ AIGR+GQNV+LA++L GW IDI TE      R  + N   +   Q  
Sbjct: 303 LLEVIVPDDQLTNAIGRKGQNVKLAAKLLGWKIDIYTE-----TRYNEANAIGRGLEQIA 357

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
           +V EI     +A GF  +E L      E+AS  G 
Sbjct: 358 SVAEISIEQFIAAGFQSIERLREADDEELASALGL 392


>gi|322418688|ref|YP_004197911.1| NusA antitermination factor [Geobacter sp. M18]
 gi|320125075|gb|ADW12635.1| NusA antitermination factor [Geobacter sp. M18]
          Length = 397

 Score =  345 bits (885), Expect = 1e-92,   Method: Compositional matrix adjust.
 Identities = 171/338 (50%), Positives = 233/338 (68%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
             L    D +  EK ID+ +V+  +  ++  AA   +    D+    NPE G++ LF  +
Sbjct: 5   FNLKHTIDQIVKEKGIDKGIVVEALEQAVLTAANKKFRNTRDLEAHYNPEIGEVELFEFV 64

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VV+EV++   +I L  AR+ DP ++IG  +   +    F R+A Q+AKQVIIQ+VREAE
Sbjct: 65  TVVDEVQDSYREIELDEAREEDPDVEIGDSIGMKMDASGFSRIAAQTAKQVIIQRVREAE 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R+  + EF ++ GEI++G V+R E G++IVDLG ++ ++   E   RE  R GDRVK+ I
Sbjct: 125 RETIFNEFMERQGEIVNGVVRRFEKGDLIVDLGRAEALLPHKEQAPREVYRQGDRVKALI 184

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            ++R   +GPQ++LSRTHP  + KLF  EVPEI  GIV++K+V R+PG RAK+AV+S D 
Sbjct: 185 TEIRMTTKGPQIMLSRTHPTMLAKLFEAEVPEIAEGIVEIKSVVREPGGRAKIAVYSHDG 244

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVGMRGSRVQ VV+ELR EKIDI+ WS D A F  NAL PA+VTKV +DE+  
Sbjct: 245 DVDPVGACVGMRGSRVQNVVSELRGEKIDIIPWSDDIARFACNALAPAVVTKVYVDEEDY 304

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            +EVIV  +QLSLAIG+RGQNVRLA++LTGW IDI +E
Sbjct: 305 AMEVIVADDQLSLAIGKRGQNVRLAAKLTGWKIDIKSE 342


>gi|319941974|ref|ZP_08016295.1| N utilization substance protein A [Sutterella wadsworthensis
           3_1_45B]
 gi|319804627|gb|EFW01497.1| N utilization substance protein A [Sutterella wadsworthensis
           3_1_45B]
          Length = 514

 Score =  345 bits (884), Expect = 2e-92,   Method: Compositional matrix adjust.
 Identities = 198/475 (41%), Positives = 305/475 (64%), Gaps = 10/475 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARS--LYGTMSDIRVEINPETGDISL 62
           N  ++L++ D +A EK++ +DVV  V+  ++  A +     G  +DI V ++  TG+ S 
Sbjct: 2   NSRDMLELVDVLASEKNVAKDVVFGVLELALASAVKRARFPGEDADIVVRVDRTTGEFSA 61

Query: 63  FRLLEVV---EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDF---GRVAVQSAKQ 116
            R   VV   E ++    Q       D  P +  G  +  PL  +D    GR   Q AKQ
Sbjct: 62  VRRWLVVPDEEGLQEPDHQEMYSDIHDEFPDLQPGDYIERPLENVDVDSAGRRFAQDAKQ 121

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENL 176
           VI+Q++R+AER++   EF ++   I++GT+KR++ G+ IV++G  +  + R++ I REN+
Sbjct: 122 VILQRLRDAEREQILAEFLERHETIVTGTIKRMDKGDAIVEVGRLEARLPRNQMIPRENM 181

Query: 177 RPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
           R GDRV++Y+  V    +G  V+LSRT P+F+ KLF +EVPEI  GI+++KA +RDPG+R
Sbjct: 182 RTGDRVRAYVDHVGDTPKGRTVILSRTSPEFIKKLFELEVPEIEEGIIEIKAAARDPGAR 241

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           AK+AV S D  +DP+G C+GMRGSRV AV TEL  E+IDIVVW+ D A FV+ AL PA V
Sbjct: 242 AKIAVASHDQRVDPIGTCIGMRGSRVNAVTTELSGERIDIVVWNADPAQFVVGALEPAKV 301

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN 356
             +V+ ED   +EV+V ++ L++AIGR GQNVRLAS+LTGW I+I+T +E S  R  + N
Sbjct: 302 RSIVMLEDSHTMEVVVDEDNLAVAIGRGGQNVRLASELTGWQINILTAQEASEKRAAEVN 361

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
              + FM+++++DE  A++L+ EGF+ VEE+A V   E+ SIE FD ET  E++ RAR  
Sbjct: 362 RIREEFMKSLDIDEAAANVLIDEGFSSVEEIAYVPEKELFSIEAFDHETIEELRQRARNK 421

Query: 417 LEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           L    IT ++ +R+     ++ ++ G+D+ +   L   G+KT++DL   +V++L+
Sbjct: 422 LLADAITREENLRK--ADPKMLALEGMDNDLANKLVARGVKTLDDLGDLAVEELV 474


>gi|225023298|ref|ZP_03712490.1| hypothetical protein EIKCOROL_00151 [Eikenella corrodens ATCC
           23834]
 gi|224943943|gb|EEG25152.1| hypothetical protein EIKCOROL_00151 [Eikenella corrodens ATCC
           23834]
          Length = 498

 Score =  345 bits (884), Expect = 2e-92,   Method: Compositional matrix adjust.
 Identities = 202/487 (41%), Positives = 311/487 (63%), Gaps = 19/487 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK+++ +VV   +  ++  AA+        D+RV I+  TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVESEVVFEALEFALSVAAKKKADREHMDVRVSIDRNTGEYHTFRRW 63

Query: 67  EVVEEVENYTCQISLKVARD-----RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT   + K   +      D  + IG    + L  + FGR A Q+AKQ+I+Q+
Sbjct: 64  LIVAD-EDYTYPDTQKTIEEIQEEFPDSPLQIGEYYEEELENVAFGRQAAQTAKQIILQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER++   EF  +  +++ GTVKRVE   +IV++G  D +I RD+ I REN R GDR
Sbjct: 123 IRDAEREQILQEFLARREDVVMGTVKRVERHGIIVEIGRLDALIPRDQCIPRENFRSGDR 182

Query: 182 VKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
           +++    +R +++G     QV+LSRT  +F+VKLF  EVPEI +G++++K  +RDPG RA
Sbjct: 183 IRALF--LRVDEQGNSGRKQVILSRTSREFLVKLFEQEVPEIEDGLLEIKEAARDPGQRA 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S+D+ IDP G C+G+RGSRV AV  EL  E++D+V+WSP++A FVINAL PA V+
Sbjct: 241 KIAVKSNDARIDPQGTCIGVRGSRVNAVSNELAGERVDVVLWSPETAQFVINALSPAEVS 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           ++++DED   ++VIV ++QL+ AIGR GQNVRLA+ LTGW ++I+T +E     + +  +
Sbjct: 301 RILIDEDNHSVDVIVAEDQLAPAIGRGGQNVRLAADLTGWQLNIMTVQEAEERHEAEDAQ 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               FMQ +NVDE  A LL+ EGFA +EE+A V  +E+  I GFDE T   ++ RAR+ +
Sbjct: 361 IRSLFMQHLNVDEQTADLLIEEGFAALEEVAYVPAAELVEI-GFDEATVETLRNRARDAI 419

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWS 474
             + + +  + +   V EEL ++ GID  +   L + GI T + LA  S D+L+   G S
Sbjct: 420 --LTLAIMSEEKLDEVEEELKTLNGIDQDMLRDLAQAGITTRDSLAELSTDELIEITGVS 477

Query: 475 ENKGGNI 481
           E +   +
Sbjct: 478 EEEAKTV 484


>gi|42144|emb|CAA25200.1| unnamed protein product [Escherichia coli]
          Length = 494

 Score =  344 bits (883), Expect = 2e-92,   Method: Compositional matrix adjust.
 Identities = 191/486 (39%), Positives = 300/486 (61%), Gaps = 21/486 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVDEVTQPTKEITLEAARYEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F++  GEII+G VK+V   N+ +DLGN ++ VI R+++          RVK++ 
Sbjct: 124 AMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDSC---------RVKTFA 174

Query: 187 YDVR--------REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
                           G Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK
Sbjct: 175 LATAFVACSIPFARNGGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAK 234

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  
Sbjct: 235 IAVKTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVAS 294

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +  
Sbjct: 295 IVVDEDKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAA 354

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
              F + +++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L 
Sbjct: 355 IDTFTKYLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALA 414

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSE 475
            I    ++ + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL    G ++
Sbjct: 415 TIAQAQEESLGDNKPADDLLNLEGVDRDLAFKLAARGVCTLEDLAEQGIDDLADIEGLTD 474

Query: 476 NKGGNI 481
            K G +
Sbjct: 475 EKAGAL 480


>gi|258545583|ref|ZP_05705817.1| N utilization substance A [Cardiobacterium hominis ATCC 15826]
 gi|258519283|gb|EEV88142.1| N utilization substance A [Cardiobacterium hominis ATCC 15826]
          Length = 496

 Score =  344 bits (882), Expect = 3e-92,   Method: Compositional matrix adjust.
 Identities = 207/509 (40%), Positives = 303/509 (59%), Gaps = 32/509 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS-DIRVEINPETGDISLFRLL 66
           +LL I +AVA EK +DR V++  +  ++  A R  Y       +V INP TG+   FRL 
Sbjct: 4   DLLNIIEAVANEKEVDRSVIIEALEAALAAATRKRYPDEEIGAKVVINPRTGEYKSFRLW 63

Query: 67  EVVEE---VENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            VV++   +EN   ++   VA    P   + +G V   P+    FGR++ Q AKQ+IIQK
Sbjct: 64  TVVDDEAILENPDAEMRESVAAIEFPEAHLQVGDVHEVPIENEPFGRISAQQAKQIIIQK 123

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +REAER + Y +F  + G ++ G V+R E GNVIVD+  ++  I RD  I RE+LR GDR
Sbjct: 124 LREAERRKVYDQFIAEEGTLVHGIVRRHERGNVIVDINGAEATILRDGMIPRESLRIGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ Y+  V  E RGPQ+ +SR  P+ + +LF +EVPEI +GI+++  V+RDPG RAK+AV
Sbjct: 184 IRGYLAKVNLEMRGPQLEVSRVAPEMLKQLFTLEVPEIGSGIIEIMGVARDPGLRAKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            + D  IDPVGACVG+RGSRVQ V+ EL  E+IDIV+W  D  T+V  A+ PA +T    
Sbjct: 244 RTFDPRIDPVGACVGIRGSRVQGVMNELAGERIDIVLWDEDPETYVRKAMAPAQITNAAA 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE    +++ VP+ +L  A+GR GQNVRLAS+LTGWTI++++E E    ++   + + Q 
Sbjct: 304 DEARRVMDIAVPENKLPQAVGRGGQNVRLASELTGWTINVLSEAEFEARQEAVQDAQEQA 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
             +A++VD+ IA +L+  G+   E +A  +  E+  IE FDEET   +  RA +YL    
Sbjct: 364 LAEALDVDDEIADILIDAGYTAPEMVAYAERDELLGIEAFDEETVDALMARAADYL---- 419

Query: 422 ITLQKKIRELGVSEE----LCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
              Q  + E+   EE    L ++ GID     AL ENG+ T EDLA  +VD+L+ ++   
Sbjct: 420 -LQQAFVAEVEPEEEMQLPLENVEGIDEATIAALQENGLHTQEDLAELAVDELVAYT--- 475

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHAR 506
                         G  K+Q  ++I+ AR
Sbjct: 476 --------------GLDKEQASALILKAR 490


>gi|213425433|ref|ZP_03358183.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. E02-1180]
          Length = 431

 Score =  343 bits (880), Expect = 4e-92,   Method: Compositional matrix adjust.
 Identities = 176/415 (42%), Positives = 273/415 (65%), Gaps = 9/415 (2%)

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
           T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER     +F+
Sbjct: 3   TKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREAERAMVVDQFR 62

Query: 136 DKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPGDRVKSYIYDV 189
           D+ GEI++G VK+V   N+ +++      GN++ VI R++ + REN RPGDR++  +Y V
Sbjct: 63  DQEGEIVTGVVKKVNRDNISLEIKSEGMAGNAEAVILREDMLPRENFRPGDRIRGVLYAV 122

Query: 190 RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSID 249
           R E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D  ID
Sbjct: 123 RPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDKRID 182

Query: 250 PVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIE 309
           PVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED   ++
Sbjct: 183 PVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKHTMD 242

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVD 369
           + V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +   + F + +++D
Sbjct: 243 IAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIEIFTKYLDID 302

Query: 370 EIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIR 429
           E  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  +    +  + 
Sbjct: 303 EEFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALATLAQDQEASLG 362

Query: 430 ELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
           +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL    G ++ K G +
Sbjct: 363 DNKPADDLLNLEGLDRDMAFKLAARGVCTLEDLADQGIDDLADIEGLTDEKAGEL 417


>gi|116748667|ref|YP_845354.1| transcription elongation factor NusA [Syntrophobacter fumaroxidans
           MPOB]
 gi|116697731|gb|ABK16919.1| NusA antitermination factor [Syntrophobacter fumaroxidans MPOB]
          Length = 449

 Score =  343 bits (880), Expect = 4e-92,   Method: Compositional matrix adjust.
 Identities = 170/349 (48%), Positives = 240/349 (68%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL ++ D V+ EK IDR  ++  + ++I+ A +  YGT  D+ V  N E G++  F+  E
Sbjct: 4   ELKRLIDQVSREKGIDRQTLIHTLEEAIKSAIKKKYGTRQDLDVTYNEEYGELEAFQFKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE V +   Q+SL  A   DP  +IG  +   +     GR+A QSAKQVIIQK+++AER
Sbjct: 64  VVETVTDPDKQVSLAEAIKLDPESEIGDELGIRMDTETLGRIAAQSAKQVIIQKMKDAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EFK + GEI  G V+RV+   ++V++G ++ ++   E I RE  R GDRV++Y+ 
Sbjct: 124 EVVYEEFKSRKGEIAHGVVQRVDKSGIVVNMGQAEAILPPKEQIPREVFRQGDRVRAYVL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           DV++  +GPQ++LSRTHP F+++LFH EVPEI  GIV + + +R+PGSRAK+AV S  + 
Sbjct: 184 DVKKISKGPQIVLSRTHPHFLIQLFHGEVPEIVEGIVSIISAAREPGSRAKIAVISKATD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGM+G+RVQ VV ELR EKIDIV W+ D A FV+NAL PAI++KV++D+    
Sbjct: 244 VDPVGACVGMKGTRVQNVVQELRGEKIDIVPWNMDPAKFVVNALAPAIISKVIIDQANRS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN 356
           +EVIVP +QLSLAIG++GQNVRLAS+LT W ID+  E      +Q  + 
Sbjct: 304 MEVIVPDDQLSLAIGKKGQNVRLASRLTNWRIDVKNESRHERQKQTGYQ 352


>gi|27904831|ref|NP_777957.1| transcription elongation factor NusA [Buchnera aphidicola str. Bp
           (Baizongia pistaciae)]
 gi|31340243|sp|Q89AF4|NUSA_BUCBP RecName: Full=Transcription elongation protein nusA
 gi|27904229|gb|AAO27062.1| N utilization substance protein A [Buchnera aphidicola str. Bp
           (Baizongia pistaciae)]
          Length = 497

 Score =  343 bits (879), Expect = 6e-92,   Method: Compositional matrix adjust.
 Identities = 181/465 (38%), Positives = 305/465 (65%), Gaps = 1/465 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV+IN + G+   FR   
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALECALAIATKKKYDQEIDVRVKINRKNGNFETFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV +V   T +I+L+ A+  D ++ +   + D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVNQVLQPTKEITLEAAKFEDVTVKVNDYIEDKMISVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F+   G+I++G VK++   ++ +DLGN ++ +I +++ + REN R GDRV+  +
Sbjct: 124 AMIVEQFRKYFGKILTGIVKKINRESITLDLGNNAEALILKEDMLPRENFRLGDRVRGVL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y +  E RG Q+ ++R+ P+ +++LF +EVPEI   I+++K+ +RDPGSRAK+AV S+D 
Sbjct: 184 YAIYPESRGAQLFVTRSKPEMLIELFKIEVPEIGEEIIEIKSAARDPGSRAKIAVKSNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +D VGACVGMRG+RVQAV +EL  E+IDIV+W  +SA F+IN++ PA V+ +VLDED  
Sbjct: 244 RVDAVGACVGMRGARVQAVSSELCGERIDIVLWDKNSAQFIINSMAPAEVSSIVLDEDRH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            I++ V    L+ AIGR GQNVRLASQL+GW I+++T ++  +  Q++ ++    F + +
Sbjct: 304 TIDIAVDSNNLAQAIGRNGQNVRLASQLSGWEINVMTVDDLKLKHQEEKDKILNIFTKYL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
            +D+ I+++L+ EGF+ +EEL  +  +E+ +I    +E A  I+  A++ L  I++  +K
Sbjct: 364 KIDQKISNILIDEGFSSIEELVYIPFNELLNINSITQELAYSIRESAKKALCAIELENKK 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
            I E  + ++L ++ G++ K+   L +  I ++EDLA   +DDL+
Sbjct: 424 VINERKLHKDLLNLKGMNQKLAFKLAKKNIFSLEDLAEQGIDDLI 468


>gi|297569836|ref|YP_003691180.1| transcription termination factor NusA [Desulfurivibrio alkaliphilus
           AHT2]
 gi|296925751|gb|ADH86561.1| transcription termination factor NusA [Desulfurivibrio alkaliphilus
           AHT2]
          Length = 449

 Score =  342 bits (877), Expect = 9e-92,   Method: Compositional matrix adjust.
 Identities = 186/400 (46%), Positives = 268/400 (67%), Gaps = 5/400 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL +I D ++ +K I+RD+++  + +++  AA+  YG   +I    N E G+I LF+   
Sbjct: 4   ELKRIIDQISRDKGINRDLLIEAIEEAVMSAAKKKYGHRREIEARYNDEYGEIELFQFRT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPL-PPMDFGRVAVQSAKQVIIQKVREAE 126
           VV+EV +   +ISL  A++ DP +++G  +   +    D GR+A QSAKQVIIQK++EAE
Sbjct: 64  VVDEVTDEQTEISLAEAKELDPEVEMGDELGSKMDSAADLGRIAAQSAKQVIIQKMKEAE 123

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
            D  Y  FK++ G+I++G V+R E GN+IV+LG +D ++   E + R++ R GDR+++Y+
Sbjct: 124 SDVVYDLFKERKGDIVNGIVQRFERGNMIVNLGRTDAILPSREQMPRKSYRQGDRIRAYL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            DVR+  + PQ++LSRT  +F+ KLF MEVPEI  GIV+V  V+R+PGSRAK+AV S++S
Sbjct: 184 LDVRQSSKEPQLVLSRTCNEFLTKLFTMEVPEIAEGIVKVMGVAREPGSRAKIAVSSTES 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVGM+GSRVQ VV EL+ EKIDIV WSPD A +V NAL PA V+ VV+DE+  
Sbjct: 244 DVDPVGACVGMKGSRVQNVVQELQGEKIDIVPWSPDPARYVSNALAPAQVSMVVVDEENN 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            + V+VP +QLSLAIGR+GQNVRLAS L GW ID+ +E   S + ++ F    Q  +   
Sbjct: 304 TLLVVVPDDQLSLAIGRQGQNVRLASALLGWRIDVKSETRYSRSIEEGF----QSLLDVA 359

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
            + E  A  L   G +   ELA    +E+A+  G +E  A
Sbjct: 360 GISEKQAEKLYDGGISSAAELAAADPAEVATTLGLEEPEA 399


>gi|323697469|ref|ZP_08109381.1| transcription termination factor NusA [Desulfovibrio sp. ND132]
 gi|323457401|gb|EGB13266.1| transcription termination factor NusA [Desulfovibrio desulfuricans
           ND132]
          Length = 459

 Score =  342 bits (876), Expect = 1e-91,   Method: Compositional matrix adjust.
 Identities = 173/396 (43%), Positives = 263/396 (66%), Gaps = 5/396 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL +  D ++ ++ IDRD+++  + ++++ A    YG   DI V  N E G+I +F    
Sbjct: 3   ELKRAIDQISKDRGIDRDLLIDTLEEAVRSAVARKYGETMDIEVAFNEERGEIEVFEFKV 62

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISL+ AR  DP+  +   +  P+   D GR+A QSAKQVIIQ++R+AE+
Sbjct: 63  VVDEVHDPISEISLEDARTHDPNAQLDDEMGFPVKVEDLGRIAAQSAKQVIIQRMRDAEQ 122

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y E+KD+V EI SG ++R +    I++LG ++ ++ ++E I RE  + GDRV++YI 
Sbjct: 123 EIIYEEYKDRVSEIASGIIQRRDRTGWIINLGRTEALLPKEEQIPRERYKRGDRVQAYII 182

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           DV +E RGPQV++SR+HP +MV+LF  EVPE+ +G V++  V+RDPG RAK+AV S D  
Sbjct: 183 DVLKESRGPQVIVSRSHPDYMVELFKREVPEVADGTVKIMGVARDPGLRAKVAVMSRDRD 242

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG+RGSR+Q VV EL+ E+IDIVVWSPD A +  +AL PA++T++ +D++   
Sbjct: 243 VDPVGACVGIRGSRIQNVVQELKGERIDIVVWSPDIAMYAQHALSPAVITRITVDDEEEA 302

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           +EV+ P +QL+LAIGR+GQNV+LA++L GW IDI TE     +R  + N   +   Q  +
Sbjct: 303 LEVVCPDDQLTLAIGRKGQNVKLAAKLLGWKIDIFTE-----SRYGELNAARKGMDQIAS 357

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
           V E+      + GF  +E +      E+ +I+G  E
Sbjct: 358 VAEVPMENFFSAGFESIESIVQASDEELLAIKGMTE 393


>gi|95929628|ref|ZP_01312370.1| NusA antitermination factor [Desulfuromonas acetoxidans DSM 684]
 gi|95134325|gb|EAT15982.1| NusA antitermination factor [Desulfuromonas acetoxidans DSM 684]
          Length = 388

 Score =  341 bits (874), Expect = 2e-91,   Method: Compositional matrix adjust.
 Identities = 166/336 (49%), Positives = 237/336 (70%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L  + D V  +K +DRD+++  +  ++  AA   Y    ++    N E G++ LF  + V
Sbjct: 5   LNHVIDQVVKDKGVDRDILVEALESAVLSAANKKYRNTRELEAHYNTEQGEVELFEFVTV 64

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           V+EV++   +I L+ AR+ DP ++ G  +   +    F R+A Q+AKQVIIQKVREAER+
Sbjct: 65  VDEVQDSYKEIDLEEAREIDPDVECGDSLGMKMDSGSFSRIAAQTAKQVIIQKVREAERE 124

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
             Y EFKD+VGE+++G V+R E G++IVDLG ++ ++   E + REN R  DRV++YI +
Sbjct: 125 GVYNEFKDRVGELVNGIVRRYERGDLIVDLGRAEALLPHREQVPRENYRQADRVRAYIAE 184

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V+   +GPQ++LSRTHP  +++LF  EVPEI  GIV++ + SR+PGSRAK+AV S D  +
Sbjct: 185 VKMSPKGPQIILSRTHPSLVIELFKTEVPEISEGIVEIVSCSREPGSRAKIAVVSHDPDV 244

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI 308
           DPVGACVGMRGSRVQ VV+ELR EKIDI+ W+PD A F  +AL PA V++V +D +   +
Sbjct: 245 DPVGACVGMRGSRVQNVVSELRGEKIDIIPWTPDMARFACSALAPADVSRVYVDNEEQAM 304

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           E+IVP +QLSLAIG++GQNVRLA++L GW IDI +E
Sbjct: 305 EIIVPDDQLSLAIGKKGQNVRLAARLIGWKIDIKSE 340


>gi|77919153|ref|YP_356968.1| transcription elongation factor NusA [Pelobacter carbinolicus DSM
           2380]
 gi|77545236|gb|ABA88798.1| NusA antitermination factor [Pelobacter carbinolicus DSM 2380]
          Length = 406

 Score =  338 bits (868), Expect = 9e-91,   Method: Compositional matrix adjust.
 Identities = 172/338 (50%), Positives = 234/338 (69%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           + L  I + V  EK IDR V++  +  ++  AA   Y    D+    N   G++ LF  +
Sbjct: 3   VNLNHIIEQVVKEKGIDRGVLVEALESAVLSAANKKYRNTRDLEAHFNDGLGEVELFEFV 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VV+EV +   +I L+ AR+ D  +++G  +   +   +F R+A Q+AKQVIIQKVREAE
Sbjct: 63  TVVDEVVDSYKEIDLEEAREIDEEVEVGDSLGMKIESGNFSRIAAQTAKQVIIQKVREAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R++ Y EFKD+VGE+++G V+R E G++IVDLG ++G++   E + REN R GDR +  I
Sbjct: 123 REKIYNEFKDRVGELVNGIVRRYERGDLIVDLGLAEGLLPHREQVPRENYRQGDRARVLI 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V+   +GPQ++LSRTHP  +  LF  EVPEI  GIV++KAV+R+ GSR K+AV S D 
Sbjct: 183 SEVKISTKGPQIILSRTHPGLVASLFQFEVPEIAEGIVEIKAVAREAGSRTKIAVASYDP 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVGMRGSRVQ VV+ELR EKIDIV WSPD   FV  +L PA VT++ LD D  
Sbjct: 243 DVDPVGACVGMRGSRVQNVVSELRGEKIDIVPWSPDVGRFVCASLAPAEVTRIYLDNDEQ 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            +EVIVP +QLSLAIG++GQNVRLA++LTGW IDI +E
Sbjct: 303 ALEVIVPDDQLSLAIGKKGQNVRLAARLTGWNIDIKSE 340


>gi|319778227|ref|YP_004129140.1| Transcription termination protein NusA [Taylorella equigenitalis
           MCE9]
 gi|317108251|gb|ADU90997.1| Transcription termination protein NusA [Taylorella equigenitalis
           MCE9]
          Length = 490

 Score =  338 bits (868), Expect = 1e-90,   Method: Compositional matrix adjust.
 Identities = 186/467 (39%), Positives = 294/467 (62%), Gaps = 6/467 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E++   DA+A+EK++  + + + +  ++  A +  +   +D+ V I+ +TG+    R  E
Sbjct: 4   EIIHFIDAMAHEKNLPVEEIFAAIEGALASAMKKQFKEGADVVVRIDRDTGNYVGVRRWE 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +     A +  P I +G  + +PL P +FGR+  Q A+QVI+QK+R+
Sbjct: 64  VVPDEHGIQEPEREEIYSDAVEDHPDIKVGDFIEEPLEPQEFGRIGAQIARQVILQKMRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           +ER +   EF  +  +I+SG VKR++ G+V+V++G  +  + + E I +E+ R GDRV++
Sbjct: 124 SERKQWIDEFVAQNDKIVSGVVKRIDKGDVVVEVGKLEARLPKAEMIPKESFRIGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+  + +E +G  + LSR  P+F+ +LF  EVPEI  G++++KA +RDPG RAK+AV + 
Sbjct: 184 YVQKIDKEAKGQIIQLSRIDPEFLRELFEYEVPEIEQGLLEIKAAARDPGIRAKIAVQAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVGMRGSRV AV  EL  E+IDIV+WS + A FVI+AL PA V+ +++DE+
Sbjct: 244 DKRIDPIGTCVGMRGSRVGAVRHELNGEQIDIVLWSDEPAEFVISALSPAHVSSIIVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V  E L+ AIG RGQNVRLAS LTGW I+I+T EE    +Q++     + F  
Sbjct: 304 KHVMDVVVDDENLAKAIGTRGQNVRLASDLTGWQINIMTPEESQARQQEEDQSIMKLFTD 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE IA +L+ EGF  +EE+A V   E+  IEGFDEE   E++ RAR  L    +  
Sbjct: 364 KLDIDEEIATVLIEEGFTGLEEIAYVPEQELLEIEGFDEELVHELRNRARHSL---SVAA 420

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
            ++   +  S+ L  I G+ +++   L EN I T +DLA  + D+LL
Sbjct: 421 AERDERVASSKGLIDIDGLTTEMVSKLVENNISTRDDLAELATDELL 467


>gi|212704654|ref|ZP_03312782.1| hypothetical protein DESPIG_02717 [Desulfovibrio piger ATCC 29098]
 gi|212671888|gb|EEB32371.1| hypothetical protein DESPIG_02717 [Desulfovibrio piger ATCC 29098]
          Length = 438

 Score =  338 bits (868), Expect = 1e-90,   Method: Compositional matrix adjust.
 Identities = 175/383 (45%), Positives = 259/383 (67%), Gaps = 7/383 (1%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           LEL +  D ++ +K +DRD+++  + D+++ + +  +    D+ V  N  TGDI +++  
Sbjct: 3   LELKKAIDQISKDKGLDRDMLIKTLEDAVRTSVQRRFSEDMDVEVRYNDNTGDIEVYQFK 62

Query: 67  EVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
            VVE  EVEN    I +  AR  DPS+ I   V   +   D GR+A QSAKQVIIQ++R+
Sbjct: 63  IVVEDGEVENEDTHIGITEARTHDPSVQIDDEVGFRVKVEDLGRIAAQSAKQVIIQRMRD 122

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AE++  Y E+KD++GEI+SG V+R + G  +V+LG ++ ++ R+E I RE+ +  DRV++
Sbjct: 123 AEQEIIYDEYKDRMGEIVSGIVQRRDKGGWVVNLGRTEAILPREEQIPREHYKRNDRVQA 182

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            I DVR+E RGPQV++SR H  +M  LF  EVPE+ +G+VQ+  V+RDPGSRAK+AV S 
Sbjct: 183 IIIDVRKEGRGPQVVISRAHRDYMAALFRREVPEVDDGVVQIMGVARDPGSRAKVAVLSR 242

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           +  +DPVGACVG+RGSR+Q +V ELR E+IDIVVWSPD AT+  NAL PA+V+++V+DE+
Sbjct: 243 ERDVDPVGACVGVRGSRIQNIVQELRGERIDIVVWSPDIATYARNALAPAMVSRIVVDEE 302

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +EVIVP +QL+ AIGR+GQNV+LA++L GW +DI TE      R  + N       Q
Sbjct: 303 ENLLEVIVPDDQLTNAIGRKGQNVKLAARLLGWKVDIFTE-----TRYNEANAIGHGLEQ 357

Query: 365 AINVDEIIAHLLVAEGFADVEEL 387
             +V E+  + L+  G+  ++ L
Sbjct: 358 VASVAEVSMNQLLEAGYTSLDLL 380


>gi|317153847|ref|YP_004121895.1| transcription termination factor NusA [Desulfovibrio aespoeensis
           Aspo-2]
 gi|316944098|gb|ADU63149.1| transcription termination factor NusA [Desulfovibrio aespoeensis
           Aspo-2]
          Length = 466

 Score =  338 bits (867), Expect = 1e-90,   Method: Compositional matrix adjust.
 Identities = 170/394 (43%), Positives = 262/394 (66%), Gaps = 5/394 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL +  D ++ ++ IDRD+++  + ++++ A    +G   DI V  N ++G+I +F    
Sbjct: 3   ELKKAIDQISKDRGIDRDLLIDTLEEAVRSAVARKHGETMDIEVAFNEDSGEIEVFEFKV 62

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV EV +   +ISL+ AR+ DP+  +   +  P+   D GR+A QSAKQVIIQ++R+AE+
Sbjct: 63  VVAEVHDPISEISLENAREHDPNAQLDDEMGFPVRIEDLGRIAAQSAKQVIIQRMRDAEQ 122

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + E+KD++GEI SG V+R +    I++LG ++ ++ +DE I RE  + GDRV++YI 
Sbjct: 123 EIIFEEYKDRLGEITSGIVQRRDRTGWIINLGRTEALLPKDEQIPRERYKRGDRVQAYII 182

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           DV +E RGPQV++SR+HP +M++LF  EVPE+ +G V++  V+RDPG RAK+AV S D  
Sbjct: 183 DVLKESRGPQVVVSRSHPDYMIELFKREVPEVADGTVKIMGVARDPGLRAKVAVMSRDRD 242

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG+RGSR+Q VV E++ E+IDIVVWSPD A +  +AL PA++T++ +D++   
Sbjct: 243 VDPVGACVGIRGSRIQNVVQEMKGERIDIVVWSPDIAMYAQHALSPAVITRITVDDEEEA 302

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           +EV+ P +QL+LAIGR+GQNV+LA++L GW IDI TE     +R  + N   +   Q  +
Sbjct: 303 LEVVCPDDQLTLAIGRKGQNVKLAAKLLGWKIDIFTE-----SRYGELNASRKGMDQVAS 357

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
           V EI        GF  +E +      E+ +I G 
Sbjct: 358 VAEIPMESFFNAGFESLESIVRATNEELLAINGL 391


>gi|304414228|ref|ZP_07395596.1| transcription termination/antitermination L factor [Candidatus
           Regiella insecticola LSR1]
 gi|304283442|gb|EFL91838.1| transcription termination/antitermination L factor [Candidatus
           Regiella insecticola LSR1]
          Length = 506

 Score =  338 bits (867), Expect = 1e-90,   Method: Compositional matrix adjust.
 Identities = 183/475 (38%), Positives = 300/475 (63%), Gaps = 12/475 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ R+ +   +  ++  A +  +    ++RV I+ +TGD   FR  +
Sbjct: 4   EILAVVEAVSNEKSLPREKIFEALEIALATATKKKHEQEIEVRVNIDRKTGDFETFRRWK 63

Query: 68  VVEEVENYTCQISLKVARD-------RDPSI----DIGGVVSDPLPPMDFGRVAVQSAKQ 116
           VV EV   T +I+L+ A++       ++  I    +I   + D +  + F R+  Q+AKQ
Sbjct: 64  VVSEVVMPTREITLEAAQEISKEEAQQNTPISTESEIPTYIEDQIKSVVFDRITTQTAKQ 123

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISREN 175
           VI+QKVREAER     +F+++ G+I++ TVK+V   ++I+DLGN ++G+I +++ + REN
Sbjct: 124 VIVQKVREAERAVVIEQFREQEGKIVTATVKKVSRESIILDLGNNAEGIIGQEDMLPREN 183

Query: 176 LRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           +RPGDR++  +Y++R E RGPQ+ +SR+ P+ +++LF +EVPEI   ++++KA  RDP S
Sbjct: 184 IRPGDRIRGILYEIRPEARGPQLFISRSRPEMLIELFRIEVPEIDEELIEIKAAIRDPAS 243

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDP+GACVGMRG+RVQAV  EL  E+IDIV+W  + A FV+NA+ PA 
Sbjct: 244 RAKIAVKTNDKRIDPIGACVGMRGARVQAVSNELGGERIDIVLWDDNPAQFVLNAMAPAE 303

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF 355
           V  +V+DED   + + V +   + AIGR GQNVRL SQL+GW ++++T  E     Q + 
Sbjct: 304 VASIVVDEDAKTMNIAVEEGNSAQAIGRNGQNVRLVSQLSGWELNVMTINELKEKCQAET 363

Query: 356 NERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
                 F++ + +DE  A +LV   F+ +EELA V  SE+  I+ FD++   E++ RA+ 
Sbjct: 364 RTAIDMFIEHLEIDEECATVLVEAEFSSLEELAYVPESELPEIDSFDKKRLQELRDRAQN 423

Query: 416 YLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
            L  + +  ++   +   +++L ++  +D  +   L   G+ T+EDLA   V DL
Sbjct: 424 VLTTLALKKEESFGDNKPADDLLNLASLDRDMAFKLAACGVCTLEDLAEQGVSDL 478


>gi|303326256|ref|ZP_07356699.1| transcription termination factor NusA [Desulfovibrio sp. 3_1_syn3]
 gi|302864172|gb|EFL87103.1| transcription termination factor NusA [Desulfovibrio sp. 3_1_syn3]
          Length = 464

 Score =  338 bits (866), Expect = 2e-90,   Method: Compositional matrix adjust.
 Identities = 174/392 (44%), Positives = 265/392 (67%), Gaps = 7/392 (1%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           LEL +  D ++ +K +DRD+++  + D+++ +    +    D+ V  N +TGDI +++  
Sbjct: 3   LELKKAIDQISKDKGLDRDMLIDTLEDAVRTSVLRRFSEDMDVEVTYNDDTGDIEVYQFK 62

Query: 67  EVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
            VVE+  V N   QI+L  AR+ DPS+ +   +   +   D GR+A QSAKQVIIQ++R+
Sbjct: 63  IVVEDDDVANEDTQIALADAREHDPSVQLDDEMGFRVKVEDLGRIAAQSAKQVIIQRMRD 122

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AE++  Y E+KD+VGEI+SG ++R + G  +V+LG ++ ++ R+E I RE+ + GDRV++
Sbjct: 123 AEQEIIYEEYKDRVGEIVSGIIQRRDKGGWVVNLGRTEAILPREEQIPREHYKRGDRVQA 182

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            I +VR+E RGPQV++SR H  +M  LF  EVPE+ +G+VQ+  V+RDPGSRAK+AV S 
Sbjct: 183 LIIEVRKEGRGPQVVISRAHRDYMAALFRREVPEVDDGVVQIMGVARDPGSRAKVAVLSR 242

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           +  +DPVGACVG+RGSR+Q +V ELR E+IDIVVWSP+ AT+  NAL PA+V+++V+DE+
Sbjct: 243 ERDVDPVGACVGVRGSRIQNIVQELRGERIDIVVWSPEIATYARNALAPALVSRIVVDEE 302

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +EVIVP +QL+ AIGR+GQNV+LA++L GW +DI TE      R  + N       Q
Sbjct: 303 ENLLEVIVPDDQLTNAIGRKGQNVKLAARLLGWKVDIFTE-----TRYNEANAIGHGLEQ 357

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIA 396
             +V E+    L+  G++ ++ L      E+A
Sbjct: 358 VASVAEVSIEALLEAGYSSLDALREASDEELA 389


>gi|319760247|ref|YP_004124185.1| transcription elongation protein nusA [Candidatus Blochmannia vafer
           str. BVAF]
 gi|318038961|gb|ADV33511.1| transcription elongation protein nusA [Candidatus Blochmannia vafer
           str. BVAF]
          Length = 507

 Score =  337 bits (865), Expect = 2e-90,   Method: Compositional matrix adjust.
 Identities = 186/482 (38%), Positives = 299/482 (62%), Gaps = 15/482 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EKS+ ++ +   +  ++  A +  Y    DIRV I+ ++G I  FR   
Sbjct: 4   EILFVVEAVSNEKSVPKEKIFLALESALITATKKQYQQDIDIRVTIDRKSGKICTFRRWI 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV++V + T +I+L+ AR  +  I I   + D +  + F R+  Q+AKQVIIQK+REAER
Sbjct: 64  VVDQVVHPTKEITLEAARLENSKISINDYIEDIVESVGFDRITTQTAKQVIIQKLREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F ++ G II+G +K++    + VDLGN ++G+I+R++ + REN R GDR++  +
Sbjct: 124 MIIIEQFLNRQGSIITGVIKKINRNAIHVDLGNNAEGIIKREDMLPRENFRLGDRIRGIL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V+ E +G Q+ +SRT  + +++LF +EVPEI   ++ VK+ +RDPGSR+K+AV ++D 
Sbjct: 184 CLVKPESKGHQLFISRTCTEMLIELFRIEVPEIGEEVITVKSAARDPGSRSKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDP+GACVGMRG+RVQAV +EL  E+ID+++W  +   FVINA+ PA V  +++DED  
Sbjct: 244 RIDPIGACVGMRGARVQAVSSELGGERIDVILWDDNPVQFVINAMSPADVVSIIVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V +  L+ AIGR GQN+RL SQL+GW ++++T  E    RQ +       F+  +
Sbjct: 304 SMDISVDESNLAQAIGRNGQNIRLVSQLSGWALNVMTTHELEKKRQSELYNTINIFVHVL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEG-FDEETAVEIQGRAREYLEG------ 419
           N+DE  A +L+  GF+ +EELA V I+E+ SI G FD +T   ++ +A++ L        
Sbjct: 364 NIDEKSARVLIDSGFSSLEELAYVPITELLSIGGVFDIKTVELLRSKAKQALTNFTESGG 423

Query: 420 ----IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSE 475
               +  + Q     +    EL  + G+  +I + L E+GI T++DLA     D+L  SE
Sbjct: 424 SIGSMHKSNQDNCDSVNAVSELLKLSGLKYEIALKLVEHGIYTLQDLAE---QDILSLSE 480

Query: 476 NK 477
            K
Sbjct: 481 IK 482


>gi|329120394|ref|ZP_08249061.1| N utilization substance A [Neisseria bacilliformis ATCC BAA-1200]
 gi|327462349|gb|EGF08675.1| N utilization substance A [Neisseria bacilliformis ATCC BAA-1200]
          Length = 502

 Score =  337 bits (864), Expect = 3e-90,   Method: Compositional matrix adjust.
 Identities = 199/488 (40%), Positives = 310/488 (63%), Gaps = 18/488 (3%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLLE 67
           +LQ+A+A+A EK++D DVV   +  ++  AAR   G    ++RVEI+ +TG+   +R   
Sbjct: 1   MLQLAEALASEKNVDADVVFDALEVALSTAARKKSGREHMNVRVEIDRDTGEHRTYRRWL 60

Query: 68  VVEEVENYTC---QISLKVARDRDPS--IDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           +V + E+YT    + +++  ++  PS  I IG    + +    FGR A  +AKQ+I+Q++
Sbjct: 61  IVAD-EDYTYPDEEKTIEEIQEEIPSTQIQIGEYYEEQIENESFGRQAAMTAKQIILQRI 119

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   +F +   +II+GTVKR E   ++V+L  G  D +I RD+ I REN R GD
Sbjct: 120 RDAEREKVLNDFLENRDDIITGTVKRTERHGIVVELIPGKLDALIPRDQCIPRENFRSGD 179

Query: 181 RVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
           R+++    +R E+ G     QV+LSR   +F+ KLF  EVPEI +G+++++  +RDPG R
Sbjct: 180 RIRALF--LRVEEIGQSGRKQVILSRASREFLAKLFEQEVPEIADGLLEIREAARDPGHR 237

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           AK+AV ++D  IDP G C+G+RGSRV AV  E+  E+ID+V+WSPD+A FVINAL PA V
Sbjct: 238 AKIAVKANDQRIDPQGTCIGVRGSRVNAVTNEIGGERIDVVLWSPDTAQFVINALSPAEV 297

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN 356
           +++V+DED   ++VIV ++QL+ AIGR GQNVRLA+ LTGW ++I+T +E       +  
Sbjct: 298 SRIVIDEDNHAVDVIVAEDQLAPAIGRGGQNVRLAADLTGWQLNIMTVKEAEERHAAEDA 357

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
                F + +NVDE  A +LV EGF  +EE+A V   E+  I GFDE T   ++GRAR+ 
Sbjct: 358 AIRSLFTEHLNVDEETATVLVEEGFTSLEEIAYVPSEELVEI-GFDEATVDALRGRARDA 416

Query: 417 LEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN 476
           +  + +  ++K++E  ++E+L ++ G D  +   L + GI   + LA  SVD+L+  +  
Sbjct: 417 ILSLAMAKEEKLQE--IAEDLRTLDGTDEDMLRDLAQAGITDRDALAELSVDELIEITGV 474

Query: 477 KGGNIEKF 484
           + G  EK 
Sbjct: 475 ETGEAEKI 482


>gi|146329748|ref|YP_001208968.1| transcription termination factor [Dichelobacter nodosus VCS1703A]
 gi|146233218|gb|ABQ14196.1| transcription termination factor [Dichelobacter nodosus VCS1703A]
          Length = 495

 Score =  337 bits (863), Expect = 3e-90,   Method: Compositional matrix adjust.
 Identities = 189/470 (40%), Positives = 292/470 (62%), Gaps = 7/470 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS-DIRVEINPETGDISLFRLL 66
           ELL I +AVA EK +DR+V+   +  ++  A R  +G    + RV I+ ++G+   FR+ 
Sbjct: 4   ELLAIVEAVANEKDVDRNVIFEALEAALAAATRKRHGDKEIETRVSIDRKSGEYETFRVW 63

Query: 67  EVVEE---VENYTCQISLKVARDRDPSIDI--GGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++V++   +EN   +I   VA    P  D+  G +  + +    FGR++ Q AKQ+IIQK
Sbjct: 64  KIVDDDAILENTDIEIRETVAHIDFPDADLVAGDIYEEKIENEPFGRISAQMAKQIIIQK 123

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +REAER++ Y +F ++ G ++ G V+R E GN IVDLG  +G I R++ I RE LR GDR
Sbjct: 124 LREAEREKIYQQFIEQEGTLVHGIVRRHERGNAIVDLGGVEGTILRNDMIPREPLRSGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +  Y+  V RE RGPQ+ +SR  P+ +++LF  EVPEI +G++++   +RDPG RAK++V
Sbjct: 184 ILGYLEKVNRELRGPQLQISRIAPELLIQLFQKEVPEISSGMIEIMGAARDPGLRAKISV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            + D  IDPVGACVG+RGSRVQ VV EL  E+IDIV+W  D+ T+V  A+ PA+++   +
Sbjct: 244 RTFDPRIDPVGACVGIRGSRVQGVVNELAGERIDIVLWDDDAETYVRKAMAPAVISDTCV 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           +E    I++ VP+E+L  A+GR GQNVRLAS+LTGWTI++++E E +   Q   + + Q 
Sbjct: 304 NEATKTIDIAVPEEKLPQAVGRGGQNVRLASELTGWTINVLSESEFAEKIQATQSAQEQS 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
               ++VDE +A  L+A G    E +A     E+ +I+ FD E   ++  RA  Y+  ++
Sbjct: 364 LSTILDVDETVATQLIAHGITTPEAVAYTGRDELLTIDAFDAELVDDLLERAANYV-MVE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
              ++   E  +   +  + G+DS +   L   GI T EDLA  SV++L+
Sbjct: 423 AFKEEDTPEEEMQTSVSVMEGVDSVLAAKLQAAGIHTQEDLAELSVEELI 472


>gi|162454076|ref|YP_001616443.1| N utilization substance protein A [Sorangium cellulosum 'So ce 56']
 gi|161164658|emb|CAN95963.1| N utilization substance protein A [Sorangium cellulosum 'So ce 56']
          Length = 547

 Score =  336 bits (862), Expect = 5e-90,   Method: Compositional matrix adjust.
 Identities = 207/489 (42%), Positives = 299/489 (61%), Gaps = 43/489 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L  I D VA EK ID+ +++  +  +I KAA+S++G   ++    N +TG I LF+ + V
Sbjct: 14  LGSILDQVAKEKGIDKKILVETIEAAILKAAQSVFGPTRELEARFNEDTGQIDLFQYMTV 73

Query: 69  VEEVENYTCQISLK-------------------------VARDRDPSIDIGGVVSDPLPP 103
           VE V     +IS+                            + RD   + G ++      
Sbjct: 74  VEAVTEPEREISITDVDKLKLDATLGEELGFQVFWRPEDAEKARDQDKEYGDILKLKHGR 133

Query: 104 MDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSD 162
             FGR+A Q+AKQV++Q+VR+AERD  + E+KD+ GE+I G V+R E G N+IVD+G ++
Sbjct: 134 TTFGRIAAQTAKQVLLQRVRDAERDLIFNEYKDRKGELIRGIVRRFEKGNNIIVDIGRTE 193

Query: 163 GVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNG 222
           GV+   E   RE  RPGDR+ +Y+ D+ RE RGPQV+LSR+ P+ + KLF  EVPEIY G
Sbjct: 194 GVLTFREQTPRETYRPGDRIVAYVKDIDREARGPQVILSRSDPRLVEKLFEAEVPEIYEG 253

Query: 223 IVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPD 282
           IV++ +V+R+PG+R+K+AV S D+ +DPVGACVGM+GSRVQAVV ELR EKIDIV +  D
Sbjct: 254 IVRIVSVAREPGARSKIAVTSRDADVDPVGACVGMKGSRVQAVVQELRGEKIDIVPFDRD 313

Query: 283 SATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
            A +VI A++PA V KV++DE  GR+E++VP E+LSLAIGR+GQNVRLA+QLT W +DII
Sbjct: 314 PARYVIAAIQPAEVHKVIVDEADGRMELVVPDEKLSLAIGRKGQNVRLAAQLTNWKLDII 373

Query: 343 TEEEDSINRQKDFNERTQFFMQAIN-VDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
           +E      + K   E     +Q ++ V E IA  +   GF  +EE++   + E+A+I G 
Sbjct: 374 SE-----TKFKQMEEEAISALQQMDVVTEQIAKSMYRLGFRALEEVSEASVEELAAIPGL 428

Query: 402 DE-ETAVEIQGRAREYLEGIDITLQKKIRE-------LGVSEELCSIPGIDSKIKVALGE 453
              E A  I+ +A   +E +    Q++IR        L   E L  I G+  +  V L E
Sbjct: 429 GGVEAADRIKSQADTTMERLR---QERIRSASSRTEPLTDRERLMFIRGVGDRTVVLLEE 485

Query: 454 NGIKTMEDL 462
            G +++ED+
Sbjct: 486 AGYRSVEDV 494


>gi|42523053|ref|NP_968433.1| transcription elongation factor NusA [Bdellovibrio bacteriovorus
           HD100]
 gi|39575258|emb|CAE79426.1| N utilization substance protein A [Bdellovibrio bacteriovorus
           HD100]
          Length = 462

 Score =  336 bits (861), Expect = 6e-90,   Method: Compositional matrix adjust.
 Identities = 175/404 (43%), Positives = 258/404 (63%), Gaps = 8/404 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L ++ D V  +K ID+ VV+  +   +  AAR  YGT  +I    N +TG++ LF   E
Sbjct: 8   DLSKVIDQVGKDKGIDKQVVIDAITQGMLVAARKKYGTYREIEAAYNEDTGEVELFEFKE 67

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV  E+  +   +I L  A+  DP++ +   +   +   D GR+A Q+AKQ+I+QKVR+A
Sbjct: 68  VVPREKYIDEEVEIPLDEAQKLDPNVQLDDSIGIKMEASDLGRIAAQTAKQIIMQKVRDA 127

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  + EF+++ GEI SG  +RVE G ++VDLG ++  I   E I  E  +PGDR++ Y
Sbjct: 128 ERNIIFNEFEERKGEIASGIARRVEKGAIVVDLGRTEAYIPPREQIPGEQYKPGDRIQGY 187

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +VR+  RGPQ+++SR   ++++KLF MEVPEIY+G+V++ A +R+PG RAK+AV S D
Sbjct: 188 LSEVRQTTRGPQIIMSRADERYLMKLFEMEVPEIYDGVVEIMAAAREPGQRAKIAVRSKD 247

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           +S+DPVGACVGM+GSRVQ +V ELR EKIDIV W  D   F  NAL PA +++V LD+  
Sbjct: 248 NSVDPVGACVGMKGSRVQNIVQELRGEKIDIVPWDEDITRFACNALAPAEISRVFLDDAN 307

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE-DSINRQKDFNERTQFFMQ 364
             +E++VP  QLSLAIG+RGQNVRLA++LT W +DII+E    S   +  FN      M 
Sbjct: 308 REMEIVVPDSQLSLAIGKRGQNVRLAAKLTTWKLDIISESSAASRTAESIFN-----LML 362

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVE 408
              + E +A  +   GF   + +A   + E+ +I G+D+    E
Sbjct: 363 IPGMSETMAQNIFQSGFGSFQAVATAAVEELMTIPGYDDPDKAE 406


>gi|332999998|gb|EGK19581.1| transcription elongation protein nusA [Shigella flexneri K-218]
          Length = 407

 Score =  336 bits (861), Expect = 7e-90,   Method: Compositional matrix adjust.
 Identities = 174/393 (44%), Positives = 260/393 (66%), Gaps = 4/393 (1%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG 152
           +G  V D +  + F R+  Q+AKQVI+QKVREAER     +F++  GEII+G VK+V   
Sbjct: 1   MGDYVEDQIESVTFDRITTQTAKQVIVQKVREAERAMVVDQFREHEGEIITGVVKKVNRD 60

Query: 153 NVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKL 211
           N+ +DLGN ++ VI R++ + REN RPGDRV+  +Y VR E RG Q+ ++R+ P+ +++L
Sbjct: 61  NISLDLGNNAEAVILREDMLPRENFRPGDRVRGVLYSVRPEARGAQLFVTRSKPEMLIEL 120

Query: 212 FHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRD 271
           F +EVPEI   ++++KA +RDPGSRAK+AV ++D  IDPVGACVGMRG+RVQAV TEL  
Sbjct: 121 FRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDKRIDPVGACVGMRGARVQAVSTELGG 180

Query: 272 EKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLA 331
           E+IDIV+W  + A FVINA+ PA V  +V+DED   +++ V    L+ AIGR GQNVRLA
Sbjct: 181 ERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKHTMDIAVEAGNLAQAIGRNGQNVRLA 240

Query: 332 SQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVK 391
           SQL+GW ++++T ++     Q + +     F + +++DE  A +LV EGF+ +EELA V 
Sbjct: 241 SQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTKYLDIDEDFATVLVEEGFSTLEELAYVP 300

Query: 392 ISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVAL 451
           + E+  IEG DE T   ++ RA+  L  I    ++ + +   +++L ++ G+D  +   L
Sbjct: 301 MKELLEIEGLDEPTVEALRERAKNALATIAQAQEESLGDNKPADDLLNLEGVDRDLAFKL 360

Query: 452 GENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
              G+ T+EDLA   +DDL    G ++ K G +
Sbjct: 361 AARGVCTLEDLAEQGIDDLADIEGLTDEKAGAL 393


>gi|317484449|ref|ZP_07943362.1| transcription termination factor NusA [Bilophila wadsworthia 3_1_6]
 gi|316924309|gb|EFV45482.1| transcription termination factor NusA [Bilophila wadsworthia 3_1_6]
          Length = 434

 Score =  335 bits (860), Expect = 8e-90,   Method: Compositional matrix adjust.
 Identities = 168/381 (44%), Positives = 260/381 (68%), Gaps = 5/381 (1%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           LEL +  D ++ +K +DRD+++  + D+++ +    YG   D+ V  N +TG+I + +  
Sbjct: 3   LELKKAIDQISKDKGLDRDMLVDTLEDAVRTSVIRKYGENIDVEVSYNDDTGEIQVHQFK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VV++V +   +I ++ AR+ DPS+ +   +  PL   D GR+A QSAKQVIIQ++R+AE
Sbjct: 63  IVVDDVADPDTEIDIEKARELDPSVQLDDEIGFPLKVTDLGRIAAQSAKQVIIQRMRDAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           ++  Y EFKD+VGEI SG ++R + G  I++LG ++ ++ ++E I RE+ + GDRV++ I
Sbjct: 123 QELIYEEFKDRVGEICSGIIQRRDKGGWIINLGRTEAILPKEEQIPREHYKRGDRVQALI 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V++E RGPQ+++SR+H  +   LF  EVPE+ +G VQ+  V+RDPGSRAK+AV S + 
Sbjct: 183 IEVKKEGRGPQIVISRSHRDYTAALFRREVPEVDDGTVQIMGVARDPGSRAKVAVLSRER 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVG+RGSR+Q +V EL  E+IDIVVWSP+ +T+  NAL PA+++++V+DE   
Sbjct: 243 DVDPVGACVGVRGSRIQNIVQELHGERIDIVVWSPEISTYARNALAPAVISRIVVDEAEN 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +EV VP +QL+ AIGR+GQNV+LA++L GW IDI TE      R  + N   +   Q  
Sbjct: 303 LLEVTVPDDQLTSAIGRKGQNVKLAAKLLGWKIDIFTE-----TRYNETNAIGRGLEQVA 357

Query: 367 NVDEIIAHLLVAEGFADVEEL 387
           +V E+    LV+ GF  +E+L
Sbjct: 358 SVAEVSVDSLVSAGFTTLEQL 378


>gi|153004006|ref|YP_001378331.1| NusA antitermination factor [Anaeromyxobacter sp. Fw109-5]
 gi|152027579|gb|ABS25347.1| NusA antitermination factor [Anaeromyxobacter sp. Fw109-5]
          Length = 556

 Score =  335 bits (859), Expect = 1e-89,   Method: Compositional matrix adjust.
 Identities = 188/435 (43%), Positives = 262/435 (60%), Gaps = 36/435 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           I D VA +K IDR  ++ ++ ++I  AA+  +G   +++   + E G + LF++L +V +
Sbjct: 10  ILDQVAKDKGIDRTRLVEILEEAIGSAAKRHFGMERNLKARYDEEKGQVDLFQVLTIVTD 69

Query: 72  VENYT------CQISLKVARDRDPSIDIGGVVSDPLP----------------------- 102
               T        I + VA ++   ++ G  +  P+                        
Sbjct: 70  PTEETPLADPVNMIPVSVAHEKGIEVEPGDELDFPIYYRTEDEAEARAQDEQWGDLLKLK 129

Query: 103 --PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN 160
                FGR+A Q+AKQV+IQ  R AER+  + E+KD+ GE+I+G V+R E GNVIVDLG 
Sbjct: 130 TYRRSFGRIAAQTAKQVMIQGTRNAERENVFNEYKDRKGEVITGIVRRFERGNVIVDLGR 189

Query: 161 SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIY 220
           ++ V+   E + RE+ R GDR+++Y+ DV RE +GPQ++LSR     + KLF MEVPEI 
Sbjct: 190 AEAVLPVREQVPRESYRAGDRIQAYVMDVLRESKGPQIILSRASVDLLRKLFEMEVPEIA 249

Query: 221 NGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
            G+V ++A +R+PG RAK+AV S DS +DPVGACVGM+GSRVQAVV ELR EKIDIV W 
Sbjct: 250 EGVVVIEAAAREPGGRAKIAVSSRDSDVDPVGACVGMKGSRVQAVVQELRGEKIDIVPWD 309

Query: 281 PDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
            D A FV NAL PA V++V+LDE    +E+IVP +QLSLAIGRRGQNVRLASQLTGW +D
Sbjct: 310 DDYARFVCNALAPAEVSRVLLDEQNKAMEIIVPDDQLSLAIGRRGQNVRLASQLTGWKLD 369

Query: 341 IITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEG 400
           I +E     +R K+  E       AI + E    +L A GF   +++A      +    G
Sbjct: 370 INSE-----SRVKEMREFATESFGAIGIPEATQEMLYAHGFRKAQDVANAASEMLTQFPG 424

Query: 401 FDEETAVEIQGRARE 415
           F  +   E+Q RARE
Sbjct: 425 FTMDMIPELQKRARE 439


>gi|85860522|ref|YP_462724.1| transcription elongation factor NusA [Syntrophus aciditrophicus SB]
 gi|85723613|gb|ABC78556.1| transcription elongation factor [Syntrophus aciditrophicus SB]
          Length = 420

 Score =  335 bits (858), Expect = 1e-89,   Method: Compositional matrix adjust.
 Identities = 177/400 (44%), Positives = 267/400 (66%), Gaps = 5/400 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL ++ + +  ++ +D+ V++  +  ++  AAR   G   DI    N E G+I +F+   
Sbjct: 4   ELKRLIEQMGKDRGLDKSVIIEALETAMLTAARKKLGAHVDIEAHYNDELGEIEVFQFKT 63

Query: 68  VVEEVENYTCQISLKVA-RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           VVE+V +   QIS++ A RD D   + G  +   +    FGR+AVQ+AKQ+I+Q+V++AE
Sbjct: 64  VVEKVVDPDMQISIEAAHRDLDEEAEPGDSLGMKIDASTFGRIAVQTAKQIIVQRVKDAE 123

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           RD  Y E+KD+ GE+++G V+R E G++IV+LG ++GVI   E I RE  + GDR++SYI
Sbjct: 124 RDNVYDEYKDRKGELVNGFVQRFEAGSIIVNLGRAEGVIPVSEQIHREVYKRGDRIRSYI 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V++  +GPQ++LSRTHP F+  LF +EVPEI  G+++V  V+R+PG RAK+AV + D 
Sbjct: 184 CEVKKVSKGPQIILSRTHPNFLKALFEVEVPEIAEGLIEVLGVAREPGKRAKIAVRTKDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQ+VV ELR EKIDI+ +S D + +VI+AL PA V+ V + E+  
Sbjct: 244 DIDPVGACVGMRGARVQSVVQELRGEKIDIIPYSEDPSQYVISALSPAKVSHVTVYENEH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +EV+VP +QLSLAIG+ GQNVRLA +LTGW ID+ +E  D+ +   D+  RT   ++  
Sbjct: 304 AMEVVVPDDQLSLAIGKNGQNVRLAVKLTGWKIDVKSESVDAGSENADY--RT--LLKIP 359

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
            ++E +A  L  +G   V  +A      +++I G +E TA
Sbjct: 360 GMEEAMAERLFNKGLKSVAMVAAADPEMLSAIPGVEERTA 399


>gi|51246466|ref|YP_066350.1| transcription elongation factor NusA [Desulfotalea psychrophila
           LSv54]
 gi|50877503|emb|CAG37343.1| related to transcription termination factor (NusA) [Desulfotalea
           psychrophila LSv54]
          Length = 466

 Score =  335 bits (858), Expect = 2e-89,   Method: Compositional matrix adjust.
 Identities = 175/403 (43%), Positives = 273/403 (67%), Gaps = 5/403 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L +I D ++ ++ ID+ +++S + ++++ AA+  +G+  DI V  N E G++ +F+   
Sbjct: 4   DLKRIIDQISRDRGIDKGILVSAIEEAVESAAKKKFGSRRDIEVRYNEEYGEVDVFQFRT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM-DFGRVAVQSAKQVIIQKVREAE 126
           VVEE+E+   +I+L+ AR  DP++ +G  + + +  + D GR+A QSAKQVII ++++AE
Sbjct: 64  VVEEIEDEQTEIALEDARILDPAVQLGDDLGEKMSNITDLGRIAAQSAKQVIINRMKDAE 123

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           RD  Y  +KD+VGE++SG V+R E GN++V+LG +D ++ ++  I +   + GDR+++Y+
Sbjct: 124 RDVIYDMYKDRVGEVVSGIVQRFERGNMVVNLGRTDAILPKEHQIPKRTFKQGDRIRAYL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +VR+  R  Q++LSRT  +F+ KLF MEVPE+  GIV+V  VSR+PG RAK+AV SS+S
Sbjct: 184 LEVRQTSRDCQLILSRTCDEFLEKLFQMEVPEMSEGIVRVLGVSREPGFRAKIAVSSSES 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVGM+GSRVQ VV EL+ E+IDIV WSPD A +V NAL PA V+ V  DE+  
Sbjct: 244 DVDPVGACVGMKGSRVQNVVQELQGERIDIVTWSPDIAKYVYNALAPAHVSMVRNDEERN 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            + V+VP +QLSLAIGR+GQNVRLAS+L G  ID+ +E+  +  +   +    Q  ++  
Sbjct: 304 SLLVVVPNDQLSLAIGRQGQNVRLASRLLGCRIDVKSEQRYANLQDPGY----QSLLKIH 359

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEI 409
            +DE +A  L A G      LA  +I+++  +   +EE A  +
Sbjct: 360 GIDEGLADQLWARGIVSTAVLAQTEIADLTVLRAINEEFAAAL 402


>gi|196229760|ref|ZP_03128624.1| NusA antitermination factor [Chthoniobacter flavus Ellin428]
 gi|196226086|gb|EDY20592.1| NusA antitermination factor [Chthoniobacter flavus Ellin428]
          Length = 421

 Score =  334 bits (857), Expect = 2e-89,   Method: Compositional matrix adjust.
 Identities = 175/411 (42%), Positives = 270/411 (65%), Gaps = 8/411 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L   D    +K I R+V+L  + +++  AAR   G   D+RV+I+P++G++ ++  L 
Sbjct: 5   EILAGLDFFERDKGIKREVLLEAINNAVLAAARKAVGPAKDLRVDIDPKSGEMKVYAKLI 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE+VEN   +I L +A+     + +G  +  P+ P DFGR+A Q+AKQ ++Q++R+AE+
Sbjct: 65  VVEKVENKHDEIKLDLAKKFKNDVQLGEELEVPVTPRDFGRIAAQTAKQAMMQRIRQAEK 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EFKD+ GEI+SGTV+R E  +V+VDLG  + V+   E +  E+   GDR+++Y+ 
Sbjct: 125 EMIYDEFKDRAGEIVSGTVRRFERLDVVVDLGKFEAVMPNKERVQTEDYNVGDRIRAYVV 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V+   RGP++++SR+HP F+ +LF  EV EI +  V++K ++R+ G R K+AV+S++  
Sbjct: 185 AVQNGARGPEIIISRSHPNFVRRLFETEVSEIADRTVEIKGIAREAGHRTKIAVWSANDK 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGMRG+RV+ +V EL +EK+DI+ WS D+  FV+ AL+PA V  V LDE    
Sbjct: 245 VDPVGACVGMRGARVKNIVRELNNEKVDIIRWSSDTKEFVLEALKPAKVKSVTLDESKKN 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER----TQFFM 363
           I + V ++QLSLAIG+RGQN RL S+LTGW I+I  E++ S+   +DFNER     +   
Sbjct: 305 ILIKVDEDQLSLAIGKRGQNARLTSRLTGWDINI--EQDKSV--IEDFNERVGKAAKTLA 360

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
            A+ +D+ +A  LV  G + +E L  V+  +IA   G   E A EIQ  A+
Sbjct: 361 DALGIDQAVAVSLVKGGLSTLETLTEVEPQDIADTVGIPLEKATEIQTAAK 411


>gi|46578925|ref|YP_009733.1| transcription elongation factor NusA [Desulfovibrio vulgaris str.
           Hildenborough]
 gi|120603474|ref|YP_967874.1| transcription elongation factor NusA [Desulfovibrio vulgaris DP4]
 gi|46448337|gb|AAS94992.1| N utilization substance protein A [Desulfovibrio vulgaris str.
           Hildenborough]
 gi|120563703|gb|ABM29447.1| NusA antitermination factor [Desulfovibrio vulgaris DP4]
 gi|311232783|gb|ADP85637.1| transcription termination factor NusA [Desulfovibrio vulgaris RCH1]
          Length = 428

 Score =  334 bits (856), Expect = 2e-89,   Method: Compositional matrix adjust.
 Identities = 178/401 (44%), Positives = 266/401 (66%), Gaps = 9/401 (2%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +EL +  D ++ +K ++RD++++ + ++++ +    YG   D+ V  N E+G+I +++  
Sbjct: 3   MELKKAIDQISKDKGLERDMLVATLEEAVRTSVVRKYGDDIDVEVSYNDESGEIEVYQFK 62

Query: 67  EVVEEV----ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            VV E+    E+    I L+ AR  DPS+ I   +   L   D GR+A QSAKQVIIQ++
Sbjct: 63  IVVAELDDEDEDGNAHIVLEEARKHDPSVQIDDEMGFRLKVEDLGRIAAQSAKQVIIQRM 122

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           R+AE++  Y EFKD+ GEIISG ++R +    I++LG ++ ++ ++E I RE+ + GDRV
Sbjct: 123 RDAEQELIYDEFKDRRGEIISGIIQRRDKAGWIINLGRTEALLPKEEQIPREHYKRGDRV 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ I +VR+E RGPQV++SR+H  +M  LF  EVPE+ +G VQ+  V+RDPGSRAK+AV 
Sbjct: 183 QAIIIEVRKEGRGPQVIVSRSHRDYMAALFRREVPEVDDGTVQIMGVARDPGSRAKVAVL 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S +  +DPVGACVG+RGSR+Q VV ELR E+IDIVVWSP+ AT+  NAL PA+++++V+D
Sbjct: 243 SRERDVDPVGACVGIRGSRIQNVVQELRGERIDIVVWSPEIATYARNALSPAVISRIVVD 302

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+   +EVIVP +QL+ AIGR+GQNV+LA++L GW IDI TE      R  + N   +  
Sbjct: 303 EEENLLEVIVPDDQLTNAIGRKGQNVKLAAKLLGWKIDIYTE-----TRYNEANAIGRGL 357

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
            Q  +V EI     V  GF  +E L      E+AS  G D+
Sbjct: 358 EQIASVAEISIEQFVTAGFQSIERLREASDEELASGLGIDD 398


>gi|242278479|ref|YP_002990608.1| transcription elongation factor NusA [Desulfovibrio salexigens DSM
           2638]
 gi|242121373|gb|ACS79069.1| NusA antitermination factor [Desulfovibrio salexigens DSM 2638]
          Length = 456

 Score =  333 bits (854), Expect = 4e-89,   Method: Compositional matrix adjust.
 Identities = 168/394 (42%), Positives = 262/394 (66%), Gaps = 5/394 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL +  D ++ ++ IDRD+++  + ++++ +    YG   DI V  N + G+I +++   
Sbjct: 4   ELKKAIDQISKDRGIDRDLLIDTLEEAVRSSVARKYGDAMDIEVNFNEDAGEIEVYQFKV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V EEVE+   +I+L+ A++ DP++ I   +   L   D GR+A QSAKQVIIQ++R+AE+
Sbjct: 64  VAEEVEDEISEITLEEAKEHDPNVQIDDEMGFKLKVEDLGRIAAQSAKQVIIQRMRDAEQ 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EFK+++ EI+SG ++R +    I++LG ++ V+ + E I RE  + GDRV+++I 
Sbjct: 124 EIIYDEFKNRMHEIVSGIIQRRDRTGWIINLGRTEAVLPKGEQIPRERYKRGDRVQAFII 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           DV++E RGPQ+ +SR+HP +M  LF  EVPE+ +  V++  V+RDPG RAK+AV S D  
Sbjct: 184 DVQKESRGPQITVSRSHPDYMTALFKREVPEVDDATVKIMGVARDPGLRAKVAVNSLDRD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG+RGSR+Q +V ELR E+IDIVVWS D A +  NAL PA++T++ +DE+   
Sbjct: 244 VDPVGACVGIRGSRIQNIVQELRGERIDIVVWSQDIAMYAQNALSPAVITRIAVDEEEKT 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           +EV+VP +QL++AIGR+GQNV+LAS+L GW ID+ TE     +R  + N  ++   Q  +
Sbjct: 304 LEVVVPDDQLTVAIGRKGQNVKLASRLLGWKIDVFTE-----SRYGEMNAASKGLDQLAS 358

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
           V EI     ++ GF  V ++A      + SI G 
Sbjct: 359 VAEIPVDNFLSAGFETVSQVANASEEILMSISGM 392


>gi|258404630|ref|YP_003197372.1| transcription elongation factor NusA [Desulfohalobium retbaense DSM
           5692]
 gi|257796857|gb|ACV67794.1| NusA antitermination factor [Desulfohalobium retbaense DSM 5692]
          Length = 440

 Score =  333 bits (853), Expect = 5e-89,   Method: Compositional matrix adjust.
 Identities = 169/396 (42%), Positives = 259/396 (65%), Gaps = 5/396 (1%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +EL +  D ++ ++ IDRD+++  + ++++ +    +    DI V  + E GDI +++  
Sbjct: 3   MELKKAIDQISKDRGIDRDLLIDTLEEAVRSSVNKKFKNKLDIEVSFDEEAGDIEVYQFK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VVEEV++   +ISL  AR  DP++ +   +   +   D GR+A QSAKQVIIQ++R+AE
Sbjct: 63  VVVEEVDDPNTEISLDEARIEDPNVQLEDELGFRMEISDLGRIAAQSAKQVIIQRMRDAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           ++  Y E+KD+ GEIISG ++R +    I++LG ++ ++ + E I RE  R GDRV+ YI
Sbjct: 123 QEIIYEEYKDRRGEIISGIIQRRDRAGWIINLGRTEAILPKQEQIPRERFRRGDRVQGYI 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            DVR+E RGPQ+++SR+HP +M  LF  EVPE+ +G V +  V+RDPG RAK+AV S DS
Sbjct: 183 IDVRKEGRGPQIVVSRSHPDYMAALFKREVPEVGDGTVTIMGVARDPGKRAKVAVLSQDS 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVG+RGSR+Q +V E + E+IDIVVW+ D AT+ +NAL PA ++++ +D+   
Sbjct: 243 DVDPVGACVGVRGSRIQNIVQEFKGERIDIVVWNHDVATYAMNALSPAKISRMTVDDVEK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +EV+VP +QL+LAIGR+GQNV+LAS+L GW IDIITE     +     +       QA 
Sbjct: 303 TLEVVVPDDQLTLAIGRKGQNVKLASKLLGWKIDIITESRYGADPSDQAD-----LEQAE 357

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
           +V  I     V  G   ++ L      ++A+++G D
Sbjct: 358 HVTGIPTDHFVQAGLGSLDALREASDEQLAAVDGMD 393


>gi|298528714|ref|ZP_07016118.1| NusA antitermination factor [Desulfonatronospira thiodismutans
           ASO3-1]
 gi|298512366|gb|EFI36268.1| NusA antitermination factor [Desulfonatronospira thiodismutans
           ASO3-1]
          Length = 432

 Score =  333 bits (853), Expect = 5e-89,   Method: Compositional matrix adjust.
 Identities = 163/381 (42%), Positives = 255/381 (66%), Gaps = 5/381 (1%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           LEL +I D ++ +K IDRD+++  + ++++ +    YG+  DI V  N + G+I +++  
Sbjct: 3   LELKKIIDQISKDKGIDRDMLVDTLEEAVRSSVYKKYGSNLDIEVNFNEDNGEIEVYQFK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VV+E+ +   +I L+ A++ DP++ +   +   L   D GR+A QSAKQV++QK+R+AE
Sbjct: 63  VVVDEIGDPNNEILLEDAKEHDPNVQLEDELGFTLDVKDLGRIAAQSAKQVLMQKMRDAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           ++  Y E+KD++GEIISG ++R +    I++LG ++ ++ RDE I +E    GDRV++YI
Sbjct: 123 QEIIYEEYKDRIGEIISGIIQRRDRAGWIINLGRTEALLPRDEQIPKERFHRGDRVEAYI 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            DVRRE R PQ+++SR+HP++++ LF  EVPEI +G +++  V RDPG RAK+ V + D 
Sbjct: 183 IDVRRESRTPQIIVSRSHPEYLISLFKREVPEISDGTIKIMNVVRDPGKRAKVGVMTKDM 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVG++GSR+  +V EL+ E+IDIV+WSPD AT+  NAL PA +T++ +DED  
Sbjct: 243 DVDPVGACVGVKGSRIHNIVQELKGERIDIVIWSPDIATYAANALSPARITRITVDEDEK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +EV+VP +QL+ AIG++GQNV+LAS L GW ID+ TE     +R  +  E  Q   Q  
Sbjct: 303 SLEVVVPDDQLTPAIGQKGQNVKLASSLLGWKIDVYTE-----SRYNEVYEHHQVMEQLA 357

Query: 367 NVDEIIAHLLVAEGFADVEEL 387
           +   I       EGF  ++ L
Sbjct: 358 SAAGISISEFNREGFDSLDSL 378


>gi|115372730|ref|ZP_01460036.1| NusA protein [Stigmatella aurantiaca DW4/3-1]
 gi|310823422|ref|YP_003955780.1| transcription termination factor NusA [Stigmatella aurantiaca
           DW4/3-1]
 gi|115370211|gb|EAU69140.1| NusA protein [Stigmatella aurantiaca DW4/3-1]
 gi|309396494|gb|ADO73953.1| Transcription termination factor NusA [Stigmatella aurantiaca
           DW4/3-1]
          Length = 565

 Score =  333 bits (853), Expect = 5e-89,   Method: Compositional matrix adjust.
 Identities = 196/495 (39%), Positives = 292/495 (58%), Gaps = 47/495 (9%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + D VA +K I+R V+++ + D+++ AA+  +G   ++  + + E G + LF+ + VVEE
Sbjct: 14  VLDQVAKDKGIERSVLIATLEDAMKTAAKKHFGQDRNLEAKYDVEKGVVELFQAITVVEE 73

Query: 72  VEN---YTCQISLKVARDRDPSIDIGGVVSDPLPPMD----------------------- 105
           + +      QI++  A  +   ++ G  +   +   D                       
Sbjct: 74  IVDPVQAVNQITMAEAHKKGMEVEPGDELVFQIMYRDEDAAEAKAQDDQYGDILRLKTFR 133

Query: 106 --FGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG 163
             FGR+A Q+AKQVI+Q+ R+AER+  + E+KD+  EI++G  +R E GN+IVDLG ++ 
Sbjct: 134 RGFGRIAAQTAKQVILQRTRDAERENVFNEYKDRKNEIVTGIARRFERGNIIVDLGRAEA 193

Query: 164 VIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGI 223
           V+   E + RE  RPGDRV++Y+ DV RE +GPQ++LSR     + KLF MEVPEI  GI
Sbjct: 194 VLPVREQVPRETYRPGDRVQAYVLDVLRESKGPQIVLSRASVNLLTKLFEMEVPEIAEGI 253

Query: 224 VQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDS 283
           V ++A +R+PG RAK+AV S DS +DPVGACVGM+GSRVQAVV ELR EKIDIV +  D 
Sbjct: 254 VVIEAAAREPGGRAKIAVSSRDSDVDPVGACVGMKGSRVQAVVQELRGEKIDIVPFDEDP 313

Query: 284 ATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           A+FV +AL PA V++V++DE    +E+IVP +QLSLAIGRRGQNVRLA+QLTGW +DI +
Sbjct: 314 ASFVCSALAPAEVSRVIIDEANHAMELIVPDDQLSLAIGRRGQNVRLAAQLTGWKLDINS 373

Query: 344 EEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
             E  +   ++F  R+   +  +N  E++   L A GF   +++A      ++ I G D 
Sbjct: 374 --ESRVREMREFANRSLGSLPGVN--EMLIETLYAHGFRQAKDVAEASPEVLSQIPGLDP 429

Query: 404 ETAVEIQGRAREYL--------------EGIDIT-LQKKIRELGVSEELCSIPGIDSKIK 448
                +Q  AR+ +              E   I   ++   EL  SE +  + G+  K  
Sbjct: 430 TRLPAMQESARKQMVDDAAELSRMDHEREAARIAEARRHPDELSQSERMARVRGLGEKTI 489

Query: 449 VALGENGIKTMEDLA 463
            AL  +G KT+ED+A
Sbjct: 490 EALIVSGYKTVEDIA 504


>gi|325138675|gb|EGC61230.1| Transcription elongation protein nusA [Neisseria meningitidis
           ES14902]
          Length = 413

 Score =  332 bits (851), Expect = 9e-89,   Method: Compositional matrix adjust.
 Identities = 186/389 (47%), Positives = 269/389 (69%), Gaps = 12/389 (3%)

Query: 90  SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV 149
           +I IG    + LP   FGR A Q+AKQ+I+Q++R+AER++   EF     +I+SGTVKRV
Sbjct: 4   TIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRIRDAEREQNLNEFLAVKEDIVSGTVKRV 63

Query: 150 EYGNVIVDL--GNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG----PQVLLSRT 203
           E   +IV++  G  D +I RD+ I REN R GDR+++    +R E+ G     QV+LSRT
Sbjct: 64  ERHGIIVEVVAGKLDALIPRDQMIPRENFRSGDRIRALF--LRVEEIGNTGRKQVILSRT 121

Query: 204 HPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQ 263
              F+VKL+  EVPEI +G+++++AV+RDPG RAK+AV ++D  IDP G C+G+RGSRV 
Sbjct: 122 SGDFLVKLYANEVPEIADGMLEIRAVARDPGQRAKVAVKANDQRIDPQGTCIGVRGSRVN 181

Query: 264 AVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGR 323
           AV  EL  E+ID+V+WSP+ A FV++AL PA V+++V+DED   ++VIV + QL+LAIGR
Sbjct: 182 AVSNELSGERIDVVLWSPEPAQFVMSALSPAEVSRIVIDEDKHAVDVIVDENQLALAIGR 241

Query: 324 RGQNVRLASQLTGWTIDIITE-EEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFA 382
            GQNVRLAS LTGW ++I+T  E D  N  +D   R + FM  +NVDE  A +LV EGFA
Sbjct: 242 GGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAIR-RLFMDHLNVDEETADVLVQEGFA 300

Query: 383 DVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPG 442
            +EE+A V  +E+ +IEGFDEE    ++ RAR+ +  + I  ++K+ E  VS+++ ++ G
Sbjct: 301 TLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAILTMAIAAEEKLGE--VSDDMRNLEG 358

Query: 443 IDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           ID+ +  +L E GI T +DLA  +VD+L+
Sbjct: 359 IDADMLRSLAEAGITTRDDLAELAVDELI 387


>gi|94986976|ref|YP_594909.1| transcription elongation factor NusA [Lawsonia intracellularis
           PHE/MN1-00]
 gi|94731225|emb|CAJ54588.1| transcription elongation factor [Lawsonia intracellularis
           PHE/MN1-00]
          Length = 440

 Score =  332 bits (851), Expect = 9e-89,   Method: Compositional matrix adjust.
 Identities = 168/381 (44%), Positives = 253/381 (66%), Gaps = 5/381 (1%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           LEL +  D ++ +K +DRD+++  + D+++ +    YG   D+ V  N +TG+I +++  
Sbjct: 3   LELKKALDQISKDKGLDRDMLVDTLEDAVRTSVIRRYGDNLDVEVSYNDDTGEIEVYQFK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VVEEV +   Q+S+  A+  DPS  +   +   L   D GR+A QSAKQVIIQ++R+AE
Sbjct: 63  IVVEEVTDPITQLSITEAKTHDPSAQLDDEMGFRLKVEDLGRIAAQSAKQVIIQRMRDAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           ++  Y E+KD++GEI+SG V+R + G  I++LG ++ ++ +DE I +E+ + GDRV+  I
Sbjct: 123 QEIIYEEYKDRIGEIVSGIVQRRDKGGWIINLGRTEALLPKDEQIPKEHYKRGDRVQGLI 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            DVR+E RGPQV++SR H  +M  LF  EVPE+ +G VQ+  V+RDPGSRAK+ V S + 
Sbjct: 183 IDVRKEGRGPQVIISRAHRDYMAALFRREVPEVDDGTVQIMGVARDPGSRAKVTVLSRER 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVG+RGSR+Q +V EL  E+IDIV+WSP+  T+  NAL PAI++++ +DE   
Sbjct: 243 DVDPVGACVGVRGSRIQNIVQELHGERIDIVIWSPEITTYARNALAPAIISRITVDETEN 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +EV VP +QL+ AIGR+GQNV+LA++L GW IDI TE      R  + N   +   Q  
Sbjct: 303 LLEVTVPDDQLTSAIGRKGQNVKLAAKLLGWKIDIFTE-----TRYNESNAVGRGLEQVA 357

Query: 367 NVDEIIAHLLVAEGFADVEEL 387
           +V EI    L+  G   +E++
Sbjct: 358 SVAEISIETLLHSGLNTLEQI 378


>gi|220903347|ref|YP_002478659.1| transcription elongation factor NusA [Desulfovibrio desulfuricans
           subsp. desulfuricans str. ATCC 27774]
 gi|219867646|gb|ACL47981.1| NusA antitermination factor [Desulfovibrio desulfuricans subsp.
           desulfuricans str. ATCC 27774]
          Length = 449

 Score =  332 bits (850), Expect = 1e-88,   Method: Compositional matrix adjust.
 Identities = 170/383 (44%), Positives = 259/383 (67%), Gaps = 7/383 (1%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISL--FR 64
           LEL +  D ++ +K +DR++++  + D+++ +    +    D+ V  N ETGDI +  F+
Sbjct: 3   LELKKAIDQISKDKGLDRNMLIDTLEDAVRTSVLRRFSEDMDVEVSYNDETGDIEVYQFK 62

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           ++    +V N   QI L  AR+ DPS+ +   +   +   D GR+A QSAKQVIIQ++R+
Sbjct: 63  IVMADGDVANPDTQIELAEAREHDPSVQVDDEMGFRVKVEDLGRIAAQSAKQVIIQRMRD 122

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AE++  Y E+KD+VGEI+SG V+R + G  +V+LG ++ ++ R+E I RE+ + GDRV++
Sbjct: 123 AEQEIIYEEYKDRVGEIVSGIVQRRDKGGWVVNLGRTEAILPREEQIPREHYKRGDRVQA 182

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            I +VR+E RGPQV++SR H  +M  LF  EVPE+ +G+VQ+  V+RDPGSRAK+AV S 
Sbjct: 183 LIIEVRQEGRGPQVVISRAHRDYMAALFRREVPEVDDGVVQIMGVARDPGSRAKVAVLSR 242

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           +  +DPVGACVG+RGSR+Q +V EL  E+IDIVVWS D AT+  NAL PA+V+++V+DE+
Sbjct: 243 ERDVDPVGACVGVRGSRIQNIVQELHGERIDIVVWSADIATYARNALAPALVSRIVVDEE 302

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +EVIVP +QL+ AIGR+GQNV+LA++L GW +DI TE      R  + N       Q
Sbjct: 303 ENLLEVIVPDDQLTNAIGRKGQNVKLAARLLGWKVDIFTE-----TRYNEANAIGHGLEQ 357

Query: 365 AINVDEIIAHLLVAEGFADVEEL 387
             +V E+    L+  G++ +++L
Sbjct: 358 VASVAEVSIEALLGAGYSSLDQL 380


>gi|197121571|ref|YP_002133522.1| NusA antitermination factor [Anaeromyxobacter sp. K]
 gi|220916334|ref|YP_002491638.1| NusA antitermination factor [Anaeromyxobacter dehalogenans 2CP-1]
 gi|196171420|gb|ACG72393.1| NusA antitermination factor [Anaeromyxobacter sp. K]
 gi|219954188|gb|ACL64572.1| NusA antitermination factor [Anaeromyxobacter dehalogenans 2CP-1]
          Length = 557

 Score =  329 bits (844), Expect = 5e-88,   Method: Compositional matrix adjust.
 Identities = 183/435 (42%), Positives = 264/435 (60%), Gaps = 36/435 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           I D VA +K IDR  ++ ++ ++I  AA+  +G   +++   + E G + LF++L +V +
Sbjct: 10  ILDQVAKDKGIDRAKLIEILEEAIGSAAKRHFGLERNLKARYDEEKGQVDLFQVLTIVPD 69

Query: 72  ------VENYTCQISLKVARDRDPSIDIGGVVSDPLP----------------------- 102
                 + +    + + VA ++   ++ G  +  P+                        
Sbjct: 70  PTEEAPLADPVNMVPVAVAHEKGIDVEPGDELDFPIYYRVEDEAEARAQDEQWGDLLKLK 129

Query: 103 --PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN 160
                FGR+A Q+AKQV+IQ  R AER+  + E+KD+ GE+I+G V+R E GNVIVDLG 
Sbjct: 130 TYRRSFGRIAAQTAKQVMIQGTRNAERENVFNEYKDRKGEVITGIVRRFERGNVIVDLGR 189

Query: 161 SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIY 220
           ++ V+   E + RE+ R GDR+++++ DV RE +GPQ++LSR   + + KLF MEVPEI 
Sbjct: 190 AEAVLPVREQVPRESYRAGDRIQAFVMDVLRESKGPQIILSRASVELLKKLFEMEVPEIA 249

Query: 221 NGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
            G+V ++A +R+PG RAK+AV S DS +DPVGACVGM+GSRVQAVV ELR EKIDIV W 
Sbjct: 250 EGVVVIEAAAREPGGRAKIAVSSRDSDVDPVGACVGMKGSRVQAVVQELRGEKIDIVPWD 309

Query: 281 PDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
            D A FV NAL PA V++V+LDE    +E+IVP +QLSLAIGRRGQNVRLASQ+TGW +D
Sbjct: 310 EDPARFVCNALAPAEVSRVLLDEQNRAMEIIVPDDQLSLAIGRRGQNVRLASQVTGWKLD 369

Query: 341 IITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEG 400
           I +E     +R K+  E       AI + E    +L A GF   +++A      +    G
Sbjct: 370 INSE-----SRVKEMREFATESFGAIGIPEQTQEMLYAHGFRKAQDVANAAPEMLTQFPG 424

Query: 401 FDEETAVEIQGRARE 415
           F  +   ++Q RARE
Sbjct: 425 FTMDMIPDLQKRARE 439


>gi|206890467|ref|YP_002248539.1| transcription termination factor NusA [Thermodesulfovibrio
           yellowstonii DSM 11347]
 gi|206742405|gb|ACI21462.1| transcription termination factor NusA [Thermodesulfovibrio
           yellowstonii DSM 11347]
          Length = 365

 Score =  329 bits (844), Expect = 6e-88,   Method: Compositional matrix adjust.
 Identities = 166/357 (46%), Positives = 246/357 (68%), Gaps = 4/357 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL  + + +  EK I +D V+ ++  ++  A R  YG  S I+++I P+T DI++F + +
Sbjct: 4   ELKFLVEQIMREKGITKDAVIELLETALISAIRKKYGNKSSIKIKIEPQTFDINIFEIKK 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV++   +IS++  + +     IG  V  PL   DFGR+AVQ+AK V+ QK+RE ER
Sbjct: 64  VVEEVKDSASEISIEEVKQKYIDKGIGDTVEVPLSIQDFGRIAVQTAKHVLFQKIREIER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
            + + EFKDKVG I+SGTV R E GN  + +G ++ ++   E + ++NL+ GD VK+YI+
Sbjct: 124 SQIFEEFKDKVGNIVSGTVLRKEKGNFYILVGKAEAILPDKEVLPQDNLKRGDIVKAYIF 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V++  + P + LSRTHP F+V LF +EVPEI +GIV++K ++RDPG R K+A  S D S
Sbjct: 184 EVKQTPKEPIIKLSRTHPNFVVGLFTLEVPEIQDGIVEIKTIARDPGERTKIAASSKDPS 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGM+G+RVQAVV EL+ E+IDI+ +S D + F+  AL PA V KV ++E+   
Sbjct: 244 VDPVGACVGMKGTRVQAVVRELKGERIDIIPYSDDMSFFIAKALTPATVLKVGINENEKT 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD----FNERTQ 360
             V+V  +QLSLAIG++GQNVRLAS+LTGW+ID+++E E +  + K+    F E  Q
Sbjct: 304 AVVVVENDQLSLAIGKKGQNVRLASRLTGWSIDVLSESEYNQMKHKETERAFKETNQ 360


>gi|313901626|ref|ZP_07835063.1| NusA antitermination factor [Thermaerobacter subterraneus DSM
           13965]
 gi|313468107|gb|EFR63584.1| NusA antitermination factor [Thermaerobacter subterraneus DSM
           13965]
          Length = 473

 Score =  329 bits (844), Expect = 7e-88,   Method: Compositional matrix adjust.
 Identities = 168/351 (47%), Positives = 242/351 (68%), Gaps = 2/351 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E ++  + +  +K ID+D +L  +  ++  A R  +GT  ++ V I+ ETG+I +    +
Sbjct: 4   EFIEALEDLERQKGIDKDTLLEAIEAALVAAFRRHFGTAQNVAVRIDRETGEIRVVARRD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+ + QIS+  AR+ DP    G VV   + P DFGR+A Q+AKQV++Q++REAER
Sbjct: 64  VVEEVEDPSTQISVAEAREIDPRYKPGDVVEQEVTPRDFGRIAAQTAKQVVLQRIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           D  Y EF  + G+I++G V+RV+  NV VDLG ++ V+   E I  E  RPGDR+K YI 
Sbjct: 124 DLIYEEFIAREGDIVTGVVQRVQGRNVFVDLGRTETVLFPSEQIPGERYRPGDRIKVYIV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +VR+  +GPQ+L+SR+HP  + +LF +EVPEI++GIV++K   R+PG RAK+AV + D  
Sbjct: 184 EVRKTPKGPQILISRSHPNLIKRLFELEVPEIHDGIVEIKEAVREPGVRAKVAVDTRDER 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG RG+RVQAVV ELR E+ID++ W+ +   FV NAL PA VT+V+L+ +   
Sbjct: 244 VDPVGACVGPRGARVQAVVAELRGERIDVIRWAEEPEQFVANALSPAKVTRVILEPETRV 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE--DSINRQKDFN 356
             VIVP  QLSLAIG+ GQN RLA++LTGW IDI  E +  + + R+ D++
Sbjct: 304 ARVIVPDHQLSLAIGKEGQNARLAARLTGWKIDIHAESQAAEWLAREDDWD 354


>gi|256830179|ref|YP_003158907.1| NusA antitermination factor [Desulfomicrobium baculatum DSM 4028]
 gi|256579355|gb|ACU90491.1| NusA antitermination factor [Desulfomicrobium baculatum DSM 4028]
          Length = 441

 Score =  329 bits (843), Expect = 8e-88,   Method: Compositional matrix adjust.
 Identities = 163/405 (40%), Positives = 263/405 (64%), Gaps = 5/405 (1%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           LEL +  D ++ +K IDR++++  + ++I+ +    YG   DI V  N ETG+I +++  
Sbjct: 3   LELKKAIDQISKDKGIDREMLIDTLEEAIRASVTKKYGDKMDIEVTFNEETGEIEVYQFK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VVEE+E+   +I +  A   DP++++   +   L   D GR+A QSAKQVIIQ++R+AE
Sbjct: 63  IVVEEIEDPDTEILMVDALKHDPNVELDDAIGFRLQVEDLGRIAAQSAKQVIIQRMRDAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           ++  + E+K++ GEI+SG ++R +    I++LG ++ ++ +D+ I RE  R GDRV+  I
Sbjct: 123 QEIIFEEYKNRKGEIVSGIIQRRDRSGWIINLGRTEALLPKDKQIPRERFRQGDRVEGLI 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +VR+E RGPQ++++R+ P++M  LF  EVPE+ +G V +  V+RDPG RAK+ V S DS
Sbjct: 183 IEVRKEGRGPQIIITRSDPEYMTALFRREVPEVADGTVNIMGVARDPGLRAKVTVLSQDS 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           ++DPVGACVG+RGSR+ ++V ELR E+IDIV+WSPD AT+  NAL PA ++K+ +D++  
Sbjct: 243 NVDPVGACVGIRGSRIHSIVQELRGERIDIVLWSPDIATYAANALSPARISKIAIDDEEK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +EV+VP++QL+ AIG++GQNV+LA++L GW IDI T       R    ++      Q  
Sbjct: 303 SLEVVVPEDQLTPAIGKKGQNVKLAAKLLGWKIDIFTN-----TRFNKVHKDRHLLEQLA 357

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           +  ++        GF  +E +A     ++  I+G  EE    ++G
Sbjct: 358 SAAQVSIADFAEAGFDSLEAMAACTNEQLLDIQGISEENIGALRG 402


>gi|86157527|ref|YP_464312.1| NusA antitermination factor [Anaeromyxobacter dehalogenans 2CP-C]
 gi|85774038|gb|ABC80875.1| NusA antitermination factor [Anaeromyxobacter dehalogenans 2CP-C]
          Length = 557

 Score =  328 bits (842), Expect = 9e-88,   Method: Compositional matrix adjust.
 Identities = 183/435 (42%), Positives = 264/435 (60%), Gaps = 36/435 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           I D VA +K IDR  ++ ++ ++I  AA+  +G   +++   + E G + LF++L +V +
Sbjct: 10  ILDQVAKDKGIDRAKLIEILEEAIGSAAKRHFGLERNLKARYDEEKGQVDLFQVLTIVPD 69

Query: 72  ------VENYTCQISLKVARDRDPSIDIGGVVSDPLP----------------------- 102
                 + +    + + VA ++   ++ G  +  P+                        
Sbjct: 70  PTEEAPLADPVNMVPVAVAHEKGIDVEPGDELDFPIYYRAEDEAEARAQDEQWGDLLKLK 129

Query: 103 --PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN 160
                FGR+A Q+AKQV+IQ  R AER+  + E+KD+ GE+I+G V+R E GNVIVDLG 
Sbjct: 130 TYRRSFGRIAAQTAKQVMIQGTRNAERENVFNEYKDRKGEVITGIVRRFERGNVIVDLGR 189

Query: 161 SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIY 220
           ++ V+   E + RE+ R GDR+++++ DV RE +GPQ++LSR   + + KLF MEVPEI 
Sbjct: 190 AEAVLPVREQVPRESYRAGDRIQAFVMDVLRESKGPQIILSRASVELLKKLFEMEVPEIA 249

Query: 221 NGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
            G+V ++A +R+PG RAK+AV S DS +DPVGACVGM+GSRVQAVV ELR EKIDIV W 
Sbjct: 250 EGVVVIEAAAREPGGRAKIAVSSRDSDVDPVGACVGMKGSRVQAVVQELRGEKIDIVPWD 309

Query: 281 PDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
            D A FV NAL PA V++V+LDE    +E+IVP +QLSLAIGRRGQNVRLASQ+TGW +D
Sbjct: 310 EDPARFVCNALAPAEVSRVLLDEQNRAMEIIVPDDQLSLAIGRRGQNVRLASQVTGWKLD 369

Query: 341 IITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEG 400
           I +E     +R K+  E       AI + E    +L A GF   +++A      +    G
Sbjct: 370 INSE-----SRVKEMREFATESFGAIGIPEQTQEMLYAHGFRKSQDVANAAPEMLTQFPG 424

Query: 401 FDEETAVEIQGRARE 415
           F  +   ++Q RARE
Sbjct: 425 FTMDMIPDLQKRARE 439


>gi|317121853|ref|YP_004101856.1| NusA antitermination factor [Thermaerobacter marianensis DSM 12885]
 gi|315591833|gb|ADU51129.1| NusA antitermination factor [Thermaerobacter marianensis DSM 12885]
          Length = 486

 Score =  328 bits (842), Expect = 1e-87,   Method: Compositional matrix adjust.
 Identities = 166/338 (49%), Positives = 235/338 (69%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +E ++  + +  +K ID+D +L  +  ++  A R  +GT  ++ V I+ E+G+I +    
Sbjct: 3   VEFIEALEDLERQKGIDKDTLLEAIEAALVAAFRRHFGTAQNVAVRIDRESGEIRVVARR 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           +VVEEV++ + QISL  AR+ DP   +G VV   + P DFGR+A Q+AKQV++Q++REAE
Sbjct: 63  DVVEEVQDPSTQISLAEAREIDPRYQVGDVVEQEVTPRDFGRIAAQTAKQVVLQRIREAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           RD  Y EF  + G+II+G V+RV+  NV VDLG ++ V+   E I  E  RPGDR+K YI
Sbjct: 123 RDLIYEEFIAREGDIITGVVQRVQGRNVFVDLGRTETVLFPSEQIPGERYRPGDRIKVYI 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +VR+  +GPQ+L+SR+HP  + +LF +EVPEI++GIV++K   R+PG RAK+AV + D 
Sbjct: 183 VEVRKTPKGPQILISRSHPNLIKRLFELEVPEIHDGIVEIKEAVREPGVRAKVAVDTRDE 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVG RG RVQAVV ELR E+ID++ W+ +   FV NAL PA VT+V+L+ +  
Sbjct: 243 RVDPVGACVGPRGVRVQAVVAELRGERIDVIRWAEEPEQFVANALSPAKVTRVILEPETR 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              VIVP  QLSLAIG+ GQN RLA++LTGW IDI  E
Sbjct: 303 VARVIVPDHQLSLAIGKEGQNARLAARLTGWKIDIHAE 340


>gi|108759193|ref|YP_630295.1| transcription termination factor NusA [Myxococcus xanthus DK 1622]
 gi|108463073|gb|ABF88258.1| transcription termination factor NusA [Myxococcus xanthus DK 1622]
          Length = 566

 Score =  327 bits (839), Expect = 3e-87,   Method: Compositional matrix adjust.
 Identities = 184/431 (42%), Positives = 265/431 (61%), Gaps = 32/431 (7%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + D VA +K IDR V+++ + D+++ AA+  +G   ++  + +P+ G + LF+ + VVEE
Sbjct: 15  VLDQVAKDKGIDRAVLIATLEDAMKTAAKKHFGQDRELEAKYDPDKGVVELFQAITVVEE 74

Query: 72  VEN---YTCQISLKVA-------------------RDRDPS------IDIGGVVSDPLPP 103
           + +      QISL  A                   RD D +         G ++      
Sbjct: 75  IVDPVQAVNQISLVEAHKKGMEVEPGDELVFQIFYRDEDAAEAKAQDDQYGDILRLKTFR 134

Query: 104 MDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG 163
             FGR+A Q+AKQVI+Q+ R+AER+  + E++D+  EI++G  +R E GN+IVDLG ++ 
Sbjct: 135 RGFGRIAAQTAKQVILQRTRDAERENVFNEYRDRKNEIVTGIARRFERGNIIVDLGRAEA 194

Query: 164 VIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGI 223
           V+   E + RE  RPGDRV++Y+ DV RE +GPQ++LSR     + KLF MEVPEI  GI
Sbjct: 195 VLPVREQVPRETYRPGDRVQAYVLDVLRESKGPQIVLSRASVNLLTKLFEMEVPEIAEGI 254

Query: 224 VQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDS 283
           V ++A +R+PG RAK+AV S DS +DPVGACVGM+GSRVQAVV ELR EKIDIV +  D 
Sbjct: 255 VVIEAAAREPGGRAKIAVSSRDSDVDPVGACVGMKGSRVQAVVQELRGEKIDIVPFDEDP 314

Query: 284 ATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           A FV +AL PA V++V++DE    +E+IVP +QLSLAIGRRGQNVRLA+QLTGW +DI +
Sbjct: 315 ARFVCSALAPAEVSRVIIDEANHAMELIVPDDQLSLAIGRRGQNVRLAAQLTGWKLDINS 374

Query: 344 EEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
             E  +   ++F  R+   +  +N  E++   L A GF    ++A      +A + G D 
Sbjct: 375 --ESRVRELREFANRSLGSLPGVN--EMLVETLYAHGFRQARDIAEANAELLAQLPGIDP 430

Query: 404 ETAVEIQGRAR 414
                +Q  AR
Sbjct: 431 ARIPSMQEAAR 441


>gi|296132885|ref|YP_003640132.1| transcription termination factor NusA [Thermincola sp. JR]
 gi|296031463|gb|ADG82231.1| transcription termination factor NusA [Thermincola potens JR]
          Length = 535

 Score =  327 bits (838), Expect = 3e-87,   Method: Compositional matrix adjust.
 Identities = 161/337 (47%), Positives = 239/337 (70%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E ++  + +  EK I  DV+L  +  ++  A +  +G+  ++RV+I+ ETG+I +F    
Sbjct: 4   EFIEALEELEREKGIAIDVLLEALEAALISAYKRNFGSAQNVRVDIDRETGEIKVFARKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE+VE+   +ISL+ A+ RDP  ++  +V   + P DFGR+A Q+AKQV++Q++REAER
Sbjct: 64  VVEKVEDDRLEISLEEAQKRDPRYELSDIVEIEVTPRDFGRIAAQTAKQVVVQRIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF ++ G+I++G V+R +  NV VDLG ++ ++   E I+ E  R GDR+K+YI 
Sbjct: 124 GIIYEEFSNREGDIVTGIVQRQDPKNVYVDLGKTEAILAPSEQIAGEEYRHGDRIKTYIV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V++  +GPQ+L+SRTHP  + +LF +EVPEI++G+V++K+V+R+ G+R+K+AV+S D +
Sbjct: 184 EVKKTTKGPQILVSRTHPGLLKRLFELEVPEIHDGVVELKSVAREAGARSKIAVYSKDEN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G RVQ +V EL+ EKIDIV WSPD A FV NAL PA V  V ++E    
Sbjct: 244 VDPVGACVGPKGMRVQTIVNELKGEKIDIVKWSPDPARFVANALSPAKVLDVKVNEAEKI 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E
Sbjct: 304 ARVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSE 340


>gi|118579397|ref|YP_900647.1| transcription elongation factor NusA [Pelobacter propionicus DSM
           2379]
 gi|118502107|gb|ABK98589.1| NusA antitermination factor [Pelobacter propionicus DSM 2379]
          Length = 401

 Score =  326 bits (836), Expect = 5e-87,   Method: Compositional matrix adjust.
 Identities = 173/338 (51%), Positives = 234/338 (69%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           + L    + +  EK IDR VVL  M  ++  AA   Y    D+    N +TG++ LF  +
Sbjct: 5   ISLKHAIEQIVKEKGIDRQVVLEAMEQAVLTAANKKYRNTRDLEARYNSDTGEVELFEFV 64

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VVEEVE+   +ISL  AR+ DP +++G  + + +    F R+A Q+AKQVIIQKVREAE
Sbjct: 65  IVVEEVEDSYKEISLDEAREIDPDVEVGDSLGEKIDSSGFTRIAAQTAKQVIIQKVREAE 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R+  + E+ D+  E+I+G V+R E G++++DLG ++ V+   E + RE  RPGDR+++ I
Sbjct: 125 RETIFNEYSDRQWEVITGMVRRFEKGDLLIDLGRAEAVLPSKEQMPREVYRPGDRIRAII 184

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            D+R   +GPQ++LSRTHP  + KLF  EVPE+  GIV++ A+ RDPGSRAKLAV S+D 
Sbjct: 185 TDIRVTPKGPQIILSRTHPSMLAKLFEAEVPEVAEGIVEINAIVRDPGSRAKLAVSSNDP 244

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVGMRGSRVQ VV+ELR EKIDI+ WS D A F  NAL PA V+KV +DED  
Sbjct: 245 DVDPVGACVGMRGSRVQNVVSELRGEKIDIIPWSEDIARFACNALSPAQVSKVFVDEDNR 304

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            +EV+V  +QLSLAIG+RGQNV LA++LTG  IDI +E
Sbjct: 305 ALEVVVADDQLSLAIGKRGQNVSLAARLTGCRIDIKSE 342


>gi|189424726|ref|YP_001951903.1| transcription elongation factor NusA [Geobacter lovleyi SZ]
 gi|189420985|gb|ACD95383.1| NusA antitermination factor [Geobacter lovleyi SZ]
          Length = 385

 Score =  326 bits (835), Expect = 6e-87,   Method: Compositional matrix adjust.
 Identities = 175/336 (52%), Positives = 234/336 (69%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L Q  + +  EK IDR VV+  M  ++  AA   Y    ++    N +TG++ LF  + V
Sbjct: 7   LKQAIEQIVKEKGIDRQVVIEAMEQAVLSAANKKYRNTRNLEAHYNNDTGEVELFEYVVV 66

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VEEV++   +ISL  AR+ DP  ++G  + + +   DFGR+A Q+AKQVIIQKVREAER+
Sbjct: 67  VEEVQDSYTEISLDEAREMDPECEVGDELGEKIDSGDFGRIAAQTAKQVIIQKVREAERE 126

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
             + E+KD+  EI++G V+R E G++++DLG ++ ++   E + RE  RPGDR+++ I D
Sbjct: 127 TVFNEYKDRQWEIVTGQVRRFERGDLLIDLGRAEAILSGKEQMPREVYRPGDRIRAIITD 186

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           +    +GPQ++LSRTHPQ + KLF  EVPEI  G+V++  V RDPGSRAK+AV S D  I
Sbjct: 187 IAMTTKGPQIILSRTHPQMLAKLFEAEVPEIGEGLVEIVNVVRDPGSRAKIAVASHDRDI 246

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI 308
           DPVGACVGMRGSRVQ VV+ELR EKIDI+ WS D A FV NAL PA V KV +DE+   +
Sbjct: 247 DPVGACVGMRGSRVQNVVSELRGEKIDIIPWSADIARFVCNALSPAQVVKVFMDEEQRTL 306

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           EVIVP +QLSLAIG+RGQNV LA++LTG  IDI  E
Sbjct: 307 EVIVPDDQLSLAIGKRGQNVSLAARLTGCRIDIKGE 342


>gi|262197038|ref|YP_003268247.1| NusA antitermination factor [Haliangium ochraceum DSM 14365]
 gi|262080385|gb|ACY16354.1| NusA antitermination factor [Haliangium ochraceum DSM 14365]
          Length = 538

 Score =  326 bits (835), Expect = 6e-87,   Method: Compositional matrix adjust.
 Identities = 196/498 (39%), Positives = 293/498 (58%), Gaps = 41/498 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L  + D V  +K+I+RDV++  +  +I  AA+  +G   ++  + N +TG + LF ++ V
Sbjct: 5   LNMVIDQVGRDKNIERDVLVQALEQAILTAAKKTFGASRELEAQYNEDTGVVDLFLIVNV 64

Query: 69  VEEVEN--YTCQISLKVA-------------------------RDRDPSIDIGGVVSDPL 101
           VE+ E+  Y  +I+   A                         R  +     G ++    
Sbjct: 65  VEDEEDAIYGREITAPDAETHGLEAEIGDELLFQVFYRAEDNERASEQDAKFGDLIDLKN 124

Query: 102 PPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS 161
               FGR+A Q+AKQVI Q+VREAERD  Y E+KD+ GE+I+G V+R E G+++VDLG +
Sbjct: 125 AHKRFGRIAAQTAKQVIYQRVREAERDNVYNEYKDRKGELITGIVRRFERGSIVVDLGRA 184

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           + ++   + + RE+ R GD +K+Y+ D+ R  RGPQ++LSRTH   + KLF  EVPEIY 
Sbjct: 185 EAILPTRDQVPRESYRVGDSIKAYVLDIDRNARGPQIILSRTHKGLLEKLFEQEVPEIYE 244

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
            IV++++ +R+PG+RAK+AV S D  +DPVGACVGM+GSRVQAVV ELR EKIDIV +  
Sbjct: 245 KIVRIESSAREPGARAKIAVSSRDRDVDPVGACVGMKGSRVQAVVQELRGEKIDIVPYDE 304

Query: 282 DSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           D A FV NA+ PA V++V++D D  R+E++VP ++LSLAIG++GQNVRLASQLTGW IDI
Sbjct: 305 DPARFVCNAIAPAEVSRVLIDADGHRMELVVPDDKLSLAIGKKGQNVRLASQLTGWRIDI 364

Query: 342 ITEEEDSINRQKDFNERTQFFMQAI-NVDEIIAHLLVAEGFADVEELACVKISEIASIEG 400
            +E     ++ +D   R +  + A+  +D+ +A  +   G+  V EL+     E+A + G
Sbjct: 365 HSE-----SKIQDLERRAKEQLAAVEGMDDDLADTVFRLGWRSVGELSRAAPEELAGVPG 419

Query: 401 FDE-ETAVEIQGRAREYLEGIDITLQKKIRE------LGVSEELCSIPGIDSKIKVALGE 453
            D  E   ++   AR +LE   +  +   RE      L   E L  +  +   I   L E
Sbjct: 420 IDGVEVGRQVVAGARAFLEEEKLRQEHARREADRRNSLSDRERLLEVRDMSEAIADQLAE 479

Query: 454 NG-IKTMEDLAGCSVDDL 470
              +  +EDLA   +D L
Sbjct: 480 EAQVMRVEDLARWPLDRL 497


>gi|251772259|gb|EES52829.1| transcription termination factor (NusA) [Leptospirillum
           ferrodiazotrophum]
          Length = 443

 Score =  326 bits (835), Expect = 7e-87,   Method: Compositional matrix adjust.
 Identities = 180/424 (42%), Positives = 263/424 (62%), Gaps = 14/424 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL + D +  EK I ++ ++  +  +I  AA+  YG   + +VEI+P TG+I +  L  
Sbjct: 5   ELLSVIDQLHREKGIPQETLIEALQSAILTAAKKRYGGGDNFQVEIDPRTGEIQVLHLRR 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VE V +   ++SL  A++ DP  ++G  +   L   DFGRVA Q+AKQVI QKVREAE 
Sbjct: 65  IVEHVVSPMEEVSLAEAKESDPEAEVGDEIGAYLEIDDFGRVAAQAAKQVIFQKVREAEW 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
                EF  + G +++G     E  N I+DLG ++ V+   E I RE+   GDRVK+ + 
Sbjct: 125 SVVAKEFGGRKGNVVAGVYIGQEKRNFIIDLGKTEAVLPFKEQIPRESFHRGDRVKALLL 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           D+R   RGPQ++LSRTHP F+ +LF  EVPEI  G++++K V RDPG RAK+AV S D +
Sbjct: 185 DIRTTTRGPQLILSRTHPDFLARLFEKEVPEISEGLIEIKGVVRDPGERAKVAVLSRDPN 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVG 306
           IDPVG+CVG++GSRVQA+V E+  EKIDI+ WSPD  TF+  AL PA V +V   D +  
Sbjct: 245 IDPVGSCVGVKGSRVQAIVREIHGEKIDIIDWSPDPGTFIARALSPAKVLRVATRDSEFD 304

Query: 307 RI-EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN------ERT 359
           ++  V+V  +QLSL+IGRRGQNVRLA++LTGW IDI +E++   +RQ          E +
Sbjct: 305 KVATVVVANQQLSLSIGRRGQNVRLAAKLTGWKIDIFSEQQYEADRQARAGGDGAEEEHS 364

Query: 360 QFFMQAINVDEI------IAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
                 + ++++      +A  L A G+  VE++A   I +IA +     +TA ++   A
Sbjct: 365 DAAPLLLGIEDLPGMGGNVADALKAAGYDTVEKIAEANIDDIAILPRLGPKTAAKLVETA 424

Query: 414 REYL 417
           R++L
Sbjct: 425 RDFL 428


>gi|78042921|ref|YP_360589.1| transcription elongation factor NusA [Carboxydothermus
           hydrogenoformans Z-2901]
 gi|77995036|gb|ABB13935.1| transcription termination factor NusA [Carboxydothermus
           hydrogenoformans Z-2901]
          Length = 346

 Score =  325 bits (833), Expect = 1e-86,   Method: Compositional matrix adjust.
 Identities = 154/339 (45%), Positives = 237/339 (69%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E LQ    +  +K I  +V+L     ++  A +  YG   + RV I+  TG++ ++ L  
Sbjct: 4   EFLQAVQEIEKQKGIPAEVLLEATEQALLSAYKKNYGINQNARVHIDRVTGEVKVYALKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV++   +ISL+ AR++DP +++G V+   + P +FGR+A Q+AKQV+IQ++REAER
Sbjct: 64  VVEEVKDPRLEISLEEAREKDPRLNLGDVLEIEVTPRNFGRIAAQNAKQVVIQRIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           ++ Y EF  + G+II+G ++RV+  NV VDLG ++ ++   E I  EN + GDR+K+Y+ 
Sbjct: 124 NQIYEEFSSREGDIITGIIRRVDQKNVYVDLGKTEAILPPQEQIPGENYKFGDRIKAYLV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V++  +GP ++LSRTHP  + +L  +E+PE+Y+G V++K+++R+ GSR+K+AV+S D +
Sbjct: 184 EVKKTSKGPNIILSRTHPGLLKRLLELEIPELYDGTVELKSIAREAGSRSKIAVYSKDEN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DP+GACVG +G R++ +V EL  EKID+V WSPD A F+ NAL PA VT V + ED   
Sbjct: 244 VDPIGACVGNKGLRIKNIVEELNGEKIDVVKWSPDPAKFIANALSPAKVTSVEVFEDEKV 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E +
Sbjct: 304 ARVVVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQ 342


>gi|238020478|ref|ZP_04600904.1| hypothetical protein GCWU000324_00360 [Kingella oralis ATCC 51147]
 gi|237867458|gb|EEP68464.1| hypothetical protein GCWU000324_00360 [Kingella oralis ATCC 51147]
          Length = 500

 Score =  324 bits (830), Expect = 2e-86,   Method: Compositional matrix adjust.
 Identities = 187/472 (39%), Positives = 296/472 (62%), Gaps = 11/472 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+L +A+A+A EK++  ++V   +  ++  AA+        D+ + I+ ETGD    R  
Sbjct: 4   EILLLAEALASEKNVSNEIVFEALEVALGIAAKKKADREQMDLEIRIDRETGDYKTIRKW 63

Query: 67  EVVEEVENYT---CQISLKVARDRDPSIDI--GGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +VE++ +YT    + +++  ++  P I I  G    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 64  LIVEDL-DYTYPELEKTIEQIQEEQPEIQISVGDYYEEELPNEAFGRQAAQTAKQIILQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS-DGVIRRDETISRENLRPGD 180
           +R+AER++    F +    I++GTVKR+E   ++V+L    D +I R++ + REN R GD
Sbjct: 123 IRDAEREQILNHFLETHENIVTGTVKRMERHGIVVELAPKLDALIPREQMLPRENYRGGD 182

Query: 181 RVKSYIYDVRREQRG-PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           R+++  + +     G  QVLLSRT P F+ +LF  EVPEI +G++++K V+RDPG RAK+
Sbjct: 183 RIRALFWKLEEFNGGRKQVLLSRTAPDFVRELFAQEVPEIADGLLEIKEVARDPGQRAKI 242

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV + D  IDP G C+G+RGSRV AV  E+  E+ID+V+WS D+A FVINAL PA V+++
Sbjct: 243 AVLARDQRIDPQGTCIGVRGSRVNAVSNEIGGERIDVVLWSDDTAQFVINALSPAQVSRI 302

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           V+D+++  ++VIV ++QL+LAIGR GQNVRLA++LTG  ++I+T +E       +     
Sbjct: 303 VIDDELNSVDVIVAEDQLALAIGRGGQNVRLAAELTGLQLNIMTLQEAEERNAAESAAAR 362

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             F++ + V E IA  LV EGF  VEE+A V  SE+  +EGFD E A  ++ +ARE +  
Sbjct: 363 NLFVEQLEVSEEIADALVNEGFESVEEVAYVPASELLEVEGFDAELAESLRAKAREVVLK 422

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
                + K+ E  + E+L ++ G+D  +   L E  I + +DLA  S+ +L+
Sbjct: 423 AAEEAEAKLNE--IDEDLRTLDGVDEDMLRDLAEANITSRDDLAELSIAELI 472


>gi|116515165|ref|YP_802794.1| NusA [Buchnera aphidicola str. Cc (Cinara cedri)]
 gi|116257019|gb|ABJ90701.1| transcription pausing L factor [Buchnera aphidicola str. Cc (Cinara
           cedri)]
          Length = 495

 Score =  323 bits (829), Expect = 3e-86,   Method: Compositional matrix adjust.
 Identities = 181/464 (39%), Positives = 277/464 (59%), Gaps = 1/464 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DAV++EKSI R+ +   +  +++ A +  Y    +IRV IN  TG  + +R   
Sbjct: 4   EILSVVDAVSHEKSIPREKIFQALESALEIATKKKYNQDINIRVCINRSTGSFNTYRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV  V N T +I+L+ AR  +  I +   + D +  + F R+A Q AKQVIIQKVREAE+
Sbjct: 64  VVNNVFNPTKEITLEAARFENKKIQLCDYIEDCIDSVTFDRIATQIAKQVIIQKVREAEK 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS-DGVIRRDETISRENLRPGDRVKSYI 186
           +    +F  K G+II G VK++    +I+D+GN+ +G+I R++ + REN R  DRV+  +
Sbjct: 124 EIILNKFDKKKGQIIIGIVKKISRDYIILDVGNNIEGIIMREDMLPRENFRINDRVRGIL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y++  E++G Q+ +SR+    +++LF +EVPEI    +++KA++RDPG R+K+AV + D 
Sbjct: 184 YNISYEKQGAQLFISRSKSDMLIELFRIEVPEIREKFIEIKAIARDPGLRSKIAVTTYDE 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRGSRVQAV  EL  E+IDI++W  +   FVIN++ PA V+ + LD    
Sbjct: 244 RIDPVGACVGMRGSRVQAVSNELCGERIDIILWDNNPKKFVINSMAPADVSSIFLDNTNH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            I + V    L+ AIGR GQNVRLASQLTGW ++IIT       ++   N          
Sbjct: 304 VINIEVKLCNLAQAIGRNGQNVRLASQLTGWELNIITSNPIIKIKKSKKNNFFDILKNKF 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           N  E    L++  GF+ ++ +A   I+++ SI+G   +  + +Q +A   LE       K
Sbjct: 364 NFTENDILLVIHSGFSSIKSIAYASINQLLSIKGIKTDVVLNMQKKAIFILENDKKKSIK 423

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
             ++  ++ E  ++  I+  I   L E  I T+E LA  S+DDL
Sbjct: 424 IYKKKYLNSEFANLKNINKFIIQQLIEKKICTLEHLAEQSIDDL 467


>gi|261883881|ref|ZP_06007920.1| transcription elongation factor NusA [Campylobacter fetus subsp.
           venerealis str. Azul-94]
          Length = 307

 Score =  323 bits (828), Expect = 4e-86,   Method: Compositional matrix adjust.
 Identities = 159/266 (59%), Positives = 205/266 (77%)

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIV 312
           ACVGMRGSRVQAVV EL+ EKIDI+ WSPD+A+F++NAL+PA V KVVLDED  RIEV+V
Sbjct: 1   ACVGMRGSRVQAVVFELQGEKIDIIPWSPDAASFIVNALQPAEVAKVVLDEDAERIEVVV 60

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEII 372
           P +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER+  FM+A+NVDE++
Sbjct: 61  PNDQLSLAIGRRGQNVRLASQLTGWDIDILTEDEESERRQKEFAERSNLFMEALNVDEMV 120

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELG 432
             +L +EGFA VEELA V   EI+SI+GFDE+TA EIQ RAREYLE I+     + +ELG
Sbjct: 121 GQVLASEGFASVEELAYVDAGEISSIDGFDEDTAGEIQDRAREYLERIEAEQDARRKELG 180

Query: 433 VSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLG 492
           V++EL  +PG+ + + VA+GE+G+KTMED AG +VDDL+GW E K G+     G L+   
Sbjct: 181 VADELRELPGMTTAMLVAVGEDGVKTMEDFAGYAVDDLVGWRERKDGDTINHSGVLTPFD 240

Query: 493 TPKDQVESMIIHARYKMGWIEKEKVA 518
             +   E M++ AR K  WI ++++A
Sbjct: 241 LSRVDAEHMVLAARLKACWITEQELA 266


>gi|320354998|ref|YP_004196337.1| NusA antitermination factor [Desulfobulbus propionicus DSM 2032]
 gi|320123500|gb|ADW19046.1| NusA antitermination factor [Desulfobulbus propionicus DSM 2032]
          Length = 451

 Score =  322 bits (826), Expect = 8e-86,   Method: Compositional matrix adjust.
 Identities = 178/420 (42%), Positives = 277/420 (65%), Gaps = 14/420 (3%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           MV A  L+  +I D +  +K IDR +++  + ++++ A R  YGT  +I V+ N + G++
Sbjct: 1   MVGAENLK--RIVDQICRDKGIDRALLIDAIEEAVRSAVRKKYGTRREIEVQFNEDLGEV 58

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM-DFGRVAVQSAKQVII 119
            +F+   VV+EV +   +ISL+ AR  DP I++   + + +  + D GR+A QSAKQVII
Sbjct: 59  EVFQYRTVVDEVYDEETEISLEEARRLDPEIELDDDLGEKMDNIADLGRIAAQSAKQVII 118

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPG 179
            ++R+AERD  Y  F+D+ G I++G V+R E G++I++LG +D V+ R+  I + + + G
Sbjct: 119 HRMRDAERDVIYEMFRDREGTIVNGIVQRFERGDMIINLGRTDAVLPREGQIPKRSYKQG 178

Query: 180 DRVKSYIYDVRREQR-----GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
           DR+++Y+ +VRR+ R       Q++LSRT  +F++KLF MEVPEI  GIV++   SR+PG
Sbjct: 179 DRIRAYLQEVRRDTREGKFRDSQLILSRTCNEFLIKLFEMEVPEIAEGIVKIMGASREPG 238

Query: 235 SRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA 294
            RAK+AV S +S +DPVGACVG++GSRVQ VV EL+ E+IDIV WSPD A +V NAL PA
Sbjct: 239 FRAKIAVSSIESDVDPVGACVGLKGSRVQNVVQELQGERIDIVPWSPDPARYVCNALAPA 298

Query: 295 IVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
            V+ V+++++   + V+VP +QLSLAIGR+GQNVRLAS+L GW ID+ ++     +R  +
Sbjct: 299 EVSMVIVEDERKALLVVVPDDQLSLAIGRQGQNVRLASRLLGWKIDVKSQ-----SRYAN 353

Query: 355 FNERTQFFMQAIN-VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
            +      + A++ VDE +A  L A G      LA + I ++ ++   D++ A  +Q  A
Sbjct: 354 MDNTEYRSLLAVDGVDENLADRLFAAGITSAPLLAAMDIEQLMALARIDQDKAQGMQKAA 413


>gi|260893511|ref|YP_003239608.1| NusA antitermination factor [Ammonifex degensii KC4]
 gi|260865652|gb|ACX52758.1| NusA antitermination factor [Ammonifex degensii KC4]
          Length = 365

 Score =  322 bits (825), Expect = 1e-85,   Method: Compositional matrix adjust.
 Identities = 164/339 (48%), Positives = 230/339 (67%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E LQ    +  E+ +  +V+LSV+  ++  A R  +GT  + RVEI+  TG+  +     
Sbjct: 4   EFLQALRDLERERGLKTEVLLSVIEAALLSAYRRNFGTAQNARVEIDRTTGECRVLAQRT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV++   +ISL  AR+ DP   +G VV   + P DFGR+A Q+AKQV++Q+++EAER
Sbjct: 64  VVEEVKDPRTEISLAEAREIDPRYQVGDVVEIEVTPRDFGRIAAQTAKQVVMQRIKEAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y  F  + G+I++GTV R +  NV +DLG ++ ++   E I  E  R GDRV++YI 
Sbjct: 124 NMIYEAFAGREGDIVTGTVHRADKQNVYLDLGKTEAILPAAEQIPGERYRQGDRVRAYIL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +VRR  +GPQ++LSRTHP F+ +L  +EVPE+  G V++K + R+PGSR+K+AV+S D  
Sbjct: 184 EVRRTPKGPQIILSRTHPGFLRRLLELEVPELQEGTVELKNLVREPGSRSKVAVYSRDPH 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG RGSR+QAVV ELR EKID+V W PD + F+  AL PA VT V + E+   
Sbjct: 244 VDPVGACVGPRGSRIQAVVNELRGEKIDVVRWDPDPSRFIAEALSPAKVTAVEIWEEEKI 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E +
Sbjct: 304 ARVIVPDNQLSLAIGKEGQNARLAAKLTGWKIDIKSESQ 342


>gi|118602111|ref|YP_903326.1| NusA antitermination factor [Candidatus Ruthia magnifica str. Cm
           (Calyptogena magnifica)]
 gi|118567050|gb|ABL01855.1| NusA antitermination factor [Candidatus Ruthia magnifica str. Cm
           (Calyptogena magnifica)]
          Length = 491

 Score =  321 bits (822), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 192/512 (37%), Positives = 296/512 (57%), Gaps = 32/512 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL  + +A++ EK+I ++ VL  + +++  A +       D  VEIN +TG+   FR   
Sbjct: 5   ELFLMVEAISNEKNISKEEVLESLEEALAIATKKRNNI--DAYVEINRQTGEFLTFRQWM 62

Query: 68  VVEEVENYT------CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           VV + E +           L V       + +   V  P+    FGR+A Q  KQVI+QK
Sbjct: 63  VVADGETFVDDDGTEFDSELHVYAKDASGVAVDDYVRKPIETQKFGRIAAQIVKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS-DGVIRRDETISRENLRPGD 180
           VREAER+    ++  ++GE++  TVKRV+ GNV VD G   DG+I + + I  E++R  D
Sbjct: 123 VREAEREVIVNDYSSRIGEVVMVTVKRVDRGNVYVDTGGGVDGMIPKFDLIPNESVRKND 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+++YI +V+   RG Q+ LSR+ P+ M++LF MEVPEI  G++++   SRDPG R+KLA
Sbjct: 183 RLRAYIKEVKPSVRGAQIFLSRSMPEMMIELFKMEVPEISEGVIEIMGGSRDPGLRSKLA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V + D  IDP+G+C+GMRG+RVQAV  EL  E++DI++W  D A FVINA+ PA V+ ++
Sbjct: 243 VRAKDRRIDPIGSCIGMRGARVQAVSNELNAERVDIILWDEDHAQFVINAMAPAQVSSII 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V  +QL+LAIGR GQN++LAS+LTGW +++++  +    + ++  + + 
Sbjct: 303 VDEDKHSMDIAVEDDQLALAIGRGGQNIKLASRLTGWRLNVMSTTQADEKQAQETLKISD 362

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
                + VD  +A +L+ EGF  V EL       + +IE FD     E+Q RA       
Sbjct: 363 KLADQLGVDSEVAGVLIEEGFGSVGELVDADAQVLENIEEFDASMVEELQERAS------ 416

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           D  L + + +   SE L S+ G+   +  AL E  I T++DLA  S+DDLL        +
Sbjct: 417 DAQLVQALGDAEASELLMSVEGVGEDLASALIEADIVTVDDLAELSIDDLL--------D 468

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
           I+  D  ++S         S+I+ AR   GW 
Sbjct: 469 IQNMDTEIAS---------SVIMIARENEGWF 491


>gi|283850804|ref|ZP_06368090.1| NusA antitermination factor [Desulfovibrio sp. FW1012B]
 gi|283573727|gb|EFC21701.1| NusA antitermination factor [Desulfovibrio sp. FW1012B]
          Length = 496

 Score =  320 bits (821), Expect = 3e-85,   Method: Compositional matrix adjust.
 Identities = 171/396 (43%), Positives = 262/396 (66%), Gaps = 7/396 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISL--FRL 65
           EL +  D ++ ++ IDRD+++  + ++++ +    YG   D+ V  N E G+I +  F++
Sbjct: 3   ELKKAIDQISKDRGIDRDLLVDTLEEAVRSSVIRKYGENLDVEVSYNDEQGEIEVYQFKV 62

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           +   ++V +   +I L  AR  DP++ +   +   L   D GR+A QSAKQVIIQ++R+A
Sbjct: 63  VVEDDDVADPAAEICLADARAIDPNVALEDEMGFKLTVEDLGRIAAQSAKQVIIQRMRDA 122

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E++  Y E+KD+ GEIISG ++R +    I++LG ++ ++ ++E I RE  + GDRV++Y
Sbjct: 123 EQEIIYEEYKDRKGEIISGIIQRRDRSGWIINLGRTEALLPKEEQIPRERYKRGDRVQAY 182

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V    RGPQ+++SRTH  +M  LF  EVPE+ +G V++  V+RDPGSRAK+AV S D
Sbjct: 183 IIEVLPSGRGPQIIVSRTHADYMKALFAREVPEVSDGTVKIVGVARDPGSRAKVAVISKD 242

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG+RGSR+Q +V ELR E+IDIVVW+P+ AT+  NAL PA VT++ +DED 
Sbjct: 243 RDVDPVGACVGIRGSRIQNIVQELRGERIDIVVWNPEIATYAANALSPARVTRISVDEDD 302

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             +EV+V  +QL+LAIGR+GQNV+LA++L GW IDI TE     +R ++ N   +F  Q 
Sbjct: 303 KALEVVVTDDQLNLAIGRKGQNVKLAAKLLGWKIDIFTE-----SRFREVNASKKFLEQL 357

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
            +V EI    +++ GF  +E+LA      I +I G 
Sbjct: 358 ASVAEIPVDNIISAGFESMEQLADAPDEAIDAISGM 393


>gi|93004904|ref|YP_579341.1| transcription elongation factor NusA [Psychrobacter cryohalolentis
           K5]
 gi|92392582|gb|ABE73857.1| NusA antitermination factor [Psychrobacter cryohalolentis K5]
          Length = 494

 Score =  320 bits (819), Expect = 5e-85,   Method: Compositional matrix adjust.
 Identities = 188/473 (39%), Positives = 290/473 (61%), Gaps = 17/473 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADS-IQKAARSLYGTMSDI--RVEINPETGDISLFR 64
           E+L + + V+ EK ++ + +   + D+ +    + +Y    ++  RV I+  TGD   +R
Sbjct: 4   EILTVVETVSNEKGLNPEDIFEAIEDALVVSTKKKVYTDQPEVEVRVSIDRTTGDYDTYR 63

Query: 65  LLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VV  E+ E   CQ+++      + SI  G +  + +  ++FGR+A   AKQVIIQK+
Sbjct: 64  YWTVVADEDHEMPACQLAITDLDQEEWSI--GDIKEEQIESIEFGRIAATQAKQVIIQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER+     F+ +VGE++ G VK+      I+DLG N++G + RD+ + RE LR   R
Sbjct: 122 REAERNLVADAFEPRVGEMMYGEVKKQTRDGYIIDLGDNAEGYLSRDQMLPREQLRAKSR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           + + +Y V RE RG Q+LLSRTHP+ +  L   EVPEI   I++++ V+R PG+RAK+AV
Sbjct: 182 INAILYHVNRENRGAQLLLSRTHPEMLSALMQKEVPEIAEQIIEIRNVARLPGTRAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A F+I+AL PA V+ ++L
Sbjct: 242 KTNDHRIDPVGACIGMRGTRIQAVQQELDGERIDVVVWSDDPAQFIISALEPADVSSIIL 301

Query: 302 DEDVGRIEVIVP-KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           DED    ++I    +QL+ AIG +GQNVRLAS+LTG+ ++++ EEE    +Q+  NE   
Sbjct: 302 DEDTQTADIIFSTNDQLARAIGSQGQNVRLASELTGYKLNMMLEEE---YQQRQANESKA 358

Query: 361 F---FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
           F   F + + VD+ +A  LV  GF  +EE+A V +     IEG D+E    IQ RA+E +
Sbjct: 359 FIELFYERLEVDKDLAQALVDIGFTSIEEVAYVPVETFYDIEGLDDEAIDMIQERAKEVV 418

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
              ++  Q+ ++E   S+EL  + G+       + +  I T++DLA  +V DL
Sbjct: 419 IADELVKQQNMKE--PSQELQDLEGMTVSWAYKMAQKDIITVDDLAEQAVFDL 469


>gi|303248242|ref|ZP_07334505.1| transcription termination factor NusA [Desulfovibrio fructosovorans
           JJ]
 gi|302490380|gb|EFL50291.1| transcription termination factor NusA [Desulfovibrio fructosovorans
           JJ]
          Length = 478

 Score =  319 bits (817), Expect = 8e-85,   Method: Compositional matrix adjust.
 Identities = 170/396 (42%), Positives = 262/396 (66%), Gaps = 7/396 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISL--FRL 65
           EL +  D ++ ++ IDRD+++  + ++++ +    YG   D+ V  N E G+I +  F++
Sbjct: 3   ELKKAIDQISKDRGIDRDLLIDTLEEAVRSSVIRKYGENLDVEVSYNDEQGEIEVYQFKV 62

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           +   ++V +   +I L  AR  DP++ +   +   L   + GR+A QSAKQVIIQ++R+A
Sbjct: 63  VVEDDDVADPAAEICLSDARAIDPNVALDDEMGFKLTVENLGRIAAQSAKQVIIQRMRDA 122

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E++  Y E+KD+ GEIISG ++R +    I++LG ++ ++ ++E I RE  + GDRV++Y
Sbjct: 123 EQEIIYEEYKDRKGEIISGIIQRRDRTGWIINLGRTEALLPKEEQIPRERYKRGDRVQAY 182

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V    RGPQ+++SRTH  +M  LF  EVPE+ +G V++  V+RDPGSRAK+AV S D
Sbjct: 183 IIEVLPSGRGPQIIVSRTHADYMKALFAREVPEVSDGTVKIVGVARDPGSRAKVAVVSKD 242

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG+RGSR+Q +V ELR E+IDIVVW+P+ AT+  NAL P+ VT++ +DED 
Sbjct: 243 RDVDPVGACVGIRGSRIQNIVQELRGERIDIVVWNPEIATYAANALSPSRVTRISVDEDE 302

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             +EV+V  +QL+LAIGR+GQNV+LA++L GW IDI TE     +R ++ N   +F  Q 
Sbjct: 303 KALEVVVSDDQLNLAIGRKGQNVKLAAKLLGWKIDIFTE-----SRFREVNASKKFLEQL 357

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
            +V EI    ++A GF  +E+LA      I +I G 
Sbjct: 358 ASVAEIPVDNILAAGFESMEQLAEAPDEAIDAISGM 393


>gi|323701863|ref|ZP_08113533.1| transcription termination factor NusA [Desulfotomaculum nigrificans
           DSM 574]
 gi|323533167|gb|EGB23036.1| transcription termination factor NusA [Desulfotomaculum nigrificans
           DSM 574]
          Length = 386

 Score =  318 bits (816), Expect = 1e-84,   Method: Compositional matrix adjust.
 Identities = 155/339 (45%), Positives = 234/339 (69%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E L+    +  EK I  DV+L  +  ++  A +  +G++ + RV I+  TGD  ++    
Sbjct: 4   EFLEALKDLEKEKGIAVDVLLEAIEAALLSAYKRNFGSLQNARVHIDRNTGDFKVYSQRT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+   +ISL+ AR  DP  ++G VV + + P +FGR+A Q+AKQV++Q++REAER
Sbjct: 64  VVEEVEDDRLEISLEDARKIDPRFNLGDVVENEVTPRNFGRIAAQTAKQVVVQRIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + EF ++ G+I++G V+R+E  NV ++LG ++ ++   E +  E  RPGDR+K+YI 
Sbjct: 124 NIIFEEFANREGDILTGIVQRIENKNVFIELGKTEAILTPSEQMPGEEYRPGDRLKTYIV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +VR+  +GPQ+L+SRTHP  + +L  MEVPE+Y G++++K+++R+ G R+K+AV+S D +
Sbjct: 184 EVRKTTKGPQILVSRTHPGLLKRLLEMEVPELYEGVIELKSIAREAGYRSKIAVYSKDEN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G RVQ +V+EL  EKIDIV W  D + FV ++L PA V  V + ED   
Sbjct: 244 VDPVGACVGPKGMRVQNIVSELNGEKIDIVKWDQDPSKFVASSLSPAKVVAVEVWEDEKV 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E +
Sbjct: 304 ARVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQ 342


>gi|269469301|gb|EEZ80807.1| transcription elongation factor [uncultured SUP05 cluster
           bacterium]
          Length = 390

 Score =  318 bits (815), Expect = 1e-84,   Method: Compositional matrix adjust.
 Identities = 177/410 (43%), Positives = 262/410 (63%), Gaps = 25/410 (6%)

Query: 105 DFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV 164
           +FGR+A Q  KQVIIQKVREAER+    ++  +VGE+I  TVKRV+ GNV VD+G  DG+
Sbjct: 5   EFGRIAAQIFKQVIIQKVREAEREVIVDDYTKRVGEVIIVTVKRVDRGNVYVDMGGVDGM 64

Query: 165 IRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           I + + I  E+ R  DR+++YI DV+   RG Q+ LSRT P+ M++LF MEVPEI  G++
Sbjct: 65  ISKFDLIPNESTRKNDRLRAYIKDVKSTPRGAQIFLSRTAPEMMIQLFEMEVPEISEGVI 124

Query: 225 QVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSA 284
           ++   +RDPG R+KLAV S D  +DP+G+C+GMRGSRVQAV  EL  E++DI++W  D A
Sbjct: 125 EIMGGARDPGLRSKLAVKSKDKRLDPIGSCIGMRGSRVQAVSNELNGERVDIILWDEDPA 184

Query: 285 TFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            FVINA+ PA V+ +V+DED   +++ V  +QL+LAIGR GQN++LAS+LTGW +++++ 
Sbjct: 185 QFVINAMAPAEVSSIVVDEDKNSMDIAVEDDQLALAIGRGGQNIKLASRLTGWKLNVMSI 244

Query: 345 EEDSINRQKDFNER-TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
            E S ++Q + N++ +    + + VD  +A +L+ EGF  ++E+A      + SIE FD 
Sbjct: 245 NE-SEDKQAEENQKVSGKLAEQLGVDSEVAGVLIEEGFGSIDEVADADADALESIEEFDV 303

Query: 404 ETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLA 463
               E+Q RA       D  L + + +   SE L  + G+D  +  AL E  I T++DLA
Sbjct: 304 SMVEELQERAS------DAQLVQALGDAESSEVLMGVEGMDEDLVQALIEAEIATVDDLA 357

Query: 464 GCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
             S+D+LL        +I++ D         K++  SMI+ AR   GW +
Sbjct: 358 ELSIDELL--------DIQEMD---------KEKASSMIMTARENEGWFD 390


>gi|218288337|ref|ZP_03492636.1| NusA antitermination factor [Alicyclobacillus acidocaldarius LAA1]
 gi|258511413|ref|YP_003184847.1| NusA antitermination factor [Alicyclobacillus acidocaldarius subsp.
           acidocaldarius DSM 446]
 gi|218241696|gb|EED08869.1| NusA antitermination factor [Alicyclobacillus acidocaldarius LAA1]
 gi|257478139|gb|ACV58458.1| NusA antitermination factor [Alicyclobacillus acidocaldarius subsp.
           acidocaldarius DSM 446]
          Length = 373

 Score =  318 bits (815), Expect = 2e-84,   Method: Compositional matrix adjust.
 Identities = 163/360 (45%), Positives = 244/360 (67%), Gaps = 4/360 (1%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           ++ L+  D +A EK ID++V+L  +  ++  + R  + + +++RVE+  +TG++ ++   
Sbjct: 3   VDFLEALDQLAREKGIDKEVLLEAIEAALIASYRRNFHSAANVRVEVKRDTGEVHVYARK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VVEE ++   +ISL  ARD +PS  IG VV   + P DFGR+A Q+AKQV++Q+V+EAE
Sbjct: 63  TVVEEPKDTRLEISLDAARDINPSYQIGDVVEIEVTPRDFGRIAAQAAKQVVMQRVKEAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R   Y +F D+  E++SG V R+E     +DLG+++ ++ + E ++ + L+ G R+K +I
Sbjct: 123 RSVIYSKFADREEEVVSGIVSRLEPRVAYIDLGDTEAILPQSEQMASDKLQVGKRLKVFI 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V R  +GPQ+++SRTHP  + +LF +EVPEIY GIV++KAV+R+ GSR+K+AV S + 
Sbjct: 183 ARVERTSKGPQIVVSRTHPGLLRRLFELEVPEIYEGIVEIKAVAREAGSRSKIAVHSRNP 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DP+GACVG RGSRVQA+V EL  EK+DIV WS D ATFV NAL PA V  V + ED  
Sbjct: 243 EVDPIGACVGARGSRVQAIVNELNGEKVDIVEWSEDPATFVANALSPAKVIDVHIYEDER 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS----INRQKDFNERTQFF 362
               +VP  QLSLAIG+ GQN RLA++LTGW IDI +E + +    +++ +D NE    F
Sbjct: 303 VARTVVPDYQLSLAIGKEGQNARLAARLTGWKIDIKSESQMASHSLLDQLEDTNEEEPEF 362


>gi|239907795|ref|YP_002954536.1| transcription elongation protein NusA [Desulfovibrio magneticus
           RS-1]
 gi|239797661|dbj|BAH76650.1| transcription elongation protein NusA [Desulfovibrio magneticus
           RS-1]
          Length = 463

 Score =  318 bits (814), Expect = 2e-84,   Method: Compositional matrix adjust.
 Identities = 169/396 (42%), Positives = 264/396 (66%), Gaps = 7/396 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISL--FRL 65
           EL +  D ++ ++ IDRD+++  + ++++ +    YG   D+ V  N E G+I +  F++
Sbjct: 3   ELKKAIDQISKDRGIDRDLLVDTLEEAVRSSVIRKYGENLDVEVSYNDEQGEIEVYQFKV 62

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           +   ++V +   +I L  A+  DP++ +   +   L   D GR+A QSAKQVIIQ++R+A
Sbjct: 63  VVEDDDVADPAAEICLSDAKAIDPNVALEDEMGFKLAVEDLGRIAAQSAKQVIIQRMRDA 122

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E++  Y E+KD+ GEIISG ++R +    I++LG ++ ++ ++E I RE  + GDRV+++
Sbjct: 123 EQEIIYEEYKDRKGEIISGIIQRRDRAGWIINLGRTEALLPKEEQIPRERYKRGDRVQAF 182

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V    RGPQ+++SRTH  +M  LF  EVPE+ +G V++ AV+RDPGSRAK+AV S D
Sbjct: 183 IIEVLPSGRGPQIIVSRTHGDYMKALFAREVPEVSDGTVKIVAVARDPGSRAKVAVISKD 242

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG+RGSR+Q +V ELR E+IDIVVW+P+ A++  NAL P+ VT++ +DED 
Sbjct: 243 RDVDPVGACVGIRGSRIQNIVQELRGERIDIVVWNPEIASYAANALSPSRVTRISVDEDE 302

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             +EV+V  +QL+LAIGR+GQNV+LA++L GW IDI+TE     +R ++ N   +F  Q 
Sbjct: 303 KSLEVVVTDDQLNLAIGRKGQNVKLAAKLLGWKIDIVTE-----SRFREANASKKFLEQL 357

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
            +V EI    ++A GF  +E+LA      I +I G 
Sbjct: 358 ASVAEIHVDNIIAAGFVSMEQLAEADDEAIDAIVGM 393


>gi|71064649|ref|YP_263376.1| transcription elongation factor NusA [Psychrobacter arcticus 273-4]
 gi|71037634|gb|AAZ17942.1| NusA antitermination factor [Psychrobacter arcticus 273-4]
          Length = 494

 Score =  318 bits (814), Expect = 2e-84,   Method: Compositional matrix adjust.
 Identities = 188/473 (39%), Positives = 291/473 (61%), Gaps = 17/473 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADS-IQKAARSLYGTMSDI--RVEINPETGDISLFR 64
           E+L + + V+ EK ++ + +   + D+ +    + +Y    ++  RV I+  TGD   +R
Sbjct: 4   EILTVVETVSNEKGLNPEDIFEAIEDALVVSTKKKVYTDQPEVEVRVSIDRATGDYDTYR 63

Query: 65  LLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VV  E+ E   CQ+++    D+D    IG V  + +  ++FGR+A   AKQVIIQK+
Sbjct: 64  YWTVVADEDHEMPACQLAI-TDLDQD-EWSIGDVKEEQIESIEFGRIAATQAKQVIIQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER+     F+ +VGE++ G VK+      I+DLG N++G + RD+ + RE LR   R
Sbjct: 122 REAERNLVADAFEPRVGEMMYGEVKKQTRDGYIIDLGDNAEGYLSRDQMLPREQLRAKSR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           + + +Y V RE RG Q+LLSRTHP+ +  L   EVPEI   I++++ V+R PG+RAK+AV
Sbjct: 182 INAILYHVNRENRGAQLLLSRTHPEMLSALMQKEVPEIAEQIIEIRNVARLPGTRAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A F+I++L PA V+ ++L
Sbjct: 242 KTNDHRIDPVGACIGMRGTRIQAVQQELDGERIDVVVWSDDPAQFIISSLEPADVSSIIL 301

Query: 302 DEDVGRIEVIVP-KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           DED    ++I    +QL+ AIG +GQNVRLAS+LTG+ ++++ EEE    +Q+  NE   
Sbjct: 302 DEDTQSADIIFSTNDQLARAIGSQGQNVRLASELTGYKLNMMLEEE---YQQRQANESKA 358

Query: 361 F---FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
           F   F + + VD+ +A  LV  GF  +EE+A V +     IEG D++    IQ RA+E +
Sbjct: 359 FIELFYERLEVDKDLAQALVDIGFTSIEEVAYVPVETFYDIEGLDDDAIDMIQERAKEVV 418

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
              ++  Q+ ++E   S+EL  + G+       + +  I T++DLA  +V DL
Sbjct: 419 IADELVKQQNMKE--PSQELQDLEGMTVSWAYKMAQKDIITVDDLAEQAVFDL 469


>gi|148244225|ref|YP_001218919.1| transcription termination factor NusA [Candidatus Vesicomyosocius
           okutanii HA]
 gi|146326052|dbj|BAF61195.1| transcription termination factor NusA [Candidatus Vesicomyosocius
           okutanii HA]
          Length = 491

 Score =  317 bits (813), Expect = 2e-84,   Method: Compositional matrix adjust.
 Identities = 188/512 (36%), Positives = 299/512 (58%), Gaps = 31/512 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL  + +A++ EK+I ++ VL  +  ++  A +       D  VEIN +TG+   FR   
Sbjct: 5   ELFLMVEAISNEKNISKEEVLESLEKALAIATKKRNNI--DAYVEINRQTGEFLTFRQWM 62

Query: 68  VVEEVENYT------CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           VV + E +         + L +       + +   +  P+   +FGR+A Q  KQVIIQK
Sbjct: 63  VVADGELFVDDDGTEFDLELHIYEKDTDGLVVDDYMRKPIETQEFGRIAAQIVKQVIIQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAER+    ++  ++GE+I  TVKRV+ GN+ VD+G  DG+I + + I  E++R  DR
Sbjct: 123 VREAEREVIVNDYSSRIGEVIMVTVKRVDRGNIYVDMGGVDGMIPKFDLIPNESVRKNDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++YI +V+   RG Q+ LSR+  + M++LF MEVPEI  G++++   SRDPG R+KLAV
Sbjct: 183 LRAYIKEVKSSIRGVQIFLSRSVSEMMIELFKMEVPEISAGVIEIMGGSRDPGLRSKLAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            + D  IDP+G+C+GMRG+RVQAV  EL  E++DI++W  D A FVINA+ PA V+ +++
Sbjct: 243 RAKDKRIDPIGSCIGMRGARVQAVSNELNAERVDIILWDEDPAQFVINAMAPAEVSSIIV 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+   +++ V  EQL+LAIGR GQN++LAS+LTGW +++++  +    + ++  + +  
Sbjct: 303 DENKHSMDIAVEDEQLALAIGRGGQNIKLASRLTGWKLNVMSTIQADEEQVQEMQKISDK 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
               + VD  +A +L+ EGF  V+EL       + +IE FD     E+Q RA       D
Sbjct: 363 LADQLGVDSEVAGVLIEEGFDSVDELVDADTQVLGNIEEFDASMVEELQERAS------D 416

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L + + +   SE L S+ G++  +   L E  I T++DLA  S+D+LL        +I
Sbjct: 417 AQLVQALGDAEASEILMSVEGVNEDLASVLIEVDIFTVDDLAELSIDELL--------DI 468

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           +  D  ++S         S+I+ AR   GW +
Sbjct: 469 QDMDIEIAS---------SIIMTARENEGWFD 491


>gi|149925033|ref|ZP_01913351.1| transcription termination factor NusA [Plesiocystis pacifica SIR-1]
 gi|149814097|gb|EDM73723.1| transcription termination factor NusA [Plesiocystis pacifica SIR-1]
          Length = 461

 Score =  317 bits (813), Expect = 3e-84,   Method: Compositional matrix adjust.
 Identities = 186/441 (42%), Positives = 276/441 (62%), Gaps = 34/441 (7%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           + L  + DAV  EK+I RDV++  +  ++  AA+ ++    +I    + ETG+++LF++L
Sbjct: 5   VNLSTVIDAVCQEKNISRDVLVDTVEQAVATAAKRVFAD-REIEASFDLETGNVNLFQVL 63

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVV--------------------SDPLPPMD- 105
            VVE VE    ++S+  AR      +IG  +                       +P +  
Sbjct: 64  YVVETVELPMREMSIDQARRSGLEAEIGDELLFQIFYLEDDRKQAEDQAKQYPEIPALQK 123

Query: 106 ----FGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI--VDLG 159
               FGR+A Q+AKQVIIQ+VREAER+  Y  +KDK GE+++G V+R E G+++  VD G
Sbjct: 124 VNTAFGRIAAQTAKQVIIQRVREAERENLYDRYKDKKGELMTGIVRRFERGSIVVEVDNG 183

Query: 160 NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEI 219
            ++ ++   + + RE+LRPGDR+ +++ DV +  RGPQ++LSRTH   + KLF  EVPEI
Sbjct: 184 RAEAILPSRDQVPRESLRPGDRIVAFVKDVDKSARGPQIILSRTHKGLVEKLFEHEVPEI 243

Query: 220 YNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVW 279
           + GIV+++A +R+PG+R+K+AV S D  +DPVGACVGMRGSRVQAVV ELR EKIDIV +
Sbjct: 244 FEGIVRIEACAREPGARSKIAVSSRDRDVDPVGACVGMRGSRVQAVVQELRGEKIDIVPF 303

Query: 280 SPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
             D A FV NA++PA V++V++D +   +E++VP ++LSLAIG+RGQNVRLAS+LTGW I
Sbjct: 304 DEDPARFVCNAIQPAQVSRVLIDAERHTMELVVPDDKLSLAIGKRGQNVRLASRLTGWRI 363

Query: 340 DIITEEEDSINRQKDFNERTQFFMQAI-NVDEIIAHLLVAEGFADVEELACVKISEIASI 398
           DI      S ++ +    R+Q  + AI  V   +A  L   G+  + +LA   + E+AS+
Sbjct: 364 DI-----HSRSKIRQMERRSQAEIAAIPGVGHELAAQLFDLGWRTLRDLAVANMEELASV 418

Query: 399 EGFDEETAVEIQGRAREYLEG 419
            G D + A  I   A E   G
Sbjct: 419 IGGDLDAADAIIDTANEAASG 439


>gi|304316865|ref|YP_003852010.1| NusA antitermination factor [Thermoanaerobacterium
           thermosaccharolyticum DSM 571]
 gi|302778367|gb|ADL68926.1| NusA antitermination factor [Thermoanaerobacterium
           thermosaccharolyticum DSM 571]
          Length = 345

 Score =  317 bits (812), Expect = 3e-84,   Method: Compositional matrix adjust.
 Identities = 154/337 (45%), Positives = 227/337 (67%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E ++  D +  +K I +D +   +  ++  A +  YGT  +++V+++ ETGD+ ++    
Sbjct: 4   EFIEALDQICKDKGIPKDTMFEAIEAALVSAYKKNYGTAQNVKVKMDRETGDVKVYAQKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE V N   +ISL+ A+       +G VV   + P  FGR+A Q+AKQV++Q++REAER
Sbjct: 64  VVENVYNDLFEISLEDAQKLSKKYQVGDVVDIEVTPKSFGRIAAQNAKQVVVQRIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y +F  K  EI++G V+R+E  NV+VDLG ++  +  +E I  E    GDR+K YI 
Sbjct: 124 GIVYEDFLSKESEIVTGIVERIERKNVLVDLGKAEATLTPNEQIPNETYNHGDRIKVYIV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V++  +GPQ+L+SR+HP  + +LF MEVPE+  GIV+++++SR+PGSR K+AV++ D +
Sbjct: 184 EVKKTTKGPQILISRSHPGLVKRLFEMEVPELQQGIVEIRSISREPGSRTKMAVYTKDEN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G+RVQAVV EL+ EKIDIV WS     FV NAL PA V  + +DE    
Sbjct: 244 VDPVGSCVGYKGARVQAVVNELKGEKIDIVKWSSKPQEFVTNALSPAKVLSIDIDEKEKI 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+ GQNVRLA++LTGW IDI +E
Sbjct: 304 ARVVVPDYQLSLAIGKEGQNVRLAAKLTGWKIDITSE 340


>gi|125973509|ref|YP_001037419.1| NusA antitermination factor [Clostridium thermocellum ATCC 27405]
 gi|256003327|ref|ZP_05428318.1| NusA antitermination factor [Clostridium thermocellum DSM 2360]
 gi|281417712|ref|ZP_06248732.1| NusA antitermination factor [Clostridium thermocellum JW20]
 gi|125713734|gb|ABN52226.1| NusA antitermination factor [Clostridium thermocellum ATCC 27405]
 gi|255992617|gb|EEU02708.1| NusA antitermination factor [Clostridium thermocellum DSM 2360]
 gi|281409114|gb|EFB39372.1| NusA antitermination factor [Clostridium thermocellum JW20]
 gi|316940252|gb|ADU74286.1| NusA antitermination factor [Clostridium thermocellum DSM 1313]
          Length = 404

 Score =  317 bits (811), Expect = 4e-84,   Method: Compositional matrix adjust.
 Identities = 150/339 (44%), Positives = 235/339 (69%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L+   + +  EK ID+D ++  +  ++  A +  +G+  +++V I+ ETGD  ++ L +
Sbjct: 4   DLIHALEQLEKEKGIDKDTLIEAIEAALISAYKRSFGSSQNVKVSIDRETGDFKVYALKK 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V    +N   +IS++ A+  +P  +   +V   + P  FGR+A Q+AKQV++Q++REAER
Sbjct: 64  VTANPQNELLEISIENAKKINPDFEENDIVEIEVTPRKFGRIAAQTAKQVVVQRIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF +K GEI++G V+R+E  NVI+DLG ++ ++   E I  E  +  DR+K+YI 
Sbjct: 124 GIIYNEFSNKEGEIVTGVVQRIERKNVIIDLGKAEAILAPSEQIPGEEYKFNDRIKTYII 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V++  +GPQ+L+SRTHP  + +LF +EVPEIY GIV++K+++R+PGSR K+AV+S D +
Sbjct: 184 EVKKTTKGPQILVSRTHPGIIKRLFELEVPEIYEGIVEIKSIAREPGSRTKIAVYSKDEN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G+RVQAVV ELR EKIDI+ WS +   ++ ++L PA V +V ++E+   
Sbjct: 244 VDPVGACVGQKGTRVQAVVDELRGEKIDIIKWSSNPEEYISSSLSPAKVIRVDINEEEKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            +V VP  QLSLAIG+ GQN RLA++LTGW IDI +E +
Sbjct: 304 AKVTVPDFQLSLAIGKEGQNARLAAKLTGWKIDIKSESQ 342


>gi|258591348|emb|CBE67647.1| Transcription elongation protein nusA (N utilization substance
           protein A) (L factor) [NC10 bacterium 'Dutch sediment']
          Length = 433

 Score =  316 bits (810), Expect = 5e-84,   Method: Compositional matrix adjust.
 Identities = 157/335 (46%), Positives = 230/335 (68%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           ++LLQ+ + V  EK ID  V++  ++ +I  A+R   G   D+RVE +  +    L+ + 
Sbjct: 3   IDLLQVIEQVGREKEIDSAVLIEAVSAAILSASRKTLGAALDLRVEFDQRSRCFMLYAVR 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           +VVE+V N   +I++  A+  +P   +G      L   +FGR+A Q+AKQVIIQ+V+EAE
Sbjct: 63  KVVEQVVNPHVEIAIDEAQQLNPEAQLGDETKTELKAKEFGRIAAQTAKQVIIQRVKEAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R+  +  FK +VGE++ G V+RV  GNVIV+LG ++ ++   E + RE+ R GDR+++Y+
Sbjct: 123 RESVFQAFKARVGELVGGVVQRVAKGNVIVNLGKAEAILPPREQLPREDYRVGDRIRAYV 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            DV++  RG Q++LSRTHP  + KL  +EVPEIY GIV++KAVSRD G RAK+AV S DS
Sbjct: 183 LDVKKLPRGSQIVLSRTHPGLLAKLLEIEVPEIYEGIVEIKAVSRDAGERAKVAVASRDS 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           ++DPVGACVG RGSR+QA+V EL  EKID++ W  D A+FV +AL PA +  V + ++  
Sbjct: 243 NVDPVGACVGYRGSRIQAIVRELMGEKIDVIAWKDDPASFVKSALAPADIESVEVVQETH 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            + V+V   QLSLAIG+RGQN RLA++L GW +D+
Sbjct: 303 TLHVLVADGQLSLAIGKRGQNARLAAKLLGWKVDV 337


>gi|291279908|ref|YP_003496743.1| N utilization substance protein A [Deferribacter desulfuricans
           SSM1]
 gi|290754610|dbj|BAI80987.1| N utilization substance protein A [Deferribacter desulfuricans
           SSM1]
          Length = 443

 Score =  316 bits (810), Expect = 5e-84,   Method: Compositional matrix adjust.
 Identities = 171/419 (40%), Positives = 270/419 (64%), Gaps = 9/419 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL ++AD +  EK + ++++   + DSI+ A    YG ++D  V ++ E G I +    E
Sbjct: 3   ELAKVADEIGKEKGLSKELLKEALEDSIKAAVIRKYGRLTDPEVTVDIERGKIDIKVPKE 62

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VEN   +I L+ A+   P  ++G V+  P+   + GR A   AKQ +++K+REAE+
Sbjct: 63  VVESVENKKYEILLEDAKKIKPDAELGDVIMVPISFQELGRQAATVAKQRMVEKIREAEK 122

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF++K+G+I++G V + +  ++IV +G ++  + + E I  +    GD V++ + 
Sbjct: 123 QVVYDEFQNKIGQIVTGVVLKSDKDSMIVSIGKTEAFMPKREIIPGDYYDRGDYVRALLL 182

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           ++R  +  PQ++LSRTHP F+ KLF +E+PE++ GI++VKAV+R+PG RAK+AV+S +S+
Sbjct: 183 EIRVIRGWPQLILSRTHPDFLKKLFEVEIPEVFEGIIEVKAVAREPGDRAKVAVYSKNSN 242

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVGAC+G++G+R+ A+  ELR EKID++ WSPD   FV NAL PA V    + ED   
Sbjct: 243 IDPVGACIGLKGTRINAISNELRGEKIDVIEWSPDPVKFVCNALSPADVILTNIFEDEKT 302

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ------- 360
           IEV+VP +QLSLAIG+RGQNVRLA+ LTGW +D++ E E +I R++   E+ +       
Sbjct: 303 IEVVVPDDQLSLAIGKRGQNVRLAAMLTGWRLDVLKESEYNIIRKERLQEQEEELKEFYE 362

Query: 361 -FFMQAINV-DEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
            + ++ I+V DE +   L+  G  DVE+L+   + E+    G +E+ AV I   A +YL
Sbjct: 363 IYNLENIDVLDENMISKLIEHGIDDVEKLSTASVDEVVMALGVNEDQAVVIINSAIDYL 421


>gi|153873979|ref|ZP_02002372.1| Transcription termination factor NusA [Beggiatoa sp. PS]
 gi|152069556|gb|EDN67627.1| Transcription termination factor NusA [Beggiatoa sp. PS]
          Length = 355

 Score =  316 bits (810), Expect = 5e-84,   Method: Compositional matrix adjust.
 Identities = 158/319 (49%), Positives = 228/319 (71%), Gaps = 1/319 (0%)

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLR 177
           +QK+REAER +    ++D+ GE+ISG VKRVE GNVI+DLG N++ +I RDE I RE++R
Sbjct: 1   MQKIREAERAQIIEAYQDRQGELISGVVKRVERGNVILDLGGNAEALITRDEMIPRESVR 60

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
           PGDR++ Y+Y VR E RGPQ+ LSRT P+ ++KLF+MEVPEI    +++   +RDPG RA
Sbjct: 61  PGDRLRGYLYSVRPESRGPQIFLSRTAPELLIKLFNMEVPEIGEHFLEIVDAARDPGLRA 120

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV   D  IDPVGACVGMRGSRVQA+  EL  E++DI+V+  + A FV+NA+ PA V 
Sbjct: 121 KIAVKPKDPRIDPVGACVGMRGSRVQAISNELAGERVDIIVFDENPAQFVMNAMAPADVV 180

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            +++DE+   ++V V +EQLS AIGR GQNVRLASQLT WT++++T+++     +++   
Sbjct: 181 SIIVDEETHSMDVAVQEEQLSQAIGRNGQNVRLASQLTSWTLNVMTDKQAREKHEQEALV 240

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
             + FM  + VDE IA++LV EGF+ +EE+A V ++E+  IE FDE    E++ RA++ L
Sbjct: 241 MLELFMDELEVDEEIANILVQEGFSSIEEVAYVPLTEMLQIEAFDENLVKELRSRAKDAL 300

Query: 418 EGIDITLQKKIRELGVSEE 436
               I  +++   + +SEE
Sbjct: 301 LTRAIATEEQDESILLSEE 319


>gi|238927232|ref|ZP_04658992.1| transcription elongation factor NusA [Selenomonas flueggei ATCC
           43531]
 gi|238884907|gb|EEQ48545.1| transcription elongation factor NusA [Selenomonas flueggei ATCC
           43531]
          Length = 379

 Score =  316 bits (810), Expect = 5e-84,   Method: Compositional matrix adjust.
 Identities = 158/350 (45%), Positives = 232/350 (66%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  E LQ    +AYEK ID +++   +  ++  A R  +G   ++R+ ++ ETG   +F 
Sbjct: 13  NGKEFLQTLKELAYEKGIDEELLFETIEAALISAYRRNFGAAQNVRISLSRETGAFHVFA 72

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           +  VV+EVE+   +ISL  AR  +P   +G VV   + P +FGR+A Q+AKQV++Q++RE
Sbjct: 73  IKTVVDEVESDVTEISLARARAINPDYTVGDVVEIEMTPANFGRIAAQTAKQVVMQRLRE 132

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER   Y E+ ++  EI++G V+R+E  NV VD+G ++ V+   E +  E    GD V++
Sbjct: 133 AERGIVYEEYMNRSSEIVTGIVQRIEGHNVFVDIGRAEAVLMATEQLPTETYNYGDTVRA 192

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +V+R  RGPQ++LSRTHP  + KLF ++VPEI  G+V++++++R+ GSR+K+AV+SS
Sbjct: 193 YIIEVKRTSRGPQIMLSRTHPGLLKKLFELQVPEIQEGVVEIRSIAREAGSRSKVAVWSS 252

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           +  +DP+GACVG    RVQAVV EL  EKIDIV WS D AT++ N+L PA V  V ++E 
Sbjct: 253 EERVDPIGACVGPHYMRVQAVVDELAGEKIDIVKWSDDPATYIANSLNPAKVISVAVNEA 312

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
                V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E +     Q D
Sbjct: 313 EKISRVVVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSETQAREEEQAD 362


>gi|302392348|ref|YP_003828168.1| NusA antitermination factor [Acetohalobium arabaticum DSM 5501]
 gi|302204425|gb|ADL13103.1| NusA antitermination factor [Acetohalobium arabaticum DSM 5501]
          Length = 376

 Score =  316 bits (809), Expect = 7e-84,   Method: Compositional matrix adjust.
 Identities = 160/341 (46%), Positives = 242/341 (70%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            +EL+Q  + +  +K+I ++++L  +  +++ A +  +G+  ++ +EI+ E G+++++  
Sbjct: 2   NIELIQALEDIEKDKNIPKEMLLDALKAALESAYKKNFGSKQNVEIEIDEENGEVNVYSN 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV+N   ++SL+ AR+ DP+ + G VVS  + P +FGR+A Q+AKQV+IQ++REA
Sbjct: 62  REVVKEVDNPNLEMSLEEAREIDPNYEAGDVVSVEVTPANFGRIAAQTAKQVVIQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ERD  Y EF D   EII+G ++R    NVIVDLG ++ ++   E I  EN  P +R+K Y
Sbjct: 122 ERDIIYEEFADMEDEIITGIIQRNHKKNVIVDLGRTEAILIPPEQIPNENYEPSERIKIY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V++  +GP +L+SRTHP  + +LF +EVPEI++G+V++KAV+R+ G R+K+AV S++
Sbjct: 182 IVEVKQTTKGPNILVSRTHPGLLKRLFELEVPEIHDGVVKIKAVAREAGFRSKIAVDSTE 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           + +DP+G+CVG  G RVQAVV EL  EKIDIV WS D A F+ NAL PA VT V +DE+ 
Sbjct: 242 AEVDPIGSCVGPNGMRVQAVVDELNGEKIDIVNWSEDPAEFIANALSPAEVTGVEVDEEE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E E
Sbjct: 302 QVAVVVVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESE 342


>gi|68172039|ref|ZP_00545325.1| Transcription termination factor NusA, C-terminal duplication
           [Ehrlichia chaffeensis str. Sapulpa]
 gi|67998537|gb|EAM85305.1| Transcription termination factor NusA, C-terminal duplication
           [Ehrlichia chaffeensis str. Sapulpa]
          Length = 318

 Score =  315 bits (808), Expect = 1e-83,   Method: Compositional matrix adjust.
 Identities = 150/332 (45%), Positives = 234/332 (70%), Gaps = 14/332 (4%)

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RVK++I DVR+E  GPQ+ LSR +  FM +LF  E+PEIY+GIV +KA++RDPGSR+K+A
Sbjct: 1   RVKAHIEDVRKENSGPQIFLSRINKGFMEQLFKQEIPEIYDGIVTIKAIARDPGSRSKVA 60

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           VFSSD +IDPVGACVG RG R+Q +++EL  EKID++++SP+ A F++NA+ PA V KV+
Sbjct: 61  VFSSDKNIDPVGACVGARGVRIQGIISELHGEKIDVILYSPELAKFIVNAIAPAEVLKVI 120

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED  ++E+I+P+ QLSLAIGR GQN+RLAS+L GW I++I +E +S  + K+ +  ++
Sbjct: 121 IDEDKEKVELIIPENQLSLAIGRYGQNIRLASELVGWKINVIGDETESSRKAKELSAGSK 180

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F++ ++V+EII  LL  EGF  +E++    +S+I++I+GF+EE A E++ RA +YL   
Sbjct: 181 IFVEGLDVEEIIGQLLFTEGFVSIEDIDQASVSDISAIDGFNEEIAEELKSRAADYLVRK 240

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           D  +++ +  L V +++  +P +     +AL +NGI ++ED+AG   D+           
Sbjct: 241 DAEMKQILDNLSVDKDVTMLPFLRPSDIIALSKNGINSLEDIAGLCTDEF---------- 290

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
              FD  +  +   KDQV+S+I+ +R K+GW+
Sbjct: 291 ---FD-IIPDIALTKDQVDSVILESRKKIGWL 318


>gi|323173571|gb|EFZ59200.1| transcription elongation protein nusA [Escherichia coli LT-68]
          Length = 381

 Score =  315 bits (807), Expect = 1e-83,   Method: Compositional matrix adjust.
 Identities = 164/367 (44%), Positives = 244/367 (66%), Gaps = 4/367 (1%)

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLR 177
           +QKVREAER     +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN R
Sbjct: 1   MQKVREAERAMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFR 60

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
           PGDRV+  +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRA
Sbjct: 61  PGDRVRGVLYSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRA 120

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V 
Sbjct: 121 KIAVKTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVA 180

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            +V+DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + + 
Sbjct: 181 SIVVDEDKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHA 240

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F + +++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L
Sbjct: 241 AIDTFTKYLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNAL 300

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWS 474
             I    ++ + +   +++L ++ GID  +   L   G+ T+EDLA   +DDL    G +
Sbjct: 301 ATIAQAQEESLGDNKPADDLLNLEGIDRDLAFKLAARGVCTLEDLAEQGIDDLADIEGLT 360

Query: 475 ENKGGNI 481
           + K G +
Sbjct: 361 DEKAGAL 367


>gi|148651972|ref|YP_001279065.1| transcription elongation factor NusA [Psychrobacter sp. PRwf-1]
 gi|148571056|gb|ABQ93115.1| NusA antitermination factor [Psychrobacter sp. PRwf-1]
          Length = 495

 Score =  315 bits (807), Expect = 1e-83,   Method: Compositional matrix adjust.
 Identities = 182/484 (37%), Positives = 295/484 (60%), Gaps = 14/484 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADS-IQKAARSLYGTMSDI--RVEINPETGDISLFR 64
           E+L + + V+ EK ++ + +   + ++ +    + +Y    ++  RVEI+ +TGD   +R
Sbjct: 4   EILTVVETVSNEKGLNPEDIFEAIEEALVVSTKKRVYTEQPEVAVRVEIDRDTGDYDTYR 63

Query: 65  LLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VV  E+ E   CQ+++    + + SI  G +  + +  ++FGR+A   AKQVIIQK+
Sbjct: 64  YWTVVADEDHEMPACQLAISDLDENEWSI--GDIKEEQIESIEFGRIAATQAKQVIIQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER      F+ ++GE++ G VK+      I+DLG N++G + RD+ + RE LR   R
Sbjct: 122 REAERALTADAFEPRIGEMMYGEVKKQTRDGYIIDLGDNAEGYLSRDQMLPREQLRVKSR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           + + +Y V R+ RG Q+LLSRT P  +V L + EVPEI   I++++ V+R PG RAK++V
Sbjct: 182 INAILYHVNRDNRGAQLLLSRTSPDMLVALMNKEVPEINEQIIEIRDVARQPGVRAKISV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGAC+GMRG+R+QAV +EL  E+ID++VWS D A ++I+AL PA V+ ++L
Sbjct: 242 KTNDHRIDPVGACIGMRGTRIQAVQSELDGERIDVIVWSDDPAQYIISALEPADVSSIIL 301

Query: 302 DEDVGRIEVI-VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           DED    ++I    +QL+ AIG +GQNVRLAS+LTG+ ++++ E E    +Q +     +
Sbjct: 302 DEDAKTADIIFTANDQLARAIGAQGQNVRLASELTGYKLNMMLEAEYLERQQNETKAYLE 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F   + VDE +A  LV  GF  +EE+A V +     IEG D++    IQ RA+E +   
Sbjct: 362 LFYNRLEVDEDLAQALVDVGFTSIEEVAYVPVETFYDIEGLDDDAIEMIQERAKEVVIAD 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSV---DDLLGWSENK 477
           ++  Q+ ++E   S+EL ++ G+ +     L +  I T++DLA  +V   +D+ G  E  
Sbjct: 422 ELVKQQNMKE--PSKELLTMDGMTTDWAYKLAQRDIITLDDLAEQAVFDLEDIEGLDEKT 479

Query: 478 GGNI 481
            G +
Sbjct: 480 AGEL 483


>gi|331007796|ref|ZP_08330909.1| Transcription termination protein NusA [gamma proteobacterium
           IMCC1989]
 gi|330418395|gb|EGG92948.1| Transcription termination protein NusA [gamma proteobacterium
           IMCC1989]
          Length = 336

 Score =  315 bits (807), Expect = 1e-83,   Method: Compositional matrix adjust.
 Identities = 160/333 (48%), Positives = 237/333 (71%), Gaps = 3/333 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AV+ EK +D +V+   +  ++  A +  Y   S I V I+  TGD   FR  E
Sbjct: 4   EILLVAEAVSNEKGVDAEVIFEALELALATATKKRYDEDSTIDVSIDRRTGDYETFRSWE 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV  E +     Q + + A +++  +  G +  + +  +DFGR+A Q+AKQVI+QKVREA
Sbjct: 64  VVDDETLALLGTQFTTEEAIEQNADLVPGDIHREQVENVDFGRIAAQTAKQVIVQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER++   E++DK+GE+ISG+VK+V   N+IVDLGN ++G++ R+E + RE  R GDR+++
Sbjct: 124 EREQVVEEYRDKIGELISGSVKKVTRDNIIVDLGNNAEGLLPREELVGREIYRMGDRIRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + +VR E RGPQ+ LSR  P+ +V+LF +EVPEI   I+++KA +RDPGSRAK+AV ++
Sbjct: 184 MLMEVRSEMRGPQLYLSRACPEMLVELFRIEVPEIAEEIIELKAAARDPGSRAKIAVKTN 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL +E+IDI++W  ++A FVINA+ PA +  +V+DE+
Sbjct: 244 DGRIDPVGACVGMRGARVQAVSNELANERIDIILWDDNAAQFVINAMAPAEIESIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
              ++V V ++ L++AIGR GQNVRLAS+LTGW
Sbjct: 304 TASMDVAVAEDNLAMAIGRGGQNVRLASELTGW 336


>gi|255658253|ref|ZP_05403662.1| transcription termination factor NusA [Mitsuokella multacida DSM
           20544]
 gi|260849564|gb|EEX69571.1| transcription termination factor NusA [Mitsuokella multacida DSM
           20544]
          Length = 378

 Score =  315 bits (807), Expect = 1e-83,   Method: Compositional matrix adjust.
 Identities = 154/342 (45%), Positives = 230/342 (67%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  E L     +  EK ID +V+   +  ++  A +  +G+  ++RV ++ ETG   ++ 
Sbjct: 11  NGQEFLTTLKELGKEKGIDEEVLFEAIEAALISAYKRNFGSAQNVRVTLSRETGHYHVYA 70

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           +  VVE+ E+   +ISL  AR   P  ++G V+   + P +FGR+A Q+AKQV++Q++RE
Sbjct: 71  IKTVVEDPEDEITEISLAQARTIKPDYEVGDVIEIEVTPANFGRIAAQTAKQVVVQRIRE 130

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER   Y EF  + G+I++G V+RVE  NV +DLG ++ V+   E I  E    GDR+K+
Sbjct: 131 AERGIIYEEFMSREGDILTGLVERVENHNVYIDLGKTEAVLTPAEQIPTETYAHGDRIKA 190

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+ +V++  +GPQ+++SRTHP  + +LF +EVPEI  GIV++K+V+R+PG+R+K+AV+S 
Sbjct: 191 YVVEVKKTNKGPQIVVSRTHPGLLKRLFELEVPEIQEGIVEIKSVAREPGNRSKIAVYSK 250

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D ++DPVG+CVG RG RVQ++V EL  EKIDIV WS + A F+ NAL PA V  V ++E 
Sbjct: 251 DENVDPVGSCVGHRGLRVQSIVDELGSEKIDIVKWSDNPAKFIANALSPAKVVSVAVNET 310

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
                V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E +
Sbjct: 311 EKVSRVVVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQ 352


>gi|134299807|ref|YP_001113303.1| transcription elongation factor NusA [Desulfotomaculum reducens
           MI-1]
 gi|134052507|gb|ABO50478.1| NusA antitermination factor [Desulfotomaculum reducens MI-1]
          Length = 384

 Score =  315 bits (806), Expect = 1e-83,   Method: Compositional matrix adjust.
 Identities = 155/337 (45%), Positives = 234/337 (69%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E L+    +  EK I  DV+L  +  ++  A +  +G++ + RV I+ +TGD  ++    
Sbjct: 4   EFLEALRDLEKEKGIAVDVLLEAIEAALLSAYKRNFGSLQNARVHIDRDTGDYKVYSQRA 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+   +ISL+ AR  DP  ++  VV D + P +FGR+A Q+AKQV++Q++REAER
Sbjct: 64  VVEEVEDDRVEISLEDARKIDPRFNLEDVVEDEVTPRNFGRIAAQTAKQVVVQRIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + EF ++ G+I++G V+R+E  NV ++LG ++ ++   E I  E+ R GDR+K+YI 
Sbjct: 124 NIIFEEFSNREGDILTGIVQRIENKNVFIELGKTEAILTPSEQIPNEDYRHGDRLKTYIV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +VR+  +GPQ+L+SRTHP  + +LF +EVPE+  G+V++K+++R+ G R+K+AV+S D +
Sbjct: 184 EVRKTTKGPQILVSRTHPGLLKRLFELEVPELQEGVVELKSIAREAGYRSKIAVYSKDEN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVGACVG +G RVQ +VTEL  EKIDI+ W+ D + +V ++L PA V  V + ED   
Sbjct: 244 IDPVGACVGPKGMRVQNIVTELNGEKIDIIKWNQDPSKYVASSLSPAKVVAVEVWEDEKV 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E
Sbjct: 304 ARVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSE 340


>gi|332976700|gb|EGK13538.1| N utilization substance A [Psychrobacter sp. 1501(2011)]
          Length = 495

 Score =  315 bits (806), Expect = 2e-83,   Method: Compositional matrix adjust.
 Identities = 181/484 (37%), Positives = 295/484 (60%), Gaps = 14/484 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADS-IQKAARSLYGTMSDI--RVEINPETGDISLFR 64
           E+L + + V+ EK ++ + +   + ++ +    + +Y    ++  RVEI+ +TGD   +R
Sbjct: 4   EILTVVETVSNEKGLNPEDIFEAIEEALVVSTKKRVYTEQPEVAVRVEIDRDTGDYDTYR 63

Query: 65  LLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VV  E+ E   CQ+++    + + SI  G +  + +  ++FGR+A   AKQVIIQK+
Sbjct: 64  YWTVVADEDHEMPACQLAISDLDENEWSI--GDIKEEQIESIEFGRIAATQAKQVIIQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER      F+ ++GE++ G VK+      I+DLG N++G + RD+ + RE LR   R
Sbjct: 122 REAERALTADAFEPRIGEMMYGEVKKQTRDGYIIDLGDNAEGYLSRDQMLPREQLRVKSR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           + + +Y V R+ RG Q+LLSRT P  ++ L + EVPEI   I++++ V+R PG RAK++V
Sbjct: 182 INAILYHVNRDNRGAQLLLSRTSPDMLIALMNKEVPEISEQIIEIRDVARQPGVRAKISV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGAC+GMRG+R+QAV +EL  E+ID++VWS D A ++I+AL PA V+ ++L
Sbjct: 242 KTNDHRIDPVGACIGMRGTRIQAVQSELDGERIDVIVWSDDPAQYIISALEPADVSSIIL 301

Query: 302 DEDVGRIEVI-VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           DED    ++I    +QL+ AIG +GQNVRLAS+LTG+ ++++ E E    +Q +     +
Sbjct: 302 DEDAKTADIIFTANDQLARAIGAQGQNVRLASELTGYKLNMMLEAEYLERQQNETKAYLE 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F   + VDE +A  LV  GF  +EE+A V +     IEG D++    IQ RA+E +   
Sbjct: 362 LFYNRLEVDEDLAQALVDVGFTSIEEVAYVPVETFYDIEGLDDDAIEMIQERAKEVVIAD 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSV---DDLLGWSENK 477
           ++  Q+ ++E   S+EL ++ G+ +     L +  I T++DLA  +V   +D+ G  E  
Sbjct: 422 ELVKQQNMKE--PSKELLTMDGMTTDWAYKLAQRDIITLDDLAEQAVFDLEDIEGLDEKT 479

Query: 478 GGNI 481
            G +
Sbjct: 480 AGEL 483


>gi|295399850|ref|ZP_06809831.1| transcription termination factor NusA [Geobacillus
           thermoglucosidasius C56-YS93]
 gi|312111638|ref|YP_003989954.1| NusA antitermination factor [Geobacillus sp. Y4.1MC1]
 gi|294978253|gb|EFG53850.1| transcription termination factor NusA [Geobacillus
           thermoglucosidasius C56-YS93]
 gi|311216739|gb|ADP75343.1| NusA antitermination factor [Geobacillus sp. Y4.1MC1]
          Length = 382

 Score =  314 bits (805), Expect = 2e-83,   Method: Compositional matrix adjust.
 Identities = 163/339 (48%), Positives = 229/339 (67%), Gaps = 3/339 (0%)

Query: 11  QIADAVA---YEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           Q+ DA+A    EK I ++VV+  +  +I  A +  +G   ++RV++N ETG I +F   E
Sbjct: 4   QLLDALADIIREKGISKEVVMEAIEAAIISAYKRNFGQAQNVRVDLNMETGTIRVFARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   QISL+ A+  DP+   G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVEEVTDPRLQISLEEAQRIDPNYQSGDVVELEVTPRDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R++   V V LG ++G++   E +  E  +P DR+K YI 
Sbjct: 124 SVIYAEFVDREEDIMTGIVQRIDPRFVYVSLGKTEGLLPASEQMPNETYKPHDRIKVYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+++R+ G R+K++V S +  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFELEVPEIYDGTVEIKSIAREAGDRSKISVHSDNPE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G RVQAVV EL  EKIDIV WS D   FV NAL PA V +V+++E+   
Sbjct: 244 VDPVGACVGPKGQRVQAVVEELNGEKIDIVRWSADPVEFVANALSPAKVLRVIVNEEQKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             VIVP  QLSLAIG+RGQN RLA++LT W IDI +E E
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTNWKIDIKSESE 342


>gi|292669518|ref|ZP_06602944.1| transcription termination factor NusA [Selenomonas noxia ATCC
           43541]
 gi|292648841|gb|EFF66813.1| transcription termination factor NusA [Selenomonas noxia ATCC
           43541]
          Length = 377

 Score =  313 bits (803), Expect = 3e-83,   Method: Compositional matrix adjust.
 Identities = 155/339 (45%), Positives = 227/339 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E LQ    +AYEK ID +++   +  ++  A R  +G+  ++R+ ++ ETG   +F +  
Sbjct: 14  EFLQTLKELAYEKGIDEELLFETIEAALISAYRRNFGSAQNVRIALSRETGAFHVFAIKT 73

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEE EN    ISL  AR  +P   +G V+   + P +FGR+A Q+AKQV++Q++REAER
Sbjct: 74  VVEEAENDITDISLAQARAINPDYAVGDVIEIEMTPANFGRIAAQTAKQVVMQRLREAER 133

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+ ++  +I++G V+RVE  NV VD+G ++ V+   E +  E    GD +++YI 
Sbjct: 134 GIVYEEYMNRSADIVTGIVQRVEGRNVFVDIGRAEAVLMATEQMPTETYNYGDTLRAYII 193

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+R  RGPQ++LSRTHP  + KLF ++VPE+  G+V++K+++R+ GSR+K+AV SS+  
Sbjct: 194 EVKRTSRGPQIMLSRTHPGLLKKLFELQVPEMQEGVVEIKSIAREAGSRSKIAVASSEER 253

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DP+GACVG    RVQAVV EL  EKIDIV WS D AT++ N+L PA V  V ++E    
Sbjct: 254 VDPIGACVGPHYMRVQAVVDELAGEKIDIVKWSEDPATYIANSLNPAKVISVAVNEAEKV 313

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E +
Sbjct: 314 SRVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQ 352


>gi|304437178|ref|ZP_07397139.1| transcription termination factor NusA [Selenomonas sp. oral taxon
           149 str. 67H29BP]
 gi|304369840|gb|EFM23504.1| transcription termination factor NusA [Selenomonas sp. oral taxon
           149 str. 67H29BP]
          Length = 379

 Score =  313 bits (803), Expect = 3e-83,   Method: Compositional matrix adjust.
 Identities = 157/347 (45%), Positives = 230/347 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E LQ    +AYEK ID +++   +  ++  A R  +G   ++R+ ++ ETG   +F +  
Sbjct: 16  EFLQTLKELAYEKGIDEELLFETIEAALISAYRRNFGAAQNVRISLSRETGAFHVFAIKT 75

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EVE+   +I L  AR  +P   +G VV   + P +FGR+A Q+AKQV++Q++REAER
Sbjct: 76  VVDEVESDVTEIGLAQARAINPDYVVGDVVEIEMTPANFGRIAAQTAKQVVMQRLREAER 135

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+ ++  EI++G V+RVE  NV VD+G ++ V+   E +  E    GD V++YI 
Sbjct: 136 GIVYEEYMNRSSEIVTGIVQRVEGHNVFVDIGRAEAVLMATEQLPNETYNYGDTVRAYII 195

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+R  RGPQ++LSRTHP  + KLF ++VPEI  G+V++++++R+ GSR+K+AV+SS+  
Sbjct: 196 EVKRTSRGPQIMLSRTHPGLLKKLFELQVPEIQEGVVEIRSIAREAGSRSKVAVWSSEER 255

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DP+GACVG    RVQAVV EL  EKIDIV WS D AT++ N+L PA V  V ++E    
Sbjct: 256 VDPIGACVGPHYMRVQAVVDELAGEKIDIVKWSDDPATYIANSLNPAKVISVAVNEAEKI 315

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
             V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E +     Q D
Sbjct: 316 SRVVVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSETQARETEQAD 362


>gi|332968911|gb|EGK07958.1| N utilization substance A [Kingella kingae ATCC 23330]
          Length = 499

 Score =  313 bits (803), Expect = 4e-83,   Method: Compositional matrix adjust.
 Identities = 187/508 (36%), Positives = 314/508 (61%), Gaps = 30/508 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+L +A+A+A EK++D +VV   +  ++  AA+        ++ V I+ ETG+    R  
Sbjct: 4   EILALAEALASEKNVDPNVVFEALETALGIAAKKKADREHMNLEVRIHRETGEYKTVRKW 63

Query: 67  EVVEEVENYT---CQISLKVARDRDPSIDI--GGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +VE++ +YT    + +++  ++  P I+I  G    + +P   FGR A Q+AKQ+I+QK
Sbjct: 64  LIVEDL-DYTYPELEKTIEQIQEEQPGIEIEVGDYYEEEIPNEAFGRQAAQTAKQIILQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS-DGVIRRDETISRENLRPGD 180
           +R+AER++    F     +++ GTVKRVE   ++V++    D +I R+  + REN R GD
Sbjct: 123 IRDAEREQILNGFLANREDVVVGTVKRVERHGIVVEIAPKLDALIPREHMLPRENYRGGD 182

Query: 181 RVKSYIYDVRREQRG-PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           ++++    V     G  QV+LSR   +F+ KLF  EVPEI +GI++++ V+RDPG RAK+
Sbjct: 183 KIRALFLKVEEFNGGRKQVMLSRASTEFLRKLFEQEVPEIRDGILEIREVARDPGQRAKI 242

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV ++D  IDP G C+G+RGSRV AV  E+  E+ID+V+WS D+A FVINAL PA V+++
Sbjct: 243 AVHTNDQRIDPQGTCIGVRGSRVNAVSNEIGGERIDVVLWSDDTAQFVINALSPAQVSRI 302

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE-DSINRQKDFNER 358
           V+++++  ++VIV ++QL+LAIGR GQNVRLA++LTG  ++I+TE+E +  N +++   R
Sbjct: 303 VINDEMQSVDVIVAEDQLALAIGRGGQNVRLAAELTGLQLNIMTEQEAEQRNAEEELALR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
              FM  +  DE +A  LVA  F  +EE+A V +S++  ++G D+ TA  ++ +ARE L 
Sbjct: 363 -DLFMSQLGADESVALALVAAEFTSIEEVAFVPMSDLTDLDGVDDATAENLRNKAREVLL 421

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             ++  ++K+    ++++L ++ G+D  +   L +  I   +DLA  S+D+L+  +    
Sbjct: 422 QTELEAEEKLN--SIADDLRNLDGLDDDMLRDLVDANITNRDDLAELSIDELIEIT---- 475

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHAR 506
                        G  K++ E +I+ AR
Sbjct: 476 -------------GVSKEEAEQVILTAR 490


>gi|20807843|ref|NP_623014.1| transcription elongation factor NusA [Thermoanaerobacter
           tengcongensis MB4]
 gi|20516405|gb|AAM24618.1| Transcription terminator [Thermoanaerobacter tengcongensis MB4]
          Length = 346

 Score =  313 bits (803), Expect = 4e-83,   Method: Compositional matrix adjust.
 Identities = 153/338 (45%), Positives = 228/338 (67%), Gaps = 1/338 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E ++  +++  EK I ++ +   +  ++  A R  YGT  ++++ ++ ETGD+ ++    
Sbjct: 4   EFIEALNSICEEKGIPKETMFEAIEAALVSAYRKNYGTAQNVKIVMDRETGDVKVYAQKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV+N   +ISL+ AR  +    IG +V   + P +FGR+A Q+AKQV+IQ++REAER
Sbjct: 64  VVEEVKNDLLEISLEDARKINKKYQIGDIVDIEVTPKNFGRIAAQNAKQVVIQRIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF  K  E+++G V R    NV+++LG  + ++   E I  E   PGDR+K YI 
Sbjct: 124 NVIYEEFLAKETEVVTGIVTRAAKNNVLINLGRVEAILTPSEQIPGETFSPGDRIKVYIV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V++  +GPQ+++SR+HP  + +LF +E PEI  GIV++++++R+PGSR K+AVFS D +
Sbjct: 184 EVKKTTKGPQIIISRSHPGLVKRLFELESPEIQQGIVEIRSIAREPGSRTKMAVFSRDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVG 306
           +DP+GACVG +GSRVQAVV EL+ EKIDIV WS     F++NAL PA    V ++DE   
Sbjct: 244 VDPIGACVGYKGSRVQAVVNELKGEKIDIVKWSSKPQEFIMNALSPAKAISVEIVDEKEK 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E
Sbjct: 304 VARVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSE 341


>gi|282882060|ref|ZP_06290701.1| transcription termination factor NusA [Peptoniphilus lacrimalis
           315-B]
 gi|300813713|ref|ZP_07094033.1| transcription termination factor NusA [Peptoniphilus sp. oral taxon
           836 str. F0141]
 gi|281298090|gb|EFA90545.1| transcription termination factor NusA [Peptoniphilus lacrimalis
           315-B]
 gi|300512170|gb|EFK39350.1| transcription termination factor NusA [Peptoniphilus sp. oral taxon
           836 str. F0141]
          Length = 430

 Score =  313 bits (802), Expect = 4e-83,   Method: Compositional matrix adjust.
 Identities = 149/334 (44%), Positives = 228/334 (68%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E ++  + +  EK I +D++   +  ++  + +  YGT  ++ V+++ ETG+I LF    
Sbjct: 4   EFIEALNEIEKEKGISKDIIFDALEQALVSSYKKNYGTSQNVIVKMDRETGEIKLFAYKN 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEVEN   +ISL+ A+  D +  +G   +  + P +FGR+A Q+AKQV+IQ++++AER
Sbjct: 64  IVEEVENPEIEISLEDAKKIDINFKLGDNYTKEIHPKNFGRIAAQTAKQVVIQRIKDAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           D  + +F  K  E+++G V+R  +GNV VDLG ++G++  +E I  E+ + GDR K  + 
Sbjct: 124 DVIFEDFTKKERELLTGLVQRSNHGNVYVDLGKTEGILLPNEQIKGESYKHGDRYKMLLL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V++  +GPQV+LSR+HP  + +LF +EVPEI  GIV++ ++SR+ GSR K+AVFS D  
Sbjct: 184 EVKKSSKGPQVILSRSHPDLIKRLFELEVPEINEGIVEIYSISREAGSRTKIAVFSLDPE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DP+GACVG +G RV A+V EL +EKIDIV++  D   F+ N+L P+ V KV ++ED   
Sbjct: 244 VDPLGACVGYKGQRVNAIVDELSNEKIDIVIYQKDPQEFIANSLSPSKVEKVFINEDDKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
              IVP  QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 304 ALAIVPDYQLSLAIGKEGQNVRLAAKLTGWKIDI 337


>gi|297617185|ref|YP_003702344.1| transcription termination factor NusA [Syntrophothermus lipocalidus
           DSM 12680]
 gi|297145022|gb|ADI01779.1| transcription termination factor NusA [Syntrophothermus lipocalidus
           DSM 12680]
          Length = 350

 Score =  313 bits (802), Expect = 4e-83,   Method: Compositional matrix adjust.
 Identities = 146/339 (43%), Positives = 232/339 (68%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+Q    +  E+ I ++V++  +  +++ A +  +G++ ++ V+++ E+G++ ++    
Sbjct: 4   ELIQALGEIEKERGIPKEVLVEAIESALRTAYKKNFGSLQNVTVQMDMESGEVKVYAKKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V E V++   ++ L  AR+  P ++IG  +   + P DFGR+A Q+AKQV+IQ++REAER
Sbjct: 64  VAETVKDERLEVRLAEAREIYPEVEIGDEIDVEVTPADFGRIAAQTAKQVVIQRLREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              + EF ++ GEI++GTV+RVE   VI++LG ++ ++   + I  E   PG R+K+YI 
Sbjct: 124 SIVFNEFSNRAGEIVTGTVQRVEQKTVIINLGRTEALMGSQDQIPNEAYEPGQRIKAYIS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+R  +GPQ+ LSRTHP F+ +LF +EVPEIY G+V++K+++R+ GSR+K++V+S +  
Sbjct: 184 EVKRSAKGPQIFLSRTHPNFLKRLFELEVPEIYEGLVEIKSIAREAGSRSKISVYSRNEK 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G RVQ +V EL  EKIDI+ WSPD   ++ NAL P+ V  V   E    
Sbjct: 244 VDPVGACVGPKGLRVQNIVRELNGEKIDIIKWSPDIEQYIANALSPSKVVSVEASESEKM 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E +
Sbjct: 304 ARVVVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQ 342


>gi|225181381|ref|ZP_03734825.1| NusA antitermination factor [Dethiobacter alkaliphilus AHT 1]
 gi|225167962|gb|EEG76769.1| NusA antitermination factor [Dethiobacter alkaliphilus AHT 1]
          Length = 396

 Score =  313 bits (802), Expect = 5e-83,   Method: Compositional matrix adjust.
 Identities = 157/356 (44%), Positives = 241/356 (67%), Gaps = 1/356 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E L   DA+  EK + ++V+   +  ++  A +  +   +++RV++N E+G+I ++  LE
Sbjct: 4   EFLAAMDAIEKEKGVKKEVLFEAIEAALVSAYKRNFNAAANVRVQLNRESGEIKVYTRLE 63

Query: 68  VVEEVEN-YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           VVEE  N    +ISL+ A+  D   + G +V   + P +FGR+A Q+AKQV+IQ++REAE
Sbjct: 64  VVEEESNDPQLEISLQDAQKIDSRYEPGEIVEKEVTPKNFGRIAAQTAKQVVIQRIREAE 123

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R+  + E+ D+  +II+G V+R+E  NVI+DLG ++ V+   E +  ++ R  +RVK+YI
Sbjct: 124 REIVFDEYIDREEDIITGIVQRMEQKNVIMDLGKTEAVLLPTEQMPGDDYRQSERVKAYI 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V++  +GPQ+ +SRTHP  + +LF +EVPEI++G V++K+V+R+ G R+KLAV+S + 
Sbjct: 184 TEVKKTSKGPQIFVSRTHPGLLKRLFELEVPEIFDGTVEIKSVAREAGYRSKLAVYSKNK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVG +G+RVQA+VTELR EKIDIV W  D   FV N+L PA V  V L ++  
Sbjct: 244 DVDPVGACVGPKGARVQAIVTELRGEKIDIVKWDEDPVIFVANSLSPAKVMSVSLHQEQK 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
              V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E + +  +     ER++ F
Sbjct: 304 VASVVVPDYQLSLAIGKEGQNARLAAKLTGWKIDITSESQAAERQGLPVEERSELF 359


>gi|294788742|ref|ZP_06753983.1| transcription termination/antitermination protein NusA [Simonsiella
           muelleri ATCC 29453]
 gi|294483224|gb|EFG30910.1| transcription termination/antitermination protein NusA [Simonsiella
           muelleri ATCC 29453]
          Length = 500

 Score =  313 bits (801), Expect = 6e-83,   Method: Compositional matrix adjust.
 Identities = 194/520 (37%), Positives = 314/520 (60%), Gaps = 32/520 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+L +A+A+A EK+++ +VV   +  ++  AA+        D+ V I+ +TG+    R  
Sbjct: 4   EILALAEALASEKNVEPNVVFEALETALGIAAKKKADREHMDLEVRIHRDTGEYRTVRKW 63

Query: 67  EVVEEVENYT---CQISLKVARDRDPSIDI--GGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +VE++ +YT    + +++  ++  P IDI  G    + +P   FGR A Q+AKQ+I+QK
Sbjct: 64  LIVEDL-DYTYPELEKTIEQIQEEIPGIDIQVGDYYEEDIPNEAFGRQAAQTAKQIILQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS-DGVIRRDETISRENLRPGD 180
           +R+AER++    F     +I+ GTVKRVE   ++V++    D +I R++ + REN R GD
Sbjct: 123 IRDAEREQILNAFLATREDIVVGTVKRVERHGIVVEIAPKLDALIPREQALPRENYRSGD 182

Query: 181 RVKSYIYDVRREQRG-PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           ++++  + V     G  QV+LSR+  +F+ KLF  EVPEI +G+++++ VSRDPG RAK+
Sbjct: 183 KIRALFWKVEELNGGRKQVMLSRSSGEFLRKLFEQEVPEIADGLLEIREVSRDPGQRAKI 242

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S+D  IDP G C+G+RGSRV AV  E+  E+ID+V+WS D+  F+INAL PA V ++
Sbjct: 243 AVKSNDQRIDPQGTCIGVRGSRVNAVSNEIGGERIDVVLWSDDAGDFIINALSPANVGRI 302

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT-EEEDSINRQKDFNER 358
           ++DE+    +VIV ++QL+LAIGR GQNVRLA+ LTGW ++I+T +E +  N  +D   R
Sbjct: 303 IIDEEKHACDVIVEEDQLALAIGRGGQNVRLAADLTGWQLNIMTVKEAEERNAAEDAAIR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            + FM  +N+ E IA++LV EGF  +EE+A V I E+  IE    +   +I+ +AR+ + 
Sbjct: 363 -EIFMSQMNLSEDIANILVQEGFTSIEEVAYVAIDELQEIEDLSADDVDDIRTKARDAVL 421

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
              +  ++K+ +  + ++L ++ G+D  +   L E  I   +DLA  S+D+L+  +    
Sbjct: 422 KAALEAEEKLNQ--IDQDLKNLDGMDEDMLRDLAEANITHRDDLAELSLDELIEIT---- 475

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
                        G  KD+ E +I+ AR    W   E  A
Sbjct: 476 -------------GVSKDEAEKVIMAARAH--WFADETNA 500


>gi|323705403|ref|ZP_08116978.1| transcription termination factor NusA [Thermoanaerobacterium
           xylanolyticum LX-11]
 gi|323535305|gb|EGB25081.1| transcription termination factor NusA [Thermoanaerobacterium
           xylanolyticum LX-11]
          Length = 345

 Score =  313 bits (801), Expect = 6e-83,   Method: Compositional matrix adjust.
 Identities = 151/337 (44%), Positives = 227/337 (67%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E ++  + +  +K I ++ +   +  ++  A +  YGT  +++V+++ ETGD+ ++    
Sbjct: 4   EFIEALEQICKDKGIPKETMFEAIEAALVSAYKKNYGTAQNVKVKMDRETGDVKVYAQKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE V N   +ISL+ A+       +G  V   + P  FGR+A Q+AKQV++Q++REAER
Sbjct: 64  VVENVYNDLLEISLEEAQKLSKKYLVGDTVDIEVTPKSFGRIAAQNAKQVVVQRIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y +F  K  EI++G V+R+E  NV+VDLG ++  +  +E I  E  + GDR+K YI 
Sbjct: 124 GIVYEDFLSKESEIVTGIVERIEKKNVLVDLGKTEATLTPNEQIPNETYKHGDRIKVYIV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V++  +GPQ+L+SR+HP  + +LF MEVPE+  GIV+++++SR+PGSR K+AV++ D +
Sbjct: 184 EVKKTTKGPQILISRSHPGLVKRLFEMEVPELQQGIVEIRSISREPGSRTKMAVYAKDEN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G+RVQAVV EL+ EKIDIV WS     FV NAL PA V  + +DE    
Sbjct: 244 VDPVGSCVGYKGARVQAVVNELKGEKIDIVKWSSKPQEFVTNALSPAKVLSIDIDEKEKI 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+ GQNVRLA++LTGW IDI +E
Sbjct: 304 ARVVVPDYQLSLAIGKEGQNVRLAAKLTGWKIDITSE 340


>gi|167037624|ref|YP_001665202.1| transcription elongation factor NusA [Thermoanaerobacter
           pseudethanolicus ATCC 33223]
 gi|307264912|ref|ZP_07546474.1| transcription termination factor NusA [Thermoanaerobacter wiegelii
           Rt8.B1]
 gi|320116039|ref|YP_004186198.1| transcription termination factor NusA [Thermoanaerobacter brockii
           subsp. finnii Ako-1]
 gi|326389438|ref|ZP_08211005.1| NusA antitermination factor [Thermoanaerobacter ethanolicus JW 200]
 gi|166856458|gb|ABY94866.1| NusA antitermination factor [Thermoanaerobacter pseudethanolicus
           ATCC 33223]
 gi|306920170|gb|EFN50382.1| transcription termination factor NusA [Thermoanaerobacter wiegelii
           Rt8.B1]
 gi|319929130|gb|ADV79815.1| transcription termination factor NusA [Thermoanaerobacter brockii
           subsp. finnii Ako-1]
 gi|325994443|gb|EGD52868.1| NusA antitermination factor [Thermoanaerobacter ethanolicus JW 200]
          Length = 346

 Score =  312 bits (800), Expect = 7e-83,   Method: Compositional matrix adjust.
 Identities = 155/338 (45%), Positives = 228/338 (67%), Gaps = 1/338 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E ++  +++  EK I +D +   +  ++  A +  YGT  ++++ ++ ETGD+ ++    
Sbjct: 4   EFIEALNSICEEKGIPKDTMFEAIEAALVSAYKKNYGTSQNVKIVMDRETGDVKVYAQKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV N   +ISL+ AR  +    IG +V   + P +FGR+A Q+AKQV+IQ++REAER
Sbjct: 64  VVEEVYNDLLEISLEEARKINKKYQIGDIVDIEVTPKNFGRIAAQNAKQVVIQRIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF  K  E+++G V RV+  NV+++LG  + ++   E I  E   PGDRVK YI 
Sbjct: 124 NVIYEEFLAKETEVVTGIVTRVDKKNVLINLGRVEAILGPSEQIPGETFAPGDRVKVYIV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V++  +GPQ+L+SR+HP  + +LF +E PEI  GIV++++++R+ GSR K+AVFS D +
Sbjct: 184 EVKKTTKGPQILISRSHPGLVKRLFELESPEIQQGIVEIRSIAREAGSRTKMAVFSRDEN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVG 306
           +DPVGACVG +G+RVQAVV EL+ EKIDIV WS     F++NAL PA    + +LDE   
Sbjct: 244 VDPVGACVGYKGARVQAVVNELKGEKIDIVKWSSKPQEFIMNALSPAKALSIEILDEKEK 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E
Sbjct: 304 VARVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSE 341


>gi|325267087|ref|ZP_08133756.1| N utilization substance A [Kingella denitrificans ATCC 33394]
 gi|324981440|gb|EGC17083.1| N utilization substance A [Kingella denitrificans ATCC 33394]
          Length = 499

 Score =  312 bits (800), Expect = 7e-83,   Method: Compositional matrix adjust.
 Identities = 184/472 (38%), Positives = 295/472 (62%), Gaps = 11/472 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E+L + +A+A EK+++ DVV   +  ++  AA+        ++ V IN +TG+    R  
Sbjct: 4   EILALVEALASEKNVEPDVVFEALEVALGIAAKKKADREHMNLEVRINRDTGEYRTVRKW 63

Query: 67  EVVEEVENYT---CQISLKVARDRDPSIDI--GGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +VE++ +YT    + +++  ++  P IDI  G    + +P   FGR A Q+AKQ+I+Q+
Sbjct: 64  LIVEDL-DYTYPELEKTIEQIQEEIPGIDINVGDYFEEDIPNEAFGRQAAQTAKQIILQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS-DGVIRRDETISRENLRPGD 180
           +R+AER++    F     +I+ GTVKRVE   ++V+L    D +I RD+ + REN R GD
Sbjct: 123 IRDAEREQILNAFLATREDIVVGTVKRVERHGIVVELAPKLDALIPRDQMLPRENYRGGD 182

Query: 181 RVKSYIYDVRREQRG-PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           ++++    V     G  Q+LLSRT  +F+ KLF  EVPEI +G++ ++ V+RDPG RAK+
Sbjct: 183 KIRALFLRVEEFNGGRKQILLSRTSGEFLRKLFEQEVPEIADGLLDIREVARDPGQRAKI 242

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S+D  IDP G C+G+RGSRV AV  EL  E+ID+V+WS D+A FVINAL PA V+++
Sbjct: 243 AVKSNDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSDDTADFVINALSPAQVSRI 302

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           V+DE+   ++VIV ++QL+LAIGR GQNVRLA++LTG  ++I+T +E     +++     
Sbjct: 303 VIDEEKNAVDVIVTEDQLALAIGRGGQNVRLAAELTGLQLNIMTVQEAEQRSEEEAAALR 362

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + F   +  DE +A  LV   F  +EE+A V +S++  IE  D+E A  ++ +AR+ L  
Sbjct: 363 ELFTSQLGADETVAQALVDAEFTSIEEVAFVPMSDLTDIEEIDDELAETLRAKARDVLLQ 422

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
            ++  ++K+    V+++L  + G+D  +   L +  I   EDLA  S+D+L+
Sbjct: 423 TELAAEEKLN--SVADDLRELEGVDDDMLRDLVDANITNREDLAELSIDELI 472


>gi|301167102|emb|CBW26681.1| transcription pausing; L factor [Bacteriovorax marinus SJ]
          Length = 467

 Score =  312 bits (800), Expect = 8e-83,   Method: Compositional matrix adjust.
 Identities = 167/418 (39%), Positives = 263/418 (62%), Gaps = 4/418 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL ++ + +  E+ I++D+V+  +  +    AR  YG   +     N    DI +++   
Sbjct: 4   ELGRVIETLGKERGIEKDIVVKAVEQAFLVTARKKYGIQGEYETRYNDGDDDIEIYQYKN 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +I+L  A++ D  ++IG  +   +   +F RV VQ+A+Q+I QKVR+AER
Sbjct: 64  VVDEVRDPIVEITLADAKELDEEVEIGDQIGIKIENPNFSRVDVQTARQIIFQKVRDAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + EFK K GE+++G  +R E GN++VDLG +D V+ R E I  EN +PGDR+++++ 
Sbjct: 124 EILFAEFKHKEGELVTGIARRYERGNIVVDLGKADAVLSRREVIPGENFKPGDRIQAFLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V    RGP++ LSRT P F+VKLF +EVPEI +G +++K+ +R+PG RAK+AV S D  
Sbjct: 184 EVVMTNRGPEIRLSRTSPLFLVKLFELEVPEIQDGTIEIKSAAREPGQRAKIAVTSVDKD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVGACVGM+GSRVQ VV EL+ EKIDIV W+ D  TF   AL P+ +T + +D +   
Sbjct: 244 IDPVGACVGMKGSRVQNVVNELQGEKIDIVKWADDVDTFARAALAPSEITNIQIDHEDHT 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           ++V+V ++QLSLAIGRRGQNVRLA+ L+G+ I+II++       Q+   +     +Q  +
Sbjct: 304 MDVVVEEDQLSLAIGRRGQNVRLAAMLSGYKINIISK----TKLQERIQKSVANLVQISS 359

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           + + +A ++V  G   + ++A    +E+A +   D E A  I       ++  +I LQ
Sbjct: 360 ITDTLAQVMVQNGIQAIGDIAAADATELAELLEVDAEQATGIINDTIAAIDAGNIQLQ 417


>gi|83589895|ref|YP_429904.1| NusA antitermination factor [Moorella thermoacetica ATCC 39073]
 gi|83572809|gb|ABC19361.1| NusA antitermination factor [Moorella thermoacetica ATCC 39073]
          Length = 362

 Score =  312 bits (799), Expect = 1e-82,   Method: Compositional matrix adjust.
 Identities = 154/339 (45%), Positives = 234/339 (69%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E +Q    +  EK I+ D++L  +  ++  A +  +G++ ++RV+I  +TG+I +    +
Sbjct: 4   EFIQALRDLEREKGINADILLEAIEAALISAYKKNFGSLQNVRVDIQRDTGEIKVLAQRQ 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISL+ AR  +   ++G +V   + P DFGR+A Q+AKQV++Q++REAER
Sbjct: 64  VVEEVTDPRQEISLEEARAINSKYELGDIVEKEVTPRDFGRIAAQTAKQVVVQRIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF  +  ++++G V+R E  N+I+DLG ++ ++   E    E  R G+R+K Y+ 
Sbjct: 124 GLIYEEFIGRENDLVTGVVQRQEGKNIILDLGRAEAILLPSEQSPGETYRQGERLKVYVL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +VR+  +GPQ+L+SRTHP  + +LF +EVPEI++GIV++K V+R+PG+R+K+AV S D  
Sbjct: 184 EVRKTNKGPQILVSRTHPGLIKRLFELEVPEIHDGIVEIKGVAREPGARSKIAVHSRDEK 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G+RVQAVV ELR EK+DI+ WS D A +V N+L PA V  V +DE+   
Sbjct: 244 VDPVGSCVGPKGARVQAVVQELRGEKVDIIKWSDDPAVYVANSLSPARVLDVTVDEENKV 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            +VIVP  QLSLAIG+ GQN RLA+++TGW IDI  E E
Sbjct: 304 SQVIVPDNQLSLAIGKEGQNARLAARITGWKIDIKPESE 342


>gi|262374026|ref|ZP_06067303.1| transcription termination factor NusA [Acinetobacter junii SH205]
 gi|262311037|gb|EEY92124.1| transcription termination factor NusA [Acinetobacter junii SH205]
          Length = 494

 Score =  312 bits (799), Expect = 1e-82,   Method: Compositional matrix adjust.
 Identities = 197/487 (40%), Positives = 296/487 (60%), Gaps = 19/487 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY--GTMSD---IRVEINPETGDISL 62
           E+L +A+ V+ EK + R+ +   +  ++  A +  +  GT S+   +RVEI+ +TGD   
Sbjct: 4   EILTVAETVSNEKGVSREAIFQALEQALVAATKKKFYEGTHSEEAQLRVEIDRKTGDYRT 63

Query: 63  FRLLEVV--EEVENYTCQISLKVARDRDPS-IDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           FR   VV  E+ E   CQ ++    D DPS   IG V    +  ++FGR+A Q AKQVI+
Sbjct: 64  FRQWTVVADEDHEMPACQDAIS---DVDPSKWSIGDVRELEVESIEFGRIAAQIAKQVIV 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           QK+REAER      ++ KVGE+I G VK+      I+DLG N++  + R+ETI +E LRP
Sbjct: 121 QKIREAERALVADAYESKVGELIYGEVKKQTKDGFIIDLGDNAEAYLAREETIHKEILRP 180

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
             R+ + +Y V RE RG Q+LLSR+ P+ ++ L   E+PEI   I+++KA +R PG RAK
Sbjct: 181 KQRINAILYSVNREGRGAQLLLSRSRPEMLIALMKKEIPEISEEIIEIKAAARQPGVRAK 240

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A ++ +AL PA V+ 
Sbjct: 241 IAVKTNDHRIDPVGACIGMRGTRIQAVQQELNGERIDVVVWSDDPAQYIASALEPADVSG 300

Query: 299 VVLDEDVGRIEVI-VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +VLDED    ++I    +QL+ AIG +GQNVRLAS+LTG+ +D++ EEE    +Q +  +
Sbjct: 301 IVLDEDARSADIIFATNDQLARAIGSQGQNVRLASELTGYKLDMMLEEEYRARQQNEAQQ 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F+  +++DE +A  LV  GF  +EE+A V       IE  + +    +Q RA+E  
Sbjct: 361 YLDMFVSRLDIDEDLAMALVEMGFTSLEEIAYVPAETFDEIE-LEADLVELLQSRAKEAA 419

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWS 474
               +  Q+ I+E   S EL  + G+ ++I  AL   G+ T++DLA  + DD+    G  
Sbjct: 420 LTDALKQQENIQE--PSAELLGMEGMTTEIAYALAARGVITIDDLADQATDDISDIEGLG 477

Query: 475 ENKGGNI 481
            +K G +
Sbjct: 478 HDKAGQL 484


>gi|294670565|ref|ZP_06735444.1| hypothetical protein NEIELOOT_02287 [Neisseria elongata subsp.
           glycolytica ATCC 29315]
 gi|291307690|gb|EFE48933.1| hypothetical protein NEIELOOT_02287 [Neisseria elongata subsp.
           glycolytica ATCC 29315]
          Length = 457

 Score =  311 bits (798), Expect = 1e-82,   Method: Compositional matrix adjust.
 Identities = 187/448 (41%), Positives = 283/448 (63%), Gaps = 17/448 (3%)

Query: 48  DIRVEINPETGDISLFRLLEVVEEVENYT---CQISLKVARDRDP--SIDIGGVVSDPLP 102
           D RVEI+  TG+   FR   +V + E+YT    + +++  ++  P  +I IG    + + 
Sbjct: 2   DARVEIDRNTGEHRTFRRWLIVAD-EDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQIE 60

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GN 160
              FGR A  +AKQ+I+Q++R+AER++   +F     +I+ GTVKRVE   +IV+L  G 
Sbjct: 61  NEGFGRQAAMTAKQIILQRIRDAEREKVLNDFLATREDIVIGTVKRVERHGIIVELVPGK 120

Query: 161 SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEV 216
            D +I RD++I REN R GDR+++    +R E+ G     QV+LSRT  +F+ KLF  EV
Sbjct: 121 LDALIPRDQSIPRENFRSGDRIRALF--LRVEEIGQSGRKQVILSRTSREFLAKLFEQEV 178

Query: 217 PEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDI 276
           PEI +G+++++  +RDPG RAK+AV ++D  IDP G C+G+RGSRV AV  E+  E+ID+
Sbjct: 179 PEIADGLLEIREAARDPGHRAKIAVKANDQRIDPQGTCIGVRGSRVNAVTNEIGGERIDV 238

Query: 277 VVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTG 336
           V+WSPD+A FVINAL PA V+++V+DED   ++VIV ++QL+LAIGR GQNVRLA+ LTG
Sbjct: 239 VLWSPDTAQFVINALSPAEVSRIVIDEDHHAVDVIVAEDQLALAIGRGGQNVRLAADLTG 298

Query: 337 WTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIA 396
           W ++I+T  E       +       F + ++VDE  A +LV EGFA +EE+A V   E+ 
Sbjct: 299 WQLNIMTITEAEERHAAEDAALRSLFTEHLDVDEETADVLVQEGFASLEEIAYVPSEELE 358

Query: 397 SIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGI 456
            I GFD  T   ++ RAR+ +    +  ++K+ E  ++E+L ++ GID  +   L + GI
Sbjct: 359 EI-GFDAATVDTLRNRARDAILTQAMAQEEKLEE--IAEDLRTLDGIDEDLLRDLAQAGI 415

Query: 457 KTMEDLAGCSVDDLLGWSENKGGNIEKF 484
            T + LA  S+D+L   +  + G  EK 
Sbjct: 416 TTRDGLAELSIDELREITGVEPGEAEKI 443


>gi|206602206|gb|EDZ38688.1| Transcription termination factor (NusA) [Leptospirillum sp. Group
           II '5-way CG']
          Length = 452

 Score =  311 bits (798), Expect = 1e-82,   Method: Compositional matrix adjust.
 Identities = 174/432 (40%), Positives = 269/432 (62%), Gaps = 25/432 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL + D +  EK I ++ ++  +  ++  AAR  YG   + +VEINP TG++ + ++  
Sbjct: 5   ELLSVIDQLHREKGISQETLIVALESALLAAARKRYGGGDNFQVEINPRTGEVQVLQIRR 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VE+VE+ + +ISL  A + DP  ++G  +   L   DFGR+A Q+AKQV+ QKVREAE 
Sbjct: 65  IVEQVESPSEEISLAEALESDPEAEVGDEIGSYLEIDDFGRIAAQAAKQVMFQKVREAEW 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           D    EF  + G+I++G +   E  N IVDLG ++ V+   E + RE+ R GDR+K+ + 
Sbjct: 125 DVVTKEFGGRQGDIVNGVIIGHERKNYIVDLGKTEAVLPLREQMPRESFRRGDRIKALLL 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           D+R   RGPQ++LSRTHP F+ +LF  EVPEI  GI++V+ V R+PG RAK+AV+S D +
Sbjct: 185 DMRTTSRGPQLVLSRTHPDFVSRLFEKEVPEIAEGILEVRNVVREPGERAKIAVYSRDPN 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG++G RVQAVV EL  EK+DI+ WSPD +TF+  AL PA   +V + +D+G 
Sbjct: 245 VDPVGSCVGVKGVRVQAVVRELHGEKVDIIEWSPDPSTFIARALSPAKAVRVSI-KDMGT 303

Query: 308 ---IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF-- 362
                V+V   QLSLAIGRRG NVRLA++LTGW +DI +E +  +  +   +ER +    
Sbjct: 304 EKVATVVVQDSQLSLAIGRRGHNVRLAAKLTGWKVDIFSETQ--MQSEAGLDERAERVAS 361

Query: 363 -----------MQAINVDEI------IAHLLVAEGFADVEELACVKISEIASIEGFDEET 405
                         + ++++      +A +L   GF  ++ +A   +  I+++  F  +T
Sbjct: 362 LAETLGSQSGDTSLLRIEDLPGVGGNMAEILRDAGFDTLQAIAHASVEAISALPKFGPKT 421

Query: 406 AVEIQGRAREYL 417
           A ++   A+++L
Sbjct: 422 AAKLIQTAQDFL 433


>gi|167040285|ref|YP_001663270.1| transcription elongation factor NusA [Thermoanaerobacter sp. X514]
 gi|300914369|ref|ZP_07131685.1| transcription termination factor NusA [Thermoanaerobacter sp. X561]
 gi|307724395|ref|YP_003904146.1| transcription termination factor NusA [Thermoanaerobacter sp. X513]
 gi|166854525|gb|ABY92934.1| NusA antitermination factor [Thermoanaerobacter sp. X514]
 gi|300889304|gb|EFK84450.1| transcription termination factor NusA [Thermoanaerobacter sp. X561]
 gi|307581456|gb|ADN54855.1| transcription termination factor NusA [Thermoanaerobacter sp. X513]
          Length = 346

 Score =  311 bits (798), Expect = 1e-82,   Method: Compositional matrix adjust.
 Identities = 154/338 (45%), Positives = 228/338 (67%), Gaps = 1/338 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E ++  +++  EK I +D +   +  ++  A +  YGT  ++++ ++ ETGD+ ++    
Sbjct: 4   EFIEALNSICEEKGIPKDTMFEAIEAALVSAYKKNYGTSQNVKIVMDRETGDVKVYAQKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV N   +ISL+ AR  +    IG +V   + P +FGR+A Q+AKQV+IQ++REAER
Sbjct: 64  VVEEVYNDLLEISLEEARKINKKYQIGDIVDIEVTPKNFGRIAAQNAKQVVIQRIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF  K  E+++G V +V+  NV+++LG  + ++   E I  E   PGDRVK YI 
Sbjct: 124 NVIYEEFLAKETEVVTGIVTKVDKKNVLINLGRVEAILSPAEQIPGETFAPGDRVKVYIV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V++  +GPQ+L+SR+HP  + +LF +E PEI  GIV++++++R+ GSR K+AVFS D +
Sbjct: 184 EVKKTTKGPQILISRSHPGLVKRLFELESPEIQQGIVEIRSIAREAGSRTKMAVFSRDEN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVG 306
           +DPVGACVG +G+RVQAVV EL+ EKIDIV WS     F++NAL PA    + +LDE   
Sbjct: 244 VDPVGACVGYKGARVQAVVNELKGEKIDIVKWSSKPQEFIMNALSPAKALSIEILDEKEK 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E
Sbjct: 304 VARVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSE 341


>gi|167630355|ref|YP_001680854.1| transcription termination factor nusa [Heliobacterium modesticaldum
           Ice1]
 gi|167593095|gb|ABZ84843.1| transcription termination factor nusa [Heliobacterium modesticaldum
           Ice1]
          Length = 442

 Score =  311 bits (797), Expect = 2e-82,   Method: Compositional matrix adjust.
 Identities = 152/340 (44%), Positives = 231/340 (67%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +E L     +  EK I ++++L  +  ++  A +  +G++ ++RV I+  TG+  ++   
Sbjct: 3   VEFLTALKDLEREKGISKEILLEAIEAALISAYKKNFGSLQNVRVHIDRSTGEFKVYSRK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            +VEE+ +   ++ L  A+  DP+  +  V+   + P +FGR+A Q+AKQV++Q++REAE
Sbjct: 63  LIVEELTDPRVEVLLADAQRIDPNYQVNDVIETEVTPREFGRIAAQTAKQVVVQRIREAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R   Y EF ++ G+I++G V+R E  NV VDLG  + ++   E ++ E  R  DR+K+YI
Sbjct: 123 RGMIYEEFSNREGDIVTGIVQRTENKNVFVDLGKVEALLAPSEQMNGETYRHNDRIKAYI 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V++  +GPQVL+SRTHP  + +LF +EVPEI++G V++KA SR+ G+R+K+AV+S D 
Sbjct: 183 VEVKKTTKGPQVLISRTHPGLLKRLFELEVPEIHDGTVELKAASREAGARSKIAVYSKDE 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           ++DPVGACVG +G RVQAVV EL+ EKIDIV W+PD A FV NAL PA V  V + E+  
Sbjct: 243 NVDPVGACVGPKGMRVQAVVNELKGEKIDIVKWNPDPAKFVANALSPAKVVSVDIIEEEK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
              V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E +
Sbjct: 303 VARVVVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQ 342


>gi|261419460|ref|YP_003253142.1| transcription elongation factor NusA [Geobacillus sp. Y412MC61]
 gi|297530565|ref|YP_003671840.1| transcription termination factor NusA [Geobacillus sp. C56-T3]
 gi|319766275|ref|YP_004131776.1| NusA antitermination factor [Geobacillus sp. Y412MC52]
 gi|261375917|gb|ACX78660.1| NusA antitermination factor [Geobacillus sp. Y412MC61]
 gi|297253817|gb|ADI27263.1| transcription termination factor NusA [Geobacillus sp. C56-T3]
 gi|317111141|gb|ADU93633.1| NusA antitermination factor [Geobacillus sp. Y412MC52]
          Length = 383

 Score =  311 bits (796), Expect = 2e-82,   Method: Compositional matrix adjust.
 Identities = 159/339 (46%), Positives = 230/339 (67%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +LL+    +  EK I ++VV+  +  +I  A +  +G   ++RV++N +TG I +F   +
Sbjct: 4   QLLEALADLMREKGISKEVVMEAIEAAIVSAYKRNFGQAQNVRVDLNMDTGTIRVFTRKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISL+ A+  +P+  IG VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVEEVADPRLEISLEDAQRINPNYQIGDVVELEVTPRDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+RV+   V V LG ++ ++  +E +  E  +P DR+K YI 
Sbjct: 124 SIIYAEFVDREEDIMTGIVQRVDPRFVYVSLGKAEALLPANEQMPNETYKPHDRLKVYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+++R+ G R+K++V S +  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFELEVPEIYDGTVEIKSIAREAGDRSKISVHSDNPE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG RG RVQA+V EL  EKIDIV WS D   FV NAL PA V +V+++E+   
Sbjct: 244 VDPVGACVGPRGQRVQAIVDELNGEKIDIVRWSADPVEFVANALSPAKVLRVIVNEEQKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E E
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSESE 342


>gi|56419795|ref|YP_147113.1| transcription elongation factor NusA [Geobacillus kaustophilus
           HTA426]
 gi|56379637|dbj|BAD75545.1| transcription termination-antitermination factor [Geobacillus
           kaustophilus HTA426]
          Length = 383

 Score =  311 bits (796), Expect = 2e-82,   Method: Compositional matrix adjust.
 Identities = 159/339 (46%), Positives = 230/339 (67%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +LL+    +  EK I ++VV+  +  +I  A +  +G   ++RV++N +TG I +F   +
Sbjct: 4   QLLEALADLMREKGISKEVVMEAIEAAIVSAYKRNFGQAQNVRVDLNMDTGTIRVFARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISL+ A+  +P+  IG VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVEEVADPRLEISLEDAQRINPNYQIGDVVELEVTPRDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+RV+   V V LG ++ ++  +E +  E  +P DR+K YI 
Sbjct: 124 SIIYAEFVDREEDIMTGIVQRVDPRFVYVSLGKAEALLPANEQMPNETYKPHDRLKVYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+++R+ G R+K++V S +  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFELEVPEIYDGTVEIKSIAREAGDRSKISVHSDNPE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG RG RVQA+V EL  EKIDIV WS D   FV NAL PA V +V+++E+   
Sbjct: 244 VDPVGACVGPRGQRVQAIVDELNGEKIDIVRWSADPVEFVANALSPAKVLRVIVNEEQKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E E
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSESE 342


>gi|260887250|ref|ZP_05898513.1| transcription termination factor NusA [Selenomonas sputigena ATCC
           35185]
 gi|330838993|ref|YP_004413573.1| NusA antitermination factor [Selenomonas sputigena ATCC 35185]
 gi|260863312|gb|EEX77812.1| transcription termination factor NusA [Selenomonas sputigena ATCC
           35185]
 gi|329746757|gb|AEC00114.1| NusA antitermination factor [Selenomonas sputigena ATCC 35185]
          Length = 380

 Score =  311 bits (796), Expect = 2e-82,   Method: Compositional matrix adjust.
 Identities = 154/342 (45%), Positives = 230/342 (67%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  + L+   A+  E+ ++ +V+ + +  ++  A    + T   +RV ++  TG   ++ 
Sbjct: 13  NDGDFLEAVHALGKERGLEAEVLFAAIEAALSSAYLKDFKTAEQVRVALDRMTGKYHVYA 72

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
              VVEEVE+   QISL  AR  +P+ ++   +   + P  FGR+A Q+AKQV++Q +RE
Sbjct: 73  TKTVVEEVEDDARQISLADARAVNPNYEVDDKIELEVTPATFGRIAAQTAKQVVVQHIRE 132

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER   Y EF ++ G+I++G V+RVE  NV +DLG ++ V+   E I  E    GDR+K+
Sbjct: 133 AERGIVYEEFSNRDGDIVTGRVQRVEAKNVFIDLGKTEAVLTATEQIPGEEYHHGDRIKA 192

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +V +  +GP+VL+SRTHP  + +LF +EVPEI  G+V++K+V+R+PG R+K+AV+S 
Sbjct: 193 YIIEVCKTVKGPRVLVSRTHPGLLKRLFELEVPEIQEGVVEIKSVAREPGMRSKIAVYSK 252

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D ++DPVG+ VG +G RVQA+V ELR+EKIDIV W+P+ A F+ NAL PA V  V ++E+
Sbjct: 253 DENVDPVGSSVGHKGMRVQAIVDELRNEKIDIVKWNPEPAKFIANALSPAKVISVAINEE 312

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
                V+VP  QLSLAIG+ GQNVRLA++LTGW IDI  EE+
Sbjct: 313 AKESRVVVPDYQLSLAIGKEGQNVRLAAKLTGWKIDIKNEEQ 354


>gi|239826654|ref|YP_002949278.1| transcription elongation factor NusA [Geobacillus sp. WCH70]
 gi|239806947|gb|ACS24012.1| NusA antitermination factor [Geobacillus sp. WCH70]
          Length = 382

 Score =  311 bits (796), Expect = 3e-82,   Method: Compositional matrix adjust.
 Identities = 160/339 (47%), Positives = 229/339 (67%), Gaps = 3/339 (0%)

Query: 11  QIADAVA---YEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           Q+ DA+A    EK I ++VV+  +  +I  A +  +G   ++RV++N ETG I +F   E
Sbjct: 4   QLLDALADIIREKGISKEVVMEAIEAAIISAYKRNFGQAQNVRVDLNTETGTIRVFARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISL+ A+  +P+  IG V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDEVNDPRLEISLEEAQRINPNYQIGDVLELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+RV+   V V LG ++ ++   E +  E  +P DR+K YI 
Sbjct: 124 SVIYAEFVDREEDIMTGIVQRVDPRFVYVSLGKTEALLPASEQMPNETYKPHDRIKVYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+++R+ G R+K++V S +  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFELEVPEIYDGTVEIKSIAREAGDRSKISVHSDNPE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G RVQAVV EL  EKIDIV WS D   FV NAL PA V +V+++E+   
Sbjct: 244 VDPVGACVGPKGQRVQAVVEELNGEKIDIVRWSADPVEFVANALSPAKVLRVIVNEEQKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             VIVP  QLSLAIG+RGQN RLA++LT W IDI +E E
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTNWKIDIKSESE 342


>gi|33519578|ref|NP_878410.1| transcription elongation factor NusA [Candidatus Blochmannia
           floridanus]
 gi|33517241|emb|CAD83624.1| transcription pausing; L factor [Candidatus Blochmannia floridanus]
          Length = 501

 Score =  310 bits (794), Expect = 4e-82,   Method: Compositional matrix adjust.
 Identities = 174/474 (36%), Positives = 290/474 (61%), Gaps = 15/474 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + + V+ EK++ ++ +   +  ++  A R  Y    DIRV I+ ++G IS FR   
Sbjct: 4   EILAVVEVVSNEKAVPKEKIFLALEMALAAATRKKYSQDIDIRVSIDRKSGKISTFRRWV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV +V   T +++L+ A+  +  I I   V D +  + F R+  Q+AKQVIIQK+REAER
Sbjct: 64  VVNQVIQPTREMTLEAAQLENLEIKINDYVEDIVESVTFDRITTQTAKQVIIQKIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
                +F  + GEI++G +K++   +V VDLGN ++G+I+R+E + REN R GDR++  +
Sbjct: 124 MIIIEQFLSRQGEIVTGIIKKISRYSVSVDLGNNAEGIIKREEMLPRENFRVGDRIRGIL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V+ + +G  + +SRT  + +++LF +EVPEI   ++ ++A +RDPGSR+K+AV ++D 
Sbjct: 184 YLVKTDSKGSNLFISRTCTEMLIELFRIEVPEIGEELITIQAAARDPGSRSKIAVKTNDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDP+GACVGMRG+RVQAV +EL  E++D+++W  +   FV+NA+ PA +  +++DED  
Sbjct: 244 RIDPIGACVGMRGARVQAVSSELGGERVDVILWDDNPVQFVVNAMIPADIVSMIVDEDKH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +++ V +  L+  IGR GQN+RL SQL  W ++++T  E    RQ +       FM+ +
Sbjct: 304 TMDIAVEESNLAQIIGRNGQNIRLISQLIDWELNVMTVVELEKKRQSEDRNILDIFMRVL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI------ 420
           N++E  A +L+  GF+ +EELA + ISE+ SI  FD+E    ++ +A++ L+ +      
Sbjct: 364 NINEESAKVLIDSGFSSLEELAYIPISELLSIGVFDKEEIDLLRFKAKDALKDLSNKDNN 423

Query: 421 --DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG 472
             + T+   +       EL  +  +  +I + L   GI  +EDLA   +  L G
Sbjct: 424 DDNSTIMNSV------SELLKLSSLKYEIALKLINYGIYKLEDLAEQDIVSLSG 471


>gi|147677601|ref|YP_001211816.1| transcription elongation factor NusA [Pelotomaculum
           thermopropionicum SI]
 gi|146273698|dbj|BAF59447.1| transcription elongation factor [Pelotomaculum thermopropionicum
           SI]
          Length = 360

 Score =  310 bits (793), Expect = 5e-82,   Method: Compositional matrix adjust.
 Identities = 155/350 (44%), Positives = 235/350 (67%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E L+    +  EK I  DV+L  +  ++  A +  +G++ + RV I+ ETG+  ++    
Sbjct: 4   EFLEALKDLEREKGIAVDVLLEAIEAALLSAYKRNFGSLQNARVHIDRETGEFKVYTQRT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V E VE+   +I +K AR  +P+   G +V   + P DFGR+A Q+AKQV++Q++REAER
Sbjct: 64  VSEHVEDPRQEIDIKEARAINPNYAPGDIVESEVTPRDFGRIAAQTAKQVVVQRIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF ++ G+I++G V+RVE  NV ++LG ++ ++   E I  E  R GDR+K+YI 
Sbjct: 124 NIIYEEFANREGDIVTGIVQRVEQKNVYIELGKTEAILAPSEQIPGEEYRQGDRIKTYIV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +VR+  +GPQ+L+SRTHP  + +L  MEVPE+  GIV++K ++R+ G+R+K+AV+S D +
Sbjct: 184 EVRKTTKGPQILVSRTHPGLLKRLLEMEVPELQEGIVELKGIAREAGARSKIAVYSKDEN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G RVQ +V+EL  EKIDI+ W+PD + FV ++L PA V  V + E+   
Sbjct: 244 VDPVGACVGPKGMRVQNIVSELNGEKIDIIKWNPDPSKFVASSLSPAKVIAVEIWEEEKV 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
             VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E +      +++NE
Sbjct: 304 ARVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSETQMREIYPEEYNE 353


>gi|289578389|ref|YP_003477016.1| transcription termination factor NusA [Thermoanaerobacter italicus
           Ab9]
 gi|297544665|ref|YP_003676967.1| transcription termination factor NusA [Thermoanaerobacter mathranii
           subsp. mathranii str. A3]
 gi|289528102|gb|ADD02454.1| transcription termination factor NusA [Thermoanaerobacter italicus
           Ab9]
 gi|296842440|gb|ADH60956.1| transcription termination factor NusA [Thermoanaerobacter mathranii
           subsp. mathranii str. A3]
          Length = 346

 Score =  310 bits (793), Expect = 5e-82,   Method: Compositional matrix adjust.
 Identities = 155/338 (45%), Positives = 226/338 (66%), Gaps = 1/338 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E ++  +++  EK I +D +   +  ++  A +  YG+  + ++ ++ ETGD+ ++    
Sbjct: 4   EFIEALNSICEEKGIPKDTMFEAIEAALVSAYKKNYGSSQNAKIVMDRETGDVKVYAQKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV N   +ISL+ AR  +    IG +V   + P +FGR+A Q+AKQV+IQ++REAER
Sbjct: 64  VVEEVYNDLLEISLEEARKINKKYQIGDIVDIEVTPKNFGRIAAQTAKQVVIQRIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF  K  E+I+G V R +  NV+++LG  + ++   E I  E   PGDRVK YI 
Sbjct: 124 NVIYEEFLSKETEVITGIVTRADKKNVLINLGRVEAILGPAEQIPGETFAPGDRVKVYIV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V++  +GPQ+L+SR+HP  + +LF +E PEI  GIV++++++R+ GSR K+AVFS D +
Sbjct: 184 EVKKTTKGPQILISRSHPGLVKRLFELESPEIQQGIVEIRSIAREAGSRTKMAVFSRDEN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVG 306
           +DPVGACVG +G+RVQAVV EL+ EKIDIV WS     F+INAL PA    + +LDE   
Sbjct: 244 VDPVGACVGYKGARVQAVVNELKGEKIDIVKWSSKPQEFIINALSPARALSIEILDEKEK 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E
Sbjct: 304 VARVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSE 341


>gi|226951828|ref|ZP_03822292.1| transcription elongation factor [Acinetobacter sp. ATCC 27244]
 gi|226837368|gb|EEH69751.1| transcription elongation factor [Acinetobacter sp. ATCC 27244]
          Length = 494

 Score =  310 bits (793), Expect = 5e-82,   Method: Compositional matrix adjust.
 Identities = 194/487 (39%), Positives = 294/487 (60%), Gaps = 19/487 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAAR-----SLYGTMSDIRVEINPETGDISL 62
           E+L +A+ V+ EK + R+ +   +  ++  A +     + +   + +RVEI+ +TGD   
Sbjct: 4   EILTVAETVSNEKGVSREAIFQALEQALVAATKKKFYENTHAEEAQLRVEIDRKTGDYRT 63

Query: 63  FRLLEVV--EEVENYTCQISLKVARDRDPS-IDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           FR   VV  E+ E   CQ ++    D DP+   IG V    +  ++FGR+A Q AKQVI+
Sbjct: 64  FRQWTVVADEDHEMPACQDAIS---DVDPAQWSIGDVRELEVESIEFGRIAAQIAKQVIV 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           QK+REAER      ++ KVGE+I G VK+      I+DLG N++  + R+ETI +E LRP
Sbjct: 121 QKIREAERALVADAYESKVGELIYGEVKKQTKDGFIIDLGDNAEAYLAREETIHKEILRP 180

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
             R+ + +Y+V RE RG Q+LLSR  P+ ++ L   E+PEI   I+++KA +R PG RAK
Sbjct: 181 KQRINAILYNVNREGRGAQLLLSRARPEMLIALMKKEIPEISEEIIEIKAAARQPGVRAK 240

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A ++ +AL PA V+ 
Sbjct: 241 IAVKTNDHRIDPVGACIGMRGTRIQAVQQELNGERIDVVVWSDDPAQYIASALEPADVSG 300

Query: 299 VVLDEDVGRIEVI-VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +VLDED    ++I    +QL+ AIG +GQNVRLAS+LTG+ +D++ EEE    +Q +  E
Sbjct: 301 IVLDEDARSADIIFATNDQLARAIGSQGQNVRLASELTGYKLDMMLEEEYRARQQNEAQE 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F+  ++++E +A  LV  GF  +EE+A V       IE  D +    +Q RA+E  
Sbjct: 361 YLDMFVSRLDIEEDLAMALVEMGFTSLEEIAYVPAETFDEIE-LDADLVELLQSRAKEAA 419

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWS 474
               +  Q+ I+E   S EL  + G+ ++I  AL   G+ T++DLA  + DD+    G  
Sbjct: 420 LTDALKQQENIQE--PSAELLGMDGMTTEIAYALAARGVITVDDLADQATDDISDIEGLG 477

Query: 475 ENKGGNI 481
            +K G +
Sbjct: 478 HDKAGQL 484


>gi|189219874|ref|YP_001940515.1| transcription elongation factor [Methylacidiphilum infernorum V4]
 gi|189186732|gb|ACD83917.1| Transcription elongation factor [Methylacidiphilum infernorum V4]
          Length = 441

 Score =  309 bits (792), Expect = 7e-82,   Method: Compositional matrix adjust.
 Identities = 158/382 (41%), Positives = 248/382 (64%), Gaps = 1/382 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L I + +  EK I+R V +  M  ++  AA+   G   D+RVEI+P+TG I++   LE
Sbjct: 27  EVLAIMEYMEKEKGINRQVFIEAMQSALLAAAKKSIGPARDLRVEIHPKTGRINVRAKLE 86

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE+V+N   QISLK AR+ DP+++IG +V   + P DFGR+A Q  KQ I Q ++  ER
Sbjct: 87  VVEKVQNSHDQISLKRAREIDPNVNIGDLVEVEVTPKDFGRIAAQVFKQTINQALKGIER 146

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
                EFKD++  I+SGT++R+E  ++I+DLG  +G++   E +  E    G+R+K+Y+ 
Sbjct: 147 KMVLSEFKDRINNIVSGTIRRIERSDIIIDLGRYEGIMPFKERVPTEEYVVGERIKAYVL 206

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V     GP ++LSR+HP F+++L  +EV E+ + IV+VKA++R+PG R K+AV+SS+  
Sbjct: 207 SVDDTPHGPMIILSRSHPNFILRLLELEVSEVADKIVEVKAIAREPGFRTKIAVWSSNPK 266

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVG+CVG+RG+RV+ +V EL  EKID+  WSP+     I AL+PA V KV +D+   R
Sbjct: 267 IDPVGSCVGVRGARVKNIVRELHSEKIDLFKWSPNVEELAIEALKPAKVKKVEVDQQNHR 326

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI-NRQKDFNERTQFFMQAI 366
           ++V V +E  S+A+G++G+N  LAS++ GW IDI+ E    + N  +   +  +    ++
Sbjct: 327 VKVTVDEENYSIALGKKGKNAWLASKIVGWDIDIVKEPSFVVDNFTQKITKAAEEMASSL 386

Query: 367 NVDEIIAHLLVAEGFADVEELA 388
            +D+ +A  +V  GF + E +A
Sbjct: 387 AIDQSVAEQIVRAGFINPEAVA 408


>gi|196019394|ref|XP_002118970.1| hypothetical protein TRIADDRAFT_62947 [Trichoplax adhaerens]
 gi|190577493|gb|EDV18544.1| hypothetical protein TRIADDRAFT_62947 [Trichoplax adhaerens]
          Length = 348

 Score =  309 bits (791), Expect = 8e-82,   Method: Compositional matrix adjust.
 Identities = 151/338 (44%), Positives = 238/338 (70%), Gaps = 11/338 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AVA +K I ++ ++  + +++  AA+  YG    ++  IN   G+I L+R + 
Sbjct: 10  EILHVAEAVARDKGISKESIIEALEEAMAIAAKRKYGANIKVKAHINRNLGNIELYREVL 69

Query: 68  VV----------EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQV 117
           VV          +E       I +  A++ DP I+ G V+   LPP++ GR+   SAKQ+
Sbjct: 70  VVKDGFISDNTRDENNEEVKTIEISKAQETDPDINEGDVIKQILPPLEIGRLNAISAKQI 129

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR 177
           II KV+E E+D+ + E+K++VGE+++G V+++E G  IV LG+++ ++++D+T+  +  +
Sbjct: 130 IINKVKELEKDKVFEEYKNRVGEVLNGVVEKIETGGYIVKLGSAEAILKKDQTLKTDFYK 189

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            GDR+++ +  + +E  GP ++LSRTH  F+++LF  EVPEIY+ I++VK ++RDPGSR 
Sbjct: 190 LGDRIRACLAKLDKESNGPILILSRTHKDFVIQLFKQEVPEIYDRIIEVKNIARDPGSRT 249

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI-V 296
           K+AV+SSD SIDPVG+CVGMRG RVQA++ EL+ EKIDIV WS D ATFV+N+L  +I V
Sbjct: 250 KIAVYSSDPSIDPVGSCVGMRGVRVQAIIKELKGEKIDIVKWSDDPATFVVNSLGSSIRV 309

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQL 334
           +KV++DE+  +IE+IVP+E  S AIGRRGQN++L S+L
Sbjct: 310 SKVIIDEEQNKIEIIVPEEDQSQAIGRRGQNIKLISEL 347


>gi|294649082|ref|ZP_06726525.1| transcription elongation factor NusA [Acinetobacter haemolyticus
           ATCC 19194]
 gi|292825028|gb|EFF83788.1| transcription elongation factor NusA [Acinetobacter haemolyticus
           ATCC 19194]
          Length = 494

 Score =  308 bits (790), Expect = 1e-81,   Method: Compositional matrix adjust.
 Identities = 193/487 (39%), Positives = 294/487 (60%), Gaps = 19/487 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAAR-----SLYGTMSDIRVEINPETGDISL 62
           E+L +A+ V+ EK + R+ +   +  ++  A +     + +   + +RVEI+ +TGD   
Sbjct: 4   EILTVAETVSNEKGVSREAIFQALEQALVAATKKKFYENTHAEEAQLRVEIDRKTGDYRT 63

Query: 63  FRLLEVV--EEVENYTCQISLKVARDRDPS-IDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           FR   VV  E+ E   CQ ++    D DP+   IG V    +  ++FGR+A Q AKQVI+
Sbjct: 64  FRQWTVVADEDHEMPACQDAIS---DVDPAQWSIGDVRELEVESIEFGRIAAQIAKQVIV 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           QK+REAER      ++ KVGE+I G VK+      I+DLG N++  + R+ETI +E LRP
Sbjct: 121 QKIREAERALVADAYESKVGELIYGEVKKQTKDGFIIDLGDNAEAYLAREETIHKEILRP 180

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
             R+ + +Y+V RE RG Q+LLSR  P+ ++ L   E+PEI   I+++KA +R PG RAK
Sbjct: 181 KQRINAILYNVNREGRGAQLLLSRARPEMLIALMKKEIPEISEEIIEIKAAARQPGVRAK 240

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A ++ +AL PA V+ 
Sbjct: 241 IAVKTNDHRIDPVGACIGMRGTRIQAVQQELNGERIDVVVWSDDPAQYIASALEPADVSG 300

Query: 299 VVLDEDVGRIEVI-VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +VLDED    ++I    +QL+ AIG +GQNVRLAS+LTG+ +D++ EEE    +Q +  +
Sbjct: 301 IVLDEDARSADIIFATNDQLARAIGSQGQNVRLASELTGYKLDMMLEEEYRARQQNEAQQ 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F+  ++++E +A  LV  GF  +EE+A V       IE  D +    +Q RA+E  
Sbjct: 361 YLDMFVSRLDIEEDLAMALVEMGFTSLEEIAYVPAETFDEIE-LDADLVELLQSRAKEAA 419

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWS 474
               +  Q+ I+E   S EL  + G+ ++I  AL   G+ T++DLA  + DD+    G  
Sbjct: 420 LTDALKQQENIQE--PSAELLGMDGMTTEIAYALAARGVITVDDLADQATDDISDIEGLG 477

Query: 475 ENKGGNI 481
            +K G +
Sbjct: 478 HDKAGQL 484


>gi|302039405|ref|YP_003799727.1| transcription termination factor NusA [Candidatus Nitrospira
           defluvii]
 gi|300607469|emb|CBK43802.1| Transcription termination factor NusA [Candidatus Nitrospira
           defluvii]
          Length = 379

 Score =  308 bits (789), Expect = 1e-81,   Method: Compositional matrix adjust.
 Identities = 158/342 (46%), Positives = 231/342 (67%), Gaps = 1/342 (0%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           NR EL+ + D +  +K ID+  V+  +  ++Q AA+  +G   +I+VEI+P+TG+IS+  
Sbjct: 2   NR-ELIAVIDEIGRQKGIDKARVIGAIESALQTAAKKRFGQAENIQVEIDPKTGEISVVS 60

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
              +V+ V N   +ISLK AR+ D   ++G  +   +   + GR+A Q+AKQVI QKVRE
Sbjct: 61  KKIIVDTVANPKAEISLKEAREYDEGAEVGDEIGSLIEMDELGRIAAQTAKQVIFQKVRE 120

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AE +    E+  + G++++G +  +E  N +VDLG ++ ++   E I RE  R GDRVK+
Sbjct: 121 AEWEAVQKEYSTRQGDLVNGIILGMERRNFLVDLGKTEAILPIQEQIPRETYRRGDRVKA 180

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + +VRR  +  QV+LSR+HPQF+ K+F +EVPE+   IV++K++ R+PG R K+AV S 
Sbjct: 181 LLLEVRRTPKDVQVILSRSHPQFVAKMFELEVPEVGEKIVEIKSIVREPGDRTKIAVSSR 240

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D ++DPVGACVG++GSRVQAVV ELR EKIDI+ W+ D   F+  AL PA + KV +DE+
Sbjct: 241 DKAVDPVGACVGIKGSRVQAVVRELRGEKIDIITWTQDPRVFIAEALNPATIEKVGIDEE 300

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
                V+V   QLSLAIG+ GQNVRLA++LTGW IDII+  E
Sbjct: 301 KKSALVVVADSQLSLAIGKNGQNVRLAARLTGWKIDIISATE 342


>gi|302389798|ref|YP_003825619.1| transcription termination factor NusA [Thermosediminibacter oceani
           DSM 16646]
 gi|302200426|gb|ADL07996.1| transcription termination factor NusA [Thermosediminibacter oceani
           DSM 16646]
          Length = 351

 Score =  308 bits (788), Expect = 2e-81,   Method: Compositional matrix adjust.
 Identities = 146/342 (42%), Positives = 237/342 (69%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +E ++  D +  EK I ++++L  +  ++  A +  YGT  ++++ I+ ETG++ ++   
Sbjct: 3   IEFIEALDQIEKEKGISKEILLEAIEAALVSAYKKNYGTSQNVKINIDRETGEVKVYSQK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            V E+V++   +ISL  A+  +P + IG ++S  + P  FGR+A Q+AKQV++Q+++EAE
Sbjct: 63  TVKEDVKDPLLEISLLDAKKINPLVKIGDIISVEVTPKKFGRIAAQTAKQVVMQRIKEAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R+  Y EF  +  ++++G V+R +  NVI+DLG ++ ++  +E I  E   PG+R+K YI
Sbjct: 123 RNIIYEEFAGRETDLVTGVVQRFDKKNVIIDLGKTEVILPPNEQIPNETYTPGERIKVYI 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V++  +GP +++SR+HP  + +LF +EVPEIY GIV++K+++R+ GSR K+AV+S D 
Sbjct: 183 LEVKKTTKGPVIIVSRSHPGLVKRLFELEVPEIYEGIVEIKSIAREAGSRTKVAVYSKDE 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           ++DPVGACVG +G+RVQAVV EL+ EKIDI+ WS +   ++ NAL PA V  V ++ED  
Sbjct: 243 NVDPVGACVGPKGTRVQAVVEELKGEKIDIIKWSKNVTEYISNALSPAKVISVDVEEDSK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
              V+V  +QLSLAIG+ GQN RLA++LTGW IDI + + DS
Sbjct: 303 IARVLVSDQQLSLAIGKEGQNARLAAKLTGWKIDIKSSKTDS 344


>gi|262280758|ref|ZP_06058541.1| transcription termination/antitermination L factor [Acinetobacter
           calcoaceticus RUH2202]
 gi|299771783|ref|YP_003733809.1| transcription elongation factor NusA [Acinetobacter sp. DR1]
 gi|262257658|gb|EEY76393.1| transcription termination/antitermination L factor [Acinetobacter
           calcoaceticus RUH2202]
 gi|298701871|gb|ADI92436.1| transcription elongation factor NusA [Acinetobacter sp. DR1]
          Length = 494

 Score =  308 bits (788), Expect = 2e-81,   Method: Compositional matrix adjust.
 Identities = 196/487 (40%), Positives = 294/487 (60%), Gaps = 19/487 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY--GTMSD---IRVEINPETGDISL 62
           E+L + + V+ EK + R+ +   +  ++  A +  +  GT ++   +RVEI+ +TGD S 
Sbjct: 4   EILTVVETVSNEKGVSREAIFEALEQALVAATKKRFYEGTHAEEAQLRVEIDRKTGDYST 63

Query: 63  FRLLEVV--EEVENYTCQISLKVARDRDPS-IDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           FR   VV  E+ E   CQ ++    D DPS   IG V    +  ++FGR+A Q AKQVI+
Sbjct: 64  FRQWTVVADEDHEMPACQDAIS---DLDPSKWSIGDVRELEVESIEFGRIAAQIAKQVIV 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           QK+REAER      ++ KVGE+I G VK+      I+DLG N++  + R+E I +E LRP
Sbjct: 121 QKIREAERALVADAYESKVGELIYGEVKKQTKDGFIIDLGDNAEAYLAREEMIPKEILRP 180

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
             R+ + +Y+V RE RG Q+LLSR  P+ ++ L   E+PEI   I+++KA +R PG RAK
Sbjct: 181 KQRMNAILYNVNREGRGAQLLLSRAKPEMLIALMKKEIPEISEEIIEIKAAARQPGVRAK 240

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A ++ +AL PA V+ 
Sbjct: 241 IAVKTNDHRIDPVGACIGMRGTRIQAVQQELNGERIDVVVWSDDPAQYIASALEPADVSG 300

Query: 299 VVLDEDVGRIEVI-VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +VLDED    ++I    +QL+ AIG +GQNVRLAS LTG+ +D++ EEE    +Q +  +
Sbjct: 301 IVLDEDARSADIIFATSDQLARAIGSQGQNVRLASDLTGYKLDMMLEEEYRARQQNEAQQ 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F+  ++++E +A  LV  GF  +EE+A V       IE  D E    +Q RA+E  
Sbjct: 361 YLDMFVSRLDIEEDLAMALVEMGFTSLEEIAYVPAETFDEIE-LDAELVELLQSRAKEAA 419

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWS 474
               +  Q+ I+E   S +L ++ G+ S+I  +L   GI T++DLA  + DD+    G  
Sbjct: 420 LTDALKQQENIQE--PSADLLTMEGMTSEIAYSLAARGIITVDDLADQATDDISDIEGLD 477

Query: 475 ENKGGNI 481
             K G +
Sbjct: 478 HEKAGQL 484


>gi|320530108|ref|ZP_08031178.1| transcription termination factor NusA [Selenomonas artemidis F0399]
 gi|320137541|gb|EFW29453.1| transcription termination factor NusA [Selenomonas artemidis F0399]
          Length = 379

 Score =  307 bits (787), Expect = 2e-81,   Method: Compositional matrix adjust.
 Identities = 153/339 (45%), Positives = 224/339 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E LQ    +AYEK ID +++   +  ++  A R  +G+  ++R+ ++ ETG   +F +  
Sbjct: 14  EFLQTLKELAYEKGIDEELLFETIEAALISAYRRNFGSAQNVRIALSRETGAFHVFAIKT 73

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEE E+    ISL  A   +P   +G VV   + P +FGR+A Q+AKQV++Q++REAER
Sbjct: 74  VVEEAESGVTDISLAQAHAINPDYQVGDVVEIEMTPANFGRIAAQTAKQVVMQRLREAER 133

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  + ++  +I++G V+R+E  +V VD+G ++ V+   E I  E    GD +++YI 
Sbjct: 134 GIVYEAYMNRSADIVTGIVQRIEGRSVYVDIGKAEAVLMPTEQIPGETYNYGDTIRAYII 193

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+R  RGPQ++LSRTHP  + KLF ++VPEI  GIV++KA++R+ GSR+K+AV S++  
Sbjct: 194 EVKRSPRGPQIMLSRTHPGLLKKLFELQVPEIQEGIVEIKAIAREAGSRSKVAVHSTEER 253

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DP+GACVG    RVQAVV EL  EKIDIV WS D AT++ N+L PA V  V + E    
Sbjct: 254 VDPIGACVGPHFMRVQAVVDELAGEKIDIVKWSEDPATYIANSLNPAKVISVAVSETEKL 313

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E +
Sbjct: 314 SRVVVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQ 352


>gi|256750788|ref|ZP_05491673.1| NusA antitermination factor [Thermoanaerobacter ethanolicus CCSD1]
 gi|256750371|gb|EEU63390.1| NusA antitermination factor [Thermoanaerobacter ethanolicus CCSD1]
          Length = 346

 Score =  307 bits (787), Expect = 2e-81,   Method: Compositional matrix adjust.
 Identities = 152/338 (44%), Positives = 227/338 (67%), Gaps = 1/338 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E ++  +++  EK I +D +   +  ++  A +  YG+  + ++ ++ ETGD+ ++    
Sbjct: 4   EFIEALNSICEEKGIPKDTMFEAIEAALVSAYKKNYGSSQNAKIVMDRETGDVKVYAQKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV N   +ISL+ AR  +    IG +V   + P +FGR+A Q+AKQV+IQ++R+AER
Sbjct: 64  VVEEVYNDLLEISLEEARKINKKYQIGDIVDIEVTPKNFGRIAAQTAKQVVIQRIRKAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF  K  E+++G V +V+  NV+++LG  + ++   E I  E   PGDRVK YI 
Sbjct: 124 NVIYEEFLSKETEVVTGIVTKVDKKNVLINLGRVEAILSPAEQIPGETFAPGDRVKVYIV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V++  +GPQ+L+SR+HP  + +LF +E PEI  GIV++++++R+ GSR K+AVFS D +
Sbjct: 184 EVKKTTKGPQILISRSHPGLVKRLFELESPEIQQGIVEIRSIAREAGSRTKMAVFSRDEN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVG 306
           +DPVGACVG +G+RVQAVV EL+ EKIDIV WS     F++NAL PA    + +LDE   
Sbjct: 244 VDPVGACVGYKGARVQAVVNELKGEKIDIVKWSSKPQEFIMNALSPAKALSIEILDEKEK 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E
Sbjct: 304 VARVIVPDYQLSLAIGKEGQNARLAAKLTGWRIDIKSE 341


>gi|309389230|gb|ADO77110.1| NusA antitermination factor [Halanaerobium praevalens DSM 2228]
          Length = 408

 Score =  307 bits (787), Expect = 2e-81,   Method: Compositional matrix adjust.
 Identities = 148/340 (43%), Positives = 230/340 (67%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +E +Q  D +  +K I ++V+L  +  ++  A +  +G+  ++R+EI+ E G++ +F   
Sbjct: 3   IEFIQALDDIEKDKGISKEVLLDAIETALVSAYKKDFGSKDNVRIEISAEAGEVKVFSRK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           EVVEEVEN   +ISL  A + D    IG +V   + P +FGR+A Q+AKQV++Q++REAE
Sbjct: 63  EVVEEVENKNSEISLIEAENIDSKYTIGDIVEIEVTPANFGRIAAQTAKQVVMQRIREAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           RD  + ++K+K  E+I+GT++R    N+++D+G ++ ++   E I+ E    G+R+K Y+
Sbjct: 123 RDVIFDQYKEKEDELITGTIQRFHNDNILIDMGKTEALLPPSEQIAGERYEIGERIKLYV 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V    +GP++L+SRTHP  + +LF +EVPEI+ G+V++K V+R+ G R+K+AV S++ 
Sbjct: 183 VEVSTTNKGPRILVSRTHPGLLKRLFEIEVPEIFQGLVEIKEVAREAGQRSKMAVSSTEK 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVG+CVG +G RVQAVV +L +EKIDIV W  D   FV NAL PA V  V +++   
Sbjct: 243 QVDPVGSCVGPKGMRVQAVVDQLNNEKIDIVKWDEDPEVFVANALNPAEVISVDINKSEK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
              V+VP  QLSLAIG+ GQN RLA++LTGW +DI  E E
Sbjct: 303 IARVVVPDFQLSLAIGKEGQNARLAAKLTGWKVDIKKESE 342


>gi|169831086|ref|YP_001717068.1| transcription elongation factor NusA [Candidatus Desulforudis
           audaxviator MP104C]
 gi|169637930|gb|ACA59436.1| NusA antitermination factor [Candidatus Desulforudis audaxviator
           MP104C]
          Length = 359

 Score =  307 bits (787), Expect = 2e-81,   Method: Compositional matrix adjust.
 Identities = 157/328 (47%), Positives = 231/328 (70%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           E+SI  +V+L  +  ++  A R  +GT  + RV+++  TGD  ++    VV+EVE+   Q
Sbjct: 15  ERSISVEVLLEAIEAALLSAYRRNFGTSHNARVQVDRHTGDCKVYARRTVVQEVEDPQDQ 74

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           ISL+ AR  +P   +   V   + P +FGR+A Q+AKQV++Q++REAER+  + EF  + 
Sbjct: 75  ISLEEARAINPGYQLEDTVESEITPRNFGRIAAQTAKQVVVQRIREAERNMVFEEFASRE 134

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
           G+I++G V+R+E  NV ++LG ++ V+   E I REN RPG R+K+YI +V++  +GP +
Sbjct: 135 GDIVTGVVQRIEQRNVYIELGKTEAVLPPAEQIPRENYRPGQRLKTYIVEVKKTTKGPLI 194

Query: 199 LLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMR 258
           L+SRTHP  + +LF +EVPE++ G+V++KAV+R+ G R+K+AV+S+D  IDPVGACVG +
Sbjct: 195 LVSRTHPGLLKRLFEIEVPELHQGLVELKAVAREAGIRSKIAVYSNDEGIDPVGACVGPK 254

Query: 259 GSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLS 318
           G+RVQA+V EL  EKID+V WSPDS+ FV ++L PA V  V + ED     VIVP  QLS
Sbjct: 255 GARVQAIVQELNGEKIDVVKWSPDSSKFVSSSLSPAKVIAVEVWEDEKIARVIVPDYQLS 314

Query: 319 LAIGRRGQNVRLASQLTGWTIDIITEEE 346
           LAIG+ GQN RLA++LTGW IDI +E +
Sbjct: 315 LAIGKEGQNARLAAKLTGWKIDIKSESQ 342


>gi|220927907|ref|YP_002504816.1| NusA antitermination factor [Clostridium cellulolyticum H10]
 gi|219998235|gb|ACL74836.1| NusA antitermination factor [Clostridium cellulolyticum H10]
          Length = 382

 Score =  307 bits (787), Expect = 3e-81,   Method: Compositional matrix adjust.
 Identities = 151/317 (47%), Positives = 223/317 (70%), Gaps = 2/317 (0%)

Query: 38  AARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVV 97
           A +  +G+  +++V I+  TGD+ +F L +V E+ +     IS+  A   +P++DIG  V
Sbjct: 34  AYKKNFGSAMNVKVNIDRVTGDVKVFALRKVAEDPDVEAMDISIGEAAKLNPTLDIGDYV 93

Query: 98  SDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVD 157
              + P  FGR+A Q+AKQV++QK+REAER   Y EF +K  +I++G ++R+E  NVIVD
Sbjct: 94  ESEVTPRSFGRIAAQTAKQVVVQKLREAERGIIYDEFYNKESDIVTGIIQRIEKRNVIVD 153

Query: 158 LGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVP 217
           LG ++ V+   E    E  R  +R+KSYI +V++  +GPQ++LSRTHP  + +LF +EVP
Sbjct: 154 LGKTEAVLGSTEQTPGEEYRFNERLKSYIVEVKKTTKGPQIMLSRTHPGLVKRLFELEVP 213

Query: 218 EIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIV 277
           EI++G V++K++SR+PGSR KLAV+S D ++DPVGACVG +G+RVQA+V ELR EKIDI+
Sbjct: 214 EIHDGTVEIKSISREPGSRTKLAVYSKDENVDPVGACVGQKGTRVQAIVDELRGEKIDII 273

Query: 278 VWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
            WS D   ++ ++L PA V +V +DE+    +V+VP  QLSLAIG+ GQN RLA++LTGW
Sbjct: 274 KWSNDPKDYISSSLSPAKVVRVDVDEEEKSAKVVVPDYQLSLAIGKEGQNARLAAKLTGW 333

Query: 338 TIDIITEEE--DSINRQ 352
            IDI +E +   SI +Q
Sbjct: 334 KIDIKSESQLRQSIEKQ 350


>gi|124515701|gb|EAY57210.1| transcription termination factor (NusA) [Leptospirillum rubarum]
          Length = 452

 Score =  307 bits (787), Expect = 3e-81,   Method: Compositional matrix adjust.
 Identities = 173/432 (40%), Positives = 267/432 (61%), Gaps = 25/432 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL + D +  EK I ++ ++  +  ++  AAR  YG   + +VEINP TG++ + ++  
Sbjct: 5   ELLSVIDQLHREKGISQETLIVALESALLAAARKRYGGGDNFQVEINPRTGEVQVLQIRR 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VE VE+ + +ISL  A + DP  ++G  +   L   DFGR+A Q+AKQV+ QKVREAE 
Sbjct: 65  IVERVESPSEEISLAEALESDPEAEVGDEIGSYLEIDDFGRIAAQAAKQVMFQKVREAEW 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           D    EF  + G+I++G +   E  N IVDLG ++ V+   E + RE+ R GDR+K+ + 
Sbjct: 125 DVVTKEFGGRQGDIVNGVIIGHERKNYIVDLGKTEAVLPLREQMPRESFRRGDRIKALLL 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           D+R   RGPQ++LSRTHP F+ +LF  EVPEI  GI++V+ V R+PG RAK+AV+S D +
Sbjct: 185 DMRTTSRGPQLVLSRTHPDFVSRLFEKEVPEIAEGILEVRNVVREPGERAKIAVYSRDPN 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG++G RVQAVV EL  EK+DI+ W+ D ATF+  AL PA   +V + +D+G 
Sbjct: 245 VDPVGSCVGVKGVRVQAVVRELHGEKVDIIEWNSDPATFIARALSPAKAVRVSI-KDMGS 303

Query: 308 ---IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF-- 362
                V+V   QLSLAIGRRG NVRLA++LTGW +DI +E +  +  +   +ER +    
Sbjct: 304 EKVATVVVQDSQLSLAIGRRGHNVRLAAKLTGWKVDIFSETQ--MQSEAGLDERAERVAS 361

Query: 363 -----------MQAINVDEI------IAHLLVAEGFADVEELACVKISEIASIEGFDEET 405
                         + ++++      +A +L   GF  ++ +A   +  I+++  F  +T
Sbjct: 362 LAETLGSQSGDTSLLRIEDLPGVGGNMAEILRDAGFDTLQAIAHASVEAISALPKFGPKT 421

Query: 406 AVEIQGRAREYL 417
           A ++   A+++L
Sbjct: 422 AAKLIQTAQDFL 433


>gi|313896800|ref|ZP_07830348.1| transcription termination factor NusA [Selenomonas sp. oral taxon
           137 str. F0430]
 gi|312974717|gb|EFR40184.1| transcription termination factor NusA [Selenomonas sp. oral taxon
           137 str. F0430]
          Length = 379

 Score =  306 bits (785), Expect = 5e-81,   Method: Compositional matrix adjust.
 Identities = 152/339 (44%), Positives = 224/339 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E LQ    +AYEK ID +++   +  ++  A R  +G+  ++R+ ++ ETG   +F +  
Sbjct: 14  EFLQTLKELAYEKGIDEELLFETIEAALISAYRRNFGSAQNVRIALSRETGAFHVFAIKT 73

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEE E+    ISL  A   +P   +G VV   + P +FGR+A Q+AKQV++Q++REAER
Sbjct: 74  VVEEAESGVTDISLAQAHAINPDYQVGDVVEIEMTPANFGRIAAQTAKQVVMQRLREAER 133

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  + ++  +I++G V+R+E  +V VD+G ++ V+   E I  E    GD +++YI 
Sbjct: 134 GIVYEAYMNRSADIVTGIVQRIEGRSVYVDIGKAEAVLMPTEQIPGETYNYGDTIRAYII 193

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+R  RGPQ++LSRTHP  + KLF ++VPE+  GIV++KA++R+ GSR+K+AV S++  
Sbjct: 194 EVKRSPRGPQIMLSRTHPGLLKKLFELQVPEMQEGIVEIKAIAREAGSRSKVAVHSTEER 253

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DP+GACVG    RVQAVV EL  EKIDIV WS D AT++ N+L PA V  V + E    
Sbjct: 254 VDPIGACVGPHFMRVQAVVDELAGEKIDIVKWSEDPATYIANSLNPAKVISVAVSETEKL 313

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E +
Sbjct: 314 SRVVVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQ 352


>gi|325290363|ref|YP_004266544.1| NusA antitermination factor [Syntrophobotulus glycolicus DSM 8271]
 gi|324965764|gb|ADY56543.1| NusA antitermination factor [Syntrophobotulus glycolicus DSM 8271]
          Length = 429

 Score =  306 bits (785), Expect = 5e-81,   Method: Compositional matrix adjust.
 Identities = 152/338 (44%), Positives = 230/338 (68%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +E ++    +  EK I  + +   +  ++  A +  Y ++ ++R +++  TG+I ++   
Sbjct: 3   IEFIEAVGELEKEKGISSEKLFEAIEAALVSAYKKNYSSLQNVRPQVDRNTGEIKVYARK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VVEEV++   QISL+ A+  DP+ D+  +V   + P +FGR+A Q+AKQV++Q++REAE
Sbjct: 63  NVVEEVDDSRQQISLEEAKKIDPNYDLNDIVEFEVTPREFGRIAAQTAKQVVVQRIREAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R+  Y E+ ++ G+I++G V+R E  NVIVDLG  + V+   E I  E  +P +R+K+Y+
Sbjct: 123 RELIYGEYINREGDIVTGVVQRYEQRNVIVDLGKVEAVLPPSEQIPGETYQPFERIKTYV 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V++  +GPQVLLSRTHP  + +LF +EVPEI++G V++KAV+R+ G+R+K+AV+S D 
Sbjct: 183 VEVKKTPKGPQVLLSRTHPGLIKRLFELEVPEIHDGFVEIKAVAREAGARSKIAVYSKDE 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           ++DPVGACVG +GSRVQ +V EL+ EK+DI+ WS D   FV NAL PA V  V    +  
Sbjct: 243 NVDPVGACVGPKGSRVQNIVNELKGEKMDIITWSQDPVEFVSNALSPAKVLGVFPRFEDK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              VIVP  QLSLAIG+ GQN RLA++LTGW IDI  E
Sbjct: 303 VTLVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKNE 340


>gi|269926028|ref|YP_003322651.1| NusA antitermination factor [Thermobaculum terrenum ATCC BAA-798]
 gi|269789688|gb|ACZ41829.1| NusA antitermination factor [Thermobaculum terrenum ATCC BAA-798]
          Length = 372

 Score =  306 bits (784), Expect = 5e-81,   Method: Compositional matrix adjust.
 Identities = 159/340 (46%), Positives = 228/340 (67%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
           R E       ++ E+ I RDV++  + ++++   R  Y    DI V+I+P TG  +++R+
Sbjct: 2   RGEFYAAISQLSLERGIPRDVLIKSVEEAVKAVYRKNYDASGDIEVKIDPNTGQATVYRV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           L+VVE V++   QISL  A+  D    IG VV   + P  FGR+A Q  KQV++QK+REA
Sbjct: 62  LQVVENVKDPKTQISLADAKKIDKEARIGSVVHQDVTPDTFGRIAAQMTKQVMLQKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E +  Y EF D+ GE+++G V+RVE G VIV LG ++ ++ + E +  EN +PG R+K  
Sbjct: 122 EHETIYKEFGDREGELVTGVVQRVENGLVIVQLGKAEAIMPKAEQVESENYKPGQRLKVL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V +  RGPQ+++SR     + +LF +EVPEIYNG V++KA++R PG R+K+AV +  
Sbjct: 182 LLKVVKTPRGPQLIVSRRDKNLLKRLFEIEVPEIYNGSVEIKAIARIPGVRSKIAVAARQ 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVG+CVG+RG+RVQ VV EL+ EKIDI+ WS D ATF+  AL PA V +V+LD++ 
Sbjct: 242 PGIDPVGSCVGVRGTRVQNVVDELQGEKIDIIQWSDDPATFIARALSPAQVNEVILDKET 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
               VIVP++QLSLAIG+ GQN RLA+ LTGW IDI + E
Sbjct: 302 KTATVIVPEKQLSLAIGKDGQNARLAANLTGWRIDIRSPE 341


>gi|260550521|ref|ZP_05824731.1| transcription termination/antitermination L factor [Acinetobacter
           sp. RUH2624]
 gi|260406436|gb|EEW99918.1| transcription termination/antitermination L factor [Acinetobacter
           sp. RUH2624]
          Length = 494

 Score =  306 bits (784), Expect = 6e-81,   Method: Compositional matrix adjust.
 Identities = 196/487 (40%), Positives = 293/487 (60%), Gaps = 19/487 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY--GTMSD---IRVEINPETGDISL 62
           E+L + + V+ EK + R+ +   +  ++  A +  +  GT ++   +RVEI+ +TGD   
Sbjct: 4   EILTVVETVSNEKGVSREAIFEALEQALVAATKKRFYEGTHAEEAQLRVEIDRKTGDYRT 63

Query: 63  FRLLEVV--EEVENYTCQISLKVARDRDPS-IDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           FR   VV  E+ E   CQ ++    D DPS   IG V    +  ++FGR+A Q AKQVI+
Sbjct: 64  FRQWTVVADEDHEMPACQDAIS---DVDPSKWSIGDVRELEVESIEFGRIAAQIAKQVIV 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           QK+REAER      ++ KVGE+I G VK+      I+DLG N++  + R+E I +E LRP
Sbjct: 121 QKIREAERALVADAYESKVGELIYGEVKKQTKDGFIIDLGDNAEAYLAREEMIPKEILRP 180

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
             RV + +Y+V RE RG Q+LLSR  P+ ++ L   E+PEI   I+++KA +R PG RAK
Sbjct: 181 KQRVNAILYNVNREGRGAQLLLSRAKPEMLIALMKKEIPEISEEIIEIKAAARQPGVRAK 240

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A ++ +AL PA V+ 
Sbjct: 241 IAVKTNDHRIDPVGACIGMRGTRIQAVQQELNGERIDVVVWSDDPAQYIASALEPADVSG 300

Query: 299 VVLDEDVGRIEVI-VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +VLDED    ++I    +QL+ AIG +GQNVRLAS LTG+ +D++ EEE    +Q +  +
Sbjct: 301 IVLDEDARSADIIFATSDQLARAIGSQGQNVRLASDLTGYKLDMMLEEEYRARQQNEAQQ 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F+  ++++E +A  LV  GF  +EE+A V       IE  D E    +Q RA+E  
Sbjct: 361 YLDMFVSRLDIEEDLAMALVEMGFTSLEEIAYVPAETFDEIE-LDAELVELLQSRAKEAA 419

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWS 474
               +  Q+ I+E   S +L ++ G+ S+I  +L   GI T++DLA  + DD+    G  
Sbjct: 420 LTDALKQQENIQE--PSADLLTMEGMTSEIAYSLAARGIITVDDLADQATDDISDIEGLD 477

Query: 475 ENKGGNI 481
             K G +
Sbjct: 478 HEKAGQL 484


>gi|310828067|ref|YP_003960424.1| hypothetical protein ELI_2479 [Eubacterium limosum KIST612]
 gi|308739801|gb|ADO37461.1| hypothetical protein ELI_2479 [Eubacterium limosum KIST612]
          Length = 411

 Score =  306 bits (784), Expect = 6e-81,   Method: Compositional matrix adjust.
 Identities = 149/334 (44%), Positives = 232/334 (69%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E ++  DA+  EK+ID++ ++  +  SI+ A +  YG + D+ V+++ +TG+I+++   +
Sbjct: 4   EFMRALDALEAEKNIDKEELIDAIEVSIESAYKKNYGNVQDVDVKLDRDTGEITVYATRD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VE+VEN   QISL+ AR+ DP+ ++G V    + P DFGR+A Q+AKQ+I+Q+++EAER
Sbjct: 64  IVEDVENLETQISLEEAREIDPTYEVGDVYRKVITPRDFGRIAAQNAKQLIVQRIKEAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y E+ ++  E+++G + R+E GNV VD+GNS+G +   E +  E   PG R+K Y+ 
Sbjct: 124 NMVYNEYLERQEEVMTGIINRIERGNVFVDIGNSEGCMPPMEQVPGEKYYPGQRLKVYLL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            VR+  +GPQ+ LSRTHP  + +LF  EVPEIY+GIV + ++SR+ GSR K+AV ++DSS
Sbjct: 184 MVRKTTKGPQLRLSRTHPGLVKRLFETEVPEIYDGIVDIVSISREAGSRTKIAVKANDSS 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G RVQ ++ EL  EKIDI+ +S D   ++ NAL PA + +++ ++    
Sbjct: 244 VDPVGACVGQKGIRVQNIINELNGEKIDIIKYSDDVREYLSNALSPAKIYRILPNKTEKT 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
              +V   QLSLAIG+ GQNVRLA++L  W IDI
Sbjct: 304 AIAVVDDFQLSLAIGKEGQNVRLAAKLASWKIDI 337


>gi|138894780|ref|YP_001125233.1| transcription elongation factor NusA [Geobacillus
           thermodenitrificans NG80-2]
 gi|196247596|ref|ZP_03146298.1| NusA antitermination factor [Geobacillus sp. G11MC16]
 gi|134266293|gb|ABO66488.1| N utilization substance protein A [Geobacillus thermodenitrificans
           NG80-2]
 gi|196212380|gb|EDY07137.1| NusA antitermination factor [Geobacillus sp. G11MC16]
          Length = 383

 Score =  306 bits (784), Expect = 6e-81,   Method: Compositional matrix adjust.
 Identities = 154/339 (45%), Positives = 229/339 (67%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +LL+    +  EK I ++V++  +  ++  A +  +G   ++RV++N +TG I +    +
Sbjct: 4   QLLEALADLMREKGISKEVIMEAIEAALVSAYKRNFGQAQNVRVDLNMDTGTIRVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISL+ A+  +P+  IG VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVEEVTDPRLEISLEEAQRLNPNYQIGDVVELEVTPRDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R++   V V LG ++ ++  +E +  E  +P DR+K YI 
Sbjct: 124 SIIYAEFVDREEDIMTGIVQRIDPRFVYVSLGKAEALLPANEQMPNETYKPHDRLKVYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+++R+ G R+K++V S +  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFELEVPEIYDGTVEIKSIAREAGDRSKISVHSDNPE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G RVQA+V EL  EKIDIV WS D   FV NAL PA V +V+++E+   
Sbjct: 244 VDPVGACVGPKGQRVQAIVDELHGEKIDIVRWSADPVEFVANALSPAKVLRVIVNEEQKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E E
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSESE 342


>gi|255319713|ref|ZP_05360921.1| transcription termination/antitermination, L factor [Acinetobacter
           radioresistens SK82]
 gi|262380005|ref|ZP_06073160.1| transcription termination factor NusA [Acinetobacter radioresistens
           SH164]
 gi|255303242|gb|EET82451.1| transcription termination/antitermination, L factor [Acinetobacter
           radioresistens SK82]
 gi|262298199|gb|EEY86113.1| transcription termination factor NusA [Acinetobacter radioresistens
           SH164]
          Length = 494

 Score =  306 bits (783), Expect = 7e-81,   Method: Compositional matrix adjust.
 Identities = 189/473 (39%), Positives = 291/473 (61%), Gaps = 16/473 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY--GTMSD---IRVEINPETGDISL 62
           E+L + + V+ EK + R+ +   +  ++  A +  +  GT ++   +RVEI+ +TGD   
Sbjct: 4   EILTVVETVSNEKGVSREAIFEALEQALVAATKKKFYEGTTAEEARLRVEIDRKTGDYRT 63

Query: 63  FRLLEVV--EEVENYTCQISLKVARDRDPS-IDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           FR  EVV  E+ E   CQ ++    D DP+   IG +    +  ++FGR+A Q AKQVI+
Sbjct: 64  FRQWEVVADEDHEMPACQDAIS---DVDPAKWSIGDIRELEVESIEFGRIAAQIAKQVIV 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           QK+REAER      ++ KVGE+I G VK+      I+DLG N++  + R+E I++E LRP
Sbjct: 121 QKIREAERALIADAYESKVGELIYGEVKKQTKDGFIIDLGDNAEAYLAREEMIAKEILRP 180

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
             R+ + +Y V RE RG Q+LLSR  P+ ++ L   E+PEI   I+++KA +R PG RAK
Sbjct: 181 KQRINAILYSVNREGRGAQLLLSRAKPEMLIALMKKEIPEISEEIIEIKAAARQPGVRAK 240

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A ++ +AL PA V+ 
Sbjct: 241 IAVKTNDHRIDPVGACIGMRGTRIQAVQQELNGERIDVVVWSDDPAQYIASALEPADVSG 300

Query: 299 VVLDEDVGRIEVI-VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +VLDED    ++I    +QL+ AIG +GQNVRLAS+LTG+ +D++ E+E    +Q +  +
Sbjct: 301 IVLDEDTHSADIIFATSDQLARAIGSQGQNVRLASELTGYKLDMMLEDEYRARQQNEAQQ 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F+  ++++E +A  LV  GF  +EE+A V       IE  D E    +Q RA+E  
Sbjct: 361 YLDMFVSRLDIEEDLAMALVEMGFTSLEEVAYVPAETFDEIE-LDTELVELLQSRAKEAA 419

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
               +  Q+ I++   SEEL ++ G+  +I  +L   G+ T++DLA  + DD+
Sbjct: 420 LADALKQQENIQD--PSEELLNMEGMTREIAYSLAARGVVTVDDLADQATDDI 470


>gi|89895266|ref|YP_518753.1| hypothetical protein DSY2520 [Desulfitobacterium hafniense Y51]
 gi|89334714|dbj|BAE84309.1| hypothetical protein [Desulfitobacterium hafniense Y51]
          Length = 493

 Score =  305 bits (782), Expect = 9e-81,   Method: Compositional matrix adjust.
 Identities = 157/374 (41%), Positives = 243/374 (64%), Gaps = 10/374 (2%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +E ++    +  ++ I  D++   +  ++  A +  + ++ ++RV I+  TG+  +F   
Sbjct: 3   MEFIEALHELEKDRGISADILFEAIEAALISAYKKNFASLQNVRVHIDRMTGEFKVFARK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VVEEVE+   Q+S++ AR  DP+  I  VV   + P +FGR+A Q+AKQV++Q++REAE
Sbjct: 63  NVVEEVEDARTQVSMEEARKIDPNYAIDDVVEYEVTPREFGRIAAQTAKQVVVQRIREAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R   Y E+ ++ G+I++G V+R +  NVIVDLG  + ++   E I  E  +P +R+K+++
Sbjct: 123 RGMIYDEYINREGDIVTGIVQRYDQKNVIVDLGKVEAILTAQEQIPGETYQPFERIKTFV 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V++  +GPQV+LSRTHP  + +LF +EVPEI++G+V++K VSR+ G+R+K+AV+S DS
Sbjct: 183 VEVKKTTKGPQVMLSRTHPGLIKRLFELEVPEIHDGLVEIKGVSREAGARSKIAVYSRDS 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           ++DPVGACVG +GSRVQ +VTEL+ EKIDIV +S D   FV NAL PA V  V    +  
Sbjct: 243 NVDPVGACVGPKGSRVQTIVTELKGEKIDIVNYSTDPEEFVANALSPAKVVGVYPKPNEK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE--------DSINRQKDFNER 358
              V+VP  QLSLAIG+ GQN RLA++LT W IDI +E +        D    Q ++ E 
Sbjct: 303 VALVVVPDYQLSLAIGKEGQNARLAAKLTNWKIDIKSESQALAQNLIPDKNEVQGEYEEY 362

Query: 359 TQF--FMQAINVDE 370
            +F  + +  N DE
Sbjct: 363 DEFADYAEYENYDE 376


>gi|184156669|ref|YP_001845008.1| transcription elongation factor NusA [Acinetobacter baumannii
           ACICU]
 gi|332873077|ref|ZP_08441034.1| transcription termination factor NusA [Acinetobacter baumannii
           6014059]
 gi|183208263|gb|ACC55661.1| Transcription elongation factor [Acinetobacter baumannii ACICU]
 gi|322506556|gb|ADX02010.1| nusA [Acinetobacter baumannii 1656-2]
 gi|323516435|gb|ADX90816.1| transcription elongation factor NusA [Acinetobacter baumannii
           TCDC-AB0715]
 gi|332738589|gb|EGJ69459.1| transcription termination factor NusA [Acinetobacter baumannii
           6014059]
          Length = 494

 Score =  305 bits (781), Expect = 1e-80,   Method: Compositional matrix adjust.
 Identities = 196/487 (40%), Positives = 292/487 (59%), Gaps = 19/487 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY--GTMSD---IRVEINPETGDISL 62
           E+L + + V+ EK + R+ +   +  ++  A +  +  GT S+   +RVEI+  TGD   
Sbjct: 4   EILTVVETVSNEKGVSREAIFEALEQALVAATKKKFYEGTNSEEAQLRVEIDRRTGDYRT 63

Query: 63  FRLLEVV--EEVENYTCQISLKVARDRDPS-IDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           FR   VV  E+ E   CQ ++    D DP+   IG V    +  ++FGR+A Q AKQVI+
Sbjct: 64  FRQWTVVADEDHEMPACQDAIS---DVDPAKWSIGDVRELEVESIEFGRIAAQIAKQVIV 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           QK+REAER      ++ KVGE+I G VK+      I+DLG N++  + R+E I +E LRP
Sbjct: 121 QKIREAERALVADAYESKVGELIYGEVKKQTKDGFIIDLGDNAEAYLAREEMIPKEILRP 180

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
             RV + +Y V RE RG Q+LLSR  P+ ++ L   E+PEI   I+++KA +R PG RAK
Sbjct: 181 KQRVNAILYSVNREGRGAQLLLSRAKPEMLIALMKKEIPEISEEIIEIKAAARQPGVRAK 240

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A ++ +AL PA V+ 
Sbjct: 241 IAVKTNDHRIDPVGACIGMRGTRIQAVQQELNGERIDVVVWSDDPAQYIASALEPADVSG 300

Query: 299 VVLDEDVGRIEVI-VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +VLDED    ++I    +QL+ AIG +GQNVRLAS LTG+ +D++ EEE    +Q +  +
Sbjct: 301 IVLDEDAKSADIIFATNDQLARAIGSQGQNVRLASDLTGYKLDMMLEEEYRARQQNEAQQ 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F+  ++++E +A  LV  GF  +EE+A V       IE  D E    +Q RA+E  
Sbjct: 361 YLDMFVSRLDIEEDLAMALVEMGFTSLEEIAYVPAETFDEIE-LDAELVELLQSRAKEAA 419

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWS 474
               +  Q+ I+E   S +L ++ G+ S+I  +L   GI T++DLA  + DD+    G  
Sbjct: 420 LTDALKQQENIQE--PSADLLNMEGMTSEIAYSLAARGIITVDDLADQATDDISDIEGLG 477

Query: 475 ENKGGNI 481
            +K G +
Sbjct: 478 HDKAGQL 484


>gi|293610134|ref|ZP_06692435.1| conserved hypothetical protein [Acinetobacter sp. SH024]
 gi|292827366|gb|EFF85730.1| conserved hypothetical protein [Acinetobacter sp. SH024]
 gi|325124307|gb|ADY83830.1| nusA; transcription elongation factor NusA [Acinetobacter
           calcoaceticus PHEA-2]
          Length = 494

 Score =  305 bits (781), Expect = 1e-80,   Method: Compositional matrix adjust.
 Identities = 195/487 (40%), Positives = 293/487 (60%), Gaps = 19/487 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY--GTMSD---IRVEINPETGDISL 62
           E+L + + V+ EK + R+ +   +  ++  A +  +  GT ++   +RVEI+ +TGD   
Sbjct: 4   EILTVVETVSNEKGVSREAIFEALEQALVAATKKRFYEGTHAEEAQLRVEIDRKTGDYRT 63

Query: 63  FRLLEVV--EEVENYTCQISLKVARDRDPS-IDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           FR   VV  E+ E   CQ ++    D DP+   IG V    +  ++FGR+A Q AKQVI+
Sbjct: 64  FRQWTVVADEDHEMPACQDAIS---DVDPAKWSIGDVRELEVESIEFGRIAAQIAKQVIV 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           QK+REAER      ++ KVGE+I G VK+      I+DLG N++  + R+E I +E LRP
Sbjct: 121 QKIREAERALVADAYESKVGELIYGEVKKQTKDGFIIDLGDNAEAYLAREEMIPKEILRP 180

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
             RV + +Y+V RE RG Q+LLSR  P+ ++ L   E+PEI   I+++KA +R PG RAK
Sbjct: 181 KQRVNAILYNVNREGRGAQLLLSRAKPEMLIALMKKEIPEISEEIIEIKAAARQPGVRAK 240

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A ++ +AL PA V+ 
Sbjct: 241 IAVKTNDHRIDPVGACIGMRGTRIQAVQQELNGERIDVVVWSDDPAQYIASALEPADVSG 300

Query: 299 VVLDEDVGRIEVI-VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +VLDED    ++I    +QL+ AIG +GQNVRLAS LTG+ +D++ EEE    +Q +  +
Sbjct: 301 IVLDEDARSADIIFATSDQLARAIGSQGQNVRLASDLTGYKLDMMLEEEYRARQQNEAQQ 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F+  ++++E +A  LV  GF  +EE+A V       IE  D E    +Q RA+E  
Sbjct: 361 YLDMFVSRLDIEEDLAMALVEMGFTSLEEIAYVPAETFDEIE-LDAELVELLQSRAKEAA 419

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWS 474
               +  Q+ I+E   S +L ++ G+ S+I  +L   GI T++DLA  + DD+    G  
Sbjct: 420 LTDALKQQENIQE--PSADLLTMEGMTSEIAYSLAARGIITVDDLADQATDDISDIEGLG 477

Query: 475 ENKGGNI 481
             K G +
Sbjct: 478 HEKAGQL 484


>gi|295696156|ref|YP_003589394.1| transcription termination factor NusA [Bacillus tusciae DSM 2912]
 gi|295411758|gb|ADG06250.1| transcription termination factor NusA [Bacillus tusciae DSM 2912]
          Length = 383

 Score =  305 bits (780), Expect = 1e-80,   Method: Compositional matrix adjust.
 Identities = 157/343 (45%), Positives = 222/343 (64%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           + ++  D +  EK I +DV++  +  ++    +  + + +++RV++N ETGD+ +F    
Sbjct: 4   DFIEALDQLEREKGISKDVLIEAIEAALISGYKRNFNSAANVRVDVNRETGDVRVFARKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEE  +   +ISL+ A    P   +G +V   + P DFGR+A Q+AKQV+ Q++REAER
Sbjct: 64  VVEETADPRMEISLEAAEQISPHYTVGDIVEIEVTPKDFGRIAAQTAKQVVTQRIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+ D+  +I++G V+R +     VDLG  + ++   E I  E L+ GDRVK++I 
Sbjct: 124 GLIYHEYLDREEDIVTGLVQRQDARYTYVDLGKVEALLPFHEQIPGEKLKQGDRVKAFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQVLLSRTHP  + +LF +EVPEIY G+V++K+V+R+ G R+K+AVFS    
Sbjct: 184 KVEKTTKGPQVLLSRTHPGLLKRLFELEVPEIYEGVVEIKSVAREAGHRSKIAVFSRKPE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG RG RVQ VV EL  EK+DIV WS D   FV NAL PA V  V + ED   
Sbjct: 244 VDPVGACVGPRGMRVQHVVAELHGEKVDIVKWSEDPEEFVKNALSPAKVVSVEIAEDERV 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
             VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E +   N
Sbjct: 304 ARVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQVEAN 346


>gi|332799221|ref|YP_004460720.1| NusA antitermination factor [Tepidanaerobacter sp. Re1]
 gi|332696956|gb|AEE91413.1| NusA antitermination factor [Tepidanaerobacter sp. Re1]
          Length = 357

 Score =  305 bits (780), Expect = 2e-80,   Method: Compositional matrix adjust.
 Identities = 146/335 (43%), Positives = 226/335 (67%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +E ++    +  EK I +D++L  +  S+  A +  YG+  ++ V I+ +TG++ +F   
Sbjct: 3   IEFIEALAQIEKEKGISKDILLDALEASLISAYKKNYGSSQNVSVSIDRDTGEVKVFSKK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            V +EV++   +I +  A   +P+  IG V+S  + P  FGR+A Q+AKQV++Q++REAE
Sbjct: 63  VVTDEVKDTLLEIDINEAYTFNPTAKIGDVISIEVTPKKFGRIAAQTAKQVVMQRIREAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           RD  + E+  +  +I++G V+R +  NVI+DLG ++ ++   E IS E    G+R+K YI
Sbjct: 123 RDLIFEEYSGRETDIVTGIVQRFDKKNVIIDLGKTEAILPTGEQISSEEYVQGNRIKVYI 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V++  +GPQ+ +SR+HP  + +LF +EVPEIY GIV++K ++R+ GSR K+AV+S + 
Sbjct: 183 LEVKKTTKGPQITVSRSHPGLVKRLFELEVPEIYEGIVEIKGIAREAGSRTKIAVYSKNE 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           +IDPVGACVG +GSRVQ++V EL  EKIDI+ W  D A F+ NAL PA V  V+++E+  
Sbjct: 243 NIDPVGACVGPKGSRVQSIVDELNGEKIDIIKWDKDVAEFISNALSPAKVLNVIVEENTK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
              V V + QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 303 TARVTVSESQLSLAIGKEGQNARLAARLTGWKIDI 337


>gi|169797408|ref|YP_001715201.1| transcription elongation factor NusA [Acinetobacter baumannii AYE]
 gi|213155778|ref|YP_002317823.1| transcription elongation factor NusA [Acinetobacter baumannii
           AB0057]
 gi|215484847|ref|YP_002327084.1| Transcription elongation protein nusA [Acinetobacter baumannii
           AB307-0294]
 gi|239500931|ref|ZP_04660241.1| transcription elongation factor NusA [Acinetobacter baumannii
           AB900]
 gi|260556300|ref|ZP_05828519.1| transcription termination factor NusA [Acinetobacter baumannii ATCC
           19606]
 gi|301346315|ref|ZP_07227056.1| transcription elongation factor NusA [Acinetobacter baumannii
           AB056]
 gi|301513268|ref|ZP_07238505.1| transcription elongation factor NusA [Acinetobacter baumannii
           AB058]
 gi|301596448|ref|ZP_07241456.1| transcription elongation factor NusA [Acinetobacter baumannii
           AB059]
 gi|332855373|ref|ZP_08435838.1| transcription termination factor NusA [Acinetobacter baumannii
           6013150]
 gi|332867631|ref|ZP_08437763.1| transcription termination factor NusA [Acinetobacter baumannii
           6013113]
 gi|169150335|emb|CAM88232.1| transcription termination/antitermination, L factor (N utilization
           substance protein A) [Acinetobacter baumannii AYE]
 gi|193076182|gb|ABO10797.2| transcription termination/antitermination L factor [Acinetobacter
           baumannii ATCC 17978]
 gi|213054938|gb|ACJ39840.1| transcription elongation factor NusA [Acinetobacter baumannii
           AB0057]
 gi|213986270|gb|ACJ56569.1| Transcription elongation protein nusA [Acinetobacter baumannii
           AB307-0294]
 gi|260410355|gb|EEX03654.1| transcription termination factor NusA [Acinetobacter baumannii ATCC
           19606]
 gi|332727505|gb|EGJ58931.1| transcription termination factor NusA [Acinetobacter baumannii
           6013150]
 gi|332733825|gb|EGJ64972.1| transcription termination factor NusA [Acinetobacter baumannii
           6013113]
          Length = 494

 Score =  305 bits (780), Expect = 2e-80,   Method: Compositional matrix adjust.
 Identities = 196/487 (40%), Positives = 291/487 (59%), Gaps = 19/487 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY--GTMSD---IRVEINPETGDISL 62
           E+L + + V+ EK + R+ +   +  ++  A +  +  GT S+   +RVEI+  TGD   
Sbjct: 4   EILTVVETVSNEKGVSREAIFEALEQALVAATKKKFYEGTNSEEAQLRVEIDRRTGDYRT 63

Query: 63  FRLLEVV--EEVENYTCQISLKVARDRDPS-IDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           FR   VV  E+ E   CQ ++    D DP+   IG V    +  ++FGR+A Q AKQVI+
Sbjct: 64  FRQWTVVADEDHEMPACQDAIS---DVDPAKWSIGDVRELEVESIEFGRIAAQIAKQVIV 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           QK+REAER      ++ KVGE+I G VK+      I+DLG N++  + R+E I +E LRP
Sbjct: 121 QKIREAERALVADAYESKVGELIYGEVKKQTKDGFIIDLGDNAEAYLAREEMIPKEILRP 180

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
             RV + +Y V RE RG Q+LLSR  P+ ++ L   E+PEI   I+++KA +R PG RAK
Sbjct: 181 KQRVNAILYSVNREGRGAQLLLSRAKPEMLIALMKKEIPEISEEIIEIKAAARQPGVRAK 240

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A ++ +AL PA V+ 
Sbjct: 241 IAVKTNDHRIDPVGACIGMRGTRIQAVQQELNGERIDVVVWSDDPAQYIASALEPADVSG 300

Query: 299 VVLDEDVGRIEVI-VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +VLDED    ++I    +QL+ AIG +GQNVRLAS LTG+ +D++ EEE    +Q +  +
Sbjct: 301 IVLDEDAKSADIIFATNDQLARAIGSQGQNVRLASDLTGYKLDMMLEEEYRARQQNEAQQ 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F+  ++++E +A  LV  GF  +EE+A V       IE  D E    +Q RA+E  
Sbjct: 361 YLDMFVSRLDIEEDLAMALVEMGFTSLEEIAYVPAETFDEIE-LDAELVELLQSRAKEAA 419

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWS 474
               +  Q+ I+E   S +L ++ G+ S+I  +L   GI T++DLA  + DD+    G  
Sbjct: 420 LTDALKQQENIQE--PSADLLNMEGMTSEIAYSLAARGIITVDDLADQATDDISDIEGLG 477

Query: 475 ENKGGNI 481
             K G +
Sbjct: 478 HEKAGQL 484


>gi|50083628|ref|YP_045138.1| transcription elongation factor NusA [Acinetobacter sp. ADP1]
 gi|49529604|emb|CAG67316.1| transcription termination/antitermination, L factor (N utilization
           substance protein A) [Acinetobacter sp. ADP1]
          Length = 494

 Score =  304 bits (779), Expect = 2e-80,   Method: Compositional matrix adjust.
 Identities = 193/487 (39%), Positives = 295/487 (60%), Gaps = 19/487 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY--GTMSD---IRVEINPETGDISL 62
           E+L + + V+ EK + R+ +   +  ++  A +  +  GT ++   +RVEI+ +TGD   
Sbjct: 4   EILTVVETVSNEKGVSREAIFEALEQALVAATKKKFYEGTNAEEAQLRVEIDRKTGDYRT 63

Query: 63  FRLLEVV--EEVENYTCQISLKVARDRDPS-IDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           FR   +V  E+ E   CQ ++    D D S   IG V    +  ++FGR+A Q AKQVI+
Sbjct: 64  FRQWTLVADEDHEMPACQDAIS---DVDASKWSIGDVRELEVESIEFGRIAAQIAKQVIV 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           QK+REAER      ++ KVGE+I G VK+      I+DLG N++  + R+E I++E LRP
Sbjct: 121 QKIREAERALIADAYESKVGELIYGEVKKQTKDGFIIDLGDNAEAYLAREEMIAKEILRP 180

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
             R+ + +Y V RE RG Q+LLSR  P+ ++ L   E+PEI   I+++KA +R PG RAK
Sbjct: 181 KQRMNAILYSVNREGRGAQLLLSRARPEMLMALMKKEIPEISEEIIEIKAAARQPGVRAK 240

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A ++ +AL PA V+ 
Sbjct: 241 IAVKTNDHRIDPVGACIGMRGTRIQAVQQELNGERIDVVVWSDDPAQYIASALEPADVSG 300

Query: 299 VVLDEDVGRIEVI-VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +VLDED    ++I    +QL+ AIG +GQNVRLAS+LTG+ +D++ EEE    +Q +  +
Sbjct: 301 IVLDEDTRSADIIFATNDQLARAIGSQGQNVRLASELTGYKLDMMLEEEYRARQQNEAQQ 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F+  ++++E +A  LV  GF  +EE+A V       IE  D+E    +Q RA+E  
Sbjct: 361 YLDMFVTRLDIEEDLAMALVEMGFTSLEEIAYVPPETFDEIE-LDQELVELLQSRAKEAA 419

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWS 474
               +  Q+ ++E  V  EL ++ G+  ++  AL   G+ T++DLA  + DD+    G S
Sbjct: 420 LTDALKQQENVQEPSV--ELLAMAGMTQELAYALAARGVVTVDDLADQATDDISDIEGLS 477

Query: 475 ENKGGNI 481
           E K G +
Sbjct: 478 EEKAGQL 484


>gi|126652571|ref|ZP_01724736.1| transcription elongation factor NusA [Bacillus sp. B14905]
 gi|126590699|gb|EAZ84815.1| transcription elongation factor NusA [Bacillus sp. B14905]
          Length = 379

 Score =  304 bits (778), Expect = 3e-80,   Method: Compositional matrix adjust.
 Identities = 152/337 (45%), Positives = 227/337 (67%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +LL   +A+  +K I RDV++  +  ++  A +  +    ++RV++N + G I +F   +
Sbjct: 4   DLLDALNALEEQKGISRDVLIEAIEAALVTAYKRNFNQAQNVRVDLNLDKGSIRVFSRKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+   QISL+ A+  +P+  +  +V   + P +FGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVEEVEDDRLQISLEDAKVINPAYQLEDIVEQEVTPRNFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y ++ D+  +I++G V+R++  N+ V LG  +  +  +E I  E  RP DR+K YI 
Sbjct: 124 GLIYEQYVDREDDIVTGVVERLDARNIYVGLGKVEAALPVNEQIQGETYRPHDRIKVYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V R  RGPQV++SRTHP  + +LF MEVPEIY GIV++K+++R+ G R+K++V++ +  
Sbjct: 184 KVERTTRGPQVIVSRTHPGLLRRLFEMEVPEIYEGIVEIKSIAREAGDRSKISVYAHNEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G+RVQ +V EL  EKIDIV WS D   FV NAL P+ V  V ++E+   
Sbjct: 244 VDPVGSCVGAKGARVQTIVNELNGEKIDIVEWSEDPVVFVANALSPSKVLDVQVNEEEKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 304 TTVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 340


>gi|88608874|ref|YP_506405.1| N utilization substance protein A [Neorickettsia sennetsu str.
           Miyayama]
 gi|88601043|gb|ABD46511.1| N utilization substance protein A [Neorickettsia sennetsu str.
           Miyayama]
          Length = 537

 Score =  304 bits (778), Expect = 3e-80,   Method: Compositional matrix adjust.
 Identities = 178/454 (39%), Positives = 277/454 (61%), Gaps = 29/454 (6%)

Query: 70  EEVENYTCQISLKVARDRDPSID--IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           EE  +Y   I L  AR + PSI+   G ++++ LP    G +  +  K  + + +    R
Sbjct: 102 EEKVHYDGVIDLSTARLKYPSIEHKAGDIITEHLPSFSSGYIIARVMKAKLERLITSLVR 161

Query: 128 DRQYLEFKDKVGEIISGTVKR-VEYG----NVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           ++QY  +K +VGEI++G VK+ +++     ++IVD+   +G++     +  E+ RPG+RV
Sbjct: 162 EKQYHCYKGRVGEIVTGIVKKSIDFKTGSRSIIVDIAGVEGLLPYSSLVKGESFRPGERV 221

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           K  I  V      PQ+LLSR+   F+ +LF  +VPEIY+ +V+++ V+RD GSR+K+AVF
Sbjct: 222 KCVIQKVEYSVVKPQILLSRSSGSFVAQLFSQQVPEIYDRVVEIRKVARDAGSRSKVAVF 281

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           SSD +IDPVGAC+GM GSR+ AVV EL  EKIDIV +S D+ATF+ NAL+P    K+ ++
Sbjct: 282 SSDRNIDPVGACIGMGGSRINAVVNELHGEKIDIVEYSNDTATFLANALKPIRPVKITVN 341

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+  +IE++VP E +SL IGR GQNV L S L G+ ++++++ E S  + ++F   T  F
Sbjct: 342 EETKKIELVVPDESVSLVIGRGGQNVYLLSSLLGYRVEVLSDAEFSKKKMEEFISGTARF 401

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           ++A+NV+E+IA LLV EGF+ VEE+A    S +A IEGFD++ A EI+ RA EY+     
Sbjct: 402 VEALNVEEVIAQLLVTEGFSTVEEIADCNTSRLAFIEGFDKDIAEEIRSRAVEYVN---- 457

Query: 423 TLQKKIRELG----VSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
              K++R L      +  + ++   D+ +   L  +G+  +E +A  S D+L    E  G
Sbjct: 458 EQPKRVRALAEKYKANPNMLALSSFDTGLLEVLFSSGLTDLEKVAELSCDEL---REVIG 514

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
            N     GF    G P   +E +II +R  +GW+
Sbjct: 515 DN-----GF----GVP--LLEQLIIRSRKTLGWL 537


>gi|323489587|ref|ZP_08094814.1| transcription elongation factor NusA [Planococcus donghaensis
           MPA1U2]
 gi|323396718|gb|EGA89537.1| transcription elongation factor NusA [Planococcus donghaensis
           MPA1U2]
          Length = 375

 Score =  304 bits (778), Expect = 3e-80,   Method: Compositional matrix adjust.
 Identities = 152/337 (45%), Positives = 228/337 (67%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  +K I R+V++  +  ++  A +  +    ++RV++N  TG + ++   +
Sbjct: 4   ELLDAFEVLEKQKGISREVLIEAIEAALVTAYKRNFNQAQNVRVDLNLNTGTMLVYSRKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+   QISL+ A+  +P+ ++G VV + + P +FGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVEEVEDERLQISLEDAKVINPAYELGDVVEEEVTPRNFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              + EF D+  +I++G V+R++  N+ V LG  + V+ + E +  E+ +P DR+K YI 
Sbjct: 124 GLIFEEFVDRADDIVNGIVERMDARNLYVGLGKVEAVLPQTEQMPNEHYKPHDRIKVYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V R  RGPQV +SRTHP  + +LF  EVPEIY+GIV++K+++R+ G R+K++VF+    
Sbjct: 184 KVERTTRGPQVFVSRTHPGLLRRLFENEVPEIYDGIVEIKSIAREAGDRSKISVFAHRDD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVG+CVG +G RVQ +V EL  EKIDIV WS +   FV NAL P+ V  V ++E+   
Sbjct: 244 IDPVGSCVGSKGGRVQTIVNELSGEKIDIVEWSEEPVIFVANALSPSKVLDVQVNEEAKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 304 TTVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 340


>gi|257453568|ref|ZP_05618858.1| transcription elongation factor NusA [Enhydrobacter aerosaccus
           SK60]
 gi|257449026|gb|EEV23979.1| transcription elongation factor NusA [Enhydrobacter aerosaccus
           SK60]
          Length = 493

 Score =  303 bits (777), Expect = 3e-80,   Method: Compositional matrix adjust.
 Identities = 184/488 (37%), Positives = 290/488 (59%), Gaps = 17/488 (3%)

Query: 5   NRLELLQIADAVAYEKSID-RDVVLSVMADSIQKAARSLYGTMSDI--RVEINPETGDIS 61
           NR E+L + + V+ EK ++  D+  ++    +    + +Y    ++  RV IN +TGD  
Sbjct: 2   NR-EILTVVETVSNEKGLNPEDIFEAIEQALVVSTKKKVYSEQPEVAVRVHINRKTGDYD 60

Query: 62  LFRLLEVV--EEVENYTCQISLKVARDRDPS-IDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            +R   VV  E+ E   CQ+++    D D +   IG V  + +  ++FGR+A   AKQVI
Sbjct: 61  TYRYWTVVADEDHEMPACQLAIS---DLDENEWKIGDVKEEQIESIEFGRIAATQAKQVI 117

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLR 177
           IQK+REAER      F+ ++GE+I+G VK+      I+DLG N +G + RD+ + RE LR
Sbjct: 118 IQKIREAERSLVADAFEHRIGEMITGEVKKPARDGYIIDLGDNVEGYLPRDKMLPREQLR 177

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
              R+ + +  V R+ RG Q++LSRT PQ +  L   EVPEI   I++++ V+R PG RA
Sbjct: 178 IKGRINAILEQVNRDNRGAQLVLSRTSPQMLTALMQKEVPEIAEQIIEIRDVARQPGLRA 237

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K++V ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D+  ++I+AL PA V 
Sbjct: 238 KISVKTNDHRIDPVGACIGMRGTRIQAVQQELEGERIDVVVWSDDAVQYIISALEPADVD 297

Query: 298 KVVLDEDVGRIEVI-VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN 356
           +++LDED    ++I    +QL+ AIG +GQNVRLAS+LTG+ ++++ E+E +  ++ +  
Sbjct: 298 RIILDEDTKTADIIFATNDQLARAIGSQGQNVRLASELTGYRLNMMLEDEYNAQQESETK 357

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
                F   + VDE +A  LV  GF  +EE+A V       I+G D++    IQ RA+E 
Sbjct: 358 VYRDLFYTRLEVDEDLAQALVDIGFTSLEEVAYVPAETFYDIDGLDDDAIDAIQERAKEA 417

Query: 417 LEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS---VDDLLGW 473
           +   ++  Q+ I+E   S+EL ++ G+       L E  + T++DLA  +   + D+ G 
Sbjct: 418 VIADELVKQQNIKE--PSQELLNLEGMTQAWAYKLAERDVITVDDLAEQAIFDIQDIEGL 475

Query: 474 SENKGGNI 481
            E   G +
Sbjct: 476 DEKTAGEL 483


>gi|121535260|ref|ZP_01667074.1| NusA antitermination factor [Thermosinus carboxydivorans Nor1]
 gi|121306145|gb|EAX47073.1| NusA antitermination factor [Thermosinus carboxydivorans Nor1]
          Length = 348

 Score =  303 bits (777), Expect = 4e-80,   Method: Compositional matrix adjust.
 Identities = 153/346 (44%), Positives = 235/346 (67%), Gaps = 3/346 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           MV+A   E +Q  + +  EK I  +++   +  ++  A +  +G+  ++RV ++  TG+I
Sbjct: 1   MVNA---EFMQAFEQLGKEKGIAPEILFDAIEAALISAYKRNFGSAQNVRVSLDRTTGEI 57

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            ++    VVE V++   ++SL+ AR  D   ++  VV   + P DFGR+A Q+AKQV++Q
Sbjct: 58  HVYARKTVVEVVKDPRLEMSLEEARAIDVRYELDDVVEIEVTPKDFGRIAAQTAKQVVVQ 117

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           ++REAER   Y EF ++  +I++G V+R+E  NV +DLG ++ ++   E I  E  + GD
Sbjct: 118 RIREAERGIIYEEFSNRESDIVTGIVQRIEQKNVYIDLGKAEAILTPSEQIPGEVYKHGD 177

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K+YI +V++  +GPQ+L+SRTHP  + +LF +EVPEI++G+V++K+V+R+PG R+K+A
Sbjct: 178 RLKTYIIEVKKTTKGPQILVSRTHPGLLKRLFELEVPEIHDGVVELKSVAREPGMRSKIA 237

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S D ++D VGACVG +G RVQ +V ELR EKIDIV WS D A F+ NAL PA V  V 
Sbjct: 238 VHSRDENVDAVGACVGHKGMRVQTIVNELRGEKIDIVKWSSDPAKFIANALSPAKVISVE 297

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           ++E     +V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E +
Sbjct: 298 VNETEKVSKVVVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQ 343


>gi|187251076|ref|YP_001875558.1| transcription termination factor [Elusimicrobium minutum Pei191]
 gi|186971236|gb|ACC98221.1| Transcription termination factor [Elusimicrobium minutum Pei191]
          Length = 463

 Score =  303 bits (776), Expect = 4e-80,   Method: Compositional matrix adjust.
 Identities = 164/443 (37%), Positives = 262/443 (59%), Gaps = 26/443 (5%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +  N  EL+   +++  EK+I RD ++  + D++  A R   G  + I  +INPE GDI 
Sbjct: 1   MEGNPKELMMALESLEREKNIKRDDIIKTIEDALVSALRKNLGKTAQISAKINPEEGDIK 60

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            F++L +VE V N   +ISL+ A+  D   ++GG +++ L   DF R+A Q AKQV+IQK
Sbjct: 61  AFQVLNIVEIVANPEMEISLEQAKAMDDRSEVGGTITNVLEVEDFSRIAAQIAKQVLIQK 120

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR  ER+  Y EFK + GE+I+G+V+R    +++VDLG  + ++   E I RE    G R
Sbjct: 121 VRGIERENTYKEFKPREGEVITGSVRRFSDRDIVVDLGKVEAILPYSEQIKRERYSNGSR 180

Query: 182 VKSYI-------------------------YDVRREQRGPQVLLSRTHPQFMVKLFHMEV 216
           +K+ I                         + + + QRGP V+LSRT P F+  LF +EV
Sbjct: 181 IKAIITKVLSQQDLLTIGEDPVLGRYKSAAFKMDKGQRGPYVILSRTSPAFLEDLFKVEV 240

Query: 217 PEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDI 276
           PEI  GIV++KA+ RDPG RAK+ V S D+ +DP+G CVGMRG R++A++ EL  E+ID+
Sbjct: 241 PEIGEGIVEIKAIQRDPGFRAKVVVRSYDNKVDPIGTCVGMRGIRIRAIMNELSGERIDL 300

Query: 277 VVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLT 335
           + +S D  T ++N++ PA    V ++  +  +  +IVP +QL++AIG+  QN++LAS+LT
Sbjct: 301 IPYSEDVTTMIMNSIAPARANSVKIISAEEKKALIIVPDDQLAIAIGKDWQNIKLASKLT 360

Query: 336 GWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEI 395
           GW +++ +E +     Q   +           +    A  LV  GF+ VE++A ++   +
Sbjct: 361 GWELEVKSESQKLQEGQATVDNLESLLASVEGIGPKTAETLVKAGFSSVEKIAALEPEHL 420

Query: 396 ASIEGFDEETAVEIQGRAREYLE 418
           A+++G  E++A +I   A++YLE
Sbjct: 421 ATVQGIGEKSAAKIIEGAKKYLE 443


>gi|169634554|ref|YP_001708290.1| transcription elongation factor NusA [Acinetobacter baumannii SDF]
 gi|169153346|emb|CAP02459.1| transcription termination/antitermination, L factor (N utilization
           substance protein A) [Acinetobacter baumannii]
          Length = 494

 Score =  303 bits (775), Expect = 5e-80,   Method: Compositional matrix adjust.
 Identities = 195/487 (40%), Positives = 291/487 (59%), Gaps = 19/487 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY--GTMSD---IRVEINPETGDISL 62
           E+L + + V+ EK + R+ +   +  ++  A +  +  GT S+   +RVEI+  TGD   
Sbjct: 4   EILTVVETVSNEKGVSREAIFEALEQALVAATKKKFYEGTNSEEAQLRVEIDRRTGDYRT 63

Query: 63  FRLLEVV--EEVENYTCQISLKVARDRDPS-IDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           FR   VV  ++ E   CQ ++    D DP+   IG V    +  ++FGR+A Q AKQVI+
Sbjct: 64  FRQWTVVADDDHEMPACQDAIS---DVDPAKWSIGDVRELEVESIEFGRIAAQIAKQVIV 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           QK+REAER      ++ KVGE+I G VK+      I+DLG N++  + R+E I +E LRP
Sbjct: 121 QKIREAERALVADAYESKVGELIYGEVKKQTKDGFIIDLGDNAEAYLAREEMIPKEILRP 180

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
             RV + +Y V RE RG Q+LLSR  P+ ++ L   E+PEI   I+++KA +R PG RAK
Sbjct: 181 KQRVNAILYSVNREGRGAQLLLSRAKPEMLIALMKKEIPEISEEIIEIKAAARQPGVRAK 240

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A ++ +AL PA V+ 
Sbjct: 241 IAVKTNDHRIDPVGACIGMRGTRIQAVQQELNGERIDVVVWSDDPAQYIASALEPADVSG 300

Query: 299 VVLDEDVGRIEVI-VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +VLDED    ++I    +QL+ AIG +GQNVRLAS LTG+ +D++ EEE    +Q +  +
Sbjct: 301 IVLDEDAKSADIIFATNDQLARAIGSQGQNVRLASDLTGYKLDMMLEEEYRARQQNEAQQ 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F+  ++++E +A  LV  GF  +EE+A V       IE  D E    +Q RA+E  
Sbjct: 361 YLDMFVSRLDIEEDLAMALVEMGFTSLEEIAYVPAETFDEIE-LDAELVELLQSRAKEAA 419

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWS 474
               +  Q+ I+E   S +L ++ G+ S+I  +L   GI T++DLA  + DD+    G  
Sbjct: 420 LTDALKQQENIQE--PSADLLNMEGMTSEIAYSLAARGIITVDDLADQATDDISDIEGLG 477

Query: 475 ENKGGNI 481
             K G +
Sbjct: 478 HEKAGQL 484


>gi|220931626|ref|YP_002508534.1| NusA antitermination factor [Halothermothrix orenii H 168]
 gi|219992936|gb|ACL69539.1| NusA antitermination factor [Halothermothrix orenii H 168]
          Length = 377

 Score =  303 bits (775), Expect = 6e-80,   Method: Compositional matrix adjust.
 Identities = 154/338 (45%), Positives = 232/338 (68%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +E L   D +  EK I ++V++  +  ++  A +  +G+  ++RV I P++G++ ++   
Sbjct: 3   IEFLHALDDIEKEKGISKEVLIEAIETALLSAYKKEFGSKENVRVHIVPDSGEVHVYSQK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           +VV+EV N   +ISL+ A+  + + + G +V   + P +FGR+A Q+AKQV++Q++REAE
Sbjct: 63  KVVDEVNNERKEISLEEAQKLNKNYEPGDIVEKEVTPANFGRIAAQTAKQVVMQRIREAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           RD  Y E+K K GEII+GTV+R    NV++DLG ++ ++   E I  E    G R+K Y+
Sbjct: 123 RDVIYEEYKQKEGEIITGTVQRFHNNNVLIDLGRTEALLPPSEQIPGELYEMGRRIKVYV 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V    +GP++L+SR+HP  + +LF +EVPEI++GIV++KAV+R+ G R+K+AV S D 
Sbjct: 183 VEVASTTKGPRILVSRSHPGLLKRLFEVEVPEIFDGIVEIKAVAREAGYRSKMAVSSYDE 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           ++DPVG+CVG +G RVQAVV +L  EKIDI+ WS D A  V NAL PA V  V LDE+  
Sbjct: 243 NVDPVGSCVGPKGMRVQAVVDQLNGEKIDIIEWSEDPAILVANALNPAKVINVSLDEEEK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             EV+VP  QLSLAIG+ GQN RLA++LTGW +DI +E
Sbjct: 303 VAEVVVPDFQLSLAIGKEGQNARLAAKLTGWKVDIKSE 340


>gi|296113981|ref|YP_003627919.1| transcription termination/antitermination protein NusA [Moraxella
           catarrhalis RH4]
 gi|295921675|gb|ADG62026.1| transcription termination/antitermination protein NusA [Moraxella
           catarrhalis RH4]
 gi|326559307|gb|EGE09734.1| transcription elongation factor NusA [Moraxella catarrhalis 7169]
 gi|326564317|gb|EGE14547.1| transcription elongation factor NusA [Moraxella catarrhalis
           103P14B1]
 gi|326565082|gb|EGE15275.1| transcription elongation factor NusA [Moraxella catarrhalis
           46P47B1]
 gi|326567250|gb|EGE17370.1| transcription elongation factor NusA [Moraxella catarrhalis
           12P80B1]
 gi|326568244|gb|EGE18326.1| transcription elongation factor NusA [Moraxella catarrhalis BC8]
 gi|326569945|gb|EGE19992.1| transcription elongation factor NusA [Moraxella catarrhalis BC1]
 gi|326570023|gb|EGE20069.1| transcription elongation factor NusA [Moraxella catarrhalis BC7]
 gi|326572881|gb|EGE22866.1| transcription elongation factor NusA [Moraxella catarrhalis CO72]
 gi|326573671|gb|EGE23629.1| transcription elongation factor NusA [Moraxella catarrhalis O35E]
 gi|326574706|gb|EGE24642.1| transcription elongation factor NusA [Moraxella catarrhalis
           101P30B1]
          Length = 493

 Score =  303 bits (775), Expect = 6e-80,   Method: Compositional matrix adjust.
 Identities = 186/472 (39%), Positives = 286/472 (60%), Gaps = 15/472 (3%)

Query: 8   ELLQIADAVAYEKSID-RDVVLSVMADSIQKAARSLYGTMSD--IRVEINPETGDISLFR 64
           E+L + + V+ EK ++  D+  ++    +    + +Y    +  IRV I+ +TG+   FR
Sbjct: 4   EILTVVETVSNEKGLNPEDIFEAIEQALVVSTKKKVYTEQPEVAIRVHIDRKTGNYDTFR 63

Query: 65  LLEVV--EEVENYTCQISLKVARDRDPS-IDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
              VV  E+ E   CQ+++    D D +   IG V  + +  ++FGR+A   AKQVIIQK
Sbjct: 64  YWTVVADEDHEMPACQLAIS---DLDENEWQIGDVKEEQIESIEFGRIAATQAKQVIIQK 120

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS-DGVIRRDETISRENLRPGD 180
           +REAER      F+ ++G++ISG +K+      IVDLG   +G + +D+T+ RE LR   
Sbjct: 121 IREAERALVADAFESRIGDLISGEIKKQSRDAYIVDLGEGGEGYLAKDQTLPRETLRVKS 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV + +  V R+ R PQ++LSRT  + ++ L + EVPEI   I++++ V+R PG RAK++
Sbjct: 181 RVSAILSQVNRDGRSPQLMLSRTSNEMLIALMNKEVPEISEQIIEIRDVARLPGLRAKIS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID++VW+ D A ++I+AL PA V  +V
Sbjct: 241 VKTNDHRIDPVGACIGMRGTRIQAVQQELDGERIDVIVWNEDPAQYIISALEPADVIGLV 300

Query: 301 LDEDVGRIEVI-VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           LDED    EVI    +QL+ AIG +GQNVRLAS+LTG+ +++I E E S  RQ   N+  
Sbjct: 301 LDEDAKTAEVIFATNDQLARAIGSQGQNVRLASELTGYKLNMILESEYS-ERQASENQAV 359

Query: 360 -QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
              F + + +D  +A +L   GFAD+E +A   + E   I+G D+ET   IQ RA+E + 
Sbjct: 360 IDLFYERLELDRDLAEVLAEVGFADIETVAYAPVEEFYEIDGLDDETITAIQERAKEVII 419

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
             +I  Q+ I+E   S EL ++  +   I   L E  I T++DLA  ++ D+
Sbjct: 420 SDEIAKQQNIKE--PSAELLALEDMTPAIAYKLAERDIITLDDLAEQAIFDI 469


>gi|299534743|ref|ZP_07048073.1| transcription elongation factor NusA [Lysinibacillus fusiformis
           ZC1]
 gi|298729831|gb|EFI70376.1| transcription elongation factor NusA [Lysinibacillus fusiformis
           ZC1]
          Length = 379

 Score =  303 bits (775), Expect = 6e-80,   Method: Compositional matrix adjust.
 Identities = 152/337 (45%), Positives = 227/337 (67%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +LL   +A+  +K I RDV++  +  ++  A +  +    ++RV++N + G I +F   +
Sbjct: 4   DLLDALNALEEQKGISRDVLIEAIEAALVTAYKRNFNQAQNVRVDLNLDKGSIRVFSRKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+   QISL+ A+  +P+  +  +V   + P +FGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVEEVEDDRLQISLEDAKVINPAYQLEDIVEQEVTPRNFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y ++ D+  +I++G V+R++  N+ V LG  +  +  +E I  E+  P DR+K YI 
Sbjct: 124 GLIYEQYVDREDDIVTGVVERLDARNIYVGLGKVEAALPVNEQIQGESYHPHDRIKVYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V R  RGPQV++SRTHP  + +LF MEVPEIY GIV++K+++R+ G R+K++VF+ +  
Sbjct: 184 KVERTTRGPQVIVSRTHPGLLRRLFEMEVPEIYEGIVEIKSIAREAGDRSKISVFAHNEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G+RVQ +V EL  EKIDIV WS D   FV NAL P+ V  V ++E+   
Sbjct: 244 VDPVGSCVGAKGARVQTIVNELNGEKIDIVEWSEDPVIFVANALSPSKVLDVQVNEEEKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 304 TTVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 340


>gi|188586067|ref|YP_001917612.1| NusA antitermination factor [Natranaerobius thermophilus
           JW/NM-WN-LF]
 gi|179350754|gb|ACB85024.1| NusA antitermination factor [Natranaerobius thermophilus
           JW/NM-WN-LF]
          Length = 380

 Score =  303 bits (775), Expect = 7e-80,   Method: Compositional matrix adjust.
 Identities = 143/327 (43%), Positives = 226/327 (69%), Gaps = 1/327 (0%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           +K I++D++   +  ++  A +  + +  ++RV +  ETGD+ ++   +VVEEVEN   Q
Sbjct: 15  DKGINKDILFEAIEAALISAYKRNFDSDKNVRVHMERETGDVRVYHQKQVVEEVENPKEQ 74

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           ISL+ AR   P  ++  +V + + P +FGR+A Q+AKQV+IQ++REAER+  Y E+ DK 
Sbjct: 75  ISLEEARKISPGYEVDDLVEEEVTPKNFGRIAAQTAKQVVIQRIREAERELIYEEYVDKQ 134

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
            +II+G V+R+E  NVI+DLG  + ++   E +  +    GDR+K+Y+ +V++  + PQ+
Sbjct: 135 DDIINGIVQRIEQKNVIIDLGKVEAILPPQEQMDTDEYNQGDRIKAYVVEVKKTTKEPQI 194

Query: 199 LLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMR 258
           +LSRTHP  + +L  +EVPEIY+G V++K ++R+ G R+K+AV+S    +DPVG+CVG +
Sbjct: 195 ILSRTHPGLIKRLLELEVPEIYDGTVEIKGIAREAGYRSKVAVYSRHEEVDPVGSCVGNK 254

Query: 259 GSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQL 317
           GSR+Q++V EL+ E ID++ WS D   F+ N+L P+ V +V VLDE   +  V+VP  QL
Sbjct: 255 GSRIQSIVDELKGENIDVITWSSDPVVFISNSLSPSKVLEVKVLDEQDQKARVVVPDHQL 314

Query: 318 SLAIGRRGQNVRLASQLTGWTIDIITE 344
           SLAIG+ GQN RLA++LT W IDI++E
Sbjct: 315 SLAIGKEGQNARLAAKLTNWKIDILSE 341


>gi|262377017|ref|ZP_06070243.1| transcription termination factor NusA [Acinetobacter lwoffii SH145]
 gi|262308055|gb|EEY89192.1| transcription termination factor NusA [Acinetobacter lwoffii SH145]
          Length = 494

 Score =  303 bits (775), Expect = 7e-80,   Method: Compositional matrix adjust.
 Identities = 194/487 (39%), Positives = 291/487 (59%), Gaps = 19/487 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY--GTMSD---IRVEINPETGDISL 62
           E+L + + V+ EK + R+ +   +  ++  A +  +  GT S+   +RVEI+ +TGD   
Sbjct: 4   EILTVVETVSNEKGVPREAIFEALEQALVAATKKKFYEGTHSEEARLRVEIDRKTGDYRT 63

Query: 63  FRLLEVV--EEVENYTCQISLKVARDRDPS-IDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           FR  EVV  E+ E   CQ ++    D DP+   IG +    +  +DFGR+A Q AKQVI+
Sbjct: 64  FRQWEVVADEDHEMPACQDAIS---DVDPAKWSIGDIRELEVESIDFGRIAAQIAKQVIV 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           QK+REAER      ++ KVGE+I G VK+      I+DLG N++  + R+E I +E LRP
Sbjct: 121 QKIREAERALVADAYESKVGELIYGEVKKQTKDGFIIDLGDNAEAYLAREEMIPKEILRP 180

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
             RV + +++V RE RG Q+ LSR  P  ++ L   E+PEI   I+++KA +R PG RAK
Sbjct: 181 KQRVNAILFNVNREGRGAQLQLSRAKPDMLIALMKKEIPEISEEIIEIKAAARQPGVRAK 240

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A ++ +AL PA V+ 
Sbjct: 241 IAVKTNDHRIDPVGACIGMRGTRIQAVQQELNGERIDVVVWSDDPAQYIASALEPADVSS 300

Query: 299 VVLDEDVGRIEVI-VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +V+DED    ++I    +QL+ AIG +GQNVRLAS+LTG+ +D++ EEE    +Q +  +
Sbjct: 301 IVIDEDARTADIIFATSDQLARAIGSQGQNVRLASELTGYKLDMMLEEEYYARQQNEAQQ 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F+  +++ E +A  LV  GF  +EE+A V       IE  D E    +Q RA+E  
Sbjct: 361 YLDMFVTRLDIAEDLAMALVEMGFTSLEEIAYVPAETFDEIE-LDAELVELLQSRAKEIA 419

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVD---DLLGWS 474
               +  Q+ I+    SEEL ++ G+  +I  AL   G+ T++DLA  + D   D+ G  
Sbjct: 420 LADALQQQENIQ--APSEELVAMEGMTVEIAQALAARGVVTVDDLADQATDDIEDIEGLG 477

Query: 475 ENKGGNI 481
             K G +
Sbjct: 478 AEKAGQL 484


>gi|225874866|ref|YP_002756325.1| transcription termination factor NusA [Acidobacterium capsulatum
           ATCC 51196]
 gi|225794228|gb|ACO34318.1| transcription termination factor NusA [Acidobacterium capsulatum
           ATCC 51196]
          Length = 548

 Score =  303 bits (775), Expect = 7e-80,   Method: Compositional matrix adjust.
 Identities = 175/422 (41%), Positives = 258/422 (61%), Gaps = 17/422 (4%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLF---RL 65
           L Q  +A++ +K ID +VV+  + D+I  A R  Y T  ++R E++ ETG+I  +    +
Sbjct: 5   LYQSIEALSRDKGIDPEVVVGAVEDAIALATRKYYKTQENMRAELDRETGEIRAYIYKAV 64

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           +E  E +E+   QI+L+ AR   P +++GG +    P    GR+A Q AKQVI QKVREA
Sbjct: 65  VETPELIEDPLNQITLEEARQLAPGVEVGGEIRFYKPTDVLGRIAAQMAKQVIFQKVREA 124

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ERD  + E+  +VGE+++ TVKRVE  +VI DLG ++  + + E    E    G+RV+  
Sbjct: 125 ERDTVFNEYAHRVGEVLTATVKRVEMQDVIFDLGKAEARMPKREQSRLEQFSVGERVRVV 184

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V R  +GPQV++SR  P+ +  LF  EVPEIY+  V ++A++R+ G R K+AV S D
Sbjct: 185 LLRVDRAAKGPQVIVSRAAPELVTSLFQGEVPEIYDNTVTIRAIAREAGERTKIAVMSRD 244

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
             +DPVGACVGM+G RVQ+++ ELR EKIDI+ +S +  TF   AL+PA V++V + D  
Sbjct: 245 KDVDPVGACVGMKGMRVQSIIRELRGEKIDIIEFSEEVTTFAERALQPAKVSRVSIADLS 304

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +EVIV   QLSLAIG++GQNVRLA++L GW IDI +EEE    ++++  ++   F Q
Sbjct: 305 EKHLEVIVDDTQLSLAIGKKGQNVRLAAKLLGWKIDIKSEEE----KRQEVEQQMGGFAQ 360

Query: 365 ---AINVDEI------IAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
              A  ++E+      I   LVA G   VE LA +   ++  I G  E+T  +I    R 
Sbjct: 361 GGTATAIEEVKELGESIIQKLVAAGITTVESLADMTPEQLEEIPGIGEKTLEKISTAVRH 420

Query: 416 YL 417
           Y 
Sbjct: 421 YF 422


>gi|219669697|ref|YP_002460132.1| NusA antitermination factor [Desulfitobacterium hafniense DCB-2]
 gi|219539957|gb|ACL21696.1| NusA antitermination factor [Desulfitobacterium hafniense DCB-2]
          Length = 493

 Score =  302 bits (774), Expect = 7e-80,   Method: Compositional matrix adjust.
 Identities = 148/338 (43%), Positives = 230/338 (68%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +E ++    +  ++ I  D++   +  ++  A +  + ++ ++RV I+  TG+  +F   
Sbjct: 3   MEFIEALHELEKDRGISADILFEAIEAALISAYKKNFASLQNVRVHIDRMTGEFKVFARK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VVEEVE+   Q+S++ A+  DP+  I  VV   + P +FGR+A Q+AKQV++Q++REAE
Sbjct: 63  NVVEEVEDSRTQVSMEEAQKIDPNYAIDDVVEYEVTPREFGRIAAQTAKQVVVQRIREAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R   Y E+ ++ G+I++G V+R +  NVIVDLG  + ++   E I  E  +P +R+K+++
Sbjct: 123 RGMIYDEYINREGDIVTGIVQRYDQKNVIVDLGKVEAILTAQEQIPGETYQPFERIKTFV 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V++  +GPQV+LSRTHP  + +LF +EVPEI++G+V++K VSR+ G+R+K+AV+S D+
Sbjct: 183 VEVKKTTKGPQVMLSRTHPGLIKRLFELEVPEIHDGLVEIKGVSREAGARSKIAVYSRDA 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           ++DPVGACVG +GSRVQ +VTEL+ EKIDIV +S D   FV NAL PA V  V    +  
Sbjct: 243 NVDPVGACVGPKGSRVQTIVTELKGEKIDIVNYSTDPEEFVANALSPAKVVGVYPKPNEK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              V+VP  QLSLAIG+ GQN RLA++LT W IDI +E
Sbjct: 303 VALVVVPDYQLSLAIGKEGQNARLAAKLTNWKIDIKSE 340


>gi|254796878|ref|YP_003081715.1| N utilization substance protein A [Neorickettsia risticii str.
           Illinois]
 gi|254590114|gb|ACT69476.1| N utilization substance protein A [Neorickettsia risticii str.
           Illinois]
          Length = 537

 Score =  302 bits (774), Expect = 7e-80,   Method: Compositional matrix adjust.
 Identities = 171/441 (38%), Positives = 272/441 (61%), Gaps = 21/441 (4%)

Query: 79  ISLKVARDRDPSID--IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
           I L  A+ + P+++   G ++++ LP    G +  +  K  + + +    R++QY  +K 
Sbjct: 111 IDLSTAKLKYPNVEHKAGDIITERLPSFSSGYIIARVMKAKLERLITSLVREKQYHCYKG 170

Query: 137 KVGEIISGTVKR-VEYG----NVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRR 191
           +VGEI++G VK+ +++     ++IVD+   +G++     +  E+ RPG+RVK  I  V  
Sbjct: 171 RVGEIVTGIVKKSIDFKAGSRSIIVDIAGVEGLLPYSSLVKGESFRPGERVKCVIQKVEY 230

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPV 251
               PQ+LLSR+   F+ +LF  +VPEIY+ +V++K V+RD GSR+K+AVFSSD +IDPV
Sbjct: 231 SVIKPQILLSRSSGSFVAQLFSQQVPEIYDRVVEIKKVARDAGSRSKVAVFSSDRNIDPV 290

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI 311
           GAC+GM GSR+ AVV+EL  EKID+V +S D+ATF+ NAL+P    K+ ++E+V +IE++
Sbjct: 291 GACIGMGGSRINAVVSELHGEKIDVVEYSSDTATFLANALKPIRPVKIAVNEEVKKIELV 350

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEI 371
           VP E +SL IGR GQNV L S L G+ ++++++ E S  + ++F   T  F++A+NV+E+
Sbjct: 351 VPDESVSLVIGRGGQNVYLLSSLLGYRVEVLSDAEVSKKKMEEFISGTARFVEALNVEEV 410

Query: 372 IAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIREL 431
           IA LLV EGF+ VEE+A    S +A IEGFDE+ A EI+ RA EY+       Q  + + 
Sbjct: 411 IAQLLVTEGFSTVEEIADCNTSRLAFIEGFDEDVAEEIRSRAVEYVNEQPKRTQALVEKY 470

Query: 432 GVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSL 491
             +  + ++   D+ +   L  +G+  +E +A  S D+L    E  G N     GF   L
Sbjct: 471 KANPNMLALSSFDTGLLEVLFSSGLTDLEKVAELSCDEL---REVIGDN-----GFAVPL 522

Query: 492 GTPKDQVESMIIHARYKMGWI 512
                 +E +II +R  +GW+
Sbjct: 523 ------LEQLIIRSRETLGWL 537


>gi|262370081|ref|ZP_06063408.1| transcription termination/antitermination protein [Acinetobacter
           johnsonii SH046]
 gi|262315120|gb|EEY96160.1| transcription termination/antitermination protein [Acinetobacter
           johnsonii SH046]
          Length = 494

 Score =  302 bits (774), Expect = 8e-80,   Method: Compositional matrix adjust.
 Identities = 188/473 (39%), Positives = 292/473 (61%), Gaps = 16/473 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY--GTMSD---IRVEINPETGDISL 62
           E+L + + V+ EK + R+ +   +  ++  A +  +  GT S+   +RVEI+ +TG+ S 
Sbjct: 4   EILTVVETVSNEKGVPREAIFEALEQALVAATKKKFYEGTNSEEAQLRVEIDRKTGEYST 63

Query: 63  FRLLEVV--EEVENYTCQISLKVARDRDPS-IDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           FR  EVV  E+ E   CQ ++    D DP+   IG +    +P +DFGR+A Q AKQVI+
Sbjct: 64  FRQWEVVADEDHEMPACQDAIS---DVDPAQWSIGDIRELEVPSIDFGRIAAQIAKQVIV 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           QK+REAER      ++ KVGE+I G VK+      I+DLG N++  + R+E I++E LRP
Sbjct: 121 QKIREAERALIADAYESKVGELIYGEVKKQTKDGFIIDLGDNAEAYLAREEMIAKEILRP 180

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
             RV + +++V RE RG Q+ LSR  P+ ++ L   E+PEI   I+++KA +R PG RAK
Sbjct: 181 KQRVNAILFNVNREGRGAQLQLSRAKPEMLIALMKKEIPEISEEIIEIKAAARQPGVRAK 240

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A ++ +AL PA V+ 
Sbjct: 241 IAVKTNDHRIDPVGACIGMRGTRIQAVQQELNGERIDVVVWSDDPAQYIASALEPADVSG 300

Query: 299 VVLDEDVGRIEVI-VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +V+DE+    ++I    +QL+ AIG +GQNVRLAS+LTG+ ++++ E+E    +Q +  +
Sbjct: 301 IVIDEEERTADIIFATSDQLARAIGSQGQNVRLASELTGYKLNMMLEDEYHARQQNEAQQ 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F+  ++++E +A  LV  GF  +EE+A V       IE  D E    +Q RA+E  
Sbjct: 361 YLDLFVSRLDIEEDLAMALVEMGFTSLEEIAYVPAETFDEIE-LDAEVVELLQSRAKEVA 419

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
               +  Q+ I++   S EL ++ G+  +I  AL   G+ T++DLA  + DD+
Sbjct: 420 LADALQQQENIQD--PSAELVAMEGMTQEIAYALAARGVITIDDLADQATDDI 470


>gi|313888283|ref|ZP_07821954.1| transcription termination factor NusA [Peptoniphilus harei
           ACS-146-V-Sch2b]
 gi|312845686|gb|EFR33076.1| transcription termination factor NusA [Peptoniphilus harei
           ACS-146-V-Sch2b]
          Length = 411

 Score =  301 bits (772), Expect = 1e-79,   Method: Compositional matrix adjust.
 Identities = 164/412 (39%), Positives = 254/412 (61%), Gaps = 19/412 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E +     +  EK I +++V   +  ++  + R  YGT  ++ V ++ ETG+I LF   +
Sbjct: 4   EFIDALSEIEKEKGISKEIVFEALESALVSSYRKNYGTSENVIVNMDRETGEIKLFASKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VE+VE+   +ISL  A+  +P+ +IG V +  + P +FGR+A Q+AKQV+IQ++++AER
Sbjct: 64  IVEKVEDPQLEISLDEAKKINPNYEIGDVYNQEIHPKNFGRIAAQTAKQVVIQRIKDAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           D  + E+ ++  EII+G V+R  Y NV VDLG+++ ++   E IS E+   GDR K  I 
Sbjct: 124 DIVFDEYVEREKEIITGLVQRKSYNNVYVDLGSTEAILPYSEQISGESYNHGDRYKMLIL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ++LSR+HP  + +LF +E+PE+  GIV++ ++SR+ GSR K+AVFS D  
Sbjct: 184 SVEKSTKGPQIVLSRSHPDLIKRLFELEIPEVSEGIVEIYSISREAGSRTKIAVFSRDPE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DP+GACVG +G RV A+V E+ +EKIDIV++  +   F+ N+L P+ V KV ++E    
Sbjct: 244 VDPLGACVGYKGQRVNAIVDEIDNEKIDIVIYEKEIDKFIANSLSPSKVEKVFVNEAEKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-------EEDSINRQKDFNERTQ 360
              IVP  QLSLAIG+ GQNVRLA++LTGW IDI +        EE +I  +    E   
Sbjct: 304 ALAIVPDYQLSLAIGKEGQNVRLAAKLTGWKIDIKSNLQFEEYLEERNITEEDLIEEYEN 363

Query: 361 FFMQAINVDEIIAHLLVAE----GFADVEELACVKISEIASIEGFDEETAVE 408
              +  NV+E+   L   E       D+E+  C       ++E  DEE++VE
Sbjct: 364 AVKE--NVEEVSEDLNNPEEQDIKIDDIEDEVC------GNLENADEESSVE 407


>gi|169827165|ref|YP_001697323.1| transcription elongation factor NusA [Lysinibacillus sphaericus
           C3-41]
 gi|168991653|gb|ACA39193.1| Transcription elongation protein [Lysinibacillus sphaericus C3-41]
          Length = 379

 Score =  301 bits (772), Expect = 1e-79,   Method: Compositional matrix adjust.
 Identities = 151/337 (44%), Positives = 226/337 (67%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +LL   +A+  +K I RDV++  +  ++  A +  +    ++RV++N + G I +F   +
Sbjct: 4   DLLDALNALEEQKGISRDVLIEAIEAALVTAYKRNFNQAQNVRVDLNLDKGSIRVFSRKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+   QISL+ A+  +P+  +  +V   + P +FGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVEEVEDDRLQISLEDAKVINPAYQLEDIVEQEVTPRNFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y ++ D+  +I++G V+R++  N+ V LG  +  +  +E I  E   P DR+K YI 
Sbjct: 124 GLIYEQYVDREDDIVTGVVERLDARNIYVGLGKVEAALPVNEQIQGETYHPHDRIKVYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V R  RGPQV++SRTHP  + +LF MEVPEIY GIV++K+++R+ G R+K++V++ +  
Sbjct: 184 KVERTTRGPQVIVSRTHPGLLRRLFEMEVPEIYEGIVEIKSIAREAGDRSKISVYAHNEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G+RVQ +V EL  EKIDIV WS D   FV NAL P+ V  V ++E+   
Sbjct: 244 VDPVGSCVGAKGARVQTIVNELNGEKIDIVEWSEDPVVFVANALSPSKVLDVQVNEEEKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 304 TTVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 340


>gi|303240818|ref|ZP_07327331.1| transcription termination factor NusA [Acetivibrio cellulolyticus
           CD2]
 gi|302591706|gb|EFL61441.1| transcription termination factor NusA [Acetivibrio cellulolyticus
           CD2]
          Length = 371

 Score =  301 bits (772), Expect = 1e-79,   Method: Compositional matrix adjust.
 Identities = 143/339 (42%), Positives = 230/339 (67%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L+   + +  EK I++D+++  +  ++  A +  +G+  ++RV ++ +TGD  ++ L  
Sbjct: 4   DLIHALEQLEKEKGIEKDIIIEAIEAALISAYKRNFGSSQNVRVSVDRQTGDFKVYALKR 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V  + +N    IS++ A+  +  +D   +    + P  FGR+A Q+AKQV++Q++REAER
Sbjct: 64  VTSDPQNEYMDISVENAKKINAELDEEDMAEVEVTPKKFGRIAAQTAKQVVVQRLREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              + EF +K  EI++G V+R E  NVI+DLG ++ V+   E IS E  +  DR+K Y+ 
Sbjct: 124 GIIFDEFSNKEAEIVTGIVQRTEKKNVIIDLGKTEAVLAPTEQISGEEYKFNDRIKVYVI 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+R  +GPQ+++SRTHP  + +LF +EVPEI+ G+V++K++SR+PGSR K+AV+S D +
Sbjct: 184 EVKRTTKGPQIMVSRTHPGLIKRLFELEVPEIHEGVVEIKSISREPGSRTKIAVYSKDDN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G+RVQ +V ELR EKIDI+ WS +   ++ ++L PA V +V + E+   
Sbjct: 244 VDPVGACVGQKGTRVQTIVDELRGEKIDIIKWSSNPQEYISSSLSPAKVVRVDISEEEKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            +V VP  QLSLAIG+ GQN RLA++LTGW IDI +E +
Sbjct: 304 AKVTVPDFQLSLAIGKEGQNARLAAKLTGWKIDIKSESQ 342


>gi|284108775|ref|ZP_06386440.1| transcription elongation factor NusA [Candidatus Poribacteria sp.
           WGA-A3]
 gi|283829849|gb|EFC34140.1| transcription elongation factor NusA [Candidatus Poribacteria sp.
           WGA-A3]
          Length = 404

 Score =  301 bits (771), Expect = 2e-79,   Method: Compositional matrix adjust.
 Identities = 154/338 (45%), Positives = 226/338 (66%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
           + EL+ + + V  EK ID+  VL+ +  ++  AA+  YG   +I+V+I+PETG+IS+  L
Sbjct: 2   KHELMAVIEQVGREKGIDKHRVLAAVESALLTAAKKRYGNNENIQVQIDPETGEISIVSL 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             + +++ +   QISL  AR  D   ++G  +   +   +FGR+A Q+AKQVI QKVREA
Sbjct: 62  KTIADQITDVNAQISLDEARAIDGEAELGDEIGSLIDVEEFGRIAAQAAKQVICQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
             +    E+  + G+++ G +   E  N +V++G ++ V+   E I RE  R GDRV++ 
Sbjct: 122 TWEAVEREYSKREGDLVHGIILGQERRNYLVEIGKTEAVLPVHEQIPREVHRRGDRVRAL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +VRR  +  QV+LSR HPQF+VKLF +EVPE+   I+++K V R+PG R K+AVFS D
Sbjct: 182 LLEVRRTPKDVQVILSRAHPQFVVKLFQLEVPEVTEKILEIKGVVREPGDRTKIAVFSKD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVGACVG++GSRVQA+V EL+ EKIDI+ W+ D   F+  AL PA + KV +DE+ 
Sbjct: 242 KAVDPVGACVGIKGSRVQAIVRELKGEKIDIIPWTTDPRVFIGEALNPASIEKVGIDEEK 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
               V+V   QLSLAIG+ GQNVRLA++LTGW IDII+
Sbjct: 302 KAALVVVADSQLSLAIGKNGQNVRLAAKLTGWKIDIIS 339


>gi|258516334|ref|YP_003192556.1| transcription elongation factor NusA [Desulfotomaculum acetoxidans
           DSM 771]
 gi|257780039|gb|ACV63933.1| NusA antitermination factor [Desulfotomaculum acetoxidans DSM 771]
          Length = 381

 Score =  301 bits (771), Expect = 2e-79,   Method: Compositional matrix adjust.
 Identities = 144/328 (43%), Positives = 226/328 (68%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I  DV++  +  ++  A +  +G++ + RV I+ ETGD  ++    V EEV++   +
Sbjct: 15  EKGIAVDVLIDAIEAALLSAYKRNFGSLQNARVHIDRETGDFKVYSQRTVTEEVQDDRLE 74

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           I+L  A+  DP  ++G VV + + P +FGR+A Q+AKQV++Q++REAER+  Y  F  + 
Sbjct: 75  ITLADAQKIDPRFELGDVVENEVTPRNFGRIAAQTAKQVVVQRIREAERNIIYETFSSRE 134

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
            +II+G V+R+E  N+ ++LG ++ ++   E +  E  + GDR+K+YI +VR+  +GPQ+
Sbjct: 135 SDIITGVVQRIEQKNIYIELGKTEAILTPSEQMPNETYKHGDRIKAYIVEVRKTTKGPQI 194

Query: 199 LLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMR 258
            +SRTHP  + +LF +EVPE+  GIV++K+V+R+ G+R+K+AV+S D ++DPVGACVG +
Sbjct: 195 YVSRTHPGLLKRLFELEVPELEEGIVELKSVAREAGARSKIAVYSKDENVDPVGACVGPK 254

Query: 259 GSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLS 318
           G+RVQ +V EL  EKIDI+ W PD++ +V ++L PA V  V + ED     V+VP  QLS
Sbjct: 255 GARVQNIVNELNGEKIDIIKWDPDASKYVASSLSPAKVVAVEIWEDEKVARVVVPDYQLS 314

Query: 319 LAIGRRGQNVRLASQLTGWTIDIITEEE 346
           LAIG+ GQN RLA++LTG  IDI +E +
Sbjct: 315 LAIGKEGQNARLAAKLTGCKIDIKSESQ 342


>gi|150390438|ref|YP_001320487.1| NusA antitermination factor [Alkaliphilus metalliredigens QYMF]
 gi|149950300|gb|ABR48828.1| NusA antitermination factor [Alkaliphilus metalliredigens QYMF]
          Length = 346

 Score =  301 bits (770), Expect = 2e-79,   Method: Compositional matrix adjust.
 Identities = 148/340 (43%), Positives = 232/340 (68%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           LE ++  + +  +K I RDV+   +  ++  + +  +G+  ++RVE+  +TGD+ ++   
Sbjct: 3   LEFIEALEQIEKDKGISRDVLFDALEAALISSYKRNFGSAVNVRVEMLRDTGDVHVYSQK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           +VVE VE+   +I++  A++ DP+  +  +V   + P +FGR+A Q+AKQV++Q++REAE
Sbjct: 63  KVVEVVEDDLLEINIDEAKEIDPNYALDDIVEKQVTPRNFGRIAAQTAKQVVVQRIREAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R   Y EF ++  EII+GTV RV  GNV ++LG ++ ++  +E I  E     DR+K+YI
Sbjct: 123 RGIVYEEFINRESEIITGTVSRVAKGNVYINLGKTEAILGPNEQIPNEVYNHADRIKTYI 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V+   +GPQ+ +SRTHP  + +LF +EVPEI++G+V+VK++SR+ GSR K+AVFS D 
Sbjct: 183 VEVKNTTKGPQIHVSRTHPGLVKRLFELEVPEIHDGVVEVKSISREAGSRTKIAVFSIDE 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           ++DPVGACVG +GSRVQ +V EL+ EKIDI+ +S +   F+ N+L PA V    ++ +  
Sbjct: 243 NVDPVGACVGPKGSRVQMIVDELKGEKIDIIKYSEEPKEFISNSLSPAKVLNARVNPEDK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
              VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E +
Sbjct: 303 TARVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQ 342


>gi|326204063|ref|ZP_08193924.1| NusA antitermination factor [Clostridium papyrosolvens DSM 2782]
 gi|325985830|gb|EGD46665.1| NusA antitermination factor [Clostridium papyrosolvens DSM 2782]
          Length = 382

 Score =  301 bits (770), Expect = 2e-79,   Method: Compositional matrix adjust.
 Identities = 148/317 (46%), Positives = 223/317 (70%), Gaps = 2/317 (0%)

Query: 38  AARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVV 97
           A +  +G+  +++V I+  TGD+ ++ L +V E+ +     IS+  A   +P+++IG  V
Sbjct: 34  AYKKNFGSAMNVKVNIDRVTGDVKVYALRKVAEDPDMEAMDISVGEAAILNPTLEIGDYV 93

Query: 98  SDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVD 157
              + P  FGR+A Q+AKQV++QK+REAER   Y EF +K  +I++G ++R+E  NVIVD
Sbjct: 94  ESEVTPRSFGRIAAQTAKQVVVQKLREAERGIIYDEFYNKESDIVTGIIQRIEKRNVIVD 153

Query: 158 LGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVP 217
           LG ++ V+   E    E  R  +R+KSYI +V++  +GPQ+++SRTHP  + +LF +EVP
Sbjct: 154 LGKTEAVLGPTEQTPGEEYRFNERLKSYIVEVKKTTKGPQIMISRTHPGLVKRLFELEVP 213

Query: 218 EIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIV 277
           EI++G V++K++SR+PGSR K+AV+S D ++DPVGACVG +G+RVQA+V ELR EKIDI+
Sbjct: 214 EIHDGTVEIKSISREPGSRTKIAVYSKDENVDPVGACVGQKGTRVQAIVDELRGEKIDII 273

Query: 278 VWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
            WS D   ++ ++L PA V +V +DED    +V+VP  QLSLAIG+ GQN RLA++LTGW
Sbjct: 274 KWSNDPRDYISSSLSPAKVVRVDVDEDEKSAKVVVPDYQLSLAIGKEGQNARLAAKLTGW 333

Query: 338 TIDIITEEE--DSINRQ 352
            IDI +E +   SI +Q
Sbjct: 334 KIDIKSESQLRQSIEKQ 350


>gi|317129165|ref|YP_004095447.1| NusA antitermination factor [Bacillus cellulosilyticus DSM 2522]
 gi|315474113|gb|ADU30716.1| NusA antitermination factor [Bacillus cellulosilyticus DSM 2522]
          Length = 374

 Score =  301 bits (770), Expect = 2e-79,   Method: Compositional matrix adjust.
 Identities = 147/339 (43%), Positives = 226/339 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E +     +  +K ID++++L  +  ++    +  + +  ++RV+I+  TG I +F   E
Sbjct: 4   EFMDALTTIEKDKGIDKEIILEAIEQALITGYKRNFNSAQNVRVDIDRNTGSIRVFARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISL+ A++  P  D+  VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVEEVFDSRLEISLEAAKNIHPQYDVDDVVEIEVTPRDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y +F D+  +I++G V+R ++  + VDLG  + ++   E +  E  +  DR+K+YI 
Sbjct: 124 GIIYSDFIDREEDIMTGIVQRQDHRFIYVDLGKVEALMPVSEQMPNETYKHNDRIKAYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+++SRTHP  + +LF +EVPEIY+G V++K+VSR+ G R+K+AV + D  
Sbjct: 184 KVEKTTKGPQIMISRTHPGLLKRLFELEVPEIYDGTVEIKSVSREAGDRSKIAVHAEDPE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ +V EL+ EKIDIV WS D   +V NAL P+ V +V ++E+   
Sbjct: 244 VDPVGSCVGPKGQRVQTIVNELKGEKIDIVRWSEDPKVYVANALSPSNVVQVTVNEEEKM 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            +VIVP  QLSLAIG++GQN RLA++LTGW IDI ++ E
Sbjct: 304 TQVIVPDYQLSLAIGKKGQNARLAAKLTGWKIDIKSQSE 342


>gi|23099050|ref|NP_692516.1| transcription elongation factor NusA [Oceanobacillus iheyensis
           HTE831]
 gi|22777278|dbj|BAC13551.1| transcriptional termination-antitermination factor [Oceanobacillus
           iheyensis HTE831]
          Length = 364

 Score =  300 bits (769), Expect = 3e-79,   Method: Compositional matrix adjust.
 Identities = 148/340 (43%), Positives = 230/340 (67%), Gaps = 3/340 (0%)

Query: 10  LQIADAV---AYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +Q+ DA+   A EK ID+D+++  +  ++  A +  + + S++RVE+N ETG ++++   
Sbjct: 3   MQLFDAIENLAKEKGIDKDILMEALEAALISAYKKNFKSASNVRVELNEETGKMAVYARK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VV+E+E+   +I L  A+  DP+ ++  V+   + P DFGR+A Q+AKQV+ Q+VREAE
Sbjct: 63  TVVDEIEDVQQEIPLDEAKKIDPNYEVDDVIEVEVTPKDFGRIAAQAAKQVVTQRVREAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R   + E+ D+  ++++G ++R +   V V+LG  +  +   E +  E+    DR+K ++
Sbjct: 123 RGVIFSEYVDREEDVMTGIIQRKDPRFVYVNLGKIEAKLAESEQMPTEDYHVHDRLKVFV 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V    +GPQ+ +SR+HP  + +LF MEVPEIY+G V++K+V+R+ G R+K++V++ D 
Sbjct: 183 TKVENTSKGPQIFISRSHPGLLKRLFEMEVPEIYDGTVEIKSVAREAGDRSKISVYAPDP 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVG+CVG RG RVQA+VTEL+ EKIDIV WS D   +V NAL P+ V KV ++E+  
Sbjct: 243 EIDPVGSCVGQRGQRVQAIVTELKGEKIDIVQWSEDPVVYVSNALSPSKVVKVSVNEEEK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
              V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E E
Sbjct: 303 STTVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSESE 342


>gi|289423074|ref|ZP_06424889.1| transcription termination factor NusA [Peptostreptococcus
           anaerobius 653-L]
 gi|289156405|gb|EFD05055.1| transcription termination factor NusA [Peptostreptococcus
           anaerobius 653-L]
          Length = 424

 Score =  300 bits (769), Expect = 3e-79,   Method: Compositional matrix adjust.
 Identities = 174/436 (39%), Positives = 266/436 (61%), Gaps = 26/436 (5%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +E +Q  + +  ++ ID++V+L  +  ++  A +  +G+  ++R+++N ETGDI ++   
Sbjct: 3   VEFMQALEELVKDRGIDKEVLLETIEQALTSAYKKNFGSAQNVRIDLNRETGDIKVYSQR 62

Query: 67  EVVEEVENYT--CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
            VV+E + Y    +I L  AR+  P+ ++G ++   + PMDFGR+A Q+AKQ+++QK+RE
Sbjct: 63  VVVDEQDLYDNFLEIELSEAREISPNYELGDIIEHEVTPMDFGRIAAQTAKQIVVQKIRE 122

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEY--GNVIV--DLGNSDGVIRRDETISRENLRPGD 180
           AER+  Y EF +K  E+I+G + R     G  IV   +G  +GV+   E I  E  + G 
Sbjct: 123 AEREMTYNEFIEKQDELITGEISRTSQRDGKCIVFAQIGKGEGVLLASEQIRGEEYKIGT 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K Y+ DV +  + PQ+LLSR+H   + +LF MEVPEI +G VQ+K++SR+ GSR K+A
Sbjct: 183 NMKFYVVDVNKTSKNPQILLSRSHTGLVKRLFEMEVPEIQDGTVQIKSISREAGSRTKMA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D +IDP+GACVG +GSRV+ +V EL DEKIDIV +S D   FV  +L P+ VTKV 
Sbjct: 243 VLSTDENIDPIGACVGTQGSRVRNIVDELGDEKIDIVKYSDDIGQFVEASLSPSKVTKVF 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           ++E      VIVP  QLSLAIG+ GQN RLA++LT W IDI  E         DF E  +
Sbjct: 303 VNEKEKSAVVIVPDYQLSLAIGKEGQNARLAARLTNWKIDIKPE--------SDFTEEDE 354

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
             +    +++I +  L  E     EE A  +++E    E  D+E A+E    A+E +E  
Sbjct: 355 RAL----LEKIASDKLAVE-----EEKASKELAEENPAEDMDKEVALE---SAQEAMEPA 402

Query: 421 DITLQKKIRELGVSEE 436
           D+ + ++I   G  EE
Sbjct: 403 DVEVAEEILSDGEVEE 418


>gi|89098596|ref|ZP_01171478.1| transcription elongation factor NusA [Bacillus sp. NRRL B-14911]
 gi|89086558|gb|EAR65677.1| transcription elongation factor NusA [Bacillus sp. NRRL B-14911]
          Length = 394

 Score =  300 bits (769), Expect = 3e-79,   Method: Compositional matrix adjust.
 Identities = 152/339 (44%), Positives = 226/339 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I RD+++  +  ++  A R  +    ++R+++N  +G + +F   E
Sbjct: 4   ELLDALTLLEKEKGISRDIIIEAIEAALISAYRRNFNQAQNVRIDLNLGSGTMRVFARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE+V +   +ISL  A+  +P+  +  VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVEQVFDPRLEISLDEAKGINPNYQVEDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V LG  + ++  +E +  E  +P DR+K +I 
Sbjct: 124 GIIYSEFIDREEDIMTGIVQRQDPKFIYVSLGKIEAILPANEQMPNEQYKPHDRIKVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+VSR+ G R+K++V + +S 
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEIEVPEIYDGTVEIKSVSREAGDRSKISVHADNSE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G+RVQAVV EL+ EKIDIV WSPD   FV NAL P+ V  V+++E+   
Sbjct: 244 VDPVGSCVGPKGTRVQAVVNELKGEKIDIVKWSPDPVVFVANALSPSKVLDVIVNEEDKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E E
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETE 342


>gi|295698482|ref|YP_003603137.1| transcription termination factor NusA [Candidatus Riesia
           pediculicola USDA]
 gi|291156972|gb|ADD79417.1| transcription termination factor NusA [Candidatus Riesia
           pediculicola USDA]
          Length = 390

 Score =  300 bits (767), Expect = 5e-79,   Method: Compositional matrix adjust.
 Identities = 153/364 (42%), Positives = 240/364 (65%), Gaps = 9/364 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + + V+ EKSI R+ +   +  +I  A +       D+RV IN +TGD   FR   
Sbjct: 4   EILTVVELVSNEKSIPREKIFEALEIAIATATKKKSVQNIDVRVSINQKTGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV   T +I+L+ A+  +P +++G  +   +  + F R+A Q+AKQVI QKVREAER
Sbjct: 64  VVKEVVQPTLEITLEAAQFENPRVELGHYLEYRIRSIQFDRIATQTAKQVIFQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
           D    +F ++ GE++SG VK+V   + I D+G N + ++ +++ + REN R  DR+K  +
Sbjct: 124 DIVVQQFSERSGEMLSGIVKKVNKDSTIFDIGQNIEAIVSKEDMLPRENFRINDRIKGVL 183

Query: 187 YDVRREQRG-PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           YD+R++ RG PQ+++SRT  + +++LF +EVPEIY GIV++K + RDPG+R+K+AV ++D
Sbjct: 184 YDIRQDSRGRPQLIVSRTSKRMLIELFRLEVPEIYEGIVEIKIIVRDPGTRSKMAVITND 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVGACVGMRGSRVQ++  EL  E+ID+++W+ + A F INA+ PA V+ +++DE  
Sbjct: 244 KRIDPVGACVGMRGSRVQSISNELCGERIDVILWNENLARFTINAMAPAEVSSIIVDEKK 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTG-------WTIDIITEEEDSINRQKDFNER 358
             +++ V +  L+ AIGR GQNVRLASQL         W ++I+TE+E  +   ++  E+
Sbjct: 304 HSVDIAVEERNLAQAIGRNGQNVRLASQLLKEHRKDDRWELNIMTEKEMLLKNNQNKEEK 363

Query: 359 TQFF 362
             F 
Sbjct: 364 KVFL 367


>gi|291523276|emb|CBK81569.1| transcription termination factor NusA [Coprococcus catus GD/7]
          Length = 348

 Score =  299 bits (766), Expect = 6e-79,   Method: Compositional matrix adjust.
 Identities = 151/339 (44%), Positives = 226/339 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL++  D +  EK I +D++L  + +S+  A ++ YG   +IRV +N ETG++ +F    
Sbjct: 6   ELIKALDDIEKEKGISKDILLEAIENSLVAACKNEYGKADNIRVTMNRETGEVKVFADKT 65

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+   +IS+  AR ++   D G +V   + P +FGR+A Q AKQV++QK+RE ER
Sbjct: 66  VVEEVEDPEMEISVADARLKNKFYDPGDIVHVEIVPKNFGRIAAQKAKQVVVQKIREEER 125

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+  +  +I++G V+R    N+ V+LG  D V+  +E +  E  +P DR+K YI 
Sbjct: 126 KSLYNEYYGREKDIVTGVVQRYNGKNISVNLGKVDAVLTENEQVKGEVFKPTDRIKLYIV 185

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP+V +SRTHP+ + +LF  EV E+ +G V++K+++R+ GSR K+AV S++ +
Sbjct: 186 EVKNTTKGPKVTVSRTHPELVKRLFEAEVTEVRDGTVEIKSIAREAGSRTKIAVSSNNPN 245

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGM G+RV A+V ELR EKIDI+ WS D A  + NAL PA V  V +D +   
Sbjct: 246 VDPVGACVGMNGARVNAIVDELRGEKIDIINWSEDPAVLIENALSPAKVVSVDVDPEEKS 305

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E +
Sbjct: 306 AAVVVPDYQLSLAIGKEGQNARLAAKLTGYKIDIKSESQ 344


>gi|323141193|ref|ZP_08076094.1| transcription termination factor NusA [Phascolarctobacterium sp.
           YIT 12067]
 gi|322414336|gb|EFY05154.1| transcription termination factor NusA [Phascolarctobacterium sp.
           YIT 12067]
          Length = 357

 Score =  299 bits (766), Expect = 7e-79,   Method: Compositional matrix adjust.
 Identities = 145/328 (44%), Positives = 228/328 (69%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK ID +++   + D++  A +   GT  ++RVE+N ETG+I ++    VVE   +   +
Sbjct: 15  EKGIDPELLFQAVDDALVAAYKKNTGTNQNVRVEMNKETGEIHVYAQRTVVEGEADGINE 74

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           ++L+ A+  +P    G +V   + P +FGR+A Q+AKQ ++Q++REAER + Y  F+ + 
Sbjct: 75  MTLEDAQAINPQYLAGDIVEVEVTPKNFGRIAAQNAKQFVVQRIREAERGQVYERFQSRA 134

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
            +I++G ++R+E  NV +DLG  + V+  +E I  E  +  +R+K+YI +V+R  +GPQ+
Sbjct: 135 NDIVTGIIERMENQNVYIDLGKVEAVLTPNEQIPGEIYQYHERMKTYIVEVKRTNKGPQI 194

Query: 199 LLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMR 258
           ++SRTHP  + +LF +EVPEI++G+V++K+V+R+PG R+K++V+++DS++DPVGACVG +
Sbjct: 195 MVSRTHPGLLKRLFELEVPEIHDGVVEIKSVAREPGMRSKISVYTADSNVDPVGACVGHK 254

Query: 259 GSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLS 318
           G RVQ +V ELR EKIDIV +S D A +V NAL PA V K  ++E      V+VP  QLS
Sbjct: 255 GMRVQTIVNELRGEKIDIVKYSEDPAQYVANALSPAKVVKTNVNEADKICRVVVPDYQLS 314

Query: 319 LAIGRRGQNVRLASQLTGWTIDIITEEE 346
           LAIG+ GQN RLA++LTGW IDI +E +
Sbjct: 315 LAIGKEGQNARLAAKLTGWKIDIKSETQ 342


>gi|254974853|ref|ZP_05271325.1| transcription elongation protein [Clostridium difficile QCD-66c26]
 gi|255092240|ref|ZP_05321718.1| transcription elongation protein [Clostridium difficile CIP 107932]
 gi|255313980|ref|ZP_05355563.1| transcription elongation protein [Clostridium difficile QCD-76w55]
 gi|255516660|ref|ZP_05384336.1| transcription elongation protein [Clostridium difficile QCD-97b34]
 gi|255649759|ref|ZP_05396661.1| transcription elongation protein [Clostridium difficile QCD-37x79]
 gi|260682915|ref|YP_003214200.1| transcription elongation protein [Clostridium difficile CD196]
 gi|260686513|ref|YP_003217646.1| transcription elongation protein [Clostridium difficile R20291]
 gi|306519864|ref|ZP_07406211.1| transcription elongation protein [Clostridium difficile QCD-32g58]
 gi|260209078|emb|CBA62223.1| transcription elongation protein [Clostridium difficile CD196]
 gi|260212529|emb|CBE03480.1| transcription elongation protein [Clostridium difficile R20291]
          Length = 384

 Score =  299 bits (765), Expect = 8e-79,   Method: Compositional matrix adjust.
 Identities = 160/384 (41%), Positives = 244/384 (63%), Gaps = 14/384 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E ++  D +  ++ ID+++++  +  ++  A +  +G+  ++RVE + + GDI +F    
Sbjct: 4   EFMEALDELVVDRGIDKEILIDTIEQALLTAYKKNFGSAQNVRVEFDRDKGDIKVFSQRV 63

Query: 68  VVEEVENYTC--QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV+E + Y    +I L  AR+ +P+ ++G ++   + P +FGR+A Q+AKQV++Q++REA
Sbjct: 64  VVDESDLYDTFLEIELADAREINPNYELGDIIEHEVTPKNFGRIAAQTAKQVVVQRIREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  Y EF +K  EI++G V R     V V+LG  +G++ + E I  EN + G ++K Y
Sbjct: 124 EREIVYNEFIEKENEIVTGEVARANKNVVYVNLGRIEGIMTQSEQIPFENYKAGQKIKFY 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V++  +GPQ+++SR+HP  + +LF  EVPEIY GIVQ+K+V+R+ GSR K+AV S D
Sbjct: 184 ILEVKKTNKGPQIVVSRSHPGLVKRLFEEEVPEIYEGIVQIKSVAREAGSRTKMAVKSID 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDP+GACVG +G RV+ +V EL DEKIDI+ +S D A F+  AL P+ V +V +DED 
Sbjct: 244 EKIDPIGACVGPKGLRVKNIVDELGDEKIDIIKYSEDPAEFISAALSPSKVVRVDIDEDE 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
               VIVP  QLSLAIG+ GQN RLA++LT W IDI +E           ++  Q  +  
Sbjct: 304 KSALVIVPDYQLSLAIGKEGQNARLAAKLTNWKIDIKSE-----------SQAEQEMLNL 352

Query: 366 INVDEIIAHLLVAEGFADVEELAC 389
            N  EI A  + AE F D EEL  
Sbjct: 353 ENSKEIEAEDVEAE-FIDQEELGT 375


>gi|212639524|ref|YP_002316044.1| transcription elongation factor NusA [Anoxybacillus flavithermus
           WK1]
 gi|212561004|gb|ACJ34059.1| Transcription elongation factor [Anoxybacillus flavithermus WK1]
          Length = 367

 Score =  299 bits (765), Expect = 9e-79,   Method: Compositional matrix adjust.
 Identities = 152/339 (44%), Positives = 223/339 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL    A+  +K I ++V++  +  +I  A +  +    ++RV+ N ETG I +F   E
Sbjct: 4   ELLDALTALERDKGISKEVLIEAIEAAIVSAYKRNFNQAQNVRVDFNQETGTIRVFARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISL  A+  +P+  +G VV   + P +FGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDEVYDSRLEISLDEAKRINPNYQVGDVVEIEVTPKNFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V LG  + ++   E +  E  +P DR+K YI 
Sbjct: 124 GVIYAEFVDREEDIMTGIVQRTDSKFIYVSLGKIEALLPVSEQMPNETYKPHDRIKVYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+V+R+ G R+K++V S +  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFELEVPEIYDGTVEIKSVAREAGDRSKISVHSDNPE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G RVQA+V EL+ EKIDIV WS D   FV NAL P+ V  V+++E+   
Sbjct: 244 VDPVGACVGPKGQRVQAIVNELKGEKIDIVRWSSDPVEFVANALSPSKVLDVIVNEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             VIVP  QLSLAIG+RGQN RLA++LT W IDI ++ E
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTNWKIDIKSQSE 342


>gi|332981612|ref|YP_004463053.1| NusA antitermination factor [Mahella australiensis 50-1 BON]
 gi|332699290|gb|AEE96231.1| NusA antitermination factor [Mahella australiensis 50-1 BON]
          Length = 349

 Score =  299 bits (765), Expect = 1e-78,   Method: Compositional matrix adjust.
 Identities = 142/346 (41%), Positives = 231/346 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E +Q    +  EK + +DV+L  +  ++  A +  YGT +++ V+IN  +GDI ++   +
Sbjct: 4   EFMQALYKIEKEKHLPKDVLLQAIQSALLSAYKKDYGTANNVSVDINANSGDIKVYAAKK 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE+V+N   +I L  ARD  P + +G +++  + P DF R+A ++A+ +++QK+ E E+
Sbjct: 64  VVEDVKNSAVEIDLYKARDIRPDVQLGDIINIEVTPKDFRRIAAKAARDIVLQKIHEVEK 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           D    E+ +K GEI++ TV R++  NV +DLG  +G++  +ET+  E  +  DR+K YI 
Sbjct: 124 DIILDEYSEKEGEILTATVARLDRKNVYLDLGKIEGIMPMNETVPSEIYKVNDRLKVYIL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           + ++  + P V++SR+HP  + +LF +E+PEI++GIV ++A++R+ G R+K+AV+S    
Sbjct: 184 EAKKGGKSPNVIVSRSHPGLVKRLFELEIPEIHDGIVDIRAIAREAGHRSKVAVYSKYDK 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDP+G+C+G +G+R+Q ++ ELR E+IDIV WS     F+ NAL PA V +V+L+E    
Sbjct: 244 IDPIGSCIGPKGTRIQTIMNELRGERIDIVEWSLMPERFIANALSPAKVLEVILNEKEKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
             VIVPK QLSLAIG+ GQN RLA++LTGW IDI T ++  +N  K
Sbjct: 304 ARVIVPKNQLSLAIGKEGQNARLAAKLTGWKIDIKTPDQQEVNETK 349


>gi|229544433|ref|ZP_04433491.1| NusA antitermination factor [Bacillus coagulans 36D1]
 gi|229324918|gb|EEN90595.1| NusA antitermination factor [Bacillus coagulans 36D1]
          Length = 399

 Score =  298 bits (764), Expect = 1e-78,   Method: Compositional matrix adjust.
 Identities = 155/337 (45%), Positives = 221/337 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+     +  EK I RDV++  +  ++  A R  +    ++R ++N   G I +F   +
Sbjct: 4   ELVDALTILEKEKGISRDVLVEAIEAALVSAYRRNFNQAQNVRTDLNLANGTIRVFARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISL+ A+  +PS +IG VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVEEVFDPRLEISLEDAQKINPSYEIGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y +F D+  E+++G V+R +     V LG ++ ++   E    E   P DR+K YI 
Sbjct: 124 GIIYNQFIDREDEVMTGIVQRKDPRFTYVSLGKTEALLPPGEQSPNETYNPHDRIKVYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V R  +GPQ+ +SRTHP  + +LF +EVPEIY+GIV++++++R+ G R+K++V++    
Sbjct: 184 KVERTTKGPQIFVSRTHPGLLKRLFELEVPEIYDGIVEIRSIAREAGDRSKISVYTDRPE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G RVQA+V EL  EKIDIV WS D A FV NAL PA V  V++DE+   
Sbjct: 244 VDPVGACVGPKGQRVQAIVNELHGEKIDIVKWSDDPAKFVANALSPAKVLDVLVDENNKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 340


>gi|15614979|ref|NP_243282.1| transcription elongation factor NusA [Bacillus halodurans C-125]
 gi|20139215|sp|Q9KA74|NUSA_BACHD RecName: Full=Transcription elongation protein nusA
 gi|10175036|dbj|BAB06135.1| transcriptional terminator [Bacillus halodurans C-125]
          Length = 382

 Score =  298 bits (763), Expect = 1e-78,   Method: Compositional matrix adjust.
 Identities = 149/339 (43%), Positives = 225/339 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E +     +  EK I ++V++  +  ++    +  +    ++RV++N E G I +F   E
Sbjct: 4   EFMDALTTLEKEKGISKEVIIEAIEAALISGYKRNFNQAQNVRVDVNRENGSIRVFARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISL  A+  +P+ ++  VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVEEVFDARLEISLDEAKGINPNYEVDDVVEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y +F D+  +I++G V+R +   + VDLG  + ++   E +  E+ R  DR+K+YI 
Sbjct: 124 GIIYADFIDREEDIMTGIVQRQDNRFIYVDLGKVEALLPLSEQMPNESYRHNDRIKAYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+++SRTHP  + +LF +EVPEIY+G V++K+V+R+ G R+K++V + +  
Sbjct: 184 KVEKTTKGPQIMISRTHPGLLKRLFELEVPEIYDGTVELKSVAREAGDRSKISVHAENPE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +GSRVQ +V EL+ EKIDIV WS D   +V NAL P+ V KV ++E+   
Sbjct: 244 VDPVGACVGPKGSRVQTIVNELKGEKIDIVRWSEDPVEYVANALSPSKVVKVNVNEEEKT 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            +VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E E
Sbjct: 304 TQVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSESE 342


>gi|126698905|ref|YP_001087802.1| transcription elongation protein [Clostridium difficile 630]
 gi|255100326|ref|ZP_05329303.1| transcription elongation protein [Clostridium difficile QCD-63q42]
 gi|255306264|ref|ZP_05350436.1| transcription elongation protein [Clostridium difficile ATCC 43255]
 gi|115250342|emb|CAJ68164.1| Transcription elongation protein [Clostridium difficile]
          Length = 384

 Score =  298 bits (763), Expect = 1e-78,   Method: Compositional matrix adjust.
 Identities = 160/382 (41%), Positives = 244/382 (63%), Gaps = 14/382 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E ++  D +  ++ ID+++++  +  ++  A +  +G+  ++RVE + + GDI +F    
Sbjct: 4   EFMEALDELVVDRGIDKEILIDTIEQALLTAYKKNFGSAQNVRVEFDRDKGDIKVFSQRV 63

Query: 68  VVEEVENYTC--QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV+E + Y    +I L  AR+ +P+ ++G ++   + P +FGR+A Q+AKQV++Q++REA
Sbjct: 64  VVDESDLYDTFLEIELADAREINPNYELGDIIEHEVTPKNFGRIAAQTAKQVVVQRIREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  Y EF +K  EI++G V R     V V+LG  +G++ + E I  EN + G ++K Y
Sbjct: 124 EREIVYNEFIEKENEIVTGEVARANKNVVYVNLGRIEGIMTQSEQIPFENYKAGQKIKFY 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V++  +GPQ+++SR+HP  + +LF  EVPEIY GIVQ+K+V+R+ GSR K+AV S D
Sbjct: 184 ILEVKKTNKGPQIVVSRSHPGLVKRLFEEEVPEIYEGIVQIKSVAREAGSRTKMAVRSID 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDP+GACVG +G RV+ +V EL DEKIDI+ +S D A F+  AL P+ V +V +DED 
Sbjct: 244 EKIDPIGACVGPKGLRVKNIVDELGDEKIDIIKYSEDPAEFISAALSPSKVVRVDIDEDE 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
               VIVP  QLSLAIG+ GQN RLA++LT W IDI +E           ++  Q  +  
Sbjct: 304 KSALVIVPDYQLSLAIGKEGQNARLAAKLTNWKIDIKSE-----------SQAEQEMLNL 352

Query: 366 INVDEIIAHLLVAEGFADVEEL 387
            N  EI A  + AE F D EEL
Sbjct: 353 ENSKEIEAEDVEAE-FIDQEEL 373


>gi|307243330|ref|ZP_07525494.1| transcription termination factor NusA [Peptostreptococcus stomatis
           DSM 17678]
 gi|306493277|gb|EFM65266.1| transcription termination factor NusA [Peptostreptococcus stomatis
           DSM 17678]
          Length = 423

 Score =  298 bits (763), Expect = 1e-78,   Method: Compositional matrix adjust.
 Identities = 152/345 (44%), Positives = 228/345 (66%), Gaps = 6/345 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E +Q  D +  ++ ID+DV+L  +  ++  A +  +G+  ++R+++N ETGDI ++    
Sbjct: 4   EFIQALDELVRDRGIDKDVLLETIEQALTSAYKKNFGSAQNVRIDMNRETGDIKVYSQRV 63

Query: 68  VVEEVENYT--CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV+E + Y    +I L  AR+ +P+ ++G ++   + P DFGR+A Q+AKQ+++QK+REA
Sbjct: 64  VVDESDLYDNFLEIELSEAREINPNYELGDIIEHEVTPKDFGRIAAQTAKQIVVQKIREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGN----VIVDLGNSDGVIRRDETISRENLRPGDR 181
           ER+  Y EF +K  E+++G + R    +    V V +G  +GV+ + E I  E+ + G  
Sbjct: 124 EREMTYNEFLEKQDELVTGEISRTSSRDGKQIVFVQIGKGEGVLLQSEQIRNEDYKIGSN 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+ +V R  + PQ+LLSRT+   + +LF MEVPEI  GIV +K++SR+ GSR K+AV
Sbjct: 184 MKFYVLEVNRTNKNPQILLSRTNAGLVKRLFEMEVPEIQEGIVHIKSISREAGSRTKMAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D +IDP+GACVG +G+RV+ +V EL DEKIDIV +S D ATF+  AL P+ VT+V +
Sbjct: 244 KSIDENIDPIGACVGTQGARVRNIVDELGDEKIDIVKYSDDPATFIEAALSPSKVTRVFI 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           DE      VIVP  QLSLAIG+ GQN RLA++LT W IDI  E E
Sbjct: 304 DEANKSAIVIVPDYQLSLAIGKEGQNARLAARLTNWKIDIKPESE 348


>gi|221632782|ref|YP_002522004.1| transcription termination factor NusA [Thermomicrobium roseum DSM
           5159]
 gi|221155810|gb|ACM04937.1| transcription termination factor NusA [Thermomicrobium roseum DSM
           5159]
          Length = 439

 Score =  298 bits (763), Expect = 1e-78,   Method: Compositional matrix adjust.
 Identities = 153/330 (46%), Positives = 225/330 (68%), Gaps = 8/330 (2%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLFRLLEVVEE 71
           VA E+ I R+ V+    +S+Q+A R++Y    G+  ++ +EI+  TG I +F    VVE+
Sbjct: 12  VAAERGIPREAVM----ESVQQALRTVYKKATGSDEEVEIEIDVNTGKIRIFAPKRVVEK 67

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
           V +   +IS++ AR  DP   +G +V     P +FGR+A Q+AKQVI+Q++R+ ERD  Y
Sbjct: 68  VNDPLSEISIEEARKIDPRAIVGDIVRIERQPSNFGRIAAQTAKQVILQRIRDFERDTIY 127

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRR 191
            EF D+VGE+++GTV+RV+   VI+  G ++ ++   E I  E  RPG R+K Y+ DV +
Sbjct: 128 NEFIDRVGEVLTGTVQRVDARAVILSFGKAEAILPAREQIPGERYRPGQRLKVYLVDVTK 187

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPV 251
           + +GPQ+L+SRTHP  + +L  +EVPE+ +G V+V A++R+PG R+K+AV +    +DPV
Sbjct: 188 DAKGPQLLVSRTHPNLIKRLLELEVPEVASGAVEVMAIAREPGQRSKVAVAARQDKVDPV 247

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI 311
           GACVG+RG R+Q++VTEL  EKID++ WS D  TF+ NAL PA    V+L+ED     V+
Sbjct: 248 GACVGVRGVRIQSIVTELSGEKIDVIEWSSDIRTFIANALSPAKPITVILNEDEKVARVV 307

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           VP EQ+S AIG+ GQN RLA +LTGW IDI
Sbjct: 308 VPPEQMSQAIGKDGQNARLAYKLTGWRIDI 337


>gi|255655319|ref|ZP_05400728.1| transcription elongation protein [Clostridium difficile QCD-23m63]
 gi|296451304|ref|ZP_06893044.1| transcription termination factor NusA [Clostridium difficile NAP08]
 gi|296880344|ref|ZP_06904307.1| transcription termination factor NusA [Clostridium difficile NAP07]
 gi|296259910|gb|EFH06765.1| transcription termination factor NusA [Clostridium difficile NAP08]
 gi|296428585|gb|EFH14469.1| transcription termination factor NusA [Clostridium difficile NAP07]
          Length = 384

 Score =  298 bits (762), Expect = 2e-78,   Method: Compositional matrix adjust.
 Identities = 148/339 (43%), Positives = 228/339 (67%), Gaps = 2/339 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E ++  D +  ++ ID+++++  +  ++  A +  +G+  ++RVE + + GDI +F    
Sbjct: 4   EFMEALDELVVDRGIDKEILIDTIEQALLTAYKKNFGSAQNVRVEFDRDKGDIKVFSQRV 63

Query: 68  VVEEVENYTC--QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV+E + Y    +I L  AR+ +P+ ++G ++   + P +FGR+A Q+AKQV++Q++REA
Sbjct: 64  VVDESDLYDTFLEIELADAREINPNYELGDIIEHEVTPKNFGRIAAQTAKQVVVQRIREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  Y EF +K  EI++G V R     V V+LG  +G++ + E I  EN + G ++K Y
Sbjct: 124 EREIVYNEFIEKENEIVTGEVARANKNVVYVNLGRIEGIMTQSEQIPFENYKAGQKIKFY 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V++  +GPQ+++SR+HP  + +LF  EVPEIY GIVQ+K+V+R+ GSR K+AV S D
Sbjct: 184 ILEVKKTNKGPQIVVSRSHPGLVKRLFEEEVPEIYEGIVQIKSVAREAGSRTKMAVRSID 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDP+GACVG +G RV+ +V EL DEKIDI+ +S D A F+  AL P+ V +V +DED 
Sbjct: 244 EKIDPIGACVGPKGLRVKNIVDELGDEKIDIIKYSEDPAEFISAALSPSKVVRVDIDEDE 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
               VIVP  QLSLAIG+ GQN RLA++LT W IDI +E
Sbjct: 304 KSALVIVPDYQLSLAIGKEGQNARLAAKLTNWKIDIKSE 342


>gi|309791818|ref|ZP_07686305.1| NusA antitermination factor [Oscillochloris trichoides DG6]
 gi|308226140|gb|EFO79881.1| NusA antitermination factor [Oscillochloris trichoides DG6]
          Length = 442

 Score =  298 bits (762), Expect = 2e-78,   Method: Compositional matrix adjust.
 Identities = 145/329 (44%), Positives = 222/329 (67%), Gaps = 3/329 (0%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMS---DIRVEINPETGDISLFRLLEVVEEV 72
           +A E+ I ++ ++ VM  ++  A +   G      ++ V+++P+TG   ++   +VV+EV
Sbjct: 12  IAAERGIPKEAIIDVMEKALITAYKRTLGNNPPPMEVSVKLDPQTGAARVYAEKQVVDEV 71

Query: 73  ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYL 132
            +   ++ L VAR   P++ IG  V     P DFGR+A Q+AKQV++Q ++E ER+  Y 
Sbjct: 72  YDERFEVELAVARKVQPNVQIGETVVIESTPNDFGRIAAQTAKQVVLQGIKEVEREHIYG 131

Query: 133 EFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
           E+ D+ GE+I+ TV+R+  GNVI+++G ++ ++   E +  +    G R+K Y+ ++R+E
Sbjct: 132 EYMDREGELITATVQRLAKGNVILEMGKAEAILPPKEQVESDRYYHGQRLKVYLMEIRKE 191

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            RGP+++ SRTH   +V+LF MEVPEI+NG V++K+++R+PG R K+AV +    IDPVG
Sbjct: 192 DRGPRLIASRTHKNLIVRLFEMEVPEIFNGTVEIKSIAREPGLRTKVAVAARQEGIDPVG 251

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIV 312
           +CVGMRG R+Q +V EL  EKID+V WSPD    + NAL PA V +V L+ED     VIV
Sbjct: 252 SCVGMRGIRIQNIVNELNGEKIDVVQWSPDPKDLIANALSPAQVVEVHLNEDDHVALVIV 311

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           P +QLSLAIG+ GQNVRLA++L+GW IDI
Sbjct: 312 PDKQLSLAIGKEGQNVRLAAKLSGWRIDI 340


>gi|225390157|ref|ZP_03759881.1| hypothetical protein CLOSTASPAR_03907 [Clostridium asparagiforme
           DSM 15981]
 gi|225043751|gb|EEG53997.1| hypothetical protein CLOSTASPAR_03907 [Clostridium asparagiforme
           DSM 15981]
          Length = 393

 Score =  297 bits (761), Expect = 2e-78,   Method: Compositional matrix adjust.
 Identities = 150/337 (44%), Positives = 224/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL+  + +  EK+I ++ +L  + +S+  A ++ +G   ++RV INP+T D +++   E
Sbjct: 10  ELLEAMEVLEKEKNISKETLLEAIENSLLTACKNHFGKADNVRVNINPDTCDFAVYMEKE 69

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE  E+   QISL  A+  +P  ++G  V  PL    FGR+A Q+AK VI+QK+RE ER
Sbjct: 70  VVETPEDDQLQISLVDAKMMNPKYEVGDTVQIPLDSKKFGRIATQNAKNVILQKIREEER 129

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+  K  ++++G V+R+   NV ++LG  D ++   E +  E  RP +RVK YI 
Sbjct: 130 SSLYKEYYMKEKDVMTGIVQRMLGKNVSINLGRVDAILNESEQVKGETFRPTERVKVYIL 189

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP++ +SRTHP  + +LF  EV E+ +G V++KA++R+ GSR+K+AV S+D +
Sbjct: 190 EVKDTPKGPRISVSRTHPDLVKRLFESEVAEVRDGTVEIKAIAREAGSRSKIAVMSNDPN 249

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG+ GSRV ++V ELR EKIDI+ W  + A  + NAL PA V  VV DE+   
Sbjct: 250 VDPVGACVGLNGSRVNSIVNELRGEKIDIINWDENPAYLIENALSPAKVICVVADEEERE 309

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            +VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 310 AQVIVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSE 346


>gi|15895075|ref|NP_348424.1| transcription elongation factor NusA [Clostridium acetobutylicum
           ATCC 824]
 gi|15024772|gb|AAK79764.1|AE007689_2 Transcription terminator NusA [Clostridium acetobutylicum ATCC 824]
 gi|325509213|gb|ADZ20849.1| transcription elongation factor NusA [Clostridium acetobutylicum EA
           2018]
          Length = 353

 Score =  297 bits (761), Expect = 2e-78,   Method: Compositional matrix adjust.
 Identities = 149/338 (44%), Positives = 221/338 (65%), Gaps = 4/338 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS----DIRVEINPETGDISLF 63
           E +Q    +  EK I  +++ S + D++  A +  Y  ++    ++RV +N E G+I ++
Sbjct: 4   EFIQALKEIVEEKGISEELLFSTIEDALVAAYKKNYAKLTENVHNVRVSMNRENGEIHVY 63

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
              +VV+E+E+  C+ISL  A+  DP   +  +V   + P  FGRVA Q+AKQV+IQ+++
Sbjct: 64  SQKKVVQEIEDSICEISLDDAKSIDPKYQLDDIVDIEITPKSFGRVAAQAAKQVVIQRIK 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           EAER   Y EF +K  +II+GTV R + GN+++DLG  + ++   E I  E+     ++K
Sbjct: 124 EAERSLLYDEFSEKEFDIITGTVLRKDKGNILIDLGRIEAILGPSEQIPGEDYIYNSKIK 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            YI +V+   +G QV++SRTHP  + +LF +EVPEIYNGIV++K +SR+ GSR K+AV+S
Sbjct: 184 LYIVEVKNTTKGAQVVISRTHPGLVKRLFELEVPEIYNGIVEIKGISREAGSRTKIAVYS 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D ++D +GACVG +G RVQ +V EL++EKIDI+ WS     F+ N+L PA V  V +DE
Sbjct: 244 HDENVDAMGACVGPKGMRVQNIVNELKNEKIDIIKWSKLPEEFISNSLSPAKVLDVYIDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           D      IV   QLSLAIG+ GQNVRLA++LT W IDI
Sbjct: 304 DTKSARAIVEDNQLSLAIGKEGQNVRLAAKLTEWKIDI 341


>gi|291287256|ref|YP_003504072.1| NusA antitermination factor [Denitrovibrio acetiphilus DSM 12809]
 gi|290884416|gb|ADD68116.1| NusA antitermination factor [Denitrovibrio acetiphilus DSM 12809]
          Length = 460

 Score =  297 bits (761), Expect = 3e-78,   Method: Compositional matrix adjust.
 Identities = 160/419 (38%), Positives = 258/419 (61%), Gaps = 9/419 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL ++ D +  EK I R+++   + +SI  A     G + +  V ++ + G I +    E
Sbjct: 4   ELTKVVDEIGREKGIARELLQEALEESIFAAVARKIGKLLEPDVFVDIDKGTIEILLPKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V E V++   +I +  A +   +  +G V+  P    + GR A   AKQ + +K+R+AE+
Sbjct: 64  VCESVDDKWTEIHIDNADEFKENPQLGDVIMVPATLEELGRQAALVAKQKLFEKLRDAEK 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
                +F+D++GEI++G V + +  N+I+++G ++ V+ + E I  +    GD V++ + 
Sbjct: 124 QVVLDQFQDRIGEIVNGVVLKTDRDNLIINIGKTEAVLPKREMIGGDFFNRGDYVRALLL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           D+R  +  PQ++LSRTHP+FM KLF  E+PE++ GI+ VKAVSR+PG RAK+AV++++SS
Sbjct: 184 DIRIIKGWPQLILSRTHPEFMKKLFETEIPEVFEGIIDVKAVSREPGDRAKVAVYTTNSS 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVGAC+G++G R+ A+  ELR EKID++ WSPDS  FV NA+ PA V    + ED   
Sbjct: 244 IDPVGACIGLKGVRINAISNELRGEKIDVIEWSPDSIKFVCNAISPAEVVLTNIFEDEET 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS---INRQKDFNERTQFFMQ 364
           IE++VP +QLSLAIG++GQNVRLA++LT W +D++ E E +     R +D  +  + F +
Sbjct: 304 IEIVVPDDQLSLAIGKKGQNVRLAAKLTEWRLDVLKESEYAEIRKERMQDQEQDLKEFYE 363

Query: 365 AINVDEI------IAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
             N+D +        H L+  G+ D+E+L+     E+A     +EE AV +   A +YL
Sbjct: 364 MYNLDNLEGLDADTMHSLIEAGYDDIEKLSNADFKEVAQELECEEEKAVSLINMALDYL 422


>gi|254445533|ref|ZP_05059009.1| transcription termination factor NusA [Verrucomicrobiae bacterium
           DG1235]
 gi|198259841|gb|EDY84149.1| transcription termination factor NusA [Verrucomicrobiae bacterium
           DG1235]
          Length = 419

 Score =  297 bits (761), Expect = 3e-78,   Method: Compositional matrix adjust.
 Identities = 159/422 (37%), Positives = 262/422 (62%), Gaps = 13/422 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + + +  EK I R+ ++S +  +I+ AA        ++++ I+P  G ++ + LL+
Sbjct: 4   EILSVLEYMEKEKGIGREDMISAIVTAIKNAAAKGVNAGQELKITIDPRHGKMNAWALLD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +ISL+ AR  D  ++IG V    + P   GR+A Q+A+Q I+Q++R+ E+
Sbjct: 64  VVDSVSDPKTEISLEKARQIDDELNIGDVFEKEIDPAYLGRIAAQTARQAIMQRLRQFEK 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +R Y +FKD+VG+I+SG V+R E G++IVDLG ++ ++   + +  E+  PG+R++  + 
Sbjct: 124 ERIYDDFKDQVGDIVSGIVRRRERGDLIVDLGKAEAMMPSRDQVPGEDYSPGERIRCLLL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            +    RGP+++L+R++P+F+++LF +EV EI +G V+++A SR+PG R K+AV SSD  
Sbjct: 184 KIEATNRGPELILTRSNPKFVLRLFDLEVTEIADGTVKIEAFSREPGYRTKIAVTSSDPK 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG RG+RV+++V EL  EKIDI+ +  D     + AL+PAI   V++DE   R
Sbjct: 244 VDPVGACVGARGARVKSIVRELGGEKIDIIRYFEDPKEMALEALKPAIPRNVIMDERSRR 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           I + V ++ L++AIGR+GQN RL S+L GW IDI+ EE   ++ +    E  Q   Q   
Sbjct: 304 ISIEVSEDDLAIAIGRKGQNARLTSKLVGWKIDIMKEEVKVVSMETKQAEAAQGLNQIEG 363

Query: 368 VDEIIAHLLVAEG------FADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           +D   A  LV  G      F DVEE   V++       GF  E A +I  +   +++  +
Sbjct: 364 IDSATAERLVNNGLISPELFLDVEEDDLVEM-------GFSAEEAADIIAKVTTFIQSQN 416

Query: 422 IT 423
           I+
Sbjct: 417 IS 418


>gi|303229675|ref|ZP_07316463.1| transcription termination factor NusA [Veillonella atypica
           ACS-134-V-Col7a]
 gi|303232179|ref|ZP_07318882.1| transcription termination factor NusA [Veillonella atypica
           ACS-049-V-Sch6]
 gi|302513285|gb|EFL55324.1| transcription termination factor NusA [Veillonella atypica
           ACS-049-V-Sch6]
 gi|302515800|gb|EFL57754.1| transcription termination factor NusA [Veillonella atypica
           ACS-134-V-Col7a]
          Length = 361

 Score =  297 bits (760), Expect = 3e-78,   Method: Compositional matrix adjust.
 Identities = 153/349 (43%), Positives = 222/349 (63%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+Q    +  +K    +V+   +  ++ +A R    +  D  VE+N ETG   +    +
Sbjct: 4   ELIQAVMVLTKQKGFAPEVIFESLEAALLQAYRKEPHSNPDAYVELNRETGAYKVMAKKQ 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE    +ISL  AR  D   +IG +V   + P +FGR A  +AKQ++IQ+++EAER
Sbjct: 64  VVETVEFPETEISLLDARKIDKRYEIGDIVEADVTPANFGRSAAHTAKQMLIQRLKEAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+  + G+II+G + RVE  NV ++LG ++ ++   E I  E    GDR+K YI 
Sbjct: 124 SVVYEEYYSREGDIITGVITRVEGKNVYINLGKTEAILPPTEQIGTETYHEGDRIKCYIV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V++  +GPQ+++SRTHP  + +LF +EVPEIY G+V++K+V+R+PG R+K+AV+S D S
Sbjct: 184 EVKKTTKGPQIMISRTHPGLLKRLFELEVPEIYEGVVELKSVAREPGMRSKIAVYSRDES 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVGACVG +G RVQ +V EL DEKIDIV W  D A ++ N+L PA V  V + E+   
Sbjct: 244 IDPVGACVGPKGQRVQHIVDELHDEKIDIVKWDEDPAIYIANSLSPAKVISVDVSEEEKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN 356
             V+VP  QLSLAIG+ GQN RLA++LT W IDI +E + + N    F 
Sbjct: 304 SYVVVPDYQLSLAIGKAGQNARLAAKLTNWKIDIKSETQAAENPFTGFT 352


>gi|299144046|ref|ZP_07037126.1| transcription termination factor NusA [Peptoniphilus sp. oral taxon
           386 str. F0131]
 gi|298518531|gb|EFI42270.1| transcription termination factor NusA [Peptoniphilus sp. oral taxon
           386 str. F0131]
          Length = 379

 Score =  297 bits (760), Expect = 3e-78,   Method: Compositional matrix adjust.
 Identities = 147/325 (45%), Positives = 224/325 (68%), Gaps = 2/325 (0%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEV--ENYT 76
           EK I ++V+   +  ++  + R  +GT  +++V+IN ++G+I++F L ++V +V  E+  
Sbjct: 15  EKGISKEVIFEALESALVSSYRKNFGTSQNVQVDINKDSGEINVFALKDIVADVDFEDEN 74

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            QI +  A+D D   ++G V S+ + P +FGR+A Q+AKQV+IQ++++AERD  + +F D
Sbjct: 75  LQIPISKAKDIDAKFELGDVYSEKIKPANFGRIAAQTAKQVVIQRIKDAERDIIFEDFTD 134

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           +  EII+G V+RV YGNV  DLG ++ ++   E I  E  R GDR+K  + +V++  +GP
Sbjct: 135 RENEIITGQVQRVSYGNVYFDLGKTEAILPVAEQIKGEVYRQGDRLKLLLLEVKKTTKGP 194

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           Q++LSR+HP  + +LF +EVPEI  GIV+V ++SR+ GSR K+AVFS +  +DP+GACVG
Sbjct: 195 QIILSRSHPNLVKRLFELEVPEISEGIVEVYSISREAGSRTKIAVFSRNEDVDPLGACVG 254

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
            +GSRV+A+V EL DEK+DIV++      F+ NAL P+ V KV  +E      V+VP  Q
Sbjct: 255 YKGSRVKAIVDELHDEKVDIVIYEKQIDKFIANALSPSKVEKVFANEKEKSALVVVPDYQ 314

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDI 341
           LSLAIG+ GQN RLA++LT W IDI
Sbjct: 315 LSLAIGKEGQNARLAAKLTNWKIDI 339


>gi|222151100|ref|YP_002560254.1| transcription termination-antitermination factor [Macrococcus
           caseolyticus JCSC5402]
 gi|222120223|dbj|BAH17558.1| transcription termination-antitermination factor [Macrococcus
           caseolyticus JCSC5402]
          Length = 353

 Score =  297 bits (760), Expect = 3e-78,   Method: Compositional matrix adjust.
 Identities = 152/337 (45%), Positives = 225/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   D +  EKSI R+V++  +  ++  A +  Y + +++RVE+N + G   ++    
Sbjct: 5   ELLNAIDFLEKEKSIPREVLIETIEAALITAYKKNYNSANNVRVELNMDNGAYRVYSRKN 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV N   ++SL+ A   +P+ +IG +  + + P DFGRV+ Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVMNSREEVSLETALLSNPAYEIGDIYEEDVTPKDFGRVSAQAAKQAVLQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF DK  +I++G + RV++  V V LG ++ V+   E    E  RP +R+K Y+ 
Sbjct: 125 GILYNEFIDKEDDIMTGIIDRVDHRYVYVTLGKTEAVLSEAERSPNEVYRPTERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEI++G V VK+V+R+ G R+K++V+S +  
Sbjct: 185 KVEQTTKGPQIFVSRSHPGLLKRLFEQEVPEIFDGTVVVKSVAREAGDRSKISVYSDNPD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV WS D+ TFV NAL P+ V  V++DE    
Sbjct: 245 IDAVGACVGAKGARVEAVVEELGGEKIDIVEWSADTKTFVKNALSPSQVVDVLVDEANQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG++GQN RLA++LTGW IDI +E
Sbjct: 305 TTVIVPDYQLSLAIGKKGQNARLAAKLTGWKIDIKSE 341


>gi|210612465|ref|ZP_03289323.1| hypothetical protein CLONEX_01524 [Clostridium nexile DSM 1787]
 gi|210151573|gb|EEA82580.1| hypothetical protein CLONEX_01524 [Clostridium nexile DSM 1787]
          Length = 373

 Score =  296 bits (759), Expect = 4e-78,   Method: Compositional matrix adjust.
 Identities = 150/337 (44%), Positives = 226/337 (67%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL+    +  EK I ++ +L  + +S+  A ++ +G   +I+V +N ET D S+F    
Sbjct: 4   ELLEALTILEQEKDISKETLLDAIENSLINACKNHFGKADNIKVVMNRETCDYSVFAEKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+   +ISL  A+  D   ++G +V  P+   +FGR+A Q+AK +I+QK+RE ER
Sbjct: 64  VVEEVEDDVMEISLANAKMIDSKFELGDIVQIPVESKEFGRIATQNAKNLILQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y ++ +K  +I++G V+R    NV ++LG +D ++  +E +  E  +P +R+K YI 
Sbjct: 124 KVVYDQYFEKEKDIVTGIVQRYVGKNVSINLGKADAMLTENEQVKGEVFKPTERIKLYIV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP++L+SRTHP+ + +LF  EV E+  GIV++K++SR+ GSR K+AV+S+D  
Sbjct: 184 EVKNTTKGPKILVSRTHPELVKRLFESEVAEVKEGIVEIKSISREAGSRTKIAVWSNDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGM G+RV A+V+ELR EKIDI+ WS + A  + NAL PA V  V+ D D   
Sbjct: 244 VDPVGACVGMNGARVNAIVSELRGEKIDIINWSDNPAILIENALSPAKVISVMADPDEKT 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 304 ASVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSE 340


>gi|284048695|ref|YP_003399034.1| transcription termination factor NusA [Acidaminococcus fermentans
           DSM 20731]
 gi|283952916|gb|ADB47719.1| transcription termination factor NusA [Acidaminococcus fermentans
           DSM 20731]
          Length = 362

 Score =  296 bits (759), Expect = 5e-78,   Method: Compositional matrix adjust.
 Identities = 147/329 (44%), Positives = 223/329 (67%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           +A EKSI  DV+ S + +++  A +  YG+  ++RV ++ ETG+I ++    +VEEV + 
Sbjct: 12  LAKEKSISPDVLYSAVEEALITAYKKNYGSAQNVRVSMHKETGEIHVYARKNIVEEVTDP 71

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
           T +ISL+ A+  +     G ++   + P +FGR+A Q+AKQVI+Q++REAER   Y  + 
Sbjct: 72  TTEISLEDAQKMNAHYQAGDILETEVTPKNFGRIAAQNAKQVIVQRIREAERGMVYERYS 131

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           D+  +I++GTV+R+E  NV +DLG ++G++  +E I  E      R+K Y+ +V++  +G
Sbjct: 132 DRENDIVTGTVQRIEGRNVFIDLGTAEGLLLPNEQIPHETYDYHQRLKCYVVEVKKTTKG 191

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           PQ++LSRTHP  + +LF +EV EI +G V + +V+R+PG R+K+AV S++ S+DPVGACV
Sbjct: 192 PQIILSRTHPGLLKRLFELEVSEIQDGTVIIDSVAREPGMRSKIAVHSTNPSVDPVGACV 251

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G +G RV+ +V ELR EKIDIV +S D   +V NAL P+ V     D+D     V+VP  
Sbjct: 252 GPKGMRVRTIVDELRGEKIDIVKYSEDPEEYVANALSPSKVVSARADKDEKICRVVVPDY 311

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           QLSLAIG+ GQN RLA++LTGW IDI +E
Sbjct: 312 QLSLAIGKEGQNARLAAKLTGWKIDIKSE 340


>gi|153855238|ref|ZP_01996404.1| hypothetical protein DORLON_02418 [Dorea longicatena DSM 13814]
 gi|149752237|gb|EDM62168.1| hypothetical protein DORLON_02418 [Dorea longicatena DSM 13814]
          Length = 399

 Score =  296 bits (758), Expect = 5e-78,   Method: Compositional matrix adjust.
 Identities = 147/337 (43%), Positives = 226/337 (67%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL+  + +  EK I ++ +L  + +S+  A ++ +G   +I++ +N ET +  L+    
Sbjct: 4   ELLEALNILEKEKDISKETLLDAIENSLMNACKNHFGKTDNIKLIMNKETCEYQLYAEKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+   QISL+ A++ D   ++G +V  P+    FGR+A Q+AK +I+QK+RE ER
Sbjct: 64  VVEEVEDKLEQISLEDAKEIDSKFELGDIVHIPIESKSFGRIATQNAKNLILQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y ++ +K  +I++G V+R    NV ++LG +D ++  +E +  E  +P +R+K YI 
Sbjct: 124 KVVYDQYFEKEKDIVTGIVQRYVGKNVSINLGKADAMLTENEQVKGEVFKPTERIKLYIV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP++L+SRTHP+ + +LF  EV E+ +GIV++K+++R+ GSR K+AV+S+D  
Sbjct: 184 EVKNTTKGPKILVSRTHPELVKRLFESEVTEVKDGIVEIKSIAREAGSRTKIAVWSNDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGM G+RV A+V ELR EKIDI+ WS + A  + NAL PA V  V+ D D   
Sbjct: 244 VDPVGACVGMNGARVNAIVNELRGEKIDIINWSDNPAILIENALSPAKVISVMADPDEKT 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+ GQN RLA++LTG+ IDI  E
Sbjct: 304 ASVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKNE 340


>gi|197303044|ref|ZP_03168092.1| hypothetical protein RUMLAC_01771 [Ruminococcus lactaris ATCC
           29176]
 gi|197297899|gb|EDY32451.1| hypothetical protein RUMLAC_01771 [Ruminococcus lactaris ATCC
           29176]
          Length = 397

 Score =  296 bits (758), Expect = 5e-78,   Method: Compositional matrix adjust.
 Identities = 147/337 (43%), Positives = 229/337 (67%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL+    +  EK+I +DV++  + +S+  A ++ +GT  +I++ ++ ET D S+F   E
Sbjct: 4   ELLEALTILEKEKNISKDVMMEAIENSLLSACKNHFGTSDNIKIVMDRETCDYSVFAEKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISL+ A   +PS+ IG +   P+   +FGR+A Q+AK +I+QK+RE ER
Sbjct: 64  VVEEVFDPAIEISLEDAEKINPSLHIGDIAQVPVYSKEFGRIATQNAKNLILQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              + ++ +K  +I++G V+R    N+ ++LG +D ++  +E +  E+  P +R+K YI 
Sbjct: 124 KVVFDQYFEKEKDIVTGIVQRYVGKNISINLGRADAMLTENEQVKGEHFEPTERIKLYIV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP++L+SRTHP+ + +LF  EV E+ +G V++K+++R+ GSR K+AV+S+D +
Sbjct: 184 EVKNTTKGPKILVSRTHPELVKRLFEAEVAEVKDGTVEIKSIAREAGSRTKMAVWSNDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGM G+RV AVV ELR EKIDI+ W  + A  + NAL PA V  V+ D D   
Sbjct: 244 VDPVGACVGMNGARVNAVVQELRGEKIDIINWDENPALLIENALSPAKVISVMADPDAKV 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 304 ASVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSE 340


>gi|51892657|ref|YP_075348.1| transcription elongation factor NusA [Symbiobacterium thermophilum
           IAM 14863]
 gi|51856346|dbj|BAD40504.1| transcriptional termination-antitermination factor [Symbiobacterium
           thermophilum IAM 14863]
          Length = 360

 Score =  296 bits (758), Expect = 5e-78,   Method: Compositional matrix adjust.
 Identities = 151/344 (43%), Positives = 229/344 (66%), Gaps = 3/344 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
           + E+L+  D +  E+ I R+V++  +  ++  A R  +G+  ++RV  + +TG+  ++  
Sbjct: 2   KAEILEALDDLVRERGISREVLIEAIEAALISAYRRNFGSAQNVRVFFDDKTGEYRVYAQ 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            E+VEEV +   Q+SL+ AR ++PS+ +G V    + P DFGR+A Q+AKQV++Q++REA
Sbjct: 62  KEIVEEVTDPRLQVSLEEARMKNPSLQLGDVFEVEVTPRDFGRIAAQTAKQVVVQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV---IRRDETISRENLRPGDRV 182
           ER   Y E+  + GEI++G V+R +     V L  + GV   +  +E I  E      R+
Sbjct: 122 ERGMIYEEYSSREGEIVTGLVQRQDPKTRTVYLELARGVEAVLTANEQIPGERYVENQRI 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           K+Y+ +V+R  +GP + +SRTHP  + +LF +EVPEI++G V++K ++R+ GSR+K+AV 
Sbjct: 182 KAYVIEVKRTTKGPAIAVSRTHPGLLKRLFELEVPEIHDGTVEIKGIAREAGSRSKIAVM 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           + D ++DPVGACVG +G RVQ +V EL+ EKID+V WSPD   FV  AL PA VT+VV D
Sbjct: 242 ARDPNVDPVGACVGQKGQRVQNIVDELQGEKIDVVEWSPDPEVFVAKALSPAKVTQVVCD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           E+     VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E +
Sbjct: 302 EESRIARVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQ 345


>gi|327441013|dbj|BAK17378.1| transcription elongation factor [Solibacillus silvestris StLB046]
          Length = 375

 Score =  296 bits (758), Expect = 6e-78,   Method: Compositional matrix adjust.
 Identities = 147/337 (43%), Positives = 227/337 (67%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL    A+  +K I RDV++  +  ++  A +  +    ++RV++N +TG + ++   +
Sbjct: 4   ELLDALTALEEQKGISRDVLIEAIEAALVTAYKRNFNQAQNVRVDLNLQTGSMVVYSRKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+   +I+L+ A+  + + +IG VV + + P +FGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVEEVEDDRLEIALEDAKFINAAYEIGDVVEEEVTPRNFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+ D+  +I++G ++R +  N+ V +G  +  +  +E I  E  +P  R++ YI 
Sbjct: 124 GLIYEEYVDREDDIVTGVIERQDARNIYVSIGKVEAALPVNEQIQGEVYKPTSRIRVYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V R  RGPQV++SRTHP  + +LF MEVPEIY+G V++K+++R+ G R+K++V++ +  
Sbjct: 184 KVERTTRGPQVIVSRTHPGLLRRLFEMEVPEIYDGTVEIKSIAREAGDRSKISVYAHNEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G+RVQ +V EL  EKIDIV WS D   FV NAL P+ V  V ++E+   
Sbjct: 244 VDPVGSCVGAKGARVQTIVNELNGEKIDIVEWSEDPVVFVANALSPSKVLDVQVNEEEKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 304 TTVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 340


>gi|290969147|ref|ZP_06560672.1| transcription termination factor NusA [Megasphaera genomosp. type_1
           str. 28L]
 gi|290780653|gb|EFD93256.1| transcription termination factor NusA [Megasphaera genomosp. type_1
           str. 28L]
          Length = 372

 Score =  296 bits (757), Expect = 7e-78,   Method: Compositional matrix adjust.
 Identities = 161/353 (45%), Positives = 229/353 (64%), Gaps = 12/353 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY------GTMSDIRVEINPETGDIS 61
           ELL     ++ EK +  DV+     DS++    + Y        M+D  VE+N ETGD  
Sbjct: 4   ELLNAIAFLSKEKGVSPDVI----CDSLEAVLITAYKKEPEANPMAD--VELNRETGDYR 57

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +     VV EV N   +I L  AR ++ + +IG +V   + P +FGR+A Q+AKQV+IQ+
Sbjct: 58  IVAAKTVVAEVTNENEEIVLAEARKQNAAYEIGDMVKVDVTPHNFGRIAAQAAKQVMIQR 117

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +REAER   Y EF ++  +II+G V+R+E   V VDLG ++ V+   E I+ E    G R
Sbjct: 118 LREAERSIVYDEFYNRTDDIITGLVQRIENKIVYVDLGKAEAVLPVSEQIAEEQYYVGQR 177

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+ +VR+  +G Q+L+SRTHP  + +LF +EVPEIY+G+V++K+V+R+PG R+K+AV
Sbjct: 178 LKCYVVEVRKTTKGAQILVSRTHPGLLKRLFELEVPEIYDGVVELKSVAREPGRRSKIAV 237

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           FS D+++D VGACVG +G RVQ +VTEL++EKIDIV W  D A ++ NAL PA V  V +
Sbjct: 238 FSRDTNVDCVGACVGPKGVRVQNIVTELQNEKIDIVKWDEDPAVYIANALSPAQVVSVTI 297

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
           DE+     VIVP  QLSLAIG+ GQN RLA++LT W IDI +E +      KD
Sbjct: 298 DEENKMSAVIVPDYQLSLAIGKAGQNARLAAKLTNWKIDIKSESQAKDGNSKD 350


>gi|238019442|ref|ZP_04599868.1| hypothetical protein VEIDISOL_01311 [Veillonella dispar ATCC 17748]
 gi|237864141|gb|EEP65431.1| hypothetical protein VEIDISOL_01311 [Veillonella dispar ATCC 17748]
          Length = 358

 Score =  296 bits (757), Expect = 8e-78,   Method: Compositional matrix adjust.
 Identities = 151/337 (44%), Positives = 220/337 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+Q    +  +K    +V+   +  ++ +A R    +  D  V I+ ETGD  +    +
Sbjct: 4   ELIQAVMVLTKQKGFAPEVIFESLEAALLQAYRKEPTSNPDAYVVIDRETGDYKVMAKKQ 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE    +ISL  AR  D   +IG VV   + P +FGR A  +AKQ++IQ+++EAER
Sbjct: 64  VVETVELPETEISLLEARKIDKRFEIGDVVEVDVTPANFGRSAAHTAKQMLIQRLKEAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+  + G+II+G + RVE  NV ++LG ++ ++   E I+ E  R GDR+K YI 
Sbjct: 124 SVVYEEYYSREGDIITGVITRVEGKNVFINLGKTEAILPPTEQIATETYREGDRIKCYIV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V++  +GPQ+++SRTHP  + +LF +EVPEIY G+V++K+V+R+PG R+K+AV+S D +
Sbjct: 184 EVKKTTKGPQIMISRTHPGLLKRLFELEVPEIYEGVVELKSVAREPGMRSKIAVYSRDEN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G RVQ +V EL DEKIDIV W  D A ++ N+L PA V  V + E+   
Sbjct: 244 VDPVGACVGPKGQRVQHIVDELHDEKIDIVKWDEDPAIYIANSLSPAKVVSVDVSEEEKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+ GQN RLA++LT W IDI +E
Sbjct: 304 SYVVVPDYQLSLAIGKAGQNARLAAKLTNWKIDIKSE 340


>gi|319892283|ref|YP_004149158.1| Transcription termination protein NusA [Staphylococcus
           pseudintermedius HKU10-03]
 gi|317161979|gb|ADV05522.1| Transcription termination protein NusA [Staphylococcus
           pseudintermedius HKU10-03]
          Length = 392

 Score =  295 bits (754), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 149/337 (44%), Positives = 223/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N ++G   +    E
Sbjct: 5   ELLLATEYLEKEKKIPREVLVDAIEAALITAYKKNYDSARNVRVELNLDSGTFRVISRKE 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV ++  +I L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDHREEIDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF DK  +I++G + RV++  V V+LG ++ V+   E    E   P +R+K Y+ 
Sbjct: 125 EILYEEFIDKEDDIMTGVIDRVDHRYVYVNLGRTEAVLSEAERSPNETYLPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEI+ G V+VK+V+R+ G R+K++V+S +  
Sbjct: 185 KVEQTTKGPQIFVSRSHPGLLKRLFEQEVPEIFEGTVEVKSVAREAGDRSKISVYSENPD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV WS D   FV NAL P+ V  V++DE+   
Sbjct: 245 IDAVGACVGAKGARVEAVVAELGGEKIDIVQWSEDPKVFVRNALSPSQVIDVIVDEENQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 305 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 341


>gi|289434603|ref|YP_003464475.1| transcription termination factor [Listeria seeligeri serovar 1/2b
           str. SLCC3954]
 gi|289170847|emb|CBH27389.1| transcription termination factor [Listeria seeligeri serovar 1/2b
           str. SLCC3954]
 gi|313638097|gb|EFS03364.1| transcription termination factor NusA [Listeria seeligeri FSL
           S4-171]
          Length = 372

 Score =  295 bits (754), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 148/337 (43%), Positives = 223/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     + ++K I R+V++  +  ++  A +  +    ++RV++N E G I +    E
Sbjct: 4   ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VE+V +   +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  AVEQVFDSRLEISMEEAHKINPVYKPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y+ 
Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++S+  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTSNEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E    
Sbjct: 244 VDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEADQA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 340


>gi|332976856|gb|EGK13681.1| N utilization substance protein A [Desmospora sp. 8437]
          Length = 377

 Score =  294 bits (753), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 150/339 (44%), Positives = 223/339 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E +   + +  EK I ++V++  +  ++    +  + +  ++RV+I+ +TG + +F    
Sbjct: 4   EFIDALNQLEKEKGISKEVLIEAIEAALISGYKRNFHSAQNVRVDIDRDTGRVRVFARKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISL+ A + +PS ++  +V   + P DFGR+A Q+AKQV+ Q++REAER
Sbjct: 64  VVEEVTDPRLEISLEAATEINPSFELDDIVEIEVTPADFGRIAAQTAKQVVTQRIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +  +  +DLG  + ++   ET+  E  +  DRVK+YI 
Sbjct: 124 SIIYEEFVDREADIVTGVVQRADSRHYYIDLGRVEALLPFAETMPGERFKHNDRVKAYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQV +SRTHP  + +LF +EVPEIY GIV++++V+R+ G R+K+AV S D  
Sbjct: 184 RVEKSTKGPQVFVSRTHPGLLKRLFELEVPEIYEGIVEIRSVAREAGHRSKIAVISRDEQ 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG RG RVQ VV ELR EKIDIV WS +   FV NAL P+ V +V + E    
Sbjct: 244 VDPVGACVGHRGMRVQTVVNELRGEKIDIVRWSDEPVEFVSNALSPSKVVRVDIREAEKV 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            +V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E E
Sbjct: 304 AQVVVPDHQLSLAIGKEGQNARLAAKLTGWKIDIKSESE 342


>gi|217964531|ref|YP_002350209.1| transcription termination factor NusA [Listeria monocytogenes
           HCC23]
 gi|290893567|ref|ZP_06556550.1| N utilization substance protein A [Listeria monocytogenes FSL
           J2-071]
 gi|217333801|gb|ACK39595.1| transcription termination factor NusA [Listeria monocytogenes
           HCC23]
 gi|290556912|gb|EFD90443.1| N utilization substance protein A [Listeria monocytogenes FSL
           J2-071]
 gi|307570903|emb|CAR84082.1| transcription termination factor [Listeria monocytogenes L99]
 gi|313619131|gb|EFR90921.1| transcription termination factor NusA [Listeria innocua FSL S4-378]
          Length = 372

 Score =  294 bits (753), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 147/337 (43%), Positives = 223/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     + ++K I R+V++  +  ++  A +  +    ++RV++N E G I +    E
Sbjct: 4   ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VE+V +   +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  AVEQVFDSRLEISMEEAHKLNPVYKPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y+ 
Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++++  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTANEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E    
Sbjct: 244 VDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEADQA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 340


>gi|159897005|ref|YP_001543252.1| NusA antitermination factor [Herpetosiphon aurantiacus ATCC 23779]
 gi|159890044|gb|ABX03124.1| NusA antitermination factor [Herpetosiphon aurantiacus ATCC 23779]
          Length = 444

 Score =  294 bits (753), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 150/330 (45%), Positives = 222/330 (67%), Gaps = 4/330 (1%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMS---DIRVEINPETGDISLFRLLEVVEEV 72
           +A E+ I R+ V  V+  ++  A R   G+     D+++E+ P TG I ++   +VV+EV
Sbjct: 12  IAAERGIPRESVQDVVEQALISAYRRYLGSNPPPVDVKIELEPNTGRIRVYAEKQVVDEV 71

Query: 73  ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYL 132
            +   +I ++ AR+    ++IG  V     P DFGR+A Q+AKQV++Q+++E ERD  Y 
Sbjct: 72  MDDRFEIDIEDARNVRADVEIGETVYVESTPDDFGRIAAQTAKQVVLQRIKEVERDHIYG 131

Query: 133 EFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
           E+ D+ GEI++ TV+R   GNVI+++G ++ ++ + E IS +N R G R+K Y+ + RR+
Sbjct: 132 EYFDREGEIVTATVQRTAKGNVILEVGRAEAILPQKEQISHDNYRHGQRLKVYLMEARRD 191

Query: 193 Q-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPV 251
             RGP+++ SRTH   + +LF MEVPEIYNG V++K+++R+PG R+K+AV +    IDPV
Sbjct: 192 DPRGPRLVASRTHKDLIKRLFEMEVPEIYNGTVEIKSIAREPGLRSKVAVHARQEGIDPV 251

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI 311
           G+CVGMRG R+Q +V EL  EKID+V W  D   F+ NAL PA V +V LDE      V+
Sbjct: 252 GSCVGMRGIRIQNIVNELNGEKIDVVQWGADMRVFIANALSPAQVVEVHLDEGEKTATVV 311

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           VP +QLSLAIG+ GQNVRLA++L GW IDI
Sbjct: 312 VPDKQLSLAIGKEGQNVRLAAKLVGWRIDI 341


>gi|254824619|ref|ZP_05229620.1| transcription elongation factor NusA [Listeria monocytogenes FSL
           J1-194]
 gi|254852628|ref|ZP_05241976.1| transcription elongation factor NusA [Listeria monocytogenes FSL
           R2-503]
 gi|254932363|ref|ZP_05265722.1| transcription elongation factor NusA [Listeria monocytogenes
           HPB2262]
 gi|255521785|ref|ZP_05389022.1| transcription elongation factor NusA [Listeria monocytogenes FSL
           J1-175]
 gi|300765438|ref|ZP_07075420.1| N utilization substance protein A [Listeria monocytogenes FSL
           N1-017]
 gi|258605943|gb|EEW18551.1| transcription elongation factor NusA [Listeria monocytogenes FSL
           R2-503]
 gi|293583919|gb|EFF95951.1| transcription elongation factor NusA [Listeria monocytogenes
           HPB2262]
 gi|293593857|gb|EFG01618.1| transcription elongation factor NusA [Listeria monocytogenes FSL
           J1-194]
 gi|300513875|gb|EFK40940.1| N utilization substance protein A [Listeria monocytogenes FSL
           N1-017]
 gi|328468605|gb|EGF39605.1| transcription elongation factor NusA [Listeria monocytogenes 1816]
 gi|328475044|gb|EGF45832.1| transcription elongation factor NusA [Listeria monocytogenes 220]
 gi|332311765|gb|EGJ24860.1| Transcription elongation protein nusA [Listeria monocytogenes str.
           Scott A]
          Length = 372

 Score =  294 bits (753), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 147/337 (43%), Positives = 223/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     + ++K I R+V++  +  ++  A +  +    ++RV++N E G I +    E
Sbjct: 4   ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VE+V +   +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  AVEQVFDSRLEISMEEAHKLNPVYKPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y+ 
Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++++  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTANEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E    
Sbjct: 244 VDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEADQA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 340


>gi|282848827|ref|ZP_06258220.1| transcription termination factor NusA [Veillonella parvula ATCC
           17745]
 gi|294791739|ref|ZP_06756887.1| transcription termination factor NusA [Veillonella sp. 6_1_27]
 gi|294793600|ref|ZP_06758737.1| transcription termination factor NusA [Veillonella sp. 3_1_44]
 gi|282581481|gb|EFB86871.1| transcription termination factor NusA [Veillonella parvula ATCC
           17745]
 gi|294455170|gb|EFG23542.1| transcription termination factor NusA [Veillonella sp. 3_1_44]
 gi|294456969|gb|EFG25331.1| transcription termination factor NusA [Veillonella sp. 6_1_27]
          Length = 358

 Score =  294 bits (753), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 151/337 (44%), Positives = 220/337 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+Q    +  +K    +V+   +  ++ +A R    +  D  V I+ ETG   +    +
Sbjct: 4   ELIQAVMVLTKQKGFAPEVIFESLEAALLQAYRKEPTSNPDAYVVIDRETGVYKVMAKKQ 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE    +ISL  AR +D   +IG VV   + P +FGR A  +AKQ++IQ+++EAER
Sbjct: 64  VVETVELPETEISLLDARKKDKRFEIGDVVEVDVTPANFGRSAAHTAKQMLIQRLKEAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+  + G+II+G + RVE  NV +DLG ++ ++   E I+ E  R GDR+K YI 
Sbjct: 124 SVVYEEYYSREGDIITGVITRVEGKNVFIDLGKTEAILPPTEQIATETYREGDRIKCYIV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V++  +GPQ+++SRTHP  + +LF +EVPEI+ G+V++K+V+R+PG R+K+AV+S D +
Sbjct: 184 EVKKTTKGPQIMISRTHPGLLKRLFELEVPEIFEGVVELKSVAREPGMRSKIAVYSRDEN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVGACVG +G RVQ +V EL DEKIDIV W  D A ++ N+L PA V  V + E+   
Sbjct: 244 IDPVGACVGPKGQRVQHIVDELHDEKIDIVKWDEDPAIYIANSLSPAKVVSVDVSEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+ GQN RLA++LT W IDI +E
Sbjct: 304 SYVVVPDYQLSLAIGKAGQNARLAAKLTNWKIDIKSE 340


>gi|46907548|ref|YP_013937.1| transcription elongation factor NusA [Listeria monocytogenes
           serotype 4b str. F2365]
 gi|46880816|gb|AAT04114.1| N utilization substance protein A [Listeria monocytogenes serotype
           4b str. F2365]
          Length = 372

 Score =  294 bits (753), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 147/337 (43%), Positives = 223/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     + ++K I R+V++  +  ++  A +  +    ++RV++N E G I +    E
Sbjct: 4   ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VE+V +   +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  AVEQVFDSRLEISMEEAHKLNPVYKPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y+ 
Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++++  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTANEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E    
Sbjct: 244 VDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEADQA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 340


>gi|254669623|emb|CBA03666.1| N utilization substance protein A [Neisseria meningitidis alpha153]
          Length = 358

 Score =  294 bits (753), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 164/337 (48%), Positives = 237/337 (70%), Gaps = 12/337 (3%)

Query: 142 ISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG---- 195
           +SGTVKRVE   +IV++  G  D +I RD+ I REN R GDR+++    +R E+ G    
Sbjct: 1   MSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSGDRIRALF--LRVEEIGNTGR 58

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
            QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG RAK+AV ++D  IDP G C+
Sbjct: 59  KQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQRAKVAVKANDQRIDPQGTCI 118

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V+++V+DED   ++VIV ++
Sbjct: 119 GVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEVSRIVIDEDKHAVDVIVAED 178

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKDFNERTQFFMQAINVDEIIAH 374
           QL+LAIGR GQNVRLAS LTGW ++I+T  E D  N  +D   R + FM  +NVDE  A 
Sbjct: 179 QLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAIR-RLFMDHLNVDEETAD 237

Query: 375 LLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVS 434
           +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ +  + I  ++K+ E  VS
Sbjct: 238 VLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAILTMAIAAEEKLGE--VS 295

Query: 435 EELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           +++ ++ GID+ +  +L E GI T +DLA  +VD+L+
Sbjct: 296 DDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELI 332


>gi|239626256|ref|ZP_04669287.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47_FAA]
 gi|239520486|gb|EEQ60352.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47FAA]
          Length = 401

 Score =  294 bits (753), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 148/337 (43%), Positives = 223/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL+  + +  EK+I +D ++  + +S+  A ++ +G   +++V +NP T D +++    
Sbjct: 10  ELLEAMEVLEKEKNIAKDTLIEAIENSLLTACKNHFGKADNVKVTVNPNTCDFAVYAEKT 69

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE+VE+   +ISL  A+   P  D+G  V  PL    FGR+A Q+AK VI+QK+RE ER
Sbjct: 70  VVEQVEDDIMEISLADAKMLSPKYDLGDTVQIPLDSKKFGRIATQNAKNVILQKIREEER 129

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+  K  ++++G V+R    NV ++LG  D ++   E +  E  RP +R+K Y+ 
Sbjct: 130 KVLYNEYYTKEKDVMTGIVQRYLGRNVSINLGRVDAILNESEQVKGETFRPTERIKVYVL 189

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP+V +SRTHP  + +LF  EV E+ +G V++KA++R+ GSR K+AV S+DS+
Sbjct: 190 EVKDTPKGPRVSVSRTHPDLVKRLFESEVAEVRDGTVEIKAIAREAGSRTKIAVKSNDSN 249

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG+ G+RV A+V+ELR EKIDI+ W  + A  + NAL PA V  VV DE+   
Sbjct: 250 VDPVGACVGLNGARVNAIVSELRGEKIDIINWDDNPAYLIENALSPAKVICVVADEEERE 309

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            +VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 310 AQVIVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSE 346


>gi|16803362|ref|NP_464847.1| transcription elongation factor NusA [Listeria monocytogenes EGD-e]
 gi|224501735|ref|ZP_03670042.1| transcription elongation factor NusA [Listeria monocytogenes FSL
           R2-561]
 gi|16410738|emb|CAC99400.1| nusA [Listeria monocytogenes EGD-e]
          Length = 372

 Score =  294 bits (752), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 147/337 (43%), Positives = 223/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     + ++K I R+V++  +  ++  A +  +    ++RV++N E G I +    E
Sbjct: 4   ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VE+V +   +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  AVEQVFDSRLEISMEEAHKLNPVYQPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y+ 
Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++++  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTANEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E    
Sbjct: 244 VDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEADQA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 340


>gi|323464620|gb|ADX76773.1| transcription termination factor NusA [Staphylococcus
           pseudintermedius ED99]
          Length = 392

 Score =  294 bits (752), Expect = 3e-77,   Method: Compositional matrix adjust.
 Identities = 149/337 (44%), Positives = 223/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N ++G   +    E
Sbjct: 5   ELLLATEYLEKEKKIPREVLVDAIEAALITAYKKNYDSARNVRVELNLDSGTFRVISRKE 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV ++  +I L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDHREEIDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF DK  +I++G + RV++  V V+LG ++ V+   E    E   P +R+K Y+ 
Sbjct: 125 EILYEEFIDKEDDIMTGVIDRVDHRYVYVNLGRTEAVLSEAERSPNETYLPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEI+ G V+VK+V+R+ G R+K++V+S +  
Sbjct: 185 KVEQTTKGPQIFVSRSHPGLLKRLFEQEVPEIFEGTVEVKSVAREAGDRSKISVYSENPD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV WS D   FV NAL P+ V  V++DE+   
Sbjct: 245 IDAVGACVGAKGARVEAVVAELGGEKIDIVQWSEDPKVFVRNALSPSQVIDVIVDEENQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 305 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 341


>gi|16800427|ref|NP_470695.1| transcription elongation factor NusA [Listeria innocua Clip11262]
 gi|16413832|emb|CAC96590.1| nusA [Listeria innocua Clip11262]
          Length = 372

 Score =  294 bits (752), Expect = 3e-77,   Method: Compositional matrix adjust.
 Identities = 147/337 (43%), Positives = 223/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     + ++K I R+V++  +  ++  A +  +    ++RV++N E G I +    E
Sbjct: 4   ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VE+V +   +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  AVEQVFDSRLEISMEEAHKLNPVYKPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y+ 
Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++++  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTANEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E    
Sbjct: 244 VDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEADQA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 340


>gi|47095907|ref|ZP_00233510.1| N utilization substance protein A [Listeria monocytogenes str. 1/2a
           F6854]
 gi|224499904|ref|ZP_03668253.1| transcription elongation factor NusA [Listeria monocytogenes
           Finland 1988]
 gi|254828682|ref|ZP_05233369.1| transcription elongation factor NusA [Listeria monocytogenes FSL
           N3-165]
 gi|254829921|ref|ZP_05234576.1| transcription elongation factor NusA [Listeria monocytogenes
           10403S]
 gi|254898513|ref|ZP_05258437.1| transcription elongation factor NusA [Listeria monocytogenes J0161]
 gi|254911996|ref|ZP_05262008.1| N utilization substance protein A [Listeria monocytogenes J2818]
 gi|254936323|ref|ZP_05268020.1| transcription elongation factor NusA [Listeria monocytogenes F6900]
 gi|284801707|ref|YP_003413572.1| transcription elongation factor NusA [Listeria monocytogenes
           08-5578]
 gi|284994849|ref|YP_003416617.1| transcription elongation factor NusA [Listeria monocytogenes
           08-5923]
 gi|47015653|gb|EAL06583.1| N utilization substance protein A [Listeria monocytogenes str. 1/2a
           F6854]
 gi|258601086|gb|EEW14411.1| transcription elongation factor NusA [Listeria monocytogenes FSL
           N3-165]
 gi|258608913|gb|EEW21521.1| transcription elongation factor NusA [Listeria monocytogenes F6900]
 gi|284057269|gb|ADB68210.1| transcription elongation factor NusA [Listeria monocytogenes
           08-5578]
 gi|284060316|gb|ADB71255.1| transcription elongation factor NusA [Listeria monocytogenes
           08-5923]
 gi|293589960|gb|EFF98294.1| N utilization substance protein A [Listeria monocytogenes J2818]
 gi|313623922|gb|EFR94030.1| transcription termination factor NusA [Listeria innocua FSL J1-023]
          Length = 372

 Score =  294 bits (752), Expect = 3e-77,   Method: Compositional matrix adjust.
 Identities = 147/337 (43%), Positives = 223/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     + ++K I R+V++  +  ++  A +  +    ++RV++N E G I +    E
Sbjct: 4   ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VE+V +   +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  AVEQVFDSRLEISMEEAHKLNPVYKPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y+ 
Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++++  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTANEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E    
Sbjct: 244 VDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEADQA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 340


>gi|116872753|ref|YP_849534.1| transcription elongation factor NusA [Listeria welshimeri serovar
           6b str. SLCC5334]
 gi|116741631|emb|CAK20755.1| N utilization substance protein A, transcription factor [Listeria
           welshimeri serovar 6b str. SLCC5334]
          Length = 372

 Score =  294 bits (752), Expect = 3e-77,   Method: Compositional matrix adjust.
 Identities = 147/337 (43%), Positives = 223/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     + ++K I R+V++  +  ++  A +  +    ++RV++N E G I +    E
Sbjct: 4   ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VE+V +   +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  AVEQVFDSRLEISMEEAHKINPVYKPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y+ 
Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++++  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTANEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E    
Sbjct: 244 VDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEADQA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 340


>gi|226223923|ref|YP_002758030.1| N utilization substance protein A (NusA protein) [Listeria
           monocytogenes Clip81459]
 gi|225876385|emb|CAS05094.1| Putative N utilization substance protein A (NusA protein) [Listeria
           monocytogenes serotype 4b str. CLIP 80459]
          Length = 372

 Score =  294 bits (752), Expect = 3e-77,   Method: Compositional matrix adjust.
 Identities = 147/337 (43%), Positives = 223/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     + ++K I R+V++  +  ++  A +  +    ++RV++N E G I +    E
Sbjct: 4   ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VE+V +   +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  AVEQVFDSRLEISMEEAHKVNPVYKPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y+ 
Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++++  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTANEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E    
Sbjct: 244 VDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEADQA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 340


>gi|297584078|ref|YP_003699858.1| NusA antitermination factor [Bacillus selenitireducens MLS10]
 gi|297142535|gb|ADH99292.1| NusA antitermination factor [Bacillus selenitireducens MLS10]
          Length = 396

 Score =  293 bits (751), Expect = 3e-77,   Method: Compositional matrix adjust.
 Identities = 146/339 (43%), Positives = 226/339 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E +    ++  +K ID++++L  +  ++    +  + +  ++RV+I+ E+G I +F    
Sbjct: 4   EFMDALASIEKDKGIDKEIILEAIEQALITGYKRNFNSAQNVRVDIDRESGQIRVFARKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +IS + A+  +P  ++  +V   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVEEVFDARLEISQEEAKGINPHYEVDDIVEIEVTPRDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y +F D+  +I++G V+R ++  + VDLG  + ++  +E +  E  R  DR+K++I 
Sbjct: 124 GIIYSDFIDREEDIMTGIVQRQDHRFIYVDLGKVEALMPLNEQMPNETYRHNDRIKAFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+++SR+HP  + +LF +EVPEIY+G V+VK+VSR+ G R+K++V + D  
Sbjct: 184 KVEKTTKGPQIMISRSHPGLLKRLFELEVPEIYDGTVEVKSVSREAGERSKISVHAEDED 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVG+CVG RG RVQ +V EL+ EKIDIV WS D   +V NAL P+ V  V+++E+   
Sbjct: 244 IDPVGSCVGQRGQRVQTIVDELKGEKIDIVRWSEDPKVYVSNALSPSKVVDVLVNEEQKM 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E E
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSESE 342


>gi|308173623|ref|YP_003920328.1| transcription translation coupling factor involved in Rho-dependent
           transcription termination [Bacillus amyloliquefaciens
           DSM 7]
 gi|307606487|emb|CBI42858.1| transcription translation coupling factor involved in Rho-dependent
           transcription termination [Bacillus amyloliquefaciens
           DSM 7]
 gi|328553445|gb|AEB23937.1| transcription elongation factor NusA [Bacillus amyloliquefaciens
           TA208]
 gi|328911764|gb|AEB63360.1| transcription translation coupling factor involved in Rho-dependent
           transcription termination [Bacillus amyloliquefaciens
           LL3]
          Length = 373

 Score =  293 bits (751), Expect = 3e-77,   Method: Compositional matrix adjust.
 Identities = 150/337 (44%), Positives = 225/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV++N ETG I +F   +
Sbjct: 4   ELLDALTILEKEKGISKDIIIEAIEAALISAYKRNFNQAQNVRVDLNRETGTIRVFARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISL  A+   P+  +G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDEVYDSRLEISLDDAQHIHPNYLVGDVVEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R++   + V LG  + ++  +E +  E+ +P DR+K +I 
Sbjct: 124 GVIYSEFIDREEDIMTGIVQRLDSKFIYVSLGKIEALLPVNEQMPNESYKPHDRIKVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+V+R+ G R+K++V + D  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEIEVPEIYDGTVELKSVAREAGDRSKISVRTDDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQA+V EL+ EKIDIV WS D   FV NAL P+ V  V+++E+   
Sbjct: 244 VDPVGSCVGPKGQRVQAIVNELKGEKIDIVNWSDDPVEFVANALSPSKVLDVIVNEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 340


>gi|319649523|ref|ZP_08003679.1| transcription elongation factor NusA [Bacillus sp. 2_A_57_CT2]
 gi|317398685|gb|EFV79367.1| transcription elongation factor NusA [Bacillus sp. 2_A_57_CT2]
          Length = 385

 Score =  293 bits (751), Expect = 3e-77,   Method: Compositional matrix adjust.
 Identities = 149/337 (44%), Positives = 223/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I RDV++  +  ++  A R  +    ++R+++N   G + +F   E
Sbjct: 4   ELLDALTLLEKEKGISRDVIIEAIEAALVSAYRRNFNQAQNVRIDLNLGNGTMRVFARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +IS++ A+  +P+  +  VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDEVFDPRLEISVEDAQKINPNYQVEDVVEMEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V LG  + ++  +E +  E  +P DR+K +I 
Sbjct: 124 GIIYSEFIDREEDIMTGIVQRTDPKFIYVSLGKIEAILPANEQMPNERYQPHDRIKVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+V+R+ G R+K++V S +  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEIEVPEIYDGTVEIKSVAREAGDRSKISVHSDNEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G+RVQAVV EL+ EKIDIV WS D   FV NAL P+ V  V+++ED   
Sbjct: 244 VDPVGSCVGPKGTRVQAVVNELKGEKIDIVKWSSDPVVFVANALSPSKVLDVIVNEDDKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 304 TTVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 340


>gi|315282175|ref|ZP_07870640.1| transcription termination factor NusA [Listeria marthii FSL S4-120]
 gi|313614179|gb|EFR87858.1| transcription termination factor NusA [Listeria marthii FSL S4-120]
          Length = 372

 Score =  293 bits (751), Expect = 3e-77,   Method: Compositional matrix adjust.
 Identities = 147/337 (43%), Positives = 223/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     + ++K I R+V++  +  ++  A +  +    ++RV++N E G I +    E
Sbjct: 4   ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VE+V +   +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  AVEQVFDSRLEISMEEAHKLNPVYQPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y+ 
Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++++  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTANEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E    
Sbjct: 244 VDPVGACVGPKGARVQTIVNELKGEKIDIVEWSDDPFTFVANALSPSKVLDVIVNEADQA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 340


>gi|313633405|gb|EFS00241.1| transcription termination factor NusA [Listeria seeligeri FSL
           N1-067]
          Length = 372

 Score =  293 bits (751), Expect = 4e-77,   Method: Compositional matrix adjust.
 Identities = 147/337 (43%), Positives = 223/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     + ++K I R+V++  +  ++  A +  +    ++RV++N E G I +    E
Sbjct: 4   ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VE+V +   +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  AVEQVFDSRLEISMEEAHKINPVYKPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y+ 
Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++++  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTANEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E    
Sbjct: 244 VDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEADQA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 340


>gi|313893742|ref|ZP_07827309.1| transcription termination factor NusA [Veillonella sp. oral taxon
           158 str. F0412]
 gi|313441756|gb|EFR60181.1| transcription termination factor NusA [Veillonella sp. oral taxon
           158 str. F0412]
          Length = 358

 Score =  293 bits (751), Expect = 4e-77,   Method: Compositional matrix adjust.
 Identities = 150/337 (44%), Positives = 220/337 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+Q    +  +K    +V+   +  ++ +A R    +  D  V I+ ETG   +    +
Sbjct: 4   ELIQAVMVLTKQKGFAPEVIFESLEAALLQAYRKEPTSNPDAYVVIDRETGVYKVMAKKQ 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE    +ISL  AR +D   +IG VV   + P +FGR A  +AKQ++IQ+++EAER
Sbjct: 64  VVETVELPETEISLLDARKKDKRFEIGDVVEVDVTPANFGRSAAHTAKQMLIQRLKEAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+  + G+II+G + RVE  NV +DLG ++ ++   E I+ E  R GDR+K YI 
Sbjct: 124 SVVYEEYYSREGDIITGVITRVEGKNVFIDLGKTEAILPPTEQIATETYREGDRIKCYIV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V++  +GPQ+++SRTHP  + +LF +EVPEI+ G+V++K+V+R+PG R+K+AV+S D +
Sbjct: 184 EVKKTTKGPQIMISRTHPGLLKRLFELEVPEIFEGVVELKSVAREPGMRSKIAVYSRDEN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G RVQ +V EL DEKIDIV W  D A ++ N+L PA V  V + E+   
Sbjct: 244 VDPVGACVGPKGQRVQHIVDELHDEKIDIVKWDEDPAIYIANSLSPAKVISVDVSEEEKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+ GQN RLA++LT W IDI +E
Sbjct: 304 SYVVVPDYQLSLAIGKAGQNARLAAKLTNWKIDIKSE 340


>gi|154506276|ref|ZP_02043014.1| hypothetical protein RUMGNA_03818 [Ruminococcus gnavus ATCC 29149]
 gi|153793415|gb|EDN75835.1| hypothetical protein RUMGNA_03818 [Ruminococcus gnavus ATCC 29149]
          Length = 397

 Score =  293 bits (750), Expect = 4e-77,   Method: Compositional matrix adjust.
 Identities = 148/337 (43%), Positives = 228/337 (67%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL++    +  EK+I RD ++  + +S+  A ++ +GT  +I+V +N ET D +++   E
Sbjct: 4   ELMEALTILEKEKNISRDTMMDAIENSLISACKNHFGTSDNIKVIMNRETCDYAVYAEKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +I+L+ A + D ++ IG V   P+   +FGR+A  +AK +I+QK+RE ER
Sbjct: 64  VVEEVFDPAIEITLEDAEEIDSALQIGDVCQVPVQSKEFGRIATMNAKNLILQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y ++ +K  +I++G V+R    N+ V+LG +D ++  +E +  E  +P DR+K YI 
Sbjct: 124 KVVYDQYFEKEKDIVTGIVQRYVGKNISVNLGKADAMLTENEQVKGEVFKPTDRIKLYIV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP++L+SRTHP+ + +LF  EV E+ +G V++K+++R+ GSR K+AV+S+D +
Sbjct: 184 EVKNTPKGPKILVSRTHPELVKRLFEAEVAEVKDGTVEIKSIAREAGSRTKMAVWSNDEN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGM G+RV AVV ELR EKIDI+ WS + A  + NAL PA V  V+ D D   
Sbjct: 244 VDPVGACVGMNGARVNAVVEELRGEKIDIINWSDNPALLIENALSPAKVISVMADPDEKV 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 304 ASVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSE 340


>gi|288556945|ref|YP_003428880.1| transcription elongation factor NusA [Bacillus pseudofirmus OF4]
 gi|288548105|gb|ADC51988.1| transcription elongation factor NusA [Bacillus pseudofirmus OF4]
          Length = 378

 Score =  293 bits (750), Expect = 5e-77,   Method: Compositional matrix adjust.
 Identities = 146/339 (43%), Positives = 224/339 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E +     +  EK I ++V++  +  ++    +  +    ++RV++N + G I +F    
Sbjct: 4   EFMDALTTLEKEKGISKEVIIEAIEAALISGYKRNFSQAQNVRVDVNRDNGSIRVFARKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEV +   +ISL  A+  +P+ ++  VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  IVEEVFDARLEISLDEAKSINPNYEVDDVVEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y +F D+  +I++G V+R ++  + VDLG  + ++  +E +  E  +  DR+K++I 
Sbjct: 124 GIIYSDFIDREEDIMTGIVQRQDHRFIYVDLGKVEALLPLNEQMPNETYKHNDRIKAFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+L+SRTHP  + +LF +EVPEIY+G V++K+VSR+ G R+K+AV + +  
Sbjct: 184 KVEKTTKGPQILISRTHPGLLKRLFELEVPEIYDGTVEIKSVSREAGDRSKIAVHAENPE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG RG RVQ +V EL+ EKIDIV WS D   +V NAL P+ V KV ++E+   
Sbjct: 244 VDPVGSCVGPRGQRVQTIVDELKGEKIDIVRWSEDPVEYVANALSPSKVVKVNVNEEEKM 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            +VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E E
Sbjct: 304 TQVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSESE 342


>gi|226313023|ref|YP_002772917.1| transcription elongation factor NusA [Brevibacillus brevis NBRC
           100599]
 gi|226095971|dbj|BAH44413.1| transcription elongation protein NusA [Brevibacillus brevis NBRC
           100599]
          Length = 363

 Score =  293 bits (749), Expect = 6e-77,   Method: Compositional matrix adjust.
 Identities = 149/341 (43%), Positives = 232/341 (68%), Gaps = 4/341 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           + ++  +A+  EK I +DV++  +  ++    +  + +  ++RV++N  +G + ++    
Sbjct: 4   DFIEALEAIEREKGITKDVLIEAIEAALISGYKRNFNSAQNVRVDVNRHSGMVRVYARKS 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +IS + A++ DP+  +  +V   + P DFGR+A Q+AKQV+ Q++REAER
Sbjct: 64  VVEEVLDPRLEISQEAAQEIDPNFRLEDIVEIEVTPRDFGRIAAQTAKQVVTQRIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF ++  +I++G V+R++  N  +DLG ++ V+   E +  E+ +  DRVK+YI 
Sbjct: 124 GLIYSEFIEREDDIVTGVVQRMDARNYYIDLGKAEAVMPITEKMPSEDFKSQDRVKAYII 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+++SRTHP  + +LF +EVPEIY+G+V++K+V+R+ G R+K+AV S ++ 
Sbjct: 184 KVEKTTKGPQIVVSRTHPGLLKRLFELEVPEIYDGVVEIKSVAREAGDRSKIAVHSINAD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD--EDV 305
           +DPVGACVG +G RVQ +VTEL+ EKIDIV WS D A +V NAL PA V  V ++  E V
Sbjct: 244 VDPVGACVGPKGMRVQTIVTELKGEKIDIVRWSEDPAEYVANALSPAKVLHVEVNVAEKV 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            R  VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E +
Sbjct: 304 TR--VIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSESQ 342


>gi|154686077|ref|YP_001421238.1| transcription elongation factor NusA [Bacillus amyloliquefaciens
           FZB42]
 gi|154351928|gb|ABS74007.1| NusA [Bacillus amyloliquefaciens FZB42]
          Length = 373

 Score =  293 bits (749), Expect = 6e-77,   Method: Compositional matrix adjust.
 Identities = 150/337 (44%), Positives = 224/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV++N ETG I +F   +
Sbjct: 4   ELLDALTILEKEKGISKDIIIEAIEAALISAYKRNFNQAQNVRVDLNRETGTIRVFARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISL  A+   P+  +G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDEVYDSRLEISLDDAQHIHPNYLVGDVVEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R++   + V LG  + ++  +E +  E+ +P DR+K +I 
Sbjct: 124 GVIYSEFIDREEDIMTGIVQRLDSKFIYVSLGKIEALLPVNEQMPNESYKPHDRIKVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+V+R+ G R+K++V + D  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEIEVPEIYDGTVELKSVAREAGDRSKISVRTDDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQA+V EL+ EKIDIV WS D   FV NAL P+ V  V++ E+   
Sbjct: 244 VDPVGSCVGPKGQRVQAIVNELKGEKIDIVNWSDDPVEFVANALSPSKVLDVIVSEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 340


>gi|257875536|ref|ZP_05655189.1| transcription termination factor NusA [Enterococcus casseliflavus
           EC20]
 gi|257809702|gb|EEV38522.1| transcription termination factor NusA [Enterococcus casseliflavus
           EC20]
          Length = 404

 Score =  292 bits (748), Expect = 8e-77,   Method: Compositional matrix adjust.
 Identities = 146/338 (43%), Positives = 224/338 (66%), Gaps = 1/338 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L   DA+  EK I +++V+  +  ++  A +  YG   ++ VE + + G+I ++ + E
Sbjct: 4   EMLNALDALEAEKGISKEIVIDALEAALVSAYKRHYGQAQNVEVEFDQKKGNIHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V EEV +   ++SLK A   +P+ +IG  +   + P DFGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VTEEVMDSQLEVSLKEAMTINPAYEIGDKIRFEVTPKDFGRIAAQTAKQVILQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF     +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K ++ 
Sbjct: 124 NIIYNEFSAYEKDILQGIVERQDNRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVFVS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SR+HP  + +LF  EVPE+Y+G V++ +++R+ G RAK+AV S D++
Sbjct: 184 RVENTSKGPQVFVSRSHPDLLRRLFEQEVPEVYDGTVEIVSIAREAGDRAKVAVRSFDAN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG CVG +G RVQA+V EL+ E +DIV W+ DSA F+ NAL PA V+ V+ D D  +
Sbjct: 244 VDPVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDSAIFIANALNPAEVSDVIFDVDNPK 303

Query: 308 -IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              V+VP  QLSLAIG+RGQN RLA++LTG+ IDI +E
Sbjct: 304 ACTVVVPDYQLSLAIGKRGQNARLAAKLTGFKIDIKSE 341


>gi|325265380|ref|ZP_08132104.1| transcription termination factor NusA [Clostridium sp. D5]
 gi|324029381|gb|EGB90672.1| transcription termination factor NusA [Clostridium sp. D5]
          Length = 407

 Score =  292 bits (748), Expect = 9e-77,   Method: Compositional matrix adjust.
 Identities = 145/337 (43%), Positives = 228/337 (67%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL+  + +  EK+I +D ++  + +S+  A ++ +GT  +I+V ++ ET D +++   E
Sbjct: 4   ELLEALNILEQEKNISKDTMMDAIENSLISACKNHFGTAENIKVIMDRETCDYAVYAEKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISL+ A   D ++ IG +   P+    FGR+A Q+AK +I+QK+RE ER
Sbjct: 64  VVEEVFDPALEISLEDAEQIDSALQIGDIAQIPIESKSFGRIATQNAKNLILQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y ++ +K  +I++G V+R    N+ ++LG +D ++  +E +  E  +P +R+K Y+ 
Sbjct: 124 KVVYDQYFEKEKDIVTGIVQRYVGRNISINLGRADAMLTENEQVKGEVFKPTERIKLYVV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP++L+SRTHP+ + +LF  EV E+ +G V++K+++R+ GSR K+AV+S+D +
Sbjct: 184 EVKNTPKGPKILVSRTHPELVKRLFEAEVAEVKDGTVEIKSIAREAGSRTKMAVWSNDEN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGM G+RV AVV ELR EKIDI+ WS + A  + NAL PA V  V+ D D   
Sbjct: 244 VDPVGACVGMNGARVNAVVNELRGEKIDIINWSDNPALLIENALSPAKVISVMADPDEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 304 ASVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSE 340


>gi|291550231|emb|CBL26493.1| transcription termination factor NusA [Ruminococcus torques L2-14]
          Length = 395

 Score =  292 bits (748), Expect = 9e-77,   Method: Compositional matrix adjust.
 Identities = 147/337 (43%), Positives = 228/337 (67%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL+  D +  EK+I +DV+L  + +S+  A ++ +GT  +I++ ++  T D S++   E
Sbjct: 4   ELLEALDILEKEKNISKDVMLEAIENSLLSACKNHFGTSDNIKIVMDRNTCDYSVYAERE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISL+ A   +P++ IG +    L   +FGR+A Q+AK +I+QK+RE ER
Sbjct: 64  VVEEVFDPAIEISLEDAEKINPALHIGDIAQVELHSKEFGRIATQNAKNLILQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              + ++ +K  +I++G V+R    N+ V+LG +D ++  +E +  E+  P +R+K YI 
Sbjct: 124 KAVFDQYFEKEKDIVTGIVQRYIGKNISVNLGKADAILTENEQVKGEHFEPTERIKLYIV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP++L+SRTHP+ + +LF  EV E+ +G V++K+++R+ GSR K+AV+S+D +
Sbjct: 184 EVKNTPKGPKILVSRTHPELVKRLFESEVAEVKDGTVEIKSIAREAGSRTKMAVWSNDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGM G+RV AVV ELR EKIDI+ W  + A  + NAL PA V  V+ D D   
Sbjct: 244 VDPVGACVGMNGARVNAVVKELRGEKIDIINWDENPALLIENALSPAKVISVMADPDEKI 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 304 AGVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSE 340


>gi|313673261|ref|YP_004051372.1| nusa antitermination factor [Calditerrivibrio nitroreducens DSM
           19672]
 gi|312940017|gb|ADR19209.1| NusA antitermination factor [Calditerrivibrio nitroreducens DSM
           19672]
          Length = 428

 Score =  292 bits (747), Expect = 1e-76,   Method: Compositional matrix adjust.
 Identities = 164/423 (38%), Positives = 257/423 (60%), Gaps = 11/423 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L++AD +  EK   R ++ + + D+I  A     G   +  VEI+ E    ++    E
Sbjct: 4   EILKVADEIVREKGFSRKIISNALRDAIYTALVKKLGKYGEPVVEIDLEKNIFNISVPKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE+V++   +I L  A   D    +G V+  P+   + GR    + K  + +K+R+AE+
Sbjct: 64  VVEDVDSVWHEILLDDALKIDKDAYLGKVIMVPVTIEEIGRQLATTVKTRLFEKLRDAEK 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           D  Y EF+ KVGEII+G V + +   V V +G ++ ++ + E I  +    GD +++ + 
Sbjct: 124 DIVYSEFQGKVGEIITGIVLKSDKEGVTVSIGKTEAILPKKEMIPGDYYTRGDYIRALLL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +++  +  PQ++LSRTHPQF+ KLF  E+PE+++G+V+VK+V+R+PG RAK+AV+S+ S+
Sbjct: 184 EIKLIKGWPQLVLSRTHPQFLKKLFESEIPEVFDGLVEVKSVAREPGDRAKVAVYSTSSN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVGAC+G++G R+ A+  EL+ EKID++ WSPD   FV  ++ PA V    + ED   
Sbjct: 244 IDPVGACIGLKGVRINAISNELKGEKIDVIQWSPDPVKFVCASISPAEVLLTNIFEDEST 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ----FFM 363
           IEV+VP +QLSLAIG+RGQNV+LAS LTGW +DI+ E E    R++   E+ Q    F+M
Sbjct: 304 IEVVVPDDQLSLAIGKRGQNVKLASILTGWKLDILKESEYKELRKQRLIEQEQEMKEFYM 363

Query: 364 ------QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
                   +  DE+I+  LVA G  D+E+LA   +  I+ I     E A+ I   A +YL
Sbjct: 364 IYSLDNLTVLTDEMISK-LVAAGVTDLEKLADTDVDRISEILNISHEDAINILNAALDYL 422

Query: 418 EGI 420
             +
Sbjct: 423 ASV 425


>gi|171913143|ref|ZP_02928613.1| transcription elongation factor NusA [Verrucomicrobium spinosum DSM
           4136]
          Length = 417

 Score =  292 bits (747), Expect = 1e-76,   Method: Compositional matrix adjust.
 Identities = 157/403 (38%), Positives = 245/403 (60%), Gaps = 1/403 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL  + +    EK IDR  ++  +  ++  A++   G   ++R+EI+P+ G I  F  L 
Sbjct: 4   ELKALFEYYEKEKGIDRSKMVDALQSALLAASKKSIGPARELRIEIDPDKGSIRAFARLL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V + VEN   Q+S+K AR        G  V   + P DFGR+A Q+AKQ  +Q++REAE+
Sbjct: 64  VSDTVENPFEQLSVKHARKLKADAQPGDEVDIEVTPKDFGRIAAQTAKQTWMQRLREAEK 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EFKD+ G+++SGT++R +  +V+VDLG  +G++   E +  E+   GDR++ Y+ 
Sbjct: 124 ANLYDEFKDRTGDVVSGTIRRFDKSDVVVDLGKFEGIMTSRERVPTEDYTSGDRMRFYVK 183

Query: 188 DVRRE-QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            V +   RGP+++LSR+HP F+ +LF  EV EI +  V++ +++R+ G R K+AV S+D 
Sbjct: 184 AVEKSTSRGPEIILSRSHPNFVRRLFEFEVSEIADRTVEIVSIAREAGYRTKVAVHSADD 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVG+RG+RV+ +V EL +EK+DI+ WS D A F   AL+P  +  + +DED  
Sbjct: 244 KVDPVGACVGLRGARVKNIVRELNNEKVDIIRWSKDVAEFTKEALKPIKILSIKVDEDHK 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
           R+ + V +E+LS AIGR+GQN RL S+L G+ + I  +E  +   +    E        +
Sbjct: 304 RVLLTVSEEELSKAIGRKGQNARLTSRLIGYDLVIEKDEHAAKVFESHVEEAVHRIAADL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEI 409
           ++D  IA  LV EG +D+   A   + +IASI   D E A +I
Sbjct: 364 DIDRNIARKLVGEGLSDLSNFADADVDDIASIVDGDTELAQQI 406


>gi|323485570|ref|ZP_08090915.1| hypothetical protein HMPREF9474_02666 [Clostridium symbiosum
           WAL-14163]
 gi|323692918|ref|ZP_08107141.1| transcription termination factor NusA [Clostridium symbiosum
           WAL-14673]
 gi|323401109|gb|EGA93462.1| hypothetical protein HMPREF9474_02666 [Clostridium symbiosum
           WAL-14163]
 gi|323503025|gb|EGB18864.1| transcription termination factor NusA [Clostridium symbiosum
           WAL-14673]
          Length = 412

 Score =  292 bits (747), Expect = 1e-76,   Method: Compositional matrix adjust.
 Identities = 143/337 (42%), Positives = 223/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL++  + +  E +I +D++L  + +S+  A ++ +G   +++V IN ETGD S++   E
Sbjct: 4   ELIEALNVLEKENNISKDILLEAIENSLLTACKNHFGKADNVKVTINRETGDFSVYAEKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE+   QISL  A+  +   D+G +V   +   +FGR+A Q+AK VI+QK+RE ER
Sbjct: 64  VVESVEDPMLQISLAEAKMMNGRYDLGDIVHVQINSKEFGRIATQNAKNVILQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              + ++  K  ++++G V+R    N+ +DLG  D ++   E +  E  +P +R+K Y+ 
Sbjct: 124 KALFNDWYCKEKDVVTGIVQRYVNRNICIDLGKIDAILNESEQVKGEVFKPTERIKLYVL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP++ +SRTHP  + +LF  EV E+ +G V++KA++R+ GSR K+AV+S++  
Sbjct: 184 EVKDTNKGPRITVSRTHPDLVKRLFESEVAEVKDGTVEIKAIAREAGSRTKIAVYSNNPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG+ G+RV A+V+ELR EKIDI+ W  + A  + NAL PA V  V  DED   
Sbjct: 244 VDPVGACVGLNGARVNAIVSELRGEKIDIINWDENPAYLIENALSPAKVIFVAADEDARE 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            +VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 304 AQVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSE 340


>gi|295110274|emb|CBL24227.1| transcription termination factor NusA [Ruminococcus obeum A2-162]
          Length = 389

 Score =  291 bits (746), Expect = 1e-76,   Method: Compositional matrix adjust.
 Identities = 147/337 (43%), Positives = 224/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL++  D +  EK+I +D +L  +  S+ +A ++ +G   ++ V INPET D S++   E
Sbjct: 4   ELMEALDILEKEKNISKDTLLGAIEQSLIQACKNHFGKADNVHVTINPETCDFSVYAERE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V E VE+   +ISL  A+  + + ++G ++   +   +FGR+A Q+AK VI+QK+RE ER
Sbjct: 64  VKEFVEDPAMEISLVEAQKLNTNAELGDIIKVEIHSKEFGRIATQNAKNVILQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y ++     E+++G V+RV   NV V+LG +DGV+  +E +  E  +P +R+K YI 
Sbjct: 124 KVLYDQYYGMEKEVVTGIVQRVMGKNVSVNLGKADGVLSENEQVKGEEFKPTERIKVYIL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP++LLSRTHP  + +LF  EV E+ +G V++K+++R+ GSR K+AV+S+D  
Sbjct: 184 EVKDTPKGPRILLSRTHPGLVKRLFESEVAEVKDGTVEIKSIAREAGSRTKIAVWSNDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGM G+RV ++V ELR EKIDI+ W  + A  + NAL PA V  V+ D D   
Sbjct: 244 VDPVGACVGMNGARVNSIVEELRGEKIDIINWDENPAILIENALSPAKVIAVMADPDEKT 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 304 ALVVVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSE 340


>gi|311068183|ref|YP_003973106.1| transcription elongation factor NusA [Bacillus atrophaeus 1942]
 gi|310868700|gb|ADP32175.1| transcription elongation factor NusA [Bacillus atrophaeus 1942]
          Length = 372

 Score =  291 bits (746), Expect = 1e-76,   Method: Compositional matrix adjust.
 Identities = 149/337 (44%), Positives = 224/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV++N ETG I +F   +
Sbjct: 4   ELLDALTILEKEKGISKDIIIEAIEAALISAYKRNFNQAQNVRVDLNRETGTIRVFARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +IS+  A   DP+  +G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDEVYDPRLEISIDDAHAIDPNYVVGDVVEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R++   + V LG  + ++  +E +  E+ +P DR+K +I 
Sbjct: 124 GVIYTEFIDREEDIMTGIVQRLDNKFIYVSLGKIEALLPVNEQMPNESYKPHDRIKVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+V+R+ G R+K++V + D  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEIEVPEIYDGTVELKSVAREAGDRSKISVRTDDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQA+V EL+ EKIDIV WS D   FV NAL P+ V  V+++E+   
Sbjct: 244 VDPVGSCVGPKGQRVQAIVNELKGEKIDIVNWSNDPVEFVANALSPSKVLDVIVNEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+RGQN RLA++LT W IDI +E
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTSWKIDIKSE 340


>gi|322436508|ref|YP_004218720.1| NusA antitermination factor [Acidobacterium sp. MP5ACTX9]
 gi|321164235|gb|ADW69940.1| NusA antitermination factor [Acidobacterium sp. MP5ACTX9]
          Length = 534

 Score =  291 bits (746), Expect = 1e-76,   Method: Compositional matrix adjust.
 Identities = 172/420 (40%), Positives = 250/420 (59%), Gaps = 14/420 (3%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLF---RL 65
           L Q  +A++ EK I+  VV+S + D+I  A R  Y T  ++R E++ +TG+I  +    +
Sbjct: 5   LYQSIEALSREKGIEPAVVVSAIEDAIALATRKYYKTQENMRAEMDKDTGEIRAYVFKTV 64

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGG---VVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           +E  EE+ +   Q++L+ AR   P +++GG      D  P    GR+A Q AKQVI QKV
Sbjct: 65  VETPEEIVDEINQLALEPARALAPEVEVGGELRFYKDTTP---LGRIAAQMAKQVIFQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           REAERD  + E+  + GE+++ TVKR+E  +VI DLG ++  + + E    E    G+RV
Sbjct: 122 REAERDTVFNEYNHRAGEVLNATVKRLEPMDVIFDLGKAEARMPKREQSRLEQFAVGERV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  +  V R  +GPQV++SR  P  +  LF  EVPEIY+G V ++A++R+ G R K+AV 
Sbjct: 182 RVVLLRVDRAAKGPQVIVSRAAPALVQNLFQSEVPEIYDGTVSIRAIAREAGERTKIAVM 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VL 301
           S D  +DPVGACVGM+G RVQ+++ ELR EKIDI+ +S +  TF   AL+PA V++V + 
Sbjct: 242 SRDKDVDPVGACVGMKGMRVQSIIRELRGEKIDIIEYSEEITTFAEKALQPAKVSRVSIT 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER--- 358
           D    +IEVIV   QLSLAIG++GQNVRLA++L  W IDI +EEE     ++        
Sbjct: 302 DLAEKQIEVIVDDTQLSLAIGKKGQNVRLAAKLLQWKIDIKSEEEKRQEVEQQMQAMSGG 361

Query: 359 -TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
            T    Q   + E I   L+A G   VE +A +   E+  I G  E+T  +I    R Y 
Sbjct: 362 PTTPIEQVTELGEQILEKLIAAGITTVEAVADMTAEELEQIPGIGEKTIEKISVAVRHYF 421


>gi|303256975|ref|ZP_07342989.1| transcription termination factor NusA [Burkholderiales bacterium
           1_1_47]
 gi|330999163|ref|ZP_08322882.1| transcription termination factor NusA [Parasutterella
           excrementihominis YIT 11859]
 gi|302860466|gb|EFL83543.1| transcription termination factor NusA [Burkholderiales bacterium
           1_1_47]
 gi|329575363|gb|EGG56907.1| transcription termination factor NusA [Parasutterella
           excrementihominis YIT 11859]
          Length = 499

 Score =  291 bits (746), Expect = 1e-76,   Method: Compositional matrix adjust.
 Identities = 170/476 (35%), Positives = 287/476 (60%), Gaps = 14/476 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARS--LYGTMSDIRVEINPETGDISLFRL 65
           +LL + + +A+EK++D+ VVL+ +  ++  A +     G  +DI V+++P TGD  ++R 
Sbjct: 4   DLLTMVEVLAHEKNVDQSVVLAALESALASAVKKAEFPGEDADIVVKVDPTTGDQKVWRQ 63

Query: 66  LEVV------EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDF-GRVAVQSAKQVI 118
             VV      +E +    Q   K        +++G  V  PLP ++  GR     AKQVI
Sbjct: 64  WLVVPDEQGLQEPDRQILQWEAKEDYSDQGEMNVGDYVRKPLPDVNVTGRRFATDAKQVI 123

Query: 119 IQKVREAERDRQYLEFKDKVGEI--ISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENL 176
           IQ++REAER++   EF ++  ++  ++G VKR +  + I+++G  D  + R + I  ENL
Sbjct: 124 IQRLREAERNQLLNEFLERYKDVKVVTGQVKRFDKSDAIIEIGRIDARLPRHQMIPMENL 183

Query: 177 RPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
           RPGDRV++Y+  +    R  Q+ LSRT  +F+ +L    VPEI  G++++K ++RDPG R
Sbjct: 184 RPGDRVRAYVLKIDPTSRQQQITLSRTCNEFLGELMRQVVPEINEGLLEIKGIARDPGIR 243

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           AK+AV   D  IDP+G+C+G++GSR+Q+V  EL +E+IDI+ W+   A +V++AL PA +
Sbjct: 244 AKVAVQVKDKRIDPIGSCIGVKGSRIQSVSGELMNERIDIIRWADQPAEYVMSALSPATI 303

Query: 297 TKVVLDEDVGRIEVIVPK-EQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF 355
           + +++ ED  ++EV+ P  +   +AIG  G N RLAS+LTGW I+++ +++ +  R+ + 
Sbjct: 304 SSIIVHEDEHKVEVVTPDLDNSKIAIGSNGVNKRLASELTGWEIEVMDDDQAAKKREDEI 363

Query: 356 NERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
             R Q     +++DE +A +L+  G   +EE+A +   E+ SIE FDE+T  E++ RAR 
Sbjct: 364 APRRQELCDRLDIDEEVAQVLIENGIETLEEVAYLPEEELLSIEQFDEDTVKELRSRART 423

Query: 416 YLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
            L  +   L+++       + L  +PG+  +I   L   GIKT++ LA  S D+L+
Sbjct: 424 AL--LTSALEREELLKWADKSLVDLPGMTHEIANKLKPAGIKTLDQLADLSTDELV 477


>gi|166030876|ref|ZP_02233705.1| hypothetical protein DORFOR_00556 [Dorea formicigenerans ATCC
           27755]
 gi|166029143|gb|EDR47900.1| hypothetical protein DORFOR_00556 [Dorea formicigenerans ATCC
           27755]
          Length = 401

 Score =  291 bits (746), Expect = 1e-76,   Method: Compositional matrix adjust.
 Identities = 147/337 (43%), Positives = 224/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL+  + +  EK I ++ +L  + +S+  A ++ +G   +I+V ++ +T D  LF    
Sbjct: 4   ELLEALNILEKEKEISKETLLDAIENSLLNACKNHFGKADNIKVIMDHDTCDYQLFAEKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE+   QISL  A   D   D+G +V  P+    FGR+A Q+AK +I+QK+RE ER
Sbjct: 64  VVETVEDPLEQISLDEASQLDGHYDLGDIVRVPIESKSFGRIATQNAKNLILQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y ++ +K  +I++G V+R    NV ++LG +D ++  +E +  E  +P +R+K Y+ 
Sbjct: 124 KVVYDQYFEKEKDIVTGIVQRYVGKNVSINLGKADAMLTENEQVKGEVFKPTERIKLYVV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP++L+SRTHP+ + +LF  EV E+ +GIV++K+++R+ GSR K+AV+S+D  
Sbjct: 184 EVKNTTKGPKILVSRTHPELVKRLFESEVTEVRDGIVEIKSIAREAGSRTKIAVWSNDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGM G+RV A+V ELR EKIDI+ WS + A  + NAL PA V  V+ D D  +
Sbjct: 244 VDPVGACVGMNGARVNAIVNELRGEKIDIINWSDNPAILIENALSPAKVISVMADPDEKK 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 304 ASVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSE 340


>gi|238924307|ref|YP_002937823.1| transcription elongation factor NusA [Eubacterium rectale ATCC
           33656]
 gi|238875982|gb|ACR75689.1| transcription elongation factor NusA [Eubacterium rectale ATCC
           33656]
 gi|291525077|emb|CBK90664.1| transcription termination factor NusA [Eubacterium rectale DSM
           17629]
 gi|291529172|emb|CBK94758.1| transcription termination factor NusA [Eubacterium rectale M104/1]
          Length = 414

 Score =  291 bits (746), Expect = 1e-76,   Method: Compositional matrix adjust.
 Identities = 145/337 (43%), Positives = 224/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL+  + +  EK+I ++ +L  + +S+  A ++ +G   +++VEI+PET   S ++   
Sbjct: 4   ELLEALNILEQEKNISKETLLEAIENSLVTACKNHFGKSDNVKVEIDPETCAFSCYQEKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ VE+   +ISL  A   + +  +G +V   +   +FGR+A Q+AK VI+QK+RE ER
Sbjct: 64  VVDTVEDPVEEISLADAHKVNGNYQLGDIVRVEVKSKEFGRIATQNAKNVILQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              + E+  K  ++++G V+R    NV ++LG +D ++   E I  E  +P +R+K YI 
Sbjct: 124 KVIFDEYNSKEKDVVTGVVQRYIGKNVSINLGKADALLTESEQIKGEVFKPTERIKVYIL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP++L+SRTHP+ + +LF  EV E+  GIV++KA+SR+ GSR K+AV+S+D +
Sbjct: 184 EVKSTSKGPKILVSRTHPELVKRLFESEVTEVKEGIVEIKAISREAGSRTKIAVWSNDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGM G+RV A+V ELR EKIDI+ W  + A  + NAL PA V  V+ D D   
Sbjct: 244 VDPVGACVGMNGARVNAIVNELRGEKIDIITWDENPAILIQNALSPAKVISVIADADEKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            +V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 304 AKVVVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSE 340


>gi|269797844|ref|YP_003311744.1| NusA antitermination factor [Veillonella parvula DSM 2008]
 gi|269094473|gb|ACZ24464.1| NusA antitermination factor [Veillonella parvula DSM 2008]
          Length = 358

 Score =  291 bits (745), Expect = 2e-76,   Method: Compositional matrix adjust.
 Identities = 150/337 (44%), Positives = 219/337 (64%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+Q    +  +K    +V+   +  ++ +A R    +  D  V I+ ETG   +    +
Sbjct: 4   ELIQAVMVLTKQKGFAPEVIFESLEAALLQAYRKEPTSNPDAYVVIDRETGVYKVMAKKQ 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE    +ISL  AR +D   +IG VV   + P +FGR A  +AKQ++IQ+++EAER
Sbjct: 64  VVETVELPETEISLLDARKKDKRFEIGDVVEVDVTPANFGRSAAHTAKQMLIQRLKEAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+  + G+II+G + RVE  NV ++LG ++ ++   E I  E  R GDR+K YI 
Sbjct: 124 SVVYEEYYSREGDIITGVITRVEGKNVFINLGKTEAILPPTEQIVTETYREGDRIKCYIV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V++  +GPQ+++SRTHP  + +LF +EVPEI+ G+V++K+V+R+PG R+K+AV+S D +
Sbjct: 184 EVKKTTKGPQIMISRTHPGLLKRLFELEVPEIFEGVVELKSVAREPGMRSKIAVYSRDEN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVGACVG +G RVQ +V EL DEKIDIV W  D A ++ N+L PA V  V + E+   
Sbjct: 244 IDPVGACVGPKGQRVQHIVDELHDEKIDIVKWDEDPAIYIANSLSPAKVVSVDVSEEEKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+ GQN RLA++LT W IDI +E
Sbjct: 304 SYVVVPDYQLSLAIGKAGQNARLAAKLTNWKIDIKSE 340


>gi|160940464|ref|ZP_02087809.1| hypothetical protein CLOBOL_05354 [Clostridium bolteae ATCC
           BAA-613]
 gi|158437044|gb|EDP14811.1| hypothetical protein CLOBOL_05354 [Clostridium bolteae ATCC
           BAA-613]
          Length = 394

 Score =  291 bits (745), Expect = 2e-76,   Method: Compositional matrix adjust.
 Identities = 146/337 (43%), Positives = 223/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL+  + +  EK+I +D ++  + +S+  A ++ +G   +++V +NP T D +++    
Sbjct: 10  ELLEAMEVLEKEKNISKDTLIEAIENSLLTACKNHFGKADNVKVTVNPNTCDFAVYAEKA 69

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE+   ++SL  A+  +P  +IG  V  PL    FGR+A Q+AK VI+QK+RE ER
Sbjct: 70  VVENVEDDCLEMSLADAKMLNPKYEIGDTVQIPLDSKKFGRIATQNAKNVILQKIREEER 129

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+  K  ++++G V+R    NV ++LG  D ++   E +  E  RP +RVK Y+ 
Sbjct: 130 KALYNEYYMKEKDVMTGVVQRYLGRNVSINLGRVDAILNESEQVKGETFRPTERVKVYVI 189

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP+V +SRTHP  + +LF  EV E+ +G V++KA++R+ GSR K+AV S+D++
Sbjct: 190 EVKDTPKGPRVSVSRTHPDLVKRLFESEVAEVRDGTVEIKAIAREAGSRTKIAVKSNDAN 249

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG+ GSRV ++V+EL+ EKIDI+ W  + A  + NAL PA V  VV DE+   
Sbjct: 250 VDPVGACVGLNGSRVNSIVSELKGEKIDIINWDDNPAYLIENALSPAKVICVVADEEERE 309

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            +VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 310 AQVIVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSE 346


>gi|223936317|ref|ZP_03628229.1| NusA antitermination factor [bacterium Ellin514]
 gi|223894835|gb|EEF61284.1| NusA antitermination factor [bacterium Ellin514]
          Length = 425

 Score =  291 bits (744), Expect = 2e-76,   Method: Compositional matrix adjust.
 Identities = 152/391 (38%), Positives = 240/391 (61%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           + L + +    EK I R V++S + +S+  AA+   G   ++R  I+P++GDI  F  L 
Sbjct: 4   DFLTVLEFWEREKGISRQVLISAVEESLLSAAKKAVGPARELRCIIDPKSGDIKAFAKLI 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V E+V +    ISL  A+   P   +G  V   + P  FGR+A Q AKQ ++Q +R AE+
Sbjct: 64  VSEKVVSKHDHISLPDAKKIKPDAQLGEEVEVEVTPAGFGRIASQYAKQSLMQHIRRAEK 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              + EFKD+VG+IISG V+R +  +V VDLG  + ++   E +  E  + G+R++ Y+ 
Sbjct: 124 QLIFTEFKDRVGDIISGVVRRFDRSDVSVDLGKYEALLPNRERVPTEEYQIGERIRCYVK 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V     GP+++LSR  P+F++KLF +EV EI +G +++K ++R+PG R KLAV++ D  
Sbjct: 184 AVENGPHGPEIILSRADPRFVIKLFQLEVSEINDGTIEIKGIAREPGFRTKLAVYTRDEK 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG+RG RV+ +V EL +EK+DI+ W P+   F+ NAL PA +    +DE   R
Sbjct: 244 VDPVGACVGLRGQRVKNIVRELNNEKVDIIRWEPNIKGFLTNALAPAQLKTFEVDEANKR 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           ++++V ++QLSLAIG+RGQN RL+S+LTGW +DI  E    +  ++   E  +       
Sbjct: 304 VKIVVGEDQLSLAIGKRGQNARLSSKLTGWQVDIEPEVVHRMGFEEKVAEAVKTLAAIPG 363

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASI 398
           + +  A  LV +G   +E+L    IS+++ I
Sbjct: 364 ITQEQADTLVHQGLTRLEDLLQADISDLSGI 394


>gi|251778646|ref|ZP_04821566.1| transcription termination factor NusA [Clostridium botulinum E1
           str. 'BoNT E Beluga']
 gi|243082961|gb|EES48851.1| transcription termination factor NusA [Clostridium botulinum E1
           str. 'BoNT E Beluga']
          Length = 384

 Score =  291 bits (744), Expect = 2e-76,   Method: Compositional matrix adjust.
 Identities = 148/355 (41%), Positives = 235/355 (66%), Gaps = 13/355 (3%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMS----DIRVEINPETGDISLFRLLEVVEE 71
           +  EK I  D++ + + D++  A +  Y  ++    ++++ IN E G+I ++    VV+E
Sbjct: 12  IVKEKGISEDLLFTTIEDAMVAAYKKNYANLNTSAQNVKISINRENGEIHVYAQKMVVDE 71

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
           V +   +ISL+ A+  +P  ++  VV   + P +FGRVA Q AKQV+ Q+++EAER+  Y
Sbjct: 72  VYDEVTEISLEEAKAINPKYEVDDVVDLEVTPKNFGRVAAQLAKQVVTQRIKEAERNIIY 131

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRR 191
            E+K+K  +II+GT+ R + G V V LG  +G+I  +E +S E+ R  + +K YI +V+ 
Sbjct: 132 SEYKEKEFDIITGTILRKDKGMVFVSLGKIEGIIGPNEQMSNEDYRFNEMLKLYIVEVKN 191

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPV 251
             +G QV +SRTHP  + +LF +EVPEI+NG+V++K++SR+ GSR+K+AV+S+D  +D +
Sbjct: 192 TSKGAQVHVSRTHPGLVKRLFELEVPEIFNGVVEIKSISREAGSRSKIAVYSNDEEVDAM 251

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI 311
           GACVG +G RVQ +V EL++EKIDI+ WS D A F+ NAL PA V    ++E+    +++
Sbjct: 252 GACVGPKGVRVQNIVNELKNEKIDIIKWSKDPAEFISNALSPAKVINAEVNEESKSAKIV 311

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT---------EEEDSINRQKDFNE 357
           V  +QLSLAIG+ GQNVRLA++LT W IDI +         E+E +I++  D +E
Sbjct: 312 VADDQLSLAIGKEGQNVRLAAKLTNWKIDIKSKSQQEALEAEQEKAIDQDVDMSE 366


>gi|225572728|ref|ZP_03781483.1| hypothetical protein RUMHYD_00917 [Blautia hydrogenotrophica DSM
           10507]
 gi|225039901|gb|EEG50147.1| hypothetical protein RUMHYD_00917 [Blautia hydrogenotrophica DSM
           10507]
          Length = 405

 Score =  291 bits (744), Expect = 2e-76,   Method: Compositional matrix adjust.
 Identities = 146/337 (43%), Positives = 225/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK+I +D +L  +  S+ +A ++ YG   +++V I+P+T D S++    
Sbjct: 4   ELLGALEILEKEKNISKDTLLDAIEQSLIQACKNHYGKADNVKVSIDPQTCDFSVYAERT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE+VE+   +ISL+ A       ++G V+  P+   +FGR+A Q+AK VI+QK+RE ER
Sbjct: 64  VVEQVEDPVMEISLENALKISARAEVGDVIKVPINSKEFGRIATQNAKNVILQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y ++  K  ++++G V+R    NV ++LG +D ++  +E +  E   P +R+K YI 
Sbjct: 124 KVLYNQYYGKEKDVVTGIVQRNLGKNVSINLGKADALLNENEQVKTEVFHPTERIKVYIL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP++L+SRTHP+ + +LF  EV E+  GIV++K+++R+ GSR K+AV+S+D  
Sbjct: 184 EVKDTPKGPRILVSRTHPELVKRLFESEVAEVREGIVEIKSIAREAGSRTKIAVWSNDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGM G+RV A+V+ELR EKIDI+ WS + A  + NAL PA V  V+ D D   
Sbjct: 244 VDPVGACVGMNGARVNAIVSELRGEKIDIINWSENPAILIENALSPAKVIAVMADPDEKT 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 304 ALVVVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSE 340


>gi|331090930|ref|ZP_08339772.1| transcription termination factor NusA [Lachnospiraceae bacterium
           2_1_46FAA]
 gi|330405152|gb|EGG84688.1| transcription termination factor NusA [Lachnospiraceae bacterium
           2_1_46FAA]
          Length = 368

 Score =  291 bits (744), Expect = 3e-76,   Method: Compositional matrix adjust.
 Identities = 146/337 (43%), Positives = 224/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL+    +  EK I ++ +L  + +S+  A ++ +G   +I+V +N ET D S+F    
Sbjct: 4   ELLEALTILEQEKDISKETLLDAIENSLINACKNHFGKADNIKVIMNRETCDYSVFAEKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE+   +ISL  A+  D   ++G +V  P+   +FGR+A Q+AK +I+QK+RE ER
Sbjct: 64  VVENVEDDVMEISLANAKMIDSKFELGDIVQIPVESKEFGRIATQNAKNLILQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y ++ +K  +I++G V+R    NV ++LG +D ++  +E +  E  +P +R+K Y+ 
Sbjct: 124 KVVYDQYFEKEKDIVTGIVQRYVGKNVSINLGKADAMLTENEQVKGEVFKPTERIKLYVV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP++L+SRTHP+ + +LF  EV E+ +G V++K+++R+ GSR+K+AV+S+D  
Sbjct: 184 EVKNTTKGPKILVSRTHPELVKRLFESEVAEVKDGTVEIKSIAREAGSRSKIAVWSNDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGM G+RV A+V ELR EKIDI+ WS + A  + NAL PA V  V+ D D   
Sbjct: 244 VDPVGACVGMNGARVNAIVNELRGEKIDIINWSENPAILIENALSPAKVISVMADPDEKT 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+ GQN RLA++LTG+ IDI  E
Sbjct: 304 ASVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKNE 340


>gi|294500900|ref|YP_003564600.1| transcription termination factor NusA [Bacillus megaterium QM
           B1551]
 gi|295706246|ref|YP_003599321.1| transcription termination factor NusA [Bacillus megaterium DSM 319]
 gi|294350837|gb|ADE71166.1| transcription termination factor NusA [Bacillus megaterium QM
           B1551]
 gi|294803905|gb|ADF40971.1| transcription termination factor NusA [Bacillus megaterium DSM 319]
          Length = 370

 Score =  291 bits (744), Expect = 3e-76,   Method: Compositional matrix adjust.
 Identities = 147/328 (44%), Positives = 219/328 (66%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I +DV++  +  ++  A +  +    ++RV++N E G + +F   +VV+EV +   +
Sbjct: 15  EKGISKDVIIEAIEAALISAYKRNFNQAQNVRVDLNLERGSMRVFARKDVVDEVYDPRLE 74

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           IS++ A+  +P+  +  VV   + P DFGR+A Q+AKQV+ Q+VREAER   Y EF D+ 
Sbjct: 75  ISVEEAQTINPNFQLDDVVEIEVTPKDFGRIAAQTAKQVVTQRVREAERGVIYSEFSDRE 134

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
            +I++G V+R +   + V LG  + ++ + E +  E  +P DR+K YI  V +  +GPQ+
Sbjct: 135 EDIMTGIVQRQDSRFIYVSLGKIEALLPQSEQMPNEQYKPHDRIKVYITKVEKTTKGPQI 194

Query: 199 LLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMR 258
            +SRTHP  + +LF  EVPEIY+G V++K+V+R+ G R+K++V S  + +DPVG+CVG +
Sbjct: 195 YVSRTHPGLLKRLFEKEVPEIYDGTVELKSVAREAGDRSKISVHSEYAEVDPVGSCVGPK 254

Query: 259 GSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLS 318
           G RVQAVV EL+ EKIDIV WS D   FV NAL P+ V  V++DE+     VIVP  QLS
Sbjct: 255 GQRVQAVVNELKGEKIDIVRWSNDPVEFVANALSPSKVVDVIVDENEKATTVIVPDYQLS 314

Query: 319 LAIGRRGQNVRLASQLTGWTIDIITEEE 346
           LAIG+RGQN RLA++LTGW IDI ++ E
Sbjct: 315 LAIGKRGQNARLAAKLTGWKIDIKSQSE 342


>gi|281355268|ref|ZP_06241762.1| NusA antitermination factor [Victivallis vadensis ATCC BAA-548]
 gi|281318148|gb|EFB02168.1| NusA antitermination factor [Victivallis vadensis ATCC BAA-548]
          Length = 414

 Score =  290 bits (743), Expect = 3e-76,   Method: Compositional matrix adjust.
 Identities = 158/400 (39%), Positives = 240/400 (60%), Gaps = 7/400 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL I + +  E+ I RD ++  +  +I  AAR      S+++V+I+P TG I  +  LE
Sbjct: 4   ELLTILEYIEQERGISRDSLIKALESAILTAARKSIHPASELKVKIDPVTGQIQAWATLE 63

Query: 68  VVEEVENYTC-QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           VVEE  N TC Q+ +  AR+R P + +G  V   + P +FGR+A Q+A+Q I+Q++R+AE
Sbjct: 64  VVEE--NPTCDQLVIARARERFPDVQLGEKVEWEVTPRNFGRIAAQTARQAIVQQLRKAE 121

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           ++    EF D++G+IISGTV+R E GN+I+D   ++G++   E I  E   PGD +++ +
Sbjct: 122 KENVQEEFADRIGQIISGTVRRFEAGNIIIDFQKAEGIMPSKEKIHDEQYMPGDIIRALL 181

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V     GP +++SR+ P+F+ +LF  E+ EI++G+V++  ++R+ G R K++V S+D 
Sbjct: 182 LRVDINTAGPSLIVSRSCPEFVTRLFEREIAEIHDGVVKIMGIAREAGKRTKISVMSTDP 241

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVGMRG RV+ +  EL +E+IDIV +  D   +  NAL PA V  V ++E   
Sbjct: 242 RVDPVGACVGMRGQRVRNITNELGNERIDIVPYDADIRKYATNALLPAKVQSVEVNEAKH 301

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER----TQFF 362
            + V V  EQ  LA G++ QNVRL S+L GW I+I  EEE          E+     Q  
Sbjct: 302 ELIVRVTDEQSKLAFGKKAQNVRLCSKLIGWNINIRNEEERGAEAGHSIGEQLKIAAQKL 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
            +AI V E  A LLV  G+  V+ +       +  IEG D
Sbjct: 362 AEAIGVSEATAGLLVNNGYVTVDGVKAADPEALLEIEGID 401


>gi|325569920|ref|ZP_08145914.1| transcription elongation factor NusA [Enterococcus casseliflavus
           ATCC 12755]
 gi|325157043|gb|EGC69211.1| transcription elongation factor NusA [Enterococcus casseliflavus
           ATCC 12755]
          Length = 404

 Score =  290 bits (743), Expect = 3e-76,   Method: Compositional matrix adjust.
 Identities = 145/338 (42%), Positives = 223/338 (65%), Gaps = 1/338 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L   DA+  EK I +++V+  +  ++  A +  YG   ++ VE + + G+I ++ + E
Sbjct: 4   EMLNALDALEAEKGISKEIVIDALEAALVSAYKRHYGQAQNVEVEFDQKKGNIHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V EEV +   ++SLK A   +P+ +IG  +   + P DFGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VTEEVMDSQLEVSLKEAMTINPAYEIGDKIRFEVTPKDFGRIAAQTAKQVILQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF     +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K ++ 
Sbjct: 124 NIIYNEFSAYEKDILQGIVERQDNRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVFVS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SR+HP  + +LF  EVPE+Y+G V++ +++R+ G RAK+AV S D++
Sbjct: 184 RVENTSKGPQVFVSRSHPDLLRRLFEQEVPEVYDGTVEIVSIAREAGDRAKVAVRSFDAN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG CVG +G RVQA+V EL+ E +DIV W+ D A F+ NAL PA V+ V+ D D  +
Sbjct: 244 VDPVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAIFIANALNPAEVSNVIFDVDNPK 303

Query: 308 -IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              V+VP  QLSLAIG+RGQN RLA++LTG+ IDI +E
Sbjct: 304 ACTVVVPDYQLSLAIGKRGQNARLAAKLTGFKIDIKSE 341


>gi|150016083|ref|YP_001308337.1| transcription elongation factor NusA [Clostridium beijerinckii
           NCIMB 8052]
 gi|149902548|gb|ABR33381.1| NusA antitermination factor [Clostridium beijerinckii NCIMB 8052]
          Length = 398

 Score =  290 bits (743), Expect = 3e-76,   Method: Compositional matrix adjust.
 Identities = 142/327 (43%), Positives = 225/327 (68%), Gaps = 4/327 (1%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMS----DIRVEINPETGDISLFRLLEVVEEVEN 74
           EK I  D++ + + D++  A +  Y   +    +++V I+ ETG+I ++    VV+EV +
Sbjct: 15  EKGICEDLLFTTIQDAMVAAYKKNYANANTNAQNVKVNIDRETGEIHVYAQKTVVDEVYD 74

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              +ISL+ A++ +P  ++  ++S  + P +FGRVA Q AKQV+ Q+++EAER   Y E+
Sbjct: 75  DVTEISLEEAKELNPKSEVDDIISLEVTPKNFGRVAAQLAKQVVTQRIKEAERTIIYDEY 134

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           K+K  +II+GT+ R + G V V+LG  +G+I  +E I  E  +  +++K YI +V+   +
Sbjct: 135 KEKEFDIITGTILRKDKGIVFVNLGKLEGIIGPNEQIPNEEYKFNEKLKLYIVEVKNGNK 194

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           GPQ+ +SRTHP  + +LF +EVPEI+ G+V++K++SR+ GSR+K+AV+S+D  +DP+GAC
Sbjct: 195 GPQIHVSRTHPGLVKRLFELEVPEIFEGVVEIKSISREAGSRSKIAVYSNDEEVDPMGAC 254

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPK 314
           VG +G RVQ++V EL++EKIDI+ WS +   F+ N+L PA V  V +DE+    +V+V  
Sbjct: 255 VGPKGVRVQSIVNELKNEKIDIIKWSKNPEEFIANSLSPAKVLSVAVDENNKSAKVVVDD 314

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDI 341
            QLSLAIG+ GQNVRLA++LT W IDI
Sbjct: 315 NQLSLAIGKEGQNVRLAAKLTNWKIDI 341


>gi|188588167|ref|YP_001920615.1| transcription elongation factor NusA [Clostridium botulinum E3 str.
           Alaska E43]
 gi|188498448|gb|ACD51584.1| transcription termination factor NusA [Clostridium botulinum E3
           str. Alaska E43]
          Length = 384

 Score =  290 bits (743), Expect = 3e-76,   Method: Compositional matrix adjust.
 Identities = 147/355 (41%), Positives = 235/355 (66%), Gaps = 13/355 (3%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMS----DIRVEINPETGDISLFRLLEVVEE 71
           +  EK I  D++ + + D++  A +  Y  ++    ++++ IN E G+I ++    VV+E
Sbjct: 12  IVKEKGISEDLLFTTIEDAMVAAYKKNYANLNTSAQNVKISINRENGEIHVYAQKMVVDE 71

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
           V +   +ISL+ A+  +P  ++  +V   + P +FGRVA Q AKQV+ Q+++EAER+  Y
Sbjct: 72  VYDEVTEISLEEAKAINPKYEVDDIVDLEVTPKNFGRVAAQLAKQVVTQRIKEAERNIIY 131

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRR 191
            E+K+K  +II+GT+ R + G V V LG  +G+I  +E +S E+ R  + +K YI +V+ 
Sbjct: 132 SEYKEKEFDIITGTILRKDKGMVFVSLGKIEGIIGPNEQMSNEDYRFNEMLKLYIVEVKN 191

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPV 251
             +G QV +SRTHP  + +LF +EVPEI+NG+V++K++SR+ GSR+K+AV+S+D  +D +
Sbjct: 192 TSKGAQVHVSRTHPGLVKRLFELEVPEIFNGVVEIKSISREAGSRSKIAVYSNDEEVDAM 251

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI 311
           GACVG +G RVQ +V EL++EKIDI+ WS D A F+ NAL PA V    ++E+    +++
Sbjct: 252 GACVGPKGVRVQNIVNELKNEKIDIIKWSKDPAEFISNALSPAKVINAEVNEESKSAKIV 311

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT---------EEEDSINRQKDFNE 357
           V  +QLSLAIG+ GQNVRLA++LT W IDI +         E+E +I++  D +E
Sbjct: 312 VADDQLSLAIGKEGQNVRLAAKLTNWKIDIKSKSQQEALEAEQEKAIDQDVDMSE 366


>gi|293374143|ref|ZP_06620477.1| transcription termination factor NusA [Turicibacter sanguinis
           PC909]
 gi|325837442|ref|ZP_08166424.1| transcription termination factor NusA [Turicibacter sp. HGF1]
 gi|292647246|gb|EFF65222.1| transcription termination factor NusA [Turicibacter sanguinis
           PC909]
 gi|325490974|gb|EGC93272.1| transcription termination factor NusA [Turicibacter sp. HGF1]
          Length = 351

 Score =  290 bits (742), Expect = 4e-76,   Method: Compositional matrix adjust.
 Identities = 150/342 (43%), Positives = 217/342 (63%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  E     + +  EK I +D+++     ++  A +  +   ++++VEIN  TG + L++
Sbjct: 2   NTKEFFAALELLEKEKGISKDIIIEAFEHALISAYKKNFNQATNVKVEINEVTGTVKLYQ 61

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
              VVEEV     QISL  A   +P    G +++  + P DFGR+A Q+AKQV+ Q++R+
Sbjct: 62  QKTVVEEVTRPQEQISLDEAMRLNPHYQEGDIINFEVTPKDFGRIATQTAKQVVKQRIRQ 121

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AERD  + EFKD+ GEI++G V + +  +V VDLG  + ++   E ++ + ++P  R+K 
Sbjct: 122 AERDNLFQEFKDREGEIVTGIVVKDDGKHVFVDLGKIEALLPIREIMNPDEIKPNSRIKV 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  +  + +GP V +SR  P  + +LF +EVPEIY+G V++ +V+RD G R K+ V S 
Sbjct: 182 YISKIESKNKGPVVYVSRKDPNLIKRLFELEVPEIYDGTVEIMSVARDAGDRTKICVASE 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D ++DPVGACVG  G RVQ +V EL  EKIDI+ +S D A  V NAL PA V+KVV+DE 
Sbjct: 242 DENVDPVGACVGPSGQRVQNIVDELNGEKIDIIQFSKDPAVLVANALSPAQVSKVVVDEA 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
                V+VP  QLSLAIG+RGQN RLA+QLTGW IDI  E E
Sbjct: 302 KKATVVLVPDNQLSLAIGKRGQNARLAAQLTGWKIDIKPESE 343


>gi|311030088|ref|ZP_07708178.1| transcription elongation factor NusA [Bacillus sp. m3-13]
          Length = 374

 Score =  290 bits (742), Expect = 4e-76,   Method: Compositional matrix adjust.
 Identities = 146/339 (43%), Positives = 224/339 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL      +  EK I +DV++  +  ++  A +  +    ++RV++N ETG + +F   +
Sbjct: 4   ELFDALTLMEKEKGISKDVIIEAIEAALISAYKRNFNQAQNVRVDMNLETGTMRVFARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +IS++ AR  DP+     VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDEVFDSRLEISIQEARQIDPNYQENDVVEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+ ++  +I++G V+R++   + V LG  + ++  +E +  E+ +P DR+K ++ 
Sbjct: 124 GVIYSEYIEREEDIMTGIVQRLDSKFIYVSLGKIEALLPVNEQMPNEHYKPHDRIKVFLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF +EVPEIY+G V++K+V+R+ G R+K++V   +  
Sbjct: 184 KVEKTTKGPQIFVSRSHPGLLKRLFELEVPEIYDGTVEIKSVAREAGDRSKISVHCDNPE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G RVQA+V EL+ EKIDIV WS D   FV NAL P+ V +V ++E+   
Sbjct: 244 VDPVGACVGPKGQRVQAIVNELKGEKIDIVRWSKDPVEFVANALSPSKVLEVQVNEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E E
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSESE 342


>gi|227499045|ref|ZP_03929182.1| NusA antitermination factor [Acidaminococcus sp. D21]
 gi|226904494|gb|EEH90412.1| NusA antitermination factor [Acidaminococcus sp. D21]
          Length = 359

 Score =  290 bits (742), Expect = 4e-76,   Method: Compositional matrix adjust.
 Identities = 145/331 (43%), Positives = 219/331 (66%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           +A EK I  DV+ S + +++  A +  +G+  ++RV +N E G+I ++    +V EVEN 
Sbjct: 12  LAKEKHISPDVLYSAVEEALITAYKKNFGSTQNVRVSMNKENGEIHVYAQKNIVTEVENP 71

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
             +ISL  A   +P    G VV + + P +FGR+A Q+AKQVI+Q++REAER   Y ++ 
Sbjct: 72  LTEISLDEAFKLNPRYQAGDVVEEEVTPKNFGRIAAQNAKQVIVQRIREAERGMVYEKYS 131

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           D+  +I++GT++R+E  N+ VDLG ++G +  +E I  E      R+K Y+ +V++  +G
Sbjct: 132 DRENDIVTGTIQRIEGRNIFVDLGTAEGTLLPNEQIPGETYEYHQRIKCYVVEVKKTTKG 191

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           PQ++LSRTHP  + +LF +EV EI +G V + +V+R+PG R+K+AV S++ S+DPVGACV
Sbjct: 192 PQIILSRTHPGLLKRLFELEVAEIQDGTVIIDSVAREPGMRSKIAVHSTNPSVDPVGACV 251

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G +G RVQ VV EL  EKIDIV +S +   +V +AL P+ V     D +     V+VP  
Sbjct: 252 GPKGMRVQTVVDELGGEKIDIVKYSDNPEEYVASALSPSKVVSAAADAEHKICRVVVPDF 311

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           QLSLAIG+ GQN RLA++LTGW IDI +E +
Sbjct: 312 QLSLAIGKEGQNARLAAKLTGWKIDIKSETQ 342


>gi|255284074|ref|ZP_05348629.1| transcription termination factor NusA [Bryantella formatexigens DSM
           14469]
 gi|255265419|gb|EET58624.1| transcription termination factor NusA [Bryantella formatexigens DSM
           14469]
          Length = 427

 Score =  290 bits (742), Expect = 4e-76,   Method: Compositional matrix adjust.
 Identities = 145/337 (43%), Positives = 224/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL++  D +  EK+I ++V+L  +  S+ +A ++ +G   +++V+INP+T + S+     
Sbjct: 4   ELMEALDVLEKEKNISKEVLLEAIEQSLLQACKNHFGKADNVKVDINPDTCEFSVHAEKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+   +ISL  A+ +D   ++G VV+  +   +FGR+A Q+AK VI+QK+RE ER
Sbjct: 64  VVEEVEDPVTEISLVDAKMKDSRYEVGDVVNVEIKSKEFGRIATQNAKNVILQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+  K  E+++G V+R    NV ++LG  D ++  +E +  E  RP +R+K Y+ 
Sbjct: 124 KVLYNEYYSKEREVVTGIVQRYLGRNVSINLGKVDAILNENEMVKGETFRPTERIKVYVL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP+VL+SRTHP+ + +LF  EV E+ +G V++K ++R+ G+R K+AV+S+D  
Sbjct: 184 EVKDTPKGPKVLVSRTHPELVKRLFESEVTEVRDGTVEIKCIAREAGNRTKMAVWSNDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +D VGACVG+ GSRV  +V ELR EKIDI+ W  + A  + NAL PA V  V  D D   
Sbjct: 244 VDAVGACVGINGSRVNTIVEELRGEKIDIINWDENPALLIENALSPAKVIYVAADNDEKT 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            +V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 304 AKVVVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSE 340


>gi|225570594|ref|ZP_03779619.1| hypothetical protein CLOHYLEM_06696 [Clostridium hylemonae DSM
           15053]
 gi|225160607|gb|EEG73226.1| hypothetical protein CLOHYLEM_06696 [Clostridium hylemonae DSM
           15053]
          Length = 397

 Score =  290 bits (742), Expect = 4e-76,   Method: Compositional matrix adjust.
 Identities = 144/337 (42%), Positives = 225/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL+  + +  EK I ++ +L  + +S+  A ++ +G   +I+V ++ ET D  +F    
Sbjct: 4   ELLEALNILEKEKDISKETLLDAIENSLLNACKNHFGKADNIKVIMDRETCDYKVFAEKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VEEVE+   QISL+ AR+ D + ++G +V  P+    FGR+A Q+AK +I+QK+RE ER
Sbjct: 64  AVEEVEDDLEQISLEDAREIDSTFELGDIVQIPIESKSFGRIATQNAKNLILQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y ++ +K  +I++G V+R    N+ ++LG +D ++  +E +  E  +P +R+K Y+ 
Sbjct: 124 KVVYDQYFEKEKDIVTGIVQRYVGKNISINLGKADAMLTENEQVKGEVFKPTERIKLYVV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP++L+SRTHP+ + +LF  EV E+ +G V++K+++R+ GSR K+AV+S+D  
Sbjct: 184 EVKNTTKGPKILVSRTHPELVKRLFESEVTEVKDGTVEIKSIAREAGSRTKIAVWSNDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGM G+RV  +V ELR EKIDI+ WS + A  + NAL PA V  V+ D D   
Sbjct: 244 VDPVGACVGMNGARVNTIVNELRGEKIDIINWSDNPAILIENALSPAKVISVMADPDEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 304 ASVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSE 340


>gi|187934771|ref|YP_001885468.1| transcription elongation factor NusA [Clostridium botulinum B str.
           Eklund 17B]
 gi|187722924|gb|ACD24145.1| transcription termination factor NusA [Clostridium botulinum B str.
           Eklund 17B]
          Length = 384

 Score =  290 bits (742), Expect = 4e-76,   Method: Compositional matrix adjust.
 Identities = 141/330 (42%), Positives = 225/330 (68%), Gaps = 4/330 (1%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMS----DIRVEINPETGDISLFRLLEVVEE 71
           +  EK I  D++ + + D++  A +  Y  ++    ++++ IN E G+I ++    VV+E
Sbjct: 12  IVKEKGISEDLLFTTIEDAMVAAYKKNYANLNTSAQNVKISINRENGEIHVYAQKMVVDE 71

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
           V +   +ISL+ A+  +P  ++  +V   + P +FGRVA Q AKQV+ Q+++EAER+  Y
Sbjct: 72  VYDEVTEISLEEAKAINPKYEVDDIVDLEVTPKNFGRVAAQLAKQVVTQRIKEAERNIIY 131

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRR 191
            E+K+K  +II+GT+ R + G V V LG  +G+I  +E +S E+ R  +++K YI +V+ 
Sbjct: 132 SEYKEKEFDIITGTILRKDKGMVFVSLGKIEGIIGPNEQMSNEDYRFNEKLKLYIVEVKN 191

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPV 251
             +G QV +SRTHP  + +LF +EVPEI+NG+V++K++SR+ GSR+K+AV+S+D  +D +
Sbjct: 192 TSKGAQVHVSRTHPGLVKRLFELEVPEIFNGVVEIKSISREAGSRSKIAVYSNDEEVDAM 251

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI 311
           GACVG +G RVQ +V EL++EKIDI+ W+ D A F+ NAL PA V    ++E+    +++
Sbjct: 252 GACVGPKGIRVQNIVNELKNEKIDIIKWNKDPAEFISNALSPAKVISAEVNEESKSAKIV 311

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           V  +QLSLAIG+ GQNVRLA++LT W IDI
Sbjct: 312 VADDQLSLAIGKEGQNVRLAAKLTNWKIDI 341


>gi|156741122|ref|YP_001431251.1| NusA antitermination factor [Roseiflexus castenholzii DSM 13941]
 gi|156232450|gb|ABU57233.1| NusA antitermination factor [Roseiflexus castenholzii DSM 13941]
          Length = 442

 Score =  290 bits (742), Expect = 4e-76,   Method: Compositional matrix adjust.
 Identities = 145/329 (44%), Positives = 218/329 (66%), Gaps = 3/329 (0%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMS---DIRVEINPETGDISLFRLLEVVEEV 72
           +A E+ I ++ ++ VM  ++  A R   G      +I V ++P TG   ++   +VV++V
Sbjct: 12  IASERGIPKEAIVEVMEKALATAYRRTLGPNPPPMEISVRLDPLTGAARVYSEKQVVDDV 71

Query: 73  ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYL 132
            +   +I L+ AR   P +++G  V     P DFGR+A Q+AKQVI+Q ++E ER+  Y 
Sbjct: 72  YDERFEIDLESARKIKPDVELGESVVVETTPKDFGRIAAQTAKQVILQGIKEVEREHIYG 131

Query: 133 EFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
           E+ D+ GE+++ TV+R+  GNVI+++G ++ V+   E +  +    G R+K Y+ ++RRE
Sbjct: 132 EYMDREGELVTATVQRMAKGNVILEMGKAEAVLPPKEQVETDRYYHGQRLKVYLMEIRRE 191

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
           +RGP+++ SR H   + +LF MEVPEIYNG V++K+++R+PG R K+AV +    IDPVG
Sbjct: 192 ERGPKLIASRAHKNLITRLFEMEVPEIYNGAVEIKSIAREPGIRTKVAVAARQEGIDPVG 251

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIV 312
           +CVGMRG R+Q +V EL  EKID+V WS +   F+ NAL PA V +V L +D     VIV
Sbjct: 252 SCVGMRGIRIQNIVNELNGEKIDVVQWSSNPKEFIANALSPAQVVEVQLRDDEHAATVIV 311

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           P +QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 312 PDKQLSLAIGKEGQNVRLAAKLTGWRIDI 340


>gi|253573564|ref|ZP_04850907.1| transcription termination factor NusA [Paenibacillus sp. oral taxon
           786 str. D14]
 gi|251847092|gb|EES75097.1| transcription termination factor NusA [Paenibacillus sp. oral taxon
           786 str. D14]
          Length = 365

 Score =  290 bits (742), Expect = 5e-76,   Method: Compositional matrix adjust.
 Identities = 146/349 (41%), Positives = 231/349 (66%), Gaps = 2/349 (0%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           ++ ++  + +  EK I +D++   +  ++  + +  + T  ++RV++N  TG+I ++   
Sbjct: 3   MDFIEALNELEREKGISKDILFEAIEAALISSYKRNFNTAQNVRVDMNRHTGEIKVYARK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VVEEV +   +ISL+ AR+ +P+  +  +    + P DFGR+A Q+AKQV+ Q++REAE
Sbjct: 63  LVVEEVLDPRTEISLQAAREINPNYHLDDITEIEVTPRDFGRIAAQTAKQVVTQRIREAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R   Y  F +K  +I++G V+R +  N+ VDLG  +  +  +E +  E  + GDR+K+YI
Sbjct: 123 RGLIYNAFVEKEEDIVTGIVQRQDLRNIYVDLGKVEAHLPLNELMPNEKFKHGDRIKAYI 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V    +GPQ+LLSRTHP  + +LF +EVPEI++G+V++++V+R+ G R+K+AV+S +S
Sbjct: 183 TKVENTTKGPQILLSRTHPGLLKRLFELEVPEIFDGVVEIRSVAREAGFRSKIAVYSRNS 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVG+CVG +G+RVQ +V ELR EKIDIV +S +   +V NAL P+ V +V + E   
Sbjct: 243 EVDPVGSCVGPKGTRVQTIVNELRGEKIDIVRYSENVEEYVANALSPSKVLEVQVFEAEK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII--TEEEDSINRQK 353
              VIVP  QLSLAIG +GQN RLA++LTGW IDI   T+ E+   R+K
Sbjct: 303 MARVIVPDYQLSLAIGIKGQNARLAAKLTGWKIDIKSETQAEEEFGREK 351


>gi|257865909|ref|ZP_05645562.1| transcription termination factor NusA [Enterococcus casseliflavus
           EC30]
 gi|257872242|ref|ZP_05651895.1| transcription termination factor NusA [Enterococcus casseliflavus
           EC10]
 gi|257799843|gb|EEV28895.1| transcription termination factor NusA [Enterococcus casseliflavus
           EC30]
 gi|257806406|gb|EEV35228.1| transcription termination factor NusA [Enterococcus casseliflavus
           EC10]
          Length = 404

 Score =  290 bits (741), Expect = 5e-76,   Method: Compositional matrix adjust.
 Identities = 145/338 (42%), Positives = 223/338 (65%), Gaps = 1/338 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L   DA+  EK I +++V+  +  ++  A +  YG   ++ VE + + G+I ++ + E
Sbjct: 4   EMLNALDALEAEKGISKEIVIDALEAALVSAYKRHYGQAQNVEVEFDQKKGNIHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V EEV +   ++SLK A   +P+ +IG  +   + P DFGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VTEEVMDSQLEVSLKEAMTINPAYEIGDKIRFEVTPKDFGRIAAQTAKQVILQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF     +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K ++ 
Sbjct: 124 NIIYNEFSAYEKDILQGIVERQDNRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVFVS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SR+HP  + +LF  EVPE+Y+G V++ +++R+ G RAK+AV S D++
Sbjct: 184 RVENTSKGPQVFVSRSHPDLLRRLFEQEVPEVYDGTVEIVSIAREAGDRAKVAVRSFDAN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG CVG +G RVQA+V EL+ E +DIV W+ D A F+ NAL PA V+ V+ D D  +
Sbjct: 244 VDPVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAIFIANALNPAEVSDVIFDVDNPK 303

Query: 308 -IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              V+VP  QLSLAIG+RGQN RLA++LTG+ IDI +E
Sbjct: 304 ACTVVVPDYQLSLAIGKRGQNARLAAKLTGFKIDIKSE 341


>gi|291536069|emb|CBL09181.1| transcription termination factor NusA [Roseburia intestinalis
           M50/1]
          Length = 402

 Score =  290 bits (741), Expect = 5e-76,   Method: Compositional matrix adjust.
 Identities = 146/337 (43%), Positives = 226/337 (67%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL+  + +  EK+I +D +L  + +S+  A ++ +G+  +++V I+PET +  +F+   
Sbjct: 5   ELLEALNILEQEKNISKDTLLEAIENSLVTACKNHFGSSDNVKVSIDPETCEFHVFQEKT 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE+   QISL  A+  +   +IG VV+  +   +FGR+A Q+AK VI+QK+RE ER
Sbjct: 65  VVETVEDPVEQISLVNAKMINSKYEIGDVVNIEVQSKEFGRIATQNAKNVILQKIREEER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y ++     ++++G V+R    NV ++LG  D ++  +E +  E  +P +R+K YI 
Sbjct: 125 KVLYDQYYSMEKDVVTGVVQRYVGRNVSINLGRVDAILTENEQVKGEVFQPTERIKVYIL 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP+VL+SRTHP+ + +LF  EV E+  GIV++KA++R+ GSR K+AV+S+D  
Sbjct: 185 EVKATSKGPKVLVSRTHPELVKRLFESEVAEVREGIVEIKAIAREAGSRTKIAVWSNDPD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGM G+RV A+V ELR EKIDI+ W+ + A  + NAL PA V  V+ D +   
Sbjct: 245 VDPVGACVGMNGARVNAIVGELRGEKIDIITWNENPAMMIENALSPAKVISVIADAEEKS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            +V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 305 AKVVVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSE 341


>gi|253580823|ref|ZP_04858086.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA]
 gi|251847893|gb|EES75860.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA]
          Length = 406

 Score =  289 bits (740), Expect = 7e-76,   Method: Compositional matrix adjust.
 Identities = 149/337 (44%), Positives = 221/337 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL +  D +  EKSI +D +L  +  S+ +A ++ +G   ++ V I+PET D S++    
Sbjct: 4   ELREALDILEKEKSISKDTLLEAIEQSLIQACKNHFGKADNVHVTIDPETCDFSVYADRS 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VE VE+   +ISL  A       +IGG++  P+   +FGR+A Q+AK VI+QK+RE ER
Sbjct: 64  IVEYVEDPAMEISLADALKITSRAEIGGMIQVPIQSKEFGRIATQNAKNVILQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+  K  E+++G V+RV   NV ++LG +D V+  +E +  E  +P +R+K YI 
Sbjct: 124 KVLYDEYYGKEKEVVTGIVQRVMGKNVSINLGKADAVLSENEQVKGETFQPTERIKVYIL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP++L+SRTHP  + +LF  EV E+ +G V++K+++R+ GSR K+AV+S+D  
Sbjct: 184 EVKDTPKGPRILVSRTHPGLVKRLFESEVAEVKDGTVEIKSIAREAGSRTKIAVWSNDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +D VGACVGM G+RV AVV ELR EKIDI+ W  + A  + NAL PA V  V+ D D   
Sbjct: 244 VDAVGACVGMNGARVNAVVEELRGEKIDIINWDENPAILIENALSPAKVIAVMADPDEKT 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 304 ALVVVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSE 340


>gi|257413921|ref|ZP_04744677.2| transcription termination factor NusA [Roseburia intestinalis
           L1-82]
 gi|257201821|gb|EEV00106.1| transcription termination factor NusA [Roseburia intestinalis
           L1-82]
          Length = 425

 Score =  289 bits (740), Expect = 8e-76,   Method: Compositional matrix adjust.
 Identities = 146/337 (43%), Positives = 226/337 (67%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL+  + +  EK+I +D +L  + +S+  A ++ +G+  +++V I+PET +  +F+   
Sbjct: 23  ELLEALNILEQEKNISKDTLLEAIENSLVTACKNHFGSSDNVKVSIDPETCEFHVFQEKT 82

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE+   QISL  A+  +   +IG VV+  +   +FGR+A Q+AK VI+QK+RE ER
Sbjct: 83  VVETVEDPVEQISLVNAKMINSKYEIGDVVNIEVQSKEFGRIATQNAKNVILQKIREEER 142

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y ++     ++++G V+R    NV ++LG  D ++  +E +  E  +P +R+K YI 
Sbjct: 143 KVLYDQYYSMEKDVVTGVVQRYVGRNVSINLGRVDAILTENEQVKGEVFQPTERIKVYIL 202

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP+VL+SRTHP+ + +LF  EV E+  GIV++KA++R+ GSR K+AV+S+D  
Sbjct: 203 EVKATSKGPKVLVSRTHPELVKRLFESEVAEVREGIVEIKAIAREAGSRTKIAVWSNDPD 262

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGM G+RV A+V ELR EKIDI+ W+ + A  + NAL PA V  V+ D +   
Sbjct: 263 VDPVGACVGMNGARVNAIVGELRGEKIDIITWNENPAMMIENALSPAKVISVIADAEEKS 322

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            +V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 323 AKVVVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSE 359


>gi|257869192|ref|ZP_05648845.1| transcription termination factor NusA [Enterococcus gallinarum EG2]
 gi|257803356|gb|EEV32178.1| transcription termination factor NusA [Enterococcus gallinarum EG2]
          Length = 398

 Score =  289 bits (740), Expect = 8e-76,   Method: Compositional matrix adjust.
 Identities = 145/338 (42%), Positives = 222/338 (65%), Gaps = 1/338 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L   DA+  EK I +++V+  +  ++  A +  YG   ++ VE + + G+I ++ + E
Sbjct: 4   EMLNALDALEAEKGISKEIVIDALEAALVSAYKRHYGQAQNVEVEFDQKKGNIHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V EEV +   ++SLK A   +P+ +IG  +   + P DFGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VTEEVMDSQLEVSLKEAMTINPAYEIGDKIRFEVTPKDFGRIAAQTAKQVILQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF     +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K ++ 
Sbjct: 124 TIIYNEFSAYEKDILQGIVERQDNRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVFVS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SR+HP  + +LF  EVPE+Y+G V++ +++R+ G R+K+AV S D++
Sbjct: 184 RVENTSKGPQVFVSRSHPDLLRRLFEQEVPEVYDGTVEIVSIAREAGDRSKVAVRSFDAN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG CVG +G RVQA+V EL+ E +DIV W+ D A F+ NAL PA VT V+ D D  +
Sbjct: 244 VDPVGTCVGPKGQRVQAIVNELKGENMDIVEWNDDPAVFIANALNPAEVTDVIFDVDNPK 303

Query: 308 -IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              V+VP  QLSLAIG+RGQN RLA++LTG+ IDI +E
Sbjct: 304 ACTVVVPDYQLSLAIGKRGQNARLAAKLTGFKIDIKSE 341


>gi|299823034|ref|ZP_07054920.1| transcription termination factor NusA [Listeria grayi DSM 20601]
 gi|299816563|gb|EFI83801.1| transcription termination factor NusA [Listeria grayi DSM 20601]
          Length = 367

 Score =  289 bits (739), Expect = 8e-76,   Method: Compositional matrix adjust.
 Identities = 147/337 (43%), Positives = 226/337 (67%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL++    +  +K I R+V++  +  ++  A +  +    ++RV++N E G I +    +
Sbjct: 4   ELMEALYVLENDKGISREVLVDAIEAALVSAYKRNFDKAENVRVDLNMENGSIRVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV++V +   +IS + A+  +P  ++G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDQVFDSRLEISPEEAQKINPVYNVGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E  R  DR+K Y+ 
Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYRAHDRIKVYLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY G V++K+V+R+ G R+K++V++++  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYEGSVEIKSVAREAGDRSKISVYTANKE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVGACVG +G+RVQA+V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E    
Sbjct: 244 IDPVGACVGPKGARVQAIVDELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEADQA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 304 TTVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 340


>gi|255976057|ref|ZP_05426643.1| transcription termination factor NusA [Enterococcus faecalis T2]
 gi|307279086|ref|ZP_07560144.1| transcription termination factor NusA [Enterococcus faecalis
           TX0860]
 gi|255968929|gb|EET99551.1| transcription termination factor NusA [Enterococcus faecalis T2]
 gi|306504211|gb|EFM73423.1| transcription termination factor NusA [Enterococcus faecalis
           TX0860]
          Length = 399

 Score =  289 bits (739), Expect = 1e-75,   Method: Compositional matrix adjust.
 Identities = 147/338 (43%), Positives = 220/338 (65%), Gaps = 1/338 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L   D +  EK I +D V+  +  ++  A +  YG  S++ VE  P+ G+I ++ + E
Sbjct: 4   EMLNALDVLEAEKGIPKDTVIEALQAALVSAYKRHYGQASNVEVEFEPKKGNIHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V EEV +   ++SLK A   + + +IG  +   + P DFGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VTEEVFDSQLEVSLKDAVALNGAYEIGDKIRFEVTPKDFGRIAAQTAKQVILQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF +   +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K Y+ 
Sbjct: 124 TIIYNEFSEYENDIMQGIVERQDRRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVYVS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SR+HP  + +LF  E+PE+Y+GIV++ +V+R+ G R+K+AV S+D +
Sbjct: 184 RVENTSKGPQVFVSRSHPDLLKRLFEQEIPEVYDGIVEIVSVAREAGDRSKVAVRSTDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD-EDVG 306
           IDPVG CVG +G RVQA+V EL+ E +DIV W+ D A ++ NAL PA V  V+ D E+  
Sbjct: 244 IDPVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAIYISNALNPAQVLDVIFDPENSK 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              V+VP  QLSLAIG+RGQN RLA++LTG  IDI +E
Sbjct: 304 ACTVVVPDYQLSLAIGKRGQNARLAAKLTGHKIDIKSE 341


>gi|299139239|ref|ZP_07032415.1| transcription termination factor NusA [Acidobacterium sp. MP5ACTX8]
 gi|298598919|gb|EFI55081.1| transcription termination factor NusA [Acidobacterium sp. MP5ACTX8]
          Length = 544

 Score =  289 bits (739), Expect = 1e-75,   Method: Compositional matrix adjust.
 Identities = 170/424 (40%), Positives = 253/424 (59%), Gaps = 22/424 (5%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L Q  + ++ EK ID ++V+  + D+I  A R  Y T+ ++R E++ ETG+I  +    V
Sbjct: 5   LYQSIELLSREKGIDPEIVVGAVEDAIALATRKYYKTVENMRGEMDRETGEIRAYVFKTV 64

Query: 69  VEE---VENYTCQISLKVARDRDPSIDIGG---VVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           VE    VE+   Q++L+ AR+  P +++GG      D  P    GR+A Q AKQVI QKV
Sbjct: 65  VETPELVEDADNQLALEQARELAPEVEVGGELRFYKDTTP---LGRIAAQMAKQVIFQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           REAERD  + E+  + GEI++ TVKR+E  +VI DLG ++  + + E    E     +RV
Sbjct: 122 REAERDTVFNEYAHRAGEILTATVKRLEPMDVIFDLGKAEARMPKREQSRLEQFSVAERV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  +  V R  +GPQV++SR  P  +  LF  EVPEIY+G V ++A++R+ G R K+AV 
Sbjct: 182 RVVLLRVDRAAKGPQVIVSRAAPALVQSLFQSEVPEIYDGTVSIRAIAREAGERTKIAVV 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VL 301
           S D  +DPVGACVGM+G RVQ+++ ELR EKIDI+ +S +  TF   AL+PA V++V + 
Sbjct: 242 SRDKDVDPVGACVGMKGMRVQSIIRELRGEKIDIIEYSEEITTFAEKALQPAKVSRVSIT 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           D    ++EVIV   QLSLAIG++GQNVRLA++L  W IDI +EEE    ++++  ++ Q 
Sbjct: 302 DLAEKQLEVIVDDTQLSLAIGKKGQNVRLAAKLLQWKIDIKSEEE----KRQEVEQQMQA 357

Query: 362 FM--------QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
                     Q   + E +   L+A G   VE LA +   E+  + G  ++T  +I    
Sbjct: 358 MTGGPSTPIEQVTELGESVMEKLIAAGITTVESLADMTAEELGEVPGIGDKTVEKIAVAV 417

Query: 414 REYL 417
           R Y 
Sbjct: 418 RHYF 421


>gi|291460012|ref|ZP_06599402.1| transcription termination factor NusA [Oribacterium sp. oral taxon
           078 str. F0262]
 gi|291417353|gb|EFE91072.1| transcription termination factor NusA [Oribacterium sp. oral taxon
           078 str. F0262]
          Length = 444

 Score =  288 bits (738), Expect = 1e-75,   Method: Compositional matrix adjust.
 Identities = 153/338 (45%), Positives = 218/338 (64%), Gaps = 6/338 (1%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           LELL+       EK I +  ++  +  S+Q A R+ +G+  ++RV ++PE+ D S+    
Sbjct: 9   LELLE------KEKGIPKQALIEAIELSLQTACRNHFGSADNVRVNVDPESCDFSVIADK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VVE V N   +I L  A+  DP  ++G +V  P+    FGR+A Q+AK VI+QK+RE E
Sbjct: 63  TVVETVSNPIAEIGLSEAKLVDPKYELGDIVQVPVDSRSFGRIATQNAKGVIVQKIREEE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R   Y E+     E++SG V+R    ++IV+LG  DG +  +E +  E L P DR+K Y+
Sbjct: 123 RRVLYREYYSMAREVVSGVVERDTGRSIIVNLGRVDGYLSENEQVKGEVLNPTDRIKVYV 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +VR   +GP+VLLSRTHP+ + KLF  E PEI  GIV+++A++R+ GSR K+AV S+D 
Sbjct: 183 VEVRDSPKGPRVLLSRTHPELVKKLFEEEAPEIREGIVEIRAIAREAGSRTKMAVLSNDP 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVG+CVG+ G+RV AVV ELR EKIDI+ +  + A  + NAL PA V  V+ D D  
Sbjct: 243 DVDPVGSCVGLDGTRVNAVVEELRGEKIDIINYDENPAYLIENALSPAKVIAVIADPDNK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              VIVP  QLSLAIG+ GQN RL+++LTG+ IDI +E
Sbjct: 303 DAMVIVPDTQLSLAIGKEGQNARLSAKLTGYKIDIKSE 340


>gi|258645576|ref|ZP_05733045.1| transcription termination factor NusA [Dialister invisus DSM 15470]
 gi|260402934|gb|EEW96481.1| transcription termination factor NusA [Dialister invisus DSM 15470]
          Length = 377

 Score =  288 bits (738), Expect = 1e-75,   Method: Compositional matrix adjust.
 Identities = 152/342 (44%), Positives = 220/342 (64%), Gaps = 4/342 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           LLQ  + +  +K ++ DVV   +   +  A +   G+ +   + ++  TG+  ++    V
Sbjct: 5   LLQAVNFLVDKKKVEADVVFDALEMVLLTAYKKEMGSNAKTSISLDRTTGEYKIYEEKTV 64

Query: 69  VE----EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VE    E EN   +I+++ A+      + G ++   + P DFGRVA Q+AKQV+IQK+RE
Sbjct: 65  VEVIDPESENAINEITVENAKKISKDYEAGDMLRVDVTPKDFGRVAAQAAKQVLIQKLRE 124

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER   Y EF  + G+II+GTVK  E   V VDLG  +G++   E I  E  +P D++K 
Sbjct: 125 AERGSIYEEFSGREGDIITGTVKWSESRTVFVDLGRVEGILPFAEQIEGETFQPNDKIKC 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+ +VR+  +GP+++LSRTHP  + +LF MEVPEIY+G V++K+V R+ GSRAK+AV++ 
Sbjct: 185 YVQEVRKTTKGPEIILSRTHPGLLKRLFEMEVPEIYSGTVEIKSVVREAGSRAKIAVYAM 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D ++DPVGACVG +G RVQ +V EL DEKIDIV W  D A ++ NAL PA V  V + ++
Sbjct: 245 DPNVDPVGACVGPKGQRVQNIVNELHDEKIDIVRWDEDPAIYIANALSPAKVVSVSVWDE 304

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
                VIVP  QLSLAIG+ GQN RLA++LT W IDI +E +
Sbjct: 305 ERSSYVIVPDYQLSLAIGKAGQNARLANKLTNWKIDIKSESQ 346


>gi|329577093|gb|EGG58566.1| transcription termination factor NusA [Enterococcus faecalis
           TX1467]
          Length = 399

 Score =  288 bits (738), Expect = 1e-75,   Method: Compositional matrix adjust.
 Identities = 147/338 (43%), Positives = 220/338 (65%), Gaps = 1/338 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L   D +  EK I +D V+  +  ++  A +  YG  S++ VE  P+ G+I ++ + E
Sbjct: 4   EMLNALDVLEAEKGIPKDTVIEALQAALVSAYKRHYGQASNVEVEFEPKKGNIHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V EEV +   ++SLK A   + + +IG  +   + P DFGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VTEEVFDSQLEVSLKDAVALNGAYEIGDKIRFEVTPKDFGRIAAQTAKQVILQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF +   +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K Y+ 
Sbjct: 124 TIIYNEFSEYENDIMQGIVERQDRRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVYVS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SR+HP  + +LF  E+PE+Y+GIV++ +V+R+ G R+K+AV S+D +
Sbjct: 184 RVENTSKGPQVFVSRSHPDLLKRLFEQEIPEVYDGIVEIVSVAREAGDRSKVAVRSTDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD-EDVG 306
           IDPVG CVG +G RVQA+V EL+ E +DIV W+ D A ++ NAL PA V  V+ D E+  
Sbjct: 244 IDPVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAIYISNALNPAQVLDVIFDPENSK 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              V+VP  QLSLAIG+RGQN RLA++LTG  IDI +E
Sbjct: 304 ACTVVVPDYQLSLAIGKRGQNARLAAKLTGHKIDIKSE 341


>gi|302874660|ref|YP_003843293.1| NusA antitermination factor [Clostridium cellulovorans 743B]
 gi|307690726|ref|ZP_07633172.1| transcription elongation factor NusA [Clostridium cellulovorans
           743B]
 gi|302577517|gb|ADL51529.1| NusA antitermination factor [Clostridium cellulovorans 743B]
          Length = 356

 Score =  288 bits (737), Expect = 1e-75,   Method: Compositional matrix adjust.
 Identities = 145/338 (42%), Positives = 223/338 (65%), Gaps = 4/338 (1%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYG----TMSDIRVEINPETGDISLFRLLEVVEE 71
           +  EK I  D +   + D++  A +  Y     T  + +V +N ETGDI +F   ++VE 
Sbjct: 12  IVKEKGISEDQLFETIEDAMVAAYKKNYSKGSETNQNFKVTMNRETGDIKVFSRKDIVEN 71

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
           V N   +I+L+ A++ DP  +IG +V   + P DFGRVA Q+AKQ++IQ+++EAER+  Y
Sbjct: 72  VLNPVNEITLEEAKNYDPRYEIGEIVDIEVTPKDFGRVAAQAAKQLVIQRIKEAERNLIY 131

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRR 191
            EF +K  +II+GTV R +  NV+V++G  + V+   E I  E     +++K Y+ +V++
Sbjct: 132 EEFAEKEFDIINGTVIRKDKKNVLVNIGRIETVLNESEQIPGEQYNFNEKLKLYVVEVKK 191

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPV 251
             +GP +++SRTHP  + +LF +EVPEIY GIV++K+++R+ GSR K+AV+S+D  +D +
Sbjct: 192 TSKGPSIVVSRTHPNLVKRLFEIEVPEIYEGIVEIKSIAREAGSRTKIAVYSNDEDVDAM 251

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI 311
           GACVG +G RVQ +V EL +EKIDI+ W+     ++ N+L PA    V +DE     +VI
Sbjct: 252 GACVGSKGLRVQNIVNELGNEKIDIIKWNKLPEEYIANSLSPAKTLDVSIDEQNKCAKVI 311

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           V   QLSLAIG+ GQNVRLA++LTGW IDI ++ + S+
Sbjct: 312 VDDNQLSLAIGKEGQNVRLAAKLTGWKIDIKSKSQHSV 349


>gi|56963996|ref|YP_175727.1| transcription elongation factor NusA [Bacillus clausii KSM-K16]
 gi|56910239|dbj|BAD64766.1| transcriptional elongation protein [Bacillus clausii KSM-K16]
          Length = 368

 Score =  288 bits (737), Expect = 1e-75,   Method: Compositional matrix adjust.
 Identities = 148/339 (43%), Positives = 220/339 (64%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E ++    +  +K I ++V++  +  ++    +  +G   ++RV++N + G I +F    
Sbjct: 4   EFMEALSTLEADKGIKKEVIIEAIEAALISGYKRNFGQAQNVRVDVNRDNGSIRVFARKV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +IS   A+  +P  ++  +V   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVEEVFDKRLEISEAEAQRINPHYEVDDIVEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y +F D+  +I++G V+R ++  + VDLG  + ++   E +  E  +  DR+K+YI 
Sbjct: 124 GIIYSDFIDREEDIMNGIVQRQDHRFIYVDLGKVEALLPLSEQMPNETYKHNDRIKAYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+L+SRTHP  + +LF +EVPEIY+G V++K+VSR+ G R+K+AV S +  
Sbjct: 184 KVEKTTKGPQILISRTHPGLLKRLFELEVPEIYDGTVEIKSVSREAGDRSKIAVHSDNPE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +D VGACVG RG RVQ +V EL+ EKIDIV WS D   +V NAL PA V KV + E    
Sbjct: 244 VDSVGACVGQRGQRVQTIVDELKGEKIDIVEWSEDPVVYVANALSPAKVMKVNVLEGEKM 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            +VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E E
Sbjct: 304 TQVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSESE 342


>gi|315641143|ref|ZP_07896222.1| transcription elongation factor NusA [Enterococcus italicus DSM
           15952]
 gi|315483151|gb|EFU73668.1| transcription elongation factor NusA [Enterococcus italicus DSM
           15952]
          Length = 376

 Score =  288 bits (737), Expect = 1e-75,   Method: Compositional matrix adjust.
 Identities = 147/338 (43%), Positives = 219/338 (64%), Gaps = 1/338 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L   DA+  EK I +D+V+  +  ++  A +  YG   ++ VE + + G+I ++ + E
Sbjct: 4   EMLNALDALEAEKGISKDIVIDALEAALISAYKRHYGQSQNVEVEFDRKKGNIHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V EEV +   ++SLK A   +P+ +IG  +   + P DFGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VTEEVMDSQLEVSLKEAMTINPAYEIGDKIRFEVTPKDFGRIAAQTAKQVILQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF     +I+ G V+R +   + V+LG  + V+ + + ++ E  +P DR+K Y+ 
Sbjct: 124 SIIYNEFSAYEKDIMQGIVERQDSRYIYVNLGKIEAVLSKQDQMANEFYQPHDRIKVYVS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SR+HP  + +LF  EVPE+Y+G V++ +++R+ G R+K+AV S D +
Sbjct: 184 RVENTSKGPQVFVSRSHPDLLRRLFEQEVPEVYDGTVEIVSIAREAGDRSKIAVRSHDEN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVG CVG +G RVQA+V EL+ E +DIV W  D A F+ NAL PA VT V+ D    +
Sbjct: 244 IDPVGTCVGPKGQRVQALVNELKGENMDIVEWDEDPAIFIANALNPAEVTDVLFDTTNPK 303

Query: 308 -IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              V+VP  QLSLAIG+RGQN RLA++LTG  IDI +E
Sbjct: 304 ACTVVVPDYQLSLAIGKRGQNARLAAKLTGHKIDIKSE 341


>gi|257085469|ref|ZP_05579830.1| transcription termination factor NusA [Enterococcus faecalis Fly1]
 gi|256993499|gb|EEU80801.1| transcription termination factor NusA [Enterococcus faecalis Fly1]
          Length = 403

 Score =  288 bits (737), Expect = 1e-75,   Method: Compositional matrix adjust.
 Identities = 147/338 (43%), Positives = 220/338 (65%), Gaps = 1/338 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L   D +  EK I +D V+  +  ++  A +  YG  S++ VE  P+ G+I ++ + E
Sbjct: 4   EMLNALDVLEAEKGIPKDTVIEALQAALVSAYKRHYGQASNVEVEFEPKKGNIHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V EEV +   ++SLK A   + + +IG  +   + P DFGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VTEEVFDSQLEVSLKDAVALNGAYEIGDKIRFEVTPKDFGRIAAQTAKQVILQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF +   +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K Y+ 
Sbjct: 124 TIIYNEFSEYENDIMQGIVERQDRRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVYVS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SR+HP  + +LF  E+PE+Y+GIV++ +V+R+ G R+K+AV S+D +
Sbjct: 184 RVENTSKGPQVFVSRSHPDLLKRLFEQEIPEVYDGIVEIVSVAREAGDRSKVAVRSTDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD-EDVG 306
           IDPVG CVG +G RVQA+V EL+ E +DIV W+ D A ++ NAL PA V  V+ D E+  
Sbjct: 244 IDPVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAIYISNALNPAQVLDVIFDPENSK 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              V+VP  QLSLAIG+RGQN RLA++LTG  IDI +E
Sbjct: 304 ACTVVVPDYQLSLAIGKRGQNARLAAKLTGHKIDIKSE 341


>gi|29375840|ref|NP_814994.1| transcription elongation factor NusA [Enterococcus faecalis V583]
 gi|227518531|ref|ZP_03948580.1| transcription elongation factor NusA [Enterococcus faecalis TX0104]
 gi|227553057|ref|ZP_03983106.1| transcription elongation factor NusA [Enterococcus faecalis HH22]
 gi|229546052|ref|ZP_04434777.1| transcription elongation factor NusA [Enterococcus faecalis TX1322]
 gi|229550242|ref|ZP_04438967.1| transcription elongation factor NusA [Enterococcus faecalis ATCC
           29200]
 gi|255973018|ref|ZP_05423604.1| transcription termination factor NusA [Enterococcus faecalis T1]
 gi|256762268|ref|ZP_05502848.1| transcription termination factor NusA [Enterococcus faecalis T3]
 gi|256852913|ref|ZP_05558283.1| transcription elongation factor NusA [Enterococcus faecalis T8]
 gi|256958759|ref|ZP_05562930.1| transcription termination factor NusA [Enterococcus faecalis DS5]
 gi|256962135|ref|ZP_05566306.1| transcription termination factor NusA [Enterococcus faecalis
           Merz96]
 gi|256965334|ref|ZP_05569505.1| transcription termination factor NusA [Enterococcus faecalis
           HIP11704]
 gi|257078788|ref|ZP_05573149.1| transcription termination factor NusA [Enterococcus faecalis JH1]
 gi|257082768|ref|ZP_05577129.1| transcription termination factor NusA [Enterococcus faecalis E1Sol]
 gi|257086618|ref|ZP_05580979.1| transcription termination factor NusA [Enterococcus faecalis D6]
 gi|257089675|ref|ZP_05584036.1| transcriptional termination factor nusA [Enterococcus faecalis
           CH188]
 gi|257415889|ref|ZP_05592883.1| transcription termination factor NusA [Enterococcus faecalis
           AR01/DG]
 gi|257419091|ref|ZP_05596085.1| transcription termination factor nusA [Enterococcus faecalis T11]
 gi|257422841|ref|ZP_05599831.1| transcription elongation factor nusA [Enterococcus faecalis X98]
 gi|293383160|ref|ZP_06629077.1| transcription termination factor NusA [Enterococcus faecalis R712]
 gi|293387686|ref|ZP_06632231.1| transcription termination factor NusA [Enterococcus faecalis S613]
 gi|294780121|ref|ZP_06745494.1| transcription termination factor NusA [Enterococcus faecalis PC1.1]
 gi|300859670|ref|ZP_07105758.1| transcription termination factor NusA [Enterococcus faecalis TUSoD
           Ef11]
 gi|307268540|ref|ZP_07549913.1| transcription termination factor NusA [Enterococcus faecalis
           TX4248]
 gi|307273441|ref|ZP_07554686.1| transcription termination factor NusA [Enterococcus faecalis
           TX0855]
 gi|307277604|ref|ZP_07558696.1| transcription termination factor NusA [Enterococcus faecalis
           TX2134]
 gi|307288429|ref|ZP_07568417.1| transcription termination factor NusA [Enterococcus faecalis
           TX0109]
 gi|307291252|ref|ZP_07571136.1| transcription termination factor NusA [Enterococcus faecalis
           TX0411]
 gi|312899340|ref|ZP_07758673.1| transcription termination factor NusA [Enterococcus faecalis
           TX0470]
 gi|312904021|ref|ZP_07763189.1| transcription termination factor NusA [Enterococcus faecalis
           TX0635]
 gi|312907251|ref|ZP_07766242.1| transcription termination factor NusA [Enterococcus faecalis DAPTO
           512]
 gi|312909869|ref|ZP_07768717.1| transcription termination factor NusA [Enterococcus faecalis DAPTO
           516]
 gi|312952268|ref|ZP_07771143.1| transcription termination factor NusA [Enterococcus faecalis
           TX0102]
 gi|29343302|gb|AAO81064.1| N utilization substance protein A [Enterococcus faecalis V583]
 gi|227074013|gb|EEI11976.1| transcription elongation factor NusA [Enterococcus faecalis TX0104]
 gi|227177800|gb|EEI58772.1| transcription elongation factor NusA [Enterococcus faecalis HH22]
 gi|229304680|gb|EEN70676.1| transcription elongation factor NusA [Enterococcus faecalis ATCC
           29200]
 gi|229308825|gb|EEN74812.1| transcription elongation factor NusA [Enterococcus faecalis TX1322]
 gi|255964036|gb|EET96512.1| transcription termination factor NusA [Enterococcus faecalis T1]
 gi|256683519|gb|EEU23214.1| transcription termination factor NusA [Enterococcus faecalis T3]
 gi|256711372|gb|EEU26410.1| transcription elongation factor NusA [Enterococcus faecalis T8]
 gi|256949255|gb|EEU65887.1| transcription termination factor NusA [Enterococcus faecalis DS5]
 gi|256952631|gb|EEU69263.1| transcription termination factor NusA [Enterococcus faecalis
           Merz96]
 gi|256955830|gb|EEU72462.1| transcription termination factor NusA [Enterococcus faecalis
           HIP11704]
 gi|256986818|gb|EEU74120.1| transcription termination factor NusA [Enterococcus faecalis JH1]
 gi|256990798|gb|EEU78100.1| transcription termination factor NusA [Enterococcus faecalis E1Sol]
 gi|256994648|gb|EEU81950.1| transcription termination factor NusA [Enterococcus faecalis D6]
 gi|256998487|gb|EEU85007.1| transcriptional termination factor nusA [Enterococcus faecalis
           CH188]
 gi|257157717|gb|EEU87677.1| transcription termination factor NusA [Enterococcus faecalis
           ARO1/DG]
 gi|257160919|gb|EEU90879.1| transcription termination factor nusA [Enterococcus faecalis T11]
 gi|257164665|gb|EEU94625.1| transcription elongation factor nusA [Enterococcus faecalis X98]
 gi|291079499|gb|EFE16863.1| transcription termination factor NusA [Enterococcus faecalis R712]
 gi|291082875|gb|EFE19838.1| transcription termination factor NusA [Enterococcus faecalis S613]
 gi|294452796|gb|EFG21225.1| transcription termination factor NusA [Enterococcus faecalis PC1.1]
 gi|295112810|emb|CBL31447.1| transcription termination factor NusA [Enterococcus sp. 7L76]
 gi|300850488|gb|EFK78237.1| transcription termination factor NusA [Enterococcus faecalis TUSoD
           Ef11]
 gi|306497483|gb|EFM67016.1| transcription termination factor NusA [Enterococcus faecalis
           TX0411]
 gi|306500600|gb|EFM69929.1| transcription termination factor NusA [Enterococcus faecalis
           TX0109]
 gi|306505869|gb|EFM75047.1| transcription termination factor NusA [Enterococcus faecalis
           TX2134]
 gi|306509968|gb|EFM78993.1| transcription termination factor NusA [Enterococcus faecalis
           TX0855]
 gi|306515136|gb|EFM83678.1| transcription termination factor NusA [Enterococcus faecalis
           TX4248]
 gi|310626279|gb|EFQ09562.1| transcription termination factor NusA [Enterococcus faecalis DAPTO
           512]
 gi|310629652|gb|EFQ12935.1| transcription termination factor NusA [Enterococcus faecalis
           TX0102]
 gi|310632497|gb|EFQ15780.1| transcription termination factor NusA [Enterococcus faecalis
           TX0635]
 gi|311289827|gb|EFQ68383.1| transcription termination factor NusA [Enterococcus faecalis DAPTO
           516]
 gi|311293491|gb|EFQ72047.1| transcription termination factor NusA [Enterococcus faecalis
           TX0470]
 gi|315027493|gb|EFT39425.1| transcription termination factor NusA [Enterococcus faecalis
           TX2137]
 gi|315030928|gb|EFT42860.1| transcription termination factor NusA [Enterococcus faecalis
           TX4000]
 gi|315034084|gb|EFT46016.1| transcription termination factor NusA [Enterococcus faecalis
           TX0017]
 gi|315036752|gb|EFT48684.1| transcription termination factor NusA [Enterococcus faecalis
           TX0027]
 gi|315145578|gb|EFT89594.1| transcription termination factor NusA [Enterococcus faecalis
           TX2141]
 gi|315147751|gb|EFT91767.1| transcription termination factor NusA [Enterococcus faecalis
           TX4244]
 gi|315151452|gb|EFT95468.1| transcription termination factor NusA [Enterococcus faecalis
           TX0012]
 gi|315153231|gb|EFT97247.1| transcription termination factor NusA [Enterococcus faecalis
           TX0031]
 gi|315155990|gb|EFU00007.1| transcription termination factor NusA [Enterococcus faecalis
           TX0043]
 gi|315157838|gb|EFU01855.1| transcription termination factor NusA [Enterococcus faecalis
           TX0312]
 gi|315160336|gb|EFU04353.1| transcription termination factor NusA [Enterococcus faecalis
           TX0645]
 gi|315165485|gb|EFU09502.1| transcription termination factor NusA [Enterococcus faecalis
           TX1302]
 gi|315166759|gb|EFU10776.1| transcription termination factor NusA [Enterococcus faecalis
           TX1341]
 gi|315169950|gb|EFU13967.1| transcription termination factor NusA [Enterococcus faecalis
           TX1342]
 gi|315575674|gb|EFU87865.1| transcription termination factor NusA [Enterococcus faecalis
           TX0309B]
 gi|315578368|gb|EFU90559.1| transcription termination factor NusA [Enterococcus faecalis
           TX0630]
 gi|315579882|gb|EFU92073.1| transcription termination factor NusA [Enterococcus faecalis
           TX0309A]
 gi|323480502|gb|ADX79941.1| transcription elongation protein nusA [Enterococcus faecalis 62]
 gi|327534893|gb|AEA93727.1| transcription termination factor NusA [Enterococcus faecalis OG1RF]
          Length = 399

 Score =  288 bits (737), Expect = 1e-75,   Method: Compositional matrix adjust.
 Identities = 147/338 (43%), Positives = 220/338 (65%), Gaps = 1/338 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L   D +  EK I +D V+  +  ++  A +  YG  S++ VE  P+ G+I ++ + E
Sbjct: 4   EMLNALDVLEAEKGIPKDTVIEALQAALVSAYKRHYGQASNVEVEFEPKKGNIHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V EEV +   ++SLK A   + + +IG  +   + P DFGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VTEEVFDSQLEVSLKDAVALNGAYEIGDKIRFEVTPKDFGRIAAQTAKQVILQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF +   +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K Y+ 
Sbjct: 124 TIIYNEFSEYENDIMQGIVERQDRRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVYVS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SR+HP  + +LF  E+PE+Y+GIV++ +V+R+ G R+K+AV S+D +
Sbjct: 184 RVENTSKGPQVFVSRSHPDLLKRLFEQEIPEVYDGIVEIVSVAREAGDRSKVAVRSTDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD-EDVG 306
           IDPVG CVG +G RVQA+V EL+ E +DIV W+ D A ++ NAL PA V  V+ D E+  
Sbjct: 244 IDPVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAIYISNALNPAQVLDVIFDPENSK 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              V+VP  QLSLAIG+RGQN RLA++LTG  IDI +E
Sbjct: 304 ACTVVVPDYQLSLAIGKRGQNARLAAKLTGHKIDIKSE 341


>gi|167758065|ref|ZP_02430192.1| hypothetical protein CLOSCI_00403 [Clostridium scindens ATCC 35704]
 gi|167663962|gb|EDS08092.1| hypothetical protein CLOSCI_00403 [Clostridium scindens ATCC 35704]
          Length = 398

 Score =  288 bits (737), Expect = 1e-75,   Method: Compositional matrix adjust.
 Identities = 144/337 (42%), Positives = 225/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL+  + +  EK I ++ +L  + +S+  A ++ +G   +I++ ++  T D  LF    
Sbjct: 4   ELLEALNILEEEKDISKETLLDAIENSLLNACKNHFGKADNIKLIMDRTTCDYQLFAEKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE+VE+   QISL+ A++ D   ++G +V  P+    FGR+A Q+AK +I+QK+RE ER
Sbjct: 64  VVEDVEDKLEQISLEDAKEIDSQYELGDIVQIPIESKSFGRIATQNAKNLILQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y ++ +K  +I++G V+R    N+ ++LG +D ++  +E +  E  +P +R+K Y+ 
Sbjct: 124 KVVYDQYFEKEKDIVTGIVQRYVGKNISINLGKADAMLTENEQVKGEVFKPTERIKLYVV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP++L+SRTHP+ + +LF  EV E+  GIV++K+++R+ GSR K+AV+S+D  
Sbjct: 184 EVKNTTKGPKILVSRTHPELVKRLFESEVIEVKEGIVEIKSIAREAGSRTKIAVWSNDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGM G+RV A+V ELR EKIDI+ WS + A  + NAL PA V  V+ D D   
Sbjct: 244 VDPVGACVGMNGARVNAIVNELRGEKIDIINWSDNPAILIENALSPAKVISVMADPDEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 304 ASVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSE 340


>gi|312143666|ref|YP_003995112.1| NusA antitermination factor [Halanaerobium sp. 'sapolanicus']
 gi|311904317|gb|ADQ14758.1| NusA antitermination factor [Halanaerobium sp. 'sapolanicus']
          Length = 402

 Score =  288 bits (737), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 150/340 (44%), Positives = 228/340 (67%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +E +Q  D +  +K I ++V++  +  ++  A +  +G+  ++R++I+ + G++ ++   
Sbjct: 3   VEFIQALDDIEKDKGISKEVLIDAIETALVSAYKKDFGSKDNVRIDISTDAGEVKVYSRK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           EVVEEVEN   QISLK A   D    IG +V   + P +FGR+A Q+AKQV++Q++REAE
Sbjct: 63  EVVEEVENENTQISLKEADKIDGKYKIGDIVEIEVTPGNFGRIAAQTAKQVVMQRIREAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           RD  + +FK+K  E+I+GT++R    N+++D+G ++ ++   E I+ E    G R+K Y+
Sbjct: 123 RDVIFDQFKEKEDELITGTIQRFHNDNILIDMGKTEALLPPSEQIAGEKYEIGKRIKLYV 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V    +GP++L+SRTHP  + +LF +EVPEI+ G+V++KAV+R+ G R+K+AV S D 
Sbjct: 183 VEVSSTSKGPRILVSRTHPGLLKRLFEIEVPEIFQGLVEIKAVAREAGQRSKMAVASKDK 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVG +G RVQAVV +L  EKIDIV W      FV NAL PA V  V +++   
Sbjct: 243 QVDPVGACVGPKGMRVQAVVEQLNREKIDIVKWDESPEVFVANALNPAEVIDVKINKSDK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             EV+VP  QLSLAIG+ GQN RLA++LTGW +DI  E E
Sbjct: 303 IAEVVVPDFQLSLAIGKEGQNARLAAKLTGWKVDIKKESE 342


>gi|315648098|ref|ZP_07901199.1| NusA antitermination factor [Paenibacillus vortex V453]
 gi|315276744|gb|EFU40087.1| NusA antitermination factor [Paenibacillus vortex V453]
          Length = 365

 Score =  288 bits (737), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 143/340 (42%), Positives = 223/340 (65%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           ++ ++  + +  EK I +DV+   +  ++  + +  + T  ++RV++N  TG I +F   
Sbjct: 3   MDFIEAMNELEREKGISKDVLFEAIEAALISSYKRNFNTAQNVRVDMNRNTGVIKVFARK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            +V+EV +   +ISL  AR+ +P   I  +    + P DFGR+A Q+AKQV+ Q++REAE
Sbjct: 63  LIVDEVLDPRTEISLHAAREINPHFQIEDIAEIEVTPRDFGRIAAQTAKQVVTQRIREAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R   Y  F DK  +I++GT++R +  N+ +DLG  +  +   E +  E  + GDR+K+YI
Sbjct: 123 RGLIYSAFIDKEDDIVTGTLQRQDMRNIYIDLGKIEAALPLTELMPNEKFKHGDRIKAYI 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V    +GPQ++LSRTHP  + +LF +EVPEI++G+V++++V+R+ G R+K+AV+S + 
Sbjct: 183 TKVENTTKGPQIMLSRTHPGLLKRLFELEVPEIFDGVVEIRSVAREAGFRSKIAVYSRND 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVG+CVG +G RVQ +V ELR EKIDIV +S +   +V NAL P+ V +V + ED  
Sbjct: 243 EVDPVGSCVGPKGMRVQTIVNELRGEKIDIVRYSEEVEEYVANALSPSKVLEVQVFEDEK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
              VIVP  QLSLAIG +GQN RLA++LTGW IDI +E +
Sbjct: 303 MARVIVPDYQLSLAIGIKGQNARLAAKLTGWKIDIKSESQ 342


>gi|320103081|ref|YP_004178672.1| NusA antitermination factor [Isosphaera pallida ATCC 43644]
 gi|319750363|gb|ADV62123.1| NusA antitermination factor [Isosphaera pallida ATCC 43644]
          Length = 520

 Score =  288 bits (737), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 164/414 (39%), Positives = 251/414 (60%), Gaps = 39/414 (9%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           L+L +I D +  EK I +D+++  +  +I  AAR  +     + + I+P+T  I   R  
Sbjct: 3   LDLPRIIDTIHREKGIPKDLLIDAIQTAILNAARKFFNDSEGLSITIDPQTLKIDATRGG 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           E V                  DP++              FGR+A Q+AKQ++IQK REAE
Sbjct: 63  ERV------------------DPAV--------------FGRIAAQTAKQIMIQKFREAE 90

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           RD  + EF+ + G++++GTV+R E G V+V+LG +D ++ R E I  E L PGDR+++ +
Sbjct: 91  RDTLFEEFESQKGDLLTGTVQRFEGGAVLVNLGKTDAILPRPEQIPGEALHPGDRIRAVV 150

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           ++V+++ +  +++LSRTHP F+ KLF +E+PEI +  +Q++A++R+ G R K+AV S D 
Sbjct: 151 HEVKKQGQRVKIILSRTHPDFVRKLFELEIPEIADNTIQIRALAREAGYRTKVAVASVDP 210

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +D VGACVG+RGSR++ +  EL  E+IDIV W+      + NAL PA + +V+L   +G
Sbjct: 211 KVDAVGACVGVRGSRIKTITDELGGERIDIVRWNDSLQVLIPNALAPAEIDEVMLCGLLG 270

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE-DSINRQKDFNERTQFFMQA 365
           R  V+V  +QLSLAIGRRGQNVRLAS+L GW I+I+T EE D +      +   Q F Q 
Sbjct: 271 RAIVLVRDDQLSLAIGRRGQNVRLASKLVGWDIEIMTAEELDEV-----IDRAIQMFTQI 325

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISE-IASIEGFDEETAVEIQGRAREYLE 418
             VD  +A  LV +G    ++L+ ++I + +A+IEG D E A+ I   A E  E
Sbjct: 326 EGVDAELAQNLVEQGILSYDDLSVMEIDDLVATIEGLDHERAIRIVEAAEELAE 379


>gi|222099941|ref|YP_002534509.1| N utilization substance protein A [Thermotoga neapolitana DSM 4359]
 gi|221572331|gb|ACM23143.1| N utilization substance protein A [Thermotoga neapolitana DSM 4359]
          Length = 344

 Score =  288 bits (737), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 142/334 (42%), Positives = 227/334 (67%), Gaps = 1/334 (0%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           LL+  D +  EK I ++ V+ ++  ++  A R  +G+  ++ V I+  TG+I +++LLEV
Sbjct: 5   LLEALDQLEEEKGISKEEVIPILEKALVSAYRKNFGSSKNVEVVIDRNTGNIKVYQLLEV 64

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VE VE+ T QISL+ A+  DP+ +IG ++   L   +FGR+A Q+AKQV+IQ++RE E++
Sbjct: 65  VENVEDSTTQISLEEAKKLDPTAEIGSIIKKELDVKNFGRIAAQTAKQVLIQRIRELEKE 124

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
           +Q+ ++ +  G + +  V RV      + +G  +  + + E I  E ++PGD VK YI D
Sbjct: 125 KQFEKYSELKGTVTTAEVIRVTSDWADIRIGKLETRLPKKEWIPGEEIKPGDLVKVYIID 184

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  +GP++L+SR  P+F++ L  +E+PEI NGIV++KA++R+PG R K+AV S++ ++
Sbjct: 185 VVKTTKGPKILVSRRVPEFVIGLMKLEIPEIENGIVEIKAIAREPGVRTKVAVTSNNPNV 244

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           DP+GAC+G  GSR+ A++ EL+ EK+D++ WS D    + NAL PA V +V +LD++   
Sbjct: 245 DPIGACIGEGGSRIAAILRELKGEKLDVLKWSDDPKQLIANALAPATVIEVEILDKENRA 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 305 ARVLVPPTQLSLAIGKGGQNARLAAKLTGWKIDI 338


>gi|206972659|ref|ZP_03233600.1| N utilization substance protein A [Bacillus cereus AH1134]
 gi|218235265|ref|YP_002368617.1| transcription elongation factor NusA [Bacillus cereus B4264]
 gi|228922570|ref|ZP_04085870.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar huazhongensis BGSC 4BD1]
 gi|228954092|ref|ZP_04116121.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar kurstaki str. T03a001]
 gi|228960032|ref|ZP_04121696.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar pakistani str. T13001]
 gi|229047502|ref|ZP_04193092.1| Transcription elongation protein nusA [Bacillus cereus AH676]
 gi|229071314|ref|ZP_04204537.1| Transcription elongation protein nusA [Bacillus cereus F65185]
 gi|229081071|ref|ZP_04213581.1| Transcription elongation protein nusA [Bacillus cereus Rock4-2]
 gi|229111287|ref|ZP_04240840.1| Transcription elongation protein nusA [Bacillus cereus Rock1-15]
 gi|229146387|ref|ZP_04274758.1| Transcription elongation protein nusA [Bacillus cereus BDRD-ST24]
 gi|229152015|ref|ZP_04280210.1| Transcription elongation protein nusA [Bacillus cereus m1550]
 gi|229180092|ref|ZP_04307436.1| Transcription elongation protein nusA [Bacillus cereus 172560W]
 gi|296504311|ref|YP_003666011.1| transcription elongation factor NusA [Bacillus thuringiensis
           BMB171]
 gi|206732416|gb|EDZ49597.1| N utilization substance protein A [Bacillus cereus AH1134]
 gi|218163222|gb|ACK63214.1| N utilization substance protein A [Bacillus cereus B4264]
 gi|228603301|gb|EEK60778.1| Transcription elongation protein nusA [Bacillus cereus 172560W]
 gi|228631364|gb|EEK87998.1| Transcription elongation protein nusA [Bacillus cereus m1550]
 gi|228637020|gb|EEK93479.1| Transcription elongation protein nusA [Bacillus cereus BDRD-ST24]
 gi|228672063|gb|EEL27354.1| Transcription elongation protein nusA [Bacillus cereus Rock1-15]
 gi|228702115|gb|EEL54591.1| Transcription elongation protein nusA [Bacillus cereus Rock4-2]
 gi|228711768|gb|EEL63720.1| Transcription elongation protein nusA [Bacillus cereus F65185]
 gi|228723749|gb|EEL75104.1| Transcription elongation protein nusA [Bacillus cereus AH676]
 gi|228799548|gb|EEM46501.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar pakistani str. T13001]
 gi|228805658|gb|EEM52248.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar kurstaki str. T03a001]
 gi|228836999|gb|EEM82340.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar huazhongensis BGSC 4BD1]
 gi|296325363|gb|ADH08291.1| transcription elongation factor NusA [Bacillus thuringiensis
           BMB171]
          Length = 368

 Score =  288 bits (736), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 148/352 (42%), Positives = 225/352 (63%), Gaps = 10/352 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NPE G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPEVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V++ ++ 
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVYAENTD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ +V EL+ EKIDIV WS D   +V NAL P+ V KV++DE+   
Sbjct: 244 VDPVGSCVGPKGQRVQRIVDELKGEKIDIVRWSNDPVEYVANALSPSQVVKVLVDEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE----------EEDSI 349
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E          EEDS+
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGIVTEEDSV 355


>gi|225374838|ref|ZP_03752059.1| hypothetical protein ROSEINA2194_00459 [Roseburia inulinivorans DSM
           16841]
 gi|225213299|gb|EEG95653.1| hypothetical protein ROSEINA2194_00459 [Roseburia inulinivorans DSM
           16841]
          Length = 390

 Score =  288 bits (736), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 144/343 (41%), Positives = 229/343 (66%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           + A   ELL+  + +  EK+I ++ +L  + +S+  A ++ +G   +++V I+PET +  
Sbjct: 5   IMAKNNELLEALNILEQEKNISKETLLEAIENSLITACKNHFGKSENVKVNIDPETCEYH 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +F+  +VVE+VE+   +ISL  A+  D   ++  +V+  +   +FGR+A Q+AK VI+QK
Sbjct: 65  VFQEKKVVEKVEDPVEEISLVNAKMIDSKYELDDIVNVEVKSKEFGRIATQNAKNVILQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +RE ER   + E+  K  +I++G V+R    NV ++LG  D ++  +E +  E  +P +R
Sbjct: 125 IREEERKVLFDEYYSKEKDIVTGIVQRYVGKNVSINLGKVDAILTENEQVKGEVFQPTER 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K YI +V+   +GP+VL+SRTHP+ + +LF  EV E+ +G V++KA++R+ GSR K+AV
Sbjct: 185 IKVYILEVKSTSKGPRVLVSRTHPELVKRLFESEVAEVKDGTVEIKAIAREAGSRTKIAV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S+D  +DPVGACVGM G+RV A+V ELR EKIDI+ W+ + A  + NAL PA V  V+ 
Sbjct: 245 WSNDPDVDPVGACVGMNGARVNAIVNELRGEKIDIITWNENPAMLIENALSPAKVISVIA 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           D +    +V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 305 DAEEKAAKVVVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSE 347


>gi|291538564|emb|CBL11675.1| transcription termination factor NusA [Roseburia intestinalis
           XB6B4]
          Length = 407

 Score =  288 bits (736), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 145/337 (43%), Positives = 225/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL+  + +  EK+I +D +L  + +S+  A ++ +G+  +++V I+PET +  +F+   
Sbjct: 5   ELLEALNILEQEKNISKDTLLEAIENSLVTACKNHFGSSDNVKVSIDPETCEFHVFQEKT 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE+   QISL  A+  +   +IG V +  +   +FGR+A Q+AK VI+QK+RE ER
Sbjct: 65  VVETVEDPVEQISLVNAKMINSKYEIGDVANIEVQSKEFGRIATQNAKNVILQKIREEER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y ++     ++++G V+R    NV ++LG  D ++  +E +  E  +P +R+K YI 
Sbjct: 125 KVLYDQYYSMEKDVVTGVVQRYVGRNVSINLGRVDAILTENEQVKGEVFQPTERIKVYIL 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP+VL+SRTHP+ + +LF  EV E+  GIV++KA++R+ GSR K+AV+S+D  
Sbjct: 185 EVKATSKGPKVLVSRTHPELVKRLFESEVAEVREGIVEIKAIAREAGSRTKIAVWSNDPD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGM G+RV A+V ELR EKIDI+ W+ + A  + NAL PA V  V+ D +   
Sbjct: 245 VDPVGACVGMNGARVNAIVGELRGEKIDIITWNENPAMMIENALSPAKVISVIADAEEKS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            +V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 305 AKVVVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSE 341


>gi|229086368|ref|ZP_04218545.1| Transcription elongation protein nusA [Bacillus cereus Rock3-44]
 gi|228696980|gb|EEL49788.1| Transcription elongation protein nusA [Bacillus cereus Rock3-44]
          Length = 366

 Score =  288 bits (736), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 144/337 (42%), Positives = 219/337 (64%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NPE G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPEVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV  V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVSNVFDPRLEISVEEARQMNPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++++V+R+ G R+K++V++ ++ 
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEIEVPEIYDGTVEIRSVAREAGDRSKISVYAENTD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ +V EL+ EKIDIV WS D   +V NAL P+ V KV++DED   
Sbjct: 244 VDPVGSCVGPKGQRVQRIVDELKGEKIDIVRWSNDPVEYVANALSPSQVVKVLVDEDEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSE 340


>gi|229191985|ref|ZP_04318955.1| Transcription elongation protein nusA [Bacillus cereus ATCC 10876]
 gi|228591536|gb|EEK49385.1| Transcription elongation protein nusA [Bacillus cereus ATCC 10876]
          Length = 368

 Score =  288 bits (736), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 144/337 (42%), Positives = 220/337 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NPE G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPEVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V++ ++ 
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVYAENTD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ +V EL+ EKIDIV WS D   +V NAL P+ V KV++DE+   
Sbjct: 244 VDPVGSCVGPKGQRVQRIVDELKGEKIDIVRWSNDPVEYVANALSPSQVVKVLVDEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSE 340


>gi|314936573|ref|ZP_07843920.1| transcription termination factor NusA [Staphylococcus hominis
           subsp. hominis C80]
 gi|313655192|gb|EFS18937.1| transcription termination factor NusA [Staphylococcus hominis
           subsp. hominis C80]
          Length = 408

 Score =  287 bits (735), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 149/337 (44%), Positives = 220/337 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   +    E
Sbjct: 5   ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGTFKVIARKE 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   ++ L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDDREEVDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R+K Y+ 
Sbjct: 125 EILYSEFIDKEEDILTGVIDRVDHRYVYVNLGRIEAVLSEAERSPNETYVPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V+S +  
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISVYSENPD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +GSRV+AVV EL  EKIDIV W  D   FV NAL P+ V +V++DED   
Sbjct: 245 IDAVGACVGAKGSRVEAVVEELGGEKIDIVQWDEDPNVFVRNALSPSQVLEVIVDEDNQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 305 TVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 341


>gi|228475002|ref|ZP_04059730.1| transcription termination factor NusA [Staphylococcus hominis
           SK119]
 gi|228270987|gb|EEK12375.1| transcription termination factor NusA [Staphylococcus hominis
           SK119]
          Length = 408

 Score =  287 bits (735), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 149/337 (44%), Positives = 220/337 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   +    E
Sbjct: 5   ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGTFKVIARKE 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   ++ L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDDREEVDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R+K Y+ 
Sbjct: 125 EILYSEFIDKEEDILTGVIDRVDHRYVYVNLGRIEAVLSEAERSPNETYVPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V+S +  
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISVYSENPD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +GSRV+AVV EL  EKIDIV W  D   FV NAL P+ V +V++DED   
Sbjct: 245 IDAVGACVGAKGSRVEAVVEELGGEKIDIVQWDEDPNVFVRNALSPSQVLEVIVDEDNQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 305 TVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 341


>gi|256618850|ref|ZP_05475696.1| transcription termination factor NusA [Enterococcus faecalis ATCC
           4200]
 gi|256598377|gb|EEU17553.1| transcription termination factor NusA [Enterococcus faecalis ATCC
           4200]
          Length = 399

 Score =  287 bits (735), Expect = 3e-75,   Method: Compositional matrix adjust.
 Identities = 147/338 (43%), Positives = 219/338 (64%), Gaps = 1/338 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L   D +  EK I +D V+  +  ++  A +  YG  S++ VE  P+ G+I ++ + E
Sbjct: 4   EMLNALDVLEAEKGIPKDTVIEALQAALVSAYKRHYGQASNVEVEFEPKKGNIHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V EEV +   ++SLK A   + + +IG  +   + P DFGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VTEEVFDSQLEVSLKDAVALNGAYEIGDKIRFEVTPKDFGRIAAQTAKQVILQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF     +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K Y+ 
Sbjct: 124 TIIYNEFSKYENDIMQGIVERQDRRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVYVS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SR+HP  + +LF  E+PE+Y+GIV++ +V+R+ G R+K+AV S+D +
Sbjct: 184 RVENTSKGPQVFVSRSHPDLLKRLFEQEIPEVYDGIVEIVSVAREAGDRSKVAVRSTDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD-EDVG 306
           IDPVG CVG +G RVQA+V EL+ E +DIV W+ D A ++ NAL PA V  V+ D E+  
Sbjct: 244 IDPVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAIYISNALNPAQVLDVIFDPENSK 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              V+VP  QLSLAIG+RGQN RLA++LTG  IDI +E
Sbjct: 304 ACTVVVPDYQLSLAIGKRGQNARLAAKLTGHKIDIKSE 341


>gi|16078723|ref|NP_389542.1| transcription elongation factor NusA [Bacillus subtilis subsp.
           subtilis str. 168]
 gi|221309538|ref|ZP_03591385.1| transcription elongation factor NusA [Bacillus subtilis subsp.
           subtilis str. 168]
 gi|221313862|ref|ZP_03595667.1| transcription elongation factor NusA [Bacillus subtilis subsp.
           subtilis str. NCIB 3610]
 gi|221318785|ref|ZP_03600079.1| transcription elongation factor NusA [Bacillus subtilis subsp.
           subtilis str. JH642]
 gi|221323057|ref|ZP_03604351.1| transcription elongation factor NusA [Bacillus subtilis subsp.
           subtilis str. SMY]
 gi|321315427|ref|YP_004207714.1| transcription elongation factor NusA [Bacillus subtilis BSn5]
 gi|7404400|sp|P32727|NUSA_BACSU RecName: Full=Transcription elongation protein nusA
 gi|2634032|emb|CAB13533.1| transcription translation coupling factor involved in Rho-dependent
           transcription termination [Bacillus subtilis subsp.
           subtilis str. 168]
 gi|291484215|dbj|BAI85290.1| transcription elongation factor NusA [Bacillus subtilis subsp.
           natto BEST195]
 gi|320021701|gb|ADV96687.1| transcription elongation factor NusA [Bacillus subtilis BSn5]
          Length = 371

 Score =  287 bits (735), Expect = 3e-75,   Method: Compositional matrix adjust.
 Identities = 149/337 (44%), Positives = 225/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +++++  +  ++  A +  +    ++RV++N ETG I +F   +
Sbjct: 4   ELLDALTILEKEKGISKEIIIEAIEAALISAYKRNFNQAQNVRVDLNRETGSIRVFARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +IS++ A+   P   +G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDEVYDQRLEISIEEAQGIHPEYMVGDVVEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R++   + V LG  + ++  +E +  E+ +P DR+K YI 
Sbjct: 124 GVIYSEFIDREEDIMTGIVQRLDNKFIYVSLGKIEALLPVNEQMPNESYKPHDRIKVYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+V+R+ G R+K++V + D  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEIEVPEIYDGTVELKSVAREAGDRSKISVRTDDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQA+V EL+ EKIDIV WS D   FV NAL P+ V  V+++E+   
Sbjct: 244 VDPVGSCVGPKGQRVQAIVNELKGEKIDIVNWSSDPVEFVANALSPSKVLDVIVNEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 340


>gi|296330875|ref|ZP_06873350.1| transcription elongation factor NusA [Bacillus subtilis subsp.
           spizizenii ATCC 6633]
 gi|305674393|ref|YP_003866065.1| transcription translation coupling factor involved in Rho-dependent
           transcription termination [Bacillus subtilis subsp.
           spizizenii str. W23]
 gi|296151880|gb|EFG92754.1| transcription elongation factor NusA [Bacillus subtilis subsp.
           spizizenii ATCC 6633]
 gi|305412637|gb|ADM37756.1| transcription translation coupling factor involved in Rho-dependent
           transcription termination [Bacillus subtilis subsp.
           spizizenii str. W23]
          Length = 372

 Score =  287 bits (735), Expect = 3e-75,   Method: Compositional matrix adjust.
 Identities = 149/337 (44%), Positives = 225/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +++++  +  ++  A +  +    ++RV++N ETG I +F   +
Sbjct: 4   ELLDALTILEKEKGISKEIIIEAIEAALISAYKRNFNQAQNVRVDLNRETGSIRVFARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +IS++ A+   P   +G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDEVYDQRLEISIEEAQGIHPEYMVGDVVEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R++   + V LG  + ++  +E +  E+ +P DR+K YI 
Sbjct: 124 GVIYSEFIDREEDIMTGIVQRLDNKFIYVSLGKIEALLPVNEQMPNESYKPHDRIKVYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+V+R+ G R+K++V + D  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEIEVPEIYDGTVELKSVAREAGDRSKISVRTDDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQA+V EL+ EKIDIV WS D   FV NAL P+ V  V+++E+   
Sbjct: 244 VDPVGSCVGPKGQRVQAIVNELKGEKIDIVNWSSDPVEFVANALSPSKVLDVIVNEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 340


>gi|255524231|ref|ZP_05391190.1| NusA antitermination factor [Clostridium carboxidivorans P7]
 gi|296185352|ref|ZP_06853762.1| transcription termination factor NusA [Clostridium carboxidivorans
           P7]
 gi|255512056|gb|EET88337.1| NusA antitermination factor [Clostridium carboxidivorans P7]
 gi|296050186|gb|EFG89610.1| transcription termination factor NusA [Clostridium carboxidivorans
           P7]
          Length = 368

 Score =  287 bits (734), Expect = 3e-75,   Method: Compositional matrix adjust.
 Identities = 145/338 (42%), Positives = 224/338 (66%), Gaps = 4/338 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLF 63
           E ++    +  EK I  D++ + + D++  A +  Y    G   +++V +N E G+I ++
Sbjct: 4   EFIEALKEIVKEKGISEDLLFTTIEDALVAAYKKNYINQGGNNQNVKVTMNRENGEIHVY 63

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
               V++EV +   +ISL+ A+  DP+ DI  VVS  + P  FGRVA Q+AKQV+IQ+++
Sbjct: 64  SQKTVIDEVFDEINEISLEEAKSIDPNYDIDDVVSIEVTPKKFGRVAAQAAKQVVIQRIK 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           E ER   Y +F +K  +II+G V R +  NV+VDLG ++ V+  +E +  E     D++K
Sbjct: 124 EEERRIVYNDFIEKEDDIITGAVIRKDKNNVLVDLGKTEAVLGPNEQMPGEKYNFNDKIK 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            YI +V+   +G Q+++SRTHP  + +LF +EVPEI++G V++K+++R+ GSR K+AV S
Sbjct: 184 LYIVEVKNTTKGAQIVISRTHPGLVKRLFELEVPEIFDGTVEIKSIAREAGSRTKIAVNS 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D ++DP+GACVG +G RVQ +V EL++EKIDI+ WS     ++ NAL PA V  V LDE
Sbjct: 244 NDENVDPMGACVGPKGIRVQNIVNELKNEKIDIIKWSKLPEEYIANALSPAKVIDVTLDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +    +++V   QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 304 ENKFAQIVVDDNQLSLAIGKEGQNVRLAAKLTGWKIDI 341


>gi|70726649|ref|YP_253563.1| transcription elongation factor NusA [Staphylococcus haemolyticus
           JCSC1435]
 gi|68447373|dbj|BAE04957.1| transcription termination-antitermination factor [Staphylococcus
           haemolyticus JCSC1435]
          Length = 410

 Score =  287 bits (734), Expect = 3e-75,   Method: Compositional matrix adjust.
 Identities = 147/337 (43%), Positives = 221/337 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   +    E
Sbjct: 5   ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGTFKVIARKE 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   ++ L  A  ++P+ ++G +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDDRDEVDLSTALVKNPAYEVGDIYEEDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R+K Y+ 
Sbjct: 125 EILYTEFIDKEDDILTGVIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V+S +  
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISVYSDNPD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++DED   
Sbjct: 245 IDAVGACVGAKGARVEAVVEELGGEKIDIVQWNEDPKVFVRNALSPSQVLEVIVDEDNQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 305 TVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 341


>gi|158320557|ref|YP_001513064.1| NusA antitermination factor [Alkaliphilus oremlandii OhILAs]
 gi|158140756|gb|ABW19068.1| NusA antitermination factor [Alkaliphilus oremlandii OhILAs]
          Length = 345

 Score =  287 bits (734), Expect = 4e-75,   Method: Compositional matrix adjust.
 Identities = 139/339 (41%), Positives = 225/339 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E  +  + +  +K I +D+++  +  ++  + +  +G+  ++RVEIN + G++ ++   +
Sbjct: 4   EFTEALEQIEKDKGISKDILIDAVEAALISSYKRNFGSSQNVRVEINRDNGEVHVYAQKK 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           + ++V +   +I +  A+  +P   +G      + P +FGR+A Q+AKQV++Q++REAER
Sbjct: 64  ITDDVIDDLLEIHIDDAKIVNPKYSVGDTFESEVTPKNFGRIAAQTAKQVVVQRIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF ++  EII+G V RV  GNV + LG ++ ++   E I  E    GDR+K YI 
Sbjct: 124 GIVYDEFINRESEIITGEVSRVAKGNVYISLGRTEAILGPGEQIPNEVYEHGDRIKCYIV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V++  +GPQ+LLSRTHP  + +LF +EVPEI++G V++K++SR+ GSRAK+AV S D +
Sbjct: 184 EVKKTTKGPQILLSRTHPGLVKRLFELEVPEIHDGTVEIKSISREAGSRAKIAVDSKDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +D VGACVG +G+RVQ +V EL+ EKIDI+ +S D+  F+ ++L PA V    ++ D   
Sbjct: 244 VDAVGACVGPKGARVQTIVDELKGEKIDIIKYSEDAKEFIASSLSPAKVLLCDINNDAKT 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            +V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E +
Sbjct: 304 AKVVVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQ 342


>gi|148657848|ref|YP_001278053.1| NusA antitermination factor [Roseiflexus sp. RS-1]
 gi|148569958|gb|ABQ92103.1| NusA antitermination factor [Roseiflexus sp. RS-1]
          Length = 442

 Score =  287 bits (734), Expect = 4e-75,   Method: Compositional matrix adjust.
 Identities = 144/329 (43%), Positives = 217/329 (65%), Gaps = 3/329 (0%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMS---DIRVEINPETGDISLFRLLEVVEEV 72
           +A E+ I ++ ++ VM  ++  A R   G      +I V ++P TG   ++   +VV++V
Sbjct: 12  IASERGIPKEAIVEVMEKALATAYRRTLGPNPPPMEISVRLDPVTGMARVYAEKQVVDDV 71

Query: 73  ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYL 132
            +   +I L+ AR   P +++G  V     P DFGR+A Q+AKQVI+Q ++E ER+  Y 
Sbjct: 72  FDERFEIDLESARKIKPDVELGESVVVEATPRDFGRIAAQTAKQVILQGIKEVEREHIYG 131

Query: 133 EFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
           E+ D+ GE+++ TV+R+  GNVI+++G ++ ++   E +  +    G R+K Y+ ++RRE
Sbjct: 132 EYMDREGELVTATVQRIAKGNVILEMGKAEAILPPKEQVETDRYYHGQRLKVYLMEIRRE 191

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            RGP+++ SR H   + +LF MEVPEIYNG V++K+++R+PG R K+AV +    IDPVG
Sbjct: 192 DRGPKLIASRAHKNLITRLFEMEVPEIYNGAVEIKSIAREPGIRTKVAVAARQEGIDPVG 251

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIV 312
           +CVGMRG R+Q +V EL  EKID+V WS +   F+ NAL PA V +V L +D     VIV
Sbjct: 252 SCVGMRGIRIQNIVNELNGEKIDVVQWSSNPKEFIANALSPAQVVEVQLRDDEHAATVIV 311

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           P +QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 312 PDKQLSLAIGKEGQNVRLAAKLTGWRIDI 340


>gi|114566431|ref|YP_753585.1| transcription elongation factor NusA [Syntrophomonas wolfei subsp.
           wolfei str. Goettingen]
 gi|114337366|gb|ABI68214.1| NusA antitermination factor [Syntrophomonas wolfei subsp. wolfei
           str. Goettingen]
          Length = 378

 Score =  287 bits (734), Expect = 4e-75,   Method: Compositional matrix adjust.
 Identities = 142/341 (41%), Positives = 225/341 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L+Q  + +  E+ I +  ++  +  ++  A +  +G   ++ VE N   G++ +F   +
Sbjct: 4   DLVQALNDIEKERGIPKRALIEAIKSALSTAYKKNFGIAQNVSVEFNEINGEVKVFSQKK 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           + +EV++   ++SL+ A++  P   +  +V     P DFGR+A Q+AKQV+IQK+REAER
Sbjct: 64  ISDEVKDPRLEMSLEEAQELYPDCKVEDLVYVEATPSDFGRIAAQTAKQVVIQKLREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF ++ GEII+GT++R+E   V + LG ++G++   + I  E    G R+K+YIY
Sbjct: 124 SLIYEEFLEREGEIITGTIQRLESKTVYISLGRTEGIMMASDQIFGERYEVGQRIKAYIY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP + +SR+HP F+ +LF MEVPEIY+G+V++K+++R+ G+R+K+AV+S D  
Sbjct: 184 EVKNTSKGPNIFVSRSHPYFLRRLFEMEVPEIYDGVVEIKSIAREAGARSKIAVYSLDDK 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG RG RVQ +V+EL  EKIDI+ +  D   ++ NAL P+ V  V ++E    
Sbjct: 244 IDSVGACVGPRGLRVQNIVSELGGEKIDIIKYDKDPERYISNALSPSRVVAVNINETDKI 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
             VIVP  QLSLAIG+ GQN RLA++LTGW +DI +E + S
Sbjct: 304 ARVIVPDYQLSLAIGKEGQNARLAAKLTGWKVDIRSESQMS 344


>gi|228966761|ref|ZP_04127805.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar sotto str. T04001]
 gi|228792860|gb|EEM40418.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar sotto str. T04001]
          Length = 368

 Score =  286 bits (733), Expect = 4e-75,   Method: Compositional matrix adjust.
 Identities = 150/352 (42%), Positives = 223/352 (63%), Gaps = 10/352 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NPE G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPEVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V + +  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVHAENID 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ VV EL+ EKIDIV WS D   +V NAL P+ V KV++DED   
Sbjct: 244 VDPVGSCVGPKGQRVQRVVDELKGEKIDIVRWSNDPVEYVANALSPSQVVKVLVDEDEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE----------EEDSI 349
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E          EEDS+
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGIVTEEDSV 355


>gi|315174358|gb|EFU18375.1| transcription termination factor NusA [Enterococcus faecalis
           TX1346]
          Length = 399

 Score =  286 bits (733), Expect = 4e-75,   Method: Compositional matrix adjust.
 Identities = 146/338 (43%), Positives = 220/338 (65%), Gaps = 1/338 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L   + +  EK I +D V+  +  ++  A +  YG  S++ VE  P+ G+I ++ + E
Sbjct: 4   EMLNALEVLEAEKGIPKDTVIEALQAALVSAYKRHYGQASNVEVEFEPKKGNIHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V EEV +   ++SLK A   + + +IG  +   + P DFGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VTEEVFDSQLEVSLKDAVALNGAYEIGDKIRFEVTPKDFGRIAAQTAKQVILQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF +   +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K Y+ 
Sbjct: 124 TIIYNEFSEYENDIMQGIVERQDRRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVYVS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SR+HP  + +LF  E+PE+Y+GIV++ +V+R+ G R+K+AV S+D +
Sbjct: 184 RVENTSKGPQVFVSRSHPDLLKRLFEQEIPEVYDGIVEIVSVAREAGDRSKVAVRSTDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD-EDVG 306
           IDPVG CVG +G RVQA+V EL+ E +DIV W+ D A ++ NAL PA V  V+ D E+  
Sbjct: 244 IDPVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAIYISNALNPAQVLDVIFDPENSK 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              V+VP  QLSLAIG+RGQN RLA++LTG  IDI +E
Sbjct: 304 ACTVVVPDYQLSLAIGKRGQNARLAAKLTGHKIDIKSE 341


>gi|218898968|ref|YP_002447379.1| N utilization substance protein A [Bacillus cereus G9842]
 gi|228909640|ref|ZP_04073463.1| Transcription elongation protein nusA [Bacillus thuringiensis IBL
           200]
 gi|228940904|ref|ZP_04103463.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar berliner ATCC 10792]
 gi|228973833|ref|ZP_04134409.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar thuringiensis str. T01001]
 gi|228980422|ref|ZP_04140732.1| Transcription elongation protein nusA [Bacillus thuringiensis
           Bt407]
 gi|218542029|gb|ACK94423.1| N utilization substance protein A [Bacillus cereus G9842]
 gi|228779242|gb|EEM27499.1| Transcription elongation protein nusA [Bacillus thuringiensis
           Bt407]
 gi|228785858|gb|EEM33861.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar thuringiensis str. T01001]
 gi|228818740|gb|EEM64806.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar berliner ATCC 10792]
 gi|228849929|gb|EEM94760.1| Transcription elongation protein nusA [Bacillus thuringiensis IBL
           200]
 gi|326941582|gb|AEA17478.1| transcription elongation factor NusA [Bacillus thuringiensis
           serovar chinensis CT-43]
          Length = 368

 Score =  286 bits (733), Expect = 4e-75,   Method: Compositional matrix adjust.
 Identities = 150/352 (42%), Positives = 223/352 (63%), Gaps = 10/352 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NPE G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPEVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V + +  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVHAENID 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ VV EL+ EKIDIV WS D   +V NAL P+ V KV++DED   
Sbjct: 244 VDPVGSCVGPKGQRVQRVVDELKGEKIDIVRWSNDPVEYVANALSPSQVVKVLVDEDEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE----------EEDSI 349
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E          EEDS+
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGIVTEEDSV 355


>gi|153814921|ref|ZP_01967589.1| hypothetical protein RUMTOR_01136 [Ruminococcus torques ATCC 27756]
 gi|145847952|gb|EDK24870.1| hypothetical protein RUMTOR_01136 [Ruminococcus torques ATCC 27756]
          Length = 404

 Score =  286 bits (733), Expect = 5e-75,   Method: Compositional matrix adjust.
 Identities = 139/338 (41%), Positives = 230/338 (68%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +EL++    +  EK+I +DV++  + +S+  A ++ +GT  +I+V ++ +T D +++   
Sbjct: 3   IELMEALTILEKEKNISKDVMMDAIENSLISACKNHFGTSDNIKVIMDRDTCDYAVYAEK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VVEEVE+   +ISL+ A   D ++ +G +   P+   +FGR+A Q+AK +I+QK+RE E
Sbjct: 63  NVVEEVEDPALEISLEEAEKLDSALQVGDIAQIPVHSKEFGRIATQNAKNLILQKIREEE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R   + ++ +K  +I++G V+R    N+ ++LG +D ++  +E +  E+ +P +R+K Y+
Sbjct: 123 RKVVFDQYFEKEKDIVTGVVQRYVGKNISINLGRADAMLTENEQVKGEHFKPTERIKLYV 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V+   +GP++L+SRTHP+ + +LF  EV E+ +G V++K+++R+ GSR K+AV+S+D 
Sbjct: 183 VEVKNTPKGPKILVSRTHPELVKRLFEAEVAEVRDGTVEIKSIAREAGSRTKMAVWSNDP 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           ++DPVGACVGM G+RV AVV ELR EKIDI+ W  + A  + N+L PA V  V+ D +  
Sbjct: 243 NVDPVGACVGMNGARVNAVVQELRGEKIDIINWDENPALLIENSLSPAKVISVMADPEEK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 303 IASVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSE 340


>gi|261407939|ref|YP_003244180.1| NusA antitermination factor [Paenibacillus sp. Y412MC10]
 gi|329929345|ref|ZP_08283098.1| transcription termination factor NusA [Paenibacillus sp. HGF5]
 gi|261284402|gb|ACX66373.1| NusA antitermination factor [Paenibacillus sp. Y412MC10]
 gi|328936714|gb|EGG33157.1| transcription termination factor NusA [Paenibacillus sp. HGF5]
          Length = 365

 Score =  286 bits (733), Expect = 5e-75,   Method: Compositional matrix adjust.
 Identities = 143/340 (42%), Positives = 222/340 (65%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           ++ ++  + +  EK I +DV+   +  ++  + +  + T  ++RV++N  TG I +F   
Sbjct: 3   MDFIEAMNELEREKGISKDVLFEAIEAALISSYKRNFNTAQNVRVDMNRNTGVIKVFARK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            +V+EV +   +ISL  AR+ +P   I  +    + P DFGR+A Q+AKQV+ Q++REAE
Sbjct: 63  LIVDEVLDPRTEISLHAAREINPHFQIEDIAEIEVTPRDFGRIAAQTAKQVVTQRIREAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R   Y  F DK  +I++GT++R +  N+ +DLG  +  +   E +  E  + GDR+K+YI
Sbjct: 123 RGLIYSAFIDKEDDIVTGTLQRQDLRNIYIDLGKIEAALPLTELMPNEKFKHGDRIKAYI 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V    +GPQ++LSRTHP  + +LF +EVPEI++G+V++++V+R+ G R+K+AV+S + 
Sbjct: 183 TKVENTTKGPQIMLSRTHPGLLKRLFELEVPEIFDGVVEIRSVAREAGFRSKIAVYSRND 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVG+CVG +G RVQ +V ELR EKIDIV +S     +V NAL P+ V +V + ED  
Sbjct: 243 EVDPVGSCVGPKGLRVQTIVNELRGEKIDIVRYSDQVEEYVANALSPSKVLEVQVFEDEK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
              VIVP  QLSLAIG +GQN RLA++LTGW IDI +E +
Sbjct: 303 MARVIVPDYQLSLAIGIKGQNARLAAKLTGWKIDIKSESQ 342


>gi|269837284|ref|YP_003319512.1| NusA antitermination factor [Sphaerobacter thermophilus DSM 20745]
 gi|269786547|gb|ACZ38690.1| NusA antitermination factor [Sphaerobacter thermophilus DSM 20745]
          Length = 443

 Score =  286 bits (732), Expect = 6e-75,   Method: Compositional matrix adjust.
 Identities = 155/346 (44%), Positives = 229/346 (66%), Gaps = 9/346 (2%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINP----ETGDISLFRLLEVVEE 71
           +A E++I R+ VLS +  +++   + + GT  ++ V+I+P      G I +F +  VVEE
Sbjct: 12  IAAERNIPREAVLSSVEHALRTVYKKMAGTEEEVEVQIDPTLDPNKGGIRIFVVKRVVEE 71

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
           VE+   +IS++ AR   P   +G V+     P +FGR+A Q+AKQV++Q++R+ ERD  Y
Sbjct: 72  VEDPNTEISVEEARKTHPDAVVGDVIRFDRTPQNFGRIAAQTAKQVVLQRIRDYERDSVY 131

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRR 191
            E+ D+VGE+++G V+R +   VIVDLG ++ V+   E +  E  R G R+K Y+ +V +
Sbjct: 132 AEYIDRVGEVLNGIVQRADPKAVIVDLGKAEAVMPAREQVPNERYRVGQRLKVYLLEVNK 191

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPV 251
           + RGPQ+++SRTH   + +LF +EVPEIY+G V++ AV+R+PG R+K+AV +    +DPV
Sbjct: 192 DTRGPQLIVSRTHANLIRRLFELEVPEIYSGAVEIMAVAREPGLRSKVAVAARQEKVDPV 251

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI 311
           G+CVG+RG R+Q +V EL  EKID++ WSPD+ TF+ NAL PA    V L+E      VI
Sbjct: 252 GSCVGVRGVRIQNIVNELYGEKIDVIEWSPDTPTFIANALSPAKPISVQLNEAEKVARVI 311

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE-----EDSINRQ 352
           VP EQ+SLAIG+ GQN RLA +LTGW IDI   E     +D I RQ
Sbjct: 312 VPTEQMSLAIGKDGQNARLAYKLTGWRIDIKGPEALRGSDDDILRQ 357


>gi|229019010|ref|ZP_04175852.1| Transcription elongation protein nusA [Bacillus cereus AH1273]
 gi|229162752|ref|ZP_04290709.1| Transcription elongation protein nusA [Bacillus cereus R309803]
 gi|228620634|gb|EEK77503.1| Transcription elongation protein nusA [Bacillus cereus R309803]
 gi|228742338|gb|EEL92496.1| Transcription elongation protein nusA [Bacillus cereus AH1273]
          Length = 368

 Score =  286 bits (732), Expect = 6e-75,   Method: Compositional matrix adjust.
 Identities = 148/352 (42%), Positives = 224/352 (63%), Gaps = 10/352 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NPE G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPEVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V++ +  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVYAENID 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ +V EL+ EKIDIV WS D   +V NAL P+ V KV++DE+   
Sbjct: 244 VDPVGSCVGPKGQRVQRIVDELKGEKIDIVRWSNDPVEYVANALSPSQVVKVLVDEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE----------EEDSI 349
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E          EEDS+
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGIVTEEDSV 355


>gi|226323231|ref|ZP_03798749.1| hypothetical protein COPCOM_01003 [Coprococcus comes ATCC 27758]
 gi|225208421|gb|EEG90775.1| hypothetical protein COPCOM_01003 [Coprococcus comes ATCC 27758]
          Length = 393

 Score =  286 bits (732), Expect = 6e-75,   Method: Compositional matrix adjust.
 Identities = 153/337 (45%), Positives = 225/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL+    +  EK I RD ++  + +S+  A ++ +G   +I+V ++ ET D +L +   
Sbjct: 4   ELLEALTILEEEKDISRDTLMDAIENSLINACKNHFGKADNIKVIMDKETCDYTLIQEKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+   QISL  A+  DPS +IG +V  P+    FGR+A Q+AK +I+QK+RE ER
Sbjct: 64  VVEEVEDKVEQISLADAKMIDPSYEIGDIVQIPVESKSFGRIATQNAKNLILQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y ++ +K  +I++G V+R    NV V+LG +D ++  +E +  E   P +R+K Y+ 
Sbjct: 124 KVVYDQYFEKEKDIVTGVVQRYIGKNVSVNLGKADAILTENEQVKGEKFEPTERIKLYVV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP++L+SRTHP+ + +LF  EV E+ +GIV++K+++R+ GSR K+AV+S+D  
Sbjct: 184 EVKNTTKGPKILVSRTHPELVKRLFEAEVTEVRDGIVEIKSIAREAGSRTKIAVWSNDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGM G+RV AVV ELR EKIDI+ WS + A  + NAL PA V  V+ D D   
Sbjct: 244 VDPVGACVGMNGARVGAVVNELRGEKIDIINWSDNPAILIENALSPAKVISVMADPDERT 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+ GQN RLA++LTG+ IDI  E
Sbjct: 304 ASVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKNE 340


>gi|317500433|ref|ZP_07958657.1| transcription termination factor NusA [Lachnospiraceae bacterium
           8_1_57FAA]
 gi|331089560|ref|ZP_08338459.1| transcription termination factor NusA [Lachnospiraceae bacterium
           3_1_46FAA]
 gi|316898188|gb|EFV20235.1| transcription termination factor NusA [Lachnospiraceae bacterium
           8_1_57FAA]
 gi|330404928|gb|EGG84466.1| transcription termination factor NusA [Lachnospiraceae bacterium
           3_1_46FAA]
          Length = 404

 Score =  286 bits (732), Expect = 6e-75,   Method: Compositional matrix adjust.
 Identities = 139/337 (41%), Positives = 229/337 (67%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL++    +  EK+I +DV++  + +S+  A ++ +GT  +I+V ++ +T D +++    
Sbjct: 4   ELMEALTILEKEKNISKDVMMDAIENSLISACKNHFGTSDNIKVIMDRDTCDYAVYAEKN 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+   +ISL+ A   D ++ +G +   P+   +FGR+A Q+AK +I+QK+RE ER
Sbjct: 64  VVEEVEDPALEISLEEAEKLDSALQVGDIAQIPVHSKEFGRIATQNAKNLILQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              + ++ +K  +I++G V+R    N+ ++LG +D ++  +E +  E+ +P +R+K Y+ 
Sbjct: 124 KVVFDQYFEKEKDIVTGVVQRYVGKNISINLGRADAMLTENEQVKGEHFKPTERIKLYVV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP++L+SRTHP+ + +LF  EV E+ +G V++K+++R+ GSR K+AV+S+D +
Sbjct: 184 EVKNTPKGPKILVSRTHPELVKRLFEAEVAEVRDGTVEIKSIAREAGSRTKMAVWSNDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGM G+RV AVV ELR EKIDI+ W  + A  + N+L PA V  V+ D +   
Sbjct: 244 VDPVGACVGMNGARVNAVVQELRGEKIDIINWDENPALLIENSLSPAKVISVMADPEEKI 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 304 ASVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSE 340


>gi|52080267|ref|YP_079058.1| transcription elongation factor NusA [Bacillus licheniformis ATCC
           14580]
 gi|52785644|ref|YP_091473.1| transcription elongation factor NusA [Bacillus licheniformis ATCC
           14580]
 gi|319645953|ref|ZP_08000183.1| transcription elongation protein nusA [Bacillus sp. BT1B_CT2]
 gi|52003478|gb|AAU23420.1| NusA [Bacillus licheniformis ATCC 14580]
 gi|52348146|gb|AAU40780.1| NusA [Bacillus licheniformis ATCC 14580]
 gi|317391703|gb|EFV72500.1| transcription elongation protein nusA [Bacillus sp. BT1B_CT2]
          Length = 372

 Score =  286 bits (731), Expect = 8e-75,   Method: Compositional matrix adjust.
 Identities = 147/337 (43%), Positives = 224/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV++N +TG I +F   +
Sbjct: 4   ELLDALTVLEKEKGISKDIIIEAIEAALISAYKRNFNQAQNVRVDLNRDTGSIRVFARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +IS++ A + +P+  +G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDEVYDPRLEISIEDAVNINPNYIVGDVVEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R++   + V LG  + ++   E +  E  +P DR+K +I 
Sbjct: 124 GVIYSEFIDREEDIMTGIVQRIDNKFIYVSLGKIEALLPVAEQMPNEVYKPHDRIKVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+V+R+ G R+K++V + +  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEIEVPEIYDGTVELKSVAREAGDRSKISVRTDNPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVGACVG +G RVQA+V EL+ EKIDIV WS D   FV NAL P+ V  V+++E+   
Sbjct: 244 IDPVGACVGPKGQRVQAIVNELKGEKIDIVHWSNDPVEFVANALSPSKVLDVIVNEEDKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LT W IDI +E
Sbjct: 304 TTVVVPDYQLSLAIGKRGQNARLAAKLTSWKIDIKSE 340


>gi|194014307|ref|ZP_03052924.1| transcription termination factor NusA [Bacillus pumilus ATCC 7061]
 gi|194013333|gb|EDW22898.1| transcription termination factor NusA [Bacillus pumilus ATCC 7061]
          Length = 371

 Score =  285 bits (730), Expect = 9e-75,   Method: Compositional matrix adjust.
 Identities = 147/337 (43%), Positives = 225/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +++++  +  ++  A +  +    ++RV++N ETG I +F   +
Sbjct: 4   ELLDALTVLEKEKGISKEIIIEAIEAALISAYKRNFNQAQNVRVDLNRETGTIRVFARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +IS+  A + +P+  +G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDEVYDSRLEISVDDAANMNPNYMVGDVVEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R++   + V LG  + ++  +E +  E+ +P DR+K +I 
Sbjct: 124 GVIYTEFIDREEDIMTGIVQRIDSKFIYVSLGKIEALLPVNEQMPNEDYKPHDRIKVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+V+R+ G R+K++V + D  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEIEVPEIYDGTVELKSVAREAGDRSKISVRTDDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQA+V EL+ EKIDIV WS D   FV NAL P+ V  V+++E+   
Sbjct: 244 VDPVGSCVGPKGQRVQAIVNELKGEKIDIVHWSNDPVEFVANALSPSKVLDVIVNEEDKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+RGQN RLA++LT W IDI +E
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTSWKIDIKSE 340


>gi|167465394|ref|ZP_02330483.1| transcription elongation factor NusA [Paenibacillus larvae subsp.
           larvae BRL-230010]
 gi|322382349|ref|ZP_08056256.1| transcription elongation factor NusA-like protein [Paenibacillus
           larvae subsp. larvae B-3650]
 gi|321153702|gb|EFX46077.1| transcription elongation factor NusA-like protein [Paenibacillus
           larvae subsp. larvae B-3650]
          Length = 365

 Score =  285 bits (730), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 147/337 (43%), Positives = 222/337 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E ++    +  EK I +D+++  +  ++  + +  + T  ++RV+IN +TG I +F    
Sbjct: 4   EFIEALSEIEREKGISKDLLIDAIEAAMISSYKRNFNTAQNVRVDINRQTGVIRVFARKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE+V +   +ISL  AR+ + +  +G +V   + P DFGR+A Q+AKQV+ Q++REAER
Sbjct: 64  VVEDVLDPRLEISLTAAREINQNYQLGDIVEIEVTPRDFGRIAAQTAKQVVTQRIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  F DK  +I++G V+R +  +  VDLG  + V+  +E +  E  + GDRVK+YI 
Sbjct: 124 GLIYNAFIDKEEDIVTGIVQRQDQRSYYVDLGKVEAVLPLNEVMPTEKFKHGDRVKAYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQ++LSRTHP  + +LF +EVPEI++G+V++++V+R+ G R+K+AV S +  
Sbjct: 184 KVENTTKGPQIILSRTHPGLLKRLFELEVPEIFDGVVEIRSVAREAGFRSKIAVDSRNEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ +V ELR EKIDIV W   +  +V NAL P+ V +V + ED   
Sbjct: 244 VDPVGSCVGPKGLRVQTIVNELRGEKIDIVRWMESTEEYVANALSPSKVLEVNIFEDEKM 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG +GQN RLA++LTGW IDI +E
Sbjct: 304 ARVIVPDYQLSLAIGIKGQNARLAAKLTGWKIDIKSE 340


>gi|160947563|ref|ZP_02094730.1| hypothetical protein PEPMIC_01498 [Parvimonas micra ATCC 33270]
 gi|158446697|gb|EDP23692.1| hypothetical protein PEPMIC_01498 [Parvimonas micra ATCC 33270]
          Length = 378

 Score =  285 bits (730), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 138/334 (41%), Positives = 220/334 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           + L+  D +  EK + ++++   +  ++ K+    +G   ++++ IN  TG + LF +  
Sbjct: 13  DFLRALDEIEREKGVSKEIIFDSLEKALLKSYEKNFGEYENVKININRTTGKVELFAIKT 72

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE+   +ISL  A+       +G  VS  L  MDFGRVA Q+A+ ++IQK+++AER
Sbjct: 73  VVEVVEDNITEISLDDAKAISTKYSLGDEVSIKLKTMDFGRVAAQTARNIVIQKIKDAER 132

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y +F+DK  E+ISG ++R++  N+ ++LG  + ++   E I  E  R G+R+K Y+ 
Sbjct: 133 EVIYNDFQDKERELISGQIQRIDRNNLFINLGKLEAIVTPPEQIKSEVYRVGERLKFYVK 192

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +G QVLLSR+   F++KLF +EVPEI +G V++++++R+PGSR K+AVFS +  
Sbjct: 193 EVKNTPKGAQVLLSRSDVNFVLKLFELEVPEILDGTVEIQSIAREPGSRTKIAVFSKNDD 252

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG + SRV +++ EL+ EKIDI+V+S +   ++ N+L P+ V  V  +E   R
Sbjct: 253 VDPVGACVGYKRSRVSSIIKELKGEKIDIIVYSKNVKEYLSNSLSPSEVIAVFTNESENR 312

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             +IVP  QLSLAIG+ GQN RLA++LT W IDI
Sbjct: 313 ARIIVPDSQLSLAIGKEGQNARLAAKLTNWRIDI 346


>gi|168184627|ref|ZP_02619291.1| N utilization substance protein A [Clostridium botulinum Bf]
 gi|237795857|ref|YP_002863409.1| transcription elongation factor NusA [Clostridium botulinum Ba4
           str. 657]
 gi|182672266|gb|EDT84227.1| N utilization substance protein A [Clostridium botulinum Bf]
 gi|229261617|gb|ACQ52650.1| N utilization substance protein A [Clostridium botulinum Ba4 str.
           657]
          Length = 439

 Score =  285 bits (730), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 148/360 (41%), Positives = 244/360 (67%), Gaps = 9/360 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLF 63
           E ++    +  EK I  D++ + + D++  A +  Y    G+ ++++V +N E G+I ++
Sbjct: 4   EFVEALKEIVKEKGISADLLFTTIEDALVTAYKKNYAKQGGSTNNVKVIMNRENGEIKVY 63

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
              +VV+ VE    +ISL+ A++ DP+ ++  +++  + P  FGR+A Q+AKQV+IQ+++
Sbjct: 64  AQKKVVDFVEEEVEEISLEDAKEIDPNYELEDIINIEVTPKKFGRIAAQAAKQVVIQRIK 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           E ER   Y E+ +K  +I++GTV R + GN+++++G S+ V+  +E I  E  R  +++K
Sbjct: 124 EEERRIVYNEYIEKEEDILTGTVLRKDKGNILINVGKSEAVLGPNEQIPGEQFRFNEKIK 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            Y+ +V+   +GPQVL+SRTHP  + +LF +EVPEIYNGIV++K+++R+ GSR K+AV+S
Sbjct: 184 LYVVEVKNTTKGPQVLISRTHPGLVKRLFELEVPEIYNGIVEIKSIAREAGSRTKIAVYS 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLD 302
           +D ++DP+GACVG +G RVQ +V EL++EKIDI+ WS      + NAL PA V  V ++D
Sbjct: 244 NDEAVDPMGACVGPKGVRVQNIVNELKNEKIDIIKWSKFPDELICNALSPAKVIDVTIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT----EEEDSINRQKDFNER 358
           E+    +V+V   QLSLAIG+ GQNVRLA++LTGW IDI +    E+E ++N  +  +E+
Sbjct: 304 EENKAAKVVVDDSQLSLAIGKEGQNVRLAAKLTGWKIDIKSKSQAEKEGTLNSSETKDEK 363


>gi|331002483|ref|ZP_08326001.1| transcription termination factor NusA [Lachnospiraceae oral taxon
           107 str. F0167]
 gi|330410299|gb|EGG89733.1| transcription termination factor NusA [Lachnospiraceae oral taxon
           107 str. F0167]
          Length = 395

 Score =  285 bits (730), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 146/333 (43%), Positives = 220/333 (66%), Gaps = 6/333 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE------VE 73
           K+I +  +L  + +S+  A ++ +GT  +++V +NP+T D S+ +  EVVE       +E
Sbjct: 16  KNISKAAILEAIENSLISACKNNFGTADNVKVSVNPDTCDYSIIQAKEVVETLGNKPTIE 75

Query: 74  NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
           +   +ISL  AR ++P++ +G  V  P+   +FGR+A   AK VI+QK+RE ER   + +
Sbjct: 76  DKATKISLAEARMKNPNLSVGDTVLVPVISKEFGRIAAGVAKNVILQKIREEERKVIFND 135

Query: 134 FKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
           +  K  +I+SG V R    N+ ++LG  D V+   E +  E L+ GDR+K ++ +V+   
Sbjct: 136 YYMKERDIVSGAVTRFMGKNIAINLGRIDAVLAESEQVKSEELKLGDRLKVFVLEVKDNP 195

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
           +GP++ +SRTHP+F+ +LF  EVPEI +G+V++K++SR+ GSR K+AVFS ++ IDPVGA
Sbjct: 196 KGPRISVSRTHPEFVKRLFESEVPEIRDGVVEIKSISREAGSRTKIAVFSHEADIDPVGA 255

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVP 313
           CVG+ G RV AVV ELR EK+DIV W  +    + NAL PA V  VV DE+    +VIVP
Sbjct: 256 CVGVDGVRVNAVVEELRGEKVDIVNWDDNPGYLIENALSPAKVIAVVADEETKEADVIVP 315

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             QLSLAIG+ GQN RLA++LTG+ IDI +E +
Sbjct: 316 DYQLSLAIGKEGQNARLAARLTGYKIDIKSESQ 348


>gi|242373557|ref|ZP_04819131.1| transcription elongation factor NusA [Staphylococcus epidermidis
           M23864:W1]
 gi|242348920|gb|EES40522.1| transcription elongation factor NusA [Staphylococcus epidermidis
           M23864:W1]
          Length = 403

 Score =  285 bits (730), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 147/337 (43%), Positives = 222/337 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   +    E
Sbjct: 5   ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGSFRVIARKE 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   ++ L  A  ++P+ ++G +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDDREEVDLSTALVKNPAYEVGDIYEEDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E+  P +R+K Y+ 
Sbjct: 125 EILYDEFIDKEEDILTGVIDRVDHRYVYVNLGRIEAVLSEAERSPNESYIPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V+S +  
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISVYSENPD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++DED   
Sbjct: 245 IDAVGACVGSKGARVEAVVEELGGEKIDIVQWNEDPKVFVRNALSPSQVLEVIVDEDNQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 305 TVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 341


>gi|163941553|ref|YP_001646437.1| transcription elongation factor NusA [Bacillus weihenstephanensis
           KBAB4]
 gi|229061419|ref|ZP_04198764.1| Transcription elongation protein nusA [Bacillus cereus AH603]
 gi|229134623|ref|ZP_04263433.1| Transcription elongation protein nusA [Bacillus cereus BDRD-ST196]
 gi|229168555|ref|ZP_04296278.1| Transcription elongation protein nusA [Bacillus cereus AH621]
 gi|163863750|gb|ABY44809.1| NusA antitermination factor [Bacillus weihenstephanensis KBAB4]
 gi|228614961|gb|EEK72063.1| Transcription elongation protein nusA [Bacillus cereus AH621]
 gi|228648884|gb|EEL04909.1| Transcription elongation protein nusA [Bacillus cereus BDRD-ST196]
 gi|228717842|gb|EEL69490.1| Transcription elongation protein nusA [Bacillus cereus AH603]
          Length = 368

 Score =  285 bits (729), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 149/352 (42%), Positives = 223/352 (63%), Gaps = 10/352 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NPE G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPEVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V++ +  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVYAENID 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ VV EL+ EKIDIV WS D   +V NAL P+ V KV++DE    
Sbjct: 244 VDPVGSCVGPKGQRVQRVVDELKGEKIDIVRWSNDPVEYVANALSPSQVVKVLVDEAEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE----------EEDSI 349
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E          EEDS+
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGIVTEEDSV 355


>gi|160880908|ref|YP_001559876.1| NusA antitermination factor [Clostridium phytofermentans ISDg]
 gi|160429574|gb|ABX43137.1| NusA antitermination factor [Clostridium phytofermentans ISDg]
          Length = 354

 Score =  285 bits (729), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 148/341 (43%), Positives = 225/341 (65%), Gaps = 2/341 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL++  + +  EK I ++V+L  M +S+  A ++ +G   +I+V I+  TG +S+F    
Sbjct: 6   ELIEALNQIEKEKDISKEVLLDAMENSLVAACKNHFGKADNIKVYIDRTTGAVSVFAERV 65

Query: 68  VVEEVENYTCQISLKVARDRDPS--IDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VVE+V++   +ISL  A  + P    ++G +V   + P +FGR+A Q AKQV++QK+RE 
Sbjct: 66  VVEQVQDPVLEISLAEATMKFPKGKYELGDIVQVEVTPKNFGRIAAQKAKQVVVQKIREE 125

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   + ++  +  +I++G V+R    NV ++LG  D V+  +E I  E+ RP DR+K Y
Sbjct: 126 ERKVLFNQYYGREKDIVTGIVQRYVGNNVSINLGKVDAVLMENEQIKGEHFRPTDRIKLY 185

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V+   +GP++ +SRTHP+ + +LF  EV E+  GIV++K++SR+ G R K+AV S+D
Sbjct: 186 VLEVKDTTKGPKITVSRTHPELVKRLFEAEVTEVKEGIVEIKSISREAGDRTKMAVSSND 245

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVGACVG+ G+RV A+V EL  EKIDIV WS D A  + NAL PA V  V + E  
Sbjct: 246 PNVDPVGACVGLNGARVNAIVNELGGEKIDIVNWSDDPAELIENALSPAKVVSVDVSEGE 305

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
              +VIVP  QLSLAIGR+GQN RLA++LTG+ IDI +E +
Sbjct: 306 MSAKVIVPDYQLSLAIGRQGQNARLAARLTGYKIDIKSESQ 346


>gi|116624262|ref|YP_826418.1| NusA antitermination factor [Candidatus Solibacter usitatus
           Ellin6076]
 gi|116227424|gb|ABJ86133.1| NusA antitermination factor [Candidatus Solibacter usitatus
           Ellin6076]
          Length = 542

 Score =  285 bits (729), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 164/411 (39%), Positives = 249/411 (60%), Gaps = 12/411 (2%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           + Q  + ++ EK ID  +VL  + D++  AAR  Y +  D   +++P+TG I L+ + +V
Sbjct: 26  IFQSIEILSKEKGIDPQIVLDAVKDAMLIAARKHYRSTEDYVADMDPKTGAIKLYAVKKV 85

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VE VE+ + +++L  AR  D + ++GG V  P      GR++ Q+AKQVI QKVREAER+
Sbjct: 86  VEAVEDPSHEMTLAEARRIDSTAEVGGEVRIPKNTDALGRISAQTAKQVIFQKVREAERE 145

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
             + E+  + GE+++ T+KRVE  + I+DLG ++  + + E    E    GDRV+  I  
Sbjct: 146 TVFNEYSGRTGELVNCTIKRVEGPDYILDLGKTEAKLPKKEQSRLEGYSVGDRVRCIIKL 205

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  +GP VL+SR  P+ +++LF  EVPEIY+G V ++  +R+ G R K+AV S D  +
Sbjct: 206 VDKSSKGPGVLVSRAAPELVMRLFEQEVPEIYDGTVAIRGCAREAGERTKIAVQSRDRDV 265

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           D VGACVGM+G RVQ+++ ELR EKIDI+ +S DS  F  +AL PA V+++ V+D     
Sbjct: 266 DSVGACVGMKGMRVQSIIRELRGEKIDIIEYSEDSVVFATHALSPAKVSRITVIDPLEKH 325

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           +EVIV   QLSLAIG++GQNVRLA++L GW IDI +EEE    RQ+  ++          
Sbjct: 326 MEVIVDDSQLSLAIGKKGQNVRLAAKLLGWKIDIKSEEE---KRQEVESQMAALVAPGAP 382

Query: 368 VDEIIAHLLVAE--------GFADVEELACVKISEIASIEGFDEETAVEIQ 410
           V  +I + +  E        G A +E+L  +   E+  + G   E+   IQ
Sbjct: 383 VSVLIDYGMAEEMAVKLLENGVATIEKLGAMTPEELEVLPGIGPESVEGIQ 433


>gi|223044244|ref|ZP_03614281.1| transcription termination factor NusA [Staphylococcus capitis SK14]
 gi|222442394|gb|EEE48502.1| transcription termination factor NusA [Staphylococcus capitis SK14]
          Length = 407

 Score =  285 bits (729), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 147/337 (43%), Positives = 223/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   +    E
Sbjct: 5   ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGSFRVIARKE 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   ++ L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDDRDEVDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E+  P +R+K Y+ 
Sbjct: 125 EILYDEFIDKEEDILTGVIDRVDHRYVYVNLGRIEAVLSEAERSPNESYIPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V+S ++ 
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISVYSDNAD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++DE+   
Sbjct: 245 IDAVGACVGSKGARVEAVVEELGGEKIDIVQWNEDPKVFVRNALSPSQVLEVIVDEENQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 305 TIVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 341


>gi|227551756|ref|ZP_03981805.1| transcription termination factor NusA [Enterococcus faecium TX1330]
 gi|257895648|ref|ZP_05675301.1| transcription termination factor NusA [Enterococcus faecium Com12]
 gi|293377741|ref|ZP_06623930.1| transcription termination factor NusA [Enterococcus faecium PC4.1]
 gi|227179061|gb|EEI60033.1| transcription termination factor NusA [Enterococcus faecium TX1330]
 gi|257832213|gb|EEV58634.1| transcription termination factor NusA [Enterococcus faecium Com12]
 gi|292643741|gb|EFF61862.1| transcription termination factor NusA [Enterococcus faecium PC4.1]
          Length = 391

 Score =  285 bits (729), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 150/362 (41%), Positives = 229/362 (63%), Gaps = 3/362 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L   DA+  EK I +++V+  +  ++  A +  YG   ++ VE + + G I ++ + E
Sbjct: 4   EMLNALDALEAEKGISKEIVIDALEAALVSAYKRHYGQAQNVEVEFDQKKGKIHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V EEV +   ++SLK A   +P+ +IG  +   + P DFGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VTEEVMDSQLEVSLKDALLINPAYEIGDTIRFEVTPKDFGRIAAQTAKQVILQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF     +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K Y+ 
Sbjct: 124 TIIYNEFSAYEKDIMQGIVERQDKRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVYVS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SR+HP  + +LF  EVPE+Y+GIV++ +++R+ G R+K+AV S+D +
Sbjct: 184 RVENTSKGPQVFVSRSHPDLLRRLFEQEVPEVYDGIVEIVSIAREAGDRSKVAVRSNDQN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VG CVG +G RVQA+V EL+ E +DIV W+ D A F+ NAL PA V  V+ DE   +
Sbjct: 244 IDAVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAVFIANALNPAQVMDVIFDETNPK 303

Query: 308 -IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE--DSINRQKDFNERTQFFMQ 364
              V+VP  QLSLAIG+RGQN RLA++LT   IDI +E +  +   +Q+  NE  +   +
Sbjct: 304 ACTVVVPDYQLSLAIGKRGQNARLAAKLTNHKIDIKSESDMAEFYEKQEHQNETEELHDE 363

Query: 365 AI 366
           AI
Sbjct: 364 AI 365


>gi|313680244|ref|YP_004057983.1| nusa antitermination factor [Oceanithermus profundus DSM 14977]
 gi|313152959|gb|ADR36810.1| NusA antitermination factor [Oceanithermus profundus DSM 14977]
          Length = 401

 Score =  285 bits (729), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 153/354 (43%), Positives = 221/354 (62%), Gaps = 11/354 (3%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD---------IRVEINP 55
           NR E ++    VA E+ +  D ++    +++ KA     G             + V + P
Sbjct: 2   NR-EFVEALQHVALERGVSTDELIEAFEEALAKAYLRHKGFKPKEVEEGLGPLVEVHLEP 60

Query: 56  ETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAK 115
            TG+I +  +  VVEEVEN    I L+ A+  DP + +G  +  P+ P +F R+AVQ+AK
Sbjct: 61  STGEIEVLEIRRVVEEVENPDRDIPLEEAKKYDPEVQVGEEMEFPVDPDEFSRIAVQAAK 120

Query: 116 QVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRE 174
           Q++ Q+++EAER+R Y E+KD+ GEII+G V RV+  GNV VDLG  + ++   E I  E
Sbjct: 121 QILTQRLKEAERNRVYEEYKDREGEIITGQVTRVDNRGNVYVDLGRGEALMPPREQIPGE 180

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
              PG RVK Y+ +VRR  +GP +++SR H + +  L   EVPEI  G V++K V+R+PG
Sbjct: 181 RYHPGQRVKVYLKEVRRSSKGPSLIVSRAHEELLKYLMRQEVPEIAEGTVEIKVVAREPG 240

Query: 235 SRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA 294
           SR+K+AV S + ++DP+GAC+G +G R+QAV  EL  EKID++ WS +   F+ NAL PA
Sbjct: 241 SRSKVAVVSHNPNVDPIGACIGHKGQRIQAVSAELGREKIDVIPWSSNPREFIRNALSPA 300

Query: 295 IVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
            V  + +D + GR  V V K+Q S+AIGR GQNVRLAS+LTG+ ID    EE S
Sbjct: 301 TVGNIEIDTEAGRAVVSVGKDQHSVAIGRGGQNVRLASKLTGFEIDFKEAEEVS 354


>gi|153938223|ref|YP_001391719.1| transcription elongation factor NusA [Clostridium botulinum F str.
           Langeland]
 gi|152934119|gb|ABS39617.1| N utilization substance protein A [Clostridium botulinum F str.
           Langeland]
 gi|295319745|gb|ADG00123.1| N utilization substance protein A [Clostridium botulinum F str.
           230613]
          Length = 439

 Score =  285 bits (729), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 148/360 (41%), Positives = 244/360 (67%), Gaps = 9/360 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLF 63
           E ++    +  EK I  D++ + + D++  A +  Y    G+ ++++V +N E G+I ++
Sbjct: 4   EFVEALREIVKEKGISADLLFTTIEDALVTAYKKNYAKQGGSTNNVKVIMNRENGEIKVY 63

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
              +VV+ VE    +ISL+ A++ DP+ ++  +++  + P  FGR+A Q+AKQV+IQ+++
Sbjct: 64  AQKKVVDFVEEEVEEISLEDAKEIDPNYELEDIINIEVTPKKFGRIAAQAAKQVVIQRIK 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           E ER   Y E+ +K  +I++GTV R + GN+++++G S+ V+  +E I  E  R  +++K
Sbjct: 124 EEERRIVYNEYIEKEEDILTGTVLRKDKGNILINVGKSEAVLGPNEQIPGEQFRFNEKIK 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            Y+ +V+   +GPQVL+SRTHP  + +LF +EVPEIYNGIV++K+++R+ GSR K+AV+S
Sbjct: 184 LYVVEVKNTTKGPQVLISRTHPGLVKRLFELEVPEIYNGIVEIKSIAREAGSRTKIAVYS 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLD 302
           +D ++DP+GACVG +G RVQ +V EL++EKIDI+ WS      + NAL PA V  V ++D
Sbjct: 244 NDEAVDPMGACVGPKGVRVQNIVNELKNEKIDIIKWSKFPDELICNALSPAKVIDVTIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT----EEEDSINRQKDFNER 358
           E+    +V+V   QLSLAIG+ GQNVRLA++LTGW IDI +    E+E ++N  +  +E+
Sbjct: 304 EENKAAKVVVDDSQLSLAIGKEGQNVRLAAKLTGWKIDIKSKSQAEKEGTLNSSETKDEK 363


>gi|257887083|ref|ZP_05666736.1| transcription termination factor NusA [Enterococcus faecium
           1,141,733]
 gi|257823137|gb|EEV50069.1| transcription termination factor NusA [Enterococcus faecium
           1,141,733]
          Length = 391

 Score =  285 bits (729), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 150/362 (41%), Positives = 229/362 (63%), Gaps = 3/362 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L   DA+  EK I +++V+  +  ++  A +  YG   ++ VE + + G I ++ + E
Sbjct: 4   EMLNALDALEAEKGISKEIVIDALEAALVSAYKRHYGQAQNVEVEFDQKKGKIHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V EEV +   ++SLK A   +P+ +IG  +   + P DFGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VTEEVMDSQLEVSLKDALLINPAYEIGDTIRFEVTPKDFGRIAAQTAKQVILQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF     +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K Y+ 
Sbjct: 124 TIIYNEFSAYEKDIMQGIVERQDKRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVYVS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SR+HP  + +LF  EVPE+Y+GIV++ +++R+ G R+K+AV S+D +
Sbjct: 184 RVENTSKGPQVFVSRSHPDLLRRLFEQEVPEVYDGIVEIVSIAREAGDRSKVAVRSNDQN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VG CVG +G RVQA+V EL+ E +DIV W+ D A F+ NAL PA V  V+ DE   +
Sbjct: 244 IDAVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAVFIANALNPAQVMDVIFDETNPK 303

Query: 308 -IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE--DSINRQKDFNERTQFFMQ 364
              V+VP  QLSLAIG+RGQN RLA++LT   IDI +E +  +   +Q+  NE  +   +
Sbjct: 304 ACTVVVPDYQLSLAIGKRGQNARLAAKLTNHKIDIKSESDMAEFYEKQEQQNETEELHDE 363

Query: 365 AI 366
           AI
Sbjct: 364 AI 365


>gi|289550942|ref|YP_003471846.1| Transcription termination protein NusA [Staphylococcus lugdunensis
           HKU09-01]
 gi|289180474|gb|ADC87719.1| Transcription termination protein NusA [Staphylococcus lugdunensis
           HKU09-01]
          Length = 387

 Score =  285 bits (729), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 146/337 (43%), Positives = 219/337 (64%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   +     
Sbjct: 5   ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGTFKVVARKS 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV ++  ++ L  A  ++P+ ++G +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVSDHRDEVDLSTALVKNPAYEVGDIYEEDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R+K Y+ 
Sbjct: 125 EILYDEFVDKEDDILTGLIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V+S +  
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISVYSENPD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV W  D   FV NAL P+ V +V++DE    
Sbjct: 245 IDAVGACVGAKGARVEAVVEELGGEKIDIVQWDEDPKVFVKNALSPSQVLEVIVDESNQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 305 TVVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 341


>gi|315658444|ref|ZP_07911316.1| transcription termination factor NusA [Staphylococcus lugdunensis
           M23590]
 gi|315496773|gb|EFU85096.1| transcription termination factor NusA [Staphylococcus lugdunensis
           M23590]
          Length = 387

 Score =  285 bits (729), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 146/337 (43%), Positives = 219/337 (64%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   +     
Sbjct: 5   ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGTFKVVARKS 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV ++  ++ L  A  ++P+ ++G +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVSDHRDEVDLSTALVKNPAYEVGDIYEEDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R+K Y+ 
Sbjct: 125 EILYDEFVDKEDDILTGLIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V+S +  
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISVYSENPD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV W  D   FV NAL P+ V +V++DE    
Sbjct: 245 IDAVGACVGAKGARVEAVVEELGGEKIDIVQWDEDPKVFVKNALSPSQVLEVIVDESNQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 305 TVVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 341


>gi|293570613|ref|ZP_06681664.1| transcription termination factor NusA [Enterococcus faecium E980]
 gi|291609284|gb|EFF38555.1| transcription termination factor NusA [Enterococcus faecium E980]
          Length = 391

 Score =  285 bits (729), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 150/362 (41%), Positives = 229/362 (63%), Gaps = 3/362 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L   DA+  EK I +++V+  +  ++  A +  YG   ++ VE + + G I ++ + E
Sbjct: 4   EMLNALDALEAEKGISKEIVIDALEAALVSAYKRHYGQAQNVEVEFDQKKGKIHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V EEV +   ++SLK A   +P+ +IG  +   + P DFGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VTEEVMDSQLEVSLKDALLINPAYEIGDTIRFEVTPKDFGRIAAQTAKQVILQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF     +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K Y+ 
Sbjct: 124 TIIYNEFSAYEKDIMQGIVERQDKRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVYVS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SR+HP  + +LF  EVPE+Y+GIV++ +++R+ G R+K+AV S+D +
Sbjct: 184 RVENTSKGPQVFVSRSHPDLLRRLFEQEVPEVYDGIVEIVSIAREAGDRSKVAVRSNDQN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VG CVG +G RVQA+V EL+ E +DIV W+ D A F+ NAL PA V  V+ DE   +
Sbjct: 244 IDAVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAVFIANALNPAQVMDVIFDETNPK 303

Query: 308 -IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE--DSINRQKDFNERTQFFMQ 364
              V+VP  QLSLAIG+RGQN RLA++LT   IDI +E +  +   +Q+  NE  +   +
Sbjct: 304 ACTVVVPDYQLSLAIGKRGQNARLAAKLTNHKIDIKSESDMAEFYEKQEQQNETEELHDE 363

Query: 365 AI 366
           AI
Sbjct: 364 AI 365


>gi|30021905|ref|NP_833536.1| transcription elongation factor NusA [Bacillus cereus ATCC 14579]
 gi|229129092|ref|ZP_04258065.1| Transcription elongation protein nusA [Bacillus cereus BDRD-Cer4]
 gi|29897461|gb|AAP10737.1| N utilization substance protein A [Bacillus cereus ATCC 14579]
 gi|228654329|gb|EEL10194.1| Transcription elongation protein nusA [Bacillus cereus BDRD-Cer4]
          Length = 368

 Score =  285 bits (728), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 147/352 (41%), Positives = 224/352 (63%), Gaps = 10/352 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NPE G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPEVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V++ ++ 
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVYAENTD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ +V EL+ EKI IV WS D   +V NAL P+ V KV++DE+   
Sbjct: 244 VDPVGSCVGPKGQRVQRIVDELKGEKIAIVRWSNDPVEYVANALSPSQVVKVLVDEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE----------EEDSI 349
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E          EEDS+
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGIVTEEDSV 355


>gi|157692343|ref|YP_001486805.1| transcription elongation factor NusA [Bacillus pumilus SAFR-032]
 gi|157681101|gb|ABV62245.1| transcription elongation factor NusA [Bacillus pumilus SAFR-032]
          Length = 371

 Score =  285 bits (728), Expect = 2e-74,   Method: Compositional matrix adjust.
 Identities = 147/337 (43%), Positives = 225/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +++++  +  ++  A +  +    ++RV++N ETG I +F   +
Sbjct: 4   ELLDALTVLEKEKGISKEIIIEAIEAALISAYKRNFNQAQNVRVDLNRETGTIRVFARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +IS+  A + +P+  +G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDEVYDSRLEISVDDAANINPNYMVGDVVEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R++   + V LG  + ++  +E +  E+ +P DR+K +I 
Sbjct: 124 GVIYTEFIDREEDIMTGIVQRIDSKFIYVSLGKIEALLPVNEQMPNEDYKPHDRIKVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+V+R+ G R+K++V + D  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEIEVPEIYDGTVELKSVAREAGDRSKISVRTDDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQA+V EL+ EKIDIV WS D   FV NAL P+ V  V+++E+   
Sbjct: 244 VDPVGSCVGPKGQRVQAIVNELKGEKIDIVHWSNDPVEFVANALSPSKVLDVIVNEEDKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+RGQN RLA++LT W IDI +E
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTSWKIDIKSE 340


>gi|229031446|ref|ZP_04187446.1| Transcription elongation protein nusA [Bacillus cereus AH1271]
 gi|229098285|ref|ZP_04229232.1| Transcription elongation protein nusA [Bacillus cereus Rock3-29]
 gi|229104378|ref|ZP_04235047.1| Transcription elongation protein nusA [Bacillus cereus Rock3-28]
 gi|229117302|ref|ZP_04246680.1| Transcription elongation protein nusA [Bacillus cereus Rock1-3]
 gi|229174482|ref|ZP_04302014.1| Transcription elongation protein nusA [Bacillus cereus MM3]
 gi|228609042|gb|EEK66332.1| Transcription elongation protein nusA [Bacillus cereus MM3]
 gi|228666202|gb|EEL21666.1| Transcription elongation protein nusA [Bacillus cereus Rock1-3]
 gi|228679076|gb|EEL33284.1| Transcription elongation protein nusA [Bacillus cereus Rock3-28]
 gi|228685183|gb|EEL39114.1| Transcription elongation protein nusA [Bacillus cereus Rock3-29]
 gi|228729735|gb|EEL80715.1| Transcription elongation protein nusA [Bacillus cereus AH1271]
          Length = 368

 Score =  285 bits (728), Expect = 2e-74,   Method: Compositional matrix adjust.
 Identities = 148/352 (42%), Positives = 223/352 (63%), Gaps = 10/352 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NPE G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPEVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V + +  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVHAENID 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ +V EL+ EKIDIV WS D   +V NAL P+ V KV++DE+   
Sbjct: 244 VDPVGSCVGPKGQRVQRIVDELKGEKIDIVRWSNDPVEYVANALSPSQVVKVLVDEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE----------EEDSI 349
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E          EEDS+
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGIVTEEDSV 355


>gi|94971244|ref|YP_593292.1| NusA antitermination factor [Candidatus Koribacter versatilis
           Ellin345]
 gi|94553294|gb|ABF43218.1| NusA antitermination factor [Candidatus Koribacter versatilis
           Ellin345]
          Length = 534

 Score =  285 bits (728), Expect = 2e-74,   Method: Compositional matrix adjust.
 Identities = 169/425 (39%), Positives = 254/425 (59%), Gaps = 14/425 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL  + DA++ EK ID  VV++ + D+I  A R  Y T  + R  ++ E+G I  + + +
Sbjct: 4   ELYNVIDALSREKGIDPQVVVTAVEDAIVVATRKFYKTGENFRAVLDKESGQIRAYAVRQ 63

Query: 68  VV---EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV   +E+E+   Q+ L+ AR+ DP+ ++GG +         GR+A Q AKQVI QKVRE
Sbjct: 64  VVINEDELEDPATQVPLEEARELDPAAEVGGELLIEKKTDMLGRIAAQLAKQVIFQKVRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AERD  Y E+  +VGEI++ T+KR E  ++I D+G ++  + + E    E+   G+RV+ 
Sbjct: 124 AERDTVYNEYIGRVGEIVNATMKRNEGPDLIWDIGKAEARMPKKEQSRLESFAIGERVRV 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            I  V +  +GPQV++SR  P+ +  LF  EVPEIY+  V ++A++R+ G R K+AV S 
Sbjct: 184 VITRVEKASKGPQVIVSRAAPELVSHLFQTEVPEIYDNTVVIRAIAREAGERTKIAVMSK 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDE 303
           D  +D VGACVGM+G RVQ+++ ELR EKIDI+ +  D+ TF   AL+PA V++V +L+ 
Sbjct: 244 DKDVDAVGACVGMKGMRVQSIIRELRGEKIDIIEYHEDAVTFAEKALQPAKVSRVTILES 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
               +EVIV   QLSLAIG++GQNVRLA++L GW IDI +EEE    RQ+   + +    
Sbjct: 304 GDKHLEVIVDDTQLSLAIGKKGQNVRLAAKLLGWKIDIKSEEE---KRQEVEQQMSALVN 360

Query: 364 QAI-------NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
            +I       ++ E I   L A G   VE LA +   ++  + G   +T  +I      Y
Sbjct: 361 PSITPLDKVPDLGEAIIEKLSAAGINSVEALADMTPEQLEEVPGIGPKTVDKIFVAVNAY 420

Query: 417 LEGID 421
              +D
Sbjct: 421 FSALD 425


>gi|218661268|ref|ZP_03517198.1| transcription elongation factor NusA [Rhizobium etli IE4771]
          Length = 189

 Score =  284 bits (727), Expect = 2e-74,   Method: Compositional matrix adjust.
 Identities = 140/189 (74%), Positives = 163/189 (86%)

Query: 208 MVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVT 267
           MVKLF MEVPEIY+GI+QVK+V+RDPGSRAK+AV S+DSSIDPVGACVGMRGSRVQAVV 
Sbjct: 1   MVKLFTMEVPEIYDGIIQVKSVARDPGSRAKIAVISNDSSIDPVGACVGMRGSRVQAVVG 60

Query: 268 ELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQN 327
           EL+ EKIDI+ WS D ATFV+NAL+PA V KVVLDED  RIEV+VP EQLSLAIGRRGQN
Sbjct: 61  ELQGEKIDIIPWSQDPATFVVNALQPAEVAKVVLDEDAERIEVVVPDEQLSLAIGRRGQN 120

Query: 328 VRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEEL 387
           VRLASQLTGW IDI+TE E+S  RQK+FNERT  FM +++VDE++  +L +EGFA VEEL
Sbjct: 121 VRLASQLTGWDIDIMTEAEESERRQKEFNERTNLFMDSLDVDEMVGQVLASEGFAAVEEL 180

Query: 388 ACVKISEIA 396
           A V + EI+
Sbjct: 181 AYVDLDEIS 189


>gi|148380376|ref|YP_001254917.1| N utilization substance protein A [Clostridium botulinum A str.
           ATCC 3502]
 gi|153933708|ref|YP_001384596.1| transcription elongation factor NusA [Clostridium botulinum A str.
           ATCC 19397]
 gi|153936194|ref|YP_001388112.1| transcription elongation factor NusA [Clostridium botulinum A str.
           Hall]
 gi|170761276|ref|YP_001787732.1| transcription elongation factor NusA [Clostridium botulinum A3 str.
           Loch Maree]
 gi|226949774|ref|YP_002804865.1| N utilization substance protein A [Clostridium botulinum A2 str.
           Kyoto]
 gi|148289860|emb|CAL83968.1| putative transcription elongation protein NusA [Clostridium
           botulinum A str. ATCC 3502]
 gi|152929752|gb|ABS35252.1| transcription termination factor NusA [Clostridium botulinum A str.
           ATCC 19397]
 gi|152932108|gb|ABS37607.1| N utilization substance protein A [Clostridium botulinum A str.
           Hall]
 gi|169408265|gb|ACA56676.1| N utilization substance protein A [Clostridium botulinum A3 str.
           Loch Maree]
 gi|226843922|gb|ACO86588.1| N utilization substance protein A [Clostridium botulinum A2 str.
           Kyoto]
 gi|322806687|emb|CBZ04256.1| transcription termination protein NusA [Clostridium botulinum
           H04402 065]
          Length = 457

 Score =  284 bits (727), Expect = 2e-74,   Method: Compositional matrix adjust.
 Identities = 144/339 (42%), Positives = 231/339 (68%), Gaps = 5/339 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLF 63
           E ++    +  EK I  D++ + + D++  A +  Y    G+ ++++V +N E G+I ++
Sbjct: 4   EFVEALREIVKEKGISADLLFTTIEDALVTAYKKNYAKQGGSTNNVKVIMNRENGEIKVY 63

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
              +VV+ VE    +ISL+ A++ DP+ ++  +++  + P  FGR+A Q+AKQV+IQ+++
Sbjct: 64  AQKKVVDFVEEEVEEISLEDAKEIDPNYELEDIINIEVTPKKFGRIAAQAAKQVVIQRIK 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           E ER   Y E+ +K  +I++GTV R + GN+++++G S+ V+  +E I  E  R  +++K
Sbjct: 124 EEERRIVYNEYIEKEEDILTGTVLRKDKGNILINVGKSEAVLGPNEQIPGEQFRFNEKIK 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            Y+ +V+   +GPQVL+SRTHP  + +LF +EVPEIYNGIV++K+++R+ GSR K+AV+S
Sbjct: 184 LYVVEVKNTTKGPQVLISRTHPGLVKRLFELEVPEIYNGIVEIKSIAREAGSRTKIAVYS 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLD 302
           +D S+DP+GACVG +G RVQ +V EL++EKIDI+ WS      + NAL PA V  V ++D
Sbjct: 244 NDESVDPMGACVGPKGVRVQNIVNELKNEKIDIIKWSKFPDELICNALSPAKVIDVTIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           E+      +V   QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 304 EENKAARAVVDDSQLSLAIGKEGQNVRLAAKLTGWKIDI 342


>gi|332686768|ref|YP_004456542.1| transcription termination protein NusA [Melissococcus plutonius
           ATCC 35311]
 gi|332370777|dbj|BAK21733.1| transcription termination protein NusA [Melissococcus plutonius
           ATCC 35311]
          Length = 396

 Score =  284 bits (727), Expect = 2e-74,   Method: Compositional matrix adjust.
 Identities = 141/338 (41%), Positives = 220/338 (65%), Gaps = 1/338 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L   +A+  EK I +++V+  +  ++  A +  YG   ++ VE N + GDI ++ + E
Sbjct: 4   EILNALNALEAEKGISKEIVIDALEAALVSAYKRHYGQAQNVEVEFNNKKGDIHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V EEV +   +I+L+ A   + + +IG V+   + P DFGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VTEEVMDSQLEIALEDALAINGAYEIGDVIHFEVTPKDFGRIAAQTAKQVILQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF +   +I+ G V+R +   + V+LG  + V+ + + +  E  +  DR+K Y+ 
Sbjct: 124 TIIYNEFSEYENDIMQGIVERQDRRYIYVNLGKIEAVLSKQDQMPNEFYQAHDRIKVYVS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SR+HP  + +LF  E+PE+Y+GIV++ +++R+ G R+K+AV S D +
Sbjct: 184 KVENTSKGPQVFVSRSHPDLLKRLFEQEIPEVYDGIVEIVSIAREAGDRSKIAVRSIDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVG CVG +G RVQA+V EL+ E +DIV W+ D   ++ NAL PA V  V+ D +  +
Sbjct: 244 IDPVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPVVYISNALNPAQVVDVIFDPENNK 303

Query: 308 I-EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +  ++VP  QLSLAIG+RGQN RLA++LTG+ IDI  E
Sbjct: 304 VCTIVVPDHQLSLAIGKRGQNARLAAKLTGFKIDIKAE 341


>gi|325479444|gb|EGC82540.1| transcription termination factor NusA [Anaerococcus prevotii
           ACS-065-V-Col13]
          Length = 425

 Score =  284 bits (726), Expect = 3e-74,   Method: Compositional matrix adjust.
 Identities = 141/344 (40%), Positives = 226/344 (65%)

Query: 14  DAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVE 73
           D +  EK +D+  +L  +  ++ K+ +  Y    ++ V I+ E+G I +F L  VVEEVE
Sbjct: 10  DELCKEKGLDKATILDALKKALIKSYQKNYDNQENVDVIIDEESGKIEVFALKNVVEEVE 69

Query: 74  NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
           +   +IS+K A+  + + D+G VV   L P +FGRVA Q+A+ ++IQK+R+A+RD  Y E
Sbjct: 70  DSISEISIKDAKKVNSTYDLGDVVRIELTPKNFGRVAAQTARNIVIQKIRDAQRDSLYGE 129

Query: 134 FKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
           + ++  E+I+G ++R +  N+ V+L   +GV+   E +  EN  P +R+K  I +VR   
Sbjct: 130 YIERSNEMITGLIQRADNYNLYVNLDKIEGVVPLKEQVPTENYAPNERMKFLIKEVRNSS 189

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
           + PQ++LSR+    + +LF +EVPEI  G++++ +++R+ GSR K+AVFS+D +ID VGA
Sbjct: 190 KDPQIILSRSSQDLITRLFELEVPEITEGVIEIYSIAREAGSRTKMAVFSNDETIDAVGA 249

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVP 313
           C+G +G+RV ++V EL+ EKIDI+ +  D   F+ NAL PA +  V+++E   +  V+V 
Sbjct: 250 CIGFKGARVNSIVEELQGEKIDIINFDKDIKVFISNALSPADIIDVIVNEKNKQSLVVVS 309

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            +QLSLAIG+ GQN RLA++LTGW IDI ++EE     Q D +E
Sbjct: 310 SDQLSLAIGKEGQNARLAARLTGWKIDIKSKEEFDTLSQDDIDE 353


>gi|168180700|ref|ZP_02615364.1| N utilization substance protein A [Clostridium botulinum NCTC 2916]
 gi|182668525|gb|EDT80504.1| N utilization substance protein A [Clostridium botulinum NCTC 2916]
          Length = 457

 Score =  284 bits (726), Expect = 3e-74,   Method: Compositional matrix adjust.
 Identities = 144/339 (42%), Positives = 231/339 (68%), Gaps = 5/339 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLF 63
           E ++    +  EK I  D++ + + D++  A +  Y    G+ ++++V +N E G+I ++
Sbjct: 4   EFVEALREIVKEKGISADLLFTTIEDALVTAYKKNYAKQGGSTNNVKVIMNRENGEIKVY 63

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
              +VV+ VE    +ISL+ A++ DP+ ++  +++  + P  FGR+A Q+AKQV+IQ+++
Sbjct: 64  AQKKVVDFVEEEVEEISLEDAKEIDPNYELEDIINIEVTPKKFGRIAAQAAKQVVIQRIK 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           E ER   Y E+ +K  +I++GTV R + GN+++++G S+ V+  +E I  E  R  +++K
Sbjct: 124 EEERRIVYNEYIEKEEDILTGTVLRKDKGNILINVGKSEAVLGPNEQIPGEQFRFNEKIK 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            Y+ +V+   +GPQVL+SRTHP  + +LF +EVPEIYNGIV++K+++R+ GSR K+AV+S
Sbjct: 184 LYVVEVKNTTKGPQVLISRTHPGLVKRLFELEVPEIYNGIVEIKSIAREAGSRTKIAVYS 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLD 302
           +D S+DP+GACVG +G RVQ +V EL++EKIDI+ WS      + NAL PA V  V ++D
Sbjct: 244 NDESVDPMGACVGPKGVRVQNIVNELKNEKIDIIKWSKFPDELICNALSPAKVIDVTIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           E+      +V   QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 304 EENKAARAVVDDSQLSLAIGKEGQNVRLAAKLTGWKIDI 342


>gi|229012999|ref|ZP_04170164.1| Transcription elongation protein nusA [Bacillus mycoides DSM 2048]
 gi|228748253|gb|EEL98113.1| Transcription elongation protein nusA [Bacillus mycoides DSM 2048]
          Length = 364

 Score =  284 bits (726), Expect = 3e-74,   Method: Compositional matrix adjust.
 Identities = 146/341 (42%), Positives = 219/341 (64%), Gaps = 10/341 (2%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I +D+++  +  ++  A +  +    ++RV  NPE G I +    +VV+ V +   +
Sbjct: 11  EKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPEVGTIQVLARKDVVDNVFDPRLE 70

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER   Y EF D+ 
Sbjct: 71  ISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAERGVIYSEFSDRE 130

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
            +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I  V +  +GPQ+
Sbjct: 131 EDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFITKVEKTTKGPQI 190

Query: 199 LLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMR 258
            +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V++ +  +DPVG+CVG +
Sbjct: 191 YVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVYAENIDVDPVGSCVGPK 250

Query: 259 GSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLS 318
           G RVQ VV EL+ EKIDIV WS D   +V NAL P+ V KV++DE      V+VP  QLS
Sbjct: 251 GQRVQRVVDELKGEKIDIVRWSNDPVEYVANALSPSQVVKVLVDEAEKATTVVVPDHQLS 310

Query: 319 LAIGRRGQNVRLASQLTGWTIDIITE----------EEDSI 349
           LAIG+RGQN RLA++LTGW IDI +E          EEDS+
Sbjct: 311 LAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGIVTEEDSV 351


>gi|257878526|ref|ZP_05658179.1| transcription termination factor NusA [Enterococcus faecium
           1,230,933]
 gi|257894715|ref|ZP_05674368.1| transcription termination factor NusA [Enterococcus faecium
           1,231,408]
 gi|294618723|ref|ZP_06698255.1| transcription termination factor NusA [Enterococcus faecium E1679]
 gi|257812754|gb|EEV41512.1| transcription termination factor NusA [Enterococcus faecium
           1,230,933]
 gi|257831094|gb|EEV57701.1| transcription termination factor NusA [Enterococcus faecium
           1,231,408]
 gi|291595036|gb|EFF26381.1| transcription termination factor NusA [Enterococcus faecium E1679]
          Length = 391

 Score =  284 bits (726), Expect = 3e-74,   Method: Compositional matrix adjust.
 Identities = 145/338 (42%), Positives = 218/338 (64%), Gaps = 1/338 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L   DA+  EK I +++V+  +  ++  A +  YG   ++ VE + + G I ++ + E
Sbjct: 4   EMLNALDALEAEKGISKEIVIDALEAALVSAYKRHYGQAQNVEVEFDQKKGKIHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V EEV +   ++SLK A   +P+ +IG  +   + P DFGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VTEEVMDSQLEVSLKDALLINPAYEIGDTIRFEVTPKDFGRIAAQTAKQVILQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF     +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K Y+ 
Sbjct: 124 TIIYNEFSAYEKDIMQGIVERQDKRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVYVS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SR+HP  + +LF  EVPE+Y+GIV++ +++R+ G R+K+AV S+D +
Sbjct: 184 RVENTSKGPQVFVSRSHPDLLRRLFEQEVPEVYDGIVEIVSIAREAGDRSKVAVRSNDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VG CVG +G RVQA+V EL+ E +DIV W+ D A F+ NAL PA V  V+ DE   +
Sbjct: 244 IDAVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAVFIANALNPAQVMDVIFDETNSK 303

Query: 308 -IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              V+VP  QLSLAIG+RGQN RLA++LT   IDI +E
Sbjct: 304 ACTVVVPDYQLSLAIGKRGQNARLAAKLTNHKIDIKSE 341


>gi|331269630|ref|YP_004396122.1| NusA antitermination factor [Clostridium botulinum BKT015925]
 gi|329126180|gb|AEB76125.1| NusA antitermination factor [Clostridium botulinum BKT015925]
          Length = 348

 Score =  284 bits (726), Expect = 3e-74,   Method: Compositional matrix adjust.
 Identities = 146/341 (42%), Positives = 224/341 (65%), Gaps = 5/341 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLF 63
           E ++    +  EK I+  ++   + D++  A +  Y    G   +++V I+ E G+I ++
Sbjct: 4   EFIEALREIVKEKGIEEQLLFDTVEDALVSAYKKNYAKVGGNSQNVKVTIDRENGEIHVY 63

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
              + +EE      +ISL+ AR+ +P  ++G +V   + P  FGR+A Q+AKQV+IQ+++
Sbjct: 64  -AQKRIEEDPLTINEISLEEAREFNPKYEMGDIVDLEVTPKSFGRIAAQTAKQVVIQRIK 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           EAER   Y EF  K  +II+GTV R + GNV VDL  ++ V+  +E I  E     D++K
Sbjct: 123 EAERKVIYNEFIAKEFDIITGTVIRKDKGNVFVDLEKTEAVLGPNEQIPSEEYNFNDKLK 182

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            YI +V+   +GPQV++SRTHP  + +LF +EVPEIY G+V++K+++R+ GSR K+AV+S
Sbjct: 183 LYIVEVKNTTKGPQVVVSRTHPGLVKRLFELEVPEIYEGVVEIKSIAREAGSRTKIAVYS 242

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D ++D  GACVG +G RVQ +VTEL++EKIDI+ W  D   ++ NAL PA V  V +DE
Sbjct: 243 NDENVDATGACVGPKGMRVQNIVTELKNEKIDIIKWDKDPEKYIANALSPARVVSVEIDE 302

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +    +++V   QLSLAIG+ GQNVRLA++LTGW IDI +E
Sbjct: 303 ENKSAKIVVEDGQLSLAIGKEGQNVRLAAKLTGWKIDIKSE 343


>gi|49316|emb|CAA79231.1| ORF2 [Bacillus subtilis subsp. subtilis str. 168]
          Length = 371

 Score =  284 bits (726), Expect = 3e-74,   Method: Compositional matrix adjust.
 Identities = 147/337 (43%), Positives = 224/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +++++  +  ++  A +  +    ++RV++N ETG I +F   +
Sbjct: 4   ELLDALTILEKEKGISKEIIIEAIEAALISAYKRNFNQAQNVRVDLNRETGSIRVFARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +IS++ A+   P   +G VV   + P DFGR+A Q+A +V+ Q+VREAER
Sbjct: 64  VVDEVYDQRLEISIEEAQGIHPEYMVGDVVEIEVTPKDFGRIAAQTANEVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R++   + V LG  + ++  +E +  E+ +P DR+K YI 
Sbjct: 124 GVIYSEFIDREEDIMTGIVQRLDNKFIYVSLGKIEALLPVNEQMPNESYKPHDRIKVYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+V+R+ G R+K++V + D  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEIEVPEIYDGTVELKSVAREAGDRSKISVRTDDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQA+V EL+ EKIDIV WS D   FV NAL P+ V  V+++E+   
Sbjct: 244 VDPVGSCVGPKGQRVQAIVNELKGEKIDIVNWSSDPVEFVANALSPSKVLDVIVNEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 340


>gi|170754323|ref|YP_001781964.1| transcription elongation factor NusA [Clostridium botulinum B1 str.
           Okra]
 gi|169119535|gb|ACA43371.1| N utilization substance protein A [Clostridium botulinum B1 str.
           Okra]
          Length = 457

 Score =  284 bits (726), Expect = 3e-74,   Method: Compositional matrix adjust.
 Identities = 144/339 (42%), Positives = 232/339 (68%), Gaps = 5/339 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLF 63
           E ++    +  EK I  D++ + + D++  A +  Y    G+ ++++V +N E G+I ++
Sbjct: 4   EFVEALREIVKEKGISADLLFTTIEDALVTAYKKNYAKQGGSTNNVKVIMNRENGEIKVY 63

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
              +VV+ VE    +ISL+ A++ DP+ ++  +++  + P  FGR+A Q+AKQV+IQ+++
Sbjct: 64  AQKKVVDFVEEEVEEISLEDAKEIDPNYELEDIINIEVTPKKFGRIAAQAAKQVVIQRIK 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           E ER   Y E+ +K  +I++GTV R + GN+++++G S+ V+  +E I  E  R  +++K
Sbjct: 124 EEERRIVYNEYIEKEEDILTGTVLRKDKGNILINVGKSEAVLGPNEQIPGEQFRFNEKIK 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            Y+ +V+   +GPQVL+SRTHP  + +LF +EVPEIYNGIV++K+++R+ GSR K+AV+S
Sbjct: 184 LYVVEVKNTTKGPQVLISRTHPGLVKRLFELEVPEIYNGIVEIKSIAREAGSRTKIAVYS 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLD 302
           +D ++DP+GACVG +G RVQ +V EL++EKIDI+ WS      + NAL PA V  V ++D
Sbjct: 244 NDEAVDPMGACVGPKGVRVQNIVNELKNEKIDIIKWSKFPDELICNALSPAKVIDVTIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           E+     V+V   QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 304 EENKAARVVVDDSQLSLAIGKEGQNVRLAAKLTGWKIDI 342


>gi|304439999|ref|ZP_07399892.1| transcription termination factor NusA [Peptoniphilus duerdenii ATCC
           BAA-1640]
 gi|304371491|gb|EFM25104.1| transcription termination factor NusA [Peptoniphilus duerdenii ATCC
           BAA-1640]
          Length = 412

 Score =  283 bits (725), Expect = 3e-74,   Method: Compositional matrix adjust.
 Identities = 146/335 (43%), Positives = 227/335 (67%), Gaps = 1/335 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           E +   + +  EK I +D+V   +  ++  + +  +G +  +I V+IN E G+I +F+ +
Sbjct: 4   EFILALNQLESEKGIKKDIVFEALEAALISSYKKNFGMSNQNIVVDINKENGNIKIFKEM 63

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VV+EVE+   +ISL+ A +      +G +V   + PM FGR+A Q+AKQV+IQK+++AE
Sbjct: 64  TVVDEVEDEDTEISLEDAEEISSKYKVGSIVRIEIDPMKFGRIAAQTAKQVVIQKIKDAE 123

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           +D  Y +F D+ GE+I+G V+R   G V +DLG S+G++  +E I  E+   G+R K  I
Sbjct: 124 KDIIYDDFIDREGELITGQVQRSSKGYVFIDLGKSEGILPPNEQIKGEDYSHGNRYKMII 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V++  +GPQ++LSR+HP  + +LF +EVPEI++GIV+V  +SR+ GSR K+AVFS   
Sbjct: 184 LEVKKTPKGPQIILSRSHPNLIKRLFELEVPEIHDGIVEVFNISREAGSRTKIAVFSKSE 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DP+GACVG +G+RV+A++  + +EKIDI++W  D   F+ NAL P+ V KV +D+   
Sbjct: 244 DVDPLGACVGFKGARVKAILDSIGEEKIDIIIWDRDIDHFIANALSPSNVEKVFIDDSNK 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +  V+VP  QLSLAIG+ GQNVRLA++LT W IDI
Sbjct: 304 QALVVVPDYQLSLAIGKEGQNVRLAAKLTNWKIDI 338


>gi|328950381|ref|YP_004367716.1| NusA antitermination factor [Marinithermus hydrothermalis DSM
           14884]
 gi|328450705|gb|AEB11606.1| NusA antitermination factor [Marinithermus hydrothermalis DSM
           14884]
          Length = 397

 Score =  283 bits (725), Expect = 3e-74,   Method: Compositional matrix adjust.
 Identities = 143/344 (41%), Positives = 218/344 (63%), Gaps = 10/344 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD---------IRVEINPETG 58
           E ++    VA E+ +  + ++    +++ KA     G             + V ++P+ G
Sbjct: 4   EFVEALQHVALERGVSPEELIQAFEEALAKAYVRQKGFRPKEVEEGKGPLVEVHLDPQQG 63

Query: 59  DISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            I +  +  VVE+VEN   +I+L  A   DP + +G  +  P+ P +F R+AVQ+AKQ++
Sbjct: 64  TIEVLEIKRVVEKVENPEREIALADALTYDPEVQVGEEMEFPVDPEEFSRIAVQTAKQIL 123

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLR 177
            Q+++EAER+R Y E+KDK GEI++G V RV+  GNV VDLG  + ++   E I  E   
Sbjct: 124 TQRLKEAERNRVYEEYKDKKGEILTGQVTRVDNRGNVYVDLGRGEALMPPREQIPTERYY 183

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
           PG R+K Y+ +V+R  +GP +++SR H + +  L   EVPEI  G+V+VKA++R+PGSR+
Sbjct: 184 PGQRIKVYLKEVQRSSKGPSLIVSRAHEELLRYLLKQEVPEIAEGVVEVKAIAREPGSRS 243

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S + ++DP+GAC+G +G R+QAV  EL  E++DI+ WSP+   F+ NAL PA V 
Sbjct: 244 KVAVMSHNPNVDPIGACIGHKGQRIQAVSAELGRERVDIIQWSPNPREFIRNALSPATVG 303

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            + +D + G   V V K+Q SLAIG+ GQNVRLAS+LTG+ ID 
Sbjct: 304 AIEIDPETGHAAVTVAKDQHSLAIGKAGQNVRLASKLTGYEIDF 347


>gi|297588445|ref|ZP_06947088.1| transcription termination factor NusA [Finegoldia magna ATCC 53516]
 gi|297573818|gb|EFH92539.1| transcription termination factor NusA [Finegoldia magna ATCC 53516]
          Length = 424

 Score =  283 bits (725), Expect = 4e-74,   Method: Compositional matrix adjust.
 Identities = 145/340 (42%), Positives = 218/340 (64%), Gaps = 6/340 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM------SDIRVEINPETGDIS 61
           + ++  D +   K I R+VV   +  ++ K+    +         S + V IN + G ++
Sbjct: 4   DFIKALDELEKSKKIPREVVFDALEKALIKSYEKNFDYQDHENEESSVEVNINRDNGKVN 63

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+ +  VVE VE+   +ISL+ A+      D+G  V   + P +FGR+A Q+A+ ++IQK
Sbjct: 64  LYAIKTVVENVEDKNTEISLEEAKTIKRKYDLGDKVKIEITPKNFGRIAAQTARNIVIQK 123

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +++AERD  Y EF D+  EII+GTV+RVE G V +DLG  +G+I   E I  E   P  R
Sbjct: 124 LKDAERDNIYNEFIDREKEIITGTVQRVERGIVYIDLGRVEGIIPVSEQIKSEEYTPNKR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K +I +V+   +G Q++LSRT    + +LF +EVPEI +G V++ +V+R+PGSR K+AV
Sbjct: 184 LKLFIKEVKNTTKGAQIILSRTDNSLIKRLFELEVPEINDGTVEIFSVAREPGSRTKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           FS+D ++DPVG+CVG  G+RV+++V EL  EK+DIV+WS D  TF+ N+L P+ V    +
Sbjct: 244 FSNDENVDPVGSCVGFSGTRVKSIVDELNGEKLDIVIWSKDIKTFISNSLSPSEVIATFI 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           DE      VIV ++QLSLAIG+ GQN RLA++LT W IDI
Sbjct: 304 DEAQKICRVIVSEDQLSLAIGKEGQNARLAAKLTNWKIDI 343


>gi|301300268|ref|ZP_07206477.1| transcription termination factor NusA [Lactobacillus salivarius
           ACS-116-V-Col5a]
 gi|300214374|gb|ADJ78790.1| N utilization substance protein A [Lactobacillus salivarius CECT
           5713]
 gi|300852109|gb|EFK79784.1| transcription termination factor NusA [Lactobacillus salivarius
           ACS-116-V-Col5a]
          Length = 375

 Score =  283 bits (725), Expect = 4e-74,   Method: Compositional matrix adjust.
 Identities = 145/338 (42%), Positives = 220/338 (65%), Gaps = 1/338 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   +A+  EK + +++V+  +  ++  A +  YG   ++ VE +   G+I ++ + E
Sbjct: 4   ELLNALNALEVEKGVKKEIVIEALEAALVSAYKRNYGQAQNVEVEFDKIAGNIHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV EV +   +ISLK A + + + +IG  + + + P DFGR+A Q+AKQVI+Q+VR+ ER
Sbjct: 64  VVNEVYDSQLEISLKSALEINRAYEIGDTIREEVTPKDFGRIAAQTAKQVIMQRVRKEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y E+     EI++G V+R +   V V+LG  + V+ R + I  E  +  D++K YIY
Sbjct: 124 EVIYNEYVQYEQEIVTGEVERRDNKFVYVNLGRIEAVLSRQDQIPGEEYKSHDKIKVYIY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SR+HP  + +LF  E+PEI++G V++ ++SR+ G RAK+AV S++  
Sbjct: 184 KVENTSKGPQVFVSRSHPDLLRRLFEQEIPEIFDGTVEIVSISREAGDRAKVAVRSNEDG 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVG 306
           +DPVG CVG RG RVQA+V EL+ E +DIV W  D A ++ NAL PA V  V   DE+  
Sbjct: 244 VDPVGTCVGPRGERVQAIVNELKGENMDIVEWREDPAEYIANALNPAKVLDVRFDDENEH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              V+VP +QLSLAIG+RGQN RLA++LTG+ IDI +E
Sbjct: 304 ACTVVVPDDQLSLAIGKRGQNARLAARLTGYKIDIKSE 341


>gi|30263819|ref|NP_846196.1| transcription elongation factor NusA [Bacillus anthracis str. Ames]
 gi|42782904|ref|NP_980151.1| transcription elongation factor NusA [Bacillus cereus ATCC 10987]
 gi|47529243|ref|YP_020592.1| transcription elongation factor NusA [Bacillus anthracis str. 'Ames
           Ancestor']
 gi|47569093|ref|ZP_00239782.1| transcription termination factor nusA [Bacillus cereus G9241]
 gi|49186666|ref|YP_029918.1| transcription elongation factor NusA [Bacillus anthracis str.
           Sterne]
 gi|49479412|ref|YP_037877.1| transcription elongation factor NusA [Bacillus thuringiensis
           serovar konkukian str. 97-27]
 gi|52141674|ref|YP_085157.1| transcription elongation factor NusA [Bacillus cereus E33L]
 gi|65321143|ref|ZP_00394102.1| COG0195: Transcription elongation factor [Bacillus anthracis str.
           A2012]
 gi|118479036|ref|YP_896187.1| transcription elongation factor NusA [Bacillus thuringiensis str.
           Al Hakam]
 gi|165872619|ref|ZP_02217250.1| N utilization substance protein A [Bacillus anthracis str. A0488]
 gi|167639787|ref|ZP_02398056.1| N utilization substance protein A [Bacillus anthracis str. A0193]
 gi|170706870|ref|ZP_02897328.1| N utilization substance protein A [Bacillus anthracis str. A0389]
 gi|177652046|ref|ZP_02934592.1| N utilization substance protein A [Bacillus anthracis str. A0174]
 gi|190568469|ref|ZP_03021376.1| N utilization substance protein A [Bacillus anthracis
           Tsiankovskii-I]
 gi|196042176|ref|ZP_03109459.1| N utilization substance protein A [Bacillus cereus NVH0597-99]
 gi|196044653|ref|ZP_03111888.1| N utilization substance protein A [Bacillus cereus 03BB108]
 gi|206978435|ref|ZP_03239302.1| N utilization substance protein A [Bacillus cereus H3081.97]
 gi|217961236|ref|YP_002339804.1| transcription elongation factor NusA [Bacillus cereus AH187]
 gi|218904944|ref|YP_002452778.1| N utilization substance protein A [Bacillus cereus AH820]
 gi|222097260|ref|YP_002531317.1| transcription elongation factor nusa [Bacillus cereus Q1]
 gi|225865795|ref|YP_002751173.1| N utilization substance protein A [Bacillus cereus 03BB102]
 gi|227813276|ref|YP_002813285.1| N utilization substance protein A [Bacillus anthracis str. CDC 684]
 gi|228916453|ref|ZP_04080019.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar pulsiensis BGSC 4CC1]
 gi|228928864|ref|ZP_04091896.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar pondicheriensis BGSC 4BA1]
 gi|228947535|ref|ZP_04109825.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar monterrey BGSC 4AJ1]
 gi|228986959|ref|ZP_04147085.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar tochigiensis BGSC 4Y1]
 gi|229092856|ref|ZP_04223990.1| Transcription elongation protein nusA [Bacillus cereus Rock3-42]
 gi|229123329|ref|ZP_04252533.1| Transcription elongation protein nusA [Bacillus cereus 95/8201]
 gi|229140457|ref|ZP_04269012.1| Transcription elongation protein nusA [Bacillus cereus BDRD-ST26]
 gi|229186053|ref|ZP_04313223.1| Transcription elongation protein nusA [Bacillus cereus BGSC 6E1]
 gi|229197926|ref|ZP_04324642.1| Transcription elongation protein nusA [Bacillus cereus m1293]
 gi|229602496|ref|YP_002868054.1| N utilization substance protein A [Bacillus anthracis str. A0248]
 gi|254721998|ref|ZP_05183787.1| transcription elongation factor NusA [Bacillus anthracis str.
           A1055]
 gi|254735854|ref|ZP_05193560.1| transcription elongation factor NusA [Bacillus anthracis str.
           Western North America USA6153]
 gi|254756007|ref|ZP_05208038.1| transcription elongation factor NusA [Bacillus anthracis str.
           Vollum]
 gi|254759332|ref|ZP_05211357.1| transcription elongation factor NusA [Bacillus anthracis str.
           Australia 94]
 gi|301055306|ref|YP_003793517.1| transcription elongation factor NusA [Bacillus anthracis CI]
 gi|30258463|gb|AAP27682.1| N utilization substance protein A [Bacillus anthracis str. Ames]
 gi|42738831|gb|AAS42759.1| N utilization substance protein A [Bacillus cereus ATCC 10987]
 gi|47504391|gb|AAT33067.1| N utilization substance protein A [Bacillus anthracis str. 'Ames
           Ancestor']
 gi|47554255|gb|EAL12617.1| transcription termination factor nusA [Bacillus cereus G9241]
 gi|49180593|gb|AAT55969.1| N utilization substance protein A [Bacillus anthracis str. Sterne]
 gi|49330968|gb|AAT61614.1| N utilization substance protein A [Bacillus thuringiensis serovar
           konkukian str. 97-27]
 gi|51975143|gb|AAU16693.1| N utilization substance protein A [Bacillus cereus E33L]
 gi|118418261|gb|ABK86680.1| N utilization substance protein A [Bacillus thuringiensis str. Al
           Hakam]
 gi|164711651|gb|EDR17197.1| N utilization substance protein A [Bacillus anthracis str. A0488]
 gi|167512188|gb|EDR87565.1| N utilization substance protein A [Bacillus anthracis str. A0193]
 gi|170128288|gb|EDS97157.1| N utilization substance protein A [Bacillus anthracis str. A0389]
 gi|172082415|gb|EDT67480.1| N utilization substance protein A [Bacillus anthracis str. A0174]
 gi|190560473|gb|EDV14451.1| N utilization substance protein A [Bacillus anthracis
           Tsiankovskii-I]
 gi|196024688|gb|EDX63360.1| N utilization substance protein A [Bacillus cereus 03BB108]
 gi|196027028|gb|EDX65652.1| N utilization substance protein A [Bacillus cereus NVH0597-99]
 gi|206743350|gb|EDZ54790.1| N utilization substance protein A [Bacillus cereus H3081.97]
 gi|217063696|gb|ACJ77946.1| N utilization substance protein A [Bacillus cereus AH187]
 gi|218538022|gb|ACK90420.1| N utilization substance protein A [Bacillus cereus AH820]
 gi|221241318|gb|ACM14028.1| N utilization substance protein A [Bacillus cereus Q1]
 gi|225790987|gb|ACO31204.1| N utilization substance protein A [Bacillus cereus 03BB102]
 gi|227004195|gb|ACP13938.1| N utilization substance protein A [Bacillus anthracis str. CDC 684]
 gi|228585644|gb|EEK43746.1| Transcription elongation protein nusA [Bacillus cereus m1293]
 gi|228597472|gb|EEK55122.1| Transcription elongation protein nusA [Bacillus cereus BGSC 6E1]
 gi|228643018|gb|EEK99294.1| Transcription elongation protein nusA [Bacillus cereus BDRD-ST26]
 gi|228660105|gb|EEL15741.1| Transcription elongation protein nusA [Bacillus cereus 95/8201]
 gi|228690478|gb|EEL44261.1| Transcription elongation protein nusA [Bacillus cereus Rock3-42]
 gi|228772737|gb|EEM21177.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar tochigiensis BGSC 4Y1]
 gi|228812055|gb|EEM58386.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar monterrey BGSC 4AJ1]
 gi|228830671|gb|EEM76276.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar pondicheriensis BGSC 4BA1]
 gi|228843032|gb|EEM88114.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar pulsiensis BGSC 4CC1]
 gi|229266904|gb|ACQ48541.1| N utilization substance protein A [Bacillus anthracis str. A0248]
 gi|300377475|gb|ADK06379.1| transcription elongation factor NusA [Bacillus cereus biovar
           anthracis str. CI]
 gi|324327710|gb|ADY22970.1| transcription elongation factor NusA [Bacillus thuringiensis
           serovar finitimus YBT-020]
          Length = 368

 Score =  283 bits (725), Expect = 4e-74,   Method: Compositional matrix adjust.
 Identities = 147/352 (41%), Positives = 223/352 (63%), Gaps = 10/352 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NP+ G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPQVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V + +  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVHAENID 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ +V EL+ EKIDIV WS D   +V NAL P+ V KV++DE+   
Sbjct: 244 VDPVGSCVGPKGQRVQRIVDELKGEKIDIVRWSNDPVEYVANALSPSQVVKVLVDEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE----------EEDSI 349
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E          EEDS+
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGIVTEEDSV 355


>gi|229157392|ref|ZP_04285470.1| Transcription elongation protein nusA [Bacillus cereus ATCC 4342]
 gi|228626119|gb|EEK82868.1| Transcription elongation protein nusA [Bacillus cereus ATCC 4342]
          Length = 368

 Score =  283 bits (724), Expect = 4e-74,   Method: Compositional matrix adjust.
 Identities = 147/352 (41%), Positives = 223/352 (63%), Gaps = 10/352 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NP+ G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPQVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V + +  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVHAENID 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ +V EL+ EKIDIV WS D   +V NAL P+ V KV++DE+   
Sbjct: 244 VDPVGSCVGPKGQRVQRIVDELKGEKIDIVRWSNDPVEYVANALSPSQVVKVLVDEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE----------EEDSI 349
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E          EEDS+
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGIVTEEDSV 355


>gi|75760860|ref|ZP_00740874.1| N utilization substance protein A [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
 gi|228902319|ref|ZP_04066476.1| Transcription elongation protein nusA [Bacillus thuringiensis IBL
           4222]
 gi|74491644|gb|EAO54846.1| N utilization substance protein A [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
 gi|228857288|gb|EEN01791.1| Transcription elongation protein nusA [Bacillus thuringiensis IBL
           4222]
          Length = 368

 Score =  283 bits (724), Expect = 5e-74,   Method: Compositional matrix adjust.
 Identities = 149/352 (42%), Positives = 222/352 (63%), Gaps = 10/352 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  N E G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNTEVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V + +  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVHAENID 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ VV EL+ EKIDIV WS D   +V NAL P+ V KV++DED   
Sbjct: 244 VDPVGSCVGPKGQRVQRVVDELKGEKIDIVRWSNDPVEYVANALSPSQVVKVLVDEDEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE----------EEDSI 349
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E          EEDS+
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGIVTEEDSV 355


>gi|257898238|ref|ZP_05677891.1| transcription termination factor NusA [Enterococcus faecium Com15]
 gi|257836150|gb|EEV61224.1| transcription termination factor NusA [Enterococcus faecium Com15]
          Length = 391

 Score =  283 bits (724), Expect = 5e-74,   Method: Compositional matrix adjust.
 Identities = 150/362 (41%), Positives = 228/362 (62%), Gaps = 3/362 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L   DA+  EK I +++V+  +  ++  A +  YG   ++ VE +   G I ++ + E
Sbjct: 4   EMLNALDALEAEKGISKEIVIDALEAALVSAYKRHYGQAQNVEVEFDQIKGKIHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V EEV +   ++SLK A   +P+ +IG  +   + P DFGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VTEEVMDSQLEVSLKDALLINPAYEIGDTIRFEVTPKDFGRIAAQTAKQVILQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF     +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K Y+ 
Sbjct: 124 TIIYNEFSAYEKDIMQGIVERQDKRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVYVS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SR+HP  + +LF  EVPE+Y+GIV++ +++R+ G R+K+AV S+D +
Sbjct: 184 RVENTSKGPQVFVSRSHPDLLRRLFEQEVPEVYDGIVEIVSIAREAGDRSKVAVRSNDQN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VG CVG +G RVQA+V EL+ E +DIV W+ D A F+ NAL PA V  V+ DE   +
Sbjct: 244 IDAVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAVFIANALNPAQVMDVIFDETNPK 303

Query: 308 -IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE--DSINRQKDFNERTQFFMQ 364
              V+VP  QLSLAIG+RGQN RLA++LT   IDI +E +  +   +Q+  NE  +   +
Sbjct: 304 ACTVVVPDYQLSLAIGKRGQNARLAAKLTNHKIDIKSESDMAEFYEKQEQQNETEELHDE 363

Query: 365 AI 366
           AI
Sbjct: 364 AI 365


>gi|293556649|ref|ZP_06675214.1| transcription termination factor NusA [Enterococcus faecium E1039]
 gi|291601184|gb|EFF31471.1| transcription termination factor NusA [Enterococcus faecium E1039]
          Length = 391

 Score =  283 bits (724), Expect = 5e-74,   Method: Compositional matrix adjust.
 Identities = 145/338 (42%), Positives = 218/338 (64%), Gaps = 1/338 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L   DA+  EK I +++V+  +  ++  A +  YG   ++ VE + + G I ++ + E
Sbjct: 4   EMLNALDALEAEKGISKEIVIDALEAALVSAYKRHYGQAQNVEVEFDQKKGKIHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V EEV +   ++SLK A   +P+ +IG  +   + P DFGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VTEEVMDSQLEVSLKDALLINPAYEIGDTIRFEVTPKDFGRIAAQTAKQVILQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF     +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K Y+ 
Sbjct: 124 TIIYNEFSAYEKDIMQGIVERQDKRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVYVS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SR+HP  + +LF  EVPE+Y+GIV++ +++R+ G R+K+AV S+D +
Sbjct: 184 RVENTSKGPQVFVSRSHPDLLRRLFEQEVPEVYDGIVEIVSIAREAGDRSKVAVRSNDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VG CVG +G RVQA+V EL+ E +DIV W+ D A F+ NAL PA V  V+ DE   +
Sbjct: 244 IDAVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAVFIANALNPAQVMDVIFDETNPK 303

Query: 308 -IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              V+VP  QLSLAIG+RGQN RLA++LT   IDI +E
Sbjct: 304 ACTVVVPDYQLSLAIGKRGQNARLAAKLTNHKIDIKSE 341


>gi|90961545|ref|YP_535461.1| transcription elongation factor NusA [Lactobacillus salivarius
           UCC118]
 gi|227890633|ref|ZP_04008438.1| transcription elongation factor NusA [Lactobacillus salivarius ATCC
           11741]
 gi|90820739|gb|ABD99378.1| N utilization substance protein A [Lactobacillus salivarius UCC118]
 gi|227867571|gb|EEJ74992.1| transcription elongation factor NusA [Lactobacillus salivarius ATCC
           11741]
          Length = 375

 Score =  283 bits (724), Expect = 5e-74,   Method: Compositional matrix adjust.
 Identities = 145/338 (42%), Positives = 220/338 (65%), Gaps = 1/338 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   +A+  EK + +++V+  +  ++  A +  YG   ++ VE +   G+I ++ + E
Sbjct: 4   ELLNALNALEVEKGVKKEIVIEALEAALVSAYKRNYGQAQNVEVEFDKIAGNIHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV EV +   +ISLK A + + + +IG  + + + P DFGR+A Q+AKQVI+Q+VR+ ER
Sbjct: 64  VVNEVYDSQLEISLKSALEINRAYEIGDTIREEVTPKDFGRIAAQTAKQVIMQRVRKEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y E+     EI++G V+R +   V V+LG  + V+ R + I  E  +  D++K YIY
Sbjct: 124 EVIYNEYVQYEQEIVTGEVERRDNKFVYVNLGRIEAVLSRQDQIPGEEYKSHDKIKVYIY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SR+HP  + +LF  E+PEI++G V++ ++SR+ G RAK+AV S++  
Sbjct: 184 KVENTSKGPQVFVSRSHPDLLRRLFEQEIPEIFDGTVEIVSISREAGDRAKVAVRSNEDG 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVG 306
           +DPVG CVG RG RVQA+V EL+ E +DIV W  D A ++ NAL PA V  V   DE+  
Sbjct: 244 VDPVGTCVGPRGERVQAIVNELKGENMDIVEWREDPAEYIANALNPAKVLDVRFDDENEH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              V+VP +QLSLAIG+RGQN RLA++LTG+ IDI +E
Sbjct: 304 ACTVVVPDDQLSLAIGKRGQNARLAARLTGYKIDIKSE 341


>gi|320144367|gb|EFW36133.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus MRSA177]
          Length = 391

 Score =  283 bits (724), Expect = 5e-74,   Method: Compositional matrix adjust.
 Identities = 146/337 (43%), Positives = 220/337 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R V++  +  ++  A +  Y +  ++RVE+N + G   +    +
Sbjct: 5   ELLLATEYLEKEKKIPRAVLIDAIEAALITAYKKNYDSARNVRVELNMDQGTFKVIARKD 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   ++ L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDDRVEVDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R+K Y+ 
Sbjct: 125 EILFEEFIDKEEDILTGIIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++VFS ++ 
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISVFSENND 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++DE    
Sbjct: 245 IDAVGACVGAKGARVEAVVEELGGEKIDIVQWNEDPKVFVKNALSPSQVLEVIVDETNQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 305 TVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 341


>gi|152976182|ref|YP_001375699.1| transcription elongation factor NusA [Bacillus cereus subsp.
           cytotoxis NVH 391-98]
 gi|152024934|gb|ABS22704.1| NusA antitermination factor [Bacillus cytotoxicus NVH 391-98]
          Length = 366

 Score =  283 bits (724), Expect = 5e-74,   Method: Compositional matrix adjust.
 Identities = 143/337 (42%), Positives = 218/337 (64%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NPE G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPEVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQNGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V++ +  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVYAENID 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ +V EL+ EKIDIV WS D   +V NAL P+ V  V+++E+   
Sbjct: 244 VDPVGSCVGPKGQRVQRIVDELKGEKIDIVRWSNDPVEYVANALSPSQVVSVLVNEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 304 TTVIVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSE 340


>gi|228935130|ref|ZP_04097957.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar andalousiensis BGSC 4AW1]
 gi|228824495|gb|EEM70300.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar andalousiensis BGSC 4AW1]
          Length = 368

 Score =  283 bits (724), Expect = 5e-74,   Method: Compositional matrix adjust.
 Identities = 147/352 (41%), Positives = 223/352 (63%), Gaps = 10/352 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NP+ G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPQVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V + +  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVHAENID 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ +V EL+ EKIDIV WS D   +V NAL P+ V KV++DE+   
Sbjct: 244 VDPVGSCVGPKGQRVQRIVDELKGEKIDIVRWSNDPVEYVANALSPSQVLKVLVDEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE----------EEDSI 349
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E          EEDS+
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGIVTEEDSV 355


>gi|170288839|ref|YP_001739077.1| NusA antitermination factor [Thermotoga sp. RQ2]
 gi|281412459|ref|YP_003346538.1| NusA antitermination factor [Thermotoga naphthophila RKU-10]
 gi|170176342|gb|ACB09394.1| NusA antitermination factor [Thermotoga sp. RQ2]
 gi|281373562|gb|ADA67124.1| NusA antitermination factor [Thermotoga naphthophila RKU-10]
          Length = 344

 Score =  283 bits (724), Expect = 5e-74,   Method: Compositional matrix adjust.
 Identities = 141/334 (42%), Positives = 224/334 (67%), Gaps = 1/334 (0%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           LL+  D +  EK I ++ V+ ++  ++  A R  +G   ++ V I+  TG+I +++LLEV
Sbjct: 5   LLEALDQLEEEKGISKEEVIPILEKALVSAYRKNFGNSKNVEVVIDRNTGNIRVYQLLEV 64

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VEEVE+   QISL+ A+  DP  ++G +V   L   +FGR+A Q+AKQV+IQ++RE E++
Sbjct: 65  VEEVEDPATQISLEEAKKIDPLAEVGSIVKKELNVKNFGRIAAQTAKQVLIQRIRELEKE 124

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
           +Q+ ++ +  G + +  V RV      + +G  +  + + E I  E ++ GD VK YI D
Sbjct: 125 KQFEKYSELKGTVTTAEVIRVTSEWADIRIGKLETRLPKKEWIPGEEIKAGDLVKVYIID 184

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  +GP++L+SR  P+F++ L  +E+PE+ NGIV++KA++R+PG R K+AV S+D ++
Sbjct: 185 VVKTTKGPKILVSRRVPEFVIGLMKLEIPEVENGIVEIKAIAREPGVRTKVAVASNDPNV 244

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           DP+GAC+G  GSR+ A++ EL+ EK+D++ WS D    + NAL PA V +V +LD++   
Sbjct: 245 DPIGACIGEGGSRIAAILKELKGEKLDVLKWSDDPKQLIANALAPATVIEVEILDKENKA 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 305 ARVLVPPTQLSLAIGKGGQNARLAAKLTGWKIDI 338


>gi|69246862|ref|ZP_00604154.1| Transcription termination factor NusA [Enterococcus faecium DO]
 gi|257882944|ref|ZP_05662597.1| transcription termination factor NusA [Enterococcus faecium
           1,231,502]
 gi|257884342|ref|ZP_05663995.1| transcription termination factor NusA [Enterococcus faecium
           1,231,501]
 gi|257889277|ref|ZP_05668930.1| transcription termination factor NusA [Enterococcus faecium
           1,231,410]
 gi|260560111|ref|ZP_05832289.1| transcription termination factor NusA [Enterococcus faecium C68]
 gi|261207401|ref|ZP_05922087.1| transcription termination factor NusA [Enterococcus faecium TC 6]
 gi|289566677|ref|ZP_06447094.1| transcription termination factor NusA [Enterococcus faecium
           D344SRF]
 gi|293560200|ref|ZP_06676702.1| transcription termination factor NusA [Enterococcus faecium E1162]
 gi|293567723|ref|ZP_06679065.1| transcription termination factor NusA [Enterococcus faecium E1071]
 gi|294613937|ref|ZP_06693872.1| transcription termination factor NusA [Enterococcus faecium E1636]
 gi|294620763|ref|ZP_06699970.1| transcription termination factor NusA [Enterococcus faecium U0317]
 gi|314937505|ref|ZP_07844838.1| transcription termination factor NusA [Enterococcus faecium
           TX0133a04]
 gi|314942164|ref|ZP_07849018.1| transcription termination factor NusA [Enterococcus faecium
           TX0133C]
 gi|314947496|ref|ZP_07850911.1| transcription termination factor NusA [Enterococcus faecium TX0082]
 gi|314951483|ref|ZP_07854532.1| transcription termination factor NusA [Enterococcus faecium
           TX0133A]
 gi|314992573|ref|ZP_07857991.1| transcription termination factor NusA [Enterococcus faecium
           TX0133B]
 gi|314995492|ref|ZP_07860592.1| transcription termination factor NusA [Enterococcus faecium
           TX0133a01]
 gi|68195043|gb|EAN09506.1| Transcription termination factor NusA [Enterococcus faecium DO]
 gi|257818602|gb|EEV45930.1| transcription termination factor NusA [Enterococcus faecium
           1,231,502]
 gi|257820180|gb|EEV47328.1| transcription termination factor NusA [Enterococcus faecium
           1,231,501]
 gi|257825637|gb|EEV52263.1| transcription termination factor NusA [Enterococcus faecium
           1,231,410]
 gi|260073946|gb|EEW62270.1| transcription termination factor NusA [Enterococcus faecium C68]
 gi|260078292|gb|EEW65997.1| transcription termination factor NusA [Enterococcus faecium TC 6]
 gi|289161536|gb|EFD09419.1| transcription termination factor NusA [Enterococcus faecium
           D344SRF]
 gi|291589566|gb|EFF21372.1| transcription termination factor NusA [Enterococcus faecium E1071]
 gi|291593212|gb|EFF24786.1| transcription termination factor NusA [Enterococcus faecium E1636]
 gi|291599743|gb|EFF30753.1| transcription termination factor NusA [Enterococcus faecium U0317]
 gi|291605872|gb|EFF35304.1| transcription termination factor NusA [Enterococcus faecium E1162]
 gi|313590326|gb|EFR69171.1| transcription termination factor NusA [Enterococcus faecium
           TX0133a01]
 gi|313592865|gb|EFR71710.1| transcription termination factor NusA [Enterococcus faecium
           TX0133B]
 gi|313596323|gb|EFR75168.1| transcription termination factor NusA [Enterococcus faecium
           TX0133A]
 gi|313599087|gb|EFR77932.1| transcription termination factor NusA [Enterococcus faecium
           TX0133C]
 gi|313643146|gb|EFS07726.1| transcription termination factor NusA [Enterococcus faecium
           TX0133a04]
 gi|313646046|gb|EFS10626.1| transcription termination factor NusA [Enterococcus faecium TX0082]
          Length = 391

 Score =  283 bits (723), Expect = 6e-74,   Method: Compositional matrix adjust.
 Identities = 145/338 (42%), Positives = 218/338 (64%), Gaps = 1/338 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L   DA+  EK I +++V+  +  ++  A +  YG   ++ VE + + G I ++ + E
Sbjct: 4   EMLNALDALEAEKGISKEIVIDALEAALVSAYKRHYGQAQNVEVEFDQKKGKIHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V EEV +   ++SLK A   +P+ +IG  +   + P DFGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VTEEVMDSQLEVSLKDALLINPAYEIGDTIRFEVTPKDFGRIAAQTAKQVILQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF     +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K Y+ 
Sbjct: 124 TIIYNEFSAYEKDIMQGIVERQDKRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVYVS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SR+HP  + +LF  EVPE+Y+GIV++ +++R+ G R+K+AV S+D +
Sbjct: 184 RVENTSKGPQVFVSRSHPDLLRRLFEQEVPEVYDGIVEIVSIAREAGDRSKVAVRSNDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VG CVG +G RVQA+V EL+ E +DIV W+ D A F+ NAL PA V  V+ DE   +
Sbjct: 244 IDAVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAVFIANALNPAQVMDVIFDETNPK 303

Query: 308 -IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              V+VP  QLSLAIG+RGQN RLA++LT   IDI +E
Sbjct: 304 ACTVVVPDYQLSLAIGKRGQNARLAAKLTNHKIDIKSE 341


>gi|227499286|ref|ZP_03929398.1| transcription termination factor NusA [Anaerococcus tetradius ATCC
           35098]
 gi|227218637|gb|EEI83871.1| transcription termination factor NusA [Anaerococcus tetradius ATCC
           35098]
          Length = 407

 Score =  283 bits (723), Expect = 6e-74,   Method: Compositional matrix adjust.
 Identities = 148/381 (38%), Positives = 242/381 (63%), Gaps = 11/381 (2%)

Query: 14  DAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVE 73
           D +  EK++D+  +L  +  ++ K+ +  Y    ++ V I+ ETG I ++ L E+V+EV 
Sbjct: 10  DELCKEKNLDKPTILDALQKALIKSYQKNYDNQENVDVIIDEETGKIEVYALKEIVDEVN 69

Query: 74  NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
           +   +ISLK AR  +P+  +G +    L P +FGRVA Q+A+ ++IQK+R+A+RD  Y E
Sbjct: 70  DNIVEISLKDARVINPTYRLGDIARIKLTPKNFGRVAAQTARNIVIQKIRDAQRDSLYGE 129

Query: 134 FKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
           + ++  E+I+GT++R +  NV V+L   +G++   E +S E   P  R+K  I +VR   
Sbjct: 130 YIERANEMITGTIQREDKYNVYVNLDKIEGIVPAKEQVSTEKYLPNARMKFLIKEVRNSS 189

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
           + PQ++LSR     + +LF +EVPEI +GI+++ +++R+ GSR K+AVFS+D +ID +GA
Sbjct: 190 KEPQIILSRASQDLITRLFELEVPEITDGIIEIYSLAREAGSRTKMAVFSNDENIDAIGA 249

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVP 313
           C+G +G+RV ++V EL+ EKIDI+ +  D   F+ NAL PA + KV+++E   +  V+V 
Sbjct: 250 CIGFKGARVNSIVEELQGEKIDIINFDKDIKVFISNALSPADIIKVLVNEKNKQSLVVVA 309

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE---------DSINRQKDFNERTQFFMQ 364
            +QLSLAIG+ GQN RLA++LTGW IDI + EE         D I    + +E +Q   +
Sbjct: 310 SDQLSLAIGKEGQNARLAARLTGWKIDIKSSEEFEKLSQVDIDEILGLNELDEESQLSEE 369

Query: 365 AINVDEIIAHLLVAEGFADVE 385
           +++ DE    L V+E + + E
Sbjct: 370 SLSKDE--EDLEVSEDYDNKE 388


>gi|302387320|ref|YP_003823142.1| transcription termination factor NusA [Clostridium saccharolyticum
           WM1]
 gi|302197948|gb|ADL05519.1| transcription termination factor NusA [Clostridium saccharolyticum
           WM1]
          Length = 400

 Score =  283 bits (723), Expect = 6e-74,   Method: Compositional matrix adjust.
 Identities = 144/337 (42%), Positives = 220/337 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL+  + +  E +I +D +L  + +S+  A ++ +G   +I+V IN ET D ++F   E
Sbjct: 4   ELLEALNILEKENNISKDTLLEAIENSLLTACKNHFGKADNIKVSINRETCDFNVFAEKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE+   QISL  A+  DP  D+G V+  P+    FGR+A Q+AK VI+QK+RE  R
Sbjct: 64  VVETVEDPLLQISLAEAKMTDPKYDVGDVIHCPIDSKKFGRIATQNAKNVILQKIREEGR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              + ++  +  E+++G V+R    NV ++LG  D ++   E +  E  +  +R+K ++ 
Sbjct: 124 KSLFNDWYCQEREVVTGIVQRYLGRNVSINLGKVDAILNETEMVKGEVFKATERIKVFVL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP++ +SRTHP  + +LF  EV E+ +G V++KA++R+ GSR K+AV S+D++
Sbjct: 184 EVKDTPKGPRISVSRTHPDLVKRLFESEVAEVKDGTVEIKAIAREAGSRTKIAVKSNDAN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG+ G+RV ++V ELR EKIDI+ W  + A  + NAL PA V  VV DE    
Sbjct: 244 VDPVGACVGLNGARVNSIVNELRGEKIDIINWDDNPAYLIENALSPAKVICVVADEVSKE 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            +VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 304 AQVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSE 340


>gi|300854498|ref|YP_003779482.1| transcription elongation protein [Clostridium ljungdahlii DSM
           13528]
 gi|300434613|gb|ADK14380.1| transcription elongation protein [Clostridium ljungdahlii DSM
           13528]
          Length = 354

 Score =  283 bits (723), Expect = 7e-74,   Method: Compositional matrix adjust.
 Identities = 141/338 (41%), Positives = 223/338 (65%), Gaps = 4/338 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLF 63
           E ++    +  EK I  D++ + + D++  A +  Y        +++V +N E G+I ++
Sbjct: 4   EFIEALKEIVKEKGISEDLLFTTIEDALVAAYKKNYMGHGAGSQNVKVTMNRENGEIHVY 63

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
               VVEEV +   +IS++ A+  D S ++G + +  + P  FGRVA Q+AKQV+IQ+++
Sbjct: 64  SQKNVVEEVCDKFGEISVEDAKSMDSSYEVGDIANIEVTPRKFGRVAAQAAKQVVIQRIK 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           E ER   Y +F +K  +II+GTV R +  NV++DLG ++ V+  +E I  E     D++K
Sbjct: 124 EEERRIIYSDFAEKEDDIITGTVIRKDKNNVLIDLGKTEAVLGPNEQIPGEKYNFNDKLK 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            YI +V+   +G Q+++SRTHP  + +LF +EVPEI++G V +K+++R+ GSR K+AV S
Sbjct: 184 LYIIEVKNTTKGAQIVISRTHPGLIKRLFELEVPEIFDGTVDIKSIAREAGSRTKIAVHS 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D ++DP+GACVG +G RVQ +V EL++EKIDI+ WS     ++ N+L PA V  V L+E
Sbjct: 244 NDENVDPMGACVGPKGVRVQNIVNELKNEKIDIIKWSKLPEEYIANSLSPAKVLDVDLNE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           D+   +++V   QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 304 DIKFAQIVVDDNQLSLAIGKEGQNVRLAAKLTGWKIDI 341


>gi|331082958|ref|ZP_08332078.1| transcription termination factor NusA [Lachnospiraceae bacterium
           6_1_63FAA]
 gi|330399953|gb|EGG79611.1| transcription termination factor NusA [Lachnospiraceae bacterium
           6_1_63FAA]
          Length = 384

 Score =  283 bits (723), Expect = 7e-74,   Method: Compositional matrix adjust.
 Identities = 144/337 (42%), Positives = 221/337 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL+  + +  EKSI +D +L  +  S+ +A ++ +G   +I+V INPET D  +     
Sbjct: 4   ELLEALNILEKEKSISKDTLLEAIEQSLIQACKNHFGKADNIKVNINPETCDFGVLAEKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISL  A+  +    +G +V+  +   +FGR+A Q+AK VI+QK+RE ER
Sbjct: 64  VVEEVYDPVTEISLADAKMMNSQYGLGDIVNVEIKSKEFGRIATQNAKNVILQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              + ++  K  ++++G V+R    N  ++LG +D ++  +E +  E  +P +R+K YI 
Sbjct: 124 KVIFDQYYGKEKDVVTGIVQRSLGRNYSINLGKADAILTENEQVKTEVFKPTERIKVYIL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP++++SRTHP+ + +LF  EV EI +G V+VK+++R+ GSR K+AV+S+D  
Sbjct: 184 EVKDAPKGPKIMVSRTHPELVKRLFEAEVTEIKDGTVEVKSIAREAGSRTKIAVWSNDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG+ G+RV +VV ELR EKIDI+ WS + A  + NAL PA V  V  D +   
Sbjct: 244 VDPVGACVGINGARVNSVVEELRGEKIDIINWSDNPALLIENALSPAKVISVTADPEEKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 304 ATVIVPDFQLSLAIGKEGQNARLAARLTGFKIDIKSE 340


>gi|260438329|ref|ZP_05792145.1| transcription termination factor NusA [Butyrivibrio crossotus DSM
           2876]
 gi|292808916|gb|EFF68121.1| transcription termination factor NusA [Butyrivibrio crossotus DSM
           2876]
          Length = 366

 Score =  283 bits (723), Expect = 7e-74,   Method: Compositional matrix adjust.
 Identities = 138/339 (40%), Positives = 220/339 (64%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+   D +  EK I + V++  + +S+  A ++ +G   +   +++ +TGD  +    E
Sbjct: 4   ELITALDILEKEKKISKKVLIEAIENSLLAACKNHFGKNENFTAKVDTKTGDFKVTAAKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE+   QISL  A+   P  +IG  ++  +   +FGR+AVQ++K  I+QK+RE ER
Sbjct: 64  VVETVEDSVTQISLADAQMISPKYNIGDTINVEIKSAEFGRIAVQNSKSAILQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+  K  +I++G V R    N++++LG +D ++   + +  E  +P DR+K Y+ 
Sbjct: 124 QAVYNEYHAKEKDIVTGIVSRYAGNNLVINLGRADAILSEADMVKGEKYKPNDRIKVYVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+ E++G ++ +SR HP+F+ +LF  EV E+ +G V++++++R+ GSR K+AV+S + +
Sbjct: 184 EVKTEKKGLKIAVSRCHPEFVKRLFEAEVAELRDGTVEIRSIAREAGSRTKMAVWSKNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG+ GSRV AVV+EL  EKIDI+ WS + A  + NAL PA V  V  D +   
Sbjct: 244 VDPVGSCVGVNGSRVNAVVSELNGEKIDIINWSKNPANLIENALSPAKVVYVAADAEEKT 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            +VIVP  QLSLAIGR GQN RLA++LTG+ IDI +E +
Sbjct: 304 AQVIVPDYQLSLAIGREGQNARLAARLTGFKIDIKSESQ 342


>gi|15644522|ref|NP_229574.1| transcription elongation factor NusA [Thermotoga maritima MSB8]
 gi|16975175|pdb|1HH2|P Chain P, Crystal Structure Of Nusa From Thermotoga Maritima
 gi|4982355|gb|AAD36840.1|AE001815_14 N utilization substance protein A [Thermotoga maritima MSB8]
          Length = 344

 Score =  283 bits (723), Expect = 7e-74,   Method: Compositional matrix adjust.
 Identities = 141/334 (42%), Positives = 224/334 (67%), Gaps = 1/334 (0%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           LL+  D +  EK I ++ V+ ++  ++  A R  +G   ++ V I+  TG+I +++LLEV
Sbjct: 5   LLEALDQLEEEKGISKEEVIPILEKALVSAYRKNFGNSKNVEVVIDRNTGNIKVYQLLEV 64

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VEEVE+   QISL+ A+  DP  ++G +V   L   +FGR+A Q+AKQV+IQ++RE E++
Sbjct: 65  VEEVEDPATQISLEEAKKIDPLAEVGSIVKKELNVKNFGRIAAQTAKQVLIQRIRELEKE 124

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
           +Q+ ++ +  G + +  V RV      + +G  +  + + E I  E ++ GD VK YI D
Sbjct: 125 KQFEKYSELKGTVTTAEVIRVMGEWADIRIGKLETRLPKKEWIPGEEIKAGDLVKVYIID 184

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  +GP++L+SR  P+F++ L  +E+PE+ NGIV++KA++R+PG R K+AV S+D ++
Sbjct: 185 VVKTTKGPKILVSRRVPEFVIGLMKLEIPEVENGIVEIKAIAREPGVRTKVAVASNDPNV 244

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           DP+GAC+G  GSR+ A++ EL+ EK+D++ WS D    + NAL PA V +V +LD++   
Sbjct: 245 DPIGACIGEGGSRIAAILKELKGEKLDVLKWSDDPKQLIANALAPATVIEVEILDKENKA 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 305 ARVLVPPTQLSLAIGKGGQNARLAAKLTGWKIDI 338


>gi|320108355|ref|YP_004183945.1| NusA antitermination factor [Terriglobus saanensis SP1PR4]
 gi|319926876|gb|ADV83951.1| NusA antitermination factor [Terriglobus saanensis SP1PR4]
          Length = 562

 Score =  282 bits (722), Expect = 8e-74,   Method: Compositional matrix adjust.
 Identities = 167/420 (39%), Positives = 248/420 (59%), Gaps = 14/420 (3%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLF---RL 65
           L Q  + ++ +K ID  +V+  + D+I  A R  Y T  ++R E + E+G+I  +    +
Sbjct: 5   LYQAIELMSRDKGIDPQIVVGAVEDAIALATRKFYKTQENMRGEFDKESGEIRAYVYKTV 64

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           +E  E+VE+   Q++L  A++    +++G  +         GR+A Q AKQVI QKVREA
Sbjct: 65  VEGAEQVEDAENQLTLDQAKELAGEVEVGAELRFYKDTSPLGRIAAQMAKQVIFQKVREA 124

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ERD  + E+  +VGEI++ TVKRVE  +VIVDL  ++  + + E    E    G+R++  
Sbjct: 125 ERDTVFNEYNHRVGEILNATVKRVEPMDVIVDLDKAEARMPKREQSRLEQFAVGERIRVA 184

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V R  +GPQV++SR  P  +  LF  EVPEIY+G V ++A++R+ G R K+AV S D
Sbjct: 185 LIRVDRAAKGPQVIVSRAAPSLVQNLFQSEVPEIYDGTVMIRAIAREAGERTKIAVVSRD 244

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
             +DPVGACVGM+G RVQ+++ ELR EKIDI+ +S +  TF   AL+PA V +V + D  
Sbjct: 245 KDVDPVGACVGMKGMRVQSIIRELRGEKIDIIEFSEEITTFAEKALQPAKVARVSITDLA 304

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF--- 361
             +IEVIV   QLSLAIG++GQNVRLA++L GW IDI +EEE    RQ+   + +     
Sbjct: 305 EKQIEVIVDDTQLSLAIGKKGQNVRLAAKLLGWKIDIKSEEE---KRQEVEQQMSAMQGA 361

Query: 362 ----FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
                 Q   + E +   L+A G   VE LA +   E+  + G  E++  +I    R Y 
Sbjct: 362 PQTPIEQVTELGESVLEKLIAAGITTVESLADMTAEELEEVPGIGEKSVEKITVAVRHYF 421


>gi|314933445|ref|ZP_07840810.1| transcription termination factor NusA [Staphylococcus caprae C87]
 gi|313653595|gb|EFS17352.1| transcription termination factor NusA [Staphylococcus caprae C87]
          Length = 407

 Score =  282 bits (722), Expect = 8e-74,   Method: Compositional matrix adjust.
 Identities = 146/337 (43%), Positives = 220/337 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   +    E
Sbjct: 5   ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGSFRVIARKE 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   ++ L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDDRDEVDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF DK  +I++G + RV++  V V+ G  + V+   E    E+  P +R+K Y+ 
Sbjct: 125 EILYDEFIDKEEDILTGVIDRVDHRYVYVNFGRIEAVLSEAERSPNESYIPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V+S    
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISVYSEKPD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++DE+   
Sbjct: 245 IDAVGACVGSKGARVEAVVEELGGEKIDIVQWNEDPKVFVRNALSPSQVLEVIVDEENQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 305 TVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 341


>gi|315652148|ref|ZP_07905146.1| transcription termination factor NusA [Eubacterium saburreum DSM
           3986]
 gi|315485640|gb|EFU76024.1| transcription termination factor NusA [Eubacterium saburreum DSM
           3986]
          Length = 386

 Score =  282 bits (722), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 145/333 (43%), Positives = 220/333 (66%), Gaps = 6/333 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEV------E 73
           K+I +  +L  + +S+  A ++ +GT  +++V +NP T D S+ +  EVVE +      E
Sbjct: 16  KNISKAAILEAIENSLISACKNSFGTADNVKVSVNPTTCDYSIIQAKEVVESLGNKPSLE 75

Query: 74  NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
           +   +ISL  AR ++P++ +G  V  P+   +FGR+A   AK VI+QK+RE ER   + +
Sbjct: 76  DRATKISLAEARMQNPNLGVGDTVLVPVISKEFGRIAAGVAKNVILQKIREEERKVIFND 135

Query: 134 FKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
           +  K  +I+SG V R    N+ ++LG  D V+   E +  E+L+ GDR+K ++ +V+   
Sbjct: 136 YYMKERDIVSGVVTRFMGKNIAINLGKIDAVLAESEQVKGEDLKLGDRLKVFVLEVKDNP 195

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
           +GP++ +SRTHP+F+ +LF  +VPEI +G+V++K+++R+ GSR K+AV S +  IDPVGA
Sbjct: 196 KGPRISVSRTHPEFVKRLFEAQVPEIRDGVVEIKSIAREAGSRTKIAVCSHEPDIDPVGA 255

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVP 313
           CVG+ G RV AVV ELRDEK+DIV W  + A  + NAL PA V  VV DE+    +VIVP
Sbjct: 256 CVGVDGVRVNAVVEELRDEKVDIVNWDDNPAYLIENALSPAKVIAVVADEETKEADVIVP 315

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             QLSLAIG+ GQN RLA++LTG+ IDI +E +
Sbjct: 316 DYQLSLAIGKEGQNARLAARLTGYKIDIKSESQ 348


>gi|260589530|ref|ZP_05855443.1| transcription termination factor NusA [Blautia hansenii DSM 20583]
 gi|260540098|gb|EEX20667.1| transcription termination factor NusA [Blautia hansenii DSM 20583]
          Length = 384

 Score =  282 bits (721), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 144/337 (42%), Positives = 221/337 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL+  + +  EKSI +D +L  +  S+ +A ++ +G   +I+V INPET D  +     
Sbjct: 4   ELLEALNILEKEKSISKDTLLEAIEQSLIQACKNHFGKADNIKVNINPETCDFGVLAEKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISL  A+  +    +G +V+  +   +FGR+A Q+AK VI+QK+RE ER
Sbjct: 64  VVEEVYDPVTEISLADAKMMNSQYGLGDIVNVEIKSKEFGRIATQNAKNVILQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              + ++  K  ++++G V+R    N  ++LG +D ++  +E +  E  +P +R+K YI 
Sbjct: 124 KVIFDQYYGKEKDVVTGIVQRSLGRNYSINLGKADAILTENEQVKTEVFKPTERIKVYIL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP++++SRTHP+ + +LF  EV EI +G V+VK+++R+ GSR K+AV+S+D  
Sbjct: 184 EVKDAPKGPKIMVSRTHPELVKRLFEAEVTEIKDGTVEVKSIAREAGSRTKIAVWSNDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG+ G+RV +VV ELR EKIDI+ WS + A  + NAL PA V  V  D +   
Sbjct: 244 VDPVGACVGINGARVNSVVEELRGEKIDIINWSDNPALLIENALSPAKVISVTADPEEKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 304 ATVIVPDFQLSLAIGKEGQNARLAARLTGFKIDIKSE 340


>gi|148270198|ref|YP_001244658.1| transcription elongation factor NusA [Thermotoga petrophila RKU-1]
 gi|147735742|gb|ABQ47082.1| NusA antitermination factor [Thermotoga petrophila RKU-1]
          Length = 344

 Score =  282 bits (721), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 142/334 (42%), Positives = 223/334 (66%), Gaps = 1/334 (0%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           LL+  D +  EK I ++ V+ ++  ++  A R  +G   ++ V I+  TG+I +++LLEV
Sbjct: 5   LLEALDQLEEEKGISKEEVIPILEKALVSAYRKNFGNSKNVEVVIDRNTGNIKVYQLLEV 64

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VEEVE+   QIS++ A+  DP  ++G VV   L   +FGR+A Q+AKQV+IQ++RE E++
Sbjct: 65  VEEVEDPATQISIEEAKKVDPLAEVGSVVKKELNVKNFGRIAAQTAKQVLIQRIRELEKE 124

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
           +Q+ ++ +  G + +  V RV      + +G  +  + + E I  E +  GD VK YI D
Sbjct: 125 KQFEKYSELKGTVTTAEVIRVTGEWADIRIGKLETRLPKKEWIPDEEIEAGDLVKVYIID 184

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  +GP++L+SR  P+F++ L  +E+PE+ NGIV++KA++R+PG R K+AV S+D ++
Sbjct: 185 VVKTTKGPKILVSRRVPEFVIGLMKLEIPEVENGIVEIKAIAREPGVRTKVAVSSNDPNV 244

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           DP+GAC+G  GSR+ A++ EL+ EK+D++ WS D    + NAL PA V +V +LD++   
Sbjct: 245 DPIGACIGEGGSRIAAILKELKGEKLDVLKWSDDPKQLIANALAPATVIEVEILDKENKA 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             VIVP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 305 ARVIVPPTQLSLAIGKGGQNARLAAKLTGWKIDI 338


>gi|217967593|ref|YP_002353099.1| NusA antitermination factor [Dictyoglomus turgidum DSM 6724]
 gi|217336692|gb|ACK42485.1| NusA antitermination factor [Dictyoglomus turgidum DSM 6724]
          Length = 360

 Score =  282 bits (721), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 145/335 (43%), Positives = 219/335 (65%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +  EK +D++VVL  +  ++  A +  YGT    RVEIN    +I+++ + ++VE+
Sbjct: 10  VLEQIITEKKLDKNVVLEALRKALLSAFKKAYGTSKGARVEINFNKQEINIYVVKKIVEK 69

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
           V +   +ISL+ A+   P   IG  +   + P +FGR+AVQ AKQVI+Q ++EAER   Y
Sbjct: 70  VNDNISEISLEEAKSLKPDAKIGDEIEIEIEPQEFGRIAVQVAKQVIMQSLKEAERKILY 129

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRR 191
            ++K K GE+++GTV RVE GNV V   + + ++   E I  E    G R+++Y+ +VR+
Sbjct: 130 EKYKAKEGELVNGTVVRVEKGNVYVRFPDIEAILPVKEQIPGEEYWIGRRLRAYLLEVRK 189

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPV 251
             + P V+LSR+HP F+ +LF +EVPEI  G V++ +++R+PG R+K+AV+S    +DP+
Sbjct: 190 TTKDPLVILSRSHPGFLKRLFELEVPEIREGTVEIVSIAREPGMRSKVAVYSHLPEVDPI 249

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI 311
           GACVG +G R+Q ++ EL  EKIDIV+WS D A FV  +L PA    V + ED  +  VI
Sbjct: 250 GACVGYKGVRIQNIINELNGEKIDIVLWSKDPAEFVARSLSPAKPLSVEIREDEHKAIVI 309

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           VP +Q SLAIG+ GQNVRLA +LT W ID+ T E+
Sbjct: 310 VPPDQFSLAIGKDGQNVRLAVKLTSWRIDVRTPEQ 344


>gi|37926540|pdb|1L2F|A Chain A, Crystal Structure Of Nusa From Thermotoga Maritima: A
           Structure-Based Role Of The N-Terminal Domain
          Length = 369

 Score =  282 bits (721), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 141/334 (42%), Positives = 224/334 (67%), Gaps = 1/334 (0%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           LL+  D +  EK I ++ V+ ++  ++  A R  +G   ++ V I+  TG+I +++LLEV
Sbjct: 30  LLEALDQLEEEKGISKEEVIPILEKALVSAYRKNFGNSKNVEVVIDRNTGNIKVYQLLEV 89

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VEEVE+   QISL+ A+  DP  ++G +V   L   +FGR+A Q+AKQV+IQ++RE E++
Sbjct: 90  VEEVEDPATQISLEEAKKIDPLAEVGSIVKKELNVKNFGRIAAQTAKQVLIQRIRELEKE 149

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
           +Q+ ++ +  G + +  V RV      + +G  +  + + E I  E ++ GD VK YI D
Sbjct: 150 KQFEKYSELKGTVTTAEVIRVXGEWADIRIGKLETRLPKKEWIPGEEIKAGDLVKVYIID 209

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  +GP++L+SR  P+F++ L  +E+PE+ NGIV++KA++R+PG R K+AV S+D ++
Sbjct: 210 VVKTTKGPKILVSRRVPEFVIGLXKLEIPEVENGIVEIKAIAREPGVRTKVAVASNDPNV 269

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           DP+GAC+G  GSR+ A++ EL+ EK+D++ WS D    + NAL PA V +V +LD++   
Sbjct: 270 DPIGACIGEGGSRIAAILKELKGEKLDVLKWSDDPKQLIANALAPATVIEVEILDKENKA 329

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 330 ARVLVPPTQLSLAIGKGGQNARLAAKLTGWKIDI 363


>gi|303233744|ref|ZP_07320398.1| transcription termination factor NusA [Finegoldia magna BVS033A4]
 gi|302495178|gb|EFL54930.1| transcription termination factor NusA [Finegoldia magna BVS033A4]
          Length = 422

 Score =  282 bits (721), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 144/340 (42%), Positives = 218/340 (64%), Gaps = 6/340 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM------SDIRVEINPETGDIS 61
           + ++  D +   K I R+VV   +  ++ K+    +         S + V IN + G ++
Sbjct: 4   DFIKALDELEKSKKIPREVVFDALEKALIKSYEKNFDYQDHENEESSVEVNINRDNGKVN 63

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+ +  VVE VE+   +ISL+ A+      D+G  +   + P +FGR+A Q+A+ ++IQK
Sbjct: 64  LYAIKTVVESVEDKNTEISLEEAKAIKHKYDLGDKIKIEITPKNFGRIAAQTARNIVIQK 123

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +++AERD  Y EF D+  EII+GTV+RVE G V +DLG  +G+I   E I  E   P  R
Sbjct: 124 LKDAERDNIYNEFIDREKEIITGTVQRVERGIVYIDLGRVEGIIPVSEQIKTEEYIPNKR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K +I +V+   +G Q++LSRT    + +LF +EVPEI +G V++ +V+R+PGSR K+AV
Sbjct: 184 LKLFIKEVKNTTKGAQIILSRTDNSLIKRLFELEVPEINDGTVEIFSVAREPGSRTKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           FS+D ++DPVG+CVG  G+RV+++V EL  EK+DIV+WS D  TF+ N+L P+ V    +
Sbjct: 244 FSNDENVDPVGSCVGFSGTRVKSIVDELNGEKLDIVIWSKDIKTFISNSLSPSEVIATFI 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           DE      VIV ++QLSLAIG+ GQN RLA++LT W IDI
Sbjct: 304 DEGQKICRVIVSEDQLSLAIGKEGQNARLAAKLTNWKIDI 343


>gi|312898335|ref|ZP_07757725.1| transcription termination factor NusA [Megasphaera micronuciformis
           F0359]
 gi|310620254|gb|EFQ03824.1| transcription termination factor NusA [Megasphaera micronuciformis
           F0359]
          Length = 375

 Score =  282 bits (721), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 148/339 (43%), Positives = 217/339 (64%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + ++ EK +  DV+   +   +  A +  Y    +  V ++  TGD S+     
Sbjct: 4   ELLSAIEYLSKEKGVTADVICDSLEAVLITAYKKEYDGNPNATVRLDRLTGDYSIVSPKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV EV +   +ISL+ AR  D   + G  +   + P +FGR+A Q+AKQV+IQ++REAER
Sbjct: 64  VVAEVADEENEISLEDARAIDKGYEEGDEILVDVTPKNFGRIAAQAAKQVMIQRLREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF  +  +II+G ++R+E  NV +DLG ++ V+   E I  E    G R+K Y+ 
Sbjct: 124 NIVYDEFYGRTDDIITGIIQRIEQKNVYIDLGKAEAVLPYSEQIPTEEYTVGQRIKCYVV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +VR   +G Q+ LSRTHP  + +LF +EVPEIY+G+V++ +V+R+PG R+K+AV+S D +
Sbjct: 184 EVRNSPKGAQIQLSRTHPGLLKRLFELEVPEIYDGVVELHSVAREPGKRSKIAVYSRDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +D VGACVG +G+RVQ +V EL++EKIDIV W  D A ++ NAL PA V  V +DE    
Sbjct: 244 VDCVGACVGPKGARVQNIVMELQNEKIDIVKWDEDPAVYIANALSPAQVVSVTIDEGAKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             V+VP  QLSLAIG+ GQN RLA++LT W IDI +E +
Sbjct: 304 SVVVVPDYQLSLAIGKAGQNARLAAKLTNWKIDIKSESQ 342


>gi|169824466|ref|YP_001692077.1| transcription terminator [Finegoldia magna ATCC 29328]
 gi|167831271|dbj|BAG08187.1| transcription terminator [Finegoldia magna ATCC 29328]
          Length = 422

 Score =  282 bits (721), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 144/340 (42%), Positives = 218/340 (64%), Gaps = 6/340 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM------SDIRVEINPETGDIS 61
           + ++  D +   K I R+VV   +  ++ K+    +         S + V IN + G ++
Sbjct: 4   DFIKALDELEKSKKIPREVVFDALEKALIKSYEKNFDYQDHENEESSVEVNINRDNGKVN 63

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+ +  VVE VE+   +ISL+ A+      D+G  +   + P +FGR+A Q+A+ ++IQK
Sbjct: 64  LYAIKTVVESVEDKNTEISLEEAKAIKHKYDLGDKIKIEITPKNFGRIAAQTARNIVIQK 123

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +++AERD  Y EF D+  EII+GTV+RVE G V +DLG  +G+I   E I  E   P  R
Sbjct: 124 LKDAERDNIYNEFIDREKEIITGTVQRVERGIVYIDLGRVEGIIPVSEQIKTEEYIPNKR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K +I +V+   +G Q++LSRT    + +LF +EVPEI +G V++ +V+R+PGSR K+AV
Sbjct: 184 LKLFIKEVKNTTKGAQIILSRTDNSLIKRLFELEVPEINDGTVEIFSVAREPGSRTKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           FS+D ++DPVG+CVG  G+RV+++V EL  EK+DIV+WS D  TF+ N+L P+ V    +
Sbjct: 244 FSNDENVDPVGSCVGFSGTRVKSIVDELNGEKLDIVIWSKDIKTFISNSLSPSEVIATFI 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           DE      VIV ++QLSLAIG+ GQN RLA++LT W IDI
Sbjct: 304 DEAQKICRVIVSEDQLSLAIGKEGQNARLAAKLTNWKIDI 343


>gi|167635811|ref|ZP_02394120.1| N utilization substance protein A [Bacillus anthracis str. A0442]
 gi|170687901|ref|ZP_02879115.1| N utilization substance protein A [Bacillus anthracis str. A0465]
 gi|254683477|ref|ZP_05147337.1| transcription elongation factor NusA [Bacillus anthracis str.
           CNEVA-9066]
 gi|254739620|ref|ZP_05197314.1| transcription elongation factor NusA [Bacillus anthracis str.
           Kruger B]
 gi|167528768|gb|EDR91526.1| N utilization substance protein A [Bacillus anthracis str. A0442]
 gi|170668217|gb|EDT18966.1| N utilization substance protein A [Bacillus anthracis str. A0465]
          Length = 368

 Score =  282 bits (721), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 147/352 (41%), Positives = 223/352 (63%), Gaps = 10/352 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NP+ G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPQVGIIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V + +  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVHAENID 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ +V EL+ EKIDIV WS D   +V NAL P+ V KV++DE+   
Sbjct: 244 VDPVGSCVGPKGQRVQRIVDELKGEKIDIVRWSNDPVEYVANALSPSQVVKVLVDEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE----------EEDSI 349
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E          EEDS+
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGIVTEEDSV 355


>gi|228992544|ref|ZP_04152471.1| Transcription elongation protein nusA [Bacillus pseudomycoides DSM
           12442]
 gi|228998592|ref|ZP_04158179.1| Transcription elongation protein nusA [Bacillus mycoides Rock3-17]
 gi|229006092|ref|ZP_04163780.1| Transcription elongation protein nusA [Bacillus mycoides Rock1-4]
 gi|228755168|gb|EEM04525.1| Transcription elongation protein nusA [Bacillus mycoides Rock1-4]
 gi|228761060|gb|EEM10019.1| Transcription elongation protein nusA [Bacillus mycoides Rock3-17]
 gi|228767178|gb|EEM15814.1| Transcription elongation protein nusA [Bacillus pseudomycoides DSM
           12442]
          Length = 366

 Score =  282 bits (721), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 142/337 (42%), Positives = 219/337 (64%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NPE G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPEVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++++V+R+ G R+K++V++ +  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEIEVPEIYDGTVEIRSVAREAGDRSKISVYAENID 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ +V EL+ EKIDIV WS D   +V NAL P+ V KV+++E+   
Sbjct: 244 VDPVGSCVGPKGQRVQRIVDELKGEKIDIVRWSNDPIEYVANALSPSQVVKVLVNEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSE 340


>gi|257425320|ref|ZP_05601745.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus 55/2053]
 gi|257427981|ref|ZP_05604379.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus 65-1322]
 gi|257430614|ref|ZP_05606996.1| transcription termination-antitermination factor [Staphylococcus
           aureus subsp. aureus 68-397]
 gi|257433374|ref|ZP_05609732.1| transcription termination-antitermination factor [Staphylococcus
           aureus subsp. aureus E1410]
 gi|257436216|ref|ZP_05612263.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus M876]
 gi|282914043|ref|ZP_06321830.1| N utilization substance protein A [Staphylococcus aureus subsp.
           aureus M899]
 gi|282924088|ref|ZP_06331764.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus C101]
 gi|293501075|ref|ZP_06666926.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus 58-424]
 gi|293510037|ref|ZP_06668745.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus M809]
 gi|293526623|ref|ZP_06671308.1| N utilization substance protein A [Staphylococcus aureus subsp.
           aureus M1015]
 gi|257271777|gb|EEV03915.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus 55/2053]
 gi|257274822|gb|EEV06309.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus 65-1322]
 gi|257278742|gb|EEV09361.1| transcription termination-antitermination factor [Staphylococcus
           aureus subsp. aureus 68-397]
 gi|257281467|gb|EEV11604.1| transcription termination-antitermination factor [Staphylococcus
           aureus subsp. aureus E1410]
 gi|257284498|gb|EEV14618.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus M876]
 gi|282314060|gb|EFB44452.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus C101]
 gi|282322111|gb|EFB52435.1| N utilization substance protein A [Staphylococcus aureus subsp.
           aureus M899]
 gi|290920695|gb|EFD97758.1| N utilization substance protein A [Staphylococcus aureus subsp.
           aureus M1015]
 gi|291096080|gb|EFE26341.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus 58-424]
 gi|291466981|gb|EFF09499.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus M809]
          Length = 391

 Score =  282 bits (721), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 146/337 (43%), Positives = 220/337 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R V++  +  ++  A +  Y +  ++RVE+N + G   +    +
Sbjct: 5   ELLLATEYLEKEKKIPRAVLIDAIEAALITAYKKNYDSARNVRVELNMDQGTFKVIARKD 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   ++ L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDDRDEVDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R+K Y+ 
Sbjct: 125 EILFEEFIDKEEDILTGIIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++VFS ++ 
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISVFSENND 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++DE    
Sbjct: 245 IDAVGACVGAKGARVEAVVEELGGEKIDIVQWNEDPKVFVKNALSPSQVLEVIVDETNQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 305 TVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 341


>gi|282916526|ref|ZP_06324284.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus D139]
 gi|283770330|ref|ZP_06343222.1| N utilization substance protein A [Staphylococcus aureus subsp.
           aureus H19]
 gi|282319013|gb|EFB49365.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus D139]
 gi|283460477|gb|EFC07567.1| N utilization substance protein A [Staphylococcus aureus subsp.
           aureus H19]
          Length = 391

 Score =  282 bits (721), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 146/337 (43%), Positives = 220/337 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R V++  +  ++  A +  Y +  ++RVE+N + G   +    +
Sbjct: 5   ELLLATEYLEKEKKIPRAVLIDAIEAALITAYKKNYDSARNVRVELNMDQGTFKVIARKD 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   ++ L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDDRDEVDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R+K Y+ 
Sbjct: 125 EILFEEFIDKEEDILTGIIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++VFS ++ 
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISVFSENND 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++DE    
Sbjct: 245 IDAVGACVGAKGARVEAVVEELGGEKIDIVQWNEDPKVFVKNALSPSQVLEVIVDETNQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 305 TVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 341


>gi|49483429|ref|YP_040653.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus MRSA252]
 gi|82750867|ref|YP_416608.1| transcription elongation factor NusA [Staphylococcus aureus RF122]
 gi|258423893|ref|ZP_05686778.1| transcription termination factor NusA [Staphylococcus aureus A9635]
 gi|282903821|ref|ZP_06311709.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus C160]
 gi|282905584|ref|ZP_06313439.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus Btn1260]
 gi|282908559|ref|ZP_06316389.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus WW2703/97]
 gi|282910838|ref|ZP_06318641.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus WBG10049]
 gi|282918965|ref|ZP_06326700.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus C427]
 gi|283958009|ref|ZP_06375460.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus A017934/97]
 gi|295427753|ref|ZP_06820385.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus EMRSA16]
 gi|297591289|ref|ZP_06949927.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus MN8]
 gi|49241558|emb|CAG40244.1| putative N utilization substance protein A [Staphylococcus aureus
           subsp. aureus MRSA252]
 gi|82656398|emb|CAI80817.1| transcription termination-antitermination factor [Staphylococcus
           aureus RF122]
 gi|257845922|gb|EEV69951.1| transcription termination factor NusA [Staphylococcus aureus A9635]
 gi|282316775|gb|EFB47149.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus C427]
 gi|282325443|gb|EFB55752.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus WBG10049]
 gi|282327621|gb|EFB57904.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus WW2703/97]
 gi|282330876|gb|EFB60390.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus Btn1260]
 gi|282595439|gb|EFC00403.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus C160]
 gi|283790158|gb|EFC28975.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus A017934/97]
 gi|295128111|gb|EFG57745.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus EMRSA16]
 gi|297576175|gb|EFH94891.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus MN8]
 gi|302332872|gb|ADL23065.1| transcription termination-antitermination factor [Staphylococcus
           aureus subsp. aureus JKD6159]
 gi|312438354|gb|ADQ77425.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus TCH60]
 gi|315194154|gb|EFU24547.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus CGS00]
 gi|323441046|gb|EGA98753.1| transcription elongation factor NusA [Staphylococcus aureus O11]
 gi|323443915|gb|EGB01526.1| transcription elongation factor NusA [Staphylococcus aureus O46]
          Length = 391

 Score =  281 bits (720), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 146/337 (43%), Positives = 220/337 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R V++  +  ++  A +  Y +  ++RVE+N + G   +    +
Sbjct: 5   ELLLATEYLEKEKKIPRAVLIDAIEAALITAYKKNYDSARNVRVELNMDQGTFKVIARKD 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   ++ L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDDRDEVDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R+K Y+ 
Sbjct: 125 EILFEEFIDKEEDILTGIIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++VFS ++ 
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISVFSENND 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++DE    
Sbjct: 245 IDAVGACVGAKGARVEAVVEELGGEKIDIVQWNEDPKVFVKNALSPSQVLEVIVDETNQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 305 TVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 341


>gi|15924256|ref|NP_371790.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus Mu50]
 gi|15926849|ref|NP_374382.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus N315]
 gi|148267756|ref|YP_001246699.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus JH9]
 gi|150393815|ref|YP_001316490.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus JH1]
 gi|156979587|ref|YP_001441846.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus Mu3]
 gi|253315622|ref|ZP_04838835.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus str. CF-Marseille]
 gi|253733496|ref|ZP_04867661.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus TCH130]
 gi|255006053|ref|ZP_05144654.2| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus Mu50-omega]
 gi|257795678|ref|ZP_05644657.1| transcription termination factor NusA [Staphylococcus aureus A9781]
 gi|258416081|ref|ZP_05682349.1| transcription termination-antitermination factor [Staphylococcus
           aureus A9763]
 gi|258421664|ref|ZP_05684588.1| transcription termination factor NusA [Staphylococcus aureus A9719]
 gi|258444604|ref|ZP_05692933.1| transcription termination-antitermination factor [Staphylococcus
           aureus A8115]
 gi|258447563|ref|ZP_05695707.1| transcription termination-antitermination factor [Staphylococcus
           aureus A6300]
 gi|258449405|ref|ZP_05697508.1| transcription termination-antitermination factor [Staphylococcus
           aureus A6224]
 gi|258454784|ref|ZP_05702748.1| transcription termination-antitermination factor [Staphylococcus
           aureus A5937]
 gi|269202883|ref|YP_003282152.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus ED98]
 gi|282892754|ref|ZP_06300989.1| transcription termination factor NusA [Staphylococcus aureus A8117]
 gi|282927608|ref|ZP_06335224.1| transcription termination factor NusA [Staphylococcus aureus
           A10102]
 gi|295406203|ref|ZP_06816010.1| transcription termination factor NusA [Staphylococcus aureus A8819]
 gi|296274824|ref|ZP_06857331.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus MR1]
 gi|297244431|ref|ZP_06928314.1| transcription termination factor NusA [Staphylococcus aureus A8796]
 gi|13701066|dbj|BAB42361.1| transcription termination-antitermination factor [Staphylococcus
           aureus subsp. aureus N315]
 gi|14247036|dbj|BAB57428.1| transcription termination-antitermination factor [Staphylococcus
           aureus subsp. aureus Mu50]
 gi|147740825|gb|ABQ49123.1| NusA antitermination factor [Staphylococcus aureus subsp. aureus
           JH9]
 gi|149946267|gb|ABR52203.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus JH1]
 gi|156721722|dbj|BAF78139.1| transcription termination-antitermination factor [Staphylococcus
           aureus subsp. aureus Mu3]
 gi|253728550|gb|EES97279.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus TCH130]
 gi|257789650|gb|EEV27990.1| transcription termination factor NusA [Staphylococcus aureus A9781]
 gi|257839229|gb|EEV63705.1| transcription termination-antitermination factor [Staphylococcus
           aureus A9763]
 gi|257842350|gb|EEV66775.1| transcription termination factor NusA [Staphylococcus aureus A9719]
 gi|257850097|gb|EEV74050.1| transcription termination-antitermination factor [Staphylococcus
           aureus A8115]
 gi|257853754|gb|EEV76713.1| transcription termination-antitermination factor [Staphylococcus
           aureus A6300]
 gi|257857393|gb|EEV80291.1| transcription termination-antitermination factor [Staphylococcus
           aureus A6224]
 gi|257863167|gb|EEV85931.1| transcription termination-antitermination factor [Staphylococcus
           aureus A5937]
 gi|262075173|gb|ACY11146.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus ED98]
 gi|282590611|gb|EFB95688.1| transcription termination factor NusA [Staphylococcus aureus
           A10102]
 gi|282764751|gb|EFC04876.1| transcription termination factor NusA [Staphylococcus aureus A8117]
 gi|285816948|gb|ADC37435.1| Transcription termination protein NusA [Staphylococcus aureus
           04-02981]
 gi|294968791|gb|EFG44813.1| transcription termination factor NusA [Staphylococcus aureus A8819]
 gi|297178461|gb|EFH37707.1| transcription termination factor NusA [Staphylococcus aureus A8796]
 gi|312829660|emb|CBX34502.1| transcription elongation protein nusA [Staphylococcus aureus subsp.
           aureus ECT-R 2]
 gi|315131060|gb|EFT87044.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus CGS03]
 gi|329727637|gb|EGG64093.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus 21172]
          Length = 391

 Score =  281 bits (720), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 146/337 (43%), Positives = 220/337 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R V++  +  ++  A +  Y +  ++RVE+N + G   +    +
Sbjct: 5   ELLLATEYLEKEKKIPRAVLIDAIEAALITAYKKNYDSARNVRVELNMDQGTFKVIARKD 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   ++ L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDDRDEVDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R+K Y+ 
Sbjct: 125 EILFEEFIDKEEDILTGIIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++VFS ++ 
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISVFSENND 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++DE    
Sbjct: 245 IDAVGACVGAKGARVEAVVEELGGEKIDIVQWNEDPKVFVKNALSPSQVLEVIVDETNQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 305 TVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 341


>gi|283470481|emb|CAQ49692.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus ST398]
          Length = 391

 Score =  281 bits (720), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 146/337 (43%), Positives = 220/337 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R V++  +  ++  A +  Y +  ++RVE+N + G   +    +
Sbjct: 5   ELLLATEYLEKEKKIPRAVLIDAIEAALITAYKKNYDSARNVRVELNMDQGTFKVIARKD 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   ++ L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDDRDEVDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R+K Y+ 
Sbjct: 125 EILFEEFIDKEEDILTGIIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++VFS ++ 
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISVFSENND 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++DE    
Sbjct: 245 IDAVGACVGAKGARVEAVVEELGGEKIDIVQWNEDPKVFVKNALSPSQVLEVIVDETNQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 305 TVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 341


>gi|57651836|ref|YP_186142.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus COL]
 gi|87160356|ref|YP_493856.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus USA300_FPR3757]
 gi|88194976|ref|YP_499776.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus NCTC 8325]
 gi|151221388|ref|YP_001332210.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus str. Newman]
 gi|161509432|ref|YP_001575091.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus USA300_TCH1516]
 gi|221142500|ref|ZP_03566993.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus str. JKD6009]
 gi|258452565|ref|ZP_05700571.1| transcription termination-antitermination factor [Staphylococcus
           aureus A5948]
 gi|262048158|ref|ZP_06021045.1| transcription elongation factor NusA [Staphylococcus aureus D30]
 gi|262051328|ref|ZP_06023551.1| transcription elongation factor NusA [Staphylococcus aureus
           930918-3]
 gi|282920510|ref|ZP_06328231.1| transcription termination factor NusA [Staphylococcus aureus A9765]
 gi|284024259|ref|ZP_06378657.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus 132]
 gi|294848262|ref|ZP_06789009.1| transcription termination factor NusA [Staphylococcus aureus A9754]
 gi|304381170|ref|ZP_07363823.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus ATCC BAA-39]
 gi|57286022|gb|AAW38116.1| N utilization substance protein A, putative [Staphylococcus aureus
           subsp. aureus COL]
 gi|87126330|gb|ABD20844.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus USA300_FPR3757]
 gi|87202534|gb|ABD30344.1| transcription termination-antitermination factor, putative
           [Staphylococcus aureus subsp. aureus NCTC 8325]
 gi|150374188|dbj|BAF67448.1| transcription termination-antitermination factor [Staphylococcus
           aureus subsp. aureus str. Newman]
 gi|160368241|gb|ABX29212.1| N utilization substance A [Staphylococcus aureus subsp. aureus
           USA300_TCH1516]
 gi|257859783|gb|EEV82625.1| transcription termination-antitermination factor [Staphylococcus
           aureus A5948]
 gi|259160703|gb|EEW45724.1| transcription elongation factor NusA [Staphylococcus aureus
           930918-3]
 gi|259163724|gb|EEW48279.1| transcription elongation factor NusA [Staphylococcus aureus D30]
 gi|269940757|emb|CBI49139.1| putative N utilization substance protein A [Staphylococcus aureus
           subsp. aureus TW20]
 gi|282594172|gb|EFB99159.1| transcription termination factor NusA [Staphylococcus aureus A9765]
 gi|294825062|gb|EFG41484.1| transcription termination factor NusA [Staphylococcus aureus A9754]
 gi|302751089|gb|ADL65266.1| transcription termination-antitermination factor [Staphylococcus
           aureus subsp. aureus str. JKD6008]
 gi|304340153|gb|EFM06094.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus ATCC BAA-39]
 gi|315198508|gb|EFU28837.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus CGS01]
 gi|320140917|gb|EFW32764.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus MRSA131]
 gi|329313936|gb|AEB88349.1| NusA antitermination factor [Staphylococcus aureus subsp. aureus
           T0131]
 gi|329727836|gb|EGG64287.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus 21189]
 gi|329733550|gb|EGG69878.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus 21193]
          Length = 391

 Score =  281 bits (720), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 146/337 (43%), Positives = 220/337 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R V++  +  ++  A +  Y +  ++RVE+N + G   +    +
Sbjct: 5   ELLLATEYLEKEKKIPRAVLIDAIEAALITAYKKNYDSARNVRVELNMDQGTFKVIARKD 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   ++ L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDDRDEVDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R+K Y+ 
Sbjct: 125 EILFEEFIDKEEDILTGIIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++VFS ++ 
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISVFSENND 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++DE    
Sbjct: 245 IDAVGACVGAKGARVEAVVEELGGEKIDIVQWNEDPKVFVKNALSPSQVLEVIVDETNQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 305 TVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 341


>gi|304404290|ref|ZP_07385952.1| transcription termination factor NusA [Paenibacillus
           curdlanolyticus YK9]
 gi|304347268|gb|EFM13100.1| transcription termination factor NusA [Paenibacillus
           curdlanolyticus YK9]
          Length = 366

 Score =  281 bits (720), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 141/340 (41%), Positives = 223/340 (65%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +E ++    +  EK I +D+++  +  ++  + +  + T  ++RV++N  TG I ++   
Sbjct: 3   MEFIEALQEIEREKGISKDILIDAIEAALISSYKRNFNTAQNVRVDVNRFTGVIKVYARK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VV+EV +   +I+++ AR+ +P   +  +    + P DFGR+A Q+AKQV+ Q++REAE
Sbjct: 63  TVVDEVLDSRMEITVEAAREINPHYQLDDIADIEVTPRDFGRIAAQTAKQVVTQRIREAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R   Y  F DK  +I++G V+R +  N+ VDLG  + V+   E +  +  + GDRVKS+I
Sbjct: 123 RGLIYNAFIDKEEDIVNGIVQRQDTRNLFVDLGKVEAVLPLTELMPTDKFKHGDRVKSFI 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V    +GPQ+++SRTHP  + +LF +EVPEIY+G+V++++V+R+ G R+K+AV S + 
Sbjct: 183 TKVENTTKGPQIIMSRTHPGLLKRLFELEVPEIYDGVVEIRSVAREAGFRSKIAVHSRNV 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVG+CVG +G RVQ +V EL+ EKIDIV WS +   +V NAL P+ V +V++ E   
Sbjct: 243 EVDPVGSCVGPKGMRVQTIVNELKGEKIDIVRWSENIDEYVANALSPSKVLEVIVFEQEK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
              VIVP  QLSLAIG +GQN RLA++LTGW IDI +E +
Sbjct: 303 MARVIVPDYQLSLAIGIKGQNARLAAKLTGWKIDIKSETQ 342


>gi|167766535|ref|ZP_02438588.1| hypothetical protein CLOSS21_01041 [Clostridium sp. SS2/1]
 gi|317498935|ref|ZP_07957218.1| transcription termination factor NusA [Lachnospiraceae bacterium
           5_1_63FAA]
 gi|167711658|gb|EDS22237.1| hypothetical protein CLOSS21_01041 [Clostridium sp. SS2/1]
 gi|291558575|emb|CBL37375.1| transcription termination factor NusA [butyrate-producing bacterium
           SSC/2]
 gi|316893768|gb|EFV15967.1| transcription termination factor NusA [Lachnospiraceae bacterium
           5_1_63FAA]
          Length = 395

 Score =  281 bits (720), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 144/338 (42%), Positives = 223/338 (65%), Gaps = 1/338 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+   + +  EK ID+DV++  + +S+  A +  +G+  ++ V ++ ETGDI ++ + E
Sbjct: 3   ELIAALNQLEKEKGIDKDVIMEAIENSLLAACKRDFGSADNVVVNMDRETGDIYVYAIKE 62

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISL  A+  D ++++G  V   + P DFGR+A   A+ VI+QK++E ER
Sbjct: 63  VVDEVYDPALEISLGKAKAIDQNLNLGDTVRIEITPKDFGRIAAMHARSVIVQKIKEEER 122

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
              Y  F  K  +I++G V+R    NV V L + +D ++ + E I  E  +P +R+K YI
Sbjct: 123 RVVYDHFYCKEKDIVTGVVQRYVGENVSVSLDDKTDALLMKSEQIRGEVFKPTERIKLYI 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V+   RGP++L+SRTHP  + +LF  EV EI +G V++K + R+ GSR K+AV+S+D 
Sbjct: 183 VEVKETNRGPRILVSRTHPDLVKRLFEKEVAEIQDGTVEIKNIVREAGSRTKMAVWSNDK 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           ++DPVGACVG+ G+RV A+V +L+ EKIDI+ W+ D   F+ NAL P+ V  V +D +  
Sbjct: 243 NVDPVGACVGLNGARVNAIVNDLKGEKIDIINWNEDPCVFIENALSPSKVVSVAVDVEEK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             EV+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 303 SAEVVVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSE 340


>gi|253682577|ref|ZP_04863374.1| transcription termination factor NusA [Clostridium botulinum D str.
           1873]
 gi|253562289|gb|EES91741.1| transcription termination factor NusA [Clostridium botulinum D str.
           1873]
          Length = 348

 Score =  281 bits (720), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 145/341 (42%), Positives = 223/341 (65%), Gaps = 5/341 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLF 63
           E ++    +  EK I+  ++   + D++  A +  Y    G   +++V I+ E G+I ++
Sbjct: 4   EFIEALREIVKEKGIEEQLLFDTVEDALVSAYKKNYAKVGGNSQNVKVTIDRENGEIHVY 63

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
              + +EE      +ISL+ AR+ +P  ++G +V   + P  FGR+A Q+AKQV+IQ+++
Sbjct: 64  -AQKRIEEDPLTINEISLEEAREINPKYEMGDIVDLEVTPKSFGRIAAQTAKQVVIQRIK 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           EAER   Y EF  K  +II+GTV R + GNV VDL  ++ V+  +E I  E     D++K
Sbjct: 123 EAERKVIYNEFIAKEFDIITGTVIRKDKGNVFVDLEKTEAVLGPNEQIPSEEYNFNDKLK 182

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            YI +V+   +GPQV++SRTHP  + +LF +EVPEIY G+V++K+++R+ GSR K+AV+S
Sbjct: 183 LYIVEVKNTTKGPQVVVSRTHPGLVKRLFELEVPEIYEGVVEIKSIAREAGSRTKIAVYS 242

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D ++D  GACVG +G RVQ +V EL++EKIDI+ W  D   ++ NAL PA V  V +DE
Sbjct: 243 NDENVDATGACVGPKGMRVQNIVNELKNEKIDIIKWDKDPEKYIANALSPARVVNVEIDE 302

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +    +++V   QLSLAIG+ GQNVRLA++LTGW IDI +E
Sbjct: 303 ENKSAKIVVEDGQLSLAIGKEGQNVRLAAKLTGWKIDIKSE 343


>gi|258434820|ref|ZP_05688894.1| transcription termination-antitermination factor [Staphylococcus
           aureus A9299]
 gi|257849181|gb|EEV73163.1| transcription termination-antitermination factor [Staphylococcus
           aureus A9299]
          Length = 391

 Score =  281 bits (720), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 146/337 (43%), Positives = 220/337 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R V++  +  ++  A +  Y +  ++RVE+N + G   +    +
Sbjct: 5   ELLLATEYLEKEKKIPRAVLIDAIEAALITAYKKNYDSARNVRVELNMDQGTFKVIARKD 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   ++ L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDDRDEVDLSTALVKNPAYEIGDIYEEDVTPNDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R+K Y+ 
Sbjct: 125 EILFEEFIDKEEDILTGIIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++VFS ++ 
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISVFSENND 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++DE    
Sbjct: 245 IDAVGACVGAKGARVEAVVEELGGEKIDIVQWNEDPKVFVKNALSPSQVLEVIVDETNQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 305 TVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 341


>gi|225848027|ref|YP_002728190.1| transcription termination factor NusA [Sulfurihydrogenibium
           azorense Az-Fu1]
 gi|225644454|gb|ACN99504.1| transcription termination factor NusA [Sulfurihydrogenibium
           azorense Az-Fu1]
          Length = 370

 Score =  281 bits (720), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 156/358 (43%), Positives = 226/358 (63%), Gaps = 18/358 (5%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD-IRVEINPETGDISLFRL 65
           ++L  + + VA EK+I  +V+   + D I  A +  Y   +D I+V  + +  ++ +   
Sbjct: 3   IKLKNVIETVAKEKNIPEEVIERALKDGIFVAVKKEYKLRNDQIKVIYDKDKDELKVLIK 62

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            +V   VE+   +ISL+ A+  +P++D G  V  PL   D GR+A+  AK+VI +KV   
Sbjct: 63  KKVTPFVEDEKKEISLEEAKKYNPNVDYGKFVEVPLDLEDIGRIALSVAKEVIAEKVSRV 122

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ERD  Y EFK+  G+II+GTV+R E  ++IVDLG  + ++ ++E I +E  + GDRV++ 
Sbjct: 123 ERDILYKEFKEYEGKIITGTVRRFEGEDIIVDLGRVEAILPKEEQIPKEKYKIGDRVRAL 182

Query: 186 IYDVRREQR-----------------GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKA 228
           +  V +E +                 GP ++LSRTHP F+ KL  +EVPEI  G ++VKA
Sbjct: 183 VLKVLKENKYPILEKGKVKRVIKVSEGPLIILSRTHPNFLKKLLEIEVPEIQEGEIEVKA 242

Query: 229 VSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVI 288
           V+R+PG RAK+AV++ D +IDPVG  VG++GSR+Q V  EL DEKID++ WS D A FVI
Sbjct: 243 VAREPGERAKVAVYTKDKNIDPVGVVVGLKGSRIQNVSNELSDEKIDVIEWSEDPARFVI 302

Query: 289 NALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            AL PA  TK  L     RIEV VPKE+LSLAIG+ G N +LA +LTGW IDI++EE+
Sbjct: 303 RALSPARPTKYRLLPKEKRIEVAVPKEELSLAIGKNGINAKLAHKLTGWHIDILSEED 360


>gi|320159637|ref|YP_004172861.1| transcription elongation protein NusA [Anaerolinea thermophila
           UNI-1]
 gi|319993490|dbj|BAJ62261.1| transcription elongation protein NusA [Anaerolinea thermophila
           UNI-1]
          Length = 633

 Score =  281 bits (719), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 147/329 (44%), Positives = 217/329 (65%), Gaps = 6/329 (1%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVE--INPETGDISLFRLLEVVEEVENYT 76
           EK + RDV+L  +  ++  A R      +  +VE  ++ +TG ++++   EVVE+V    
Sbjct: 15  EKQLPRDVILKALESAMVSAYRRAVNASNAQQVEAKVDLDTGKVTIYAEKEVVEQVREPL 74

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            ++SL+ AR  +P + +G ++     P DFGRVA Q+A+QVI Q++R+AER  Q   +  
Sbjct: 75  TEVSLEEARRYNPHVQLGDMIVVESTPRDFGRVAAQTARQVIQQRIRDAERQMQLNHYAK 134

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           +VGEI+SG V+ V    + + L   ++G + R E I  E  R  DRV++ I +V+   RG
Sbjct: 135 QVGEIVSGVVQAVNAQGLTIGLEMRAEGTMPRKEMIPGERFRVHDRVRALIAEVKDSPRG 194

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           PQ++LSRTH  F+ +L   EVPEIY+GIV++++++R+PG RAK+AV ++   IDPVGACV
Sbjct: 195 PQIILSRTHRNFLRRLLETEVPEIYHGIVEIRSIAREPGERAKVAVSATQPGIDPVGACV 254

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG---RIEVIV 312
           G+RG R+QA+V EL DEKID++ W+ D A ++  AL PA VT V LD+         V+V
Sbjct: 255 GIRGVRIQAIVRELHDEKIDVIEWNADPAVYIAKALSPARVTGVYLDDKSSVNKTATVVV 314

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           P++QLSLAIGR GQN RLA++LTGW IDI
Sbjct: 315 PEDQLSLAIGRDGQNARLAAKLTGWRIDI 343


>gi|21282878|ref|NP_645966.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus MW2]
 gi|49486105|ref|YP_043326.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus MSSA476]
 gi|253731885|ref|ZP_04866050.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus USA300_TCH959]
 gi|297208088|ref|ZP_06924519.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus ATCC 51811]
 gi|300912169|ref|ZP_07129612.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus TCH70]
 gi|21204317|dbj|BAB95014.1| transcription termination-antitermination factor [Staphylococcus
           aureus subsp. aureus MW2]
 gi|49244548|emb|CAG42977.1| putative N utilization substance protein A [Staphylococcus aureus
           subsp. aureus MSSA476]
 gi|253724295|gb|EES93024.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus USA300_TCH959]
 gi|296887331|gb|EFH26233.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus ATCC 51811]
 gi|300886415|gb|EFK81617.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus TCH70]
          Length = 391

 Score =  281 bits (719), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 146/337 (43%), Positives = 220/337 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R V++  +  ++  A +  Y +  ++RVE+N + G   +    +
Sbjct: 5   ELLLATEYLEKEKKIPRAVLIDAIEAALITAYKKNYDSARNVRVELNMDQGTFKVIARKD 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   ++ L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDDRDEVDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R+K Y+ 
Sbjct: 125 EILFEEFIDKEEDILTGIIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++VFS ++ 
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISVFSENND 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++DE    
Sbjct: 245 IDAVGACVGAKGARVEAVVEELGGEKIDIVQWNEDPKVFVKNALSPSQVLEVIVDETNQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 305 TIVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 341


>gi|163791587|ref|ZP_02185988.1| transcription elongation factor NusA [Carnobacterium sp. AT7]
 gi|159873136|gb|EDP67239.1| transcription elongation factor NusA [Carnobacterium sp. AT7]
          Length = 425

 Score =  281 bits (719), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 140/337 (41%), Positives = 218/337 (64%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L   +A+  EK I ++ V+  +  ++  A +  Y    ++ VE + + G+I ++ + E
Sbjct: 4   EMLNALNALEQEKGIPKEFVIEALEVALISAYKRNYDQAQNVEVEFDLKKGNIHVYSVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V + V +   ++ L+ A + + + ++G  +   + P DFGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VADVVYDSRLEVGLEEALELNKAYELGDKIRFEVTPKDFGRIAAQTAKQVIMQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF     +I+ G V+R ++  + V+LG  + V+ + E I  E  +P DR+K Y+ 
Sbjct: 124 NIIYNEFIAYENDIMQGIVERQDHRYIYVNLGKIEAVLSKQEQIPNEVYKPHDRIKVYVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQ+ +SR+HP  + +LF  EVPEIY+G+V++ +++R+ G RAK+AV S + +
Sbjct: 184 KVENTSKGPQIFVSRSHPDLLKRLFEQEVPEIYDGVVEIVSIAREAGDRAKVAVRSREEN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVG CVG +G RVQA+V EL+ E +DIV W  D AT++ NAL PA V  V  +E  G 
Sbjct: 244 IDPVGTCVGPKGQRVQAIVNELKGENMDIVEWDADPATYIGNALNPAQVVSVTFNEAAGS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTG+ IDI +E
Sbjct: 304 CLVVVPDYQLSLAIGKRGQNARLAAKLTGYKIDIKSE 340


>gi|310641593|ref|YP_003946351.1| transcription elongation factor-like protein [Paenibacillus
           polymyxa SC2]
 gi|309246543|gb|ADO56110.1| Transcription elongation factor-like protein [Paenibacillus
           polymyxa SC2]
          Length = 365

 Score =  281 bits (719), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 142/338 (42%), Positives = 223/338 (65%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           ++ ++  + +  EK I +DV+   +  ++  + +  + T  ++RV++N  +G I ++   
Sbjct: 3   MDFIEAMNELEREKGISKDVLFEAIEAALISSYKRNFNTAQNVRVDMNRNSGVIKVYARK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            +VEEV +   +ISL  AR+ +P   +  V    + P DFGR+A Q+AKQV+ Q++REAE
Sbjct: 63  LIVEEVLDPRTEISLPAAREINPHFQLEDVAEIEVTPRDFGRIAAQTAKQVVTQRIREAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R   Y +F DK  +I++GTV+R +  N+ +DLG  + V+   E +  E     DR+K+YI
Sbjct: 123 RGLIYNKFVDKEEDIVTGTVQRQDPRNIYIDLGKVEAVLPLSELMPNEKFNHLDRIKAYI 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V    +GPQ++LSR+HP  + +LF +EVPEI++G+V++++V+R+ G R+K+AV S ++
Sbjct: 183 TKVENTTKGPQIMLSRSHPGLLKRLFELEVPEIFDGVVEIRSVAREAGFRSKIAVHSRNA 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVG+CVG RG+RVQ +V ELR EKIDIV +S +   +V NAL P+ V +V + E+  
Sbjct: 243 EVDPVGSCVGPRGTRVQTIVNELRGEKIDIVRYSDNVDEYVANALSPSKVLEVQVFEEEK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              VIVP  QLSLAIG +GQN RLA++LTGW IDI +E
Sbjct: 303 MARVIVPDYQLSLAIGIKGQNARLAAKLTGWKIDIKSE 340


>gi|256544696|ref|ZP_05472068.1| transcription termination factor NusA [Anaerococcus vaginalis ATCC
           51170]
 gi|256399585|gb|EEU13190.1| transcription termination factor NusA [Anaerococcus vaginalis ATCC
           51170]
          Length = 415

 Score =  281 bits (719), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 134/327 (40%), Positives = 216/327 (66%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQI 79
           K++D+ ++L  +  ++ K+ +  Y    ++ V I+ ETG+I ++ L  VVEEV     +I
Sbjct: 16  KNVDKRIILEALEKALVKSYQKNYDNNENVDVSIDDETGEIEVYSLKNVVEEVNEPIAEI 75

Query: 80  SLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVG 139
           S   A++ DP +D+G +    + P +FGRVA Q+A+ ++IQK+R+A+RD  Y E+ D+  
Sbjct: 76  SKTKAKEIDPKLDLGDICRVKIAPKNFGRVAAQTARNIVIQKIRDAQRDSVYSEYLDRAN 135

Query: 140 EIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVL 199
           EII+G V+R +  N+ ++L   +G+I   E +  E   P  R+K  I +V+   + PQ++
Sbjct: 136 EIITGVVQREDKFNIYINLDKIEGIIPLKEQVENETYTPNQRIKVLIKEVKNTTKEPQII 195

Query: 200 LSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRG 259
           LSR     +V+LF +EVPEI NGI+++  + R+ GSR K+AVFS+D  ID +GAC+G +G
Sbjct: 196 LSRKDKALVVRLFELEVPEITNGIIEIYGIDREAGSRTKIAVFSNDPEIDSIGACIGFKG 255

Query: 260 SRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSL 319
           SRV ++V EL+ EKIDI+ +  D   F+ N+L PA + +V +++   +  V+V ++QLSL
Sbjct: 256 SRVNSIVEELQGEKIDIINYDKDIKVFIKNSLSPAEINEVYINDKKKQSLVVVREDQLSL 315

Query: 320 AIGRRGQNVRLASQLTGWTIDIITEEE 346
           AIG+ GQN RLA++LTGW IDI ++EE
Sbjct: 316 AIGKEGQNARLAARLTGWKIDIKSQEE 342


>gi|224476389|ref|YP_002633995.1| transcription elongation factor NusA [Staphylococcus carnosus
           subsp. carnosus TM300]
 gi|222420996|emb|CAL27810.1| putative transcription elongation protein NusA [Staphylococcus
           carnosus subsp. carnosus TM300]
          Length = 437

 Score =  281 bits (718), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 143/337 (42%), Positives = 221/337 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R+V++  +  ++  A +  Y    ++RVE+N + G   +    E
Sbjct: 5   ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYEAARNVRVELNMDEGTFHVIARKE 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV++V +   ++ +  A +++P+ +IG +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVDDVFDDREEVDISTALEKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF DK  +I++G + RV++  V V+LG ++ V+   E    E+  P +R+K Y+ 
Sbjct: 125 EILYDEFIDKEEDIVTGIIDRVDHRYVYVNLGRTEAVLSEAERSPNESYIPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V +K+V+R+ G R+K++V+S +  
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVVIKSVAREAGDRSKISVYSDNPD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G RV+A+V EL  EKIDIV W+ D   FV NAL P+ V +V++DE    
Sbjct: 245 IDAVGACVGSKGVRVEAIVEELGGEKIDIVQWNEDPKVFVKNALSPSQVLEVIVDEANQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 305 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 341


>gi|73662811|ref|YP_301592.1| transcription elongation factor NusA [Staphylococcus saprophyticus
           subsp. saprophyticus ATCC 15305]
 gi|72495326|dbj|BAE18647.1| transcription termination-antitermination factor [Staphylococcus
           saprophyticus subsp. saprophyticus ATCC 15305]
          Length = 397

 Score =  281 bits (718), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 146/337 (43%), Positives = 220/337 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R+V++  +  ++  A +  Y +   +RVE+N + G   +    E
Sbjct: 5   ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARTVRVELNMDQGSFKVIARKE 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEE  +   +ISL  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEESMDDREEISLDTALVKNPAYEIGDIYEEDVTPSDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF DK  +I++G + RV++  V V+LG ++ V+   E    E+  P +R++ Y+ 
Sbjct: 125 EILYDEFIDKEDDIVTGLIDRVDHRYVYVNLGRTEAVLSEAERSPNESYIPNERIRVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEI++G V VK+V+R+ G R+K++V S +  
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIFDGTVIVKSVAREAGDRSKISVHSDNPD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++DE    
Sbjct: 245 IDAVGACVGAKGARVEAVVEELGGEKIDIVQWNEDPKVFVKNALSPSQVLQVIVDEPNQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 305 TVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 341


>gi|239636256|ref|ZP_04677258.1| transcription termination factor NusA [Staphylococcus warneri
           L37603]
 gi|239597611|gb|EEQ80106.1| transcription termination factor NusA [Staphylococcus warneri
           L37603]
          Length = 410

 Score =  281 bits (718), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 144/337 (42%), Positives = 222/337 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   +    E
Sbjct: 5   ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGTFKVIARKE 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   ++ +  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDDREEVDISTALVKNPAYEIGDIYEEDVTPQDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E+  P +R+K ++ 
Sbjct: 125 EILYDEFIDKEEDILTGVIDRVDHRYVYVNLGRIEAVLSEAERSPNESYIPNERIKVFVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEI++G V VK+V+R+ G R+K++V+S +  
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIFDGTVIVKSVAREAGDRSKISVYSDNPE 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++DE+   
Sbjct: 245 IDAVGACVGSKGARVEAVVEELGGEKIDIVQWNEDPKVFVRNALSPSQVLEVIVDEENQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 305 TVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 341


>gi|328957408|ref|YP_004374794.1| transcription elongation factor NusA [Carnobacterium sp. 17-4]
 gi|328673732|gb|AEB29778.1| transcription elongation factor NusA [Carnobacterium sp. 17-4]
          Length = 425

 Score =  280 bits (717), Expect = 3e-73,   Method: Compositional matrix adjust.
 Identities = 143/348 (41%), Positives = 225/348 (64%), Gaps = 1/348 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L   +A+  EK I ++ V+  +  ++  A +  Y    ++ VE + + G+I ++ + E
Sbjct: 4   EMLNALEALEQEKGISKEFVIEALEVALVSAYKRNYDQAQNVEVEFDLKKGNIHVYSVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   ++ ++ A + + + ++G  +   + P DFGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VVDVVYDSRLEVGIEEALEINKAYELGDKIRFEVTPKDFGRIAAQTAKQVIMQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF     +I+ G V+R ++  + V+LG  + V+ + E I  E  +P DR+K Y+ 
Sbjct: 124 NIIYNEFIAYENDIMQGIVERQDHRYIYVNLGKIEAVLSKQEQIPNEVYKPHDRIKVYVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQ+ +SR+HP  + +LF  EVPEIY+G+V++ +++R+ G RAK+AV S +  
Sbjct: 184 KVENTSKGPQIFVSRSHPDLLKRLFEQEVPEIYDGVVEIVSIAREAGDRAKVAVRSREEH 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVG CVG +G RVQA+V EL+ E +DIV W  D AT++ NAL PA V  V  +E  G 
Sbjct: 244 IDPVGTCVGPKGQRVQAIVNELKGENMDIVEWDADPATYIGNALNPAQVVSVTFNESNGS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE-DSINRQKD 354
             V+VP  QLSLAIG+RGQN RLA++LTG+ IDI +E + ++IN  K+
Sbjct: 304 CLVVVPDYQLSLAIGKRGQNARLAAKLTGYKIDIKSETDMEAINLAKE 351


>gi|329121255|ref|ZP_08249882.1| transcription termination factor NusA [Dialister micraerophilus DSM
           19965]
 gi|327470189|gb|EGF15652.1| transcription termination factor NusA [Dialister micraerophilus DSM
           19965]
          Length = 373

 Score =  280 bits (717), Expect = 4e-73,   Method: Compositional matrix adjust.
 Identities = 143/326 (43%), Positives = 213/326 (65%), Gaps = 4/326 (1%)

Query: 23  DRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEV----ENYTCQ 78
           D ++V + +   +  A +   G+ +   V  N ETG+  ++    VVEE+    EN   +
Sbjct: 19  DEEIVFNALEMVLLTAYKKETGSNAKSSVTFNRETGEYHIYAEKTVVEEIDPLSENAINE 78

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           +++  A+  D +++ G +    + P +FGRVAVQ+AKQV+IQK+REAER   Y EF  + 
Sbjct: 79  VTVAEAKKYDENLEAGDLFRIEVTPENFGRVAVQTAKQVMIQKLREAERGSIYDEFSGRE 138

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
           G+II+GTVK  +   V VDLG  +G++   E I  E+  P D++K YI +VR+  +GP++
Sbjct: 139 GDIITGTVKWSDDRTVYVDLGRVEGILPFSEQIEGEHFAPNDKIKCYISEVRKTTKGPEI 198

Query: 199 LLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMR 258
            LSR  P+ + +LF +EVPEIY+G++++KAV R+ GSR+K+AV++ D ++DP+GACVG  
Sbjct: 199 FLSRKSPELLKRLFEVEVPEIYSGVIEIKAVVREAGSRSKIAVYTMDPTLDPIGACVGPE 258

Query: 259 GSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLS 318
           G RV+ +V EL DEKIDIV W  D A ++ NAL P+ V  V + E+     V+VP  QLS
Sbjct: 259 GQRVRNIVNELHDEKIDIVRWDEDPAVYIANALSPSKVISVSIWEEENSSYVVVPDYQLS 318

Query: 319 LAIGRRGQNVRLASQLTGWTIDIITE 344
           LAIG+ GQN RLA++LT W IDI +E
Sbjct: 319 LAIGKAGQNARLAAKLTNWKIDIKSE 344


>gi|313892549|ref|ZP_07826136.1| transcription termination factor NusA [Dialister microaerophilus
           UPII 345-E]
 gi|313118946|gb|EFR42151.1| transcription termination factor NusA [Dialister microaerophilus
           UPII 345-E]
          Length = 373

 Score =  280 bits (716), Expect = 4e-73,   Method: Compositional matrix adjust.
 Identities = 143/326 (43%), Positives = 213/326 (65%), Gaps = 4/326 (1%)

Query: 23  DRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEV----ENYTCQ 78
           D ++V + +   +  A +   G+ +   V  N ETG+  ++    VVEE+    EN   +
Sbjct: 19  DEEIVFNALEMVLLTAYKKETGSNAKSSVTFNRETGEYHIYAEKTVVEEIDPLSENAINE 78

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           +++  A+  D +++ G +    + P +FGRVAVQ+AKQV+IQK+REAER   Y EF  + 
Sbjct: 79  VTVAEAKKYDENLEAGDLFRIEVTPENFGRVAVQTAKQVMIQKLREAERGSIYDEFSGRE 138

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
           G+II+GTVK  +   V VDLG  +G++   E I  E+  P D++K YI +VR+  +GP++
Sbjct: 139 GDIITGTVKWSDDRTVYVDLGRVEGILPFSEQIEGEHFAPNDKIKCYISEVRKTTKGPEI 198

Query: 199 LLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMR 258
            LSR  P+ + +LF +EVPEIY+G++++KAV R+ GSR+K+AV++ D ++DP+GACVG  
Sbjct: 199 FLSRKSPELLKRLFEVEVPEIYSGVIEIKAVVREAGSRSKIAVYTMDPTLDPIGACVGPE 258

Query: 259 GSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLS 318
           G RV+ +V EL DEKIDIV W  D A ++ NAL P+ V  V + E+     V+VP  QLS
Sbjct: 259 GQRVRNIVNELHDEKIDIVRWDEDPAVYIANALSPSKVISVSIWEEENSSYVVVPDYQLS 318

Query: 319 LAIGRRGQNVRLASQLTGWTIDIITE 344
           LAIG+ GQN RLA++LT W IDI +E
Sbjct: 319 LAIGKAGQNARLAAKLTNWKIDIKSE 344


>gi|310658997|ref|YP_003936718.1| transcription translation coupling factor [Clostridium sticklandii
           DSM 519]
 gi|308825775|emb|CBH21813.1| transcription translation coupling factor involved in Rho-dependent
           transcription termination [Clostridium sticklandii]
          Length = 357

 Score =  280 bits (716), Expect = 4e-73,   Method: Compositional matrix adjust.
 Identities = 144/352 (40%), Positives = 231/352 (65%), Gaps = 14/352 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E +   + +  EK I ++++   +  ++  A +  +GT S++RVE++ + G++ +F    
Sbjct: 4   EFIAALEQIETEKGISKEILFEALESALLNAYKKNFGTSSNVRVEMDKDKGEVKVFSRKS 63

Query: 68  VVEEVENYTC---QISLKVARDR-DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           VV + E Y     +IS++ A++R  P+   G V+ + + P +FGR+A Q+A+Q++IQK++
Sbjct: 64  VVNKYE-YDLGEGEISVEEAQERYGPNYGDGDVIEEEVTPKNFGRIAAQAARQMVIQKIK 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG---------NSDGVIRRDETISRE 174
           EAERD  Y EF ++  EII+G V R   GNV V+L          +++ V+   E I  E
Sbjct: 123 EAERDIVYEEFLNRESEIITGEVSRQGKGNVYVNLSIIGSKDITISAEAVLPPSEQIPFE 182

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
           N  PG RVK Y+ +V++    PQ+L+SR+HP  + +LF  EVPEI++G+VQ+K++SR+ G
Sbjct: 183 NYMPGARVKVYVLEVKKNNNVPQILVSRSHPGLVKRLFESEVPEIFDGVVQIKSISREAG 242

Query: 235 SRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA 294
           SR K+AV S D ++DP+GACVG +G RV+ +V EL+ EKIDI+++S D   F+  +L P+
Sbjct: 243 SRTKMAVHSVDENVDPIGACVGPKGQRVKNIVDELKGEKIDIIIYSEDPKEFISASLSPS 302

Query: 295 IVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            V  V ++ED    +V+VP ++LSLAIG+ GQN RLA++LTGW IDI +E +
Sbjct: 303 KVISVDVNEDDKSAKVVVPDDKLSLAIGKEGQNARLAAKLTGWKIDIKSESQ 354


>gi|153954053|ref|YP_001394818.1| transcription elongation factor NusA [Clostridium kluyveri DSM 555]
 gi|219854666|ref|YP_002471788.1| hypothetical protein CKR_1323 [Clostridium kluyveri NBRC 12016]
 gi|146346934|gb|EDK33470.1| NusA [Clostridium kluyveri DSM 555]
 gi|219568390|dbj|BAH06374.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 355

 Score =  280 bits (716), Expect = 5e-73,   Method: Compositional matrix adjust.
 Identities = 139/350 (39%), Positives = 230/350 (65%), Gaps = 4/350 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG----TMSDIRVEINPETGDISLF 63
           E ++    +  EK I  D++ + + D++  A +  Y     +  +++V +N E G+I ++
Sbjct: 4   EFIEALKEIVKEKGISEDLLFTTIEDALVAAYKKNYIGHGISNQNVKVTMNRENGEIHVY 63

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
               +V+ V +   +ISL+ A++ D + D+G +V+  + P  FGRVA Q+AKQV+IQ+++
Sbjct: 64  SQKSIVDNVVDDVSEISLEDAKEIDSNYDMGDIVNIEVTPRKFGRVAAQAAKQVVIQRIK 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           E ER   Y +F +K  +II+GTV R +  N++V+LG ++ ++  +E I  E     D++K
Sbjct: 124 EEERRIIYNDFVEKEDDIITGTVIRKDKNNILVNLGKTEAILGPNEQIPGEKYNFNDKLK 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            YI +V+   +G Q+++SRTHP  + +LF +EVPE+++G V +K+++R+ GSR K+AV S
Sbjct: 184 LYIVEVKNTTKGAQIVISRTHPGLIKRLFELEVPEVFDGTVDIKSIAREAGSRTKIAVHS 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D ++DP+GACVG +G RVQ +V EL+ EKIDI+ WS     ++ NAL PA V  V LDE
Sbjct: 244 NDENVDPMGACVGPKGVRVQNIVNELKSEKIDIIKWSKLPEEYIANALSPAKVLDVTLDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
           ++   +++V   QLSLAIG+ GQNVRLA++LTGW IDI ++ +  +  +K
Sbjct: 304 EIKFAQIVVDDSQLSLAIGKEGQNVRLAAKLTGWKIDIKSKSQSDVEDEK 353


>gi|293366770|ref|ZP_06613446.1| transcription elongation factor NusA [Staphylococcus epidermidis
           M23864:W2(grey)]
 gi|291319071|gb|EFE59441.1| transcription elongation factor NusA [Staphylococcus epidermidis
           M23864:W2(grey)]
 gi|329736653|gb|EGG72919.1| transcription termination factor NusA [Staphylococcus epidermidis
           VCU045]
          Length = 407

 Score =  280 bits (715), Expect = 5e-73,   Method: Compositional matrix adjust.
 Identities = 145/337 (43%), Positives = 218/337 (64%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   +    E
Sbjct: 5   ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGSFRVIARKE 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   ++ L  A  ++P+ ++G +    + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDDRDEVDLSTALVKNPAYEVGDIYEQDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R+K Y+ 
Sbjct: 125 EILYDEFIDKEEDILTGVIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V+S +  
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISVYSDNPD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV W  D   FV NAL P+ V +V++DE+   
Sbjct: 245 IDAVGACVGSKGARVEAVVEELGGEKIDIVQWDEDPKVFVRNALSPSQVLEVIVDEENQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LT W IDI +E
Sbjct: 305 TVVVVPDYQLSLAIGKRGQNARLAAKLTSWKIDIKSE 341


>gi|329736283|gb|EGG72555.1| transcription termination factor NusA [Staphylococcus epidermidis
           VCU028]
          Length = 404

 Score =  280 bits (715), Expect = 5e-73,   Method: Compositional matrix adjust.
 Identities = 145/337 (43%), Positives = 218/337 (64%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   +    E
Sbjct: 5   ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGSFRVIARKE 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   ++ L  A  ++P+ ++G +    + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDDRDEVDLSTALVKNPAYEVGDIYEQDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R+K Y+ 
Sbjct: 125 EILYDEFIDKEEDILTGVIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V+S +  
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISVYSDNPD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV W  D   FV NAL P+ V +V++DE+   
Sbjct: 245 IDAVGACVGSKGARVEAVVEELGGEKIDIVQWDEDPKVFVRNALSPSQVLEVIVDEENQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LT W IDI +E
Sbjct: 305 TVVVVPDYQLSLAIGKRGQNARLAAKLTSWKIDIKSE 341


>gi|308068697|ref|YP_003870302.1| transcription elongation protein nusA [Paenibacillus polymyxa E681]
 gi|305857976|gb|ADM69764.1| Transcription elongation protein nusA [Paenibacillus polymyxa E681]
          Length = 365

 Score =  280 bits (715), Expect = 5e-73,   Method: Compositional matrix adjust.
 Identities = 141/338 (41%), Positives = 223/338 (65%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           ++ ++  + +  EK I +DV+   +  ++  + +  + T  ++RV++N  +G I ++   
Sbjct: 3   MDFIEAMNELEREKGISKDVLFEAIEAALISSYKRNFNTAQNVRVDMNRNSGVIKVYARK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            +VEEV +   +ISL  AR+ +P   +  +    + P DFGR+A Q+AKQV+ Q++REAE
Sbjct: 63  LIVEEVLDPRTEISLPAAREINPHFQLEDIAEIEVTPRDFGRIAAQTAKQVVTQRIREAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R   Y +F DK  +I++GTV+R +  N+ +DLG  + V+   E +  E     DR+K+YI
Sbjct: 123 RGLIYNKFVDKEEDIVTGTVQRQDPRNIYIDLGKVEAVLPLGELMPNEKFSHLDRIKAYI 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V    +GPQ++LSR+HP  + +LF +EVPEI++G+V++++V+R+ G R+K+AV S ++
Sbjct: 183 TKVENTTKGPQIMLSRSHPGLLKRLFELEVPEIFDGVVEIRSVAREAGFRSKIAVHSRNA 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVG+CVG RG+RVQ +V ELR EKIDIV +S +   +V NAL P+ V +V + E+  
Sbjct: 243 EVDPVGSCVGPRGTRVQTIVNELRGEKIDIVRYSDNVDEYVANALSPSKVLEVQVFEEEK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              VIVP  QLSLAIG +GQN RLA++LTGW IDI +E
Sbjct: 303 MARVIVPDYQLSLAIGIKGQNARLAAKLTGWKIDIKSE 340


>gi|242242549|ref|ZP_04796994.1| transcription elongation factor NusA [Staphylococcus epidermidis
           W23144]
 gi|242233976|gb|EES36288.1| transcription elongation factor NusA [Staphylococcus epidermidis
           W23144]
          Length = 407

 Score =  280 bits (715), Expect = 6e-73,   Method: Compositional matrix adjust.
 Identities = 145/337 (43%), Positives = 218/337 (64%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   +    E
Sbjct: 5   ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGSFRVIARKE 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   ++ L  A  ++P+ ++G +    + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDDRDEVDLSTALVKNPAYEVGDIYEQDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R+K Y+ 
Sbjct: 125 EILYDEFIDKEEDILTGVIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V+S +  
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISVYSDNPD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV W  D   FV NAL P+ V +V++DE+   
Sbjct: 245 IDAVGACVGSKGARVEAVVEELGGEKIDIVQWDEDPKVFVRNALSPSQVLEVIVDEENQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LT W IDI +E
Sbjct: 305 TVVVVPDYQLSLAIGKRGQNARLAAKLTSWKIDIKSE 341


>gi|229824767|ref|ZP_04450836.1| hypothetical protein GCWU000182_00116 [Abiotrophia defectiva ATCC
           49176]
 gi|229791096|gb|EEP27210.1| hypothetical protein GCWU000182_00116 [Abiotrophia defectiva ATCC
           49176]
          Length = 360

 Score =  280 bits (715), Expect = 6e-73,   Method: Compositional matrix adjust.
 Identities = 145/342 (42%), Positives = 218/342 (63%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  EL++  D +     I ++++L  + +S+  A +  +G   +I+V IN E G +S+  
Sbjct: 15  NSKELIEALDQLEKTNDISKEIILEAVENSLLVACKDEFGKADNIKVTINRENGKVSVLS 74

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
              VVE VE+   QISL  A++  P+   G VV+  + P +FGR+A Q AKQV++QK+RE
Sbjct: 75  EKTVVETVEDPITQISLAEAKETFPNAVEGQVVNIVITPKNFGRIAAQKAKQVVVQKIRE 134

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
            ER   + ++  K  +I++G V+R   GN+ ++LG  D ++   E +  E     DR+K 
Sbjct: 135 EERKVLFNQYFAKEHDIVTGIVQRYTGGNISINLGKVDALLSESERVKTEKFSSTDRIKL 194

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+ +V+   +GP++ +SRTHP  + +LF  EV EI +G V++K++SR+ GSR K+AV+S+
Sbjct: 195 YVVEVKDTSKGPRITVSRTHPDLVKRLFESEVTEIKDGTVEIKSISREAGSRTKIAVYSN 254

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           +  +D VGACVG+  SRV+AVV ELR EKIDIVVWS D   F++NAL PA    V  D +
Sbjct: 255 NPEVDAVGACVGLNRSRVEAVVDELRGEKIDIVVWSEDPRVFIMNALSPARAISVEADPE 314

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               +VIV   QLSLAIG+ GQN RLA++LTG+ IDI +E +
Sbjct: 315 EKTAKVIVADSQLSLAIGKEGQNARLAARLTGYKIDIKSESQ 356


>gi|329724329|gb|EGG60841.1| transcription termination factor NusA [Staphylococcus epidermidis
           VCU144]
          Length = 407

 Score =  280 bits (715), Expect = 6e-73,   Method: Compositional matrix adjust.
 Identities = 145/337 (43%), Positives = 218/337 (64%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   +    E
Sbjct: 5   ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGSFRVIARKE 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   ++ L  A  ++P+ ++G +    + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDDRDEVDLSTALVKNPAYEVGDIYEQDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R+K Y+ 
Sbjct: 125 EILYDEFIDKEEDILTGVIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V+S +  
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISVYSDNPD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV W  D   FV NAL P+ V +V++DE+   
Sbjct: 245 IDAVGACVGSKGARVEAVVEELGGEKIDIVQWDEDPKVFVRNALSPSQVLEVIVDEENQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LT W IDI +E
Sbjct: 305 TVVVVPDYQLSLAIGKRGQNARLAAKLTSWKIDIKSE 341


>gi|319401444|gb|EFV89654.1| transcription elongation protein nusA [Staphylococcus epidermidis
           FRI909]
          Length = 407

 Score =  280 bits (715), Expect = 6e-73,   Method: Compositional matrix adjust.
 Identities = 145/337 (43%), Positives = 218/337 (64%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   +    E
Sbjct: 5   ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGSFRVIARKE 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   ++ L  A  ++P+ ++G +    + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDDRDEVDLSTALVKNPAYEVGDIYEQDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R+K Y+ 
Sbjct: 125 EILYDEFIDKEEDILTGVIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V+S +  
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISVYSDNPD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV W  D   FV NAL P+ V +V++DE+   
Sbjct: 245 IDAVGACVGSKGARVEAVVEELGGEKIDIVQWDEDPKVFVRNALSPSQVLEVIVDEENQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LT W IDI +E
Sbjct: 305 TVVVVPDYQLSLAIGKRGQNARLAAKLTSWKIDIKSE 341


>gi|27467860|ref|NP_764497.1| transcription elongation factor NusA [Staphylococcus epidermidis
           ATCC 12228]
 gi|251810697|ref|ZP_04825170.1| transcription elongation factor NusA [Staphylococcus epidermidis
           BCM-HMP0060]
 gi|282876302|ref|ZP_06285169.1| transcription termination factor NusA [Staphylococcus epidermidis
           SK135]
 gi|27315405|gb|AAO04539.1|AE016747_36 transcription termination-antitermination factor [Staphylococcus
           epidermidis ATCC 12228]
 gi|251805857|gb|EES58514.1| transcription elongation factor NusA [Staphylococcus epidermidis
           BCM-HMP0060]
 gi|281295327|gb|EFA87854.1| transcription termination factor NusA [Staphylococcus epidermidis
           SK135]
          Length = 407

 Score =  280 bits (715), Expect = 6e-73,   Method: Compositional matrix adjust.
 Identities = 145/337 (43%), Positives = 218/337 (64%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   +    E
Sbjct: 5   ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGSFRVIARKE 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   ++ L  A  ++P+ ++G +    + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDDRDEVDLSTALVKNPAYEVGDIYEQDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R+K Y+ 
Sbjct: 125 EILYDEFIDKEEDILTGVIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V+S +  
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISVYSDNPD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV W  D   FV NAL P+ V +V++DE+   
Sbjct: 245 IDAVGACVGSKGARVEAVVEELGGEKIDIVQWDEDPKVFVRNALSPSQVLEVIVDEENQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LT W IDI +E
Sbjct: 305 TVVVVPDYQLSLAIGKRGQNARLAAKLTSWKIDIKSE 341


>gi|297180246|gb|ADI16466.1| transcription elongation factor [uncultured bacterium HF770_11D24]
          Length = 467

 Score =  279 bits (714), Expect = 8e-73,   Method: Compositional matrix adjust.
 Identities = 151/387 (39%), Positives = 235/387 (60%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK +DR++++S + D++  AA+   G   ++R EI+ + GDI  F  L VVE V +   +
Sbjct: 15  EKGLDREILISAVEDAMVSAAKRAVGPARELRCEIDRKDGDIRAFATLIVVETVTDKQNE 74

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           ISL  A+   P   +   +   + P +FGR+A Q+AKQ ++Q +R AE+   Y EFKD+V
Sbjct: 75  ISLDSAQRIKPDAQLEEELEVEVTPKNFGRIASQNAKQALMQAIRRAEKALIYTEFKDRV 134

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
           G+I+SG V+  +  +V+VDLG  + ++   E +  E  + G+R++  +  V       ++
Sbjct: 135 GDIVSGEVRGFDRSDVLVDLGKFEALLPNRERVPTEEYQRGERIRCLVKAVEGSDSSSEI 194

Query: 199 LLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMR 258
           +LSR    F++KLF +EV EI +G +++KA++R+PG R KLAV S D  +DPVGACVG+R
Sbjct: 195 ILSRRDSDFVIKLFQLEVSEINDGTIEIKAIAREPGFRTKLAVHSRDEKVDPVGACVGLR 254

Query: 259 GSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLS 318
           G RV+ +V EL +EKIDI+ W  D  T+V N+L PA + ++ + +D  R+ V+V  +QLS
Sbjct: 255 GQRVKNIVRELNNEKIDIIRWDSDVETYVTNSLAPAQLKRLEIQQDRKRVHVLVDPDQLS 314

Query: 319 LAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVA 378
           LAIGRRGQN RL S LTGW IDI  E+E  +  ++   +          +++  A  LV 
Sbjct: 315 LAIGRRGQNARLTSLLTGWQIDIDPEQEVRVGFEEQVADAVDALAAIPGIEKEQADALVH 374

Query: 379 EGFADVEELACVKISEIASIEGFDEET 405
            G   ++ L  V+ S++A I G  E  
Sbjct: 375 AGLLTLDALNGVEASDLADIPGLAEHA 401


>gi|126640415|ref|YP_001083399.1| transcription elongation factor NusA [Acinetobacter baumannii ATCC
           17978]
          Length = 418

 Score =  279 bits (714), Expect = 8e-73,   Method: Compositional matrix adjust.
 Identities = 173/412 (41%), Positives = 252/412 (61%), Gaps = 12/412 (2%)

Query: 76  TCQISLKVARDRDPS-IDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
            CQ ++    D DP+   IG V    +  ++FGR+A Q AKQVI+QK+REAER      +
Sbjct: 3   ACQDAIS---DVDPAKWSIGDVRELEVESIEFGRIAAQIAKQVIVQKIREAERALVADAY 59

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
           + KVGE+I G VK+      I+DLG N++  + R+E I +E LRP  RV + +Y V RE 
Sbjct: 60  ESKVGELIYGEVKKQTKDGFIIDLGDNAEAYLAREEMIPKEILRPKQRVNAILYSVNREG 119

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
           RG Q+LLSR  P+ ++ L   E+PEI   I+++KA +R PG RAK+AV ++D  IDPVGA
Sbjct: 120 RGAQLLLSRAKPEMLIALMKKEIPEISEEIIEIKAAARQPGVRAKIAVKTNDHRIDPVGA 179

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI-V 312
           C+GMRG+R+QAV  EL  E+ID+VVWS D A ++ +AL PA V+ +VLDED    ++I  
Sbjct: 180 CIGMRGTRIQAVQQELNGERIDVVVWSDDPAQYIASALEPADVSGIVLDEDAKSADIIFA 239

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEII 372
             +QL+ AIG +GQNVRLAS LTG+ +D++ EEE    +Q +  +    F+  ++++E +
Sbjct: 240 TNDQLARAIGSQGQNVRLASDLTGYKLDMMLEEEYRARQQNEAQQYLDMFVSRLDIEEDL 299

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELG 432
           A  LV  GF  +EE+A V       IE  D E    +Q RA+E      +  Q+ I+E  
Sbjct: 300 AMALVEMGFTSLEEIAYVPAETFDEIE-LDAELVELLQSRAKEAALTDALKQQENIQE-- 356

Query: 433 VSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNI 481
            S +L ++ G+ S+I  +L   GI T++DLA  + DD+    G    K G +
Sbjct: 357 PSADLLNMEGMTSEIAYSLAARGIITVDDLADQATDDISDIEGLGHEKAGQL 408


>gi|330685665|gb|EGG97306.1| transcription termination factor NusA [Staphylococcus epidermidis
           VCU121]
          Length = 410

 Score =  279 bits (714), Expect = 8e-73,   Method: Compositional matrix adjust.
 Identities = 143/337 (42%), Positives = 222/337 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   +    E
Sbjct: 5   ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGTFKVIARKE 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE+V +   ++ +  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEKVFDDREEVDISTALVKNPAYEIGDIYEEDVTPQDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E+  P +R+K ++ 
Sbjct: 125 EILYDEFIDKEEDILTGVIDRVDHRYVYVNLGRIEAVLSEAERSPNESYIPNERIKVFVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEI++G V VK+V+R+ G R+K++V+S +  
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIFDGTVIVKSVAREAGDRSKISVYSENPE 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++DE+   
Sbjct: 245 IDAVGACVGSKGARVEAVVEELGGEKIDIVQWNEDPKVFVRNALSPSQVLEVIVDEENQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 305 TVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 341


>gi|164688521|ref|ZP_02212549.1| hypothetical protein CLOBAR_02166 [Clostridium bartlettii DSM
           16795]
 gi|164602934|gb|EDQ96399.1| hypothetical protein CLOBAR_02166 [Clostridium bartlettii DSM
           16795]
          Length = 384

 Score =  279 bits (714), Expect = 8e-73,   Method: Compositional matrix adjust.
 Identities = 140/336 (41%), Positives = 223/336 (66%), Gaps = 2/336 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E ++  D +  ++ ID+++++  +  ++  A +  +G+  ++RV ++ E G++ ++    
Sbjct: 4   EFMEALDELEKDRGIDKEIIIDTIEQALLTAYKKNFGSAQNVRVSVDREGGEVRVYSQRR 63

Query: 68  VVEEVENYTC--QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV+E + Y    +I L  A   DPS ++G ++ + + P +FGR+A Q+AKQV++Q++REA
Sbjct: 64  VVDESDLYDTFLEIELADAIKIDPSYELGDIIENEVTPKEFGRIAAQTAKQVVVQRIREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  Y EF +K  EI++G + R     V V++G  +  +  +E I  E  + G ++K Y
Sbjct: 124 EREIVYNEFIEKESEIVTGEIARATSKTVYVNVGKIEASMPENEQIPGEVYKAGQKIKVY 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V++  +GPQ+++SR+HP  + +LF M+V EI+ GIVQ+K+VSR+ GSR K+AV S D
Sbjct: 184 ILEVKKTNKGPQIVVSRSHPGLVKRLFEMQVVEIFEGIVQIKSVSREAGSRTKIAVQSID 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDP+GACVG +GSRV+AVV EL  EKIDI+ +S D A F+  AL P+ V KV ++E+ 
Sbjct: 244 EKIDPIGACVGPKGSRVKAVVDELGGEKIDIINYSEDPAEFISAALSPSKVEKVEINEEE 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
               V+VP  QLSLAIG+ GQN RLA++LT W IDI
Sbjct: 304 KTALVVVPDYQLSLAIGKSGQNARLAAKLTNWKIDI 339


>gi|28210959|ref|NP_781903.1| transcription elongation factor NusA [Clostridium tetani E88]
 gi|28203398|gb|AAO35840.1| N utilization substance protein A [Clostridium tetani E88]
          Length = 361

 Score =  279 bits (713), Expect = 9e-73,   Method: Compositional matrix adjust.
 Identities = 145/330 (43%), Positives = 218/330 (66%), Gaps = 4/330 (1%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLFRLLEVVEE 71
           +  EK I  +++ + + D++  A +  Y     T   + V +N ETG+I ++    VVEE
Sbjct: 12  IVKEKGISAELLFNTIEDALVAAYKKNYSKQGATSQHVNVSMNRETGEIHVYSRKNVVEE 71

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
           VE+   +I ++ A+  DP  ++  +V   + P  FGRVA Q+AKQV++Q+++E ER   Y
Sbjct: 72  VEDEFNEIFVEDAKTIDPRYELEDIVDIEVTPEKFGRVAAQAAKQVVVQRIKEEERRIVY 131

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRR 191
            EF +K  +II+G V R +  NV ++LG  + V+  +E +  E     D++K YI +V+ 
Sbjct: 132 NEFIEKECDIITGNVIRKDKTNVFINLGKIEAVLGPNEQMPGEEYNFNDKLKLYIVEVKN 191

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPV 251
             +G QV++SRTHP  + +LF +EVPEIYNGIV++K++SR+ GSR K+AV S+D ++D +
Sbjct: 192 TTKGAQVVVSRTHPGLVKRLFELEVPEIYNGIVEIKSISREAGSRTKIAVHSNDENVDSM 251

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI 311
           GACVG +G+RVQ +V EL++EKIDI+ WS     F+ NAL PA V KV +DE+    +V+
Sbjct: 252 GACVGPKGTRVQNIVNELKNEKIDIIKWSKLPDEFISNALSPARVLKVDVDEESKSAKVL 311

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           V   QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 312 VEDNQLSLAIGKEGQNVRLAAKLTGWKIDI 341


>gi|332638631|ref|ZP_08417494.1| transcription elongation factor NusA [Weissella cibaria KACC 11862]
          Length = 379

 Score =  279 bits (713), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 145/341 (42%), Positives = 227/341 (66%), Gaps = 2/341 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+   DA+  EK I  +V++  + ++++KA    Y    ++ V+ + + G+I ++ +  
Sbjct: 4   ELVNALDALEQEKGIKAEVLVEAIEEALKKAYEKNYDESENVEVQFDQKKGNIKVYSVKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEE++    QI+L+ A + + + +IG  +   + P DFGR+A Q+AKQ+I+QKVREAER
Sbjct: 64  VVEEIDEPYEQITLEEALELNKAYEIGDEIRFEVTPADFGRLAAQTAKQIIMQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRVKSYI 186
              Y +F     E+I+G V+R +   + + L GN +  +++ + +  E+ R GD++K  +
Sbjct: 124 GVVYDKFIGYENEVITGEVERQDSRFLYIILPGNQEAAMKQGDQMPNESYRMGDKIKVLV 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V+ EQ+GPQV +SRTHP+ + +LF  EVPE+++G V++K+++R+ G R+K+AV+S +S
Sbjct: 184 SQVQNEQKGPQVFVSRTHPELVKRLFEAEVPEVFDGTVEIKSIAREAGDRSKIAVYSHNS 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           ++D VG  VG RG+RVQAVVTEL  E +DIV W+ D A F+ NAL PA V  V+ D    
Sbjct: 244 NLDAVGTMVGQRGARVQAVVTELSGENMDIVEWTEDPAQFIKNALNPAEVVDVIFDPTND 303

Query: 307 R-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           R + V+VP  QLSLAIG+RGQN RLA++LTG+ IDI  E E
Sbjct: 304 RAVTVLVPDYQLSLAIGKRGQNARLAARLTGFKIDIKPESE 344


>gi|254519187|ref|ZP_05131243.1| transcription elongation factor NusA [Clostridium sp. 7_2_43FAA]
 gi|226912936|gb|EEH98137.1| transcription elongation factor NusA [Clostridium sp. 7_2_43FAA]
          Length = 360

 Score =  278 bits (712), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 146/338 (43%), Positives = 225/338 (66%), Gaps = 4/338 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS----DIRVEINPETGDISLF 63
           E +     +  +K I  D++ S + D++  A +  Y + +    +++V IN ETG+I ++
Sbjct: 4   EFIGALKEIVKDKGISEDLIFSTIEDALVAAYKKNYASPTTSAQNVKVSINRETGEIHVY 63

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
               VVE+V +   +ISL+ A++  P  D+  +V   + P +FGRVA Q AK V+ Q++R
Sbjct: 64  AQKVVVEDVYDDVTEISLEEAKEVSPRYDLDDIVDLEVTPKNFGRVAAQLAKGVVTQRIR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           EAER+  Y E+K+   +II+GTV R + GNV V+LG  +  I  +E I RE  +  ++VK
Sbjct: 124 EAERNIVYSEYKELEYDIITGTVLRKDKGNVFVNLGRIETSIGPNEQIPREEYKFNEKVK 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            Y+ +V+   +G Q+L+SRTHP  + +LF +EVPEIY G+V++K++SR+ GSR+K+AV+S
Sbjct: 184 LYVVEVKNGSKGAQILVSRTHPGLVKRLFELEVPEIYEGVVEIKSISREAGSRSKIAVYS 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D ++DP+GACVG +G+RVQ +V EL+ EKIDI+ WS +   F+  +L PA V +VV  E
Sbjct: 244 NDENVDPMGACVGPKGTRVQNIVNELKGEKIDIIKWSKNPEEFIAASLSPAKVLEVVACE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +    +V+V   QLSLAIG+ GQNVRLA++LT W IDI
Sbjct: 304 ETKSAKVVVDDNQLSLAIGKEGQNVRLAAKLTNWKIDI 341


>gi|291519298|emb|CBK74519.1| transcription termination factor NusA [Butyrivibrio fibrisolvens
           16/4]
          Length = 393

 Score =  278 bits (712), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 145/343 (42%), Positives = 217/343 (63%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           ++AN  +  +    +A EK+I  DV++  + +S+  A ++ YG   + +VEI+  TG+  
Sbjct: 1   MAANTNDFWEALTDLAKEKNISMDVLIETIENSLLIACKNNYGKADNAKVEIDKNTGEYH 60

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++    VV+EV +   +ISL  A+D      +G +V   +   DFGR+A  +AK  I QK
Sbjct: 61  VYLSKTVVDEVMDPVEEISLSDAQDISGKHQVGDIVQIEVKSKDFGRIAATAAKNTITQK 120

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +RE ER   Y E+ +   ++++G V R    N+ V+LG  +G +   E +  E  +P DR
Sbjct: 121 IREEERKVLYEEYYELQHKVVTGVVTRFSGNNIHVNLGKLEGFLSETEQVKGEYYKPQDR 180

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K YI +V+   +GP++L+SRTHP+ + KLF  EV E+ +GIV++K++SR+ GSR K+AV
Sbjct: 181 IKVYIVEVKTSNKGPRILVSRTHPELVKKLFEEEVSEVRDGIVEIKSISREAGSRTKIAV 240

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S+D  +DPVGACVG  G+RV A+V ELR EKIDIV W  + A  + NAL PA V  V+ 
Sbjct: 241 WSNDEDVDPVGACVGQNGARVNAIVNELRGEKIDIVEWDENPAYLIENALSPAKVVAVIA 300

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           D D     V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 301 DADEKTARVVVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSE 343


>gi|222526490|ref|YP_002570961.1| NusA antitermination factor [Chloroflexus sp. Y-400-fl]
 gi|222450369|gb|ACM54635.1| NusA antitermination factor [Chloroflexus sp. Y-400-fl]
          Length = 442

 Score =  278 bits (712), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 144/331 (43%), Positives = 220/331 (66%), Gaps = 5/331 (1%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMS---DIRVEINPETGDISLFRLLEVVEEV 72
           +A E+ I ++ ++ VM  ++  A R L G      D+ V+++P +G   ++   +VV+EV
Sbjct: 12  IASERGIPKEAIIDVMERALVSAYRRLLGPNPPAIDVVVKLDPVSGVARVYAEKQVVDEV 71

Query: 73  ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYL 132
            +   +I L+ AR   P   IG  V     P DFGR+A Q+AKQV++Q +++ ER+  Y 
Sbjct: 72  YDERFEIDLEAARRIKPDAQIGEAVLVESTPRDFGRIAAQTAKQVVLQGIKDIERNYIYS 131

Query: 133 EFKDKVGEIISGTVKRVE--YGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVR 190
           EF+D+ GE+++ TV+R     GNVI++LG ++ +I   E ++ +    G R+K Y+ +V+
Sbjct: 132 EFEDREGELLTATVQRNNGPRGNVILELGKAEAIIPPKEQVANDRYYHGQRLKVYLMEVK 191

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDP 250
           +++RGP+++ SR H   +++LF MEVPEIYNG V++K+++R+PG R K+AV +    IDP
Sbjct: 192 KDERGPRLIASRAHKNLILRLFEMEVPEIYNGAVEIKSIAREPGLRTKVAVAARQEGIDP 251

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEV 310
           VG+CVGMRG R+Q +V EL  EKID+V WS D   ++ NAL PA V +V L++      V
Sbjct: 252 VGSCVGMRGIRIQNIVNELNGEKIDVVQWSSDPREYIANALSPAQVVEVHLNDHEHTALV 311

Query: 311 IVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           IVP +QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 312 IVPDKQLSLAIGKEGQNVRLAAKLTGWRIDI 342


>gi|57866748|ref|YP_188415.1| transcription elongation factor NusA [Staphylococcus epidermidis
           RP62A]
 gi|57637406|gb|AAW54194.1| N utilization substance protein A, putative [Staphylococcus
           epidermidis RP62A]
          Length = 407

 Score =  278 bits (712), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 144/337 (42%), Positives = 217/337 (64%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   +    E
Sbjct: 5   ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGSFRVIARKE 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   ++ L  A  ++P+ ++G +    + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDDRDEVDLSTALVKNPAYEVGDIYEQDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF DK  +I++G + RV++  V V+ G  + V+   E    E   P +R+K Y+ 
Sbjct: 125 EILYDEFIDKEEDILTGVIDRVDHRYVYVNFGRIEAVLSEAERSPNEKYIPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V+S +  
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISVYSDNPD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV W  D   FV NAL P+ V +V++DE+   
Sbjct: 245 IDAVGACVGSKGARVEAVVEELGGEKIDIVQWDEDPKVFVRNALSPSQVLEVIVDEENQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LT W IDI +E
Sbjct: 305 TVVVVPDYQLSLAIGKRGQNARLAAKLTSWKIDIKSE 341


>gi|313608989|gb|EFR84731.1| transcription termination factor NusA [Listeria monocytogenes FSL
           F2-208]
          Length = 330

 Score =  278 bits (711), Expect = 2e-72,   Method: Compositional matrix adjust.
 Identities = 140/327 (42%), Positives = 215/327 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     + ++K I R+V++  +  ++  A +  +    ++RV++N E G I +    E
Sbjct: 4   ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VE+V +   +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  AVEQVFDSRLEISMEEAHKLNPVYKPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y+ 
Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++++  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTANEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E    
Sbjct: 244 VDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEADQA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQL 334
             VIVP  QLSLAIG+RGQN RLA++L
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKL 330


>gi|163848555|ref|YP_001636599.1| transcription termination factor NusA [Chloroflexus aurantiacus
           J-10-fl]
 gi|163669844|gb|ABY36210.1| transcription termination factor NusA [Chloroflexus aurantiacus
           J-10-fl]
          Length = 442

 Score =  278 bits (710), Expect = 2e-72,   Method: Compositional matrix adjust.
 Identities = 144/331 (43%), Positives = 219/331 (66%), Gaps = 5/331 (1%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMS---DIRVEINPETGDISLFRLLEVVEEV 72
           +A E+ I ++ ++ VM  ++  A R L G      D+ V+++P +G   ++   +VV+EV
Sbjct: 12  IASERGIPKEAIIDVMERALVSAYRRLLGPNPPAIDVVVKLDPVSGVARVYAEKQVVDEV 71

Query: 73  ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYL 132
            +   +I L+ AR   P   IG  V     P DFGR+A Q+AKQV++Q +++ ER+  Y 
Sbjct: 72  YDERFEIDLEAARRIKPDAQIGEAVLVESTPRDFGRIAAQTAKQVVLQGIKDIERNYIYS 131

Query: 133 EFKDKVGEIISGTVKRVE--YGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVR 190
           EF+D+ GE+++ TV+R     GNVI++LG ++ +I   E ++ +    G R+K Y+ +V+
Sbjct: 132 EFEDREGELLTATVQRNNGPRGNVILELGKAEAIIPPKEQVANDRYYHGQRLKVYLMEVK 191

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDP 250
           +++RGP+++ SR H   +++LF MEVPEIYNG V++K+++R+PG R K+AV +    IDP
Sbjct: 192 KDERGPRLIASRAHKNLILRLFEMEVPEIYNGAVEIKSIAREPGLRTKVAVAARQEGIDP 251

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEV 310
           VG+CVGMRG R+Q +V EL  EKID+V WS D   ++ NAL PA V +V L++      V
Sbjct: 252 VGSCVGMRGIRIQNIVNELNGEKIDVVQWSSDPREYIANALSPAQVVEVHLNDHEHTALV 311

Query: 311 IVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           IVP +QLSLAIG+ GQNVRLA +LTGW IDI
Sbjct: 312 IVPDKQLSLAIGKEGQNVRLAEKLTGWRIDI 342


>gi|291562551|emb|CBL41367.1| transcription termination factor NusA [butyrate-producing bacterium
           SS3/4]
          Length = 388

 Score =  278 bits (710), Expect = 2e-72,   Method: Compositional matrix adjust.
 Identities = 146/337 (43%), Positives = 219/337 (64%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL++  + +  E +I +D +L  + +S+  A ++ +G   +++V I+P+  D S++   E
Sbjct: 4   ELMESMNILEKEYNISKDTLLEAIENSLLTACKNHFGKADNVKVIIDPDGCDYSVYMEKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE+   QISL  AR   P   +G +V  P+   DFGR+A Q+AK VI+QK+RE  R
Sbjct: 64  VVETVEDPITQISLADARMIAPRHVLGDIVQIPIDSHDFGRIATQNAKNVILQKIREESR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
             Q  E++ K  E+++G V+R    NV VDLG  D ++   E +  E  +  +R+K YI 
Sbjct: 124 KSQLSEWQCKEKEVVTGIVQRYIGRNVSVDLGKIDAILPEAEQVKGEVFQRTERIKVYIL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP++ +SRTHP  + +LF  E+ E+ +G V+++A++R+ GSR K+AV S+D +
Sbjct: 184 EVKDSPKGPRISVSRTHPDLVRRLFEAEIAEVRDGTVEIRAIAREAGSRTKIAVSSTDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG+ G+RV A+V ELR EKIDI+ W  + A  + NAL PA V  VV DED   
Sbjct: 244 VDPVGACVGLNGARVNAIVNELRGEKIDIINWDDNPAFLIENALSPAKVISVVADEDEKE 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            +VIVP  QLSLAIG+ GQN RLA++LT + IDI +E
Sbjct: 304 AQVIVPDYQLSLAIGKEGQNARLAARLTTYKIDIKSE 340


>gi|325661695|ref|ZP_08150318.1| transcription termination factor NusA [Lachnospiraceae bacterium
           4_1_37FAA]
 gi|331084712|ref|ZP_08333800.1| transcription termination factor NusA [Lachnospiraceae bacterium
           9_1_43BFAA]
 gi|325471948|gb|EGC75163.1| transcription termination factor NusA [Lachnospiraceae bacterium
           4_1_37FAA]
 gi|330410806|gb|EGG90228.1| transcription termination factor NusA [Lachnospiraceae bacterium
           9_1_43BFAA]
          Length = 377

 Score =  278 bits (710), Expect = 2e-72,   Method: Compositional matrix adjust.
 Identities = 147/337 (43%), Positives = 225/337 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL+    +  EK I ++ +L  + +S+  A ++ +G   +I++ +N ET D S+F    
Sbjct: 4   ELLEALTILEEEKDISKETMLDAIENSLMNACKNHFGKADNIKIIMNRETCDYSVFAEKV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+   +ISL  A+  D   ++G +V  P+   +FGR+A Q+AK +I+QK+RE ER
Sbjct: 64  VVEEVEDEVMEISLADAKMIDSKFELGDIVQIPVESKEFGRIATQNAKNLILQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y ++ +K  +I++G V+R    NV ++LG +D ++  +E +  E  +P +R+K Y+ 
Sbjct: 124 KVVYDQYFEKEKDIVTGIVQRYVGKNVSINLGKADAMLTENEQVKGEVFKPTERIKLYVV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP++L+SRTHP+ + +LF  EV E+ +G V++K++SR+ GSR K+AV+S+D  
Sbjct: 184 EVKNTTKGPKILVSRTHPELVKRLFESEVAEVKDGTVEIKSISREAGSRTKIAVWSNDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGM G+RV A+V ELR EKIDI+ WS + A  + NAL PA V  V+ D D   
Sbjct: 244 VDPVGACVGMNGARVNAIVNELRGEKIDIINWSENPAILIENALSPAKVISVMADPDEKT 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 304 ASVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSE 340


>gi|329769654|ref|ZP_08261058.1| transcription termination factor NusA [Gemella sanguinis M325]
 gi|328838409|gb|EGF88018.1| transcription termination factor NusA [Gemella sanguinis M325]
          Length = 343

 Score =  278 bits (710), Expect = 2e-72,   Method: Compositional matrix adjust.
 Identities = 144/340 (42%), Positives = 215/340 (63%), Gaps = 2/340 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +LL+    +  EK I  D+++  +  ++  A +  +    ++RV+ N  TGD       +
Sbjct: 4   DLLKAIKLIEQEKGIAEDILVEAIELALLSAYKKNFNAAKNVRVDFNRATGDYKFIIRKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   + +L+ A   +P+ ++G +  +   P DFGRV  Q+AKQ ++Q++REAE+
Sbjct: 64  VVEEVYDDRIEFALEDALKINPAYEVGDIYEEEDLPSDFGRVGAQAAKQALLQRLREAEK 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + E+ +  GEI+SGTV R++   V V LG  + ++  +E +  E   P   +K YI 
Sbjct: 124 EILFKEYSEYEGEILSGTVDRIDTRYVYVKLGKIEAILGENERVPGEEYVPQTPIKVYIA 183

Query: 188 DVRREQRG--PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
            V    RG  P VL SR+HP+F+ +LF +EVPEIYNG+V++K+VSR+ G R K+AV+S D
Sbjct: 184 KVDNPSRGSKPHVLASRSHPEFIRRLFEIEVPEIYNGVVEIKSVSREAGDRTKIAVYSED 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            +IDPVGACVG +G RV  +V+EL  EKIDI+ W  D   F+ NAL PA V ++ +DE+ 
Sbjct: 244 KNIDPVGACVGNKGERVNRIVSELNGEKIDIITWDADPVKFITNALAPAKVEEISIDEEE 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
               V V  +QLSLAIG++GQNVRLA++LTGW IDI   E
Sbjct: 304 KIANVKVKDDQLSLAIGKKGQNVRLAAKLTGWKIDIKAAE 343


>gi|254375031|ref|ZP_04990511.1| transcription elongation factor [Francisella novicida GA99-3548]
 gi|151572749|gb|EDN38403.1| transcription elongation factor [Francisella novicida GA99-3548]
          Length = 489

 Score =  278 bits (710), Expect = 2e-72,   Method: Compositional matrix adjust.
 Identities = 161/473 (34%), Positives = 289/473 (61%), Gaps = 19/473 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL + + VA EK I +D++   M +++    +       +I V+I+  TGD    R+  
Sbjct: 4   ELLLVLETVANEKDISKDLLFEAMEEALAIITKKELDEHMNIEVKIDRVTGDFKADRVWH 63

Query: 68  VVEEVEN---YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           +V E E+   Y+ ++   VA+++  ++  G V+ +P+   ++GR+A   AKQ++++K++ 
Sbjct: 64  IVSEDEDLIDYSKELYEDVAQEKGYNVKAGDVIREPVEVKEYGRIAATMAKQILMKKIKN 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVK 183
            ER++    +++K+G+I+ G +KR  Y  ++VDLGN ++G++ + + I+RE  R GD+++
Sbjct: 124 FEREKSARFYQNKIGDIVYGEIKRATYEILVVDLGNNAEGILPKKDLIARERYRVGDKIR 183

Query: 184 SYIYDVRREQRG--PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           + +  V  ++ G    ++LSR+    +  LF +EVPE+   ++ +  V R+PG R+K+ V
Sbjct: 184 ACVEAVESDESGKLSTIMLSRSSNTMLKALFKLEVPEVEEELINIVNVVREPGFRSKVTV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP---AIVTK 298
            S+D  IDP GACVG+RGSR+ ++++EL  EK+D+++W+ D   + IN+L P   A + +
Sbjct: 244 KSNDQRIDPCGACVGVRGSRIHSIMSELNGEKVDVILWNEDMVQYAINSLSPVDAADILE 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           V +DE+   ++++V +E LS AIG+ G NVRLAS L GW I+++++ E    +Q    E+
Sbjct: 304 VNVDEETNSMDIVVKQESLSKAIGKNGVNVRLASSLIGWKINVLSDAEQE-EKQMSIVEK 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
              F++A+++D   A +L+ EG   +E+LA +  +E+  IEGFDEE   E+Q RA+    
Sbjct: 363 ---FVEALDIDHDFALVLIEEGIETLEDLAYLDRAELLEIEGFDEEIVDELQERAKA--- 416

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
              + L + +     +++L  + G+   +   L +N I TMEDLA  SVD+LL
Sbjct: 417 ---VILSQALGGKKPAQDLLDMQGMSLDLAEQLAQNNIVTMEDLAELSVDELL 466


>gi|154485019|ref|ZP_02027467.1| hypothetical protein EUBVEN_02737 [Eubacterium ventriosum ATCC
           27560]
 gi|149733972|gb|EDM50091.1| hypothetical protein EUBVEN_02737 [Eubacterium ventriosum ATCC
           27560]
          Length = 408

 Score =  278 bits (710), Expect = 2e-72,   Method: Compositional matrix adjust.
 Identities = 143/339 (42%), Positives = 222/339 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL++  + +  EK I ++ +   + +++  A ++ +    ++ V ++ ETGD  ++   E
Sbjct: 4   ELIEALNILEKEKDISKESLFEAIENNLVVAYKNNFNKADNVTVTMDRETGDFHIYSQKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISL+ AR    + ++G +V+  +   DFGR+A QSAK  I+QK+RE ER
Sbjct: 64  VVEEVMDPVTEISLEDARSIKGTYELGDIVNIEIQSKDFGRIATQSAKNGILQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y ++ +K  +I++G V+R+   N+ V+LG  D V+   E    E+ RP +R+K YI 
Sbjct: 124 KSLYEQYFEKQDDIVTGIVQRINGKNISVNLGKVDTVLMEKEQAKGEHFRPTERIKLYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   RGP++++SRTHP  + +LF  EV EI +G V++K+++R+ GSR K+AV+S++  
Sbjct: 184 EVKDNGRGPRIVVSRTHPGLVKRLFEQEVTEIQDGTVEIKSIAREAGSRTKMAVWSNNED 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +D VGACVG+ G+RV AVV ELRDEKIDIV WS + A  + NAL P+ V  V+ D D   
Sbjct: 244 VDAVGACVGVNGARVNAVVDELRDEKIDIVNWSENPAILIENALSPSKVVAVLADPDNKE 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E +
Sbjct: 304 ALVVVPDFQLSLAIGKEGQNARLAAKLTGFKIDIKSESQ 342


>gi|187778986|ref|ZP_02995459.1| hypothetical protein CLOSPO_02581 [Clostridium sporogenes ATCC
           15579]
 gi|187772611|gb|EDU36413.1| hypothetical protein CLOSPO_02581 [Clostridium sporogenes ATCC
           15579]
          Length = 454

 Score =  277 bits (709), Expect = 3e-72,   Method: Compositional matrix adjust.
 Identities = 144/339 (42%), Positives = 233/339 (68%), Gaps = 5/339 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLF 63
           E ++    +  EK I  D++ + + D++  A +  Y    G+ ++++V +N E+G+I ++
Sbjct: 4   EFVEALKEIVKEKGISADLLFTTIEDALVTAYKKNYAKQGGSTNNVKVIMNRESGEIKVY 63

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
              +VVE VE    +ISL+ A++ DP+ ++  +++  + P  FGR+A Q+AKQV+IQ+++
Sbjct: 64  AQKKVVELVEEEIEEISLEDAKEIDPNYELEDIINIEVTPKKFGRIAAQAAKQVVIQRIK 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           E ER   Y E+ +K  +I++GTV R + GN+++++G S+ V+  +E I  E  R  +++K
Sbjct: 124 EEERRIVYNEYIEKEEDILTGTVLRKDKGNILINVGKSEAVLGPNEQIPGEQFRFNEKIK 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            Y+ +V+   +GPQVL+SRTHP  + +LF +EVPEIYNG+V++K+++R+ GSR K+AV+S
Sbjct: 184 LYVVEVKNTTKGPQVLISRTHPGLVKRLFELEVPEIYNGVVEIKSIAREAGSRTKIAVYS 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLD 302
           +D ++DP+GACVG +G RVQ +V EL++EKIDI+ WS      + NAL PA V  V ++D
Sbjct: 244 NDEAVDPMGACVGPKGVRVQNIVNELKNEKIDIIKWSKFPDELISNALSPAKVIDVTIVD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           E+     V+V   QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 304 EENKAARVVVDDSQLSLAIGKEGQNVRLAAKLTGWKIDI 342


>gi|291546819|emb|CBL19927.1| transcription termination factor NusA [Ruminococcus sp. SR1/5]
          Length = 397

 Score =  277 bits (709), Expect = 3e-72,   Method: Compositional matrix adjust.
 Identities = 144/331 (43%), Positives = 217/331 (65%)

Query: 14  DAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVE 73
           D +  EK+I +D +L  +  S+ +A ++ +G   ++ V I+PET D S++    VVE VE
Sbjct: 10  DVLEKEKNISKDTLLEAIEQSLIQACKNHFGKADNVHVMIDPETCDFSVYADRTVVEHVE 69

Query: 74  NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
           +   +ISL  A+  + + +IG V+   +   +FGR+A Q+AK VI+QK+RE ER   Y +
Sbjct: 70  DPALEISLVDAQKTNTNAEIGDVMKVEIQSKEFGRIATQNAKNVILQKIREEERKVLYDQ 129

Query: 134 FKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
           +     E+++G V+RV   NV ++LG +D V+  +E +  E  +P +RVK YI +V+   
Sbjct: 130 YYGIEKEVVTGIVQRVMGKNVSINLGKADAVLTENEQVKGETFQPTERVKVYILEVKDTP 189

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
           +GP++L+SRTHP  + +LF  EV E+ +G V++K+++R+ GSR K+AV+S+D  +D VGA
Sbjct: 190 KGPRILVSRTHPGLVKRLFESEVAEVRDGTVEIKSIAREAGSRTKIAVWSNDPDVDAVGA 249

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVP 313
           CVGM G+RV AVV EL  EKIDI+ W  + A  + NAL PA V  V+ D D     V+VP
Sbjct: 250 CVGMNGARVGAVVNELHGEKIDIINWDENPAILIENALSPAKVIAVMADPDEKTALVVVP 309

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 310 DYQLSLAIGKEGQNARLAARLTGFKIDIKSE 340


>gi|229918666|ref|YP_002887312.1| NusA antitermination factor [Exiguobacterium sp. AT1b]
 gi|229470095|gb|ACQ71867.1| NusA antitermination factor [Exiguobacterium sp. AT1b]
          Length = 387

 Score =  277 bits (709), Expect = 3e-72,   Method: Compositional matrix adjust.
 Identities = 153/341 (44%), Positives = 218/341 (63%), Gaps = 6/341 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAAR-SLYGTMSDIRVEINPETGDISLFRLL 66
           +LL   D +A EK ID+++++  +  ++  A R ++      ++VE +  TGDI ++ LL
Sbjct: 4   QLLTTIDQIAKEKGIDKNIIIDALEQALISAYRRNVANPNEHVKVEFDQVTGDIRVYALL 63

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           EVVE +     Q+SL+ A + DP+ ++G    + + P DFGRVA  +AKQV+ QK+REAE
Sbjct: 64  EVVERLTQPDQQLSLEEAHEIDPNYELGDFHKEEVTPSDFGRVAAMTAKQVVTQKMREAE 123

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS-DGVIRRDETISRENLRPGDRVKSY 185
           R+R Y  F DK  EI++G V+R +  N+ + L N+ + V+  +E +  E+ +  DR+K Y
Sbjct: 124 RERIYNHFADKEDEIMTGIVERFDPRNLYIGLENNIEAVLTPNEQMPNESYQIHDRIKVY 183

Query: 186 IYDVRREQRG--PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           +  V    +G    + +SRTHP  + +LF +EVPEI NG V V +VSR+ G R+K+AV S
Sbjct: 184 VTKVDSTTKGSGAAIQVSRTHPGLLRRLFELEVPEISNGTVDVMSVSREAGDRSKIAVHS 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
               +DPVGACVG +G RVQ +V EL  EKIDIV WS D   FV NAL PA V  V ++E
Sbjct: 244 D--IVDPVGACVGPKGQRVQTIVDELNGEKIDIVRWSEDPKEFVRNALSPAQVVAVYVNE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
                 V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 302 PAKSTTVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 342


>gi|332184778|gb|AEE27032.1| Transcription termination protein NusA [Francisella cf. novicida
           3523]
          Length = 489

 Score =  277 bits (709), Expect = 3e-72,   Method: Compositional matrix adjust.
 Identities = 163/473 (34%), Positives = 288/473 (60%), Gaps = 19/473 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL + + VA EK I +D++   M +++    +       +I V+I+  TGD    R+  
Sbjct: 4   ELLLVLETVANEKDISKDLLFEAMEEALAIITKKELDEHMNIEVKIDRVTGDFKADRVWH 63

Query: 68  VVEEVEN---YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           +V E E+   Y+ ++   VA+++  ++  G V+ +P+   ++GR+A   AKQ++++K++ 
Sbjct: 64  IVSENEDLIDYSKELYEDVAQEKGYNVKAGDVIREPVEVKEYGRIAATMAKQILMKKIKN 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVK 183
            ER++    +++K+G+I+ G +KR  Y  +IVDLGN ++G++ + + I+RE  R GD+++
Sbjct: 124 FEREKTARFYQNKIGDIVYGEIKRATYEILIVDLGNNAEGILPKKDLIARERYRVGDKIR 183

Query: 184 SYIYDVRREQRGP--QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           + +  V  +  G    V+LSR+    +  LF +EVPE+   ++ +  V R+PG R+K+ V
Sbjct: 184 ACVESVECDDSGKPNTVMLSRSSNTMLKALFKLEVPEVEEELINIVNVVREPGFRSKVTV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP---AIVTK 298
            S+D  IDP GACVG+RGSR+ ++++EL  EK+D+++W+ D   + IN+L P   A + +
Sbjct: 244 KSNDQRIDPCGACVGVRGSRIHSIMSELNGEKVDVILWNEDMVQYAINSLSPVDAADILE 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           V +DE+   ++++V +E LS AIG+ G NVRLAS L GW I+++++ E    +Q    E+
Sbjct: 304 VNVDEETNSMDIVVKQESLSKAIGKNGVNVRLASTLIGWKINVLSDAEQE-EKQMSIVEK 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
              F++A+++D   A +L+ EG   +E+LA +  +E+  IEGFDEE   E+Q RA+    
Sbjct: 363 ---FVEALDIDHDFALVLIEEGIETLEDLAYLDRAELLEIEGFDEEIVDELQERAKA--- 416

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
              + L + +     +++L  + G+   +   L +N I TMEDLA  SVD+LL
Sbjct: 417 ---VILSQALGGKKPAQDLLDMQGMSLDLAEQLAQNNIVTMEDLAELSVDELL 466


>gi|118498223|ref|YP_899273.1| transcription elongation factor NusA [Francisella tularensis subsp.
           novicida U112]
 gi|194324407|ref|ZP_03058180.1| transcription termination factor NusA [Francisella tularensis
           subsp. novicida FTE]
 gi|208780250|ref|ZP_03247592.1| transcription termination factor NusA [Francisella novicida FTG]
 gi|118424129|gb|ABK90519.1| transcription elongation factor [Francisella novicida U112]
 gi|194321472|gb|EDX18957.1| transcription termination factor NusA [Francisella tularensis
           subsp. novicida FTE]
 gi|208743899|gb|EDZ90201.1| transcription termination factor NusA [Francisella novicida FTG]
 gi|332678959|gb|AEE88088.1| Transcription termination protein NusA [Francisella cf. novicida
           Fx1]
          Length = 489

 Score =  277 bits (708), Expect = 3e-72,   Method: Compositional matrix adjust.
 Identities = 161/473 (34%), Positives = 289/473 (61%), Gaps = 19/473 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL + + VA EK I +D++   M +++    +       +I V+I+  TGD    R+  
Sbjct: 4   ELLLVLETVANEKDISKDLLFEAMEEALAIITKKELDEHMNIEVKIDRVTGDFKADRVWH 63

Query: 68  VVEEVEN---YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           +V E E+   Y+ ++   VA+++  ++  G V+ +P+   ++GR+A   AKQ++++K++ 
Sbjct: 64  IVSEDEDLIDYSKELYEDVAQEKGYNVKAGDVIREPVEVKEYGRIAATMAKQILMKKIKN 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVK 183
            ER++    +++K+G+I+ G +KR  Y  ++VDLGN ++G++ + + I+RE  R GD+++
Sbjct: 124 FEREKSARFYQNKIGDIVYGEIKRATYEILVVDLGNNAEGILPKKDLIARERYRVGDKIR 183

Query: 184 SYIYDVRREQRGP--QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           + +  V  ++ G    ++LSR+    +  LF +EVPE+   ++ +  V R+PG R+K+ V
Sbjct: 184 ACVEAVESDESGKPNTIMLSRSSNTMLKALFKLEVPEVEEELINIVNVVREPGFRSKVTV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP---AIVTK 298
            S+D  IDP GACVG+RGSR+ ++++EL  EK+D+++W+ D   + IN+L P   A + +
Sbjct: 244 KSNDQRIDPCGACVGVRGSRIHSIMSELNGEKVDVILWNEDMVQYAINSLSPVDAADILE 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           V +DE+   ++++V +E LS AIG+ G NVRLAS L GW I+++++ E    +Q    E+
Sbjct: 304 VNVDEETNSMDIVVKQESLSKAIGKNGVNVRLASSLIGWKINVLSDAEQE-EKQMSIVEK 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
              F++A+++D   A +L+ EG   +E+LA +  +E+  IEGFDEE   E+Q RA+    
Sbjct: 363 ---FVEALDIDHDFALVLIEEGIETLEDLAYLDRAELLEIEGFDEEIVDELQERAKA--- 416

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
              + L + +     +++L  + G+   +   L +N I TMEDLA  SVD+LL
Sbjct: 417 ---VILSQALGGKKPAQDLLDMQGMSLDLAEQLAQNNIVTMEDLAELSVDELL 466


>gi|251797400|ref|YP_003012131.1| NusA antitermination factor [Paenibacillus sp. JDR-2]
 gi|247545026|gb|ACT02045.1| NusA antitermination factor [Paenibacillus sp. JDR-2]
          Length = 365

 Score =  277 bits (708), Expect = 3e-72,   Method: Compositional matrix adjust.
 Identities = 140/340 (41%), Positives = 220/340 (64%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           ++ ++    +  +K I ++V+L  +  ++  + +  +    ++RV+IN  +G I ++   
Sbjct: 3   MDFIEALSEIERDKGIAKEVLLEAIEAALISSYKRNFNAAQNVRVDINRHSGVIKVYARK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VV+EV +   +I++  +R+ +P   +  +    + P DFGR+A Q+AKQV+ Q++REAE
Sbjct: 63  TVVDEVLDPRLEITVDASREINPHYQLDDIADIEVTPRDFGRIAAQTAKQVVTQRIREAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R   Y  F DK  +I++G V+R +  N+ VDLG  + V+   E +  +  + GDRVKSYI
Sbjct: 123 RGLIYNAFIDKEEDIVNGIVQRQDTRNLFVDLGKVEAVLPLTELMPTDKFKHGDRVKSYI 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V    +GPQ++LSRTHP  + +LF +EVPEIY+G+V++++V+R+ G R+K+AV+S + 
Sbjct: 183 TKVENTTKGPQIILSRTHPGLLKRLFELEVPEIYDGVVEIRSVAREAGFRSKIAVYSRNE 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVG+CVG +G RVQ +V EL  EKIDIV WS     +V NAL P+ V +V++ E   
Sbjct: 243 EVDPVGSCVGPKGMRVQTIVNELTGEKIDIVRWSESVEEYVANALSPSKVLEVIVFEQEK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
              VIVP  QLSLAIG +GQN RLA++LTGW IDI +E +
Sbjct: 303 MARVIVPDYQLSLAIGIKGQNARLAAKLTGWKIDIKSETQ 342


>gi|212696551|ref|ZP_03304679.1| hypothetical protein ANHYDRO_01089 [Anaerococcus hydrogenalis DSM
           7454]
 gi|212676487|gb|EEB36094.1| hypothetical protein ANHYDRO_01089 [Anaerococcus hydrogenalis DSM
           7454]
          Length = 410

 Score =  277 bits (708), Expect = 3e-72,   Method: Compositional matrix adjust.
 Identities = 134/327 (40%), Positives = 216/327 (66%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQI 79
           K++D+ ++L  +  ++ K+ +  Y    ++ V I+ ETG+I ++ L  VV+EV +   +I
Sbjct: 16  KNVDKKIILEALEKALVKSYQKNYENNENVDVNIDDETGEIEVYSLKNVVDEVNDPIAEI 75

Query: 80  SLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVG 139
           S   AR+ D  +D+G +    + P +FGRVA Q+A+ +++QK+R+A+RD  Y E+ D+  
Sbjct: 76  SKTKAREIDSKLDLGDICRVKIAPKNFGRVAAQTARNIVLQKIRDAQRDSVYSEYLDRAN 135

Query: 140 EIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVL 199
           EII+G V+R +  NV ++L   +G+I   E +  E      R+K  I DV+   + PQ++
Sbjct: 136 EIITGVVQREDKYNVYINLDKIEGIIPLKEQVENEKYIANQRIKVLIKDVKNTTKEPQII 195

Query: 200 LSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRG 259
           LSR     +V+LF +EVPEI NGI+++  + R+ GSR K+AVFS+D  ID +GAC+G +G
Sbjct: 196 LSRKDKDLVVRLFELEVPEITNGIIEIYGIDREAGSRTKIAVFSNDPEIDSIGACIGFKG 255

Query: 260 SRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSL 319
           SRV ++V EL+ EKIDI+ +  D  TF+ N+L PA + +V +++   +  V+V ++QLSL
Sbjct: 256 SRVNSIVEELQGEKIDIINYDKDIKTFIKNSLSPAEINEVYINDMKKQSLVVVREDQLSL 315

Query: 320 AIGRRGQNVRLASQLTGWTIDIITEEE 346
           AIG+ GQN RLA++LTGW IDI ++EE
Sbjct: 316 AIGKEGQNARLAARLTGWKIDIKSQEE 342


>gi|325847934|ref|ZP_08170105.1| transcription termination factor NusA [Anaerococcus hydrogenalis
           ACS-025-V-Sch4]
 gi|325480803|gb|EGC83857.1| transcription termination factor NusA [Anaerococcus hydrogenalis
           ACS-025-V-Sch4]
          Length = 410

 Score =  276 bits (707), Expect = 4e-72,   Method: Compositional matrix adjust.
 Identities = 134/327 (40%), Positives = 216/327 (66%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQI 79
           K++D+ ++L  +  ++ K+ +  Y    ++ V I+ ETG+I ++ L  VV+EV +   +I
Sbjct: 16  KNVDKKIILEALEKALVKSYQKNYENNENVDVNIDEETGEIEVYSLKNVVDEVNDPIAEI 75

Query: 80  SLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVG 139
           S   AR+ D  +D+G +    + P +FGRVA Q+A+ +++QK+R+A+RD  Y E+ D+  
Sbjct: 76  SKTKAREIDSKLDLGDICRVKIAPKNFGRVAAQTARNIVLQKIRDAQRDSVYSEYLDRAN 135

Query: 140 EIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVL 199
           EII+G V+R +  NV ++L   +G+I   E +  E      R+K  I DV+   + PQ++
Sbjct: 136 EIITGVVQREDKYNVYINLDKIEGIIPLKEQVENEKYIANQRIKVLIKDVKNTTKEPQII 195

Query: 200 LSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRG 259
           LSR     +V+LF +EVPEI NGI+++  + R+ GSR K+AVFS+D  ID +GAC+G +G
Sbjct: 196 LSRKDKDLVVRLFELEVPEITNGIIEIYGIDREAGSRTKIAVFSNDPEIDSIGACIGFKG 255

Query: 260 SRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSL 319
           SRV ++V EL+ EKIDI+ +  D  TF+ N+L PA + +V +++   +  V+V ++QLSL
Sbjct: 256 SRVNSIVEELQGEKIDIINYDKDIKTFIKNSLSPAEINEVYINDMKKQSLVVVREDQLSL 315

Query: 320 AIGRRGQNVRLASQLTGWTIDIITEEE 346
           AIG+ GQN RLA++LTGW IDI ++EE
Sbjct: 316 AIGKEGQNARLAARLTGWKIDIKSQEE 342


>gi|312972559|ref|ZP_07786732.1| transcription elongation protein nusA [Escherichia coli 1827-70]
 gi|310332501|gb|EFP99714.1| transcription elongation protein nusA [Escherichia coli 1827-70]
          Length = 335

 Score =  276 bits (707), Expect = 5e-72,   Method: Compositional matrix adjust.
 Identities = 140/321 (43%), Positives = 212/321 (66%), Gaps = 3/321 (0%)

Query: 164 VIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGI 223
           +I R++ + REN RPGDRV+  +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   +
Sbjct: 1   MILREDMLPRENFRPGDRVRGVLYSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEV 60

Query: 224 VQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDS 283
           +++KA +RDPGSRAK+AV ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + 
Sbjct: 61  IEIKAAARDPGSRAKIAVKTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNP 120

Query: 284 ATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           A FVINA+ PA V  +V+DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T
Sbjct: 121 AQFVINAMAPADVASIVVDEDKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMT 180

Query: 344 EEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
            ++     Q + +     F + +++DE  A +LV EGF+ +EELA V + E+  IEG DE
Sbjct: 181 VDDLQAKHQAEAHAAIDTFTKYLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDE 240

Query: 404 ETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLA 463
            T   ++ RA+  L  I    ++ + +   +++L ++ G+D  +   L   G+ T+EDLA
Sbjct: 241 PTVEALRERAKNALATIAQAQEESLGDNKPADDLLNLEGVDRDLAFKLAARGVCTLEDLA 300

Query: 464 GCSVDDLL---GWSENKGGNI 481
              +DDL    G ++ K G +
Sbjct: 301 EQGIDDLADIEGLTDEKAGAL 321


>gi|266625027|ref|ZP_06117962.1| transcription termination factor NusA [Clostridium hathewayi DSM
           13479]
 gi|288863082|gb|EFC95380.1| transcription termination factor NusA [Clostridium hathewayi DSM
           13479]
          Length = 401

 Score =  276 bits (707), Expect = 5e-72,   Method: Compositional matrix adjust.
 Identities = 146/337 (43%), Positives = 221/337 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL+  + +  E +I +D +L  + +S+  A ++ +G   +++V +N ET D S++   E
Sbjct: 4   ELLEALNILEKENNISKDTLLEAIENSLLTACKNHFGKADNVKVSMNHETCDFSVYAEKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+   QISL  A+  DP  DIG +V  P+    FGR+A Q+AK VI+QK+RE  R
Sbjct: 64  VVEEVEDPLLQISLAEAKMTDPKYDIGDIVQCPIDSKKFGRIATQNAKNVILQKIREEGR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y ++  +  E+++G V+R    NV ++LG  D ++   E +  E  +  +R+K Y+ 
Sbjct: 124 KALYNDWYCQEKEVVTGIVQRYLGKNVSINLGKVDAILNETEMVKGEVFKATERIKVYVL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP++ +SRTHP  + +LF  EV E+ +G V++KA++R+ GSR K+AV S+D +
Sbjct: 184 EVKDTPKGPRISVSRTHPDLVKRLFESEVAEVKDGTVEIKAIAREAGSRTKIAVKSNDQN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG+ G+RV ++V ELR EKIDI+ W  + A  + NAL PA V  VV DE+   
Sbjct: 244 VDPVGACVGLNGARVNSIVNELRGEKIDIINWDDNPAYLIENALSPAKVICVVADEESRE 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            +VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 304 AQVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSE 340


>gi|227486447|ref|ZP_03916763.1| transcription termination factor NusA [Anaerococcus lactolyticus
           ATCC 51172]
 gi|227235628|gb|EEI85643.1| transcription termination factor NusA [Anaerococcus lactolyticus
           ATCC 51172]
          Length = 407

 Score =  276 bits (705), Expect = 7e-72,   Method: Compositional matrix adjust.
 Identities = 136/341 (39%), Positives = 235/341 (68%), Gaps = 1/341 (0%)

Query: 14  DAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVE 73
           D +  +K+++++V+L  +  ++ K+ +  Y    ++ V I+ ETG+I ++ L EVV++VE
Sbjct: 10  DELCKDKNVEKEVILDALEKALVKSYQKNYDNQENVDVTIDHETGEIGVYALKEVVDKVE 69

Query: 74  NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
           +   QI+LK A+D D S+ +G      L P +FGRVA Q+A+ ++IQK+R+A+R+  + +
Sbjct: 70  DPINQINLKDAKDLDASLAVGDTARIKLVPKNFGRVAAQTARNIVIQKIRDAQRESLFGD 129

Query: 134 FKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
           + D+  E+I+G ++RV+  NV V+L   +G++   E +  E+  P +R+K  I +VR   
Sbjct: 130 YLDRENELITGLIQRVDKYNVYVNLDRIEGIVPLKEQVPTESYIPNERMKFLIKEVRNSG 189

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
           + PQ++LSR+    + +LF +EVPEI +G++++ +++R+ GSR K+AVFS+D +ID VGA
Sbjct: 190 KDPQIVLSRSSENLVTRLFELEVPEITDGVIEIYSIAREAGSRTKMAVFSNDETIDAVGA 249

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVP 313
           C+G +G+RV ++V  L+ EKIDI+ +S D  +F+ NAL PA + +V ++E   +  V+V 
Sbjct: 250 CIGYKGARVNSIVDSLQGEKIDIINYSKDIESFISNALSPADIIEVYVNERNKQSLVVVE 309

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE-DSINRQK 353
            +QLSLAIG+ GQN RLA++LTGW IDI ++ E DS+++++
Sbjct: 310 DDQLSLAIGKEGQNARLAARLTGWKIDIKSKLEFDSLSQEE 350


>gi|210622610|ref|ZP_03293270.1| hypothetical protein CLOHIR_01218 [Clostridium hiranonis DSM 13275]
 gi|210154111|gb|EEA85117.1| hypothetical protein CLOHIR_01218 [Clostridium hiranonis DSM 13275]
          Length = 390

 Score =  276 bits (705), Expect = 8e-72,   Method: Compositional matrix adjust.
 Identities = 151/359 (42%), Positives = 230/359 (64%), Gaps = 5/359 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E L   + +   K ID++V++  +  ++  A +  +G   ++ VE + + GDI ++    
Sbjct: 4   EFLNALNEIVETKGIDKEVLIDTIEQALLTAYKKNFGQARNVEVEFDRDNGDIKVYSTRT 63

Query: 68  VVEEVENYTC--QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV+E + Y    +I L  AR   PS +IG V+ + + P +FGR+A Q+AKQV++Q++REA
Sbjct: 64  VVDESDYYDSFLEIELSEARKISPSYEIGDVIRNEVTPSNFGRIAAQTAKQVVVQRLREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  Y EF ++  EI+ G + R     V VDLG  +GV+ R E I  E  + G R+K Y
Sbjct: 124 EREIVYNEFMERESEIVDGEITRATPSVVYVDLGKIEGVMPRSEKIDNETYKEGQRIKVY 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V++  +GPQ+++SR++   + +LF +EVPEI  GIVQ+K+++R+ GSR K+AV S D
Sbjct: 184 VVEVKKGSKGPQIIVSRSNKGLVGRLFELEVPEIEQGIVQIKSIAREAGSRTKMAVKSLD 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDP+GACVG +GSRV+ +V EL DEKIDI+ +S D A ++  +L P+ V KV ++E+ 
Sbjct: 244 DKIDPIGACVGPKGSRVKNIVDELGDEKIDIIKYSDDFAEYISASLSPSKVVKVEVNEEE 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE---EEDSINRQKDFNERTQF 361
               V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E   EED  N   D  E ++ 
Sbjct: 304 KSALVVVPDYQLSLAIGKDGQNARLAAKLTGWKIDIKSESQYEEDLANGVYDKKEESEL 362


>gi|182417570|ref|ZP_02948895.1| transcription termination factor NusA [Clostridium butyricum 5521]
 gi|237667179|ref|ZP_04527163.1| transcription termination factor NusA [Clostridium butyricum E4
           str. BoNT E BL5262]
 gi|182378583|gb|EDT76111.1| transcription termination factor NusA [Clostridium butyricum 5521]
 gi|237655527|gb|EEP53083.1| transcription termination factor NusA [Clostridium butyricum E4
           str. BoNT E BL5262]
          Length = 384

 Score =  275 bits (704), Expect = 1e-71,   Method: Compositional matrix adjust.
 Identities = 143/327 (43%), Positives = 223/327 (68%), Gaps = 4/327 (1%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMS----DIRVEINPETGDISLFRLLEVVEEVEN 74
           EK I  D++ + + D++  A +  Y  ++    +++V I+ ETG+I ++    VV+EV +
Sbjct: 15  EKGICEDLIFTTIQDALVAAYKKNYANVNTNAQNVKVNIDRETGEIRVYAQKVVVDEVYD 74

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              +IS++ A+   P  ++  +V   + P +FGRVA Q AKQV+ Q+++EAER+  Y E+
Sbjct: 75  DVTEISIEEAKVVSPKYEVDDIVDLEVTPKNFGRVAAQLAKQVVTQRIKEAERNIIYDEY 134

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           K++  +II+GT+ R + G V V+LG  +GVI  +E I  E  +  +++K YI +V+   +
Sbjct: 135 KEQEFDIITGTILRKDKGMVFVNLGKLEGVIGPNEQIPGEEYKFNEKLKLYIVEVKNGSK 194

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           GPQ+ +SRTHP  + +LF +EVPEI+ G+V+VK++SR+ GSR+K+AV+S+D  +D +GAC
Sbjct: 195 GPQIHVSRTHPGLVKRLFELEVPEIFEGVVEVKSISREAGSRSKIAVYSNDEEVDAMGAC 254

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPK 314
           VG +G RVQ +V EL++EKIDI+ WS D A F+ N+L PA V  V +DE+    +V+V  
Sbjct: 255 VGPKGVRVQNIVNELKNEKIDIIKWSKDPAEFIANSLSPAKVLSVEVDEENKTAKVVVDD 314

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDI 341
            QLSLAIG+ GQNVRLA++LT W IDI
Sbjct: 315 NQLSLAIGKEGQNVRLAAKLTNWKIDI 341


>gi|259046783|ref|ZP_05737184.1| N utilization substance protein A [Granulicatella adiacens ATCC
           49175]
 gi|259036551|gb|EEW37806.1| N utilization substance protein A [Granulicatella adiacens ATCC
           49175]
          Length = 366

 Score =  275 bits (704), Expect = 1e-71,   Method: Compositional matrix adjust.
 Identities = 139/337 (41%), Positives = 216/337 (64%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK I +DVV++ +  ++  A +  YG   ++ VE + + G++ ++ + E
Sbjct: 4   EMLRALTVLEEEKGISKDVVITALEAALVSAYKKNYGQAQNVEVEFDQKKGNMHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE V + T ++SL+ A ++  + ++G  +   + P DFGR+A Q+AKQVI+Q++R+AER
Sbjct: 64  VVEYVFDSTLEVSLEEAHEKHKAYEVGDKIRFEVTPKDFGRIAAQTAKQVIMQRLRDAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF     EI++G V R ++  V V+LG     + + + I  E   P  R+K  + 
Sbjct: 124 TNIYNEFIQYENEIMTGVVDRQDFRYVYVNLGRIVAGMAKQDQIPTEEYLPDQRIKVLVS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQ+ +SRTHP  + +LF  EVPEIY+G+V++ +++R+ G RAK+AV ++D++
Sbjct: 184 KVDNTTKGPQIFVSRTHPDLLKRLFEQEVPEIYDGVVEIVSIAREAGDRAKVAVRTNDAN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG CVG RG RV  +V EL  E +DIV W+ D A ++ NAL PA V KV  + D   
Sbjct: 244 LDPVGTCVGPRGQRVHNIVEELNGENMDIVEWNEDPAIYIKNALNPAQVLKVEFNSDNNG 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTG+ IDI +E
Sbjct: 304 CIVVVPDHQLSLAIGKRGQNARLAAKLTGYRIDIKSE 340


>gi|229824126|ref|ZP_04450195.1| hypothetical protein GCWU000282_01430 [Catonella morbi ATCC 51271]
 gi|229786480|gb|EEP22594.1| hypothetical protein GCWU000282_01430 [Catonella morbi ATCC 51271]
          Length = 397

 Score =  275 bits (704), Expect = 1e-71,   Method: Compositional matrix adjust.
 Identities = 142/337 (42%), Positives = 212/337 (62%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL++    +  EK I R V+   +  ++  A +  Y    ++ V+ +   G I ++ + E
Sbjct: 4   ELVKAMQVLEEEKGISRQVIKEALESALALAYKKNYDQAQNVEVQFDENKGTIKVYSVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE   + T +ISL+ A   + + +IG  +   + P DFGR+A Q+AK VI+Q++REAER
Sbjct: 64  VVETNYDSTLEISLEEALKINRAYEIGDKIKFEVTPKDFGRIATQTAKHVIMQRIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + EF   V EI++GTV+R ++  + V++G  + ++   E I  E   P  R+K Y+ 
Sbjct: 124 ENIFEEFSQYVDEIMTGTVERQDHRFIYVNIGRVEAIMPLGEQIPSEQFEPDQRIKVYVA 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+++SR H  F+ +LF  EVPEIY+G V+V A++R+ G RAK+AV S D +
Sbjct: 184 KVDKTSKGPQIVVSRAHNDFLRRLFEQEVPEIYDGTVEVMAIAREAGDRAKVAVRSRDKN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVG CVG RG RVQA+V EL  E +DI+ W+ D   F+ NAL PA V KV  +E+   
Sbjct: 244 IDPVGTCVGPRGQRVQAIVNELNGENMDIIEWNEDPVVFIQNALSPAQVIKVDFNEEAHA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LT + IDI +E
Sbjct: 304 CIVVVPDNQLSLAIGKRGQNARLAARLTTYKIDIKSE 340


>gi|56707228|ref|YP_169124.1| transcription elongation factor NusA [Francisella tularensis subsp.
           tularensis SCHU S4]
 gi|110669698|ref|YP_666255.1| transcription elongation factor NusA [Francisella tularensis subsp.
           tularensis FSC198]
 gi|134301263|ref|YP_001121231.1| transcription elongation factor NusA [Francisella tularensis subsp.
           tularensis WY96-3418]
 gi|224456289|ref|ZP_03664762.1| transcription elongation factor NusA [Francisella tularensis subsp.
           tularensis MA00-2987]
 gi|254369913|ref|ZP_04985921.1| hypothetical protein [Francisella tularensis subsp. tularensis
           FSC033]
 gi|254874067|ref|ZP_05246777.1| transcription factor nusA [Francisella tularensis subsp. tularensis
           MA00-2987]
 gi|56603720|emb|CAG44682.1| N utilization substance protein A [Francisella tularensis subsp.
           tularensis SCHU S4]
 gi|110320031|emb|CAL08065.1| N utilization substance protein A [Francisella tularensis subsp.
           tularensis FSC198]
 gi|134049040|gb|ABO46111.1| transcription factor NusA [Francisella tularensis subsp. tularensis
           WY96-3418]
 gi|151568159|gb|EDN33813.1| hypothetical protein FTBG_01505 [Francisella tularensis subsp.
           tularensis FSC033]
 gi|254840066|gb|EET18502.1| transcription factor nusA [Francisella tularensis subsp. tularensis
           MA00-2987]
 gi|282158336|gb|ADA77727.1| transcription elongation factor NusA [Francisella tularensis subsp.
           tularensis NE061598]
          Length = 489

 Score =  275 bits (704), Expect = 1e-71,   Method: Compositional matrix adjust.
 Identities = 161/473 (34%), Positives = 288/473 (60%), Gaps = 19/473 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL + + VA EK I +D++   M +++    +       +I V+I+  TGD    R+  
Sbjct: 4   ELLLVLETVANEKDISKDLLFEAMEEALAIITKKELDEHMNIEVKIDRVTGDFKADRVWH 63

Query: 68  VVEEVEN---YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           +V E E+   Y+ ++   V +++  ++  G V+ +P+   ++GR+A   AKQ++++K++ 
Sbjct: 64  IVSEDEDLIDYSKELYEDVVQEKGYNVKAGDVMREPVEVKEYGRIAATMAKQILMKKIKN 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVK 183
            ER++    +++K+G+I+ G +KR  Y  ++VDLGN ++G++ + + I+RE  R GD+++
Sbjct: 124 FEREKSARFYQNKIGDIVYGEIKRATYEILVVDLGNNAEGILPKKDLIARERYRVGDKIR 183

Query: 184 SYIYDVRREQRGP--QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           + +  V  ++ G    ++LSR+    +  LF +EVPE+   ++ +  V R+PG R+K+ V
Sbjct: 184 ACVEAVESDESGKPNTIMLSRSSNTMLKALFKLEVPEVEEELINIVNVVREPGFRSKVTV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP---AIVTK 298
            S+D  IDP GACVG+RGSR+ ++++EL  EK+D+++W+ D   + IN+L P   A + +
Sbjct: 244 KSNDQRIDPCGACVGVRGSRIHSIMSELNGEKVDVILWNEDMVQYAINSLSPVDAADILE 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           V +DE+   I+++V +E LS AIG+ G NVRLAS L GW I+++++ E    +Q    E+
Sbjct: 304 VNVDEETNSIDIVVKQESLSKAIGKNGVNVRLASSLIGWKINVLSDAEQE-EKQMSIVEK 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
              F++A+++D   A +L+ EG   +E+LA +  +E+  IEGFDEE   E+Q RA+    
Sbjct: 363 ---FVEALDIDHDFALVLIEEGIETLEDLAYLDRAELLEIEGFDEEIVDELQERAKA--- 416

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
              + L + +     +++L  + G+   +   L +N I TMEDLA  SVD+LL
Sbjct: 417 ---VILSQALGGKKPAQDLLDMQGMSLDLAEQLAQNNIVTMEDLAELSVDELL 466


>gi|323340011|ref|ZP_08080277.1| transcription termination factor NusA [Lactobacillus ruminis ATCC
           25644]
 gi|323092517|gb|EFZ35123.1| transcription termination factor NusA [Lactobacillus ruminis ATCC
           25644]
          Length = 401

 Score =  275 bits (702), Expect = 2e-71,   Method: Compositional matrix adjust.
 Identities = 146/356 (41%), Positives = 218/356 (61%), Gaps = 19/356 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   DA+  EK I ++V++  +  ++  A +  YG   +++V  +   GDI +F + E
Sbjct: 4   ELLNALDALETEKGIKKEVIIDALEQALVSAYKKNYGQAQNVKVTFDARRGDIKVFAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV EV +   ++SL  A + + + +IG  +   + P DFGR+A Q+AKQVI+Q+VRE ER
Sbjct: 64  VVNEVLDSCLEVSLSDALEINRAYEIGDTIDFEVTPRDFGRIAAQTAKQVIMQRVREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y ++     EI++G V+R +   V V+LGN + V+ + + +  E     DR+K Y+Y
Sbjct: 124 QMIYNQYSRYENEIMTGEVERRDSRYVYVNLGNVEAVLSKRDQVPGEVYNSHDRIKVYVY 183

Query: 188 DV------------------RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAV 229
            V                  +R  RGPQV +SR+HP  + ++F  EVPEI++G V++K++
Sbjct: 184 KVVDPNENQNAEQNEEEGKKKRRNRGPQVYVSRSHPDLLKRMFENEVPEIFDGTVEIKSI 243

Query: 230 SRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVIN 289
           +R+ G RAK+AV S    IDP+G CVG RG RV+A+V EL  EK+DIV WS D + ++  
Sbjct: 244 AREAGDRAKIAVCSDQEGIDPIGTCVGPRGERVKAIVEELNGEKMDIVEWSEDPSEYIKA 303

Query: 290 ALRPAIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           AL+PA + +V  D ED     V+VP  QLSLAIG+RGQN RLA+ LTG+ IDI +E
Sbjct: 304 ALKPAEILEVRFDREDDHACTVVVPDTQLSLAIGKRGQNARLAAHLTGYKIDIKSE 359


>gi|225849798|ref|YP_002730032.1| transcription termination factor NusA [Persephonella marina EX-H1]
 gi|225646384|gb|ACO04570.1| transcription termination factor NusA [Persephonella marina EX-H1]
          Length = 374

 Score =  275 bits (702), Expect = 2e-71,   Method: Compositional matrix adjust.
 Identities = 149/359 (41%), Positives = 224/359 (62%), Gaps = 19/359 (5%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           ++L  + +AVA EK++  +++   + D I  A +  YG   +++V  + E  ++ +    
Sbjct: 3   VKLKNVIEAVAKEKNVPEEIIEKALIDGITAAVKKEYGYKDNVQVIFDKEADELKVLLKK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            V   VEN    ISL+ A+  DP  ++G  V  PL   + GR+A+ +AK+VI  KV   E
Sbjct: 63  RVTPFVENPKRDISLEEAKKIDPKAEVGSYVFVPLNLEELGRIALNAAKEVITHKVARVE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           ++  + EFK+  G+I++GTV+R E G++IVDLG  + V+  +E I +E  R GDR+++ I
Sbjct: 123 KNILFKEFKELEGKIVTGTVRRFEDGDIIVDLGRIEAVLPEEEQIKKEKYRVGDRIRALI 182

Query: 187 YDVRRE------QRG-------------PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVK 227
             V ++      +RG             P V+LSRTHP F+ KL  +EVPEI  G +++K
Sbjct: 183 LKVIKDGSYPVYERGKVKRVIKPIDRDKPLVILSRTHPNFLRKLIEIEVPEIQEGEIEIK 242

Query: 228 AVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFV 287
           A++R+PG RAK+AV++ D +IDPVG  VG++GSR+Q V  EL  EKID++ W PD A F+
Sbjct: 243 AIAREPGERAKVAVWTEDKNIDPVGVVVGLKGSRIQNVSAELSGEKIDVIEWDPDPAQFI 302

Query: 288 INALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           + AL P+   K  L ED  RIEV VPK +LSLAIG+ G N +LA +LTGW IDI++EE+
Sbjct: 303 LRALSPSHPKKWRLLEDEKRIEVAVPKNELSLAIGKGGINAKLAHKLTGWHIDILSEED 361


>gi|291296311|ref|YP_003507709.1| NusA antitermination factor [Meiothermus ruber DSM 1279]
 gi|290471270|gb|ADD28689.1| NusA antitermination factor [Meiothermus ruber DSM 1279]
          Length = 392

 Score =  274 bits (701), Expect = 2e-71,   Method: Compositional matrix adjust.
 Identities = 136/302 (45%), Positives = 205/302 (67%), Gaps = 4/302 (1%)

Query: 49  IRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGR 108
           I V ++P+ G + +  +  VVEEV++   +I L+ A+  DP +++G  +  P+ P +F R
Sbjct: 55  IEVHLDPQEGHLEVLEIRRVVEEVKDPDKEIDLETAKKYDPEVEVGEEMEFPVDPEEFSR 114

Query: 109 VAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRR 167
           +AVQ AKQV+ Q+++EAER R + E+KDK GE+++G+V RV+  GNV V+LG  + ++ +
Sbjct: 115 IAVQIAKQVLTQRLKEAERTRVHNEYKDKEGEVVTGSVARVDNRGNVYVELGRGEALMPQ 174

Query: 168 DETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVK 227
            E I  E   PG R+K Y+  V+R  +GP +++SR H + +  L   EVPEI  GIV+VK
Sbjct: 175 KEQIPTERYHPGQRIKVYLKQVQRSSKGPSLVVSRAHEELLRYLLRQEVPEIAEGIVEVK 234

Query: 228 AVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFV 287
           AV+R+PGSR+K+AV S + ++DP+GAC+G +G R+QAV  EL  E+IDI+ WSP+   F+
Sbjct: 235 AVAREPGSRSKVAVVSHNPNVDPIGACIGHKGQRIQAVSAELGRERIDIIQWSPNPKEFI 294

Query: 288 INALRPAIVTKVVLDED---VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            NAL PA V ++ ++       R  V+V K+Q SLAIG+ GQNVRLAS+LTG+ I+    
Sbjct: 295 RNALSPATVGEITIENSENGQNRASVVVAKDQHSLAIGKAGQNVRLASKLTGYEINFEEA 354

Query: 345 EE 346
           EE
Sbjct: 355 EE 356


>gi|300087631|ref|YP_003758153.1| transcription termination factor NusA [Dehalogenimonas
           lykanthroporepellens BL-DC-9]
 gi|299527364|gb|ADJ25832.1| transcription termination factor NusA [Dehalogenimonas
           lykanthroporepellens BL-DC-9]
          Length = 500

 Score =  274 bits (701), Expect = 2e-71,   Method: Compositional matrix adjust.
 Identities = 140/327 (42%), Positives = 217/327 (66%), Gaps = 1/327 (0%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARS-LYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           ++ EK++ ++VVL+ +  ++  A R   +    +I+ E++  TG I ++   +VVE+V +
Sbjct: 12  LSAEKNLSKEVVLAAVEAALVSAYRKESFTPNQNIQAELDTMTGKIKVWAEKKVVEKVTD 71

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              +++L  AR  +PSI +G  V     P D GR+A Q+AKQVI+Q++ EAE      E+
Sbjct: 72  RRIEVTLDEARKVNPSIQLGEPVLIEDTPHDAGRIAAQTAKQVILQRLHEAENTAIVDEY 131

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
             K G+I+SG ++RVE   VI+DLG ++ V+   E +  E  RPG R+K ++ +V    +
Sbjct: 132 AGKAGDIVSGVIQRVEPKQVIIDLGRAEAVMPPSEQVYTERYRPGQRLKVFLVEVATTIK 191

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           G  V++SR+HP  + +LF ME+PEIY+G+V++KAV+R+ G+R+K+AV +  S IDPVG C
Sbjct: 192 GATVIVSRSHPGLLRRLFEMEIPEIYSGMVEIKAVAREGGARSKVAVSARQSGIDPVGCC 251

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPK 314
           VG+RG R+Q +V+EL  EKID++ WS D A  + NAL PA V +V+++E +     ++P 
Sbjct: 252 VGLRGIRIQNIVSELNGEKIDVIPWSEDPALLITNALSPAQVVRVIINEALKSATAVIPD 311

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDI 341
            Q SLAIG+ GQNVRLA +LTGW IDI
Sbjct: 312 RQQSLAIGKEGQNVRLAVKLTGWRIDI 338


>gi|187931005|ref|YP_001890989.1| transcription elongation factor NusA [Francisella tularensis subsp.
           mediasiatica FSC147]
 gi|187711914|gb|ACD30211.1| transcription termination factor NusA [Francisella tularensis
           subsp. mediasiatica FSC147]
          Length = 489

 Score =  274 bits (701), Expect = 2e-71,   Method: Compositional matrix adjust.
 Identities = 160/473 (33%), Positives = 288/473 (60%), Gaps = 19/473 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL + + VA EK I +D++   M +++    +       +I V+I+  TGD    R+  
Sbjct: 4   ELLLVLETVANEKDISKDLLFEAMEEALAIITKKELDEHMNIEVKIDRVTGDFKADRVWH 63

Query: 68  VVEEVEN---YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           +V E E+   Y+ ++   V +++  ++  G V+ +P+   ++GR+A   AKQ++++K++ 
Sbjct: 64  IVSEDEDLIDYSKELYEDVVQEKGYNVKAGDVMREPVEVKEYGRIAATMAKQILMKKIKN 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVK 183
            ER++    +++K+G+I+ G +KR  Y  ++VDLGN ++G++ + + I+RE  R GD+++
Sbjct: 124 FEREKSARFYQNKIGDIVYGEIKRATYEILVVDLGNNAEGILPKKDLIARERYRVGDKIR 183

Query: 184 SYIYDVRREQRGP--QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           + +  V  ++ G    ++LSR+    +  LF +EVPE+   ++ +  V R+PG R+K+ V
Sbjct: 184 ACVEAVESDESGKPNTIMLSRSSNTMLKALFKLEVPEVEEELINIVNVVREPGFRSKVTV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP---AIVTK 298
            S+D  IDP GACVG+RGSR+ ++++EL  EK+D+++W+ D   + IN+L P   A + +
Sbjct: 244 KSNDQRIDPCGACVGVRGSRIHSIMSELNGEKVDVILWNEDMVQYAINSLSPVDAADILE 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           V +DE+   ++++V +E LS AIG+ G NVRLAS L GW I+++++ E    +Q    E+
Sbjct: 304 VNVDEETNSMDIVVKQESLSKAIGKNGVNVRLASSLIGWKINVLSDAEQE-EKQMSIVEK 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
              F++A+++D   A +L+ EG   +E+LA +  +E+  IEGFDEE   E+Q RA+    
Sbjct: 363 ---FVEALDIDHDFALVLIEEGIETLEDLAYLDRAELLEIEGFDEEIVDELQERAKA--- 416

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
              + L + +     +++L  + G+   +   L +N I TMEDLA  SVD+LL
Sbjct: 417 ---VILSQALGGKKPAQDLLDMQGMSLDLAEQLAQNNIVTMEDLAELSVDELL 466


>gi|167627171|ref|YP_001677671.1| transcription elongation factor NusA [Francisella philomiragia
           subsp. philomiragia ATCC 25017]
 gi|167597172|gb|ABZ87170.1| transcription elongation factor [Francisella philomiragia subsp.
           philomiragia ATCC 25017]
          Length = 489

 Score =  274 bits (701), Expect = 2e-71,   Method: Compositional matrix adjust.
 Identities = 163/473 (34%), Positives = 286/473 (60%), Gaps = 19/473 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL + + VA EK I +D++   M +++    +       +I V+I+  TGD    R+  
Sbjct: 4   ELLLVLETVANEKDISKDLLFEAMEEALAIITKKELDEHMNIEVKIDRVTGDFKADRVWH 63

Query: 68  VVEEVEN---YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           +V E E+   Y+ ++   VA+++  ++  G V+ + +   ++GR+A   AKQ++++K++ 
Sbjct: 64  IVSEDEDLIDYSKELYEDVAQEKGYNVKAGDVIRESVEVKEYGRIAATMAKQILMKKIKN 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVK 183
            ER++    ++ K+G+I+ G VKR  Y  +++DLGN ++G++ + + ISRE  R GD+++
Sbjct: 124 FEREKTARFYQSKIGDIVYGEVKRATYEILVIDLGNNAEGILPKKDLISRERFRVGDKIR 183

Query: 184 SYIYDVRREQRG--PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           S +  V  ++ G    V+LSR     +  LF +EVPE+   ++ V  V R+PG R+K+ V
Sbjct: 184 SCVESVEVDEFGKPSTVMLSRASNMMLKALFKLEVPEVEEELINVVNVVREPGFRSKVTV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA---IVTK 298
            S+D  IDP GACVG+RGSR+ ++++EL  EK+D+++W  D   + IN+L P     + +
Sbjct: 244 KSNDQRIDPCGACVGVRGSRIHSIMSELNGEKVDVILWDEDMVQYAINSLSPVDSEDILE 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           V +DE+   ++++V +E LS AIG+ G NVRLAS L GW I+++++ E    +Q    E+
Sbjct: 304 VNVDEETNSMDIVVKQESLSKAIGKNGVNVRLASALIGWKINVLSDTEQE-EKQMSIVEK 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
              F++A+++D   A +L+ EG   +E+LA +   E+  IEGFDEE   E+Q RA+    
Sbjct: 363 ---FVEALDIDHDFALVLIEEGIETLEDLAYLDRDELLEIEGFDEEIVDELQERAKA--- 416

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
              + L + +     +E+L ++ G++ ++   L +N I TME+LA  SVD+LL
Sbjct: 417 ---VILSQALGGKKPAEDLLNMQGMNQELADKLAQNNIVTMENLAELSVDELL 466


>gi|206901624|ref|YP_002250930.1| transcription termination factor NusA [Dictyoglomus thermophilum
           H-6-12]
 gi|206740727|gb|ACI19785.1| transcription termination factor NusA [Dictyoglomus thermophilum
           H-6-12]
          Length = 364

 Score =  274 bits (700), Expect = 3e-71,   Method: Compositional matrix adjust.
 Identities = 146/335 (43%), Positives = 219/335 (65%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +  EK +D++VVL  +  ++  A +  YGT    RVEIN    +IS+F + +VVE+
Sbjct: 10  VLEQIITEKKLDKNVVLEALRKALLSAFKKAYGTSKGARVEINFNKQEISIFVVKKVVEK 69

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
           V +   +ISL+ A+   P   +G  +   + P +FGR+AVQ AKQVI+Q ++EAER   Y
Sbjct: 70  VNDNISEISLEEAKSLKPDAKLGDEIEIEIEPQEFGRIAVQVAKQVIMQSLKEAERRILY 129

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRR 191
            ++K K GE+++GTV R+E GNV V   + + V+   E I  E    G R+++Y+ +VR+
Sbjct: 130 EKYKAKEGELVNGTVVRIEKGNVYVRFPDIEAVLPVKEQIPGEEYWIGRRLRAYLLEVRK 189

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPV 251
             + P V+LSR+HP F+ +LF +EVPEI  G V++ +++R+PG R+K+AV+S    +DP+
Sbjct: 190 TTKDPLVILSRSHPGFLKRLFELEVPEIREGTVEIVSIAREPGMRSKVAVYSHLPEVDPI 249

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI 311
           GACVG +G R+Q ++ EL  EKIDIV+WS D A FV  +L PA    V + E+  +  VI
Sbjct: 250 GACVGYKGVRIQNIINELNGEKIDIVLWSKDPAEFVARSLSPAKPISVEIREEEHKAIVI 309

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           VP +Q SLAIG+ GQNVRLA +LT W ID+ T E+
Sbjct: 310 VPPDQFSLAIGKDGQNVRLAVKLTSWRIDVRTPEQ 344


>gi|168187910|ref|ZP_02622545.1| transcription termination factor NusA [Clostridium botulinum C str.
           Eklund]
 gi|169294236|gb|EDS76369.1| transcription termination factor NusA [Clostridium botulinum C str.
           Eklund]
          Length = 348

 Score =  274 bits (700), Expect = 3e-71,   Method: Compositional matrix adjust.
 Identities = 143/343 (41%), Positives = 222/343 (64%), Gaps = 5/343 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLF 63
           E ++    +  EK I  +++   + D++  A +  Y    G   +++V I+ E G+I ++
Sbjct: 4   EFIEALREIVKEKGIGEELLFDTVEDALVSAYKKNYAKVGGNSQNVKVTIDRENGEIHVY 63

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
              ++ EE      +ISL+ AR+ D    +G +V   + P  FGR+A Q+AKQV+IQ+++
Sbjct: 64  AQKKIEEEPSGVN-EISLEDAREIDSRYQMGDIVDLEVTPKSFGRIAAQTAKQVVIQRIK 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           EAER   Y EF  K  +II+GTV R + GNV VDL  ++ V+  +E +  E      ++K
Sbjct: 123 EAERKVIYDEFIAKEFDIITGTVIRKDKGNVFVDLEKTEAVLGPNEQMPGEEYNFNQKLK 182

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            YI +V+   +GPQV++SRTHP  + +LF +EVPEIY GIV++K+++R+ GSR K+AV+S
Sbjct: 183 LYIVEVKNTTKGPQVVVSRTHPGLVKRLFELEVPEIYAGIVEIKSIAREAGSRTKIAVYS 242

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D ++D  GACVG +G RVQ +VTEL++EKIDI+ W  +   ++ NAL PA V  V +D+
Sbjct: 243 NDENVDATGACVGPKGMRVQNIVTELKNEKIDIIKWDKEPEKYIANALSPARVLSVDIDD 302

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           +    +++V   QLSLAIG+ GQNVRLA++LTGW IDI +E +
Sbjct: 303 ENKSAKIVVEDNQLSLAIGKEGQNVRLAAKLTGWKIDIKSESQ 345


>gi|241667733|ref|ZP_04755311.1| transcription elongation factor NusA [Francisella philomiragia
           subsp. philomiragia ATCC 25015]
 gi|254876277|ref|ZP_05248987.1| transcription elongation factor nusA [Francisella philomiragia
           subsp. philomiragia ATCC 25015]
 gi|254842298|gb|EET20712.1| transcription elongation factor nusA [Francisella philomiragia
           subsp. philomiragia ATCC 25015]
          Length = 489

 Score =  274 bits (700), Expect = 3e-71,   Method: Compositional matrix adjust.
 Identities = 163/473 (34%), Positives = 286/473 (60%), Gaps = 19/473 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL + + VA EK I +D++   M +++    +       +I V+I+  TGD    R+  
Sbjct: 4   ELLLVLETVANEKDISKDLLFEAMEEALAIITKKELDEHMNIEVKIDRVTGDFKADRVWH 63

Query: 68  VVEEVEN---YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           +V E E+   Y+ ++   VA+++  ++  G V+ + +   ++GR+A   AKQ++++K++ 
Sbjct: 64  IVSEDEDLIDYSKELYEDVAQEKGYNVKAGDVIRESVEVKEYGRIAATMAKQILMKKIKN 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVK 183
            ER++    ++ K+G+I+ G VKR  Y  +++DLGN ++G++ + + ISRE  R GD+++
Sbjct: 124 FEREKTARFYQGKIGDIVYGEVKRATYEILVIDLGNNAEGILPKKDLISRERFRVGDKIR 183

Query: 184 SYIYDVRREQRG--PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           S +  V  ++ G    V+LSR     +  LF +EVPE+   ++ V  V R+PG R+K+ V
Sbjct: 184 SCVESVEVDEFGKPSTVMLSRASNMMLKALFKLEVPEVEEELINVVNVVREPGFRSKVTV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA---IVTK 298
            S+D  IDP GACVG+RGSR+ ++++EL  EK+D+++W  D   + IN+L P     + +
Sbjct: 244 KSNDQRIDPCGACVGVRGSRIHSIMSELNGEKVDVILWDEDMVQYAINSLSPVDSEDILE 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           V +DE+   ++++V +E LS AIG+ G NVRLAS L GW I+++++ E    +Q    E+
Sbjct: 304 VNVDEETNSMDIVVKQESLSKAIGKNGVNVRLASALIGWKINVLSDTEQE-EKQMSIVEK 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
              F++A+++D   A +L+ EG   +E+LA +   E+  IEGFDEE   E+Q RA+    
Sbjct: 363 ---FVEALDIDHDFALVLIEEGIETLEDLAYLDRDELLEIEGFDEEIVDELQERAKA--- 416

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
              + L + +     +E+L ++ G++ ++   L +N I TME+LA  SVD+LL
Sbjct: 417 ---VILSQALGGKKPAEDLLNMQGMNQELADKLAQNNIVTMENLAELSVDELL 466


>gi|169350438|ref|ZP_02867376.1| hypothetical protein CLOSPI_01206 [Clostridium spiroforme DSM 1552]
 gi|169292758|gb|EDS74891.1| hypothetical protein CLOSPI_01206 [Clostridium spiroforme DSM 1552]
          Length = 432

 Score =  273 bits (699), Expect = 4e-71,   Method: Compositional matrix adjust.
 Identities = 147/336 (43%), Positives = 221/336 (65%), Gaps = 1/336 (0%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFRL 65
           ++ ++  + +  EK I++DV L ++ +SI KA +  Y  + +++RVEIN +TG   LF L
Sbjct: 4   IKFMEALNLLIEEKGIEKDVFLEMLKESIAKAYKKNYLNSDANVRVEINEKTGKFRLFEL 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+++E+   ++SL+ A+  +P   IG VV         GR+A    KQ+  QK+RE 
Sbjct: 64  RTVVDDLEDEDLELSLEEAQAINPFYKIGDVVETEADVEHIGRLAAIQTKQLFRQKIRET 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E++  Y EF DK  +II+G V RVE    IV++G +   +  ++ I  E L+ G  +K Y
Sbjct: 124 EKETLYNEFADKKDDIITGIVDRVEDKFAIVNIGKTGAFLALNQQIPGEKLKEGQHLKVY 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + DV R  +G  +++SRT P F+ +LF +EVPE+++G V++KAVSR+PG R+K+AV++S+
Sbjct: 184 VCDVDRGTKGTHIVVSRTEPNFVKRLFELEVPEVFDGTVEIKAVSREPGERSKIAVYASN 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            +IDP+G+CVG +GSRV+ VV EL  E IDI++WS D   F+ NAL P+ V  V ++E  
Sbjct: 244 ENIDPIGSCVGPKGSRVKNVVDELNGEMIDIIIWSNDPVEFISNALSPSEVKYVSINEKD 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
               VIVP +QLSLAIG+RGQN RLA +LTGW IDI
Sbjct: 304 HSALVIVPDDQLSLAIGKRGQNARLAVRLTGWKIDI 339


>gi|329767072|ref|ZP_08258600.1| transcription termination factor NusA [Gemella haemolysans M341]
 gi|328837797|gb|EGF87422.1| transcription termination factor NusA [Gemella haemolysans M341]
          Length = 343

 Score =  273 bits (699), Expect = 4e-71,   Method: Compositional matrix adjust.
 Identities = 145/340 (42%), Positives = 212/340 (62%), Gaps = 2/340 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +LL+    +  EK I  D+++  +  ++  A +  +    ++RV+ N  TGD       +
Sbjct: 4   DLLKAIKLIEQEKGIAEDILVEAIELALLSAYKKNFNAAKNVRVDFNRATGDYKFIIRKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   + SL+ A   +P+ ++G +      P DFGRV  Q+AKQ ++Q++REAE+
Sbjct: 64  VVEEVYDDRIEFSLEDALQINPAYEVGDIYEVVDLPSDFGRVGAQAAKQALLQRLREAEK 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y E+ +  GEI+SGTV R++   V V LG  + ++  +E +  E   P   +K YI 
Sbjct: 124 EILYKEYIEHEGEILSGTVDRIDSRYVYVKLGKIEAILGENERVKGETYIPQTPIKVYIA 183

Query: 188 DVRREQRG--PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
            V    RG  P VL SR+HP+F+ +LF +EVPEIY+G V++K+VSR+ G R KLAV++ D
Sbjct: 184 KVDNPSRGSKPHVLASRSHPEFIRRLFEIEVPEIYSGTVEIKSVSREAGERTKLAVYAED 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            +IDPVGACVG +G RV  +V EL  EKIDI+ W  D   F+ NAL PA V ++ +DE+ 
Sbjct: 244 KNIDPVGACVGNKGDRVNRIVEELNGEKIDIITWDADPVKFITNALAPAKVEEITIDEEE 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
               V V  +QLSLAIG++GQNVRLA++LTGW IDI   E
Sbjct: 304 KIANVKVKDDQLSLAIGKKGQNVRLAAKLTGWKIDIKATE 343


>gi|319937395|ref|ZP_08011802.1| transcription termination-antitermination factor [Coprobacillus sp.
           29_1]
 gi|319807761|gb|EFW04354.1| transcription termination-antitermination factor [Coprobacillus sp.
           29_1]
          Length = 481

 Score =  273 bits (699), Expect = 4e-71,   Method: Compositional matrix adjust.
 Identities = 154/392 (39%), Positives = 247/392 (63%), Gaps = 8/392 (2%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLLE 67
            +Q  + +  EK I+++VVL  + ++++K+ +  YG   S IRV+IN   G I L+ +  
Sbjct: 6   FIQALELLESEKGIEKEVVLEALKEALEKSYKKNYGGPESIIRVDINENNGKIRLYEIKH 65

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV++V +   ++SL+ A+  +P   IG  V + + P  FGR+A    KQ++ QK+REAE+
Sbjct: 66  VVDDVNDEDFELSLEEAQMINPKYQIGDDVVNEIDPEVFGRLAAVQTKQLLKQKIREAEK 125

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF DK  +II+G V RVE    I+++G +  ++  ++ I  E +  G  +K Y+ 
Sbjct: 126 ETLYNEFVDKKDDIITGIVDRVEERFAIINIGRTGALLPSNQQIPGETIYEGQHLKVYVS 185

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           DV R  +G  + +SRT P  + +LF MEVPEIY+G V++K+VSR+ G R+K+AV++++ +
Sbjct: 186 DVERNTKGTHIGVSRTEPGLVKRLFEMEVPEIYDGTVEIKSVSREAGDRSKIAVYTTNEN 245

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DP+G+CVG +GSRV+ VV EL  E IDIV W+ +   F+ +AL P+ V  V ++E+   
Sbjct: 246 VDPIGSCVGPKGSRVRNVVNELNGEMIDIVEWNENPVIFISHALSPSEVVNVDINENDHS 305

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS----INRQKDFNERTQFFM 363
             VIVP  QLSLAIG++GQN RLA +LTGW IDI +  E +    I  Q    E+T  F+
Sbjct: 306 ALVIVPDNQLSLAIGKKGQNARLAVRLTGWKIDIKSVSEAAREGIIYGQDAEFEKT--FV 363

Query: 364 QAINVDE-IIAHLLVAEGFADVEELACVKISE 394
           + +  DE +I  +++ E F ++E++    I+E
Sbjct: 364 EEMTKDEPVIEDVMIEESFEELEDIIEEPITE 395


>gi|257066114|ref|YP_003152370.1| NusA antitermination factor [Anaerococcus prevotii DSM 20548]
 gi|256797994|gb|ACV28649.1| NusA antitermination factor [Anaerococcus prevotii DSM 20548]
          Length = 433

 Score =  273 bits (699), Expect = 4e-71,   Method: Compositional matrix adjust.
 Identities = 137/333 (41%), Positives = 219/333 (65%)

Query: 14  DAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVE 73
           D +  EK++D+  +L  +  ++ K+ +  Y    ++ V I+ ETG I +F L EVV+EV+
Sbjct: 10  DELCKEKNLDKATILDALQKALIKSYQKNYDNEENVDVIIDEETGQIEVFALKEVVDEVD 69

Query: 74  NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
           +   +ISLK A + + S  +G +    L P +FGRVA Q+A+ ++IQK+R+A+RD  Y E
Sbjct: 70  DTITEISLKDALEENSSYHLGDIARIKLTPKNFGRVAAQTARNIVIQKIRDAQRDSLYGE 129

Query: 134 FKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
           + ++  E+I+GT++R +  NV V+L   +GV+   E +  E      ++K  I +VR   
Sbjct: 130 YIERANEMITGTIQRQDKYNVYVNLDKIEGVVPIKEQVPTEEYPANAKMKFLIKEVRNSS 189

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
           + PQ++LSR+    + +LF +EVPEI +GI+++ +++R+ GSR K+AVFS+D  ID VGA
Sbjct: 190 KEPQIVLSRSSQDLITRLFELEVPEITDGIIEIYSLAREAGSRTKMAVFSNDEGIDAVGA 249

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVP 313
           C+G +G RV ++V EL+ EKIDI+ +  D   F+ NAL PA + +V+++E   +  V+V 
Sbjct: 250 CIGFKGIRVNSIVEELQGEKIDIINFDKDIKVFISNALSPADIIEVLVNEKSKKSLVVVS 309

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            +QLSLAIG+ GQN RLA++LTGW IDI + EE
Sbjct: 310 SDQLSLAIGKEGQNARLAARLTGWKIDIKSSEE 342


>gi|289450259|ref|YP_003474585.1| transcription termination factor NusA [Clostridiales genomosp.
           BVAB3 str. UPII9-5]
 gi|289184806|gb|ADC91231.1| transcription termination factor NusA [Clostridiales genomosp.
           BVAB3 str. UPII9-5]
          Length = 372

 Score =  273 bits (698), Expect = 5e-71,   Method: Compositional matrix adjust.
 Identities = 147/354 (41%), Positives = 224/354 (63%), Gaps = 2/354 (0%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS--DIRVEINPETGDISLFR 64
           +EL++    +  E+ ID +++   + +++  A +  +   S  +IR E++ ETGD+ +F 
Sbjct: 3   VELIEAIKLLEKERGIDAEILFQSIEEALVSAYKREFDVKSSDNIRAEVDRETGDMQVFL 62

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
             EVVEEV + + Q+SL+ AR   P  DIG V+   L P DFGR+A  +AK VI QK+  
Sbjct: 63  EKEVVEEVADSSLQVSLEEARKFSPDFDIGDVLEYQLSPQDFGRLAAATAKNVINQKLCN 122

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER+R   EF  ++ E+ +G V+R +  +VIVD+G ++ ++  +E +  EN     +++ 
Sbjct: 123 AERERIQNEFSSRINELANGVVQRRDRRDVIVDIGRAEAILPGNEQVRGENYDFNKQMRL 182

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V  +   P V +SR+HP  + KLF  EVPEI +G V++ AVSR+ GSR+K+AV S+
Sbjct: 183 YILRVNEKMGRPVVYVSRSHPNLVRKLFEHEVPEIKDGTVEIMAVSREAGSRSKIAVRSN 242

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           + ++DP+GACVG RG RVQAV+ EL  E+IDI+ WSP+   F+ NAL PA V  V +  +
Sbjct: 243 NENVDPLGACVGQRGMRVQAVMDELNGERIDIIQWSPNPEEFIANALSPAKVVSVEVAPE 302

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
                V+VP  QL+LAIG+ GQN  LA++LTGW IDI +E +   N +++   R
Sbjct: 303 SKMAAVVVPDNQLALAIGKEGQNAHLAARLTGWKIDIKSESQVRQNLEQELIHR 356


>gi|157363142|ref|YP_001469909.1| transcription elongation factor NusA [Thermotoga lettingae TMO]
 gi|157313746|gb|ABV32845.1| NusA antitermination factor [Thermotoga lettingae TMO]
          Length = 344

 Score =  273 bits (698), Expect = 5e-71,   Method: Compositional matrix adjust.
 Identities = 140/336 (41%), Positives = 220/336 (65%), Gaps = 1/336 (0%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           L LL   D +  EK I +D ++ ++  ++  A +  +GT  ++ V+I+  TGDI LF++ 
Sbjct: 3   LGLLDALDQLEEEKGISKDEIIEILEKALVSAYKKNFGTAKNVDVKIDRMTGDIQLFQVF 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           +VVEEVE+   Q+S++ AR  DP  + G  +   +   +FGR+A Q+AKQV+IQ++RE E
Sbjct: 63  DVVEEVEDPLTQMSVEEARKADPLAESGKKIFKKISVKNFGRIAAQTAKQVLIQRIRELE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           ++RQY  +    G +I+  V RV      + +G  +  + + E IS E++  G+ +K Y+
Sbjct: 123 KERQYEHYSTLAGSVITVEVIRVTSDWADIRVGKIETRLPKREWISGESISAGELIKVYV 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V ++++GP++++SR  P+F+  L  +E+PEI N IVQ+KA+ R+PG R K+AV S++ 
Sbjct: 183 QSVVKDKKGPKIMVSRAVPEFVAGLLKLEIPEIENDIVQIKAIVREPGVRTKVAVVSTNP 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDV 305
            +DPVGAC+G  GSR+ A++ EL+ EK+DI  W+ D    ++NAL PA VT V +LD + 
Sbjct: 243 QVDPVGACIGEGGSRISAILRELKGEKVDIFRWTDDPRQLIVNALAPASVTSVEILDFER 302

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             + V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 303 KAVRVLVPPTQLSLAIGKGGQNARLAAKLTGWKIDI 338


>gi|118443498|ref|YP_878211.1| transcription elongation factor NusA [Clostridium novyi NT]
 gi|118133954|gb|ABK60998.1| transcription termination factor NusA [Clostridium novyi NT]
          Length = 348

 Score =  273 bits (698), Expect = 5e-71,   Method: Compositional matrix adjust.
 Identities = 143/343 (41%), Positives = 221/343 (64%), Gaps = 5/343 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLF 63
           E ++    +  EK I   ++   + D++  A +  Y    G   +++V I+ E G+I ++
Sbjct: 4   EFIEALREIVKEKGIGEQLLFDTVEDALVSAYKKNYAKVGGNSQNVKVTIDRENGEIHVY 63

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
              ++ EE      +ISL+ AR+ D    +G +V   + P  FGR+A Q+AKQV+IQ+++
Sbjct: 64  AQKKIEEEPSGVN-EISLEDAREIDSRYQMGDIVDLEVTPKSFGRIAAQTAKQVVIQRIK 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           EAER   Y EF  K  +II+GTV R + GNV VDL  ++ V+  +E +  E      ++K
Sbjct: 123 EAERKVVYDEFIAKEFDIITGTVIRKDKGNVFVDLEKTEAVLGPNEQMPGEEYNFNQKLK 182

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            YI +V+   +GPQV++SRTHP  + +LF +EVPEIY G+V+VK+++R+ GSR K+AV+S
Sbjct: 183 LYIVEVKNTTKGPQVVVSRTHPGLVKRLFELEVPEIYAGVVEVKSIAREAGSRTKIAVYS 242

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D ++D  GACVG +G RVQ +VTEL++EKIDI+ W  +   ++ NAL PA V  V +D+
Sbjct: 243 NDENVDATGACVGPKGMRVQNIVTELKNEKIDIIKWDKEPEKYIANALSPARVLSVDIDD 302

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           +    +++V   QLSLAIG+ GQNVRLA++LTGW IDI +E +
Sbjct: 303 ENKSAKIVVEDSQLSLAIGKEGQNVRLAAKLTGWKIDIKSESQ 345


>gi|237734616|ref|ZP_04565097.1| transcription termination-antitermination factor [Mollicutes
           bacterium D7]
 gi|229382436|gb|EEO32527.1| transcription termination-antitermination factor [Coprobacillus sp.
           D7]
          Length = 443

 Score =  273 bits (698), Expect = 6e-71,   Method: Compositional matrix adjust.
 Identities = 146/324 (45%), Positives = 215/324 (66%), Gaps = 1/324 (0%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFRLLEVVEEVENYTC 77
           EK I++DV L ++ +SI KA +  Y    +++RVEIN +TG   LF L  VV+++++   
Sbjct: 16  EKGIEKDVFLEMLKESIGKAYKKNYLNPDANVRVEINEKTGKFRLFELRTVVDDLDDEDI 75

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           ++SL+ A+  +P+  IG VV         GR+A    KQ+  QK+RE E++  Y EF DK
Sbjct: 76  ELSLEEAQAINPNYQIGDVVETEADIEHIGRLAAIQTKQLFRQKIRETEKETLYNEFADK 135

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
             +II+G V RVE    IV++G +   +  ++ I  E L  G  +K Y+ DV R  +G  
Sbjct: 136 KDDIITGIVDRVEDKFAIVNIGKTGAFLASNQQIPGEKLNEGQHLKVYVSDVDRGTKGTH 195

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           +++SRT P F+ +LF +EVPE+Y+G V++KAVSR+PG R+K+AV++S+ +IDP+G+CVG 
Sbjct: 196 IVVSRTEPSFVKRLFELEVPEVYDGTVEIKAVSREPGERSKVAVYTSNENIDPIGSCVGP 255

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQL 317
           +GSRV+ VV EL  E IDI++WS D   F+ NAL P+ V  V ++E+     V+VP +QL
Sbjct: 256 KGSRVKNVVDELNGEMIDIILWSSDPVVFISNALSPSDVKWVSINEENHSALVVVPDDQL 315

Query: 318 SLAIGRRGQNVRLASQLTGWTIDI 341
           SLAIG+RGQN RLA +LTGW IDI
Sbjct: 316 SLAIGKRGQNARLAVRLTGWKIDI 339


>gi|167756908|ref|ZP_02429035.1| hypothetical protein CLORAM_02457 [Clostridium ramosum DSM 1402]
 gi|167703083|gb|EDS17662.1| hypothetical protein CLORAM_02457 [Clostridium ramosum DSM 1402]
          Length = 448

 Score =  273 bits (698), Expect = 6e-71,   Method: Compositional matrix adjust.
 Identities = 146/324 (45%), Positives = 215/324 (66%), Gaps = 1/324 (0%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFRLLEVVEEVENYTC 77
           EK I++DV L ++ +SI KA +  Y    +++RVEIN +TG   LF L  VV+++++   
Sbjct: 16  EKGIEKDVFLEMLKESIGKAYKKNYLNPDANVRVEINEKTGKFRLFELRTVVDDLDDEDI 75

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           ++SL+ A+  +P+  IG VV         GR+A    KQ+  QK+RE E++  Y EF DK
Sbjct: 76  ELSLEEAQAINPNYQIGDVVETEADIEHIGRLAAIQTKQLFRQKIRETEKETLYNEFADK 135

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
             +II+G V RVE    IV++G +   +  ++ I  E L  G  +K Y+ DV R  +G  
Sbjct: 136 KDDIITGIVDRVEDKFAIVNIGKTGAFLASNQQIPGEKLNEGQHLKVYVSDVDRGTKGTH 195

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           +++SRT P F+ +LF +EVPE+Y+G V++KAVSR+PG R+K+AV++S+ +IDP+G+CVG 
Sbjct: 196 IVVSRTEPSFVKRLFELEVPEVYDGTVEIKAVSREPGERSKVAVYTSNENIDPIGSCVGP 255

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQL 317
           +GSRV+ VV EL  E IDI++WS D   F+ NAL P+ V  V ++E+     V+VP +QL
Sbjct: 256 KGSRVKNVVDELNGEMIDIILWSSDPVVFISNALSPSDVKWVSINEENHSALVVVPDDQL 315

Query: 318 SLAIGRRGQNVRLASQLTGWTIDI 341
           SLAIG+RGQN RLA +LTGW IDI
Sbjct: 316 SLAIGKRGQNARLAVRLTGWKIDI 339


>gi|172057849|ref|YP_001814309.1| NusA antitermination factor [Exiguobacterium sibiricum 255-15]
 gi|171990370|gb|ACB61292.1| NusA antitermination factor [Exiguobacterium sibiricum 255-15]
          Length = 375

 Score =  273 bits (698), Expect = 6e-71,   Method: Compositional matrix adjust.
 Identities = 153/350 (43%), Positives = 224/350 (64%), Gaps = 5/350 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD-IRVEINPETGDISLFRLL 66
           +LL+  + +A EK ID+++++  +  ++  A R  +G  S+ ++VE + +TGDI +F L 
Sbjct: 4   QLLEAIEQIAKEKEIDKNIIIDALEQALISAYRRNFGKESEAVKVEFDQQTGDIRVFALK 63

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           EVVE +     Q+SL+ A + DP+ ++G      + P DFGRVA Q+AKQ++ QK+REAE
Sbjct: 64  EVVERLTQPEEQLSLEEAHEIDPTYELGDFHKVEVTPGDFGRVAAQTAKQIVTQKMREAE 123

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R+R Y  F D+  EI++G V+R +  N+ V+L   + V+   E +  E     + +K Y+
Sbjct: 124 RERIYNHFADREDEIMTGMVERQDARNLYVNLEGIEAVLTTHEQMPNERFGIREYIKVYV 183

Query: 187 Y--DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
              D   +  G  +L+SRTHP  + +LF +EVPEI +G V+VK+V+R+ G R+K+AV S 
Sbjct: 184 TKVDPMVKGSGASILVSRTHPGLLKRLFEIEVPEIASGEVEVKSVAREAGDRSKIAVASD 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           +  IDPVGACVG +G+RVQ +V EL  EKIDIV +S D   +V NAL PA V  V ++E 
Sbjct: 244 E--IDPVGACVGQKGARVQRIVNELNGEKIDIVRYSDDPKEYVANALSPAQVVAVYVNEP 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
                V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E E      KD
Sbjct: 302 AKATIVVVPDFQLSLAIGKRGQNARLAAKLTGWKIDIKSESEAESMELKD 351


>gi|160932906|ref|ZP_02080295.1| hypothetical protein CLOLEP_01747 [Clostridium leptum DSM 753]
 gi|156867980|gb|EDO61352.1| hypothetical protein CLOLEP_01747 [Clostridium leptum DSM 753]
          Length = 361

 Score =  272 bits (696), Expect = 8e-71,   Method: Compositional matrix adjust.
 Identities = 146/340 (42%), Positives = 214/340 (62%), Gaps = 3/340 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+ +    +  E+ I  D +L  +  +I  A +S Y    D  + +NP+TG   ++    
Sbjct: 4   EVFEALSLLEKERGIPVDFMLDKIKKAILTACKSSYNGNDDAIINMNPDTGVFEVYLQKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+   +ISL  AR+ DP+  +G  V   L    FGR+A Q+A+ +I Q +R+ ER
Sbjct: 64  VVEEVEDKGREISLLDAREIDPNTAVGEKVGVQLDTKQFGRIAAQTARNIIRQGIRDGER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVE--YGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            +   EF+ +  E+++ TV+R++   G   + +G ++ V+ + E +  E LR GD VK Y
Sbjct: 124 GQMMQEFQSRHQELVTATVERIDPRSGAATLKIGKAEAVLPKSEQVGGEELREGDHVKVY 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + DV+  ++GP+ ++SRTHP  + +LF  EVPEIY+G V++K+VSR+ GSR KLAV+S D
Sbjct: 184 VVDVKETEKGPRAMISRTHPDLVKRLFETEVPEIYDGTVEIKSVSREAGSRTKLAVWSKD 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED- 304
            ++D VGAC+G RG+RV  VV EL  EKIDI+ +S D A F+  AL PA V  V +D D 
Sbjct: 244 PNVDAVGACIGARGARVGNVVNELGGEKIDIIEYSEDPAKFIAAALSPADVLSVEVDPDG 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +   +V VP  QLSLAIG +GQN RLA++LTGW IDI  E
Sbjct: 304 MKACQVTVPDHQLSLAIGNKGQNARLAAKLTGWKIDIKPE 343


>gi|154497680|ref|ZP_02036058.1| hypothetical protein BACCAP_01656 [Bacteroides capillosus ATCC
           29799]
 gi|150273178|gb|EDN00323.1| hypothetical protein BACCAP_01656 [Bacteroides capillosus ATCC
           29799]
          Length = 400

 Score =  272 bits (696), Expect = 8e-71,   Method: Compositional matrix adjust.
 Identities = 148/330 (44%), Positives = 214/330 (64%), Gaps = 7/330 (2%)

Query: 19  EKSIDRDVVLSVMADSIQKA-ARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTC 77
           EK I +  +L  +  ++  A  R   G   +I VE + E G++ ++   +VVE V+N   
Sbjct: 29  EKGIPKGYMLEKITQALISAYKRDHEGAGDNIMVEADEEKGEVRMYVKKDVVETVDNPYT 88

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           ++SL  AR R P I +G VV   +   DFGR+A Q+A+QVIIQ +REAER   Y EF  K
Sbjct: 89  EVSLADARQRLPHIRLGDVVRVEVKTKDFGRIAAQTARQVIIQGMREAERGMIYDEFSSK 148

Query: 138 VGEIISGTVKRVE--YGNVIVDLGN----SDGVIRRDETISRENLRPGDRVKSYIYDVRR 191
             E+++G V R++   G+  + +G+    +D  +   E +  E  R GDR+K Y+ +VRR
Sbjct: 149 EHELLTGVVTRIDPRSGSASLRIGSGNEATDAFLAAGEQVRGETFREGDRLKVYVVEVRR 208

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPV 251
             +GPQVL+SRTHP  + +LF +EVPEI++G V+VK+++R+ GSR KLAV+S+D ++DP+
Sbjct: 209 STKGPQVLISRTHPGLVKRLFELEVPEIFDGTVEVKSIAREAGSRTKLAVWSADPNVDPI 268

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI 311
           GACVG RG RV  +V EL+ EK+DI+ +S D A +V  AL PA V  V   +D     V+
Sbjct: 269 GACVGPRGQRVNNIVEELKGEKVDIIKYSEDPAEYVAAALSPADVISVTTLDDGKSCRVV 328

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           VP +QLSLAIG+ GQN RLA++LTG+ IDI
Sbjct: 329 VPDDQLSLAIGKEGQNARLAAKLTGFKIDI 358


>gi|116333944|ref|YP_795471.1| transcription elongation factor NusA [Lactobacillus brevis ATCC
           367]
 gi|116099291|gb|ABJ64440.1| Transcription elongation factor [Lactobacillus brevis ATCC 367]
          Length = 401

 Score =  272 bits (695), Expect = 1e-70,   Method: Compositional matrix adjust.
 Identities = 148/342 (43%), Positives = 213/342 (62%), Gaps = 1/342 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   D +  EK ID+ VV+  +  ++  A +  Y    ++ VE +   GDI ++ + +
Sbjct: 4   ELLGALDVLETEKGIDKQVVIDALEAALVSAYKRNYDQAQNVEVEFDQRKGDIHVYAVKK 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV++V +   ++ L  A   +   ++G  +   + P +FGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VVDQVYDSRLEVGLDEALTINKGYELGDDIKFEVTPKNFGRIAAQTAKQVILQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y ++     EI++G V+R +   V V LG  + V+ R + +  E  R  DRVK Y+ 
Sbjct: 124 NIIYNQYSQYENEIVTGEVERQDSRFVYVSLGKVEAVMGRQDQMPNETYRIHDRVKVYVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SRTH   + +LF  EVPEIY+G V++ A++R+ G RAK+AV S++  
Sbjct: 184 RVENATKGPQVFVSRTHADLLKRLFEQEVPEIYDGTVEIMAIAREAGDRAKVAVRSNNPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVG  VG RG RVQ +V EL  E +DIV W+ D A F+ NAL PA V  V+ D +  R
Sbjct: 244 IDPVGTSVGPRGQRVQTIVNELGGENMDIVEWTDDEAKFIANALNPAEVLDVIFDPNNER 303

Query: 308 -IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
             EVIVP  QLSLAIG+RGQN RLA++LTG+ IDI +E E S
Sbjct: 304 ACEVIVPDYQLSLAIGKRGQNARLAAKLTGYKIDIKSESEAS 345


>gi|89257073|ref|YP_514435.1| transcription elongation factor NusA [Francisella tularensis subsp.
           holarctica LVS]
 gi|115315429|ref|YP_764152.1| transcription elongation factor NusA [Francisella tularensis subsp.
           holarctica OSU18]
 gi|156503283|ref|YP_001429348.1| transcription elongation factor NusA [Francisella tularensis subsp.
           holarctica FTNF002-00]
 gi|167009460|ref|ZP_02274391.1| transcription termination factor NusA [Francisella tularensis
           subsp. holarctica FSC200]
 gi|290954351|ref|ZP_06558972.1| transcription elongation factor NusA [Francisella tularensis subsp.
           holarctica URFT1]
 gi|295312215|ref|ZP_06803015.1| transcription elongation factor NusA [Francisella tularensis subsp.
           holarctica URFT1]
 gi|89144904|emb|CAJ80249.1| N utilization substance protein A [Francisella tularensis subsp.
           holarctica LVS]
 gi|115130328|gb|ABI83515.1| N utilization substance protein A [Francisella tularensis subsp.
           holarctica OSU18]
 gi|156253886|gb|ABU62392.1| transcription termination factor NusA [Francisella tularensis
           subsp. holarctica FTNF002-00]
          Length = 489

 Score =  271 bits (694), Expect = 2e-70,   Method: Compositional matrix adjust.
 Identities = 159/473 (33%), Positives = 287/473 (60%), Gaps = 19/473 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL + + VA EK I +D++   M +++    +       +I V+I+  TGD    R+  
Sbjct: 4   ELLLVLETVANEKDISKDLLFEAMEEALAIITKKELDEHMNIEVKIDRVTGDFKADRVWH 63

Query: 68  VVEEVEN---YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           +V E E+   Y+ ++   V +++  ++  G V+ +P+   ++GR+A   AKQ++++K++ 
Sbjct: 64  IVSEDEDLIDYSKELYEDVVQEKGYNVKAGDVMREPVEIKEYGRIAATMAKQILMKKIKN 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVK 183
            ER++    +++K+G+I+ G +KR  Y  ++VDLGN ++G++ + + I+RE  R GD+++
Sbjct: 124 FEREKSARFYQNKIGDIVYGEIKRATYEILVVDLGNNAEGILPKKDLIARERYRVGDKIR 183

Query: 184 SYIYDVRREQRGP--QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           + +  V  ++ G    ++LSR+    +  LF +EVPE+   ++ +  V R+ G R+K+ V
Sbjct: 184 ACVEAVESDESGKPNTIMLSRSSNTMLKALFKLEVPEVEEELINIVNVVREHGFRSKVTV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP---AIVTK 298
            S+D  IDP GACVG+RGSR+ ++++EL  EK+D+++W+ D   + IN+L P   A + +
Sbjct: 244 KSNDQRIDPCGACVGVRGSRIHSIMSELNGEKVDVILWNEDMVQYAINSLSPVDAADILE 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           V +DE+   ++++V +E LS AIG+ G NVRLAS L GW I+++++ E    +Q    E+
Sbjct: 304 VNVDEETNSMDIVVKQESLSKAIGKNGVNVRLASSLIGWKINVLSDAEQE-EKQMSIVEK 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
              F++A+++D   A +L+ EG   +E+LA +  +E+  IEGFDEE   E+Q RA+    
Sbjct: 363 ---FVEALDIDHNFALVLIEEGIETLEDLAYLDRAELLEIEGFDEEIVDELQERAKA--- 416

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
              + L + +     +++L  + G+   +   L +N I TMEDLA  SVD+LL
Sbjct: 417 ---VILSQALGGKKPAQDLLDMQGMSLDLAEQLAQNNIVTMEDLAELSVDELL 466


>gi|219850522|ref|YP_002464955.1| NusA antitermination factor [Chloroflexus aggregans DSM 9485]
 gi|219544781|gb|ACL26519.1| NusA antitermination factor [Chloroflexus aggregans DSM 9485]
          Length = 442

 Score =  271 bits (694), Expect = 2e-70,   Method: Compositional matrix adjust.
 Identities = 142/331 (42%), Positives = 215/331 (64%), Gaps = 5/331 (1%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMS---DIRVEINPETGDISLFRLLEVVEEV 72
           +A E+ I ++ ++ VM  ++  A + L G      ++ V+++P +G   ++   +VV+EV
Sbjct: 12  IASERGIPKEAIIDVMERALVSAYKRLLGPNPPAVEVTVKLDPVSGMARVYAEKQVVDEV 71

Query: 73  ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYL 132
            +   +I L  AR   P + IG  V     P DFGR+A Q+AKQV++Q ++E ER   Y 
Sbjct: 72  YDERFEIDLNSARQIKPDVQIGETVLVESTPRDFGRIAAQTAKQVVLQGIKEIERSYIYS 131

Query: 133 EFKDKVGEIISGTVKRVE--YGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVR 190
           EF+D+ GE+++ TV+R     GNVI+++G ++ +I   E ++ +    G R+K  + +V+
Sbjct: 132 EFEDREGELVTATVQRNNGPRGNVILEIGKAEAIIPPKEQVANDRYYHGQRLKVLLLEVK 191

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDP 250
           ++ RGP+++ SR H   + +LF MEVPEIYNG V++K+V+R+PG R K+AV +    IDP
Sbjct: 192 KDDRGPRLIASRAHKNLINRLFEMEVPEIYNGSVEIKSVAREPGLRTKVAVAARQEGIDP 251

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEV 310
           VG+CVGMRG R+Q +V EL  EKID+V WS D   ++ NAL PA V +V L +      V
Sbjct: 252 VGSCVGMRGIRIQNIVNELNGEKIDVVQWSSDPREYIANALSPAQVVEVHLHDHDHTALV 311

Query: 311 IVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           IVP +QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 312 IVPDKQLSLAIGKEGQNVRLAAKLTGWRIDI 342


>gi|326803576|ref|YP_004321394.1| transcription termination factor NusA [Aerococcus urinae
           ACS-120-V-Col10a]
 gi|326651243|gb|AEA01426.1| transcription termination factor NusA [Aerococcus urinae
           ACS-120-V-Col10a]
          Length = 455

 Score =  271 bits (693), Expect = 2e-70,   Method: Compositional matrix adjust.
 Identities = 142/362 (39%), Positives = 224/362 (61%), Gaps = 2/362 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L+Q  + +  EK I +D ++  +  ++  A +  +    ++ V  + + G   ++ + E
Sbjct: 4   QLIQAFEMLEQEKGISKDTIIDAVQSALVFAYKRNFDQAQNVEVVFDDKKGSFHVYSVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE V +   ++SL+ A + +   +IG  +   + P DFGR+A Q+AKQVI Q++REAER
Sbjct: 64  VVETVMDSNLEVSLEDALEINRGYEIGDKIRCEVTPEDFGRIAAQTAKQVITQRLREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF D   ++++GTV+R +   + V+LG  + V+  +  I  E  +P DR++ Y+ 
Sbjct: 124 EIIYEEFIDYEDDLLTGTVERQDRRYIYVNLGKIEAVLTPEGQIPGEYFQPHDRIQVYVE 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQ+ +SRTHP  + +LF  EVPEIY+G V++++++R+ G R+KLAV+S+D +
Sbjct: 184 RVENTTKGPQIYVSRTHPNMLKRLFEQEVPEIYDGTVEIRSIAREAGDRSKLAVYSNDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG CVG RGSRVQ VV EL+ E +DI+ W  D A  + NAL PA V  V    +   
Sbjct: 244 VDPVGTCVGPRGSRVQTVVNELKGENMDIIEWDEDPAVLIANALNPADVLAVHFVPNEQA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             V+VP   LSLAIG+RGQN RLA++LTG+ IDI +E E      +D  E  + F+Q  N
Sbjct: 304 CVVVVPDNHLSLAIGKRGQNARLAAKLTGYKIDIKSETE--YEDYQDSEEYKETFLQDQN 361

Query: 368 VD 369
           ++
Sbjct: 362 LE 363


>gi|241889783|ref|ZP_04777081.1| transcription termination factor NusA [Gemella haemolysans ATCC
           10379]
 gi|241863405|gb|EER67789.1| transcription termination factor NusA [Gemella haemolysans ATCC
           10379]
          Length = 343

 Score =  271 bits (693), Expect = 2e-70,   Method: Compositional matrix adjust.
 Identities = 142/336 (42%), Positives = 211/336 (62%), Gaps = 2/336 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +LL+    +  EK I  D+++  +  ++  A +  +    ++RV+ N  TGD       +
Sbjct: 4   DLLKAIKLIEQEKGIAEDILVEAIELALLSAYKKNFNVAKNVRVDFNRTTGDYKFIIRKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   + +L+ A   +P+ ++G +      P DFGRV  Q+AKQ ++Q++REAE+
Sbjct: 64  VVEEVYDDRIEFALEDALKINPAYEVGDIYEVVDLPSDFGRVGAQAAKQALLQRLREAEK 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y E+ +  GEI+SGT+ R++   V V LG  + ++  +E +  E   P   +K YI 
Sbjct: 124 EILYKEYIEHEGEILSGTIDRIDSRYVYVKLGKIEAILGENERVKGETYVPQTPIKVYIA 183

Query: 188 DVRREQRG--PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
            V    RG  P VL SR+HP+F+ +LF +EVPEIY+G V++K+VSR+ G R KLAV++ D
Sbjct: 184 KVDNPTRGSKPHVLASRSHPEFIRRLFEIEVPEIYSGTVEIKSVSREAGERTKLAVYAED 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            +IDPVGACVG +G RV  +V EL  EKIDI+ W  D   F+ NAL PA V ++ +DE+ 
Sbjct: 244 KNIDPVGACVGNKGERVNRIVEELNGEKIDIITWDADPVKFITNALAPAKVEEINIDEEE 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
               V V  +QLSLAIG++GQNVRLA++LTGW IDI
Sbjct: 304 KIANVKVKDDQLSLAIGKKGQNVRLAAKLTGWKIDI 339


>gi|187735458|ref|YP_001877570.1| NusA antitermination factor [Akkermansia muciniphila ATCC BAA-835]
 gi|187425510|gb|ACD04789.1| NusA antitermination factor [Akkermansia muciniphila ATCC BAA-835]
          Length = 431

 Score =  271 bits (693), Expect = 2e-70,   Method: Compositional matrix adjust.
 Identities = 160/426 (37%), Positives = 251/426 (58%), Gaps = 24/426 (5%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLY---GTMSDIRVEINPETGDISLFRLLEV 68
           + D    EK + R+ +L  +  +   A R +    G+++ +R EIN + G + +F  LEV
Sbjct: 8   LIDYYEREKGLSREKILLALESAFLSAYRKMVPGSGSINYLRAEINVDKGKVRIFADLEV 67

Query: 69  V--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLP----PMDFGRVAVQSAKQVIIQKV 122
           V  EE  +   QI L +A      +D   V+ D LP    P  FGR+AVQ+A+Q ++QK+
Sbjct: 68  VPDEEYSDKFNQIPLSLA----VKLDKNAVLHDLLPTNITPKGFGRIAVQTARQTMLQKL 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
            +AE++  Y EFKD+ G++++GT++R E G++ VDLG  +GV+   E +  E+   GDR+
Sbjct: 124 LDAEKEMLYDEFKDRAGDLVTGTIRRFEKGDIFVDLGKFEGVMTSRERVPNEDYSVGDRM 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           + Y+ +VR E RGP+V+LSR+HP  + +LF  EV EI +  V++  ++R+ G R K+AV 
Sbjct: 184 RFYVVEVRTEARGPEVILSRSHPNLVRRLFESEVVEIGDQTVEIHGIAREAGYRTKVAVI 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  +DPVGACVGMRG+RV+ +V EL +EK+DI+ W+ D  TFV  AL P    ++ +D
Sbjct: 244 SHDDKVDPVGACVGMRGARVKNIVRELNNEKVDILEWTEDPVTFVREALSPVEPREITVD 303

Query: 303 EDVGRIEVIVPKEQ-LSLAIGRRGQNVRLASQLTGWTIDI-ITEEEDSINRQ-------- 352
           E+  +I VIV  ++ LS AIGRRGQN RL S+L GW + + + + +++  RQ        
Sbjct: 304 EEARKIFVIVQDDKDLSKAIGRRGQNARLTSRLMGWDVQVRVFDVQEAEKRQSQAAAEEV 363

Query: 353 -KDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
            +      +   + + + E  A  LV  G  D+  L   + S+IA   G   E A +I  
Sbjct: 364 MRQCQAAAKTLSEQLEIPEETAMGLVTMGGTDLVALTGFEASDIAESMGIPAEEAAQILD 423

Query: 412 RAREYL 417
           +AR+ +
Sbjct: 424 KARDLI 429


>gi|283782403|ref|YP_003373158.1| NusA antitermination factor [Pirellula staleyi DSM 6068]
 gi|283440856|gb|ADB19298.1| NusA antitermination factor [Pirellula staleyi DSM 6068]
          Length = 404

 Score =  271 bits (692), Expect = 2e-70,   Method: Compositional matrix adjust.
 Identities = 155/410 (37%), Positives = 243/410 (59%), Gaps = 37/410 (9%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  ++L+I D++  EK+ID+DVV   +  ++  AA+  YG  +DI + I+  TG +S   
Sbjct: 2   NPADMLRIVDSLHREKNIDKDVVFQAIEAALVSAAKKHYGDAADITINIDRNTGALS--- 58

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDF-GRVAVQSAKQVIIQKVR 123
                                        G      L P +  GR+  Q+AKQVIIQK+R
Sbjct: 59  -----------------------------GIADGQALDPEEISGRIGAQTAKQVIIQKIR 89

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           EAERD    E+ D++G++I+G V R E    IV LG  + ++ R E I  E   P +RV+
Sbjct: 90  EAERDSLLGEYGDQIGQLINGVVTRSEGAATIVSLGTIEAILPRSEQIPGETHHPNERVR 149

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           + +++V+ +    +V+LSRT PQF+ +LF  E+PEI +G++ V A++R+P  R+K+AV S
Sbjct: 150 AIVFEVKPQGSRVKVVLSRTRPQFVQRLFEQEIPEIADGVISVNAIAREPAHRSKVAVSS 209

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  +D VGACVG+RG+R++ +V EL  E+IDIV WS D+ T +  +L+PA V +V+L +
Sbjct: 210 TDQRVDCVGACVGVRGNRIKNIVDELSGERIDIVRWSDDAETLIRASLQPAEVDQVLLCD 269

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
            +GR  V+V ++QLSLAIGR+GQNVRLAS+L GW I+I+T +E     ++  +     F 
Sbjct: 270 MIGRAIVLVREDQLSLAIGRKGQNVRLASKLCGWDIEIMTNDE----LEQQIDRAVGGFS 325

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           +   V E +A  LV +G+   ++L+ ++   +  + G  EE   EI  +A
Sbjct: 326 KIEGVTEELAQRLVEQGYLSYDDLSVIEPDALMEMGGLTEEQVEEIVNQA 375


>gi|160892797|ref|ZP_02073587.1| hypothetical protein CLOL250_00328 [Clostridium sp. L2-50]
 gi|156865838|gb|EDO59269.1| hypothetical protein CLOL250_00328 [Clostridium sp. L2-50]
          Length = 393

 Score =  271 bits (692), Expect = 2e-70,   Method: Compositional matrix adjust.
 Identities = 140/338 (41%), Positives = 219/338 (64%), Gaps = 1/338 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+++  + +  EK+I +D++L  +  S++ A +  + T  +I V ++ ETG+  ++   E
Sbjct: 3   EIIEALNQLEKEKNISKDILLDAIERSLKAACKKDFDTDENIDVVMDRETGEFHVYAKKE 62

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE    QISL+ A+  +   D+G +++  +   DFGR+A Q A+ VI+Q + E+ER
Sbjct: 63  VVEEVERPATQISLEKAKMMNSKYDLGDIINIEITTKDFGRIAAQRARNVIVQAINESER 122

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
           D  Y  F  K  +II+G V+R    N+ V L + ++ +++  E +  E    GDR+K Y+
Sbjct: 123 DAIYDHFYTKEKDIITGIVQRYVGNNINVSLDDKTEAILKESEMVPGEVYNRGDRIKLYV 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V++  RGP++ +SRTHP  + +LF  EV EI +G V++K+  R+ GSR+K+AV+S D 
Sbjct: 183 TEVKKGSRGPKITVSRTHPDLVKRLFEKEVTEIADGTVEIKSSCREAGSRSKIAVYSHDE 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           ++DPVGACVG+ GSRV  VV +L  EKIDI+ W  + A F+ NAL P+ V  V +D +  
Sbjct: 243 NVDPVGACVGVNGSRVNNVVEDLNGEKIDIICWDENPAIFIKNALSPSEVIAVDVDLNEK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              V+VP  QLSLAIG++GQN RLA++LTG+ IDI +E
Sbjct: 303 SAFVVVPDYQLSLAIGKKGQNARLAAKLTGYKIDIKSE 340


>gi|297565903|ref|YP_003684875.1| transcription termination factor NusA [Meiothermus silvanus DSM
           9946]
 gi|296850352|gb|ADH63367.1| transcription termination factor NusA [Meiothermus silvanus DSM
           9946]
          Length = 393

 Score =  270 bits (691), Expect = 3e-70,   Method: Compositional matrix adjust.
 Identities = 144/341 (42%), Positives = 214/341 (62%), Gaps = 10/341 (2%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD---------IRVEINPETGDISLFRLL 66
           VA E+ +  D +++   +S++ A     G             + V ++P  G + +  + 
Sbjct: 12  VALERGVTADELITAFEESLRLAYLRQKGYKPKDVEEGLGPVVEVHLDPAGGGLEVLEIK 71

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VVE+VE+   +ISL  A   DP + +G  +  P+ P +F R+AVQ AKQV+ Q+++EAE
Sbjct: 72  TVVEKVEDPDKEISLADALAYDPDVQLGEEMEFPVDPEEFSRIAVQIAKQVLTQRLKEAE 131

Query: 127 RDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           R+R + E+KDK GE+I+G V RV+  GNV VDLG  + ++   E I  E   PG RVK Y
Sbjct: 132 RNRVHTEYKDKEGEVITGQVTRVDNRGNVYVDLGRGEALMPPKEQIPSERYHPGQRVKVY 191

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V+R  +GP +++SR   + +  L   EVPEI  GIV++KAV+R+PGSR+K+AV S +
Sbjct: 192 LKQVQRSAKGPSLIVSRASEELLKYLLRQEVPEINEGIVEIKAVAREPGSRSKVAVTSHN 251

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DP+GAC+G +G R+QAV  EL  E++DI+ WS +   F+ NAL PA V  +  D + 
Sbjct: 252 PNVDPIGACIGHKGQRIQAVSAELGRERVDIIQWSANPREFIRNALSPAQVGNIETDNET 311

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            R +V+V K+Q SLAIG+ GQNVRLAS+LTG+ ID    EE
Sbjct: 312 KRAKVVVSKDQHSLAIGKAGQNVRLASKLTGYEIDFEEAEE 352


>gi|241895994|ref|ZP_04783290.1| transcription elongation factor [Weissella paramesenteroides ATCC
           33313]
 gi|241870725|gb|EER74476.1| transcription elongation factor [Weissella paramesenteroides ATCC
           33313]
          Length = 386

 Score =  270 bits (691), Expect = 3e-70,   Method: Compositional matrix adjust.
 Identities = 142/339 (41%), Positives = 222/339 (65%), Gaps = 2/339 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+   DA+  EK I  +V+++ + ++++KA    Y    ++ V+ + + G I ++ +  
Sbjct: 14  ELVSALDALEEEKGIKAEVLIAALEEALKKAYEKNYDESENVEVQFDKKKGSIKVYAVKT 73

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+E+E    QISL+ A + + + ++G  +   + P DFGR+A Q+AKQ+I+QKVREAER
Sbjct: 74  VVDEIEEPYEQISLEEALELNKAYEVGDEIRFEVTPKDFGRLAAQTAKQIIMQKVREAER 133

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRVKSYI 186
              Y  F     EII+G V+R +   + + L GN    ++ ++ +  EN + GD++K  +
Sbjct: 134 GVVYDNFVGYEDEIITGEVEREDSRYLYIILPGNQMAAMKPNDQMPSENYQMGDKIKVLV 193

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V+ EQ+GPQV +SRTHP  + +LF  EVPE+++G V++K+++R+ G R+K+AV+S + 
Sbjct: 194 SQVQNEQKGPQVFVSRTHPDLVKRLFEAEVPEVFDGTVEIKSIAREAGDRSKIAVYSHNE 253

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           ++D VG  VG RG+RVQ+VVTEL  E +DIV W+ D A F+ N+L PA V +V+ D    
Sbjct: 254 NLDAVGTMVGQRGARVQSVVTELSGENMDIVEWTEDPAEFIKNSLNPAEVVEVIFDPTND 313

Query: 307 R-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           R   V+VP  QLSLAIG+RGQN RLA++LTG+ IDI  E
Sbjct: 314 RAATVLVPDYQLSLAIGKRGQNARLAARLTGFKIDIKPE 352


>gi|260583738|ref|ZP_05851486.1| transcription termination factor NusA [Granulicatella elegans ATCC
           700633]
 gi|260158364|gb|EEW93432.1| transcription termination factor NusA [Granulicatella elegans ATCC
           700633]
          Length = 369

 Score =  270 bits (691), Expect = 3e-70,   Method: Compositional matrix adjust.
 Identities = 137/337 (40%), Positives = 213/337 (63%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+++  + +  EK I ++VV++ +  ++  A +  YG   ++ VE + + G + ++ + E
Sbjct: 4   EMIKALNILEEEKGISKEVVITALEAALVSAYKKNYGQAQNVEVEFDAKKGKMHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE V + T ++S+  A +   + ++G  +   + P DFGR+A Q+AKQVI+Q++R+AER
Sbjct: 64  VVEYVFDSTLEVSIDEAHELHKAYEVGDKIRFEVTPKDFGRIAAQTAKQVIMQRLRDAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF +   EI++G V R ++  V V+LG     + + + I  E   P  R+K  + 
Sbjct: 124 TNIYNEFIEYENEIMTGVVDRQDFRYVYVNLGKIVAGMTKQDQIPTEEYLPDQRIKVLVS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GP + +SRTHP  + +LF  EVPEIY G+V++ +++R+ G RAK+AV S D++
Sbjct: 184 KVDNTTKGPLIFVSRTHPDLLKRLFEQEVPEIYEGVVEIVSIAREAGDRAKVAVRSRDTN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG CVG RG RVQ +V EL  E +DIV W+ D + ++ NAL PA V KV  D D   
Sbjct: 244 LDPVGTCVGPRGQRVQNIVNELNGENMDIVEWNEDPSVYIANALNPAQVVKVDFDSDRNS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             V+VP  QLSLAIG+RGQN RLA++LTG+ IDI +E
Sbjct: 304 CIVVVPDHQLSLAIGKRGQNARLAAKLTGFRIDIKSE 340


>gi|289522943|ref|ZP_06439797.1| transcription termination factor NusA [Anaerobaculum
           hydrogeniformans ATCC BAA-1850]
 gi|289503486|gb|EFD24650.1| transcription termination factor NusA [Anaerobaculum
           hydrogeniformans ATCC BAA-1850]
          Length = 375

 Score =  270 bits (691), Expect = 4e-70,   Method: Compositional matrix adjust.
 Identities = 145/355 (40%), Positives = 232/355 (65%), Gaps = 7/355 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           + ++    +  EK +  +V++S +  ++  A +   GT S++ VE++ + G I ++ + E
Sbjct: 9   DFMRALKQIETEKGLPLEVIISSIEAALVSAYKKYKGTNSNVEVELDSDNGIIKIYEVKE 68

Query: 68  VVEEVENYTCQISLKVARDR--DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV+ V N   +IS++ A+    D + + G ++   + P DFGR+AVQ+A+QVI Q++++A
Sbjct: 69  VVDTVRNPAFEISVEEAKSMGLDDAKE-GEMIKVEVSPRDFGRIAVQTARQVITQRLKDA 127

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
           ER   Y +F  KVGEI++G V R E G  +V +G+  D ++ R+E I  E+ RPGDR K 
Sbjct: 128 ERQIIYNDFSGKVGEIVTGVVFRDEGGQALVRIGDKIDAMLPREERIPTESYRPGDRKKF 187

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+ DVR+  +GP+++LSR+HP  +  L  +EVPEI  G++ +K ++R+ G R+K+AV + 
Sbjct: 188 YVLDVRKTSKGPRIVLSRSHPGLLKSLLELEVPEIKEGVIDIKNIAREAGVRSKVAVTTL 247

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV--VLD 302
           D ++DPVGAC+G +G+R++A+  EL  E+ID+++WS D   ++ NAL PA V K+   LD
Sbjct: 248 DPNVDPVGACIGTKGNRIKAISDELAGERIDVIIWSNDPIAYIKNALSPAKVVKIEPRLD 307

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           ED   + V V  +QLSLAIG+ GQNVRLA++LTGW IDI   E D +   +D  E
Sbjct: 308 EDKA-VNVYVRPDQLSLAIGKGGQNVRLAAKLTGWKIDINVMEPDRLPTLQDLFE 361


>gi|283797337|ref|ZP_06346490.1| transcription termination factor NusA [Clostridium sp. M62/1]
 gi|291075009|gb|EFE12373.1| transcription termination factor NusA [Clostridium sp. M62/1]
 gi|295090489|emb|CBK76596.1| transcription termination factor NusA [Clostridium cf.
           saccharolyticum K10]
          Length = 408

 Score =  270 bits (690), Expect = 5e-70,   Method: Compositional matrix adjust.
 Identities = 137/337 (40%), Positives = 216/337 (64%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL +  + +  E +I ++V+   + +S+  A ++ +G   +I+V I+ E  D +++   E
Sbjct: 4   ELFEALNVLEKENNISKEVLFEAIENSLLTACKNHFGRADNIKVYIDREKCDFAVYAEKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE+   Q+SL  A+  DP    G +V   +   +FGR+A Q+AK VI+QK+RE ER
Sbjct: 64  VVENVEDPLTQVSLAEAKLMDPRHVYGDIVRVNINSKEFGRIATQNAKNVILQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              +  +  +  ++++G V+R    +V +DLG  D V++  E +  E  +P   +K +I 
Sbjct: 124 TALFDHWYCREKDVVTGIVQRYVGHDVYIDLGKIDAVLKESEQVKGEEFKPTQHIKLFIL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+  ++GP++ +SRTHP  + +LF  EV E+ +G V++KA++R+ GSR K+AV S+D +
Sbjct: 184 EVKNTKKGPRITVSRTHPDLVKRLFESEVAEVKDGTVEIKAIAREAGSRTKIAVASNDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG+ G+RV +VV+EL  EKIDI+ W  + A  + NAL PA V  V  DE+   
Sbjct: 244 VDPVGACVGLNGARVNSVVSELNGEKIDIINWDDNPALLIENALSPAKVIFVAADEEARE 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            +VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 304 AQVIVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSE 340


>gi|294055327|ref|YP_003548985.1| transcription termination factor NusA [Coraliomargarita akajimensis
           DSM 45221]
 gi|293614660|gb|ADE54815.1| transcription termination factor NusA [Coraliomargarita akajimensis
           DSM 45221]
          Length = 416

 Score =  270 bits (689), Expect = 5e-70,   Method: Compositional matrix adjust.
 Identities = 157/415 (37%), Positives = 249/415 (60%), Gaps = 9/415 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + + +  EK IDR  +++ ++ +I  AA+       DIRVEINP TG +  +  LE
Sbjct: 4   EILSVLEYMEKEKGIDRADMITAISAAIASAAQKGVSAGQDIRVEINPRTGALKAWSRLE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +I ++ AR  DP  +IG V+   + P   GR+A Q+A+Q I+Q++R+ E+
Sbjct: 64  VVDSVSDQALEIHIEKARQIDPDAEIGQVIEKEMDPAYLGRIAAQTARQAIMQRIRQFEK 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           DR Y +FKD VG+I++GTV+R E G++I+DLG ++ ++   E +  E+   GD ++  + 
Sbjct: 124 DRIYDDFKDTVGDIVTGTVRRRERGDLIIDLGKAEAILPPRERVPGEDYSIGDSIRCLLL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            + +  RGP ++LSR++  F+ +LF +EV EI +G V ++A++R+ G R K+AV S+D  
Sbjct: 184 KIEQTNRGPDIILSRSNLNFVRRLFELEVTEIADGTVTIEAMAREAGYRTKIAVHSADPK 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG RG+RV+ +V EL  EKIDI+    D    +  ALRPA+   V L++   R
Sbjct: 244 VDPVGACVGARGARVKTIVRELGGEKIDIIRHFTDPVQMLEEALRPAVPKNVRLNDVERR 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           +   V ++ LS+AIGRRG N +L S+L GW +DI  EE+++I     F+E+    +Q I 
Sbjct: 304 MHFEVAEDDLSIAIGRRGFNAKLTSRLLGWKLDIGKEEKEAIG----FDEKIAKAIQGIT 359

Query: 368 V----DEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           V    +  IA  LV  G    E    V  +++    GF    A +I  +   Y +
Sbjct: 360 VIPGIEPAIAQRLVGIGLISPEAFEGVAANDLVD-AGFTAAEADDIISKVAAYAQ 413


>gi|218513202|ref|ZP_03510042.1| transcription elongation factor NusA [Rhizobium etli 8C-3]
          Length = 213

 Score =  270 bits (689), Expect = 5e-70,   Method: Compositional matrix adjust.
 Identities = 127/181 (70%), Positives = 159/181 (87%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           +K IDR++VL+ MAD+IQKAARS YGT S+IR +INP+TG+I L RLLEVV++ E+Y+ Q
Sbjct: 20  KKVIDREIVLAAMADAIQKAARSRYGTESNIRADINPKTGEIRLQRLLEVVDKAEDYSTQ 79

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           I L++ARDR+P   +G  ++DPLPPMDFGR+A QSAKQVI+QKVREAERDRQ+ EFKD+V
Sbjct: 80  IPLELARDRNPDAALGDFIADPLPPMDFGRIAAQSAKQVIVQKVREAERDRQFDEFKDRV 139

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
           GEI++GTVKRVEYGNVIVDLG  +G+IRRDE I REN+R GDRV++Y+YDVRREQRGPQ+
Sbjct: 140 GEIVNGTVKRVEYGNVIVDLGRGEGIIRRDEMIPRENVRYGDRVRAYVYDVRREQRGPQI 199

Query: 199 L 199
           L
Sbjct: 200 L 200


>gi|315302978|ref|ZP_07873697.1| transcription termination factor NusA [Listeria ivanovii FSL
           F6-596]
 gi|313628646|gb|EFR97060.1| transcription termination factor NusA [Listeria ivanovii FSL
           F6-596]
          Length = 312

 Score =  270 bits (689), Expect = 6e-70,   Method: Compositional matrix adjust.
 Identities = 133/278 (47%), Positives = 193/278 (69%)

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           E VE+V +   +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VREAE
Sbjct: 3   EAVEQVFDSRLEISMEEAHKINPVYKPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAE 62

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R   Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y+
Sbjct: 63  RGIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYL 122

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++++ 
Sbjct: 123 TKVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTANE 182

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E   
Sbjct: 183 EVDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEADQ 242

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 243 ATTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 280


>gi|227872001|ref|ZP_03990386.1| transcription elongation factor NusA [Oribacterium sinus F0268]
 gi|227842144|gb|EEJ52389.1| transcription elongation factor NusA [Oribacterium sinus F0268]
          Length = 390

 Score =  269 bits (688), Expect = 7e-70,   Method: Compositional matrix adjust.
 Identities = 140/339 (41%), Positives = 212/339 (62%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL    D +  EK I +  ++  +  S+Q A ++ +G+  ++ V +NP+T   S+     
Sbjct: 4   ELRLALDMLEKEKKISKQALIEAIELSLQTACKNHFGSADNVHVSMNPDTAVFSVLADKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE+V + + +ISL+ A + DPS  +G VV  P+    F R+A Q+AK VI+QK+RE ER
Sbjct: 64  VVEKVGDKSTEISLEEAHEMDPSYTLGDVVQVPIDSKSFSRIAAQNAKGVIVQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              + E+     +I +  V++     +I++LG  DG +   E I  ENL PG R K Y+ 
Sbjct: 124 KNLFEEYYAMSKKIFTALVEKNTGRALIMNLGKVDGYLAEAEQIPGENLTPGQRAKVYVV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP+++LSRTHP+ + KLF  EV E+  GIV++K+++R+ GSR K+AV S++  
Sbjct: 184 EVKDSPKGPKLMLSRTHPELVRKLFFEEVSELREGIVEIKSIAREAGSRTKMAVISNEED 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +D VGACVG+ G+RV  +V ELR EKIDI+ +  + A  + N+L PA V  V+ D D   
Sbjct: 244 VDAVGACVGLNGNRVNTIVEELRGEKIDIINYDENPAYLIENSLSPAKVIAVIADPDNKE 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             VIVP  QLSLAIG+ GQN RLA++LT + IDI +E +
Sbjct: 304 ALVIVPDNQLSLAIGKEGQNARLAAKLTNYKIDIKSESQ 342


>gi|225027047|ref|ZP_03716239.1| hypothetical protein EUBHAL_01303 [Eubacterium hallii DSM 3353]
 gi|224955511|gb|EEG36720.1| hypothetical protein EUBHAL_01303 [Eubacterium hallii DSM 3353]
          Length = 414

 Score =  269 bits (687), Expect = 1e-69,   Method: Compositional matrix adjust.
 Identities = 147/352 (41%), Positives = 232/352 (65%), Gaps = 2/352 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+   + +  EK I+++V++  + DS+  A    +G  + ++V ++ +TGDIS++    
Sbjct: 3   ELIDALNQLQKEKHIEKEVIMQAIEDSLVAACNRDFGKNAIVKVNMDRDTGDISVYVEKT 62

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+   +ISL  A+      +IG VV+  + P +FGR+A Q A+ VI+QK++E ER
Sbjct: 63  VVEEVEDPATEISLADAKMIRFHYEIGDVVNIEVTPKNFGRIAAQHARSVIVQKIKEEER 122

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
              +  F  K  +I++G V+R    N+ V L + +D V+   E +  E  +P DR+K YI
Sbjct: 123 RVVFEHFAHKEKDIVTGVVQRYNGKNISVSLDDKTDAVLTEKEQVKGEVFKPTDRIKLYI 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V+   +GP++L+SRTHP+ + +LF  EV E+Y+G V++K+++R+ GSR K+AV S+D 
Sbjct: 183 VEVKDTNKGPKILVSRTHPELVKRLFEKEVAEVYDGTVEIKSIAREAGSRTKIAVASNDP 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           ++DPVGACVG+ G+RV A+V++LR EKIDI+ W+ D A  + NAL P+ V  V +DE+  
Sbjct: 243 NVDPVGACVGINGARVNAIVSDLRGEKIDIIEWNDDPAVLIENALSPSNVVSVDVDEEEK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS-INRQKDFNE 357
              V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E + + +  + DF E
Sbjct: 303 SARVVVPDYQLSLAIGKEGQNARLAAKLTGYKIDIKSESQAAELAEELDFGE 354


>gi|295396943|ref|ZP_06807065.1| transcription termination factor NusA [Aerococcus viridans ATCC
           11563]
 gi|294974796|gb|EFG50501.1| transcription termination factor NusA [Aerococcus viridans ATCC
           11563]
          Length = 447

 Score =  269 bits (687), Expect = 1e-69,   Method: Compositional matrix adjust.
 Identities = 150/373 (40%), Positives = 233/373 (62%), Gaps = 4/373 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+  +A+  EK I ++V+L  +  ++  A +  Y    ++ V  + + G I ++ + E
Sbjct: 4   EMLRAFEALEDEKGISKEVILEALEAALVSAYKRNYQQAQNVEVNFDVKKGSIEVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   ++SL+ A   + + +IG  +   + P DFGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VVDLVMDSQLEVSLEDAHHLNSAYEIGDKIKFEVTPKDFGRIAAQTAKQVIMQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+ D   +I++G V+R +   V V LG  + VI  +  I  E  +P +RV+ Y+ 
Sbjct: 124 SIIYNEYIDYEDDILTGIVERQDRRYVYVSLGKIEAVIPPEGQIPNETFQPHERVQVYVE 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SR+HP  + +LF  EVPEI++G V++KA++R+ G R+K+AV S+D++
Sbjct: 184 RVENTTKGPQVYVSRSHPSLLKRLFEQEVPEIFDGTVEIKAIAREAGDRSKVAVVSNDAN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VG CVG RGSRVQ +V EL+ E +DIV WS D ATF+ NAL PA V  V        
Sbjct: 244 IDAVGTCVGPRGSRVQRIVDELKGENMDIVQWSDDMATFISNALNPADVLSVHFVPGETS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE-DSINRQKDFNERTQFFMQAI 366
             V+VP+  LSLAIG+RGQN RLA++LT   IDI +E + ++  + +++ ER   F + +
Sbjct: 304 CVVVVPENHLSLAIGKRGQNARLAAKLTNHKIDIKSEADFEAYIQTEEYAER---FAEKV 360

Query: 367 NVDEIIAHLLVAE 379
            VDE +  +L  +
Sbjct: 361 LVDEDVDPILAGD 373


>gi|317495160|ref|ZP_07953530.1| transcription termination factor NusA [Gemella moribillum M424]
 gi|316914582|gb|EFV36058.1| transcription termination factor NusA [Gemella moribillum M424]
          Length = 343

 Score =  268 bits (686), Expect = 1e-69,   Method: Compositional matrix adjust.
 Identities = 146/340 (42%), Positives = 215/340 (63%), Gaps = 2/340 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +LL+    +  EK I  D+++  +  ++  A +  +    ++RV+ N  TGD       +
Sbjct: 4   DLLKAIKLIEQEKGIAEDILVEAIELALLSAYKKNFNAAKNVRVDFNRATGDYKFIIRKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   + +L+ A   +P+ ++G +      P DFGRV  Q+AKQ ++Q++REAE+
Sbjct: 64  VVEEVYDDRIEFALEDALKINPAYEVGDIYEVVDLPDDFGRVGAQAAKQALLQRLREAEK 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + E+ +  GEI+SGTV R++   V V LG  + ++  +E +  EN  P   +K YI 
Sbjct: 124 EILFKEYSEYEGEILSGTVDRIDTRYVYVKLGKIEAILGENERVPGENYVPQIPIKVYIA 183

Query: 188 DVRREQRG--PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
            V    RG  P VL SR+HP+F+ +LF MEVPEIY+G V++K+VSR+ G R KLAVFS D
Sbjct: 184 KVDNPSRGSKPHVLASRSHPEFIRRLFEMEVPEIYSGTVEIKSVSREAGERTKLAVFSED 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVGACVG +G RV  +V EL  EKIDI+ W  D   F+ NAL PA V ++++DE+ 
Sbjct: 244 KNVDPVGACVGNKGDRVNRIVDELNGEKIDIITWDADPVKFITNALAPAKVEEIIIDEEE 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
               V V ++QLSLAIG++GQNVRLA++LTGW IDI   E
Sbjct: 304 KIANVKVKEDQLSLAIGKKGQNVRLAARLTGWKIDIKAAE 343


>gi|188996513|ref|YP_001930764.1| NusA antitermination factor [Sulfurihydrogenibium sp. YO3AOP1]
 gi|188931580|gb|ACD66210.1| NusA antitermination factor [Sulfurihydrogenibium sp. YO3AOP1]
          Length = 371

 Score =  268 bits (686), Expect = 1e-69,   Method: Compositional matrix adjust.
 Identities = 148/359 (41%), Positives = 224/359 (62%), Gaps = 19/359 (5%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD--IRVEINPETGDISLFR 64
           ++L  + + ++ EK+I  DV+   + D I  A +  +       +++  + E  ++ +  
Sbjct: 3   VKLKNVIETISREKNIPEDVIEKALRDGILTAVKKEFKLREKDAVKIIFDKEKDELKVLI 62

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
             +V   VE+ T +I+L+ A++ DP+ D G  V  PL   D GR+A+  AK+VI +KV +
Sbjct: 63  KKKVTPFVEDETKEIALEEAKNYDPNADYGKYVYVPLNLEDIGRIALSVAKEVIAKKVSK 122

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
            ERD  Y EFKD  G+II+GTV+R E  ++IVDLG  + ++ ++E I +E  + GDR+++
Sbjct: 123 VERDILYREFKDYEGKIITGTVRRFEGDDIIVDLGRIEAILPKEEQIPKEKYKIGDRIRA 182

Query: 185 YIYDVRRE------QRG-----------PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVK 227
            +  V +E      ++G           P V+LSRTHP F+ KL  +EVPEI  G ++VK
Sbjct: 183 LVLKVSKENTYPIIEKGKLKRVIKVFEPPMVILSRTHPNFLKKLLEIEVPEIAEGEIEVK 242

Query: 228 AVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFV 287
           AV+R+PG RAK+AV+S D +IDPVG  VG++GSR+  V +EL  EKID++ W  D A F+
Sbjct: 243 AVAREPGERAKVAVYSKDKNIDPVGVVVGLKGSRILNVSSELSGEKIDVIEWDEDPAKFI 302

Query: 288 INALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           I AL PA   K  L     RIE+ VP+E+LSLAIG+ G N +LA +LTGW IDI++EE+
Sbjct: 303 IRALAPARAKKYRLLPREKRIEIAVPREELSLAIGKNGINAKLAHKLTGWHIDILSEED 361


>gi|325282976|ref|YP_004255517.1| NusA antitermination factor [Deinococcus proteolyticus MRP]
 gi|324314785|gb|ADY25900.1| NusA antitermination factor [Deinococcus proteolyticus MRP]
          Length = 405

 Score =  268 bits (686), Expect = 1e-69,   Method: Compositional matrix adjust.
 Identities = 138/336 (41%), Positives = 218/336 (64%), Gaps = 4/336 (1%)

Query: 10  LQIADA---VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +  ADA   VA +++I+   ++    +S+  A +        + V ++P++G++ +  + 
Sbjct: 5   INFADALREVAQQRNINELQLIEAFEESLALAYKRNIDAEKRVEVHLDPQSGELEVLIIK 64

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           EVVE+VE+   QISL  A + DP +++G  +  P+    F R+A+Q+AKQ + QK+RE E
Sbjct: 65  EVVEKVEDENMQISLAEALELDPGVEVGMEMEFPVEREQFSRIALQAAKQTLTQKMRETE 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           R+  Y E+KD+ G++++  V R +  GN  V+LG  + ++   E I  E L PG+RVK Y
Sbjct: 125 RNVVYNEYKDREGQVLTAQVVRSDNKGNWFVELGAGEAIMPPREQIPGEKLTPGNRVKIY 184

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +VR+  +GP +L SR   + +  L   E+PE+ NG+V++KAVSR+ G R+K+AVFS++
Sbjct: 185 LKEVRKTPKGPTILASRADERLLDYLLRQEIPEVQNGVVEIKAVSREAGQRSKVAVFSNN 244

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           S++DP+GAC+G RG R+QAV  EL  E++D+++W  D   F+ NAL PA V  + LDE+ 
Sbjct: 245 SNVDPIGACIGHRGGRIQAVTGELGRERVDVILWDEDQREFIRNALSPAKVGPIDLDEET 304

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           G   V V  +QLSLAIG+ GQNVRLA++LTG  ID+
Sbjct: 305 GTATVTVTPDQLSLAIGKGGQNVRLAAKLTGQKIDL 340


>gi|81428862|ref|YP_395862.1| transcription elongation factor NusA [Lactobacillus sakei subsp.
           sakei 23K]
 gi|78610504|emb|CAI55555.1| Transcription elongation protein NusA (Transcription
           termination-antitermination factor NusA) [Lactobacillus
           sakei subsp. sakei 23K]
          Length = 405

 Score =  268 bits (685), Expect = 2e-69,   Method: Compositional matrix adjust.
 Identities = 139/340 (40%), Positives = 212/340 (62%), Gaps = 1/340 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L   DA+  EK + +++V+  +  ++  A +  YG   ++ VE + + G+I ++ + E
Sbjct: 4   EMLGALDALEQEKGVKKEIVIEALEAALVSAYKRNYGQAQNVEVEFDQKKGNIHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V +EV +   ++S + A + + + ++G  +   + P DFGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VTDEVFDSRLEVSYQDALEINKAYEVGDTIRFEVTPKDFGRIAAQTAKQVIMQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+     EI+ G V+R +   + V+LG  + V+ + + I  E     DR+K Y+ 
Sbjct: 124 SIIYNEYSQYENEIMQGIVERRDNKFIYVNLGKIEAVLSKQDQIPNEVYNAHDRIKVYVS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SRTHP  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D +
Sbjct: 184 KVENTTKGPQVFVSRTHPDLVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVRSTDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVG 306
           +DPVG CVG +G RVQ VV EL  E +DIV W  D + ++ NAL PA V  V   D +  
Sbjct: 244 VDPVGTCVGPKGQRVQLVVNELHGENMDIVKWEEDPSDYIANALNPAEVIAVQFNDGNEH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
              VIVP  QLSLAIG++GQN RLA++LTG+ IDI  E E
Sbjct: 304 TCTVIVPDYQLSLAIGKKGQNARLAAKLTGYKIDIKPESE 343


>gi|258539789|ref|YP_003174288.1| transcription elongation factor NusA [Lactobacillus rhamnosus Lc
           705]
 gi|257151465|emb|CAR90437.1| Transcription elongation factor NusA [Lactobacillus rhamnosus Lc
           705]
          Length = 404

 Score =  268 bits (685), Expect = 2e-69,   Method: Compositional matrix adjust.
 Identities = 144/341 (42%), Positives = 214/341 (62%), Gaps = 2/341 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E++Q  DA+  EK + ++VV+  +  ++  A +  Y    ++ VE +P+ GDI ++ + E
Sbjct: 4   EMIQALDALEQEKGVKKEVVIEALEAALVSAYKRNYNQAQNVDVEFDPKQGDIHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V +EV +   ++SLK A   + + +IG  +   + P DFGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VTDEVFDSRLEVSLKDALAINKAYEIGDQIKFEVTPKDFGRIAAQTAKQVIMQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+     EI+ G V+R +   + V+LG  + V+ R + +  E     DR+K Y+ 
Sbjct: 124 SIVYDEYSQYEDEILQGVVERRDNRFIYVNLGKIEAVLGRQDQMPNEKYEAHDRIKVYVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SRTHP  + +LF  EVPEI++G V++  ++R+ G R K+AV +++ +
Sbjct: 184 KVENTSKGPQVFVSRTHPGLVKRLFEQEVPEIFDGTVEIVNIAREAGDRTKIAVRATNDA 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVG 306
           +D VG  VG RG+RVQAVV EL  E +D+V W  D A ++ NAL PA V  V   DED  
Sbjct: 244 VDAVGTTVGPRGARVQAVVNELSGENMDVVQWEEDPADYIANALNPAQVIAVQFNDEDND 303

Query: 307 R-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           R   VIVP  QLSLAIG++GQN RLA++LTG+ IDI  E E
Sbjct: 304 RSATVIVPDYQLSLAIGKKGQNARLAAKLTGYKIDIKPESE 344


>gi|199597100|ref|ZP_03210532.1| transcription elongation factor NusA [Lactobacillus rhamnosus
           HN001]
 gi|258508610|ref|YP_003171361.1| transcription elongation factor NusA [Lactobacillus rhamnosus GG]
 gi|199591904|gb|EDY99978.1| transcription elongation factor NusA [Lactobacillus rhamnosus
           HN001]
 gi|257148537|emb|CAR87510.1| Transcription elongation factor NusA [Lactobacillus rhamnosus GG]
 gi|259649917|dbj|BAI42079.1| transcription elongation factor NusA [Lactobacillus rhamnosus GG]
          Length = 402

 Score =  268 bits (684), Expect = 2e-69,   Method: Compositional matrix adjust.
 Identities = 144/341 (42%), Positives = 214/341 (62%), Gaps = 2/341 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E++Q  DA+  EK + ++VV+  +  ++  A +  Y    ++ VE +P+ GDI ++ + E
Sbjct: 4   EMIQALDALEQEKGVKKEVVIEALEAALVSAYKRNYNQAQNVDVEFDPKQGDIHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V +EV +   ++SLK A   + + +IG  +   + P DFGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VTDEVFDSRLEVSLKDALAINKAYEIGDQIKFEVTPKDFGRIAAQTAKQVIMQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+     EI+ G V+R +   + V+LG  + V+ R + +  E     DR+K Y+ 
Sbjct: 124 SIVYDEYSQYEDEILQGVVERRDNRFIYVNLGKIEAVLGRQDQMPNEKYEAHDRIKVYVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SRTHP  + +LF  EVPEI++G V++  ++R+ G R K+AV +++ +
Sbjct: 184 KVENTSKGPQVFVSRTHPGLVKRLFEQEVPEIFDGTVEIVNIAREAGDRTKIAVRATNDA 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVG 306
           +D VG  VG RG+RVQAVV EL  E +D+V W  D A ++ NAL PA V  V   DED  
Sbjct: 244 VDAVGTTVGPRGARVQAVVNELSGENMDVVQWEEDPADYIANALNPAQVIAVQFNDEDND 303

Query: 307 R-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           R   VIVP  QLSLAIG++GQN RLA++LTG+ IDI  E E
Sbjct: 304 RSATVIVPDYQLSLAIGKKGQNARLAAKLTGYKIDIKPESE 344


>gi|116495058|ref|YP_806792.1| transcription elongation factor NusA [Lactobacillus casei ATCC 334]
 gi|191638561|ref|YP_001987727.1| transcription elongation factor NusA [Lactobacillus casei BL23]
 gi|239631347|ref|ZP_04674378.1| transcription elongation factor NusA [Lactobacillus paracasei
           subsp. paracasei 8700:2]
 gi|301066621|ref|YP_003788644.1| transcription elongation factor [Lactobacillus casei str. Zhang]
 gi|116105208|gb|ABJ70350.1| Transcription elongation factor [Lactobacillus casei ATCC 334]
 gi|190712863|emb|CAQ66869.1| Transcription elongation protein NusA (Transcription
           termination-antitermination factor NusA) [Lactobacillus
           casei BL23]
 gi|239525812|gb|EEQ64813.1| transcription elongation factor NusA [Lactobacillus paracasei
           subsp. paracasei 8700:2]
 gi|300439028|gb|ADK18794.1| Transcription elongation factor [Lactobacillus casei str. Zhang]
 gi|327382599|gb|AEA54075.1| N utilization substance protein A [Lactobacillus casei LC2W]
 gi|327385797|gb|AEA57271.1| N utilization substance protein A [Lactobacillus casei BD-II]
          Length = 417

 Score =  268 bits (684), Expect = 2e-69,   Method: Compositional matrix adjust.
 Identities = 141/341 (41%), Positives = 213/341 (62%), Gaps = 2/341 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E++Q  DA+  EK + ++VV+  +  ++  A +  Y    ++ VE +P+ GDI ++ + E
Sbjct: 4   EMIQALDALEQEKGVKKEVVIEALEAALVSAYKRNYNQAQNVDVEFDPKQGDIHIYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V +EV +   ++SLK A   + + +IG  +   + P DFGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VTDEVFDSRLEVSLKEALAINKAYEIGDQIKFEVTPKDFGRIAAQTAKQVIMQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+     EI+ G V+R +   + V+LG  + V+ R + +  E     DR+K Y+ 
Sbjct: 124 SIVYDEYSQYEDEILQGVVERRDNRFIYVNLGKIEAVLGRQDQMPNEKYEAHDRIKVYVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SRTHP  + +LF  EVPEI++G V++  ++R+ G R K+AV S++ +
Sbjct: 184 KVENTSKGPQVFVSRTHPGLVKRLFEQEVPEIFDGTVEIVNIAREAGDRTKIAVRSTNDA 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG- 306
           +D VG  VG RG+RVQAVV EL  E +D+V W  D A ++ NAL PA V  V  +++   
Sbjct: 244 VDAVGTTVGPRGARVQAVVNELSGENMDVVQWEEDPADYIANALNPAQVIAVQFNDEAND 303

Query: 307 -RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               VIVP  QLSLAIG++GQN RLA++LTG+ IDI  E E
Sbjct: 304 RSATVIVPDYQLSLAIGKKGQNARLAAKLTGYKIDIKPESE 344


>gi|254556874|ref|YP_003063291.1| transcription elongation factor NusA [Lactobacillus plantarum JDM1]
 gi|300768187|ref|ZP_07078092.1| transcription termination factor NusA [Lactobacillus plantarum
           subsp. plantarum ATCC 14917]
 gi|308180815|ref|YP_003924943.1| transcription elongation factor NusA [Lactobacillus plantarum
           subsp. plantarum ST-III]
 gi|254045801|gb|ACT62594.1| transcription elongation factor NusA [Lactobacillus plantarum JDM1]
 gi|300494251|gb|EFK29414.1| transcription termination factor NusA [Lactobacillus plantarum
           subsp. plantarum ATCC 14917]
 gi|308046306|gb|ADN98849.1| transcription elongation factor NusA [Lactobacillus plantarum
           subsp. plantarum ST-III]
          Length = 405

 Score =  267 bits (683), Expect = 2e-69,   Method: Compositional matrix adjust.
 Identities = 145/342 (42%), Positives = 218/342 (63%), Gaps = 1/342 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   D +  EK I ++VV+  +  ++  A +  YG   ++ V+ +   G+I ++ + E
Sbjct: 4   ELLGALDTLESEKGIKKEVVIEALEAALVSAYKRNYGQAQNVEVDFDQIKGNIHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE+V +   ++SL+ A   + + +IG  +   + P +FGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VVEDVFDSRLEVSLQDALAINRAYEIGDDIRFEVTPKNFGRIAAQTAKQVIMQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+     EI++G V+R +   V V LG  + V+ R + +  E  R  D++K Y+ 
Sbjct: 124 GIIYDEYSQYENEIVTGEVERQDNRFVYVSLGKVEAVMGRSDQLPGEVYRIHDKIKVYVS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SRT P  + +LF  EVPEI++GIV++ +++R+ G RAK+AV S++ +
Sbjct: 184 KVENATKGPQVFVSRTAPDLLKRLFEQEVPEIFDGIVEIVSIAREAGDRAKVAVRSNNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG CVG +G RVQ +V EL  E +DIV W+ D A F+ NAL PA V  V+ D +  R
Sbjct: 244 VDPVGTCVGPKGQRVQTIVNELHGENMDIVEWTDDQAVFIANALNPAEVLDVIFDPENER 303

Query: 308 -IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
              V+VP  QLSLAIG+RGQN RLA++LTG+ IDI +E E S
Sbjct: 304 GCTVVVPDYQLSLAIGKRGQNARLAAKLTGFKIDIKSETEAS 345


>gi|87309244|ref|ZP_01091380.1| transcription elongation factor NusA [Blastopirellula marina DSM
           3645]
 gi|87287883|gb|EAQ79781.1| transcription elongation factor NusA [Blastopirellula marina DSM
           3645]
          Length = 425

 Score =  267 bits (683), Expect = 3e-69,   Method: Compositional matrix adjust.
 Identities = 152/398 (38%), Positives = 239/398 (60%), Gaps = 37/398 (9%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  E+L+I DA+  +K+ID++VV   +  ++  A R  +   S++ + I+ E G IS   
Sbjct: 2   NPTEVLRIVDAIHRDKNIDKEVVFQAIESALVSATRKYHSEESEVVIHIDREDGSIS--- 58

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMD-FGRVAVQSAKQVIIQKVR 123
                                        G +  +P+ P +  GR+  Q+AKQVIIQK+R
Sbjct: 59  -----------------------------GHIDGEPVDPEEAVGRIGAQTAKQVIIQKIR 89

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           EAERD  + E+ + VG++++GTV R E G  IV LGN + ++ R E I  E+    DRV+
Sbjct: 90  EAERDSLHDEYDEMVGQMVNGTVHRAEGGAAIVALGNVEAILPRSEQIPGESFHANDRVR 149

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           + + +VR++    +V+LSR + +F+ +LF  E+PEI + ++++K +SR+PG R+K+AV S
Sbjct: 150 AIVLEVRKQGSRVKVVLSRANKRFVQRLFEQEIPEITDEVIEIKNISREPGYRSKVAVDS 209

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           SD  +D VGACVG+RG+R++ +V EL  E+IDIV W+ D  T + NAL+PA V +V+L +
Sbjct: 210 SDQRVDCVGACVGVRGNRIKNIVDELSGERIDIVRWTDDPETLIPNALQPAEVEEVILCK 269

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
            +GR  V+V ++QLSLAIGRRGQNVRLAS+L GW I+I+  EE     ++        F 
Sbjct: 270 MMGRAIVLVREDQLSLAIGRRGQNVRLASKLCGWDIEIMLREE----LEEQIERAVTAFT 325

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
               V + +A  LV EGF   ++L+ ++   + ++  F
Sbjct: 326 GIDGVTDSVAEQLVGEGFLSYDDLSVIESDALMAMGEF 363


>gi|226226960|ref|YP_002761066.1| transcription elongation protein NusA [Gemmatimonas aurantiaca
           T-27]
 gi|226090151|dbj|BAH38596.1| transcription elongation protein NusA [Gemmatimonas aurantiaca
           T-27]
          Length = 438

 Score =  267 bits (682), Expect = 3e-69,   Method: Compositional matrix adjust.
 Identities = 147/330 (44%), Positives = 212/330 (64%), Gaps = 3/330 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQI 79
           K I R+ +  ++ D I  A    +G      VEI+   G+I +  L  VV+EV + + ++
Sbjct: 18  KQITREELHGLLQDGIHAALAKKHGANVQAEVEIDEARGEIRIVLLKTVVDEVTDESREV 77

Query: 80  SLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVG 139
           +++ AR  DP   +G V+  P+  M+FGR AVQ+AKQ IIQ+VRE ER R   EF  +VG
Sbjct: 78  TVEEARFMDPEFQVGDVMEIPVDFMEFGRTAVQAAKQRIIQRVREGERTRIRDEFAGRVG 137

Query: 140 EIISGTVKRVEYGNVIVDLGN---SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           +++SG V+++E G ++V L     ++ +I   E   RE+   G+ V++ +  V    +GP
Sbjct: 138 DLLSGEVQQIERGKLVVMLNKFREAEAIIPYREQNHREHYHQGEPVRAVLKRVEDTPKGP 197

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +++LSR+   F+  LF +EVPEI  GIV++KA +R+ GSR K+AV S D ++DPVGACVG
Sbjct: 198 RLILSRSDALFVQALFKLEVPEIQQGIVEIKAAAREVGSRTKIAVTSRDEAVDPVGACVG 257

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           ++G+RVQAVV EL  E+IDIV WSPD   F   AL PA V +V  D     I+ +V ++Q
Sbjct: 258 LKGARVQAVVNELGGERIDIVPWSPDPERFAKLALAPARVARVFSDAASRTIQAVVDEDQ 317

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           LSLAIGR GQNVRLAS+LTGW ID+ +  E
Sbjct: 318 LSLAIGRNGQNVRLASELTGWKIDLYSSRE 347


>gi|28378676|ref|NP_785568.1| transcription elongation factor NusA [Lactobacillus plantarum
           WCFS1]
 gi|28271512|emb|CAD64417.1| transcription termination-antitermination factor NusA
           [Lactobacillus plantarum WCFS1]
          Length = 405

 Score =  267 bits (682), Expect = 4e-69,   Method: Compositional matrix adjust.
 Identities = 145/342 (42%), Positives = 218/342 (63%), Gaps = 1/342 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   D +  EK I ++VV+  +  ++  A +  YG   ++ V+ +   G+I ++ + E
Sbjct: 4   ELLGALDTLESEKGIKKEVVIEALEAALVSAYKRNYGQAQNVEVDFDQIKGNIHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE+V +   ++SL+ A   + + +IG  +   + P +FGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VVEDVFDSRLEVSLQDALAINRAYEIGDDIRFEVTPKNFGRIAAQTAKQVIMQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+     EI++G V+R +   V V LG  + V+ R + +  E  R  D++K Y+ 
Sbjct: 124 GIIYDEYSQYENEIVTGEVERQDNRFVYVSLGKVEAVMGRSDQLPGEVYRIHDKIKVYVS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SRT P  + +LF  EVPEI++GIV++ +++R+ G RAK+AV S++ +
Sbjct: 184 KVENATKGPQVFVSRTAPDLLKRLFEQEVPEIFDGIVEIVSIAREAGDRAKVAVRSNNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG CVG +G RVQ +V EL  E +DIV W+ D A F+ NAL PA V  V+ D +  R
Sbjct: 244 VDPVGTCVGPKGQRVQTIVNELHGENMDIVEWTYDQAVFIANALNPAEVLDVIFDPENER 303

Query: 308 -IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
              V+VP  QLSLAIG+RGQN RLA++LTG+ IDI +E E S
Sbjct: 304 GCTVVVPDYQLSLAIGKRGQNARLAAKLTGFKIDIKSETEAS 345


>gi|297623578|ref|YP_003705012.1| transcription termination factor NusA [Truepera radiovictrix DSM
           17093]
 gi|297164758|gb|ADI14469.1| transcription termination factor NusA [Truepera radiovictrix DSM
           17093]
          Length = 397

 Score =  266 bits (681), Expect = 4e-69,   Method: Compositional matrix adjust.
 Identities = 134/336 (39%), Positives = 219/336 (65%), Gaps = 1/336 (0%)

Query: 14  DAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVE 73
           + +A+E+++D++ +L+   +++++A          I V ++PE+G+I +  +  VVE VE
Sbjct: 10  NQLAHERNLDKEQLLASFEEALEQAYERNVEPGKQIEVHVDPESGEIDVLVVKRVVETVE 69

Query: 74  NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
           +   ++SL+ AR+ DP++++G  +  P+ P  F R+AVQ+ KQVI QK+REAER   + E
Sbjct: 70  DPGLEMSLEEARELDPTVEVGMEMELPVDPERFTRIAVQTTKQVITQKIREAERALVFNE 129

Query: 134 FKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
           +KD+ G++I+  V R +   NV VDLG  + ++   E I  E    G R+K ++  V   
Sbjct: 130 YKDRAGDVITAVVSRTDNKRNVFVDLGRGEAIMPPKEQIPGERYMVGMRLKVFVMKVELG 189

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            RGP +L+SR  P+ +  L   E+PEI +  V++KAV+R+ G R+K+AV S + ++DP+G
Sbjct: 190 NRGPSILVSRAAPELLEYLMRQEIPEIADDTVEIKAVAREAGQRSKVAVVSRNPNVDPIG 249

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIV 312
           AC+G RG+R+QAV  EL+ E++DI++W P    F+ NAL PA V  + ++ + G  +V V
Sbjct: 250 ACIGHRGARIQAVTGELQRERVDIILWDPSPREFIRNALSPAKVGTIEVNSETGEAKVTV 309

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
             +QLSLAIG+ GQNVRLA++LTG+ ID++  E  S
Sbjct: 310 SNDQLSLAIGKGGQNVRLAAKLTGFKIDLVASEHIS 345


>gi|229552419|ref|ZP_04441144.1| transcription termination factor NusA [Lactobacillus rhamnosus
           LMS2-1]
 gi|229314156|gb|EEN80129.1| transcription termination factor NusA [Lactobacillus rhamnosus
           LMS2-1]
          Length = 404

 Score =  266 bits (681), Expect = 5e-69,   Method: Compositional matrix adjust.
 Identities = 143/341 (41%), Positives = 214/341 (62%), Gaps = 2/341 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E++Q  DA+  EK + ++VV+  +  ++  A +  Y    ++ V+ +P+ GDI ++ + E
Sbjct: 4   EMIQALDALEQEKGVKKEVVIEALEAALVSAYKRNYNQAQNVDVKFDPKQGDIHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V +EV +   ++SLK A   + + +IG  +   + P DFGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VTDEVFDSRLEVSLKDALAINKAYEIGDQIKFEVTPKDFGRIAAQTAKQVIMQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+     EI+ G V+R +   + V+LG  + V+ R + +  E     DR+K Y+ 
Sbjct: 124 SIVYDEYSQYEDEILQGVVERRDNRFIYVNLGKIEAVLGRQDQMPNEKYEAHDRIKVYVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SRTHP  + +LF  EVPEI++G V++  ++R+ G R K+AV +++ +
Sbjct: 184 KVENTSKGPQVFVSRTHPGLVKRLFEQEVPEIFDGTVEIVNIAREAGDRTKIAVRATNDA 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVG 306
           +D VG  VG RG+RVQAVV EL  E +D+V W  D A ++ NAL PA V  V   DED  
Sbjct: 244 VDAVGTTVGPRGARVQAVVNELSGENMDVVQWEEDPADYIANALNPAQVIAVQFNDEDND 303

Query: 307 R-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           R   VIVP  QLSLAIG++GQN RLA++LTG+ IDI  E E
Sbjct: 304 RSATVIVPDYQLSLAIGKKGQNARLAAKLTGYKIDIKPESE 344


>gi|182414628|ref|YP_001819694.1| NusA antitermination factor [Opitutus terrae PB90-1]
 gi|177841842|gb|ACB76094.1| NusA antitermination factor [Opitutus terrae PB90-1]
          Length = 408

 Score =  266 bits (680), Expect = 6e-69,   Method: Compositional matrix adjust.
 Identities = 144/405 (35%), Positives = 249/405 (61%), Gaps = 4/405 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + + +  EK I R  +++ +A++++ AA+    +  ++++EIN + G +  + LL+
Sbjct: 4   EILSVLEYMEKEKGIPRADMIATIANALKTAAQKGVNSGQELKIEINAKNGQLHAWCLLK 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V N   +I ++ A+   P   IG ++   + P   GR+A Q+A+Q ++Q++R+ E+
Sbjct: 64  VVDSVSNPKTEIHVERAQALKPGAIIGEIIEKEIDPSTLGRIAAQTARQAVMQRLRQFEK 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           DR + +FKD+VG I++GTV+R E  ++ +DLG ++ V+   E +  E  +PG+R++  + 
Sbjct: 124 DRIFDDFKDQVGNIVTGTVRRRERNDLYIDLGKAEAVMPAKEQVPGEEYQPGERIRCLLL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           ++    RGP+++L+R  P+F+ +LF +EV EI +G V+++A +R+PG R K+AV S+D  
Sbjct: 184 NIESTPRGPEIILTRGSPKFVRRLFELEVTEIADGTVKIEAFAREPGYRTKIAVISTDPK 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG RG+RV+ +V EL  EKIDI+ +       +I A++PA+  ++ LDE   R
Sbjct: 244 VDPVGACVGARGARVKTIVRELNGEKIDIIRYFASPREMIIEAMKPAVPREITLDEKNHR 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           I + V  + L++AIGR+GQN RL S+L GW +DI  EE  ++      N      ++A  
Sbjct: 304 ILLKVATDDLAIAIGRKGQNARLTSRLIGWRLDI--EEFRAVGDDPRGNA-IASLVKAFA 360

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGR 412
           +D  +A  LV  G         V+ +++    GF E  A +I GR
Sbjct: 361 LDATVAGRLVDMGINSPAAFEGVEANDLVD-AGFTEAEATDIIGR 404


>gi|297520389|ref|ZP_06938775.1| transcription elongation factor NusA [Escherichia coli OP50]
          Length = 323

 Score =  266 bits (680), Expect = 6e-69,   Method: Compositional matrix adjust.
 Identities = 135/309 (43%), Positives = 203/309 (65%), Gaps = 3/309 (0%)

Query: 176 LRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
            RPGDRV+  +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGS
Sbjct: 1   FRPGDRVRGVLYSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGS 60

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA 
Sbjct: 61  RAKIAVKTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPAD 120

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF 355
           V  +V+DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + 
Sbjct: 121 VASIVVDEDKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEA 180

Query: 356 NERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           +     F + +++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+ 
Sbjct: 181 HAAIDTFTKYLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKN 240

Query: 416 YLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---G 472
            L  I    ++ + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL    G
Sbjct: 241 ALATIAQAQEESLGDNKPADDLLNLEGVDRDLAFKLAARGVCTLEDLAEQGIDDLADIEG 300

Query: 473 WSENKGGNI 481
            ++ K G +
Sbjct: 301 LTDEKAGAL 309


>gi|327542469|gb|EGF28948.1| transcription elongation factor NusA [Rhodopirellula baltica WH47]
          Length = 498

 Score =  266 bits (679), Expect = 8e-69,   Method: Compositional matrix adjust.
 Identities = 154/402 (38%), Positives = 236/402 (58%), Gaps = 41/402 (10%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  ++L+  D++  +K+ID +++   +  ++Q AA+  YG  SD+ V I+ + G I+   
Sbjct: 2   NPQDILRYVDSLHRDKNIDPELLFQAIESALQSAAKKQYGEESDVIVSISRDNGAIA--- 58

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
                                          +  +PL     GR+  Q+AKQVIIQKVRE
Sbjct: 59  -----------------------------ATLAGEPLGDDQIGRIGAQTAKQVIIQKVRE 89

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AERD   LE++D++GEI+SG + R + G   V+LGN + ++ R E I  E+L   +RV++
Sbjct: 90  AERDALMLEYRDQIGEIVSGMIGRADGGVATVNLGNVEAILPRSEQIPGESLHANERVRA 149

Query: 185 YIYDVRREQRGP-QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            +++VR       +V+LSRT PQF+ +LF  E+PE+ +G++ +K++SR+PG R+K+AV S
Sbjct: 150 IVFEVRPSGGNRVRVVLSRTRPQFVQRLFEQEIPELNDGVIAIKSISREPGYRSKVAVSS 209

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D  IDP+  CVG RGSR++AV  EL  E ID+V +  D    + NAL+PA V +V+L +
Sbjct: 210 EDQQIDPISVCVGYRGSRIKAVREELAGEHIDVVRYDSDPEVLIPNALQPAEVDQVLLCD 269

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT--EEEDSINRQKDFNERTQF 361
            +GR  V+V ++QLSLAIGRRGQNVRLAS+L GW I+I+T  E E+ I R          
Sbjct: 270 MIGRAIVLVQEDQLSLAIGRRGQNVRLASKLCGWDIEIMTNAELEEQIERA------VGG 323

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
           F Q   + E IA  LV +G+   ++L+ ++      + G  E
Sbjct: 324 FSQIPGITEEIAQALVEQGYLSYDDLSVIEPDLFMEMSGLSE 365


>gi|32473747|ref|NP_866741.1| transcription elongation factor NusA [Rhodopirellula baltica SH 1]
 gi|32444283|emb|CAD74281.1| N utilization substance protein A [Rhodopirellula baltica SH 1]
          Length = 498

 Score =  266 bits (679), Expect = 9e-69,   Method: Compositional matrix adjust.
 Identities = 154/402 (38%), Positives = 236/402 (58%), Gaps = 41/402 (10%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  ++L+  D++  +K+ID +++   +  ++Q AA+  YG  SD+ V I+ + G I+   
Sbjct: 2   NPQDILRYVDSLHRDKNIDPELLFQAIESALQSAAKKQYGEESDVIVSISRDNGAIA--- 58

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
                                          +  +PL     GR+  Q+AKQVIIQKVRE
Sbjct: 59  -----------------------------ATLAGEPLGDDQIGRIGAQTAKQVIIQKVRE 89

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AERD   LE++D++GEI+SG + R + G   V+LGN + ++ R E I  E+L   +RV++
Sbjct: 90  AERDALMLEYRDQIGEIVSGMIGRADGGVATVNLGNVEAILPRSEQIPGESLHANERVRA 149

Query: 185 YIYDVRREQRGP-QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            +++VR       +V+LSRT PQF+ +LF  E+PE+ +G++ +K++SR+PG R+K+AV S
Sbjct: 150 IVFEVRPSGGNRVRVVLSRTRPQFVQRLFEQEIPELNDGVIAIKSISREPGYRSKVAVSS 209

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D  IDP+  CVG RGSR++AV  EL  E ID+V +  D    + NAL+PA V +V+L +
Sbjct: 210 EDQQIDPISVCVGYRGSRIKAVREELAGEHIDVVRYDSDPEVLIPNALQPAEVDQVLLCD 269

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT--EEEDSINRQKDFNERTQF 361
            +GR  V+V ++QLSLAIGRRGQNVRLAS+L GW I+I+T  E E+ I R          
Sbjct: 270 MIGRAIVLVQEDQLSLAIGRRGQNVRLASKLCGWDIEIMTNAELEEQIERA------VGG 323

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
           F Q   + E IA  LV +G+   ++L+ ++      + G  E
Sbjct: 324 FSQIPGITEEIAQALVEQGYLSYDDLSVIEPDLFMEMSGLSE 365


>gi|189485237|ref|YP_001956178.1| transcription antitermination factor NusA [uncultured Termite group
           1 bacterium phylotype Rs-D17]
 gi|170287196|dbj|BAG13717.1| transcription antitermination factor NusA [uncultured Termite group
           1 bacterium phylotype Rs-D17]
          Length = 418

 Score =  266 bits (679), Expect = 9e-69,   Method: Compositional matrix adjust.
 Identities = 143/383 (37%), Positives = 237/383 (61%), Gaps = 1/383 (0%)

Query: 28  LSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDR 87
           L V+ +++  A +   G   ++  ++NPE G+++   +  VV++V N   +I ++ A+  
Sbjct: 26  LVVIENALVSAYKKHVGKNVNVEAKVNPELGEMTASVVKVVVKDVVNPLLEICVQDAKKF 85

Query: 88  DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVK 147
           D S++IG  V  PL   DF R+A Q+AKQVI+QK+RE+ERD  + E K+K+G+I +G + 
Sbjct: 86  DQSVEIGTEVRIPLDTRDFSRIAAQTAKQVIVQKIRESERDSLFDEMKEKIGQIANGAIY 145

Query: 148 RVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQF 207
           R+   N+IVDLG ++ ++   E + +E    G  +K+ I  V +  +G  V+LSRT  + 
Sbjct: 146 RITNRNLIVDLGKTEAILPSSEQVFKEKFSVGQYIKAVIIKVEKSVKGSGVVLSRTSIEL 205

Query: 208 MVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVT 267
           + +LF +EVPEIY  IV++  V R+PG R K+ V S +  +DPVGACVG++G+RV+ ++ 
Sbjct: 206 VKRLFELEVPEIYEKIVEIVNVVREPGVRTKITVLSHNPKVDPVGACVGVKGARVKPIID 265

Query: 268 ELRDEKIDIVVWSPDSATFVINALRPA-IVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQ 326
           ELR E+ID+V +S D A ++ +A+ PA IV+   + E+  + EV+V  + L LAIG+ G 
Sbjct: 266 ELRGERIDLVSYSVDPAKYIASAMSPAKIVSVTTISEEEKKAEVLVTDDMLFLAIGKNGH 325

Query: 327 NVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEE 386
           NVRLA++LTGW ID+ +E +      +   ++ + F +     E I  +LV  G  DVE+
Sbjct: 326 NVRLAAKLTGWHIDVKSEGQKKQEGNERIEKQAEVFEKLEGFSERIIKMLVKAGITDVEK 385

Query: 387 LACVKISEIASIEGFDEETAVEI 409
           L+ +    + ++ G   +TA +I
Sbjct: 386 LSLLTTEYLITLPGIGHKTAEKI 408


>gi|227513181|ref|ZP_03943230.1| transcription elongation factor NusA [Lactobacillus buchneri ATCC
           11577]
 gi|227083562|gb|EEI18874.1| transcription elongation factor NusA [Lactobacillus buchneri ATCC
           11577]
          Length = 440

 Score =  266 bits (679), Expect = 9e-69,   Method: Compositional matrix adjust.
 Identities = 151/365 (41%), Positives = 223/365 (61%), Gaps = 7/365 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL    A+  EK I ++VV+  M  ++  A +  YG   ++ V  +   G++ ++ +  
Sbjct: 4   ELLGALSALEEEKGIKKEVVIEAMQAALVSAYKRNYGQAQNVEVSFDGTKGEMHVYSVKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE V +   Q+SL  A   +   +IG  +   + P +FGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VVETVTDDQMQVSLDDALQINKGYEIGDDIKFEVTPKNFGRIAAQTAKQVIMQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + E+     ++++GTV+R +   V ++L   + V+   + +  E  RP +R+K Y+ 
Sbjct: 124 ENIFDEYSKYEDDLVTGTVERQDTRFVYINLDKVEAVMGPRDQMPNEVYRPQERIKVYVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SRT P  + +LF  EVPEIY+G V++ +++R+ G RAK+AV S++S 
Sbjct: 184 RVENATKGPQVFVSRTDPGMLKRLFEQEVPEIYDGTVEIVSIAREAGDRAKVAVRSNNSD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVG  VG +G RVQ +V EL  E +DIV W  D A ++ NAL PA V  V+ ++D  R
Sbjct: 244 IDPVGTAVGPKGQRVQTIVNELHGENMDIVEWDEDDARYIANALNPAEVIDVIFEDDNDR 303

Query: 308 -IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF-NERTQFFMQA 365
              VIVP  QLSLAIG+RGQN RLA++LTG+ IDI +E E      K+F  ER Q   QA
Sbjct: 304 ACTVIVPDYQLSLAIGKRGQNARLAAKLTGFKIDIKSETE-----AKEFLAERKQKAQQA 358

Query: 366 INVDE 370
            N DE
Sbjct: 359 ENEDE 363


>gi|227524396|ref|ZP_03954445.1| transcription elongation factor NusA [Lactobacillus hilgardii ATCC
           8290]
 gi|227088627|gb|EEI23939.1| transcription elongation factor NusA [Lactobacillus hilgardii ATCC
           8290]
          Length = 440

 Score =  265 bits (678), Expect = 1e-68,   Method: Compositional matrix adjust.
 Identities = 151/365 (41%), Positives = 223/365 (61%), Gaps = 7/365 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL    A+  EK I ++VV+  M  ++  A +  YG   ++ V  +   G++ ++ +  
Sbjct: 4   ELLGALSALEEEKGIKKEVVIEAMQAALVSAYKRNYGQAQNVEVSFDGTKGEMHVYSVKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE V +   Q+SL  A   +   +IG  +   + P +FGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VVETVTDDQMQVSLDDALQINKGYEIGDDIKFEVTPKNFGRIAAQTAKQVIMQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + E+     ++++GTV+R +   V ++L   + V+   + +  E  RP +R+K Y+ 
Sbjct: 124 ENIFDEYSKYEDDLVTGTVERQDTRFVYINLDKVEAVMGPRDQMPNEVYRPQERIKVYVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SRT P  + +LF  EVPEIY+G V++ +++R+ G RAK+AV S++S 
Sbjct: 184 RVENATKGPQVFVSRTDPGMLKRLFEQEVPEIYDGTVEIVSIAREAGDRAKVAVRSNNSD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVG  VG +G RVQ +V EL  E +DIV W  D A ++ NAL PA V  V+ ++D  R
Sbjct: 244 IDPVGTAVGPKGQRVQTIVNELHGENMDIVEWDEDDARYIANALNPAEVIDVIFEDDNDR 303

Query: 308 -IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF-NERTQFFMQA 365
              VIVP  QLSLAIG+RGQN RLA++LTG+ IDI +E E      K+F  ER Q   QA
Sbjct: 304 ACTVIVPDYQLSLAIGKRGQNARLAAKLTGFKIDIKSETE-----AKEFLAERKQKAQQA 358

Query: 366 INVDE 370
            N DE
Sbjct: 359 ENEDE 363


>gi|255027177|ref|ZP_05299163.1| transcription elongation factor NusA [Listeria monocytogenes FSL
           J2-003]
          Length = 301

 Score =  265 bits (678), Expect = 1e-68,   Method: Compositional matrix adjust.
 Identities = 129/268 (48%), Positives = 187/268 (69%)

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VREAER   Y EF D
Sbjct: 2   LEISMEEAHKLNPVYKPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAERGIIYDEFID 61

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           +  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y+  V +  +GP
Sbjct: 62  REDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLTKVEKTTKGP 121

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           Q+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++++  +DPVGACVG
Sbjct: 122 QIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTANEEVDPVGACVG 181

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
            +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E      VIVP  Q
Sbjct: 182 PKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEADQATTVIVPDYQ 241

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITE 344
           LSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 242 LSLAIGKRGQNARLAAKLTGWKIDIKSE 269


>gi|227534931|ref|ZP_03964980.1| transcription elongation factor NusA [Lactobacillus paracasei
           subsp. paracasei ATCC 25302]
 gi|227187687|gb|EEI67754.1| transcription elongation factor NusA [Lactobacillus paracasei
           subsp. paracasei ATCC 25302]
          Length = 417

 Score =  265 bits (677), Expect = 1e-68,   Method: Compositional matrix adjust.
 Identities = 140/341 (41%), Positives = 212/341 (62%), Gaps = 2/341 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E++Q  DA+  EK + ++VV+  +  ++  A +  Y    ++ VE +P+ GDI ++ + E
Sbjct: 4   EMIQALDALEQEKGVKKEVVIEALEAALVSAYKRNYNQAQNVDVEFDPKQGDIHIYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V +EV +   ++SLK A   + + +IG  +   + P DFGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VTDEVFDSRLEVSLKEALAINKAYEIGDQIKFEVTPKDFGRIAAQTAKQVIMQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+     EI+ G V+R +   + V+LG  + V+ R + +  E     DR+K Y+ 
Sbjct: 124 SIVYDEYSQYEDEILQGVVERRDNRFIYVNLGKIEAVLGRQDQMPNEKYEAHDRIKVYVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SRTHP  + +LF  EVPEI++G V++  ++R+ G R K+AV S++ +
Sbjct: 184 KVENTSKGPQVFVSRTHPGLVKRLFEQEVPEIFDGTVEIVNIAREAGDRTKIAVRSTNDA 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG- 306
           +D VG  VG RG+RVQAVV EL  E +D+V W  D A ++ NAL PA V  V  +++   
Sbjct: 244 VDAVGTTVGPRGARVQAVVNELSGENMDVVQWEEDPADYIANALNPAQVIAVQFNDEAND 303

Query: 307 -RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               VIVP  QLSLAIG++GQN RLA++LTG+ I I  E E
Sbjct: 304 RSATVIVPDYQLSLAIGKKGQNARLAAKLTGYKIHIKPESE 344


>gi|167772658|ref|ZP_02444711.1| hypothetical protein ANACOL_04039 [Anaerotruncus colihominis DSM
           17241]
 gi|167665136|gb|EDS09266.1| hypothetical protein ANACOL_04039 [Anaerotruncus colihominis DSM
           17241]
          Length = 358

 Score =  265 bits (677), Expect = 1e-68,   Method: Compositional matrix adjust.
 Identities = 145/346 (41%), Positives = 214/346 (61%), Gaps = 3/346 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           ++ +  E  +    +  EK I R ++   +A +I  A R   G   D  V+INP+TG   
Sbjct: 7   MNTSNTEFFEALALMEKEKGIPRSLLAEKIATAIGNAIRRDMGASEDSVVDINPDTGRFY 66

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +     VV+++ +   +I  + A   D    +G +V  PL    FGR+A Q+AK VI Q 
Sbjct: 67  VAMRKTVVDDLLDPAQEILPEEAVKYDSGATLGDIVEIPLDTKQFGRIAAQTAKHVIRQG 126

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEY--GNVIVDLGNSDGVIRRDETISRENLRPG 179
           +REAER + + EF  +  +I++ TV R +   GNV ++LG S+ V+ + E +  E    G
Sbjct: 127 IREAERGQLFAEFSSRQHDIVTATVLRTDQVRGNVTLELGKSEAVLPKGEQVPGEEYADG 186

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
            R+K Y+ DV   ++GP++++SRTHP  + +LF MEVPEI++G ++VK++SR+ GSR K+
Sbjct: 187 ARIKVYVVDVVNGEKGPRIMISRTHPGLVKRLFEMEVPEIFDGTIEVKSISREAGSRTKI 246

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV+S+D ++DPVGAC+G +G RV A+V EL  EKID+V +S D A F+  AL PA V  V
Sbjct: 247 AVWSNDENVDPVGACIGPKGQRVSAIVEELGGEKIDVVRYSADPAEFIAAALSPADVVSV 306

Query: 300 VLDEDVGR-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            +D D  +   V VP  QLSLAIG +GQN RLA++LTGW IDI  E
Sbjct: 307 EVDPDGAKSCRVSVPDHQLSLAIGNKGQNARLAAKLTGWKIDIKPE 352


>gi|227510252|ref|ZP_03940301.1| transcription elongation factor NusA [Lactobacillus brevis subsp.
           gravesensis ATCC 27305]
 gi|227189904|gb|EEI69971.1| transcription elongation factor NusA [Lactobacillus brevis subsp.
           gravesensis ATCC 27305]
          Length = 444

 Score =  265 bits (677), Expect = 2e-68,   Method: Compositional matrix adjust.
 Identities = 151/365 (41%), Positives = 222/365 (60%), Gaps = 7/365 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL    A+  EK I ++VV+  M  ++  A +  YG   ++ V  +   G++ ++ +  
Sbjct: 4   ELLGALSALEEEKGIKKEVVIEAMQAALVSAYKRNYGQAQNVEVSFDGTKGEMHVYSVKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE V +   Q+SL  A   +   +IG  +   + P +FGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VVETVTDDQMQVSLDDALQINKGYEIGDDIKFEVTPKNFGRIAAQTAKQVIMQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + E+     ++++GTV+R +   V ++L   + V+   + +  E  RP +R+K Y+ 
Sbjct: 124 ENIFDEYSKYEDDLVTGTVERQDTRFVYINLDKVEAVMGPRDQMPNEVYRPQERIKVYVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SRT P  + +LF  EVPEIY+G V++ +++R+ G RAK+AV S++S 
Sbjct: 184 RVENATKGPQVFVSRTDPGMLKRLFEQEVPEIYDGTVEIVSIAREAGDRAKVAVRSNNSD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVG  VG +G RVQ +V EL  E +DIV W  D A ++ NAL PA V  V+ D+D  R
Sbjct: 244 IDPVGTAVGPKGQRVQTIVNELHGENMDIVEWDEDDARYIANALNPAEVIDVIFDDDNDR 303

Query: 308 -IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF-NERTQFFMQA 365
              VIVP  QLSLAIG+RGQN RLA++LTG+ IDI +E E      K+F  ER Q   Q 
Sbjct: 304 ACTVIVPDYQLSLAIGKRGQNARLAAKLTGFKIDIKSETE-----AKEFLAERKQKAQQV 358

Query: 366 INVDE 370
            N DE
Sbjct: 359 ENEDE 363


>gi|167746758|ref|ZP_02418885.1| hypothetical protein ANACAC_01470 [Anaerostipes caccae DSM 14662]
 gi|317471572|ref|ZP_07930918.1| transcription termination factor NusA [Anaerostipes sp. 3_2_56FAA]
 gi|167653718|gb|EDR97847.1| hypothetical protein ANACAC_01470 [Anaerostipes caccae DSM 14662]
 gi|316900951|gb|EFV22919.1| transcription termination factor NusA [Anaerostipes sp. 3_2_56FAA]
          Length = 391

 Score =  265 bits (676), Expect = 2e-68,   Method: Compositional matrix adjust.
 Identities = 145/344 (42%), Positives = 222/344 (64%), Gaps = 5/344 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+   + +  EK ID+DV++  + +S+  A +  +G   ++ V ++ ETGDI ++   E
Sbjct: 3   ELIDALNQLEKEKHIDKDVIMEAIENSLVAACKRDFGNADNVVVNMDRETGDIVVYAEKE 62

Query: 68  VVEEVE----NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           VVE  +    +   QISL  A+  DP  ++G +V   + P DFGR+A   A+ VI+QK++
Sbjct: 63  VVETADGEDFDPALQISLAKAKAMDPKYELGDIVRVEITPKDFGRIAAMHARSVIVQKIK 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           E ER   +  F  K  +I++G V+R    NV V L + +D ++ + E I  E  +P +R+
Sbjct: 123 EEERRVVFDHFYCKEKDIVTGVVQRYVGENVSVSLDDKTDALLMKSEQIRGEVFQPTERI 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           K YI +V+   RGP++L+SRTHP  + +LF  EV EI +GIV++K + R+ GSR KLAV+
Sbjct: 183 KLYIVEVKDTNRGPRILVSRTHPDLVKRLFEKEVAEIQDGIVEIKNIVREAGSRTKLAVW 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D ++DPVGACVGM G+RV A+V +L+ EKIDI+ W+ D   ++ NAL P+ V  V +D
Sbjct: 243 SNDPNVDPVGACVGMNGARVNAIVNDLKGEKIDIINWNEDPCVYIENALSPSKVVSVSVD 302

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            +    +V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E +
Sbjct: 303 VEEKSAQVVVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSESQ 346


>gi|270308254|ref|YP_003330312.1| transcription elongation factor [Dehalococcoides sp. VS]
 gi|270154146|gb|ACZ61984.1| transcription elongation factor [Dehalococcoides sp. VS]
          Length = 487

 Score =  264 bits (675), Expect = 2e-68,   Method: Compositional matrix adjust.
 Identities = 137/327 (41%), Positives = 211/327 (64%), Gaps = 1/327 (0%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARS-LYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           ++ EK++ ++VVL+ +  ++  A R   +    +I V+I+P TG + +    +VVE+V +
Sbjct: 12  LSAEKNLPKEVVLATVESALVSAYRKESFAPNQNITVKIDPLTGKVKVMAEKQVVEKVID 71

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              ++ L  A+ +     IG ++     P D GR+A Q+AKQVI+Q++ EAE    + E+
Sbjct: 72  SRQEMRLLEAKRQKADAKIGDLMMVEDTPADAGRIAAQTAKQVILQRLHEAENTAIFDEY 131

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
             K G+ + G V+R+E   + VD+G  + ++   E    E  R G R+K Y+ DV +  +
Sbjct: 132 ASKAGDTLVGVVQRIEPKQITVDIGRVEAIMPASEQAYGERYRAGQRIKVYVVDVAKTAK 191

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           GP V++SR+HP  + +LF MEVPE++N +V++KAV+R+ GSR+K+AV +    IDPVG C
Sbjct: 192 GPAVIVSRSHPGLVRRLFEMEVPEVFNQLVEIKAVAREAGSRSKVAVGALQPGIDPVGCC 251

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPK 314
           VG+RG R+Q +V+EL  EKID+V W  + ATF+ N+L PA VTKV+L+E      V++P 
Sbjct: 252 VGLRGIRIQNIVSELNGEKIDVVAWDNEIATFIANSLSPAQVTKVILNEAEKSAIVVIPD 311

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDI 341
            QLSL IG+ GQNVRLA +LTGW IDI
Sbjct: 312 RQLSLGIGKEGQNVRLAVKLTGWRIDI 338


>gi|149178853|ref|ZP_01857433.1| transcription elongation factor NusA [Planctomyces maris DSM 8797]
 gi|148842328|gb|EDL56711.1| transcription elongation factor NusA [Planctomyces maris DSM 8797]
          Length = 494

 Score =  264 bits (675), Expect = 3e-68,   Method: Compositional matrix adjust.
 Identities = 158/402 (39%), Positives = 248/402 (61%), Gaps = 32/402 (7%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+I DA+  +KSID+++V   +  +I  AAR  +G   ++ V+I+ +TG+ ++     
Sbjct: 5   EVLRIVDAIQRDKSIDKEIVFGGIEQAILSAARRHFGDDHELSVDIDRDTGEPTVL---- 60

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
                    C    K+ +D      I G +         GRVA Q+AKQV+IQK+REAER
Sbjct: 61  ---------CD-GDKLGKD------ILGEI--------LGRVAAQTAKQVMIQKIREAER 96

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           D  + E+ +   + +SGTV RVE G V+V+LG  +G++ R E I  E+ R  DRV++ + 
Sbjct: 97  DTVFDEYMEMQYQSVSGTVSRVEGGAVLVNLGKIEGILPRGEQIPGESFRVNDRVRAVVL 156

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           DVR+     +V+LSRTHP  + +LF +E+PE+ + I+ V++++R+ G R+K+AV   DSS
Sbjct: 157 DVRKAGSRVKVILSRTHPDMVRRLFELEIPEVADRIIDVRSLAREAGYRSKVAVSCIDSS 216

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVGMRG+R++ +V EL  E+IDIV W+      V N+L+PA V  V+L   +GR
Sbjct: 217 IDCVGACVGMRGARIKNIVDELAGERIDIVRWNDSLQVLVPNSLQPAEVEDVILCPMLGR 276

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           + V+V  +QL LAIGR+GQNVRLAS+L GW I+++T+ E  ++ Q   ++  + F     
Sbjct: 277 VIVLVRDDQLPLAIGRKGQNVRLASKLVGWDIEVMTQTE--LDEQ--LDKTVEAFSSIPG 332

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEI 409
           V E +A  LV++GF    +L+ ++  ++A + G   E   +I
Sbjct: 333 VSEELAESLVSQGFFSYYDLSVIEPDQLAELGGLTAEQCEQI 374


>gi|168214478|ref|ZP_02640103.1| N utilization substance protein A [Clostridium perfringens CPE str.
           F4969]
 gi|170714047|gb|EDT26229.1| N utilization substance protein A [Clostridium perfringens CPE str.
           F4969]
          Length = 366

 Score =  264 bits (675), Expect = 3e-68,   Method: Compositional matrix adjust.
 Identities = 143/338 (42%), Positives = 219/338 (64%), Gaps = 4/338 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG----TMSDIRVEINPETGDISLF 63
           E L     +  EK I  + +L  + D+I  A +  +     T  +++V+ + ++G+I ++
Sbjct: 4   EFLGALSEIVKEKGISVEALLETIDDAIIAAYKKNFSNSGTTAQNVKVKRDEKSGEIHVY 63

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
               VVEEV +   +ISL+ A+       +  +V   + P +FGRVA Q AKQ++IQ+++
Sbjct: 64  AQKVVVEEVYDDVTEISLEDAKAISAIYQLDDIVEIEVTPKNFGRVAAQLAKQMVIQRIK 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           E+ER+  Y EF +K  +I+ GTV R + GNV VDLG  +GV+  +E +  E     ++++
Sbjct: 124 ESERNVIYSEFAEKEFDILPGTVIRKDKGNVFVDLGKIEGVLGPNEQMPTEKYNFNEKLQ 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            Y+ +V++  +G  VL SRTHP  + +LF +EVPEIY GIV++K+++R+ GSR K+AV+S
Sbjct: 184 LYVVEVKKTSKGASVLCSRTHPGLVKRLFELEVPEIYEGIVEIKSIAREAGSRTKIAVYS 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D S+D +GACVG +G RVQ +V EL++EKIDI+ WS   + ++ NAL PA V  V  DE
Sbjct: 244 NDESVDAMGACVGPKGVRVQNIVNELKNEKIDIIKWSSTPSEYIENALSPAKVISVEADE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +    +VIV   QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 304 ETKSAKVIVDDSQLSLAIGKEGQNVRLAAKLTGWKIDI 341


>gi|110803140|ref|YP_698976.1| transcription elongation factor NusA [Clostridium perfringens
           SM101]
 gi|110683641|gb|ABG87011.1| N utilization substance protein A [Clostridium perfringens SM101]
          Length = 366

 Score =  264 bits (674), Expect = 3e-68,   Method: Compositional matrix adjust.
 Identities = 143/338 (42%), Positives = 219/338 (64%), Gaps = 4/338 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG----TMSDIRVEINPETGDISLF 63
           E L     +  EK I  + +L  + D+I  A +  +     T  +++V+ + ++G+I ++
Sbjct: 4   EFLGALSEIVKEKGISVEALLETIDDAIIAAYKKNFSNSGTTAQNVKVKRDEKSGEIHVY 63

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
               VVEEV +   +ISL+ A+       +  +V   + P +FGRVA Q AKQ++IQ+++
Sbjct: 64  AQKVVVEEVYDDVTEISLEDAKAISAIYQLDDIVEIEVTPKNFGRVAAQLAKQMVIQRIK 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           E+ER+  Y EF +K  +I+ GTV R + GNV VDLG  +GV+  +E +  E     ++++
Sbjct: 124 ESERNVIYSEFAEKEFDILPGTVIRKDKGNVFVDLGKIEGVLGPNEQMPTEKYNFNEKLQ 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            Y+ +V++  +G  VL SRTHP  + +LF +EVPEIY GIV++K+++R+ GSR K+AV+S
Sbjct: 184 LYVVEVKKTSKGASVLCSRTHPGLVKRLFELEVPEIYEGIVEIKSIAREAGSRTKIAVYS 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D S+D +GACVG +G RVQ +V EL++EKIDI+ WS   + ++ NAL PA V  V  DE
Sbjct: 244 NDESVDAMGACVGPKGVRVQNIVNELKNEKIDIIKWSNTPSEYIENALSPAKVVSVEADE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +    +VIV   QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 304 ETKSAKVIVDDSQLSLAIGKEGQNVRLAAKLTGWKIDI 341


>gi|18310671|ref|NP_562605.1| transcription elongation factor NusA [Clostridium perfringens str.
           13]
 gi|110800366|ref|YP_696376.1| transcription elongation factor NusA [Clostridium perfringens ATCC
           13124]
 gi|168211423|ref|ZP_02637048.1| N utilization substance protein A [Clostridium perfringens B str.
           ATCC 3626]
 gi|168216976|ref|ZP_02642601.1| N utilization substance protein A [Clostridium perfringens NCTC
           8239]
 gi|169342667|ref|ZP_02863708.1| N utilization substance protein A [Clostridium perfringens C str.
           JGS1495]
 gi|18145352|dbj|BAB81395.1| probable transcriptional terminator [Clostridium perfringens str.
           13]
 gi|110675013|gb|ABG84000.1| N utilization substance protein A [Clostridium perfringens ATCC
           13124]
 gi|169299173|gb|EDS81243.1| N utilization substance protein A [Clostridium perfringens C str.
           JGS1495]
 gi|170710583|gb|EDT22765.1| N utilization substance protein A [Clostridium perfringens B str.
           ATCC 3626]
 gi|182380937|gb|EDT78416.1| N utilization substance protein A [Clostridium perfringens NCTC
           8239]
          Length = 366

 Score =  264 bits (674), Expect = 3e-68,   Method: Compositional matrix adjust.
 Identities = 143/338 (42%), Positives = 219/338 (64%), Gaps = 4/338 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG----TMSDIRVEINPETGDISLF 63
           E L     +  EK I  + +L  + D+I  A +  +     T  +++V+ + ++G+I ++
Sbjct: 4   EFLGALSEIVKEKGISVEALLETIDDAIIAAYKKNFSNSGTTAQNVKVKRDEKSGEIHVY 63

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
               VVEEV +   +ISL+ A+       +  +V   + P +FGRVA Q AKQ++IQ+++
Sbjct: 64  AQKVVVEEVYDDVTEISLEDAKAISAIYQLDDIVEIEVTPKNFGRVAAQLAKQMVIQRIK 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           E+ER+  Y EF +K  +I+ GTV R + GNV VDLG  +GV+  +E +  E     ++++
Sbjct: 124 ESERNVIYSEFAEKEFDILPGTVIRKDKGNVFVDLGKIEGVLGPNEQMPTEKYNFNEKLQ 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            Y+ +V++  +G  VL SRTHP  + +LF +EVPEIY GIV++K+++R+ GSR K+AV+S
Sbjct: 184 LYVVEVKKTSKGASVLCSRTHPGLVKRLFELEVPEIYEGIVEIKSIAREAGSRTKIAVYS 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D S+D +GACVG +G RVQ +V EL++EKIDI+ WS   + ++ NAL PA V  V  DE
Sbjct: 244 NDESVDAMGACVGPKGVRVQNIVNELKNEKIDIIKWSNTPSEYIENALSPAKVISVEADE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +    +VIV   QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 304 ETKSAKVIVDDSQLSLAIGKEGQNVRLAAKLTGWKIDI 341


>gi|304384867|ref|ZP_07367213.1| transcription termination factor NusA [Pediococcus acidilactici DSM
           20284]
 gi|304329061|gb|EFL96281.1| transcription termination factor NusA [Pediococcus acidilactici DSM
           20284]
          Length = 388

 Score =  263 bits (673), Expect = 5e-68,   Method: Compositional matrix adjust.
 Identities = 137/327 (41%), Positives = 205/327 (62%), Gaps = 1/327 (0%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I + VV+  +  ++  A +  YG   ++ VE N   GDI ++ + +VVEEVE+   Q
Sbjct: 15  EKGIKQSVVIEALEAALVSAYKRNYGQAQNVEVEFNERKGDIHVYAVKKVVEEVEDDQLQ 74

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           +SL  A   + + ++   +   + P +FGR+A Q+AKQVI+Q+VREAER+  Y ++   +
Sbjct: 75  VSLADALQINRAYELDDEIRFEVTPKNFGRIAAQTAKQVIMQRVREAEREVIYEKYSQYL 134

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
            E+++G V R +   V VDLG  + V+ + + I  E   P D +K Y+  V    RGPQ+
Sbjct: 135 DEMVTGEVARRDNRYVYVDLGGVEAVMSKQDQIPGEQYEPHDHIKVYVTKVEYSGRGPQI 194

Query: 199 LLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMR 258
            +SR+H   + +LF  E+PEIY+G V++ +V+R+ G RAK+AV S++  ID VG CVG R
Sbjct: 195 FVSRSHEGLLKRLFEQEIPEIYDGTVEIMSVAREAGDRAKVAVRSNNPDIDAVGTCVGPR 254

Query: 259 GSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD-EDVGRIEVIVPKEQL 317
           G R+Q +V EL  E +D++ W  D A F+ NAL PA V  V+ + E+     VIVP  QL
Sbjct: 255 GQRIQTIVNELHGENMDVIEWEDDDAEFISNALNPAEVIDVLFNEEEENSCIVIVPDYQL 314

Query: 318 SLAIGRRGQNVRLASQLTGWTIDIITE 344
           SLAIG+RGQN RLA++LT + IDI +E
Sbjct: 315 SLAIGKRGQNARLAAKLTNYKIDIKSE 341


>gi|332653588|ref|ZP_08419333.1| transcription termination factor NusA [Ruminococcaceae bacterium
           D16]
 gi|332518734|gb|EGJ48337.1| transcription termination factor NusA [Ruminococcaceae bacterium
           D16]
          Length = 392

 Score =  263 bits (672), Expect = 5e-68,   Method: Compositional matrix adjust.
 Identities = 147/350 (42%), Positives = 222/350 (63%), Gaps = 10/350 (2%)

Query: 2   VSANRLELLQIADAVAY---EKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPET 57
           V++N L+  +   A+A    EK I    ++  +  ++  A R  + G   ++ V+ NPET
Sbjct: 9   VNSNELDGQEFFAAIAQIEQEKGIKPGYMMEKITQALVSAYRRDHEGVGDNLIVDANPET 68

Query: 58  GDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQV 117
             + +F   +VVE V+N   +ISL+ A+   P  ++G VV   + P  FGR+A Q+A+QV
Sbjct: 69  NTVRMFLKKDVVEVVDNPNTEISLQEAKAALPRAELGDVVRIEVKPKSFGRIAAQTARQV 128

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL----GN--SDGVIRRDETI 171
           IIQ +REAE+   Y EF  K  E+++G V R++  N  V L    G+  +D  +  +E +
Sbjct: 129 IIQGIREAEQGMVYDEFSSKEHELLTGVVTRIDPRNGAVTLRISSGSEFTDAYLGANEQV 188

Query: 172 SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSR 231
             E+   G R+K Y+ +VR+  +GPQV++SRTHP  + +LF +EVPEIY+G V++++++R
Sbjct: 189 KGESYVEGQRLKVYMVEVRKATKGPQVIISRTHPGLVKRLFELEVPEIYDGTVEIRSIAR 248

Query: 232 DPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINAL 291
           + GSR KLAV+S+D ++DP+GACVG RG RV  +V EL+ EK+DI+ +S D A ++  AL
Sbjct: 249 EAGSRTKLAVWSADPNVDPIGACVGPRGQRVNTIVEELKGEKMDIIKYSDDPAEYIAAAL 308

Query: 292 RPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            PA V  V    D     V+VP +QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 309 SPADVVSVEPLPDGKSCRVVVPDDQLSLAIGKEGQNARLAAKLTGWKIDI 358


>gi|73748752|ref|YP_307991.1| transcription elongation factor NusA [Dehalococcoides sp. CBDB1]
 gi|147669518|ref|YP_001214336.1| transcription elongation factor NusA [Dehalococcoides sp. BAV1]
 gi|289432778|ref|YP_003462651.1| transcription termination factor NusA [Dehalococcoides sp. GT]
 gi|73660468|emb|CAI83075.1| N utilization substance protein A [Dehalococcoides sp. CBDB1]
 gi|146270466|gb|ABQ17458.1| NusA antitermination factor [Dehalococcoides sp. BAV1]
 gi|288946498|gb|ADC74195.1| transcription termination factor NusA [Dehalococcoides sp. GT]
          Length = 491

 Score =  263 bits (672), Expect = 5e-68,   Method: Compositional matrix adjust.
 Identities = 137/337 (40%), Positives = 216/337 (64%), Gaps = 1/337 (0%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARS-LYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           ++ EK++ ++VVL+ +  ++  A R   +    +I V+I+  TG + +    +VVE+V +
Sbjct: 12  LSAEKNLPKEVVLATVESALVSAYRKESFAPNQNITVKIDQLTGKVKVMAEKQVVEKVID 71

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              ++ L  A+       IG ++     P D GR+A Q+AKQVI+Q++ EAE    + E+
Sbjct: 72  SRQEMRLLEAKRLKADAKIGDLMMVEDTPADAGRIAAQTAKQVILQRLHEAENTAIFDEY 131

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
             K G+ + G V+R+E   + VD+G  + ++  +E    E  R G R+K Y+ DV +  +
Sbjct: 132 ASKAGDTLVGVVQRIEPKQITVDIGRVEAIMPANEQAYGERYRAGQRIKVYVVDVAKTAK 191

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           GP V++SR+HP  + +LF MEVPE++N +V++KAV+R+ GSR+K+AV +    IDPVG C
Sbjct: 192 GPSVIVSRSHPGLVRRLFEMEVPEVFNQLVEIKAVAREAGSRSKVAVGALQPGIDPVGCC 251

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPK 314
           VG+RG R+Q +V+EL  EKID+V WS + A+F+ N+L PA VTKV+L+E      V++P 
Sbjct: 252 VGLRGIRIQNIVSELNGEKIDVVAWSSEIASFIANSLSPAQVTKVILNEAERSAIVVIPD 311

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINR 351
            QLSL IG+ GQNVRLA +LTGW IDI +  ++ + R
Sbjct: 312 RQLSLGIGKEGQNVRLAVKLTGWRIDIKSASDEDVER 348


>gi|163815206|ref|ZP_02206583.1| hypothetical protein COPEUT_01364 [Coprococcus eutactus ATCC 27759]
 gi|158449401|gb|EDP26396.1| hypothetical protein COPEUT_01364 [Coprococcus eutactus ATCC 27759]
          Length = 398

 Score =  263 bits (671), Expect = 6e-68,   Method: Compositional matrix adjust.
 Identities = 137/335 (40%), Positives = 219/335 (65%), Gaps = 1/335 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+++  + +  E++I +DV+L  +  S++ A +  + T  +I V ++ ETG+  ++   E
Sbjct: 3   EIIEALNQLEKERNISKDVLLEAIERSLKTACKKDFNTDENITVSLDRETGECHVYAAKE 62

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EVEN + QISL  A+  +   +IG  V+  +   +FGR+A Q A+ VI+Q + E ER
Sbjct: 63  VVDEVENPSFQISLSQAKMLNRRYEIGDTVNVEITTKNFGRIAAQRARNVIVQAINENER 122

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
              Y  F  K  ++++G V+R    +V V L + ++ +++  E I  E    GDR+K Y+
Sbjct: 123 AAIYDHFHMKEKDVVTGIVERQVGDSVNVSLDDKTEALLKPSEMIEGETYERGDRIKLYV 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V++  +GP++++SRTHP+ + +LF  EV EI +G+V++K+  R+ GSR+K+AV+S+D 
Sbjct: 183 TEVKKTNKGPKIVVSRTHPELVKRLFEKEVTEIADGVVEIKSFCREAGSRSKIAVWSNDE 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           ++D VGACVG+ G RV AVV +L  EKIDI+ WS + A F+ NAL P+ V  V +D D  
Sbjct: 243 NVDAVGACVGVNGDRVNAVVADLNGEKIDIIPWSENPAEFIYNALSPSDVEDVSVDLDEK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
              V+VP  QLSLAIG++GQN RLA++LTG+ IDI
Sbjct: 303 SAFVVVPDTQLSLAIGKKGQNARLAAKLTGYKIDI 337


>gi|229829176|ref|ZP_04455245.1| hypothetical protein GCWU000342_01261 [Shuttleworthia satelles DSM
           14600]
 gi|229792339|gb|EEP28453.1| hypothetical protein GCWU000342_01261 [Shuttleworthia satelles DSM
           14600]
          Length = 406

 Score =  263 bits (671), Expect = 7e-68,   Method: Compositional matrix adjust.
 Identities = 136/340 (40%), Positives = 214/340 (62%), Gaps = 3/340 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG---TMSDIRVEINPETGDISLFR 64
           +LL+  DA+  E+ I ++ +L  +  S+  A +  Y      +++R  ++ ETGD  +F 
Sbjct: 5   DLLEALDALETERGISKEHILEAIEKSLVAACKVTYKFSDNATNLRAVVDRETGDFHVFV 64

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
              VV+EV N   ++SL+ A D D S+++G    + L   DF R+A  +AK ++ Q + E
Sbjct: 65  KKTVVDEVTNPQSEMSLEEAHDIDGSLNVGDTAEEELQSHDFSRIAASTAKNIMKQMILE 124

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
            ER     E+     +I++G V+R    N+ V+LG  D  +   E +  E+    DR++ 
Sbjct: 125 EERKILLDEYIKIEHDIVTGVVQRFIGRNISVNLGKVDAFLPESEQVKGEHYHQSDRIRV 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+ +V+   +GP++ +SRTHP+ + +LF  EV E+ +GIV++KA++R+ GSR K+AV+S+
Sbjct: 185 YVLEVKDAAKGPRIRVSRTHPELVKRLFEEEVTEVKDGIVEIKAIAREAGSRTKMAVWSN 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  +DP+GACVG+ GSRV A+V EL +EKIDI+ W+ + A  + NAL PA V  V+ DED
Sbjct: 245 DPDVDPLGACVGVNGSRVNAIVNELHNEKIDIINWNENPAMLIENALSPAKVIAVLADED 304

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
               +V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E
Sbjct: 305 AREAKVVVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSE 344


>gi|270290314|ref|ZP_06196539.1| transcription termination factor NusA [Pediococcus acidilactici
           7_4]
 gi|270281095|gb|EFA26928.1| transcription termination factor NusA [Pediococcus acidilactici
           7_4]
          Length = 388

 Score =  262 bits (670), Expect = 9e-68,   Method: Compositional matrix adjust.
 Identities = 137/327 (41%), Positives = 205/327 (62%), Gaps = 1/327 (0%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I + VV+  +  ++  A +  YG   ++ VE N   GDI ++ + +VVEEVE+   Q
Sbjct: 15  EKGIKQSVVIEALEAALVSAYKRNYGQAQNVEVEFNERKGDIHVYAVKKVVEEVEDDQLQ 74

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           +SL  A   + + ++   +   + P +FGR+A Q+AKQVI+Q+VREAER+  Y ++   +
Sbjct: 75  VSLADALQINRAYELDDEIRFEVTPKNFGRIAAQTAKQVIMQRVREAEREVIYEKYSQYL 134

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
            E+++G V R +   V VDLG  + V+ + + I  E   P D +K Y+  V    RGPQ+
Sbjct: 135 DEMVTGEVVRRDNRYVYVDLGGVEAVMSKQDQIPGEQYEPHDHIKVYVTKVEYSGRGPQI 194

Query: 199 LLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMR 258
            +SR+H   + +LF  E+PEIY+G V++ +V+R+ G RAK+AV S++  ID VG CVG R
Sbjct: 195 FVSRSHEGLLKRLFEQEIPEIYDGTVEIMSVAREAGDRAKVAVRSNNPDIDAVGTCVGPR 254

Query: 259 GSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD-EDVGRIEVIVPKEQL 317
           G R+Q +V EL  E +D++ W  D A F+ NAL PA V  V+ + E+     VIVP  QL
Sbjct: 255 GQRIQTIVNELHGENMDVIEWEDDDAEFISNALNPAEVIDVLFNEEEENSCIVIVPDYQL 314

Query: 318 SLAIGRRGQNVRLASQLTGWTIDIITE 344
           SLAIG+RGQN RLA++LT + IDI +E
Sbjct: 315 SLAIGKRGQNARLAAKLTNYKIDIKSE 341


>gi|313906214|ref|ZP_07839560.1| transcription termination factor NusA [Eubacterium cellulosolvens
           6]
 gi|313468944|gb|EFR64300.1| transcription termination factor NusA [Eubacterium cellulosolvens
           6]
          Length = 415

 Score =  262 bits (669), Expect = 1e-67,   Method: Compositional matrix adjust.
 Identities = 140/337 (41%), Positives = 212/337 (62%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK+I ++ +L  +  S+ +A ++ Y    ++ V I+P+T D  ++    
Sbjct: 4   ELLDALNILEKEKNISKETLLEAIQQSLLQAYKNQYDRSDNVVVSIDPDTCDFHIYAEKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE+   +I+   A   D +  IG  V   +   +FGR+A  +AK VI+QK+RE ER
Sbjct: 64  VVETVEDPVTEIAQIDAFKYDSTAQIGETVRVEIQSKNFGRIATTNAKNVILQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              + E+++K  E+++GTV+R    NV V+LG  D ++   E +  E  R  +RVK Y+ 
Sbjct: 124 RALFNEYREKEHEVMTGTVQRYVGQNVNVNLGKVDALLTAKEMVKGEKFRLTERVKIYVL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +VR   +GP++L+SRTHP+ + +LF  EV EI  GI+++K+++R+ GSR K+AV+S+D  
Sbjct: 184 EVRDTPKGPKILVSRTHPELVKRLFEEEVAEIREGIIEIKSIAREAGSRTKIAVWSNDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +D VGACVG+ GSRV A+V EL  EKID++ W  + A  + +AL PA V  V+ D D   
Sbjct: 244 VDAVGACVGVNGSRVNAIVDELDGEKIDVIEWDENEAVLIEHALSPAKVISVLADPDEKT 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             VIVP  QLSLAIG+ GQN RLA+ LT + IDI +E
Sbjct: 304 ALVIVPDYQLSLAIGKEGQNARLAAHLTQYKIDIKSE 340


>gi|302670327|ref|YP_003830287.1| transcription termination factor NusA [Butyrivibrio proteoclasticus
           B316]
 gi|302394800|gb|ADL33705.1| transcription termination factor NusA [Butyrivibrio proteoclasticus
           B316]
          Length = 384

 Score =  261 bits (668), Expect = 1e-67,   Method: Compositional matrix adjust.
 Identities = 134/342 (39%), Positives = 215/342 (62%), Gaps = 3/342 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+   D +  EK+I +D +   + +S+  A ++ +G   +IRVE++    D   +   E
Sbjct: 4   ELMDALDLLEKEKNISKDSLFDAIENSLITACKNNFGKADNIRVEVDRNNCDFKCYADKE 63

Query: 68  VVE---EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VVE   +V +   +ISL  A+       +G +V+  L   +FGR+A Q+AK VI+QK+RE
Sbjct: 64  VVETADDVMDPQIEISLDDAKKISKKAKVGDIVAVSLNSKEFGRIATQNAKNVILQKIRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
            ER   Y E+ +K  +I++G V+R    N+ ++LG +D ++  +E +  E  RP  R++ 
Sbjct: 124 EERGAIYNEYFEKEHDIVTGVVQRFIGKNISINLGRADAILNENEQVKGEVYRPTQRLRV 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+ +V+   +GP++L+SRTHP  + +LF  EV EI +G V++K+++R+ GSR K+AV+S+
Sbjct: 184 YVLEVKNGSKGPRILVSRTHPDLVKRLFEQEVAEIQDGTVEIKSIAREAGSRTKIAVYST 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           + ++D VGACVG+ G+RV  +V EL  EKID++ W  +    + NAL PA +  V  D D
Sbjct: 244 NPNVDAVGACVGVNGARVNLIVDELGGEKIDVINWDENPGNLIQNALSPAKIVAVFADPD 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               +V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E +
Sbjct: 304 EKSAKVVVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSETQ 345


>gi|170017453|ref|YP_001728372.1| transcription elongation factor [Leuconostoc citreum KM20]
 gi|169804310|gb|ACA82928.1| Transcription elongation factor [Leuconostoc citreum KM20]
          Length = 363

 Score =  261 bits (668), Expect = 1e-67,   Method: Compositional matrix adjust.
 Identities = 140/343 (40%), Positives = 218/343 (63%), Gaps = 4/343 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+   DA+  E+ I+R +V+  + D+++ A +  Y    ++    + + G++++ ++  
Sbjct: 4   ELVDALDALEAERGIERAIVIEALEDALKAAYKKQYNAEQNVEAVFDTKKGNVAIKQVKH 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV  E+ EN   +ISL+ A   + + + G  +   + P DFGR+A Q+AKQVI+QK+REA
Sbjct: 64  VVLDEDFENEDTEISLEDALAINRAYEPGDEIRFDVTPKDFGRMAAQAAKQVIMQKIREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRVKS 184
            R+  Y +F D   EII+G V R +   + + L GN +  +  ++ +  E+ R GDR+K 
Sbjct: 124 GREAIYNKFADYQDEIITGEVDRQDSRFLYMTLPGNQEAAMAPNDQMPNEHYRMGDRIKV 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V    +GPQ+ +SRT P  + +LF  EVPE+Y+G V++ ++SR+ G R+K+AV++ 
Sbjct: 184 LVNKVENNAKGPQIFVSRTAPDLVKRLFEQEVPEVYDGTVEIMSISREAGDRSKIAVYTH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  +DPVGA VG RG RVQ+VV EL  E +DIV W  D A ++ NAL P+ VT V+ D +
Sbjct: 244 DPDLDPVGAMVGQRGGRVQSVVNELGGENMDIVEWVEDEAQYIANALNPSEVTDVIFDSE 303

Query: 305 VGR-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             R + VIVP  QLSLAIG++GQN RLA++LTG+ IDI +E E
Sbjct: 304 NERAVTVIVPDNQLSLAIGKKGQNARLAARLTGFKIDIKSETE 346


>gi|46446396|ref|YP_007761.1| transcription elongation factor NusA [Candidatus Protochlamydia
           amoebophila UWE25]
 gi|46400037|emb|CAF23486.1| putative transcription termination-antitermination factor nusA
           [Candidatus Protochlamydia amoebophila UWE25]
          Length = 424

 Score =  261 bits (668), Expect = 1e-67,   Method: Compositional matrix adjust.
 Identities = 154/426 (36%), Positives = 251/426 (58%), Gaps = 26/426 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L+ I + +  EK I R++V+S + +S+Q AAR      S++ V I+P+TG+I ++   E
Sbjct: 4   DLIAIFEYLEREKGIKRELVISAIEESLQAAARKSVSGASNVTVTIHPKTGNIDVYCEKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +V++VE  + +ISL  AR+ DP  +IG  +   + P DFGR+A Q A+Q+I QK+R AER
Sbjct: 64  IVDDVEVPSQEISLLAAREIDPDAEIGQFIDIVVTPKDFGRIAAQKARQIITQKLRGAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           D  Y E++ ++ E+ISGT+KR   G N+I+DLG  + ++   E    E  + G++V + +
Sbjct: 124 DVIYEEYRHRINELISGTIKRFVRGSNLIIDLGKVEAILPTREYPKTEKYQVGEKVLALV 183

Query: 187 YDVR-REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
            +V+  E  G +V+LSR+HP+F+ +L   EVPE+ +G + +  + RD G R KL V S+D
Sbjct: 184 LEVKDTENGGAEVILSRSHPEFVKQLLVQEVPEVSDGTIIIDKIVRDAGYRTKLTVRSTD 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVGMRG+RV+ +V EL +EKIDI+ +S D    + NAL P  + K+ L+E+ 
Sbjct: 244 LKVDPVGACVGMRGNRVKNIVRELHNEKIDIIPFSNDPIELLQNALSPIEIRKINLNEED 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN-----ERTQ 360
           G I ++V  +  +  IG++G N RL S+L G+ ++        + R  D+N     ER +
Sbjct: 304 GIISIVVEDDDFAAVIGKKGMNARLNSRLIGYDLE--------VQRMTDYNRAMAIERNE 355

Query: 361 F-----------FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEI 409
                        +    ++ +I   LV  G+  ++ L      E+A+I G   E A +I
Sbjct: 356 LAATDDPTLDQPLVGIEGINSLIFDHLVDAGYHTLKSLLTATPKELAAIPGISLEMADKI 415

Query: 410 QGRARE 415
             + R+
Sbjct: 416 LEQIRK 421


>gi|182626384|ref|ZP_02954138.1| N utilization substance protein A [Clostridium perfringens D str.
           JGS1721]
 gi|177908335|gb|EDT70883.1| N utilization substance protein A [Clostridium perfringens D str.
           JGS1721]
          Length = 366

 Score =  261 bits (668), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 142/338 (42%), Positives = 218/338 (64%), Gaps = 4/338 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG----TMSDIRVEINPETGDISLF 63
           E L     +  EK I  + +L  + D+I  A +  +     T  +++V+ + ++G+I ++
Sbjct: 4   EFLGALSEIVKEKGISVEALLETIDDAIIAAYKKNFSNSGTTAQNVKVKRDEKSGEIHVY 63

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
               VVEEV +   +ISL+ A+       +  +V   + P +FGRVA Q AKQ++IQ+++
Sbjct: 64  AQKVVVEEVYDDVTEISLEDAKAISAIYQLDDIVEIEVTPKNFGRVAAQLAKQMVIQRIK 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           E+ER+  Y EF +K  +I+  TV R + GNV VDLG  +GV+  +E +  E     ++++
Sbjct: 124 ESERNVIYSEFAEKEFDILPSTVIRKDKGNVFVDLGKIEGVLGPNEQMPTEKYNFNEKLQ 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            Y+ +V++  +G  VL SRTHP  + +LF +EVPEIY GIV++K+++R+ GSR K+AV+S
Sbjct: 184 LYVVEVKKTSKGASVLCSRTHPGLVKRLFELEVPEIYEGIVEIKSIAREAGSRTKIAVYS 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D S+D +GACVG +G RVQ +V EL++EKIDI+ WS   + ++ NAL PA V  V  DE
Sbjct: 244 NDESVDAMGACVGPKGVRVQNIVNELKNEKIDIIKWSNTPSEYIENALSPAKVISVEADE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +    +VIV   QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 304 ETKSAKVIVDDSQLSLAIGKEGQNVRLAAKLTGWKIDI 341


>gi|332298598|ref|YP_004440520.1| NusA antitermination factor [Treponema brennaborense DSM 12168]
 gi|332181701|gb|AEE17389.1| NusA antitermination factor [Treponema brennaborense DSM 12168]
          Length = 483

 Score =  261 bits (668), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 155/429 (36%), Positives = 244/429 (56%), Gaps = 18/429 (4%)

Query: 11  QIADAV---AYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           Q+ADA+     +K I  D +L  + ++++ A +  +GT  +  V+ + +  D++++    
Sbjct: 4   QMADAIRQLTQDKGISEDAILQTIENTLKAAYKRKFGTSDNAVVKFSDDLSDVAIYSRKV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +V+ V +   +I L  A +  P  ++G  +   + P +F R AVQ+ KQ   Q + E ++
Sbjct: 64  IVDGVYDPVTEIELDEALELSPECEVGDEIDILVDPKEFDRSAVQTGKQTAHQSLSEIQK 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           D  + E+KDKVGEII G  +R   G++ VDLG  +GV+       RE     DR+K+ I 
Sbjct: 124 DSLFAEYKDKVGEIIIGYYQRERNGSIYVDLGKIEGVLPAKNQSPRETYHKNDRIKALIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           DV++   G Q++LSRT P F+  +  +EVPEIY+  V++  + R+PG R K+AVFS    
Sbjct: 184 DVKKTNSGLQLVLSRTDPDFVRAVVELEVPEIYDKTVEIHKIVREPGYRTKIAVFSHRED 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA-IVTKVVLDEDVG 306
           IDPVGACVG++G R+QAV+ EL  EKIDI+ + PD   F+ NAL PA ++  V+LDE   
Sbjct: 244 IDPVGACVGLKGVRIQAVIRELEGEKIDILKYDPDPREFIKNALSPAEVLDVVILDESKR 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT----EEEDSINRQ---------K 353
           +   +VP+EQ SLAIG++G NVRLA++L  W+ID+ T    EE DS+  +          
Sbjct: 304 QALAVVPEEQFSLAIGKQGLNVRLANRLADWSIDVKTEAQYEEFDSVVAESRKAVEQLFS 363

Query: 354 DFNERTQFFMQAINVDEIIAHLLVAEGFADVEE-LACVKISEIASIEGFDEETAVEIQGR 412
           D  E      +   VDE +A +L   G  D+E+ +  V+   I  IEG  +     +Q  
Sbjct: 364 DIPETIASVAELPGVDEQVAAVLKENGIEDIEQFMQSVESGAIRQIEGLSDTDITAVQSL 423

Query: 413 AREYLEGID 421
             + +E ++
Sbjct: 424 INDTVEFVE 432


>gi|91200793|emb|CAJ73846.1| strongly similar to transcription elongation protein NusA
           [Candidatus Kuenenia stuttgartiensis]
          Length = 357

 Score =  261 bits (667), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 140/338 (41%), Positives = 214/338 (63%), Gaps = 32/338 (9%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           LL++ D++  +K I ++VV   +  ++  AA+  + +   + ++I+ +TG+I        
Sbjct: 6   LLRLVDSLHRDKEIAKEVVFQGIEAALITAAKKHFRSQEAVSIQIDRKTGEI-------- 57

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                         VA + D  ID          P + GR+  Q+AKQVIIQK+REAERD
Sbjct: 58  --------------VAMEGDRKID----------PSELGRITAQTAKQVIIQKIREAERD 93

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
             + +F  + G I+SG V+R E   +IV+LG ++GV+++ E  + E+   G+RV++ I D
Sbjct: 94  VIFEDFCKRKGVIVSGKVQRFEGATMIVNLGKTEGVLQKSEQTANEHYTIGERVRAVILD 153

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V++     ++ LSRTHP F+ KLF +EVPEI    +++KA++R+ G R+K+AV SSD ++
Sbjct: 154 VKKVGTRVKITLSRTHPDFVRKLFELEVPEIAENTIEIKALAREAGQRSKIAVASSDENV 213

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI 308
           D VGACVGMRGSR++ +V EL  EKIDI+ WS +    + NAL+PA V+ ++L  +    
Sbjct: 214 DCVGACVGMRGSRIKNIVDELNGEKIDIIRWSEEPELLLPNALKPAEVSGIILSPENRTA 273

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            ++VP +QLSLAIG+RGQNVRLAS+LT W IDIIT+ E
Sbjct: 274 TIVVPNDQLSLAIGKRGQNVRLASRLTEWNIDIITDAE 311


>gi|298694558|gb|ADI97780.1| N utilization substance protein A, putative [Staphylococcus aureus
           subsp. aureus ED133]
          Length = 340

 Score =  260 bits (665), Expect = 4e-67,   Method: Compositional matrix adjust.
 Identities = 133/289 (46%), Positives = 196/289 (67%), Gaps = 3/289 (1%)

Query: 59  DISLFRLL---EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAK 115
           D   F+++   +VVEEV +   ++ L  A  ++P+ +IG +  + + P DFGRV  Q+AK
Sbjct: 2   DQGTFKVIARKDVVEEVFDDRDEVDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAK 61

Query: 116 QVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISREN 175
           Q ++Q++R+AER+  + EF DK  +I++G + RV++  V V+LG  + V+   E    E 
Sbjct: 62  QAVMQRLRDAEREILFEEFIDKEEDILTGIIDRVDHRYVYVNLGRIEAVLSEAERSPNEK 121

Query: 176 LRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
             P +R+K Y+  V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G 
Sbjct: 122 YIPNERIKVYVNKVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGD 181

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           R+K++VFS ++ ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ 
Sbjct: 182 RSKISVFSENNDIDAVGACVGAKGARVEAVVEELGGEKIDIVQWNEDPKVFVKNALSPSQ 241

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           V +V++DE      V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 242 VLEVIVDETNQSTVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 290


>gi|307565711|ref|ZP_07628180.1| transcription termination factor NusA [Prevotella amnii CRIS 21A-A]
 gi|307345537|gb|EFN90905.1| transcription termination factor NusA [Prevotella amnii CRIS 21A-A]
          Length = 421

 Score =  260 bits (664), Expect = 4e-67,   Method: Compositional matrix adjust.
 Identities = 141/355 (39%), Positives = 223/355 (62%), Gaps = 8/355 (2%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           KSIDR  ++SV+ +S +     ++G+  +  V +NP+ GD  ++R   VV  +E+EN   
Sbjct: 24  KSIDRTTLVSVLEESFRNVLAKIFGSDENFDVIVNPDKGDFEIYRNRVVVADDELENENK 83

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QISL  AR  +P  ++G  VS+ +    FGR A+ + +Q +  K+ E E D  Y ++K++
Sbjct: 84  QISLTDARKLEPDFEVGEDVSEKIDFNKFGRRAILNLRQTLASKILELEHDSLYNKYKNR 143

Query: 138 VGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG+I+SG V +     V+ VD  N++ ++ + E I R+N R G+ +++ I+ V  +   P
Sbjct: 144 VGQIVSGEVYQTWKREVLLVDEDNNEMILPKGEQIPRDNYRKGETIRAVIHRVTNDNNNP 203

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +++LSRT P+F+ +L   EVPEI +G++ +K V+R PG RAK+AV S D  IDPVGACVG
Sbjct: 204 KIILSRTAPEFLERLLEAEVPEINDGLIAIKKVARMPGERAKIAVESYDERIDPVGACVG 263

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           +RGSRV  +V EL +E ID++ W+ ++  F+  AL PA V+ + +DE+  + EV +  E+
Sbjct: 264 VRGSRVHGIVRELCNENIDVITWTANTKLFIQRALAPAKVSSLTIDEETKKAEVYLQPEE 323

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDII-----TEEEDSINRQKDFNERTQFFMQAI 366
           +SLAIGR G N++LAS LT +TID+       E ED I   +  +E  Q+ + AI
Sbjct: 324 VSLAIGRNGLNIKLASMLTDYTIDVFRELDENETEDDIYLDEFADEIDQWVIDAI 378


>gi|326692688|ref|ZP_08229693.1| transcription elongation factor NusA [Leuconostoc argentinum KCTC
           3773]
          Length = 365

 Score =  260 bits (664), Expect = 5e-67,   Method: Compositional matrix adjust.
 Identities = 141/343 (41%), Positives = 218/343 (63%), Gaps = 4/343 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+   DA+  E+ I+R VV+  + D+++ A +  Y    ++    + + G++++ ++  
Sbjct: 4   ELVDALDALEAERGIERAVVIEALEDALRAAYKKQYNAEQNVEAVFDTKKGNVAIKQVKV 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV  E+ EN   +I L+ A   + + + G  +   + P DFGR+A Q+AKQVI+QK+REA
Sbjct: 64  VVLDEDFENEDTEIPLEDALAINRAYEPGDEIRFDVTPKDFGRMAAQAAKQVIVQKMREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRVKS 184
            R+  Y +F D   EII+G V R +   + + L GN +  +   + +  E+ R GDR+K 
Sbjct: 124 SREAIYNKFADYQDEIITGEVDRQDTRFLYLTLPGNQEAAMAPADQMPNEHYRMGDRIKV 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V    +GPQ+ +SRT P  + +LF  EVPE+Y+G V++ ++SR+ G R+K+AV++ 
Sbjct: 184 LVNKVENNAKGPQIFVSRTAPDLVKRLFEQEVPEVYDGTVEIMSISREAGDRSKIAVYTH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D+ +DPVGA VG RG+RVQAVV EL  E +DIV W  D A ++ NAL P+ VT V+ D +
Sbjct: 244 DADLDPVGAMVGQRGARVQAVVNELGGENMDIVEWVEDEAQYIANALNPSEVTDVIFDPE 303

Query: 305 VGR-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             R + VIVP  QLSLAIG++GQN RLA++LTG+ IDI +E E
Sbjct: 304 NDRAVTVIVPDNQLSLAIGKKGQNARLAARLTGFKIDIKSESE 346


>gi|296111951|ref|YP_003622333.1| transcription elongation factor NusA [Leuconostoc kimchii IMSNU
           11154]
 gi|295833483|gb|ADG41364.1| transcription elongation factor NusA [Leuconostoc kimchii IMSNU
           11154]
          Length = 363

 Score =  260 bits (664), Expect = 5e-67,   Method: Compositional matrix adjust.
 Identities = 140/343 (40%), Positives = 217/343 (63%), Gaps = 4/343 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+   DA+  E+ I+R VV+  + D+++ A +  Y    ++    + + G++++ ++  
Sbjct: 4   ELVDALDALEAERGIERTVVIEALEDALRAAYKKQYNAEQNVEAVFDTKKGNVAIKQVKS 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV  E+ EN   +I+L+ A   + + + G  +   + P DFGR+A Q+AKQVI+QK+REA
Sbjct: 64  VVLDEDFENEDTEIALQDALAINRAYEPGDEIRFDVTPKDFGRMAAQAAKQVIVQKMREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRVKS 184
            R+  Y +F D   EII+G V R +   + + L GN +  +  ++ +  E+ R GDR+K 
Sbjct: 124 GREAIYNKFADYQDEIITGEVDRQDARFLYLTLPGNQEAAMAPNDQMPNEHYRMGDRIKV 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V    +GPQ+ +SRT P  + +LF  EVPE+Y+G V++  +SR+ G R+K+AV++ 
Sbjct: 184 LVNKVENNAKGPQIFVSRTAPDLVKRLFEQEVPEVYDGTVEIMNISREAGDRSKIAVYTH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D+ +DPVGA VG RG RVQAVV EL  E +DIV W  D A ++ NAL P+ V  V+ D +
Sbjct: 244 DTDLDPVGAMVGQRGGRVQAVVNELGGENMDIVEWVEDEAQYIANALNPSEVADVIFDPE 303

Query: 305 VGR-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             R + VIVP  QLSLAIG++GQN RLA++LTG+ IDI +E E
Sbjct: 304 NERAVTVIVPDNQLSLAIGKKGQNARLAARLTGFKIDIKSESE 346


>gi|269792606|ref|YP_003317510.1| NusA antitermination factor [Thermanaerovibrio acidaminovorans DSM
           6589]
 gi|269100241|gb|ACZ19228.1| NusA antitermination factor [Thermanaerovibrio acidaminovorans DSM
           6589]
          Length = 369

 Score =  259 bits (663), Expect = 5e-67,   Method: Compositional matrix adjust.
 Identities = 145/343 (42%), Positives = 227/343 (66%), Gaps = 5/343 (1%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK +  DV+ S +  ++  A R   G   ++ V I+ E G+I L  + +VV EV     +
Sbjct: 17  EKGLSLDVISSSLEAALVSAYRKFKGGNQNVEVFIDFENGEIFLSEVKQVVREVTCPDTE 76

Query: 79  ISLKVA-RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           IS++ A R     ++ G V+   + P +FGR+A Q+A+QVIIQ++++AER   + EF D+
Sbjct: 77  ISVEEAHRMGFGDVEEGDVIRIEVFPENFGRIAAQTARQVIIQRLKDAERQIIFEEFADR 136

Query: 138 VGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
            G+++ GT+ +VE   ++V L + ++ ++ R+E +  E  R GDR K ++ DVR+  +GP
Sbjct: 137 TGDLVQGTIFKVEGDQILVRLNDRTEAILPREERVLGEAYRVGDRYKFFLLDVRQTTKGP 196

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           ++++SRTHP  + KLF +EVPEI +GI+++K V R+ G R+K+AV S DS++DPVGACVG
Sbjct: 197 RIVVSRTHPGLLRKLFELEVPEIRDGIIEIKNVVREAGGRSKVAVQSLDSNVDPVGACVG 256

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV--VLDEDVGRIEVIVPK 314
            +G+R+++V+ EL  E++D++VWS D   +V NAL PA V KV  +LD++   + V V  
Sbjct: 257 PKGTRIKSVMDELGGERVDVIVWSSDPIAYVKNALSPAKVVKVEPLLDQERA-LRVFVRP 315

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +QLSLAIG+ GQNVRLA++LTGW IDI   E + +   KD  E
Sbjct: 316 DQLSLAIGKAGQNVRLAARLTGWKIDIKVLEPERLPTLKDLFE 358


>gi|331701346|ref|YP_004398305.1| NusA antitermination factor [Lactobacillus buchneri NRRL B-30929]
 gi|329128689|gb|AEB73242.1| NusA antitermination factor [Lactobacillus buchneri NRRL B-30929]
          Length = 398

 Score =  259 bits (663), Expect = 6e-67,   Method: Compositional matrix adjust.
 Identities = 141/340 (41%), Positives = 216/340 (63%), Gaps = 1/340 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL    A+  EK I ++VV+  +  ++  A +  YG   ++ V  + + G++ ++ +  
Sbjct: 4   ELLGALSALEEEKGIKKEVVIEALEAALVSAYKRNYGQAQNVEVSFDDKKGEMHVYAVKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV++V +   Q+SL  A + +   ++G  +   + P +FGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VVDDVVDDQLQVSLDEALEINKGYELGDEIKFEVTPKNFGRIAAQTAKQVIMQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + E+     E+++GTV+R +   V V+LG  + V+   + +  E  RP DR+K Y+ 
Sbjct: 124 ENVFDEYSKYEDELVTGTVERQDTRFVYVNLGKVEAVMGSKDQMPNEVYRPQDRIKVYVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQV +SRT    + +LF  EVPEIY+G V++ +++R+ G RAK+AV S++S 
Sbjct: 184 KVENATKGPQVFVSRTATGMLKRLFEQEVPEIYDGTVEIVSIAREAGDRAKVAVRSNNSD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVG  VG RG RVQ +V EL  E +DIV W  D A+++ N+L PA V  V+ D+D  R
Sbjct: 244 IDPVGTAVGPRGQRVQTIVNELHGENMDIVEWDEDDASYIANSLNPAEVIDVIFDDDNER 303

Query: 308 -IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
              VIVP  QLSLAIG++GQN RLA++LTG+ IDI +E E
Sbjct: 304 ACTVIVPDYQLSLAIGKKGQNARLAAKLTGFKIDIKSETE 343


>gi|57234284|ref|YP_181708.1| transcription elongation factor NusA [Dehalococcoides ethenogenes
           195]
 gi|57224732|gb|AAW39789.1| N utilization substance protein A [Dehalococcoides ethenogenes 195]
          Length = 491

 Score =  259 bits (662), Expect = 7e-67,   Method: Compositional matrix adjust.
 Identities = 136/340 (40%), Positives = 214/340 (62%), Gaps = 1/340 (0%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARS-LYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           ++ EK++ ++VVL+ +  ++  A R   +    +I V+I+  TG + +     VVE+V +
Sbjct: 12  LSAEKNLPKEVVLATVESALVSAYRKESFAPNQNIAVKIDQLTGKVKVMAEKLVVEKVTD 71

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              ++ L  A+       IG ++     P D GR+A Q+AKQVI+Q++ EAE    + E+
Sbjct: 72  SRQEMRLLEAKRLKADAKIGDLMMVEDTPADAGRIAAQTAKQVILQRLHEAENTAIFDEY 131

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
             K G+ + G V+R+E   + VD+G  + ++   E    E  R G R+K Y+ DV +  +
Sbjct: 132 ASKAGDTLVGVVQRIEPKQITVDIGRVEAIMPASEQAYGERYRAGQRIKVYVVDVAKTAK 191

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           GP V++SR+HP  + +LF MEVPE++N +V++KAV+R+ GSR+K+AV +    IDPVG C
Sbjct: 192 GPAVIVSRSHPGLVRRLFEMEVPEVFNQLVEIKAVAREAGSRSKVAVGALQPGIDPVGCC 251

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPK 314
           VG+RG R+Q +V+EL  EKID+V W  + A F+ N+L PA VTKV+L+E      V++P 
Sbjct: 252 VGLRGIRIQNIVSELNGEKIDVVAWDSEIANFIANSLSPAQVTKVILNEAEKSAIVVIPD 311

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
            QLSL IG+ GQNVRLA +LTGW IDI +  ++ + R ++
Sbjct: 312 RQLSLGIGKEGQNVRLAVKLTGWRIDIKSASDEEVERAEE 351


>gi|306820436|ref|ZP_07454072.1| transcription termination factor NusA [Eubacterium yurii subsp.
           margaretiae ATCC 43715]
 gi|304551511|gb|EFM39466.1| transcription termination factor NusA [Eubacterium yurii subsp.
           margaretiae ATCC 43715]
          Length = 359

 Score =  259 bits (661), Expect = 9e-67,   Method: Compositional matrix adjust.
 Identities = 136/358 (37%), Positives = 219/358 (61%), Gaps = 26/358 (7%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E ++  D +  +K I ++++L  +  +I  A +  YG+ +++ V I+ + GDI +   + 
Sbjct: 4   EFIRALDQLEKQKGIKKEILLDAINQAILNAYKKNYGSNAEVEVSIDTKKGDIKIINPIT 63

Query: 68  VVEE-----VEN-----YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQV 117
           +V++     ++N     Y  Q   K  ++       G +V + + P DFGR+A Q+A+Q+
Sbjct: 64  IVDDDKVDILDNEMTVEYANQFFGKQYKE-------GDIVREEVTPKDFGRIATQAARQI 116

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG---------NSDGVIRRD 168
           ++QK++EAE+D QY EFK K  EII+G V R+    V  D+          N++GV+   
Sbjct: 117 VVQKIKEAEKDIQYTEFKKKETEIITGMVSRISKSTVYADISILGENDIMINAEGVLPNG 176

Query: 169 ETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKA 228
           E +S +N   G  +K YI +V+R     Q++LSR+HP  + +LF MEVPEI++G V++ +
Sbjct: 177 EQMSGDNYELGQNMKFYILEVKRTNNKTQIVLSRSHPGLVKRLFEMEVPEIFDGTVEIIS 236

Query: 229 VSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVI 288
           +SR+ GSR K+AV ++   +DP+GACVG RG RV+ +  E+  EKIDI+ ++ D A ++ 
Sbjct: 237 ISREAGSRTKMAVKTNMQDVDPIGACVGTRGQRVKNITDEINGEKIDIIEYNDDLAEYIT 296

Query: 289 NALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            +L PA V  V +DE+    +VIVP ++LSLAIG+ GQN RLA++LT W IDI  E E
Sbjct: 297 ASLSPAKVVSVEIDEEEKIAKVIVPDDKLSLAIGKEGQNARLAAKLTNWKIDIKCESE 354


>gi|168704029|ref|ZP_02736306.1| transcription elongation factor NusA [Gemmata obscuriglobus UQM
           2246]
          Length = 497

 Score =  258 bits (660), Expect = 1e-66,   Method: Compositional matrix adjust.
 Identities = 156/424 (36%), Positives = 242/424 (57%), Gaps = 40/424 (9%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +L++ D +  E+ I +DV+   ++ +IQ AA   +     + V I+  TG I        
Sbjct: 13  ILELVDKLHEERKIAKDVIFKGISSAIQVAAERHFQVEEGVFVSIDEATGHI-------- 64

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                         VA+  D  +D          P+  GR+A QSAKQ+IIQK+REAE D
Sbjct: 65  --------------VAKYGDQELD----------PITLGRIAAQSAKQMIIQKIREAESD 100

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
             + EF  K  E++ GTV RV+ G  IV LG S+ ++ R E I  E    G+RVK+ I +
Sbjct: 101 TVFTEFTGKKYELLVGTVTRVDAGTAIVSLGKSEALLPRSEQIPGETHHVGERVKAIIME 160

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           VR++    +++LSR HP+F+  LF  E+PEI   I+ ++AV+R+ G R+K+AV S D  +
Sbjct: 161 VRKQGNRVKIVLSRAHPEFVKALFEEEIPEIDERIIDIRAVAREAGYRSKVAVTSIDMKV 220

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI 308
           D VGACVG+RGSR++ V+ EL  E+IDIV W+      + NAL+PA ++ V     +GR 
Sbjct: 221 DAVGACVGVRGSRIKNVIEELNGERIDIVRWNDALQVLIPNALQPAQISDVFTYPKLGRA 280

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE--DSINRQKDFNERTQFFMQAI 366
            V+V  +QLSLAIGRRGQNVRLAS+L GW I+I+T +E  +++ R +      ++F Q  
Sbjct: 281 IVLVTDDQLSLAIGRRGQNVRLASKLVGWDIEIMTHDELAEALERAE------RWFGQLP 334

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           +    + + L+ EGF    ++       +A   G  +E A E+   A EY + ++ ++++
Sbjct: 335 HASPELTNALIEEGFLSYNDITMTDDEGLAEFTGLTQEAADEVVMYAEEYADVMERSVEE 394

Query: 427 KIRE 430
           + R+
Sbjct: 395 ERRQ 398


>gi|256847048|ref|ZP_05552494.1| transcription termination factor NusA [Lactobacillus coleohominis
           101-4-CHN]
 gi|256715712|gb|EEU30687.1| transcription termination factor NusA [Lactobacillus coleohominis
           101-4-CHN]
          Length = 385

 Score =  258 bits (660), Expect = 1e-66,   Method: Compositional matrix adjust.
 Identities = 144/358 (40%), Positives = 215/358 (60%), Gaps = 22/358 (6%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFR 64
           + ELL   D +  EK I +DV+++ + D++  A +  Y    +++ V+I+ +TGD  +F 
Sbjct: 7   KAELLGAMDVLEKEKGIKKDVIVNALTDALANAYQKNYDDNNANVEVKIDEQTGDFKVFA 66

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
             +VV+EV N   QISL+ A       +IG    + + P DFGR+A Q+AK V++Q++RE
Sbjct: 67  TKKVVDEVTNPIEQISLRDAMHVSHGYEIGDDFKEEVTPNDFGRIAAQTAKSVVLQQLRE 126

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRVK 183
            ER   Y ++     +++ G V R +   + ++L G  +  + + + +  E+ R  D V+
Sbjct: 127 EERRIVYEKYNKLKDDLVDGEVAREDSRFIYINLTGGVEAAMNKHDQMPNEHYRTHDHVQ 186

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            Y+  V ++ +GPQV +SRT P  + +LF  EVPEI  GIV++K + R+ G RAK+AVFS
Sbjct: 187 VYVTRVLKDTKGPQVFVSRTAPDLLKRLFEKEVPEISQGIVEIKGIVREAGDRAKVAVFS 246

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            DS++D VG CVG RG+RVQ +V +L  E IDIV +  +   F+ NAL PA V  V+ DE
Sbjct: 247 RDSNVDAVGTCVGPRGARVQTIVNQLGGENIDIVKFEEEPEDFIRNALNPAEVKAVIFDE 306

Query: 304 DVGRIE--------------------VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           + G IE                    VIVP +QLSLAIG+RGQNVRLA+QLTG+ IDI
Sbjct: 307 NNGEIEENQPKVDGEESEPRVHRGCTVIVPDDQLSLAIGKRGQNVRLAAQLTGYKIDI 364


>gi|300173097|ref|YP_003772263.1| N utilization substance protein A [Leuconostoc gasicomitatum LMG
           18811]
 gi|299887476|emb|CBL91444.1| N utilization substance protein A [Leuconostoc gasicomitatum LMG
           18811]
          Length = 363

 Score =  258 bits (660), Expect = 1e-66,   Method: Compositional matrix adjust.
 Identities = 140/351 (39%), Positives = 224/351 (63%), Gaps = 6/351 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+   DA+  E+ I+R++V++ + D+++ A +  Y    ++    + + G++++ ++  
Sbjct: 4   ELVDALDALEAERGIEREIVVAALEDALRAAYKKQYNAEQNVEAVFDTKKGNVAIKQVKN 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV  ++ EN   +ISL  A   + + + G  +   + P DFGR+A Q+AKQVI+QK+REA
Sbjct: 64  VVLDDDFENEDTEISLTDALVINRAYEAGDEIRFDVTPKDFGRMAAQAAKQVIVQKMREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRVKS 184
            R+  Y +F D   EII+G V R +   + + L GN +  +  ++ +  E  R GDR+K 
Sbjct: 124 GREAIYNKFADYQDEIITGEVDRQDARFLYMTLPGNQEAAMAPNDQMPNERYRMGDRIKV 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V    +GPQ+ +SRT P  + +LF  EVPE+Y+G V++  +SR+ G R+K+AV++ 
Sbjct: 184 LVNKVENNAKGPQIFVSRTAPDLVKRLFEQEVPEVYDGTVEIMNISREAGDRSKIAVYTH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D+ +DPVGA VG RG+RVQAVV EL  E +DIV W  D A ++ NAL P+ V  V+ + +
Sbjct: 244 DTDLDPVGAMVGQRGARVQAVVNELGGENMDIVEWVEDEAQYIANALNPSEVADVIFNPE 303

Query: 305 VGR-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE--DSINRQ 352
             R + VIVP  QLSLAIG++GQN RLA++LTG+ IDI +E E  +S+++Q
Sbjct: 304 NERAVTVIVPDNQLSLAIGKKGQNARLAARLTGFKIDIKSESEAANSLSKQ 354


>gi|302338537|ref|YP_003803743.1| transcription termination factor NusA [Spirochaeta smaragdinae DSM
           11293]
 gi|301635722|gb|ADK81149.1| transcription termination factor NusA [Spirochaeta smaragdinae DSM
           11293]
          Length = 496

 Score =  258 bits (660), Expect = 1e-66,   Method: Compositional matrix adjust.
 Identities = 138/333 (41%), Positives = 211/333 (63%), Gaps = 1/333 (0%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           ++  ++ I  ++V   + D +  A +  +GT  +  V  + +  ++++F   E+VE VE+
Sbjct: 11  SLVQDRGISEELVRKTIEDFLLAAYKRKFGTTENAVVRFSEDGNEVAIFAAKEIVENVED 70

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              ++ LK A   +   +IG  +   + P +F RVAVQSAKQ   Q +RE ++D  Y EF
Sbjct: 71  PVTEMPLKEALTYNEECEIGDELLIEINPKEFDRVAVQSAKQKAKQTLREIQKDTLYSEF 130

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           K+K GE++ G  +R   GN+ VDLG  +G++ R     RE  RP DR+K+ IY+V +   
Sbjct: 131 KEKEGEMVIGYYQRERNGNIFVDLGKIEGILPRRYQSPREVYRPNDRIKALIYEVSKSPS 190

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           G Q++LSRTH  F+ ++F +EVPE+Y+  V++  + R+PG R K+AV+S+   +DPVGAC
Sbjct: 191 GLQIVLSRTHTDFVKRIFELEVPEVYDKTVEIFKIVREPGYRTKIAVYSNRDDVDPVGAC 250

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV-LDEDVGRIEVIVP 313
           VGM+G R+QAVV EL  EKIDI+ +  D+ +F+ NAL PA V  VV LDE   +   +V 
Sbjct: 251 VGMKGVRIQAVVRELEGEKIDILKYDIDARSFIKNALSPAEVQNVVILDEAKRQALAVVE 310

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           + QLSLAIG++G NVRLA++L  W ID+ T E+
Sbjct: 311 ENQLSLAIGKQGLNVRLANRLVDWNIDVKTIEQ 343


>gi|313885291|ref|ZP_07819042.1| transcription termination factor NusA [Eremococcus coleocola
           ACS-139-V-Col8]
 gi|312619397|gb|EFR30835.1| transcription termination factor NusA [Eremococcus coleocola
           ACS-139-V-Col8]
          Length = 415

 Score =  258 bits (659), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 140/339 (41%), Positives = 209/339 (61%), Gaps = 2/339 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+Q    +  EK I  DV+   +  ++  A +  Y    ++ V  N + G I +F++ +
Sbjct: 4   ELVQAMQVLEEEKGISADVIKDALESALVLAYKRNYDQSQNVEVVFNADKGTIKVFQVKK 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +I+L  A D   + ++   +   + P DFGR+A Q+AK VI+Q++REAER
Sbjct: 64  VVEEVNDPNEEIALSDALDIHKAYELDDTIKFEITPKDFGRIATQTAKHVILQRLREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y E+     EI++GTV+R +   + ++LG  + V+   E I  E L    RVK Y+ 
Sbjct: 124 NIVYDEYIQYEDEILNGTVERQDNRFIYINLGKIEAVMPVREQIPTEELTMDQRVKVYVS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  RGPQ+++SR H  F+ +LF  EVPEI+NGIV++ +++R+ G R+K+AV S DS 
Sbjct: 184 KVDKTNRGPQIIVSRAHANFLRRLFENEVPEIFNGIVEIMSIAREAGDRSKVAVRSQDSQ 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD--EDV 305
           IDP+G CVG  G RV  +V EL  E IDIV +  D A F+ NA+ P+ V  VV +  E+ 
Sbjct: 244 IDPIGTCVGAGGERVNTIVAELNGENIDIVEYDDDPAQFIKNAMSPSQVIDVVFNDPENP 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
               V+VP  QLSLAIG++GQN RLA++LTG+ IDI +E
Sbjct: 304 NHCIVVVPDYQLSLAIGKKGQNARLAARLTGYKIDIKSE 342


>gi|261367202|ref|ZP_05980085.1| transcription termination factor NusA [Subdoligranulum variabile
           DSM 15176]
 gi|282570800|gb|EFB76335.1| transcription termination factor NusA [Subdoligranulum variabile
           DSM 15176]
          Length = 357

 Score =  258 bits (658), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 147/349 (42%), Positives = 212/349 (60%), Gaps = 6/349 (1%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD-IRVEINPETGD 59
           M +AN  E      A+  E+ +  D ++  +  +I  A +  Y    D + V+I+PE G 
Sbjct: 1   MATANN-EFFDALAALEKERGLPEDYLIEKIKAAIVIAVKKDYEVEDDNVVVDIDPEIGA 59

Query: 60  ISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
                L ++VEEVEN   Q+SL+ A+    S  +G  +   L   +FGR+A Q+AK VI 
Sbjct: 60  FRASLLRDIVEEVENPHTQVSLEEAQKVRKSYKVGQRMVTQLKTKEFGRIAAQTAKHVIR 119

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRV--EYGNVIVDLGNS-DGVIRRDETISRENL 176
           Q +RE ER+ Q  E + +  E+I+ TV  +  E GNV++DLG     V+ R+E +  E  
Sbjct: 120 QGLREGERNLQCSEMQSRAHELITATVVSIDPERGNVVLDLGKGGSAVLPRNEQVPGETF 179

Query: 177 RPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
             G+ V+ Y+ DV    RGP+V +SRTHP  + ++F +EVPEIY+G V++KA++R+ G+R
Sbjct: 180 HEGETVQVYVVDVLATDRGPRVTISRTHPGLVKRMFELEVPEIYDGTVEIKAIAREAGAR 239

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
            KLAV+S +  +DPVGAC+G RG+RV+ +V EL  EKID++ WS D   F+  AL PA V
Sbjct: 240 TKLAVWSKNPDVDPVGACIGARGARVEKIVQELGGEKIDVIRWSEDITEFISAALSPAKV 299

Query: 297 TKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            KV +L  +     V VP  QLSLAIG +GQNVRL + LTG+ IDI  E
Sbjct: 300 VKVELLPGETKSCRVTVPDHQLSLAIGNKGQNVRLCAHLTGYNIDIRPE 348


>gi|312793236|ref|YP_004026159.1| nusa antitermination factor [Caldicellulosiruptor kristjanssonii
           177R1B]
 gi|312180376|gb|ADQ40546.1| NusA antitermination factor [Caldicellulosiruptor kristjanssonii
           177R1B]
          Length = 357

 Score =  258 bits (658), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 138/342 (40%), Positives = 212/342 (61%), Gaps = 8/342 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG----TMSDIRVEINPETGDISLF 63
           EL    D +  E  IDRD V SV+  ++  A + + G     +S+++V I+PE G + ++
Sbjct: 12  ELFSAIDELEREYKIDRDYVYSVLESALLTAYKQVKGIKDKNLSNVKVSIDPEKGSVKIY 71

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
              +VVE V++   +ISL+ A+  D    +G +V+  +P   F R A  + +Q +I K+R
Sbjct: 72  EYRKVVENVKDRKSEISLEDAQKIDKRYKVGDIVAIEVPISQFSRKAAMTVRQTVIGKIR 131

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGDR 181
           E  R   +  +  K+  I++G ++R++  NVIV++  G  + ++  +E IS E  +PG  
Sbjct: 132 EKRRSIIFENYSSKIDNIVTGVIQRIDKKNVIVEIEGGKVEAILPMEEQISGEEYKPGTM 191

Query: 182 VKSYIYDVR--REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           +K YI DV+   +++ P V LSRTHP  + +L   EVPEI  GI+++KA++R+ GSR+K+
Sbjct: 192 MKFYITDVKIPPKEKEPIVYLSRTHPNLIKRLMENEVPEIQEGIIEIKAIAREAGSRSKV 251

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV+S+   +DPVGAC+G +G R+Q V+  L  EKIDIV WS D   F+ NAL PA V  +
Sbjct: 252 AVYSNSLKVDPVGACIGEKGIRIQNVLKHLNGEKIDIVKWSSDIGEFIKNALSPAEVVHI 311

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            L+    +  V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 312 DLNLIEKKAFVLVPNSQLSLAIGKGGQNARLAAKLTGWKIDI 353


>gi|298242762|ref|ZP_06966569.1| transcription termination factor NusA [Ktedonobacter racemifer DSM
           44963]
 gi|297555816|gb|EFH89680.1| transcription termination factor NusA [Ktedonobacter racemifer DSM
           44963]
          Length = 374

 Score =  258 bits (658), Expect = 3e-66,   Method: Compositional matrix adjust.
 Identities = 146/337 (43%), Positives = 218/337 (64%), Gaps = 9/337 (2%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           IA  +A EK + R+VV+  +A+++  A R  +G   ++R+E++ + G++ ++    VV +
Sbjct: 9   IAQLIA-EKGLPREVVMETVANALLAAYRKSFGGGENVRIEVD-KNGEVHVWASKRVVAQ 66

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
           V +   +ISL  A+   P+  +G ++ D      F R+  Q+AKQVI+Q++REAE +  Y
Sbjct: 67  VNDSNEEISLAEAQRLVPNAALGQLL-DVDSSFIFSRIPTQTAKQVILQRIREAEHEHLY 125

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLG-----NSDGVIRRDETISRENLRPGDRVKSYI 186
            + K  VGEI  GT+ R E    +VD         +G++   ETI  E+ R   R++ YI
Sbjct: 126 EQVKGWVGEIRLGTLIREEQRGWVVDFDLDKVDKVEGLMPISETIPGEHYRMKQRLRLYI 185

Query: 187 YDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           YDVRR Q R  Q+L+SRTH   + +LF  EVPEIY+G V++KA++R+PGSRAK+AV++  
Sbjct: 186 YDVRRIQGRMLQILVSRTHRDLVRRLFENEVPEIYDGSVEIKAITREPGSRAKVAVYARQ 245

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DP+G+CVG+RG R+  +V EL DEKIDI+ WSPD+A+FV NAL P    KV L +  
Sbjct: 246 EGLDPIGSCVGVRGQRISNIVRELNDEKIDIIQWSPDTASFVANALSPVKPLKVELRDSD 305

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
               V VP+ QLSLAIG+ GQN RLA++LTGW +D++
Sbjct: 306 HTAIVTVPERQLSLAIGKDGQNARLAAKLTGWRVDVV 342


>gi|315924374|ref|ZP_07920596.1| transcription termination factor NusA [Pseudoramibacter
           alactolyticus ATCC 23263]
 gi|315622253|gb|EFV02212.1| transcription termination factor NusA [Pseudoramibacter
           alactolyticus ATCC 23263]
          Length = 411

 Score =  257 bits (657), Expect = 3e-66,   Method: Compositional matrix adjust.
 Identities = 130/334 (38%), Positives = 214/334 (64%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E L   D +  EK I+++ ++  +  SI++A R  YG+  ++ V  +  +G+I ++    
Sbjct: 4   EFLAALDVLEKEKGINKEELIEAIESSIEQAYRKNYGSEQNVEVRFDRSSGEIQVYTTWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   + +L  A   D + +IG ++   + P  FGR+A Q+AKQ+I QK++E ER
Sbjct: 64  VVDEVMDPDKEKTLAEALAIDEAAEIGQMIEKKIAPRHFGRIAAQNAKQMIYQKIKEQER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  F ++  E+++G +  V+   V VD+G++ G++   E I  E+ + G R++ YI 
Sbjct: 124 KNIYDTFIERQDEVVTGKIDHVDRRMVYVDIGDATGLMPLSEQIPTEHYKAGQRIRVYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V+   +GP++++SRTH   + +L   EVPEIY+G+V V++++R+ GSR+K+AV S+DS+
Sbjct: 184 SVKETSKGPEIMVSRTHSGLLKRLLEEEVPEIYDGVVDVESIAREAGSRSKIAVKSNDST 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG RG+R+Q ++ EL  EKID++ ++ D   F+ NAL PA V +V+ +    +
Sbjct: 244 VDPVGSCVGYRGTRIQNIIDELGGEKIDVIRYNEDIHEFIANALSPANVIEVLANPRDKQ 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
              +V   Q SLAIG+ GQNVRLA +LTGW IDI
Sbjct: 304 AYAVVDDFQFSLAIGKEGQNVRLAVRLTGWKIDI 337


>gi|281491260|ref|YP_003353240.1| transcription antitermination factor [Lactococcus lactis subsp.
           lactis KF147]
 gi|281375001|gb|ADA64519.1| Transcription antitermination factor [Lactococcus lactis subsp.
           lactis KF147]
          Length = 382

 Score =  257 bits (656), Expect = 4e-66,   Method: Compositional matrix adjust.
 Identities = 135/339 (39%), Positives = 212/339 (62%), Gaps = 1/339 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L     +  +K I  ++V+  +  +I  A +  YG   +++V  + + G+ +++   E
Sbjct: 4   EMLNAFAMLEEQKGIKSEIVIEAIEQAITAAYKRQYGQAQNVKVIFDEKKGNFNVYSTRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISL+ A + +P  +IG  +     P DF R A  +AKQVI+QK+RE ER
Sbjct: 64  VVDEVFDSRLEISLEDAHELNPHYEIGDKIMFEEKPKDFARTAAGAAKQVIMQKMREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+     EII GTV++V+   V V+LG  D ++ + + I +EN   GDRVK Y+ 
Sbjct: 124 TIIYNEYSRYKDEIIQGTVEKVDARAVYVNLGRVDALLTKKDQIPQENFHVGDRVKVYVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           DV    +G +V +SRT P  + ++F  E+PE+++G V++K+++RD G RAK+ V S D +
Sbjct: 184 DVVLTPKGTRVFISRTAPDMLKRMFEKEIPEVFDGTVEIKSIARDAGDRAKVIVQSHDEN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +D +G  VG +GSR+Q ++ EL  EK+DI+ WS D AT V NAL+PA + +V++  D G 
Sbjct: 244 VDAIGTMVGAKGSRIQGIIHELAGEKMDIIEWSEDKATLVANALKPARIEQVLITAD-GS 302

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
              +V ++QLSLAIG+RGQNVRLA+ +T   IDI   +E
Sbjct: 303 SLAVVARDQLSLAIGKRGQNVRLAAHVTNSKIDIKAADE 341


>gi|15672746|ref|NP_266920.1| transcription elongation factor NusA [Lactococcus lactis subsp.
           lactis Il1403]
 gi|12723682|gb|AAK04862.1|AE006310_4 transcription termination protein NusA [Lactococcus lactis subsp.
           lactis Il1403]
          Length = 382

 Score =  257 bits (656), Expect = 4e-66,   Method: Compositional matrix adjust.
 Identities = 135/343 (39%), Positives = 215/343 (62%), Gaps = 1/343 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L     +  +K I  ++V+  +  +I  A +  YG   +++V  + + G+ +++   E
Sbjct: 4   EMLNAFAMLEEQKGIKSEIVIEAIEQAITAAYKRQYGQAQNVKVIFDEKKGNFNVYSTRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISL+ A + +P  +IG  +     P DF R A  +AKQVI+QK+RE ER
Sbjct: 64  VVDEVFDSRLEISLEDAHELNPHYEIGDKIMFEEKPKDFARTAAGAAKQVIMQKMREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+     EII GTV++V+   V V+LG  D ++ + + I +EN   GDRVK Y+ 
Sbjct: 124 TIIYNEYSRYKDEIIQGTVEKVDARAVYVNLGRVDALLTKKDQIPQENFHVGDRVKVYVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           DV    +G +V +SRT P  + ++F  E+PE+++G V++K+++RD G RAK+ V S D +
Sbjct: 184 DVVLTPKGTRVFISRTAPDMLKRMFEKEIPEVFDGTVEIKSIARDAGDRAKVIVQSHDEN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +D +G  VG +GSR+Q ++ EL  EK+DI+ WS D AT V NAL+PA + +V++  D G 
Sbjct: 244 VDAIGTMVGTKGSRIQGIIRELAGEKMDIIEWSEDKATLVANALKPARIEQVLITAD-GS 302

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
              +V ++QLSLAIG+RGQNVRLA+ +T   IDI   +E +++
Sbjct: 303 SLAVVARDQLSLAIGKRGQNVRLAAHVTNSKIDIKAADEFNLD 345


>gi|125624585|ref|YP_001033068.1| transcription elongation factor NusA [Lactococcus lactis subsp.
           cremoris MG1363]
 gi|124493393|emb|CAL98367.1| transcription elongation factor nusA [Lactococcus lactis subsp.
           cremoris MG1363]
 gi|300071376|gb|ADJ60776.1| transcription elongation factor NusA [Lactococcus lactis subsp.
           cremoris NZ9000]
          Length = 382

 Score =  256 bits (655), Expect = 4e-66,   Method: Compositional matrix adjust.
 Identities = 135/339 (39%), Positives = 212/339 (62%), Gaps = 1/339 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L     +  +K I  ++V+  +  +I  A +  YG   +++V  + + G+ +++   E
Sbjct: 4   EMLNAFAMLEEQKGIKSEIVIEAIEQAITAAYKRQYGQAQNVKVIFDEKKGNFNVYSTRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISL+ A + +P  +IG  +     P DF R A  +AKQVI+QK+RE ER
Sbjct: 64  VVDEVFDSRLEISLEDAHELNPHYEIGDKIMFEEKPKDFARTAAGAAKQVIMQKMREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+     EII GTV++V+   V V+LG  D ++ + + I +EN   GDRVK Y+ 
Sbjct: 124 TIIYNEYSRYKDEIIQGTVEKVDARAVYVNLGRVDALLTKKDQIPQENFHVGDRVKVYVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           DV    +G +V +SRT P  + ++F  E+PE+++G V++K+++RD G RAK+ V S D +
Sbjct: 184 DVVLTPKGTRVFISRTAPDMLKRMFEKEIPEVFDGTVEIKSIARDAGDRAKVIVQSHDEN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +D +G  VG +GSR+Q ++ EL  EK+DI+ WS D AT V NAL+PA + +V++  D G 
Sbjct: 244 VDAIGTMVGAKGSRIQGIIRELAGEKMDIIEWSEDKATLVANALKPARIEQVLITAD-GS 302

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
              +V ++QLSLAIG+RGQNVRLA+ +T   IDI   +E
Sbjct: 303 SLAVVARDQLSLAIGKRGQNVRLAAHVTNSKIDIKAADE 341


>gi|326406315|gb|ADZ63386.1| transcription antitermination factor [Lactococcus lactis subsp.
           lactis CV56]
          Length = 382

 Score =  256 bits (655), Expect = 5e-66,   Method: Compositional matrix adjust.
 Identities = 135/343 (39%), Positives = 215/343 (62%), Gaps = 1/343 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L     +  +K I  ++V+  +  +I  A +  YG   +++V  + + G+ +++   E
Sbjct: 4   EMLNAFAMLEEQKGIKSEIVIEAIEQAITAAYKRQYGQAQNVKVIFDEKKGNFNVYSTRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISL+ A + +P  +IG  +     P DF R A  +AKQVI+QK+RE ER
Sbjct: 64  VVDEVFDSRLEISLEDAHELNPHYEIGDKIMFEEKPKDFARTAAGAAKQVIMQKMREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+     EII GTV++V+   V V+LG  D ++ + + I +EN   GDRVK Y+ 
Sbjct: 124 TIIYNEYSRYKDEIIQGTVEKVDARAVYVNLGRVDALLTKKDQIPQENFHVGDRVKVYVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           DV    +G +V +SRT P  + ++F  E+PE+++G V++K+++RD G RAK+ V S D +
Sbjct: 184 DVVLTPKGTRVFISRTAPDMLKRMFEKEIPEVFDGTVEIKSIARDAGDRAKVIVQSHDEN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +D +G  VG +GSR+Q ++ EL  EK+DI+ WS D AT V NAL+PA + +V++  D G 
Sbjct: 244 VDAIGTMVGAKGSRIQGIIRELAGEKMDIIEWSEDKATLVANALKPARIEQVLITAD-GS 302

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
              +V ++QLSLAIG+RGQNVRLA+ +T   IDI   +E +++
Sbjct: 303 SLAVVARDQLSLAIGKRGQNVRLAAHVTNSKIDIKAADEFNLD 345


>gi|218296560|ref|ZP_03497288.1| NusA antitermination factor [Thermus aquaticus Y51MC23]
 gi|218243102|gb|EED09634.1| NusA antitermination factor [Thermus aquaticus Y51MC23]
          Length = 385

 Score =  256 bits (655), Expect = 6e-66,   Method: Compositional matrix adjust.
 Identities = 147/373 (39%), Positives = 232/373 (62%), Gaps = 18/373 (4%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAA---RSLY-------GTMSDIRVEIN 54
           NR E ++    +A E+ +  + VL    ++++KA    +  Y       G   ++ V I+
Sbjct: 2   NR-EFIEALQQLALERGVSAEEVLEAFKEALRKAYIKRQKGYKKEEVEEGKGPEVDVYID 60

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSA 114
           P+TG I +  +  VVE+VE+   +ISL  A   DP + +G  +  P+ P    RVA+Q  
Sbjct: 61  PQTGRIEMVEVRRVVEKVEDPDKEISLAEALQYDPEVQLGDEMEFPIDPEGLSRVAIQDL 120

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISR 173
           +Q++ Q+++E+ER+R + E+KDK G++++G V RV+  GNV VDLG  +  + + E I  
Sbjct: 121 RQLLTQRLKESERNRIFNEYKDKEGQVLTGVVTRVDNRGNVFVDLGRGEAYLPKSEQIPT 180

Query: 174 ENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDP 233
           E   PG R+K+Y+  V R  +GP +++SR H + +  L   EVPEI  GIV++KA++R+P
Sbjct: 181 ERYYPGQRLKAYLKKVDRSAKGPSLIVSRAHEKLLEHLLKQEVPEIAEGIVEIKAIAREP 240

Query: 234 GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP 293
           G R+K+AV S + ++DP+GAC+G +G R+QAV  EL  EK+DI++WS D   F+ NAL P
Sbjct: 241 GRRSKVAVTSHNPNVDPIGACIGHKGQRIQAVSAELGREKVDIILWSKDPKEFIRNALSP 300

Query: 294 AIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI----ITEEEDSI 349
           A V  + LD +  +  V V K+Q SLAIG  GQNVRLAS+LTG+ I      I++ +++I
Sbjct: 301 AQVGSIELDPEAKKARVKVTKDQHSLAIGTGGQNVRLASKLTGYDIHFEEAEISDLDEAI 360

Query: 350 NR--QKDFNERTQ 360
            R  Q++  E+T+
Sbjct: 361 RRAAQEEAEEKTR 373


>gi|116492653|ref|YP_804388.1| transcription elongation factor [Pediococcus pentosaceus ATCC
           25745]
 gi|116102803|gb|ABJ67946.1| Transcription elongation factor [Pediococcus pentosaceus ATCC
           25745]
          Length = 362

 Score =  256 bits (654), Expect = 6e-66,   Method: Compositional matrix adjust.
 Identities = 137/338 (40%), Positives = 206/338 (60%), Gaps = 1/338 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E++   D +  EK I ++V++  +  ++  A +  YG   ++ VE N   GDI ++ + +
Sbjct: 4   EMITALDILEKEKGIKKEVIVEALEAALVSAFKRNYGQAQNVEVEFNDRKGDIHVYAVKK 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+   ++SL  A   + + ++   +   + P +FGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VVEEVEDDQLEVSLADALMINRAYELDDEIRFEVTPKNFGRIAAQTAKQVIMQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y ++     EI++G V   +   V VDLG  + V+ + + I  E   P D +K YI 
Sbjct: 124 GVIYEKYGQYEDEIVTGEVSHRDNRYVYVDLGGVEAVMAKSDQIPGEQYEPHDHIKVYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +GPQ+  SRT    + +LF  EVPE+Y+G V++ +++R+ G RAK+AV S+D  
Sbjct: 184 KVENNGKGPQIFASRTDSGLLKRLFEQEVPEVYDGTVEIMSIAREAGDRAKIAVRSNDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD-EDVG 306
           ID VG CVG +G RVQ +V EL  E +DI+ W  D A ++ NAL+P+ V  V+ + ED  
Sbjct: 244 IDAVGTCVGAKGQRVQTIVNELHGENMDIIEWKEDPAEYIANALKPSEVIDVLFNEEDEN 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              VIVP  QLSLAIGRRGQN RLA++L  + IDI +E
Sbjct: 304 YCMVIVPDYQLSLAIGRRGQNARLAAKLVNFKIDIKSE 341


>gi|254369910|ref|ZP_04985919.1| hypothetical protein FTAG_01671 [Francisella tularensis subsp.
           holarctica FSC022]
 gi|157122880|gb|EDO66997.1| hypothetical protein FTAG_01671 [Francisella tularensis subsp.
           holarctica FSC022]
          Length = 447

 Score =  256 bits (653), Expect = 7e-66,   Method: Compositional matrix adjust.
 Identities = 149/433 (34%), Positives = 268/433 (61%), Gaps = 19/433 (4%)

Query: 48  DIRVEINPETGDISLFRLLEVVEEVEN---YTCQISLKVARDRDPSIDIGGVVSDPLPPM 104
           +I V+I+  TGD    R+  +V E E+   Y+ ++   V +++  ++  G V+ +P+   
Sbjct: 2   NIEVKIDRVTGDFKADRVWHIVSEDEDLIDYSKELYEDVVQEKGYNVKAGDVMREPVEVK 61

Query: 105 DFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDG 163
           ++GR+A   AKQ++++K++  ER++    +++K+G+I+ G +KR  Y  ++VDLGN ++G
Sbjct: 62  EYGRIAATMAKQILMKKIKNFEREKSARFYQNKIGDIVYGEIKRTTYEILVVDLGNNAEG 121

Query: 164 VIRRDETISRENLRPGDRVKSYIYDVRREQRGP--QVLLSRTHPQFMVKLFHMEVPEIYN 221
           ++ + + I+RE  R GD++++ +  V  ++ G    ++LSR+    +  LF +EVPE+  
Sbjct: 122 ILPKKDLIARERYRVGDKIRACVEAVESDESGKPNTIMLSRSSNTMLKALFKLEVPEVEE 181

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
            ++ +  V R+ G R+K+ V S+D  IDP GACVG+RGSR+ ++++EL  EK+D+++W+ 
Sbjct: 182 ELINIVNVVREHGFRSKVTVKSNDQRIDPCGACVGVRGSRIHSIMSELNGEKVDVILWNE 241

Query: 282 DSATFVINALRP---AIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
           D   + IN+L P   A + +V +DE+   ++++V +E LS AIG+ G NVRLAS L GW 
Sbjct: 242 DIVQYAINSLSPVDAADILEVNVDEETNSMDIVVKQESLSKAIGKNGVNVRLASSLIGWK 301

Query: 339 IDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASI 398
           I+++++ E    +Q    E+   F++A+++D   A +L+ EG   +E+LA +  +E+  I
Sbjct: 302 INVLSDAEQE-EKQMSIVEK---FVEALDIDHNFALVLIEEGIETLEDLAYLDRAELLEI 357

Query: 399 EGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKT 458
           EGFDEE   E+Q RA+       + L + +     +++L  + G+   +   L +N I T
Sbjct: 358 EGFDEEIVDELQERAKA------VILSQALGGKKPAQDLLDMQGMSLDLAEQLAQNNIVT 411

Query: 459 MEDLAGCSVDDLL 471
           MEDLA  SVD+LL
Sbjct: 412 MEDLAELSVDELL 424


>gi|218133589|ref|ZP_03462393.1| hypothetical protein BACPEC_01458 [Bacteroides pectinophilus ATCC
           43243]
 gi|217990964|gb|EEC56970.1| hypothetical protein BACPEC_01458 [Bacteroides pectinophilus ATCC
           43243]
          Length = 393

 Score =  256 bits (653), Expect = 9e-66,   Method: Compositional matrix adjust.
 Identities = 138/341 (40%), Positives = 210/341 (61%), Gaps = 2/341 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD--IRVEINPETGDISLFRL 65
           EL+   DA+  EK I +D+++  + +S+    +  +G   D  I V I+  TGD  +F  
Sbjct: 4   ELIGALDALEKEKGISKDILIEAIENSLITGCKQHFGITKDDGIVVRIDRNTGDFRVFIT 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE VE+   QISL+ A   +    IG  ++  +   DF R+A Q AK +I+Q++RE 
Sbjct: 64  KRVVEHVEDPVEQISLEDAVKINSKAQIGNGINVEIKSEDFSRIAAQKAKGIILQRIREE 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y E+  K  +I++G V+R+    + ++LG  D V+   E +  E   P +R+K Y
Sbjct: 124 ERKSVYSEYAMKEKDIVTGIVQRINGDKISINLGKMDAVLLPKEQVKGEVFVPTERIKLY 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +G  V +SR+HP  + +LF  EV E+ +G V++K ++R+ GSR K+AV+S++
Sbjct: 184 VVSVTDTAKGVIVKVSRSHPDLVKRLFESEVTEVKDGTVEIKGIAREAGSRTKMAVWSNN 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG+ G+RV A+V ELR EKIDI+ WS + A  + NAL PA V  V+ D++ 
Sbjct: 244 PDVDPVGACVGLNGARVNAIVNELRGEKIDIINWSENPAILIENALSPAKVVSVIADDEE 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
              +V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E +
Sbjct: 304 KTAQVVVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSESQ 344


>gi|295112228|emb|CBL28978.1| NusA antitermination factor [Synergistetes bacterium SGP1]
          Length = 364

 Score =  255 bits (652), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 136/338 (40%), Positives = 218/338 (64%), Gaps = 5/338 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           + +Q  + +A E+++  ++++S +  ++  A +        + V +N ETGDI +  L  
Sbjct: 6   DFVQALNQIAEERNLAPELIVSSLEAALISAYKKYQSGDQRVEVHVNTETGDILVEELRT 65

Query: 68  VVEEVENYTCQISLKVARDRD-PSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           VVEE+E+   +I+L  A+        +G  +     P  FGR+A Q+A+QVIIQ++++AE
Sbjct: 66  VVEELESPDTEITLGDAKRLGFADASVGDELHLEKDPGHFGRIAAQTARQVIIQRLKDAE 125

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSY 185
           R   Y EF DKVGE+++GT+ + E   V+  +G  ++ ++ R E I  E   PG  +K Y
Sbjct: 126 RQVIYSEFSDKVGEMMTGTIVKAENDQVLARIGERTEAILPRKERIPGEEYVPGQTMKFY 185

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + DVR+  RGP++++SRTHP  + KL  +E+PE+ +G+++++ + R+ G RAK+++ + D
Sbjct: 186 VLDVRQMTRGPKIVISRTHPGLLRKLMELEIPEVRDGVIEIRNIVREGGGRAKVSLSTMD 245

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV--VLDE 303
            ++DPVGACVG  G+R++A+  EL  EK+DI+VWS D   ++ NAL PA V KV  VLD+
Sbjct: 246 QNVDPVGACVGAGGARIKAISQELMGEKVDIIVWSSDPLAYIRNALSPAQVVKVEPVLDQ 305

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +      + P EQLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 306 EHAAKAYVEP-EQLSLAIGKAGQNVRLAARLTGWKIDI 342


>gi|325110092|ref|YP_004271160.1| NusA antitermination factor [Planctomyces brasiliensis DSM 5305]
 gi|324970360|gb|ADY61138.1| NusA antitermination factor [Planctomyces brasiliensis DSM 5305]
          Length = 496

 Score =  255 bits (651), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 149/405 (36%), Positives = 239/405 (59%), Gaps = 36/405 (8%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  E+L+I DA+  +K ID+++V   +  +I  A R  YG   ++ V I+  +G      
Sbjct: 2   NASEVLRIVDAIHRDKGIDKEIVFEGIEQAILTALRKYYGDEDELIVLIDRNSGA----- 56

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
                                   PS+   G   + L P   GR+A Q+AKQV+IQK+RE
Sbjct: 57  ------------------------PSVQHNG---EYLDPDILGRIAAQTAKQVMIQKIRE 89

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AERD  Y EF ++  ++++GTV R+E+G   V++G  + ++ R E I  E+ R  +R+++
Sbjct: 90  AERDALYDEFIEQKSQLLTGTVTRLEHGVATVNIGKVEAILPRSEQIPGESHRVNERIRA 149

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            I DVR+     +++LSR HP F+ +LF +E+PEI   +++V++++R+ G R K+AV   
Sbjct: 150 VITDVRKAGSRIKIVLSRVHPDFVRRLFEVEIPEIAENVIEVRSLAREAGYRTKIAVSCY 209

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D+SID VGACVG+RG+R++ +V EL  E+IDIV W+      + NAL+PA V  V+L   
Sbjct: 210 DNSIDAVGACVGVRGARIRNIVDELSGERIDIVRWNDSLQILIPNALQPAEVEDVILCPM 269

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
           +GR+ V+V  +QLSLAIG++GQNVRLAS+L GW I+++T +E  ++ Q         F +
Sbjct: 270 LGRVIVLVRDDQLSLAIGKKGQNVRLASKLVGWDIEVMTRDE--LDEQ--LERSVIAFSE 325

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEI 409
              V E +A  LV++GF   ++L+ ++   +  + G  +E   EI
Sbjct: 326 VPLVTEDLAESLVSQGFFSFDDLSVIEPEHLVELSGLTDEQCDEI 370


>gi|329942818|ref|ZP_08291597.1| transcription termination factor NusA [Chlamydophila psittaci
           Cal10]
 gi|332287410|ref|YP_004422311.1| transcription elongation factor NusA [Chlamydophila psittaci 6BC]
 gi|313847990|emb|CBY16987.1| N utilization substance protein A [Chlamydophila psittaci RD1]
 gi|325507005|gb|ADZ18643.1| transcription elongation factor NusA [Chlamydophila psittaci 6BC]
 gi|328815078|gb|EGF85067.1| transcription termination factor NusA [Chlamydophila psittaci
           Cal10]
 gi|328914659|gb|AEB55492.1| N utilization substance protein A [Chlamydophila psittaci 6BC]
          Length = 434

 Score =  255 bits (651), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 152/429 (35%), Positives = 245/429 (57%), Gaps = 25/429 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L+ I D +  EK I R V++  +  +++ AA+      +++ V INP+TGDI +F   E
Sbjct: 4   DLVAIFDYMEKEKGIQRPVIIGAIESALKIAAKKTLRDDANVSVNINPKTGDIEVFCEKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VE  EN + +I L  AR+ DP  +IG  +  P     FGR+A  +A+Q+I QK+R AER
Sbjct: 64  IVEVCENPSKEIPLDKAREYDPECEIGQYMDVPFVSEHFGRIAAHAARQIIGQKLRHAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           D  Y E++ +V EI+SG VKR   G N+I+DLG  +G++        E  + GD++ + +
Sbjct: 124 DVIYEEYRHRVNEILSGVVKRFAKGSNLIIDLGKVEGLLPARCYPKTEKHKVGDKIYALL 183

Query: 187 YDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           Y+V+  E  G +V+LSR+HP+F+ +LF  EVPE+  G V++  ++R+ G R K+AV SSD
Sbjct: 184 YEVQESENGGAEVILSRSHPEFVKQLFLQEVPELEEGSVEIVKIAREAGYRTKIAVSSSD 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
              DPVGA VGMRGSRV+ ++ EL DEKIDIV +SP +   + N L P  + K+ + ED 
Sbjct: 244 PKTDPVGAFVGMRGSRVKNIIRELNDEKIDIVNYSPVTTELLQNLLCPIEIQKIAILEDD 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN-----ERTQ 360
             I ++V     +  IG+RG N RL SQ+  + ++        + R  ++N     +R Q
Sbjct: 304 KVIAIVVQDADYATVIGKRGINARLISQILDYELE--------VQRMSEYNKLLEIQRLQ 355

Query: 361 FF----------MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
                       ++   + +++   LV  G+  + ++     +++AS+ G   E A +I 
Sbjct: 356 LAEFDSPLLDEPLEMEGISKLVVQNLVHAGYDTIRKVLLASANDLASVPGISLELAYKIL 415

Query: 411 GRAREYLEG 419
            +  +Y EG
Sbjct: 416 EQVSKYGEG 424


>gi|303235674|ref|ZP_07322281.1| transcription termination factor NusA [Prevotella disiens
           FB035-09AN]
 gi|302484121|gb|EFL47109.1| transcription termination factor NusA [Prevotella disiens
           FB035-09AN]
          Length = 409

 Score =  255 bits (651), Expect = 2e-65,   Method: Compositional matrix adjust.
 Identities = 137/328 (41%), Positives = 210/328 (64%), Gaps = 3/328 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYTC 77
           KSIDR  ++SV+ +S +     +YG+  +  V +NP+ GD  ++R   VV   EV++   
Sbjct: 12  KSIDRTTLVSVLEESFRNVIAKIYGSDENFDVIVNPDKGDFEIYRNRVVVADGEVQDENK 71

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +ISL  A+   P  ++G  VS+P+    FGR A+ + +Q +  KV E E D  Y ++KD+
Sbjct: 72  EISLTDAQKIVPDYEVGEDVSEPVDFAKFGRRAILNLRQTLSSKVLELEHDSLYNKYKDR 131

Query: 138 VGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG+IISG V +V    V+ VD  N++ ++ + E I R+  R G+ +++ I  V  E   P
Sbjct: 132 VGQIISGEVYQVWKREVLLVDEDNNELILPKGEQIPRDQYRKGETIRAVILRVDNENNNP 191

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +++LSRT P F+ +L   EVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACVG
Sbjct: 192 KIILSRTAPTFLERLLEAEVPEIEDGLISIKGIARMPGERAKIAVESYDDRIDPVGACVG 251

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           +RGSRV  +V EL +E ID++ W+ ++  F+  AL PA V+ + +DE+  + EV +  E+
Sbjct: 252 VRGSRVHGIVRELCNENIDVINWTANTKLFIQRALSPAKVSSLTIDEENKKAEVFLQPEE 311

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +SLAIGR G N++LAS LTG+TID+  E
Sbjct: 312 VSLAIGRGGMNIKLASMLTGYTIDVFRE 339


>gi|315185930|gb|EFU19694.1| transcription termination factor NusA [Spirochaeta thermophila DSM
           6578]
          Length = 488

 Score =  254 bits (650), Expect = 2e-65,   Method: Compositional matrix adjust.
 Identities = 136/328 (41%), Positives = 203/328 (61%), Gaps = 3/328 (0%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYT 76
           E+ I  ++V   + D +  A +  +GT  +  VE + +  +++L+   +VV  E+ E+  
Sbjct: 15  ERGIPEELVQKTIEDFLLAAYKKRFGTAENAHVEFSEDGTEVTLYAKKQVVADEDFEDEV 74

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            QI L  AR   P  + G  +   + P  F R AVQ AKQ   Q+++E +RD  Y EFKD
Sbjct: 75  LQIPLSEARKLAPEAEPGDELLMEVDPKSFDRGAVQVAKQRAQQELKEIQRDTLYSEFKD 134

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           KVGE+I G  +R   GN+ VDLG  +G++ R     RE  RP DR+K+ IY+V +   G 
Sbjct: 135 KVGELIIGYYQRERNGNIYVDLGKIEGILPRKYQSPREVYRPNDRIKALIYEVNKTPSGL 194

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           QV+LSRTH +F+ K+  +EVPEIY+  V++  + R+PG R K+AV+S    +DPVGACVG
Sbjct: 195 QVILSRTHTEFVRKILELEVPEIYDKTVEIFKIVREPGYRTKIAVYSRKEGVDPVGACVG 254

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKE 315
           ++G R+QA+V EL  E++D++ + PD   F+ N+L PA V +V +LD +      +V   
Sbjct: 255 VKGVRIQALVNELEGERVDVIRYDPDPVAFIKNSLSPAEVEQVIILDRNKKHALAVVKDN 314

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           QLSLAIG++G NVRLA++L  W ID+ T
Sbjct: 315 QLSLAIGKQGLNVRLANRLVDWNIDVKT 342


>gi|160913530|ref|ZP_02076221.1| hypothetical protein EUBDOL_00006 [Eubacterium dolichum DSM 3991]
 gi|158434082|gb|EDP12371.1| hypothetical protein EUBDOL_00006 [Eubacterium dolichum DSM 3991]
          Length = 548

 Score =  254 bits (650), Expect = 2e-65,   Method: Compositional matrix adjust.
 Identities = 139/335 (41%), Positives = 218/335 (65%), Gaps = 8/335 (2%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD--IRVEINPETGDISLFRLLEVVEEV 72
           A+  ++ + +++V+  + +++ KA R  +  + D  +RV ++ E G+I +F+   VVE V
Sbjct: 12  AIESDRQLSKEIVVDALQEALSKAFRK-HIEIPDALVRVAVDDENGEIKVFQQRAVVETV 70

Query: 73  ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYL 132
           E+   +ISL  A+  + ++++G VV + +   DFGR AV  AK V+ QK+REAE+   Y 
Sbjct: 71  EDDELEISLNDAKRINEALELGDVVEEEVNIADFGRAAVILAKNVMKQKIREAEKLAVYE 130

Query: 133 EFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
           E+ DKV E+I GTV+ VE    +V++G +  ++ +++ I  E  R G  ++  I +V +E
Sbjct: 131 EYCDKVEEMIFGTVESVEEKFCVVNIGKTLAIMPKNQQIPNETYREGSMIRVVISEVNKE 190

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            +G QVL+SR     + +LF  EVPEIY GI+++KA++R+ G R K+AV+S + +IDP+G
Sbjct: 191 TKGAQVLVSRADATLVKRLFEKEVPEIYQGIIEIKAIAREAGERTKMAVYSHNENIDPIG 250

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIE--- 309
           AC+G RG+RVQ ++ EL+ EKIDI  WS D +  + NAL PA V  V+ +E   R +   
Sbjct: 251 ACIGPRGTRVQVIIDELKGEKIDIFEWSDDVSELIKNALSPAEVLAVIPNE--ARKDGLL 308

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           V+VP  QLSLAIG+RG+N RLA +LTG  IDI +E
Sbjct: 309 VVVPDNQLSLAIGKRGKNARLAVKLTGHKIDIKSE 343


>gi|146297077|ref|YP_001180848.1| NusA antitermination factor [Caldicellulosiruptor saccharolyticus
           DSM 8903]
 gi|145410653|gb|ABP67657.1| NusA antitermination factor [Caldicellulosiruptor saccharolyticus
           DSM 8903]
          Length = 356

 Score =  254 bits (649), Expect = 2e-65,   Method: Compositional matrix adjust.
 Identities = 135/342 (39%), Positives = 216/342 (63%), Gaps = 8/342 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG----TMSDIRVEINPETGDISLF 63
           EL    D +  E  I+R+ + SV+  ++  A + + G     +S+++V I+PE GD+ +F
Sbjct: 12  ELFSAIDELEREYKIEREYIYSVLESALLTAYKQVRGIKDKNLSNVKVSIDPEKGDVKIF 71

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
              +VVE V++   +IS++ AR  D    +G +V+  +P  DF R A  + +Q +I K+R
Sbjct: 72  EYKKVVENVKDKRNEISVEDARKIDKRYQVGDIVAIEVPISDFSRKAAMTVRQTVIGKIR 131

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGDR 181
           E +R+  + ++  K+  I++G ++R++  NVIV++  G  + ++  +E I  E  +PG  
Sbjct: 132 EKKRNIIFEDYSAKIDNIVTGVIQRIDKKNVIVEIEGGKVEAILPMEEQIPGEEYKPGTM 191

Query: 182 VKSYIYDVR--REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           +K Y+ DV+   +++ P V LSRTHP  + +L   EVPEI  GI+++K ++R+ GSR+K+
Sbjct: 192 MKFYLVDVKIPPKEKEPIVYLSRTHPNLIKRLMENEVPEIQEGIIEIKGIAREAGSRSKV 251

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV+S+   +DPVGAC+G +G R+Q V+  L  EKIDIV WS D   F+ NAL PA V  +
Sbjct: 252 AVYSNSLKVDPVGACIGEKGIRIQNVLKYLGSEKIDIVRWSSDIGEFIKNALSPAEVVHI 311

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            L+    +  V+VP +QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 312 DLNLVEKKAFVLVPNDQLSLAIGKGGQNARLAAKLTGWKIDI 353


>gi|307718805|ref|YP_003874337.1| hypothetical protein STHERM_c11190 [Spirochaeta thermophila DSM
           6192]
 gi|306532530|gb|ADN02064.1| hypothetical protein STHERM_c11190 [Spirochaeta thermophila DSM
           6192]
          Length = 488

 Score =  254 bits (649), Expect = 2e-65,   Method: Compositional matrix adjust.
 Identities = 136/328 (41%), Positives = 203/328 (61%), Gaps = 3/328 (0%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYT 76
           E+ I  ++V   + D +  A +  +GT  +  VE + +  +++L+   +VV  E+ E+  
Sbjct: 15  ERGIPEELVQKTIEDFLLAAYKKRFGTAENAHVEFSEDGTEVTLYAKKQVVADEDFEDEV 74

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            QI L  AR   P  + G  +   + P  F R AVQ AKQ   Q+++E +RD  Y EFKD
Sbjct: 75  LQIPLSEARKLAPEAEPGDELLMEVDPKSFDRGAVQVAKQRAQQELKEIQRDTLYSEFKD 134

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           KVGE+I G  +R   GN+ VDLG  +G++ R     RE  RP DR+K+ IY+V +   G 
Sbjct: 135 KVGELIIGYYQRERNGNIYVDLGKIEGILPRKYQSPREVYRPNDRIKALIYEVNKTPSGL 194

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           QV+LSRTH +F+ K+  +EVPEIY+  V++  + R+PG R K+AV+S    +DPVGACVG
Sbjct: 195 QVILSRTHTEFVRKVLELEVPEIYDKTVEIFKIVREPGYRTKIAVYSRKEGVDPVGACVG 254

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKE 315
           ++G R+QA+V EL  E++D++ + PD   F+ N+L PA V +V +LD +      +V   
Sbjct: 255 VKGVRIQALVNELEGERVDVIRYDPDPVAFIKNSLSPAEVEQVIILDRNKKHALAVVKDN 314

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           QLSLAIG++G NVRLA++L  W ID+ T
Sbjct: 315 QLSLAIGKQGLNVRLANRLVDWNIDVKT 342


>gi|89898348|ref|YP_515458.1| transcription elongation factor NusA [Chlamydophila felis Fe/C-56]
 gi|89331720|dbj|BAE81313.1| N utilization protein A [Chlamydophila felis Fe/C-56]
          Length = 434

 Score =  254 bits (649), Expect = 3e-65,   Method: Compositional matrix adjust.
 Identities = 151/421 (35%), Positives = 246/421 (58%), Gaps = 9/421 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L+ I D +  EK I R V++  +  +++ AA+      +++ V INP TGDI +F   E
Sbjct: 4   DLVAIFDYMEKEKGIQRPVIIGAIESALKIAAKKTLRDDANVSVNINPRTGDIEVFCEKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VE  EN + +I L  AR+ DP   IG  +  P     FGR+A  +A+Q+I QK+R AER
Sbjct: 64  IVEVCENPSKEIPLDKAREYDPECQIGQYMDVPFVSEHFGRIAAHAARQIIGQKLRHAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           D  Y E++ +V EI+SG VKR   G N+++DLG  +G++        E  + GD++ + +
Sbjct: 124 DVIYEEYRHRVNEILSGVVKRFAKGSNLVIDLGKVEGLLPARYYPKTEKHKVGDKIYALL 183

Query: 187 YDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           Y+V+  E  G +V+LSR+HP+F+ +LF  EVPE+ +G V++  ++R+ G R KLAV S+D
Sbjct: 184 YEVQESENGGAEVILSRSHPEFVKQLFLQEVPELEDGSVEIIKIAREAGYRTKLAVSSTD 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
              DPVGA VGMRGSRV+ ++ EL DEKIDIV +SP +   + N L P  + K+ + ED 
Sbjct: 244 PKTDPVGAFVGMRGSRVKNIIRELNDEKIDIVNYSPVTTELLQNLLCPIEIQKIAILEDD 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI--ITEEEDSINRQK----DF-NER 358
             I ++V     +  IG+RG N RL SQ+  + +++  ++E    +  Q+    +F N +
Sbjct: 304 KVIAIVVHDADYATVIGKRGINARLISQILDYELEVQRMSEYNKLLEIQRLQLAEFDNPQ 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
               +    + +++   LV  G+  + ++     +++AS+ G   E A +I  +  +Y E
Sbjct: 364 LDEPLDMEGISKLVVQNLVHAGYDTIRKVLLASANDLASVPGISLELAYKILEQVSKYGE 423

Query: 419 G 419
           G
Sbjct: 424 G 424


>gi|62185081|ref|YP_219866.1| transcription elongation factor NusA [Chlamydophila abortus S26/3]
 gi|62148148|emb|CAH63905.1| N utilization substance protein A [Chlamydophila abortus S26/3]
          Length = 434

 Score =  254 bits (648), Expect = 3e-65,   Method: Compositional matrix adjust.
 Identities = 152/429 (35%), Positives = 245/429 (57%), Gaps = 25/429 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L+ I D +  EK I R V++  +  +++ AA+      +++ V INP+TGDI +F   E
Sbjct: 4   DLVAIFDYMEKEKGIQRPVIIGAIESALKIAAKKTLRDDANVSVNINPKTGDIEVFCEKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VE  EN + +I L  AR+ DP  +IG  +  P     FGR+A  +A+Q+I QK+R AER
Sbjct: 64  IVEVCENPSKEIPLDKAREYDPECEIGQYMDVPFVSEHFGRIAAHAARQIIGQKLRHAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           D  Y E++ +V EI+SG VKR   G N+I+DLG  +G++        E  + GD++ + +
Sbjct: 124 DVIYEEYRHRVNEILSGVVKRFAKGSNLIIDLGKVEGLLPARCYPKTEKHKVGDKIYALL 183

Query: 187 YDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           Y+V+  E  G +V+LSR+HP+F+ +LF  EVPE+  G V++  ++R+ G R K+AV SSD
Sbjct: 184 YEVQESENGGAEVILSRSHPEFVKQLFLQEVPELEEGSVEIVKIAREAGYRTKIAVSSSD 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
              DPVGA VGMRGSRV+ ++ EL DEKIDIV +SP +   + N L P  + K+ + ED 
Sbjct: 244 PKTDPVGAFVGMRGSRVKNIIRELNDEKIDIVNYSPVTTELLQNLLCPIEIQKIAVLEDD 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN-----ERTQ 360
             I ++V     +  IG+RG N RL SQ+  + ++        + R  ++N     +R Q
Sbjct: 304 KVIAIVVQDADYATVIGQRGINARLISQILDYELE--------VQRMSEYNKLLEIQRLQ 355

Query: 361 FF----------MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
                       ++   + +++   LV  G+  + ++     +++AS+ G   E A +I 
Sbjct: 356 LAEFDSPLLDEPLEMEGISKLVVQNLVHAGYDTIRKVLLASANDLASVPGISLELAYKIL 415

Query: 411 GRAREYLEG 419
            +  +Y EG
Sbjct: 416 EQVSKYGEG 424


>gi|213418035|ref|ZP_03351112.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. E01-6750]
          Length = 319

 Score =  253 bits (647), Expect = 4e-65,   Method: Compositional matrix adjust.
 Identities = 128/305 (41%), Positives = 199/305 (65%), Gaps = 3/305 (0%)

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR++  +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+
Sbjct: 1   DRIRGVLYAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKI 60

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +
Sbjct: 61  AVKTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASI 120

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           V+DED   +++ V    L+ AIGR GQNV LASQL+GW ++++T ++     Q + +   
Sbjct: 121 VVDEDKHTMDIAVEAGNLAQAIGRNGQNVHLASQLSGWELNVMTVDDLQAKHQAEAHAAI 180

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + F + +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  
Sbjct: 181 EIFTKYLDIDEEFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALAT 240

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSEN 476
           +    +  + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL    G ++ 
Sbjct: 241 LAQDQEASLGDNKPADDLLNLEGLDRDMAFKLAARGVCTLEDLADQGIDDLADIEGLTDE 300

Query: 477 KGGNI 481
           K G +
Sbjct: 301 KAGEL 305


>gi|296122805|ref|YP_003630583.1| transcription termination factor NusA [Planctomyces limnophilus DSM
           3776]
 gi|296015145|gb|ADG68384.1| transcription termination factor NusA [Planctomyces limnophilus DSM
           3776]
          Length = 442

 Score =  253 bits (646), Expect = 5e-65,   Method: Compositional matrix adjust.
 Identities = 157/419 (37%), Positives = 251/419 (59%), Gaps = 39/419 (9%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  E+L+I D++  +KSID+++V   +  +I  AAR  +G    I V I+  +G      
Sbjct: 2   NGNEVLRIVDSIHRDKSIDKEIVFEGVEQAILSAARKHFGEEEVIEVHIDRTSGQPM--- 58

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
                  V+    +I      DRD   DI             GR++ Q+AKQV+IQK+RE
Sbjct: 59  -------VKTNGREI------DRDELGDI------------LGRISAQTAKQVMIQKIRE 93

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AERD  + E+    G+I+SGTV R E   + V++G ++ ++ R E I  E+ RP +R+++
Sbjct: 94  AERDTLFDEYAQLRGQIVSGTVTRNEGSAITVNIGKAEAILPRSEMIPGESHRPNERIRA 153

Query: 185 YIYDVRREQRGPQV--LLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
            + +V++   GP+V  +LSR HP F+ +L  +E+PE+   I+++++++R+ G R K+AV 
Sbjct: 154 VVLEVKK--MGPRVRVVLSRAHPDFVRRLLELEIPEVNERIIEIRSLAREAGYRTKVAVS 211

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
            +DS+IDPVGACVG+RG+R++ V  EL  E+I++V W+      V NA++P+ V  V+L 
Sbjct: 212 CADSNIDPVGACVGVRGARIRNVGEELGGERIEVVRWNDSLQVLVPNAMQPSEVEDVILC 271

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
             +GR+ V+V  +QLSLAIG+RGQNVRLAS+L GW ID++T EE  +++Q D  +    +
Sbjct: 272 PMLGRVLVLVRDDQLSLAIGKRGQNVRLASKLVGWDIDVMTREE--LDQQLD--QAVVAY 327

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA---VEIQGRAREYLE 418
            Q   V E +A  LV++GF   E+L+ ++  E+  +    +E A   VE   R  E +E
Sbjct: 328 SQIPGVSEELAEGLVSQGFLSFEDLSVIEPDELMEMGSLTQEQADVIVEYAERESERIE 386


>gi|261881035|ref|ZP_06007462.1| N utilization substance protein A [Prevotella bergensis DSM 17361]
 gi|270332217|gb|EFA43003.1| N utilization substance protein A [Prevotella bergensis DSM 17361]
          Length = 424

 Score =  253 bits (646), Expect = 6e-65,   Method: Compositional matrix adjust.
 Identities = 137/326 (42%), Positives = 209/326 (64%), Gaps = 3/326 (0%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYT 76
           +K IDR  ++SV+ +S +      YG+  +  V +NP+ GD  ++R   VVE  EVE+  
Sbjct: 23  DKDIDRTTLVSVLEESFRNVLAKKYGSDENFDVIVNPDKGDFEIYRNRVVVENGEVEDDN 82

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            QISL  A+  +P  ++G  VS+P+    FGR A+ + +Q +  K+ E E D  Y ++KD
Sbjct: 83  KQISLADAQKIEPDYEVGEDVSEPVDFAKFGRRAILTLRQTLASKILELEHDSLYNKYKD 142

Query: 137 KVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           +VG++ISG V +V    V+ VD  N++ ++ R E I R+  R G+ +++ I  V  E   
Sbjct: 143 RVGQVISGEVYQVWKREVLLVDDENNELILPRSEQIPRDQYRKGETLRAVIDRVENENNN 202

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P+++LSRT P FM +L   EVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACV
Sbjct: 203 PKIILSRTSPVFMERLLEQEVPEIADGLIAIKKIARMPGERAKIAVESYDDRIDPVGACV 262

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G+RGSRV  +V EL +E ID++ W+ ++  F+  AL PA +T + LDE+  + +V +  E
Sbjct: 263 GVRGSRVHGIVRELCNENIDVINWTANTMLFIQRALSPAKITSISLDEENRKADVYLQPE 322

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDI 341
           ++SLAIGR G N++LAS LT +TID+
Sbjct: 323 EVSLAIGRGGLNIKLASMLTEYTIDV 348


>gi|222529041|ref|YP_002572923.1| NusA antitermination factor [Caldicellulosiruptor bescii DSM 6725]
 gi|222455888|gb|ACM60150.1| NusA antitermination factor [Caldicellulosiruptor bescii DSM 6725]
          Length = 357

 Score =  253 bits (646), Expect = 6e-65,   Method: Compositional matrix adjust.
 Identities = 135/342 (39%), Positives = 213/342 (62%), Gaps = 8/342 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG----TMSDIRVEINPETGDISLF 63
           EL    D +  E  I++D V SV+  ++  A + + G     +S+++V I+PE G + ++
Sbjct: 12  ELFSAIDELEREYKIEKDYVYSVLESALLTAYKQVKGIKDKNLSNVKVSIDPEKGSVKIY 71

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
              +VVE V++   +ISL+ A+  D    IG +V+  +P   F R A  + +Q +I K+R
Sbjct: 72  EYRKVVENVKDRKNEISLEDAQKIDKRYKIGDIVAIEIPISQFSRKAAMTVRQTVIGKIR 131

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGDR 181
           E +R   + ++  K+  I++G ++R++  NVIV++  G  + ++  +E I  E  +PG  
Sbjct: 132 EKKRSIIFEDYSSKIDNIVTGIIQRIDKKNVIVEIEGGKVEAILPMEEQIPGEEYKPGTL 191

Query: 182 VKSYIYDVR--REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           +K Y+ DV+   +++ P V LSRTHP  + +L   EVPEI  GI+++KA++R+ GSR+K+
Sbjct: 192 MKFYLVDVKIPPKEKEPIVYLSRTHPNLIKRLMENEVPEIQEGIIEIKAIAREAGSRSKV 251

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV+S+   +DPVGAC+G +G R+Q V+  L  EKIDIV WS D   F+ NAL PA V  +
Sbjct: 252 AVYSNSLKVDPVGACIGEKGIRIQNVLKHLNGEKIDIVKWSSDIGEFIKNALSPAEVVHI 311

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            L+    +  V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 312 DLNLIEKKAFVLVPNSQLSLAIGKGGQNARLAAKLTGWKIDI 353


>gi|255994863|ref|ZP_05427998.1| transcription termination factor NusA [Eubacterium saphenum ATCC
           49989]
 gi|255993576|gb|EEU03665.1| transcription termination factor NusA [Eubacterium saphenum ATCC
           49989]
          Length = 367

 Score =  253 bits (646), Expect = 6e-65,   Method: Compositional matrix adjust.
 Identities = 136/338 (40%), Positives = 213/338 (63%), Gaps = 1/338 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+++    +  E  I +D ++ +M +S+  A    YG  S   V+I+ +TG   +    +
Sbjct: 4   EIIEALGQIEKETGIAKDELIDMMKESVLHAFHKNYGEDSRAEVQIDEDTGGTYVIVSKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +V EVEN   ++SL   +  D   + GGVV   +    FGR+A Q+AKQV +QK++E E+
Sbjct: 64  IVLEVENPETEVSLDEMKAIDERYEEGGVVQYTVDASKFGRIAAQTAKQVFLQKIKEREK 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
            + + EFK + GEII+G V RV    + V L  +  +I   E I  E    GDR+K+ I 
Sbjct: 124 QKIFSEFKGREGEIITGKVSRVTMRAIHVALNTTTAIIPLAEQIQGETYEVGDRIKACIK 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V   QRGPQ++LSR  PQF+ +LF  EVPEI NG V++  ++R+ G+R K+AV+S +  
Sbjct: 184 TVEDRQRGPQIVLSRRSPQFVEELFKREVPEIENGTVKIMGIAREAGNRTKIAVYSDNEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +D VGAC+G+RG+R+ A++ +L  EK+D+V+W+ D   FV  A++PA   +++L E+  +
Sbjct: 244 LDAVGACIGVRGTRIGAILDDLGYEKVDVVLWNEDPVKFVKEAIKPAFPDRIILLEE-DK 302

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           + VIV  ++LSLAIGR+GQNVRLAS+L   +ID+ T++
Sbjct: 303 VIVIVADDELSLAIGRKGQNVRLASKLCKMSIDVKTKD 340


>gi|15806798|ref|NP_295520.1| transcription elongation factor NusA [Deinococcus radiodurans R1]
 gi|6459575|gb|AAF11353.1|AE002021_2 N-utilization substance protein A [Deinococcus radiodurans R1]
          Length = 401

 Score =  253 bits (645), Expect = 7e-65,   Method: Compositional matrix adjust.
 Identities = 133/327 (40%), Positives = 211/327 (64%), Gaps = 1/327 (0%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           VA  ++I+   ++     S+Q+A          I V ++P++G + +  + EVVE+VE+ 
Sbjct: 19  VAQARNINELQLIEAFEQSLQQAYVRNVEPDKRIEVHLDPQSGVLEVLIVREVVEKVEDE 78

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
             QISL  A + DP ++IG  +  P+    F R+A+Q+AKQ + QK+RE ER+  + E+K
Sbjct: 79  HMQISLADALELDPGVEIGMEMEFPVDQEMFSRIALQAAKQTLTQKMRETERNVVFNEYK 138

Query: 136 DKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           D+ G++++  V R +  GN  V+LG  + ++   E I  E L PG RVK Y+ +VR+  +
Sbjct: 139 DREGQVLNAQVVRSDNKGNWFVELGAGEAILPPREQIPGEKLTPGGRVKIYLKEVRKTPK 198

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           GP +L SR   + +  L   E+PE+ NGIV+VKA++R+ G R+K+AVFS +S++DP+GAC
Sbjct: 199 GPTILASRADERLLDYLLKQEIPEVANGIVEVKAIAREAGQRSKVAVFSHNSNVDPIGAC 258

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPK 314
           +G RG+R+QAV  EL  E++D+++W  ++  F+ NAL PA V  + + +D     V V  
Sbjct: 259 IGHRGNRIQAVTGELGRERVDVILWDANTREFIRNALSPAKVGPIEVQQDSRDATVTVTP 318

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +QLSLAIG+ GQNVRLA++LTG+ ID+
Sbjct: 319 DQLSLAIGKGGQNVRLAAKLTGFKIDL 345


>gi|312622703|ref|YP_004024316.1| nusa antitermination factor [Caldicellulosiruptor kronotskyensis
           2002]
 gi|312203170|gb|ADQ46497.1| NusA antitermination factor [Caldicellulosiruptor kronotskyensis
           2002]
          Length = 357

 Score =  253 bits (645), Expect = 7e-65,   Method: Compositional matrix adjust.
 Identities = 135/342 (39%), Positives = 213/342 (62%), Gaps = 8/342 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG----TMSDIRVEINPETGDISLF 63
           EL    D +  E  I++D V SV+  ++  A + + G     +S+++V I+PE G + ++
Sbjct: 12  ELFSAIDELEREYKIEKDYVYSVLESALLTAYKQVKGIKDKNLSNVKVSIDPEKGSVKIY 71

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
              +VVE V++   +ISL+ A+  D    IG +V+  +P   F R A  + +Q +I K+R
Sbjct: 72  EYRKVVENVKDRKNEISLEDAQKIDKRYKIGDIVAIEVPISQFSRKAAMTVRQTVIGKIR 131

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGDR 181
           E +R   + ++  K+  I++G ++R++  NVIV++  G  + ++  +E I  E  +PG  
Sbjct: 132 EKKRSIIFEDYSSKIDNIVTGIIQRIDKKNVIVEIEGGKVEAILPMEEQIPGEEYKPGTL 191

Query: 182 VKSYIYDVR--REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           +K Y+ DV+   +++ P V LSRTHP  + +L   EVPEI  GI+++KA++R+ GSR+K+
Sbjct: 192 MKFYLVDVKIPPKEKEPIVYLSRTHPNLIKRLMENEVPEIQEGIIEIKAIAREAGSRSKV 251

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV+S+   +DPVGAC+G +G R+Q V+  L  EKIDIV WS D   F+ NAL PA V  +
Sbjct: 252 AVYSNSLKVDPVGACIGEKGIRIQNVLKHLNGEKIDIVKWSSDIGEFIKNALSPAEVVHI 311

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            L+    +  V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 312 DLNLIEKKAFVLVPNSQLSLAIGKGGQNARLAAKLTGWKIDI 353


>gi|317051740|ref|YP_004112856.1| transcription termination factor NusA [Desulfurispirillum indicum
           S5]
 gi|316946824|gb|ADU66300.1| transcription termination factor NusA [Desulfurispirillum indicum
           S5]
          Length = 382

 Score =  252 bits (644), Expect = 9e-65,   Method: Compositional matrix adjust.
 Identities = 143/342 (41%), Positives = 219/342 (64%), Gaps = 5/342 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETG--DISLFRL 65
           E +   + +  EK++D+  +L  +  ++  A +  Y    +I   I+ ETG  D+S  + 
Sbjct: 4   EFISSIEQLCREKNLDKTTLLEAIETAVVAALKRKYSQECEIFFRIDDETGVFDVSFEK- 62

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVE+V + + +ISL  A        +G  +  P+      R+  Q+AKQ+I+Q+VR+ 
Sbjct: 63  -EVVEKVRDKSLEISLTDAIKIQEDAKVGQRIHVPIDIQTIARITAQTAKQIIMQRVRDV 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E+     E+++++GE+I   V+RVE   V++ +G  DGV+ + + +  +  + GD VK+ 
Sbjct: 122 EKASLMDEYRERIGELILAPVERVEARRVVLSMGECDGVLLQSDILPTDTYKQGDVVKAV 181

Query: 186 IYDVRREQRGP-QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           I DV+  +RG  Q+LLSRT  QF+++LF  EVPEI +  V +KAV+R+ GSR+K+AV + 
Sbjct: 182 IRDVQLSRRGDVQILLSRTSEQFLLQLFREEVPEISSSNVVIKAVAREGGSRSKIAVKAL 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
            S +DPVGACVG++GSRV AVV E+  EKIDI+ WS + A F+ NAL PA V K+ + ++
Sbjct: 242 KSGMDPVGACVGVKGSRVSAVVEEIGGEKIDIIEWSDEPALFICNALNPAEVVKMDIYDE 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            G   V+VP+ QLSLAIGR+GQN RLA++LT W IDI +EEE
Sbjct: 302 EGVAVVVVPERQLSLAIGRKGQNARLAAKLTNWKIDIYSEEE 343


>gi|224543310|ref|ZP_03683849.1| hypothetical protein CATMIT_02510 [Catenibacterium mitsuokai DSM
           15897]
 gi|224523843|gb|EEF92948.1| hypothetical protein CATMIT_02510 [Catenibacterium mitsuokai DSM
           15897]
          Length = 435

 Score =  252 bits (644), Expect = 9e-65,   Method: Compositional matrix adjust.
 Identities = 134/324 (41%), Positives = 208/324 (64%), Gaps = 2/324 (0%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFRLLEVVEEVENYTC 77
           +K +D  +V+  + +++ K+ +  Y GT S +   I+ + G I +F    VV++V +   
Sbjct: 18  DKGLDSAIVIEALTEALAKSYKKNYCGTESIVDCRIDGD-GQIRIFITHHVVDDVNDEDY 76

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           + S++ A++ DP   +G  V +     +FGR+A    KQ++ QK+REAE++  Y E+ +K
Sbjct: 77  EYSIEEAQEIDPKYQVGDEVVEEADISEFGRLAAIQTKQLLRQKIREAEKEALYNEYINK 136

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
           + EII+GTV RVE    I+++G +  ++   + I  E L  G+ VK Y+ +V R  +G  
Sbjct: 137 LDEIINGTVDRVEERFAIINIGKTGALLSSKDQIPGETLVEGEHVKVYVSEVERTTKGTH 196

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           + +SRTH   + +LF MEVPEI+ G V++K+VSR+ G R+K+AV++++  IDP+GACVG 
Sbjct: 197 ISVSRTHEGLVKRLFEMEVPEIFEGTVEIKSVSREAGERSKIAVYTANPDIDPIGACVGP 256

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQL 317
           +G+RV+ VV EL  E IDI+ WS D  TF+ +AL PA V +V L+       V+VP +QL
Sbjct: 257 KGNRVRNVVEELNGEMIDIIEWSDDPVTFISHALSPAKVERVKLNHAKNSALVVVPDDQL 316

Query: 318 SLAIGRRGQNVRLASQLTGWTIDI 341
           SLAIG+RGQN RLA +LT W IDI
Sbjct: 317 SLAIGKRGQNARLAVKLTNWKIDI 340


>gi|116618453|ref|YP_818824.1| transcription elongation factor [Leuconostoc mesenteroides subsp.
           mesenteroides ATCC 8293]
 gi|116097300|gb|ABJ62451.1| Transcription elongation factor [Leuconostoc mesenteroides subsp.
           mesenteroides ATCC 8293]
          Length = 365

 Score =  252 bits (644), Expect = 9e-65,   Method: Compositional matrix adjust.
 Identities = 141/343 (41%), Positives = 216/343 (62%), Gaps = 4/343 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL++  +A+  E+ IDR VV+  + D+++ A +  Y T  ++    + + G+IS+ ++  
Sbjct: 4   ELVEALNALESERGIDRLVVVEALEDALKAAYKKQYNTADNVEATFDDKKGNISIKQVKH 63

Query: 68  VVEEVENYTCQI--SLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV + +    +I  SL  A   + + + G  +   + P DFGR+A Q+AKQVI+QK+REA
Sbjct: 64  VVLDDDLEDEEIEISLSDALAINRAYEAGDEIRFDVTPKDFGRMAAQAAKQVIVQKMREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRVKS 184
            R   Y +F D   EII+G V R +   + V+L GN + V+  ++ +  E    GDR+K 
Sbjct: 124 GRQAIYNKFSDYEDEIITGEVDRQDARFLYVNLPGNQEAVMAPNDQMPNERYHMGDRIKV 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V    +GPQV +SRT    + +LF  EVPE+Y+G V++ +++R+ G R+K+AV++ 
Sbjct: 184 LVNKVENNAKGPQVFVSRTAADLVKRLFEQEVPEVYDGTVEIMSIAREAGDRSKIAVYTH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D+ +DPVGA VG RG+RVQ+VV EL  E +DIV W  D A ++ NAL P+ VT V+ D  
Sbjct: 244 DTDLDPVGAMVGQRGARVQSVVNELAGENMDIVEWVEDEAQYIANALNPSEVTDVIFDPA 303

Query: 305 VGR-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             R + VIVP  QLSLAIG++GQN RLA++LTG+ IDI +E E
Sbjct: 304 NDRAVTVIVPDNQLSLAIGKKGQNARLAARLTGFKIDIKSESE 346


>gi|312127897|ref|YP_003992771.1| transcription termination factor nusa [Caldicellulosiruptor
           hydrothermalis 108]
 gi|311777916|gb|ADQ07402.1| transcription termination factor NusA [Caldicellulosiruptor
           hydrothermalis 108]
          Length = 357

 Score =  252 bits (644), Expect = 9e-65,   Method: Compositional matrix adjust.
 Identities = 137/342 (40%), Positives = 212/342 (61%), Gaps = 8/342 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG----TMSDIRVEINPETGDISLF 63
           EL    D +  E  I++D V SV+  ++  A + + G     +S+++V I+PE G + ++
Sbjct: 12  ELFSAIDELEREYKIEKDYVYSVLESALLTAYKQVKGIKDKNLSNVKVSIDPEKGSVKIY 71

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
              +VVE V++   +ISL+ A+  D    +G +V+  +P   F R A  + +Q +I K+R
Sbjct: 72  EYRKVVENVKDRKSEISLEDAQKIDKRYKVGDIVAIEVPISQFSRKAAMTVRQTVIGKIR 131

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGDR 181
           E  R   + ++  KV  I++G V+R++  NVIV++  G  + ++  +E I  E  +PG  
Sbjct: 132 EKRRSIIFEDYSSKVDNIVTGVVQRIDKKNVIVEIEGGKVEAILPMEEQIPGEEYKPGVM 191

Query: 182 VKSYIYDVR--REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           +K YI +VR   +++ P V LSRTHP  + +L   EVPEI  GI+++KA++R+ GSR+K+
Sbjct: 192 MKFYITEVRIPPKEKEPIVYLSRTHPNLIKRLMENEVPEIQEGIIEIKAIAREAGSRSKV 251

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV+S+   +DPVGAC+G +G R+Q V+  L  EKIDIV WS D   F+ NAL PA V  +
Sbjct: 252 AVYSNSLKVDPVGACIGEKGIRIQNVLKHLNGEKIDIVKWSSDIGEFIKNALSPAEVVHI 311

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            L+    +  V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 312 DLNLIEKKAFVLVPNSQLSLAIGKGGQNARLAAKLTGWKIDI 353


>gi|29840227|ref|NP_829333.1| transcription elongation factor NusA [Chlamydophila caviae GPIC]
 gi|29834575|gb|AAP05211.1| N utilization substance protein A [Chlamydophila caviae GPIC]
          Length = 434

 Score =  252 bits (644), Expect = 1e-64,   Method: Compositional matrix adjust.
 Identities = 152/421 (36%), Positives = 244/421 (57%), Gaps = 9/421 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L+ I D +  EK I R V++  +  +++ AA+      +++ V INP TGDI +F   E
Sbjct: 4   DLVAIFDYMEKEKGIQRPVIIGAIESALKIAAKKTLRDDANVSVNINPRTGDIEVFCEKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VE  EN + +I L  AR+ DP   IG  +  P     FGR+A  +A+Q+I QK+R AER
Sbjct: 64  IVEVCENPSKEIPLDKAREYDPECQIGQYMDVPFVSEHFGRIAAHAARQIIGQKLRHAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           D  Y E++ +V EI+SG VKR   G N+I+DLG  +G++        E  + GD++ + +
Sbjct: 124 DVIYEEYRHRVNEILSGVVKRFAKGSNLIIDLGKVEGLLPARCYPKTEKHKVGDKIYALL 183

Query: 187 YDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
            +V+  E  G +V+LSR+HP+F+ +LF  EVPE+  G V++  ++R+ G R KLAV SSD
Sbjct: 184 QEVQESENGGAEVILSRSHPEFVKQLFLQEVPELEEGFVEIVKIAREAGYRTKLAVSSSD 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
              DPVGA VGMRGSRV+ ++ EL DEKIDIV +SP +   + N L P  + K+ + ED 
Sbjct: 244 PKTDPVGAFVGMRGSRVKNIIRELNDEKIDIVNYSPVTTELLQNLLCPIEIQKIAILEDD 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI--ITEEEDSINRQK----DF-NER 358
             I ++V     +  IG+RG N RL SQ+  + +++  ++E    +  Q+    +F N +
Sbjct: 304 KVIAIVVHDADYATVIGKRGINARLISQILDYELEVQRMSEYNKLLEIQRLQLAEFDNPQ 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
               +    + +++   LV  G+  + ++     +++AS+ G   E A +I  +  +Y E
Sbjct: 364 LDEPLDMEGISKLVVQNLVHAGYDTIRKVLLASANDLASVPGISLELAYKILEQVSKYGE 423

Query: 419 G 419
           G
Sbjct: 424 G 424


>gi|297621094|ref|YP_003709231.1| Transcription elongation protein nusA [Waddlia chondrophila WSU
           86-1044]
 gi|297376395|gb|ADI38225.1| Transcription elongation protein nusA [Waddlia chondrophila WSU
           86-1044]
          Length = 424

 Score =  252 bits (643), Expect = 1e-64,   Method: Compositional matrix adjust.
 Identities = 149/392 (38%), Positives = 235/392 (59%), Gaps = 26/392 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L+ I + +  EK I R++V+  + +S+Q AAR      S++ V+I+P+TG+I++F   E
Sbjct: 4   DLVAIFEYLEKEKGIQREIVIHAIEESLQAAARKSVSGASNVTVQIDPKTGNINVFSEKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +V+EVE    +I L+ AR+ DP  +IG  +     P DFGR+A Q A+Q+I QK+R AER
Sbjct: 64  IVDEVEVPAQEILLEEAREIDPDCEIGQFIDILATPKDFGRIAAQKARQIISQKLRSAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           D  Y E++ +V E++SGTVKR V+  N++VDLG  + ++   +    E  + GDRV + +
Sbjct: 124 DVIYEEYRHRVNEVVSGTVKRFVKGANLVVDLGKVEALMPMRQYPKTEKYKIGDRVLALL 183

Query: 187 YDVR-REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
            +V   +  G +V+LSR+ P+F+ +L   EVPEI  GIV +  + R+ G R KL V ++D
Sbjct: 184 MEVNDTDSGGAEVILSRSSPEFVRQLMIQEVPEIVEGIVVIDKIEREAGYRTKLTVRATD 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVGMRG+RV+ VV EL  EKIDI+ +S D    + NAL P  + K+ + ED 
Sbjct: 244 QKVDPVGACVGMRGNRVKNVVRELNSEKIDIIPYSDDPIELLQNALSPIEIRKISISEDD 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN-----ERTQ 360
             I +++  +  +  IG++G N RL S+L G+ ++        + R  D+N     +RT+
Sbjct: 304 RVISIVIDDDDYAAVIGKKGMNARLNSRLIGYELE--------VQRMTDYNKTMAIQRTE 355

Query: 361 FF----------MQAI-NVDEIIAHLLVAEGF 381
                       +  I  V++++   LVAEGF
Sbjct: 356 LAESDDPTLDHPLTGIEGVNKLVFEHLVAEGF 387


>gi|282857788|ref|ZP_06266997.1| transcription termination factor NusA [Pyramidobacter piscolens
           W5455]
 gi|282584458|gb|EFB89817.1| transcription termination factor NusA [Pyramidobacter piscolens
           W5455]
          Length = 364

 Score =  252 bits (643), Expect = 1e-64,   Method: Compositional matrix adjust.
 Identities = 139/335 (41%), Positives = 213/335 (63%), Gaps = 5/335 (1%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           E+ +  +V+ S +  ++  A R       D  V I+  TG +S+F +   V+   +   +
Sbjct: 17  ERGLSEEVIFSSIEAALALAYRKFRDGKFDPVVAIDRATGSVSIFDVRRAVDAETHSDSE 76

Query: 79  ISLKVARDRD-PSIDIGGVVSDPL--PPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
           ISL  AR    P +  G  V  P+   P  FGR+A Q+A+QVI Q++++AER+  Y EF 
Sbjct: 77  ISLAEARALGYPDVREGDSVKVPVLEHPKSFGRIAAQTARQVITQRLKDAEREIVYNEFN 136

Query: 136 DKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           DK+G++I+ T+ + E   ++V L   S+ V+ R+E I+ E   PG+  K ++ DVR+  R
Sbjct: 137 DKIGDLITATIFKAENDQILVRLSERSEAVLPREERIAGEVYTPGESKKFFLLDVRQTGR 196

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           GP++++SRTHP  + KL  +E+PEI++G V++K + R+ G+RAK+AV S+D ++D VGAC
Sbjct: 197 GPRIVVSRTHPGLLRKLLELEIPEIHDGTVEIKGIVREAGARAKVAVASTDPAVDSVGAC 256

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI-EVIVP 313
           VG  G+R++++  +L DEKIDI+VW+ D   F+ NAL PA VT V   E   R  +V  P
Sbjct: 257 VGNSGARIRSISADLCDEKIDIIVWNEDPLEFIRNALSPARVTGVEAVEGQDRTAKVYAP 316

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
            +QLSLAIG+ GQNVRLA++LTGW +DI T   D+
Sbjct: 317 ADQLSLAIGKAGQNVRLAARLTGWKVDINTNTGDT 351


>gi|46198657|ref|YP_004324.1| transcription elongation factor NusA [Thermus thermophilus HB27]
 gi|55980670|ref|YP_143967.1| transcription elongation factor NusA [Thermus thermophilus HB8]
 gi|1352608|sp|P48514|NUSA_THET8 RecName: Full=Transcription elongation protein nusA
 gi|642364|emb|CAA88036.1| NusA protein [Thermus thermophilus]
 gi|46196280|gb|AAS80697.1| N utilization substance protein A [Thermus thermophilus HB27]
 gi|55772083|dbj|BAD70524.1| N utilization substance protein A (NusA) [Thermus thermophilus HB8]
          Length = 387

 Score =  252 bits (643), Expect = 1e-64,   Method: Compositional matrix adjust.
 Identities = 136/345 (39%), Positives = 214/345 (62%), Gaps = 11/345 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAA---RSLY-------GTMSDIRVEINPET 57
           E ++    +A E+ +  + +L    ++++KA    +  Y       G   ++ V I+P +
Sbjct: 4   EFVEAMQHLALERGVSVEEILEAFKEALRKAYIKRQKGYKKEEIDQGKGPEVDVYIDPNS 63

Query: 58  GDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQV 117
           G I +  +  VVE+VE+   +I+L  A   DP + +G  +  P+ P +  R+A+Q  +Q+
Sbjct: 64  GRIEMVEVRRVVEKVEDPDKEIALAEALQYDPEVQVGDEMEFPINPEELSRMAIQDLRQI 123

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENL 176
           + Q+++E+ER+R Y E+KDK G++++G V RV+  GNV V+LG  +  + R E I  E  
Sbjct: 124 LTQRLKESERNRIYNEYKDKEGQVLTGVVTRVDNRGNVFVELGRGEAYLPRSEQIPTEKY 183

Query: 177 RPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
            PG R+K Y+  V +  +GP +L+SR H + +  L   EVPEI  GIV++KA++R+PG R
Sbjct: 184 HPGQRIKVYLKKVDKSAKGPSLLVSRAHEKLLEHLLKQEVPEIAEGIVEIKAIAREPGRR 243

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           +K+AV S + ++DP+GAC+G +G R+QAV  EL  EK+DI++WS D   F+ NAL PA V
Sbjct: 244 SKVAVTSHNPNVDPIGACIGHKGQRIQAVSAELGREKVDIILWSKDPKEFIRNALSPAQV 303

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             + LD +  +  V V K+Q SLAIG  GQNVRLAS+LTG+ I  
Sbjct: 304 GSIELDPEAKKARVKVTKDQHSLAIGTGGQNVRLASKLTGYDIHF 348


>gi|282859024|ref|ZP_06268160.1| transcription termination factor NusA [Prevotella bivia JCVIHMP010]
 gi|282588192|gb|EFB93361.1| transcription termination factor NusA [Prevotella bivia JCVIHMP010]
          Length = 421

 Score =  252 bits (643), Expect = 1e-64,   Method: Compositional matrix adjust.
 Identities = 133/328 (40%), Positives = 213/328 (64%), Gaps = 3/328 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR--LLEVVEEVENYTC 77
           KSIDR  ++SV+ +S +     ++G+  +  V +NP+ GD  ++R  ++   ++VE+   
Sbjct: 24  KSIDRTTLMSVLEESFRNVLAKIFGSDENFDVIVNPDKGDFEIYRNRVVVADDDVEDENK 83

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +ISL  AR  +P  ++G  VS+ +    FGR A+ + +Q +  KV E E D  Y ++KD+
Sbjct: 84  EISLTDARKLEPDFEVGEDVSEKIDFNKFGRRAILNLRQTLASKVLELEHDSLYNKYKDR 143

Query: 138 VGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG+II+G V +     V+ VD  N++ ++ + E I R+N R G+ +++ I+ V  E   P
Sbjct: 144 VGQIITGEVYQTWKREVLLVDEDNNEMILPKGEQIPRDNYRKGETIRAVIHRVDNENNNP 203

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +++LSRT P+F+ +L   EVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACVG
Sbjct: 204 KIILSRTAPEFLERLLEAEVPEINDGLIAIKKIARMPGERAKIAVESFDERIDPVGACVG 263

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           +RGSRV  +V EL +E ID++ W+ ++  F+  AL PA V+ + +DE+  + EV +  E+
Sbjct: 264 VRGSRVHGIVRELCNENIDVITWTANTKLFIQRALAPAKVSSLTIDEENKKAEVYLQPEE 323

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +SLAIGR G N++LAS LTG+TID+  E
Sbjct: 324 VSLAIGRGGLNIKLASMLTGYTIDVFRE 351


>gi|291541940|emb|CBL15050.1| transcription termination factor NusA [Ruminococcus bromii L2-63]
          Length = 386

 Score =  251 bits (642), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 129/342 (37%), Positives = 211/342 (61%), Gaps = 5/342 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L +       EK I  D +L  +  +I  A ++ YG   ++  +++PE        +  
Sbjct: 5   DLFEALRTFEKEKGIPMDYMLQNIEKAISVACKNYYGGNENVVFKVDPEKNSFDAKLVKT 64

Query: 68  VVEEVENYTCQISLKVAR--DRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV+EV +   +++++ A+  ++     +G  +  P+ P   G  +V SA+ VI Q +R+ 
Sbjct: 65  VVDEVFDPNFEVTVEEAQQINKRKKFIVGDEIEVPIDPKHLGWTSVSSARNVIRQGIRQG 124

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVE--YGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           E+ +  +EF+ K+GEI++ TV+R++   G   + +G S+  + + E +  ++L+ GD +K
Sbjct: 125 EKGQTLIEFQSKLGEIVTATVERIDPKSGVATIKIGKSEATLPKSEQLGHDDLKEGDHIK 184

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            YI DV+  +RGP  ++SRTHP  + +LF  EVPEIY+G+V++K++SR+ GSR K+AV+S
Sbjct: 185 VYIADVKDNERGPHAIISRTHPGLVKRLFEQEVPEIYDGVVEIKSISREAGSRTKMAVYS 244

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLD 302
           S+  +D +G+C+G +G+RV  +V EL  EKIDIV++S D   ++  AL PA V KV + D
Sbjct: 245 SNPDVDAIGSCIGNKGARVNKIVEELGGEKIDIVLYSDDPEKYISAALSPASVCKVEITD 304

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           E+       VP  QLSLAIG +GQN RLA++LTGW IDI  E
Sbjct: 305 EETKSCRATVPDGQLSLAIGNKGQNARLAARLTGWRIDIRPE 346


>gi|309775437|ref|ZP_07670440.1| N utilization substance protein A [Erysipelotrichaceae bacterium
           3_1_53]
 gi|308916826|gb|EFP62563.1| N utilization substance protein A [Erysipelotrichaceae bacterium
           3_1_53]
          Length = 565

 Score =  251 bits (641), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 136/333 (40%), Positives = 217/333 (65%), Gaps = 4/333 (1%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD--IRVEINPETGDISLFRLLEVVEEV 72
           A+  ++ + ++VV+  + +++ KA R  +  + D  +RV++N ++GDI +++   +VE V
Sbjct: 12  AIETDRKLSKEVVVDALQEALAKAFRK-HIEIPDALVRVDVNEKSGDIKVYQQRLIVENV 70

Query: 73  ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYL 132
           E+   +ISL+ A+  +  +++GGVV + +   D GR AV  AK V+ QK+REAE+   Y 
Sbjct: 71  EDDELEISLEDAKRVNQELELGGVVEEEVSIADLGRAAVILAKNVMKQKIREAEKLVVYE 130

Query: 133 EFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
           E+ DKV E++ GT++ VE    +V++G +  ++ +++ I  E  R G+ ++  I +V +E
Sbjct: 131 EYCDKVEEMVMGTIESVEEKFCVVNIGKTLALMPKNQQIPNERYREGEMIRVVITEVNKE 190

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            +G QVL+SR     + +LF  EVPEI+ GI+++KA++R+ G R K+AV+S + +IDP+G
Sbjct: 191 TKGAQVLVSRGDATLVKRLFEKEVPEIFQGIIEIKAIAREAGERTKMAVYSHNENIDPIG 250

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED-VGRIEVI 311
           AC+G RG RVQ ++ EL  EKIDI  WS D    + NAL PA V  V+  E+  G + V+
Sbjct: 251 ACIGPRGQRVQVIIDELGGEKIDIFEWSEDVTELIKNALSPAEVLAVIPSEERKGGLLVV 310

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           VP  QLSLAIG+RG+N RLA +LTG  IDI  E
Sbjct: 311 VPDNQLSLAIGKRGKNARLAVKLTGNKIDIKAE 343


>gi|227431859|ref|ZP_03913883.1| transcription termination factor NusA [Leuconostoc mesenteroides
           subsp. cremoris ATCC 19254]
 gi|227352401|gb|EEJ42603.1| transcription termination factor NusA [Leuconostoc mesenteroides
           subsp. cremoris ATCC 19254]
          Length = 365

 Score =  251 bits (641), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 141/343 (41%), Positives = 215/343 (62%), Gaps = 4/343 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL++  +A+  E+ IDR VV+  + D+++ A +  Y T  ++    + + G+IS+ ++  
Sbjct: 4   ELVEALNALESERGIDRLVVVEALEDALKAAYKKQYNTADNVEATFDDKKGNISIKQVKH 63

Query: 68  VVEEVENYTCQI--SLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV + +    +I  SL  A   + + + G  +   + P DFGR+A Q+AKQVI+QK+REA
Sbjct: 64  VVLDDDLEDEEIEISLSDALAINRAYEAGDEIRFDVTPKDFGRMAAQAAKQVIVQKMREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRVKS 184
            R   Y +F D   EII+G V R +   + V+L GN + V+   + +  E    GDR+K 
Sbjct: 124 GRQAIYNKFSDYEDEIITGEVDRQDARFLYVNLPGNQEAVMAPSDQMPNERYHMGDRIKV 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V    +GPQV +SRT    + +LF  EVPE+Y+G V++ +++R+ G R+K+AV++ 
Sbjct: 184 LVNKVENNAKGPQVFVSRTAADLVKRLFEQEVPEVYDGTVEIMSIAREAGDRSKIAVYTH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D+ +DPVGA VG RG+RVQ+VV EL  E +DIV W  D A ++ NAL P+ VT V+ D  
Sbjct: 244 DTDLDPVGAMVGQRGARVQSVVNELAGENMDIVEWVEDEAQYIANALNPSEVTDVIFDPA 303

Query: 305 VGR-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             R + VIVP  QLSLAIG++GQN RLA++LTG+ IDI +E E
Sbjct: 304 NDRAVTVIVPDNQLSLAIGKKGQNARLAARLTGFKIDIKSESE 346


>gi|313897438|ref|ZP_07830981.1| transcription termination factor NusA [Clostridium sp. HGF2]
 gi|312957808|gb|EFR39433.1| transcription termination factor NusA [Clostridium sp. HGF2]
          Length = 566

 Score =  251 bits (641), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 136/333 (40%), Positives = 217/333 (65%), Gaps = 4/333 (1%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD--IRVEINPETGDISLFRLLEVVEEV 72
           A+  ++ + ++VV+  + +++ KA R  +  + D  +RV++N ++GDI +++   +VE V
Sbjct: 12  AIETDRKLSKEVVVDALQEALAKAFRK-HIEIPDALVRVDVNEKSGDIKVYQQRLIVENV 70

Query: 73  ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYL 132
           E+   +ISL+ A+  +  +++GGVV + +   D GR AV  AK V+ QK+REAE+   Y 
Sbjct: 71  EDDELEISLEDAKRVNQELELGGVVEEEVSIADLGRAAVILAKNVMKQKIREAEKLVVYE 130

Query: 133 EFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
           E+ DKV E++ GT++ VE    +V++G +  ++ +++ I  E  R G+ ++  I +V +E
Sbjct: 131 EYCDKVEEMVMGTIESVEEKFCVVNIGKTLALMPKNQQIPNERYREGEMIRVVITEVNKE 190

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            +G QVL+SR     + +LF  EVPEI+ GI+++KA++R+ G R K+AV+S + +IDP+G
Sbjct: 191 TKGAQVLVSRGDATLVKRLFEKEVPEIFQGIIEIKAIAREAGERTKMAVYSHNENIDPIG 250

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED-VGRIEVI 311
           AC+G RG RVQ ++ EL  EKIDI  WS D    + NAL PA V  V+  E+  G + V+
Sbjct: 251 ACIGPRGQRVQVIIDELGGEKIDIFEWSEDVTELIKNALSPAEVLAVIPSEERKGGLLVV 310

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           VP  QLSLAIG+RG+N RLA +LTG  IDI  E
Sbjct: 311 VPDNQLSLAIGKRGKNARLAVKLTGNKIDIKAE 343


>gi|116511573|ref|YP_808789.1| transcription elongation factor NusA [Lactococcus lactis subsp.
           cremoris SK11]
 gi|116107227|gb|ABJ72367.1| Transcription elongation factor [Lactococcus lactis subsp. cremoris
           SK11]
          Length = 382

 Score =  251 bits (641), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 133/339 (39%), Positives = 210/339 (61%), Gaps = 1/339 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L     +  +K I  ++ +  +  +I  A +  YG   +++V  + + G+ +++   E
Sbjct: 4   EMLNAFAMLEEQKGIKSEIAIEAIEQAITAAYKRQYGQAQNVKVIFDEKKGNFNVYSTRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISL+ A + +P  +IG  +     P DF R A  +AKQVI+QK+RE ER
Sbjct: 64  VVDEVFDSRLEISLEDAHELNPHYEIGDKIMFEEKPKDFARTAAGAAKQVIMQKMREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+     EII GTV++V+   V V+LG  D ++ + + I +EN    DRVK Y+ 
Sbjct: 124 TIIYNEYSRYKDEIIQGTVEKVDARAVYVNLGRVDALLTKKDQIPQENFHVDDRVKVYVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           DV    +G +V +SRT P  + ++F  E+PE+++G V++K+++RD G RAK+ V S D +
Sbjct: 184 DVVLTPKGTRVFISRTVPDMLKRMFEKEIPEVFDGTVEIKSIARDAGDRAKVIVQSHDEN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +D +G  VG +GSR+Q ++ EL  EK+DI+ WS D AT V NAL+PA + +V++  D G 
Sbjct: 244 VDAIGTMVGAKGSRIQGIIRELAGEKMDIIEWSEDKATLVANALKPARIEQVLITAD-GS 302

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
              +V ++QLSLAIG+RGQNVRLA+ +T   IDI   +E
Sbjct: 303 SLAVVARDQLSLAIGKRGQNVRLAAHVTNSKIDIKAADE 341


>gi|312876952|ref|ZP_07736927.1| NusA antitermination factor [Caldicellulosiruptor lactoaceticus 6A]
 gi|311796267|gb|EFR12621.1| NusA antitermination factor [Caldicellulosiruptor lactoaceticus 6A]
          Length = 357

 Score =  251 bits (641), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 134/342 (39%), Positives = 211/342 (61%), Gaps = 8/342 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG----TMSDIRVEINPETGDISLF 63
           EL    D +  E  I++D V SV+  ++  A + + G     +S+++V I+PE G + ++
Sbjct: 12  ELFSAIDELEREYKIEKDYVYSVLESALLTAYKQVKGIKDKNLSNVKVSIDPEKGSVKIY 71

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
              +VVE V++   +ISL+ A+  D    +G +V+  +P   F R A  + +Q +I K+R
Sbjct: 72  EYRKVVENVKDRKSEISLEDAQKIDKRYKVGDIVAIEVPISQFSRKAAMTVRQTVIGKIR 131

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGDR 181
           E  R   +  +  K+  I++G ++R++  NVIV++  G  + ++  +E I  E  +PG  
Sbjct: 132 EKRRSIIFENYSSKIDNIVTGVIQRIDKKNVIVEIEGGKVEAILPMEEQIPGEEYKPGTM 191

Query: 182 VKSYIYDVR--REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           +K YI +V+   +++ P V LSRTHP  + +L   EVPEI  GI+++KA++R+ GSR+K+
Sbjct: 192 MKFYITEVKIPPKEKEPIVYLSRTHPNLIKRLMENEVPEIQEGIIEIKAIAREAGSRSKV 251

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV+S+   +DPVGAC+G +G R+Q V+  L  EKIDIV WS D   F+ NAL PA V  +
Sbjct: 252 AVYSNSLKVDPVGACIGEKGIRIQNVLKHLNGEKIDIVKWSSDIGEFIKNALSPAEVVHI 311

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            L+    +  V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 312 DLNLIEKKAFVLVPNSQLSLAIGKGGQNARLAAKLTGWKIDI 353


>gi|268316867|ref|YP_003290586.1| NusA antitermination factor [Rhodothermus marinus DSM 4252]
 gi|262334401|gb|ACY48198.1| NusA antitermination factor [Rhodothermus marinus DSM 4252]
          Length = 421

 Score =  250 bits (639), Expect = 3e-64,   Method: Compositional matrix adjust.
 Identities = 135/342 (39%), Positives = 212/342 (61%), Gaps = 5/342 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+     +A+ K IDRD +  ++ D  +   R  YG+     +  NP+ GDI +  + E
Sbjct: 5   ELVSSFAEIAHSKGIDRDTLQLIVEDVFRAMIRKRYGSDEAFEIIFNPDHGDIQILHIRE 64

Query: 68  VVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV   E+E+   QI L  AR  DP  ++G  V+  +   +FGR A+ +A+Q   Q++R+ 
Sbjct: 65  VVPDWELEDPVTQIELSEARKIDPDFEVGDEVASEVNIAEFGRRAIMTARQTFSQRIRDL 124

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E+++ Y E+ + +GEI+ G + ++    V+V    ++ ++ R+E I R+  R GD +++ 
Sbjct: 125 EKEKIYQEYSELIGEIVVGEIYQIRRREVLVMHNRTELILPREEQIPRDRYRKGDTLRAI 184

Query: 186 IYDVRREQRG-PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           + +VRRE  G PQV++SR  P F+ +L  +EVPEI  GIV+VK + R+PG RAK+AV S 
Sbjct: 185 VKEVRREAGGAPQVIISRADPVFLERLLELEVPEIEEGIVEVKKIVREPGERAKVAVVSH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  +DPVGACVG+RG+R+ A+V EL +E ID++ WS D    +  AL PA    V L+E+
Sbjct: 245 DERVDPVGACVGLRGNRIHAIVRELSNENIDVIEWSDDPRELIKRALTPARPLSVTLNEE 304

Query: 305 VG--RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
               R +V+V  +++S AIGR G N+RLAS+LTG+ +D+  E
Sbjct: 305 ANPPRAKVVVRADEVSQAIGRGGVNIRLASRLTGYELDVYRE 346


>gi|332295450|ref|YP_004437373.1| NusA antitermination factor [Thermodesulfobium narugense DSM 14796]
 gi|332178553|gb|AEE14242.1| NusA antitermination factor [Thermodesulfobium narugense DSM 14796]
          Length = 340

 Score =  250 bits (639), Expect = 4e-64,   Method: Compositional matrix adjust.
 Identities = 132/337 (39%), Positives = 218/337 (64%), Gaps = 2/337 (0%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           L + + +  EK +    ++S +  ++  + +  Y +  ++ ++I P+TG + +     VV
Sbjct: 5   LHVLEQLEKEKGVSLPAMISALESALLASYKKYYPS-KNVSLKIIPDTGVLEIVVKKTVV 63

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
           ++V N   +ISL  AR+ DP ++IG  +   + P +FGR+A  +AKQV  QK++EAERD 
Sbjct: 64  DKVNNIFDEISLTQAREIDPKVNIGETIEIQVDPKNFGRIAALTAKQVWQQKIKEAERDA 123

Query: 130 QYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDV 189
            + EFKD+V  +ISG + R E  N IV LG ++G++ + ET+ ++     +R   Y+  V
Sbjct: 124 VFEEFKDRVFGVISGKILRPEGKNWIVQLGRAEGILPQKETVFQDKYNINERYVFYVLSV 183

Query: 190 RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSID 249
           +++++  +++LSR+HP  + ++F +E  EI +GIV++ +++RDPGSR K+AV S D  +D
Sbjct: 184 KKQKKDVEIILSRSHPNLVKRIFELESAEIRSGIVEIVSIARDPGSRTKIAVLSRDPHVD 243

Query: 250 PVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRI 308
           P+G C+G+R SR+Q V  ELR EKID+++++PD   ++ +AL PA + +V +LD+     
Sbjct: 244 PLGVCLGIRNSRIQNVTKELRGEKIDVILYNPDPKIYIASALSPAKIKRVEILDQVKKES 303

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
            V V K QLSLAIG+  QNVRLA +LTG+ IDI  EE
Sbjct: 304 RVYVDKSQLSLAIGKDAQNVRLAHKLTGYKIDIKIEE 340


>gi|294101966|ref|YP_003553824.1| NusA antitermination factor [Aminobacterium colombiense DSM 12261]
 gi|293616946|gb|ADE57100.1| NusA antitermination factor [Aminobacterium colombiense DSM 12261]
          Length = 362

 Score =  250 bits (639), Expect = 4e-64,   Method: Compositional matrix adjust.
 Identities = 131/327 (40%), Positives = 218/327 (66%), Gaps = 5/327 (1%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           E+ +  +V+ S +  ++  A +   G   ++ V I+ E+G++S++ +  VV+EV+N   Q
Sbjct: 17  ERGLTSEVIASSLEAALISAYKKYQGGDRNVEVHIDLESGNVSIYEVRLVVDEVDNPDAQ 76

Query: 79  ISL-KVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           ISL  V +     +++   V     P +FGR+A Q+A+QVIIQK+++AER   + EF  +
Sbjct: 77  ISLIDVQKLGFTDVEVNEYVRIEKNPENFGRIAAQTARQVIIQKLKDAERQIIFEEFSGR 136

Query: 138 VGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG++++G + + E   V+V L + ++ ++ ++E +  E   PG+R+K Y+ DVR+  RGP
Sbjct: 137 VGDLVNGIIFKSENDQVLVRLNDRTEAILPKEERVINEKYTPGERLKFYLLDVRQTTRGP 196

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           ++++SRTHP  + KL  +EVPEI  GI+++K++ R+ G+RAK+AV + D ++DPVGACVG
Sbjct: 197 RIVVSRTHPGLLRKLLELEVPEIQEGIIEIKSIVREAGTRAKVAVQTLDINVDPVGACVG 256

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV--VLDEDVGRIEVIVPK 314
             G+R++++  EL  EKID+++WS D   FV N+L PA + K+  +L++D   + V    
Sbjct: 257 NNGARIKSISQELSGEKIDVIIWSSDPLIFVRNSLSPAKIVKIEPILEQDKA-VTVYARP 315

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +QLSLAIG+ GQNVRLA++LT W IDI
Sbjct: 316 DQLSLAIGKAGQNVRLAARLTSWKIDI 342


>gi|282889767|ref|ZP_06298306.1| hypothetical protein pah_c004o139 [Parachlamydia acanthamoebae str.
           Hall's coccus]
 gi|281500341|gb|EFB42621.1| hypothetical protein pah_c004o139 [Parachlamydia acanthamoebae str.
           Hall's coccus]
          Length = 424

 Score =  250 bits (638), Expect = 5e-64,   Method: Compositional matrix adjust.
 Identities = 152/420 (36%), Positives = 248/420 (59%), Gaps = 14/420 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L+ I + +  EK I R++V++ + +S++ AA+      S++ V INP++G+I ++   E
Sbjct: 4   DLIAIFEYLEREKGIKRNIVVAAIEESLRAAAKKSISGASNVTVTINPKSGNIDVYCEKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEVE    +ISL+ AR+ DP  +IG  +     P DFGR+A Q A+Q+I QK+R AER
Sbjct: 64  IVEEVEVEAQEISLQDAREIDPDCEIGQFIDVVATPKDFGRIAAQKARQIITQKLRNAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           D  Y E++ +  E+ISGT+KR   G NV++DLG  + ++        E    G++V + +
Sbjct: 124 DVIYEEYRHRTNELISGTIKRFVRGSNVVIDLGKVEAIMPTKHYPKTEKYHVGEKVLALL 183

Query: 187 YDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           Y+V   E  G +V+LSR+HP+F+ +L   EVPE+ +GIV +  + R+ G R K+ V S+D
Sbjct: 184 YEVNETENGGAEVVLSRSHPEFVKQLMMQEVPELNDGIVVIDRIVREAGYRTKMTVRSTD 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           S IDPVG+CVGMRG RV+ VV EL +EKIDI+ +S D    + NAL P  + KV ++ED 
Sbjct: 244 SKIDPVGSCVGMRGIRVKNVVRELNNEKIDIIPYSQDPVELLQNALDPIEIRKVSVNEDD 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI----------ITEEEDSINRQKDF 355
             I ++V     +  IG++G N RL SQL G+ +++            E  +    Q+ +
Sbjct: 304 KTISIVVDDADFAAVIGKKGMNARLNSQLIGYELEVQRMAEYNHAMAVERSELATSQEPW 363

Query: 356 NERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
            ++    ++ +N   +I   L+AEG++    +      ++A++ G   E A +I  + R+
Sbjct: 364 LDKPLKNIEGVNT--LIFEHLIAEGYSTPRAILTAAPEKLATVPGISIELADKILEQIRK 421


>gi|293400740|ref|ZP_06644885.1| N utilization substance protein A [Erysipelotrichaceae bacterium
           5_2_54FAA]
 gi|291305766|gb|EFE47010.1| N utilization substance protein A [Erysipelotrichaceae bacterium
           5_2_54FAA]
          Length = 559

 Score =  249 bits (636), Expect = 7e-64,   Method: Compositional matrix adjust.
 Identities = 136/333 (40%), Positives = 216/333 (64%), Gaps = 4/333 (1%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD--IRVEINPETGDISLFRLLEVVEEV 72
           A+  ++ + ++VV+  + +++ KA R  +  + D  +RV++N +TG+I +++   +VE V
Sbjct: 12  AIESDRKLPQEVVVEALQEALAKAFRK-HIEIPDALVRVDVNEKTGNIKVYQQRTIVETV 70

Query: 73  ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYL 132
           E+   +ISL+ A+  +  +++ GVV + +     GR AV  AK V+ QK+REAE+   Y 
Sbjct: 71  EDDELEISLEDAKKINQELELDGVVEEEVDITQLGRAAVILAKNVMKQKIREAEKLIVYE 130

Query: 133 EFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
           E+ DKV E++ GT++ VE    IV++G +  ++ +++ I  E    GDR++  I +V +E
Sbjct: 131 EYCDKVDEMVVGTIESVEEKFCIVNIGKTLALMPKNQQIPNERYHEGDRIRVVIIEVNKE 190

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            +G QVL+SR     + +LF  EVPEI+ G++++KA++R+ G R K+AV+S + +IDP+G
Sbjct: 191 TKGAQVLVSRGDATLVKRLFEKEVPEIFQGVIEIKAIAREAGERTKMAVYSHNENIDPIG 250

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED-VGRIEVI 311
           AC+G RG RVQ ++ EL  EKIDI  WS D A  + NAL PA V  V+  E+  G + V+
Sbjct: 251 ACIGPRGQRVQVIINELGGEKIDIFEWSEDVAELIKNALSPAEVLAVIPSEERKGGLLVV 310

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           VP  QLSLAIG+RG+N RLA +LTG  IDI  E
Sbjct: 311 VPDNQLSLAIGKRGKNARLAVKLTGNKIDIKAE 343


>gi|325856510|ref|ZP_08172199.1| transcription termination factor NusA [Prevotella denticola CRIS
           18C-A]
 gi|327313033|ref|YP_004328470.1| transcription termination factor NusA [Prevotella denticola F0289]
 gi|325483479|gb|EGC86452.1| transcription termination factor NusA [Prevotella denticola CRIS
           18C-A]
 gi|326944462|gb|AEA20347.1| transcription termination factor NusA [Prevotella denticola F0289]
          Length = 421

 Score =  249 bits (636), Expect = 8e-64,   Method: Compositional matrix adjust.
 Identities = 135/328 (41%), Positives = 209/328 (63%), Gaps = 3/328 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYTC 77
           KSIDR  ++SV+ +S +     ++G+  +  V +NP+ GD  + R   VV   EVE+   
Sbjct: 24  KSIDRTTLVSVLEESFRNVLAKIFGSDENFDVIVNPDKGDFEIHRNRVVVADGEVEDENK 83

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QISL  AR  +   ++G  VS+ +    FGR A+ + +Q +  K+ E E D  Y ++KD+
Sbjct: 84  QISLTDARKIEADYEVGEDVSEEVDFNKFGRRAILNLRQTLASKILELEHDSLYNKYKDR 143

Query: 138 VGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG+IISG V +     V+ VD  N++ ++ +DE I R+  R G+ V++ I  V  E   P
Sbjct: 144 VGQIISGEVYQTWKREVLLVDDENNELILPKDEQIPRDQYRKGETVRAVILRVDNENNNP 203

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +++LSRT P+F+ +L   EVPEI +G++ ++ ++R PG RAK+AV S D  IDPVGACVG
Sbjct: 204 KIILSRTAPEFLERLLEAEVPEISDGLIAIRKIARMPGERAKIAVESFDDRIDPVGACVG 263

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           +RGSRV  +V EL +E +D++ W+ ++  F+  AL PA V+ + +DE+  + EV +  E+
Sbjct: 264 VRGSRVHGIVRELCNENLDVINWTANTKLFIQRALSPAKVSSLNVDEENKKAEVYLQPEE 323

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +SLAIGR G N++LAS LTG+TID+  E
Sbjct: 324 VSLAIGRGGMNIKLASMLTGYTIDVFRE 351


>gi|256371439|ref|YP_003109263.1| NusA antitermination factor [Acidimicrobium ferrooxidans DSM 10331]
 gi|256008023|gb|ACU53590.1| NusA antitermination factor [Acidimicrobium ferrooxidans DSM 10331]
          Length = 330

 Score =  249 bits (635), Expect = 9e-64,   Method: Compositional matrix adjust.
 Identities = 139/342 (40%), Positives = 211/342 (61%), Gaps = 30/342 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E++   + +A EK +  + +L  +A+++  A +   G   +  VEI+P +G I +     
Sbjct: 7   EVMDALEVIAREKGLSVETLLESLANALAAAYKRRPGAAEEAYVEIDPASGTIRVI---- 62

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPL--PPMDFGRVAVQSAKQVIIQKVREA 125
                    CQ            +D  G V       P DFGR+A Q+AKQV++QK+REA
Sbjct: 63  ---------CQ-----------ELDENGTVVREWEDTPRDFGRIAAQAAKQVMLQKIREA 102

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+++Y E+  + G++++G V +++    ++DLG  + ++   E+ S E      R+K+Y
Sbjct: 103 EREQKYEEYAGREGDVVTGIVSQIDPRFTLLDLGKIEAIMPHSESPSNERYSVNQRLKAY 162

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +VRR  +GPQ+++SRTHP  + +LF +EVPEI +G+V+VKA++R+PG R K+AV+S+D
Sbjct: 163 IVEVRRSIKGPQIVVSRTHPGLVRRLFEVEVPEIASGVVEVKAIAREPGHRTKIAVWSND 222

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            S+DPVGACVG RGSRV  VV EL  EK+DIV +S D A FV  A+ PA      ++   
Sbjct: 223 RSVDPVGACVGARGSRVHTVVNELLGEKVDIVPFSEDLAEFVERAIVPAHALSATVE--- 279

Query: 306 GR-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           GR   V+VP +QLSLAIGR GQN RLA++LTG  ++I  + E
Sbjct: 280 GRDALVVVPDDQLSLAIGREGQNARLAARLTGTHLEIRPQSE 321


>gi|255348459|ref|ZP_05380466.1| transcription elongation factor NusA [Chlamydia trachomatis 70]
 gi|255503001|ref|ZP_05381391.1| transcription elongation factor NusA [Chlamydia trachomatis 70s]
          Length = 434

 Score =  249 bits (635), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 150/421 (35%), Positives = 243/421 (57%), Gaps = 9/421 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L+ I D +  EK I R  ++  +  +++ AA+      +++ V INP TGDI +F   +
Sbjct: 4   DLVAIFDYMEREKGIQRSTIVGAIESALKIAAKKTLRDDANVSVSINPRTGDIEVFCEKQ 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VE+ +N + +I L  AR+ DP   IG  +  P     FGR+A  +A+Q+I QK+R AER
Sbjct: 64  IVEKCQNPSKEIPLDKAREYDPDCQIGQYMDVPFISDQFGRIAAHAARQIIGQKLRHAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           D  Y E++ +  EIISG VK    G N++VDLG  +G++        E  + GD++ + +
Sbjct: 124 DVIYEEYRHRKNEIISGVVKSFARGANLVVDLGKVEGLLPARFYPKTEKHKVGDKIYALL 183

Query: 187 YDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           Y+V+  E  G +V+LSR+HP+F+ +LF  EVPE+  G V++  ++R+ G R K+AV SSD
Sbjct: 184 YEVQESENGGAEVILSRSHPEFVKQLFVQEVPELEEGSVEIVKIAREAGYRTKMAVRSSD 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
              D VGA VGMRGSR++ ++ EL DEKID+V +SP S   + N L P  + K+ + ED 
Sbjct: 244 PQTDAVGAFVGMRGSRIKNIIRELNDEKIDVVNYSPVSTELLQNLLYPVEIQKIAILEDD 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI--ITEEEDSINRQK----DFNE-R 358
             I +IV     +  IG+RG N RL SQ+ G+ +++  ++E    +  Q+    +F + R
Sbjct: 304 KVIAIIVQDSDYATVIGKRGINARLISQILGYELEVQRVSEYNKLLEIQRLQLAEFEDPR 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
               ++   ++ +I   L   G+  + ++     SE+AS+ G   E A +I  +  +Y E
Sbjct: 364 LDQPLEVEGINTLIVQNLEHAGYDTIRKILLASASELASVPGISLELAYKILEQVSKYGE 423

Query: 419 G 419
           G
Sbjct: 424 G 424


>gi|94985335|ref|YP_604699.1| transcription elongation factor NusA [Deinococcus geothermalis DSM
           11300]
 gi|94555616|gb|ABF45530.1| NusA antitermination factor [Deinococcus geothermalis DSM 11300]
          Length = 395

 Score =  249 bits (635), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 132/336 (39%), Positives = 212/336 (63%), Gaps = 4/336 (1%)

Query: 10  LQIADA---VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
              ADA   VA  ++I+   ++     S+ +A          + V ++P +G++ +  + 
Sbjct: 6   FNFADALREVAQARNINELQLIEAFEQSLAQAYSRNVEPDRRVEVHLDPVSGELEVLIVR 65

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           EVVE+VE+   QISL  A + DP ++IG  +  P+    F R+A+Q+AKQ + QK+RE E
Sbjct: 66  EVVEKVEDENLQISLADALELDPGVEIGMEMEFPVDREKFSRIALQAAKQTLTQKMRETE 125

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           R+  Y E+KD+ G++++  V R +  GN  V+LG  + ++   E I  E L PG+RVK Y
Sbjct: 126 RNVVYNEYKDREGQVLTAQVVRSDNKGNWFVELGAGEAILPPREQIPGEKLVPGNRVKIY 185

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +VR+  +GP +L SR   + +  L   E+PE+ NGIV++KA++R+ G R+K+AV+S +
Sbjct: 186 LKEVRKTPKGPTILASRADERLLEYLLRQEIPEVANGIVEIKAIAREAGQRSKVAVYSHN 245

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DP+GAC+G RG+R+QAV  EL  E++D+++W  ++  F+ NAL PA V  + +  D 
Sbjct: 246 PNVDPIGACIGHRGNRIQAVTGELGRERVDVILWDANARDFIRNALSPAKVGLIEVRPDT 305

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
               V V  +QLSLAIG+ GQNVRLA++LTG+ ID+
Sbjct: 306 REATVTVTPDQLSLAIGKGGQNVRLAAKLTGFKIDL 341


>gi|332830404|gb|EGK03032.1| transcription termination factor NusA [Dysgonomonas gadei ATCC
           BAA-286]
          Length = 420

 Score =  249 bits (635), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 130/325 (40%), Positives = 212/325 (65%), Gaps = 3/325 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYTC 77
           K+IDR  ++SV+ DS +     L+G+  +  V INP+ GD+ ++R   +VE  E+E+   
Sbjct: 20  KNIDRMTMISVLEDSFRNVIAKLFGSNDNYDVIINPDKGDLEIWRNRTIVEDSELEDENT 79

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QISL  AR  D   ++G  V+D +   DFGR A+ + +Q +  K+ E +++  Y  +K+K
Sbjct: 80  QISLTEARKIDEDFEVGEDVTDEVFFEDFGRRAILNLRQTLTSKILELQKEGLYNRYKEK 139

Query: 138 VGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           +GEI+SG V ++    +++ D    + ++ + E I  +  R G+ V++ +  V  +   P
Sbjct: 140 IGEIVSGEVYQIWKKEILLLDDEKEELLLPKTEQIPSDFFRKGEHVRAVVERVENKNNNP 199

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +++LSRT P F+ +L  +EVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACVG
Sbjct: 200 KIILSRTSPVFLERLLEIEVPEINDGLITIKNIARIPGERAKVAVESYDDRIDPVGACVG 259

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           M+GSR+  +V ELR+E IDI+ ++P+ + ++  AL PA +T V L+E+  R EV++  E+
Sbjct: 260 MKGSRIHGIVRELRNENIDIINYTPNMSLYIQRALSPAKITSVKLNEEEKRAEVLLRPEE 319

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDI 341
           +SLAIG+ G N++LAS LTG+TID+
Sbjct: 320 VSLAIGKGGFNIKLASMLTGYTIDV 344


>gi|320449995|ref|YP_004202091.1| transcription termination factor NusA [Thermus scotoductus SA-01]
 gi|320150164|gb|ADW21542.1| transcription termination factor NusA [Thermus scotoductus SA-01]
          Length = 387

 Score =  249 bits (635), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 137/348 (39%), Positives = 215/348 (61%), Gaps = 12/348 (3%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAA---RSLY-------GTMSDIRVEIN 54
           NR E +     +A E+ +  + VL    ++++KA    +  Y       G   ++ V I+
Sbjct: 2   NR-EFIDAMQQLALERGVTTEEVLEAFKEALRKAYIKRQKGYRKEEIDAGKGPEVDVYID 60

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSA 114
           P+TG I +  +  VVE+VE+   +I+L  A   DP + +G  +  P+ P    R+A+Q  
Sbjct: 61  PQTGRIEMVEVRRVVEKVEDPDKEIALSEALQYDPEVQVGDEMEFPIDPEGLSRMAIQDL 120

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISR 173
           +Q++ Q+++E+ER+R Y E+KDK G++++G V RV+  GNV V+LG  +  + + E I  
Sbjct: 121 RQILTQRLKESERNRIYNEYKDKEGQVLTGVVTRVDNRGNVFVELGRGEAYLPKSEQIPT 180

Query: 174 ENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDP 233
           E   PG R+K Y+  V R  +GP +++SR H + +  L   EVPEI  GIV++KA++R+P
Sbjct: 181 ERYYPGQRLKVYLKKVDRSAKGPSLIVSRAHEKLLEHLLKQEVPEIAEGIVEIKAIAREP 240

Query: 234 GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP 293
           G R+K+AV + + ++DP+GAC+G +G R+QAV  EL  EK+DI++W+ D   F+ NAL P
Sbjct: 241 GRRSKVAVMTHNPNVDPIGACIGHKGQRIQAVSAELGREKVDIILWAKDPKEFIRNALSP 300

Query: 294 AIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           A V  + L+ D  +  V V K+Q SLAIG  GQNVRLAS+LTG+ I  
Sbjct: 301 AQVGSIELEPDGQKARVKVTKDQHSLAIGTGGQNVRLASKLTGYEIHF 348


>gi|295098916|emb|CBK88005.1| transcription termination factor NusA [Eubacterium cylindroides
           T2-87]
          Length = 545

 Score =  249 bits (635), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 138/329 (41%), Positives = 211/329 (64%), Gaps = 6/329 (1%)

Query: 23  DRDVVLSVMADSIQKAARSLYGT---MSDIRVEINPETGDISLFRLLEVVEEVENYTCQI 79
           DR +   ++ D++++A    Y     + D  VE+  E G I ++   +VVE+VE+   +I
Sbjct: 18  DRQLSSEIVEDALREALTKAYRKHIEIPDAYVEVVIEDGIIHIYHQRKVVEDVEDDELEI 77

Query: 80  SLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVG 139
           SL+ AR  + +I +   V++ +    F R AV  AK V+ QK+REAE+ + Y E+ DK+ 
Sbjct: 78  SLEDARKVNKNIQLDDFVNEEVDFTTFDRAAVVLAKNVMKQKIREAEKAQVYEEYCDKLD 137

Query: 140 EIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVL 199
           E++ G V+ VE   VIV++G +  ++++ + I  E    G ++   I +V +E +G QVL
Sbjct: 138 EMVLGVVETVEEKFVIVNIGKTLAMLKKSQQIPTEKYYEGQKLLVVITEVNKETKGAQVL 197

Query: 200 LSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRG 259
           +SR  P F+ +LF  EVPEIYNGI+++KA++RDPG R K+AV+S + +IDP+GAC+G RG
Sbjct: 198 VSRATPVFVRRLFEREVPEIYNGIIEIKAIARDPGERCKIAVYSHNENIDPIGACIGPRG 257

Query: 260 SRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV--GRIEVIVPKEQL 317
           SRVQ ++ EL  EKIDI  WS + +  + NAL P+    V+ +E+V  G I V+VP  QL
Sbjct: 258 SRVQTIINELNGEKIDIFEWSDNISELIENALSPSEAVAVIPNENVKDGLI-VVVPDSQL 316

Query: 318 SLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           SLAIG+RG+N RLA +L+   IDI +E E
Sbjct: 317 SLAIGKRGKNARLAVKLSNRKIDIKSESE 345


>gi|260654723|ref|ZP_05860211.1| transcription termination factor NusA [Jonquetella anthropi E3_33
           E1]
 gi|260630438|gb|EEX48632.1| transcription termination factor NusA [Jonquetella anthropi E3_33
           E1]
          Length = 358

 Score =  248 bits (634), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 133/345 (38%), Positives = 223/345 (64%), Gaps = 5/345 (1%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           L+ ++   ++A E ++  DV+++ +  ++  A R      ++  V +N ETG++ ++ + 
Sbjct: 5   LDCIRALKSLAEESNLSEDVIVASLEAALGAAYRKYREGTTEPEVHLNRETGEVEIYDVR 64

Query: 67  EVVEEVENYTCQISLKVARDRDPS-IDIGGVVSDPL--PPMDFGRVAVQSAKQVIIQKVR 123
              E     T +I+   A     S +  G +V  P+   P  FGR+A Q+A+QVIIQ+++
Sbjct: 65  RTTENPVAGTSEITQAEAAQMGYSDVQPGDLVRVPVYVHPEKFGRIAAQTARQVIIQRLK 124

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           +AER+  + EF +K+G+++ G V R E   V++ +G  S+ +++R+E I  E    G R+
Sbjct: 125 DAEREVVFNEFSEKIGDLVLGEVIRSENDQVLIHIGERSEALLQREERIPNEKYDIGMRL 184

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           + ++ DVR+  RGP+++LSRTHP  + +L  +E+PEI +G V++K + R+ G+RAK+AV 
Sbjct: 185 RFFLLDVRQTTRGPRIVLSRTHPGLLRRLMELEIPEIADGTVEIKGIVREAGARAKVAVA 244

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           ++D S+DP+GACVG  G+R++++ +EL +EKIDIV+W  D  T+V N+L PA   K+ L 
Sbjct: 245 TTDPSVDPLGACVGASGARIRSISSELCEEKIDIVLWDEDPLTYVKNSLSPATPVKIELV 304

Query: 303 EDVGR-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            D  R + V V  +QLSLAIG+ GQNVRLA++LTGW +DI + E+
Sbjct: 305 PDAERSVRVFVKPDQLSLAIGKTGQNVRLAARLTGWKLDIQSSEK 349


>gi|166154318|ref|YP_001654436.1| transcription elongation factor NusA [Chlamydia trachomatis 434/Bu]
 gi|166155193|ref|YP_001653448.1| transcription elongation factor NusA [Chlamydia trachomatis
           L2b/UCH-1/proctitis]
 gi|301335569|ref|ZP_07223813.1| transcription elongation factor NusA [Chlamydia trachomatis L2tet1]
 gi|2160697|gb|AAB58904.1| NusA [Chlamydia trachomatis]
 gi|165930306|emb|CAP03792.1| N utilization substance protein A [Chlamydia trachomatis 434/Bu]
 gi|165931181|emb|CAP06746.1| N utilization substance protein A [Chlamydia trachomatis
           L2b/UCH-1/proctitis]
          Length = 434

 Score =  248 bits (634), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 150/421 (35%), Positives = 243/421 (57%), Gaps = 9/421 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L+ I D +  EK I R  ++  +  +++ AA+      +++ V INP TGDI +F   +
Sbjct: 4   DLVAIFDYMEREKGIQRSTIVGAIESALKIAAKKTLRDDANVSVSINPRTGDIEVFCEKQ 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VE+ +N + +I L  AR+ DP   IG  +  P     FGR+A  +A+Q+I QK+R AER
Sbjct: 64  IVEKCQNPSKEIPLDKAREYDPDCQIGQYMDVPFISDQFGRIAAHAARQIIGQKLRHAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           D  Y E++ +  EIISG VK    G N++VDLG  +G++        E  + GD++ + +
Sbjct: 124 DVIYEEYRHRKNEIISGVVKSFARGANLVVDLGKVEGLLPARFYPKTEKHKVGDKIYALL 183

Query: 187 YDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           Y+V+  E  G +V+LSR+HP+F+ +LF  EVPE+  G V++  ++R+ G R K+AV SSD
Sbjct: 184 YEVQESENGGAEVILSRSHPEFVKQLFVQEVPELEEGSVEIVKIAREAGYRTKMAVRSSD 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
              D VGA VGMRGSR++ ++ EL DEKID+V +SP S   + N L P  + K+ + ED 
Sbjct: 244 PQTDAVGAFVGMRGSRIKNIIRELNDEKIDVVNYSPVSTELLQNLLYPVEIQKIAILEDD 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI--ITEEEDSINRQK----DFNE-R 358
             I +IV     +  IG+RG N RL SQ+ G+ +++  ++E    +  Q+    +F + R
Sbjct: 304 KVIAIIVQDSDYATVIGKRGINARLISQILGYELEVQRMSEYNKLLEIQRLQLAEFEDPR 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
               ++   ++ +I   L   G+  + ++     SE+AS+ G   E A +I  +  +Y E
Sbjct: 364 LDQPLEVEGINTLIVQNLEHAGYDTIRKILLASASELASVPGISLELAYKILEQVSKYGE 423

Query: 419 G 419
           G
Sbjct: 424 G 424


>gi|302872115|ref|YP_003840751.1| transcription termination factor NusA [Caldicellulosiruptor
           obsidiansis OB47]
 gi|302574974|gb|ADL42765.1| transcription termination factor NusA [Caldicellulosiruptor
           obsidiansis OB47]
          Length = 356

 Score =  248 bits (634), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 134/342 (39%), Positives = 210/342 (61%), Gaps = 8/342 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG----TMSDIRVEINPETGDISLF 63
           EL    D +  E  I+RD + SV+  ++  A + + G     +S+++V I PE G + ++
Sbjct: 12  ELFSAIDELEREYKIERDYIYSVLESALLTAYKQVKGIKDKNLSNVKVSIEPEKGSVKIY 71

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
              +VVE V++   +ISL+ A+  D    +G +V   +P   F R A  + +Q +I K+R
Sbjct: 72  EYRKVVENVKDRKSEISLEDAQKIDKRYKVGDIVVIEVPISQFSRKAAMTVRQTVIGKIR 131

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGDR 181
           E  +   + ++  KV  I++G ++R++  NVIV++  G  + ++  +E I  E  +PG  
Sbjct: 132 EKRKSIIFEDYSSKVDNIVTGIIQRIDKKNVIVEIEGGKVEAILPMEEQIPGEEYKPGVM 191

Query: 182 VKSYIYDVR--REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           +K YI +V+   +++ P V LSRTHP  + +L   EVPEI  GI+++KA++R+ GSR+K+
Sbjct: 192 MKFYITEVKIPPKEKEPIVYLSRTHPNLIKRLMENEVPEIQEGIIEIKAIAREAGSRSKV 251

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV+S+   +DPVGAC+G +G R+Q V+  L  EKIDIV WS D   F+ NAL PA V  +
Sbjct: 252 AVYSNSLKVDPVGACIGEKGIRIQNVLKHLNGEKIDIVKWSSDIGEFIKNALSPAEVVHI 311

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            L+    +  V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 312 DLNLIEKKAFVLVPNSQLSLAIGKGGQNARLAAKLTGWKIDI 353


>gi|302344943|ref|YP_003813296.1| transcription termination factor NusA [Prevotella melaninogenica
           ATCC 25845]
 gi|302149887|gb|ADK96149.1| transcription termination factor NusA [Prevotella melaninogenica
           ATCC 25845]
          Length = 409

 Score =  248 bits (633), Expect = 2e-63,   Method: Compositional matrix adjust.
 Identities = 133/328 (40%), Positives = 209/328 (63%), Gaps = 3/328 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYTC 77
           KSIDR  ++SV+ +S +     ++G+  +  V +NP+ GD  + R   VV   EVE+   
Sbjct: 12  KSIDRTTLVSVLEESFRNVLAKIFGSDENFDVIVNPDKGDFEIHRNRVVVADGEVEDENK 71

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +ISL  AR  +   ++G  VS+ +    FGR A+ + +Q +  K+ E E D  Y ++KD+
Sbjct: 72  EISLTDARKIEADYEVGEDVSEEVDFNKFGRRAILNLRQTLASKILELEHDSLYNKYKDR 131

Query: 138 VGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG+IISG V +     V+ VD  N++ ++ + E I R+  R G+ V++ I+ V  E   P
Sbjct: 132 VGQIISGEVYQTWKREVLLVDEENNELILPKGEQIPRDQYRKGETVRAVIHRVDNENNNP 191

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +++LSRT P+F+ +L   EVPEI +G++ ++ ++R PG RAK+AV S D  IDPVGACVG
Sbjct: 192 KIILSRTAPEFLERLLEAEVPEINDGLIAIRKIARMPGERAKIAVESFDERIDPVGACVG 251

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           +RGSRV  +V EL +E +D++ W+ ++  F+  AL PA V+ + +DE+  + EV +  E+
Sbjct: 252 VRGSRVHGIVRELCNENLDVINWTANTKLFIQRALAPAKVSSLTIDEENKKAEVYLQPEE 311

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +SLAIGR G N++LAS LTG+TID+  E
Sbjct: 312 VSLAIGRGGMNIKLASMLTGYTIDVFRE 339


>gi|184155206|ref|YP_001843546.1| transcription termination-antitermination factor NusA
           [Lactobacillus fermentum IFO 3956]
 gi|260662294|ref|ZP_05863190.1| transcription termination factor NusA [Lactobacillus fermentum
           28-3-CHN]
 gi|183226550|dbj|BAG27066.1| transcription termination-antitermination factor NusA
           [Lactobacillus fermentum IFO 3956]
 gi|260553677|gb|EEX26569.1| transcription termination factor NusA [Lactobacillus fermentum
           28-3-CHN]
          Length = 408

 Score =  247 bits (631), Expect = 3e-63,   Method: Compositional matrix adjust.
 Identities = 141/362 (38%), Positives = 216/362 (59%), Gaps = 25/362 (6%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLF 63
           +R+ELL   D +  EK I ++V++  + D++  A +  Y    +++ VEI+  TG+  ++
Sbjct: 6   DRVELLDAMDILEKEKGIKKEVIIEALKDALANAYQKNYEDNAANVEVEISDRTGEFKVY 65

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
               VVEEV N   +ISL  A   +   ++G +  + + P +FGR+A Q+AK V++QK+R
Sbjct: 66  AAKTVVEEVTNDVEEISLADALRVNRGYELGDIFKEEVTPRNFGRLAAQTAKSVVLQKLR 125

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS-DGVIRRDETISRENLRPGDRV 182
           + ER+  + ++     +++ G V R +   + V+LG+  +  + + + +  E+ R  DR+
Sbjct: 126 DEERNIIFDKYNKLKDDLVEGEVSREDERYIYVNLGDGVEAAMNKHDQMPNEHYRVHDRI 185

Query: 183 KSYIYDVRREQ--RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           + Y+  V  +   RGP V +SRT P  + +LF  EVPEI  GIV+VK + R+ G RAK+A
Sbjct: 186 QVYVTRVNDKSGARGPLVFVSRTSPDLLKRLFEKEVPEIQQGIVEVKGIVREAGDRAKVA 245

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           VFS D ++DPVG CVG RG+RVQA+V +L  E IDIV +      F+ NAL PA V  V+
Sbjct: 246 VFSRDENVDPVGTCVGPRGTRVQAIVNQLGGENIDIVKYEEAPEEFIRNALNPAEVEGVL 305

Query: 301 LDEDVGRIE---------------------VIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
            DE+ G ++                     VIVP +QLSLAIG+RGQNVRLA+QLTG+ I
Sbjct: 306 FDENNGEVDEPASVDENGREHEERIHRGCTVIVPDDQLSLAIGKRGQNVRLAAQLTGYKI 365

Query: 340 DI 341
           DI
Sbjct: 366 DI 367


>gi|227514704|ref|ZP_03944753.1| transcription termination factor NusA [Lactobacillus fermentum ATCC
           14931]
 gi|227086908|gb|EEI22220.1| transcription termination factor NusA [Lactobacillus fermentum ATCC
           14931]
 gi|299783112|gb|ADJ41110.1| Transcription termination factor NusA [Lactobacillus fermentum CECT
           5716]
          Length = 408

 Score =  247 bits (631), Expect = 3e-63,   Method: Compositional matrix adjust.
 Identities = 141/362 (38%), Positives = 216/362 (59%), Gaps = 25/362 (6%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLF 63
           +R+ELL   D +  EK I ++V++  + D++  A +  Y    +++ VEI+  TG+  ++
Sbjct: 6   DRVELLDAMDILEKEKGIKKEVIIEALKDALANAYQKNYEDNAANVEVEISDRTGEFKVY 65

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
               VVEEV N   +ISL  A   +   ++G +  + + P +FGR+A Q+AK V++QK+R
Sbjct: 66  AAKTVVEEVTNDVEEISLADALRVNRGYELGDIFKEEVTPRNFGRLAAQTAKSVVLQKLR 125

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS-DGVIRRDETISRENLRPGDRV 182
           + ER+  + ++     +++ G V R +   + V+LG+  +  + + + +  E+ R  DR+
Sbjct: 126 DEERNIIFDKYNKLKDDLVEGEVSREDERYIYVNLGDGVEAAMNKHDQMPNEHYRVHDRI 185

Query: 183 KSYIYDVRREQ--RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           + Y+  V  +   RGP V +SRT P  + +LF  EVPEI  GIV+VK + R+ G RAK+A
Sbjct: 186 QVYVTRVNDKSGARGPLVFVSRTSPDLLKRLFEKEVPEIQQGIVEVKGIVREAGDRAKVA 245

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           VFS D ++DPVG CVG RG+RVQA+V +L  E IDIV +      F+ NAL PA V  V+
Sbjct: 246 VFSRDENVDPVGTCVGPRGTRVQAIVNQLGGENIDIVKYEEAPEEFIRNALNPAEVEGVL 305

Query: 301 LDEDVGRIE---------------------VIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
            DE+ G ++                     VIVP +QLSLAIG+RGQNVRLA+QLTG+ I
Sbjct: 306 FDENNGEVDEPASVDENGRKHEERIHRGCTVIVPDDQLSLAIGKRGQNVRLAAQLTGYKI 365

Query: 340 DI 341
           DI
Sbjct: 366 DI 367


>gi|288801646|ref|ZP_06407088.1| transcription termination factor NusA [Prevotella melaninogenica
           D18]
 gi|288335688|gb|EFC74121.1| transcription termination factor NusA [Prevotella melaninogenica
           D18]
          Length = 421

 Score =  247 bits (631), Expect = 3e-63,   Method: Compositional matrix adjust.
 Identities = 133/328 (40%), Positives = 209/328 (63%), Gaps = 3/328 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYTC 77
           KSIDR  ++SV+ +S +     ++G+  +  V +NP+ GD  + R   VV   EVE+   
Sbjct: 24  KSIDRTTLVSVLEESFRNVLAKIFGSDENFDVIVNPDKGDFEIHRNRVVVADGEVEDENK 83

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +ISL  AR  +   ++G  VS+ +    FGR A+ + +Q +  K+ E E D  Y ++KD+
Sbjct: 84  EISLTDARKIEADYEVGEDVSEEVDFNKFGRRAILNLRQTLASKILELEHDSLYNKYKDR 143

Query: 138 VGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG+IISG V +     V+ VD  N++ ++ + E I R+  R G+ V++ I+ V  E   P
Sbjct: 144 VGQIISGEVYQTWKREVLLVDEENNELILPKGEQIPRDQYRKGETVRAVIHRVDNENNNP 203

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +++LSRT P+F+ +L   EVPEI +G++ ++ ++R PG RAK+AV S D  IDPVGACVG
Sbjct: 204 KIILSRTAPEFLERLLEAEVPEINDGLIAIRKIARMPGERAKIAVESFDERIDPVGACVG 263

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           +RGSRV  +V EL +E +D++ W+ ++  F+  AL PA V+ + +DE+  + EV +  E+
Sbjct: 264 VRGSRVHGIVRELCNENLDVINWTANTKLFIQRALAPAKVSSLTVDEENKKAEVYLQPEE 323

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +SLAIGR G N++LAS LTG+TID+  E
Sbjct: 324 VSLAIGRGGMNIKLASMLTGYTIDVFRE 351


>gi|295102730|emb|CBL00275.1| transcription termination factor NusA [Faecalibacterium prausnitzii
           L2-6]
          Length = 373

 Score =  247 bits (630), Expect = 3e-63,   Method: Compositional matrix adjust.
 Identities = 146/351 (41%), Positives = 214/351 (60%), Gaps = 8/351 (2%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD-IRVEINPETGD 59
           M +AN  E  +    + +E+ I  + ++  +  +I  A +  Y    D + VEI+P TG 
Sbjct: 1   MAAANN-EFFEALSMLEHERGITAEYLIEKIKAAIVIAVKKNYEVEDDHVMVEIDPNTGK 59

Query: 60  ISLFRLLEVVEEVENY--TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQV 117
            ++  + +VV + + Y    +I +  A+    S  +G  V  PL   DFGR+A Q+AK V
Sbjct: 60  FNVALIQDVVADEDWYDEHSEIGITEAQHIRKSYQVGDRVVTPLKTKDFGRIAAQTAKHV 119

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRV--EYGNVIVDLGNS-DGVIRRDETISRE 174
           I Q +REAER +Q  E + +  +I+  TV RV  E G V +DLG   + ++ R+E +  E
Sbjct: 120 IRQGIREAERSQQLSEIQSRAHDIVQATVTRVDPEKGIVALDLGKGGEAILPRNEQVPGE 179

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
               G  ++ YI DV   +RGP+V++SRTHP  + +LF +EVPEIY+G V+VKA+SR+ G
Sbjct: 180 VYTEGQMLQVYIVDVVASERGPRVMISRTHPGLVKRLFELEVPEIYDGTVEVKAISREAG 239

Query: 235 SRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA 294
           +R K+AV+S D++++PV AC+G  G RV AVV +L  EKIDIV WS D + F+  AL PA
Sbjct: 240 ARTKMAVWSKDANVNPVSACIGPHGDRVAAVVEKLGGEKIDIVKWSEDISEFISAALSPA 299

Query: 295 IVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            V KV +L  +     V VP +QLSLAIG +GQN RL ++LTG+ IDI  E
Sbjct: 300 KVVKVELLPGETRSCRVTVPDQQLSLAIGNKGQNARLCARLTGYNIDIRPE 350


>gi|227892601|ref|ZP_04010406.1| transcription elongation factor NusA [Lactobacillus ultunensis DSM
           16047]
 gi|227865586|gb|EEJ73007.1| transcription elongation factor NusA [Lactobacillus ultunensis DSM
           16047]
          Length = 413

 Score =  247 bits (630), Expect = 4e-63,   Method: Compositional matrix adjust.
 Identities = 135/341 (39%), Positives = 211/341 (61%), Gaps = 2/341 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +   K I +DV++  +  ++  A +  Y    ++ V+ +   G+  +  +  
Sbjct: 19  EMLEAFATLEKTKGIKQDVIIDAIKAALVAAYKKNYNQAQNVEVDFDERKGNFKVMAVKT 78

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A   + + ++G  +   + P +FGR+A Q+AKQVI+Q++REAER
Sbjct: 79  VVDEVQDDRLEVSLKDALAINRAYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLREAER 138

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +    E+     E+++GTV+R +   V V +GN + V+   + +S E   P D+++  + 
Sbjct: 139 NHIIDEYSQYEDELVTGTVERRDNRFVYVKIGNVEAVMPHRDQMSNEVYNPQDQIRVLVT 198

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V  + +G Q+ +SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D +
Sbjct: 199 HVGSDSKGAQITVSRTAPDMVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVKSNDPN 258

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DEDV 305
           IDPVG CVG +G+RVQ VV EL  E IDIV +  D + F+ NAL PA V  V    DED 
Sbjct: 259 IDPVGTCVGQKGTRVQNVVNELGGENIDIVKYEDDPSDFIANALNPAEVIAVQFGEDEDE 318

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E
Sbjct: 319 KSALVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESE 359


>gi|15604816|ref|NP_219600.1| transcription elongation factor NusA [Chlamydia trachomatis
           D/UW-3/CX]
 gi|76788811|ref|YP_327897.1| transcription elongation factor NusA [Chlamydia trachomatis
           A/HAR-13]
 gi|237802529|ref|YP_002887723.1| transcription elongation factor NusA [Chlamydia trachomatis
           B/Jali20/OT]
 gi|255310899|ref|ZP_05353469.1| transcription elongation factor NusA [Chlamydia trachomatis 6276]
 gi|255317199|ref|ZP_05358445.1| transcription elongation factor NusA [Chlamydia trachomatis 6276s]
 gi|255506672|ref|ZP_05382311.1| transcription elongation factor NusA [Chlamydia trachomatis
           D(s)2923]
 gi|3328493|gb|AAC67688.1| Transcription antitermination factor [Chlamydia trachomatis
           D/UW-3/CX]
 gi|76167341|gb|AAX50349.1| N utilization substance protein A [Chlamydia trachomatis A/HAR-13]
 gi|231273763|emb|CAX10544.1| N utilization substance protein A [Chlamydia trachomatis
           B/Jali20/OT]
 gi|289525141|emb|CBJ14613.1| N utilization substance protein A [Chlamydia trachomatis Sweden2]
 gi|296434685|gb|ADH16863.1| transcription elongation factor NusA [Chlamydia trachomatis E/150]
 gi|296435614|gb|ADH17788.1| transcription elongation factor NusA [Chlamydia trachomatis G/9768]
 gi|296436537|gb|ADH18707.1| transcription elongation factor NusA [Chlamydia trachomatis
           G/11222]
 gi|296437474|gb|ADH19635.1| transcription elongation factor NusA [Chlamydia trachomatis
           G/11074]
 gi|296438402|gb|ADH20555.1| transcription elongation factor NusA [Chlamydia trachomatis
           E/11023]
 gi|297139973|gb|ADH96731.1| transcription elongation factor NusA [Chlamydia trachomatis G/9301]
          Length = 434

 Score =  247 bits (630), Expect = 4e-63,   Method: Compositional matrix adjust.
 Identities = 149/421 (35%), Positives = 242/421 (57%), Gaps = 9/421 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L+ I D +  EK I R  ++  +  +++ AA+      +++ V INP TGDI +F   +
Sbjct: 4   DLVAIFDYMEREKGIQRSTIVGAIESALKIAAKKTLRDDANVSVSINPRTGDIEVFCEKQ 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VE+ +N + +I L  AR+ DP   IG  +  P     FGR+A  +A+Q+I QK+R AER
Sbjct: 64  IVEKCQNPSKEIPLDKAREYDPDCQIGQYMDVPFISDQFGRIAAHAARQIIGQKLRHAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           D  Y E++ +  EIISG VK    G N++VDLG  +G++        E  + GD++ + +
Sbjct: 124 DVIYEEYRHRKNEIISGVVKSFARGANLVVDLGKVEGLLPARFYPKTEKHKVGDKIYALL 183

Query: 187 YDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           Y+V+  E  G +V+LSR HP+F+ +LF  EVPE+  G V++  ++R+ G R K+AV SS+
Sbjct: 184 YEVQESENGGAEVILSRNHPEFVKQLFVQEVPELEEGSVEIVKIAREAGYRTKMAVRSSN 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
              D VGA VGMRGSR++ ++ EL DEKID+V +SP S   + N L P  + K+ + ED 
Sbjct: 244 PQTDAVGAFVGMRGSRIKNIIRELNDEKIDVVNYSPVSTELLQNLLYPVEIQKIAILEDD 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI--ITEEEDSINRQK----DFNE-R 358
             I +IV     +  IG+RG N RL SQ+ G+ +++  ++E    +  Q+    +F + R
Sbjct: 304 KVIAIIVQDSDYATVIGKRGINARLISQILGYELEVQRVSEYNKLLEIQRLQLAEFEDPR 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
               ++   ++ +I   L   G+  + ++     SE+AS+ G   E A +I  +  +Y E
Sbjct: 364 LDQPLEVEGINTLIVQNLEHAGYDTIRKILLASASELASVPGISLELAYKILEQVSKYGE 423

Query: 419 G 419
           G
Sbjct: 424 G 424


>gi|327183772|gb|AEA32219.1| transcription elongation factor NusA [Lactobacillus amylovorus GRL
           1118]
          Length = 395

 Score =  247 bits (630), Expect = 4e-63,   Method: Compositional matrix adjust.
 Identities = 135/341 (39%), Positives = 210/341 (61%), Gaps = 2/341 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +   K I +DV++  +  ++  A +  Y    ++ V+ +   GD  +  +  
Sbjct: 4   EMLEAFATLEKTKGIKQDVIVDAIKAALVAAYKKNYNQAQNVEVDFDERKGDFKVMAVKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A   + + ++G  +   + P +FGR+A Q+AKQVI+Q++REAER
Sbjct: 64  VVDEVQDDRLEVSLKDALAINRAYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +    E+     E+++GTV+R +   V V +GN + V+   + +  E   P D+++  + 
Sbjct: 124 NHIIDEYSQYEDELVTGTVERRDNRFVYVKIGNVEAVMPHHDQMPNEVYNPQDQIRVLVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V  + +G Q+ +SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D +
Sbjct: 184 HVGSDSKGAQITVSRTAPDMVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVKSNDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DEDV 305
           IDPVG CVG +G+RVQ VV EL  E IDIV +  D + F+ NAL PA V  V    DED 
Sbjct: 244 IDPVGTCVGQKGARVQNVVNELGGENIDIVKYEEDPSDFIANALNPAEVIAVQFGDDEDE 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E
Sbjct: 304 KSALVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESE 344


>gi|330444480|ref|YP_004377466.1| transcription termination factor NusA [Chlamydophila pecorum E58]
 gi|328807590|gb|AEB41763.1| transcription termination factor NusA [Chlamydophila pecorum E58]
          Length = 435

 Score =  247 bits (630), Expect = 4e-63,   Method: Compositional matrix adjust.
 Identities = 148/422 (35%), Positives = 243/422 (57%), Gaps = 10/422 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L+ I D +  EK I R  ++S +  +++ AA+      ++I V INP TGDI +F   E
Sbjct: 4   DLIAIFDYMEKEKGIQRTTIISAIESALKIAAKKTLRDDANISVNINPRTGDIEVFCEKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +V+   N + +I L  AR+ DP  +IG  +  P    +FGR+A  +A+Q+I QK+R AER
Sbjct: 64  IVDFCNNPSKEIPLDKAREFDPDCEIGQYMDVPFVSENFGRIAAHTARQIIGQKLRYAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           D  Y E++ +V EI+SG VKR V+  N+I+DLG  + ++        E  + GD++ + +
Sbjct: 124 DVIYEEYRHRVNEILSGVVKRFVKGSNLIIDLGKVEAILPARFYPKTEKHKIGDKIYALL 183

Query: 187 YDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           Y+V+  +  G +V+LSR+HP+F+ +LF  EVPE+  G+V +  ++R+PG R KLAV SSD
Sbjct: 184 YEVQELDNGGAEVILSRSHPEFVKQLFLQEVPELEEGVVSIVKIAREPGYRTKLAVSSSD 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
              DPVGA VGMRG+RV+ ++ EL DEKIDIV +S      + N L P  + K+ + ED 
Sbjct: 244 FKTDPVGAFVGMRGARVKNIIRELNDEKIDIVNYSSTPTELLQNLLYPIEIQKIAILEDD 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI--ITEEEDSINRQK------DFNE 357
             I ++V     +  IG+RG N RL SQ+  + +++  ++E    +  Q+      D  +
Sbjct: 304 KVIAIVVNDADYATVIGKRGINARLISQILDYELEVQRMSEYNKLLEIQRLQLAEFDSPQ 363

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
             Q   +   + +++   L   G+  + ++     S+++S+ G   E A +I  +  +Y 
Sbjct: 364 LDQPLQEIEGISKLVIQNLEHAGYDTIRKVLLASASDLSSVPGIGLELAYKILEQVSKYG 423

Query: 418 EG 419
           EG
Sbjct: 424 EG 425


>gi|297748226|gb|ADI50772.1| N utilization substance protein A [Chlamydia trachomatis D-EC]
 gi|297749106|gb|ADI51784.1| N utilization substance protein A [Chlamydia trachomatis D-LC]
          Length = 465

 Score =  246 bits (629), Expect = 4e-63,   Method: Compositional matrix adjust.
 Identities = 149/421 (35%), Positives = 242/421 (57%), Gaps = 9/421 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L+ I D +  EK I R  ++  +  +++ AA+      +++ V INP TGDI +F   +
Sbjct: 35  DLVAIFDYMEREKGIQRSTIVGAIESALKIAAKKTLRDDANVSVSINPRTGDIEVFCEKQ 94

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VE+ +N + +I L  AR+ DP   IG  +  P     FGR+A  +A+Q+I QK+R AER
Sbjct: 95  IVEKCQNPSKEIPLDKAREYDPDCQIGQYMDVPFISDQFGRIAAHAARQIIGQKLRHAER 154

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           D  Y E++ +  EIISG VK    G N++VDLG  +G++        E  + GD++ + +
Sbjct: 155 DVIYEEYRHRKNEIISGVVKSFARGANLVVDLGKVEGLLPARFYPKTEKHKVGDKIYALL 214

Query: 187 YDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           Y+V+  E  G +V+LSR HP+F+ +LF  EVPE+  G V++  ++R+ G R K+AV SS+
Sbjct: 215 YEVQESENGGAEVILSRNHPEFVKQLFVQEVPELEEGSVEIVKIAREAGYRTKMAVRSSN 274

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
              D VGA VGMRGSR++ ++ EL DEKID+V +SP S   + N L P  + K+ + ED 
Sbjct: 275 PQTDAVGAFVGMRGSRIKNIIRELNDEKIDVVNYSPVSTELLQNLLYPVEIQKIAILEDD 334

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI--ITEEEDSINRQK----DFNE-R 358
             I +IV     +  IG+RG N RL SQ+ G+ +++  ++E    +  Q+    +F + R
Sbjct: 335 KVIAIIVQDSDYATVIGKRGINARLISQILGYELEVQRVSEYNKLLEIQRLQLAEFEDPR 394

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
               ++   ++ +I   L   G+  + ++     SE+AS+ G   E A +I  +  +Y E
Sbjct: 395 LDQPLEVEGINTLIVQNLEHAGYDTIRKILLASASELASVPGISLELAYKILEQVSKYGE 454

Query: 419 G 419
           G
Sbjct: 455 G 455


>gi|300812554|ref|ZP_07092971.1| transcription termination factor NusA [Lactobacillus delbrueckii
           subsp. bulgaricus PB2003/044-T3-4]
 gi|300496427|gb|EFK31532.1| transcription termination factor NusA [Lactobacillus delbrueckii
           subsp. bulgaricus PB2003/044-T3-4]
          Length = 403

 Score =  246 bits (629), Expect = 5e-63,   Method: Compositional matrix adjust.
 Identities = 145/343 (42%), Positives = 215/343 (62%), Gaps = 5/343 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+  D +   K I +DV++  M  ++  A +  YG   ++ ++ N + GD  +  L  
Sbjct: 4   EMLEAFDVLEKTKGIKQDVIVEAMKAALAAAYKKNYGLAENVEIDFNEKKGDFKVMALKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A   + + ++G  +   + P DFGR A  +AKQV++Q++REAE 
Sbjct: 64  VVDEVQDDRVEVSLKDALAINRAYEVGDTIKFEVTPKDFGRTAAATAKQVVMQRLREAEN 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV--IRRDETISRENLRPGDRVKSY 185
                E+     E+++GTV+R +   V V++GN + V  I+RD TI  E+  P DRV+  
Sbjct: 124 AHIVNEYSQYEDELVTGTVERTDNRFVYVNIGNVEAVMDIKRD-TIPGEHYNPQDRVRVL 182

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+ +SRT P  + +LF  EVPEI++G V++ +++R+ G R K+AV S+D
Sbjct: 183 VTKVGADGKGAQIRVSRTAPDVVKRLFEQEVPEIFDGTVEIISIAREAGERTKIAVKSND 242

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DED 304
            +IDPVG CVG RGSRVQ VV EL  E IDIV +  D + ++ NAL PA V  V   DED
Sbjct: 243 PNIDPVGTCVGPRGSRVQNVVNELGGENIDIVQYEEDPSDYIANALNPAEVIAVQFEDED 302

Query: 305 VGRIE-VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             R   VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E
Sbjct: 303 DERKAFVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESE 345


>gi|237804446|ref|YP_002888600.1| transcription elongation factor NusA [Chlamydia trachomatis
           B/TZ1A828/OT]
 gi|231272746|emb|CAX09650.1| N utilization substance protein A [Chlamydia trachomatis
           B/TZ1A828/OT]
          Length = 434

 Score =  246 bits (629), Expect = 5e-63,   Method: Compositional matrix adjust.
 Identities = 149/421 (35%), Positives = 242/421 (57%), Gaps = 9/421 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L+ I D +  EK I R  ++  +  +++ AA+      +++ V INP TGDI +F   +
Sbjct: 4   DLVAIFDYMEREKGIQRSTIVGAIESALKIAAKKTLRDDANVSVSINPRTGDIEVFCEKQ 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VE+ +N + +I L  AR+ DP   IG  +  P     FGR+A  +A+Q+I QK+R AER
Sbjct: 64  IVEKCQNPSKEIPLDEAREYDPDCQIGQYMDVPFISDQFGRIAAHAARQIIGQKLRHAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           D  Y E++ +  EIISG VK    G N++VDLG  +G++        E  + GD++ + +
Sbjct: 124 DVIYEEYRHRKNEIISGVVKSFARGANLVVDLGKVEGLLPARFYPKTEKHKVGDKIYALL 183

Query: 187 YDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           Y+V+  E  G +V+LSR HP+F+ +LF  EVPE+  G V++  ++R+ G R K+AV SS+
Sbjct: 184 YEVQESENGGAEVILSRNHPEFVKQLFVQEVPELEEGSVEIVKIAREAGYRTKMAVRSSN 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
              D VGA VGMRGSR++ ++ EL DEKID+V +SP S   + N L P  + K+ + ED 
Sbjct: 244 PQTDAVGAFVGMRGSRIKNIIRELNDEKIDVVNYSPVSTELLQNLLYPVEIQKIAILEDD 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI--ITEEEDSINRQK----DFNE-R 358
             I +IV     +  IG+RG N RL SQ+ G+ +++  ++E    +  Q+    +F + R
Sbjct: 304 KVIAIIVQDSDYATVIGKRGINARLISQILGYELEVQRVSEYNKLLEIQRLQLAEFEDPR 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
               ++   ++ +I   L   G+  + ++     SE+AS+ G   E A +I  +  +Y E
Sbjct: 364 LDQPLEVEGINTLIVQNLEHAGYDTIRKILLASASELASVPGISLELAYKILEQVSKYGE 423

Query: 419 G 419
           G
Sbjct: 424 G 424


>gi|313124031|ref|YP_004034290.1| transcription elongation factor nusa [Lactobacillus delbrueckii
           subsp. bulgaricus ND02]
 gi|312280594|gb|ADQ61313.1| transcription elongation factor NusA [Lactobacillus delbrueckii
           subsp. bulgaricus ND02]
 gi|325685946|gb|EGD28009.1| N utilization substance protein A [Lactobacillus delbrueckii subsp.
           lactis DSM 20072]
          Length = 383

 Score =  246 bits (629), Expect = 5e-63,   Method: Compositional matrix adjust.
 Identities = 145/343 (42%), Positives = 215/343 (62%), Gaps = 5/343 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+  D +   K I +DV++  M  ++  A +  YG   ++ ++ N + GD  +  L  
Sbjct: 4   EMLEAFDVLEKTKGIKQDVIVEAMKAALAAAYKKNYGLAENVEIDFNEKKGDFKVMALKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A   + + ++G  +   + P DFGR A  +AKQV++Q++REAE 
Sbjct: 64  VVDEVQDDRVEVSLKDALAINRAYEVGDTIKFEVTPKDFGRTAAATAKQVVMQRLREAEN 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV--IRRDETISRENLRPGDRVKSY 185
                E+     E+++GTV+R +   V V++GN + V  I+RD TI  E+  P DRV+  
Sbjct: 124 AHIVNEYSQYEDELVTGTVERTDNRFVYVNIGNVEAVMDIKRD-TIPGEHYNPQDRVRVL 182

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+ +SRT P  + +LF  EVPEI++G V++ +++R+ G R K+AV S+D
Sbjct: 183 VTKVGADGKGAQIRVSRTAPDVVKRLFEQEVPEIFDGTVEIISIAREAGERTKIAVKSND 242

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DED 304
            +IDPVG CVG RGSRVQ VV EL  E IDIV +  D + ++ NAL PA V  V   DED
Sbjct: 243 PNIDPVGTCVGPRGSRVQNVVNELGGENIDIVQYEEDPSDYIANALNPAEVIAVQFEDED 302

Query: 305 VGRIE-VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             R   VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E
Sbjct: 303 DERKAFVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESE 345


>gi|315038575|ref|YP_004032143.1| transcription elongation factor NusA [Lactobacillus amylovorus GRL
           1112]
 gi|312276708|gb|ADQ59348.1| transcription elongation factor NusA [Lactobacillus amylovorus GRL
           1112]
          Length = 395

 Score =  246 bits (629), Expect = 6e-63,   Method: Compositional matrix adjust.
 Identities = 135/341 (39%), Positives = 210/341 (61%), Gaps = 2/341 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +   K I +DV++  +  ++  A +  Y    ++ V+ +   GD  +  +  
Sbjct: 4   EMLEAFATLEKTKGIKQDVIVDAIKAALVAAYKKNYNQAQNVEVDFDERKGDFKVMAVKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A   + + ++G  +   + P +FGR+A Q+AKQVI+Q++REAER
Sbjct: 64  VVDEVQDDRLEVSLKDALAINRAYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +    E+     E+++GTV+R +   V V +GN + V+   + +  E   P D+++  + 
Sbjct: 124 NHIIDEYSQYEDELVTGTVERRDNRFVYVKIGNVEAVMPHHDQMPNEVYNPQDQIRVLVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V  + +G Q+ +SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D +
Sbjct: 184 HVGSDSKGAQITVSRTAPDMVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVKSNDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DEDV 305
           IDPVG CVG +G+RVQ VV EL  E IDIV +  D + F+ NAL PA V  V    DED 
Sbjct: 244 IDPVGTCVGQKGARVQNVVNELGGENIDIVKYEEDPSDFIANALNPAEVIAVQFGDDEDE 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E
Sbjct: 304 KSALVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESE 344


>gi|284044673|ref|YP_003395013.1| NusA antitermination factor [Conexibacter woesei DSM 14684]
 gi|283948894|gb|ADB51638.1| NusA antitermination factor [Conexibacter woesei DSM 14684]
          Length = 503

 Score =  246 bits (629), Expect = 6e-63,   Method: Compositional matrix adjust.
 Identities = 143/362 (39%), Positives = 219/362 (60%), Gaps = 24/362 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L     +A EK+I  + ++  + D++  A +   G     +VE++ E GD +++ L +
Sbjct: 4   EILDAVRGLAAEKNISSEKLMVALEDALLSAYKKQPGAAPYAQVEMDRELGDFTVWEL-K 62

Query: 68  VVEEVENY--TCQISLKVARDRDPSIDIGGVVSDPLP--------------------PMD 105
           + E++E+   T Q  +  A       + G     P P                    P D
Sbjct: 63  IPEDLEDQLITEQEEIIAAEFSGVDPETGEARELPEPELDFEKLAEYEDQIERVDVTPED 122

Query: 106 FGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS-DGV 164
           FGR+A Q+AKQVI+Q++REAERD  + E++D+VGE+I+G V++ +    +V L    + +
Sbjct: 123 FGRIAAQTAKQVILQRIREAERDMMFEEYRDRVGELITGIVQQSDSRYTLVQLRERVEAL 182

Query: 165 IRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           + + E +  E      R+K+ I DV    +GP +++SR  P+ +  LF +EVPEI +G+V
Sbjct: 183 LPKSEQVDGERYDHSQRIKAVIKDVSASTKGPSIIVSRRDPELIKALFELEVPEIADGLV 242

Query: 225 QVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSA 284
           ++  V+R+PG R+K+AV S    +DPVGACVG RGSRV+ VV+ELR EKIDI+ ++ + A
Sbjct: 243 EITNVAREPGYRSKIAVVSHADGVDPVGACVGPRGSRVRMVVSELRGEKIDIIPYNDEPA 302

Query: 285 TFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            FV  AL PA V +V++D+D  +  VIVP +QLSLAIGR GQN RLA++LTGW IDI +E
Sbjct: 303 RFVAKALSPARVREVLVDDDGKQATVIVPDDQLSLAIGREGQNARLAARLTGWRIDIRSE 362

Query: 345 EE 346
            E
Sbjct: 363 TE 364


>gi|325957049|ref|YP_004292461.1| transcription elongation factor NusA [Lactobacillus acidophilus
           30SC]
 gi|325333614|gb|ADZ07522.1| transcription elongation factor NusA [Lactobacillus acidophilus
           30SC]
          Length = 395

 Score =  246 bits (628), Expect = 7e-63,   Method: Compositional matrix adjust.
 Identities = 135/341 (39%), Positives = 210/341 (61%), Gaps = 2/341 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +   K I +DV++  +  ++  A +  Y    ++ V+ +   GD  +  +  
Sbjct: 4   EMLEAFATLEKTKGIKQDVIVDAIKAALVAAYKKNYKQAQNVEVDFDERKGDFKVMAVKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A   + + ++G  +   + P +FGR+A Q+AKQVI+Q++REAER
Sbjct: 64  VVDEVQDDRLEVSLKDALAINRAYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +    E+     E+++GTV+R +   V V +GN + V+   + +  E   P D+++  + 
Sbjct: 124 NHIIDEYSQYEDELVTGTVERRDNRFVYVKIGNVEAVMPHHDQMPNEVYNPQDQIRVLVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V  + +G Q+ +SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D +
Sbjct: 184 HVGSDSKGAQITVSRTAPDMVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVKSNDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DEDV 305
           IDPVG CVG +G+RVQ VV EL  E IDIV +  D + F+ NAL PA V  V    DED 
Sbjct: 244 IDPVGTCVGQKGARVQNVVNELGGENIDIVKYEEDPSDFIANALNPAEVIAVQFGDDEDE 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E
Sbjct: 304 KSALVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESE 344


>gi|194467745|ref|ZP_03073731.1| NusA antitermination factor [Lactobacillus reuteri 100-23]
 gi|194452598|gb|EDX41496.1| NusA antitermination factor [Lactobacillus reuteri 100-23]
          Length = 393

 Score =  246 bits (628), Expect = 7e-63,   Method: Compositional matrix adjust.
 Identities = 142/370 (38%), Positives = 218/370 (58%), Gaps = 25/370 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E++   D +  EK I +++V+  +  +++ A +  YG   ++ VE N  TG+I ++ +  
Sbjct: 9   EMIGALDYLEKEKGIKKEIVIEALEQALESAYKQNYGD-KNVEVEFNSLTGNIKVYAVKT 67

Query: 68  VVEEVENYTCQ----ISLKVARD--RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           + ++ E         +SL  AR        DIG  + + + P DFGR+A Q+AKQV++Q+
Sbjct: 68  ITDDEEAVEADSNEFMSLADARKLPHGQGYDIGDEIREEVTPRDFGRIAAQTAKQVVMQR 127

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS-DGVIRRDETISRENLRPGD 180
           +RE ER   Y ++K    EII+G V R +     VDLG+  +G +   + +  E+    D
Sbjct: 128 LREEERKIIYDKYKTYENEIITGEVSREDKRFTYVDLGDGVEGAMGFRDKMPNEHYHVHD 187

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R++ Y+  V  ++RGPQ+ +SRT P+ + +LF  EVPEI +G V ++ ++R+ G RAK+A
Sbjct: 188 RIQVYVTKVNDDRRGPQIFVSRTAPELLKRLFEREVPEIKDGTVLIENIAREAGDRAKVA 247

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V+S+D ++DPVG CVG RGSRVQA+V EL  E +DIV +  D A F+ NAL PA V  V+
Sbjct: 248 VYSNDPNVDPVGTCVGPRGSRVQAIVNELDGENMDIVEYVKDPAKFIANALNPAEVLDVI 307

Query: 301 LDED-----------------VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
            +ED                      V+VP  QLSLAIG+RGQN RLA++LT + IDI +
Sbjct: 308 FNEDKPASENEESEETTEGQTERSCTVVVPDNQLSLAIGKRGQNARLAARLTKYKIDIKS 367

Query: 344 EEEDSINRQK 353
           E E + N Q+
Sbjct: 368 ESEMAENDQE 377


>gi|326799022|ref|YP_004316841.1| NusA antitermination factor [Sphingobacterium sp. 21]
 gi|326549786|gb|ADZ78171.1| NusA antitermination factor [Sphingobacterium sp. 21]
          Length = 411

 Score =  246 bits (628), Expect = 8e-63,   Method: Compositional matrix adjust.
 Identities = 127/333 (38%), Positives = 215/333 (64%), Gaps = 5/333 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYTC 77
           K+IDR  V+SV+ +  +   R  +GT  +  V +NP+ GD+ ++R   VVE+   E+   
Sbjct: 17  KNIDRPTVISVLEEVFRSMIRKRFGTDENCDVIVNPDNGDLEIWRTRTVVEDEFSEDDDL 76

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +I L  AR  DP ++IG    + +    FGR A+ +A+Q ++ KV E E+D  + ++KD+
Sbjct: 77  EIELAEARKVDPDLEIGDDFIEEITLESFGRRAILAARQTLVSKVLELEKDEIFKKYKDR 136

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VGEI++G V ++     +V  D GN + ++ + E I  +  + GD +++ +Y V      
Sbjct: 137 VGEIVTGEVYQIWKKETLVLDDEGN-ELILPKTEQIPADYFKKGDTIRAVVYKVDMMNTT 195

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P++++SRT P+F+ +LF +EVPEI++G++ +K + R+PG RAK+AV S D  IDPVGACV
Sbjct: 196 PKIIISRTAPEFLQRLFELEVPEIFDGLITIKKIVREPGERAKVAVESYDDRIDPVGACV 255

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           GM+GSR+  +V ELR+E ID++ ++ + + ++  AL PA ++ + LD++  R  V +  +
Sbjct: 256 GMKGSRIHGIVRELRNENIDVINFTNNISLYIQRALSPARISSIKLDDEEKRAAVYLQSD 315

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           Q+SLAIGR G N++LA +LTG+ ID+  E +++
Sbjct: 316 QVSLAIGRGGHNIKLAGKLTGYEIDVYRESDEN 348


>gi|325269683|ref|ZP_08136296.1| N utilization substance protein A [Prevotella multiformis DSM
           16608]
 gi|324988051|gb|EGC20021.1| N utilization substance protein A [Prevotella multiformis DSM
           16608]
          Length = 421

 Score =  246 bits (627), Expect = 8e-63,   Method: Compositional matrix adjust.
 Identities = 134/328 (40%), Positives = 208/328 (63%), Gaps = 3/328 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYTC 77
           KSIDR  ++SV+ +S +     ++G+  +  V +NP+ GD  + R   VV   EVE+   
Sbjct: 24  KSIDRTTLVSVLEESFRNVLAKIFGSDENFDVIVNPDKGDFEIHRNRVVVADGEVEDENK 83

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QISL  AR  +   ++G  VS+ +    FGR A+ + +Q +  K+ E E D  Y ++KD+
Sbjct: 84  QISLTDARKIEDDYEVGEDVSEEVDFNKFGRRAILNLRQTLASKILELEHDSLYNKYKDR 143

Query: 138 VGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG+IISG V +     V+ VD  N++ ++ + E I R+  R G+ V++ I  V  E   P
Sbjct: 144 VGQIISGEVYQTWKREVLLVDDENNELILPKGEQIPRDQYRKGETVRAVILRVDNENNNP 203

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +++LSRT P+F+ +L   EVPEI +G++ ++ ++R PG RAK+AV S D  IDPVGACVG
Sbjct: 204 KIILSRTAPEFLERLLEAEVPEISDGLIAIRKIARMPGERAKIAVESFDDRIDPVGACVG 263

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           +RGSRV  +V EL +E +D++ W+ ++  F+  AL PA V+ + +DE+  + EV +  E+
Sbjct: 264 VRGSRVHGIVRELCNENLDVINWTANTKLFIQRALSPAKVSSLNVDEENKKAEVYLQPEE 323

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +SLAIGR G N++LAS LTG+TID+  E
Sbjct: 324 VSLAIGRGGMNIKLASMLTGYTIDVFRE 351


>gi|160943264|ref|ZP_02090500.1| hypothetical protein FAEPRAM212_00750 [Faecalibacterium prausnitzii
           M21/2]
 gi|158445503|gb|EDP22506.1| hypothetical protein FAEPRAM212_00750 [Faecalibacterium prausnitzii
           M21/2]
 gi|295105168|emb|CBL02712.1| transcription termination factor NusA [Faecalibacterium prausnitzii
           SL3/3]
          Length = 368

 Score =  246 bits (627), Expect = 9e-63,   Method: Compositional matrix adjust.
 Identities = 146/351 (41%), Positives = 220/351 (62%), Gaps = 8/351 (2%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD-IRVEINPETG- 58
           M +AN+ +  +    + +E+ I  + ++  +  +I  A +  Y    D IRV+I+P+TG 
Sbjct: 1   MTAANK-DFFEALSMLEHERGITAEYLIEKIKAAIIIAVKKNYEVEEDHIRVDIDPDTGR 59

Query: 59  -DISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQV 117
            D++L + +   E+  +   +I +  AR    S ++G  +  PL   DFGR+A Q+AK V
Sbjct: 60  FDVALIQDIVADEDWYDEHAEIGVTEARKIRSSYEVGDRIITPLKTRDFGRIAAQTAKHV 119

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRV--EYGNVIVDLGNS-DGVIRRDETISRE 174
           I Q +REAER++Q  E + +  +I+  TV RV  E G V +DLG   + V+ R+E +  E
Sbjct: 120 IRQGIREAERNQQLSEIQSRAHDIVQATVTRVDTEKGIVALDLGKGGEAVLPRNEQVPGE 179

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
               G+ ++ YI DV   +RGP+V++SRTHP  + +LF +EVPEI++G V+VKA+SR+ G
Sbjct: 180 VYTEGETLQVYIVDVVSTERGPRVMISRTHPGLVKRLFELEVPEIFDGTVEVKAISREAG 239

Query: 235 SRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA 294
           +R K+AV+S D +++PV AC+G  G+RV AVV +L  EKIDIV WS D + F+  AL PA
Sbjct: 240 ARTKMAVWSKDPNVNPVSACIGEHGARVAAVVEKLGGEKIDIVKWSEDISEFISAALSPA 299

Query: 295 IVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            V KV +L  +     V VP +QLSLAIG +GQN RL ++LTG+ IDI  E
Sbjct: 300 KVVKVELLPGETRSCRVTVPDQQLSLAIGNKGQNARLCARLTGYNIDIRPE 350


>gi|323343775|ref|ZP_08084002.1| transcription elongation factor NusA [Prevotella oralis ATCC 33269]
 gi|323095594|gb|EFZ38168.1| transcription elongation factor NusA [Prevotella oralis ATCC 33269]
          Length = 421

 Score =  246 bits (627), Expect = 9e-63,   Method: Compositional matrix adjust.
 Identities = 134/335 (40%), Positives = 212/335 (63%), Gaps = 6/335 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYTC 77
           K+IDR  ++SV+ +S +     +YG+  +  V +NP+ GD  ++R   VV   EV +   
Sbjct: 24  KNIDRTTLVSVLEESFRNVLAKIYGSDENFDVIVNPDKGDFEIYRNRMVVADGEVADENK 83

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +I+LK A+  +P  +IG  VS+P+    FGR A+ + +Q +  KV E E D  Y ++KD+
Sbjct: 84  EIALKEAQKIEPDYEIGEEVSEPVNFAKFGRRAILNLRQTLASKVLELEHDSLYNKYKDR 143

Query: 138 VGEIISGTVKRVEYGNV-IVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG++ISG V ++    V +VD  N++ ++ + E I  +  R G+ +++ I  V  E   P
Sbjct: 144 VGQVISGEVYQIWKREVLVVDDENNELILPKSEQIPSDQYRKGETIRAVILRVDNENNNP 203

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +++LSRT P F+ +L   EVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACVG
Sbjct: 204 KIILSRTSPMFLERLLEAEVPEINDGLISIKKIARMPGERAKIAVESYDERIDPVGACVG 263

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           ++GSRV  +V EL +E ID++ ++ +   F+  AL PA VT + +DE+  + EV +  E+
Sbjct: 264 VKGSRVHGIVRELCNENIDVINYTSNVKLFIQRALSPAKVTSITVDEENHKAEVYLQPEE 323

Query: 317 LSLAIGRRGQNVRLASQLTGWTID---IITEEEDS 348
           +SLAIGR G N++LAS LT +TID   ++ E ED+
Sbjct: 324 VSLAIGRSGLNIKLASMLTEFTIDVFRVLDENEDN 358


>gi|148543928|ref|YP_001271298.1| NusA antitermination factor [Lactobacillus reuteri DSM 20016]
 gi|184153324|ref|YP_001841665.1| transcription termination-antitermination factor [Lactobacillus
           reuteri JCM 1112]
 gi|227364837|ref|ZP_03848884.1| transcription termination factor NusA [Lactobacillus reuteri MM2-3]
 gi|325682537|ref|ZP_08162054.1| N utilization substance protein A [Lactobacillus reuteri MM4-1A]
 gi|148530962|gb|ABQ82961.1| NusA antitermination factor [Lactobacillus reuteri DSM 20016]
 gi|183224668|dbj|BAG25185.1| transcription termination-antitermination factor [Lactobacillus
           reuteri JCM 1112]
 gi|227070100|gb|EEI08476.1| transcription termination factor NusA [Lactobacillus reuteri MM2-3]
 gi|324978376|gb|EGC15326.1| N utilization substance protein A [Lactobacillus reuteri MM4-1A]
          Length = 395

 Score =  246 bits (627), Expect = 1e-62,   Method: Compositional matrix adjust.
 Identities = 142/372 (38%), Positives = 218/372 (58%), Gaps = 27/372 (7%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E++   D +  EK I +++V+  +  +++ A +  YG   ++ VE N  TG+I ++ +  
Sbjct: 9   EMIGALDYLEKEKGIKKEIVIEALEQALESAYKQNYGD-KNVEVEFNSLTGNIKVYAVKT 67

Query: 68  VVEEVENYTCQ----ISLKVARD--RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           + ++ E         +SL  AR        DIG  + + + P DFGR+A Q+AKQV++Q+
Sbjct: 68  ITDDEEAVEADSNEFMSLADARKLPHGQGYDIGDEIREEVTPRDFGRIAAQTAKQVVMQR 127

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS-DGVIRRDETISRENLRPGD 180
           +RE ER   Y  +K    EII+G V R +     VDLG+  +G +   + +  E+    D
Sbjct: 128 LREEERKIIYDRYKTYENEIITGEVSREDKRFTYVDLGDGVEGAMGFRDKMPNEHYHVHD 187

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R++ Y+  V  ++RGPQ+ +SRT P+ + +LF  EVPEI +G V ++ ++R+ G RAK+A
Sbjct: 188 RIQVYVTKVNDDRRGPQIFVSRTAPELLKRLFEREVPEIKDGTVLIENIAREAGDRAKVA 247

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V+S+D ++DPVG CVG RGSRVQA+V EL  E +DIV +  D A F+ NAL PA V  V+
Sbjct: 248 VYSNDPNVDPVGTCVGPRGSRVQAIVNELDGENMDIVEYVKDPAKFIANALNPAEVLDVI 307

Query: 301 LDEDVGRIE-------------------VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            +E+    E                   V+VP  QLSLAIG+RGQN RLA++LT + IDI
Sbjct: 308 FNEEKAASETEDSEGEETTEGQTERSCTVVVPDSQLSLAIGKRGQNARLAARLTKYKIDI 367

Query: 342 ITEEEDSINRQK 353
            +E E + N Q+
Sbjct: 368 KSESEMAENDQE 379


>gi|330718231|ref|ZP_08312831.1| transcription elongation factor NusA [Leuconostoc fallax KCTC 3537]
          Length = 375

 Score =  245 bits (626), Expect = 1e-62,   Method: Compositional matrix adjust.
 Identities = 139/344 (40%), Positives = 216/344 (62%), Gaps = 5/344 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFRLL 66
           EL+   DA+  E+ IDR +V+  +  ++  A +  +  T S++ V  N   G I++ ++ 
Sbjct: 4   ELVDALDALENERGIDRQIVVDALELALAAAYKKQFNATQSNVDVTFNDRNGSITIKQIK 63

Query: 67  EVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
            VV  E+ E+   +I L  A   + + + G  +   + P +FGR+A Q+AKQVI+QK+RE
Sbjct: 64  TVVLDEDFEDEVIEIPLSEALAINRAYEAGDEIRFDVTPKNFGRIAAQTAKQVIMQKLRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRVK 183
           A R+  Y +F +   EII+G V+R +   + V L GN + V+ +++ +  E+ R  DR+K
Sbjct: 124 AGREAIYKKFSEYQDEIITGEVERQDARFLYVMLPGNQEAVMAQNDQMPNEHYRMHDRIK 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
             +  V    +GPQ+ +SR     + +LF  EVPE+Y+G V++ +++R+ G R+K+AV++
Sbjct: 184 VLVSKVENSPKGPQIFVSRAAEDLVKRLFEQEVPEVYDGTVEIMSIAREAGDRSKIAVYT 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD- 302
            DS +DPVGA VG RG+RVQAVV EL  E +DIV W  D A ++ NAL P+ V  V+ D 
Sbjct: 244 HDSDLDPVGALVGQRGTRVQAVVNELGGENMDIVEWVEDEAQYIANALNPSEVVDVIFDP 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           E+   + VIVP  QLSLAIG++GQN RLA++LTG+ IDI +E E
Sbjct: 304 ENNHAVTVIVPDNQLSLAIGKKGQNARLAARLTGFKIDIKSESE 347


>gi|325677914|ref|ZP_08157556.1| transcription termination factor NusA [Ruminococcus albus 8]
 gi|324110468|gb|EGC04642.1| transcription termination factor NusA [Ruminococcus albus 8]
          Length = 372

 Score =  244 bits (624), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 148/355 (41%), Positives = 215/355 (60%), Gaps = 29/355 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV--- 68
           +AD V+ E  IDR+V++  + D+I KA +   G+  ++RV+I+P TG + ++ L EV   
Sbjct: 9   LADLVS-ENEIDREVLIEKIRDAITKAIKKETGS-ENVRVDIDPATGKLEMYILKEVMKV 66

Query: 69  --VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
             V+E EN   +I +  A+  DP I +G  V  P+ P   GRVA Q AKQ I   +++ E
Sbjct: 67  MFVDEPEN---EIYIGEAQAYDPDIKVGDFVEIPVNPAKIGRVAAQFAKQSIKHDIKDFE 123

Query: 127 RDRQYLEFKDKVGEIISGTVKRVE--YGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           R++   ++KD+  EI++ TV++VE   GN I+ +  ++    R E I  E L+ GD++K 
Sbjct: 124 RNKLIEQYKDREHEIVTATVQKVEPATGNAIITIDKNEHYFYRSEQIPGEVLKEGDKIKV 183

Query: 185 YIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           YI  +   E+R P V LSRTH   + +LF +EVPEI +G V+VKA+SR  G R+K+AV+S
Sbjct: 184 YIVSLGDSEKRQPVVKLSRTHKDLVKRLFELEVPEIADGTVEVKAISRTEGVRSKIAVWS 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D ++D VGAC+G + SR+ AV  EL+ EKID++ W  D   F+  AL PA V KV L E
Sbjct: 244 KDPNVDAVGACIGPKKSRITAVCQELKGEKIDVINWVEDEEQFIAKALAPAEVLKVELLE 303

Query: 304 DVGRIE----------------VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
              RIE                V+VP  Q SLAIG +GQN +LA+ LTG+ IDI+
Sbjct: 304 PEVRIEHKGEEKEFERVIKKCRVVVPNNQFSLAIGNKGQNAKLAAGLTGYKIDIV 358


>gi|15834991|ref|NP_296750.1| transcription elongation factor NusA [Chlamydia muridarum Nigg]
 gi|270285160|ref|ZP_06194554.1| transcription elongation factor NusA [Chlamydia muridarum Nigg]
 gi|270289179|ref|ZP_06195481.1| transcription elongation factor NusA [Chlamydia muridarum Weiss]
 gi|301336555|ref|ZP_07224757.1| transcription elongation factor NusA [Chlamydia muridarum
           MopnTet14]
 gi|7190412|gb|AAF39230.1| N utilization substance protein A [Chlamydia muridarum Nigg]
          Length = 434

 Score =  244 bits (624), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 146/418 (34%), Positives = 240/418 (57%), Gaps = 9/418 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L+ I D +  EK I R  ++  +  +++ AA+      +++ V INP TGDI +F   +
Sbjct: 4   DLVAIFDYMEREKGIQRSTIVGAIESALKIAAKKTLRDDANVSVSINPRTGDIEVFCEKQ 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VE+ +N + +I L  AR+ DP   IG  +  P     FGR+A  +A+Q+I QK+R AER
Sbjct: 64  IVEKCQNPSKEIPLDKAREYDPDCQIGQYMDVPFVSDQFGRIAAHAARQIIGQKLRHAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           D  Y E++ +  EIISG +K    G N++VDLG  +G++        E  + GD++ + +
Sbjct: 124 DVIYEEYRHRKNEIISGVIKSFSRGSNLVVDLGKVEGLLPARFYPKTEKHKVGDKIYALL 183

Query: 187 YDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           Y+V+  E  G +V+LSR+HP+F+ +LF  EVPE+  G V++  ++R+ G R K+AV SS 
Sbjct: 184 YEVQESENGGAEVILSRSHPEFVKQLFMQEVPELEEGSVEIVKIAREAGYRTKMAVRSSS 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
              D VGA VGMRGSR++ ++ EL DEKID+V +SP S   + N L P  + K+ + ED 
Sbjct: 244 PQTDAVGAFVGMRGSRIKNIIRELNDEKIDVVNYSPVSTELLQNLLYPVEIQKIAILEDD 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI--ITEEEDSINRQK----DFNE-R 358
             I +IV     +  IG+RG N RL SQ+ G+ +++  ++E    +  Q+    +F + R
Sbjct: 304 KVIAIIVQDSDYATVIGKRGINARLISQILGYELEVQRMSEYNKLLEIQRLQLAEFEDPR 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
               ++   ++ +I   L   G+  + ++     SE+AS+ G   E A +I  +  +Y
Sbjct: 364 LDQPLEVEGINTLIVQNLEHAGYDTIRKILLASASELASVPGISLELAYKILEQVSKY 421


>gi|325294242|ref|YP_004280756.1| NusA antitermination factor [Desulfurobacterium thermolithotrophum
           DSM 11699]
 gi|325064690|gb|ADY72697.1| NusA antitermination factor [Desulfurobacterium thermolithotrophum
           DSM 11699]
          Length = 374

 Score =  244 bits (624), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 151/347 (43%), Positives = 220/347 (63%), Gaps = 22/347 (6%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I ++ V+  +   I  AAR   G    + V+I+ +  D  +F+   VVE+V++   +
Sbjct: 14  EKGISKEDVVKAVKVGIINAARKA-GYKGHLVVKIDEDGKDFGIFQEKTVVEDVKDIDYE 72

Query: 79  ISLKVARDR-DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           ISL+ A++    S+ +G  V   +   + GR+A ++A QVI +K+ EAER   Y  FK+K
Sbjct: 73  ISLEEAKELFGDSVKLGDKVLVEIKTEELGRIAAKAAAQVIHEKISEAERKALYDYFKEK 132

Query: 138 VGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDV----RRE 192
           VG+IISGTVK ++  G+VI+DLG   G++ ++E IS+E  R GDRV++YIYDV    +R 
Sbjct: 133 VGDIISGTVKEIKRNGDVILDLGRIVGILPKEEQISKEKYRIGDRVRAYIYDVVFDYKRY 192

Query: 193 QR----------GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
            R           P V+LSRTHP+F+ +L  +E+PE+ +G+V++KAV+R+PG RAK+AV 
Sbjct: 193 NRRKPSKIDDYPPPYVILSRTHPKFLKRLMEIEIPEVADGLVEIKAVAREPGIRAKVAVD 252

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S +  IDPVGAC+G++GSR+  +  EL  EKI+I+ W+ D A  V   L PA V +    
Sbjct: 253 SKEEYIDPVGACIGVKGSRILPISRELSGEKIEIIRWTDDVAELVARVLSPAKVLQSESY 312

Query: 303 EDVG---RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT--IDIITE 344
           ED     R+EV+VP +QLSLAIG+ G N RLAS+L G    IDII E
Sbjct: 313 EDENGELRVEVVVPDDQLSLAIGKHGVNARLASKLVGQIVGIDIIKE 359


>gi|304383857|ref|ZP_07366314.1| transcription termination factor NusA [Prevotella marshii DSM
           16973]
 gi|304334935|gb|EFM01208.1| transcription termination factor NusA [Prevotella marshii DSM
           16973]
          Length = 420

 Score =  244 bits (624), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 137/331 (41%), Positives = 209/331 (63%), Gaps = 3/331 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYTC 77
           K+IDR  ++SV+ +S +     L+G+  +  V +NP+ GD  ++R   VV   EV++   
Sbjct: 24  KNIDRTTLVSVLEESFRNVIAKLFGSDENFDVIVNPDKGDFEIYRNRVVVADGEVQDENK 83

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +ISL  A+  +   +IG  VS+P+    FGR AV + +Q +  KV E E D  Y ++KD+
Sbjct: 84  EISLSEAQKIEKDYEIGEEVSEPVDFAKFGRRAVLNLRQTLASKVLELEHDSLYNKYKDR 143

Query: 138 VGEIISGTVKRVEYGNV-IVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG+IISG V +V    V IVD  N++ ++ + E I  +  R G+ +++ I  V  E   P
Sbjct: 144 VGQIISGEVYQVWKREVLIVDDENNELILPKSEQIPADQYRKGETIRTVILRVDNENNNP 203

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +++LSRT P F+ +L   EVPEI +G++ V+ ++R PG RAK+AV S D  IDPVGACVG
Sbjct: 204 KIILSRTSPMFLQRLLEAEVPEIGDGLITVRKIARIPGERAKVAVESYDERIDPVGACVG 263

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           +RGSRV  +V EL +E ID++ ++ +   F+  AL PA V+ + +DE+  + EV +  E+
Sbjct: 264 VRGSRVHGIVYELCNENIDVINYTSNVKLFIQRALSPAKVSSINIDEENRKAEVFLKPEE 323

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
           +SLAIGR G N++LAS LT +TID+  E ED
Sbjct: 324 VSLAIGRSGMNIKLASMLTEYTIDVFREIED 354


>gi|227544951|ref|ZP_03975000.1| transcription termination factor NusA [Lactobacillus reuteri
           CF48-3A]
 gi|300910018|ref|ZP_07127478.1| transcription termination factor NusA [Lactobacillus reuteri
           SD2112]
 gi|227185062|gb|EEI65133.1| transcription termination factor NusA [Lactobacillus reuteri
           CF48-3A]
 gi|300892666|gb|EFK86026.1| transcription termination factor NusA [Lactobacillus reuteri
           SD2112]
          Length = 395

 Score =  244 bits (624), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 141/372 (37%), Positives = 219/372 (58%), Gaps = 27/372 (7%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E++   D +  EK I +++V+  +  +++ A +  YG   ++ VE N  TG+I ++ +  
Sbjct: 9   EMIGALDYLEKEKGIKKEIVIEALEQALESAYKQNYGD-KNVEVEFNSLTGNIKVYAVKT 67

Query: 68  VVEEVENYTCQ----ISLKVARD--RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           + ++ E         +SL  AR        DIG  + + + P DFGR+A Q+AKQV++Q+
Sbjct: 68  ITDDEEAVEADSNEFMSLADARKLPHGQGYDIGDEIREEVTPRDFGRIAAQTAKQVVMQR 127

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS-DGVIRRDETISRENLRPGD 180
           +RE ER   Y ++K    EII+G V R +     VDLG+  +G +   + +  E+    D
Sbjct: 128 LREEERKIIYDKYKTYENEIITGEVSREDKRFTYVDLGDGVEGAMGFRDKMPNEHYHVHD 187

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R++ Y+  V  ++RGPQ+ +SRT P+ + +LF  EVPEI +G V ++ ++R+ G RAK+A
Sbjct: 188 RIQVYVTKVNDDRRGPQIFVSRTAPELLKRLFEREVPEIKDGTVLIENIAREAGDRAKVA 247

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V+S+D ++DPVG CVG RGSRVQA+V EL  E +DIV +  + A F+ NAL PA V  V+
Sbjct: 248 VYSNDPNVDPVGTCVGPRGSRVQAIVNELDGENMDIVEYVKEPAKFIANALNPAEVLDVI 307

Query: 301 LDEDVGRIE-------------------VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            +E+    E                   V+VP  QLSLAIG+RGQN RLA++LT + IDI
Sbjct: 308 FNEEKAASETEDSEGEETTEGQTERSCTVVVPDSQLSLAIGKRGQNARLAARLTKYKIDI 367

Query: 342 ITEEEDSINRQK 353
            +E E + N Q+
Sbjct: 368 KSESEMAENDQE 379


>gi|257791560|ref|YP_003182166.1| NusA antitermination factor [Eggerthella lenta DSM 2243]
 gi|317490693|ref|ZP_07949159.1| transcription termination factor NusA [Eggerthella sp. 1_3_56FAA]
 gi|325833259|ref|ZP_08165765.1| transcription termination factor NusA [Eggerthella sp. HGA1]
 gi|257475457|gb|ACV55777.1| NusA antitermination factor [Eggerthella lenta DSM 2243]
 gi|316910224|gb|EFV31867.1| transcription termination factor NusA [Eggerthella sp. 1_3_56FAA]
 gi|325485641|gb|EGC88109.1| transcription termination factor NusA [Eggerthella sp. HGA1]
          Length = 405

 Score =  244 bits (623), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 149/364 (40%), Positives = 219/364 (60%), Gaps = 43/364 (11%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M S+  +E LQ   A+A+E+ ID   ++  +  S+ K+ + +     D RV I+ +TG I
Sbjct: 1   MASSELIEALQ---ALAHERKIDEFYLIERLEASLAKSYQHILDLEWDARVTIDRQTGHI 57

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            ++ L+ V E  E  T + S    RD              + P D  R+A Q+AK VI  
Sbjct: 58  YVYELVPVGEPDEE-TGEYSEFEERD--------------VTPDDVSRIAAQNAKGVIAS 102

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV-------------IRR 167
            VREA R   Y EF D+VG++++GTV +      I+ +   DGV               R
Sbjct: 103 IVREAGRQSIYEEFSDRVGDLVTGTVLQGTPDFTIIKI--RDGVEAELPHYDVKRNPNER 160

Query: 168 DETISRENLRPGDRVKSYIYDVRR----------EQRGPQVLLSRTHPQFMVKLFHMEVP 217
           +E  S E+ R   R+K  I +VR           EQ  P +++SRTHP  + +LF +EVP
Sbjct: 161 NERPSNEHYRHNQRLKVLIIEVRDPNSDAPKMRGEQARPAIVVSRTHPDLIRRLFEIEVP 220

Query: 218 EIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIV 277
           EIY+G+V++K+++R+PG+R+K+AV S ++++DPVGACVG +GSRV+ VV ELR+E++D++
Sbjct: 221 EIYDGMVEIKSIAREPGARSKIAVASREANLDPVGACVGPKGSRVRMVVEELRNERVDVI 280

Query: 278 VWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
            W+ D A +V NAL PA VT+VV+DED     V+VP +QLSLAIG+ GQN RLA++LTGW
Sbjct: 281 QWAEDPAVYVANALSPAKVTRVVIDEDNHYATVVVPDDQLSLAIGKEGQNARLAARLTGW 340

Query: 338 TIDI 341
            IDI
Sbjct: 341 HIDI 344


>gi|312880100|ref|ZP_07739900.1| NusA antitermination factor [Aminomonas paucivorans DSM 12260]
 gi|310783391|gb|EFQ23789.1| NusA antitermination factor [Aminomonas paucivorans DSM 12260]
          Length = 375

 Score =  244 bits (623), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 131/343 (38%), Positives = 225/343 (65%), Gaps = 5/343 (1%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK +  +++ S +  ++  A +   G    + V ++ E G+ISL  + +VV E+EN   +
Sbjct: 17  EKGLSEEIIASSLEAALVSAYKKFKGGNQTVEVFLDFENGEISLCEVRQVVGEIENPDQE 76

Query: 79  ISLKVARDRD-PSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           ++L  A       ++ G V+   + P +FGR+A Q+A+QVIIQ++++AER   + EF D+
Sbjct: 77  VTLDEAHAMGFADVESGDVIRIEVFPENFGRIAAQTARQVIIQRLKDAERQVIFEEFADR 136

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           +G++++G++ + E   ++V +   ++ ++ R+E I  E   PGDR+K ++ DVR+  RGP
Sbjct: 137 IGDLVTGSIFKTEGDQILVRVNERTEAILPREERIVGEAYHPGDRLKFFLLDVRQTTRGP 196

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           ++++SRTHP  + +L  +E+PEI  G ++++ + R+ G+RAK+AV S D+++DPVGACVG
Sbjct: 197 RIVVSRTHPGLLRRLLELEIPEIQEGTIEIRNIVREAGARAKVAVASLDTNVDPVGACVG 256

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV--VLDEDVGRIEVIVPK 314
            RG+R++++  EL  E+ID++VWS D   +V NAL PA + K+  +L+++   + V V  
Sbjct: 257 SRGTRIKSISGELGGERIDVIVWSSDPLAYVRNALSPAKIAKIEPILEQEKA-LRVFVRP 315

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +QLSL+IG+ GQNVRLA++LTGW IDI   E + +   KD  E
Sbjct: 316 DQLSLSIGKAGQNVRLAARLTGWKIDIKVLEPERLPTLKDLFE 358


>gi|312865489|ref|ZP_07725716.1| transcription termination factor NusA [Streptococcus downei F0415]
 gi|311099007|gb|EFQ57224.1| transcription termination factor NusA [Streptococcus downei F0415]
          Length = 429

 Score =  244 bits (622), Expect = 3e-62,   Method: Compositional matrix adjust.
 Identities = 130/349 (37%), Positives = 207/349 (59%), Gaps = 15/349 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK ID++ ++  + +S++ A +  YG      VE N +TGD  ++ + E
Sbjct: 4   EMLEAFRVLEEEKHIDKNDIIDAVTESLKSAYKRRYGQSDSCEVEFNEKTGDFQVYSVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISL  A     + ++G  +       +FGRVA QSAKQ I++K+R   R
Sbjct: 64  VVEEVFDSRLEISLADALKISSAYELGDKIRFEESVKEFGRVAAQSAKQTIMEKMRRQMR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y E+K+  GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR++ Y+Y
Sbjct: 124 EITYNEYKEHEGEIMTGTVERFDQRFIYVNLGSIEAQLSHQDQIPGETFKSHDRIEVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HPQF+ ++   E+PE+++G V++ +VSR+ G R K+AV S + +
Sbjct: 184 KVENNPRGVNVFVSRSHPQFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ VV++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGANIKKVVSKFHPVRLDPKSGLAVPVEENIDVIQWEEDPAEFIYNAIAP 303

Query: 294 AIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           A V  V+  DE+     V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI
Sbjct: 304 AEVDYVIFDDENSKHATVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDI 352


>gi|238916823|ref|YP_002930340.1| N utilization substance protein A [Eubacterium eligens ATCC 27750]
 gi|238872183|gb|ACR71893.1| N utilization substance protein A [Eubacterium eligens ATCC 27750]
          Length = 381

 Score =  244 bits (622), Expect = 4e-62,   Method: Compositional matrix adjust.
 Identities = 135/348 (38%), Positives = 219/348 (62%), Gaps = 14/348 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+   DA+  E  ID++++ + +  S+    ++ +    + RVE++  TGD  ++    
Sbjct: 4   ELIMALDALEKENGIDKEIMFAAIEKSLMDEYKAEFDKADNGRVELDRRTGDFHIYSDRT 63

Query: 68  VVEEV----------ENYT--CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAK 115
           VVEEV          E Y     I+L+ AR   P   +G V++  +   +F R A ++AK
Sbjct: 64  VVEEVIVPENRENKKEKYVSGTDIALEDARKIKPDCQLGDVITVEVKSEEFSRKAAKNAK 123

Query: 116 QVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRE 174
             I+Q +RE E++  Y E+  K  E+I+G V+RV + G++ +DLG    V++ D+    +
Sbjct: 124 NTIVQTIREQEKNALYNEYHSKEKELITGIVQRVADNGDLTIDLGRLQTVLKADDKFKDK 183

Query: 175 NLRPGDRVKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDP 233
              PGDR+K Y+ DV  RE+ GP V +SR   + + KLF  EV EI +G+V++  ++R+ 
Sbjct: 184 KFVPGDRIKLYVVDVINREKGGPVVRVSRKSQELVKKLFEEEVTEIKDGVVEIMGIAREA 243

Query: 234 GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP 293
           GSR K+AV ++ +++DPVGACVG+ G+RV+A+V EL +E+IDI+ W  +SA  ++NAL P
Sbjct: 244 GSRTKMAVRANVANVDPVGACVGINGARVKAIVNELGNEQIDIIEWDSNSAQLIVNALSP 303

Query: 294 AIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           A V   V D++  + +++V ++QLSLAIG++GQNVRLA++LTG+ IDI
Sbjct: 304 AKVVSAVADDEEKKAKIVVSEQQLSLAIGKQGQNVRLAAKLTGYGIDI 351


>gi|332523131|ref|ZP_08399383.1| transcription termination factor NusA [Streptococcus porcinus str.
           Jelinkova 176]
 gi|332314395|gb|EGJ27380.1| transcription termination factor NusA [Streptococcus porcinus str.
           Jelinkova 176]
          Length = 384

 Score =  244 bits (622), Expect = 4e-62,   Method: Compositional matrix adjust.
 Identities = 130/349 (37%), Positives = 208/349 (59%), Gaps = 15/349 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK I++D ++  + +S++ A +  YG      +E N +TGD  +F + E
Sbjct: 4   EMLEAFRILEEEKHINKDDIIEAVTESLKSAYKRRYGQSESCVIEFNEKTGDFQVFSVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISL  A     + ++G  +       +FGRVA QSAKQ I++K+R   R
Sbjct: 64  VVEEVFDSRLEISLSDALAISSAYELGDKIRFEESVAEFGRVAAQSAKQTIMEKMRRQMR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y E+K+  GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR++ Y+Y
Sbjct: 124 EITYNEYKEHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIEVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S + +
Sbjct: 184 KVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGSNIKKVISKFHPKRYDAKTGIEIPVEENIDVIQWVDDPAEFIYNAIAP 303

Query: 294 AIVTKVVLDE-DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           A V  V+ DE D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI
Sbjct: 304 AEVDMVLFDEIDSKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDI 352


>gi|260591778|ref|ZP_05857236.1| transcription termination factor NusA [Prevotella veroralis F0319]
 gi|260536062|gb|EEX18679.1| transcription termination factor NusA [Prevotella veroralis F0319]
          Length = 421

 Score =  243 bits (621), Expect = 4e-62,   Method: Compositional matrix adjust.
 Identities = 131/328 (39%), Positives = 207/328 (63%), Gaps = 3/328 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYTC 77
           KSIDR  ++SV+ +S +     ++G+  +  V +NP+ GD  + R   VV   EV++   
Sbjct: 24  KSIDRTTLVSVLEESFRNVLAKIFGSDENFDVIVNPDKGDFEIHRNRVVVADGEVKDENK 83

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +ISL  AR  +   ++G  VS+ +    FGR A+ + +Q +  K+ E E D  Y ++KD+
Sbjct: 84  EISLTDARKIEADYEVGEDVSEEVDFNKFGRRAILNLRQTLASKILELEHDSLYNKYKDR 143

Query: 138 VGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG+IISG V +     V+ VD  N++ ++ + E I R+  R G+ +++ I  V  E   P
Sbjct: 144 VGQIISGEVYQTWKREVLLVDDENNELILPKGEQIPRDQYRKGETIRAVILRVDNENNNP 203

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +++LSRT P+F+ +L   EVPEI  G++ ++ ++R PG RAK+AV S D  IDPVGACVG
Sbjct: 204 KIILSRTAPEFLERLLEAEVPEIAEGLIAIRKIARMPGERAKIAVESFDDRIDPVGACVG 263

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           +RGSRV  +V EL +E +D++ W+ ++  F+  AL PA V+ + +DE+  + EV +  E+
Sbjct: 264 VRGSRVHGIVRELCNENLDVINWTANTKLFIQRALAPAKVSSLTIDEENKKAEVYLQPEE 323

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +SLAIGR G N++LAS LTG+TID+  E
Sbjct: 324 VSLAIGRGGMNIKLASMLTGYTIDVFRE 351


>gi|255033849|ref|YP_003084470.1| transcription elongation factor NusA [Dyadobacter fermentans DSM
           18053]
 gi|254946605|gb|ACT91305.1| NusA antitermination factor [Dyadobacter fermentans DSM 18053]
          Length = 413

 Score =  243 bits (621), Expect = 4e-62,   Method: Compositional matrix adjust.
 Identities = 136/346 (39%), Positives = 220/346 (63%), Gaps = 6/346 (1%)

Query: 17  AYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV----EEV 72
           A  K+IDR  ++SV+ +  +   R  YGT  +  V INPE+GD+ ++R  E+V    E++
Sbjct: 14  ASSKNIDRPTMISVLEEVFRTMIRKKYGTDDNFDVIINPESGDLEMWRTREIVDDNSEDI 73

Query: 73  ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYL 132
             Y  +I L  AR      ++G  V++ +  ++FGR  VQ+A+Q +IQK+++ E++  Y 
Sbjct: 74  WEYN-KIPLNEARKIQSDFEVGEEVAEEVKLVEFGRRLVQTARQTLIQKIKDMEKEIMYE 132

Query: 133 EFKDKVGEIISGTV-KRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRR 191
           ++KD+VGE+I+G V + + +  +IVD   ++  + R E IS++  R G+ VKS I+ V  
Sbjct: 133 KYKDQVGEMITGEVYQTLRHEVIIVDSEGNELSLPRTEQISKDRFRKGESVKSVIHKVEM 192

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPV 251
               P++ LSRT P F+ +LF +E+PEIY+GI+ V+ V R+PG RAK+AV S D  IDPV
Sbjct: 193 NNGSPKITLSRTSPVFLERLFEVEIPEIYDGIISVRKVVREPGERAKVAVESYDDRIDPV 252

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI 311
           GACVGM+GSR+ ++V EL +E ID++ ++ +    +  AL PA V+ + +D +  R+ V 
Sbjct: 253 GACVGMKGSRIHSIVRELGNENIDVINYTDNLELLISRALSPAKVSSMQIDREAKRVSVF 312

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +  +Q+SLAIG+ GQN++LA +L G  ID+  + E+  +   D  E
Sbjct: 313 LKPDQVSLAIGKGGQNIKLAGKLVGMEIDVFRDIEEQNDEDVDLTE 358


>gi|283769341|ref|ZP_06342240.1| transcription termination factor NusA [Bulleidia extructa W1219]
 gi|283103998|gb|EFC05382.1| transcription termination factor NusA [Bulleidia extructa W1219]
          Length = 569

 Score =  243 bits (620), Expect = 5e-62,   Method: Compositional matrix adjust.
 Identities = 136/330 (41%), Positives = 204/330 (61%), Gaps = 4/330 (1%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRV--EINPETGDISLFRLLEVVEEVE 73
           V  E+SI + V+L  + +++ KA +     + DI V  EIN +   I LF+   VV EVE
Sbjct: 15  VEEERSIPQSVILEALKEAMAKAYKK-NEELPDIDVVAEINEKKKSIDLFQNYVVVTEVE 73

Query: 74  NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
           +   ++SL+ AR  D +  +G  V  P+      R A   AK V+ QK+REAE++  Y E
Sbjct: 74  DDELEMSLEQARQLDKNAQVGDTVRRPVEIESMTRAAAMLAKNVMRQKIREAEKEAVYNE 133

Query: 134 FKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
           +  ++ E++ GT++ ++    +V+LG +  ++   E I  E LR   R+K  I +V +E 
Sbjct: 134 YIGQLNEMVFGTIESIKDKFTLVNLGKTTALMLSGEQIPNERLRENQRIKVVITEVNKEG 193

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
           +G QVL+SR     + +LF  EVPEI+ G+V++KA++R+ G R K+AV S    +DP+GA
Sbjct: 194 KGAQVLVSRGTAMLVRRLFEAEVPEIFQGVVEIKAIAREAGERTKMAVLSHHPEVDPIGA 253

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVP 313
           C+G RGSRVQ ++ EL+ EK+DI  WS D  + V NAL PA +  V+ +ED G + VIV 
Sbjct: 254 CIGPRGSRVQEIIKELKGEKVDIFEWSEDITSLVQNALSPAEIETVIPNED-GSLMVIVA 312

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           ++QLSLAIG+RG+N RLA +LT   IDI T
Sbjct: 313 EDQLSLAIGKRGKNARLAVKLTNRKIDIKT 342


>gi|312130305|ref|YP_003997645.1| nusa antitermination factor [Leadbetterella byssophila DSM 17132]
 gi|311906851|gb|ADQ17292.1| NusA antitermination factor [Leadbetterella byssophila DSM 17132]
          Length = 414

 Score =  243 bits (620), Expect = 6e-62,   Method: Compositional matrix adjust.
 Identities = 129/351 (36%), Positives = 222/351 (63%), Gaps = 12/351 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L++     A EK+IDR  +++++ D ++   R  YG   +  + +NPE+GD+ ++R  E
Sbjct: 5   DLIESFAEFAREKNIDRPTMIAILEDVLRTMIRKAYGEDHNFDIILNPESGDLEMWRKRE 64

Query: 68  VV----EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           +V    E++ ++  +I L  A+  +P  +IG  V++P+   DFGR  VQ+A+Q +IQKV+
Sbjct: 65  IVDDNSEDIWDHD-KIPLSEAKKIEPDFEIGEEVAEPVKIEDFGRRIVQTARQTLIQKVK 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRV 182
           + E++  Y ++KD+VGE+++  V ++    VI +D   ++  + + E I ++  + G  +
Sbjct: 124 DLEKEMLYDQYKDQVGELVTVEVYQILSREVICIDEEGNELSLPKGEQIPKDRFKKGSSI 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ I+ V      P++ LSRT P F+ +LF +E+PEI +GI+ ++ + R+PG RAK+AV 
Sbjct: 184 RAIIHKVEIHNGNPKLTLSRTSPVFLERLFELEIPEIQDGIISIRKIVREPGERAKVAVE 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDPVGACVGM+GSR+ ++V EL +E ID++ W+ +    +  AL PA ++ V  D
Sbjct: 244 SFDDRIDPVGACVGMKGSRIHSIVRELENENIDVIQWTDNINLLISRALSPAKISNVRFD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI------ITEEED 347
           E+  R+ V +  +Q+SLAIG+ G N++LAS+L G  ID+      + EEED
Sbjct: 304 ENAERVSVFLKPDQVSLAIGKGGLNIKLASKLIGLEIDVFRDIDGVVEEED 354


>gi|111225121|ref|YP_715915.1| transcription elongation protein nusA [Frankia alni ACN14a]
 gi|111152653|emb|CAJ64394.1| Transcription elongation protein nusA [Frankia alni ACN14a]
          Length = 365

 Score =  243 bits (620), Expect = 6e-62,   Method: Compositional matrix adjust.
 Identities = 142/334 (42%), Positives = 200/334 (59%), Gaps = 28/334 (8%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I  D ++  M  ++  A     G+  D RV I+  TG++S+                
Sbjct: 14  EKDIAFDTLVQAMETALLTAYHHTAGSAPDARVVIDRTTGEVSVL--------------- 58

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
                   R+P  D      D  P  DFGR+A  +AKQVI+Q++REA+++  Y ++ D+ 
Sbjct: 59  -------AREPGPDGTSREYDDTP-ADFGRIATMTAKQVIMQRLREAQQEVTYGQYADRE 110

Query: 139 GEIISGTVKRVE--YGN--VIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
            E++SG V+  E   G+  V+VDLG  +GV+   E +  E L  GDR+K Y+  V R   
Sbjct: 111 HEVVSGVVQHHEQRAGSKVVLVDLGTIEGVLPPAEQVPGERLEHGDRIKCYVVHVARGPH 170

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           GP V LSRTHP+ +  LF +EVPE+ +G V++ A++R+ G R+K+AV S  + ++P GAC
Sbjct: 171 GPTVTLSRTHPELVKGLFRLEVPEVADGTVELAAIAREAGHRSKIAVRSKVAGVNPKGAC 230

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR-IEVIVP 313
           +G  GSRV+AV+ EL  EKIDIV WS D ATFV +AL PA V +V + +   R   V+VP
Sbjct: 231 IGPMGSRVRAVMAELHGEKIDIVDWSADPATFVGSALSPARVARVEVTDLASRSARVVVP 290

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
             QLSLAIGR GQN RLA++LTGW IDI ++ ED
Sbjct: 291 DYQLSLAIGREGQNARLAARLTGWRIDIHSDAED 324


>gi|294507805|ref|YP_003571863.1| transcription factor [Salinibacter ruber M8]
 gi|294344133|emb|CBH24911.1| transcription factor [Salinibacter ruber M8]
          Length = 536

 Score =  243 bits (619), Expect = 6e-62,   Method: Compositional matrix adjust.
 Identities = 136/334 (40%), Positives = 208/334 (62%), Gaps = 5/334 (1%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVE 73
           +A  K +DRD +  ++ D  +   R  YG+     +  NP+ GDI +  + EVV   EVE
Sbjct: 13  IARSKDMDRDTLQIIVEDVFRAMLRKRYGSDEAFEIIFNPKQGDIQILHIQEVVGDWEVE 72

Query: 74  NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
           +   +I    A+  D    +G  V+  L   +FGR AV +A+Q   Q++R+ E+++ Y E
Sbjct: 73  DPVTEIKESEAKKIDDGFAVGDEVAGGLDVSEFGRRAVMTARQTFRQRIRDIEKEQVYQE 132

Query: 134 FKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
           + + +GEI+ G + +V     ++   +++ V+ RDE I  ++ R G+ +++ + +VRR+ 
Sbjct: 133 YTELIGEIVVGEIYQVRRHETLLMHEDTELVLPRDEQIPGDHYRKGNMLRTVVKEVRRDA 192

Query: 194 -RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
              PQV++SRT P FM +LF +EVPE+++GIV++K V+R PG RAK+AV S D  +DPVG
Sbjct: 193 GSDPQVVVSRTSPVFMERLFEVEVPEVHDGIVEIKKVARIPGDRAKVAVESHDEKVDPVG 252

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DEDVGRIEV 310
           ACVG++G R+ AVV EL DE ID++ WS D    +  AL PA  T V L  DED  R  V
Sbjct: 253 ACVGVKGVRINAVVRELSDENIDVMQWSDDPQELIARALSPAEPTNVSLNQDEDPPRARV 312

Query: 311 IVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            VP +++S AIG+RG N++LASQLTG+ ID+  E
Sbjct: 313 EVPADEVSQAIGKRGVNIKLASQLTGYEIDVYRE 346


>gi|295693137|ref|YP_003601747.1| transcription termination-antitermination factor nusa
           [Lactobacillus crispatus ST1]
 gi|295031243|emb|CBL50722.1| Transcription termination-antitermination factor NusA
           [Lactobacillus crispatus ST1]
          Length = 397

 Score =  243 bits (619), Expect = 7e-62,   Method: Compositional matrix adjust.
 Identities = 133/341 (39%), Positives = 210/341 (61%), Gaps = 2/341 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +   K I +DV++  +  ++  A +  Y    ++ V+ +   G+  +  +  
Sbjct: 4   EMLEAFATLENTKGIKQDVIVDAIKAALVAAYKKNYNQAQNVEVDFDERKGNFKVMAVKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A   + + ++G  +   + P +FGR+A Q+AKQVI+Q++REAER
Sbjct: 64  VVDEVQDDRLEVSLKDALTINRAYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +    E+     E+++GTV+R +   V V +GN + V+   + +  E   P D+++  + 
Sbjct: 124 NHIIDEYSQYEDELVTGTVERRDNRFVYVKIGNVEAVMPHRDQMPNEVYNPQDQIRVLVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V  + +G Q+ +SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D +
Sbjct: 184 HVGSDSKGAQITVSRTAPDMVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVKSNDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DEDV 305
           IDPVG CVG +G+RVQ VV EL  E IDIV +  D + F+ NAL PA V  V    DE+ 
Sbjct: 244 IDPVGTCVGQKGARVQNVVNELGGENIDIVKYEEDPSDFIANALNPAEVIAVQFGDDEEE 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E
Sbjct: 304 KSALVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESE 344


>gi|269120926|ref|YP_003309103.1| NusA antitermination factor [Sebaldella termitidis ATCC 33386]
 gi|268614804|gb|ACZ09172.1| NusA antitermination factor [Sebaldella termitidis ATCC 33386]
          Length = 358

 Score =  243 bits (619), Expect = 7e-62,   Method: Compositional matrix adjust.
 Identities = 132/321 (41%), Positives = 201/321 (62%), Gaps = 3/321 (0%)

Query: 28  LSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDR 87
           L  +  ++  A +  YG   +  V+IN +TG++ +F   E+V+EVEN   +ISL  A++ 
Sbjct: 28  LEAVETALLAAYKKNYGEKENAEVKINHDTGEVKVFSRKEIVDEVENPEYEISLDDAKNF 87

Query: 88  DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVK 147
                +GGVV   +   DF R A+Q+AKQ++IQKVRE E+   Y  FK+K   I++G V+
Sbjct: 88  KKRAKVGGVVELEINAEDFKRNAIQNAKQIVIQKVRECEKQNIYNNFKEKENSIVTGIVR 147

Query: 148 RV-EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQ 206
           +V E G++ +D+   + +I   E    +  + GDRVK YI  V    +  +  +SR   +
Sbjct: 148 KVDEKGSLYIDINGLEAIIPEKELSDTDVFKQGDRVKVYIGKVEEGTKFTKTFISRKSEE 207

Query: 207 FMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVV 266
            + KLF +E+PEI +G++ +K+V+R+ GSR K+A++S D ++D  GAC+G  G R+Q+++
Sbjct: 208 MIRKLFDLEIPEIEDGVIVIKSVAREAGSRTKVAIYSDDPNLDVKGACIGKGGMRIQSII 267

Query: 267 TELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR--IEVIVPKEQLSLAIGRR 324
            EL+ EKIDIV+W+ D   FV NAL PA V  V + ED G    +V V  +QLSLAIG++
Sbjct: 268 DELKGEKIDIVLWNEDIRYFVKNALNPAEVISVEIIEDNGEEVAKVEVASDQLSLAIGKK 327

Query: 325 GQNVRLASQLTGWTIDIITEE 345
           GQN RLA++L G  IDI T E
Sbjct: 328 GQNSRLAAKLCGIKIDIFTSE 348


>gi|227904178|ref|ZP_04021983.1| transcription elongation factor NusA [Lactobacillus acidophilus
           ATCC 4796]
 gi|227868197|gb|EEJ75618.1| transcription elongation factor NusA [Lactobacillus acidophilus
           ATCC 4796]
          Length = 400

 Score =  242 bits (618), Expect = 9e-62,   Method: Compositional matrix adjust.
 Identities = 132/341 (38%), Positives = 211/341 (61%), Gaps = 2/341 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +   K I++DV++  +  ++  A +  Y    ++ V+ +   G+  +  +  
Sbjct: 14  EMLEAFATLEKNKGIEQDVIVDAIKAALVAAYKKNYNQAQNVEVDFDERKGNFKVMAVKT 73

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A   + + ++G  +   + P +FGR+A Q+AKQVI+Q++REAER
Sbjct: 74  VVDEVQDDRLEVSLKDALAINRAYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLREAER 133

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +    E+     E+++GTV+R +   V V +GN + V+   + +  E   P D+++  + 
Sbjct: 134 NHIIDEYSQYEDELVTGTVERRDNRFVYVKIGNVEAVMPHRDQMPNEVYNPQDQIRVLVT 193

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V  + +G Q+ +SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D +
Sbjct: 194 HVGSDSKGAQITVSRTAPDMVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVKSNDPN 253

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DEDV 305
           IDPVG CVG +G+RVQ VV EL  E IDIV +  D + ++ NAL PA V  V    DE+ 
Sbjct: 254 IDPVGTCVGQKGARVQNVVNELGGENIDIVKYEEDPSDYIANALNPAEVIAVQFGEDEEE 313

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E
Sbjct: 314 KSALVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESE 354


>gi|218282331|ref|ZP_03488621.1| hypothetical protein EUBIFOR_01203 [Eubacterium biforme DSM 3989]
 gi|218216704|gb|EEC90242.1| hypothetical protein EUBIFOR_01203 [Eubacterium biforme DSM 3989]
          Length = 536

 Score =  242 bits (618), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 139/341 (40%), Positives = 219/341 (64%), Gaps = 4/341 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L +    +  ++ + +D+V   + +++ KA R  +  + +++V ++   G I ++    
Sbjct: 9   DLAKALQGIESDRQLSKDIVEDALKEALTKAYRR-HIDIPEVQVRVDIVDGTIHIYHERV 67

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+   ++ L   ++ +P+I IG +V + +   DF R AV  AK V+ QK+REAE+
Sbjct: 68  VVEEVEDDELEVQLDEIQNENPNIKIGDIVDEEVDFKDFDRAAVVLAKNVMKQKIREAEK 127

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
            + Y E+ DKV E++ GT++ VE   VIV++G +  V+++   I  E+ + GD +   I 
Sbjct: 128 AQVYEEYCDKVDEMVLGTIETVEEKFVIVNIGKTLAVMKKSAQIPTEHYKEGDNILVVIT 187

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V +E +G QVL+SR  P F+ +LF  EVPEIYNGI+++KA++R+ G R K+AV+S + +
Sbjct: 188 EVNKETKGAQVLVSRATPVFVRRLFEREVPEIYNGIIEIKAIAREAGERCKIAVYSHNEN 247

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV-- 305
           IDP+GAC+G RGSRVQ ++ EL  EKIDI  WS + +  + NAL P+    V+ +E V  
Sbjct: 248 IDPIGACIGPRGSRVQTIIEELNGEKIDIFEWSDNISELIANALSPSTGVAVIPNETVKD 307

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           G I V+VP  QLSLAIG+RG+N RLA +LT   IDI +E E
Sbjct: 308 GLI-VVVPDNQLSLAIGKRGKNARLAVKLTNHKIDIKSESE 347


>gi|86742245|ref|YP_482645.1| NusA antitermination factor [Frankia sp. CcI3]
 gi|86569107|gb|ABD12916.1| NusA antitermination factor [Frankia sp. CcI3]
          Length = 365

 Score =  242 bits (617), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 142/331 (42%), Positives = 203/331 (61%), Gaps = 28/331 (8%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I  D ++  M  ++  A     G+  D RV I+  TGD+S+       E+  + T  
Sbjct: 14  EKDIAFDTLVQAMETALLTAYHHTAGSAQDARVVIDRTTGDVSVL----AREQGPDGT-- 67

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
                +R+ D +            P DFGR+A  +AKQVI+Q++REA+++  Y ++ D+ 
Sbjct: 68  -----SREYDDT------------PADFGRIATMTAKQVIMQRLREAQQEVTYGQYADRE 110

Query: 139 GEIISGTVKRVEY--GN--VIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
            EI+SG V+  E   G+  V+V+LG  +GV+   E +  E L  GDR+K Y+  V R   
Sbjct: 111 HEIVSGVVQHHEQRAGSRVVLVNLGTVEGVLPPAEQVPGERLEHGDRIKCYVVHVARGPH 170

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           GP V LSRTHP+ +  LF +EVPE+ +G V++ A++R+ G R+K+AV S  + ++P GAC
Sbjct: 171 GPTVTLSRTHPELVKGLFRLEVPEVADGTVELAAIAREAGHRSKIAVRSRVAGVNPKGAC 230

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR-IEVIVP 313
           +G  GSRV+AV+ ELR EKIDIV WS D ATFV +AL PA V +V + +   R   V+VP
Sbjct: 231 IGPMGSRVRAVMAELRGEKIDIVDWSADPATFVGSALSPARVARVEVTDPASRSARVVVP 290

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             QLSLAIGR GQN RLA++LTGW IDI ++
Sbjct: 291 DYQLSLAIGREGQNARLAARLTGWRIDIHSD 321


>gi|238854742|ref|ZP_04645072.1| transcription termination factor NusA [Lactobacillus jensenii
           269-3]
 gi|260663974|ref|ZP_05864827.1| transcription termination factor NusA [Lactobacillus jensenii
           SJ-7A-US]
 gi|282932867|ref|ZP_06338264.1| transcription termination factor NusA [Lactobacillus jensenii
           208-1]
 gi|313472265|ref|ZP_07812757.1| transcription termination factor NusA [Lactobacillus jensenii 1153]
 gi|238832532|gb|EEQ24839.1| transcription termination factor NusA [Lactobacillus jensenii
           269-3]
 gi|239529661|gb|EEQ68662.1| transcription termination factor NusA [Lactobacillus jensenii 1153]
 gi|260561860|gb|EEX27829.1| transcription termination factor NusA [Lactobacillus jensenii
           SJ-7A-US]
 gi|281302902|gb|EFA95107.1| transcription termination factor NusA [Lactobacillus jensenii
           208-1]
          Length = 368

 Score =  242 bits (617), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 131/341 (38%), Positives = 210/341 (61%), Gaps = 2/341 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK I +++++  +  ++  A +  Y    ++ V+ +   G+  +  +  
Sbjct: 4   EMLEAFATLENEKGIKQEIIVDAIKAALVAAYKKNYNQAQNVEVDFDERKGNFKVMAIKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A + + + ++G  +   + P DFGR++ Q+AKQVI+Q++REAER
Sbjct: 64  VVDEVQDARLEVSLKEALEINKAYEVGDEIKFEVTPKDFGRISAQTAKQVIMQRLREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +    E+     E+++G V+R +   V V +   + V+ R + +  E   P D+++  + 
Sbjct: 124 NHIVSEYSQYQDELVTGVVERHDNRFVYVMIDKVEAVMPRGDQMPNEVYNPQDKIRVLVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V  + +G Q+++SRT P  + +LF  EVPE+Y+G VQ+ +V+R+ G R K+AV S D +
Sbjct: 184 KVGNDTKGAQIVVSRTAPDMVKRLFEQEVPEVYDGTVQIVSVAREAGDRTKIAVKSDDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA--IVTKVVLDEDV 305
           IDPVG CVG +G+RVQ VV EL  E IDIV +  D A F+ NAL PA  I  +   DED 
Sbjct: 244 IDPVGTCVGPKGARVQNVVNELGGENIDIVKYEDDPADFIANALNPAEVIAAQFGEDEDE 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E +
Sbjct: 304 KSALVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESQ 344


>gi|257063653|ref|YP_003143325.1| transcription termination factor NusA [Slackia heliotrinireducens
           DSM 20476]
 gi|256791306|gb|ACV21976.1| transcription termination factor NusA [Slackia heliotrinireducens
           DSM 20476]
          Length = 401

 Score =  242 bits (617), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 148/358 (41%), Positives = 215/358 (60%), Gaps = 43/358 (12%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+    A+A+EK ID   ++  +  S+ K+ +S+     D RV I+  TG I ++ L+ 
Sbjct: 4   ELMDALQALAHEKKIDEIYLIERLEASLAKSYQSILNLEWDARVTIDRTTGQIYVYELVP 63

Query: 68  VVEEVEN-YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
             E  E+ Y  +       +RD            + P +  R+A Q+AK VI   VREA 
Sbjct: 64  TGEMDEDGYWTEFE-----ERD------------VTPSNVSRIAAQNAKSVIASIVREAG 106

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVI-------------RRDETISR 173
           R   Y EF+D+VG+I++GTV +      IV +   DGV               R+E  + 
Sbjct: 107 RQSIYDEFRDRVGDIVTGTVLQGTPDFTIVKI--RDGVEAELPHYDEKRNPGERNEVPAG 164

Query: 174 ENLRPGDRVKSYIYDVRR----EQRG------PQVLLSRTHPQFMVKLFHMEVPEIYNGI 223
           E  R   R+K+ I DVR     E RG      P +++SRTHP  + +LF +EVPEIY+G+
Sbjct: 165 ERYRHNQRIKTLIIDVRDPNSVENRGRGDQARPAIVVSRTHPDLIRRLFELEVPEIYDGM 224

Query: 224 VQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDS 283
           V++K+++R+PG+R+K+AV S + ++DPVGACVG +GSRV+ VV ELR+E++D++ WS D 
Sbjct: 225 VEIKSIAREPGARSKVAVASREPNLDPVGACVGPKGSRVRMVVEELRNERVDVIQWSEDP 284

Query: 284 ATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           A +V NAL PA VT+V +DE+     VIVP +QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 285 AKYVANALSPARVTRVSVDEENQYATVIVPDDQLSLAIGKEGQNARLAARLTGWHIDI 342


>gi|58337537|ref|YP_194122.1| transcription elongation factor NusA [Lactobacillus acidophilus
           NCFM]
 gi|58254854|gb|AAV43091.1| transcription termination-antitermination factor [Lactobacillus
           acidophilus NCFM]
          Length = 389

 Score =  242 bits (617), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 132/341 (38%), Positives = 211/341 (61%), Gaps = 2/341 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +   K I++DV++  +  ++  A +  Y    ++ V+ +   G+  +  +  
Sbjct: 4   EMLEAFATLEKNKGIEQDVIVDAIKAALVAAYKKNYNQAQNVEVDFDERKGNFKVMAVKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A   + + ++G  +   + P +FGR+A Q+AKQVI+Q++REAER
Sbjct: 64  VVDEVQDDRLEVSLKDALAINRAYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +    E+     E+++GTV+R +   V V +GN + V+   + +  E   P D+++  + 
Sbjct: 124 NHIIDEYSQYEDELVTGTVERRDNRFVYVKIGNVEAVMPHRDQMPNEVYNPQDQIRVLVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V  + +G Q+ +SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D +
Sbjct: 184 HVGSDSKGAQITVSRTAPDMVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVKSNDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DEDV 305
           IDPVG CVG +G+RVQ VV EL  E IDIV +  D + ++ NAL PA V  V    DE+ 
Sbjct: 244 IDPVGTCVGQKGARVQNVVNELGGENIDIVKYEEDPSDYIANALNPAEVIAVQFGEDEEE 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E
Sbjct: 304 KSALVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESE 344


>gi|282881115|ref|ZP_06289802.1| transcription termination factor NusA [Prevotella timonensis CRIS
           5C-B1]
 gi|281304919|gb|EFA96992.1| transcription termination factor NusA [Prevotella timonensis CRIS
           5C-B1]
          Length = 421

 Score =  242 bits (617), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 133/332 (40%), Positives = 210/332 (63%), Gaps = 3/332 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYTC 77
           K+IDR  ++SV+ +S +     +YG+  +  V +NP+ GD  ++R   VV   EVE+   
Sbjct: 24  KNIDRATLVSVLEESFRNVLAKIYGSDENFDVIVNPDKGDFEIYRNRIVVADGEVEDENK 83

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +I+LK A + +P  +IG  VS+P+    FGR A+ + +Q +  KV E E D  Y ++KD+
Sbjct: 84  EIALKEALEIEPDYEIGEEVSEPINFSKFGRRAILNLRQTLASKVLELEHDALYNKYKDR 143

Query: 138 VGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG+IISG V ++    V+ +D  N++ ++ + E I  +  R G+ +++ I  V  E   P
Sbjct: 144 VGQIISGEVYQIWKREVLLIDDENNELILPKSEQIPSDQYRKGETIRAVILRVDNENNNP 203

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +++LSRT P F+ +L   EVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACVG
Sbjct: 204 KIILSRTSPVFLERLLEAEVPEINDGLISIKRIARMPGERAKIAVESYDERIDPVGACVG 263

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           ++GSRV  +V EL +E ID+V ++ +    V  AL PA ++ + +DE+  + EV +  E+
Sbjct: 264 VKGSRVHGIVRELCNENIDVVNYTSNIKLLVQRALSPAHISSINIDEENHKAEVYLKPEE 323

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           +SLAIGR G N++LAS LT +TID+  E  D+
Sbjct: 324 VSLAIGRGGLNIKLASMLTEYTIDVFREVSDA 355


>gi|256851259|ref|ZP_05556648.1| transcription termination factor NusA [Lactobacillus jensenii
           27-2-CHN]
 gi|260660683|ref|ZP_05861598.1| transcription termination factor NusA [Lactobacillus jensenii
           115-3-CHN]
 gi|282934727|ref|ZP_06339970.1| transcription termination factor NusA [Lactobacillus jensenii
           208-1]
 gi|297206126|ref|ZP_06923521.1| transcription termination factor NusA [Lactobacillus jensenii
           JV-V16]
 gi|256616321|gb|EEU21509.1| transcription termination factor NusA [Lactobacillus jensenii
           27-2-CHN]
 gi|260548405|gb|EEX24380.1| transcription termination factor NusA [Lactobacillus jensenii
           115-3-CHN]
 gi|281301302|gb|EFA93603.1| transcription termination factor NusA [Lactobacillus jensenii
           208-1]
 gi|297149252|gb|EFH29550.1| transcription termination factor NusA [Lactobacillus jensenii
           JV-V16]
          Length = 368

 Score =  241 bits (616), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 131/341 (38%), Positives = 211/341 (61%), Gaps = 2/341 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK I +++++  +  ++  A +  Y    ++ V+++   G+  +  +  
Sbjct: 4   EMLEAFATLETEKGIKQEIIVDAIKAALVAAYKKNYNQAQNVEVDLDERKGNFKVMAIKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A + + + ++G  +   + P DFGR++ Q+AKQVI+Q++REAER
Sbjct: 64  VVDEVQDDRLEVSLKDALEINKAYEVGDEIKFEVTPKDFGRISAQTAKQVIMQRLREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +    E+     E+++G V+R +   V V +   + V+ R + +  E   P D+++  + 
Sbjct: 124 NHIVSEYSQYQDELVTGVVERHDNRFVYVMIDKVEAVMPRGDQMPNEVYNPQDKIRVLVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V  + +G Q+++SRT P  + +LF  EVPE+Y+G VQ+ +V+R+ G R K+AV S D +
Sbjct: 184 KVGNDTKGAQIVVSRTAPDMVKRLFEQEVPEVYDGTVQIVSVAREAGDRTKIAVKSDDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA--IVTKVVLDEDV 305
           IDPVG CVG +G+RVQ VV EL  E IDIV +  D A F+ NAL PA  I  +   DED 
Sbjct: 244 IDPVGTCVGPKGARVQNVVNELGGENIDIVKYEDDPADFIANALNPAEVIAAQFGEDEDE 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E +
Sbjct: 304 KSALVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESQ 344


>gi|313889714|ref|ZP_07823357.1| transcription termination factor NusA [Streptococcus pseudoporcinus
           SPIN 20026]
 gi|313122011|gb|EFR45107.1| transcription termination factor NusA [Streptococcus pseudoporcinus
           SPIN 20026]
          Length = 384

 Score =  241 bits (616), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 128/349 (36%), Positives = 208/349 (59%), Gaps = 15/349 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK I+++ ++  + +S++ A +  YG      +E N +TGD  +F + E
Sbjct: 4   EMLEAFRILEEEKHINKEDIIEAVTESLKSAYKRRYGQSESCVIEFNEKTGDFQVFSVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISL  A     + ++G  +       +FGRVA QSAKQ I++K+R   R
Sbjct: 64  VVEEVFDSRLEISLSDALAISSAYELGDKIRFEESVAEFGRVAAQSAKQTIMEKMRRQMR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y E+K+  GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR++ Y+Y
Sbjct: 124 EVTYNEYKEHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIEVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S + +
Sbjct: 184 KVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGSNIKKVISKFHPKRYDAKTGIEIPVEENIDVIQWVDDPAEFIYNAIAP 303

Query: 294 AIVTKVVLDE-DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           A V  V+ D+ D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI
Sbjct: 304 AEVDMVLFDDTDTKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDI 352


>gi|312869034|ref|ZP_07729211.1| transcription termination factor NusA [Lactobacillus oris
           PB013-T2-3]
 gi|311095460|gb|EFQ53727.1| transcription termination factor NusA [Lactobacillus oris
           PB013-T2-3]
          Length = 398

 Score =  241 bits (615), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 138/358 (38%), Positives = 214/358 (59%), Gaps = 20/358 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E++   D +  EK I ++VV+  +  +++ A +  YG   ++ VE N  TG+I ++ +  
Sbjct: 9   EMIGALDYLEKEKGIKKEVVIEALEQALESAYKQNYGD-KNVEVEFNATTGNIKVYAVKT 67

Query: 68  VVEEVENYTCQ----ISLKVARD--RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           + ++ E         +SL  AR        D+   + + + P +FGR+A Q+AKQV++Q+
Sbjct: 68  ITDDEEKVAADSNQYMSLAEARKLPHGQGYDVDDQIREEVTPRNFGRIAAQTAKQVVMQR 127

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS-DGVIRRDETISRENLRPGD 180
           +RE ER   Y ++K    EII+G V R +     VDLG+  +G +   + +  E+ R  D
Sbjct: 128 LREEERRIVYDKYKTYENEIITGEVSREDKRFTYVDLGDGVEGAMGFRDKMPNEHYRVHD 187

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R++ Y+  V  ++RGPQ+ +SRT P+ + +LF  EVPEI +G V ++ ++R+ G RAK+A
Sbjct: 188 RIQVYVSKVNDDRRGPQIYVSRTAPELLKRLFEREVPEIKDGTVLIENIAREAGDRAKVA 247

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V+S+D +IDPVG CVG RGSRVQA+V EL  E +DIV +  D A F+ NAL PA V  V+
Sbjct: 248 VYSNDDNIDPVGTCVGPRGSRVQAIVNELDGENMDIVEYVKDPAKFIANALNPAEVLDVI 307

Query: 301 LDEDVG------------RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            ++ V                V+VP +QLSLAIG+RGQN RLA++LT + IDI +  E
Sbjct: 308 FNDPVTIEREDGEEEQERSCTVVVPDDQLSLAIGKRGQNARLAARLTKYKIDIKSASE 365


>gi|268319261|ref|YP_003292917.1| transcription elongation factor NusA [Lactobacillus johnsonii
           FI9785]
 gi|262397636|emb|CAX66650.1| transcription elongation factor NusA [Lactobacillus johnsonii
           FI9785]
          Length = 394

 Score =  241 bits (615), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 134/344 (38%), Positives = 216/344 (62%), Gaps = 8/344 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+++    +  EK I ++V++  +  ++  A +  Y    ++ V  + + G+  +  +  
Sbjct: 4   EMVEAFATLEKEKGIKQEVIVDAIKAALVAAYKKNYNQAQNVEVVFDEKKGNFKVNAIKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A + + + ++G  +   + P DFGR+A Q+AKQVI+Q++REAER
Sbjct: 64  VVDEVQDSRLEVSLKDALEINRAYEVGDEIRFEVTPKDFGRLAAQTAKQVIMQRLREAER 123

Query: 128 DR---QYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           +    +Y ++KD   EI++GTV+R +   V V +GN + V+  ++ +  E   P D+V+ 
Sbjct: 124 EHIISEYSQYKD---EIVTGTVERRDNRFVYVKIGNVEAVMPHNDQLPGETYNPQDKVRV 180

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V  + +G Q+ +SRT P  + +LF  EVPE+Y+G V++ +++R+ G R K+AV S+
Sbjct: 181 LVTRVGSDSKGAQITVSRTAPDLVKRLFEQEVPEVYDGTVEIVSIAREAGDRTKIAVKSN 240

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--D 302
           DS IDPVG  VG +G+RVQ +V EL  E ID+V +  + + F+ NAL PA V  V    D
Sbjct: 241 DSDIDPVGTLVGPKGARVQNIVNELGGENIDVVKYEDNPSDFIANALNPAEVIAVQFSGD 300

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           ED     VIVP  QLSLAIG+RGQNVRLA++LTG+ IDI  E +
Sbjct: 301 EDDKNALVIVPDYQLSLAIGKRGQNVRLAARLTGYKIDIKPESQ 344


>gi|42519362|ref|NP_965292.1| transcription elongation factor NusA [Lactobacillus johnsonii NCC
           533]
 gi|41583650|gb|AAS09258.1| N utilization substance protein A-like protein [Lactobacillus
           johnsonii NCC 533]
          Length = 406

 Score =  241 bits (615), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 134/344 (38%), Positives = 216/344 (62%), Gaps = 8/344 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+++    +  EK I ++V++  +  ++  A +  Y    ++ V  + + G+  +  +  
Sbjct: 4   EMVEAFATLEKEKGIKQEVIVDAIKAALVAAYKKNYNQAQNVEVVFDEKKGNFKVNAIKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A + + + ++G  +   + P DFGR+A Q+AKQVI+Q++REAER
Sbjct: 64  VVDEVQDSRLEVSLKDALEINRAYEVGDEIRFEVTPKDFGRLAAQTAKQVIMQRLREAER 123

Query: 128 DR---QYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           +    +Y ++KD   EI++GTV+R +   V V +GN + V+  ++ +  E   P D+V+ 
Sbjct: 124 EHIISEYSQYKD---EIVTGTVERRDNRFVYVKIGNVEAVMPHNDQLPGETYNPQDKVRV 180

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V  + +G Q+ +SRT P  + +LF  EVPE+Y+G V++ +++R+ G R K+AV S+
Sbjct: 181 LVTRVGSDSKGAQITVSRTAPDLVKRLFEQEVPEVYDGTVEIVSIAREAGDRTKIAVKSN 240

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--D 302
           DS IDPVG  VG +G+RVQ +V EL  E ID+V +  + + F+ NAL PA V  V    D
Sbjct: 241 DSDIDPVGTLVGPKGARVQNIVNELGGENIDVVKYEDNPSDFIANALNPAEVIAVQFSGD 300

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           ED     VIVP  QLSLAIG+RGQNVRLA++LTG+ IDI  E +
Sbjct: 301 EDDKNALVIVPDYQLSLAIGKRGQNVRLAARLTGYKIDIKPESQ 344


>gi|302528542|ref|ZP_07280884.1| transcription termination factor NusA [Streptomyces sp. AA4]
 gi|302437437|gb|EFL09253.1| transcription termination factor NusA [Streptomyces sp. AA4]
          Length = 350

 Score =  241 bits (615), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 135/332 (40%), Positives = 205/332 (61%), Gaps = 27/332 (8%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  +K I  D V+  +  ++  A +   G     R++I+ +TG   L R+L        
Sbjct: 8   AIERDKDIPFDTVIEAIETALLTAYKHTEGHQPHARIDIDRKTG---LVRVLA------- 57

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
           +T     +V  + D +            P  FGR+A  +A+QVI+Q++R+AE ++ Y EF
Sbjct: 58  HTLTSEGEVDEEWDDT------------PEGFGRIAATTARQVILQRLRDAEHEKTYGEF 105

Query: 135 KDKVGEIISGTVKRVEYGN----VIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVR 190
             K GEI++G V+R    N    V++ +G+++GV+ + E ++ E+   G R+K++++ V 
Sbjct: 106 SAKEGEIVAGVVQRDARANARGMVVIQVGDTEGVLPQAEQVAGESYEHGTRIKAFVFGVS 165

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDP 250
           R  RGPQ++LSR+HP  + KLF +EVPEI +G V++ AV+R+PG R+K+AV S+   ++ 
Sbjct: 166 RSNRGPQIMLSRSHPNLVRKLFALEVPEIADGTVEIAAVAREPGHRSKIAVRSTIPGVNA 225

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIE 309
            GAC+G  G+RV+ V++EL  EKIDI+ WS D A FV NAL PA V  V V+DE      
Sbjct: 226 KGACIGPMGARVRNVMSELAGEKIDIIDWSDDPAKFVGNALSPAKVVSVRVVDERAKTAR 285

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 286 VVVPDFQLSLAIGKEGQNARLAARLTGWRIDI 317


>gi|329667119|gb|AEB93067.1| N utilization substance protein A-like protein [Lactobacillus
           johnsonii DPC 6026]
          Length = 406

 Score =  241 bits (615), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 134/344 (38%), Positives = 216/344 (62%), Gaps = 8/344 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+++    +  EK I ++V++  +  ++  A +  Y    ++ V  + + G+  +  +  
Sbjct: 4   EMVEAFATLEKEKGIKQEVIVDAIKAALVAAYKKNYNQAQNVEVVFDEKKGNFKVNAIKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A + + + ++G  +   + P DFGR+A Q+AKQVI+Q++REAER
Sbjct: 64  VVDEVQDSRLEVSLKDALEINRAYEVGDEIRFEVTPKDFGRLAAQTAKQVIMQRLREAER 123

Query: 128 DR---QYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           +    +Y ++KD   EI++GTV+R +   V V +GN + V+  ++ +  E   P D+V+ 
Sbjct: 124 EHIISEYSQYKD---EIVTGTVERRDNRFVYVKIGNVEAVMPHNDQLPGETYNPQDKVRV 180

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V  + +G Q+ +SRT P  + +LF  EVPE+Y+G V++ +++R+ G R K+AV S+
Sbjct: 181 LVTRVGSDSKGAQITVSRTAPDLVKRLFEQEVPEVYDGTVEIVSIAREAGDRTKIAVKSN 240

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--D 302
           DS IDPVG  VG +G+RVQ +V EL  E ID+V +  + + F+ NAL PA V  V    D
Sbjct: 241 DSDIDPVGTLVGPKGARVQNIVNELGGENIDVVKYEDNPSDFIANALNPAEVIAVQFSGD 300

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           ED     VIVP  QLSLAIG+RGQNVRLA++LTG+ IDI  E +
Sbjct: 301 EDDKNALVIVPDYQLSLAIGKRGQNVRLAARLTGYKIDIKPESQ 344


>gi|227890227|ref|ZP_04008032.1| transcription elongation factor NusA [Lactobacillus johnsonii ATCC
           33200]
 gi|227849229|gb|EEJ59315.1| transcription elongation factor NusA [Lactobacillus johnsonii ATCC
           33200]
          Length = 416

 Score =  241 bits (615), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 134/344 (38%), Positives = 216/344 (62%), Gaps = 8/344 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+++    +  EK I ++V++  +  ++  A +  Y    ++ V  + + G+  +  +  
Sbjct: 14  EMVEAFATLEKEKGIKQEVIVDAIKAALVAAYKKNYNQAQNVEVVFDEKKGNFKVNAIKT 73

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A + + + ++G  +   + P DFGR+A Q+AKQVI+Q++REAER
Sbjct: 74  VVDEVQDSRLEVSLKDALEINRAYEVGDEIRFEVTPKDFGRLAAQTAKQVIMQRLREAER 133

Query: 128 DR---QYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           +    +Y ++KD   EI++GTV+R +   V V +GN + V+  ++ +  E   P D+V+ 
Sbjct: 134 EHIISEYSQYKD---EIVTGTVERRDNRFVYVKIGNVEAVMPHNDQLPGETYNPQDKVRV 190

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V  + +G Q+ +SRT P  + +LF  EVPE+Y+G V++ +++R+ G R K+AV S+
Sbjct: 191 LVTRVGSDSKGAQITVSRTAPALVKRLFEQEVPEVYDGTVEIVSIAREAGDRTKIAVKSN 250

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--D 302
           DS IDPVG  VG +G+RVQ +V EL  E ID+V +  + + F+ NAL PA V  V    D
Sbjct: 251 DSDIDPVGTLVGPKGARVQNIVNELGGENIDVVKYEDNPSDFIANALNPAEVIAVQFSGD 310

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           ED     VIVP  QLSLAIG+RGQNVRLA++LTG+ IDI  E +
Sbjct: 311 EDDKNALVIVPDYQLSLAIGKRGQNVRLAARLTGYKIDIKPESQ 354


>gi|83815918|ref|YP_445895.1| transcription elongation factor NusA [Salinibacter ruber DSM 13855]
 gi|83757312|gb|ABC45425.1| N utilization substance protein A [Salinibacter ruber DSM 13855]
          Length = 546

 Score =  241 bits (615), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 135/334 (40%), Positives = 208/334 (62%), Gaps = 5/334 (1%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVE 73
           +A  K +DRD +  ++ D  +   R  YG+     +  NP+ GDI +  + EVV   EVE
Sbjct: 13  IARSKDMDRDTLQIIVEDVFRAMLRKRYGSDEAFEIIFNPKQGDIQILHIQEVVGDWEVE 72

Query: 74  NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
           +   +I    A+  D    +G  V+  L   +FGR AV +A+Q   Q++R+ E+++ Y E
Sbjct: 73  DPVTEIKESEAKKIDDGFAVGDEVAGGLDVSEFGRRAVMTARQTFRQRIRDIEKEQVYQE 132

Query: 134 FKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
           + + +G+I+ G + +V     ++   +++ V+ RDE I  ++ R G+ +++ + +VRR+ 
Sbjct: 133 YTELIGDIVVGEIYQVRRHETLLMHEDTELVLPRDEQIPGDHYRKGNMLRTVVKEVRRDA 192

Query: 194 -RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
              PQV++SRT P FM +LF +EVPE+++GIV++K V+R PG RAK+AV S D  +DPVG
Sbjct: 193 GSDPQVVVSRTSPVFMERLFEVEVPEVHDGIVEIKKVARIPGDRAKVAVESHDEKVDPVG 252

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DEDVGRIEV 310
           ACVG++G R+ AVV EL DE ID++ WS D    +  AL PA  T V L  DED  R  V
Sbjct: 253 ACVGVKGVRINAVVRELSDENIDVMQWSDDPQELIARALSPAEPTNVSLNQDEDPPRARV 312

Query: 311 IVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            VP +++S AIG+RG N++LASQLTG+ ID+  E
Sbjct: 313 EVPADEVSQAIGKRGVNIKLASQLTGYEIDVYRE 346


>gi|307297718|ref|ZP_07577524.1| transcription termination factor NusA [Thermotogales bacterium
           mesG1.Ag.4.2]
 gi|306916978|gb|EFN47360.1| transcription termination factor NusA [Thermotogales bacterium
           mesG1.Ag.4.2]
          Length = 342

 Score =  241 bits (615), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 136/340 (40%), Positives = 209/340 (61%), Gaps = 9/340 (2%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           L LL+  D +  EK+I+++ V+ ++  ++Q A +  + + SD+ V I+  TGDI +F  L
Sbjct: 3   LNLLEALDQLQDEKNIEKEEVIDILEKALQSAYKKNFASESDVDVRIDRLTGDIEVFEKL 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VVE VEN + ++ L+ A   D S +IG  V   L    F R+A Q+A+QV+IQK+RE E
Sbjct: 63  LVVEAVENPSLEVKLEEALKLDSSAEIGSTVERKLNIKKFKRIAAQTARQVLIQKIREKE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           ++  + ++ D  G + +  V RV    + + +G  +  I   E I  E  R    +K Y+
Sbjct: 123 KENLFDKYVDMKGTVTTSEVLRVTDEWIDLRIGKLETRIPTKELIPGEQPRLNSLMKVYV 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            DV +  RGP++L++R  P F+++L  ++VPEI +G V VKA++R+ G R K+AVFS ++
Sbjct: 183 VDVTKSVRGPRLLVTRRTPDFVIELLKLQVPEIASGDVTVKAIAREEGIRTKVAVFSQNT 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGAC+G  G+R+  V+ E++ EK+DI+ WS + A FV N++ PA      L+  V 
Sbjct: 243 KVDPVGACIGESGTRIAEVLREIKPEKVDILRWSDNPAEFVGNSIAPA----SALEVKVA 298

Query: 307 RIE-----VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            IE     V V   QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 299 NIENHEATVFVSPTQLSLAIGKGGQNARLAAKLTGWKIDI 338


>gi|256838936|ref|ZP_05544446.1| transcription termination factor NusA [Parabacteroides sp. D13]
 gi|262382600|ref|ZP_06075737.1| transcription termination factor NusA [Bacteroides sp. 2_1_33B]
 gi|301308163|ref|ZP_07214117.1| transcription termination factor NusA [Bacteroides sp. 20_3]
 gi|256739855|gb|EEU53179.1| transcription termination factor NusA [Parabacteroides sp. D13]
 gi|262295478|gb|EEY83409.1| transcription termination factor NusA [Bacteroides sp. 2_1_33B]
 gi|300833633|gb|EFK64249.1| transcription termination factor NusA [Bacteroides sp. 20_3]
          Length = 421

 Score =  241 bits (614), Expect = 3e-61,   Method: Compositional matrix adjust.
 Identities = 127/327 (38%), Positives = 209/327 (63%), Gaps = 5/327 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           K+ID+D ++SV+ DS +     ++GT  +  V INPE GD  ++R   VV  +E+E+   
Sbjct: 21  KNIDKDTMISVLEDSFRNVIAKMFGTDENYDVIINPEKGDFEIWRNRTVVADDELEDENL 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           Q++L  AR  D   ++G  V+D +   DFGR A+ + +Q +  K+ E ++D  Y ++KDK
Sbjct: 81  QLTLTEARKIDADCEVGEEVTDEVHFADFGRRAILNLRQTLASKILELQKDSLYAKYKDK 140

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           +G II+  V +V    +++  D GN + ++ + E I  +  R G+ V++ +  V      
Sbjct: 141 IGHIIAAEVYQVWKKEILLLDDDGN-ELLLPKSEQIPTDFYRKGETVRAIVQRVDNYNNN 199

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P++LLSRT   F+ +LF +EVPEI +G++ +KA++R PG RAK+AV S D  IDPVGACV
Sbjct: 200 PKILLSRTDKVFLQRLFELEVPEINDGLITIKAIARIPGERAKVAVESYDDRIDPVGACV 259

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           GM+GSR+  +V ELR+E ID++ ++ + + F+  AL PA ++ + ++E+  + EV +  E
Sbjct: 260 GMKGSRIHGIVRELRNENIDVINYTSNLSLFIQRALSPAKISSIRVNEEEKKAEVYLRPE 319

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDII 342
           ++SLAIG+ G N++LA  LT +TID+ 
Sbjct: 320 EVSLAIGKGGLNIKLACMLTEYTIDVF 346


>gi|116629468|ref|YP_814640.1| transcription elongation factor NusA [Lactobacillus gasseri ATCC
           33323]
 gi|116095050|gb|ABJ60202.1| Transcription elongation factor [Lactobacillus gasseri ATCC 33323]
          Length = 423

 Score =  241 bits (614), Expect = 3e-61,   Method: Compositional matrix adjust.
 Identities = 132/344 (38%), Positives = 216/344 (62%), Gaps = 8/344 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+++    +  EK I +++++  +  ++  A +  Y    ++ V  + + G+  +  +  
Sbjct: 21  EMVEAFATLEKEKGIKQEIIVDAIKAALVAAYKKNYNQAQNVEVVFDEKKGNFKVNAIKT 80

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A + + + ++G  +   + P DFGR+A Q+AKQVI+Q++REAER
Sbjct: 81  VVDEVQDSRLEVSLKDALEINRAYEVGDEIRFEVTPKDFGRLAAQTAKQVIMQRLREAER 140

Query: 128 DR---QYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           +    +Y ++KD   EI++GTV+R +   V V +GN + V+  ++ +  EN  P D+V+ 
Sbjct: 141 EHIISEYSQYKD---EIVTGTVERRDNRFVYVKIGNVEAVMTHNDQLPGENYNPQDKVRV 197

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V  + +G Q+ +SRT P  + +LF  EVPE+Y+G V++ +++R+ G R K+AV S+
Sbjct: 198 LVTRVGSDSKGAQITVSRTAPDLVKRLFEQEVPEVYDGTVEIVSIAREAGDRTKIAVKSN 257

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--D 302
           D  IDPVG  VG +G+RVQ +V EL  E ID+V +  + + F+ NAL PA V  V    D
Sbjct: 258 DPDIDPVGTLVGPKGTRVQNIVNELGGENIDVVKYEENPSDFIANALNPAEVIAVQFSGD 317

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           +D     VIVP  QLSLAIG+RGQNVRLA++LTG+ IDI  E +
Sbjct: 318 DDDKNALVIVPDYQLSLAIGKRGQNVRLAARLTGYKIDIKPESQ 361


>gi|15639877|ref|NP_219327.1| transcription elongation factor NusA [Treponema pallidum subsp.
           pallidum str. Nichols]
 gi|189026115|ref|YP_001933887.1| transcription elongation factor NusA [Treponema pallidum subsp.
           pallidum SS14]
 gi|3323210|gb|AAC65849.1| N utilization substance protein A (nusA) [Treponema pallidum subsp.
           pallidum str. Nichols]
 gi|189018690|gb|ACD71308.1| N utilization substance protein A [Treponema pallidum subsp.
           pallidum SS14]
 gi|291060251|gb|ADD72986.1| transcription elongation protein NusA [Treponema pallidum subsp.
           pallidum str. Chicago]
          Length = 485

 Score =  241 bits (614), Expect = 3e-61,   Method: Compositional matrix adjust.
 Identities = 160/467 (34%), Positives = 248/467 (53%), Gaps = 30/467 (6%)

Query: 17  AYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYT 76
           A EK +D D    ++  +++ A ++ + T  +  V    E   + ++    VVEEV +  
Sbjct: 13  AQEKGLDEDFAFKIVEQTLKAAYKTTFKTDENAVVTFGEER--VCIYARKRVVEEVYDRV 70

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            ++ L  A + DP+  +   V   L   DF R +VQ+A Q I +  RE ++D  Y E+K 
Sbjct: 71  SEVDLSTALELDPTTSLDSEVLVELESEDFKRGSVQAAVQRITELSREIQKDALYAEYKS 130

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           K GEII G  +R    ++ VDLG  +G++ +   + +++ R  DR+KS + +VR+  +  
Sbjct: 131 KEGEIIVGYYQRARNEHIYVDLGKVEGLMPKSHQLPQDDYRQNDRIKSLVREVRKHPKSS 190

Query: 197 --QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
             Q++LSRT   F+ +L  +EVPEIY+GIV+V  + R+PG R K+AV S    +DPVGAC
Sbjct: 191 VVQLILSRTDSAFVKELLAVEVPEIYDGIVEVAKIVREPGYRTKIAVTSRRDDVDPVGAC 250

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA-IVTKVVLDEDVGRIEVIVP 313
           VG RG R++ V+ EL DEKID++ +SPD   F+ NAL PA ++  VVLDE+      IV 
Sbjct: 251 VGPRGIRIRMVIKELNDEKIDVLEYSPDPVIFIKNALSPAEVLNVVVLDEEKRSALAIVA 310

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIIT----EEEDSINRQK---------DFNERTQ 360
           + QLS+AIG++G NVRLA++L  W ID+ T    EE D     +         D+ E ++
Sbjct: 311 ESQLSIAIGKQGLNVRLANRLVDWNIDVKTESQFEEMDVYTDTRRAAENLFDNDYQEESE 370

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
           F        E+I  +L   G  DV+ L  +    + ++EG DE    E+     E  E  
Sbjct: 371 FSSYVGFTPELI-KILQDNGIQDVQTLVDLGEEGLRALEGMDEAHVQELLAAIEENFE-- 427

Query: 421 DITLQKKIRELGVSEELCSIPGI--DSKIKVALGENGIKTMEDLAGC 465
                  + E G    + S PG   D    +   E G++   D++ C
Sbjct: 428 -------VVEEGEEASVTSSPGTGGDEDQALQCPECGVRITTDMSEC 467


>gi|332883100|gb|EGK03384.1| transcription termination factor NusA [Dysgonomonas mossii DSM
           22836]
          Length = 418

 Score =  241 bits (614), Expect = 3e-61,   Method: Compositional matrix adjust.
 Identities = 125/325 (38%), Positives = 210/325 (64%), Gaps = 3/325 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYTC 77
           KSIDR  ++SV+ DS +     L+G+  +  V INP+ GD+ ++R   +VE  ++E+   
Sbjct: 20  KSIDRMTMISVLEDSFRNVIAKLFGSNDNYDVIINPDKGDLEIWRNRVIVEDDQLEDDNT 79

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +I+L  A+  D   ++G  V+D +   DFGR A+ + +Q +  K+ E +++  Y  +K+K
Sbjct: 80  EIALSEAKKIDEDFEVGEEVTDEVFFEDFGRRAILNLRQTLTSKILELQKESLYNRYKEK 139

Query: 138 VGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           +GEI+SG V ++    +++ D    + ++ + E I  +  R G+ V++ +  V  +   P
Sbjct: 140 IGEIVSGEVYQIWKKEILLLDDEKEELLLPKTEQIPSDFFRKGEHVRAVVERVDNKNNNP 199

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +++LSRT P F+ +L  +EVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACVG
Sbjct: 200 KIILSRTSPTFLERLLELEVPEINDGLITIKNIARIPGERAKVAVESYDERIDPVGACVG 259

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           M+GSR+  +V ELR+E IDI+ ++ +   ++  AL PA +T V ++E+  R EV++  E+
Sbjct: 260 MKGSRIHGIVRELRNENIDIINYTSNMNLYIQRALSPAKITSVKINEEEKRAEVLLRPEE 319

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDI 341
           +SLAIG+ G N++LAS LTG+TID+
Sbjct: 320 VSLAIGKGGFNIKLASMLTGYTIDV 344


>gi|269795641|ref|YP_003315096.1| transcription termination factor NusA [Sanguibacter keddieii DSM
           10542]
 gi|269097826|gb|ACZ22262.1| transcription termination factor NusA [Sanguibacter keddieii DSM
           10542]
          Length = 365

 Score =  241 bits (614), Expect = 3e-61,   Method: Compositional matrix adjust.
 Identities = 140/339 (41%), Positives = 205/339 (60%), Gaps = 24/339 (7%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL--LEVVEEVENYT 76
           E+ I  DV++S +  ++  A +   G     RVEI+ ++G ++++    +E  E VE   
Sbjct: 14  EREISLDVLVSAIEQALALAYQRTPGAQRTARVEIDRKSGHVTVWAREDIETEEPVEPRY 73

Query: 77  CQ------------ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
                          + +V R   P  D          P DFGR+A  +A+QVI+Q++R+
Sbjct: 74  SDGDDADGTEDDEAPTTRVVRTLGPEFDD--------TPTDFGRIATSTARQVIMQRLRD 125

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVK 183
           AE D+   +F+DK GE++SG +++     V+ VD+G ++ V+   E +  E    G+R++
Sbjct: 126 AEDDQVLGQFRDKEGELVSGIIQQGRDPRVVLVDVGGTEAVLGAHEQVPTEKYTHGERLR 185

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           SY+ DV R  +GPQ+ LSRTHP  + KLF MEVPE+ +G V++ A++R+ G R K+AV +
Sbjct: 186 SYVLDVSRGMKGPQISLSRTHPNLVRKLFEMEVPEVADGSVEIVAIAREAGHRTKMAVRA 245

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLD 302
             S ++  GAC+G  GSRV+AV+ EL DEKIDIV W+ D A FV +AL PA V  V V+D
Sbjct: 246 RVSGLNAKGACIGPMGSRVRAVMAELHDEKIDIVDWNDDPAAFVASALSPATVISVTVVD 305

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            D     VIVP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 306 ADARAARVIVPDFQLSLAIGKEGQNARLAAKLTGWRIDI 344


>gi|150010113|ref|YP_001304856.1| transcription elongation factor NusA [Parabacteroides distasonis
           ATCC 8503]
 gi|255012627|ref|ZP_05284753.1| transcription elongation factor NusA [Bacteroides sp. 2_1_7]
 gi|298374483|ref|ZP_06984441.1| transcription termination factor NusA [Bacteroides sp. 3_1_19]
 gi|149938537|gb|ABR45234.1| putative nitrogen utilization substance protein [Parabacteroides
           distasonis ATCC 8503]
 gi|298268851|gb|EFI10506.1| transcription termination factor NusA [Bacteroides sp. 3_1_19]
          Length = 421

 Score =  241 bits (614), Expect = 3e-61,   Method: Compositional matrix adjust.
 Identities = 127/327 (38%), Positives = 209/327 (63%), Gaps = 5/327 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           K+ID+D ++SV+ DS +     ++GT  +  V INPE GD  ++R   VV  +E+E+   
Sbjct: 21  KNIDKDTMISVLEDSFRNVIAKMFGTDENYDVIINPEKGDFEIWRNRTVVADDELEDENL 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           Q++L  AR  D   ++G  V+D +   DFGR A+ + +Q +  K+ E ++D  Y ++KDK
Sbjct: 81  QLTLTEARKIDADCEVGEEVTDEVHFADFGRRAILNLRQTLASKILELQKDSLYAKYKDK 140

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           +G II+  V +V    +++  D GN + ++ + E I  +  R G+ V++ +  V      
Sbjct: 141 IGHIIAAEVYQVWKKEILLLDDDGN-ELLLPKSEQIPTDFYRKGETVRAIVQRVDNYNNN 199

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P++LLSRT   F+ +LF +EVPEI +G++ +KA++R PG RAK+AV S D  IDPVGACV
Sbjct: 200 PKILLSRTDKVFLQRLFELEVPEINDGLITIKAIARIPGERAKVAVESYDDRIDPVGACV 259

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           GM+GSR+  +V ELR+E ID++ ++ + + F+  AL PA ++ + ++E+  + EV +  E
Sbjct: 260 GMKGSRIHGIVRELRNENIDVINYTSNLSLFIQRALSPAKISSIRVNEEEKKAEVYLRPE 319

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDII 342
           ++SLAIG+ G N++LA  LT +TID+ 
Sbjct: 320 EVSLAIGKGGLNIKLACMLTEYTIDVF 346


>gi|288924202|ref|ZP_06418238.1| NusA antitermination factor [Frankia sp. EUN1f]
 gi|288344449|gb|EFC78942.1| NusA antitermination factor [Frankia sp. EUN1f]
          Length = 362

 Score =  240 bits (613), Expect = 3e-61,   Method: Compositional matrix adjust.
 Identities = 140/338 (41%), Positives = 205/338 (60%), Gaps = 28/338 (8%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I  D ++  +  ++  A +   G+  D RV I+  +G++++F      E   + T  
Sbjct: 14  EKEIAFDTLVEAIETALLTAYKHTTGSADDARVVIDRTSGEVAVF----ARESAPDGT-- 67

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
                +R+ D +            P DFGR+A  +AKQVI+Q++REA+++  Y ++ D+ 
Sbjct: 68  -----SREWDDT------------PADFGRIATMTAKQVIMQRLREAQQEVTYGQYADRE 110

Query: 139 GEIISGTVKRVEY--GN--VIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
            E++SG V+  E   G+  V+VDLG  +GV+   E +  E L  GDR+K Y+  V R   
Sbjct: 111 HEVVSGVVQHHEQRAGSRVVLVDLGTVEGVLPPAEQVPGERLEHGDRIKCYVVHVSRGAH 170

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           GP V LSRTHP+ +  LF +EVPE+ +G V++ A++R+ G R K+AV S    ++P GAC
Sbjct: 171 GPTVTLSRTHPELVKGLFRLEVPEVADGTVELAAIAREAGHRTKIAVRSKAPGVNPKGAC 230

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR-IEVIVP 313
           +G  GSRV+AV+ EL  EKIDIV WS D A FV +AL PA V+KV + +   R   V+VP
Sbjct: 231 IGPMGSRVRAVMAELHGEKIDIVDWSADPAAFVGSALSPARVSKVEVTDLANRSARVVVP 290

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINR 351
             QLSLAIGR GQN RLA++LTGW IDI ++ E + +R
Sbjct: 291 DYQLSLAIGREGQNARLAARLTGWRIDIHSDTEGNPDR 328


>gi|238852618|ref|ZP_04643028.1| transcription termination factor NusA [Lactobacillus gasseri 202-4]
 gi|238834764|gb|EEQ26991.1| transcription termination factor NusA [Lactobacillus gasseri 202-4]
          Length = 406

 Score =  240 bits (613), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 132/342 (38%), Positives = 215/342 (62%), Gaps = 8/342 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+++    +  EK I +++++  +  ++  A +  Y    ++ V  + + G+  +  +  
Sbjct: 4   EMVEAFATLEKEKGIKQEIIVDAIKAALVAAYKKNYNQAQNVEVVFDEKKGNFKVNAIKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A + + + ++G  +   + P DFGR+A Q+AKQVI+Q++REAER
Sbjct: 64  VVDEVQDSRLEVSLKDALEINRAYEVGDEIRFEVTPKDFGRLAAQTAKQVIMQRLREAER 123

Query: 128 DR---QYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           +    +Y ++KD   EI++GTV+R +   V V +GN + V+  ++ +  EN  P D+V+ 
Sbjct: 124 EHIISEYSQYKD---EIVTGTVERRDNRFVYVKIGNVEAVMPHNDQLPGENYNPQDKVRV 180

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V  + +G Q+ +SRT P  + +LF  EVPE+Y+G V++ +++R+ G R K+AV S+
Sbjct: 181 LVTRVGSDSKGAQITVSRTAPDLVKRLFEQEVPEVYDGTVEIVSIAREAGDRTKIAVKSN 240

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--D 302
           D  IDPVG  VG +G+RVQ +V EL  E ID+V +  + + F+ NAL PA V  V    D
Sbjct: 241 DPDIDPVGTLVGPKGTRVQNIVNELGGENIDVVKYEENPSDFIANALNPAEVIAVQFSGD 300

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +D     VIVP  QLSLAIG+RGQNVRLA++LTG+ IDI  E
Sbjct: 301 DDDKNALVIVPDYQLSLAIGKRGQNVRLAARLTGYKIDIKPE 342


>gi|288574932|ref|ZP_06393289.1| NusA antitermination factor [Dethiosulfovibrio peptidovorans DSM
           11002]
 gi|288570673|gb|EFC92230.1| NusA antitermination factor [Dethiosulfovibrio peptidovorans DSM
           11002]
          Length = 366

 Score =  240 bits (613), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 137/348 (39%), Positives = 223/348 (64%), Gaps = 14/348 (4%)

Query: 23  DRDVVLSVMADSIQKAARSLYGTMSDIRVE----INPETGDISLFRLLEVVEEVENYTCQ 78
           +R++  S++  SI+ A  S Y    +  +E    I+ ETGDIS+  +  VV+EV+N   +
Sbjct: 17  ERNLSQSIILGSIEAALASAYKKYKEKNLEPEVKIDGETGDISIMEIRRVVDEVKNSDAE 76

Query: 79  I-SLKVARDRDPSIDIGGVVSD--PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
           + S + A    P +  G VV     + P  FGR+A Q+A+QVIIQ++++AER+  + EF 
Sbjct: 77  LTSEEAAALGFPGLVEGDVVKTEVEIAPESFGRIAAQTARQVIIQRLKDAEREIIFNEFS 136

Query: 136 DKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           ++VG++++G V + E   ++V +   ++ ++ R+E I+ E    G R+K Y+ DVR+  R
Sbjct: 137 ERVGDMVNGVVFKAENDQILVRISERTEAMLPREERINGETYELGSRMKFYLLDVRQTTR 196

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           GP++++SRTHP  + +L  +E+PEI +G+V++  + R+ G+RAK+AV + D ++DPVGAC
Sbjct: 197 GPRIVVSRTHPGLLRRLMELEIPEIRDGVVEIHGIVREAGARAKVAVTTLDPNVDPVGAC 256

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV--VLDEDVGRIEVIV 312
           VG  GSR++ +  EL  EKID+V+WS D   ++ N L PA V +V  +L+++    +V  
Sbjct: 257 VGNGGSRIKTISNELNGEKIDVVIWSDDPLQYIRNTLSPAKVVRVEPILEQE-KSAKVFA 315

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDII---TEEEDSINRQKDFNE 357
             +QLSLAIG+ GQNVRLA++LTGW +DI      E+DS+   +D  E
Sbjct: 316 RPDQLSLAIGKAGQNVRLAARLTGWKVDINPLEAPEKDSMPTLQDLFE 363


>gi|160902006|ref|YP_001567587.1| transcription elongation factor NusA [Petrotoga mobilis SJ95]
 gi|160359650|gb|ABX31264.1| NusA antitermination factor [Petrotoga mobilis SJ95]
          Length = 341

 Score =  240 bits (613), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 129/339 (38%), Positives = 214/339 (63%), Gaps = 8/339 (2%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           L LL+  DA+  +K I RD ++ ++A SI+ A +  YG   ++ +EI+     +++++L 
Sbjct: 3   LNLLEALDALERDKGISRDSLVDIIAKSIKSAYKKNYGA-KNVEIEIDKNLTKLNVYQLW 61

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLP-PMDFGRVAVQSAKQVIIQKVREA 125
           +VVE VEN   +ISL+ A+  +P I+IG +V   +    DF RVA Q+AKQVI+Q ++E 
Sbjct: 62  KVVETVENPKEEISLEEAKKINPKIEIGEMVRKKINLKKDFRRVAAQTAKQVILQNLKEL 121

Query: 126 ERDR---QYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           E+     +Y+  K+++    +  + +V    + + +G  +  +   ETI  E  + G+ V
Sbjct: 122 EKKNLFDKYVALKNRIS---TAEIIKVSDEYIDIRIGKLETKLPMKETIPGETFKSGELV 178

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           K YI +++   +GP++++SRT P+ + +L    VPEI  GI+++  + R+PG R K+AV 
Sbjct: 179 KVYIKNIQNTSKGPKIMVSRTVPELITELLSSIVPEIEEGIIKIVKIVREPGIRTKVAVV 238

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           SS   +DPVGAC+G +GSR+  ++ EL++EK+DI+ +S D   F+ +AL PA V  ++L+
Sbjct: 239 SSMPGVDPVGACIGEKGSRISELLKELKNEKVDIIEYSEDPKIFIKHALAPAEVKNIILN 298

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           ED     V VP+ QLSLA+G+ GQ  RLA+++TGW IDI
Sbjct: 299 EDEKTAFVYVPENQLSLAVGKGGQTARLAAKITGWKIDI 337


>gi|311110885|ref|ZP_07712282.1| transcription termination factor NusA [Lactobacillus gasseri MV-22]
 gi|311066039|gb|EFQ46379.1| transcription termination factor NusA [Lactobacillus gasseri MV-22]
          Length = 406

 Score =  240 bits (613), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 132/342 (38%), Positives = 215/342 (62%), Gaps = 8/342 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+++    +  EK I +++++  +  ++  A +  Y    ++ V  + + G+  +  +  
Sbjct: 4   EMVEAFATLEKEKGIKQEIIVDAIKAALVAAYKKNYNQAQNVEVVFDEKKGNFKVNAIKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A + + + ++G  +   + P DFGR+A Q+AKQVI+Q++REAER
Sbjct: 64  VVDEVQDSRLEVSLKDALEINRAYEVGDEIRFEVTPKDFGRLAAQTAKQVIMQRLREAER 123

Query: 128 DR---QYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           +    +Y ++KD   EI++GTV+R +   V V +GN + V+  ++ +  EN  P D+V+ 
Sbjct: 124 EHIISEYSQYKD---EIVTGTVERRDNRFVYVKIGNVEAVMPHNDQLPGENYNPQDKVRV 180

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V  + +G Q+ +SRT P  + +LF  EVPE+Y+G V++ +++R+ G R K+AV S+
Sbjct: 181 LVTRVGSDSKGAQITVSRTAPDLVKRLFEQEVPEVYDGTVEIVSIAREAGDRTKIAVKSN 240

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--D 302
           D  IDPVG  VG +G+RVQ +V EL  E ID+V +  + + F+ NAL PA V  V    D
Sbjct: 241 DPDIDPVGTLVGPKGTRVQNIVNELGGENIDVVKYEENPSDFIANALNPAEVIAVQFSGD 300

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +D     VIVP  QLSLAIG+RGQNVRLA++LTG+ IDI  E
Sbjct: 301 DDDKNALVIVPDYQLSLAIGKRGQNVRLAARLTGYKIDIKPE 342


>gi|317057642|ref|YP_004106109.1| NusA antitermination factor [Ruminococcus albus 7]
 gi|315449911|gb|ADU23475.1| NusA antitermination factor [Ruminococcus albus 7]
          Length = 372

 Score =  240 bits (613), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 145/354 (40%), Positives = 211/354 (59%), Gaps = 22/354 (6%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           +AD V+ E  ID+DV++  + + I KA +        IRV+I P TG + +  L EV++ 
Sbjct: 9   LADLVS-ENEIDKDVLIEKIREGIIKAIKKENPESEHIRVDIEPATGKLEMCILKEVMKV 67

Query: 72  --VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
             V++   +I +  A+  DP I +G  V  P+ P   GRVA Q AKQ I   +++ ER++
Sbjct: 68  MFVDDPANEIYIGEAQTYDPDIKVGDWVEIPVNPAKIGRVAAQFAKQSIKHDIKDFERNK 127

Query: 130 QYLEFKDKVGEIISGTVKRVE--YGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              ++KDK  EI++ TV++VE   GN ++ +  ++    R E I  E L+ GD++K YI 
Sbjct: 128 LIEQYKDKEHEIVTATVQKVEPATGNAVITIDKNEHYFYRSEQIPGEVLKEGDKIKVYIV 187

Query: 188 DVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +   E+R P V LSRTH   + +LF +EVPEI +G V++K++SR  G R+K+AV+S D 
Sbjct: 188 SLGGGEKRQPVVKLSRTHKDLVKRLFELEVPEIADGTVEIKSISRTEGVRSKIAVWSKDK 247

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           ++D VGAC+G + SR+ AVV EL+ EKID++ W  D A F+  AL PA V  V L E   
Sbjct: 248 NVDAVGACIGPKKSRISAVVQELKGEKIDVINWVEDEAEFIAKALAPAEVLSVELLEPEV 307

Query: 307 RIE----------------VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           RIE                VIVP  Q SLAIG +GQN +LA+ LTG+ IDI+ E
Sbjct: 308 RIEHKGEEKEFERVIKKCRVIVPNSQFSLAIGNKGQNAKLAAGLTGYKIDIVPE 361


>gi|253581490|ref|ZP_04858715.1| transcription elongation factor NusA [Fusobacterium varium ATCC
           27725]
 gi|251836560|gb|EES65095.1| transcription elongation factor NusA [Fusobacterium varium ATCC
           27725]
          Length = 361

 Score =  240 bits (613), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 138/347 (39%), Positives = 213/347 (61%), Gaps = 3/347 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M S +    L+  D +  EK I ++ +L  +  ++  A +  +G   ++ VEIN ETGD+
Sbjct: 1   MKSKDAKVFLEALDELEREKGISKESLLLTVEQALLAAYKKNHGEEENVEVEINRETGDV 60

Query: 61  SLFRLLEVVEEVENY--TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            L+ +  VVE  + Y    +ISL  A++      +G +V   +   +F R A+Q+ KQ++
Sbjct: 61  KLYEVKTVVETEDLYDAAIEISLDDAQEIKKRAKVGDIVRIEINCEEFRRNAIQNGKQIV 120

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLR 177
           IQKVREAER   Y  FK+K  +II+G ++R+ E  N+ V+    + ++   E    +  R
Sbjct: 121 IQKVREAERQYIYDRFKEKENDIINGIIRRIDEKKNIFVEFDGIEAILPTTEQSPADTYR 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+R+K ++ +V +  + P++++SR H   + KLF +E+PEI +G++++KAV+R+ GSRA
Sbjct: 181 VGERLKVFLAEVEKTNKFPKIVISRKHEGLLKKLFELEIPEITSGLIEIKAVAREAGSRA 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV+SSD +ID VGAC+G +G R++ +V EL  EKIDIV+W      FV   L PA V 
Sbjct: 241 KVAVYSSDPNIDTVGACIGQKGLRIKNIVNELNGEKIDIVIWKESVEEFVSAVLSPAKVK 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            V + ED     VIV   QLSLAIG+ GQN RLA++LTG  +DI TE
Sbjct: 301 SVEVIEDENTARVIVDNSQLSLAIGKNGQNARLAAKLTGMRVDIKTE 347


>gi|257463891|ref|ZP_05628277.1| transcription elongation factor NusA [Fusobacterium sp. D12]
 gi|317061420|ref|ZP_07925905.1| transcription elongation factor NusA [Fusobacterium sp. D12]
 gi|313687096|gb|EFS23931.1| transcription elongation factor NusA [Fusobacterium sp. D12]
          Length = 353

 Score =  240 bits (612), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 132/344 (38%), Positives = 211/344 (61%), Gaps = 3/344 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M + +    L+  + +  EK I ++ +L  +  ++  A +  YG   ++ V I+ E GD+
Sbjct: 1   MTNKDAKAFLEALNELEKEKGIAKESLLQAVEQALLTAYKKNYGDEENVEVIIDRENGDV 60

Query: 61  SLFRLLEVVEEVENY--TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++ +  VVEE + Y    +ISL+ AR       +G  +   +    F R A+Q+ KQ+I
Sbjct: 61  KVYEVKTVVEEEDLYDAALEISLEEARKISRKAKLGEEIRIEVDCESFRRNAIQNGKQII 120

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLR 177
           IQKVREAER+  Y  FK + GEI++G ++R+ E  NV ++ G  + ++   E    +  +
Sbjct: 121 IQKVREAERENIYDRFKAQEGEILTGIIRRIDERKNVFIEFGGIETILTAGEQCISDRYK 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+R+K Y+ +V +  + P++++SR H   + KLF +E+PEI +G++++KAV+R+ GSRA
Sbjct: 181 VGNRIKVYLVEVEKTNKFPKIVISRRHEGLLRKLFELEIPEISSGVIEIKAVAREAGSRA 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV+S  ++ID VGAC+G + SR++ +V EL  EKIDIV+W  +   FV   L PA V 
Sbjct: 241 KVAVYSELANIDIVGACIGQKRSRIKNIVDELGGEKIDIVIWKENMEEFVSAVLSPAKVN 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            V L ED     V+V + QLSLAIG+ GQN RLA++LTG  +DI
Sbjct: 301 SVELLEDGETARVLVDESQLSLAIGKSGQNARLAAKLTGMRVDI 344


>gi|154249422|ref|YP_001410247.1| transcription elongation factor NusA [Fervidobacterium nodosum
           Rt17-B1]
 gi|154153358|gb|ABS60590.1| NusA antitermination factor [Fervidobacterium nodosum Rt17-B1]
          Length = 344

 Score =  240 bits (612), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 129/334 (38%), Positives = 207/334 (61%), Gaps = 2/334 (0%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           LL+    +  EK I  D  + ++  ++  A ++  G   ++ + IN  +G+I  +++LEV
Sbjct: 6   LLEALRELEREKGISVDESIEILEKALMSAYKNKTGE-RNVEIVINKLSGEIEAYQILEV 64

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VE+VEN   QISL+ A    P   IG +V   +     GR A+Q AKQV+IQK+RE E++
Sbjct: 65  VEKVENENIQISLEDALKIKPDATIGDIVKRKMNIKRLGRFAIQVAKQVLIQKIREIEKE 124

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
           +QY ++ + VG +++  V +V    + + +G  +  + + E I  E     D +K Y+ +
Sbjct: 125 KQYEKYAELVGRVVTAEVLKVTPEWLDIRIGKLETHLPKKEWIPGEEFEQSDLIKVYVRE 184

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V+++++GP+++++R   +F+V L  +EVPEI +GI+++  + R+PG R K+AV S D  +
Sbjct: 185 VKKDKKGPKIIVTRIDNEFVVGLLKLEVPEIESGIIEIVKIVREPGVRTKIAVISHDPKV 244

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           DPVG+C+G  GSR+  ++ EL+ EKIDI+ WS D    + NAL PA V  V +LD +   
Sbjct: 245 DPVGSCIGPEGSRIAPILKELKIEKIDIIKWSNDPKELIANALLPASVIDVEILDYESKA 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             V+V   QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 305 SRVLVSPNQLSLAIGKAGQNARLAAKLTGWKIDI 338


>gi|19746626|ref|NP_607762.1| transcription elongation factor NusA [Streptococcus pyogenes
           MGAS8232]
 gi|139473254|ref|YP_001127969.1| transcription elongation factor NusA [Streptococcus pyogenes str.
           Manfredo]
 gi|161761305|ref|YP_060778.2| transcription elongation factor NusA [Streptococcus pyogenes
           MGAS10394]
 gi|162139101|ref|YP_599142.2| transcription elongation factor NusA [Streptococcus pyogenes
           MGAS10270]
 gi|162139179|ref|YP_603019.2| transcription elongation factor NusA [Streptococcus pyogenes
           MGAS10750]
 gi|162139397|ref|YP_280920.2| transcription elongation factor NusA [Streptococcus pyogenes
           MGAS6180]
 gi|306826865|ref|ZP_07460165.1| transcription termination factor NusA [Streptococcus pyogenes ATCC
           10782]
 gi|19748845|gb|AAL98261.1| transcription termination-antitermination factor [Streptococcus
           pyogenes MGAS8232]
 gi|134271500|emb|CAM29721.1| putative N utilization substance protein A [Streptococcus pyogenes
           str. Manfredo]
 gi|304430883|gb|EFM33892.1| transcription termination factor NusA [Streptococcus pyogenes ATCC
           10782]
          Length = 385

 Score =  240 bits (612), Expect = 5e-61,   Method: Compositional matrix adjust.
 Identities = 130/354 (36%), Positives = 209/354 (59%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK ID+  ++  + +S++ A +  YG      +E N +T D  +F + E
Sbjct: 4   EMLEAFRILEEEKHIDKADIIDAVTESLKSAYKRRYGQSESCVIEFNEKTADFQVFTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R   R
Sbjct: 64  VVEEVFDSRLEISLKDALAISSAYELGDKIRFEESVNEFGRVAAQSAKQTIMEKMRRQMR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + E+K+  GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR+  Y+Y
Sbjct: 124 EVMFNEYKEHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIDVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S + +
Sbjct: 184 KVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGSNIKKVISKFHPKRVDAKTGLEIPVEENIDVIQWVDDPAEFIYNAIAP 303

Query: 294 AIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V  V+  DED+ R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDMVLFDDEDLKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|312892421|ref|ZP_07751916.1| transcription termination factor NusA [Mucilaginibacter paludis DSM
           18603]
 gi|311295205|gb|EFQ72379.1| transcription termination factor NusA [Mucilaginibacter paludis DSM
           18603]
          Length = 411

 Score =  240 bits (612), Expect = 5e-61,   Method: Compositional matrix adjust.
 Identities = 126/329 (38%), Positives = 209/329 (63%), Gaps = 5/329 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYTC 77
           K+IDR  ++SV+ D  +   R  YGT  +  V +N + GD+ ++R   V+E+   E+   
Sbjct: 17  KNIDRPTMMSVLEDVFRSMIRKKYGTDENCDVIVNTDNGDLEIWRTRVVMEDGFSEDDDL 76

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +I L  A+  DP +++G    + +    FGR A+ +A+Q ++ K+ E E+D  Y ++KD+
Sbjct: 77  EIELAEAKLLDPDLEVGDEHIELITLESFGRRAILAARQTLVSKILELEKDEIYKKYKDR 136

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VGEII+G V +V     +V  D GN + ++ + E I  +  + GD V++ ++ V      
Sbjct: 137 VGEIITGEVYQVWKKETLVLDDEGN-ELLLPKSEQIPADYFKKGDSVRAVVHKVDMMNTN 195

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P++++SRT P+F+ +LF +EVPEI++G++ +K + R+PG RAK+AV S D  IDPVGACV
Sbjct: 196 PKIIISRTAPEFLQRLFELEVPEIFDGLITIKKIVREPGERAKVAVESYDDRIDPVGACV 255

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           GM+GSR+  +V EL++E ID++ ++ +   ++  AL PA +T + LD+D     V +  +
Sbjct: 256 GMKGSRIHGIVRELKNENIDVINFTNNVQLYIQRALSPAKITSIKLDDDKKTAAVYLKPD 315

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           Q+SLAIGR G N++LA +LTG+ ID+  E
Sbjct: 316 QVSLAIGRGGHNIKLAGKLTGYEIDVYRE 344


>gi|94544550|gb|ABF34598.1| N utilization substance protein A [Streptococcus pyogenes
           MGAS10270]
          Length = 396

 Score =  240 bits (612), Expect = 5e-61,   Method: Compositional matrix adjust.
 Identities = 130/354 (36%), Positives = 209/354 (59%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK ID+  ++  + +S++ A +  YG      +E N +T D  +F + E
Sbjct: 15  EMLEAFRILEEEKHIDKADIIDAVTESLKSAYKRRYGQSESCVIEFNEKTADFQVFTVRE 74

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R   R
Sbjct: 75  VVEEVFDSRLEISLKDALAISSAYELGDKIRFEESVNEFGRVAAQSAKQTIMEKMRRQMR 134

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + E+K+  GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR+  Y+Y
Sbjct: 135 EVMFNEYKEHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIDVYVY 194

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S + +
Sbjct: 195 KVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHNPN 254

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+ P
Sbjct: 255 VDAIGTIVGRGGSNIKKVISKFHPKRVDAKTGLEIPVEENIDVIQWVDDPAEFIYNAIAP 314

Query: 294 AIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V  V+  DED+ R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 315 AEVDMVLFDDEDLKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 368


>gi|50903880|gb|AAT87595.1| N utilization substance protein A [Streptococcus pyogenes
           MGAS10394]
 gi|71803212|gb|AAX72565.1| N utilization substance protein A [Streptococcus pyogenes MGAS6180]
 gi|94548429|gb|ABF38475.1| N utilization substance protein A [Streptococcus pyogenes
           MGAS10750]
          Length = 396

 Score =  240 bits (612), Expect = 5e-61,   Method: Compositional matrix adjust.
 Identities = 130/354 (36%), Positives = 209/354 (59%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK ID+  ++  + +S++ A +  YG      +E N +T D  +F + E
Sbjct: 15  EMLEAFRILEEEKHIDKADIIDAVTESLKSAYKRRYGQSESCVIEFNEKTADFQVFTVRE 74

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R   R
Sbjct: 75  VVEEVFDSRLEISLKDALAISSAYELGDKIRFEESVNEFGRVAAQSAKQTIMEKMRRQMR 134

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + E+K+  GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR+  Y+Y
Sbjct: 135 EVMFNEYKEHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIDVYVY 194

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S + +
Sbjct: 195 KVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHNPN 254

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+ P
Sbjct: 255 VDAIGTIVGRGGSNIKKVISKFHPKRVDAKTGLEIPVEENIDVIQWVDDPAEFIYNAIAP 314

Query: 294 AIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V  V+  DED+ R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 315 AEVDMVLFDDEDLKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 368


>gi|329954143|ref|ZP_08295238.1| transcription termination factor NusA [Bacteroides clarus YIT
           12056]
 gi|328528120|gb|EGF55100.1| transcription termination factor NusA [Bacteroides clarus YIT
           12056]
          Length = 421

 Score =  240 bits (612), Expect = 5e-61,   Method: Compositional matrix adjust.
 Identities = 129/334 (38%), Positives = 213/334 (63%), Gaps = 5/334 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD  ++R  EVV  E++EN   
Sbjct: 21  KNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDFEIWRNREVVADEDLENPNL 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QISL  AR  D S ++G  V+D +    FGR A+ + +Q +  K+ E E+D  Y ++ DK
Sbjct: 81  QISLSEARKIDASYEVGEEVTDEVNFAKFGRRAILNLRQTLASKILELEKDSIYNKYIDK 140

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VG II+  V ++    +++  D GN + ++ + E I  +  R G+  ++ +  V  +   
Sbjct: 141 VGTIINAEVYQIWKKEMLLLDDEGN-ELLLPKTEQIPSDFYRKGETARAVVARVDNKNNN 199

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACV
Sbjct: 200 PKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERAKIAVESYDDRIDPVGACV 259

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G++GSR+  +V ELR+E ID++ ++ +   F+  AL PA ++ + L+E+  + EV +  E
Sbjct: 260 GVKGSRIHGIVRELRNENIDVINYTSNIQLFIQRALSPAKISSIRLNEEEHKAEVFLKPE 319

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           ++SLAIG+ G N++LAS LT +TID+  E ++++
Sbjct: 320 EVSLAIGKGGLNIKLASMLTEYTIDVFRELDEAV 353


>gi|222153583|ref|YP_002562760.1| transcription elongation factor NusA [Streptococcus uberis 0140J]
 gi|222114396|emb|CAR43159.1| putative N utilization substance protein A [Streptococcus uberis
           0140J]
          Length = 382

 Score =  240 bits (612), Expect = 5e-61,   Method: Compositional matrix adjust.
 Identities = 127/349 (36%), Positives = 209/349 (59%), Gaps = 15/349 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK I+++ ++  + +S++ A +  YG      +E N +TGD  +F + E
Sbjct: 4   EMLEAFRILEEEKHINKEDIIEAVTESLKSAYKRRYGQSESCVIEFNEKTGDFQVFSVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISL  A     + ++G  +       +FGRVA QSAKQ I++K+R   R
Sbjct: 64  VVEEVFDSRLEISLSDALAISSAYELGDKIRFEESVAEFGRVAAQSAKQTIMEKMRRQIR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + E+K+  GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR++ Y+Y
Sbjct: 124 EVTFNEYKEHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIEVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S + +
Sbjct: 184 KVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGSNIKKVISKFHPKRFDAKTGIEIPVEENIDVIQWVEDPAEFIYNAIAP 303

Query: 294 AIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           A V  V+  D+D+ R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI
Sbjct: 304 AEVDMVLFDDDDLKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDI 352


>gi|15675574|ref|NP_269748.1| transcription elongation factor NusA [Streptococcus pyogenes M1
           GAS]
 gi|71911225|ref|YP_282775.1| transcription elongation factor NusA [Streptococcus pyogenes
           MGAS5005]
 gi|162139078|ref|YP_597145.2| transcription elongation factor NusA [Streptococcus pyogenes
           MGAS9429]
 gi|162139127|ref|YP_601034.2| transcription elongation factor NusA [Streptococcus pyogenes
           MGAS2096]
 gi|13622778|gb|AAK34469.1| transcription termination-antitermination factor [Streptococcus
           pyogenes M1 GAS]
 gi|71854007|gb|AAZ52030.1| N utilization substance protein A [Streptococcus pyogenes MGAS5005]
          Length = 385

 Score =  240 bits (612), Expect = 5e-61,   Method: Compositional matrix adjust.
 Identities = 130/354 (36%), Positives = 209/354 (59%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK ID+  ++  + +S++ A +  YG      +E N +T D  +F + E
Sbjct: 4   EMLEAFRILEEEKHIDKADIIDAVTESLKSAYKRRYGQSESCVIEFNEKTADFQVFTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R   R
Sbjct: 64  VVEEVFDSRLEISLKDALAISSAYELGDKIRFEESVNEFGRVAAQSAKQTIMEKMRRQMR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + E+K+  GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR+  Y+Y
Sbjct: 124 EVMFNEYKEHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIDVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S + +
Sbjct: 184 KVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGSNIKKVISKFHPKRVDAKTGLEIPVEENIDVIQWVDDPAEFIYNAIAP 303

Query: 294 AIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V  V+  DED+ R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDMVLFDDEDLKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|28895281|ref|NP_801631.1| transcription elongation factor NusA [Streptococcus pyogenes SSI-1]
 gi|161485737|ref|NP_665302.2| transcription elongation factor NusA [Streptococcus pyogenes
           MGAS315]
 gi|209559841|ref|YP_002286313.1| transcription elongation factor NusA [Streptococcus pyogenes NZ131]
 gi|28810527|dbj|BAC63464.1| putative transcription termination-antitermination factor
           [Streptococcus pyogenes SSI-1]
 gi|209541042|gb|ACI61618.1| Transcription termination protein NusA [Streptococcus pyogenes
           NZ131]
          Length = 385

 Score =  240 bits (612), Expect = 5e-61,   Method: Compositional matrix adjust.
 Identities = 130/354 (36%), Positives = 209/354 (59%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK ID+  ++  + +S++ A +  YG      +E N +T D  +F + E
Sbjct: 4   EMLEAFRILEEEKHIDKADIIDAVTESLKSAYKRRYGQSESCVIEFNEKTADFQVFTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R   R
Sbjct: 64  VVEEVFDSRLEISLKDALAISSAYELGDKIRFEESVNEFGRVAAQSAKQTIMEKMRRQMR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + E+K+  GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR+  Y+Y
Sbjct: 124 EVMFNEYKEHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIDVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S + +
Sbjct: 184 KVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGSNIKKVISKFHPKRVDAKTGLEIPVEENIDVIQWVDDPAEFIYNAIAP 303

Query: 294 AIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V  V+  DED+ R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDMVLFDDEDLKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|323127911|gb|ADX25208.1| transcription elongation factor NusA [Streptococcus dysgalactiae
           subsp. equisimilis ATCC 12394]
          Length = 385

 Score =  240 bits (612), Expect = 5e-61,   Method: Compositional matrix adjust.
 Identities = 128/349 (36%), Positives = 208/349 (59%), Gaps = 15/349 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK ID+  ++  + +S++ A +  YG      +E N +T D  +F + E
Sbjct: 4   EMLEAFRILEEEKHIDKADIIDAVTESLKSAYKRRYGQAESCVIEFNEKTADFQVFTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R   R
Sbjct: 64  VVEEVFDSRLEISLKDALAISSAYELGDKIRFEESVNEFGRVAAQSAKQTIMEKMRRQMR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + E+K+  GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR++ Y+Y
Sbjct: 124 EVTFNEYKEHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIEVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S + +
Sbjct: 184 KVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGSNIKKVISKFHPKRLDAKTGLEIPVEENIDVIQWVDDPAEFIYNAIAP 303

Query: 294 AIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           A V  V+  D+D+ R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI
Sbjct: 304 AEVDMVLFDDDDLKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDI 352


>gi|257439271|ref|ZP_05615026.1| transcription termination factor NusA [Faecalibacterium prausnitzii
           A2-165]
 gi|257198146|gb|EEU96430.1| transcription termination factor NusA [Faecalibacterium prausnitzii
           A2-165]
          Length = 358

 Score =  239 bits (611), Expect = 5e-61,   Method: Compositional matrix adjust.
 Identities = 140/334 (41%), Positives = 207/334 (61%), Gaps = 7/334 (2%)

Query: 18  YEKSIDRDVVLSVMADSIQKAARSLYGTMSD-IRVEINPETGDISLFRLLEVVEEVENY- 75
           +E+ I  + ++  +  +I  A +  Y    D + VEI+P++G  ++  +  VV + + Y 
Sbjct: 4   HERGITAEYLIEKIKAAIVIAVKKNYEVEDDNVLVEIDPDSGKFNVALVQNVVADEDWYD 63

Query: 76  -TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              +I +  A+    S ++G  V  PL   DFGR+A Q+AK VI Q +REAER +Q  E 
Sbjct: 64  EHAEIGITEAQKIRKSYEVGDRVVTPLKTKDFGRIAAQTAKHVIRQGIREAERSQQLSEI 123

Query: 135 KDKVGEIISGTVKRV--EYGNVIVDLGNS-DGVIRRDETISRENLRPGDRVKSYIYDVRR 191
           + +  +II  TV RV  E G V +DLG   + ++ R+E +  E    G  ++ Y+ DV  
Sbjct: 124 QSRAHDIIQATVTRVDNEKGIVALDLGKGGEAILPRNEQVPGETYTEGQTLQVYVVDVVS 183

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPV 251
            +RG +V++SRTHP  + +LF +EVPEIY+G V+VKA+SR+ G+R K+AV+S D++++PV
Sbjct: 184 GERGARVMISRTHPGLVKRLFELEVPEIYDGTVEVKAISREAGARTKMAVWSKDANVNPV 243

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEV 310
            AC+G  G RV AVV +L  EKIDIV WS D + F+  AL PA V KV +L  +     V
Sbjct: 244 SACIGPHGDRVAAVVEKLGGEKIDIVKWSEDVSEFISAALSPAKVLKVELLPGETRSCRV 303

Query: 311 IVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            VP +QLSLAIG +GQN RL ++LTG+ IDI  E
Sbjct: 304 TVPDQQLSLAIGNKGQNARLCARLTGYNIDIRPE 337


>gi|323466337|gb|ADX70024.1| transcription elongation factor NusA [Lactobacillus helveticus H10]
          Length = 410

 Score =  239 bits (611), Expect = 6e-61,   Method: Compositional matrix adjust.
 Identities = 131/341 (38%), Positives = 211/341 (61%), Gaps = 2/341 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +   K I +DV++  +  ++  A +  Y    ++ V+ +   G+  +  +  
Sbjct: 21  EMLEAFATLEKTKGIKQDVIVDAIKAALVAAYKKNYNQAQNVEVDFDERRGNFKVMAVKT 80

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A   + + ++G  +   + P +FGR+A Q+AKQVI+Q++REAER
Sbjct: 81  VVDEVQDDRLEVSLKDALAINRAYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLREAER 140

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
                E+     E+++GTV+R +   V V +GN + ++ + + +  E   P D+++  + 
Sbjct: 141 SHIIDEYSQYEDELVTGTVERRDNRFVYVKIGNVEAIMPQRDQMPNEVYNPQDQIRVLVT 200

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V  + +G Q+++SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D +
Sbjct: 201 HVGSDSKGVQIVVSRTAPNVVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVKSNDPN 260

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DEDV 305
           IDPVG CVG +G+RVQ VV EL  E ID+V +  D + F+ NAL PA V  V    DE+ 
Sbjct: 261 IDPVGTCVGQKGARVQNVVNELGGENIDVVKYEEDPSDFIANALNPAEVIAVQFGDDEEE 320

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E
Sbjct: 321 KSALVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESE 361


>gi|322412488|gb|EFY03396.1| transcription elongation factor NusA [Streptococcus dysgalactiae
           subsp. dysgalactiae ATCC 27957]
          Length = 385

 Score =  239 bits (611), Expect = 6e-61,   Method: Compositional matrix adjust.
 Identities = 128/349 (36%), Positives = 208/349 (59%), Gaps = 15/349 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK ID+  ++  + +S++ A +  YG      +E N +T D  +F + E
Sbjct: 4   EMLEAFRILEEEKHIDKADIIDAVTESLKSAYKRRYGQAESCVIEFNEKTADFQVFTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R   R
Sbjct: 64  VVEEVFDSRLEISLKDALAISSAYELGDKIRFEESVNEFGRVAAQSAKQTIMEKMRRQMR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + E+K+  GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR++ Y+Y
Sbjct: 124 EVTFNEYKEHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIEVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S + +
Sbjct: 184 KVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGSNIKKVISKFHPKRLDAKTGLEIPVEENIDVIQWVDDPAEFIYNAIAP 303

Query: 294 AIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           A V  V+  D+D+ R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI
Sbjct: 304 AEVDMVLFDDDDLKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDI 352


>gi|251783184|ref|YP_002997489.1| transcription elongation factor NusA [Streptococcus dysgalactiae
           subsp. equisimilis GGS_124]
 gi|242391816|dbj|BAH82275.1| N utilization substance protein A [Streptococcus dysgalactiae
           subsp. equisimilis GGS_124]
          Length = 404

 Score =  239 bits (611), Expect = 6e-61,   Method: Compositional matrix adjust.
 Identities = 128/349 (36%), Positives = 208/349 (59%), Gaps = 15/349 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK ID+  ++  + +S++ A +  YG      +E N +T D  +F + E
Sbjct: 23  EMLEAFRILEEEKHIDKADIIDAVTESLKSAYKRRYGQAESCVIEFNEKTADFQVFTVRE 82

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R   R
Sbjct: 83  VVEEVFDSRLEISLKDALAISSAYELGDKIRFEESVNEFGRVAAQSAKQTIMEKMRRQMR 142

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + E+K+  GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR++ Y+Y
Sbjct: 143 EVTFNEYKEHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIEVYVY 202

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S + +
Sbjct: 203 KVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHNPN 262

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+ P
Sbjct: 263 VDAIGTIVGRGGSNIKKVISKFHPKRLDAKTGLEIPVEENIDVIQWVDDPAEFIYNAIAP 322

Query: 294 AIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           A V  V+  D+D+ R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI
Sbjct: 323 AEVDMVLFDDDDLKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDI 371


>gi|289643647|ref|ZP_06475760.1| NusA antitermination factor [Frankia symbiont of Datisca glomerata]
 gi|289506538|gb|EFD27524.1| NusA antitermination factor [Frankia symbiont of Datisca glomerata]
          Length = 362

 Score =  239 bits (611), Expect = 6e-61,   Method: Compositional matrix adjust.
 Identities = 140/335 (41%), Positives = 201/335 (60%), Gaps = 28/335 (8%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I  D ++  +  ++  A R   G  +D RV I+  +G ++++               
Sbjct: 14  EKDIAFDTLVEAIETALLTAYRHTDGAAADARVVIDRTSGHVAVY--------------- 58

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
                   R+ S+D G        P DFGR+A  +AKQVI+Q++REA+++  Y ++ D+ 
Sbjct: 59  -------ARETSLD-GMTREWEDTPADFGRIATMTAKQVIMQRLREAQQEITYGQYADRE 110

Query: 139 GEIISGTVKRVE--YGN--VIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
            E++SG V+  E   G+  V+VDLG  +GV+   E +  E    GDR+K Y+  V R   
Sbjct: 111 HEVVSGVVQHHEQRAGSKVVLVDLGTIEGVLPPAEQVPGERFEHGDRIKCYVVSVTRGVH 170

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           GP V LSRTHP+ +  LF MEVPE+ +G V++ A++R+ G R+K+AV S+ + ++P GAC
Sbjct: 171 GPTVTLSRTHPELVKGLFRMEVPEVADGTVEIAAIAREAGHRSKIAVRSTVAGVNPKGAC 230

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVP 313
           +G  G+RV+AV+ EL  EKIDIV WS D A FV NAL PA V +V V D  V    V+VP
Sbjct: 231 IGPMGARVRAVMAELHGEKIDIVDWSADPAAFVGNALSPARVARVEVADPAVRAARVVVP 290

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
             QLSLAIGR GQN RLA++LTGW IDI ++ E +
Sbjct: 291 DYQLSLAIGREGQNARLAARLTGWRIDIHSDTEGA 325


>gi|116514302|ref|YP_813208.1| transcription elongation factor NusA [Lactobacillus delbrueckii
           subsp. bulgaricus ATCC BAA-365]
 gi|116093617|gb|ABJ58770.1| Transcription elongation factor [Lactobacillus delbrueckii subsp.
           bulgaricus ATCC BAA-365]
          Length = 406

 Score =  239 bits (611), Expect = 6e-61,   Method: Compositional matrix adjust.
 Identities = 139/342 (40%), Positives = 212/342 (61%), Gaps = 3/342 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+  D +   K I +DV++  M  ++  A +  YG   ++ ++ N + GD  +  L  
Sbjct: 4   EMLEAFDVLEKTKGIKQDVIVEAMKAALAAAYKKNYGLAENVEIDFNEKKGDFKVMALKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A   + + ++G  +   + P +FGR A  +AKQV++Q++REAE 
Sbjct: 64  VVDEVQDDRVEVSLKDALAINRAYEVGDTIKFEVTPKNFGRTAAATAKQVVMQRLREAEN 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIR-RDETISRENLRPGDRVKSYI 186
                E+     E+++GTV+R +   V V++GN + V+  + +TI  E+  P DRV+  +
Sbjct: 124 AHIVNEYSQYEDELVTGTVERTDNRFVYVNIGNVEAVMDIKCDTIPGEHYNPQDRVRVLV 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V  + +G Q+ +SRT P  + + F  EVPEI++G V++ +++R+ G R K+AV S+D 
Sbjct: 184 TKVGADGKGAQIRVSRTAPDVVKRFFEQEVPEIFDGTVEIMSIAREAGERTKIAVKSNDP 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDV 305
           +IDPVG CVG RGSRVQ VV  L  E IDIV +  D + ++ NAL PA V  V   DED 
Sbjct: 244 NIDPVGTCVGPRGSRVQNVVNALGGENIDIVQYEEDPSDYIANALNPAEVIAVQFEDEDD 303

Query: 306 GRIE-VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            R   VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E
Sbjct: 304 KRKAFVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESE 345


>gi|257468347|ref|ZP_05632441.1| transcription elongation factor NusA [Fusobacterium ulcerans ATCC
           49185]
 gi|317062620|ref|ZP_07927105.1| transcription elongation factor NusA [Fusobacterium ulcerans ATCC
           49185]
 gi|313688296|gb|EFS25131.1| transcription elongation factor NusA [Fusobacterium ulcerans ATCC
           49185]
          Length = 361

 Score =  239 bits (611), Expect = 6e-61,   Method: Compositional matrix adjust.
 Identities = 140/355 (39%), Positives = 218/355 (61%), Gaps = 6/355 (1%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M S +    L+  D +  EK I ++ +L  +  ++  A +  +G   ++ VEIN ETGD+
Sbjct: 1   MKSKDAKVFLEALDELEREKGISKENLLLTVEQALLAAYKKNHGEEENVEVEINRETGDV 60

Query: 61  SLFRLLEVVEEVENY--TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            L+ +  VVE  + Y    +ISL  A++    + +G +V   +   +F R A+Q+ KQ++
Sbjct: 61  KLYEVKTVVETEDLYDAAIEISLDDAQEIKKRVKVGDIVRIEINCEEFRRNAIQNGKQIV 120

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLR 177
           IQKVREAER   Y  FK K  +II+G ++R+ E  N+ V+    + ++   E    +  R
Sbjct: 121 IQKVREAERQYIYDRFKGKENDIINGIIRRIDEKKNIFVEFDGIEAILPTTEQSPADTYR 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+R+K ++ +V +  + P++++SR H   + KLF +E+PEI +G++++KAV+R+ GSRA
Sbjct: 181 VGERLKVFLAEVEKTNKFPKIVISRKHEGLLKKLFELEIPEITSGLIEIKAVAREAGSRA 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV+S+D +ID VGAC+G +G R++ +V EL  EKIDIV+W      FV   L PA V 
Sbjct: 241 KVAVYSADPNIDTVGACIGQKGLRIKNIVNELNGEKIDIVIWKESVEEFVSAVLSPAKVK 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE---EEDSI 349
            V + ED     VIV   QLSLAIG+ GQN RLA++LTG  +DI TE   +EDS+
Sbjct: 301 SVEVIEDENTARVIVDNSQLSLAIGKNGQNARLAAKLTGMRVDIKTENSSKEDSL 355


>gi|161507684|ref|YP_001577638.1| transcription elongation factor NusA [Lactobacillus helveticus DPC
           4571]
 gi|160348673|gb|ABX27347.1| transcription termination-antitermination factor [Lactobacillus
           helveticus DPC 4571]
          Length = 393

 Score =  239 bits (611), Expect = 6e-61,   Method: Compositional matrix adjust.
 Identities = 131/341 (38%), Positives = 211/341 (61%), Gaps = 2/341 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +   K I +DV++  +  ++  A +  Y    ++ V+ +   G+  +  +  
Sbjct: 4   EMLEAFATLEKTKGIKQDVIVDAIKAALVAAYKKNYNQAQNVEVDFDERRGNFKVMAVKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A   + + ++G  +   + P +FGR+A Q+AKQVI+Q++REAER
Sbjct: 64  VVDEVQDDRLEVSLKDALAINRAYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
                E+     E+++GTV+R +   V V +GN + ++ + + +  E   P D+++  + 
Sbjct: 124 SHIIDEYSQYEDELVTGTVERRDNRFVYVKIGNVEAIMPQCDQMPNEVYNPQDQIRVLVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V  + +G Q+++SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D +
Sbjct: 184 HVGSDSKGAQIVVSRTAPDVVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVKSNDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DEDV 305
           IDPVG CVG +G+RVQ VV EL  E ID+V +  D + F+ NAL PA V  V    DE+ 
Sbjct: 244 IDPVGTCVGQKGARVQNVVNELGGENIDVVKYEEDPSDFIANALNPAEVIAVQFGDDEEE 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E
Sbjct: 304 KSALVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESE 344


>gi|94542552|gb|ABF32601.1| N utilization substance protein A [Streptococcus pyogenes MGAS9429]
 gi|94546443|gb|ABF36490.1| N utilization substance protein A [Streptococcus pyogenes MGAS2096]
          Length = 396

 Score =  239 bits (611), Expect = 6e-61,   Method: Compositional matrix adjust.
 Identities = 130/354 (36%), Positives = 209/354 (59%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK ID+  ++  + +S++ A +  YG      +E N +T D  +F + E
Sbjct: 15  EMLEAFRILEEEKHIDKADIIDAVTESLKSAYKRRYGQSESCVIEFNEKTADFQVFTVRE 74

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R   R
Sbjct: 75  VVEEVFDSRLEISLKDALAISSAYELGDKIRFEESVNEFGRVAAQSAKQTIMEKMRRQMR 134

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + E+K+  GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR+  Y+Y
Sbjct: 135 EVMFNEYKEHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIDVYVY 194

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S + +
Sbjct: 195 KVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHNPN 254

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+ P
Sbjct: 255 VDAIGTIVGRGGSNIKKVISKFHPKRVDAKTGLEIPVEENIDVIQWVDDPAEFIYNAIAP 314

Query: 294 AIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V  V+  DED+ R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 315 AEVDMVLFDDEDLKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 368


>gi|329117087|ref|ZP_08245804.1| transcription termination factor NusA [Streptococcus parauberis
           NCFD 2020]
 gi|326907492|gb|EGE54406.1| transcription termination factor NusA [Streptococcus parauberis
           NCFD 2020]
          Length = 395

 Score =  239 bits (611), Expect = 7e-61,   Method: Compositional matrix adjust.
 Identities = 128/349 (36%), Positives = 206/349 (59%), Gaps = 15/349 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK I++  ++  + +S++ A +  YG      +E N +TGD  +F + E
Sbjct: 15  EMLEAFRILEEEKHINKSDIIEAVTESLKSAYKRRYGQSESCVIEFNEKTGDFQVFTVRE 74

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +I LK A     + ++G  +       +FGRVA QSAKQ I++K+R   R
Sbjct: 75  VVEEVFDSRLEIGLKDALAISSAYELGDKIRFEESVAEFGRVAAQSAKQTIMEKMRRQMR 134

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + E+K+  GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR+  Y+Y
Sbjct: 135 EVTFNEYKEHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIDVYVY 194

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S + +
Sbjct: 195 KVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHNPN 254

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+ P
Sbjct: 255 VDAIGTIVGRGGSNIKKVISKFHPKRFDQKAGAEIPVEENIDVIQWVDDPAEFIYNAIAP 314

Query: 294 AIVTKVVLDE-DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           A V  V+ DE D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI
Sbjct: 315 AEVDMVLFDEADSKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDI 363


>gi|167764123|ref|ZP_02436250.1| hypothetical protein BACSTE_02506 [Bacteroides stercoris ATCC
           43183]
 gi|167698239|gb|EDS14818.1| hypothetical protein BACSTE_02506 [Bacteroides stercoris ATCC
           43183]
          Length = 421

 Score =  239 bits (610), Expect = 7e-61,   Method: Compositional matrix adjust.
 Identities = 129/334 (38%), Positives = 213/334 (63%), Gaps = 5/334 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD  ++R  EVV  E++EN   
Sbjct: 21  KNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDFEIWRNREVVADEDLENPNL 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QISL  AR  D S ++G  V+D +    FGR A+ + +Q +  K+ E E+D  Y ++ DK
Sbjct: 81  QISLSEARKIDASYEVGEEVTDEVNFAKFGRRAILNLRQTLASKILELEKDSIYNKYIDK 140

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VG II+  V ++    +++  D GN + ++ + E I  +  R G+  ++ +  V  +   
Sbjct: 141 VGTIINAEVYQIWKKEMLLLDDEGN-ELLLPKTEQIPSDFYRKGETARAVVARVDNKNNN 199

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACV
Sbjct: 200 PKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERAKIAVESYDDRIDPVGACV 259

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G++GSR+  +V ELR+E ID++ ++ +   F+  AL PA ++ + L+E+  + EV +  E
Sbjct: 260 GVKGSRIHGIVRELRNENIDVINYTSNIQLFIQRALSPAKISSIRLNEEEHKAEVFLKPE 319

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           ++SLAIG+ G N++LAS LT +TID+  E ++++
Sbjct: 320 EVSLAIGKGGLNIKLASMLTEYTIDVFRELDEAV 353


>gi|162139854|ref|YP_619194.2| transcription elongation factor NusA [Lactobacillus delbrueckii
           subsp. bulgaricus ATCC 11842]
          Length = 406

 Score =  239 bits (610), Expect = 7e-61,   Method: Compositional matrix adjust.
 Identities = 139/342 (40%), Positives = 212/342 (61%), Gaps = 3/342 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+  D +   K I +DV++  M  ++  A +  YG   ++ ++ N + GD  +  L  
Sbjct: 4   EMLEAFDVLEKTKGIKQDVIVEAMKAALAAAYKKNYGLAENVEIDFNEKKGDFKVMALKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A   + + ++G  +   + P +FGR A  +AKQV++Q++REAE 
Sbjct: 64  VVDEVQDDRVEVSLKDALAINRAYEVGDTIKFEVTPKNFGRTAAATAKQVVMQRLREAEN 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIR-RDETISRENLRPGDRVKSYI 186
                E+     E+++GTV+R +   V V++GN + V+  + +TI  E+  P DRV+  +
Sbjct: 124 AHIVNEYSQYEDELVTGTVERTDNRFVYVNIGNVEAVMDIKCDTIPGEHYNPQDRVRVLV 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V  + +G Q+ +SRT P  + + F  EVPEI++G V++ +++R+ G R K+AV S+D 
Sbjct: 184 TKVGADGKGAQIRVSRTAPDVVKRFFEQEVPEIFDGTVEIMSIAREAGERTKIAVKSNDP 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDV 305
           +IDPVG CVG RGSRVQ VV  L  E IDIV +  D + ++ NAL PA V  V   DED 
Sbjct: 244 NIDPVGTCVGPRGSRVQNVVNALGGENIDIVQYEEDPSDYIANALNPAEVIAVQFEDEDD 303

Query: 306 GRIE-VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            R   VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E
Sbjct: 304 ERKAFVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESE 345


>gi|256843341|ref|ZP_05548829.1| transcription termination factor NusA [Lactobacillus crispatus
           125-2-CHN]
 gi|256849840|ref|ZP_05555271.1| transcription termination-antitermination factor [Lactobacillus
           crispatus MV-1A-US]
 gi|262046914|ref|ZP_06019874.1| transcription termination factor NusA [Lactobacillus crispatus
           MV-3A-US]
 gi|256614761|gb|EEU19962.1| transcription termination factor NusA [Lactobacillus crispatus
           125-2-CHN]
 gi|256713329|gb|EEU28319.1| transcription termination-antitermination factor [Lactobacillus
           crispatus MV-1A-US]
 gi|260572896|gb|EEX29456.1| transcription termination factor NusA [Lactobacillus crispatus
           MV-3A-US]
          Length = 397

 Score =  239 bits (610), Expect = 7e-61,   Method: Compositional matrix adjust.
 Identities = 145/399 (36%), Positives = 228/399 (57%), Gaps = 7/399 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +   K I +DV++  +  ++  A +  Y    ++ V+ +   G+  +  +  
Sbjct: 4   EMLEAFATLENTKGIKQDVIVDAIKAALVAAYKKNYNQAQNVEVDFDERKGNFKVMAVKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A   + + ++G  +   + P +FGR+A Q+AKQVI+Q++REAER
Sbjct: 64  VVDEVQDDRLEVSLKDALTINRAYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
                E+     E+++GTV+R +   V V +GN + V+   + +  E   P D+++  + 
Sbjct: 124 KHIIDEYSQYEDELVTGTVERRDNRFVYVKIGNVEAVMPHRDQMPNEVYNPQDQIRVLVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V  + +G Q+ +SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D +
Sbjct: 184 HVGSDSKGAQITVSRTAPDMVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVKSNDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DEDV 305
           IDPVG CVG +G+RVQ VV EL  E IDIV +  D + F+ NAL PA V  V    DE+ 
Sbjct: 244 IDPVGTCVGQKGARVQNVVNELGGENIDIVKYEEDPSDFIANALNPAEVIAVQFGDDEEE 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
               VIVP  QLSLAIG++GQNVRLA++LT + IDI  E E         +E+T     A
Sbjct: 304 KSALVIVPDYQLSLAIGKKGQNVRLAARLTSYKIDIRPESEVEF-----VDEKTNDTADA 358

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEE 404
            +  E   ++   +  ADVE        E +S E   EE
Sbjct: 359 ADSSETSENVESTDDAADVESSDDTTTVEDSSKEDKTEE 397


>gi|288928619|ref|ZP_06422465.1| transcription termination factor NusA [Prevotella sp. oral taxon
           317 str. F0108]
 gi|288329603|gb|EFC68188.1| transcription termination factor NusA [Prevotella sp. oral taxon
           317 str. F0108]
          Length = 422

 Score =  239 bits (610), Expect = 8e-61,   Method: Compositional matrix adjust.
 Identities = 129/328 (39%), Positives = 208/328 (63%), Gaps = 3/328 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYTC 77
           K+IDR  ++SV+ +S +     ++G+  +  V +NP+ GD  ++R   VV   EVE+   
Sbjct: 24  KNIDRMTLVSVLEESFRNVLARIFGSDENFDVIVNPDKGDFEIYRNRMVVADGEVEDENK 83

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QI+L  A+  +P  ++G  V++ +    FGR A+ + +Q +  K+ E E D  Y ++KD+
Sbjct: 84  QIALAEAQKIEPDYEVGEEVTERVDFAKFGRRAILTLRQTLASKILELEHDSLYNKYKDR 143

Query: 138 VGEIISGTVKRVEYGNV-IVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG++I+G V +V    V IVD  N++ ++ + E I  +  R G+ +++ I  V  E   P
Sbjct: 144 VGQVIAGEVYQVWKREVLIVDDENNELILPKSEQIPADQYRKGETIRAVILRVDNENNNP 203

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +++LSRT P F+ +L   EVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACVG
Sbjct: 204 KIILSRTSPMFLERLLEAEVPEINDGLISIKRIARMPGERAKIAVESYDERIDPVGACVG 263

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           +RGSRV  +V EL +E ID++ ++ ++  F+  AL PA V+ + +DE+  + EV +  E+
Sbjct: 264 VRGSRVHGIVRELCNENIDVINYTANTKLFIQRALSPAQVSSINIDEETRKAEVFLRPEE 323

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +SLAIGR G N++LAS LT +TID+  E
Sbjct: 324 VSLAIGRGGLNIKLASMLTEYTIDVFRE 351


>gi|158313032|ref|YP_001505540.1| NusA antitermination factor [Frankia sp. EAN1pec]
 gi|158108437|gb|ABW10634.1| NusA antitermination factor [Frankia sp. EAN1pec]
          Length = 361

 Score =  239 bits (610), Expect = 9e-61,   Method: Compositional matrix adjust.
 Identities = 140/338 (41%), Positives = 203/338 (60%), Gaps = 28/338 (8%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I  D ++  +  ++  A +   G+  D RV I+  +G++++F               
Sbjct: 14  EKEIAFDTLVEAIETALLTAYKHTTGSADDARVVIDRTSGEVAVF--------------- 58

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
                AR+  P    G        P DFGR+A  +AKQVI+Q++REA+++  Y ++ D+ 
Sbjct: 59  -----ARESGPD---GTSREWDDTPADFGRIATMTAKQVIMQRLREAQQEVTYGQYADRE 110

Query: 139 GEIISGTVKRVE--YGN--VIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
            E++SG V+  E   G+  V+VDLG  +GV+   E +  E L  GDR+K Y+  V R   
Sbjct: 111 HEVVSGVVQHHEQRAGSRVVLVDLGTVEGVLPPAEQVPGERLEHGDRIKCYVVHVARGMH 170

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           GP V LSRTHP+ +  LF +EVPE+ +G V++ A++R+ G R K+AV S  + ++P GAC
Sbjct: 171 GPTVTLSRTHPELVKGLFRLEVPEVADGTVELAAIAREAGHRTKIAVRSKAAGVNPKGAC 230

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR-IEVIVP 313
           +G  GSRV+AV+ EL  EKIDIV WS D A+FV +AL PA V++V + +   R   V+VP
Sbjct: 231 IGPMGSRVRAVMAELHGEKIDIVDWSADPASFVGSALSPARVSRVEVTDLASRSARVVVP 290

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINR 351
             QLSLAIGR GQN RLA++LTGW IDI ++ E S  R
Sbjct: 291 DYQLSLAIGREGQNARLAARLTGWRIDIHSDTEGSEPR 328


>gi|300727483|ref|ZP_07060874.1| transcription termination factor NusA [Prevotella bryantii B14]
 gi|299775186|gb|EFI71787.1| transcription termination factor NusA [Prevotella bryantii B14]
          Length = 420

 Score =  239 bits (610), Expect = 9e-61,   Method: Compositional matrix adjust.
 Identities = 138/355 (38%), Positives = 218/355 (61%), Gaps = 8/355 (2%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYTC 77
           K+IDR  ++SV+ +S +     ++G+  +  V +NP+ GD  ++R   VV   E+E+   
Sbjct: 24  KNIDRTTLVSVLEESFRNVLAKIFGSDENFDVIVNPDKGDFEIYRNRVVVADGEIEDENK 83

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QISL  AR  +P  ++G  VS+ +    FGR AV + +Q +  K+ E E D  Y ++KD+
Sbjct: 84  QISLTEARKIEPDYEVGEDVSEKVDFSKFGRRAVLNLRQTLASKILELEHDSLYNKYKDR 143

Query: 138 VGEIISGTVKRVEYGNV-IVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG+IISG V ++    V IVD  N++ ++ + E I  +  R G+ V++ I  V  E   P
Sbjct: 144 VGQIISGEVYQIWKREVLIVDDENNELILPKSEQIPADQYRKGETVRAVIARVDNENNNP 203

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +++LSRT P F+ +L   EVPEI +G++ ++ ++R PG RAK+AV S D  IDPVGACVG
Sbjct: 204 KIILSRTSPMFLERLLEAEVPEINDGLIAIRKIARMPGERAKIAVESFDERIDPVGACVG 263

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           ++GSRV  +V EL +E ID++ ++ +   F+  AL PA V+ + ++E+  + EV +  E+
Sbjct: 264 VKGSRVHGIVRELCNENIDVINYTSNIKLFIQRALSPAKVSSININEEEKKAEVYLQPEE 323

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDII-----TEEEDSINRQKDFNERTQFFMQAI 366
           +SLAIGR G N++LAS LT +TID+       E ED I   +  +E  Q+ + AI
Sbjct: 324 VSLAIGRGGLNIKLASMLTEFTIDVFREIDENEAEDDIYLDEFSDEIDQWVIDAI 378


>gi|328465727|gb|EGF36931.1| transcription elongation factor NusA [Lactobacillus helveticus MTCC
           5463]
          Length = 405

 Score =  239 bits (610), Expect = 9e-61,   Method: Compositional matrix adjust.
 Identities = 131/341 (38%), Positives = 210/341 (61%), Gaps = 2/341 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +   K I +DV++  +  ++  A +  Y    ++ V+ +   G+  +  +  
Sbjct: 16  EMLEAFATLEKTKGIKQDVIVDAIKAALVAAYKKNYNQAQNVEVDFDERRGNFKVMAVKT 75

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A   +   ++G  +   + P +FGR+A Q+AKQVI+Q++REAER
Sbjct: 76  VVDEVQDDRLEVSLKDALAINRGYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLREAER 135

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
                E+     E+++GTV+R +   V V +GN + ++ + + +  E   P D+++  + 
Sbjct: 136 SHIIDEYSQYEDELVTGTVERRDNRFVYVKIGNVEAIMPQCDQMPNEVYNPQDQIRVLVT 195

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V  + +G Q+++SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D +
Sbjct: 196 HVGSDSKGAQIVVSRTAPDVVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVKSNDPN 255

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DEDV 305
           IDPVG CVG +G+RVQ VV EL  E ID+V +  D + F+ NAL PA V  V    DE+ 
Sbjct: 256 IDPVGTCVGQKGARVQNVVNELGGENIDVVKYEEDPSDFIANALNPAEVIAVQFGDDEEE 315

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E
Sbjct: 316 KSALVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESE 356


>gi|227878819|ref|ZP_03996726.1| transcription elongation factor NusA [Lactobacillus crispatus
           JV-V01]
 gi|227861567|gb|EEJ69179.1| transcription elongation factor NusA [Lactobacillus crispatus
           JV-V01]
          Length = 407

 Score =  239 bits (610), Expect = 9e-61,   Method: Compositional matrix adjust.
 Identities = 132/341 (38%), Positives = 208/341 (60%), Gaps = 2/341 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +   K I +DV++  +  ++  A +  Y    ++ V+ +   G+  +  +  
Sbjct: 14  EMLEAFATLENTKGIKQDVIVDAIKAALVAAYKKNYNQAQNVEVDFDERKGNFKVMAVKT 73

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A   + + ++G  +   + P +FGR+A Q+AKQVI+Q++REAER
Sbjct: 74  VVDEVQDDRLEVSLKDALTINRAYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLREAER 133

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
                E+     E+++GTV+R +   V V +GN + V+   + +  E   P D+++  + 
Sbjct: 134 KHIIDEYSQYEDELVTGTVERRDNRFVYVKIGNVEAVMPHRDQMPNEVYNPQDQIRVLVT 193

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V  + +G Q+ +SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D +
Sbjct: 194 HVGSDSKGAQITVSRTAPDMVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVKSNDPN 253

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DEDV 305
           IDPVG CVG +G+RVQ VV EL  E IDIV +  D + F+ NAL PA V  V    DE+ 
Sbjct: 254 IDPVGTCVGQKGARVQNVVNELGGENIDIVKYEEDPSDFIANALNPAEVIAVQFGDDEEE 313

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               VIVP  QLSLAIG++GQNVRLA++LT + IDI  E E
Sbjct: 314 KSALVIVPDYQLSLAIGKKGQNVRLAARLTSYKIDIRPESE 354


>gi|257457666|ref|ZP_05622833.1| transcription elongation factor NusA [Treponema vincentii ATCC
           35580]
 gi|257445052|gb|EEV20128.1| transcription elongation factor NusA [Treponema vincentii ATCC
           35580]
          Length = 485

 Score =  239 bits (609), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 144/419 (34%), Positives = 238/419 (56%), Gaps = 18/419 (4%)

Query: 17  AYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGD--ISLFRLLEVVEEVEN 74
           A EK +D D+ + ++  +++ A ++ + T ++  V     TGD  I+++   ++V++V  
Sbjct: 13  ALEKELDEDLAIKIVEQTLKAAYKTAFKTDANAVVI----TGDDAINIYARKKIVDDVVK 68

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              ++ ++ A    P  +IG  +   L P DF R ++Q+  Q + Q  RE ++D  Y E+
Sbjct: 69  PELEVDIEEATKLAPDCEIGDELLFELDPKDFKRGSIQAGVQRVHQSTREIQKDSIYSEY 128

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           K K GEII G  +R +  N+ VDLG  +G++ R   + +E   P DR+K+ I +V++ ++
Sbjct: 129 KAKEGEIIIGYYQRKKNDNIYVDLGKVEGLLPRKFQLPQEIYHPNDRIKALIKEVKKHRQ 188

Query: 195 GP--QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
               Q++LSRT P F+ +L  +EVPEIY+ IV++  + R+PG R K+AV S    +DPVG
Sbjct: 189 SNVVQLILSRTDPDFVRRLMELEVPEIYDNIVELYKIVREPGYRTKVAVISHREDVDPVG 248

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA-IVTKVVLDEDVGRIEVI 311
           ACVG +GSR+Q ++TEL  EKID++ +S D A F+ NAL PA ++  V+LD +      +
Sbjct: 249 ACVGPKGSRIQTIITELEGEKIDVLEYSSDPAVFIANALSPAEVLNVVILDAEKRMALAV 308

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE---------EDSINRQKDFNERTQFF 362
           V + QLS+AIG++G NVRLA++L  W+ID+ TE+         E     ++ FN+     
Sbjct: 309 VAESQLSIAIGKQGLNVRLANRLADWSIDVKTEKQFQEMDIHAETRKAAEELFNDDAVLL 368

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
                +D  +   L       VE+L  +   E+ ++ G  EE A  ++    E  E ID
Sbjct: 369 KDVEGIDPGVLAALHENHIETVEQLLDIPHEELRALPGMSEEKAAALEALINETFEIID 427


>gi|269303191|gb|ACZ33291.1| transcription termination factor NusA [Chlamydophila pneumoniae
           LPCoLN]
          Length = 434

 Score =  239 bits (609), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 148/428 (34%), Positives = 236/428 (55%), Gaps = 25/428 (5%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L+ I D +  EK I R  ++  +  +++ AA+      ++I V IN  TGDI +F   E+
Sbjct: 5   LVAIFDYMEKEKGIQRSTIIGAIESALKIAAKKTLRDDANISVNINSRTGDIEVFCEKEI 64

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VE  +N + +I L  AR+ DP   IG  +  P    +FGR+A  +A+Q+I QK+R AERD
Sbjct: 65  VEICQNPSKEIPLDKAREYDPDCQIGQYMDVPFVSDNFGRIAAHAARQIIGQKLRHAERD 124

Query: 129 RQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
             Y E++ +V EI+SG VKR   G N+I+DLG  + ++        E  + GD++ + +Y
Sbjct: 125 VIYEEYRHRVNEILSGVVKRFAKGSNLIIDLGKVEAILPTRFYPKTEKHKIGDKIYALLY 184

Query: 188 DVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           +V+  E  G +V+LSR+H +F+ +LF  EVPE+  G V++  ++R+ G R KLAV SSD 
Sbjct: 185 EVQESENGGAEVILSRSHAEFVKQLFIQEVPELEEGSVEIVKIAREAGYRTKLAVRSSDP 244

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
             DPVGA VGMRGSRV+ ++ EL DEKIDIV +SP S   + N L P  + K+ + ED  
Sbjct: 245 KTDPVGAFVGMRGSRVKNIIRELNDEKIDIVNYSPVSTELLQNLLYPIEIQKIAILEDDK 304

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN-----ERTQF 361
            I ++V     +  IG+RG N RL SQ+  + ++        + R  ++N     +R Q 
Sbjct: 305 VIAIVVNDADYATVIGKRGINARLISQILDYELE--------VQRMSEYNKLLEIQRLQL 356

Query: 362 F----------MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
                      ++   + +++   L   G+  +  +     +++AS+ G   E A +I  
Sbjct: 357 AEFDSPHLDQPLEMEGISKLVIQNLEHAGYDTIRRVLLASANDLASVPGISLELAYKILE 416

Query: 412 RAREYLEG 419
           +  +Y E 
Sbjct: 417 QVSKYGES 424


>gi|169334799|ref|ZP_02861992.1| hypothetical protein ANASTE_01205 [Anaerofustis stercorihominis DSM
           17244]
 gi|169257537|gb|EDS71503.1| hypothetical protein ANASTE_01205 [Anaerofustis stercorihominis DSM
           17244]
          Length = 394

 Score =  239 bits (609), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 140/355 (39%), Positives = 217/355 (61%), Gaps = 21/355 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           + ++  D +   K ID++ ++  +  ++  A +    T  D+ V IN  +G I  F   +
Sbjct: 15  DFIEALDEINKTKGIDKEEIIVAVEQALVAAYKKDTRTNVDLVVNINRVSGAIDAFYSKQ 74

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEVE+   +ISL  A   D S  +G  +   + P  FGR+A Q+AKQ+IIQK++E+ER
Sbjct: 75  IVEEVEDEDREISLHEALVLDKSAVLGASMVTHIDPKGFGRIATQNAKQLIIQKLKESER 134

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGN----------------VIVDLGNSDGVIRRDETI 171
           +     F  K  E+++G ++R EY                  + +DLG ++G++     +
Sbjct: 135 NIISNTFMKKKDEMVTGVIQREEYKEMRKMVHGEPIKEQNRIIHIDLGKAEGIMNSQNQV 194

Query: 172 SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSR 231
             E+  PG R+K Y+ DV    +GPQ++LSRTHP  + +LF  EV EI +GIV++K++SR
Sbjct: 195 RSEHYHPGMRLKVYVSDVILTPKGPQIILSRTHPGLIRRLFEEEVAEISDGIVEIKSISR 254

Query: 232 DPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINAL 291
           + GSR+K+AV+++D  IDPVG C+G +G R+Q V+ E+ DEKIDI+ +S D   ++ NAL
Sbjct: 255 EAGSRSKMAVYTADDQIDPVGTCIGPKGFRIQNVLNEIGDEKIDIIKYSEDPVEYIKNAL 314

Query: 292 RPAIVTKVVL---DEDVGR--IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            PA V +V +   +E+ G+    V+V   QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 315 APADVLRVDILQTEEEDGKNSAAVVVDDSQLSLAIGKDGQNVRLAARLTGWKIDI 369


>gi|226355942|ref|YP_002785682.1| transcription elongation factor NusA [Deinococcus deserti VCD115]
 gi|226317932|gb|ACO45928.1| putative Transcription elongation factor NusA [Deinococcus deserti
           VCD115]
          Length = 395

 Score =  239 bits (609), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 136/336 (40%), Positives = 215/336 (63%), Gaps = 4/336 (1%)

Query: 10  LQIADA---VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +  ADA   VA  ++I+   ++     S+ +A          I V ++P++G++ +  + 
Sbjct: 6   INFADALREVAQARNINELQLIEAFEQSLAQAYTRNVEPDKRIEVHLDPQSGELEVLVVR 65

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           EVVE+VE+   QISL  A + DP ++IG  +  P+    F R+A+Q+AKQ + QK+RE E
Sbjct: 66  EVVEKVEDEHLQISLADALELDPGVEIGMEMEFPVDREKFSRIALQAAKQTLTQKMRETE 125

Query: 127 RDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           R+  + E+KD+ G++++  V R +  GN  V+LG  + ++   E I  E L PG+RVK Y
Sbjct: 126 RNVVFNEYKDREGQVLTAQVVRSDNKGNWFVELGAGEAILPPREQIPGEKLTPGNRVKIY 185

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +VR+  +GP +L SR   + +  L   E+PE+ NGIV+VKA+SR+ G R+K+AVFS +
Sbjct: 186 LKEVRKTPKGPTILASRADERLLDYLLKQEIPEVANGIVEVKAISREAGQRSKVAVFSHN 245

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           S++DP+GAC+G RG+R+QAV  EL  E++D+++W  ++  F+ NAL PA V  + +  D 
Sbjct: 246 SNVDPIGACIGHRGNRIQAVTGELGRERVDVILWDANTREFIRNALSPAKVGLIEVQPDR 305

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
               V V  +QLSLAIG+ GQNVRLA++LTG+ ID+
Sbjct: 306 REATVTVTPDQLSLAIGKGGQNVRLAAKLTGFKIDL 341


>gi|300361902|ref|ZP_07058079.1| transcription termination factor NusA [Lactobacillus gasseri
           JV-V03]
 gi|300354521|gb|EFJ70392.1| transcription termination factor NusA [Lactobacillus gasseri
           JV-V03]
          Length = 416

 Score =  239 bits (609), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 132/342 (38%), Positives = 216/342 (63%), Gaps = 9/342 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+++    +  EK I +++++  +  ++  A +  Y    ++ V  + + G+  +  +  
Sbjct: 14  EMVEAFATLEKEKGIKQEIIVDAIKAALVAAYKKNYNQAQNVEVVFDEKKGNFKVNAIKT 73

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A + + + ++G  +   + P DFGR+A Q+AKQVI+Q++REAER
Sbjct: 74  VVDEVQDSRLEVSLKDALEINRAYEVGDEIRFEVTPKDFGRLAAQTAKQVIMQRLREAER 133

Query: 128 DR---QYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           +    +Y ++KD   EI++GTV+R +   V V +GN + V+  ++ +  EN  P D+V+ 
Sbjct: 134 EHIISEYSQYKD---EIVTGTVERRDNRFVYVKIGNVEAVMPHNDQLPGENYNPQDKVRV 190

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V  + +G Q+ +SRT P  + +LF  EVPE+Y+G V++ +++R+ G R K+AV S+
Sbjct: 191 LVTRVGSDSKGAQITVSRTAPDLVKRLFEQEVPEVYDGTVEIVSIAREAGDRTKIAVKSN 250

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--D 302
           D  IDPVG  VG +G+RVQ +V EL  E ID+V +  + + F+ NAL PA V  V    D
Sbjct: 251 DPDIDPVGTLVGPKGARVQNIVNELGGENIDVVKYEENPSDFIANALNPAEVIAVQFSGD 310

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +D   + VIVP  QLSLAIG+RGQNVRLA++LTG+ IDI  E
Sbjct: 311 DDKNAL-VIVPDYQLSLAIGKRGQNVRLAARLTGYKIDIKPE 351


>gi|293381214|ref|ZP_06627222.1| transcription termination factor NusA [Lactobacillus crispatus
           214-1]
 gi|290922254|gb|EFD99248.1| transcription termination factor NusA [Lactobacillus crispatus
           214-1]
          Length = 397

 Score =  239 bits (609), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 144/399 (36%), Positives = 228/399 (57%), Gaps = 7/399 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +   K I +D+++  +  ++  A +  Y    ++ V+ +   G+  +  +  
Sbjct: 4   EMLEAFATLENTKGIKQDIIVDAIKAALVAAYKKNYNQAQNVEVDFDERKGNFKVMAVKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A   + + ++G  +   + P +FGR+A Q+AKQVI+Q++REAER
Sbjct: 64  VVDEVQDDRLEVSLKDALTINRAYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
                E+     E+++GTV+R +   V V +GN + V+   + +  E   P D+++  + 
Sbjct: 124 KHIIDEYSQYEDELVTGTVERRDNRFVYVKIGNVEAVMPHRDQMPNEVYNPQDQIRVLVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V  + +G Q+ +SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D +
Sbjct: 184 HVGSDSKGAQITVSRTAPDMVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVKSNDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DEDV 305
           IDPVG CVG +G+RVQ VV EL  E IDIV +  D + F+ NAL PA V  V    DE+ 
Sbjct: 244 IDPVGTCVGQKGARVQNVVNELGGENIDIVKYEEDPSDFIANALNPAEVIAVQFGDDEEE 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
               VIVP  QLSLAIG++GQNVRLA++LT + IDI  E E         +E+T     A
Sbjct: 304 KSALVIVPDYQLSLAIGKKGQNVRLAARLTSYKIDIRPESEVEF-----VDEKTNDTADA 358

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEE 404
            +  E   ++   +  ADVE        E +S E   EE
Sbjct: 359 ADSSETSENVESTDDAADVESSDDTTTVEDSSKEDKTEE 397


>gi|311748745|ref|ZP_07722530.1| transcription termination factor NusA [Algoriphagus sp. PR1]
 gi|126577279|gb|EAZ81527.1| transcription termination factor NusA [Algoriphagus sp. PR1]
          Length = 414

 Score =  238 bits (608), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 126/333 (37%), Positives = 213/333 (63%), Gaps = 6/333 (1%)

Query: 17  AYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV----EEV 72
           A  K++DR  ++ ++ D  +   R  +    +  V IN + GD+ +FR+ E+V    E++
Sbjct: 14  ARSKNVDRPTMIRILEDVFRAMIRKKFENDENFDVTINADKGDLEIFRIREIVDDNSEDI 73

Query: 73  ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYL 132
            ++  +ISL  AR  +P  +IG  V + +   +FGR AVQ A+Q +IQ++++ E+D  Y 
Sbjct: 74  WDFD-KISLTEARKIEPDFEIGEEVYEKIELEEFGRRAVQMARQTLIQRIKDLEKDILYN 132

Query: 133 EFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRR 191
           +++++VGEI+S  V ++    V++ D   ++ ++ + E I ++  R GD VK+ ++ V  
Sbjct: 133 KYEEQVGEIVSAEVYQILGREVLLMDNEGNELILPKGEQIPKDRFRKGDAVKAIVHRVDM 192

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPV 251
               P+++LSRT P F+ +LF  EVPE+Y+G++ +  + R+PG RAK+AV S D  IDPV
Sbjct: 193 MNGNPKIILSRTSPVFLERLFENEVPEVYDGLITIVKIVREPGERAKVAVESYDDRIDPV 252

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI 311
           GACVGM+GSR+ AVV EL++E ID++ ++ +   +V  AL PA V+ +  D++  RI V 
Sbjct: 253 GACVGMKGSRIHAVVRELQNENIDVINFTDNLDLYVTRALSPAKVSSITADQETKRISVF 312

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +  +Q+SLAIG+ G N++LAS+L G+ ID+  E
Sbjct: 313 LKPDQVSLAIGKGGYNIKLASKLVGYEIDVFRE 345


>gi|21905243|gb|AAM80105.1| putative transcription termination-antitermination factor
           [Streptococcus pyogenes MGAS315]
          Length = 381

 Score =  238 bits (608), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 128/343 (37%), Positives = 204/343 (59%), Gaps = 15/343 (4%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK ID+  ++  + +S++ A +  YG      +E N +T D  +F + EVVEEV +   +
Sbjct: 11  EKHIDKADIIDAVTESLKSAYKRRYGQSESCVIEFNEKTADFQVFTVREVVEEVFDSRLE 70

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R   R+  + E+K+  
Sbjct: 71  ISLKDALAISSAYELGDKIRFEESVNEFGRVAAQSAKQTIMEKMRRQMREVMFNEYKEHE 130

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
           GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR+  Y+Y V    +G  V
Sbjct: 131 GEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIDVYVYKVENNPKGVNV 190

Query: 199 LLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMR 258
            +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S + ++D +G  VG  
Sbjct: 191 FVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHNPNVDAIGTIVGRG 250

Query: 259 GSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRPAIVTKVVL-DE 303
           GS ++ V+++                +E ID++ W  D A F+ NA+ PA V  V+  DE
Sbjct: 251 GSNIKKVISKFHPKRVDAKTGLEIPVEENIDVIQWVDDPAEFIYNAIAPAEVDMVLFDDE 310

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           D+ R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 311 DLKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 353


>gi|259503125|ref|ZP_05746027.1| N utilization substance protein A [Lactobacillus antri DSM 16041]
 gi|259168991|gb|EEW53486.1| N utilization substance protein A [Lactobacillus antri DSM 16041]
          Length = 389

 Score =  238 bits (608), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 135/352 (38%), Positives = 211/352 (59%), Gaps = 20/352 (5%)

Query: 14  DAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVE 73
           D +  EK I +++V+  +  +++ A +  YG   ++ VE N  TG+I ++ +  + ++ E
Sbjct: 6   DYLEKEKGIKKEIVIEALEQALESAYKQNYGD-KNVEVEFNATTGNIKVYAVKTITDDEE 64

Query: 74  NYTCQ----ISLKVARD--RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
                    +SL  AR        D+   + + + P +FGR+A Q+AKQV++Q++RE ER
Sbjct: 65  KVAADSNQYMSLAEARKLPHGQGYDVDDQIREEVTPRNFGRIAAQTAKQVVMQRLREEER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS-DGVIRRDETISRENLRPGDRVKSYI 186
              Y ++K    EII+G V R +     VDLG+  +G +   + +  E+ R  DR++ Y+
Sbjct: 125 RIVYDKYKTYENEIITGEVSREDKRFTYVDLGDGVEGAMGFRDKMPNEHYRVHDRIQVYV 184

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V  ++RGPQ+ +SRT P+ + +LF  EVPEI +G V ++ ++R+ G RAK+AV+S+D 
Sbjct: 185 SKVNDDRRGPQIYVSRTAPELLKRLFEREVPEIKDGTVLIENIAREAGDRAKVAVYSNDD 244

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           ++DPVG CVG RGSRVQA+V EL  E +DIV +  D A F+ NAL PA V  V+ ++ V 
Sbjct: 245 NVDPVGTCVGPRGSRVQAIVNELDGENMDIVEYVKDPAKFIANALNPAEVLDVIFNDPVT 304

Query: 307 ------------RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
                          V+VP +QLSLAIG+RGQN RLA++LT + IDI +  E
Sbjct: 305 IEREDGEEEQERSCTVVVPDDQLSLAIGKRGQNARLAARLTKYKIDIKSASE 356


>gi|320334652|ref|YP_004171363.1| NusA antitermination factor [Deinococcus maricopensis DSM 21211]
 gi|319755941|gb|ADV67698.1| NusA antitermination factor [Deinococcus maricopensis DSM 21211]
          Length = 397

 Score =  238 bits (608), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 131/327 (40%), Positives = 210/327 (64%), Gaps = 1/327 (0%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           VA  ++I+   ++     S+ +A          + V ++P++G+I +  + EVVE+VE+ 
Sbjct: 13  VAQSRNINEMQLIEAFEQSLAQAYTRNVDPDKRVEVHLDPKSGEIEVLVVKEVVEKVEDE 72

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
             QISL  A + DP  ++G  +  P+    F R+A+Q+AKQ + QK+RE ER+  + E+K
Sbjct: 73  NVQISLADALELDPEAELGEEMVFPVEREKFTRIALQAAKQTLTQKMRETERNVVFNEYK 132

Query: 136 DKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           DK G++++  V R++  GN  VDLG  + ++ + E I  E L PG+RVK Y+ +VR+  +
Sbjct: 133 DKEGQVLNAVVARLDNKGNYFVDLGAGEAILPQREAIPGERLMPGNRVKIYLKEVRKTPK 192

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           GP +L SR   + +  L   E+PE+ NGIV+VKA++R+ G R+K+AVFS + ++DP+GAC
Sbjct: 193 GPTILASRADERLLDYLLKQEIPEVANGIVEVKAIAREAGQRSKVAVFSHNPNVDPIGAC 252

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPK 314
           +G RG+R+QAV  EL  E++D+++W      F+ NAL PA V  + ++ D     V V  
Sbjct: 253 IGHRGNRIQAVTGELGRERVDVILWDATPREFIRNALSPAKVGLIEVNADTREATVTVTP 312

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +QLSLAIG+ GQNVRLA++LTG+ +D+
Sbjct: 313 DQLSLAIGKGGQNVRLAAKLTGYKVDL 339


>gi|108804247|ref|YP_644184.1| NusA antitermination factor [Rubrobacter xylanophilus DSM 9941]
 gi|108765490|gb|ABG04372.1| NusA antitermination factor [Rubrobacter xylanophilus DSM 9941]
          Length = 381

 Score =  238 bits (608), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 133/338 (39%), Positives = 198/338 (58%), Gaps = 30/338 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           LL     +  EK I  + V  V+ +S+  A R   G +    V ++ ETGD      L V
Sbjct: 5   LLSALHEIETEKGIPFETVKRVLEESLLAAYREREGAVEGAEVVLDRETGD------LRV 58

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           +++ E+ T +                          DF R+A    +Q  +Q++ E    
Sbjct: 59  MKDGEDITPE------------------------DFDFTRIAASLMRQNFMQRLNEVHNQ 94

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
           +   E+ +++G++++G V++      I+DLG  + ++   E +  E    G R+K Y+ D
Sbjct: 95  QLVKEYGERIGDVVTGIVQQAHRRMTIIDLGRVEALLPASEQVPGERYENGQRLKVYLLD 154

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           ++   RGP +++SR H   +  LF +EVPEIY+G+V++KAV+R+ G R+K+AV+S++  I
Sbjct: 155 IKEAGRGPSIIVSRRHEGLLRGLFELEVPEIYDGLVEIKAVAREAGLRSKVAVWSNEPGI 214

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI 308
           DPVGACVG RGSRV+AVV+ELR+EKIDI+ W PD A F+  AL PA V +V LDE+  + 
Sbjct: 215 DPVGACVGPRGSRVRAVVSELRNEKIDIIQWDPDPARFIAKALSPARVREVYLDEEEKQA 274

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           EVIVP +QLSLAIGR GQN RLA +LT W IDI  E +
Sbjct: 275 EVIVPDDQLSLAIGREGQNARLAVKLTDWKIDIKPESQ 312


>gi|110639790|ref|YP_680000.1| transcription elongation factor NusA [Cytophaga hutchinsonii ATCC
           33406]
 gi|110282471|gb|ABG60657.1| transcription elongation factor [Cytophaga hutchinsonii ATCC 33406]
          Length = 418

 Score =  238 bits (608), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 126/333 (37%), Positives = 209/333 (62%), Gaps = 8/333 (2%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV-----EEVEN 74
           KSIDR  ++ ++ D  +   R  YGT  +  V IN + GD+ ++ + E+V     E+  +
Sbjct: 17  KSIDRPTMMKIVEDVFRTMIRKKYGTDDNFNVIINVDKGDLEIWWMREIVSDDFAEDSFD 76

Query: 75  Y--TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYL 132
           Y     ISL  A   +   + G  V+  +   DFGR  VQ+A+Q +IQKV++ E+D  + 
Sbjct: 77  YDPNKHISLTDAHLIEKDFEEGEEVATEVKLEDFGRRMVQTARQTLIQKVKDLEKDNLFQ 136

Query: 133 EFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRR 191
           ++KD VGEII+G + +V    ++ +D   ++  + + E I ++  R GD V++ ++ V  
Sbjct: 137 KYKDLVGEIINGEIYQVLSKEILLIDADGNELALPKYEQIPKDRFRKGDNVRAIVHRVEM 196

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPV 251
               P+++LSRT P+F+ +LF +EVPE+Y+G++ ++ + R+PG RAK+AV S D  IDPV
Sbjct: 197 HNGNPKIILSRTSPKFLERLFELEVPEVYDGLISIRNIVREPGERAKVAVESYDDRIDPV 256

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI 311
           GACVGM+GSR+ ++V EL +E ID++ ++ +   F+  AL PA ++ + ++ D GR  V 
Sbjct: 257 GACVGMKGSRIHSIVRELENENIDVINFTDNIDLFIARALSPAKISSLKVEADKGRASVY 316

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +  +Q+SLAIG+ GQN++LAS+L G  ID+  E
Sbjct: 317 LKPDQVSLAIGKGGQNIKLASKLVGLEIDVFRE 349


>gi|327398877|ref|YP_004339746.1| NusA antitermination factor [Hippea maritima DSM 10411]
 gi|327181506|gb|AEA33687.1| NusA antitermination factor [Hippea maritima DSM 10411]
          Length = 360

 Score =  238 bits (608), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 132/335 (39%), Positives = 210/335 (62%), Gaps = 2/335 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+LQIA  ++ E  ID + V+  +A++++ A +  YG  +D+R+E + +  +I    + +
Sbjct: 3   EILQIAKKISEEHEIDLERVVEYLAEALKIAIQKKYGDEADVRIETDVDN-EIFDVYVKK 61

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            V E      QISL+ A+   P   +G  V + +     GR+AV + K VI + +R+ E+
Sbjct: 62  KVVEKPMLDSQISLEEAKAIKPDAKVGDYVEEKVDAKSLGRIAVTTIKNVITKLLRDIEK 121

Query: 128 DRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
            + Y E+K+ +G+II G V  +    NVIVD  N+ GV+ + E    +    G+ +K+Y+
Sbjct: 122 HKAYEEYKEYIGKIIVGEVWSIGSNNNVIVDFKNAIGVLPKREQGINDKYVVGEHIKAYV 181

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            DV  E +  +++LSRTHP F+ +LF  EVPE+  G V++KAV+R+P  R K+AV+S DS
Sbjct: 182 LDVLEEAKQVRLILSRTHPGFVKELFKKEVPEVREGSVEIKAVAREPSRRTKVAVYSKDS 241

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDP+G CVG +G R+ A+V EL DEKID++ WS D + ++ NA+ PA V  V +DED+ 
Sbjct: 242 RIDPIGTCVGSKGVRIAAIVRELGDEKIDVIKWSADPSIYIRNAMSPAKVISVEIDEDLK 301

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           + +V V   + S+AIG+ G N +LA++LTG+ IDI
Sbjct: 302 KAKVYVDDAEYSMAIGKGGVNAKLAAKLTGYNIDI 336


>gi|198277417|ref|ZP_03209948.1| hypothetical protein BACPLE_03631 [Bacteroides plebeius DSM 17135]
 gi|198269915|gb|EDY94185.1| hypothetical protein BACPLE_03631 [Bacteroides plebeius DSM 17135]
          Length = 419

 Score =  238 bits (608), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 129/329 (39%), Positives = 207/329 (62%), Gaps = 5/329 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD  ++R  EVV  EE+ N   
Sbjct: 21  KNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDFEIWRNREVVADEELTNPNL 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QI+L  AR  D S ++G  V+D +    FGR A+ + +Q +  K+ E E+D  Y ++ DK
Sbjct: 81  QIALSEARKIDASYEVGEEVTDEVIFEKFGRRAILNLRQTLASKILELEKDSLYNKYIDK 140

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VG +IS  V ++    +++  D GN + ++ + E I  +  R G+  ++ +  V  +   
Sbjct: 141 VGTVISAEVYQIWKKEILLLDDEGN-ELLLPKTEQIPSDFYRKGETARAVVARVDNKNNN 199

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P+++LSRT P F+ +LF  EVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACV
Sbjct: 200 PKIILSRTSPVFLQRLFEQEVPEINDGLITIKKIARIPGERAKIAVESYDERIDPVGACV 259

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G++GSR+  +V ELR+E ID++ ++ +   F+  AL PA V+ +++ ED  R EV +  E
Sbjct: 260 GVKGSRIHGIVRELRNENIDVINYTSNIQLFIQRALSPAKVSSIIMHEDEKRAEVYLKPE 319

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           ++SLAIG+ G N++LAS LT +TID+  E
Sbjct: 320 EVSLAIGKGGLNIKLASMLTEYTIDVYRE 348


>gi|24378911|ref|NP_720866.1| transcription elongation factor NusA [Streptococcus mutans UA159]
 gi|290581068|ref|YP_003485460.1| putative transcription factor [Streptococcus mutans NN2025]
 gi|24376794|gb|AAN58172.1|AE014888_10 putative transcription factor NusA [Streptococcus mutans UA159]
 gi|254997967|dbj|BAH88568.1| putative transcription factor [Streptococcus mutans NN2025]
          Length = 397

 Score =  238 bits (607), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 124/349 (35%), Positives = 208/349 (59%), Gaps = 15/349 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK I++D ++  + +S++ A +  YG      +E + ++GD  +F + E
Sbjct: 4   EMLEAFRILEEEKHINKDDIIDAVKESLKSAYKRRYGQAESAEIEFDEKSGDFKVFTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R   R
Sbjct: 64  VVEEVFDSRLEISLKDALAISTAYELGDKIRFEESPKEFGRVAAQSAKQTIMEKMRRQMR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + E+K+   EI++GTV+R +   + V+LG  +  + R + +  E     DR++ Y+Y
Sbjct: 124 EVTFNEYKEHEREIMTGTVERFDNRFIYVNLGTIEAQLSRQDQVPGETFASHDRIEVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +V+R+ G R K+AV S + +
Sbjct: 184 KVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVAREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG +G+ ++ V ++                +E +D++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRKGANIKKVTSKFHPKRFDQKTGLWVPMEENVDVIEWVDDPAEFIYNAVAP 303

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           A V +V+ D ED     V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI
Sbjct: 304 AEVDQVLFDEEDDKHATVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDI 352


>gi|329964512|ref|ZP_08301566.1| transcription termination factor NusA [Bacteroides fluxus YIT
           12057]
 gi|328524912|gb|EGF51964.1| transcription termination factor NusA [Bacteroides fluxus YIT
           12057]
          Length = 423

 Score =  238 bits (607), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 128/329 (38%), Positives = 210/329 (63%), Gaps = 5/329 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYTC 77
           K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD  ++R  EVVE  E+EN   
Sbjct: 21  KNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDFEIWRNREVVEDAELENPNL 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QI+L  A+  D S ++G  V+D +   +FGR A+ + +Q +  K+ E E+D  Y ++ DK
Sbjct: 81  QIALSEAQKIDASYEVGEEVTDEVIFANFGRRAILNLRQTLASKILELEKDSIYNKYIDK 140

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VG II+  V ++    +++  D GN + ++ + E I  +  R G+  ++ +  V  +   
Sbjct: 141 VGTIINAEVYQIWKKEMLLLDDEGN-ELLLPKTEQIPSDFYRKGETARAVVARVDNKNNN 199

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACV
Sbjct: 200 PKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERAKIAVESYDDRIDPVGACV 259

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G++GSR+  +V ELR+E ID++ ++ +   F+  AL PA ++ + L+E+  + EV +  E
Sbjct: 260 GVKGSRIHGIVRELRNENIDVINYTSNIQLFIQRALSPAKISSIRLNEEEHKAEVFLKPE 319

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           ++SLAIG+ G N++LAS LT +TID+  E
Sbjct: 320 EVSLAIGKGGLNIKLASMLTEYTIDVFRE 348


>gi|319790652|ref|YP_004152285.1| NusA antitermination factor [Thermovibrio ammonificans HB-1]
 gi|317115154|gb|ADU97644.1| NusA antitermination factor [Thermovibrio ammonificans HB-1]
          Length = 380

 Score =  238 bits (607), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 148/350 (42%), Positives = 216/350 (61%), Gaps = 25/350 (7%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I ++ V+  +   I  AA+   G   D+ V+I+ +  D  +++  +VVEEV +   +
Sbjct: 14  EKGISKEDVIEAVKVGIINAAKKA-GYRGDLVVKIDEDGKDFGIYQRKKVVEEVTDPDHE 72

Query: 79  ISLKVARDR-DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           ISL+ AR+     + +G  V   +   + GR+A ++A QVI  K+ EAER   +  F+ K
Sbjct: 73  ISLEEARELFGDQVKLGDEVLIEIKTEELGRIAAKAAAQVIHDKITEAERRALFDYFRQK 132

Query: 138 VGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDV----RRE 192
           +G++ISGTVK ++  G+++VDLG   GV+ ++E I +E  R GDRV++YIYDV    +R 
Sbjct: 133 IGDVISGTVKEIKRNGDIVVDLGRVIGVLPKEEQIPKERYRIGDRVRAYIYDVVFDYKRY 192

Query: 193 QRG----------PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
            R           P V+LSRTHP+ + +L  +E+PE+  G+V+VKAV+R+PG RAK+AV 
Sbjct: 193 NRKKPSRIDDYPPPYVILSRTHPKLLKRLMEIEIPEVAEGLVEVKAVAREPGVRAKVAVD 252

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S +  IDPVGAC+G++GSR+  +  EL  EKI+I+ WS D A  V  AL PA V +    
Sbjct: 253 SKEDYIDPVGACIGVKGSRILPISRELSGEKIEIIRWSDDVAELVARALSPAKVIQAESY 312

Query: 303 EDVG---RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT-----IDIITE 344
           ED     R+EV+VP +QLSLAIG+ G N RLAS+L G       IDII E
Sbjct: 313 EDENGEFRVEVVVPDDQLSLAIGKHGVNARLASKLAGQAGHVVGIDIIKE 362


>gi|255530056|ref|YP_003090428.1| transcription elongation factor NusA [Pedobacter heparinus DSM
           2366]
 gi|255343040|gb|ACU02366.1| transcription termination factor NusA [Pedobacter heparinus DSM
           2366]
          Length = 411

 Score =  238 bits (607), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 124/329 (37%), Positives = 209/329 (63%), Gaps = 5/329 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYTC 77
           K+IDR  V+SV+ +  +   R  YGT  +  V +NP+ GD+ ++R  +V+E+   E+   
Sbjct: 17  KNIDRPTVISVLEEVFRSMLRKKYGTDENCDVIVNPDNGDLEIWRTRKVMEDGFSEDDDL 76

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +I L   +  DP +++G    + +    FGR A+ +A+Q ++ KV E E+D  + ++KD+
Sbjct: 77  EIELAEVKQLDPDMEVGDDYIEQITLESFGRRAILAARQTLVSKVLELEKDEIFKKYKDR 136

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VGEI++G V +V     +V  D GN + ++ + E I  +  + GD V++ I  V      
Sbjct: 137 VGEIVTGEVYQVWKKETLVLDDEGN-ELMMPKTEQIPADYFKKGDTVRAVILKVDMVNAT 195

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P++++SR  P+F+ +LF +EVPEI++G++ +K + R+PG RAK+AV S D  IDPVGACV
Sbjct: 196 PKIIISRIAPEFLQRLFEIEVPEIFDGLITIKKIVREPGERAKVAVESYDDRIDPVGACV 255

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           GM+GSR+  +V EL++E ID++ ++ + + ++  AL PA +T + LD++     V +  +
Sbjct: 256 GMKGSRIHGIVRELKNENIDVINFTNNISLYITRALSPAKITSIKLDDETKHASVYLKPD 315

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           Q+SLAIGR G N++LA +LTG+ ID+  E
Sbjct: 316 QVSLAIGRGGHNIKLAGKLTGYEIDVYRE 344


>gi|325126000|gb|ADY85330.1| Transcription termination-antitermination factor [Lactobacillus
           delbrueckii subsp. bulgaricus 2038]
          Length = 468

 Score =  238 bits (606), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 139/342 (40%), Positives = 212/342 (61%), Gaps = 3/342 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+  D +   K I +DV++  M  ++  A +  YG   ++ ++ N + GD  +  L  
Sbjct: 66  EMLEAFDVLEKTKGIKQDVIVEAMKAALAAAYKKNYGLAENVEIDFNEKKGDFKVMALKT 125

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A   + + ++G  +   + P +FGR A  +AKQV++Q++REAE 
Sbjct: 126 VVDEVQDDRVEVSLKDALAINRAYEVGDTIKFEVTPKNFGRTAAATAKQVVMQRLREAEN 185

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIR-RDETISRENLRPGDRVKSYI 186
                E+     E+++GTV+R +   V V++GN + V+  + +TI  E+  P DRV+  +
Sbjct: 186 AHIVNEYSQYEDELVTGTVERTDNRFVYVNIGNVEAVMDIKCDTIPGEHYNPQDRVRVLV 245

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V  + +G Q+ +SRT P  + + F  EVPEI++G V++ +++R+ G R K+AV S+D 
Sbjct: 246 TKVGADGKGAQIRVSRTPPDVVKRFFEQEVPEIFDGTVEIMSIAREAGERTKIAVKSNDP 305

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDV 305
           +IDPVG CVG RGSRVQ VV  L  E IDIV +  D + ++ NAL PA V  V   DED 
Sbjct: 306 NIDPVGTCVGPRGSRVQNVVNALGGENIDIVQYEEDPSDYIANALNPAEVIAVQFEDEDD 365

Query: 306 GRIE-VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            R   VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E
Sbjct: 366 ERKAFVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESE 407


>gi|103423295|emb|CAI98136.1| Transcription elongation factor NusA [Lactobacillus delbrueckii
           subsp. bulgaricus ATCC 11842]
          Length = 402

 Score =  238 bits (606), Expect = 3e-60,   Method: Compositional matrix adjust.
 Identities = 138/341 (40%), Positives = 211/341 (61%), Gaps = 3/341 (0%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +L+  D +   K I +DV++  M  ++  A +  YG   ++ ++ N + GD  +  L  V
Sbjct: 1   MLEAFDVLEKTKGIKQDVIVEAMKAALAAAYKKNYGLAENVEIDFNEKKGDFKVMALKTV 60

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           V+EV++   ++SLK A   + + ++G  +   + P +FGR A  +AKQV++Q++REAE  
Sbjct: 61  VDEVQDDRVEVSLKDALAINRAYEVGDTIKFEVTPKNFGRTAAATAKQVVMQRLREAENA 120

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIR-RDETISRENLRPGDRVKSYIY 187
               E+     E+++GTV+R +   V V++GN + V+  + +TI  E+  P DRV+  + 
Sbjct: 121 HIVNEYSQYEDELVTGTVERTDNRFVYVNIGNVEAVMDIKCDTIPGEHYNPQDRVRVLVT 180

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V  + +G Q+ +SRT P  + + F  EVPEI++G V++ +++R+ G R K+AV S+D +
Sbjct: 181 KVGADGKGAQIRVSRTAPDVVKRFFEQEVPEIFDGTVEIMSIAREAGERTKIAVKSNDPN 240

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVG 306
           IDPVG CVG RGSRVQ VV  L  E IDIV +  D + ++ NAL PA V  V   DED  
Sbjct: 241 IDPVGTCVGPRGSRVQNVVNALGGENIDIVQYEEDPSDYIANALNPAEVIAVQFEDEDDE 300

Query: 307 RIE-VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           R   VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E
Sbjct: 301 RKAFVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESE 341


>gi|189459826|ref|ZP_03008611.1| hypothetical protein BACCOP_00456 [Bacteroides coprocola DSM 17136]
 gi|189433436|gb|EDV02421.1| hypothetical protein BACCOP_00456 [Bacteroides coprocola DSM 17136]
          Length = 418

 Score =  238 bits (606), Expect = 3e-60,   Method: Compositional matrix adjust.
 Identities = 129/329 (39%), Positives = 208/329 (63%), Gaps = 5/329 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD  ++R  EVV  +E+ N   
Sbjct: 21  KNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDFEIWRNREVVADDELTNPNL 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QISL  AR  D S ++G  V+D +    FGR A+ + +Q +  K+ E E+D  Y ++ DK
Sbjct: 81  QISLTEARKIDASYEVGEEVTDEVIFEKFGRRAILNLRQTLASKILELEKDSLYNKYIDK 140

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VG II+  V ++    +++  D GN + ++ + E I  +  R G+ V++ +  V  +   
Sbjct: 141 VGTIIAAEVYQIWKKEILLLDDEGN-ELLLPKTEQIPSDFYRKGETVRAVVARVDNKNNN 199

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P+++LSRT P F+ +LF  EVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACV
Sbjct: 200 PKIILSRTSPMFLQRLFEQEVPEINDGLITIKKIARIPGERAKIAVESYDERIDPVGACV 259

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G++GSR+  +V ELR+E ID++ ++ +   FV  AL PA V+ +++ E+  + EV +  E
Sbjct: 260 GVKGSRIHGIVRELRNENIDVINYTSNIQLFVQRALSPAKVSSIIMHEEEKKAEVYLKPE 319

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           ++SLAIG+ G N++LAS LT +TID+  E
Sbjct: 320 EVSLAIGKGGMNIKLASMLTEYTIDVYRE 348


>gi|296877069|ref|ZP_06901110.1| transcription termination factor NusA [Streptococcus parasanguinis
           ATCC 15912]
 gi|296431930|gb|EFH17736.1| transcription termination factor NusA [Streptococcus parasanguinis
           ATCC 15912]
          Length = 380

 Score =  238 bits (606), Expect = 3e-60,   Method: Compositional matrix adjust.
 Identities = 128/354 (36%), Positives = 209/354 (59%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG      +E N +TGD  ++ + E
Sbjct: 4   EMLEAFRILEEDKGIKKEDIIEAVTESLRSAYRRRYGQSESAAIEFNEKTGDFRVYTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 64  VVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E  +  DR++ ++Y
Sbjct: 124 TITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFQSHDRIEVFVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + +
Sbjct: 184 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ + ++                +E ID++ W PD A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGSNIKKITSKFHPARYDQKLERMVPTEENIDVIEWVPDPAEFIYNAIAP 303

Query: 294 AIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V +V+  DED     V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDQVIFDDEDSKHALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|239617901|ref|YP_002941223.1| NusA antitermination factor [Kosmotoga olearia TBF 19.5.1]
 gi|239506732|gb|ACR80219.1| NusA antitermination factor [Kosmotoga olearia TBF 19.5.1]
          Length = 342

 Score =  237 bits (605), Expect = 3e-60,   Method: Compositional matrix adjust.
 Identities = 130/323 (40%), Positives = 202/323 (62%), Gaps = 1/323 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQI 79
           K+I +D V+S++  ++Q A R  +GT +++ V I+  TGDI+++  L+VV+EVEN   +I
Sbjct: 16  KNIKKDEVISILEKALQSAYRKNFGTENEVEVRIDRLTGDIAIYEKLKVVDEVENPYREI 75

Query: 80  SLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVG 139
           +L  A+  D   +I G V   L    F R+A Q+A+QV+IQK+RE E++  +  +    G
Sbjct: 76  TLSEAKKIDSDAEIDGYVYRKLNIKKFKRIAAQTARQVLIQKIREMEKENLFQTYSALKG 135

Query: 140 EIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVL 199
            + +  + RV      + +G  +  +   E I  E LR G  +K ++ DV R  +GP++L
Sbjct: 136 SVTTAEILRVTENWADIRIGKLESRLPTREMIPGERLRAGSFIKVFVVDVVRTTKGPKIL 195

Query: 200 LSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRG 259
           ++R   +F+V+L  ++VPEI +G V VKAV+R+ G R K+AV S++  +DP+GAC+G  G
Sbjct: 196 VTRKGTEFVVELLKLQVPEIESGDVVVKAVAREEGIRTKVAVASTNPKVDPIGACIGEGG 255

Query: 260 SRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI-VPKEQLS 318
            R+  V+ E+R EK+DI+ WS D A FV NA+ PA   +V +     R  V+ V   QLS
Sbjct: 256 VRIAEVLREIRPEKVDILKWSDDPAEFVGNAIAPATAVEVKIVSSANREAVVYVSPTQLS 315

Query: 319 LAIGRRGQNVRLASQLTGWTIDI 341
           LAIG+ GQN RLA++LTGW +DI
Sbjct: 316 LAIGKGGQNARLAAKLTGWKVDI 338


>gi|312867863|ref|ZP_07728068.1| transcription termination factor NusA [Streptococcus parasanguinis
           F0405]
 gi|311096618|gb|EFQ54857.1| transcription termination factor NusA [Streptococcus parasanguinis
           F0405]
          Length = 380

 Score =  237 bits (605), Expect = 3e-60,   Method: Compositional matrix adjust.
 Identities = 127/354 (35%), Positives = 210/354 (59%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG      +E N +TGD  ++ + E
Sbjct: 4   EMLEAFRILEEDKGIKKEDIIEAVTESLRSAYRRRYGQSESAAIEFNEKTGDFRVYTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +     P +FGRVA Q+AKQ I++K+R+  R
Sbjct: 64  VVDEVFDSRLEISLKDALTISSAYELGDKIKFEEAPAEFGRVAAQAAKQTIMEKMRKQTR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E  +  DR++ ++Y
Sbjct: 124 TITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFQSHDRIEVFVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + +
Sbjct: 184 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ + ++                +E ID++ W PD A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGSNIKKITSKFHPARYDQKLDRMVPTEENIDVIEWVPDPAEFIYNAIAP 303

Query: 294 AIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V +V+  DED     V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI ++ E
Sbjct: 304 AEVDQVIFDDEDSKHALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSDSE 357


>gi|55820434|ref|YP_138876.1| transcription elongation factor NusA [Streptococcus thermophilus
           LMG 18311]
 gi|55822318|ref|YP_140759.1| transcription elongation factor NusA [Streptococcus thermophilus
           CNRZ1066]
 gi|55736419|gb|AAV60061.1| transcription termination-antitermination factor [Streptococcus
           thermophilus LMG 18311]
 gi|55738303|gb|AAV61944.1| transcription termination-antitermination factor [Streptococcus
           thermophilus CNRZ1066]
          Length = 395

 Score =  237 bits (605), Expect = 3e-60,   Method: Compositional matrix adjust.
 Identities = 131/349 (37%), Positives = 206/349 (59%), Gaps = 15/349 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK I+++ ++  + +S++ A +  YG      VE N +TGD  +F + E
Sbjct: 4   EMLEAFRVLEEEKHINKEDIIDAVVESLKSAYKRRYGQSESAVVEFNEKTGDFQVFTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R+  R
Sbjct: 64  VVDEVFDSRLEISLKDALAISSAYELGDKIRFEESVDEFGRVAAQSAKQTIMEKMRKQMR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y E+K   GEI+ GTV+R +   + V+LG  +  + R + I  E+ +  D +  Y+Y
Sbjct: 124 EITYNEYKQHEGEIMQGTVERFDQRFIYVNLGTLEAQLSRQDQIPGESFKSHDVIDVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S + +
Sbjct: 184 KVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ VV+                 +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGSNIKKVVSRFHPTRLDAKTGIEVPVEENIDVIQWVEDPAEFIYNAIAP 303

Query: 294 AIVTKVVLDE-DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           A V  V+ DE D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI
Sbjct: 304 AEVDYVLFDEDDSKRATVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDI 352


>gi|322391042|ref|ZP_08064546.1| transcription elongation factor NusA [Streptococcus parasanguinis
           ATCC 903]
 gi|321142272|gb|EFX37746.1| transcription elongation factor NusA [Streptococcus parasanguinis
           ATCC 903]
          Length = 380

 Score =  237 bits (605), Expect = 3e-60,   Method: Compositional matrix adjust.
 Identities = 128/354 (36%), Positives = 209/354 (59%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG      +E N +TGD  ++ + E
Sbjct: 4   EMLEAFRILEEDKGIKKEDIIEAVTESLRSAYRRRYGQSESAAIEFNEKTGDFRVYTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 64  VVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E  +  DR++ ++Y
Sbjct: 124 TITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFQSHDRIEVFVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + +
Sbjct: 184 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ + ++                +E ID++ W PD A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGSNIKKITSKFHPARYDQKLDRMVPTEENIDVIEWVPDPAEFIYNAIAP 303

Query: 294 AIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V +V+  DED     V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDQVIFDDEDSKHALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|295132451|ref|YP_003583127.1| transcription elongation factor NusA [Zunongwangia profunda SM-A87]
 gi|294980466|gb|ADF50931.1| transcription elongation factor NusA [Zunongwangia profunda SM-A87]
          Length = 410

 Score =  237 bits (605), Expect = 4e-60,   Method: Compositional matrix adjust.
 Identities = 131/335 (39%), Positives = 206/335 (61%), Gaps = 7/335 (2%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYT 76
           +K IDR  +++++ D  + A +  YG   +  + +NP+ GD+ ++R   VV   EVE+  
Sbjct: 16  DKLIDRVTLMAILEDVFRNALKKKYGEDDNFDIIVNPDKGDLEIWRNRVVVADGEVEDPN 75

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +ISL  AR  +P  ++G  VS+ +   D GR A+ + +Q +I K+ E +    Y +FKD
Sbjct: 76  QEISLAEARKIEPDFEVGEDVSEEVKLKDLGRRAILALRQNLISKIHEHDNTNIYKQFKD 135

Query: 137 KVGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
             GEI +  V  + +  +I+  D GN + V+ +D  I  +  R G+ V+  I  V  +  
Sbjct: 136 LEGEIYTAEVHHIRHRAIILLDDEGN-EIVLPKDRQIPSDFFRKGENVRGVIESVELKGN 194

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
            P ++LSRT P F+ KLF  E+PE+++G++ +K V R PG +AK+AV S D  IDPVGAC
Sbjct: 195 KPSIILSRTAPAFLEKLFEQEIPEVFDGLITIKKVVRVPGEKAKVAVDSYDDRIDPVGAC 254

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPK 314
           VGM+GSR+ ++V EL +E ID++ ++ +   F+  AL PA +T + +DE+  R EV++  
Sbjct: 255 VGMKGSRIHSIVRELGNENIDVINYTNNDQLFITRALSPAKITSIKIDEENKRAEVMLKP 314

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITE--EED 347
           E++S AIGR G N+RLA QLTG+ ID+  E  EED
Sbjct: 315 EEVSKAIGRGGHNIRLAGQLTGYEIDVFREGVEED 349


>gi|291166364|gb|EFE28410.1| transcription termination factor NusA [Filifactor alocis ATCC
           35896]
          Length = 412

 Score =  237 bits (604), Expect = 4e-60,   Method: Compositional matrix adjust.
 Identities = 138/353 (39%), Positives = 220/353 (62%), Gaps = 16/353 (4%)

Query: 7   LELLQIADAVAYEKS-IDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
           +E +++A   AY+K+ ++++     +   ++K  + L    ++++V I+ ETGDI +F  
Sbjct: 24  IEAVEMALVKAYKKNFVEKNNYNDTL---VEKDPKKLSLEKNNVQVSIDRETGDIKVFSK 80

Query: 66  LEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
            EVV   E++    +ISL+ A++ D +  +G +V + + P +FGR+A Q+A+QV+IQK+ 
Sbjct: 81  KEVVNKREIDLLEGEISLEGAQEIDINYKVGDIVQEEITPRNFGRIATQTARQVVIQKIT 140

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGN-------VIVDLGNS---DGVIRRDETISR 173
           EA RD  Y EF ++  EI+ G V R+   N       ++ + G++   +  +   E I  
Sbjct: 141 EAGRDIIYNEFSNRESEIMIGEVVRIGKHNTCHLNLSLVSEKGHTIYGEATMISQEQIPY 200

Query: 174 ENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDP 233
           E    G R+  YI +V++    PQ+L+SR+ P  + +LF  EVPEI +GIVQ+K+++R+ 
Sbjct: 201 EEYSVGQRIIVYILEVKKHNNVPQILVSRSRPGLVKRLFEREVPEISDGIVQIKSIAREA 260

Query: 234 GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP 293
           GSR KL+V S D S+D +GACVG +G RV  +V EL  EKIDIV +  +   ++ NAL P
Sbjct: 261 GSRTKLSVCSVDPSVDAIGACVGGKGIRVANIVEELHGEKIDIVNYDENPIEYISNALSP 320

Query: 294 AIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           + V  V ++E+    +VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E +
Sbjct: 321 SKVVDVSVNEEEKTAKVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQ 373


>gi|325299860|ref|YP_004259777.1| NusA antitermination factor [Bacteroides salanitronis DSM 18170]
 gi|324319413|gb|ADY37304.1| NusA antitermination factor [Bacteroides salanitronis DSM 18170]
          Length = 423

 Score =  237 bits (604), Expect = 4e-60,   Method: Compositional matrix adjust.
 Identities = 129/329 (39%), Positives = 208/329 (63%), Gaps = 5/329 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD  ++R  EVV  E+  N   
Sbjct: 21  KNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDFEIWRNREVVADEDFANPNR 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QISL  AR  D S ++G  V+D +    FGR A+ + +Q +  K+ E E+D  Y ++ D+
Sbjct: 81  QISLTEARKIDASYEVGEEVTDEVIFEKFGRRAILNLRQTLASKILELEKDSLYNKYIDR 140

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VG II+  V ++    +++  D GN + ++ + E I  +  R G+ V++ +  V  +   
Sbjct: 141 VGTIIAAEVYQIWKKEILLLDDEGN-ELLLPKAEQIPSDFYRKGETVRAVVARVDNKNNN 199

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P+++LSRT P+F+ +LF  EVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACV
Sbjct: 200 PKIILSRTAPEFLQRLFEQEVPEINDGLITIKKIARIPGERAKIAVESYDDRIDPVGACV 259

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G++GSR+  +V ELR+E ID++ ++ +   F+  AL PA V+ +V+ E+  R EV +  E
Sbjct: 260 GVKGSRIHGIVRELRNENIDVINYTSNIQLFIQRALSPATVSSIVMHEEEKRAEVYLKPE 319

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           ++SLAIG+ G N++LAS LT +TID+  E
Sbjct: 320 EVSLAIGKGGMNIKLASMLTEYTIDVYRE 348


>gi|160887870|ref|ZP_02068873.1| hypothetical protein BACUNI_00273 [Bacteroides uniformis ATCC 8492]
 gi|317477855|ref|ZP_07937041.1| transcription termination factor NusA [Bacteroides sp. 4_1_36]
 gi|156862556|gb|EDO55987.1| hypothetical protein BACUNI_00273 [Bacteroides uniformis ATCC 8492]
 gi|316905991|gb|EFV27759.1| transcription termination factor NusA [Bacteroides sp. 4_1_36]
          Length = 421

 Score =  237 bits (604), Expect = 4e-60,   Method: Compositional matrix adjust.
 Identities = 128/334 (38%), Positives = 214/334 (64%), Gaps = 5/334 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD  ++R  EVV  E++EN   
Sbjct: 21  KNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDFEIWRNREVVADEDLENPNL 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QI+L  A+  D S ++G  V+D +   +FGR A+ + +Q +  K+ E E+D  Y ++ DK
Sbjct: 81  QIALSEAQKIDASYEVGEEVTDEVIFANFGRRAILNLRQTLASKILELEKDSIYNKYIDK 140

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VG II+  V ++    +++  D GN + ++ + E I  +  R G+  ++ +  V  +   
Sbjct: 141 VGTIINAEVYQIWKKEMLLLDDEGN-ELLLPKTEQIPSDFYRKGETARAVVARVDNKNNN 199

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACV
Sbjct: 200 PKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERAKIAVESYDDRIDPVGACV 259

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G++GSR+  +V ELR+E ID++ ++ +   F+  AL PA ++ + L+E+  + EV +  E
Sbjct: 260 GVKGSRIHGIVRELRNENIDVINYTSNIQLFIQRALSPAKISSIRLNEEERKAEVFLKPE 319

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           ++SLAIG+ G N++LAS LT +TID+  E +++I
Sbjct: 320 EVSLAIGKGGLNIKLASMLTEYTIDVFRELDEAI 353


>gi|319900402|ref|YP_004160130.1| NusA antitermination factor [Bacteroides helcogenes P 36-108]
 gi|319415433|gb|ADV42544.1| NusA antitermination factor [Bacteroides helcogenes P 36-108]
          Length = 421

 Score =  237 bits (604), Expect = 4e-60,   Method: Compositional matrix adjust.
 Identities = 128/329 (38%), Positives = 208/329 (63%), Gaps = 5/329 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYTC 77
           K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD  ++R  EVV +  VEN   
Sbjct: 21  KNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDFEIWRNREVVADADVENSNL 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QI L  AR  D S ++G  V+D +   +FGR A+ + +Q +  K+ E E+D  Y ++ DK
Sbjct: 81  QIPLSEARKIDASYEVGEEVTDEVIFANFGRRAILNLRQTLASKIMELEKDSIYNKYIDK 140

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VG II+  V ++    +++  D GN + ++ + E I  +  R G+  ++ +  V  +   
Sbjct: 141 VGTIINAEVYQIWKKEMLLLDDEGN-ELLLPKTEQIPSDFYRKGETARAVVARVDNKNNN 199

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACV
Sbjct: 200 PKIILSRTSPIFLQRLFEMEVPEINDGLITIKKIARIPGERAKIAVESYDDRIDPVGACV 259

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G++GSR+  +V ELR+E ID++ ++ +   F+  AL PA ++ + L+E+  + EV +  E
Sbjct: 260 GVKGSRIHGIVRELRNENIDVINYTSNIQLFIQRALSPAKISSIRLNEEEHKAEVFLKPE 319

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           ++SLAIG+ G N++LAS LT +TID+  E
Sbjct: 320 EVSLAIGKGGLNIKLASMLTEYTIDVFRE 348


>gi|270294867|ref|ZP_06201068.1| transcription termination factor NusA [Bacteroides sp. D20]
 gi|270274114|gb|EFA19975.1| transcription termination factor NusA [Bacteroides sp. D20]
          Length = 421

 Score =  237 bits (604), Expect = 4e-60,   Method: Compositional matrix adjust.
 Identities = 128/334 (38%), Positives = 214/334 (64%), Gaps = 5/334 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD  ++R  EVV  E++EN   
Sbjct: 21  KNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDFEIWRNREVVADEDLENPNL 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QI+L  A+  D S ++G  V+D +   +FGR A+ + +Q +  K+ E E+D  Y ++ DK
Sbjct: 81  QIALSEAQKIDASYEVGEEVTDEVIFANFGRRAILNLRQTLASKILELEKDSIYNKYIDK 140

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VG II+  V ++    +++  D GN + ++ + E I  +  R G+  ++ +  V  +   
Sbjct: 141 VGTIINAEVYQIWKKEMLLLDDEGN-ELLLPKTEQIPSDFYRKGETARAVVARVDNKNNN 199

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACV
Sbjct: 200 PKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERAKIAVESYDDRIDPVGACV 259

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G++GSR+  +V ELR+E ID++ ++ +   F+  AL PA ++ + L+E+  + EV +  E
Sbjct: 260 GVKGSRIHGIVRELRNENIDVINYTSNIQLFIQRALSPAKISSIRLNEEERKAEVFLKPE 319

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           ++SLAIG+ G N++LAS LT +TID+  E +++I
Sbjct: 320 EVSLAIGKGGLNIKLASMLTEYTIDVFRELDEAI 353


>gi|306832818|ref|ZP_07465953.1| transcription termination factor NusA [Streptococcus bovis ATCC
           700338]
 gi|304425053|gb|EFM28184.1| transcription termination factor NusA [Streptococcus bovis ATCC
           700338]
          Length = 399

 Score =  237 bits (604), Expect = 4e-60,   Method: Compositional matrix adjust.
 Identities = 127/349 (36%), Positives = 206/349 (59%), Gaps = 15/349 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK I+++ ++  + +S++ A +  YG      +E + + GD  ++ + E
Sbjct: 7   EMLEAFRILEEEKHINKEDIIDAVKESLKSAYKRRYGQSESCVIEFDDKKGDFKVYTVRE 66

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISL  A     + ++G  +       +FGRVA QSAKQ I++K+R   R
Sbjct: 67  VVEEVFDSRLEISLSDALKISSAYELGDKIRFEESVAEFGRVAAQSAKQTIMEKMRRQIR 126

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y E+K   GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR++ Y+Y
Sbjct: 127 EVTYNEYKQHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIEVYVY 186

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +G  V +SR+HPQF+ ++   E+PE+++G V++ +VSR+ G R K+AV S + +
Sbjct: 187 KVENNPKGVNVFVSRSHPQFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHNPN 246

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+ P
Sbjct: 247 VDAIGTIVGRGGSNIKKVISKFHPKRYDAKAGIEVPIEENIDVIQWVEDPAEFIYNAIAP 306

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           A V  V+ D ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI
Sbjct: 307 AEVDMVLFDEEDSKRATVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDI 355


>gi|320547937|ref|ZP_08042220.1| transcription termination factor NusA [Streptococcus equinus ATCC
           9812]
 gi|320447477|gb|EFW88237.1| transcription termination factor NusA [Streptococcus equinus ATCC
           9812]
          Length = 389

 Score =  237 bits (604), Expect = 5e-60,   Method: Compositional matrix adjust.
 Identities = 129/354 (36%), Positives = 208/354 (58%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK I++D ++  + +S++ A +  YG      +E + + GD  ++ + E
Sbjct: 7   EMLEAFRILEEEKHINKDDIIDAVKESLKSAYKRRYGQSESCVIEFDDKKGDFKVYTVRE 66

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISL  A     + ++G  +       +FGRVA QSAKQ I++K+R   R
Sbjct: 67  VVEEVFDSRLEISLSDALKISSAYELGDKIRFEESVAEFGRVAAQSAKQTIMEKMRRQIR 126

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y E+K   GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR++ Y+Y
Sbjct: 127 EVTYNEYKQHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETWKSHDRIEVYVY 186

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +G  V +SR+HPQF+ ++   E+PE+++G V++ +VSR+ G R K+AV S + +
Sbjct: 187 KVENNPKGVNVFVSRSHPQFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHNPN 246

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+ P
Sbjct: 247 VDAIGTIVGRGGSNIKKVISKFHPKRYDAKAGVEVPVEENIDVIQWVEDPAEFIYNAIAP 306

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V  V+ D ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 307 AEVDMVLFDEEDSKRATVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 360


>gi|306830580|ref|ZP_07463747.1| transcription termination factor NusA [Streptococcus gallolyticus
           subsp. gallolyticus TX20005]
 gi|325977559|ref|YP_004287275.1| transcription elongation protein nusA [Streptococcus gallolyticus
           subsp. gallolyticus ATCC BAA-2069]
 gi|304427298|gb|EFM30403.1| transcription termination factor NusA [Streptococcus gallolyticus
           subsp. gallolyticus TX20005]
 gi|325177487|emb|CBZ47531.1| Transcription elongation protein nusA [Streptococcus gallolyticus
           subsp. gallolyticus ATCC BAA-2069]
          Length = 399

 Score =  236 bits (603), Expect = 5e-60,   Method: Compositional matrix adjust.
 Identities = 128/354 (36%), Positives = 208/354 (58%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK I+++ ++  + +S++ A +  YG      +E + + GD  ++ + E
Sbjct: 7   EMLEAFRILEEEKHINKEDIIDAVKESLKSAYKRRYGQSESCVIEFDDKKGDFKVYTVRE 66

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISL  A     + ++G  +       +FGRVA QSAKQ I++K+R   R
Sbjct: 67  VVEEVFDSRLEISLSDALKISSAYELGDKIRFEESVAEFGRVAAQSAKQTIMEKMRRQIR 126

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y E+K   GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR++ Y+Y
Sbjct: 127 EVTYNEYKQHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIEVYVY 186

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +G  V +SR+HPQF+ ++   E+PE+++G V++ +VSR+ G R K+AV S + +
Sbjct: 187 KVENNPKGVNVFVSRSHPQFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHNPN 246

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+ P
Sbjct: 247 VDAIGTIVGRGGSNIKKVISKFHPKRYDAKAGVEVPIEENIDVIQWVEDPAEFIYNAIAP 306

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V  V+ D ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 307 AEVDMVLFDEEDSKRATVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 360


>gi|255692953|ref|ZP_05416628.1| transcription termination factor NusA [Bacteroides finegoldii DSM
           17565]
 gi|260621264|gb|EEX44135.1| transcription termination factor NusA [Bacteroides finegoldii DSM
           17565]
          Length = 421

 Score =  236 bits (603), Expect = 5e-60,   Method: Compositional matrix adjust.
 Identities = 128/334 (38%), Positives = 213/334 (63%), Gaps = 5/334 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD  ++R  EVV  E++ N   
Sbjct: 21  KNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDFEIWRNREVVADEDLTNPNM 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QISL  A+  D S ++G  V+D +    FGR A+ + +Q +  K+ E E+D  Y ++ DK
Sbjct: 81  QISLSEAQKIDASYEVGEEVTDEVIFAKFGRRAILNLRQTLASKILELEKDSIYNKYIDK 140

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VG II+  V ++    +++  D GN + ++ + E I  +  R G+  ++ +  V  +   
Sbjct: 141 VGTIINAEVYQIWKKEMLLLDDEGN-ELLLPKTEQIPSDFYRKGETARAVVARVDNKNNN 199

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACV
Sbjct: 200 PKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERAKIAVESYDDRIDPVGACV 259

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G++GSR+  +V ELR+E ID++ ++ + + F+  AL PA ++ + L+E+  + EV +  E
Sbjct: 260 GVKGSRIHGIVRELRNENIDVINYTSNISLFIQRALSPAKISSIRLNEEEKKAEVFLKPE 319

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           ++SLAIG+ G N++LAS LT +TID+  E ++S+
Sbjct: 320 EVSLAIGKGGLNIKLASMLTEYTIDVFRELDESV 353


>gi|330466360|ref|YP_004404103.1| transcription elongation factor NusA [Verrucosispora maris
           AB-18-032]
 gi|328809331|gb|AEB43503.1| transcription elongation factor NusA [Verrucosispora maris
           AB-18-032]
          Length = 347

 Score =  236 bits (603), Expect = 5e-60,   Method: Compositional matrix adjust.
 Identities = 140/340 (41%), Positives = 202/340 (59%), Gaps = 29/340 (8%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  E+ I  D +L+ +  ++  A R   G  S  RVEI+ ++G                
Sbjct: 10  ALEREREIPFDTILAAIETALLTAYRHTEGAQSHARVEIDRKSG---------------- 53

Query: 75  YTCQISLKVARDRDPSIDIGGVVSD-PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
                +L  A++ DP    GGVV +    P DFGR+A  +AKQVI+Q++REA  +  + E
Sbjct: 54  ----AALVYAQEMDPE---GGVVREWDDTPHDFGRIAAMTAKQVILQRLREATDEVHFGE 106

Query: 134 FKDKVGEIISGTVK----RVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDV 189
           +  + G++++G V+    R E G V VDLG  +GV+ + E +  E    G+R++  +  V
Sbjct: 107 YVGRDGDLVTGVVQAHEARAEKGIVTVDLGKLEGVLPQSEQVPGERYTHGERIRCVVVHV 166

Query: 190 RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSID 249
            +  RGPQ+ LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+   ++
Sbjct: 167 AKGMRGPQITLSRTHPNLVKKLFALEVPEIADGTVEISAIAREAGHRTKIAVRSTTPGVN 226

Query: 250 PVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRI 308
             GAC+G  G RV+AV++EL  EKIDI+ WS D ATFV NAL PA   +V V+D      
Sbjct: 227 AKGACIGPMGQRVRAVMSELHGEKIDIIDWSDDPATFVGNALSPAKALRVEVVDLANRAA 286

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
            V VP  QLSLAIGR GQN RLA++LTGW IDI ++ E +
Sbjct: 287 RVTVPDFQLSLAIGREGQNARLAARLTGWRIDIRSDAEQA 326


>gi|315606722|ref|ZP_07881732.1| transcription termination factor NusA [Prevotella buccae ATCC
           33574]
 gi|315251577|gb|EFU31556.1| transcription termination factor NusA [Prevotella buccae ATCC
           33574]
          Length = 421

 Score =  236 bits (603), Expect = 5e-60,   Method: Compositional matrix adjust.
 Identities = 129/328 (39%), Positives = 207/328 (63%), Gaps = 3/328 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYTC 77
           K+IDR  ++SV+ +S +     ++G+  +  V +NP+ GD  ++R   VV   EVE+   
Sbjct: 24  KNIDRTTLVSVLEESFRNVLAKIFGSDENFDVIVNPDKGDFEIYRNRVVVADGEVEDENK 83

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +ISL  A+  +P  ++G  VS+ +    FGR A+ + +Q +  K+ E E D  Y ++KD+
Sbjct: 84  EISLTEAQKIEPDYEVGEDVSEKVDFNKFGRRAILTLRQTLASKILELEHDSLYNKYKDR 143

Query: 138 VGEIISGTVKRVEYGNV-IVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG++ISG V ++    V IVD  N++ ++ + E I  +  R G+ V++ I  V  E   P
Sbjct: 144 VGQVISGEVYQMWKREVLIVDDENNELILPKAEQIPADQYRKGETVRAVILRVDNENNNP 203

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +++LSRT P F+ +L   EVPEI +G++ ++ ++R PG RAK+AV S D  IDPVGACVG
Sbjct: 204 KIILSRTSPMFLERLLEAEVPEISDGLIAIRKIARMPGDRAKVAVESFDERIDPVGACVG 263

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           ++GSRV  +V EL +E ID++ ++ +   F+  AL PA V+ + +DE+  + EV +  E+
Sbjct: 264 VKGSRVHGIVRELCNENIDVINYTSNVKLFIQRALSPAKVSSINIDEENHKAEVYLQPEE 323

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +SLAIGR G N++LAS LT +TID+  E
Sbjct: 324 VSLAIGRGGMNIKLASMLTEYTIDVFRE 351


>gi|254479107|ref|ZP_05092459.1| transcription termination factor NusA [Carboxydibrachium pacificum
           DSM 12653]
 gi|214034956|gb|EEB75678.1| transcription termination factor NusA [Carboxydibrachium pacificum
           DSM 12653]
          Length = 227

 Score =  236 bits (603), Expect = 5e-60,   Method: Compositional matrix adjust.
 Identities = 113/222 (50%), Positives = 156/222 (70%), Gaps = 1/222 (0%)

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           EAER+  Y EF  K  E+++G V R    NV+++LG  + ++   E I  E   PGDR+K
Sbjct: 1   EAERNVIYEEFLAKETEVVTGIVTRAAKNNVLINLGRVEAILTPSEQIPGETFSPGDRIK 60

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            YI +V++  +GPQ+++SR+HP  + +LF +E PEI  GIV++++++R+PGSR K+AVFS
Sbjct: 61  VYIVEVKKTTKGPQIIISRSHPGLVKRLFELESPEIQQGIVEIRSIAREPGSRTKMAVFS 120

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLD 302
            D ++DP+GACVG +GSRVQAVV EL+ EKIDIV WS     F++NAL PA    V ++D
Sbjct: 121 RDPNVDPIGACVGYKGSRVQAVVNELKGEKIDIVKWSSKPQEFIMNALSPAKAISVEIVD 180

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           E      VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E
Sbjct: 181 EKEKVARVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSE 222


>gi|126663078|ref|ZP_01734076.1| transcription elongation factor NusA [Flavobacteria bacterium
           BAL38]
 gi|126624736|gb|EAZ95426.1| transcription elongation factor NusA [Flavobacteria bacterium
           BAL38]
          Length = 413

 Score =  236 bits (603), Expect = 5e-60,   Method: Compositional matrix adjust.
 Identities = 131/339 (38%), Positives = 212/339 (62%), Gaps = 9/339 (2%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYT 76
           +K IDR  +++++ D  + A +  YG+  +  + INP+ GD+ ++R   VVE  EVE+  
Sbjct: 16  DKLIDRVTLMAILEDVFRNALKKKYGSDDNFDIIINPDKGDMEIWRNRVVVEDGEVEDPN 75

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +ISL  AR  +P  ++G  VS+ +  +  GR A+ S +Q +I K+ E +    Y +FKD
Sbjct: 76  SEISLTEARRIEPDFEVGEDVSEEVKLIQLGRRAILSLRQNLISKIHEHDNTNLYKQFKD 135

Query: 137 KVGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
            +G+I +  V  V    VI+  D GN + V+ +++ I  +  + GD V+  I +V  +  
Sbjct: 136 LIGDIYTAEVHHVRPKAVILMDDEGN-EIVLPKEKQIPNDYFKKGDNVRGVIENVELKGN 194

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
            PQ+++SRT P+F+ KLF  E+PE+++G++ +K V R PG +AK+AV S D  IDPVGAC
Sbjct: 195 KPQIIMSRTAPEFLEKLFEQEIPEVFDGLITIKKVVRIPGEKAKVAVDSYDDRIDPVGAC 254

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPK 314
           VGM+GSR+  +V EL +E ID++ ++ ++  ++  AL PA V+ V ++E+    EV +  
Sbjct: 255 VGMKGSRIHGIVRELGNENIDVINFTTNAQLYITRALSPAKVSTVKINEEAKTAEVFLKI 314

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITE----EEDSI 349
           E++S AIGR G N++LAS LTG+ ID+I E    EED +
Sbjct: 315 EEVSKAIGRGGNNIKLASLLTGYEIDVIREGIAQEEDDV 353


>gi|300871262|ref|YP_003786135.1| putative transcription elongation factor NusA [Brachyspira
           pilosicoli 95/1000]
 gi|300688963|gb|ADK31634.1| putative transcription elongation factor, NusA [Brachyspira
           pilosicoli 95/1000]
          Length = 495

 Score =  236 bits (603), Expect = 5e-60,   Method: Compositional matrix adjust.
 Identities = 135/394 (34%), Positives = 230/394 (58%), Gaps = 17/394 (4%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I  D++  V+   +  A +  YG   +  +  +    + +++R + VVEEV++   +
Sbjct: 15  EKDISIDLLKEVVESVMILALKKKYGDNVNFHINFD-NNNNPTVYRGVNVVEEVKDDRKE 73

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPM-DFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           ISL+ A+  D  I++G  V   +  + DFGR+   +AK    QK+ E E++  Y EFK +
Sbjct: 74  ISLEEAKKLDSDINLGDEVLILVDHVGDFGRIESTAAKTTFFQKISELEKNIIYNEFKRR 133

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG-P 196
             ++++G  +R   GN+ V+LG ++GV+ + +   RE+   GDR+++YIY V  ++ G P
Sbjct: 134 ENQLVNGYFQRENRGNIYVNLGKTEGVLLKKDLSPREHYAAGDRIRAYIYKVENDRSGHP 193

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
            + L+RT   F+ KLF +E+PEI +G +++K V R PG + K+AV S+   +DP+GAC+G
Sbjct: 194 TIYLTRTKADFIKKLFELEIPEIADGTIEIKNVVRQPGLKIKIAVVSNKPEVDPIGACIG 253

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKE 315
            +G R+QA++ E+  EKID+V WS D   ++  A+ PA  T++++ D +     +I+P +
Sbjct: 254 QKGIRIQAIIKEIEGEKIDVVKWSKDIREYIAEAIAPAKPTRIIITDPEKKEAMIIIPDD 313

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIA-- 373
           QLSLA+GR G NV+LASQLTG+T D+ TE         D  E  +     + +++I A  
Sbjct: 314 QLSLALGRSGYNVKLASQLTGYTFDLKTE--------TDIKENPELLKDIVPLNQIFAEN 365

Query: 374 ---HLLVAEGFADVEELACVKISEIASIEGFDEE 404
              ++   E  AD E+     +S + S+   D++
Sbjct: 366 VEENVENEEAIADTEDTQEAAVSNLYSLTDIDKD 399


>gi|322373936|ref|ZP_08048471.1| transcription termination factor NusA [Streptococcus sp. C150]
 gi|321277308|gb|EFX54378.1| transcription termination factor NusA [Streptococcus sp. C150]
          Length = 396

 Score =  236 bits (603), Expect = 6e-60,   Method: Compositional matrix adjust.
 Identities = 130/349 (37%), Positives = 206/349 (59%), Gaps = 15/349 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK I++D ++  + +S++ A +  YG      VE N +TGD  ++ + E
Sbjct: 4   EMLEAFRVLEEEKHINKDDIIEAVVESLKSAYKRRYGQSESAVVEFNEKTGDFQVYTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R+  R
Sbjct: 64  VVDEVFDSRLEISLKDALAISSAYELGDKIRFEESVDEFGRVAAQSAKQTIMEKMRKQMR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y ++K   GEI+ GTV+R +   + V+LG  +  + R + I  E+ +  D +  Y+Y
Sbjct: 124 EITYNDYKQHEGEIMQGTVERFDQRFIYVNLGTLEAQLSRQDQIPGESFKSHDVIDVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S + +
Sbjct: 184 KVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ VV+                 +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGSNIKKVVSRFHPTRLDAKTGIEVPVEENIDVIQWVEDPAEFIYNAIAP 303

Query: 294 AIVTKVVLDE-DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           A V  V+ DE D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI
Sbjct: 304 AEVDYVLFDENDSKRATVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDI 352


>gi|218131824|ref|ZP_03460628.1| hypothetical protein BACEGG_03445 [Bacteroides eggerthii DSM 20697]
 gi|317474560|ref|ZP_07933834.1| transcription termination factor NusA [Bacteroides eggerthii
           1_2_48FAA]
 gi|217986127|gb|EEC52466.1| hypothetical protein BACEGG_03445 [Bacteroides eggerthii DSM 20697]
 gi|316909241|gb|EFV30921.1| transcription termination factor NusA [Bacteroides eggerthii
           1_2_48FAA]
          Length = 422

 Score =  236 bits (603), Expect = 6e-60,   Method: Compositional matrix adjust.
 Identities = 127/334 (38%), Positives = 213/334 (63%), Gaps = 5/334 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD  ++R  EVV  +++EN   
Sbjct: 21  KNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDFEIWRNREVVADKDLENPNL 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QISL  A+  D S ++G  V+D +    FGR A+ + +Q +  K+ E E+D  Y ++ DK
Sbjct: 81  QISLSEAQKIDASYEVGEEVTDEVNFAKFGRRAILNLRQTLASKILELEKDSIYNKYIDK 140

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VG II+  V ++    +++  D GN + ++ + E I  +  R G+  ++ +  V  +   
Sbjct: 141 VGTIINAEVYQIWKKEMLLLDDEGN-ELLLPKTEQIPSDFYRKGETARAVVARVDNKNNN 199

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACV
Sbjct: 200 PKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERAKIAVESYDDRIDPVGACV 259

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G++GSR+  +V ELR+E ID++ ++ +   F+  AL PA ++ + L+E+  + EV +  E
Sbjct: 260 GVKGSRIHGIVRELRNENIDVINYTSNIQLFIQRALSPAKISSIRLNEEEHKAEVFLKPE 319

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           ++SLAIG+ G N++LAS LT +TID+  E ++++
Sbjct: 320 EVSLAIGKGGLNIKLASMLTEYTIDVFRELDEAV 353


>gi|171778095|ref|ZP_02919352.1| hypothetical protein STRINF_00187 [Streptococcus infantarius subsp.
           infantarius ATCC BAA-102]
 gi|171283077|gb|EDT48501.1| hypothetical protein STRINF_00187 [Streptococcus infantarius subsp.
           infantarius ATCC BAA-102]
          Length = 397

 Score =  236 bits (603), Expect = 6e-60,   Method: Compositional matrix adjust.
 Identities = 128/349 (36%), Positives = 206/349 (59%), Gaps = 15/349 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK I++D ++  + +S++ A +  YG      +E + + GD  ++ + E
Sbjct: 7   EMLEAFRILEEEKHINKDDIIDAVKESLKSAYKRRYGQSESCVIEFDDKKGDFKVYTVRE 66

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISL  A     + ++G  +       +FGRVA QSAKQ I++K+R   R
Sbjct: 67  VVEEVFDSRLEISLSDALKISSAYELGDKIRFEESVAEFGRVAAQSAKQTIMEKMRRQIR 126

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y E+K   GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR++ Y+Y
Sbjct: 127 EVTYNEYKQHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETWKSHDRIEVYVY 186

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +G  V +SR+HPQF+ ++   E+PE+++G V++ +VSR+ G R K+AV S + +
Sbjct: 187 KVENNPKGVNVFVSRSHPQFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHNPN 246

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+ P
Sbjct: 247 VDAIGTIVGRGGSNIKKVISKFHPKRYDAKAGVEVPVEENIDVIQWVEDPAEFIYNAIAP 306

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           A V  V+ D ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI
Sbjct: 307 AEVDMVLFDEEDSKRATVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDI 355


>gi|150003921|ref|YP_001298665.1| transcription elongation factor NusA [Bacteroides vulgatus ATCC
           8482]
 gi|212692747|ref|ZP_03300875.1| hypothetical protein BACDOR_02245 [Bacteroides dorei DSM 17855]
 gi|237709443|ref|ZP_04539924.1| transcription elongation factor NusA [Bacteroides sp. 9_1_42FAA]
 gi|237724957|ref|ZP_04555438.1| transcription elongation factor NusA [Bacteroides sp. D4]
 gi|254880838|ref|ZP_05253548.1| transcription elongation factor NusA [Bacteroides sp. 4_3_47FAA]
 gi|265754642|ref|ZP_06089694.1| transcription termination factor NusA [Bacteroides sp. 3_1_33FAA]
 gi|294775077|ref|ZP_06740606.1| transcription termination factor NusA [Bacteroides vulgatus PC510]
 gi|319639848|ref|ZP_07994577.1| hypothetical protein HMPREF9011_00174 [Bacteroides sp. 3_1_40A]
 gi|149932345|gb|ABR39043.1| putative nitrogen utilization substance protein [Bacteroides
           vulgatus ATCC 8482]
 gi|212664683|gb|EEB25255.1| hypothetical protein BACDOR_02245 [Bacteroides dorei DSM 17855]
 gi|229436695|gb|EEO46772.1| transcription elongation factor NusA [Bacteroides dorei 5_1_36/D4]
 gi|229456499|gb|EEO62220.1| transcription elongation factor NusA [Bacteroides sp. 9_1_42FAA]
 gi|254833631|gb|EET13940.1| transcription elongation factor NusA [Bacteroides sp. 4_3_47FAA]
 gi|263234756|gb|EEZ20324.1| transcription termination factor NusA [Bacteroides sp. 3_1_33FAA]
 gi|294451121|gb|EFG19592.1| transcription termination factor NusA [Bacteroides vulgatus PC510]
 gi|317388512|gb|EFV69362.1| hypothetical protein HMPREF9011_00174 [Bacteroides sp. 3_1_40A]
          Length = 418

 Score =  236 bits (602), Expect = 6e-60,   Method: Compositional matrix adjust.
 Identities = 128/333 (38%), Positives = 211/333 (63%), Gaps = 5/333 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD  ++R  EVV  E++ N   
Sbjct: 21  KNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDFEIWRNREVVADEDLTNPNM 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QISL  A+  D S ++G  V+D +    FGR A+ + +Q +  K+ E E+D  Y ++ D+
Sbjct: 81  QISLTEAQKIDASYEVGEEVTDEVIFAKFGRRAILNLRQTLASKILELEKDSLYNKYIDR 140

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VG +IS  V ++    +++  D GN + ++ + E I  +  R G+  ++ +  V  +   
Sbjct: 141 VGTVISAEVYQIWKKEMLLLDDEGN-ELLLPKTEQIPSDFYRKGETARAVVARVDNKNNN 199

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACV
Sbjct: 200 PKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERAKIAVESYDDRIDPVGACV 259

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G++GSR+  +V ELR+E ID++ ++ +   F+  AL PA ++ +VL E+  + EV +  E
Sbjct: 260 GVKGSRIHGIVRELRNENIDVINYTSNIQLFIQRALSPAKISSIVLHEEEKKAEVYLKPE 319

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           ++SLAIG+ G N++LAS LT +TID+  E ++S
Sbjct: 320 EVSLAIGKGGMNIKLASMLTEYTIDVYRELDES 352


>gi|313115476|ref|ZP_07800941.1| transcription termination factor NusA [Faecalibacterium cf.
           prausnitzii KLE1255]
 gi|310622186|gb|EFQ05676.1| transcription termination factor NusA [Faecalibacterium cf.
           prausnitzii KLE1255]
          Length = 368

 Score =  236 bits (602), Expect = 7e-60,   Method: Compositional matrix adjust.
 Identities = 140/351 (39%), Positives = 213/351 (60%), Gaps = 8/351 (2%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD-IRVEINPETGD 59
           M +AN  E  +    + +E+ I  + ++  +  +I  A +  Y    D ++V+I+P  G 
Sbjct: 1   MAAANN-EFFEALSMLEHERGITAEYLIEKIKAAIIIAVKKNYEVEEDHVKVDIDPAAGR 59

Query: 60  ISLFRLLEVVEEVENY--TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQV 117
             +  + +VV + + Y    +I +  A+    S ++G  +  PL   DFGR+A Q+AK V
Sbjct: 60  FDVALIQDVVADEDWYDEHSEIGITEAQKIRKSYEVGDRIVTPLKTKDFGRIAAQTAKHV 119

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRV--EYGNVIVDLGNS-DGVIRRDETISRE 174
           I Q +REAER +Q  E + +  +I+  TV RV  E G V +DLG   + ++  +E +  E
Sbjct: 120 IRQGIREAERSQQLSEIQSRAHDIVQATVTRVDPEKGIVALDLGKGGEAILPHNEQVPGE 179

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
               G  ++ Y+ DV   +RGP+V++SRTHP  + +LF +EVPEI++G V+VKA+SR+ G
Sbjct: 180 VYTEGQTLQVYVVDVVSTERGPRVMISRTHPGLVKRLFELEVPEIFDGTVEVKAISREAG 239

Query: 235 SRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA 294
           +R K+AV+S D +++PV AC+G  G+RV AVV +L  EKIDIV WS D + F+  AL PA
Sbjct: 240 ARTKMAVWSKDPNVNPVSACIGEHGARVAAVVEKLGGEKIDIVKWSEDISEFISAALSPA 299

Query: 295 IVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            V KV +L  +     V VP +QLSLAIG +GQN RL ++LTG+ IDI  E
Sbjct: 300 KVVKVELLPGETRSCRVTVPDQQLSLAIGNKGQNARLCARLTGYNIDIRPE 350


>gi|312862513|ref|ZP_07722755.1| transcription termination factor NusA [Streptococcus vestibularis
           F0396]
 gi|322517414|ref|ZP_08070287.1| transcription termination factor NusA [Streptococcus vestibularis
           ATCC 49124]
 gi|311101918|gb|EFQ60119.1| transcription termination factor NusA [Streptococcus vestibularis
           F0396]
 gi|322123896|gb|EFX95455.1| transcription termination factor NusA [Streptococcus vestibularis
           ATCC 49124]
          Length = 399

 Score =  236 bits (602), Expect = 7e-60,   Method: Compositional matrix adjust.
 Identities = 131/354 (37%), Positives = 208/354 (58%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK I+++ ++  + +S++ A +  YG      VE N +TGD  +F + E
Sbjct: 4   EMLEAFRVLEEEKHINKEDIIDAVVESLKSAYKRRYGQSESAVVEFNEKTGDFQVFTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R+  R
Sbjct: 64  VVDEVFDSRLEISLKDALAISSAYELGDKIRFEESVDEFGRVAAQSAKQTIMEKMRKQMR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y ++K   GEI+ GTV+R +   + V+LG  +  + R + I  E+ +  D +  Y+Y
Sbjct: 124 EITYNDYKQHEGEIMQGTVERFDQRFIYVNLGALEAQLSRQDQIPGESFKSHDVIDVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S + +
Sbjct: 184 KVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ VV+                 +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGSNIKKVVSRFHPTRLDAKTGIEVPVEENIDVIQWVEDPAEFIYNAIAP 303

Query: 294 AIVTKVVLDE-DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V  V+ DE D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDYVLFDEDDSKRATVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|288904585|ref|YP_003429806.1| transcription termination factor NusA [Streptococcus gallolyticus
           UCN34]
 gi|288731310|emb|CBI12861.1| Transcription termination factor NusA [Streptococcus gallolyticus
           UCN34]
          Length = 396

 Score =  236 bits (602), Expect = 7e-60,   Method: Compositional matrix adjust.
 Identities = 128/354 (36%), Positives = 208/354 (58%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK I+++ ++  + +S++ A +  YG      +E + + GD  ++ + E
Sbjct: 4   EMLEAFRILEEEKHINKEDIIDAVKESLKSAYKRRYGQSESCVIEFDDKKGDFKVYTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISL  A     + ++G  +       +FGRVA QSAKQ I++K+R   R
Sbjct: 64  VVEEVFDSRLEISLSDALKISSAYELGDKIRFEESVAEFGRVAAQSAKQTIMEKMRRQIR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y E+K   GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR++ Y+Y
Sbjct: 124 EVTYNEYKQHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIEVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +G  V +SR+HPQF+ ++   E+PE+++G V++ +VSR+ G R K+AV S + +
Sbjct: 184 KVENNPKGVNVFVSRSHPQFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGSNIKKVISKFHPKRYDAKAGVEVPIEENIDVIQWVEDPAEFIYNAIAP 303

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V  V+ D ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDMVLFDEEDSKRATVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|319947585|ref|ZP_08021815.1| transcription elongation factor NusA [Streptococcus australis ATCC
           700641]
 gi|319746273|gb|EFV98536.1| transcription elongation factor NusA [Streptococcus australis ATCC
           700641]
          Length = 381

 Score =  236 bits (602), Expect = 7e-60,   Method: Compositional matrix adjust.
 Identities = 128/354 (36%), Positives = 208/354 (58%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L     +  +K I ++ ++  + +S++ A R  YG      +E N +TGD  ++ + E
Sbjct: 4   EMLDAFRILEEDKGIKKEDIIEAVTESLRSAYRRRYGQAESAAIEFNEKTGDFRVYTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 64  VVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E  +  DR++ ++Y
Sbjct: 124 AITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFQSHDRIEVFVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + +
Sbjct: 184 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ + ++                +E ID++ W PD A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGSNIKKITSKFHPARYDQKLDRMVPTEENIDVIEWVPDPAEFIYNAIAP 303

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V +V+ D ED     V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDQVIFDEEDSKHALVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|134102374|ref|YP_001108035.1| transcription elongation factor NusA [Saccharopolyspora erythraea
           NRRL 2338]
 gi|291004241|ref|ZP_06562214.1| transcription elongation factor NusA [Saccharopolyspora erythraea
           NRRL 2338]
 gi|133914997|emb|CAM05110.1| putative transcriptional termination/antitermination factor
           [Saccharopolyspora erythraea NRRL 2338]
          Length = 352

 Score =  236 bits (602), Expect = 7e-60,   Method: Compositional matrix adjust.
 Identities = 141/339 (41%), Positives = 200/339 (58%), Gaps = 27/339 (7%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  +K I  + VL  +  ++  A R   G     RVE++ +TG          V  V  
Sbjct: 10  AIESDKGIPFETVLEAIESALLTAYRHTEGHQPHARVEVDRKTG----------VVRVIA 59

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
           +T      VA + D +            P  FGR+A  +A+QVI+Q++R+AE +R + EF
Sbjct: 60  HTLGADGTVAEEWDDT------------PEGFGRIAATTARQVILQRLRDAEHERTFGEF 107

Query: 135 KDKVGEIISGTVKRVEYGN----VIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVR 190
             K GEI+ G ++R    N    VIV +G+S+GVI   E +  E    G R+K Y+  V 
Sbjct: 108 STKEGEILGGVIQRDAKANSRGMVIVQVGDSEGVIPAAEQVPGERYEHGMRIKCYVVGVS 167

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDP 250
           R  RGPQ+ LSRTHP  + +LF +EVPEI +G V++ AV+R+ G R+K+AV S+   ++ 
Sbjct: 168 RSARGPQITLSRTHPNLVRRLFALEVPEIADGTVEIPAVAREAGHRSKIAVRSTVGGVNA 227

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIE 309
            GAC+G  G+RV+ V++EL  EKIDI+ +S D ATFV NAL PA V  V V+DE      
Sbjct: 228 KGACIGPMGARVRNVMSELGGEKIDIIDYSDDPATFVGNALSPAKVVSVEVVDERAKTAR 287

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           V+VP  QLSLAIG+ GQN RLA++LTGW IDI ++ + S
Sbjct: 288 VVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRSDADPS 326


>gi|325105520|ref|YP_004275174.1| NusA antitermination factor [Pedobacter saltans DSM 12145]
 gi|324974368|gb|ADY53352.1| NusA antitermination factor [Pedobacter saltans DSM 12145]
          Length = 411

 Score =  236 bits (602), Expect = 7e-60,   Method: Compositional matrix adjust.
 Identities = 121/329 (36%), Positives = 208/329 (63%), Gaps = 5/329 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYTC 77
           K+IDR  V+SV+ +  +   R  +GT  +  V +NP+ GD+ ++R   V+E+   E+   
Sbjct: 17  KNIDRPTVISVLEEVFRSMLRKRFGTDENCDVIVNPDNGDLEIWRTRTVMEDGFSEDDDL 76

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +I L  A   DP +++G    + +    FGR A+ +A+Q ++ K+ E E+D  +  +KD+
Sbjct: 77  EIELADAHKIDPDLEVGDDFIEQITLESFGRRAILAARQTLVSKILELEKDEIFKNYKDR 136

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           +GEI++G V +V     +V  D GN + ++ + E I  +  + GD V++ +  V      
Sbjct: 137 IGEIVTGEVYQVWKKETLVLDDEGN-ELILPKTEQIPADYFKKGDSVRAVVLKVDMMNAN 195

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P++++SRT P F+ +LF +EVPE+++G++ +K + R+PG RAK+AV S D  IDPVGACV
Sbjct: 196 PKIIISRTAPAFLQRLFELEVPEVFDGLITIKNIVREPGERAKVAVESYDDRIDPVGACV 255

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           GM+GSR+  +V EL++E ID++ ++ + + ++  AL PA ++ + LD++  R  V +  +
Sbjct: 256 GMKGSRIHGIVRELKNENIDVINFTNNISLYIQRALSPAKISSIKLDDETKRAAVYLKPD 315

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           Q+SLAIGR G N++LA +LTG+ ID+  E
Sbjct: 316 QVSLAIGRGGHNIKLAGKLTGYEIDVYRE 344


>gi|322376136|ref|ZP_08050645.1| transcription termination factor NusA [Streptococcus sp. C300]
 gi|321278904|gb|EFX55948.1| transcription termination factor NusA [Streptococcus sp. C300]
          Length = 378

 Score =  236 bits (602), Expect = 8e-60,   Method: Compositional matrix adjust.
 Identities = 127/354 (35%), Positives = 211/354 (59%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ + E
Sbjct: 4   EMLETFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 64  VVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y+Y
Sbjct: 124 AITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + +
Sbjct: 184 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGANIKKITSKFHPARYDAKSDRMIPVEENIDVIEWVADPAEFIYNAIAP 303

Query: 294 AIVTKVVLDE-DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V +V+ DE D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|194398628|ref|YP_002037214.1| transcription elongation factor NusA [Streptococcus pneumoniae G54]
 gi|194358295|gb|ACF56743.1| transcription termination factor NusA [Streptococcus pneumoniae
           G54]
          Length = 378

 Score =  236 bits (601), Expect = 8e-60,   Method: Compositional matrix adjust.
 Identities = 127/354 (35%), Positives = 211/354 (59%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ + E
Sbjct: 4   EMLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 64  VVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y+Y
Sbjct: 124 AITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + +
Sbjct: 184 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGANIKKITSKFHPARYDAKNDRMVPIEENIDVIEWVADPAEFIYNAIAP 303

Query: 294 AIVTKVVLDE-DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V +V+ DE D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDQVIFDENDSKRALVVVPXNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|297626628|ref|YP_003688391.1| Transcription termination/ antitermination factor NusA
           [Propionibacterium freudenreichii subsp. shermanii
           CIRM-BIA1]
 gi|296922393|emb|CBL56965.1| Transcription termination/ antitermination factor NusA
           [Propionibacterium freudenreichii subsp. shermanii
           CIRM-BIA1]
          Length = 352

 Score =  236 bits (601), Expect = 8e-60,   Method: Compositional matrix adjust.
 Identities = 139/329 (42%), Positives = 196/329 (59%), Gaps = 24/329 (7%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+ +EK I  D ++  + D++  A            V +N  TG++S+  + EV +E E+
Sbjct: 10  ALEHEKEIPLDYLVGTLEDALLNAYEKTEHPKPGAHVVLNRRTGEVSVM-VPEVNDEGES 68

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                               G   D   P DFGRVA  +A+QVI Q++REAE +++Y +F
Sbjct: 69  V-------------------GEYDDT--PTDFGRVAASTARQVIFQRLREAEDEQKYGKF 107

Query: 135 KDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
               G+++ G V++      I VDLG+ + ++   E +  E+ + G R++ Y+  VR+E 
Sbjct: 108 SAVEGDVVMGVVQQDRGSKTIRVDLGDIEAIMPLAEQVPGEDYKHGTRLRVYVVTVRKEA 167

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
           RGPQV++SRTHP  + KLF +EVPEI  G+V+VKA++R+ G R K+AV S +  +   GA
Sbjct: 168 RGPQVVVSRTHPNLVKKLFELEVPEIEQGVVEVKAIARESGHRTKIAVVSHNPDVSAKGA 227

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIV 312
           C+G  G RV+AV+ EL DEKIDI+ WS D A FV NAL PA   KV V+D       VIV
Sbjct: 228 CIGPMGQRVRAVMRELNDEKIDIIDWSADPAEFVANALSPAKALKVTVVDAGARAARVIV 287

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           P  QLSLAIGR GQN RLA++LTGW IDI
Sbjct: 288 PDYQLSLAIGREGQNARLAARLTGWRIDI 316


>gi|270292191|ref|ZP_06198406.1| N utilization substance protein A [Streptococcus sp. M143]
 gi|270279719|gb|EFA25561.1| N utilization substance protein A [Streptococcus sp. M143]
          Length = 378

 Score =  236 bits (601), Expect = 8e-60,   Method: Compositional matrix adjust.
 Identities = 127/354 (35%), Positives = 211/354 (59%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ + E
Sbjct: 4   EMLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 64  VVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y+Y
Sbjct: 124 AITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + +
Sbjct: 184 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGANIKKITSKFHPARYDAKSDRMIPVEENIDVIEWVADPAEFIYNAIAP 303

Query: 294 AIVTKVVLDE-DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V +V+ DE D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|289167249|ref|YP_003445516.1| transcription termination-antitermination factor [Streptococcus
           mitis B6]
 gi|288906814|emb|CBJ21648.1| transcription termination-antitermination factor [Streptococcus
           mitis B6]
          Length = 378

 Score =  236 bits (601), Expect = 9e-60,   Method: Compositional matrix adjust.
 Identities = 127/354 (35%), Positives = 211/354 (59%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ + E
Sbjct: 4   EMLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 64  VVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y+Y
Sbjct: 124 AITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + +
Sbjct: 184 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGANIKKITSKFHPARYDAKSDRMVPIEENIDVIEWVADPAEFIYNAIAP 303

Query: 294 AIVTKVVLDE-DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V +V+ DE D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|260101365|ref|ZP_05751602.1| N utilization substance protein A [Lactobacillus helveticus DSM
           20075]
 gi|260084817|gb|EEW68937.1| N utilization substance protein A [Lactobacillus helveticus DSM
           20075]
          Length = 364

 Score =  236 bits (601), Expect = 9e-60,   Method: Compositional matrix adjust.
 Identities = 130/341 (38%), Positives = 209/341 (61%), Gaps = 2/341 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +   K I +DV++  +  ++  A +  Y    ++ V+ +   G+  +  +  
Sbjct: 14  EMLEAFATLEKTKGIKQDVIVDAIKAALVAAYKKNYNQAQNVEVDFDERRGNFKVMAVKT 73

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A   +   ++G  +   + P +FGR+A Q+AKQVI+Q++REAER
Sbjct: 74  VVDEVQDDRLEVSLKDALAINRGYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLREAER 133

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
                E+     E+++G V+R +   V V +GN + ++ + + +  E   P D+++  + 
Sbjct: 134 SHIIDEYSQYEDELVTGPVERRDNRFVYVKIGNVEAIMPQCDQMPNEVYNPQDQIRVLVT 193

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V  + +G Q+++SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D +
Sbjct: 194 HVGSDSKGAQIVVSRTAPDVVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVKSNDPN 253

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DEDV 305
           IDPVG CVG +G+RVQ VV EL  E ID+V +  D + F+ NAL PA V  V    DE+ 
Sbjct: 254 IDPVGTCVGQKGARVQNVVNELGGENIDVVKYEEDPSDFIANALNPAEVIAVQFGDDEEE 313

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E
Sbjct: 314 KSALVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESE 354


>gi|154491955|ref|ZP_02031581.1| hypothetical protein PARMER_01585 [Parabacteroides merdae ATCC
           43184]
 gi|154088196|gb|EDN87241.1| hypothetical protein PARMER_01585 [Parabacteroides merdae ATCC
           43184]
          Length = 424

 Score =  236 bits (601), Expect = 9e-60,   Method: Compositional matrix adjust.
 Identities = 124/327 (37%), Positives = 208/327 (63%), Gaps = 5/327 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           K+ID+D ++SV+ DS +     ++GT  +  V INPE GD  ++R   VV  +E+E+   
Sbjct: 21  KNIDKDTMISVLEDSFRNVIAKMFGTDENYDVIINPEKGDFEIWRNRTVVADDELEDENL 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           Q++L  AR  D   ++G  V+D +   DFGR A+ + +Q +  K+ E ++D  + ++KDK
Sbjct: 81  QLTLTEARKIDADCEVGEEVTDEVHFADFGRRAILNLRQTLASKILELQKDSLFAKYKDK 140

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           +G II+  V +V    +++  D GN + ++ + E I  +  R G+ V++ +  V      
Sbjct: 141 IGNIIAADVYQVWKKEILLLDDEGN-ELLLPKTEQIPTDFYRKGETVRAIVQRVDNYNNN 199

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P+++LSRT   F+ +LF +EVPEI +G++ +KA++R PG RAK+AV S D  IDPVGACV
Sbjct: 200 PKIILSRTDKLFLQRLFELEVPEINDGLITIKAIARIPGERAKVAVESYDDRIDPVGACV 259

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           GM+GSR+  +V ELR+E ID++ ++ + + F+  AL PA ++ + ++E+  + EV +  E
Sbjct: 260 GMKGSRIHGIVRELRNENIDVINYTSNISLFIQRALSPAKISSIRVNEEEHKAEVYLRPE 319

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDII 342
           ++SLAIG+ G N++LA  LT + ID+ 
Sbjct: 320 EVSLAIGKGGLNIKLACMLTEYAIDVF 346


>gi|15618236|ref|NP_224521.1| transcription elongation factor NusA [Chlamydophila pneumoniae
           CWL029]
 gi|15835851|ref|NP_300375.1| transcription elongation factor NusA [Chlamydophila pneumoniae
           J138]
 gi|16752722|ref|NP_444989.1| transcription elongation factor NusA [Chlamydophila pneumoniae
           AR39]
 gi|33241661|ref|NP_876602.1| transcription elongation factor NusA [Chlamydophila pneumoniae
           TW-183]
 gi|4376593|gb|AAD18465.1| N Utilization Protein A [Chlamydophila pneumoniae CWL029]
 gi|7189363|gb|AAF38280.1| N utilization substance protein A [Chlamydophila pneumoniae AR39]
 gi|8978690|dbj|BAA98526.1| N utilization protein A [Chlamydophila pneumoniae J138]
 gi|33236170|gb|AAP98259.1| transcription termination-antitermination factor [Chlamydophila
           pneumoniae TW-183]
          Length = 434

 Score =  236 bits (601), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 146/428 (34%), Positives = 234/428 (54%), Gaps = 25/428 (5%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L+ I D +  EK I R  ++  +  +++ AA+      ++I V IN  TGDI +F   E+
Sbjct: 5   LVAIFDYMEKEKGIQRSTIIGAIESALKIAAKKTLRDDANISVNINSRTGDIEVFCEKEI 64

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VE  +N + +I L  AR+ DP   IG  +  P    +FGR+A  +A+Q+I QK+R AERD
Sbjct: 65  VEICQNPSKEIPLDKAREYDPDCQIGQYMDVPFVSDNFGRIAAHAARQIIGQKLRHAERD 124

Query: 129 RQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
             Y E++ +V E +SG VKR   G N+I+DLG  + ++        E  + GD++ + +Y
Sbjct: 125 VIYEEYRHRVNETLSGVVKRFAKGSNLIIDLGKVEAILPTRFYPKTEKHKIGDKIYALLY 184

Query: 188 DVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           +V+  E  G +V+LSR+H +F+ +LF  EVPE+  G V++  ++R+ G R KLAV SSD 
Sbjct: 185 EVQESENGGAEVILSRSHAEFVKQLFIQEVPELEEGSVEIVKIAREAGYRTKLAVRSSDP 244

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
             DPVGA VGMRGSRV+ ++ EL DEKIDIV +SP S   + N L P  + K+ + ED  
Sbjct: 245 KTDPVGAFVGMRGSRVKNIIRELNDEKIDIVNYSPVSTELLQNLLYPIEIQKIAILEDDK 304

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN-----ERTQF 361
            I ++V     +  IG+RG N RL S +  + ++        + R  ++N     +R Q 
Sbjct: 305 VIAIVVNDADYATVIGKRGINARLISHILDYELE--------VQRMSEYNKLLEIQRLQL 356

Query: 362 F----------MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
                      ++   + +++   L   G+  +  +     +++AS+ G   E A +I  
Sbjct: 357 AEFDSPHLDQPLEMEGISKLVIQNLEHAGYDTIRRVLLASANDLASVPGISLELAYKILE 416

Query: 412 RAREYLEG 419
           +  +Y E 
Sbjct: 417 QVSKYGES 424


>gi|15900465|ref|NP_345069.1| transcription elongation factor NusA [Streptococcus pneumoniae
           TIGR4]
 gi|111657275|ref|ZP_01408041.1| hypothetical protein SpneT_02001513 [Streptococcus pneumoniae
           TIGR4]
 gi|148983931|ref|ZP_01817250.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP3-BS71]
 gi|148990071|ref|ZP_01821325.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP6-BS73]
 gi|148992337|ref|ZP_01822060.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP9-BS68]
 gi|148998226|ref|ZP_01825695.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP11-BS70]
 gi|149005663|ref|ZP_01829402.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP18-BS74]
 gi|149012573|ref|ZP_01833570.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP19-BS75]
 gi|149021508|ref|ZP_01835563.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP23-BS72]
 gi|168482793|ref|ZP_02707745.1| transcription termination factor NusA [Streptococcus pneumoniae
           CDC1873-00]
 gi|168488244|ref|ZP_02712443.1| transcription termination factor NusA [Streptococcus pneumoniae
           SP195]
 gi|168490557|ref|ZP_02714700.1| transcription termination factor NusA [Streptococcus pneumoniae
           CDC0288-04]
 gi|168576545|ref|ZP_02722419.1| transcription termination factor NusA [Streptococcus pneumoniae
           MLV-016]
 gi|169834095|ref|YP_001694040.1| transcription elongation factor NusA [Streptococcus pneumoniae
           Hungary19A-6]
 gi|182683486|ref|YP_001835233.1| transcription elongation factor NusA [Streptococcus pneumoniae
           CGSP14]
 gi|221231386|ref|YP_002510538.1| N utilization substance protein A [Streptococcus pneumoniae ATCC
           700669]
 gi|225854094|ref|YP_002735606.1| transcription elongation factor NusA [Streptococcus pneumoniae JJA]
 gi|225856263|ref|YP_002737774.1| transcription elongation factor NusA [Streptococcus pneumoniae
           P1031]
 gi|225858391|ref|YP_002739901.1| transcription elongation factor NusA [Streptococcus pneumoniae
           70585]
 gi|225860558|ref|YP_002742067.1| transcription elongation factor NusA [Streptococcus pneumoniae
           Taiwan19F-14]
 gi|237650175|ref|ZP_04524427.1| transcription elongation factor NusA [Streptococcus pneumoniae CCRI
           1974]
 gi|237821775|ref|ZP_04597620.1| transcription elongation factor NusA [Streptococcus pneumoniae CCRI
           1974M2]
 gi|298230907|ref|ZP_06964588.1| transcription elongation factor NusA [Streptococcus pneumoniae str.
           Canada MDR_19F]
 gi|298255627|ref|ZP_06979213.1| transcription elongation factor NusA [Streptococcus pneumoniae str.
           Canada MDR_19A]
 gi|298502347|ref|YP_003724287.1| transcription elongation factor NusA [Streptococcus pneumoniae
           TCH8431/19A]
 gi|303255252|ref|ZP_07341325.1| transcription elongation factor NusA [Streptococcus pneumoniae
           BS455]
 gi|303260042|ref|ZP_07346015.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP-BS293]
 gi|303261226|ref|ZP_07347174.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP14-BS292]
 gi|303263891|ref|ZP_07349812.1| transcription elongation factor NusA [Streptococcus pneumoniae
           BS397]
 gi|303267073|ref|ZP_07352944.1| transcription elongation factor NusA [Streptococcus pneumoniae
           BS457]
 gi|303269288|ref|ZP_07355062.1| transcription elongation factor NusA [Streptococcus pneumoniae
           BS458]
 gi|307126756|ref|YP_003878787.1| transcription termination factor NusA [Streptococcus pneumoniae
           670-6B]
 gi|14972027|gb|AAK74709.1| N utilization substance protein A [Streptococcus pneumoniae TIGR4]
 gi|147755869|gb|EDK62913.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP11-BS70]
 gi|147762603|gb|EDK69563.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP18-BS74]
 gi|147763378|gb|EDK70315.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP19-BS75]
 gi|147924078|gb|EDK75190.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP3-BS71]
 gi|147924597|gb|EDK75684.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP6-BS73]
 gi|147928963|gb|EDK79975.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP9-BS68]
 gi|147930204|gb|EDK81189.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP23-BS72]
 gi|168996597|gb|ACA37209.1| transcription termination factor NusA [Streptococcus pneumoniae
           Hungary19A-6]
 gi|172043571|gb|EDT51617.1| transcription termination factor NusA [Streptococcus pneumoniae
           CDC1873-00]
 gi|182628820|gb|ACB89768.1| transcription elongation factor NusA [Streptococcus pneumoniae
           CGSP14]
 gi|183573000|gb|EDT93528.1| transcription termination factor NusA [Streptococcus pneumoniae
           SP195]
 gi|183574829|gb|EDT95357.1| transcription termination factor NusA [Streptococcus pneumoniae
           CDC0288-04]
 gi|183577711|gb|EDT98239.1| transcription termination factor NusA [Streptococcus pneumoniae
           MLV-016]
 gi|220673846|emb|CAR68349.1| putative putative N utilization substance protein A [Streptococcus
           pneumoniae ATCC 700669]
 gi|225720770|gb|ACO16624.1| transcription termination factor NusA [Streptococcus pneumoniae
           70585]
 gi|225723031|gb|ACO18884.1| transcription termination factor NusA [Streptococcus pneumoniae
           JJA]
 gi|225725477|gb|ACO21329.1| transcription termination factor NusA [Streptococcus pneumoniae
           P1031]
 gi|225727542|gb|ACO23393.1| transcription termination factor NusA [Streptococcus pneumoniae
           Taiwan19F-14]
 gi|298237942|gb|ADI69073.1| transcription elongation factor NusA [Streptococcus pneumoniae
           TCH8431/19A]
 gi|301793757|emb|CBW36144.1| putative putative N utilization substance protein A [Streptococcus
           pneumoniae INV104]
 gi|301799610|emb|CBW32165.1| putative putative N utilization substance protein A [Streptococcus
           pneumoniae OXC141]
 gi|301801434|emb|CBW34121.1| putative putative N utilization substance protein A [Streptococcus
           pneumoniae INV200]
 gi|302597793|gb|EFL64866.1| transcription elongation factor NusA [Streptococcus pneumoniae
           BS455]
 gi|302637360|gb|EFL67847.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP14-BS292]
 gi|302638737|gb|EFL69199.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP-BS293]
 gi|302641185|gb|EFL71558.1| transcription elongation factor NusA [Streptococcus pneumoniae
           BS458]
 gi|302643401|gb|EFL73677.1| transcription elongation factor NusA [Streptococcus pneumoniae
           BS457]
 gi|302646296|gb|EFL76522.1| transcription elongation factor NusA [Streptococcus pneumoniae
           BS397]
 gi|306483818|gb|ADM90687.1| transcription termination factor NusA [Streptococcus pneumoniae
           670-6B]
 gi|327390293|gb|EGE88634.1| transcription termination factor NusA [Streptococcus pneumoniae
           GA04375]
 gi|332074367|gb|EGI84843.1| transcription termination factor NusA [Streptococcus pneumoniae
           GA17570]
 gi|332076389|gb|EGI86852.1| transcription termination factor NusA [Streptococcus pneumoniae
           GA41301]
 gi|332202437|gb|EGJ16506.1| transcription termination factor NusA [Streptococcus pneumoniae
           GA41317]
 gi|332204573|gb|EGJ18638.1| transcription termination factor NusA [Streptococcus pneumoniae
           GA47901]
          Length = 378

 Score =  236 bits (601), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 127/354 (35%), Positives = 211/354 (59%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ + E
Sbjct: 4   EMLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 64  VVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y+Y
Sbjct: 124 AITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + +
Sbjct: 184 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGANIKKITSKFHPARYDAKNDRMVPIEENIDVIEWVADPAEFIYNAIAP 303

Query: 294 AIVTKVVLDE-DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V +V+ DE D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|227537266|ref|ZP_03967315.1| transcription elongation factor NusA [Sphingobacterium spiritivorum
           ATCC 33300]
 gi|300772910|ref|ZP_07082779.1| transcription termination factor NusA [Sphingobacterium
           spiritivorum ATCC 33861]
 gi|227242870|gb|EEI92885.1| transcription elongation factor NusA [Sphingobacterium spiritivorum
           ATCC 33300]
 gi|300759081|gb|EFK55908.1| transcription termination factor NusA [Sphingobacterium
           spiritivorum ATCC 33861]
          Length = 412

 Score =  236 bits (601), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 120/332 (36%), Positives = 210/332 (63%), Gaps = 5/332 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYTC 77
           K+IDR  V+SV+ +  +   R  +GT  ++ V +NP+ GD+ ++R   VVE+   E+   
Sbjct: 18  KNIDRPTVISVLEEVFRSMIRKRFGTDENVDVIVNPDNGDLEIWRTRVVVEDEFSEDDDL 77

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +I L  A   D  +++G    + +    FGR A+ +A+Q ++ K+ E E+D  + ++KD+
Sbjct: 78  EIELAEAVKHDADLEVGDDYIEQITLESFGRRAILAARQTLVSKILELEKDEVFKKYKDR 137

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
            GE++ G V ++    ++V  D GN + ++ + E I  +  + GD +++ ++ V      
Sbjct: 138 EGELVIGEVYQIWKKEILVLDDDGN-ELILPKTEQIPADYFKKGDSIRAVVHKVDMMNNN 196

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P++++SRT P F+ +LF +EVPEI++G++ +K + R+PG RAK+AV S D  IDPVGACV
Sbjct: 197 PKIIISRTAPAFLQRLFELEVPEIFDGLITIKKIVREPGERAKVAVESYDDRIDPVGACV 256

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           GM+GSR+  +V ELR+E ID++ ++ + + ++  AL PA ++ + +DED     V +  +
Sbjct: 257 GMKGSRIHGIVRELRNENIDVINFTTNHSLYITRALSPARISSIKIDEDNKTAAVYLKSD 316

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
           Q+SLAIGR G N++LA +LTG+ ID+  E ++
Sbjct: 317 QVSLAIGRGGHNIKLAGKLTGYEIDVYRENDE 348


>gi|149002224|ref|ZP_01827166.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP14-BS69]
 gi|168485664|ref|ZP_02710172.1| transcription termination factor NusA [Streptococcus pneumoniae
           CDC1087-00]
 gi|147759539|gb|EDK66530.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP14-BS69]
 gi|183571232|gb|EDT91760.1| transcription termination factor NusA [Streptococcus pneumoniae
           CDC1087-00]
          Length = 378

 Score =  236 bits (601), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 127/354 (35%), Positives = 211/354 (59%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ + E
Sbjct: 4   EMLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 64  VVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y+Y
Sbjct: 124 AITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + +
Sbjct: 184 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGANIKKITSKFHPARYDAKNDRMVPIEENIDVIEWVADPAEFIYNAIAP 303

Query: 294 AIVTKVVLDE-DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V +V+ DE D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDQVIFDESDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|307707652|ref|ZP_07644133.1| transcription termination factor NusA [Streptococcus mitis NCTC
           12261]
 gi|307616365|gb|EFN95557.1| transcription termination factor NusA [Streptococcus mitis NCTC
           12261]
          Length = 378

 Score =  236 bits (601), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 127/354 (35%), Positives = 211/354 (59%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ + E
Sbjct: 4   EMLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 64  VVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y+Y
Sbjct: 124 AITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + +
Sbjct: 184 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGANIKKITSKFHPARYDAKSDRMVPIEENIDVIEWVADPAEFIYNAIAP 303

Query: 294 AIVTKVVLDE-DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V +V+ DE D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|306824618|ref|ZP_07457963.1| transcription termination factor NusA [Streptococcus sp. oral taxon
           071 str. 73H25AP]
 gi|304433186|gb|EFM36157.1| transcription termination factor NusA [Streptococcus sp. oral taxon
           071 str. 73H25AP]
          Length = 378

 Score =  236 bits (601), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 127/354 (35%), Positives = 211/354 (59%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ + E
Sbjct: 4   EMLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 64  VVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y+Y
Sbjct: 124 AITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + +
Sbjct: 184 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGANIKKITSKFHPARYDAKSDRMIPVEENIDVIEWVADPAEFIYNAIAP 303

Query: 294 AIVTKVVLDE-DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V +V+ DE D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|306830060|ref|ZP_07463246.1| transcription termination factor NusA [Streptococcus mitis ATCC
           6249]
 gi|304427773|gb|EFM30867.1| transcription termination factor NusA [Streptococcus mitis ATCC
           6249]
          Length = 378

 Score =  236 bits (601), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 127/354 (35%), Positives = 211/354 (59%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ + E
Sbjct: 4   EMLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 64  VVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y+Y
Sbjct: 124 AITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + +
Sbjct: 184 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGANIKKITSKFHPARYDAKSDRMIPVEENIDVIEWVADPAEFIYNAIAP 303

Query: 294 AIVTKVVLDE-DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V +V+ DE D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|322377700|ref|ZP_08052190.1| transcription termination factor NusA [Streptococcus sp. M334]
 gi|321281465|gb|EFX58475.1| transcription termination factor NusA [Streptococcus sp. M334]
          Length = 378

 Score =  235 bits (600), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 127/354 (35%), Positives = 211/354 (59%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ + E
Sbjct: 4   EMLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 64  VVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y+Y
Sbjct: 124 AITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + +
Sbjct: 184 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGANIKKITSKFHPARYDAKNDRMVPIEENIDVIEWVADPAEFIYNAIAP 303

Query: 294 AIVTKVVLDE-DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V +V+ DE D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|260910869|ref|ZP_05917513.1| N utilization substance protein A [Prevotella sp. oral taxon 472
           str. F0295]
 gi|260635020|gb|EEX53066.1| N utilization substance protein A [Prevotella sp. oral taxon 472
           str. F0295]
          Length = 422

 Score =  235 bits (600), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 128/328 (39%), Positives = 207/328 (63%), Gaps = 3/328 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYTC 77
           K+IDR  ++SV+ +S +     ++G+  +  V +NP+ GD  ++R   VV   EVE+   
Sbjct: 24  KNIDRMTLVSVLEESFRNVLARIFGSDENFDVIVNPDKGDFEIYRNRMVVADGEVEDENK 83

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QI+L  A+  +   ++G  V++ +    FGR A+ + +Q +  K+ E E D  Y ++KD+
Sbjct: 84  QIALTEAQKIEHDYEVGEEVTERVDFAKFGRRAILTLRQTLASKILELEHDSLYNKYKDR 143

Query: 138 VGEIISGTVKRVEYGNV-IVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG++I+G V +V    V IVD  N++ ++ + E I  +  R G+ +++ I  V  E   P
Sbjct: 144 VGQVIAGEVYQVWKREVLIVDDENNELILPKSEQIPADQYRKGETIRAVILRVDNENNNP 203

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +++LSRT P F+ +L   EVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACVG
Sbjct: 204 KIILSRTSPMFLERLLEAEVPEINDGLISIKRIARMPGERAKIAVESYDERIDPVGACVG 263

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           +RGSRV  +V EL +E ID++ ++ ++  F+  AL PA V+ + +DE+  + EV +  E+
Sbjct: 264 VRGSRVHGIVRELCNENIDVINYTANTKLFIQRALSPAQVSSINIDEENRKAEVFLHPEE 323

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +SLAIGR G N++LAS LT +TID+  E
Sbjct: 324 VSLAIGRGGLNIKLASMLTEYTIDVFRE 351


>gi|293364176|ref|ZP_06610903.1| transcription elongation factor NusA [Streptococcus oralis ATCC
           35037]
 gi|315611732|ref|ZP_07886654.1| transcription termination factor NusA [Streptococcus sanguinis ATCC
           49296]
 gi|291317354|gb|EFE57780.1| transcription elongation factor NusA [Streptococcus oralis ATCC
           35037]
 gi|315316147|gb|EFU64177.1| transcription termination factor NusA [Streptococcus sanguinis ATCC
           49296]
          Length = 378

 Score =  235 bits (600), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 127/354 (35%), Positives = 211/354 (59%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ + E
Sbjct: 4   EMLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 64  VVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y+Y
Sbjct: 124 AITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + +
Sbjct: 184 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGANIKKITSKFHPARYDAKSDRMIPVEENIDVIEWVADPAEFIYNAIAP 303

Query: 294 AIVTKVVLDE-DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V +V+ DE D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|195977581|ref|YP_002122825.1| transcription elongation factor NusA [Streptococcus equi subsp.
           zooepidemicus MGCS10565]
 gi|225869110|ref|YP_002745058.1| N utilization substance protein A [Streptococcus equi subsp.
           zooepidemicus]
 gi|225869938|ref|YP_002745885.1| N utilization substance protein A [Streptococcus equi subsp. equi
           4047]
 gi|195974286|gb|ACG61812.1| transcription termination protein NusA [Streptococcus equi subsp.
           zooepidemicus MGCS10565]
 gi|225699342|emb|CAW92741.1| putative N utilization substance protein A [Streptococcus equi
           subsp. equi 4047]
 gi|225702386|emb|CAX00230.1| putative N utilization substance protein A [Streptococcus equi
           subsp. zooepidemicus]
          Length = 384

 Score =  235 bits (600), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 127/354 (35%), Positives = 207/354 (58%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK ID+  ++  + +S++ A +  YG      +E N +T D  +F + E
Sbjct: 4   EMLEAFRILEEEKHIDKADIIEAVTESLKSAYKRRYGQAESCVIEFNDKTADFQVFTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISL  A     + ++G  +       +FGRVA QSAKQ I++++R   R
Sbjct: 64  VVEEVFDSRLEISLNDALAISSAYELGDKIRFEESVSEFGRVAAQSAKQTIMERMRRQMR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + E+K   GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR+  Y+Y
Sbjct: 124 EITFNEYKQHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIDVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S + +
Sbjct: 184 KVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGSNIKKVISKFHPKRYDAKTGLEIPVEENIDVIQWVDDPAEFIYNAIAP 303

Query: 294 AIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V  V+  D+D+ R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDMVLFDDDDLKRATVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|217077786|ref|YP_002335504.1| transcription elongation factor NusA [Thermosipho africanus TCF52B]
 gi|217037641|gb|ACJ76163.1| transcription termination factor NusA [Thermosipho africanus
           TCF52B]
          Length = 344

 Score =  235 bits (600), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 134/336 (39%), Positives = 213/336 (63%), Gaps = 1/336 (0%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           L+ LQ  + +  EK +  D ++ V+  ++  A +  +G   ++ + IN +TG+I  ++LL
Sbjct: 3   LDFLQALEQLEEEKGVKVDEIIPVIEKALISAYKKDFGGEKNVEIIINRQTGEIEAYQLL 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           EVVE VE    QISL+ A   + S  IG +V   L    FGR+A Q+AKQV+IQK+RE E
Sbjct: 63  EVVENVEKPNLQISLEEALKINSSAKIGDIVKKRLNIKKFGRIAAQTAKQVLIQKIREIE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           +++Q+ ++ +  G+I +  V RV      + +G  +  + + E I  E ++P   +K Y+
Sbjct: 123 KEKQFEKYSELAGKITTAEVVRVTKDWADIRIGKLETRLPKKEWIPGEEIQPASLIKVYV 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            DV+++++GP++L++R + +F+  L  +EVPEI + +V+V  + R+PG R K+AV S++ 
Sbjct: 183 KDVKKDKKGPKILVTRINEEFIKGLLELEVPEIESKVVEVVKIVREPGIRTKVAVKSNNP 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDV 305
            +DPVGAC+G  G R+ A++ EL  EKIDI+ WS D    + +AL+PA V +V +LD + 
Sbjct: 243 KVDPVGACIGEEGIRIAAILKELNGEKIDIIKWSDDPKELIASALQPANVIEVEILDYEN 302

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
               VIV   QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 303 KASRVIVSPNQLSLAIGKGGQNARLAAKLTGWKIDI 338


>gi|116627258|ref|YP_819877.1| transcription elongation factor NusA [Streptococcus thermophilus
           LMD-9]
 gi|116100535|gb|ABJ65681.1| Transcription elongation factor [Streptococcus thermophilus LMD-9]
 gi|312277742|gb|ADQ62399.1| Putative transcription factor [Streptococcus thermophilus ND03]
          Length = 391

 Score =  235 bits (600), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 129/338 (38%), Positives = 201/338 (59%), Gaps = 15/338 (4%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I+++ ++  + +S++ A +  YG      VE N +TGD  +F + EVV+EV +   +
Sbjct: 11  EKHINKEDIIDAVVESLKSAYKRRYGQSESAVVEFNEKTGDFQVFTVREVVDEVFDSRLE 70

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R+  R+  Y E+K   
Sbjct: 71  ISLKDALAISSAYELGDKIRFEESVDEFGRVAAQSAKQTIMEKMRKQMREITYNEYKQHE 130

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
           GEI+ GTV+R +   + V+LG  +  + R + I  E+ +  D +  Y+Y V    +G  V
Sbjct: 131 GEIMQGTVERFDQRFIYVNLGTLEAQLSRQDQIPGESFKSHDVIDVYVYKVENNPKGVNV 190

Query: 199 LLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMR 258
            +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S + ++D +G  VG  
Sbjct: 191 FVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHNPNVDAIGTIVGRG 250

Query: 259 GSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRPAIVTKVVLDE- 303
           GS ++ VV+                 +E ID++ W  D A F+ NA+ PA V  V+ DE 
Sbjct: 251 GSNIKKVVSRFHPTRLDAKTGIEVPVEENIDVIQWVEDPAEFIYNAIAPAEVDYVLFDED 310

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI
Sbjct: 311 DSKRATVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDI 348


>gi|257465970|ref|ZP_05630281.1| transcription elongation factor NusA [Fusobacterium gonidiaformans
           ATCC 25563]
 gi|315917126|ref|ZP_07913366.1| transcription elongation factor NusA [Fusobacterium gonidiaformans
           ATCC 25563]
 gi|313691001|gb|EFS27836.1| transcription elongation factor NusA [Fusobacterium gonidiaformans
           ATCC 25563]
          Length = 353

 Score =  235 bits (600), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 130/344 (37%), Positives = 209/344 (60%), Gaps = 3/344 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M + +    L+  D +  EK I+++ +L  +  ++  A +  YG   ++ V I+ E GD+
Sbjct: 1   MTNKDARAFLEALDELEKEKGIEKESLLQAVEQALLTAYKKNYGDEENVEVVIDRENGDV 60

Query: 61  SLFRLLEVVEEVENY--TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++ +  VV E + Y    +ISL+ A+       +G  V   +    F R A+Q+ KQ++
Sbjct: 61  KVYEVKTVVTEEDLYDAALEISLEEAKKISRRAKLGEEVRIEVDCESFRRNAIQNGKQIV 120

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLR 177
           IQKVREAER+  Y  FK + GEI++G ++R+ E  NV ++ G  + ++   E    +  +
Sbjct: 121 IQKVREAERENIYDRFKAQEGEILTGIIRRIDERKNVFIEFGGIETILTAGEQCVSDRYK 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+R+K Y+ +V +  + P++++SR H   + KLF +E+PEI +G +++KAV+R+ GSRA
Sbjct: 181 VGNRIKVYLVEVEKTNKFPKIVISRRHEGLLRKLFELEIPEISSGAIEIKAVAREAGSRA 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV+S   +ID VGAC+G + +R++ +V EL  EKIDIV+W  +   FV   L PA V 
Sbjct: 241 KVAVYSELPNIDIVGACIGQKRARIKNIVDELGGEKIDIVIWKENMEEFVSAVLSPAKVN 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            V L ED     V+V + QLSLAIG+ GQN RLA++LTG  +DI
Sbjct: 301 SVELLEDGETARVLVDESQLSLAIGKSGQNARLAAKLTGMRVDI 344


>gi|116515364|ref|YP_815985.1| transcription elongation factor NusA [Streptococcus pneumoniae D39]
 gi|116075940|gb|ABJ53660.1| transcription termination factor NusA [Streptococcus pneumoniae
           D39]
          Length = 378

 Score =  235 bits (600), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 127/354 (35%), Positives = 211/354 (59%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ + E
Sbjct: 4   EMLEAFRILEEDKRIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 64  VVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y+Y
Sbjct: 124 AITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + +
Sbjct: 184 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGANIKKITSKFHPARYDAKNDRMVPIEENIDVIEWVADPAEFIYNAIAP 303

Query: 294 AIVTKVVLDE-DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V +V+ DE D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDQVIFDESDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|150021290|ref|YP_001306644.1| transcription elongation factor NusA [Thermosipho melanesiensis
           BI429]
 gi|149793811|gb|ABR31259.1| NusA antitermination factor [Thermosipho melanesiensis BI429]
          Length = 344

 Score =  235 bits (600), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 128/336 (38%), Positives = 215/336 (63%), Gaps = 1/336 (0%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           L+ LQ  + +  EK I  D ++ ++  ++  A +  +G   ++ + IN +TG+I L++LL
Sbjct: 3   LDFLQALEQLEEEKGIKVDEIIPIIEKALVSAYKKDFGGEKNVEITINRQTGEIELYQLL 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           EVV++VE  T QISL+ A     +  IG  +   +    FGR+A Q+AKQV+IQ++RE E
Sbjct: 63  EVVDKVEKETTQISLEDALKISSNAKIGDTIRKRINVKKFGRIAAQTAKQVLIQRIREIE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           +++Q+ ++ +  G+I +  V R+      + +G  +  + + E I  E + P   +K Y+
Sbjct: 123 KEKQFEKYSELAGKITTAEVIRITKEWADIRIGKLETRLPKKEWIPGETIEPASLIKVYV 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            DV+++++GP++L++R + +F+  L  +EVPEI + +V++  + R+PG R K+AV S++ 
Sbjct: 183 KDVKKDKKGPKILVTRINEEFIKGLLELEVPEIESKVVEIVKIVREPGIRTKVAVKSNNP 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDV 305
            +DPVGAC+G  G R+ A++ EL+ EK+DI+ WS D    + +AL+PA V +V +LD + 
Sbjct: 243 KVDPVGACIGEEGVRIAAILRELKGEKLDIIKWSDDPKELIASALQPANVVEVEILDPEN 302

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
               +IVP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 303 KASRIIVPPTQLSLAIGKGGQNARLAAKLTGWKIDI 338


>gi|288800576|ref|ZP_06406034.1| transcription termination factor NusA [Prevotella sp. oral taxon
           299 str. F0039]
 gi|288332789|gb|EFC71269.1| transcription termination factor NusA [Prevotella sp. oral taxon
           299 str. F0039]
          Length = 421

 Score =  235 bits (600), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 129/328 (39%), Positives = 203/328 (61%), Gaps = 3/328 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYTC 77
           K+IDR  ++SV+ +S +     L+G+  +  V +NP+ GD  ++R   VV   EV +   
Sbjct: 24  KNIDRATLVSVLEESFRNVLAKLFGSDENFDVIVNPDKGDFEIYRNRVVVANGEVSDENK 83

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +I+L  A   +P  ++G  VS+ +    FGR A+ + +Q +  KV E E D  Y ++KD+
Sbjct: 84  EIALNDAIKIEPDYEVGEEVSERVNFAGFGRRAILNLRQTLASKVLELEHDALYNKYKDR 143

Query: 138 VGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG+IIS  V +V    V+ VD  N++  + + E I  +  R G+ V++ I  V  E   P
Sbjct: 144 VGQIISAEVYQVWKREVLLVDDENNELKLPKSEQIPSDVYRKGETVRAVIARVDNENNNP 203

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           ++ LSRT P F+ +L   EVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACVG
Sbjct: 204 KIFLSRTSPMFLERLLEAEVPEINDGLISIKKIARMPGERAKIAVESYDERIDPVGACVG 263

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           ++G+R+  +V EL +E ID+V ++ ++  F+  AL PA++  + +DE+  + EV +  EQ
Sbjct: 264 VKGNRIHGIVRELCNENIDVVNYTSNTKLFIQRALSPAVINSINIDEEAHKAEVFLQPEQ 323

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +SLAIGR G N++LAS LT +TID+  E
Sbjct: 324 VSLAIGRSGLNIKLASMLTEYTIDVFRE 351


>gi|218264757|ref|ZP_03478469.1| hypothetical protein PRABACTJOHN_04178 [Parabacteroides johnsonii
           DSM 18315]
 gi|218221806|gb|EEC94456.1| hypothetical protein PRABACTJOHN_04178 [Parabacteroides johnsonii
           DSM 18315]
          Length = 424

 Score =  235 bits (600), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 123/327 (37%), Positives = 208/327 (63%), Gaps = 5/327 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           K+ID+D ++SV+ DS +     ++GT  +  V INPE GD  ++R   VV  +E+E+   
Sbjct: 21  KNIDKDTMISVLEDSFRNVIAKMFGTDENYDVIINPEKGDFEIWRNRTVVADDELEDENL 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           Q++L  AR  D   ++G  V+D +   DFGR A+ + +Q +  K+ E ++D  + ++KDK
Sbjct: 81  QLTLTEARKIDADCEVGEEVTDEVHFADFGRRAILNLRQTLASKILELQKDSLFAKYKDK 140

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           +G II+  V +V    +++  D GN + ++ + E I  +  R G+ V++ +  V      
Sbjct: 141 IGNIIAADVYQVWKKEILLLDDEGN-ELLLPKTEQIPTDFYRKGETVRAIVQRVDNYNNN 199

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P+++LSRT   F+ +LF +EVPEI +G++ +KA++R PG RAK+AV S D  IDPVGACV
Sbjct: 200 PKIILSRTDKLFLQRLFELEVPEINDGLITIKAIARIPGERAKIAVESYDDRIDPVGACV 259

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           GM+GSR+  +V ELR+E ID++ ++ + + F+  AL PA ++ + ++E+  + EV +  +
Sbjct: 260 GMKGSRIHGIVRELRNENIDVINYTSNISLFIQRALSPAKISSIRVNEEERKAEVYLHPD 319

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDII 342
           ++SLAIG+ G N++LA  LT + ID+ 
Sbjct: 320 EVSLAIGKGGLNIKLACMLTEYAIDVF 346


>gi|224025208|ref|ZP_03643574.1| hypothetical protein BACCOPRO_01942 [Bacteroides coprophilus DSM
           18228]
 gi|224018444|gb|EEF76442.1| hypothetical protein BACCOPRO_01942 [Bacteroides coprophilus DSM
           18228]
          Length = 418

 Score =  235 bits (600), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 129/333 (38%), Positives = 209/333 (62%), Gaps = 5/333 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD  ++R  EVV  E++ N   
Sbjct: 21  KNIDRTTLVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDFEIWRNREVVADEDLTNPNS 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QISL  AR  D S +IG  V+D +    FGR A+ + +Q +  K+ E E+D  Y ++ DK
Sbjct: 81  QISLSQARQIDASYEIGEEVTDEVIFEKFGRRAILNLRQTLASKILELEKDSLYNKYIDK 140

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VG +IS  V ++    +++  D GN + ++ + E I  +  R G+  ++ +  V      
Sbjct: 141 VGTVISAEVYQIWKKEILLLDDEGN-ELLLPKTEQIPGDFYRKGETARAVVARVDNPGNN 199

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P+++LSRT P F+ +LF  EVPEI +G++ ++ ++R PG RAK+AV S D  IDPVGACV
Sbjct: 200 PKIILSRTSPMFLQRLFEQEVPEIADGLITIRRIARIPGERAKIAVESYDDRIDPVGACV 259

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G++GSR+  +V ELR+E ID++ ++ +   F+  AL PA ++ +V+ ED  + EV +  E
Sbjct: 260 GVKGSRIHGIVRELRNENIDVINYTSNIQLFIQRALSPAKISSIVMHEDEKKAEVYLKPE 319

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           ++SLAIG+ G N++LAS LT +TID+  E ++S
Sbjct: 320 EVSLAIGKGGMNIKLASMLTEYTIDVYRELDES 352


>gi|256379832|ref|YP_003103492.1| transcription elongation factor NusA [Actinosynnema mirum DSM
           43827]
 gi|255924135|gb|ACU39646.1| NusA antitermination factor [Actinosynnema mirum DSM 43827]
          Length = 337

 Score =  235 bits (599), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 141/339 (41%), Positives = 201/339 (59%), Gaps = 31/339 (9%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  +K I  D VL  +  ++  A +   G     RVEI+ ++G + +            
Sbjct: 10  AIERDKDIPFDTVLEAIETALLTAYKHTDGHHPHSRVEIDRKSGAVRVL----------- 58

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPL--PPMDFGRVAVQSAKQVIIQKVREAERDRQYL 132
                    A+D  P     GVV++     P  FGR+A  +A+QVI+Q++R+AE +R + 
Sbjct: 59  ---------AQDLGPD----GVVTEEWDDTPEGFGRIAATTARQVILQRLRDAEHERTFG 105

Query: 133 EFKDKVGEIISGTVKRVEYGN----VIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
           EF  K GEII G V+R    N    V+V +G+++GV+   E +  E  + G R+K Y+  
Sbjct: 106 EFSAKEGEIIGGVVQRDARANARGMVVVQVGDTEGVLPPAEQVPGEEYKHGARIKCYVVG 165

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V R  RGPQ+ LSRTHP  + +LF +EVPEI +G V++ AV+R+ G R+K+AV +S   +
Sbjct: 166 VSRSARGPQITLSRTHPNLVRRLFALEVPEIADGTVEIPAVAREAGHRSKIAVRTSVPGV 225

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  G+RV+ V++EL  EKIDI+  S D ATFV NAL PA V  V VLDE    
Sbjct: 226 NAKGACIGPMGARVRNVMSELAGEKIDIIDHSDDPATFVGNALSPAKVVSVRVLDERAKT 285

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             V+VP  QLSLAIG+ GQN RLA++LTGW IDI ++ E
Sbjct: 286 ARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRSDAE 324


>gi|212550409|ref|YP_002308726.1| transcription elongation factor NusA [Candidatus Azobacteroides
           pseudotrichonymphae genomovar. CFP2]
 gi|212548647|dbj|BAG83315.1| transcription elongation factor NusA [Candidatus Azobacteroides
           pseudotrichonymphae genomovar. CFP2]
          Length = 417

 Score =  235 bits (599), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 120/332 (36%), Positives = 207/332 (62%), Gaps = 5/332 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           K+IDR  ++SV+ ++ + A   ++G+  +  + +NP+ GD  ++R  EVV  +++EN   
Sbjct: 21  KNIDRTTLISVLEETFRNAINKMFGSDKNYNIIVNPDKGDFEIWRNREVVPDDKLENPNL 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QI+L  AR  DP  + G  +SD +    FGR  V + +Q++  K+ E + +  Y ++KDK
Sbjct: 81  QITLSEARKIDPDYESGEEISDAVNFSSFGRRTVLNLRQILTSKILELQNNSLYNKYKDK 140

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           +G I++G V ++    +++  D GN + ++ + E I  +  R  +  ++ +  V      
Sbjct: 141 IGHIVTGEVYQIWKKEILLLDDEGN-ELILPKSEQIPNDFFRKNESCRAVVLRVDNNYSN 199

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P+++LSRT   FM +LF +EVPEI +G++ +K ++R PG RAK+AV S +  IDP+G CV
Sbjct: 200 PKIILSRTSNSFMQQLFELEVPEIQDGLITIKHIARIPGERAKIAVESYNERIDPIGTCV 259

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           GM+G R+  +V ELR+E IDI+ ++ + + F+  AL PA ++ + + E   + EV +  E
Sbjct: 260 GMKGMRIHGIVRELRNENIDIINYTSNISLFIQRALSPAKISSIKIHEKEKKAEVFLRPE 319

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
           ++SLAIG+ G N++LAS LTG+TID+  E E+
Sbjct: 320 EVSLAIGKSGLNIKLASILTGYTIDVFREGEN 351


>gi|256827233|ref|YP_003151192.1| transcription termination factor NusA [Cryptobacterium curtum DSM
           15641]
 gi|256583376|gb|ACU94510.1| transcription termination factor NusA [Cryptobacterium curtum DSM
           15641]
          Length = 402

 Score =  235 bits (599), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 143/360 (39%), Positives = 213/360 (59%), Gaps = 46/360 (12%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL- 66
           EL++   A+A+E+ ID   ++  +  S+ K+ +++     D RV I+  TG I ++ L+ 
Sbjct: 5   ELIEALHALAHERKIDEFYLIERLEASLAKSYQNILDLEWDARVTIDRNTGKIYVYELVP 64

Query: 67  --EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
             E   E   YT         +RD            + P D  R+A Q+AK VI   VRE
Sbjct: 65  QGEPDPETGEYTD------FEERD------------VTPDDVSRIAAQNAKGVINAIVRE 106

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV-------------IRRDETI 171
           A R   Y EF  +VG++++GTV +      I+ +   DGV               R+E  
Sbjct: 107 AGRQSIYEEFSQRVGDLVTGTVLQGTPDFTIIKI--RDGVEAELPHYDQKRFPDERNERP 164

Query: 172 SRENLRPGDRVKSYIYDVRR----------EQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           + E  R   R+K+ I +VR           EQ  P +++SRTHP  + +LF +EVPEIY+
Sbjct: 165 ANERYRHNQRLKTLIIEVRNPNSEESRQRGEQARPSIVVSRTHPDLIRRLFEIEVPEIYD 224

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           G+V++K+++R+PG+R+K+AV S ++ +DPVGACVG +GSRV+ VV ELR+E++D++ WS 
Sbjct: 225 GVVEIKSIAREPGARSKVAVVSHENHLDPVGACVGPKGSRVRMVVEELRNERVDVIQWSD 284

Query: 282 DSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           D+AT+V NAL PA V+ V +DE+     VIVP +QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 285 DAATYVRNALSPARVSHVDIDEETHYATVIVPDDQLSLAIGKEGQNARLAARLTGWHIDI 344


>gi|149197530|ref|ZP_01874581.1| transcription elongation factor NusA [Lentisphaera araneosa
           HTCC2155]
 gi|149139548|gb|EDM27950.1| transcription elongation factor NusA [Lentisphaera araneosa
           HTCC2155]
          Length = 413

 Score =  235 bits (599), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 138/413 (33%), Positives = 236/413 (57%), Gaps = 5/413 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+ + + +  EK+ID+ ++  ++ D++        G  S+I+VEIN  TGD+++   + 
Sbjct: 4   ELVAMVEYLEQEKAIDKAILFDLIEDAMASVYEKEVGEESEIKVEINRRTGDVTIIADVV 63

Query: 68  VVEEVENYTCQISLKVA-RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           + EEV +   +I L  A ++    + IG  V   L      R+A Q+ +Q I+Q++R  E
Sbjct: 64  IAEEVFDKRHEIDLASAQKEYGDEVAIGDTVKWTLQQDQMSRIAAQNTRQAIMQRLRTFE 123

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           ++R   E+ D VGE+ISGTV+  E   +IVD G + G + + + + RE    GD + + +
Sbjct: 124 KERVVEEYSDMVGELISGTVRHFEKNELIVDFGRAQGGLGKMDRVPRERFDNGDHITALL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            ++   + GP ++LSRT  + + KLF  EV EI NG+V++KAV+R  G R K+AV S   
Sbjct: 184 KEIDERKSGPSIVLSRTDAKLVTKLFEREVTEITNGLVEIKAVARKAGFRTKIAVAS--D 241

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           S+DPVGAC+G+RGSRV+ +  EL +EK+DI+ +S D   +V  A +P  + +V +D+D  
Sbjct: 242 SLDPVGACIGIRGSRVKTICQELNNEKLDIIGYSEDEEEYVREAFKPNPIEEVEIDQDGR 301

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS-INRQKDFNERTQFFMQA 365
            I+++V +E     +GR G+N+RL  +L  W I++     D+ I   +   E  Q  M+ 
Sbjct: 302 LIKLLVSEESYKSIVGRDGENIRLTEELMDWDIEVEKYVYDTEITFDEHIQEAYQTMMKL 361

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            N+DE  A +++  G+  +E ++     ++    G + + A EI   A+  L+
Sbjct: 362 PNMDEGKARMMIDGGYLSLEGVSEASTDDLVEA-GIEADHATEIIEYAKSRLQ 413


>gi|288925326|ref|ZP_06419260.1| transcription termination factor NusA [Prevotella buccae D17]
 gi|288337797|gb|EFC76149.1| transcription termination factor NusA [Prevotella buccae D17]
          Length = 421

 Score =  235 bits (599), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 128/328 (39%), Positives = 206/328 (62%), Gaps = 3/328 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYTC 77
           K+IDR  ++SV+ +S +     ++G+  +  V +NP+ GD  ++R   VV   EVE+   
Sbjct: 24  KNIDRTTLVSVLEESFRNVLAKIFGSDENFDVIVNPDKGDFEIYRNRVVVADGEVEDENK 83

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +I L  A+  +P  ++G  VS+ +    FGR A+ + +Q +  K+ E E D  Y ++KD+
Sbjct: 84  EICLTEAQKIEPDYEVGEDVSEKVDFNKFGRRAILTLRQTLASKILELEHDSLYNKYKDR 143

Query: 138 VGEIISGTVKRVEYGNV-IVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG++ISG V ++    V IVD  N++ ++ + E I  +  R G+ V++ I  V  E   P
Sbjct: 144 VGQVISGEVYQMWKREVLIVDDENNELILPKAEQIPADQYRKGETVRAVILRVDNENNNP 203

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +++LSRT P F+ +L   EVPEI +G++ ++ ++R PG RAK+AV S D  IDPVGACVG
Sbjct: 204 KIILSRTSPMFLERLLEAEVPEISDGLIAIRKIARMPGDRAKVAVESFDERIDPVGACVG 263

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           ++GSRV  +V EL +E ID++ ++ +   F+  AL PA V+ + +DE+  + EV +  E+
Sbjct: 264 VKGSRVHGIVRELCNENIDVINYTSNVKLFIQRALSPAKVSSINIDEENHKAEVYLQPEE 323

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +SLAIGR G N++LAS LT +TID+  E
Sbjct: 324 VSLAIGRGGMNIKLASMLTEYTIDVFRE 351


>gi|319744370|gb|EFV96730.1| transcription termination factor NusA [Streptococcus agalactiae
           ATCC 13813]
          Length = 386

 Score =  235 bits (599), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 126/354 (35%), Positives = 208/354 (58%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK I+++ ++  + +S++ A +  YG      +E N +  D +++ + E
Sbjct: 7   EMLEAFRILEEEKHINKEDIIDAVTESLKSAYKRRYGQSESCVIEFNEKKADFTVYTVRE 66

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R   R
Sbjct: 67  VVDEVFDSRLEISLKNALAISSAYELGDKIRFEESVTEFGRVAAQSAKQTIMEKMRRQMR 126

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + E+K   GEI++GTV+R +   + V+LG+ +  +   + I  E+ +  D +  Y+Y
Sbjct: 127 EVTFNEYKQHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGESFKSHDMIDVYVY 186

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S +S+
Sbjct: 187 KVENNPKGVNVFVSRSHPEFIKRIMEREIPEVFDGTVEIMSVSREAGDRTKVAVRSHNSN 246

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ V++                 +E ID++ W  D A F+ NA+ P
Sbjct: 247 VDAIGTIVGRGGSNIKKVISNFHPKRVDAKTGLEIPVEENIDVIQWVEDPAEFIYNAIAP 306

Query: 294 AIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V  V+  DED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 307 AEVDMVLFDDEDTKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 360


>gi|327403853|ref|YP_004344691.1| NusA antitermination factor [Fluviicola taffensis DSM 16823]
 gi|327319361|gb|AEA43853.1| NusA antitermination factor [Fluviicola taffensis DSM 16823]
          Length = 411

 Score =  235 bits (599), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 140/408 (34%), Positives = 234/408 (57%), Gaps = 10/408 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N LEL++        KSID+  +  V+ D  +   +  + T   I V +N + GD+ +F 
Sbjct: 2   NSLELVESFSEFKELKSIDKQTMQHVLEDVFRAMLKKKFNTDEHIDVIVNIDKGDVQIFV 61

Query: 65  LLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             E+V   EVE+   +I+   A   +P  +IG  VS+     DFGR  + S +Q +I ++
Sbjct: 62  NKEIVADGEVEDQNTEIAYSDAIKIEPDFEIGEEVSEEFRFNDFGRRNILSLRQNLISRI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDR 181
            E E+D  Y ++K+++GEII+G V +V    ++V D  N++ ++ + E I  +  + G+ 
Sbjct: 122 LELEKDHLYKKYKERIGEIITGEVYQVWKKEIMVLDDENNELILPKSEQIPSDYFKKGES 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++ +  V      P ++LSR  P+F+ +LF +EVPE+++G++ +K + R+PG RAK+AV
Sbjct: 182 IRAVVSKVDMRNSSPVIILSRIAPEFLERLFELEVPEVFDGLITIKRIVREPGERAKVAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  IDPVGACVGM+GSR+  +V ELR+E ID++ ++ +   F+  AL PA +T + +
Sbjct: 242 ESYDDRIDPVGACVGMKGSRIHGIVRELRNENIDVINFTSNPKLFIQRALSPAKITNIEI 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  R  V +  +Q+SLAIG+ G N+RLA +LTG+ ID+  + E S N   D  E    
Sbjct: 302 DEEQKRASVFLKPDQVSLAIGKGGYNIRLAGKLTGFEIDVFRDGE-SDNEDVDLEEF--- 357

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEI 409
              A  +D  I   L A G    + +  + ++++      +EET  E+
Sbjct: 358 ---ADEIDSWILDELKAVGCDTAKSVLELTVADLVQRTDLEEETVQEV 402


>gi|189465081|ref|ZP_03013866.1| hypothetical protein BACINT_01425 [Bacteroides intestinalis DSM
           17393]
 gi|189437355|gb|EDV06340.1| hypothetical protein BACINT_01425 [Bacteroides intestinalis DSM
           17393]
          Length = 440

 Score =  235 bits (599), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 127/329 (38%), Positives = 210/329 (63%), Gaps = 5/329 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD  ++R  EVV  E++EN   
Sbjct: 21  KNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDFEIWRNREVVADEDLENPNL 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QI+L  A+  D S ++G  V+D +   +FGR A+ + +Q +  K+ E E+D  Y ++ DK
Sbjct: 81  QIALSEAQKIDASYEVGEEVTDEVIFANFGRRAILNLRQTLASKILELEKDSIYNKYIDK 140

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VG II+  V ++    +++  D GN + ++ + E I  +  R G+  ++ +  V  +   
Sbjct: 141 VGNIINAEVYQIWKKEMLLLDDEGN-ELLLPKTEQIPSDFYRKGETARAVVARVDNKNNN 199

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACV
Sbjct: 200 PKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERAKIAVESYDDRIDPVGACV 259

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G++GSR+  +V ELR+E ID++ ++ +   F+  AL PA ++ + L+E+  + EV +  E
Sbjct: 260 GVKGSRIHGIVRELRNENIDVINYTSNIQLFIQRALSPAKISSIRLNEEERKAEVFLRPE 319

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           ++SLAIG+ G N++LAS LT +TID+  E
Sbjct: 320 EVSLAIGKGGLNIKLASMLTEYTIDVFRE 348


>gi|309799813|ref|ZP_07694020.1| transcription termination factor NusA [Streptococcus infantis
           SK1302]
 gi|308116529|gb|EFO53998.1| transcription termination factor NusA [Streptococcus infantis
           SK1302]
          Length = 378

 Score =  234 bits (598), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 127/354 (35%), Positives = 211/354 (59%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ + E
Sbjct: 4   EMLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 64  VVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPGEFGRVAAQSAKQTIMEKMRKQTR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y+Y
Sbjct: 124 AITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + +
Sbjct: 184 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGANIKKITSKFHPARYDAKSDRMVPIEENIDVIEWVADPAEFIYNAIAP 303

Query: 294 AIVTKVVLDE-DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V +V+ DE D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|310778372|ref|YP_003966705.1| transcription termination factor NusA [Ilyobacter polytropus DSM
           2926]
 gi|309747695|gb|ADO82357.1| transcription termination factor NusA [Ilyobacter polytropus DSM
           2926]
          Length = 356

 Score =  234 bits (598), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 134/331 (40%), Positives = 203/331 (61%), Gaps = 4/331 (1%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLLEVVEEVENY-- 75
           EK I ++ ++  +  ++  A +  YG   S I VEIN E+GD+ ++ +  VVE  + Y  
Sbjct: 19  EKGISKESLIETVEQALLAAYKKHYGEEDSSIEVEINRESGDVKVYEIKTVVEAEDLYDS 78

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
            C+I L+ A        +G V+   +   +F R A+Q+ KQ++IQKVREAER   + +FK
Sbjct: 79  ACEIILEDALLEKKRAKVGDVLKIEVNCEEFRRNAIQNGKQIVIQKVREAERQFVFDKFK 138

Query: 136 DKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
            +  +II+G ++R++   N+ ++    + ++   E    +  R GDR+K Y+ +V +  R
Sbjct: 139 SREKDIINGIIRRIDDRRNIFIEFDGIEAMLPIVEQSPSDVYRVGDRLKVYVVEVEKTSR 198

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
            P++L+SR H   + KLF +E+PEI +G++++KAV+R+ GSRAK+AV+S +  ID VGAC
Sbjct: 199 FPKILISRKHEGLLKKLFELEIPEIEDGLIEIKAVAREAGSRAKVAVYSENKEIDTVGAC 258

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPK 314
           +G +G R++ VV EL  EKIDIV W      FV  AL PA V  V + ED     VIV  
Sbjct: 259 IGQKGLRIKNVVNELNGEKIDIVEWLDSQEEFVSAALSPAKVMSVEVLEDQVTARVIVDT 318

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
            QLSLAIG+ GQN RLA++LTG  +DI T E
Sbjct: 319 SQLSLAIGKNGQNARLAAKLTGMRVDIKTPE 349


>gi|281422606|ref|ZP_06253605.1| transcription termination factor NusA [Prevotella copri DSM 18205]
 gi|281403276|gb|EFB33956.1| transcription termination factor NusA [Prevotella copri DSM 18205]
          Length = 420

 Score =  234 bits (598), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 128/328 (39%), Positives = 208/328 (63%), Gaps = 3/328 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYTC 77
           K+IDR  ++SV+ +S +     ++G+  +  V +NP+ GD  ++R   VV   EVE+   
Sbjct: 23  KNIDRTTLVSVLEESFRNVLAKIFGSDENFDVIVNPDKGDFEIYRNRIVVADGEVEDENK 82

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +I+L  AR  +P  ++G  VS+ +    FGR A+ + +Q +  K+ E E D  Y ++KD+
Sbjct: 83  EITLSEARKIEPDYEVGEDVSETVDFNKFGRRAILTLRQTLASKILELEHDSLYNKYKDR 142

Query: 138 VGEIISGTVKRVEYGNV-IVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG++ISG V +V    V IVD  N++ ++ + E I  +  R G+ V++ I  V  E   P
Sbjct: 143 VGQVISGEVYQVWKREVLIVDDENNELMLPKTEQIPGDTYRKGETVRAVILRVDNENNNP 202

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +++LSRT P F+ +L   EVPEI +G++ ++ ++R PG RAK+AV + D  IDPVGACVG
Sbjct: 203 KIILSRTAPIFLQRLLEAEVPEIADGLIAIRRIARLPGERAKIAVETFDERIDPVGACVG 262

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           ++GSRV  +V EL +E +D++ +S ++  F+  AL PA V+ + +D++  + EV +  E+
Sbjct: 263 VKGSRVHGIVRELCNENLDVINYSSNTKLFIQRALAPAKVSSINVDDENKKAEVYLQPEE 322

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +SLAIGR G N++LAS LT +TID+  E
Sbjct: 323 VSLAIGRGGMNIKLASMLTEYTIDVFRE 350


>gi|320537771|ref|ZP_08037693.1| transcription termination factor NusA [Treponema phagedenis F0421]
 gi|320145361|gb|EFW37055.1| transcription termination factor NusA [Treponema phagedenis F0421]
          Length = 488

 Score =  234 bits (598), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 158/465 (33%), Positives = 258/465 (55%), Gaps = 22/465 (4%)

Query: 17  AYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYT 76
           A EK +D D+   ++  +++ A ++ + T  +  V        +S++   +VV+EV++  
Sbjct: 13  AQEKEMDEDLAFKIVEQTLKAAYKTTFKTDENAVVTFG--DNHVSIYSRKKVVDEVDDDV 70

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +I L+ A+    + ++G  +   L P +F R +VQ+A Q I Q  RE ++D  Y E+K 
Sbjct: 71  TEIDLEDAKKLTENAELGDELLVELDPENFKRGSVQAAVQRIHQLSRELQKDSLYAEYKS 130

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG- 195
           K GEII G  +R+  G++ VDLG  +GV+ R   I  E     DR+K+ I +V++ Q   
Sbjct: 131 KEGEIIIGYFQRMREGSIYVDLGKVEGVLPRKYQIPGEEFHQNDRIKALIREVKKHQSNL 190

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
            Q++LSRT   F+  L   E+PEIY+GIV++  + R+PG R K+AVF+    IDPVGACV
Sbjct: 191 VQLILSRTDADFVRGLLSSEIPEIYDGIVEIHKIVREPGYRTKVAVFTRREDIDPVGACV 250

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA-IVTKVVLDEDVGRIEVIVPK 314
           G RG+R+Q ++ EL DEKID+V +S D A F+ NAL PA ++  ++LDE+      +V  
Sbjct: 251 GQRGARIQTIIKELDDEKIDVVEYSDDPAEFIRNALSPAEVLNVIILDEEKRSALAVVSD 310

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITEEE--------DSINRQK----DFNERTQFF 362
            QLS+AIG++G NVRLA++L  W+ID+ TE++        DS    +    D  E  ++ 
Sbjct: 311 SQLSIAIGKQGLNVRLANRLADWSIDVKTEKQFAEMEVVTDSRKAAEELFSDDEEVAEYD 370

Query: 363 MQA--INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
           +Q    N+D  I  +L   G  ++E L  +  +E+ ++EG   E   E+    +E  E  
Sbjct: 371 IQEELPNLDPAIITILHQNGIKEIETLVNLSENEVRALEGMTSEYVEEL---FKEINENF 427

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGC 465
           +I  +++I E   +     +P  + +      E G +   D+  C
Sbjct: 428 EIVQEERIDEPEQTNTEEQLPEYEEQ-SFECPECGARITTDMTEC 471


>gi|322387178|ref|ZP_08060788.1| transcription elongation factor NusA [Streptococcus infantis ATCC
           700779]
 gi|321141707|gb|EFX37202.1| transcription elongation factor NusA [Streptococcus infantis ATCC
           700779]
          Length = 378

 Score =  234 bits (598), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 127/354 (35%), Positives = 211/354 (59%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ + E
Sbjct: 4   EMLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 64  VVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPGEFGRVAAQSAKQTIMEKMRKQTR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y+Y
Sbjct: 124 AITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + +
Sbjct: 184 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGANIKKITSKFHPARYDAKSDRMVPVEENIDVIEWVADPAEFIYNAIAP 303

Query: 294 AIVTKVVLDE-DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V +V+ DE D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|224536664|ref|ZP_03677203.1| hypothetical protein BACCELL_01540 [Bacteroides cellulosilyticus
           DSM 14838]
 gi|224521755|gb|EEF90860.1| hypothetical protein BACCELL_01540 [Bacteroides cellulosilyticus
           DSM 14838]
          Length = 446

 Score =  234 bits (598), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 127/329 (38%), Positives = 210/329 (63%), Gaps = 5/329 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD  ++R  EVV  E++EN   
Sbjct: 21  KNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDFEIWRNREVVADEDLENPNL 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QI+L  A+  D S ++G  V+D +   +FGR A+ + +Q +  K+ E E+D  Y ++ DK
Sbjct: 81  QIALSEAQKIDASYEVGEEVTDEVIFANFGRRAILNLRQTLASKILELEKDSIYNKYIDK 140

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VG II+  V ++    +++  D GN + ++ + E I  +  R G+  ++ +  V  +   
Sbjct: 141 VGNIINAEVYQIWKKEMLLLDDEGN-ELLLPKTEQIPSDFYRKGETARAVVARVDNKNNN 199

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACV
Sbjct: 200 PKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERAKIAVESYDDRIDPVGACV 259

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G++GSR+  +V ELR+E ID++ ++ +   F+  AL PA ++ + L+E+  + EV +  E
Sbjct: 260 GVKGSRIHGIVRELRNENIDVINYTSNIQLFIQRALSPAKISSIRLNEEERKAEVFLRPE 319

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           ++SLAIG+ G N++LAS LT +TID+  E
Sbjct: 320 EVSLAIGKGGLNIKLASMLTEYTIDVFRE 348


>gi|255010119|ref|ZP_05282245.1| transcription elongation factor NusA [Bacteroides fragilis 3_1_12]
 gi|313147917|ref|ZP_07810110.1| transcription elongation factor NusA [Bacteroides fragilis 3_1_12]
 gi|313136684|gb|EFR54044.1| transcription elongation factor NusA [Bacteroides fragilis 3_1_12]
          Length = 420

 Score =  234 bits (598), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 127/329 (38%), Positives = 209/329 (63%), Gaps = 5/329 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD  ++R  EVV  E++ N   
Sbjct: 21  KNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDFEIWRNREVVADEDLTNPNM 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QISL  A+  D S ++G  V+D +    FGR A+ + +Q +  K+ E E+D  Y ++ DK
Sbjct: 81  QISLTEAQQIDASYEVGEEVTDEVIFAKFGRRAILNLRQTLASKILELEKDSIYNKYIDK 140

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VG II+  V ++    +++  D GN + ++ + E I  +  R G+  ++ +  V  +   
Sbjct: 141 VGTIINAEVYQIWKKEMLLLDDEGN-ELLLPKTEQIPSDFYRKGETARAVVARVDNKNNN 199

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACV
Sbjct: 200 PKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERAKIAVESYDDRIDPVGACV 259

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G++GSR+  +V ELR+E ID++ ++ + + F+  AL PA ++ + L+E+  + EV +  E
Sbjct: 260 GVKGSRIHGIVRELRNENIDVINYTSNISLFIQRALSPAKISSIRLNEEERKAEVFLKPE 319

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           ++SLAIG+ G N++LAS LT +TID+  E
Sbjct: 320 EVSLAIGKGGLNIKLASMLTEYTIDVFRE 348


>gi|282850815|ref|ZP_06260189.1| transcription termination factor NusA [Lactobacillus gasseri 224-1]
 gi|282557767|gb|EFB63355.1| transcription termination factor NusA [Lactobacillus gasseri 224-1]
          Length = 406

 Score =  234 bits (598), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 130/342 (38%), Positives = 213/342 (62%), Gaps = 8/342 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+++    +  EK I +++++  +  ++  A +  Y    ++ V  + + G+  +  +  
Sbjct: 4   EMVEAFATLEKEKGIKQEIIVDAIKAALVAAYKKNYNQAQNVEVVFDEKKGNFKVNAIKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   ++SLK A + + + ++G  +   + P DFGR+A Q+AKQVI+Q++REAER
Sbjct: 64  VVDEVQDSRLEVSLKDALEINRAYEVGDEIRFEVTPKDFGRLAAQTAKQVIMQRLREAER 123

Query: 128 DR---QYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           +    +Y ++KD   EI++GTV+R +   V V +GN + V+  ++ +  EN  P D+V+ 
Sbjct: 124 EHIISEYSQYKD---EIVTGTVERRDNRFVYVKIGNVEAVMPHNDQLPGENYNPQDKVRV 180

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V  + +G Q+ +SRT P  + +LF  EVPE+Y+G V++ +++R+ G R K+AV S+
Sbjct: 181 LVTRVGSDSKGAQITVSRTAPDLVKRLFEQEVPEVYDGTVEIVSIAREAGDRTKIAVKSN 240

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--D 302
           D  ID VG  VG +G+RVQ +V EL  E ID+V +  + + F+ NAL PA V  V    D
Sbjct: 241 DPDIDSVGTLVGPKGTRVQNIVNELGGENIDVVKYEENPSDFIANALNPAEVIAVQFSGD 300

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +D     VIVP  QLSLAIG+RGQNVRLA++L G+ IDI  E
Sbjct: 301 DDDKNALVIVPDYQLSLAIGKRGQNVRLAARLAGYKIDIKPE 342


>gi|322391412|ref|ZP_08064882.1| transcription elongation factor NusA [Streptococcus peroris ATCC
           700780]
 gi|321145838|gb|EFX41229.1| transcription elongation factor NusA [Streptococcus peroris ATCC
           700780]
          Length = 378

 Score =  234 bits (598), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 127/354 (35%), Positives = 211/354 (59%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ + E
Sbjct: 4   EMLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 64  VVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPGEFGRVAAQSAKQTIMEKMRKQTR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y+Y
Sbjct: 124 AITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + +
Sbjct: 184 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGANIKKITSKFHPARYDAKSDRMVPVEENIDVIEWVADPAEFIYNAIAP 303

Query: 294 AIVTKVVLDE-DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V +V+ DE D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|53711553|ref|YP_097545.1| transcription elongation factor NusA [Bacteroides fragilis YCH46]
 gi|60679812|ref|YP_209956.1| transcription elongation factor NusA [Bacteroides fragilis NCTC
           9343]
 gi|253564386|ref|ZP_04841843.1| transcription elongation factor NusA [Bacteroides sp. 3_2_5]
 gi|265764945|ref|ZP_06093220.1| transcription termination factor NusA [Bacteroides sp. 2_1_16]
 gi|52214418|dbj|BAD47011.1| putative nitrogen utilization substance protein [Bacteroides
           fragilis YCH46]
 gi|60491246|emb|CAH05994.1| putative N utilization substance protein A [Bacteroides fragilis
           NCTC 9343]
 gi|251948162|gb|EES88444.1| transcription elongation factor NusA [Bacteroides sp. 3_2_5]
 gi|263254329|gb|EEZ25763.1| transcription termination factor NusA [Bacteroides sp. 2_1_16]
 gi|301161335|emb|CBW20875.1| putative N utilization substance protein A [Bacteroides fragilis
           638R]
          Length = 420

 Score =  234 bits (598), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 127/329 (38%), Positives = 209/329 (63%), Gaps = 5/329 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD  ++R  EVV  E++ N   
Sbjct: 21  KNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDFEIWRNREVVADEDLTNPNM 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QISL  A+  D S ++G  V+D +    FGR A+ + +Q +  K+ E E+D  Y ++ DK
Sbjct: 81  QISLTEAQKIDASYEVGEEVTDEVIFAKFGRRAILNLRQTLASKILELEKDSIYNKYIDK 140

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VG II+  V ++    +++  D GN + ++ + E I  +  R G+  ++ +  V  +   
Sbjct: 141 VGTIINAEVYQIWKKEMLLLDDEGN-ELLLPKTEQIPSDFYRKGETARAVVARVDNKNNN 199

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACV
Sbjct: 200 PKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERAKIAVESYDDRIDPVGACV 259

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G++GSR+  +V ELR+E ID++ ++ + + F+  AL PA ++ + L+E+  + EV +  E
Sbjct: 260 GVKGSRIHGIVRELRNENIDVINYTSNISLFIQRALSPAKISSIRLNEEERKAEVFLKPE 319

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           ++SLAIG+ G N++LAS LT +TID+  E
Sbjct: 320 EVSLAIGKGGLNIKLASMLTEYTIDVFRE 348


>gi|315222140|ref|ZP_07864049.1| transcription termination factor NusA [Streptococcus anginosus
           F0211]
 gi|315188766|gb|EFU22472.1| transcription termination factor NusA [Streptococcus anginosus
           F0211]
          Length = 397

 Score =  234 bits (598), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 127/354 (35%), Positives = 208/354 (58%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG      +E N +TGD  ++ + E
Sbjct: 4   EMLEAFRILEEDKGIKKEDIIEAVTESLRSAYRRRYGQADSAAIEFNEKTGDFRVYTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 64  VVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPTEFGRVAAQSAKQTIMEKMRKQTR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y ++K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ ++Y
Sbjct: 124 AITYNKYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVFVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S + +
Sbjct: 184 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGANIKKITSKFHPAKYDAKSGRMIPVEENIDVIEWVADPAEFIYNAIAP 303

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V +V+ D ED     V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDQVIFDSEDSKHALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|307702469|ref|ZP_07639424.1| transcription elongation protein nusA [Streptococcus oralis ATCC
           35037]
 gi|307623963|gb|EFO02945.1| transcription elongation protein nusA [Streptococcus oralis ATCC
           35037]
          Length = 374

 Score =  234 bits (598), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 125/343 (36%), Positives = 206/343 (60%), Gaps = 15/343 (4%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ + EVV+EV +   +
Sbjct: 11  DKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTVREVVDEVFDSRLE 70

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+  R   Y  +K+  
Sbjct: 71  ISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTRAITYNTYKEHE 130

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
            EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y+Y V    RG  V
Sbjct: 131 QEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVYVYKVEDNPRGVNV 190

Query: 199 LLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMR 258
            +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + ++D +G  VG  
Sbjct: 191 FVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPNVDAIGTIVGRG 250

Query: 259 GSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRPAIVTKVVLDE- 303
           G+ ++ + ++                +E ID++ W  D A F+ NA+ PA V +V+ DE 
Sbjct: 251 GANIKKITSKFHPARYDAKSDRMIPVEENIDVIEWVADPAEFIYNAIAPAEVDQVIFDEN 310

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 311 DSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 353


>gi|307705617|ref|ZP_07642469.1| transcription elongation protein nusA [Streptococcus mitis SK597]
 gi|307620894|gb|EFN99978.1| transcription elongation protein nusA [Streptococcus mitis SK597]
          Length = 374

 Score =  234 bits (598), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 125/343 (36%), Positives = 206/343 (60%), Gaps = 15/343 (4%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ + EVV+EV +   +
Sbjct: 11  DKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTVREVVDEVFDSRLE 70

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+  R   Y  +K+  
Sbjct: 71  ISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTRAITYNTYKEHE 130

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
            EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y+Y V    RG  V
Sbjct: 131 QEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVYVYKVEDNPRGVNV 190

Query: 199 LLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMR 258
            +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + ++D +G  VG  
Sbjct: 191 FVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPNVDAIGTIVGRG 250

Query: 259 GSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRPAIVTKVVLDE- 303
           G+ ++ + ++                +E ID++ W  D A F+ NA+ PA V +V+ DE 
Sbjct: 251 GANIKKITSKFHPARYDAKSDRMVPIEENIDVIEWVADPAEFIYNAIAPAEVDQVIFDEN 310

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 311 DSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 353


>gi|307710806|ref|ZP_07647234.1| transcription elongation protein nusA [Streptococcus mitis SK321]
 gi|307617412|gb|EFN96584.1| transcription elongation protein nusA [Streptococcus mitis SK321]
          Length = 374

 Score =  234 bits (598), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 125/343 (36%), Positives = 206/343 (60%), Gaps = 15/343 (4%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ + EVV+EV +   +
Sbjct: 11  DKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTVREVVDEVFDSRLE 70

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+  R   Y  +K+  
Sbjct: 71  ISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTRAITYNTYKEHE 130

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
            EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y+Y V    RG  V
Sbjct: 131 QEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVYVYKVEDNPRGVNV 190

Query: 199 LLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMR 258
            +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + ++D +G  VG  
Sbjct: 191 FVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPNVDAIGTIVGRG 250

Query: 259 GSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRPAIVTKVVLDE- 303
           G+ ++ + ++                +E ID++ W  D A F+ NA+ PA V +V+ DE 
Sbjct: 251 GANIKKITSKFHPARYDAKSDRMVPIEENIDVIEWVADPAEFIYNAIAPAEVDQVIFDEN 310

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 311 DSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 353


>gi|183603429|ref|ZP_02716853.2| transcription termination factor NusA [Streptococcus pneumoniae
           CDC3059-06]
 gi|307067174|ref|YP_003876140.1| transcription elongation factor [Streptococcus pneumoniae AP200]
 gi|183576810|gb|EDT97338.1| transcription termination factor NusA [Streptococcus pneumoniae
           CDC3059-06]
 gi|306408711|gb|ADM84138.1| Transcription elongation factor [Streptococcus pneumoniae AP200]
 gi|332076985|gb|EGI87447.1| transcription termination factor NusA [Streptococcus pneumoniae
           GA17545]
          Length = 374

 Score =  234 bits (598), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 125/343 (36%), Positives = 206/343 (60%), Gaps = 15/343 (4%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ + EVV+EV +   +
Sbjct: 11  DKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTVREVVDEVFDSRLE 70

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+  R   Y  +K+  
Sbjct: 71  ISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTRAITYNTYKEHE 130

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
            EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y+Y V    RG  V
Sbjct: 131 QEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVYVYKVEDNPRGVNV 190

Query: 199 LLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMR 258
            +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + ++D +G  VG  
Sbjct: 191 FVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPNVDAIGTIVGRG 250

Query: 259 GSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRPAIVTKVVLDE- 303
           G+ ++ + ++                +E ID++ W  D A F+ NA+ PA V +V+ DE 
Sbjct: 251 GANIKKITSKFHPARYDAKNDRMVPIEENIDVIEWVADPAEFIYNAIAPAEVDQVIFDEN 310

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 311 DSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 353


>gi|307709807|ref|ZP_07646258.1| transcription elongation protein nusA [Streptococcus mitis SK564]
 gi|307619509|gb|EFN98634.1| transcription elongation protein nusA [Streptococcus mitis SK564]
          Length = 374

 Score =  234 bits (597), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 125/343 (36%), Positives = 206/343 (60%), Gaps = 15/343 (4%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ + EVV+EV +   +
Sbjct: 11  DKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTVREVVDEVFDSRLE 70

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+  R   Y  +K+  
Sbjct: 71  ISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTRAITYNTYKEHE 130

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
            EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y+Y V    RG  V
Sbjct: 131 QEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVYVYKVEDNPRGVNV 190

Query: 199 LLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMR 258
            +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + ++D +G  VG  
Sbjct: 191 FVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPNVDAIGTIVGRG 250

Query: 259 GSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRPAIVTKVVLDE- 303
           G+ ++ + ++                +E ID++ W  D A F+ NA+ PA V +V+ DE 
Sbjct: 251 GANIKKITSKFHPARYDAKNDRMVPIEENIDVIEWVADPAEFIYNAIAPAEVDQVIFDEN 310

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 311 DSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 353


>gi|331265777|ref|YP_004325407.1| transcription termination-antitermination factor [Streptococcus
           oralis Uo5]
 gi|326682449|emb|CBZ00066.1| transcription termination-antitermination factor [Streptococcus
           oralis Uo5]
          Length = 374

 Score =  234 bits (597), Expect = 3e-59,   Method: Compositional matrix adjust.
 Identities = 125/343 (36%), Positives = 206/343 (60%), Gaps = 15/343 (4%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ + EVV+EV +   +
Sbjct: 11  DKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTVREVVDEVFDSRLE 70

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+  R   Y  +K+  
Sbjct: 71  ISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTRAITYNTYKEHE 130

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
            EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y+Y V    RG  V
Sbjct: 131 QEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVYVYKVEDNPRGVNV 190

Query: 199 LLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMR 258
            +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + ++D +G  VG  
Sbjct: 191 FVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPNVDAIGTIVGRG 250

Query: 259 GSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRPAIVTKVVLDE- 303
           G+ ++ + ++                +E ID++ W  D A F+ NA+ PA V +V+ DE 
Sbjct: 251 GANIKKITSKFHPARYDAKSDRMIPVEENIDVIEWVADPAEFIYNAIAPAEVDQVIFDEN 310

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 311 DSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 353


>gi|258647228|ref|ZP_05734697.1| transcription termination factor NusA [Prevotella tannerae ATCC
           51259]
 gi|260852981|gb|EEX72850.1| transcription termination factor NusA [Prevotella tannerae ATCC
           51259]
          Length = 419

 Score =  234 bits (597), Expect = 3e-59,   Method: Compositional matrix adjust.
 Identities = 135/372 (36%), Positives = 226/372 (60%), Gaps = 11/372 (2%)

Query: 6   RLELLQIADAVAY---EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISL 62
           + E++ + D  A     K+IDR  ++SV+ +S +     L+G+  +  V +NP+ GD  +
Sbjct: 5   KAEVISLTDTFAEFKENKNIDRTTLVSVLEESFRSVITKLFGSDENFDVIVNPDKGDCEI 64

Query: 63  FRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +R   VV +  VE++  QISL  AR+ D   + G  VS+P+    FGR A+ + +Q +  
Sbjct: 65  YRNRVVVADNAVEDHKSQISLTEAREIDSDYEEGEEVSEPINFAKFGRRAILTLRQTLAS 124

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPG 179
           K+ E + D  + ++KD+VGEII+  V +  +   +++D   ++  + +++ I R+    G
Sbjct: 125 KLLELDHDALFNKYKDRVGEIIAAEVYQTWKQETLLMDDEGNELYLPKNQQIPRDFFHKG 184

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           D V++ I  V      P++ LSRT P+F+ +L   E+PEI +G++ +K ++R PG RAK+
Sbjct: 185 DNVRAVIDRVDNLNGTPKIFLSRTSPEFLRRLLEQEIPEIGDGLISLKRIARIPGERAKI 244

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S D  IDPVGACVG++GSR+  +V EL +E ID++ ++ + A F+  AL PA V+ +
Sbjct: 245 AVESYDDRIDPVGACVGVKGSRIHGIVRELHNENIDVINYTSNPALFIQRALNPAQVSSI 304

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-----EEDSINRQKD 354
            LDE+  + +V +  E++SLAIG+ GQN++LAS LT +TID+  E     +ED I   + 
Sbjct: 305 QLDEENRKAQVYLRPEEVSLAIGKGGQNIKLASMLTEYTIDVFREVEGDDQEDDIFLDEF 364

Query: 355 FNERTQFFMQAI 366
            +E  Q+ + AI
Sbjct: 365 ADEIDQWVIDAI 376


>gi|317504200|ref|ZP_07962194.1| transcription elongation factor NusA [Prevotella salivae DSM 15606]
 gi|315664689|gb|EFV04362.1| transcription elongation factor NusA [Prevotella salivae DSM 15606]
          Length = 421

 Score =  234 bits (596), Expect = 3e-59,   Method: Compositional matrix adjust.
 Identities = 128/328 (39%), Positives = 207/328 (63%), Gaps = 3/328 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYTC 77
           K+IDR  ++SV+ +S +     ++G+  +  V +NP+ GD  ++R   VV   EVE+   
Sbjct: 24  KNIDRTTLVSVLEESFRNVLAKIFGSDENFDVIVNPDKGDFEIYRNRIVVADGEVEDENK 83

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           Q++L  AR  +P  ++G  VS+ +    FGR A+ + +Q +  K+ E E D  Y ++KD+
Sbjct: 84  QVALTEARKIEPDYEVGEEVSEQVNFAKFGRRAILNLRQTLASKILELEHDTLYNKYKDR 143

Query: 138 VGEIISGTVKRVEYGNV-IVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG+IISG V ++    V +VD  N++ ++ + E I  +  R G+ V++ I  V  E   P
Sbjct: 144 VGQIISGEVYQIWKREVLVVDDENNELILPKSEQIPADVYRKGETVRAVILRVDNENNNP 203

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +++LSRT P F+ +L   EVPEI +G++ ++ ++R PG RAK+AV S D  IDPVGACVG
Sbjct: 204 KIILSRTSPLFLERLLEAEVPEINDGLIAIRKIARMPGERAKIAVESFDDRIDPVGACVG 263

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           ++GSRV  +V EL +E +D+V ++ +   F+  AL PA V+ + +D++  + EV +  E+
Sbjct: 264 VKGSRVHGIVRELCNENLDVVNYTSNINLFIQRALSPARVSSINIDQENHKAEVYLQPEE 323

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +SLAIGR G N++LAS LT +TID+  E
Sbjct: 324 VSLAIGRGGLNIKLASMLTEFTIDVFRE 351


>gi|319939747|ref|ZP_08014104.1| transcription termination factor NusA [Streptococcus anginosus
           1_2_62CV]
 gi|319811085|gb|EFW07396.1| transcription termination factor NusA [Streptococcus anginosus
           1_2_62CV]
          Length = 397

 Score =  234 bits (596), Expect = 3e-59,   Method: Compositional matrix adjust.
 Identities = 127/354 (35%), Positives = 208/354 (58%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG      +E N +TGD  ++ + E
Sbjct: 4   EMLEAFRILEEDKGIKKEDIIEAVTESLRSAYRRRYGQADSAAIEFNEKTGDFRVYTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 64  VVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y ++K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ ++Y
Sbjct: 124 AITYNKYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVFVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S + +
Sbjct: 184 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           ID +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 IDAIGTIVGRGGANIKKITSKFHPAKYDAKSDRMIPIEENIDVIEWVADPAEFIYNAIAP 303

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V +V+ D +D     V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDQVIFDSQDSKHALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|256832250|ref|YP_003160977.1| NusA antitermination factor [Jonesia denitrificans DSM 20603]
 gi|256685781|gb|ACV08674.1| NusA antitermination factor [Jonesia denitrificans DSM 20603]
          Length = 354

 Score =  234 bits (596), Expect = 3e-59,   Method: Compositional matrix adjust.
 Identities = 136/342 (39%), Positives = 207/342 (60%), Gaps = 30/342 (8%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           E+ I  DV+L  +  ++  A +    ++   RVEI+ +TG + ++      EE+E     
Sbjct: 14  EREISLDVLLEAIEQALALAYQRTPDSLRHARVEIDRKTGQVVVW----AREEIE----- 64

Query: 79  ISLKVARDRDPS-IDIGGVVSDPL---------PPMDFGRVAVQSAKQVIIQKVREAERD 128
                   R+P+ +D  G    P+          P DFG VA  +A+QVI Q++R+ E D
Sbjct: 65  --------REPARVDDEGAYVPPVRELGDEFDHTPKDFGHVATATARQVIFQRMRDVEDD 116

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNS-DGVIRRDETISRENLRPGDRVKSYI 186
           +   +FKDK G ++SG +++  +   + VDLGN  + V+   E +  E+ R G RV++Y+
Sbjct: 117 QVLGQFKDKEGHVVSGIIQQAAHPRAVNVDLGNGVEAVLPEHEQVPGEDYRHGARVRAYV 176

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V R+ +GP + LSRTHP  + +LF MEVPE+ +G V++ A++R+ G R K+AV S+  
Sbjct: 177 VEVARKAKGPSITLSRTHPNLVRRLFEMEVPEVADGAVEIIALAREAGHRTKMAVTSTIP 236

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDV 305
            ++P GAC+G  G RV+AV+ EL  EKIDIV ++ D A F+ +AL PA V+ V +LDE  
Sbjct: 237 GLNPKGACIGPMGQRVRAVMAELGGEKIDIVDYTEDPAQFIASALSPATVSSVSILDERA 296

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
               VIVP  QLSLAIG+ GQN RLA++LTGW IDI ++ +D
Sbjct: 297 RMARVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIRSDADD 338


>gi|25010487|ref|NP_734882.1| transcription elongation factor NusA [Streptococcus agalactiae
           NEM316]
 gi|76788260|ref|YP_329098.1| transcription elongation factor NusA [Streptococcus agalactiae
           A909]
 gi|161485616|ref|NP_687412.2| transcription elongation factor NusA [Streptococcus agalactiae
           2603V/R]
 gi|23094840|emb|CAD46058.1| Unknown [Streptococcus agalactiae NEM316]
 gi|76563317|gb|ABA45901.1| transcription termination factor NusA [Streptococcus agalactiae
           A909]
          Length = 383

 Score =  234 bits (596), Expect = 3e-59,   Method: Compositional matrix adjust.
 Identities = 126/354 (35%), Positives = 208/354 (58%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK I+++ ++  + +S++ A +  YG      +E N +  D +++ + E
Sbjct: 4   EMLEAFRILEEEKHINKEDIIDAVTESLKSAYKRRYGQSESCVIEFNEKKADFTVYTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R   R
Sbjct: 64  VVDEVFDSRLEISLKDALAISSAYELGDKIRFEESVTEFGRVAAQSAKQTIMEKMRRQMR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + E+K   GEI++GTV+R +   + V+LG+ +  +   + I  E+ +  D +  Y+Y
Sbjct: 124 EVTFNEYKQHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGESFKSHDMIDVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S +S+
Sbjct: 184 KVENNPKGVNVFVSRSHPEFIKRIMEREIPEVFDGTVEIMSVSREAGDRTKVAVRSHNSN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ V++                 +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGSNIKKVISNFHPKRVDAKTGLEIPVEENIDVIQWVEDPAEFIYNAIAP 303

Query: 294 AIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V  V+  DED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDMVLFDDEDTKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|237716685|ref|ZP_04547166.1| transcription elongation factor NusA [Bacteroides sp. D1]
 gi|262405461|ref|ZP_06082011.1| transcription termination factor NusA [Bacteroides sp. 2_1_22]
 gi|293370440|ref|ZP_06616993.1| transcription termination factor NusA [Bacteroides ovatus SD CMC
           3f]
 gi|294646240|ref|ZP_06723894.1| transcription termination factor NusA [Bacteroides ovatus SD CC 2a]
 gi|294809092|ref|ZP_06767810.1| transcription termination factor NusA [Bacteroides xylanisolvens SD
           CC 1b]
 gi|229442668|gb|EEO48459.1| transcription elongation factor NusA [Bacteroides sp. D1]
 gi|262356336|gb|EEZ05426.1| transcription termination factor NusA [Bacteroides sp. 2_1_22]
 gi|292634432|gb|EFF52968.1| transcription termination factor NusA [Bacteroides ovatus SD CMC
           3f]
 gi|292638458|gb|EFF56822.1| transcription termination factor NusA [Bacteroides ovatus SD CC 2a]
 gi|294443646|gb|EFG12395.1| transcription termination factor NusA [Bacteroides xylanisolvens SD
           CC 1b]
          Length = 424

 Score =  234 bits (596), Expect = 3e-59,   Method: Compositional matrix adjust.
 Identities = 128/334 (38%), Positives = 212/334 (63%), Gaps = 5/334 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD  ++R  EVV  E++ N   
Sbjct: 21  KNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDFEIWRNREVVADEDLTNPNM 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QISL  A+  D S + G  V+D +    FGR A+ + +Q +  K+ E E+D  Y ++ DK
Sbjct: 81  QISLSEAQKIDASYEEGEEVTDEVIFAKFGRRAILNLRQTLASKILELEKDSIYNKYIDK 140

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VG II+  V ++    +++  D GN + ++ + E I  +  R G+  ++ +  V  +   
Sbjct: 141 VGTIINAEVYQIWKKEMLLLDDEGN-ELLLPKTEQIPSDFYRKGETARAVVARVDNKNNN 199

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACV
Sbjct: 200 PKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERAKIAVESYDDRIDPVGACV 259

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G++GSR+  +V ELR+E ID++ ++ + + F+  AL PA ++ + L+E+  + EV +  E
Sbjct: 260 GVKGSRIHGIVRELRNENIDVINYTSNISLFIQRALSPAKISSIRLNEEEKKAEVFLKPE 319

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           ++SLAIG+ G N++LAS LT +TID+  E ++S+
Sbjct: 320 EVSLAIGKGGLNIKLASMLTEYTIDVFRELDESV 353


>gi|228476580|ref|ZP_04061262.1| transcription termination factor NusA [Streptococcus salivarius
           SK126]
 gi|228251775|gb|EEK10840.1| transcription termination factor NusA [Streptococcus salivarius
           SK126]
          Length = 399

 Score =  234 bits (596), Expect = 3e-59,   Method: Compositional matrix adjust.
 Identities = 129/349 (36%), Positives = 206/349 (59%), Gaps = 15/349 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK I+++ ++  + +S++ A +  YG      VE N +TGD  ++ + E
Sbjct: 4   EMLEAFRVLEEEKHINKEDIIDAVVESLKSAYKRRYGQSESAVVEFNEKTGDFQVYTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R+  R
Sbjct: 64  VVDEVFDSRLEISLKDALAISSAYELGDKIRFEESVDEFGRVAAQSAKQTIMEKMRKQMR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y ++K   GEI+ GTV+R +   + V+LG  +  + R + I  E+ +  D +  Y+Y
Sbjct: 124 EITYNDYKQHEGEIMQGTVERFDQRFIYVNLGTLEAQLSRQDQIPGESFKSHDVIDVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S + +
Sbjct: 184 KVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ VV+                 +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGSNIKKVVSRFHPTRLDAKTGIEVPVEENIDVIQWVEDPAEFIYNAIAP 303

Query: 294 AIVTKVVLDE-DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           A V  V+ DE D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI
Sbjct: 304 AEVDYVLFDEDDSKRATVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDI 352


>gi|15902522|ref|NP_358072.1| transcription elongation factor NusA [Streptococcus pneumoniae R6]
 gi|15458048|gb|AAK99282.1| Transcription termination [Streptococcus pneumoniae R6]
          Length = 378

 Score =  234 bits (596), Expect = 4e-59,   Method: Compositional matrix adjust.
 Identities = 126/354 (35%), Positives = 210/354 (59%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ + E
Sbjct: 4   EMLEAFRILEEDKRIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+E  +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 64  VVDEAFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y+Y
Sbjct: 124 AITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + +
Sbjct: 184 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGANIKKITSKFHPARYDAKNDRMVPIEENIDVIEWVADPAEFIYNAIAP 303

Query: 294 AIVTKVVLDE-DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V +V+ DE D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDQVIFDESDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|281424957|ref|ZP_06255870.1| transcription termination factor NusA [Prevotella oris F0302]
 gi|281400801|gb|EFB31632.1| transcription termination factor NusA [Prevotella oris F0302]
          Length = 421

 Score =  233 bits (595), Expect = 4e-59,   Method: Compositional matrix adjust.
 Identities = 128/328 (39%), Positives = 206/328 (62%), Gaps = 3/328 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYTC 77
           K+IDR  ++SV+ +S +     ++G+  +  V +NP+ GD  ++R   VV   EVE+   
Sbjct: 24  KNIDRTTLVSVLEESFRNVLAKIFGSDENFDVIVNPDKGDFEIYRNRVVVADGEVEDENK 83

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QI+L  A   +P  +IG  VS+ +    FGR A+ + +Q +  K+ E E D  Y ++KD+
Sbjct: 84  QIALGEALKIEPDYEIGEEVSEQVNFAKFGRRAILNLRQTLASKILELEHDTLYNKYKDR 143

Query: 138 VGEIISGTVKRVEYGNV-IVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG+I+SG V ++    V +VD  N++ ++ + E I  +  R G+ +++ I  V  E   P
Sbjct: 144 VGQIVSGEVYQIWKREVLVVDDENNELILPKSEQIPADVYRKGETIRAVILRVDNENNNP 203

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +++LSRT P F+ +L   EVPEI +G++ ++ ++R PG RAK+AV S D  IDPVGACVG
Sbjct: 204 KIILSRTSPMFLERLLEAEVPEINDGLIAIRKIARMPGERAKIAVESFDDRIDPVGACVG 263

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           ++GSRV  +V EL +E +D+V ++ +   F+  AL PA V+ + +DE+  + EV +  E+
Sbjct: 264 VKGSRVHGIVRELCNENLDVVNYTTNINLFIQRALSPARVSSINIDEENHKAEVYLQPEE 323

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +SLAIGR G N++LAS LT +TID+  E
Sbjct: 324 VSLAIGRGGLNIKLASMLTEYTIDVFRE 351


>gi|167751796|ref|ZP_02423923.1| hypothetical protein ALIPUT_00037 [Alistipes putredinis DSM 17216]
 gi|167660037|gb|EDS04167.1| hypothetical protein ALIPUT_00037 [Alistipes putredinis DSM 17216]
          Length = 410

 Score =  233 bits (595), Expect = 5e-59,   Method: Compositional matrix adjust.
 Identities = 130/334 (38%), Positives = 206/334 (61%), Gaps = 7/334 (2%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYTC 77
           K+ID+  ++ V+ D  + A +  + T  +  V INPE GD+ ++R   VVE+  VEN   
Sbjct: 17  KNIDKATMIGVLEDVFRHALQKQFETDENFDVIINPEKGDLEIWRNRTVVEDGAVENPNM 76

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QI++   +  DP+ ++G    DP+    FGR AV S +Q +  ++ + E+   Y ++ +K
Sbjct: 77  QIAVSEVKAIDPTYEVGDEYVDPIKLESFGRRAVLSLRQNLASRILDLEKANLYEKYSEK 136

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VGEII+G V +V    V++  D GN + ++ + E I  +  R GD +K+ +  V      
Sbjct: 137 VGEIITGEVYQVWKKEVLILDDEGN-ELILPKTEQIPNDYYRKGDTIKAIVKSVEMNNNQ 195

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P+++LSRT  QF+ +LF  EVPEI++G++ +K + R PG RAK+AV S D  IDPVGACV
Sbjct: 196 PRIILSRTANQFLERLFEQEVPEIFDGLITLKKIVRIPGERAKVAVESYDERIDPVGACV 255

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           GM+GSR+ ++V ELR+E ID+V ++ +    +  AL PA ++ + +DE+     V +  +
Sbjct: 256 GMKGSRIYSIVKELRNENIDVVNYTTNPQLMIQRALNPAKISSITIDEEKKTASVYLKPD 315

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDII--TEEED 347
           Q+SLAIG+ G N+RL+  LTG+ ID+    EEED
Sbjct: 316 QVSLAIGKGGLNIRLSKMLTGYDIDVYREIEEED 349


>gi|298480547|ref|ZP_06998744.1| transcription termination factor NusA [Bacteroides sp. D22]
 gi|295086245|emb|CBK67768.1| transcription termination factor NusA [Bacteroides xylanisolvens
           XB1A]
 gi|298273368|gb|EFI14932.1| transcription termination factor NusA [Bacteroides sp. D22]
          Length = 426

 Score =  233 bits (595), Expect = 5e-59,   Method: Compositional matrix adjust.
 Identities = 127/334 (38%), Positives = 212/334 (63%), Gaps = 5/334 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD  ++R  EVV  E++ N   
Sbjct: 21  KNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDFEIWRNREVVADEDLTNPNM 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QISL  A+  D S + G  V+D +    FGR A+ + +Q +  K+ E E+D  Y ++ DK
Sbjct: 81  QISLSEAQKIDASYEEGEEVTDEVIFAKFGRRAILNLRQTLASKILELEKDSIYNKYIDK 140

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VG II+  V ++    +++  D GN + ++ + E I  +  R G+  ++ +  V  +   
Sbjct: 141 VGTIINAEVYQIWKKEMLLLDDEGN-ELLLPKTEQIPSDFYRKGETARAVVARVDNKNNN 199

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACV
Sbjct: 200 PKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERAKIAVESYDDRIDPVGACV 259

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G++GSR+  +V ELR+E ID++ ++ + + F+  AL PA ++ + L+E+  + EV +  E
Sbjct: 260 GVKGSRIHGIVRELRNENIDVINYTSNISLFIQRALSPAKISSIRLNEEEKKAEVFLKPE 319

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           ++SLAIG+ G N++LAS LT +TID+  E ++++
Sbjct: 320 EVSLAIGKGGLNIKLASMLTEYTIDVFRELDENV 353


>gi|317133695|ref|YP_004093009.1| NusA antitermination factor [Ethanoligenens harbinense YUAN-3]
 gi|315471674|gb|ADU28278.1| NusA antitermination factor [Ethanoligenens harbinense YUAN-3]
          Length = 370

 Score =  233 bits (594), Expect = 5e-59,   Method: Compositional matrix adjust.
 Identities = 141/356 (39%), Positives = 211/356 (59%), Gaps = 11/356 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL- 66
           E     +A+  EK I    +   +A++I  A +  Y T  +  VE++P+     +FR+  
Sbjct: 4   EFFDALEALEKEKGIPEGHLAEKIANAITIAVKHNYKTGDNTIVELDPQK---RIFRVAL 60

Query: 67  --EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
              V E VEN   +I L  A+  DP + IG  V   L    FGR+A Q+AK VI Q +RE
Sbjct: 61  RKTVSETVENPQMEIYLDEAKAIDPRVTIGDTVDIELDTRKFGRIAAQTAKHVIRQGIRE 120

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVE--YGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
            ER+    E   +  E+++  + R++   G+  +D+G ++ V+  +E I  E LR G  V
Sbjct: 121 VEREIIKDESMSRQHEMVTAGISRIDSVTGSAYLDIGRAEAVMPANEQIPGEQLREGQMV 180

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           K Y+ +V+  ++G + L+SRTHP  + +LF +EVPEIY+G V++  ++R+PGSR K+AV 
Sbjct: 181 KVYVVEVKNGEKGVRTLVSRTHPGMIRRLFELEVPEIYDGTVEIMGIAREPGSRTKVAVA 240

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S +  +D +G+C+G +G RV  +V EL  EKID++ ++ D   ++  AL PA V +V  D
Sbjct: 241 SKNEDVDAIGSCIGPKGGRVGNIVEELHGEKIDLIPYAQDIGQYIAAALAPAAVVEVTTD 300

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE---EEDSINRQKDF 355
           E   R  VIVP +QLSLAIG RGQNVRLA++LTGW IDI  E   +ED   RQ + 
Sbjct: 301 EKERRARVIVPDDQLSLAIGNRGQNVRLAAKLTGWRIDIRPESGADEDPQPRQTNM 356


>gi|160883929|ref|ZP_02064932.1| hypothetical protein BACOVA_01903 [Bacteroides ovatus ATCC 8483]
 gi|237720417|ref|ZP_04550898.1| transcription elongation factor NusA [Bacteroides sp. 2_2_4]
 gi|299147096|ref|ZP_07040163.1| transcription termination factor NusA [Bacteroides sp. 3_1_23]
 gi|156110659|gb|EDO12404.1| hypothetical protein BACOVA_01903 [Bacteroides ovatus ATCC 8483]
 gi|229450168|gb|EEO55959.1| transcription elongation factor NusA [Bacteroides sp. 2_2_4]
 gi|298514981|gb|EFI38863.1| transcription termination factor NusA [Bacteroides sp. 3_1_23]
          Length = 431

 Score =  233 bits (594), Expect = 5e-59,   Method: Compositional matrix adjust.
 Identities = 127/334 (38%), Positives = 212/334 (63%), Gaps = 5/334 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD  ++R  EVV  E++ N   
Sbjct: 21  KNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDFEIWRNREVVADEDLTNPNM 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QISL  A+  D S + G  V+D +    FGR A+ + +Q +  K+ E E+D  Y ++ DK
Sbjct: 81  QISLSEAQKIDASYEEGEEVTDEVIFAKFGRRAILNLRQTLASKILELEKDSIYNKYIDK 140

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VG II+  V ++    +++  D GN + ++ + E I  +  R G+  ++ +  V  +   
Sbjct: 141 VGTIINAEVYQIWKKEMLLLDDEGN-ELLLPKTEQIPSDFYRKGETARAVVARVDNKNNN 199

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACV
Sbjct: 200 PKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERAKIAVESYDDRIDPVGACV 259

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G++GSR+  +V ELR+E ID++ ++ + + F+  AL PA ++ + L+E+  + EV +  E
Sbjct: 260 GVKGSRIHGIVRELRNENIDVINYTSNISLFIQRALSPAKISSIRLNEEEKKAEVFLKPE 319

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           ++SLAIG+ G N++LAS LT +TID+  E ++++
Sbjct: 320 EVSLAIGKGGLNIKLASMLTEYTIDVFRELDENV 353


>gi|299142250|ref|ZP_07035383.1| transcription termination factor NusA [Prevotella oris C735]
 gi|298576339|gb|EFI48212.1| transcription termination factor NusA [Prevotella oris C735]
          Length = 421

 Score =  233 bits (594), Expect = 6e-59,   Method: Compositional matrix adjust.
 Identities = 127/328 (38%), Positives = 206/328 (62%), Gaps = 3/328 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYTC 77
           K+IDR  ++SV+ +S +     ++G+  +  V +NP+ GD  ++R   VV   EVE+   
Sbjct: 24  KNIDRTTLVSVLEESFRNVLAKIFGSDENFDVIVNPDKGDFEIYRNRVVVADGEVEDENK 83

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QI+L  A   +P  +IG  VS+ +    FGR A+ + +Q +  K+ E E D  Y ++KD+
Sbjct: 84  QIALGEALKIEPDYEIGEEVSEQVNFAKFGRRAILNLRQTLASKILELEHDTLYNKYKDR 143

Query: 138 VGEIISGTVKRVEYGNV-IVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG+I+SG + ++    V +VD  N++ ++ + E I  +  R G+ +++ I  V  E   P
Sbjct: 144 VGQIVSGEIYQIWKREVLVVDDENNELILPKSEQIPADVYRKGETIRAVILRVDNENNNP 203

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +++LSRT P F+ +L   EVPEI +G++ ++ ++R PG RAK+AV S D  IDPVGACVG
Sbjct: 204 KIILSRTSPMFLERLLEAEVPEINDGLIAIRKIARMPGERAKIAVESFDDRIDPVGACVG 263

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           ++GSRV  +V EL +E +D+V ++ +   F+  AL PA V+ + +DE+  + EV +  E+
Sbjct: 264 VKGSRVHGIVRELCNENLDVVNYTTNINLFIQRALSPARVSSINIDEENHKAEVYLQPEE 323

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +SLAIGR G N++LAS LT +TID+  E
Sbjct: 324 VSLAIGRGGLNIKLASMLTEYTIDVFRE 351


>gi|282879392|ref|ZP_06288135.1| transcription termination factor NusA [Prevotella buccalis ATCC
           35310]
 gi|281298505|gb|EFA90931.1| transcription termination factor NusA [Prevotella buccalis ATCC
           35310]
          Length = 421

 Score =  233 bits (594), Expect = 6e-59,   Method: Compositional matrix adjust.
 Identities = 131/332 (39%), Positives = 208/332 (62%), Gaps = 3/332 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYTC 77
           K+IDR  ++SV+ +S +     +YG+  +  V +NP+ GD  ++R   VV   EV +   
Sbjct: 24  KNIDRATLVSVLEESFRNVLAKIYGSDENFDVIVNPDKGDFEIYRNRIVVPDGEVADENK 83

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +ISLK AR+ +   + G  VS+ +    FGR A+ + +Q +  KV E E D  Y ++KD+
Sbjct: 84  EISLKEAREIEDDYEEGEEVSEQIDFAKFGRRAILNLRQTLKSKVLELEHDSLYNKYKDR 143

Query: 138 VGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG++ISG V ++    V+ VD  N++ ++ + E I  +  R G+ +++ I  V  E   P
Sbjct: 144 VGQVISGEVYQIWKREVLLVDDENNELILPKSEQIPADQYRKGETIRAVILRVDNENNNP 203

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +++LSRT P F+ +L   EVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACVG
Sbjct: 204 KIILSRTSPVFLERLLEAEVPEINDGLISIKKIARMPGERAKVAVESYDDRIDPVGACVG 263

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           ++GSRV  +V EL +E ID++ ++ +   F+  AL PA ++ + LDE+  + EV +  E+
Sbjct: 264 VKGSRVHGIVRELCNENIDVINYTSNIKLFIQRALSPARISSINLDEENRKAEVYLQPEE 323

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           +SLAIGR G N++LAS LT +TID+  E  D+
Sbjct: 324 VSLAIGRGGLNIKLASMLTEFTIDVYREVSDA 355


>gi|260172453|ref|ZP_05758865.1| transcription elongation factor NusA [Bacteroides sp. D2]
 gi|315920747|ref|ZP_07916987.1| transcription elongation factor NusA [Bacteroides sp. D2]
 gi|313694622|gb|EFS31457.1| transcription elongation factor NusA [Bacteroides sp. D2]
          Length = 427

 Score =  233 bits (594), Expect = 6e-59,   Method: Compositional matrix adjust.
 Identities = 127/334 (38%), Positives = 212/334 (63%), Gaps = 5/334 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD  ++R  EVV  E++ N   
Sbjct: 21  KNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDFEIWRNREVVADEDLTNPNM 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QISL  A+  D S + G  V+D +    FGR A+ + +Q +  K+ E E+D  Y ++ DK
Sbjct: 81  QISLSEAQKIDASYEEGEEVTDEVIFAKFGRRAILNLRQTLASKILELEKDSIYNKYIDK 140

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VG II+  V ++    +++  D GN + ++ + E I  +  R G+  ++ +  V  +   
Sbjct: 141 VGTIINAEVYQIWKKEMLLLDDEGN-ELLLPKTEQIPSDFYRKGETARAVVARVDNKNNN 199

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACV
Sbjct: 200 PKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERAKIAVESYDDRIDPVGACV 259

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G++GSR+  +V ELR+E ID++ ++ + + F+  AL PA ++ + L+E+  + EV +  E
Sbjct: 260 GVKGSRIHGIVRELRNENIDVINYTSNISLFIQRALSPAKISSIRLNEEEKKAEVFLKPE 319

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           ++SLAIG+ G N++LAS LT +TID+  E ++++
Sbjct: 320 EVSLAIGKGGLNIKLASMLTEYTIDVFRELDENV 353


>gi|119953577|ref|YP_945787.1| transcription elongation factor NusA [Borrelia turicatae 91E135]
 gi|119862348|gb|AAX18116.1| N utilization substance protein A [Borrelia turicatae 91E135]
          Length = 495

 Score =  233 bits (594), Expect = 6e-59,   Method: Compositional matrix adjust.
 Identities = 124/336 (36%), Positives = 208/336 (61%), Gaps = 7/336 (2%)

Query: 11  QIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE 70
           Q+   +A E+ +  D +   + +SI  A +  +GT  +  ++ + +TGD+ ++   ++VE
Sbjct: 21  QMIANIANERGMSIDAIRKTVRESIMIAYKKYFGTSENALIKFDEDTGDLIVYSKKKIVE 80

Query: 71  EVENYTCQISLKVARDRDPSIDI--GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           EV++      L++ +D     ++   G     + P  F R+++Q AKQ     ++  E +
Sbjct: 81  EVQDDI----LEILKDDSQEFEVMEDGYAYIEIDPKIFDRLSIQVAKQRTKSDLQGIEDN 136

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
             YLEFK K+ +I+ G V++   G++ V+LG++DGVI +     RE     D+V+  +Y 
Sbjct: 137 ELYLEFKHKLHKIVIGYVQQNRNGDLYVNLGSTDGVIPKKYQSPREVYGLNDKVRVLVYS 196

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V++ + G +V+LSRTHP+F+ +L  +E+PEI  G++++  + RDPG R K+AV+S    I
Sbjct: 197 VKKGKNGIEVVLSRTHPKFIEELLTLEIPEIEEGLIKIHKIVRDPGYRTKVAVYSEKEEI 256

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           DPVG C+G +G R+Q+++ EL  EKIDI+ +S D   F+ +AL PA +  V ++DED+ +
Sbjct: 257 DPVGPCIGQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIRDALTPAKIDNVYIVDEDLHK 316

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
             V+V  EQLSLAIG+ GQNVRLA++L  W ID+ T
Sbjct: 317 ALVVVSDEQLSLAIGKMGQNVRLANRLLDWAIDVKT 352


>gi|150024572|ref|YP_001295398.1| transcription elongation factor NusA [Flavobacterium psychrophilum
           JIP02/86]
 gi|149771113|emb|CAL42580.1| Transcription elongation protein NusA [Flavobacterium psychrophilum
           JIP02/86]
          Length = 413

 Score =  233 bits (594), Expect = 6e-59,   Method: Compositional matrix adjust.
 Identities = 122/329 (37%), Positives = 208/329 (63%), Gaps = 3/329 (0%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLF--RLLEVVEEVENYT 76
           +KSIDR  +++++ D  + A +  YG+  +  + INP+ GD+ ++  R++   ++++   
Sbjct: 16  DKSIDRPTLMAILEDVFRNALKKKYGSDDNFDIIINPDKGDMEIWQRRVIVADDDLDLDH 75

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +I+L  AR  +P  +IG  VS+ +  +D GR A+ + +Q +I K+ E +    Y +FKD
Sbjct: 76  LEITLTDARKIEPDFEIGEEVSEEVKLIDLGRRAILALRQNLISKIHEHDNTNLYKQFKD 135

Query: 137 KVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
            +G+I +G V  V    VI VD   ++ ++ +++ I  +  R GD V+  I  V  +   
Sbjct: 136 LIGDIYTGEVHHVRPRVVILVDDEGNEIILPKEKQIPSDFFRKGDNVRGIIESVELKGNK 195

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           PQ+++SRT  +F+ KLF  E+PE+++G++ VK V R PG +AK+AV S D  IDPVGACV
Sbjct: 196 PQIIMSRTSEKFLEKLFEQEIPEVFDGLIMVKNVVRIPGEKAKVAVDSYDDRIDPVGACV 255

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           GM+GSR+  +V EL +E ID++ ++ ++  ++  AL PA V+ + ++E+  R EV +  E
Sbjct: 256 GMKGSRIHGIVRELGNENIDVINYTTNTQLYITRALSPAKVSSIKINEETKRAEVFLKLE 315

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           ++S AIGR G N++LA QLTG+ +D+I E
Sbjct: 316 EVSKAIGRGGHNIKLAGQLTGYELDVIRE 344


>gi|269127538|ref|YP_003300908.1| NusA antitermination factor [Thermomonospora curvata DSM 43183]
 gi|268312496|gb|ACY98870.1| NusA antitermination factor [Thermomonospora curvata DSM 43183]
          Length = 351

 Score =  233 bits (594), Expect = 6e-59,   Method: Compositional matrix adjust.
 Identities = 137/330 (41%), Positives = 199/330 (60%), Gaps = 24/330 (7%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I  ++V   + D++  A     G     RVE++ +TG ++++       E ++    
Sbjct: 10  EKDISLELVAQAIEDALLIAYHRTEGAAPRARVELDRKTGHVTVW-----AAETDDEG-- 62

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
               V R+ D +            P DF R+A  +AKQVI+QK+R+AE +  + E+  + 
Sbjct: 63  ---NVLREYDDT------------PEDFSRIAATTAKQVILQKLRDAEDEVTFGEYAGRE 107

Query: 139 GEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
           G+I+SG +++  +  NV+VDLG  + ++   E +  E+   GDR+++Y+  VR+  RGP 
Sbjct: 108 GDIVSGVIQQGKDPRNVLVDLGRIEAILPPSEQVPGESYEHGDRIRAYVVQVRKGHRGPS 167

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S    ++  GAC+G 
Sbjct: 168 VQLSRTHPNLVRKLFALEVPEIADGTVEIAAIAREAGHRTKIAVRSRKPGVNAKGACIGP 227

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQ 316
            GSRV+ V+ ELR EKIDIV WS D A FV NAL PA V+ V V+DE      VIVP  Q
Sbjct: 228 MGSRVRNVMHELRGEKIDIVDWSEDPAEFVGNALSPARVSSVQVIDEAARTARVIVPDYQ 287

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           LSLAIG+ GQN RLA++LTGW IDI  + E
Sbjct: 288 LSLAIGKEGQNARLAARLTGWRIDIRPDTE 317


>gi|284036133|ref|YP_003386063.1| NusA antitermination factor [Spirosoma linguale DSM 74]
 gi|283815426|gb|ADB37264.1| NusA antitermination factor [Spirosoma linguale DSM 74]
          Length = 414

 Score =  233 bits (594), Expect = 6e-59,   Method: Compositional matrix adjust.
 Identities = 125/335 (37%), Positives = 212/335 (63%), Gaps = 6/335 (1%)

Query: 17  AYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV----EEV 72
           A  K+IDR  +++++ D  +   R  YGT  +  V IN E+GD+ ++R  E+V    E++
Sbjct: 14  ARSKNIDRPTMIAILEDVFRTMIRKKYGTDENFDVIINAESGDLEMWRTREIVDDNSEDI 73

Query: 73  ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYL 132
            +Y  +I L  AR      ++G  V++ +   DFGR  VQ+A+Q +IQK+++ E++  Y 
Sbjct: 74  WDYD-KIPLAEARKIQDDFEVGEQVAEEVKLDDFGRRVVQTARQTLIQKIKDMEKELLYQ 132

Query: 133 EFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV-IRRDETISRENLRPGDRVKSYIYDVRR 191
           ++KD+VG++++  V ++    +I+  G S+ + + R E IS++  R G+ VK+ I  V  
Sbjct: 133 KYKDQVGDLVTAEVYQLLKHEIILVDGESNELSLPRTEQISKDRYRKGEPVKAVISRVDM 192

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPV 251
               P+++LSRT P F+ +LF +EVPEIY+G++ ++ + R+PG RAK+AV S D  IDPV
Sbjct: 193 LNGTPKIVLSRTSPVFLERLFEIEVPEIYDGLISIRKIVREPGERAKVAVESYDDRIDPV 252

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI 311
           GACVGM+GSR+  +V EL +E ID++ ++ +    +  AL PA ++ + +D +  R+ V 
Sbjct: 253 GACVGMKGSRIHGIVRELGNENIDVINYTENLELLISRALSPAKISSMQIDRETKRVSVF 312

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           +  +Q+SLAIG+ GQN++LA +L    ID+  + E
Sbjct: 313 LKPDQVSLAIGKGGQNIKLAGRLVDMEIDVFRDNE 347


>gi|76798057|ref|ZP_00780314.1| transcription termination factor NusA [Streptococcus agalactiae
           18RS21]
 gi|77406370|ref|ZP_00783432.1| transcription termination factor NusA [Streptococcus agalactiae
           H36B]
 gi|77408786|ref|ZP_00785516.1| transcription termination factor NusA [Streptococcus agalactiae
           COH1]
 gi|77411664|ref|ZP_00788004.1| transcription termination factor NusA [Streptococcus agalactiae
           CJB111]
 gi|22533395|gb|AAM99284.1|AE014208_24 N utilization substance protein A [Streptococcus agalactiae
           2603V/R]
 gi|76586616|gb|EAO63117.1| transcription termination factor NusA [Streptococcus agalactiae
           18RS21]
 gi|77162308|gb|EAO73279.1| transcription termination factor NusA [Streptococcus agalactiae
           CJB111]
 gi|77172631|gb|EAO75770.1| transcription termination factor NusA [Streptococcus agalactiae
           COH1]
 gi|77175039|gb|EAO77846.1| transcription termination factor NusA [Streptococcus agalactiae
           H36B]
          Length = 379

 Score =  233 bits (594), Expect = 6e-59,   Method: Compositional matrix adjust.
 Identities = 124/343 (36%), Positives = 203/343 (59%), Gaps = 15/343 (4%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I+++ ++  + +S++ A +  YG      +E N +  D +++ + EVV+EV +   +
Sbjct: 11  EKHINKEDIIDAVTESLKSAYKRRYGQSESCVIEFNEKKADFTVYTVREVVDEVFDSRLE 70

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R   R+  + E+K   
Sbjct: 71  ISLKDALAISSAYELGDKIRFEESVTEFGRVAAQSAKQTIMEKMRRQMREVTFNEYKQHE 130

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
           GEI++GTV+R +   + V+LG+ +  +   + I  E+ +  D +  Y+Y V    +G  V
Sbjct: 131 GEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGESFKSHDMIDVYVYKVENNPKGVNV 190

Query: 199 LLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMR 258
            +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S +S++D +G  VG  
Sbjct: 191 FVSRSHPEFIKRIMEREIPEVFDGTVEIMSVSREAGDRTKVAVRSHNSNVDAIGTIVGRG 250

Query: 259 GSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRPAIVTKVVL-DE 303
           GS ++ V++                 +E ID++ W  D A F+ NA+ PA V  V+  DE
Sbjct: 251 GSNIKKVISNFHPKRVDAKTGLEIPVEENIDVIQWVEDPAEFIYNAIAPAEVDMVLFDDE 310

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 311 DTKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 353


>gi|120434526|ref|YP_956870.1| transcription elongation factor NusA [Gramella forsetii KT0803]
 gi|117576676|emb|CAL65145.1| transcription elongation protein [Gramella forsetii KT0803]
          Length = 410

 Score =  233 bits (594), Expect = 6e-59,   Method: Compositional matrix adjust.
 Identities = 129/335 (38%), Positives = 206/335 (61%), Gaps = 7/335 (2%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYT 76
           +K IDR  +++++ D  + A +  YG   +  + +NP+ GD+ ++R   VV   EVE+  
Sbjct: 16  DKLIDRVTLMAILEDVFRNALKKKYGEDDNFDIIVNPDKGDLEIWRNRIVVADGEVEDDN 75

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +ISL  AR  +P  ++G  VS+ +  +D GR A+ + +Q +I K+ E +    Y +FKD
Sbjct: 76  REISLAQARKIEPDFEVGEDVSEEVKLVDLGRRAILALRQNLISKIHEHDNTNIYKQFKD 135

Query: 137 KVGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
             GEI +  V  + +  +I+  D GN + V+ +D  I  +  R G+ V+  I  V  +  
Sbjct: 136 LEGEIYTAEVHHIRHRAIILLDDEGN-EIVLPKDRQIPSDFFRKGENVRGIIESVELKGN 194

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
            P +++SRT P F+ KLF  E+PE+++G++ +K V R PG +AK+AV S D  IDPVGAC
Sbjct: 195 KPTIIMSRTAPGFLEKLFEQEIPEVFDGLITIKKVVRVPGEKAKVAVDSYDDRIDPVGAC 254

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPK 314
           VGM+GSR+ ++V EL +E ID++ ++ +   F+  AL PA +T + +DE+    EV++  
Sbjct: 255 VGMKGSRIHSIVRELGNENIDVINFTNNEQLFITRALSPAKITSIKMDEEARTAEVMLKP 314

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITE--EED 347
           E++S AIGR G N+RLA QLTG+ ID+  E  EED
Sbjct: 315 EEVSKAIGRGGHNIRLAGQLTGYEIDVYREGVEED 349


>gi|29348812|ref|NP_812315.1| transcription elongation factor NusA [Bacteroides thetaiotaomicron
           VPI-5482]
 gi|253568843|ref|ZP_04846253.1| transcription elongation factor NusA [Bacteroides sp. 1_1_6]
 gi|298387892|ref|ZP_06997441.1| transcription termination factor NusA [Bacteroides sp. 1_1_14]
 gi|29340718|gb|AAO78509.1| putative nitrogen utilization substance protein [Bacteroides
           thetaiotaomicron VPI-5482]
 gi|251840862|gb|EES68943.1| transcription elongation factor NusA [Bacteroides sp. 1_1_6]
 gi|298259299|gb|EFI02174.1| transcription termination factor NusA [Bacteroides sp. 1_1_14]
          Length = 439

 Score =  233 bits (593), Expect = 7e-59,   Method: Compositional matrix adjust.
 Identities = 127/334 (38%), Positives = 212/334 (63%), Gaps = 5/334 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD  ++R  EVV  E++ N   
Sbjct: 21  KNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDFEIWRNREVVADEDLTNPNM 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QISL  A+  D S + G  V+D +    FGR A+ + +Q +  K+ E E+D  Y ++ DK
Sbjct: 81  QISLTEAQKIDASYEEGEEVTDEVIFAKFGRRAILNLRQTLASKILELEKDSIYNKYIDK 140

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VG II+  V ++    +++  D GN + ++ + E I  +  R G+  ++ +  V  +   
Sbjct: 141 VGTIINAEVYQIWKKEMLLLDDEGN-ELLLPKTEQIPSDFYRKGETARAVVARVDNKNNN 199

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACV
Sbjct: 200 PKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERAKIAVESYDDRIDPVGACV 259

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G++GSR+  +V ELR+E ID++ ++ + + F+  AL PA ++ + L+E+  + EV +  E
Sbjct: 260 GVKGSRIHGIVRELRNENIDVINYTSNISLFIQRALSPAKISSIRLNEEEKKAEVFLKPE 319

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           ++SLAIG+ G N++LAS LT +TID+  E ++++
Sbjct: 320 EVSLAIGKGGLNIKLASMLTEYTIDVFRELDENV 353


>gi|149277310|ref|ZP_01883452.1| transcription elongation factor NusA [Pedobacter sp. BAL39]
 gi|149232187|gb|EDM37564.1| transcription elongation factor NusA [Pedobacter sp. BAL39]
          Length = 411

 Score =  233 bits (593), Expect = 7e-59,   Method: Compositional matrix adjust.
 Identities = 123/329 (37%), Positives = 207/329 (62%), Gaps = 5/329 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYTC 77
           K+IDR  V+SV+ +  +   R  YGT  +  V +NP+ GD+ ++R  +V+E+   E+   
Sbjct: 17  KNIDRPTVISVLEEVFRSMLRKKYGTDENCDVIVNPDNGDLEIWRTRKVMEDGFSEDDDL 76

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +I L   +  D  +++G    + +    FGR A+ +A+Q ++ KV E E+D  + ++KD+
Sbjct: 77  EIELAEVKLLDADMEVGDDYIEQITLESFGRRAILAARQTLVSKVLELEKDEIFKKYKDR 136

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VGEI++G V +V     +V  D GN + ++ + E I  +  + GD V++ I  V      
Sbjct: 137 VGEIVTGEVYQVWKKETLVLDDEGN-ELMMPKTEQIPADYFKKGDTVRAVILKVDMVNAT 195

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P++++SR  P F+ +LF +EVPEI++G++ +K + R+PG RAK+AV S D  IDPVGACV
Sbjct: 196 PKIIISRIAPDFLQRLFEIEVPEIFDGLITIKKIVREPGERAKVAVESYDDRIDPVGACV 255

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           GM+GSR+  +V EL++E ID++ ++ + + ++  AL PA +T + LD++     V +  +
Sbjct: 256 GMKGSRIHGIVRELKNENIDVINFTNNISLYITRALSPAKITSIKLDDETKHASVYLKPD 315

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           Q+SLAIGR G N++LA +LTG+ ID+  E
Sbjct: 316 QVSLAIGRGGHNIKLAGKLTGYEIDVYRE 344


>gi|259501585|ref|ZP_05744487.1| N utilization substance protein A [Lactobacillus iners DSM 13335]
 gi|259167103|gb|EEW51598.1| N utilization substance protein A [Lactobacillus iners DSM 13335]
          Length = 374

 Score =  233 bits (593), Expect = 7e-59,   Method: Compositional matrix adjust.
 Identities = 132/341 (38%), Positives = 209/341 (61%), Gaps = 2/341 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL++   A+  +K I ++ ++  +  ++  A +  Y    ++ V  +   G   +  +  
Sbjct: 16  ELIKSFTALEEQKGIKQEEIVDAIKAALIAAYKKNYNQAQNVEVIFDENKGKFIVQAVKT 75

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   Q+SLK A + + + ++G  +   + P +FGR+A Q+AKQVI+Q++REAER
Sbjct: 76  VVDEVQDDRQQVSLKDALEINRAYEVGDEIRFEVTPQNFGRLAAQTAKQVIMQRLREAER 135

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
                E+     E+I+GTV+RV+   V + +GN + V+  ++ +  E  +P DR+K  + 
Sbjct: 136 AHIIEEYSQYQNELITGTVERVDNRFVYIKIGNVEAVMPHNDQMPGEVYKPQDRIKVLVT 195

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V  + +G Q+ +SRT P  + +LF  EVPE+YNG V++ +++R+ G R K+AV SSD +
Sbjct: 196 KVGSDAKGTQITVSRTAPGLVKRLFEQEVPEVYNGTVEIISIAREAGDRTKIAVKSSDPN 255

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE--DV 305
           IDPVG  VG +GSRVQ +V EL  E ID+V +  D + ++ NAL PA V  V   E  D 
Sbjct: 256 IDPVGTLVGPKGSRVQNIVNELSGENIDVVKYEEDPSDYIANALNPAEVIAVQFGEANDD 315

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               VIVP  QLSLAIG++GQNVRLA++LT + IDI  E +
Sbjct: 316 KSALVIVPDYQLSLAIGKKGQNVRLAARLTEYKIDIKPESQ 356


>gi|309804404|ref|ZP_07698478.1| transcription termination factor NusA [Lactobacillus iners LactinV
           11V1-d]
 gi|309807206|ref|ZP_07701180.1| transcription termination factor NusA [Lactobacillus iners LactinV
           03V1-b]
 gi|309808384|ref|ZP_07702285.1| transcription termination factor NusA [Lactobacillus iners LactinV
           01V1-a]
 gi|309809697|ref|ZP_07703552.1| transcription termination factor NusA [Lactobacillus iners SPIN
           2503V10-D]
 gi|312871846|ref|ZP_07731931.1| transcription termination factor NusA [Lactobacillus iners LEAF
           3008A-a]
 gi|312872033|ref|ZP_07732111.1| transcription termination factor NusA [Lactobacillus iners LEAF
           2062A-h1]
 gi|312873348|ref|ZP_07733401.1| transcription termination factor NusA [Lactobacillus iners LEAF
           2052A-d]
 gi|312875707|ref|ZP_07735704.1| transcription termination factor NusA [Lactobacillus iners LEAF
           2053A-b]
 gi|325912466|ref|ZP_08174859.1| transcription termination factor NusA [Lactobacillus iners UPII
           143-D]
 gi|325912547|ref|ZP_08174934.1| transcription termination factor NusA [Lactobacillus iners UPII
           60-B]
 gi|329919859|ref|ZP_08276797.1| transcription termination factor NusA [Lactobacillus iners SPIN
           1401G]
 gi|308163519|gb|EFO65792.1| transcription termination factor NusA [Lactobacillus iners LactinV
           11V1-d]
 gi|308166427|gb|EFO68632.1| transcription termination factor NusA [Lactobacillus iners LactinV
           03V1-b]
 gi|308168369|gb|EFO70486.1| transcription termination factor NusA [Lactobacillus iners LactinV
           01V1-a]
 gi|308169977|gb|EFO72015.1| transcription termination factor NusA [Lactobacillus iners SPIN
           2503V10-D]
 gi|311088772|gb|EFQ47219.1| transcription termination factor NusA [Lactobacillus iners LEAF
           2053A-b]
 gi|311091138|gb|EFQ49529.1| transcription termination factor NusA [Lactobacillus iners LEAF
           2052A-d]
 gi|311092446|gb|EFQ50812.1| transcription termination factor NusA [Lactobacillus iners LEAF
           2062A-h1]
 gi|311092627|gb|EFQ50986.1| transcription termination factor NusA [Lactobacillus iners LEAF
           3008A-a]
 gi|325475713|gb|EGC78886.1| transcription termination factor NusA [Lactobacillus iners UPII
           143-D]
 gi|325478156|gb|EGC81281.1| transcription termination factor NusA [Lactobacillus iners UPII
           60-B]
 gi|328936949|gb|EGG33379.1| transcription termination factor NusA [Lactobacillus iners SPIN
           1401G]
          Length = 362

 Score =  233 bits (593), Expect = 8e-59,   Method: Compositional matrix adjust.
 Identities = 132/341 (38%), Positives = 209/341 (61%), Gaps = 2/341 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL++   A+  +K I ++ ++  +  ++  A +  Y    ++ V  +   G   +  +  
Sbjct: 4   ELIKSFTALEEQKGIKQEEIVDAIKAALIAAYKKNYNQAQNVEVIFDENKGKFIVQAVKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   Q+SLK A + + + ++G  +   + P +FGR+A Q+AKQVI+Q++REAER
Sbjct: 64  VVDEVQDDRQQVSLKDALEINRAYEVGDEIRFEVTPQNFGRLAAQTAKQVIMQRLREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
                E+     E+I+GTV+RV+   V + +GN + V+  ++ +  E  +P DR+K  + 
Sbjct: 124 AHIIEEYSQYQNELITGTVERVDNRFVYIKIGNVEAVMPHNDQMPGEVYKPQDRIKVLVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V  + +G Q+ +SRT P  + +LF  EVPE+YNG V++ +++R+ G R K+AV SSD +
Sbjct: 184 KVGSDAKGTQITVSRTAPGLVKRLFEQEVPEVYNGTVEIISIAREAGDRTKIAVKSSDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE--DV 305
           IDPVG  VG +GSRVQ +V EL  E ID+V +  D + ++ NAL PA V  V   E  D 
Sbjct: 244 IDPVGTLVGPKGSRVQNIVNELSGENIDVVKYEEDPSDYIANALNPAEVIAVQFGEANDD 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               VIVP  QLSLAIG++GQNVRLA++LT + IDI  E +
Sbjct: 304 KSALVIVPDYQLSLAIGKKGQNVRLAARLTEYKIDIKPESQ 344


>gi|77414451|ref|ZP_00790602.1| transcription termination factor NusA [Streptococcus agalactiae
           515]
 gi|77159496|gb|EAO70656.1| transcription termination factor NusA [Streptococcus agalactiae
           515]
          Length = 381

 Score =  233 bits (593), Expect = 8e-59,   Method: Compositional matrix adjust.
 Identities = 124/343 (36%), Positives = 203/343 (59%), Gaps = 15/343 (4%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I+++ ++  + +S++ A +  YG      +E N +  D +++ + EVV+EV +   +
Sbjct: 11  EKHINKEDIIDAVTESLKSAYKRRYGQSESCVIEFNEKKADFTVYTVREVVDEVFDSRLE 70

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R   R+  + E+K   
Sbjct: 71  ISLKDALAISSAYELGDKIRFEESVTEFGRVAAQSAKQTIMEKMRRQMREVTFNEYKQHE 130

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
           GEI++GTV+R +   + V+LG+ +  +   + I  E+ +  D +  Y+Y V    +G  V
Sbjct: 131 GEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGESFKSHDMIDVYVYKVENNPKGVNV 190

Query: 199 LLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMR 258
            +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S +S++D +G  VG  
Sbjct: 191 FVSRSHPEFIKRIMEREIPEVFDGTVEIMSVSREAGDRTKVAVRSHNSNVDAIGTIVGRG 250

Query: 259 GSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRPAIVTKVVL-DE 303
           GS ++ V++                 +E ID++ W  D A F+ NA+ PA V  V+  DE
Sbjct: 251 GSNIKKVISNFHPKRVDAKTGLEIPVEENIDVIQWVEDPAEFIYNAIAPAEVDMVLFDDE 310

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 311 DTKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 353


>gi|300788185|ref|YP_003768476.1| transcription elongation factor NusA [Amycolatopsis mediterranei
           U32]
 gi|299797699|gb|ADJ48074.1| transcription elongation factor NusA [Amycolatopsis mediterranei
           U32]
          Length = 348

 Score =  233 bits (593), Expect = 8e-59,   Method: Compositional matrix adjust.
 Identities = 134/328 (40%), Positives = 201/328 (61%), Gaps = 31/328 (9%)

Query: 23  DRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           D+D+    + ++I+ A  + Y    G  S  R++I+ +TG   L R+L        +T  
Sbjct: 14  DKDIPFETVIEAIETALLTAYKHTEGHQSHARIDIDRKTG---LVRVLA-------HTLT 63

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
              +V  + D +            P  FGR+A  +A+QVI+Q++R+AE ++ + EF  K 
Sbjct: 64  HDGQVDEEWDDT------------PEGFGRIAATTARQVILQRLRDAEHEKTFGEFSTKE 111

Query: 139 GEIISGTVKRVEYGN----VIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           GEI++G ++R    N    V+V +G+++GV+   E ++ E+   G R+K+Y+  V R  R
Sbjct: 112 GEIVAGVIQRDARANARGMVVVQVGDTEGVLPSGEQVAGESYEHGSRIKAYVVTVSRSNR 171

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           GPQ+ LSR+HP  + KLF +EVPEI +G V++ AV+R+PG R K+AV S+   ++  GAC
Sbjct: 172 GPQITLSRSHPNLVRKLFALEVPEIADGTVEIAAVAREPGHRTKIAVKSTVPGVNAKGAC 231

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVP 313
           +G  G+RV+ V++EL  EKIDI+ +S D A FV NAL PA V  V V+DE      V+VP
Sbjct: 232 IGPVGARVRNVMSELAGEKIDIIDFSEDPARFVGNALSPAKVVSVRVVDERAKTARVVVP 291

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 292 DFQLSLAIGKEGQNARLAARLTGWRIDI 319


>gi|302191441|ref|ZP_07267695.1| transcription elongation factor NusA [Lactobacillus iners AB-1]
          Length = 362

 Score =  233 bits (593), Expect = 9e-59,   Method: Compositional matrix adjust.
 Identities = 132/341 (38%), Positives = 209/341 (61%), Gaps = 2/341 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL++   A+  +K I ++ ++  +  ++  A +  Y    ++ V  +   G   +  +  
Sbjct: 4   ELIKSFTALEEQKGIKQEEIVDAIKAALIAAYKKNYNQAQNVEVIFDENKGKFIVQAVKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   Q+SLK A + + + ++G  +   + P +FGR+A Q+AKQVI+Q++REAER
Sbjct: 64  VVDEVQDDRQQVSLKDALEINRAYEVGDEIRFEVTPQNFGRLAAQTAKQVIMQRLREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
                E+     E+I+GTV+RV+   V + +GN + V+  ++ +  E  +P DR+K  + 
Sbjct: 124 AHIIEEYSQYQNELITGTVERVDNRFVYIKIGNVEAVMPHNDQMPGEVYKPQDRIKVLVT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V  + +G Q+ +SRT P  + +LF  EVPE+YNG V++ +++R+ G R K+AV SSD +
Sbjct: 184 KVGSDAKGTQITVSRTAPGLVKRLFEQEVPEVYNGTVEIISIAREAGDRTKIAVKSSDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE--DV 305
           IDPVG  VG +GSRVQ +V EL  E ID+V +  D + ++ NAL PA V  V   E  D 
Sbjct: 244 IDPVGTLVGPKGSRVQNIVNELSGENIDVVKYEEDPSDYIANALNPAEVIAVQFGEANDD 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               VIVP  QLSLAIG++GQNVRLA++LT + IDI  E +
Sbjct: 304 KSALVIVPDYQLSLAIGKKGQNVRLAARLTEYKIDIKPESQ 344


>gi|225016950|ref|ZP_03706142.1| hypothetical protein CLOSTMETH_00865 [Clostridium methylpentosum
           DSM 5476]
 gi|224950264|gb|EEG31473.1| hypothetical protein CLOSTMETH_00865 [Clostridium methylpentosum
           DSM 5476]
          Length = 412

 Score =  233 bits (593), Expect = 9e-59,   Method: Compositional matrix adjust.
 Identities = 136/340 (40%), Positives = 214/340 (62%), Gaps = 3/340 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E     + +A EK I  + ++  ++++I  A +  +G + ++ V I+P T    +  +  
Sbjct: 4   EFFDALEMIAKEKGISMEYLIEKISNAITIAVKKDFGGIENVNVVIDPLTRRYKVSIIKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV EVE+   +I +  A        +G  V   L    FGR+A Q+AK VI Q +REAER
Sbjct: 64  VVREVEDPVNEILIDEALKYSKRAMVGEPVEIKLETKQFGRIAAQTAKHVIRQGIREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVE--YGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ++   +  DKVGE+I+ TV +++   GNVIV++  S+ ++ ++E +  ++L PGD+VK Y
Sbjct: 124 EQMLAQMGDKVGEVITATVSKIDPTNGNVIVEIDKSEVILFKNEQLPTDHLLPGDKVKVY 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + DV   ++   + +SRTH   + +LF +EVPEI++G V+VK++SR+ GSR K+AV+S D
Sbjct: 184 VVDVMASEKRCSLKISRTHKDLVKRLFEIEVPEIFDGTVEVKSISREAGSRTKIAVYSKD 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DP+GAC+G +G RV  ++ EL  EKID+V +S D A F+  AL PA V +V L +D 
Sbjct: 244 ENVDPIGACIGPKGMRVGNIIDELGGEKIDVVKYSEDPAKFIAEALSPATVVEVQLSDDG 303

Query: 306 GRIEVI-VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            +I  + VP  QLSLAIG +GQN +LA++LTG+ IDI  E
Sbjct: 304 EKIAFVSVPDHQLSLAIGNKGQNAKLAARLTGYKIDISPE 343


>gi|325686965|gb|EGD28989.1| N utilization substance protein A [Streptococcus sanguinis SK72]
          Length = 420

 Score =  232 bits (591), Expect = 1e-58,   Method: Compositional matrix adjust.
 Identities = 143/423 (33%), Positives = 233/423 (55%), Gaps = 28/423 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ + E
Sbjct: 6   EMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTVRE 65

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 66  VVDEVFDSRLEISLKDALTISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 125

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ ++Y
Sbjct: 126 AITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVFVY 185

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S + +
Sbjct: 186 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHNPN 245

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 246 VDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAIAP 305

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
           A V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E      
Sbjct: 306 AEVDQVIFNQEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDIKSATE--FEEM 363

Query: 353 KDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGR 412
           +  NE   F  +A   +EI+A   V E          V  +E    +   EET +E  G 
Sbjct: 364 EAANELGGFAQEA---EEILADAAVLE--------TEVSGAEATDFDAVAEETVLETVGL 412

Query: 413 ARE 415
            RE
Sbjct: 413 ERE 415


>gi|315653432|ref|ZP_07906354.1| transcription elongation factor NusA [Lactobacillus iners ATCC
           55195]
 gi|315489357|gb|EFU78997.1| transcription elongation factor NusA [Lactobacillus iners ATCC
           55195]
          Length = 374

 Score =  232 bits (591), Expect = 1e-58,   Method: Compositional matrix adjust.
 Identities = 132/341 (38%), Positives = 208/341 (60%), Gaps = 2/341 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL++   A+  +K I ++ ++  +  ++  A +  Y    ++ V  +   G   +  +  
Sbjct: 16  ELIKSFTALEEQKGIKQEEIVDAIKAALIAAYKKNYNQAQNVEVIFDENKGKFIVQAVKT 75

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV++   Q+SLK A + + + ++G  +   + P +FGR+A Q+AKQVI+Q++REAER
Sbjct: 76  VVDEVQDDRQQVSLKDALEINRAYEVGDEIRFEVTPQNFGRLAAQTAKQVIMQRLREAER 135

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
                E+     E+I+GTV+RV+   V + +GN + V+  ++ +  E  +P DR+K  + 
Sbjct: 136 AHIIEEYSQYQNELITGTVERVDNRFVYIKIGNVEAVMPHNDQMPGEVYKPQDRIKVLVT 195

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V  + +G Q+ +SRT P  + +LF  EVPE+YNG V++ +++R+ G R K+AV SSD  
Sbjct: 196 KVGSDAKGTQITVSRTAPGLVKRLFEQEVPEVYNGTVEIISIAREAGDRTKIAVKSSDPD 255

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE--DV 305
           IDPVG  VG +GSRVQ +V EL  E ID+V +  D + ++ NAL PA V  V   E  D 
Sbjct: 256 IDPVGTLVGPKGSRVQNIVNELSGENIDVVKYEEDPSDYIANALNPAEVIAVQFGEANDD 315

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               VIVP  QLSLAIG++GQNVRLA++LT + IDI  E +
Sbjct: 316 KSALVIVPDYQLSLAIGKKGQNVRLAARLTEYKIDIKPESQ 356


>gi|153809150|ref|ZP_01961818.1| hypothetical protein BACCAC_03460 [Bacteroides caccae ATCC 43185]
 gi|149128126|gb|EDM19346.1| hypothetical protein BACCAC_03460 [Bacteroides caccae ATCC 43185]
          Length = 430

 Score =  231 bits (590), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 126/334 (37%), Positives = 212/334 (63%), Gaps = 5/334 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD  ++R  EVV  E++ N   
Sbjct: 21  KNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDFEIWRNREVVADEDLTNPNM 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QI+L  A+  D S + G  V+D +    FGR A+ + +Q +  K+ E E+D  Y ++ DK
Sbjct: 81  QIALSEAQKIDASYEEGEEVTDEVIFAKFGRRAILNLRQTLASKILELEKDSIYNKYIDK 140

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VG II+  V ++    +++  D GN + ++ + E I  +  R G+  ++ +  V  +   
Sbjct: 141 VGTIINAEVYQIWKKEMLLLDDEGN-ELLLPKTEQIPSDFYRKGETARAVVARVDNKNNN 199

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACV
Sbjct: 200 PKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERAKIAVESYDDRIDPVGACV 259

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G++GSR+  +V ELR+E ID++ ++ + + F+  AL PA ++ + L+E+  + EV +  E
Sbjct: 260 GVKGSRIHGIVRELRNENIDVINYTSNISLFIQRALSPAKISSIRLNEEEKKAEVFLKPE 319

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           ++SLAIG+ G N++LAS LT +TID+  E ++++
Sbjct: 320 EVSLAIGKGGLNIKLASMLTEYTIDVFRELDENV 353


>gi|312194982|ref|YP_004015043.1| transcription termination factor NusA [Frankia sp. EuI1c]
 gi|311226318|gb|ADP79173.1| transcription termination factor NusA [Frankia sp. EuI1c]
          Length = 391

 Score =  231 bits (590), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 124/249 (49%), Positives = 170/249 (68%), Gaps = 5/249 (2%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEY--GN--VIVDL 158
           P DFGR+A  +AKQVI+Q++REA+++  Y ++ D+  EI+SG V+  E   G+  V+VDL
Sbjct: 85  PADFGRIAQATAKQVIMQRLREAKQEVTYGQYADREHEIVSGVVQHHEQRAGSRVVLVDL 144

Query: 159 GNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPE 218
           G  +GV+   E +  E L  GDR+K Y+  V R   G  V LSRTHP+ +  LF +EVPE
Sbjct: 145 GTIEGVLPPAEQVPGETLEHGDRIKCYVVHVARGPHGAAVTLSRTHPELVKGLFRLEVPE 204

Query: 219 IYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           + +G V++ A++R+ G R+K+AV S  + ++P GAC+G  GSRV+AV+ EL  EKIDIV 
Sbjct: 205 VADGTVEIAAIAREAGHRSKIAVRSKVAGVNPKGACIGPMGSRVRAVMAELHGEKIDIVD 264

Query: 279 WSPDSATFVINALRPAIVTKVVLDEDVGR-IEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           WS D ATFV NAL PA V++V + +  GR   V VP  QLSLAIGR GQN RLA++LT W
Sbjct: 265 WSADPATFVGNALSPARVSRVEVTDLAGRAARVTVPDYQLSLAIGREGQNARLAARLTSW 324

Query: 338 TIDIITEEE 346
            IDI ++ E
Sbjct: 325 RIDIHSDTE 333


>gi|332358012|gb|EGJ35845.1| N utilization substance protein A [Streptococcus sanguinis SK1056]
          Length = 420

 Score =  231 bits (590), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 141/419 (33%), Positives = 231/419 (55%), Gaps = 28/419 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ + E
Sbjct: 6   EMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTVRE 65

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 66  VVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 125

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ ++Y
Sbjct: 126 AITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVFVY 185

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S + +
Sbjct: 186 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHNPN 245

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 246 VDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAIAP 305

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
           A V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E      
Sbjct: 306 AEVDQVIFNQEDNKRALVVVPDSKLSLAIGRRGQNVRLAAHLTGFRIDIKSATE--FEEM 363

Query: 353 KDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           +  NE   F  +A   +EI+    V E          V  +E    +   EET +EI G
Sbjct: 364 EAANELGGFAQEA---EEILGDAAVLE--------TEVSAAEATDFDAVAEETVLEIAG 411


>gi|325695172|gb|EGD37073.1| N utilization substance protein A [Streptococcus sanguinis SK150]
          Length = 420

 Score =  231 bits (590), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 144/419 (34%), Positives = 233/419 (55%), Gaps = 28/419 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ + E
Sbjct: 6   EMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTVRE 65

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 66  VVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 125

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ ++Y
Sbjct: 126 AITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVFVY 185

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S + +
Sbjct: 186 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHNPN 245

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 246 VDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAIAP 305

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
           A V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E      
Sbjct: 306 AEVDQVIFNQEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDIKSATE--FEEM 363

Query: 353 KDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           +  NE   F  +A   +EI+A        ADV E   V  +E    +   EET VE  G
Sbjct: 364 EAANELGGFAQEA---EEILAD-------ADVLETE-VSAAEATDFDAAAEETVVETAG 411


>gi|332364628|gb|EGJ42397.1| N utilization substance protein A [Streptococcus sanguinis SK1059]
          Length = 420

 Score =  231 bits (590), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 141/419 (33%), Positives = 231/419 (55%), Gaps = 28/419 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ + E
Sbjct: 6   EMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTVRE 65

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 66  VVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 125

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ ++Y
Sbjct: 126 AITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVFVY 185

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S + +
Sbjct: 186 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHNPN 245

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 246 VDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAIAP 305

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
           A V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E      
Sbjct: 306 AEVDQVIFNQEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDIKSATE--FEEM 363

Query: 353 KDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           +  NE   F  +A   +EI+A   V E          V  +E    +   EET +E  G
Sbjct: 364 EAANELGGFAQEA---EEILADAAVLE--------TEVSAAEATDFDAAAEETVLETAG 411


>gi|313158663|gb|EFR58052.1| transcription termination factor NusA [Alistipes sp. HGB5]
          Length = 410

 Score =  231 bits (590), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 128/333 (38%), Positives = 206/333 (61%), Gaps = 5/333 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYTC 77
           K+ID+  ++ V+ D  + A +  Y T  +  V INPE GD+ ++R   VVE+  VE+   
Sbjct: 17  KNIDKSTMIGVLEDVFRHALQKQYETDENFDVIINPEKGDLEIWRNRTVVEDGAVEDPNA 76

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QI++   +  DP+ +IG   +D +    FGR AV S +Q +  ++ + E+   Y ++ +K
Sbjct: 77  QIAVSEVKAIDPTYEIGDEYADEIKLSSFGRRAVLSLRQNLASRILDLEKASLYEKYSEK 136

Query: 138 VGEIISGTVKRVEYGNV-IVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VGEI++G V +V    V I+D   ++ ++ + E I  +  R GD +K+ +  V      P
Sbjct: 137 VGEIVTGEVYQVWKKEVLILDDEENELILPKAEQIPNDFYRKGDTIKAIVKSVEMNNNQP 196

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +++LSRT  QF+ +LF  EVPEI++G++ +K + R PG RAK+AV S D  IDPVGACVG
Sbjct: 197 RIILSRTANQFLERLFEQEVPEIFDGLITIKKIVRIPGERAKVAVESYDERIDPVGACVG 256

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           M+GSR+ ++V ELR+E ID+V ++ + +  +  AL PA ++ + +DE+     V +  +Q
Sbjct: 257 MKGSRIYSIVKELRNENIDVVNYTANPSLMIQRALNPAKISSITIDEEKMTASVYLKPDQ 316

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDII--TEEED 347
           +SLAIG+ G N+RL+  LTG+ ID+    EEED
Sbjct: 317 VSLAIGKGGLNIRLSKMLTGYDIDVYREVEEED 349


>gi|325280551|ref|YP_004253093.1| NusA antitermination factor [Odoribacter splanchnicus DSM 20712]
 gi|324312360|gb|ADY32913.1| NusA antitermination factor [Odoribacter splanchnicus DSM 20712]
          Length = 412

 Score =  231 bits (590), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 128/329 (38%), Positives = 203/329 (61%), Gaps = 5/329 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYTC 77
           K+IDR  ++ V+ D  +      YGT  +  + IN + GD+ ++R   VVE+  +EN   
Sbjct: 17  KNIDRATLMRVLEDIFRNMLLKRYGTDENFDIIINIDKGDLEIWRNRTVVEDDKLENPNS 76

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +I+L  A+  D   ++G  V+D +   DFGR +V + +Q +  ++ E E+D  Y ++KDK
Sbjct: 77  EITLTEAKKIDEDYELGEEVTDEVKFKDFGRRSVLALRQNLSARILELEKDNVYNKYKDK 136

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VG+II G V +V    ++V  D GN + ++ + E I  +  + GD +K+ +  V      
Sbjct: 137 VGQIILGEVYQVWKKEMLVLDDEGN-ELILPKQEQIPTDFFKKGDSIKAVVIRVEMRNSN 195

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P ++LSRT P F+ +LF  EVPEI++G++ +K V R PG RAK+AV S D  IDPVGACV
Sbjct: 196 PYIILSRTSPVFLERLFENEVPEIFDGLITIKNVVRVPGERAKVAVESYDDRIDPVGACV 255

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           GM+GSR+  +V ELR+E ID++ ++ +   ++  AL PA +  + +DE   +  V +  E
Sbjct: 256 GMKGSRIHGIVRELRNENIDVINYTNNLQLYITRALNPAKIKNIEIDEAHKKANVYLDPE 315

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           ++SLAIG+ G N++LASQLTG+ ID+  E
Sbjct: 316 EVSLAIGKGGLNIKLASQLTGYDIDVYRE 344


>gi|268608287|ref|ZP_06142014.1| NusA antitermination factor [Ruminococcus flavefaciens FD-1]
          Length = 416

 Score =  231 bits (590), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 132/337 (39%), Positives = 204/337 (60%), Gaps = 4/337 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD-IRVEINPETGDISLFRLLE 67
             +  +++  E S++ D+++  +  ++ KAA+  Y    D IRVEI+P+T    +F + +
Sbjct: 7   FFKALESLGEENSVETDLLIEKVKSAMLKAAKRAYPHSEDRIRVEIDPKTKKFEMFIVQD 66

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           ++++      ++++ VAR  DP+  +GG +   +     GR+A  SAKQ I   +RE  R
Sbjct: 67  IIDDYPIDENEVNIDVARTIDPNAIVGGTILKEIDISKLGRMAALSAKQSIKGDLREINR 126

Query: 128 DRQYLEFKDKVGEIISGTVKRVE--YGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ++   +F+ K  E I+  V +VE   G V V    ++  + R+E I  E L  G  VK Y
Sbjct: 127 EQMLGKFEQKEHECITAKVSQVEPGRGTVTVVYEGTELYLFRNEQIPGETLEEGQSVKVY 186

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  +  + + P V +SRTH   + +LF +EVPEIY+G V+VK++SR+ GSR K+AV+S D
Sbjct: 187 ITGIIGKNKKPVVKISRTHKDLVKRLFELEVPEIYDGTVEVKSISREAGSRTKIAVWSKD 246

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK-VVLDED 304
            ++D VGAC+G + SR+ A+V EL  EKIDI+ WS  +  F+  AL PA V K +V  E+
Sbjct: 247 PNVDAVGACIGAKRSRITAIVNELNGEKIDIIPWSEKTEEFIARALAPAEVLKTIVTSEE 306

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
                VIVP  QLSLAIG +GQN +LA++LTG+ IDI
Sbjct: 307 ENTCTVIVPNNQLSLAIGNKGQNAKLAAKLTGFKIDI 343


>gi|322386001|ref|ZP_08059641.1| transcription elongation factor NusA [Streptococcus cristatus ATCC
           51100]
 gi|321269984|gb|EFX52904.1| transcription elongation factor NusA [Streptococcus cristatus ATCC
           51100]
          Length = 413

 Score =  231 bits (590), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 126/354 (35%), Positives = 207/354 (58%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG      +E N +TGD  ++ + E
Sbjct: 6   EMLEAFRILEEDKGIKKEDIIEAVTESLRSAYRRRYGQADSAAIEFNEKTGDFHVYTVRE 65

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 66  VVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 125

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ ++Y
Sbjct: 126 AITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVFVY 185

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S + +
Sbjct: 186 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHNPN 245

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A ++ NA+ P
Sbjct: 246 VDAIGTIVGRGGANIKKITSKFHPAKYDAKSGRMIPTEENIDVIEWVSDPAEYIYNAIAP 305

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V +V+   ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 306 AEVDQVIFHAEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDIKSASE 359


>gi|254302278|ref|ZP_04969636.1| N utilization substance protein A [Fusobacterium nucleatum subsp.
           polymorphum ATCC 10953]
 gi|148322470|gb|EDK87720.1| N utilization substance protein A [Fusobacterium nucleatum subsp.
           polymorphum ATCC 10953]
          Length = 357

 Score =  231 bits (589), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 132/355 (37%), Positives = 220/355 (61%), Gaps = 7/355 (1%)

Query: 3   SANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISL 62
           S N LE L   D +  EK I ++ VL  +  ++  A +  YG   ++ V ++ E GDI +
Sbjct: 6   SKNFLEAL---DELEREKGISKESVLEAIELALLAAYKKNYGEDENVEVVVDRENGDIKV 62

Query: 63  F--RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           F  +++   +E+ +   +ISL+ A+     I +G  +   +   DF R AVQ+ KQ++IQ
Sbjct: 63  FASKIIVNTDELLDPNKEISLEDAKQIKKRIKVGDTLKFEVNCEDFRRNAVQNGKQIVIQ 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPG 179
           KVREAER+  + +FK++   I++G ++R++   N+ +++   + ++   E    +  R G
Sbjct: 123 KVREAEREHIFNKFKEREDSIVTGIIRRIDNRKNIFIEIDGIELILPPAEQSVSDVYRVG 182

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           +R+K Y+  V +  + P++L+SR +   + KLF +E+PEI +GI+++K+V+R+ GSRAK+
Sbjct: 183 ERIKVYVLSVEKTNKFPKILISRKNEGLLKKLFEIEIPEITSGIIEIKSVAREAGSRAKV 242

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV+S   +ID VGAC+G RG+R++ +V EL  E+IDIV W P    FV   L PA+V+ V
Sbjct: 243 AVYSEVPNIDTVGACIGQRGARIKNIVDELNGERIDIVEWKPVVEEFVSAVLSPAVVSNV 302

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
            + ED G   V+V   QLSLAIG+ GQN RLA++LTG  +DI   E +++  +++
Sbjct: 303 TILED-GTARVLVAPSQLSLAIGKNGQNARLAARLTGMRVDIKVIENETLKEEEN 356


>gi|159036964|ref|YP_001536217.1| transcription elongation factor NusA [Salinispora arenicola
           CNS-205]
 gi|157915799|gb|ABV97226.1| NusA antitermination factor [Salinispora arenicola CNS-205]
          Length = 347

 Score =  231 bits (589), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 140/340 (41%), Positives = 202/340 (59%), Gaps = 29/340 (8%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  E+ I  D +L+ +  ++  A R   G     RVEI+ +TG                
Sbjct: 10  ALEREREIPFDTILAAIETALLTAYRHTEGAQPHARVEIDRKTG---------------- 53

Query: 75  YTCQISLKVARDRDPSIDIGGVVSD-PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
               ++L  A++ D     GGVV +    P DFGR+A  +AKQVI+Q++REA  +  + E
Sbjct: 54  ----VALVYAQEMDAD---GGVVREWDDTPHDFGRIAAMTAKQVILQRLREATDEVHFGE 106

Query: 134 FKDKVGEIISGTVK----RVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDV 189
           +  + G++++G V+    R E G V VDLG  +GV+ + E +  E    G+RV+  +  V
Sbjct: 107 YVGRDGDLVTGVVQAHEARAEKGIVSVDLGKLEGVLPQSEQVPGEQYAHGERVRCVVVHV 166

Query: 190 RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSID 249
            +  RGPQV LSR+HP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ + ++
Sbjct: 167 AKGVRGPQVTLSRSHPALVKKLFALEVPEIADGTVEITAIAREAGHRTKIAVRSTAAGVN 226

Query: 250 PVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRI 308
             GAC+G  G RV+AV++EL  EKIDI+ WS D ATFV NAL PA   +V V+D      
Sbjct: 227 AKGACIGPMGQRVRAVMSELHGEKIDIIDWSEDPATFVGNALSPAKALRVDVVDLASRTA 286

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
            V VP  QLSLAIGR GQN RLA++LTGW IDI ++ E +
Sbjct: 287 RVTVPDFQLSLAIGREGQNARLAARLTGWRIDIRSDVEPA 326


>gi|324994121|gb|EGC26035.1| N utilization substance protein A [Streptococcus sanguinis SK678]
          Length = 420

 Score =  231 bits (589), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 141/419 (33%), Positives = 231/419 (55%), Gaps = 28/419 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ + E
Sbjct: 6   EMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTVRE 65

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 66  VVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 125

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ ++Y
Sbjct: 126 AITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVFVY 185

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S + +
Sbjct: 186 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHNPN 245

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 246 VDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAIAP 305

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
           A V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E      
Sbjct: 306 AEVDQVIFNQEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDIKSATE--FEEM 363

Query: 353 KDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           +  NE   F  +A   +EI+A   V E          V  +E    +   EET +E  G
Sbjct: 364 EAANELGGFAQEA---EEILADAAVLE--------TEVSAAEATDFDAAAEETVLETAG 411


>gi|332362937|gb|EGJ40726.1| N utilization substance protein A [Streptococcus sanguinis SK49]
          Length = 420

 Score =  231 bits (589), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 143/419 (34%), Positives = 233/419 (55%), Gaps = 28/419 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ + E
Sbjct: 6   EMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTVRE 65

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 66  VVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPTEFGRVAAQSAKQTIMEKMRKQTR 125

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ ++Y
Sbjct: 126 AITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVFVY 185

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S + +
Sbjct: 186 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHNPN 245

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 246 VDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAIAP 305

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
           A V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E      
Sbjct: 306 AEVDQVIFNQEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDIKSATE--FEEM 363

Query: 353 KDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           +  NE   F  +A   +EI+A        ADV E   V  +E    +   EET +E  G
Sbjct: 364 EAANELGGFAQEA---EEILAD-------ADVLETE-VSAAEATDFDAAAEETVLETAG 411


>gi|327472754|gb|EGF18181.1| N utilization substance protein A [Streptococcus sanguinis SK408]
          Length = 420

 Score =  231 bits (588), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 143/419 (34%), Positives = 233/419 (55%), Gaps = 28/419 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ + E
Sbjct: 6   EMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTVRE 65

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 66  VVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 125

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ ++Y
Sbjct: 126 AITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVFVY 185

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S + +
Sbjct: 186 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHNPN 245

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 246 VDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAIAP 305

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
           A V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E      
Sbjct: 306 AEVDQVIFNQEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDIKSATE--FEEM 363

Query: 353 KDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           +  NE   F  +A   +EI+A        ADV E   V  +E    +   EET +E  G
Sbjct: 364 EAANELGGFAQEA---EEILAD-------ADVLETE-VSAAEATDFDAVAEETVLETAG 411


>gi|298206855|ref|YP_003715034.1| transcription elongation factor NusA [Croceibacter atlanticus
           HTCC2559]
 gi|83849489|gb|EAP87357.1| transcription elongation factor NusA [Croceibacter atlanticus
           HTCC2559]
          Length = 410

 Score =  231 bits (588), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 130/335 (38%), Positives = 207/335 (61%), Gaps = 7/335 (2%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYT 76
           +K IDR  +++++ +  + A +  +G   +  + INP+ GD+ ++R   VVE+  VE+  
Sbjct: 16  DKLIDRVTLMAILEEVFRSALKRKFGEDDNFDIIINPDKGDLEIWRNRVVVEDGMVEDDN 75

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +ISL  AR  +P  ++G  VS+ +  +D GR A+ + +Q +I K+ E +    Y +FK+
Sbjct: 76  SEISLTQARKIEPDFEVGEDVSEEVKLIDLGRRAILALRQNLIAKIHEHDNTNIYNQFKE 135

Query: 137 KVGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
            +GE+ S  V  + +  VI+  D GN + ++ +D  I  +  R G+ V+  I  V  +  
Sbjct: 136 LIGEMYSAEVHHIRHRVVILLDDEGN-ELIMPKDRQIPSDFFRKGESVRGVIESVELKGN 194

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
            P ++ SRT P F+ KLF  E+PE+++G++QVK V R PG +AK+AV S D  IDPVGAC
Sbjct: 195 KPAIIFSRTSPLFLEKLFEQEIPEVFDGLIQVKKVVRIPGEKAKVAVDSYDDRIDPVGAC 254

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPK 314
           VG++GSR+  +V EL +E ID++ ++ +    +  AL PA VT V L+ +  R EV++  
Sbjct: 255 VGVKGSRIHGIVRELGNENIDVINYTSNDQLLINRALSPARVTSVKLNSETMRAEVMLKP 314

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITE--EED 347
           E++S AIGR G N+RLASQLTG+ ID+  E  EED
Sbjct: 315 EEVSKAIGRGGHNIRLASQLTGYEIDVFREGVEED 349


>gi|332366408|gb|EGJ44159.1| N utilization substance protein A [Streptococcus sanguinis SK355]
          Length = 417

 Score =  231 bits (588), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 124/349 (35%), Positives = 207/349 (59%), Gaps = 15/349 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG    + +E + ++GD  ++ + E
Sbjct: 6   EMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSVAIEFDEKSGDFRVYTVRE 65

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 66  VVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 125

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ ++Y
Sbjct: 126 AITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVFVY 185

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S + +
Sbjct: 186 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHNPN 245

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 246 VDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAIAP 305

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           A V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI
Sbjct: 306 AEVDQVIFNEEDNKRALVVVPDSKLSLAIGRRGQNVRLAAHLTGFRIDI 354


>gi|324991725|gb|EGC23657.1| N utilization substance protein A [Streptococcus sanguinis SK353]
          Length = 420

 Score =  231 bits (588), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 140/419 (33%), Positives = 231/419 (55%), Gaps = 28/419 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ + E
Sbjct: 6   EMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTVRE 65

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 66  VVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 125

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + ++LG+ +  + + + I  E     DR++ ++Y
Sbjct: 126 AITYNTYKEHENEIMSGTVERFDNRFIYINLGSIEAQLSKQDQIPGEVFASHDRIEVFVY 185

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S + +
Sbjct: 186 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHNPN 245

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 246 VDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAIAP 305

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
           A V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E      
Sbjct: 306 AEVDQVIFNQEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDIKSATE--FEEM 363

Query: 353 KDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           +  NE   F  +A   +EI+A   V E          V  +E    +   EET +E  G
Sbjct: 364 EAANELGGFAQEA---EEILADAAVLE--------TEVSAAEATDFDAAAEETVLETAG 411


>gi|225619365|ref|YP_002720591.1| transcription elongation factor NusA [Brachyspira hyodysenteriae
           WA1]
 gi|225214184|gb|ACN82918.1| putative transcription elongation factor NusA [Brachyspira
           hyodysenteriae WA1]
          Length = 496

 Score =  231 bits (588), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 150/472 (31%), Positives = 259/472 (54%), Gaps = 64/472 (13%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPET-GDISLFRLLE 67
           L Q++D    EK I  +++  V+A +++ A +  YG   DI+  I+ +   + ++++   
Sbjct: 9   LQQLSD----EKDISVELLKEVIASTMELALKKKYG--DDIKFHIHFDNKNNPTVYKGAS 62

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMD-FGRVAVQSAKQVIIQKVREAE 126
           VVEEV N   +ISL+ A+  D  I++G  V   +  ++ FGR+    A+    QK+ E E
Sbjct: 63  VVEEVRNKNKEISLEEAKKLDQDINLGDEVLILVDQVEAFGRIESTVARTAFFQKISELE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           ++  Y EFK +  ++++G  +R   G + ++LG ++G +++ +   RE+   GDR+++YI
Sbjct: 123 KNIIYNEFKRRENQLVNGYFQREHRGTIYINLGKTEGELQKKDQSPREHYTVGDRIRAYI 182

Query: 187 YDVR--REQRGPQV----LLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           Y V+  ++++G ++    LL+RT P F+ KLF +E+PEI +G +++K V R PG + K+A
Sbjct: 183 YKVQGGKDEKGKEIHTKILLTRTKPDFIKKLFELEIPEIADGTIEIKNVVRQPGLKIKVA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+   +DP+GAC+G +G R+Q+++ E+  EKID+V WS D   ++  A+ PA   +++
Sbjct: 243 VASNKPEVDPIGACIGQKGIRIQSIIKEIEGEKIDVVKWSKDIREYIAEAITPAKPIRII 302

Query: 301 L-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           + D +     +I+P EQLSLA+G+ G NV+LASQLTG+  DI TE         D  E  
Sbjct: 303 ITDPEKKEAMIIIPDEQLSLALGKSGYNVKLASQLTGYYFDIKTE--------TDIKENP 354

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           +     + +++I         F+D  E                     E+Q  A E LE 
Sbjct: 355 ELLKDIVPLNQI---------FSDNTE---------------------EVQA-ADEELET 383

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
            ++              L S+ GID  I   L +N I ++E+L   SV+D++
Sbjct: 384 AEV----------FESNLYSLQGIDEAIIKTLIDNNINSIEELYNMSVEDIM 425


>gi|332878281|ref|ZP_08446007.1| transcription termination factor NusA [Capnocytophaga sp. oral
           taxon 329 str. F0087]
 gi|332683732|gb|EGJ56603.1| transcription termination factor NusA [Capnocytophaga sp. oral
           taxon 329 str. F0087]
          Length = 410

 Score =  231 bits (588), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 125/344 (36%), Positives = 209/344 (60%), Gaps = 5/344 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N LEL++       +K I+R+ +++++ +  +   +  YG+  +  + INP+ GD+ +FR
Sbjct: 2   NSLELIESFSEFKDDKLINRETLMAILEEVFRNTLKKKYGSDDNFDIIINPDKGDLQIFR 61

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VVE+  V N   +I+L VAR  +P  ++G  VS+ +   D GR A+ + +Q +I K+
Sbjct: 62  NRIVVEDGAVTNDNQEIALSVARKIEPDFEVGEDVSEEIKINDLGRRAILALRQNLISKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGD 180
            E +    Y  FKD +G+I+   +  + +  +I+  D GN + ++ +++ I  +  + G+
Sbjct: 122 HEYDSTTIYRRFKDLIGQIVVAEIHHIRHKAIILLDDEGN-EIILPKEKQIPSDFFKKGE 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            V+  I  V  +   P +++SRT P F+ +LF  E+PEI +GI+ V  V R PG +AK+A
Sbjct: 181 HVRGIIESVELKSTKPTIIMSRTSPIFLQRLFEQEIPEIADGIITVNKVVRIPGEKAKVA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S D  ID VGACVG+RG+R+  +V EL +E ID++ ++ + +  +  AL PA VT V 
Sbjct: 241 VDSFDERIDAVGACVGVRGARIHGIVRELGNENIDVIPFTNNVSLLITRALAPAHVTSVT 300

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           L+E+  R +V +P E++S AIG+ G N+RLASQLTG+ ID+  E
Sbjct: 301 LNEEEKRADVFLPNEEVSKAIGKSGYNIRLASQLTGYEIDVYRE 344


>gi|328944976|gb|EGG39133.1| N utilization substance protein A [Streptococcus sanguinis SK1087]
          Length = 420

 Score =  231 bits (588), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 141/419 (33%), Positives = 231/419 (55%), Gaps = 28/419 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ + E
Sbjct: 6   EMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTVRE 65

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 66  VVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 125

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ ++Y
Sbjct: 126 AITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVFVY 185

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S + +
Sbjct: 186 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHNPN 245

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 246 VDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAIAP 305

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
           A V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E      
Sbjct: 306 AEVDQVIFNQEDNKRALVVVPDSKLSLAIGRRGQNVRLAAHLTGFRIDIKSATE--FEEM 363

Query: 353 KDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           +  NE   F  +A   +EI+A   V E          V  +E    +   EET +E  G
Sbjct: 364 EAANELGGFAQEA---EEILADAAVLE--------TEVSAAEATDFDAAAEETILETAG 411


>gi|325688733|gb|EGD30742.1| N utilization substance protein A [Streptococcus sanguinis SK115]
          Length = 420

 Score =  231 bits (588), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 143/419 (34%), Positives = 233/419 (55%), Gaps = 28/419 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ + E
Sbjct: 6   EMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTVRE 65

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 66  VVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 125

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ ++Y
Sbjct: 126 AITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVFVY 185

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S + +
Sbjct: 186 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHNPN 245

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 246 VDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAIAP 305

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
           A V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E      
Sbjct: 306 AEVDQVIFNQEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDIKSATE--FEEM 363

Query: 353 KDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           +  NE   F  +A   +EI+A        ADV E   V  +E    +   EET +E  G
Sbjct: 364 EAANELGGFAQEA---EEILAD-------ADVLETE-VSAAEATDFDAAAEETVLETAG 411


>gi|327462402|gb|EGF08727.1| N utilization substance protein A [Streptococcus sanguinis SK1057]
          Length = 420

 Score =  230 bits (587), Expect = 4e-58,   Method: Compositional matrix adjust.
 Identities = 141/419 (33%), Positives = 231/419 (55%), Gaps = 28/419 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ + E
Sbjct: 6   EMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTVRE 65

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 66  VVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 125

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ ++Y
Sbjct: 126 AITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVFVY 185

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S + +
Sbjct: 186 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHNPN 245

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 246 VDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAIAP 305

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
           A V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E      
Sbjct: 306 AEVDQVIFNQEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDIKSATE--FEEM 363

Query: 353 KDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           +  NE   F  +A   +EI+A   V E          V  +E    +   EET +E  G
Sbjct: 364 EAANELGGFAQEA---EEILADAAVLE--------TEVSGAEATDFDAVAEETVLETAG 411


>gi|315502523|ref|YP_004081410.1| nusa antitermination factor [Micromonospora sp. L5]
 gi|315409142|gb|ADU07259.1| NusA antitermination factor [Micromonospora sp. L5]
          Length = 347

 Score =  230 bits (587), Expect = 4e-58,   Method: Compositional matrix adjust.
 Identities = 136/344 (39%), Positives = 204/344 (59%), Gaps = 27/344 (7%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  E+ I  D +L+ +  ++  A R   G     RVEI+ ++G  S++      +E++ 
Sbjct: 10  ALEREREIPFDTILAAIETALLTAYRHTDGAEPHARVEIDRKSGAASVY-----AQELDA 64

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                   V R+ D +            P DFGR+A  +AKQVI+Q++REA  +  + E+
Sbjct: 65  DGT-----VTREWDDT------------PHDFGRIAAMTAKQVILQRLREATDEVHFGEY 107

Query: 135 KDKVGEIISGTVK----RVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVR 190
             + G++++G V+    R E G V VDLG  +GV+ + E +  E    G+R++  +  V 
Sbjct: 108 VGRDGDLVTGVVQAHETRREKGIVSVDLGKLEGVLPQSEQVPGERYEHGERIRCVVVHVA 167

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDP 250
           +  RGPQ+ LSR+HP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S ++ 
Sbjct: 168 KGMRGPQITLSRSHPALVKKLFALEVPEIADGTVEIGAIAREAGHRTKIAVRSTTSGVNA 227

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIE 309
            GAC+G  G RV+AV++EL  EKIDI+ WS D ATFV NAL PA   +V V+D       
Sbjct: 228 KGACIGPMGQRVRAVMSELHGEKIDIIDWSDDPATFVGNALSPAKALRVEVVDLASRTAR 287

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
           V VP  QLSLAIGR GQN RLA++LTGW IDI ++ E +  + +
Sbjct: 288 VTVPDFQLSLAIGREGQNARLAARLTGWRIDIRSDAETAAPQSR 331


>gi|145593916|ref|YP_001158213.1| transcription elongation factor NusA [Salinispora tropica CNB-440]
 gi|145303253|gb|ABP53835.1| transcription termination factor NusA [Salinispora tropica CNB-440]
          Length = 347

 Score =  230 bits (587), Expect = 4e-58,   Method: Compositional matrix adjust.
 Identities = 141/340 (41%), Positives = 200/340 (58%), Gaps = 29/340 (8%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  E+ I  D +L+ +  ++  A R   G     RVEI+ +TG   +F      +EVE 
Sbjct: 10  ALEREREIPFDTILAAIETALLTAYRHTEGAQPHARVEIDRKTGAALVF-----AQEVE- 63

Query: 75  YTCQISLKVARDRDPSIDIGGVVSD-PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
                         P    GGVV +    P DFGR+A  +AKQVI+Q++REA  +  + E
Sbjct: 64  --------------PD---GGVVREWDDTPHDFGRIAAMTAKQVILQRLREATDEVHFGE 106

Query: 134 FKDKVGEIISGTVK----RVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDV 189
           +  + G++++G V+    R E G V VDLG  +GV+ + E +  E    G+RV+  +  V
Sbjct: 107 YVGRDGDLVTGVVQAHEARAEKGIVSVDLGKLEGVLPQSEQVPGEQYAHGERVRCVVVHV 166

Query: 190 RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSID 249
            +  RGPQV LSR+HP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ + ++
Sbjct: 167 AKGVRGPQVTLSRSHPALVKKLFALEVPEIADGTVEITAIAREAGHRTKIAVRSTAAGVN 226

Query: 250 PVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRI 308
             GAC+G  G RV+AV+ EL  EKIDI+ WS D A FV NAL PA   +V V+D      
Sbjct: 227 AKGACIGPMGQRVRAVMGELHGEKIDIIDWSEDPAAFVGNALSPAKALRVEVVDLASRTA 286

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
            V VP  QLSLAIGR GQN RLA++LTGW IDI ++ E +
Sbjct: 287 RVTVPDFQLSLAIGREGQNARLAARLTGWRIDIRSDAEPA 326


>gi|323342029|ref|ZP_08082262.1| transcription elongation factor NusA [Erysipelothrix rhusiopathiae
           ATCC 19414]
 gi|322464454|gb|EFY09647.1| transcription elongation factor NusA [Erysipelothrix rhusiopathiae
           ATCC 19414]
          Length = 536

 Score =  230 bits (587), Expect = 4e-58,   Method: Compositional matrix adjust.
 Identities = 133/323 (41%), Positives = 193/323 (59%), Gaps = 1/323 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSD-IRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           ++I +++++  + DS+ KA R   G     + V I+  T ++ LF    VVEEV +   +
Sbjct: 17  RNISKEIIIDALQDSLIKAYRKQIGVPDALVDVIIDERTQEMKLFHKFLVVEEVMDDELE 76

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           + +    +    + +G       P ++ GR A   AK VI QK+REAE+   Y E+ D++
Sbjct: 77  VGITELPEGAEGLQVGEYYMIEEPIVELGRAAATLAKNVIKQKIREAEKQAVYDEYIDQL 136

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
           GE+I   V+ VE   V+++LG S  V+ R   I  E  R G  +K  I DV R+ +G Q+
Sbjct: 137 GEMIMAMVESVEEKFVVLNLGKSLAVMPRAAQIEGETYREGQTLKVVITDVNRDTKGAQI 196

Query: 199 LLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMR 258
           L+SR     + +LF  EVPEI+ G V++KA++R+ G R K+AV+S DS IDP+GAC+G R
Sbjct: 197 LVSRADAMLVRRLFENEVPEIFEGQVEIKAIAREAGERTKIAVYSHDSDIDPIGACIGPR 256

Query: 259 GSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLS 318
           GSRVQA++ EL+ EKIDI  WS +    + NAL PA V  V  + D   + VIV   QLS
Sbjct: 257 GSRVQAIIEELKGEKIDIFEWSDNMVELINNALAPAEVIAVYPNADNKGLVVIVDDNQLS 316

Query: 319 LAIGRRGQNVRLASQLTGWTIDI 341
           LAIG+RG+N RLA +LT   IDI
Sbjct: 317 LAIGKRGKNARLAVRLTKQRIDI 339


>gi|326791500|ref|YP_004309321.1| NusA antitermination factor [Clostridium lentocellum DSM 5427]
 gi|326542264|gb|ADZ84123.1| NusA antitermination factor [Clostridium lentocellum DSM 5427]
          Length = 376

 Score =  230 bits (587), Expect = 4e-58,   Method: Compositional matrix adjust.
 Identities = 134/362 (37%), Positives = 211/362 (58%), Gaps = 28/362 (7%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD----IRVEINPETGDISLF 63
           E +   D +A  K I+++ ++  +  SI+ A +  +G  ++    I++ I+ +TGD+ +F
Sbjct: 4   EFIMAIDQIAKSKGINKEKLIDAIKQSIEVACKKHFGISTNGKQNIKINIDEKTGDVKVF 63

Query: 64  RLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
               VV  EEV N   ++ +  A++ +  + +  ++   + P +FGR+A Q+AKQV+IQK
Sbjct: 64  AAKTVVPDEEVTNELLEVGITEAQNLNRLVQLDDIIDIEITPRNFGRIAAQNAKQVVIQK 123

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISREN----LR 177
           ++EAER   Y E+  K+ +I+ G V R E    IV L  ++  +   E +  +N    + 
Sbjct: 124 IKEAERQMVYEEYSVKLNDIVKGKVLRREKNGYIVQLDFTEASLPSTEAMPNDNFDEQME 183

Query: 178 PGDRVKSY--IY--------------DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
             D + +Y   Y              D + +  G QV++SRTHP+ + +LF  EV EI +
Sbjct: 184 MNDGIGTYKAFYLLNVKDFNKNENKLDGKSKNAGAQVIVSRTHPELVKRLFEQEVVEIKD 243

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           G V +K+++R+ GSR K+AV+S+D  +DPVGACVG +G R+  +V EL  EKID+V WS 
Sbjct: 244 GTVVIKSIAREAGSRTKIAVYSNDPLVDPVGACVGEKGKRINNIVQELNGEKIDVVHWSE 303

Query: 282 DSATFVINALRPAIVTKVVLDEDVG--RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
           D   F+  AL PA V  V L+E  G    +VIVP   L+LAIG+ GQNVRLA++L G+ I
Sbjct: 304 DPKEFIREALSPAKVIDVELEETEGERNAKVIVPSHILTLAIGKGGQNVRLAAKLCGFKI 363

Query: 340 DI 341
           DI
Sbjct: 364 DI 365


>gi|183220911|ref|YP_001838907.1| transcription elongation factor NusA [Leptospira biflexa serovar
           Patoc strain 'Patoc 1 (Paris)']
 gi|189911007|ref|YP_001962562.1| transcription elongation factor NusA [Leptospira biflexa serovar
           Patoc strain 'Patoc 1 (Ames)']
 gi|167775683|gb|ABZ93984.1| Transcription elongation factor [Leptospira biflexa serovar Patoc
           strain 'Patoc 1 (Ames)']
 gi|167779333|gb|ABZ97631.1| N utilization substance protein A [Leptospira biflexa serovar Patoc
           strain 'Patoc 1 (Paris)']
          Length = 466

 Score =  230 bits (586), Expect = 4e-58,   Method: Compositional matrix adjust.
 Identities = 159/453 (35%), Positives = 239/453 (52%), Gaps = 40/453 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG--TMSDIRVEI---NPETGDISLF 63
           L +       +KS+DR++VL V+ DS+  A R   G    +D R ++   +    +I + 
Sbjct: 12  LFEAIQQFCQDKSLDRELVLGVIRDSLLAAYRKKVGLEAETDDRCQVEFGSDNKNEIIIS 71

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
            L +VV E      ++SL+ A+  DP I++G  +     P D  RV    AKQ++ Q++R
Sbjct: 72  VLRDVVAEKTINPLEVSLEDAQKIDPKIEVGSQIRVFEKPQDLSRVLSSQAKQMVFQRLR 131

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           + E++  Y E+K K GE+  G  +R +   + +DLG  +G++ + +    E  R GDR+K
Sbjct: 132 DMEKELLYQEYKSKEGELTHGYFQRWKKDIMSIDLGKVEGIMLKKDQNPGEKYRQGDRLK 191

Query: 184 SYIYDVRREQRGPQ--VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           + I  V    R P   + LSR    F+ KLF ME+PE+Y+GIV+++ V+R P  R K+ V
Sbjct: 192 AIISRVELRPREPMPVITLSRASGDFVKKLFEMEIPEVYDGIVEIRDVARIPSYRTKVVV 251

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            +S S +DPVGACVGM+G R+QA+V EL +E+IDIV+ S + + F+ NA+ PA   +V +
Sbjct: 252 TTSKSDVDPVGACVGMKGVRIQAIVRELGNERIDIVLHSDEPSIFIANAISPAKPVEVHV 311

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT------------------ 343
           D   G   VIVP E LSLAIG  G NV+L SQL+G+ IDI T                  
Sbjct: 312 DRKRGDALVIVPDESLSLAIGINGSNVKLVSQLSGFKIDIKTVSQYNQELASPEAREKLD 371

Query: 344 -----------EEEDSINRQ-KDFNERTQFFMQAINVDEI---IAHLLVAEGFADVEELA 388
                      E ED  N+  +D  E    F     +  +   I  LL A G  +VE L 
Sbjct: 372 RLFNAQQEAMEESEDGYNQSGQDEEEEDSGFTPLSEIPGLTPRIVGLLEAGGIKNVETLL 431

Query: 389 CVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
                E++ I G  + TA +I    RE +E ++
Sbjct: 432 EFSQEELSKISGIGKTTAEQILRLLRESIEWVE 464


>gi|291513589|emb|CBK62799.1| transcription termination factor NusA [Alistipes shahii WAL 8301]
          Length = 409

 Score =  230 bits (586), Expect = 5e-58,   Method: Compositional matrix adjust.
 Identities = 128/333 (38%), Positives = 205/333 (61%), Gaps = 5/333 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYTC 77
           K+ID+  ++ V+ D  + A +  Y T  +  V INPE GD+ ++R   VVE+  VE+   
Sbjct: 17  KNIDKSTMIGVLEDVFRHALQKQYETDENFDVIINPEKGDLEIWRNRTVVEDDAVEDPNA 76

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QIS+   +  DP+ +IG   +D +    FGR AV S +Q +  ++ + E+   Y ++ +K
Sbjct: 77  QISVSEVKAIDPTYEIGDEYADEIKLSSFGRRAVLSLRQNLASRILDLEKASLYEKYSEK 136

Query: 138 VGEIISGTVKRVEYGNV-IVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG+I++G V +V    V I+D   ++ ++ + E I  +  R GD +K+ +  V      P
Sbjct: 137 VGDIVTGEVYQVWKKEVLILDDEENELILPKAEQIPNDFYRKGDTIKAIVKSVEMNNNQP 196

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +++LSRT  QF+ +LF  EVPEI++G++ +K + R PG RAK+AV S D  IDPVGACVG
Sbjct: 197 RIILSRTANQFLERLFEQEVPEIFDGLITIKKIVRIPGERAKVAVESYDERIDPVGACVG 256

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           M+GSR+ ++V ELR+E ID+V ++ +    +  +L PA V+ + +DE+     V +  +Q
Sbjct: 257 MKGSRIYSIVKELRNENIDVVNYTANPTLMIQRSLNPAKVSSITIDEEKMTASVYLKPDQ 316

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDII--TEEED 347
           +SLAIG+ G N+RL+  LTG+ ID+    EEED
Sbjct: 317 VSLAIGKGGLNIRLSKMLTGYDIDVYREVEEED 349


>gi|72161180|ref|YP_288837.1| transcription elongation factor NusA [Thermobifida fusca YX]
 gi|71914912|gb|AAZ54814.1| transcription termination factor NusA [Thermobifida fusca YX]
          Length = 329

 Score =  230 bits (586), Expect = 5e-58,   Method: Compositional matrix adjust.
 Identities = 137/330 (41%), Positives = 200/330 (60%), Gaps = 24/330 (7%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I  D+V+  + D++  A R   G  ++ RVE++  TG ++++      EE +     
Sbjct: 14  EKDISVDLVVKAIEDALLIAYRRQEGPDTNARVELDRATGHVTVW-----AEERDEEG-- 66

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
              ++ R+ D +            P  FGR+A  +AKQVI+Q++R+AE +    EF  + 
Sbjct: 67  ---RLIREYDAT------------PSGFGRIAASTAKQVILQRLRDAEDEITLGEFAGRE 111

Query: 139 GEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
            +I+SG V++  +  NV+VDLG  + ++   E +  E    G+R+++Y+  VRR  RGP 
Sbjct: 112 SQIVSGVVQQGKDPRNVLVDLGRVEAILPPQEQVPTETYTHGERLRAYVVQVRRGHRGPS 171

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           + LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+   ++  GAC+G 
Sbjct: 172 ITLSRTHPNLVRKLFELEVPEIADGTVEIAAIAREAGHRTKMAVKSNKPGVNAKGACIGP 231

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQ 316
            GSRV+ V+ ELR EKIDIV +S D A FV NAL PA VT V VLD       VIVP  Q
Sbjct: 232 LGSRVRNVMNELRGEKIDIVDYSDDPAQFVANALSPAQVTHVEVLDAAARVARVIVPDYQ 291

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            SLAIG+ GQN RLA++LTGW IDI ++ E
Sbjct: 292 QSLAIGKEGQNARLAARLTGWRIDIRSDTE 321


>gi|332520007|ref|ZP_08396471.1| transcription termination factor NusA [Lacinutrix algicola
           5H-3-7-4]
 gi|332044566|gb|EGI80760.1| transcription termination factor NusA [Lacinutrix algicola
           5H-3-7-4]
          Length = 410

 Score =  230 bits (586), Expect = 5e-58,   Method: Compositional matrix adjust.
 Identities = 127/335 (37%), Positives = 206/335 (61%), Gaps = 7/335 (2%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYT 76
           +K IDR  +++++ D  + A +  +G   +  + INP+ GD+ ++R   VV   EVE   
Sbjct: 16  DKLIDRVTLMAILEDVFRSALKKKFGDDDNFDIIINPDKGDLEIWRNRIVVADGEVEEPN 75

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +ISL  AR  +P  ++G  VS+ +  +D GR A+ + +Q +I K+ E +    + +FK+
Sbjct: 76  QEISLTAARKIEPDFEVGEDVSEEVKLIDLGRRAILALRQNLISKIHEHDNTNIFKQFKE 135

Query: 137 KVGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
             G++ +  V  + +  VI+  D GN + ++ +D+ I  +  R GD V+  I  V  +  
Sbjct: 136 LEGDLYTAEVHHIRHRAVILLDDEGN-EIILPKDKQIPSDFFRKGDNVRGIIDSVELKGN 194

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
            P +++SRT P+F+ KLF  E+PE+++G++ +K V R PG +AK+AV S D  IDPVGAC
Sbjct: 195 KPAIIMSRTSPKFLEKLFESEIPEVFDGLITIKNVVRIPGEKAKVAVDSYDDRIDPVGAC 254

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPK 314
           VGM+GSR+  +V EL +E ID++ ++ +   ++  AL PA VT + +DE+  R E I+  
Sbjct: 255 VGMKGSRIHGIVRELGNENIDVINYTNNLQLYITRALSPARVTSIKIDEENKRAEAILKP 314

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITE--EED 347
           E++S AIGR G N+RLA QLTG+ ID+  E  EED
Sbjct: 315 EEVSKAIGRGGHNIRLAGQLTGYDIDVFREGAEED 349


>gi|302865966|ref|YP_003834603.1| transcription termination factor NusA [Micromonospora aurantiaca
           ATCC 27029]
 gi|302568825|gb|ADL45027.1| transcription termination factor NusA [Micromonospora aurantiaca
           ATCC 27029]
          Length = 347

 Score =  230 bits (586), Expect = 5e-58,   Method: Compositional matrix adjust.
 Identities = 136/344 (39%), Positives = 204/344 (59%), Gaps = 27/344 (7%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  E+ I  D +L+ +  ++  A R   G     RVEI+ ++G  S++      +E++ 
Sbjct: 10  ALEREREIPFDTILAAIETALLTAYRHTDGAEPHARVEIDRKSGAASVY-----AQELDA 64

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                   V R+ D +            P DFGR+A  +AKQVI+Q++REA  +  + E+
Sbjct: 65  DGT-----VTREWDDT------------PHDFGRIAAMTAKQVILQRLREATDEVHFGEY 107

Query: 135 KDKVGEIISGTVK----RVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVR 190
             + G++++G V+    R E G V VDLG  +GV+ + E +  E    G+R++  +  V 
Sbjct: 108 VGRDGDLVTGVVQAHETRREKGIVSVDLGKLEGVLPQSEQVPGERYEHGERIRCVVVHVA 167

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDP 250
           +  RGPQ+ LSR+HP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S ++ 
Sbjct: 168 KGMRGPQITLSRSHPALVKKLFALEVPEIADGTVEIGAIAREAGHRTKIAVRSTTSGVNA 227

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIE 309
            GAC+G  G RV+AV++EL  EKIDI+ WS D ATFV NAL PA   +V V+D       
Sbjct: 228 KGACIGPMGQRVRAVMSELHGEKIDIIDWSDDPATFVGNALSPAKALRVEVVDLASRTAR 287

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
           V VP  QLSLAIGR GQN RLA++LTGW IDI ++ E +  + +
Sbjct: 288 VTVPDFQLSLAIGREGQNARLAARLTGWRIDIRSDAETAAPQSR 331


>gi|325697660|gb|EGD39545.1| N utilization substance protein A [Streptococcus sanguinis SK160]
 gi|327490545|gb|EGF22326.1| N utilization substance protein A [Streptococcus sanguinis SK1058]
          Length = 420

 Score =  230 bits (586), Expect = 5e-58,   Method: Compositional matrix adjust.
 Identities = 124/349 (35%), Positives = 206/349 (59%), Gaps = 15/349 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ + E
Sbjct: 6   EMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTVRE 65

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 66  VVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 125

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ ++Y
Sbjct: 126 AITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVFVY 185

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S + +
Sbjct: 186 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHNPN 245

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 246 VDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAIAP 305

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           A V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI
Sbjct: 306 AEVDQVIFNQEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDI 354


>gi|261416680|ref|YP_003250363.1| NusA antitermination factor [Fibrobacter succinogenes subsp.
           succinogenes S85]
 gi|261373136|gb|ACX75881.1| NusA antitermination factor [Fibrobacter succinogenes subsp.
           succinogenes S85]
 gi|302327396|gb|ADL26597.1| N utilization substance protein A [Fibrobacter succinogenes subsp.
           succinogenes S85]
          Length = 407

 Score =  230 bits (586), Expect = 5e-58,   Method: Compositional matrix adjust.
 Identities = 144/362 (39%), Positives = 208/362 (57%), Gaps = 16/362 (4%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +  ++ LL +   V  +KS+D  V+L  +  ++  AAR        I V+I+ ET ++
Sbjct: 1   MKNEPKVNLLDVLKEVVEDKSVDDSVILDALKKALISAARKYLHIEKKINVDIDMETNEV 60

Query: 61  SLFRLLEVVEEVENYTCQIS-------------LKVARDRDPSIDIGGVVSDPLPPMDFG 107
            +F  +EVV++  +Y   ++             +  ARD +     G  +   LP   FG
Sbjct: 61  HVFLNVEVVDDYPDYDPNMTAEEVAEMDEGYMLVDEARDFNEDAQAGDSLYMELPTSSFG 120

Query: 108 RVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS-DGVIR 166
           R A+Q+AKQ++ Q +R AE  R    ++ ++G II+GTV R+E  NVIVDLGN  +  + 
Sbjct: 121 RQAIQTAKQLLTQHIRSAECQRIMDIYRSRIGTIINGTVLRLEQRNVIVDLGNKIEAELP 180

Query: 167 RDETISRENLRPGDRVKSYIYDVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
             E I  E L  G  VK+ I  V    + G QV+LSR++  F+  L   EVPEIY G V+
Sbjct: 181 AREQIPHERLTQGASVKAVIARVEESTKSGAQVILSRSNADFLKALLRQEVPEIYEGTVE 240

Query: 226 VKAVSRDPGSR-AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSA 284
           +KAV+RD  +R AK+AV+S D  IDPVGACVGM+G+RVQ +V EL +E+IDIV W  +  
Sbjct: 241 IKAVARDSKNRRAKIAVYSRDEKIDPVGACVGMKGARVQTIVRELGNERIDIVHWDENFD 300

Query: 285 TFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            FV  +L PA V K+    D  RI +IV  E L+ AIG+ GQNV LA +L    +D+  E
Sbjct: 301 VFVQRSLAPASVLKMFPVPDTDRIVIIVDDENLAQAIGKGGQNVELAGRLVDRKLDVHGE 360

Query: 345 EE 346
           +E
Sbjct: 361 QE 362


>gi|332665272|ref|YP_004448060.1| NusA antitermination factor [Haliscomenobacter hydrossis DSM 1100]
 gi|332334086|gb|AEE51187.1| NusA antitermination factor [Haliscomenobacter hydrossis DSM 1100]
          Length = 416

 Score =  230 bits (586), Expect = 5e-58,   Method: Compositional matrix adjust.
 Identities = 128/326 (39%), Positives = 197/326 (60%), Gaps = 4/326 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYTC 77
           K+IDR  +  V+ D  +   +  +G+  +  V +N + GD+ L+R+ E+V   EV +   
Sbjct: 14  KNIDRPTMARVLEDVFRTLIKKKFGSDDNFNVIVNTQNGDLELWRVREIVPDGEVTDDRA 73

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QIS+  A   D   +IG    + L   DFGR A+ +A+Q +I ++ E E+D  Y  + ++
Sbjct: 74  QISISEALAIDEDYEIGEECYERLQLEDFGRRAIMAARQTLISRIMELEKDEVYKSYSER 133

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VGE+I G + ++     +V  D   ++ V+ R ETI  +  R GD VK  I  V      
Sbjct: 134 VGEVIVGEIHQILKKEFLVVDDATGNELVLPRTETIKADFFRKGDMVKGIIRRVELRNNT 193

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P V++SRT   F+ KL   EVPEI +G++ +K + R PG RAK+AV S D  IDPVGACV
Sbjct: 194 PIVVMSRTDNAFLEKLLEAEVPEIEDGLISIKKIVRLPGERAKVAVESYDDRIDPVGACV 253

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           GM+GSR+  +V EL +E IDIV ++ +++ ++  AL PA VT++ L+ +    +V +  E
Sbjct: 254 GMKGSRIHGIVRELNNENIDIVNYTNNASLYIQRALTPAKVTRIELNTETNHADVYLEPE 313

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDI 341
           Q+SLAIG+ G N++LASQLTG+ ID+
Sbjct: 314 QVSLAIGKSGTNIKLASQLTGYEIDV 339


>gi|327467113|gb|EGF12623.1| N utilization substance protein A [Streptococcus sanguinis SK330]
          Length = 420

 Score =  230 bits (586), Expect = 6e-58,   Method: Compositional matrix adjust.
 Identities = 140/419 (33%), Positives = 230/419 (54%), Gaps = 28/419 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ + E
Sbjct: 6   EMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTVRE 65

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 66  VVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 125

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ ++Y
Sbjct: 126 AITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVFVY 185

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S + +
Sbjct: 186 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHNPN 245

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 246 VDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAIAP 305

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
           A V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E      
Sbjct: 306 AEVDQVIFNQEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDIKSATE--FEEM 363

Query: 353 KDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           +  NE   F  +A   +EI+    V E          V  +E    +   EET +E  G
Sbjct: 364 EAANELGGFAQEA---EEILGDAAVLE--------TEVSAAEATDFDAVAEETVLETAG 411


>gi|125718693|ref|YP_001035826.1| transcription elongation factor NusA [Streptococcus sanguinis SK36]
 gi|125498610|gb|ABN45276.1| N utilization substance protein A, putative [Streptococcus
           sanguinis SK36]
          Length = 420

 Score =  230 bits (586), Expect = 6e-58,   Method: Compositional matrix adjust.
 Identities = 124/349 (35%), Positives = 206/349 (59%), Gaps = 15/349 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ + E
Sbjct: 6   EMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTVRE 65

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 66  VVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 125

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ ++Y
Sbjct: 126 AITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVFVY 185

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S + +
Sbjct: 186 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHNPN 245

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 246 VDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAIAP 305

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           A V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI
Sbjct: 306 AEVDQVIFNEEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDI 354


>gi|327459330|gb|EGF05676.1| N utilization substance protein A [Streptococcus sanguinis SK1]
          Length = 420

 Score =  230 bits (586), Expect = 6e-58,   Method: Compositional matrix adjust.
 Identities = 124/349 (35%), Positives = 206/349 (59%), Gaps = 15/349 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ + E
Sbjct: 6   EMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTVRE 65

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 66  VVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 125

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ ++Y
Sbjct: 126 AITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVFVY 185

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S + +
Sbjct: 186 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHNPN 245

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 246 VDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAIAP 305

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           A V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI
Sbjct: 306 AEVDQVIFNQEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDI 354


>gi|317508529|ref|ZP_07966195.1| transcription termination factor NusA [Segniliparus rugosus ATCC
           BAA-974]
 gi|316253173|gb|EFV12577.1| transcription termination factor NusA [Segniliparus rugosus ATCC
           BAA-974]
          Length = 342

 Score =  229 bits (585), Expect = 6e-58,   Method: Compositional matrix adjust.
 Identities = 139/352 (39%), Positives = 207/352 (58%), Gaps = 31/352 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +Q   A+  EK +  + ++  +A ++  A +   G  +D RV+I+ + G + +       
Sbjct: 5   VQTLRAIEAEKGLSSEKIIDAIASALLTAYKHTDGHHADARVDIDRKHGAVKVL------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                           +RD   +I G   D   P DFGR+A  +A+QVI+Q++R+AE D+
Sbjct: 59  --------------VAERDEDGNILGEYDDT--PADFGRIATMTARQVILQRLRDAEGDQ 102

Query: 130 QYLEFKDKVGEIISGTVKR----VEYGNVIVDLGNS----DGVIRRDETISRENLRPGDR 181
            + +   K GEI++G V+R     E G  IV LG+     +GV+   E +  E+L  GDR
Sbjct: 103 GFADLPVKEGEIVAGVVQRDARANERGLQIVKLGSELKSYEGVLPVAEQVPGESLVHGDR 162

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           VK Y+  V+  +RGPQ+ LSRTHP  + KLF +EVPEI  G VQ+ AV+R+ G R+K+AV
Sbjct: 163 VKCYVVSVKAGRRGPQITLSRTHPNLVRKLFALEVPEIGEGSVQIVAVAREAGHRSKIAV 222

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA-IVTKVV 300
            S+   ++  GAC+G  G RV+ V++EL  EKID++ +  D ATFV NAL PA  +   V
Sbjct: 223 KSTVPGLNAKGACIGQNGQRVRNVMSELAGEKIDLIDFDEDPATFVGNALSPARALATRV 282

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
           LD     + V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E++  + R+
Sbjct: 283 LDPVAKAVRVVVPDSQLSLAIGKEGQNARLAARLTGWRIDIRSEQDPEVARR 334


>gi|323350354|ref|ZP_08086018.1| transcription elongation factor NusA [Streptococcus sanguinis
           VMC66]
 gi|322123427|gb|EFX95103.1| transcription elongation factor NusA [Streptococcus sanguinis
           VMC66]
          Length = 420

 Score =  229 bits (584), Expect = 8e-58,   Method: Compositional matrix adjust.
 Identities = 124/349 (35%), Positives = 206/349 (59%), Gaps = 15/349 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ + E
Sbjct: 6   EMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTVRE 65

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 66  VVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 125

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ ++Y
Sbjct: 126 AITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVFVY 185

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S + +
Sbjct: 186 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHNPN 245

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 246 VDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAIAP 305

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           A V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI
Sbjct: 306 AEVDQVIFNQEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDI 354


>gi|330836562|ref|YP_004411203.1| NusA antitermination factor [Spirochaeta coccoides DSM 17374]
 gi|329748465|gb|AEC01821.1| NusA antitermination factor [Spirochaeta coccoides DSM 17374]
          Length = 477

 Score =  229 bits (583), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 128/330 (38%), Positives = 209/330 (63%), Gaps = 5/330 (1%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY--- 75
           EK I +D+V+S + D ++ A +  +GT ++  V+ + +  +++L     +VE+ ENY   
Sbjct: 15  EKGISQDLVISTIEDFLRAAYKRKFGTDANAVVQFSDDLSNVTLNARRIIVED-ENYYDM 73

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
           T +ISL+ A +     +IG  +  P+   +F R+++QSAKQ   Q +R+ ++D  + E++
Sbjct: 74  TTEISLEEAEELVGKCEIGDELLVPIDLKEFDRISIQSAKQRSRQSLRDIQKDTTFKEYE 133

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           +K G++I G V+R    +  VD+G+++G++ R    SRE  R GD+VK Y+  V +   G
Sbjct: 134 NKTGQLIIGYVQRQIGDDFYVDIGSTEGILPRRNQSSREVYRQGDKVKFYVEKVEKTDHG 193

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
            +V+LSRT  + +  LF +EVPEIY+  +++  + R+ G R K+AV+S    IDPVGACV
Sbjct: 194 VRVVLSRTSAELVKLLFELEVPEIYDHSIEIHDIVREAGYRTKVAVYSHRDDIDPVGACV 253

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV-LDEDVGRIEVIVPK 314
           G++G R+Q ++ E+  EKIDI+ + P+   F+ NAL PA V  V+ L ++  R   IV  
Sbjct: 254 GLKGMRIQTIMKEIEGEKIDILKYDPNPEVFIRNALAPAEVKDVILLKQNERRALAIVDD 313

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            QLSLAIG++G NVRLA+QL+ W I++ TE
Sbjct: 314 TQLSLAIGKQGLNVRLANQLSDWIIEVKTE 343


>gi|330997781|ref|ZP_08321616.1| transcription termination factor NusA [Paraprevotella xylaniphila
           YIT 11841]
 gi|329569669|gb|EGG51434.1| transcription termination factor NusA [Paraprevotella xylaniphila
           YIT 11841]
          Length = 420

 Score =  229 bits (583), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 130/347 (37%), Positives = 210/347 (60%), Gaps = 6/347 (1%)

Query: 4   ANRLELLQIADAVAY---EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           A + E + + D  A     K+IDR  ++SV+ +S +     L+G+  +  V +NP+ GD 
Sbjct: 2   AKKAETISLIDTFAEFKETKNIDRATLVSVLEESFRSVIAKLFGSDDNYDVIVNPDKGDF 61

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R   VV   EV++   +ISL  AR  D   ++G  VS+ +    FGR A+ + +Q +
Sbjct: 62  EIYRNRTVVADGEVKDGNREISLTEARQIDEDYEVGEEVSENVDFAGFGRRAILTLRQTL 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLR 177
             K+ E E D  Y ++KD+VGEI+S  V ++    ++ VD   ++ ++ + E I  +  R
Sbjct: 122 ASKILELEHDSLYNKYKDRVGEIVSAEVYQIWKKEMLCVDDEGNELILPKTEQIPSDFYR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+ V++ +  V      P+++LSRT P F+ +L   EVPEI++G++ V+ ++R PG RA
Sbjct: 182 KGEAVRAVVARVDNTNNNPKIILSRTSPVFLQRLLEAEVPEIHDGLITVRKIARMPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVG++GSRV  +V ELR E ID++ ++ + + F+  AL PA V 
Sbjct: 242 KIAVESYDDRIDPVGACVGVKGSRVHGIVRELRGENIDVINYTQNISLFITRALSPATVN 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            V + E+  + EV +  +Q+SLAIG+ G N++LAS LT +TID+  E
Sbjct: 302 SVRIHEEERKAEVYLNPDQVSLAIGKSGLNIKLASMLTEYTIDVFRE 348


>gi|332881709|ref|ZP_08449357.1| transcription termination factor NusA [Capnocytophaga sp. oral
           taxon 329 str. F0087]
 gi|332680348|gb|EGJ53297.1| transcription termination factor NusA [Capnocytophaga sp. oral
           taxon 329 str. F0087]
          Length = 420

 Score =  229 bits (583), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 130/347 (37%), Positives = 210/347 (60%), Gaps = 6/347 (1%)

Query: 4   ANRLELLQIADAVAY---EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           A + E + + D  A     K+IDR  ++SV+ +S +     L+G+  +  V +NP+ GD 
Sbjct: 2   AKKAETISLIDTFAEFKETKNIDRATLVSVLEESFRSVIAKLFGSDDNYDVIVNPDKGDF 61

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R   VV   EV++   +ISL  AR  D   ++G  VS+ +    FGR A+ + +Q +
Sbjct: 62  EIYRNRTVVADGEVKDDNREISLTEARRIDEDYEVGEEVSENVDFAKFGRRAILTLRQTL 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLR 177
             K+ E E D  Y ++KD+VGEI+S  V ++    ++ VD   ++ ++ + E I  +  R
Sbjct: 122 ASKILELEHDSLYNKYKDRVGEIVSAEVYQIWKKEMLCVDDEGNELILPKTEQIPSDFYR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+ V++ +  V      P+++LSRT P F+ +L   EVPEI++G++ V+ ++R PG RA
Sbjct: 182 KGEAVRAVVARVDNTNNNPKIILSRTSPVFLQRLLEAEVPEIHDGLITVRKIARMPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVG++GSRV  +V ELR E ID++ ++ + + F+  AL PA V 
Sbjct: 242 KIAVESYDDRIDPVGACVGVKGSRVHGIVRELRGENIDVINYTQNISLFITRALSPAAVN 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            V + E+  + EV +  +Q+SLAIG+ G N++LAS LT +TID+  E
Sbjct: 302 SVRIHEEEHKAEVYLNPDQVSLAIGKSGLNIKLASMLTEYTIDVFRE 348


>gi|227875842|ref|ZP_03993968.1| transcription elongation factor NusA [Mobiluncus mulieris ATCC
           35243]
 gi|269977478|ref|ZP_06184450.1| transcription termination factor NusA [Mobiluncus mulieris 28-1]
 gi|306819123|ref|ZP_07452837.1| transcription termination factor NusA [Mobiluncus mulieris ATCC
           35239]
 gi|307700036|ref|ZP_07637085.1| transcription termination factor NusA [Mobiluncus mulieris
           FB024-16]
 gi|227843590|gb|EEJ53773.1| transcription elongation factor NusA [Mobiluncus mulieris ATCC
           35243]
 gi|269934394|gb|EEZ90956.1| transcription termination factor NusA [Mobiluncus mulieris 28-1]
 gi|304648099|gb|EFM45410.1| transcription termination factor NusA [Mobiluncus mulieris ATCC
           35239]
 gi|307614797|gb|EFN94017.1| transcription termination factor NusA [Mobiluncus mulieris
           FB024-16]
          Length = 327

 Score =  229 bits (583), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 137/335 (40%), Positives = 203/335 (60%), Gaps = 28/335 (8%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           V  EK +D + +++ + +++ KA R+  G  +  RVE++ +TG++ ++ + E+ EE    
Sbjct: 11  VEAEKGMDFESLVATVEEALLKAYRNQSGVKAPARVEVDRKTGEVKVW-VTELDEE---- 65

Query: 76  TCQISLKVARDRDPSIDIGGVVSD-PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYL-E 133
                             G  + D  + P DFGR A  + K VIIQ+ +E E D+Q L +
Sbjct: 66  ------------------GNALGDVEVTPEDFGRTAAATVKSVIIQRFQE-EEDKQVLGD 106

Query: 134 FKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
           FK+++G+++SG V        I VDLG+ +GVI   E    E+ R G+R++ Y+    R 
Sbjct: 107 FKERIGQVVSGVVVAARDPKFIAVDLGDIEGVIPPAEQAPGEHFRDGERIRVYVLSAARG 166

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            +GP + LSRTHP  +  LF+ EVPEI  G+V +++V+R+PG R K+AV + +  ++P G
Sbjct: 167 MKGPHIELSRTHPGLVQGLFNREVPEIEKGLVVIESVAREPGHRTKIAVRALEKGMNPKG 226

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVI 311
           AC+G  GSRV+AV+ EL  EKIDI+ WS +   F+ NAL PA V  V VLDED     V+
Sbjct: 227 ACIGPNGSRVRAVMNELNGEKIDIIDWSDNPVEFIANALSPAKVVSVRVLDEDRRLARVV 286

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           VP  Q SLAIG+ GQN RLAS+LTGW IDI ++ E
Sbjct: 287 VPDFQQSLAIGKEGQNARLASRLTGWGIDIHSDSE 321


>gi|163753871|ref|ZP_02160994.1| transcription elongation factor NusA [Kordia algicida OT-1]
 gi|161326085|gb|EDP97411.1| transcription elongation factor NusA [Kordia algicida OT-1]
          Length = 410

 Score =  229 bits (583), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 128/335 (38%), Positives = 208/335 (62%), Gaps = 7/335 (2%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYT 76
           +K IDR  +++++ D  + A +  +G+  +  + INP+ GD+ ++R   VV   EVE+  
Sbjct: 16  DKLIDRVTLMAILEDVFRNALKKKFGSDDNFDIIINPDKGDLEIWRNRIVVADGEVEDPN 75

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +I L  AR  +P  ++G  VS+ +  +D GR A+ + +Q +I K+ E +    Y +FKD
Sbjct: 76  QEIELTDARKIEPDFEVGEDVSEEVKLIDLGRRAILALRQNLISKIHEHDNTTIYKQFKD 135

Query: 137 KVGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
            VG+I +  V  + +  VI+  D GN + V+ ++  I  +  R G+ V+  I  V  +  
Sbjct: 136 LVGDIYTAEVHHIRHRAVILLDDEGN-EIVLPKENQIPSDFFRKGENVRGIIDRVDLKGN 194

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
            P +++SRT P+F+ KLF  E+PE+++G++ VK V R PG +AK+AV S D  IDPVGAC
Sbjct: 195 KPMIVMSRTAPEFLEKLFEQEIPEVFDGLITVKKVVRIPGEKAKVAVDSYDDRIDPVGAC 254

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPK 314
           VGM+GSR+  +V EL +E ID++ ++ +   ++  AL PA V+ + +DE+  R+EV +  
Sbjct: 255 VGMKGSRIHGIVRELGNENIDVINYTTNLQLYITRALSPARVSSLKIDEEAKRVEVFLKP 314

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITE--EED 347
           E++S AIG+ G N+RLA QLTG+ ID+  E  EED
Sbjct: 315 EEVSKAIGKGGFNIRLAGQLTGYEIDVYREGVEED 349


>gi|256396850|ref|YP_003118414.1| NusA antitermination factor [Catenulispora acidiphila DSM 44928]
 gi|256363076|gb|ACU76573.1| NusA antitermination factor [Catenulispora acidiphila DSM 44928]
          Length = 324

 Score =  229 bits (583), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 135/330 (40%), Positives = 202/330 (61%), Gaps = 29/330 (8%)

Query: 23  DRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           DR +    + + I+ A    Y    G  +  RV+++  +G ++++     VE++E+ +  
Sbjct: 14  DRGIPFEKLVEDIEAALLIAYKRTDGAKTRARVQVDRSSGHVTVW----AVEDIEDGST- 68

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
                 R+ D +            P +FGR+A  +AKQVI+Q++R+ E ++ + EF  + 
Sbjct: 69  ------REYDDT------------PSEFGRIASTTAKQVILQRLRDHEDEQTFGEFSGRK 110

Query: 139 GEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
           G++I+G V++  +   V+V++G  +G +   E +  E  R G+R+K Y+ DVRR QRGPQ
Sbjct: 111 GDLITGVVQQGRDPRAVLVNIGKIEGTLPAAEQVPGEEYRHGERLKCYVVDVRRGQRGPQ 170

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           V LSRTHP  + KLF +EVPEI  G V++ A++R+ G R K+AV S  + ++  GAC+G 
Sbjct: 171 VTLSRTHPDLVRKLFALEVPEIAEGAVEITAIAREAGHRTKIAVRSHRAGVNAKGACIGP 230

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQ 316
            G+RV+ V+ EL  EKIDIV WS D A  V NAL PA V+KV V+D D     VIVP  Q
Sbjct: 231 MGARVRNVMAELHGEKIDIVDWSEDPAEMVGNALSPARVSKVQVVDLDQRSARVIVPDFQ 290

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           LSLAIG+ GQN RLA++LTGW IDI ++ E
Sbjct: 291 LSLAIGKEGQNARLAARLTGWRIDIRSDAE 320


>gi|163786551|ref|ZP_02180999.1| transcription elongation factor NusA [Flavobacteriales bacterium
           ALC-1]
 gi|159878411|gb|EDP72467.1| transcription elongation factor NusA [Flavobacteriales bacterium
           ALC-1]
          Length = 410

 Score =  229 bits (583), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 129/335 (38%), Positives = 204/335 (60%), Gaps = 7/335 (2%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYT 76
           +K IDR  +++++ D ++ A +  YG   +  + INP+ GD+ ++R   VV   EVE   
Sbjct: 16  DKLIDRVTLMAILEDVLRNALKKKYGDDDNFDIIINPDKGDLEIWRNRIVVANGEVEEPN 75

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +I L  A+  +P  ++G  V++ +  +D GR ++ + +Q +I K+ E +    Y  FK+
Sbjct: 76  QEIELSEAQKIEPDFEVGEDVAEEVKLIDLGRRSILALRQNLISKIHEHDNTNIYKHFKE 135

Query: 137 KVGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
             GEI +  V  + +  +I+  D GN + ++ +D  I  +  R G+ V+  I  V  +  
Sbjct: 136 LEGEIYTAEVHHIRHRAIILLDDDGN-EIILPKDRQIPSDFFRKGENVRGIIESVELKGS 194

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
            P +++SRT P F+ KLF  E+PE+++G++ VK V R PG +AK+AV S D  IDPVGAC
Sbjct: 195 KPAIIMSRTSPLFLEKLFEQEIPEVFDGLITVKKVVRIPGEKAKVAVDSYDDRIDPVGAC 254

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPK 314
           VGM+GSR+  +V EL +E ID++ ++ +   FV  AL PA VT + LDE+  R EV++  
Sbjct: 255 VGMKGSRIHGIVRELGNENIDVINYTNNIQLFVTRALSPARVTSLKLDEENMRAEVLLKP 314

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITE--EED 347
           E++S AIGR G N+RLA QLTG+ ID+  E  EED
Sbjct: 315 EEVSKAIGRGGHNIRLAGQLTGYEIDVFREGAEED 349


>gi|89889478|ref|ZP_01200989.1| transcription termination factor NusA [Flavobacteria bacterium
           BBFL7]
 gi|89517751|gb|EAS20407.1| transcription termination factor NusA [Flavobacteria bacterium
           BBFL7]
          Length = 412

 Score =  228 bits (582), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 124/335 (37%), Positives = 207/335 (61%), Gaps = 7/335 (2%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYT 76
           +K IDR  +++++ D  + A +  YG   +  + INP+ GD+ ++R   VV   EVE+  
Sbjct: 18  DKMIDRVTLMAILEDVFRSALKRKYGDDDNFDIIINPDKGDLEIWRNRVVVADGEVEDDN 77

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +I L  AR  +P  ++G  V++ +  +  GR A+ + +Q +I K+ E +    Y +FK+
Sbjct: 78  SEIELTAARKIEPDYEVGEDVAEEVKLIQLGRRAILALRQNLIAKIHEHDNTNIYKQFKE 137

Query: 137 KVGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
             GE+ S  V  + +  +I+  D GN + ++ +D  I  +  R G+ V+  I  V     
Sbjct: 138 LEGELYSAEVHHIRHRAIILLDDEGN-EIIMPKDRQIGSDFFRKGENVRGIIESVELRGN 196

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
            P ++LSRT P+F+ KLF  E+PE+++G++ VKAV R+PG +AK+AV S D  IDPVGAC
Sbjct: 197 KPNIILSRTSPKFLEKLFEQEIPEVFDGLITVKAVVREPGEKAKVAVDSYDDRIDPVGAC 256

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPK 314
           VG++GSR+  +V EL +E ID++ ++ ++  ++  AL PA +  + ++E+  + EV +  
Sbjct: 257 VGVKGSRIHGIVRELGNENIDVINYTSNTQLYIARALSPAKIISMEINEETKKAEVRLNP 316

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITE--EED 347
           E++S AIGRRG N+RLA +LTG+ ID+I +  EED
Sbjct: 317 EEVSKAIGRRGHNIRLAGKLTGYDIDVIRDGAEED 351


>gi|331698436|ref|YP_004334675.1| NusA antitermination factor [Pseudonocardia dioxanivorans CB1190]
 gi|326953125|gb|AEA26822.1| NusA antitermination factor [Pseudonocardia dioxanivorans CB1190]
          Length = 348

 Score =  228 bits (581), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 139/334 (41%), Positives = 203/334 (60%), Gaps = 29/334 (8%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  +K I  D+VL  +  ++  A +   G     R++I+ +TG   L R+L   +E+ +
Sbjct: 10  AIERDKDIPFDMVLEAIETALLTAYKHTDGHEPHARIDIDRKTG---LVRVL--AQELGD 64

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                  +VAR+ D +            P  FGRVA  +A+QVI+Q++R+AE +R + EF
Sbjct: 65  -----DGQVAREWDDT------------PEGFGRVAATTARQVIVQRLRDAEHERTFGEF 107

Query: 135 KDKVGEIISGTVKRVEYGN----VIVDLGNS--DGVIRRDETISRENLRPGDRVKSYIYD 188
             K GEII+G V+     N    V+V L  S  +GV+ + E +  E  + GDR++ Y+  
Sbjct: 108 SAKEGEIITGEVQADSRANARGVVVVSLSGSQAEGVLPQTEQVPGERYQHGDRLRCYVLG 167

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V R  RG Q+ LSRTHP  + KLF +EVPE+ +G V++ AV+R+ G R K+AV S+   +
Sbjct: 168 VSRGPRGTQITLSRTHPNLVRKLFALEVPELVDGSVEIVAVAREAGHRTKIAVRSTVPGV 227

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA-IVTKVVLDEDVGR 307
           +P GAC+G  G+RV+ V++EL  EKIDI+ WS D ATFV NAL P+ +V+  V+D     
Sbjct: 228 NPKGACIGPMGARVRGVMSELAGEKIDIIDWSDDPATFVGNALSPSKVVSVTVIDAKTRT 287

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 288 ARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDI 321


>gi|19705318|ref|NP_602813.1| transcription elongation factor NusA [Fusobacterium nucleatum
           subsp. nucleatum ATCC 25586]
 gi|296328566|ref|ZP_06871085.1| transcription termination factor NusA [Fusobacterium nucleatum
           subsp. nucleatum ATCC 23726]
 gi|19713289|gb|AAL94112.1| N utilization substance protein A [Fusobacterium nucleatum subsp.
           nucleatum ATCC 25586]
 gi|296154375|gb|EFG95174.1| transcription termination factor NusA [Fusobacterium nucleatum
           subsp. nucleatum ATCC 23726]
          Length = 357

 Score =  228 bits (580), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 130/342 (38%), Positives = 213/342 (62%), Gaps = 7/342 (2%)

Query: 3   SANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISL 62
           S N LE L   D +  EK I ++ VL  +  ++  A +  YG   ++ V ++ E GDI +
Sbjct: 6   SKNFLEAL---DELEREKGISKESVLEAIELALLAAYKKNYGEDENVEVIVDRENGDIKV 62

Query: 63  F--RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           F  +++   +++ +   +ISL+ A+     + +G  +   +   DF R AVQ+ KQ++IQ
Sbjct: 63  FASKIIVNADDLLDPNKEISLEDAKKIKKRVKVGDTLKFEVNCEDFRRNAVQNGKQIVIQ 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPG 179
           KVREAER+  + +FK++   I++G ++R++   N+ +++   + ++   E    +  R G
Sbjct: 123 KVREAEREHIFNKFKEREDSIVTGIIRRIDNRKNIFIEIDGIELILPPAEQSISDVYRVG 182

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           +R+K YI  V +  + P++L+SR +   + KLF +E+PEI +GI+++K+V+R+ GSRAK+
Sbjct: 183 ERIKVYILSVEKTNKFPKILISRKNEGLLKKLFEIEIPEITSGIIEIKSVAREAGSRAKV 242

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV+S   +ID VGAC+G RG+R++ +V EL  E+IDIV W P    FV   L PA+V+ V
Sbjct: 243 AVYSEVPNIDTVGACIGQRGARIKNIVDELNGERIDIVEWKPVIEEFVSAVLSPAVVSNV 302

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            + ED G   V+V   QLSLAIG+ GQN RLA++LTG  +DI
Sbjct: 303 TILED-GTARVLVEPSQLSLAIGKNGQNARLAARLTGMRVDI 343


>gi|238063380|ref|ZP_04608089.1| transcription elongation factor nusA [Micromonospora sp. ATCC
           39149]
 gi|237885191|gb|EEP74019.1| transcription elongation factor nusA [Micromonospora sp. ATCC
           39149]
          Length = 347

 Score =  228 bits (580), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 135/341 (39%), Positives = 201/341 (58%), Gaps = 27/341 (7%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  E+ I  D +L+ +  ++  A R   G  S  RVEI+ + G   ++      +E+++
Sbjct: 10  ALEREREIPFDTILAAIETALLTAYRHTEGAESHARVEIDRKNGAALVY-----AQELDD 64

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                   V R+ D +            P DFGR+A  +AKQVI+Q++REA  +  + E+
Sbjct: 65  DGT-----VVREWDDT------------PHDFGRIAAMTAKQVILQRLREATDEVHFGEY 107

Query: 135 KDKVGEIISGTVK----RVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVR 190
             + G++++G V+    R E G V VDLG  +GV+ + E +  E    G+R++  +  V 
Sbjct: 108 VGRDGDLVTGVVQAHEARSEKGIVSVDLGKLEGVLPQSEQVPGERYTHGERIRCVVVHVA 167

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDP 250
           +  RGPQ+ LSR+HP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+   ++ 
Sbjct: 168 KGMRGPQITLSRSHPALVKKLFALEVPEIADGTVEIGAIAREAGHRTKIAVRSAVPGVNA 227

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIE 309
            GAC+G  G RV+AV++EL  EKIDI+ WS D ATFV NAL PA   +V V+D       
Sbjct: 228 KGACIGPMGQRVRAVMSELHGEKIDIIDWSDDPATFVGNALSPAKALRVEVVDLATRTAR 287

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
           V VP  QLSLAIGR GQN RLA++LTGW IDI ++ E +  
Sbjct: 288 VTVPDFQLSLAIGREGQNARLAARLTGWRIDIRSDAEQATT 328


>gi|324992028|gb|EGC23950.1| N utilization substance protein A [Streptococcus sanguinis SK405]
          Length = 420

 Score =  228 bits (580), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 140/419 (33%), Positives = 230/419 (54%), Gaps = 28/419 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ + E
Sbjct: 6   EMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTVRE 65

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++   +     P +FGRVA QSAKQ I++K+R+  R
Sbjct: 66  VVDEVFDSRLEISLKDALAISSAYELRDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTR 125

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ ++Y
Sbjct: 126 AITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVFVY 185

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S + +
Sbjct: 186 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHNPN 245

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 246 VDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAIAP 305

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
           A V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E      
Sbjct: 306 AEVDQVIFNQEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDIKSATE--FEEM 363

Query: 353 KDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           +  NE   F  +A   +EI+A   V E          V  +E    +   EET +E  G
Sbjct: 364 EAANELGGFAQEA---EEILADAAVLE--------TEVSAAEATDFDAAAEETVLETAG 411


>gi|320528334|ref|ZP_08029496.1| transcription termination factor NusA [Solobacterium moorei F0204]
 gi|320131248|gb|EFW23816.1| transcription termination factor NusA [Solobacterium moorei F0204]
          Length = 581

 Score =  228 bits (580), Expect = 3e-57,   Method: Compositional matrix adjust.
 Identities = 134/341 (39%), Positives = 207/341 (60%), Gaps = 3/341 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRV--EINPETGDISLFRL 65
           +LL     V  +K++  ++VL  + +++ KA +     + DI V  EIN ++  I +++ 
Sbjct: 7   QLLNAIRGVEDDKNVPENIVLEALTEAVAKAFKK-DSELQDIEVKAEINKKSKTIDIYQY 65

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEVE+   +ISL+ A+  D + ++GG V +        R A   AK V  QK+REA
Sbjct: 66  YNVVEEVEDDELEISLEDAKKLDSNAELGGQVREKKEITSMSRAAASLAKNVFRQKIREA 125

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E+   Y E+ D+  E++ GTV+ V+    ++ LG +  ++ +   I  E L  G  ++  
Sbjct: 126 EKVAVYNEYIDQKDEMVIGTVESVKDKFTLISLGKTVALLSKSAEIPHEKLTEGQSIRVV 185

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I DV++E +G QVL+SR     + +LF  EVPEIY G+V++K+++R+ G R K+AV S +
Sbjct: 186 ITDVQKETKGSQVLVSRADATLVKRLFEKEVPEIYQGVVEIKSIAREAGERTKMAVLSHN 245

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DP+G+C+G RGSRVQ ++ EL  EKIDI  W+ D    V NAL PA +  V+  +D 
Sbjct: 246 PDVDPIGSCIGPRGSRVQKIIDELHGEKIDIFQWNDDITELVKNALAPAEIISVLPGQDD 305

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             + VIV ++QLSLAIG+RG+N RLA +LTG  IDI T +E
Sbjct: 306 NSLLVIVSEDQLSLAIGKRGKNARLAVKLTGHKIDIKTRQE 346


>gi|149370939|ref|ZP_01890534.1| transcription elongation factor NusA [unidentified eubacterium
           SCB49]
 gi|149355725|gb|EDM44283.1| transcription elongation factor NusA [unidentified eubacterium
           SCB49]
          Length = 410

 Score =  228 bits (580), Expect = 3e-57,   Method: Compositional matrix adjust.
 Identities = 126/335 (37%), Positives = 205/335 (61%), Gaps = 7/335 (2%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVE--NYT 76
           +K IDR  +++++ +  + A +  YG+  +  + +NP+ GD+ ++R   VV +++  +  
Sbjct: 16  DKQIDRVTLMAILEEVFRNALKKKYGSDDNFDIIVNPDKGDLEIWRNRVVVADIDVMDPN 75

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +ISL  AR  +   ++G  VS  +  MD GR ++ + +Q +I K+ E +    Y +FKD
Sbjct: 76  EEISLTDARKIEDDFEVGEDVSQEVKLMDLGRRSILALRQNLISKIHEHDNTIIYKQFKD 135

Query: 137 KVGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
             GEI +  V  + +  VI+  D GN + ++ +D  I  +  R GD V+  +  V  +  
Sbjct: 136 MEGEIYTAEVHHIRHRAVILLDDEGN-EMIMPKDRQIPSDFFRKGDNVRGIVESVELKGN 194

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
            P +++SR  P F+ KLF  E+PE+++G++ VK V R PG +AK+AV + D  IDPVGAC
Sbjct: 195 KPTIIMSRASPLFLEKLFEQEIPEVFDGLINVKKVVRIPGEKAKVAVDTYDDRIDPVGAC 254

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPK 314
           VGM+GSR+  +V EL +E ID++ ++ +   F+  AL PA VT V ++E+  R EVI+  
Sbjct: 255 VGMKGSRIHGIVRELGNENIDVINYTENITLFITRALSPAKVTSVKVNEENKRAEVILKP 314

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITE--EED 347
           E++S AIGR G N+RLA QLTG+ ID++ E  EED
Sbjct: 315 EEVSKAIGRGGHNIRLAGQLTGYEIDVLREGAEED 349


>gi|15605801|ref|NP_213178.1| transcription elongation factor NusA [Aquifex aeolicus VF5]
 gi|2982967|gb|AAC06581.1| transcription termination NusA [Aquifex aeolicus VF5]
          Length = 337

 Score =  228 bits (580), Expect = 3e-57,   Method: Compositional matrix adjust.
 Identities = 115/242 (47%), Positives = 167/242 (69%), Gaps = 1/242 (0%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNS 161
           P D  R+A  +AK+   +++  AE++R YLEFK+  GEI+ G V++V E G+VIVDLG  
Sbjct: 76  PEDLNRLAAYAAKEEFYKELERAEQERGYLEFKELEGEIVYGIVRKVLENGDVIVDLGRI 135

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           D ++ + E +  +N + GD+VK+ + +VR+ +  P ++LSRTHP F+ KL   EVPEI  
Sbjct: 136 DAILPKREQLPTDNFKTGDKVKALLLEVRKRRGEPVLILSRTHPNFLRKLLEQEVPEIKE 195

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           G+V++KAV+R PG RAK+AV + +  +DPVG  VG++G R+Q V  EL  EKID++ WS 
Sbjct: 196 GLVEIKAVARIPGERAKVAVEAKEMKMDPVGIVVGLKGMRIQKVSEELGGEKIDVIRWSD 255

Query: 282 DSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           D A  +  AL PA   K+ L     R EV VP+E+LSLAIG++G NV+LAS+LTGW ID+
Sbjct: 256 DIAELIKRALAPAHPEKIKLFPYEKRAEVAVPEEELSLAIGKKGINVKLASKLTGWHIDV 315

Query: 342 IT 343
           ++
Sbjct: 316 LS 317


>gi|325286756|ref|YP_004262546.1| NusA antitermination factor [Cellulophaga lytica DSM 7489]
 gi|324322210|gb|ADY29675.1| NusA antitermination factor [Cellulophaga lytica DSM 7489]
          Length = 410

 Score =  228 bits (580), Expect = 3e-57,   Method: Compositional matrix adjust.
 Identities = 127/334 (38%), Positives = 203/334 (60%), Gaps = 5/334 (1%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYT 76
           +K IDR  +++++ +  + A +  +G+  +  + INP+ GD+ ++R   VVE  EVE   
Sbjct: 16  DKFIDRVTLMAILEEVFRNALKKKFGSDDNFDIIINPDKGDLEIWRNRIVVEDGEVEEPN 75

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +ISL  AR  +P  ++G  VS+ +  +D GR A+ + +Q +I K+ E +    Y +FKD
Sbjct: 76  EEISLTDARKIEPDFEVGEDVSEEVKLIDLGRRAILALRQNLIAKIHEHDNTTIYKQFKD 135

Query: 137 KVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
             GEI +  V  + +  VI VD   ++ V+ +D  I  +  R GD V+  I  V  +   
Sbjct: 136 LEGEIYTAEVHHIRHRAVILVDDEGNEIVMPKDRQIPSDFFRKGDNVRGIIESVELKGNK 195

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P +++SRT P+F+ +LF  E+PE+++G++ +K   R PG +AK+AV S D  IDPVGACV
Sbjct: 196 PSIIMSRTSPKFLEQLFFQEIPEVFDGLITIKKAVRIPGEKAKVAVDSYDDRIDPVGACV 255

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G++GSR+  +V EL +E ID+V W+ +    V  AL PA ++ V LD++    +V +  +
Sbjct: 256 GVKGSRIHGIVRELGNENIDVVNWTSNPQLLVTRALSPAKISSVKLDDEKMTAQVYLKPD 315

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITE--EED 347
           ++S AIGR G N+RLA QLTG+ ID+  E  EED
Sbjct: 316 EVSRAIGRGGHNIRLAGQLTGYEIDVFREGVEED 349


>gi|305665253|ref|YP_003861540.1| transcription elongation factor NusA [Maribacter sp. HTCC2170]
 gi|88710006|gb|EAR02238.1| transcription elongation factor NusA [Maribacter sp. HTCC2170]
          Length = 410

 Score =  227 bits (579), Expect = 3e-57,   Method: Compositional matrix adjust.
 Identities = 127/335 (37%), Positives = 204/335 (60%), Gaps = 7/335 (2%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYT 76
           +K IDR  +++++ D  + A +  +G+  +  + INP+ GD+ ++R   VVE  EVE   
Sbjct: 16  DKFIDRVTLMAILEDVFRNALKKKFGSDENFDIIINPDKGDLEIWRNRIVVEDGEVEEPN 75

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +ISL  A+  +P  ++G  VS+ +  +D GR A+ + +Q +I K+ E +    Y +FKD
Sbjct: 76  EEISLSEAQKIEPDFEVGEDVSEEVKLIDLGRRAILALRQNLISKIHEHDNTTIYKQFKD 135

Query: 137 KVGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
             GEI +  V  + +  VI+  D GN + ++ +D  I  +  R GD V+  I  V  +  
Sbjct: 136 LEGEIYTAEVHHIRHKAVILLDDEGN-EIILPKDRQIPSDFFRKGDNVRGIIESVELKGN 194

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
            P +++SR+ P+F+ +LF  E+PE+++G++ +K   R PG +AK+AV S D  IDPVGAC
Sbjct: 195 KPSIIMSRSSPRFLEQLFFQEIPEVFDGLITIKKAVRIPGEKAKVAVDSYDDRIDPVGAC 254

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPK 314
           VGM+GSR+  +V EL +E ID++ W+ +    V  AL PA V+ V L+++    +V +  
Sbjct: 255 VGMKGSRIHGIVRELGNENIDVINWTNNPQLLVTRALSPARVSSVKLNDEKMTAQVYLRP 314

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITE--EED 347
           E++S AIGR G N+RLA QLTG+ ID+  E  EED
Sbjct: 315 EEVSKAIGRGGHNIRLAGQLTGYEIDVFREGVEED 349


>gi|333029428|ref|ZP_08457489.1| NusA antitermination factor [Bacteroides coprosuis DSM 18011]
 gi|332740025|gb|EGJ70507.1| NusA antitermination factor [Bacteroides coprosuis DSM 18011]
          Length = 420

 Score =  227 bits (579), Expect = 3e-57,   Method: Compositional matrix adjust.
 Identities = 122/328 (37%), Positives = 205/328 (62%), Gaps = 3/328 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYTC 77
           K ID+  ++SV+ +S +     + GT  +  V +NP+ GD  ++R  EVV +  V +   
Sbjct: 21  KKIDKTTMISVLEESFRSVIAKIVGTDENYDVIVNPDQGDFEIWRNREVVADGDVTDENM 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QISL  AR  D S +IG  V+D +    FGR A+ + +Q +  K+ E E+D  Y ++ ++
Sbjct: 81  QISLTEARKTDESYEIGEEVTDKVHFESFGRRAILNLRQTLASKILELEKDSLYNKYIER 140

Query: 138 VGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG I+S  V ++    ++ VD   ++ ++ + E I R+  R G+ V++ +  V  +   P
Sbjct: 141 VGMIVSAEVYQIWKKEILLVDDEGNELILPKSEQIPRDFFRKGESVRAVVARVDNKNNNP 200

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +++LSRT P F+ +LF +EVPEI +G++ +K V+R PG RAK+AV S D  IDPVGACVG
Sbjct: 201 KIILSRTSPLFLERLFELEVPEINDGLITIKKVARIPGERAKVAVESYDDRIDPVGACVG 260

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           ++GSR+  +V EL +E ID++ ++ +   F+  +L PA ++ + L+E+  + E+ +  ++
Sbjct: 261 VKGSRIHGIVRELCNENIDVINYTSNIQLFIQRSLSPATISSIRLNEEEHKAEIFLQPDE 320

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +SLAIG+ G N++LAS LT +TID+  E
Sbjct: 321 VSLAIGKGGLNIKLASMLTEYTIDVFRE 348


>gi|294783786|ref|ZP_06749110.1| transcription termination factor NusA [Fusobacterium sp. 1_1_41FAA]
 gi|294480664|gb|EFG28441.1| transcription termination factor NusA [Fusobacterium sp. 1_1_41FAA]
          Length = 353

 Score =  227 bits (578), Expect = 4e-57,   Method: Compositional matrix adjust.
 Identities = 129/344 (37%), Positives = 218/344 (63%), Gaps = 6/344 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
            L+  D +  EK I ++ VL  +  ++  A +  YG   ++ V ++ E+G+I +     V
Sbjct: 9   FLEALDELEKEKGISKESVLEAIELALLAAYKKNYGEDENVEVIVDRESGEIKVLASKTV 68

Query: 69  VE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           V+  ++ +   +ISL+ A++    + IG V+   +   +F R AVQ+ KQ++IQKVREAE
Sbjct: 69  VDADDLLDPNEEISLEDAKEIKKRVKIGDVLKFEVSCDNFRRNAVQNGKQIVIQKVREAE 128

Query: 127 RDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           R+  Y +FK++  +I+SG ++R++   N+ +++   + ++   E    +  R G+R+K +
Sbjct: 129 REHIYEKFKERENDIVSGIIRRIDNKKNIFIEIDGIELILPPAEQSYSDIYRVGERIKVF 188

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y+V +  + P++L+SR +   + KLF +E+PEI  GI+++K+V+R+ GSRAK+AV+S  
Sbjct: 189 VYNVEKTNKFPKILISRKNEGLLKKLFEIEIPEISAGIIEIKSVAREAGSRAKVAVYSQV 248

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            +ID VGAC+G +G+R++ +V EL  E+IDIV W      FV   L PA+V+ V + ED 
Sbjct: 249 PNIDTVGACIGQKGTRIKNIVDELNGERIDIVEWKESMEQFVSAVLSPAVVSSVEILED- 307

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI--ITEEED 347
           G  +V+V   QLSLAIG+ GQN RLA++LTG  +DI  + +EED
Sbjct: 308 GTAKVLVEPSQLSLAIGKNGQNARLAARLTGTRVDIKVLEKEED 351


>gi|257055490|ref|YP_003133322.1| transcription elongation factor NusA [Saccharomonospora viridis DSM
           43017]
 gi|256585362|gb|ACU96495.1| transcription termination factor NusA [Saccharomonospora viridis
           DSM 43017]
          Length = 348

 Score =  227 bits (578), Expect = 4e-57,   Method: Compositional matrix adjust.
 Identities = 136/347 (39%), Positives = 202/347 (58%), Gaps = 27/347 (7%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  +K I  + VL  +  ++  A +   G     R++I+ +TG + +            
Sbjct: 10  AIEADKDIPFETVLEAIESALLTAYKHTEGRQPHARIDIDRKTGYVRVI----------A 59

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
           YT   + +V  + D +            P  FGR+A  +A+QVI+Q++R+AE ++ Y EF
Sbjct: 60  YTLDENGEVVEEWDDT------------PEGFGRIAAATARQVILQRLRDAEHEKTYGEF 107

Query: 135 KDKVGEIISGTVKRVEYGN----VIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVR 190
             + GEI++G V+R    N    VIV +G+++GV+   E +  E    G R+K+Y+  V 
Sbjct: 108 SAQEGEIVAGVVQRDAKANARGMVIVQVGDTEGVLPPAEQVPGEVYEHGARLKAYVVGVS 167

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDP 250
           R  RGPQ+ LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV S+   ++ 
Sbjct: 168 RTARGPQITLSRTHPNLVRKLFALEVPEIADGTVEITAVAREAGHRSKIAVRSTVPGVNA 227

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIE 309
            GAC+G  G+RV+ V++EL  EKIDI+  S D A FV NAL PA V  V V+DE      
Sbjct: 228 KGACIGHVGARVRNVMSELGGEKIDIIDHSDDPARFVGNALSPAKVVSVDVVDERTKTAR 287

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN 356
           VIVP  QLSLAIG+ GQN RLA++LTGW IDI ++       Q+  +
Sbjct: 288 VIVPDFQLSLAIGKEGQNARLAARLTGWRIDIRSDAAPEPGEQQHMD 334


>gi|146299389|ref|YP_001193980.1| transcription elongation factor NusA [Flavobacterium johnsoniae
           UW101]
 gi|146153807|gb|ABQ04661.1| NusA antitermination factor [Flavobacterium johnsoniae UW101]
          Length = 417

 Score =  227 bits (578), Expect = 4e-57,   Method: Compositional matrix adjust.
 Identities = 124/328 (37%), Positives = 203/328 (61%), Gaps = 3/328 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           K IDR  +++++ D  + A +  YG+  +  + INP+ GD+ ++R   +V  E+++    
Sbjct: 17  KLIDRVTLMAILEDVFRNALKKKYGSDDNFDIIINPDKGDMEIWRRRVIVADEDLDFENE 76

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +I+L  AR  +   +IG  VS+ +  +D GR A+ + +Q +I K+ E +    Y +FKD 
Sbjct: 77  EITLTEARMIEADFEIGEEVSEEVKLIDLGRRAILALRQNLISKIHEHDNTNLYKQFKDI 136

Query: 138 VGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           +G+I +  V  V    VI VD   ++ V+ +++ I  +  R GD V+  I  V  +   P
Sbjct: 137 IGDIYTAEVHHVRPRVVILVDDEGNEIVLPKEKQIPSDFFRKGDNVRGIIESVELKGNKP 196

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           Q+++SRT  +F+ KLF  E+PE+++G++ VK V R PG +AK+AV S D  IDPVGACVG
Sbjct: 197 QIIMSRTSEKFLEKLFEQEIPEVFDGLITVKNVVRIPGEKAKVAVDSYDDRIDPVGACVG 256

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           M+GSR+  +V EL +E ID++ ++ +   F+  AL PA V+ + +DE+  R EV +  E+
Sbjct: 257 MKGSRIHGIVRELGNENIDVINYTNNIQLFITRALSPAKVSSIKIDEESKRAEVFLKLEE 316

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +S AIGR G N++LA QLTG+ +D+I E
Sbjct: 317 VSKAIGRGGHNIKLAGQLTGYELDVIRE 344


>gi|296269042|ref|YP_003651674.1| NusA antitermination factor [Thermobispora bispora DSM 43833]
 gi|296091829|gb|ADG87781.1| NusA antitermination factor [Thermobispora bispora DSM 43833]
          Length = 333

 Score =  227 bits (578), Expect = 4e-57,   Method: Compositional matrix adjust.
 Identities = 134/342 (39%), Positives = 202/342 (59%), Gaps = 24/342 (7%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I  D+V+  + D++  A     G     R E++ ETG ++++      E  EN    
Sbjct: 14  EKDISFDLVVKAIEDALLIAYHRTEGAAPKARAELDRETGHVTIW----AAELDENG--- 66

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
              +V R+ D +            P +F R+A  +AKQVI+Q++R+AE +  + EF  + 
Sbjct: 67  ---EVIREYDDT------------PSNFSRIAATTAKQVILQQLRDAEDEINFGEFASRE 111

Query: 139 GEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
           GE++SG +++     V+ VDLG  + ++  +E +  E  R GDR++ Y+  V++  +GP 
Sbjct: 112 GELVSGVIQQGRDSRVVHVDLGKIEAILPPNEQVPGEEYRHGDRIRCYVVQVKKGPKGPS 171

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S    ++  GAC+G 
Sbjct: 172 VTLSRTHPNLVKKLFALEVPEIADGTVEIAAIAREAGHRTKIAVRSRRPGVNAKGACIGP 231

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQ 316
            GSRV+ V+ EL  EKIDI+ WS D A FV NAL PA V++V V+D +     V VP  Q
Sbjct: 232 MGSRVRNVMAELHGEKIDIIDWSEDPAEFVGNALSPARVSRVEVVDRENRVARVTVPDYQ 291

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           LSLAIG+ GQN RLA++LTGW IDI  + +++     D + R
Sbjct: 292 LSLAIGKEGQNARLAARLTGWRIDIRPDTQEAPADPADVSAR 333


>gi|313676538|ref|YP_004054534.1| nusa antitermination factor [Marivirga tractuosa DSM 4126]
 gi|312943236|gb|ADR22426.1| NusA antitermination factor [Marivirga tractuosa DSM 4126]
          Length = 413

 Score =  227 bits (578), Expect = 4e-57,   Method: Compositional matrix adjust.
 Identities = 125/347 (36%), Positives = 219/347 (63%), Gaps = 6/347 (1%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           L L++     A +K+IDR  ++ ++ D  +   R  Y T  +  + IN + GD+ ++R  
Sbjct: 4   LNLIESFADFARQKNIDRPTMIRILEDVFKTMIRKKYETDDNFDIIINADKGDLEIWRFR 63

Query: 67  EVV----EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           E+V    E++ ++  +ISL  AR  +P  +IG  V++ +    FGR AV +A+Q +IQKV
Sbjct: 64  EIVDDNSEDIWDHD-KISLTEARKIEPDFEIGEEVAEEVELEHFGRRAVTTARQTLIQKV 122

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++ E+D  + ++ + VGEII+G V ++     ++ D   ++ V+ + E I ++  R GD 
Sbjct: 123 KDLEKDILFNKYSELVGEIIAGEVYQILSRETLLTDADGNELVLLKSEQIPKDRFRKGDS 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ ++ V  +   P+++LSRT P F+ +LF  EVPE+Y+ ++ +K + R+PG RAK++V
Sbjct: 183 VRAVVHRVEMQNGNPKIILSRTSPVFLERLFEQEVPEVYDELITIKKIVREPGERAKVSV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  IDPVGACVGM+GSR+ ++V EL++E ID++ ++ +   ++  AL PA ++ + +
Sbjct: 243 ESYDDRIDPVGACVGMKGSRIHSIVRELQNENIDVINYTENMELYIQRALSPAKLSSMKI 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           D +  R+ V +  +Q+SLAIG+ GQN++LAS+L G  ID+  E  D+
Sbjct: 303 DVENKRVSVYLKPDQVSLAIGKGGQNIKLASKLVGMEIDVFRELTDA 349


>gi|291298941|ref|YP_003510219.1| NusA antitermination factor [Stackebrandtia nassauensis DSM 44728]
 gi|290568161|gb|ADD41126.1| NusA antitermination factor [Stackebrandtia nassauensis DSM 44728]
          Length = 347

 Score =  227 bits (578), Expect = 4e-57,   Method: Compositional matrix adjust.
 Identities = 138/328 (42%), Positives = 197/328 (60%), Gaps = 31/328 (9%)

Query: 23  DRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           +RD+    + D+I+ A  + Y       S  RVE+N ETG +++ R  EV  E       
Sbjct: 14  ERDIPFHTIIDAIESALLTAYRHTPDAQSHARVEVNRETGTVTV-RAREVDAE------- 65

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
               V R+ D +            P DFGR+A  +AKQVI+Q++REA  D  + EF    
Sbjct: 66  --GNVVREWDDT------------PDDFGRIAAMTAKQVIMQRLREATDDVNFGEFASLE 111

Query: 139 GEIISGTVK----RVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           G++++G ++      E G V+VDLG  + ++   E +  EN   G R+++ +  V R  R
Sbjct: 112 GDVVTGVIQAHEGASEKGTVMVDLGKIEAMLPHVEQVPGENYSHGRRLRAAVVQVSRGPR 171

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           GPQ+ +SR+HP  + KLF  EVPEI +G+V++ AV+R+ G R K+AV ++ + ++  GAC
Sbjct: 172 GPQITVSRSHPNLVKKLFAAEVPEIADGLVEIAAVAREAGHRTKIAVRATVADLNAKGAC 231

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVP 313
           +G  GSRV+AV++EL  EKIDI+ +S D ATFV NAL P+ V  V VLD D     V+VP
Sbjct: 232 IGPMGSRVRAVMSELDGEKIDIIDYSEDPATFVGNALSPSKVVSVEVLDPDDKVARVVVP 291

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             QLSLAIGR GQN RLA++LTGW IDI
Sbjct: 292 DFQLSLAIGREGQNARLAARLTGWRIDI 319


>gi|237742964|ref|ZP_04573445.1| transcription elongation factor NusA [Fusobacterium sp. 4_1_13]
 gi|256846936|ref|ZP_05552390.1| transcription termination factor NusA [Fusobacterium sp. 3_1_36A2]
 gi|229430612|gb|EEO40824.1| transcription elongation factor NusA [Fusobacterium sp. 4_1_13]
 gi|256717734|gb|EEU31293.1| transcription termination factor NusA [Fusobacterium sp. 3_1_36A2]
          Length = 357

 Score =  227 bits (578), Expect = 5e-57,   Method: Compositional matrix adjust.
 Identities = 132/342 (38%), Positives = 212/342 (61%), Gaps = 7/342 (2%)

Query: 3   SANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISL 62
           S N LE L   D +  EK I ++ VL  +  ++  A +  YG   ++ V ++   GDI +
Sbjct: 6   SKNFLEAL---DELEREKGISKESVLEAIELALLAAYKKNYGEDENVEVVVDRANGDIKV 62

Query: 63  FRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           F    VV+   + +   +ISL+ A+     + IG V+   +   +F R AVQ+ KQ++IQ
Sbjct: 63  FASKTVVDADNLLDPNEEISLEDAKQIKKRVKIGDVLKFEVDCENFRRNAVQNGKQIVIQ 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPG 179
           KVREAER+  + +FK++   I++G ++R++   N+ +++   + ++   E    +  R G
Sbjct: 123 KVREAEREHIFNKFKEREDNIVTGIIRRIDNRKNIFIEIDGIELILPPAEQSLSDVYRVG 182

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           +R+K YI  V +  + P++L+SR +   + KLF +E+PEI +GI+++K+V+R+ GSRAK+
Sbjct: 183 ERIKVYILSVEKTNKFPKILISRKNEGLLKKLFEIEIPEITSGIIEIKSVAREAGSRAKV 242

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV+S+  +ID VGAC+G RG+R++ +V EL  E+IDIV W P    FV   L PA+V+ V
Sbjct: 243 AVYSAVPNIDTVGACIGQRGARIKNIVDELNGERIDIVEWKPVVEEFVSAVLSPAVVSNV 302

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            + ED G   V+V   QLSLAIG+ GQN RLA++LTG  +DI
Sbjct: 303 TILED-GTARVLVEPSQLSLAIGKNGQNARLAARLTGMRVDI 343


>gi|257452235|ref|ZP_05617534.1| transcription elongation factor NusA [Fusobacterium sp. 3_1_5R]
 gi|317058778|ref|ZP_07923263.1| transcription elongation factor NusA [Fusobacterium sp. 3_1_5R]
 gi|313684454|gb|EFS21289.1| transcription elongation factor NusA [Fusobacterium sp. 3_1_5R]
          Length = 353

 Score =  226 bits (577), Expect = 5e-57,   Method: Compositional matrix adjust.
 Identities = 130/344 (37%), Positives = 210/344 (61%), Gaps = 3/344 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M + +    L+  D +  EK I+++ +L  +  ++  A +  YG   ++ V I+ E GD+
Sbjct: 1   MTNKDARAFLEALDELEKEKGIEKESLLQAVEQALLTAYKKNYGDEENVEVVIDRENGDV 60

Query: 61  SLFRLLEVVEEVENY--TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++ + +VV E + Y    +ISL+ A+       +G  V   +    F R A+Q+ KQ++
Sbjct: 61  KVYEVKKVVTEEDLYDAALEISLEEAKKISRRAKLGEEVRIEVDCESFRRNAIQNGKQIV 120

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLR 177
           IQKVREAER+  Y  FK + GEI++G ++R+ E  NV ++ G  + ++   E    +  +
Sbjct: 121 IQKVREAERENIYDRFKAQEGEILTGIIRRIDERKNVFIEFGGIETILTAGEQCVSDRYK 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+R+K Y+ +V +  + P++++SR H   + KLF +E+PEI +G +++KAV+R+ GSRA
Sbjct: 181 VGNRIKVYLVEVEKTNKFPKIVISRRHEGLLRKLFELEIPEISSGAIEIKAVAREAGSRA 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV+S   +ID VGAC+G + +R++ +V EL  EKIDIV+W  +   FV   L PA V 
Sbjct: 241 KVAVYSELPNIDIVGACIGQKRARIKNIVDELGGEKIDIVIWKENMEEFVSAVLSPAKVN 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            V L ED     V+V + QLSLAIG+ GQN RLA++LTG  +DI
Sbjct: 301 SVELLEDGETARVLVDESQLSLAIGKSGQNARLAAKLTGMRVDI 344


>gi|269215361|ref|ZP_06159215.1| transcription termination factor NusA [Slackia exigua ATCC 700122]
 gi|269131217|gb|EEZ62291.1| transcription termination factor NusA [Slackia exigua ATCC 700122]
          Length = 395

 Score =  226 bits (577), Expect = 5e-57,   Method: Compositional matrix adjust.
 Identities = 137/351 (39%), Positives = 207/351 (58%), Gaps = 42/351 (11%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+A+E+ ID   ++  +  S+ K+ +++     + RV I+  TG I ++ L+ V E    
Sbjct: 6   ALAHERKIDEFYLIERLEASLAKSYQNILDLEWEARVTIDRSTGRIYVYELVPVGEP--- 62

Query: 75  YTCQISLKVARDRDPSI-DIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
                        DP   +        + P +  R A Q+AK VI   VREA R   Y E
Sbjct: 63  -------------DPETGEYADFEEKDVTPANVSRTAAQNAKSVIAAIVREAGRQSIYEE 109

Query: 134 FKDKVGEIISGTVKRVEYGNVIVDLGNSDGV--------IRR-----DETISRENLRPGD 180
           F+D+V +I+ GTV +      I+ +   +GV        ++R     +E  + E  R   
Sbjct: 110 FRDRVDDIVGGTVLQTTPDFTIIKI--REGVEAELPHYDLKRFPDEQNEVPAGERYRHNQ 167

Query: 181 RVKSYIYDVRR----------EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVS 230
           R+K+ I +VR           EQ  P +++SRTHP  + +LF +EVPEIY+G+V++K+++
Sbjct: 168 RIKTVIIEVRDPRSMEPRARGEQTRPSIVVSRTHPSLIRRLFEIEVPEIYDGVVEIKSIA 227

Query: 231 RDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA 290
           R+ G+R+K+AV S +S++DPVGACVG +GSRV+ VV ELR+E++D++ WS D A +V NA
Sbjct: 228 REAGARSKVAVASRESNLDPVGACVGPKGSRVRMVVEELRNERVDVIQWSDDPAKYVANA 287

Query: 291 LRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           L PA VT+V +DED     V+VP +QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 288 LSPARVTRVTIDEDKQYATVVVPDDQLSLAIGKEGQNARLAARLTGWHIDI 338


>gi|260060676|ref|YP_003193756.1| transcription elongation factor NusA [Robiginitalea biformata
           HTCC2501]
 gi|88784806|gb|EAR15975.1| transcription elongation factor NusA [Robiginitalea biformata
           HTCC2501]
          Length = 410

 Score =  226 bits (577), Expect = 5e-57,   Method: Compositional matrix adjust.
 Identities = 127/347 (36%), Positives = 210/347 (60%), Gaps = 7/347 (2%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           L L++       +K IDR  +++++ +  + A +  +G+  +  + INP+ GD+ ++R  
Sbjct: 4   LALIESFSEFKDDKFIDRVTLMAILEEVFRAALKRKFGSDDNFDIIINPDKGDLEIWRNR 63

Query: 67  EVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
            VV   EVE    +ISL  AR  +P  ++G  VS+ +  +D GR ++ + +Q +I K+ E
Sbjct: 64  VVVPDGEVEEPNEEISLSEARKIEPDFEVGEDVSEEVKLIDLGRRSILALRQNLIAKIHE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRV 182
            +    Y +FKD  GEI +  V  + +  +I+  D GN + ++ +++ I  +  R GD V
Sbjct: 124 HDNTTIYKQFKDLEGEIYTAEVHHIRHKAIILLDDEGN-ELIMPKEKQIPSDFFRKGDNV 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  I  V  +   P +++SRT P+F+ +LFH E+PE+++G++ +K   R PG +AK+AV 
Sbjct: 183 RGIIESVELKGNKPLIIMSRTSPKFLEQLFHQEIPEVFDGLITIKKAVRIPGEKAKVAVD 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDPVGACVGM+GSR+  +V EL +E ID++ W+ +    V  +L PA VT+V L+
Sbjct: 243 SYDDRIDPVGACVGMKGSRIHGIVRELGNENIDVINWTNNPQLMVTRSLSPARVTQVKLN 302

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE--EED 347
           ++    +V +  E++S AIGR G N+RLA QLTG+ ID+  E  EED
Sbjct: 303 DENMTAQVYLKPEEVSKAIGRGGHNIRLAGQLTGYEIDVYREGVEED 349


>gi|146319503|ref|YP_001199215.1| transcription elongation factor NusA [Streptococcus suis 05ZYH33]
 gi|146321698|ref|YP_001201409.1| transcription elongation factor NusA [Streptococcus suis 98HAH33]
 gi|223934079|ref|ZP_03626028.1| NusA antitermination factor [Streptococcus suis 89/1591]
 gi|253752514|ref|YP_003025655.1| N utilization substance protein A [Streptococcus suis SC84]
 gi|253754340|ref|YP_003027481.1| N utilization substance protein A [Streptococcus suis P1/7]
 gi|253756274|ref|YP_003029414.1| N utilization substance protein A [Streptococcus suis BM407]
 gi|302024448|ref|ZP_07249659.1| transcription elongation factor NusA [Streptococcus suis 05HAS68]
 gi|145690309|gb|ABP90815.1| Transcription elongation factor [Streptococcus suis 05ZYH33]
 gi|145692504|gb|ABP93009.1| Transcription elongation factor [Streptococcus suis 98HAH33]
 gi|223897249|gb|EEF63661.1| NusA antitermination factor [Streptococcus suis 89/1591]
 gi|251816803|emb|CAZ52446.1| putative N utilization substance protein A [Streptococcus suis
           SC84]
 gi|251818738|emb|CAZ56574.1| putative N utilization substance protein A [Streptococcus suis
           BM407]
 gi|251820586|emb|CAR47342.1| putative N utilization substance protein A [Streptococcus suis
           P1/7]
 gi|292559121|gb|ADE32122.1| transcription termination factor NusA [Streptococcus suis GZ1]
 gi|319758923|gb|ADV70865.1| transcription elongation factor NusA [Streptococcus suis JS14]
          Length = 380

 Score =  226 bits (577), Expect = 6e-57,   Method: Compositional matrix adjust.
 Identities = 125/354 (35%), Positives = 206/354 (58%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +  I++  ++  + +S++ A +  YG      +E + + GD  +F + E
Sbjct: 4   EMLEAFRILEEDMGINKADIIDAVTESLRSAYKRRYGQSESAVIEFDEKKGDFHVFTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+ +R
Sbjct: 64  VVDEVFDSRLEISLKDALAISSAYEMGDKIKFQEDPAEFGRVAAQSAKQTIMEKMRKQKR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              +  +K    EI+SGTV+R +   + V+LG  +  + + + I  E  +  DR++ Y+Y
Sbjct: 124 AITFNTYKQHENEIMSGTVERFDNRFIYVNLGTIEAQLSKQDQIPGEVFQSHDRIEVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + +
Sbjct: 184 KVEDNGRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ + ++                +E ID++ W  D A F+ NAL P
Sbjct: 244 VDAIGTIVGRGGSNIKKITSKFHPARYDAKNDRMIPTEENIDVIEWVADEAEFIYNALAP 303

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V +V+ D ED     V+VP ++LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDQVLFDTEDGKHATVVVPDDKLSLAIGRRGQNVRLAAHLTGFRIDIKSASE 357


>gi|237739230|ref|ZP_04569711.1| transcription elongation factor NusA [Fusobacterium sp. 2_1_31]
 gi|229422838|gb|EEO37885.1| transcription elongation factor NusA [Fusobacterium sp. 2_1_31]
          Length = 353

 Score =  226 bits (576), Expect = 6e-57,   Method: Compositional matrix adjust.
 Identities = 129/343 (37%), Positives = 217/343 (63%), Gaps = 5/343 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
            L+  D +  EK I ++ VL  +  ++  A +  YG   ++ V ++ E+G+I +     V
Sbjct: 9   FLEALDELEKEKGISKESVLEAIELALLAAYKKNYGEDENVEVIVDRESGEIKVLASKTV 68

Query: 69  VE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           V+  ++ +   +ISL+ A++      IG V+   +   +F R AVQ+ KQ++IQKVREAE
Sbjct: 69  VDADDLLDPNEEISLEDAKEIKKRAKIGDVLKFEVSCDNFRRNAVQNGKQIVIQKVREAE 128

Query: 127 RDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           R+  Y +FK++  +I+SG ++R++   N+ +++   + ++   E    +  R G+R+K +
Sbjct: 129 REHIYEKFKERENDIVSGIIRRIDNKKNIFIEIDGIELILPPAEQSYSDIYRVGERIKVF 188

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y+V +  + P++L+SR +   + KLF +E+PEI  GI+++K+V+R+ GSRAK+AV+S  
Sbjct: 189 VYNVEKTNKFPKILISRKNEGLLKKLFEIEIPEISAGIIEIKSVAREAGSRAKVAVYSEV 248

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            +ID VGAC+G +G+R++ +V EL  E+IDIV W      FV   L PA+V+ V + ED 
Sbjct: 249 PNIDTVGACIGQKGTRIKNIVDELNGERIDIVEWKESMEQFVSAVLSPAVVSSVEILED- 307

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI-ITEEED 347
           G  +V+V   QLSLAIG+ GQN RLA++LTG  +DI + E+ED
Sbjct: 308 GTAKVLVEPSQLSLAIGKNGQNARLAARLTGTRVDIKVLEKED 350


>gi|225011158|ref|ZP_03701620.1| NusA antitermination factor [Flavobacteria bacterium MS024-3C]
 gi|225004720|gb|EEG42680.1| NusA antitermination factor [Flavobacteria bacterium MS024-3C]
          Length = 410

 Score =  226 bits (576), Expect = 7e-57,   Method: Compositional matrix adjust.
 Identities = 124/335 (37%), Positives = 205/335 (61%), Gaps = 7/335 (2%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVE--NYT 76
           +K IDR  +++++ +  + A +  +G+  +  + INP+ GD+ ++R   VVE+++  +  
Sbjct: 16  DKFIDRVTLMAILEEVFRSALKKKFGSDDNFDIIINPDKGDLEIWRNRVVVEDIDVMDPN 75

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +IS+  AR  +P  ++G  VS+ +  +D GR A+ + +Q +I K+ E +    Y +FKD
Sbjct: 76  EEISITEARKIEPDFEVGEDVSEEVKLIDLGRRAILALRQNLIAKIHEHDNTTIYKQFKD 135

Query: 137 KVGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
             GEI +  V  + +  +I+  D GN + ++ +D+ I  +  R GD V+  I  V  +  
Sbjct: 136 LEGEIYTAEVHHIRHQAIILLDDEGN-EIILPKDKQIPADFFRKGDNVRGIIESVELKGN 194

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
            P +++SRT P F+ +LF  E+PE+++G++ +K   R PG +AK+AV S D  IDPVGAC
Sbjct: 195 KPSIIMSRTSPLFLEQLFFQEIPEVFDGLITIKKAVRIPGEKAKVAVDSYDDRIDPVGAC 254

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPK 314
           VGM+GSR+  +V EL +E ID++ W+ +    V  AL PA V+ V LD++    +V +  
Sbjct: 255 VGMKGSRIHGIVKELGNENIDVINWTNNPTLLVTRALSPARVSSVKLDDEKMTAQVYLKP 314

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITE--EED 347
           E++S AIGR G N+RLA QLTG+ ID+  E  EED
Sbjct: 315 EEVSKAIGRGGHNIRLAGQLTGYEIDVFREGVEED 349


>gi|312134896|ref|YP_004002234.1| transcription termination factor nusa [Caldicellulosiruptor
           owensensis OL]
 gi|311774947|gb|ADQ04434.1| transcription termination factor NusA [Caldicellulosiruptor
           owensensis OL]
          Length = 353

 Score =  226 bits (576), Expect = 7e-57,   Method: Compositional matrix adjust.
 Identities = 129/341 (37%), Positives = 202/341 (59%), Gaps = 9/341 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG----TMSDIRVEINPETGDISLF 63
           EL    D +  E  I++D V SV+  ++  A + + G     +S+++V I+PE G + ++
Sbjct: 12  ELFSAIDELEREYKIEKDYVYSVLESALLTAYKQVKGIKDKNLSNVKVSIDPEKGSVKIY 71

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
              +VVE V++   +I L+ A+  D    IG +V+  +P   F R A  + +Q +I K+R
Sbjct: 72  EYKKVVENVKDKKSEILLEDAQKIDKRYKIGDIVAIEVPISQFSRKAAMTVRQTVIGKIR 131

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGDR 181
           E  R   + ++  KV  I++G ++R++  NVIV++  G  + ++  +E I  E  +PG  
Sbjct: 132 EKRRSIIFEDYSSKVDNIVTGVIQRIDKKNVIVEIEGGKVEAILPMEEQIPGEEYKPGVM 191

Query: 182 VKSYIYDVR--REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           +K YI +V+   +++ P V LSRTHP  + +L   EVPEI  GI+++KA++R+ GSR+K+
Sbjct: 192 MKFYITEVKIPPKEKEPIVYLSRTHPNLIKRLMENEVPEIQEGIIEIKAIAREAGSRSKV 251

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV+S+   +DPVGAC+G +G R+Q V+  L  EKIDIV WS D   F+ NAL PA V  +
Sbjct: 252 AVYSNSLKVDPVGACIGEKGIRIQNVLKHLNGEKIDIVKWSSDIGEFIKNALSPAEVVHI 311

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
            L+    +  V+VP  QLSLAIGR G   R A   T W  D
Sbjct: 312 DLNLIEKKAFVLVPNSQLSLAIGRGGTE-RSACSKTDWLED 351


>gi|157151698|ref|YP_001449859.1| transcription elongation factor NusA [Streptococcus gordonii str.
           Challis substr. CH1]
 gi|157076492|gb|ABV11175.1| transcription termination factor NusA [Streptococcus gordonii str.
           Challis substr. CH1]
          Length = 413

 Score =  226 bits (576), Expect = 8e-57,   Method: Compositional matrix adjust.
 Identities = 123/354 (34%), Positives = 207/354 (58%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L     +  +K I ++ ++  + +S++ A R  YG      ++ + + GD  ++ + E
Sbjct: 4   EMLDAFRILEEDKGIKKEDIIDAVKESLRSAYRRRYGQADSALIDFDEKKGDFHVYTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +     P++FGRVA QSAKQ I++K+R+  R
Sbjct: 64  VVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPVEFGRVAAQSAKQTIMEKMRKQTR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ ++Y
Sbjct: 124 TITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEIFASHDRIEVFVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + +
Sbjct: 184 KVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRGGANIKKITSKFHPAKYDAKSDRMIPVEENIDVIEWVADPAEFIYNAIAP 303

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDQVIFNAEDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|302537260|ref|ZP_07289602.1| transcription termination factor NusA [Streptomyces sp. C]
 gi|302446155|gb|EFL17971.1| transcription termination factor NusA [Streptomyces sp. C]
          Length = 333

 Score =  226 bits (576), Expect = 8e-57,   Method: Compositional matrix adjust.
 Identities = 120/246 (48%), Positives = 166/246 (67%), Gaps = 2/246 (0%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNS 161
           P DFGR+A  +AKQVI+Q++R+AE D  + EF  + G++I+G V++  +  NV+VD+G  
Sbjct: 79  PSDFGRIAATTAKQVILQRLRDAEDDLTFGEFAGREGDVITGVVQQGKDPKNVLVDIGKL 138

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           + ++   E +  E    G R+K+Y+  V +  RGP V LSRTHP  + KLF +EVPEI +
Sbjct: 139 EAILPVQEQVPGEEYTHGLRLKTYVVRVAKGVRGPSVTLSRTHPNLVKKLFALEVPEIAD 198

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           G V++ A++R+ G R K+AV S+ S ++P GAC+G  G+RV+ V+ EL  EKIDIV WS 
Sbjct: 199 GSVEISAIAREAGHRTKIAVRSTRSGLNPKGACIGPMGARVRNVMAELHGEKIDIVDWSD 258

Query: 282 DSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D A  V NAL PA V+KV V+D D     V VP  QLSLAIG+ GQN RLA++LTGW ID
Sbjct: 259 DPAEMVANALSPARVSKVEVVDWDTRSARVTVPDYQLSLAIGKEGQNARLAARLTGWRID 318

Query: 341 IITEEE 346
           I  + E
Sbjct: 319 IRPDTE 324


>gi|314923905|gb|EFS87736.1| transcription termination factor NusA [Propionibacterium acnes
           HL001PA1]
 gi|314966035|gb|EFT10134.1| transcription termination factor NusA [Propionibacterium acnes
           HL082PA2]
 gi|315094983|gb|EFT66959.1| transcription termination factor NusA [Propionibacterium acnes
           HL060PA1]
 gi|315104208|gb|EFT76184.1| transcription termination factor NusA [Propionibacterium acnes
           HL050PA2]
 gi|327328082|gb|EGE69851.1| transcription termination factor NusA [Propionibacterium acnes
           HL103PA1]
          Length = 323

 Score =  226 bits (575), Expect = 8e-57,   Method: Compositional matrix adjust.
 Identities = 119/242 (49%), Positives = 164/242 (67%), Gaps = 3/242 (1%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV--EYGNVIVDLGN 160
           P DFGRVA  +A+QVI Q++REAE +++Y  F    G++I+G V++   +   V VDLG+
Sbjct: 76  PEDFGRVAASTARQVIFQRLREAEDEQKYGHFSAVEGDVITGVVQQSYRDTRTVRVDLGS 135

Query: 161 SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIY 220
            +G++   E +  E    G R++ Y+  VR+E RGPQV++SRTHP  + KLF MEVPEI 
Sbjct: 136 LEGIMPPAEQVPGEKYSHGRRIRVYVVAVRKEARGPQVIVSRTHPNLVRKLFAMEVPEIE 195

Query: 221 NGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
            G+V++KA++R+ G R+K+AV S +  +   GAC+G  G RV+AV+ EL +EKIDI+ WS
Sbjct: 196 QGVVEIKALAREAGHRSKIAVVSHNPDVSAKGACIGPMGQRVRAVMHELDEEKIDIIDWS 255

Query: 281 PDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
            D A FV  AL P+ V+ V V+D        IVP  QLSLAIGR GQN RLA++LTGW I
Sbjct: 256 GDPAEFVGAALSPSKVSSVTVIDSKAKTARAIVPDYQLSLAIGREGQNARLAARLTGWRI 315

Query: 340 DI 341
           DI
Sbjct: 316 DI 317


>gi|294784277|ref|ZP_06749572.1| transcription termination factor NusA [Fusobacterium sp. 3_1_27]
 gi|294488143|gb|EFG35494.1| transcription termination factor NusA [Fusobacterium sp. 3_1_27]
          Length = 357

 Score =  226 bits (575), Expect = 9e-57,   Method: Compositional matrix adjust.
 Identities = 132/342 (38%), Positives = 212/342 (61%), Gaps = 7/342 (2%)

Query: 3   SANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISL 62
           S N LE L   D +  EK I ++ VL  +  ++  A +  YG   ++ V ++   GDI +
Sbjct: 6   SKNFLEAL---DELEREKGISKESVLEAIELALLAAYKKNYGEDENVEVVVDRANGDIKV 62

Query: 63  FRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           F    VV+   + +   +ISL+ A+     + IG V+   +   +F R AVQ+ KQ++IQ
Sbjct: 63  FASKTVVDADNLLDPNEEISLEDAKQIKKRVKIGDVLKFEVDCENFRRNAVQNGKQIVIQ 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPG 179
           KVREAER+  + +FK++   I++G ++R++   N+ +++   + ++   E    +  R G
Sbjct: 123 KVREAEREHIFNKFKEREDSIVTGIIRRIDNRKNIFIEIDGIELILPPVEQSLSDVYRVG 182

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           +R+K YI  V +  + P++L+SR +   + KLF +E+PEI +GI+++K+V+R+ GSRAK+
Sbjct: 183 ERIKVYILSVEKTNKFPKILISRKNEGLLKKLFEIEIPEITSGIIEIKSVAREAGSRAKV 242

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV+S+  +ID VGAC+G RG+R++ +V EL  E+IDIV W P    FV   L PA+V+ V
Sbjct: 243 AVYSAVPNIDTVGACIGQRGARIKNIVDELNGERIDIVEWKPVVEEFVSAVLSPAVVSNV 302

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            + ED G   V+V   QLSLAIG+ GQN RLA++LTG  +DI
Sbjct: 303 TILED-GTARVLVEPSQLSLAIGKNGQNARLAARLTGMRVDI 343


>gi|262282171|ref|ZP_06059940.1| transcription termination factor NusA [Streptococcus sp. 2_1_36FAA]
 gi|262262625|gb|EEY81322.1| transcription termination factor NusA [Streptococcus sp. 2_1_36FAA]
          Length = 413

 Score =  226 bits (575), Expect = 9e-57,   Method: Compositional matrix adjust.
 Identities = 121/343 (35%), Positives = 202/343 (58%), Gaps = 15/343 (4%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           +K I ++ ++  + +S++ A R  YG      ++ + + GD  ++ + EVV+EV +   +
Sbjct: 15  DKGIKKEDIIDAVKESLRSAYRRRYGQADSALIDFDEKKGDFHVYTVREVVDEVFDSRLE 74

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+  R   Y  +K+  
Sbjct: 75  ISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTRTITYNTYKEHE 134

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
            EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ ++Y V    RG  V
Sbjct: 135 NEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVFVYKVEDNPRGVNV 194

Query: 199 LLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMR 258
            +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + ++D +G  VG  
Sbjct: 195 FVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPNVDAIGTIVGRG 254

Query: 259 GSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRPAIVTKVVLD-E 303
           G+ ++ + ++                +E ID++ W  D A F+ NA+ PA V +V+ + E
Sbjct: 255 GANIKKITSKFHPAKYDAKSDRMVPVEENIDVIEWVADPAEFIYNAIAPAEVDQVIFNAE 314

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 315 DNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE 357


>gi|50842972|ref|YP_056199.1| transcription elongation factor NusA [Propionibacterium acnes
           KPA171202]
 gi|289426473|ref|ZP_06428216.1| transcription termination factor NusA [Propionibacterium acnes
           SK187]
 gi|289428703|ref|ZP_06430386.1| transcription termination factor NusA [Propionibacterium acnes
           J165]
 gi|295131043|ref|YP_003581706.1| transcription termination factor NusA [Propionibacterium acnes
           SK137]
 gi|50840574|gb|AAT83241.1| transcriptional termination/antitermination factor
           [Propionibacterium acnes KPA171202]
 gi|289153201|gb|EFD01919.1| transcription termination factor NusA [Propionibacterium acnes
           SK187]
 gi|289158101|gb|EFD06321.1| transcription termination factor NusA [Propionibacterium acnes
           J165]
 gi|291377248|gb|ADE01103.1| transcription termination factor NusA [Propionibacterium acnes
           SK137]
 gi|313763591|gb|EFS34955.1| transcription termination factor NusA [Propionibacterium acnes
           HL013PA1]
 gi|313773529|gb|EFS39495.1| transcription termination factor NusA [Propionibacterium acnes
           HL074PA1]
 gi|313793985|gb|EFS42009.1| transcription termination factor NusA [Propionibacterium acnes
           HL110PA1]
 gi|313801372|gb|EFS42623.1| transcription termination factor NusA [Propionibacterium acnes
           HL110PA2]
 gi|313807949|gb|EFS46430.1| transcription termination factor NusA [Propionibacterium acnes
           HL087PA2]
 gi|313811582|gb|EFS49296.1| transcription termination factor NusA [Propionibacterium acnes
           HL083PA1]
 gi|313813358|gb|EFS51072.1| transcription termination factor NusA [Propionibacterium acnes
           HL025PA1]
 gi|313816771|gb|EFS54485.1| transcription termination factor NusA [Propionibacterium acnes
           HL059PA1]
 gi|313819518|gb|EFS57232.1| transcription termination factor NusA [Propionibacterium acnes
           HL046PA2]
 gi|313822158|gb|EFS59872.1| transcription termination factor NusA [Propionibacterium acnes
           HL036PA1]
 gi|313823608|gb|EFS61322.1| transcription termination factor NusA [Propionibacterium acnes
           HL036PA2]
 gi|313825931|gb|EFS63645.1| transcription termination factor NusA [Propionibacterium acnes
           HL063PA1]
 gi|313829611|gb|EFS67325.1| transcription termination factor NusA [Propionibacterium acnes
           HL063PA2]
 gi|313831322|gb|EFS69036.1| transcription termination factor NusA [Propionibacterium acnes
           HL007PA1]
 gi|313834932|gb|EFS72646.1| transcription termination factor NusA [Propionibacterium acnes
           HL056PA1]
 gi|313839907|gb|EFS77621.1| transcription termination factor NusA [Propionibacterium acnes
           HL086PA1]
 gi|314914745|gb|EFS78576.1| transcription termination factor NusA [Propionibacterium acnes
           HL005PA4]
 gi|314919293|gb|EFS83124.1| transcription termination factor NusA [Propionibacterium acnes
           HL050PA1]
 gi|314920797|gb|EFS84628.1| transcription termination factor NusA [Propionibacterium acnes
           HL050PA3]
 gi|314924649|gb|EFS88480.1| transcription termination factor NusA [Propionibacterium acnes
           HL036PA3]
 gi|314930476|gb|EFS94307.1| transcription termination factor NusA [Propionibacterium acnes
           HL067PA1]
 gi|314954366|gb|EFS98772.1| transcription termination factor NusA [Propionibacterium acnes
           HL027PA1]
 gi|314957448|gb|EFT01551.1| transcription termination factor NusA [Propionibacterium acnes
           HL002PA1]
 gi|314962084|gb|EFT06185.1| transcription termination factor NusA [Propionibacterium acnes
           HL002PA2]
 gi|314963663|gb|EFT07763.1| transcription termination factor NusA [Propionibacterium acnes
           HL082PA1]
 gi|314968509|gb|EFT12607.1| transcription termination factor NusA [Propionibacterium acnes
           HL037PA1]
 gi|314974197|gb|EFT18293.1| transcription termination factor NusA [Propionibacterium acnes
           HL053PA1]
 gi|314976694|gb|EFT20789.1| transcription termination factor NusA [Propionibacterium acnes
           HL045PA1]
 gi|314984332|gb|EFT28424.1| transcription termination factor NusA [Propionibacterium acnes
           HL005PA1]
 gi|314986521|gb|EFT30613.1| transcription termination factor NusA [Propionibacterium acnes
           HL005PA2]
 gi|314990880|gb|EFT34971.1| transcription termination factor NusA [Propionibacterium acnes
           HL005PA3]
 gi|315079513|gb|EFT51506.1| transcription termination factor NusA [Propionibacterium acnes
           HL053PA2]
 gi|315081257|gb|EFT53233.1| transcription termination factor NusA [Propionibacterium acnes
           HL078PA1]
 gi|315083455|gb|EFT55431.1| transcription termination factor NusA [Propionibacterium acnes
           HL027PA2]
 gi|315087141|gb|EFT59117.1| transcription termination factor NusA [Propionibacterium acnes
           HL002PA3]
 gi|315095336|gb|EFT67312.1| transcription termination factor NusA [Propionibacterium acnes
           HL038PA1]
 gi|315099219|gb|EFT71195.1| transcription termination factor NusA [Propionibacterium acnes
           HL059PA2]
 gi|315100430|gb|EFT72406.1| transcription termination factor NusA [Propionibacterium acnes
           HL046PA1]
 gi|315106776|gb|EFT78752.1| transcription termination factor NusA [Propionibacterium acnes
           HL030PA1]
 gi|315109017|gb|EFT80993.1| transcription termination factor NusA [Propionibacterium acnes
           HL030PA2]
 gi|327328401|gb|EGE70163.1| transcription termination factor NusA [Propionibacterium acnes
           HL096PA2]
 gi|327329733|gb|EGE71489.1| transcription termination factor NusA [Propionibacterium acnes
           HL096PA3]
 gi|327444188|gb|EGE90842.1| transcription termination factor NusA [Propionibacterium acnes
           HL043PA2]
 gi|327444933|gb|EGE91587.1| transcription termination factor NusA [Propionibacterium acnes
           HL043PA1]
 gi|327446418|gb|EGE93072.1| transcription termination factor NusA [Propionibacterium acnes
           HL013PA2]
 gi|327451993|gb|EGE98647.1| transcription termination factor NusA [Propionibacterium acnes
           HL092PA1]
 gi|327454970|gb|EGF01625.1| transcription termination factor NusA [Propionibacterium acnes
           HL087PA3]
 gi|327457744|gb|EGF04399.1| transcription termination factor NusA [Propionibacterium acnes
           HL083PA2]
 gi|328752173|gb|EGF65789.1| transcription termination factor NusA [Propionibacterium acnes
           HL020PA1]
 gi|328755195|gb|EGF68811.1| transcription termination factor NusA [Propionibacterium acnes
           HL087PA1]
 gi|328758325|gb|EGF71941.1| transcription termination factor NusA [Propionibacterium acnes
           HL025PA2]
 gi|328760059|gb|EGF73639.1| transcription termination factor NusA [Propionibacterium acnes
           HL099PA1]
 gi|332675923|gb|AEE72739.1| transcription elongation protein NusA [Propionibacterium acnes 266]
          Length = 323

 Score =  226 bits (575), Expect = 9e-57,   Method: Compositional matrix adjust.
 Identities = 119/242 (49%), Positives = 164/242 (67%), Gaps = 3/242 (1%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV--EYGNVIVDLGN 160
           P DFGRVA  +A+QVI Q++REAE +++Y  F    G++I+G V++   +   V VDLG+
Sbjct: 76  PEDFGRVAASTARQVIFQRLREAEDEQKYGHFSAVEGDVITGVVQQSYRDTRTVRVDLGS 135

Query: 161 SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIY 220
            +G++   E +  E    G R++ Y+  VR+E RGPQV++SRTHP  + KLF MEVPEI 
Sbjct: 136 LEGIMPPAEQVPGEKYSHGRRIRVYVVAVRKEARGPQVIVSRTHPNLVRKLFAMEVPEIE 195

Query: 221 NGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
            G+V++KA++R+ G R+K+AV S +  +   GAC+G  G RV+AV+ EL +EKIDI+ WS
Sbjct: 196 QGVVEIKALAREAGHRSKIAVVSHNPDVSAKGACIGPMGQRVRAVMHELDEEKIDIIDWS 255

Query: 281 PDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
            D A FV  AL P+ V+ V V+D        IVP  QLSLAIGR GQN RLA++LTGW I
Sbjct: 256 EDPAEFVGAALSPSKVSSVTVIDPKAKTARAIVPDYQLSLAIGREGQNARLAARLTGWRI 315

Query: 340 DI 341
           DI
Sbjct: 316 DI 317


>gi|282854640|ref|ZP_06263975.1| transcription termination factor NusA [Propionibacterium acnes
           J139]
 gi|282582222|gb|EFB87604.1| transcription termination factor NusA [Propionibacterium acnes
           J139]
 gi|314981920|gb|EFT26013.1| transcription termination factor NusA [Propionibacterium acnes
           HL110PA3]
 gi|315090735|gb|EFT62711.1| transcription termination factor NusA [Propionibacterium acnes
           HL110PA4]
          Length = 323

 Score =  226 bits (575), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 119/242 (49%), Positives = 164/242 (67%), Gaps = 3/242 (1%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV--EYGNVIVDLGN 160
           P DFGRVA  +A+QVI Q++REAE +++Y  F    G++I+G V++   +   V VDLG+
Sbjct: 76  PEDFGRVAASTARQVIFQRLREAEDEQKYGHFSAVEGDVITGVVQQSYRDTRTVRVDLGS 135

Query: 161 SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIY 220
            +G++   E +  E    G R++ Y+  VR+E RGPQV++SRTHP  + KLF MEVPEI 
Sbjct: 136 LEGIMPPAEQVPGEKYSHGRRIRVYVVAVRKEARGPQVIVSRTHPNLVRKLFAMEVPEIE 195

Query: 221 NGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
            G+V++KA++R+ G R+K+AV S +  +   GAC+G  G RV+AV+ EL +EKIDI+ WS
Sbjct: 196 QGVVEIKALAREAGHRSKIAVVSHNPDVSAKGACIGPMGQRVRAVMHELDEEKIDIIDWS 255

Query: 281 PDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
            D A FV  AL P+ V+ V V+D        IVP  QLSLAIGR GQN RLA++LTGW I
Sbjct: 256 GDPAEFVGAALSPSKVSSVTVIDPKAKTARAIVPDYQLSLAIGREGQNARLAARLTGWRI 315

Query: 340 DI 341
           DI
Sbjct: 316 DI 317


>gi|237743254|ref|ZP_04573735.1| transcription elongation factor NusA [Fusobacterium sp. 7_1]
 gi|256028609|ref|ZP_05442443.1| transcription elongation factor NusA [Fusobacterium sp. D11]
 gi|260495123|ref|ZP_05815252.1| transcription termination factor NusA [Fusobacterium sp. 3_1_33]
 gi|289766527|ref|ZP_06525905.1| transcription elongation factor NusA [Fusobacterium sp. D11]
 gi|229433033|gb|EEO43245.1| transcription elongation factor NusA [Fusobacterium sp. 7_1]
 gi|260197566|gb|EEW95084.1| transcription termination factor NusA [Fusobacterium sp. 3_1_33]
 gi|289718082|gb|EFD82094.1| transcription elongation factor NusA [Fusobacterium sp. D11]
          Length = 359

 Score =  226 bits (575), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 129/342 (37%), Positives = 213/342 (62%), Gaps = 7/342 (2%)

Query: 3   SANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISL 62
           S N LE L   D +  EK I ++ VL  +  ++  A +  YG   ++ V ++ E GDI +
Sbjct: 6   SKNFLEAL---DELEKEKGISKESVLEAIELALLAAYKKNYGEDENVEVTVDRENGDIKV 62

Query: 63  FRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           F    VV  +++ +   +ISL+ A+     + IG ++   +   +F R AVQ+ KQ++IQ
Sbjct: 63  FASKTVVAADDLLDPNEEISLEDAKKIKKRVKIGDILKFEVDCENFRRNAVQNGKQIVIQ 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPG 179
           KVREAER+  + +FK++   I++G ++R++   N+ +++   + ++   E    +  R G
Sbjct: 123 KVREAEREHIFNKFKEREDSIVTGIIRRIDNRKNIFIEIDGVELILPPAEQSVSDIYRVG 182

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           +R+K Y+  V +  + P++L+SR +   + KLF +E+PEI +GI+++K+V+R+ GSRAK+
Sbjct: 183 ERIKVYVLSVEKTSKFPKILISRRNEGLLRKLFEIEIPEITSGIIEIKSVAREAGSRAKV 242

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV+S+  +ID +GAC+G +G+R++ +V EL  E+IDIV W P    FV   L PA+V  V
Sbjct: 243 AVYSAVPNIDTIGACIGQKGARIKNIVDELNGERIDIVEWKPVVEEFVSAVLSPAVVESV 302

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            + ED G   V+V   QLSLAIG+ GQN RLA++LTG  +DI
Sbjct: 303 TILED-GTARVLVEPSQLSLAIGKNGQNARLAARLTGMRVDI 343


>gi|330833473|ref|YP_004402298.1| transcription elongation factor NusA [Streptococcus suis ST3]
 gi|329307696|gb|AEB82112.1| transcription elongation factor NusA [Streptococcus suis ST3]
          Length = 380

 Score =  225 bits (574), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 125/354 (35%), Positives = 205/354 (57%), Gaps = 15/354 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  +  I++  ++  + +S+  A +  YG      +E + + GD  +F + E
Sbjct: 4   EMLEAFRILEEDMGINKADIIDAVTESLCSAYKRRYGQSESAVIEFDEKKGDFHVFTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+ +R
Sbjct: 64  VVDEVFDSRLEISLKDALAISSAYEMGDKIKFQEDPAEFGRVAAQSAKQTIMEKMRKQKR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              +  +K    EI+SGTV+R +   + V+LG  +  + + + I  E  +  DR++ Y+Y
Sbjct: 124 AITFNTYKQHENEIMSGTVERFDNRFIYVNLGTIEAQLSKQDQIPGEVFQSHDRIEVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + +
Sbjct: 184 KVEDNGRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG  GS ++ + ++                +E ID++ W  D A F+ NAL P
Sbjct: 244 VDAIGTIVGRGGSNIKKITSKFHPARYDAKNDRMIPTEENIDVIEWVADEAEFIYNALAP 303

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           A V +V+ D ED     V+VP ++LSLAIGRRGQNVRLA+ LTG+ IDI +  E
Sbjct: 304 AEVDQVLFDTEDGKHATVVVPDDKLSLAIGRRGQNVRLAAHLTGFRIDIKSASE 357


>gi|116490510|ref|YP_810054.1| transcription elongation factor [Oenococcus oeni PSU-1]
 gi|290889910|ref|ZP_06552997.1| hypothetical protein AWRIB429_0387 [Oenococcus oeni AWRIB429]
 gi|116091235|gb|ABJ56389.1| Transcription elongation factor [Oenococcus oeni PSU-1]
 gi|290480520|gb|EFD89157.1| hypothetical protein AWRIB429_0387 [Oenococcus oeni AWRIB429]
          Length = 473

 Score =  225 bits (574), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 130/350 (37%), Positives = 209/350 (59%), Gaps = 7/350 (2%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M S  R EL     A+  EK I ++  ++ + D++  A +  +   +++ V+++PE  + 
Sbjct: 1   MASDYRRELFSALQALQAEKGISQEDAITSLKDTLVTAYKKNFEGETNVEVDVDPEKQEF 60

Query: 61  SLFRLLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQV 117
           +L ++ EV+ +   ++ Y+ +I LK AR+ + + + G  +   + P DFGR+A QS K  
Sbjct: 61  NLLQIKEVIPDGDMIDPYS-EIYLKDAREINSAYEAGDQIKFEINPRDFGRLAAQSGKNK 119

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENL 176
             Q +RE E++  +  ++    EI+S  V R +   + V + +  +  +   + I  E  
Sbjct: 120 STQTIREKEKEAIHARYEGFEHEIVSARVAREDQRFLWVTMPDGQEAAMGDKDRIPGETY 179

Query: 177 RPGDRVKSYIYDVR-REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           + GD +K  I  V     RGPQ+ +SRT P+ + +LF  EVPE+Y+G V +++++R+ G 
Sbjct: 180 KTGDPIKVLINRVEDSATRGPQIYVSRTSPELVKRLFEQEVPEVYDGTVVIESIAREAGD 239

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           R+K+AV ++DS++DP+G  VG RGSRVQAVV EL  E +DIV W  D A ++ NAL PA 
Sbjct: 240 RSKVAVRTTDSNLDPIGTLVGTRGSRVQAVVNELHGENMDIVEWVEDEAQYIANALNPAE 299

Query: 296 VTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           V  V+   D    + VIVP  QLSLAIG+RGQN RLA++LT + IDI +E
Sbjct: 300 VVDVIFSPDNDNEVTVIVPDYQLSLAIGKRGQNARLAAKLTKFKIDIKSE 349


>gi|326333613|ref|ZP_08199851.1| transcription termination factor NusA [Nocardioidaceae bacterium
           Broad-1]
 gi|325948594|gb|EGD40696.1| transcription termination factor NusA [Nocardioidaceae bacterium
           Broad-1]
          Length = 325

 Score =  225 bits (574), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 129/333 (38%), Positives = 201/333 (60%), Gaps = 28/333 (8%)

Query: 23  DRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           +R++ L V+ ++I++   + Y    G  +  RV+++ +TG + +                
Sbjct: 14  EREISLDVLVEAIEQGLLTAYHKTEGAQTKARVDLDRKTGHVRVL--------------- 58

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
                A + D   ++ G   D   P  FGR+A  +AKQ+++Q++R+AE D ++ EF  K 
Sbjct: 59  -----ASEVDDEGNVVGEYDD--TPEGFGRIAATTAKQIVLQRLRDAEDDVKFGEFSGKE 111

Query: 139 GEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
           G+I+SG +++     +V+VDLG  +GVI   E +  E+   G R+K+ +  VR+  RGPQ
Sbjct: 112 GDILSGVIQQGRNPDDVLVDLGRLEGVIPLSERVPGEDYGHGTRIKALVVSVRKGMRGPQ 171

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           + LSR+HP  + KLF  EVPEI +G V++ A++R+ G R K+AV S+   ++  GAC+G 
Sbjct: 172 ITLSRSHPNLVKKLFSFEVPEIADGTVEIAAIAREAGHRTKIAVKSTVPGVNAKGACIGP 231

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQ 316
            G RV+ V++EL+ EKIDIV WS D    V +AL PA V+ V ++DE      V+VP  Q
Sbjct: 232 MGQRVRQVMSELQGEKIDIVDWSEDPKVLVASALSPARVSSVEIIDEATKSARVVVPDYQ 291

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           LSLAIG+ GQN RLA++LTGW IDI ++EE  +
Sbjct: 292 LSLAIGKEGQNARLAARLTGWRIDIRSDEETPV 324


>gi|313205355|ref|YP_004044012.1| nusa antitermination factor [Paludibacter propionicigenes WB4]
 gi|312444671|gb|ADQ81027.1| NusA antitermination factor [Paludibacter propionicigenes WB4]
          Length = 421

 Score =  225 bits (574), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 120/333 (36%), Positives = 208/333 (62%), Gaps = 4/333 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           KSIDR  ++SVM +S +     L+GT  +  V INP+ GD  ++R   VV  E++ +   
Sbjct: 20  KSIDRSTLISVMEESFRNVISKLFGTDENYDVIINPDKGDFEIYRNRTVVADEDLTDPNL 79

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QISL  A+  D   +I   V+D +  + FGR A+ + +Q +  K+ E ++D  + ++ +K
Sbjct: 80  QISLTEAKKIDEDYEIDEDVTDTVDFLSFGRRAILTLRQTLSSKILELQKDNVFSKYSEK 139

Query: 138 VGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG+I+S  + ++ +   +++D   ++  + + E I  +  R GD V++ +  V  +   P
Sbjct: 140 VGQIVSAELYQIWKKEMLLIDDEGNELYLPKTEQIPTDFYRKGDTVRAVVAMVENKNNNP 199

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +++LSR  P F+ +LF +EVPEI+ G++ +K ++R PG RAK+AV S D  IDPVGACVG
Sbjct: 200 KIILSRISPVFLERLFELEVPEIHEGLITIKKIARIPGERAKVAVESYDDRIDPVGACVG 259

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           ++GSR+  +V ELR+E ID++ ++ +   F+  AL PA ++ + L+E   + E+ +  E+
Sbjct: 260 VKGSRIHGIVRELRNENIDVINYTNNVNLFISRALSPAKISSIRLNEAEKKAEIYLKPEE 319

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITE-EEDS 348
           +S AIG+ G N++LA  L+G+T+D+  E +ED+
Sbjct: 320 VSQAIGKGGLNIKLAGMLSGYTLDVFREMDEDT 352


>gi|269956009|ref|YP_003325798.1| NusA antitermination factor [Xylanimonas cellulosilytica DSM 15894]
 gi|269304690|gb|ACZ30240.1| NusA antitermination factor [Xylanimonas cellulosilytica DSM 15894]
          Length = 344

 Score =  225 bits (573), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 136/334 (40%), Positives = 201/334 (60%), Gaps = 27/334 (8%)

Query: 23  DRDVVLSVMADSIQKAARSLYGTMSDI----RVEINPETGDISLFRLLEVVEEVENYTCQ 78
           +RD+ L V+ ++I+ A    Y    D     RVE++  TG ++++   E           
Sbjct: 14  ERDLSLDVLVEAIESALLHAYHRTPDAYAKARVEVDRRTGHVTVWAREEF---------- 63

Query: 79  ISLKVARDRDPSIDIGGVVSDPLP-----PMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
                 R  DPS   G  + +  P     P DFGR+A  +A+QVI+Q++R+AE D+    
Sbjct: 64  ------RTPDPSDPEGRPLVELGPEFDHTPQDFGRIATATARQVIVQRLRDAEDDQVLGL 117

Query: 134 FKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
           F+ K GE+I+G +++     V+ VD+G ++ V+   E +  E    G+R+++Y+ +V R 
Sbjct: 118 FRGKEGEVIAGVIQQGRDPRVVLVDVGGTEAVLPPHEQVPTEEYVHGERLRAYVVEVARG 177

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            +G QV LSRTHP  + KLF +EVPE+ +G V++ A++R+ G R+K+AV S    ++  G
Sbjct: 178 AKGAQVTLSRTHPGLVRKLFELEVPEVADGSVEITAIAREAGHRSKVAVRSRVQGLNAKG 237

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVI 311
           AC+G  G+RV+AV+ EL  EKIDIV  S D A FV NAL PA VT V V+DED      +
Sbjct: 238 ACIGPMGARVRAVMAELHGEKIDIVDHSDDPARFVANALSPARVTSVTVVDEDARAARAV 297

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           VP  QLSLAIG+ GQN RLA++LTGW IDI ++E
Sbjct: 298 VPDYQLSLAIGKEGQNARLAAKLTGWRIDIRSDE 331


>gi|319953582|ref|YP_004164849.1| nusa antitermination factor [Cellulophaga algicola DSM 14237]
 gi|319422242|gb|ADV49351.1| NusA antitermination factor [Cellulophaga algicola DSM 14237]
          Length = 410

 Score =  225 bits (573), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 129/335 (38%), Positives = 201/335 (60%), Gaps = 7/335 (2%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYT 76
           +K IDR  +++++ D  + A +  +G+  +  + INP+ GD+ ++R   VVE  EVE   
Sbjct: 16  DKFIDRVTLMAILEDVFRNALKKKFGSDDNFDIIINPDKGDLEIWRNRIVVEDGEVEEPN 75

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +ISL  AR  +P  ++G  VS+ +  +  GR A+ + +Q +I K+ E +    Y  FKD
Sbjct: 76  EEISLSEARKIEPDFEVGEDVSEEVKLIQLGRRAILALRQNLISKIHEHDNTTIYKHFKD 135

Query: 137 KVGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
             G + +  V  + +  VI+  D GN + ++ +D+ I  +  R GD V+  I  V  +  
Sbjct: 136 LEGGLYTAEVHHIRHKVVILLDDEGN-ELILPKDKQIPSDFFRKGDNVRGIIESVELKGN 194

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
            P +++SRT P F+  LF  E+PE+++G++ VK V R PG +AK+AV S D  IDPVGAC
Sbjct: 195 KPVIVMSRTAPAFLEALFFQEIPEVFDGLITVKKVVRIPGEKAKVAVDSYDDRIDPVGAC 254

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPK 314
           VGM+GSR+  +V EL +E ID++ W+ +    V  AL PA V+ V LD++    +V +  
Sbjct: 255 VGMKGSRIHGIVRELGNENIDVINWTSNPQLLVTRALSPARVSSVKLDDEKMTAQVYLRP 314

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITE--EED 347
           E++S AIGR G N+RLA QLTG+ ID+  E  EED
Sbjct: 315 EEVSKAIGRGGHNIRLAGQLTGYEIDVFREGVEED 349


>gi|118587523|ref|ZP_01544947.1| transcription termination protein NusA [Oenococcus oeni ATCC
           BAA-1163]
 gi|118431974|gb|EAV38716.1| transcription termination protein NusA [Oenococcus oeni ATCC
           BAA-1163]
          Length = 473

 Score =  225 bits (573), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 131/350 (37%), Positives = 209/350 (59%), Gaps = 7/350 (2%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M S  R EL     A+  EK I ++  ++ + D++  A +  +   +++ V+++PE  + 
Sbjct: 1   MASDYRRELFSALQALQAEKGISQEDAITSLKDTLVTAYKKNFEGETNVEVDVDPEKQEF 60

Query: 61  SLFRLLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQV 117
           +L ++ EV+ +   ++ Y+ +I LK AR+ + + + G  +   + P DFGR+A QS K  
Sbjct: 61  NLLQIKEVIPDGDMIDPYS-EIYLKDAREINSAYEAGDQIKFEINPRDFGRLAAQSGKNK 119

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENL 176
             Q +RE E++  +  ++    EI+S  V R +   + V + +  +  +   + I  E  
Sbjct: 120 STQTIREKEKEAIHARYEGFEHEIVSARVAREDQRFLWVTMPDGQEAAMGDKDRIPGETY 179

Query: 177 RPGDRVKSYIYDVR-REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           + GD +K  I  V     RGPQ+ +SRT P+ + +LF  EVPE+Y+G V +++++R+ G 
Sbjct: 180 KTGDPIKVLINRVEDSATRGPQIYVSRTSPELVKRLFEQEVPEVYDGTVVIESIAREAGD 239

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           R+K+AV ++DS++DPVG  VG RGSRVQAVV EL  E +DIV W  D A ++ NAL PA 
Sbjct: 240 RSKVAVRTTDSNLDPVGTLVGPRGSRVQAVVNELHGENMDIVEWVEDEAQYIANALNPAE 299

Query: 296 VTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           V  V+   D    + VIVP  QLSLAIG+RGQN RLA++LT + IDI +E
Sbjct: 300 VVDVIFSPDNDNEVTVIVPDYQLSLAIGKRGQNARLAAKLTKFKIDIKSE 349


>gi|218459797|ref|ZP_03499888.1| transcription elongation factor NusA [Rhizobium etli Kim 5]
          Length = 262

 Score =  224 bits (572), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 113/216 (52%), Positives = 152/216 (70%), Gaps = 1/216 (0%)

Query: 304 DVGRIEVIVPK-EQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           D  RIEV V +  Q  L      QNVRLASQLTGW IDI+TE E+S  RQK+FNERT  F
Sbjct: 33  DARRIEVFVSRTRQRRLRSVAAAQNVRLASQLTGWDIDIMTEAEESERRQKEFNERTNLF 92

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M +++VDE++  +L +EGFA VEELA V + EI+SI+GFDE+TA EIQ RARE+LE ++ 
Sbjct: 93  MDSLDVDEMVGQVLASEGFAAVEELAYVDLDEISSIDGFDEDTAQEIQTRAREFLERLEA 152

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
            + +K + LGV +EL  I G+ +++ VALGE+GIK++ED AGC+ DDL+GW+E K G  +
Sbjct: 153 EMDEKRKALGVQDELREIDGMTAQMMVALGEDGIKSIEDFAGCAADDLVGWTERKNGETK 212

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
           KF+G  S     + + E MI+ AR   GWI +E +A
Sbjct: 213 KFEGLFSKFDVSRVEAEQMIVQARLAAGWITEEDLA 248


>gi|254382096|ref|ZP_04997458.1| transcription elongation factor NusA [Streptomyces sp. Mg1]
 gi|194341003|gb|EDX21969.1| transcription elongation factor NusA [Streptomyces sp. Mg1]
          Length = 336

 Score =  224 bits (572), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 120/254 (47%), Positives = 170/254 (66%), Gaps = 2/254 (0%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNS 161
           P DFGR+A  +AKQVI+Q++R+AE D  + EF  + G++I+G V++  +  NV+VD+G  
Sbjct: 79  PSDFGRIAATTAKQVILQRLRDAEDDLTFGEFAGREGDVITGVVQQGKDPKNVLVDIGKL 138

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           + ++   E +  E+   G R+K+Y+  V +  RGP V LSRTHP  + KLF +EVPEI +
Sbjct: 139 EAILPVQEQVPGEDYTHGLRLKTYVVRVAKGVRGPSVTLSRTHPNLVKKLFALEVPEIAD 198

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           G V++ A++R+ G R K+AV S+ + ++P GAC+G  G+RV+ V+ EL  EKIDIV WS 
Sbjct: 199 GSVEICAIAREAGHRTKIAVRSTRAGLNPKGACIGPMGARVRNVMAELHGEKIDIVDWSD 258

Query: 282 DSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D A  V NAL PA V+KV V+D D     V VP  QLSLAIG+ GQN RLA++LTGW ID
Sbjct: 259 DPAEMVANALSPARVSKVEVVDWDTRSARVTVPDYQLSLAIGKEGQNARLAARLTGWRID 318

Query: 341 IITEEEDSINRQKD 354
           I  + E +    +D
Sbjct: 319 IRPDTEPAEGADRD 332


>gi|76496362|gb|ABA43692.1| NusA [Spiroplasma kunkelii CR2-3x]
          Length = 483

 Score =  224 bits (572), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 120/339 (35%), Positives = 205/339 (60%), Gaps = 1/339 (0%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           LL   D +  EK I RD++L  + + I+KA    +   + I VEI+ +TG I + + L V
Sbjct: 19  LLSTIDEIVSEKQISRDLILDSIKEGIRKAYEKHFDPEATIIVEIHQKTGQIKVEKELTV 78

Query: 69  VEEVENYTCQISLKVARDR-DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V++VE+   +I L  A+++    I I   V + +   +F R+A+    Q+I Q+++EAE+
Sbjct: 79  VKKVEDDLLEIGLNEAKEKYGEQITIDDKVYEQVNSEEFSRLAIFQVGQIIKQQIKEAEK 138

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           D  + E+  + G +++G V   E   ++V++  +   I R   I  E+   G  +     
Sbjct: 139 DSIFDEYIIQKGHLMTGVVIAAEEKYLLVEVERTFAYIPRKNLIFSEHFEVGQPITFLAE 198

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           DV + +   Q++ SRT   F+  L   E+PEI+  +++VKA++RDPG R+K+AV+S++ +
Sbjct: 199 DVVKSKNAGQIIGSRTSNDFLYSLLEREIPEIFEQVIEVKAIARDPGRRSKIAVYSTNEN 258

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDP+GACVG +GSR+  V  EL+DEKIDI +++ +S  F+IN+L P  V  +  +++   
Sbjct: 259 IDPIGACVGSKGSRINKVTAELQDEKIDICIYNDNSQQFIINSLSPVKVISITTNDEEKE 318

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            +V+VP EQLSLAIG+ G + +L ++LT W ++I++  E
Sbjct: 319 ADVVVPDEQLSLAIGKGGSSAKLVAKLTKWKLNIMSYSE 357


>gi|228470366|ref|ZP_04055269.1| transcription termination factor NusA [Porphyromonas uenonis 60-3]
 gi|228307948|gb|EEK16831.1| transcription termination factor NusA [Porphyromonas uenonis 60-3]
          Length = 459

 Score =  224 bits (572), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 122/332 (36%), Positives = 202/332 (60%), Gaps = 3/332 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYTC 77
           K+ID + +L V+ DS +     ++G+  +  V IN ++GD  ++R  EVV +  VE    
Sbjct: 21  KNIDEETMLHVLEDSFRSILAKMFGSDDNFDVIINADSGDFEIWRTREVVADDAVERENE 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           Q++   AR+ DP  +IG  V+D +  + FGR A+ + +Q +  K+ + +++  Y  F ++
Sbjct: 81  QVAYSEAREIDPEAEIGDDVTDSVDFLSFGRRAIVNLRQTLSSKILDLQKEHFYQTFIER 140

Query: 138 VGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VGE+I+  V +V +   ++VD   ++ ++ + E I  E  R GD V + I  V  E   P
Sbjct: 141 VGEMITAEVYQVWKRETLLVDEDGNELIMPKSEQIPDEYFRKGDSVHAVIARVDNENNNP 200

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +V LSRT P+F+ +LF + VPEI +G++ +K V+R PG RAK+AV S D  IDPVG+CVG
Sbjct: 201 RVTLSRTSPEFLKRLFEINVPEIADGLITIKRVARIPGVRAKIAVESYDDRIDPVGSCVG 260

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           M GSR++ +V EL  E ID++ ++ + + F+  AL PA V+ + L  +  + EV +  E 
Sbjct: 261 MNGSRIRGIVRELHGENIDVLTYTSNDSLFIQRALSPAKVSSIELYPETAKAEVYLQPED 320

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           + LAIG+   N++LAS LTG+ I++  +  D+
Sbjct: 321 VPLAIGKNASNIKLASVLTGFEIEVFRDAADT 352


>gi|163782301|ref|ZP_02177299.1| transcription elongation factor NusA [Hydrogenivirga sp.
           128-5-R1-1]
 gi|159882334|gb|EDP75840.1| transcription elongation factor NusA [Hydrogenivirga sp.
           128-5-R1-1]
          Length = 333

 Score =  224 bits (572), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 109/243 (44%), Positives = 169/243 (69%), Gaps = 1/243 (0%)

Query: 105 DFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDG 163
           D  R+A  +AK+  + ++  AER+R +LE+K+  GE+++G V+++ + G+++VDLG  + 
Sbjct: 77  DVNRIAAFAAKEEFLNELERAERERGFLEYKELEGEVVTGIVRKIYDNGDILVDLGKVEA 136

Query: 164 VIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGI 223
           V+ R E I  E    GD+VK+ + +V++    P+++LSRTHP F+ +L   E+PE+ +  
Sbjct: 137 VLPRREQIPGETYHVGDKVKALLLEVKKMHGEPRLILSRTHPLFLKRLLETEIPEVADKE 196

Query: 224 VQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDS 283
           ++VK+V+R PG RAK+AV++ D  +DPVG  VG+RGSR+Q +  EL  EKID+V W+ D 
Sbjct: 197 IEVKSVARIPGERAKVAVYAKDMKMDPVGIVVGLRGSRIQPISDELHGEKIDVVRWTDDE 256

Query: 284 ATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
             F+  AL PA  T + L  +  R EV VP++QLSLAIGRRG NV+LA +LTGW ID+++
Sbjct: 257 EEFIRRALSPAQPTAIRLIPEEERAEVAVPQDQLSLAIGRRGTNVKLAHRLTGWHIDVMS 316

Query: 344 EEE 346
           EE+
Sbjct: 317 EED 319


>gi|262066535|ref|ZP_06026147.1| transcription termination factor NusA [Fusobacterium periodonticum
           ATCC 33693]
 gi|291379769|gb|EFE87287.1| transcription termination factor NusA [Fusobacterium periodonticum
           ATCC 33693]
          Length = 353

 Score =  224 bits (572), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 128/344 (37%), Positives = 217/344 (63%), Gaps = 6/344 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
            L+  D +  EK I ++ VL  +  ++  A +  YG   ++ V ++ E+G+I +     V
Sbjct: 9   FLEALDELEKEKGISKESVLEAIELALLAAYKKNYGEDENVEVIVDRESGEIKVLASKTV 68

Query: 69  VE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           V+  ++ +   +ISL+ A++      IG V+   +   +F R AVQ+ KQ++IQKVREAE
Sbjct: 69  VDADDLLDPNEEISLEDAKEIKKRAKIGDVLKFEVSCDNFRRNAVQNGKQIVIQKVREAE 128

Query: 127 RDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           R+  Y +FK++  +I++G ++R++   N+ +++   + ++   E    +  R G+R+K +
Sbjct: 129 REHIYEKFKERENDIVTGIIRRIDNKKNIFIEIDGIELILPPAEQSYSDIYRVGERIKVF 188

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y+V +  + P++L+SR +   + KLF +E+PEI  GI+++K+V+R+ GSRAK+AV+S  
Sbjct: 189 VYNVEKTNKFPKILISRKNEGLLKKLFEIEIPEISAGIIEIKSVAREAGSRAKVAVYSQV 248

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            +ID VGAC+G +G+R++ +V EL  E+IDIV W      FV   L PA+V+ V + ED 
Sbjct: 249 PNIDTVGACIGQKGTRIKNIVDELNGERIDIVEWKESMEQFVSAVLSPAVVSSVEILED- 307

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI--ITEEED 347
           G  +V+V   QLSLAIG+ GQN RLA++LTG  +DI  + +EED
Sbjct: 308 GTAKVLVEPSQLSLAIGKNGQNARLAARLTGTRVDIKVLEKEED 351


>gi|269219599|ref|ZP_06163453.1| transcription termination factor NusA [Actinomyces sp. oral taxon
           848 str. F0332]
 gi|269210841|gb|EEZ77181.1| transcription termination factor NusA [Actinomyces sp. oral taxon
           848 str. F0332]
          Length = 330

 Score =  224 bits (572), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 135/336 (40%), Positives = 199/336 (59%), Gaps = 26/336 (7%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           V  E  I  DV++  + D++  A + + G +   RVE++  TG ++++   EV EE E  
Sbjct: 11  VESELGISVDVIVGAIEDALLHAYQRVPGAVRGARVEMDRNTGKVTVY-APEVDEEGE-- 67

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
                            + G   D   P DFGR+A  +A+ +I Q++R+AE DR    FK
Sbjct: 68  -----------------VIGEFDDT--PGDFGRIATSTARSIIAQRLRDAETDRVLGSFK 108

Query: 136 DKVGEIISGTVK---RVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
            K GE++SG V+   R +  +++VD+G  + ++R +E +  E  R GD +++ + +V   
Sbjct: 109 GKQGEVVSGVVQQNPRHDSRDLLVDVGEHEAILRVEEQVPTERFRHGDHIRALVLEVSVG 168

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            RG  V LSRTHP F  KLF MEVPEI +G V++ A++R+ G RAK+AV+S    ++  G
Sbjct: 169 TRGASVRLSRTHPDFARKLFEMEVPEIQDGTVEIVALAREAGHRAKIAVWSDIPDVNAKG 228

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVI 311
           AC+G  G RV+AV TEL  EKIDIV +  D   F+  +L PA V +V +LD+   +  VI
Sbjct: 229 ACIGHNGQRVRAVTTELGGEKIDIVDYDDDPKAFIAASLSPAKVVRVDILDKAERQARVI 288

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
           VP  Q SLAIG+  QNVRLA++LTGW+IDI  E +D
Sbjct: 289 VPDGQTSLAIGKEAQNVRLAAKLTGWSIDIRKESDD 324


>gi|314978822|gb|EFT22916.1| transcription termination factor NusA [Propionibacterium acnes
           HL072PA2]
 gi|315089313|gb|EFT61289.1| transcription termination factor NusA [Propionibacterium acnes
           HL072PA1]
          Length = 323

 Score =  224 bits (571), Expect = 3e-56,   Method: Compositional matrix adjust.
 Identities = 119/242 (49%), Positives = 163/242 (67%), Gaps = 3/242 (1%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV--EYGNVIVDLGN 160
           P DFGRVA  +A+QVI Q++REAE +++Y  F    G++I+G V++   +   V VDLG+
Sbjct: 76  PEDFGRVAASTARQVIFQRLREAEDEQKYGHFSAVEGDVITGVVQQSYRDTRTVRVDLGS 135

Query: 161 SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIY 220
            +G++   E +  E    G R++ Y+  VR+E RGPQV++SRTHP  + KLF MEVPEI 
Sbjct: 136 LEGIMPPAEQVPGEKYSHGRRIRVYVVAVRKEARGPQVIVSRTHPNLVRKLFAMEVPEIE 195

Query: 221 NGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
            G+V++KA+ R+ G R+K+AV S +  +   GAC+G  G RV+AV+ EL +EKIDI+ WS
Sbjct: 196 QGVVEIKALVREAGHRSKIAVVSHNPDVSAKGACIGPMGQRVRAVMHELDEEKIDIIDWS 255

Query: 281 PDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
            D A FV  AL P+ V+ V V+D        IVP  QLSLAIGR GQN RLA++LTGW I
Sbjct: 256 EDPAEFVGAALSPSKVSSVTVIDPKAKTARAIVPDYQLSLAIGREGQNARLAARLTGWRI 315

Query: 340 DI 341
           DI
Sbjct: 316 DI 317


>gi|224531576|ref|ZP_03672208.1| transcription elongation protein NusA [Borrelia valaisiana VS116]
 gi|224511041|gb|EEF81447.1| transcription elongation protein NusA [Borrelia valaisiana VS116]
          Length = 482

 Score =  224 bits (571), Expect = 3e-56,   Method: Compositional matrix adjust.
 Identities = 125/391 (31%), Positives = 234/391 (59%), Gaps = 7/391 (1%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           ++A ++S+  D +   + +S+  A +  +G+  +  V+ + +TGD+ ++   ++VEEV++
Sbjct: 11  SIANDRSMSIDSIRKTIKESVLIAYKKYFGSNENAFVKFDDDTGDLIVYAKKKIVEEVKD 70

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              ++  K     +   D  G     + P  F R+++Q AKQ     ++  E +    EF
Sbjct: 71  SFLEVLEKDISKENFVED--GYAYIEINPKVFDRLSIQVAKQRTKNDLQGIEDNEILSEF 128

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           K K+ +++ G V++   G++ V+LGN+DG+I +     RE     D+++  +Y+V++ + 
Sbjct: 129 KSKLNKVVIGYVQQNRNGDLYVNLGNTDGIIPKKYQSPREVYNLNDKIRVLVYNVKKGKN 188

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           G +V+LSRTHP+F+ +L  +E+PEI  G++++  + RDPG R K+AV+S    IDPVG C
Sbjct: 189 GIEVILSRTHPKFIEELLALEIPEIEEGVIKIHKIVRDPGYRIKVAVYSEKEEIDPVGPC 248

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVP 313
           +G +G R+Q+++ EL  EKIDI+ +S D   F+ ++L P+ +  V +LDED+ +  V+V 
Sbjct: 249 IGQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIKDSLTPSKIEHVYILDEDLHKALVVVS 308

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIA 373
            +QLSLAIG+ GQNVRLA++L  W ID+ T  +    + K  +E  Q  ++    D+++ 
Sbjct: 309 DDQLSLAIGKMGQNVRLANRLLDWAIDVKTSSQ--FAKMKANSEFKQETLEMF--DKVMQ 364

Query: 374 HLLVAEGFADVEELACVKISEIASIEGFDEE 404
            ++  E F ++ +++ +K+ + + I    +E
Sbjct: 365 DVVEEEQFEEISKISDLKLLDPSVISNLSKE 395


>gi|227529106|ref|ZP_03959155.1| transcription termination factor NusA [Lactobacillus vaginalis ATCC
           49540]
 gi|227350950|gb|EEJ41241.1| transcription termination factor NusA [Lactobacillus vaginalis ATCC
           49540]
          Length = 410

 Score =  224 bits (571), Expect = 3e-56,   Method: Compositional matrix adjust.
 Identities = 132/381 (34%), Positives = 210/381 (55%), Gaps = 48/381 (12%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL- 66
           E++   D +  EK I +++V+  +  +++ A +  YG   ++ V+ +  TG+I ++ +  
Sbjct: 9   EMIAALDYLEKEKGIKKEIVIEALEQALELAYKQNYGE-KNVEVDFDGVTGNIKVYAVKT 67

Query: 67  -----EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
                ++VEE +N    ++           D+G  + + + P DFGR+A Q+AKQV++Q+
Sbjct: 68  ITDNEDLVEEDDNEYMSLADARKLPHGQGYDVGDEIREEVTPRDFGRIAAQTAKQVVMQR 127

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS-DGVIRRDETISRENLRPGD 180
           +RE ER   Y ++K    EII+G V R +     VDLG+  +G +   + +  E+    D
Sbjct: 128 LREEERKIIYNKYKTYENEIITGEVSREDKRFTWVDLGDGVEGAMGYRDKMPNEHYHIHD 187

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R++ Y+  V  ++ GPQ+ +SRT P+ + +LF  EVPEI +G V ++ ++R+ G RAK+A
Sbjct: 188 RIQVYVSKVNDDRHGPQIFVSRTAPELLKRLFEREVPEIKDGTVLIENIAREAGDRAKVA 247

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V+S+D ++DPVG CVG RGSRVQA+V EL  E +DIV +  D A F+ NAL PA V  V+
Sbjct: 248 VYSNDPNVDPVGTCVGPRGSRVQAIVNELDGENMDIVEYVKDPAQFIANALNPAEVLDVI 307

Query: 301 LDEDVGRI----------------------------------------EVIVPKEQLSLA 320
            +E    +                                         V+VP  QLSLA
Sbjct: 308 FNEPEAPVTEEQPEENSTDDSVTETSDTSTEAESTEEEPVATTEERSCTVVVPDSQLSLA 367

Query: 321 IGRRGQNVRLASQLTGWTIDI 341
           IG+RGQN RLA++LT + IDI
Sbjct: 368 IGKRGQNARLAARLTKYKIDI 388


>gi|86140762|ref|ZP_01059321.1| transcription elongation factor NusA [Leeuwenhoekiella blandensis
           MED217]
 gi|85832704|gb|EAQ51153.1| transcription elongation factor NusA [Leeuwenhoekiella blandensis
           MED217]
          Length = 409

 Score =  224 bits (571), Expect = 3e-56,   Method: Compositional matrix adjust.
 Identities = 123/335 (36%), Positives = 207/335 (61%), Gaps = 7/335 (2%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYT 76
           +K IDR ++++++ +  +   +  +G+  +  + INP+ GD+ ++R   VV   EVE+  
Sbjct: 16  DKLIDRVMLMAILEEVFRSTLKKRFGSDDNFDIIINPDKGDLEIWRNRVVVADGEVEDEN 75

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +ISL  AR  +P  ++G  VS+ +  +D GR ++ + +Q +I K+ E +    Y +FKD
Sbjct: 76  SEISLTEARRIEPDFEVGEDVSEEVKLIDLGRRSILALRQNLISKIHEHDNTNIYKQFKD 135

Query: 137 KVGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
             GE+ +  V  + +  +I+  D GN + ++ +D+ I  +  R G+ V+  I  V  +  
Sbjct: 136 LEGELYNAEVHHIRHRAIILLDDEGN-EIIMPKDKQIPSDFFRKGENVRGIIESVELKGN 194

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
            P +++SRT P F+ KLF  E+PE+++G++ VK V R PG +AK+AV S D  IDPVGAC
Sbjct: 195 KPAIIMSRTSPLFLEKLFESEIPEVFDGLITVKKVVRIPGEKAKVAVDSYDDRIDPVGAC 254

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPK 314
           VGM+GSR+  +V EL +E ID++ ++ +   ++  AL PA +T + +D++    EV++  
Sbjct: 255 VGMKGSRIHGIVRELGNENIDVINFTNNLQLYITRALSPAKITSIKIDDENKTAEVMLKP 314

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITE--EED 347
           E++S AIGR G N+RLA QLTG+ ID+  E  EED
Sbjct: 315 EEVSKAIGRGGHNIRLAGQLTGYEIDVYREGVEED 349


>gi|327334250|gb|EGE75964.1| transcription termination factor NusA [Propionibacterium acnes
           HL097PA1]
          Length = 323

 Score =  224 bits (571), Expect = 3e-56,   Method: Compositional matrix adjust.
 Identities = 118/242 (48%), Positives = 163/242 (67%), Gaps = 3/242 (1%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV--EYGNVIVDLGN 160
           P DFGRVA  +A+QVI Q++REAE +++Y  F    G++I+G V++   +   V VDLG+
Sbjct: 76  PEDFGRVAASTARQVIFQRLREAEDEQKYGHFSAVEGDVITGVVQQSYRDTRTVRVDLGS 135

Query: 161 SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIY 220
            +G++   E +  E    G R++ Y+  VR+E RGPQV++SRTHP  + KLF MEVPEI 
Sbjct: 136 LEGIMPPAEQVPGEKYSHGRRIRVYVVAVRKEARGPQVIVSRTHPNLVRKLFAMEVPEIE 195

Query: 221 NGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
            G+V++KA++R+ G R+K+AV S +  +   GAC+G  G RV+AV+ EL +EKIDI+ WS
Sbjct: 196 QGVVEIKALAREAGHRSKIAVVSHNPDVSAKGACIGPMGQRVRAVMHELDEEKIDIIDWS 255

Query: 281 PDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
            D A FV  AL P+ V+ V V+D        IVP  QLSL IGR GQN RLA++LTGW I
Sbjct: 256 EDPAEFVGAALSPSKVSSVTVIDPKAKTARAIVPDYQLSLGIGREGQNARLAARLTGWRI 315

Query: 340 DI 341
           DI
Sbjct: 316 DI 317


>gi|256419698|ref|YP_003120351.1| transcription elongation factor NusA [Chitinophaga pinensis DSM
           2588]
 gi|256034606|gb|ACU58150.1| NusA antitermination factor [Chitinophaga pinensis DSM 2588]
          Length = 415

 Score =  223 bits (569), Expect = 4e-56,   Method: Compositional matrix adjust.
 Identities = 117/330 (35%), Positives = 204/330 (61%), Gaps = 3/330 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYTC 77
           ++IDR  ++ V+ D  +   R  YG+  +  V +N E GD+ + R   +V   EVE+   
Sbjct: 17  ENIDRPTLMKVLEDVFKTLLRKKYGSDENFDVIVNTEKGDLEILRRRTIVTDGEVEDDNA 76

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QI+   A   +P   +G  + + +  +DFGR A+ +AKQ +  ++ + +++    ++ D+
Sbjct: 77  QIAYSEAILVEPDYQVGEDLYEEVEILDFGRRAILAAKQTLSARIGDLKKNILVKKYADR 136

Query: 138 VGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VGEI++G V +V    V++ D   ++ ++ + E I  +  + G+ V++ +  V  +   P
Sbjct: 137 VGEIVTGEVYQVWKKEVLLLDDERNELILPKSEQIPTDYFKKGENVRAVVKKVEMKNNAP 196

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
            ++LSRTHP F+ KL  +EVPEI++G++ +K + R+PG RAK+AV S D  IDPVGACVG
Sbjct: 197 LIILSRTHPTFLAKLLEIEVPEIFDGLIVIKKIVREPGERAKVAVESYDDRIDPVGACVG 256

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           M+GSR+  +V ELR+E IDI+ ++ +    +  AL PA ++++ +D +     V +  +Q
Sbjct: 257 MKGSRIHGIVRELRNENIDIINYTANIQLLIQRALTPARISRMEVDNENKYASVFLKADQ 316

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           +SLAIG++G N++LA +LTG+ ID+  +EE
Sbjct: 317 VSLAIGKKGVNIKLACELTGYEIDVFRDEE 346


>gi|262340805|ref|YP_003283660.1| transcription elongation factor NusA [Blattabacterium sp.
           (Blattella germanica) str. Bge]
 gi|262272142|gb|ACY40050.1| transcription elongation factor NusA [Blattabacterium sp.
           (Blattella germanica) str. Bge]
          Length = 417

 Score =  223 bits (569), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 121/327 (37%), Positives = 204/327 (62%), Gaps = 3/327 (0%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYT 76
           EK+IDR  +++++ +SI+   R  Y +  +  + +NP+ GD+ ++R   VV+  EV++  
Sbjct: 16  EKNIDRVSLMAILEESIRCVLRKKYDSSKNYDIIVNPDQGDLEIWRNRIVVQDGEVKDIN 75

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +I L +AR  +P  +IG  V++ +     GR A+ S +Q ++ K+ E +    Y +FK+
Sbjct: 76  KEIELSIARKIEPDFEIGEEVTEKVELQSLGRRAILSLRQNLLSKINEYDNTNTYKKFKN 135

Query: 137 KVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           K+GEII+  V  +    +I+ D   ++ V+ + E I  +  R GD V++ +  V  +   
Sbjct: 136 KIGEIINVEVYHILSKQIIMRDEEQNEMVLPKQEQIPSDFFRKGDPVRALVKRVDWKDNK 195

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P  +L+R    F+ +LF +E+PE+ +G++ VK V+R PG +AK+AV S D  IDPVGACV
Sbjct: 196 PFAILTRRDEAFLEELFKLEIPEVSDGLITVKKVARIPGEKAKVAVESYDDRIDPVGACV 255

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           GM+GSR+  +V EL++E ID++ ++ ++  ++  AL PA V+ + ++ED   + V V  E
Sbjct: 256 GMKGSRIHPIVRELKNENIDVINYTSNTQLYITRALSPAKVSMMEVNEDHKYVNVYVKLE 315

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDII 342
           ++S AIGR GQN+RLASQLTG+ I I 
Sbjct: 316 EISRAIGRGGQNIRLASQLTGYKIHIF 342


>gi|295426316|ref|ZP_06818975.1| transcription termination factor NusA [Lactobacillus amylolyticus
           DSM 11664]
 gi|295063989|gb|EFG54938.1| transcription termination factor NusA [Lactobacillus amylolyticus
           DSM 11664]
          Length = 401

 Score =  223 bits (569), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 129/354 (36%), Positives = 216/354 (61%), Gaps = 5/354 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLF--RL 65
           E+L+    +  +K I ++V++  +  ++  A +  Y    ++ V+ +   G+  +   + 
Sbjct: 4   EMLEAFATLEEKKGIKQEVIVDAIKAALVAAYKKNYNQAQNVEVDFDERKGNFKVMAVKT 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           +   +++++   ++SL  A   + + ++G  +   + P +FGR+A Q+AKQVI+Q++REA
Sbjct: 64  VVDDDQLQDDRLEVSLSDALAINRAYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+    E+     E+I+GTV+R +   V V +GN + V+ R + +  E   P D+++  
Sbjct: 124 ERNHIVDEYSQYEDELITGTVERRDNRFVYVKIGNVEAVMPRSDQMPNETYNPQDKIRVL 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+++SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S D
Sbjct: 184 VTRVGSDSKGAQIVVSRTAPDLVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKIAVKSID 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DE 303
            +IDPVG CVG RG+RVQ VV EL  E IDIV +  D + ++ NAL PA V  V    D+
Sbjct: 244 PNIDPVGTCVGQRGARVQNVVNELGGENIDIVRYEDDPSDYIANALSPAEVIAVQFGDDD 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE-DSINRQKDFN 356
           +     VIVP  QLSLAIG++GQ+VRLA++LTG+ I+I  E E + ++  KD N
Sbjct: 304 EEKSALVIVPDYQLSLAIGKKGQSVRLAARLTGYKINIRPESEVEFVDEDKDEN 357


>gi|254992770|ref|ZP_05274960.1| transcription elongation factor NusA [Listeria monocytogenes FSL
           J2-064]
          Length = 251

 Score =  223 bits (569), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 106/219 (48%), Positives = 155/219 (70%)

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y
Sbjct: 1   ERGIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVY 60

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++++
Sbjct: 61  LTKVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTAN 120

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E  
Sbjct: 121 EEVDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEAD 180

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
               VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E
Sbjct: 181 QATTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSE 219


>gi|262037365|ref|ZP_06010830.1| transcription termination factor NusA [Leptotrichia goodfellowii
           F0264]
 gi|261748622|gb|EEY35996.1| transcription termination factor NusA [Leptotrichia goodfellowii
           F0264]
          Length = 365

 Score =  223 bits (568), Expect = 6e-56,   Method: Compositional matrix adjust.
 Identities = 127/348 (36%), Positives = 204/348 (58%), Gaps = 7/348 (2%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M S ++   L+  D +  EK I ++ +L  +  ++  A +  YG   +  + IN ETG++
Sbjct: 1   MKSKDQRVFLEALDELEKEKGIIKEELLEAVETALLAAYKKNYGDKDNAEISINRETGEV 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            +F    +V+ VE    +ISL+ A        +GG +   +   +F R A+Q+AKQ+I+Q
Sbjct: 61  KVFSRKTIVQTVEKPEEEISLEDAIALKKKSKLGGTIDFEINAENFKRNAIQNAKQIIVQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPG 179
           KVRE E+   +  FK     I+S  V++  E GN+ +D+   + ++   E    +    G
Sbjct: 121 KVRECEKKNIFNRFKQIEKSIVSAVVRKTDEKGNLYIDINGLEAIVPEKELSEADKFIQG 180

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR+K Y+  V    +  +  LSR   + M  L ++E+PEI +G +Q+K ++R+ GSR K+
Sbjct: 181 DRLKVYVGAVEESTKYTKCFLSRKVEELMRGLLNLEIPEIEDGTIQIKQIAREAGSRTKI 240

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV+S D ++D  GAC+G  G R+Q+++ EL+ EK+D+V+W  D   FV NAL PA V  V
Sbjct: 241 AVYSDDPNLDVKGACIGKSGMRIQSIIDELKGEKVDVVLWDEDIRYFVKNALNPAEVISV 300

Query: 300 -VLDED---VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
            +++ED   + R+EV   +EQLSLAIG++GQN RLA++L G  IDI T
Sbjct: 301 EIIEEDGEQIARVEV--DEEQLSLAIGKKGQNSRLAARLCGIKIDIHT 346


>gi|29829095|ref|NP_823729.1| transcription elongation factor NusA [Streptomyces avermitilis
           MA-4680]
 gi|29606201|dbj|BAC70264.1| putative transcriptional termination/antitermination factor
           [Streptomyces avermitilis MA-4680]
          Length = 328

 Score =  223 bits (568), Expect = 6e-56,   Method: Compositional matrix adjust.
 Identities = 136/332 (40%), Positives = 199/332 (59%), Gaps = 21/332 (6%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I  D+++  +  ++  A     G+    RVE+N ETG ++++   E  E++E     
Sbjct: 14  EKEISFDLLVEAIESALLIAYHRTEGSRRHARVELNRETGHVTVW-AKEDPEDLEEG--- 69

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
              + AR+ D +            P  FGR+A  +AKQVI+Q++R+AE D    E+  + 
Sbjct: 70  ---QEAREFDDT------------PSGFGRIAATTAKQVILQRLRDAEDDATLGEYAGRE 114

Query: 139 GEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
           G+I++G V++  +  NV+VD+G  + ++   E +  E  + G R++SY+  V +  RGP 
Sbjct: 115 GDIVTGVVQQGRDPKNVLVDIGKLEAILPVQEQVPGETYQHGLRLRSYVVRVAKGVRGPS 174

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S ++  GAC+G 
Sbjct: 175 VTLSRTHPNLVKKLFALEVPEIADGSVEISAIAREAGHRTKIAVRSTRSGLNAKGACIGP 234

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQ 316
            G RV+ V+ EL  EKIDIV WS D A  V NAL PA V+KV V+D       V VP  Q
Sbjct: 235 MGGRVRNVMAELNGEKIDIVDWSDDPAEMVANALSPARVSKVEVVDLAARSARVTVPDYQ 294

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           LSLAIG+ GQN RLA++LTGW IDI  + E S
Sbjct: 295 LSLAIGKEGQNARLAARLTGWRIDIRPDTEQS 326


>gi|332300247|ref|YP_004442168.1| NusA antitermination factor [Porphyromonas asaccharolytica DSM
           20707]
 gi|332177310|gb|AEE13000.1| NusA antitermination factor [Porphyromonas asaccharolytica DSM
           20707]
          Length = 469

 Score =  223 bits (568), Expect = 6e-56,   Method: Compositional matrix adjust.
 Identities = 121/332 (36%), Positives = 202/332 (60%), Gaps = 3/332 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYTC 77
           K+ID + +L V+ DS +     ++G+  +  V IN ++GD  ++R  EVV +  VE    
Sbjct: 21  KNIDEETMLHVLEDSFRSILAKMFGSDDNFDVIINADSGDFEIWRTREVVADDAVERENE 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           Q++   AR+ DP  +IG  V+D +  + FGR A+ + +Q +  K+ + +++  Y  F ++
Sbjct: 81  QVAYTEAREIDPEAEIGDDVTDSVDFLSFGRRAIVNLRQTLSSKILDLQKEHFYQTFIER 140

Query: 138 VGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VGE+I+  V +V +   ++VD   ++ ++ + E I  E  R GD V + I  V  E   P
Sbjct: 141 VGELITAEVYQVWKRETLLVDEDGNELIMPKSEQIPDEYFRKGDSVHAVIARVDNENNNP 200

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +V LSRT P+F+ +LF + VPEI +G++ +K V+R PG RAK+AV S D  IDPVG+CVG
Sbjct: 201 RVTLSRTSPEFLKRLFEINVPEIADGLITIKRVARIPGVRAKIAVESYDDRIDPVGSCVG 260

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           M GSR++ +V EL  E ID++ ++ + + F+  AL PA ++ + L  +  + EV +  E 
Sbjct: 261 MNGSRIRGIVRELHGENIDVLTYTANDSLFIQRALSPAKISSIELYPETAKAEVYLRPED 320

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           + LAIG+   N++LAS LTG+ I++  +  D+
Sbjct: 321 VPLAIGKNASNIKLASVLTGFEIEVFRDAADT 352


>gi|313886723|ref|ZP_07820432.1| transcription termination factor NusA [Porphyromonas
           asaccharolytica PR426713P-I]
 gi|312923825|gb|EFR34625.1| transcription termination factor NusA [Porphyromonas
           asaccharolytica PR426713P-I]
          Length = 469

 Score =  223 bits (567), Expect = 7e-56,   Method: Compositional matrix adjust.
 Identities = 121/332 (36%), Positives = 202/332 (60%), Gaps = 3/332 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYTC 77
           K+ID + +L V+ DS +     ++G+  +  V IN ++GD  ++R  EVV +  VE    
Sbjct: 21  KNIDEETMLHVLEDSFRSILAKMFGSDDNFDVIINADSGDFEIWRTREVVADDAVERENE 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           Q++   AR+ DP  +IG  V+D +  + FGR A+ + +Q +  K+ + +++  Y  F ++
Sbjct: 81  QVAYTEAREIDPEAEIGDDVTDSVDFLSFGRRAIVNLRQTLSSKILDLQKEHFYQTFIER 140

Query: 138 VGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VGE+I+  V +V +   ++VD   ++ ++ + E I  E  R GD V + I  V  E   P
Sbjct: 141 VGELITAEVYQVWKRETLLVDEDGNELIMPKSEQIPDEYFRKGDSVHAVIARVDNENNNP 200

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +V LSRT P+F+ +LF + VPEI +G++ +K V+R PG RAK+AV S D  IDPVG+CVG
Sbjct: 201 RVTLSRTSPEFLKRLFEINVPEIADGLITIKRVARIPGVRAKIAVESYDDRIDPVGSCVG 260

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           M GSR++ +V EL  E ID++ ++ + + F+  AL PA ++ + L  +  + EV +  E 
Sbjct: 261 MNGSRIRGIVRELHGENIDVLTYTANDSLFIQRALSPAKISSIELYPETAKAEVYLRPED 320

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           + LAIG+   N++LAS LTG+ I++  +  D+
Sbjct: 321 VPLAIGKNASNIKLASVLTGFEIEVFRDAADT 352


>gi|313836822|gb|EFS74536.1| transcription termination factor NusA [Propionibacterium acnes
           HL037PA2]
 gi|314929769|gb|EFS93600.1| transcription termination factor NusA [Propionibacterium acnes
           HL044PA1]
 gi|314972198|gb|EFT16295.1| transcription termination factor NusA [Propionibacterium acnes
           HL037PA3]
 gi|328907626|gb|EGG27390.1| transcription elongation factor NusA [Propionibacterium sp. P08]
          Length = 323

 Score =  223 bits (567), Expect = 7e-56,   Method: Compositional matrix adjust.
 Identities = 118/242 (48%), Positives = 163/242 (67%), Gaps = 3/242 (1%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV--EYGNVIVDLGN 160
           P DFGRVA  +A+QVI Q++REAE +++Y  F    G++++G V++   +   V VDLG 
Sbjct: 76  PEDFGRVAASTARQVIFQRLREAEDEQKYGHFAAVEGDVVTGVVQQSYRDTRTVRVDLGT 135

Query: 161 SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIY 220
            +G++   E +  E    G R++ Y+  VR+E RGPQV++SRTHP  + KLF MEVPEI 
Sbjct: 136 LEGIMPPSEQVPGEKYFHGRRIRVYVVAVRKEARGPQVIVSRTHPNLVRKLFAMEVPEIE 195

Query: 221 NGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
             +V++KA++R+ G R+K+AV S +S +   GAC+G  G RV+AV+ EL +EKIDI+ WS
Sbjct: 196 QEVVEIKALAREAGHRSKIAVVSHNSDVSAKGACIGPMGQRVRAVMHELGEEKIDIIDWS 255

Query: 281 PDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
            D A FV  AL P+ V+ V V+D        IVP  QLSLAIGR GQN RLA++LTGW I
Sbjct: 256 EDPAEFVGAALSPSKVSSVTVIDPKAKTARAIVPDYQLSLAIGREGQNARLAARLTGWRI 315

Query: 340 DI 341
           DI
Sbjct: 316 DI 317


>gi|54026039|ref|YP_120281.1| transcription elongation factor NusA [Nocardia farcinica IFM 10152]
 gi|54017547|dbj|BAD58917.1| putative transcriptional termination/antitermination factor
           [Nocardia farcinica IFM 10152]
          Length = 342

 Score =  223 bits (567), Expect = 8e-56,   Method: Compositional matrix adjust.
 Identities = 132/337 (39%), Positives = 199/337 (59%), Gaps = 33/337 (9%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  +K I  + V+S +  ++  A R   G   + RV+IN  TG + +            
Sbjct: 10  AIVADKGISIETVISAIESALLTAYRHTEGHQPNARVDINQRTGAVRVM----------- 58

Query: 75  YTCQISLKVARDRDPSIDIGGVVSD-PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
                    AR+ D     G V+S+    P  FGR+A  +A+QV++Q++R+AE ++ + E
Sbjct: 59  ---------ARELDAD---GNVISEWDDTPEGFGRIAATTARQVVLQRLRDAENEKSFGE 106

Query: 134 FKDKVGEIISGTVKR----VEYGNVIVDLGN----SDGVIRRDETISRENLRPGDRVKSY 185
           F    G+I+ G V+R       G V+V +G+    ++G+I   E +  E    GDR+K Y
Sbjct: 107 FSTHEGDIVGGVVQRDARANARGTVVVRIGSELHGTEGLIPPAEQVPGETYEHGDRIKCY 166

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V R  RGPQ+ LSRTHP  + +LF +EVPEI +G V++ AV+R+ G R+K+AV S+ 
Sbjct: 167 VVGVSRGPRGPQITLSRTHPNLVRRLFALEVPEIADGSVEIVAVAREAGHRSKIAVRSTV 226

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA-IVTKVVLDED 304
             ++  GAC+G  G RV+ V++EL  EKIDI+ ++ D ATFV NAL P+ +V+  ++D D
Sbjct: 227 PGVNAKGACIGPMGQRVRNVMSELAGEKIDIIDYADDPATFVGNALSPSKVVSVTIVDPD 286

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
                V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 287 ARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDI 323


>gi|119717416|ref|YP_924381.1| transcription elongation factor NusA [Nocardioides sp. JS614]
 gi|119538077|gb|ABL82694.1| transcription termination factor NusA [Nocardioides sp. JS614]
          Length = 327

 Score =  223 bits (567), Expect = 9e-56,   Method: Compositional matrix adjust.
 Identities = 116/248 (46%), Positives = 167/248 (67%), Gaps = 2/248 (0%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-VIVDLGNS 161
           P  FGR+A  +AKQ+++Q++R+AE D ++ EF  K G+IISG +++    + V+VDLG  
Sbjct: 76  PAGFGRIAATTAKQIMLQRLRDAEDDVRFGEFSGKEGDIISGIIQQGRNPDDVMVDLGKL 135

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           + ++   E +  E    G R+K  +  VR+  RGPQ+ LSR+HP  + KLF +EVPEI +
Sbjct: 136 EALLPVGERVPGERYDHGTRIKCLVVSVRKGMRGPQITLSRSHPNLVKKLFALEVPEIAD 195

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           G V++ A++R+ G R KLAV S+   ++  GAC+G  GSRV+AV++EL  EKIDIV WS 
Sbjct: 196 GTVEIAAIAREAGHRTKLAVRSTVPGVNAKGACIGPMGSRVRAVMSELHGEKIDIVDWSE 255

Query: 282 DSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D A  V +AL PA VT V ++D       V+VP  QLSLAIG+ GQN RLA++LTGW ID
Sbjct: 256 DPAEMVAHALSPARVTSVEIVDAAAKSARVVVPDFQLSLAIGKEGQNARLAARLTGWRID 315

Query: 341 IITEEEDS 348
           I ++E ++
Sbjct: 316 IRSDEAEA 323


>gi|110005298|emb|CAK99622.1| putative transcription termination factor protein [Spiroplasma
           citri]
          Length = 471

 Score =  223 bits (567), Expect = 9e-56,   Method: Compositional matrix adjust.
 Identities = 118/339 (34%), Positives = 205/339 (60%), Gaps = 1/339 (0%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           LL   + +  EK I RD++L  + + I+KA    +   + + V+I+ +TG I + + L V
Sbjct: 7   LLTTINEIVSEKQISRDLILDSIKEGIKKAYEKHFDPEATVFVDIDQKTGQIKVEKELTV 66

Query: 69  VEEVENYTCQISLKVARDR-DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V++VE+   +I L  A+++    I I   V +P+   +F R+A+    Q+I Q+++EAE+
Sbjct: 67  VKKVEDDLLEIGLNEAKEKYGEQITIDDKVYEPVNSEEFSRLAIFQVGQIIKQQIKEAEK 126

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           D  + E+  + G +++G V   E   ++V++  +   I R   I  ++   G  +     
Sbjct: 127 DSIFDEYIIQKGHLMTGVVIAAEEKYLLVEVERTFAYIPRKNLIFSDHFEVGQPITFLAE 186

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           DV + +   Q+  SRT   F+ +L   E+PEI+  +++VKA++RDPG R+K+AV+S++ +
Sbjct: 187 DVIKSKNAGQITGSRTSNDFLYRLLEREIPEIFEQVIEVKAIARDPGRRSKIAVYSTNEN 246

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDP+GACVG +GSR+  V  EL+DEKIDI +++ +S  F+IN+L P  V  +  +++   
Sbjct: 247 IDPIGACVGSKGSRINKVTAELQDEKIDICIYNDNSQQFIINSLSPVKVISITTNDEGKE 306

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            +VIVP EQLSLAIG+ G   +L ++LT W ++I++  E
Sbjct: 307 ADVIVPDEQLSLAIGKGGSAAKLVAKLTKWKLNIMSYSE 345


>gi|225012171|ref|ZP_03702608.1| NusA antitermination factor [Flavobacteria bacterium MS024-2A]
 gi|225003726|gb|EEG41699.1| NusA antitermination factor [Flavobacteria bacterium MS024-2A]
          Length = 410

 Score =  222 bits (566), Expect = 9e-56,   Method: Compositional matrix adjust.
 Identities = 122/335 (36%), Positives = 204/335 (60%), Gaps = 7/335 (2%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYT 76
           +K IDR  ++ ++ D  +   +  +G+  +  + INP+ GD+ ++R   VVE+  VE+  
Sbjct: 16  DKLIDRVTLMVILEDVFKNTLKRKFGSDENFDIIINPDKGDLEIWRNRVVVEDGMVEDPN 75

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +I+LK AR  +P  ++G  VS+ +  +D GR  +Q  +Q ++ K+ E +    + +FKD
Sbjct: 76  QEIALKEARLIEPDFEVGEDVSEEVKLVDLGRRTIQYLRQNLVAKIFEHDSTTIFKQFKD 135

Query: 137 KVGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           + GE+ +  V  +    +I+  D GN + ++ +D  I  +  R GD ++  I  V     
Sbjct: 136 REGELYTAEVHHIRSREIILLDDDGN-EIILPKDRQIPSDFFRKGDNIRGIIETVELRGN 194

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
            P+++LSRT P F+ KLF  E+PE+++G++ +K   R PG +AK+AV S D  IDPVGAC
Sbjct: 195 KPRIILSRTSPIFLEKLFEQEIPEVFDGLITIKKAVRIPGEKAKVAVDSYDDRIDPVGAC 254

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPK 314
           VGM+GSR+  +V EL +E ID++ ++ +   F+  AL PA V  + ++E+  R+EV +  
Sbjct: 255 VGMKGSRIHGIVRELGNENIDVINYTNNLQLFIARALSPAKVNSLKINEETKRVEVFLNP 314

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITE--EED 347
           E++S AIG+ G N+RLA +LTG+ ID+  E  EED
Sbjct: 315 EEVSKAIGKGGANIRLAGKLTGYEIDVFREGVEED 349


>gi|229820977|ref|YP_002882503.1| NusA antitermination factor [Beutenbergia cavernae DSM 12333]
 gi|229566890|gb|ACQ80741.1| NusA antitermination factor [Beutenbergia cavernae DSM 12333]
          Length = 346

 Score =  222 bits (566), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 131/325 (40%), Positives = 200/325 (61%), Gaps = 26/325 (8%)

Query: 23  DRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           +R++ L V+  +I++A  S Y    G   + RV ++ ++G +++    EVV E +     
Sbjct: 14  EREISLDVLVGAIEQALLSAYERTPGAYPEARVHLDRQSGHVTVL-ATEVVGEGDE---- 68

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
              +V R+ D +            P  FGR+A  +A+QVIIQ++R+AE D+    F+ + 
Sbjct: 69  ---EVRREFDHT------------PEGFGRIATSTARQVIIQRLRDAEDDQVLGTFRGRE 113

Query: 139 GEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
           GE+I+G V++    G V+VD+G  + V+   E +  E+   G+R+++Y+ DV R  +GP 
Sbjct: 114 GELIAGVVQQGGRVGAVLVDVGGVEAVLPPHEQVPGESYPHGERIRAYVLDVSRGLKGPS 173

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           + LSRTHP F+ ++F +EVPE+ +G V++ A++R+ G R K+AV S    +   GAC+G 
Sbjct: 174 ITLSRTHPNFVRRMFALEVPEVADGSVEIAALAREAGHRTKMAVRSLVPGVGAKGACIGP 233

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQ 316
            G RV+AV+ ELR EKIDIV +S D A FV  AL PA V+ V ++D +     VIVP  Q
Sbjct: 234 MGQRVRAVMAELRGEKIDIVDFSEDPARFVAAALSPARVSSVQIVDAEARSARVIVPDYQ 293

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDI 341
           LSLAIG+ GQN RLA++LTGW IDI
Sbjct: 294 LSLAIGKEGQNARLAARLTGWRIDI 318


>gi|290957021|ref|YP_003488203.1| transcriptional termination/antitermination factor [Streptomyces
           scabiei 87.22]
 gi|260646547|emb|CBG69644.1| putative transcriptional termination/antitermination factor
           [Streptomyces scabiei 87.22]
          Length = 328

 Score =  222 bits (565), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 136/330 (41%), Positives = 198/330 (60%), Gaps = 21/330 (6%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I  D+++  +  ++  A     G+    RVE+N ETG ++++   E  E++E     
Sbjct: 14  EKEISFDLLVEAIEAALLIAYHRTEGSRRHARVELNRETGHVTVW-AKEDPEDLEEG--- 69

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
              + AR  D +            P DFGR+A  +AKQVI+Q++R+AE D    E+  + 
Sbjct: 70  ---QEARAFDDT------------PSDFGRIAATTAKQVILQRLRDAEDDATLGEYAGRE 114

Query: 139 GEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
           G+I++G V++  +  NV+VD+G  + ++   E +  E  + G R++SY+  V +  RGP 
Sbjct: 115 GDIVTGVVQQGRDPKNVLVDIGKLEAILPVQEQVPGETYQHGMRLRSYVVRVAKGVRGPS 174

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S ++  GAC+G 
Sbjct: 175 VTLSRTHPSLVKKLFALEVPEIADGSVEIAAIAREAGHRTKIAVRSTRSGLNAKGACIGP 234

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQ 316
            G RV+ V+ EL  EKIDIV WS D A  V NAL PA V+KV V+D       V VP  Q
Sbjct: 235 MGGRVRNVMGELNGEKIDIVDWSDDPAEMVANALSPARVSKVEVVDLAARSARVTVPDYQ 294

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           LSLAIG+ GQN RLA++LTGW IDI  + E
Sbjct: 295 LSLAIGKEGQNARLAARLTGWRIDIRPDTE 324


>gi|311113215|ref|YP_003984437.1| transcription termination factor NusA [Rothia dentocariosa ATCC
           17931]
 gi|310944709|gb|ADP41003.1| transcription termination factor NusA [Rothia dentocariosa ATCC
           17931]
          Length = 349

 Score =  222 bits (565), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 114/247 (46%), Positives = 167/247 (67%), Gaps = 8/247 (3%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN----VIVDL 158
           P +FGR+A  + +QV+ Q++R+AE      EFKD+ G + SG +++   GN    V VDL
Sbjct: 80  PNNFGRIAAATVRQVLSQRLRDAEDASVLGEFKDREGTLASGVIQQ---GNNPRMVQVDL 136

Query: 159 GNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPE 218
           G  + V+  +E +  E    G R+++Y+ + RR Q+GP ++LSR+HP  +++LF  EVPE
Sbjct: 137 GTIEAVLPANEQVPGEQYPHGTRIRAYLLEARRGQKGPSIVLSRSHPNLVLRLFEHEVPE 196

Query: 219 IYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           I +G V++ +++R+ G R+K+AV +++ SI+  GAC+G  G+RV+AV  EL DEKIDIV 
Sbjct: 197 IADGSVKINSIAREAGHRSKIAVSATNPSINAKGACIGDMGARVRAVAAELNDEKIDIVD 256

Query: 279 WSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           +S D A F+  AL PA VT+V++ D        IVP EQLSLAIGR GQN RLA++LTGW
Sbjct: 257 YSTDPAEFITAALSPAKVTEVIIADPREYSARAIVPDEQLSLAIGREGQNARLAAKLTGW 316

Query: 338 TIDIITE 344
            IDI+ E
Sbjct: 317 RIDILAE 323


>gi|237736658|ref|ZP_04567139.1| transcription elongation factor NusA [Fusobacterium mortiferum ATCC
           9817]
 gi|229420520|gb|EEO35567.1| transcription elongation factor NusA [Fusobacterium mortiferum ATCC
           9817]
          Length = 354

 Score =  222 bits (565), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 131/325 (40%), Positives = 204/325 (62%), Gaps = 3/325 (0%)

Query: 22  IDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTCQI 79
           I ++ +LS +  ++  A +  YG   D+ VEI+ ETGD+ ++ +  VV  E++ +   +I
Sbjct: 22  ISKESLLSTVEQALLAAYKKNYGEEEDVEVEIDRETGDVKIYEVKTVVPTEDLYDAAIEI 81

Query: 80  SLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVG 139
           S   A +    + IG V+   +   +F R A+Q+ KQ++IQKVREAER+  Y  FK K  
Sbjct: 82  SYDDALEIKKRVKIGEVIRIEVNCEEFRRNAIQNGKQIVIQKVREAEREYIYDRFKVKEH 141

Query: 140 EIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
           +II+G ++R+ E  NV ++    + ++   E    +  R G+R+K Y+ +V +  + P++
Sbjct: 142 DIINGIIRRIDERKNVFIEFDGIEAILPPVEQSPADTYRVGERIKVYLAEVEKTNKFPKI 201

Query: 199 LLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMR 258
           ++SR H   + KLF +E+PEI +G++++KAV+R+ GSRAK+AV+S+D +ID VGAC+G +
Sbjct: 202 VISRKHEGLLRKLFELEIPEITSGLIEIKAVAREAGSRAKVAVYSADPNIDTVGACIGQK 261

Query: 259 GSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLS 318
           G R++ +V EL  EKIDIVVW      FV   L PA V  V + E+     VIV   QLS
Sbjct: 262 GLRIKNIVNELNGEKIDIVVWKESVEEFVSAVLSPAKVVSVEVVEEENTARVIVDNSQLS 321

Query: 319 LAIGRRGQNVRLASQLTGWTIDIIT 343
           LAIG+ GQN RLA++LTG  +DI T
Sbjct: 322 LAIGKNGQNARLAAKLTGMRVDIKT 346


>gi|328955634|ref|YP_004372967.1| NusA antitermination factor [Coriobacterium glomerans PW2]
 gi|328455958|gb|AEB07152.1| NusA antitermination factor [Coriobacterium glomerans PW2]
          Length = 411

 Score =  222 bits (565), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 142/354 (40%), Positives = 201/354 (56%), Gaps = 50/354 (14%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL---EVVEEVENY 75
           EK ID+  ++  +  S+ K+   +        V I+  TG + ++ L+   E  EE   Y
Sbjct: 15  EKHIDQLYLIDCLEQSLSKSYADILHLEYGAEVTIDRATGKVYVYELVPKGEPDEETGEY 74

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
           T               D   V      P D  R+A Q AK  I   VR + R++ Y EF 
Sbjct: 75  T-------------EFDKKDVT-----PKDTSRIAAQHAKAEINAIVRNSAREQIYEEFS 116

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGV--------IRRDETISRENLRPG-------D 180
           D++G+II+GTV +      IV +   +GV        +RR E  +  N RP         
Sbjct: 117 DRIGDIITGTVLQSTPDFTIVKI--REGVEAELPHFDLRRFE--NERNERPAGERYMHNQ 172

Query: 181 RVKSYIYDVR------REQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVS 230
           R+K+ I DVR      + QRG    P +++SRTHP  + +LF +EVPEIY G V+VK+++
Sbjct: 173 RLKAVIIDVRDPNSTMQPQRGERSRPPIVISRTHPALIKRLFELEVPEIYEGTVEVKSIA 232

Query: 231 RDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA 290
           R+PG R+K+AV S D  +DPVGACVG +GSRV+ VV ELR E++D+++W  D + FV NA
Sbjct: 233 REPGQRSKVAVHSLDDRLDPVGACVGPKGSRVRTVVGELRGERVDVILWDADPSVFVANA 292

Query: 291 LRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           L PA V++V++DE+     VIVP +QLSLAIG+ GQN RLA++LTGW IDI  E
Sbjct: 293 LSPAKVSRVLIDEEKSYAGVIVPDDQLSLAIGKEGQNARLAARLTGWHIDIKNE 346


>gi|300743965|ref|ZP_07072985.1| transcription termination factor NusA [Rothia dentocariosa M567]
 gi|300380326|gb|EFJ76889.1| transcription termination factor NusA [Rothia dentocariosa M567]
          Length = 345

 Score =  222 bits (565), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 114/247 (46%), Positives = 167/247 (67%), Gaps = 8/247 (3%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN----VIVDL 158
           P +FGR+A  + +QV+ Q++R+AE      EFKD+ G + SG +++   GN    V VDL
Sbjct: 76  PNNFGRIAAATVRQVLSQRLRDAEDASVLGEFKDREGTLASGVIQQ---GNNPRMVQVDL 132

Query: 159 GNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPE 218
           G  + V+  +E +  E    G R+++Y+ + RR Q+GP ++LSR+HP  +++LF  EVPE
Sbjct: 133 GTIEAVLPANEQVPGEQYPHGTRIRAYLLEARRGQKGPSIVLSRSHPNLVLRLFEHEVPE 192

Query: 219 IYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           I +G V++ +++R+ G R+K+AV +++ SI+  GAC+G  G+RV+AV  EL DEKIDIV 
Sbjct: 193 IADGSVKINSIAREAGHRSKIAVSATNPSINAKGACIGDMGARVRAVAAELNDEKIDIVD 252

Query: 279 WSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           +S D A F+  AL PA VT+V++ D        IVP EQLSLAIGR GQN RLA++LTGW
Sbjct: 253 YSTDPAEFITAALSPAKVTEVIIADPREYSARAIVPDEQLSLAIGREGQNARLAAKLTGW 312

Query: 338 TIDIITE 344
            IDI+ E
Sbjct: 313 RIDILAE 319


>gi|34540099|ref|NP_904578.1| transcription elongation factor NusA [Porphyromonas gingivalis W83]
 gi|188994218|ref|YP_001928470.1| transcription elongation factor NusA [Porphyromonas gingivalis ATCC
           33277]
 gi|34396410|gb|AAQ65477.1| N utilization substance protein A, putative [Porphyromonas
           gingivalis W83]
 gi|188593898|dbj|BAG32873.1| putative nitrogen utilization substance protein A [Porphyromonas
           gingivalis ATCC 33277]
          Length = 444

 Score =  221 bits (564), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 114/326 (34%), Positives = 204/326 (62%), Gaps = 3/326 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYTC 77
           K+ID++ +++V+ DS +     ++G+  +  V INPE GD  ++R  +VVE+  VE+ + 
Sbjct: 21  KNIDKETMINVLEDSFRNVLAKIFGSDDNFDVIINPEKGDFEIWRTRQVVEDGAVEDESR 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           ++SL  A + DP  ++G  V+D +    FGR A+ + +Q +  K+ E +++  +  F ++
Sbjct: 81  EVSLSDAHEIDPEAEVGEEVTDSVNFASFGRRAILNLRQALSSKIMELQKENLFNTFTER 140

Query: 138 VGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           +G++IS  V +V +   +++D   ++ ++ + E I  +  R G+ V + +  V      P
Sbjct: 141 IGQLISAEVYQVWKREALLIDDDGNELLMPKSEQIPSDFFRKGETVHAVVERVENANNNP 200

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           ++++SRT  +F+ +LF + VPEI +G++ ++ V+R PG RAK+AV S D  IDPVGACVG
Sbjct: 201 KIIVSRTSGEFLKRLFELNVPEIADGLITIRCVARIPGERAKMAVESYDDRIDPVGACVG 260

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           M GSR++ +V ELR E ID+  ++ ++A F+  AL PA ++ + L E   + EV +  E+
Sbjct: 261 MNGSRIRGIVRELRGENIDVTQYTTNTALFIQRALSPARISSIRLLEAEHKAEVFLRPEE 320

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDII 342
           + LAIG+   N++LAS LTG+ I++ 
Sbjct: 321 VPLAIGKNASNIKLASGLTGYQIEVF 346


>gi|91217187|ref|ZP_01254149.1| transcription elongation factor NusA [Psychroflexus torquis ATCC
           700755]
 gi|91184787|gb|EAS71168.1| transcription elongation factor NusA [Psychroflexus torquis ATCC
           700755]
          Length = 411

 Score =  221 bits (564), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 124/336 (36%), Positives = 201/336 (59%), Gaps = 8/336 (2%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYT 76
           +K IDR  +++++ D  + A +  +G   +  + INP+ GD+ ++R   VV   EVE+  
Sbjct: 16  DKLIDRVTLMAILEDVFRNALKKKFGQDDNFDIIINPDKGDLEIWRNRNVVNDGEVEDEN 75

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +ISLK AR  +P  ++G  VS+ +     GR A+ + +Q +I K+ E +    +  F+D
Sbjct: 76  KEISLKDARKIEPDFEVGEDVSEEVKLYQLGRRAILALRQNLISKIHEHDSTNTFKYFQD 135

Query: 137 KVGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
            +GEI +  V  V +  VI+  D GN + +I ++  I  +  R GD ++  I  V  +  
Sbjct: 136 LIGEIYTAEVHHVRHNVVILLDDDGN-ELIIPKEHQIPSDFYRKGDSIRGVIEKVELKGN 194

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
            P ++LSRT P+F+ KLF  E+PE+++G++ VK   R PG +AK+AV + D  IDPVGAC
Sbjct: 195 KPIIILSRTTPKFLEKLFEQEIPEVFDGLITVKNAVRIPGEKAKVAVDTYDDRIDPVGAC 254

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPK 314
           VGM+GSR+  +V EL +E ID++ ++ +   ++  AL PA +  + L+E+    EV +  
Sbjct: 255 VGMKGSRIHGIVRELGNENIDVINYTNNPQLYIQRALSPAKIVNIKLNEEKKYAEVTLKP 314

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDII---TEEED 347
           E++S AIGR G N+RLA  LTG+ I++     EEED
Sbjct: 315 EEVSKAIGRGGHNIRLAGLLTGYNIEVFRDGIEEED 350


>gi|296394257|ref|YP_003659141.1| transcription termination factor NusA [Segniliparus rotundus DSM
           44985]
 gi|296181404|gb|ADG98310.1| transcription termination factor NusA [Segniliparus rotundus DSM
           44985]
          Length = 342

 Score =  221 bits (563), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 139/353 (39%), Positives = 212/353 (60%), Gaps = 33/353 (9%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +Q   A+  EK +  + ++  +A ++  A +   G  SD RV+I+ + G + +       
Sbjct: 5   VQTLRAIEAEKGLSSEKIIDAIASALLTAYKHTDGHQSDARVDIDRKHGAVRVL------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                           +RD   ++ G   D   P DFGR+A  +A+QVI+Q++R+AE D+
Sbjct: 59  --------------VAERDEDGNLLGEYDDT--PDDFGRIATMTARQVILQRLRDAEGDQ 102

Query: 130 QYLEFKDKVGEIISGTVKR----VEYGNVIVDLGNS----DGVIRRDETISRENLRPGDR 181
            + +   K G+I++G V+R     E G  IV +G+     +GV+   E +  E+L  GDR
Sbjct: 103 GFADLPVKEGDIVAGVVQRDARANERGLQIVRMGSELKSYEGVLPVAEQVPGESLVHGDR 162

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           VK Y+  V+  +RGPQ+ LSRTHP  + KLF +EVPEI +G VQ+ AV+R+ G R+K+AV
Sbjct: 163 VKCYVVSVKPGRRGPQITLSRTHPNLVRKLFALEVPEIGDGAVQIVAVAREAGHRSKIAV 222

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP--AIVTKV 299
            S+   ++  GAC+G  G RV+ V++EL  EKID++ +  D ATFV NAL P  A++T+ 
Sbjct: 223 KSTVPGLNAKGACIGQNGQRVRNVMSELAGEKIDLIDFDEDPATFVGNALSPARALLTR- 281

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
           VLD  V  + V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E++  + R+
Sbjct: 282 VLDPVVKAVRVVVPDSQLSLAIGKEGQNARLAARLTGWRIDIRSEQDPEVARK 334


>gi|226306117|ref|YP_002766077.1| transcription elongation protein NusA [Rhodococcus erythropolis
           PR4]
 gi|229491401|ref|ZP_04385225.1| transcription termination factor NusA [Rhodococcus erythropolis
           SK121]
 gi|226185234|dbj|BAH33338.1| transcription elongation protein NusA [Rhodococcus erythropolis
           PR4]
 gi|229321686|gb|EEN87483.1| transcription termination factor NusA [Rhodococcus erythropolis
           SK121]
          Length = 343

 Score =  221 bits (562), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 130/336 (38%), Positives = 196/336 (58%), Gaps = 30/336 (8%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  EK +  + V++ +  ++  A R   G   + R+++N +TG + +            
Sbjct: 10  AIEAEKGVSIETVIATIQTALLTAYRHTEGHKQNARIDVNIKTGSVRVM----------- 58

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                    A D D   ++ G   D  P   FGR+A  +A+QVI+Q++R+AE +R + EF
Sbjct: 59  ---------AHDTDADGNMIGEEWDDTPE-GFGRIAATTARQVILQRLRDAEHERSFGEF 108

Query: 135 KDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDRVKSYI 186
               GEI+ G ++R    N    V+V +G+    ++G++   E +  EN   G+R+K Y+
Sbjct: 109 STHEGEIVGGVIQRDTRANSRGMVVVRIGSESNGAEGLLPPAEQVPGENYEHGERIKCYV 168

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V R  RGPQ+ LSRTHP  + KLF +EVPEI +G V++  V+R+ G R+K+AV S   
Sbjct: 169 VGVARGARGPQITLSRTHPNLVRKLFALEVPEIADGSVEIINVAREAGHRSKIAVASRVQ 228

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA-IVTKVVLDEDV 305
            ++  GAC+G  G RV+ V++EL  EKIDI+ +  D ATFV NAL P+ +V+  V+D + 
Sbjct: 229 GLNAKGACIGPMGQRVRNVMSELAGEKIDIIDFDEDPATFVGNALSPSKVVSVTVVDPEA 288

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
               VIVP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 289 RAARVIVPDFQLSLAIGKEGQNARLAARLTGWRIDI 324


>gi|315225519|ref|ZP_07867329.1| transcription termination factor NusA [Capnocytophaga ochracea
           F0287]
 gi|314944463|gb|EFS96502.1| transcription termination factor NusA [Capnocytophaga ochracea
           F0287]
          Length = 410

 Score =  220 bits (561), Expect = 4e-55,   Method: Compositional matrix adjust.
 Identities = 123/350 (35%), Positives = 209/350 (59%), Gaps = 8/350 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N LEL++       +K I+R+ +++++ +  +   +  YG+  +  + INP+ GD+ +FR
Sbjct: 2   NSLELIESFSEFKDDKLINRETLMAILEEVFRNTLKKKYGSDDNFDIIINPDKGDLQIFR 61

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VVE+  V N   QI L VAR  +P  ++G  VS+ +   D GR A+ + +Q +I K+
Sbjct: 62  NRVVVEDGAVTNDNQQIELSVARKIEPDFEVGEDVSEEIKINDLGRRAILALRQNLISKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGD 180
            E +    Y  FKD +G++    +  + +  +I+  D GN + ++ +++ I  +  + G+
Sbjct: 122 HEYDSMTIYQRFKDLIGQLYVAEIHHIRHKAIILLDDEGN-EIILPKEKQIPSDFFKKGE 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            V+  I  V  +   P +++SRT P F+ +LF  E+PEI +G++ +  V R PG +AK+A
Sbjct: 181 HVRGIIESVELKSTKPTIIMSRTSPLFLERLFEQEIPEIADGLITINKVVRIPGEKAKVA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S D  ID VGACVG+RGSR+  +V EL +E ID++ ++ +    +  AL PA V+ V+
Sbjct: 241 VDSFDDRIDAVGACVGVRGSRIHGIVRELGNENIDVLPFTNNPQLLITRALAPARVSSVI 300

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE---EED 347
           ++E+  R +V +  E++S AIG+ G N+RLASQL+G+ ID+  E   EED
Sbjct: 301 INEEEKRADVYLANEEVSKAIGKSGYNIRLASQLSGYEIDVYREGATEED 350


>gi|21224053|ref|NP_629832.1| transcription elongation factor NusA [Streptomyces coelicolor
           A3(2)]
 gi|7801276|emb|CAB91140.1| putative transcriptional termination/antitermination factor
           [Streptomyces coelicolor A3(2)]
          Length = 340

 Score =  220 bits (561), Expect = 4e-55,   Method: Compositional matrix adjust.
 Identities = 134/330 (40%), Positives = 198/330 (60%), Gaps = 21/330 (6%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I  D+++  +  ++  A     G+    RVE++  TG ++++   E  +++E     
Sbjct: 14  EKEISFDLLVEAIESALLIAYHRTEGSRRHARVELDRNTGHVTVW-AKEDPDDLEEG--- 69

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
              + AR+ D +            P DFGR+A  +AKQVI+Q++R+AE D    E+  + 
Sbjct: 70  ---QAAREFDDT------------PSDFGRIAATTAKQVILQRLRDAEDDATLGEYAGRE 114

Query: 139 GEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
           G+I++G V++  +  NV+VD+G  + ++   E +  E    G R++SY+  V +  RGP 
Sbjct: 115 GDIVTGVVQQGRDPKNVLVDIGKLEAILPVQEQVPGETYPHGARLRSYVVRVAKGVRGPS 174

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S ++  GAC+G 
Sbjct: 175 VTLSRTHPNLVKKLFALEVPEIADGSVEISAIAREAGHRTKIAVRSTRSGLNAKGACIGP 234

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQ 316
            G RV+ V+ EL  EKIDIV WS D A  V NAL PA V+KV V+D       VIVP  Q
Sbjct: 235 MGGRVRNVMGELNGEKIDIVDWSDDPAEMVANALSPARVSKVEVVDLAARSARVIVPDYQ 294

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           LSLAIG+ GQN RLA++LTGW IDI  + E
Sbjct: 295 LSLAIGKEGQNARLAARLTGWRIDIRPDTE 324


>gi|256784869|ref|ZP_05523300.1| transcription elongation factor NusA [Streptomyces lividans TK24]
 gi|289768763|ref|ZP_06528141.1| transcription termination factor NusA [Streptomyces lividans TK24]
 gi|289698962|gb|EFD66391.1| transcription termination factor NusA [Streptomyces lividans TK24]
          Length = 340

 Score =  220 bits (561), Expect = 4e-55,   Method: Compositional matrix adjust.
 Identities = 134/330 (40%), Positives = 198/330 (60%), Gaps = 21/330 (6%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I  D+++  +  ++  A     G+    RVE++  TG ++++   E  +++E     
Sbjct: 14  EKEISFDLLVEAIESALLIAYHRTEGSRRHARVELDRNTGHVTVW-AKEDPDDLEEG--- 69

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
              + AR+ D +            P DFGR+A  +AKQVI+Q++R+AE D    E+  + 
Sbjct: 70  ---QAAREFDDT------------PSDFGRIAATTAKQVILQRLRDAEDDATLGEYAGRE 114

Query: 139 GEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
           G+I++G V++  +  NV+VD+G  + ++   E +  E    G R++SY+  V +  RGP 
Sbjct: 115 GDIVTGVVQQGRDPKNVLVDIGKLEAILPVQEQVPGETYPHGARLRSYVVRVAKGVRGPS 174

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S ++  GAC+G 
Sbjct: 175 VTLSRTHPNLVKKLFALEVPEIADGSVEISAIAREAGHRTKIAVRSTRSGLNAKGACIGP 234

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQ 316
            G RV+ V+ EL  EKIDIV WS D A  V NAL PA V+KV V+D       VIVP  Q
Sbjct: 235 MGGRVRNVMGELNGEKIDIVDWSDDPAEMVANALSPARVSKVEVVDLAARSARVIVPDYQ 294

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           LSLAIG+ GQN RLA++LTGW IDI  + E
Sbjct: 295 LSLAIGKEGQNARLAARLTGWRIDIRPDTE 324


>gi|297562526|ref|YP_003681500.1| NusA antitermination factor [Nocardiopsis dassonvillei subsp.
           dassonvillei DSM 43111]
 gi|296846974|gb|ADH68994.1| NusA antitermination factor [Nocardiopsis dassonvillei subsp.
           dassonvillei DSM 43111]
          Length = 337

 Score =  220 bits (560), Expect = 5e-55,   Method: Compositional matrix adjust.
 Identities = 132/332 (39%), Positives = 195/332 (58%), Gaps = 24/332 (7%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I  ++V   + D++  A     G     RVE+N  TG ++++ + E  E+ E+    
Sbjct: 10  EKDISVELVAKAIEDALLIAYHREEGPEKRARVELNRSTGHVTVW-VAETDEDGESVG-- 66

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
                        +  G       P  FGR+A  +AKQVI+Q++R+AE +    EF  + 
Sbjct: 67  -------------EFDGT------PTGFGRIATSTAKQVILQRLRDAEDELTLGEFAGRE 107

Query: 139 GEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
            +I+SG +++  +  NV+VDLG  + V+   E +  E    G+R+++Y+  VR+  RGP 
Sbjct: 108 HDIVSGIIQQGKDPRNVLVDLGKIEAVLPPQEQVPTETYTHGERLRAYVVQVRKGHRGPS 167

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+   ++  GAC+G 
Sbjct: 168 VTLSRTHPNLVRKLFELEVPEIADGTVEIAAIAREAGHRTKMAVHSNRGGVNAKGACIGP 227

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI-EVIVPKEQ 316
            GSRV+ V+ EL  EKIDIV +S D A FV NAL PA V  V + +   R+  VIVP  Q
Sbjct: 228 LGSRVRNVMAELHGEKIDIVDYSEDPAVFVANALSPARVNSVEILDMASRVARVIVPDYQ 287

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
            SLAIG+ GQN RLA++LTGW IDI ++ E +
Sbjct: 288 QSLAIGKEGQNARLAARLTGWRIDIRSDAEPA 319


>gi|317125351|ref|YP_004099463.1| NusA antitermination factor [Intrasporangium calvum DSM 43043]
 gi|315589439|gb|ADU48736.1| NusA antitermination factor [Intrasporangium calvum DSM 43043]
          Length = 339

 Score =  220 bits (560), Expect = 5e-55,   Method: Compositional matrix adjust.
 Identities = 132/335 (39%), Positives = 200/335 (59%), Gaps = 15/335 (4%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  E+ I  DV++  +  ++  A     G+    RVE++ +TG + ++      EE + 
Sbjct: 10  ALERERGISLDVLIPAIEQALLVAYHRTEGSYRSARVELDRKTGHVVVW----AREEGDL 65

Query: 75  YTCQISLKVAR-DRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
              +   +  R +  P  D          P+ FGR+A  +A+QVI+Q++R+ E ++   +
Sbjct: 66  LPAEEGERPQRGEPGPEFDDT--------PVGFGRIAASTARQVIVQRLRDLEDEQILGD 117

Query: 134 FKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
           FK + G++ISG +++ +   NV+VD G  +G++   E +  E    G+R++ Y+  V+R 
Sbjct: 118 FKGREGDVISGVIQQSQDPRNVLVDFGAVEGILPLAEQVPGERYVHGERLRCYVVSVKRG 177

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            RGPQV LSRTHP  +  LF  EVPEI +G V++ A++R+ G R K+AV S    ++  G
Sbjct: 178 PRGPQVGLSRTHPNLVRTLFKFEVPEIADGTVEIAALARESGHRTKIAVHSKVPGVNAKG 237

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVI 311
           AC+G  G+RV+AV+TELR EKIDIV +S D ATFV  AL PA V  V ++D       V+
Sbjct: 238 ACIGPMGARVRAVMTELRGEKIDIVDYSEDPATFVAAALSPARVQSVEIVDAAARTARVV 297

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           VP  QLSLAIG+ GQN RLA++LTGW IDI  + E
Sbjct: 298 VPDYQLSLAIGKEGQNARLAAKLTGWRIDIRPDTE 332


>gi|296125433|ref|YP_003632685.1| NusA antitermination factor [Brachyspira murdochii DSM 12563]
 gi|296017249|gb|ADG70486.1| NusA antitermination factor [Brachyspira murdochii DSM 12563]
          Length = 498

 Score =  220 bits (560), Expect = 5e-55,   Method: Compositional matrix adjust.
 Identities = 140/435 (32%), Positives = 237/435 (54%), Gaps = 44/435 (10%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPET-GDISLFRLLE 67
           L Q++D    EK I  +++  V+A +++ A +  YG  +DI   I+ +   + ++++   
Sbjct: 9   LQQLSD----EKDISVELLKEVIASTMELALKKKYG--NDINFHIHFDNKNNPTVYKGAN 62

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMD-FGRVAVQSAKQVIIQKVREAE 126
           VVEEV +   +ISL+ A+  D  I++G  V   +  ++ FGR+    AK    QK+ + E
Sbjct: 63  VVEEVRDKNKEISLEEAKKLDQDINLGDEVLILVDQVEAFGRIESMVAKTTFFQKISDLE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           ++  Y EFK +  ++++G  +R   G + ++LG ++G +++ +   RE+   GDR+++YI
Sbjct: 123 KNIIYNEFKRRENQLVNGYFQREHKGTIYINLGKTEGELQKKDQSPREHYTVGDRIRAYI 182

Query: 187 YDV------RREQRGP-QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           Y V      R  +  P ++LL+RT   F+ KLF +E+PEI +G +++K V R PG + K+
Sbjct: 183 YKVQGGKDDRTGKEIPTKILLTRTKADFIKKLFELEIPEIADGTIEIKNVVRQPGLKIKV 242

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S+   +DP+GAC+G +G R+Q+++ E+  EKID+V WS D   ++  A+ PA   ++
Sbjct: 243 AVVSNKPEVDPIGACIGQKGIRIQSIIKEIEGEKIDVVKWSKDIREYIAEAITPAKPIRI 302

Query: 300 VL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ--KDFN 356
           ++ D +     +I+P EQLSLA+G+ G NV+LASQLTG+  DI TE +   N +  KD  
Sbjct: 303 IITDPEKKEAMIIIPDEQLSLALGKSGYNVKLASQLTGYYFDIKTETDIKENPELLKDIV 362

Query: 357 ERTQFFMQAI--------------------------NVDEIIAHLLVAEGFADVEELACV 390
              Q F                               +DE I   L+  G   +EEL  +
Sbjct: 363 PLNQIFSDTAEETENSSEAEAAEAAEVFESNLYSLQGIDESIIKTLIDNGINSIEELYNL 422

Query: 391 KISEIASIEGFDEET 405
              EI      D++T
Sbjct: 423 SAEEIMEKTNLDKDT 437


>gi|291543557|emb|CBL16666.1| transcription termination factor NusA [Ruminococcus sp. 18P13]
          Length = 353

 Score =  220 bits (560), Expect = 6e-55,   Method: Compositional matrix adjust.
 Identities = 136/335 (40%), Positives = 195/335 (58%), Gaps = 4/335 (1%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSD-IRVEINPETGDISLFRLLEVVEEVENYTC 77
           E S++ D+++  +  ++ KA    Y    D +RV+I+P T    L  +  VV++      
Sbjct: 15  ENSVETDLLVEKVKSAMTKAIHRAYPDSGDNVRVDIDPVTKTFDLCIIKTVVDDEPLDDN 74

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +I++  AR  DPS  +GG V   L      R A QSAKQ I   +RE  R+    +F+DK
Sbjct: 75  EINIDQARLIDPSAVVGGTVECKLDTASLSRNAAQSAKQSIRGDLREISRENLLTKFQDK 134

Query: 138 VGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
             E I+ TV +VE G   V L    ++  + R+E I  E L+ G  VK YI  +  +Q+ 
Sbjct: 135 ENECITATVSQVEPGRGTVTLIYDKTELYLFRNEQIPGEVLKEGQSVKVYITGIANKQKK 194

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P + +SR H   + +LF +EVPEIY+G V+V A+SR+ G+R K+AV S D ++D VGAC+
Sbjct: 195 PIIKISRAHRDLVKRLFELEVPEIYDGTVEVMAISREAGARTKIAVQSHDPNVDAVGACI 254

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR-IEVIVPK 314
           G + SR+ AVV EL  EKIDI+ +S     F+  AL PA V  V + +   R   V+VP 
Sbjct: 255 GPKRSRITAVVNELNGEKIDIINYSDKPEEFIAKALAPAEVLSVTITDPENRSCTVVVPN 314

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
            QLSLAIG RGQN +LA++LTG+ IDI  E E+ I
Sbjct: 315 NQLSLAIGNRGQNAKLAAKLTGYKIDIKPEFENPI 349


>gi|256820092|ref|YP_003141371.1| transcription elongation factor NusA [Capnocytophaga ochracea DSM
           7271]
 gi|256581675|gb|ACU92810.1| NusA antitermination factor [Capnocytophaga ochracea DSM 7271]
          Length = 410

 Score =  220 bits (560), Expect = 6e-55,   Method: Compositional matrix adjust.
 Identities = 124/350 (35%), Positives = 209/350 (59%), Gaps = 8/350 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N LEL++       +K I+R+ +++++ +  +   +  YG+  +  + INP+ GD+ +FR
Sbjct: 2   NSLELIESFSEFKDDKLINRETLMAILEEVFRNTLKKKYGSDDNFDIIINPDKGDLQIFR 61

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VVE+  V N   QI L VAR  +P  ++G  VS+ +   D GR A+ + +Q +I K+
Sbjct: 62  NRVVVEDGAVTNDNQQIELSVARKIEPDFEVGEDVSEEIKIDDLGRRAILALRQNLISKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGD 180
            E +    Y  FKD +G++    +  + +  +I+  D GN + ++ +++ I  +  + G+
Sbjct: 122 HEYDSMTIYQRFKDLIGQLYVAEIHHIRHKAIILLDDEGN-EIILPKEKQIPSDFFKKGE 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            V+  I  V  +   P +++SRT P F+ +LF  E+PEI +G++ +  V R PG +AK+A
Sbjct: 181 HVRGIIESVELKSTKPTIIMSRTSPLFLERLFEQEIPEIADGLITINRVVRIPGEKAKVA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S D  ID VGACVG+RGSR+  +V EL +E ID++ ++ +    +  AL PA V+ VV
Sbjct: 241 VDSFDDRIDAVGACVGVRGSRIHGIVRELGNENIDVLPFTNNPQLLITRALAPARVSSVV 300

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE---EED 347
           ++E+  R +V +  E++S AIG+ G N+RLASQL+G+ ID+  E   EED
Sbjct: 301 INEEEKRADVYLANEEVSKAIGKSGYNIRLASQLSGYEIDVYREGATEED 350


>gi|213964507|ref|ZP_03392707.1| transcription termination factor NusA [Corynebacterium amycolatum
           SK46]
 gi|213952700|gb|EEB64082.1| transcription termination factor NusA [Corynebacterium amycolatum
           SK46]
          Length = 328

 Score =  220 bits (560), Expect = 6e-55,   Method: Compositional matrix adjust.
 Identities = 131/338 (38%), Positives = 201/338 (59%), Gaps = 33/338 (9%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I  D +L ++A +++++ R+        RVEI+ ETGD+ +F               
Sbjct: 14  EKGIPVDEMLGLVARALRESYRNTTAPAQYARVEIDRETGDVIVF--------------- 58

Query: 79  ISLKVARDRDPSIDIGGVVSD-PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
                A++RD   D G ++S+    P DF R A  + +Q I+ ++R+AE D+   E+ D 
Sbjct: 59  -----AQERD---DEGNLISEWDDTPEDFERTAAFAVRQTILSRLRDAESDKVLDEYADL 110

Query: 138 VGEIISGTVKRVEYGN----VIVDLGNS----DGVIRRDETISRENLRPGDRVKSYIYDV 189
             ++ISG V+R  Y N    V+V +G+     DG++   E +  E L+ GDR+K Y+  V
Sbjct: 111 SNQVISGVVQRDVYANEKGIVVVHIGSEANGRDGILMPAEQLPGEELKHGDRIKCYVVGV 170

Query: 190 RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSID 249
            +  RG  + LSRTHP+ + KLF +E+PE+ +G V++ +++R+ G R K+AV  +   ++
Sbjct: 171 NKTPRGVAIHLSRTHPELIRKLFELEIPEVADGAVELISIAREAGHRTKVAVRPTVKGLN 230

Query: 250 PVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRI 308
             GAC+G RG RV +++ EL+ EKIDI+ +  D A FV N+L PA V  V +LD D  R 
Sbjct: 231 AKGACIGPRGQRVSSIMNELKGEKIDIIDYDEDPAKFVGNSLAPAKVVSVKILDMDERRA 290

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            V+VP  QLSLAIG+ GQN RLA++LTGW IDI ++ E
Sbjct: 291 HVVVPDYQLSLAIGKEGQNARLAARLTGWRIDIHSDAE 328


>gi|139436991|ref|ZP_01771151.1| Hypothetical protein COLAER_00125 [Collinsella aerofaciens ATCC
           25986]
 gi|133776638|gb|EBA40458.1| Hypothetical protein COLAER_00125 [Collinsella aerofaciens ATCC
           25986]
          Length = 415

 Score =  220 bits (560), Expect = 6e-55,   Method: Compositional matrix adjust.
 Identities = 141/354 (39%), Positives = 203/354 (57%), Gaps = 50/354 (14%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV---VEEVENY 75
           EK ID+  ++  +  S+ K+   +       +V I+  TG I ++RL  +   ++E  N+
Sbjct: 16  EKHIDQLYLIDRLEQSLAKSYAEILHLEWGAKVTIDRTTGKIYVYRLEPIDDSMDEEGNF 75

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
           T    + V                   P +  R+A Q AK  I   VR + R++ Y EF 
Sbjct: 76  TEFEEIDVT------------------PKNTSRIAAQHAKAEINAIVRNSAREQIYEEFS 117

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGV--------IRRDETISRENLRP-GDR----- 181
            ++G++ISGTV +      IV +   +GV         RR E  +  N RP G+R     
Sbjct: 118 GRIGDLISGTVLQSTPDFTIVKI--REGVEAELPHFDQRRYE--NERNERPMGERYLHNQ 173

Query: 182 -VKSYIYDVRR----------EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVS 230
            +K+ I DVR           E   P +++SRTHP+ M +LF  EVPEIY G VQ+K+++
Sbjct: 174 HIKAVIIDVRDPNSNLQPVRGEHSRPPIVISRTHPELMRRLFEQEVPEIYEGTVQIKSIA 233

Query: 231 RDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA 290
           R+PG R+K+AV S D  +DPVGACVG +GSRV+AVV ELR E++D+++W  D A +V NA
Sbjct: 234 REPGQRSKVAVHSLDDRLDPVGACVGPKGSRVRAVVGELRGERVDVILWDADPAVYVANA 293

Query: 291 LRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           L PA VT+V++DE+     VIVP +QLSLAIG+ GQN RLA++LTGW IDI +E
Sbjct: 294 LSPAKVTRVLIDEEKAYAGVIVPDDQLSLAIGKEGQNARLAARLTGWHIDIKSE 347


>gi|325000941|ref|ZP_08122053.1| transcription elongation factor NusA [Pseudonocardia sp. P1]
          Length = 344

 Score =  219 bits (559), Expect = 7e-55,   Method: Compositional matrix adjust.
 Identities = 136/338 (40%), Positives = 199/338 (58%), Gaps = 35/338 (10%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  +K I  + VL  +  ++  A R   G  SD RV+I+ +TG   + R+L        
Sbjct: 10  AIERDKEIPFETVLEAIETALLTAYRHTEGHHSDARVDIDRKTG---VVRVL-------- 58

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLP-----PMDFGRVAVQSAKQVIIQKVREAERDR 129
                    ARD   + + G     P P     P  FGR+A  +A+QVI+Q++R+AE +R
Sbjct: 59  ---------ARDASDAAEDG----TPGPEFDDTPEGFGRIAATTARQVIVQRLRDAEHER 105

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN----VIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
            Y EF  K GE+++G V+R    N    VIV+LG  ++ V+   E +  E  + G+R++ 
Sbjct: 106 TYGEFSTKEGEVVAGIVQRDARANARGVVIVELGGGTEAVLPAAEQVPGEVYQHGERIRC 165

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+  V R  RG  + LSRTHP  + KLF +EVPE+ +G +++ +V+R+ G R+K+AV S+
Sbjct: 166 YVIGVARGPRGTTITLSRTHPNLVRKLFALEVPELVDGSIEIVSVAREAGFRSKIAVRSA 225

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA-IVTKVVLDE 303
              ++  GAC+G  G+RV+ V+ EL  EKIDI+ WS D   FV NAL P+ +V+  VLDE
Sbjct: 226 RPGLNAKGACIGPMGARVRGVMGELAGEKIDIIDWSEDPGEFVGNALSPSKVVSVTVLDE 285

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
                 V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 286 RARIARVVVPDFQLSLAIGKEGQNARLAARLTGWKIDI 323


>gi|86133947|ref|ZP_01052529.1| transcription elongation protein NusA [Polaribacter sp. MED152]
 gi|85820810|gb|EAQ41957.1| transcription elongation protein NusA [Polaribacter sp. MED152]
          Length = 418

 Score =  219 bits (559), Expect = 7e-55,   Method: Compositional matrix adjust.
 Identities = 125/333 (37%), Positives = 203/333 (60%), Gaps = 12/333 (3%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYTC 77
           KSIDR  ++S++ +  + A +  +G+  +  + INP+ GD+ ++R   VV +   E+   
Sbjct: 17  KSIDRVTLMSILEEVFRAALKRKFGSDDNFDIIINPDKGDLEIWRNRVVVADGFSEDDNE 76

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +I L  AR  +P  +IG  VS+ +  +D GR A+ + +Q +I K+ E +    + +FKD 
Sbjct: 77  EIELSEARKIEPDFEIGEDVSEEVKLIDLGRRAILALRQNLISKIYEHDSTNIFKQFKDL 136

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
            GE+ S  V  + +  +I+  D GN + V+ + E I  +  R GD V+  I  V      
Sbjct: 137 EGELFSAEVHHIRHNAIILLDDEGN-EIVLPKSEQIRSDFFRKGDNVRGVIKTVELRGNK 195

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P ++LSRT P F+ KLF  E+PE+++G++ V+ V+R PG +AK+AV S D  IDPVGACV
Sbjct: 196 PAIILSRTSPAFLNKLFEQEIPEVFDGLITVEGVARIPGEKAKVAVDSYDDRIDPVGACV 255

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT--KVVLDED-----VGRI 308
           G++GSR+  +V EL +E ID++ ++ +   F+  AL PA VT  ++ + E+      GR+
Sbjct: 256 GVKGSRIHGIVRELGNENIDVINYTKNEQLFISRALSPAKVTSMEITMYEEEKNGKKGRV 315

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            V++  E++S AIGR G N+RLAS+LTG+ ID+
Sbjct: 316 SVLLKPEEVSKAIGRGGVNIRLASELTGYEIDV 348


>gi|326382939|ref|ZP_08204629.1| transcription elongation factor NusA [Gordonia neofelifaecis NRRL
           B-59395]
 gi|326198529|gb|EGD55713.1| transcription elongation factor NusA [Gordonia neofelifaecis NRRL
           B-59395]
          Length = 347

 Score =  219 bits (558), Expect = 8e-55,   Method: Compositional matrix adjust.
 Identities = 131/342 (38%), Positives = 203/342 (59%), Gaps = 31/342 (9%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           +K +  + VLS +  ++  A R   G   + R++I+ ++G + +  + + ++E  N    
Sbjct: 14  DKGVPAETVLSAIETALLTAYRHTDGFAPNARIDIDRKSGQVRV--MAQELDEDRN---- 67

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
               V  + D +            P  FGR+A  +A+QVI+Q++R+AE ++ Y E     
Sbjct: 68  ----VVHEWDDT------------PEGFGRIAATTARQVILQRLRDAENEKNYGELVAHE 111

Query: 139 GEIISGTV----KRVEYGNVIVDLGN----SDGVIRRDETISRENLRPGDRVKSYIYDVR 190
           GE++ G V    K    G VIV +G+    ++GVI   E +  E+ + GDR+K Y+  V 
Sbjct: 112 GEVVGGIVQADAKANARGMVIVQIGSDSNATEGVIPPAEQVPGESYKHGDRIKCYVVGVA 171

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDP 250
           R  RGPQ+ LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV +  + ++ 
Sbjct: 172 RGSRGPQITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAVHTGVAGLNA 231

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA-IVTKVVLDEDVGRIE 309
            GAC+G  G RV+ V++EL  EKIDI+ ++ D A FV +AL PA +V+  V+D++     
Sbjct: 232 KGACIGPMGQRVRNVMSELSGEKIDIIDYATDPAEFVGHALSPAKVVSVTVIDQETKAAR 291

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINR 351
           VIVP  QLSLAIG+ GQN RLA++LTGW IDI ++  D   R
Sbjct: 292 VIVPDYQLSLAIGKEGQNARLAARLTGWRIDIRSDAGDGGPR 333


>gi|271963647|ref|YP_003337843.1| transcription elongation factor NusA [Streptosporangium roseum DSM
           43021]
 gi|270506822|gb|ACZ85100.1| transcription elongation factor NusA [Streptosporangium roseum DSM
           43021]
          Length = 331

 Score =  219 bits (558), Expect = 9e-55,   Method: Compositional matrix adjust.
 Identities = 126/325 (38%), Positives = 197/325 (60%), Gaps = 23/325 (7%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I  D+V+  + D++  A     G  +  R E++ ++G +++F       E+++ + +
Sbjct: 10  EKDISFDLVVKAIEDALLIAYFRSEGAAAKARAELDRQSGHVTIF-----AAEIDDESGE 64

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
               V R+ D +            P +F R+A  +AKQVI+Q++R+AE +  + EF  + 
Sbjct: 65  ----VLREFDDT------------PGNFSRIAATTAKQVILQQLRDAEDEINFGEFASRE 108

Query: 139 GEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
           GE+++G +++ +   V+ VDLG  + V+  +E +  E    G+R++ Y+  V++  +GP 
Sbjct: 109 GELVAGVIQQGKDPRVVLVDLGKIEAVLPHNEQVPGEEYVHGERLRCYVVQVKKGHKGPS 168

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S    ++  GAC+G 
Sbjct: 169 VTLSRTHPGLVKKLFALEVPEIADGTVEIAAIAREAGHRTKIAVRSRRPGVNAKGACIGP 228

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQ 316
            GSRV+ V+ EL  EKIDI+ WS D A FV NAL P+ V+ V V+D +     V VP  Q
Sbjct: 229 MGSRVRNVMAELHGEKIDIIDWSEDPAEFVGNALSPSRVSHVEVIDAEGRAARVTVPDYQ 288

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDI 341
           LSLAIG+ GQN RLA++LTGW IDI
Sbjct: 289 LSLAIGKEGQNARLANRLTGWRIDI 313


>gi|320008230|gb|ADW03080.1| NusA antitermination factor [Streptomyces flavogriseus ATCC 33331]
          Length = 346

 Score =  219 bits (558), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 117/251 (46%), Positives = 165/251 (65%), Gaps = 2/251 (0%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNS 161
           P  FGR+A  +AKQVI+Q++R+AE DR + E+    G++++G V++  +  NV+VD+G  
Sbjct: 78  PSGFGRIAATTAKQVILQRLRDAEDDRTFGEYAGHEGDVVTGLVQQGKDPKNVLVDIGKL 137

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           + ++   E +  E    G R+++Y+  V +  RGP V LSRTHP  + KLF +EVPEI +
Sbjct: 138 EAILPVQEQVPGEEYTHGLRLRTYVVRVAKGVRGPSVTLSRTHPNLVKKLFALEVPEIAD 197

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           G V ++A++R+ G R K+AV S+ + ++P GAC+G  GSRV+ V+ EL  EKIDIV WS 
Sbjct: 198 GSVVIEAIAREAGHRTKIAVRSTRAGLNPKGACIGPMGSRVRNVMAELHGEKIDIVDWSD 257

Query: 282 DSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D A  V NAL PA V+KV V+D       V VP  QLSLAIG+ GQN RLA++LTGW ID
Sbjct: 258 DPAEMVANALSPARVSKVEVVDLGTRSARVTVPDYQLSLAIGKEGQNARLAARLTGWRID 317

Query: 341 IITEEEDSINR 351
           I  + E    R
Sbjct: 318 IRPDTETEAER 328


>gi|183981905|ref|YP_001850196.1| N utilization substance protein a NusA [Mycobacterium marinum M]
 gi|183175231|gb|ACC40341.1| N utilization substance protein a NusA [Mycobacterium marinum M]
          Length = 347

 Score =  219 bits (558), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 133/337 (39%), Positives = 198/337 (58%), Gaps = 33/337 (9%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  ++ I  + +L  +  ++  A R   G  +D R+EI+ +TG + +            
Sbjct: 10  AIEVDRGISVNELLETIKSALLTAYRHTQGHQTDARIEIDRKTGVVRVM----------- 58

Query: 75  YTCQISLKVARDRDPSIDIGGVVSD-PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
                    AR+ D   D G V+S+    P  FGR+A  +A+QV++Q+ R+AE +R Y E
Sbjct: 59  ---------ARETD---DDGNVISEWDDTPEGFGRIAATTARQVMLQRFRDAENERTYGE 106

Query: 134 FKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDRVKSY 185
           F  + GEI++G ++R    N    V+V +G+    S+GVI   E +  E+   G+R++ Y
Sbjct: 107 FSTREGEIVAGVIQRDSRANARGLVVVRMGSETKASEGVIPSAEQVPGESYEHGNRLRCY 166

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV S+ 
Sbjct: 167 VVGVSRGSREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAVRSNV 226

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
             ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V  V V+D+ 
Sbjct: 227 PGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDEDPARFVANALSPAKVVSVSVIDQT 286

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
                V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 287 ARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDI 323


>gi|332670044|ref|YP_004453052.1| transcription termination factor NusA [Cellulomonas fimi ATCC 484]
 gi|332339082|gb|AEE45665.1| transcription termination factor NusA [Cellulomonas fimi ATCC 484]
          Length = 350

 Score =  219 bits (557), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 128/343 (37%), Positives = 205/343 (59%), Gaps = 31/343 (9%)

Query: 23  DRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           +R++ L V+  +I++A  S Y    G+    RVE++  +G ++++               
Sbjct: 14  EREISLDVLVAAIEQALLSAYHRTPGSHQRARVEVDRRSGHVTVW--------------- 58

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMD-----FGRVAVQSAKQVIIQKVREAERDRQYLE 133
                AR+  P  + G  V   +P  D     FGR+A  +A+QVI+Q++R+AE D+    
Sbjct: 59  -----AREPAPVGEDGRPVEVDMPEFDDTPDGFGRIATATARQVIVQRLRDAEDDQVLGT 113

Query: 134 FKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
           F+ K GE++ G +++  +   V+VD+G ++ V+ + E +  E    G+R+++Y+ +V R 
Sbjct: 114 FRGKEGEVLGGVIQQGRDPRTVLVDVGGTEAVLPQHEQVPGEEYVHGERLRAYVLEVARG 173

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            RGPQV LSRTHP  + +LF +EVPE+ +G V++ A++R+ G R K+AV ++ + ++  G
Sbjct: 174 PRGPQVTLSRTHPNLVRRLFALEVPEVADGTVEITAMAREAGHRTKMAVRATVAGVNAKG 233

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA-IVTKVVLDEDVGRIEVI 311
           AC+G  G RV+AV+ EL  EKIDIV  S D A  + +AL PA +V+  V+D D     V+
Sbjct: 234 ACIGPMGGRVRAVMAELHGEKIDIVDHSDDPAEMIAHALSPARVVSVTVVDPDARAARVV 293

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
           VP  QLSLAIG+ GQN RLA++LTGW IDI ++ E     + D
Sbjct: 294 VPDYQLSLAIGKEGQNARLAAKLTGWRIDIRSDAETGAADESD 336


>gi|325971224|ref|YP_004247415.1| NusA antitermination factor [Spirochaeta sp. Buddy]
 gi|324026462|gb|ADY13221.1| NusA antitermination factor [Spirochaeta sp. Buddy]
          Length = 497

 Score =  219 bits (557), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 126/343 (36%), Positives = 208/343 (60%), Gaps = 7/343 (2%)

Query: 11  QIADAV---AYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +I DA+     EK+I  ++V+S + D ++ A +  +GT  +  +E + +   + L    +
Sbjct: 4   EIGDAIRSMVAEKNISEELVISTIEDILRAAYKRKFGTDENAVIEFSEDFLSVELASRRK 63

Query: 68  VVEEVENYT--CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           +V++   Y    +I L  A++     +IG  +  P+   DF R++VQSAKQ   Q  R+ 
Sbjct: 64  IVDDDNWYNEVTEIPLSEAKEIHEDCEIGDELLIPVDLKDFDRISVQSAKQRAHQSFRDI 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           ++D  Y E+K K G++I G  +R +  G++ VD+G ++G++ R    SRE+    D++K 
Sbjct: 124 QKDTLYSEYKAKEGQLIIGYYRRQLPNGDIYVDIGTTEGLLPRRNQSSRESYGSNDKIKC 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+  V + +RG +V+LSRT P  + KLF +EVPEI    + +  + R+ G R K+AV S 
Sbjct: 184 YVEKVEKAERGLRVVLSRTSPDLIRKLFEVEVPEIAQNQIDIIKIVREAGYRTKVAVASR 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK-VVLDE 303
           +  IDPVGACVG++G+R+Q +++E+  EKIDI+ +  +   ++ NAL PA V   VVLD+
Sbjct: 244 NDDIDPVGACVGLKGNRIQTIMSEIEGEKIDILRYDTNPVNYIRNALSPAQVKDVVVLDK 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           ++     IV   QLSLAIG++G NVRLA++L  W ID+ T+ +
Sbjct: 304 NIYHAVAIVEDTQLSLAIGKQGLNVRLANKLVDWMIDVKTQSQ 346


>gi|117928724|ref|YP_873275.1| transcription elongation factor NusA [Acidothermus cellulolyticus
           11B]
 gi|117649187|gb|ABK53289.1| NusA antitermination factor [Acidothermus cellulolyticus 11B]
          Length = 348

 Score =  219 bits (557), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 130/334 (38%), Positives = 198/334 (59%), Gaps = 24/334 (7%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I  D+++  +  ++  A +   G     RV ++ +TG++++   L    + E     
Sbjct: 14  EKDISFDLLVQAIETALLTAYQRTEGAYPRARVVLDRKTGEVTV---LAAETDAEG---- 66

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
               V R+ D +            P DF R+A  +AKQVI+Q++R+AE +  + E+  + 
Sbjct: 67  ---NVIREFDHT------------PQDFNRIAAMTAKQVILQRLRDAEHELTFGEYAGRE 111

Query: 139 GEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
           G+++ G +++  +  NV V+LG  +GV+   E +  E    G+R++ Y+  V +  RGPQ
Sbjct: 112 GDVVGGIIQQQHDSRNVYVNLGKVEGVLPVTEQVPGERYVHGERIRCYVLSVHKGIRGPQ 171

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           + LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S    ++  GAC+G 
Sbjct: 172 ITLSRTHPGLVRKLFALEVPEIADGSVEIVALAREAGHRTKIAVRSKVPGLNAKGACIGP 231

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQ 316
            G RV+AV+ EL  EKIDI+ +S D ATFV NAL PA VT V ++D       VIVP  Q
Sbjct: 232 LGQRVRAVMAELHGEKIDIIDYSDDPATFVANALSPARVTSVEIVDPVTKSARVIVPDYQ 291

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
           LSLAIGR GQN RLA++LTGW IDI  + E +++
Sbjct: 292 LSLAIGREGQNARLAARLTGWRIDIRPDTEAALS 325


>gi|294631732|ref|ZP_06710292.1| transcription termination factor NusA [Streptomyces sp. e14]
 gi|292835065|gb|EFF93414.1| transcription termination factor NusA [Streptomyces sp. e14]
          Length = 328

 Score =  219 bits (557), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 134/332 (40%), Positives = 196/332 (59%), Gaps = 21/332 (6%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I  D+++  +  ++  A     G+    RVE+N ETG ++++   E  E++E     
Sbjct: 14  EKEISFDLLVEAIESALLIAYHRTEGSRRHARVELNRETGHVTVW-AKEDPEDLEEG--- 69

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
              +  R+ D +            P  FGR+A  +AKQVI+Q++R+AE D    E+  + 
Sbjct: 70  ---QAPREFDDT------------PSGFGRIAATTAKQVILQRLRDAEDDATLGEYAGRE 114

Query: 139 GEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
           G+I++G V++  +  NV+VD+G  + ++   E +  E    G R++SY+  V +  RGP 
Sbjct: 115 GDIVTGVVQQGRDPKNVLVDIGKLEAILPVQEQVPGETYPHGMRLRSYVVRVAKGVRGPS 174

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S ++  GAC+G 
Sbjct: 175 VTLSRTHPNLVKKLFALEVPEIADGSVEIAAIAREAGHRTKIAVRSTRSGLNAKGACIGP 234

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQ 316
            G RV+ V+ EL  EKIDIV WS D A  V NAL PA V KV V+D       V VP  Q
Sbjct: 235 MGGRVRNVMGELNGEKIDIVDWSDDPAEMVANALSPARVHKVEVVDLAARSARVTVPDYQ 294

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           LSLAIG+ GQN RLA++LTGW IDI  + E +
Sbjct: 295 LSLAIGKEGQNARLAARLTGWRIDIRPDTEQA 326


>gi|239928612|ref|ZP_04685565.1| transcription elongation factor NusA [Streptomyces ghanaensis ATCC
           14672]
 gi|291436937|ref|ZP_06576327.1| transcriptional termination [Streptomyces ghanaensis ATCC 14672]
 gi|291339832|gb|EFE66788.1| transcriptional termination [Streptomyces ghanaensis ATCC 14672]
          Length = 328

 Score =  218 bits (556), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 134/332 (40%), Positives = 198/332 (59%), Gaps = 21/332 (6%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I  D+++  +  ++  A     G+    RVE+N ETG ++++   E  E++E     
Sbjct: 14  EKEISFDLLVEAIESALLIAYHRTEGSRRHARVELNRETGHVTVW-AKEDPEDLEEG--- 69

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
              +  R+ D +            P  FGR+A  +AKQVI+Q++R+AE D    E+  + 
Sbjct: 70  ---QEPREFDDT------------PSGFGRIAATTAKQVILQRLRDAEDDATLGEYAGRE 114

Query: 139 GEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
           G+I++G V++  +  NV+VD+G  + ++   E +  E+   G R++SY+  V +  RGP 
Sbjct: 115 GDIVTGVVQQGRDPKNVLVDIGKLEAILPVQEQVPGESYPHGMRLRSYVVRVAKGVRGPS 174

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S ++  GAC+G 
Sbjct: 175 VTLSRTHPNLVKKLFALEVPEIADGSVEIAAIAREAGHRTKIAVRSTRSGLNAKGACIGP 234

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQ 316
            G RV+ V+ EL  EKIDIV WS D A  V NAL PA V+KV V+D       V VP  Q
Sbjct: 235 MGGRVRNVMGELNGEKIDIVDWSDDPAEMVANALSPARVSKVEVVDMAARSARVTVPDYQ 294

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           LSLAIG+ GQN RLA++LTGW IDI  + E +
Sbjct: 295 LSLAIGKEGQNARLAARLTGWRIDIRPDTEQA 326


>gi|302558072|ref|ZP_07310414.1| transcription termination factor NusA [Streptomyces griseoflavus
           Tu4000]
 gi|302475690|gb|EFL38783.1| transcription termination factor NusA [Streptomyces griseoflavus
           Tu4000]
          Length = 332

 Score =  218 bits (556), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 133/332 (40%), Positives = 198/332 (59%), Gaps = 21/332 (6%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I  ++++  +  ++  A     G+    RVE+N ETG ++++   E  E++E     
Sbjct: 14  EKEISLELLVEAIESALLIAYHRTEGSRRHARVELNRETGHVTVW-AKEDPEDLEEG--- 69

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
              + AR+ D +            P  FGR+A  +AKQVI+Q++R+AE D    E+  + 
Sbjct: 70  ---QEAREFDDT------------PSGFGRIAATTAKQVILQRLRDAEDDATLGEYAGRE 114

Query: 139 GEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
           G+I++G V++  +  NV+VD+G  + ++   E +  E    G R++SY+  V +  RGP 
Sbjct: 115 GDIVTGVVQQGRDPKNVLVDIGKLEAILPVQEQVPGETYPHGMRLRSYVVRVAKGVRGPS 174

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S ++  GAC+G 
Sbjct: 175 VTLSRTHPNLVKKLFALEVPEIADGSVEISAIAREAGHRTKIAVRSTRSGLNAKGACIGP 234

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQ 316
            G RV+ V+ EL  EKIDIV WS D A  V NAL PA V++V ++D       V VP  Q
Sbjct: 235 MGGRVRNVMGELNGEKIDIVDWSDDPAEMVANALSPARVSRVDIVDMAARSARVTVPDYQ 294

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           LSLAIG+ GQN RLA++LTGW IDI  + E S
Sbjct: 295 LSLAIGKEGQNARLAARLTGWRIDIRPDTEQS 326


>gi|302554522|ref|ZP_07306864.1| transcription termination factor NusA [Streptomyces
           viridochromogenes DSM 40736]
 gi|302472140|gb|EFL35233.1| transcription termination factor NusA [Streptomyces
           viridochromogenes DSM 40736]
          Length = 340

 Score =  218 bits (556), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 133/330 (40%), Positives = 197/330 (59%), Gaps = 21/330 (6%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I  D+++  +  ++  A     G+    RVE+N ETG ++++   E  +++E     
Sbjct: 14  EKEISFDLLVEAIESALLIAYHRTEGSRRHARVELNRETGHVTVW-AKEDPDDLEEG--- 69

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
              + AR+ D +            P  FGR+A  +AKQVI+Q++R+AE D    E+  + 
Sbjct: 70  ---QEAREFDDT------------PTGFGRIAATTAKQVILQRLRDAEDDATLGEYAGRE 114

Query: 139 GEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
           G+I++G V++  +  NV+VD+G  + ++   E +  E    G R++SY+  V +  RGP 
Sbjct: 115 GDIVTGVVQQGRDPKNVLVDIGKLEAILPVQEQVPGETYGHGMRLRSYVVRVAKGVRGPS 174

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S ++  GAC+G 
Sbjct: 175 VTLSRTHPNLVKKLFALEVPEIADGSVEISAIAREAGHRTKIAVRSTRSGLNAKGACIGP 234

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQ 316
            G RV+ V+ EL  EKIDIV WS D A  V NAL PA V+KV ++D       V VP  Q
Sbjct: 235 VGGRVRNVMGELNGEKIDIVDWSEDPAEMVANALSPARVSKVEIVDMATRSARVTVPDYQ 294

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           LSLAIG+ GQN RLA++LTGW IDI  + E
Sbjct: 295 LSLAIGKEGQNARLAARLTGWRIDIRPDTE 324


>gi|296171600|ref|ZP_06852840.1| transcription elongation factor NusA [Mycobacterium
           parascrofulaceum ATCC BAA-614]
 gi|295894055|gb|EFG73817.1| transcription elongation factor NusA [Mycobacterium
           parascrofulaceum ATCC BAA-614]
          Length = 351

 Score =  218 bits (556), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 135/346 (39%), Positives = 203/346 (58%), Gaps = 37/346 (10%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLFRL 65
           + I  A  +   +DR + ++ + ++I+ A  + Y    G  +D R+EI+ +TG + +   
Sbjct: 1   MNIDMAALHAIEVDRGISVNELLETIKSALLTAYRHTEGHQNDARIEIDRKTGVVKV--- 57

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSD-PLPPMDFGRVAVQSAKQVIIQKVRE 124
                            VAR+ D   D G V+S+    P  FGR+A  +A+QV++Q+ R+
Sbjct: 58  -----------------VARETD---DDGNVISEWDDTPEGFGRIAATTARQVMLQRFRD 97

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENL 176
           AE +R Y EF  + GEI++G ++R    N    V+V +G     S+GVI   E +  E+ 
Sbjct: 98  AENERTYGEFSTREGEIVAGVIQRDSRANARGLVVVRMGTETKASEGVIPAAEQVPGESY 157

Query: 177 RPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
             G+RV+ Y+  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R
Sbjct: 158 EHGNRVRCYVIGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHR 217

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           +K+AV S+   ++  GAC+G  G RV+ V++EL  EKIDI+ +  D + FV NAL PA V
Sbjct: 218 SKIAVKSNVPGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDEDPSRFVANALSPAKV 277

Query: 297 TKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             V ++D +     V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 278 VSVSIIDPNARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDI 323


>gi|152965409|ref|YP_001361193.1| NusA antitermination factor [Kineococcus radiotolerans SRS30216]
 gi|151359926|gb|ABS02929.1| NusA antitermination factor [Kineococcus radiotolerans SRS30216]
          Length = 339

 Score =  218 bits (556), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 118/248 (47%), Positives = 166/248 (66%), Gaps = 2/248 (0%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNS 161
           P  FGR+A  +A+QVI+Q++R+AE D    E+    GEI+SG V++     ++ VDLG+ 
Sbjct: 80  PSGFGRIAATTARQVILQRLRDAEDDAVIGEYAQTEGEIVSGVVQQGRDPRMVQVDLGSL 139

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           +GV+   E +  E    G R++ ++  V++  +GPQV+LSR+HPQ + KLF +EVPEI +
Sbjct: 140 EGVLPPQEQVPGEKYEHGSRLRCFVVSVKKGPKGPQVVLSRSHPQLVKKLFALEVPEIAD 199

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           G VQ+ A+SR+ G R+K+AV ++   ++  GAC+G  G RV+AV+ ELR EKIDIV  S 
Sbjct: 200 GTVQITALSREAGHRSKMAVRATRGGVNAKGACIGPMGQRVRAVMAELRGEKIDIVDHSD 259

Query: 282 DSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D A FV NAL PA V+ V V+D       VIVP  QLSLAIG+ GQN RLA++LTGW ID
Sbjct: 260 DPAQFVGNALSPARVSSVEVVDLAARSARVIVPDYQLSLAIGKEGQNARLAAKLTGWRID 319

Query: 341 IITEEEDS 348
           I  + E +
Sbjct: 320 IRPDTEPT 327


>gi|239982635|ref|ZP_04705159.1| transcription elongation factor NusA [Streptomyces albus J1074]
 gi|291454476|ref|ZP_06593866.1| transcription elongation factor NusA [Streptomyces albus J1074]
 gi|291357425|gb|EFE84327.1| transcription elongation factor NusA [Streptomyces albus J1074]
          Length = 358

 Score =  218 bits (555), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 134/336 (39%), Positives = 194/336 (57%), Gaps = 30/336 (8%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I  D+++  +  ++  A     G+    RV ++ ETG ++++               
Sbjct: 14  EKEISFDLLVEAIESALLIAYHRTEGSRRQARVRLDRETGHVTVW--------------- 58

Query: 79  ISLKVARDRDPSIDIGGVVSDPLP------PMDFGRVAVQSAKQVIIQKVREAERDRQYL 132
                  DRD   D+ G V    P      P DFGR+A  +AKQVI+Q++R+A+ D    
Sbjct: 59  ----AKEDRD---DLVGAVEGTEPREFDDTPSDFGRIAATTAKQVILQRLRDAQDDATLG 111

Query: 133 EFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRR 191
           E+  + G+I++G V++  +  NV+VD+G  + ++   E +  E    G R++SY+  V +
Sbjct: 112 EYAGREGDIVTGVVQQGRDPKNVLVDIGKLEAILPVQEQVPGEEYPHGARLRSYVVRVAK 171

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPV 251
             RGP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S ++  
Sbjct: 172 GVRGPSVTLSRTHPGLVKKLFALEVPEIADGSVEIAAIAREAGHRTKIAVRSTRSGLNAK 231

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEV 310
           GAC+G  G RV+ V+ EL  EKIDIV WS D A  V NAL PA V+KV V+D       V
Sbjct: 232 GACIGPMGGRVRNVMAELNGEKIDIVDWSDDPADMVANALSPARVSKVEVVDFAARSARV 291

Query: 311 IVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            VP  QLSLAIG+ GQN RLA++LTGW IDI  + E
Sbjct: 292 TVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTE 327


>gi|213962910|ref|ZP_03391170.1| transcription termination factor NusA [Capnocytophaga sputigena
           Capno]
 gi|213954567|gb|EEB65889.1| transcription termination factor NusA [Capnocytophaga sputigena
           Capno]
          Length = 410

 Score =  218 bits (555), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 121/350 (34%), Positives = 209/350 (59%), Gaps = 8/350 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N LEL++       +K I+R+ +++++ +  +   +  YG+  +  + INP+ GD+ +FR
Sbjct: 2   NSLELIESFSEFKDDKLINRETLMAILEEVFRNTLKKKYGSDDNFDIIINPDKGDLQIFR 61

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VVE+  V N   QI+L  AR  +P  ++G  VS+ +   D GR A+ + +Q +I K+
Sbjct: 62  NRVVVEDDAVTNDNQQIALSAARKIEPDFEVGEDVSEEIKINDLGRRAILALRQNLISKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGD 180
            E +    Y  FKD +G++    +  + +  +I+  D GN + ++ +++ I  +  + G+
Sbjct: 122 HEYDSMTIYQRFKDLIGQLYVAEIHHIRHKAIILLDDEGN-EIILPKEKQIPSDFFKKGE 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            V+  I  V  +   P +++SRT P F+ +LF  E+PEI +G++ +  V R PG +AK+A
Sbjct: 181 HVRGIIESVELKSTKPTIIMSRTSPVFLERLFEQEIPEIADGLITISKVVRIPGEKAKVA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S D  ID VGACVG+RG+R+  +V EL +E ID++ ++ +    +  AL PA V+ V+
Sbjct: 241 VDSFDERIDAVGACVGVRGARIHGIVRELGNENIDVLPFTNNPQLLITRALAPARVSSVI 300

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE---EED 347
           ++E+  R +V +  E++S AIG+ G N+RLASQL+G+ ID+  E   EED
Sbjct: 301 INEEEKRADVYLANEEVSKAIGKSGYNIRLASQLSGYEIDVYREGVTEED 350


>gi|255326386|ref|ZP_05367470.1| transcription termination factor NusA [Rothia mucilaginosa ATCC
           25296]
 gi|255296603|gb|EET75936.1| transcription termination factor NusA [Rothia mucilaginosa ATCC
           25296]
          Length = 365

 Score =  218 bits (555), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 109/247 (44%), Positives = 167/247 (67%), Gaps = 8/247 (3%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN----VIVDL 158
           P +FGR+A  + +QV+ Q++R+AE      EFKD+ G ++SG +++   GN    V VDL
Sbjct: 80  PNNFGRIAAATVRQVLSQRLRDAEDASVLGEFKDREGTLVSGVIQQ---GNNPRMVQVDL 136

Query: 159 GNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPE 218
           G  + V+  +E +  E    G R+++Y+ + RR  +GP +++SR+HP  +++LF  EVPE
Sbjct: 137 GTVEAVLPSNEQVPGEKYPHGSRLRAYLVEARRGPKGPSIVVSRSHPNLVLRLFEHEVPE 196

Query: 219 IYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           I  G+V + +++R+ G R+K+AV + + +I+  GAC+G  G+RV+AV  EL DEKIDIV 
Sbjct: 197 ISEGLVSINSIAREAGHRSKIAVSAKNPTINAKGACIGDMGARVRAVAAELNDEKIDIVD 256

Query: 279 WSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           +S D ATF+  AL PA VT+V++ +        +VP +QLSLAIGR GQN RLA++LTGW
Sbjct: 257 YSTDPATFIAAALSPAKVTEVIIANPREYSARAVVPDDQLSLAIGREGQNARLAAKLTGW 316

Query: 338 TIDIITE 344
            IDI++E
Sbjct: 317 RIDILSE 323


>gi|288817343|ref|YP_003431690.1| transcription elongation factor [Hydrogenobacter thermophilus TK-6]
 gi|288786742|dbj|BAI68489.1| transcription elongation factor [Hydrogenobacter thermophilus TK-6]
 gi|308750950|gb|ADO44433.1| transcription termination factor NusA [Hydrogenobacter thermophilus
           TK-6]
          Length = 327

 Score =  218 bits (555), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 113/243 (46%), Positives = 171/243 (70%), Gaps = 1/243 (0%)

Query: 105 DFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDG 163
           D  R+A  +AK+  ++++ +AE +R YLEF ++ GEI  G V+RV E G+V+VDLG   G
Sbjct: 77  DVNRIAAYAAKEEFLKELEKAEEERGYLEFVEQEGEITVGIVRRVLENGDVLVDLGRVMG 136

Query: 164 VIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGI 223
           V+ + E I +E+ R G+R+K+ + +VR+ +   +++LSRTHP+F+ KL   EVPEI +G 
Sbjct: 137 VLPKREQIPKESYRQGERIKALVLEVRKHRGRYEIILSRTHPKFLRKLLEAEVPEIKSGE 196

Query: 224 VQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDS 283
           +++KA++R+PG RAK+ V + D  +DPVG  VG+RGSR+  V  EL  EKID++ W+ + 
Sbjct: 197 IEIKAITREPGERAKVLVHAKDMKMDPVGVIVGLRGSRINPVSKELSGEKIDVIRWTENV 256

Query: 284 ATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
              +  +L PA VTKV L     R EV VPKE+LSLAIG+ G NV+LA+++TGW ID+++
Sbjct: 257 EELIKKSLSPAPVTKVRLIPKDKRAEVAVPKEKLSLAIGKHGVNVKLANRITGWYIDVLS 316

Query: 344 EEE 346
           EE+
Sbjct: 317 EED 319


>gi|283458507|ref|YP_003363135.1| transcription elongation factor [Rothia mucilaginosa DY-18]
 gi|283134550|dbj|BAI65315.1| transcription elongation factor [Rothia mucilaginosa DY-18]
          Length = 365

 Score =  218 bits (555), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 109/247 (44%), Positives = 167/247 (67%), Gaps = 8/247 (3%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN----VIVDL 158
           P +FGR+A  + +QV+ Q++R+AE      EFKD+ G ++SG +++   GN    V VDL
Sbjct: 80  PNNFGRIAAATVRQVLSQRLRDAEDASVLGEFKDREGTLVSGVIQQ---GNNPRMVQVDL 136

Query: 159 GNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPE 218
           G  + V+  +E +  E    G R+++Y+ + RR  +GP +++SR+HP  +++LF  EVPE
Sbjct: 137 GTVEAVLPSNEQVPGEKYPHGSRLRAYLVEARRGPKGPSIVVSRSHPNLVLRLFEHEVPE 196

Query: 219 IYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           I  G+V + +++R+ G R+K+AV + + +I+  GAC+G  G+RV+AV  EL DEKIDIV 
Sbjct: 197 ISEGLVAINSIAREAGHRSKIAVSAKNPTINAKGACIGDMGARVRAVAAELNDEKIDIVD 256

Query: 279 WSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           +S D ATF+  AL PA VT+V++ +        +VP +QLSLAIGR GQN RLA++LTGW
Sbjct: 257 YSTDPATFIAAALSPAKVTEVIIANPREYSARAVVPDDQLSLAIGREGQNARLAAKLTGW 316

Query: 338 TIDIITE 344
            IDI++E
Sbjct: 317 RIDILSE 323


>gi|297571193|ref|YP_003696967.1| transcription termination factor NusA [Arcanobacterium haemolyticum
           DSM 20595]
 gi|296931540|gb|ADH92348.1| transcription termination factor NusA [Arcanobacterium haemolyticum
           DSM 20595]
          Length = 325

 Score =  218 bits (554), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 124/337 (36%), Positives = 201/337 (59%), Gaps = 28/337 (8%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           V  E  ID +V+L+ + +++  A   + G +   RVE+N  TG ++++            
Sbjct: 11  VESELGIDLNVLLNAIEEALVHAYNRVPGAVRGARVELNRSTGKVTVW------------ 58

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
                   A + D + ++ G   D   P DFGR+A  +A+ +I Q++R+AE DR    F+
Sbjct: 59  --------APEVDENNEVIGEFDDT--PNDFGRIATSTARSIIAQRLRDAETDRVLGSFQ 108

Query: 136 DKVGEIISGTVKRVEYGN-----VIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVR 190
            K G+++SG V+     N     + ++LG + G++R DE ++ E+ + GD +++ + D+ 
Sbjct: 109 GKKGQLVSGVVEGTAGSNPESRDLFIELGENRGLLRSDEQVASEHFKRGDLLRALVLDIS 168

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDP 250
              RG  + LSR+HP F+ +LF  EVPEI +G V++ A++R+ G R K+AV+S+D ++  
Sbjct: 169 VGPRGASIRLSRSHPDFVRQLFETEVPEIADGPVEIVALAREAGHRTKVAVWSNDDAVAA 228

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIE 309
            G+ +G  G RV+AV  EL  EKID+V +  D A F+  AL PA VT+V +L+ D+ +  
Sbjct: 229 KGSLIGHNGQRVRAVTAELNGEKIDVVDYDDDPAKFIAAALSPAKVTEVEILNRDMRQAR 288

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            IVP +Q SLAIG+  QNVRLA++LTGW+IDI  E +
Sbjct: 289 AIVPDDQASLAIGKEAQNVRLAAKLTGWSIDIRRESD 325


>gi|120403303|ref|YP_953132.1| transcription elongation factor NusA [Mycobacterium vanbaalenii
           PYR-1]
 gi|119956121|gb|ABM13126.1| NusA antitermination factor [Mycobacterium vanbaalenii PYR-1]
          Length = 333

 Score =  218 bits (554), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 131/340 (38%), Positives = 198/340 (58%), Gaps = 31/340 (9%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  +K I  DVV+  +  ++  A R   G  +D  ++I+ +TG + +            
Sbjct: 6   AIEADKGISVDVVVDTIKSALLTAYRHTEGHEADAHIDIDRKTGAVKV------------ 53

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                   +AR  D   ++     D   P  FGR+A  +A+QVI+Q++R+AE ++ Y EF
Sbjct: 54  --------IARQTDEDGNVLHEWDDT--PEGFGRIAATTARQVILQRLRDAENEKNYGEF 103

Query: 135 KDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDRVKSYI 186
             + G+I++G ++R    N    V+V +G+    S+GVI   E +  E    GDR++ Y+
Sbjct: 104 SAREGDIVAGVIQRDARANARGLVVVRMGSETKGSEGVIPAAEQVPGERYEHGDRLRCYV 163

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV +   
Sbjct: 164 VGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAVATRAP 223

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA-IVTKVVLDEDV 305
            ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA +V+  V+DE  
Sbjct: 224 GLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDEDPARFVANALSPAKVVSVTVIDEAA 283

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
               VIVP  QLSLAIG+ GQN RLA++LTGW IDI +++
Sbjct: 284 RAARVIVPDFQLSLAIGKEGQNARLAARLTGWRIDIRSDD 323


>gi|239944687|ref|ZP_04696624.1| transcription elongation factor NusA [Streptomyces roseosporus NRRL
           15998]
 gi|239991150|ref|ZP_04711814.1| transcription elongation factor NusA [Streptomyces roseosporus NRRL
           11379]
 gi|291448148|ref|ZP_06587538.1| transcription elongation factor NusA [Streptomyces roseosporus NRRL
           15998]
 gi|291351095|gb|EFE77999.1| transcription elongation factor NusA [Streptomyces roseosporus NRRL
           15998]
          Length = 346

 Score =  218 bits (554), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 116/252 (46%), Positives = 166/252 (65%), Gaps = 2/252 (0%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNS 161
           P  FGR+A  +AKQVI+Q++R+AE D+ + E+    G++++G V++  +  NV+VD+G  
Sbjct: 78  PSGFGRIAATTAKQVILQRLRDAEDDKTFGEYAGHEGDVVTGVVQQGKDPKNVLVDIGKL 137

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           + ++   E +  E    G R+++Y+  V +  RGP V LSRTHP  + KLF +EVPEI +
Sbjct: 138 EAILPVQEQVPGEEYTHGLRLRTYVVRVAKGVRGPSVTLSRTHPNLVKKLFALEVPEIAD 197

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           G V ++A++R+ G R K+AV S+ + ++P GAC+G  GSRV+ V+ EL  EKIDIV WS 
Sbjct: 198 GSVVIEAIAREAGHRTKIAVRSTRAGLNPKGACIGPMGSRVRNVMAELHGEKIDIVDWSD 257

Query: 282 DSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D A  V NAL PA V+KV V+D       V VP  QLSLAIG+ GQN RLA++LTGW ID
Sbjct: 258 DPAEMVANALSPARVSKVEVVDLGARSARVTVPDYQLSLAIGKEGQNARLAARLTGWRID 317

Query: 341 IITEEEDSINRQ 352
           I  + E    R+
Sbjct: 318 IRPDTETDEERE 329


>gi|254226551|ref|ZP_04920134.1| Transcription elongation factor [Vibrio cholerae V51]
 gi|125620955|gb|EAZ49306.1| Transcription elongation factor [Vibrio cholerae V51]
          Length = 271

 Score =  218 bits (554), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 110/245 (44%), Positives = 165/245 (67%)

Query: 228 AVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFV 287
           A +RDPGSRAK+AV ++D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FV
Sbjct: 1   AAARDPGSRAKIAVKTNDKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFV 60

Query: 288 INALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
           INA+ PA V  +++DED   +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  + 
Sbjct: 61  INAMAPADVASIIMDEDAHSMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADL 120

Query: 348 SINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV 407
               Q++     + FM+ +++++  A LLV EGF+ +EE+A V ++E+  ++G DE+ A 
Sbjct: 121 QKKHQEESMASIENFMKYLDIEQDFAELLVEEGFSTLEEIAYVPMNELLDVDGMDEDLAD 180

Query: 408 EIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSV 467
           E++ RA+E L  I +  ++    L  +E+L ++ G++  +   L   G+ T+EDLA   V
Sbjct: 181 ELRSRAKEALTTIALAKEESFEGLEPAEDLLALAGLERDMAFKLAAKGVATLEDLADQGV 240

Query: 468 DDLLG 472
           DDL G
Sbjct: 241 DDLEG 245


>gi|313665234|ref|YP_004047105.1| transcription termination factor NusA [Mycoplasma leachii PG50]
 gi|312949351|gb|ADR23947.1| transcription termination factor NusA [Mycoplasma leachii PG50]
          Length = 558

 Score =  218 bits (554), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 118/342 (34%), Positives = 210/342 (61%), Gaps = 6/342 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  ELL+    +  EK I ++ +++ + + +QKA    Y T + I+++IN +TG I++ +
Sbjct: 3   NGTELLESIKLIEKEKGISKESIINGLKEGLQKAYERFYDTDAIIKIDINEKTGSITMHQ 62

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLP-PMDFGRVAVQSAKQVIIQKVR 123
            L+VVEE+++   +I+L+ A+ ++P+  IG ++  P+    +F R+ V   +Q+  QK+R
Sbjct: 63  ELKVVEELDDDWLEITLQKAKLQNPNAQIGDIIYKPIEFSEEFSRMVVNQVRQIFQQKIR 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           EAER R Y +F    GE++   V  +    N ++D+  +   + +++TI+ E  +  + +
Sbjct: 123 EAERARIYEQFISLEGEVVQAKVVGMNRENNYVLDINGTTAYLWKNKTINNEIFQINEII 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
             YI  V +E +  Q+ +SRT P F+ KL   EVPE+  GIV++KAVSR+PG R+K+AV 
Sbjct: 183 DVYIEVVEKESKLSQIAISRTAPAFLTKLIEREVPEVRMGIVEIKAVSREPGKRSKVAVV 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           + + +++P+GA +G+ G+R+  +   L+ EKID++ WS D  T++INA+ P    KV+  
Sbjct: 243 THNQNVEPIGAIIGVGGNRINRISDILKGEKIDVIRWSDDQITYLINAMTPV---KVISI 299

Query: 303 EDVG-RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
             +G   +++VP  QLSLAIG++G   +L + L    I+I +
Sbjct: 300 NKIGDEYDIVVPDSQLSLAIGKQGITAKLIASLLKTKINIFS 341


>gi|145224621|ref|YP_001135299.1| transcription elongation factor NusA [Mycobacterium gilvum PYR-GCK]
 gi|315444953|ref|YP_004077832.1| transcription termination factor NusA [Mycobacterium sp. Spyr1]
 gi|145217107|gb|ABP46511.1| NusA antitermination factor [Mycobacterium gilvum PYR-GCK]
 gi|315263256|gb|ADT99997.1| transcription termination factor NusA [Mycobacterium sp. Spyr1]
          Length = 353

 Score =  218 bits (554), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 133/342 (38%), Positives = 198/342 (57%), Gaps = 31/342 (9%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  +K I  DVV+  +  ++  A R   G  +D  ++I+ +TG + +            
Sbjct: 10  AIEADKGITVDVVVETIKSALLTAYRHTEGHEADAHIDIDRKTGVVKVM----------- 58

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                    AR  D   ++     D   P  FGR+A  +A+QVI+Q++R+AE ++ Y EF
Sbjct: 59  ---------ARQTDEDGNVLHEWDDT--PEGFGRIAATTARQVILQRLRDAENEKNYGEF 107

Query: 135 KDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDRVKSYI 186
             + G+I++G ++R    N    V+V +G+    S+GVI   E +  E    GDR++ Y+
Sbjct: 108 SAREGDIVAGVIQRDARANARGLVVVRMGSETKGSEGVIPAAEQVPGERYEHGDRLRCYV 167

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV S   
Sbjct: 168 VGVARGAREPVITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAVTSRAP 227

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA-IVTKVVLDEDV 305
            ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA +V+  V+DE  
Sbjct: 228 GLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDEDPARFVANALSPAKVVSVTVIDEAA 287

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
               VIVP  QLSLAIG+ GQN RLA++LTGW IDI +++ D
Sbjct: 288 RAARVIVPDFQLSLAIGKEGQNARLAARLTGWRIDIRSDDAD 329


>gi|282861439|ref|ZP_06270504.1| NusA antitermination factor [Streptomyces sp. ACTE]
 gi|282564097|gb|EFB69634.1| NusA antitermination factor [Streptomyces sp. ACTE]
          Length = 343

 Score =  217 bits (553), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 116/252 (46%), Positives = 166/252 (65%), Gaps = 2/252 (0%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNS 161
           P  FGR+A  +AKQVI+Q++R+AE DR + E+    G++++G V++  +  NV+VD+G  
Sbjct: 78  PSGFGRIAASTAKQVILQRLRDAEDDRTFGEYAGHEGDVVTGLVQQGKDPKNVLVDIGKL 137

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           + ++   E +  E    G R+++Y+  V +  RGP V LSRTHP  + KLF +EVPEI +
Sbjct: 138 EAILPVQEQVPGEEYTHGLRLRTYVVRVAKGVRGPSVTLSRTHPNLVKKLFALEVPEIAD 197

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           G V ++A++R+ G R K+AV S+ + ++P GAC+G  GSRV+ V+ EL  EKIDIV WS 
Sbjct: 198 GSVVIEAIAREAGHRTKIAVRSTRAGLNPKGACIGPMGSRVRNVMAELHGEKIDIVDWSD 257

Query: 282 DSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D A  V NAL PA V++V V+D       V VP  QLSLAIG+ GQN RLA++LTGW ID
Sbjct: 258 DPAEMVANALSPARVSEVEVVDLGARSARVTVPDYQLSLAIGKEGQNARLAARLTGWRID 317

Query: 341 IITEEEDSINRQ 352
           I  + E    R+
Sbjct: 318 IRPDTETDEERE 329


>gi|42526617|ref|NP_971715.1| transcription elongation factor NusA [Treponema denticola ATCC
           35405]
 gi|41816810|gb|AAS11596.1| N utilization substance protein A, putative [Treponema denticola
           ATCC 35405]
          Length = 495

 Score =  217 bits (553), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 132/345 (38%), Positives = 200/345 (57%), Gaps = 25/345 (7%)

Query: 17  AYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYT 76
           A EK ID D VL ++  +++ + +  +GT  D     N ETG I   ++  + E+ +N  
Sbjct: 13  AQEKGIDDDFVLHIVEQALKASYKKQFGT--DANAVFNEETGKIYSKKI--ITEDAKNPV 68

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
             ISL+ A+   PS + G  +   + P   G  +V+   Q  IQ +RE ++D  Y E+  
Sbjct: 69  FDISLEEAKKLAPSCEAGDELLVEVDPKSLGINSVKVGMQRAIQCIREMQKDTLYAEYST 128

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD------------RVKS 184
           KVGEII G   R   GN+ VDLG  +G++ +          PGD            R+K+
Sbjct: 129 KVGEIIIGYYHRERNGNIYVDLGKVEGLLPKKYQC------PGDHFGRNAAAGEESRIKA 182

Query: 185 YIYDVRREQRGP--QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
            + +V++ ++    Q++LSRT  +F+ ++  +EVPEI +GIV++  + R+PG R K+AV 
Sbjct: 183 LVREVKKHRQSNVVQLILSRTDAEFVRQILEVEVPEIESGIVKIHNIVREPGYRTKIAVS 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VL 301
           +    IDPVGACVG +G+R+QAV+ EL DEKIDI+ +S D   ++ +AL PA V  V +L
Sbjct: 243 TDRDDIDPVGACVGAKGARIQAVIAELDDEKIDILPYSEDPKAYIKSALSPAEVMDVMIL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           D +  +   IV   QLSLAIG+ G NVRLA++L  W ID+ TEE+
Sbjct: 303 DAEKRKALAIVSDSQLSLAIGKHGLNVRLANRLVDWNIDVKTEEQ 347


>gi|163839410|ref|YP_001623815.1| transcription elongation factor [Renibacterium salmoninarum ATCC
           33209]
 gi|162952886|gb|ABY22401.1| transcription elongation factor [Renibacterium salmoninarum ATCC
           33209]
          Length = 330

 Score =  217 bits (553), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 111/244 (45%), Positives = 166/244 (68%), Gaps = 2/244 (0%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNS 161
           P  FGR+A  +A+Q+I+Q++R+ E +    EF+ K GE++SG +++    N++ V+LG  
Sbjct: 76  PAGFGRIAASTARQIILQRLRDVEDENVLGEFRGKEGELVSGQIQQGHNPNMVQVNLGTV 135

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           +GV+   E    E    G R+++++ DV R Q+GP + LSR+HP  + KLF +EVPEI +
Sbjct: 136 EGVLPPTEQSPGERYPHGSRIRAFVVDVHRGQKGPSITLSRSHPGLVRKLFELEVPEIAD 195

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
             V++ A++R+ G R K+AV +    I+  GAC+G  GSRV+AV+TEL DEKIDIV +S 
Sbjct: 196 KSVEIVALAREAGHRTKIAVKAHRPGINAKGACIGEMGSRVRAVMTELNDEKIDIVDFSE 255

Query: 282 DSATFVINALRPAIVTKVVLDEDVGR-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D ATF+ ++L P+ V  V + ++  R   VIVP  QLSLAIG+ GQN RLA++LTGW ID
Sbjct: 256 DPATFIASSLSPSRVNSVTITDEATRSARVIVPDYQLSLAIGKEGQNARLAAKLTGWRID 315

Query: 341 IITE 344
           II++
Sbjct: 316 IISD 319


>gi|240172759|ref|ZP_04751418.1| transcription elongation factor NusA [Mycobacterium kansasii ATCC
           12478]
          Length = 347

 Score =  217 bits (553), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 134/346 (38%), Positives = 205/346 (59%), Gaps = 37/346 (10%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLFRL 65
           + I  A  +   +DR + ++ + ++I+ A  S Y    G  +D R+EI+ ++G + +   
Sbjct: 1   MNIDMAALHAIEVDRGISVNELLETIKSALLSAYRHTQGHQTDARIEIDRKSGVVRV--- 57

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSD-PLPPMDFGRVAVQSAKQVIIQKVRE 124
                            +AR+ D   D G ++S+    P  FGR+A  +A+QV++Q+ R+
Sbjct: 58  -----------------IARELD---DEGNLISEWDDTPEGFGRIAATTARQVMLQRFRD 97

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENL 176
           AE +R Y EF  + GEI++G ++R    N    V+V +G+    S+GVI   E +  E+ 
Sbjct: 98  AENERTYGEFSTREGEIVAGVIQRDSRANARGLVVVRMGSETKASEGVIPAAEQVPGESY 157

Query: 177 RPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
             G+R++ Y+  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R
Sbjct: 158 EHGNRLRCYVVGVSRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHR 217

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           +K+AV S+   ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V
Sbjct: 218 SKIAVRSNVPGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDEDPARFVANALSPAKV 277

Query: 297 TKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             V V+D++     V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 278 VSVSVIDQNARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDI 323


>gi|118617680|ref|YP_906012.1| transcription elongation factor NusA [Mycobacterium ulcerans Agy99]
 gi|118569790|gb|ABL04541.1| N utilization substance protein a NusA [Mycobacterium ulcerans
           Agy99]
          Length = 347

 Score =  217 bits (553), Expect = 4e-54,   Method: Compositional matrix adjust.
 Identities = 132/337 (39%), Positives = 197/337 (58%), Gaps = 33/337 (9%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  ++ I  + +L  +  ++  A R   G  +D R+EI+ +TG + +            
Sbjct: 10  AIEVDRGISVNELLETIKSALLTAYRHTQGHQTDARIEIDRKTGVVRVM----------- 58

Query: 75  YTCQISLKVARDRDPSIDIGGVVSD-PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
                    AR+ D   D G V+S+    P  FGR+A  +A+QV++Q+ R+AE +R Y E
Sbjct: 59  ---------ARETD---DDGNVISEWDDTPEGFGRIAATTARQVMLQRFRDAENERTYGE 106

Query: 134 FKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDRVKSY 185
           F  + GEI++G ++R    N    V+V +G+    S+GVI   E +  E+   G+R++ Y
Sbjct: 107 FSTREGEIVAGVIQRDSRANARGLVVVRMGSETKASEGVIPSAEQVPGESYEHGNRLRCY 166

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV S+ 
Sbjct: 167 VVGVSRGSREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAVRSNV 226

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
             ++  GAC+G  G RV+ V++EL  EKIDI+ +  D   FV NAL PA V  V V+D+ 
Sbjct: 227 PGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDEDPGRFVANALSPAKVVSVSVIDQT 286

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
                V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 287 ARAARVVVPDFQLSLAIGKEGQNARLAARLTGWWIDI 323


>gi|258652414|ref|YP_003201570.1| transcription elongation factor NusA [Nakamurella multipartita DSM
           44233]
 gi|258555639|gb|ACV78581.1| NusA antitermination factor [Nakamurella multipartita DSM 44233]
          Length = 336

 Score =  217 bits (553), Expect = 4e-54,   Method: Compositional matrix adjust.
 Identities = 130/336 (38%), Positives = 200/336 (59%), Gaps = 31/336 (9%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           AV  EK ID + ++  +  ++  A R   G     RV+I+ +TG I ++      +E ++
Sbjct: 10  AVEKEKGIDFNSLIDTLETALLTAYRHTQGHAGHARVQIDRKTGGIRVW-----AQETDD 64

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                S ++ R+ D +            P DFGR+A  +A+QVI+Q++R+ + +R + +F
Sbjct: 65  -----SGEIVREWDDT------------PEDFGRIAATTARQVILQRLRDVDNERTFGDF 107

Query: 135 KDKVGEIISGTV----KRVEYGNVIVDLGNS----DGVIRRDETISRENLRPGDRVKSYI 186
             +  ++I+GT+    K    G V+V LG      +G+I   E +  E+   G R++ Y+
Sbjct: 108 AGREHDLITGTISADAKVNARGVVVVSLGEGKNAVEGIIPAAEQVPGESYPHGQRLRCYV 167

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V R  RGPQ+ LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV  + +
Sbjct: 168 VSVARGLRGPQITLSRTHPNLVRKLFALEVPEIADGSVEITAVAREAGHRSKIAVRPAVA 227

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA-IVTKVVLDEDV 305
            ++  GAC+G  G+RV+AV++EL  EKIDI+ +  D ATFV NAL PA  ++  V+D   
Sbjct: 228 GVNAKGACIGPMGARVRAVMSELNGEKIDIIDYDEDPATFVGNALSPARALSTTVIDPVA 287

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
               V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 288 KAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDI 323


>gi|111023601|ref|YP_706573.1| transcription elongation factor NusA [Rhodococcus jostii RHA1]
 gi|110823131|gb|ABG98415.1| transcription elongation protein NusA [Rhodococcus jostii RHA1]
          Length = 343

 Score =  217 bits (552), Expect = 4e-54,   Method: Compositional matrix adjust.
 Identities = 131/336 (38%), Positives = 198/336 (58%), Gaps = 30/336 (8%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  +K I  + V+S +  ++  A R   G     R++++ ++G   + R++        
Sbjct: 10  AIEADKGISIETVISTIQTALLTAYRHTEGHQQHARIDVDTKSG---IVRVM-------- 58

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                    A D D   ++ G   D  P   FGR+A  +A+QVI+Q++R+AE +R + E+
Sbjct: 59  ---------AHDVDADGNMVGEEWDDTPE-GFGRIAATTARQVILQRLRDAEHERSFGEY 108

Query: 135 KDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDRVKSYI 186
               GEI+ G ++R    N    V+V +G+    ++G+I   E +  EN   G+R+K Y+
Sbjct: 109 STHEGEIVGGVIQRDTRANSRGMVVVRIGSEASGAEGLIPPAEQVPGENYEHGERLKCYV 168

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V R QRGPQ+ LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV S   
Sbjct: 169 VGVARGQRGPQITLSRTHPNLVRKLFALEVPEIADGSVEIIAVAREAGHRSKIAVQSRVQ 228

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA-IVTKVVLDEDV 305
            ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL P+ +V+  V+D D 
Sbjct: 229 GLNAKGACIGPMGQRVRNVMSELAGEKIDIIDFDEDPARFVGNALSPSKVVSVTVVDPDA 288

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
               V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 289 RAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDI 324


>gi|315604477|ref|ZP_07879542.1| transcription termination factor NusA [Actinomyces sp. oral taxon
           180 str. F0310]
 gi|315313804|gb|EFU61856.1| transcription termination factor NusA [Actinomyces sp. oral taxon
           180 str. F0310]
          Length = 342

 Score =  217 bits (552), Expect = 4e-54,   Method: Compositional matrix adjust.
 Identities = 129/334 (38%), Positives = 200/334 (59%), Gaps = 25/334 (7%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           V  EK +  + ++  + +++ KA  +L G +S  R+EI+ +TG +++             
Sbjct: 11  VENEKGVSLETLVDAIEEALLKAYHNLPGAISQARIEIDKKTGRVTV------------- 57

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
                  +A D D   +  G   D   P +FGR+A  +A+ VI+Q++R+A+  R + +F 
Sbjct: 58  -------MAMDEDEDGNPIGEFDDT--PKNFGRIAQATARSVIMQRLRDADDQRVFGDFA 108

Query: 136 DKVGEIISGTVKRVEYGN-VIVDLGNS-DGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
            + G++I+GTV+    G   +V + +  + V+   E  + E  R GDR+++YI  V R +
Sbjct: 109 GREGQVITGTVQAPRPGRPTMVQVSDDFEAVLPDGEKTAGETYRHGDRIRAYIVGVERTE 168

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
           RGP++ LSRTHP  +  LF  EVPEI  G+V++KA++R+ G R K+AV ++   I+  GA
Sbjct: 169 RGPRITLSRTHPNLVAGLFQREVPEIQQGLVKIKAIAREAGHRTKIAVVATRDGINAKGA 228

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE-DVGRIEVIV 312
           C+G  G+RV++V+ EL  EKIDIV +S D A FV N+L PA VT+VV+   D      IV
Sbjct: 229 CIGPMGARVRSVMAELGGEKIDIVDYSDDPARFVANSLSPARVTRVVVHSVDNRTATAIV 288

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           P  QLSLAIG+ GQN RLA++LTG+ IDI  + E
Sbjct: 289 PDFQLSLAIGKEGQNARLAARLTGFHIDIHADTE 322


>gi|312139328|ref|YP_004006664.1| transcriptional termination/antitermination factor nusa
           [Rhodococcus equi 103S]
 gi|325676662|ref|ZP_08156337.1| transcription elongation factor NusA [Rhodococcus equi ATCC 33707]
 gi|311888667|emb|CBH47979.1| transcriptional termination/antitermination factor NusA
           [Rhodococcus equi 103S]
 gi|325552517|gb|EGD22204.1| transcription elongation factor NusA [Rhodococcus equi ATCC 33707]
          Length = 343

 Score =  217 bits (552), Expect = 4e-54,   Method: Compositional matrix adjust.
 Identities = 129/336 (38%), Positives = 194/336 (57%), Gaps = 30/336 (8%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  +K I    +++ +  ++  A R   G     R++++ ++G + +            
Sbjct: 10  AIEADKGISAGTIIAAIETALLTAYRHTEGHQPHARIDVDTKSGVVRVM----------- 58

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                    ARD D   +  G   D  P   FGR+A  +A+QVI+Q++R+AE +R + EF
Sbjct: 59  ---------ARDVDSDGNQVGEEWDDTP-EGFGRIAATTARQVILQRLRDAEHERSFGEF 108

Query: 135 KDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDRVKSYI 186
               GEI+ G ++R    N    V+V +G+    ++G+I   E +  E    GDR+K Y+
Sbjct: 109 ATHEGEIVGGVIQRDTRANARGMVVVRIGSEANGAEGLIPPAEQVPGETYEHGDRIKCYV 168

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V R QRGPQ+ LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV S   
Sbjct: 169 VGVSRGQRGPQITLSRTHPNLVRKLFALEVPEIADGSVEIVAVARESGHRSKIAVHSRVP 228

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA-IVTKVVLDEDV 305
            ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL P+ +V+  V+D + 
Sbjct: 229 GLNAKGACIGPMGQRVRNVMSELAGEKIDIIDYDEDPAKFVGNALSPSKVVSVTVVDPEA 288

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
               V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 289 RAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDI 324


>gi|294675008|ref|YP_003575624.1| transcription termination factor NusA [Prevotella ruminicola 23]
 gi|294472210|gb|ADE81599.1| transcription termination factor NusA [Prevotella ruminicola 23]
          Length = 408

 Score =  216 bits (551), Expect = 5e-54,   Method: Compositional matrix adjust.
 Identities = 125/327 (38%), Positives = 204/327 (62%), Gaps = 5/327 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYTC 77
           K+IDR  ++SV+ +S +     ++G+  +  V +NP+ GD  + R   VV   EV +   
Sbjct: 12  KNIDRTTLVSVLEESFRNVIAKIFGSDENFDVIVNPDKGDFEIHRNRVVVPDGEVMDENK 71

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +I L  A+  +P  ++G  VS+ +    FGR A+ + +Q +  K+ E E D  Y ++KDK
Sbjct: 72  EIELSEAQKIEPDYEVGEEVSEEVQFAKFGRRAILNLRQTLASKILELEHDSLYQKYKDK 131

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           V +++SG V ++    V++  D GN   + ++ E I  +N   G+ V++ + +V+ E   
Sbjct: 132 VHQVVSGEVYQIWKREVLLIDDEGNELHLPKQ-EQIPGDNYHKGETVRAVVKEVQNENNN 190

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P+++LSRT P F+ +L   EVPEI +G++ +K V+R PG RAK+AV S D  IDPVGACV
Sbjct: 191 PRIILSRTSPVFLERLLEAEVPEIQDGLITIKRVARIPGDRAKVAVESYDDRIDPVGACV 250

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G++GSRV  +V EL +E ID++ +S ++  F+  AL PA ++ + LD++  + EV +  E
Sbjct: 251 GVKGSRVHGIVRELCNENIDVINYSANTQLFIQRALSPAKISSINLDQENHKAEVYLQPE 310

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDII 342
           ++SLAIGR G N++LAS LT +TID+ 
Sbjct: 311 EVSLAIGRGGMNIKLASMLTEYTIDVF 337


>gi|182435606|ref|YP_001823325.1| transcription elongation factor NusA [Streptomyces griseus subsp.
           griseus NBRC 13350]
 gi|326776240|ref|ZP_08235505.1| NusA antitermination factor [Streptomyces cf. griseus XylebKG-1]
 gi|178464122|dbj|BAG18642.1| putative transcriptional termination/antitermination factor
           [Streptomyces griseus subsp. griseus NBRC 13350]
 gi|326656573|gb|EGE41419.1| NusA antitermination factor [Streptomyces cf. griseus XylebKG-1]
          Length = 346

 Score =  216 bits (551), Expect = 5e-54,   Method: Compositional matrix adjust.
 Identities = 116/252 (46%), Positives = 166/252 (65%), Gaps = 2/252 (0%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNS 161
           P  FGR+A  +AKQVI+Q++R+AE D+ + E+    G++++G V++  +  NV+VD+G  
Sbjct: 78  PSGFGRIAATTAKQVILQRLRDAEDDKTFGEYAGHEGDVVTGVVQQGKDPKNVLVDIGKM 137

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           + ++   E +  E    G R+++Y+  V +  RGP V LSRTHP  + KLF +EVPEI +
Sbjct: 138 EAMLPVQEQVPGEEYVHGLRLRTYVVRVAKGVRGPSVTLSRTHPNLVKKLFALEVPEIAD 197

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           G V ++A++R+ G R K+AV S+ + ++P GAC+G  GSRV+ V+ EL  EKIDIV WS 
Sbjct: 198 GSVVIEAIAREAGHRTKIAVRSTRAGLNPKGACIGPMGSRVRNVMAELHGEKIDIVDWSE 257

Query: 282 DSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D A  V NAL PA V+KV V+D       V VP  QLSLAIG+ GQN RLA++LTGW ID
Sbjct: 258 DPAEMVANALSPARVSKVEVVDLGARSARVTVPDYQLSLAIGKEGQNARLAARLTGWRID 317

Query: 341 IITEEEDSINRQ 352
           I  + E    R+
Sbjct: 318 IRPDTETDEERE 329


>gi|325473159|gb|EGC76355.1| N utilization substance protein A [Treponema denticola F0402]
          Length = 495

 Score =  216 bits (551), Expect = 6e-54,   Method: Compositional matrix adjust.
 Identities = 131/345 (37%), Positives = 200/345 (57%), Gaps = 25/345 (7%)

Query: 17  AYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYT 76
           A EK ID D VL ++  +++ + +  +GT  D     N ETG I   ++  + E+ +N  
Sbjct: 13  AQEKGIDDDFVLHIVEQALKASYKKQFGT--DANAVFNEETGKIYSKKI--ITEDAKNPV 68

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
             ISL+ A+   PS + G  +   + P   G  +V+   Q  IQ ++E ++D  Y E+  
Sbjct: 69  FDISLEEAKKLAPSCEAGDELLVEVDPKSLGINSVKVGMQRAIQCIKEMQKDTLYAEYST 128

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD------------RVKS 184
           KVGEII G   R   GN+ VDLG  +G++ +          PGD            R+K+
Sbjct: 129 KVGEIIIGYYHRERNGNIYVDLGKVEGLLPKKYQC------PGDHFGRNAAAGEESRIKA 182

Query: 185 YIYDVRREQRGP--QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
            + +V++ ++    Q++LSRT  +F+ ++  +EVPEI +GIV++  + R+PG R K+AV 
Sbjct: 183 LVREVKKHRQSNVVQLILSRTDAEFVRQILEVEVPEIESGIVKIHNIVREPGYRTKIAVS 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VL 301
           +    IDPVGACVG +G+R+QAV+ EL DEKIDI+ +S D   ++ +AL PA V  V +L
Sbjct: 243 TDRDDIDPVGACVGAKGARIQAVIAELDDEKIDILPYSEDPKAYIKSALSPAEVMDVMIL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           D +  +   IV   QLSLAIG+ G NVRLA++L  W ID+ TEE+
Sbjct: 303 DAEKRKALAIVSDSQLSLAIGKHGLNVRLANRLVDWNIDVKTEEQ 347


>gi|118470868|ref|YP_886962.1| transcription elongation factor NusA [Mycobacterium smegmatis str.
           MC2 155]
 gi|118172155|gb|ABK73051.1| transcription termination factor NusA [Mycobacterium smegmatis str.
           MC2 155]
          Length = 343

 Score =  216 bits (551), Expect = 6e-54,   Method: Compositional matrix adjust.
 Identities = 134/336 (39%), Positives = 194/336 (57%), Gaps = 31/336 (9%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  +K I  DVV+  +  ++  A R   G   D R++I+ +TG + +            
Sbjct: 10  AIEADKGISVDVVVETIKSALLTAYRHTDGHEPDARIDIDRKTGVVKV------------ 57

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                   +AR  D   ++     D   P  FGR+A  +A+QVI+Q++R+AE ++ Y EF
Sbjct: 58  --------IARQTDADGNVLAEWDDT--PEGFGRIAATTARQVILQRLRDAENEKVYGEF 107

Query: 135 KDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDRVKSYI 186
               G+I++G ++R    N    V+V +G+    S+GVI   E +  E    GDRV+ Y+
Sbjct: 108 AAHEGDIVAGVIQRDARANARGLVVVRMGSETKGSEGVIPAAEQVPGERYEHGDRVRCYV 167

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV S   
Sbjct: 168 VGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAVASRVP 227

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V  V + ++ G
Sbjct: 228 GLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDEDPARFVANALSPAKVVSVSVIDEAG 287

Query: 307 R-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           R   VIVP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 288 RAARVIVPDFQLSLAIGKEGQNARLAARLTGWRIDI 323


>gi|67923759|ref|ZP_00517223.1| Transcription termination factor NusA [Crocosphaera watsonii WH
           8501]
 gi|67854386|gb|EAM49681.1| Transcription termination factor NusA [Crocosphaera watsonii WH
           8501]
          Length = 424

 Score =  216 bits (550), Expect = 7e-54,   Method: Compositional matrix adjust.
 Identities = 131/299 (43%), Positives = 187/299 (62%), Gaps = 20/299 (6%)

Query: 63  FRLL---EVVEEVENYTCQISLKVARDRDPSIDIGG-VVSDPLPPM-DFGRVAVQSAKQV 117
           FR+L   ++VEEVEN    ISL+  ++  P  ++G  VV D  P   DFGR+A    KQV
Sbjct: 72  FRILSTKKIVEEVENIDHHISLEEVQEVAPEAELGDEVVLDVTPNQKDFGRMAAIQTKQV 131

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS------DGVIRRDETI 171
           ++QK+R+ +R     EF +  G +++  V R E  ++IV + ++      D ++ + E +
Sbjct: 132 LLQKLRDQQRKLIQEEFNELEGTVLNARVLRFERQDIIVAVQSAFGQPEVDAILPKREQL 191

Query: 172 SRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVS 230
             +N R     K  +  VR    RGPQ+L+SR     +V +F +EVPEI   IV++ AVS
Sbjct: 192 PNDNYRANASFKVLLKKVREGSHRGPQLLVSRGAAGLVVDMFSVEVPEIEEDIVRIVAVS 251

Query: 231 RDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDS 283
           R+        G R K+AV + +  +DPVGAC+G RGSR+QAVV ELR EKID++ WSPD 
Sbjct: 252 REANPPSRYVGPRTKIAVDTLERDVDPVGACIGARGSRIQAVVNELRGEKIDVIRWSPDP 311

Query: 284 ATFVINALRPAIVTKVV-LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           AT++ NAL PA V +VV L+ +     V+VP++QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 312 ATYIANALSPARVDEVVLLNAEERHALVLVPEDQLSLAIGKEGQNVRLAARLTGWKIDI 370


>gi|83319641|ref|YP_424320.1| transcription elongation factor NusA [Mycoplasma capricolum subsp.
           capricolum ATCC 27343]
 gi|83283527|gb|ABC01459.1| transcription elongation protein nusA, putative [Mycoplasma
           capricolum subsp. capricolum ATCC 27343]
          Length = 558

 Score =  216 bits (550), Expect = 8e-54,   Method: Compositional matrix adjust.
 Identities = 117/342 (34%), Positives = 209/342 (61%), Gaps = 6/342 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  ELL+    +  EK I ++ +++ + + +QKA    Y T + I+++IN +TG I++ +
Sbjct: 3   NGTELLESIKLIEKEKGISKESIINGLKEGLQKAYERFYDTDAIIKIDINEKTGSITMHQ 62

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLP-PMDFGRVAVQSAKQVIIQKVR 123
            L+VVEE+++   +I+L+ A+ ++P+  IG ++  P+    +F R+ V   +Q+  QK+R
Sbjct: 63  ELKVVEELDDDWLEITLQKAKLQNPNAQIGDIIYKPIEFSEEFSRMVVNQVRQIFQQKIR 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           EAER R Y +F    GE++   V  +    N ++D+  +   + +++TI+ E  +  + +
Sbjct: 123 EAERARIYEQFISLEGEVVQAKVVGMNRENNYVLDINGTTAYLWKNKTINNEIFQINEII 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
             YI  V +E +  Q+ +SRT P F+ KL   EVPE+  GIV++K VSR+PG R+K+AV 
Sbjct: 183 DVYIEVVEKESKLSQIAISRTAPAFLTKLIEREVPEVRMGIVEIKGVSREPGKRSKVAVV 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           + + +++P+GA +G+ G+R+  +   L+ EKID++ WS D  T++INA+ P    KV+  
Sbjct: 243 THNQNVEPIGAIIGVGGNRINRISDILKGEKIDVIRWSDDQITYLINAMTPV---KVISI 299

Query: 303 EDVG-RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
             +G   +++VP  QLSLAIG++G   +L + L    I+I +
Sbjct: 300 NKIGDEYDIVVPDSQLSLAIGKQGITAKLIASLLKNKINIFS 341


>gi|220912195|ref|YP_002487504.1| NusA antitermination factor [Arthrobacter chlorophenolicus A6]
 gi|219859073|gb|ACL39415.1| NusA antitermination factor [Arthrobacter chlorophenolicus A6]
          Length = 326

 Score =  216 bits (550), Expect = 8e-54,   Method: Compositional matrix adjust.
 Identities = 110/244 (45%), Positives = 169/244 (69%), Gaps = 2/244 (0%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNS 161
           P  FGR+A  +A+Q+I+Q++R+ E D    EFK + GE++SGT+++    ++I V+LG+ 
Sbjct: 76  PAGFGRIAASTARQIILQRLRDVEDDNVLGEFKGREGELVSGTIQQGNNPHMIQVNLGSL 135

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           + ++   E +  E    G+R+++ + DV R  +GP V LSR+HP  + KLF +EVPEI +
Sbjct: 136 EALLPPPEQVPGEKYIHGNRLRALVIDVHRGTKGPSVTLSRSHPGLVRKLFELEVPEIAD 195

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
             V++ A++R+ G R K+AV ++ S I+  GAC+G  GSRV+AV+TEL DEKIDIV +S 
Sbjct: 196 HSVEIVALAREAGHRTKIAVKANASGINAKGACIGEMGSRVRAVMTELNDEKIDIVDFSE 255

Query: 282 DSATFVINALRPAIVTKVVLDEDVGR-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           + ATF+ +AL P+ V  V + ++  R   V+VP  QLSLAIG+ GQN RLA++LTGW ID
Sbjct: 256 NPATFIASALSPSRVNSVTITDEATRSARVVVPDYQLSLAIGKEGQNARLAAKLTGWRID 315

Query: 341 IITE 344
           I+++
Sbjct: 316 IVSD 319


>gi|187918654|ref|YP_001884220.1| transcription elongation factor NusA [Borrelia hermsii DAH]
 gi|119861502|gb|AAX17297.1| N utilization substance protein A [Borrelia hermsii DAH]
          Length = 496

 Score =  216 bits (549), Expect = 8e-54,   Method: Compositional matrix adjust.
 Identities = 128/340 (37%), Positives = 208/340 (61%), Gaps = 15/340 (4%)

Query: 11  QIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE 70
           Q+   +A E+ +  D +   + +S+  A +  +GT  +  ++ + +TGD+ ++   ++VE
Sbjct: 21  QMISNIASERGMSIDAIRKTVRESVMIAYKKYFGTSENALIKFDEDTGDLVVYSKKKIVE 80

Query: 71  EVENYTCQI------SLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           EV+N   +I        +V  D    I+I         P  F R+++Q AKQ     ++ 
Sbjct: 81  EVQNDILEILQDDIQEFEVVEDGYAYIEI--------DPKIFDRLSIQVAKQRTKSDLQG 132

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
            E +  YLEFK K+ +I+ G V++   G++ V+LG++DGVI +    SRE     D+V+ 
Sbjct: 133 IEDNELYLEFKHKLHKIVIGYVQQNRNGDLYVNLGSTDGVIPKKYQSSREVYGLNDKVRV 192

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V++ + G +V+LSRTHP+F+ +L  +E+PEI  GI+++  + RDPG R K+AV+S 
Sbjct: 193 LVYSVKKGKNGIEVVLSRTHPKFIEELLTLEIPEIEEGIIKIHKIVRDPGYRTKVAVYSE 252

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDE 303
              IDPVG C+G +G R+Q+++ EL  EKIDI+ +S D   F+ +AL PA +  V ++DE
Sbjct: 253 KEEIDPVGPCIGQKGVRIQSIIKELEGEKIDIIPYSRDIKEFIRDALTPAKIDNVYIVDE 312

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           D+ +  V+V  EQLSLAIG+ GQNVRLA++L  W ID+ T
Sbjct: 313 DLHKALVVVSDEQLSLAIGKMGQNVRLANRLLDWAIDVKT 352


>gi|169630217|ref|YP_001703866.1| transcription elongation factor NusA [Mycobacterium abscessus ATCC
           19977]
 gi|169242184|emb|CAM63212.1| Transcription elongation protein NusA [Mycobacterium abscessus]
          Length = 331

 Score =  216 bits (549), Expect = 9e-54,   Method: Compositional matrix adjust.
 Identities = 134/336 (39%), Positives = 193/336 (57%), Gaps = 33/336 (9%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           +A +K I  D  + ++  ++  A R   G   + R+EI+ +TG + +             
Sbjct: 11  MAADKGITVDEAIDIIKSALLTAYRHTDGHEPNARIEIDRKTGVVRVM------------ 58

Query: 76  TCQISLKVARDRDPSIDIGGVVSD-PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                   AR+ D     G ++++    P  FGR+A  +A+QV  Q VR+AE + ++ EF
Sbjct: 59  --------ARETDQD---GNLITEWDATPEGFGRIAATTARQVFQQGVRDAENEHKFGEF 107

Query: 135 KDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDRVKSYI 186
             + GEI+ G ++R    N    V+V +G+    S+GVI   E +  E    GDR++ Y+
Sbjct: 108 STREGEIVGGVIQRDARANARGLVVVRMGSETKGSEGVIPSAEQVPGEEYHHGDRLRCYV 167

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV S  S
Sbjct: 168 VGVSRGAREPLITLSRTHPNLVRKLFSLEVPEISDGSVEIVAVAREAGHRSKIAVASKVS 227

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDV 305
            ++  GAC+G  G RV+ V++EL  EKIDI+ + PD A FV NAL PA V  V V+DE  
Sbjct: 228 GLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDPDPARFVANALSPAKVVSVSVIDEAG 287

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
               VIVP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 288 KAARVIVPDFQLSLAIGKEGQNARLAARLTGWRIDI 323


>gi|297202732|ref|ZP_06920129.1| transcription termination factor NusA [Streptomyces sviceus ATCC
           29083]
 gi|297148179|gb|EFH28866.1| transcription termination factor NusA [Streptomyces sviceus ATCC
           29083]
          Length = 328

 Score =  216 bits (549), Expect = 9e-54,   Method: Compositional matrix adjust.
 Identities = 118/248 (47%), Positives = 162/248 (65%), Gaps = 2/248 (0%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNS 161
           P DFGR+A  +AKQVI+Q++R+AE D    E+  + G+I+ G V++  +  NV+VD+G  
Sbjct: 79  PSDFGRIAATTAKQVILQRLRDAEDDATLGEYAGREGDIVMGVVQQGRDPKNVLVDIGKL 138

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           + ++   E +  E    G R++SY+  V R  RGP V LSRTHP  + KLF +EVPEI +
Sbjct: 139 EAILPVQEQVPGETYPHGMRLRSYVVRVARGVRGPSVTLSRTHPNLVKKLFALEVPEIAD 198

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           G V++ A++R+ G R K+AV S+ S ++  GAC+G  G RV+ V+ EL  EKIDIV WS 
Sbjct: 199 GSVEIAAIAREAGHRTKIAVRSTRSGLNAKGACIGPMGGRVRNVMGELNGEKIDIVDWSD 258

Query: 282 DSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D A  V NAL PA V+KV V+D       V VP  QLSLAIG+ GQN RLA++LTGW ID
Sbjct: 259 DPAEMVANALSPARVSKVEVVDMAARSARVTVPDYQLSLAIGKEGQNARLAARLTGWRID 318

Query: 341 IITEEEDS 348
           I  + E +
Sbjct: 319 IRPDTEQA 326


>gi|300774925|ref|ZP_07084788.1| transcription termination factor NusA [Chryseobacterium gleum ATCC
           35910]
 gi|300506740|gb|EFK37875.1| transcription termination factor NusA [Chryseobacterium gleum ATCC
           35910]
          Length = 411

 Score =  216 bits (549), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 118/344 (34%), Positives = 204/344 (59%), Gaps = 6/344 (1%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYT 76
           EK I +  +++++ DS++   R  + +     V +NP+ GD  +F    +VE+   E+  
Sbjct: 16  EKGISKIDLMAIIEDSLKTLLRKRFDSDDHFDVIVNPDKGDFQIFLNKTIVEDEMSEDDD 75

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +I +  A+  DP+ ++G   +  +P    GR  + + KQ++  K++E      Y +F+D
Sbjct: 76  LEIEISEAKKIDPTFEVGEDFTMEIPVAQLGRRNILTLKQILATKLQEHNNAMLYEQFRD 135

Query: 137 KVGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           K+GEI+ G +  + + +VI+  D GN + ++ ++  I  +  + G+ +++ +  V  +  
Sbjct: 136 KIGEIVVGEIHHIRHKHVILLDDEGN-EFILPKENQIPSDFFKKGENIRAIVETVDFKGS 194

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
            PQ+++SRT P+F+ KL  +E+PEI +G + +K V R PG +AK+AV + D  IDPVGAC
Sbjct: 195 KPQIIISRTAPKFLEKLLELEIPEIQDGTIILKKVVRIPGEKAKIAVDAYDDRIDPVGAC 254

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPK 314
           VG++GSR+  VV ELR+E ID++ WS +    V  AL    + K+ ++E+     V  P 
Sbjct: 255 VGVKGSRIHGVVRELRNENIDVIQWSKNPEILVKRALGNVTINKIEINEETNYALVYTPV 314

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKDFNE 357
           E++S  IG++GQN+RLAS LTG+ ID+  E  ED     K+FN+
Sbjct: 315 EEISKVIGKQGQNIRLASWLTGYEIDVYRESSEDDDVELKEFND 358


>gi|293192171|ref|ZP_06609383.1| transcription termination factor NusA [Actinomyces odontolyticus
           F0309]
 gi|292820367|gb|EFF79359.1| transcription termination factor NusA [Actinomyces odontolyticus
           F0309]
          Length = 342

 Score =  216 bits (549), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 128/334 (38%), Positives = 199/334 (59%), Gaps = 25/334 (7%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           V  EK +  + ++  + +++ KA  +L G +S  R+EI+ +TG +++             
Sbjct: 11  VENEKGVSLETLVDAIEEALLKAYHNLPGAISQARIEIDKKTGRVTVM------------ 58

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
                   A D D   +  G   D   P +FGR+A  +A+ VI+Q++R+A+  R + +F 
Sbjct: 59  --------AMDEDEDGNPIGEFDDT--PKNFGRIAQSTARSVIMQRLRDADDQRVFGDFA 108

Query: 136 DKVGEIISGTVKRVEYGN-VIVDLGNS-DGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
            + G+II+GTV+    G   +V + +  + V+   E +  E+ R GDR+++Y+  V R +
Sbjct: 109 GREGQIITGTVQAPRPGRPTMVQVSDDFEAVLPDGEKVPGESYRHGDRIRAYVVGVERTE 168

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
           RGP++ LSRTHP  +  LF  EVPEI  G+V++KA++R+ G R K+AV ++   I+  GA
Sbjct: 169 RGPRITLSRTHPNLVAGLFQREVPEIQQGLVKIKAIAREAGHRTKIAVAATREGINAKGA 228

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE-DVGRIEVIV 312
           C+G  G+RV++V+ EL  EKIDIV +S D A FV N+L PA VT+VV+   D      IV
Sbjct: 229 CIGPMGARVRSVMAELGGEKIDIVDYSDDPARFVANSLSPARVTRVVVHSVDNRTATAIV 288

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           P  QLSLAIG+ GQN RLA++LT + IDI  + E
Sbjct: 289 PDFQLSLAIGKEGQNARLAARLTNYHIDIHADTE 322


>gi|226366090|ref|YP_002783873.1| transcription elongation factor NusA [Rhodococcus opacus B4]
 gi|226244580|dbj|BAH54928.1| transcription elongation protein NusA [Rhodococcus opacus B4]
          Length = 343

 Score =  216 bits (549), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 130/336 (38%), Positives = 198/336 (58%), Gaps = 30/336 (8%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  +K I  + V+S +  ++  A R   G     R++++ ++G   + R++        
Sbjct: 10  AIEADKGISIETVISTIQTALLTAYRHTEGHQQHARIDVDTKSG---IVRVM-------- 58

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                    A D D   ++ G   D  P   FGR+A  +A+QVI+Q++R+AE +R + E+
Sbjct: 59  ---------AHDVDSDGNMVGEEWDDTPE-GFGRIAATTARQVILQRLRDAEHERSFGEY 108

Query: 135 KDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDRVKSYI 186
               GEI+ G ++R    N    V+V +G+    ++G+I   E +  EN   G+R+K Y+
Sbjct: 109 STHEGEIVGGVIQRDTRANSRGMVVVRIGSEASGAEGLIPPAEQVPGENYEHGERLKCYV 168

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V R QRGPQ+ LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV S   
Sbjct: 169 VGVARGQRGPQITLSRTHPNLVRKLFALEVPEIADGSVEIIAVAREAGHRSKIAVQSRVQ 228

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA-IVTKVVLDEDV 305
            ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL P+ +V+  V+D + 
Sbjct: 229 GLNAKGACIGPMGQRVRNVMSELAGEKIDIIDFDEDPARFVGNALSPSKVVSVTVVDPEA 288

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
               V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 289 RAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDI 324


>gi|260905192|ref|ZP_05913514.1| transcription elongation protein NusA [Brevibacterium linens BL2]
          Length = 320

 Score =  215 bits (548), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 131/338 (38%), Positives = 201/338 (59%), Gaps = 24/338 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           L +   +  E+ I  D ++ ++  ++  A +   G   D R E++  TG++   R+L V 
Sbjct: 5   LSVLRIIEREREIPLDTLIELIEQALFLAYQKTEGAWPDSRAELDKSTGEV---RILAV- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
            E +N           D +P     G   D   P  FGR+A Q+A+QVI Q++R+ E + 
Sbjct: 61  -EFDN-----------DDNPI----GEFDDT--PTGFGRIAAQTARQVIHQRLRDVEDES 102

Query: 130 QYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
               FK + GEI+SGT+++     ++ VDLG+ + V+   E +  E+ R G R++ YI D
Sbjct: 103 VLGNFKGREGEIVSGTIQQGRDPQMVQVDLGDVEAVLPPHEQVPGESYRHGTRLRVYIAD 162

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  +G  V +SRTHP  + +LF  E PEI +G V++ +++R+ G R KLAV ++   +
Sbjct: 163 VHKGPKGTSVTVSRTHPNLVRRLFAHEAPEIADGTVEIVSLAREAGHRTKLAVRATKPGV 222

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  G+C+G  GSRV+AV+ EL  EKIDIV +S D A F+ +AL PA  +KV +LD D+  
Sbjct: 223 NAKGSCIGELGSRVRAVMNELGQEKIDIVDYSDDPAKFIGHALSPAKASKVDILDPDLQE 282

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
              IVP++QLSLAIG+ GQN RLA++LTGW IDI+  E
Sbjct: 283 SRAIVPRDQLSLAIGKEGQNARLAAKLTGWKIDIVPGE 320


>gi|325954923|ref|YP_004238583.1| NusA antitermination factor [Weeksella virosa DSM 16922]
 gi|323437541|gb|ADX68005.1| NusA antitermination factor [Weeksella virosa DSM 16922]
          Length = 411

 Score =  215 bits (547), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 120/329 (36%), Positives = 207/329 (62%), Gaps = 3/329 (0%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYT 76
           +K+IDR  +++++ +++Q   R  YG+  +  + +NP+ GD+ ++    VVE+   E+ +
Sbjct: 16  DKNIDRITLMAIIEEALQVVLRKKYGSDDNFDIIVNPDKGDLEIWHNRIVVEDGFSEDDS 75

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +I L  AR  +P  +IG  VS+ +P  + GR A+ + +Q +  K+ E +    Y +FK+
Sbjct: 76  AEIELSEARKIEPDFEIGEEVSELIPIENLGRRAILTLRQTLSAKIMEHDNANLYDKFKE 135

Query: 137 KVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
             GEI+SG V  + + ++I +D   ++ ++ ++  I  +  R G+ V++ + +V      
Sbjct: 136 LEGEIVSGEVHHIRHKHIIIMDDEQNEMILPKENQIPSDFFRKGETVRAIVDEVVLRGAK 195

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           PQ++LSRT P+F+ KLF  E+PEI++G++ +K V R PG +AK+AV S D  IDPVGACV
Sbjct: 196 PQIVLSRTAPKFLEKLFEQEIPEIFDGLITIKKVVRIPGEKAKVAVESYDDRIDPVGACV 255

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           GM+GSR+ ++V ELR+E ID++ ++ +   ++  AL PA ++   +DE+  +I V V  E
Sbjct: 256 GMKGSRIHSIVRELRNENIDVINYTTNLNLYIARALSPAKISSAEIDEENHKILVHVKPE 315

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           ++S AIG+ G NV+LAS+L    IDI  E
Sbjct: 316 EVSKAIGKGGYNVKLASRLLDMEIDIFRE 344


>gi|24213642|ref|NP_711123.1| transcription elongation factor NusA [Leptospira interrogans
           serovar Lai str. 56601]
 gi|45658541|ref|YP_002627.1| transcription elongation factor NusA [Leptospira interrogans
           serovar Copenhageni str. Fiocruz L1-130]
 gi|24194444|gb|AAN48141.1| transcription elongation factor NusA [Leptospira interrogans
           serovar Lai str. 56601]
 gi|45601784|gb|AAS71264.1| NusA [Leptospira interrogans serovar Copenhageni str. Fiocruz
           L1-130]
          Length = 460

 Score =  215 bits (547), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 145/447 (32%), Positives = 235/447 (52%), Gaps = 34/447 (7%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG--------TMSDIRVEINPETGDI 60
           LL+       +KS+DR+ V+ V+ DS+  A +   G          S + VE       +
Sbjct: 12  LLEAIQQFCADKSLDREAVMGVIRDSLITAYKKKSGLEESSELEKPSPVTVEFASGKDSV 71

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            +    +VV    +   +ISL+ A+  D S +IG V+S    P++  R+    AKQ++ Q
Sbjct: 72  VIAIAKKVVSGNPSSALEISLEDAKAIDASAEIGSVISFREKPVELSRIISSQAKQMVFQ 131

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           ++++ E++  + E+K K GE+  G  +R +   + +DLG  +G++ R E    E    GD
Sbjct: 132 RLKDMEKELLFNEYKAKEGELTHGYFQRWKKDAMSIDLGKVEGIMPRREQNPGEKYHSGD 191

Query: 181 RVKSYI--YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+K+ I   ++R  +  P + LSR    F+ KLF ME+PEIY+G+V++  V+R P  R K
Sbjct: 192 RLKAIIQRVELRPREPIPVITLSRASADFVRKLFEMEIPEIYDGLVEIINVARQPSIRTK 251

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           + V ++   IDPVGACVGM+G R+Q++V EL +E+IDIV  S D++ F+ NA+ PA   +
Sbjct: 252 VVVRATRGDIDPVGACVGMKGVRIQSIVRELGNERIDIVESSDDASEFIANAISPAKPVE 311

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI--ITEEEDSINRQKDFN 356
           V +D       V+VP +QLSLAIG  G NV+LASQL G+ IDI  +T+    +   +   
Sbjct: 312 VKVDGSGREAMVVVPDDQLSLAIGINGSNVKLASQLAGYKIDIKTVTQYNAELASPEARE 371

Query: 357 ERTQFFMQAINVDEI----------------------IAHLLVAEGFADVEELACVKISE 394
              + F   +   ++                      I  +L +EG  D+E L      +
Sbjct: 372 RLERLFYSPVEETKVSMEQEEEEELTPLEDLPGLSARIVGILKSEGIKDLETLIEYSQDD 431

Query: 395 IASIEGFDEETAVEIQGRAREYLEGID 421
           +A ++G    TA +I    RE +E ++
Sbjct: 432 LAKLQGIGHTTAGQILKLLRESVEWVE 458


>gi|119962022|ref|YP_947326.1| transcription termination factor NusA [Arthrobacter aurescens TC1]
 gi|119948881|gb|ABM07792.1| transcription termination factor NusA [Arthrobacter aurescens TC1]
          Length = 326

 Score =  214 bits (546), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 108/244 (44%), Positives = 165/244 (67%), Gaps = 2/244 (0%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNS 161
           P  FGR+A  +A+Q+I+Q++R+ E D    EFK + GE+++G +++    ++I V+LG  
Sbjct: 76  PAGFGRIAASTARQIILQRLRDVEDDNVLGEFKGREGELVAGMIQQGNNPHMIQVNLGAV 135

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           + ++   E +  E    G R+++++ DV R  +GP + LSR+HP  + KLF MEVPEI +
Sbjct: 136 EALLPPPEQVPGEKYLHGSRLRAFVVDVHRGAKGPSITLSRSHPGLVRKLFEMEVPEIAD 195

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
             V++ A++R+ G R K+AV ++   ++  GAC+G  GSRV+AV+TEL DEKIDIV +S 
Sbjct: 196 HSVEIVALAREAGHRTKIAVKANTPGVNAKGACIGEMGSRVRAVMTELNDEKIDIVDFSD 255

Query: 282 DSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D ATF+ N+L P+ V  V + DE      V+VP  QLSLAIG+ GQN RLA++LTGW ID
Sbjct: 256 DPATFIANSLSPSRVNSVTITDESTRSARVVVPDYQLSLAIGKEGQNARLAAKLTGWRID 315

Query: 341 IITE 344
           I+++
Sbjct: 316 IVSD 319


>gi|189501596|ref|YP_001957313.1| transcription termination factor NusA [Candidatus Amoebophilus
           asiaticus 5a2]
 gi|189497037|gb|ACE05584.1| transcription termination factor NusA [Candidatus Amoebophilus
           asiaticus 5a2]
          Length = 411

 Score =  214 bits (546), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 120/342 (35%), Positives = 213/342 (62%), Gaps = 8/342 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L++     A  K++DR  V+ ++ +  +      +GT  +  + IN + GD+ ++R  E
Sbjct: 5   KLIETFAEFARSKNVDRPTVIRILEEVFKAMIHKKFGTDDNFDIIINLDQGDLQIWRFRE 64

Query: 68  VV----EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           VV    E++ ++  +ISL  A+  +   +IG  VS+ +    FGR A+ +A+Q +IQKV+
Sbjct: 65  VVDDNSEDIWDHD-KISLSEAKKIEEDFNIGEEVSEEISVDSFGRRAITAARQTLIQKVK 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRV 182
           + E+D  YL++   +GE+I+  V ++    VI VD    +  + + E I ++  + G+ +
Sbjct: 124 DLEKDALYLKYTQLIGEMITVEVHQILPQEVILVDEERKELFLPKSEQIFKDIFKKGEYI 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ ++ +  ++  P+V+LSRT P F+ +LF  EVPEI++GI+ +K V R+PG RAK+AV 
Sbjct: 184 RAVVHRIDLQKSTPKVILSRTSPIFLERLFESEVPEIFDGIITIKKVVREPGERAKVAVE 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDPVGACVG++GSR+ ++V EL++E ID++ ++ +   ++  AL PA ++ + + 
Sbjct: 244 SLDDRIDPVGACVGIKGSRIHSIVRELQNENIDVINYTDNLELYISRALSPAKISSIQMK 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            D  R+ V +  +Q+SLAIG+ GQN++LAS+L    ID+  E
Sbjct: 304 GD--RVAVYLKPDQVSLAIGKGGQNIKLASRLVDREIDVYRE 343


>gi|116669975|ref|YP_830908.1| NusA antitermination factor [Arthrobacter sp. FB24]
 gi|116610084|gb|ABK02808.1| NusA antitermination factor [Arthrobacter sp. FB24]
          Length = 326

 Score =  214 bits (546), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 108/244 (44%), Positives = 169/244 (69%), Gaps = 2/244 (0%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNS 161
           P  FGR+A  +A+Q+I+Q++R+AE D    +FK + GE+++GT+++    ++I V+LG  
Sbjct: 76  PAGFGRIAASTARQIILQRLRDAEDDNVLGQFKGREGELVAGTIQQGNNPHMIQVNLGTV 135

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           + ++   E +  E    G+R+++++ DV R  +GP + LSR+HP  + KLF +EVPEI +
Sbjct: 136 EALLPPPEQVPGEKYIHGNRLRAFVIDVHRGTKGPSITLSRSHPGLVRKLFELEVPEIAD 195

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
             V++ A++R+ G R K+AV ++   I+  GAC+G  GSRV+AV+TEL DEKIDIV +S 
Sbjct: 196 RSVEIVALAREAGHRTKIAVKANIPGINAKGACIGEMGSRVRAVMTELNDEKIDIVDFSE 255

Query: 282 DSATFVINALRPAIVTKVVLDEDVGR-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D ATF+ +AL P+ V  V + ++  R   V+VP  QLSLAIG+ GQN RLA++LTGW ID
Sbjct: 256 DPATFIASALSPSRVNSVTITDEATRSARVVVPDYQLSLAIGKEGQNARLAAKLTGWRID 315

Query: 341 IITE 344
           I+++
Sbjct: 316 IVSD 319


>gi|116328714|ref|YP_798434.1| transcription elongation factor NusA [Leptospira borgpetersenii
           serovar Hardjo-bovis L550]
 gi|116330628|ref|YP_800346.1| transcription elongation factor NusA [Leptospira borgpetersenii
           serovar Hardjo-bovis JB197]
 gi|116121458|gb|ABJ79501.1| Transcription elongation factor [Leptospira borgpetersenii serovar
           Hardjo-bovis L550]
 gi|116124317|gb|ABJ75588.1| Transcription elongation factor [Leptospira borgpetersenii serovar
           Hardjo-bovis JB197]
          Length = 462

 Score =  214 bits (546), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 148/449 (32%), Positives = 237/449 (52%), Gaps = 36/449 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARS-----------LYGTMSDIRVEINPET 57
           LL++      +KS+DR+ V+ V+ DS+  A +                 S + VE     
Sbjct: 12  LLEVIQQFCADKSLDREAVMGVIRDSLITAYKKKSGLEGLEEFEESEKPSPVTVEFASGK 71

Query: 58  GDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQV 117
             + +    +VVE   +   +I L+ A+  D S +IG V+S    P++  R+    AKQ+
Sbjct: 72  DSVVIAIAKKVVEGTPSSALEIGLEDAKAIDASAEIGSVISFREKPVELSRIISSQAKQM 131

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR 177
           + Q++++ E++  Y E+K K GE+  G  +R +   + +DLG  +G++ R E    E   
Sbjct: 132 VFQRLKDMEKELLYNEYKAKEGELTHGYFQRWKKDAMSIDLGKVEGIMPRREQNPGEKYH 191

Query: 178 PGDRVKSYI--YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
            GDR+K+ I   ++R  +  P + LSR    F+ KLF ME+PEIY+G+V++  V+R P  
Sbjct: 192 SGDRLKAIIQRVELRPREPIPVITLSRASADFVRKLFEMEIPEIYDGLVEIINVARQPSI 251

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           R K+ V ++   IDPVGACVGM+G R+Q++V EL +E+IDIV  S D++ F+ NA+ PA 
Sbjct: 252 RTKVVVRATRGEIDPVGACVGMKGVRIQSIVRELGNERIDIVEASDDASEFIANAISPAK 311

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT-EEEDSINRQKD 354
             +V +D       V+VP +QLSLAIG  G NV+LASQL G+ IDI T  + ++     +
Sbjct: 312 PVEVKVDGSGREAMVVVPDDQLSLAIGINGSNVKLASQLAGYKIDIKTVAQYNAELASPE 371

Query: 355 FNERTQ--FFMQA--------------------INVDEIIAHLLVAEGFADVEELACVKI 392
             ER +  F+  A                      +   I  +L +EG  D+E L     
Sbjct: 372 ARERLERLFYSPAEEAKVAAPQEEEELTPLEDLPGLSARIVGILKSEGIKDLETLIEYSQ 431

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGID 421
            ++A ++G    TA +I    RE +E ++
Sbjct: 432 DDLAKLQGIGHTTAGQILKLLRESVEWVE 460


>gi|86131975|ref|ZP_01050571.1| transcription elongation protein NusA [Dokdonia donghaensis MED134]
 gi|85817309|gb|EAQ38489.1| transcription elongation protein NusA [Dokdonia donghaensis MED134]
          Length = 410

 Score =  214 bits (546), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 119/335 (35%), Positives = 203/335 (60%), Gaps = 7/335 (2%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYT 76
           +K IDR  +++++ +  +   +  +G+  +  + INP+ GD+ ++R   VV   EVE+  
Sbjct: 16  DKLIDRVTLMAILEEVFRSTLKRRFGSDDNFDIIINPDKGDLEIWRNRVVVADGEVEDDN 75

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +ISL  AR  +   ++G  VS+ +  +D GR ++ + +Q +I K+ E +    Y +FK+
Sbjct: 76  EEISLTDARKIEEDFEVGEDVSEEVKLIDLGRRSILALRQNLISKIHEHDNTNIYKQFKE 135

Query: 137 KVGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
             G++ +  V  + +  +I+  D GN + ++ +D  I  +  R G+ V+  I  V  +  
Sbjct: 136 LEGDLYTAEVHHIRHRAIILLDDDGN-EIILPKDRQIPSDFFRKGENVRGVIESVELKGN 194

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
            P +++SRT P F+ KLF  E+PE+++G++ VK V R PG +AK+AV S D  IDPVGAC
Sbjct: 195 KPAIIMSRTSPLFLEKLFESEIPEVFDGLITVKNVVRIPGEKAKVAVDSYDDRIDPVGAC 254

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPK 314
           VGM+GSR+  +V EL +E ID++ ++ +   ++  AL PA +T + +DE+    + ++  
Sbjct: 255 VGMKGSRIHGIVRELGNENIDVINYTTNLNLYITRALSPARITSIKIDEENKTAQAVLKP 314

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITE--EED 347
           E++S AIGR G N+RLA QLTG+ ID+  E  EED
Sbjct: 315 EEVSKAIGRGGHNIRLAGQLTGYEIDVYREGVEED 349


>gi|108799047|ref|YP_639244.1| transcription elongation factor NusA [Mycobacterium sp. MCS]
 gi|119868162|ref|YP_938114.1| transcription elongation factor NusA [Mycobacterium sp. KMS]
 gi|126434650|ref|YP_001070341.1| transcription elongation factor NusA [Mycobacterium sp. JLS]
 gi|108769466|gb|ABG08188.1| NusA antitermination factor [Mycobacterium sp. MCS]
 gi|119694251|gb|ABL91324.1| NusA antitermination factor [Mycobacterium sp. KMS]
 gi|126234450|gb|ABN97850.1| NusA antitermination factor [Mycobacterium sp. JLS]
          Length = 347

 Score =  214 bits (545), Expect = 3e-53,   Method: Compositional matrix adjust.
 Identities = 131/336 (38%), Positives = 194/336 (57%), Gaps = 31/336 (9%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  +K I  DVV+  +  ++  A R   G  +D R++I+ ++G + +            
Sbjct: 10  AIEADKGISVDVVVDTIKSALLTAYRHTEGHQADARIDIDRKSGAVKVM----------- 58

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                    AR+ D   ++     D   P  FGR+A  +A+QVI+Q++R+AE ++ Y EF
Sbjct: 59  ---------ARETDADGNLIQEWDDT--PEGFGRIAATTARQVILQRLRDAENEKNYGEF 107

Query: 135 KDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDRVKSYI 186
             + G+I++G ++R    N    V+V +G+    ++GVI   E +  E    GDR++ Y+
Sbjct: 108 SAREGDIVAGVIQRDARANARGLVVVRMGSETKGNEGVIPAAEQVPGERYEHGDRLRCYV 167

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V R  R P + LSRTHP  + KLF +EVPEI +G V + AV+R+ G R+K+AV S   
Sbjct: 168 VGVTRGAREPLITLSRTHPNLVRKLFSLEVPEINDGSVDIVAVAREAGHRSKIAVASRVP 227

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDV 305
            ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V  V V+DE  
Sbjct: 228 GLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDEDPARFVANALSPAKVVSVSVIDEQT 287

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
               V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 288 RAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDI 323


>gi|154509097|ref|ZP_02044739.1| hypothetical protein ACTODO_01614 [Actinomyces odontolyticus ATCC
           17982]
 gi|153798731|gb|EDN81151.1| hypothetical protein ACTODO_01614 [Actinomyces odontolyticus ATCC
           17982]
          Length = 342

 Score =  214 bits (544), Expect = 3e-53,   Method: Compositional matrix adjust.
 Identities = 127/334 (38%), Positives = 199/334 (59%), Gaps = 25/334 (7%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           V  EK +  + ++  + +++ KA  +L G +S  R+EI+ +TG +++             
Sbjct: 11  VENEKGVSLETLVDAIEEALLKAYHNLPGAISQARIEIDKKTGRVTVM------------ 58

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
                   A D D   +  G   D   P +FGR+A  +A+ VI+Q++R+A+  R + +F 
Sbjct: 59  --------AMDEDEDGNPIGEFDDT--PKNFGRIAQSTARSVIMQRLRDADDQRVFGDFA 108

Query: 136 DKVGEIISGTVKRVEYGN-VIVDLGNS-DGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
            + G+II+GTV+    G   +V + +  + V+   E +  E+ R GDR+++Y+  V R +
Sbjct: 109 GREGQIITGTVQAPRPGRPTMVQVSDDFEAVLPDGEKVPGESYRHGDRIRAYVVGVERTE 168

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
           RGP++ LSRTHP  +  LF  EVPEI  G+V++KA++R+ G R K+AV ++   I+  GA
Sbjct: 169 RGPRITLSRTHPNLVAGLFQREVPEIQQGLVKIKAIAREAGHRTKIAVAATREGINAKGA 228

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE-DVGRIEVIV 312
           C+G  G+RV++V+ +L  EKIDIV +S D A FV N+L PA VT+VV+   D      IV
Sbjct: 229 CIGPMGARVRSVMADLGGEKIDIVDYSDDPARFVANSLSPARVTRVVVHSVDNRTATAIV 288

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           P  QLSLAIG+ GQN RLA++LT + IDI  + E
Sbjct: 289 PDFQLSLAIGKEGQNARLAARLTNYHIDIHADTE 322


>gi|205373420|ref|ZP_03226224.1| transcription elongation factor NusA [Bacillus coahuilensis m4-4]
          Length = 286

 Score =  214 bits (544), Expect = 3e-53,   Method: Compositional matrix adjust.
 Identities = 104/267 (38%), Positives = 176/267 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   D +  EK I RD+++  +  ++  A +  +    ++RV+++ E G I +F   E
Sbjct: 4   ELLDALDYLEKEKGIARDILIDAIEAALVSAYKRNFNQAQNVRVDLHQENGTIRVFARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +V++V +   +IS++ A+   P  ++G +V   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  IVDQVFDPRLEISIEDAKQIHPGYEVGDIVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R++   + V LG  + ++   E +  E+ +P DR+K ++ 
Sbjct: 124 GIIYSEFIDREEDIMTGIVQRLDNRYIYVALGKIEALLPISEQMPNESYKPHDRIKVFLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEI++G V++K+VSR+ G R+K++V + +  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEIEVPEIFDGTVEIKSVSREAGDRSKISVHAENPE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKI 274
           +DPVGACVG +G+RVQA+V EL+ EK+
Sbjct: 244 VDPVGACVGSKGTRVQAIVNELKGEKL 270


>gi|167751252|ref|ZP_02423379.1| hypothetical protein EUBSIR_02238 [Eubacterium siraeum DSM 15702]
 gi|167655759|gb|EDR99888.1| hypothetical protein EUBSIR_02238 [Eubacterium siraeum DSM 15702]
 gi|291556761|emb|CBL33878.1| transcription termination factor NusA [Eubacterium siraeum V10Sc8a]
          Length = 370

 Score =  214 bits (544), Expect = 3e-53,   Method: Compositional matrix adjust.
 Identities = 130/348 (37%), Positives = 202/348 (58%), Gaps = 4/348 (1%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M ++N  EL +    +A EK ID  V++  +  ++  A +  Y    +I+ +I+   G  
Sbjct: 1   MANSNTTELFEALTLLAKEKGIDPAVLIEKIQTALVIAIKKEYPRSENIKFDIDIAKGKF 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDP-SIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
            +    EV  EVE+   QIS++ A+      ++ G +V+  L    FGR+A Q+AKQVI 
Sbjct: 61  DVAIQKEVAAEVEDDANQISMEEAKTHTRRKLEYGDIVAIKLDTQHFGRIAAQTAKQVIK 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVE--YGNVIVDLGNSDGVIRRDETISRENLR 177
           Q ++E ER++   ++     E ++ TV + E   GN  V+L  ++  + R E I  E LR
Sbjct: 121 QGLKEIEREQLVAQWGGLQDEAVTVTVLKTEPRTGNATVNLNGNEVPLFRSEQIPGEVLR 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
           PGD VK Y+  V      P + +SR + + + +LF  EVPEIY+G V++KA+SR+ GSR+
Sbjct: 181 PGDMVKVYVSGVSATDHRPMLKISRVNKELVKRLFESEVPEIYDGTVEIKAISREAGSRS 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S++  +D +GAC+G    R+  V  EL  EK+D+V +S     F+  AL+P+ V 
Sbjct: 241 KVAVISNNPDVDALGACIGPGRQRISKVCAELGGEKMDVVFYSEKPEEFIAQALKPSDVI 300

Query: 298 KV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +V + D +V     IVP  QLSLAIG +GQN +LA++LTG+ IDI  E
Sbjct: 301 RVEIPDPEVKACTAIVPDNQLSLAIGNKGQNAKLAAKLTGFKIDIRPE 348


>gi|320094043|ref|ZP_08025865.1| transcription termination factor NusA [Actinomyces sp. oral taxon
           178 str. F0338]
 gi|319979022|gb|EFW10543.1| transcription termination factor NusA [Actinomyces sp. oral taxon
           178 str. F0338]
          Length = 342

 Score =  214 bits (544), Expect = 4e-53,   Method: Compositional matrix adjust.
 Identities = 129/334 (38%), Positives = 203/334 (60%), Gaps = 25/334 (7%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           V  EK +  D ++  + +++ KA  ++ G +S+ R+EI+ +TG +++             
Sbjct: 11  VETEKGVSLDTLVDAIEEALLKAYHNIPGAISEARIEIDKKTGRVTV------------- 57

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
                  +A D D   +  G   D   P +FGR+A  +A+ VI+ ++R+A+  R + +F 
Sbjct: 58  -------MAVDEDEDGNPIGEFDDT--PKNFGRIAQATARSVIMARLRDADDQRVFGDFA 108

Query: 136 DKVGEIISGTVKRVEYGNVI-VDLGNS-DGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
            + G+II+GTV++   G++  V + +  + V+   E +  E  R GDR+++++  V R +
Sbjct: 109 GREGQIITGTVQQSRDGHLTRVQISDDFEAVLPDSEKVPGEAYRHGDRIRAFVVGVERTE 168

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
           RGP+V LSRTHP  +  LF  EVPEI  G+V+++A++R+ G R K+AV ++   I+  GA
Sbjct: 169 RGPRVTLSRTHPGLVECLFEREVPEIQQGLVRIRAIAREAGHRTKIAVAATREGINAKGA 228

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE-DVGRIEVIV 312
           C+G  G+RV+AV+TEL  EKIDIV +S D A FV NAL PA VT+VV+   D      IV
Sbjct: 229 CIGPVGARVRAVMTELGGEKIDIVDYSDDPARFVANALSPARVTRVVVHSVDNRTATAIV 288

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           P  QLSLAIG+ GQN RLA++LT + IDI ++ E
Sbjct: 289 PDFQLSLAIGKEGQNARLAARLTNFHIDIHSDTE 322


>gi|311744143|ref|ZP_07717949.1| transcription termination factor NusA [Aeromicrobium marinum DSM
           15272]
 gi|311313273|gb|EFQ83184.1| transcription termination factor NusA [Aeromicrobium marinum DSM
           15272]
          Length = 332

 Score =  214 bits (544), Expect = 4e-53,   Method: Compositional matrix adjust.
 Identities = 127/331 (38%), Positives = 198/331 (59%), Gaps = 18/331 (5%)

Query: 23  DRDVVLSVMADSIQKAARSLYGTMSDI----RVEINPETGDISLFRLLEVVEEVENYTCQ 78
           ++D+   V+ ++I++A  S Y    D     RVE++ + G + ++    +  E       
Sbjct: 14  EKDLSFDVVVEAIEQALLSAYHKTPDAHGHARVELDRKNGHVVVWAAERLPVEPTEEQPH 73

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
                + + D +            P DFGR A   A+QVI+Q++REAE +++Y EF  +V
Sbjct: 74  PPAAWSEEFDDT------------PEDFGRFAAAIARQVIMQRLREAEDEQKYGEFSGRV 121

Query: 139 GEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
           G+I+SG +++    G+V++DLG  + ++   E ++ E    G+R+K+Y+Y+V +  RGP+
Sbjct: 122 GDIVSGVIQQGRSPGDVMIDLGRVEAILPSAERVAEEKYAHGERIKAYVYEVEKGLRGPR 181

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           V +SRTHP  +  LF +EVPEI +  V++ AV+R+ G R K+AV +    ++  GAC+G 
Sbjct: 182 VKVSRTHPNLVRLLFALEVPEIADHSVEIVAVAREAGHRTKIAVRARVPGVNAKGACIGP 241

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQ 316
            G+RV+ V+ EL  EKIDIV  S D A F+  AL P+ VT V V+DE      V+VP  Q
Sbjct: 242 LGARVRNVMHELHGEKIDIVDHSDDPAEFIGYALSPSRVTSVTVVDEATRSARVVVPDFQ 301

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
           LSLAIG+ GQN RLA++LTGW IDI ++  D
Sbjct: 302 LSLAIGKEGQNARLAAKLTGWRIDIRSDTGD 332


>gi|15827820|ref|NP_302083.1| transcription elongation factor NusA [Mycobacterium leprae TN]
 gi|221230297|ref|YP_002503713.1| transcription elongation factor NusA [Mycobacterium leprae Br4923]
 gi|20139308|sp|Q9Z5J1|NUSA_MYCLE RecName: Full=Transcription elongation protein nusA
 gi|4455676|emb|CAB36568.1| putative transcriptional termination/antitermination factor
           [Mycobacterium leprae]
 gi|13093372|emb|CAC30509.1| probable transcription termination/antitermination factor
           [Mycobacterium leprae]
 gi|219933404|emb|CAR71653.1| probable transcription termination/antitermination factor
           [Mycobacterium leprae Br4923]
          Length = 347

 Score =  214 bits (544), Expect = 4e-53,   Method: Compositional matrix adjust.
 Identities = 134/346 (38%), Positives = 202/346 (58%), Gaps = 37/346 (10%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLFRL 65
           + I  A  +   +DR + ++ + D+I+ A  + Y    G   D R++I+ +TG + +   
Sbjct: 1   MNIDMAALHAIEMDRGISVNELLDTIRSALLTAYRHTQGHQIDARIDIDRKTGVVKV--- 57

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSD-PLPPMDFGRVAVQSAKQVIIQKVRE 124
                            +AR+ D   D G V+S+    P  FGR+A  +A+QV++Q+ R+
Sbjct: 58  -----------------IAREVD---DDGNVISEWDDTPEGFGRIAATTARQVMLQRFRD 97

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENL 176
           AE +R Y EF  + GEI++G ++R    N    V+V +G+    S+GVI   E +  E+ 
Sbjct: 98  AENERTYGEFSTREGEIVAGVIQRDSRANARGLVVVRMGSETKASEGVIPAAEQVLGESY 157

Query: 177 RPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
             G+R++ Y+  V R  R P + LSRTHP  + KLF +EVPEI +G V++ +V+R+ G R
Sbjct: 158 EHGNRLRCYVVGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVSVAREAGHR 217

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           +K+AV S    ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V
Sbjct: 218 SKIAVASRVPGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDEDPARFVANALSPAKV 277

Query: 297 TKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             V V+D+      V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 278 VSVSVIDQTARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDI 323


>gi|255536444|ref|YP_003096815.1| transcription elongation factor NusA [Flavobacteriaceae bacterium
           3519-10]
 gi|255342640|gb|ACU08753.1| Transcription termination protein NusA [Flavobacteriaceae bacterium
           3519-10]
          Length = 415

 Score =  214 bits (544), Expect = 4e-53,   Method: Compositional matrix adjust.
 Identities = 114/338 (33%), Positives = 202/338 (59%), Gaps = 3/338 (0%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           L L++       EKSI +  +++++ DS++   R  + +     V +NP+ GD  +F   
Sbjct: 4   LALIEAFGDFKEEKSISKIDLMAIIEDSLKTLLRKRFDSDDHFDVIVNPDKGDFQIFLNK 63

Query: 67  EVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
            +VE+   E+   +I +  A+  DP+ ++G   +  +P    GR ++ + KQ++  K++E
Sbjct: 64  TIVEDDMSEDDDLEIEISEAKKIDPTFEVGEEFTIEIPIEGLGRRSILTLKQILATKLQE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRVK 183
                 Y EF+DK+GEI+ G V  + + +VI+ D  +++ ++ ++  I  +  + G+ ++
Sbjct: 124 HNNAVLYEEFRDKIGEIVVGEVHHIRHKHVILLDDEDNEFILPKENQIPSDFFKKGENIR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           + +  V  +   PQ+++SRT P+F+ KL  +E+PEI +G + +K V R PG +AK+AV +
Sbjct: 184 TIVESVDFKGSKPQIIVSRTAPKFLEKLLELEIPEIQDGTIILKKVVRIPGEKAKIAVDA 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D  IDPVGACVG++GSR+  VV EL++E ID++ WS +    V  AL    V K+ ++E
Sbjct: 244 YDDRIDPVGACVGVKGSRIHGVVRELKNENIDVIQWSKNPEIMVKRALGNVTVNKIEINE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +     V  P E++S  IG++GQN+RLAS L+G+ ID+
Sbjct: 304 ETKYAMVYTPVEEISRVIGKQGQNIRLASWLSGYEIDV 341


>gi|329947836|ref|ZP_08294768.1| transcription termination factor NusA [Actinomyces sp. oral taxon
           170 str. F0386]
 gi|328523460|gb|EGF50558.1| transcription termination factor NusA [Actinomyces sp. oral taxon
           170 str. F0386]
          Length = 346

 Score =  213 bits (543), Expect = 4e-53,   Method: Compositional matrix adjust.
 Identities = 145/346 (41%), Positives = 201/346 (58%), Gaps = 30/346 (8%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  EL   AD    E  ID D +L  + D+I  A   + G +    VEI+  TG +S+  
Sbjct: 4   NMPELRGAAD----ELGIDLDNLLPAIEDAILGAYSKVPGAIRGAHVEIDRRTGHMSV-- 57

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
                         ++ +V  D  P+   G    D   P DFGR+A  +A+ VI+Q++++
Sbjct: 58  --------------LAPEVDEDDQPT---GEYFDDT--PDDFGRIAQATARSVIVQRIQD 98

Query: 125 AERDRQYL-EFKDKVGEIISGTVKRVEYGNVI-VDLGN-SDGVIRRDETISRENLRPGDR 181
             RD + L  FKDK GE+ISGTV++     ++ V L    +G++   E +  E+ R GDR
Sbjct: 99  -RRDFEVLGAFKDKTGELISGTVEQGRDPRIVYVRLDEEHEGIMPPHEQVPGESYRHGDR 157

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+ DV R  RG Q++LSRTHP  + KLF  EVPEI +G V++ +V+R+ G R K+AV
Sbjct: 158 VRAYVTDVSRGTRGAQIVLSRTHPGLVRKLFEREVPEISSGDVEIVSVAREAGHRTKMAV 217

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            S    ++  GAC+G  G RV+AV+TEL  EKIDIV  S D A F+ NAL PA V  V V
Sbjct: 218 RSKVRGVNAKGACIGPMGQRVRAVMTELGGEKIDIVDHSEDPARFIANALSPARVAAVGV 277

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           +D +      IVP  QLSLAIG+ GQN RLA++LTGW IDI  + E
Sbjct: 278 IDAEERTARAIVPDFQLSLAIGKEGQNARLAARLTGWKIDIHADAE 323


>gi|183601974|ref|ZP_02963343.1| transcription elongation factor NusA [Bifidobacterium animalis
           subsp. lactis HN019]
 gi|219682886|ref|YP_002469269.1| transcription elongation factor NusA [Bifidobacterium animalis
           subsp. lactis AD011]
 gi|241190463|ref|YP_002967857.1| transcription elongation factor NusA [Bifidobacterium animalis
           subsp. lactis Bl-04]
 gi|241195869|ref|YP_002969424.1| transcription elongation factor NusA [Bifidobacterium animalis
           subsp. lactis DSM 10140]
 gi|183218859|gb|EDT89501.1| transcription elongation factor NusA [Bifidobacterium animalis
           subsp. lactis HN019]
 gi|219620536|gb|ACL28693.1| N utilization substance-like protein [Bifidobacterium animalis
           subsp. lactis AD011]
 gi|240248855|gb|ACS45795.1| transcription elongation factor NusA [Bifidobacterium animalis
           subsp. lactis Bl-04]
 gi|240250423|gb|ACS47362.1| transcription elongation factor NusA [Bifidobacterium animalis
           subsp. lactis DSM 10140]
 gi|289178187|gb|ADC85433.1| N utilization substance protein A [Bifidobacterium animalis subsp.
           lactis BB-12]
 gi|295793450|gb|ADG32985.1| transcription elongation factor NusA [Bifidobacterium animalis
           subsp. lactis V9]
          Length = 358

 Score =  213 bits (543), Expect = 4e-53,   Method: Compositional matrix adjust.
 Identities = 121/330 (36%), Positives = 198/330 (60%), Gaps = 15/330 (4%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+A E+ ID + V + ++++++ A   +       RVE++P  G  +++   E+ +E   
Sbjct: 10  ALAQEQGIDAETVDAALSEALRLAYLKMPHAAKYARVELDPRAGSFTIWARDEIPQE--- 66

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                      +  P+ ++G    D   P DFGR+A  +A+QVI Q  R+AE DR +  F
Sbjct: 67  -------PTEDNPHPAPELGEEYDDT--PHDFGRLAASTARQVIQQLFRKAEDDRVFGAF 117

Query: 135 KDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
             + G++I+G V++   +  NV V +G+ + ++ R E +  E  R G+R++ Y+  V R 
Sbjct: 118 SGQRGKLITGVVQQDVKDPANVHVAVGDVEALLPRREQVPGERYRHGERIRVYVTTVARG 177

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            +GP++++SR+HP+ + +LF  EVPE+ +G V + A++R+ G+R K+AV ++   I+P G
Sbjct: 178 LKGPEIIVSRSHPELVRRLFEREVPELASGAVSIMAIAREAGARTKIAVRANTPGINPKG 237

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVI 311
           A +G  GSRV+AV+  L  EKIDI+ WS + A F+  AL PA+V+ V V+ E        
Sbjct: 238 ALIGPGGSRVRAVMENLGSEKIDIIDWSANPAEFIAAALSPAVVSDVQVISEKNQTAIAF 297

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +  EQLSLAIG+ GQN RLA++LTGW I I
Sbjct: 298 INDEQLSLAIGKEGQNARLAAKLTGWKIGI 327


>gi|332292194|ref|YP_004430803.1| NusA antitermination factor [Krokinobacter diaphorus 4H-3-7-5]
 gi|332170280|gb|AEE19535.1| NusA antitermination factor [Krokinobacter diaphorus 4H-3-7-5]
          Length = 410

 Score =  213 bits (543), Expect = 4e-53,   Method: Compositional matrix adjust.
 Identities = 119/335 (35%), Positives = 202/335 (60%), Gaps = 7/335 (2%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYT 76
           +K IDR  +++++ +  +   +  +G+  +  + INP+ GD+ ++R   VV   EVE+  
Sbjct: 16  DKLIDRVTLMAILEEVFRSTLKRRFGSDDNFDIIINPDKGDLEIWRNRVVVADGEVEDDN 75

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +ISL  AR  +   ++G  VS+ +   D GR ++ + +Q +I K+ E +    Y +FK+
Sbjct: 76  EEISLTDARKIEEDFEVGEDVSEEVKLFDLGRRSILALRQNLISKIHEHDNTNIYKQFKE 135

Query: 137 KVGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
             GE+ +  V  + +  +I+  D GN + ++ +D  I  +  R G+ V+  I  V  +  
Sbjct: 136 LEGELYTAEVHHIRHRAIILLDDDGN-EIILPKDRQIPSDFFRKGENVRGVIESVELKGN 194

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
            P +++SRT P F+ KLF  E+PE+++G++ VK V R PG +AK+AV S D  IDPVGAC
Sbjct: 195 KPSIVMSRTSPLFLEKLFESEIPEVFDGLITVKNVVRIPGEKAKVAVDSYDDRIDPVGAC 254

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPK 314
           VGM+GSR+  +V EL +E ID++ ++ +   ++  AL PA +T + ++E+    + ++  
Sbjct: 255 VGMKGSRIHGIVRELGNENIDVINYTTNLNLYITRALSPARITSIKINEENKTAQAVLKP 314

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITE--EED 347
           E++S AIGR G N+RLA QLTG+ ID+  E  EED
Sbjct: 315 EEVSKAIGRGGHNIRLAGQLTGYEIDVYREGVEED 349


>gi|184201252|ref|YP_001855459.1| transcription elongation protein NusA [Kocuria rhizophila DC2201]
 gi|183581482|dbj|BAG29953.1| transcription elongation protein NusA [Kocuria rhizophila DC2201]
          Length = 325

 Score =  213 bits (543), Expect = 5e-53,   Method: Compositional matrix adjust.
 Identities = 126/331 (38%), Positives = 196/331 (59%), Gaps = 34/331 (10%)

Query: 23  DRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           +RD+ + V+  +I++A    Y    G +   R E+   TG ++++       E++    +
Sbjct: 14  ERDIPVDVLIPTIEQALLLAYMRSPGAIDGARAEVERRTGHVTIW-----APELDEQDQR 68

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           I               G   D   P  FGR+A  +A+QVI+QK+R+ E D     FK + 
Sbjct: 69  I---------------GEFDDT--PSGFGRIAAATARQVILQKLRDVEDDNVLGHFKGRE 111

Query: 139 GEIISGTVKRVEYGN----VIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           GE++SG   +++ GN    V V+LG  +G++   E +  E  R GDR+++++ + +R  +
Sbjct: 112 GELVSG---QIQQGNNPRMVQVNLGTVEGLLPPHEQVPGETYRHGDRIRAFVVEAKRGFK 168

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           GP + LSR+HP  + +LF MEVPEI +G V++  ++R+ G R K+AV +     +  GAC
Sbjct: 169 GPSITLSRSHPDLVRRLFEMEVPEIADGSVEIVTLAREAGHRTKMAVEARRPGANAKGAC 228

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR-IEVIVP 313
           +G  GSRV+AV+ EL +EKIDI+ +S D A F+ NAL PA V++VV+ +D  R    +VP
Sbjct: 229 IGDMGSRVRAVMNELGEEKIDIIDFSQDPAEFIGNALSPARVSRVVVLDDAARSARAVVP 288

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             QLSLAIG+ GQN RLA++LTGW IDI+ E
Sbjct: 289 DSQLSLAIGKEGQNARLAARLTGWKIDIVPE 319


>gi|223984472|ref|ZP_03634605.1| hypothetical protein HOLDEFILI_01899 [Holdemania filiformis DSM
           12042]
 gi|223963543|gb|EEF67922.1| hypothetical protein HOLDEFILI_01899 [Holdemania filiformis DSM
           12042]
          Length = 571

 Score =  213 bits (542), Expect = 6e-53,   Method: Compositional matrix adjust.
 Identities = 129/341 (37%), Positives = 210/341 (61%), Gaps = 5/341 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI--RVEINPETGDISL 62
           N  E L+    +  ++ I +++V++ + +++ KA R  +  + D+  RV+IN   G I +
Sbjct: 2   NFKEFLKAMQTIEDDRKITKEIVIAALQEALAKAYRK-HIDIPDVLVRVDINEANGQIHV 60

Query: 63  FRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           ++   VVEEVE+   +++L  A  +D    +G +V   +     GR A   AK V+ QK+
Sbjct: 61  YQQYTVVEEVEDEELEVAL--ADVKDKGYQLGDLVDHEVDISQIGRAAALLAKNVMKQKI 118

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           REAE+   Y E+ D++ E+++G ++ VE   V+V+LG +  ++ R   I  E    G  +
Sbjct: 119 REAEKQAVYDEYIDQLDEMVTGMIESVEEKFVVVNLGKTMALMPRAAQIPGERYVEGQSI 178

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  I +  ++ +G QVL+SR+  + + +LF  EVPEIY G+V++KA++R+ G R K+AV+
Sbjct: 179 RVVITECNKDTKGAQVLVSRSDAKLVKRLFEKEVPEIYQGVVEIKAIAREAGERTKMAVW 238

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S++  +D +GAC+G RGSRVQ V+ EL+ EKIDI  WS + +  + NAL PA +  V+  
Sbjct: 239 SNNPDVDAIGACIGPRGSRVQVVIDELKGEKIDIFEWSDNISELIKNALAPAQILAVLPT 298

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           ED   + V+V   QLSLAIG++G+N RLA +LTG  IDI T
Sbjct: 299 EDKRSLLVVVEDNQLSLAIGKKGKNARLAVKLTGMRIDIKT 339


>gi|320531905|ref|ZP_08032815.1| transcription termination factor NusA [Actinomyces sp. oral taxon
           171 str. F0337]
 gi|320135874|gb|EFW27912.1| transcription termination factor NusA [Actinomyces sp. oral taxon
           171 str. F0337]
          Length = 346

 Score =  213 bits (542), Expect = 7e-53,   Method: Compositional matrix adjust.
 Identities = 145/346 (41%), Positives = 200/346 (57%), Gaps = 30/346 (8%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  EL   AD    E  ID D +L  + D+I  A   + G +    VEI+  TG +S+  
Sbjct: 4   NMPELRGAAD----ELGIDLDNLLPAIEDAILGAYSKVPGAIRGAHVEIDRRTGHMSV-- 57

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
                         ++ +V  D  P+   G    D   P DFGR+A  +A+ VI+Q++++
Sbjct: 58  --------------LAPEVDDDDQPT---GEYFDDT--PDDFGRIAQATARSVIVQRIQD 98

Query: 125 AERDRQYL-EFKDKVGEIISGTVKRVEYGNVI-VDLGN-SDGVIRRDETISRENLRPGDR 181
             RD + L  FKDK GE+ISGTV++     ++ V L    +G++   E +  E  R GDR
Sbjct: 99  -RRDFEVLGAFKDKTGELISGTVEQGRDPRIVYVRLDEEHEGIMPPHEQVPAERYRHGDR 157

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+ DV R  RG Q++LSRTHP  + KLF  EVPEI +G V++ +V+R+ G R K+AV
Sbjct: 158 VRAYVTDVSRGTRGAQIILSRTHPGLVRKLFEREVPEISSGDVEIVSVAREAGHRTKMAV 217

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            S    ++  GAC+G  G RV+AV+TEL  EKIDIV  S D A F+ NAL PA V  V V
Sbjct: 218 RSKVRGVNAKGACIGPMGQRVRAVMTELGGEKIDIVDHSEDPARFIANALSPARVAAVGV 277

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           +D +      IVP  QLSLAIG+ GQN RLA++LTGW IDI  + E
Sbjct: 278 IDAEERTARAIVPDFQLSLAIGKEGQNARLAARLTGWKIDIHADAE 323


>gi|124002855|ref|ZP_01687707.1| transcription termination factor NusA [Microscilla marina ATCC
           23134]
 gi|123992083|gb|EAY31470.1| transcription termination factor NusA [Microscilla marina ATCC
           23134]
          Length = 423

 Score =  213 bits (542), Expect = 7e-53,   Method: Compositional matrix adjust.
 Identities = 118/333 (35%), Positives = 205/333 (61%), Gaps = 10/333 (3%)

Query: 17  AYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYT 76
           A  K+ID+ ++  V+ +  +   R  Y +  +  V +N E GD+ ++R   +VE+ ++  
Sbjct: 14  ARAKNIDKVLMEQVLEEVFRTMIRKKYTSDENFDVIVNIEDGDLEMYRNRIIVED-DSPE 72

Query: 77  CQ----ISLKVARDRDPSI---DIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
            Q    ++L  A+  DP I   DIG      +   DFGR A+ +A+Q +IQK+++ E++ 
Sbjct: 73  AQELDKVTLSEAKKIDPEIAEEDIGDEFPQTVYLSDFGRRAILTARQTLIQKIKDVEKEN 132

Query: 130 QYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
            YL++KD   EI+   V ++    +++ D   ++  + ++E I ++  R G+  K+ ++ 
Sbjct: 133 LYLKYKDMTDEIVVTEVHQILSRELLLLDSEGNELSLPKNELIPKDRYRKGEMSKAVVHR 192

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V      P+++LSRT P F+ +LF  E+PE+Y+G++ +K V R PG RAK+AV S D  I
Sbjct: 193 VDMINGNPKIILSRTSPIFLERLFESEIPEVYDGLITIKKVVRQPGERAKVAVESYDDRI 252

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI 308
           DPVGACVGM+GSR+ ++V EL +E ID++ ++ +   ++  AL PA +T + +++D GR+
Sbjct: 253 DPVGACVGMKGSRIHSIVRELNNENIDVINYTDNLDLYITRALSPAKITSIKMEDD-GRV 311

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            V +  +Q+SLAIG+ G N++LAS+L G  ID+
Sbjct: 312 SVFLKPDQVSLAIGKGGHNIKLASKLVGMEIDV 344


>gi|325067076|ref|ZP_08125749.1| NusA antitermination factor [Actinomyces oris K20]
 gi|326771738|ref|ZP_08231023.1| transcription termination factor NusA [Actinomyces viscosus C505]
 gi|326637871|gb|EGE38772.1| transcription termination factor NusA [Actinomyces viscosus C505]
          Length = 346

 Score =  213 bits (542), Expect = 7e-53,   Method: Compositional matrix adjust.
 Identities = 143/346 (41%), Positives = 199/346 (57%), Gaps = 30/346 (8%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  EL   AD    E  ID D +L  + D+I  A   + G +    VEI+  TG +S+  
Sbjct: 4   NMPELRGAAD----ELGIDLDNLLPAIEDAILGAYSKVPGAIRGAHVEIDRRTGHMSV-- 57

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           L   V+E +  T +                        P DFGR+A  +A+ VI+Q++++
Sbjct: 58  LAPEVDEEDQPTGEYFDDT-------------------PDDFGRIAQATARSVIVQRIQD 98

Query: 125 AERDRQYL-EFKDKVGEIISGTVKRVEYGNVI-VDLGN-SDGVIRRDETISRENLRPGDR 181
             RD + L  FKDK GE+ISGTV++     ++ V L    +G++   E +  E  R GDR
Sbjct: 99  -RRDFEVLGAFKDKTGELISGTVEQGRDPRIVYVRLDEEHEGIMPPHEQVPGERYRHGDR 157

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+ DV R  RG Q++LSRTHP  + KLF  EVPE+ +G V++ +V+R+ G R K+AV
Sbjct: 158 VRAYVTDVSRGTRGAQIILSRTHPGLVRKLFEREVPELSSGDVEIVSVAREAGHRTKMAV 217

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            S    ++  GAC+G  G RV+AV+TEL  EKIDIV +S D A F+ NAL PA V  V V
Sbjct: 218 RSKVRGVNAKGACIGPMGQRVRAVMTELGGEKIDIVDYSEDPARFIANALSPARVAAVGV 277

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           +D +      IVP  QLSLAIG+ GQN RLA++LTGW IDI  + E
Sbjct: 278 IDAEERTARAIVPDFQLSLAIGKEGQNARLAARLTGWKIDIHADAE 323


>gi|291531685|emb|CBK97270.1| transcription termination factor NusA [Eubacterium siraeum 70/3]
          Length = 370

 Score =  213 bits (541), Expect = 8e-53,   Method: Compositional matrix adjust.
 Identities = 129/348 (37%), Positives = 202/348 (58%), Gaps = 4/348 (1%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M ++N  EL +    +A EK ID  V++  +  ++  A +  Y    +I+ +I+   G  
Sbjct: 1   MANSNTTELFEALTLLAKEKGIDPAVLIEKIQTALVIAIKKEYPRSENIKFDIDIAKGKF 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDP-SIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
            +    EV  EVE+   QIS++ A+      ++ G +V+  L    FGR+A Q+AKQVI 
Sbjct: 61  DVAIQKEVAAEVEDDANQISMEEAKTHTRRKLEYGDIVAIKLDTQHFGRIAAQTAKQVIK 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVE--YGNVIVDLGNSDGVIRRDETISRENLR 177
           Q ++E ER++   ++     E ++ TV + E   GN  V+L  ++  + R E I  E L+
Sbjct: 121 QGLKEIEREQLVAQWGGLQDEAVTVTVLKTEPRTGNATVNLNGNEVPLFRSEQIPGEVLK 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
           PGD VK Y+  V      P + +SR + + + +LF  EVPEIY+G V++KA+SR+ GSR+
Sbjct: 181 PGDMVKVYVSGVSATDHRPMLKISRVNKELVKRLFESEVPEIYDGTVEIKAISREAGSRS 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S++  +D +GAC+G    R+  V  EL  EK+D+V +S     F+  AL+P+ V 
Sbjct: 241 KVAVISNNPDVDALGACIGPGRQRISKVCAELGGEKMDVVFYSEKPEEFIAQALKPSDVI 300

Query: 298 KV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +V + D +V     IVP  QLSLAIG +GQN +LA++LTG+ IDI  E
Sbjct: 301 RVEIPDPEVKACTAIVPDNQLSLAIGNKGQNAKLAAKLTGFKIDIRPE 348


>gi|308176799|ref|YP_003916205.1| transcription elongation protein NusA [Arthrobacter arilaitensis
           Re117]
 gi|307744262|emb|CBT75234.1| transcription elongation protein NusA [Arthrobacter arilaitensis
           Re117]
          Length = 327

 Score =  213 bits (541), Expect = 8e-53,   Method: Compositional matrix adjust.
 Identities = 123/327 (37%), Positives = 189/327 (57%), Gaps = 28/327 (8%)

Query: 23  DRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           DRD+ + V+  +I+ A    Y    G M   R  I    G +++                
Sbjct: 14  DRDIPMDVLIPTIESALLLAYNKTEGAMPGARAHIERSNGHVAIL--------------- 58

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
                  DRD +  + G   D   P  FGR+A  +A+QVI+Q++REAE  +   E+  +V
Sbjct: 59  -----VEDRDNAGVLLGEFDDT--PHGFGRIAASTARQVIMQRLREAEDAQVVGEYAARV 111

Query: 139 GEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
           G +ISG +++    +++ V +G+ + ++   E    E  + G+R+++Y+    R  +GP 
Sbjct: 112 GTLISGVIQQGYSSHMVQVKIGDLEALLPPVEQSPGEKYQHGNRLRAYVVSAERGNKGPA 171

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           V LSR+HP  +  LF MEVPEI +G V V+A++R+ G R K+AV ++ + ++  GAC+G 
Sbjct: 172 VTLSRSHPNLVRLLFEMEVPEIADGTVAVEALAREAGHRTKIAVHATKAGVNAKGACIGE 231

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQ 316
            G+RV+AV+ EL DEKIDIV ++ D A F+  AL P+ V  V +LD +  R  V+VP  Q
Sbjct: 232 MGTRVRAVMNELNDEKIDIVDYNEDPAKFIAAALSPSKVISVEILDAEERRARVVVPDSQ 291

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIIT 343
           LSLAIG+ GQN RLA++LTGW IDI+ 
Sbjct: 292 LSLAIGKEGQNARLAAKLTGWRIDILA 318


>gi|86609687|ref|YP_478449.1| transcription elongation factor NusA [Synechococcus sp.
           JA-2-3B'a(2-13)]
 gi|86558229|gb|ABD03186.1| transcription termination factor NusA [Synechococcus sp.
           JA-2-3B'a(2-13)]
          Length = 457

 Score =  212 bits (540), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 134/341 (39%), Positives = 195/341 (57%), Gaps = 30/341 (8%)

Query: 18  YEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTC 77
           Y K+I RDVV +                  +  VE++ E G   +     +VE+V+N   
Sbjct: 42  YRKTIQRDVVFA-------------EDHFRNFDVELDVEAGGFRVLATKAIVEQVQNPDH 88

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
           +ISL   +   P  ++G  V+D + P   +FGR+A    KQV+ QK+R+ +R     EF+
Sbjct: 89  EISLYDVQQDYPEAEVGWEVTDDVTPQQAEFGRMAAIQTKQVLAQKLRDQQRRLIQEEFR 148

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGV------IRRDETISRENLRPGDRVKSYIYDV 189
           D    ++   V R E   VI+ + +  G       + + E ++ +   P   +K Y+  V
Sbjct: 149 DLEKTVLQARVLRTERQTVIMSVSSGFGQPEVEAELPKKEQLASDRYTPNAVMKVYLKKV 208

Query: 190 RR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAV-------SRDPGSRAKLAV 241
               +RGPQ+L+SR     +V LF  EVPEI   IV++ AV       SR+ G R K+AV
Sbjct: 209 YEGSRRGPQLLVSRADAGLVVNLFANEVPEIEEDIVRIVAVAREANPPSRNVGPRTKIAV 268

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            + +  +DPVGAC+G RGSR+QAVV ELR+EKID++ WSPD AT++ NAL PA V +V L
Sbjct: 269 DTVERDVDPVGACIGARGSRIQAVVAELRNEKIDVIRWSPDPATYIANALSPAKVVEVRL 328

Query: 302 -DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            D ++ +  V+V  +QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 329 VDPEIQQAHVLVNSDQLSLAIGKEGQNVRLAARLTGWKIDI 369


>gi|309811468|ref|ZP_07705250.1| transcription termination factor NusA [Dermacoccus sp. Ellin185]
 gi|308434519|gb|EFP58369.1| transcription termination factor NusA [Dermacoccus sp. Ellin185]
          Length = 339

 Score =  212 bits (540), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 130/334 (38%), Positives = 197/334 (58%), Gaps = 28/334 (8%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  E+ I  DV++  +  ++  A +   G+    RVE++  TG + ++   E  E+ E+
Sbjct: 10  ALEREREIPMDVIVPAIEQALLLAYQKEEGSYRRARVELDRRTGHVVVW-AREDGEKQED 68

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLP-----PMDFGRVAVQSAKQVIIQKVREAERDR 129
                               G  S+P P     P +FGRVA  +A+QVI+Q++R+ E + 
Sbjct: 69  --------------------GTWSEPGPEFDDTPKNFGRVAAGTARQVIMQRMRDVEDEA 108

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              +F  K G+I+SGT+++ ++   V VD G  +G++   E +  E  R G+R++ Y+  
Sbjct: 109 ILGDFIGKEGDIVSGTIQQSLDSRFVKVDFGTVEGILPTAEQVPGETYRHGERLRCYVVS 168

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           VRR  +GPQ+ LSRTHP  + KLF MEVPEI +G V++ A++R+ G R K+AV ++   I
Sbjct: 169 VRRGPKGPQISLSRTHPNLVRKLFAMEVPEIADGSVEIAALAREAGHRTKIAVHATKPGI 228

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  G RV+AV++EL+ EKIDIV +S     F+  AL P+ V  V V+D     
Sbjct: 229 NAKGACIGPMGQRVRAVMSELQGEKIDIVDYSRQPDEFIAAALSPSRVESVEVVDPKARA 288

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 289 ARVVVPDFQLSLAIGKEGQNARLAAKLTGWRIDI 322


>gi|17231321|ref|NP_487869.1| transcription elongation factor NusA [Nostoc sp. PCC 7120]
 gi|17132963|dbj|BAB75528.1| transcription termination factor [Nostoc sp. PCC 7120]
          Length = 425

 Score =  212 bits (540), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 129/299 (43%), Positives = 183/299 (61%), Gaps = 20/299 (6%)

Query: 63  FRLLE---VVEEVENYTCQISLKVARDRDPSIDIG-GVVSDPLPPM-DFGRVAVQSAKQV 117
           FR+L    +VEEV N   QISL   +   P   +G  VV D  P   +FGR+A    KQV
Sbjct: 72  FRVLSTKSIVEEVNNSDHQISLDEVQQVAPEAQLGDSVVLDVTPDQGEFGRMAAMQTKQV 131

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV------IRRDETI 171
           + QK+R+ +R     EF+D  G ++   V R E  +VI+ + ++ G       + + E +
Sbjct: 132 LAQKLRDQQRQMVQEEFQDLEGTVLQARVLRFERQSVILAVSSTFGQPEVEAELPKREQL 191

Query: 172 SRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVS 230
             +N R     K Y+  V + +QRGPQ+L+SR     +V LF  EVPEI + +V++ AV+
Sbjct: 192 PNDNYRANATFKVYLKKVSQGQQRGPQLLVSRADAGLVVYLFANEVPEIEDEVVRIVAVA 251

Query: 231 RDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDS 283
           R+        G R K+AV + D  +DPVGAC+G RGSR+Q VV ELR EKID++ WSPD 
Sbjct: 252 REANPPSRYVGPRTKIAVDTLDRDVDPVGACIGARGSRIQVVVNELRGEKIDVIRWSPDP 311

Query: 284 ATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           AT++ NAL PA V +V ++D +  +  V+V ++QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 312 ATYIANALSPARVDEVRLMDPETRQTHVLVAEDQLSLAIGKEGQNVRLAARLTGWKIDI 370


>gi|295395322|ref|ZP_06805525.1| transcription termination factor NusA [Brevibacterium mcbrellneri
           ATCC 49030]
 gi|294971825|gb|EFG47697.1| transcription termination factor NusA [Brevibacterium mcbrellneri
           ATCC 49030]
          Length = 320

 Score =  212 bits (539), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 124/326 (38%), Positives = 194/326 (59%), Gaps = 28/326 (8%)

Query: 23  DRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           +R++ + V+ D I++A    Y    G   D R E++ +TG  +++               
Sbjct: 14  EREIPMKVLVDLIEQALLIAYQRTEGYYPDARAELDTKTGKATIW--------------- 58

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
            +++   D +P     G   D   P  FGR+A Q+A+ VI Q++R+ E +     FK+  
Sbjct: 59  -AVEFDDDDNPI----GEFDDT--PEGFGRIAAQTARNVIHQRLRDVEDESVLGSFKNHE 111

Query: 139 GEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
           GEI+SG +++ +Y +++ V+LG+ + V+   E +  E    G R++ YI DV + Q+GP 
Sbjct: 112 GEIVSGVIQQGKYEDMVQVNLGDVEAVLPPHEQVPGETYEHGRRIRVYITDVHKGQKGPS 171

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           V +SR+HP  + KLF  EVPEI +G V++ +++R+ G R K+AV +    ++  GAC+G 
Sbjct: 172 VTVSRSHPNLVRKLFAHEVPEIADGQVELVSLAREAGHRTKIAVAAKVPGLNAKGACIGE 231

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQ 316
            G+RV+AV+ EL +EKIDIV ++ + A FV NAL PA   KV V+DE        VP +Q
Sbjct: 232 YGTRVRAVMGELGEEKIDIVDYNENPAKFVANALSPAKAAKVEVIDESAKMARAFVPNDQ 291

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDII 342
           LSLAIG+ GQN RLA++LTGW IDI+
Sbjct: 292 LSLAIGKEGQNARLAAKLTGWKIDIV 317


>gi|228473549|ref|ZP_04058301.1| transcription termination factor NusA [Capnocytophaga gingivalis
           ATCC 33624]
 gi|228274921|gb|EEK13731.1| transcription termination factor NusA [Capnocytophaga gingivalis
           ATCC 33624]
          Length = 411

 Score =  212 bits (539), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 124/349 (35%), Positives = 213/349 (61%), Gaps = 7/349 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N L+L++       +K IDR+ ++S++ +  + A +  YG+  +  + INP+ GDI ++R
Sbjct: 3   NNLDLIESFSEFRDDKLIDREALMSILDEVFKTALKKKYGSDENFDIIINPDKGDIEIWR 62

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              +V++  VEN   +I L  A   +   ++G  VS+ +     GR A+ + +Q +I KV
Sbjct: 63  NRIIVDDGMVENPNAEIPLSEALKIESDFEVGEEVSEEVKISQLGRRAILALRQNLISKV 122

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGD 180
            E + +  Y +FK+ +G I +  +  ++   VI+  D GN + ++ RD+ I  +  + G+
Sbjct: 123 HEYDNNTVYKKFKELIGTIYTAEIHHIKGKTVILLDDEGN-EILLPRDKQIPSDFFKKGE 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
             K  I  V  +   P ++LSRT P F+ +LF  E+PEI +G++ ++ V+R PG +AK+A
Sbjct: 182 TTKGIIESVDFKGNKPSIILSRTSPVFLERLFEQEIPEIADGLITIQKVARIPGEKAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V + D  IDPVGACVG+ G+R++++V EL +E ID++ +S ++  F+  AL PA +T + 
Sbjct: 242 VDTYDDRIDPVGACVGVNGARIRSIVRELGNENIDVISYSSNTNLFISKALAPAKITSIT 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE--EED 347
           ++E+  R EV++  E++S AIG+ G N+RLAS LTG+ ID+  E  EED
Sbjct: 302 VNEETKRAEVLLASEEVSKAIGKGGSNIRLASLLTGYEIDVFREGAEED 350


>gi|229496539|ref|ZP_04390253.1| transcription termination factor NusA [Porphyromonas endodontalis
           ATCC 35406]
 gi|229316436|gb|EEN82355.1| transcription termination factor NusA [Porphyromonas endodontalis
           ATCC 35406]
          Length = 455

 Score =  212 bits (539), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 140/422 (33%), Positives = 246/422 (58%), Gaps = 25/422 (5%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYTC 77
           K+ID++ +++V+  +       ++GT  +  + ++PE GD+ ++R   VV +  V+N   
Sbjct: 21  KNIDKETLINVLKSAFMSVLSKMFGTDENFTIIVSPEMGDLEIWRNRMVVADGSVQNPNL 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +ISL  A   DP  +IG  V+D +    FGR A+ + +Q +  KV E +++  Y +F+++
Sbjct: 81  EISLSDALPLDPDAEIGSEVTDSINFASFGRRAILNLRQALQGKVLELQKENLYKKFQER 140

Query: 138 VGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG+++S  V +V +   ++VD   ++ ++ + E I  +  R G+ V + I  V  E    
Sbjct: 141 VGQMVSAEVYQVWKREALLVDDEGNELLLPKSEQIPGDYFRKGESVHAVIDHVDYENNNI 200

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           ++ +SRT  +F+ +LF + VPEI +G++ +K V+R PG RAK+AV S D  IDPVGACVG
Sbjct: 201 KIYVSRTSQEFLKRLFELNVPEIGDGLITIKRVARIPGERAKMAVESYDDRIDPVGACVG 260

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKE 315
           M GSR++ +V EL+ E ID++ ++ +S+ FV  AL PA V+ + +L E++ + EV +  E
Sbjct: 261 MNGSRIRGIVRELKGENIDVMSYTTNSSLFVQRALSPAKVSSIEILPEEL-KAEVYLSPE 319

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD-----FNERTQFFM------- 363
           ++ +AIG+   N++LAS LTG+ I++  + E+  N ++D     FN+  + ++       
Sbjct: 320 EVPMAIGKNASNIKLASALTGYKIEVFRDIEE--NDEEDIFLNEFNDEIEDWVLEVLKNI 377

Query: 364 ---QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
               A++V  I    L+++  AD+EE     + E+ S E FD E    I   A E  E +
Sbjct: 378 GCNTALSVLRIPRAELISK--ADLEESTVDHVLEVLSSE-FDPEELERIGFTAPEATEEV 434

Query: 421 DI 422
           +I
Sbjct: 435 EI 436


>gi|325962805|ref|YP_004240711.1| transcription termination factor NusA [Arthrobacter
           phenanthrenivorans Sphe3]
 gi|323468892|gb|ADX72577.1| transcription termination factor NusA [Arthrobacter
           phenanthrenivorans Sphe3]
          Length = 326

 Score =  212 bits (539), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 109/244 (44%), Positives = 168/244 (68%), Gaps = 2/244 (0%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNS 161
           P  FGR+A  +A+Q+I+Q++R+ E D    EFK + GE++SGT+++    ++I V+LG+ 
Sbjct: 76  PEGFGRIAASTARQIILQRLRDVEDDNVLGEFKGREGELVSGTIQQGNNPHMIQVNLGSV 135

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           + ++   E +  E    G+R+++ + DV R  +GP V LSR+HP  + KLF +EVPEI +
Sbjct: 136 EALLPPPEQVPGEKYIHGNRLRALVIDVHRGSKGPSVTLSRSHPGLVRKLFELEVPEIAD 195

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
             V++ A++R+ G R K+AV ++   I+  GAC+G  GSRV+AV+TEL DEKIDIV +S 
Sbjct: 196 RSVEIVALAREAGHRTKIAVKANVPGINAKGACIGEMGSRVRAVMTELNDEKIDIVDFSE 255

Query: 282 DSATFVINALRPAIVTKVVLDEDVGR-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           + ATF+ +AL P+ V  V + ++  R   V+VP  QLSLAIG+ GQN RLA++LTGW ID
Sbjct: 256 NPATFIASALSPSRVNSVTITDEATRSARVVVPDYQLSLAIGKEGQNARLAAKLTGWRID 315

Query: 341 IITE 344
           I+++
Sbjct: 316 IVSD 319


>gi|262202085|ref|YP_003273293.1| transcription termination factor NusA [Gordonia bronchialis DSM
           43247]
 gi|262085432|gb|ACY21400.1| transcription termination factor NusA [Gordonia bronchialis DSM
           43247]
          Length = 340

 Score =  212 bits (539), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 126/332 (37%), Positives = 192/332 (57%), Gaps = 31/332 (9%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           +K I  D V++ +  ++  A R   G     R+++N +TG + +                
Sbjct: 14  DKGISIDTVITAIETALLTAYRHTEGFAPHARIDVNRKTGAVRVM--------------- 58

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
                A++ D + D+     D   P  FGR+A  +A+QVI+Q++R+AE ++ + +     
Sbjct: 59  -----AQELDDNGDVVHEWDDT--PEGFGRIAATTARQVILQRLRDAENEKNFGDLVTHE 111

Query: 139 GEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDRVKSYIYDVR 190
           GEI+ G V++    N    ++V +G+    ++G+I   E +  E+   GDR+K Y+  V 
Sbjct: 112 GEIVGGVVQQDARANARGMIVVQIGSDANSTEGIIPPAEQVPGESYTHGDRIKCYVVGVS 171

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDP 250
           R  RGPQ+ LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV +  + ++ 
Sbjct: 172 RGARGPQITLSRTHPNLVRKLFSLEVPEIEDGSVEIVAVAREAGHRSKIAVHTGVAGLNA 231

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIE 309
            GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V  V V+D       
Sbjct: 232 KGACIGPMGQRVRNVMSELAGEKIDIIDFDTDPAVFVGNALSPAKVVSVSVVDPTAKAAR 291

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 292 VVVPDYQLSLAIGKEGQNARLAARLTGWRIDI 323


>gi|119485069|ref|ZP_01619454.1| transcription elongation factor NusA [Lyngbya sp. PCC 8106]
 gi|119457297|gb|EAW38422.1| transcription elongation factor NusA [Lyngbya sp. PCC 8106]
          Length = 409

 Score =  211 bits (538), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 128/303 (42%), Positives = 183/303 (60%), Gaps = 17/303 (5%)

Query: 56  ETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPP--MDFGRVAVQS 113
           E G   L + L +VEEV N   QISL+  R+  P   +G  V+  + P   DFGR+A   
Sbjct: 68  EEGFRVLAKNLTIVEEVTNQDHQISLQDVREVAPEAQLGDTVTLDVTPEQSDFGRMAAIQ 127

Query: 114 AKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV------IRR 167
            KQV+ QK+R+ +R     EFKD    ++   V R E  +VI+ + +  G       + +
Sbjct: 128 TKQVLAQKLRDQQRKMIQDEFKDLESSVLQARVLRFERQSVIMSVNSGFGHQEVEAELPK 187

Query: 168 DETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
            E +  +N R     + Y+  V +  QRGPQ+++SR     +V LF  EVPEI + +V++
Sbjct: 188 REQLPNDNYRANATFRVYLKRVSQGSQRGPQLIVSRADAGLVVYLFANEVPEIEDEVVRI 247

Query: 227 KAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVW 279
            AV+R+        G R K+AV + D  +DPVGAC+G RGSR+Q VV ELR EKID++ W
Sbjct: 248 VAVAREANPPSTHVGPRTKIAVDTLDRDVDPVGACIGARGSRIQVVVNELRGEKIDVIRW 307

Query: 280 SPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
           SPD +T++ NAL PA V +V L + +  R  ++VP++QLSLAIG+ GQNVRLA++LTGW 
Sbjct: 308 SPDPSTYIANALSPARVDEVRLVNPEERRAHILVPEDQLSLAIGKEGQNVRLAARLTGWK 367

Query: 339 IDI 341
           IDI
Sbjct: 368 IDI 370


>gi|210634027|ref|ZP_03297945.1| hypothetical protein COLSTE_01863 [Collinsella stercoris DSM 13279]
 gi|210158971|gb|EEA89942.1| hypothetical protein COLSTE_01863 [Collinsella stercoris DSM 13279]
          Length = 427

 Score =  211 bits (538), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 136/356 (38%), Positives = 200/356 (56%), Gaps = 54/356 (15%)

Query: 19  EKSIDR----DVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV---VEE 71
           EK ID+    D + + +A++  K  +  +G     +V I+  +G I ++RL  +   ++E
Sbjct: 18  EKHIDQLYLLDRLEAALAETYAKVLKLDWGA----KVTIDRASGKIYVYRLEPIDDSMDE 73

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
             N+T    + V                   P D  R+A Q+AK  I   VR A R++ Y
Sbjct: 74  EGNFTEYEEIDVT------------------PKDVSRLAAQTAKAEINAIVRNAAREQIY 115

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV-------------IRRDETISRENLRP 178
            EF  +VG++I+GTV +      IV +   DGV               R+E  + E    
Sbjct: 116 EEFSGRVGDLINGTVLQSTPDFTIVKI--RDGVEAELPHFDQRRYPDERNERPNGERYLH 173

Query: 179 GDRVKSYIYDVRR----------EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKA 228
              +K+ I DVR           E   P +++SRTH + M +LF  EVPE+Y G V++K+
Sbjct: 174 NQHLKAVIVDVRDPNSTLPPVRGEHSRPPIVISRTHAELMRRLFEQEVPEVYEGTVELKS 233

Query: 229 VSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVI 288
           ++R+PG R+K+AV S D  +DPVGACVG +GSRV+AVV ELR E++D+++W  D A +V 
Sbjct: 234 IAREPGMRSKVAVHSLDDRLDPVGACVGPKGSRVRAVVGELRGERVDVILWDEDPAVYVA 293

Query: 289 NALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           NAL PA VT+V++D +     VIVP +QLSLAIG+ GQN RLA++LTGW IDI +E
Sbjct: 294 NALSPAKVTRVLIDPEKNYAGVIVPDDQLSLAIGKEGQNARLAARLTGWHIDIKSE 349


>gi|329936656|ref|ZP_08286363.1| transcriptional termination/antitermination factor [Streptomyces
           griseoaurantiacus M045]
 gi|329303886|gb|EGG47769.1| transcriptional termination/antitermination factor [Streptomyces
           griseoaurantiacus M045]
          Length = 330

 Score =  211 bits (538), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 116/251 (46%), Positives = 164/251 (65%), Gaps = 2/251 (0%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNS 161
           P  FGR+A  +AKQVI+Q++R+AE D    E+  + G+I++G V++  +  NV+VD+G  
Sbjct: 79  PSGFGRIAATTAKQVILQRLRDAEDDATLGEYAGREGDIVTGVVQQGRDPKNVLVDIGKL 138

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           + ++   E +  E+ + G R++SY+  V +  RGP V LSRTHP  + KLF +EVPEI +
Sbjct: 139 EAILPVQEQVPGESYQHGMRLRSYVVRVAKGVRGPSVTLSRTHPNLVKKLFALEVPEIAD 198

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           G V++ A++R+ G R K+AV S+ S ++  GAC+G  G RV+ V+ EL  EKIDIV WS 
Sbjct: 199 GSVEIAAIAREAGHRTKIAVRSTRSGLNAKGACIGPMGGRVRNVMGELNGEKIDIVDWSD 258

Query: 282 DSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D A  V NAL PA V+ V V+D       V VP  QLSLAIG+ GQN RLA++LTGW ID
Sbjct: 259 DPAEMVANALSPARVSAVDVVDLAARSARVTVPDYQLSLAIGKEGQNARLAARLTGWRID 318

Query: 341 IITEEEDSINR 351
           I  + E +  R
Sbjct: 319 IRPDTEPAEPR 329


>gi|284030871|ref|YP_003380802.1| NusA antitermination factor [Kribbella flavida DSM 17836]
 gi|283810164|gb|ADB32003.1| NusA antitermination factor [Kribbella flavida DSM 17836]
          Length = 330

 Score =  211 bits (538), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 130/325 (40%), Positives = 195/325 (60%), Gaps = 28/325 (8%)

Query: 23  DRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           ++D+   V+ ++I++A    Y    G     R E++ +TG +++F               
Sbjct: 14  EKDIAFEVVVEAIEQALLVAYHRTEGAQQHARAELDRKTGHVTVF--------------- 58

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
                AR+  P   +     D   P DFGR+A  +AKQVI+Q++R+AE + +Y EF  K 
Sbjct: 59  -----AREMGPDGTLVREYDDT--PADFGRIAATTAKQVILQRLRDAEDEVRYGEFSGKE 111

Query: 139 GEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
           G+I+SG V++  +  +V+VDLG  + V+   E +  E    G R++ Y+  VR+  +GPQ
Sbjct: 112 GDIVSGVVQQGRDPRSVMVDLGKIEAVLPGPEQVPGEKYEHGSRLRVYVVGVRKGFKGPQ 171

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           + +SRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV + + S++  GAC+G 
Sbjct: 172 ITVSRTHPNLVKKLFALEVPEIADGTVEITAIAREAGHRTKIAVRTLNPSVNGKGACIGP 231

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQ 316
            G RV+ ++ EL  EKIDI+  S D ATFV NAL PA V+ V V+D       V+VP  Q
Sbjct: 232 MGQRVRNIMHELHGEKIDIIDHSDDPATFVGNALSPAQVSSVEVVDAAARAARVVVPDYQ 291

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDI 341
           LSLAIG+ GQN RLA++LTGW IDI
Sbjct: 292 LSLAIGKEGQNARLAARLTGWRIDI 316


>gi|254821852|ref|ZP_05226853.1| transcription elongation factor NusA [Mycobacterium intracellulare
           ATCC 13950]
          Length = 348

 Score =  211 bits (537), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 131/345 (37%), Positives = 198/345 (57%), Gaps = 35/345 (10%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLFRL 65
           + I  A  +   +DR + ++ + ++I+ A  + Y    G  +D R+EI+ +TG + +   
Sbjct: 1   MNIDMAALHAIEVDRGISVNELLETIKSALLTAYRHTEGHQNDARIEIDRKTGVVRV--- 57

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
                            +AR+ D   ++     D   P  FGR+A  +A+QV++Q+ R+A
Sbjct: 58  -----------------IARETDEDDNVISEWDDT--PEGFGRIAATTARQVMLQRFRDA 98

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLR 177
           E +R Y EF  + GEI++G ++R    N    V+V +G     S+GVI   E +  E+  
Sbjct: 99  ENERTYGEFSTREGEIVAGVIQRDSRANARGLVVVRMGTETKASEGVIPAAEQVPGESYE 158

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+RV+ Y+  V R  R P + LSRTHP  + KLF +EVPEI +  V++ AV+R+ G R+
Sbjct: 159 HGNRVRCYVIGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADESVEIVAVAREAGHRS 218

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S+   ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V 
Sbjct: 219 KIAVKSNLPGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDEDPARFVANALSPAKVV 278

Query: 298 KV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            V ++D       V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 279 SVSIIDPSARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDI 323


>gi|88802100|ref|ZP_01117628.1| transcription elongation factor NusA [Polaribacter irgensii 23-P]
 gi|88782758|gb|EAR13935.1| transcription elongation factor NusA [Polaribacter irgensii 23-P]
          Length = 418

 Score =  211 bits (537), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 126/342 (36%), Positives = 203/342 (59%), Gaps = 15/342 (4%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYTC 77
           KSIDR  ++S++ +  +   +  +G+  +  + INP+ GD+ ++R   VV +   E+   
Sbjct: 17  KSIDRVTLMSILEEVFRATLKRKFGSDDNFDIIINPDKGDLEIWRNRVVVADGFSEDDNE 76

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +I L  AR  +P  +IG  VS+ +  +D GR A+ + +Q +I K+ E +    +  FK+ 
Sbjct: 77  EIELAEARLIEPDFEIGEDVSEEVKLIDLGRRAILALRQNLISKIYEHDSTNIFKHFKEL 136

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
            GE+ S  V  + +  +I+  D GN + V+ + E I  +  R GD V+  I  V      
Sbjct: 137 EGELYSAEVHHIRHNAIILLDDDGN-EIVLPKSEQIRSDFFRKGDSVRGVIKTVELRGNK 195

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P ++LSRT P F+ KLF  E+PE+++G++ V+ V+R PG +AK+AV S D  IDPVGACV
Sbjct: 196 PAIILSRTAPAFLNKLFEQEIPEVFDGLITVERVARIPGEKAKVAVDSYDDRIDPVGACV 255

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-------DEDVGRI 308
           G++GSR+  +V EL +E ID++ ++ +   F+  AL PA VT + +       +   GR+
Sbjct: 256 GVKGSRIHGIVRELGNENIDVINYTKNEQLFISRALSPAKVTSMEIEMYEEERNGKKGRV 315

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII---TEEED 347
            V++  E++S AIGR G N+RLAS+LTG+ ID+     EEED
Sbjct: 316 SVLLRPEEVSKAIGRGGVNIRLASELTGYEIDVKREGLEEED 357


>gi|318081083|ref|ZP_07988415.1| transcription elongation factor NusA [Streptomyces sp. SA3_actF]
          Length = 343

 Score =  211 bits (537), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 130/328 (39%), Positives = 192/328 (58%), Gaps = 29/328 (8%)

Query: 59  DISLFRLLEVVEE---VENYTCQISLKVAR---DRDP----------SIDIGGVVSDPLP 102
           +IS  RL+E +E    +  +  + S + AR   DR+           + D+  +  D  P
Sbjct: 12  EISFDRLVEAIESALLIAYHRTEHSHRRARVHLDRESGHVTVWVKEEAADLADLGEDARP 71

Query: 103 ------PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR-VEYGNVI 155
                 P DFGR+A  +AKQVI+Q++R+A+ D    E+  + G+I++G V++  +  NV+
Sbjct: 72  REFDDTPSDFGRIAATTAKQVILQRLRDAQDDATLGEYAGREGDIVTGVVQQGRDPKNVL 131

Query: 156 VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHME 215
           VD+G  + ++   E +  E    G R++SY+  V +  RGP V LSRTHP  + KLF +E
Sbjct: 132 VDIGKLEAILPVQEQVPGEEYTHGLRLRSYVVRVAKGMRGPSVTLSRTHPNLVKKLFSLE 191

Query: 216 VPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKID 275
           VPEI +G V++ A++R+ G R K+AV S+ S ++  GAC+G  G RV+ V+ EL  EKID
Sbjct: 192 VPEIADGSVEIAAIAREAGHRTKIAVRSNRSGLNAKGACIGPMGGRVRNVMAELNGEKID 251

Query: 276 IVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQL 334
           IV WS + A  V +AL PA V+ V V+D       V VP  QLSLAIG+ GQN RLA++L
Sbjct: 252 IVDWSDNPADLVAHALSPARVSHVEVVDLATRSARVTVPDYQLSLAIGKEGQNARLAARL 311

Query: 335 TGWTIDI-----ITEEEDSINRQKDFNE 357
           TGW IDI      T+E+ +     + NE
Sbjct: 312 TGWRIDIRPDTETTDEDGNATENGNGNE 339


>gi|328885406|emb|CCA58645.1| Transcription termination protein NusA [Streptomyces venezuelae
           ATCC 10712]
          Length = 331

 Score =  211 bits (537), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 131/342 (38%), Positives = 200/342 (58%), Gaps = 22/342 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +++   +A+EK I  D+++  +  ++  A           RVE++  TG ++++   +  
Sbjct: 5   VKLLKGLAHEKEISFDLLVEAIESALLIAYHRTPDARRHARVELDRVTGHVTVWAKEDPS 64

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
           E  E        +  +D D +            P DFGR+A  +A+QVI Q++R+AE D 
Sbjct: 65  ELEEG-------QEPKDFDDT------------PSDFGRIAASTARQVIQQRLRDAENDV 105

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNS-DGVIRRDETISRENLRPGDRVKSYIY 187
            + E+  + G++++G V++  +  NV+V L +  + ++   E +  E    G R+++Y+ 
Sbjct: 106 TFGEYARREGDVVAGVVQQGKDPKNVLVKLDDKLEAILPVQEQVPGEEYSHGLRLRTYVV 165

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  RGP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S 
Sbjct: 166 RVAKGVRGPSVTLSRTHPNLVKKLFALEVPEIADGSVEIAAIAREAGHRTKIAVRSTRSG 225

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVG 306
           ++P GAC+G  GSRV+ V+ EL  EKIDIV WS D A  V NAL PA V+KV V+D    
Sbjct: 226 LNPKGACIGPMGSRVRNVMAELLGEKIDIVDWSDDPAEMVANALSPARVSKVEVVDMAAR 285

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
              V VP  QLSLAIG+ GQN RLA++LTGW IDI  + E S
Sbjct: 286 SARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTEPS 327


>gi|318062643|ref|ZP_07981364.1| transcription elongation factor NusA [Streptomyces sp. SA3_actG]
          Length = 367

 Score =  211 bits (537), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 130/328 (39%), Positives = 192/328 (58%), Gaps = 29/328 (8%)

Query: 59  DISLFRLLEVVEE---VENYTCQISLKVAR---DRDP----------SIDIGGVVSDPLP 102
           +IS  RL+E +E    +  +  + S + AR   DR+           + D+  +  D  P
Sbjct: 12  EISFDRLVEAIESALLIAYHRTEHSHRRARVHLDRESGHVTVWVKEEAADLADLGEDARP 71

Query: 103 ------PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR-VEYGNVI 155
                 P DFGR+A  +AKQVI+Q++R+A+ D    E+  + G+I++G V++  +  NV+
Sbjct: 72  REFDDTPSDFGRIAATTAKQVILQRLRDAQDDATLGEYAGREGDIVTGVVQQGRDPKNVL 131

Query: 156 VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHME 215
           VD+G  + ++   E +  E    G R++SY+  V +  RGP V LSRTHP  + KLF +E
Sbjct: 132 VDIGKLEAILPVQEQVPGEEYTHGLRLRSYVVRVAKGMRGPSVTLSRTHPNLVKKLFSLE 191

Query: 216 VPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKID 275
           VPEI +G V++ A++R+ G R K+AV S+ S ++  GAC+G  G RV+ V+ EL  EKID
Sbjct: 192 VPEIADGSVEIAAIAREAGHRTKIAVRSNRSGLNAKGACIGPMGGRVRNVMAELNGEKID 251

Query: 276 IVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQL 334
           IV WS + A  V +AL PA V+ V V+D       V VP  QLSLAIG+ GQN RLA++L
Sbjct: 252 IVDWSDNPADLVAHALSPARVSHVEVVDLATRSARVTVPDYQLSLAIGKEGQNARLAARL 311

Query: 335 TGWTIDI-----ITEEEDSINRQKDFNE 357
           TGW IDI      T+E+ +     + NE
Sbjct: 312 TGWRIDIRPDTETTDEDGNATENGNGNE 339


>gi|326335427|ref|ZP_08201614.1| N utilization substance protein A [Capnocytophaga sp. oral taxon
           338 str. F0234]
 gi|325692193|gb|EGD34145.1| N utilization substance protein A [Capnocytophaga sp. oral taxon
           338 str. F0234]
          Length = 411

 Score =  211 bits (537), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 125/349 (35%), Positives = 213/349 (61%), Gaps = 7/349 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N L+L++       +K IDR+ ++S++ +  + A +  YG+  +  + INP+ GDI ++R
Sbjct: 3   NNLDLIESFSEFRDDKLIDREALMSILDEVFKTALKKKYGSDENFDIIINPDKGDIEIWR 62

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              +V++  VEN   +I L  A   +   ++G  VS+ +     GR A+ + +Q +I KV
Sbjct: 63  NRIIVDDGMVENPNAEIPLSEALKIESDFEVGEEVSEEVKISQLGRRAILALRQNLISKV 122

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGD 180
            E + +  Y +FK+ +G I +  +  ++   VI+  D GN + ++ RD  I  +  + G+
Sbjct: 123 HEYDNNTIYKKFKELIGGIYTAEIHHIKGKTVILLDDDGN-EILLPRDRQIPSDFFKKGE 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K  I  V  +   P ++LSRT P F+ +LF  E+PEI +G++ ++ V+R PG +AK+A
Sbjct: 182 TIKGIIESVDFKGNKPAIILSRTSPLFLERLFEQEIPEIADGLITIQKVARIPGEKAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S D  IDPVGACVG+ G+R++++V EL +E ID++ +S + + F+  AL PA +T + 
Sbjct: 242 VDSYDDRIDPVGACVGVNGARIRSIVRELGNENIDVINFSNNISLFISKALAPAKITSIT 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE--EED 347
           ++E+  R EV++  E++S AIG+ G N+RLAS LTG+ ID+  E  EED
Sbjct: 302 VNEETKRAEVLLASEEVSKAIGKGGSNIRLASMLTGYEIDVFREGAEED 350


>gi|261749099|ref|YP_003256784.1| transcription elongation factor NusA [Blattabacterium sp.
           (Periplaneta americana) str. BPLAN]
 gi|261497191|gb|ACX83641.1| transcription elongation factor NusA [Blattabacterium sp.
           (Periplaneta americana) str. BPLAN]
          Length = 419

 Score =  211 bits (536), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 116/327 (35%), Positives = 200/327 (61%), Gaps = 3/327 (0%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYT 76
           EK+IDR  +++++ +SI+   R  Y +  +  + +NP+ GD+ ++R   VV++  V++  
Sbjct: 16  EKNIDRASLMAILEESIRCVLRKKYDSSKNYDIIVNPDQGDLEIWRNRIVVQDGTVKDVN 75

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +I L  AR  +   +IG  V++ +     GR A+ S +Q ++ K+ E +    Y +FK+
Sbjct: 76  KEIELSTARKIEIDFEIGEEVTEKVELKSLGRRAILSLRQNLLSKINEYDNTNIYKKFKN 135

Query: 137 KVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           K+GEII+  V  +    +I+ D   ++ V+ + E I  +  R GD V++ +  V  +   
Sbjct: 136 KIGEIINVEVYHILPKQIIMRDEEQNEMVLPKQEQIPNDFFRKGDPVRALVKRVDWKDNK 195

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P  +L+R    F+ +LF +E+PE+  G++ VK V+R PG +AK++V S D  IDP+GACV
Sbjct: 196 PLAILTRKDDSFLEELFKLEIPEVSEGLITVKKVARIPGEKAKVSVDSYDDRIDPIGACV 255

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           GM+GSR+  +V EL++E ID++ ++ +   ++  AL PA V+ + ++E+   + V V  E
Sbjct: 256 GMKGSRIHPIVRELKNENIDVINYTTNIQLYITRALSPAKVSMMEVNEEHKYVNVYVKLE 315

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDII 342
           ++S AIGR GQN+RLASQLTG+ I I 
Sbjct: 316 EISKAIGRGGQNIRLASQLTGYKIHIF 342


>gi|313206787|ref|YP_004045964.1| nusa antitermination factor [Riemerella anatipestifer DSM 15868]
 gi|312446103|gb|ADQ82458.1| NusA antitermination factor [Riemerella anatipestifer DSM 15868]
 gi|315023860|gb|EFT36862.1| transcription elongation factor NusA [Riemerella anatipestifer
           RA-YM]
 gi|325335773|gb|ADZ12047.1| Transcription elongation factor [Riemerella anatipestifer RA-GD]
          Length = 411

 Score =  211 bits (536), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 115/344 (33%), Positives = 200/344 (58%), Gaps = 5/344 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           + L L++       EK+I +  +++++ DS++   R  Y +     V +NP+ GD  +F 
Sbjct: 2   DNLALIEAFGDFKEEKNISKIDLMAIIEDSLKTLLRKRYDSDDHFDVIVNPDKGDFQIFL 61

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              +VE+   E+   +I +  AR  DP+ ++G   +  +     GR  + + KQ++  K+
Sbjct: 62  NKTIVEDQMSEDDDLEIEISEARKTDPTFEVGEEFTQEIKVSQLGRRNILTLKQILATKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGD 180
           +E      Y +FKD++GEI+ G V  + + +VI+  D GN + ++ +D+ I  +  R GD
Sbjct: 122 QEHHNAYLYEQFKDRIGEIMVGEVHHIRFKHVILLDDEGN-EYILPKDKQIPSDFFRKGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            V++ I  V  +   PQ+ +SR  P+F+ +L  +E+PEI +G + +K V R PG +AK+A
Sbjct: 181 NVRAVIESVDFKGSKPQITISRISPKFLERLLELEIPEIQDGTIILKKVVRIPGEKAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V + D  IDPVGACVG++GSR+  VV ELR+E ID++ WS +    V  AL    + K+ 
Sbjct: 241 VDAYDDRIDPVGACVGVKGSRIHGVVRELRNENIDVIQWSKNPEILVKRALGNVTINKID 300

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           ++ +  +  V  P E+++  IG++GQN++LAS L+ + ID+  E
Sbjct: 301 INAEESKALVYTPSEEIAKIIGKQGQNIKLASWLSDYEIDVYRE 344


>gi|84498575|ref|ZP_00997338.1| transcription elongation factor NusA [Janibacter sp. HTCC2649]
 gi|84381108|gb|EAP96993.1| transcription elongation factor NusA [Janibacter sp. HTCC2649]
          Length = 385

 Score =  211 bits (536), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 132/348 (37%), Positives = 201/348 (57%), Gaps = 29/348 (8%)

Query: 23  DRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           +RD+ L V+  +I++A    Y    G   + R E++ +TG ++++   E    VE     
Sbjct: 14  ERDISLDVLIPAIEQALLLAYQRTDGAYRNSRAELDRKTGHVTIWAREEFEVPVEEEPEA 73

Query: 79  ISLKVARDRD------PSIDIGGV----VSDPLP-------------PMDFGRVAVQSAK 115
            +     D        P+ +  G     V  P P             P DFGRVA  +A+
Sbjct: 74  PAETPTPDTASADVAAPATESAGATEERVERPAPRMRREYGPEFDDTPTDFGRVAAATAR 133

Query: 116 QVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRE 174
           QVI+Q++R+ E D    +FK + G+I++G +++  +  +V VD G  +G++   E +  E
Sbjct: 134 QVIVQRLRDIEDDAIMGDFKGREGDIVAGVIQQSPDPRHVTVDFGTVEGILPVAEQVPGE 193

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
               G R++ Y+  V+R  RGPQ+ LSRTHP  + KLF +EVPEI +G V++ A++R+ G
Sbjct: 194 KYVHGQRLRVYVVSVKRGLRGPQIGLSRTHPNLVRKLFALEVPEIADGSVEIAALARESG 253

Query: 235 SRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA 294
            R K+AV +  + ++  GAC+G  G+RV+AV+ EL  EKIDIV +S D A+F+ +AL P+
Sbjct: 254 HRTKIAVHTKVAGLNAKGACIGPMGARVRAVMAELHGEKIDIVDFSEDPASFIASALSPS 313

Query: 295 IVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            V  V ++D  +    VIVP  QLSLAIGR GQN RLA++LTGW IDI
Sbjct: 314 RVQSVEIVDWQLRAARVIVPDYQLSLAIGREGQNARLAAKLTGWRIDI 361


>gi|333024104|ref|ZP_08452168.1| putative transcription termination factor NusA [Streptomyces sp.
           Tu6071]
 gi|332743956|gb|EGJ74397.1| putative transcription termination factor NusA [Streptomyces sp.
           Tu6071]
          Length = 369

 Score =  210 bits (535), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 113/248 (45%), Positives = 162/248 (65%), Gaps = 2/248 (0%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNS 161
           P DFGR+A  +AKQVI+Q++R+A+ D    E+  + G+I++G V++  +  NV+VD+G  
Sbjct: 82  PSDFGRIAATTAKQVILQRLRDAQDDATLGEYAGREGDIVTGVVQQGRDPKNVLVDIGKL 141

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           + ++   E +  E    G R++SY+  V +  RGP V LSRTHP  + KLF +EVPEI +
Sbjct: 142 EAILPVQEQVPGEEYTHGLRLRSYVVRVAKGMRGPSVTLSRTHPNLVKKLFSLEVPEIAD 201

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           G V++ A++R+ G R K+AV S+ S ++  GAC+G  G RV+ V+ EL  EKIDIV WS 
Sbjct: 202 GSVEIAAIAREAGHRTKIAVRSNRSGLNAKGACIGPMGGRVRNVMAELNGEKIDIVDWSD 261

Query: 282 DSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           + A  V +AL PA V+ V V+D       V VP  QLSLAIG+ GQN RLA++LTGW ID
Sbjct: 262 NPADLVAHALSPARVSHVEVVDLATRSARVTVPDYQLSLAIGKEGQNARLAARLTGWRID 321

Query: 341 IITEEEDS 348
           I  + E +
Sbjct: 322 IRPDTETT 329


>gi|75908091|ref|YP_322387.1| transcription elongation factor NusA [Anabaena variabilis ATCC
           29413]
 gi|75701816|gb|ABA21492.1| NusA antitermination factor [Anabaena variabilis ATCC 29413]
          Length = 425

 Score =  210 bits (534), Expect = 5e-52,   Method: Compositional matrix adjust.
 Identities = 128/299 (42%), Positives = 182/299 (60%), Gaps = 20/299 (6%)

Query: 63  FRLLE---VVEEVENYTCQISLKVARDRDPSIDIG-GVVSDPLPPM-DFGRVAVQSAKQV 117
           FR+L    +VEEV N   QISL   +   P   +G  VV D  P   +FGR+A    KQV
Sbjct: 72  FRVLSTKSIVEEVNNSDHQISLDEVQQVAPEAQLGDSVVLDVTPDQGEFGRMAAMQTKQV 131

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV------IRRDETI 171
           + QK+R+ +R     EF+D    ++   V R E  +VI+ + ++ G       + + E +
Sbjct: 132 LAQKLRDQQRQMVQEEFQDLESTVLQARVLRFERQSVILAVSSTFGQPEVEAELPKREQL 191

Query: 172 SRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVS 230
             +N R     K Y+  V + +QRGPQ+L+SR     +V LF  EVPEI + +V++ AV+
Sbjct: 192 PNDNYRANATFKVYLKKVSQGQQRGPQLLVSRADAGLVVYLFANEVPEIEDEVVRIVAVA 251

Query: 231 RDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDS 283
           R+        G R K+AV + D  +DPVGAC+G RGSR+Q VV ELR EKID++ WSPD 
Sbjct: 252 REANPPSRYVGPRTKIAVDTLDRDVDPVGACIGARGSRIQVVVNELRGEKIDVIRWSPDP 311

Query: 284 ATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           AT++ NAL PA V +V ++D +  +  V+V ++QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 312 ATYIANALSPARVDEVRLMDPETRQTHVLVAEDQLSLAIGKEGQNVRLAARLTGWKIDI 370


>gi|295836231|ref|ZP_06823164.1| transcription termination factor NusA [Streptomyces sp. SPB74]
 gi|295825916|gb|EFG64550.1| transcription termination factor NusA [Streptomyces sp. SPB74]
          Length = 365

 Score =  210 bits (534), Expect = 5e-52,   Method: Compositional matrix adjust.
 Identities = 113/246 (45%), Positives = 161/246 (65%), Gaps = 2/246 (0%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNS 161
           P DFGR+A  +AKQVI+Q++R+A+ D    E+  + G+I++G V++  +  NV+VD+G  
Sbjct: 82  PSDFGRIAATTAKQVILQRLRDAQDDATLGEYAGREGDIVTGVVQQGRDPKNVLVDIGKL 141

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           + ++   E +  E    G R++SY+  V +  RGP V LSRTHP  + KLF +EVPEI +
Sbjct: 142 EAILPVQEQVPGEEYTHGLRLRSYVVRVAKGMRGPSVTLSRTHPNLVKKLFSLEVPEIAD 201

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           G V++ A++R+ G R K+AV S+ S ++  GAC+G  G RV+ V+ EL  EKIDIV WS 
Sbjct: 202 GSVEIAAIAREAGHRTKIAVRSNRSGLNAKGACIGPMGGRVRNVMAELNGEKIDIVDWSD 261

Query: 282 DSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           + A  V +AL PA V+ V V+D       V VP  QLSLAIG+ GQN RLA++LTGW ID
Sbjct: 262 NPAELVAHALSPARVSHVEVVDLATRSARVTVPDYQLSLAIGKEGQNARLAARLTGWRID 321

Query: 341 IITEEE 346
           I  + E
Sbjct: 322 IRPDTE 327


>gi|331703354|ref|YP_004400041.1| transcriptional terminator [Mycoplasma mycoides subsp. capri LC
           str. 95010]
 gi|328801909|emb|CBW54062.1| Transcriptional terminator [Mycoplasma mycoides subsp. capri LC
           str. 95010]
          Length = 584

 Score =  210 bits (534), Expect = 5e-52,   Method: Compositional matrix adjust.
 Identities = 118/344 (34%), Positives = 206/344 (59%), Gaps = 8/344 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  ELL+    +  EK I ++ +++ + + +QKA    Y T + I+++IN  TG I++ +
Sbjct: 3   NGTELLESIKLIEKEKGISKESIINGLKEGLQKAYERFYDTDAIIKIDINENTGLITMHQ 62

Query: 65  LLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLP-PMDFGRVAVQSAKQVIIQK 121
            L+VV  E++++   +I+L  A+ ++P I IG  +  P+    +F R+ V   +Q+  QK
Sbjct: 63  ELKVVDDEQLDDDWLEITLSKAKLKNPDIQIGDTIYKPIEFSEEFSRMVVNQVRQIFQQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +REAER R Y +F    GE++   V  +    N ++D+  +   + + +TI+ E  +  +
Sbjct: 123 IREAERARIYEQFVSLEGEVVQAKVVGMNRENNYVLDINGTTAYLWKSKTINNEIFQINE 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +  YI  V +E +  Q+ +SRT P F+ KL   EVPE+  GIV++KAVSR+PG R+K+A
Sbjct: 183 IIDVYIEVVEKESKLSQISISRTAPNFLTKLIEREVPEVRMGIVEIKAVSREPGKRSKVA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V + +++++P+GA +G+ G+R+  +   L+ EKIDI+ W  D  T++INA+ P    KV+
Sbjct: 243 VITHNNNVEPIGAIIGVGGNRINRISDILKGEKIDIIRWDEDQITYLINAMTPV---KVI 299

Query: 301 LDEDVG-RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
               +G   +++VP  QLSLAIG++G   +L + L    I+I +
Sbjct: 300 SINKIGDEYDIVVPDSQLSLAIGKQGVAAKLIASLLKTKINIFS 343


>gi|311898673|dbj|BAJ31081.1| putative transcription elongation protein NusA [Kitasatospora setae
           KM-6054]
          Length = 333

 Score =  210 bits (534), Expect = 5e-52,   Method: Compositional matrix adjust.
 Identities = 133/333 (39%), Positives = 196/333 (58%), Gaps = 27/333 (8%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK +  D+++  +  ++  A     G+    RVE+N +TG ++++ L +  E  E     
Sbjct: 14  EKGVPFDLLVESIESALLIAYHRTEGSRRRARVELNRKTGHVTVWALEDASELDEGVE-- 71

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
                 ++ D +            P  FGR+A  +AKQVI+Q++R+A  D+ + E+  K 
Sbjct: 72  -----PKEFDDT------------PSGFGRIAASTAKQVILQRLRDAADDQTFGEYAGKE 114

Query: 139 GEIISGTVKRVEYGN----VIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           G+I++G V++   GN    V+VD+G  + ++   E +  E+ R G R+K Y+  VRR  R
Sbjct: 115 GDIVTGVVQQ---GNDPKSVLVDIGKLEAILPPQEQVPGEDYRHGTRLKCYVVGVRRGVR 171

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           GP V LSRTHP  + +LF +EVPEI +G V++ A++R+ G R K+AV+S    ++  GAC
Sbjct: 172 GPSVTLSRTHPSLVKRLFALEVPEIADGSVEIAAIAREAGHRTKIAVWSRRQGLNAKGAC 231

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVP 313
           +G  G RV+ V+ EL  EKIDIV WS D A  V  AL PA VTKV ++D       VIVP
Sbjct: 232 IGPNGMRVRGVMAELHGEKIDIVDWSEDPAEMVAAALSPARVTKVEIVDLAQRSARVIVP 291

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             QLSLAIG+ GQN RLA++LTGW IDI  + E
Sbjct: 292 DYQLSLAIGKEGQNARLAARLTGWRIDIRPDTE 324


>gi|229815167|ref|ZP_04445504.1| hypothetical protein COLINT_02213 [Collinsella intestinalis DSM
           13280]
 gi|229809397|gb|EEP45162.1| hypothetical protein COLINT_02213 [Collinsella intestinalis DSM
           13280]
          Length = 426

 Score =  210 bits (534), Expect = 6e-52,   Method: Compositional matrix adjust.
 Identities = 135/356 (37%), Positives = 200/356 (56%), Gaps = 54/356 (15%)

Query: 19  EKSIDR----DVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV---VEE 71
           EK ID+    D + + +A++  +  +  +G     +V I+  TG I ++RL  +   ++E
Sbjct: 18  EKHIDQLYLLDRLEAALAETYARVLKLDWGA----KVTIDRTTGKIYVYRLEPIDDSMDE 73

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
             N+T    + V                   P D  R+A Q+AK  I   VR A R++ Y
Sbjct: 74  EGNFTEYEEIDVT------------------PKDVSRLAAQTAKAEINAIVRNAAREQIY 115

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV-------------IRRDETISRENLRP 178
            EF  +VG++I+GTV +      IV +   +GV               R+E  + E    
Sbjct: 116 EEFSGRVGDLINGTVLQSTPDFTIVKI--REGVEAELPHFDQRRYPDERNERPAGERYLH 173

Query: 179 GDRVKSYIYDVRR----------EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKA 228
              +K+ I DVR           E   P +++SRTH + M +LF  EVPE+Y G V++K+
Sbjct: 174 NQHLKAVIIDVRDPNSTLPPVRGEHSRPPIVISRTHSELMRRLFEQEVPEVYEGTVELKS 233

Query: 229 VSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVI 288
           ++R+PG R+K+AV S D  +DPVGACVG +GSRV+AVV ELR E++D+++W  D A +V 
Sbjct: 234 IAREPGQRSKVAVHSLDDRLDPVGACVGPKGSRVRAVVGELRGERVDVILWDEDPAVYVA 293

Query: 289 NALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           NAL PA VT+V++D +     VIVP +QLSLAIG+ GQN RLA++LTGW IDI +E
Sbjct: 294 NALSPAKVTRVLIDPEKNYAGVIVPDDQLSLAIGKEGQNARLAARLTGWHIDIKSE 349


>gi|186685820|ref|YP_001869016.1| transcription elongation factor NusA [Nostoc punctiforme PCC 73102]
 gi|186468272|gb|ACC84073.1| NusA antitermination factor [Nostoc punctiforme PCC 73102]
          Length = 425

 Score =  210 bits (534), Expect = 6e-52,   Method: Compositional matrix adjust.
 Identities = 128/299 (42%), Positives = 182/299 (60%), Gaps = 20/299 (6%)

Query: 63  FRLLE---VVEEVENYTCQISLKVARDRDPSIDIG-GVVSDPLPPM-DFGRVAVQSAKQV 117
           FR+L    +VEEV N   QISL   +   P   +G  VV D  P   +FGR+A    KQV
Sbjct: 72  FRVLSTKTIVEEVNNTDHQISLDEVQQVAPEAQLGDSVVLDVTPDQGEFGRMAAMQTKQV 131

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV------IRRDETI 171
           + QK+R+ +R     EF+D  G ++   V R E  +V++ + +  G       + + E +
Sbjct: 132 LAQKLRDQQRQMVQEEFQDLEGTVLQARVLRFERQSVVLAVSSGFGQPEVEAELPKREQL 191

Query: 172 SRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVS 230
             +N R     K Y+  V + +QRGPQ+L+SR     +V LF  EVPEI + +V++ AV+
Sbjct: 192 PNDNYRANATFKVYLKKVSQGQQRGPQLLVSRADAGLVVYLFANEVPEIEDEVVRIVAVA 251

Query: 231 RDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDS 283
           R+        G R K+AV + D  +DPVGAC+G RGSR+Q VV ELR EKID++ WSPD 
Sbjct: 252 REANPPSRYVGPRTKIAVDTLDRDVDPVGACIGARGSRIQVVVNELRGEKIDVIRWSPDP 311

Query: 284 ATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           AT++ NAL PA V +V ++D +  +  V+V ++QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 312 ATYIANALSPARVDEVRLMDPESRQTHVLVAEDQLSLAIGKEGQNVRLAARLTGWKIDI 370


>gi|302522224|ref|ZP_07274566.1| transcription termination factor NusA [Streptomyces sp. SPB78]
 gi|302431119|gb|EFL02935.1| transcription termination factor NusA [Streptomyces sp. SPB78]
          Length = 371

 Score =  210 bits (534), Expect = 6e-52,   Method: Compositional matrix adjust.
 Identities = 113/248 (45%), Positives = 162/248 (65%), Gaps = 2/248 (0%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNS 161
           P DFGR+A  +AKQVI+Q++R+A+ D    E+  + G+I++G V++  +  NV+VD+G  
Sbjct: 82  PSDFGRIAATTAKQVILQRLRDAQDDATLGEYAGREGDIVTGVVQQGRDPKNVLVDIGKL 141

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           + ++   E +  E    G R++SY+  V +  RGP V LSRTHP  + KLF +EVPEI +
Sbjct: 142 EAILPVQEQVPGEEYTHGLRLRSYVVRVAKGMRGPSVTLSRTHPNLVKKLFSLEVPEIAD 201

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           G V++ A++R+ G R K+AV S+ S ++  GAC+G  G RV+ V+ EL  EKIDIV WS 
Sbjct: 202 GSVEIAAIAREAGHRTKIAVRSNRSGLNAKGACIGPMGGRVRNVMAELNGEKIDIVDWSD 261

Query: 282 DSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           + A  V +AL PA V+ V V+D       V VP  QLSLAIG+ GQN RLA++LTGW ID
Sbjct: 262 NPADLVAHALSPARVSHVEVVDLATRSARVTVPDYQLSLAIGKEGQNARLAARLTGWRID 321

Query: 341 IITEEEDS 348
           I  + E +
Sbjct: 322 IRPDTETT 329


>gi|239917227|ref|YP_002956785.1| transcription termination factor NusA [Micrococcus luteus NCTC
           2665]
 gi|239838434|gb|ACS30231.1| transcription termination factor NusA [Micrococcus luteus NCTC
           2665]
          Length = 328

 Score =  209 bits (533), Expect = 6e-52,   Method: Compositional matrix adjust.
 Identities = 109/242 (45%), Positives = 159/242 (65%), Gaps = 2/242 (0%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNS 161
           P  FGRVA  +A+QV+IQ++RE + D+   EFKDK GE++SG +++ +    V V+LG  
Sbjct: 76  PNGFGRVAASTARQVMIQRMREEDDDKVLGEFKDKEGELVSGVIQQGLNRHMVQVNLGTL 135

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           + V+   E +  E+   G R+++Y+    R  +GP V +SR+HP  + KLF +EVPEI +
Sbjct: 136 EAVLPPPEQVPGEDYAHGRRIRAYVVSATRGAKGPSVTVSRSHPGLVRKLFELEVPEIAD 195

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           G V++ A++R+ G R K+AV ++   ++  GA +G  GSRV+AV+TEL DEKIDI+    
Sbjct: 196 GSVEITALAREAGHRTKMAVRATRPGVNAKGASIGEMGSRVRAVMTELNDEKIDIIDHVD 255

Query: 282 DSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D A  + NAL PA    V +LD D      +VP+ QLSLAIG+ GQN RLA++LTGW ID
Sbjct: 256 DPAAMIANALSPATTVSVEILDADQHSARAVVPQYQLSLAIGKEGQNARLAAKLTGWRID 315

Query: 341 II 342
           I+
Sbjct: 316 IV 317


>gi|257068213|ref|YP_003154468.1| transcription termination factor NusA [Brachybacterium faecium DSM
           4810]
 gi|256559031|gb|ACU84878.1| transcription termination factor NusA [Brachybacterium faecium DSM
           4810]
          Length = 328

 Score =  209 bits (533), Expect = 6e-52,   Method: Compositional matrix adjust.
 Identities = 122/327 (37%), Positives = 200/327 (61%), Gaps = 32/327 (9%)

Query: 23  DRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           +RD+ L V+ D+I+ A  + Y      + D  V I+  TG++++                
Sbjct: 14  ERDIRLPVLLDAIRSALHAAYLHTDHPVRDSEVLIDESTGEVAV---------------- 57

Query: 79  ISLKVARDRDPSIDIGGVVSDPL--PPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
               +AR+RD      GVV +     P +FGRVA  +A+QVI Q++R+ E +    E+ D
Sbjct: 58  ----IARERDAD----GVVVEEWDDTPENFGRVAASTARQVIFQRIRDLEDEAVLGEYAD 109

Query: 137 KVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           +  +I+SG +++  +   V+VDLG  + V+   E +  E+   G R+++Y+ + RR  +G
Sbjct: 110 RADDIVSGIIQQGRDPRMVLVDLGEVEAVLPPHERVPGEDYSHGRRLRAYVTEARRGPKG 169

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           PQ+ LSR+HP  + +LF +EVPE+ +G V++  ++R+ G R K++V ++   ++  G+C+
Sbjct: 170 PQITLSRSHPNLVRRLFDLEVPEVADGTVEITGLAREAGHRTKMSVRATVPGVNAKGSCI 229

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR-IEVIVPK 314
           G  G+RV++V+ EL  EKIDIV +  D AT+V NAL P+ V+ V + ++VGR +  +VP+
Sbjct: 230 GPMGARVRSVMNELGGEKIDIVDFDEDPATYVANALSPSKVSSVTVIDEVGRAVRAVVPE 289

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDI 341
            QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 290 TQLSLAIGKDGQNARLAAKLTGWKIDI 316


>gi|126657165|ref|ZP_01728331.1| transcription elongation factor NusA [Cyanothece sp. CCY0110]
 gi|126621436|gb|EAZ92147.1| transcription elongation factor NusA [Cyanothece sp. CCY0110]
          Length = 432

 Score =  209 bits (533), Expect = 7e-52,   Method: Compositional matrix adjust.
 Identities = 130/313 (41%), Positives = 186/313 (59%), Gaps = 17/313 (5%)

Query: 46  MSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGG-VVSDPLPPM 104
             +  VE++ E     +     +VEEVEN    ISL+  ++      +G  VV D  P  
Sbjct: 58  FDNFEVELDTEEEGFRILSTKRIVEEVENTDHHISLQEVQEVASEAQLGDEVVLDVTPEQ 117

Query: 105 -DFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG 163
            DFGR+A    KQV++QK+R+ +R     EF +  G +++  V R E  ++IV + ++ G
Sbjct: 118 KDFGRMAAIQTKQVLLQKLRDQQRKLIQEEFHELEGTVLNARVLRFERQDIIVAVQSTFG 177

Query: 164 ------VIRRDETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEV 216
                 ++ R E +  +N R     K  +  VR    RGPQ+L+SR     +V +F +EV
Sbjct: 178 QPEVEAILPRREQLPNDNYRANASFKVLLKKVREGSHRGPQLLVSRGAAGLVVDMFSVEV 237

Query: 217 PEIYNGIVQVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTEL 269
           PEI   IV++ AVSR+        G R K+AV + +  +DPVGAC+G RGSR+QAVV EL
Sbjct: 238 PEIEEDIVRIVAVSREANPPSRYVGPRTKIAVDTLERDVDPVGACIGARGSRIQAVVNEL 297

Query: 270 RDEKIDIVVWSPDSATFVINALRPAIVTKVV-LDEDVGRIEVIVPKEQLSLAIGRRGQNV 328
           R EKID++ WSPD AT++ NAL PA V +VV L+ +     V+V ++QLSLAIG+ GQNV
Sbjct: 298 RGEKIDVIRWSPDPATYIANALSPARVDEVVLLNAEERHALVLVAEDQLSLAIGKEGQNV 357

Query: 329 RLASQLTGWTIDI 341
           RLA++LTGW IDI
Sbjct: 358 RLAARLTGWKIDI 370


>gi|281414299|ref|ZP_06246041.1| transcription termination factor NusA [Micrococcus luteus NCTC
           2665]
 gi|289705159|ref|ZP_06501562.1| transcription termination factor NusA [Micrococcus luteus SK58]
 gi|289558103|gb|EFD51391.1| transcription termination factor NusA [Micrococcus luteus SK58]
          Length = 328

 Score =  209 bits (533), Expect = 7e-52,   Method: Compositional matrix adjust.
 Identities = 124/326 (38%), Positives = 188/326 (57%), Gaps = 24/326 (7%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           E+ I  D ++  +  ++  A     G +   RVEI+  TG ++++       E++     
Sbjct: 14  EREIPMDRLIPTIEQALLMAYHRTPGALKRARVEIDRATGHVTVW-----ATELDEDDTP 68

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           I               G   D   P  FGRVA  +A+QV+IQ++RE + D+   EFKDK 
Sbjct: 69  I---------------GEFDDT--PNGFGRVAASTARQVMIQRMREEDDDKVLGEFKDKE 111

Query: 139 GEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
           GE++SG +++ +    V V+LG  + V+   E +  E+   G R+++Y+    R  +GP 
Sbjct: 112 GELVSGVIQQGLNRHMVQVNLGTLEAVLPPPEQVPGEDYAHGRRIRAYVVSATRGAKGPS 171

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           V +SR+HP  + KLF +EVPEI +G V++ A++R+ G R K+AV ++   ++  GA +G 
Sbjct: 172 VTVSRSHPGLVRKLFELEVPEIADGSVEITALAREAGHRTKMAVRATRPGVNAKGASIGE 231

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQ 316
            GSRV+AV+TEL DEKIDI+    D A  + NAL PA    V +LD D      +VP+ Q
Sbjct: 232 MGSRVRAVMTELNDEKIDIIDHVDDPAAMIANALSPATTVSVEILDADQHSARAVVPQYQ 291

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDII 342
           LSLAIG+ GQN RLA++LTGW IDI+
Sbjct: 292 LSLAIGKEGQNARLAAKLTGWRIDIV 317


>gi|171741240|ref|ZP_02917047.1| hypothetical protein BIFDEN_00314 [Bifidobacterium dentium ATCC
           27678]
 gi|283455398|ref|YP_003359962.1| N utilization substance protein A [Bifidobacterium dentium Bd1]
 gi|171276854|gb|EDT44515.1| hypothetical protein BIFDEN_00314 [Bifidobacterium dentium ATCC
           27678]
 gi|283102032|gb|ADB09138.1| nusA N utilization substance protein A [Bifidobacterium dentium
           Bd1]
          Length = 346

 Score =  209 bits (533), Expect = 7e-52,   Method: Compositional matrix adjust.
 Identities = 120/348 (34%), Positives = 200/348 (57%), Gaps = 15/348 (4%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           +A  + ID + + + ++++++ A           R+E++P  G  +++   E+  E    
Sbjct: 11  LAAGQGIDPETLDAALSEALRLAYLKTPHAAKHARIELDPRAGSFTVWAQDEIPGE---- 66

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
                     D  P+  +G    D   P DFGR+A  +A+QVI Q  R+AE D+ +  F 
Sbjct: 67  ------PTEEDPHPAPTLGEEYDDT--PHDFGRLAAATARQVISQLFRKAEDDKVFGAFS 118

Query: 136 DKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
            + G++I+G V++   +  NV V +G+ + ++ R E +  E  R G+R++ Y+ +V R  
Sbjct: 119 GQKGKLITGIVQQDAKDTANVHVAVGDVEALLPRREQVPGERYRHGERIRVYVVNVARGL 178

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
           +GP++++SR+HP+ + +LF  EVPE+ +G V + A++R+ G+R K+AV ++   ++P GA
Sbjct: 179 KGPEIVVSRSHPELVRRLFEREVPELVSGAVSIMAIAREAGARTKIAVRANTEGVNPKGA 238

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIV 312
            +G  G+RV+AV+  L  EKIDIV WS D A FV  AL PA+ T V V+ E        +
Sbjct: 239 LIGPGGARVRAVMENLGPEKIDIVDWSADPAKFVAAALSPAVATGVQVISEKNNTAIAFI 298

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
             +QLSLAIG+ GQN RLA++LTGW I I + E  +   Q+   E  +
Sbjct: 299 HDDQLSLAIGKEGQNARLAAKLTGWKIGIESAEAHAKKMQESAGESAE 346


>gi|256384305|gb|ACU78875.1| transcription elongation factor NusA [Mycoplasma mycoides subsp.
           capri str. GM12]
 gi|256385138|gb|ACU79707.1| transcription elongation factor NusA [Mycoplasma mycoides subsp.
           capri str. GM12]
 gi|296455871|gb|ADH22106.1| transcription elongation factor NusA [synthetic Mycoplasma mycoides
           JCVI-syn1.0]
          Length = 584

 Score =  209 bits (533), Expect = 7e-52,   Method: Compositional matrix adjust.
 Identities = 118/344 (34%), Positives = 206/344 (59%), Gaps = 8/344 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  ELL+    +  EK I ++ +++ + + +QKA    Y T + I+++IN  TG I++ +
Sbjct: 3   NGTELLESIKLIEKEKGISKESIINGLKEGLQKAYERFYDTDAIIKIDINENTGLITMHQ 62

Query: 65  LLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLP-PMDFGRVAVQSAKQVIIQK 121
            L+VV  E++++   +I+L  A+ ++P I IG  +  P+    +F R+ V   +Q+  QK
Sbjct: 63  ELKVVDDEQLDDDWLEITLSKAKLKNPDIQIGDTIYKPIEFSEEFSRMVVNQVRQIFQQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +REAER R Y +F    GE++   V  +    N ++D+  +   + + +TI+ E  +  +
Sbjct: 123 IREAERARIYEQFVSLEGEVVQAKVVGMNRENNYVLDINGTTAYLWKSKTINNEIFQINE 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +  YI  V +E +  Q+ +SRT P F+ KL   EVPE+  GIV++KAVSR+PG R+K+A
Sbjct: 183 IIDVYIEVVEKESKLSQISISRTAPNFLTKLIEREVPEVRMGIVEIKAVSREPGKRSKVA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V + +++++P+GA +G+ G+R+  +   L+ EKIDI+ W  D  T++INA+ P    KV+
Sbjct: 243 VITHNNNVEPIGAIIGVGGNRINRISDILKGEKIDIIRWDEDQITYLINAMTPV---KVI 299

Query: 301 LDEDVG-RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
               +G   +++VP  QLSLAIG++G   +L + L    I+I +
Sbjct: 300 SINKIGDEYDIVVPDTQLSLAIGKQGVAAKLIASLLKTKINIFS 343


>gi|296129355|ref|YP_003636605.1| transcription termination factor NusA [Cellulomonas flavigena DSM
           20109]
 gi|296021170|gb|ADG74406.1| transcription termination factor NusA [Cellulomonas flavigena DSM
           20109]
          Length = 364

 Score =  209 bits (533), Expect = 8e-52,   Method: Compositional matrix adjust.
 Identities = 130/347 (37%), Positives = 201/347 (57%), Gaps = 41/347 (11%)

Query: 23  DRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           +R++ L V+ ++I++A  S Y    G  S  RVE++  TG ++++               
Sbjct: 14  EREISLDVLVEAIEQALLSAYHRTPGARSRARVELDRRTGHVTVW--------------- 58

Query: 79  ISLKVARDRDPSIDIGGVVSD-------PLP--------PMDFGRVAVQSAKQVIIQKVR 123
                ARD  P      V  D       P P        P  FGR+A  +A+QVI+Q++R
Sbjct: 59  -----ARDPAPEAPAPEVAEDGTVVAVAPAPEMPEYDDTPEGFGRIATATARQVIVQRLR 113

Query: 124 EAERDRQYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           +AE D+    F+ K GE++ G +++  +   V+VD+G  + V+   E +  E    G+R+
Sbjct: 114 DAEDDQVLGTFRSKAGEVLGGVIQQGRDPRTVLVDVGGVEAVLPAHEQVPGERYVHGERL 173

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++++ +V R QRGPQ+ LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV 
Sbjct: 174 RAFVLEVARGQRGPQITLSRTHPNLVRKLFALEVPEIADGTVEITAMAREAGHRTKMAVR 233

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA-IVTKVVL 301
           ++ + ++  GAC+G  G RV+AV+ EL  EKIDIV  S D A  + +AL PA ++   V+
Sbjct: 234 ANVAGVNAKGACIGPMGGRVRAVMAELHGEKIDIVDHSDDPAEMIAHALSPARVLDVRVV 293

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           D       V+VP  QLSLAIG+ GQN RLA++LTGW IDI ++ E +
Sbjct: 294 DAAARAARVVVPDYQLSLAIGKEGQNARLAAKLTGWRIDIRSDAEPA 340


>gi|307331528|ref|ZP_07610641.1| transcription termination factor NusA [Streptomyces violaceusniger
           Tu 4113]
 gi|306882845|gb|EFN13918.1| transcription termination factor NusA [Streptomyces violaceusniger
           Tu 4113]
          Length = 330

 Score =  209 bits (532), Expect = 9e-52,   Method: Compositional matrix adjust.
 Identities = 130/330 (39%), Positives = 199/330 (60%), Gaps = 21/330 (6%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I  D+++  +  ++  A     G+    RVE+N +TG ++++   E  E++E     
Sbjct: 14  EKEISFDLLVEAIESALLIAYHRTDGSRRRARVELNRDTGHVTVW-AREDAEDLEEG--- 69

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
              +  R+ D +            P  FGR+A  +AKQVI+Q++R+AE +  + E+  + 
Sbjct: 70  ---QEPREFDDT------------PSGFGRIAATTAKQVILQRLRDAEEEITFGEYAGRE 114

Query: 139 GEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
           G++++G V++  +  NV+VD+G  + ++   E +  E+   G R+++Y+  V +  RGP 
Sbjct: 115 GDVVAGVVQQGKDPKNVLVDIGRLEAILPVQEQVPGEDYAHGTRLRTYVVRVVKGVRGPS 174

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S ++  GAC+G 
Sbjct: 175 VTLSRTHPNLVKKLFALEVPEIADGSVEIAAIAREAGHRTKIAVRSTRSGLNAKGACIGP 234

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQ 316
            G RV++V+ EL  EKIDIV WS D A  V NAL PA V+KV V+D       V VP  Q
Sbjct: 235 MGGRVRSVMAELHGEKIDIVDWSDDPADLVANALSPARVSKVEVVDLAARSARVTVPDYQ 294

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           LSLAIG+ GQN RLA++LTGW IDI  + E
Sbjct: 295 LSLAIGKEGQNARLAARLTGWRIDIRPDTE 324


>gi|306823536|ref|ZP_07456911.1| transcription termination factor NusA [Bifidobacterium dentium ATCC
           27679]
 gi|309802869|ref|ZP_07696970.1| transcription termination factor NusA [Bifidobacterium dentium
           JCVIHMP022]
 gi|304553243|gb|EFM41155.1| transcription termination factor NusA [Bifidobacterium dentium ATCC
           27679]
 gi|308220336|gb|EFO76647.1| transcription termination factor NusA [Bifidobacterium dentium
           JCVIHMP022]
          Length = 346

 Score =  209 bits (532), Expect = 9e-52,   Method: Compositional matrix adjust.
 Identities = 120/348 (34%), Positives = 200/348 (57%), Gaps = 15/348 (4%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           +A  + ID + + + ++++++ A           R+E++P  G  +++   E+  E    
Sbjct: 11  LAAGQGIDPETLDAALSEALRLAYLKTPHAAKHARIELDPRAGSFTVWAQDEIPGE---- 66

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
                     D  P+  +G    D   P DFGR+A  +A+QVI Q  R+AE D+ +  F 
Sbjct: 67  ------PTEEDPHPAPTLGEEYDDT--PHDFGRLAAATARQVISQLFRKAEDDKVFGAFS 118

Query: 136 DKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
            + G++I+G V++   +  NV V +G+ + ++ R E +  E  R G+R++ Y+ +V R  
Sbjct: 119 GQKGKLITGIVQQDAKDTANVHVAVGDVEALLPRREQVPGERYRHGERIRVYVVNVARGL 178

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
           +GP++++SR+HP+ + +LF  EVPE+ +G V + A++R+ G+R K+AV ++   ++P GA
Sbjct: 179 KGPEIVVSRSHPELVRRLFEREVPELVSGAVSIMAIAREAGARTKIAVRANTEGVNPKGA 238

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIV 312
            +G  G+RV+AV+  L  EKIDIV WS D A FV  AL PA+ T V V+ E        +
Sbjct: 239 LIGPGGARVRAVMENLGPEKIDIVDWSADPAKFVAAALSPAVATGVQVISEKNNTAIAFI 298

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
             +QLSLAIG+ GQN RLA++LTGW I I + E  +   Q+   E  +
Sbjct: 299 HDDQLSLAIGKEGQNARLAAKLTGWKIGIESAEAHARKMQESAGESAE 346


>gi|119511041|ref|ZP_01630161.1| transcription elongation factor NusA [Nodularia spumigena CCY9414]
 gi|119464292|gb|EAW45209.1| transcription elongation factor NusA [Nodularia spumigena CCY9414]
          Length = 423

 Score =  209 bits (532), Expect = 9e-52,   Method: Compositional matrix adjust.
 Identities = 127/299 (42%), Positives = 183/299 (61%), Gaps = 20/299 (6%)

Query: 63  FRLLE---VVEEVENYTCQISLKVARDRDPSIDIG-GVVSDPLPPM-DFGRVAVQSAKQV 117
           FR+L    +VE V+N   QISL+  +   P   +G  VV D  P   +FGR+A    KQV
Sbjct: 70  FRVLSTKSIVEAVDNTDHQISLEEVQQVAPEAQLGDSVVLDVTPDQGEFGRMAAMQTKQV 129

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV------IRRDETI 171
           + QK+R+ +R     EF+D  G ++   V R E  +VI+ + +  G       + + E +
Sbjct: 130 LAQKLRDQQRQMVQEEFQDLEGTVLQARVLRFERQSVILAVASGFGQPEVEAELPKREQL 189

Query: 172 SRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVS 230
             +N R     K Y+  V + +QRGPQ+L+SR     +V LF  EVPEI + +V++ AV+
Sbjct: 190 PNDNYRANATFKVYLKKVSQGQQRGPQLLVSRADAGLVVYLFANEVPEIEDEVVRIVAVA 249

Query: 231 RDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDS 283
           R+        G R K+AV + D  +DPVGAC+G RGSR+Q VV ELR EKID++ WSPD 
Sbjct: 250 REANPPSRYVGPRTKIAVDTLDRDVDPVGACIGARGSRIQVVVNELRGEKIDVIRWSPDP 309

Query: 284 ATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +T++ NAL PA V +V ++D +  +  V+V ++QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 310 STYIANALSPARVDEVRLMDPETRQTHVLVAEDQLSLAIGKEGQNVRLAARLTGWKIDI 368


>gi|297191724|ref|ZP_06909122.1| transcription elongation factor NusA [Streptomyces
           pristinaespiralis ATCC 25486]
 gi|197721420|gb|EDY65328.1| transcription elongation factor NusA [Streptomyces
           pristinaespiralis ATCC 25486]
          Length = 331

 Score =  209 bits (531), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 114/247 (46%), Positives = 162/247 (65%), Gaps = 3/247 (1%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNS 161
           P DFGR+A  +A+QVI Q++R+AE D  + E+  + G++++G V++  +  NV+V L + 
Sbjct: 79  PSDFGRIAATTARQVIQQRLRDAENDVTFGEYARREGDVVAGMVQQGKDPKNVLVKLDDK 138

Query: 162 -DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIY 220
            + ++   E +  E    G R+++Y+  V R  RGP V LSRTHP  + KLF +EVPEI 
Sbjct: 139 LEAILPVQEQVPGEEYTHGLRLRTYVVRVARGVRGPSVTLSRTHPNLVKKLFALEVPEIA 198

Query: 221 NGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
           +G V++ A++R+ G R K+AV S+ S ++P GAC+G  G RV+ V+ EL  EKIDIV WS
Sbjct: 199 DGSVEIAAIAREAGHRTKIAVRSTRSGLNPKGACIGPMGGRVRNVMAELHGEKIDIVDWS 258

Query: 281 PDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
            D A  V NAL PA V+KV ++D       V VP  QLSLAIG+ GQN RLA++LTGW I
Sbjct: 259 DDPAEMVANALSPARVSKVEIVDLGARSARVTVPDYQLSLAIGKEGQNARLAARLTGWRI 318

Query: 340 DIITEEE 346
           DI  + E
Sbjct: 319 DIRPDTE 325


>gi|301320952|gb|ADK69595.1| transcription termination factor NusA [Mycoplasma mycoides subsp.
           mycoides SC str. Gladysdale]
          Length = 584

 Score =  209 bits (531), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 117/344 (34%), Positives = 206/344 (59%), Gaps = 8/344 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  ELL+    +  EK I ++ +++ + + +QKA    Y T + I+++IN  TG I++ +
Sbjct: 3   NGTELLESIKLIEKEKGISKESIINGLKEGLQKAYERFYDTDAIIKIDINENTGLITMHQ 62

Query: 65  LLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLP-PMDFGRVAVQSAKQVIIQK 121
            L+VV  E++++   +I+L  A+ ++P I IG  +  P+    +F R+ V   +Q+  QK
Sbjct: 63  ELKVVDDEQLDDDWLEITLSKAKLKNPDIQIGDTIYKPIEFSEEFSRMVVNQVRQIFQQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +REAER R Y +F    GE++   +  +    N ++D+  +   + + +TI+ E  +  +
Sbjct: 123 IREAERARIYEQFVSLEGEVVQAKIVGMNRENNYVLDINGTTAYLWKSKTINNEIFQINE 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +  YI  V +E +  Q+ +SRT P F+ KL   EVPE+  GIV++KAVSR+PG R+K+A
Sbjct: 183 IIDVYIEVVEKESKLSQISISRTAPNFLTKLIEREVPEVRMGIVEIKAVSREPGKRSKVA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V + +++++P+GA +G+ G+R+  +   L+ EKIDI+ W  D  T++INA+ P    KV+
Sbjct: 243 VITHNNNVEPIGAIIGVGGNRINRISDILKGEKIDIIRWDEDQITYLINAMTPV---KVI 299

Query: 301 LDEDVG-RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
               +G   +++VP  QLSLAIG++G   +L + L    I+I +
Sbjct: 300 SINKIGDEYDIVVPDTQLSLAIGKQGVAAKLIASLLKTKINIFS 343


>gi|86605175|ref|YP_473938.1| transcription elongation factor NusA [Synechococcus sp. JA-3-3Ab]
 gi|86553717|gb|ABC98675.1| transcription termination factor NusA [Synechococcus sp. JA-3-3Ab]
          Length = 455

 Score =  209 bits (531), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 132/341 (38%), Positives = 194/341 (56%), Gaps = 30/341 (8%)

Query: 18  YEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTC 77
           Y K+I RDVV                    +  VE++ E G   +     +VEEV +   
Sbjct: 42  YRKTIQRDVVFE-------------EDHFRNFDVELDVEAGGFRILATKTIVEEVRDPDH 88

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
           +ISL   +   P  ++G  V++ + P   +FGR+A    KQV+ QK+R+ +R     EF+
Sbjct: 89  EISLYDVQQDYPEAEVGWEVTNDVTPQQAEFGRMAAIQTKQVLAQKLRDQQRRLIQEEFR 148

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGV------IRRDETISRENLRPGDRVKSYIYDV 189
           D    ++   V R E   VI+ + +  G       + + E ++ +   P   +K Y+  V
Sbjct: 149 DLENTVLQARVLRTERQTVIMAVSSGFGQPEVEAELPKKEQLASDRYTPNAVMKVYLKKV 208

Query: 190 RR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAV-------SRDPGSRAKLAV 241
               +RGPQ+L+SR     +V LF  EVPEI   IV++ AV       SR+ G R K+AV
Sbjct: 209 YEGSRRGPQLLVSRADAGLVVNLFANEVPEIEEDIVRIVAVAREANPPSRNVGPRTKIAV 268

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            + +  +DPVGAC+G RGSR+QAVV ELR+EKID++ WSPD AT++ NAL PA V +V +
Sbjct: 269 DTVERDVDPVGACIGARGSRIQAVVAELRNEKIDVIRWSPDPATYIANALSPAKVVEVRL 328

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +D ++ +  V+V  +QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 329 VDPEIQQAHVLVTSDQLSLAIGKEGQNVRLAARLTGWKIDI 369


>gi|297156812|gb|ADI06524.1| transcription elongation factor NusA [Streptomyces bingchenggensis
           BCW-1]
          Length = 330

 Score =  208 bits (529), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 129/330 (39%), Positives = 197/330 (59%), Gaps = 21/330 (6%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQ 78
           EK I  D+++  +  ++  A     G+    RVE++  TG ++++      E+ E+    
Sbjct: 14  EKEISFDLLVEAIESALLIAYHRTEGSRRRARVELDRATGHVTVW----AREDAEDLA-- 67

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
              +  R+ D +            P  FGR+A  +AKQVI+Q++R+AE +  + E+  + 
Sbjct: 68  -EGEEPREFDDT------------PSGFGRIAAMTAKQVILQRLRDAEEEITFGEYAGRE 114

Query: 139 GEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
           G++++G V++  +  NV+VD+G  + ++   E +  E+   G R++SY+  V +  RGP 
Sbjct: 115 GDVVTGVVQQGKDPKNVLVDIGRLEAILPVQEQVPGEDYAHGTRLRSYVVRVVKGVRGPS 174

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S ++  GAC+G 
Sbjct: 175 VTLSRTHPNLVKKLFALEVPEIADGSVEIAAIAREAGHRTKIAVRSTRSGLNAKGACIGP 234

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQ 316
            G RV++V+ EL  EKIDIV WS D A  V NAL PA V+KV V+D       V VP  Q
Sbjct: 235 MGGRVRSVMAELHGEKIDIVDWSDDPAELVANALSPARVSKVEVVDMGARSARVTVPDYQ 294

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           LSLAIG+ GQN RLA++LTGW IDI  + E
Sbjct: 295 LSLAIGKEGQNARLAARLTGWRIDIRPDTE 324


>gi|172036756|ref|YP_001803257.1| transcription elongation factor NusA [Cyanothece sp. ATCC 51142]
 gi|171698210|gb|ACB51191.1| transcription termination factor, N utilization substance protein
           [Cyanothece sp. ATCC 51142]
          Length = 428

 Score =  208 bits (529), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 129/311 (41%), Positives = 186/311 (59%), Gaps = 17/311 (5%)

Query: 48  DIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGG-VVSDPLPPM-D 105
           +  VE++ E     +     +VEEVEN    ISL+  ++      +G  VV D  P   D
Sbjct: 60  NFEVELDTEEEGFRILSTKRIVEEVENSDHHISLQEVQEVASEAQLGDEVVLDVTPEQKD 119

Query: 106 FGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-- 163
           FGR+A    KQV++QK+R+ +R     EF +  G +++  V R E  ++IV + ++ G  
Sbjct: 120 FGRMAAIQTKQVLLQKLRDQQRKLIQEEFHELEGTVLNARVLRFERQDIIVAVQSAFGQP 179

Query: 164 ----VIRRDETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPE 218
               ++ + E +  +N R     K  +  VR    RGPQ+L+SR     +V +F +EVPE
Sbjct: 180 EVEAILPKREQLPNDNYRANASFKVLLKKVREGSHRGPQLLVSRGAAGLVVDMFSVEVPE 239

Query: 219 IYNGIVQVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRD 271
           I   IV++ AVSR+        G R K+AV + +  +DPVGAC+G RGSR+QAVV ELR 
Sbjct: 240 IEEDIVRIVAVSREANPPSRYVGPRTKIAVDTLERDVDPVGACIGARGSRIQAVVNELRG 299

Query: 272 EKIDIVVWSPDSATFVINALRPAIVTKVV-LDEDVGRIEVIVPKEQLSLAIGRRGQNVRL 330
           EKID++ WSPD AT++ NAL PA V +VV L+ +     V+V ++QLSLAIG+ GQNVRL
Sbjct: 300 EKIDVIRWSPDPATYIANALSPARVDEVVLLNAEERHALVLVAEDQLSLAIGKEGQNVRL 359

Query: 331 ASQLTGWTIDI 341
           A++LTGW IDI
Sbjct: 360 AARLTGWKIDI 370


>gi|254422159|ref|ZP_05035877.1| transcription termination factor NusA [Synechococcus sp. PCC 7335]
 gi|196189648|gb|EDX84612.1| transcription termination factor NusA [Synechococcus sp. PCC 7335]
          Length = 517

 Score =  208 bits (529), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 131/300 (43%), Positives = 184/300 (61%), Gaps = 22/300 (7%)

Query: 63  FRLL---EVVEEVENYTCQISLKVARDRDPSIDIG-GVVSDPLPPM-DFGRVAVQSAKQV 117
           FR+L    +VE VEN   QI L   +   P    G  VV D  P   DFGR+A    KQV
Sbjct: 71  FRVLANKTIVEAVENSDHQIGLAEVQQVAPEALAGDTVVLDVTPEQNDFGRMAAIQTKQV 130

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-------VIRRDET 170
           + QK+R+ +R     EF+D  G I++  V R E  +VI+ + +  G       +++RD+ 
Sbjct: 131 LAQKLRDQQRRLIQEEFQDLEGSILNARVLRFERQSVIMAVSSGIGQPDTEAELLKRDQ- 189

Query: 171 ISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAV 229
           +  +N R     +  +  V     RGPQ+L+SR+    +V+LF  EVPEI + IV++ AV
Sbjct: 190 LPNDNYRANATFRVALKRVSEGSHRGPQLLVSRSDASLVVELFSNEVPEIEDEIVRIVAV 249

Query: 230 SRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPD 282
           +R+        G R K+AV +++S +DPVGAC+G RGSR+Q VV ELR EKID++ WSPD
Sbjct: 250 AREANPPSRSVGPRTKIAVDTAESDVDPVGACIGARGSRIQVVVNELRGEKIDVIRWSPD 309

Query: 283 SATFVINALRPAIVTKVVLDEDVGR-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            +T++ NAL PA V +V L +  GR   V+VP++QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 310 PSTYISNALSPARVDEVRLMDSEGRQAHVLVPEDQLSLAIGKEGQNVRLAARLTGWKIDI 369


>gi|319951028|ref|ZP_08024892.1| transcription elongation factor NusA [Dietzia cinnamea P4]
 gi|319435308|gb|EFV90564.1| transcription elongation factor NusA [Dietzia cinnamea P4]
          Length = 328

 Score =  208 bits (529), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 113/253 (44%), Positives = 160/253 (63%), Gaps = 9/253 (3%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN----VIVDL 158
           P DFGRVA  +A+Q+I+Q++REAE DR Y +   + GE++SG ++     N    V+V +
Sbjct: 76  PSDFGRVAAATARQIILQRLREAETDRIYGDLVTREGEVVSGVIQSDSRANARGIVVVHI 135

Query: 159 G----NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHM 214
           G     ++G I   E +  E+ R GDR+K ++  V +   G  V LSRTHP  +  LF +
Sbjct: 136 GPENGGTEGTIAPAEQVPGESYRHGDRIKCHVVGVHKGPHGASVSLSRTHPDLVRGLFAL 195

Query: 215 EVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKI 274
           EVPEI +G V++ A++R+ G R K+AV S+ S ++  GAC+G  G+RV+AV+ EL  EKI
Sbjct: 196 EVPEIGDGSVRIAAIAREAGHRTKIAVESTVSGLNAKGACIGPNGARVRAVMAELNGEKI 255

Query: 275 DIVVWSPDSATFVINALRPA-IVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQ 333
           DIV +  D   FV NAL PA +++  V DE      V+VP  QLSLAIG+ GQN RLA +
Sbjct: 256 DIVDYDDDPTVFVGNALSPAKVISVTVADEQARAARVVVPDYQLSLAIGKEGQNARLAHR 315

Query: 334 LTGWTIDIITEEE 346
           LT W IDI ++ E
Sbjct: 316 LTQWRIDIHSDAE 328


>gi|282898464|ref|ZP_06306454.1| NusA antitermination factor [Raphidiopsis brookii D9]
 gi|281196630|gb|EFA71536.1| NusA antitermination factor [Raphidiopsis brookii D9]
          Length = 424

 Score =  208 bits (529), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 129/299 (43%), Positives = 181/299 (60%), Gaps = 20/299 (6%)

Query: 63  FRLLE---VVEEVENYTCQISLKVARDRDPSIDIG-GVVSDPLPPM-DFGRVAVQSAKQV 117
           FR+L    +VEEV N   QISL   +   P    G  VV D  P   +FGR+A    KQV
Sbjct: 72  FRVLSTKIIVEEVTNSDHQISLDEVQQVAPEAQSGDSVVLDVTPDQGEFGRMAAMQTKQV 131

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV------IRRDETI 171
           + QK+R+ +R     EF+D  G ++   V R E  +VI+ + +S G       + + E +
Sbjct: 132 LAQKLRDQQRQMVQEEFQDLEGTVLQARVLRFERQSVILAVSSSFGQPEVEAELPKREQL 191

Query: 172 SRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVS 230
             +  R     K Y+  V + +QRGPQ+L+SR     +V LF  EVPEI + +V++ AV+
Sbjct: 192 PNDTYRSNATFKVYLKKVSQGQQRGPQLLVSRADAGLVVYLFANEVPEIEDEVVRIVAVA 251

Query: 231 RDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDS 283
           R+        G R K+AV + D  +DPVGAC+G RGSR+Q VV ELR EKID++ WSPD 
Sbjct: 252 REANPPSRYVGPRTKIAVDTLDRDVDPVGACIGARGSRIQVVVNELRGEKIDVIRWSPDP 311

Query: 284 ATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           AT++ NAL PA V +V ++D +  +  V+V ++QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 312 ATYIANALSPARVDEVRLMDPESRQTHVLVAEDQLSLAIGKEGQNVRLAARLTGWKIDI 370


>gi|284929277|ref|YP_003421799.1| transcription termination factor NusA [cyanobacterium UCYN-A]
 gi|284809721|gb|ADB95418.1| transcription termination factor NusA [cyanobacterium UCYN-A]
          Length = 387

 Score =  207 bits (527), Expect = 4e-51,   Method: Compositional matrix adjust.
 Identities = 130/327 (39%), Positives = 192/327 (58%), Gaps = 20/327 (6%)

Query: 46  MSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGG-VVSDPLPPM 104
             +  VE++ E     +    +++E VEN    ISL+  ++      +G  VV D  P  
Sbjct: 58  FDNFEVELDTEEEGFRILSTKKIMENVENIDHHISLQEVQEVASEAQLGDEVVLDVTPEQ 117

Query: 105 -DFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG 163
            DFGR+A    KQV++QK+R+ +R     EF++  G +++  V R E  ++IV + ++ G
Sbjct: 118 KDFGRMAAIQTKQVLLQKLRDQQRKLIQEEFQELEGTVLNARVLRFERQDIIVAVQSTFG 177

Query: 164 ------VIRRDETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEV 216
                 +I + E +  +N R     K  +  VR    RGPQ+L+SR     +V +F +EV
Sbjct: 178 QPEVEAIIPKQEQLPNDNYRANSSFKILLKKVREGSHRGPQLLVSRAAAGLVVDMFSIEV 237

Query: 217 PEIYNGIVQVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTEL 269
           PEI   IV++ AVSR+        G R K+AV + +  +DPVGAC+G RGSR+QAVV EL
Sbjct: 238 PEIEEDIVRIVAVSREANPPSRYVGPRTKIAVDTLERDVDPVGACIGARGSRIQAVVNEL 297

Query: 270 RDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNV 328
           R EKID++ WSPD AT++ NAL PA + +V+L   D     ++V ++QLSLAIG+ GQNV
Sbjct: 298 RGEKIDVIRWSPDPATYIANALSPARIDEVILISPDERHALILVAEDQLSLAIGKEGQNV 357

Query: 329 RLASQLTGWTIDI---ITEEEDSINRQ 352
           RLA++LTGW IDI   I   E+  N+Q
Sbjct: 358 RLAARLTGWKIDIKNTIAHREELENQQ 384


>gi|282898605|ref|ZP_06306593.1| NusA antitermination factor [Cylindrospermopsis raciborskii CS-505]
 gi|281196473|gb|EFA71382.1| NusA antitermination factor [Cylindrospermopsis raciborskii CS-505]
          Length = 428

 Score =  207 bits (526), Expect = 4e-51,   Method: Compositional matrix adjust.
 Identities = 129/299 (43%), Positives = 181/299 (60%), Gaps = 20/299 (6%)

Query: 63  FRLLE---VVEEVENYTCQISLKVARDRDPSIDIG-GVVSDPLPPM-DFGRVAVQSAKQV 117
           FR+L    +VEEV N   QISL   +   P    G  VV D  P   +FGR+A    KQV
Sbjct: 72  FRVLSTKTIVEEVTNGDHQISLDEVQQVAPEAQSGDSVVLDVTPDQGEFGRMAAMQTKQV 131

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV------IRRDETI 171
           + QK+R+ +R     EF+D  G ++   V R E  +VI+ + +S G       + + E +
Sbjct: 132 LAQKLRDQQRQMVQEEFQDLEGTVLQARVLRFERQSVILAVSSSFGQPEVEAELPKREQL 191

Query: 172 SRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVS 230
             +  R     K Y+  V + +QRGPQ+L+SR     +V LF  EVPEI + +V++ AV+
Sbjct: 192 PNDTYRSNATFKVYLKKVSQGQQRGPQLLVSRADAGLVVYLFANEVPEIEDEVVRIVAVA 251

Query: 231 RDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDS 283
           R+        G R K+AV + D  +DPVGAC+G RGSR+Q VV ELR EKID++ WSPD 
Sbjct: 252 REANPPSRYVGPRTKIAVDTLDRDVDPVGACIGARGSRIQVVVNELRGEKIDVIRWSPDP 311

Query: 284 ATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           AT++ NAL PA V +V ++D +  +  V+V ++QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 312 ATYIANALSPARVDEVRLMDPESRQTHVLVAEDQLSLAIGKEGQNVRLAARLTGWKIDI 370


>gi|296139427|ref|YP_003646670.1| NusA antitermination factor [Tsukamurella paurometabola DSM 20162]
 gi|296027561|gb|ADG78331.1| NusA antitermination factor [Tsukamurella paurometabola DSM 20162]
          Length = 333

 Score =  207 bits (526), Expect = 4e-51,   Method: Compositional matrix adjust.
 Identities = 126/336 (37%), Positives = 192/336 (57%), Gaps = 31/336 (9%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  EK I  + V+  +  ++  A +   G     R+++N  TG++ +            
Sbjct: 10  AIEAEKDISVETVIEAIQVALLTAYKHTEGHEPHARIDVNRRTGEVKVL----------- 58

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                    A++ D   +I     D   P  FGR+A  SA+Q+I Q++R+AE DR + EF
Sbjct: 59  ---------AQELDADGNIITEWDDT--PEGFGRIAADSARQLITQRLRDAENDRTFGEF 107

Query: 135 KDKVGEIISGTV----KRVEYGNVIVDLGN----SDGVIRRDETISRENLRPGDRVKSYI 186
               GE++SG V    +    G V+V +G+     +G++   E +  EN   GDR+K Y+
Sbjct: 108 AVYEGEVVSGVVQADARAAARGFVVVRIGSEREGHEGLLPPAEQVPGENYEHGDRMKFYV 167

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V R QRG Q+ LSRTHP  + KLF +EVPEI +G V++ +V+R+ G R+K+AV +S  
Sbjct: 168 VGVSRGQRGTQITLSRTHPNLVKKLFALEVPEIADGSVEITSVAREAGHRSKIAVRTSVP 227

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP-AIVTKVVLDEDV 305
            ++  GAC+G  G RV+ V+++L  EKIDI+ +  D A FV NAL P ++V+  ++D   
Sbjct: 228 GLNAKGACIGPMGQRVRNVMSDLDGEKIDIIAYDDDPAVFVGNALSPSSVVSVTIVDPKE 287

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
               V+VP  +LSLAIG+ GQN RLA++LTGW IDI
Sbjct: 288 KAARVVVPDFKLSLAIGKEGQNARLAARLTGWRIDI 323


>gi|260201972|ref|ZP_05769463.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           T46]
 gi|289444392|ref|ZP_06434136.1| transcription termination factor NusA [Mycobacterium tuberculosis
           T46]
 gi|289417311|gb|EFD14551.1| transcription termination factor NusA [Mycobacterium tuberculosis
           T46]
          Length = 347

 Score =  207 bits (526), Expect = 5e-51,   Method: Compositional matrix adjust.
 Identities = 131/337 (38%), Positives = 199/337 (59%), Gaps = 33/337 (9%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  ++ I  + +L  +  ++  A R   G  +D R+EI+ +TG + +            
Sbjct: 10  AIEVDRGISVNELLETIKSALLTAYRHTQGHQTDARIEIDRKTGVVRV------------ 57

Query: 75  YTCQISLKVARDRDPSIDIGGVVSD-PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
                   +AR+ D   + G ++S+    P  FGR+A  +A+QV++Q+ R+AE +R Y E
Sbjct: 58  --------IARETD---EAGNLISEWDDTPEGFGRIAATTARQVMLQRFRDAENERTYGE 106

Query: 134 FKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDRVKSY 185
           F  + GEI++G ++R    N    V+V +G     S+GVI   E +  E+   G+R++ Y
Sbjct: 107 FSTREGEIVAGVIQRDSRANARGLVVVRIGTETKASEGVIPATEQVPGESYEHGNRLRCY 166

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV S+ 
Sbjct: 167 VVGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAVRSNV 226

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
           + ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V  V V+D+ 
Sbjct: 227 AGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDDDPARFVANALSPAKVVSVSVIDQT 286

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
                V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 287 ARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDI 323


>gi|224534126|ref|ZP_03674706.1| transcription elongation protein NusA [Borrelia spielmanii A14S]
 gi|224514551|gb|EEF84865.1| transcription elongation protein NusA [Borrelia spielmanii A14S]
          Length = 482

 Score =  207 bits (526), Expect = 5e-51,   Method: Compositional matrix adjust.
 Identities = 125/393 (31%), Positives = 240/393 (61%), Gaps = 11/393 (2%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           ++A ++S+  + +   + +S+  A +  +G+  +  ++ + +TGD+ ++   ++VEEV++
Sbjct: 11  SIANDRSMSIESIRKTIKESVLIAYKKYFGSNENAFIKFDDDTGDLVVYAKKKIVEEVKD 70

Query: 75  YTCQISLK-VARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
              +IS K ++R+   +I  G      + P  F R+++Q AKQ     ++  E +    E
Sbjct: 71  SFFEISEKDISRE---NIVEGDYAYIEINPKVFDRLSIQVAKQRTKNDLQGIEDNEILSE 127

Query: 134 FKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
           FK K+ +++ G V++   G++ V+LGN+DG+I +     RE     D+++  +Y+V++ +
Sbjct: 128 FKSKLNKVVIGYVQQNRNGDLYVNLGNTDGIIPKKYQSPREVYSLNDKIRVLVYNVKKGK 187

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
            G +V+LSRTHP+F+ +L  +E+PEI  GI+++  + RDPG R K+AV+S    IDPVG 
Sbjct: 188 NGIEVILSRTHPKFIEELLALEIPEIEEGIIKIHKIVRDPGYRIKVAVYSEKEEIDPVGP 247

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIV 312
           C+G +G R+Q+++ EL  EKIDI+ +S D   F+ +AL P+ +  V ++DED+ +  V+V
Sbjct: 248 CIGQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIKDALTPSKIEHVYIIDEDLHKALVVV 307

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINV-DEI 371
             +QLSLAIG+ GQNVRLA++L  W ID+ T  + +     +    ++F  + + + D++
Sbjct: 308 SDDQLSLAIGKMGQNVRLANRLLDWAIDVKTSSQFA-----EMKANSEFKQETLEMFDKV 362

Query: 372 IAHLLVAEGFADVEELACVKISEIASIEGFDEE 404
           +  ++  E F ++ +++ +K+ + + I    +E
Sbjct: 363 MQDVVEEEQFEEISKISDLKLLDSSVISNLSKE 395


>gi|302542143|ref|ZP_07294485.1| transcription termination factor NusA [Streptomyces hygroscopicus
           ATCC 53653]
 gi|302459761|gb|EFL22854.1| transcription termination factor NusA [Streptomyces himastatinicus
           ATCC 53653]
          Length = 330

 Score =  206 bits (525), Expect = 5e-51,   Method: Compositional matrix adjust.
 Identities = 112/251 (44%), Positives = 167/251 (66%), Gaps = 2/251 (0%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNS 161
           P  FGR+A  +AKQVI+Q++R+AE +  + E+  + G++++G V++  +  N++VD+G  
Sbjct: 79  PSGFGRIAAMTAKQVILQRLRDAEEEITFGEYAGREGDVVAGVVQQGKDPKNILVDIGRL 138

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           + ++   E +  E+   G R+++Y+  V +  RGP V LSRTHP  + KLF +EVPEI +
Sbjct: 139 EAILPSQEQVPGEDYAHGTRLRTYVVRVVKGVRGPSVTLSRTHPNLVKKLFALEVPEIAD 198

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           G V++ A++R+ G R K+AV S+ S ++  GAC+G  G RV++V+ EL  EKIDIV WS 
Sbjct: 199 GSVEIAAIAREAGHRTKIAVRSTRSGLNAKGACIGPMGGRVRSVMAELHGEKIDIVDWSD 258

Query: 282 DSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D A  V NAL PA V+KV V+D       V VP  QLSLAIG+ GQN RLA++LTGW ID
Sbjct: 259 DPAELVANALSPARVSKVEVVDLAARSARVTVPDYQLSLAIGKEGQNARLAARLTGWRID 318

Query: 341 IITEEEDSINR 351
           I  + + S ++
Sbjct: 319 IRPDTDQSADQ 329


>gi|15842382|ref|NP_337419.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           CDC1551]
 gi|13882681|gb|AAK47233.1| N utilization substance protein A [Mycobacterium tuberculosis
           CDC1551]
          Length = 343

 Score =  206 bits (525), Expect = 6e-51,   Method: Compositional matrix adjust.
 Identities = 131/337 (38%), Positives = 199/337 (59%), Gaps = 33/337 (9%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  ++ I  + +L  +  ++  A R   G  +D R+EI+ +TG + +            
Sbjct: 6   AIEVDRGISVNELLETIKSALLTAYRHTQGHQTDARIEIDRKTGVVRV------------ 53

Query: 75  YTCQISLKVARDRDPSIDIGGVVSD-PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
                   +AR+ D   + G ++S+    P  FGR+A  +A+QV++Q+ R+AE +R Y E
Sbjct: 54  --------IARETD---EAGNLISEWDDTPEGFGRIAATTARQVMLQRFRDAENERTYGE 102

Query: 134 FKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDRVKSY 185
           F  + GEI++G ++R    N    V+V +G     S+GVI   E +  E+   G+R++ Y
Sbjct: 103 FSTREGEIVAGVIQRDSRANARGLVVVRIGTETKASEGVIPAAEQVPGESYEHGNRLRCY 162

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV S+ 
Sbjct: 163 VVGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAVRSNV 222

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
           + ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V  V V+D+ 
Sbjct: 223 AGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDDDPARFVANALSPAKVVSVSVIDQT 282

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
                V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 283 ARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDI 319


>gi|119025371|ref|YP_909216.1| transcription elongation factor NusA [Bifidobacterium adolescentis
           ATCC 15703]
 gi|154486780|ref|ZP_02028187.1| hypothetical protein BIFADO_00606 [Bifidobacterium adolescentis
           L2-32]
 gi|118764955|dbj|BAF39134.1| N utilization substance homolog [Bifidobacterium adolescentis ATCC
           15703]
 gi|154084643|gb|EDN83688.1| hypothetical protein BIFADO_00606 [Bifidobacterium adolescentis
           L2-32]
          Length = 350

 Score =  206 bits (525), Expect = 6e-51,   Method: Compositional matrix adjust.
 Identities = 119/333 (35%), Positives = 195/333 (58%), Gaps = 15/333 (4%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           +A  + ID + + + ++++++ A           RVE++P  G  +++   E+  E    
Sbjct: 11  LAAGQGIDPETLDAALSEALRLAYLKTPHAAKHARVELDPRAGSFTVWAQDEIPGE---- 66

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
                     D  P+  +G    D   P DFGR+A  +A+QVI Q  R+AE D+ +  F 
Sbjct: 67  ------PTEDDPHPAPTLGEEYDDT--PHDFGRLAAATARQVISQLFRKAEDDKVFGAFS 118

Query: 136 DKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
            + G++I+G V++   +  NV V +G+ + ++ R E +  E  R G+R++ Y+ +V R  
Sbjct: 119 GQKGKLITGIVQQDVKDTSNVHVAVGDVEALLPRREQVPGERYRHGERIRVYVVNVARGL 178

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
           +GP++++SR+HP+ + +LF  EVPE+ +G V + A++R+ G+R K+AV ++   ++P GA
Sbjct: 179 KGPEIVVSRSHPELVRRLFEREVPELVSGAVSIMAIAREAGARTKIAVRANTEGVNPKGA 238

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIV 312
            +G  G+RV+AV+  L  EKIDIV WS D A FV  AL PA+ T V V+ E        +
Sbjct: 239 LIGPGGARVRAVMENLGPEKIDIVDWSADPAKFVAAALSPAVATGVQVISEKNKTAIAFI 298

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
             +QLSLAIG+ GQN RLA++LTGW I I + E
Sbjct: 299 HDDQLSLAIGKEGQNARLAAKLTGWKIGIESAE 331


>gi|219685679|ref|ZP_03540493.1| transcription elongation protein NusA [Borrelia garinii Far04]
 gi|219672795|gb|EED29820.1| transcription elongation protein NusA [Borrelia garinii Far04]
          Length = 482

 Score =  206 bits (525), Expect = 6e-51,   Method: Compositional matrix adjust.
 Identities = 126/393 (32%), Positives = 238/393 (60%), Gaps = 11/393 (2%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           ++A ++S+  + +   + +S+  A +  +G+  +  V+ +  TGD+ ++   ++VEEV++
Sbjct: 11  SIANDRSMSIESIRKTIKESVLIAYKKYFGSNENAFVKFDDNTGDLVVYAKKKIVEEVKD 70

Query: 75  YTCQISLK-VARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
              +I  K ++++   +I  G      + P  F R+++Q AKQ     ++  E +    E
Sbjct: 71  SLLEILEKDISKE---NIVEGDYAYIEINPKVFDRLSIQVAKQRTKNDLQGIEDNEILSE 127

Query: 134 FKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
           FK K+ +++ G V++   G++ V+LGN+DG+I +     RE     D+++  +Y+V++ +
Sbjct: 128 FKSKLNKVVIGYVQQNRNGDLYVNLGNTDGIIPKKYQSPREVYSLNDKIRVLVYNVKKGK 187

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
            G +V+LSRTHP+F+ +L  +E+PEI  GI+++  + RDPG R K+AV+S    IDPVG 
Sbjct: 188 NGIEVILSRTHPKFIEELLALEIPEIEEGIIKIHKIVRDPGYRIKVAVYSEKEEIDPVGP 247

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIV 312
           C+G +G R+Q+++ EL  EKIDI+ +S D   F+ ++L PA +  V +LDED+ +  V+V
Sbjct: 248 CIGQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIKDSLTPAKIDHVYILDEDLHKALVVV 307

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINV-DEI 371
             +QLSLAIG+ GQNVRLA++L  W ID+ T  + +     +    ++F  + + + D++
Sbjct: 308 SDDQLSLAIGKMGQNVRLANRLLDWAIDVKTSSQFA-----EMKANSEFKQETLEMFDKV 362

Query: 372 IAHLLVAEGFADVEELACVKISEIASIEGFDEE 404
           +  ++  E F D+ +++ +K+ + + I    +E
Sbjct: 363 MQDVVEEEQFEDISKISDLKLLDSSVISNLSKE 395


>gi|15609978|ref|NP_217357.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           H37Rv]
 gi|31794018|ref|NP_856511.1| transcription elongation factor NusA [Mycobacterium bovis
           AF2122/97]
 gi|121638721|ref|YP_978945.1| transcription elongation factor NusA [Mycobacterium bovis BCG str.
           Pasteur 1173P2]
 gi|148662682|ref|YP_001284205.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           H37Ra]
 gi|148824031|ref|YP_001288785.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           F11]
 gi|167967194|ref|ZP_02549471.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           H37Ra]
 gi|215404813|ref|ZP_03416994.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           02_1987]
 gi|215412673|ref|ZP_03421391.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           94_M4241A]
 gi|215431783|ref|ZP_03429702.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           EAS054]
 gi|215447095|ref|ZP_03433847.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           T85]
 gi|218754589|ref|ZP_03533385.1| transcription elongation factor NusA [Mycobacterium tuberculosis GM
           1503]
 gi|224991213|ref|YP_002645902.1| transcription elongation factor [Mycobacterium bovis BCG str. Tokyo
           172]
 gi|253798073|ref|YP_003031074.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           KZN 1435]
 gi|254232936|ref|ZP_04926263.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           C]
 gi|254365487|ref|ZP_04981532.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           str. Haarlem]
 gi|254551905|ref|ZP_05142352.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           '98-R604 INH-RIF-EM']
 gi|260206152|ref|ZP_05773643.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           K85]
 gi|289553371|ref|ZP_06442581.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           KZN 605]
 gi|289575542|ref|ZP_06455769.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           K85]
 gi|289746639|ref|ZP_06506017.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           02_1987]
 gi|289754949|ref|ZP_06514327.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           EAS054]
 gi|289758961|ref|ZP_06518339.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           T85]
 gi|289763017|ref|ZP_06522395.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           GM 1503]
 gi|294994068|ref|ZP_06799759.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           210]
 gi|297635454|ref|ZP_06953234.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           KZN 4207]
 gi|297732453|ref|ZP_06961571.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           KZN R506]
 gi|298526309|ref|ZP_07013718.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           94_M4241A]
 gi|306777125|ref|ZP_07415462.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu001]
 gi|306781031|ref|ZP_07419368.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu002]
 gi|306785669|ref|ZP_07423991.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu003]
 gi|306789709|ref|ZP_07428031.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu004]
 gi|306794342|ref|ZP_07432644.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu005]
 gi|306798766|ref|ZP_07437068.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu006]
 gi|306804612|ref|ZP_07441280.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu008]
 gi|306807354|ref|ZP_07444022.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu007]
 gi|306968905|ref|ZP_07481566.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu009]
 gi|306973241|ref|ZP_07485902.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu010]
 gi|307080950|ref|ZP_07490120.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu011]
 gi|307085545|ref|ZP_07494658.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu012]
 gi|313659785|ref|ZP_07816665.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           KZN V2475]
 gi|61229169|sp|P0A5M2|NUSA_MYCTU RecName: Full=Transcription elongation protein nusA
 gi|61229170|sp|P0A5M3|NUSA_MYCBO RecName: Full=Transcription elongation protein nusA
 gi|3261746|emb|CAB08449.1| PROBABLE N UTILIZATION SUBSTANCE PROTEIN A NUSA [Mycobacterium
           tuberculosis H37Rv]
 gi|31619612|emb|CAD95051.1| PROBABLE N UTILIZATION SUBSTANCE PROTEIN A NUSA [Mycobacterium
           bovis AF2122/97]
 gi|121494369|emb|CAL72850.1| Probable N utilization substance protein A nusA [Mycobacterium
           bovis BCG str. Pasteur 1173P2]
 gi|124601995|gb|EAY61005.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           C]
 gi|134151000|gb|EBA43045.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           str. Haarlem]
 gi|148506834|gb|ABQ74643.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           H37Ra]
 gi|148722558|gb|ABR07183.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           F11]
 gi|224774328|dbj|BAH27134.1| transcription elongation factor [Mycobacterium bovis BCG str. Tokyo
           172]
 gi|253319576|gb|ACT24179.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           KZN 1435]
 gi|289438003|gb|EFD20496.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           KZN 605]
 gi|289539973|gb|EFD44551.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           K85]
 gi|289687167|gb|EFD54655.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           02_1987]
 gi|289695536|gb|EFD62965.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           EAS054]
 gi|289710523|gb|EFD74539.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           GM 1503]
 gi|289714525|gb|EFD78537.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           T85]
 gi|298496103|gb|EFI31397.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           94_M4241A]
 gi|308214494|gb|EFO73893.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu001]
 gi|308326139|gb|EFP14990.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu002]
 gi|308329669|gb|EFP18520.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu003]
 gi|308333808|gb|EFP22659.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu004]
 gi|308337334|gb|EFP26185.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu005]
 gi|308340977|gb|EFP29828.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu006]
 gi|308346277|gb|EFP35128.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu007]
 gi|308348792|gb|EFP37643.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu008]
 gi|308353518|gb|EFP42369.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu009]
 gi|308357359|gb|EFP46210.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu010]
 gi|308361312|gb|EFP50163.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu011]
 gi|308364913|gb|EFP53764.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu012]
 gi|323718540|gb|EGB27710.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           CDC1551A]
 gi|326904454|gb|EGE51387.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           W-148]
 gi|328457846|gb|AEB03269.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           KZN 4207]
          Length = 347

 Score =  206 bits (525), Expect = 6e-51,   Method: Compositional matrix adjust.
 Identities = 131/337 (38%), Positives = 199/337 (59%), Gaps = 33/337 (9%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  ++ I  + +L  +  ++  A R   G  +D R+EI+ +TG + +            
Sbjct: 10  AIEVDRGISVNELLETIKSALLTAYRHTQGHQTDARIEIDRKTGVVRV------------ 57

Query: 75  YTCQISLKVARDRDPSIDIGGVVSD-PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
                   +AR+ D   + G ++S+    P  FGR+A  +A+QV++Q+ R+AE +R Y E
Sbjct: 58  --------IARETD---EAGNLISEWDDTPEGFGRIAATTARQVMLQRFRDAENERTYGE 106

Query: 134 FKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDRVKSY 185
           F  + GEI++G ++R    N    V+V +G     S+GVI   E +  E+   G+R++ Y
Sbjct: 107 FSTREGEIVAGVIQRDSRANARGLVVVRIGTETKASEGVIPAAEQVPGESYEHGNRLRCY 166

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV S+ 
Sbjct: 167 VVGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAVRSNV 226

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
           + ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V  V V+D+ 
Sbjct: 227 AGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDDDPARFVANALSPAKVVSVSVIDQT 286

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
                V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 287 ARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDI 323


>gi|51599052|ref|YP_073240.1| transcription elongation factor NusA [Borrelia garinii PBi]
 gi|51573623|gb|AAU07648.1| N-utilization substance protein A [Borrelia garinii PBi]
          Length = 482

 Score =  206 bits (525), Expect = 6e-51,   Method: Compositional matrix adjust.
 Identities = 126/393 (32%), Positives = 238/393 (60%), Gaps = 11/393 (2%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           ++A ++S+  + +   + +S+  A +  +G+  +  V+ +  TGD+ ++   ++VEEV++
Sbjct: 11  SIANDRSMSIESIRKTIKESVLIAYKKYFGSNENAFVKFDDNTGDLVVYAKKKIVEEVKD 70

Query: 75  YTCQISLK-VARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
              +I  K ++++   +I  G      + P  F R+++Q AKQ     ++  E +    E
Sbjct: 71  SLLEILEKDISKE---NIVEGDYAYIEINPKVFDRLSIQVAKQRTKNDLQGIEDNEILSE 127

Query: 134 FKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
           FK K+ +++ G V++   G++ V+LGN+DG+I +     RE     D+++  +Y+V++ +
Sbjct: 128 FKSKLNKVVIGYVQQNRNGDLYVNLGNTDGIIPKKYQSPREVYSLNDKIRVLVYNVKKGK 187

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
            G +V+LSRTHP+F+ +L  +E+PEI  GI+++  + RDPG R K+AV+S    IDPVG 
Sbjct: 188 NGIEVILSRTHPKFIEELLALEIPEIEEGIIKIHKIVRDPGYRIKVAVYSEKEEIDPVGP 247

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIV 312
           C+G +G R+Q+++ EL  EKIDI+ +S D   F+ ++L PA +  V +LDED+ +  V+V
Sbjct: 248 CIGQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIKDSLTPAKIDHVYILDEDLHKALVVV 307

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINV-DEI 371
             +QLSLAIG+ GQNVRLA++L  W ID+ T  + +     +    ++F  + + + D++
Sbjct: 308 SDDQLSLAIGKMGQNVRLANRLLDWAIDVKTSSQFA-----EMKANSEFKQETLEMFDKV 362

Query: 372 IAHLLVAEGFADVEELACVKISEIASIEGFDEE 404
           +  ++  E F D+ +++ +K+ + + I    +E
Sbjct: 363 MQDVVEEEQFEDISKISDLKLLDSSVISNLSKE 395


>gi|152991227|ref|YP_001356949.1| transcription elongation factor NusA [Nitratiruptor sp. SB155-2]
 gi|151423088|dbj|BAF70592.1| transcription termination factor NusA [Nitratiruptor sp. SB155-2]
          Length = 371

 Score =  206 bits (525), Expect = 6e-51,   Method: Compositional matrix adjust.
 Identities = 126/345 (36%), Positives = 201/345 (58%), Gaps = 9/345 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +++ I D++A+EK +  + V   +  + +  A+ + G   +   EI+P+T  I +F+ + 
Sbjct: 3   KIVDIIDSIAHEKGLPVEQVKEAIQKAFENTAKKVLGEDLEFEAEIDPDTKSIKVFQKIL 62

Query: 68  VVEEVENYTCQ-----ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           VVE+ +    Q     I+L  A++ DP++++G  +  P+     GR A       I   +
Sbjct: 63  VVEDGDERATQEPERYITLSEAKEIDPNVEVGDELRYPVEFEKLGRTAAMRLHNEIEFHI 122

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +     + + ++K ++G IISGTV RV E  N  V++    G++ +   I  E  +PGD 
Sbjct: 123 QRLMEQQLFEKYKQRIGTIISGTVTRVDEEENTYVEIDEVKGILPKRYRIKGEFFKPGDV 182

Query: 182 VKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           VK+ +  V  ++  G  + LSRT P+F+ +L  +EVPEI +G+V ++ V+R PG RAK+A
Sbjct: 183 VKAILKRVVFDKINGIYLELSRTTPKFLEELLKLEVPEIKDGLVTIEKVARIPGERAKVA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S    IDPVGACVG+RG R+ AV  ELR E ID + +SP    FV  +L PAI+T V 
Sbjct: 243 VNSHSPKIDPVGACVGVRGVRINAVSKELRGENIDCIEYSPIPEIFVARSLSPAIITSVK 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           ++ D  +  V +P +Q S AIG+ G N+RLAS LTG+ I++I  E
Sbjct: 303 IEGD--KAIVTLPSDQKSKAIGKSGINIRLASMLTGYEIELIETE 345


>gi|56752082|ref|YP_172783.1| transcription elongation factor NusA [Synechococcus elongatus PCC
           6301]
 gi|56687041|dbj|BAD80263.1| N utilization substance protein A [Synechococcus elongatus PCC
           6301]
          Length = 441

 Score =  206 bits (525), Expect = 6e-51,   Method: Compositional matrix adjust.
 Identities = 141/371 (38%), Positives = 209/371 (56%), Gaps = 34/371 (9%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGT-----------MSDI 49
           MV+   LE  Q+  A++ +K +  +V+   + +++ K       T             +I
Sbjct: 3   MVTLPGLE--QLIYAISEQKKLPANVIEEALKEALLKGYERYRRTQQMGEQFEEDYFDNI 60

Query: 50  RVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFG 107
            VE++ E     +     +V +VEN   QI+L   ++  P    G +V   + P   DFG
Sbjct: 61  DVELDVEQEGFRVLATKTIVNQVENPDHQIALADVQEVAPDAQAGEIVVLDVTPDKDDFG 120

Query: 108 RVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIR- 166
           R+A    KQV+ QK+R+ +R     EF+D    ++   V R E  +VI  LG S G+ R 
Sbjct: 121 RMAAIQTKQVLSQKLRDHQRKLIQEEFQDLEDPVLMAKVLRFERQSVI--LGVSSGLGRP 178

Query: 167 -------RDETISRENLRPGDRVKSYIYDVRRE-QRGPQVLLSRTHPQFMVKLFHMEVPE 218
                  R E +  +N R     + ++ +V  E +RGPQ+++SR +   +V LF  EVPE
Sbjct: 179 EVEAELPRREQLPNDNYRANATFRVFLKEVSEEPRRGPQLIVSRANAGLVVYLFENEVPE 238

Query: 219 IYNGIVQVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRD 271
           I +G+V++ AV+R+        G R K+AV + +  +DPVGAC+G RGSR+Q VV ELR 
Sbjct: 239 IQDGVVRIVAVAREANPPTRHVGPRTKIAVDTLEREVDPVGACIGARGSRIQVVVNELRG 298

Query: 272 EKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI-EVIVPKEQLSLAIGRRGQNVRL 330
           EKID++ WSPD AT++ NAL PA V +V L +  GRI  V+V  +QLSLAIG+ GQNVRL
Sbjct: 299 EKIDVIRWSPDPATYIANALSPARVQEVRLVDPEGRIAHVLVNDDQLSLAIGKEGQNVRL 358

Query: 331 ASQLTGWTIDI 341
           A++LTGW IDI
Sbjct: 359 AARLTGWKIDI 369


>gi|18158875|pdb|1K0R|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Nusa
 gi|18158876|pdb|1K0R|B Chain B, Crystal Structure Of Mycobacterium Tuberculosis Nusa
          Length = 366

 Score =  206 bits (525), Expect = 6e-51,   Method: Compositional matrix adjust.
 Identities = 131/337 (38%), Positives = 199/337 (59%), Gaps = 33/337 (9%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  ++ I  + +L  +  ++  A R   G  +D R+EI+ +TG + +            
Sbjct: 29  AIEVDRGISVNELLETIKSALLTAYRHTQGHQTDARIEIDRKTGVVRV------------ 76

Query: 75  YTCQISLKVARDRDPSIDIGGVVSD-PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
                   +AR+ D   + G ++S+    P  FGR+A  +A+QV++Q+ R+AE +R Y E
Sbjct: 77  --------IARETD---EAGNLISEWDDTPEGFGRIAATTARQVMLQRFRDAENERTYGE 125

Query: 134 FKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDRVKSY 185
           F  + GEI++G ++R    N    V+V +G     S+GVI   E +  E+   G+R++ Y
Sbjct: 126 FSTREGEIVAGVIQRDSRANARGLVVVRIGTETKASEGVIPAAEQVPGESYEHGNRLRCY 185

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV S+ 
Sbjct: 186 VVGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAVRSNV 245

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
           + ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V  V V+D+ 
Sbjct: 246 AGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDDDPARFVANALSPAKVVSVSVIDQT 305

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
                V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 306 ARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDI 342


>gi|88855366|ref|ZP_01130030.1| transcription elongation factor NusA [marine actinobacterium
           PHSC20C1]
 gi|88815273|gb|EAR25131.1| transcription elongation factor NusA [marine actinobacterium
           PHSC20C1]
          Length = 333

 Score =  206 bits (524), Expect = 7e-51,   Method: Compositional matrix adjust.
 Identities = 109/249 (43%), Positives = 165/249 (66%), Gaps = 5/249 (2%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNS 161
           P DFGR+A  +AKQVI Q++R+   D+   EFK + G+I++G +++     +I +DLG  
Sbjct: 84  PSDFGRIAAFAAKQVINQRLRDIGDDKVLGEFKGREGDIVAGVIQQGPNPRMIHIDLGTV 143

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           + ++  +E +  E  + G R++ Y+  V +  +GPQ+ +SRTHP  + KLF +EVPEI +
Sbjct: 144 EAIMPPEEQVPSEEYKHGSRLRVYVTAVNKGDKGPQITVSRTHPSLVRKLFALEVPEIAS 203

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           GIV++ +V+R+ G R K+AV +++  ++  G+C+G  G RV+AV  EL +EKIDIV +S 
Sbjct: 204 GIVEITSVAREAGHRTKMAVRATEPGVNAKGSCIGELGQRVRAVTAELNNEKIDIVDYSE 263

Query: 282 DSATFVINALRPAIV-TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           + A FV NAL PA V +  V+DE    +  +VP  QLSLAIG+ GQN RLA++LTG  ID
Sbjct: 264 NLAVFVANALSPAKVSSSFVIDETTKAVRALVPDYQLSLAIGKEGQNARLAAKLTGARID 323

Query: 341 IITEEEDSI 349
           I   + DSI
Sbjct: 324 I---QPDSI 329


>gi|294815429|ref|ZP_06774072.1| Transcription elongation factor NusA [Streptomyces clavuligerus
           ATCC 27064]
 gi|326443782|ref|ZP_08218516.1| transcription elongation factor NusA [Streptomyces clavuligerus
           ATCC 27064]
 gi|294328028|gb|EFG09671.1| Transcription elongation factor NusA [Streptomyces clavuligerus
           ATCC 27064]
          Length = 335

 Score =  206 bits (524), Expect = 8e-51,   Method: Compositional matrix adjust.
 Identities = 130/345 (37%), Positives = 198/345 (57%), Gaps = 32/345 (9%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL---- 65
           +++   +A EK I  D+++  +  ++  A     G+    R E++ +TG ++++      
Sbjct: 5   VKLLKGLAQEKEIPFDLLVEAIESALLIAYHRTEGSRRHARAELSRQTGHVTVWAEEDPA 64

Query: 66  -LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
            LE  +E + +          D  PS              DFGR+A  +A+QVI Q++R+
Sbjct: 65  DLEEGQEPKEF----------DDTPS--------------DFGRIAATTARQVIQQRLRD 100

Query: 125 AERDRQYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNS-DGVIRRDETISRENLRPGDRV 182
           AE D  + E+  + G+++SG V++  +  NV+V L +  + ++   E +  E    G R+
Sbjct: 101 AENDVTFGEYARREGDVVSGQVQQGKDPKNVLVKLDDKLEAILPVQEQVPGEEYPHGLRL 160

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++Y+  V +  RGP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV 
Sbjct: 161 RTYVVRVAKGVRGPSVTLSRTHPNLVKKLFALEVPEIADGSVEIAAIAREAGHRTKIAVR 220

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VL 301
           S+ S ++  GAC+G  G RV+ V+ EL  EKIDIV WS D A  V NAL PA V+KV V+
Sbjct: 221 STRSGLNAKGACIGPMGGRVRNVMAELHGEKIDIVDWSDDPAEMVANALSPARVSKVEVV 280

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           D       V VP  QLSLAIG+ GQN RLA++LTGW IDI  + E
Sbjct: 281 DLGARSARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTE 325


>gi|212716581|ref|ZP_03324709.1| hypothetical protein BIFCAT_01509 [Bifidobacterium catenulatum DSM
           16992]
 gi|225351012|ref|ZP_03742035.1| hypothetical protein BIFPSEUDO_02593 [Bifidobacterium
           pseudocatenulatum DSM 20438]
 gi|212660285|gb|EEB20860.1| hypothetical protein BIFCAT_01509 [Bifidobacterium catenulatum DSM
           16992]
 gi|225158468|gb|EEG71710.1| hypothetical protein BIFPSEUDO_02593 [Bifidobacterium
           pseudocatenulatum DSM 20438]
          Length = 350

 Score =  206 bits (524), Expect = 8e-51,   Method: Compositional matrix adjust.
 Identities = 120/334 (35%), Positives = 198/334 (59%), Gaps = 17/334 (5%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV-VEEVEN 74
           +A  + ID + + + ++++++ A           RVE++P  G  +++   E+ VE  E+
Sbjct: 11  LAAGQGIDPETLDAALSEALRLAYLKTPHAAKHARVELDPRAGSFTVWAQDEIPVEPTED 70

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                      +  P+  +G    D   P DFGR+A  +A+QVI Q  R+AE D+ +  F
Sbjct: 71  -----------NPHPAPTLGEEYDDT--PRDFGRLAAATARQVISQLFRKAEDDKVFGAF 117

Query: 135 KDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
             + G++I+G V++   +  NV V +G+ + ++ R E +  E  R G+R++ Y+ +V R 
Sbjct: 118 SGQKGKLITGIVQQDVKDTSNVHVAVGDVEALLPRREQVPGERYRHGERIRVYVVNVARG 177

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            +GP++++SR+HP+ + +LF  EVPE+ +G V + A++R+ G+R K+AV ++   ++P G
Sbjct: 178 LKGPEIVVSRSHPELVRRLFEREVPELVSGAVSIMAIAREAGARTKIAVRANTEGVNPKG 237

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVI 311
           A +G  G+RV+AV+  L  EKIDIV WS D A FV  AL PA+ T V V+ E        
Sbjct: 238 ALIGPGGARVRAVMENLGPEKIDIVDWSADPAKFVAAALSPAVATGVQVISEKNQTAIAF 297

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +  +QLSLAIG+ GQN RLA++LTGW I I + E
Sbjct: 298 IHDDQLSLAIGKEGQNARLAAKLTGWKIGIESAE 331


>gi|41409007|ref|NP_961843.1| transcription elongation factor NusA [Mycobacterium avium subsp.
           paratuberculosis K-10]
 gi|41397366|gb|AAS05226.1| NusA [Mycobacterium avium subsp. paratuberculosis K-10]
          Length = 351

 Score =  206 bits (524), Expect = 8e-51,   Method: Compositional matrix adjust.
 Identities = 134/346 (38%), Positives = 203/346 (58%), Gaps = 37/346 (10%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLFRL 65
           + I  A  +   +DR + ++ + ++I+ A  + Y    G  +D R+EI+ +TG + +   
Sbjct: 1   MNIDMAALHAIEVDRGISVNELLETIKSALLTAYRHTEGHQNDARIEIDRKTGVVKV--- 57

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSD-PLPPMDFGRVAVQSAKQVIIQKVRE 124
                            +AR+ D   + G V+S+    P  FGR+A  +A+QV++Q+ R+
Sbjct: 58  -----------------IARETD---EDGNVISEWDDTPEGFGRIAATTARQVMLQRFRD 97

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENL 176
           AE +R Y EF  + GEI++G ++R    N    V+V +G     S+GVI   E +  E+ 
Sbjct: 98  AENERTYGEFSTREGEIVAGVIQRDSRANARGLVVVRMGTETKASEGVIPAAEQVPGESY 157

Query: 177 RPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
             G+RV+ Y+  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R
Sbjct: 158 EHGNRVRCYVIGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHR 217

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           +K+AV S+   ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V
Sbjct: 218 SKIAVKSNLPGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDDDPARFVANALSPAKV 277

Query: 297 TKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             V ++D+      V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 278 VSVSIIDQAARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDI 323


>gi|256824991|ref|YP_003148951.1| transcription termination factor NusA [Kytococcus sedentarius DSM
           20547]
 gi|256688384|gb|ACV06186.1| transcription termination factor NusA [Kytococcus sedentarius DSM
           20547]
          Length = 357

 Score =  206 bits (523), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 121/333 (36%), Positives = 194/333 (58%), Gaps = 28/333 (8%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           V  E+ I  DV++  +  ++ +A +   G   + RVE++  +G + ++            
Sbjct: 11  VEREREIPLDVLVPALETALLQAYQHEAGGRRNARVELDRRSGQVVVW------------ 58

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLP-----PMDFGRVAVQSAKQVIIQKVREAERDRQ 130
                   AR+  P ++  G   +  P     P DFGR+   + +QVI Q++R+ E +  
Sbjct: 59  --------AREDAPVLE-DGTRGEAGPEFDDTPEDFGRIGAFTVRQVIRQRLRDLEDEAV 109

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDV 189
             +FK K G+I++G +++    + I VDLG  +G++   E +  E+ + GDR++ Y+   
Sbjct: 110 LGDFKGKEGDIVAGVIQQSNDPHAIHVDLGTVEGLLGTSEQVPLEDYKHGDRIRCYVIHA 169

Query: 190 RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSID 249
           +R  +GP + LSRTHP  + KLF +EVPE+ +G V++++++R+ G R+K+AV ++   ++
Sbjct: 170 KRGMKGPLIGLSRTHPNLVRKLFALEVPEVADGTVRIESIAREAGHRSKMAVRATQPGVN 229

Query: 250 PVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRI 308
             G+C+G  G RV+AV+ EL+ EKIDIV +  D   FV  AL PA VT V V+DE     
Sbjct: 230 AKGSCIGPMGGRVRAVMNELQGEKIDIVDYDDDPRKFVAAALSPAKVTSVTVVDEKTRSA 289

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            V VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 290 RVTVPAHQLSLAIGKEGQNARLAARLTGWRIDI 322


>gi|289548941|ref|YP_003473929.1| NusA antitermination factor [Thermocrinis albus DSM 14484]
 gi|289182558|gb|ADC89802.1| NusA antitermination factor [Thermocrinis albus DSM 14484]
          Length = 327

 Score =  206 bits (523), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 110/245 (44%), Positives = 169/245 (68%), Gaps = 1/245 (0%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNS 161
           P D  R+A  +AK+  ++++  AE +R YLEF +  GEI+ G V++V E G+++VDLG  
Sbjct: 75  PADMDRIAAYAAKEEFLKELERAEEERSYLEFVELEGEIVVGIVRKVQEDGDLLVDLGKV 134

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
            GV+ + E I +E+ + GDR+++ + +VR+ +   +++LSRTHP+F+ KL   EVPEI  
Sbjct: 135 MGVLPKKEQIPKEHYKVGDRLRALLLEVRKRRGKYEIILSRTHPRFLKKLLEAEVPEIKE 194

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           G ++V+A++R+PG RAK+ V S+DS +DPVG  VG+RGS++  +  EL  E+ID++  S 
Sbjct: 195 GYIKVEAIAREPGERAKVLVSSTDSRMDPVGVVVGVRGSKIAPITEELSGERIDVIKKSD 254

Query: 282 DSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
                +  +L PA V+ V L  +  R EV VPKE+LSLAIG+ G NVRLAS++TGW ID+
Sbjct: 255 SVEELIKRSLAPAPVSAVRLFPEEKRAEVAVPKEKLSLAIGKGGVNVRLASKITGWRIDV 314

Query: 342 ITEEE 346
            +EE+
Sbjct: 315 YSEED 319


>gi|118462823|ref|YP_882872.1| transcription elongation factor NusA [Mycobacterium avium 104]
 gi|118164110|gb|ABK65007.1| transcription termination factor NusA [Mycobacterium avium 104]
          Length = 351

 Score =  206 bits (523), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 134/346 (38%), Positives = 203/346 (58%), Gaps = 37/346 (10%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLFRL 65
           + I  A  +   +DR + ++ + ++I+ A  + Y    G  +D R+EI+ +TG + +   
Sbjct: 1   MNIDMAALHAIEVDRGISVNELLETIKSALLTAYRHTEGHQNDARIEIDRKTGVVKV--- 57

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSD-PLPPMDFGRVAVQSAKQVIIQKVRE 124
                            +AR+ D   + G V+S+    P  FGR+A  +A+QV++Q+ R+
Sbjct: 58  -----------------IARETD---EDGNVISEWDDTPEGFGRIAATTARQVMLQRFRD 97

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENL 176
           AE +R Y EF  + GEI++G ++R    N    V+V +G     S+GVI   E +  E+ 
Sbjct: 98  AENERTYGEFSTREGEIVAGVIQRDSRANARGLVVVRMGTETKASEGVIPAAEQVPGESY 157

Query: 177 RPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
             G+RV+ Y+  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R
Sbjct: 158 EHGNRVRCYVIGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHR 217

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           +K+AV S+   ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V
Sbjct: 218 SKIAVKSNLPGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDDDPARFVANALSPAKV 277

Query: 297 TKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             V ++D+      V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 278 VSVSIIDQAARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDI 323


>gi|15595145|ref|NP_212934.1| transcription elongation factor NusA [Borrelia burgdorferi B31]
 gi|218249928|ref|YP_002375299.1| transcription elongation protein NusA [Borrelia burgdorferi ZS7]
 gi|223889315|ref|ZP_03623902.1| transcription elongation protein NusA [Borrelia burgdorferi 64b]
 gi|226321265|ref|ZP_03796793.1| transcription elongation protein NusA [Borrelia burgdorferi Bol26]
 gi|3914177|sp|O51740|NUSA_BORBU RecName: Full=Transcription elongation protein nusA
 gi|2688748|gb|AAC67154.1| N-utilization substance protein A (nusA) [Borrelia burgdorferi B31]
 gi|218165116|gb|ACK75177.1| transcription elongation protein NusA [Borrelia burgdorferi ZS7]
 gi|223885236|gb|EEF56339.1| transcription elongation protein NusA [Borrelia burgdorferi 64b]
 gi|226233297|gb|EEH32048.1| transcription elongation protein NusA [Borrelia burgdorferi Bol26]
          Length = 482

 Score =  206 bits (523), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 126/396 (31%), Positives = 241/396 (60%), Gaps = 16/396 (4%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           +A ++ +  D +   + +S+  A +  +G+  +  ++ + +TGD+S++   ++V+EV++ 
Sbjct: 12  IANDRGMSIDSIRKTIKESVLIAYKKYFGSNENAFIKFDDDTGDLSVYAKKKIVKEVKDS 71

Query: 76  TCQISLK-VARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
             +I  K ++++   +I  G      + P  F R+++Q AKQ     ++  E +    EF
Sbjct: 72  LLEILEKDISKE---NIVEGDYAYIEINPKVFDRLSIQVAKQRTKNDLQGIEDNEILSEF 128

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           K K+ +++ G V++   G++ V+LGN+DG+I +     RE     D+++  +Y+V++ + 
Sbjct: 129 KSKLNKVVIGYVQQNRNGDLYVNLGNTDGIIPKKYQSPREVYNLNDKIRVLVYNVKKGKN 188

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           G +V+LSRTHP+F+ +L  +E+PEI  GI+++  + RDPG R K+AV+S    IDPVG C
Sbjct: 189 GIEVILSRTHPKFIEELLALEIPEIEEGIIKIHKIVRDPGYRIKVAVYSEKEEIDPVGPC 248

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVP 313
           +G +G R+Q+++ EL  EKIDI+ +S D   F+ ++L P+ +  V +LDED+ +  V+V 
Sbjct: 249 IGQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIKDSLTPSKIEHVYILDEDLHKALVVVS 308

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINV-DEII 372
            +QLSLAIG+ GQNVRLA++L  W ID+ T  + +     +    ++F  + + + D+++
Sbjct: 309 DDQLSLAIGKMGQNVRLANRLLDWAIDVKTSSQFA-----EMKANSEFKQETLEMFDKVM 363

Query: 373 AHLLVAEGFADVEELACVKISEIASI-----EGFDE 403
             ++  E F ++ +++ +K+ + + I     EGFD+
Sbjct: 364 QDVVEEEQFEEISKISDLKLLDPSVISNLSKEGFDD 399


>gi|42560896|ref|NP_975347.1| transcription elongation factor NusA [Mycoplasma mycoides subsp.
           mycoides SC str. PG1]
 gi|42492393|emb|CAE76989.1| transcriptional terminator [Mycoplasma mycoides subsp. mycoides SC
           str. PG1]
          Length = 584

 Score =  205 bits (522), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 116/344 (33%), Positives = 205/344 (59%), Gaps = 8/344 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  ELL+    +  EK I ++ +++ + + +QKA    Y T + I+++IN  TG I++ +
Sbjct: 3   NGTELLESIKLIEKEKGISKESIINGLKEGLQKAYERFYDTDAIIKIDINENTGLITMHQ 62

Query: 65  LLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLP-PMDFGRVAVQSAKQVIIQK 121
            L+VV  E++++   +I+L  A+ ++P I I   +  P+    +F R+ V   +Q+  QK
Sbjct: 63  ELKVVDDEQLDDDWLEITLSKAKLKNPDIQIDDTIYKPIEFSEEFSRMVVNQVRQIFQQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +REAER R Y +F    GE++   +  +    N ++D+  +   + + +TI+ E  +  +
Sbjct: 123 IREAERARIYEQFVSLEGEVVQAKIVGMNRENNYVLDINGTTAYLWKSKTINNEIFQINE 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +  YI  V +E +  Q+ +SRT P F+ KL   EVPE+  GIV++KAVSR+PG R+K+A
Sbjct: 183 IIDVYIEVVEKESKLSQISISRTAPNFLTKLIEREVPEVRMGIVEIKAVSREPGKRSKVA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V + +++++P+GA +G+ G+R+  +   L+ EKIDI+ W  D  T++INA+ P    KV+
Sbjct: 243 VITHNNNVEPIGAIIGVGGNRINRISDILKGEKIDIIRWDEDQITYLINAMTPV---KVI 299

Query: 301 LDEDVG-RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
               +G   +++VP  QLSLAIG++G   +L + L    I+I +
Sbjct: 300 SINKIGDEYDIVVPDTQLSLAIGKQGVAAKLIASLLKTKINIFS 343


>gi|260187857|ref|ZP_05765331.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           CPHL_A]
 gi|289448503|ref|ZP_06438247.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           CPHL_A]
 gi|289421461|gb|EFD18662.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           CPHL_A]
          Length = 347

 Score =  205 bits (522), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 131/337 (38%), Positives = 199/337 (59%), Gaps = 33/337 (9%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  ++ I  + +L  +  ++  A R   G  +D R+EI+ +TG + +            
Sbjct: 10  AIEVDRGISVNELLETIKSALLTAYRHTQGHQTDARIEIDRKTGVVRV------------ 57

Query: 75  YTCQISLKVARDRDPSIDIGGVVSD-PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
                   +AR+ D   + G ++S+    P  FGR+A  +A+QV++Q+ R+AE +R Y E
Sbjct: 58  --------IARETD---EAGNLISEWDDTPEGFGRIAATTARQVMLQRFRDAENERTYGE 106

Query: 134 FKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDRVKSY 185
           F  + GEI++G ++R    N    V+V +G     S+GVI   E +  E+   G+R++ Y
Sbjct: 107 FSTREGEIVAGVIQRDSRANARGLVVVRIGTETKASEGVIPAAEQVPGESYEHGNRLRCY 166

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV S+ 
Sbjct: 167 VVGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAVRSNV 226

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
           + ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V  V V+D+ 
Sbjct: 227 AGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDDDPARFVANALSPAKVVSVSVIDQT 286

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
                V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 287 ARAARVVVPDFQLSLAIGKDGQNARLAARLTGWRIDI 323


>gi|227543254|ref|ZP_03973303.1| transcription elongation factor NusA [Corynebacterium
           glucuronolyticum ATCC 51866]
 gi|227181063|gb|EEI62035.1| transcription elongation factor NusA [Corynebacterium
           glucuronolyticum ATCC 51866]
          Length = 326

 Score =  205 bits (522), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 126/338 (37%), Positives = 191/338 (56%), Gaps = 33/338 (9%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTM--SDIRVEINPETGDISLFRLLEVVEEVENYT 76
           EK I  + +L+ +A  + +A    +     S  RVEI+P++G +++F             
Sbjct: 10  EKGISVEDLLTTIAQGLHRAYLQAHHLEDESSARVEIDPDSGAVTVF------------- 56

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
                 + RD D  I    +      P DFGR+     +  + +++RE + DR + E+  
Sbjct: 57  -----AIERDEDGEI----ISEQDETPEDFGRLGASVVRDAVYRRLREVKTDRDFDEYAG 107

Query: 137 KVGEIISGTV----KRVEYGNVIVDLGN----SDGVIRRDETISRENLRPGDRVKSYIYD 188
             G+ +SG V    +  E G  +V LG      DG++   E I  ENL+ GDRVK YI  
Sbjct: 108 LEGKCVSGVVQADARANERGIAVVRLGTELQGQDGILLPGEQIPGENLKHGDRVKCYIVG 167

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V + +   Q+ LSRTHP+ + +LF +EVPE+ +G V++  ++R+ G R+K+AV ++   +
Sbjct: 168 VGKGRGSLQISLSRTHPELVRRLFELEVPEVESGDVEIVGIAREAGHRSKIAVHATTKGV 227

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G +G RV  V+ ELR EKIDI+ +  + AT+V NAL P+ V  V VLDE+   
Sbjct: 228 NAKGACIGPKGQRVNNVMRELRGEKIDIIDYDENPATYVGNALAPSKVVGVEVLDEENQI 287

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
             V VP  QLSLAIG+ GQN RLA++LTGW IDI ++E
Sbjct: 288 ARVTVPDYQLSLAIGKEGQNARLAARLTGWKIDIRSDE 325


>gi|203288228|ref|YP_002223243.1| N-utilization substance protein A [Borrelia recurrentis A1]
 gi|201085448|gb|ACH95022.1| N-utilization substance protein A [Borrelia recurrentis A1]
          Length = 494

 Score =  205 bits (522), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 139/428 (32%), Positives = 249/428 (58%), Gaps = 17/428 (3%)

Query: 11  QIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE 70
           Q+   +A E+ +  D +   + +S+  A +  +GT  +  ++ +  TGD+ ++    +V+
Sbjct: 20  QMIANIASERGMSIDAIRKTVRESVIIAYKKYFGTSDNALIKFDDNTGDLIVYSKKRIVD 79

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           EV+N   +I +  A+  +  +D    V   + P  F R+++Q AKQ     ++  E +  
Sbjct: 80  EVKNNVMEILVDDAKTFE-VVD-NEYVYVEINPKIFDRLSIQVAKQRTKSDLQGIEDNEL 137

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVR 190
           YLEFK K+ +I+ G V++   G++ V+LG++DGVI +     RE     D+V+  +Y V+
Sbjct: 138 YLEFKHKLHKIVIGYVQQNRNGDLYVNLGSTDGVIPKKYQSPREVYSLNDKVRVLVYSVK 197

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDP 250
           + + G +V+LSRTHP+F+ +L  +E+PEI  GI+++  + RDPG R K+AV+S    +D 
Sbjct: 198 KGRNGIEVILSRTHPKFIAELLALEIPEIEEGIIKIHKIVRDPGYRTKVAVYSEKEEVDS 257

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIE 309
           VG C+G +G R+Q+++ EL  EKIDI+ +S D   F+ ++L PA +  V ++DED+ +  
Sbjct: 258 VGPCIGQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIKDSLTPAKIDNVYIIDEDLHKAL 317

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS-INRQKDFNERTQFFMQAINV 368
           V+V  +QLSLAIG+ GQNVRLA++L  W ID+ T  + + +    +F + T F M     
Sbjct: 318 VVVSDDQLSLAIGKMGQNVRLANRLLDWAIDVKTNSQFAEMKASGEFKQDT-FEM----F 372

Query: 369 DEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKI 428
           D+II          +V+E    +I++I+ ++  D++   ++  R  + ++      + K+
Sbjct: 373 DKIIQD--------NVQEDEFEEINKISELKVLDDDIVAKLIQRDLDDIDNFLNASEDKL 424

Query: 429 RELGVSEE 436
            ELG++ E
Sbjct: 425 FELGITYE 432


>gi|37523058|ref|NP_926435.1| transcription elongation factor NusA [Gloeobacter violaceus PCC
           7421]
 gi|35214061|dbj|BAC91430.1| glr3489 [Gloeobacter violaceus PCC 7421]
          Length = 383

 Score =  205 bits (522), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 138/367 (37%), Positives = 204/367 (55%), Gaps = 29/367 (7%)

Query: 11  QIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIR------------VEINPETG 58
           Q  + ++ ++++ +  V   + ++++K       T  D R            VE++ +  
Sbjct: 11  QQIETISRQRNLPKHAVKEALIEALKKGYERFRKTYRDPRENSEEMAFDNFIVELDTDRE 70

Query: 59  DISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGG-VVSDPLPPM-DFGRVAVQSAKQ 116
              +     +VE V +   +I+L   R+  P  + GG VV D  P   DFGR+A    KQ
Sbjct: 71  GFRVLATKTIVETVSDTDQEIALIEVREVAPDAEPGGTVVVDVTPEKGDFGRMAAIQTKQ 130

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV------IRRDET 170
           V+ QK+R+ +R     EF++  G ++   V R E  +VI  + +  G       + ++E 
Sbjct: 131 VLSQKLRDQQRKLIQEEFRELEGTVLQARVMRFEGRSVICAVSSGFGQNEVEAELPKNEQ 190

Query: 171 ISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAV 229
           +  E  R G   K ++  V    +RGPQ+L+SR     +V LF  EVPEI + IV++ AV
Sbjct: 191 LPNEPYRIGSAFKVFLRKVWEGSRRGPQLLVSRADAGLVVYLFANEVPEIEDEIVRIVAV 250

Query: 230 SRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPD 282
           +R+        G R K+AV + +  +DPVGAC+G RGSR+QAVV ELR EKID++ WSPD
Sbjct: 251 AREANPPSRTVGPRTKIAVDTLERDVDPVGACIGARGSRIQAVVNELRGEKIDVIRWSPD 310

Query: 283 SATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            AT++ NAL PA V +V L D D  +  VIVP +QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 311 PATYISNALSPARVIQVRLVDPDARQAHVIVPDDQLSLAIGKEGQNVRLAARLTGWKIDI 370

Query: 342 ITEEEDS 348
               E S
Sbjct: 371 KKSSEYS 377


>gi|298372250|ref|ZP_06982240.1| transcription termination factor NusA [Bacteroidetes oral taxon 274
           str. F0058]
 gi|298275154|gb|EFI16705.1| transcription termination factor NusA [Bacteroidetes oral taxon 274
           str. F0058]
          Length = 417

 Score =  205 bits (522), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 111/326 (34%), Positives = 196/326 (60%), Gaps = 3/326 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYTC 77
           K+ID   +LS++ ++ +K   ++YG+  +     NP+ GD  ++R   VVE+  VE+   
Sbjct: 20  KNIDNSTMLSILEEAFRKVISNIYGSDQNYDFIFNPDKGDFEIWRNRIVVEDDKVEDPHL 79

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +ISL  AR      ++G  V + +    FGR AV +  Q++  K+ + ++D  Y ++   
Sbjct: 80  EISLSDARKIADDYEVGEEVQEQVDINSFGRRAVLNLSQILSAKIVDVQKDSLYTKYSQL 139

Query: 138 VGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           +G+IIS  V +V    +++ D  N++ ++ + + +  +  + G+ +++ +  V      P
Sbjct: 140 LGQIISAEVYQVWKKEILLLDDNNNEILLPKADQLPNDFFKKGEIIRAVVARVDNNNNNP 199

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           ++ +SRT P F+ +L   EVPEI +G++ +K + R PG +AK+AV S D  IDPVGACVG
Sbjct: 200 KIYVSRTLPLFLERLLEREVPEIQDGLITIKKIVRLPGEKAKIAVESYDDRIDPVGACVG 259

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           +RG+R+Q ++ EL  E ID++ ++ + + ++  AL PA VT +V+D +  R  V +  E 
Sbjct: 260 IRGNRIQPIIRELNKESIDVINYTSNPSLYIARALAPAKVTSIVIDNENKRANVYINPED 319

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDII 342
           +S AIG+ G N++LA QLTG+ I+II
Sbjct: 320 ISSAIGKNGANIKLAIQLTGYHIEII 345


>gi|227488651|ref|ZP_03918967.1| transcription elongation factor NusA [Corynebacterium
           glucuronolyticum ATCC 51867]
 gi|227091545|gb|EEI26857.1| transcription elongation factor NusA [Corynebacterium
           glucuronolyticum ATCC 51867]
          Length = 326

 Score =  205 bits (521), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 126/338 (37%), Positives = 190/338 (56%), Gaps = 33/338 (9%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTM--SDIRVEINPETGDISLFRLLEVVEEVENYT 76
           EK I  + +L+ +A  +  A    +     S  RVEI+P++G +++F             
Sbjct: 10  EKGISVEDLLTTIAQGLHSAYLQAHHLEDESSARVEIDPDSGAVTVF------------- 56

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
                 + RD D  I    +      P DFGR+     +  + +++RE + DR + E+  
Sbjct: 57  -----AIERDEDGEI----ISEQDETPEDFGRLGASVVRDAVYRRLREVKTDRDFDEYAG 107

Query: 137 KVGEIISGTV----KRVEYGNVIVDLGN----SDGVIRRDETISRENLRPGDRVKSYIYD 188
             G+ +SG V    +  E G  +V LG      DG++   E I  ENL+ GDRVK YI  
Sbjct: 108 LEGKCVSGVVQADARANERGIAVVRLGTELQGQDGILLPGEQIPGENLKHGDRVKCYIVG 167

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V + +   Q+ LSRTHP+ + +LF +EVPE+ +G V++  ++R+ G R+K+AV ++   +
Sbjct: 168 VGKGRGSLQISLSRTHPELVRRLFELEVPEVESGDVEIVGIAREAGHRSKIAVHATTKGV 227

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G +G RV  V+ ELR EKIDI+ +  + AT+V NAL P+ V  V VLDE+   
Sbjct: 228 NAKGACIGPKGQRVNNVMRELRGEKIDIIDYDENPATYVGNALAPSKVVGVEVLDEENQI 287

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
             V VP  QLSLAIG+ GQN RLA++LTGW IDI ++E
Sbjct: 288 ARVTVPDYQLSLAIGKEGQNARLAARLTGWKIDIRSDE 325


>gi|219684959|ref|ZP_03539900.1| transcription elongation protein NusA [Borrelia garinii PBr]
 gi|219671697|gb|EED28753.1| transcription elongation protein NusA [Borrelia garinii PBr]
          Length = 482

 Score =  205 bits (521), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 127/392 (32%), Positives = 236/392 (60%), Gaps = 9/392 (2%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           ++A ++S+  + +   + +S+  A +  +G+  +  V+ +  TGD+ ++   ++VEEV++
Sbjct: 11  SIANDRSMSIESIRKTIKESVLIAYKKYFGSNENAFVKFDDNTGDLVVYAKKKIVEEVKD 70

Query: 75  YTCQISLK-VARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
              +I  K ++++   +I  G      + P  F R+++Q AKQ     ++  E +    E
Sbjct: 71  SLLEILEKDISKE---NIVEGDYAYIEINPKIFDRLSIQVAKQRTKNDLQGIEDNEILSE 127

Query: 134 FKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
           FK K+ +++ G V++   G++ V+LGN+DG+I +     RE     D+++  +Y+V++ +
Sbjct: 128 FKSKLNKVVIGYVQQNRNGDLYVNLGNTDGIIPKKYQSPREVYSLNDKIRVLVYNVKKGK 187

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
            G +V+LSRTHP+F+ +L  +E+PEI  GI+++  + RDPG R K+AV+S    IDP+G 
Sbjct: 188 NGIEVILSRTHPKFIEELLALEIPEIEEGIIKIHKIVRDPGYRIKVAVYSEKEEIDPIGP 247

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIV 312
           C+G +G R+Q+++ EL  EKIDI+ +S D   F+ ++L PA +  V +LDED+ +  V+V
Sbjct: 248 CIGQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIKDSLTPAKIDHVYILDEDLHKALVVV 307

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEII 372
             +QLSLAIG+ GQNVRLA++L  W ID+ T  +      K  +E  Q  ++  N  +++
Sbjct: 308 SDDQLSLAIGKMGQNVRLANRLLDWAIDVKTSSQ--FAEMKANSEFKQETLEMFN--KVM 363

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEE 404
             ++  E F D+ +++ +K+ + + I    +E
Sbjct: 364 QDVVEEEQFEDISKISDLKLLDSSVISNLSKE 395


>gi|261338246|ref|ZP_05966130.1| transcription termination factor NusA [Bifidobacterium gallicum DSM
           20093]
 gi|270276899|gb|EFA22753.1| transcription termination factor NusA [Bifidobacterium gallicum DSM
           20093]
          Length = 381

 Score =  204 bits (520), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 122/330 (36%), Positives = 192/330 (58%), Gaps = 17/330 (5%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV-VEEVEN 74
           +A E+ ID + V   ++++++ A          +RVE++   G  +++   E+ VE  E 
Sbjct: 11  LAKEQGIDTETVDEALSEALRLAYLKTPNAAKHVRVELDERAGTFTIWARDEIRVEPTEE 70

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                      D    I++G    D   P DFGR+A  +A+QVI Q  R AE DR +  F
Sbjct: 71  -----------DPHGHIELGEEYDDT--PKDFGRLAAATARQVITQLFRRAEDDRIFGAF 117

Query: 135 KDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
             + G++++G +++   +  NV V +G+ + ++ R E +  E  R GDR++ Y+ +V R 
Sbjct: 118 SGQKGKLMTGVIQQDVKDPTNVHVAVGDVEAILPRREQVPGERYRHGDRIRVYVVNVNRG 177

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            RGP++++SR+HP  + KLF  EVPE+ +G V + A++R+ G+R K+AV ++   ++P G
Sbjct: 178 LRGPEIIVSRSHPDLVRKLFEREVPELVSGAVSIMAIAREAGARTKIAVRANTDGVNPKG 237

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEV-I 311
           A +G  GSRV+AV+  L +EKIDIV WS D A F+  AL PA    V +  D     V  
Sbjct: 238 ALIGPGGSRVRAVMENLGNEKIDIVDWSDDPAKFIGAALSPANAAGVDVISDKNNTAVAY 297

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +  +QLSLAIG+ GQN RLA++LTGW I I
Sbjct: 298 IHDDQLSLAIGKEGQNARLAAKLTGWKIGI 327


>gi|221195874|ref|ZP_03568927.1| transcription termination factor NusA [Atopobium rimae ATCC 49626]
 gi|221184348|gb|EEE16742.1| transcription termination factor NusA [Atopobium rimae ATCC 49626]
          Length = 415

 Score =  204 bits (520), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 136/363 (37%), Positives = 197/363 (54%), Gaps = 46/363 (12%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL- 66
           E+++    +  EK ID   +L  +  S+ K+   +       RV I+  TG + ++ L+ 
Sbjct: 4   EMMEALMTLCQEKHIDELYLLDRLEQSLAKSYADVLHLSYGARVTIDRTTGKVYVYELVP 63

Query: 67  --EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
             E  EE   Y     + V                   P    R A Q AK  I   VR+
Sbjct: 64  KGEPDEETGEYAEFDEVDVT------------------PEGTSRFAAQHAKNEIRALVRD 105

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV--------IRR-----DETI 171
           A R + Y EF  ++G+II+GTV +      I+ +   +GV        +RR     DE  
Sbjct: 106 AARQQIYEEFSHRIGDIITGTVLQSTPDFTIIKI--REGVEAELPHFDLRRFPEERDERP 163

Query: 172 SRENLRPGDRVKSYIYDVRR----------EQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
             E      R+K+ I DVR           E++ P +++SRTHP  + +LF +EVPE+Y 
Sbjct: 164 FGERYGHNQRIKAIIIDVRNPNNAQPAVRGERQRPPIVVSRTHPDLIRRLFELEVPEVYE 223

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           GIV +++V+R+PG R+K+AV SSD  +DPVGACVG +GSRV+ VV+ELR E++D+V W  
Sbjct: 224 GIVSIRSVAREPGIRSKIAVSSSDERLDPVGACVGPKGSRVRTVVSELRGERVDVVPWFD 283

Query: 282 DSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           D A  V +AL PA V++V++D +     VIVP +QLSLAIG+ GQN RLA++LTG  IDI
Sbjct: 284 DPARCVASALSPARVSRVIIDAETRHATVIVPDDQLSLAIGKEGQNARLAARLTGLHIDI 343

Query: 342 ITE 344
             E
Sbjct: 344 KNE 346


>gi|114777564|ref|ZP_01452545.1| transcription elongation factor NusA [Mariprofundus ferrooxydans
           PV-1]
 gi|114552035|gb|EAU54552.1| transcription elongation factor NusA [Mariprofundus ferrooxydans
           PV-1]
          Length = 254

 Score =  204 bits (520), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 115/273 (42%), Positives = 164/273 (60%), Gaps = 19/273 (6%)

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           + S+D S+DPVGACVGMRG+RVQAVV EL  EKIDI+ W+ D A FV+NAL PA + +V+
Sbjct: 1   MISTDPSVDPVGACVGMRGARVQAVVNELHGEKIDIIEWTDDPAAFVVNALAPAEIERVM 60

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DE    IE  V +E L++AIGRRGQNVRLAS L+GW I++++  E+   R ++  +   
Sbjct: 61  VDEATNTIEAAVSEENLAIAIGRRGQNVRLASDLSGWHIELMSTGEEKERRHEEVVKART 120

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F + ++VDE  A +LV EGF  +EELA     +IA+IEG D E A E+Q RAR  L  +
Sbjct: 121 VFQEGLDVDEAFATVLVDEGFFSLEELAYCAAEDIAAIEGLDAEIAQELQKRARNVL--L 178

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           D  L++   E G +  L  +PG+  +I   L    + T+E LA  +           G  
Sbjct: 179 DQALKQGSEEAGSAVTLLDLPGMTREIAEQLAAREMTTVESLADAA-----------GDE 227

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           IE  +G        +++ +++II AR   GW +
Sbjct: 228 IEDIEGL------SREEADALIIAAREACGWFD 254


>gi|216264195|ref|ZP_03436187.1| transcription elongation protein NusA [Borrelia burgdorferi 156a]
 gi|221217568|ref|ZP_03589037.1| transcription elongation protein NusA [Borrelia burgdorferi 72a]
 gi|225550297|ref|ZP_03771256.1| transcription elongation protein NusA [Borrelia burgdorferi 118a]
 gi|215980668|gb|EEC21475.1| transcription elongation protein NusA [Borrelia burgdorferi 156a]
 gi|221192514|gb|EEE18732.1| transcription elongation protein NusA [Borrelia burgdorferi 72a]
 gi|225369165|gb|EEG98619.1| transcription elongation protein NusA [Borrelia burgdorferi 118a]
          Length = 482

 Score =  204 bits (520), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 124/392 (31%), Positives = 238/392 (60%), Gaps = 11/392 (2%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           +A ++ +  D +   + +S+  A +  +G+  +  V+ + +TGD+S++   ++V+EV++ 
Sbjct: 12  IANDRGMSIDSIRKTIKESVLIAYKKYFGSNENAFVKFDDDTGDLSVYAKKKIVKEVKDS 71

Query: 76  TCQISLK-VARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
             +I  K ++++   +I  G      + P  F R+++Q AKQ     ++  E +    EF
Sbjct: 72  LLEILEKDISKE---NIVEGDYAYIEINPKVFDRLSIQVAKQRTKNDLQGIEDNEILSEF 128

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           K K+ +++ G V++   G++ V+LGN+DG+I +     RE     D+++  +Y+V++ + 
Sbjct: 129 KSKLNKVVIGYVQQNRNGDLYVNLGNTDGIIPKKYQSPREVYNLNDKIRVLVYNVKKGKN 188

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           G +V+LSRTHP+F+ +L  +E+PEI  GI+++  + RDPG R K+AV+S    IDPVG C
Sbjct: 189 GIEVILSRTHPKFIEELLALEIPEIEEGIIKIHKIVRDPGYRIKVAVYSEKEEIDPVGPC 248

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVP 313
           +G +G R+Q+++ EL  EKIDI+ +S D   F+ ++L P+ +  V +LDED+ +  V+V 
Sbjct: 249 IGQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIKDSLTPSKIEHVYILDEDLHKALVVVS 308

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINV-DEII 372
            +QLSLAIG+ GQNVRLA++L  W ID+ T  + +     +    ++F  + + + D+++
Sbjct: 309 DDQLSLAIGKMGQNVRLANRLLDWAIDVKTSSQFA-----EMKANSEFKQETLEMFDKVM 363

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEE 404
             ++  E F ++ +++ +K+ + + I    +E
Sbjct: 364 QDVVEEEQFEEISKISDLKLLDPSVISNLSKE 395


>gi|111115635|ref|YP_710253.1| transcription elongation factor NusA [Borrelia afzelii PKo]
 gi|216263366|ref|ZP_03435361.1| transcription elongation protein NusA [Borrelia afzelii ACA-1]
 gi|110890909|gb|ABH02077.1| N-utilization substance protein A [Borrelia afzelii PKo]
 gi|215980210|gb|EEC21031.1| transcription elongation protein NusA [Borrelia afzelii ACA-1]
          Length = 482

 Score =  204 bits (520), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 124/393 (31%), Positives = 239/393 (60%), Gaps = 11/393 (2%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           ++A ++S+  + +   + +S+  A +  +G+  +  ++ + +TGD+ ++   ++VEEV++
Sbjct: 11  SIANDRSMSIESIRKTIKESVLIAYKKYFGSNENAFIKFDDDTGDLIVYAKKKIVEEVKD 70

Query: 75  YTCQISLK-VARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
              +I  K ++R+   +I  G      + P  F R+++Q AKQ     ++  E +    E
Sbjct: 71  SLLEILEKDISRE---NIVEGDYAYIEINPKVFDRLSIQVAKQRTKNDLQGIEDNEILSE 127

Query: 134 FKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
           FK K+ +++ G V++   G++ V+LGN+DG+I +     RE     D+++  +Y+V++ +
Sbjct: 128 FKSKLNKVVIGYVQQNRNGDLYVNLGNTDGIIPKKYQSPREVYSLNDKIRVLVYNVKKGK 187

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
            G +V+LSRTHP+F+ +L  +E+PEI  GI+++  + RDPG R K+AV+S    IDPVG 
Sbjct: 188 NGIEVILSRTHPKFIEELLALEIPEIEEGIIKIHKIVRDPGYRIKVAVYSEKEEIDPVGP 247

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIV 312
           C+G +G R+Q+++ EL  EKIDI+ +S D   F+ ++L P+ +  V +LDED+ +  V+V
Sbjct: 248 CIGQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIKDSLTPSKIEHVYILDEDLHKALVVV 307

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINV-DEI 371
             +QLSLAIG+ GQNVRLA++L  W ID+ T  + +     +    ++F  + + + D++
Sbjct: 308 SDDQLSLAIGKMGQNVRLANRLLDWAIDVKTSSQFA-----EMKANSEFKQETLEMFDKV 362

Query: 372 IAHLLVAEGFADVEELACVKISEIASIEGFDEE 404
           +  ++  E F ++ +++ +K+ + + I    +E
Sbjct: 363 MQDVVEEEQFEEISKISDLKLLDSSVISNLSKE 395


>gi|203284696|ref|YP_002222436.1| N-utilization substance protein A [Borrelia duttonii Ly]
 gi|201084139|gb|ACH93730.1| N-utilization substance protein A [Borrelia duttonii Ly]
          Length = 494

 Score =  204 bits (520), Expect = 3e-50,   Method: Compositional matrix adjust.
 Identities = 139/428 (32%), Positives = 249/428 (58%), Gaps = 17/428 (3%)

Query: 11  QIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE 70
           Q+   +A E+ +  D +   + +S+  A +  +GT  +  ++ +  TGD+ ++    +V+
Sbjct: 20  QMIANIASERGMSIDAIRKTVRESVIIAYKKYFGTSDNALIKFDDNTGDLIVYSKKRIVD 79

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           EV+N   +I +  A+  +  +D    V   + P  F R+++Q AKQ     ++  E +  
Sbjct: 80  EVKNNVMEILVDDAKTFE-VVD-NEYVYVEINPKIFDRLSIQVAKQRTKSDLQGIEDNEL 137

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVR 190
           YLEFK K+ +I+ G V++   G++ V+LG++DGVI +     RE     D+V+  +Y V+
Sbjct: 138 YLEFKHKLHKIVIGYVQQNRNGDLYVNLGSTDGVIPKKYQSPREVYSLNDKVRVLVYSVK 197

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDP 250
           + + G +V+LSRTHP+F+ +L  +E+PEI  GI+++  + RDPG R K+AV+S    +D 
Sbjct: 198 KGRNGIEVILSRTHPKFIEELLALEIPEIEEGIIKIHKIVRDPGYRTKVAVYSEKEEVDS 257

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIE 309
           VG C+G +G R+Q+++ EL  EKIDI+ +S D   F+ ++L PA +  V ++DED+ +  
Sbjct: 258 VGPCIGQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIKDSLTPAKIDNVYIIDEDLHKAL 317

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS-INRQKDFNERTQFFMQAINV 368
           V+V  +QLSLAIG+ GQNVRLA++L  W ID+ T  + + +    +F + T F M     
Sbjct: 318 VVVSDDQLSLAIGKMGQNVRLANRLLDWAIDVKTNSQFAEMKASGEFKQDT-FEM----F 372

Query: 369 DEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKI 428
           D+II          +V+E    +I++I+ ++  D++   ++  R  + ++      + K+
Sbjct: 373 DKIIQD--------NVQEDEFEEINKISELKVLDDDIVAKLIQRDLDDIDNFLNASEDKL 424

Query: 429 RELGVSEE 436
            ELG++ E
Sbjct: 425 FELGITYE 432


>gi|227495147|ref|ZP_03925463.1| transcription termination factor NusA [Actinomyces coleocanis DSM
           15436]
 gi|226831599|gb|EEH63982.1| transcription termination factor NusA [Actinomyces coleocanis DSM
           15436]
          Length = 343

 Score =  204 bits (519), Expect = 3e-50,   Method: Compositional matrix adjust.
 Identities = 116/327 (35%), Positives = 194/327 (59%), Gaps = 24/327 (7%)

Query: 22  IDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISL 81
           ID   ++  + D++ K    + G++ + R+EI+ +TG +++                ++ 
Sbjct: 13  IDGITLVKAIEDALLKVYHKMPGSIKEARIEIDRKTGKVAV----------------MAT 56

Query: 82  KVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEI 141
           +   D +P     G   D   P +FGR+A  +A+ +I Q++REA+  +   EF++K G +
Sbjct: 57  EFDDDDNPI----GEFDDT--PKEFGRIATATARSIITQRIREADDSKVLGEFRNKTGTV 110

Query: 142 ISGTVK-RVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLL 200
           + GTV+        ++ +G  + ++   E +  E    G  +++Y+ +V R +RG ++ +
Sbjct: 111 VVGTVEAHTNPHFTLLRVGEFEAILPESEKVPGETYEHGKVIRAYVLEVTRGERGARITV 170

Query: 201 SRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGS 260
           SR+HP F+  LF  EVPEI  G+V++K+V+R+ G R+K+AV +++  I+  GAC+G  G 
Sbjct: 171 SRSHPNFVEALFAREVPEIAQGLVEIKSVAREAGHRSKIAVAATEEGINAKGACIGPMGR 230

Query: 261 RVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE-DVGRIEVIVPKEQLSL 319
           RV+AV+TEL+ EKIDIV +S D A F+ N+L PA V+ V +D     +  VIVP  Q SL
Sbjct: 231 RVRAVMTELQGEKIDIVDYSTDPARFIANSLSPARVSTVTIDSLPEKKATVIVPDFQFSL 290

Query: 320 AIGRRGQNVRLASQLTGWTIDIITEEE 346
           AIGR GQN RLA++L G+ IDI ++ E
Sbjct: 291 AIGREGQNARLAARLCGFHIDIHSDTE 317


>gi|81300831|ref|YP_401039.1| transcription elongation factor NusA [Synechococcus elongatus PCC
           7942]
 gi|81169712|gb|ABB58052.1| NusA antitermination factor [Synechococcus elongatus PCC 7942]
          Length = 441

 Score =  204 bits (519), Expect = 3e-50,   Method: Compositional matrix adjust.
 Identities = 140/371 (37%), Positives = 208/371 (56%), Gaps = 34/371 (9%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGT-----------MSDI 49
           MV+   LE  Q+  A++ +K +  +V+   + +++ K       T             +I
Sbjct: 3   MVTLPGLE--QLIYAISEQKKLPANVIEEALKEALLKGYERYRRTQQMGEQFEEDYFDNI 60

Query: 50  RVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFG 107
            VE++ E     +     +V +VEN   QI+L   ++  P    G +V   + P   DFG
Sbjct: 61  DVELDVEQEGFRVLATKTIVNQVENPDHQIALADVQEVAPDAQAGEIVVLDVTPDKDDFG 120

Query: 108 RVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIR- 166
           R+A    KQV+ QK+R+ +R     EF+D    ++   V R E  +VI  LG S G+ R 
Sbjct: 121 RMAAIQTKQVLSQKLRDHQRKLIQEEFQDLEDPVLMAKVLRFERQSVI--LGVSSGLGRP 178

Query: 167 -------RDETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPE 218
                  R E +  +N R     + ++ +V    +RGPQ+++SR +   +V LF  EVPE
Sbjct: 179 EVEAELPRREQLPNDNYRANATFRVFLKEVSEVPRRGPQLIVSRANAGLVVYLFENEVPE 238

Query: 219 IYNGIVQVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRD 271
           I +G+V++ AV+R+        G R K+AV + +  +DPVGAC+G RGSR+Q VV ELR 
Sbjct: 239 IQDGVVRIVAVAREANPPTRHVGPRTKIAVDTLEREVDPVGACIGARGSRIQVVVNELRG 298

Query: 272 EKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI-EVIVPKEQLSLAIGRRGQNVRL 330
           EKID++ WSPD AT++ NAL PA V +V L +  GRI  V+V  +QLSLAIG+ GQNVRL
Sbjct: 299 EKIDVIRWSPDPATYIANALSPARVQEVRLVDPEGRIAHVLVNDDQLSLAIGKEGQNVRL 358

Query: 331 ASQLTGWTIDI 341
           A++LTGW IDI
Sbjct: 359 AARLTGWKIDI 369


>gi|298490031|ref|YP_003720208.1| NusA antitermination factor ['Nostoc azollae' 0708]
 gi|298231949|gb|ADI63085.1| NusA antitermination factor ['Nostoc azollae' 0708]
          Length = 425

 Score =  204 bits (519), Expect = 3e-50,   Method: Compositional matrix adjust.
 Identities = 127/299 (42%), Positives = 181/299 (60%), Gaps = 20/299 (6%)

Query: 63  FRLLE---VVEEVENYTCQISLKVARDRDPSIDIG-GVVSDPLPPM-DFGRVAVQSAKQV 117
           FR+L    +VE+V N   QISL+  +   P    G  VV D  P   +FGR+A    KQV
Sbjct: 72  FRVLSTKTIVEQVNNSDHQISLEEVQQVAPEAQSGDSVVLDVTPDQGEFGRMAAMQTKQV 131

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV------IRRDETI 171
           + QK+R+ +R     EF+D    ++   V R E  +VI+ + +  G       + + E +
Sbjct: 132 LAQKLRDQQRQMVQEEFQDLESTVLQARVLRFERQSVILAVTSGFGQPEVEAELPKREQL 191

Query: 172 SRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVS 230
             +N R     K Y+  V + +QRGPQ+L+SR     +V LF  EVPEI + +V++ AV+
Sbjct: 192 PNDNYRANATFKVYLKKVSQGQQRGPQLLVSRADAGLVVYLFANEVPEIEDEVVRIVAVA 251

Query: 231 RDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDS 283
           R+        G R K+AV + D  +DPVGAC+G RGSR+Q VV ELR EKID++ WSPD 
Sbjct: 252 REANPPSRYVGPRTKIAVDTLDRDVDPVGACIGARGSRIQVVVNELRGEKIDVIRWSPDP 311

Query: 284 ATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           AT++ NAL PA V +V ++D +  +  V+V ++QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 312 ATYIANALSPARVDEVRLMDPESRQTHVLVAEDQLSLAIGKEGQNVRLAARLTGWKIDI 370


>gi|50954461|ref|YP_061749.1| transcription elongation factor NusA [Leifsonia xyli subsp. xyli
           str. CTCB07]
 gi|50950943|gb|AAT88644.1| transcription termination/antitermination factor [Leifsonia xyli
           subsp. xyli str. CTCB07]
          Length = 332

 Score =  204 bits (519), Expect = 3e-50,   Method: Compositional matrix adjust.
 Identities = 108/249 (43%), Positives = 164/249 (65%), Gaps = 5/249 (2%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNS 161
           P DFGR+A  +AKQVI Q++R+   D    EF+   G+I++G +++     ++ +DLG+ 
Sbjct: 83  PSDFGRIAAFAAKQVINQRLRDLADDAVLGEFRGCEGDIVAGVIQQGPNPRMVHIDLGSV 142

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           + ++  +E +  E    G R++ Y+  V +  +GP + +SRTHP  + KLF +EVPEI +
Sbjct: 143 EAILPPEEQVHGEEYPHGSRIRVYVTSVAKGPKGPSITVSRTHPTLVRKLFALEVPEIAS 202

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           G+V++ +++R+ G R K+AV +++  ++  GAC+G  G RV+AV  EL  EKIDIV +SP
Sbjct: 203 GVVEIVSIAREAGHRTKIAVRATEPGVNAKGACIGELGQRVRAVTAELNSEKIDIVDYSP 262

Query: 282 DSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D ATFV +AL PA VT   V+DE +  +  +VP  QLSLAIG+ GQN RLA++LTG  ID
Sbjct: 263 DLATFVSSALSPAKVTSAFVIDESLKAVRALVPDYQLSLAIGKEGQNARLAAKLTGAKID 322

Query: 341 IITEEEDSI 349
           I   + DSI
Sbjct: 323 I---QPDSI 328


>gi|224533442|ref|ZP_03674035.1| transcription elongation protein NusA [Borrelia burgdorferi
           CA-11.2a]
 gi|225549360|ref|ZP_03770332.1| transcription elongation protein NusA [Borrelia burgdorferi 94a]
 gi|224513404|gb|EEF83762.1| transcription elongation protein NusA [Borrelia burgdorferi
           CA-11.2a]
 gi|225369988|gb|EEG99429.1| transcription elongation protein NusA [Borrelia burgdorferi 94a]
 gi|312148269|gb|ADQ30928.1| transcription elongation protein NusA [Borrelia burgdorferi JD1]
          Length = 482

 Score =  204 bits (519), Expect = 3e-50,   Method: Compositional matrix adjust.
 Identities = 123/392 (31%), Positives = 238/392 (60%), Gaps = 11/392 (2%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           +A ++ +  D +   + +S+  A +  +G+  +  ++ + +TGD+S++   ++V+EV++ 
Sbjct: 12  IANDRGMSIDSIRKTIKESVLIAYKKYFGSNENAFIKFDDDTGDLSVYAKKKIVKEVKDS 71

Query: 76  TCQISLK-VARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
             +I  K ++++   +I  G      + P  F R+++Q AKQ     ++  E +    EF
Sbjct: 72  LLEILEKDISKE---NIVEGDYAYIEINPKVFDRLSIQVAKQRTKNDLQGIEDNEILSEF 128

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           K K+ +++ G V++   G++ V+LGN+DG+I +     RE     D+++  +Y+V++ + 
Sbjct: 129 KSKLNKVVIGYVQQNRNGDLYVNLGNTDGIIPKKYQSPREVYNLNDKIRVLVYNVKKGKN 188

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           G +V+LSRTHP+F+ +L  +E+PEI  GI+++  + RDPG R K+AV+S    IDPVG C
Sbjct: 189 GIEVILSRTHPKFIEELLALEIPEIEEGIIKIHKIVRDPGYRIKVAVYSEKEEIDPVGPC 248

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVP 313
           +G +G R+Q+++ EL  EKIDI+ +S D   F+ ++L P+ +  V +LDED+ +  V+V 
Sbjct: 249 IGQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIKDSLTPSKIEHVYILDEDLHKALVVVS 308

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINV-DEII 372
            +QLSLAIG+ GQNVRLA++L  W ID+ T  + +     +    ++F  + + + D+++
Sbjct: 309 DDQLSLAIGKMGQNVRLANRLLDWAIDVKTSSQFA-----EMKANSEFKQETLEMFDKVM 363

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEE 404
             ++  E F ++ +++ +K+ + + I    +E
Sbjct: 364 QDVVEEEQFEEISKISDLKLLDPSVISNLSKE 395


>gi|257784634|ref|YP_003179851.1| NusA antitermination factor [Atopobium parvulum DSM 20469]
 gi|257473141|gb|ACV51260.1| NusA antitermination factor [Atopobium parvulum DSM 20469]
          Length = 413

 Score =  204 bits (518), Expect = 4e-50,   Method: Compositional matrix adjust.
 Identities = 135/363 (37%), Positives = 199/363 (54%), Gaps = 46/363 (12%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL- 66
           E+++    +  EK ID   +L  +  S+ K+   +       RV I+  TG + ++ L+ 
Sbjct: 4   EMMEALMLLCQEKHIDELYLLDRLEQSLAKSYADVLHLDFGARVTIDRATGRVYVYELVP 63

Query: 67  --EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
             E  EE   YT    + V                   P D  R+A Q AK  I   VR 
Sbjct: 64  KGEPDEETGEYTEFDEVDVT------------------PPDTSRIAAQHAKAEIKTLVRN 105

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV-------------IRRDETI 171
           A R + Y EF+ +VG+II+GTV +      I+ +   +GV               RDE  
Sbjct: 106 AARAQIYDEFRGRVGDIITGTVLQSTPDFTIIKI--REGVEAELPHFDQRRFPDERDERP 163

Query: 172 SRENLRPGDRVKSYIYDVRR----------EQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           + E      R+K+ I DVR           E++ P +++SRTHP  + +LF +EVPE+Y+
Sbjct: 164 AGERYLHNQRIKAIIVDVRDPNATQPAVRGERQRPPIVVSRTHPDLIRRLFELEVPEVYD 223

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           G+V +++++R+ G R+K+AV S D  +DPVGACVG +GSRV+ VV+ELR E++D+V W  
Sbjct: 224 GVVSIRSIAREAGVRSKIAVSSVDERLDPVGACVGPKGSRVRTVVSELRGERVDVVPWFD 283

Query: 282 DSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           D+A  V +AL PA V++V++D   G   VIVP +QLSLAIG+ GQN RLA++LTG  IDI
Sbjct: 284 DAARCVASALSPARVSRVIVDGATGHATVIVPDDQLSLAIGKEGQNARLAARLTGLHIDI 343

Query: 342 ITE 344
             E
Sbjct: 344 KNE 346


>gi|226320845|ref|ZP_03796397.1| transcription elongation protein NusA [Borrelia burgdorferi 29805]
 gi|226233711|gb|EEH32440.1| transcription elongation protein NusA [Borrelia burgdorferi 29805]
 gi|312149161|gb|ADQ29232.1| transcription elongation protein NusA [Borrelia burgdorferi N40]
          Length = 482

 Score =  204 bits (518), Expect = 4e-50,   Method: Compositional matrix adjust.
 Identities = 123/392 (31%), Positives = 238/392 (60%), Gaps = 11/392 (2%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           +A ++ +  D +   + +S+  A +  +G+  +  ++ + +TGD+S++   ++V+EV++ 
Sbjct: 12  IANDRGMSIDSIRKTIKESVLIAYKKYFGSNENAFIKFDDDTGDLSVYAKKKIVKEVKDS 71

Query: 76  TCQISLK-VARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
             +I  K ++++   +I  G      + P  F R+++Q AKQ     ++  E +    EF
Sbjct: 72  LLEILEKDISKE---NIVEGDYAYIEINPKVFDRLSIQVAKQRTKNDLQGIEDNEILSEF 128

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           K K+ +++ G V++   G++ V+LGN+DG+I +     RE     D+++  +Y+V++ + 
Sbjct: 129 KSKLNKVVIGYVQQNRNGDLYVNLGNTDGIIPKKYQSPREVYNLNDKIRVLVYNVKKGKN 188

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           G +V+LSRTHP+F+ +L  +E+PEI  GI+++  + RDPG R K+AV+S    IDPVG C
Sbjct: 189 GIEVILSRTHPKFIEELLALEIPEIEEGIIKIHKIVRDPGYRIKVAVYSEKEEIDPVGPC 248

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVP 313
           +G +G R+Q+++ EL  EKIDI+ +S D   F+ ++L P+ +  V +LDED+ +  V+V 
Sbjct: 249 IGQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIKDSLTPSKIEHVYILDEDLHKALVVVS 308

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINV-DEII 372
            +QLSLAIG+ GQNVRLA++L  W ID+ T  + +     +    ++F  + + + D+++
Sbjct: 309 DDQLSLAIGKMGQNVRLANRLLDWAIDVKTSSQFA-----EMKANSEFKQETLEMFDKVM 363

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEE 404
             ++  E F ++ +++ +K+ + + I    +E
Sbjct: 364 QDVVEEEQFEEISKISDLKLLDPSVISNLSKE 395


>gi|304390822|ref|ZP_07372774.1| transcription termination factor NusA [Mobiluncus curtisii subsp.
           curtisii ATCC 35241]
 gi|304325705|gb|EFL92951.1| transcription termination factor NusA [Mobiluncus curtisii subsp.
           curtisii ATCC 35241]
          Length = 328

 Score =  204 bits (518), Expect = 4e-50,   Method: Compositional matrix adjust.
 Identities = 127/336 (37%), Positives = 191/336 (56%), Gaps = 25/336 (7%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD-IRVEINPETGDISLFRLLEVVEEVEN 74
           V  EK +D + +++ +  ++ KA R+  G   +  RVE++ +TG++ +      V+E++ 
Sbjct: 11  VEAEKGMDMNSLINTVEQALLKAYRNQPGAEKEHSRVEVDRKTGEVRVL-----VKELDE 65

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              ++                     + P DFGR A  + K VIIQ+ +E E      +F
Sbjct: 66  DGTELG-----------------ESEITPKDFGRTAAATVKSVIIQRFQEEEDKAVLGDF 108

Query: 135 KDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
           KD+VG+++SG V       ++ V+LG+ +G+I   E +  E  + G R+  Y+    R  
Sbjct: 109 KDRVGQVVSGVVTAGRDPKLVTVNLGDVEGIIPPAEQVPGEKYQHGVRLSVYVLAASRGF 168

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
           +GP + LSRTHP  +  LF  EVPEI    V +++V+R+PG R K+AV  ++  I+  GA
Sbjct: 169 KGPHIELSRTHPGLVQGLFKREVPEIDREEVVIESVAREPGHRTKIAVRPTEKGINAKGA 228

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIV 312
           C+G  GSRV+AV+ EL  EKIDIV W+ D   +V NAL PA V  V V+DE      V+V
Sbjct: 229 CIGPNGSRVRAVMNELNGEKIDIVDWAEDPTVYVANALSPAKVISVRVIDEAKRLARVVV 288

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           P  Q SLAIG+ GQN RLAS+LTGW IDI ++ E+ 
Sbjct: 289 PDFQQSLAIGKEGQNARLASRLTGWGIDIHSDTENG 324


>gi|315656401|ref|ZP_07909290.1| transcription termination factor NusA [Mobiluncus curtisii subsp.
           holmesii ATCC 35242]
 gi|315492960|gb|EFU82562.1| transcription termination factor NusA [Mobiluncus curtisii subsp.
           holmesii ATCC 35242]
          Length = 328

 Score =  203 bits (517), Expect = 5e-50,   Method: Compositional matrix adjust.
 Identities = 127/336 (37%), Positives = 190/336 (56%), Gaps = 25/336 (7%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD-IRVEINPETGDISLFRLLEVVEEVEN 74
           V  EK +D + ++  +  ++ KA R+  G   +  RVE++ +TG++ +      V+E++ 
Sbjct: 11  VEAEKGMDMNSLIDTVEQALLKAYRNQSGAEKEHSRVEVDRKTGEVRVL-----VKELDE 65

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              ++                     + P DFGR A  + K VIIQ+ +E E      +F
Sbjct: 66  DGTELG-----------------ESEITPKDFGRTAAATVKSVIIQRFQEEEDKAVLGDF 108

Query: 135 KDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
           KD+VG+++SG V       ++ V+LG+ +G+I   E +  E  + G R+  Y+    R  
Sbjct: 109 KDRVGQVVSGVVTAGRDPKLVTVNLGDVEGIIPPAEQVPGEKYQHGVRLSVYVLAASRGF 168

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
           +GP + LSRTHP  +  LF  EVPEI    V +++V+R+PG R K+AV  ++  I+  GA
Sbjct: 169 KGPHIELSRTHPGLVQGLFKREVPEIDREEVVIESVAREPGHRTKIAVRPTEKGINAKGA 228

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIV 312
           C+G  GSRV+AV+ EL  EKIDIV W+ D   +V NAL PA V  V V+DE      V+V
Sbjct: 229 CIGPNGSRVRAVMNELNGEKIDIVDWAEDPTVYVANALSPAKVISVRVIDEAKRLARVVV 288

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           P  Q SLAIG+ GQN RLAS+LTGW IDI ++ E+ 
Sbjct: 289 PDFQQSLAIGKEGQNARLASRLTGWGIDIHSDTENG 324


>gi|148273335|ref|YP_001222896.1| transcription elongation factor NusA [Clavibacter michiganensis
           subsp. michiganensis NCPPB 382]
 gi|147831265|emb|CAN02221.1| putative transcriptional termination/antitermination factor
           [Clavibacter michiganensis subsp. michiganensis NCPPB
           382]
          Length = 335

 Score =  203 bits (517), Expect = 5e-50,   Method: Compositional matrix adjust.
 Identities = 113/249 (45%), Positives = 161/249 (64%), Gaps = 5/249 (2%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNS 161
           P DFGR+A  +AKQVI Q++R+   DR   EFK + G+I++G V++     +I VDLG  
Sbjct: 85  PSDFGRIAAFAAKQVINQRLRDIGDDRILGEFKGREGDIVAGVVQQGPNPRMIHVDLGTI 144

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           + ++  +E +  E    G R++ Y+  V R  +GPQ+ +SRTHP  + KLF +EVPEI  
Sbjct: 145 EAILPPEEQVPGEKYVHGSRLRVYVTSVSRGAKGPQITVSRTHPSLVRKLFALEVPEIAQ 204

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           G+V++ +++R+ G R K+AV +++  I+  GAC+G  G RV+AV  EL DEKIDIV +S 
Sbjct: 205 GLVEIVSLAREAGHRTKIAVRATEPGINAKGACIGELGQRVRAVTAELNDEKIDIVDYSE 264

Query: 282 DSATFVINALRPAIVT-KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
               FV NAL PA VT   V+D+    +  +VP  QLSLAIG+ GQN RLA++LTG  ID
Sbjct: 265 SLPVFVGNALSPARVTSSFVIDQATKAVRALVPDYQLSLAIGKEGQNARLAAKLTGAKID 324

Query: 341 IITEEEDSI 349
           I   + DSI
Sbjct: 325 I---QPDSI 330


>gi|315655685|ref|ZP_07908583.1| transcription termination factor NusA [Mobiluncus curtisii ATCC
           51333]
 gi|315489749|gb|EFU79376.1| transcription termination factor NusA [Mobiluncus curtisii ATCC
           51333]
          Length = 328

 Score =  203 bits (516), Expect = 6e-50,   Method: Compositional matrix adjust.
 Identities = 127/336 (37%), Positives = 190/336 (56%), Gaps = 25/336 (7%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD-IRVEINPETGDISLFRLLEVVEEVEN 74
           V  EK +D + ++  +  ++ KA R+  G   +  RVE++ +TG++ +      V+E++ 
Sbjct: 11  VEAEKGMDMNSLIDTVEQALLKAYRNQPGAEKEHSRVEVDRKTGEVRVL-----VKELDE 65

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              ++                     + P DFGR A  + K VIIQ+ +E E      +F
Sbjct: 66  DGTELG-----------------ESEITPKDFGRTAAATVKSVIIQRFQEEEDKAVLGDF 108

Query: 135 KDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
           KD+VG+++SG V       ++ V+LG+ +G+I   E +  E  + G R+  Y+    R  
Sbjct: 109 KDRVGQVVSGVVTAGRDPKLVTVNLGDVEGIIPPAEQVPGEKYQHGVRLSVYVLAASRGF 168

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
           +GP + LSRTHP  +  LF  EVPEI    V +++V+R+PG R K+AV  ++  I+  GA
Sbjct: 169 KGPHIELSRTHPGLVQGLFKREVPEIDREEVVIESVAREPGHRTKIAVRPTEKGINAKGA 228

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIV 312
           C+G  GSRV+AV+ EL  EKIDIV W+ D   +V NAL PA V  V V+DE      V+V
Sbjct: 229 CIGPNGSRVRAVMNELNGEKIDIVDWAEDPTVYVANALSPAKVISVRVIDEAKRLARVVV 288

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           P  Q SLAIG+ GQN RLAS+LTGW IDI ++ E+ 
Sbjct: 289 PDFQQSLAIGKEGQNARLASRLTGWGIDIHSDTENG 324


>gi|306836351|ref|ZP_07469329.1| transcription termination factor NusA [Corynebacterium accolens
           ATCC 49726]
 gi|304567711|gb|EFM43298.1| transcription termination factor NusA [Corynebacterium accolens
           ATCC 49726]
          Length = 338

 Score =  203 bits (516), Expect = 7e-50,   Method: Compositional matrix adjust.
 Identities = 124/319 (38%), Positives = 190/319 (59%), Gaps = 18/319 (5%)

Query: 33  DSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSID 92
           D ++  A +L  +  D R        + + FR+     +++  T  +S+ V  +RDP  +
Sbjct: 21  DLLEAIASALLYSYLDYRESTAEGKAEGTKFRV-----DIDTTTGAVSVIVT-ERDP--E 72

Query: 93  IGGVVSD-PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEY 151
            G V S+    P +FGRV  ++ ++ I++K+REAE +R +  + +  G ++SG V+R  +
Sbjct: 73  TGEVTSEYDDTPDNFGRVGARAVREAILRKLREAEAERTFDSYSELSGRVVSGIVQRDAH 132

Query: 152 GN----VIVDLGN----SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRT 203
            N    V+V LG+     DG++   E I  E L+ GDR+K+Y+  V R     Q+ LSRT
Sbjct: 133 ANARGIVVVQLGSELESQDGILLPAEQIPGEKLQHGDRIKAYVVGVNRNGANVQINLSRT 192

Query: 204 HPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQ 263
           HP+ +  LF +EVPE+ +G V++ A++R+ G R+K+AV      ++  GAC+G RG RV 
Sbjct: 193 HPELVRGLFELEVPEVADGSVEMIAIAREAGHRSKVAVIGHAKGLNAKGACIGPRGQRVN 252

Query: 264 AVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIG 322
            ++ +L  EKIDI+ +S D   +V NAL P+ V KV VLD +     VIVP  QLSLAIG
Sbjct: 253 NIMRQLGGEKIDIIDYSEDPTVYVGNALAPSKVIKVTVLDSEEQVARVIVPDYQLSLAIG 312

Query: 323 RRGQNVRLASQLTGWTIDI 341
           + GQN RLA++LTGW IDI
Sbjct: 313 KEGQNARLAARLTGWKIDI 331


>gi|225551696|ref|ZP_03772640.1| transcription elongation protein NusA [Borrelia sp. SV1]
 gi|225371723|gb|EEH01149.1| transcription elongation protein NusA [Borrelia sp. SV1]
          Length = 482

 Score =  203 bits (516), Expect = 7e-50,   Method: Compositional matrix adjust.
 Identities = 123/392 (31%), Positives = 238/392 (60%), Gaps = 11/392 (2%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           +A ++ +  D +   + +S+  A +  +G+  +  ++ + +TGD+S++   ++V+EV++ 
Sbjct: 12  IANDRGMSIDSIRKTIKESVLIAYKKYFGSNENAFIKFDDDTGDLSVYAKKKIVKEVKDS 71

Query: 76  TCQISLK-VARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
             +I  K ++++   +I  G      + P  F R+++Q AKQ     ++  E +    EF
Sbjct: 72  FLEILEKDISKE---NIVEGDYAYIEINPKVFDRLSIQVAKQRTKNDLQGIEDNEILSEF 128

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           K K+ +++ G V++   G++ V+LGN+DG+I +     RE     D+++  +Y+V++ + 
Sbjct: 129 KSKLNKVVIGYVQQNRNGDLYVNLGNTDGIIPKKYQSPREVYNLNDKIRVLVYNVKKGKN 188

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           G +V+LSRTHP+F+ +L  +E+PEI  GI+++  + RDPG R K+AV+S    IDPVG C
Sbjct: 189 GIEVILSRTHPKFIEELLALEIPEIEEGIIKIHKIVRDPGYRIKVAVYSEKEEIDPVGPC 248

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVP 313
           +G +G R+Q+++ EL  EKIDI+ +S D   F+ ++L P+ +  V +LDED+ +  V+V 
Sbjct: 249 IGQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIKDSLTPSKIEHVYILDEDLHKALVVVS 308

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINV-DEII 372
            +QLSLAIG+ GQNVRLA++L  W ID+ T  + +     +    ++F  + + + D+++
Sbjct: 309 DDQLSLAIGKMGQNVRLANRLLDWAIDVKTSSQFA-----EMKANSEFKQETLEMFDKVM 363

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEE 404
             ++  E F ++ +++ +K+ + + I    +E
Sbjct: 364 QDVVEEEQFEEISKISDLKLLDPSVISDLSKE 395


>gi|313140899|ref|ZP_07803092.1| transcription elongation factor NusA [Bifidobacterium bifidum NCIMB
           41171]
 gi|313133409|gb|EFR51026.1| transcription elongation factor NusA [Bifidobacterium bifidum NCIMB
           41171]
          Length = 344

 Score =  203 bits (516), Expect = 7e-50,   Method: Compositional matrix adjust.
 Identities = 119/334 (35%), Positives = 199/334 (59%), Gaps = 17/334 (5%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV-VEEVEN 74
           +A E+ ID + + + + ++++ A           RVE++   G  +++   E+ VE  E+
Sbjct: 13  LAIEQGIDLEQLDAALEEALRLAYLKTPHAAKHARVELDTRAGTFTVWARKEIPVEPTED 72

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                      D  P+ ++G    D   P +FGR+A  +A+QVI Q  R+AE D+ +  F
Sbjct: 73  -----------DPHPAPELGEEYDDT--PRNFGRLAAATARQVIGQLFRKAEDDKVFGAF 119

Query: 135 KDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
             + G++++G V++   +  NV V +G+ + ++ R E +  E  R G+R++ Y+ +V R 
Sbjct: 120 SGQKGKLVTGIVQQDASDPTNVHVAIGDVEAILPRREQVPGERYRHGERLRVYVVNVARG 179

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            +GP++++SR+HP+ + +LF  EVPE+ +G V + A++R+ G+R K+AV ++   ++P G
Sbjct: 180 VKGPEIVVSRSHPELVRRLFEREVPELVSGAVSIMAIAREAGARTKIAVRANTDGVNPKG 239

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVI 311
           A +G  G+RV+AV+  L  EKIDIV WS D A FV +AL PA+ T V V+ E        
Sbjct: 240 ALIGPGGARVRAVMENLGPEKIDIVDWSADPAKFVASALSPAVATGVQVISEKNKTAIAF 299

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +  +QLSLAIG+ GQN RLA++LTGW I I + E
Sbjct: 300 IHDDQLSLAIGKEGQNARLAAKLTGWKIGIESTE 333


>gi|298345265|ref|YP_003717952.1| transcription elongation factor [Mobiluncus curtisii ATCC 43063]
 gi|298235326|gb|ADI66458.1| transcription elongation factor [Mobiluncus curtisii ATCC 43063]
          Length = 328

 Score =  203 bits (516), Expect = 7e-50,   Method: Compositional matrix adjust.
 Identities = 127/336 (37%), Positives = 189/336 (56%), Gaps = 25/336 (7%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD-IRVEINPETGDISLFRLLEVVEEVEN 74
           V  EK +D + ++  +  ++ KA R+  G   +  RVE++ +TG++ +      V E++ 
Sbjct: 11  VEAEKGMDMNSLIDTVEQALLKAYRNQPGAEKEHSRVEVDRKTGEVRVL-----VNELDE 65

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              ++                     + P DFGR A  + K VIIQ+ +E E      +F
Sbjct: 66  DGTELG-----------------ESEITPKDFGRTAAATVKSVIIQRFQEEEDKAVLGDF 108

Query: 135 KDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
           KD+VG+++SG V       ++ V+LG+ +G+I   E +  E  + G R+  Y+    R  
Sbjct: 109 KDRVGQVVSGVVTAGRDPKLVTVNLGDVEGIIPPAEQVPGEKYQHGVRLSVYVLAASRGF 168

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
           +GP + LSRTHP  +  LF  EVPEI    V +++V+R+PG R K+AV  ++  I+  GA
Sbjct: 169 KGPHIELSRTHPGLVQGLFKREVPEIDREEVVIESVAREPGHRTKIAVRPTEKGINAKGA 228

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIV 312
           C+G  GSRV+AV+ EL  EKIDIV W+ D   +V NAL PA V  V V+DE      V+V
Sbjct: 229 CIGPNGSRVRAVMNELNGEKIDIVDWAEDPTVYVANALSPAKVISVRVIDEAKRLARVVV 288

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           P  Q SLAIG+ GQN RLAS+LTGW IDI ++ E+ 
Sbjct: 289 PDFQQSLAIGKEGQNARLASRLTGWGIDIHSDTENG 324


>gi|308235445|ref|ZP_07666182.1| transcription elongation factor NusA [Gardnerella vaginalis ATCC
           14018]
 gi|311114226|ref|YP_003985447.1| transcription termination factor NusA [Gardnerella vaginalis ATCC
           14019]
 gi|310945720|gb|ADP38424.1| transcription termination factor NusA [Gardnerella vaginalis ATCC
           14019]
          Length = 349

 Score =  203 bits (516), Expect = 7e-50,   Method: Compositional matrix adjust.
 Identities = 108/257 (42%), Positives = 165/257 (64%), Gaps = 4/257 (1%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR--VEYGNVIVDLGN 160
           P DFGR+A  +A+QVI Q  R+ E DR +  F  + G++I+G V++   +  N+ V +G+
Sbjct: 86  PRDFGRLAAATARQVITQLFRKVEDDRVFGAFSGQKGKLINGVVQQDSKDPSNIHVAVGD 145

Query: 161 SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIY 220
            + ++ R E +  E  R G+R++ Y+ +V R  RGP++++SR+HP  + +LF  EVPE+ 
Sbjct: 146 VEAILPRREQVPGERYRHGERIRVYVVNVARGLRGPEIVVSRSHPDLVRRLFEREVPELV 205

Query: 221 NGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
           +G V + A++R+ G+R K+AV ++   ++P GA +G  GSRV+AV+  L  EKIDIV WS
Sbjct: 206 SGAVSIMAIAREAGARTKIAVRANTEGVNPKGALIGPGGSRVRAVMENLGPEKIDIVDWS 265

Query: 281 PDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
            D A FV  AL PA  T+V V+ E        +   QLSLAIG+ GQN RLA++LTGW I
Sbjct: 266 EDPAKFVAAALSPATATQVHVVSEKSQTAVAFIHDSQLSLAIGKEGQNARLAAKLTGWKI 325

Query: 340 DIITEEEDSINRQKDFN 356
            I + EE +  +Q++ N
Sbjct: 326 GIESAEEHA-KKQEEMN 341


>gi|224283743|ref|ZP_03647065.1| transcription elongation factor NusA [Bifidobacterium bifidum NCIMB
           41171]
 gi|310287990|ref|YP_003939249.1| transcription elongation factor NusA [Bifidobacterium bifidum S17]
 gi|311064863|ref|YP_003971589.1| n utilization substance protein A NusA [Bifidobacterium bifidum
           PRL2010]
 gi|309251927|gb|ADO53675.1| transcription elongation factor NusA [Bifidobacterium bifidum S17]
 gi|310867183|gb|ADP36552.1| NusA N utilization substance protein A [Bifidobacterium bifidum
           PRL2010]
          Length = 342

 Score =  202 bits (515), Expect = 8e-50,   Method: Compositional matrix adjust.
 Identities = 119/334 (35%), Positives = 199/334 (59%), Gaps = 17/334 (5%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV-VEEVEN 74
           +A E+ ID + + + + ++++ A           RVE++   G  +++   E+ VE  E+
Sbjct: 11  LAIEQGIDLEQLDAALEEALRLAYLKTPHAAKHARVELDTRAGTFTVWARKEIPVEPTED 70

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                      D  P+ ++G    D   P +FGR+A  +A+QVI Q  R+AE D+ +  F
Sbjct: 71  -----------DPHPAPELGEEYDDT--PRNFGRLAAATARQVIGQLFRKAEDDKVFGAF 117

Query: 135 KDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
             + G++++G V++   +  NV V +G+ + ++ R E +  E  R G+R++ Y+ +V R 
Sbjct: 118 SGQKGKLVTGIVQQDASDPTNVHVAIGDVEAILPRREQVPGERYRHGERLRVYVVNVARG 177

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            +GP++++SR+HP+ + +LF  EVPE+ +G V + A++R+ G+R K+AV ++   ++P G
Sbjct: 178 VKGPEIVVSRSHPELVRRLFEREVPELVSGAVSIMAIAREAGARTKIAVRANTDGVNPKG 237

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVI 311
           A +G  G+RV+AV+  L  EKIDIV WS D A FV +AL PA+ T V V+ E        
Sbjct: 238 ALIGPGGARVRAVMENLGPEKIDIVDWSADPAKFVASALSPAVATGVQVISEKNKTAIAF 297

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +  +QLSLAIG+ GQN RLA++LTGW I I + E
Sbjct: 298 IHDDQLSLAIGKEGQNARLAAKLTGWKIGIESTE 331


>gi|227503407|ref|ZP_03933456.1| transcription elongation factor NusA [Corynebacterium accolens ATCC
           49725]
 gi|227075910|gb|EEI13873.1| transcription elongation factor NusA [Corynebacterium accolens ATCC
           49725]
          Length = 338

 Score =  202 bits (515), Expect = 8e-50,   Method: Compositional matrix adjust.
 Identities = 117/281 (41%), Positives = 176/281 (62%), Gaps = 13/281 (4%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSD-PLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
           +++  T  +S+ V  +RDP  + G V S+    P +FGRV  ++ ++ I++K+REAE +R
Sbjct: 54  DIDTTTGAVSVIVT-ERDP--ETGEVTSEYDDTPDNFGRVGARAVREAILRKLREAEAER 110

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDR 181
            +  + +  G ++SG V+R  + N    V+V LG+     DG++   E I  E L+ GDR
Sbjct: 111 TFDSYSELSGRVVSGIVQRDAHANARGIVVVQLGSELESQDGILLPAEQIPGEKLQHGDR 170

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K+Y+  V R     Q+ LSRTHP+ +  LF +EVPE+ +G V++ A++R+ G R+K+AV
Sbjct: 171 IKAYVVGVNRNGANVQINLSRTHPELVRGLFELEVPEVADGSVEMIAIAREAGHRSKVAV 230

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
                 ++  GAC+G RG RV  ++ +L  EKIDI+ +S D   +V NAL P+ V KV V
Sbjct: 231 IGHAKGLNAKGACIGPRGQRVNNIMRQLGGEKIDIIDYSEDPTVYVGNALAPSKVIKVTV 290

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           LD +     VIVP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 291 LDSEEQVARVIVPDYQLSLAIGKEGQNARLAARLTGWKIDI 331


>gi|284052678|ref|ZP_06382888.1| transcription elongation factor NusA [Arthrospira platensis str.
           Paraca]
 gi|291568133|dbj|BAI90405.1| transcription termination factor NusA [Arthrospira platensis
           NIES-39]
          Length = 415

 Score =  202 bits (514), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 123/303 (40%), Positives = 183/303 (60%), Gaps = 17/303 (5%)

Query: 56  ETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPP--MDFGRVAVQS 113
           E G   L + L +VE+  N   QISLK  ++  P  ++G  V+  + P   +FGR+A   
Sbjct: 68  EEGFRVLAKNLTIVEQASNQDHQISLKDVQEVAPEAELGDTVTLDVTPEQNEFGRMAAIQ 127

Query: 114 AKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV------IRR 167
            KQV+ QK+R+ +R     EF +  G ++   V R E  +VI+ + +  G       + +
Sbjct: 128 TKQVLAQKLRDKQRKMIQDEFAEHEGTVLQARVLRFERQSVIMAVSSVYGQPEVEAELPK 187

Query: 168 DETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
            E + ++N R     + Y+  V +  QRGPQ+++SR+    +V LF  EVPEI + +V++
Sbjct: 188 REQLPKDNYRANATFRVYLKRVSQGSQRGPQLIVSRSDAGLVVYLFANEVPEIEDEVVRI 247

Query: 227 KAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVW 279
            AV+R+        G R K+AV + D  +DPVGAC+G RGSR+Q VV ELR EKID++ W
Sbjct: 248 VAVAREANPPSNYVGPRTKIAVDTLDRDVDPVGACIGARGSRIQVVVNELRGEKIDVIRW 307

Query: 280 SPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
           SPD + ++ NAL PA V +V L + +  R  V+V ++QLSLAIG+ GQNVRLA++LTGW 
Sbjct: 308 SPDPSIYIANALSPARVDEVRLVNPEERRAHVLVAEDQLSLAIGKEGQNVRLAARLTGWK 367

Query: 339 IDI 341
           IDI
Sbjct: 368 IDI 370


>gi|193214185|ref|YP_001995384.1| transcription elongation factor NusA [Chloroherpeton thalassium
           ATCC 35110]
 gi|193087662|gb|ACF12937.1| NusA antitermination factor [Chloroherpeton thalassium ATCC 35110]
          Length = 531

 Score =  202 bits (514), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 126/357 (35%), Positives = 205/357 (57%), Gaps = 27/357 (7%)

Query: 11  QIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE 70
           ++ D  A   ++  D+V  ++ D+IQK  R  Y    + RV INP+ GD  ++ L +VVE
Sbjct: 30  RLKDKKADTNAVKMDIV-DLLRDTIQKQLRKDYDPEVEARVIINPDRGDFEVYILKQVVE 88

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVS-DPLPPMDF-GRVAVQSAKQVIIQKVREAERD 128
           E++  + +ISL+ A++ D S+++G      P+   D+  R ++Q  KQ + +K+R+AER 
Sbjct: 89  EIDLPSIEISLEEAQEIDDSLELGDFYEVGPIHLEDYLTRKSIQIIKQAVQKKMRDAERQ 148

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-----VIRRDETISRENLRPGDRVK 183
             Y E  +KVGE++S  V +V     I     +       ++   E + ++N R   R++
Sbjct: 149 AIYEECLEKVGEVVSAEVHQVRQKEAIFTYNTTKDHKVELLLPNTEKMPKDNPRKTPRMR 208

Query: 184 SYIYDVRRE----------------QRGP-QVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
            Y+  + RE                + GP +V++SRT  +F+ KLF  EVPEIY G++ V
Sbjct: 209 LYVKRIEREKIRVKLEDGTEVEREREDGPMKVIVSRTDDRFLHKLFESEVPEIYEGLIVV 268

Query: 227 KAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATF 286
           K ++R PG RAK++V S+ S IDPVGACVG RG R+Q +V EL +E ID++ +S +   +
Sbjct: 269 KGIARVPGERAKVSVESTSSRIDPVGACVGHRGKRIQNIVRELNNENIDVICFSDEPQIY 328

Query: 287 VINALRPAIV--TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +  AL+PA +    V +D    +  V++  +Q+  AIGR G N+ LA +LTG+ I+I
Sbjct: 329 IARALQPAKIDPMTVHVDPKTRKSRVMLKPDQIKYAIGRNGNNIHLAEKLTGYEIEI 385


>gi|308233945|ref|ZP_07664682.1| transcription termination factor NusA [Atopobium vaginae DSM 15829]
 gi|328943957|ref|ZP_08241422.1| transcription termination factor NusA [Atopobium vaginae DSM 15829]
 gi|327491926|gb|EGF23700.1| transcription termination factor NusA [Atopobium vaginae DSM 15829]
          Length = 414

 Score =  202 bits (514), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 111/265 (41%), Positives = 168/265 (63%), Gaps = 25/265 (9%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSD 162
           P +  R+ VQ  KQ + + +R A R + + EF  +VG++I+GTV +      I+ +   D
Sbjct: 84  PKEASRLVVQHTKQELAEIIRSAGRQQIFEEFSKRVGDLITGTVLQTTSDFAIIKI--RD 141

Query: 163 GV-------------IRRDETISRENLRPGDRVKSYIYDVRR----------EQRGPQVL 199
           GV               R+E  + E+     R+++ I +VR           E++ P ++
Sbjct: 142 GVEAELPYFDPHRYPDERNERPANEHYAHNQRLRALIVEVRDPHANQQQIRGERQRPSIV 201

Query: 200 LSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRG 259
           +SRTHP  + +LF +EVPEI++G+V + +V+R+PG R+K+AV S+D  +DPVGACVG +G
Sbjct: 202 VSRTHPDLISRLFELEVPEIFDGVVSIASVAREPGIRSKIAVSSTDPHLDPVGACVGPKG 261

Query: 260 SRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSL 319
           SRV+ VV+ELR E++D+V+WS D A  V NAL PA V++V++D++     VIVP +QLSL
Sbjct: 262 SRVRTVVSELRGERVDVVMWSDDPAINVANALSPAKVSRVLVDKENNYATVIVPDDQLSL 321

Query: 320 AIGRRGQNVRLASQLTGWTIDIITE 344
           AIG+ GQN RLA++LTG  IDI  E
Sbjct: 322 AIGKEGQNARLAARLTGMHIDIKNE 346


>gi|298253047|ref|ZP_06976839.1| transcription elongation factor NusA [Gardnerella vaginalis 5-1]
 gi|297532442|gb|EFH71328.1| transcription elongation factor NusA [Gardnerella vaginalis 5-1]
          Length = 360

 Score =  202 bits (514), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 120/335 (35%), Positives = 195/335 (58%), Gaps = 17/335 (5%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           +A ++ I+ + +   +A++++ A          +RVE++   G  +++   E        
Sbjct: 11  LAAQQGINAEELDEALAEALRLAYMKTAHPAKHVRVELDERAGSFTVWARDE-------- 62

Query: 76  TCQISLKVARDRD-PSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              I  K   D   P+  +G    D   P DFGR+A  +A+QVI Q  R+AE DR +  F
Sbjct: 63  ---IPGKPTEDNPYPAPTLGEEYDDT--PHDFGRLAAATARQVISQIFRKAEDDRVFGAF 117

Query: 135 KDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
             + G++I+G +++   +  N+ V +G+ + ++ R E +  E  R G+R++ Y+ +V R 
Sbjct: 118 SGQKGKLINGIIQQDAKDNTNIHVAVGDVEAILPRREQVPGERYRHGERIRVYVVNVARG 177

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            RGP++++SR+HP+ + +LF  EVPE+ +G V + +++R+ G+R K+AV ++   ++P G
Sbjct: 178 LRGPEIVVSRSHPELVRRLFEREVPELVSGAVSIMSIAREAGARTKIAVRANTEGVNPKG 237

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVI 311
           A +G  GSRV+AV+  L  EKIDIV WS D A FV  AL PA  T+V V+ E        
Sbjct: 238 ALIGPGGSRVRAVMENLGQEKIDIVDWSSDPAKFVAAALSPATATQVQVVSEKNQTAVAF 297

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           +   QLSLAIG+ GQN RLA++LTGW I I + EE
Sbjct: 298 IHDAQLSLAIGKEGQNARLAAKLTGWKIGIESAEE 332


>gi|170782217|ref|YP_001710550.1| transcription elongation factor NusA [Clavibacter michiganensis
           subsp. sepedonicus]
 gi|169156786|emb|CAQ01949.1| transcription elongation protein NusA [Clavibacter michiganensis
           subsp. sepedonicus]
          Length = 335

 Score =  202 bits (514), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 111/249 (44%), Positives = 162/249 (65%), Gaps = 5/249 (2%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNS 161
           P DFGR+A  +A+QVI Q++R+   DR   EFK + G+I++G +++     +I VDLG  
Sbjct: 85  PSDFGRIAAFAARQVINQRLRDIGDDRILGEFKGREGDIVAGVIQQGPNPRMIHVDLGTI 144

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           + ++  +E +  E    G R++ Y+  V R  +GPQ+ +SRTHP  + KLF +EVPEI +
Sbjct: 145 EAILPPEEQVPGEKYVHGSRLRVYVTSVSRGAKGPQITVSRTHPSLVRKLFALEVPEIAS 204

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           G+V++ +++R+ G R K+AV +++  I+  GAC+G  G RV+AV  EL DEKIDIV +S 
Sbjct: 205 GLVEIVSLAREAGHRTKIAVRATEPGINAKGACIGELGQRVRAVTAELNDEKIDIVDYSE 264

Query: 282 DSATFVINALRPAIVT-KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
               FV NAL PA VT   V+D+    +  +VP  QLSLAIG+ GQN RLA++LTG  ID
Sbjct: 265 SLPVFVGNALSPARVTSSFVIDQATKAVRALVPDYQLSLAIGKEGQNARLAAKLTGAKID 324

Query: 341 IITEEEDSI 349
           I   + DSI
Sbjct: 325 I---QPDSI 330


>gi|328948922|ref|YP_004366259.1| NusA antitermination factor [Treponema succinifaciens DSM 2489]
 gi|328449246|gb|AEB14962.1| NusA antitermination factor [Treponema succinifaciens DSM 2489]
          Length = 484

 Score =  202 bits (513), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 141/420 (33%), Positives = 221/420 (52%), Gaps = 25/420 (5%)

Query: 9   LLQIADAV---AYEKSIDRDVVLSVMADSIQKAARSLYGTMSD-IRVEINPETGDISLFR 64
           + ++ADA+   + EK ID   +   +   I  A +  +G   D   V+   +  D++++ 
Sbjct: 1   MSEMADAIRALSAEKGIDESSIRQTIERMILAAYQKSFGKGYDNCIVKFADDMSDVNVYA 60

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPL-PPMDFGRVAVQSAKQVIIQKVR 123
              VV+ V +   +I L+ A+   P   I   +  PL P  DF R AV   KQ   + + 
Sbjct: 61  RKTVVDGVYDPVIEIELEEAQKLAPEAVIHDTLDIPLDPKRDFERGAVSVGKQEAHKDLN 120

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           E    +   E+K+K+G+II G  +R   GN+ V+LG  +GV+       RE     DR++
Sbjct: 121 ENSSKKLLDEYKEKLGQIIIGYYQREHKGNIYVELGKVEGVLPVKYQSPREVYEKNDRIR 180

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           + I DV++   G QV+LSRT   F+  +  +EVPEI +  + VK++SR+PG R K+AV S
Sbjct: 181 ALIKDVKKVPSGIQVVLSRTDENFVKSILELEVPEIQDNTIVVKSISREPGYRTKIAVAS 240

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-D 302
           +   +DPVGACVG++G R+Q V+ EL  EKID++ +  D   F+ NAL PA V  VV+ D
Sbjct: 241 NKIDVDPVGACVGLKGVRIQNVIRELEGEKIDVLRYDEDPHVFIKNALSPAEVKHVVIKD 300

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE----EEDSINR------- 351
            +      +V  E  S+AIG++G NVRLA++L  W+ID+ TE    +ED +         
Sbjct: 301 AEKREALAVVSDENFSIAIGKQGLNVRLANRLCNWSIDVKTEAMVTDEDLVENDTRRAAE 360

Query: 352 ------QKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEET 405
                 + +  E      Q   VD+ +A +L   G+ D+E    V   E  ++ G D+ T
Sbjct: 361 ELFGGSENESYEEILTVAQLPGVDQRVAEILKEAGYDDIE--VFVSSYESGALNGLDDVT 418


>gi|297242938|ref|ZP_06926876.1| transcription elongation factor NusA [Gardnerella vaginalis AMD]
 gi|296889149|gb|EFH27883.1| transcription elongation factor NusA [Gardnerella vaginalis AMD]
          Length = 360

 Score =  202 bits (513), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 120/335 (35%), Positives = 195/335 (58%), Gaps = 17/335 (5%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           +A ++ I+ + +   +A++++ A          +RVE++   G  +++   E        
Sbjct: 11  LAAQQGINAEELDEALAEALRLAYMKTAHPAKHVRVELDERAGSFTVWARDE-------- 62

Query: 76  TCQISLKVARDRD-PSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              I  K   D   P+  +G    D   P DFGR+A  +A+QVI Q  R+AE DR +  F
Sbjct: 63  ---IPGKPTEDNPYPAPTLGEEYDDT--PRDFGRLAAATARQVISQIFRKAEDDRVFGAF 117

Query: 135 KDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
             + G++I+G +++   +  N+ V +G+ + ++ R E +  E  R G+R++ Y+ +V R 
Sbjct: 118 SGQKGKLINGIIQQDAKDNTNIHVAVGDVEAILPRREQVPGERYRHGERIRVYVVNVARG 177

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            RGP++++SR+HP+ + +LF  EVPE+ +G V + +++R+ G+R K+AV ++   ++P G
Sbjct: 178 LRGPEIVVSRSHPELVRRLFEREVPELVSGAVSIMSIAREAGARTKIAVRANTEGVNPKG 237

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVI 311
           A +G  GSRV+AV+  L  EKIDIV WS D A FV  AL PA  T+V V+ E        
Sbjct: 238 ALIGPGGSRVRAVMENLGQEKIDIVDWSSDPAKFVAAALSPATATQVQVVSEKNQTAVAF 297

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           +   QLSLAIG+ GQN RLA++LTGW I I + EE
Sbjct: 298 IHDAQLSLAIGKEGQNARLAAKLTGWKIGIESAEE 332


>gi|257126084|ref|YP_003164198.1| transcription elongation factor NusA [Leptotrichia buccalis
           C-1013-b]
 gi|257050023|gb|ACV39207.1| NusA antitermination factor [Leptotrichia buccalis C-1013-b]
          Length = 414

 Score =  201 bits (512), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 130/359 (36%), Positives = 208/359 (57%), Gaps = 6/359 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
            L+  D +  EK I ++ +L  +  ++  A +  YG   +++V IN  +GD+ +F    +
Sbjct: 9   FLEALDELEKEKGILKEELLETIETALLAAYKKNYGEKDNVKVTINRNSGDVKVFSQRLI 68

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VE VEN   +ISL+ A        +G ++   +    F R A+Q+AKQ+++QKVRE E+ 
Sbjct: 69  VENVENPDEEISLEDAISVKKRAKLGDILDLEINAESFKRNAIQNAKQIVVQKVRECEKR 128

Query: 129 RQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
             + +FK+    I+S  V++  E GN+ +D+   + ++   E    +N    +RVK Y+ 
Sbjct: 129 NIFNKFKEIENSIVSANVRKTDEKGNLYIDINGLEAIVPFKELSPTDNFVQNERVKIYVG 188

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V    +  +  +SR   + +  L  +EVPEI   I+++K ++R+ GSRAK+AV+S D +
Sbjct: 189 NVEESTKFTKTFVSRKSEELLRGLLELEVPEIEEKIIEIKNIAREAGSRAKVAVYSEDEN 248

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL----DE 303
           +D  GAC+G  G R+Q ++ ELR EKIDIV+W+ D   FV NAL PA V  V +    +E
Sbjct: 249 LDVKGACIGRNGMRIQNIIDELRGEKIDIVLWNEDIREFVKNALNPAEVLLVEIVEGEEE 308

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE-EDSINRQKDFNERTQF 361
           +    +V+V + QLSLAIG++GQN RLA++L G  IDI TE  E   N + +  E T F
Sbjct: 309 NTKIAKVLVAENQLSLAIGKKGQNSRLAARLCGVKIDIHTEPFEIEQNDEYELEEETAF 367


>gi|283782785|ref|YP_003373539.1| transcription termination factor NusA [Gardnerella vaginalis
           409-05]
 gi|283441834|gb|ADB14300.1| transcription termination factor NusA [Gardnerella vaginalis
           409-05]
          Length = 360

 Score =  201 bits (512), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 120/335 (35%), Positives = 195/335 (58%), Gaps = 17/335 (5%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           +A ++ I+ + +   +A++++ A          +RVE++   G  +++   E        
Sbjct: 11  LAAQQGINAEELDEALAEALRLAYMKTAHPAKHVRVELDERAGSFTVWARDE-------- 62

Query: 76  TCQISLKVARDRD-PSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              I  K   D   P+  +G    D   P DFGR+A  +A+QVI Q  R+AE DR +  F
Sbjct: 63  ---IPGKPTEDNPYPAPTLGEEYDDT--PRDFGRLAAATARQVISQIFRKAEDDRVFGAF 117

Query: 135 KDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
             + G++I+G +++   +  N+ V +G+ + ++ R E +  E  R G+R++ Y+ +V R 
Sbjct: 118 SGQKGKLINGIIQQDAKDNTNIHVAVGDVEAILPRREQVPGERYRHGERIRVYVVNVARG 177

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            RGP++++SR+HP+ + +LF  EVPE+ +G V + +++R+ G+R K+AV ++   ++P G
Sbjct: 178 LRGPEIVVSRSHPELVRRLFEREVPELVSGAVSIMSIAREAGARTKIAVRANTEGVNPKG 237

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVI 311
           A +G  GSRV+AV+  L  EKIDIV WS D A FV  AL PA  T+V V+ E        
Sbjct: 238 ALIGPGGSRVRAVMENLGQEKIDIVDWSSDPAKFVAAALSPATATQVQVVSEKNQTAVAF 297

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           +   QLSLAIG+ GQN RLA++LTGW I I + EE
Sbjct: 298 IHDAQLSLAIGKEGQNARLAAKLTGWKIGIESAEE 332


>gi|209527729|ref|ZP_03276225.1| NusA antitermination factor [Arthrospira maxima CS-328]
 gi|209491850|gb|EDZ92209.1| NusA antitermination factor [Arthrospira maxima CS-328]
          Length = 415

 Score =  201 bits (512), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 123/303 (40%), Positives = 182/303 (60%), Gaps = 17/303 (5%)

Query: 56  ETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPP--MDFGRVAVQS 113
           E G   L + L +VE+  N   QISLK  ++  P   +G  V+  + P   +FGR+A   
Sbjct: 68  EEGFRVLAKNLTIVEQASNQDHQISLKDVQEVAPEAQLGDTVTLDVTPEQNEFGRMAAIQ 127

Query: 114 AKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV------IRR 167
            KQV+ QK+R+ +R     EF +  G ++   V R E  +VI+ + +  G       + +
Sbjct: 128 TKQVLAQKLRDKQRKMIQDEFAEHEGTVLQARVLRFERQSVIMAVSSVYGQPEVEAELPK 187

Query: 168 DETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
            E + ++N R     + Y+  V +  QRGPQ+++SR+    +V LF  EVPEI + +V++
Sbjct: 188 REQLPKDNYRANATFRVYLKRVSQGSQRGPQLIVSRSDAGLVVYLFANEVPEIEDEVVRI 247

Query: 227 KAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVW 279
            AV+R+        G R K+AV + D  +DPVGAC+G RGSR+Q VV ELR EKID++ W
Sbjct: 248 VAVAREANPPSNHVGPRTKIAVDTLDRDVDPVGACIGARGSRIQVVVNELRGEKIDVIRW 307

Query: 280 SPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
           SPD + ++ NAL PA V +V L + +  R  V+V ++QLSLAIG+ GQNVRLA++LTGW 
Sbjct: 308 SPDPSIYIANALSPARVDEVRLVNPEERRAHVLVAEDQLSLAIGKEGQNVRLAARLTGWK 367

Query: 339 IDI 341
           IDI
Sbjct: 368 IDI 370


>gi|255325207|ref|ZP_05366313.1| transcription termination factor NusA [Corynebacterium
           tuberculostearicum SK141]
 gi|255297772|gb|EET77083.1| transcription termination factor NusA [Corynebacterium
           tuberculostearicum SK141]
          Length = 338

 Score =  201 bits (512), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 108/248 (43%), Positives = 157/248 (63%), Gaps = 9/248 (3%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN----VIVDL 158
           P +FGRV  Q+ ++ I++K+REAE +R Y  + +  G ++SG V+R    N    V+V L
Sbjct: 84  PENFGRVGAQAVREAILRKLREAEAERTYDSYSELTGRVVSGIVQRDARANARGIVVVQL 143

Query: 159 GN----SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHM 214
           G+     DG++   E I  E L  GDR+K+Y+  V R     Q+ LSRTHP+ +  LF +
Sbjct: 144 GSELESQDGILLPAEQIPGEKLEHGDRIKAYVVGVNRNGAQVQINLSRTHPELVRGLFEL 203

Query: 215 EVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKI 274
           EVPE+ +G V++ A++R+ G R+K+AV      ++  GAC+G RG RV  ++ +L  EKI
Sbjct: 204 EVPEVADGSVEMIAIAREAGHRSKVAVVGHAKGLNAKGACIGPRGQRVNNIMRQLGGEKI 263

Query: 275 DIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQ 333
           DI+ +S D   +V NAL P+ V KV V+D +     V+VP  QLSLAIG+ GQN RLA++
Sbjct: 264 DIIDFSEDPTVYVGNALAPSKVVKVTVVDNEAQIARVVVPDYQLSLAIGKEGQNARLAAR 323

Query: 334 LTGWTIDI 341
           LTGW IDI
Sbjct: 324 LTGWKIDI 331


>gi|189440604|ref|YP_001955685.1| transcription elongation factor NusA [Bifidobacterium longum
           DJO10A]
 gi|189429039|gb|ACD99187.1| Transcription elongation factor [Bifidobacterium longum DJO10A]
          Length = 355

 Score =  201 bits (512), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 118/334 (35%), Positives = 198/334 (59%), Gaps = 17/334 (5%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV-VEEVEN 74
           +A E+ ID + +   +A++++ A           RVE++  +G+ +++   E+ VE  E+
Sbjct: 11  LAAEQGIDPETLDDALAEALRLAYLKTPHAAKHARVELDERSGNFTVWAADEIPVEPTED 70

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
               +  K+  + D +            P DFGR+A  +A+QVI Q  R AE ++ +  F
Sbjct: 71  NPYPVP-KLGEEYDDT------------PRDFGRLAAATARQVITQLFRRAEDEKVFGSF 117

Query: 135 KDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
             + G++I+G +++   +  NV V +G+ + ++ R E +  E  R G+R++ Y+ +V R 
Sbjct: 118 SGQKGKLITGIIQQDASDPSNVHVAMGDVEAILPRREQVPGERYRHGERIRVYVVNVARG 177

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            +GP++++SR+HP+ + KLF  EVPE+ +G V + A++R+ G+R K+AV ++   ++P G
Sbjct: 178 IKGPEIVVSRSHPELVRKLFEREVPELVSGAVSIMAIAREAGARTKIAVKANTDGVNPKG 237

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVI 311
           A +G  G+RV+AV+  L  EKIDIV +S D A FV  AL PA+ T V V+ E        
Sbjct: 238 ALIGPGGARVRAVMENLGPEKIDIVDYSDDPAKFVAAALSPAVATGVQVISEKNKTAIAF 297

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +  +QLSLAIG+ GQN RLA++LTGW I I + E
Sbjct: 298 IHDDQLSLAIGKEGQNARLAAKLTGWKIGIESAE 331


>gi|213693052|ref|YP_002323638.1| NusA antitermination factor [Bifidobacterium longum subsp. infantis
           ATCC 15697]
 gi|213524513|gb|ACJ53260.1| NusA antitermination factor [Bifidobacterium longum subsp. infantis
           ATCC 15697]
 gi|320459229|dbj|BAJ69850.1| transcription elongation factor NusA [Bifidobacterium longum subsp.
           infantis ATCC 15697]
          Length = 355

 Score =  201 bits (511), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 116/333 (34%), Positives = 194/333 (58%), Gaps = 15/333 (4%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           +A E+ ID   +   +A++++ A           RVE++  +G+ +++   E+  E    
Sbjct: 11  LAAEQGIDPGTLDDALAEALRLAYLKTPHAAKHARVELDERSGNFTVWAADEIPVEPTED 70

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
               + K+  + D +            P DFGR+A  +A+QVI Q  R AE ++ +  F 
Sbjct: 71  NPHPAPKLGEEYDDT------------PRDFGRLAAATARQVITQLFRRAEDEKVFGAFS 118

Query: 136 DKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
            + G++I+G +++   +  NV V +G+ + ++ R E +  E  R G+R++ Y+ +V R  
Sbjct: 119 GQKGKLITGIIQQDASDPSNVHVAMGDVEAILPRREQVPGERYRHGERIRVYVVNVARGI 178

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
           +GP++++SR+HP+ + KLF  EVPE+ +G V + A++R+ G+R K+AV ++   ++P GA
Sbjct: 179 KGPEIVVSRSHPELVRKLFEREVPELVSGAVSIMAIAREAGARTKIAVKANTDGVNPKGA 238

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIV 312
            +G  G+RV+AV+  L  EKIDIV +S D A FV  AL PA+ T V V+ E        +
Sbjct: 239 LIGPGGARVRAVMENLGPEKIDIVDYSDDPAKFVAAALSPAVATGVQVISEKNKTAIAFI 298

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
             +QLSLAIG+ GQN RLA++LTGW I I + E
Sbjct: 299 HDDQLSLAIGKEGQNARLAAKLTGWKIGIESAE 331


>gi|239621506|ref|ZP_04664537.1| transcription elongation factor NusA [Bifidobacterium longum subsp.
           infantis CCUG 52486]
 gi|296454835|ref|YP_003661979.1| NusA antitermination factor [Bifidobacterium longum subsp. longum
           JDM301]
 gi|239515381|gb|EEQ55248.1| transcription elongation factor NusA [Bifidobacterium longum subsp.
           infantis CCUG 52486]
 gi|296184267|gb|ADH01149.1| NusA antitermination factor [Bifidobacterium longum subsp. longum
           JDM301]
          Length = 355

 Score =  201 bits (511), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 119/334 (35%), Positives = 197/334 (58%), Gaps = 17/334 (5%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV-VEEVEN 74
           +A E+ ID + +   +A++++ A           RVE++  +G+ +++   E+ VE  E+
Sbjct: 11  LAAEQGIDPETLDDALAEALRLAYLKTPHAAKHARVELDERSGNFTVWAADEIPVEPTED 70

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                         P+  +G    D   P DFGR+A  +A+QVI Q  R AE ++ +  F
Sbjct: 71  NPY-----------PAPKLGEEYDDT--PRDFGRLAAATARQVITQLFRRAEDEKVFGAF 117

Query: 135 KDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
             + G++I+G +++   +  NV V +G+ + ++ R E +  E  R G+R++ Y+ +V R 
Sbjct: 118 SGQKGKLITGIIQQDASDPSNVHVAMGDVEAILPRREQVPGERYRHGERIRVYVVNVARG 177

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            +GP++++SR+HP+ + KLF  EVPE+ +G V + A++R+ G+R K+AV ++   ++P G
Sbjct: 178 IKGPEIVVSRSHPELVRKLFEREVPELVSGAVSIMAIAREAGARTKIAVKANTDGVNPKG 237

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVI 311
           A +G  G+RV+AV+  L  EKIDIV +S D A FV  AL PA+ T V V+ E        
Sbjct: 238 ALIGPGGARVRAVMENLGPEKIDIVDYSDDPAKFVAAALSPAVATGVQVISEKNKTAIAF 297

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +  +QLSLAIG+ GQN RLA++LTGW I I + E
Sbjct: 298 IHDDQLSLAIGKEGQNARLAAKLTGWKIGIESAE 331


>gi|227546511|ref|ZP_03976560.1| transcription elongation factor [Bifidobacterium longum subsp.
           infantis ATCC 55813]
 gi|312133908|ref|YP_004001247.1| nusa [Bifidobacterium longum subsp. longum BBMN68]
 gi|322689895|ref|YP_004209629.1| transcription elongation factor NusA [Bifidobacterium longum subsp.
           infantis 157F]
 gi|322691836|ref|YP_004221406.1| transcription elongation factor NusA [Bifidobacterium longum subsp.
           longum JCM 1217]
 gi|227213060|gb|EEI80939.1| transcription elongation factor [Bifidobacterium longum subsp.
           infantis ATCC 55813]
 gi|291516439|emb|CBK70055.1| transcription termination factor NusA [Bifidobacterium longum
           subsp. longum F8]
 gi|311773202|gb|ADQ02690.1| NusA [Bifidobacterium longum subsp. longum BBMN68]
 gi|320456692|dbj|BAJ67314.1| transcription elongation factor NusA [Bifidobacterium longum subsp.
           longum JCM 1217]
 gi|320461231|dbj|BAJ71851.1| transcription elongation factor NusA [Bifidobacterium longum subsp.
           infantis 157F]
          Length = 355

 Score =  201 bits (511), Expect = 3e-49,   Method: Compositional matrix adjust.
 Identities = 118/334 (35%), Positives = 198/334 (59%), Gaps = 17/334 (5%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV-VEEVEN 74
           +A E+ ID + +   +A++++ A           RVE++  +G+ +++   E+ VE  E+
Sbjct: 11  LAAEQGIDPETLDDALAEALRLAYLKTPHAAKHARVELDERSGNFTVWAADEIPVEPTED 70

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
               +  K+  + D +            P DFGR+A  +A+QVI Q  R AE ++ +  F
Sbjct: 71  NPYPVP-KLGEEYDDT------------PRDFGRLAAATARQVITQLFRRAEDEKVFGAF 117

Query: 135 KDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
             + G++I+G +++   +  NV V +G+ + ++ R E +  E  R G+R++ Y+ +V R 
Sbjct: 118 SGQKGKLITGIIQQDASDPSNVHVAMGDVEAILPRREQVPGERYRHGERIRVYVVNVARG 177

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            +GP++++SR+HP+ + KLF  EVPE+ +G V + A++R+ G+R K+AV ++   ++P G
Sbjct: 178 IKGPEIVVSRSHPELVRKLFEREVPELVSGAVSIMAIAREAGARTKIAVKANTDGVNPKG 237

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVI 311
           A +G  G+RV+AV+  L  EKIDIV +S D A FV  AL PA+ T V V+ E        
Sbjct: 238 ALIGPGGARVRAVMENLGPEKIDIVDYSDDPAKFVAAALSPAVATGVQVISEKNKTAIAF 297

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +  +QLSLAIG+ GQN RLA++LTGW I I + E
Sbjct: 298 IHDDQLSLAIGKEGQNARLAAKLTGWKIGIESAE 331


>gi|294786395|ref|ZP_06751649.1| transcription termination factor NusA [Parascardovia denticolens
           F0305]
 gi|294485228|gb|EFG32862.1| transcription termination factor NusA [Parascardovia denticolens
           F0305]
          Length = 372

 Score =  201 bits (511), Expect = 3e-49,   Method: Compositional matrix adjust.
 Identities = 119/345 (34%), Positives = 195/345 (56%), Gaps = 15/345 (4%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           +A E+ ID + + + ++++++ A           RVE++   G  +++   E+ +E    
Sbjct: 11  LAAEQGIDAERLDAALSEALRLAYLKNPHAAKHARVELDERAGSFTVWAQDEIPQE---- 66

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
                   A D  P   +G    D   P DFGR A   A+QVI    R+A  D+ +  F 
Sbjct: 67  ------PTAEDPHPRPALGEEYDDT--PEDFGRQAAYIARQVITALFRKAADDKIFGAFA 118

Query: 136 DKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
            + G++I+G V++   + GN+ + +G+ + ++ R E +  E  R G R++ Y+  V R  
Sbjct: 119 GQKGKLITGVVQQDSGDRGNLHIAVGDVEAILPRREQVPGERFRHGQRIRVYVVSVNRGL 178

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
           +GP++++SR+HP+ + +LF  EVPE+ +G VQ+ +++R+ G R K+AV ++   ++P GA
Sbjct: 179 KGPEIIVSRSHPELIRRLFEREVPELASGAVQIMSIAREAGERTKIAVRANAQGVNPKGA 238

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIV 312
            +G  G RV+AV+  L DEKIDIV WS D A FV  AL PA   KV V+ E       ++
Sbjct: 239 LIGPAGQRVRAVMENLGDEKIDIVDWSEDPAKFVGAALSPAHAVKVTVVSEKNKTTLALI 298

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
             +Q+SLAIG+ GQN RLA++LTGW I I + E+    + K   E
Sbjct: 299 HDDQMSLAIGKEGQNARLAAKLTGWKIAIDSYEKSKAEQAKKAQE 343


>gi|291457236|ref|ZP_06596626.1| transcription termination factor NusA [Bifidobacterium breve DSM
           20213]
 gi|291381071|gb|EFE88589.1| transcription termination factor NusA [Bifidobacterium breve DSM
           20213]
          Length = 351

 Score =  201 bits (510), Expect = 3e-49,   Method: Compositional matrix adjust.
 Identities = 118/334 (35%), Positives = 196/334 (58%), Gaps = 17/334 (5%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV-VEEVEN 74
           +A E+ ID + +   +A++++ A           RVE++   G  +++   ++ VE  E+
Sbjct: 11  LAAEQGIDPETLDDALAEALRLAYLKTPHAAKHARVELDERAGSFTVWAADDIPVEPTED 70

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                      D  P+ ++G    D   P DFGR+A  +A+QVI Q  R+ E ++ +  F
Sbjct: 71  -----------DPHPAPELGEEYDDT--PHDFGRLAAATARQVITQLFRKVEDEKVFGAF 117

Query: 135 KDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
             + G++++G +++   +  NV V +G  + ++ R E +  E  R G+R++ Y+ +V R 
Sbjct: 118 SGQKGKLVTGIIQQDASDPTNVHVAMGEVEAILPRREQVPGERYRHGERIRVYVVNVARG 177

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            +GP++++SR+HP+ + KLF  EVPE+ +G V + A++R+ G+R KLAV ++   ++P G
Sbjct: 178 IKGPEIVVSRSHPELVRKLFEREVPELVSGAVSIMAIAREAGARTKLAVKANTDGVNPKG 237

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVI 311
           A +G  G+RV+AV+  L  EKIDIV +S D A FV  AL PA+ T V V+ E        
Sbjct: 238 ALIGPSGARVRAVMENLGPEKIDIVDYSDDPAKFVAAALSPAVATGVQVISEKNKTAIAF 297

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +  +QLSLAIG+ GQN RLA++LTGW I I + E
Sbjct: 298 IHDDQLSLAIGKEGQNARLAAKLTGWKIGIESAE 331


>gi|19553191|ref|NP_601193.1| transcription elongation factor NusA [Corynebacterium glutamicum
           ATCC 13032]
 gi|62390827|ref|YP_226229.1| transcription elongation factor NusA [Corynebacterium glutamicum
           ATCC 13032]
 gi|145295891|ref|YP_001138712.1| transcription elongation factor NusA [Corynebacterium glutamicum R]
 gi|21324757|dbj|BAB99380.1| Transcription terminator [Corynebacterium glutamicum ATCC 13032]
 gi|41326165|emb|CAF20328.1| PUTATIVE TRANSCRIPTIONAL TERMINATION/ANTITERMINATION FACTOR
           [Corynebacterium glutamicum ATCC 13032]
 gi|140845811|dbj|BAF54810.1| hypothetical protein [Corynebacterium glutamicum R]
          Length = 332

 Score =  201 bits (510), Expect = 3e-49,   Method: Compositional matrix adjust.
 Identities = 110/248 (44%), Positives = 157/248 (63%), Gaps = 9/248 (3%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV----KRVEYGNVIVDL 158
           P +FGRV+ ++ +  I++ +REAE  R +  + D  G ++SG V    +  E G +IV L
Sbjct: 80  PSNFGRVSARAVRDAIVKSLREAEASRAFDAYADYEGTVVSGIVQADARAAERGIIIVQL 139

Query: 159 G----NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHM 214
           G    N DGV+   E I  E L+ GDRVK ++  V +     Q+ LSRTHP+ + +LF +
Sbjct: 140 GTEADNQDGVLLPAEQIPGEKLKHGDRVKCFVVGVGKGNTDIQINLSRTHPELVRRLFEL 199

Query: 215 EVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKI 274
           E+PE+ +G V++ A+SR+ G R+K+AV +   +++  GAC+G RG RV  ++ EL  EKI
Sbjct: 200 EIPEVADGSVEIVAISREAGHRSKVAVQAKVKNLNAKGACIGPRGQRVSNIMRELGGEKI 259

Query: 275 DIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQ 333
           DI+ +S D ATFV NAL P+ V  V V D +     V VP  QLSLAIG+ GQN RLA++
Sbjct: 260 DIIDYSEDPATFVGNALAPSKVVNVEVTDLEAQTARVTVPDYQLSLAIGKEGQNARLAAR 319

Query: 334 LTGWTIDI 341
           LTGW IDI
Sbjct: 320 LTGWKIDI 327


>gi|315225958|ref|ZP_07867746.1| transcription termination factor NusA [Parascardovia denticolens
           DSM 10105]
 gi|315120090|gb|EFT83222.1| transcription termination factor NusA [Parascardovia denticolens
           DSM 10105]
          Length = 385

 Score =  201 bits (510), Expect = 4e-49,   Method: Compositional matrix adjust.
 Identities = 119/345 (34%), Positives = 195/345 (56%), Gaps = 15/345 (4%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           +A E+ ID + + + ++++++ A           RVE++   G  +++   E+ +E    
Sbjct: 24  LAAEQGIDAERLDAALSEALRLAYLKNPHAAKHARVELDERAGSFTVWAQDEIPQE---- 79

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
                   A D  P   +G    D   P DFGR A   A+QVI    R+A  D+ +  F 
Sbjct: 80  ------PTAEDPHPRPALGEEYDDT--PEDFGRQAAYIARQVITALFRKAADDKIFGAFA 131

Query: 136 DKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
            + G++I+G V++   + GN+ + +G+ + ++ R E +  E  R G R++ Y+  V R  
Sbjct: 132 GQKGKLITGVVQQDSGDRGNLHIAVGDVEAILPRREQVPGERFRHGQRIRVYVVSVNRGL 191

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
           +GP++++SR+HP+ + +LF  EVPE+ +G VQ+ +++R+ G R K+AV ++   ++P GA
Sbjct: 192 KGPEIIVSRSHPELIRRLFEREVPELASGAVQIMSIAREAGERTKIAVRANAQGVNPKGA 251

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIV 312
            +G  G RV+AV+  L DEKIDIV WS D A FV  AL PA   KV V+ E       ++
Sbjct: 252 LIGPAGQRVRAVMENLGDEKIDIVDWSEDPAKFVGAALSPAHAVKVTVVSEKNKTTLALI 311

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
             +Q+SLAIG+ GQN RLA++LTGW I I + E+    + K   E
Sbjct: 312 HDDQMSLAIGKEGQNARLAAKLTGWKIAIDSYEKSKAEQAKKAQE 356


>gi|254431817|ref|ZP_05045520.1| transcription termination factor NusA [Cyanobium sp. PCC 7001]
 gi|197626270|gb|EDY38829.1| transcription termination factor NusA [Cyanobium sp. PCC 7001]
          Length = 476

 Score =  200 bits (509), Expect = 4e-49,   Method: Compositional matrix adjust.
 Identities = 132/320 (41%), Positives = 188/320 (58%), Gaps = 27/320 (8%)

Query: 43  YGTMSDIRVEINPETGDISLFRLLE---VVEEVENYTCQISLKVARDRDPSIDIG-GVVS 98
           Y +  D++++++ E      +R+L    +VEEVE+   QI+L   +       IG  VV 
Sbjct: 59  YFSNFDVQLDLDEEG-----YRVLASKIIVEEVESEDHQIALAEVQQVADDAQIGDTVVL 113

Query: 99  DPLPPMD-FGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVD 157
           D  P  D FGR+A  + KQV+ QK+R+ +R     EF D    ++S  V R E  +VI+ 
Sbjct: 114 DVTPEKDDFGRMAAATTKQVLAQKLRDQQRRMIQEEFADLEDPVLSARVVRFERQSVIMA 173

Query: 158 LGNSDG-------VIRRDETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMV 209
           + +  G       + RRD+ +  +N R    +K ++ +V    +RGPQ+ +SR +   +V
Sbjct: 174 VSSGPGRPEVEAELPRRDQ-LPNDNYRANTTLKVFLKEVSEVPRRGPQLFVSRANAGLVV 232

Query: 210 KLFHMEVPEIYNGIVQVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRV 262
            LF  EVPEI  G V++ AV+R+        G R K+AV S +  +DPVGAC+G RGSR+
Sbjct: 233 YLFENEVPEIQEGSVRIVAVAREANPPSRSVGPRTKVAVDSVEREVDPVGACIGARGSRI 292

Query: 263 QAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAI 321
           Q VV ELR EKID++ WSPD   ++ N+L PA V  V L D D     V+VP +QLSLAI
Sbjct: 293 QQVVNELRGEKIDVIRWSPDPGQYIANSLSPARVEAVRLVDPDGHHAHVLVPPDQLSLAI 352

Query: 322 GRRGQNVRLASQLTGWTIDI 341
           GR GQNVRLA++LTGW IDI
Sbjct: 353 GREGQNVRLAARLTGWKIDI 372


>gi|50365108|ref|YP_053533.1| transcription elongation factor NusA [Mesoplasma florum L1]
 gi|50363664|gb|AAT75649.1| transcription terminator [Mesoplasma florum L1]
          Length = 471

 Score =  200 bits (509), Expect = 4e-49,   Method: Compositional matrix adjust.
 Identities = 123/347 (35%), Positives = 199/347 (57%), Gaps = 8/347 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  ++L+   ++  EKSI ++V +  + +  QKA    + T + ++ EIN +TG I+LF+
Sbjct: 3   NGAQILEALASLESEKSISKEVAIEGIKEGFQKAYERFFDTEAVVKTEINEQTGSINLFQ 62

Query: 65  LLEVV---EEVENYTCQISLKVARDRDPSIDIGGVVSDPLP-PMDFGRVAVQSAKQVIIQ 120
            L VV   +E+E+   +I L+ A   +    +G  V  P+    +F RVAV   +Q+  Q
Sbjct: 63  ELMVVATDDEIEDDWLEIVLEDALKINKEAKVGDKVYKPIDFDEEFSRVAVGQVRQIFQQ 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRV--EYGNVIVDLGNSDGVIRRDETISRENLRP 178
           K+R  ER   Y +F    GEI+ G +  +  +  + I+D+      +   +TI+RE    
Sbjct: 123 KIRATERAMIYEKFIQLEGEIVRGKIVGMNDQGTSYILDIDGVHTSLWNQKTINREEFVV 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            + V   + +V RE +  Q+++SR  P+F+ KL   EV E+  G+V+V +VSR+PG RAK
Sbjct: 183 NELVDVLLEEVARENKYSQLVVSRVAPKFLAKLVEKEVSEVAQGLVEVMSVSREPGKRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D  ++P+GA VG++GSR+  +  ELR EKID+V W  +   F+INA+ P  V  
Sbjct: 243 IAVLSHDEDVEPIGAIVGVKGSRINNISKELRGEKIDVVKWDDEIIPFIINAMAPVKVIS 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           V  +E  G  +++VP +QLSLAIG+ G   +L + L    I+I + E
Sbjct: 303 V--NEVEGEFDIVVPNQQLSLAIGKGGMAAKLVANLLKRRINIYSLE 347


>gi|227497551|ref|ZP_03927779.1| transcription termination factor NusA [Actinomyces urogenitalis DSM
           15434]
 gi|226833005|gb|EEH65388.1| transcription termination factor NusA [Actinomyces urogenitalis DSM
           15434]
          Length = 348

 Score =  200 bits (508), Expect = 6e-49,   Method: Compositional matrix adjust.
 Identities = 131/337 (38%), Positives = 194/337 (57%), Gaps = 28/337 (8%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
             A E  ID + +L  + D+I  A   + G +    VEI+  +G +++  L   V+E + 
Sbjct: 10  GAAQELGIDLEDLLPAIEDAILGAYTKVPGAIRGAHVEIDRRSGHMAV--LAPEVDEEDQ 67

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYL-E 133
            T +                        P DFGR+A  +A+ VI+Q++++  RD + L  
Sbjct: 68  PTGEFFDDT-------------------PDDFGRIAQATARSVIVQRIQD-RRDFEVLGA 107

Query: 134 FKDKVGEIISGTVKRVEYGNVI-VDLGN-SDGVIRRDETISRENLRPGDRVKSYIYDVRR 191
           FKDK GE+ISGTV++     ++ V L    +G++   E +  E  R GDR+++Y+ +V R
Sbjct: 108 FKDKAGELISGTVEQGRDPRIVYVRLDEEHEGIMPPHEQVPGERYRHGDRIRAYVTEVSR 167

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPV 251
             +G Q++LSRTHP  + KLF  EVPE+ +G V++ AV+R+ G R K+AV S    +   
Sbjct: 168 GPKGAQIILSRTHPGLVRKLFEREVPELVSGDVEIMAVAREAGHRTKMAVRSRQRGLGAK 227

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD--EDVGRIE 309
           GAC+G  G RV+AV+ EL  EKIDIV +S + A F+ NAL PA V+ V +   ED    +
Sbjct: 228 GACIGPMGQRVRAVMAELGGEKIDIVDYSDEPARFIANALSPARVSSVHIQSMEDQ-TAK 286

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            +VP  QLSLAIG+ GQN RLA++LTGW IDI  + E
Sbjct: 287 AVVPDFQLSLAIGKEGQNARLAARLTGWKIDIHADAE 323


>gi|254412331|ref|ZP_05026105.1| transcription termination factor NusA [Microcoleus chthonoplastes
           PCC 7420]
 gi|196180641|gb|EDX75631.1| transcription termination factor NusA [Microcoleus chthonoplastes
           PCC 7420]
          Length = 459

 Score =  200 bits (508), Expect = 6e-49,   Method: Compositional matrix adjust.
 Identities = 126/299 (42%), Positives = 179/299 (59%), Gaps = 20/299 (6%)

Query: 63  FRLL---EVVEEVENYTCQISLKVARDRDPSIDIG-GVVSDPLPPM-DFGRVAVQSAKQV 117
           FR+L    +VEEV N    ISLK  ++      +G  VV D  P   DFGR+A    KQV
Sbjct: 72  FRILCTKTIVEEVGNTDHHISLKEVQEVASEAQLGDSVVLDVTPDQRDFGRMAAIQTKQV 131

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV------IRRDETI 171
           + QK+R+ +R     EF++  G ++   V R E  +VI+ + +  G       + + E +
Sbjct: 132 LSQKLRDQQRKLIQEEFEELEGTVLQARVLRFERQSVIMAISSGFGQPEVEAELPKREQL 191

Query: 172 SRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVS 230
             +  R G   K ++  VR    RGPQ+++SR     +V LF  EVPEI + +V++ AV+
Sbjct: 192 PNDTYRIGSTFKVFLKKVREGPHRGPQLVVSRASAGLVVYLFANEVPEIEDEVVRIVAVA 251

Query: 231 RDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDS 283
           R+        G R K+AV + +  +DPVGAC+G RGSR+Q VV ELR EKID++ WSPD 
Sbjct: 252 REANPPSRHVGPRTKIAVDTLERDVDPVGACIGARGSRIQVVVNELRGEKIDVIRWSPDP 311

Query: 284 ATFVINALRPAIVTKVVLDEDVGR-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           AT++ NAL PA V +V+L    GR   ++V ++QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 312 ATYIANALSPARVEEVLLVNPEGRQAHILVAEDQLSLAIGKEGQNVRLAARLTGWKIDI 370


>gi|23466164|ref|NP_696767.1| transcription elongation factor NusA [Bifidobacterium longum
           NCC2705]
 gi|317482183|ref|ZP_07941206.1| transcription termination factor NusA [Bifidobacterium sp.
           12_1_47BFAA]
 gi|23326902|gb|AAN25403.1| N utilization substance homolog [Bifidobacterium longum NCC2705]
 gi|316916417|gb|EFV37816.1| transcription termination factor NusA [Bifidobacterium sp.
           12_1_47BFAA]
          Length = 355

 Score =  200 bits (508), Expect = 6e-49,   Method: Compositional matrix adjust.
 Identities = 118/334 (35%), Positives = 197/334 (58%), Gaps = 17/334 (5%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV-VEEVEN 74
           +A E+ ID   +   +A++++ A           RVE++  +G+ +++   E+ VE  E+
Sbjct: 11  LAAEQGIDPGTLDDALAEALRLAYLKTPHAARHARVELDERSGNFTVWAADEIPVEPTED 70

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
               +  K+  + D +            P DFGR+A  +A+QVI Q  R AE ++ +  F
Sbjct: 71  NPYPVP-KLGEEYDDT------------PRDFGRLAAATARQVITQLFRRAEDEKVFGAF 117

Query: 135 KDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
             + G++I+G +++   +  NV V +G+ + ++ R E +  E  R G+R++ Y+ +V R 
Sbjct: 118 SGQKGKLITGIIQQDASDPSNVHVAMGDVEAILPRREQVPGERYRHGERIRVYVVNVARG 177

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            +GP++++SR+HP+ + KLF  EVPE+ +G V + A++R+ G+R K+AV ++   ++P G
Sbjct: 178 IKGPEIVVSRSHPELVRKLFEREVPELVSGAVSIMAIAREAGARTKIAVKANTDGVNPKG 237

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVI 311
           A +G  G+RV+AV+  L  EKIDIV +S D A FV  AL PA+ T V V+ E        
Sbjct: 238 ALIGPGGARVRAVMENLGPEKIDIVDYSDDPAKFVAAALSPAVATGVQVISEKNKTAIAF 297

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +  +QLSLAIG+ GQN RLA++LTGW I I + E
Sbjct: 298 IHDDQLSLAIGKEGQNARLAAKLTGWKIGIESAE 331


>gi|319441434|ref|ZP_07990590.1| transcription elongation factor NusA [Corynebacterium variabile DSM
           44702]
          Length = 344

 Score =  199 bits (507), Expect = 6e-49,   Method: Compositional matrix adjust.
 Identities = 113/253 (44%), Positives = 154/253 (60%), Gaps = 9/253 (3%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR----VEYGNVIVDL 158
           P DFGR A ++ +  I  +V  A  +  Y ++    G ++SG V R     E G  +V L
Sbjct: 76  PTDFGRDAARAVRDAIRGQVNAARAETSYGKYSALEGTVVSGVVSRDARANERGLTVVHL 135

Query: 159 GN----SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHM 214
           G      DG+I   E I  E L  GDRVK Y+  V R QRG Q+LLSRTHP+ +  LF +
Sbjct: 136 GTEADGHDGMILTAEHIPGEKLEHGDRVKCYVTAVHRGQRGIQILLSRTHPELVRGLFAL 195

Query: 215 EVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKI 274
           EVPE+ +  V++  ++R+ G R+K+AV S+ + ++  GAC+G RG RV +++  L  EKI
Sbjct: 196 EVPEVADEAVEIAGIAREAGHRSKVAVRSTVNGLNAKGACIGPRGQRVTSIMDALGGEKI 255

Query: 275 DIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQ 333
           DIV +S D A +V NAL PA V +V V D D+     +VP  QLSLAIGR GQN RLA++
Sbjct: 256 DIVDYSEDPAVYVGNALAPAKVVRVDVTDHDMQVARAVVPDHQLSLAIGREGQNARLAAR 315

Query: 334 LTGWTIDIITEEE 346
           LTGW IDI  E +
Sbjct: 316 LTGWKIDIRPESD 328


>gi|302335788|ref|YP_003800995.1| transcription termination factor NusA [Olsenella uli DSM 7084]
 gi|301319628|gb|ADK68115.1| transcription termination factor NusA [Olsenella uli DSM 7084]
          Length = 414

 Score =  199 bits (507), Expect = 6e-49,   Method: Compositional matrix adjust.
 Identities = 129/361 (35%), Positives = 204/361 (56%), Gaps = 42/361 (11%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL- 66
           E+++   A+  EK ID   ++  +  S+ K+   +       RV I+  TG + +++L+ 
Sbjct: 4   EMMEALMALCQEKHIDELYLIDRLEQSLAKSYAEILHLDFGARVTIDRATGRVYVYKLVP 63

Query: 67  --EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
             ++ +E   +          D    +D+         P D  R+A Q AK  I + VR 
Sbjct: 64  EGDINDETGEF----------DNFEEVDVT--------PKDASRIAAQHAKSEIAEIVRN 105

Query: 125 AERDRQYLEFKDKVGEIISGTVKRV--EYGNVIVDLGNSDGVIRRDE--TISRENLRP-- 178
           + R + + EF  +VG+II+GTV +   ++  + +  G    +   D+       N RP  
Sbjct: 106 SARQQIFEEFSQRVGDIITGTVLQTTPDFAFIKIREGVEAELPYFDQRRYPDERNERPVG 165

Query: 179 -----GDRVKSYIYDVRR----------EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGI 223
                  R+++ I DVR           E++ P +++SRTHP  + +LF +EVPE+Y G+
Sbjct: 166 ERYIHNQRIRAIIVDVRDPNSNQPPIRGERQRPSIVVSRTHPDLIRRLFELEVPEVYEGV 225

Query: 224 VQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDS 283
           V+V++V+R+ G R+K+AV S D  +DPVGACVG +GSRV+ VV+ELR E++D+V+WS D 
Sbjct: 226 VEVRSVAREAGVRSKVAVSSLDDRLDPVGACVGPKGSRVRTVVSELRGERVDVVLWSDDP 285

Query: 284 ATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           +  V NAL PA V++V++D +     VIVP +QLSLAIG+ GQN RLA++LTG  IDI  
Sbjct: 286 SRCVANALSPARVSRVIVDPENNYATVIVPDDQLSLAIGKEGQNARLAARLTGMHIDIKN 345

Query: 344 E 344
           E
Sbjct: 346 E 346


>gi|311739681|ref|ZP_07713516.1| transcription termination factor NusA [Corynebacterium
           pseudogenitalium ATCC 33035]
 gi|311305497|gb|EFQ81565.1| transcription termination factor NusA [Corynebacterium
           pseudogenitalium ATCC 33035]
          Length = 338

 Score =  199 bits (507), Expect = 7e-49,   Method: Compositional matrix adjust.
 Identities = 107/248 (43%), Positives = 157/248 (63%), Gaps = 9/248 (3%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN----VIVDL 158
           P +FGRV  Q+ ++ I++K+REAE +R +  + +  G ++SG V+R    N    V+V L
Sbjct: 84  PENFGRVGAQAVREAILRKLREAEAERTFDSYSELTGRVVSGIVQRDARANARGIVVVQL 143

Query: 159 GN----SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHM 214
           G+     DG++   E I  E L  GDR+K+Y+  V R     Q+ LSRTHP+ +  LF +
Sbjct: 144 GSELESQDGILLPAEQIPGEKLEHGDRIKAYVVGVNRNGAQVQINLSRTHPELVRGLFEL 203

Query: 215 EVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKI 274
           EVPE+ +G V++ A++R+ G R+K+AV      ++  GAC+G RG RV  ++ +L  EKI
Sbjct: 204 EVPEVADGSVEMIAIAREAGHRSKVAVVGHAKGLNAKGACIGPRGQRVNNIMRQLGGEKI 263

Query: 275 DIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQ 333
           DI+ +S D   +V NAL P+ V KV V+D +     V+VP  QLSLAIG+ GQN RLA++
Sbjct: 264 DIIDFSEDPTVYVGNALAPSKVVKVTVVDNEAQIARVVVPDYQLSLAIGKEGQNARLAAR 323

Query: 334 LTGWTIDI 341
           LTGW IDI
Sbjct: 324 LTGWKIDI 331


>gi|332203719|gb|EGJ17786.1| transcription termination factor NusA [Streptococcus pneumoniae
           GA47368]
          Length = 302

 Score =  199 bits (507), Expect = 8e-49,   Method: Compositional matrix adjust.
 Identities = 103/259 (39%), Positives = 159/259 (61%), Gaps = 15/259 (5%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSD 162
           P +FGRVA QSAKQ I++K+R+  R   Y  +K+   EI+SGTV+R +   + V+LG+ +
Sbjct: 23  PAEFGRVAAQSAKQTIMEKMRKQTRAITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIE 82

Query: 163 GVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNG 222
             + + + I  E     DR++ Y+Y V    RG  V +SR+HP+ + +L   E+PE+Y+G
Sbjct: 83  AQLSKQDQIPGEVFASHDRIEVYVYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDG 142

Query: 223 IVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELR------------ 270
            V++ +V+R+ G R K+AV S + ++D +G  VG  G+ ++ + ++              
Sbjct: 143 TVEIMSVAREAGDRTKVAVRSHNPNVDAIGTIVGRGGANIKKITSKFHPARYDAKNDRMV 202

Query: 271 --DEKIDIVVWSPDSATFVINALRPAIVTKVVLDE-DVGRIEVIVPKEQLSLAIGRRGQN 327
             +E ID++ W  D A F+ NA+ PA V +V+ DE D  R  V+VP  +LSLAIGRRGQN
Sbjct: 203 PIEENIDVIEWVADPAEFIYNAIAPAEVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQN 262

Query: 328 VRLASQLTGWTIDIITEEE 346
           VRLA+ LTG+ IDI +  E
Sbjct: 263 VRLAAHLTGYRIDIKSASE 281


>gi|325138660|gb|EGC61216.1| Transcription elongation protein nusA [Neisseria meningitidis
           ES14902]
          Length = 277

 Score =  199 bits (506), Expect = 9e-49,   Method: Compositional matrix adjust.
 Identities = 119/277 (42%), Positives = 180/277 (64%), Gaps = 15/277 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGT-MSDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVVEEVENYT---CQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +V + E+YT    + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q+
Sbjct: 64  LIVAD-EDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPG 179
           +R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R G
Sbjct: 123 IRDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSG 182

Query: 180 DRVKSYIYDVRREQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
           DR+++    +R E+ G     QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG 
Sbjct: 183 DRIRALF--LRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQ 240

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDE 272
           RAK+AV ++D  IDP G C+G+RGSRV AV  EL  E
Sbjct: 241 RAKVAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGE 277


>gi|224532423|ref|ZP_03673051.1| transcription elongation protein NusA [Borrelia burgdorferi
           WI91-23]
 gi|224512646|gb|EEF83019.1| transcription elongation protein NusA [Borrelia burgdorferi
           WI91-23]
          Length = 336

 Score =  199 bits (506), Expect = 9e-49,   Method: Compositional matrix adjust.
 Identities = 115/328 (35%), Positives = 207/328 (63%), Gaps = 5/328 (1%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           +A ++ +  D +   + +S+  A +  +G+  +  ++ + +TGD+S++   ++V+EV++ 
Sbjct: 12  IANDRGMSIDSIRKTIKESVLIAYKKYFGSNENAFIKFDDDTGDLSVYAKKKIVKEVKDS 71

Query: 76  TCQISLK-VARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
             +I  K ++++   +I  G      + P  F R+++Q AKQ     ++  E +    EF
Sbjct: 72  LLEILEKDISKE---NIVEGDYAYIEINPKVFDRLSIQVAKQRTKNDLQGIEDNEILSEF 128

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           K K+ +++ G V++   G++ V+LGN+DG+I +     RE     D+++  +Y+V++ + 
Sbjct: 129 KSKLNKVVIGYVQQNRNGDLYVNLGNTDGIIPKKYQSPREVYNLNDKIRVLVYNVKKGKN 188

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           G +V+LSRTHP+F+ +L  +E+PEI  GI+++  + RDPG R K+AV+S    IDPVG C
Sbjct: 189 GIEVILSRTHPKFIEELLALEIPEIEEGIIKIHKIVRDPGYRIKVAVYSEKEEIDPVGPC 248

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVP 313
           +G +G R+Q+++ EL  EKIDI+ +S D   F+ ++L P+ +  V +LDED+ +  V+V 
Sbjct: 249 IGQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIKDSLTPSKIEHVYILDEDLHKALVVVS 308

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            +QLSLAIG+ GQNVRLA++L  W ID+
Sbjct: 309 DDQLSLAIGKMGQNVRLANRLLDWAIDV 336


>gi|227549050|ref|ZP_03979099.1| transcription elongation factor NusA [Corynebacterium
           lipophiloflavum DSM 44291]
 gi|227078904|gb|EEI16867.1| transcription elongation factor NusA [Corynebacterium
           lipophiloflavum DSM 44291]
          Length = 341

 Score =  199 bits (506), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 129/346 (37%), Positives = 196/346 (56%), Gaps = 37/346 (10%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLFRL 65
           L    A++ E  ID D +L  +A ++    R             RVEI+ +TGD+S+   
Sbjct: 5   LNALKAISTEHGIDVDDLLETIAGALLSVYRDYREAPPAEGHRARVEIDADTGDVSVL-- 62

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSD-PLPPMDFGRVAVQSAKQVIIQKVRE 124
              V EV+                  D G VVS+    P++F R+   +    I ++VRE
Sbjct: 63  ---VSEVD------------------DDGAVVSEYDDTPVNFSRIGAPTVLDAIKKRVRE 101

Query: 125 AERDRQYLEFKDKVGEIISGTVKR----VEYGNVIVDLGN----SDGVIRRDETISRENL 176
           AE  R + E+ +  G+++SG V+R       G ++V+LG      DG++   E I  E L
Sbjct: 102 AEAGRVFSEYSEFEGQVVSGVVQRDANAEARGLIVVELGTEADPQDGILLPAEQIPGEKL 161

Query: 177 RPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
           + GDR+K+++  V + +R  QV LSRTHP+ +  LF +EVPE+ +G V++ A++R+ G R
Sbjct: 162 KHGDRIKAFVVGVNKGERKVQVNLSRTHPELVRGLFALEVPEVADGTVEIVAIAREAGHR 221

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           +K+AV +    ++  GAC+G RG+RV  ++ +L  EKIDI+ +S D A +V N+L P+ V
Sbjct: 222 SKVAVQAKVKGVNAKGACIGPRGARVTNIMQQLGGEKIDIIEYSADPAKYVGNSLAPSKV 281

Query: 297 TKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            +V VLD +     V VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 282 VRVEVLDLEGQAARVTVPDYQLSLAIGKEGQNARLAARLTGWKIDI 327


>gi|227833356|ref|YP_002835063.1| N utilization substance protein A [Corynebacterium aurimucosum ATCC
           700975]
 gi|262184342|ref|ZP_06043763.1| transcription elongation factor NusA [Corynebacterium aurimucosum
           ATCC 700975]
 gi|227454372|gb|ACP33125.1| N utilization substance protein A [Corynebacterium aurimucosum ATCC
           700975]
          Length = 338

 Score =  199 bits (505), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 106/248 (42%), Positives = 157/248 (63%), Gaps = 9/248 (3%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN----VIVDL 158
           P +FGR+  Q+ +  I++K+RE E +R Y  + +  G ++SG V+R  + N    V+V L
Sbjct: 84  PDNFGRIGAQAVRDAILRKLRENEAERTYDSYSELTGTVVSGVVQRDIHANNRGVVVVQL 143

Query: 159 G----NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHM 214
           G    + D  +   E +  E L  GDRVK+Y+  V R     Q+ LSRTHP+ +  LF +
Sbjct: 144 GTEHDSQDAFLLPAEQLPGEKLEHGDRVKAYVVGVNRNGAKVQITLSRTHPELVRGLFEL 203

Query: 215 EVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKI 274
           EVPE+ +G V++ A++R+ G R+K++V      ++  GAC+G +GSRV  V+ EL  EKI
Sbjct: 204 EVPEVADGAVEIIAIAREAGHRSKISVRGHAKGLNAKGACIGPKGSRVSNVMRELGGEKI 263

Query: 275 DIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQ 333
           DI+ ++ D A +V NAL P+ V +V +LDE+    +V VP  QLSLAIG+ GQN RLA++
Sbjct: 264 DIIDFNEDPAVYVGNALAPSKVVRVEILDEEAQVAKVTVPDYQLSLAIGKEGQNARLAAR 323

Query: 334 LTGWTIDI 341
           LTGW IDI
Sbjct: 324 LTGWKIDI 331


>gi|323356820|ref|YP_004223216.1| transcription elongation factor [Microbacterium testaceum StLB037]
 gi|323273191|dbj|BAJ73336.1| transcription elongation factor [Microbacterium testaceum StLB037]
          Length = 329

 Score =  199 bits (505), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 108/249 (43%), Positives = 160/249 (64%), Gaps = 5/249 (2%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNS 161
           P DFGR+A  +AKQVI Q++R+   D    EF+ K G+I++G V++     ++ VDLG  
Sbjct: 80  PDDFGRIAAFAAKQVISQRLRDIADDAVLGEFRGKEGDIVAGVVQQGPNPRMVHVDLGTV 139

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           + ++  +E +  E    G R++ Y+  V +  +GPQ+ +SRTHP  + KLF +EVPEI  
Sbjct: 140 EAILPPEEQVPGETYAHGSRLRVYVTSVSKGNKGPQITVSRTHPGLVRKLFALEVPEIAA 199

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           G+V++ +++R+ G R+K+AV ++D +++  GAC+G  G RV+AV  EL  EKIDI+ +  
Sbjct: 200 GLVEIVSLAREAGHRSKIAVKANDPTVNAKGACIGELGRRVRAVTEELAGEKIDIIDYDA 259

Query: 282 DSATFVINALRPAIVT-KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           +   FV NAL PA VT   VLD     +  +VP  QLSLAIG+ GQN RLA++LTG  ID
Sbjct: 260 ELPRFVANALSPAKVTSSFVLDASTKAVRALVPDYQLSLAIGKEGQNARLAAKLTGAKID 319

Query: 341 IITEEEDSI 349
           I   + DSI
Sbjct: 320 I---QPDSI 325


>gi|220907502|ref|YP_002482813.1| transcription elongation factor NusA [Cyanothece sp. PCC 7425]
 gi|219864113|gb|ACL44452.1| NusA antitermination factor [Cyanothece sp. PCC 7425]
          Length = 413

 Score =  198 bits (504), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 129/362 (35%), Positives = 202/362 (55%), Gaps = 29/362 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM------------SDIRVEINPE 56
           L ++ +A++ E+++ +  V   + +++ K       T+             +  VEI+ E
Sbjct: 9   LREMINAISRERNLPKYAVQGALQEALMKGYERYRRTLRLEGGHFDEDYFQNFDVEIDVE 68

Query: 57  TGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPP--MDFGRVAVQSA 114
                +     +VE+V+N   QISL   ++      +G  V   + P   +FGR+A   A
Sbjct: 69  EEGFRVLATKTIVEQVDNPDHQISLSEVQEVAAEAQLGDTVILDVTPEQQEFGRMAAIQA 128

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV------IRRD 168
           KQV+ QK+R+ +R     EF+D    ++   V R E  +VI+ + +  G       + + 
Sbjct: 129 KQVLAQKLRDQQRKLVQEEFQDLESTVLQARVLRFERRSVIMAVSSGFGQPEVEAELPKK 188

Query: 169 ETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVK 227
           E +  +N R     K Y+  V     RGPQ+L+SR     +V LF  EVPEI + +V++ 
Sbjct: 189 EQLPNDNYRANATFKVYLKKVLEGPHRGPQLLVSRADAGLVVYLFANEVPEIEDEVVRIV 248

Query: 228 AVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
           AV+R+        G R K+AV + +  +DPVGAC+G RGSR+QAVV ELR EKID++ WS
Sbjct: 249 AVAREANPPSRQVGPRTKIAVDTLERDVDPVGACIGARGSRIQAVVNELRGEKIDVIRWS 308

Query: 281 PDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
           PD AT++ NAL PA V +V +++ +  +  ++V  +QLSLAIG+ GQNVRLA++LTGW I
Sbjct: 309 PDPATYIANALSPARVEEVRLMNPEERQAHILVTDDQLSLAIGKEGQNVRLAARLTGWKI 368

Query: 340 DI 341
           DI
Sbjct: 369 DI 370


>gi|300866111|ref|ZP_07110839.1| transcription elongation factor NusA [Oscillatoria sp. PCC 6506]
 gi|300335907|emb|CBN55997.1| transcription elongation factor NusA [Oscillatoria sp. PCC 6506]
          Length = 427

 Score =  198 bits (503), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 131/360 (36%), Positives = 196/360 (54%), Gaps = 27/360 (7%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGT----------MSDIRVEINPETG 58
           L  + D ++ E+++ +  V + + +++ K       T            +  VE++ E  
Sbjct: 9   LKDMVDVISKERNLPKHAVQAALREALVKGYERYRRTQRLDHFSEEYFDNFEVELDIEEE 68

Query: 59  DISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPP--MDFGRVAVQSAKQ 116
              +     +VEEV N   QI+L   ++      +G  V   + P   DFGR+A    KQ
Sbjct: 69  GFRVLATKSIVEEVSNPDHQIALLEVQEVATEAQLGDTVILDVTPDQNDFGRMAAIQTKQ 128

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV------IRRDET 170
           V+ QK+R+ +R     EFKD    ++   V R E  + I+ + +  G       + + E 
Sbjct: 129 VLAQKLRDQQRKMIQEEFKDLEETVLQARVLRFERQSAILAVSSGFGQPEVEAELPKREQ 188

Query: 171 ISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAV 229
           +  +N R     K Y+  V     RGPQ+++SR     +V LF  EVPEI +G+V++ AV
Sbjct: 189 LPNDNYRANATFKVYLKKVGEGATRGPQLVVSRADAGLVVYLFANEVPEIEDGVVRIVAV 248

Query: 230 SRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPD 282
           +R+        G R K+AV + D  +DPVGAC+G RGSR+Q VV ELR EKID++ WSPD
Sbjct: 249 AREANPPSRHVGPRTKIAVDTLDRDVDPVGACIGARGSRIQVVVNELRGEKIDVIRWSPD 308

Query: 283 SATFVINALRPAIVTKVVLDEDVG-RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            AT++ NAL PA V +V L    G R  ++V ++QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 309 PATYIANALSPARVDEVRLVAPEGRRAHILVAEDQLSLAIGKEGQNVRLAARLTGWKIDI 368


>gi|237785727|ref|YP_002906432.1| transcription elongation factor NusA [Corynebacterium
           kroppenstedtii DSM 44385]
 gi|237758639|gb|ACR17889.1| N utilization substance protein A [Corynebacterium kroppenstedtii
           DSM 44385]
          Length = 328

 Score =  198 bits (503), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 121/342 (35%), Positives = 200/342 (58%), Gaps = 33/342 (9%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  E+ +  + + + +A ++ +A     G  S+ RV+++P+ G +++            
Sbjct: 10  AIERERGVSVEDMTATIAKALLEAWEKSSGGDSEARVDVDPDDGHVAV------------ 57

Query: 75  YTCQISLKVARDRDPSIDIGGVVSD-PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
                   +  +RD   D G V+++    P DFGR    + ++ ++ +++EAE D+ Y E
Sbjct: 58  --------IVTERD---DEGNVIAEVDETPSDFGRSFAGTVREAMVARLQEAEADQTYEE 106

Query: 134 FKDKVGEIISGTVKRVEY----GNVIVDLGN----SDGVIRRDETISRENLRPGDRVKSY 185
           +     ++++G V+   +    G VI  LG     +DG +   E I  E    G R+K Y
Sbjct: 107 YASLTSKVVTGIVEADSFARAKGIVIARLGTEAHGNDGTLLPAEQIPGEKYPHGKRLKFY 166

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V R  RG Q+++SRTHP+F+ +LF +EVPE+ +G V+V +++R+ G R+K+AV S+ 
Sbjct: 167 VVNVNRGPRGVQIMISRTHPEFVHRLFELEVPEVADGSVEVVSIAREAGHRSKVAVRSTI 226

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
             ++  G+C+G RG RV+A++ EL  EKIDI+ +  D ATFV N+L P+ V KV V+D +
Sbjct: 227 DGVNAKGSCIGPRGQRVRAIMDELGGEKIDIIDFDEDPATFVGNSLAPSKVLKVEVVDPE 286

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
                V VP  QLSLAIG+ GQN RLA++LTGW IDI ++ E
Sbjct: 287 EQVARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIHSDTE 328


>gi|213022790|ref|ZP_03337237.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. 404ty]
          Length = 177

 Score =  197 bits (501), Expect = 3e-48,   Method: Compositional matrix adjust.
 Identities = 91/170 (53%), Positives = 128/170 (75%)

Query: 174 ENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDP 233
           +  RPGDR++  +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDP
Sbjct: 4   KTYRPGDRIRGVLYAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDP 63

Query: 234 GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP 293
           GSRAK+AV ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ P
Sbjct: 64  GSRAKIAVKTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAP 123

Query: 294 AIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           A V  +V+DED   +++ V    L+ AIGR GQNV LASQL+GW ++++T
Sbjct: 124 ADVASIVVDEDKHTMDIAVEAGNLAQAIGRNGQNVHLASQLSGWELNVMT 173


>gi|259507495|ref|ZP_05750395.1| N utilization substance protein A [Corynebacterium efficiens
           YS-314]
 gi|259164880|gb|EEW49434.1| N utilization substance protein A [Corynebacterium efficiens
           YS-314]
          Length = 332

 Score =  197 bits (501), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 109/248 (43%), Positives = 165/248 (66%), Gaps = 9/248 (3%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV----KRVEYGNVIVDL 158
           P +FGRV+ ++ +  I++++REAE +R +  + +  G ++SG V    +  E G V+V L
Sbjct: 80  PSNFGRVSARAVRDAIVRRLREAEAERAFDAYAEYEGTVMSGLVQADSRAAERGIVVVQL 139

Query: 159 G----NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHM 214
           G    + DG++   E I  E L+ GDRVKSY+  V +   G Q+ LSRTHP+ + +LF +
Sbjct: 140 GTETDSQDGILLPAEQIPGEKLKHGDRVKSYVVGVGKGPVGIQINLSRTHPELVRRLFEL 199

Query: 215 EVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKI 274
           E+PE+ +G V++ A+SR+ G R+K+AV ++  +++  GAC+G RG RV  ++ EL  EKI
Sbjct: 200 EIPEVADGSVEIVAISREAGHRSKVAVRATVKNLNAKGACIGPRGQRVSNIMRELGGEKI 259

Query: 275 DIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQ 333
           DI+ +S D ATFV NAL P+ V  V ++D +    +V+VP  QLSLAIG+ GQN RLA++
Sbjct: 260 DIIDYSDDPATFVGNALAPSKVVSVEIVDAEQQVAKVVVPDYQLSLAIGKEGQNARLAAR 319

Query: 334 LTGWTIDI 341
           LTGW IDI
Sbjct: 320 LTGWKIDI 327


>gi|33863793|ref|NP_895353.1| transcription elongation factor NusA [Prochlorococcus marinus str.
           MIT 9313]
 gi|33635376|emb|CAE21701.1| N utilization substance protein A [Prochlorococcus marinus str. MIT
           9313]
          Length = 482

 Score =  197 bits (501), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 126/297 (42%), Positives = 176/297 (59%), Gaps = 19/297 (6%)

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIG-GVVSDPLPPM-DFGRVAVQSAKQVIIQKVREA 125
           +VEEVE+   QI+L+          IG  VV D  P   DFGR+A  + KQV+ QK+R+ 
Sbjct: 82  IVEEVESEDHQIALQEVMQVAEDAQIGDTVVLDVTPEKEDFGRMAAATTKQVLAQKLRDQ 141

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-------VIRRDETISRENLRP 178
           +R     EF D    +++  V R E  +VI+ + +  G       + RRD+ +  +N R 
Sbjct: 142 QRRMIQEEFADLEDPVLTARVIRFERHSVIMAVSSGLGRPEVEAELPRRDQ-LPNDNYRA 200

Query: 179 GDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDP---- 233
               K ++ +V    +RGPQ+ +SR++   +V LF  EVPEI  G V++ AV+R+     
Sbjct: 201 NATFKVFLKEVSEVPRRGPQLFVSRSNAGLVVYLFENEVPEIQEGSVRIVAVAREANPPS 260

Query: 234 ---GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA 290
              G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++ WSPD   ++ N+
Sbjct: 261 RSVGPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEKIDVIRWSPDPGQYIANS 320

Query: 291 LRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           L PA V  V L D +     V+VP +QLSLAIGR GQNVRLA++LTGW IDI   +E
Sbjct: 321 LSPARVEMVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGWKIDIKNSQE 377


>gi|124022125|ref|YP_001016432.1| transcription elongation factor NusA [Prochlorococcus marinus str.
           MIT 9303]
 gi|123962411|gb|ABM77167.1| N utilization substance protein A [Prochlorococcus marinus str. MIT
           9303]
          Length = 484

 Score =  197 bits (501), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 126/297 (42%), Positives = 176/297 (59%), Gaps = 19/297 (6%)

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIG-GVVSDPLPPM-DFGRVAVQSAKQVIIQKVREA 125
           +VEEVE+   QI+L+          IG  VV D  P   DFGR+A  + KQV+ QK+R+ 
Sbjct: 82  IVEEVESEDHQIALQEVMQVAEDAQIGDTVVLDVTPEKEDFGRMAAATTKQVLAQKLRDQ 141

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-------VIRRDETISRENLRP 178
           +R     EF D    +++  V R E  +VI+ + +  G       + RRD+ +  +N R 
Sbjct: 142 QRRMIQEEFADLEDPVLTARVIRFERHSVIMAVSSGLGRPEVEAELPRRDQ-LPNDNYRA 200

Query: 179 GDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDP---- 233
               K ++ +V    +RGPQ+ +SR++   +V LF  EVPEI  G V++ AV+R+     
Sbjct: 201 NATFKVFLKEVSEVPRRGPQLFVSRSNAGLVVYLFENEVPEIQEGSVRIVAVAREANPPS 260

Query: 234 ---GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA 290
              G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++ WSPD   ++ N+
Sbjct: 261 RSVGPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEKIDVIRWSPDPGQYIANS 320

Query: 291 LRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           L PA V  V L D +     V+VP +QLSLAIGR GQNVRLA++LTGW IDI   +E
Sbjct: 321 LSPARVEMVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGWKIDIKNSQE 377


>gi|158334115|ref|YP_001515287.1| transcription elongation factor NusA [Acaryochloris marina
           MBIC11017]
 gi|158304356|gb|ABW25973.1| transcription termination factor NusA [Acaryochloris marina
           MBIC11017]
          Length = 452

 Score =  197 bits (500), Expect = 5e-48,   Method: Compositional matrix adjust.
 Identities = 128/320 (40%), Positives = 189/320 (59%), Gaps = 21/320 (6%)

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIG-GVVSDPLPPMD-FGRVAVQSAKQVIIQKVREA 125
           +V+EVE+   QI+L   R+  P   +G  VV D  P  + FGR+A    KQV+ QK+R+ 
Sbjct: 81  IVDEVESTDHQIALTEVREVAPEAQLGDTVVLDVTPEQNEFGRMAAIQTKQVLSQKLRDQ 140

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV------IRRDETISRENLRPG 179
           +R     EF+D    ++   V R E  +VI+ + ++ G       + + E +  +N R  
Sbjct: 141 QRKLIQEEFQDLEKTVLQARVLRFERRSVIMAVTSAFGQPEVEAELPKREQLPNDNYRAN 200

Query: 180 DRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDP----- 233
              K ++  V     RGPQ+++SR     +V LF  EVPEI + +V++ AV+R+      
Sbjct: 201 ATFKVFLKRVADGPHRGPQLVVSRADAGLVVYLFANEVPEIEDEVVRIVAVAREANPPSR 260

Query: 234 --GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINAL 291
             G R K+AV + +  +DPVGAC+G RGSR+QAVV ELR EKID++ WSPD AT++ NAL
Sbjct: 261 QVGPRTKIAVDTLERDVDPVGACIGARGSRIQAVVNELRGEKIDVIRWSPDPATYIANAL 320

Query: 292 RPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V  V ++D +  +  V+V ++QLSLAIG+ GQNVRLA++LTGW IDI    +D  N
Sbjct: 321 SPARVDAVRLIDTEERQAHVLVAEDQLSLAIGKEGQNVRLAARLTGWKIDI----KDIAN 376

Query: 351 RQKDFNERTQFFMQAINVDE 370
             ++  +     +QA  VDE
Sbjct: 377 YDQEAEDLQLSELQAQKVDE 396


>gi|148243067|ref|YP_001228224.1| transcription elongation factor NusA [Synechococcus sp. RCC307]
 gi|147851377|emb|CAK28871.1| Transcription elongation factor NusA [Synechococcus sp. RCC307]
          Length = 471

 Score =  197 bits (500), Expect = 5e-48,   Method: Compositional matrix adjust.
 Identities = 142/363 (39%), Positives = 202/363 (55%), Gaps = 33/363 (9%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAA----RSLY-GTMSDIRVEINPETGDISL------FR 64
           ++ EK +  +VV + + +++ K      R+LY G   D   E      D+ L      +R
Sbjct: 16  ISEEKKLPANVVEAALREALLKGYERYRRTLYIGISEDPFDEEYFSNFDVGLDLDEEGYR 75

Query: 65  LLE---VVEEVENYTCQISLKVARDRDPSIDIG-GVVSDPLPPMD-FGRVAVQSAKQVII 119
           +L    +VEEVE+   QI L   +       +G  VV D  P  D FGR+A  + KQV+ 
Sbjct: 76  VLASKIIVEEVESEDHQIGLADVQQVTDDAQLGDTVVLDVTPEKDDFGRMAAATTKQVLA 135

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-------VIRRDETIS 172
           QK+RE +R     EF D    +++  V R E  +VI+ + +  G       + RRD+ + 
Sbjct: 136 QKLREHQRRMIQEEFADLEDPVLTARVIRFERQSVIMAVSSGLGRPEVEAELPRRDQ-LP 194

Query: 173 RENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSR 231
            +N R     K ++ +V    +RGPQ+ +SR +   +V LF  EVPEI  G V++ AV+R
Sbjct: 195 NDNYRANATFKVFLKEVSEIARRGPQLFISRANAGLVVYLFENEVPEIQEGSVRIVAVAR 254

Query: 232 DP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSA 284
           +        G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++ WSPD  
Sbjct: 255 EANPPSRAVGPRTKVAVDSVEREVDPVGACIGARGSRIQQVVNELRGEKIDVIRWSPDPG 314

Query: 285 TFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
            ++ N+L PA V  V L D +     V+VP +QLSLAIGR GQNVRLA++LTGW IDI  
Sbjct: 315 QYLANSLSPARVDMVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGWKIDIKN 374

Query: 344 EEE 346
            EE
Sbjct: 375 SEE 377


>gi|25028436|ref|NP_738490.1| transcription elongation factor NusA [Corynebacterium efficiens
           YS-314]
 gi|23493721|dbj|BAC18690.1| putative transcriptional termination/antitermination factor
           [Corynebacterium efficiens YS-314]
          Length = 359

 Score =  196 bits (499), Expect = 6e-48,   Method: Compositional matrix adjust.
 Identities = 109/248 (43%), Positives = 165/248 (66%), Gaps = 9/248 (3%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV----KRVEYGNVIVDL 158
           P +FGRV+ ++ +  I++++REAE +R +  + +  G ++SG V    +  E G V+V L
Sbjct: 107 PSNFGRVSARAVRDAIVRRLREAEAERAFDAYAEYEGTVMSGLVQADSRAAERGIVVVQL 166

Query: 159 G----NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHM 214
           G    + DG++   E I  E L+ GDRVKSY+  V +   G Q+ LSRTHP+ + +LF +
Sbjct: 167 GTETDSQDGILLPAEQIPGEKLKHGDRVKSYVVGVGKGPVGIQINLSRTHPELVRRLFEL 226

Query: 215 EVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKI 274
           E+PE+ +G V++ A+SR+ G R+K+AV ++  +++  GAC+G RG RV  ++ EL  EKI
Sbjct: 227 EIPEVADGSVEIVAISREAGHRSKVAVRATVKNLNAKGACIGPRGQRVSNIMRELGGEKI 286

Query: 275 DIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQ 333
           DI+ +S D ATFV NAL P+ V  V ++D +    +V+VP  QLSLAIG+ GQN RLA++
Sbjct: 287 DIIDYSDDPATFVGNALAPSKVVSVEIVDAEQQVAKVVVPDYQLSLAIGKEGQNARLAAR 346

Query: 334 LTGWTIDI 341
           LTGW IDI
Sbjct: 347 LTGWKIDI 354


>gi|78779969|ref|YP_398081.1| transcription elongation factor NusA [Prochlorococcus marinus str.
           MIT 9312]
 gi|78713468|gb|ABB50645.1| NusA antitermination factor [Prochlorococcus marinus str. MIT 9312]
          Length = 468

 Score =  196 bits (498), Expect = 7e-48,   Method: Compositional matrix adjust.
 Identities = 124/298 (41%), Positives = 175/298 (58%), Gaps = 21/298 (7%)

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIG-GVVSDPLPPM-DFGRVAVQSAKQVIIQKVREA 125
           +VEEVE+   QISL   +       IG  VV D  P   DFGR+A  + KQV+ QK+R+ 
Sbjct: 82  IVEEVESEDHQISLAEVKQVAEDAQIGDTVVLDVTPEKEDFGRMAASTTKQVLAQKLRDQ 141

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIR--------RDETISRENLR 177
           +R     EF D    +++  V R E  +VI  +G S G+ R        + + +  +N R
Sbjct: 142 QRKMIQEEFADLEDPVLTARVIRFERQSVI--MGVSSGIGRPEVEAELPKRDQLPNDNYR 199

Query: 178 PGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDP--- 233
                K ++ +V    ++GPQ+ +SR +   +V LF  EVPEI  G V++ AVSR+    
Sbjct: 200 ANATFKVFLKEVSEIARKGPQLFVSRANAGLVVYLFENEVPEIQEGTVKIVAVSREANPP 259

Query: 234 ----GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVIN 289
               G R K+AV S +  +DPVGAC+G RG+R+Q VV ELR EKID++ WS D   +++N
Sbjct: 260 SRGVGPRTKVAVDSVEQEVDPVGACIGARGARIQQVVNELRGEKIDVIKWSSDPIQYILN 319

Query: 290 ALRPAIVTKVVLDEDVGR-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           +L PA V +V L +  G+   V+VP +QLSLAIGR GQNVRLA++LTGW ID+    E
Sbjct: 320 SLSPAKVDQVRLVDPAGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGWKIDVKNSHE 377


>gi|170077376|ref|YP_001734014.1| transcription elongation factor NusA [Synechococcus sp. PCC 7002]
 gi|169885045|gb|ACA98758.1| transcription termination factor NusA [Synechococcus sp. PCC 7002]
          Length = 420

 Score =  196 bits (498), Expect = 9e-48,   Method: Compositional matrix adjust.
 Identities = 129/299 (43%), Positives = 183/299 (61%), Gaps = 20/299 (6%)

Query: 63  FRLLE---VVEEVENYTCQISLKVARDRDPSIDIG-GVVSDPLPPM-DFGRVAVQSAKQV 117
           FR+L    +VEEVEN   QI+L+  ++      +G  V+ D  P   DFGR+A    KQV
Sbjct: 73  FRVLATKVIVEEVENSDHQIALQEVQEVANEAQLGDSVILDVTPEQSDFGRMAAIQTKQV 132

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV------IRRDETI 171
           ++QK+R+ +R     EF++  GE++   V R E   V++ + ++ G       + R E +
Sbjct: 133 LLQKLRDQQRKLVQEEFQELEGEVLQARVLRFERNFVVMAVTSAFGQPETEAELPRREQL 192

Query: 172 SRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVS 230
             +N R     K Y+  V+    RGPQ+++SR     +V LF  EVPEI   IV++ AV+
Sbjct: 193 PNDNYRANTTYKVYLKHVKEGSHRGPQLVVSRAAADLVVYLFANEVPEIEEEIVRIVAVA 252

Query: 231 RDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDS 283
           R+        G R K+AV + +  +DPVGAC+G RGSR+QAVV ELR EKID++ WSPD 
Sbjct: 253 REANPPGRYVGPRTKIAVDTLERDVDPVGACIGARGSRIQAVVNELRGEKIDVIRWSPDP 312

Query: 284 ATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           AT++ NAL PA V  V+L D +  +  V+VP+ QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 313 ATYIANALSPARVDGVILVDAEERQATVLVPENQLSLAIGKEGQNVRLAARLTGWKIDI 371


>gi|87301303|ref|ZP_01084144.1| transcription elongation factor NusA [Synechococcus sp. WH 5701]
 gi|87284271|gb|EAQ76224.1| transcription elongation factor NusA [Synechococcus sp. WH 5701]
          Length = 492

 Score =  195 bits (496), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 140/365 (38%), Positives = 204/365 (55%), Gaps = 33/365 (9%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAA----RSLY-GTMSDIRVEINPETGDISL- 62
           L  + + ++ EK +   VV + + +++ K      R+LY G   D   E      D++L 
Sbjct: 9   LQNLIEDISEEKKLPTQVVEAALREALLKGYERYRRTLYLGISEDPFEEDYFSNFDVALD 68

Query: 63  -----FRLLE---VVEEVENYTCQISLKVARDRDPSIDIG-GVVSDPLPPMD-FGRVAVQ 112
                +R+L    +VEEVE+   QI+L   +       +G  VV D  P  D FGR+A  
Sbjct: 69  LDEEGYRVLASKIIVEEVESEDHQIALAEVQQVAEDAQVGDTVVLDVTPEKDDFGRMAAA 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-------VI 165
           + KQV+ QK+R+ +R     EF D    +++  V R E  +VI+ + +  G       + 
Sbjct: 129 TTKQVLAQKLRDQQRRMIQEEFADLEDPVLTARVIRFERQSVIMAVSSGLGRPEVEAELP 188

Query: 166 RRDETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           RRD+ +  +N R     K ++ +V    +RGPQ+ +SR +   +V LF  EVPEI  G V
Sbjct: 189 RRDQ-LPNDNYRANATFKVFLKEVSEVPRRGPQLFVSRANAGLVVYLFENEVPEIQEGSV 247

Query: 225 QVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIV 277
           ++ AV+R+        G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++
Sbjct: 248 RIVAVAREANPPSRAVGPRTKVAVDSVEREVDPVGACIGARGSRIQQVVNELRGEKIDVI 307

Query: 278 VWSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTG 336
            WSPD   ++ N+L PA V  V L D +     V+VP +QLSLAIGR GQNVRLA++LTG
Sbjct: 308 RWSPDPGQYLANSLSPARVEMVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAARLTG 367

Query: 337 WTIDI 341
           W IDI
Sbjct: 368 WKIDI 372


>gi|227504824|ref|ZP_03934873.1| transcription elongation factor NusA [Corynebacterium striatum ATCC
           6940]
 gi|227198674|gb|EEI78722.1| transcription elongation factor NusA [Corynebacterium striatum ATCC
           6940]
          Length = 338

 Score =  195 bits (495), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 120/316 (37%), Positives = 182/316 (57%), Gaps = 34/316 (10%)

Query: 36  QKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGG 95
           Q AA    GT S  RV+I+ +TG +++                    +  + DP  + G 
Sbjct: 40  QSAAGKSEGTKS--RVDIDADTGAVTV--------------------IVTESDP--ETGE 75

Query: 96  VVSD-PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR----VE 150
           V+S+    P +F RV  Q+ ++ II+K+REAE +  Y  + +  G ++SG V+R     E
Sbjct: 76  VISEYDDTPENFSRVGAQAVREAIIRKLREAEAEVTYESYSELTGRVVSGIVQRDVRANE 135

Query: 151 YGNVIVDLG----NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQ 206
            G V+V LG    + D ++   E +  E L  GDR+K+Y+  V R     Q+ LSRTHP+
Sbjct: 136 RGVVVVQLGTELDSQDAILLPAEQLPGEKLEHGDRIKAYVVGVTRNGAQVQITLSRTHPE 195

Query: 207 FMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVV 266
            +  LF +E+PE+ +G V++ A++R+ G R+K++V      ++  GAC+G RG RV  ++
Sbjct: 196 LVRGLFELEIPEVGDGAVELVAIAREAGHRSKVSVIGHAKGLNAKGACIGPRGERVNNIM 255

Query: 267 TELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRG 325
            EL  EKIDI+ ++ D A +V N+L P+ V +V V+D D     V VP  QLSLAIG+ G
Sbjct: 256 RELGGEKIDIIDYNEDPAVYVGNSLAPSKVVRVEVVDPDAQVARVTVPDYQLSLAIGKEG 315

Query: 326 QNVRLASQLTGWTIDI 341
           QN RLA++LTGW IDI
Sbjct: 316 QNARLAARLTGWKIDI 331


>gi|78189424|ref|YP_379762.1| transcription elongation factor NusA [Chlorobium chlorochromatii
           CaD3]
 gi|78171623|gb|ABB28719.1| NusA antitermination factor [Chlorobium chlorochromatii CaD3]
          Length = 527

 Score =  194 bits (494), Expect = 3e-47,   Method: Compositional matrix adjust.
 Identities = 119/341 (34%), Positives = 196/341 (57%), Gaps = 26/341 (7%)

Query: 27  VLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD 86
           +  ++ D IQK  R  Y    +  + INPE GD  ++ L ++VE+V+  T +ISL+  R 
Sbjct: 44  IADLLKDIIQKQLRKDYDPEVEANIFINPERGDFEVYILRKIVEDVDIPTIEISLEDIRK 103

Query: 87  RDPSIDIGGVVSD-PLPPMDF-GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
            D S+++G    + P+   D+  R ++Q  KQ + +KVR+ ER   Y E  +KVGE+I+G
Sbjct: 104 IDDSLEVGDYYEEGPIKLDDYLSRKSIQIIKQSVQKKVRDLERLIVYEECLEKVGEVIAG 163

Query: 145 TVKRVEYGNVIVDLGNSDG-----VIRRDETISRENLRPGDRVKSYIYDVRREQR----- 194
            V +V    VI     S       V+ + E + ++N R   R+K Y+  + RE+      
Sbjct: 164 EVYQVRSNEVIFTYNTSKDHRVELVLPKSEMMKKDNPRRMPRMKLYVKRIEREKNKIRMD 223

Query: 195 ------------GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
                       G +V++SR   +F+ KLF  EVPEI +G++ +KAV+R PG RAK+AV 
Sbjct: 224 DGTVVEREKPDGGMKVIVSRVDDRFLYKLFEHEVPEILDGLIIIKAVARVPGERAKVAVE 283

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+ + IDPVGA VG RG R+Q++V EL +E ID++ ++ +   ++  A++PA +  + + 
Sbjct: 284 STSARIDPVGATVGYRGKRIQSIVKELNNENIDVIYYADEPQIYISRAMQPAKIDPMTVH 343

Query: 303 EDVG--RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            D+   +  V++  +Q+  AIG+ G N+ LA +LTG+ ID+
Sbjct: 344 VDIKTRKARVMLKPDQIKYAIGKNGNNIHLAEKLTGYEIDV 384


>gi|110597607|ref|ZP_01385892.1| transcription termination factor NusA [Chlorobium ferrooxidans DSM
           13031]
 gi|110340727|gb|EAT59204.1| transcription termination factor NusA [Chlorobium ferrooxidans DSM
           13031]
          Length = 516

 Score =  194 bits (492), Expect = 4e-47,   Method: Compositional matrix adjust.
 Identities = 118/341 (34%), Positives = 194/341 (56%), Gaps = 26/341 (7%)

Query: 27  VLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD 86
           +  ++ D IQK  R  Y    +  + INPE GD  ++ L ++V+EV+  + +ISL   R 
Sbjct: 44  IADLLKDIIQKQLRKDYDPEVESNIFINPERGDFEVYILKKIVKEVDIESIEISLDEVRK 103

Query: 87  RDPSIDIGGVVSD-PLPPMDF-GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
            D S+DIG    + P+   D+  R ++Q  KQ + +KVR+ ER   Y E  +KVGE+++G
Sbjct: 104 IDDSLDIGDYYEEGPIKLDDYLSRKSIQIIKQSVQKKVRDLERLVVYEECLEKVGEVVAG 163

Query: 145 TVKRVEYGNVIVDLGNSDG-----VIRRDETISRENLRPGDRVKSYIYDVRREQ------ 193
            V ++    VI     S       V+ + E + ++N R   R+K YI  + RE+      
Sbjct: 164 EVYQIRSNEVIFTYNTSKDHRVELVLPKSEMMKKDNPRRTPRMKLYIKRIEREKVKTKLD 223

Query: 194 -----------RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
                       G +V++SR   +F+ KLF  EVPEI +G++ +KA++R PG RAK+AV 
Sbjct: 224 DGNVVEREKADGGMKVIVSRVDDRFLYKLFEHEVPEILDGLIVIKAIARVPGERAKVAVE 283

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+ + IDPVGA VG RG R+Q++V EL +E ID++ ++ +   ++  A++PA +  + + 
Sbjct: 284 STSARIDPVGATVGYRGKRIQSIVKELNNENIDVIYYTDEPQIYISRAMQPAKIDPLTVH 343

Query: 303 ED--VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            D    +  V++  +Q+  AIG+ G N+ LA +LTG+ ID+
Sbjct: 344 ADPKTRKARVMLKPDQIKYAIGKNGNNIHLAEKLTGYEIDV 384


>gi|119356207|ref|YP_910851.1| transcription elongation factor NusA [Chlorobium phaeobacteroides
           DSM 266]
 gi|119353556|gb|ABL64427.1| NusA antitermination factor [Chlorobium phaeobacteroides DSM 266]
          Length = 518

 Score =  194 bits (492), Expect = 4e-47,   Method: Compositional matrix adjust.
 Identities = 118/341 (34%), Positives = 193/341 (56%), Gaps = 26/341 (7%)

Query: 27  VLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD 86
           +  ++ D IQK  R  Y    +  + INPE GD  ++ L +VV EV+  + +IS+   R 
Sbjct: 44  IADLLKDIIQKQLRKDYDPEVEANIFINPERGDFEVYILKKVVSEVDLESIEISIDEVRK 103

Query: 87  RDPSIDIGGVVSD-PLPPMDF-GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
            D S+++G    + P+   D+  R ++Q  KQ + +KVR+ ER   Y E  +KVGE+++G
Sbjct: 104 IDDSLELGDYYEEGPIKLEDYLSRKSIQIIKQSVQKKVRDLERLVVYEECLEKVGEVVAG 163

Query: 145 TVKRVEYGNVIVDLGNSDG-----VIRRDETISRENLRPGDRVKSYIYDVRREQ------ 193
            V +V    VI     S       V+ R E I ++N R   R+K Y+  + RE+      
Sbjct: 164 EVYQVRSNEVIFTYNTSKDHRVELVLPRAEMIKKDNPRRNPRMKLYVKRIEREKVKVRLD 223

Query: 194 -----------RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
                       G +V++SR   +F+ KLF  EVPEI +G++ +K ++R PG RAK+AV 
Sbjct: 224 DGGVVERDKPDGGMKVIVSRIDDRFLYKLFEHEVPEILDGLIVIKGIARVPGERAKVAVE 283

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+ + IDPVGA VG RG R+Q++V EL +E ID++ ++ +   ++  AL+PA +  + + 
Sbjct: 284 STSARIDPVGASVGYRGKRIQSIVKELNNENIDVIYYTDEPQIYIARALQPAKIDPLTVH 343

Query: 303 EDVG--RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            D+   +  V++  +Q+  AIG+ G N+ LA +LTG+ ID+
Sbjct: 344 ADIKTRKARVMLKPDQIKYAIGKNGNNIHLAEKLTGYEIDV 384


>gi|123966905|ref|YP_001011986.1| transcription elongation factor NusA [Prochlorococcus marinus str.
           MIT 9515]
 gi|123201271|gb|ABM72879.1| N utilization substance protein A [Prochlorococcus marinus str. MIT
           9515]
          Length = 467

 Score =  194 bits (492), Expect = 4e-47,   Method: Compositional matrix adjust.
 Identities = 126/306 (41%), Positives = 177/306 (57%), Gaps = 24/306 (7%)

Query: 63  FRLLE---VVEEVENYTCQISLKVARDRDPSIDIG-GVVSDPLPPM-DFGRVAVQSAKQV 117
           +R+L    +VEEVE+   QISL   +       IG  VV D  P   DFGR+A  + KQV
Sbjct: 74  YRILSSKIIVEEVESEDHQISLNEVKQVADDAQIGDTVVLDVTPEKEDFGRMAASTTKQV 133

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIR--------RDE 169
           + QK+R+ +R     EF D    +++  V R E  +VI  +G S G+ R        + +
Sbjct: 134 LAQKLRDQQRKMIQEEFADLEDPVLTARVIRFERQSVI--MGVSSGIGRPEVEAELPKRD 191

Query: 170 TISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKA 228
            +  +N R     K ++ +V    ++GPQ+ +SR +   +V LF  EVPEI  G V++ A
Sbjct: 192 QLPNDNYRANATFKVFLKEVSEIARKGPQLFVSRANAGLVVYLFENEVPEIQEGTVKIVA 251

Query: 229 VSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           VSR+        G R K+AV S +  +DPVGAC+G RG+R+Q VV ELR EKID++ WS 
Sbjct: 252 VSREANPPSRAVGPRTKVAVDSIEREVDPVGACIGARGARIQQVVNELRGEKIDVIKWSA 311

Query: 282 DSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D   +++N+L PA V  V L D +     V+VP +QLSLAIGR GQNVRLA++LTGW ID
Sbjct: 312 DPIEYILNSLSPAKVDLVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGWKID 371

Query: 341 IITEEE 346
           +    E
Sbjct: 372 VKNSHE 377


>gi|296117673|ref|ZP_06836257.1| transcription termination factor NusA [Corynebacterium ammoniagenes
           DSM 20306]
 gi|295969404|gb|EFG82645.1| transcription termination factor NusA [Corynebacterium ammoniagenes
           DSM 20306]
          Length = 340

 Score =  193 bits (491), Expect = 5e-47,   Method: Compositional matrix adjust.
 Identities = 107/253 (42%), Positives = 154/253 (60%), Gaps = 14/253 (5%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN----VIVDL 158
           P +FGRVA  + +  I +++RE E DR Y  + +  G ++SG V++  + N    V+V L
Sbjct: 80  PTNFGRVAAPAVRDAIFKRLREVEADRAYDSYAELQGTVVSGVVQQDSHANSRGIVVVQL 139

Query: 159 GN---------SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMV 209
           G           DG++   E I  E L  G RV++Y+  V++E    QVLLSRTHP+ + 
Sbjct: 140 GTEIDIKEGKTQDGILLPAEQIPGERLTHGTRVRAYVVGVQKEGARVQVLLSRTHPELVR 199

Query: 210 KLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTEL 269
            LF +EVPE+ +G V++ A++R+ G R+K+AV      ++  GAC+G RG RV  V+  L
Sbjct: 200 GLFELEVPEVLDGAVEIVAIAREAGHRSKVAVTGQVKGLNAKGACIGPRGQRVTNVMQSL 259

Query: 270 RDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNV 328
             EKIDI+ ++ D   +V NAL P+ V +V VLD +     V VP  QLSLAIG+ GQN 
Sbjct: 260 GGEKIDIIDFNEDPGVYVGNALAPSKVVRVEVLDPEAQLARVTVPDYQLSLAIGKEGQNA 319

Query: 329 RLASQLTGWTIDI 341
           RLA++LTGW IDI
Sbjct: 320 RLAARLTGWKIDI 332


>gi|33865134|ref|NP_896693.1| transcription elongation factor NusA [Synechococcus sp. WH 8102]
 gi|33638818|emb|CAE07115.1| N utilization substance protein A [Synechococcus sp. WH 8102]
          Length = 475

 Score =  193 bits (491), Expect = 5e-47,   Method: Compositional matrix adjust.
 Identities = 140/365 (38%), Positives = 208/365 (56%), Gaps = 33/365 (9%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAA----RSLY-GTMSDIRVEINPETGDISL- 62
           L  + D ++ EK +   VV + + +++ K      R++Y G   D   E      D+ L 
Sbjct: 9   LSNLIDDISEEKKLPPQVVEAALREALLKGYERYRRTMYLGISEDPFDEEYFSNFDVGLD 68

Query: 63  -----FRLLE---VVEEVENYTCQISLK-VARDRDPSIDIGGVVSDPLPPM-DFGRVAVQ 112
                +R+L    +VEEVE+   QI+L+ V +  D + +   VV D  P   DFGR+A  
Sbjct: 69  LEEEGYRVLASKIIVEEVESEDHQIALQEVMQVADDAQEGDTVVLDVTPEKEDFGRMAAA 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-------VI 165
           + KQV+ QK+R+ +R     EF D    +++  V R E  +VI+ + +  G       + 
Sbjct: 129 TTKQVLAQKLRDQQRRMIQEEFADLEDPVLTARVIRFERQSVIMAVSSGLGRPEVEAELP 188

Query: 166 RRDETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           RRD+ +  +N R     K ++ +V    +RGPQ+ +SR++   +V LF  EVPEI  G V
Sbjct: 189 RRDQ-LPNDNYRANATFKVFLKEVSEVPRRGPQLFVSRSNAGLVVYLFENEVPEIQEGSV 247

Query: 225 QVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIV 277
           ++ AV+R+        G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++
Sbjct: 248 RIVAVAREANPPSRSVGPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEKIDVI 307

Query: 278 VWSPDSATFVINALRPAIVTKVVLDEDVGR-IEVIVPKEQLSLAIGRRGQNVRLASQLTG 336
            WS D   ++ N+L PA V  V L + VG+   V+VP +QLSLAIGR GQNVRLA++LTG
Sbjct: 308 RWSQDPGQYIANSLSPARVEMVRLVDPVGQHAHVLVPPDQLSLAIGREGQNVRLAARLTG 367

Query: 337 WTIDI 341
           W +DI
Sbjct: 368 WKLDI 372


>gi|23336297|ref|ZP_00121520.1| COG0195: Transcription elongation factor [Bifidobacterium longum
           DJO10A]
          Length = 310

 Score =  193 bits (491), Expect = 5e-47,   Method: Compositional matrix adjust.
 Identities = 102/246 (41%), Positives = 160/246 (65%), Gaps = 3/246 (1%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR--VEYGNVIVDLGN 160
           P DFGR+A  +A+QVI Q  R AE ++ +  F  + G++I+G +++   +  NV V +G+
Sbjct: 41  PRDFGRLAAATARQVITQLFRRAEDEKVFGSFSGQKGKLITGIIQQDASDPSNVHVAMGD 100

Query: 161 SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIY 220
            + ++ R E +  E  R G+R++ Y+ +V R  +GP++++SR+HP+ + KLF  EVPE+ 
Sbjct: 101 VEAILPRREQVPGERYRHGERIRVYVVNVARGIKGPEIVVSRSHPELVRKLFEREVPELV 160

Query: 221 NGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
           +G V + A++R+ G+R K+AV ++   ++P GA +G  G+RV+AV+  L  EKIDIV +S
Sbjct: 161 SGAVSIMAIAREAGARTKIAVKANTDGVNPKGALIGPGGARVRAVMENLGPEKIDIVDYS 220

Query: 281 PDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
            D A FV  AL PA+ T V V+ E        +  +QLSLAIG+ GQN RLA++LTGW I
Sbjct: 221 DDPAKFVAAALSPAVATGVQVISEKNKTAIAFIHDDQLSLAIGKEGQNARLAAKLTGWKI 280

Query: 340 DIITEE 345
            I + E
Sbjct: 281 GIESAE 286


>gi|303233400|ref|ZP_07320069.1| transcription termination factor NusA [Atopobium vaginae
           PB189-T1-4]
 gi|302480529|gb|EFL43620.1| transcription termination factor NusA [Atopobium vaginae
           PB189-T1-4]
          Length = 413

 Score =  193 bits (491), Expect = 5e-47,   Method: Compositional matrix adjust.
 Identities = 108/265 (40%), Positives = 161/265 (60%), Gaps = 25/265 (9%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSD 162
           P +  R+ VQ  KQ + + +R ++R + Y EF +++G++I+GTV +      I+ +   D
Sbjct: 84  PKEASRLVVQHVKQELAEIIRNSQRQQIYEEFSNRIGDLITGTVLQTTSDFAIIKI--RD 141

Query: 163 GVI-------------RRDETISRENLRPGDRVKSYIYDVRR----------EQRGPQVL 199
           GV               R+E    E      R+ + I DVR           E++ P ++
Sbjct: 142 GVEAELPYFDPHRYPEERNERPPHEYYVHNQRLHALIVDVRNPSSTSAPVRGERQRPSIV 201

Query: 200 LSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRG 259
           +SR   + + +LF +EVPEIY+G+V +++V+RD G R+K+AV S D  +DPVGACVG +G
Sbjct: 202 VSRARRELISRLFELEVPEIYDGVVTIRSVARDAGVRSKIAVSSQDPHLDPVGACVGPKG 261

Query: 260 SRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSL 319
           +RV+ VV+ELR E++D+V W  D A  V +AL PA VT+V++DE+     VIVP +QLSL
Sbjct: 262 ARVRTVVSELRGERVDVVQWYDDPAQNVASALSPATVTRVLVDEEHNHATVIVPDDQLSL 321

Query: 320 AIGRRGQNVRLASQLTGWTIDIITE 344
           AIG+ GQN RLA+ LTG  IDI  E
Sbjct: 322 AIGKGGQNARLAASLTGMHIDIKNE 346


>gi|123969228|ref|YP_001010086.1| transcription elongation factor NusA [Prochlorococcus marinus str.
           AS9601]
 gi|123199338|gb|ABM70979.1| N utilization substance protein A [Prochlorococcus marinus str.
           AS9601]
          Length = 467

 Score =  193 bits (491), Expect = 5e-47,   Method: Compositional matrix adjust.
 Identities = 125/306 (40%), Positives = 179/306 (58%), Gaps = 24/306 (7%)

Query: 63  FRLLE---VVEEVENYTCQISLKVARDRDPSIDIG-GVVSDPLPPM-DFGRVAVQSAKQV 117
           +R+L    +VEEVE+   QISL   +       IG  VV D  P   DFGR+A  + KQV
Sbjct: 74  YRILSSKIIVEEVESEDHQISLVEVKQVADDAQIGDTVVLDVTPEKEDFGRMAASTTKQV 133

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIR--------RDE 169
           + QK+R+ +R     EF D    +++  V R E  +VI  +G S G+ R        + +
Sbjct: 134 LAQKLRDQQRKMIQEEFADLEDPVLTARVIRFERQSVI--MGVSSGIGRPEVEAELPKRD 191

Query: 170 TISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKA 228
            +  +N R     K ++ +V    ++GPQ+ +SR +   +V LF  EVPEI  G V++ A
Sbjct: 192 QLPNDNYRANATFKVFLKEVSEIARKGPQLFVSRANAGLVVYLFENEVPEIQEGTVKIVA 251

Query: 229 VSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           VSR+        G R K+AV S +  +DPVGAC+G RG+R+Q VV ELR EKID++ WS 
Sbjct: 252 VSREANPPSRAVGPRTKVAVDSVEEEVDPVGACIGARGARIQQVVNELRGEKIDVIKWSS 311

Query: 282 DSATFVINALRPAIVTKVVLDEDVGR-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           +   +++N+L PA V +V L +  G+   V+VP +QLSLAIGR GQNVRLA++LTGW ID
Sbjct: 312 NPIQYILNSLSPAKVDQVRLVDPAGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGWKID 371

Query: 341 IITEEE 346
           +    E
Sbjct: 372 VKNSHE 377


>gi|157414094|ref|YP_001484960.1| transcription elongation factor NusA [Prochlorococcus marinus str.
           MIT 9215]
 gi|157388669|gb|ABV51374.1| N utilization substance protein A [Prochlorococcus marinus str. MIT
           9215]
          Length = 467

 Score =  193 bits (491), Expect = 5e-47,   Method: Compositional matrix adjust.
 Identities = 126/306 (41%), Positives = 177/306 (57%), Gaps = 24/306 (7%)

Query: 63  FRLLE---VVEEVENYTCQISLKVARDRDPSIDIG-GVVSDPLPPM-DFGRVAVQSAKQV 117
           +R+L    +VEEVE+   QISL   +       IG  VV D  P   DFGR+A  + KQV
Sbjct: 74  YRILSSKIIVEEVESEDHQISLLEVKQVADDAQIGDTVVLDVTPEKEDFGRMAASTTKQV 133

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIR--------RDE 169
           + QK+R+ +R     EF D    +++  V R E  +VI  +G S G+ R        + +
Sbjct: 134 LAQKLRDQQRKMIQEEFADLEDPVLTARVIRFERQSVI--MGVSSGIGRPEVEAELPKRD 191

Query: 170 TISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKA 228
            +  +N R     K ++ +V    ++GPQ+ +SR +   +V LF  EVPEI  G V++ A
Sbjct: 192 QLPNDNYRANATFKVFLKEVSEIARKGPQLFVSRANAGLVVYLFENEVPEIQEGTVKIVA 251

Query: 229 VSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           VSR+        G R K+AV S +  +DPVGAC+G RG+R+Q VV ELR EKID++ WS 
Sbjct: 252 VSREANPPSRAVGPRTKVAVDSVEQEVDPVGACIGARGARIQQVVNELRGEKIDVIKWSS 311

Query: 282 DSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D   +++N+L PA V  V L D +     V+VP +QLSLAIGR GQNVRLA++LTGW ID
Sbjct: 312 DPIQYILNSLSPAKVDLVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGWKID 371

Query: 341 IITEEE 346
           +    E
Sbjct: 372 VKNSHE 377


>gi|126697021|ref|YP_001091907.1| transcription elongation factor NusA [Prochlorococcus marinus str.
           MIT 9301]
 gi|126544064|gb|ABO18306.1| N utilization substance protein A [Prochlorococcus marinus str. MIT
           9301]
          Length = 467

 Score =  193 bits (491), Expect = 6e-47,   Method: Compositional matrix adjust.
 Identities = 125/306 (40%), Positives = 179/306 (58%), Gaps = 24/306 (7%)

Query: 63  FRLLE---VVEEVENYTCQISLKVARDRDPSIDIG-GVVSDPLPPM-DFGRVAVQSAKQV 117
           +R+L    +VEEVE+   QISL   +       IG  VV D  P   DFGR+A  + KQV
Sbjct: 74  YRILSSKIIVEEVESEDHQISLIEVKQVADDAQIGDTVVLDVTPEKEDFGRMAASTTKQV 133

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIR--------RDE 169
           + QK+R+ +R     EF D    +++  V R E  +VI  +G S G+ R        + +
Sbjct: 134 LAQKLRDQQRKMIQEEFADLEDPVLTARVIRFERQSVI--MGVSSGIGRPEVEAELPKRD 191

Query: 170 TISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKA 228
            +  +N R     K ++ +V    ++GPQ+ +SR +   +V LF  EVPEI  G V++ A
Sbjct: 192 QLPNDNYRANATFKVFLKEVSEIARKGPQLFVSRANAGLVVYLFENEVPEIQEGTVKIVA 251

Query: 229 VSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           VSR+        G R K+AV S ++ +DPVGAC+G RG+R+Q VV ELR EKID++ WS 
Sbjct: 252 VSREANPPSRAVGPRTKVAVDSVENEVDPVGACIGARGARIQQVVNELRGEKIDVIKWSS 311

Query: 282 DSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D   +++N+L PA V  V ++D +     V+VP +QLSLAIGR GQNVRLA++LTGW ID
Sbjct: 312 DPIQYILNSLSPAKVDLVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGWKID 371

Query: 341 IITEEE 346
           +    E
Sbjct: 372 VKNSHE 377


>gi|254526931|ref|ZP_05138983.1| transcription termination factor NusA [Prochlorococcus marinus str.
           MIT 9202]
 gi|221538355|gb|EEE40808.1| transcription termination factor NusA [Prochlorococcus marinus str.
           MIT 9202]
          Length = 467

 Score =  193 bits (490), Expect = 7e-47,   Method: Compositional matrix adjust.
 Identities = 126/306 (41%), Positives = 177/306 (57%), Gaps = 24/306 (7%)

Query: 63  FRLLE---VVEEVENYTCQISLKVARDRDPSIDIG-GVVSDPLPPM-DFGRVAVQSAKQV 117
           +R+L    +VEEVE+   QISL   +       IG  VV D  P   DFGR+A  + KQV
Sbjct: 74  YRILSSKIIVEEVESEDHQISLLEVKQVADDAQIGDTVVLDVTPEKEDFGRMAASTTKQV 133

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIR--------RDE 169
           + QK+R+ +R     EF D    +++  V R E  +VI  +G S G+ R        + +
Sbjct: 134 LAQKLRDHQRKMIQEEFADLEDPVLTARVIRFERQSVI--MGVSSGIGRPEVEAELPKRD 191

Query: 170 TISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKA 228
            +  +N R     K ++ +V    ++GPQ+ +SR +   +V LF  EVPEI  G V++ A
Sbjct: 192 QLPNDNYRANATFKVFLKEVSEIARKGPQLFVSRANAGLVVYLFENEVPEIQEGTVKIVA 251

Query: 229 VSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           VSR+        G R K+AV S +  +DPVGAC+G RG+R+Q VV ELR EKID++ WS 
Sbjct: 252 VSREANPPSRAVGPRTKVAVDSVEQEVDPVGACIGARGARIQQVVNELRGEKIDVIKWSS 311

Query: 282 DSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D   +++N+L PA V  V L D +     V+VP +QLSLAIGR GQNVRLA++LTGW ID
Sbjct: 312 DPIQYILNSLSPAKVDLVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGWKID 371

Query: 341 IITEEE 346
           +    E
Sbjct: 372 VKNSHE 377


>gi|78187634|ref|YP_375677.1| transcription elongation factor NusA [Chlorobium luteolum DSM 273]
 gi|78167536|gb|ABB24634.1| NusA antitermination factor [Chlorobium luteolum DSM 273]
          Length = 553

 Score =  193 bits (490), Expect = 7e-47,   Method: Compositional matrix adjust.
 Identities = 118/341 (34%), Positives = 194/341 (56%), Gaps = 26/341 (7%)

Query: 27  VLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD 86
           +  ++ D IQK  R  Y    +  + INPE GD  ++ L ++VEEV+    +ISL+  R 
Sbjct: 44  IADLLKDIIQKQLRKDYDPEVEANIFINPERGDFEVYILKKIVEEVDIAPIEISLEEIRR 103

Query: 87  RDPSIDIGGVVSD-PLPPMDF-GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
            D S+++G    + P+   D+  R ++Q  KQ + +KVR+ ER   Y E  +KVGE+I+ 
Sbjct: 104 IDESLEVGDYYEEGPIKLDDYLTRKSIQIIKQSVQKKVRDLERMVVYEECLEKVGEVIAA 163

Query: 145 TVKRVEYGNVIVDLGNSDG-----VIRRDETISRENLRPGDRVKSYIYDVRREQ------ 193
            V +V    VI     S       V+ + E + ++N R   R+K Y+ ++ RE+      
Sbjct: 164 EVYQVRSNEVIFTYNTSKDHRVELVLPKSEMMKKDNPRRTPRMKLYVKNIERERVKVRLD 223

Query: 194 -----------RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
                       G +V++SR   +F+ KLF  EVPEI +G++ +K ++R PG RAK+AV 
Sbjct: 224 DGTMEEKEKADGGMKVIVSRVDDRFLYKLFEQEVPEILDGLIVIKGIARVPGERAKVAVE 283

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+ + IDPVGA VG RG R+Q++V EL +E ID++ +S +   ++  AL+PA +  + + 
Sbjct: 284 STSARIDPVGATVGYRGKRIQSIVKELNNENIDVIYYSDEPQVYISRALQPAKIDPLTVH 343

Query: 303 EDVG--RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            D+   +  V++  +Q+  AIG+ G N+ LA +LTG+ ID+
Sbjct: 344 ADMKTRKARVMLKPDQIKYAIGKNGNNIHLAEKLTGYEIDV 384


>gi|194333210|ref|YP_002015070.1| transcription elongation factor NusA [Prosthecochloris aestuarii
           DSM 271]
 gi|194311028|gb|ACF45423.1| NusA antitermination factor [Prosthecochloris aestuarii DSM 271]
          Length = 517

 Score =  193 bits (490), Expect = 7e-47,   Method: Compositional matrix adjust.
 Identities = 117/341 (34%), Positives = 194/341 (56%), Gaps = 26/341 (7%)

Query: 27  VLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD 86
           +  ++ D IQK  R  Y    +  + INPE GD  ++ L ++V+E++  + +IS+   R 
Sbjct: 44  IADLLKDIIQKQLRKDYDPEVEANIFINPERGDFEVYILKKIVDEIDIPSIEISIDEVRQ 103

Query: 87  RDPSIDIGGVVSD-PLPPMDF-GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
            D S+++G    + P+   ++  R ++Q  KQ + +KVR+ ER   Y E  +KVGE+I+G
Sbjct: 104 IDDSLEVGDYYEEGPINLEEYLTRKSIQIIKQSVQKKVRDLERQVVYEECLEKVGEVIAG 163

Query: 145 TVKRVEYGNVIVDLGNSDG-----VIRRDETISRENLRPGDRVKSYIYDVRREQ------ 193
            V ++    VI     S       V+ + E I ++N R   R+K Y+  + RE+      
Sbjct: 164 EVYQIRPHEVIFSYNTSKDHRVELVLPKSEMIKKDNPRRTPRMKLYVKRIERERVKVKQD 223

Query: 194 -----------RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
                       G +V++SRT  +F+ KLF  EVPEI +G++ +K ++R PG RAK+AV 
Sbjct: 224 DGSIVEKEKPDGGMKVIVSRTDDRFLYKLFESEVPEILDGLIVIKGIARVPGERAKVAVE 283

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+ S IDPVGA VG RG R+Q++V EL +E ID++ ++ +   F+  AL+PA +  + + 
Sbjct: 284 STSSRIDPVGASVGYRGKRIQSIVKELNNENIDVIYYTDEPQIFIARALQPAKIDPMTVH 343

Query: 303 EDVGR--IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            D+      V++  +Q+  AIG+ G N+ LA +LTG+ ID+
Sbjct: 344 ADMKTRMARVMLKPDQIKYAIGKNGNNIHLAERLTGYEIDV 384


>gi|229818209|ref|ZP_04448491.1| hypothetical protein BIFANG_03506 [Bifidobacterium angulatum DSM
           20098]
 gi|229784460|gb|EEP20574.1| hypothetical protein BIFANG_03506 [Bifidobacterium angulatum DSM
           20098]
          Length = 346

 Score =  193 bits (490), Expect = 8e-47,   Method: Compositional matrix adjust.
 Identities = 114/348 (32%), Positives = 198/348 (56%), Gaps = 19/348 (5%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           +A E+ ID + +   ++++++ A           R+E++   G  +++      +E+   
Sbjct: 11  LAAEQGIDAETLDDALSEALRLAYLKTPHAAKHARIELDDRAGTFTVW----AADEIPGT 66

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
             +       +  P+  +G    D   P DFGR+A  +A+QVI    R AE ++ +  F 
Sbjct: 67  PTE------ENPHPAPTLGEEYDDT--PKDFGRLAAATARQVITLLFRHAEDEKIFGAFS 118

Query: 136 DKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
            + G++I+G V++   +  NV + +G+ + ++ R E +  E  R G+R++ Y+ +V R  
Sbjct: 119 GQKGKLITGIVQQDVKDSSNVHIAMGDVEALLPRREQVPGERYRHGERLRVYVVNVGRGL 178

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
           +GP++++SR+HP+ +  LF  EVPE+ +G V + A++R+ G+R K+AV ++   ++P GA
Sbjct: 179 KGPEIIVSRSHPELVRCLFEREVPELVSGAVSIMAIAREAGARTKIAVKANTEGVNPKGA 238

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIV 312
            +G  G+RV+AV+  L  EKIDIV +S D A FV +AL PA+ T V ++ E        +
Sbjct: 239 LIGPGGARVRAVMENLGQEKIDIVDYSDDPAKFVASALSPAVATGVQIISEKNKTAIAFI 298

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
             +QLSLAIG+ GQN RLA++LTGW I I    E +    K   E+T+
Sbjct: 299 HDDQLSLAIGKEGQNARLAAKLTGWKIGI----ESAETHAKKMAEQTE 342


>gi|318042328|ref|ZP_07974284.1| transcription elongation factor NusA [Synechococcus sp. CB0101]
          Length = 477

 Score =  192 bits (489), Expect = 9e-47,   Method: Compositional matrix adjust.
 Identities = 144/369 (39%), Positives = 206/369 (55%), Gaps = 41/369 (11%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAA----RSLY-GTMSDIRVEINPETGDISL- 62
           L  + + ++ EK +   VV S + +++ K      R+LY G   D   E      D++L 
Sbjct: 9   LSNLIEDISEEKKLPAQVVESALREALLKGYERYRRTLYLGISEDPFEEDYFSNFDVALD 68

Query: 63  -----FRLLE---VVEEVENYTCQISL----KVARDRDPSIDIG-GVVSDPLPPM-DFGR 108
                +R+L    +VEEVE+   QI+L    +VA D      IG  VV D  P   DFGR
Sbjct: 69  LDEEGYRVLASKIIVEEVESEDHQIALAEVMQVAED----AQIGDTVVLDVTPEKEDFGR 124

Query: 109 VAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG----- 163
           +A  + KQV+ QK+R+ +R     EF D    +++  V R E  +VI+ + +  G     
Sbjct: 125 MAAATTKQVLAQKLRDHQRRMIQEEFADLEDPVLTARVIRFERQSVIMAVSSGLGRPEVE 184

Query: 164 --VIRRDETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIY 220
             + RRD+ +  +N R     K ++ +V    +RGPQ+ +SR +   +V LF  EVPEI 
Sbjct: 185 AELPRRDQ-LPNDNYRANATFKVFLKEVSEIPRRGPQLFVSRANAGLVVYLFENEVPEIQ 243

Query: 221 NGIVQVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEK 273
            G V++ AV+R+        G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EK
Sbjct: 244 EGSVRIVAVAREANPPSRSVGPRTKVAVDSVEREVDPVGACIGARGSRIQQVVNELRGEK 303

Query: 274 IDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLAS 332
           ID++ WS D   ++ N+L PA V  V L D +     V+VP +QLSLAIGR GQNVRLA+
Sbjct: 304 IDVIRWSQDPGQYIANSLSPARVEAVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAA 363

Query: 333 QLTGWTIDI 341
           +LTGW IDI
Sbjct: 364 RLTGWKIDI 372


>gi|33862048|ref|NP_893609.1| transcription elongation factor NusA [Prochlorococcus marinus
           subsp. pastoris str. CCMP1986]
 gi|33634266|emb|CAE19951.1| N utilization substance protein A [Prochlorococcus marinus subsp.
           pastoris str. CCMP1986]
          Length = 467

 Score =  192 bits (487), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 124/301 (41%), Positives = 176/301 (58%), Gaps = 24/301 (7%)

Query: 63  FRLLE---VVEEVENYTCQISLKVARDRDPSIDIG-GVVSDPLPPM-DFGRVAVQSAKQV 117
           +R+L    +VE VE+   QISL+  +       IG  VV D  P   DFGR+A  + KQV
Sbjct: 74  YRILSSKIIVENVESEDHQISLQEVKQVADDAQIGDTVVLDVTPEKEDFGRMAASTTKQV 133

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIR--------RDE 169
           + QK+R+ +R     EF D    +++  V R E  +VI  +G S G+ R        + +
Sbjct: 134 LAQKLRDQQRKMIQEEFADLEDPVLTARVIRFERQSVI--MGVSSGIGRPEVEAELPKRD 191

Query: 170 TISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKA 228
            +  +N R     K ++ +V    ++GPQ+ +SR +   +V LF  EVPEI  G V++ A
Sbjct: 192 QLPNDNYRANATFKVFLKEVSEVARKGPQLFVSRANAGLVVYLFENEVPEIQEGTVKIVA 251

Query: 229 VSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           VSR+        G R K+AV S +  +DPVGAC+G RG+R+Q VV ELR EKID++ WS 
Sbjct: 252 VSREANPPSRAVGPRTKVAVDSIEREVDPVGACIGARGARIQQVVNELRGEKIDVIKWSS 311

Query: 282 DSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D   +++N+L PA V  V L D +     V+VP +QLSLAIGR GQNVRLA++LTGW ID
Sbjct: 312 DPIQYILNSLSPAKVDLVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGWKID 371

Query: 341 I 341
           +
Sbjct: 372 V 372


>gi|193213433|ref|YP_001999386.1| transcription elongation factor NusA [Chlorobaculum parvum NCIB
           8327]
 gi|193086910|gb|ACF12186.1| NusA antitermination factor [Chlorobaculum parvum NCIB 8327]
          Length = 521

 Score =  192 bits (487), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 117/341 (34%), Positives = 192/341 (56%), Gaps = 26/341 (7%)

Query: 27  VLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD 86
           +  ++ + IQK  R  Y    +  + INPE GD  ++ L ++VEEV+  T +I L   R 
Sbjct: 44  IADLLKEIIQKQLRKDYDPEVEANIFINPERGDFEVYILKKIVEEVDLPTIEIGLDEVRQ 103

Query: 87  RDPSIDIGGVVSD-PLPPMDF-GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
            D S+++G    + P+   DF  R ++Q  KQ + +KVR+ ER   Y +  +KVGE+++G
Sbjct: 104 IDDSLELGDYYEEGPIKLDDFLTRKSIQIIKQSVQKKVRDLERMAVYEDCLEKVGEVVAG 163

Query: 145 TVKRVEYGNVIVDLGNSDG-----VIRRDETISRENLRPGDRVKSYIYDVRREQ------ 193
            V +V    VI     S       V+ + E + ++N R    +K Y+  + RE+      
Sbjct: 164 EVYQVRSNEVIFTYNTSKDHRVELVLPKSEMMKKDNPRRTPHMKLYVKRIERERVKVRND 223

Query: 194 -----------RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
                       G +V++SR   +F+ KLF  EVPEI +G++ +K ++R PG RAK+AV 
Sbjct: 224 DGTVEEREKPDGGMKVIVSRVDDRFLYKLFESEVPEILDGLIVIKGIARVPGERAKVAVE 283

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+ S IDPVGA VG RG R+Q++V EL +E ID++ ++ +   F+  AL+PA +  + + 
Sbjct: 284 STSSRIDPVGATVGYRGKRIQSIVKELNNENIDVIYYTDEPQVFIARALQPAKIDPMTVH 343

Query: 303 EDVG--RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            D+   +  V++  +Q+  AIG+ G N+ LA +LTG+ ID+
Sbjct: 344 ADMKTRKARVMLKPDQIKYAIGKNGNNIHLAEKLTGYEIDV 384


>gi|39938634|ref|NP_950400.1| transcription elongation factor NusA [Onion yellows phytoplasma
           OY-M]
 gi|39721743|dbj|BAD04233.1| transcription terminator [Onion yellows phytoplasma OY-M]
          Length = 357

 Score =  191 bits (486), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 108/352 (30%), Positives = 198/352 (56%), Gaps = 14/352 (3%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M+S N  +LL   D +A E+ +D+D V+   A  +    +  +   S  ++E+  +  +I
Sbjct: 1   MISKNFFKLL---DKIAQERDLDKDQVIDAFAKGLISGCKKNHKVKS-CKIELKEDKSEI 56

Query: 61  SLFRLLEVVEEVENYTCQ------ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSA 114
            L++   V +E    T        I+L+ A+   P   IG V+   + P DF   AV+  
Sbjct: 57  ILYKQFLVADEATMSTINLKESTPITLEEAQQIKPHAKIGQVIDIKVDPKDFNLYAVKEL 116

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTV--KRVEYGNVIVDLGNSDGVIRRDETIS 172
           K    +++ + +R+  Y  FK + G++IS  +  +  ++ N+ ++      ++ + E  S
Sbjct: 117 KNQFNEELTKKKRESIYNFFKQQEGKLISAKIISENDKFYNLELE-KEITTLLPKKEIAS 175

Query: 173 RENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRD 232
              ++ G+R++ ++ +VR+  + P++ +S  H   +VK+    +PEI  GIV++  V+R 
Sbjct: 176 NNEMQVGERIQVFLSEVRKTTKWPKIFVSCNHVGLVVKVLEENIPEIQEGIVKIAGVARI 235

Query: 233 PGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALR 292
            G R K+ + S D+ +D +G+C+G R +R++ V+  L+DEK+D+ VWS D    + NAL+
Sbjct: 236 SGERTKIGLLSCDAQVDAIGSCIGERSNRIKNVIKILKDEKVDLFVWSDDPQELIANALK 295

Query: 293 PAIVTKVVLDEDVGRIEV-IVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           PA   +VV+ +D+ +  + IVP +Q SLAIG+ G+NV+LA ++T W IDI T
Sbjct: 296 PASCLQVVIKDDINKYALAIVPDDQFSLAIGKLGKNVKLAVEVTKWNIDIKT 347


>gi|189345843|ref|YP_001942372.1| transcription elongation factor NusA [Chlorobium limicola DSM 245]
 gi|189339990|gb|ACD89393.1| NusA antitermination factor [Chlorobium limicola DSM 245]
          Length = 513

 Score =  191 bits (486), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 115/341 (33%), Positives = 193/341 (56%), Gaps = 26/341 (7%)

Query: 27  VLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD 86
           +  ++ D IQK  R  Y    +  + INPE GD  ++ L ++V+EV+    +ISL   R 
Sbjct: 44  IADLLKDIIQKQLRKDYDPEVESNIFINPERGDFEVYILRKIVQEVDIPAIEISLDEVRK 103

Query: 87  RDPSIDIGGVVSD-PLPPMDF-GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
            D S+D+G    + P+   D+  R ++Q  KQ + +KVR+ ER   Y E  +KVGE+++G
Sbjct: 104 IDESLDLGDFYEEGPIRLEDYLTRKSIQIIKQSVQKKVRDLERLVVYEECLEKVGEVVAG 163

Query: 145 TVKRVEYGNVIVDLGNSDG-----VIRRDETISRENLRPGDRVKSYIYDVRREQR----- 194
            V ++    VI     S       V+ + E + ++N R   R+K Y+  + RE+      
Sbjct: 164 EVYQIRSNEVIFTYNTSKDHRVELVLPKSEMMKKDNPRRTPRMKLYVKRIEREKAKVRLD 223

Query: 195 ------------GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
                       G +V++SR   +F+ KLF  EVPEI +G++ +K ++R PG RAK++V 
Sbjct: 224 DGGVVEKEKPDGGMKVIVSRVDDRFLYKLFEHEVPEILDGLIVIKGIARVPGERAKVSVE 283

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+ + IDPVGA VG RG R+Q++V EL +E ID++ ++ +   ++  AL+PA +  + + 
Sbjct: 284 STSARIDPVGASVGYRGKRIQSIVKELNNENIDVIYYTDEPQIYIARALQPAKIDPLTVH 343

Query: 303 EDVG--RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            D+   +  V++  +Q+  AIG+ G N+ LA +LTG+ ID+
Sbjct: 344 ADIKTRKARVMLKPDQIKYAIGKNGNNIHLAEKLTGYEIDV 384


>gi|195953996|ref|YP_002122286.1| transcription elongation factor NusA [Hydrogenobaculum sp. Y04AAS1]
 gi|195933608|gb|ACG58308.1| NusA antitermination factor [Hydrogenobaculum sp. Y04AAS1]
          Length = 322

 Score =  191 bits (486), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 97/243 (39%), Positives = 158/243 (65%), Gaps = 3/243 (1%)

Query: 105 DFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNV-IVDLGNSDG 163
           D  R+A  +AK+  ++++  AER+R +LE+  + G I+ G V+ +      IVDLG  D 
Sbjct: 74  DLNRIAAYAAKEEFLKELENAERERGFLEYVSQEGNIVHGIVREITKDQTAIVDLGPIDA 133

Query: 164 VIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGI 223
            + R E IS+E+ +  DRVK+ ++ V++E+  P +LLSRTHP+F+ +L   E+PE+  G+
Sbjct: 134 ELPRREQISKESFKKNDRVKALLFSVQKERGRPVLLLSRTHPKFLRRLLEAEIPEVATGL 193

Query: 224 VQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDS 283
           V++ +V+R+PG +AK+ V + D  IDPVG  +G++GS++  +  EL  E ID+V +S D 
Sbjct: 194 VKIISVAREPGEKAKVVVDTEDKKIDPVGVVIGIKGSKINPISKELAGEHIDVVRYSKDK 253

Query: 284 ATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
             F+ N   PA +  V   E   +IEV V K+Q+SLAIG+RG N +LA ++ G  ID+++
Sbjct: 254 KKFLENLFFPAKILDV--RESDNQIEVAVDKDQISLAIGKRGINTKLAYKILGKHIDVMS 311

Query: 344 EEE 346
           +E+
Sbjct: 312 KED 314


>gi|21673079|ref|NP_661144.1| transcription elongation factor NusA [Chlorobium tepidum TLS]
 gi|21646150|gb|AAM71486.1| N utilization substance protein A, putative [Chlorobium tepidum
           TLS]
          Length = 521

 Score =  191 bits (485), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 117/341 (34%), Positives = 193/341 (56%), Gaps = 26/341 (7%)

Query: 27  VLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD 86
           +  ++ + IQK  R  Y    +  + INPE GD  ++ L ++V+EV+  T +I L   R 
Sbjct: 44  IADLLKEIIQKQLRKDYDPEVESNIFINPERGDFEVYILKKIVKEVDLPTIEIGLDEVRQ 103

Query: 87  RDPSIDIGGVVSD-PLPPMDF-GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
            D S+++G    + P+   D+  R ++Q  KQ + +KVR+ ER   Y E  +KVGE+++G
Sbjct: 104 IDDSLELGDYYEEGPIKLDDYLTRKSIQIIKQSVQKKVRDLERLAVYEECLEKVGEVVAG 163

Query: 145 TVKRVEYGNVIVDLGNSDG-----VIRRDETISRENLRPGDRVKSYIYDVRREQ------ 193
            V +V    VI     S       V+ + E + ++N R   R+K Y+  + RE+      
Sbjct: 164 EVYQVRPNEVIFTYNTSKDHRVELVLPKSEMMKKDNPRRTPRMKLYVKRIEREKVKVRND 223

Query: 194 -----------RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
                       G +V++SR   +F+ KLF  EVPEI +G++ +K ++R PG RAK+AV 
Sbjct: 224 DGTVEEREKPDGGMKVIVSRVDDRFLYKLFESEVPEILDGLIVIKGIARVPGERAKVAVE 283

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+ S IDPVGA VG RG R+Q++V EL +E ID++ ++ +   F+  AL+PA +  + + 
Sbjct: 284 STSSRIDPVGATVGYRGKRIQSIVKELNNENIDVIYYTDEPQVFIARALQPAKIDPMTVH 343

Query: 303 EDVG--RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            D+   +  V++  +Q+  AIG+ G N+ LA +LTG+ ID+
Sbjct: 344 ADMKTRKARVMLKPDQIKYAIGKNGNNIHLAEKLTGYEIDV 384


>gi|78213595|ref|YP_382374.1| transcription elongation factor NusA [Synechococcus sp. CC9605]
 gi|78198054|gb|ABB35819.1| NusA antitermination factor [Synechococcus sp. CC9605]
          Length = 481

 Score =  191 bits (484), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 139/365 (38%), Positives = 204/365 (55%), Gaps = 33/365 (9%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAA----RSLY-GTMSDIRVEINPETGDISL- 62
           L  + D ++ EK +   VV + + +++ K      R+LY G   D   E      D+ L 
Sbjct: 9   LSNLIDDISEEKKLPPQVVEAALREALLKGYERYRRTLYLGISEDPFDEEYFSNFDVGLD 68

Query: 63  -----FRLLE---VVEEVENYTCQISLKVARDRDPSIDIG-GVVSDPLPPM-DFGRVAVQ 112
                +R+L    +V+EVE+   QI++           +G  VV D  P   DFGR+A  
Sbjct: 69  LEEEGYRVLASKIIVDEVESEDHQIAIAEVMQVADDAQVGDTVVLDVTPEKEDFGRMAAA 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-------VI 165
           + KQV+ QK+R+ +R     EF D    +++  V R E  +VI+ + +  G       + 
Sbjct: 129 TTKQVLAQKLRDQQRRMIQEEFADLEDPVLTARVIRFERQSVIMAVSSGLGRPEVEAELP 188

Query: 166 RRDETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           RRD+ +  +N R     K ++ +V    +RGPQ+ +SR++   +V LF  EVPEI  G V
Sbjct: 189 RRDQ-LPNDNYRANATFKVFLKEVSEVPRRGPQLFVSRSNAGLVVYLFENEVPEIQEGSV 247

Query: 225 QVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIV 277
           ++ AV+R+        G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++
Sbjct: 248 RIVAVAREANPPSRSVGPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEKIDVI 307

Query: 278 VWSPDSATFVINALRPAIVTKVVLDEDVGR-IEVIVPKEQLSLAIGRRGQNVRLASQLTG 336
            WS D   ++ N+L PA V  V L + VG+   V+VP +QLSLAIGR GQNVRLA++LTG
Sbjct: 308 RWSQDPGQYIANSLSPARVEMVRLVDPVGQHAHVLVPPDQLSLAIGREGQNVRLAARLTG 367

Query: 337 WTIDI 341
           W IDI
Sbjct: 368 WKIDI 372


>gi|148240413|ref|YP_001225800.1| transcription elongation factor NusA [Synechococcus sp. WH 7803]
 gi|147848952|emb|CAK24503.1| Transcription elongation factor NusA [Synechococcus sp. WH 7803]
          Length = 469

 Score =  191 bits (484), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 124/292 (42%), Positives = 176/292 (60%), Gaps = 19/292 (6%)

Query: 68  VVEEVENYTCQISL-KVARDRDPSIDIGGVVSDPLPPM-DFGRVAVQSAKQVIIQKVREA 125
           +V+EVE+   QI+L +V +  D +     VV D  P   DFGR+A  + KQV+ QK+R+ 
Sbjct: 82  IVDEVESEDHQIALAEVMQVADDAQSGDTVVLDVTPEKEDFGRMAAATTKQVLAQKLRDQ 141

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-------VIRRDETISRENLRP 178
           +R     EF D    +++  V R E  +VI+ + +  G       + RRD+ +  +N R 
Sbjct: 142 QRRMIQEEFADLEDPVLTARVIRFERQSVIMAVSSGLGRPEVEAELPRRDQ-LPNDNYRA 200

Query: 179 GDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDP---- 233
               K ++ +V    +RGPQ+ +SR +   +V LF  EVPEI  G V++ AV+R+     
Sbjct: 201 NATFKVFLKEVSEVPRRGPQLFVSRANAGLVVYLFENEVPEIQEGSVRIVAVAREANPPS 260

Query: 234 ---GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA 290
              G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++ WS D   ++ N+
Sbjct: 261 RSVGPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEKIDVIRWSSDPGQYIANS 320

Query: 291 LRPAIVTKVVLDEDVGR-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           L PA V  V L + VG+   V+VP +QLSLAIGR GQNVRLA++LTGW IDI
Sbjct: 321 LSPARVDVVRLVDPVGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGWKIDI 372


>gi|113477415|ref|YP_723476.1| transcription elongation factor NusA [Trichodesmium erythraeum
           IMS101]
 gi|110168463|gb|ABG53003.1| NusA antitermination factor [Trichodesmium erythraeum IMS101]
          Length = 426

 Score =  191 bits (484), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 116/291 (39%), Positives = 172/291 (59%), Gaps = 17/291 (5%)

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPP--MDFGRVAVQSAKQVIIQKVREA 125
           +VEEV N    I+L+   +      +   V   + P   +FGR+A    KQV+ QK+R+ 
Sbjct: 80  IVEEVTNPDHHIALQEVLEVASEAQLNDTVFLDVTPEKNEFGRMAAIQTKQVLAQKLRDQ 139

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIR------RDETISRENLRPG 179
           +R     EF+D  GE++   V R E  +VI+ + +  G +       + E +  +N R  
Sbjct: 140 QRKMIQEEFQDLEGEVLQARVLRFEKQSVILAVSSGFGRLEVEAELPKKEQLPNDNYRAN 199

Query: 180 DRVKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDP----- 233
              K Y+  V     RGPQ+L+SR     +V LF  EVPEI + +V++ AV+R+      
Sbjct: 200 ATFKVYLKRVCEGSTRGPQLLVSRADAGLVVYLFENEVPEIEDEVVRIVAVAREANPPSR 259

Query: 234 --GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINAL 291
             G R K+AV + +  +DPVGAC+G RGSR+Q VV ELR EKID++ WSPD + ++ N+L
Sbjct: 260 HVGPRTKIAVDTLERDVDPVGACIGARGSRIQVVVNELRGEKIDVIRWSPDPSIYIANSL 319

Query: 292 RPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            PA V +V ++D +  R  ++V ++QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 320 SPARVDEVRLIDPEERRSHILVSEDQLSLAIGKEGQNVRLAARLTGWKIDI 370


>gi|300858700|ref|YP_003783683.1| transcription elongation protein [Corynebacterium
           pseudotuberculosis FRC41]
 gi|300686154|gb|ADK29076.1| transcription elongation protein [Corynebacterium
           pseudotuberculosis FRC41]
 gi|302206410|gb|ADL10752.1| Transcription elongation protein [Corynebacterium
           pseudotuberculosis C231]
 gi|302330966|gb|ADL21160.1| Transcription elongation protein [Corynebacterium
           pseudotuberculosis 1002]
 gi|308276653|gb|ADO26552.1| Transcription elongation protein [Corynebacterium
           pseudotuberculosis I19]
          Length = 332

 Score =  191 bits (484), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 104/248 (41%), Positives = 154/248 (62%), Gaps = 9/248 (3%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN----VIVDL 158
           P +FGRV  Q+ +  I +++REAE  + Y  + +  G ++SG V+   Y N     +V L
Sbjct: 80  PANFGRVGAQAVRDAIKKRLREAETWKAYDAYSEYEGRVVSGIVQADAYANERGITVVHL 139

Query: 159 GN----SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHM 214
           G      DG++   E I  E L  GDRVK Y+  V R  R  Q+ LSRTHP+ + +LF +
Sbjct: 140 GTEAEGQDGILIPAEQIPGEKLVHGDRVKCYVVGVNRTPRNLQINLSRTHPELVRRLFEL 199

Query: 215 EVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKI 274
           E+PE+ +G V++ +++R+ G R+K+AV ++   ++  GAC+G RG RV  ++ EL  EKI
Sbjct: 200 EIPEVADGSVEIISIAREAGHRSKVAVRANIKGLNAKGACIGPRGQRVNNIMNELGGEKI 259

Query: 275 DIVVWSPDSATFVINALRPAIVTKVVLDEDVGR-IEVIVPKEQLSLAIGRRGQNVRLASQ 333
           DI+ +  D A +V NAL P+ V  V + +  G+  +V VP  QLSLAIG+ GQN RLA++
Sbjct: 260 DIIDFDEDPAKYVGNALAPSKVVHVEITDLEGQAAKVTVPDYQLSLAIGKEGQNARLAAR 319

Query: 334 LTGWTIDI 341
           LTGW IDI
Sbjct: 320 LTGWKIDI 327


>gi|218960602|ref|YP_001740377.1| transcription elongation factor NusA [Candidatus Cloacamonas
           acidaminovorans]
 gi|167729259|emb|CAO80170.1| transcription elongation factor NusA [Candidatus Cloacamonas
           acidaminovorans]
          Length = 411

 Score =  191 bits (484), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 121/420 (28%), Positives = 240/420 (57%), Gaps = 14/420 (3%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SAN L+ L    A+   K +++D + +++ +++    +      + ++V I+   G + 
Sbjct: 1   MSANMLDALNKLAAI---KQLNKDTIQTIILEAVTSTLQKRLEPEAGLQVYIDELAGCVK 57

Query: 62  LFRLLEVVEEVENYTCQISLKVAR-DRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           + +   +V E E    QISL  AR D   ++ +G  +   +   +F    V++ +++I  
Sbjct: 58  V-KFKSLVVEREEGLGQISLIDARNDYYHNVQLGEYIEKTMTLSEFEPKIVKTVQKIIQD 116

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLRPG 179
           K+R+ E ++   +F  +   I++G +K ++ YG  I+D G+ D ++  DE I  E  R G
Sbjct: 117 KIRQLEEEKIQNDFNKQKHTIVTGKIKAIDDYGGYIIDTGHVDALLPVDEQIENEFYRVG 176

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           D +K+Y+ ++R ++ G  ++LSRT+P+F+ KLF  E+P I++G ++++ + R+PG R K+
Sbjct: 177 DNIKAYVVNIRTQKDGVVIILSRTNPEFVKKLFEAEIPAIFSGEIKIRKIVREPGIRTKV 236

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
            + + D  +DP+ ACVG +G+R+ ++  EL  E+IDIV+ S D    + NAL    + +V
Sbjct: 237 ELEAEDPKVDPIVACVGPKGTRIDSLRKELHGEQIDIVLHSDDPEKMIENALGVEGIKRV 296

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT--EEEDSINRQKDFNE 357
           +++ +     VI+ +    +AIG++G+NV+LA++L G  IDI T  E E+ + +++    
Sbjct: 297 IIERN-HSASVILDEADKLMAIGKQGKNVKLAAKLVGMKIDIYTMAEFEEKMAKER---- 351

Query: 358 RTQFFMQAIN-VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
           RT   +  ++ V   IA  L   G+  V+++    + E+ ++EG  ++TA  ++  A+ +
Sbjct: 352 RTVSHITELDGVTPKIAETLKQAGYTSVQDIYTASLEELCNLEGMGQKTAERLKEAAKYF 411


>gi|87125354|ref|ZP_01081200.1| NusA antitermination factor [Synechococcus sp. RS9917]
 gi|86167123|gb|EAQ68384.1| NusA antitermination factor [Synechococcus sp. RS9917]
          Length = 463

 Score =  190 bits (483), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 140/365 (38%), Positives = 202/365 (55%), Gaps = 33/365 (9%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAA----RSLY-GTMSDIRVEINPETGDISL- 62
           L  + D ++ EK +   VV + + +++ K      R+LY G   D   E      D++L 
Sbjct: 9   LSNLIDDISEEKKLPPQVVEAALREALLKGYERYRRTLYLGISDDPFDEEYFSNFDVALD 68

Query: 63  -----FRLLE---VVEEVENYTCQISLKVARDRDPSIDIG-GVVSDPLPPM-DFGRVAVQ 112
                +R+L    +VEEVE+   QI+L           +G  VV D  P   DFGR+A  
Sbjct: 69  LEEEGYRVLASKIIVEEVESDDHQIALAEVMQVADDAQVGDTVVLDVTPEKEDFGRMAAA 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-------VI 165
           + KQV+ QK+R+ +R     EF D    +++  V R E  +VI+ + +  G       + 
Sbjct: 129 TTKQVLAQKLRDQQRRMIQEEFADLEDPVLTARVIRFERQSVIMAVSSGLGRPEVEAELP 188

Query: 166 RRDETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           RRD+ +  +N R     K ++ +V    +RGPQ+ +SR +   +V LF  EVPEI  G V
Sbjct: 189 RRDQ-LPNDNYRANATFKVFLKEVSEVPRRGPQLFVSRANAGLVVYLFENEVPEIQEGSV 247

Query: 225 QVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIV 277
           ++ AV+R+        G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++
Sbjct: 248 RIVAVAREANPPSRSVGPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEKIDVI 307

Query: 278 VWSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTG 336
            WS D   ++ N+L PA V  V L D +     V+VP +QLSLAIGR GQNVRLA++LTG
Sbjct: 308 RWSADPGQYIANSLSPARVDVVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAARLTG 367

Query: 337 WTIDI 341
           W IDI
Sbjct: 368 WKIDI 372


>gi|116073742|ref|ZP_01471004.1| transcription elongation factor NusA [Synechococcus sp. RS9916]
 gi|116069047|gb|EAU74799.1| transcription elongation factor NusA [Synechococcus sp. RS9916]
          Length = 493

 Score =  190 bits (483), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 124/297 (41%), Positives = 175/297 (58%), Gaps = 19/297 (6%)

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIG-GVVSDPLPPMD-FGRVAVQSAKQVIIQKVREA 125
           +VEEVE+   QI+L           +G  VV D  P  + FGR+A  + KQV+ QK+R+ 
Sbjct: 82  IVEEVESDDHQIALAEVMQVADDAQVGDTVVLDVTPEKEEFGRMAAATTKQVLAQKLRDQ 141

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-------VIRRDETISRENLRP 178
           +R     EF D    +++  V R E  +VI+ + +  G       + RRD+ +  +N R 
Sbjct: 142 QRRMIQEEFADLEDPVLTARVIRFERQSVIMAVSSGLGRPEVEAELPRRDQ-LPNDNYRA 200

Query: 179 GDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDP---- 233
               K ++ +V    +RGPQ+ +SR +   +V LF  EVPEI  G V++ AV+R+     
Sbjct: 201 NATFKVFLKEVSEVPRRGPQLFVSRANAGLVVYLFENEVPEIQEGSVRIVAVAREANPPS 260

Query: 234 ---GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA 290
              G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++ WS D   ++ N+
Sbjct: 261 RSVGPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEKIDVIRWSQDPGQYIANS 320

Query: 291 LRPAIVTKVVLDEDVGR-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           L PA V  V L + VG+   V+VP +QLSLAIGR GQNVRLA++LTGW IDI   +E
Sbjct: 321 LSPARVEMVRLVDPVGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGWKIDIKNSQE 377


>gi|78184171|ref|YP_376606.1| transcription elongation factor NusA [Synechococcus sp. CC9902]
 gi|78168465|gb|ABB25562.1| NusA antitermination factor [Synechococcus sp. CC9902]
          Length = 485

 Score =  190 bits (483), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 140/368 (38%), Positives = 205/368 (55%), Gaps = 39/368 (10%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAA----RSLY-GTMSDIRVEINPETGDISL- 62
           L  + D ++ EK +   VV + + +++ K      R+LY G   D   E      D+ L 
Sbjct: 9   LTNLIDDISEEKKLAPQVVEAALREALLKGYERYRRTLYIGISEDPFDEDYFSNFDVGLD 68

Query: 63  -----FRLLE---VVEEVENYTCQISL----KVARDRDPSIDIGGVVSDPLPPM-DFGRV 109
                +R+L    +V+EVE+   QI+L    +VA D         VV D  P   DFGR+
Sbjct: 69  LEEEGYRVLASKIIVDEVESEDHQIALAEVMQVAEDAQSG---DTVVLDVTPEKEDFGRM 125

Query: 110 AVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG------ 163
           A  + KQV+ QK+R+ +R     EF D    +++  V R E  ++I+ + +  G      
Sbjct: 126 AAATTKQVLAQKLRDQQRRMIQEEFADLEDPVLTARVIRFERQSIIMAVSSGLGRPEVEA 185

Query: 164 -VIRRDETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
            + RRD+ +  +N R     K ++ +V    +RGPQ+ +SR++   +V LF  EVPEI  
Sbjct: 186 ELPRRDQ-LPNDNYRANATFKVFLKEVSEVPRRGPQLFVSRSNAGLVVYLFENEVPEIQE 244

Query: 222 GIVQVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKI 274
           G V++ AV+R+        G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKI
Sbjct: 245 GSVRIVAVAREANPPSRSVGPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEKI 304

Query: 275 DIVVWSPDSATFVINALRPAIVTKVVLDEDVGR-IEVIVPKEQLSLAIGRRGQNVRLASQ 333
           D++ WS D   ++ N+L PA V  V L +  G+   V+VP +QLSLAIGR GQNVRLA++
Sbjct: 305 DVIRWSQDPGQYIANSLSPARVEMVRLVDPAGQHAHVLVPPDQLSLAIGREGQNVRLAAR 364

Query: 334 LTGWTIDI 341
           LTGW IDI
Sbjct: 365 LTGWKIDI 372


>gi|114777565|ref|ZP_01452546.1| transcription elongation factor NusA [Mariprofundus ferrooxydans
           PV-1]
 gi|114552036|gb|EAU54553.1| transcription elongation factor NusA [Mariprofundus ferrooxydans
           PV-1]
          Length = 235

 Score =  190 bits (483), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 102/234 (43%), Positives = 160/234 (68%), Gaps = 3/234 (1%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +E+LQ+ADAVA EKS+DR++VL  M  +++ AAR  Y  + ++  EI+ +TG+I LF + 
Sbjct: 3   VEMLQVADAVAREKSVDRELVLEAMEQALKTAARRTYPGL-NVEAEIDRDTGEIRLFHVR 61

Query: 67  EVVEEVENYTCQISLKVARD-RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VEEVE+   +++++ A+  RD ++ +G      L P++ GR+A Q+AKQVI QK+REA
Sbjct: 62  VAVEEVEDQDNELTVEEAQALRDDAV-LGSEFRTALAPIELGRIAAQTAKQVINQKIREA 120

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+R   E++ +VGE+I+G VKRVE GNV VDLG  + V+ R++ + RE  R GDRV++Y
Sbjct: 121 ERERVIAEYEPRVGELITGIVKRVERGNVYVDLGRGEAVMYREDLLPRETFRQGDRVRAY 180

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           + +VR + +GP V +SR+    +++LF  EVPEI +G V ++ +   P   A+L
Sbjct: 181 LREVRNQPKGPVVFVSRSDAGMVLRLFEQEVPEIEDGTVTIQRLPVIPARAARL 234


>gi|260434603|ref|ZP_05788573.1| transcription termination factor NusA [Synechococcus sp. WH 8109]
 gi|260412477|gb|EEX05773.1| transcription termination factor NusA [Synechococcus sp. WH 8109]
          Length = 483

 Score =  190 bits (483), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 142/369 (38%), Positives = 208/369 (56%), Gaps = 41/369 (11%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAA----RSLY-GTMSDIRVEINPETGDISL- 62
           L  + D ++ EK +   VV + + +++ K      R+LY G   D   E      D+ L 
Sbjct: 9   LSNLIDDISEEKKLPPQVVEAALREALLKGYERYRRTLYIGISEDPFDEEYFSNFDVGLD 68

Query: 63  -----FRLLE---VVEEVENYTCQIS----LKVARDRDPSIDIG-GVVSDPLPPM-DFGR 108
                +R+L    +V+EVE+   QI+    ++VA D      +G  VV D  P   DFGR
Sbjct: 69  LEEEGYRVLASKIIVDEVESEDHQIAIAEVMQVADD----AQVGDTVVLDVTPEKEDFGR 124

Query: 109 VAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG----- 163
           +A  + KQV+ QK+R+ +R     EF D    +++  V R E  +VI+ + +  G     
Sbjct: 125 MAAATTKQVLAQKLRDQQRRMIQEEFADLEDPVLTARVIRFERQSVIMAVSSGLGRPEVE 184

Query: 164 --VIRRDETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIY 220
             + RRD+ +  +N R     K ++ +V    +RGPQ+ +SR++   +V LF  EVPEI 
Sbjct: 185 AELPRRDQ-LPNDNYRANATFKVFLKEVSEVPRRGPQLFVSRSNAGLVVYLFENEVPEIQ 243

Query: 221 NGIVQVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEK 273
            G V++ AV+R+        G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EK
Sbjct: 244 EGSVRIVAVAREANPPSRSVGPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEK 303

Query: 274 IDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR-IEVIVPKEQLSLAIGRRGQNVRLAS 332
           ID++ WS D   ++ N+L PA V  V L + VG+   V+VP +QLSLAIGR GQNVRLA+
Sbjct: 304 IDVIRWSQDPGQYIANSLSPARVEMVRLVDPVGQHAHVLVPPDQLSLAIGREGQNVRLAA 363

Query: 333 QLTGWTIDI 341
           +LTGW IDI
Sbjct: 364 RLTGWKIDI 372


>gi|116071183|ref|ZP_01468452.1| transcription elongation factor NusA [Synechococcus sp. BL107]
 gi|116066588|gb|EAU72345.1| transcription elongation factor NusA [Synechococcus sp. BL107]
          Length = 492

 Score =  190 bits (483), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 140/368 (38%), Positives = 205/368 (55%), Gaps = 39/368 (10%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAA----RSLY-GTMSDIRVEINPETGDISL- 62
           L  + D ++ EK +   VV + + +++ K      R+LY G   D   E      D+ L 
Sbjct: 9   LTNLIDDISEEKKLAPQVVEAALREALLKGYERYRRTLYIGISEDPFDEDYFSNFDVGLD 68

Query: 63  -----FRLLE---VVEEVENYTCQISL----KVARDRDPSIDIGGVVSDPLPPM-DFGRV 109
                +R+L    +V+EVE+   QI+L    +VA D         VV D  P   DFGR+
Sbjct: 69  LEEEGYRVLASKIIVDEVESEDHQIALAEVMQVAEDAQAG---DTVVLDVTPEKEDFGRM 125

Query: 110 AVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG------ 163
           A  + KQV+ QK+R+ +R     EF D    +++  V R E  ++I+ + +  G      
Sbjct: 126 AAATTKQVLAQKLRDQQRRMIQEEFADLEDPVLTARVIRFERQSIIMAVSSGLGRPEVEA 185

Query: 164 -VIRRDETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
            + RRD+ +  +N R     K ++ +V    +RGPQ+ +SR++   +V LF  EVPEI  
Sbjct: 186 ELPRRDQ-LPNDNYRANATFKVFLKEVSEVPRRGPQLFVSRSNAGLVVYLFENEVPEIQE 244

Query: 222 GIVQVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKI 274
           G V++ AV+R+        G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKI
Sbjct: 245 GSVRIVAVAREANPPSRSVGPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEKI 304

Query: 275 DIVVWSPDSATFVINALRPAIVTKVVLDEDVGR-IEVIVPKEQLSLAIGRRGQNVRLASQ 333
           D++ WS D   ++ N+L PA V  V L +  G+   V+VP +QLSLAIGR GQNVRLA++
Sbjct: 305 DVIRWSQDPGQYIANSLSPARVEMVRLVDPAGQHAHVLVPPDQLSLAIGREGQNVRLAAR 364

Query: 334 LTGWTIDI 341
           LTGW IDI
Sbjct: 365 LTGWKIDI 372


>gi|88807314|ref|ZP_01122826.1| transcription elongation factor NusA [Synechococcus sp. WH 7805]
 gi|88788528|gb|EAR19683.1| transcription elongation factor NusA [Synechococcus sp. WH 7805]
          Length = 470

 Score =  190 bits (482), Expect = 6e-46,   Method: Compositional matrix adjust.
 Identities = 124/292 (42%), Positives = 176/292 (60%), Gaps = 19/292 (6%)

Query: 68  VVEEVENYTCQISL-KVARDRDPSIDIGGVVSDPLPPM-DFGRVAVQSAKQVIIQKVREA 125
           +V+EVE+   QI+L +V +  D +     VV D  P   DFGR+A  + KQV+ QK+R+ 
Sbjct: 82  IVDEVESEDHQIALAEVMQVADDAQAGDTVVLDVTPEKEDFGRMAAATTKQVLAQKLRDQ 141

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-------VIRRDETISRENLRP 178
           +R     EF D    +++  V R E  +VI+ + +  G       + RRD+ +  +N R 
Sbjct: 142 QRRMIQEEFADLEDPVLTARVIRFERQSVIMAVSSGLGRPEVEAELPRRDQ-LPNDNYRA 200

Query: 179 GDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDP---- 233
               K ++ +V    +RGPQ+ +SR +   +V LF  EVPEI  G V++ AV+R+     
Sbjct: 201 NATFKVFLKEVSEVPRRGPQLFVSRANAGLVVYLFENEVPEIQEGSVRIVAVAREANPPS 260

Query: 234 ---GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA 290
              G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++ WS D   ++ N+
Sbjct: 261 RSVGPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEKIDVIRWSADPGQYIANS 320

Query: 291 LRPAIVTKVVLDEDVGR-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           L PA V  V L + VG+   V+VP +QLSLAIGR GQNVRLA++LTGW IDI
Sbjct: 321 LSPARVDVVRLVDPVGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGWKIDI 372


>gi|300933074|ref|ZP_07148330.1| transcription elongation factor NusA [Corynebacterium resistens DSM
           45100]
          Length = 331

 Score =  190 bits (482), Expect = 6e-46,   Method: Compositional matrix adjust.
 Identities = 114/268 (42%), Positives = 158/268 (58%), Gaps = 11/268 (4%)

Query: 86  DRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGT 145
           +RD   ++ G   D   P DFGR    + +  I  +++EA   R Y E+ D    ++SG 
Sbjct: 61  ERDEDGEVTGRFDDT--PSDFGRAGAMAVRDAIRYRIKEARVQRDYDEYADLRYRVVSGV 118

Query: 146 VKRV----EYGNVIVDLGN----SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
           V R     E G V+V LG      DG I   E +  E L  G RVK+Y+ DV +  R  Q
Sbjct: 119 VTRNAMANERGVVVVHLGTEAKGKDGEILPAEQLPGEKLEHGMRVKAYVTDVIKNSRFVQ 178

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           +++SRTHP+ +  LF +EVPE+ +G V++ +V+R+ G R K+AV S+   ++  GAC+G 
Sbjct: 179 IIMSRTHPELVRGLFALEVPEVADGSVEIVSVAREAGHRTKIAVRSTIKGLNAKGACIGP 238

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQ 316
           RG RV A+  EL  EKIDI+ +S D A +V NAL P+ V +V V D D      +VP  Q
Sbjct: 239 RGQRVAAIQRELGGEKIDIIDFSEDPAVYVGNALSPSKVVRVDVTDPDFQVARAVVPDYQ 298

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITE 344
           LSLAIG+ GQN RLA++LTGW IDI  E
Sbjct: 299 LSLAIGKEGQNARLAARLTGWKIDIRPE 326


>gi|260889854|ref|ZP_05901117.1| transcription termination factor NusA [Leptotrichia hofstadii
           F0254]
 gi|260860460|gb|EEX74960.1| transcription termination factor NusA [Leptotrichia hofstadii
           F0254]
          Length = 386

 Score =  190 bits (482), Expect = 6e-46,   Method: Compositional matrix adjust.
 Identities = 125/341 (36%), Positives = 202/341 (59%), Gaps = 5/341 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
            L+  D +  EK I ++ +L  +  ++  A +  YG   +++V IN  +GD+ ++    +
Sbjct: 10  FLEALDELEKEKGILKEELLETIETALLAAYKKNYGEKDNVKVTINRNSGDVKVYSQRLI 69

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VE VEN   +ISL+ A        +G ++   +    F R A+Q+AKQ+++QKVRE E+ 
Sbjct: 70  VENVENPEEEISLQDAISVKKRAKLGDILDLEINAESFKRNAIQNAKQIVVQKVRECEKR 129

Query: 129 RQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
             + +FK+    I+S  V++  E GN+ VD+   + ++   E    +  R GDR+K YI 
Sbjct: 130 NIFNKFKEIENSIVSANVRKTDEKGNLYVDINGLEAIVPAKELSPVDIFRQGDRIKIYIG 189

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +  +  +SR   + +  L  +EVPEIY  I++++ ++R+ GSR+K+AV+S+D +
Sbjct: 190 AVEESTKFTKTFVSRKSEELLRGLLELEVPEIYEEIIEIRNIAREAGSRSKVAVYSNDEN 249

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL----DE 303
           +D  GAC+G  G R+Q ++ EL  EKIDIV+W+ D   FV NAL PA V  V +    +E
Sbjct: 250 LDVKGACIGRNGMRIQNIIDELCGEKIDIVLWNEDITEFVKNALNPAEVLSVEIIEEGEE 309

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           ++    V+V + QLSLAIG++GQN RLA++L G  IDI TE
Sbjct: 310 NMKVARVLVAENQLSLAIGKKGQNSRLAARLCGVKIDIHTE 350


>gi|309804431|ref|ZP_07698499.1| transcription termination factor NusA [Lactobacillus iners LactinV
           09V1-c]
 gi|308166244|gb|EFO68459.1| transcription termination factor NusA [Lactobacillus iners LactinV
           09V1-c]
          Length = 248

 Score =  189 bits (481), Expect = 7e-46,   Method: Compositional matrix adjust.
 Identities = 102/230 (44%), Positives = 148/230 (64%), Gaps = 2/230 (0%)

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +Q++REAER     E+     E+I+GTV+RV+   V + +GN + V+  ++ +  E  +P
Sbjct: 1   MQRLREAERAHIIEEYSQYQNELITGTVERVDNRFVYIKIGNVEAVMPHNDQMPGEVYKP 60

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR+K  +  V  + +G Q+ +SRT P  + +LF  EVPE+YNG V++ +++R+ G R K
Sbjct: 61  QDRIKVLVTKVGSDAKGTQITVSRTAPGLVKRLFEQEVPEVYNGTVEIISIAREAGDRTK 120

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV SSD +IDPVG  VG +GSRVQ +V EL  E ID+V +  D + ++ NAL PA V  
Sbjct: 121 IAVKSSDPNIDPVGTLVGPKGSRVQNIVNELSGENIDVVKYEEDPSDYIANALNPAEVIA 180

Query: 299 VVLDE--DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           V   E  D     VIVP  QLSLAIG++GQNVRLA++LT + IDI  E +
Sbjct: 181 VQFGEANDDKSALVIVPDYQLSLAIGKKGQNVRLAARLTEYKIDIKPESQ 230


>gi|33241096|ref|NP_876038.1| transcription elongation factor NusA [Prochlorococcus marinus
           subsp. marinus str. CCMP1375]
 gi|33238625|gb|AAQ00691.1| Transcription elongation factor NusA [Prochlorococcus marinus
           subsp. marinus str. CCMP1375]
          Length = 472

 Score =  189 bits (480), Expect = 9e-46,   Method: Compositional matrix adjust.
 Identities = 125/300 (41%), Positives = 175/300 (58%), Gaps = 25/300 (8%)

Query: 68  VVEEVENYTCQISL----KVARDRDPSIDIGGVVSDPLPPMD-FGRVAVQSAKQVIIQKV 122
           +VEEV++   QI+L    +VA D         VV D  P  + FGR+A  + KQV+ QK+
Sbjct: 82  IVEEVDSEDHQIALAEVMQVAEDAQAG---DTVVLDVTPEKEEFGRMAASTTKQVLSQKL 138

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-------VIRRDETISREN 175
           R+ +R     EF D    +++  V R E  +VI+ + +  G       + RRD+ +  +N
Sbjct: 139 RDQQRRMIQEEFADLEDPVLTARVIRFERQSVIMAVSSGLGRPEVEAELPRRDQ-LPNDN 197

Query: 176 LRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDP- 233
            R     K ++ +V    +RGPQ+ +SR +   +V LF  EVPEI  G V++ AV+R+  
Sbjct: 198 YRANATFKVFLKEVSEVPRRGPQLFVSRANAGLVVYLFENEVPEIQEGSVRIVAVAREAN 257

Query: 234 ------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFV 287
                 G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++ WS D   ++
Sbjct: 258 PPSRSVGPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEKIDVIRWSTDPIQYI 317

Query: 288 INALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            N+L PA V  V L D D     V+VP +QLSLAIGR GQNVRLA++LTGW IDI   +E
Sbjct: 318 CNSLSPARVENVRLVDPDGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGWKIDIKNSQE 377


>gi|16329287|ref|NP_440015.1| transcription elongation factor NusA [Synechocystis sp. PCC 6803]
 gi|1651767|dbj|BAA16695.1| N utilization substance protein [Synechocystis sp. PCC 6803]
          Length = 458

 Score =  189 bits (480), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 130/313 (41%), Positives = 184/313 (58%), Gaps = 17/313 (5%)

Query: 46  MSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGG-VVSDPLPPM 104
            ++  VE++ E     +     +VEEVEN   QISLK   +      +G  VV D  P  
Sbjct: 57  FNNFEVELDTEEEGFRVLSTKRIVEEVENSDQQISLKEVLEVAEEAQLGDEVVLDVTPEQ 116

Query: 105 -DFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG 163
            DFGR+A    KQV++QK+R+ +R     EF+D  G +++    R E  ++IV + +S G
Sbjct: 117 KDFGRMAAIQTKQVLLQKLRDQQRKIIQEEFQDLEGTVLNARALRFERQSIIVAVQSSFG 176

Query: 164 V------IRRDETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEV 216
                  + + E +  +N R     + Y+  VR   QRGPQ+++SR     +V LF +EV
Sbjct: 177 QPEVEAELPKREQLPNDNYRANSTFRVYLKRVREGSQRGPQLVVSRAAAGLVVDLFSVEV 236

Query: 217 PEIYNGIVQVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTEL 269
           PEI   +V++ AV+R+        G R K+AV + +  +DPVGAC+G RGSR+ AVV EL
Sbjct: 237 PEIEEEVVRIVAVAREAKPPSPSVGPRTKIAVDTLERDVDPVGACIGARGSRIHAVVNEL 296

Query: 270 RDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIE-VIVPKEQLSLAIGRRGQNV 328
           R EKID++ WSPD AT++  AL PA V +V L     R   VIV ++QLSLAIG+ GQNV
Sbjct: 297 RGEKIDVIRWSPDPATYIAQALSPARVDQVYLIHAEERHALVIVAEDQLSLAIGKEGQNV 356

Query: 329 RLASQLTGWTIDI 341
           RLA++LTGW IDI
Sbjct: 357 RLAARLTGWKIDI 369


>gi|113954345|ref|YP_731568.1| transcription elongation factor NusA [Synechococcus sp. CC9311]
 gi|113881696|gb|ABI46654.1| transcription termination factor NusA [Synechococcus sp. CC9311]
          Length = 501

 Score =  189 bits (480), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 123/295 (41%), Positives = 174/295 (58%), Gaps = 25/295 (8%)

Query: 68  VVEEVENYTCQISL----KVARDRDPSIDIGGVVSDPLPPM-DFGRVAVQSAKQVIIQKV 122
           +V+EVE+   QI+L    +VA D         VV D  P   DFGR+A  + KQV+ QK+
Sbjct: 82  IVDEVESEDHQIALAEVMQVAEDAQAG---DTVVLDVTPEKEDFGRMAAATTKQVLAQKL 138

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-------VIRRDETISREN 175
           R+ +R     EF D    +++  V R E  ++I+ + +  G       + RRD+ +  +N
Sbjct: 139 RDQQRRMIQEEFADLEDPVLTARVIRFERQSIIMAVSSGLGRPEVEAELPRRDQ-LPNDN 197

Query: 176 LRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDP- 233
            R     K ++ +V    +RGPQ+ +SR +   +V LF  EVPEI  G V++ AV+R+  
Sbjct: 198 YRANATFKVFLKEVSEVPRRGPQLFVSRANAGLVVYLFENEVPEIQEGSVRIVAVAREAN 257

Query: 234 ------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFV 287
                 G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++ WS D + ++
Sbjct: 258 PPSRAVGPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEKIDVIRWSQDPSQYI 317

Query: 288 INALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            N+L PA V  V L D +     V+VP +QLSLAIGR GQNVRLA++LTGW IDI
Sbjct: 318 ANSLSPARVEVVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGWKIDI 372


>gi|289810678|ref|ZP_06541307.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. AG3]
          Length = 236

 Score =  189 bits (480), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 93/233 (39%), Positives = 153/233 (65%), Gaps = 6/233 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEEVTMPTKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPGDR 181
                +F+D+ GEI++G VK+V   N+ +++      GN++ VI R++ + REN RPGDR
Sbjct: 124 AMVVDQFRDQEGEIVTGVVKKVNRDNISLEIKSEGMAGNAEAVILREDMLPRENFRPGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
           ++  +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPG
Sbjct: 184 IRGVLYAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPG 236


>gi|194476586|ref|YP_002048765.1| transcription elongation factor NusA [Paulinella chromatophora]
 gi|171191593|gb|ACB42555.1| transcription elongation factor NusA [Paulinella chromatophora]
          Length = 468

 Score =  189 bits (479), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 122/293 (41%), Positives = 170/293 (58%), Gaps = 21/293 (7%)

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQSAKQVIIQKVREA 125
           +VEEVE+   QI+L   R     +  G  V   + P   DFGR+A    KQV+ +K+RE 
Sbjct: 82  IVEEVESEDHQIALSDVRQVTEDVHAGDTVVLDVTPAKEDFGRMAAAMTKQVLSRKLREQ 141

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIR--------RDETISRENLR 177
           +R     EF D    +++  V R E  +VI  L  S G+ R        R + +  +N R
Sbjct: 142 QRRMIQEEFADLEDPVLTARVIRFERQSVI--LAVSSGLSRPEVEAELPRRDQLPNDNYR 199

Query: 178 PGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSR--DPG 234
                K ++ ++    +RGPQ+ +SR +   +V LF  EVPEI  G V++ AV+R  +P 
Sbjct: 200 ANATFKVFLKEISEVPRRGPQLFVSRVNAGLVVYLFENEVPEIQEGSVRIVAVAREANPP 259

Query: 235 SRA-----KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVIN 289
           SR      K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++ WSPD A ++ N
Sbjct: 260 SRTVSPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEKIDVIRWSPDPAQYISN 319

Query: 290 ALRPAIVTKVVLDEDVG-RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           ++ PA V  + L +  G    V+V  +QLSLAIGR GQNVRLA++LTGW IDI
Sbjct: 320 SISPARVHNIRLIDPAGHHAHVLVTPDQLSLAIGREGQNVRLAARLTGWKIDI 372


>gi|85057852|ref|YP_456768.1| transcription elongation factor NusA [Aster yellows witches'-broom
           phytoplasma AYWB]
 gi|84789957|gb|ABC65689.1| N utilization substance protein A [Aster yellows witches'-broom
           phytoplasma AYWB]
          Length = 357

 Score =  189 bits (479), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 108/358 (30%), Positives = 199/358 (55%), Gaps = 14/358 (3%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M+S N  +LL   D +A E  +D+D V+   A  +    +  +   S  ++ +  +  +I
Sbjct: 1   MISKNFFKLL---DKIAQESGLDKDQVIDAFAKGLISGCKKNHKVKS-CKIHLKEDKSEI 56

Query: 61  SLFRLLEVVEEVENYTCQ------ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSA 114
            L++   V +E    T        I+L+ A+   P   IG V+   + P DF   AV+  
Sbjct: 57  ILYKQFLVADEATISTINLKESTPITLEEAQQIKPHAKIGQVIDIKVDPKDFNLYAVKEF 116

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTV--KRVEYGNVIVDLGNSDGVIRRDETIS 172
           K    +++ + +R+  Y  FK + G++IS  +  +  ++ N+ ++      ++ + E  S
Sbjct: 117 KNQFNEELTKKKRENIYNFFKQQEGKLISAKIISENDKFYNLELE-KEITTLLPKKEIAS 175

Query: 173 RENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRD 232
              ++ G+R++ ++ +V++  + P++ +S  H   +VK+    +PEI  GIV++  V+R 
Sbjct: 176 NNEMQVGERIQVFLSEVKKTTKWPKIFVSCNHVGLVVKVLEENIPEIQEGIVKIAGVARI 235

Query: 233 PGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALR 292
            G R K+ +FS D+ ID +G+C+G R +R++ V+  L+ EKID+ +WS D    + NAL+
Sbjct: 236 SGERTKIGLFSCDAQIDAIGSCIGERSNRIKNVIKILKGEKIDLFIWSDDPQELIANALK 295

Query: 293 PAIVTKVVLDEDVGRIEV-IVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           PA   +VV+ +D+ +  + IVP +Q SLAIG+ G+NV+LA ++T W IDI T ++  I
Sbjct: 296 PASCLQVVIKDDINKCALAIVPDDQFSLAIGKLGKNVKLAVEVTKWNIDIKTLDQAQI 353


>gi|189499377|ref|YP_001958847.1| transcription elongation factor NusA [Chlorobium phaeobacteroides
           BS1]
 gi|189494818|gb|ACE03366.1| NusA antitermination factor [Chlorobium phaeobacteroides BS1]
          Length = 521

 Score =  189 bits (479), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 115/341 (33%), Positives = 193/341 (56%), Gaps = 26/341 (7%)

Query: 27  VLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD 86
           +  ++ D IQK  R  Y    +  + INPE GD  ++ L  VV+EV+  + +I L+    
Sbjct: 44  IADLLKDIIQKQLRKDYDPEVEANIFINPERGDFEVYILKTVVDEVDLPSIEIGLEEVSR 103

Query: 87  RDPSIDIGGVVSD-PLPPMDF-GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
            D S+++G +  + P+   D+  R ++Q  KQ + +KVR+ E+   Y +  +KVGE+++G
Sbjct: 104 IDESLELGDMYEEGPVNLEDYLTRKSIQIIKQSVQKKVRDMEKQVVYEDCLEKVGEVVAG 163

Query: 145 TVKRVEYGNVIVDLGNSDG-----VIRRDETISRENLRPGDRVKSYIYDVRREQ------ 193
            V +V    VI     S       V+ + E + ++N R   R+K Y+  + RE+      
Sbjct: 164 EVYQVRQNEVIFSYNTSKDHRVELVLPKSEMMKKDNPRRTPRMKLYVKRIEREKVKVRQD 223

Query: 194 -----------RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
                       G +V++SR   +F+ KLF  EVPEI +G++ +K ++R PG RAK+AV 
Sbjct: 224 DGSIVEKEKPDGGMKVIVSRIDDRFLYKLFESEVPEILDGLIVIKGIARVPGERAKVAVE 283

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+ S IDPVGA VG RG R+Q++V EL +E ID++ ++ D   ++  AL+PA +  + + 
Sbjct: 284 STSSRIDPVGASVGYRGKRIQSIVKELNNENIDVINFTDDPQIYIARALQPAKIDPMTVH 343

Query: 303 EDV--GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            D+   +  V++  EQ+  AIG+ G N+ LA +LTG+ +D+
Sbjct: 344 ADMKTHKARVMLKPEQIKYAIGKNGNNIHLAERLTGYDVDV 384


>gi|124026598|ref|YP_001015713.1| transcription elongation factor NusA [Prochlorococcus marinus str.
           NATL1A]
 gi|123961666|gb|ABM76449.1| N utilization substance protein A [Prochlorococcus marinus str.
           NATL1A]
          Length = 497

 Score =  188 bits (478), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 125/301 (41%), Positives = 178/301 (59%), Gaps = 27/301 (8%)

Query: 68  VVEEVENYTCQIS----LKVARDRDPSIDIG-GVVSDPLPPM-DFGRVAVQSAKQVIIQK 121
           +VEEVE+   QI+    ++VA D      +G  VV D  P   DFGR+A  + KQV+ QK
Sbjct: 82  IVEEVESDDHQIAIAEVMQVADD----AQVGDTVVLDVTPEKEDFGRMAAATTKQVLAQK 137

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-------VIRRDETISRE 174
           +R+ +R     EF D    +++  V R E  +VI+ + +  G       + RRD+ +  +
Sbjct: 138 LRDQQRRMIQEEFADLEDPVLTARVIRFERQSVIMAVSSGLGRPEVEAELPRRDQ-LPND 196

Query: 175 NLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDP 233
           N R     K ++ +V    +RGPQ+ +SR++   +V LF  EVPEI  G V++ AV+R+ 
Sbjct: 197 NYRANATFKVFLKEVSETPRRGPQLFVSRSNAGLVVYLFENEVPEIQEGSVRIVAVAREA 256

Query: 234 -------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATF 286
                  G R K+AV S +  +DPVGAC+G RG+R+Q VV ELR EKID++ WS D   +
Sbjct: 257 NPPSRAVGPRTKVAVDSIEREVDPVGACIGARGARIQQVVNELRGEKIDVIRWSSDPVQY 316

Query: 287 VINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           + N+L PA V  V L D +     V+VP +QLSLAIGR GQNVRLA++LTGW IDI   +
Sbjct: 317 ICNSLSPARVEVVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGWKIDIKNSQ 376

Query: 346 E 346
           E
Sbjct: 377 E 377


>gi|145220365|ref|YP_001131074.1| transcription elongation factor NusA [Prosthecochloris vibrioformis
           DSM 265]
 gi|145206529|gb|ABP37572.1| NusA antitermination factor [Chlorobium phaeovibrioides DSM 265]
          Length = 551

 Score =  188 bits (478), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 113/341 (33%), Positives = 192/341 (56%), Gaps = 26/341 (7%)

Query: 27  VLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD 86
           +  ++ D IQK  R  Y    +  + INPE GD  ++ L ++VEEV+    +ISL+  R 
Sbjct: 44  IADLLKDIIQKQLRKDYDPEVEANIFINPERGDFEVYILKKIVEEVDIAPIEISLEEIRK 103

Query: 87  RDPSIDIGGVVSDPLPPMD--FGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
            D S+++G    +    +D    R ++Q  KQ + +KVR+ ER   Y E  +KVGE+++ 
Sbjct: 104 IDESLEVGDFYEEGPIKLDEYLTRKSIQIIKQSVQKKVRDLERMVVYEECLEKVGEVVAA 163

Query: 145 TVKRVEYGNVIVDLGNSDG-----VIRRDETISRENLRPGDRVKSYIYDVRREQ------ 193
            V +V    VI     +       V+ + E + ++N R   R+K Y+ ++ RE+      
Sbjct: 164 EVYQVRSNEVIFTYNTTKDHRVELVLPKSEMMKKDNPRRTPRMKLYVKNIERERVKIRLE 223

Query: 194 -----------RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
                       G +V++SR   +F+ KLF  EVPEI +G++ +K ++R PG RAK+AV 
Sbjct: 224 DGTIEEKEKADGGMKVIVSRVDDRFLYKLFEQEVPEILDGLIVIKGIARVPGERAKVAVE 283

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+ + IDPVGA VG RG R+Q++V EL +E ID++ ++ +   ++  AL+PA +  + + 
Sbjct: 284 STSARIDPVGATVGYRGKRIQSIVKELNNENIDVIYYNDEPQVYISRALQPAKIDPLTVH 343

Query: 303 EDVG--RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            D+   +  V++  +Q+  AIG+ G N+ LA +LTG+ I++
Sbjct: 344 ADMKTRKARVMLKPDQIKYAIGKNGNNIHLAEKLTGYEIEV 384


>gi|218247498|ref|YP_002372869.1| transcription elongation factor NusA [Cyanothece sp. PCC 8801]
 gi|257061166|ref|YP_003139054.1| transcription elongation factor NusA [Cyanothece sp. PCC 8802]
 gi|218167976|gb|ACK66713.1| NusA antitermination factor [Cyanothece sp. PCC 8801]
 gi|256591332|gb|ACV02219.1| NusA antitermination factor [Cyanothece sp. PCC 8802]
          Length = 412

 Score =  188 bits (478), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 129/311 (41%), Positives = 185/311 (59%), Gaps = 17/311 (5%)

Query: 48  DIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGG-VVSDPLPPM-D 105
           +  VE++ E     +    ++VE VEN    ISL+  ++      +G  VV D  P   D
Sbjct: 60  NFEVELDTEEEGFRILSTKKIVEAVENTDHFISLEEVQEVASEAQLGDEVVLDVTPNQKD 119

Query: 106 FGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-- 163
           FGR+A    KQV++QK+R+ +R     EF +  G +++  V R E  + IV + ++ G  
Sbjct: 120 FGRMAAIQTKQVLLQKLRDQQRKLIQEEFNEIEGTVLNARVLRFERQDAIVAVQSTFGQP 179

Query: 164 ----VIRRDETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPE 218
               V+ + E +  +N R     K  +  VR    RGPQ+++SR+    +V LF +EVPE
Sbjct: 180 EVEAVLPKREQLPNDNYRANATFKVLLKKVREGSHRGPQLIVSRSAAGLVVDLFTVEVPE 239

Query: 219 IYNGIVQVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRD 271
           I   IV++ AVSR+        G R K+AV + +  +DPVGAC+G RGSR+QAVV ELR 
Sbjct: 240 IEEEIVRIVAVSREANPPSRHVGPRTKIAVDTLERDVDPVGACIGARGSRIQAVVNELRG 299

Query: 272 EKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRL 330
           EKID++ WSPD AT++ NAL PA V  V+L + D     V+V ++QLSLAIG+ GQNVRL
Sbjct: 300 EKIDVIRWSPDPATYIANALSPARVDNVILINPDERHALVLVAEDQLSLAIGKEGQNVRL 359

Query: 331 ASQLTGWTIDI 341
           A++LTGW IDI
Sbjct: 360 AARLTGWKIDI 370


>gi|159904155|ref|YP_001551499.1| transcription elongation factor NusA [Prochlorococcus marinus str.
           MIT 9211]
 gi|159889331|gb|ABX09545.1| N utilization substance protein A [Prochlorococcus marinus str. MIT
           9211]
          Length = 471

 Score =  188 bits (477), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 142/374 (37%), Positives = 210/374 (56%), Gaps = 41/374 (10%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAA----RSLYGTMSDIRVE----INPETG-- 58
           L  + D ++ EK +   VV + + +++ K      R+LY  +++   E     N + G  
Sbjct: 9   LNNLIDDISEEKKLPAQVVETALREALLKGYERYRRTLYLGINENPFEEEYFSNFDVGLD 68

Query: 59  -DISLFRLLE---VVEEVENYTCQISL----KVARDRDPSIDIG-GVVSDPLPPMD-FGR 108
            D   +R+L    +V+EVE+   QI+L    +VA D      IG  VV D  P  + FGR
Sbjct: 69  LDEEGYRVLASKIIVDEVESEDHQIALSEVMQVAED----AQIGDTVVLDVTPEKEEFGR 124

Query: 109 VAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG----- 163
           +A  + KQV+ QK+R+ +R     EF D    +++  V R E  +VI+ + +  G     
Sbjct: 125 MAAATTKQVLAQKLRDQQRRMIQEEFADLEDPVLTARVIRFERQSVIMAVSSGLGRPEVE 184

Query: 164 --VIRRDETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIY 220
             + RRD+ +  +N R     K ++ +V    +RGPQ+ +SR++   +V LF  EVPEI 
Sbjct: 185 AELPRRDQ-LPNDNYRANATFKVFLKEVSETPRRGPQLFVSRSNAGLVVYLFENEVPEIQ 243

Query: 221 NGIVQVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEK 273
            G V++ AV+R+        G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EK
Sbjct: 244 EGSVRIVAVAREANPPTRAVGPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEK 303

Query: 274 IDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLAS 332
           ID++ WS D   ++ N+L PA V  V L D +     V+VP +QLSLAIGR GQNVRLA+
Sbjct: 304 IDVIRWSADPVQYISNSLSPARVEVVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAA 363

Query: 333 QLTGWTIDIITEEE 346
           +LTGW IDI   +E
Sbjct: 364 RLTGWKIDIKNSQE 377


>gi|42565347|gb|AAS20956.1| NusA [Clover phyllody phytoplasma]
          Length = 357

 Score =  187 bits (476), Expect = 3e-45,   Method: Compositional matrix adjust.
 Identities = 107/358 (29%), Positives = 200/358 (55%), Gaps = 14/358 (3%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M+S N  +LL   D +A E+ +D+D V+   A  +    +  +   S  ++++  +  +I
Sbjct: 1   MISKNFFKLL---DKIAQERDLDKDQVIGAFAKGLISGCKKNHKVKS-CKIQLKEDKSEI 56

Query: 61  SLFRLLEVVEEVENYTCQ------ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSA 114
            L++   V +E    T        I+L+ A+   P   IG V+   + P DF   AV+  
Sbjct: 57  ILYKQFLVADEATMSTINLKESTPITLEEAQQIKPHAKIGQVIDIKVDPKDFNLYAVKEF 116

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTV--KRVEYGNVIVDLGNSDGVIRRDETIS 172
           K    +++ + +R+  Y  FK + G++IS  +  +  ++ N+ ++      ++ + E  S
Sbjct: 117 KNQFNEELTKKKRENIYNFFKQQEGKLISAKIISENDKFYNLELE-KEITTLLPKKEIAS 175

Query: 173 RENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRD 232
              ++ G+R++ ++ +VR+  + P++ +S  H   +VK+    +PEI  GIV++  V+R 
Sbjct: 176 NNEMQVGERIQVFLSEVRKTTKWPKIFVSCNHVGLVVKVLEENIPEIQEGIVKIAGVARI 235

Query: 233 PGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALR 292
            G R K+ + S D+ +D +G+C+G R +R++ V+  L+ EK+D+ VWS D    + NAL+
Sbjct: 236 SGERTKIGLLSCDAQVDAIGSCIGERSNRIKNVIKILKGEKVDLFVWSDDPQELIANALK 295

Query: 293 PAIVTKVVLDEDVGRIEV-IVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           PA   +VV+ +D+ +  + IVP +Q SLAIG+ G+NV+LA ++T W IDI T ++  I
Sbjct: 296 PASCLQVVIKDDINKYALAIVPDDQFSLAIGKLGKNVKLAVEVTKWNIDIKTLDQAQI 353


>gi|72382861|ref|YP_292216.1| transcription elongation factor NusA [Prochlorococcus marinus str.
           NATL2A]
 gi|72002711|gb|AAZ58513.1| transcription termination factor NusA [Prochlorococcus marinus str.
           NATL2A]
          Length = 497

 Score =  187 bits (474), Expect = 5e-45,   Method: Compositional matrix adjust.
 Identities = 124/301 (41%), Positives = 178/301 (59%), Gaps = 27/301 (8%)

Query: 68  VVEEVENYTCQIS----LKVARDRDPSIDIG-GVVSDPLPPM-DFGRVAVQSAKQVIIQK 121
           +VE+VE+   QI+    ++VA D      +G  VV D  P   DFGR+A  + KQV+ QK
Sbjct: 82  IVEDVESDDHQIAIAEVMQVADD----AQVGDTVVLDVTPEKEDFGRMAAATTKQVLAQK 137

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-------VIRRDETISRE 174
           +R+ +R     EF D    +++  V R E  +VI+ + +  G       + RRD+ +  +
Sbjct: 138 LRDQQRRMIQEEFADLEDPVLTARVIRFERQSVIMAVSSGLGRPEVEAELPRRDQ-LPND 196

Query: 175 NLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDP 233
           N R     K ++ +V    +RGPQ+ +SR++   +V LF  EVPEI  G V++ AV+R+ 
Sbjct: 197 NYRANATFKVFLKEVSETPRRGPQLFVSRSNAGLVVYLFENEVPEIQEGSVRIVAVAREA 256

Query: 234 -------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATF 286
                  G R K+AV S +  +DPVGAC+G RG+R+Q VV ELR EKID++ WS D   +
Sbjct: 257 NPPSRAVGPRTKVAVDSIEREVDPVGACIGARGARIQQVVNELRGEKIDVIRWSSDPVQY 316

Query: 287 VINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           + N+L PA V  V L D +     V+VP +QLSLAIGR GQNVRLA++LTGW IDI   +
Sbjct: 317 ICNSLSPARVEVVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGWKIDIKNSQ 376

Query: 346 E 346
           E
Sbjct: 377 E 377


>gi|38234060|ref|NP_939827.1| transcription elongation factor NusA [Corynebacterium diphtheriae
           NCTC 13129]
 gi|38200322|emb|CAE50007.1| Putative N utilization related protein [Corynebacterium
           diphtheriae]
          Length = 332

 Score =  186 bits (471), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 122/338 (36%), Positives = 188/338 (55%), Gaps = 43/338 (12%)

Query: 23  DRDVVLSVMADSIQKAARSLYGTMSDI--------RVEINPETGDISLFRLLEVVEEVEN 74
           DR++ +  + ++I +A    Y    D         RV+IN  TG +S+     +V E   
Sbjct: 14  DRNIAVDELLETIARALLFAYQEYKDTNTVENSRARVDINSVTGHVSV-----IVSE--- 65

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPL--PPMDFGRVAVQSAKQVIIQKVREAERDRQYL 132
                           +D  GVV+      P +FGRV  Q+ +  I++++REAE  + Y 
Sbjct: 66  ----------------LDEDGVVTTEYDDTPENFGRVGAQAVRDAIVRRLREAETLKAYD 109

Query: 133 EFKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDRVKS 184
            + +  G ++SG V+   + N    V++ LG      DG++   E I  E+ + GDRVK+
Sbjct: 110 AYSEYEGRVVSGIVQADIFANEKGIVVIHLGTEVDGQDGILIPAEQIPGESFKHGDRVKA 169

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+  + R  R  Q+ LSRTHP+ + +LF +EVPE+ +G V++  ++R+ G R+K+AV ++
Sbjct: 170 YVVGINRTPRDLQINLSRTHPELVRRLFELEVPEVADGSVEIIGIAREAGHRSKVAVKAT 229

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDE 303
              ++  GAC+G RG RV  ++ EL  EKIDI+ +  D A FV NAL P+ V  V + D 
Sbjct: 230 VKGLNAKGACIGPRGQRVNNIMNELGGEKIDIIDFDDDPAKFVGNALAPSKVVHVEITDA 289

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +    +V VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 290 EAQTAQVTVPDYQLSLAIGKEGQNARLAARLTGWKIDI 327


>gi|225021163|ref|ZP_03710355.1| hypothetical protein CORMATOL_01175 [Corynebacterium matruchotii
           ATCC 33806]
 gi|305681535|ref|ZP_07404342.1| transcription termination factor NusA [Corynebacterium matruchotii
           ATCC 14266]
 gi|224946070|gb|EEG27279.1| hypothetical protein CORMATOL_01175 [Corynebacterium matruchotii
           ATCC 33806]
 gi|305659740|gb|EFM49240.1| transcription termination factor NusA [Corynebacterium matruchotii
           ATCC 14266]
          Length = 332

 Score =  186 bits (471), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 117/345 (33%), Positives = 189/345 (54%), Gaps = 35/345 (10%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDISLFRL 65
           +Q   A+  EK I   V+L  +A ++  A R          +  RV+I+  TG +++   
Sbjct: 5   VQALKAIETEKGISVQVLLETIASALMHAYREYKDAPPAPNTQARVDIDIATGAVAV--- 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             ++ E+++        V ++ D +            P +F R+   + +  I++++REA
Sbjct: 62  --IISELDDEG-----NVVQEHDDT------------PANFERIGTVAVRDAIVKRLREA 102

Query: 126 ERDRQYLEFKDKVGEIISGTVKR----VEYGNVIVDLGN----SDGVIRRDETISRENLR 177
           E  + Y  + +  G ++SG V+      E G V+V LG      DG++   E I  E L+
Sbjct: 103 ETRQAYDAYSEYEGRVVSGVVQADIHANERGIVVVHLGTEADGQDGILLPAEQIPGEQLK 162

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            GDRVKS++  V        + LSRTHP+ + +LF +E+PE+ +G V++ +++R+ G R+
Sbjct: 163 HGDRVKSFVVGVNHNSHSLSINLSRTHPELVRRLFELEIPEVADGSVEIVSIAREAGHRS 222

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV +    ++  GAC+G RG RV  ++ EL  EKIDI+ +S + A +V NAL P+ V 
Sbjct: 223 KVAVRARVKGLNAKGACIGPRGQRVTNIMKELNGEKIDIIDYSDNPAEYVGNALAPSKVV 282

Query: 298 KV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            V ++D       V VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 283 DVEIIDATAQTARVTVPHYQLSLAIGKEGQNARLAARLTGWKIDI 327


>gi|194335549|ref|YP_002017343.1| NusA antitermination factor [Pelodictyon phaeoclathratiforme BU-1]
 gi|194308026|gb|ACF42726.1| NusA antitermination factor [Pelodictyon phaeoclathratiforme BU-1]
          Length = 514

 Score =  185 bits (470), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 119/341 (34%), Positives = 196/341 (57%), Gaps = 26/341 (7%)

Query: 27  VLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD 86
           +  ++ D IQK  R  Y    +  + INPE GD  ++ L ++VEE++  + +I+LK  R 
Sbjct: 44  IADLLKDIIQKQLRKDYDPEVESNIFINPERGDFEVYILKKIVEEIDIESIEITLKEVRK 103

Query: 87  RDPSIDIGGVVSD-PLPPMDF-GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
            D S++IG    + P+   D+  R ++Q  KQ + +KVR+ ER   Y E  +KVGEI++G
Sbjct: 104 IDDSLEIGDYYEEGPIRLEDYLSRKSIQIIKQSVQKKVRDLERLVVYEECLEKVGEIVAG 163

Query: 145 TVKRVEYGNVIVDLGNSDG-----VIRRDETISRENLRPGDRVKSYIYDVRREQR----- 194
            V +V    VI     S       V+ + E + ++N R   R+K Y+  + RE+      
Sbjct: 164 EVYQVRANEVIFTYNTSKDHRVELVLPKSEMMKKDNPRRTPRMKLYVKRIEREKAKVRLD 223

Query: 195 ------------GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
                       G +V++SR   +F+ KLF  EVPEI +G++ +KA++R PG RAK+AV 
Sbjct: 224 DGSMVEREKADGGMKVIVSRVDDRFLYKLFEHEVPEILDGLIVIKAIARVPGERAKVAVE 283

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+ + IDPVGA VG RG R+Q++V EL +E ID++ ++ +   ++  A++PA +  + + 
Sbjct: 284 STSARIDPVGATVGYRGKRIQSIVKELNNENIDVIYYADEPQIYISRAMQPAKIDPLTVH 343

Query: 303 EDVG--RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            DV   +  V++  +Q+  AIG+ G N+ LA +LTG+ ID+
Sbjct: 344 ADVKTRKARVMLKPDQIKYAIGKNGNNIHLAEKLTGYEIDV 384


>gi|294790399|ref|ZP_06755557.1| transcription termination factor NusA [Scardovia inopinata F0304]
 gi|294458296|gb|EFG26649.1| transcription termination factor NusA [Scardovia inopinata F0304]
          Length = 372

 Score =  185 bits (469), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 111/333 (33%), Positives = 188/333 (56%), Gaps = 15/333 (4%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           +A E+ I+ + + + ++++++ A           RVE++   G  +++   E+ +E    
Sbjct: 11  LAAEQGIEPERLDAALSEALRLAYLKTPHAARHARVELDERAGSFTVWAQKEIPQE---- 66

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
                     D  P   +G    D   P  FGR A   A+QVI    R+   D  +  F 
Sbjct: 67  ------PTEEDPHPKPVLGEEYDDT--PEGFGRQAAYIARQVITALFRKVADDNIFGAFA 118

Query: 136 DKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
            + G++I+G V++   + GN+ + +G+ + ++ R E +  E  R G+RV+ Y+  V +  
Sbjct: 119 GQKGKLITGVVQQDSNDRGNLHIAVGDVEALLPRREQVPGERFRHGERVRVYVVSVNKGL 178

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
           +GP++++SR+HP+ + +LF  EVPE+  G VQ+ +++R+ G R K+AV ++   ++P G+
Sbjct: 179 KGPEIIVSRSHPELIRRLFEREVPELVTGAVQIMSIAREAGERTKIAVRANAQGVNPKGS 238

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEV-IV 312
            +G  G RV+AV+  L +EKIDIV WS D A FV  AL PA   KV +  +  +  V ++
Sbjct: 239 LIGPAGQRVRAVMENLGNEKIDIVDWSEDPAKFVSAALSPAHAVKVSVVSERNKTAVALI 298

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
             +QLSLAIG+ GQN RLA++LTGW I I + E
Sbjct: 299 HDDQLSLAIGKEGQNARLAAKLTGWKIGIESYE 331


>gi|300780963|ref|ZP_07090817.1| transcription termination factor NusA [Corynebacterium genitalium
           ATCC 33030]
 gi|300532670|gb|EFK53731.1| transcription termination factor NusA [Corynebacterium genitalium
           ATCC 33030]
          Length = 341

 Score =  185 bits (469), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 106/253 (41%), Positives = 156/253 (61%), Gaps = 9/253 (3%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR----VEYGNVIVDL 158
           P++F RV  Q+ +  I++++R A  +R Y  + +  G+++SG V+R     E G V+V L
Sbjct: 84  PVNFSRVGAQAVRDAILKRMRTAADNRAYSAYSELEGQVVSGVVQRDASANERGIVVVQL 143

Query: 159 GN----SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHM 214
           G      DG++   E I  E L  GDRVK Y+  V    R   V LSRTHP+ +  LF +
Sbjct: 144 GTESDPQDGILLPAEQIPGEKLEHGDRVKCYVVGVSGGDRRTTVNLSRTHPELVRGLFAL 203

Query: 215 EVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKI 274
           EVPE+ +G V++ A++R+ G R+K+AV      I+  GAC+G RG+RV  ++  L  EKI
Sbjct: 204 EVPEVADGSVEIVAIAREAGHRSKVAVKGVAKGINAKGACIGPRGARVTNIMESLGGEKI 263

Query: 275 DIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI-EVIVPKEQLSLAIGRRGQNVRLASQ 333
           DIV +S D A +V N+L P+ V +V + +   +   V+VP  QLSLAIGR GQN RLA++
Sbjct: 264 DIVDYSDDPAVYVGNSLAPSKVVRVDVVDHDAQTARVVVPDYQLSLAIGREGQNARLAAR 323

Query: 334 LTGWTIDIITEEE 346
           LTGW IDI ++ +
Sbjct: 324 LTGWKIDIHSDAD 336


>gi|68536221|ref|YP_250926.1| transcription elongation factor NusA [Corynebacterium jeikeium
           K411]
 gi|68263820|emb|CAI37308.1| N utilization substance protein A [Corynebacterium jeikeium K411]
          Length = 337

 Score =  185 bits (469), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 125/340 (36%), Positives = 190/340 (55%), Gaps = 32/340 (9%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           AV  ++S+D D +L  +   +++A R+       + V+I+P +G+++++++         
Sbjct: 10  AVEKQESVDFDDLLEGVKRGLREAYRAKSHFTGPVDVDIDPISGEVTIYQV--------- 60

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGR---VAVQSAKQVIIQKVREAERDRQY 131
                      ++D   ++ G + D   P +FGR   +AV+ A +  I   R   R  +Y
Sbjct: 61  -----------EKDEEGNVTGRIDDT--PKNFGRDGALAVREAIRFRINSARVQNRYDEY 107

Query: 132 LEFKDKV-GEIISGTVKRVEYGNVIVDLGN----SDGVIRRDETISRENLRPGDRVKSYI 186
            E + +V   ++S   +  E G  IV LG      DG I   E I  E L  G RVK+++
Sbjct: 108 AELRYRVVSGVVSADARANERGVTIVHLGTEANGQDGQILPAEHIPGEELEHGMRVKAFV 167

Query: 187 YDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
            DV     R  Q+ LSRTHP+ +  LF +EVPE+ +G V++ +V+R+ G R K+AV S+ 
Sbjct: 168 TDVINNANRMVQINLSRTHPELVKGLFSLEVPEVADGSVEIVSVAREAGHRTKIAVRSTV 227

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
             ++  GAC+G RG RV  ++ EL  EKIDI+ +S D ATFV NAL P+ V  V V D +
Sbjct: 228 KGLNAKGACIGPRGQRVSNIMQELGGEKIDIIDYSDDPATFVGNALSPSKVVSVKVTDPE 287

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           +     +VP  QLSLAIGR GQN RLA++LTGW IDI +E
Sbjct: 288 MQIARAVVPDYQLSLAIGREGQNARLAARLTGWKIDIRSE 327


>gi|47093946|ref|ZP_00231683.1| N utilization substance protein A [Listeria monocytogenes str. 4b
           H7858]
 gi|47017684|gb|EAL08480.1| N utilization substance protein A [Listeria monocytogenes str. 4b
           H7858]
          Length = 248

 Score =  184 bits (468), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 91/245 (37%), Positives = 155/245 (63%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     + ++K I R+V++  +  ++  A +  +    ++RV++N E G I +    E
Sbjct: 4   ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VE+V +   +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  AVEQVFDSRLEISMEEAHKLNPVYKPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y+ 
Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++++  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTANEE 243

Query: 248 IDPVG 252
           +DPVG
Sbjct: 244 VDPVG 248


>gi|159027908|emb|CAO89715.1| unnamed protein product [Microcystis aeruginosa PCC 7806]
          Length = 398

 Score =  184 bits (468), Expect = 3e-44,   Method: Compositional matrix adjust.
 Identities = 130/327 (39%), Positives = 188/327 (57%), Gaps = 17/327 (5%)

Query: 32  ADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSI 91
           + S++KAA+      ++  VE++ E     +     +VEEV N    I LK  ++     
Sbjct: 45  SQSLEKAAQFHEDYFNNFDVELDVEEEGFRILSTKTIVEEVTNPDHHIGLKEVQEVADEA 104

Query: 92  DIGG-VVSDPLPPM-DFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV 149
            +G  VV D  P   +FGR+A    KQV++QK+R+ +R     EF+D  G ++   V R 
Sbjct: 105 QLGDEVVLDVTPDQREFGRMAAIQTKQVLLQKLRDNQRKLIQEEFQDLEGTVLQARVVRF 164

Query: 150 EYGNVIVDLGNSDGV------IRRDETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSR 202
           E    IV + ++ G       + + E +  +N R     K  +  V    QRGPQ+++SR
Sbjct: 165 ERQAAIVMVQSTYGQPEVEAELPKREQLPNDNYRANATFKVLLKKVLEGSQRGPQLIVSR 224

Query: 203 THPQFMVKLFHMEVPEIYNGIVQVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACV 255
                +V LF  EVPEI   IV++ AV+R+        GSR K+AV + +  +DPVGAC+
Sbjct: 225 AAAGLVVYLFANEVPEIEEEIVRIVAVAREANPPSRHVGSRTKIAVDTLERDVDPVGACI 284

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIE-VIVPK 314
           G RGSR+QAVV ELR EKID++ WSPD AT++ NAL PA + +V+      R   V+V +
Sbjct: 285 GARGSRIQAVVNELRGEKIDVIRWSPDPATYIANALSPARIDQVLFTNAEERQALVLVAQ 344

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 345 DQLSLAIGKEGQNVRLAARLTGWKIDI 371


>gi|307155148|ref|YP_003890532.1| NusA antitermination factor [Cyanothece sp. PCC 7822]
 gi|306985376|gb|ADN17257.1| NusA antitermination factor [Cyanothece sp. PCC 7822]
          Length = 396

 Score =  184 bits (466), Expect = 4e-44,   Method: Compositional matrix adjust.
 Identities = 126/308 (40%), Positives = 183/308 (59%), Gaps = 17/308 (5%)

Query: 51  VEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGG-VVSDPLPPM-DFGR 108
           VE++ E     +    ++VE V N    ISL+  +       +G  VV D  P   +FGR
Sbjct: 63  VELDTEEEGFRILSTKKIVESVTNSDHHISLEEVQAVVSEAQLGDEVVLDVTPDQKEFGR 122

Query: 109 VAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV---- 164
           +A    KQV++QK+R+ +R     EF+D  G +++  V R E   VI+ + ++ G     
Sbjct: 123 MAAIQTKQVLLQKLRDQQRKLIQEEFQDVEGTVLNARVLRFERQAVIMAVQSTFGQPEVE 182

Query: 165 --IRRDETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
             + + E +  +N R     K  +  VR    RGPQ+++SR     +V LF  EVPEI  
Sbjct: 183 AELPKREQLPNDNYRANATFKVLLKKVREGSHRGPQLIVSRAAAGLVVYLFANEVPEIEE 242

Query: 222 GIVQVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKI 274
            +V++ AVSR+        GSR K+AV + +  +DPVGAC+G RGSR+QAVV ELR EKI
Sbjct: 243 EVVRIVAVSREANPPSRYVGSRTKIAVDTLERDVDPVGACIGARGSRIQAVVNELRGEKI 302

Query: 275 DIVVWSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQ 333
           D++ WSPD AT++ NAL PA V +V+L + D  +  ++V ++QLSLAIG+ GQNVRLA++
Sbjct: 303 DVIRWSPDPATYIANALSPARVDEVILTNPDERQALILVAEDQLSLAIGKEGQNVRLAAR 362

Query: 334 LTGWTIDI 341
           LTGW IDI
Sbjct: 363 LTGWKIDI 370


>gi|166364176|ref|YP_001656449.1| transcription elongation factor NusA [Microcystis aeruginosa
           NIES-843]
 gi|166086549|dbj|BAG01257.1| transcription termination factor [Microcystis aeruginosa NIES-843]
          Length = 398

 Score =  184 bits (466), Expect = 4e-44,   Method: Compositional matrix adjust.
 Identities = 130/327 (39%), Positives = 187/327 (57%), Gaps = 17/327 (5%)

Query: 32  ADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSI 91
           A S++KAA+      ++  VE++ E     +     +VEEV N    I LK  ++     
Sbjct: 45  AQSLEKAAQFHEDYFNNFDVELDVEEEGFRILSTKTIVEEVTNPDHHIGLKEVQEVADEA 104

Query: 92  DIGG-VVSDPLPPM-DFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV 149
            +G  VV D  P   +FGR+A    KQV++QK+R+ +R     EF+D  G ++   V R 
Sbjct: 105 QLGDEVVLDVTPDQKEFGRMAAIQTKQVLLQKLRDNQRKLIQEEFQDLEGTVLQARVVRF 164

Query: 150 EYGNVIVDLGNSDGV------IRRDETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSR 202
           E    IV + ++ G       + + E +  +N R     K  +  V     RGPQ+++SR
Sbjct: 165 ERQAAIVMVQSTYGQPEVEAELPKREQLPNDNYRANATFKVLLKKVLEGSHRGPQLIVSR 224

Query: 203 THPQFMVKLFHMEVPEIYNGIVQVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACV 255
                +V LF  EVPEI   IV++ AV+R+        GSR K+AV + +  +DPVGAC+
Sbjct: 225 AAAGLVVYLFANEVPEIEEEIVRIVAVAREANPPSRHVGSRTKIAVDTLERDVDPVGACI 284

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIE-VIVPK 314
           G RGSR+QAVV ELR EKID++ WSPD AT++ NAL PA + +V+      R   V+V +
Sbjct: 285 GARGSRIQAVVNELRGEKIDVIRWSPDPATYIANALSPARIDQVLFTNAEERQALVLVAQ 344

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 345 DQLSLAIGKEGQNVRLAARLTGWKIDI 371


>gi|218439319|ref|YP_002377648.1| transcription elongation factor NusA [Cyanothece sp. PCC 7424]
 gi|218172047|gb|ACK70780.1| NusA antitermination factor [Cyanothece sp. PCC 7424]
          Length = 405

 Score =  184 bits (466), Expect = 5e-44,   Method: Compositional matrix adjust.
 Identities = 126/308 (40%), Positives = 183/308 (59%), Gaps = 17/308 (5%)

Query: 51  VEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGG-VVSDPLPPM-DFGR 108
           VE++ E     +    ++VE V N    ISLK  ++      +G  VV D  P   +FGR
Sbjct: 63  VELDTEEEGFRILSTKKIVEAVSNTDHHISLKEVQEVVSEAQLGDEVVLDVTPDQKEFGR 122

Query: 109 VAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV---- 164
           +A    KQV++QK+R+ +R     EF+D    +++  V R E   VI+ + ++ G     
Sbjct: 123 MAAIQTKQVLLQKLRDQQRKLIQEEFQDLESTVLTARVLRFERQAVIMAVQSAFGQPEVE 182

Query: 165 --IRRDETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
             + + E +  +N R     K  +  VR    RGPQ+++SR     +V LF  EVPEI  
Sbjct: 183 AELPKREQLPNDNYRANATFKVLLKKVREGSHRGPQLIVSRAAAGLVVYLFANEVPEIEE 242

Query: 222 GIVQVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKI 274
            +V++ AVSR+        GSR K+AV + +  +DPVGAC+G RGSR+QAVV ELR EKI
Sbjct: 243 EVVRIVAVSREANPPSRYVGSRTKIAVDTLERDVDPVGACIGARGSRIQAVVNELRGEKI 302

Query: 275 DIVVWSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQ 333
           D++ WSPD +T++ NAL PA V +V+L + D  +  V+V ++QLSLAIG+ GQNVRLA++
Sbjct: 303 DVIRWSPDPSTYIANALSPARVDEVILTNPDERQALVLVAEDQLSLAIGKEGQNVRLAAR 362

Query: 334 LTGWTIDI 341
           LTGW IDI
Sbjct: 363 LTGWKIDI 370


>gi|289809601|ref|ZP_06540230.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. AG3]
          Length = 258

 Score =  183 bits (465), Expect = 5e-44,   Method: Compositional matrix adjust.
 Identities = 98/242 (40%), Positives = 151/242 (62%), Gaps = 3/242 (1%)

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+D
Sbjct: 3   TNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVD 62

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V    L+ AIGR GQNV LASQL+GW ++++T ++     Q + +   + F
Sbjct: 63  EDKHTMDIAVEAGNLAQAIGRNGQNVHLASQLSGWELNVMTVDDLQAKHQAEAHAAIEIF 122

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
            + +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  +  
Sbjct: 123 TKYLDIDEEFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALATLAQ 182

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGG 479
             +  + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL    G ++ K G
Sbjct: 183 DQEASLGDNKPADDLLNLEGLDRDMAFKLAARGVCTLEDLADQGIDDLADIEGLTDEKAG 242

Query: 480 NI 481
            +
Sbjct: 243 EL 244


>gi|172040528|ref|YP_001800242.1| transcription elongation factor NusA [Corynebacterium urealyticum
           DSM 7109]
 gi|171851832|emb|CAQ04808.1| N utilization substance protein A [Corynebacterium urealyticum DSM
           7109]
          Length = 332

 Score =  183 bits (464), Expect = 8e-44,   Method: Compositional matrix adjust.
 Identities = 115/342 (33%), Positives = 193/342 (56%), Gaps = 32/342 (9%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  ++ +  D ++  +A+ +++A R+      ++ V+I+P +G ++++++         
Sbjct: 10  AIERQEGVPVDELIHAIANGLKEAYRNQSAFAGEVDVQIDPTSGAVAIYQV--------- 60

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                      +RD   ++ G + +   P +F R    + ++ I +++  A   ++Y E+
Sbjct: 61  -----------ERDEEGNVTGRLDET--PENFDRTTALAMREAIRRRIGGARVQQRYDEY 107

Query: 135 KDKVGEIISGTVKR----VEYGNVIVDLGNS----DGVIRRDETISRENLRPGDRVKSYI 186
                 I+SG V R     E G  +V +G      DG I   E I  E L+ G RVK+++
Sbjct: 108 SSIRHTIVSGVVTRDARANERGITVVHIGTEADGIDGQILPAEHIPGEVLKHGTRVKAFV 167

Query: 187 YDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
            DV +   R  Q+ LSRTHP+ +  LF +EVPE+ +G V++ +++R+ G R K+AV ++ 
Sbjct: 168 TDVIKHADRNVQISLSRTHPELVRGLFELEVPEVADGSVEIMSIAREAGHRTKIAVRATI 227

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA-IVTKVVLDED 304
             ++  GAC+G RG RV A++ EL  EKIDI+ +S D A +V NAL P+  V+  V+D +
Sbjct: 228 KGLNAKGACIGPRGQRVSAIMAELGGEKIDIIDYSDDPAQYVGNALSPSKYVSSTVIDAE 287

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
                V+VP  QLSLAIGR GQNVRLA++LT W IDI ++ E
Sbjct: 288 QQIARVVVPDYQLSLAIGREGQNVRLAARLTCWKIDIKSDAE 329


>gi|22299480|ref|NP_682727.1| transcription elongation factor NusA [Thermosynechococcus elongatus
           BP-1]
 gi|22295663|dbj|BAC09489.1| transcription termination-antitermination factor
           [Thermosynechococcus elongatus BP-1]
          Length = 395

 Score =  182 bits (463), Expect = 8e-44,   Method: Compositional matrix adjust.
 Identities = 123/338 (36%), Positives = 189/338 (55%), Gaps = 23/338 (6%)

Query: 46  MSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPP-- 103
            ++  VE++ E     +     + E VEN   +I+L    +      +G  V   + P  
Sbjct: 58  FANFEVELDTEQEGFRILATKTIKETVENPDREIALADVIEVVQDARVGDTVLLDVTPDH 117

Query: 104 MDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS-- 161
            +FGR+A    KQV+ QK+R+ +R     EFK+  G ++ G V R E  +VI+ + +   
Sbjct: 118 QEFGRMAAMQTKQVLAQKLRDQQRRLIQEEFKELEGTVLLGRVLRFERQSVIMAVRSDAS 177

Query: 162 ----DGVIRRDETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEV 216
               +  + + E +  +N R     K Y+  V+   QRGPQ+ +SR     +V LF  EV
Sbjct: 178 QPEVEAELPKWEQLPNDNYRANSTFKVYLKRVKEGPQRGPQLEVSRADAGLVVYLFANEV 237

Query: 217 PEIYNGIVQVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTEL 269
           PEI + +V++ A++R+        G R K+AV + +  +DPVGAC+G RGSR+QAVV EL
Sbjct: 238 PEIEDEVVRIVAIAREANPPNHKVGPRTKIAVDTLERDVDPVGACIGARGSRIQAVVNEL 297

Query: 270 RDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI-EVIVPKEQLSLAIGRRGQNV 328
           R EKID++ WSPD AT++ N+L PA V +V L     RI  V+V  +++S AIG+ GQNV
Sbjct: 298 RGEKIDVIRWSPDPATYIANSLSPAPVEEVRLINPEARIAHVLVAPDKVSQAIGKEGQNV 357

Query: 329 RLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
           RLA++LTGW I++     DS   Q ++ E  +  M A+
Sbjct: 358 RLATRLTGWKIEV----RDS--SQYNYEEEDRLAMAAL 389


>gi|28493123|ref|NP_787284.1| transcription elongation factor NusA [Tropheryma whipplei str.
           Twist]
 gi|28572761|ref|NP_789541.1| transcription elongation factor NusA [Tropheryma whipplei TW08/27]
 gi|28410894|emb|CAD67279.1| N utilization transcriptional termination/antitermination factor
           [Tropheryma whipplei TW08/27]
 gi|28476163|gb|AAO44253.1| N utilization substance protein A [Tropheryma whipplei str. Twist]
          Length = 319

 Score =  180 bits (457), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 106/249 (42%), Positives = 147/249 (59%), Gaps = 3/249 (1%)

Query: 100 PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNV-IVDL 158
           P     F R+A  +AK+VI  K+R    D  +  +K K+G ++SG + +    N  +V L
Sbjct: 71  PYKSDAFSRMAATAAKRVITSKMRTLSDDSTFARYKTKIGTVLSGVISQSTSQNFRMVSL 130

Query: 159 GN-SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVP 217
              ++ ++R +E I  E    G  VK Y+ DV    RG  V +SRTHP  +  LF  EVP
Sbjct: 131 DRRTEAILRPEEQIPGEEYPHGKMVKVYVTDVTLGPRGSNVYVSRTHPGLINGLFLQEVP 190

Query: 218 EIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIV 277
           EI +G V++ AVSR+ G R K++V S+  S   VGACVG  G RV+AV +E+ +EKIDI+
Sbjct: 191 EIASGTVEIVAVSREAGHRTKVSVRSNSKSTSAVGACVGEYGCRVRAVTSEICNEKIDII 250

Query: 278 VWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTG 336
            +S D   +V NA+ PA    V VLD     + V V KE+ SLAIG+ GQN RLA++LTG
Sbjct: 251 SYSDDLGQYVANAISPATAADVFVLDSRQKVVRVYVSKEEYSLAIGKEGQNARLAARLTG 310

Query: 337 WTIDIITEE 345
             IDI  +E
Sbjct: 311 AKIDIRIDE 319


>gi|255024911|ref|ZP_05296897.1| transcription elongation factor NusA [Listeria monocytogenes FSL
           J1-208]
          Length = 180

 Score =  178 bits (452), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 83/180 (46%), Positives = 127/180 (70%)

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAER   Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR
Sbjct: 1   VREAERGIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDR 60

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V
Sbjct: 61  IKVYLTKVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISV 120

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           ++++  +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V++
Sbjct: 121 YTANEEVDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIV 180


>gi|269123542|ref|YP_003306119.1| NusA antitermination factor [Streptobacillus moniliformis DSM
           12112]
 gi|268314868|gb|ACZ01242.1| NusA antitermination factor [Streptobacillus moniliformis DSM
           12112]
          Length = 362

 Score =  176 bits (447), Expect = 6e-42,   Method: Compositional matrix adjust.
 Identities = 112/349 (32%), Positives = 194/349 (55%), Gaps = 10/349 (2%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M S ++   L   + +  EK I +  +L  +   +  A +  +    ++ +EI+  TGD+
Sbjct: 1   MKSKDKATFLDAIEELEKEKGIQKGDLLERLKTGLLAAYKKDFNDQENLEIEIDQITGDV 60

Query: 61  SLFRLLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQV 117
            +F    ++++   V N T +I    A++    I +G  +   L   +F R A+Q AK +
Sbjct: 61  KMFCEKLIIDDEVKVYNETTEIPFSKAKNHRKRIKVGDYLKIELNADEFNRNAIQRAKSI 120

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENL 176
           IIQ +RE E++    +      +I++  V+R+E  G++ V +   D +I + E  S + +
Sbjct: 121 IIQYIREQEKELICKQLTAIEHQIVNVIVRRIEENGSLYVGMNGLDLIIPQRELSSLDKV 180

Query: 177 RPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
           + GDR+ +YI  V    R P+V ++R   + + KLF  EVPEI +GI+ +K ++R+ G +
Sbjct: 181 QVGDRLVAYIRSVDTNGRFPKVDITRIDDKLIHKLFEREVPEIASGIIVIKNIAREVGVK 240

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           AK+A++S D +ID  G+C+G  G R+  ++ EL  EKI++V W+ D   FV NAL PA +
Sbjct: 241 AKVAIYSEDPNIDLKGSCIGKDGVRINNIINELNGEKIELVEWNADQRIFVKNALYPAEI 300

Query: 297 TKVVL----DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             V +    DE V ++E  V   QL+LAIG++G N +LA +L    ++I
Sbjct: 301 FSVEIVRNEDEIVAKVE--VDPSQLTLAIGKKGVNSKLAGKLCKLRVNI 347


>gi|194246707|ref|YP_002004346.1| transcription elongation factor NusA [Candidatus Phytoplasma mali]
 gi|193807064|emb|CAP18500.1| Transcription termination factor [Candidatus Phytoplasma mali]
          Length = 358

 Score =  176 bits (447), Expect = 6e-42,   Method: Compositional matrix adjust.
 Identities = 97/347 (27%), Positives = 191/347 (55%), Gaps = 9/347 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  +   I    A E  + ++ +      ++    R  +   S  +V+I  +  +I+L++
Sbjct: 2   NSKDFFNIISEFAEENELTKEQIKDAFTKALIYGCRKAHKIKS-CKVDIKEDRNEINLYK 60

Query: 65  LLEVVEEVENY------TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
              +++  E Y         I L+ A+     + +G +++    P DF   AV+  K   
Sbjct: 61  QYYIIDPEEQYLNNYKDYTHIDLEEAKKIKKRVKVGQIINIKTNPKDFNLYAVKDFKNKF 120

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS-DGVIRRDETISRENLR 177
            +++ + +R+  Y  FK   G++I+  V         ++L      ++ + ET+++E   
Sbjct: 121 KEELTKQKRENIYDYFKSYEGKLINAKVIGSNSKFYYLELEKEMTTLLPKKETLNKEIFA 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            GDR++ YI +V++  + P++ +S+TH   + K+F   +PEI +G +++  ++R PG R 
Sbjct: 181 EGDRIRVYIVEVQKTTKLPRIFVSQTHIGLVTKIFEDWIPEINDGTLKIMMIARIPGERT 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+ +FS++  +DP+G+C+G  G+R+++++  L+ EKID+ +WS  +   + N+L+PA + 
Sbjct: 241 KIGLFSNNPQVDPIGSCIGKNGNRIKSIIKLLQGEKIDLFLWSEKNEELISNSLQPAKIF 300

Query: 298 KV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           +V + + +  +  VIV  +QLSLAIG+ G+NV+LA+Q T W IDI T
Sbjct: 301 QVNIKNLENKKALVIVEDDQLSLAIGKLGKNVKLAAQATKWNIDIKT 347


>gi|260578921|ref|ZP_05846824.1| N utilization substance protein A [Corynebacterium jeikeium ATCC
           43734]
 gi|258602895|gb|EEW16169.1| N utilization substance protein A [Corynebacterium jeikeium ATCC
           43734]
          Length = 292

 Score =  176 bits (446), Expect = 8e-42,   Method: Compositional matrix adjust.
 Identities = 110/252 (43%), Positives = 151/252 (59%), Gaps = 10/252 (3%)

Query: 103 PMDFGR---VAVQSAKQVIIQKVREAERDRQYLEFKDKV-GEIISGTVKRVEYGNVIVDL 158
           P +FGR   +AV+ A +  I+  R   R  +Y E + +V   ++S   +  E G  IV L
Sbjct: 31  PKNFGRDGALAVREAIRFRIKSARVQNRYDEYAELRYRVVSGVVSADARANERGVTIVHL 90

Query: 159 GN----SDGVIRRDETISRENLRPGDRVKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFH 213
           G      DG I   E I  E L  G RVK+++ DV     R  Q+ LSRTHP+ +  LF 
Sbjct: 91  GTEANGQDGQILPAEHIPGEELEHGMRVKAFVTDVINNANRMVQINLSRTHPELVKGLFA 150

Query: 214 MEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEK 273
           +EVPE+ +G V++ +V+R+ G R K+AV S+   ++  GAC+G RG RV  ++ EL  EK
Sbjct: 151 LEVPEVADGSVEIVSVAREAGHRTKIAVRSTVKGLNAKGACIGPRGQRVSNIMQELGGEK 210

Query: 274 IDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLAS 332
           IDI+ +S D ATFV NAL P+ V  V V D ++     +VP  QLSLAIGR GQN RLA+
Sbjct: 211 IDIIDYSDDPATFVGNALSPSKVVSVKVTDPEMQIARAVVPDYQLSLAIGREGQNARLAA 270

Query: 333 QLTGWTIDIITE 344
           +LTGW IDI +E
Sbjct: 271 RLTGWKIDIRSE 282


>gi|152993777|ref|YP_001359498.1| transcription elongation factor NusA [Sulfurovum sp. NBC37-1]
 gi|151425638|dbj|BAF73141.1| transcription termination factor NusA [Sulfurovum sp. NBC37-1]
          Length = 387

 Score =  176 bits (446), Expect = 9e-42,   Method: Compositional matrix adjust.
 Identities = 111/353 (31%), Positives = 197/353 (55%), Gaps = 20/353 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L I DA+A+EK+I R+  L    +++   A+ L    S+  V I+ +T   S+ +++ 
Sbjct: 3   KILDIIDAIAHEKNISREHALEAFKEALVNTAKKLTSFTSNFEVTIDNDTKTYSVQKVIT 62

Query: 68  VV----------------EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAV 111
           +V                +E+      + L  A++ D S++IG  +++     D+GR A 
Sbjct: 63  IVADDDEQLFVEVGKEDNKEMIPSDAVMPLSEAKEFDESLEIGDKLTEEFVLEDYGRTAS 122

Query: 112 QSA-KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDE 169
            +  +++     R  E+D  + ++++KVG ++ GTV R++   N  V++G   G++    
Sbjct: 123 ANLFRELEYHIQRRIEQDL-FEKYREKVGTVMLGTVNRIDADDNTHVEIGELKGILTLRN 181

Query: 170 TISRENLRPGDRVKSYIYDVRRE-QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKA 228
            I  E  + GD +++ +  V  + Q G  + L+RT P+F+  L   EVPEI +G+V++  
Sbjct: 182 RIKGEKFKRGDTIRALLRYVSVDPQYGLFLELTRTSPKFLEALMASEVPEIADGVVEIVN 241

Query: 229 VSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVI 288
            +R PG RAK+A+ +   ++DP+GA VG++G R+ AV  EL  E ID + +SP    F+ 
Sbjct: 242 AARIPGERAKIALKTEQMNVDPIGAAVGVKGVRINAVSEELNGENIDCIEYSPIPEIFIT 301

Query: 289 NALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            AL PAI   + +D+D  +  V +  +Q + AIG+ G N+RLAS LTG+TI++
Sbjct: 302 RALSPAITQSIKVDQDEKKAVVNITGDQKAKAIGKSGINIRLASMLTGYTIEL 354


>gi|87042917|gb|ABD16468.1| NusA [Paulownia witches'-broom phytoplasma]
          Length = 319

 Score =  175 bits (444), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 94/301 (31%), Positives = 174/301 (57%), Gaps = 10/301 (3%)

Query: 50  RVEINPETGDISLFRLLEVVEEVENYTCQ------ISLKVARDRDPSIDIGGVVSDPLPP 103
           ++E+  +  +I L++   V +E    T        I+L+ A+   P   IG V+   + P
Sbjct: 19  KIELKEDKSEIILYKQFLVADEATMSTINLKESTPITLEEAQQIKPHAKIGQVIDIKVDP 78

Query: 104 MDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV--KRVEYGNVIVDLGNS 161
            DF   AV+  K    +++ + +R+  Y  FK + G++IS  +  +  ++ N+ ++    
Sbjct: 79  KDFNLYAVKELKNQFNEELTKKKRENIYNFFKQQEGKLISAKIISENDKFYNLELE-KEI 137

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
             ++ + E  S   ++ G+R++ ++ +VR+  + P++ +S  H   +VK+    +PEI  
Sbjct: 138 TTLLPKKEIASNNEMQVGERIQVFLSEVRKTTKWPKIFVSCNHVGLVVKVLEENIPEIQE 197

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           GIV++  V+R  G R K+ + S D+ +D +G+C+G R +R++ V+  L+DEK+D+ VWS 
Sbjct: 198 GIVKIAGVARISGERTKIGLLSCDAQVDAIGSCIGERSNRIKNVIKILKDEKVDLFVWSD 257

Query: 282 DSATFVINALRPAIVTKVVLDEDVGRIEV-IVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D    + NAL+PA   +VV+ +D+ +  + IVP +Q SLAIG+ G+NV+LA ++T W ID
Sbjct: 258 DPQELIANALKPASCLQVVIKDDINKYALAIVPDDQFSLAIGKLGKNVKLAVEVTKWNID 317

Query: 341 I 341
           I
Sbjct: 318 I 318


>gi|332707468|ref|ZP_08427516.1| NusA antitermination factor [Lyngbya majuscula 3L]
 gi|332353765|gb|EGJ33257.1| NusA antitermination factor [Lyngbya majuscula 3L]
          Length = 369

 Score =  175 bits (443), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 115/285 (40%), Positives = 168/285 (58%), Gaps = 20/285 (7%)

Query: 63  FRLLE---VVEEVENYTCQISLKVARDRDPSIDIG-GVVSDPLPPM-DFGRVAVQSAKQV 117
           FR+L    +VEEV+N   QISLK  ++      +G  VV D  P   +FGR+A    KQV
Sbjct: 73  FRVLSTKTIVEEVQNSDHQISLKEVQEVASEAQLGDSVVLDVTPDQGEFGRMAAIQTKQV 132

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV------IRRDETI 171
           + QK+R+ +R     EF+D  G ++     R E  +VI+ L +  G       + + E +
Sbjct: 133 LSQKLRDQQRKLIKEEFQDLEGTVLQSRSLRFEQQSVIMALSSGFGRPEVEAELPKREQL 192

Query: 172 SRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVS 230
             +N R     K Y+  VR    RGPQ+++SR     +V LF  EVPEI + +V++ AV+
Sbjct: 193 PNDNYRINSTFKVYLKKVREGPHRGPQLVVSRAAAGLVVDLFSNEVPEIDDEVVRIVAVA 252

Query: 231 RDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDS 283
           R+        G R K+AV + +  +DPVGAC+G RGSR+Q VV ELR EKID++ WSPD 
Sbjct: 253 REANPPSRHVGPRTKIAVDTLERDVDPVGACIGARGSRIQVVVNELRGEKIDVIRWSPDP 312

Query: 284 ATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQN 327
           +T++ NAL PA V +V+L + +  +  V+V ++QLSLAIG+ GQN
Sbjct: 313 STYIANALSPAQVDQVLLVNPEERQAHVLVAEDQLSLAIGKEGQN 357


>gi|255323481|ref|ZP_05364612.1| transcription termination factor NusA [Campylobacter showae RM3277]
 gi|255299518|gb|EET78804.1| transcription termination factor NusA [Campylobacter showae RM3277]
          Length = 366

 Score =  175 bits (443), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 111/337 (32%), Positives = 189/337 (56%), Gaps = 8/337 (2%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           I +++A EK ++ + V   +  +I   A+ +YG   +    I+  T  + L++ + VVE+
Sbjct: 7   IIESIANEKGLEIEDVKERVIRAIINTAKKIYGENYEYDAVIDNATKTLHLYQKITVVED 66

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                 E+    +S+  A+  D  ++IG  ++  L   + GR A Q+  + +   ++   
Sbjct: 67  GDERLAEDNEHFLSISEAKKVDSGVEIGDELTYELSTDNLGRTAAQTLHKELEYHIQRLM 126

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            ++ + +++D VG ++ G+V RV+   N  +++     V+ R   I  E  +PGD VK+ 
Sbjct: 127 EEKIFQKYQDMVGHMVFGSVTRVDSDENTFIEIDELRAVMPRKNRIKGEKFKPGDVVKAV 186

Query: 186 IYDVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           I  V  ++  G +V LSRT P+F+  L   EVPEI +G+V + A +R PG RAK+A+ ++
Sbjct: 187 IKSVYIDKSMGIKVELSRTSPKFLEALLKAEVPEIKDGLVLIAASARIPGERAKVALVAT 246

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
             ++DPVGA VG +G R+ AV  EL  E ID + +S + A  +  A+ PAI++ V + ED
Sbjct: 247 SPNVDPVGATVGTKGVRINAVTKELNGENIDAIEYSAEPAILITRAMAPAIISSVKIGED 306

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
              +  +V  EQ S AIG+ G N+RLAS LTG  I++
Sbjct: 307 NKAVVSLVT-EQKSKAIGKSGINIRLASMLTGHEIEL 342


>gi|118475774|ref|YP_892520.1| transcription elongation factor NusA [Campylobacter fetus subsp.
           fetus 82-40]
 gi|118415000|gb|ABK83420.1| transcription termination factor NusA [Campylobacter fetus subsp.
           fetus 82-40]
          Length = 365

 Score =  174 bits (441), Expect = 4e-41,   Method: Compositional matrix adjust.
 Identities = 118/333 (35%), Positives = 188/333 (56%), Gaps = 7/333 (2%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           I +++A EK ++ + V   +  +   AA+ LYG   +    ++P T  I L++ + VVE+
Sbjct: 7   IIESIANEKGLNFEDVKERIIRAFVNAAKRLYGYECEYEASLDPNTKAIHLYQKILVVED 66

Query: 72  VENYTCQ---ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
            +    +   ISLK A + D +++IG  ++  L   + GR       + I   ++    +
Sbjct: 67  SDERLDEEHFISLKKAHELDATLEIGDSLNYELNIDELGRTGAGVLSREIEYHIQRLIEE 126

Query: 129 RQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           + Y ++  K+  ++ GTV RV+   N  V++     V+     I  E  + G+ VK+ I 
Sbjct: 127 KIYEKYNSKINTLVFGTVTRVDAEENTFVEIDEIRAVMSMKNRIKNEKFKVGNVVKAVIK 186

Query: 188 DVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            VR +++ G +V LSRT P+F+  L   EVPEI +G V ++  +R PG +AK+A+FS+  
Sbjct: 187 SVRLDKKDGIKVELSRTSPKFLEALLKAEVPEIKDGGVIIQNSARIPGKKAKIALFSTTP 246

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           +ID VGA VG++G R+ AV +EL  E ID + +S + A FV  AL PAIV+ V +D D  
Sbjct: 247 NIDAVGATVGIKGVRINAVSSELNGENIDAIEYSSEPAIFVARALAPAIVSSVKID-DKK 305

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
            I  +VP EQ S AIG  G N+RLAS L+G+ I
Sbjct: 306 AIVSLVP-EQKSKAIGVSGINIRLASMLSGFEI 337


>gi|254373566|ref|ZP_04989053.1| hypothetical protein FTCG_01522 [Francisella tularensis subsp.
           novicida GA99-3549]
 gi|151571291|gb|EDN36945.1| hypothetical protein FTCG_01522 [Francisella novicida GA99-3549]
          Length = 344

 Score =  173 bits (439), Expect = 5e-41,   Method: Compositional matrix adjust.
 Identities = 96/251 (38%), Positives = 157/251 (62%), Gaps = 13/251 (5%)

Query: 224 VQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDS 283
           + +  V R+PG R+K+ V S+D  IDP GACVG+RGSR+ ++++EL  EK+D+++W+ D 
Sbjct: 81  INIVNVVREPGFRSKVTVKSNDQRIDPCGACVGVRGSRIHSIMSELNGEKVDVILWNEDM 140

Query: 284 ATFVINALRP---AIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
             + IN+L P   A + +V +DE+   ++++V +E LS AIG+ G NVRLAS L GW I+
Sbjct: 141 VQYAINSLSPVDAADILEVNVDEETNSMDIVVKQESLSKAIGKNGVNVRLASSLIGWKIN 200

Query: 341 IITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEG 400
           ++++ E    +Q    E+   F++A+++D   A +L+ EG   +E+LA +  +E+  IEG
Sbjct: 201 VLSDAEQE-EKQMSIVEK---FVEALDIDHDFALVLIEEGIETLEDLAYLDRAELLEIEG 256

Query: 401 FDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTME 460
           FDEE   E+Q RA+       + L + +     +++L  + G+   +   L +N I TME
Sbjct: 257 FDEEIVDELQERAKA------VILSQALGGKKPAQDLLDMQGMSLDLAEQLAQNNIVTME 310

Query: 461 DLAGCSVDDLL 471
           DLA  SVD+LL
Sbjct: 311 DLAELSVDELL 321


>gi|223040803|ref|ZP_03611069.1| transcription termination factor NusA [Campylobacter rectus RM3267]
 gi|222877902|gb|EEF13017.1| transcription termination factor NusA [Campylobacter rectus RM3267]
          Length = 366

 Score =  172 bits (437), Expect = 9e-41,   Method: Compositional matrix adjust.
 Identities = 108/338 (31%), Positives = 191/338 (56%), Gaps = 10/338 (2%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           I +++A EK ++ + V   +  +I   A+ +YG   +    I+  T  + L++ + VVE+
Sbjct: 7   IIESIANEKGLEIEDVKERVIRAIINTAKKIYGENYEYDAVIDSSTKSLHLYQKITVVED 66

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                 E+    + +  A+  D  ++IG  ++  L   + GR A Q+  + +   ++   
Sbjct: 67  GDERLAEDNEHFLGVSEAKKVDAGVEIGDELTYELSTDNLGRTAAQTLHKELEYHIQRLM 126

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            ++ + ++++ +G+++ G+V RV+   N  +++     V+ R   I  E  +PGD VK+ 
Sbjct: 127 EEKIFQKYQEMIGQMVFGSVTRVDSEENTFIEIDELRAVMSRKNRIKGEKFKPGDVVKAV 186

Query: 186 IYDVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           I  V  ++  G +V LSRT P+F+  L   EVPEI +G+V + A +R PG RAK+A+ ++
Sbjct: 187 IKSVYIDKSMGIKVELSRTSPKFLEALLKAEVPEIKDGLVLIAASARIPGERAKVALVAT 246

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDE 303
             ++DPVGA VG +G R+ AV  EL  E ID + +S + A  +  A+ PAI++ V + DE
Sbjct: 247 SPNVDPVGATVGTKGVRINAVTNELSGENIDAIEYSAEPAILITRAMSPAIISSVKITDE 306

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +  +  V +  EQ S AIG+ G N+RLAS LTG+ I++
Sbjct: 307 N--KAVVSLASEQKSKAIGKSGINIRLASMLTGYEIEL 342


>gi|268679068|ref|YP_003303499.1| transcription termination factor NusA [Sulfurospirillum deleyianum
           DSM 6946]
 gi|268617099|gb|ACZ11464.1| transcription termination factor NusA [Sulfurospirillum deleyianum
           DSM 6946]
          Length = 374

 Score =  172 bits (437), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 110/345 (31%), Positives = 197/345 (57%), Gaps = 15/345 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +++ I +++A+EK +D + V + +  ++ K A+ +YG   +   EI+  T  + L++ + 
Sbjct: 3   KIVDIIESIAHEKGLDINEVRNTVTMALVKTAKKIYGAEYEYGAEIDSATKTLKLYQKVI 62

Query: 68  VV--------EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           VV        +  EN+   I++K A++ DP I+IG  ++  LP  + GR A  + ++ + 
Sbjct: 63  VVSPDDERLLDGNENF---IAIKEAKEVDPEIEIGDELTYELPLDNLGRTAAATLQRELE 119

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRP 178
             ++       + +++  VG+ + G+V RV+   N  +++     V+ R   I  E  + 
Sbjct: 120 YHIQRLLEHNIFDKYQKMVGKTVFGSVVRVDNDENTYIEIDEIRAVLPRKNRIKGEKFKV 179

Query: 179 GDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
           G+ VKS I  V  ++ +G  V LSRT P+F+  L  +EVPEI +G++++   +R PG RA
Sbjct: 180 GNVVKSVIRKVLIDKAQGMYVELSRTSPKFLESLLELEVPEIKDGLIKIMGSARIPGERA 239

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+++ S   +ID VGA VG +G+R+ AV  EL +E ID + +S     F+  AL PAI++
Sbjct: 240 KISLVSFHPNIDAVGATVGTKGARINAVSKELHNENIDCIEFSSVPEIFISRALSPAIIS 299

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
            V +  +  +  V +P +Q S AIG+ G N+RL S LTG+ I+++
Sbjct: 300 NVKIQNN--KAIVTLPSDQKSKAIGKNGINIRLTSMLTGFEIELV 342


>gi|87042911|gb|ABD16465.1| NusA [Blueberry stunt phytoplasma]
          Length = 319

 Score =  172 bits (436), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 93/301 (30%), Positives = 173/301 (57%), Gaps = 10/301 (3%)

Query: 50  RVEINPETGDISLFRLLEVVEEVENYTCQ------ISLKVARDRDPSIDIGGVVSDPLPP 103
           ++++  +  +I L++   V +E    T        I+L+ A+   P   IG V+   + P
Sbjct: 19  KIQLKEDKSEIILYKQFLVADEATMSTINLKESTPITLEEAKQIKPHAKIGQVIDIKVDP 78

Query: 104 MDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV--KRVEYGNVIVDLGNS 161
            DF   AV+  K    +++ + +R+  Y  FK + G++IS  +  +  ++ N+ ++    
Sbjct: 79  KDFNLYAVKEFKNQFNEELTKKKRENIYNFFKQQEGKLISAKIISENDKFYNLELE-KEI 137

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
             ++ + E  S   ++ G+R++ ++ +VR+  + P++ +S  H   +VK+    +PEI  
Sbjct: 138 TTLLPKKEIASNNEMQVGERIQVFLSEVRKTTKWPKIFVSCNHVGLVVKVLEENIPEIQE 197

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           GIV++  V+R  G R K+ + S D+ +D +G+CVG R +R++ V+  L+ EK+D+ VWS 
Sbjct: 198 GIVKIAGVARISGERTKIGLLSCDAQVDAIGSCVGERSNRIKNVIKILKGEKVDLFVWSE 257

Query: 282 DSATFVINALRPAIVTKVVLDEDVGRIEV-IVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D    + NAL+PA   +VV+ +D+ +  + IVP +Q SLAIG+ G+NV+LA ++T W ID
Sbjct: 258 DPQELIANALKPASCLQVVIKDDINKYALAIVPDDQFSLAIGKLGKNVKLAVEVTKWNID 317

Query: 341 I 341
           I
Sbjct: 318 I 318


>gi|87042915|gb|ABD16467.1| NusA [Tomato big bud phytoplasma]
          Length = 319

 Score =  171 bits (434), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 92/301 (30%), Positives = 172/301 (57%), Gaps = 10/301 (3%)

Query: 50  RVEINPETGDISLFRLLEVVEEVENYTCQ------ISLKVARDRDPSIDIGGVVSDPLPP 103
           ++ +  +  +I L++   V +E    T        I+L+ A+   P   IG V+   + P
Sbjct: 19  KIHLKEDKSEIILYKQFLVADEATISTINLKESTPITLEEAQQIKPHAKIGQVIDIKVDP 78

Query: 104 MDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV--KRVEYGNVIVDLGNS 161
            DF   AV+  K    +++ + +R+  Y  FK + G++IS  +  +  ++ N+ ++    
Sbjct: 79  KDFNLYAVKEFKNQFNEELTKKKRENIYNFFKQQEGKLISAKIISENDKFYNLELE-KEI 137

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
             ++ + E  S   ++ G+R++ ++ +V++  + P++ +S  H   +VK+    +PEI  
Sbjct: 138 TTLLPKKEIASNNEMQVGERIQVFLSEVKKTTKWPKIFVSCNHVGLVVKVLEENIPEIQE 197

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           GIV++  V+R  G R K+ +FS D+ ID +G+C+G R +R++ V+  L+ EKID+ +WS 
Sbjct: 198 GIVKIAGVARISGERTKIGLFSCDAQIDAIGSCIGERSNRIKNVIKILKGEKIDLFIWSD 257

Query: 282 DSATFVINALRPAIVTKVVLDEDVGRIEV-IVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D    + NAL+PA   +VV+ +D+ +  + IVP +Q SLAIG+ G+N +LA ++T W ID
Sbjct: 258 DPQELIANALKPASCLQVVIKDDINKCALAIVPDDQFSLAIGKLGKNAKLAVEVTKWNID 317

Query: 341 I 341
           I
Sbjct: 318 I 318


>gi|87042913|gb|ABD16466.1| NusA [Maize bushy stunt phytoplasma]
          Length = 319

 Score =  171 bits (433), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 90/301 (29%), Positives = 174/301 (57%), Gaps = 10/301 (3%)

Query: 50  RVEINPETGDISLFRLLEVVEEVENYTCQ------ISLKVARDRDPSIDIGGVVSDPLPP 103
           ++++  +  +I L++   V +E    T        I+L+ A+   P   IG V+   + P
Sbjct: 19  KIQLKEDKSEIILYKQFLVADEATMSTINLKESTPITLEEAQQIKPHAKIGQVIDIKVDP 78

Query: 104 MDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV--KRVEYGNVIVDLGNS 161
            DF   AV+  K    +++ + +R+  Y  F+ + G++IS  +  +  ++ N+ ++    
Sbjct: 79  KDFNLYAVKELKNQFNEELTKKKRENIYNFFEQQEGKLISAKIISENDKFYNLELE-KEI 137

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
             ++ + E  S   ++ G+R++ ++ +VR+  + P++ +S  H   +VK+    +PEI  
Sbjct: 138 TTLLPKKEIASNNEMQVGERIQVFLSEVRKTTKWPKIFVSCNHVGLVVKVLEENIPEIQE 197

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           GIV++  ++R  G R K+ + S D+ +D +G+C+G R +R++ ++  L+DEK+D+ VWS 
Sbjct: 198 GIVKIAGIARISGERTKIGLLSCDAQVDAIGSCIGERSNRIKNIIKILKDEKVDLFVWSD 257

Query: 282 DSATFVINALRPAIVTKVVLDEDVGRIEV-IVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D    + NAL+PA   +VV+ +D+ +  + IVP +Q SLAIG+ G+NV+LA ++T W ID
Sbjct: 258 DPQELISNALKPASCIQVVIKDDINKYALAIVPDDQFSLAIGKLGKNVKLAVEVTKWNID 317

Query: 341 I 341
           I
Sbjct: 318 I 318


>gi|166012287|gb|ABY77760.1| transcription factor NusA [Paulownia witches'-broom phytoplasma]
          Length = 315

 Score =  171 bits (433), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 91/299 (30%), Positives = 172/299 (57%), Gaps = 10/299 (3%)

Query: 50  RVEINPETGDISLFRLLEVVEEVENYTCQ------ISLKVARDRDPSIDIGGVVSDPLPP 103
           ++E+  +  +I L++   V +E    T        I+L+ A+   P   IG V+   + P
Sbjct: 18  KIELKEDKSEIILYKQFLVADEATMSTINLKESTPITLEEAQQIKPHAKIGQVIDIKVDP 77

Query: 104 MDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV--KRVEYGNVIVDLGNS 161
            DF   A++  K    +++ + +R+  Y  FK + G++IS  +  +  ++ N+ ++    
Sbjct: 78  KDFNLYAIKELKNQFNEELTKKKRENIYNFFKQQEGKLISAKIISENDKFYNLELE-KEI 136

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
             ++ + E  S   ++ G+R++ ++ +VR+  + P++ +S  H   +VK+    +PEI  
Sbjct: 137 TTLLPKKEIASNNEMQVGERIQVFLSEVRKTTKWPKIFVSCNHVGLVVKVLEENIPEIQE 196

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           GIV++  V+R  G R K+ + S D+ +D +G+C+G R +R++ V+  L+DEK+D+ VWS 
Sbjct: 197 GIVKIAGVARISGERTKIGLLSCDAQVDAIGSCIGERSNRIKNVIKILKDEKVDLFVWSD 256

Query: 282 DSATFVINALRPAIVTKVVLDEDVGRIEV-IVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
           D    + NAL+PA   +VV+ +D+ +  + IVP +Q SLAIG+ G+NV+LA ++T W I
Sbjct: 257 DPQELIANALKPASCLQVVIKDDINKYALAIVPDDQFSLAIGKLGKNVKLAVEVTKWNI 315


>gi|87042921|gb|ABD16470.1| NusA [Tomato yellows phytoplasma]
          Length = 319

 Score =  171 bits (432), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 92/301 (30%), Positives = 173/301 (57%), Gaps = 10/301 (3%)

Query: 50  RVEINPETGDISLFRLLEVVEEVENYTCQ------ISLKVARDRDPSIDIGGVVSDPLPP 103
           ++++  +  +I L++   V +E    T        I+L+ A+   P   IG V+   + P
Sbjct: 19  KIQLKEDKSEIILYKQFLVADEATMSTINLKESTPITLEEAQQIKPHAKIGQVIDIKVDP 78

Query: 104 MDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV--KRVEYGNVIVDLGNS 161
            DF   AV+  K    +++ + +R+  Y  FK + G++IS  +  +  ++ N+ ++    
Sbjct: 79  KDFNLYAVKEFKNQFNEELTKKKRENIYNFFKQQEGKLISAKIISENDKFYNLELE-KEI 137

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
             ++ + E  S   ++ G+R++ ++ +VR+  + P++ +S  H   +VK+    +PEI  
Sbjct: 138 TTLLPKKEIASNNEMQVGERIQVFLSEVRKTTKWPKIFVSCNHVGLVVKVLEENIPEIQE 197

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           GIV++  V+R  G R K+ + S D+ +D +G+C+G R +R++ V+  L+ EK+D+ VWS 
Sbjct: 198 GIVKIAGVARISGERTKIGLLSCDAQVDAIGSCIGERSNRIKNVIKILKGEKVDLFVWSD 257

Query: 282 DSATFVINALRPAIVTKVVLDEDVGRIEV-IVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D    + NAL+PA   +VV+ +D+ +  + IVP +Q SLAIG+ G+NV+LA ++T W ID
Sbjct: 258 DPQELIANALKPASCLQVVIKDDINKYALAIVPDDQFSLAIGKLGKNVKLAVEVTKWNID 317

Query: 341 I 341
           I
Sbjct: 318 I 318


>gi|76496360|gb|ABA43691.1| NusA [Acholeplasma palmae]
          Length = 363

 Score =  171 bits (432), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 110/353 (31%), Positives = 183/353 (51%), Gaps = 20/353 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +     +AVA E+ +++D VL      +    +  +G  S  RVEI  +  +I L++   
Sbjct: 5   DFFNTIEAVADERGLNKDQVLEAFEKGLIAGCKKAHGVRS-CRVEIKEDKSEILLYKQYY 63

Query: 68  VVEE------------VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAK 115
           V++E             + YT  I+++ A++    +  G ++   + P DF   A++  K
Sbjct: 64  VLDEDTLEEDMTSNPLNKEYTF-ITVEDAKEMKTRVKPGQLIEIKVDPKDFNLYAIKDFK 122

Query: 116 QVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS-DGVIRRDETISRE 174
               +++   +++  Y  FK    E+++  V  V+     ++L      ++ + E +  +
Sbjct: 123 NRFNEELTNKQKETIYNHFKAVEHEMVTARVTDVDDNYYKLELEKEMTTLLPKKEALPND 182

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
                DR+K YI +V+   + P+V +SR     + +L    VPEI  GI+ +  +SRD G
Sbjct: 183 VFHVNDRIKVYITEVQSTTKWPKVFVSRVQNGLITRLLEELVPEIKEGIISIMGISRDAG 242

Query: 235 SRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA 294
            R+K+ V S D  +DP+GACVG  G R++ +V  +  EKID+  WS +    + NAL+PA
Sbjct: 243 DRSKIGVRSEDPKVDPIGACVGEGGQRIREIVKAISGEKIDLFRWSDNEQELIANALQPA 302

Query: 295 ---IVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
               VTKV   E       IVP +QLSLAIG+ GQNV+LA Q +GW+IDI +E
Sbjct: 303 KVVAVTKVNPKEKSAL--AIVPDDQLSLAIGKLGQNVKLAVQASGWSIDIKSE 353


>gi|87042919|gb|ABD16469.1| NusA [Strawberry phytoplasma FL4]
          Length = 319

 Score =  168 bits (425), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 89/301 (29%), Positives = 172/301 (57%), Gaps = 10/301 (3%)

Query: 50  RVEINPETGDISLFRLLEVVEEVENYTCQ------ISLKVARDRDPSIDIGGVVSDPLPP 103
           ++++  +  ++ L++   V +E    T        I+L+ A+   P    G V+   + P
Sbjct: 19  KIQLKEDKSEMILYKQFLVADEATMSTINLKESTPITLEEAQQIKPHAKTGQVIDIKVDP 78

Query: 104 MDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV--KRVEYGNVIVDLGNS 161
            DF   AV+  K    +++ + +R+  Y  FK + G++IS  +  +  ++ N+ ++    
Sbjct: 79  KDFNLYAVKEFKNQFNEELTKKKRENIYNFFKQQEGKLISAKIISENDKFYNLELE-KEI 137

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
             ++ + E  S   ++ G+R++ ++ +VR+  + P++ +S  H   ++K+    +PEI  
Sbjct: 138 TTLLPKKEIASNNEMQVGERIQVFLSEVRKTTKWPKIFVSCNHVGLVIKVLEENIPEIQE 197

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           GIV++  V+R  G R K+ + S D+ +D +G+C+G R +R++ V+  L+ EK+D+ VWS 
Sbjct: 198 GIVKIAGVARISGERTKIGLLSCDAQVDAIGSCIGERSNRIKNVIKILKGEKVDLFVWSN 257

Query: 282 DSATFVINALRPAIVTKVVLDEDVGRIEV-IVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D    + NAL+PA   +VV+ +D+ +  + IVP +Q SLAIG+ G+NV+LA ++T W ID
Sbjct: 258 DPQELIANALKPASCLQVVIKDDINKCALAIVPDDQFSLAIGKLGKNVKLAVEVTKWNID 317

Query: 341 I 341
           I
Sbjct: 318 I 318


>gi|82407871|pdb|2ASB|A Chain A, Structure Of A Mycobacterium Tuberculosis Nusa-Rna Complex
 gi|82407889|pdb|2ATW|A Chain A, Structure Of A Mycobacterium Tuberculosis Nusa-Rna Complex
 gi|82407891|pdb|2ATW|C Chain C, Structure Of A Mycobacterium Tuberculosis Nusa-Rna Complex
          Length = 251

 Score =  168 bits (425), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 100/218 (45%), Positives = 140/218 (64%), Gaps = 9/218 (4%)

Query: 133 EFKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDRVKS 184
           EF  + GEI++G ++R    N    V+V +G     S+GVI   E +  E+   G+R++ 
Sbjct: 2   EFSTREGEIVAGVIQRDSRANARGLVVVRIGTETKASEGVIPAAEQVPGESYEHGNRLRC 61

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV S+
Sbjct: 62  YVVGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAVRSN 121

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDE 303
            + ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V  V V+D+
Sbjct: 122 VAGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDDDPARFVANALSPAKVVSVSVIDQ 181

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
                 V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 182 TARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDI 219


>gi|254700793|ref|ZP_05162621.1| transcription elongation factor NusA [Brucella suis bv. 5 str. 513]
          Length = 181

 Score =  167 bits (424), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 82/162 (50%), Positives = 114/162 (70%)

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
           ER+  FM+A+NVDE++  +L +EGFA VEELA V   EI+SI+GFDE+TA EIQ RAREY
Sbjct: 2   ERSNLFMEALNVDEMVGQVLASEGFASVEELAYVDAGEISSIDGFDEDTAGEIQDRAREY 61

Query: 417 LEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN 476
           LE I+     + +ELGV++EL  +PG+ + + VA+GE+G+KTMED AG +VDDL+GW E 
Sbjct: 62  LERIEAEQDARRKELGVADELRELPGMTTAMLVAVGEDGVKTMEDFAGYAVDDLVGWRER 121

Query: 477 KGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
           K G+     G L+     +   E M++ AR K GWI +E++A
Sbjct: 122 KDGDTINHSGVLTPFDLSRVDAEQMVLAARLKAGWITEEELA 163


>gi|322379095|ref|ZP_08053497.1| transcription elongation factor NusA [Helicobacter suis HS1]
 gi|322381039|ref|ZP_08055069.1| transcription elongation factor NusA [Helicobacter suis HS5]
 gi|321146533|gb|EFX41403.1| transcription elongation factor NusA [Helicobacter suis HS5]
 gi|321148467|gb|EFX42965.1| transcription elongation factor NusA [Helicobacter suis HS1]
          Length = 384

 Score =  166 bits (421), Expect = 7e-39,   Method: Compositional matrix adjust.
 Identities = 107/342 (31%), Positives = 188/342 (54%), Gaps = 10/342 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L I + +AYEK +  + +  V+ +SI K A+S   T ++    I+    D++L  ++E
Sbjct: 13  KILDIVELIAYEKGLSLETIKDVVKNSILKVAQSCLDTEANFV--IDDSNKDLALLHVVE 70

Query: 68  VVEEVENYTCQ-----ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V  + +    Q     +SLK A   DPS+    ++   +   D  R AV +  + +   +
Sbjct: 71  VCADGDPKLEQDPKNTLSLKEAHKSDPSLKPNDLLHYEISLKDMKRGAVNTLFKDLEYNI 130

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDR 181
           + +  D+ + ++K  +  I++G V  ++   N  +++     ++     I  E+ + G+ 
Sbjct: 131 QRSLEDQYFQKYKSMLNTIVTGVVLDIDANQNTYIEIDGLQAILALKNRIKGESFKVGNS 190

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ + +VR  ++G  + LSRT P+F+  L  +EVPEI +  ++V  ++R PG RAKLA+
Sbjct: 191 VRAILKNVRFSKQGLVLELSRTTPKFLEALLRLEVPEIADEEIEVMGIARIPGDRAKLAL 250

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S +S IDP+GA VG++G R+ A+  EL +E ID V ++     ++ N L PA   ++ L
Sbjct: 251 RSHNSQIDPIGATVGVKGVRINAISKELCNESIDCVHYNDIPEIYIANTLSPAQTIRIKL 310

Query: 302 DEDVG--RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            E+ G  R  V +  +Q S AIG+ G NVRLA  LTG+ ID 
Sbjct: 311 SEEQGEKRALVTLYGDQKSKAIGKNGVNVRLACMLTGYNIDF 352


>gi|26553563|ref|NP_757497.1| transcription elongation factor NusA [Mycoplasma penetrans HF-2]
 gi|26453569|dbj|BAC43901.1| N-utilization substance protein A [Mycoplasma penetrans HF-2]
          Length = 597

 Score =  166 bits (421), Expect = 7e-39,   Method: Compositional matrix adjust.
 Identities = 108/346 (31%), Positives = 190/346 (54%), Gaps = 10/346 (2%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
            L+  D +A EK   ++ +++++  +++K+       + DI V ++     I LF    V
Sbjct: 6   FLENLDKIAKEKDTSKENIVNILKTALEKSYLKENPDL-DIEVVVDLNKESIKLFEKRVV 64

Query: 69  VEEVENYT---CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           V++ E+      +I++  A++   S  +G  VS  +    F R       Q++   + + 
Sbjct: 65  VDKSEDEIDDDKEINISEAQELKKSYKLGDTVSTEVNIDKFERRITSHFAQILTHNLNDI 124

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
              + Y E+KDKVG II   V++V+   V V+LG++ GV+ R E I  E L+PG      
Sbjct: 125 SNSKVYEEWKDKVGNIIRAEVEKVDNRLVEVNLGSTKGVVLRSEQIPGEELQPGQSYLFL 184

Query: 186 IYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           I +V+ +Q +G  ++LSR     +  L   E+ EI +GI+++K +SR  G + K+A+ S 
Sbjct: 185 IKEVKSQQTKGWPIILSRADEGLLRYLLKTEISEISDGIIEIKRISRIVGYKTKVAILSR 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--D 302
              +D VG  VG +G R++ + + L +E+ID++++  D   F++NA  P  +  V +  D
Sbjct: 245 VPGVDAVGTAVGPKGERIKKISSTLNNERIDVILYDEDPKQFLVNACHPEKIVGVEITDD 304

Query: 303 EDVGR---IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           ED+     + ++ P+E L   IG+ G NVRL S+LTGW+IDII+E+
Sbjct: 305 EDIPGSKIVTIVCPEESLIKLIGKNGINVRLLSKLTGWSIDIISEK 350


>gi|197294650|ref|YP_001799191.1| transcription elongation factor NusA [Candidatus Phytoplasma
           australiense]
 gi|171853977|emb|CAM11940.1| Transcription elongation factor [Candidatus Phytoplasma
           australiense]
          Length = 357

 Score =  166 bits (421), Expect = 8e-39,   Method: Compositional matrix adjust.
 Identities = 96/343 (27%), Positives = 176/343 (51%), Gaps = 9/343 (2%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
             +  D ++ E+ + ++ V+      +    +     +   RV +     ++ L++   V
Sbjct: 6   FFKFLDKISQERDLPKEEVVEAFTKGLIAGCKK-NNRVKSCRVHLKENKNEVLLYKQFIV 64

Query: 69  VEEVENYTCQ------ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E    T        ISL+ A+       +G V+   + P DF   A++  K    +++
Sbjct: 65  VDETNANTINLKEWTPISLEEAQKIKLHAKVGQVLEIKVNPKDFNLYAIKEFKNQFNEEL 124

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENL-RPGDR 181
            + +R+  Y  FK + G++IS  V         ++L      +   +  S  NL   G+R
Sbjct: 125 TKRKRESVYQFFKQQEGKLISAKVISENEKFYNLELEKEIATLLLKKETSGNNLPHIGER 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ ++ +VR+  + P++ +S  H   +VK+F   +PEI  GIV++  ++R  G R K+ +
Sbjct: 185 IQVFLLEVRKTSKWPKIFVSHNHVGLVVKVFEENIPEIQEGIVKIMTIARISGERTKIGL 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  +DP+G+C+G    R++ ++  L+ EKID+  WS D    + NALRPA    V++
Sbjct: 245 VSYDPQVDPIGSCIGENSDRIRNIIKILKGEKIDLFRWSEDEKELISNALRPAQCIDVII 304

Query: 302 DEDVGRIEV-IVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
             D  +  + I+P +Q SLAIG+ G+NV+LA+++T W IDI T
Sbjct: 305 KNDRNKHALAIIPDDQFSLAIGKLGKNVKLAAEVTKWNIDIKT 347


>gi|307720459|ref|YP_003891599.1| NusA antitermination factor [Sulfurimonas autotrophica DSM 16294]
 gi|306978552|gb|ADN08587.1| NusA antitermination factor [Sulfurimonas autotrophica DSM 16294]
          Length = 378

 Score =  166 bits (421), Expect = 8e-39,   Method: Compositional matrix adjust.
 Identities = 112/360 (31%), Positives = 191/360 (53%), Gaps = 15/360 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L IA+A+ +EK +  + V+  +  +  + A+ + G       +I+ +T +I + + + 
Sbjct: 3   KILDIAEAIGHEKGLQPEKVMEALKTAFVQTAKRVIGQNFAFEAQIDEDTKNIKIVQTIT 62

Query: 68  VV-------EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           VV       ++ E     ISL  AR+ D  +++G  +       D+GR A     + I  
Sbjct: 63  VVADDDEKLQDEEVAPAYISLTEAREYDDQVELGDQLQIDHDLEDYGRTAASQLHREIEY 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLRPG 179
            ++    D  Y ++K KVG ++SG V RV+   N  +++     V+     I  E    G
Sbjct: 123 HIQRLVEDEIYNKYKSKVGTLVSGRVTRVDAQNNTYIEVDEIRAVLPMKSRIKGEIFDVG 182

Query: 180 DRVKSYIYDVRRE-QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           D +K+ +  V  + + G Q+ LSRT P+F+  L  +EVPEI  G V ++  +R PG RAK
Sbjct: 183 DHIKAVVRRVNMDKENGMQIELSRTSPKFLEALLELEVPEIAEGSVIIEKAARIPGERAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +A+ S+   +D VGA VG++G R+ AV  EL  E ID + ++     FV   + PAI++ 
Sbjct: 243 IALLSTHPQVDAVGATVGVKGVRINAVSQELIGENIDCIEYTTIPELFVSRTMSPAIISH 302

Query: 299 V-VLDEDVGRIE---VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
           V ++  + G  E   + +P +Q S AIG+ G N+RLAS LTG  I+++  E D++   +D
Sbjct: 303 VEIVKNEEGENEKAIITLPADQKSKAIGKSGINIRLASMLTGMQIELL--ENDAVTTNED 360


>gi|157736507|ref|YP_001489190.1| transcription elongation factor NusA [Arcobacter butzleri RM4018]
 gi|315635666|ref|ZP_07890929.1| transcription termination factor NusA [Arcobacter butzleri JV22]
 gi|157698361|gb|ABV66521.1| transcription termination factor NusA [Arcobacter butzleri RM4018]
 gi|315479963|gb|EFU70633.1| transcription termination factor NusA [Arcobacter butzleri JV22]
          Length = 391

 Score =  166 bits (419), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 118/363 (32%), Positives = 199/363 (54%), Gaps = 34/363 (9%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +++ I D++AYEK +  D V + + +++ K A+ +  T       I+     + LF+ +E
Sbjct: 3   KIIDILDSIAYEKGLKIDDVENSLKEALIKTAQRMVDTTLIFDANIDRANKKLELFQKIE 62

Query: 68  VVEE------------------VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRV 109
           VV +                   ENY   ISL+ A++ +  +DIG  +S  L   + GR 
Sbjct: 63  VVSKDDDRLKEGSLTKEGTPINPENY---ISLEEAKEINSDLDIGDFMSYELEFENMGRN 119

Query: 110 AVQ---SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVI 165
           A     S  +  +Q+  E     +Y   K+KVG+ +SGTV R++   N  +++G   G++
Sbjct: 120 AATILLSNFEFRLQRFVEENIVGKY---KEKVGKTVSGTVTRIDKSDNTYIEIGEIKGIL 176

Query: 166 RRDETISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           +R   I  E  + GD VK+ +  V  ++  G  V +SRT P+F+  L  +EVPE+ +  +
Sbjct: 177 QRKSRIKGEFFKVGDVVKAVVKSVNIDKTNGLLVEISRTSPKFLENLLVLEVPELKDKKI 236

Query: 225 QVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSA 284
            ++A +R PG+R+K+A+ + D+ IDP+GA VG++G R+ +V  +L  E ID V +S    
Sbjct: 237 AIEASARIPGTRSKIALSTIDAQIDPIGAVVGVKGVRIGSVSKQLNGENIDCVEYSEIPE 296

Query: 285 TFVINALRPAIVTKVVLDED-----VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
            F+  AL PAIV  V ++++      G+  V +P +Q S AIG+ G N+RLAS LT + I
Sbjct: 297 IFISRALSPAIVHSVKIEKNPENGEKGKAVVTIPSDQKSKAIGKAGLNIRLASMLTKYDI 356

Query: 340 DII 342
           ++I
Sbjct: 357 ELI 359


>gi|224372321|ref|YP_002606693.1| transcription elongation factor NusA [Nautilia profundicola AmH]
 gi|223589774|gb|ACM93510.1| transcription termination factor NusA [Nautilia profundicola AmH]
          Length = 357

 Score =  165 bits (418), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 117/354 (33%), Positives = 185/354 (52%), Gaps = 14/354 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L +   VA EK +D D V      SI K A+ + G   DI VE++ E G++ ++++ E
Sbjct: 3   KVLDLLSLVANEKGLDFDEVKEAFKRSIIKTAKKVLG---DIDVEVDIENGELKIYQIFE 59

Query: 68  V------VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           V      +EE E Y     L  AR+ DP+  IG  +   L     GR    + ++   ++
Sbjct: 60  VRNDDVALEEPEKY---FYLDEAREFDPNAQIGDKLKVELDLGKLGRSGAMALQREFERE 116

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGD 180
           +     +  Y +   K+  I+SG V +V+   N  V+L    GV+     I  E    GD
Sbjct: 117 ITRLLENEIYRKLISKLNTIVSGEVVKVDSEENTWVELEGVKGVLPMRNRIKGEKFEVGD 176

Query: 181 RVKSYIYDVRRE-QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
            +K+ +  V  +  RG  + LSRT+P+F+ KL    VPE+ +GI+++   +R PG R+K+
Sbjct: 177 VMKALLKYVHFDTNRGITIELSRTNPKFLEKLIESAVPEVRDGIIKIHTSARIPGVRSKV 236

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S +  ++P+G  +G  G R+ +V  EL  E ID++ +SP    F+  AL PAIV  V
Sbjct: 237 AVSSLNPKVEPIGTIIGKNGVRINSVSNELNGENIDVIEYSPKPEIFIARALSPAIVKNV 296

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
            +DED     V V  +Q + AIG+ G N+ LA  LT + I++   EE S +  K
Sbjct: 297 QVDEDKALAVVEVDPDQKAKAIGKNGINITLAGMLTKYKIELKDAEEKSKDTSK 350


>gi|242308920|ref|ZP_04808075.1| transcription elongation factor NusA [Helicobacter pullorum MIT
           98-5489]
 gi|239524584|gb|EEQ64450.1| transcription elongation factor NusA [Helicobacter pullorum MIT
           98-5489]
          Length = 373

 Score =  164 bits (415), Expect = 4e-38,   Method: Compositional matrix adjust.
 Identities = 108/341 (31%), Positives = 188/341 (55%), Gaps = 9/341 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L I + ++YEK +  + V  V+ +S+ K A+           EI+ +   + L++++ 
Sbjct: 3   KILDIIEGISYEKGLPIESVAEVVKESVIKVAKQTLDPNISYDAEIDKKNKTLHLYQVIS 62

Query: 68  VVEEVENYTCQ-----ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V  + +N   +     I L  AR  D  I +G  +   L   +  R AV +  + +  K+
Sbjct: 63  VCADDDNNAKEDKEHFIPLCEARKHDSEIKVGDELRYELSLENMNRSAVNALFRELEFKI 122

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +     + + ++K +VG+I+SG+V R++  GN  V++     ++ +   I  E  R G  
Sbjct: 123 QRLIETQLFDKYKAQVGKIVSGSVVRIDDLGNTFVEIDEVRAILPKKNRIKGEEFRIGQV 182

Query: 182 VKSYI-YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           V + + Y    +Q G  + LSRT P+ + +L  +EVPEI +G V++ + +R PG RAK+A
Sbjct: 183 VGAILKYVGIDKQNGISIELSRTTPKMLEELLRLEVPEIKDGEVEIVSCARIPGERAKVA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           + +  + IDPVGA VG++G R+ AV  EL++E ID + +S     ++  AL PA++  VV
Sbjct: 243 LKTDSAKIDPVGATVGVKGVRINAVSKELKNESIDCIEYSSQPEIYIARALSPALIVSVV 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +++   R  V +  EQ   AIG+ G NVRLAS LTG+ I++
Sbjct: 303 VEDK--RAIVTISNEQKPKAIGKNGINVRLASMLTGYEIEL 341


>gi|169302736|gb|ACA53041.1| NusA [Wheat blue dwarf phytoplasma]
          Length = 317

 Score =  163 bits (413), Expect = 6e-38,   Method: Compositional matrix adjust.
 Identities = 89/300 (29%), Positives = 171/300 (57%), Gaps = 10/300 (3%)

Query: 50  RVEINPETGDISLFRLLEVVEEVENYTCQ------ISLKVARDRDPSIDIGGVVSDPLPP 103
           ++++  +  +I L++   V +E    T        I+L+ A+   P   IG V+   + P
Sbjct: 18  KIQLKEDKSEIILYKQFLVADEATMSTINLKESTPITLEEAQQIKPHAKIGQVIDIKVDP 77

Query: 104 MDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV--KRVEYGNVIVDLGNS 161
            DF   AV+  K    +++ + +R+  Y   K + G++IS  +  +  ++ N+ ++    
Sbjct: 78  KDFNLYAVKEFKNQFNEELTKKKRENIYNFSKQQEGKLISAKIISENDKFYNLELE-KEI 136

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
             ++ + E  S   ++ G+R++ ++ +VR+  + P++ +S  H   +VK+    +PEI  
Sbjct: 137 TTLLPKKEIASNNEMQVGERIQVFLSEVRKTTKWPKIFVSCNHVGLVVKVLEENIPEIQE 196

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           GIV++  V+R  G R K+ + S D+ +D +G+C+G R +R++ V+  L+ EK+D+ VWS 
Sbjct: 197 GIVKIAGVARISGERTKIGLLSCDAQVDAIGSCIGERSNRIKNVIKILKGEKVDLFVWSD 256

Query: 282 DSATFVINALRPAIVTKVVLDEDVGRIEV-IVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D    + NAL+PA   +VV+ +D+ +  + IVP +Q SLAIG+ G+NV+LA ++T W I+
Sbjct: 257 DPQELIANALKPASCPQVVIKDDINKYALAIVPDDQFSLAIGKLGKNVKLAVEVTKWNIE 316


>gi|313681423|ref|YP_004059161.1| nusa antitermination factor [Sulfuricurvum kujiense DSM 16994]
 gi|313154283|gb|ADR32961.1| NusA antitermination factor [Sulfuricurvum kujiense DSM 16994]
          Length = 377

 Score =  163 bits (412), Expect = 7e-38,   Method: Compositional matrix adjust.
 Identities = 110/344 (31%), Positives = 184/344 (53%), Gaps = 11/344 (3%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +L I +++A EK ++ D V   +  S  + A+ +         +I+  T  + L +++ V
Sbjct: 4   ILDIIESIANEKGLNPDRVQEAIKTSFIQTAKRIINPTFAFEADIDDRTKQVRLRQIITV 63

Query: 69  VE------EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V       E E     + +  A + D   +IG  +        +GR A  +  + I   +
Sbjct: 64  VADDAPELEGEEAGAYMGITAALEIDDEAEIGDQLQMEHDIESYGRSAFATLHREIEFHI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +    +  Y ++K K+ +I+SG V RV+   N  +++     V+     I  E  + GD 
Sbjct: 124 QRLVENELYDKYKSKINQIVSGRVTRVDSDQNTTIEIDEIRAVLPMKSRIKGEKFKVGDV 183

Query: 182 VKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           V + +  V  ++  G  + LSRT P+F+ +L  +EVPEI +GIV ++  +R PG RAK+A
Sbjct: 184 VSAIVRRVHVDKSNGISMELSRTAPKFLEELLALEVPEIKDGIVVIEKCARIPGERAKIA 243

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           ++++   IDP+GA VG+RG R+ AV  EL  E ID V +S     F+  A+ PAI++ VV
Sbjct: 244 LYTNRPQIDPIGATVGVRGVRINAVSEELCGENIDCVEYSSSPELFISRAMSPAIISAVV 303

Query: 301 LDEDVG---RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           + E+ G   +  V +P +Q S AIG+ G N+RLAS LTG+TI++
Sbjct: 304 VTENEGEEKKAVVTLPSDQKSKAIGKSGINIRLASMLTGYTIEL 347


>gi|319955949|ref|YP_004167212.1| nusa antitermination factor [Nitratifractor salsuginis DSM 16511]
 gi|319418353|gb|ADV45463.1| NusA antitermination factor [Nitratifractor salsuginis DSM 16511]
          Length = 375

 Score =  162 bits (411), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 118/348 (33%), Positives = 194/348 (55%), Gaps = 18/348 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L I +++A+EK++  +  L    +++   A+ L G   +  VEI+ +T    ++++L 
Sbjct: 3   KILSIIESMAHEKNLSVESALEAFKEALINTAKRLEGEEGEYEVEIDHDTQSYHIYKVLT 62

Query: 68  VV--------EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           VV        EE E Y   I++  A+  D  I+ G  +   +   ++GR A  +  Q + 
Sbjct: 63  VVNNDDPRAQEEPEKY---ITVDEAKSYDEEIEPGDKIRSEIHLEEYGRTAAANLFQELE 119

Query: 120 QKV-REAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLR 177
             + R  E+D  + ++K KVG II GTV RV+  GN  V++G   G++ +   I  E+ +
Sbjct: 120 YHIQRRIEQDL-FDKYKAKVGSIIIGTVSRVDDAGNTYVEIGELKGILSQRNRIKGESFK 178

Query: 178 PGDRVKSYIYDVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
            GD +K+ +  V  + + G  + L+RT P+F+ +L   EVPEI +G V++ + +R PG R
Sbjct: 179 TGDTLKALLRFVSIDPKYGMHLELTRTAPKFLEELMKREVPEIQDGAVEIISSARIPGER 238

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           AK+A+ S    IDP+GA VG RG R+ AV  EL  E ID + +SP    +V  AL PAIV
Sbjct: 239 AKVALKSDRPDIDPIGAAVGQRGVRINAVSEELCGENIDCIEYSPIPEIYVTRALSPAIV 298

Query: 297 TKV-VLDEDVGRIEVIV--PKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             V + + +    + IV    +Q + AIG+ G N+RLAS LT + I++
Sbjct: 299 QNVRIENNNTAEQKAIVDITSDQKAKAIGKSGINIRLASMLTKYQIEL 346


>gi|291276369|ref|YP_003516141.1| transcription termination factor [Helicobacter mustelae 12198]
 gi|290963563|emb|CBG39395.1| transcription termination factor [Helicobacter mustelae 12198]
          Length = 369

 Score =  162 bits (410), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 106/335 (31%), Positives = 181/335 (54%), Gaps = 6/335 (1%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           + I + +AYEK I  D+VL ++ + I K A+          VE +P+   + L   L V 
Sbjct: 1   MDIIEIIAYEKGIPYDMVLDIVKNLIIKTAKQEINEEIQYSVEESPKEKTLKLIHNLTVC 60

Query: 70  ----EEVENYTCQ-ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
               E+ EN     I+LK A++ D S+ IG ++   L   +  R  V    Q +  +++ 
Sbjct: 61  SDEDEKAENDKHHFIALKDAKNIDASLSIGDIIKSELTLENMSRGTVNKIFQDLEYQLQR 120

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           +  ++ +  FK+K+G+I+SG V  V+   N  +++ +   ++     I  E  + GD + 
Sbjct: 121 SMEEQLFKSFKEKIGKIVSGVVLEVDAQENTFIEIHDIRAILPLKNRIKGERFQNGDTIS 180

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           + +  V+ ++ G  + LSRT P+ + +L  +EVPEI +G V ++  +R PG RAK+AVFS
Sbjct: 181 AILKFVKMDKNGIYLELSRTTPKMLEELLMLEVPEIKDGEVIIQKTARIPGDRAKVAVFS 240

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           ++  ID +G+ VG++G R+ AV  +L  E ID + +S     F+  AL PA +  V + +
Sbjct: 241 TNPKIDAIGSTVGVKGVRINAVGRQLNGENIDCIEYSDVPEIFITRALAPANIINVQIKQ 300

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
           +    +V +   Q S AIG+ G N+RL S LTG+ 
Sbjct: 301 EELIAKVKLMASQKSKAIGKNGVNIRLVSMLTGYN 335


>gi|296274352|ref|YP_003656983.1| transcription termination factor NusA [Arcobacter nitrofigilis DSM
           7299]
 gi|296098526|gb|ADG94476.1| transcription termination factor NusA [Arcobacter nitrofigilis DSM
           7299]
          Length = 391

 Score =  161 bits (408), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 114/358 (31%), Positives = 189/358 (52%), Gaps = 24/358 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +++ I D++AYEK I  + V + + +++ K    +         EI+ +   + LF+ +E
Sbjct: 3   KIIDILDSIAYEKGIKSEHVETALKEALIKTGEKMVDHTLIFDAEIDRKNKRLKLFQKIE 62

Query: 68  VV---------EEVENYTC------QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQ 112
           V+         EEV+ Y         I+L  A++ D  +DIG  +   L   + GR A  
Sbjct: 63  VIKDDDKRLQGEEVDQYNNIINPENFIALSEAKEIDADLDIGDFLDYDLEFENMGRNAAT 122

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETI 171
                   +++    +    ++K K+G+II+G+V RV+   N  V++G   G++ R   I
Sbjct: 123 ILHNNFEYRLQRYIEENLVSKYKSKIGKIINGSVTRVDRAENTFVEIGEVKGMLTRKSRI 182

Query: 172 SRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVS 230
             E  + GD +K+ +  V  ++  G  + LSRT P+F+  L  +EVPE+ +  + ++A +
Sbjct: 183 KGETFKVGDNLKAVVKAVTIDKTNGLIIELSRTSPKFLEALLALEVPELKDERITIEASA 242

Query: 231 RDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA 290
           R PGSRAK+A+ + D  IDP+G+ VG++G R+ AV  +L  E ID V +S     FV  A
Sbjct: 243 RIPGSRAKIALSTMDPQIDPIGSVVGVKGVRITAVSQQLHGENIDCVEYSTIPEMFVARA 302

Query: 291 LRPAIVTKVVL------DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
           L PAI+  V +      DE    I V +  +Q S AIG+ G N+RLAS LT   I+++
Sbjct: 303 LSPAIIKSVQIIKSEKYDEKDKAI-VTILSDQKSKAIGKSGLNIRLASMLTKCEIELV 359


>gi|86149201|ref|ZP_01067433.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni CF93-6]
 gi|88596851|ref|ZP_01100087.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni 84-25]
 gi|121612185|ref|YP_001000167.1| transcription elongation factor NusA [Campylobacter jejuni subsp.
           jejuni 81-176]
 gi|167005125|ref|ZP_02270883.1| transcription elongation factor NusA [Campylobacter jejuni subsp.
           jejuni 81-176]
 gi|218562115|ref|YP_002343894.1| transcription elongation factor NusA [Campylobacter jejuni subsp.
           jejuni NCTC 11168]
 gi|85840559|gb|EAQ57816.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni CF93-6]
 gi|87250165|gb|EAQ73123.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni 81-176]
 gi|88190540|gb|EAQ94513.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni 84-25]
 gi|112359821|emb|CAL34608.1| transcription termination factor [Campylobacter jejuni subsp.
           jejuni NCTC 11168]
 gi|284925727|gb|ADC28079.1| transcription elongation factor NusA [Campylobacter jejuni subsp.
           jejuni IA3902]
 gi|315928212|gb|EFV07529.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni DFVF1099]
 gi|315930003|gb|EFV09146.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni 305]
          Length = 362

 Score =  161 bits (408), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 109/336 (32%), Positives = 193/336 (57%), Gaps = 13/336 (3%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV-- 69
           I +++A EK+++ + V   +A ++   A+ +YG   +  V+  P+  +++L++ + +V  
Sbjct: 7   IIESIANEKNLNLENVREKVATALINTAKRIYGQEYEFFVD--PK--NLNLYQKITIVAD 62

Query: 70  --EEVENYT-CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
             E ++N +   I+L  A+   P ++IG  ++      + GR AV +  + +   +++  
Sbjct: 63  NDERLQNKSESFIALSKAKSEAPDVEIGDELTYECSLENLGRTAVNTLHKELEYHIQKLL 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
               + ++K+KVG+++ GTV RV+   N  +++      + R   I  E  + GD VK+ 
Sbjct: 123 EQTIFEKYKNKVGQMVFGTVVRVDNEENTFIEIDELRAFLPRKNRIKGEKFKIGDVVKAV 182

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V  + +G ++ LSRT P+F+  L   EVPEI +G V +   +R PG RAK+ + ++ 
Sbjct: 183 IRRVYTD-KGIKIELSRTSPKFLECLLEAEVPEIKDGYVNIIGCARIPGERAKIILQANG 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           ++IDPVGA VG++G R+ AV  EL +E ID + ++ +S   +  AL PAIV  V + ED 
Sbjct: 242 TNIDPVGATVGVKGVRINAVSKELHNENIDCIEFTNESEILISRALAPAIVNSVKI-EDK 300

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             I V +  EQ S AIG+ G N+RLAS L+G+ I++
Sbjct: 301 KAI-VSLNSEQKSKAIGKNGINIRLASMLSGYEIEL 335


>gi|12044993|ref|NP_072803.1| transcription elongation factor NusA [Mycoplasma genitalium G37]
 gi|255660291|ref|ZP_05405700.1| transcription elongation factor NusA [Mycoplasma genitalium G37]
 gi|1352607|sp|P47387|NUSA_MYCGE RecName: Full=Transcription elongation protein nusA
 gi|3844734|gb|AAC71359.1| transcription termination factor NusA [Mycoplasma genitalium G37]
 gi|166078938|gb|ABY79556.1| transcription termination factor NusA [synthetic Mycoplasma
           genitalium JCVI-1.0]
          Length = 531

 Score =  161 bits (408), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 107/353 (30%), Positives = 186/353 (52%), Gaps = 14/353 (3%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           LL I   VA  K++  + V+  +  ++++A +  +    ++ V IN + G I++ +L  V
Sbjct: 33  LLAIIKNVAKTKNLSIEEVVFCLKTALEQAYKK-HLNFVNVEVNINFDKGIINVEQLFNV 91

Query: 69  V-EEVENYT--CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           V +E E+Y    +I L+ A   + S+ +G V+  P+P  +     +     +  QK+ E 
Sbjct: 92  VSDENEDYDDFLEIPLQAANKINSSLQLGDVLRKPIPLKNISSDLINKMIAIFNQKISET 151

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGN------VIVDLGNSDGVIRRDETISRENLRPG 179
                  EF  +VGE+I   V+ ++          I++L  + G I + E    E L  G
Sbjct: 152 NFKAVMSEFSSEVGEVIEAKVEDIDTNKEGGLKGYIINLETTKGYISKRELSKGERLEIG 211

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
            +    I +++R+     + LSR+  + +  L     PEI NG + +K + R PG ++K+
Sbjct: 212 KKYLFVIKEIQRQASLWPITLSRSDTRLLQFLLTSNTPEIENGTIVIKKIERSPGVKSKI 271

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S+D ++DPV A +G +G +++ +  E   E IDIV W+ D   F+INA+ PA V   
Sbjct: 272 AVISNDPAVDPVAAILGPKGEKIRGISEEFNGEIIDIVFWNEDKLKFLINAILPAEVIGY 331

Query: 300 VLDEDVGR---IEVIVPKEQLSLAIGRRGQNVRLASQLTGW-TIDIITEEEDS 348
            + +D  R   IEV+VP  Q++   G +G N+RL S LTGW ++D+ +E++ S
Sbjct: 332 NILQDDERDTSIEVVVPANQIANVFGFKGVNIRLISNLTGWNSVDVYSEKDAS 384


>gi|86151767|ref|ZP_01069981.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni 260.94]
 gi|315124006|ref|YP_004066010.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni ICDCCJ07001]
 gi|85841396|gb|EAQ58644.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni 260.94]
 gi|315017728|gb|ADT65821.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni ICDCCJ07001]
          Length = 362

 Score =  161 bits (408), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 109/336 (32%), Positives = 193/336 (57%), Gaps = 13/336 (3%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV-- 69
           I +++A EK+++ + V   +A ++   A+ +YG   +  V+  P+  +++L++ + +V  
Sbjct: 7   IIESIANEKNLNLENVREKVATALINTAKRIYGQEYEFFVD--PK--NLNLYQKITIVAD 62

Query: 70  --EEVENYT-CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
             E ++N +   I+L  A+   P ++IG  ++      + GR AV +  + +   +++  
Sbjct: 63  NDERLQNKSESFIALSKAKSEAPDVEIGDELTYECSLENLGRTAVNTLHKELEYHIQKLL 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
               + ++K+KVG+++ GTV RV+   N  +++      + R   I  E  + GD VK+ 
Sbjct: 123 EQTIFEKYKNKVGQMVFGTVVRVDNEENTFIEIDELRAFLPRKNRIKGEKFKIGDVVKAV 182

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V  + +G ++ LSRT P+F+  L   EVPEI +G V +   +R PG RAK+ + ++ 
Sbjct: 183 IRRVYTD-KGIKIELSRTSPKFLECLLEAEVPEIKDGYVNIIGCARIPGERAKIILQANG 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           ++IDPVGA VG++G R+ AV  EL +E ID + ++ +S   +  AL PAIV  V + ED 
Sbjct: 242 ANIDPVGATVGVKGVRINAVSKELHNENIDCIEFTNESEILISRALAPAIVNSVKI-EDK 300

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             I V +  EQ S AIG+ G N+RLAS L+G+ I++
Sbjct: 301 KAI-VSLNSEQKSKAIGKNGINIRLASMLSGYEIEL 335


>gi|57237514|ref|YP_178528.1| transcription elongation factor NusA [Campylobacter jejuni RM1221]
 gi|205355336|ref|ZP_03222107.1| transcription termination factor [Campylobacter jejuni subsp.
           jejuni CG8421]
 gi|283955882|ref|ZP_06373372.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni 1336]
 gi|57166318|gb|AAW35097.1| transcription termination factor NusA [Campylobacter jejuni RM1221]
 gi|205346570|gb|EDZ33202.1| transcription termination factor [Campylobacter jejuni subsp.
           jejuni CG8421]
 gi|283792542|gb|EFC31321.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni 1336]
 gi|315057880|gb|ADT72209.1| Transcription termination protein NusA [Campylobacter jejuni subsp.
           jejuni S3]
          Length = 362

 Score =  161 bits (408), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 109/336 (32%), Positives = 193/336 (57%), Gaps = 13/336 (3%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV-- 69
           I +++A EK+++ + V   +A ++   A+ +YG   +  V+  P+  +++L++ + +V  
Sbjct: 7   IIESIANEKNLNLENVREKVATALINTAKRIYGQEYEFFVD--PK--NLNLYQKITIVAD 62

Query: 70  --EEVENYT-CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
             E ++N +   I+L  A+   P ++IG  ++      + GR AV +  + +   +++  
Sbjct: 63  NDERLQNKSESFIALSKAKSEAPDVEIGDELTYECSLENLGRTAVNTLHKELEYHIQKLL 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
               + ++K+KVG+++ GTV RV+   N  +++      + R   I  E  + GD VK+ 
Sbjct: 123 EQTIFEKYKNKVGQMVFGTVVRVDNEENTFIEIDELRAFLPRKNRIKGEKFKIGDVVKAV 182

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V  + +G ++ LSRT P+F+  L   EVPEI +G V +   +R PG RAK+ + ++ 
Sbjct: 183 IRRVYTD-KGIKIELSRTSPKFLECLLEAEVPEIKDGYVNIIGCARIPGERAKIILQANG 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           ++IDPVGA VG++G R+ AV  EL +E ID + ++ +S   +  AL PAIV  V + ED 
Sbjct: 242 ANIDPVGATVGVKGVRINAVSKELHNENIDCIEFTNESEILISRALAPAIVNSVKI-EDK 300

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             I V +  EQ S AIG+ G N+RLAS L+G+ I++
Sbjct: 301 KAI-VSLNSEQKSKAIGKNGINIRLASMLSGYEIEL 335


>gi|237752704|ref|ZP_04583184.1| transcription elongation factor NusA [Helicobacter winghamensis
           ATCC BAA-430]
 gi|229376193|gb|EEO26284.1| transcription elongation factor NusA [Helicobacter winghamensis
           ATCC BAA-430]
          Length = 371

 Score =  160 bits (406), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 118/366 (32%), Positives = 198/366 (54%), Gaps = 9/366 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L I + +AYEK +  + V   + D++ K A+    +     VEI+ +   + L++++ 
Sbjct: 3   KILDIIEGIAYEKGLPIESVTDAVKDAVIKVAKESLDSTIHYDVEIDKKNKTLHLYQVIS 62

Query: 68  VVEEVENYTCQ--ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           V E+ +    +  I L  A+  D  I IG  +   L   D  R AV +  + +  K++  
Sbjct: 63  VCEDSDALDGKNMIPLSEAKKHDSEIKIGDELRYELSLEDMSRNAVNALFRELEFKIQRL 122

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
              + + ++K ++G+I+SG V R +  GN  +++     ++ +   I  E    G  V +
Sbjct: 123 IETQLFDKYKSQIGKIVSGNVVRADSLGNTYIEIDEIRAILPKKNRIKGEEFGVGQIVGA 182

Query: 185 YIYDVRRE-QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            +  V  + Q G  + LSRT P+ + +L  +EVPEI +G V++   SR PG RAK+A+ +
Sbjct: 183 VLKHVGIDRQNGIMIELSRTTPKMLEELLKLEVPEIKDGDVEIVNSSRIPGERAKVALKT 242

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
             + IDPVGA VG++G R+ AV  EL++E ID + +S     ++  AL PA+V  V + E
Sbjct: 243 DSAKIDPVGATVGVKGVRINAVSKELKNESIDCIEYSVQPEIYIARALSPALVISVAV-E 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   I V +  EQ   AIG+ G N+RLAS LTG+ I++  +E DS  +Q   N  TQ   
Sbjct: 302 DKKAI-VSITSEQKPKAIGKNGINIRLASMLTGYEIEL--KEIDSGTQQVSSNS-TQETQ 357

Query: 364 QAINVD 369
           ++ N+D
Sbjct: 358 KSSNID 363


>gi|157414753|ref|YP_001482009.1| transcription elongation factor NusA [Campylobacter jejuni subsp.
           jejuni 81116]
 gi|157385717|gb|ABV52032.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni 81116]
 gi|307747392|gb|ADN90662.1| Transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni M1]
 gi|315931099|gb|EFV10073.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni 327]
          Length = 362

 Score =  160 bits (405), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 108/336 (32%), Positives = 192/336 (57%), Gaps = 13/336 (3%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV-- 69
           I +++A EK+++ + V   +A ++   A+ +YG   +  V+  P+  +++L++ + +V  
Sbjct: 7   IIESIANEKNLNLENVREKVATALINTAKRIYGQEYEFFVD--PK--NLNLYQKITIVAD 62

Query: 70  --EEVENYT-CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
             E ++N +   I+L  A+   P ++IG  ++      + GR AV +  + +   +++  
Sbjct: 63  NDERLQNKSESFIALSKAKSEAPDVEIGDELTYECSLENLGRTAVNTLHKELEYHIQKLL 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
               + ++K+KVG+++ GTV RV+   N  +++      + R   I  E  + GD  K+ 
Sbjct: 123 EQTIFEKYKNKVGQMVFGTVVRVDNEENTFIEIDELRAFLPRKNRIKGEKFKIGDVAKAV 182

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V  + +G ++ LSRT P+F+  L   EVPEI +G V +   +R PG RAK+ + ++ 
Sbjct: 183 IRRVYTD-KGIKIELSRTSPKFLECLLEAEVPEIKDGYVNIIGCARIPGERAKIILQANG 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           ++IDPVGA VG++G R+ AV  EL +E ID + ++ +S   +  AL PAIV  V + ED 
Sbjct: 242 ANIDPVGATVGVKGVRINAVSKELHNENIDCIEFTNESEILISRALAPAIVNSVKI-EDK 300

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             I V +  EQ S AIG+ G N+RLAS L+G+ I++
Sbjct: 301 KAI-VSLNSEQKSKAIGKNGINIRLASMLSGYEIEL 335


>gi|153951003|ref|YP_001398503.1| transcription elongation factor NusA [Campylobacter jejuni subsp.
           doylei 269.97]
 gi|152938449|gb|ABS43190.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           doylei 269.97]
          Length = 362

 Score =  160 bits (405), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 109/336 (32%), Positives = 193/336 (57%), Gaps = 13/336 (3%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV-- 69
           I +++A EK+++ + V   +A ++   A+ +YG   +  V+  P+  +++L++ + +V  
Sbjct: 7   IIESIANEKNLNLENVREKVATALINTAKRIYGQEYEFFVD--PK--NLNLYQKITIVAD 62

Query: 70  --EEVENYT-CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
             E ++N +   I+L  A+   P ++IG  ++      + GR AV +  + +   +++  
Sbjct: 63  NDERLQNKSESFIALSKAKVEAPDVEIGDELTYECSLENLGRTAVNTLHKELEYHIQKLL 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
               + ++K+KVG+++ GTV RV+   N  +++      + R   I  E  + GD VK+ 
Sbjct: 123 EQTIFEKYKNKVGQMVFGTVVRVDNEENTFIEIDELRAFLPRKNRIKGEKFKIGDVVKAV 182

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V  + +G ++ LSRT P+F+  L   EVPEI +G V +   +R PG RAK+ + ++ 
Sbjct: 183 IRRVYTD-KGIKIELSRTSPKFLECLLEAEVPEIKDGYVNIIGCARIPGERAKIILQANG 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           ++IDPVGA VG++G R+ AV  EL +E ID + ++ +S   +  AL PAIV  V + ED 
Sbjct: 242 ANIDPVGATVGVKGVRINAVSKELHNENIDCIEFTNESEILISRALAPAIVNSVKI-EDK 300

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             I V +  EQ S AIG+ G N+RLAS L+G+ I++
Sbjct: 301 KAI-VNLNSEQKSKAIGKNGINIRLASMLSGYEIEL 335


>gi|86153795|ref|ZP_01071998.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni HB93-13]
 gi|85842756|gb|EAQ59968.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni HB93-13]
          Length = 362

 Score =  160 bits (404), Expect = 6e-37,   Method: Compositional matrix adjust.
 Identities = 108/336 (32%), Positives = 193/336 (57%), Gaps = 13/336 (3%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV-- 69
           I +++A EK+++ + V   +A ++   A+ +YG   +  V+  P+  +++L++ + +V  
Sbjct: 7   IIESIANEKNLNLENVREKVATALINTAKRIYGQEYEFFVD--PK--NLNLYQKITIVAD 62

Query: 70  --EEVENYT-CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
             E ++N +   I+L  A+   P ++IG  ++      + GR AV +  + +   +++  
Sbjct: 63  NDERLQNKSESFIALSKAKSEAPDVEIGDELTYECSLENLGRTAVNTLHKELEYHIQKLL 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
               + ++K+KVG+++ GTV RV+   N  +++      + R   I  E  + GD VK+ 
Sbjct: 123 EQTIFEKYKNKVGQMVFGTVVRVDNEENTFIEIDELRAFLPRKNRIKGEKFKIGDVVKAV 182

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V  + +G ++ LSRT P+F+  L   EVPEI +G V +   +R PG RAK+ + ++ 
Sbjct: 183 IRRVYTD-KGIKIELSRTSPKFLECLLEAEVPEIKDGYVNIIGCARIPGERAKIILQANG 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           ++IDPVGA VG++G R+ AV  EL +E ID + ++ +S   +  AL P+IV  V + ED 
Sbjct: 242 ANIDPVGATVGVKGVRINAVSKELHNENIDCIEFTNESEILISRALAPSIVNSVKI-EDK 300

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             I V +  EQ S AIG+ G N+RLAS L+G+ I++
Sbjct: 301 KAI-VSLNSEQKSKAIGKNGINIRLASMLSGYEIEL 335


>gi|258615949|ref|ZP_05713719.1| transcription elongation factor NusA [Enterococcus faecium DO]
          Length = 222

 Score =  160 bits (404), Expect = 6e-37,   Method: Compositional matrix adjust.
 Identities = 82/219 (37%), Positives = 134/219 (61%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L   DA+  EK I +++V+  +  ++  A +  YG   ++ VE + + G I ++ + E
Sbjct: 4   EMLNALDALEAEKGISKEIVIDALEAALVSAYKRHYGQAQNVEVEFDQKKGKIHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V EEV +   ++SLK A   +P+ +IG  +   + P DFGR+A Q+AKQVI+Q+VREAER
Sbjct: 64  VTEEVMDSQLEVSLKDALLINPAYEIGDTIRFEVTPKDFGRIAAQTAKQVILQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF     +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K Y+ 
Sbjct: 124 TIIYNEFSAYEKDIMQGIVERQDKRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVYVS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
            V    +GPQV +SR+HP  + +LF  EVPE+Y+GIV++
Sbjct: 184 RVENTSKGPQVFVSRSHPDLLRRLFEQEVPEVYDGIVEI 222


>gi|261751302|ref|ZP_05995011.1| transcription elongation factor NusA [Brucella suis bv. 5 str. 513]
 gi|261741055|gb|EEY28981.1| transcription elongation factor NusA [Brucella suis bv. 5 str. 513]
          Length = 174

 Score =  159 bits (403), Expect = 7e-37,   Method: Compositional matrix adjust.
 Identities = 79/156 (50%), Positives = 110/156 (70%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+A+NVDE++  +L +EGFA VEELA V   EI+SI+GFDE+TA EIQ RAREYLE I+ 
Sbjct: 1   MEALNVDEMVGQVLASEGFASVEELAYVDAGEISSIDGFDEDTAGEIQDRAREYLERIEA 60

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
               + +ELGV++EL  +PG+ + + VA+GE+G+KTMED AG +VDDL+GW E K G+  
Sbjct: 61  EQDARRKELGVADELRELPGMTTAMLVAVGEDGVKTMEDFAGYAVDDLVGWRERKDGDTI 120

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
              G L+     +   E M++ AR K GWI +E++A
Sbjct: 121 NHSGVLTPFDLSRVDAEQMVLAARLKAGWITEEELA 156


>gi|154175154|ref|YP_001408581.1| transcription elongation factor NusA [Campylobacter curvus 525.92]
 gi|112803976|gb|EAU01320.1| transcription termination factor NusA [Campylobacter curvus 525.92]
          Length = 366

 Score =  158 bits (400), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 107/340 (31%), Positives = 191/340 (56%), Gaps = 16/340 (4%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV-- 69
           I +++A EK +  D V   +  ++   A+ +Y    +  V I+    ++ L++ + +V  
Sbjct: 7   IIESIANEKGLQIDDVKERVIRALINTAKRVYSENYEYDVTIDA-NKNLKLYQKILIVAN 65

Query: 70  ------EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
                 E+ E++   ISLK A+  D  +++G  ++  L   + GR A Q+  + +   ++
Sbjct: 66  DDERLNEDNEHF---ISLKEAKKIDSGVEVGDELTYELSLDNLGRTAAQTLHKELEYHIQ 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRV 182
               ++ + ++ + VG+++ G+V RV+   N  +++     ++ R   I  E  + GD V
Sbjct: 123 RLVEEKIFQKYDEMVGQMVFGSVVRVDNDENTYIEIDELRAILPRKNRIKGEKFKIGDVV 182

Query: 183 KSYIYDVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           K+ I  V  ++  G +V LSRT P+F+  L   EVPEI +G + ++  +R PG RAK+A+
Sbjct: 183 KAVIRKVFTDKNLGIRVELSRTSPKFLEALLKAEVPEIKDGGIIIQNSARIPGERAKVAL 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+  +IDPVGA VG +G R+ AV  EL DE ID + ++ + A F+  A+ PAI++ V +
Sbjct: 243 ISTTPNIDPVGATVGTKGVRINAVSKELHDENIDAIEYASEPAIFISRAMAPAIISSVKI 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           D +   + ++   EQ S AIG+ G N+RLAS LTG+ I++
Sbjct: 303 DGNKAIVSLV--GEQKSKAIGKNGINIRLASMLTGFEIEL 340


>gi|224417809|ref|ZP_03655815.1| transcription elongation factor NusA [Helicobacter canadensis MIT
           98-5491]
 gi|253827150|ref|ZP_04870035.1| transcription elongation factor NusA [Helicobacter canadensis MIT
           98-5491]
 gi|313141351|ref|ZP_07803544.1| transcription elongation factor [Helicobacter canadensis MIT
           98-5491]
 gi|253510556|gb|EES89215.1| transcription elongation factor NusA [Helicobacter canadensis MIT
           98-5491]
 gi|313130382|gb|EFR47999.1| transcription elongation factor [Helicobacter canadensis MIT
           98-5491]
          Length = 370

 Score =  158 bits (399), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 104/340 (30%), Positives = 188/340 (55%), Gaps = 8/340 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L I + ++YEK +  + V+ V+ +S+ K A+    +      EI+ +   + L++++ 
Sbjct: 3   KILDIIEGISYEKGLPIESVMEVVKESVIKVAQQTLDSKILYDAEIDKKNKTLHLYQVIS 62

Query: 68  VV----EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           V     E  E+    I L  AR  D  I +G  +   L   +  R AV +  + +  +++
Sbjct: 63  VCSDDYEAKEDKEHFIPLSEARKHDSEIKVGDELRYELSLENMNRSAVNTLFRELEFRIQ 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
                + + ++K ++G+I+SG+V R++  GN  V++     ++ +   I  E  + G  +
Sbjct: 123 RLIETQLFDKYKAQIGKIVSGSVVRIDDLGNTFVEIDEIRAILPKKNRIKGEEFKVGQVI 182

Query: 183 KSYI-YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
            + + Y    +Q G  + LSRT P+ + +L  +EVPEI +G V++ A +R PG RAK+A+
Sbjct: 183 GAVLKYVGIDKQNGISIELSRTTPKMLEELLRLEVPEIKDGEVEIVACARIPGERAKVAL 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            +    +DPVGA VG++G R+ AV  EL++E ID + +S     ++  AL PA++  VV+
Sbjct: 243 KTDSMKVDPVGATVGVKGVRINAVSKELKNESIDCIEFSNQPEIYIARALSPALIVSVVV 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           ++   +  V +  EQ   AIG+ G NVRLAS LTG+ I++
Sbjct: 303 EDK--KAVVSISSEQKPKAIGKNGINVRLASMLTGYEIEL 340


>gi|157165500|ref|YP_001467013.1| transcription elongation factor NusA [Campylobacter concisus 13826]
 gi|112800050|gb|EAT97394.1| transcription termination factor NusA [Campylobacter concisus
           13826]
          Length = 367

 Score =  158 bits (399), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 106/337 (31%), Positives = 186/337 (55%), Gaps = 10/337 (2%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           I +++A EK+++ + V   +  ++   A+ +YG   +  V I+    ++ L++ + +V  
Sbjct: 7   IIESIANEKNLEIEDVKERVIRALINTAKRVYGENYEYDVSIDANK-NLKLYQKISIVAN 65

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                 E+    +SLK A+  D  ++IG  ++  L   + GR A Q+  + +   ++   
Sbjct: 66  DDERLAEDNEHFLSLKEAKKIDSGVEIGDELTYELSLDNLGRTAAQTLHKELEYHIQRLV 125

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            ++   ++ +  G ++ G V RV+   N  +++     ++ R   I  E  + GD VK+ 
Sbjct: 126 EEKILQKYNEMSGHMVFGPVVRVDNDENTFIEIDELRAILPRKNRIKGEKFKVGDVVKAV 185

Query: 186 IYDVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           I  V  ++  G +V LSRT P+F+  L   EVPEI +G + ++  +R PG RAK+A+ S+
Sbjct: 186 IRKVFTDKNLGIKVELSRTSPKFLEALLTSEVPEIKDGGIIIQGSARIPGERAKVALIST 245

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
             +IDPVGA VG +G R+ AV  EL  E ID + ++ + A  V  A+ PAI+T V ++E+
Sbjct: 246 TPNIDPVGATVGTKGVRINAVSKELHGESIDAIEYTTEPAILVARAMAPAIITSVKIEEN 305

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             +  V +  EQ S AIG+ G N+RLAS LTG+ I++
Sbjct: 306 --KAIVTLASEQKSKAIGKNGINIRLASMLTGYEIEL 340


>gi|315452942|ref|YP_004073212.1| transcription termination factor NusA [Helicobacter felis ATCC
           49179]
 gi|315131994|emb|CBY82622.1| transcription termination factor NusA [Helicobacter felis ATCC
           49179]
          Length = 376

 Score =  157 bits (398), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 107/353 (30%), Positives = 190/353 (53%), Gaps = 16/353 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L I + +AYEK +  ++V  V+ +SI K A++     ++    I+    D +L  ++E
Sbjct: 3   KILDIVELIAYEKGLSLEMVKEVVKNSILKVAKNTIDPQANFM--IDDSNKDFTLLHVVE 60

Query: 68  VVEE-----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V  +     V + T  ++L      DPS+    ++   +   D  R AV +  + +   +
Sbjct: 61  VCADDDPRLVADPTNTLALTEVLKDDPSLKPNDLLHYEISLKDMKRGAVNALFKDLEFNI 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDR 181
           + +  D+ + ++K  +  I+ G V  ++   N  V++     V+     I  E+ + GD 
Sbjct: 121 QRSLEDQYFQKYKGMLNTIVRGVVLDIDKNQNTFVEIEGVQAVLALRNRIKGESFKVGDT 180

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++ +  V   ++G  + LSRT P+F+  L H+EVPEI +  +++  ++R PG RAKLA+
Sbjct: 181 LRAILKSVHFSKQGLVLELSRTTPKFLEALLHLEVPEIADKEIEIMGIARIPGDRAKLAL 240

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S +  IDP+GA VG++G R+ A+  EL +E ID V ++     ++ NAL PA + K+ L
Sbjct: 241 RSHNVHIDPIGATVGVKGIRINAISKELCNESIDCVHYNEVPEIYIANALSPANIVKIEL 300

Query: 302 DEDV--GRIE----VIVPKEQLSLAIGRRGQNVRLASQLTGWTID--IITEEE 346
            +     +I+    V +  +Q S AIG+ G NVRLA  LTG+ ID  ++ EEE
Sbjct: 301 SQKTLEDKIQKNALVTLQADQKSKAIGKSGVNVRLACMLTGYEIDFNVLAEEE 353


>gi|78777942|ref|YP_394257.1| transcription elongation factor NusA [Sulfurimonas denitrificans
           DSM 1251]
 gi|78498482|gb|ABB45022.1| NusA antitermination factor [Sulfurimonas denitrificans DSM 1251]
          Length = 380

 Score =  157 bits (397), Expect = 5e-36,   Method: Compositional matrix adjust.
 Identities = 105/348 (30%), Positives = 185/348 (53%), Gaps = 13/348 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L I +A+A EK +  D V   +  +  + A+ +  +       IN +T  I + + + 
Sbjct: 3   KILDIVEAIANEKGLKSDKVKEALKAAFIQTAKRIINSKFAFEAVINTQTKTIDIIQTIT 62

Query: 68  VVEEV-------ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           VV +        E     IS+  AR+ D  +++   +  P    ++GR A     + I  
Sbjct: 63  VVSDSDERLKDEEIAPAYISITEAREYDDQVELDDQLQIPHDLEEYGRTAASQLHREIEY 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLRPG 179
            ++    D  + ++K K+G +++G V RV+  N   +++     V+     I  E  + G
Sbjct: 123 HIQRVVEDEIFNKYKSKIGSLVNGRVTRVDNQNSTYIEIDEIRAVLPIKNRIKGEIFKVG 182

Query: 180 DRVKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           D +K+ +  V   ++ G Q+ LSRT P+F+ +L  +EVPEI +G V V+  +R PG RAK
Sbjct: 183 DHLKAVVRRVDMNKENGIQIELSRTSPKFLEELLALEVPEISDGTVIVERSARIPGERAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +A+FS+   +D VGA VG++G R+ AV  EL  E ID + ++     F+   + PAI++ 
Sbjct: 243 VALFSTHPQVDAVGATVGVKGVRINAVSQELIGENIDCIEYTTIPELFISRIMSPAIISN 302

Query: 299 V-VLDEDVGRIE---VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
           V +L ++ G  +   + +P +Q S AIG+ G N+RLAS L+G  I+++
Sbjct: 303 VEILKDENGEAQKAIITLPTDQKSKAIGKNGINIRLASMLSGLNIELV 350


>gi|206896456|ref|YP_002247276.1| transcription termination factor NusA [Coprothermobacter
           proteolyticus DSM 5265]
 gi|206739073|gb|ACI18151.1| transcription termination factor NusA [Coprothermobacter
           proteolyticus DSM 5265]
          Length = 343

 Score =  155 bits (393), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 83/245 (33%), Positives = 135/245 (55%), Gaps = 4/245 (1%)

Query: 101 LPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN--VIVDL 158
            P  +  RV++Q+A+  +  ++ E  +++         GE+++  V R +     + +D+
Sbjct: 91  FPLSNLSRVSIQTAENTLKNRMNEKSKEKAIKRIAQFSGEVVTARVIRRDPKTKLIYMDV 150

Query: 159 GNSDGVIRRDETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVP 217
              + V+   E +  +   PGD ++  +   +     G  V LSR+ P  +  LF +EVP
Sbjct: 151 DGVECVLEPSEQLPTDRYAPGDSLRCLVLGAKNIPMYGQGVALSRSSPDLLKLLFTLEVP 210

Query: 218 EIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIV 277
           E+ +G+V++  ++R PG R+K+AV S D  +DP GAC+G +G R+QA+   L +EKID+V
Sbjct: 211 EVADGVVRIMGIARKPGRRSKVAVMSIDPRLDPQGACIGYKGQRIQAISRSLANEKIDVV 270

Query: 278 VWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTG 336
            W  D A  + N L P  V KV VLD    R  V    + + + +G  G+NV LA QLTG
Sbjct: 271 RWDTDPAKLIANVLSPGKVDKVEVLDPKNKRALVYTTPDNIKVVVGEDGENVELAEQLTG 330

Query: 337 WTIDI 341
           WTID+
Sbjct: 331 WTIDV 335


>gi|149194205|ref|ZP_01871303.1| transcription elongation factor NusA [Caminibacter mediatlanticus
           TB-2]
 gi|149136158|gb|EDM24636.1| transcription elongation factor NusA [Caminibacter mediatlanticus
           TB-2]
          Length = 356

 Score =  155 bits (392), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 111/341 (32%), Positives = 177/341 (51%), Gaps = 14/341 (4%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE----- 70
           VA EK +D + V      SI K A+ + G   DI V++  E   + +++   VV      
Sbjct: 11  VANEKGLDFEEVKEAFKRSIIKTAKKILG---DIDVDVEMEDKKLKIYQNFTVVNDDRAL 67

Query: 71  -EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
            E E Y   + L  ARD D +  IG  +   L     GR    + ++   +++     + 
Sbjct: 68  NEPEKY---LYLDEARDFDENAQIGDKLRAELDLSKLGRSGAMALQREFEREITRLLENE 124

Query: 130 QYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
            Y +   K+  I+SG V +V+   N  V+L    GV+ R   I  E  + GD +K+ +  
Sbjct: 125 IYRKLISKLNTIVSGEVIKVDNDENTYVELDGVRGVLPRRNRIKGEKFKVGDVLKALLKY 184

Query: 189 VRRE-QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           V  + ++G  + LSRT P+F+ KL    VPE+ +G++++   +R PG R+K+AV S +  
Sbjct: 185 VHFDNKKGITIELSRTSPKFLEKLIENAVPEVRDGLIKIHTSARIPGVRSKVAVSSLNPK 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDP+G  +G  G R+ A+  EL  E ID++ +SP    FV  AL PAIV  V +DE  G 
Sbjct: 245 IDPIGTIIGKNGVRINAISNELAGENIDVIEYSPQPEIFVARALSPAIVKSVKIDEKNGI 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
             V V   + + AIG+ G N+ LAS LT + I++ ++E+ +
Sbjct: 305 AYVDVDPSEKAKAIGKNGVNITLASMLTKYKIELKSQEKST 345


>gi|283954248|ref|ZP_06371772.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni 414]
 gi|283794266|gb|EFC33011.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni 414]
          Length = 362

 Score =  155 bits (391), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 107/336 (31%), Positives = 191/336 (56%), Gaps = 13/336 (3%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV-- 69
           I +++A EK+++ + V   +A ++   A+ +YG   +  V+  P+  +++L++ + +V  
Sbjct: 7   IIESIASEKNLNLENVRERVATALINTAKRIYGQEYEFFVD--PK--NLNLYQKITIVTD 62

Query: 70  --EEVENYT-CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
             E ++N +   I+L  A+   P ++IG  ++      + GR AV +  + +   +++  
Sbjct: 63  NDERLQNKSESFIALSKAKSEAPDVEIGDELTYECSLENLGRTAVNTLHKELEYHIQKLL 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
               + ++K+KVG+++ G+V RV+   N  +++      + R   I  E  + GD VK+ 
Sbjct: 123 EQTIFEKYKNKVGQMVFGSVVRVDNEENTYIEIDELRAFLPRKNRIKGEKFKIGDVVKAV 182

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V  + +G ++ LSRT P+F+  L   EVPEI +G V +   +R PG RAK+ + ++ 
Sbjct: 183 IRRVYTD-KGIKIELSRTSPKFLECLLEAEVPEIKDGYVNIVGCARIPGERAKIILQANG 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            +IDPVGA VG++G R+ AV  EL +E ID +  + +S   +  AL PAI+  V + ED 
Sbjct: 242 VNIDPVGATVGVKGVRINAVSKELHNENIDCIESTNESEILISRALAPAIINSVKI-EDK 300

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             I V +  EQ S AIG+ G N+RLAS L+G+ I++
Sbjct: 301 KAI-VSLNSEQKSKAIGKNGINIRLASMLSGYEIEL 335


>gi|222823361|ref|YP_002574935.1| transcription elongation factor NusA [Campylobacter lari RM2100]
 gi|222538583|gb|ACM63684.1| transcription elongation factor NusA [Campylobacter lari RM2100]
          Length = 363

 Score =  155 bits (391), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 110/360 (30%), Positives = 193/360 (53%), Gaps = 15/360 (4%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE- 70
           I +++A EK++  + V   +  ++   A+ +YG   +  V+      ++ L++ + VV  
Sbjct: 7   IIESIANEKNLQIEDVRERVKKALINTAKKIYGDKYEFFVD---SGKNLQLYQKIVVVSD 63

Query: 71  -----EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
                E EN    I+L  AR     ++IG  ++      + GR AV    + +   +++ 
Sbjct: 64  DDERLESENEHF-IALSKARAEAKDVEIGDELTYECSLENLGRTAVNILHKELEYNIQKL 122

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
             ++ Y +++  VG ++ G+V RV+   N  V++      + R   I  E  + GD +K+
Sbjct: 123 LEEKIYEKYQKMVGHMVFGSVVRVDSEENTYVEIDEFRAYLPRKNRIKGEKFKVGDVIKA 182

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            I  V  ++ G ++ LSRT P+F+  L   EVPEI +G++ + A +R PG RAK+ + ++
Sbjct: 183 VIRHVYIDKSGMRMELSRTSPKFLEALLKAEVPEIKDGLINIYASARIPGERAKIILQAN 242

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
             S+D VGA VG++G R+ AV  EL++E ID + +S + A  +  +L PAI+  V + ED
Sbjct: 243 SPSVDAVGATVGIKGVRINAVSKELKNENIDCIEYSNEMAILITRSLAPAIINSVSI-ED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI--ITEEEDSINRQKDFNERTQFF 362
              I V +  EQ S AIG+ G N+RLAS L G+ I++  I  E+ + N+++ F      F
Sbjct: 302 KKAI-VTLNSEQKSKAIGKSGINIRLASMLLGYEIELNEINNEDKTNNQEEAFKNLKALF 360


>gi|254457123|ref|ZP_05070551.1| transcription termination factor NusA [Campylobacterales bacterium
           GD 1]
 gi|207085915|gb|EDZ63199.1| transcription termination factor NusA [Campylobacterales bacterium
           GD 1]
          Length = 377

 Score =  154 bits (390), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 109/366 (29%), Positives = 190/366 (51%), Gaps = 20/366 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L I DA+A+EK +  + VL  +  +  + A+ +          I+  T  I + + + 
Sbjct: 3   KILDIVDAIAHEKGLQPEKVLEALKTAFVQTAKRVIDRNFAFEASIDESTKSIEIVQTIT 62

Query: 68  VV-------EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           V+       ++ E     IS+  AR+ D  +++   +  P    ++GR       + I  
Sbjct: 63  VLADDDQRLQDEEVAPAYISITDAREYDDQVELEDQLQVPHDLEEYGRTGASQLHREIEY 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPG 179
            ++    D  + ++K K+G +++G V  V+  N   +++     ++     I  E  + G
Sbjct: 123 HIQRLVEDELFNKYKSKIGSLVTGRVTSVDSHNATYIEVDEVRAILPMKSRIKGEVFKKG 182

Query: 180 DRVKSYIYDVRRE-QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           D +K+ +  V  + + G Q+ LSRT P+F+ +L  +EVPEI +G+V V+  +R PG RAK
Sbjct: 183 DHLKAVVRRVNLDKENGIQIELSRTSPKFLEELLALEVPEIADGVVIVERSARIPGERAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +A+ S+   +D VGA VG++G R+ AV  EL  E ID V ++     F+   + PAI++ 
Sbjct: 243 IALLSTHPQVDAVGATVGVKGVRINAVSQELIGENIDCVEYTTIPELFISRVMSPAIISH 302

Query: 299 V--VLDEDVGRIE---VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI-----ITEEEDS 348
           V  + +ED G  E   + +P +Q S AIG+ G N+RLAS LTG  I++     +T E+  
Sbjct: 303 VEIIRNED-GEAEKAIITLPADQKSKAIGKSGINIRLASMLTGLNIELVENNTVTTEDGE 361

Query: 349 INRQKD 354
           I   KD
Sbjct: 362 IEEAKD 367


>gi|154148222|ref|YP_001406096.1| transcription elongation factor NusA [Campylobacter hominis ATCC
           BAA-381]
 gi|153804231|gb|ABS51238.1| transcription termination factor NusA [Campylobacter hominis ATCC
           BAA-381]
          Length = 366

 Score =  154 bits (390), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 110/359 (30%), Positives = 183/359 (50%), Gaps = 10/359 (2%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV-- 69
           I +++A EK ++   V   +  +  + A+ ++G       +I+P +  I LF+ + VV  
Sbjct: 7   IIESIANEKGLEEAEVSEKVKIAFIQTAKKIFGEDFVYESQIDPVSKKIKLFQKVSVVAN 66

Query: 70  ----EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
               ++  N    I+L  A+  DP+I+IG  +S  +     GR A Q     +   ++  
Sbjct: 67  DFVLKDGLNEQNFITLDKAKKIDPTIEIGDEISYDINLEKIGRTASQILFNELNYHIQRL 126

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
             ++    + +K+GE++ G+V  V+      V++ +    +     I  E    GD + +
Sbjct: 127 LEEKILKHYNEKIGELVHGSVTGVDREQTTYVEVDDIKAYLPMKNRIKDEKFEVGDIINA 186

Query: 185 YIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            I  V  ++ +G ++ LSRT P+F+  L   EVPEI +G V +KA +R PG RAK+A+ +
Sbjct: 187 VIRHVFIDKNQGIKIELSRTSPKFLEALLKAEVPEIKDGSVILKACARIPGKRAKIALSA 246

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
              +IDPVGA VG +G R+ AV  EL+ E ID++ WS      V  A+ PAI   V + E
Sbjct: 247 ISPNIDPVGATVGTKGVRINAVSAELKKENIDVIEWSNQPEILVARAMSPAIANSVKISE 306

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           D  +  V +   Q S AIG+ G N+RLAS LTG  I+++   E     ++   +    F
Sbjct: 307 D--KAIVYINPAQKSKAIGKSGLNIRLASMLTGLQIELVETGESKKTNEEAMQDLKNLF 363


>gi|57168596|ref|ZP_00367729.1| transcription termination factor NusA [Campylobacter coli RM2228]
 gi|305433015|ref|ZP_07402171.1| transcription termination factor NusA [Campylobacter coli JV20]
 gi|57020101|gb|EAL56778.1| transcription termination factor NusA [Campylobacter coli RM2228]
 gi|304443716|gb|EFM36373.1| transcription termination factor NusA [Campylobacter coli JV20]
          Length = 362

 Score =  154 bits (389), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 104/336 (30%), Positives = 183/336 (54%), Gaps = 13/336 (3%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           I +++A EK++D + V   +  ++   A+ +YG   D  V+      +++L++ + VV +
Sbjct: 7   IIESIANEKNLDIESVKEKVIIALINTAKRIYGQEYDFFVD----RKNLNLYQKITVVAD 62

Query: 72  V-----ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                 EN    I    A+   P ++IG  ++      + GR AV    + +   +++  
Sbjct: 63  NDERLNENKESYIEFSKAKKEAPDVEIGDELTYECSLENLGRTAVNILHKELEYHIQKLL 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
               + ++K+KVG+++ G V R++   N  +++      + R   I  E  + GD VK+ 
Sbjct: 123 EQTIFEKYKNKVGQMVFGNVVRIDNEENTYIEIDELRAFLPRKNRIKGEKFKVGDVVKAV 182

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V  + +G ++ LSRT P+F+  L   EVPEI +G V V   +R PG RAK+ + ++ 
Sbjct: 183 IRRVYTD-KGIKMELSRTSPKFLECLLEAEVPEIKDGYVSVVKCARIPGERAKIILQANG 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           ++IDPVGA VG++G R+ AV  EL +E ID + +S +    +  AL PAIV+ V ++ + 
Sbjct: 242 ANIDPVGATVGVKGVRINAVSKELHNENIDCIEFSNEPEILIARALAPAIVSSVKIENE- 300

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            +  V +  EQ S AIG+ G N+RLA  L+G+ I++
Sbjct: 301 -KAIVTLNSEQKSKAIGKSGINIRLAGMLSGYEIEL 335


>gi|13507893|ref|NP_109842.1| transcription elongation factor NusA [Mycoplasma pneumoniae M129]
 gi|2499338|sp|P75591|NUSA_MYCPN RecName: Full=Transcription elongation protein nusA
 gi|1674384|gb|AAB96325.1| N-utilization substance protein A-like protein [Mycoplasma
           pneumoniae M129]
          Length = 540

 Score =  152 bits (385), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 103/352 (29%), Positives = 188/352 (53%), Gaps = 16/352 (4%)

Query: 9   LLQIADAVAYEKSID-RDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           LLQ+   VA  K++   DVVL +     Q   + L     ++ ++ N   G + + +L +
Sbjct: 12  LLQLIKNVAETKNLAIDDVVLCLKTALAQTYKKHLNYVNVEVNIDFN--KGLMQIEQLFD 69

Query: 68  VVEEV-ENYT--CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV++  E+Y    ++ L  A+  +P++++GGV+  P+   D     +     +  QK+ E
Sbjct: 70  VVDDNNEDYDDFLEMPLSEAKKLNPNLEVGGVLRKPVSLKDIKGDLISKMVLLFNQKINE 129

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGN------VIVDLGNSDGVIRRDETISRENLRP 178
                   +F ++VG++I   V+ ++          IV+L  + G + + E    E L  
Sbjct: 130 TAFKTVMSDFINEVGQVIEARVEDIDTNKDGGLKGYIVNLETTKGYMPKRELSKGEKLDI 189

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           G +    I +++++     + LSR+  + +  L +   PEI NG +++K + R PG+++K
Sbjct: 190 GKKYLFVIKEIQKQSSMWPITLSRSDSRLLEFLLNSNTPEIANGTIEIKKMERSPGTKSK 249

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA-IVT 297
           +AV S D  +DP+ A +G +G R++ +  E   E IDIV+W+ D   F++NA+ PA +V 
Sbjct: 250 VAVISKDPVVDPIAAILGPKGERIRGISEEFNGEIIDIVIWNEDKLKFLVNAVLPAEVVG 309

Query: 298 KVVL--DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW-TIDIITEEE 346
             +L  DE    IE++VP  Q++   G +G N+RL S LTGW ++D+ TE++
Sbjct: 310 YNILQDDERDTSIEIVVPANQIANVFGFKGINIRLISNLTGWSSVDVYTEKD 361


>gi|148925839|ref|ZP_01809526.1| transcription termination factor [Campylobacter jejuni subsp.
           jejuni CG8486]
 gi|145844825|gb|EDK21929.1| transcription termination factor [Campylobacter jejuni subsp.
           jejuni CG8486]
          Length = 300

 Score =  152 bits (384), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 94/264 (35%), Positives = 153/264 (57%), Gaps = 4/264 (1%)

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           I+L  A+   P ++IG  ++      + GR AV +  + +   +++      + ++K+KV
Sbjct: 13  IALSKAKSEAPDVEIGDELTYECSLENLGRTAVNTLHKELEYHIQKLLEQTIFEKYKNKV 72

Query: 139 GEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
           G+++ GTV RV+   N  +++      + R   I  E  + GD VK+ I  V  + +G +
Sbjct: 73  GQMVFGTVVRVDNEENTFIEIDELRAFLPRKNRIKGEKFKIGDVVKAVIRRVYTD-KGIK 131

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           + LSRT P+F+  L   EVPEI +G V +   +R PG RAK+ + ++ ++IDPVGA VG+
Sbjct: 132 IELSRTSPKFLECLLEAEVPEIKDGYVNIIGCARIPGERAKIILQANGANIDPVGATVGV 191

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQL 317
           +G R+ AV  EL +E ID + ++ +S   +  AL PAIV  V + ED   I V +  EQ 
Sbjct: 192 KGVRINAVSKELHNENIDCIEFTNESEILISRALAPAIVNSVKI-EDKKAI-VSLNSEQK 249

Query: 318 SLAIGRRGQNVRLASQLTGWTIDI 341
           S AIG+ G N+RLAS L+G+ I++
Sbjct: 250 SKAIGKNGINIRLASMLSGYEIEL 273


>gi|315638400|ref|ZP_07893578.1| transcription termination factor NusA [Campylobacter upsaliensis
           JV21]
 gi|315481528|gb|EFU72154.1| transcription termination factor NusA [Campylobacter upsaliensis
           JV21]
          Length = 358

 Score =  152 bits (383), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 106/357 (29%), Positives = 192/357 (53%), Gaps = 20/357 (5%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           I +++A EK+++ + V   +  ++   A+ +YG   +  V+       +SL++ + +V +
Sbjct: 7   IIESIANEKNLELESVKDKVITALINTAKKIYGEEYEFFVD----KKTLSLYQKILIVAD 62

Query: 72  V-----ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                 EN    I++  A+     ++IG  ++      + GR AV +  + +   +++  
Sbjct: 63  DDERLDENKESFIAISKAKKEAKDVEIGDELTYECSLENLGRTAVNTLHKELEYHIQKLL 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
               + ++K+KVG+++ G+V RV+   N  +++      + R   I  E  + GD VK+ 
Sbjct: 123 EQTIFDKYKNKVGQMVFGSVVRVDSEENTYIEIDELRAFLPRKNRIKGEKFKVGDVVKAV 182

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V  + +G ++ LSRT P+F+  L   EVPEI +G+V V   +R PG RAK+ + ++ 
Sbjct: 183 IRRVYTD-KGIKMELSRTSPKFLECLLEAEVPEIKDGLVSVVKCARIPGERAKIILQANS 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           S+IDPVGA VG++G R+ AV  E+ +E ID + +S ++   +  AL PAI+  V +++  
Sbjct: 242 SNIDPVGATVGVKGVRINAVSKEIHNENIDCIEYSSENEILIARALAPAIINSVKIEDKT 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI-------ITEEEDSINRQKDF 355
             +   +  EQ S AIG+ G N+RL S L+G+ I++       I+ EE   N Q  F
Sbjct: 302 AIVS--LNSEQKSKAIGKNGINIRLTSMLSGFEIELKELGAKTISNEEAMKNLQDLF 356


>gi|57242307|ref|ZP_00370246.1| transcription termination factor NusA [Campylobacter upsaliensis
           RM3195]
 gi|57016987|gb|EAL53769.1| transcription termination factor NusA [Campylobacter upsaliensis
           RM3195]
          Length = 358

 Score =  151 bits (382), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 106/357 (29%), Positives = 191/357 (53%), Gaps = 20/357 (5%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           I +++A EK+++ + V   +  ++   A+ +YG   +  V+       +SL++ + +V +
Sbjct: 7   IIESIANEKNLELESVKDKVITALINTAKKIYGEEYEFFVD----KKTLSLYQKILIVAD 62

Query: 72  V-----ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                 EN    I++  A+     ++IG  ++      + GR AV +  + +   +++  
Sbjct: 63  DDERLDENKESFIAISKAKKEAKDVEIGDELTYECSLENLGRTAVNTLHKELEYHIQKLL 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
               + ++K+KVG+++ G+V RV+   N  +++      + R   I  E  + GD VK+ 
Sbjct: 123 EQTIFDKYKNKVGQMVFGSVVRVDSEENTYIEIDELRAFLPRKNRIKGEKFKVGDVVKAV 182

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V  + +G ++ LSRT P+F+  L   EVPEI +G V V   +R PG RAK+ + ++ 
Sbjct: 183 IRRVYTD-KGIKMELSRTSPKFLECLLEAEVPEIKDGFVSVVKCARIPGERAKIILQANS 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           S+IDPVGA VG++G R+ AV  E+ +E ID + +S ++   +  AL PAI+  V +++  
Sbjct: 242 SNIDPVGATVGVKGVRINAVSKEIHNENIDCIEYSSENEILIARALAPAIINSVKIEDKT 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI-------ITEEEDSINRQKDF 355
             +   +  EQ S AIG+ G N+RL S L+G+ I++       I+ EE   N Q  F
Sbjct: 302 AIVS--LNSEQKSKAIGKNGINIRLTSMLSGFEIELKELGAKTISNEEAMKNLQDLF 356


>gi|34558085|ref|NP_907900.1| transcription elongation factor NusA [Wolinella succinogenes DSM
           1740]
 gi|34483803|emb|CAE10800.1| TRANSCRIPTION ELONGATION FACTOR [Wolinella succinogenes]
          Length = 375

 Score =  151 bits (381), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 108/342 (31%), Positives = 188/342 (54%), Gaps = 9/342 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L I + +AYEK +  D V   + ++I   A+          VEI+ +   + L++ + 
Sbjct: 3   KILDIIELIAYEKGLKIDSVAGAVKEAIIITAKKSLDEHIAYDVEIDKKNKTLKLYQKIL 62

Query: 68  VVEEVENYTC-----QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V    +          IS+  A++ D  +++G  +   L   +  R AV +  + +   +
Sbjct: 63  VCPPGDERLSSDPDNHISITEAKEMDEEVEVGDELRYELSLENMSRSAVNTLYKELEFHI 122

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +     + + ++K +VG+I+SG+V RV+  GN  V++      + +   I  E+ + G+ 
Sbjct: 123 QRLIETQLFEKYKSQVGKIVSGSVVRVDDEGNTFVEIDEIRAFLPKKNRIKGESFKVGNV 182

Query: 182 VKSYIYDVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           V + +  V  +++ G Q+ LSRT P+ + +L  +EVPEI +G V ++  +R PG RAK+A
Sbjct: 183 VGAILKHVSIDRKNGIQIELSRTTPKLLEELLRLEVPEIKDGDVTIEKCARIPGERAKVA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           + SS   ID VGA VG++G R+ AV  EL++E ID + +SP    FV  +L PA+++ V 
Sbjct: 243 ISSSSPKIDAVGATVGVKGVRINAVGKELKNENIDCIEYSPIPEMFVARSLSPALISSVK 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
           +D    +  V +P EQ   AIG+ G N+RLAS LTG+ I++I
Sbjct: 303 IDGT--KAIVTLPSEQKPKAIGKNGINIRLASMLTGYEIELI 342


>gi|256370754|ref|YP_003108579.1| transcription elongation factor NusA [Candidatus Sulcia muelleri
           SMDSEM]
 gi|256009546|gb|ACU52906.1| transcription elongation factor NusA [Candidatus Sulcia muelleri
           SMDSEM]
          Length = 342

 Score =  150 bits (378), Expect = 7e-34,   Method: Compositional matrix adjust.
 Identities = 91/319 (28%), Positives = 173/319 (54%), Gaps = 3/319 (0%)

Query: 28  LSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTCQISLKVAR 85
           +S++  S     +  YG + + ++  N + G+I ++R L++V  E ++N+  QI +  A 
Sbjct: 19  MSIIKKSFIFFLKKKYGKLKNYKIFFNYKNGEIEIWRDLKIVSDEIIKNFNKQIEISKAI 78

Query: 86  DRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGT 145
               ++ IG  + + +     G+  + S K+ +  K ++ +R  Q    K K+GEII   
Sbjct: 79  KIKKNLKIGDSLKEKIEYQQLGKKFLFSLKKDLFYKFKKFDRKNQLQILKKKIGEIIYAK 138

Query: 146 VKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTH 204
           V  +   N+      N+  ++ ++E I  E  + G+     I  V+  +    + LSR  
Sbjct: 139 VDYIINDNIFFKNNENNKMILLKEEQIPNEKFKKGNSFFLLIKKVKFIKNKIYLFLSRKD 198

Query: 205 PQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQA 264
             F+ KL  +E+PEI NG++ +K + R  G R+K+A+ S + +IDP+G CVG++GS+++ 
Sbjct: 199 KNFLKKLLELEIPEISNGLIIIKKIVRIAGERSKIAIKSKNKTIDPIGTCVGLKGSKLKN 258

Query: 265 VVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRR 324
           ++ E+ +E IDI+ +S +   ++  ++ PA V  + +D       + V  E++  AIG +
Sbjct: 259 IIKEINNEIIDIINYSSNIELYLTRSISPAKVAMIKIDRKKKLAFISVNSEEIKKAIGNK 318

Query: 325 GQNVRLASQLTGWTIDIIT 343
             N+RLAS+LTG+ I I+ 
Sbjct: 319 KTNLRLASKLTGYKIYILN 337


>gi|219558857|ref|ZP_03537933.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           T17]
          Length = 194

 Score =  149 bits (377), Expect = 8e-34,   Method: Compositional matrix adjust.
 Identities = 84/169 (49%), Positives = 115/169 (68%), Gaps = 1/169 (0%)

Query: 174 ENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDP 233
           E+   G+R++ Y+  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ 
Sbjct: 2   ESYEHGNRLRCYVVGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREA 61

Query: 234 GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP 293
           G R+K+AV S+ + ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL P
Sbjct: 62  GHRSKIAVRSNVAGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDDDPARFVANALSP 121

Query: 294 AIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           A V  V V+D+      V+VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 122 AKVVSVSVIDQTARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDI 170


>gi|162447183|ref|YP_001620315.1| transcription elongation factor NusA [Acholeplasma laidlawii PG-8A]
 gi|161985290|gb|ABX80939.1| transcription termination factor [Acholeplasma laidlawii PG-8A]
          Length = 358

 Score =  149 bits (376), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 102/346 (29%), Positives = 178/346 (51%), Gaps = 13/346 (3%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
             Q  + VA +  ++++ V       +  A +   G  +  RVE   E  ++ ++    V
Sbjct: 6   FFQNIEEVAEDNDLNKEQVFHAFEQGLIAACKKQLGVQT-CRVEFKEEKHELLIYGQYYV 64

Query: 69  VEEVE-------NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           + E E        YT  + L+ A+    S   G ++   + P +F   A +  K    + 
Sbjct: 65  LPEGELNLELDKKYTF-LKLEDAKALKKSAKAGEILEVKIEPSEFSYNASRDLKHRFNEV 123

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSD--GVIRRDETISRENLRPG 179
           + + +++  Y   KD   E+++  V   E     +++ N D   ++ + E +  +    G
Sbjct: 124 LNQIKKENIYQGLKDLQYEMVTARVLEEEKDFYRIEI-NKDVITMLPKKEALPTDKFHVG 182

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR+K Y+ DV  + +GP++ +SRTH   + +L    VPEI +G ++V  ++RDPG R+K+
Sbjct: 183 DRIKVYVTDVEMKTKGPKIYVSRTHVALVTRLLEEYVPEIKDGTIEVLGIARDPGDRSKV 242

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
            + S++ ++D +GA VG  G R++ +   L  EKID+  WS +    + N+L+PA V  V
Sbjct: 243 GLKSNNENVDVIGATVGEGGVRIKEISKFLSGEKIDLFRWSDNEQELIGNSLQPAPVVAV 302

Query: 300 V-LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
             ++        IVP  QLSLAIG+ GQNV+LA Q +GW+IDI +E
Sbjct: 303 TRVNPKEKSALAIVPDAQLSLAIGKLGQNVKLAVQASGWSIDIKSE 348


>gi|32266771|ref|NP_860803.1| transcription elongation factor NusA [Helicobacter hepaticus ATCC
           51449]
 gi|32262823|gb|AAP77869.1| transcription termination factor NusA [Helicobacter hepaticus ATCC
           51449]
          Length = 375

 Score =  149 bits (376), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 111/349 (31%), Positives = 181/349 (51%), Gaps = 13/349 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L I D +AY+K ++   VL ++ + + K A+       D  VE + +   + LF  ++
Sbjct: 3   KILDIIDLIAYDKGLESQAVLEIVKEGLIKIAQEEINPHYDYFVEQDAKERTLKLFYRMK 62

Query: 68  VVEEV-----ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V  +      EN    + L  A+     + IG  V   L      R A+      +   +
Sbjct: 63  VCADEQDLSEENLGTFLPLSQAKGLG-DVSIGDEVDCELQLDAMSRGAINKLFLNLEYNL 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           + +  ++    F+  VG+I++G V  ++  GN  +++ +   ++ +   I  EN + GD 
Sbjct: 122 QRSIENQILQNFRAMVGKIVNGQVVGIDDSGNTFIEIESIRAILPQKNRIKGENFKVGDC 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ +  V   + G QV LSRT P+F+ +L  MEVPEI +  V +   +R PG RAK+AV
Sbjct: 182 VRAILKFVGINRNGLQVELSRTTPKFLEELLAMEVPEIKDNEVIIHKSARIPGDRAKVAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S+ + IDP+G CVG++G R+ AV  EL +E ID V +      FV  AL PA V  V +
Sbjct: 242 YSNSARIDPIGCCVGVKGVRINAVSKELANENIDCVEYHSTLEIFVAKALTPAQVVSVKI 301

Query: 302 DE----DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI--ITE 344
           +E    +  +  V +  EQ S AIG+ G N+RLAS L    I++  ITE
Sbjct: 302 EEAQEGERKKAIVQIKSEQKSKAIGKNGVNIRLASMLCECDIELQEITE 350


>gi|317014930|gb|ADU82366.1| transcription elongation factor NusA [Helicobacter pylori
           Gambia94/24]
          Length = 395

 Score =  146 bits (369), Expect = 8e-33,   Method: Compositional matrix adjust.
 Identities = 100/361 (27%), Positives = 188/361 (52%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYEK++ ++++  V+   + K A++    ++  R  +  E   + L +L+EV+E+
Sbjct: 7   LIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLA--RYSVIEENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                V + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++ +A 
Sbjct: 65  DDERLVNDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V++  N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDHNQNTFIEIEQQFQGVLSMRHRIKGESFKIGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++ FS 
Sbjct: 185 VLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVSFFSH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           +S IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V     
Sbjct: 245 NSRIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVEVKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            +++  + + +V +   + S AIG+ G NV LAS LTG+ I+  
Sbjct: 305 PIEELSAEEKESVQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|297250843|ref|ZP_06865170.2| transcription termination/antitermination protein NusA [Neisseria
           polysaccharea ATCC 43768]
 gi|296837867|gb|EFH21805.1| transcription termination/antitermination protein NusA [Neisseria
           polysaccharea ATCC 43768]
          Length = 208

 Score =  145 bits (366), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 84/185 (45%), Positives = 129/185 (69%), Gaps = 4/185 (2%)

Query: 288 INALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EE 346
           ++AL PA V+++V+DED   ++VIV ++QL+LAIGR GQNVRLAS+LTGW ++I+T  E 
Sbjct: 1   MSALSPAEVSRIVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASELTGWQLNIMTSAEA 60

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
           D  N  +D   R + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE  
Sbjct: 61  DERNAAEDAAIR-RLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIV 119

Query: 407 VEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
             ++ RAR+ +  + I  ++K+ E  VS+++ ++ G+D+ +  +L E GI T +DLA  +
Sbjct: 120 DMLRNRARDAILTMAIAAEEKLGE--VSDDMRNLEGVDADMLRSLAEAGITTRDDLAELA 177

Query: 467 VDDLL 471
           VD+L+
Sbjct: 178 VDELI 182


>gi|15612472|ref|NP_224125.1| transcription elongation factor NusA [Helicobacter pylori J99]
 gi|11387009|sp|Q9ZJA6|NUSA_HELPJ RecName: Full=Transcription elongation protein nusA
 gi|4156020|gb|AAD06980.1| N-UTILIZATION SUBSTANCE PROTEIN A [Helicobacter pylori J99]
          Length = 395

 Score =  145 bits (366), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 100/361 (27%), Positives = 188/361 (52%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYEK++ ++++  V+   + K A++    ++  R  +  E   + L +L+EV+E+
Sbjct: 7   LIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLA--RYLVVEENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                V + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++ +A 
Sbjct: 65  DDERLVNDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V++  N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDHNQNTFIEIEQQFQGVLSMRHRIKGESFKIGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++ FS 
Sbjct: 185 VLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVSFFSH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           +S IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V     
Sbjct: 245 NSRIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVEIKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            +++  + + +V +   + S AIG+ G NV LAS LTG+ I+  
Sbjct: 305 PIEELSAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|317011648|gb|ADU85395.1| transcription elongation factor NusA [Helicobacter pylori
           SouthAfrica7]
          Length = 395

 Score =  144 bits (364), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 99/361 (27%), Positives = 189/361 (52%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYEK++ ++++  V+   + K A++    ++  R  +  E   + L +L+EV+E+
Sbjct: 7   LIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLA--RYLVIEENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                V + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++ +A 
Sbjct: 65  DDERLVNDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V+ + N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDNHQNTFIEIEQQFQGVLSMRHRIKGESFKIGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++ FS+
Sbjct: 185 VLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVSFFSN 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V     
Sbjct: 245 NARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVEIKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            +++  + + +V +   + S AIG+ G NV LAS LTG+ I+  
Sbjct: 305 PIEELSTEEKESIQERFIVNNHLQKAKVRLLDTEKSKAIGKGGVNVCLASMLTGYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|307638171|gb|ADN80621.1| Transcription termination protein [Helicobacter pylori 908]
          Length = 395

 Score =  144 bits (364), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 100/361 (27%), Positives = 187/361 (51%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYEK++ ++++  V+   + K A++    ++  R  +  E   + L +L+EV+E+
Sbjct: 7   LIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLA--RYSVVEENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                V + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++ +A 
Sbjct: 65  DDERLVNDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDKNQNTFIEIEQQFQGVLSMRHRIKGESFKIGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++ FS 
Sbjct: 185 VLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVSFFSH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           +S IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V     
Sbjct: 245 NSRIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVEVKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            +++  + + +V +   + S AIG+ G NV LAS LTG+ I+  
Sbjct: 305 PIEELNAEEKESVQERFIVNNHLQKAKVRLLDVEKSKAIGKGGVNVCLASMLTGYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|15646123|ref|NP_208305.1| transcription elongation factor NusA [Helicobacter pylori 26695]
 gi|2499337|sp|P55977|NUSA_HELPY RecName: Full=Transcription elongation protein nusA
 gi|2314694|gb|AAD08555.1| transcription termination factor NusA (nusA) [Helicobacter pylori
           26695]
          Length = 395

 Score =  144 bits (364), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 99/361 (27%), Positives = 188/361 (52%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYEK++ ++++  V+   + K A++    ++  R  +  E   + L +L+EV+E+
Sbjct: 7   LIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLA--RYLVVEENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                V + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++ +A 
Sbjct: 65  GDERLVNDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V++  N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDHNQNTFIEIEQQFQGVLSMRHRIKGESFKVGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++ FS 
Sbjct: 185 VLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVSFFSH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V     
Sbjct: 245 NARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVEIKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            +++  + + +V +   + S AIG+ G NV LAS LTG+ I+  
Sbjct: 305 PIEELNAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|308183617|ref|YP_003927744.1| transcription elongation factor NusA [Helicobacter pylori PeCan4]
 gi|308065802|gb|ADO07694.1| transcription elongation factor NusA [Helicobacter pylori PeCan4]
          Length = 395

 Score =  144 bits (363), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 98/361 (27%), Positives = 188/361 (52%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYEK++ ++++  V+   + K A++    ++  R  +  E   + L +L+EV+E+
Sbjct: 7   LIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLA--RYLVVEENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                + + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++ +A 
Sbjct: 65  SDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V++  N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDHNQNTFIEIEQQFQGVLSMRHRIKGESFKVGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++ FS 
Sbjct: 185 VLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVSFFSH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V     
Sbjct: 245 NARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVEIKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            +++  + + +V +   + S AIG+ G NV LAS LTG+ I+  
Sbjct: 305 PIEELSAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|188528283|ref|YP_001910970.1| transcription elongation factor NusA [Helicobacter pylori Shi470]
 gi|188144523|gb|ACD48940.1| transcription elongation factor NusA [Helicobacter pylori Shi470]
          Length = 395

 Score =  144 bits (363), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 98/361 (27%), Positives = 188/361 (52%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYEK++ ++++  V+   + K A++    ++  R  +  E   + L +L+EV+E+
Sbjct: 7   LIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLA--RYLVVEENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                + + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++ +A 
Sbjct: 65  GDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V++  N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDHNQNTFIEIEQQFQGVLSMRHRIKGESFKVGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++ FS 
Sbjct: 185 VLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVSFFSH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V     
Sbjct: 245 NARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVEIKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            +++  + + +V +   + S AIG+ G NV LAS LTG+ I+  
Sbjct: 305 PIGELSAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|108563823|ref|YP_628139.1| transcription elongation factor NusA [Helicobacter pylori HPAG1]
 gi|107837596|gb|ABF85465.1| transcription termination factor [Helicobacter pylori HPAG1]
          Length = 395

 Score =  144 bits (363), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 98/361 (27%), Positives = 188/361 (52%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYEK++ ++++  V+   + K A++    ++  R  +  E   + L +L+EV+E+
Sbjct: 7   LIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLA--RYLVVEENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                + + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++ +A 
Sbjct: 65  NDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V++  N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDHNQNTFIEIEQQFQGVLSMRHRIKGESFKVGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++ FS 
Sbjct: 185 VLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVSFFSH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V     
Sbjct: 245 NARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVEVKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            +++  + + +V +   + S AIG+ G NV LAS LTG+ I+  
Sbjct: 305 PIEELNAEEKESVQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|208435381|ref|YP_002267047.1| transcription termination factor [Helicobacter pylori G27]
 gi|208433310|gb|ACI28181.1| transcription termination factor [Helicobacter pylori G27]
          Length = 395

 Score =  144 bits (363), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 98/361 (27%), Positives = 188/361 (52%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYEK++ ++++  V+   + K A++    ++  R  +  E   + L +L+EV+E+
Sbjct: 7   LIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLA--RYLVVEENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                + + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++ +A 
Sbjct: 65  DDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V++  N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDHNQNTFIEIEQQFQGVLSMRHRIKGESFKVGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++ FS 
Sbjct: 185 VLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVSFFSH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V     
Sbjct: 245 NARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVEIKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            +++  + + +V +   + S AIG+ G NV LAS LTG+ I+  
Sbjct: 305 PIEELNAEEKESVQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|317178222|dbj|BAJ56011.1| transcription elongation factor NusA [Helicobacter pylori F16]
          Length = 395

 Score =  144 bits (363), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 99/361 (27%), Positives = 188/361 (52%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYEK++ +++V  V+   + K A++    ++  R  +  E   + L +L+EV+E+
Sbjct: 7   LIECIAYEKNLPKEMVSKVIQGCLLKMAQNELDPLA--RYLVIEENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                + + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++ +A 
Sbjct: 65  DDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V+ + N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDNHQNTFIEIEQQFQGVLSMRHRIKGESFKVGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++ FS 
Sbjct: 185 VLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVSFFSH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V     
Sbjct: 245 NTRIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVEIKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            +++  + + +V +   + S AIG+ G NV LAS LTG+ I+  
Sbjct: 305 PIEELSAKEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|217031863|ref|ZP_03437366.1| hypothetical protein HPB128_199g71 [Helicobacter pylori B128]
 gi|298735514|ref|YP_003728035.1| N utilization substance protein A [Helicobacter pylori B8]
 gi|216946515|gb|EEC25117.1| hypothetical protein HPB128_199g71 [Helicobacter pylori B128]
 gi|298354699|emb|CBI65571.1| N utilization substance protein A [Helicobacter pylori B8]
          Length = 395

 Score =  143 bits (361), Expect = 6e-32,   Method: Compositional matrix adjust.
 Identities = 98/361 (27%), Positives = 188/361 (52%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYEK++ ++++  V+   + K A++    ++  R  +  E   + L +L+EV+E+
Sbjct: 7   LIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLA--RYLVVEENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                + + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++ +A 
Sbjct: 65  GDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V++  N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDHNQNTFIEIEQQFQGVLSMRHRIKGESFKVGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++ FS 
Sbjct: 185 VLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVSFFSH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V     
Sbjct: 245 NARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVEVKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            +++  + + +V +   + S AIG+ G NV LAS LTG+ I+  
Sbjct: 305 PIEELSAEEKESVQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|315585900|gb|ADU40281.1| transcription termination factor NusA [Helicobacter pylori 35A]
          Length = 395

 Score =  143 bits (361), Expect = 6e-32,   Method: Compositional matrix adjust.
 Identities = 98/361 (27%), Positives = 188/361 (52%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYEK++ ++++  V+   + K A++    ++  R  +  E   + L +L+EV+E+
Sbjct: 7   LIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLA--RYLVIEENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                + + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++ +A 
Sbjct: 65  DDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V+ + N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDNHQNTFIEIEQQFQGVLSMRHRIKGESFKVGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++ FS 
Sbjct: 185 VLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVSFFSH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V     
Sbjct: 245 NARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVEIKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            +++  + + +V +   + S AIG+ G NV LAS LTG+ I+  
Sbjct: 305 PIEELSAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|325996770|gb|ADZ52175.1| Transcription termination protein [Helicobacter pylori 2018]
 gi|325998365|gb|ADZ50573.1| Transcription termination protein [Helicobacter pylori 2017]
          Length = 395

 Score =  143 bits (360), Expect = 8e-32,   Method: Compositional matrix adjust.
 Identities = 99/361 (27%), Positives = 186/361 (51%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYEK++ ++++  V+   + K A++    ++  R  +  E   + L +L+EV+E+
Sbjct: 7   LIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLA--RYSVVEENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                V + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++ +A 
Sbjct: 65  DDERLVNDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDKNQNTFIEIEQQFQGVLSMRHRIKGESFKIGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++ FS 
Sbjct: 185 VLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVSFFSH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           +S IDP+G  VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V     
Sbjct: 245 NSRIDPIGTAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVEVKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            +++  + + +V +   + S AIG+ G NV LAS LTG+ I+  
Sbjct: 305 PIEELNAEEKESVQERFIVNNHLQKAKVRLLDVEKSKAIGKGGVNVCLASMLTGYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|207092969|ref|ZP_03240756.1| transcription elongation factor NusA [Helicobacter pylori
           HPKX_438_AG0C1]
          Length = 387

 Score =  143 bits (360), Expect = 9e-32,   Method: Compositional matrix adjust.
 Identities = 98/361 (27%), Positives = 188/361 (52%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYEK++ ++++  V+   + K A++    ++  R  +  E   + L +L+EV+E+
Sbjct: 7   LIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLA--RYLVVEENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                + + +  ISL  A++ DPS+ I   +S  L   +  + A+    + +  ++ +A 
Sbjct: 65  NDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLENMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDSNQNTFIEIEQQFQGVLSMRHRIKGESFKVGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++ FS 
Sbjct: 185 VLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVSFFSH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V     
Sbjct: 245 NARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVEIKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            +++  + + +V +   + S AIG+ G NV LAS LTG+ I+  
Sbjct: 305 PIEELNAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|317010112|gb|ADU80692.1| transcription elongation factor NusA [Helicobacter pylori India7]
          Length = 395

 Score =  143 bits (360), Expect = 9e-32,   Method: Compositional matrix adjust.
 Identities = 98/361 (27%), Positives = 187/361 (51%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYEK++ ++++  V+   + K A++    ++  R  +  E   + L +L+EV+E+
Sbjct: 7   LIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLA--RYLVVEENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                + + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++ +A 
Sbjct: 65  NDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V++  N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDHNQNTFIEIEQQFQGVLSMRHRIKGESFKVGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++    R PG+RAK++ FS 
Sbjct: 185 VLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCVRIPGNRAKVSFFSH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V     
Sbjct: 245 NARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVEIKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            +++  + + +V +   + S AIG+ G NV LAS LTG+ I+  
Sbjct: 305 PLEELNAEEKESVQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|217034292|ref|ZP_03439709.1| hypothetical protein HP9810_885g23 [Helicobacter pylori 98-10]
 gi|216943264|gb|EEC22729.1| hypothetical protein HP9810_885g23 [Helicobacter pylori 98-10]
          Length = 395

 Score =  142 bits (359), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 97/361 (26%), Positives = 188/361 (52%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYEK++ ++++  ++   + K A++    ++  R  +  E   + L +L+EV+E+
Sbjct: 7   LIECIAYEKNLPKEMISKMIQGCLLKMAQNELDPLA--RYLVIEENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                + + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++ +A 
Sbjct: 65  DDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V+ + N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDNHQNTFIEIEQQFQGVLSMRHRIKGESFKVGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++ FS 
Sbjct: 185 VLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCTRIPGNRAKVSFFSH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V     
Sbjct: 245 NARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVEIKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            +++  + + +V +   + S AIG+ G NV LAS LTG+ I+  
Sbjct: 305 PIEELSAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|308185285|ref|YP_003929418.1| transcription elongation factor NusA [Helicobacter pylori SJM180]
 gi|308061205|gb|ADO03101.1| transcription elongation factor NusA [Helicobacter pylori SJM180]
          Length = 395

 Score =  142 bits (359), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 98/361 (27%), Positives = 187/361 (51%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYEK++ ++++  V+   + K A++    ++  R  +  E   + L +L+EV+E+
Sbjct: 7   LIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLA--RYLVVEENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                + + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++ +A 
Sbjct: 65  NDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDNNQNTFIEIEQQFQGVLSMRHRIKGESFKVGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++ FS 
Sbjct: 185 VLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVSFFSH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V     
Sbjct: 245 NARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVEIKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            +++  + + +V +   + S AIG+ G NV LAS LTG+ I+  
Sbjct: 305 PIEELSAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|297380632|gb|ADI35519.1| transcription termination factor NusA [Helicobacter pylori v225d]
          Length = 395

 Score =  142 bits (359), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 98/361 (27%), Positives = 187/361 (51%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYEK++ ++++  V+   + K A++    ++  R  +  E   + L +L+EV+E+
Sbjct: 7   LIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLA--RYLVVEENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                + + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++ +A 
Sbjct: 65  NDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDNNQNTFIEIEQQFQGVLSMRHRIKGESFKVGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++ FS 
Sbjct: 185 VLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVSFFSH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V     
Sbjct: 245 NARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVEIKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            +++  + + +V +   + S AIG+ G NV LAS LTG+ I+  
Sbjct: 305 PIEELSAEEKESVQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|308062778|gb|ADO04666.1| transcription elongation factor NusA [Helicobacter pylori Cuz20]
          Length = 395

 Score =  142 bits (358), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 98/361 (27%), Positives = 187/361 (51%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYEK++ ++++  V+   + K A++    ++  R  +  E   + L +L+EV+E+
Sbjct: 7   LIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLA--RYLVVEENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                + + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++ +A 
Sbjct: 65  GDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDNNQNTFIEIEQQFQGVLSMRHRIKGESFKVGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++ FS 
Sbjct: 185 VLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVSFFSH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V     
Sbjct: 245 NARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVEIKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            +++  + + +V +   + S AIG+ G NV LAS LTG+ I+  
Sbjct: 305 PIEELSAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|332674287|gb|AEE71104.1| transcription termination factor NusA [Helicobacter pylori 83]
          Length = 395

 Score =  142 bits (358), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 98/361 (27%), Positives = 187/361 (51%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYEK++ ++++  V+   + K A++    ++  R  +  E   + L +L+EV+E+
Sbjct: 7   LIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLA--RYLVIEENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                + + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++ +A 
Sbjct: 65  DDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDNNQNTFIEIEQQFQGVLSMRHRIKGESFKVGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++ FS 
Sbjct: 185 VLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVSFFSH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V     
Sbjct: 245 NARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVEIKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            +++  + + +V +   + S AIG+ G NV LAS LTG+ I+  
Sbjct: 305 PIEELSAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|317013286|gb|ADU83894.1| transcription elongation factor NusA [Helicobacter pylori
           Lithuania75]
          Length = 395

 Score =  142 bits (358), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 98/361 (27%), Positives = 187/361 (51%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYEK++ ++++  V+   + K A++    ++  R  +  E   + L +L+EV+E+
Sbjct: 7   LIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLA--RYLVVEENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                + + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++ +A 
Sbjct: 65  GDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDSNQNTFIEIEQQFQGVLSMRHRIKGESFKVGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++ FS 
Sbjct: 185 VLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVSFFSH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V     
Sbjct: 245 NARIDPIGATVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVEIKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            +++  + + +V +   + S AIG+ G NV LAS LTG+ I+  
Sbjct: 305 PIEELNAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|317181199|dbj|BAJ58985.1| transcription elongation factor NusA [Helicobacter pylori F32]
          Length = 395

 Score =  142 bits (358), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 98/361 (27%), Positives = 187/361 (51%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYEK++ ++++  V+   + K A++    ++  R  +  E   + L +L+EV+E+
Sbjct: 7   LIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLA--RYLVIEENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                + + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++ +A 
Sbjct: 65  DDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDNNQNTFIEIEQQFQGVLSMRHRIKGESFKIGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++ FS 
Sbjct: 185 VLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVSFFSH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V     
Sbjct: 245 NARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVEIKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            +++  + + +V +   + S AIG+ G NV LAS LTG+ I+  
Sbjct: 305 PIEELSAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|254780024|ref|YP_003058131.1| transcription elongation factor NusA [Helicobacter pylori B38]
 gi|254001937|emb|CAX30190.1| Transcription elongation protein NusA [Helicobacter pylori B38]
          Length = 395

 Score =  142 bits (358), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 99/361 (27%), Positives = 187/361 (51%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYEK++ ++++  V+   + K A++    ++  R  +  E   + L +L+EV+E+
Sbjct: 7   LIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLA--RYLVVEENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                + + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++ +A 
Sbjct: 65  DDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDSNQNTFIEIEQQFQGVLSMRHRIKGESFKVGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++ FS 
Sbjct: 185 VLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVSFFSH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V     
Sbjct: 245 NARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVEIKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            V++  + + +V +   + S AIG+ G NV LAS LTG+ I+  
Sbjct: 305 PIEELSAEEKESIQERFVVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|317179693|dbj|BAJ57481.1| transcription elongation factor NusA [Helicobacter pylori F30]
          Length = 395

 Score =  142 bits (358), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 98/361 (27%), Positives = 187/361 (51%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+EV+E+
Sbjct: 7   LIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLAHYLVV--EENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                + + +  ISL  A++ DPS+ I   +S  L   +  + A+    + +  ++ +A 
Sbjct: 65  GDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLENMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V+ + N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDNHQNTFIEIEQQFQGVLSMRHRIKGESFKVGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++    R PG+RAK++ FS 
Sbjct: 185 VLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCVRIPGNRAKVSFFSH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V     
Sbjct: 245 NARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVEIKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            +++  + + +V +   + S AIG+ G NV LAS LTG+ I+  
Sbjct: 305 PIEELNAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|261838788|gb|ACX98554.1| transcription termination factor A [Helicobacter pylori 51]
          Length = 395

 Score =  141 bits (356), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 98/361 (27%), Positives = 186/361 (51%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+EV+E+
Sbjct: 7   LIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLAHYLV--IEENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                + + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++ +A 
Sbjct: 65  GDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDNNQNTFIEIEQQFQGVLSMRHRIKGESFKVGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++ FS 
Sbjct: 185 VLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVSFFSH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V     
Sbjct: 245 NARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVEIKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            +++  + + +V +   + S AIG+ G NV LAS LTG+ I+  
Sbjct: 305 LIEELSAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|261840189|gb|ACX99954.1| transcription elongation factor NusA [Helicobacter pylori 52]
          Length = 395

 Score =  141 bits (356), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 98/361 (27%), Positives = 186/361 (51%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+EV+E+
Sbjct: 7   LIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLAHYLV--IEENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                V + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++ +A 
Sbjct: 65  GDERLVNDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDNNQNTFIEIEQQFQGVLSMRHRIKGESFKVGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  ++R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++ FS 
Sbjct: 185 VLTQIKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVSFFSH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V     
Sbjct: 245 NARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVEIKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            +++  + + +V +   + S AIG+ G NV LAS LTG+ I+  
Sbjct: 305 PIEELNTEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|317182719|dbj|BAJ60503.1| transcription elongation factor NusA [Helicobacter pylori F57]
          Length = 395

 Score =  141 bits (355), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 96/361 (26%), Positives = 188/361 (52%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYE+++ ++++  V+   + K  ++    ++  R  +  E   + L +L+EV+E+
Sbjct: 7   LIECIAYERNLPKEMISKVIQGCLLKMVQNELDPLA--RYLVVEENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                + + +  ISL  A++ DPS+ I   +S  L   +  + A+    + +  ++ +A 
Sbjct: 65  NDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLENMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V+ + N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDNHQNTFIEIEQQFQGVLSMRHRIKGESFKVGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++ FS 
Sbjct: 185 VLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVSFFSH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V     
Sbjct: 245 NARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVEIKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            +++  + + +V +   + S AIG+ G NV LAS LTG+ I+  
Sbjct: 305 PIEELSAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|308064276|gb|ADO06163.1| transcription elongation factor NusA [Helicobacter pylori Sat464]
          Length = 395

 Score =  141 bits (355), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 98/361 (27%), Positives = 186/361 (51%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYEK++ ++++  V+   + K A++    ++  R  +  E   + L +L+EV+E+
Sbjct: 7   LIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLA--RYLVVEENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                + + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++ +A 
Sbjct: 65  NDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDNNQNTFIEIEQQFQGVLSMRHRIKGESFKVGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++    R PG+RAK++ FS 
Sbjct: 185 VLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCVRIPGNRAKVSFFSH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V     
Sbjct: 245 NARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVEIKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            +++  + + +V +   + S AIG+ G NV LAS LTG+ I+  
Sbjct: 305 PIGELNAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|257459336|ref|ZP_05624449.1| transcription termination factor NusA [Campylobacter gracilis
           RM3268]
 gi|257443265|gb|EEV18395.1| transcription termination factor NusA [Campylobacter gracilis
           RM3268]
          Length = 375

 Score =  140 bits (354), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 110/350 (31%), Positives = 186/350 (53%), Gaps = 18/350 (5%)

Query: 8   ELLQIADAVAYEKSID-RDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           ++  I +++A EK ++  DV   V    IQ A R L+G       E++P+T  + L++ +
Sbjct: 3   KITDIIESIANEKGLEPADVKERVKTAFIQTAKR-LFGEEYLYDSEVDPQTKRVKLYQKV 61

Query: 67  EVV----EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            VV    E + ++   I+L  A+    + +IG  +S  +   + GR A     + +   +
Sbjct: 62  HVVADDDERLGDHNF-IALSEAKKIGENAEIGDELSYEINIENLGRTASGVLARELNFHI 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +    ++ +  +K KVG +  GTV ++++ G   V++ ++   +     I  EN + GD 
Sbjct: 121 QRLLEEKIFENYKSKVGTLTHGTVTKIDHDGTTYVEIEDTKAFMPLKNRIKGENFKVGDV 180

Query: 182 VKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           +++ I +V  ++  G ++ LSRT P+F+  L   EVPEI +G V ++A +R PG RAK+A
Sbjct: 181 LQAVIKNVAIDKSHGIRLELSRTSPKFLEALLAAEVPEIKDGSVIIQACARIPGRRAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAV----VTELRD----EKIDIVVWSPDSATFVINALR 292
           +     ++DPVGA VG  G+R+ AV       L+D    E ID   +S      +  A+ 
Sbjct: 241 LSVVSPNVDPVGATVGKGGARIDAVSKFLSKNLQDGSGGESIDAFEYSASPEILITRAMA 300

Query: 293 PAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
           PAIV  V + +D G+  V V  +Q S AIG+ G N+RLAS L G  I++I
Sbjct: 301 PAIVNSVKITQD-GKAIVYVNPDQKSKAIGKNGLNIRLASMLCGCEIELI 349


>gi|210135681|ref|YP_002302120.1| transcription elongation factor NusA [Helicobacter pylori P12]
 gi|210133649|gb|ACJ08640.1| transcription termination factor A [Helicobacter pylori P12]
          Length = 395

 Score =  140 bits (354), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 98/361 (27%), Positives = 186/361 (51%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYEK++ ++++  V+   + K A++    ++  R  +  E   + L +L+EV+E+
Sbjct: 7   LIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLA--RYLVVEENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                + + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++ +A 
Sbjct: 65  DDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDSNQNTFIEIEQQFQGVLSMRHRIKGESFKVGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++ FS 
Sbjct: 185 VLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVSFFSH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++   L PA +  V     
Sbjct: 245 NARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLVLAPAKILSVEIKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            V++  + + +V +   + S AIG+ G NV LAS LTG+ I+  
Sbjct: 305 PIEELSAEEKESIQERFVVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|325973212|ref|YP_004250276.1| transcription termination factor NusA [Mycoplasma suis str.
           Illinois]
 gi|325989656|ref|YP_004249355.1| antitermination factor NusA [Mycoplasma suis KI3806]
 gi|323574741|emb|CBZ40397.1| antitermination factor NusA [Mycoplasma suis]
 gi|323651814|gb|ADX97896.1| transcription termination factor NusA [Mycoplasma suis str.
           Illinois]
          Length = 421

 Score =  140 bits (354), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 103/392 (26%), Positives = 193/392 (49%), Gaps = 38/392 (9%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  + L+    ++ E S+++  +   + +S +      Y   S +++EI+ E   I L++
Sbjct: 4   NHKQFLEAITKISKEYSLEKSTISDFLKESFKYVFEREYSD-SLVKLEIDLENCKIELWK 62

Query: 65  LLEVVEE-------VENYTCQISL-KVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQ 116
            L+VV E       +E+  C I + K+ +     + +G   S+P+   D     V++   
Sbjct: 63  ELKVVTEEYFYGEGMEDSECLIPVSKLPQRYQKKLKVGQYYSEPVNLEDLSTKIVKNILF 122

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN------VIVDL-------GNSDG 163
              +   E    + + ++  + GE+  G V+++          +IV L         + G
Sbjct: 123 HFQKLTLETVNQKIHEKWISRKGEVFEGMVEKIFETKEKLPKEIIVSLIDPENEAHTTKG 182

Query: 164 VIRRDETIS---------RENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHM 214
           ++ R + I           ENL PG      I +V     G  ++LSRT P  +  L   
Sbjct: 183 IVYRSDLIQALSNDGYRLYENLVPGKIYNFEIKEVLENSAGCPIILSRTSPAIVKYLMKK 242

Query: 215 EVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKI 274
            + E+++G+V + A++R  G R+K+ V + +++IDPVG C+G +G+R++ + ++L +E+I
Sbjct: 243 HISEVHDGLVTINAIARISGMRSKVLVSTKNNNIDPVGCCIGPKGNRLKVISSQLLNERI 302

Query: 275 DIVVWSPDSATFVINALRPA-IVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQ 333
           D+++W+ D    +INA     I+   + +E+   I +I   + L LAIG+RG NV+L S 
Sbjct: 303 DVILWNSDPIKNIINAFSGTRILGYKISEEEENSITLITTIDNLLLAIGKRGTNVKLVSL 362

Query: 334 LTGWTIDIITEEEDSINR------QKDFNERT 359
           LTGW I + T +E    R       KD++ +T
Sbjct: 363 LTGWKIFLKTIQEAKAERINYLPIDKDWDAKT 394


>gi|109946702|ref|YP_663930.1| transcription elongation factor NusA [Helicobacter acinonychis str.
           Sheeba]
 gi|109713923|emb|CAJ98931.1| N utilization substance protein A [Helicobacter acinonychis str.
           Sheeba]
          Length = 395

 Score =  140 bits (353), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 98/361 (27%), Positives = 186/361 (51%), Gaps = 31/361 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +AYEK++ ++++  V+   + K A++    ++  R  +  E   + L +L+EV+E+
Sbjct: 7   LIECIAYEKNLPKEMISKVVQGCLLKMAQNELDPLA--RYLVIEENKQLQLIQLVEVLED 64

Query: 72  -----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
                + + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++ +A 
Sbjct: 65  DDEGLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQLEKAL 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNS-DGVIRRDETISRENLRPGDRVKS 184
            D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD +K+
Sbjct: 125 EDSHFEAFQKRLNSVLMGQVILVDNNQNTFIEIEQQFQGVLSMRHRIKGESFKIGDSIKA 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++    R PG+RAK++ FS+
Sbjct: 185 VLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCVRIPGNRAKVSFFSN 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV----- 299
           +S IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V     
Sbjct: 245 NSRIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVEIKKI 304

Query: 300 -----------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                            +++  + + +V +   + S AIG+ G NV LAS LT + I+  
Sbjct: 305 PIEELSAQEKELIQERFIVNNHLQKAKVRLLDTEKSKAIGKGGVNVCLASMLTSYHIEFE 364

Query: 343 T 343
           T
Sbjct: 365 T 365


>gi|224438382|ref|ZP_03659309.1| transcription elongation factor NusA [Helicobacter cinaedi CCUG
           18818]
 gi|313144824|ref|ZP_07807017.1| transcription elongation factor NusA [Helicobacter cinaedi CCUG
           18818]
 gi|313129855|gb|EFR47472.1| transcription elongation factor NusA [Helicobacter cinaedi CCUG
           18818]
          Length = 398

 Score =  139 bits (350), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 105/358 (29%), Positives = 183/358 (51%), Gaps = 25/358 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L I D +AY+K +D  VVL ++ + + K A+     +    VE + +   + LF   +
Sbjct: 3   KILDIIDLIAYDKGLDNGVVLEIVKNGLIKIAQEEINPLYHYIVEPDVKERILKLFYRKK 62

Query: 68  VVEE-----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V  +      E+    I L  A++    + +G  +   L   +  R A+      +   +
Sbjct: 63  VCADDVKLTEEDLATSIPLSQAKEFG-DVSVGDELDCELQLDEMSRGAINKLFLNLEYNL 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           + +  D+    F+ ++G+I++G V  V E GN  V++ +   ++ +   I  E+ + GD 
Sbjct: 122 QRSIEDQILQGFRAQLGKIVNGQVVGVDERGNTFVEIDSIRALLPQKNRIKGESFKVGDT 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++ +  V   + G QV LSRT P+F+ +L  +EVPEI +  V +   +R PG RAK+AV
Sbjct: 182 IRAVLKFVGINKNGLQVELSRTTPKFLEELLALEVPEIKDNEVMIFKSARIPGDRAKVAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S++  IDP+G CVG++G R+ AV  EL +E ID V +      F+  AL PA +  V +
Sbjct: 242 YSNNPRIDPIGCCVGVKGVRINAVSKELANENIDCVEYHSTLEIFIAKALTPAQILSVKI 301

Query: 302 DE-DVGRIE-----------------VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            E ++ + E                 V++  +Q S AIG+ G N+RLAS L    I++
Sbjct: 302 QEQNIEQSERENMEGEKEKNERKKAIVLIKSDQKSKAIGKGGVNIRLASMLCDCDIEL 359


>gi|47458985|ref|YP_015847.1| transcription elongation factor NusA [Mycoplasma mobile 163K]
 gi|47458313|gb|AAT27636.1| N-utilization substance protein a [Mycoplasma mobile 163K]
          Length = 514

 Score =  138 bits (347), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 91/289 (31%), Positives = 158/289 (54%), Gaps = 16/289 (5%)

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VEE E Y   ++++ A+  +PS+++     D +P   F     +    V  Q ++E  ++
Sbjct: 82  VEEEEKY-YSMNVENAKKINPSLEVNMTFKDEIPFESFSPSIFKKIYNVFTQSMKEFSKE 140

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGN----VIVDLGNSDGVIR--RDETISRENLRP--GD 180
               ++ +  G+II   ++ +   N    V + L N +G I     + +   N+    GD
Sbjct: 141 YLISKYGNLKGQIIRMKIEGINITNNRRMVSLKLENENGSIEAFMPDKLQNPNIEMVIGD 200

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            V+ Y+ DV+ + RG +V++S T  + + KL  +E+PEI +G + + A+ R PG R+K+A
Sbjct: 201 YVEVYVEDVKPDSRGLRVIVSNTSNEILKKLLELEIPEIASGNIVINAIKRIPGIRSKIA 260

Query: 241 V----FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           V    F+ D  IDP+GA VG +GSR+  +   L  EKID++++  +   F+IN++ PA V
Sbjct: 261 VSKTSFAPD-GIDPMGAIVGQKGSRINKISDRLGGEKIDVILFDTNLEKFIINSISPASV 319

Query: 297 TKV--VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
             +  + DE      V+VP    + AIG+ GQNV+LA+ LT   +DI++
Sbjct: 320 AHISKINDEANNHFLVVVPDLDNTKAIGKAGQNVKLAAGLTETRLDILS 368


>gi|297519524|ref|ZP_06937910.1| transcription elongation factor NusA [Escherichia coli OP50]
          Length = 178

 Score =  136 bits (342), Expect = 9e-30,   Method: Compositional matrix adjust.
 Identities = 72/175 (41%), Positives = 113/175 (64%), Gaps = 1/175 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVDEVTQPTKEITLEAARYEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
                +F++  GEII+G VK+V   N+ +DLG N++ VI R++ + REN RPGDR
Sbjct: 124 AMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDR 178


>gi|284992351|ref|YP_003410905.1| NusA domain-containing protein [Geodermatophilus obscurus DSM
           43160]
 gi|284065596|gb|ADB76534.1| NusA domain protein [Geodermatophilus obscurus DSM 43160]
          Length = 524

 Score =  135 bits (340), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 84/234 (35%), Positives = 134/234 (57%), Gaps = 26/234 (11%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           AV  EK I  D V+  +  ++  A R   G    +RV ++ +TG++++    E+  + E 
Sbjct: 10  AVEREKGIPADTVIEAIETALVTAYRHADGASKHVRVHVDRKTGEVAVL-AQELGPDGE- 67

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                   V R+ D +            P DFGR+A  +AKQVI+Q++R+AE ++ + E+
Sbjct: 68  --------VVREWDDT------------PSDFGRIAASTAKQVIVQRLRDAEHEQTFGEY 107

Query: 135 KDKVGEIISGTV----KRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVR 190
             K G+I+SG V    +R   G V+VD+G  + V+   E +  E+   G R+++Y+  V 
Sbjct: 108 AGKEGDIVSGIVQADQRRNASGTVLVDIGKVEAVLPAAEQVPGESYPHGSRLRAYVVSVA 167

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           R  RGPQV +SRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV +S
Sbjct: 168 RTYRGPQVTVSRTHPNLVRKLFALEVPEIADGSVEIVAVAREAGHRSKIAVRTS 221


>gi|237751824|ref|ZP_04582304.1| transcription termination factor NusA [Helicobacter bilis ATCC
           43879]
 gi|229373190|gb|EEO23581.1| transcription termination factor NusA [Helicobacter bilis ATCC
           43879]
          Length = 384

 Score =  134 bits (337), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 100/344 (29%), Positives = 177/344 (51%), Gaps = 10/344 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L I + +A E  + +D V+  + DS+ K A+      ++  V  +    ++ L + + 
Sbjct: 3   KILDIVEMIASENGLPQDQVVLAIKDSMVKMAKKEINENANFVVIEDWSAKELRLVQKMI 62

Query: 68  VVEEV----ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           V ++     +  +  I L  AR    +++ G  +   +      R AV +    I  +++
Sbjct: 63  VCDDSSFSKDLESTHIPLNEARSLVENVNTGDELEYQINLEGMNRNAVNNIFHDITYQIQ 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           +         F+  +G I+ G V  V+  GN  +++G +  ++     I  E  + G  V
Sbjct: 123 KLNEQEILKAFEKDIGHIVIGQVVHVDDEGNTSIEIGETRAILSLKNRIKGEKFKVGQPV 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +S +  VR  + G ++ LSRT P+ + +L  +EVPEI +G V +  ++R PG +AK+A++
Sbjct: 183 RSILKSVRITKNGVKIELSRTTPKLLEELLMLEVPEIKDGEVSIYKIARIPGEKAKVALY 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL- 301
           +++  IDP+G+ VG RG R+ AV  EL  E ID + +S     FV  +L PA V  V L 
Sbjct: 243 TNNPKIDPIGSAVGARGVRINAVSKELHGENIDCIEYSSVPEIFVAKSLSPAQVISVKLQ 302

Query: 302 ----DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
               +E+  +  V + K Q S AIG+ G N+RLAS LTG+  ++
Sbjct: 303 KADTEEEKPKAIVQIAKSQKSKAIGKAGVNIRLASMLTGYDFEL 346


>gi|269115299|ref|YP_003303062.1| transcription elongation protein NusA [Mycoplasma hominis]
 gi|268322924|emb|CAX37659.1| Transcription elongation protein NusA [Mycoplasma hominis ATCC
           23114]
          Length = 546

 Score =  134 bits (336), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 99/349 (28%), Positives = 175/349 (50%), Gaps = 26/349 (7%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV-------EEV 72
           K ID+  V+    +++ K     Y   +D+    + E  + ++    +VV       EE 
Sbjct: 36  KKIDQAEVVEAFKNTVTKLITETYDEEADLEFIFDQENDNFAIINHNKVVVGDPITSEEK 95

Query: 73  ENYT-C-QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           +  T C +I L  A+  DP+++IG  +S  +    F +           Q ++  ER   
Sbjct: 96  DRLTRCIEIPLSDAKKIDPNVEIGDSLSQEINFEYFSKKDYNKILANFSQDIKNLERKMT 155

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGN-------SDGVIRRDETISRENLRPGDRVK 183
             ++  +VG      +  V  G V ++L +       S+ V +R   IS+  L PGD + 
Sbjct: 156 CEKYASEVGNSTKAKIVSVNKGKVNLELRDGTLAFMPSNFVNQR--IISK--LNPGDWID 211

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
             I +V+ E    Q+++S    + + KLF +E+PEI  G++ +  ++R PG RAK+++  
Sbjct: 212 VVIEEVKEENSNAQIIVSSVESRLLQKLFEIEIPEISQGLISIVNIARIPGERAKVSIKK 271

Query: 244 SD---SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           S+    +++ +GA +G    R+  +  +L  EKID+V++S D   ++ NAL PA V  ++
Sbjct: 272 SNDAPETMEEIGAIMGRDSERISTISRKLNGEKIDVVLYSDDIKEYIKNALSPAKVIDLI 331

Query: 301 ---LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
                       VIVP  Q +LAIG++GQNV LAS+L    +DI+++E+
Sbjct: 332 EVPSKNSYPSFNVIVPTIQHTLAIGKKGQNVSLASELVKAKLDILSQEQ 380


>gi|261886077|ref|ZP_06010116.1| transcription elongation factor NusA [Campylobacter fetus subsp.
           venerealis str. Azul-94]
          Length = 200

 Score =  134 bits (336), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 79/170 (46%), Positives = 110/170 (64%), Gaps = 3/170 (1%)

Query: 171 ISRENLRPGDRVKSYIYDVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAV 229
           I  E  + G+ VK+ I  VR +++ G +V LSRT P+F+  L   EVPEI +G V ++  
Sbjct: 5   IKNEKFKVGNVVKAVIKSVRLDKKDGIKVELSRTSPKFLEALLKAEVPEIKDGGVIIQNS 64

Query: 230 SRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVIN 289
           +R PG +AK+A+FS+  +ID VGA VG++G R+ AV +EL  E ID + +S + A FV  
Sbjct: 65  ARIPGKKAKIALFSTTPNIDAVGATVGIKGVRINAVSSELNGENIDAIEYSSEPAIFVAR 124

Query: 290 ALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
           AL PAIV+ V +D D   I  +VP EQ S AIG  G N+RLAS L+G+ I
Sbjct: 125 ALAPAIVSSVKID-DKKAIVSLVP-EQKSKAIGVSGINIRLASMLSGFEI 172


>gi|193216986|ref|YP_002000228.1| transcription elongation factor NusA [Mycoplasma arthritidis
           158L3-1]
 gi|193002309|gb|ACF07524.1| transcription elongation factor NusA [Mycoplasma arthritidis
           158L3-1]
          Length = 524

 Score =  133 bits (334), Expect = 9e-29,   Method: Compositional matrix adjust.
 Identities = 83/280 (29%), Positives = 152/280 (54%), Gaps = 11/280 (3%)

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           ++ L +A++   +   G V+S+ +    F +       Q   Q +RE E+      +  K
Sbjct: 92  EVPLSIAKELKSTAKEGDVISETINFETFQKKDYIRILQSFNQSIRELEKKVIVGVYSLK 151

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRE---NLRPGDRVKSYIYDVRREQR 194
           +G+I+   V       +  +L +           +R+   NL+PGD +  YI +V    +
Sbjct: 152 IGQIVRAKVATPTTRGIFFELEDGTPAYMPSNANNRKLTANLQPGDSIDVYIDNVGDADK 211

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS---IDPV 251
             QVL+S    + + KL + EVPEI NG++ +  ++R PG RAK+A+ +++ +   ++ V
Sbjct: 212 NVQVLVSTVESKLIDKLLYKEVPEIANGLIDIVKIARIPGERAKIAISANEKTPIGVEVV 271

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIE-- 309
           G+ +G  GSR+  V+ +L+ E++D++ +S D  TF+ NA+ PA V  +V +++  +    
Sbjct: 272 GSVLGENGSRINNVIQQLKGERLDVIEYSADIKTFIKNAISPAKVIDIVENKEKWQANYP 331

Query: 310 ---VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
              V+VP +  +LAIG+RGQNV LAS L    +DI ++++
Sbjct: 332 AYIVVVPNQHNTLAIGKRGQNVVLASDLVRAKLDIFSQDQ 371


>gi|294660246|ref|NP_852895.2| transcription elongation factor NusA [Mycoplasma gallisepticum str.
           R(low)]
 gi|284811901|gb|AAP56463.2| transcription elongation factor NusA [Mycoplasma gallisepticum str.
           R(low)]
 gi|284930355|gb|ADC30294.1| transcription elongation factor NusA [Mycoplasma gallisepticum str.
           R(high)]
          Length = 624

 Score =  131 bits (329), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 105/371 (28%), Positives = 184/371 (49%), Gaps = 23/371 (6%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +S +    L+    VA  K+I +  + +++ D+I +A  +       I V I+ + G + 
Sbjct: 1   MSVDNKSFLEAIQTVAETKNISKKEISTILKDAIIRAC-AKEDPDQRIDVMIDFDMGLLK 59

Query: 62  LFRLLEVV-----EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQ 116
           +F+L +V+     EE  +   +I LK A   +P+I +G      L   DF RV   +  Q
Sbjct: 60  IFKLYKVIDDSVSEEEFDEINEIHLKDALATNPTIKVGDDFLKSLSIGDFSRVVATNISQ 119

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG-NVI-VDLGNSDGVIRRDETISRE 174
              QK+ E    +   E+  K+ +I+ GTV++ E   NV+ V+LG       + + +  E
Sbjct: 120 YFRQKLSELVNKQAVSEWTPKLNKIVRGTVEKDENNPNVLLVNLGGIYAYYYKRDWVPNE 179

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
            L+        +  ++ + +   +++SR+   ++  +    +PEI  GIV++KA+ R  G
Sbjct: 180 ELQNDVEYDFVLTQIKEQSKSWPLIVSRSDALYVKHVLTENIPEIKEGIVEIKAIQRVAG 239

Query: 235 SRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTEL---------RDEKIDIVVWSPDSAT 285
            + K+AV S++  IDPV   +G  G R++++   L          +E ID+  W+ D   
Sbjct: 240 QKTKVAVLSNNPDIDPVTLILGDGGIRIKSIAANLIEHSSGVKVSNEVIDVFHWNDDVFK 299

Query: 286 FVINALRPAIVTKVVLDEDVGR---IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
            + NA  P  +  V + ED  R   +++IV  + L   IGR G NVRL S +TGW+ID  
Sbjct: 300 LIANACYPVDIIGVDVLEDSERDKSVDIIVEDQYLPFLIGRAGINVRLLSYMTGWSIDFK 359

Query: 343 TEE---EDSIN 350
           ++    ED+IN
Sbjct: 360 SQSAAIEDNIN 370


>gi|222871752|gb|EEF08883.1| predicted protein [Populus trichocarpa]
          Length = 274

 Score =  129 bits (325), Expect = 9e-28,   Method: Compositional matrix adjust.
 Identities = 69/163 (42%), Positives = 113/163 (69%), Gaps = 2/163 (1%)

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           ++V+V +E L+++IGR GQNVRLAS+LTGW I+I+T+EE +  + ++     + FM  ++
Sbjct: 1   MDVVVDEENLAVSIGRSGQNVRLASELTGWQINIMTQEESAQKQAEESEVVRKLFMAKLD 60

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           VDE +A +L+ EGF+ +EE+A V ISE+  IE FDE+T  E++ RAR+ L  +++  ++K
Sbjct: 61  VDEEVADILIEEGFSSLEEVAYVPISEMMEIEAFDEDTVNELRNRARDALLTMELAREEK 120

Query: 428 IRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           + E  VS++L S+ G+  ++   L E  I T +DLA  +VD+L
Sbjct: 121 VEE--VSQDLRSLDGLTPELIGKLAEGNIHTRDDLAELAVDEL 161


>gi|284931121|gb|ADC31059.1| transcription elongation factor NusA [Mycoplasma gallisepticum str.
           F]
          Length = 622

 Score =  129 bits (323), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 104/371 (28%), Positives = 184/371 (49%), Gaps = 23/371 (6%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +S +    L+    VA  K+I +  + +++ D+I +A  +       I V I+ + G + 
Sbjct: 1   MSVDNKSFLEAIQTVAETKNISKKEISTILKDAIIRAC-AKEDPDQRIDVMIDFDMGLLK 59

Query: 62  LFRLLEVV-----EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQ 116
           +F+L +V+     EE  +   +I L+ A   +P+I +G      L   DF RV   +  Q
Sbjct: 60  IFKLYKVIDDSVGEEEFDEINEIHLRDALATNPTIKVGDDFLKSLSIGDFSRVVATNISQ 119

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG-NVI-VDLGNSDGVIRRDETISRE 174
              QK+ E    +   E+  K+ +I+ GTV++ E   NV+ V+LG       + + +  E
Sbjct: 120 YFRQKLSELVNKQAVSEWTPKLNKIVRGTVEKDENNPNVLLVNLGGIYAYYYKRDWVPNE 179

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
            L+        +  ++ + +   +++SR+   ++  +    +PEI  GIV++KA+ R  G
Sbjct: 180 ELQNDVEYDFVLTQIKEQSKSWPLVVSRSDALYVKHVLTENIPEIKEGIVEIKAIQRVAG 239

Query: 235 SRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTEL---------RDEKIDIVVWSPDSAT 285
            + K+AV S++  IDPV   +G  G R++++   L          +E ID+  W+ D   
Sbjct: 240 QKTKVAVLSNNPDIDPVTLILGDGGIRIKSIAANLIEHSSGVKVSNEVIDVFHWNDDVFK 299

Query: 286 FVINALRPAIVTKVVLDEDVGR---IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
            + NA  P  +  V + ED  R   +++IV  + L   IGR G NVRL S +TGW+ID  
Sbjct: 300 LIANACYPVDIIGVDVLEDSERDKSVDIIVEDQYLPFLIGRAGINVRLLSYMTGWSIDFK 359

Query: 343 TEE---EDSIN 350
           ++    ED+IN
Sbjct: 360 SQSAAIEDNIN 370


>gi|258615950|ref|ZP_05713720.1| transcription elongation factor NusA [Enterococcus faecium DO]
          Length = 171

 Score =  127 bits (320), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 63/121 (52%), Positives = 86/121 (71%), Gaps = 1/121 (0%)

Query: 225 QVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSA 284
           ++ +++R+ G R+K+AV S+D +ID VG CVG +G RVQA+V EL+ E +DIV W+ D A
Sbjct: 1   EIVSIAREAGDRSKVAVRSNDPNIDAVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPA 60

Query: 285 TFVINALRPAIVTKVVLDEDVGR-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
            F+ NAL PA V  V+ DE   +   V+VP  QLSLAIG+RGQN RLA++LT   IDI +
Sbjct: 61  VFIANALNPAQVMDVIFDETNPKACTVVVPDYQLSLAIGKRGQNARLAAKLTNHKIDIKS 120

Query: 344 E 344
           E
Sbjct: 121 E 121


>gi|13937007|gb|AAK50007.1|AF363237_1 transcription termination-antitermination factor [Homo sapiens]
          Length = 172

 Score =  124 bits (312), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 63/161 (39%), Positives = 102/161 (63%), Gaps = 1/161 (0%)

Query: 154 VIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFH 213
           ++VD  N++ ++ + E I  +  R G+ +++ I  V  E   P+++LSRT P F+ +L  
Sbjct: 9   LLVDDDNNELILPKSEQIPADQYRKGETIRAVIERVDNENNNPKIILSRTSPTFLERLLE 68

Query: 214 MEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEK 273
            EVPEI +G++ +K V+R PG RAK+AV S D  IDPVGACVG+RGSRV  +V EL +E 
Sbjct: 69  QEVPEIADGLIAIKKVARMPGERAKIAVESFDERIDPVGACVGVRGSRVHGIVRELCNEN 128

Query: 274 IDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPK 314
           ID+V W+ ++   + + L+   ++ +  DE+      ++PK
Sbjct: 129 IDVVHWTANT-KLLSSVLKSCPISSIAPDEETECDVYMLPK 168


>gi|254671946|emb|CBA04328.1| N utilization substance protein A [Neisseria meningitidis alpha275]
          Length = 186

 Score =  124 bits (311), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 75/163 (46%), Positives = 110/163 (67%), Gaps = 4/163 (2%)

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKDFNERTQFFMQAINV 368
           +IV + QL+LAIGR GQNVRLAS LTGW ++I+T  E D  N  +D   R + FM  +NV
Sbjct: 1   MIVDENQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAIR-RLFMDHLNV 59

Query: 369 DEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKI 428
           DE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ +  + I  ++K+
Sbjct: 60  DEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAILTMAIAAEEKL 119

Query: 429 RELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
            E  VS+++ ++ GID+ +  +L E GI T +DLA  +VD+L+
Sbjct: 120 GE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELI 160


>gi|209554499|ref|YP_002284717.1| transcription elongation factor NusA [Ureaplasma urealyticum
           serovar 10 str. ATCC 33699]
 gi|209542000|gb|ACI60229.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 10 str. ATCC 33699]
          Length = 458

 Score =  124 bits (310), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 100/363 (27%), Positives = 180/363 (49%), Gaps = 26/363 (7%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAA-RSLYGTMSDIRVEINPETGDISLFRLL 66
           E ++     A +  I+ +V+ S++ ++ +K   R+  G   +    IN + G I+ FR L
Sbjct: 9   EFIEYFKDTAKQNEIELEVLSSIIKEAFEKTYLRTHPG--ENFETNINLKEGTINCFRNL 66

Query: 67  EVVEEVENY-----TC-----QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQ 116
            VVE  + +     TC     +I L  AR  + +  IG  +   +   DF  + V     
Sbjct: 67  VVVENEKAHNEDLETCLDDAVEILLDDARKINANAQIGDTIKQYISIDDFKSIEVGQIGS 126

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-------VIVDLGN---SDGVIR 166
           ++ QK+ E    R    +K  + ++I   V  + Y         V V+L +   + G + 
Sbjct: 127 LLRQKITEIHNKRVADFWKPSLMKMIRAKVAEINYNKQRNEITGVKVELDDQWKTLGYLS 186

Query: 167 RDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
           R + I  E  + G+     I +V+ + R   VLLSRT P+ + ++   EV +I NG +++
Sbjct: 187 RKDRIGDEKFKVGETYDFIIKEVKEQSRLWPVLLSRTEPELVEEILKREVVDIKNGNIEI 246

Query: 227 KAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATF 286
           K ++R  G + K+AV ++  +I+PV   VG +G  + ++  +L +E+ID++ ++ D   F
Sbjct: 247 KKIARIAGFKTKVAVSTNLLNIEPVAVVVGNKGLTITSISKQLNNERIDVIRYADDKRIF 306

Query: 287 VINALRPAIVTKVVLDE---DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           + NA+    +  +++ E   D      IV KE L   IGR G N+RL +++T W ID+ T
Sbjct: 307 IANAIGLDKLKGLLVQENESDQRSAIAIVSKEDLPSVIGRGGANIRLIAKITEWNIDVKT 366

Query: 344 EEE 346
            E+
Sbjct: 367 IEQ 369


>gi|171920965|ref|ZP_02696343.2| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 13 str. ATCC 33698]
 gi|185179145|ref|ZP_02964862.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 5 str. ATCC 27817]
 gi|188024249|ref|ZP_02996946.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 7 str. ATCC 27819]
 gi|188518622|ref|ZP_03004069.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 11 str. ATCC 33695]
 gi|188524495|ref|ZP_03004495.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 12 str. ATCC 33696]
 gi|198273614|ref|ZP_03206149.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 4 str. ATCC 27816]
 gi|225551589|ref|ZP_03772535.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 8 str. ATCC 27618]
 gi|171902989|gb|EDT49278.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 13 str. ATCC 33698]
 gi|184208924|gb|EDU05967.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 5 str. ATCC 27817]
 gi|188018911|gb|EDU56951.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 7 str. ATCC 27819]
 gi|188997862|gb|EDU66959.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 11 str. ATCC 33695]
 gi|195659708|gb|EDX53088.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 12 str. ATCC 33696]
 gi|198249642|gb|EDY74423.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 4 str. ATCC 27816]
 gi|225379404|gb|EEH01769.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 8 str. ATCC 27618]
          Length = 458

 Score =  122 bits (306), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 100/363 (27%), Positives = 182/363 (50%), Gaps = 26/363 (7%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAA-RSLYGTMSDIRVEINPETGDISLFRLL 66
           E ++     A +  I+ +V+ S++ ++ +K   R+  G   +    IN + G I+ FR L
Sbjct: 9   EFIEYFKDTAKQNEIELEVLSSIIKEAFEKTYLRTHPG--ENFETNINLKEGTINCFRNL 66

Query: 67  EVVEEVENY-----TC-----QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQ 116
            VVE  + +     TC     +I L  AR  + +  IG  +   +   DF  + V     
Sbjct: 67  VVVENEKAHNEDLETCLDDAVEILLDDARKINANAQIGDTIKQYILIDDFKSIEVGQIGS 126

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-------VIVDLGN---SDGVIR 166
           ++ QK+ E    R    +K  + ++I   V  + Y         V V+L +   + G + 
Sbjct: 127 LLRQKITEIHNKRVADFWKPSLMKMIRAKVAEINYNKQRNEITGVKVELDDQWKTLGYLS 186

Query: 167 RDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
           R + I  E  + G+     I +V+ + R   VLLSRT P+ + ++   EV +I NG +++
Sbjct: 187 RKDRIGDEKFKVGETYDFIIKEVKEQSRLWPVLLSRTEPELVEEILKREVVDIKNGNIEI 246

Query: 227 KAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATF 286
           K ++R  G + K+AV ++  +I+PV   VG +G  + ++  +L +E+ID++ ++ D   F
Sbjct: 247 KKIARIAGFKTKVAVSTNLLNIEPVAVVVGNKGLTITSISKQLNNERIDVIRYADDKRIF 306

Query: 287 VINALRPAIVTKVVLDEDVG--RIEV-IVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           + NA+    +  +++ E+    R  + IV KE L   IGR G N+RL +++T W ID+ T
Sbjct: 307 IANAIGLDKLKGLLVQENESGQRSAIAIVSKEDLPSVIGRGGANIRLIAKITEWNIDVKT 366

Query: 344 EEE 346
            E+
Sbjct: 367 IEQ 369


>gi|195867649|ref|ZP_03079651.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 9 str. ATCC 33175]
 gi|195660706|gb|EDX53961.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 9 str. ATCC 33175]
          Length = 460

 Score =  122 bits (305), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 100/363 (27%), Positives = 182/363 (50%), Gaps = 26/363 (7%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAA-RSLYGTMSDIRVEINPETGDISLFRLL 66
           E ++     A +  I+ +V+ S++ ++ +K   R+  G   +    IN + G I+ FR L
Sbjct: 11  EFIEYFKDTAKQNEIELEVLSSIIKEAFEKTYLRTHPG--ENFETNINLKEGTINCFRNL 68

Query: 67  EVVEEVENY-----TC-----QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQ 116
            VVE  + +     TC     +I L  AR  + +  IG  +   +   DF  + V     
Sbjct: 69  VVVENEKAHNEDLETCLDDAVEILLDDARKINANAQIGDTIKQYILIDDFKSIEVGQIGS 128

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-------VIVDLGN---SDGVIR 166
           ++ QK+ E    R    +K  + ++I   V  + Y         V V+L +   + G + 
Sbjct: 129 LLRQKITEIHNKRVADFWKPSLMKMIRAKVAEINYNKQRNEITGVKVELDDQWKTLGYLS 188

Query: 167 RDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
           R + I  E  + G+     I +V+ + R   VLLSRT P+ + ++   EV +I NG +++
Sbjct: 189 RKDRIGDEKFKVGETYDFIIKEVKEQSRLWPVLLSRTEPELVEEILKREVVDIKNGNIEI 248

Query: 227 KAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATF 286
           K ++R  G + K+AV ++  +I+PV   VG +G  + ++  +L +E+ID++ ++ D   F
Sbjct: 249 KKIARIAGFKTKVAVSTNLLNIEPVAVVVGNKGLTITSISKQLNNERIDVIRYADDKRIF 308

Query: 287 VINALRPAIVTKVVLDEDVG--RIEV-IVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           + NA+    +  +++ E+    R  + IV KE L   IGR G N+RL +++T W ID+ T
Sbjct: 309 IANAIGLDKLKGLLVQENESGQRSAIAIVSKEDLPSVIGRGGANIRLIAKITEWNIDVKT 368

Query: 344 EEE 346
            E+
Sbjct: 369 IEQ 371


>gi|171920241|ref|ZP_02931610.1| transcription termination factor NusA [Ureaplasma parvum serovar 1
           str. ATCC 27813]
 gi|183508804|ref|ZP_02958262.1| transcription termination factor NusA [Ureaplasma parvum serovar 14
           str. ATCC 33697]
 gi|186701622|ref|ZP_02971327.1| transcription termination factor NusA [Ureaplasma parvum serovar 6
           str. ATCC 27818]
 gi|171902640|gb|EDT48929.1| transcription termination factor NusA [Ureaplasma parvum serovar 1
           str. ATCC 27813]
 gi|182675756|gb|EDT87661.1| transcription termination factor NusA [Ureaplasma parvum serovar 14
           str. ATCC 33697]
 gi|186700854|gb|EDU19136.1| transcription termination factor NusA [Ureaplasma parvum serovar 6
           str. ATCC 27818]
          Length = 458

 Score =  122 bits (305), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 101/363 (27%), Positives = 186/363 (51%), Gaps = 26/363 (7%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKA-ARSLYGTMSDIRVEINPETGDISLFRLL 66
           E ++     A +  I+ +V+ S++ ++ +KA +R+  G   +    I+ + G I+ FR L
Sbjct: 9   EFIEYFKDTAKQNEIEFEVLSSIIKEAFEKAYSRTHPG--ENFETNIDLKQGTINCFRNL 66

Query: 67  EVVE--EVENY---TC-----QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQ 116
            VVE  +V N    TC     +I L  AR  + +  IG ++   +   +F  + V     
Sbjct: 67  VVVENEKVHNEDLETCLDDAVEILLDDARKINANAQIGDLIKQHISIDNFKSIEVGQIGS 126

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-------VIVDLGN---SDGVIR 166
           ++ QK+ E    R    +K  + ++I   V  V Y         V V+L +   + G + 
Sbjct: 127 LLRQKITEIHNKRVADFWKPSLMKMIRAKVAEVNYNKQRNEITGVKVELDDQWKTLGYLS 186

Query: 167 RDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
           R + I  E  + G+     I +V+ + R   +LLSRT P+ + ++   EV +I NG +++
Sbjct: 187 RKDRIGDEKFKVGETYDFLIKEVKEQSRLWPILLSRTEPELVEEILKREVVDIKNGNIEI 246

Query: 227 KAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATF 286
           K ++R  G + K+AV ++  +I+PV   VG +G  + ++  +L +E+IDI+ ++ D   F
Sbjct: 247 KKIARIAGFKTKVAVSTNLLNIEPVAVVVGNKGLTITSISKQLNNERIDIIRYADDKRIF 306

Query: 287 VINALRPAIVTKVVLDEDVG--RIEV-IVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           + NA+    +  +++ E+    R  + IV K+ L   IGR G N+RL +++T W ID+ T
Sbjct: 307 IANAIGLDKLKGLLVQENESGQRSAIAIVSKDDLPSVIGRGGANIRLIAKITEWNIDVKT 366

Query: 344 EEE 346
            E+
Sbjct: 367 IEQ 369


>gi|215428279|ref|ZP_03426198.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           T92]
 gi|289571028|ref|ZP_06451255.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           T17]
 gi|289544782|gb|EFD48430.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           T17]
          Length = 159

 Score =  121 bits (304), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 71/135 (52%), Positives = 95/135 (70%), Gaps = 1/135 (0%)

Query: 208 MVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVT 267
           M KLF +EVPEI +G V++ AV+R+ G R+K+AV S+ + ++  GAC+G  G RV+ V++
Sbjct: 1   MRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAVRSNVAGLNAKGACIGPMGQRVRNVMS 60

Query: 268 ELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQ 326
           EL  EKIDI+ +  D A FV NAL PA V  V V+D+      V+VP  QLSLAIG+ GQ
Sbjct: 61  ELSGEKIDIIDYDDDPARFVANALSPAKVVSVSVIDQTARAARVVVPDFQLSLAIGKEGQ 120

Query: 327 NVRLASQLTGWTIDI 341
           N RLA++LTGW IDI
Sbjct: 121 NARLAARLTGWRIDI 135


>gi|13357878|ref|NP_078152.1| transcription elongation factor NusA [Ureaplasma parvum serovar 3
           str. ATCC 700970]
 gi|170762445|ref|YP_001752400.1| transcription elongation factor NusA [Ureaplasma parvum serovar 3
           str. ATCC 27815]
 gi|11356991|pir||H82905 N-utilization substance protein a UU318 [imported] - Ureaplasma
           urealyticum
 gi|6899295|gb|AAF30727.1|AE002129_3 N-utilization substance protein a [Ureaplasma parvum serovar 3 str.
           ATCC 700970]
 gi|168828022|gb|ACA33284.1| transcription termination factor NusA [Ureaplasma parvum serovar 3
           str. ATCC 27815]
          Length = 458

 Score =  121 bits (303), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 101/363 (27%), Positives = 185/363 (50%), Gaps = 26/363 (7%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAA-RSLYGTMSDIRVEINPETGDISLFRLL 66
           E ++     A +  I+ +V+ S++ ++ +KA  R+  G   +    I+ + G I+ FR L
Sbjct: 9   EFIEYFKDTAKQNEIEFEVLSSIIKEAFEKAYLRTHPG--ENFETNIDLKQGTINCFRNL 66

Query: 67  EVVE--EVENY---TC-----QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQ 116
            VVE  +V N    TC     +I L  AR  + +  IG ++   +   +F  + V     
Sbjct: 67  VVVENEKVHNEDLETCLDDAVEILLDDARKINANAQIGDLIKQHISIDNFKSIEVGQIGS 126

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-------VIVDLGN---SDGVIR 166
           ++ QK+ E    R    +K  + ++I   V  V Y         V V+L +   + G + 
Sbjct: 127 LLRQKITEIHNKRVADFWKPSLMKMIRAKVAEVNYNKQRNEITGVKVELDDQWKTLGYLS 186

Query: 167 RDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
           R + I  E  + G+     I +V+ + R   +LLSRT P+ + ++   EV +I NG +++
Sbjct: 187 RKDRIGDEKFKVGETYDFLIKEVKEQSRLWPILLSRTEPELVEEILKREVVDIKNGNIEI 246

Query: 227 KAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATF 286
           K ++R  G + K+AV ++  +I+PV   VG +G  + ++  +L +E+IDI+ ++ D   F
Sbjct: 247 KKIARIAGFKTKVAVSTNLLNIEPVAVVVGNKGLTITSISKQLNNERIDIIRYADDKRIF 306

Query: 287 VINALRPAIVTKVVLDEDVG--RIEV-IVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           + NA+    +  +++ E+    R  + IV K+ L   IGR G N+RL +++T W ID+ T
Sbjct: 307 IANAIGLDKLKGLLVQENESGQRSAIAIVSKDDLPSVIGRGGANIRLIAKITEWNIDVKT 366

Query: 344 EEE 346
            E+
Sbjct: 367 IEQ 369


>gi|225550916|ref|ZP_03771865.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 2 str. ATCC 27814]
 gi|225380070|gb|EEH02432.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 2 str. ATCC 27814]
          Length = 458

 Score =  119 bits (299), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 99/363 (27%), Positives = 181/363 (49%), Gaps = 26/363 (7%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAA-RSLYGTMSDIRVEINPETGDISLFRLL 66
           E ++     A +  I+ +V+ S++ ++ +K   R+  G   +    IN + G I+ FR L
Sbjct: 9   EFIEYFKDTAKQNEIELEVLSSIIKEAFEKTYLRTHPG--ENFETNINLKEGTINCFRNL 66

Query: 67  EVVEEVENY-----TC-----QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQ 116
            VVE  + +     TC     +I L  AR  + +  IG  +   +   DF  + V     
Sbjct: 67  VVVENEKAHNEDLETCLDDAVEILLDDARKINANAQIGDTIKQRISIDDFKSIEVGQIGS 126

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-------VIVDLGN---SDGVIR 166
           ++ QK+ E    R    +K  + ++I   V  + Y         V V+L +   + G + 
Sbjct: 127 LLRQKITEIHNKRVADFWKPSLMKMIRAKVAEINYNKQRNEITGVKVELDDQWKTLGYLS 186

Query: 167 RDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
             + I  E  + G+     I +V+ + R   VLLSRT P+ + ++   EV +I NG +++
Sbjct: 187 CKDRIGDEKFKVGETYDFIIKEVKEQSRLWPVLLSRTEPELVEEILKREVVDIKNGNIEI 246

Query: 227 KAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATF 286
           K ++R  G + K+AV ++  +I+PV   VG +G  + ++  +L +E+ID++ ++ D   F
Sbjct: 247 KKIARIAGFKTKVAVSTNLLNIEPVAVVVGNKGLTITSISKQLNNERIDVIRYADDKRIF 306

Query: 287 VINALRPAIVTKVVLDEDVG--RIEV-IVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           + NA+    +  +++ E+    R  + IV KE L   IGR G N+RL +++T W ID+ T
Sbjct: 307 IANAIGLDKLKGLLVQENESGQRSAIAIVSKEDLPSVIGRGGANIRLIAKITEWNIDVKT 366

Query: 344 EEE 346
            E+
Sbjct: 367 IEQ 369


>gi|254434624|ref|ZP_05048132.1| transcription termination factor NusA, C-terminal duplication
           domain protein [Nitrosococcus oceani AFC27]
 gi|207090957|gb|EDZ68228.1| transcription termination factor NusA, C-terminal duplication
           domain protein [Nitrosococcus oceani AFC27]
          Length = 199

 Score =  118 bits (296), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 72/176 (40%), Positives = 108/176 (61%), Gaps = 3/176 (1%)

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           ++V V +  LS AIGR GQN+RLASQLTGW ++++TE+E     + +     Q FM+ ++
Sbjct: 1   MDVAVAEGNLSQAIGRGGQNIRLASQLTGWELNVMTEQEAEEKGESEAKSLQQMFMEQLD 60

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           VDE +A +LV EGF+ +EE+A V   EI +IE FD +   E++ RAR+ L    I  ++ 
Sbjct: 61  VDEEVAAILVHEGFSSIEEMAYVPEQEILAIEEFDSQIVQELRNRARDVLLTRAIANEET 120

Query: 428 IRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
           I  + + +EL  +  ID  +  AL   GI T E+LA  +VD+L+   E +G N EK
Sbjct: 121 IETVQLDQELLDMEEIDHGLASALASKGIVTKENLAEQAVDELM---EIEGMNREK 173


>gi|255030994|ref|ZP_05302945.1| transcription elongation factor NusA [Listeria monocytogenes LO28]
          Length = 179

 Score =  118 bits (295), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 62/175 (35%), Positives = 103/175 (58%)

Query: 34  SIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDI 93
           ++  A +  +    ++RV++N E G I +    E VE+V +   +IS++ A   +P    
Sbjct: 3   ALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKEAVEQVFDSRLEISMEEAHKLNPVYQP 62

Query: 94  GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN 153
           G VV   + P DFGR+A Q+AKQV+ Q+VREAER   Y EF D+  +I++G V+R +   
Sbjct: 63  GDVVELEVTPKDFGRIAAQTAKQVVTQRVREAERGIIYDEFIDREDDIMTGIVERQDSRF 122

Query: 154 VIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFM 208
           + V+LG  + ++ ++E +  E     DR+K Y+  V +  +GPQ+ +SRTHP  +
Sbjct: 123 IYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLTKVEKTTKGPQIFVSRTHPGLL 177


>gi|213022854|ref|ZP_03337301.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. 404ty]
          Length = 165

 Score =  112 bits (279), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 58/153 (37%), Positives = 97/153 (63%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEEVTMPTKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN 160
                +F+D+ GEI++G VK+V   N+ +++ +
Sbjct: 124 AMVVDQFRDQEGEIVTGVVKKVNRDNISLEIKS 156


>gi|213421302|ref|ZP_03354368.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. E01-6750]
          Length = 150

 Score =  111 bits (278), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 58/147 (39%), Positives = 93/147 (63%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEEVTMPTKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNV 154
                +F+D+ GEI++G VK+V   N+
Sbjct: 124 AMVVDQFRDQEGEIVTGVVKKVNRDNI 150


>gi|294155314|ref|YP_003559698.1| transcription termination factor NusA [Mycoplasma crocodyli MP145]
 gi|291600250|gb|ADE19746.1| transcription termination factor NusA [Mycoplasma crocodyli MP145]
          Length = 566

 Score =  110 bits (275), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 75/245 (30%), Positives = 127/245 (51%), Gaps = 10/245 (4%)

Query: 106 FGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV-KRVEYGNVIVDLGNSDGV 164
           F      + K   IQ+++  E+   Y ++   +GE +   +  + + G+   +LG  DGV
Sbjct: 125 FNEKTKTAIKNGFIQQLKANEKAAIYNKYSKLIGEKLKAKILSKNKDGSY--NLGLEDGV 182

Query: 165 ---IRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
              +       + NL PG  +  Y+ +V  E +  QV +S   PQ +  L + EVPEI  
Sbjct: 183 TAFLPYANINQKLNLNPGLFIDVYVDNVSEENKLSQVQVSTDSPQAIYDLLNKEVPEIAQ 242

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSD--SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVW 279
           G++ V ++ R PG R+K+AV  S+   S+DP+ + +G  GSR+  +   L  EK+D++++
Sbjct: 243 GLIDVVSIQRVPGMRSKIAVKKSNPADSLDPISSIIGYNGSRINEISNALGGEKVDVILY 302

Query: 280 SPDSATFVINALRPAIVTKVVLDE--DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           S     FV NAL PA +  VV +   D     ++     + +A+GR   NV LA +LTG 
Sbjct: 303 SDVKEEFVKNALLPAKIIDVVKNNGADNYYFAIVASDSDMYVAMGRGVVNVNLAKKLTGT 362

Query: 338 TIDII 342
            I+++
Sbjct: 363 RIELL 367


>gi|312601531|gb|ADQ90786.1| Transcription termination-antitermination factor nusA [Mycoplasma
           hyopneumoniae 168]
          Length = 614

 Score =  107 bits (268), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 90/346 (26%), Positives = 166/346 (47%), Gaps = 21/346 (6%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +++ Q A      K ID D  + + AD +++ +  ++ T + I VE N        F  L
Sbjct: 39  IDIFQEAIEFVITKKIDPDAQIKIEAD-LEQLSFKVFNT-NGIVVEEN-------YFDDL 89

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
              E+V +    I L  A++ DP I +  + S  +    F      +      QK+ E  
Sbjct: 90  TDEEKVNDLVSFILLSKAKETDPEIQVDDIFSIEINLESFEHWLFMAIMHAFKQKISEIV 149

Query: 127 RDR---QYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           R+    +YL  K+ V  +++    ++  G +     +           S +NL+ G + +
Sbjct: 150 RNNVYNKYLSLKNNV--VLATVTNKIAAGYIFEIDDDKVSAFMPSHYASGQNLKIGTKHE 207

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
             I +V +  +  QV++S    Q + K     +PE+ +  +++ +++R PG R K+A+  
Sbjct: 208 VVIENVSKNTKQSQVVISSKSVQLVKKKIIDAIPELQSKFLEITSIARIPGERCKVAIRR 267

Query: 244 SDSS----IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA---IV 296
           ++ +    I  +G+ VG  GSRV A+  EL+ EKI+++ +  +   F++NA+ P+    V
Sbjct: 268 TEGAEADNISEIGSIVGATGSRVLAISQELQGEKIEVIKYDDNIVKFIVNAMSPSKVICV 327

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
            +  +   + R  V+VP  Q SLAIG+ G NV+L + LT   + II
Sbjct: 328 KEFKIGHKLRRFIVVVPDFQHSLAIGKNGSNVKLVADLTRCQVQII 373


>gi|144575534|gb|AAZ53949.2| N-utilization substance protein A [Mycoplasma hyopneumoniae 7448]
          Length = 614

 Score =  107 bits (267), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 89/346 (25%), Positives = 166/346 (47%), Gaps = 21/346 (6%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +++ Q A      K ID D  + + AD +++ +  ++ T + I VE N        F  L
Sbjct: 39  IDIFQEAIEFVITKKIDPDAQIKIEAD-LEQLSFKVFNT-NGIVVEEN-------YFDDL 89

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
              E+V +    I L  A++ DP I +  + S  +    F      +      QK+ E  
Sbjct: 90  TDEEKVNDLVSFILLSKAKETDPEIQVDDIFSIEINLESFEHWLFMAIMHAFKQKISEIV 149

Query: 127 RDR---QYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           R+    +YL  K+ V  +++    ++  G +     +           S +NL+ G + +
Sbjct: 150 RNNVYNKYLSLKNNV--VLATVTNKIAAGYIFEIDDDKVSAFMPSHYASGQNLKIGTKHE 207

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
             I +V +  +  QV++S    Q + K     +PE+ +  +++ +++R PG R K+A+  
Sbjct: 208 VVIENVSKNTKQSQVVISSKSVQLVKKKIIDAIPELQSKFLEITSIARIPGERCKVAIRR 267

Query: 244 SDSS----IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA---IV 296
           ++ +    I  +G+ VG  GSRV A+  EL+ EKI+++ +  +   F++NA+ P+    V
Sbjct: 268 TEDAEADNISEIGSIVGATGSRVLAISQELQGEKIEVIKYDDNIVKFIVNAMSPSKVICV 327

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
            +  +   + R  ++VP  Q SLAIG+ G NV+L + LT   + II
Sbjct: 328 KEFKIGHKLRRFIIVVPDFQHSLAIGKNGSNVKLVADLTRCQVQII 373


>gi|144227706|gb|AAZ44670.2| N-utilization substance protein A [Mycoplasma hyopneumoniae J]
          Length = 614

 Score =  107 bits (267), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 90/346 (26%), Positives = 166/346 (47%), Gaps = 21/346 (6%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +++ Q A      K ID D  + + AD +++ +  ++ T + I VE N        F  L
Sbjct: 39  IDIFQEAIEFVITKKIDPDAQIKIEAD-LEQLSFKVFNT-NGIVVEEN-------YFDDL 89

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
              E+V +    I L  A++ DP I +  + S  +    F      +      QK+ E  
Sbjct: 90  TDEEKVNDLVSFILLSKAKETDPEIQVDDIFSIEINLESFEHWLFMAIMHAFKQKISEIV 149

Query: 127 RDR---QYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           R+    +YL  K+ V  +++    ++  G +     +           S +NL+ G + +
Sbjct: 150 RNNVYNKYLSLKNNV--VLATVTNKIAAGYIFEIDDDKVSAFMPSHYASGQNLKIGTKHE 207

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
             I +V +  +  QV++S    Q + K     +PE+ +  +++ +++R PG R K+A+  
Sbjct: 208 VVIENVSKNTKQSQVVISSKSVQLVKKKIIDAIPELQSKFLEITSIARIPGERCKVAIRR 267

Query: 244 SDSS----IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA---IV 296
           ++ +    I  +G+ VG  GSRV A+  EL+ EKI+++ +  +   F++NA+ P+    V
Sbjct: 268 NEDAEADNISEIGSIVGATGSRVLAISQELQGEKIEVIKYDDNIVKFIVNAMSPSKVICV 327

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
            +  +   + R  V+VP  Q SLAIG+ G NV+L + LT   + II
Sbjct: 328 KEFKIGHKLRRFIVVVPDFQHSLAIGKNGSNVKLVADLTRCQVQII 373


>gi|71893935|ref|YP_279381.1| transcription elongation factor NusA [Mycoplasma hyopneumoniae J]
          Length = 617

 Score =  107 bits (267), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 90/346 (26%), Positives = 166/346 (47%), Gaps = 21/346 (6%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +++ Q A      K ID D  + + AD +++ +  ++ T + I VE N        F  L
Sbjct: 42  IDIFQEAIEFVITKKIDPDAQIKIEAD-LEQLSFKVFNT-NGIVVEEN-------YFDDL 92

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
              E+V +    I L  A++ DP I +  + S  +    F      +      QK+ E  
Sbjct: 93  TDEEKVNDLVSFILLSKAKETDPEIQVDDIFSIEINLESFEHWLFMAIMHAFKQKISEIV 152

Query: 127 RDR---QYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           R+    +YL  K+ V  +++    ++  G +     +           S +NL+ G + +
Sbjct: 153 RNNVYNKYLSLKNNV--VLATVTNKIAAGYIFEIDDDKVSAFMPSHYASGQNLKIGTKHE 210

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
             I +V +  +  QV++S    Q + K     +PE+ +  +++ +++R PG R K+A+  
Sbjct: 211 VVIENVSKNTKQSQVVISSKSVQLVKKKIIDAIPELQSKFLEITSIARIPGERCKVAIRR 270

Query: 244 SDSS----IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA---IV 296
           ++ +    I  +G+ VG  GSRV A+  EL+ EKI+++ +  +   F++NA+ P+    V
Sbjct: 271 NEDAEADNISEIGSIVGATGSRVLAISQELQGEKIEVIKYDDNIVKFIVNAMSPSKVICV 330

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
            +  +   + R  V+VP  Q SLAIG+ G NV+L + LT   + II
Sbjct: 331 KEFKIGHKLRRFIVVVPDFQHSLAIGKNGSNVKLVADLTRCQVQII 376


>gi|72080914|ref|YP_287972.1| transcription elongation factor NusA [Mycoplasma hyopneumoniae
           7448]
          Length = 617

 Score =  107 bits (267), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 89/346 (25%), Positives = 166/346 (47%), Gaps = 21/346 (6%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +++ Q A      K ID D  + + AD +++ +  ++ T + I VE N        F  L
Sbjct: 42  IDIFQEAIEFVITKKIDPDAQIKIEAD-LEQLSFKVFNT-NGIVVEEN-------YFDDL 92

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
              E+V +    I L  A++ DP I +  + S  +    F      +      QK+ E  
Sbjct: 93  TDEEKVNDLVSFILLSKAKETDPEIQVDDIFSIEINLESFEHWLFMAIMHAFKQKISEIV 152

Query: 127 RDR---QYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           R+    +YL  K+ V  +++    ++  G +     +           S +NL+ G + +
Sbjct: 153 RNNVYNKYLSLKNNV--VLATVTNKIAAGYIFEIDDDKVSAFMPSHYASGQNLKIGTKHE 210

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
             I +V +  +  QV++S    Q + K     +PE+ +  +++ +++R PG R K+A+  
Sbjct: 211 VVIENVSKNTKQSQVVISSKSVQLVKKKIIDAIPELQSKFLEITSIARIPGERCKVAIRR 270

Query: 244 SDSS----IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA---IV 296
           ++ +    I  +G+ VG  GSRV A+  EL+ EKI+++ +  +   F++NA+ P+    V
Sbjct: 271 TEDAEADNISEIGSIVGATGSRVLAISQELQGEKIEVIKYDDNIVKFIVNAMSPSKVICV 330

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
            +  +   + R  ++VP  Q SLAIG+ G NV+L + LT   + II
Sbjct: 331 KEFKIGHKLRRFIIVVPDFQHSLAIGKNGSNVKLVADLTRCQVQII 376


>gi|321310946|ref|YP_004193275.1| transcription termination factor N-utilization substance protein A
           [Mycoplasma haemofelis str. Langford 1]
 gi|319802790|emb|CBY93436.1| transcription termination factor N-utilization substance protein A
           [Mycoplasma haemofelis str. Langford 1]
          Length = 432

 Score =  107 bits (267), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 58/173 (33%), Positives = 95/173 (54%), Gaps = 1/173 (0%)

Query: 174 ENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDP 233
           ENL  G+    Y+ ++        + LSRT  +    +    + EI  G V++KA++R  
Sbjct: 209 ENLVLGNTYLFYVKEISEVNVHLPIFLSRTDSEITKHVMAKHISEISEGKVEIKAIARIA 268

Query: 234 GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP 293
           G ++K+ V S+D +ID VG C+G +G R++ +  EL +EKID+++W+ D    VIN+   
Sbjct: 269 GFKSKVLVHSNDPNIDAVGCCIGPKGERLKVISRELLNEKIDVILWNEDPVQNVINSFVT 328

Query: 294 AIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             +    L ED   I ++   + L   IG+RG N +L   LTGW I++ T +E
Sbjct: 329 GKILGYRL-EDENEITLVATLDNLLSCIGKRGSNTKLVYMLTGWKINLKTIQE 380


>gi|304373277|ref|YP_003856486.1| Transcription termination-antitermination factor nusA [Mycoplasma
           hyorhinis HUB-1]
 gi|304309468|gb|ADM21948.1| Transcription termination-antitermination factor nusA [Mycoplasma
           hyorhinis HUB-1]
          Length = 557

 Score =  107 bits (266), Expect = 7e-21,   Method: Compositional matrix adjust.
 Identities = 80/274 (29%), Positives = 136/274 (49%), Gaps = 15/274 (5%)

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           I L  A++ +P+  +      P+   +F +       Q   QK+ E  R   Y ++    
Sbjct: 116 IPLSTAKEINPNAKVDDTFDIPIDISEFDKHIFVPIIQTFKQKIHEFTRKLIYQKYFPLK 175

Query: 139 GEIISGT-VKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
             II  T +K+ + G   +  G     + +   IS  N+    + + +I DV   Q+  Q
Sbjct: 176 NSIIKATLIKKSQNGFNYLLEGEIPAYMPKP-NISNFNIALNTKEEVFIEDVLDNQKDSQ 234

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS-----SDSSIDPVG 252
           ++LS      + +    E+PE+  GI+++  V+R+ G R+K++V       +   +D VG
Sbjct: 235 IILSSKEGMILKEKLKREIPEVEAGILEIVNVAREAGLRSKVSVKKVHEDENSQGVDEVG 294

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIE--- 309
           + +G  GSR+  +  E+  EKIDIV + P+   ++INAL PA   +VV  E+V + +   
Sbjct: 295 SLIGKNGSRIATINKEILGEKIDIVRYDPNITKYIINALSPA---RVVYIEEVKKSKGQK 351

Query: 310 --VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             V+VP    + AIG+   NVRLA++LT   IDI
Sbjct: 352 FLVVVPTSHQAKAIGKNAINVRLANELTRTKIDI 385


>gi|56808097|ref|ZP_00365889.1| COG0195: Transcription elongation factor [Streptococcus pyogenes
           M49 591]
          Length = 164

 Score =  105 bits (263), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 58/134 (43%), Positives = 82/134 (61%), Gaps = 15/134 (11%)

Query: 228 AVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELR--------------DEK 273
           +VSR+ G R K+AV S + ++D +G  VG  GS ++ V+++                +E 
Sbjct: 3   SVSREAGDRTKVAVRSHNPNVDAIGTMVGRGGSNIKKVISKFHPKRVDAKTGLEIPVEEN 62

Query: 274 IDIVVWSPDSATFVINALRPAIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLAS 332
           ID++ W  D A F+ NA+ PA V  V+ D ED+ R  V+VP  +LSLAIGRRGQNVRLA+
Sbjct: 63  IDVIQWVDDPAEFIYNAIAPAEVDMVLFDDEDLKRATVVVPDSKLSLAIGRRGQNVRLAA 122

Query: 333 QLTGWTIDIITEEE 346
            LTG+ IDI +  E
Sbjct: 123 HLTGYRIDIKSASE 136


>gi|330723850|gb|AEC46220.1| transcription elongation factor NusA [Mycoplasma hyorhinis MCLD]
          Length = 538

 Score =  105 bits (262), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 80/274 (29%), Positives = 135/274 (49%), Gaps = 15/274 (5%)

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           I L  A++ +P+  +      P+   +F +       Q   QK+ E  R   Y ++    
Sbjct: 116 IPLSTAKEINPNAKVDDTFDIPIDISEFDKHIFVPIIQTFKQKIHEFTRKLIYQKYFPLK 175

Query: 139 GEIISGT-VKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
             II  T +K+ + G   +  G     + +   IS  N+      + +I DV   Q+  Q
Sbjct: 176 NSIIKATLIKKSQNGFNYLLEGEIPAYMPKP-NISNFNIALNTEEEVFIEDVLDNQKDSQ 234

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS-----SDSSIDPVG 252
           ++LS      + +    E+PE+  GI+++  V+R+ G R+K++V       +   +D VG
Sbjct: 235 IILSSKEGMILKEKLKREIPEVEAGILEIVNVAREAGLRSKVSVKKVHEDENSQGVDEVG 294

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIE--- 309
           + +G  GSR+  +  E+  EKIDIV + P+   ++INAL PA   +VV  E+V + +   
Sbjct: 295 SLIGKNGSRIATINKEILGEKIDIVRYDPNITKYIINALSPA---RVVYIEEVKKSKGQK 351

Query: 310 --VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             V+VP    + AIG+   NVRLA++LT   IDI
Sbjct: 352 FLVVVPTSHQAKAIGKNAINVRLANELTRTKIDI 385


>gi|54020616|ref|YP_116111.1| transcription elongation factor NusA [Mycoplasma hyopneumoniae 232]
 gi|53987789|gb|AAV27990.1| transcription termination-antitermination factor nusA [Mycoplasma
           hyopneumoniae 232]
          Length = 614

 Score =  104 bits (259), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 89/346 (25%), Positives = 165/346 (47%), Gaps = 21/346 (6%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +++ Q A      K ID D  + + AD +++ +  ++ T + I VE N        F  L
Sbjct: 39  IDIFQEAIEFVITKKIDPDAQIKIEAD-LEQLSFKVFNT-NGIVVEEN-------YFDDL 89

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
              E+V +    I L  A++ DP I +  + S  +    F      +      QK+ E  
Sbjct: 90  TDEEKVNDLVSFILLSKAKETDPEIQVDDIFSIEINLESFEHWLFMAIMHAFKQKISEIV 149

Query: 127 RDR---QYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           R+    +YL  K+ V  +++    ++  G +     +           S +NL+ G + +
Sbjct: 150 RNNVYNKYLSLKNNV--VLATVTNKIAAGYIFEIDDDKVSAFMPSHYASGQNLKIGTKHE 207

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
             I +V +  +  QV++S    Q + K     +PE+ +  +++ +++R PG R K+A+  
Sbjct: 208 VVIENVSKNTKQSQVVISSKSVQLVKKKIIDAIPELQSKFLEITSIARIPGERCKVAIRR 267

Query: 244 SDSS----IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA---IV 296
           ++ +    I  +G+ VG  GSRV A+  EL+ EKI+++ +  +   F++NA+ P+    V
Sbjct: 268 TEGAEADNISEIGSIVGATGSRVLAISQELQGEKIEVIKYDDNIVKFIVNAMSPSKVICV 327

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
            +  +   + R  V+V   Q SLAIG+ G NV+L + LT   + II
Sbjct: 328 KEFKIGHKLRRFIVVVTDFQHSLAIGKNGSNVKLVADLTRCQVQII 373


>gi|293363915|ref|ZP_06610651.1| putative transcription termination factor NusA [Mycoplasma
           alligatoris A21JP2]
 gi|292552405|gb|EFF41179.1| putative transcription termination factor NusA [Mycoplasma
           alligatoris A21JP2]
          Length = 564

 Score =  102 bits (255), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 62/195 (31%), Positives = 112/195 (57%), Gaps = 6/195 (3%)

Query: 172 SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSR 231
           +R  L+ G  +  YI  V  E +  QV +S   PQ +  L   EVPEI  G+V++  + R
Sbjct: 192 TRIELKHGVLIDVYIETVSEENKLSQVQVSTDSPQMVYDLLKNEVPEIAQGLVEIMNIQR 251

Query: 232 DPGSRAKLAV--FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVIN 289
            PG R+K+AV   S +S +DP+ + +G+ GSR+  +  +L  EKID++++S +   ++ N
Sbjct: 252 APGIRSKIAVRKTSVESEVDPISSVIGVNGSRINEISRKLGGEKIDVILYSEEITEYIKN 311

Query: 290 ALRPAIVTKVVLDE--DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
           AL PA +  VV ++  D     ++  +  + +A+G+   NV LA +++G  I++I   E 
Sbjct: 312 ALSPARIVDVVKNKAMDNYYYAIVNSETDMYVAMGKGVVNVNLAKKISGCRIELIKAAE- 370

Query: 348 SINRQKDFNERTQFF 362
           ++ +  +FN + +F+
Sbjct: 371 AVEKGLEFN-KAKFY 384


>gi|71894695|ref|YP_278803.1| transcription elongation factor NusA [Mycoplasma synoviae 53]
          Length = 561

 Score =  102 bits (254), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 71/275 (25%), Positives = 138/275 (50%), Gaps = 9/275 (3%)

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           I L  A++ + +  +G ++S P+    F +  + + +      + E  ++R + ++   +
Sbjct: 98  IGLSKAKEVNKNAKVGDLISYPIEFNSFDQKNLVAMRNGFSAAIAEKAKNRLFAKYHPLI 157

Query: 139 G-EIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           G +++     + E G   + L + +   + ++  I    L PG +   ++  V  + +G 
Sbjct: 158 GSKLMVQIASKHENGGFFLKLEDGTSAYLPKNSIIKSVELNPGQKFDVFLNSVNIDAKGL 217

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF-----SSDSSIDPV 251
            + ++ T P+ +  +   E+PEI NG + ++ + R PG R+K+ V       S  + D +
Sbjct: 218 YLEVTMTSPEQVRDVLFREIPEIANGDLIIRNIQRIPGERSKVVVSLNPEKQSAHTHDLL 277

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI 311
           GA  G +  R+  V   L +EKID++ ++ +   F+ NA+ P  V  VV  +      VI
Sbjct: 278 GAMFGNKAQRINDVSKSLNNEKIDVIRFAENPKDFIRNAMSPCPVVDVV--KSKKGFYVI 335

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           V  E +SLAIG  G NV LAS++T   ID+++ E+
Sbjct: 336 VRPEDVSLAIGSNGVNVSLASKVTNNKIDVLSTEQ 370


>gi|144575229|gb|AAZ44092.2| N-utilization substance protein A [Mycoplasma synoviae 53]
          Length = 560

 Score =  102 bits (254), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 71/275 (25%), Positives = 138/275 (50%), Gaps = 9/275 (3%)

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           I L  A++ + +  +G ++S P+    F +  + + +      + E  ++R + ++   +
Sbjct: 97  IGLSKAKEVNKNAKVGDLISYPIEFNSFDQKNLVAMRNGFSAAIAEKAKNRLFAKYHPLI 156

Query: 139 G-EIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           G +++     + E G   + L + +   + ++  I    L PG +   ++  V  + +G 
Sbjct: 157 GSKLMVQIASKHENGGFFLKLEDGTSAYLPKNSIIKSVELNPGQKFDVFLNSVNIDAKGL 216

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF-----SSDSSIDPV 251
            + ++ T P+ +  +   E+PEI NG + ++ + R PG R+K+ V       S  + D +
Sbjct: 217 YLEVTMTSPEQVRDVLFREIPEIANGDLIIRNIQRIPGERSKVVVSLNPEKQSAHTHDLL 276

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI 311
           GA  G +  R+  V   L +EKID++ ++ +   F+ NA+ P  V  VV  +      VI
Sbjct: 277 GAMFGNKAQRINDVSKSLNNEKIDVIRFAENPKDFIRNAMSPCPVVDVV--KSKKGFYVI 334

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           V  E +SLAIG  G NV LAS++T   ID+++ E+
Sbjct: 335 VRPEDVSLAIGSNGVNVSLASKVTNNKIDVLSTEQ 369


>gi|118795363|ref|XP_561027.4| Anopheles gambiae str. PEST AGAP012738-PA [Anopheles gambiae str.
           PEST]
 gi|116133283|gb|EAL42227.2| AGAP012738-PA [Anopheles gambiae str. PEST]
          Length = 129

 Score =  101 bits (252), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 50/119 (42%), Positives = 81/119 (68%), Gaps = 1/119 (0%)

Query: 154 VIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFH 213
           +++D   ++ ++ ++  I  +  R GD V++ I  V +  + PQ+++SRT P+F+ KL  
Sbjct: 9   ILLDDEGNEFILPKENQIPSDFFRKGDSVRAVIESVDKGSK-PQIIVSRTAPKFLEKLLE 67

Query: 214 MEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDE 272
           +E+PEI +G + +K V R PG +AK+AV + D  IDPVGACVG++GSR+  VV ELR+E
Sbjct: 68  LEIPEIQDGTIILKKVVRIPGEKAKIAVDAYDDRIDPVGACVGVKGSRIHGVVRELRNE 126


>gi|291320687|ref|YP_003515952.1| transcription elongation protein NusA [Mycoplasma agalactiae]
 gi|290753023|emb|CBH40999.1| Transcription elongation protein NusA [Mycoplasma agalactiae]
          Length = 544

 Score =  100 bits (250), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 74/247 (29%), Positives = 130/247 (52%), Gaps = 23/247 (9%)

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGT-VKRVEYG--NV-IVDLGNSDGVIRR---DET 170
           I+Q +++ ++   Y ++ +K+GE +  T + +   G  NV IVD    DGVI     +  
Sbjct: 144 ILQAIKKLQKSIVYTKYLEKIGETVKVTFISKNSKGSWNVQIVD----DGVIAHLPANYV 199

Query: 171 ISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVS 230
            ++  + PG      I  V ++ +  Q+ +S   P+ + K+ +  +PEI +G++++  V 
Sbjct: 200 SAKRVINPGSYGDVVIERVEKDTKLSQITVSLDSPKLIEKILYNNIPEISSGLIEIVNVQ 259

Query: 231 RDPGSRAKLAVFSS---DSSIDPVGACVGMRGSRVQAVVTELRD-------EKIDIVVWS 280
           R PG R K AVF++   +  +D  GA +G   SR+  +++E+         EK D++V++
Sbjct: 260 RIPGERTK-AVFNASAGNEHLDVYGAIIGQDSSRINLIISEMNQGVNQADMEKFDVIVYT 318

Query: 281 PDSATFVINALRPAIVTKVV-LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
            D   F+   + P  V  +V  +E      VI  K  LS AIG++G N  LAS+++   +
Sbjct: 319 SDKKEFIRRCMLPGQVVDIVPKNESQNSFYVITIKAGLSAAIGKKGANTMLASKVSHSNL 378

Query: 340 DIITEEE 346
           DIIT EE
Sbjct: 379 DIITVEE 385


>gi|148377961|ref|YP_001256837.1| transcription elongation factor NusA [Mycoplasma agalactiae PG2]
 gi|148292007|emb|CAL59399.1| Transcription elongation protein NusA [Mycoplasma agalactiae PG2]
          Length = 544

 Score = 99.8 bits (247), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 71/247 (28%), Positives = 126/247 (51%), Gaps = 23/247 (9%)

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTV----KRVEYGNVIVDLGNSDGVIRR---DET 170
           I+Q +++ ++   Y ++ +K+GE +  T      +  +   IVD    DGVI     +  
Sbjct: 144 ILQAIKKLQKSIVYTKYLEKIGETVKVTFISMNSKGSWNVQIVD----DGVIAHLPANYV 199

Query: 171 ISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVS 230
            ++  + PG      I  V ++ +  Q+ +S   P+ + K+ +  +PEI +G++++  V 
Sbjct: 200 SAKRVINPGSYGDVVIERVEKDTKLSQITVSLDSPKLIEKILYNNIPEISSGLIEIVNVQ 259

Query: 231 RDPGSRAKLAVFSS---DSSIDPVGACVGMRGSRVQAVVTELRD-------EKIDIVVWS 280
           R PG R K AVF +   +  +D  GA +G   SR+  +++E+         EK D++V++
Sbjct: 260 RIPGERTK-AVFKASAGNEHLDVYGAIIGQDSSRINLIISEMNQGVNQADKEKFDVIVYT 318

Query: 281 PDSATFVINALRPAIVTKVV-LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
            D   F+   + P  V  +V  +E      VI  K  LS AIG++G N  LAS+++   +
Sbjct: 319 SDKKEFIRRCMLPGQVVDIVPKNESQNSFYVITIKAGLSAAIGKKGANTMLASKVSHSNL 378

Query: 340 DIITEEE 346
           DIIT EE
Sbjct: 379 DIITVEE 385


>gi|319776808|ref|YP_004136459.1| n-utilization substance protein a [Mycoplasma fermentans M64]
 gi|318037883|gb|ADV34082.1| N-utilization substance protein A [Mycoplasma fermentans M64]
          Length = 538

 Score = 98.6 bits (244), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 84/341 (24%), Positives = 155/341 (45%), Gaps = 27/341 (7%)

Query: 27  VLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLF-------RLLEVVEEVENYTCQI 79
           V+ + ++   +    +    ++I  E++ E  ++ +F       +  E++ ++EN    +
Sbjct: 37  VIKIFSEETTRIINKILDPNAEIVFELDKEKQEVHIFNNKTCVTKDEELLLDLENQISFV 96

Query: 80  SLKVARDRDPS----------IDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
             K A+ R P           ID+G +     P        + S+   I Q ++  ++  
Sbjct: 97  GYKEAKVRMPKVKEDDEIKWEIDLGVLDKSKNPEAKKSLKIINSS---IAQAIKTLQKKM 153

Query: 130 QYLEFKDKVGEIISGTVKRVEYG---NVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
            + ++  K+G+ +   +         NV +   N +  +      ++    PG      I
Sbjct: 154 VFEQYSSKIGQTVKVVLNSKNSNGSWNVQIVNSNVNAYLPAGLISTKRKANPGQYFDVVI 213

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF---S 243
             V  E +  Q+ +S   P+ +  +    +PEI  G+++V  V R PG R K+AV     
Sbjct: 214 EKVSEETKLSQIEVSLDSPKIVWNILQNNIPEIAEGLIEVVDVVRQPGERVKVAVKLAEG 273

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-D 302
           ++  ID  G+ +G  GSR+  +  +L  EKID++++  D   +V N++ P     V+L D
Sbjct: 274 ANPDIDVRGSIIGENGSRIDLLSQKLDGEKIDVILYDEDIKKYVANSISPIPAVDVILKD 333

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           E   +  VIV  E L+ AIG+RG N  LAS LT   +DII+
Sbjct: 334 ERENKYLVIVVPEHLTPAIGKRGVNAYLASSLTKVKLDIIS 374


>gi|238809615|dbj|BAH69405.1| hypothetical protein [Mycoplasma fermentans PG18]
          Length = 538

 Score = 98.6 bits (244), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 84/341 (24%), Positives = 155/341 (45%), Gaps = 27/341 (7%)

Query: 27  VLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLF-------RLLEVVEEVENYTCQI 79
           V+ + ++   +    +    ++I  E++ E  ++ +F       +  E++ ++EN    +
Sbjct: 37  VIKIFSEETTRIINKILDPNAEIVFELDKEKQEVHIFNNKTCVTKDEELLLDLENQISFV 96

Query: 80  SLKVARDRDPS----------IDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
             K A+ R P           ID+G +     P        + S+   I Q ++  ++  
Sbjct: 97  GYKEAKVRMPKVKEDDEIKWEIDLGVLDKSKNPEAKKSLKIINSS---IAQAIKTLQKKM 153

Query: 130 QYLEFKDKVGEIISGTVKRVEYG---NVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
            + ++  K+G+ +   +         NV +   N +  +      ++    PG      I
Sbjct: 154 VFEQYSSKIGQTVKVVLNSKNSNGSWNVQIVNSNVNAYLPAGLISTKRKANPGQYFDVVI 213

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF---S 243
             V  E +  Q+ +S   P+ +  +    +PEI  G+++V  V R PG R K+AV     
Sbjct: 214 EKVSEETKLSQIEVSLDSPKIVWNILQNNIPEIAEGLIEVVDVVRQPGERVKVAVKLAEG 273

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-D 302
           ++  ID  G+ +G  GSR+  +  +L  EKID++++  D   +V N++ P     V+L D
Sbjct: 274 ANPDIDVRGSIIGENGSRIDLLSQKLDGEKIDVILYDEDIKKYVANSISPIQAVDVILKD 333

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           E   +  VIV  E L+ AIG+RG N  LAS LT   +DII+
Sbjct: 334 ERENKYLVIVVPEHLTPAIGKRGVNAYLASSLTKVKLDIIS 374


>gi|12240026|gb|AAG49545.1|AF261103_1 NusA protein [Myxococcus xanthus DK 1622]
          Length = 254

 Score = 97.4 bits (241), Expect = 6e-18,   Method: Compositional matrix adjust.
 Identities = 55/133 (41%), Positives = 79/133 (59%), Gaps = 4/133 (3%)

Query: 282 DSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           D A FV +AL PA V++V++DE    +E+IVP +QLSLAIGRRGQNVRLA+QLTGW +DI
Sbjct: 1   DPARFVCSALAPAEVSRVIIDEANHAMELIVPDDQLSLAIGRRGQNVRLAAQLTGWKLDI 60

Query: 342 ITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
            +  E  +   ++F  R+   +  +N  E++   L A GF    ++A      +A + G 
Sbjct: 61  NS--ESRVRELREFANRSLGSLPGVN--EMLVETLYAHGFRQARDIAEANAELLAQLPGI 116

Query: 402 DEETAVEIQGRAR 414
           D      +Q  AR
Sbjct: 117 DPARIPSMQEAAR 129


>gi|308189651|ref|YP_003922582.1| N utilization substance protein A [Mycoplasma fermentans JER]
 gi|307624393|gb|ADN68698.1| N utilization substance protein A [Mycoplasma fermentans JER]
          Length = 538

 Score = 97.1 bits (240), Expect = 6e-18,   Method: Compositional matrix adjust.
 Identities = 67/233 (28%), Positives = 114/233 (48%), Gaps = 7/233 (3%)

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG---NVIVDLGNSDGVIRRDETISRE 174
           I Q ++  ++   + ++  K+G+ +   +         NV +   N +  +      ++ 
Sbjct: 142 IAQAIKTLQKKMVFEQYSSKIGQTVKVVLNSKNSNGSWNVQIVNSNVNAYLPAGLISTKR 201

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
              PG      I  V  E +  Q+ +S   P+ +  +    +PEI  G+++V  V R PG
Sbjct: 202 KANPGQYFDVVIEKVSEETKLSQIEVSLDSPKIVWNILQNNIPEIAEGLIEVVDVVRQPG 261

Query: 235 SRAKLAVF---SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINAL 291
            R K+AV     ++  ID  G+ +G  GSR+  +  +L  EKID++++  D   +V N++
Sbjct: 262 ERVKVAVKLAEGANPDIDVRGSIIGENGSRIDLLSQKLDGEKIDVILYDEDIKKYVANSI 321

Query: 292 RPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
            P     V+L DE   +  VIV  E L+ AIG+RG N  LAS LT   +DII+
Sbjct: 322 SPIPAVDVILKDERENKYLVIVVPEHLTPAIGKRGVNAYLASSLTKVKLDIIS 374


>gi|313678838|ref|YP_004056578.1| transcription termination factor nusA [Mycoplasma bovis PG45]
 gi|312950148|gb|ADR24743.1| putative transcription termination factor nusA [Mycoplasma bovis
           PG45]
          Length = 544

 Score = 96.7 bits (239), Expect = 9e-18,   Method: Compositional matrix adjust.
 Identities = 74/248 (29%), Positives = 125/248 (50%), Gaps = 25/248 (10%)

Query: 118 IIQKVREAERDRQYLEFKDKVGE-----IISGTVKRVEYGNVIVDLGNSDGVIRR---DE 169
           I+Q +++ ++   Y ++ +K+GE      IS   K   +   IVD    DGV+     + 
Sbjct: 144 ILQAIKKLQKSIVYTKYLEKIGETVKVMFISKNTKG-SWNVQIVD----DGVMAHLPANY 198

Query: 170 TISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAV 229
             ++  + PG      I  V +E +  Q+ +S   P+ + K+ +  +PEI +G++++  V
Sbjct: 199 VSAKRVINPGSYGDVVIERVEKETKLSQITVSLDSPKLIEKILYNNIPEINSGLIEIVNV 258

Query: 230 SRDPGSRAKLAVFSS---DSSIDPVGACVGMRGSRVQAVVTELRD-------EKIDIVVW 279
            R PG R K AVF +   +  +D  GA +G   SR+  +++EL         EK D++V 
Sbjct: 259 QRIPGERTK-AVFRATPGNEHLDVYGAIIGHDSSRINLIISELNFGVNQADMEKFDVIVH 317

Query: 280 SPDSATFVINALRPAIVTKVV-LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
           + D   F+   + P  V  +V  +E      VI  K  LS AIG++G N  LAS+++   
Sbjct: 318 TNDKKEFIRRCMLPGQVLDIVPKNESQNTFYVITIKAALSAAIGKKGANTMLASKVSHCN 377

Query: 339 IDIITEEE 346
           +DIIT EE
Sbjct: 378 LDIITVEE 385


>gi|240047659|ref|YP_002961047.1| transcription elongation factor NusA [Mycoplasma conjunctivae
           HRC/581]
 gi|239985231|emb|CAT05244.1| N-utilization substance protein A [Mycoplasma conjunctivae]
          Length = 623

 Score = 94.0 bits (232), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 72/267 (26%), Positives = 132/267 (49%), Gaps = 14/267 (5%)

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR---QYLEFK 135
           I+ K+A+  D  + +G  V   +    F +   QSA Q   Q   E  R R   +YL  K
Sbjct: 108 IAKKIAKPED--LQVGNRVKIEIDITTFDKSIFQSAIQNFKQTNSEINRQRIYDKYLPLK 165

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           + V  I++    ++  G +   + +             + L+ GD ++  I DV +  + 
Sbjct: 166 NTV--ILAKITNKIHSGYIFELVEDKVAAFMPSHYSIGQKLKVGDILEVVIEDVNKSSKQ 223

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD----SSIDPV 251
            Q+++S    Q +       +PE+    +++ +++R PG + K+AV  ++      I  +
Sbjct: 224 SQIIVSSKSIQLVKNKIINAIPELQTNNLEIVSIARIPGEKCKVAVKKTNLPGSDHISEL 283

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA---IVTKVVLDEDVGRI 308
           GA +G +G R++++  +L  E+I+IV +  +  TFV NA+ PA    V +  ++      
Sbjct: 284 GAIIGEKGVRIESISQDLDGEQIEIVKYDENILTFVANAIAPARVVCVKEFKINNKNKHY 343

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLT 335
            V+VP  Q +LAIG++G NV+LA+ LT
Sbjct: 344 TVVVPDFQHTLAIGKKGSNVQLATDLT 370


>gi|153812998|ref|ZP_01965666.1| hypothetical protein RUMOBE_03405 [Ruminococcus obeum ATCC 29174]
 gi|149830945|gb|EDM86035.1| hypothetical protein RUMOBE_03405 [Ruminococcus obeum ATCC 29174]
          Length = 162

 Score = 92.0 bits (227), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 49/142 (34%), Positives = 87/142 (61%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL++  D +  EK+I +D +L  +  S+ +A ++ +G   ++ V INPET D S++   E
Sbjct: 4   ELMEALDILEKEKNISKDTLLGAIEQSLIQACKNHFGKADNVHVTINPETCDFSVYAERE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V E V++   +ISL  A+  + + ++G ++   +   +FGR+A Q+AK VI+QK+RE ER
Sbjct: 64  VKEFVDDPALEISLVDAQKINTNAELGDMIKVEIHSKEFGRIATQNAKNVILQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRV 149
              Y ++     E+++G V+RV
Sbjct: 124 KVLYDQYYGMEKEVVTGIVQRV 145


>gi|300508327|pdb|2KWP|A Chain A, Solution Structure Of The Aminoterminal Domain Of E. Coli
           Nusa
          Length = 129

 Score = 91.7 bits (226), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 47/120 (39%), Positives = 76/120 (63%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR   
Sbjct: 4   EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRRWL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER
Sbjct: 64  VVDEVTQPTKEITLEAARYEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREAER 123


>gi|153812997|ref|ZP_01965665.1| hypothetical protein RUMOBE_03404 [Ruminococcus obeum ATCC 29174]
 gi|149830944|gb|EDM86034.1| hypothetical protein RUMOBE_03404 [Ruminococcus obeum ATCC 29174]
          Length = 139

 Score = 90.9 bits (224), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 47/90 (52%), Positives = 61/90 (67%)

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           M G+RV ++V ELR EKIDI+ W  + A  + NAL PA V  V+ D D     V+VP  Q
Sbjct: 1   MNGARVNSIVEELRGEKIDIINWDENPAILIENALSPAKVIAVMADPDEKTALVVVPDYQ 60

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           LSLAIG+ GQN RLA++LTG+ IDI +E +
Sbjct: 61  LSLAIGKEGQNARLAARLTGFKIDIKSETQ 90


>gi|56807387|ref|ZP_00365366.1| COG0195: Transcription elongation factor [Streptococcus pyogenes
           M49 591]
          Length = 154

 Score = 89.0 bits (219), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 52/151 (34%), Positives = 87/151 (57%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK ID+  ++  + +S++ A +  YG      +E N +T D  +F + E
Sbjct: 4   EMLEAFRILEEEKHIDKADIIDAVTESLKSAYKRRYGQSESCVIEFNEKTADFQVFTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R   R
Sbjct: 64  VVEEVFDSRLEISLKDALAISSAYELGDKIRFEESVNEFGRVAAQSAKQTIMEKMRRQMR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
           +  + E+K+  GEI++GTV+R +   + V+L
Sbjct: 124 EVMFNEYKEHEGEIMTGTVERFDQRFIYVNL 154


>gi|169245954|gb|ACA50975.1| nucleic acid binding protein [Mycobacterium marinum DL240490]
          Length = 182

 Score = 88.6 bits (218), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 55/145 (37%), Positives = 77/145 (53%), Gaps = 3/145 (2%)

Query: 205 PQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQA 264
           P  +       VPE+   +V + A++R PG RAK+AV S  + I+PV  C+G  G R+  
Sbjct: 31  PNPIPAALSARVPELAQQLVDIVAIARIPGVRAKVAVRSCVAGINPVSVCIGWGGLRIAD 90

Query: 265 VVTELRDEKIDIVVWSPDSATFVINAL---RPAIVTKVVLDEDVGRIEVIVPKEQLSLAI 321
           V   L  E+I +V +  D AT+VINAL             +E   RI V V        +
Sbjct: 91  VEKGLGGERIHVVAYHVDPATYVINALGCPGTGTGAAAAAEERSRRIRVRVEAHDYPRTV 150

Query: 322 GRRGQNVRLASQLTGWTIDIITEEE 346
           G+ GQNVRLAS+LTG  I+I+ E+ 
Sbjct: 151 GKAGQNVRLASKLTGQKIEILVEKS 175


>gi|15828674|ref|NP_326034.1| transcription elongation factor NusA [Mycoplasma pulmonis UAB CTIP]
 gi|14089616|emb|CAC13376.1| N-UTILIZATION SUBSTANCE PROTEIN A [Mycoplasma pulmonis]
          Length = 550

 Score = 87.4 bits (215), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 73/281 (25%), Positives = 134/281 (47%), Gaps = 20/281 (7%)

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQV--IIQKVREAERDRQYLEF-K 135
           + L  AR     + IG +V   +       + +   K++  I Q+    E  +  L+F  
Sbjct: 112 VRLSDARKEKSDVQIGDIVKKQIKH---DELKLNEVKKIFSIFQQNLAKEAKQSVLDFYS 168

Query: 136 DKVGEIISGTVKRVE----YGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRR 191
            K+G+ I   ++  +    +G+V+ D+  +   +   E      +  G ++  Y  +  +
Sbjct: 169 SKIGQKIQVKIEEFKNRGFFGSVVGDM-ETKVFLPNKEINKNSKIALGKKIDVYFIEFAK 227

Query: 192 E-QRGPQVLL--SRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS---D 245
           E Q   + LL  S   P  ++ +      EI NG + +K ++R  G R K+AV  S    
Sbjct: 228 EFQNKSETLLIVSLNSPLEVINVLKETFEEIANGSIIIKKIARKAGIRTKIAVEKSHLAS 287

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT---KVVLD 302
             ++ +G  +G  G R + +  +L +EKID V++  D   F++ +L+PA V    +VV +
Sbjct: 288 EGLNIIGTLIGQSGDRNKIISEKLNNEKIDFVIYKEDLQEFIVESLKPANVISIERVVPE 347

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
             +    V+VP  Q+S+AIG+ G N  L+S+L+   I+I T
Sbjct: 348 THIPAFNVVVPNSQMSVAIGKAGMNTILSSELSQSRINIET 388


>gi|207109944|ref|ZP_03244106.1| transcription elongation factor NusA [Helicobacter pylori
           HPKX_438_CA4C1]
          Length = 127

 Score = 87.0 bits (214), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 41/107 (38%), Positives = 69/107 (64%)

Query: 163 GVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNG 222
           GV+     I  E+ + GD +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI + 
Sbjct: 13  GVLSMRHRIKGESFKVGDSIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDK 72

Query: 223 IVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTEL 269
            +++   +R PG+RAK++ FS ++ IDP+GA VG++G R+ A+  EL
Sbjct: 73  EIEIIHCARIPGNRAKVSFFSHNARIDPIGAAVGVKGVRINAISNEL 119


>gi|209418048|ref|YP_002274077.1| nucleic acid binding protein [Mycobacterium liflandii 128FXT]
 gi|169409180|gb|ACA57586.1| nucleic acid binding protein [Mycobacterium liflandii 128FXT]
          Length = 184

 Score = 87.0 bits (214), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 55/147 (37%), Positives = 77/147 (52%), Gaps = 5/147 (3%)

Query: 205 PQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQA 264
           P  +       VPE+   +V + A++R PG RAK+AV S  + I+PV  C+G  G R+  
Sbjct: 31  PNPIPAALSARVPELAQQLVDIVAIARIPGVRAKVAVRSRVAGINPVSVCIGWGGLRIAD 90

Query: 265 VVTELRDEKIDIVVWSPDSATFVINAL-----RPAIVTKVVLDEDVGRIEVIVPKEQLSL 319
           V   L  E+I +V +  D AT+VINAL               +E   RI V V       
Sbjct: 91  VEKGLGGERIHVVAYHVDPATYVINALGCPGTGTGTGAAAAAEERSRRIRVRVEAHDYPR 150

Query: 320 AIGRRGQNVRLASQLTGWTIDIITEEE 346
            +G+ GQNVRLAS+LTG  I+I+ E+ 
Sbjct: 151 TVGKAGQNVRLASKLTGQKIEILVEKS 177


>gi|49146092|ref|YP_025530.1| nucleic acid binding protein [Mycobacterium ulcerans Agy99]
 gi|42414726|emb|CAE46819.1| possible nucleic acid binding protein [Mycobacterium ulcerans
           Agy99]
          Length = 182

 Score = 86.3 bits (212), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 54/145 (37%), Positives = 76/145 (52%), Gaps = 3/145 (2%)

Query: 205 PQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQA 264
           P  +       VPE+   +V + A++R PG RAK+AV S  + I+PV  C+G  G R+  
Sbjct: 31  PNPIPAALSARVPELAQQLVDIVAIARIPGVRAKVAVRSRVAGINPVSVCIGWGGLRIAD 90

Query: 265 VVTELRDEKIDIVVWSPDSATFVINAL---RPAIVTKVVLDEDVGRIEVIVPKEQLSLAI 321
           V   L  E+I +V +  D AT+VIN L             +E   RI V V        +
Sbjct: 91  VEKGLGGERIHVVAYHVDPATYVINVLGCPGTGTGAAAAAEERSRRIRVRVEAHDYPRTV 150

Query: 322 GRRGQNVRLASQLTGWTIDIITEEE 346
           G+ GQNVRLAS+LTG  I+I+ E+ 
Sbjct: 151 GKAGQNVRLASKLTGQKIEILVEKS 175


>gi|409843|gb|AAD10598.1| Significant homology to E.coli protein NusA X00513 [Mycoplasma
           genitalium]
          Length = 217

 Score = 85.9 bits (211), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 62/216 (28%), Positives = 107/216 (49%), Gaps = 10/216 (4%)

Query: 53  INPETGDISLFRLLEVV-EEVENYT--CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRV 109
           IN + G I++ +L  VV +E E+Y    +I L+ A   + S+ +G V+  P+P  +    
Sbjct: 2   INFDKGIINVEQLFNVVSDENEDYDDFLEIPLQAANKINSSLQLGDVLRKPIPLKNISSD 61

Query: 110 AVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN------VIVDLGNSDG 163
            +     +  QK+ E        EF  +VGE+I   V+ ++          I++L  + G
Sbjct: 62  LINKMIAIFNQKISETNFKAVMSEFSSEVGEVIEAKVEDIDTNKEGGLKGYIINLETTKG 121

Query: 164 VIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGI 223
            I + E    E L  G +    I +++R+     + LSR+  + +  L     PEI NG 
Sbjct: 122 YISKRELSKGERLEIGKKYLFVIKEIQRQASLWPITLSRSDTRLLQFLLTSNTPEIENGT 181

Query: 224 VQVKAVSRDPGSRAKLAVFSSDS-SIDPVGACVGMR 258
           + +K + R PG ++K+AV S+D+ S DPV A +G +
Sbjct: 182 IVIKKIERSPGVKSKIAVISNDACSWDPVAAILGPK 217


>gi|33322909|gb|AAQ07191.1|AF496499_1 transcription termination/antitermination factor [Lactobacillus
           delbrueckii subsp. lactis]
          Length = 95

 Score = 85.1 bits (209), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 44/86 (51%), Positives = 59/86 (68%), Gaps = 1/86 (1%)

Query: 220 YNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVW 279
           ++G V++ +++R+ G R K+AV S+D +IDPVG CVG RGSRVQ VV EL  E IDIV +
Sbjct: 1   FDGTVEIISIAREAGERTKIAVKSNDPNIDPVGTCVGPRGSRVQNVVNELGGENIDIVQY 60

Query: 280 SPDSATFVINALRPAIVTKVVL-DED 304
             D + ++ NAL PA V  V   DED
Sbjct: 61  EEDPSDYIANALNPAEVIAVQFEDED 86


>gi|331006261|ref|ZP_08329581.1| Transcription termination protein NusA [gamma proteobacterium
           IMCC1989]
 gi|330419950|gb|EGG94296.1| Transcription termination protein NusA [gamma proteobacterium
           IMCC1989]
          Length = 159

 Score = 83.6 bits (205), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 46/135 (34%), Positives = 84/135 (62%), Gaps = 3/135 (2%)

Query: 350 NRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEI 409
            ++++   + + FM+A++VDE +A +LV EGF  +EE+A V + E+  IEGFDE+ A E+
Sbjct: 9   KQEQEAGGQVELFMEALDVDEDVAAVLVEEGFTSLEEVAYVPLEEMLGIEGFDEDIANEL 68

Query: 410 QGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDD 469
           + RA++ L    +  ++K+     +E+L ++ G+D+ +   L + G+  MEDLA  +VD+
Sbjct: 69  RSRAKDTLLTKALASEEKLEGAEPAEDLVAMEGMDNALAAVLAKRGVVCMEDLAEQAVDE 128

Query: 470 LL---GWSENKGGNI 481
           LL   G +E +   +
Sbjct: 129 LLDIDGMTEERAAAL 143


>gi|296163996|ref|ZP_06846621.1| transcription elongation factor NusA [Mycobacterium
           parascrofulaceum ATCC BAA-614]
 gi|295900648|gb|EFG80029.1| transcription elongation factor NusA [Mycobacterium
           parascrofulaceum ATCC BAA-614]
          Length = 148

 Score = 81.3 bits (199), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 49/128 (38%), Positives = 73/128 (57%)

Query: 216 VPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKID 275
           +PE+ NG V++ AV+R+PG  AK+AV S    I+ V  C+G  G R+  V   L  E + 
Sbjct: 1   MPELANGSVEIIAVAREPGLLAKVAVRSRVRGINAVAVCIGWGGLRIADVEKRLCGEHVS 60

Query: 276 IVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLT 335
           I+ +  D+A +VINAL        V++ +  RI V V  +  + A+G+ G N+RL  QLT
Sbjct: 61  IIAYDSDTARYVINALGIKSAIAEVINPEQRRIRVYVNPDDYARALGKVGHNLRLVRQLT 120

Query: 336 GWTIDIIT 343
             +I I T
Sbjct: 121 SCSIHIRT 128


>gi|218678853|ref|ZP_03526750.1| transcription elongation factor NusA [Rhizobium etli CIAT 894]
          Length = 82

 Score = 80.9 bits (198), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 38/76 (50%), Positives = 50/76 (65%), Gaps = 3/76 (3%)

Query: 453 ENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
           E+GIKT+ED AGC+ DDL+GW+E K G  +KF+G  S     + + E MI+ AR   GWI
Sbjct: 1   EDGIKTIEDFAGCAADDLVGWTERKNGETKKFEGLFSKFDVSRVEAEQMIVQARLSAGWI 60

Query: 513 EKE---KVADEEVQDA 525
            +E   K A+EEV DA
Sbjct: 61  TQEDLAKEAEEEVTDA 76


>gi|145346768|ref|XP_001417855.1| predicted protein [Ostreococcus lucimarinus CCE9901]
 gi|144578083|gb|ABO96148.1| predicted protein [Ostreococcus lucimarinus CCE9901]
          Length = 710

 Score = 77.8 bits (190), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 72/244 (29%), Positives = 120/244 (49%), Gaps = 21/244 (8%)

Query: 133 EFKDKVGEIISGTVK-RVEYGNVIVDL-GNSDGVIRRDETISREN---LRPGDRVKSYIY 187
           +F  ++G ++ GT++ R E G+ ++D+ G + GVI  +E +   N   L+ GD +  ++ 
Sbjct: 332 DFVGQIGNVVDGTLRFRTETGSWMMDIKGGAAGVIPPEEQLLTYNDLPLKQGDELSCFVL 391

Query: 188 DV------RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           DV       REQ    V+LS T P  +  +   EVPE+  G +++K+++R  G   K+AV
Sbjct: 392 DVDQNLFTGREQ--TPVVLSMTIPALVGAIIREEVPEVARGEIEIKSIARMAGKVTKVAV 449

Query: 242 F---SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
                S S  + V  C+G   S ++ +      E +  + WS D A  + ++L PA V +
Sbjct: 450 ALREGSTSWSNAVETCLGEDQSILRRIRERCGGEVVHFLPWSDDPAELIKSSLFPAEVLR 509

Query: 299 VVLDEDVG----RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI-ITEEEDSINRQK 353
           V      G    +    V +  L  AIG  G NV+L + LT   I I + E   +  R+ 
Sbjct: 510 VEESFPDGTQKRKFTAYVKEVDLRRAIGAGGNNVKLCASLTNAFIVIEVDETAGNTQRRG 569

Query: 354 DFNE 357
            FN+
Sbjct: 570 SFND 573


>gi|328479976|gb|EGF49013.1| transcription elongation factor NusA [Lactobacillus rhamnosus MTCC
           5462]
          Length = 117

 Score = 76.6 bits (187), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 39/114 (34%), Positives = 70/114 (61%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E++Q  DA+  EK + ++VV+  +  ++  A +  Y    ++ VE +P+ GDI ++ + E
Sbjct: 4   EMIQALDALEQEKGVKKEVVIEALEAALVSAYKRNYNQAQNVDVEFDPKQGDIHVYAVKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           V +EV +   ++SLK A   + + +IG  +   + P DFGR+A Q+AKQVI+Q+
Sbjct: 64  VTDEVFDSRLEVSLKDALAINKAYEIGDQIKFEVTPKDFGRIAAQTAKQVIMQR 117


>gi|255077143|ref|XP_002502222.1| predicted protein [Micromonas sp. RCC299]
 gi|226517487|gb|ACO63480.1| predicted protein [Micromonas sp. RCC299]
          Length = 897

 Score = 75.5 bits (184), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 71/232 (30%), Positives = 116/232 (50%), Gaps = 22/232 (9%)

Query: 134 FKDKVGEIISGTV----KRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDV 189
           ++ K G+++  TV    +R EY   + D   +   +  +E+I  +    G+RV + + +V
Sbjct: 425 YRAKRGQMVECTVVAEGRRGEYLLRLDD--GAMACLPEEESIPGKKYSQGERVCALVMEV 482

Query: 190 R-----REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
                  ++R P V++S      + ++   EVPE+  G V +K+V+R  G  +K+AV   
Sbjct: 483 EDRTWAADRRAP-VIVSTAIAGLLAEVLAAEVPEVARGDVVIKSVARVSGKMSKVAVARQ 541

Query: 245 DSS---IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           + +    DPV ACVG+  SR++A+   L  E   I+ WS +    V  AL PA V +VV 
Sbjct: 542 EGAEKVFDPVLACVGVENSRLRAIRERLGGEVCQILTWSDNREDMVAEALFPAAVHRVVK 601

Query: 302 DED-------VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            E+       + +    V +   + AIG  G NV+LA+ LTG  I I   EE
Sbjct: 602 AEEDDMDGRALDKFIAYVSRFDEAKAIGAGGVNVKLAAALTGCFILIERHEE 653


>gi|308804463|ref|XP_003079544.1| putative transcriptional termination/an (ISS) [Ostreococcus tauri]
 gi|116057999|emb|CAL54202.1| putative transcriptional termination/an (ISS) [Ostreococcus tauri]
          Length = 615

 Score = 74.7 bits (182), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 69/219 (31%), Positives = 106/219 (48%), Gaps = 19/219 (8%)

Query: 134 FKDKVGEIISGTVK-RVEYGNVIVDLGN-SDGVIRRDETISREN---LRPGDRVKSYIYD 188
           + +++G +  GT + R E G+ +VD+ + + GVI  +E +   N   L+ GD V  Y+ D
Sbjct: 334 YVEQIGSLCVGTTRFRSEDGSWMVDIADGAAGVIPPEEQLQLFNDRQLKQGDEVSCYVLD 393

Query: 189 VR------REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV- 241
           V       REQ    V+LS T P  +  +   EVPEI  G V++KA++R  G   K+AV 
Sbjct: 394 VDQNLFTGREQ--TPVVLSMTIPAVVAAIIRDEVPEIAKGDVEIKAIARIAGKITKVAVA 451

Query: 242 -FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
                S  + +  CVG+   R++ +      E +  + WS D +  V  AL PA V  V 
Sbjct: 452 PVPGSSIWNTIDVCVGVDQVRLKRIRERAGGEVVHFINWSDDPSEVVKAALFPADVKSVE 511

Query: 301 LDEDVG----RIEVIVPKEQLSLAIGRRGQNVRLASQLT 335
                G    +    V +  +  AIG  G NV+L + LT
Sbjct: 512 KSFPDGSQRPKFTAYVSEFDVKRAIGTNGNNVKLCAALT 550


>gi|303279869|ref|XP_003059227.1| predicted protein [Micromonas pusilla CCMP1545]
 gi|226459063|gb|EEH56359.1| predicted protein [Micromonas pusilla CCMP1545]
          Length = 511

 Score = 69.7 bits (169), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 69/229 (30%), Positives = 107/229 (46%), Gaps = 26/229 (11%)

Query: 134 FKDKVGEIISGTV----KRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDV 189
           ++ + GE++  TV    +R EY   + D   +   +  +E I  +    GDRV + +  V
Sbjct: 25  YRVRTGEMVEATVVSEGRRGEYLLKLDD--GAFACLPAEEGIPEKRYGQGDRVSALVLGV 82

Query: 190 R-----REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
                  ++R P V++S      + ++   EVPE+  G V +++V+R  G  +K+AV   
Sbjct: 83  EDQTWAADRRAP-VVVSTAIAGLLAEVLKKEVPEVATGDVVIRSVARVSGKMSKVAVSRR 141

Query: 245 DSSI---DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-- 299
           D ++   DPV ACVG   SR+ A+   L  E   I+ WS      V  AL PA V +V  
Sbjct: 142 DGAVGTWDPVLACVGENNSRMLAIRERLGGETCQILTWSDVQEEMVAEALFPAQVVRVDK 201

Query: 300 ---VLDEDVG------RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
                DE  G      +    V +   + AIG  G NV+LA+ L G  I
Sbjct: 202 ALEEADEHGGKEFAMDKYVAYVNQFDEAKAIGAGGINVKLAAALCGCFI 250


>gi|213021473|ref|ZP_03335920.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. 404ty]
          Length = 156

 Score = 66.2 bits (160), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 40/133 (30%), Positives = 73/133 (54%), Gaps = 3/133 (2%)

Query: 352 QKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           Q + +   + F + +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ 
Sbjct: 10  QAEAHAAIEIFTKYLDIDEEFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRE 69

Query: 412 RAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           RA+  L  +    +  + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL 
Sbjct: 70  RAKNALATLAQDQEASLGDNKPADDLLNLEGLDRDMAFKLAARGVCTLEDLADQGIDDLA 129

Query: 472 ---GWSENKGGNI 481
              G ++ K G +
Sbjct: 130 DIEGLTDEKAGEL 142


>gi|215428280|ref|ZP_03426199.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           T92]
 gi|289751502|ref|ZP_06510880.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           T92]
 gi|289692089|gb|EFD59518.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           T92]
          Length = 166

 Score = 62.4 bits (150), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 46/160 (28%), Positives = 82/160 (51%), Gaps = 32/160 (20%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           A+  ++ I  + +L  +  ++  A R   G  +D R+EI+ +TG + +            
Sbjct: 10  AIEVDRGISVNELLETIKSALLTAYRHTQGHQTDARIEIDRKTGVVRV------------ 57

Query: 75  YTCQISLKVARDRDPSIDIGGVVSD-PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
                   +AR+ D   + G ++S+    P  FGR+A  +A+QV++Q+ R+AE +R Y E
Sbjct: 58  --------IARETD---EAGNLISEWDDTPEGFGRIAATTARQVMLQRFRDAENERTYGE 106

Query: 134 FKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVI 165
           F  + GEI++G ++R    N    V+V +G     S+GVI
Sbjct: 107 FSTREGEIVAGVIQRDSRANARGLVVVRIGTETKASEGVI 146


>gi|291532985|emb|CBL06098.1| hypothetical protein MHY_11450 [Megamonas hypermegale ART12/1]
          Length = 65

 Score = 55.8 bits (133), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 25/37 (67%), Positives = 30/37 (81%)

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E +
Sbjct: 4   VIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSETQ 40


>gi|254993851|ref|ZP_05276041.1| transcription elongation factor NusA [Listeria monocytogenes FSL
           J2-064]
          Length = 104

 Score = 52.0 bits (123), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 30/101 (29%), Positives = 53/101 (52%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     + ++K I R+V++  +  ++  A +  +    ++RV++N E G I +    E
Sbjct: 4   ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGR 108
            VE+V +   +IS++ A   +P    G VV   + P DFGR
Sbjct: 64  AVEQVFDSRLEISMEEAHKLNPVYKPGDVVELEVTPKDFGR 104


>gi|153873980|ref|ZP_02002373.1| transcription elongation factor NusA [Beggiatoa sp. PS]
 gi|152069557|gb|EDN67628.1| transcription elongation factor NusA [Beggiatoa sp. PS]
          Length = 99

 Score = 50.8 bits (120), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 29/90 (32%), Positives = 49/90 (54%), Gaps = 3/90 (3%)

Query: 8  ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
          ++L + D V+ EK + ++V+ + +  +I  A +  Y    D+RV I+  TGD   FR  +
Sbjct: 4  DILLVVDVVSNEKGVSKEVIFNALECAIASATKKRYEGEVDVRVHIDRRTGDYKAFRRWQ 63

Query: 68 VVEEVENY---TCQISLKVARDRDPSIDIG 94
           VEE E       Q++L  A+  +P+I IG
Sbjct: 64 AVEEEEELDSPHTQMNLTEAQIHNPNIAIG 93


>gi|21228370|ref|NP_634292.1| transcription elongation factor NusA-like protein [Methanosarcina
           mazei Go1]
 gi|20906840|gb|AAM31964.1| NusA protein homolog [Methanosarcina mazei Go1]
          Length = 141

 Score = 47.8 bits (112), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 30/87 (34%), Positives = 44/87 (50%), Gaps = 3/87 (3%)

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR--I 308
           +G  +G  G  +  V   L D+ I++V +S D  TF+ NA  P  V+ V L    G+   
Sbjct: 44  MGLAIGKNGENINRVKKAL-DKPIELVEYSEDPVTFIKNAFGPVSVSSVNLTNKNGKRLA 102

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLT 335
            V VP ++  LAIGR G+N+     L 
Sbjct: 103 YVEVPNKEKGLAIGRNGKNIEKVKMLA 129


>gi|161484938|ref|NP_616199.2| transcription elongation factor NusA-like protein [Methanosarcina
           acetivorans C2A]
          Length = 141

 Score = 47.0 bits (110), Expect = 0.008,   Method: Compositional matrix adjust.
 Identities = 30/87 (34%), Positives = 44/87 (50%), Gaps = 3/87 (3%)

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR--I 308
           +G  +G  G  +  V   L D+ I++V +S D  TF+ NA  P  V+ V L    G+   
Sbjct: 44  MGLAIGKNGENINRVKKAL-DKPIELVEYSEDPVTFIKNAFGPVSVSSVNLTTKNGKRLA 102

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLT 335
            V VP ++  LAIGR G+N+     L 
Sbjct: 103 YVEVPNKEKGLAIGRNGKNIEKVKMLA 129


>gi|52696033|pdb|1U9L|A Chain A, Structural Basis For A Nusa- Protein N Interaction
 gi|52696034|pdb|1U9L|B Chain B, Structural Basis For A Nusa- Protein N Interaction
          Length = 70

 Score = 46.6 bits (109), Expect = 0.010,   Method: Composition-based stats.
 Identities = 25/59 (42%), Positives = 37/59 (62%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
           F + +++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L  I
Sbjct: 8   FTKYLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALATI 66


>gi|19915104|gb|AAM04679.1| transcription termination factor NusA [Methanosarcina acetivorans
           C2A]
          Length = 149

 Score = 46.6 bits (109), Expect = 0.011,   Method: Compositional matrix adjust.
 Identities = 30/87 (34%), Positives = 44/87 (50%), Gaps = 3/87 (3%)

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR--I 308
           +G  +G  G  +  V   L D+ I++V +S D  TF+ NA  P  V+ V L    G+   
Sbjct: 52  MGLAIGKNGENINRVKKAL-DKPIELVEYSEDPVTFIKNAFGPVSVSSVNLTTKNGKRLA 110

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLT 335
            V VP ++  LAIGR G+N+     L 
Sbjct: 111 YVEVPNKEKGLAIGRNGKNIEKVKMLA 137


>gi|159163264|pdb|1WCL|A Chain A, Nmr Structure Of The Carboxyterminal Domains Of
           Escherichia Coli Nusa
          Length = 76

 Score = 46.2 bits (108), Expect = 0.012,   Method: Composition-based stats.
 Identities = 25/59 (42%), Positives = 37/59 (62%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
           F + +++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L  I
Sbjct: 9   FTKYLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALATI 67


>gi|294507814|ref|YP_003571872.1| 30S ribosomal protein S1 [Salinibacter ruber M8]
 gi|294344142|emb|CBH24920.1| 30S ribosomal protein S1 [Salinibacter ruber M8]
          Length = 876

 Score = 45.4 bits (106), Expect = 0.024,   Method: Compositional matrix adjust.
 Identities = 31/82 (37%), Positives = 46/82 (56%), Gaps = 13/82 (15%)

Query: 131 YLEFKDKVGE---------IISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGD 180
           Y +F+D V E         I+ G V RV    V++D+G  SDG++ RDE    E + PGD
Sbjct: 179 YDQFRDVVDETSIDVREQDIVEGRVLRVNEDYVVIDIGYKSDGIVSRDE-FGEEEIHPGD 237

Query: 181 RVKSYIYDVRREQRGPQVLLSR 202
            V+ Y+   R+E R  Q++LS+
Sbjct: 238 TVEVYLE--RKEDRDGQLVLSK 257


>gi|83814780|ref|YP_445904.1| ribosomal protein S1, putative [Salinibacter ruber DSM 13855]
 gi|83756174|gb|ABC44287.1| ribosomal protein S1, putative [Salinibacter ruber DSM 13855]
          Length = 871

 Score = 45.4 bits (106), Expect = 0.025,   Method: Compositional matrix adjust.
 Identities = 31/82 (37%), Positives = 46/82 (56%), Gaps = 13/82 (15%)

Query: 131 YLEFKDKVGE---------IISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGD 180
           Y +F+D V E         I+ G V RV    V++D+G  SDG++ RDE    E + PGD
Sbjct: 179 YDQFRDVVDETSIDVREQDIVEGRVLRVNEDYVVIDIGYKSDGIVSRDE-FGEEEIHPGD 237

Query: 181 RVKSYIYDVRREQRGPQVLLSR 202
            V+ Y+   R+E R  Q++LS+
Sbjct: 238 TVEVYLE--RKEDRDGQLVLSK 257


>gi|260437065|ref|ZP_05790881.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Butyrivibrio
           crossotus DSM 2876]
 gi|292810374|gb|EFF69579.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Butyrivibrio
           crossotus DSM 2876]
          Length = 367

 Score = 45.1 bits (105), Expect = 0.028,   Method: Compositional matrix adjust.
 Identities = 29/98 (29%), Positives = 52/98 (53%), Gaps = 11/98 (11%)

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETIS-- 172
           KQ+++ K     + R+ +  K  VG++++GTVK V    V +D+G  DG++   E IS  
Sbjct: 177 KQLLVAK---KAKMREEVMSKIAVGQVVTGTVKNVTDFGVFIDIGGVDGLLHVSE-ISWG 232

Query: 173 -----RENLRPGDRVKSYIYDVRREQRGPQVLLSRTHP 205
                ++  +PGD VK+YI D+  ++    +     +P
Sbjct: 233 RIENPKKKFKPGDEVKAYIKDINNDKIALSLKFDNENP 270


>gi|254669624|emb|CBA03668.1| N utilization substance protein A [Neisseria meningitidis
          alpha153]
          Length = 136

 Score = 44.3 bits (103), Expect = 0.048,   Method: Composition-based stats.
 Identities = 26/70 (37%), Positives = 44/70 (62%), Gaps = 2/70 (2%)

Query: 8  ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
          E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 9  EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 68

Query: 67 EVVEEVENYT 76
           +V + E+YT
Sbjct: 69 LIVAD-EDYT 77


>gi|73671117|ref|YP_307132.1| transcription elongation factor NusA-like protein [Methanosarcina
           barkeri str. Fusaro]
 gi|72398279|gb|AAZ72552.1| transcription termination factor NusA [Methanosarcina barkeri str.
           Fusaro]
          Length = 141

 Score = 44.3 bits (103), Expect = 0.057,   Method: Compositional matrix adjust.
 Identities = 27/87 (31%), Positives = 48/87 (55%), Gaps = 3/87 (3%)

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIE 309
           +G  +G  G  +  V   L D+ I++V +S +  TF+ NA  P  V+ V +++++  R+ 
Sbjct: 44  MGLAIGRNGENINRVKKAL-DKPIELVEYSDEPVTFLKNAFGPVSVSSVNIINKNGKRLA 102

Query: 310 VI-VPKEQLSLAIGRRGQNVRLASQLT 335
            + VP ++  LAIGR G+N+     L 
Sbjct: 103 YVEVPNKEKGLAIGRNGKNIEKVKMLA 129


>gi|27375699|ref|NP_767228.1| hypothetical protein blr0588 [Bradyrhizobium japonicum USDA 110]
 gi|27348837|dbj|BAC45853.1| blr0588 [Bradyrhizobium japonicum USDA 110]
          Length = 226

 Score = 43.9 bits (102), Expect = 0.060,   Method: Compositional matrix adjust.
 Identities = 32/120 (26%), Positives = 55/120 (45%), Gaps = 12/120 (10%)

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL------AVF 242
            R + R  + +L+RT PQF   LF    P  Y   + + A+ +  G + +        +F
Sbjct: 14  ARSKVRSGRTILTRTAPQF---LFDFGSPNAYLSHLAIPAIEQRIGVKFEYVPILLGGIF 70

Query: 243 SSDSSIDPVGACVGMRGSR-VQAVVTE--LRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
            S ++  P     G++  R  QAV TE  ++  K+   VW+P      +N +R AI  ++
Sbjct: 71  KSTNNKSPAETLAGVKNKREFQAVETERFIKRFKVQPYVWNPHFPVNTLNLMRAAIAAQL 130


>gi|119719200|ref|YP_919695.1| NusA family protein [Thermofilum pendens Hrk 5]
 gi|119524320|gb|ABL77692.1| NusA family KH domain protein [Thermofilum pendens Hrk 5]
          Length = 149

 Score = 43.9 bits (102), Expect = 0.068,   Method: Compositional matrix adjust.
 Identities = 34/96 (35%), Positives = 52/96 (54%), Gaps = 5/96 (5%)

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           +F  D    P+   VG  GS+++ ++ EL  + +++V        FV +   PA V +V 
Sbjct: 41  IFLVDKGFAPL--AVGKNGSKIR-MIKELLRKDVEVVEDGSSLEDFVKSVFFPARVVEVK 97

Query: 301 LDEDVGRIEVI--VPKEQLSLAIGRRGQNVRLASQL 334
           + E+  R  VI  VP +QL LAIGR G+NV+ A  L
Sbjct: 98  VREENNRKVVIAVVPPDQLGLAIGRNGRNVQRAKIL 133


>gi|15791386|ref|NP_281210.1| transcription elongation factor NusA-like protein [Halobacterium
           sp. NRC-1]
 gi|169237147|ref|YP_001690347.1| transcription elongation factor NusA-like protein [Halobacterium
           salinarum R1]
 gi|139955|sp|P15739|NUSA_HALSA RecName: Full=NusA protein homolog
 gi|43544|emb|CAA40428.1| ORF 139 [Halobacterium salinarum]
 gi|10582041|gb|AAG20690.1| transcription termination-antitermination factor [Halobacterium sp.
           NRC-1]
 gi|167728213|emb|CAP15001.1| putative transcription termination factor nusA [Halobacterium
           salinarum R1]
          Length = 139

 Score = 43.9 bits (102), Expect = 0.070,   Method: Compositional matrix adjust.
 Identities = 32/92 (34%), Positives = 45/92 (48%), Gaps = 2/92 (2%)

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEV 310
           +GA +G  GSRV A+   L    + +V  +P +  FV NAL PA V  V + E+   +  
Sbjct: 43  MGAAIGDGGSRVDALEATLG-RSVVLVEDAPTAEGFVANALSPAAVYNVTVSENDTTVAY 101

Query: 311 I-VPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             V  E   +AIG  G N+  A +L     DI
Sbjct: 102 AEVAHEDKGVAIGADGTNIETAKELAARHFDI 133


>gi|307353872|ref|YP_003894923.1| NusA family KH domain-containing protein [Methanoplanus
           petrolearius DSM 11571]
 gi|307157105|gb|ADN36485.1| NusA family KH domain protein [Methanoplanus petrolearius DSM
           11571]
          Length = 156

 Score = 43.5 bits (101), Expect = 0.086,   Method: Compositional matrix adjust.
 Identities = 35/110 (31%), Positives = 56/110 (50%), Gaps = 11/110 (10%)

Query: 248 IDP--VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           I+P  +G  +G  G  ++    EL  +KI++V +S D   F+ N   PA V  V + E+ 
Sbjct: 41  INPGDMGRAIGKSGVSIKKASDEL-GKKIEVVEFSNDPVQFIKNCFLPARVISVDIRENA 99

Query: 306 -GRIEVIV--PKEQLSLAIGRRGQNVRLASQLTG-----WTIDIITEEED 347
            G  E  V   +E + +AIG+ G+N+  A++L         + IIT  ED
Sbjct: 100 EGEFEAFVDVEEEDMGIAIGKGGKNIFKANKLAERQHDIANVQIITNAED 149


>gi|23008735|ref|ZP_00050053.1| hypothetical protein Magn03003752 [Magnetospirillum magnetotacticum
           MS-1]
          Length = 97

 Score = 43.5 bits (101), Expect = 0.096,   Method: Composition-based stats.
 Identities = 19/50 (38%), Positives = 30/50 (60%)

Query: 464 GCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           GC+ DDL+G++E +G    +  GFL      + + E++I+ AR   GWIE
Sbjct: 3   GCANDDLVGYTEGRGPEAVRHAGFLDGFELSRAEAEALIMAARVHAGWIE 52


>gi|160880581|ref|YP_001559549.1| hydroxymethylbutenyl pyrophosphate reductase [Clostridium
           phytofermentans ISDg]
 gi|160429247|gb|ABX42810.1| hydroxymethylbutenyl pyrophosphate reductase [Clostridium
           phytofermentans ISDg]
          Length = 643

 Score = 42.7 bits (99), Expect = 0.14,   Method: Compositional matrix adjust.
 Identities = 30/98 (30%), Positives = 52/98 (53%), Gaps = 13/98 (13%)

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDET---- 170
           KQ+++ K +E  +    L  K KVG+++ GTVK V      +DLG +DG++   E     
Sbjct: 456 KQLLVAKKQELSK---ALFAKIKVGDVVEGTVKNVTDFGAFIDLGGADGLLHISEMSWGR 512

Query: 171 --ISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQ 206
               ++  + GD VK++I D+    +G ++ LS   P+
Sbjct: 513 IESPKKVFKVGDTVKAFIKDI----QGEKIALSLKFPE 546


>gi|315230009|ref|YP_004070445.1| NusA-like protein [Thermococcus barophilus MP]
 gi|315183037|gb|ADT83222.1| NusA-like protein [Thermococcus barophilus MP]
          Length = 145

 Score = 42.0 bits (97), Expect = 0.23,   Method: Compositional matrix adjust.
 Identities = 19/54 (35%), Positives = 32/54 (59%)

Query: 294 AIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
           A V   ++D+D  R+  ++ K ++ LA+G+RG NVR    + G  ID+I   E+
Sbjct: 22  ATVLDCIIDQDRNRLIYVIKKGEMGLALGKRGMNVRRIQSMLGKEIDLIEHSEN 75


>gi|327401229|ref|YP_004342068.1| NusA family KH domain-containing protein [Archaeoglobus veneficus
           SNP6]
 gi|327316737|gb|AEA47353.1| NusA family KH domain protein [Archaeoglobus veneficus SNP6]
          Length = 139

 Score = 42.0 bits (97), Expect = 0.24,   Method: Compositional matrix adjust.
 Identities = 31/93 (33%), Positives = 50/93 (53%), Gaps = 4/93 (4%)

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR--I 308
           +GA +G  G  ++    EL  ++I+++  S D A F++N  +P I  KV L E  G+   
Sbjct: 43  MGAAIGKGGINIERA-RELMGKRIEVIEHSDDPAEFIVNIFKP-IKVKVKLIEKGGKKIA 100

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +V V  +   LAIG+ G+N+  A +L     DI
Sbjct: 101 QVGVDPQYKGLAIGKGGKNINKAKELARRHHDI 133


>gi|154151469|ref|YP_001405087.1| NusA family protein [Candidatus Methanoregula boonei 6A8]
 gi|154000021|gb|ABS56444.1| NusA family KH domain protein [Methanoregula boonei 6A8]
          Length = 154

 Score = 41.6 bits (96), Expect = 0.30,   Method: Compositional matrix adjust.
 Identities = 26/87 (29%), Positives = 47/87 (54%), Gaps = 3/87 (3%)

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DEDVGRI 308
           +G  +G +G+ ++   +E   +KI++V ++ +S  F+ N   PA VT +V   + D    
Sbjct: 46  MGLAIGKKGASIKKA-SEAMGKKIEVVEYNSNSEQFLKNCFLPAQVTSIVFSGEPDAQSA 104

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLT 335
            V V  E   +AIG+ G+N+  A +L 
Sbjct: 105 TVEVRDEDRGIAIGKDGKNIFKAKKLA 131


>gi|330507368|ref|YP_004383796.1| NusA protein-like protein [Methanosaeta concilii GP-6]
 gi|328928176|gb|AEB67978.1| NusA protein-like protein [Methanosaeta concilii GP-6]
          Length = 143

 Score = 41.6 bits (96), Expect = 0.37,   Method: Compositional matrix adjust.
 Identities = 27/87 (31%), Positives = 49/87 (56%), Gaps = 3/87 (3%)

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIE 309
           +GA +G +GS +  V   +  ++I+IV +S D   F+ N  +PA +  V V++++  R+ 
Sbjct: 46  MGAAIGRKGSNINRVKKSV-GKQIEIVEYSEDVKEFLENLFQPAAIKNVMVVNKNSKRLA 104

Query: 310 VI-VPKEQLSLAIGRRGQNVRLASQLT 335
            + V  +   +AIGR G+N+  A  L 
Sbjct: 105 YVEVANKDKGIAIGRDGRNILKAKMLA 131


>gi|171186409|ref|YP_001795328.1| transcription elongation factor NusA-like protein [Thermoproteus
           neutrophilus V24Sta]
 gi|170935621|gb|ACB40882.1| NusA family KH domain protein [Thermoproteus neutrophilus V24Sta]
          Length = 144

 Score = 41.2 bits (95), Expect = 0.45,   Method: Compositional matrix adjust.
 Identities = 19/44 (43%), Positives = 29/44 (65%)

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
           VV+D D  RI  +V K Q +LA+GR G NV++  Q+ G  ++I+
Sbjct: 28  VVIDGDYSRIIFVVQKNQAALAVGRGGANVKMLKQIVGKDVEIV 71


>gi|269926456|ref|YP_003323079.1| RNA binding S1 domain protein [Thermobaculum terrenum ATCC BAA-798]
 gi|269790116|gb|ACZ42257.1| RNA binding S1 domain protein [Thermobaculum terrenum ATCC BAA-798]
          Length = 431

 Score = 41.2 bits (95), Expect = 0.48,   Method: Compositional matrix adjust.
 Identities = 30/118 (25%), Positives = 58/118 (49%), Gaps = 9/118 (7%)

Query: 114 AKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDE---- 169
           ++++  Q+ +E  ++R   E ++  G+I+ G V  +      VD+G +DG+I   E    
Sbjct: 237 SERIATQERKETSKERLIEELRE--GQIVKGRVTSLADFGAFVDIGGADGLIHLSEISWG 294

Query: 170 --TISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQ-FMVKLFHMEVPEIYNGIV 224
                 E L+PGD V   + ++ RE +   + + RT P+ +   +   +V +I  G V
Sbjct: 295 RINHPSEVLKPGDEVDVMVLNIDREHKKIALSMKRTQPEPWATAMERYDVGQIVEGEV 352


>gi|213425432|ref|ZP_03358182.1| transcription elongation factor NusA [Salmonella enterica subsp.
          enterica serovar Typhi str. E02-1180]
          Length = 62

 Score = 40.8 bits (94), Expect = 0.53,   Method: Compositional matrix adjust.
 Identities = 18/58 (31%), Positives = 35/58 (60%)

Query: 8  ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
          E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR+
Sbjct: 4  EILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRV 61


>gi|119872213|ref|YP_930220.1| transcription elongation factor NusA-like protein [Pyrobaculum
           islandicum DSM 4184]
 gi|119673621|gb|ABL87877.1| NusA family KH domain protein [Pyrobaculum islandicum DSM 4184]
          Length = 144

 Score = 40.8 bits (94), Expect = 0.54,   Method: Compositional matrix adjust.
 Identities = 19/44 (43%), Positives = 29/44 (65%)

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
           VVLD +  RI  +V K Q +LA+GR G NV++  Q+ G  ++I+
Sbjct: 28  VVLDNEYSRIIFVVQKNQAALAVGRGGSNVKMLKQILGKDVEIV 71


>gi|116753357|ref|YP_842475.1| NusA family protein [Methanosaeta thermophila PT]
 gi|116664808|gb|ABK13835.1| NusA family KH domain protein [Methanosaeta thermophila PT]
          Length = 143

 Score = 40.8 bits (94), Expect = 0.58,   Method: Compositional matrix adjust.
 Identities = 27/87 (31%), Positives = 49/87 (56%), Gaps = 3/87 (3%)

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIE 309
           +GA +G +GS +  V   +  ++I+IV +S D   F+ N  +PA V  + V++++  R+ 
Sbjct: 46  MGAAIGRKGSNINRVKKSI-GKQIEIVEYSDDVKEFLQNLFQPADVKNIMVVNKNNKRLA 104

Query: 310 VI-VPKEQLSLAIGRRGQNVRLASQLT 335
            + V  +   +AIGR G+N+  A  L 
Sbjct: 105 YVEVANKDKGIAIGRDGRNILKAKMLA 131


>gi|327311712|ref|YP_004338609.1| transcription elongation factor NusA-like protein [Thermoproteus
           uzoniensis 768-20]
 gi|326948191|gb|AEA13297.1| transcription elongation factor NusA-like protein [Thermoproteus
           uzoniensis 768-20]
          Length = 144

 Score = 40.8 bits (94), Expect = 0.61,   Method: Compositional matrix adjust.
 Identities = 19/48 (39%), Positives = 30/48 (62%)

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           VV+D D  RI  +V K Q +LA+G+ G NVR+  Q+ G  ++++   E
Sbjct: 28  VVVDSDYNRIIFVVGKNQAALAVGKGGNNVRMLRQIIGRDVEVVEYAE 75


>gi|148717938|ref|YP_001285409.1| polyprotein [Brevicoryne brassicae picorna-like virus]
 gi|145307685|gb|ABP57198.1| polyprotein [Brevicoryne brassicae picorna-like virus]
          Length = 2983

 Score = 40.4 bits (93), Expect = 0.78,   Method: Composition-based stats.
 Identities = 36/134 (26%), Positives = 59/134 (44%), Gaps = 31/134 (23%)

Query: 58   GDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVS----------------DPL 101
             D SL  LL   + VE     +  K A+  DP  D GG V                 DPL
Sbjct: 1848 ADTSL--LLPGAKTVEENAAVVDEKAAQVSDPESDTGGAVVFEVPDTLTNEQLIAAFDPL 1905

Query: 102  PP-----MDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV-KRVE----- 150
             P      D  R  ++  +    +K++E  +  + +EF+DK+G+ IS TV +R++     
Sbjct: 1906 TPEELAEFDRSRQDMREMENETNRKIKEVIKKSKLMEFEDKIGQDISRTVPERIQFLCKF 1965

Query: 151  --YGNVIVDLGNSD 162
              + + I+ +G +D
Sbjct: 1966 SSFASYILRMGTAD 1979


>gi|126178254|ref|YP_001046219.1| NusA family protein [Methanoculleus marisnigri JR1]
 gi|126178267|ref|YP_001046232.1| NusA family protein [Methanoculleus marisnigri JR1]
 gi|125861048|gb|ABN56237.1| NusA family KH domain protein [Methanoculleus marisnigri JR1]
 gi|125861061|gb|ABN56250.1| NusA family KH domain protein [Methanoculleus marisnigri JR1]
          Length = 149

 Score = 40.0 bits (92), Expect = 0.88,   Method: Compositional matrix adjust.
 Identities = 32/99 (32%), Positives = 54/99 (54%), Gaps = 6/99 (6%)

Query: 248 IDP--VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD--E 303
           I+P  +G  +G  GS ++   +++  ++I++V +S D + F+ N   PA VT +  D  E
Sbjct: 41  INPGDMGLAIGKSGSSIKKA-SDVMGKRIEVVEYSADPSQFLRNCFLPAQVTGIDFDTDE 99

Query: 304 DVGRIEVI-VPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +  +I +I V  E   LAIG+ G+N+  A  L     DI
Sbjct: 100 EDQQIALIDVRDEDRGLAIGKAGKNIFKAKVLAQRQHDI 138


>gi|217033178|ref|ZP_03438631.1| hypothetical protein HPB128_184g1 [Helicobacter pylori B128]
 gi|216945087|gb|EEC23794.1| hypothetical protein HPB128_184g1 [Helicobacter pylori B128]
          Length = 108

 Score = 39.7 bits (91), Expect = 1.3,   Method: Composition-based stats.
 Identities = 33/101 (32%), Positives = 54/101 (53%), Gaps = 17/101 (16%)

Query: 342 ITEEEDSINRQKDFNERTQFFMQAI--NVDEIIAHL-------LVAEGFADVEELACVKI 392
           + E ++ I+R + F  + Q  ++ I  N+DEI+ H+       L+++ F  V +LACV  
Sbjct: 5   MDERQEKIDRTQHFITKAQSKIKEIESNIDEILKHIQTMEPNHLLSQDFLYVGKLACVNK 64

Query: 393 SEIASIEGFDEETAVEIQGR-------AREYLEGIDITLQK 426
           SEI + +G DEE+   I G+         E   GI ITL++
Sbjct: 65  SEIYAHDG-DEESGWNIYGQRLSLESGEHEKSYGILITLKR 104


>gi|20094120|ref|NP_613967.1| transcription elongation factor NusA-like protein [Methanopyrus
           kandleri AV19]
 gi|19887121|gb|AAM01897.1| Transcription elongation factor NusA [Methanopyrus kandleri AV19]
          Length = 142

 Score = 39.7 bits (91), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 20/58 (34%), Positives = 34/58 (58%)

Query: 290 ALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
           +L  A V   V+D++  R   +V + Q+ LAIG++GQNVR   +  G  ++++   ED
Sbjct: 18  SLTGAHVLDCVIDDEHNRAIFVVKEGQIGLAIGKKGQNVRRVQEQLGMDVEVVEHSED 75


>gi|14591325|ref|NP_143403.1| transcription elongation factor NusA-like protein [Pyrococcus
           horikoshii OT3]
 gi|3257970|dbj|BAA30653.1| 145aa long hypothetical transcription termination-antitermination
           factor nusA [Pyrococcus horikoshii OT3]
          Length = 145

 Score = 39.3 bits (90), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 19/54 (35%), Positives = 32/54 (59%)

Query: 294 AIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
           A V   ++D++  R+  ++ K ++ LA+G+RG NVR    L G  ID+I   E+
Sbjct: 22  ATVLDCLIDQERNRLIYVIKKGEMGLALGKRGINVRRVESLLGKEIDLIEHSEN 75


>gi|154483595|ref|ZP_02026043.1| hypothetical protein EUBVEN_01299 [Eubacterium ventriosum ATCC
           27560]
 gi|149735505|gb|EDM51391.1| hypothetical protein EUBVEN_01299 [Eubacterium ventriosum ATCC
           27560]
          Length = 365

 Score = 39.3 bits (90), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 27/97 (27%), Positives = 49/97 (50%), Gaps = 9/97 (9%)

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI--- 171
           KQ+I   V E E  ++ L  K +VG+ ++G VK V      +D+G +DG++   E     
Sbjct: 172 KQLI---VAEKEAAKKALFEKIEVGQTVTGVVKSVVDFGAFIDIGGADGLLHISEMSWGR 228

Query: 172 ---SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHP 205
               R+  +PGD V ++I ++  ++    +    T+P
Sbjct: 229 VGNPRKLFKPGDEVTAFIKEINGDKIALSLKFEDTNP 265


>gi|14520834|ref|NP_126309.1| transcription elongation factor NusA-like protein [Pyrococcus
           abyssi GE5]
 gi|5458050|emb|CAB49540.1| nusA transcription termination-antitermination factor nusA,
           putative [Pyrococcus abyssi GE5]
          Length = 145

 Score = 39.3 bits (90), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 18/54 (33%), Positives = 32/54 (59%)

Query: 294 AIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
           A V   ++D++  R+  ++ K ++ LA+G+RG NVR    L G  ID++   E+
Sbjct: 22  ATVLDCLIDQERNRLIYVIKKGEMGLALGKRGINVRRVENLLGKEIDLVEHSEN 75


>gi|297181780|gb|ADI17960.1| ribosomal protein s1 [uncultured Chloroflexi bacterium
           HF0200_09I09]
          Length = 677

 Score = 39.3 bits (90), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 37/141 (26%), Positives = 62/141 (43%), Gaps = 13/141 (9%)

Query: 114 AKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISR 173
           +++  +Q+ R  +++R   E  +  GE+  GTV  +    V VDLG +DG+    E    
Sbjct: 260 SERAAMQEWRAEQKERLLGELAE--GEVRKGTVTSIRNFGVFVDLGGADGLAHLSELSWD 317

Query: 174 ENLRP------GDRVKSYIYDVRREQRGPQVLLSRTHP---QFMVKLFHME--VPEIYNG 222
            N  P      G  +  YI  + R+ +   + + R  P   Q ++  + +   VP I   
Sbjct: 318 RNADPEQLFQVGQDIDVYIMRIDRDSKKIALSVRRAAPEQWQDLISQYEVGDVVPGIVTK 377

Query: 223 IVQVKAVSRDPGSRAKLAVFS 243
           +V   A +R PG    LA  S
Sbjct: 378 VVAFGAFTRLPGPVEGLAHVS 398


>gi|225374882|ref|ZP_03752103.1| hypothetical protein ROSEINA2194_00505 [Roseburia inulinivorans DSM
           16841]
 gi|225213265|gb|EEG95619.1| hypothetical protein ROSEINA2194_00505 [Roseburia inulinivorans DSM
           16841]
          Length = 365

 Score = 38.9 bits (89), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 29/97 (29%), Positives = 49/97 (50%), Gaps = 13/97 (13%)

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDET---- 170
           KQ++++K  E +++   L  K KVG+++ GTVK V      +DLG +DG++   E     
Sbjct: 173 KQLLVEKKLEQQKE---LFAKIKVGDVMEGTVKNVTDFGAFIDLGGADGLLHISEMSWGR 229

Query: 171 --ISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHP 205
               ++    GD VK +I D+       ++ LS   P
Sbjct: 230 VESPKKVFNVGDTVKVFIKDI----NDTKIALSMKFP 262


>gi|139956|sp|P15738|NUSA_HALMO RecName: Full=NusA protein homolog
 gi|43623|emb|CAA40433.1| ORF 139 [Halococcus morrhuae]
          Length = 139

 Score = 38.9 bits (89), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 27/88 (30%), Positives = 45/88 (51%), Gaps = 2/88 (2%)

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI-VP 313
           +G  G+ V+ V   L D+++ +V  +  +  FV NAL PA+V  V + E+   +    V 
Sbjct: 47  IGPDGTTVEQVEERL-DKRVSLVENADTAELFVANALAPAVVHNVTISENASTVAYAEVD 105

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +    +AIGR G+ +  A +L     DI
Sbjct: 106 RADTGVAIGRDGETIETARRLAERQFDI 133


>gi|71424023|ref|XP_812653.1| surface protease GP63 [Trypanosoma cruzi strain CL Brener]
 gi|70877461|gb|EAN90802.1| surface protease GP63, putative [Trypanosoma cruzi]
          Length = 566

 Score = 38.9 bits (89), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 72/311 (23%), Positives = 127/311 (40%), Gaps = 48/311 (15%)

Query: 215 EVPEIYNGIVQVKAVSRDPGSRAKLAV---FSSDSSIDPVGACVGMRGSRV----QAVVT 267
           EVP    G VQ    + + G      +    S++   DP+  C      R+    +A+  
Sbjct: 56  EVPRRGQGAVQAYTAASEDGDGGWAPIRIKVSAEDMHDPLRHCTAAGDLRINHFGRAITC 115

Query: 268 E----LRDEKIDIVVWSPDSATFVINA----LRPAIVTKVVLDEDVGRIE-VIVPKEQLS 318
           E    L +E+ +IV+     A   ++A    +RP     V+   D+G  E   +P +  +
Sbjct: 116 EADDVLTEERRNIVLRQILPAAIQLHAERLSVRPVTRPIVIPQTDLGMCENFTIPHKHHT 175

Query: 319 LAIGRRGQ----NVRLASQLTGWTID-IITEEEDSINRQKDFNERTQFFMQAINVDEIIA 373
           + +         N+   S  T W I   + ++        +F+ R Q  + + NV     
Sbjct: 176 VGVAGTDMILYANIFPTSGPTAWAIPCFLLDDGRPFAAAVNFDPR-QVAVTSRNVRVAAH 234

Query: 374 HLLVAEGFADVEELACVKISEIASIEGFDEETAV---EIQGRAREY-----LEGIDI--- 422
            L  A GFAD + L    ISE+ ++ G  + + +   + +  AR+Y     LEGI++   
Sbjct: 235 ELGHALGFADTQFLLLHMISEVPNVRGRLKVSVLSTPKTKAMARQYHNCPTLEGIELEDE 294

Query: 423 ----TLQKKIRELGVSEELCSIPGIDSKIKVALGEN-GIKTMEDL----AGCSVDDLLGW 473
               TL    ++  + +E+     + S + V L     +   ED+    A  S  ++L W
Sbjct: 295 GGSDTLLSHWKKRNMKDEM-----MTSDVGVGLYSALTLAAFEDMGVYVANYSAAEMLWW 349

Query: 474 SENKG-GNIEK 483
             N G G +EK
Sbjct: 350 GNNSGCGLLEK 360


>gi|260590941|ref|ZP_05856399.1| ribosomal protein S1 [Prevotella veroralis F0319]
 gi|260536806|gb|EEX19423.1| ribosomal protein S1 [Prevotella veroralis F0319]
          Length = 591

 Score = 38.5 bits (88), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 33/107 (30%), Positives = 57/107 (53%), Gaps = 14/107 (13%)

Query: 102 PPMDFGRVAVQSAKQVIIQKVREAERD---RQYLEFKDKVGE--IISGTVKRVEYGNVIV 156
           P  DF     ++  Q       EA +D   + Y E  +K+ E  ++ GTV   +   V+V
Sbjct: 12  PLADFNWDEFENGTQT------EASKDDLAKAYNETLNKIQEHQVVEGTVISADKKEVVV 65

Query: 157 DLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
           ++G  SDG+I   E     +L+PGD+V+ Y+ + + ++RG Q++LS 
Sbjct: 66  NIGYKSDGIIPASEFRYNPDLKPGDKVEVYV-ESQEDKRG-QLVLSH 110


>gi|325270523|ref|ZP_08137123.1| 30S ribosomal protein S1 [Prevotella multiformis DSM 16608]
 gi|324987099|gb|EGC19082.1| 30S ribosomal protein S1 [Prevotella multiformis DSM 16608]
          Length = 593

 Score = 38.5 bits (88), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 30/85 (35%), Positives = 51/85 (60%), Gaps = 8/85 (9%)

Query: 124 EAERD---RQYLEFKDKVGE--IISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLR 177
           EA +D   + Y E  +K+ E  ++ GTV  V+   V+V++G  SDG+I   E      L+
Sbjct: 28  EASKDDLTKAYDETLNKIQEHQVVEGTVISVDKKEVVVNIGYKSDGIIPASEFRYNPELK 87

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSR 202
           PGD+V+ Y+ + + ++RG Q++LS 
Sbjct: 88  PGDKVEVYVEN-QEDKRG-QLVLSH 110


>gi|291563829|emb|CBL42645.1| Ribosomal protein S1 [butyrate-producing bacterium SS3/4]
          Length = 359

 Score = 38.5 bits (88), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 29/97 (29%), Positives = 48/97 (49%), Gaps = 9/97 (9%)

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI--- 171
           KQ+I+ K  +AE  +   E K  VG+ + GTVK V      +DLG +DG++   E     
Sbjct: 173 KQLIVAK--KAEMQKALFE-KIHVGDKVEGTVKNVTDFGAFIDLGGADGLLHISEMSWGR 229

Query: 172 ---SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHP 205
               ++  + GD+V + I D+  E+    +    T+P
Sbjct: 230 IENPKKVFKVGDKVTALIKDINGEKIALSMKFPETNP 266


>gi|325298110|ref|YP_004258027.1| RNA binding S1 domain-containing protein [Bacteroides salanitronis
           DSM 18170]
 gi|324317663|gb|ADY35554.1| RNA binding S1 domain protein [Bacteroides salanitronis DSM 18170]
          Length = 596

 Score = 38.5 bits (88), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 33/109 (30%), Positives = 57/109 (52%), Gaps = 7/109 (6%)

Query: 97  VSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVG--EIISGTVKRVEYGNV 154
           + D  P  DF   A +S +      + + E+++ Y    +KVG  E++ GTV  +    V
Sbjct: 4   LKDVKPIEDFNWDAYESGESA--SSISKEEQEKAYDNTLNKVGDHEVVDGTVIAMNKREV 61

Query: 155 IVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
           +V++G  SDG+I   E     +L+ GD V+ YI +  +E +  Q++LS 
Sbjct: 62  VVNIGYKSDGIIPLSEFRYNPDLKVGDTVEVYIEN--QEDKKGQLILSH 108


>gi|57640090|ref|YP_182568.1| RecJ-like exonuclease [Thermococcus kodakarensis KOD1]
 gi|57158414|dbj|BAD84344.1| RecJ-like exonuclease, containing OB-fold nucleic acid-binding
           domains [Thermococcus kodakarensis KOD1]
          Length = 741

 Score = 38.5 bits (88), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 29/107 (27%), Positives = 51/107 (47%), Gaps = 6/107 (5%)

Query: 90  SIDIGGVVSDPLPP-MDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR 148
           + DI G +  P  P M+   V     ++  +  + +   D + +E    VG +  GT+ R
Sbjct: 87  ACDICGKIKGPWEPGMETTWVCPDCLRKYKVVYILDKTCDYEDVE----VGSLYKGTIDR 142

Query: 149 VEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           VE   V V L  +  G+I+R + +     +PGD +   + DVR ++R
Sbjct: 143 VERFGVFVKLNPHVTGLIKRKDLLGGREYKPGDEIVVQVLDVRPDKR 189


>gi|126179721|ref|YP_001047686.1| NusA family protein [Methanoculleus marisnigri JR1]
 gi|125862515|gb|ABN57704.1| NusA family KH domain protein [Methanoculleus marisnigri JR1]
          Length = 146

 Score = 38.1 bits (87), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 25/90 (27%), Positives = 44/90 (48%), Gaps = 2/90 (2%)

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEV 310
           +G  +G +GS ++ +   L  ++I++V +SP    F  N  +PA V  V    D G++ V
Sbjct: 45  MGLAIGRKGSNIRKMQRVL-GKRIEMVEYSPQIEQFAKNVFKPADVVGVA-KGDNGKLAV 102

Query: 311 IVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
            + +  L +AIG+ G  +  A        D
Sbjct: 103 YINQNDLGIAIGKGGCTIEKARLFLARYFD 132


>gi|300727965|ref|ZP_07061343.1| hemin-binding protein [Prevotella bryantii B14]
 gi|299774807|gb|EFI71421.1| hemin-binding protein [Prevotella bryantii B14]
          Length = 593

 Score = 38.1 bits (87), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 28/87 (32%), Positives = 50/87 (57%), Gaps = 5/87 (5%)

Query: 119 IQKVREAERDRQYLEFKDKV--GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISREN 175
           +  V +A+ ++ Y E  +K+   E++ GTV  ++   VIV++G  SDG+I   E      
Sbjct: 23  VANVSKADLEKAYDETLNKIQEHEVVEGTVIALDKKEVIVNIGYKSDGIIPASEFRYNPE 82

Query: 176 LRPGDRVKSYIYDVRREQRGPQVLLSR 202
           L+ GD+V+ Y+ D  +E +  Q++LS 
Sbjct: 83  LKIGDKVEVYVED--QEDKKGQLVLSH 107


>gi|160892582|ref|ZP_02073372.1| hypothetical protein CLOL250_00111 [Clostridium sp. L2-50]
 gi|156865623|gb|EDO59054.1| hypothetical protein CLOL250_00111 [Clostridium sp. L2-50]
          Length = 650

 Score = 38.1 bits (87), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 28/104 (26%), Positives = 53/104 (50%), Gaps = 9/104 (8%)

Query: 108 RVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRR 167
           R  + + K++I++  R+A   ++  E K +VG  + GTVK V      +DLG +DG++  
Sbjct: 451 RRIIGNRKKLIVE--RKAAAAKELFE-KIEVGMTVEGTVKNVTDFGAFIDLGGADGLLHI 507

Query: 168 DET------ISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHP 205
            E         ++  + GD VK++I D+  ++    +    T+P
Sbjct: 508 SEMSWGRVESPKKMFKVGDTVKAFIKDINGDKIALSLKFDETNP 551


>gi|256371862|ref|YP_003109686.1| RNA binding S1 domain protein [Acidimicrobium ferrooxidans DSM
           10331]
 gi|256008446|gb|ACU54013.1| RNA binding S1 domain protein [Acidimicrobium ferrooxidans DSM
           10331]
          Length = 427

 Score = 38.1 bits (87), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 30/104 (28%), Positives = 59/104 (56%), Gaps = 11/104 (10%)

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP------GDR 181
           +  +EF +  G+I+SG V +V+   V++D+G  S+GVI   E   R+++ P      GDR
Sbjct: 44  KSLVEFDE--GDIVSGLVVKVDKDEVLLDIGYKSEGVIPLRELSIRKDVSPADVVSVGDR 101

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           + + +  +++E R  +++LS+   QF      +E  +  +G+V+
Sbjct: 102 IDALV--LQKEDREGRLVLSKKRAQFEKAWKEIEAIKARDGVVR 143


>gi|255526510|ref|ZP_05393420.1| RNA binding S1 domain protein [Clostridium carboxidivorans P7]
 gi|296185879|ref|ZP_06854285.1| 30S ribosomal protein S1 [Clostridium carboxidivorans P7]
 gi|255509829|gb|EET86159.1| RNA binding S1 domain protein [Clostridium carboxidivorans P7]
 gi|296049547|gb|EFG88975.1| 30S ribosomal protein S1 [Clostridium carboxidivorans P7]
          Length = 388

 Score = 38.1 bits (87), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 30/83 (36%), Positives = 40/83 (48%), Gaps = 7/83 (8%)

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR 177
           +I+K  EAE  +Q+L    K GE  SG V R+      VDLG  DG+I   E   +    
Sbjct: 182 VIEKA-EAEEKKQHLLNSIKPGEKRSGVVSRLAKFGAFVDLGGVDGLIHVSELSWKRVNN 240

Query: 178 P------GDRVKSYIYDVRREQR 194
           P      GD+V+ YI  V +E  
Sbjct: 241 PADVVSVGDKVEVYILSVDKENN 263


>gi|222479397|ref|YP_002565634.1| beta-lactamase domain protein [Halorubrum lacusprofundi ATCC 49239]
 gi|222452299|gb|ACM56564.1| beta-lactamase domain protein [Halorubrum lacusprofundi ATCC 49239]
          Length = 641

 Score = 38.1 bits (87), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 19/49 (38%), Positives = 29/49 (59%), Gaps = 2/49 (4%)

Query: 294 AIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
           A VT +   ED G  EV++  E+  + IGRRG  +R  +Q  GWT +++
Sbjct: 90  AGVTDLDFHEDTG--EVVIEAEKPGMVIGRRGSTLREITQKVGWTPEVV 136


>gi|163814142|ref|ZP_02205534.1| hypothetical protein COPEUT_00296 [Coprococcus eutactus ATCC 27759]
 gi|158450591|gb|EDP27586.1| hypothetical protein COPEUT_00296 [Coprococcus eutactus ATCC 27759]
          Length = 649

 Score = 37.7 bits (86), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 28/104 (26%), Positives = 53/104 (50%), Gaps = 9/104 (8%)

Query: 108 RVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRR 167
           R  + + KQ+I+   R+AE  ++  + + +VG  + G VK V      +DLG +DG++  
Sbjct: 450 RRIIGNRKQIIV--ARKAEAAKELFD-RIEVGMTVEGVVKNVTSFGAFIDLGGADGLLHI 506

Query: 168 DETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHP 205
            E         +  L+ GD+VK++I ++  E+    +    T+P
Sbjct: 507 SEMSWGRVEDPKSVLKVGDKVKAFIKNIDGEKIALSLKFDDTNP 550


>gi|330996791|ref|ZP_08320663.1| 30S ribosomal protein S1 [Paraprevotella xylaniphila YIT 11841]
 gi|329572513|gb|EGG54164.1| 30S ribosomal protein S1 [Paraprevotella xylaniphila YIT 11841]
          Length = 597

 Score = 37.7 bits (86), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 33/104 (31%), Positives = 57/104 (54%), Gaps = 7/104 (6%)

Query: 102 PPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVG--EIISGTVKRVEYGNVIVDLG 159
           P  DF   A +S    ++ + REA+ ++ Y    +KV   E++ GTV  +    V+V++G
Sbjct: 9   PLADFDWNAYESG-DTLVNESREAQ-EKAYEGSLNKVNDHEVVDGTVIAMNKREVVVNIG 66

Query: 160 -NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
             SDG+I   E     +L+ GD+V+ YI +  +E +  Q++LS 
Sbjct: 67  FKSDGIIPMSEFRYNPDLKVGDKVEVYIEN--QEDKKGQLILSH 108


>gi|116753406|ref|YP_842524.1| beta-lactamase domain-containing protein [Methanosaeta thermophila
           PT]
 gi|116664857|gb|ABK13884.1| beta-lactamase domain protein [Methanosaeta thermophila PT]
          Length = 635

 Score = 37.7 bits (86), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 23/68 (33%), Positives = 36/68 (52%), Gaps = 4/68 (5%)

Query: 277 VVWSPDSATFVINALRP--AIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQL 334
           V+  P+ A   I  + P  A++T    D + G  EVI+  E+  L IGR G  +R  ++L
Sbjct: 70  VLMDPEEAIKKIQEVVPKEAVLTNYHFDGETG--EVIIEAEKPGLVIGRHGATLREITKL 127

Query: 335 TGWTIDII 342
            GWT  ++
Sbjct: 128 IGWTPKVV 135


>gi|325103294|ref|YP_004272948.1| RNA binding S1 domain protein [Pedobacter saltans DSM 12145]
 gi|324972142|gb|ADY51126.1| RNA binding S1 domain protein [Pedobacter saltans DSM 12145]
          Length = 1008

 Score = 37.7 bits (86), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 36/135 (26%), Positives = 59/135 (43%), Gaps = 20/135 (14%)

Query: 86  DRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQ-------VIIQKVREAERDRQYLEFKDKV 138
           D  P ID    +   L   DF  V +  A Q       +II+ V E +R+   +  K + 
Sbjct: 610 DVKPVIDYDSYIGKTL---DFKIVKISEANQNTVVSRRLIIESVIEMQREE--ISKKLEK 664

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIR-RDETISRENLRPGD------RVKSYIYDVRR 191
           G+I+ GT+K + Y    +DLG  DG++   D +  R N  P D      ++   + D   
Sbjct: 665 GQILEGTIKNITYFGAFIDLGGIDGLLYITDISWGRIN-HPSDLLELNQKIHVVVLDYED 723

Query: 192 EQRGPQVLLSRTHPQ 206
            ++   + L + HP 
Sbjct: 724 NKKRISLGLKQLHPN 738


>gi|207093316|ref|ZP_03241103.1| hypothetical protein HpylHP_11231 [Helicobacter pylori
           HPKX_438_AG0C1]
          Length = 246

 Score = 37.7 bits (86), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 25/70 (35%), Positives = 42/70 (60%), Gaps = 10/70 (14%)

Query: 347 DSINRQKDFNERTQFFMQA--INVDEIIAHL-------LVAEGFADVEELACVKISEIAS 397
           D+I + KDF  +TQ +++    ++DEI+ H+       L+ + F  V +LACV  SEI +
Sbjct: 152 DNIRKAKDFIAKTQNWIKKKECDIDEILKHIQTMESNHLLPQDFLYVGKLACVNKSEIYA 211

Query: 398 IEGFDEETAV 407
            +G DEE+ +
Sbjct: 212 HDG-DEESNI 220


>gi|229825037|ref|ZP_04451106.1| hypothetical protein GCWU000182_00387 [Abiotrophia defectiva ATCC
           49176]
 gi|229790784|gb|EEP26898.1| hypothetical protein GCWU000182_00387 [Abiotrophia defectiva ATCC
           49176]
          Length = 647

 Score = 37.7 bits (86), Expect = 4.7,   Method: Compositional matrix adjust.
 Identities = 25/85 (29%), Positives = 45/85 (52%), Gaps = 9/85 (10%)

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI--- 171
           KQ++  K  E    ++ L  K  VG+++ GTVK V      +DLG +DG++   E     
Sbjct: 451 KQILTAKKNEL---KKALFEKLAVGQVVDGTVKNVTDFGAFIDLGGADGLLHISEMSWGH 507

Query: 172 ---SRENLRPGDRVKSYIYDVRREQ 193
               ++  + GD VK+++ D++ E+
Sbjct: 508 IENPKKVFKVGDMVKTFVKDIQGEK 532


>gi|189219063|ref|YP_001939704.1| ribosomal protein S1 [Methylacidiphilum infernorum V4]
 gi|189185921|gb|ACD83106.1| Ribosomal protein S1 [Methylacidiphilum infernorum V4]
          Length = 449

 Score = 37.7 bits (86), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 29/94 (30%), Positives = 50/94 (53%), Gaps = 8/94 (8%)

Query: 120 QKVREAERDRQYLEFKDKV--GEIISGTVKRVEYGNVIVDLGNSDGVIR-RDETISREN- 175
           +++ EAER+++ L+F +KV  G+++ G VK V      +DL   DG+I   D +  R N 
Sbjct: 161 REIVEAERNQKRLQFLEKVHVGDLVKGVVKNVTDFGAFIDLDGIDGLIHITDMSWGRINH 220

Query: 176 ----LRPGDRVKSYIYDVRREQRGPQVLLSRTHP 205
               L+ G  ++  + DV RE+    + L +  P
Sbjct: 221 PSEILKVGQEIEVVVIDVDREKERVSLGLKQKTP 254


>gi|332157771|ref|YP_004423050.1| transcription elongation factor NusA-like protein [Pyrococcus sp.
           NA2]
 gi|331033234|gb|AEC51046.1| transcription elongation factor NusA-like protein [Pyrococcus sp.
           NA2]
          Length = 145

 Score = 37.7 bits (86), Expect = 4.9,   Method: Compositional matrix adjust.
 Identities = 17/54 (31%), Positives = 32/54 (59%)

Query: 294 AIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
           A V   ++D++  R+  ++ K ++ LA+G+RG NVR    L G  ID++   ++
Sbjct: 22  ATVLDCLIDQERNRLIYVIKKGEMGLALGKRGINVRRVENLIGKEIDLVEHSDN 75


>gi|253578799|ref|ZP_04856070.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA]
 gi|251849742|gb|EES77701.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA]
          Length = 358

 Score = 37.7 bits (86), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 30/105 (28%), Positives = 53/105 (50%), Gaps = 13/105 (12%)

Query: 108 RVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRR 167
           R  + + KQ+++    +AE+ ++ +E K  VG+ + GTVK V      +DLG +DG++  
Sbjct: 166 RRIIGNRKQLLL--AEKAEKQKELME-KIHVGDTVEGTVKNVTDFGAFIDLGGADGLLHI 222

Query: 168 DETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQ 206
            E         ++    GD+VK  I    +E  G ++ LS   P+
Sbjct: 223 SEMSWGRVENPKKVFTVGDKVKVLI----KEINGEKIALSLKFPE 263


>gi|311746070|ref|ZP_07719855.1| ribosomal protein S1 [Algoriphagus sp. PR1]
 gi|126576287|gb|EAZ80565.1| ribosomal protein S1 [Algoriphagus sp. PR1]
          Length = 590

 Score = 37.4 bits (85), Expect = 5.5,   Method: Compositional matrix adjust.
 Identities = 24/64 (37%), Positives = 41/64 (64%), Gaps = 3/64 (4%)

Query: 140 EIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
           E+I GTV  V   +VI+++G  SDG++  +E    E+++PGD V+ +I +  +E    Q+
Sbjct: 44  EVIKGTVVGVNDKDVIINIGFKSDGLVPLNEFRDLESIKPGDEVEVFIEE--QENALGQL 101

Query: 199 LLSR 202
           +LSR
Sbjct: 102 ILSR 105


>gi|154482944|ref|ZP_02025392.1| hypothetical protein EUBVEN_00642 [Eubacterium ventriosum ATCC
           27560]
 gi|149736228|gb|EDM52114.1| hypothetical protein EUBVEN_00642 [Eubacterium ventriosum ATCC
           27560]
          Length = 197

 Score = 37.4 bits (85), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 40/137 (29%), Positives = 60/137 (43%), Gaps = 10/137 (7%)

Query: 142 ISGTVKRVEYGNVIVD-LGNSDGVIRRDETISRENLRPGDRVKSYIY-DVRREQRGPQVL 199
           ISG V+ +E   V+VD  G   G+     T+  E +  G++VK Y Y  VR +       
Sbjct: 5   ISGVVEEIEKDKVVVDNNGIGYGIFASQSTL--EQIGIGEQVKIYTYFSVREDAMQLYGF 62

Query: 200 LSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRG 259
           LSR   Q    L  +       G+     +S  PG    +AV + D+    +    G+  
Sbjct: 63  LSRQELQLFKLLIGVSGVGPKGGLA---ILSTCPGDSLSMAVLADDAK--AISKAPGIGA 117

Query: 260 SRVQAVVTELRDEKIDI 276
              Q ++ EL+D KIDI
Sbjct: 118 KTAQKIIIELKD-KIDI 133


>gi|315231394|ref|YP_004071830.1| hypothetical protein TERMP_01632 [Thermococcus barophilus MP]
 gi|315184422|gb|ADT84607.1| hypothetical protein TERMP_01632 [Thermococcus barophilus MP]
          Length = 742

 Score = 37.4 bits (85), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 30/107 (28%), Positives = 52/107 (48%), Gaps = 6/107 (5%)

Query: 90  SIDIGGVVSDPLPP-MDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR 148
           + DI G V +P  P M+   V  +  ++  I  + +   D + +E    +G I  G + R
Sbjct: 87  ACDICGKVKEPWEPGMETTWVCPECERKFKIVYILDKTCDYEDVE----IGRIYKGVIDR 142

Query: 149 VEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           VE   V V L  +  G+I+R + +  +  +PG  +   + DVR E+R
Sbjct: 143 VERFGVFVKLNPHVVGLIKRKDLLGGKEYKPGMEILVQVLDVRPEKR 189


>gi|84490157|ref|YP_448389.1| transcription elongation factor NusA-like protein [Methanosphaera
           stadtmanae DSM 3091]
 gi|84373476|gb|ABC57746.1| NusA [Methanosphaera stadtmanae DSM 3091]
          Length = 143

 Score = 37.4 bits (85), Expect = 5.8,   Method: Compositional matrix adjust.
 Identities = 27/94 (28%), Positives = 44/94 (46%), Gaps = 4/94 (4%)

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV--GRI 308
           +G  +G RGS +  +  ++ D+ I+I+  S D   F+ N L  A V  +    +    +I
Sbjct: 45  MGLAIGKRGSTIAKMQNKV-DKSIEIIEHSDDPGEFIKNLLSVAKVNSIEFSTNAKGNKI 103

Query: 309 EVI-VPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             + V  +     IG+ GQN+R A Q      DI
Sbjct: 104 ATLDVDSKTKRSTIGKNGQNIRRARQFAKRQFDI 137


>gi|330508618|ref|YP_004385046.1| RNA-metabolising metallo-beta-lactamase [Methanosaeta concilii
           GP-6]
 gi|328929426|gb|AEB69228.1| RNA-metabolising metallo-beta-lactamase [Methanosaeta concilii
           GP-6]
          Length = 635

 Score = 37.4 bits (85), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 23/68 (33%), Positives = 36/68 (52%), Gaps = 4/68 (5%)

Query: 277 VVWSPDSATFVINALRP--AIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQL 334
           V+  P+SA   I  + P  A++T    D + G  EV +  E+  L IGR G  +R  ++L
Sbjct: 70  VLADPESAIIKIQEVVPKEAVLTNYHFDGETG--EVQIEAEKPGLVIGRHGATLREITKL 127

Query: 335 TGWTIDII 342
            GWT  ++
Sbjct: 128 IGWTPKVV 135


>gi|240146046|ref|ZP_04744647.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Roseburia
           intestinalis L1-82]
 gi|257201862|gb|EEV00147.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Roseburia
           intestinalis L1-82]
 gi|291539046|emb|CBL12157.1| Ribosomal protein S1 [Roseburia intestinalis XB6B4]
          Length = 374

 Score = 37.4 bits (85), Expect = 6.2,   Method: Compositional matrix adjust.
 Identities = 34/120 (28%), Positives = 57/120 (47%), Gaps = 16/120 (13%)

Query: 92  DIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEY 151
           DI  V+S+  P     R  +   KQ+++ K  E +++   L  K KVG+++ GTVK V  
Sbjct: 153 DIEFVISEFNPKR---RRIIGDRKQLLVAKKLEQQKE---LFAKIKVGDVMEGTVKNVTD 206

Query: 152 GNVIVDLGNSDGVIRRDET------ISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHP 205
               +DLG +DG++   E         ++    GD V+ +I D+       ++ LS   P
Sbjct: 207 FGAFIDLGGADGLLHISEMSWGRVESPKKVFNVGDHVRVFIKDI----NDTKIALSMKFP 262


>gi|315652055|ref|ZP_07905056.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Eubacterium
           saburreum DSM 3986]
 gi|315485702|gb|EFU76083.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Eubacterium
           saburreum DSM 3986]
          Length = 368

 Score = 37.4 bits (85), Expect = 6.2,   Method: Compositional matrix adjust.
 Identities = 26/89 (29%), Positives = 45/89 (50%), Gaps = 12/89 (13%)

Query: 125 AERDRQYLEFKDKV--GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENL 176
           A+++ Q     DK+  G++I GTVK V      VDLG +DG++   E         ++  
Sbjct: 178 AKKEEQKKALFDKITPGDVIEGTVKNVTDFGAFVDLGGADGLLHISEMSWGRVENPKKVF 237

Query: 177 RPGDRVKSYIYDVRREQRGPQVLLSRTHP 205
           + G++V ++I D+     G ++ LS   P
Sbjct: 238 KSGEKVTAFIKDI----SGEKIALSMKFP 262


>gi|294673916|ref|YP_003574532.1| 30S ribosomal protein S1 [Prevotella ruminicola 23]
 gi|294472255|gb|ADE81644.1| ribosomal protein S1 [Prevotella ruminicola 23]
          Length = 592

 Score = 37.4 bits (85), Expect = 6.3,   Method: Compositional matrix adjust.
 Identities = 27/87 (31%), Positives = 48/87 (55%), Gaps = 5/87 (5%)

Query: 119 IQKVREAERDRQYLEFKDKVG--EIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISREN 175
           +  V + E D+ Y E  +KV   +++ GTV  ++   V+V++G  SDG+I   E     +
Sbjct: 24  VANVSKEELDKAYDETLNKVADHQVVEGTVISIDKKEVVVNIGYKSDGIIPASEFRYNPD 83

Query: 176 LRPGDRVKSYIYDVRREQRGPQVLLSR 202
           L+ GD+V+ Y+     E +  Q++LS 
Sbjct: 84  LKIGDKVEVYVESA--EDKKGQLILSH 108


>gi|125718044|ref|YP_001035177.1| 30S ribosomal protein S1 [Streptococcus sanguinis SK36]
 gi|125497961|gb|ABN44627.1| 30S ribosomal protein S1, putative [Streptococcus sanguinis SK36]
          Length = 401

 Score = 37.4 bits (85), Expect = 6.3,   Method: Compositional matrix adjust.
 Identities = 22/77 (28%), Positives = 36/77 (46%), Gaps = 6/77 (7%)

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP------GDRVKSYIYD 188
           K  VG+I++G V R+      +DLG  DG++   E     N+ P      GD ++  + D
Sbjct: 190 KLNVGDIVTGKVARITSFGAFIDLGGVDGLVHLTELSHERNVSPKSVVSVGDEIEVKVLD 249

Query: 189 VRREQRGPQVLLSRTHP 205
           +  E+    + L  T P
Sbjct: 250 LNEEEGRVSLSLKATTP 266


>gi|126460698|ref|YP_001056976.1| transcription elongation factor NusA-like protein [Pyrobaculum
           calidifontis JCM 11548]
 gi|126250419|gb|ABO09510.1| NusA family KH domain protein [Pyrobaculum calidifontis JCM 11548]
          Length = 144

 Score = 37.4 bits (85), Expect = 6.7,   Method: Compositional matrix adjust.
 Identities = 16/44 (36%), Positives = 29/44 (65%)

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
           VV+D +  RI  +V K Q +LA+G+ G NV++  Q+ G  ++++
Sbjct: 28  VVVDHEYSRIIFVVQKNQAALAVGKGGANVKMLRQIIGKDVEVV 71


>gi|253734580|ref|ZP_04868745.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus
           TCH130]
 gi|253727445|gb|EES96174.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus
           TCH130]
          Length = 73

 Score = 37.4 bits (85), Expect = 6.8,   Method: Composition-based stats.
 Identities = 21/70 (30%), Positives = 38/70 (54%)

Query: 394 EIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGE 453
           E+  IEG DE T   ++ RA+  L  I    ++ + +   +++L ++ G+D  +   L  
Sbjct: 2   ELLEIEGLDEPTVEALRERAKNALATIAQAQEESLGDNKPADDLLNLEGVDRDLAFKLAA 61

Query: 454 NGIKTMEDLA 463
            G+ T+EDLA
Sbjct: 62  RGVCTLEDLA 71


>gi|315224362|ref|ZP_07866196.1| 30S ribosomal protein S1 [Capnocytophaga ochracea F0287]
 gi|314945752|gb|EFS97767.1| 30S ribosomal protein S1 [Capnocytophaga ochracea F0287]
          Length = 586

 Score = 37.0 bits (84), Expect = 7.2,   Method: Compositional matrix adjust.
 Identities = 31/92 (33%), Positives = 50/92 (54%), Gaps = 9/92 (9%)

Query: 140 EIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
           E++ G V R+     I+D+   S+GVI  +E     NL+ GD+V+  I D+R ++ G Q+
Sbjct: 50  EVVEGVVTRITDREAIIDINAKSEGVISLNEFRYNPNLKVGDKVEVLI-DIREDKNG-QL 107

Query: 199 LLSRTHPQFM-----VKLFHMEVPEIYNGIVQ 225
           +LS    + +     + L H E  EI NG V+
Sbjct: 108 VLSHRKARTLKAWDRINLAH-ENGEIVNGFVK 138


>gi|256818976|ref|YP_003140255.1| 30S ribosomal protein S1 [Capnocytophaga ochracea DSM 7271]
 gi|256580559|gb|ACU91694.1| RNA binding S1 domain protein [Capnocytophaga ochracea DSM 7271]
          Length = 586

 Score = 37.0 bits (84), Expect = 7.2,   Method: Compositional matrix adjust.
 Identities = 31/92 (33%), Positives = 50/92 (54%), Gaps = 9/92 (9%)

Query: 140 EIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
           E++ G V R+     I+D+   S+GVI  +E     NL+ GD+V+  I D+R ++ G Q+
Sbjct: 50  EVVEGVVTRITDREAIIDINAKSEGVISLNEFRYNPNLKVGDKVEVLI-DIREDKNG-QL 107

Query: 199 LLSRTHPQFM-----VKLFHMEVPEIYNGIVQ 225
           +LS    + +     + L H E  EI NG V+
Sbjct: 108 VLSHRKARTLKAWDRINLAH-ENGEIVNGFVK 138


>gi|332878224|ref|ZP_08445952.1| 30S ribosomal protein S1 [Capnocytophaga sp. oral taxon 329 str.
           F0087]
 gi|332683836|gb|EGJ56705.1| 30S ribosomal protein S1 [Capnocytophaga sp. oral taxon 329 str.
           F0087]
          Length = 586

 Score = 37.0 bits (84), Expect = 7.3,   Method: Compositional matrix adjust.
 Identities = 31/92 (33%), Positives = 50/92 (54%), Gaps = 9/92 (9%)

Query: 140 EIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
           E++ G V R+     I+D+   S+GVI  +E     NL+ GD+V+  I D+R ++ G Q+
Sbjct: 50  EVVEGVVTRITDREAIIDINAKSEGVISLNEFRYNPNLKVGDKVEVLI-DIREDKNG-QL 107

Query: 199 LLSRTHPQFM-----VKLFHMEVPEIYNGIVQ 225
           +LS    + +     + L H E  EI NG V+
Sbjct: 108 VLSHRKARTLKAWDRINLAH-ENGEIVNGFVK 138


>gi|124485200|ref|YP_001029816.1| aminotransferase, class I and II [Methanocorpusculum labreanum Z]
 gi|124362741|gb|ABN06549.1| NusA family KH domain protein [Methanocorpusculum labreanum Z]
          Length = 157

 Score = 37.0 bits (84), Expect = 7.3,   Method: Compositional matrix adjust.
 Identities = 29/106 (27%), Positives = 51/106 (48%), Gaps = 11/106 (10%)

Query: 248 IDP--VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL---- 301
           I+P  +G  +G +G+ ++   ++   +K+++V ++PD   F+ N   P  V  V      
Sbjct: 41  INPGEMGLAIGKKGASIKKA-SDAFGKKVEVVEYNPDKVQFIRNCFLPVHVQTVTFEEDE 99

Query: 302 --DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
             + +V  IE  V      LAIG+ G+N+  A +L     DI   E
Sbjct: 100 EENTEVAYIE--VADTDRGLAIGKEGRNIIKAKKLAFRQFDIANVE 143


>gi|213962551|ref|ZP_03390813.1| 30S ribosomal protein S1 [Capnocytophaga sputigena Capno]
 gi|213954877|gb|EEB66197.1| 30S ribosomal protein S1 [Capnocytophaga sputigena Capno]
          Length = 584

 Score = 37.0 bits (84), Expect = 7.4,   Method: Compositional matrix adjust.
 Identities = 31/91 (34%), Positives = 46/91 (50%), Gaps = 7/91 (7%)

Query: 140 EIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
           E++ G V R+     I+D+   S+GVI  +E     NL+ GD+V+  I D+R ++ G  V
Sbjct: 50  EVVEGVVTRITDREAIIDINAKSEGVISLNEFRYNPNLKVGDKVEVLI-DIREDKNGQLV 108

Query: 199 LLSRTHPQFM----VKLFHMEVPEIYNGIVQ 225
           L  R          + L H E  EI NG V+
Sbjct: 109 LSHRKARTLKAWDRINLAH-ENGEIVNGFVK 138


>gi|118443587|ref|YP_877456.1| 30S ribosomal protein S1 [Clostridium novyi NT]
 gi|118134043|gb|ABK61087.1| rpsA [Clostridium novyi NT]
          Length = 387

 Score = 37.0 bits (84), Expect = 7.4,   Method: Compositional matrix adjust.
 Identities = 30/88 (34%), Positives = 47/88 (53%), Gaps = 9/88 (10%)

Query: 111 VQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRR-DE 169
           V SAK+V   +++E E  +Q +    K GE  SG V+R+      VDLG  DG+I   D 
Sbjct: 176 VLSAKEV---ELKEIENKKQKVLASLKKGEKRSGVVRRLAKFGAFVDLGGVDGLIHNSDL 232

Query: 170 TISREN-----LRPGDRVKSYIYDVRRE 192
           +  R N     ++ GD+V+ Y+ D  ++
Sbjct: 233 SWERVNNPSDVVKVGDKVEVYVLDFHKD 260


>gi|313888064|ref|ZP_07821742.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Peptoniphilus
           harei ACS-146-V-Sch2b]
 gi|312846019|gb|EFR33402.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Peptoniphilus
           harei ACS-146-V-Sch2b]
          Length = 696

 Score = 37.0 bits (84), Expect = 7.5,   Method: Compositional matrix adjust.
 Identities = 30/97 (30%), Positives = 52/97 (53%), Gaps = 10/97 (10%)

Query: 114 AKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISR 173
           +++ ++QK  +  RD  Y + K+  G+II GTV+R+      VD+G  DG+I   E +S 
Sbjct: 442 SRKNVLQKELDKVRDEVYDKLKE--GDIIEGTVQRLTNFGAFVDVGGVDGLIHISE-LSW 498

Query: 174 ENLR-------PGDRVKSYIYDVRREQRGPQVLLSRT 203
             ++       PGD VK  + +V +E+    + L +T
Sbjct: 499 NRVKHPSDVVAPGDVVKVQVLNVDKEKNRIALGLKQT 535


>gi|153810812|ref|ZP_01963480.1| hypothetical protein RUMOBE_01196 [Ruminococcus obeum ATCC 29174]
 gi|149833208|gb|EDM88290.1| hypothetical protein RUMOBE_01196 [Ruminococcus obeum ATCC 29174]
          Length = 359

 Score = 37.0 bits (84), Expect = 7.6,   Method: Compositional matrix adjust.
 Identities = 29/105 (27%), Positives = 53/105 (50%), Gaps = 13/105 (12%)

Query: 108 RVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRR 167
           R  + + KQ+++    +AE+ ++ +E K  VG+ ++GTVK V      +DLG +DG++  
Sbjct: 166 RRIIGNRKQLLL--AEKAEKQKELME-KIHVGDTVTGTVKNVTDFGAFIDLGGADGLLHI 222

Query: 168 DETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQ 206
            E         ++    GD V+  I    +E  G ++ LS   P+
Sbjct: 223 SEMSWGRVENPKKVFNVGDEVRVLI----KEINGDKIALSMKFPE 263


>gi|55379093|ref|YP_136943.1| transcription elongation factor NusA-like protein [Haloarcula
           marismortui ATCC 43049]
 gi|55231818|gb|AAV47237.1| transcription termination factor NusA [Haloarcula marismortui ATCC
           43049]
          Length = 141

 Score = 37.0 bits (84), Expect = 7.6,   Method: Compositional matrix adjust.
 Identities = 23/70 (32%), Positives = 36/70 (51%), Gaps = 1/70 (1%)

Query: 273 KIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI-VPKEQLSLAIGRRGQNVRLA 331
           ++ +V  +  +  FV NAL PA V  V + E+   +  + V +E    AIGR G+N+  A
Sbjct: 66  EVKLVEAAETAEDFVANALAPAAVYNVTVSENDDTVAYVEVAQEDRGAAIGREGRNIDAA 125

Query: 332 SQLTGWTIDI 341
            QL     +I
Sbjct: 126 RQLAKRHFEI 135


>gi|269218432|ref|ZP_06162286.1| ribosomal protein S1 [Actinomyces sp. oral taxon 848 str. F0332]
 gi|269211543|gb|EEZ77883.1| ribosomal protein S1 [Actinomyces sp. oral taxon 848 str. F0332]
          Length = 486

 Score = 37.0 bits (84), Expect = 7.7,   Method: Compositional matrix adjust.
 Identities = 25/81 (30%), Positives = 49/81 (60%), Gaps = 11/81 (13%)

Query: 134 FKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP------GDRVKSYI 186
           F D  G+II GTV +V++  V++D+G  ++GVI   E   + ++ P      GD+V++ +
Sbjct: 34  FND--GDIIEGTVVKVDHDEVLLDVGYKTEGVIPSKELSIKHDINPDEVVEVGDQVEALV 91

Query: 187 YDVRREQRGPQVLLSRTHPQF 207
             +++E +  ++LLS+   Q+
Sbjct: 92  --LQKEDKEGRLLLSKKRAQY 110


>gi|159900230|ref|YP_001546477.1| RNA-binding S1 domain-containing protein [Herpetosiphon aurantiacus
           ATCC 23779]
 gi|159893269|gb|ABX06349.1| RNA binding S1 domain protein [Herpetosiphon aurantiacus ATCC
           23779]
          Length = 397

 Score = 37.0 bits (84), Expect = 7.9,   Method: Compositional matrix adjust.
 Identities = 26/98 (26%), Positives = 52/98 (53%), Gaps = 8/98 (8%)

Query: 114 AKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDE---- 169
           +++  +Q+ R+++++R  LE  +  G +++G V ++      +DLG +DG+    E    
Sbjct: 187 SERAAMQRWRQSQKER-LLETLEP-GAVVTGRVNQLTPFGAFIDLGGADGLAHISELSWQ 244

Query: 170 --TISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHP 205
                RE L+PG  V+ Y+ +V R++    + L R  P
Sbjct: 245 RVNHPREVLQPGQEVQVYVLEVDRDRERIGLSLRRLQP 282


>gi|305663639|ref|YP_003859927.1| NusA family KH domain protein [Ignisphaera aggregans DSM 17230]
 gi|304378208|gb|ADM28047.1| NusA family KH domain protein [Ignisphaera aggregans DSM 17230]
          Length = 146

 Score = 37.0 bits (84), Expect = 8.6,   Method: Compositional matrix adjust.
 Identities = 30/91 (32%), Positives = 50/91 (54%), Gaps = 9/91 (9%)

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI 308
           D +G  +G +G  V+ + ++L  + ++IV W  +   FV N   PA V ++ L E  GR 
Sbjct: 47  DKLGQAIGRKGINVKYL-SKLIGKDVEIVGWGNNLEDFVKNIFMPARVQRIQLVE--GRD 103

Query: 309 EVIV-----PKEQLSLAIGRRGQNVRLASQL 334
           + IV     P+++  +AIG+ G+NV  A  L
Sbjct: 104 KKIVYVYVDPRDK-GIAIGKNGRNVAKARLL 133


>gi|295109915|emb|CBL23868.1| Ribosomal protein S1 [Ruminococcus obeum A2-162]
          Length = 358

 Score = 37.0 bits (84), Expect = 8.6,   Method: Compositional matrix adjust.
 Identities = 29/105 (27%), Positives = 53/105 (50%), Gaps = 13/105 (12%)

Query: 108 RVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRR 167
           R  + + KQ+++    +AE+ ++ +E +  VG+ ++GTVK V      +DLG +DG++  
Sbjct: 166 RRIIGNRKQLLL--AEKAEKQKELME-RIHVGDTVTGTVKNVTDFGAFIDLGGADGLLHI 222

Query: 168 DETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQ 206
            E         ++    GD VK  I    +E  G ++ LS   P+
Sbjct: 223 SEMSWGRVENPKKVFNVGDEVKVLI----KEINGDKIALSMKFPE 263


>gi|229829150|ref|ZP_04455219.1| hypothetical protein GCWU000342_01235 [Shuttleworthia satelles DSM
           14600]
 gi|229792313|gb|EEP28427.1| hypothetical protein GCWU000342_01235 [Shuttleworthia satelles DSM
           14600]
          Length = 368

 Score = 37.0 bits (84), Expect = 8.6,   Method: Compositional matrix adjust.
 Identities = 31/101 (30%), Positives = 52/101 (51%), Gaps = 13/101 (12%)

Query: 108 RVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRR 167
           R  + + K +++++  E ++D   LE K KVG+II GT+K +      VDLG  DG++  
Sbjct: 163 RRIIGNRKMILVERKSEIQKD--LLE-KLKVGDIIEGTIKNITDFGAFVDLGGIDGLLHI 219

Query: 168 DETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            E         R+     D+V+ +I    +E  G ++ LSR
Sbjct: 220 SEMSWGRVENPRKVFNVDDKVRVFI----KEINGTKIALSR 256


>gi|242399653|ref|YP_002995078.1| RecJ-like exonuclease, containing OB-fold nucleic acid-binding
           domains [Thermococcus sibiricus MM 739]
 gi|242266047|gb|ACS90729.1| RecJ-like exonuclease, containing OB-fold nucleic acid-binding
           domains [Thermococcus sibiricus MM 739]
          Length = 740

 Score = 37.0 bits (84), Expect = 8.7,   Method: Compositional matrix adjust.
 Identities = 27/107 (25%), Positives = 53/107 (49%), Gaps = 6/107 (5%)

Query: 90  SIDIGGVVSDPLPP-MDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR 148
           + DI G + +   P M+   V  +  K+  +  + +   D + +E    VG++  G + R
Sbjct: 87  ACDICGRIKESWEPGMETSWVCSECEKKYKVVYILDKTCDYEDVE----VGKVYKGAIDR 142

Query: 149 VEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           VE   V V L  +  G+I++ + + R   +PG+ +   + DVR E++
Sbjct: 143 VERFGVFVSLNPHVTGLIKKKDLLGRREYKPGEEILVQVLDVRPEKK 189


>gi|145592519|ref|YP_001154521.1| transcription elongation factor NusA-like protein [Pyrobaculum
           arsenaticum DSM 13514]
 gi|145284287|gb|ABP51869.1| NusA family KH domain protein [Pyrobaculum arsenaticum DSM 13514]
          Length = 144

 Score = 37.0 bits (84), Expect = 9.1,   Method: Compositional matrix adjust.
 Identities = 16/44 (36%), Positives = 28/44 (63%)

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
           VV+D    R+  +V K Q +LA+G+ G NV++  Q+ G  ++I+
Sbjct: 28  VVIDNAYSRVIYVVQKNQAALAVGKGGSNVKMLRQIVGKDVEIV 71


>gi|121535824|ref|ZP_01667624.1| hydroxymethylbutenyl pyrophosphate reductase [Thermosinus
           carboxydivorans Nor1]
 gi|121305596|gb|EAX46538.1| hydroxymethylbutenyl pyrophosphate reductase [Thermosinus
           carboxydivorans Nor1]
          Length = 655

 Score = 36.6 bits (83), Expect = 9.2,   Method: Compositional matrix adjust.
 Identities = 24/63 (38%), Positives = 37/63 (58%), Gaps = 5/63 (7%)

Query: 109 VAVQSAKQVII---QKVREAERDRQYLEFKDKV--GEIISGTVKRVEYGNVIVDLGNSDG 163
           + +  AKQ I+   +KV E E+ R+  E   ++  G+I++GTV R+    V VDLG  DG
Sbjct: 428 IEIDQAKQKIVLSRRKVLEQEQQRRAEELFSRLAEGQIVTGTVSRIADFGVFVDLGGVDG 487

Query: 164 VIR 166
           +I 
Sbjct: 488 LIH 490


>gi|325279173|ref|YP_004251715.1| RNA binding S1 domain-containing protein [Odoribacter splanchnicus
           DSM 20712]
 gi|324310982|gb|ADY31535.1| RNA binding S1 domain protein [Odoribacter splanchnicus DSM 20712]
          Length = 621

 Score = 36.6 bits (83), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 26/81 (32%), Positives = 47/81 (58%), Gaps = 7/81 (8%)

Query: 129 RQYLEFKDKVGE--IISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSY 185
           ++Y E   KVGE  ++ GTV  +    V+V++G  SDG+I  +E      L+ GD+V+ Y
Sbjct: 53  QKYAETLSKVGEKEVVEGTVISMNKREVVVNIGYKSDGIISLNEFRYNPELKVGDKVEVY 112

Query: 186 IYDVRREQRGPQVLLSRTHPQ 206
           + + + +++G    L+ +H Q
Sbjct: 113 V-ETQEDKKGQ---LTLSHKQ 129


>gi|221195607|ref|ZP_03568661.1| 30S ribosomal protein S1 [Atopobium rimae ATCC 49626]
 gi|221184373|gb|EEE16766.1| 30S ribosomal protein S1 [Atopobium rimae ATCC 49626]
          Length = 441

 Score = 36.6 bits (83), Expect = 9.7,   Method: Compositional matrix adjust.
 Identities = 34/100 (34%), Positives = 52/100 (52%), Gaps = 4/100 (4%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           R +D S  +G  +   +  MD  R  V  +++V++++ R+AER  Q +  K KVG  + G
Sbjct: 155 RVKDLSTFMGTRIEARVIEMDRNRNNVVLSRRVVLEEARKAER--QDILGKLKVGMKLQG 212

Query: 145 TVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           TV   VE+G   VDLG  DG++   E        P + VK
Sbjct: 213 TVSSIVEFG-AFVDLGGIDGLVHISELSWNHVNHPSEVVK 251


>gi|167751224|ref|ZP_02423351.1| hypothetical protein EUBSIR_02210 [Eubacterium siraeum DSM 15702]
 gi|167655731|gb|EDR99860.1| hypothetical protein EUBSIR_02210 [Eubacterium siraeum DSM 15702]
          Length = 658

 Score = 36.6 bits (83), Expect = 9.7,   Method: Compositional matrix adjust.
 Identities = 27/100 (27%), Positives = 50/100 (50%), Gaps = 11/100 (11%)

Query: 106 FGRVAVQSAKQVIIQKVREAER---DRQYLEFKD--KVGEIISGTVKRVEYGNVIVDLGN 160
           F  + V  A+  ++  +R+A++   D    +F +  +VG+  +G VK +E   V VDLG 
Sbjct: 448 FKVIEVTEARGRVVGSIRQAKKEANDAAKAKFWENIEVGQKFTGEVKSIESYGVFVDLGG 507

Query: 161 SDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
            DG++   E         RE ++ GD++  Y+     E++
Sbjct: 508 VDGMVHSSELTWNRIKHPREIVKIGDKLDVYVKSFDPEKK 547


>gi|257053759|ref|YP_003131592.1| beta-lactamase domain protein [Halorhabdus utahensis DSM 12940]
 gi|256692522|gb|ACV12859.1| beta-lactamase domain protein [Halorhabdus utahensis DSM 12940]
          Length = 641

 Score = 36.6 bits (83), Expect = 9.8,   Method: Compositional matrix adjust.
 Identities = 18/49 (36%), Positives = 28/49 (57%), Gaps = 2/49 (4%)

Query: 294 AIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
           A VT +   ED G  EV++  E+  + IGR G  +R  +Q  GWT +++
Sbjct: 90  ASVTDLDFHEDTG--EVVIEAEKPGMVIGRHGSTLREITQKVGWTPEVV 136


Searching..................................................done


Results from round 2




>gi|254780788|ref|YP_003065201.1| transcription elongation factor NusA [Candidatus Liberibacter
           asiaticus str. psy62]
 gi|254040465|gb|ACT57261.1| transcription elongation factor NusA [Candidatus Liberibacter
           asiaticus str. psy62]
          Length = 526

 Score =  719 bits (1858), Expect = 0.0,   Method: Composition-based stats.
 Identities = 526/526 (100%), Positives = 526/526 (100%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI
Sbjct: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ
Sbjct: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD
Sbjct: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA
Sbjct: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV
Sbjct: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ
Sbjct: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
           FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI
Sbjct: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN
Sbjct: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDAS 526
           IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDAS
Sbjct: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDAS 526


>gi|225626528|ref|ZP_03784567.1| transcription termination factor NusA [Brucella ceti str. Cudo]
 gi|225618185|gb|EEH15228.1| transcription termination factor NusA [Brucella ceti str. Cudo]
          Length = 575

 Score =  718 bits (1855), Expect = 0.0,   Method: Composition-based stats.
 Identities = 341/522 (65%), Positives = 423/522 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR++VL+ MAD+IQKAARS YG  S+IR +IN ++G+I 
Sbjct: 41  VSANRLELLQIADAVAREKSIDREIVLAAMADAIQKAARSRYGQESNIRADINAKSGEIK 100

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE VE+Y  QISL +ARDR+P   +G  ++D LPPMDFGR+A QSAKQVI+QK
Sbjct: 101 LQRLLEVVENVEDYATQISLFMARDRNPDAQVGDFIADQLPPMDFGRIAAQSAKQVIVQK 160

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD+VGEI++GTVKRVEYGNVIVDLG  + ++RRDE I RE  R GDR
Sbjct: 161 VREAERDRQYDEYKDRVGEIVNGTVKRVEYGNVIVDLGRGEAIVRRDELIPREAFRYGDR 220

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++Y+YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 221 IRAYVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 280

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+A+F++NAL+PA V KVVL
Sbjct: 281 VSRDASIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAASFIVNALQPAEVAKVVL 340

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER+  
Sbjct: 341 DEDAERIEVVVPNDQLSLAIGRRGQNVRLASQLTGWDIDILTEDEESERRQKEFAERSNL 400

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+NVDE++  +L +EGFA VEELA V   EI+SI+GFDE+TA EIQ RAREYLE I+
Sbjct: 401 FMEALNVDEMVGQVLASEGFASVEELAYVDAGEISSIDGFDEDTAGEIQDRAREYLERIE 460

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                + +ELGV++EL  +PG+ + + VA+GE+G+KTMED AG +VDDL+GW E K G+ 
Sbjct: 461 AEQDARRKELGVADELRELPGMTTAMLVAVGEDGVKTMEDFAGYAVDDLVGWRERKDGDT 520

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQ 523
               G L+     +   E M++ AR K GWI +E++A     
Sbjct: 521 INHSGVLTPFDLSRVDAEQMVLAARLKAGWITEEELAAASED 562


>gi|237816502|ref|ZP_04595495.1| transcription termination factor NusA [Brucella abortus str. 2308
           A]
 gi|237788569|gb|EEP62784.1| transcription termination factor NusA [Brucella abortus str. 2308
           A]
          Length = 575

 Score =  718 bits (1854), Expect = 0.0,   Method: Composition-based stats.
 Identities = 341/522 (65%), Positives = 423/522 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR++VL+ MAD+IQKAARS YG  S+IR +IN ++G+I 
Sbjct: 41  VSANRLELLQIADAVAREKSIDREIVLAAMADAIQKAARSRYGQESNIRADINAKSGEIK 100

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE VE+Y  QISL +ARDR+P   +G  ++D LPPMDFGR+A QSAKQVI+QK
Sbjct: 101 LQRLLEVVENVEDYATQISLFMARDRNPDAQVGDFIADQLPPMDFGRIAAQSAKQVIVQK 160

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD+VGEI++GTVKRVEYGNVIVDLG  + ++RRDE I RE  R GDR
Sbjct: 161 VREAERDRQYDEYKDRVGEIVNGTVKRVEYGNVIVDLGRGEAIVRRDELIPREAFRYGDR 220

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++Y+YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 221 IRAYVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 280

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+A+F++NAL+PA V KVVL
Sbjct: 281 VSRDASIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAASFIVNALQPAEVAKVVL 340

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER+  
Sbjct: 341 DEDAERIEVVVPNDQLSLAIGRRGQNVRLASQLTGWDIDILTEDEESERRQKEFAERSNL 400

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+NVDE++  +L +EGFA VEELA V   EI+SI+GFDE+TA EIQ RAREYLE I+
Sbjct: 401 FMEALNVDEMVGQVLASEGFASVEELAYVDAGEISSIDGFDEDTAGEIQDRAREYLERIE 460

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                + +ELGV++EL  +PG+ + + VA+GE+G+KTMED AG +VDDL+GW E K G+ 
Sbjct: 461 AEQDARRKELGVADELRELPGMTTAMLVAVGEDGVKTMEDFAGYAVDDLVGWRERKDGDT 520

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQ 523
               G L+     +   E M++ AR K GWI +E++A     
Sbjct: 521 INHSGVLTPFDLSRVDAEQMVLAARLKAGWITEEELAAASED 562


>gi|294851387|ref|ZP_06792060.1| N utilization substance protein A [Brucella sp. NVSL 07-0026]
 gi|294819976|gb|EFG36975.1| N utilization substance protein A [Brucella sp. NVSL 07-0026]
          Length = 591

 Score =  717 bits (1853), Expect = 0.0,   Method: Composition-based stats.
 Identities = 339/522 (64%), Positives = 422/522 (80%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR++VL+ MAD+IQKAARS YG  S+IR +IN ++G+I 
Sbjct: 57  VSANRLELLQIADAVAREKSIDREIVLAAMADAIQKAARSRYGQESNIRADINAKSGEIK 116

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE VE+Y  QISL +ARDR+P   +G  ++D LPPMDFGR+A QSAKQVI+QK
Sbjct: 117 LQRLLEVVENVEDYATQISLFMARDRNPDAQVGDFIADQLPPMDFGRIAAQSAKQVIVQK 176

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD+VGEI++GTVKRVEYGNVIVDLG  + ++RRDE I RE  R GDR
Sbjct: 177 VREAERDRQYDEYKDRVGEIVNGTVKRVEYGNVIVDLGRGEAIVRRDELIPREAFRYGDR 236

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++Y+YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 237 IRAYVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 296

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+A+ ++NAL+PA V KVVL
Sbjct: 297 VSRDASIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAASVIVNALQPAEVAKVVL 356

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER+  
Sbjct: 357 DEDAERIEVVVPNDQLSLAIGRRGQNVRLASQLTGWDIDILTEDEESERRQKEFAERSNL 416

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+NVDE++  +L +EGFA VEELA V   EI+SI+GFD++TA EIQ RAREYLE I+
Sbjct: 417 FMEALNVDEMVGQVLASEGFASVEELAYVDAGEISSIDGFDKDTAGEIQDRAREYLERIE 476

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                + +ELGV++EL  +PG+ + + VA+GE+G+KTMED AG +VDDL+GW E K G+ 
Sbjct: 477 AEQDARRKELGVADELRELPGMTTAMLVAVGEDGVKTMEDFAGYAVDDLVGWRERKDGDT 536

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQ 523
               G L+     +   E M++ AR K GWI +E++A     
Sbjct: 537 INHSGVLTPFDLSRVDAEQMVLAARLKAGWITEEELAAASED 578


>gi|86355778|ref|YP_467670.1| transcription elongation factor NusA [Rhizobium etli CFN 42]
 gi|86279880|gb|ABC88943.1| N-utilization substance protein A [Rhizobium etli CFN 42]
          Length = 533

 Score =  714 bits (1845), Expect = 0.0,   Method: Composition-based stats.
 Identities = 354/518 (68%), Positives = 431/518 (83%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK IDR++VL+ MAD+IQKAARS YGT S+IR +INP+TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKVIDREIVLAAMADAIQKAARSRYGTESNIRADINPKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVV++ E+Y+ QI L++ARDR+P   +G  ++DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVDKAEDYSTQIPLELARDRNPDAALGDFIADPLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQ+ EFKD+VGEI++GTVKRVEYGNVIVDLG  +G+IRRDE I REN+R GDR
Sbjct: 123 VREAERDRQFDEFKDRVGEIVNGTVKRVEYGNVIVDLGRGEGIIRRDEMIPRENVRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+QVK+V+RDPGSRAK+AV
Sbjct: 183 VRAYVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIQVKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATFV+NAL+PA V KVVL
Sbjct: 243 ISNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSQDPATFVVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+FNERT  
Sbjct: 303 DEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDIMTEAEESERRQKEFNERTNL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM +++VDE++  +L +EGFA VEELA V + EIASI+GFDE+TA EIQ RAREYLE ++
Sbjct: 363 FMDSLDVDEMVGQVLASEGFAAVEELAYVDLDEIASIDGFDEDTAQEIQTRAREYLEKLE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             + +K + LGV +EL  I G+ +++ VALGE+GIKT+ED AGC+ DDL+GW+E K G  
Sbjct: 423 AEMDEKRKALGVKDELRQIDGMTAQMMVALGEDGIKTIEDFAGCAADDLVGWTERKNGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVAD 519
           +KF+G  S     + + E MI+ AR   GWI +E +A 
Sbjct: 483 KKFEGLFSKFDLSRVEAEQMIVQARLAAGWITEEDLAK 520


>gi|190889787|ref|YP_001976329.1| N-utilization substance protein (transcription elongation factor)
           [Rhizobium etli CIAT 652]
 gi|190695066|gb|ACE89151.1| N-utilization substance protein (transcription elongation factor)
           [Rhizobium etli CIAT 652]
 gi|327192408|gb|EGE59368.1| N-utilization substance protein (transcription elongation factor)
           [Rhizobium etli CNPAF512]
          Length = 533

 Score =  714 bits (1843), Expect = 0.0,   Method: Composition-based stats.
 Identities = 352/518 (67%), Positives = 431/518 (83%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK IDR++VL+ MAD+IQKAARS YGT S+IR +INP+TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKVIDREIVLAAMADAIQKAARSRYGTESNIRADINPKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVV++ E+Y+ QI L++ARDR+P   +G  ++DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVDKAEDYSTQIPLELARDRNPDAALGDFIADPLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQ+ EFKD+VGEI++GTVKRVEYGNVIVDLG  +G+IRRDE I REN+R GDR
Sbjct: 123 VREAERDRQFDEFKDRVGEIVNGTVKRVEYGNVIVDLGRGEGIIRRDEMIPRENVRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+QVK+V+RDPGSRAK+AV
Sbjct: 183 VRAYVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIQVKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATFV+NAL+PA V KVVL
Sbjct: 243 ISNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSQDPATFVVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+FNERT  
Sbjct: 303 DEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDIMTEAEESERRQKEFNERTNL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM +++VDE++  +L +EGFA VEELA V + EI+SI+GFDE+TA EIQ RARE+LE ++
Sbjct: 363 FMDSLDVDEMVGQVLASEGFAAVEELAYVDLDEISSIDGFDEDTAQEIQTRAREFLERLE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             + +K + LGV +EL  I G+ +++ VALGE+GIKT+ED AGC+ DDL+GW+E K G  
Sbjct: 423 AEMDEKRKALGVEDELRGIDGMTAQMMVALGEDGIKTIEDFAGCAADDLVGWTERKNGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVAD 519
           +KF+G  S     + + E MI+ AR   GWI +E +A 
Sbjct: 483 KKFEGLFSKFDVSRVEAEQMIVQARLAAGWITEEDLAK 520


>gi|319898339|ref|YP_004158432.1| transcription elongation protein [Bartonella clarridgeiae 73]
 gi|319402303|emb|CBI75842.1| transcription elongation protein [Bartonella clarridgeiae 73]
          Length = 536

 Score =  712 bits (1840), Expect = 0.0,   Method: Composition-based stats.
 Identities = 328/524 (62%), Positives = 423/524 (80%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIADAVA EKSIDR++V+S MAD+IQKAARS YG  ++IR EIN +TG+I 
Sbjct: 3   ISANRLELLQIADAVAREKSIDREIVISAMADAIQKAARSRYGQETNIRAEINSKTGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL+VV+ VE+YT +I+L  A  R     +G  +SD LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLKVVDIVEDYTTEIALSDALKRKKDAKVGDFLSDLLPPMDFGRIATQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+ Q+ EFK+K+GEIISGTVKRVEYGNVIVD+G  + ++RRDE I RE+ R GDR
Sbjct: 123 VRDAERNHQFEEFKNKIGEIISGTVKRVEYGNVIVDVGRGEAIVRRDELIPRESFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++++++DV RE RGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAFVHDVHREPRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+ATF++NAL+PA V+KVVL
Sbjct: 243 VSRDGSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAATFIVNALQPAEVSKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S NRQK+F ER++ 
Sbjct: 303 DEDAERIEVVVPDDQLSLAIGRRGQNVRLASQLTGWNIDILTEQEESENRQKEFTERSKL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+ ++VDE++  ++ +EGF  +EE+A V + EI SI+GFD +TA+EIQ RAREYLE  +
Sbjct: 363 FMETLDVDEMVGQVMASEGFTSIEEIAYVDLEEITSIDGFDHDTALEIQNRAREYLECKE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L +K ++LGVS+EL ++PG+ + + VALGE+GIKTMED AG +VDDL+GW E K G  
Sbjct: 423 KELNEKRKKLGVSDELQTLPGMTNAMLVALGEDGIKTMEDFAGYAVDDLVGWRECKEGQT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
           + F G L++    +   E+M++ AR + GWI +  +    V+DA
Sbjct: 483 QTFPGILTAFDITRADAETMVLAARVQAGWINQTDLPQHPVEDA 526


>gi|90420533|ref|ZP_01228440.1| transcription termination/elongation factor nusA [Aurantimonas
           manganoxydans SI85-9A1]
 gi|90335261|gb|EAS49014.1| transcription termination/elongation factor nusA [Aurantimonas
           manganoxydans SI85-9A1]
          Length = 537

 Score =  712 bits (1839), Expect = 0.0,   Method: Composition-based stats.
 Identities = 337/517 (65%), Positives = 420/517 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR++V+  MAD+IQKAARS YG  ++IRV+IN +TG++ 
Sbjct: 3   VSANRLELLQIADAVAREKSIDREIVIGAMADAIQKAARSRYGQETNIRVDINQKTGEMK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVV+EVE+   QI L +ARD++P  + G  +++ LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVDEVEDPNTQIYLDLARDKNPDAEPGDFIAEQLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AERDRQY E+KD+VGEI++GTVKRVEYGNVIVDLG  +G+IRRDE I RE  R GDR
Sbjct: 123 VRDAERDRQYDEYKDRVGEIVNGTVKRVEYGNVIVDLGRGEGIIRRDEQIPRELFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++++YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+ +KAV+RDPGSRAK+AV
Sbjct: 183 VRAFVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIITIKAVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            SSDSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+A+F++NAL+PA V KVVL
Sbjct: 243 TSSDSSVDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSPDAASFLVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER++ 
Sbjct: 303 DEDAERIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEQEESERRQKEFAERSET 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM A+NVDE++  +L +EGFA VEE+A V   E+A+IEGFD+ETA EIQ RARE+LE  +
Sbjct: 363 FMNALNVDEMVGQVLASEGFATVEEIAYVDQDEVAAIEGFDDETASEIQERAREFLERRE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                K  ELGVS++L  I G+ + + VALGE+G+KTMED AGC+ DDL+GW+E K G  
Sbjct: 423 AEFDAKRVELGVSDDLRQINGVTTPMLVALGEDGVKTMEDFAGCAADDLIGWTERKDGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
            +F G LS+    +   + M++ AR   GWI +  +A
Sbjct: 483 TRFPGALSAFDVSRADADQMVLQARLIAGWITEADLA 519


>gi|114705359|ref|ZP_01438267.1| transcription elongation factor NusA [Fulvimarina pelagi HTCC2506]
 gi|114540144|gb|EAU43264.1| transcription elongation factor NusA [Fulvimarina pelagi HTCC2506]
          Length = 533

 Score =  712 bits (1838), Expect = 0.0,   Method: Composition-based stats.
 Identities = 338/517 (65%), Positives = 422/517 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK+IDR++V+  MAD+IQKAARS YG  ++IR +IN +TG++ 
Sbjct: 3   VSANRLELLQIADAVAREKTIDREIVIEAMADAIQKAARSRYGQETNIRCDINTKTGEMK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE+VE+   QI L++ARD++P  + G  +++ LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVEDVEDPATQIYLELARDKNPDAEPGDFIAEQLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERD QY E+KD+VGEII+G VKRVEYGNVIVDLG  + +IRRDE I RE  RPGDR
Sbjct: 123 VREAERDMQYDEYKDRVGEIINGQVKRVEYGNVIVDLGKGEAIIRRDEQIPRELYRPGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRRE RGPQ+ LSRTHPQFM KLF MEVPEIY+GI+ +K+V+RDPGSRAK+AV
Sbjct: 183 VRAYVYDVRREPRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIITLKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            SSDSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+A+F++NAL+PA V KVVL
Sbjct: 243 VSSDSSVDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSPDAASFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TEEE+S  RQK+FNER++ 
Sbjct: 303 DEDAERIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEEEESERRQKEFNERSEI 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+NVDE++  LL +EGFA VEE+A V   E++SIEGFDE+TA E+Q RARE+LE  +
Sbjct: 363 FMEALNVDEMVGQLLASEGFATVEEVAYVDAEEVSSIEGFDEDTAEELQSRAREFLERRE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                K  ELGV++EL  IPG+ +++ VALGE+G KT+ED AG +VDDL GW+E   G  
Sbjct: 423 AEFDAKRVELGVADELKQIPGLTTEMLVALGEDGTKTIEDFAGYAVDDLCGWTERSKGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
           ++F+G LS     +   E M+++AR K GWI +E +A
Sbjct: 483 KRFEGTLSKFDVSRADAEQMVLNARLKAGWITEEDLA 519


>gi|116249893|ref|YP_765731.1| transcription elongation factor NusA [Rhizobium leguminosarum bv.
           viciae 3841]
 gi|115254541|emb|CAK05615.1| putative transcription elongation protein (N utilization substance
           protein A) (L factor) [Rhizobium leguminosarum bv.
           viciae 3841]
          Length = 533

 Score =  711 bits (1835), Expect = 0.0,   Method: Composition-based stats.
 Identities = 354/518 (68%), Positives = 431/518 (83%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK IDR++VL+ MAD+IQKAARS YGT S+IR +INP+TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKVIDREIVLAAMADAIQKAARSRYGTESNIRADINPKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE+ E+Y+ QI L++ARDR+P   +G  ++DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVEKAEDYSTQIPLELARDRNPDAALGDFIADPLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQ+ EFKD+VGEI++GTVKRVEYGNVIVDLG  +G+IRRDE I REN+R GDR
Sbjct: 123 VREAERDRQFDEFKDRVGEIVNGTVKRVEYGNVIVDLGRGEGIIRRDEMIPRENVRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+QVK+V+RDPGSRAK+AV
Sbjct: 183 VRAYVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIQVKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATFV+NAL+PA V KVVL
Sbjct: 243 ISNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSQDPATFVVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+FNERT  
Sbjct: 303 DEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDIMTEAEESERRQKEFNERTNL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM +++VDE++  +L +EGFA VEELA V + EI+SI+GFDEETA EIQ RARE+LE ++
Sbjct: 363 FMDSLDVDEMVGQVLASEGFAAVEELAYVDLDEISSIDGFDEETAQEIQQRAREFLERLE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             + +K + LGV +EL  I G+ +++ VALGE+GIK++ED AGC+ DDL+GWSE K G  
Sbjct: 423 AEMDEKRKALGVQDELREINGMTAQMMVALGEDGIKSIEDFAGCAADDLVGWSERKNGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVAD 519
           +KF+G  S     + + E MI+ AR   GWI +E +A 
Sbjct: 483 KKFEGLFSKFDVSRVEAEQMIVQARLSAGWITQEDLAK 520


>gi|209551640|ref|YP_002283557.1| transcription elongation factor NusA [Rhizobium leguminosarum bv.
           trifolii WSM2304]
 gi|209537396|gb|ACI57331.1| NusA antitermination factor [Rhizobium leguminosarum bv. trifolii
           WSM2304]
          Length = 535

 Score =  709 bits (1832), Expect = 0.0,   Method: Composition-based stats.
 Identities = 355/518 (68%), Positives = 431/518 (83%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK IDR++VL+ MAD+IQKAARS YGT S+IR +INP+TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKVIDREIVLAAMADAIQKAARSRYGTESNIRADINPKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVV++ E+Y+ QI L++ARDR+P   +G  ++DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVDKAEDYSTQIPLELARDRNPDAALGDFIADPLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQ+ EFKD+VGEI++GTVKRVEYGNVIVDLG  +G+IRRDE I REN+R GDR
Sbjct: 123 VREAERDRQFDEFKDRVGEIVNGTVKRVEYGNVIVDLGRGEGIIRRDEMIPRENVRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+QVK+V+RDPGSRAK+AV
Sbjct: 183 VRAYVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIQVKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATFV+NAL+PA V KVVL
Sbjct: 243 ISNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSQDPATFVVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+FNERT  
Sbjct: 303 DEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDIMTEAEESERRQKEFNERTNL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM +++VDE++  +L +EGFA VEELA V + EI+SI+GFDEETA EIQ RARE+LE ++
Sbjct: 363 FMDSLDVDEMVGQVLASEGFAAVEELAYVDLDEISSIDGFDEETAQEIQQRAREFLERLE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             + +K + LGV +EL  I GI +++ VALGE+GIKT+ED AGC+ DDL+GWSE K G  
Sbjct: 423 AEMDEKRKALGVQDELREINGITAQMMVALGEDGIKTIEDFAGCAADDLVGWSERKNGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVAD 519
           +KF+G  S     + + E MI+ AR   GWI +E +A 
Sbjct: 483 KKFEGLFSKFDVSRVEAEQMIVQARLSAGWITEEDLAK 520


>gi|17988250|ref|NP_540884.1| transcription elongation factor NusA [Brucella melitensis bv. 1
           str. 16M]
 gi|23503011|ref|NP_699138.1| transcription elongation factor NusA [Brucella suis 1330]
 gi|62291000|ref|YP_222793.1| transcription elongation factor NusA [Brucella abortus bv. 1 str.
           9-941]
 gi|82700909|ref|YP_415483.1| transcription elongation factor NusA [Brucella melitensis biovar
           Abortus 2308]
 gi|148559551|ref|YP_001259957.1| transcription elongation factor NusA [Brucella ovis ATCC 25840]
 gi|161620071|ref|YP_001593958.1| transcription elongation factor NusA [Brucella canis ATCC 23365]
 gi|189025212|ref|YP_001935980.1| transcription elongation factor NusA [Brucella abortus S19]
 gi|254690294|ref|ZP_05153548.1| transcription elongation factor NusA [Brucella abortus bv. 6 str.
           870]
 gi|254694782|ref|ZP_05156610.1| transcription elongation factor NusA [Brucella abortus bv. 3 str.
           Tulya]
 gi|254696410|ref|ZP_05158238.1| transcription elongation factor NusA [Brucella abortus bv. 2 str.
           86/8/59]
 gi|254705161|ref|ZP_05166989.1| transcription elongation factor NusA [Brucella suis bv. 3 str. 686]
 gi|254707321|ref|ZP_05169149.1| transcription elongation factor NusA [Brucella pinnipedialis
           M163/99/10]
 gi|254709137|ref|ZP_05170948.1| transcription elongation factor NusA [Brucella pinnipedialis B2/94]
 gi|254731323|ref|ZP_05189901.1| transcription elongation factor NusA [Brucella abortus bv. 4 str.
           292]
 gi|256030662|ref|ZP_05444276.1| transcription elongation factor NusA [Brucella pinnipedialis
           M292/94/1]
 gi|256045766|ref|ZP_05448644.1| transcription elongation factor NusA [Brucella melitensis bv. 1
           str. Rev.1]
 gi|256060123|ref|ZP_05450305.1| transcription elongation factor NusA [Brucella neotomae 5K33]
 gi|256112485|ref|ZP_05453406.1| transcription elongation factor NusA [Brucella melitensis bv. 3
           str. Ether]
 gi|256158664|ref|ZP_05456547.1| transcription elongation factor NusA [Brucella ceti M490/95/1]
 gi|256254068|ref|ZP_05459604.1| transcription elongation factor NusA [Brucella ceti B1/94]
 gi|256258547|ref|ZP_05464083.1| transcription elongation factor NusA [Brucella abortus bv. 9 str.
           C68]
 gi|256370558|ref|YP_003108069.1| transcription elongation factor NusA [Brucella microti CCM 4915]
 gi|260169566|ref|ZP_05756377.1| transcription elongation factor NusA [Brucella sp. F5/99]
 gi|260546263|ref|ZP_05822003.1| ribosomal protein S1 [Brucella abortus NCTC 8038]
 gi|260563062|ref|ZP_05833548.1| ribosomal protein S1 [Brucella melitensis bv. 1 str. 16M]
 gi|260755834|ref|ZP_05868182.1| transcription elongation factor NusA [Brucella abortus bv. 6 str.
           870]
 gi|260759057|ref|ZP_05871405.1| transcription elongation factor NusA [Brucella abortus bv. 4 str.
           292]
 gi|260760782|ref|ZP_05873125.1| transcription elongation factor NusA [Brucella abortus bv. 2 str.
           86/8/59]
 gi|260884859|ref|ZP_05896473.1| transcription elongation factor NusA [Brucella abortus bv. 9 str.
           C68]
 gi|261215109|ref|ZP_05929390.1| transcription elongation factor NusA [Brucella abortus bv. 3 str.
           Tulya]
 gi|261221209|ref|ZP_05935490.1| transcription elongation factor NusA [Brucella ceti B1/94]
 gi|261314803|ref|ZP_05954000.1| transcription elongation factor NusA [Brucella pinnipedialis
           M163/99/10]
 gi|261316637|ref|ZP_05955834.1| transcription elongation factor NusA [Brucella pinnipedialis B2/94]
 gi|261324100|ref|ZP_05963297.1| transcription elongation factor NusA [Brucella neotomae 5K33]
 gi|261755866|ref|ZP_05999575.1| transcription elongation factor NusA [Brucella suis bv. 3 str. 686]
 gi|261759094|ref|ZP_06002803.1| ribosomal protein S1 [Brucella sp. F5/99]
 gi|265987709|ref|ZP_06100266.1| transcription elongation factor NusA [Brucella pinnipedialis
           M292/94/1]
 gi|265992183|ref|ZP_06104740.1| transcription elongation factor NusA [Brucella melitensis bv. 1
           str. Rev.1]
 gi|265993921|ref|ZP_06106478.1| transcription elongation factor NusA [Brucella melitensis bv. 3
           str. Ether]
 gi|265997170|ref|ZP_06109727.1| transcription elongation factor NusA [Brucella ceti M490/95/1]
 gi|297247386|ref|ZP_06931104.1| transcription termination protein NusA [Brucella abortus bv. 5 str.
           B3196]
 gi|17984018|gb|AAL53148.1| n utilization substance protein a [Brucella melitensis bv. 1 str.
           16M]
 gi|23349051|gb|AAN31053.1| N utilization substance protein A [Brucella suis 1330]
 gi|62197132|gb|AAX75432.1| MusA, N utilization substance protein A [Brucella abortus bv. 1
           str. 9-941]
 gi|82617010|emb|CAJ12119.1| Ribosomal protein S1:RNA binding S1:KH domain:KH domain, type 1
           [Brucella melitensis biovar Abortus 2308]
 gi|148370808|gb|ABQ60787.1| N utilization substance protein A [Brucella ovis ATCC 25840]
 gi|161336882|gb|ABX63187.1| transcription termination factor NusA [Brucella canis ATCC 23365]
 gi|189020784|gb|ACD73506.1| Ribosomal protein S1 [Brucella abortus S19]
 gi|256000721|gb|ACU49120.1| transcription elongation factor NusA [Brucella microti CCM 4915]
 gi|260096370|gb|EEW80246.1| ribosomal protein S1 [Brucella abortus NCTC 8038]
 gi|260153078|gb|EEW88170.1| ribosomal protein S1 [Brucella melitensis bv. 1 str. 16M]
 gi|260669375|gb|EEX56315.1| transcription elongation factor NusA [Brucella abortus bv. 4 str.
           292]
 gi|260671214|gb|EEX58035.1| transcription elongation factor NusA [Brucella abortus bv. 2 str.
           86/8/59]
 gi|260675942|gb|EEX62763.1| transcription elongation factor NusA [Brucella abortus bv. 6 str.
           870]
 gi|260874387|gb|EEX81456.1| transcription elongation factor NusA [Brucella abortus bv. 9 str.
           C68]
 gi|260916716|gb|EEX83577.1| transcription elongation factor NusA [Brucella abortus bv. 3 str.
           Tulya]
 gi|260919793|gb|EEX86446.1| transcription elongation factor NusA [Brucella ceti B1/94]
 gi|261295860|gb|EEX99356.1| transcription elongation factor NusA [Brucella pinnipedialis B2/94]
 gi|261300080|gb|EEY03577.1| transcription elongation factor NusA [Brucella neotomae 5K33]
 gi|261303829|gb|EEY07326.1| transcription elongation factor NusA [Brucella pinnipedialis
           M163/99/10]
 gi|261739078|gb|EEY27074.1| ribosomal protein S1 [Brucella sp. F5/99]
 gi|261745619|gb|EEY33545.1| transcription elongation factor NusA [Brucella suis bv. 3 str. 686]
 gi|262551638|gb|EEZ07628.1| transcription elongation factor NusA [Brucella ceti M490/95/1]
 gi|262764902|gb|EEZ10823.1| transcription elongation factor NusA [Brucella melitensis bv. 3
           str. Ether]
 gi|263003249|gb|EEZ15542.1| transcription elongation factor NusA [Brucella melitensis bv. 1
           str. Rev.1]
 gi|264659906|gb|EEZ30167.1| transcription elongation factor NusA [Brucella pinnipedialis
           M292/94/1]
 gi|297174555|gb|EFH33902.1| transcription termination protein NusA [Brucella abortus bv. 5 str.
           B3196]
          Length = 537

 Score =  708 bits (1829), Expect = 0.0,   Method: Composition-based stats.
 Identities = 341/522 (65%), Positives = 423/522 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR++VL+ MAD+IQKAARS YG  S+IR +IN ++G+I 
Sbjct: 3   VSANRLELLQIADAVAREKSIDREIVLAAMADAIQKAARSRYGQESNIRADINAKSGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE VE+Y  QISL +ARDR+P   +G  ++D LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVENVEDYATQISLFMARDRNPDAQVGDFIADQLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD+VGEI++GTVKRVEYGNVIVDLG  + ++RRDE I RE  R GDR
Sbjct: 123 VREAERDRQYDEYKDRVGEIVNGTVKRVEYGNVIVDLGRGEAIVRRDELIPREAFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++Y+YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAYVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+A+F++NAL+PA V KVVL
Sbjct: 243 VSRDASIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAASFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER+  
Sbjct: 303 DEDAERIEVVVPNDQLSLAIGRRGQNVRLASQLTGWDIDILTEDEESERRQKEFAERSNL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+NVDE++  +L +EGFA VEELA V   EI+SI+GFDE+TA EIQ RAREYLE I+
Sbjct: 363 FMEALNVDEMVGQVLASEGFASVEELAYVDAGEISSIDGFDEDTAGEIQDRAREYLERIE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                + +ELGV++EL  +PG+ + + VA+GE+G+KTMED AG +VDDL+GW E K G+ 
Sbjct: 423 AEQDARRKELGVADELRELPGMTTAMLVAVGEDGVKTMEDFAGYAVDDLVGWRERKDGDT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQ 523
               G L+     +   E M++ AR K GWI +E++A     
Sbjct: 483 INHSGVLTPFDLSRVDAEQMVLAARLKAGWITEEELAAASED 524


>gi|241207071|ref|YP_002978167.1| transcription elongation factor NusA [Rhizobium leguminosarum bv.
           trifolii WSM1325]
 gi|240860961|gb|ACS58628.1| NusA antitermination factor [Rhizobium leguminosarum bv. trifolii
           WSM1325]
          Length = 533

 Score =  708 bits (1829), Expect = 0.0,   Method: Composition-based stats.
 Identities = 353/516 (68%), Positives = 430/516 (83%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK IDR++VL+ MAD+IQKAARS YGT S+IR +INP+TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKVIDREIVLAAMADAIQKAARSRYGTESNIRADINPKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE+ E+Y+ QI L++ARDR+P   +G  ++DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVEKAEDYSTQIPLELARDRNPDAALGDFIADPLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQ+ EFKD+VGEI++GTVKRVEYGNVIVDLG  +G+IRRDE I REN+R GDR
Sbjct: 123 VREAERDRQFDEFKDRVGEIVNGTVKRVEYGNVIVDLGRGEGIIRRDEMIPRENVRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+QVK+V+RDPGSRAK+AV
Sbjct: 183 VRAYVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIQVKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATFV+NAL+PA V KVVL
Sbjct: 243 ISNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSQDPATFVVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+FNERT  
Sbjct: 303 DEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDIMTEAEESERRQKEFNERTNL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM +++VDE++  +L +EGFA VEELA V + EI+SI+GFDEETA EIQ RARE+LE ++
Sbjct: 363 FMDSLDVDEMVGQVLASEGFAAVEELAYVDLDEISSIDGFDEETAQEIQQRAREFLERLE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             + +K + LGV +EL  I G+ +++ VALGE+GIK++ED AGC+ DDL+GWSE K G  
Sbjct: 423 AEMDEKRKALGVQDELREINGMTAQMMVALGEDGIKSIEDFAGCAADDLVGWSERKNGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
           +KF+G  S     + + E MI+ AR   GWI +E +
Sbjct: 483 KKFEGLFSKFDVSRVEAEQMIVQARLSAGWITQEDL 518


>gi|260567370|ref|ZP_05837840.1| ribosomal protein S1 [Brucella suis bv. 4 str. 40]
 gi|260156888|gb|EEW91968.1| ribosomal protein S1 [Brucella suis bv. 4 str. 40]
          Length = 537

 Score =  706 bits (1824), Expect = 0.0,   Method: Composition-based stats.
 Identities = 340/522 (65%), Positives = 422/522 (80%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR++VL+ MAD+IQKAARS YG  S+IR +IN ++G+I 
Sbjct: 3   VSANRLELLQIADAVAREKSIDREIVLAAMADAIQKAARSRYGQESNIRADINAKSGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE VE+Y  QISL +ARDR+P   +G  ++D LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVENVEDYATQISLFMARDRNPDAQVGDFIADQLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD+VGEI++GTVKRVEYGNVIVDLG  + ++RRDE I RE  R GDR
Sbjct: 123 VREAERDRQYDEYKDRVGEIVNGTVKRVEYGNVIVDLGRGEAIVRRDELIPREAFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++Y+YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAYVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRG RVQAVV EL+ EKIDI+ WSPD+A+F++NAL+PA V KVVL
Sbjct: 243 VSRDASIDPVGACVGMRGFRVQAVVAELQGEKIDIIPWSPDAASFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER+  
Sbjct: 303 DEDAERIEVVVPNDQLSLAIGRRGQNVRLASQLTGWDIDILTEDEESERRQKEFAERSNL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+NVDE++  +L +EGFA VEELA V   EI+SI+GFDE+TA EIQ RAREYLE I+
Sbjct: 363 FMEALNVDEMVGQVLASEGFASVEELAYVDAGEISSIDGFDEDTAGEIQDRAREYLERIE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                + +ELGV++EL  +PG+ + + VA+GE+G+KTMED AG +VDDL+GW E K G+ 
Sbjct: 423 AEQDARRKELGVADELRELPGMTTAMLVAVGEDGVKTMEDFAGYAVDDLVGWRERKDGDT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQ 523
               G L+     +   E M++ AR K GWI +E++A     
Sbjct: 483 INHSGVLTPFDLSRVDAEQMVLAARLKAGWITEEELAAASED 524


>gi|254713438|ref|ZP_05175249.1| transcription elongation factor NusA [Brucella ceti M644/93/1]
 gi|254716206|ref|ZP_05178017.1| transcription elongation factor NusA [Brucella ceti M13/05/1]
 gi|261217980|ref|ZP_05932261.1| transcription elongation factor NusA [Brucella ceti M13/05/1]
 gi|261321170|ref|ZP_05960367.1| transcription elongation factor NusA [Brucella ceti M644/93/1]
 gi|260923069|gb|EEX89637.1| transcription elongation factor NusA [Brucella ceti M13/05/1]
 gi|261293860|gb|EEX97356.1| transcription elongation factor NusA [Brucella ceti M644/93/1]
          Length = 537

 Score =  706 bits (1824), Expect = 0.0,   Method: Composition-based stats.
 Identities = 340/522 (65%), Positives = 422/522 (80%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR++VL+ MAD+IQKAARS YG  S+IR +IN ++G+I 
Sbjct: 3   VSANRLELLQIADAVAREKSIDREIVLAAMADAIQKAARSRYGQESNIRADINAKSGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE VE+Y  QISL +ARDR+P   +G  ++D LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVENVEDYATQISLFMARDRNPDAQVGDFIADQLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD+VGEI++GTVKRVEYGNVIVDLG  + ++RRDE I RE  R GDR
Sbjct: 123 VREAERDRQYDEYKDRVGEIVNGTVKRVEYGNVIVDLGRGEAIVRRDELIPREAFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++Y+YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAYVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+A+F++NAL+PA V KVVL
Sbjct: 243 VSRDASIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAASFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER+  
Sbjct: 303 DEDAERIEVVVPNDQLSLAIGRRGQNVRLASQLTGWDIDILTEDEESERRQKEFAERSNL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+NVDE++  +L +EGFA VEELA V   EI+SI+GFDE+TA EIQ RAREYLE I+
Sbjct: 363 FMEALNVDEMVGQVLASEGFASVEELAYVDAGEISSIDGFDEDTAGEIQDRAREYLERIE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                + +ELGV++EL  +PG+ + + VA+GE+G+KT ED AG +VDDL+GW E K G+ 
Sbjct: 423 AEQDARRKELGVADELRELPGMTTAMLVAVGEDGVKTKEDFAGYAVDDLVGWRERKDGDT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQ 523
               G L+     +   E M++ AR K GWI +E++A     
Sbjct: 483 INHSGVLTPFDLSRVDAEQMVLAARLKAGWITEEELAAASED 524


>gi|163844176|ref|YP_001628581.1| transcription elongation factor NusA [Brucella suis ATCC 23445]
 gi|163674899|gb|ABY39010.1| transcription termination factor NusA [Brucella suis ATCC 23445]
          Length = 537

 Score =  706 bits (1824), Expect = 0.0,   Method: Composition-based stats.
 Identities = 341/522 (65%), Positives = 423/522 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR++VL+ MAD+IQKAARS YG  S+IR +IN ++G+I 
Sbjct: 3   VSANRLELLQIADAVAREKSIDREIVLAAMADAIQKAARSRYGQESNIRADINAKSGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE VE+Y  QISL +ARDR+P   +G  ++D LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVENVEDYATQISLFMARDRNPDAQVGDFIADQLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD+VGEI++GTVKRVEYGNVIVDLG  + ++RRDE I RE  R GDR
Sbjct: 123 VREAERDRQYDEYKDRVGEIVNGTVKRVEYGNVIVDLGRGEAIVRRDELIPREAFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++Y+YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAYVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSP +A+F++NAL+PA VTKVVL
Sbjct: 243 VSRDASIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPVAASFIVNALQPAEVTKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER+  
Sbjct: 303 DEDAERIEVVVPNDQLSLAIGRRGQNVRLASQLTGWDIDILTEDEESERRQKEFAERSNL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+NVDE++  +L +EGFA VEELA V   EI+SI+GFDE+TA EIQ RAREYLE I+
Sbjct: 363 FMEALNVDEMVGQVLASEGFASVEELAYVDAGEISSIDGFDEDTAGEIQDRAREYLERIE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                + +ELGV++EL  +PG+ + + VA+GE+G+KTMED AG +VDDL+GW E K G+ 
Sbjct: 423 AEQDARRKELGVADELRELPGMTTAMLVAVGEDGVKTMEDFAGYAVDDLVGWRERKDGDT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQ 523
               G L+     +   E M++ AR K GWI +E++A     
Sbjct: 483 INHSGVLTPFDLSRVDAEQMVLAARLKAGWITEEELAAASED 524


>gi|227824069|ref|YP_002828042.1| transcription elongation factor NusA [Sinorhizobium fredii NGR234]
 gi|227343071|gb|ACP27289.1| transcription termination factor, NusA [Sinorhizobium fredii
           NGR234]
          Length = 536

 Score =  706 bits (1824), Expect = 0.0,   Method: Composition-based stats.
 Identities = 355/522 (68%), Positives = 440/522 (84%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK IDR++VL+ MAD+IQKAARS YG+ S+IR +IN +TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKVIDREIVLAAMADAIQKAARSRYGSESNIRADINSKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE+ ++Y+ QI L++ARDR+P   +G  ++DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVEKADDYSTQIPLELARDRNPDAKLGDFIADPLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD+VGEI++GTVKRVEYGNVIVDLG  +G+IRRDE I REN+R GDR
Sbjct: 123 VREAERDRQYEEFKDRVGEIVNGTVKRVEYGNVIVDLGRGEGIIRRDEMIPRENMRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++++YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+Q+K+V+RDPGSRAK+AV
Sbjct: 183 VRAFVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIQIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD A+F++NAL+PA VTKVVL
Sbjct: 243 VSNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSPDPASFIVNALQPAEVTKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+FNERTQ 
Sbjct: 303 DEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDILTEQEESERRQKEFNERTQL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM A++VDE++  +L +EGFA VEELA V + EI+SI+GFDEETA EIQ RAREYL+ ++
Sbjct: 363 FMDALDVDEMVGQVLASEGFAQVEELAYVDLDEISSIDGFDEETATEIQTRAREYLDKVE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             +  K +ELGVS+EL  I G+ S++ VALGE GIKT+ED AGC+ DDL+GW+E K G  
Sbjct: 423 AEMDAKRKELGVSDELRQIDGLTSQMLVALGEEGIKTIEDFAGCAADDLVGWTERKDGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQ 523
           ++F+G  S L   +++ E+MI+ AR   GWI +E +A ++ +
Sbjct: 483 KRFEGTFSKLEVSREEAEAMIVQARLAAGWITEEDLAADQDE 524


>gi|182678035|ref|YP_001832181.1| NusA antitermination factor [Beijerinckia indica subsp. indica ATCC
           9039]
 gi|182633918|gb|ACB94692.1| NusA antitermination factor [Beijerinckia indica subsp. indica ATCC
           9039]
          Length = 538

 Score =  706 bits (1823), Expect = 0.0,   Method: Composition-based stats.
 Identities = 334/523 (63%), Positives = 412/523 (78%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR +VL+ M D+IQKAARS YG  +++R EINP+TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKSIDRQIVLASMEDAIQKAARSRYGQETEVRAEINPKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             RLL VV+E++N   QI+L  AR ++P+ ++G  +++ LPP DFGR+A QSAKQVI+QK
Sbjct: 63  FSRLLHVVDEIDNDAVQITLAEARKKNPAAELGDWIAETLPPFDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD++G+I++G VKRVEYGNVI+DLG  +  IRRDE I RE  RPGDR
Sbjct: 123 VREAERDRQYQEYKDRIGDIVNGVVKRVEYGNVIIDLGRGEATIRRDEMIPREVFRPGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRREQRGPQ+ LSRTHPQFM KLF  EVPEIY+G+++VKAV+RDPGSRAK+AV
Sbjct: 183 VRAYVYDVRREQRGPQIFLSRTHPQFMAKLFRQEVPEIYDGVIEVKAVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+ATF++NAL+PA V KVVL
Sbjct: 243 ISRDTSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDAATFIVNALQPAEVVKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F ERT  
Sbjct: 303 DEDSARIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESARRQKEFTERTAM 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM A++VDE++  LL +EGF  VEELA V+ SE+A IEGFDEETA EIQ RA  YL  I+
Sbjct: 363 FMGALDVDEVVGQLLASEGFRSVEELAFVEPSELAVIEGFDEETAAEIQARANAYLARIE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
              + + RELGVS++L  I G+ + + V  GEN IKT+EDLAGC+ DDL+GWSE K G  
Sbjct: 423 AEHETRRRELGVSDDLLEIDGLTNAMLVKFGENDIKTVEDLAGCATDDLVGWSERKDGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQD 524
            +  G L      +++ E +I+ AR K GWI+    A E  Q+
Sbjct: 483 TRHPGILDGFEVSREEAEGLIMKARVKAGWIDALPEASEPEQE 525


>gi|225853588|ref|YP_002733821.1| transcription elongation factor NusA [Brucella melitensis ATCC
           23457]
 gi|256262928|ref|ZP_05465460.1| ribosomal protein S1 [Brucella melitensis bv. 2 str. 63/9]
 gi|225641953|gb|ACO01867.1| transcription termination factor NusA [Brucella melitensis ATCC
           23457]
 gi|263092802|gb|EEZ16977.1| ribosomal protein S1 [Brucella melitensis bv. 2 str. 63/9]
 gi|326410161|gb|ADZ67226.1| transcription elongation factor NusA [Brucella melitensis M28]
 gi|326539879|gb|ADZ88094.1| transcription termination factor NusA [Brucella melitensis M5-90]
          Length = 537

 Score =  706 bits (1823), Expect = 0.0,   Method: Composition-based stats.
 Identities = 339/522 (64%), Positives = 421/522 (80%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR++VL+ MAD+IQKAARS YG  S+IR +IN ++G+I 
Sbjct: 3   VSANRLELLQIADAVAREKSIDREIVLAAMADAIQKAARSRYGQESNIRADINAKSGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE VE+Y  QISL +ARDR+P   +G  ++D LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVENVEDYATQISLFMARDRNPDAQVGDFIADQLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD+VGEI++GTVKRVEYGNVIVDLG  + ++RRDE I RE  R GDR
Sbjct: 123 VREAERDRQYDEYKDRVGEIVNGTVKRVEYGNVIVDLGRGEAIVRRDELIPREAFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++Y+YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAYVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+A+F++NAL+PA V KVVL
Sbjct: 243 VSRDASIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAASFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLA QLTGW IDI+TE+E+S  R K+F ER+  
Sbjct: 303 DEDAERIEVVVPNDQLSLAIGRRGQNVRLALQLTGWDIDILTEDEESERRHKEFAERSNL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+NVDE++  +L +EGFA VEELA V   EI+SI+GFDE+TA EIQ RAREYLE I+
Sbjct: 363 FMEALNVDEMVGQVLASEGFASVEELAYVDAGEISSIDGFDEDTAGEIQDRAREYLERIE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                + +ELGV++EL  +PG+ + + VA+GE+G+KTMED AG +VDDL+GW E K G+ 
Sbjct: 423 AEQDARRKELGVADELRELPGMTTAMLVAVGEDGVKTMEDFAGYAVDDLVGWRERKDGDT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQ 523
               G L+     +   E M++ AR K GWI +E++A     
Sbjct: 483 INHSGVLTPFDLSRVDAEQMVLAARLKAGWITEEELAAASED 524


>gi|15963990|ref|NP_384343.1| transcription elongation factor NusA [Sinorhizobium meliloti 1021]
 gi|307306402|ref|ZP_07586146.1| NusA antitermination factor [Sinorhizobium meliloti BL225C]
 gi|307319289|ref|ZP_07598718.1| NusA antitermination factor [Sinorhizobium meliloti AK83]
 gi|15073166|emb|CAC41674.1| Probable N utilization substance protein A [Sinorhizobium meliloti
           1021]
 gi|306895125|gb|EFN25882.1| NusA antitermination factor [Sinorhizobium meliloti AK83]
 gi|306902244|gb|EFN32841.1| NusA antitermination factor [Sinorhizobium meliloti BL225C]
          Length = 542

 Score =  706 bits (1822), Expect = 0.0,   Method: Composition-based stats.
 Identities = 354/516 (68%), Positives = 437/516 (84%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK IDR++VL+ MAD+IQKAARS YG+ S+IR +INP+TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKVIDREIVLAAMADAIQKAARSRYGSESNIRADINPKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE+ E+Y+ QI +++ARDR+P   +G  ++DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVEKAEDYSTQIPIELARDRNPDAKLGDFIADPLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD+VGEI++GTVKRVEYGNVIVDLG  +G+IRRDE I REN+R GDR
Sbjct: 123 VREAERDRQYDEFKDRVGEIVNGTVKRVEYGNVIVDLGRGEGIIRRDEMIPRENMRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++++YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+Q+K+V+RDPGSRAK+AV
Sbjct: 183 VRAFVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIQIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD A+F++NAL+PA V KVVL
Sbjct: 243 VSNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSPDPASFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+FNERTQ 
Sbjct: 303 DEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDILTEQEESERRQKEFNERTQL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM A++VDE++  +L +EGFA VEELA V++ EI+SIEGFDE+TA E+Q RAREYLE I+
Sbjct: 363 FMDALDVDEMVGQVLASEGFAQVEELAYVELDEISSIEGFDEDTANELQTRAREYLEKIE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             +  K +ELGVS+EL +I G+ S++ VALGE GIKT+ED AGC+ DDL+GW+E K G  
Sbjct: 423 AEMDAKRKELGVSDELRTIDGLTSQMLVALGEEGIKTIEDFAGCAADDLVGWTERKDGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
           ++F+G  S     +++ E+MI+ AR   GWI +E +
Sbjct: 483 KRFEGIFSKFEVTREEAETMIVQARLAAGWITEEDL 518


>gi|163757748|ref|ZP_02164837.1| transcription elongation factor NusA [Hoeflea phototrophica DFL-43]
 gi|162285250|gb|EDQ35532.1| transcription elongation factor NusA [Hoeflea phototrophica DFL-43]
          Length = 550

 Score =  705 bits (1821), Expect = 0.0,   Method: Composition-based stats.
 Identities = 344/516 (66%), Positives = 431/516 (83%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR++V++ MAD+IQKAARS YG+ S+IR +IN +TG+I 
Sbjct: 7   VSANRLELLQIADAVAREKSIDREIVIAAMADAIQKAARSRYGSESNIRADINAKTGEIK 66

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE  E+Y+ QI L +ARDR+P   +G  ++DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 67  LQRLLEVVEHAEDYSTQIPLMLARDRNPDAQLGDFIADPLPPMDFGRIAAQSAKQVIVQK 126

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQ+ EFKD++GE+++GTVKRVEYGNVIVDLG  +G++RRDETI RE  R GDR
Sbjct: 127 VREAERDRQFDEFKDRIGEVVNGTVKRVEYGNVIVDLGRGEGIVRRDETIPREAFRYGDR 186

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++Y+YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+++++V+RDPGSRAK+AV
Sbjct: 187 IRAYVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIEIRSVARDPGSRAKIAV 246

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSP  ATF++NAL+PA V KVVL
Sbjct: 247 ISNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSPSPATFIVNALQPAEVAKVVL 306

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TEEE+S  RQK+FNERTQ 
Sbjct: 307 DEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDILTEEEESQRRQKEFNERTQL 366

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A++VDE++  +L +EGF+ VEE+A V + EI +IEGFD+ETA E+Q RAREYL+ ++
Sbjct: 367 FMEALDVDEMVGQVLASEGFSQVEEVAYVDLGEITAIEGFDDETAEELQTRAREYLDKVE 426

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L  K +ELGV +EL SI G+ + + VALG + IKT+ED AGC+VDDL GWSE K G  
Sbjct: 427 AELDAKRKELGVEDELRSIAGMTTAMMVALGGDEIKTVEDFAGCAVDDLTGWSERKDGET 486

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
           ++FDG  + +   + + ESMI+ AR  +GWI ++++
Sbjct: 487 KRFDGLFTGMDITRAEAESMILSARLAVGWITEDEL 522


>gi|153008085|ref|YP_001369300.1| transcription elongation factor NusA [Ochrobactrum anthropi ATCC
           49188]
 gi|151559973|gb|ABS13471.1| NusA antitermination factor [Ochrobactrum anthropi ATCC 49188]
          Length = 535

 Score =  705 bits (1820), Expect = 0.0,   Method: Composition-based stats.
 Identities = 342/517 (66%), Positives = 419/517 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR++VL+ MAD+IQKAARS YG  S+IR +IN ++G+I 
Sbjct: 3   VSANRLELLQIADAVAREKSIDREIVLAAMADAIQKAARSRYGQESNIRADINAKSGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE VE+Y  QISL  ARDR+P   +G  ++D LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVEHVEDYATQISLFTARDRNPDAQVGDFIADQLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD+VGEI++GTVKRVEYGNVIVDLG  + ++RRDE I RE  R GDR
Sbjct: 123 VREAERDRQYDEYKDRVGEIVNGTVKRVEYGNVIVDLGRGEAIVRRDELIPREAFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++Y+YDVRREQRGPQ+ LSRTHP FM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAYVYDVRREQRGPQIFLSRTHPSFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+A+F++NAL+PA V KVVL
Sbjct: 243 VSRDASIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSPDAASFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER+  
Sbjct: 303 DEDAERIEVVVPNDQLSLAIGRRGQNVRLASQLTGWDIDILTEDEESERRQKEFTERSTL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM A+NVDE++  +L +EGFA VEELA V+  EIASI+GFDE+TA EIQ RAREYL+ I+
Sbjct: 363 FMDALNVDEMVGQVLASEGFASVEELAYVEPGEIASIDGFDEDTAGEIQERAREYLDRIE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                + +ELGV +EL  +PGI + + VA+GE+G+KTMED AG +VDDL+GW E K G  
Sbjct: 423 SEQDDRRKELGVEDELRELPGITTAMLVAVGEDGVKTMEDFAGYAVDDLVGWRERKDGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
               G  SS    +   E M++ AR K GWI +E++A
Sbjct: 483 VAHSGIFSSFDVSRVDAEQMVLTARLKAGWITEEELA 519


>gi|222084328|ref|YP_002542857.1| N-utilization substance protein A [Agrobacterium radiobacter K84]
 gi|221721776|gb|ACM24932.1| N-utilization substance protein A [Agrobacterium radiobacter K84]
          Length = 534

 Score =  704 bits (1818), Expect = 0.0,   Method: Composition-based stats.
 Identities = 358/524 (68%), Positives = 436/524 (83%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK IDR++VL+ MAD+IQKAARS YGT S+IR +INP+TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKVIDREIVLAAMADAIQKAARSRYGTESNIRADINPKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE+ E+Y+ QI L++ARDR+P   +G  ++DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVEKAEDYSTQIPLELARDRNPDAALGDFIADPLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQ+ EFKD+VGEI++GTVKRVEYGNVIVDLG  +G+IRRDE I REN R GDR
Sbjct: 123 VREAERDRQFDEFKDRVGEIVNGTVKRVEYGNVIVDLGRGEGIIRRDEMIPRENFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+QVK+V+RDPGSRAK+AV
Sbjct: 183 VRAYVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIQVKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS + A FV+NAL+PA V+KVVL
Sbjct: 243 ISNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSNEPANFVVNALQPAEVSKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+FNERT  
Sbjct: 303 DEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDIMTEAEESERRQKEFNERTNL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM A++VDE++  +L +EGFA VEELA V++ EIASI+GFDEETA EIQ RAREYLE ++
Sbjct: 363 FMDALDVDEMVGQVLASEGFAAVEELAYVELDEIASIDGFDEETAQEIQQRAREYLERLE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             + +K + LGV++EL  I G+ +++ VALGE+GIKT+ED AGC+ DDL+GWSE K G  
Sbjct: 423 AEMDEKRKALGVADELRQINGMTAQMMVALGEDGIKTIEDFAGCAADDLVGWSERKNGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
           +KF+G  S L   + + E MI+ AR   GWI +  +A+E  + A
Sbjct: 483 KKFEGLFSKLEISRVEAEQMIVQARLSAGWITEADLANETEEVA 526


>gi|315122010|ref|YP_004062499.1| transcription elongation factor NusA [Candidatus Liberibacter
           solanacearum CLso-ZC1]
 gi|313495412|gb|ADR52011.1| transcription elongation factor NusA [Candidatus Liberibacter
           solanacearum CLso-ZC1]
          Length = 536

 Score =  704 bits (1817), Expect = 0.0,   Method: Composition-based stats.
 Identities = 449/525 (85%), Positives = 490/525 (93%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           +VSANRLELLQIADAVA EKSIDRDVVLSVMA+SIQKAARSLYGT+SDIRVEIN ETG+I
Sbjct: 2   VVSANRLELLQIADAVACEKSIDRDVVLSVMAESIQKAARSLYGTLSDIRVEINRETGNI 61

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           S+ R LEVVEEVENY CQISL++ARDRDP+I+IG V+ DPLPP+DFGRVAVQSAKQVIIQ
Sbjct: 62  SICRSLEVVEEVENYACQISLQLARDRDPNINIGDVLFDPLPPIDFGRVAVQSAKQVIIQ 121

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG+SDGVIRRDETISRENLR GD
Sbjct: 122 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGHSDGVIRRDETISRENLRLGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV+SYIYDVRREQRGPQVLLSRTHPQFMVKLF++EVPEIYNGIVQ+KAVSRDPGSRAKLA
Sbjct: 182 RVRSYIYDVRREQRGPQVLLSRTHPQFMVKLFYLEVPEIYNGIVQIKAVSRDPGSRAKLA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           VFSSDSSIDPVGACVGMRGSRVQAVV ELRDEKIDIVVWSPD ATFVIN+LRPAIVTKVV
Sbjct: 242 VFSSDSSIDPVGACVGMRGSRVQAVVGELRDEKIDIVVWSPDPATFVINSLRPAIVTKVV 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDEDVGRIEV+VPK+QLSLAIGRRGQNVRLASQLTGW IDI+TEEEDS+NRQK FNERTQ
Sbjct: 302 LDEDVGRIEVVVPKDQLSLAIGRRGQNVRLASQLTGWAIDIVTEEEDSVNRQKHFNERTQ 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
           FFMQAINVDEII HLL AEGF+D+EELACVK+SEIASIEGFDEETA EIQGRAREY+EG+
Sbjct: 362 FFMQAINVDEIIGHLLAAEGFSDIEELACVKLSEIASIEGFDEETASEIQGRAREYMEGL 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           ++  ++KI+ LGVSEEL SIPG++++I VALGENGIKTMEDLAGCSVDDLLGW E K G 
Sbjct: 422 EVARREKIKGLGVSEELFSIPGMNTEIGVALGENGIKTMEDLAGCSVDDLLGWGEVKNGK 481

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
           +E F+GFLS LG  K+Q ESMIIHARY +GWI +E +ADE V  A
Sbjct: 482 VENFEGFLSQLGVLKEQAESMIIHARYHLGWIVREDIADESVDCA 526


>gi|110636252|ref|YP_676460.1| transcription elongation factor NusA [Mesorhizobium sp. BNC1]
 gi|110287236|gb|ABG65295.1| NusA antitermination factor [Chelativorans sp. BNC1]
          Length = 534

 Score =  703 bits (1816), Expect = 0.0,   Method: Composition-based stats.
 Identities = 335/516 (64%), Positives = 416/516 (80%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSID+ +V+  MAD+IQKAARS YG  ++IR +IN +TG++ 
Sbjct: 3   VSANRLELLQIADAVAREKSIDKTIVIQAMADAIQKAARSRYGQETNIRADINAQTGEMK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RL+EVVE VE    QIS+  AR R+P    G  +++ LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLMEVVENVEEPARQISIVDARTRNPDAQAGDFIAEQLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD+VGEI++GTVKRVEYGNVIVDLG  +G+IRRDE I RE+ + GDR
Sbjct: 123 VREAERDRQYEEYKDRVGEIVNGTVKRVEYGNVIVDLGRGEGIIRRDELIPRESFKYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 VRAYVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ ++A+F++NAL+PA V+KVVL
Sbjct: 243 ISHDSSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWNENAASFIVNALQPAEVSKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TEEE+S  RQK+F ER+  
Sbjct: 303 DEDAERIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEEEESQRRQKEFTERSNL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM A+NVDE++  +L +EGF  VEE+A V   EI+SI+GFDE+TA EIQ RAREYLE I+
Sbjct: 363 FMDALNVDEMVGQVLASEGFTSVEEIAYVDADEISSIDGFDEDTAEEIQARAREYLERIE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                K RELGVS++L  IPG+ + + V LGE+G+KT+ED AG +VDDL+GW E K G  
Sbjct: 423 AERDAKRRELGVSDDLREIPGMTTAMMVKLGEDGVKTIEDFAGYAVDDLVGWRERKDGEN 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
           + F G  S L   + + E M++ AR KMGWI ++ +
Sbjct: 483 KFFPGVFSDLDLSRAEAEQMVVAARLKMGWISEDDL 518


>gi|319779771|ref|YP_004139247.1| transcription termination factor NusA [Mesorhizobium ciceri biovar
           biserrulae WSM1271]
 gi|317165659|gb|ADV09197.1| transcription termination factor NusA [Mesorhizobium ciceri biovar
           biserrulae WSM1271]
          Length = 531

 Score =  702 bits (1813), Expect = 0.0,   Method: Composition-based stats.
 Identities = 335/522 (64%), Positives = 423/522 (81%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           +VSANRLELLQIADAVA EKSID+ +V++ MAD+IQKAARS YG  ++IR +INP TG++
Sbjct: 2   VVSANRLELLQIADAVAREKSIDKSIVIAAMADAIQKAARSRYGQETNIRADINPNTGEM 61

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            L RL+EVVE+V++Y  QI++  AR+R+P   +G  +++ LPPMDFGR+A QSAKQVI+Q
Sbjct: 62  KLQRLMEVVEKVDDYATQIAISSARERNPDAQLGDFIAEQLPPMDFGRIAAQSAKQVIVQ 121

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVREAERDRQY E+KD++GEI++GTVKRVEYGNVIVDLG  + +IRRDE I REN + GD
Sbjct: 122 KVREAERDRQYDEYKDRIGEIVNGTVKRVEYGNVIVDLGRGEAIIRRDELIPRENYKYGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV++Y+YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+A
Sbjct: 182 RVRAYVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSP +A+F++NAL+PA V KVV
Sbjct: 242 VISRDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSPSAASFIVNALQPAEVAKVV 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F ER+ 
Sbjct: 302 LDEDAERIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESERRQKEFVERSS 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+A++VDE++  +L +EGF  VEE+A V   EIASI+GFDE+TA EIQ RAREYLE I
Sbjct: 362 LFMEALDVDEMVGQVLASEGFTSVEEVAYVDSGEIASIDGFDEDTASEIQTRAREYLEKI 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +     K + LGVS+EL  IPG+ + + V LGE+G+KT+ED AG + DDL GW E K G 
Sbjct: 422 EAEHDDKRKALGVSDELREIPGVTTAMMVTLGEDGVKTIEDFAGYAADDLTGWKERKDGE 481

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEV 522
            + + G L++ G  +   E M++ AR K GWI ++++A EEV
Sbjct: 482 TKVYPGVLANHGVTRADAEQMVLAARLKAGWITEDELAAEEV 523


>gi|222147147|ref|YP_002548104.1| transcription elongation factor NusA [Agrobacterium vitis S4]
 gi|221734137|gb|ACM35100.1| N-utilization substance protein A [Agrobacterium vitis S4]
          Length = 538

 Score =  702 bits (1813), Expect = 0.0,   Method: Composition-based stats.
 Identities = 349/512 (68%), Positives = 424/512 (82%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK IDR++VL+ MAD+IQKAARS YG+ ++IR +IN +TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKVIDREIVLAAMADAIQKAARSRYGSETNIRADINSKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE VE+Y  QI+L++ARDR+    +G  ++DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVETVEDYGTQIALELARDRNVDAKLGDYIADPLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQ+ EFKD+VGEII+GTVKRVEYGNVIVDLG  +G+IRRDE I RE +R GDR
Sbjct: 123 VREAERDRQFDEFKDRVGEIINGTVKRVEYGNVIVDLGRGEGIIRRDEMIPRETMRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+G++Q+K+V+RDPGSRAK+AV
Sbjct: 183 VRAYVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGVIQIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D A+F++NAL+PA V KVVL
Sbjct: 243 ISNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSADPASFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+FNERT  
Sbjct: 303 DEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDIMTEAEESERRQKEFNERTNL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM A++VDE++  +L +EGFA VEELA V + EIASI+GFD +TA EIQ RAREYLE ++
Sbjct: 363 FMDALDVDEMVGQVLASEGFAQVEELAYVDLEEIASIDGFDGDTAEEIQTRAREYLEKLE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L  K + LGVS+EL SI G+ +++ VALG +GIKT+ED AGC+ DDL+GWSE K G  
Sbjct: 423 AELDAKRKALGVSDELRSIDGMTTQMLVALGGDGIKTVEDFAGCAADDLIGWSERKDGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           +KF+G  S +   + + E MI+ AR   GWI 
Sbjct: 483 KKFEGLFSKIDISRTEAEQMIVQARLAAGWIT 514


>gi|150398625|ref|YP_001329092.1| transcription elongation factor NusA [Sinorhizobium medicae WSM419]
 gi|150030140|gb|ABR62257.1| NusA antitermination factor [Sinorhizobium medicae WSM419]
          Length = 552

 Score =  702 bits (1813), Expect = 0.0,   Method: Composition-based stats.
 Identities = 356/518 (68%), Positives = 439/518 (84%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK IDR++VL+ MAD+IQKAARS YG+ S+IR +INP+TG+I 
Sbjct: 13  VSANRLELLQIADAVAREKVIDREIVLAAMADAIQKAARSRYGSESNIRADINPKTGEIR 72

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE+ E+Y+ QI +++ARDR+P   +G  ++DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 73  LQRLLEVVEKAEDYSTQIPIELARDRNPDAKLGDFIADPLPPMDFGRIAAQSAKQVIVQK 132

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD+VGEI++GTVKRVEYGNVIVDLG  +G+IRRDE I REN+R GDR
Sbjct: 133 VREAERDRQYDEFKDRVGEIVNGTVKRVEYGNVIVDLGRGEGIIRRDEMIPRENMRYGDR 192

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++++YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+G++Q+K+V+RDPGSRAK+AV
Sbjct: 193 VRAFVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGVIQIKSVARDPGSRAKIAV 252

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD A+F++NAL+PA V KVVL
Sbjct: 253 VSNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSPDPASFIVNALQPAEVAKVVL 312

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+FNERTQ 
Sbjct: 313 DEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDILTEQEESERRQKEFNERTQL 372

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A++VDE++  +L +EGFA VEELA V + EIASIEGFDEET+ EIQ RAREYLE I+
Sbjct: 373 FMEALDVDEMVGQVLASEGFAQVEELAYVDLDEIASIEGFDEETSNEIQTRAREYLEKIE 432

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             +  K +ELGV++EL +I G++S++ VALGE GIKT+ED AGC+ DDL+GW E K G  
Sbjct: 433 AEMDAKRKELGVADELRTINGLNSQMLVALGEEGIKTIEDFAGCAADDLVGWVERKDGET 492

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVAD 519
           ++F+G  S L   +++ E+MI+ AR   GWI +E +A 
Sbjct: 493 KRFEGTFSKLEVTREEAEAMIVQARLAAGWITEEDLAK 530


>gi|254718200|ref|ZP_05180011.1| transcription elongation factor NusA [Brucella sp. 83/13]
 gi|265983158|ref|ZP_06095893.1| transcription elongation factor NusA [Brucella sp. 83/13]
 gi|306837714|ref|ZP_07470583.1| transcription termination factor NusA [Brucella sp. NF 2653]
 gi|306842729|ref|ZP_07475371.1| transcription termination factor NusA [Brucella sp. BO2]
 gi|306843580|ref|ZP_07476181.1| transcription termination factor NusA [Brucella sp. BO1]
 gi|264661750|gb|EEZ32011.1| transcription elongation factor NusA [Brucella sp. 83/13]
 gi|306276271|gb|EFM57971.1| transcription termination factor NusA [Brucella sp. BO1]
 gi|306287073|gb|EFM58578.1| transcription termination factor NusA [Brucella sp. BO2]
 gi|306407272|gb|EFM63482.1| transcription termination factor NusA [Brucella sp. NF 2653]
          Length = 537

 Score =  702 bits (1813), Expect = 0.0,   Method: Composition-based stats.
 Identities = 341/522 (65%), Positives = 423/522 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR++VL+ MAD+IQKAARS YG  S+IR +IN ++G+I 
Sbjct: 3   VSANRLELLQIADAVAREKSIDREIVLAAMADAIQKAARSRYGQESNIRADINAKSGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE VE+Y  QISL +ARDR+P   +G  ++D LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVENVEDYATQISLFMARDRNPDAQVGDFIADQLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD+VGEI++GTVKRVEYGNVIVDLG  + ++RRDE I RE  R GDR
Sbjct: 123 VREAERDRQYDEYKDRVGEIVNGTVKRVEYGNVIVDLGRGEAIVRRDELIPREAFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++Y+YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAYVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+A+F++NAL+PA V KVVL
Sbjct: 243 VSRDASIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAASFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER+  
Sbjct: 303 DEDAERIEVVVPNDQLSLAIGRRGQNVRLASQLTGWDIDILTEDEESERRQKEFAERSNL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+NVDE++  +L +EGFA VEELA V   EI+SI+GFDE+TA EIQ RAREYLE I+
Sbjct: 363 FMEALNVDEMVGQVLASEGFASVEELAYVDAGEISSIDGFDEDTAGEIQDRAREYLERIE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                + +ELGV++EL  +PG+ + + VA+GE+G+KTMED AG +VDDL+GW E K G+ 
Sbjct: 423 AEQDARRKELGVADELRELPGMTTAMLVAVGEDGVKTMEDFAGYAVDDLVGWRERKDGDT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQ 523
               G L+     +   E M++ AR K GWI +E++A     
Sbjct: 483 INHSGVLTPFDLSRVDAEQMVLAARLKAGWITEEELAAASED 524


>gi|325291533|ref|YP_004277397.1| transcription elongation factor NusA [Agrobacterium sp. H13-3]
 gi|325059386|gb|ADY63077.1| transcription elongation factor NusA [Agrobacterium sp. H13-3]
          Length = 538

 Score =  701 bits (1811), Expect = 0.0,   Method: Composition-based stats.
 Identities = 353/524 (67%), Positives = 436/524 (83%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK IDR++VL+ MAD+IQKAARS YG+ ++IR +IN +TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKVIDREIVLAAMADAIQKAARSRYGSETNIRADINSKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE  E+Y+ QI L++ARDR+P   +G  ++DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVETAEDYSTQIPLELARDRNPDAKLGDFIADPLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++GEI++GTVKRVEYGNVIVDLG  +G+IRRDE I REN+R GDR
Sbjct: 123 VREAERDRQYDEFKDRIGEIVNGTVKRVEYGNVIVDLGRGEGIIRRDEMIPRENMRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+Q+K+V+RDPGSRAK+AV
Sbjct: 183 VRAYVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIQIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS + A+F++NAL+PA V KVVL
Sbjct: 243 ISNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSQEPASFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+FNERT  
Sbjct: 303 DEESERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDIMTEQEESERRQKEFNERTAL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM A++VDE++  +L +EGFA VEELA V + EI+SI+GFD++TA EIQ RAREYLE ++
Sbjct: 363 FMDALDVDEMVGQVLASEGFAQVEELAYVDLGEISSIDGFDDDTADEIQTRAREYLERLE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             +  K +ELGV++EL  I G+ S++ VALGE+GIKT+ED AGC+ DDL+GWSE K G  
Sbjct: 423 AEMDAKRKELGVADELRQIEGLTSQMMVALGEDGIKTIEDFAGCAADDLVGWSERKDGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
           +KF+G  S L   + + E+M++ AR   GWI  E +A EE  DA
Sbjct: 483 KKFEGIFSKLDVSRVEAENMVVQARLLAGWITAEDLASEEEVDA 526


>gi|15887443|ref|NP_353124.1| transcription elongation factor NusA [Agrobacterium tumefaciens
           str. C58]
 gi|15154956|gb|AAK85909.1| N-utilization substance protein A [Agrobacterium tumefaciens str.
           C58]
          Length = 538

 Score =  701 bits (1809), Expect = 0.0,   Method: Composition-based stats.
 Identities = 349/516 (67%), Positives = 432/516 (83%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK IDR++VL+ MAD+IQKAARS YG+ ++IR +IN +TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKVIDREIVLAAMADAIQKAARSRYGSETNIRADINSKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE  E+Y+ QI L++ARDR+P   +G  ++DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVEAAEDYSTQIPLELARDRNPDAKLGDFIADPLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++GEI++GTVKRVEYGNVIVDLG  +G+IRRDE I REN+R GDR
Sbjct: 123 VREAERDRQYDEFKDRIGEIVNGTVKRVEYGNVIVDLGRGEGIIRRDEMIPRENMRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+Q+K+V+RDPGSRAK+AV
Sbjct: 183 VRAYVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIQIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS + A+F++NAL+PA V KVVL
Sbjct: 243 ISNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSQEPASFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+FNERT  
Sbjct: 303 DEESERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDIMTEQEESERRQKEFNERTAL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A++VDE++  +L +EGFA VEELA V + EI SI+GFDE+TA EIQ RAREYLE ++
Sbjct: 363 FMEALDVDEMVGQVLASEGFAQVEELAYVDLDEITSIDGFDEDTADEIQTRAREYLERLE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             +  K +ELGV++EL  I G+ S++ VALGE+GIKT+ED AGC+ DDL+GWSE K G  
Sbjct: 423 AEMDAKRKELGVTDELRQIDGLTSQMMVALGEDGIKTIEDFAGCAADDLVGWSERKDGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
           +KF+G  S L   + + E+M++ AR   GWI  E++
Sbjct: 483 KKFEGIFSKLDVSRVEAENMVVQARLLAGWITAEEL 518


>gi|328545919|ref|YP_004306028.1| transcription elongation protein (N utilization substance protein
           A) (L factor) [polymorphum gilvum SL003B-26A1]
 gi|326415659|gb|ADZ72722.1| Putative transcription elongation protein (N utilization substance
           protein A) (L factor) [Polymorphum gilvum SL003B-26A1]
          Length = 544

 Score =  700 bits (1808), Expect = 0.0,   Method: Composition-based stats.
 Identities = 337/522 (64%), Positives = 422/522 (80%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIADAVA EKSIDR +V++ M D+IQKAARS YGT +++R EIN +TG+I 
Sbjct: 3   ISANRLELLQIADAVAREKSIDRGIVIAAMEDAIQKAARSRYGTETEVRAEINSKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL+VVE VEN + +ISL  A+ R+P   +G  +++PLPP+DFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLQVVETVENVSTEISLADAKARNPEATLGDFIAEPLPPLDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++GEI++G VKR EYGNVIVDLG  +G++RRDE I RE  R GDR
Sbjct: 123 VREAERDRQYDEFKDRIGEIVNGVVKRAEYGNVIVDLGRGEGIVRRDELIPREIFRTGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++YIYDVRREQRGPQ+ LSRTHPQFM KLF  EVPEIY+G++++KAV+RDPGSRAK+AV
Sbjct: 183 IRAYIYDVRREQRGPQIFLSRTHPQFMAKLFAQEVPEIYDGVIEIKAVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+PD+ATF++NAL+PA V KVVL
Sbjct: 243 ISKDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWNPDAATFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER+  
Sbjct: 303 DEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWAIDIMTEQEESERRQKEFQERSTL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+NVDE++  LL  EGF  VEE+A V + EIA IEGFDE+TA EIQ RAR+YL  ++
Sbjct: 363 FMEALNVDEMVGQLLATEGFTSVEEVAYVDLEEIAMIEGFDEDTAEEIQARARDYLAELE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L  + RELGV +EL SI G+ + + VALG++G+KT+EDLAGC+ DDL+GW+E K G  
Sbjct: 423 AKLDDERRELGVQDELRSIDGLTTAMLVALGKDGVKTIEDLAGCATDDLVGWTERKEGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQ 523
            + DG LS     +   E+MI+ AR   GWI +E++A++  +
Sbjct: 483 IRHDGALSGFDVSRADAEAMILAARLAAGWITEEELANQNDE 524


>gi|239833211|ref|ZP_04681540.1| transcription termination factor NusA [Ochrobactrum intermedium LMG
           3301]
 gi|239825478|gb|EEQ97046.1| transcription termination factor NusA [Ochrobactrum intermedium LMG
           3301]
          Length = 535

 Score =  699 bits (1805), Expect = 0.0,   Method: Composition-based stats.
 Identities = 336/512 (65%), Positives = 415/512 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR++VL+ MAD+IQKAARS YG  S+IR +IN ++G+I 
Sbjct: 3   VSANRLELLQIADAVAREKSIDREIVLAAMADAIQKAARSRYGQESNIRADINAKSGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE VE+Y  QISL  ARDR+P   IG  ++D LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVEHVEDYATQISLFTARDRNPDAQIGDFIADQLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD+VGEI++GTVKRVEYGNVIVDLG  + ++RRDE I RE  R GDR
Sbjct: 123 VREAERDRQYDEYKDRVGEIVNGTVKRVEYGNVIVDLGRGEAIVRRDELIPREAFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++Y+YDVRREQRGPQ+ LSRTHP FM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAYVYDVRREQRGPQIFLSRTHPSFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+A+F++NAL+PA V KVVL
Sbjct: 243 VSRDASIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSPDAASFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER+  
Sbjct: 303 DEDAERIEVVVPNDQLSLAIGRRGQNVRLASQLTGWDIDILTEDEESERRQKEFAERSTL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A++VDE++  +L +EGFA +EELA V+  EIASI+GFD++TA EIQ RAREYL+ I+
Sbjct: 363 FMEALDVDEMVGQVLASEGFASIEELAYVEPGEIASIDGFDDDTAGEIQERAREYLDRIE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                + +ELGV++EL  +PGI + + VA+GE+G+KT+ED AG +VDDL+GW E K G  
Sbjct: 423 SEQDNRRKELGVADELRELPGITTAMLVAVGEDGVKTIEDFAGYAVDDLVGWRERKDGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
               G  S     +   E M++ AR K GWI 
Sbjct: 483 VAHSGIFSPFDVSRVDAEQMVLTARLKAGWIT 514


>gi|260461982|ref|ZP_05810227.1| NusA antitermination factor [Mesorhizobium opportunistum WSM2075]
 gi|259032229|gb|EEW33495.1| NusA antitermination factor [Mesorhizobium opportunistum WSM2075]
          Length = 531

 Score =  699 bits (1805), Expect = 0.0,   Method: Composition-based stats.
 Identities = 332/513 (64%), Positives = 416/513 (81%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           +VSANRLELLQIADAVA EKSID+ +V++ MAD+IQKAARS YG  ++IR +INP TG++
Sbjct: 2   VVSANRLELLQIADAVAREKSIDKSIVIAAMADAIQKAARSRYGQETNIRADINPNTGEM 61

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            L RL+EVVE+V++Y  QI++  AR+R+P   +G  +++ LPPMDFGR+A QSAKQVI+Q
Sbjct: 62  KLQRLMEVVEKVDDYATQIAISSARERNPDAQLGDFIAEQLPPMDFGRIAAQSAKQVIVQ 121

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVREAERDRQY E+KD++GEI++GTVKRVEYGNVIVDLG  + +IRRDE I REN + GD
Sbjct: 122 KVREAERDRQYDEYKDRIGEIVNGTVKRVEYGNVIVDLGRGEAIIRRDELIPRENYKYGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV++Y+YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+A
Sbjct: 182 RVRAYVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSP +A+F++NAL+PA V KVV
Sbjct: 242 VISRDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSPSAASFIVNALQPAEVAKVV 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F ER+ 
Sbjct: 302 LDEDAERIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESERRQKEFVERSA 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+A++VDE++  +L +EGF  VEE+A V   EIASI+GFDE+TA EIQ RAREYLE I
Sbjct: 362 LFMEALDVDEMVGQVLASEGFTSVEEVAYVDAGEIASIDGFDEDTASEIQTRAREYLEKI 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +     K + LGVS+EL  IPGI + + V LGE+G+KT+ED AG + DDL GW E K G 
Sbjct: 422 EAEHDDKRKALGVSDELREIPGITTAMMVTLGEDGVKTIEDFAGYAADDLTGWKERKDGE 481

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
            + + G L++ G  +   E M+++AR K GWI 
Sbjct: 482 TKVYPGVLANHGVSRADAEQMVLNARLKAGWIT 514


>gi|319408013|emb|CBI81667.1| transcription elongation protein [Bartonella schoenbuchensis R1]
          Length = 537

 Score =  699 bits (1804), Expect = 0.0,   Method: Composition-based stats.
 Identities = 333/515 (64%), Positives = 422/515 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIADAVA EKSIDR++V+S MAD+IQKAARS YG  ++IR EIN +TG+I 
Sbjct: 3   ISANRLELLQIADAVAREKSIDREIVISAMADAIQKAARSRYGQETNIRAEINSKTGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL+VV+ VE+YT +I+L  A      I IG    DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLQVVDIVEDYTNEIALSDALKHQVDIKIGDFFCDPLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AERD+Q+ EFK+KVGEIISGTVKRVEYGNVIVDLG  + +IRRDE I RE+   GDR
Sbjct: 123 VRDAERDQQFEEFKNKVGEIISGTVKRVEYGNVIVDLGRGEAIIRRDELIPRESFHYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++++ DV REQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAFVNDVHREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+ATF++NAL+PA V+KVVL
Sbjct: 243 VSRDGSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAATFIVNALQPAEVSKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW+IDI+TE+E+S NRQK+FNER++ 
Sbjct: 303 DEDAERIEVVVPDDQLSLAIGRRGQNVRLASQLTGWSIDILTEQEESENRQKEFNERSKL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM++++VDE++  ++ +EGFA +EE+A V + EIASI+GFD ETA EIQ RAREYLE  +
Sbjct: 363 FMESLDVDEMVGQVMASEGFASIEEIAYVDLEEIASIDGFDNETASEIQSRAREYLERKE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L +K ++LGV++EL S+PG+ + + VA+GE+GIKT++D AG +VDDL+GW E KGG +
Sbjct: 423 KELDEKRKKLGVADELRSLPGMTNAMLVAIGEDGIKTIDDFAGYAVDDLIGWRERKGGQV 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
           + F G L+     +   E+MI+ AR + GWI +  
Sbjct: 483 QNFSGILTPFDITRTDAEAMILAARVQAGWICQTD 517


>gi|319403631|emb|CBI77216.1| transcription elongation protein [Bartonella rochalimae ATCC
           BAA-1498]
          Length = 537

 Score =  697 bits (1799), Expect = 0.0,   Method: Composition-based stats.
 Identities = 324/526 (61%), Positives = 418/526 (79%), Gaps = 1/526 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIADAVA EKSIDR++V+S MAD+IQKAARS YG  ++IR EIN +TG+I 
Sbjct: 3   ISANRLELLQIADAVAREKSIDREIVISAMADAIQKAARSRYGQETNIRAEINSKTGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL+VV+ VE+YT +I+L  A  R     +G  +SD LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLKVVDVVEDYTTEIALSDALKRKEDAKVGDFLSDLLPPMDFGRIATQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+ Q+ EFK+K+GEIISGTVKRVEYGNVIVD+G  + ++RRDE I RE+   GDR
Sbjct: 123 VRDAERNHQFEEFKNKIGEIISGTVKRVEYGNVIVDIGRGEAIVRRDELIPRESFHYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++++++DV RE RGPQV LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAFVHDVHREPRGPQVFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+ATF++NAL+PA V+KVVL
Sbjct: 243 VSRDGSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAATFIVNALQPAEVSKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S NR K+F ER++ 
Sbjct: 303 DEDAERIEVVVPGDQLSLAIGRRGQNVRLASQLTGWNIDILTEQEESENRHKEFTERSKL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+ ++VDE++  ++ +EGF  +EE+A V + EI SI+GFD +TA EIQ RAREYLE  +
Sbjct: 363 FMETLDVDEMVGQVMASEGFTSIEEIAYVNLEEIESIDGFDHDTASEIQNRAREYLERKE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L +K +ELGVS+EL ++PGI + + V +GE+G+KT+ED AG +VDDL+GW E K G  
Sbjct: 423 KELNEKRKELGVSDELQTLPGITNAMLVVIGEDGVKTIEDFAGYAVDDLVGWRECKEGQT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV-ADEEVQDAS 526
           + F G L+     +   E+M++ AR + GWI +  +     V+D +
Sbjct: 483 QNFPGILTPFDITRADAEAMVLAARVQAGWINQADLIKQHPVEDEA 528


>gi|13474627|ref|NP_106196.1| transcription elongation factor NusA [Mesorhizobium loti
           MAFF303099]
 gi|14025381|dbj|BAB51982.1| N utilization substance protein A [Mesorhizobium loti MAFF303099]
          Length = 531

 Score =  696 bits (1797), Expect = 0.0,   Method: Composition-based stats.
 Identities = 330/512 (64%), Positives = 416/512 (81%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           +VSANRLELLQIADAVA EKSID+ +V++ MAD+IQKAARS YG  ++IR +INP TG++
Sbjct: 2   VVSANRLELLQIADAVAREKSIDKSIVIAAMADAIQKAARSRYGQETNIRADINPNTGEM 61

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            L RL+EVVE+V++Y  QI++  AR+R+P   +G  +++ LPPMDFGR+A QSAKQVI+Q
Sbjct: 62  KLQRLMEVVEKVDDYATQIAISSARERNPDAQLGDFIAEQLPPMDFGRIAAQSAKQVIVQ 121

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVREAERDRQY E+KD++GEI++GTVKRVEYGNVIVDLG  + +IRRDE I REN + GD
Sbjct: 122 KVREAERDRQYDEYKDRIGEIVNGTVKRVEYGNVIVDLGRGEAIIRRDELIPRENYKYGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV++Y+YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+A
Sbjct: 182 RVRAYVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSP +A+F++NAL+PA V KVV
Sbjct: 242 VISRDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSPSAASFIVNALQPAEVAKVV 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F ER+ 
Sbjct: 302 LDEDAERIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESERRQKEFVERSA 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+A++VDE++  +L +EGF  VEE+A V   EIASI+GFD++TA EIQ RAREYLE I
Sbjct: 362 LFMEALDVDEMVGQVLASEGFTSVEEVAYVDAGEIASIDGFDDDTASEIQTRAREYLEKI 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +    +K + LGV +EL  IPGI + + V LGE+G+KT+ED AG + DDL GW E K G 
Sbjct: 422 EAEHDEKRKALGVKDELREIPGITTAMMVTLGEDGVKTIEDFAGYAADDLTGWKERKDGE 481

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
            + + G L++ G  +   E M+++AR K GWI
Sbjct: 482 TKVYPGVLANHGVSRADAEQMVLNARLKAGWI 513


>gi|121602814|ref|YP_989501.1| transcription elongation factor NusA [Bartonella bacilliformis
           KC583]
 gi|120614991|gb|ABM45592.1| transcription elongation protein nusA [Bartonella bacilliformis
           KC583]
          Length = 537

 Score =  696 bits (1796), Expect = 0.0,   Method: Composition-based stats.
 Identities = 321/523 (61%), Positives = 416/523 (79%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLE+LQIADAVA EKSIDR++V+S MAD+IQKAARS YG  ++IR EIN +TG+I 
Sbjct: 3   ISANRLEILQIADAVAREKSIDREIVISAMADAIQKAARSRYGQETNIRAEINSKTGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL++V+ VE+YT +ISL  A        IG  + D LP MDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLQIVDIVEDYTTEISLSDALKHQADAKIGDFIFDLLPSMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+ Q+ EFK+KVGEIISGTVKRVEYGNVIVDLG  + V+RRDE I  E+   GDR
Sbjct: 123 VRDAERNHQFEEFKNKVGEIISGTVKRVEYGNVIVDLGRGEAVVRRDELIPCESFHYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++++ DV RE RGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAFVNDVHREPRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+ATFV+NAL+PA V+KV+L
Sbjct: 243 VSRDGSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAATFVVNALQPAEVSKVIL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S NRQK+F ER++ 
Sbjct: 303 DEDAERIEVVVPDDQLSLAIGRRGQNVRLASQLTGWNIDILTEQEESENRQKEFTERSKL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM++++VD+I+  ++ +EGF+ +EE+A V + EIASI+GFD E A EIQ RAREYLE  +
Sbjct: 363 FMESLDVDKIVGQVMASEGFSSIEEIAYVGLDEIASIDGFDSEIATEIQKRAREYLENKE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L +K + L V++EL ++PGI + + +A+GE+G+KTM+D AG +VDDL+GW E K G  
Sbjct: 423 KELDEKRKSLCVADELQTLPGITNAMLIAIGEDGVKTMDDFAGYAVDDLVGWRERKKGQT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQD 524
           + F G L+     +   E+MI++AR + GWI +  +  E+ ++
Sbjct: 483 QNFPGILTPFDITRADAEAMILYARVQAGWITQTDLTTEDPEE 525


>gi|319405101|emb|CBI78705.1| transcription elongation protein [Bartonella sp. AR 15-3]
          Length = 537

 Score =  696 bits (1796), Expect = 0.0,   Method: Composition-based stats.
 Identities = 324/516 (62%), Positives = 416/516 (80%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIADAVA EKSIDR++V+S MAD+IQKAARS YG  ++IR EIN +TG+I 
Sbjct: 3   ISANRLELLQIADAVAREKSIDREIVISAMADAIQKAARSRYGQETNIRAEINSKTGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL+VV+ VE+YT +I+L  A  R     +G  +SD LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLKVVDIVEDYTTEIALSDALKRKEDAKVGDFLSDLLPPMDFGRIATQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+ Q+ EFK+K+GEIISGTVKRVEYGNVIVD+G  + ++RRDE I RE+ R GDR
Sbjct: 123 VRDAERNHQFEEFKNKIGEIISGTVKRVEYGNVIVDIGRGEAIVRRDELIPRESFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++++++DV RE RGPQV LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAFVHDVHREPRGPQVFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+ATF++NAL+PA V+KVVL
Sbjct: 243 VSRDGSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAATFIVNALQPAEVSKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S NR K+F+ER++ 
Sbjct: 303 DEDAERIEVVVPDDQLSLAIGRRGQNVRLASQLTGWNIDILTEQEESENRHKEFSERSKL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+ ++VDE++  ++ +EGF  +EE+A V + EI SI+GFD +TA EIQ RAR+YLE  +
Sbjct: 363 FMETLDVDEMVGQVMASEGFISIEEIAYVDLEEIKSIDGFDHDTASEIQNRARKYLERKE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L +K ++LGVS+EL  +PGI + + VA+GE+GIKTMED AG +VDDL+GW E K G  
Sbjct: 423 KELNEKRKKLGVSDELQLLPGITNAMLVAIGEDGIKTMEDFAGYAVDDLVGWREFKEGQT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
           + F G L+     +   E+M++ AR + GWI +  +
Sbjct: 483 QNFPGILTPFDVTRADAEAMVLAARVQAGWINQTDL 518


>gi|49475029|ref|YP_033070.1| transcription elongation factor NusA [Bartonella henselae str.
           Houston-1]
 gi|49237834|emb|CAF27029.1| N utilization substance protein A [Bartonella henselae str.
           Houston-1]
          Length = 528

 Score =  696 bits (1796), Expect = 0.0,   Method: Composition-based stats.
 Identities = 325/523 (62%), Positives = 419/523 (80%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
            SANRLE+LQIADAVA EKSIDR++V+S MAD+IQKAARS YG  ++IR EIN +TG+I 
Sbjct: 3   TSANRLEILQIADAVAREKSIDREIVISAMADAIQKAARSRYGQETNIRAEINSKTGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL++V+ +E+YT +I+L  A  R     +G   +D LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLKIVDIIEDYTSEITLSDALKRQADAKVGDFFADLLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER++QY EFK+K+GEIISGTVKRVEYGNVIVDLG  + ++RRDE I RE+ R GDR
Sbjct: 123 VRDAEREQQYEEFKNKIGEIISGTVKRVEYGNVIVDLGRGEAIVRRDELIPRESFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++++++DV RE RGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAFVHDVHREPRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+ATF++NAL+PA V+KVVL
Sbjct: 243 VSRDGSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAATFIVNALQPAEVSKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEVIVP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S NRQK+F ER++ 
Sbjct: 303 DEDAERIEVIVPDDQLSLAIGRRGQNVRLASQLTGWNIDILTEQEESENRQKEFTERSKL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM++++VDE+I  ++ +EGF+ +EE+A + + EIASI+GFD ETA EIQ RA+EYLE  +
Sbjct: 363 FMESLDVDEMIGQVMASEGFSSIEEIAYIDLEEIASIDGFDHETAAEIQNRAQEYLERKE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L +K ++LGV +EL  +PG+ S + VA+GE+G+KTMED AG +VDDL GW E K G  
Sbjct: 423 KELDEKRKKLGVCDELRMLPGMTSAMLVAIGEDGVKTMEDFAGYAVDDLAGWRERKEGQT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQD 524
           + F G L+     +   E+M++ AR + GWI +  +  E   +
Sbjct: 483 QNFSGILTPFDITRADAEAMVLAARVQAGWINQADLVTENSAE 525


>gi|146337225|ref|YP_001202273.1| transcription elongation factor NusA [Bradyrhizobium sp. ORS278]
 gi|146190031|emb|CAL74023.1| Transcription elongation protein nusA (N utilization substance
           protein A) (L factor) [Bradyrhizobium sp. ORS278]
          Length = 535

 Score =  694 bits (1793), Expect = 0.0,   Method: Composition-based stats.
 Identities = 328/528 (62%), Positives = 410/528 (77%), Gaps = 3/528 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR +V++ M D+I KAAR+ YG+ +D+  EI+P  G++ 
Sbjct: 3   VSANRLELLQIADAVAREKSIDRGIVIAAMEDAIAKAARARYGSETDVHAEIDPRKGELR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VVE+VEN + QISL  AR  +P   IG  ++D LPP+++GR+A QSAKQVI+QK
Sbjct: 63  LSRHMLVVEKVENPSNQISLDDARRANPGAQIGDTIADTLPPLEYGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++G+I++G VKRVEYG+VI+DLG  + +IRRDE + RE  R GDR
Sbjct: 123 VREAERDRQYQEFKDRIGDIVNGVVKRVEYGSVILDLGRGEAIIRRDEMLPREVFRNGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y++DVRRE RGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 183 VRAYVFDVRRETRGPQIFLSRTHPQFMAKLFAQEVPEIYDGIVEIKAVARDPGSRAKIGV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V KVV+
Sbjct: 243 VSRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVAKVVI 302

Query: 302 DEDVGRIEVIVPK--EQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           DED  RIEV+VP    QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQ DF   T
Sbjct: 303 DEDRERIEVVVPDTNNQLSLAIGRRGQNVRLASQLTGWDIDILTEQEESERRQADFENST 362

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM+++NVDE++  LL +EGF  VEELA V + ++ASIEGFDEETA E+Q RARE+LE 
Sbjct: 363 RVFMESLNVDEVVGQLLASEGFTSVEELALVDLKDLASIEGFDEETATELQTRAREFLEQ 422

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK-G 478
            +  L+ K +ELGV + L  +PG+ SK+ V  GEN IKT++DLAGC+ DDL+GW E K G
Sbjct: 423 QEAELEAKRKELGVEDALKDVPGVTSKMLVKFGENDIKTVDDLAGCATDDLVGWVERKDG 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDAS 526
           G   KF G L  L   +D  E+M++ AR K GWI +  +A  E +D +
Sbjct: 483 GEQTKFAGILDGLDVSRDDAEAMVMQARVKAGWITEADLAKGEAEDEA 530


>gi|319406547|emb|CBI80189.1| transcription elongation protein [Bartonella sp. 1-1C]
          Length = 537

 Score =  693 bits (1790), Expect = 0.0,   Method: Composition-based stats.
 Identities = 323/516 (62%), Positives = 414/516 (80%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIADAVA EKSIDR++V+S MAD+IQKAARS YG  ++IR EIN +TG+I 
Sbjct: 3   ISANRLELLQIADAVAREKSIDREIVISAMADAIQKAARSRYGQETNIRAEINSKTGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL+VV+ VE+YT +I+L  A  R     +G  +SD LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLKVVDVVEDYTTEIALSDALKRKEDAKVGDFLSDLLPPMDFGRIATQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+ Q+ EFK+K+GEIISGTVKRVEYGNVIVD+G  + ++RRDE I RE+   GDR
Sbjct: 123 VRDAERNHQFEEFKNKIGEIISGTVKRVEYGNVIVDIGRGEAIVRRDELIPRESFHYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++++++DV RE RGPQV LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAFVHDVHREPRGPQVFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+ATFV+NAL+PA V+KVVL
Sbjct: 243 VSRDGSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAATFVVNALQPAEVSKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S NR K+F ER++ 
Sbjct: 303 DEDAERIEVVVPSDQLSLAIGRRGQNVRLASQLTGWNIDILTEQEESENRHKEFTERSKL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+ ++VDE++  ++ +EGF  +EE+A V + EI SI+GFD +TA EIQ RAREYLE  +
Sbjct: 363 FMETLDVDEMVGQVMASEGFTSIEEIAYVNLEEIESIDGFDHDTASEIQNRAREYLEHKE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L +K +ELGVS+EL ++P I + + VA+GE+G+KT+ED AG +VDDL+GW E K G  
Sbjct: 423 KELNEKRKELGVSDELQTLPSITNAMLVAIGEDGVKTIEDFAGYAVDDLVGWRECKEGQT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
           + F G L+     +   E+M++ AR + GWI +  +
Sbjct: 483 QNFPGILTPFDITRADAEAMVLAARVQAGWINQADL 518


>gi|298293854|ref|YP_003695793.1| transcription termination factor NusA [Starkeya novella DSM 506]
 gi|296930365|gb|ADH91174.1| transcription termination factor NusA [Starkeya novella DSM 506]
          Length = 536

 Score =  693 bits (1789), Expect = 0.0,   Method: Composition-based stats.
 Identities = 319/512 (62%), Positives = 399/512 (77%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           +VSANRLELLQIADAVA EKSIDR +V++ M D+I KAARS YG  +DI  EI+P TG++
Sbjct: 3   VVSANRLELLQIADAVAREKSIDRSIVIAAMEDAIAKAARSRYGAETDIHAEISPRTGEL 62

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            L R L VV++V+N   +I L  AR  +P+  +G  ++D LPP DFGR+A QSAKQVI+Q
Sbjct: 63  RLARHLLVVDQVDNPAVEIDLDGARRLNPAAQVGDSIADTLPPFDFGRIAAQSAKQVIVQ 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVREAERDRQY E+KD++GEI +G VKRVEYGNV+VDLG  +  +RRDE + RE  + GD
Sbjct: 123 KVREAERDRQYEEYKDRIGEITNGAVKRVEYGNVVVDLGRGEASLRRDELLPREVFKTGD 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+++Y+YDVRREQRGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+A
Sbjct: 183 RIRAYVYDVRREQRGPQIFLSRTHPQFMAKLFAQEVPEIYDGIVEIKAVARDPGSRAKIA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATF++NAL PA V KVV
Sbjct: 243 VTSRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDVATFIVNALAPAEVVKVV 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDED  RIEV+VP  QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F ERT+
Sbjct: 303 LDEDRERIEVVVPDAQLSLAIGRRGQNVRLASQLTGWDIDIMTEAEESERRQKEFAERTK 362

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F +A+++DE++  LL +EGFA VEE+A V ++E+ASIEGFDE+TA E+Q RA  +L  I
Sbjct: 363 MFAEALDLDEMMGQLLASEGFASVEEIAYVPVNELASIEGFDEDTAQELQNRALNHLAQI 422

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +  L  + +ELGV + L  +PG+ S + VA GEN IKT+EDLAGC+ DDL GW+E K G 
Sbjct: 423 EADLDARRKELGVEDALREVPGVTSAMLVAFGENDIKTVEDLAGCATDDLTGWTERKDGE 482

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
             +  G L      ++  E++I+ AR + GWI
Sbjct: 483 TVRIAGALDGFDLSREDAEALIMQARVRAGWI 514


>gi|158421642|ref|YP_001522934.1| transcription elongation factor NusA [Azorhizobium caulinodans ORS
           571]
 gi|158328531|dbj|BAF86016.1| transcription termination factor [Azorhizobium caulinodans ORS 571]
          Length = 532

 Score =  693 bits (1789), Expect = 0.0,   Method: Composition-based stats.
 Identities = 320/512 (62%), Positives = 404/512 (78%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK+IDR +V++ M D+I KAARS YG  +DI  EINP TG++ 
Sbjct: 4   VSANRLELLQIADAVAREKTIDRGIVIAAMEDAIAKAARSRYGQETDIHAEINPRTGELR 63

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R L VV+EVEN   +I+L  AR  +P+  +G  ++D LPP DFGR+A QSAKQVI+QK
Sbjct: 64  LARHLLVVDEVENSATEITLDGARRHNPAAQVGDTIADTLPPFDFGRIAAQSAKQVIVQK 123

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++ E+++G VKRVEYGNV+VDLG  + ++RRDE + RE ++ GDR
Sbjct: 124 VREAERDRQYDEFKDRISEVVNGLVKRVEYGNVVVDLGRGEAILRRDELLPREVVKTGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++YIYDVRRE RGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+AV
Sbjct: 184 IRAYIYDVRREPRGPQIFLSRTHPQFMAKLFAQEVPEIYDGIVEIKAVARDPGSRAKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D S+DPVGACVGMRGSRVQAVV EL+ EKIDI+ W+PD ATF++NAL PA V KVVL
Sbjct: 244 ISRDQSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNPDIATFIVNALAPAEVVKVVL 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP  QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ERT+ 
Sbjct: 304 DEDRERIEVVVPDAQLSLAIGRRGQNVRLASQLTGWDIDILTEQEESERRQKEFAERTKM 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F +A+++DE++  LL +EGF  VEE+A V +SE+ASIEGFDEETA E+Q RA ++L  ++
Sbjct: 364 FAEALDLDEMMGQLLTSEGFTSVEEIAYVPVSELASIEGFDEETAAELQARALKHLSDVE 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L  + RELGV ++L ++PG+ SK+ VA G+N IK++EDLAGC+ DDL+GW+E K G  
Sbjct: 424 EALDNERRELGVEDDLKTVPGVTSKMLVAFGKNDIKSVEDLAGCATDDLVGWTERKDGET 483

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
            +F G L      ++  ES+I+ AR   GWI 
Sbjct: 484 VRFPGALDGFELSREDAESLIMQARIAAGWIS 515


>gi|163867513|ref|YP_001608712.1| transcription elongation factor NusA [Bartonella tribocorum CIP
           105476]
 gi|161017159|emb|CAK00717.1| transcription elongation protein [Bartonella tribocorum CIP 105476]
          Length = 543

 Score =  692 bits (1788), Expect = 0.0,   Method: Composition-based stats.
 Identities = 330/526 (62%), Positives = 422/526 (80%), Gaps = 1/526 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
            SANRLE+LQIADAVA EKSIDR++V+S MAD+IQKAARS YG  ++IR EIN +TG+I 
Sbjct: 3   TSANRLEILQIADAVAREKSIDREIVISAMADAIQKAARSRYGQETNIRAEINSKTGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL++V+ VE+YT +I+L  A        IG   +D LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLKIVDVVEDYTTEIALSDALKCQEEAKIGDFFADLLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AERD+QY EFK+KVGEIISGTVKRVEYGNVIVDLG  + ++RRDE I RE+ R GDR
Sbjct: 123 VRDAERDQQYEEFKNKVGEIISGTVKRVEYGNVIVDLGRGEAIVRRDELIPRESFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++++ DV RE RGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAFVNDVHRETRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+ATFV+NAL+PA V+K++L
Sbjct: 243 VSRDGSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAATFVVNALQPAEVSKIIL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEVIVP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S NRQK+F ER++ 
Sbjct: 303 DEDAERIEVIVPDDQLSLAIGRRGQNVRLASQLTGWNIDILTEKEESENRQKEFTERSKL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+ VDE+I  ++ +EGF+ +EE+A + + EIASI+GFD +TA EIQ RAREYLE  +
Sbjct: 363 FMEALEVDEMIGQVMASEGFSSIEEIAYIDLEEIASIDGFDHDTASEIQSRAREYLEHQE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L  K ++LGVS+EL ++PG+ S + VA+GE+G+KT+ED AG +VDDL GW E K G  
Sbjct: 423 KELDDKRKKLGVSDELRTLPGMTSAMLVAVGEDGVKTIEDFAGYAVDDLTGWRERKEGQT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV-ADEEVQDAS 526
           + F G L+     +   E+M++ AR + GWI++  + A+  V+D +
Sbjct: 483 KSFSGVLTPFDITRADAEAMVLAARVQAGWIDQADLVAENPVEDEN 528


>gi|316931577|ref|YP_004106559.1| transcription termination factor NusA [Rhodopseudomonas palustris
           DX-1]
 gi|315599291|gb|ADU41826.1| transcription termination factor NusA [Rhodopseudomonas palustris
           DX-1]
          Length = 537

 Score =  692 bits (1788), Expect = 0.0,   Method: Composition-based stats.
 Identities = 330/527 (62%), Positives = 414/527 (78%), Gaps = 4/527 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK+IDR +V++ M D+I KAAR+ YG+ +D+  EI+P+ G++ 
Sbjct: 3   VSANRLELLQIADAVAREKTIDRGIVIAAMEDAIAKAARARYGSETDVHAEIDPKKGELR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VVE+VEN   QISLK A+  +P   IG  ++D LPP+++GR+A QSAKQVI+QK
Sbjct: 63  LSRHMLVVEQVENPANQISLKDAQRANPGAQIGDTIADTLPPLEYGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY+EFKD++G+I++G VKRVEYG+VIVDLG  + +IRRDE + RE+ R GDR
Sbjct: 123 VREAERDRQYMEFKDRIGDIVNGVVKRVEYGSVIVDLGRGEAIIRRDEMLPRESFRNGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y++DVRRE RGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 183 VRAYVFDVRRETRGPQIFLSRTHPQFMAKLFAQEVPEIYDGIVEIKAVARDPGSRAKIGV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V+KVV+
Sbjct: 243 VSRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVSKVVI 302

Query: 302 DEDVGRIEVIVPK--EQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           DED  RIEV+VP    QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQ DF + T
Sbjct: 303 DEDRERIEVVVPDTNNQLSLAIGRRGQNVRLASQLTGWDIDILTETEESERRQADFEKTT 362

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM A+NVDEI+  LL +EGF  VEELA V   E+ASIEGFDEETA E+Q RAREYL+ 
Sbjct: 363 RAFMDALNVDEIVGQLLASEGFTSVEELALVDPRELASIEGFDEETAAELQTRAREYLDQ 422

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK-G 478
           I+  L+ +  ELGV + L  +PG+ SK+ V  GEN +KT+EDLAGC+ DDL+GW+E K G
Sbjct: 423 IESELEARRTELGVEDALKDVPGVTSKMLVKFGENDVKTVEDLAGCATDDLVGWTERKDG 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA-DEEVQD 524
           G   K+ G L  +   ++  E +I+ AR K GWI++ ++A DEE  D
Sbjct: 483 GEPVKYPGILDGMELSREDAEHLIMQARVKAGWIDESELASDEEPAD 529


>gi|240849883|ref|YP_002971271.1| transcription elongation factor NusA [Bartonella grahamii as4aup]
 gi|240267006|gb|ACS50594.1| transcription elongation factor NusA [Bartonella grahamii as4aup]
          Length = 543

 Score =  692 bits (1788), Expect = 0.0,   Method: Composition-based stats.
 Identities = 328/526 (62%), Positives = 422/526 (80%), Gaps = 1/526 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
            SANRLE+LQIADAVA EKSIDR++V+S MAD+IQKAARS YG  ++IR EIN +TG+I 
Sbjct: 3   TSANRLEILQIADAVAREKSIDREIVISAMADAIQKAARSRYGQETNIRAEINSKTGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL++V+ VE+YT +I+L  A        IG   +D LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLKIVDVVEDYTTEITLSDALKHQAEAKIGDFFADLLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER++QY EFK+KVGEIISGTVKRVEYGNVIVDLG  + ++RRDE I RE+ R GDR
Sbjct: 123 VRDAEREQQYEEFKNKVGEIISGTVKRVEYGNVIVDLGRGEAIVRRDELIPRESFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++++ DV RE RGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAFVNDVHRETRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+ATFV+NAL+PA V+K++L
Sbjct: 243 VSRDGSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAATFVVNALQPAEVSKIIL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEVIVP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S NRQK+F ER++ 
Sbjct: 303 DEDAERIEVIVPDDQLSLAIGRRGQNVRLASQLTGWNIDILTEKEESENRQKEFTERSKL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+ VDE+I  ++ +EGF+ +EE+A + + EIASI+GFD +TA EIQ RAREYL+  +
Sbjct: 363 FMEALEVDEMIGQVMASEGFSSIEEIAYIDLEEIASIDGFDHDTAAEIQSRAREYLDHQE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L +K ++LGVS+EL ++PG+ S + VA+GE+G+KT+ED AG +VDDL GW E K G  
Sbjct: 423 KELDEKRKKLGVSDELRTLPGMTSAMLVAVGEDGVKTIEDFAGYAVDDLAGWRERKEGQT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADE-EVQDAS 526
           + F G L+     +   E+M++ AR + GWI++  +  E  V+D +
Sbjct: 483 QNFSGILTPFDITRADAEAMVLAARVQAGWIDQVDLVTENPVEDEN 528


>gi|217978443|ref|YP_002362590.1| NusA antitermination factor [Methylocella silvestris BL2]
 gi|217503819|gb|ACK51228.1| NusA antitermination factor [Methylocella silvestris BL2]
          Length = 532

 Score =  692 bits (1787), Expect = 0.0,   Method: Composition-based stats.
 Identities = 331/530 (62%), Positives = 416/530 (78%), Gaps = 7/530 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR +VLS M D+IQKAARS YG  +++R EINP+TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKSIDRQIVLSSMEDAIQKAARSRYGQETEVRAEINPKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             RLL VV+++EN    I+L+ AR ++P+  +G  +++ LPP DFGR+A QSAKQVI+QK
Sbjct: 63  FSRLLLVVDQIENDAIHITLEDARKKNPAAQVGDWIAETLPPFDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD++G+I++G VKRVEYGNVI+DLG  +  IRRDE I RE  RPGDR
Sbjct: 123 VREAERDRQYQEYKDRIGDIVNGVVKRVEYGNVIIDLGRGEATIRRDEMIPREMFRPGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
            ++Y+YDVRREQRGPQ+ LSRTHPQFM KLF  EVPEIY+ I+QVKAV+RDPGSRAK+AV
Sbjct: 183 ARAYVYDVRREQRGPQIFLSRTHPQFMAKLFQQEVPEIYDNIIQVKAVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+ATF++NAL+PA V KVVL
Sbjct: 243 ISRDASIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDAATFIVNALQPAEVVKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F ERT  
Sbjct: 303 DEDSARIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESERRQKEFVERTNA 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM A++VDE++  LL +EGF  VEELA V+ +E+A+IEGFDE+TAVEIQ RA++YL  I+
Sbjct: 363 FMNALDVDEVVGQLLASEGFRSVEELAFVEPAELAAIEGFDEDTAVEIQARAQDYLARIE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
               ++  ELGV++EL  + G+ + + V  GEN +KT+EDLAGC+ DDL+GW+E K G  
Sbjct: 423 AEQDQRRIELGVADELREVAGVTTAMLVKFGENDVKTVEDLAGCATDDLIGWTERKEGES 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIE-------KEKVADEEVQD 524
            K  G+L      +++ E+MI+ AR   GWI+       +E   + EV+D
Sbjct: 483 VKHAGYLDGFELTREEAETMIMTARVHAGWIDAIPQPAVEEPQLEGEVRD 532


>gi|209883664|ref|YP_002287521.1| transcription elongation factor NusA [Oligotropha carboxidovorans
           OM5]
 gi|209871860|gb|ACI91656.1| transcription elongation factor NusA [Oligotropha carboxidovorans
           OM5]
          Length = 541

 Score =  692 bits (1786), Expect = 0.0,   Method: Composition-based stats.
 Identities = 326/518 (62%), Positives = 409/518 (78%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSAN+LELLQIADAVA EKSIDR +V++ M D+I KAAR+ YG+ +D+  EI+ + G++ 
Sbjct: 4   VSANKLELLQIADAVAREKSIDRSIVIAAMEDAIAKAARARYGSETDVHAEIDSKKGELR 63

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VVE VEN   QISL+ A+  +P+  IG  ++D LPP+++GR+A QSAKQVI+QK
Sbjct: 64  LSRHMLVVETVENPANQISLEDAKRANPTAQIGDTIADTLPPLEYGRIAAQSAKQVIVQK 123

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++GEI++G VKRVEYG+VIVDLG  + ++RRDE + RE LR GDR
Sbjct: 124 VREAERDRQYQEFKDRIGEIVNGIVKRVEYGSVIVDLGRGEAIVRRDEMLPREALRNGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++YI+DVRRE RGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 184 IRAYIFDVRRETRGPQIFLSRTHPQFMAKLFAQEVPEIYDGIVEIKAVARDPGSRAKIGV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V KVV+
Sbjct: 244 ISRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVAKVVI 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP  QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQ DF   T+ 
Sbjct: 304 DEDRERIEVVVPDTQLSLAIGRRGQNVRLASQLTGWDIDILTEQEESERRQADFENSTRV 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+NVDE++  LL +EGF+ VEEL  V + E+A IEGFDEETA E+Q RAREYLE ++
Sbjct: 364 FMEALNVDEVVGQLLASEGFSSVEELVLVDVRELAGIEGFDEETANELQSRAREYLEHLE 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L+ K +ELGV + +  +PGI  KI V LGEN +KT+EDLAGC+ DDL+GW+E K G  
Sbjct: 424 AELEAKRKELGVEDAMKDVPGITGKILVKLGENDVKTVEDLAGCATDDLVGWTERKDGET 483

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVAD 519
            K DGFL +  T +D+ E++I+ AR   GWI +  +A 
Sbjct: 484 VKHDGFLDASETSRDEAEALIMQARLAAGWITEADLAK 521


>gi|39933515|ref|NP_945791.1| transcription elongation factor NusA [Rhodopseudomonas palustris
           CGA009]
 gi|39647361|emb|CAE25882.1| putative NusA protein, transcriptional termination factor
           [Rhodopseudomonas palustris CGA009]
          Length = 537

 Score =  691 bits (1785), Expect = 0.0,   Method: Composition-based stats.
 Identities = 325/524 (62%), Positives = 410/524 (78%), Gaps = 3/524 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK+IDR +V++ M D+I KAAR+ YG+ +D+  EI+P+ G++ 
Sbjct: 3   VSANRLELLQIADAVAREKTIDRSIVIAAMEDAIAKAARARYGSETDVHAEIDPKKGELR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VVE+VEN   QISLK A+  +P   IG  ++D LPP+++GR+A QSAKQVI+QK
Sbjct: 63  LSRHMLVVEQVENPANQISLKDAQRANPGAQIGDTIADTLPPLEYGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY+EFKD++G+I++G VKRVEYG+VIVDLG  + +IRRDE + RE+ R GDR
Sbjct: 123 VREAERDRQYMEFKDRIGDIVNGVVKRVEYGSVIVDLGRGEAIIRRDEMLPRESFRNGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y++DVRRE RGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 183 VRAYVFDVRRETRGPQIFLSRTHPQFMAKLFAQEVPEIYDGIVEIKAVARDPGSRAKIGV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V+KVV+
Sbjct: 243 VSRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVSKVVI 302

Query: 302 DEDVGRIEVIVPK--EQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           DED  RIEV+VP    QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQ DF + T
Sbjct: 303 DEDRERIEVVVPDTNNQLSLAIGRRGQNVRLASQLTGWDIDILTESEESERRQADFEKTT 362

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM A+NVDE++  LL +EGF  VEELA V   E+ASIEGFDEETA E+Q RA EYL+ 
Sbjct: 363 RAFMDALNVDEVVGQLLASEGFTSVEELALVDPRELASIEGFDEETAAELQTRASEYLDR 422

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           I+  L+ +  ELGV + L  +PG+ SK+ V  GEN +KT+EDLAGC+ DDL+GW+E K G
Sbjct: 423 IESELEARRLELGVEDALKDVPGVTSKMLVKFGENDVKTVEDLAGCATDDLVGWTERKDG 482

Query: 480 -NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEV 522
               K+ G L  +   ++  E +I+ AR K GWI++ ++A EE 
Sbjct: 483 AEPVKYPGILDGMEMSREDAEHLIMQARVKAGWIDESELASEED 526


>gi|254502609|ref|ZP_05114760.1| NusA N-terminal domain family [Labrenzia alexandrii DFL-11]
 gi|222438680|gb|EEE45359.1| NusA N-terminal domain family [Labrenzia alexandrii DFL-11]
          Length = 550

 Score =  691 bits (1784), Expect = 0.0,   Method: Composition-based stats.
 Identities = 333/519 (64%), Positives = 421/519 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIADAVA EKSIDR +V++ M D+IQKAARS YGT +++R EINP+TGDI 
Sbjct: 3   ISANRLELLQIADAVAREKSIDRMIVINAMEDAIQKAARSRYGTETEVRAEINPKTGDIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL+VVE VEN + +ISL  A  R+P   +G  +++PLPP+DFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLQVVETVENVSTEISLDDAAARNPEAGVGDFIAEPLPPLDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD+VGE+I+G VKR EYGNVIVDLG  +G++RRDE I RE  R GDR
Sbjct: 123 VREAERDRQYDEFKDRVGEVINGVVKRAEYGNVIVDLGRGEGIVRRDELIPREIFRTGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++ IYDVRREQRGPQ+ LSRTHPQFM KLF  EVPEIY+G++++K+V+RDPGSRAK+AV
Sbjct: 183 IRAIIYDVRREQRGPQIFLSRTHPQFMSKLFAQEVPEIYDGVIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ ++ATF++NAL+PA V KVVL
Sbjct: 243 ISKDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWNDEAATFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  R K+F ER+Q 
Sbjct: 303 DEDAERIEVVVPDDQLSLAIGRRGQNVRLASQLTGWAIDIMTEQEESERRSKEFQERSQL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM A+NVDE++  LL  EGF  VEE+A V+I EI+ IEGFD++TAVEIQ RAR++L  ++
Sbjct: 363 FMDALNVDEMVGQLLATEGFTSVEEVAYVEIEEISMIEGFDDDTAVEIQARARDFLNELE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L ++  ELGV +EL SI G+ S + VALG++ +KTMEDLAGC+ DDL+GW+E K G  
Sbjct: 423 AKLDEERIELGVLDELRSIDGLTSAMLVALGKDDVKTMEDLAGCAADDLVGWTERKDGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADE 520
           +++DG LS+    +   E+M++ AR   GWI +E++A +
Sbjct: 483 KRYDGALSAYDVSRADAENMVMAARLAAGWITEEELAAQ 521


>gi|27375896|ref|NP_767425.1| transcription elongation factor NusA [Bradyrhizobium japonicum USDA
           110]
 gi|27349034|dbj|BAC46050.1| N-utilization substance protein A [Bradyrhizobium japonicum USDA
           110]
          Length = 536

 Score =  691 bits (1783), Expect = 0.0,   Method: Composition-based stats.
 Identities = 330/529 (62%), Positives = 412/529 (77%), Gaps = 4/529 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR +V++ M D+I KAAR+ YG+ +D+  EI+P+ G++ 
Sbjct: 3   VSANRLELLQIADAVAREKSIDRGIVIAAMEDAIAKAARARYGSETDVHAEIDPKKGELR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VVE+VEN++ QISL  A+  +P   +G  ++D LPP+++GR+A QSAKQVI+QK
Sbjct: 63  LSRHMLVVEKVENHSNQISLVDAQRANPGAQVGDTIADTLPPLEYGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++G+I++G VKRVEYG+VIVDLG  + +IRRDE + RE  R GDR
Sbjct: 123 VREAERDRQYQEFKDRIGDIVNGVVKRVEYGSVIVDLGRGEAIIRRDEMLPREVFRNGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YI+DVRRE RGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 183 VRAYIFDVRRETRGPQIFLSRTHPQFMAKLFAQEVPEIYDGIVEIKAVARDPGSRAKIGV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V+KVV+
Sbjct: 243 ISRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVSKVVI 302

Query: 302 DEDVGRIEVIVPK--EQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           DED  RIEV+VP    QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQ DF   T
Sbjct: 303 DEDRERIEVVVPDTNNQLSLAIGRRGQNVRLASQLTGWDIDILTEQEESERRQADFENST 362

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM+++NVDE++  LL +EGF  VEELA V I E+A IEGFDEETA E+Q RAREYLE 
Sbjct: 363 RVFMESLNVDEVVGQLLASEGFTSVEELAMVDIKELAGIEGFDEETAQELQNRAREYLEQ 422

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK-G 478
            +  L+ K  ELGV + L  +PG+ SK+ V  GEN IKT++DLAGC+ DDL+GW+E K G
Sbjct: 423 QEAELEAKRVELGVEDALKDVPGVTSKMLVKFGENDIKTVDDLAGCATDDLVGWTERKEG 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA-DEEVQDAS 526
           G   K+ G L  +   +D  E+MI+ AR K GWI +  +A   E  +AS
Sbjct: 483 GETTKYPGALDGIEISRDDAEAMIMQARVKAGWITEADLAKPAEEAEAS 531


>gi|192288873|ref|YP_001989478.1| transcription elongation factor NusA [Rhodopseudomonas palustris
           TIE-1]
 gi|192282622|gb|ACE99002.1| NusA antitermination factor [Rhodopseudomonas palustris TIE-1]
          Length = 537

 Score =  690 bits (1782), Expect = 0.0,   Method: Composition-based stats.
 Identities = 325/524 (62%), Positives = 410/524 (78%), Gaps = 3/524 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK+IDR +V++ M D+I KAAR+ YG+ +D+  EI+P+ G++ 
Sbjct: 3   VSANRLELLQIADAVAREKTIDRSIVIAAMEDAIAKAARARYGSETDVHAEIDPKKGELR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VVE+VEN   QISLK A+  +P   IG  ++D LPP+++GR+A QSAKQVI+QK
Sbjct: 63  LSRHMLVVEQVENPANQISLKDAQRANPGAQIGDTIADTLPPLEYGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY+EFKD++G+I++G VKRVEYG+VIVDLG  + +IRRDE + RE+ R GDR
Sbjct: 123 VREAERDRQYMEFKDRIGDIVNGVVKRVEYGSVIVDLGRGEAIIRRDEMLPRESFRNGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y++DVRRE RGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 183 VRAYVFDVRRETRGPQIFLSRTHPQFMAKLFAQEVPEIYDGIVEIKAVARDPGSRAKIGV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V+KVV+
Sbjct: 243 VSRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVSKVVI 302

Query: 302 DEDVGRIEVIVPK--EQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           DED  RIEV+VP    QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQ DF + T
Sbjct: 303 DEDRERIEVVVPDTNNQLSLAIGRRGQNVRLASQLTGWDIDILTESEESERRQADFEKTT 362

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM A+NVDE++  LL +EGF  VEELA V   E+ASIEGFDEETA E+Q RA EYL+ 
Sbjct: 363 RAFMDALNVDEVVGQLLASEGFTSVEELALVDPRELASIEGFDEETAAELQTRASEYLDR 422

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           I+  L+ +  ELGV + L  +PG+ SK+ V  GEN +KT+EDLAGC+ DDL+GW+E K G
Sbjct: 423 IESELEARRLELGVEDALKDVPGVTSKMLVKFGENDVKTVEDLAGCATDDLVGWTERKDG 482

Query: 480 -NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEV 522
               K+ G L  +   ++  E +I+ AR K GWI++ ++A EE 
Sbjct: 483 AEPVKYPGILDGMEMSREDAEHLIMQARVKAGWIDESELASEEE 526


>gi|49473872|ref|YP_031914.1| transcription elongation factor NusA [Bartonella quintana str.
           Toulouse]
 gi|49239375|emb|CAF25708.1| N utilization substance protein A [Bartonella quintana str.
           Toulouse]
          Length = 543

 Score =  689 bits (1780), Expect = 0.0,   Method: Composition-based stats.
 Identities = 328/522 (62%), Positives = 417/522 (79%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
            SANRLE+LQIADAVA EKSIDR++V+S MAD+IQKAARS YG  ++I  EIN +TG+I 
Sbjct: 3   TSANRLEILQIADAVAREKSIDREIVISAMADAIQKAARSRYGQETNIHAEINSKTGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL++V+ VE+YT +I+L  A  R     IG   +D LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLKIVDIVEDYTTEITLSDALKRQADAKIGDFFADLLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           V +AERD+QY EFK+K+GEIISGTVKRVEYGNVIVDLG  + ++RRDE I RE+   GDR
Sbjct: 123 VHDAERDQQYEEFKNKIGEIISGTVKRVEYGNVIVDLGRGEAIVRRDELIPRESFHYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++++ DV RE RGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAFVSDVHREPRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+ATF++NAL+PA V+KVVL
Sbjct: 243 VSRDGSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAATFIVNALQPAEVSKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DEDV RIEVIVP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S NRQK+F ER++ 
Sbjct: 303 DEDVERIEVIVPDDQLSLAIGRRGQNVRLASQLTGWNIDILTEQEESENRQKEFTERSKL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM++++VDE+I  ++ +EGF+ +EE+A + + EIASI+GFD ETA EIQ RAREYLE  +
Sbjct: 363 FMESLDVDEMIGQVMASEGFSSIEEIAYIDLEEIASIDGFDHETAAEIQSRAREYLERKE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L +K ++LGVS+EL  +PGI + + VA+GE+G+KT+ED AG +VDDL GW E K G  
Sbjct: 423 KELDEKRKKLGVSDELRMLPGITNAMLVAIGEDGVKTIEDFAGYAVDDLAGWKERKEGQT 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQ 523
           + F G L+     +   E+M++ AR + GWI+K  +  E   
Sbjct: 483 QNFSGILTPFDITRFDAEAMVLAARVQAGWIDKADLITENPA 524


>gi|118590498|ref|ZP_01547900.1| transcription elongation factor NusA [Stappia aggregata IAM 12614]
 gi|118436961|gb|EAV43600.1| transcription elongation factor NusA [Stappia aggregata IAM 12614]
          Length = 551

 Score =  689 bits (1778), Expect = 0.0,   Method: Composition-based stats.
 Identities = 328/512 (64%), Positives = 419/512 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIADAVA EKSIDR +V++ M D+IQKAARS YGT +++R EINP+TG+I 
Sbjct: 3   ISANRLELLQIADAVAREKSIDRMIVINAMEDAIQKAARSRYGTETEVRAEINPKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL+VV+ VEN +  ISL+ A+ R+P   IG  +++PLPP+DFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLQVVDSVENVSTDISLEDAQARNPEASIGDFIAEPLPPLDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD+VGE+++G VKR EYGNVIVDLG  +G++RRDE I RE  R GDR
Sbjct: 123 VREAERDRQYEEFKDRVGEVVNGVVKRAEYGNVIVDLGRGEGIVRRDELIPREIFRTGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++ IYDVRREQRGPQ+ LSRTHPQFM KLF  EVPEIY+G++++K+V+RDPGSRAK+AV
Sbjct: 183 IRAIIYDVRREQRGPQIFLSRTHPQFMAKLFAQEVPEIYDGVIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ ++ATF++NAL+PA V KVVL
Sbjct: 243 ISKDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWNEEAATFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER+Q 
Sbjct: 303 DEDAERIEVVVPDDQLSLAIGRRGQNVRLASQLTGWAIDIMTEQEESDRRQKEFLERSQL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+NVDE++  LL  EGF  VEE+A V++ EI+ IEGFD++TAVEIQ RAR+YL  ++
Sbjct: 363 FMEALNVDEMVGQLLATEGFTSVEEVAYVELDEISMIEGFDDDTAVEIQARARDYLAELE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L ++   LGV+++L SI G+ + + VALG++GIKTMEDLAGC+ DDL+GW+E K G  
Sbjct: 423 AKLDEERVSLGVADDLRSIDGLTTAMLVALGKDGIKTMEDLAGCAADDLVGWTERKDGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           ++F+G LS     + + E++++ AR   GWI 
Sbjct: 483 KRFEGALSEFDMSRAEAENVVMAARLAAGWIT 514


>gi|323136838|ref|ZP_08071919.1| NusA antitermination factor [Methylocystis sp. ATCC 49242]
 gi|322398155|gb|EFY00676.1| NusA antitermination factor [Methylocystis sp. ATCC 49242]
          Length = 532

 Score =  689 bits (1778), Expect = 0.0,   Method: Composition-based stats.
 Identities = 336/525 (64%), Positives = 419/525 (79%), Gaps = 2/525 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLE+LQIADAVA EKSIDR +V++ M D++QKAARS YG  +++R EINP TG++ 
Sbjct: 3   VSANRLEILQIADAVAREKSIDRSIVIASMEDALQKAARSRYGQETEVRAEINPRTGEVR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             RLLEVV++VEN   QI+++ AR R+P+   G  +S+ LPP DFGR+A QSAKQ+I+QK
Sbjct: 63  FSRLLEVVDKVENDATQIAIEDARKRNPAAQAGDWISETLPPFDFGRIAAQSAKQIIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++GEI++G VKRVEYGNVI+DLG  +GVIRRDE I RE  RPGDR
Sbjct: 123 VREAERDRQYEEFKDRIGEIVNGVVKRVEYGNVIIDLGRGEGVIRRDEMIPREMFRPGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
            ++Y+YDVRREQRGPQ+ LSRTHPQFM KLF  EVPEIY+G+++VK+V+RDPGSRAK+AV
Sbjct: 183 ARAYVYDVRREQRGPQIFLSRTHPQFMAKLFKQEVPEIYDGVIEVKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGMRGSRVQAVV EL+ E+IDI+ WS D+ATF++NAL+PA V KVVL
Sbjct: 243 VSRDSSIDPVGACVGMRGSRVQAVVQELQGERIDIIPWSVDAATFIVNALQPAEVVKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F ERT  
Sbjct: 303 DEDSSRIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESERRQKEFVERTNT 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM AI+VDE++  LL +EGF  VE+LA V++SE+ASIEGFDE+TA EIQ RAR YL+ ++
Sbjct: 363 FMTAIDVDEVVGRLLASEGFRSVEDLAYVELSELASIEGFDEDTATEIQNRARAYLDKLE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
              + +  ELGVS+EL  I G+ + + V LGEN +KTMED AGC  DDL+GWSE K G  
Sbjct: 423 AENEARRVELGVSDELREIDGMTTAMMVRLGENDVKTMEDFAGCVPDDLVGWSEKKDGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDAS 526
            K +GF   +   +++ E+MI+ AR ++GWI  EK A E   +A+
Sbjct: 483 TKHEGFFEGIELSREEAEAMIMAARVRVGWI--EKPAPEAETEAA 525


>gi|148251679|ref|YP_001236264.1| transcription elongation factor NusA [Bradyrhizobium sp. BTAi1]
 gi|146403852|gb|ABQ32358.1| NusA antitermination factor [Bradyrhizobium sp. BTAi1]
          Length = 537

 Score =  687 bits (1775), Expect = 0.0,   Method: Composition-based stats.
 Identities = 326/530 (61%), Positives = 411/530 (77%), Gaps = 5/530 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR +V++ M D+I KAAR+ YG+ +D+  EI+P  G++ 
Sbjct: 3   VSANRLELLQIADAVAREKSIDRGIVIAAMEDAIAKAARARYGSETDVHAEIDPRRGELR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VVE+VEN + QISL  AR  +P   IG  ++D LPP+++GR+A QSAKQVI+QK
Sbjct: 63  LSRHMLVVEKVENPSNQISLDDARRANPGAQIGDTIADTLPPLEYGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++G+I++G VKRVEYG+VI+DLG  + +IRRDE + RE  R GDR
Sbjct: 123 VREAERDRQYQEFKDRIGDIVNGVVKRVEYGSVILDLGRGEAIIRRDEMLPREVFRNGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y++DVRRE RGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 183 VRAYVFDVRRETRGPQIFLSRTHPQFMAKLFAQEVPEIYDGIVEIKAVARDPGSRAKIGV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V KVV+
Sbjct: 243 VSRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVAKVVI 302

Query: 302 DEDVGRIEVIVPK--EQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           DED  RIEV+VP    QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQ DF   T
Sbjct: 303 DEDRERIEVVVPDTNNQLSLAIGRRGQNVRLASQLTGWDIDILTEQEESERRQADFENST 362

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM+++NVDE++  LL +EGF  VEELA V + ++A IEGFDEETA E+Q RARE+LE 
Sbjct: 363 RVFMESLNVDEVVGQLLASEGFTSVEELALVDLKDLAGIEGFDEETATELQTRAREFLEQ 422

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG- 478
            +  L+ K +ELGV + + ++PG+ SK+ V  GEN IKT++DLAGC+ DDL+GW+E K  
Sbjct: 423 QEAELEAKRKELGVEDAVKTVPGVTSKMLVKFGENDIKTVDDLAGCATDDLVGWTERKDS 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA--DEEVQDAS 526
           G   K  G L  L   +D  E+M++ AR K GWI +  +A  + E +DAS
Sbjct: 483 GEQTKHAGILDGLEVSRDDAEAMVMQARVKAGWISEADIAKPEAEDEDAS 532


>gi|154254057|ref|YP_001414881.1| NusA antitermination factor [Parvibaculum lavamentivorans DS-1]
 gi|154158007|gb|ABS65224.1| NusA antitermination factor [Parvibaculum lavamentivorans DS-1]
          Length = 536

 Score =  687 bits (1775), Expect = 0.0,   Method: Composition-based stats.
 Identities = 327/519 (63%), Positives = 409/519 (78%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR+VV+  MA++IQKAARS YG  ++IR  INP+TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKSIDREVVIEAMAEAIQKAARSRYGAENEIRARINPQTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVV+ VEN   QI LK A+ R+P+  +G ++ D LPP+DFGR+A Q+AKQVI+QK
Sbjct: 63  LVRLLEVVDTVENDAVQIDLKSAQRRNPAAQLGDLIEDELPPVDFGRIAAQTAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+RQY E+KD++GEI++G VKRVEYGNVIVDLG  + ++RRDE + RE  R GDR
Sbjct: 123 VRDAERERQYDEYKDRIGEIVNGIVKRVEYGNVIVDLGRGEAIVRRDELLPRETFRNGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YIYDVRREQRGPQ+ LSR+HPQFM KLF  EVPEIY+GI+++KAV+RDPGSRAK+AV
Sbjct: 183 VRAYIYDVRREQRGPQIFLSRSHPQFMAKLFAQEVPEIYDGIIEIKAVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+ATF++N L PA V KVVL
Sbjct: 243 LSNDSSIDPVGACVGMRGSRVQAVVNELQGEKIDIIQWSPDAATFIVNGLAPAEVVKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQ +F  RT  
Sbjct: 303 DEDAQRIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESERRQAEFLSRTAT 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F +A++VDE+IA LL +EGFA +EE+A V + EIA IEGFDE+TA EIQ RA EY+E  +
Sbjct: 363 FAEALDVDEMIAQLLASEGFASIEEVAYVDLDEIAEIEGFDEDTAQEIQSRALEYIERQN 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                K RELGV++E+  +PG+  K+ VA GEN +KT+EDLAGC+ DDL+GW+E   G  
Sbjct: 423 AEFDAKRRELGVADEVADVPGVTPKMMVAFGENDVKTVEDLAGCATDDLIGWNETVNGER 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADE 520
           +   G +       ++   +I+ AR K GWI +  +A +
Sbjct: 483 KHQQGIIEGFDLTAEEANDLIMQARLKAGWITEADLASD 521


>gi|299133375|ref|ZP_07026570.1| transcription termination factor NusA [Afipia sp. 1NLS2]
 gi|298593512|gb|EFI53712.1| transcription termination factor NusA [Afipia sp. 1NLS2]
          Length = 535

 Score =  687 bits (1774), Expect = 0.0,   Method: Composition-based stats.
 Identities = 327/518 (63%), Positives = 407/518 (78%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSAN+LELLQIADAVA EKSIDR +V++ M D+I KAAR+ YG+ +D+  EI+ + G++ 
Sbjct: 4   VSANKLELLQIADAVAREKSIDRSIVIAAMEDAIAKAARARYGSETDVHAEIDAKKGELR 63

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VVE VEN   QISLK A+  +P+  IG  ++D LPP+++GR+A QSAKQVI+QK
Sbjct: 64  LSRHMLVVETVENAANQISLKDAQRANPTAQIGDTIADTLPPLEYGRIAAQSAKQVIVQK 123

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++GEI++G VKRVEYG+VIVDLG  + ++RRDE + RE LR GDR
Sbjct: 124 VREAERDRQYQEFKDRIGEIVNGIVKRVEYGSVIVDLGRGEAIVRRDEMLPREALRNGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++YI+DVRRE RGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 184 IRAYIFDVRRETRGPQIFLSRTHPQFMAKLFAQEVPEIYDGIVEIKAVARDPGSRAKIGV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V KVV+
Sbjct: 244 ISRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVAKVVI 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP  QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQ DF   T+ 
Sbjct: 304 DEDRERIEVVVPDTQLSLAIGRRGQNVRLASQLTGWDIDILTEQEESERRQADFENSTRV 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A+NVDE++  LL +EGF+ VEELA V + E+A IEGFDEETA E+Q RAREYLE +D
Sbjct: 364 FMEALNVDEVVGQLLASEGFSSVEELALVDVRELAGIEGFDEETANELQSRAREYLEQLD 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L+ K +ELGV + L  IPG+  K+ V  GEN +KT+EDLAGC+ DDL+GW E K G  
Sbjct: 424 AELEAKRKELGVDDALKDIPGVTGKMLVKFGENDVKTVEDLAGCATDDLVGWVERKDGET 483

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVAD 519
            K  GFL +  T +D+ E++I+ AR   GWI +  +A 
Sbjct: 484 VKHAGFLDASETSRDEAEAIIMQARLAAGWITEADLAK 521


>gi|154244252|ref|YP_001415210.1| transcription elongation factor NusA [Xanthobacter autotrophicus
           Py2]
 gi|154158337|gb|ABS65553.1| NusA antitermination factor [Xanthobacter autotrophicus Py2]
          Length = 531

 Score =  686 bits (1772), Expect = 0.0,   Method: Composition-based stats.
 Identities = 314/512 (61%), Positives = 405/512 (79%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR +V++ M D+I KAARS YG  +DI  +IN +TG++ 
Sbjct: 4   VSANRLELLQIADAVAREKSIDRSIVIAAMEDAIAKAARSRYGQETDIHADINAKTGELR 63

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R L VV+EVEN   +I+L  AR  +P+  +G  ++D LPP DFGR+A QSAKQVI+QK
Sbjct: 64  LARHLLVVDEVENTATEITLDGARRHNPAAQVGDTIADTLPPFDFGRIAAQSAKQVIVQK 123

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD++G++++G VKRVEYGNV+VDLG  +G++RRDE + RE ++ GDR
Sbjct: 124 VREAERDRQYDEYKDRIGDVVNGLVKRVEYGNVVVDLGRGEGILRRDELLPRETVKTGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++Y+YDVRRE RGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+AV
Sbjct: 184 IRAYVYDVRREPRGPQIFLSRTHPQFMAKLFAQEVPEIYDGIVEIKAVARDPGSRAKIAV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D S+DPVGACVGMRGSRVQAVV EL+ EKIDI+ W+PD ATF++NAL PA V KVVL
Sbjct: 244 ISRDQSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNPDIATFIVNALAPAEVVKVVL 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP  QLSLAIGRRGQNVRLA+QLTGW IDI+TE+E+S  RQK+F ERT+ 
Sbjct: 304 DEDRERIEVVVPDAQLSLAIGRRGQNVRLATQLTGWDIDIMTEQEESERRQKEFAERTKM 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F +A+++DE++  LL +EGF  VEE+A V++ E+ASIEGFDE+TA E+Q RA ++L  ++
Sbjct: 364 FAEALDLDEMMGQLLTSEGFTSVEEIAYVQLQELASIEGFDEDTAAELQARALKHLAEVE 423

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L  +  ELGV ++L S+PG+ SK+ VA GEN IK++EDLAGC+ DDL+GW+E K G  
Sbjct: 424 EALDARRIELGVDDDLKSVPGVTSKMLVAFGENDIKSVEDLAGCATDDLIGWTERKDGET 483

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
            +  G L      ++  E++++ AR   GWIE
Sbjct: 484 VRHAGALDGFELSREDAEALVMQARVAAGWIE 515


>gi|115522227|ref|YP_779138.1| transcription elongation factor NusA [Rhodopseudomonas palustris
           BisA53]
 gi|115516174|gb|ABJ04158.1| NusA antitermination factor [Rhodopseudomonas palustris BisA53]
          Length = 538

 Score =  686 bits (1772), Expect = 0.0,   Method: Composition-based stats.
 Identities = 331/529 (62%), Positives = 412/529 (77%), Gaps = 5/529 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK+IDR +V++ M D+I KAAR+ YG+ +D+  EI+P+TG + 
Sbjct: 4   VSANRLELLQIADAVAREKTIDRGIVIAAMEDAIAKAARARYGSETDVHAEIHPKTGQLQ 63

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VVE+VEN   QISL  A+  +P   IG  ++D LPP+++GR+A QSAKQVI+QK
Sbjct: 64  LTRHMLVVEQVENSANQISLVDAQRANPGAMIGDTIADTLPPLEYGRIAAQSAKQVIVQK 123

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++G+I++G VKRVEYG+VIVDLG  + +IRRDE + RE  R GDR
Sbjct: 124 VREAERDRQYQEFKDRIGDIVNGVVKRVEYGSVIVDLGRGEAIIRRDEMLPREVFRNGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YI+DVRRE RGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 184 VRAYIFDVRRETRGPQIFLSRTHPQFMAKLFAQEVPEIYDGIVEIKAVARDPGSRAKIGV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V+KVV+
Sbjct: 244 VSRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVSKVVI 303

Query: 302 DEDVGRIEVIVPK--EQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           DED  RIEV+VP    QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQ DF   T
Sbjct: 304 DEDRERIEVVVPDTNNQLSLAIGRRGQNVRLASQLTGWDIDILTESEESERRQADFENST 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM+++NVDE++  LL +EGF  VEELA V   E+ASIEGFD+ETA E+Q RAREYLE 
Sbjct: 364 RVFMESLNVDEVVGQLLASEGFTSVEELALVDARELASIEGFDDETAGELQSRAREYLEQ 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           ++  L+ K +ELGV +EL ++PG+ SK+ V  GEN IKT+EDLAGC+ DDL+GWSE K G
Sbjct: 424 LESELEAKRKELGVEDELKTVPGVTSKMLVKFGENDIKTVEDLAGCATDDLVGWSERKEG 483

Query: 480 --NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADE-EVQDA 525
                KF G L +    +   E++I+ AR K GWI + ++A   E +DA
Sbjct: 484 VAEPVKFPGILDANEISRADAEALIMQARVKAGWITEAELAQTVEGEDA 532


>gi|90422002|ref|YP_530372.1| transcription elongation factor NusA [Rhodopseudomonas palustris
           BisB18]
 gi|90104016|gb|ABD86053.1| NusA antitermination factor [Rhodopseudomonas palustris BisB18]
          Length = 541

 Score =  685 bits (1768), Expect = 0.0,   Method: Composition-based stats.
 Identities = 325/519 (62%), Positives = 407/519 (78%), Gaps = 3/519 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSAN+LELLQIADAVA EKSIDR +V++ M D+I KAAR+ YG+ +D+  EI+ + G++ 
Sbjct: 4   VSANKLELLQIADAVAREKSIDRSIVIAAMEDAIAKAARARYGSETDVHAEIDAKKGELR 63

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VVEEVEN + QISLK A+  +P   IG  ++D LPP+++GR+A QSAKQVI+QK
Sbjct: 64  LSRHMLVVEEVENSSNQISLKDAQRANPGAQIGDTIADTLPPLEYGRIAAQSAKQVIVQK 123

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++G+I++G VKRVEYG+VIVDLG  + ++RRDE + RE  R GDR
Sbjct: 124 VREAERDRQYQEFKDRIGDIVNGVVKRVEYGSVIVDLGRGEAIVRRDEMLPREVFRNGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YI+DVRRE RGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 184 VRAYIFDVRRETRGPQIFLSRTHPQFMAKLFAQEVPEIYDGIVEIKAVARDPGSRAKIGV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V+KVV+
Sbjct: 244 ISRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVSKVVI 303

Query: 302 DEDVGRIEVIVPK--EQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           DED  RIEV+VP    QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQ DF   T
Sbjct: 304 DEDRERIEVVVPDTNNQLSLAIGRRGQNVRLASQLTGWDIDILTETEESERRQADFENST 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM+++NVDE++  LL +EGF  VEELA V + E+ASIEGFD+ETA E+Q RAREYLE 
Sbjct: 364 RVFMESLNVDEVVGQLLASEGFTSVEELAMVDVRELASIEGFDDETANELQSRAREYLEQ 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK-G 478
           ++  L+ K +ELGV + L ++PG+ SK+ V  GEN IKT+EDLAGC+ DDL+GWSE K G
Sbjct: 424 LESELEAKRKELGVEDALKTVPGVTSKMLVKFGENDIKTVEDLAGCATDDLVGWSERKEG 483

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
           G   KF G L +    +   E++I+ AR   GWI +  +
Sbjct: 484 GEPVKFPGILDANEISRADAETLIMQARVIAGWITEADL 522


>gi|92115662|ref|YP_575391.1| transcription elongation factor NusA [Nitrobacter hamburgensis X14]
 gi|91798556|gb|ABE60931.1| NusA antitermination factor [Nitrobacter hamburgensis X14]
          Length = 536

 Score =  684 bits (1765), Expect = 0.0,   Method: Composition-based stats.
 Identities = 322/524 (61%), Positives = 408/524 (77%), Gaps = 2/524 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSAN+LELLQIADAVA EKSIDR +V++ M D+I KAAR+ YG+ +D+  EI+P+TG + 
Sbjct: 4   VSANKLELLQIADAVAREKSIDRGIVIAAMEDAIAKAARARYGSETDVHAEIHPKTGQLQ 63

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VV+E+EN   QISLK A+  +P   IG  ++D LPP+++GR+A QSAKQVI+QK
Sbjct: 64  LTRHMLVVDEIENAANQISLKDAQRANPGAQIGDTIADTLPPLEYGRIAAQSAKQVIVQK 123

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++G+I++G VKRVEYG+VIVDLG  + V+RRDE + RE  R GDR
Sbjct: 124 VREAERDRQYQEFKDRIGDIVNGIVKRVEYGSVIVDLGRGEAVVRRDEMLPREVFRNGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YI+DVRRE RGPQ+ LSRTHPQFMVKLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 184 VRAYIFDVRRETRGPQIFLSRTHPQFMVKLFTQEVPEIYDGIVEIKAVARDPGSRAKIGV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V KVV+
Sbjct: 244 ISRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVAKVVI 303

Query: 302 DEDVGRIEVIVPK--EQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           DED  RIEV+VP    QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQ DF   T
Sbjct: 304 DEDRERIEVVVPDTNNQLSLAIGRRGQNVRLASQLTGWDIDILTEQEESERRQADFENAT 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM+A+NVDE++  LL +EGF  VEEL  V+  E+A IEGFD+ETA E+Q RAREYLE 
Sbjct: 364 RMFMEALNVDEVVGQLLASEGFMSVEELTLVETRELAGIEGFDDETANELQSRAREYLEQ 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           ++  L  + +ELGV + L ++PG+ SK+ V LGEN ++T+EDLAGC+ DDL+GW+E K G
Sbjct: 424 LEAELDNRRKELGVDDALKTVPGVTSKMLVKLGENEVRTVEDLAGCATDDLVGWTERKDG 483

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQ 523
              K  G+L  +   ++  E++I+ AR   GWI +  +A    +
Sbjct: 484 EAVKHAGYLDGIEVSREDAEAIIMQARLIAGWITEADLAKSAEE 527


>gi|170740831|ref|YP_001769486.1| NusA antitermination factor [Methylobacterium sp. 4-46]
 gi|168195105|gb|ACA17052.1| NusA antitermination factor [Methylobacterium sp. 4-46]
          Length = 544

 Score =  684 bits (1765), Expect = 0.0,   Method: Composition-based stats.
 Identities = 327/525 (62%), Positives = 407/525 (77%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           +VSANRLELLQIADAVA EK IDR +V+  M ++I KAARS YG  +D+  EI+P TG +
Sbjct: 3   VVSANRLELLQIADAVAREKVIDRSIVIGAMEEAIAKAARSRYGAETDVHAEIDPRTGAL 62

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            L R L VVE+VEN   +I L+ AR  +P+  IG V++D LPP DFGRVA QSAKQVI+Q
Sbjct: 63  RLSRHLLVVEQVENDAREIDLETARRHNPAAQIGDVIADTLPPFDFGRVAAQSAKQVIVQ 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVR+AERDRQY E+KD++GEI++G VKRVEYGN IVDLG  +G++RRDE+I RE  RPGD
Sbjct: 123 KVRDAERDRQYEEYKDRIGEIVNGLVKRVEYGNTIVDLGRGEGIVRRDESIPRETFRPGD 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+++Y++DVRRE RGPQ+ LSR+HPQFM KLF  EVPEIY+GIV+VKAV+RDPGSRAK+A
Sbjct: 183 RIRAYLFDVRREVRGPQIFLSRSHPQFMAKLFAQEVPEIYDGIVEVKAVARDPGSRAKIA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATF++NAL+PA V KVV
Sbjct: 243 VISRDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSQDQATFIVNALQPAEVVKVV 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDE+  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F ERT 
Sbjct: 303 LDEEADRIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESERRQKEFVERTN 362

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FMQA++VDE +  LL AEGF  VEE+A V+  +IA+I+G DEET  EIQ RA+EYL  I
Sbjct: 363 TFMQALDVDETVGQLLAAEGFRSVEEIAYVEPGDIANIQGLDEETGAEIQSRAQEYLARI 422

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +     + RELGV +EL  I GI + + VALGEN ++T+EDLAGC+ DDL+G++E +G  
Sbjct: 423 EAENDARRRELGVEDELREIDGITTPMMVALGENEVRTVEDLAGCATDDLVGYTEGRGPE 482

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
             +  G+L      + + E+MI+ AR + GWIE  + A  E + A
Sbjct: 483 AVRHPGYLDGFDLSRAEAEAMIVAARVRAGWIEAPEEAPAEDEQA 527


>gi|85714177|ref|ZP_01045166.1| transcription elongation factor NusA [Nitrobacter sp. Nb-311A]
 gi|85699303|gb|EAQ37171.1| transcription elongation factor NusA [Nitrobacter sp. Nb-311A]
          Length = 535

 Score =  683 bits (1764), Expect = 0.0,   Method: Composition-based stats.
 Identities = 321/527 (60%), Positives = 408/527 (77%), Gaps = 2/527 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSAN+LELLQIADAVA EKSIDR +V++ M D+I KAAR+ YG+ +D+  EI+P+TG + 
Sbjct: 4   VSANKLELLQIADAVAREKSIDRSIVIAAMEDAIAKAARARYGSETDVHAEIHPKTGQLQ 63

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VV++VEN   QISLK A+  +P   +G  ++D LPP+++GR++ QSAKQVI+QK
Sbjct: 64  LTRHMLVVDQVENAANQISLKDAQRANPGAQVGDTIADTLPPLEYGRISAQSAKQVIVQK 123

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++G+I++G VKRVEYG+VIVDLG  + VIRRDE + RE  R GDR
Sbjct: 124 VREAERDRQYQEFKDRIGDIVNGIVKRVEYGSVIVDLGRGEAVIRRDEMLPREVFRNGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YI+DVRRE RGPQ+ LSRTHPQFMVKLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 184 VRAYIFDVRRETRGPQIFLSRTHPQFMVKLFAQEVPEIYDGIVEIKAVARDPGSRAKIGV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V KVV+
Sbjct: 244 VSRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVAKVVI 303

Query: 302 DEDVGRIEVIVPK--EQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           DED  RIEV+VP    QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQ DF   T
Sbjct: 304 DEDRERIEVVVPDTNNQLSLAIGRRGQNVRLASQLTGWDIDILTEQEESERRQADFENAT 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM+A+NVDE++  LL +EGF  VEEL  V   EIA IEGFD+ETA E+Q RAREYLE 
Sbjct: 364 RMFMEALNVDEVVGQLLASEGFTSVEELTLVDAREIAGIEGFDDETANELQNRAREYLEQ 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           ++  L+ + +ELGV + + ++PG+ SK+ V LGEN ++T+EDLAGC+ DDL+GW+E K G
Sbjct: 424 LEAELENRRKELGVDDAMKTVPGVTSKMLVKLGENDVRTVEDLAGCATDDLIGWTERKEG 483

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDAS 526
              K  G+   +   ++  E++I+ AR   GWI +  +A      A+
Sbjct: 484 EAVKHAGYFDGIEISREDAEAIIMQARLIAGWITEADLAKPAEAVAT 530


>gi|296448218|ref|ZP_06890114.1| transcription termination factor NusA [Methylosinus trichosporium
           OB3b]
 gi|296254258|gb|EFH01389.1| transcription termination factor NusA [Methylosinus trichosporium
           OB3b]
          Length = 555

 Score =  682 bits (1761), Expect = 0.0,   Method: Composition-based stats.
 Identities = 329/524 (62%), Positives = 418/524 (79%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLE+LQIADAVA EKSIDR +V++ M D++QKAARS YG  +++R EINP++G++ 
Sbjct: 3   VSANRLEILQIADAVAREKSIDRQIVIASMEDALQKAARSRYGQETEVRAEINPKSGEVR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             RLL VV+ V+N   QIS++ AR R+P+  +G  +S+ LPP DFGR+A QSAKQ+I+QK
Sbjct: 63  FSRLLLVVDLVDNDATQISIEDARKRNPAAQVGDWISETLPPFDFGRIAAQSAKQIIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++GEI++G VKRVEYGNVI+DLG  + +IRRDE I RE  RPGDR
Sbjct: 123 VREAERDRQYEEFKDRIGEIVNGVVKRVEYGNVIIDLGRGEAIIRRDEMIPRETFRPGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRREQRGPQ+ LSRTHPQFM KLF  EVPEIY+ +++VK+V+RDPGSRAK+AV
Sbjct: 183 VRAYVYDVRREQRGPQIFLSRTHPQFMAKLFRQEVPEIYDNVIEVKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGMRGSRVQAVV EL+ E+IDI+ WS D+ATF++NAL+PA V KVVL
Sbjct: 243 ISRDSSIDPVGACVGMRGSRVQAVVGELQGERIDIIPWSADAATFIVNALQPAEVVKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQ++F ERT+ 
Sbjct: 303 DEDTARIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESERRQREFIERTKV 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM AI+VDE++  LL +EGF  VE+LA V ++E+A+IEGFDE+TA EIQ RAR YLE ++
Sbjct: 363 FMNAIDVDEVVGRLLASEGFTSVEDLAFVDLAELATIEGFDEDTAAEIQNRARNYLERVE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
              + + +ELGV +EL  I GI + I V LGEN +K++EDLAGC  DDL+GW+E K G  
Sbjct: 423 AENEARRKELGVLDELKEIDGITTAIMVKLGENDVKSIEDLAGCVPDDLVGWTEKKNGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
            K  GFL  +   +++ E+MI+ AR + GWIE    A+E  ++A
Sbjct: 483 IKQTGFLDGVDISREEAEAMIMAARVRAGWIEAPAPAEESGEEA 526


>gi|220924484|ref|YP_002499786.1| NusA antitermination factor [Methylobacterium nodulans ORS 2060]
 gi|219949091|gb|ACL59483.1| NusA antitermination factor [Methylobacterium nodulans ORS 2060]
          Length = 536

 Score =  682 bits (1761), Expect = 0.0,   Method: Composition-based stats.
 Identities = 325/525 (61%), Positives = 408/525 (77%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           +VSANRLELLQIADAVA EK IDR +V+  M ++I KAARS YG  +D+  EI+P TG +
Sbjct: 3   VVSANRLELLQIADAVAREKVIDRSIVIGAMEEAIAKAARSRYGAETDVHAEIDPRTGAL 62

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            L R + VV++VEN   +I L+ AR  +P+  +G V++D LPP DFGRVA QSAKQVI+Q
Sbjct: 63  RLSRHMLVVDQVENDAREIDLETARRHNPAAQVGDVIADTLPPFDFGRVAAQSAKQVIVQ 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVR+AERDRQY E+KD++GEI++G VKRVEYGNVIVDLG  +G++RRDE+I RE  RPGD
Sbjct: 123 KVRDAERDRQYEEYKDRIGEIVNGLVKRVEYGNVIVDLGRGEGIVRRDESIPRETFRPGD 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+++Y++DVRRE RGPQ+ LSR+HPQFM KLF  EVPEIY+GIV+VKAV+RDPGSRAK+A
Sbjct: 183 RIRAYLFDVRREVRGPQIFLSRSHPQFMAKLFAQEVPEIYDGIVEVKAVARDPGSRAKIA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATF++NAL+PA V KVV
Sbjct: 243 VISRDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSQDQATFIVNALQPAEVVKVV 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDE+  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F ERT 
Sbjct: 303 LDEEADRIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESERRQKEFIERTN 362

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+A++VDE +  LL AEGF  VEE+A V+  +IA+I+G DEET  EIQ RAR+YL  I
Sbjct: 363 AFMEALDVDETVGQLLAAEGFRSVEEIAYVEPGDIANIQGLDEETGAEIQTRARDYLARI 422

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +     + +ELGVS+EL  I GI + + VALGEN +KT+EDLAGC+ DDL+G++E +G  
Sbjct: 423 ESENDARRKELGVSDELREIDGITTPMLVALGENDVKTIEDLAGCATDDLVGYTEGRGAE 482

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
             +  G+L      + + E+MI+ AR + GWIE    A  E + A
Sbjct: 483 AVRHAGYLDGFDLSRAEAEAMIVAARVRAGWIEAAPEAPAEDEQA 527


>gi|188582066|ref|YP_001925511.1| NusA antitermination factor [Methylobacterium populi BJ001]
 gi|179345564|gb|ACB80976.1| NusA antitermination factor [Methylobacterium populi BJ001]
          Length = 560

 Score =  679 bits (1753), Expect = 0.0,   Method: Composition-based stats.
 Identities = 320/524 (61%), Positives = 405/524 (77%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           +VSANRLELLQIADAVA EK IDR +V+  M ++I KAARS YG  +D+  EI+P++G +
Sbjct: 3   VVSANRLELLQIADAVAREKVIDRQIVIEAMEEAIAKAARSRYGAETDVHAEIDPKSGAL 62

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            L R L VV++VEN   +I+L  AR  +P   +G V+SD LPP DFGRVA QSAKQVI+Q
Sbjct: 63  RLSRHLLVVDQVENDAREITLDQARRYNPGALVGDVISDTLPPFDFGRVAAQSAKQVIVQ 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVR+AER RQY E+KD++GEI++G VKRVEYGNVIVDLG  +G++RRDE I RE  RPGD
Sbjct: 123 KVRDAERARQYDEYKDRIGEILNGVVKRVEYGNVIVDLGRGEGIVRRDEMIPRETFRPGD 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+++Y++DVR E RGPQ+ LSR+HPQFM KLF  EVPEIY+GIV+VKAV+RDPGSRAK+A
Sbjct: 183 RIRAYLFDVRSEVRGPQIFLSRSHPQFMAKLFGQEVPEIYDGIVEVKAVARDPGSRAKIA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATF++NAL+PA V KVV
Sbjct: 243 VISRDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSEDQATFIVNALQPAEVVKVV 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDE+  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F ERTQ
Sbjct: 303 LDEEADRIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESERRQKEFAERTQ 362

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+A++VDE +  LL AEGF +VEE+A V ++E+++I+G DEET  EIQ RA++YL  I
Sbjct: 363 VFMEALDVDETVGQLLAAEGFRNVEEIAFVDVAELSNIQGLDEETGAEIQARAQDYLARI 422

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +     + RELGV +EL  I G+ + + VALGEN +KT+EDLAGC+ DDL+G++E +G  
Sbjct: 423 EQEQDDRRRELGVEDELREIDGVTTAMMVALGENEVKTVEDLAGCATDDLVGYTEGRGPE 482

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQD 524
             +  G+L      + + E++I+ AR   GWIE     + E  D
Sbjct: 483 AVRHAGYLDGFELSRAEAEALIMAARLHAGWIEALPEPEGEAAD 526


>gi|86747724|ref|YP_484220.1| transcription elongation factor NusA [Rhodopseudomonas palustris
           HaA2]
 gi|86570752|gb|ABD05309.1| NusA antitermination factor [Rhodopseudomonas palustris HaA2]
          Length = 539

 Score =  679 bits (1753), Expect = 0.0,   Method: Composition-based stats.
 Identities = 327/521 (62%), Positives = 408/521 (78%), Gaps = 4/521 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSAN+LELLQIADAVA EKSIDR +V++ M D+I KAAR+ YG+ +D+  EI+ + G++ 
Sbjct: 3   VSANKLELLQIADAVAREKSIDRGIVIAAMEDAIAKAARARYGSETDVHAEIDAKKGELR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VVE VEN   QISLK A+  +P   IG  ++D LPP+++GR+A QSAKQVI+QK
Sbjct: 63  LSRHMLVVENVENPANQISLKAAQRANPGAQIGDTIADTLPPLEYGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++G+I++G VKRVEYG+VIVDLG  + ++RRDE + RE+ R GDR
Sbjct: 123 VREAERDRQYSEFKDRIGDIVNGVVKRVEYGSVIVDLGRGEAIVRRDEMLPRESFRNGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YI+DVRRE RGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 183 VRAYIFDVRRETRGPQIFLSRTHPQFMAKLFAQEVPEIYDGIVEIKAVARDPGSRAKIGV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V+KVV+
Sbjct: 243 VSRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVSKVVI 302

Query: 302 DEDVGRIEVIVPK--EQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           DED  RIEV+VP    QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQ DF   T
Sbjct: 303 DEDRERIEVVVPDTNNQLSLAIGRRGQNVRLASQLTGWDIDILTETEESERRQADFENST 362

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM+A+NVDE++  LL +EGF  VEELA V I E+ASIEGFDEETA E+Q RA EYL+ 
Sbjct: 363 RVFMEALNVDEVVGQLLASEGFTSVEELALVDIRELASIEGFDEETATELQARASEYLDR 422

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           ++  ++ +  ELGV + L  +PGI SKI V LGE  +KT+EDLAGC+ DDL+GW+E K G
Sbjct: 423 VETEMEARRLELGVEDALKDVPGITSKILVKLGEGDVKTVEDLAGCATDDLVGWTERKEG 482

Query: 480 -NIEKFDGFLSSL-GTPKDQVESMIIHARYKMGWIEKEKVA 518
               KF G L  + G  +D+ E +I+ AR K GWI +E++A
Sbjct: 483 AEPVKFAGILDGVEGVTRDEAEDLIMQARVKAGWITEEELA 523


>gi|75674221|ref|YP_316642.1| transcription elongation factor NusA [Nitrobacter winogradskyi
           Nb-255]
 gi|74419091|gb|ABA03290.1| NusA antitermination factor [Nitrobacter winogradskyi Nb-255]
          Length = 538

 Score =  679 bits (1752), Expect = 0.0,   Method: Composition-based stats.
 Identities = 323/526 (61%), Positives = 409/526 (77%), Gaps = 3/526 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSAN+LELLQIADAVA EK+IDR +V++ M D+I KAAR+ YG+ +D+  EI+P+TG + 
Sbjct: 4   VSANKLELLQIADAVAREKTIDRGIVIAAMEDAIAKAARARYGSETDVHAEIHPKTGQLQ 63

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VVE+VEN   QISLK A+  +P   IG  ++D LPP+++GR++ QSAKQVI+QK
Sbjct: 64  LTRHMLVVEQVENAANQISLKDAQRANPGAQIGDTIADTLPPLEYGRISAQSAKQVIVQK 123

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY EFKD++G+I++G VKRVEYG+VIVDLG  + VIRRDE + RE  R GDR
Sbjct: 124 VREAERDRQYQEFKDRIGDIVNGIVKRVEYGSVIVDLGRGEAVIRRDEMLPREVFRNGDR 183

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YI+DVRRE RGPQ+ LSRTHPQFMVKLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 184 VRAYIFDVRRETRGPQIFLSRTHPQFMVKLFTQEVPEIYDGIVEIKAVARDPGSRAKIGV 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V KVV+
Sbjct: 244 VSRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVAKVVI 303

Query: 302 DEDVGRIEVIVPK--EQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           DED  RIEV+VP    QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQ DF   T
Sbjct: 304 DEDRERIEVVVPDTNNQLSLAIGRRGQNVRLASQLTGWDIDILTEQEESERRQADFENAT 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM+ +NVDE++  LL +EGF  VEEL  V   EIA IEGFD+ETA E+Q RAREYLE 
Sbjct: 364 RMFMETLNVDEVVGQLLASEGFTSVEELTLVDTREIAGIEGFDDETATELQNRAREYLEQ 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           ++  L+ + +ELGV + L ++PG+ SK+ V LGEN ++T+EDLAGC+ DDL+GW+E K G
Sbjct: 424 LEAELENRRKELGVDDALKTVPGVTSKMLVKLGENEVRTIEDLAGCATDDLVGWTERKEG 483

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA-DEEVQD 524
              K  G+   +   ++  E++I+ AR  +GWI +  +A   E +D
Sbjct: 484 EAVKHAGYFDGIEISREDAEAIIMQARLSVGWINEADLAKPAEAED 529


>gi|170750127|ref|YP_001756387.1| NusA antitermination factor [Methylobacterium radiotolerans JCM
           2831]
 gi|170656649|gb|ACB25704.1| NusA antitermination factor [Methylobacterium radiotolerans JCM
           2831]
          Length = 545

 Score =  679 bits (1752), Expect = 0.0,   Method: Composition-based stats.
 Identities = 320/513 (62%), Positives = 401/513 (78%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           +VSANRLELLQIADAVA EK IDR +V+  M ++I KAARS YG  +D+  EI+P+TG +
Sbjct: 3   VVSANRLELLQIADAVAREKVIDRSIVIDAMEEAIAKAARSRYGAETDVHAEIDPKTGAL 62

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            L R L VV++VEN   +I+L  AR  +P   +G V+SD LPP DFGRVA QSAKQVI+Q
Sbjct: 63  RLSRHLLVVDQVENDAREITLDQARRYNPGALVGDVISDTLPPFDFGRVAAQSAKQVIVQ 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVR+AER RQ+ E+KD++GEI++G VKRVEYGNVIVDLG  +G++RRDE I RE  RPGD
Sbjct: 123 KVRDAERARQFDEYKDRIGEILNGIVKRVEYGNVIVDLGRGEGIVRRDEMIPRETFRPGD 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R++SY++DVR E RGPQ+ LSR+HPQFM KLF  EVPEIY+GIV+VKAV+RDPGSRAK+A
Sbjct: 183 RIRSYLFDVRSEVRGPQIFLSRSHPQFMAKLFGQEVPEIYDGIVEVKAVARDPGSRAKIA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATF++NAL+PA V KVV
Sbjct: 243 VISRDGSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSEDEATFIVNALQPAEVVKVV 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDE+  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F ERTQ
Sbjct: 303 LDEEADRIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESERRQKEFAERTQ 362

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+A++VDE +  LL AEGF +VEE+A V I E++ I+G DEET  EIQ RA+++L  I
Sbjct: 363 VFMEALDVDETVGQLLAAEGFRNVEEIAYVDIQELSGIQGLDEETGTEIQARAQDHLARI 422

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +     +  ELGVS+EL  I GI + + VALGEN +KT+EDLAGC+ DDL+G++E +G +
Sbjct: 423 EQAHDARRTELGVSDELREIEGITTPMMVALGENDVKTVEDLAGCATDDLVGYTEGRGPD 482

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
             +  G+L      + + E++I+ AR K GWIE
Sbjct: 483 AVRHAGYLDGFDLSRAEAEALIMAARLKAGWIE 515


>gi|91974715|ref|YP_567374.1| transcription elongation factor NusA [Rhodopseudomonas palustris
           BisB5]
 gi|91681171|gb|ABE37473.1| NusA antitermination factor [Rhodopseudomonas palustris BisB5]
          Length = 540

 Score =  678 bits (1751), Expect = 0.0,   Method: Composition-based stats.
 Identities = 322/525 (61%), Positives = 410/525 (78%), Gaps = 3/525 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSAN+LELLQIADAVA EKSIDR +V++ M D+I KAAR+ YG+ +D+  EI+ + G++ 
Sbjct: 3   VSANKLELLQIADAVAREKSIDRGIVIAAMEDAIAKAARARYGSETDVHAEIDAKKGELR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VV++VEN   QISLK A+  +P   IG  ++D LPP+++GR+A QSAKQVI+QK
Sbjct: 63  LSRHMLVVDKVENAANQISLKDAQRANPGAQIGDTIADTLPPLEYGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY+EFKD++G++++G VKRVEYG+VIVDLG  + ++RRDE + RE+ R GDR
Sbjct: 123 VREAERDRQYMEFKDRIGDVVNGVVKRVEYGSVIVDLGRGEAIVRRDEMLPRESFRNGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YI+DVRRE RGPQ+ LSRTHPQFM KLF  EVPEIY+GIV++KAV+RDPGSRAK+ V
Sbjct: 183 VRAYIFDVRRETRGPQIFLSRTHPQFMAKLFQQEVPEIYDGIVEIKAVARDPGSRAKIGV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSS+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+NAL PA V+KVV+
Sbjct: 243 VSRDSSVDPVGACVGMRGSRVQAVVNELQGEKIDIIPWSPDIATFVVNALAPAEVSKVVI 302

Query: 302 DEDVGRIEVIVPK--EQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           DED  RIEV+VP    QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQ DF   T
Sbjct: 303 DEDRERIEVVVPDTNNQLSLAIGRRGQNVRLASQLTGWDIDILTETEESERRQADFENST 362

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM+A+NVDE++  LL +EGF  VEELA V I E+ASIEGFDEETA E+Q RA EYL+ 
Sbjct: 363 RVFMEALNVDEVVGQLLASEGFTSVEELAMVDIRELASIEGFDEETATELQARAAEYLDR 422

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           ++  L+ + +ELGV + L  +PG+ SK+ V LGE  +KT+EDLAGC+ DDL+GW+E K G
Sbjct: 423 VETELEARRQELGVEDALKDVPGVTSKMLVKLGEGDVKTVEDLAGCATDDLVGWTERKEG 482

Query: 480 -NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQ 523
               K+ G L  +   +D  E +I+ AR K GWI +E++A    +
Sbjct: 483 AEPVKYAGILDGVEMTRDDAEHLIMQARVKAGWITEEELAQTADK 527


>gi|254471028|ref|ZP_05084431.1| N-utilization substance protein A [Pseudovibrio sp. JE062]
 gi|211960170|gb|EEA95367.1| N-utilization substance protein A [Pseudovibrio sp. JE062]
          Length = 572

 Score =  678 bits (1751), Expect = 0.0,   Method: Composition-based stats.
 Identities = 327/515 (63%), Positives = 411/515 (79%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIADAVA EKSIDR +V++ + D+IQKAARS YGT +++R EINP+TG+I 
Sbjct: 3   ISANRLELLQIADAVAREKSIDRSIVIAALEDAIQKAARSRYGTETEVRAEINPKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL+VVE VEN + +I+L  A++R+P   IG  ++DPLPP+DFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLQVVEVVENISTEIALVDAQERNPDATIGDFMADPLPPLDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERD+QY EFKD++GE+++  VKRVEYGNV+VD G  + ++RRDE I RE  R GDR
Sbjct: 123 VREAERDQQYDEFKDRIGEVLNAVVKRVEYGNVVVDTGKGEAIVRRDELIPREIFRNGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++ I+DVRREQRGPQV LSRTHPQFM KLF  EVPEIY+G++++KAV+RDPGSRAK+AV
Sbjct: 183 IRALIFDVRREQRGPQVFLSRTHPQFMAKLFAQEVPEIYDGVIEIKAVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D+ATF++NAL+PA V KVVL
Sbjct: 243 LSNDGSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWNDDAATFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F  R+  
Sbjct: 303 DEDSERIEVVVPNDQLSLAIGRRGQNVRLASQLTGWGIDIMTEAEESERRQKEFQIRSDL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F   +NVDE+++ LL +EGF  VEE+A V I EI+SIEGFDEETA EIQ RAREYLE  +
Sbjct: 363 FQNTLNVDEMVSQLLASEGFTSVEEVAYVDIDEISSIEGFDEETADEIQARAREYLEEQE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L ++ R+LGVSEEL  +PG+ S + VALG++ IKTMEDLAGC+ DDL+GW+E K    
Sbjct: 423 AKLAEERRQLGVSEELVQVPGLTSAMLVALGKDEIKTMEDLAGCAADDLVGWTERKDKET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
            + +G LS     +   E++++ AR   GWI  E 
Sbjct: 483 IRVEGTLSGFDLSRADAEAIVMSARVAAGWISPED 517


>gi|240139447|ref|YP_002963922.1| transcription termination/antitermination L factor
           [Methylobacterium extorquens AM1]
 gi|240009419|gb|ACS40645.1| transcription termination/antitermination L factor
           [Methylobacterium extorquens AM1]
          Length = 545

 Score =  677 bits (1749), Expect = 0.0,   Method: Composition-based stats.
 Identities = 321/527 (60%), Positives = 406/527 (77%), Gaps = 2/527 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           +VSANRLELLQIA+AVA EK IDR +V+  M ++I KAARS YG  +D+  EI+ ++G +
Sbjct: 3   VVSANRLELLQIAEAVAREKVIDRQIVIEAMEEAIAKAARSRYGAETDVHAEIDTKSGAL 62

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            L R L VV++VEN   +I+L  AR  +P   IG V+SD LPP DFGRVA QSAKQVI+Q
Sbjct: 63  RLSRHLLVVDQVENDAREITLDQARRYNPGALIGDVISDTLPPFDFGRVAAQSAKQVIVQ 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVR+AER RQY E+KD++GEI++G VKRVEYGNVIVDLG  +G++RRDE I RE  RPGD
Sbjct: 123 KVRDAERARQYDEYKDRIGEILNGVVKRVEYGNVIVDLGRGEGIVRRDEMIPRETFRPGD 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+++Y++DVR E RGPQ+ LSR+HPQFM KLF  EVPEIY+GIV+VKAV+RDPGSRAK+A
Sbjct: 183 RIRAYLFDVRSEVRGPQIFLSRSHPQFMAKLFGQEVPEIYDGIVEVKAVARDPGSRAKIA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATF++NAL+PA V KVV
Sbjct: 243 VISRDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSEDQATFIVNALQPAEVVKVV 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDE+  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F ERTQ
Sbjct: 303 LDEEADRIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESERRQKEFAERTQ 362

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+A++VDE +  LL AEGF +VEE+A V ++E+++I+G DEET  EIQ RA++YL  I
Sbjct: 363 AFMEALDVDETVGQLLAAEGFRNVEEIAFVDVAELSNIQGLDEETGAEIQARAQDYLARI 422

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +     + RELGV +EL  I GI + + VALGEN +KT+EDLAGC+ DDL+G++E +G  
Sbjct: 423 EQEQDDRRRELGVEDELREIDGITTAMMVALGENEVKTVEDLAGCATDDLVGYTEGRGPE 482

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE--KEKVADEEVQDA 525
             +  G+L      + + E++I+ AR K GWI+   E   +    DA
Sbjct: 483 AVRHAGYLDGFELSRAEAEALIMAARLKAGWIDALPEPEGEASEGDA 529


>gi|218530876|ref|YP_002421692.1| NusA antitermination factor [Methylobacterium chloromethanicum CM4]
 gi|254561862|ref|YP_003068957.1| transcription termination/antitermination L factor
           [Methylobacterium extorquens DM4]
 gi|218523179|gb|ACK83764.1| NusA antitermination factor [Methylobacterium chloromethanicum CM4]
 gi|254269140|emb|CAX25104.1| transcription termination/antitermination L factor
           [Methylobacterium extorquens DM4]
          Length = 545

 Score =  677 bits (1747), Expect = 0.0,   Method: Composition-based stats.
 Identities = 321/527 (60%), Positives = 406/527 (77%), Gaps = 2/527 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           +VSANRLELLQIA+AVA EK IDR +V+  M ++I KAARS YG  +D+  EI+ ++G +
Sbjct: 3   VVSANRLELLQIAEAVAREKVIDRQIVIEAMEEAIAKAARSRYGAETDVHAEIDTKSGAL 62

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            L R L VV++VEN   +I+L  AR  +P   IG V+SD LPP DFGRVA QSAKQVI+Q
Sbjct: 63  RLSRHLLVVDQVENDAREITLDQARRYNPGALIGDVISDTLPPFDFGRVAAQSAKQVIVQ 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVR+AER RQY E+KD++GEI++G VKRVEYGNVIVDLG  +G++RRDE I RE  RPGD
Sbjct: 123 KVRDAERARQYDEYKDRIGEILNGVVKRVEYGNVIVDLGRGEGIVRRDEMIPRETFRPGD 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+++Y++DVR E RGPQ+ LSR+HPQFM KLF  EVPEIY+GIV+VKAV+RDPGSRAK+A
Sbjct: 183 RIRAYLFDVRSEVRGPQIFLSRSHPQFMAKLFGQEVPEIYDGIVEVKAVARDPGSRAKIA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATF++NAL+PA V KVV
Sbjct: 243 VISRDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSEDQATFIVNALQPAEVVKVV 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDE+  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F ERTQ
Sbjct: 303 LDEEADRIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESERRQKEFAERTQ 362

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+A++VDE +  LL AEGF +VEE+A V ++E+++I+G DEET  EIQ RA++YL  I
Sbjct: 363 AFMEALDVDETVGQLLAAEGFRNVEEIAFVDVAELSNIQGLDEETGAEIQARAQDYLARI 422

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +     + RELGV +EL  I GI + + VALGEN +KT+EDLAGC+ DDL+G++E +G  
Sbjct: 423 EQEQDDRRRELGVEDELREIDGITTAMMVALGENEVKTVEDLAGCATDDLVGYTEGRGPE 482

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE--KEKVADEEVQDA 525
             +  G+L      + + E++I+ AR K GWI+   E   +    DA
Sbjct: 483 AVRHAGYLDGFELSRAEAEALIMAARLKAGWIDALPEPEGEAAEGDA 529


>gi|163852118|ref|YP_001640161.1| transcription termination factor NusA [Methylobacterium extorquens
           PA1]
 gi|163663723|gb|ABY31090.1| transcription termination factor NusA [Methylobacterium extorquens
           PA1]
          Length = 545

 Score =  677 bits (1747), Expect = 0.0,   Method: Composition-based stats.
 Identities = 321/527 (60%), Positives = 406/527 (77%), Gaps = 2/527 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           +VSANRLELLQIA+AVA EK IDR +V+  M ++I KAARS YG  +D+  EI+ ++G +
Sbjct: 3   VVSANRLELLQIAEAVAREKVIDRQIVIEAMEEAIAKAARSRYGAETDVHAEIDTKSGAL 62

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            L R L VV++VEN   +I+L  AR  +P   IG V+SD LPP DFGRVA QSAKQVI+Q
Sbjct: 63  RLSRHLLVVDQVENDAREITLDQARRYNPGALIGDVISDTLPPFDFGRVAAQSAKQVIVQ 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVR+AER RQY E+KD++GEI++G VKRVEYGNVIVDLG  +G++RRDE I RE  RPGD
Sbjct: 123 KVRDAERARQYDEYKDRIGEILNGVVKRVEYGNVIVDLGRGEGIVRRDEMIPRETFRPGD 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+++Y++DVR E RGPQ+ LSR+HPQFM KLF  EVPEIY+GIV+VKAV+RDPGSRAK+A
Sbjct: 183 RIRAYLFDVRSEVRGPQIFLSRSHPQFMAKLFGQEVPEIYDGIVEVKAVARDPGSRAKIA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATF++NAL+PA V KVV
Sbjct: 243 VISRDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSEDQATFIVNALQPAEVVKVV 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDE+  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE E+S  RQK+F ERTQ
Sbjct: 303 LDEEADRIEVVVPDDQLSLAIGRRGQNVRLASQLTGWDIDILTEAEESERRQKEFAERTQ 362

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+A++VDE +  LL AEGF +VEE+A V ++E+++I+G DEET  EIQ RA++YL  I
Sbjct: 363 AFMEALDVDETVGQLLAAEGFRNVEEIAFVDVAELSNIQGLDEETGAEIQARAQDYLARI 422

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +     + RELGV +EL  I GI + + VALGEN +KT+EDLAGC+ DDL+G++E +G  
Sbjct: 423 EQEQDDRRRELGVEDELREIDGITTAMMVALGENEVKTVEDLAGCATDDLVGYTEGRGPE 482

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE--KEKVADEEVQDA 525
             +  G+L      + + E++I+ AR K GWI+   E   +    DA
Sbjct: 483 AVRHAGYLDGFELSRAEAEALIMAARLKAGWIDALPEPEGEAAEGDA 529


>gi|126728006|ref|ZP_01743822.1| transcription elongation factor NusA [Sagittula stellata E-37]
 gi|126710971|gb|EBA10021.1| transcription elongation factor NusA [Sagittula stellata E-37]
          Length = 538

 Score =  675 bits (1743), Expect = 0.0,   Method: Composition-based stats.
 Identities = 288/519 (55%), Positives = 383/519 (73%), Gaps = 2/519 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVVEAMEESLARAAKSRYGAEMDIRVSIDRKTGRA 62

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE  E+ENY  +++++ A+       +G    + +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEDEELENYQAELTVQQAKQYMADPKVGDTFVEEVPPVELGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRAGTIINGLVKREEYGNVIVDVGRGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDR++ Y+ DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+GI++VKAV+RDPGSRAK
Sbjct: 183 GDRIRCYVKDVRRETRGPQIFLSRTAPEFMRELFKMEVPEIYDGIIEVKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D+ IDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDNGIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDVPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+  RIEV+VP EQLSLAIGRRGQNVRLASQLTG  IDI+TEEE+S  RQK+F ER
Sbjct: 303 VVLDEEAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGLDIDIMTEEEESKRRQKEFEER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           TQ FM  +++DE  A LLV+EGF ++EE+A V++ E+  I+G DE TA E+Q RA+EYLE
Sbjct: 363 TQLFMDTLDLDEFFAQLLVSEGFTNLEEVAYVEMDELLVIDGVDEGTAAELQTRAQEYLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                 + + RELG  + L +  G+  ++ VAL E+G+KT+ED A C+  +L G    + 
Sbjct: 423 EQARQAEARARELGADDSLLAFEGLTPQMVVALAEDGVKTLEDFATCADWELAGGWTTQD 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
           G   K DG L   G   D+ ++M++ AR  +GW++ E++
Sbjct: 483 GQRVKDDGLLEKFGIDLDEAQNMVMTARVMLGWVDPEEL 521


>gi|146278788|ref|YP_001168947.1| transcription elongation factor NusA [Rhodobacter sphaeroides ATCC
           17025]
 gi|145557029|gb|ABP71642.1| NusA antitermination factor [Rhodobacter sphaeroides ATCC 17025]
          Length = 534

 Score =  674 bits (1740), Expect = 0.0,   Method: Composition-based stats.
 Identities = 285/516 (55%), Positives = 382/516 (74%), Gaps = 2/516 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID D+V+  M +S+ +AA+S YG+  DIRV+I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPDLVIQAMEESLARAAKSRYGSDLDIRVKIDRKTGRA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE+  VEN+  QI++K A+       IG  + D +PP+D GR+A QSAKQVI
Sbjct: 63  TFARIRTVVEDEAVENHHAQITVKQAKSYKSDPQIGDEIIDEVPPVDLGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGN+IVD+G  +G++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYDEFKDRKGSIINGVVKREEYGNIIVDIGRGEGILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR+++YI DVRRE RGPQV LSRT PQFM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRAYIKDVRREARGPQVFLSRTDPQFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D ATF++NAL+PA V+K
Sbjct: 243 IAVISYDNSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNQDQATFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VV+DE+ G+IEV+VP EQLSLAIGRRGQNVRLASQLT   IDI+TE ++S  RQ +F ER
Sbjct: 303 VVIDEEAGKIEVVVPDEQLSLAIGRRGQNVRLASQLTALDIDIMTEADESARRQAEFAER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T  FM+   +DE++A LLV+EGF ++EE+A V   E+ SI+GFDE+TA E+Q RAR++LE
Sbjct: 363 TNLFMETPGIDEMMAQLLVSEGFTNLEEVAYVDPEELLSIDGFDEDTAAELQARARDHLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             +    +  R LG+ + L +  G+  ++  AL ++GIKT+ED A C+  +L G      
Sbjct: 423 EANRKALESARALGLEDSLANFEGLTPQMLEALAKDGIKTLEDFATCADWELAGGWTTVN 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
           G   K +G L       ++ + +++ AR  +GW++ 
Sbjct: 483 GQRVKDEGVLEKFDVSLEEAQHLVMTARVMLGWVDP 518


>gi|56694991|ref|YP_165337.1| transcription elongation factor NusA [Ruegeria pomeroyi DSS-3]
 gi|56676728|gb|AAV93394.1| transcription termination factor NusA [Ruegeria pomeroyi DSS-3]
          Length = 541

 Score =  673 bits (1738), Expect = 0.0,   Method: Composition-based stats.
 Identities = 280/516 (54%), Positives = 370/516 (71%), Gaps = 2/516 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVIEAMEESLARAAKSRYGAEMDIRVSIDRKTGKA 62

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VV  EE+ENY  + ++  A+    +  IG    + +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVADEELENYQAEFTVDQAKQYMENPQIGDTFVEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRAGTIINGLVKREEYGNVIVDVGAGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ YI DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRCYIKDVRREPRGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDNSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TE E+S  RQK+F  R
Sbjct: 303 VVLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEAEESARRQKEFESR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T  FM+ +++DE  A LLV+EGF ++EE+A V++ E+  I+G DE TA E+Q RAR+YLE
Sbjct: 363 TNLFMETLDLDEFFAQLLVSEGFTNLEEVAYVELDELLVIDGVDEGTAEELQARARDYLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                     R LG  + L    G+  ++  AL ++ +KT+ED A C+  +L G      
Sbjct: 423 AQAKAALDNARALGAEDSLIQFEGLTPQMVEALAKDDVKTLEDFATCADWELAGGWTTVD 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
           G   K DG L   G   +  + M++ AR  +GW++ 
Sbjct: 483 GQRVKDDGILEPFGVSLEDAQDMVMTARVMLGWVDP 518


>gi|119385319|ref|YP_916375.1| transcription elongation factor NusA [Paracoccus denitrificans
           PD1222]
 gi|119375086|gb|ABL70679.1| NusA antitermination factor [Paracoccus denitrificans PD1222]
          Length = 559

 Score =  671 bits (1732), Expect = 0.0,   Method: Composition-based stats.
 Identities = 292/548 (53%), Positives = 382/548 (69%), Gaps = 23/548 (4%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID D+V+  M DS+ +AA+S YG+  DIRV I+ +TG+ 
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPDLVIEAMEDSLARAAKSRYGSEMDIRVHIDRKTGNA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVAR---------------------DRDPSIDIGGVV 97
           +  R   VVE+  VENY  Q +   A                      D       G V 
Sbjct: 63  TFTRARTVVEDEAVENYQAQFTADQAAPYFEPSKDGRAHWLRDGAQLADFSGRPQPGDVF 122

Query: 98  SDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVD 157
            + +PP+D GR+A QSAKQVI+Q+VREAERDRQY EFKD+VG II+G VKR EYGN+IVD
Sbjct: 123 EEQVPPVDLGRIAAQSAKQVILQRVREAERDRQYEEFKDRVGSIINGVVKREEYGNIIVD 182

Query: 158 LGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVP 217
           +G  + ++RR+E I RE+ RP DR+++Y+ DVRRE RGPQ+ LSRT PQFM +LF MEVP
Sbjct: 183 VGRGEAILRRNEKIGRESYRPNDRIRAYVKDVRREARGPQIFLSRTDPQFMAELFKMEVP 242

Query: 218 EIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIV 277
           EIY+G++++KAV+RDPGSRAK+AV S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+
Sbjct: 243 EIYDGVIEIKAVARDPGSRAKIAVISYDNSIDPVGACVGMRGSRVQAVVGELQGEKIDII 302

Query: 278 VWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
            WS D ATF++NAL+PA V KVV DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTG 
Sbjct: 303 PWSDDQATFLVNALQPAEVAKVVFDEDATRIEVVVPDEQLSLAIGRRGQNVRLASQLTGL 362

Query: 338 TIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIAS 397
            IDI+TEEE+S  RQ +FN RT+ FM A+++DE  A LLVAEGF ++EE+A V + E+ S
Sbjct: 363 DIDILTEEEESKRRQAEFNARTKLFMDALDLDEFFAQLLVAEGFTNLEEVAYVDLDELLS 422

Query: 398 IEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIK 457
           IEG DE TA E+Q RARE+LE  +    +  R LGV + L    G+  ++  AL ++G+K
Sbjct: 423 IEGVDEGTAEELQTRAREHLEAANKAALENARALGVEDSLIEFEGLTPQMVEALAKDGVK 482

Query: 458 TMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
           T+ED A C+  +L G    + G   K DG L       ++ ++M++ AR  +GW++  ++
Sbjct: 483 TLEDFATCADWELAGGWTTQNGQRVKDDGILEPFDVSLEEAQTMVMTARVMLGWVDPTEL 542

Query: 518 ADEEVQDA 525
              +  +A
Sbjct: 543 ESADEAEA 550


>gi|260429111|ref|ZP_05783088.1| NusA antitermination factor [Citreicella sp. SE45]
 gi|260419734|gb|EEX12987.1| NusA antitermination factor [Citreicella sp. SE45]
          Length = 543

 Score =  670 bits (1730), Expect = 0.0,   Method: Composition-based stats.
 Identities = 289/516 (56%), Positives = 379/516 (73%), Gaps = 2/516 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG+  DIRV+I+  TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVIEAMEESLARAAKSRYGSEMDIRVKIDRRTGRA 62

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE  E+ENY  ++++K A+       +G    + +PP+D GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEDEELENYQAELTVKQAKQYMADPKVGDQFIEEVPPVDMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+GTVKR EYGNVIVD+G  +G++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYDEFKDRAGTIINGTVKREEYGNVIVDIGRGEGILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDR++ YI DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 GDRIRCYIKDVRREARGPQIFLSRTSPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDVPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDED  RIEV+VP EQLSLAIGRRGQNVRLASQLTG  IDI+TEEE+S  RQ +F +R
Sbjct: 303 VVLDEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGLDIDIMTEEEESKRRQAEFEQR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ FM  +++DE  A LLVAEGF ++EE+A V++ E+  I+G DE+TA E+Q RARE+LE
Sbjct: 363 TKLFMDTLDLDEFFAQLLVAEGFTNLEEVAYVELDELLVIDGVDEDTAQELQTRAREFLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                  +  RELG  + L    G+  ++  AL E+G+KT+ED A C+  +L G    +G
Sbjct: 423 EQARKALEHARELGAEDSLIEFEGLTPQMVEALAEDGVKTLEDFATCADWELAGGWTTEG 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
           G   K DG L        + +++I+ AR  +GW++ 
Sbjct: 483 GERVKDDGLLEKFDVDLAEAQNLIMTARVLLGWVDP 518


>gi|77464744|ref|YP_354248.1| transcription elongation factor NusA [Rhodobacter sphaeroides
           2.4.1]
 gi|126463584|ref|YP_001044698.1| transcription elongation factor NusA [Rhodobacter sphaeroides ATCC
           17029]
 gi|221640658|ref|YP_002526920.1| transcription elongation factor NusA [Rhodobacter sphaeroides
           KD131]
 gi|332559637|ref|ZP_08413959.1| transcription elongation factor NusA [Rhodobacter sphaeroides WS8N]
 gi|77389162|gb|ABA80347.1| N-utilization substance protein A [Rhodobacter sphaeroides 2.4.1]
 gi|126105248|gb|ABN77926.1| NusA antitermination factor [Rhodobacter sphaeroides ATCC 17029]
 gi|221161439|gb|ACM02419.1| NusA antitermination factor [Rhodobacter sphaeroides KD131]
 gi|332277349|gb|EGJ22664.1| transcription elongation factor NusA [Rhodobacter sphaeroides WS8N]
          Length = 535

 Score =  670 bits (1729), Expect = 0.0,   Method: Composition-based stats.
 Identities = 284/516 (55%), Positives = 383/516 (74%), Gaps = 2/516 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID D+V+  M +S+ +AA+S YG+  DIRV+I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPDLVIQAMEESLARAAKSRYGSDLDIRVKIDRKTGRA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE+  +EN+  Q+++K AR       IG  + D +PP+D GR+A QSAKQVI
Sbjct: 63  TFARIRTVVEDELIENHHAQVTVKQARSYLADPKIGDEIIDEVPPVDLGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGN+IVD+G  +G++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYDEFKDRKGTIINGVVKREEYGNIIVDIGRGEGILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR+++YI DVRRE RGPQV LSRT PQFM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRAYIKDVRREARGPQVFLSRTDPQFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D ATF++NAL+PA V+K
Sbjct: 243 IAVISYDNSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNQDQATFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VV+DE+ G+IEV+VP EQLSLAIGRRGQNVRLASQLT   IDI+TE ++S  RQ +F ER
Sbjct: 303 VVIDEEAGKIEVVVPDEQLSLAIGRRGQNVRLASQLTALDIDIMTEADESARRQAEFAER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T  FM+ +++DE++A LLV+EGF ++EE+A V   E+ SI+GFDE+TA E+Q RAR++LE
Sbjct: 363 TNLFMETLDIDEMMAQLLVSEGFTNLEEVAYVDPEELLSIDGFDEDTAAELQARARDHLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             +    +  R LG+ + L    G+  ++  AL ++GIKT+ED A C+  +L G      
Sbjct: 423 EANRKALESARALGLEDSLAGFEGLTPQMLEALAKDGIKTLEDFATCADWELAGGWTTVN 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
           G   K +G L       ++ + +++ AR  +GW++ 
Sbjct: 483 GQRVKDEGVLEKFDVSLEEAQHLVMTARVMLGWVDP 518


>gi|300024995|ref|YP_003757606.1| NusA antitermination factor [Hyphomicrobium denitrificans ATCC
           51888]
 gi|299526816|gb|ADJ25285.1| NusA antitermination factor [Hyphomicrobium denitrificans ATCC
           51888]
          Length = 543

 Score =  670 bits (1729), Expect = 0.0,   Method: Composition-based stats.
 Identities = 330/531 (62%), Positives = 419/531 (78%), Gaps = 6/531 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIADAVA EK+ID+ +V+  M D+IQKAA+S YG  +DIR EI+P+TG+  
Sbjct: 6   ISANRLELLQIADAVAREKTIDKKIVIEAMEDAIQKAAKSRYGAENDIRCEIDPKTGEAK 65

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R+L VVE VEN   QI+++ A+ R+P    G ++++ LPP++FGRVA Q+AKQVI+QK
Sbjct: 66  LTRVLAVVEAVENDATQITVEDAKKRNPEAKAGDMIAETLPPLEFGRVAAQNAKQVIVQK 125

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQ+ E+KD+VG+  +GTVKRVEYGNVIVDLG ++G+IRRDE I REN+R GDR
Sbjct: 126 VREAERDRQFAEYKDRVGDTTNGTVKRVEYGNVIVDLGRAEGIIRRDEMIPRENVRLGDR 185

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++++IYDVRREQRGPQ+ L+R  P+FM  LF  EVPEIY+G+V++K+V+RDPGSRAK+AV
Sbjct: 186 IRAFIYDVRREQRGPQIFLTRARPEFMSSLFRAEVPEIYDGVVEIKSVARDPGSRAKIAV 245

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGMRG+RVQAVV EL+ EK+DI+ W+PD+A+F++NAL PA VTKVVL
Sbjct: 246 ISKDSSIDPVGACVGMRGARVQAVVNELQGEKVDIIQWNPDAASFIVNALAPAEVTKVVL 305

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP+ QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ERTQ 
Sbjct: 306 DEDSNRIEVVVPEAQLSLAIGRRGQNVRLASQLTGWDIDILTEQEESERRQKEFAERTQL 365

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
            M A++VDE+IA LLV EGFA VEE+A V ISEIA IEGFDE TA +IQ RARE++E  +
Sbjct: 366 LMDALDVDEVIAQLLVTEGFASVEEVAYVDISEIAHIEGFDEGTAEQIQIRAREFIEQQE 425

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG-- 479
                K RELGV++EL  IPGI++ + VALGENGIKT+ED A C+ D+L+GW++ K    
Sbjct: 426 AERDAKRRELGVADELAEIPGINTAMMVALGENGIKTVEDFADCATDELVGWTDRKKDKD 485

Query: 480 -NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV---ADEEVQDAS 526
               K  GFL      +  VE+MI+ AR   GWI+ E +   A+ E + AS
Sbjct: 486 TEPVKHKGFLDGFELSRTDVENMIMAARVHAGWIKAEDLQKPAEGEPEAAS 536


>gi|312115896|ref|YP_004013492.1| NusA antitermination factor [Rhodomicrobium vannielii ATCC 17100]
 gi|311221025|gb|ADP72393.1| NusA antitermination factor [Rhodomicrobium vannielii ATCC 17100]
          Length = 581

 Score =  669 bits (1726), Expect = 0.0,   Method: Composition-based stats.
 Identities = 325/511 (63%), Positives = 405/511 (79%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIADAVA EKSIDR +VLS M D+IQKAA+S YG+ ++IR EI+P TG+I 
Sbjct: 6   ISANRLELLQIADAVAREKSIDRTLVLSAMEDAIQKAAKSRYGSENEIRAEIDPRTGEIR 65

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE V     +ISLK A  R+P  ++G  +++PLPP+DFGRVA Q+AKQVI+QK
Sbjct: 66  LSRLLEVVERVTLDATEISLKDAMKRNPEAEVGDFIAEPLPPLDFGRVAAQNAKQVIVQK 125

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAER+RQ+ E+KD++ EI+SG VKR EYGNV++DLG ++ +IRRDET+ REN + GDR
Sbjct: 126 VREAERERQFEEYKDRMSEIVSGVVKRAEYGNVMIDLGRAEAIIRRDETLPRENYKLGDR 185

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRRE RGPQ+ LSRT P+FM KLF  EVPEIY+GIV++K+V+RDPGSRAK+AV
Sbjct: 186 VRAYVYDVRRENRGPQIFLSRTRPEFMAKLFAQEVPEIYDGIVEIKSVARDPGSRAKIAV 245

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S ++S+DPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATF++NAL PA V KVVL
Sbjct: 246 VSKETSVDPVGACVGMRGSRVQAVVNELQGEKIDIIQWSGDPATFIVNALAPAEVAKVVL 305

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  RIEV+VP EQLSLAIGR+GQNVRLASQLTGW IDI+TE E+S  RQK+F ERT  
Sbjct: 306 DEESERIEVVVPDEQLSLAIGRKGQNVRLASQLTGWDIDILTEAEESERRQKEFAERTAA 365

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F+ A++VDE+IA LLV+EGFA VEELA V   E+A IEGFDE TA+EIQ RARE+LE  +
Sbjct: 366 FVNALDVDEMIAQLLVSEGFASVEELAFVDSHEVAIIEGFDENTALEIQERAREFLERQE 425

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L +K R LGV++EL  +PG+ + + VA GEN IKT+EDLA C+ D+L GW+E   G  
Sbjct: 426 AELNEKRRALGVADELAEVPGVTTAMLVAFGENNIKTVEDLADCATDELAGWTERAHGQT 485

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
           ++  G L      K  +E +II AR K GWI
Sbjct: 486 KQNPGILQGFDLSKSDIEHLIIAARVKAGWI 516


>gi|159046101|ref|YP_001534895.1| transcription elongation factor NusA [Dinoroseobacter shibae DFL
           12]
 gi|157913861|gb|ABV95294.1| transcription elongation protein nusA [Dinoroseobacter shibae DFL
           12]
          Length = 544

 Score =  668 bits (1725), Expect = 0.0,   Method: Composition-based stats.
 Identities = 287/526 (54%), Positives = 384/526 (73%), Gaps = 2/526 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG+  DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVIEAMEESLARAAKSRYGSEMDIRVSIDRKTGVA 62

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE  E+ENY  +++++ A+       +G  + D +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEDEELENYQAELTVEQAKPYLDDPKVGDTIVDQVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G  +GV+RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRAGTIINGVVKREEYGNVIVDIGRGEGVLRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ YI DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRCYIKDVRREVRGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDED  RIEV+VP EQLSLAIGRRGQNVRLASQLTG  IDI+TE ++S  RQ +F ER
Sbjct: 303 VVLDEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGLDIDIMTEAQESERRQAEFAER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T  F++A++VDE++A LLV+EGF ++EE+A V+  E+  I+GFDE+TA E+Q RARE+LE
Sbjct: 363 TNMFVEALDVDEVLAQLLVSEGFTNLEEVAYVEQEELLVIDGFDEDTAEELQTRAREFLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                  ++ RE+GV + L    G+  ++  AL  +G+KT+ED A C+  +L G      
Sbjct: 423 EQAKKALERAREMGVEDSLVEFEGLTPQMLEALAADGVKTLEDFATCADWELAGGWTTVD 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQD 524
           G   K +G L       ++ + +++ AR ++GW+  E +  EE  D
Sbjct: 483 GERVKDEGVLEKFDVSLEEAQLLVMTARVQLGWVNPEDLEIEEDAD 528


>gi|260576186|ref|ZP_05844179.1| NusA antitermination factor [Rhodobacter sp. SW2]
 gi|259021666|gb|EEW24969.1| NusA antitermination factor [Rhodobacter sp. SW2]
          Length = 533

 Score =  668 bits (1725), Expect = 0.0,   Method: Composition-based stats.
 Identities = 285/519 (54%), Positives = 382/519 (73%), Gaps = 2/519 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID D+V+  M +S+ +AA+S YG   DIRV+I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPDLVIQAMEESLARAAKSRYGAELDIRVKIDRKTGRA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE+  +EN+  Q++LK A    P   +G  V D +PP+D GR+A QSAKQVI
Sbjct: 63  TFARIRTVVEDEALENHHAQLTLKQAVAIKPDAVVGDEVIDEVPPVDLGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQ+ EFKD+ G II+G VKR EYGN+IVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQFEEFKDRKGSIINGVVKREEYGNIIVDIGRGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR+++YI DVRRE RGPQV LSRT PQFM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRAYIKDVRREARGPQVFLSRTDPQFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D ATF++NAL+PA V+K
Sbjct: 243 IAVISYDNSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNQDQATFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VV+DE+ G+I V+VP EQLSLAIGRRGQNVRLASQLT   IDI+TE +DS  RQ +F ER
Sbjct: 303 VVIDEEAGKIVVVVPDEQLSLAIGRRGQNVRLASQLTALDIDIVTETDDSARRQAEFTER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ FM  +++DE++A LLV+EGF ++EE+A V + E+ SI+GFDE TA E+Q RAR+ LE
Sbjct: 363 TKLFMDTLDIDEMMAQLLVSEGFTNLEEVAYVDLDELLSIDGFDEATAGELQARARDNLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             +I   +  R LGV + L +  G+  ++  AL ++GIKT+ED A C+  +L G      
Sbjct: 423 AANIKAMENARALGVEDSLVNFEGLTPQMLEALAKDGIKTLEDFATCADWELAGGWTTVN 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
           G   K  G L       ++ + +++ AR  +GW++  ++
Sbjct: 483 GARVKDQGVLEEFDVSLEEAQHLVMTARVMLGWVDPAEL 521


>gi|114762088|ref|ZP_01441556.1| transcription elongation factor NusA [Pelagibaca bermudensis
           HTCC2601]
 gi|114545112|gb|EAU48115.1| transcription elongation factor NusA [Roseovarius sp. HTCC2601]
          Length = 542

 Score =  667 bits (1721), Expect = 0.0,   Method: Composition-based stats.
 Identities = 288/516 (55%), Positives = 376/516 (72%), Gaps = 2/516 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG+  DIRV+I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPALVIEAMEESLARAAKSRYGSEMDIRVKIDRKTGRA 62

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE  E+ENY  ++++K A+       +G    + +PP+D GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEDEELENYQAEMTVKQAKQYMADPQVGDQYVEEVPPVDMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+GTVKR EYGNVIVD+G  +G++RR+E I RE  RP
Sbjct: 123 LQKVREAERDRQYDEFKDRNGTIINGTVKREEYGNVIVDIGRGEGILRRNEKIGREAYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDR++ YI DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 GDRIRCYIKDVRREARGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           + V S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IGVISYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDMPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDED  RIEV+VP EQLSLAIGRRGQNVRLASQLTG  IDI+TEEE+S  RQK+F ER
Sbjct: 303 VVLDEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGLDIDIMTEEEESARRQKEFEER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ FM  +++DE  A LLVAEGF ++EE+A V++ E+  I+G D++TA E+Q RARE+LE
Sbjct: 363 TKLFMDTLDLDEFFAQLLVAEGFTNLEEVAYVELDELLVIDGVDDDTAQELQTRAREFLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                     RELG  + L    G+  ++  AL E+G+KT+ED A C+  +L G      
Sbjct: 423 EQARKALAHARELGAEDSLIEFDGLTPQMVEALAEDGVKTLEDFATCADWELAGGWTTVN 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
           G   K DG L        + +++I+ AR  +GW++ 
Sbjct: 483 GERVKDDGLLEKFDVDLAEAQNLIMTARVLLGWVDP 518


>gi|307942744|ref|ZP_07658089.1| transcription elongation protein NusA [Roseibium sp. TrichSKD4]
 gi|307773540|gb|EFO32756.1| transcription elongation protein NusA [Roseibium sp. TrichSKD4]
          Length = 559

 Score =  666 bits (1720), Expect = 0.0,   Method: Composition-based stats.
 Identities = 332/522 (63%), Positives = 425/522 (81%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIADAVA EKSIDR +V+S M D+IQKAARS YGT +++R EINP+TGDI 
Sbjct: 3   ISANRLELLQIADAVAREKSIDRTIVISAMEDAIQKAARSRYGTETEVRAEINPKTGDIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL+VVE VEN + +I+++ AR R+P   +G  ++DPLPP+DFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLQVVEVVENVSTEIAVEDARQRNPEAALGDFIADPLPPLDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD+VGE+I+G VKR EYGNVIVDLG ++ ++RRDE I RE  R GDR
Sbjct: 123 VREAERDRQYDEYKDRVGEVINGVVKRAEYGNVIVDLGRAEAIVRRDELIPREIFRTGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++YI+DVRREQRGPQ+ LSRTHPQFM KLF  EVPEIY+G+++++ V+RDPGSRAK+AV
Sbjct: 183 IRAYIHDVRREQRGPQIFLSRTHPQFMAKLFTSEVPEIYDGVIEIRTVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D ATF++NAL+PA V KVVL
Sbjct: 243 ISKDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWNEDPATFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER+Q 
Sbjct: 303 DEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWAIDIMTEQEESDRRQKEFVERSQL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM A+NVDE++  LL  EGF  VEE+A V++ EI+ IEGFD+ETA EIQ RAR+YLE ++
Sbjct: 363 FMDALNVDEMVGQLLATEGFTSVEEVAYVELDEISMIEGFDDETAEEIQARARDYLEELE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L  + +ELGVS++L SI G+   + VALG++ +K+MEDLAGC+ DDL+GW+E K G  
Sbjct: 423 AKLDAERQELGVSDDLRSIDGLTLAMMVALGKDDVKSMEDLAGCAADDLVGWTERKDGET 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQ 523
           ++++G LS+    + + E+M++ AR   GWI +E++A +  +
Sbjct: 483 KRYEGALSAFDLSRAEAEAMVMAARVAAGWITEEELAAQNAE 524


>gi|310817128|ref|YP_003965092.1| transcription elongation factor NusA [Ketogulonicigenium vulgare
           Y25]
 gi|308755863|gb|ADO43792.1| transcription elongation factor NusA [Ketogulonicigenium vulgare
           Y25]
          Length = 533

 Score =  666 bits (1720), Expect = 0.0,   Method: Composition-based stats.
 Identities = 279/515 (54%), Positives = 375/515 (72%), Gaps = 2/515 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKLIDPSLVVEAMEESLARAAKSRYGADMDIRVHIDRKTGRA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
              R+  VVE+  VENY  ++++  A+    + ++G +  + +PP+D GR+A QSAKQVI
Sbjct: 63  HFSRVRTVVEDDAVENYHAEMTVDQAKLYMSNPEVGDIFEEEIPPVDLGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QK+REAERDRQY EFK + G II+GTVKR EYGN+IVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKIREAERDRQYEEFKHRQGTIINGTVKREEYGNLIVDVGAGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ Y+ DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY G++++KAV+RDPGSRAK
Sbjct: 183 NDRIRCYVKDVRREVRGPQIFLSRTAPEFMRELFKMEVPEIYEGVIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA VTK
Sbjct: 243 IAVLSNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWNEDMPTFLVNALQPAEVTK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDED  RIEV+VP +QLSLAIGRRGQNVRLASQLT   IDI+TE E+S  RQ +F  R
Sbjct: 303 VVLDEDAERIEVVVPDDQLSLAIGRRGQNVRLASQLTNLDIDIMTESEESKRRQAEFEAR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ FM+ +++DE  A LLVAEGF ++EE+A V + E+ +IEG DE TA E+Q RAR+++E
Sbjct: 363 TKLFMETLDLDEFFAQLLVAEGFTNLEEVAYVDLDELTTIEGVDEATAGEVQARARDHIE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             +    +  R LG  + L S PG+  ++  AL ++G+KT+ED A C+  +L G      
Sbjct: 423 SQNEKALEAARALGAEDSLISFPGLTPQMVEALAKDGVKTLEDFATCADWELAGGWTTVE 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           G   K DG L       ++ ++MI+ AR  +GW++
Sbjct: 483 GKRVKDDGVLEPFDLSLEEAQTMIMTARVSLGWVD 517


>gi|84684618|ref|ZP_01012519.1| transcription elongation factor NusA [Maritimibacter alkaliphilus
           HTCC2654]
 gi|84667597|gb|EAQ14066.1| transcription elongation factor NusA [Rhodobacterales bacterium
           HTCC2654]
          Length = 539

 Score =  666 bits (1719), Expect = 0.0,   Method: Composition-based stats.
 Identities = 277/519 (53%), Positives = 377/519 (72%), Gaps = 2/519 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPSLVIEAMEESLARAAKSRYGAEMDIRVSIDRKTGRA 62

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE  E+ENY  +++++ A+    +  +G  + D +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEDEELENYQAELTVEQAKQYLDNPVVGDTIVDEVPPVELGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRAGTIINGVVKREEYGNVIVDVGAGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ Y+ DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRCYVKDVRRETRGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           + V S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V K
Sbjct: 243 IGVVSYDNSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDMPTFLVNALQPAEVAK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDED  RIEV+VP +QLSLAIGRRGQNVRLASQLTG  IDI+TEEE+S  RQ +F ER
Sbjct: 303 VVLDEDAERIEVVVPDDQLSLAIGRRGQNVRLASQLTGLDIDILTEEEESARRQAEFAER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ FM  +++DE  A LLV+EGF ++EE+A V++ E+  I+G DE+TA E+Q RAR++L+
Sbjct: 363 TKLFMDTLDLDEFFAQLLVSEGFTNLEEVAYVEVDELLVIDGVDEDTANELQARARDFLD 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             +    +  + LGV + L    G+  ++  AL ++G+ T+ED A C+  +L G      
Sbjct: 423 EQNRKALENAKALGVQDSLIGFEGLTPQMIEALAKDGVFTLEDFATCADWELAGGWTTVD 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
           G   K DG L       ++ ++MI+ AR ++GW++   +
Sbjct: 483 GERSKDDGVLEPFDVGLEEAQNMIMTARIQLGWVDPADL 521


>gi|126724629|ref|ZP_01740472.1| transcription elongation factor NusA [Rhodobacterales bacterium
           HTCC2150]
 gi|126705793|gb|EBA04883.1| transcription elongation factor NusA [Rhodobacterales bacterium
           HTCC2150]
          Length = 534

 Score =  665 bits (1718), Expect = 0.0,   Method: Composition-based stats.
 Identities = 282/517 (54%), Positives = 380/517 (73%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPSLVIEAMEESLARAAKSRYGAEMDIRVSIDRKTGRA 62

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +  R+  VVEEVENY  + +++ A+      ++G  V+D +PP++ GR+A QSAKQVI+Q
Sbjct: 63  TFTRVRTVVEEVENYQAEFTVEEAKPYKADAEVGDEVTDEVPPVEMGRIAAQSAKQVILQ 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           K+REAERDRQ+ EF+D+ G II+G VKR EYGNVIVD+G  +GV+RR+E I RE+ RP D
Sbjct: 123 KIREAERDRQFEEFQDRAGTIINGVVKREEYGNVIVDVGRGEGVLRRNEKIGRESYRPND 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R++ +I DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+GI+ +KAV+RDPGSRAK+A
Sbjct: 183 RIRCFIKDVRREARGPQIFLSRTAPEFMAELFKMEVPEIYDGIIDIKAVARDPGSRAKIA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D+ TF++NAL+PA V+KVV
Sbjct: 243 VISHDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDAPTFLVNALQPAEVSKVV 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDE+  RIEV+VP EQLSLAIGRRGQNVRLASQLTG  IDI+TE E+S  RQ +FNERT 
Sbjct: 303 LDEEAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGLDIDILTEAEESKRRQAEFNERTG 362

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+A+++DE  A LLVAEGF  +EE+A V++ E+  I+G DE TA E+Q RAR+Y+E +
Sbjct: 363 LFMEALDLDEFFAQLLVAEGFRTLEEVAYVEVDELLVIDGVDEGTAGELQARARDYIEAL 422

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +    ++  ELGV + L    G+  ++  AL E+G+ ++ED A C+  +L G      G 
Sbjct: 423 NKKALERAVELGVVQSLIDFEGLTPQMIEALAEDGVLSLEDFATCADWELAGGWTTVDGE 482

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
             K DG L       ++ ++M++ AR ++GW++   +
Sbjct: 483 RVKDDGVLEKFDVALEEAQNMVMTARIQLGWVDPADL 519


>gi|149202949|ref|ZP_01879920.1| transcription elongation factor NusA [Roseovarius sp. TM1035]
 gi|149143495|gb|EDM31531.1| transcription elongation factor NusA [Roseovarius sp. TM1035]
          Length = 540

 Score =  665 bits (1716), Expect = 0.0,   Method: Composition-based stats.
 Identities = 283/519 (54%), Positives = 380/519 (73%), Gaps = 2/519 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG+  DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPALVVEAMEESLARAAKSRYGSEMDIRVNIDRKTGRA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
              R+  VVE+  VENY  ++++  A+       +G    + +PP++ GR+A QSAKQVI
Sbjct: 63  KFTRVRTVVEDEAVENYQAEMTVAQAKQYLDDPKVGDTYVEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQ+ EFKD++G II+G VKR EYGNVIVD+G  + ++RR+E I RE  RP
Sbjct: 123 LQKVREAERDRQFEEFKDRLGTIINGVVKREEYGNVIVDVGRGEAILRRNEKIGREAYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DRV+ YI DVRREQRGPQ+ LSRT PQFM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRVRCYIKDVRREQRGPQIFLSRTDPQFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D ATF++NAL+PA V+K
Sbjct: 243 IAVISYDNSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQATFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VV+DED  RIEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TE EDS  RQK+F ER
Sbjct: 303 VVIDEDAQRIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEAEDSERRQKEFEER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ F+ A+++DE  A LLV+EGF ++EE+A V + E+  I+G DE+TA E+Q RAR+ +E
Sbjct: 363 TKLFVDALDLDEFFAQLLVSEGFTNLEEVAYVDVDELLVIDGVDEDTAAELQARARDMIE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                   K RELGV + L +  G+  ++ +AL E+ +K++ED A C+  +L G      
Sbjct: 423 AQAKAALDKARELGVEDSLIAFEGLTPQMVLALAEDDVKSLEDFATCADWELAGGWTTVK 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
           G   K +G L       ++ ++M++ AR  +GW++  ++
Sbjct: 483 GERVKDEGILEKFDVSLEEAQNMVMTARVMLGWVDPTEL 521


>gi|84514878|ref|ZP_01002241.1| transcription elongation factor NusA [Loktanella vestfoldensis
           SKA53]
 gi|84511037|gb|EAQ07491.1| transcription elongation factor NusA [Loktanella vestfoldensis
           SKA53]
          Length = 533

 Score =  664 bits (1715), Expect = 0.0,   Method: Composition-based stats.
 Identities = 281/518 (54%), Positives = 371/518 (71%), Gaps = 2/518 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
            SAN+LELLQ A+AVA EK+I+  +V+  M +S+ +AA+S YG   DIRV I+ +TG  +
Sbjct: 4   TSANQLELLQTAEAVAREKNIEPGLVVEAMEESLARAAKSRYGAEMDIRVNIDRKTGRAT 63

Query: 62  LFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
             R+  VV +  VENY  + ++  A+D      IG   S+ +PP++ GR+A QSAKQVI+
Sbjct: 64  FTRVRTVVADDAVENYQAEFTVAQAKDYMTDPQIGQEYSEEVPPVELGRIAAQSAKQVIL 123

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPG 179
           QKVREAERD+QY EFKD+ G II+  VKR EYGNVIVD+G+ + V+RR+E I RE  RP 
Sbjct: 124 QKVREAERDKQYEEFKDRAGTIINALVKREEYGNVIVDVGSGEAVLRRNEKIGREAYRPN 183

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR++ YI +VRREQRGPQ+ LSRT P+FM +LF MEVPEIY G++++KAV+RDPGSRAK+
Sbjct: 184 DRIRCYIKEVRREQRGPQIFLSRTAPEFMAELFKMEVPEIYEGVIEIKAVARDPGSRAKI 243

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA VTKV
Sbjct: 244 AVISYDSSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDMPTFLVNALQPAEVTKV 303

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           VLDE+ G+IEV+VP EQLSLAIGRRGQNVRLAS LTG  IDI+TEEE+S  RQ +F  RT
Sbjct: 304 VLDEEAGKIEVVVPDEQLSLAIGRRGQNVRLASMLTGLDIDILTEEEESKRRQAEFETRT 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM  +++DE  A LLVAEGF ++EE+A V+  E+  IEG DE TA E+Q RAR+YLE 
Sbjct: 364 KLFMDTLDLDEFFAQLLVAEGFTNLEEVAYVEQDELLVIEGVDEGTAGELQARARDYLEA 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
                       GV + L    G+  ++  ALG++G+KT+ED A C+  +L G      G
Sbjct: 424 QAKKAMDAAIATGVEQSLIDFEGLTPQMLEALGKDGVKTLEDFATCADWELAGGWTTVNG 483

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
              K DG L       ++ ++M++ AR  +GW++ +++
Sbjct: 484 ERVKDDGVLEPFDVSLEEAQTMVMTARVMLGWVDPDEL 521


>gi|84500726|ref|ZP_00998975.1| transcription elongation factor NusA [Oceanicola batsensis
           HTCC2597]
 gi|84391679|gb|EAQ04011.1| transcription elongation factor NusA [Oceanicola batsensis
           HTCC2597]
          Length = 536

 Score =  664 bits (1715), Expect = 0.0,   Method: Composition-based stats.
 Identities = 286/516 (55%), Positives = 376/516 (72%), Gaps = 2/516 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVVEAMEESLARAAKSRYGAEMDIRVSIDRKTGRA 62

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE  E+ENY  +++++ AR       +G   ++ +PP+D GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEDEELENYQAEMTVEQARQYMADPQVGDTFTEEVPPVDMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGN+IVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRAGTIINGVVKREEYGNIIVDVGRGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ YI DVRREQRGPQ+ LSRT PQFM +LF MEVPEIY GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRCYIKDVRREQRGPQIFLSRTDPQFMAELFKMEVPEIYEGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA VTK
Sbjct: 243 IAVISYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVTK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+  RIEV+VP+EQLSLAIGRRGQNVRLASQLT   IDI+TEEE+S  RQK+F ER
Sbjct: 303 VVLDEEAERIEVVVPEEQLSLAIGRRGQNVRLASQLTALDIDIMTEEEESARRQKEFEER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ F+  +++DE  A LLV+EGF ++EE+A V+I E+  I+G DEETA E+Q RAR+ LE
Sbjct: 363 TKLFVDTLDLDEFFAQLLVSEGFTNLEEVAYVEIDELLVIDGVDEETANELQARARDVLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                  ++ RELG  + L    G+  ++  AL E+G+KT+ED A C+  +L G      
Sbjct: 423 AQAKAAMERARELGAEDSLIEFEGLTPQMIQALAEDGVKTLEDFATCADWELAGGWTTVE 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
           G   K DG L       ++ + M+++AR  +GW++ 
Sbjct: 483 GERVKDDGLLEPFDVSLEEAQHMVMNARVMLGWVDP 518


>gi|294675770|ref|YP_003576385.1| transcription elongation factor NusA [Rhodobacter capsulatus SB
           1003]
 gi|294474590|gb|ADE83978.1| transcription elongation factor NusA [Rhodobacter capsulatus SB
           1003]
          Length = 536

 Score =  664 bits (1713), Expect = 0.0,   Method: Composition-based stats.
 Identities = 285/519 (54%), Positives = 385/519 (74%), Gaps = 2/519 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID D+V+  M DS+ +AA+S YG+  DIRV+I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPDLVIQAMEDSLARAAKSRYGSEMDIRVKIDRKTGRA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           S  R+  VVE+  VENY  Q+++  A+    +  +G  + D +PP+D GR+A QSAKQVI
Sbjct: 63  SFTRVRTVVEDEAVENYQAQLTVAQAKQYKTNPQLGDEIVDEVPPVDLGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQ+ EFKD+ G II+G VKR EYGN+IVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQFDEFKDRKGTIINGVVKREEYGNIIVDIGRGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR+++Y+ DVRRE RGPQV LSRT PQFM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRAYVKDVRRETRGPQVFLSRTDPQFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S+D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D+ATF++NAL+PA V K
Sbjct: 243 IAVISNDNSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWNADAATFLVNALQPAEVAK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VV+DE+ G+IEV+VP EQLSLAIGRRGQNVRLASQLTG  IDI+TE E+S  RQ +F ER
Sbjct: 303 VVIDEEAGKIEVVVPDEQLSLAIGRRGQNVRLASQLTGLDIDILTEAEESSRRQAEFAER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ F+ A+++DE  A LLVAEGF ++EE+A V + E+ SIEG D+ TA E+Q RAR+Y+E
Sbjct: 363 TKLFVDALDLDEFFAQLLVAEGFTNLEEVAYVDLDELLSIEGVDDGTAEELQARARDYIE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             +       +ELGV + L +  G+  ++  AL ++ +KT+ED A C+  +L G      
Sbjct: 423 AQNAKAIAAAKELGVEDSLFNFEGLTPQMIEALAKDDVKTLEDFATCADWELAGGWTTVN 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
           G   K +G L   G   +  + +I+ AR ++GW++  ++
Sbjct: 483 GARVKDEGILEKFGMSLEDAQKLIMTARIQLGWVDISEL 521


>gi|99082750|ref|YP_614904.1| transcription elongation factor NusA [Ruegeria sp. TM1040]
 gi|99039030|gb|ABF65642.1| NusA antitermination factor [Ruegeria sp. TM1040]
          Length = 538

 Score =  663 bits (1712), Expect = 0.0,   Method: Composition-based stats.
 Identities = 276/525 (52%), Positives = 377/525 (71%), Gaps = 2/525 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG+  DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVVEAMEESLARAAKSRYGSEMDIRVSIDRKTGKA 62

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE  E+ENY  ++++  A+       +G  + D +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEDEELENYQSELTVAQAKQYMEDPKVGDTIVDEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G+ +G++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRNGTIINGVVKREEYGNVIVDIGSGEGILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ +I DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRCFIKDVRREPRGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVVSYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP EQLSLAIGRRGQNVRLASQLT   IDI+TEEE+S  RQK+F  R
Sbjct: 303 VVLDEEAGKIEVVVPDEQLSLAIGRRGQNVRLASQLTNLDIDIMTEEEESARRQKEFEAR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T  FM+ +++DE  A LLV+EGF ++EE+A V++ E+  I+G DE TA E+Q RAR+YLE
Sbjct: 363 TALFMETLDLDEFFAQLLVSEGFTNLEEVAYVELDELLVIDGVDEGTAEELQARARDYLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                     R +GV + L    G+  ++  AL ++ +K++ED A C+  +L G      
Sbjct: 423 AKAKAALDNARSMGVEDSLIDFDGLTPQMVEALAKDDVKSLEDFATCADWELAGGWTTVN 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQ 523
           G   K +G L       ++ +++++ AR  +GW++  ++  +   
Sbjct: 483 GERVKDEGILEPFDVSLEEAQNLVMTARIMLGWVDPAELESDADD 527


>gi|254466388|ref|ZP_05079799.1| transcription termination factor NusA [Rhodobacterales bacterium
           Y4I]
 gi|206687296|gb|EDZ47778.1| transcription termination factor NusA [Rhodobacterales bacterium
           Y4I]
          Length = 538

 Score =  663 bits (1712), Expect = 0.0,   Method: Composition-based stats.
 Identities = 284/516 (55%), Positives = 378/516 (73%), Gaps = 2/516 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVIEAMEESLARAAKSRYGAEMDIRVSIDRKTGRA 62

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VV  +E+ENY  +++++ AR    + ++G    + +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVADDELENYQAEMTVEQARQYMANPEVGQTYVEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRAGTIINGLVKREEYGNVIVDVGAGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DRV+ YI DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRVRCYIKDVRREPRGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA VTK
Sbjct: 243 IAVVSYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVTK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TEEE+S  RQK+F  R
Sbjct: 303 VVLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEEEESARRQKEFEAR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ FM+ +++DE  A LLV+EGF ++EE+A V++ E+  I+G DE TA E+Q RAR+YLE
Sbjct: 363 TKLFMETLDLDEFFAQLLVSEGFTNLEEVAYVELDELLVIDGVDEGTAEELQARARDYLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                     RELG  E L    G+  ++  AL ++ +K++ED A C+  +L G   + G
Sbjct: 423 AQAKAALDAARELGAEESLIQFEGLTPQMVEALAKDDVKSLEDFATCADWELAGGWTSNG 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
           G   K DG L   G   ++ + M++ AR  +GW++ 
Sbjct: 483 GERVKDDGILEPFGVSLEEAQDMVMTARIMLGWVDP 518


>gi|110677786|ref|YP_680793.1| transcription elongation factor NusA [Roseobacter denitrificans OCh
           114]
 gi|109453902|gb|ABG30107.1| transcription termination factor NusA, putative [Roseobacter
           denitrificans OCh 114]
          Length = 538

 Score =  663 bits (1711), Expect = 0.0,   Method: Composition-based stats.
 Identities = 276/521 (52%), Positives = 376/521 (72%), Gaps = 2/521 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVVEAMEESLARAAKSRYGAEMDIRVHIDRKTGRA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE+  +ENY  + +++ A+    + ++G  + + +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEDELLENYQAEFTVEQAKQYMENPEVGQQLIEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRAGTIINGLVKREEYGNVIVDVGAGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ YI DVRREQRGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRVYIKDVRREQRGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TEE++S  RQ +F  R
Sbjct: 303 VVLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEEQESARRQAEFELR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ F+  +++DE  A LLV+EGF  +EE+A V++ E+  I+G DE+TA E+Q RAR+ LE
Sbjct: 363 TKLFVDNLDLDEFFAQLLVSEGFTSLEEVAYVEVDELLVIDGVDEDTANELQARARDVLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             +    +  R LGV + L    G+  ++  AL ++ +KT+ED A C+  +L G      
Sbjct: 423 AQNKAALESARALGVEDSLIEFEGLTPQMIEALAKDDVKTLEDFATCADWELAGGWTTVD 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVAD 519
           G   K DG L       ++ + +I+ AR  +GW++   +  
Sbjct: 483 GERSKDDGVLEPFDVTLEEAQDLIMTARVMLGWVDPADLEP 523


>gi|304392764|ref|ZP_07374704.1| transcription elongation protein NusA [Ahrensia sp. R2A130]
 gi|303295394|gb|EFL89754.1| transcription elongation protein NusA [Ahrensia sp. R2A130]
          Length = 553

 Score =  662 bits (1709), Expect = 0.0,   Method: Composition-based stats.
 Identities = 317/518 (61%), Positives = 412/518 (79%), Gaps = 2/518 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           V+ANRLEL+QIADAVA EKSIDR +VL  MAD+I+KAA++ YG  ++IR +IN +TG+I 
Sbjct: 3   VAANRLELMQIADAVAREKSIDRKIVLDAMADAIEKAAKARYGLETNIRADINEKTGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLL VVE+VE+   +I L  A+ ++ + ++G  + + LPPMDFGRVA QSAKQVI+QK
Sbjct: 63  LQRLLLVVEKVEDPDTEILLADAKHKNEAAELGVHIGELLPPMDFGRVAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AERDRQ+ EF+++ GEII+GTVKRVEYGNVIVDLG ++ +IRRDE I RE  R GDR
Sbjct: 123 VRDAERDRQFAEFENRTGEIINGTVKRVEYGNVIVDLGRAEAIIRRDELIPREMYRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YIYDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+G+++++AV+RDPGSRAK+AV
Sbjct: 183 VRAYIYDVRREQRGPQIFLSRTHPQFMAKLFQMEVPEIYDGVIEIRAVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DS IDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS ++A F++NAL+PA V KVVL
Sbjct: 243 ISNDSGIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSEEAAGFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TEEE+S  RQ +F+  T  
Sbjct: 303 DEDKARIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDILTEEEESGRRQAEFSANTST 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F +A+NVDE++  LL +EGF+D+EE+A V+  E+A IEGFD++TA E+Q RA+E+LE  +
Sbjct: 363 FTEALNVDEMVGQLLASEGFSDLEEVAYVEQDELAMIEGFDDDTAAELQARAKEFLEKKE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGE--NGIKTMEDLAGCSVDDLLGWSENKGG 479
             L  K +ELGV+++L  +PGI + + VALGE    IK++ED AG   DDL+G++E K G
Sbjct: 423 QGLDAKRKELGVADDLRQVPGITTAMMVALGESDEEIKSLEDFAGSVADDLIGYNERKDG 482

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
            + +  G LS+ G  + Q + MI+ AR + GW+ +E +
Sbjct: 483 ELIRHTGPLSTFGLSRVQADEMIMAARIEAGWVTEEDL 520


>gi|259417192|ref|ZP_05741111.1| transcription elongation factor NusA [Silicibacter sp. TrichCH4B]
 gi|259346098|gb|EEW57912.1| transcription elongation factor NusA [Silicibacter sp. TrichCH4B]
          Length = 538

 Score =  662 bits (1709), Expect = 0.0,   Method: Composition-based stats.
 Identities = 276/522 (52%), Positives = 379/522 (72%), Gaps = 2/522 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID ++V+  M +S+ +AA+S YG+  DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPNLVVEAMEESLARAAKSRYGSEMDIRVSIDRKTGKA 62

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE  E+ENY  ++++  A+    S  +G  + D +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEDEELENYQSELTVAQAKQYMESPSVGDTIVDEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G+ +G++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRNGTIINGVVKREEYGNVIVDIGSGEGILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ +I DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRCFIKDVRREPRGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVVSYDNSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP EQLSLAIGRRGQNVRLASQLT   IDI+TEEE+S  RQK+F  R
Sbjct: 303 VVLDEEAGKIEVVVPDEQLSLAIGRRGQNVRLASQLTNLDIDIMTEEEESARRQKEFEAR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T  FM+ +++DE  A LLV+EGF ++EE+A V++ E+  I+G DE TA E+Q RAR+YLE
Sbjct: 363 TALFMETLDLDEFFAQLLVSEGFTNLEEVAYVELDELLVIDGVDEGTAEELQARARDYLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                     R +G  + L    G+  ++  AL ++ +K++ED A C+  +L G      
Sbjct: 423 AQAKAALDNARSMGAEDSLIDFEGLTPQMVEALAKDDVKSLEDFATCADWELAGGWTTVN 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADE 520
           G   K +G L       ++ +++++ AR  +GW++  ++  +
Sbjct: 483 GERVKDEGILEPFDMSLEEAQNLVMTARIMLGWVDPAELESD 524


>gi|163737947|ref|ZP_02145363.1| transcription elongation factor NusA [Phaeobacter gallaeciensis
           BS107]
 gi|163742658|ref|ZP_02150044.1| transcription elongation factor NusA [Phaeobacter gallaeciensis
           2.10]
 gi|161384243|gb|EDQ08626.1| transcription elongation factor NusA [Phaeobacter gallaeciensis
           2.10]
 gi|161388563|gb|EDQ12916.1| transcription elongation factor NusA [Phaeobacter gallaeciensis
           BS107]
          Length = 541

 Score =  661 bits (1706), Expect = 0.0,   Method: Composition-based stats.
 Identities = 279/527 (52%), Positives = 379/527 (71%), Gaps = 2/527 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG+  DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVVDAMEESLARAAKSRYGSEMDIRVSIDRKTGRA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE+  +ENY  +++++ A+       +G V  + +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEDDALENYQAELTVEQAKQYMADPSVGDVFVEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRAGTIINGLVKREEYGNVIVDVGAGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ +I DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+G++++KAV+RDPGSRAK
Sbjct: 183 NDRIRCFIKDVRREPRGPQIFLSRTAPEFMAELFKMEVPEIYDGVIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLT   IDI+TEEE+S  RQK+F  R
Sbjct: 303 VVLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTALDIDIMTEEEESARRQKEFEAR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ FM+ +++DE  A LLV+EGF ++EE+A V++ E+  I+G DE TA E+Q RA +YLE
Sbjct: 363 TKLFMETLDLDEFFAQLLVSEGFTNLEEVAYVELDELLVIDGVDEGTAQELQARAADYLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                     R LGV + L    G+  ++  AL ++GIKT+ED A C+  +L G      
Sbjct: 423 AQAKAAIDAARALGVEDSLIDFDGLTPQMVEALAKDGIKTLEDFATCADWELAGGWTTNK 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
           G   K DG L       +  +++++ AR  +GW++  ++  +   DA
Sbjct: 483 GERVKDDGILEPFDVSLEDAQTLVMTARVLLGWVDPTELEADAEDDA 529


>gi|163745072|ref|ZP_02152432.1| transcription elongation factor NusA [Oceanibulbus indolifex
           HEL-45]
 gi|161381890|gb|EDQ06299.1| transcription elongation factor NusA [Oceanibulbus indolifex
           HEL-45]
          Length = 542

 Score =  661 bits (1706), Expect = 0.0,   Method: Composition-based stats.
 Identities = 279/526 (53%), Positives = 378/526 (71%), Gaps = 2/526 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV+IN +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVVEAMEESLARAAKSRYGAEMDIRVDINRKTGKA 62

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VV  E++ENY  + ++  A+       +G    + +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVADEDLENYQAEFTVDQAKQYMAEPKVGDTYVEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQ+ EFKD+ G II+G VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQFEEFKDRAGTIINGLVKREEYGNVIVDVGAGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ YI DVRREQRGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRVYIKDVRREQRGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISHDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TEE++S  RQ +F  R
Sbjct: 303 VVLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEEQESQRRQAEFELR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ FM  +++DE  A LLV+EGF+++EE+A V++ E+  I+G DE+TA E+Q RAR+ LE
Sbjct: 363 TKLFMDNLDLDEFFAQLLVSEGFSNLEEVAYVEVDELLVIDGVDEDTAGELQARARDVLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             +       R LGV + L    G+  ++  AL ++ +KT+ED A C+  +L G      
Sbjct: 423 AQNKAALDNARALGVEDSLVEFEGLTPQMLEALAKDDVKTLEDFATCADWELAGGWTTVN 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQD 524
           G   K DG L       +  ++MI+ AR  +GW++  ++  +  +D
Sbjct: 483 GERVKDDGALEPFEVSLEDAQAMIMTARVMLGWVDPTELEGDADED 528


>gi|126738452|ref|ZP_01754157.1| transcription elongation factor NusA [Roseobacter sp. SK209-2-6]
 gi|126720251|gb|EBA16957.1| transcription elongation factor NusA [Roseobacter sp. SK209-2-6]
          Length = 539

 Score =  660 bits (1705), Expect = 0.0,   Method: Composition-based stats.
 Identities = 288/531 (54%), Positives = 387/531 (72%), Gaps = 6/531 (1%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG+  DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVVDAMEESLARAAKSRYGSEMDIRVTIDRKTGKA 62

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VV  +E+ENY  +++++ AR    + ++G V S+ +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVADDELENYQAEMTVEQARQYMENPEVGDVFSEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G  +G++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRNGTIINGVVKREEYGNVIVDVGAGEGILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ YI DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRCYIKDVRREPRGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISHDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLT   IDI+TEEE+S  RQK+F  R
Sbjct: 303 VVLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTALDIDIMTEEEESARRQKEFEAR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T  FM+ +++DE  A LLV+EGF ++EE+A V+I E+  I+G DE TA E+Q RAR+YLE
Sbjct: 363 TGLFMETLDLDEFFAQLLVSEGFTNLEEVAYVEIEELLVIDGVDEGTAEELQARARDYLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                     R LG  + L    G+  ++  AL ++ +KT+ED A C+  +L G   N G
Sbjct: 423 AQAKAAIDAARALGAEDSLIQFDGLTPQMVEALAKDDVKTLEDFATCADWELAGGWTNDG 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV----ADEEVQDA 525
           G   K DG L   G   ++ + +++ AR  +GW++ E++     + E +DA
Sbjct: 483 GERIKDDGILEPFGMSLEEAQDLVMTARIMLGWVDPEELIGDSEEAEGEDA 533


>gi|163733005|ref|ZP_02140449.1| transcription elongation factor NusA [Roseobacter litoralis Och
           149]
 gi|161393540|gb|EDQ17865.1| transcription elongation factor NusA [Roseobacter litoralis Och
           149]
          Length = 538

 Score =  660 bits (1704), Expect = 0.0,   Method: Composition-based stats.
 Identities = 275/522 (52%), Positives = 377/522 (72%), Gaps = 2/522 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVVEAMEESLARAAKSRYGAEMDIRVHIDRKTGKA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE+  +ENY  + +++ A+    + ++G  + + +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEDELLENYQAEFTVEQAKQYMENPEVGQQLIEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQ+ EFKD+ G II+G VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQFEEFKDRAGSIINGLVKREEYGNVIVDVGAGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ YI DVRREQRGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRVYIKDVRREQRGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDNSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TEE++S  RQ +F  R
Sbjct: 303 VVLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEEQESARRQAEFELR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           TQ F+  +++DE  A LLV+EGF  +EE+A V++ E+  I+G D +TA E+Q RAR+ LE
Sbjct: 363 TQLFVDNLDLDEFFAQLLVSEGFTSLEEVAYVEVDELLVIDGVDADTANELQARARDVLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             +    +  R LGV + L    G+  ++  AL ++ +KT+ED A C+  +L G      
Sbjct: 423 AQNKAAIESARALGVEDSLIEFEGLTPQMIEALAKDDVKTLEDFATCADWELAGGWTTVD 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADE 520
           G   K DG L       ++ + +I+ AR  +GW++   +  +
Sbjct: 483 GERSKDDGVLEPFEMTLEEAQDLIMTARVMLGWVDPADLEPD 524


>gi|254475265|ref|ZP_05088651.1| NusA antitermination factor [Ruegeria sp. R11]
 gi|214029508|gb|EEB70343.1| NusA antitermination factor [Ruegeria sp. R11]
          Length = 541

 Score =  660 bits (1703), Expect = 0.0,   Method: Composition-based stats.
 Identities = 281/527 (53%), Positives = 380/527 (72%), Gaps = 2/527 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG+  DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPSLVVDAMEESLARAAKSRYGSEMDIRVSIDRKTGRA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE+  +ENY  +++++ A+       +G V  + +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEDDALENYQAEMTVEQAKQYMADPSVGDVFVEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRAGTIINGLVKREEYGNVIVDVGAGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ +I DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+G++++KAV+RDPGSRAK
Sbjct: 183 NDRIRCFIKDVRREPRGPQIFLSRTAPEFMAELFKMEVPEIYDGVIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLT   IDI+TEEE+S  RQK+F  R
Sbjct: 303 VVLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTNLDIDIMTEEEESARRQKEFEAR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           TQ FM+ +++DE  A LLV+EGF ++EE+A V++ E+  I+G DE TA E+Q RA +YLE
Sbjct: 363 TQLFMETLDLDEFFAQLLVSEGFTNLEEVAYVELDELLVIDGVDEGTAQELQARAADYLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                     R LGV + L    G+  ++  AL ++GIKT+ED A C+  +L G   +  
Sbjct: 423 AQAKAAIDAARALGVEDSLIDFDGLTPQMIEALAKDGIKTLEDFATCADWELAGGWTSNK 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
           G   K DG L       +  +++++ AR  +GW++  ++  E   DA
Sbjct: 483 GERVKDDGILEPFDVSLEDAQNLVMTARVLLGWVDPAELEAEAEDDA 529


>gi|149912925|ref|ZP_01901459.1| transcription elongation factor NusA [Roseobacter sp. AzwK-3b]
 gi|149813331|gb|EDM73157.1| transcription elongation factor NusA [Roseobacter sp. AzwK-3b]
          Length = 540

 Score =  660 bits (1703), Expect = 0.0,   Method: Composition-based stats.
 Identities = 283/525 (53%), Positives = 382/525 (72%), Gaps = 2/525 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVVEAMEESLARAAKSRYGAEMDIRVSIDRKTGKA 62

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VV  +E+ENY  ++++  A+       IG    + +PP+D GR+A QSAKQVI
Sbjct: 63  NFTRVRTVVADDELENYQAEMTVDQAKQYLDDPKIGDEFIEEIPPVDLGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRAGTIINGVVKREEYGNVIVDVGRGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDRV++YI DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 GDRVRAYIKDVRREARGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDNSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+  RIEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TE EDS  RQK+F ER
Sbjct: 303 VVLDEEAERIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEAEDSERRQKEFEER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ F+  +++DE  A LLV+EGF ++EE+A V++ E+  I+G D++TA E+Q RAR+ L+
Sbjct: 363 TKLFVDTLDLDEFFAQLLVSEGFTNLEEVAYVELDELLVIDGVDQDTANELQARARDVLD 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                  +K RELG  + L    G+  ++ VAL E+G+KT+ED A C+  +L G      
Sbjct: 423 AQAREAMEKARELGAEDSLIEFEGLTPQMIVALAEDGVKTLEDFATCADWELAGGWTTVD 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQ 523
           G   K +G L       ++ ++M++ AR  +GW++  ++  +  +
Sbjct: 483 GQRVKDEGVLEPFEVSLEEAQNMVMTARVMLGWVDPTELEPDLEE 527


>gi|83950734|ref|ZP_00959467.1| transcription elongation factor NusA [Roseovarius nubinhibens ISM]
 gi|83838633|gb|EAP77929.1| transcription elongation factor NusA [Roseovarius nubinhibens ISM]
          Length = 544

 Score =  659 bits (1701), Expect = 0.0,   Method: Composition-based stats.
 Identities = 282/516 (54%), Positives = 376/516 (72%), Gaps = 2/516 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVVEAMEESLARAAKSRYGAEMDIRVSIDRKTGRA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVEE  +ENY  +++++ A+       +G    + +PP+D GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEEEELENYQAELTVEQAKQYLDDPKVGDQYIEEVPPVDMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRAGTIINGMVKREEYGNVIVDVGRGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            +R++ YI DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NERIRCYIKDVRREARGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+  RIEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TE EDS  RQ++F ER
Sbjct: 303 VVLDEEAERIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEAEDSERRQREFEER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ FM  +++DE  A LLV+EGF ++EE+A V+  E+  I+G DE+TA E+Q RAR+ LE
Sbjct: 363 TKLFMDTLDLDEFFAQLLVSEGFTNLEEVAYVEQDELLVIDGVDEDTAGELQARARDVLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                  ++ RELGV + L    G+  ++  AL E+G+KT+ED A C+  +L G    + 
Sbjct: 423 ARAKAALERARELGVEDSLVEFEGLTPQMIQALAEDGVKTLEDFATCADWELAGGWTMQD 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
           G   K DG L       ++ ++M++ AR  +GW++ 
Sbjct: 483 GQRVKDDGILEPFDVSLEEAQAMVMTARVMLGWVDP 518


>gi|254486422|ref|ZP_05099627.1| transcription termination factor NusA [Roseobacter sp. GAI101]
 gi|214043291|gb|EEB83929.1| transcription termination factor NusA [Roseobacter sp. GAI101]
          Length = 537

 Score =  659 bits (1700), Expect = 0.0,   Method: Composition-based stats.
 Identities = 279/519 (53%), Positives = 378/519 (72%), Gaps = 2/519 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID ++V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPNLVVEAMEESLARAAKSRYGAEMDIRVSIDRKTGRA 62

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VV  +E+ENY  + +++ A+    + +IG   S+ +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVADDELENYQAEFTVEQAKQYMANPEIGQEFSEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRAGTIINGLVKREEYGNVIVDVGAGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ YI DVRREQRGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRVYIKDVRREQRGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLTG TIDI+TEE++S  RQ +F  R
Sbjct: 303 VVLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTGLTIDIMTEEQESARRQAEFELR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ FM  +++DE  A LLV+EGF ++EE+A V++ E+  I+G DE TA E+Q RAR+ LE
Sbjct: 363 TKLFMDNLDLDEFFAQLLVSEGFTNLEEVAYVEVDELLVIDGVDEATAGELQARARDVLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             +       R LGV + L    G+  ++  AL ++ +KT+ED A C+  +L G      
Sbjct: 423 AKNKAALDAARALGVDDTLIEFDGLTPQMIEALAKDDVKTLEDFATCADWELAGGWTTVD 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
           G   K +G L       ++ + +I+ AR  +GW++  ++
Sbjct: 483 GVRTKDEGTLEPFEMTLEEAQHLIMTARVLLGWVDPAEL 521


>gi|83953120|ref|ZP_00961842.1| transcription elongation factor NusA [Sulfitobacter sp. NAS-14.1]
 gi|83842088|gb|EAP81256.1| transcription elongation factor NusA [Sulfitobacter sp. NAS-14.1]
          Length = 546

 Score =  658 bits (1698), Expect = 0.0,   Method: Composition-based stats.
 Identities = 277/527 (52%), Positives = 381/527 (72%), Gaps = 2/527 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID ++V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPNLVVEAMEESLARAAKSRYGAEMDIRVSIDRKTGRA 62

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VV  +E+ENY  + +++ A+    + ++G   S+ +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVADDELENYQAEFTVEQAKQYMANPEVGQEFSEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRAGTIINGLVKREEYGNVIVDVGAGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ YI DVRREQRGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRVYIKDVRREQRGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TEE++S  RQ +F  R
Sbjct: 303 VVLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEEQESQRRQAEFELR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ FM  +++DE  A LLV+EGF ++EE+A V++ E+  I+G DE+TA E+Q RAR+ +E
Sbjct: 363 TKLFMDNLDLDEFFAQLLVSEGFTNLEEVAYVEVDELLVIDGVDEDTASELQARARDVIE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             +       R LGV + L    G+  ++  AL ++ +KT+ED A C+  +L G      
Sbjct: 423 AQNKAALDAARALGVDDTLIEFDGLTPQMIEALAKDDVKTLEDFATCADWELAGGWTTVN 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
           G   K +G L       +  + +I+ AR  +GW++  ++  ++V + 
Sbjct: 483 GERTKDEGTLEPFDLSLEDAQKLIMTARVLLGWVDPAELEADDVDEE 529


>gi|85705698|ref|ZP_01036795.1| transcription elongation factor NusA [Roseovarius sp. 217]
 gi|85669688|gb|EAQ24552.1| transcription elongation factor NusA [Roseovarius sp. 217]
          Length = 539

 Score =  658 bits (1698), Expect = 0.0,   Method: Composition-based stats.
 Identities = 283/527 (53%), Positives = 380/527 (72%), Gaps = 2/527 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG+  DIRVEI+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPALVVEAMEESLARAAKSRYGSEMDIRVEIDRKTGRA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
              R+  VV +  +ENY  +++++ A+       +G    + +PP++ GR+A QSAKQVI
Sbjct: 63  KFTRVRTVVADDALENYQAEMTVEQAKQFLDDPKVGDAFVEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQ+ EFKD+VG II+G VKR EYGNVIVD+G  + ++RR+E I RE  RP
Sbjct: 123 LQKVREAERDRQFEEFKDRVGTIINGVVKREEYGNVIVDVGRGEAILRRNEKIGREAYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DRV+ YI DVRREQRGPQ+ LSRT PQFM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRVRCYIKDVRREQRGPQIFLSRTDPQFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D ATF++NAL+PA V+K
Sbjct: 243 IAVISYDSSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQATFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VV+DED  RIEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TE EDS  RQK+F ER
Sbjct: 303 VVIDEDAQRIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEAEDSERRQKEFEER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ F+  +++DE  A LLV+EGF ++EE+A V + E+  I+G DE+TA E+Q RAR+ +E
Sbjct: 363 TKLFVDTLDLDEFFAQLLVSEGFTNLEEVAYVDLDELLVIDGVDEDTAAELQARARDVIE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                   K RELGV + L +  G+  ++ +AL E+ +K++ED A C+  +L G      
Sbjct: 423 AQTKAALDKARELGVEDSLIAFEGLTPQMVLALAEDDVKSLEDFATCADWELAGGWTTVK 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
           G   K +G L       ++ + M++ AR  +GW++  ++  +     
Sbjct: 483 GERVKDEGILEKFDVSLEEAQHMVMTARVMLGWVDPTELETDADDSE 529


>gi|89067479|ref|ZP_01154992.1| transcription elongation factor NusA [Oceanicola granulosus
           HTCC2516]
 gi|89047048|gb|EAR53102.1| transcription elongation factor NusA [Oceanicola granulosus
           HTCC2516]
          Length = 542

 Score =  657 bits (1697), Expect = 0.0,   Method: Composition-based stats.
 Identities = 284/526 (53%), Positives = 377/526 (71%), Gaps = 2/526 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+  TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVVEAMEESLARAAKSRYGAEMDIRVSIDRRTGRA 62

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE  E+ENY  +++++ A+       +G    + +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEDEELENYQAELTVEQAKQYLDDPKVGDQYIEEIPPVELGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERD+QY EFKD+ G II+  VKR EYGNVIVD+G  + V+RR+E I RE+ RP
Sbjct: 123 LQKVREAERDKQYEEFKDRAGTIINALVKREEYGNVIVDVGAGEAVLRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDR++ YI DVRREQRGPQ+ LSRT P+FM +LF MEVPEIY GI+++KAV+RDPGSRAK
Sbjct: 183 GDRIRCYIKDVRREQRGPQIFLSRTAPEFMAELFKMEVPEIYEGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           + V S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IGVVSYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDMPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDED  RIEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TEEE+S  RQ +F ER
Sbjct: 303 VVLDEDAERIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEEEESKRRQAEFEER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ FM  +++DE  A LLV+EGF ++EE+A V+  E+  I+G DE TA E+Q RAR+ L+
Sbjct: 363 TKLFMDTLDLDEFFAQLLVSEGFTNLEEVAYVEQDELLVIDGVDEGTAQELQARARDVLD 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             +    +K RELGV + L +  G+   + +AL E+G+KT+ED A C+  +L G      
Sbjct: 423 EQNRVALEKARELGVEDSLVNFEGLTPAMVLALAEDGVKTLEDFATCADWELAGGWTTVN 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQD 524
           G   K DG L       ++ + M++ AR  +GW++ + +  E   +
Sbjct: 483 GERVKDDGVLEKFDVSLEEAQDMVMTARVLLGWVDPDDLMPEAAAE 528


>gi|83945005|ref|ZP_00957371.1| transcription elongation factor NusA [Oceanicaulis alexandrii
           HTCC2633]
 gi|83851787|gb|EAP89642.1| transcription elongation factor NusA [Oceanicaulis alexandrii
           HTCC2633]
          Length = 578

 Score =  657 bits (1695), Expect = 0.0,   Method: Composition-based stats.
 Identities = 304/519 (58%), Positives = 386/519 (74%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSAN+LE+LQIA AVA EK ID  +VL  + ++IQKAARS YG   DI  +INP+TG++ 
Sbjct: 5   VSANKLEILQIARAVAQEKMIDESIVLEAIEEAIQKAARSRYGAELDIHCKINPKTGEMR 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L     VVEEVEN   QI+L  A+ RDP  +IG    + LPP++FGRVA Q+AKQVI QK
Sbjct: 65  LTSRTTVVEEVENEAHQITLDEAKKRDPEAEIGSFYEEELPPIEFGRVASQTAKQVITQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAER RQ+ E+KD++GEI++G VKRVEYGNVI+DLG ++G+IRR + I RE+L+  DR
Sbjct: 125 VREAERKRQFNEYKDRIGEIVNGIVKRVEYGNVIIDLGKAEGIIRRSDGIPRESLQVNDR 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YIYDVR E RGPQ+ LSR HP FM  LF  EVPE+Y G++++  V+RDPGSRAK+AV
Sbjct: 185 VRAYIYDVREETRGPQIFLSRAHPDFMAALFAQEVPEVYEGVIEIPRVARDPGSRAKIAV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+DSSIDPVGACVGMRGSRVQAVV EL  EKIDI+ W+PD ATF++NAL+PA V KVVL
Sbjct: 245 ISNDSSIDPVGACVGMRGSRVQAVVNELAGEKIDIIPWNPDPATFIVNALQPAEVAKVVL 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           D++  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TEEE+S  RQK+F+ERT  
Sbjct: 305 DDEAERIEVVVPDDQLSLAIGRRGQNVRLASQLTGWAIDILTEEEESERRQKEFSERTST 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM A++VDE+IA LL  EGFA+VE++A V++ EIA IEGFD++TA EIQ RARE+LE   
Sbjct: 365 FMNALDVDEVIAQLLATEGFAEVEDIAFVELDEIAVIEGFDDDTAQEIQTRAREFLEKRA 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                + +ELGV + +  + G+D  + V  GEN + T+EDLAG + DDL GW E + G  
Sbjct: 425 AEQDARRKELGVEDAVLDVEGVDLPMAVKFGENEVCTIEDLAGLTPDDLRGWYETRDGER 484

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADE 520
            +  G L       +  E +I+ AR   GWI +E +   
Sbjct: 485 VREPGILEGSDMSPEDAEMLIMRARVIAGWISEEDLPQA 523


>gi|260431715|ref|ZP_05785686.1| transcription elongation factor NusA [Silicibacter lacuscaerulensis
           ITI-1157]
 gi|260415543|gb|EEX08802.1| transcription elongation factor NusA [Silicibacter lacuscaerulensis
           ITI-1157]
          Length = 560

 Score =  657 bits (1695), Expect = 0.0,   Method: Composition-based stats.
 Identities = 279/542 (51%), Positives = 378/542 (69%), Gaps = 23/542 (4%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVVEAMEESLARAAKSRYGAEMDIRVSIDRKTGRA 62

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDP---------------------SIDIGGVV 97
           +  R+  VV  EE+ENY  ++++  AR                            +G V+
Sbjct: 63  TFTRVRTVVDDEELENYQAEMTVDQARAYFEPSKDGRAVWLRDGQPIEDFSTGPQVGDVL 122

Query: 98  SDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVD 157
            + +PP++ GR+A QSAKQVI+QKVREAERDRQY +FKD+VG II+G VKR E+GNVIVD
Sbjct: 123 QEEVPPVEMGRIAAQSAKQVILQKVREAERDRQYEDFKDRVGTIINGAVKREEFGNVIVD 182

Query: 158 LGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVP 217
           LG ++ V+RR++ I RE+ RP DRV++YI +VRRE RG Q+ LSRT P+FM +LF MEVP
Sbjct: 183 LGGAEAVLRRNDKIGRESYRPNDRVRAYIKEVRREPRGHQIFLSRTAPEFMAELFKMEVP 242

Query: 218 EIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIV 277
           EIY+GI+++KAV+RDPGSRAK+AV S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+
Sbjct: 243 EIYDGIIEIKAVARDPGSRAKIAVISHDNSIDPVGACVGMRGSRVQAVVNELQGEKIDII 302

Query: 278 VWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
            W+ D  TF++NAL+PA V+KVVLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLTG 
Sbjct: 303 PWNEDQPTFLVNALQPAEVSKVVLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTGL 362

Query: 338 TIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIAS 397
            IDI+TE E+S  RQK+F  RT+ FM ++++DE  A LLVAEGF ++EE+A V++ E+  
Sbjct: 363 DIDIMTEAEESARRQKEFEARTKLFMDSLDLDEFFAQLLVAEGFTNLEEVAYVELDELLV 422

Query: 398 IEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIK 457
           I+G DE TA E+Q RAR+ +E          R LG  + L    G+  ++  AL ++G+K
Sbjct: 423 IDGVDEGTAQELQARARDVIEAQAKAALDNARALGAEDSLIEFEGLTPQMVEALAKDGVK 482

Query: 458 TMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
           T+ED A C+  +L G      G   K DG L   G   ++ + +++ AR  +GW++  ++
Sbjct: 483 TLEDFATCADWELAGGWTTVDGQRVKDDGILEPFGVTLEEAQDLVMTARVMLGWVDPAEL 542

Query: 518 AD 519
             
Sbjct: 543 EQ 544


>gi|86136807|ref|ZP_01055385.1| transcription elongation factor NusA [Roseobacter sp. MED193]
 gi|85826131|gb|EAQ46328.1| transcription elongation factor NusA [Roseobacter sp. MED193]
          Length = 541

 Score =  656 bits (1693), Expect = 0.0,   Method: Composition-based stats.
 Identities = 276/524 (52%), Positives = 377/524 (71%), Gaps = 2/524 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG+  DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVVDAMEESLARAAKSRYGSEMDIRVSIDRKTGKA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE+  +ENY  +++++ A+    +  +G    + +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRSVVEDEALENYQAEMTVEQAKQYMANPAVGDTFVEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +Q+VREAERDRQ+ EF+D+ G II+  VKR EYGNVIVD+G  +G++RR+E I RE+ RP
Sbjct: 123 LQRVREAERDRQFEEFQDRAGTIINALVKREEYGNVIVDVGAGEGILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ YI DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+GI+Q+KAV+RDPGSRAK
Sbjct: 183 NDRIRCYIKDVRREPRGPQIFLSRTAPEFMAELFKMEVPEIYDGIIQIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S+D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISNDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNDDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TEEE+S  RQK+F  R
Sbjct: 303 VVLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEEEESARRQKEFEAR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T  FM+ +++DE  A LLV+EGF ++EE+A V++ E+  I+G D+ TA E+Q RAR++LE
Sbjct: 363 TGLFMETLDLDEFFAQLLVSEGFTNLEEVAYVELDELTVIDGVDDGTAEELQARARDFLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                     R LG  + L    G+   +  AL ++ I T+ED A C+  +L G   N  
Sbjct: 423 AKAKAAIDAARALGAEDSLIQFDGLTPPMVEALAKDEILTLEDFATCADWELAGGWTNDN 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEV 522
           G   K DG L   G   ++ + +++ AR  +GW++ + +   E 
Sbjct: 483 GERIKDDGILEPFGMSLEEAQELVMTARVMLGWVDPDDLIGAED 526


>gi|83942070|ref|ZP_00954532.1| transcription elongation factor NusA [Sulfitobacter sp. EE-36]
 gi|83847890|gb|EAP85765.1| transcription elongation factor NusA [Sulfitobacter sp. EE-36]
          Length = 542

 Score =  655 bits (1692), Expect = 0.0,   Method: Composition-based stats.
 Identities = 277/527 (52%), Positives = 381/527 (72%), Gaps = 2/527 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID ++V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPNLVVEAMEESLARAAKSRYGAEMDIRVSIDRKTGRA 62

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VV  +E+ENY  + +++ A+    + ++G   S+ +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVADDELENYQAEFTVEQAKQYMANPEVGQEFSEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRAGTIINGLVKREEYGNVIVDVGAGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ YI DVRREQRGPQ+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRVYIKDVRREQRGPQIFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TEE++S  RQ +F  R
Sbjct: 303 VVLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEEQESQRRQAEFELR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ FM  +++DE  A LLV+EGF ++EE+A V++ E+  I+G DE+TA E+Q RAR+ +E
Sbjct: 363 TKLFMDNLDLDEFFAQLLVSEGFTNLEEVAYVEVDELLVIDGVDEDTASELQARARDVIE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             +       R LGV + L    G+  ++  AL ++ +KT+ED A C+  +L G      
Sbjct: 423 AQNKAALDAARALGVDDTLIEFDGLTPQMIEALAKDDVKTLEDFATCADWELAGGWTTVN 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
           G   K +G L       +  + +I+ AR  +GW++  ++  ++V + 
Sbjct: 483 GERTKDEGTLEPFDLSLEDAQKLIMTARVLLGWVDPAELEADDVDEE 529


>gi|114571580|ref|YP_758260.1| transcription elongation factor NusA [Maricaulis maris MCS10]
 gi|114342042|gb|ABI67322.1| NusA antitermination factor [Maricaulis maris MCS10]
          Length = 572

 Score =  655 bits (1692), Expect = 0.0,   Method: Composition-based stats.
 Identities = 312/518 (60%), Positives = 391/518 (75%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIA AVA EKSID  +V+  + ++IQKAARS YG  +DIR +I+P+TG++S
Sbjct: 5   VSANRLELLQIARAVAAEKSIDESIVIEAIEEAIQKAARSRYGAENDIRAKIDPKTGELS 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R + VVEEVEN + +++L  A+  D + +IG V SD LPP++FGRVA Q+AKQVI QK
Sbjct: 65  LTRNMTVVEEVENDSQELTLADAKKIDKTAEIGTVFSDELPPIEFGRVASQTAKQVITQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAER RQ+ E+KD+VGEIISG VKRVEYGNVI+DLG ++ +IRR + I RENL+  +R
Sbjct: 125 VREAERQRQFEEYKDRVGEIISGIVKRVEYGNVIIDLGRAEAIIRRADGIPRENLQNNER 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YIYDVR E RGPQ+ LSR HP FM  LF  EVPE+Y GI+++ +V+RDPGSRAK+AV
Sbjct: 185 VRAYIYDVREEVRGPQIFLSRAHPDFMAALFAQEVPEVYEGIIEIPSVARDPGSRAKIAV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+D SIDPVGACVGMRGSRVQAVV+EL  EKIDI+ WS D ATF++NAL+PA V KVVL
Sbjct: 245 ISNDGSIDPVGACVGMRGSRVQAVVSELAGEKIDIIPWSDDPATFIVNALQPAEVAKVVL 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW+IDI+TEEE+S  RQK+F ERTQ 
Sbjct: 305 DEEDQRIEVVVPDEQLSLAIGRRGQNVRLASQLTGWSIDILTEEEESERRQKEFAERTQI 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F+ A++VDE+IA LL  EGF DVE+LA   + EI +IEGFDE+TA EIQ RAR+YL+ + 
Sbjct: 365 FIAALDVDEVIAQLLATEGFTDVEDLAYADLGEIGAIEGFDEDTAEEIQARARDYLDRLS 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
                K +ELGV + +  + G+   + V  GEN +KT++DLAG   DDL GW E K G  
Sbjct: 425 AEQDAKRKELGVEDAVLEVEGVVLAMAVKFGENDVKTVDDLAGLVTDDLRGWFETKNGER 484

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVAD 519
            +  G L       +  E MI+ AR   GWI +E +  
Sbjct: 485 VREPGILEEFNLAAEDAEMMIMRARVAAGWISEEDLPQ 522


>gi|126734454|ref|ZP_01750201.1| transcription termination factor NusA, putative [Roseobacter sp.
           CCS2]
 gi|126717320|gb|EBA14184.1| transcription termination factor NusA, putative [Roseobacter sp.
           CCS2]
          Length = 538

 Score =  655 bits (1691), Expect = 0.0,   Method: Composition-based stats.
 Identities = 279/518 (53%), Positives = 376/518 (72%), Gaps = 2/518 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
            SAN+LELLQ A+AVA EK+I+  +V+  M +S+ +AA+S YG   DIRV I+ +TG  +
Sbjct: 4   TSANQLELLQTAEAVAREKNIEPGLVVEAMEESLARAAKSRYGAEMDIRVAIDRKTGKAT 63

Query: 62  LFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
             R+  VVEE  +ENY  + ++  A++     ++G    + +PP++ GR+A QSAKQVI+
Sbjct: 64  FTRVRTVVEEEELENYQAEFTVAQAKEYMEDPEVGQQFIEEVPPVELGRIAAQSAKQVIL 123

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPG 179
           QKVREAERD+QY EFKD+ G II+  VKR EYGNVIVD+G  + V+RR+E I RE  RP 
Sbjct: 124 QKVREAERDKQYEEFKDRAGTIINALVKREEYGNVIVDVGAGEAVLRRNEKIGREAYRPN 183

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR++ +I +VRREQRGPQ+ LSRT P+FM +LF MEVPEIY GI+++KAV+RDPGSRAK+
Sbjct: 184 DRIRCFIKEVRREQRGPQIFLSRTAPEFMAELFKMEVPEIYEGIIEIKAVARDPGSRAKI 243

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+KV
Sbjct: 244 AVISYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDMPTFLVNALQPAEVSKV 303

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           VLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TEEE+S  RQ +F  RT
Sbjct: 304 VLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEEEESKRRQAEFELRT 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM  +++DE  A LLV+EGF ++EE+A V++ E+  IEG DE+TA E+Q RAR+YLE 
Sbjct: 364 KLFMDTLDLDEFFAQLLVSEGFTNLEEVAYVEVDELLVIEGVDEDTASELQARARDYLEA 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
                 +  R LGV + L +  G+   +  ALG++G+KT+ED A C+  +L G      G
Sbjct: 424 KAKEAMEAARALGVEDSLANFEGLTPAMLEALGQDGVKTLEDFATCADWELAGGWTTVDG 483

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
              K DG L       ++ + M++ AR  +GW++ +++
Sbjct: 484 ERVKDDGVLEPFEVSLEEAQDMVMTARVMLGWVDPDEL 521


>gi|254460407|ref|ZP_05073823.1| transcription termination factor NusA [Rhodobacterales bacterium
           HTCC2083]
 gi|206676996|gb|EDZ41483.1| transcription termination factor NusA [Rhodobacteraceae bacterium
           HTCC2083]
          Length = 537

 Score =  654 bits (1688), Expect = 0.0,   Method: Composition-based stats.
 Identities = 287/527 (54%), Positives = 381/527 (72%), Gaps = 2/527 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVIEAMEESLARAAKSRYGAEMDIRVAIDRKTGRA 62

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE  E+ENY  + +++ A+    + ++G    + +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEDEELENYQAEFTVEQAKQYMENPEVGATFVEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQ+ EF+D+ G II+G VKR EYGNVIVD+G  +G++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQFEEFQDRAGTIINGVVKREEYGNVIVDVGRGEGILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ +I DVRRE RGPQ+ LSRT P+FM +LF MEVPEIY+ I+++KAV+RDPGSRAK
Sbjct: 183 NDRIRCFIKDVRREARGPQIFLSRTAPEFMAELFKMEVPEIYDNIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISHDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP EQLSLAIGRRGQNVRLASQLT   IDI+TEEE+S  RQ +F  R
Sbjct: 303 VVLDEEAGKIEVVVPDEQLSLAIGRRGQNVRLASQLTNLDIDIMTEEEESKRRQAEFELR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ FM+A++VDE  A LLVAEGF ++EE+A V+I E+  I+G DE+TA E+Q RARE+LE
Sbjct: 363 TKLFMEALDVDEFFAQLLVAEGFTNLEEVAYVEIDELLVIDGVDEDTAGELQTRAREFLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                   K RELG  + L +  GI  ++   L E+G+KT+ED A C+  +L G      
Sbjct: 423 AKAAAALAKARELGADDSLLTFEGITPQMAEVLAEDGVKTLEDFATCADWELAGGWTTVD 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
           G   K DG L   G   ++ +SMI+ AR  +GW++  ++      DA
Sbjct: 483 GERVKDDGLLEQFGMELEEAQSMIMTARVLLGWVDPAELEAAHDDDA 529


>gi|209966175|ref|YP_002299090.1| transcription elongation factor NusA [Rhodospirillum centenum SW]
 gi|209959641|gb|ACJ00278.1| transcription elongation factor NusA [Rhodospirillum centenum SW]
          Length = 511

 Score =  653 bits (1686), Expect = 0.0,   Method: Composition-based stats.
 Identities = 291/506 (57%), Positives = 382/506 (75%), Gaps = 16/506 (3%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +ELLQ+ADAVA EK+ID++ VL  M ++I+KA RS YG   DIR  I+ +TG+I L R L
Sbjct: 1   MELLQVADAVAREKNIDKEHVLEAMEEAIKKAGRSKYGHEHDIRARIDRKTGEIQLTRYL 60

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           EVVE VEN   QI L  A+ ++P+  +G  + DPLPP+DFGR+A Q+AKQVI+QKVREAE
Sbjct: 61  EVVETVENEALQIDLAKAKRKNPAAKVGDFIVDPLPPIDFGRIAAQTAKQVIVQKVREAE 120

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R+RQ+ E+KD++GEI++G VKRVEYGNV VDLG ++GV+RRDE++ RE+ + GDRV++YI
Sbjct: 121 RERQFNEYKDRMGEIVNGLVKRVEYGNVTVDLGRAEGVLRRDESLPREHFKTGDRVRAYI 180

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           YDVRREQRGPQ+ LSRTHP FM  LF  EVPEIY+GI+++KAV+RDPGSRAK+AV S DS
Sbjct: 181 YDVRREQRGPQIFLSRTHPMFMAGLFKQEVPEIYDGIIEIKAVARDPGSRAKIAVISKDS 240

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D ATFV+NAL PA V KVVLDE+ G
Sbjct: 241 SIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWNRDPATFVVNALAPAEVAKVVLDEENG 300

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
           +IEV+VP +QLSLAIGRRGQNVRLAS LTGW IDI+TE+E+S  RQ++F  R+Q FM+A+
Sbjct: 301 KIEVVVPDDQLSLAIGRRGQNVRLASMLTGWDIDIMTEKEESDRRQEEFRTRSQLFMEAL 360

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           +VD++IAHLLVAEGF  VEE+A V + E+ +I+ FDE+ A E+Q RA+ +LE  +  L++
Sbjct: 361 DVDDVIAHLLVAEGFTSVEEIAFVDLDELTAIDAFDEDVAAELQNRAQAFLEEQNARLEE 420

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDG 486
           K R LGV +++ ++  +   + V LGENG+KT++DLA  + D+L                
Sbjct: 421 KRRALGVDDDVAAVEALTPAMLVKLGENGVKTLDDLADLAGDELSE-------------- 466

Query: 487 FLSSLGTPKDQVESMIIHARYKMGWI 512
            +       D   ++I+ AR    W 
Sbjct: 467 IVGKDALSVDDANAVIMAARAH--WF 490


>gi|254438705|ref|ZP_05052199.1| NusA N-terminal domain family [Octadecabacter antarcticus 307]
 gi|198254151|gb|EDY78465.1| NusA N-terminal domain family [Octadecabacter antarcticus 307]
          Length = 537

 Score =  651 bits (1680), Expect = 0.0,   Method: Composition-based stats.
 Identities = 276/526 (52%), Positives = 376/526 (71%), Gaps = 2/526 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG+  DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKQIDPILVVEAMEESLARAAKSRYGSEMDIRVHIDRKTGKA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VV E  +ENY  + +++ AR+     ++G    + +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVAEAELENYQAEFTVEQAREYMEDPEVGQEFIEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERD+QY +FKD+ G II+  VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDKQYEDFKDRAGTIINAQVKREEYGNVIVDVGTGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ +I +VRREQRGPQ+ LSRT PQFM +LF MEVPEIY GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRCFIKEVRREQRGPQIFLSRTDPQFMAELFKMEVPEIYEGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDNSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDMPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VV DED  RIEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TEEE+S  RQ +F  R
Sbjct: 303 VVFDEDAERIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDILTEEEESKRRQAEFELR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T  F++++++DE  A LLV+EGF  +EE+A V + E+  I+G D +TA E+Q RAR+ +E
Sbjct: 363 TGLFIESLDLDEFFAQLLVSEGFTTLEEVAYVDVDELLVIDGVDADTASELQARARDVIE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             +    +  RELGV + L    G+  ++  AL  +G+KT+ED A C+  +L G      
Sbjct: 423 AKNNKAMENARELGVEDSLVEFEGLTPQMIEALANDGVKTLEDFATCADWELAGGWTVTD 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQD 524
           G   K DG L       ++ ++MI+ AR  +GW++ + +  +   D
Sbjct: 483 GERTKDDGSLEPFEVSLEEAQTMIMTARVMLGWVDPDDLVKDAEDD 528


>gi|304320433|ref|YP_003854076.1| transcription elongation factor NusA [Parvularcula bermudensis
           HTCC2503]
 gi|303299335|gb|ADM08934.1| transcription elongation factor NusA [Parvularcula bermudensis
           HTCC2503]
          Length = 525

 Score =  648 bits (1672), Expect = 0.0,   Method: Composition-based stats.
 Identities = 312/510 (61%), Positives = 395/510 (77%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           V+AN++EL+QIA AVA EK ID  +V+  M D++ +AARS YG  +++R EI+P TG+  
Sbjct: 3   VTANKIELIQIARAVAQEKMIDPSIVIEAMEDALSRAARSRYGAETNVRAEIDPRTGETR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+RL+EVVE VEN   ++SLK A+ ++P  +IG  +SDPLPP+DFGRVA   AKQVI QK
Sbjct: 63  LWRLMEVVESVENDAVEVSLKAAQKQNPEAEIGDFISDPLPPIDFGRVAALGAKQVINQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AERD QY E+KD+VGEIISG +KR+EYG+VIVDLG  + +IRRD+ I RE LR GDR
Sbjct: 123 VRDAERDNQYNEYKDRVGEIISGLIKRIEYGHVIVDLGKGEAIIRRDQQIPREPLRQGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YI DVRRE RGPQ+ LSR HPQFM +LF  EVPE+Y+G++++KAV+RDPGSRAK+ V
Sbjct: 183 VRAYIADVRREPRGPQIFLSRNHPQFMARLFEQEVPEVYDGVIEIKAVARDPGSRAKIGV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S+DSSIDPVGACVGMRGSRVQAVV EL  EKIDIV WS D+ATFV+NAL PA V KVVL
Sbjct: 243 YSNDSSIDPVGACVGMRGSRVQAVVGELGGEKIDIVPWSEDTATFVVNALAPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE++ RIEV+VP EQLSLAIGRRGQNVRLASQLTG+ IDI+TEEE+S  RQK++ ER++ 
Sbjct: 303 DEELERIEVVVPDEQLSLAIGRRGQNVRLASQLTGYEIDIMTEEEESAKRQKEYQERSEI 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+ ++VD++IA+LLVAEGFA +EE+A V++ EIA IEGFD+ETA E+Q RA E+LE   
Sbjct: 363 FMKVLDVDDMIANLLVAEGFARIEEIAYVEVEEIAEIEGFDDETAQELQARALEWLEREQ 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L  + RELGV + L  I G+  K  VAL E G+ T+ED AGC  DDL GW+E   G  
Sbjct: 423 AELDARRRELGVEDALLEIEGMTLKWSVALAEEGVLTVEDFAGCVADDLTGWTERVDGEK 482

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGW 511
           + ++G L       D  E MI  AR ++GW
Sbjct: 483 KHYEGMLEKFRVKPDLAEQMIAEARRQVGW 512


>gi|254418431|ref|ZP_05032155.1| NusA N-terminal domain family [Brevundimonas sp. BAL3]
 gi|196184608|gb|EDX79584.1| NusA N-terminal domain family [Brevundimonas sp. BAL3]
          Length = 587

 Score =  648 bits (1672), Expect = 0.0,   Method: Composition-based stats.
 Identities = 296/533 (55%), Positives = 388/533 (72%), Gaps = 9/533 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIA+AVA EK+I+R+VV+  + ++IQK A+S YG   DIR +I+ +TG+++
Sbjct: 6   ISANRLELLQIAEAVAREKNIEREVVIEAIEEAIQKGAKSRYGAHHDIRAKIDHKTGELA 65

Query: 62  LFRLLEVVEEVENYTCQIS---------LKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQ 112
           L R + +VE+      ++          LK A  RDP   +G    + LPP +FGRV  Q
Sbjct: 66  LTRHVTIVEDDWQPEDELEEFNDSAMVRLKDALKRDPEAVVGKEYVETLPPFEFGRVQTQ 125

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETIS 172
            A+QV+  KVREAER  QY EFKD+VGEI++GTVKRVEYGN IVDLG  +GV+RRD++I 
Sbjct: 126 MARQVVTGKVREAERANQYEEFKDRVGEIVNGTVKRVEYGNTIVDLGRGEGVMRRDQSIP 185

Query: 173 RENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRD 232
           RE    GDR+++YIYDVR E +GPQV+LSR HP FM KLF  EVPE+Y+G+++++A +RD
Sbjct: 186 REVFNIGDRIRTYIYDVRPEAKGPQVMLSRAHPGFMAKLFAQEVPEVYDGVIEIRAAARD 245

Query: 233 PGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALR 292
            GSRAK+AV S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+PD  TF++NAL 
Sbjct: 246 SGSRAKMAVLSNDSSIDPVGACVGMRGSRVQAVVAELQGEKIDIIQWNPDEPTFIVNALA 305

Query: 293 PAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
           PA V+KVVLDE+ GR+EV+VP EQLSLAIGRRGQNVRLASQLTGW IDIITE +DS  RQ
Sbjct: 306 PAEVSKVVLDEEAGRVEVVVPDEQLSLAIGRRGQNVRLASQLTGWQIDIITESQDSERRQ 365

Query: 353 KDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGR 412
           ++F+ERT  F +A++VDE+IA LLV EGFA +E+LA V   E++ IEGFDEETA E+Q R
Sbjct: 366 REFSERTGLFQEALDVDEVIAQLLVTEGFATIEDLAYVDPYEVSEIEGFDEETAEELQAR 425

Query: 413 AREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG 472
           AR++L+     L  K  ELGV + +  +PG+   + VALGE G+KT+EDLA  + D++ G
Sbjct: 426 ARDFLDRKAAELDAKRVELGVEDGVLQVPGVTLAMAVALGEGGVKTVEDLADLATDEIRG 485

Query: 473 WSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
             E K G   K  G L S    ++  E +I+ AR   GWI+  ++     ++A
Sbjct: 486 GYEVKNGERVKVPGVLESFNLAQEDAEMLILQARVAAGWIDASELPQPAPEEA 538


>gi|255262084|ref|ZP_05341426.1| transcription elongation factor NusA [Thalassiobium sp. R2A62]
 gi|255104419|gb|EET47093.1| transcription elongation factor NusA [Thalassiobium sp. R2A62]
          Length = 538

 Score =  647 bits (1669), Expect = 0.0,   Method: Composition-based stats.
 Identities = 282/523 (53%), Positives = 374/523 (71%), Gaps = 2/523 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPSLVIEAMEESLARAAKSRYGAEMDIRVSIDRKTGKA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVEE  +ENY  + +++ A+      ++G    + +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEEEELENYQAEFTVEQAKQYMEDPEVGQAFVEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKDK G II+  VKR EYGNVIVD+G+ + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDKAGTIINALVKREEYGNVIVDVGSGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ YI DVRREQRGPQ+ LSRT P+FM KLF MEVPEIY+ I+++KAV+RDPGSRAK
Sbjct: 183 NDRIRCYIKDVRREQRGPQIFLSRTAPEFMAKLFEMEVPEIYDNIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDMPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+  RIEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TEEEDS  RQ +F  R
Sbjct: 303 VVLDEEAERIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDIMTEEEDSKRRQAEFETR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+ FM  +++DE  A LLV+EGF ++EE+A V++ E+  I+G DE TA E+Q RAR++LE
Sbjct: 363 TKLFMDTLDLDEFFAQLLVSEGFTNLEEVAYVEVEELLVIDGVDEGTAGELQARARDFLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             +    +  R LGV   L    G+  ++  AL E+G+KT+ED A C+  +L G    + 
Sbjct: 423 AQNKKALENARALGVENSLVEFEGLTPQMVEALAEDGVKTLEDFATCADWELAGGWTTQD 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEE 521
           G   K DG L       ++ + M++ AR  +GW++   +    
Sbjct: 483 GERIKDDGVLEKFEISLEEAQDMVMTARIMLGWVDPADLETAS 525


>gi|254510431|ref|ZP_05122498.1| transcription termination factor NusA [Rhodobacteraceae bacterium
           KLH11]
 gi|221534142|gb|EEE37130.1| transcription termination factor NusA [Rhodobacteraceae bacterium
           KLH11]
          Length = 537

 Score =  645 bits (1666), Expect = 0.0,   Method: Composition-based stats.
 Identities = 280/521 (53%), Positives = 378/521 (72%), Gaps = 2/521 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG   DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPGLVVEAMEESLARAAKSRYGAEMDIRVSIDRKTGKA 62

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VVE  E+ENY  +++++ A+    + ++G V  + +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVEDEELENYQAEMTVEQAKQYMEAPEVGQVFIEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ G II+G VKR E+GNVIVDLG ++ V+RR++ I RE+ RP
Sbjct: 123 LQKVREAERDRQYEEFKDRAGTIINGAVKREEFGNVIVDLGGAEAVLRRNDKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DRV++YI +VRRE RG Q+ LSRT P+FM +LF MEVPEIY+GI++VKAV+RDPGSRAK
Sbjct: 183 NDRVRAYIKEVRREVRGHQIFLSRTAPEFMAELFKMEVPEIYDGIIEVKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDGSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDQPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDE+ G+IEV+VP+EQLSLAIGRRGQNVRLASQLT   IDI+TE E+S  RQK+F  R
Sbjct: 303 VVLDEEAGKIEVVVPEEQLSLAIGRRGQNVRLASQLTNLDIDIMTEAEESARRQKEFEAR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           TQ FM+ +++DE  A LLV+EGF ++EE+A V++ E+  I+G DE TA E+Q RARE+LE
Sbjct: 363 TQLFMETLDLDEFFAQLLVSEGFTNLEEVAYVELDELLVIDGVDEGTAQELQTRAREFLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                     R LGV + L    G+  ++  AL ++ +KT+ED A C+  +L G      
Sbjct: 423 AQAKAALDAARALGVEDSLIEFEGLTPQMVEALAKDDVKTLEDFATCADWELAGGWTTVD 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVAD 519
           G   K DG L   G   ++ + +++ AR  +GW++  ++  
Sbjct: 483 GERIKDDGVLEPFGVTLEEAQDLVMTARIMLGWVDPAELEQ 523


>gi|114769758|ref|ZP_01447368.1| transcription elongation factor NusA [alpha proteobacterium
           HTCC2255]
 gi|114549463|gb|EAU52345.1| transcription elongation factor NusA [alpha proteobacterium
           HTCC2255]
          Length = 542

 Score =  645 bits (1665), Expect = 0.0,   Method: Composition-based stats.
 Identities = 294/519 (56%), Positives = 386/519 (74%), Gaps = 2/519 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SANRLELLQIAD+VA EK ID D+VL  M +S  KAA+S YG   DIR  I+ ++G++
Sbjct: 3   ITSANRLELLQIADSVAREKMIDPDLVLQAMEESYAKAAKSKYGAELDIRAFIDRKSGEL 62

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            + R+  VVE  E EN   +++++ A+       +G ++ D LPPMDFGR+  QSAKQVI
Sbjct: 63  EMTRVRVVVEGTEAENMYTEMTVEEAKAHKEEPSVGDLIIDKLPPMDFGRIGAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ GEII+G VKRVEYGNVIVD+G  + V RRD+ ++RE  R 
Sbjct: 123 LQKVREAERDRQYEEFKDRQGEIINGLVKRVEYGNVIVDVGRGEAVCRRDQLVNREMFRN 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDR++++I +VR E RGPQV LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 GDRIRAFIKEVRSEMRGPQVFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           + V S D+SIDPVGACVGMRGSRVQAVV EL  EKIDI+ W+ D+ TF++NAL+PA VTK
Sbjct: 243 IGVISFDNSIDPVGACVGMRGSRVQAVVNELGGEKIDIIPWNEDAPTFLVNALQPAEVTK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDED  RIEV+VP EQLSLAIGRRGQNVRLASQLTG  IDI+TE ++S  RQK+F ER
Sbjct: 303 VVLDEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGLDIDIMTETDESERRQKEFEER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           +Q FM  +NVDE++A LLV+EGF+ +EE+A V+  E+  IEGFD++T  E+Q RARE LE
Sbjct: 363 SQLFMDTMNVDEVVAQLLVSEGFSSLEEVAYVETDELLMIEGFDQDTVDELQARARESLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            I+     + RELGV+++L    G+  ++ VALG++ +K++ED A C+  +L G      
Sbjct: 423 EINAKSIAEARELGVAQDLIDFEGLSPQMLVALGKDDVKSLEDFATCADWELAGGYTTVD 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
           G   K DG L S      + + MI+ AR ++GW+ +E++
Sbjct: 483 GERHKDDGVLESFEVNIQEAQDMIMRARLQIGWVTEEQL 521


>gi|161170254|gb|ABX59224.1| transcription elongation factor [uncultured marine bacterium
           EB000_55B11]
 gi|297183783|gb|ADI19906.1| hypothetical protein [uncultured marine bacterium EB000_55B11]
          Length = 542

 Score =  643 bits (1659), Expect = 0.0,   Method: Composition-based stats.
 Identities = 293/515 (56%), Positives = 382/515 (74%), Gaps = 2/515 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SANRLELLQIAD+VA EK ID D+VL  M +S  KAA+S YG   DIR  I+ ++G++
Sbjct: 3   ITSANRLELLQIADSVAREKMIDPDLVLQAMEESYAKAAKSKYGAELDIRAFIDRKSGEL 62

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            + R+  VVE  E EN   +++++ A+       +G ++ D LPPMDFGR+  QSAKQVI
Sbjct: 63  EMTRVRVVVEGTEAENMYTEMTVEEAKAHKEEPSVGDLIIDKLPPMDFGRIGAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERDRQY EFKD+ GEII+G VKRVEYGNVIVD+G  + V RRD+ ++RE  R 
Sbjct: 123 LQKVREAERDRQYEEFKDRQGEIINGLVKRVEYGNVIVDVGRGEAVCRRDQLVNREMFRN 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDR++++I +VR E RGPQV LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK
Sbjct: 183 GDRIRAFIKEVRSEMRGPQVFLSRTAPEFMAELFKMEVPEIYDGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           + V S D+SIDPVGACVGMRGSRVQAVV EL  EKIDI+ W+ D+ TF++NAL+PA VTK
Sbjct: 243 IGVISFDNSIDPVGACVGMRGSRVQAVVNELGGEKIDIIPWNEDAPTFLVNALQPAEVTK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VVLDED  RIEV+VP EQLSLAIGRRGQNVRLASQLTG  IDI+TE ++S  RQK+F ER
Sbjct: 303 VVLDEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGLDIDIMTETDESERRQKEFEER 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           +Q FM  +NVDE++A LLV+EGF+ +EE+A V+  E+  IEGFD++T  E+Q RARE LE
Sbjct: 363 SQLFMDTMNVDEVVAQLLVSEGFSSLEEVAYVETDELLMIEGFDQDTVDELQARARESLE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            I+     + RELGV+++L    G+  ++ VALG++ +K++ED A C+  +L G      
Sbjct: 423 EINAKSIAEARELGVAQDLIDFEGLSPQMLVALGKDDVKSLEDFATCADWELAGGYTTVD 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           G   K DG L S      + + MI+ AR ++GW+ 
Sbjct: 483 GERHKDDGVLESFEVNIQEAQDMIMRARLQIGWVT 517


>gi|329847354|ref|ZP_08262382.1| transcription elongation protein nusA [Asticcacaulis biprosthecum
           C19]
 gi|328842417|gb|EGF91986.1| transcription elongation protein nusA [Asticcacaulis biprosthecum
           C19]
          Length = 564

 Score =  642 bits (1656), Expect = 0.0,   Method: Composition-based stats.
 Identities = 303/513 (59%), Positives = 384/513 (74%), Gaps = 2/513 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANR ELLQIADAVA EK ID+ VV++ + ++IQKAARS YG   DIRV I+P+ G+++
Sbjct: 6   ISANRQELLQIADAVAREKQIDKSVVIASIEEAIQKAARSRYGADHDIRVHIDPKWGEMT 65

Query: 62  LFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           + R + VV  EEVEN   Q SL  A   D    +G    + LPP + GRV  Q A+QV+ 
Sbjct: 66  ITRHVTVVGDEEVENEYAQKSLSDALREDKEAFVGKEYVETLPPFELGRVQTQMARQVVT 125

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPG 179
            KVREAER+RQY EFKD+VGEI++GTV+RVEYGNVIVDLG  +G++RRD++I RE  +  
Sbjct: 126 HKVREAERERQYDEFKDRVGEIVNGTVRRVEYGNVIVDLGRGEGIMRRDQSIPREAFQVN 185

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR+++YIYDVRRE +GPQ++LSR H  FM KLF  EVPEIY+G++++K+V+RDPGSRAK+
Sbjct: 186 DRIRAYIYDVRRETKGPQIMLSRAHGGFMAKLFAQEVPEIYDGVIEIKSVARDPGSRAKM 245

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S+D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATF++NAL PA VTKV
Sbjct: 246 AVLSNDNSIDPVGACVGMRGSRVQAVVAELQGEKIDIIQWSPDEATFIVNALAPAEVTKV 305

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           VLDE+  R+EV+VP EQLSLAIGRRGQNVRL SQLTGW +DIITE +DS  RQK+F ERT
Sbjct: 306 VLDEEEDRVEVVVPDEQLSLAIGRRGQNVRLGSQLTGWQVDIITESQDSERRQKEFAERT 365

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             F +A++VDE+IA LLV EGF  VE+LA V  +EIA+IEGFDE+TA E+Q RAR++LE 
Sbjct: 366 ALFQEALDVDEVIAQLLVTEGFTSVEDLAYVDENEIAAIEGFDEDTAQELQARARDFLER 425

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
                  K +ELGV + +  + G+   + VALGE G+KT+EDLA  + D+L G  E KGG
Sbjct: 426 ETAEQDAKRKELGVEDGVLEVQGVTLPMAVALGEAGVKTVEDLADLATDELRGGFEQKGG 485

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
              +  G L S        ES+I++AR   GWI
Sbjct: 486 ERVRVPGALESFTLSVPDAESLILNARVTAGWI 518


>gi|197106902|ref|YP_002132279.1| N utilization substance protein A [Phenylobacterium zucineum HLK1]
 gi|196480322|gb|ACG79850.1| N utilization substance protein A [Phenylobacterium zucineum HLK1]
          Length = 561

 Score =  641 bits (1654), Expect = 0.0,   Method: Composition-based stats.
 Identities = 307/550 (55%), Positives = 394/550 (71%), Gaps = 28/550 (5%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIA+AVA EK+ID+++V+  + ++IQK AR+ YG   DIRV I+P+TG+ +
Sbjct: 6   ISANRLELLQIAEAVAREKAIDKEIVIEAIEEAIQKGARARYGAEHDIRVHIDPKTGETT 65

Query: 62  LFRLLEVVEE-----------------VENYTCQISLKVARDRDPSIDIGGVVSDPLPPM 104
           + R++ VV +                 +E     I L  A+ RD   ++G V  + LPP 
Sbjct: 66  IKRVVTVVADDATFGGGVDPETGEELPIEEPPGIIRLAEAKRRDKDAEVGKVYEELLPPF 125

Query: 105 DFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV 164
           +FGRV  Q A+QV++ KVR+AER+RQY E+KD+VGEI++GTVKRVEYGNV+VDLG  +G+
Sbjct: 126 EFGRVQTQMARQVVMGKVRDAERERQYEEYKDRVGEIVNGTVKRVEYGNVVVDLGRGEGI 185

Query: 165 IRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           +RRD++I REN   GDR++ YIYDVRRE +GPQ+LLSR H  FM KLF  EVPE+Y+G++
Sbjct: 186 MRRDQSIPRENFNIGDRIRCYIYDVRRETKGPQILLSRAHGGFMAKLFAQEVPEVYDGVI 245

Query: 225 QVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSA 284
           +++AV+RDPGSRAK+AV S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D A
Sbjct: 246 EIRAVARDPGSRAKMAVVSNDSSIDPVGACVGMRGSRVQAVVAELQGEKIDIIQWSQDDA 305

Query: 285 TFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           TF++NAL PA V+KVV+DE+  R+EV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE
Sbjct: 306 TFIVNALAPAEVSKVVMDEEDERVEVVVPDEQLSLAIGRRGQNVRLASQLTGWQIDIMTE 365

Query: 345 EEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEE 404
            ++S  RQ++F ERT  F +A++VDE+IA LLV EGFA VE++  V  SEI++IEGFDE+
Sbjct: 366 SQESERRQREFTERTALFQEALDVDEVIAQLLVTEGFATVEDVGYVDPSEISAIEGFDED 425

Query: 405 TAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAG 464
           TA EIQ RAREYLE        K RELGV + L  I GI   + VALGE GIKT+EDLAG
Sbjct: 426 TAEEIQTRAREYLEKEAAEYDAKRRELGVEDGLLDIEGITLPMAVALGEGGIKTVEDLAG 485

Query: 465 CSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI-----------E 513
              DDL GW E K G   +  G L + G      E +I+ AR  MGW+            
Sbjct: 486 LVPDDLRGWFETKNGERVREPGILETFGLDAQDAELLIMRARIVMGWVEAPEEPEAEEPT 545

Query: 514 KEKVADEEVQ 523
            E  A+ E+ 
Sbjct: 546 DEDFAEAEMA 555


>gi|302381338|ref|YP_003817161.1| NusA antitermination factor [Brevundimonas subvibrioides ATCC
           15264]
 gi|302191966|gb|ADK99537.1| NusA antitermination factor [Brevundimonas subvibrioides ATCC
           15264]
          Length = 580

 Score =  640 bits (1653), Expect = 0.0,   Method: Composition-based stats.
 Identities = 296/521 (56%), Positives = 382/521 (73%), Gaps = 9/521 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIA+AVA EK+IDR++V+  + ++IQK A+S YG   DIR  I+P+TG+++
Sbjct: 6   ISANRLELLQIANAVAQEKNIDREIVIEALEEAIQKGAKSRYGAHHDIRARIDPKTGELA 65

Query: 62  LFRLLEVVEEVENYTCQIS---------LKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQ 112
           L R + +VE+      ++          L  A  RDP   +G    + LPP +FGRV  Q
Sbjct: 66  LTRHVTIVEDDWMPEDELEEFNDSAMVRLTDASKRDPEAVVGKEYVEDLPPFEFGRVQTQ 125

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETIS 172
            A+QVI  KVREAER  QY EFKD+VGEI++GTVKRVEYGN IVDLG  +G++RRD++I 
Sbjct: 126 MARQVITGKVREAERANQYEEFKDRVGEIVNGTVKRVEYGNTIVDLGRGEGIMRRDQSIP 185

Query: 173 RENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRD 232
           RE    GDR+++YIYDVR E +GPQ++LSR HP FM KLF  EVPE+Y+G+++++A +RD
Sbjct: 186 REVFNIGDRIRTYIYDVRPEAKGPQIMLSRAHPGFMAKLFAQEVPEVYDGVIEIRAAARD 245

Query: 233 PGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALR 292
            GSRAK+AV S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+PD  TF++NAL 
Sbjct: 246 AGSRAKMAVLSNDSSIDPVGACVGMRGSRVQAVVAELQGEKIDIIQWNPDEPTFIVNALA 305

Query: 293 PAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
           PA V+KVVLDE+  R+EV+VP EQLSLAIGRRGQNVRLASQLTGW IDIITE +DS  RQ
Sbjct: 306 PAEVSKVVLDEEADRVEVVVPDEQLSLAIGRRGQNVRLASQLTGWQIDIITESQDSERRQ 365

Query: 353 KDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGR 412
           ++F+ERT  F +A++VDE+IA LLV EGFA VE+LA V   E+A IEGFDE+TA E+Q R
Sbjct: 366 REFSERTTLFQEALDVDEVIAQLLVTEGFATVEDLAFVDNYEVAEIEGFDEDTAEELQAR 425

Query: 413 AREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG 472
           AR++LE     L  K  ELGV + + ++PG+   I VALGE G+KT+EDLA  + D++ G
Sbjct: 426 ARDFLERQAAILDAKRVELGVEDGVMAVPGVTGAIAVALGEGGVKTVEDLADLATDEIRG 485

Query: 473 WSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
             E K G   K  G L S    ++  E +I+ AR   GWI+
Sbjct: 486 GYEMKNGERVKVPGVLESFNLAQEDAELLILQARVAAGWID 526


>gi|254452567|ref|ZP_05066004.1| transcription termination factor NusA [Octadecabacter antarcticus
           238]
 gi|198266973|gb|EDY91243.1| transcription termination factor NusA [Octadecabacter antarcticus
           238]
          Length = 538

 Score =  640 bits (1653), Expect = 0.0,   Method: Composition-based stats.
 Identities = 274/522 (52%), Positives = 374/522 (71%), Gaps = 2/522 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID  +V+  M +S+ +AA+S YG+  DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKQIDPILVVEAMEESLARAAKSRYGSEMDIRVHIDRKTGKA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +  R+  VV E  +ENY  + +++ A++     ++G    + +PP++ GR+A QSAKQVI
Sbjct: 63  TFTRVRTVVAEAELENYQSEFTVEQAKEYMEDPEVGQEFIEEVPPVEMGRIAAQSAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +QKVREAERD+QY +FKD+ G II+  VKR EYGNVIVD+G  + ++RR+E I RE+ RP
Sbjct: 123 LQKVREAERDKQYEDFKDRAGTIINAQVKREEYGNVIVDVGTGEAILRRNEKIGRESYRP 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ YI +VRREQRGPQ+ LSRT PQFM +LF MEVPEIY GI+++KAV+RDPGSRAK
Sbjct: 183 NDRIRCYIKEVRREQRGPQIFLSRTDPQFMAELFKMEVPEIYEGIIEIKAVARDPGSRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL+PA V+K
Sbjct: 243 IAVISYDNSIDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDMPTFLVNALQPAEVSK 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VV DED  RIEV+VP+EQLSLAIGRRGQNVRLASQLTG  IDI+TEEE+S  RQ +F  R
Sbjct: 303 VVFDEDAERIEVVVPEEQLSLAIGRRGQNVRLASQLTGLDIDILTEEEESKRRQAEFELR 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T  F++++++DE  A LLV+EGF  +EE+A V++ E+  I+G D +TA E+Q RAR+ +E
Sbjct: 363 TGLFIESLDLDEFFAQLLVSEGFTTLEEVAYVEVEELLVIDGVDADTASELQARARDVIE 422

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             +    +  R LGV + L    G+  ++  AL  +G+KT+ED A C+  +L G      
Sbjct: 423 AKNNKAMENARALGVEDSLVEFEGLTPQMIEALANDGVKTLEDFATCADWELAGGWTVTD 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADE 520
           G   K DG L       ++ + MI+ AR  +GW++ + +  +
Sbjct: 483 GERTKDDGSLEPFEVSLEEAQKMIMTARVMLGWVDPDDLVKD 524


>gi|297717896|gb|ADI50091.1| transcription termination protein NusA [Candidatus Odyssella
           thessalonicensis L13]
          Length = 513

 Score =  639 bits (1649), Expect = 0.0,   Method: Composition-based stats.
 Identities = 276/517 (53%), Positives = 377/517 (72%), Gaps = 16/517 (3%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +S  R E+L +A+AVA EK I+RD VL  M  +IQKAAR+ YG   D+R +++  TGD++
Sbjct: 13  ISQPRHEILAVAEAVAREKGIERDEVLYAMEQAIQKAARAKYGFEKDVRAKVDKHTGDVN 72

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++++L VVEEVE+   QISL  A   D S ++G  + +PLPP++FGRVA QSA+QVIIQK
Sbjct: 73  IWKVLTVVEEVEDPLVQISLTDAHQIDKSYNVGDELVEPLPPIEFGRVAAQSARQVIIQK 132

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER  QY EFKD+  +IISG VKRVE+GNVIVDLG ++G++RR++ I RE  R GDR
Sbjct: 133 VRDAERAHQYAEFKDRANQIISGVVKRVEFGNVIVDLGRAEGILRREDLIQREVFRSGDR 192

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+ DVR + RGP V LSRTHPQFM +LF  EVPEIY+G++++K+V+RDPGSRAK+AV
Sbjct: 193 VRAYVSDVRPDARGPMVSLSRTHPQFMARLFESEVPEIYDGVIEIKSVARDPGSRAKIAV 252

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +++D SIDPVG+CVG+RG RVQAVVTEL+ EKIDIV WS + ATFV+NAL PA V KVVL
Sbjct: 253 YTADPSIDPVGSCVGLRGVRVQAVVTELQGEKIDIVPWSSNPATFVVNALAPAEVIKVVL 312

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  R++++V ++QLSLAIGRRGQNVRLASQLTGW IDI+TEE+++  R +++N RTQ 
Sbjct: 313 DEEAHRVDMVVAEDQLSLAIGRRGQNVRLASQLTGWNIDIMTEEQEAKLRTEEYNTRTQL 372

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM A++VDE+IA LL A+GF  VEEL+   + E+ +IEGFDE  A EIQ RA  ++E   
Sbjct: 373 FMNALDVDEVIAQLLAADGFTTVEELSFAPLEELTAIEGFDEAIAQEIQSRALSFVEQRA 432

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
               +K ++LGVSEE+  I G+ +++ + L E+ IK+++D A  S D+ L  ++      
Sbjct: 433 KASLEKAKDLGVSEEILEIDGMTAEMLLKLAEHNIKSLDDFADLSGDEFLEIAQEDQ--- 489

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
                         +Q  +MI+ AR    W ++E  A
Sbjct: 490 -----------LTLEQANAMIMAARAH--WFDEEPKA 513


>gi|315497224|ref|YP_004086028.1| nusa antitermination factor [Asticcacaulis excentricus CB 48]
 gi|315415236|gb|ADU11877.1| NusA antitermination factor [Asticcacaulis excentricus CB 48]
          Length = 546

 Score =  639 bits (1648), Expect = 0.0,   Method: Composition-based stats.
 Identities = 300/513 (58%), Positives = 385/513 (75%), Gaps = 2/513 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANR ELLQIADAVA EK ID+ VVL+ + +++QKAARS YG   DIRV ++P TG+++
Sbjct: 6   ISANRQELLQIADAVAREKQIDKSVVLASIEEAVQKAARSRYGADHDIRVRVDPRTGEMT 65

Query: 62  LFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           + R + VV  EE+EN   Q  L  A   D    +G    + LPP + GRV  Q A+QV+ 
Sbjct: 66  ITRYVTVVPDEELENEYAQRGLTEALREDKDAFVGKTYDEVLPPFELGRVQSQMARQVVT 125

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPG 179
            KVREAER+RQY EFKD+VGEI++GTVKRVEYGNVIVDLG  +G++RRD++I RE  +  
Sbjct: 126 HKVREAERERQYDEFKDRVGEIVNGTVKRVEYGNVIVDLGRGEGIMRRDQSIPREAFQVN 185

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR+++YIYDVRRE +GPQ++LSR H  FM KLF  EVPE+Y+G++++K+V+RDPGSRAK+
Sbjct: 186 DRIRAYIYDVRRETKGPQIMLSRAHGGFMAKLFAQEVPEVYDGVIEIKSVARDPGSRAKM 245

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S+D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATF++NAL PA V+KV
Sbjct: 246 AVLSNDNSIDPVGACVGMRGSRVQAVVGELQGEKIDIIQWSPDEATFIVNALAPAEVSKV 305

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           VLDE+  R+EV+VP EQLSLAIGRRGQNVRLASQLTGW +DIITE +DS  RQK+F ERT
Sbjct: 306 VLDEEEDRVEVVVPDEQLSLAIGRRGQNVRLASQLTGWQVDIITESQDSERRQKEFAERT 365

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             F +A++ DE+IA LLV EGF+ VE+LA V   EIA+IEGFDE+TA E+Q RAR+YLE 
Sbjct: 366 ALFQEALDADEVIAQLLVTEGFSTVEDLAYVDQMEIAAIEGFDEDTAAELQARARDYLER 425

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
            +     K  ELGV +E+ ++PGI   + VALGE G+KT+EDLA  + D++ G  E +G 
Sbjct: 426 FEAEQNAKRVELGVEDEVLNVPGITLAMAVALGEAGVKTVEDLADLATDEVRGGFEQRGA 485

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
              +  G L S        E++I++AR   GWI
Sbjct: 486 EKVRVPGALESFSLSVADAEALILNARIAAGWI 518


>gi|329891253|ref|ZP_08269596.1| transcription elongation protein nusA [Brevundimonas diminuta ATCC
           11568]
 gi|328846554|gb|EGF96118.1| transcription elongation protein nusA [Brevundimonas diminuta ATCC
           11568]
          Length = 576

 Score =  634 bits (1636), Expect = e-179,   Method: Composition-based stats.
 Identities = 295/529 (55%), Positives = 381/529 (72%), Gaps = 9/529 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELL IADAVA EK+IDR++V+  + ++IQK A+S YG   DIR +I+ +TG++S
Sbjct: 4   ISANRLELLSIADAVAREKNIDREIVIEAIEEAIQKGAKSRYGAHHDIRAQIDHKTGELS 63

Query: 62  LFRLLEVVEEVENYTCQIS---------LKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQ 112
           L R + +V +      ++          L+ A  RD   ++G    + LPP +FGRV  Q
Sbjct: 64  LTRHVTIVADDWQPEDELEEFNDSAMVRLRDALKRDAEAEVGKEYVEVLPPFEFGRVQTQ 123

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETIS 172
            A+QV+  KVREAER  QY EFKD+VGEI++GTVKRVEYGN IVDLG  +G++RRD++I 
Sbjct: 124 MARQVVTGKVREAERANQYEEFKDRVGEIVNGTVKRVEYGNTIVDLGRGEGIMRRDQSIP 183

Query: 173 RENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRD 232
           RE    GDRV++YIYDVR E +GPQV+LSR HP FM KLF  EVPE+Y+G+++++A +RD
Sbjct: 184 REVFNVGDRVRTYIYDVRPEAKGPQVMLSRAHPGFMAKLFAQEVPEVYDGVIEIRAAARD 243

Query: 233 PGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALR 292
            GSRAK+AV S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D  TF++NAL 
Sbjct: 244 AGSRAKMAVLSNDSSIDPVGACVGMRGSRVQAVVAELQGEKIDIIQWNEDEPTFIVNALA 303

Query: 293 PAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
           PA V KVVLDE+  R+EV+VP EQLSLAIGRRGQNVRLASQLTGW IDIITE +DS  RQ
Sbjct: 304 PAEVAKVVLDEEADRVEVVVPDEQLSLAIGRRGQNVRLASQLTGWQIDIITESQDSERRQ 363

Query: 353 KDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGR 412
           ++F ERT  F +A++VDE IA LLV EGFA VE+LA V+  EI+ IEGFDE+TA E+Q R
Sbjct: 364 REFAERTALFQEALDVDETIAQLLVTEGFATVEDLAFVEAYEISEIEGFDEDTAEELQTR 423

Query: 413 AREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG 472
           ARE+LE     L  K   LGV + +  +PG+ + I VALGE G+KT+EDLA  + D++ G
Sbjct: 424 AREHLERQAAELDAKRVALGVEDGVLDVPGVTAAIAVALGEGGVKTVEDLADLATDEIRG 483

Query: 473 WSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEE 521
             E +GG   K  G L S    ++  E +I+ AR   GWI+  ++   E
Sbjct: 484 GYEVRGGERVKVPGVLESFNLSQEDAEMLILQARVAAGWIDASELPQPE 532


>gi|144897846|emb|CAM74710.1| transcription elongation protein [Magnetospirillum gryphiswaldense
           MSR-1]
          Length = 503

 Score =  631 bits (1629), Expect = e-179,   Method: Composition-based stats.
 Identities = 282/516 (54%), Positives = 368/516 (71%), Gaps = 17/516 (3%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + +  R ELLQ+ADAVA +K IDRD VL  M  +IQKA RS YG   DIR  I+ +TG+I
Sbjct: 4   IAALPRPELLQVADAVARDKGIDRDEVLEAMEQAIQKAGRSKYGHEHDIRAHIDRKTGEI 63

Query: 61  SLFRLLEVVEEVENY-TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
            L R +EVVEE       Q+ L  A  ++P    G  + DPLPP+DFGR+A Q+AKQVI+
Sbjct: 64  QLARYIEVVEEEVENEATQLPLARALKKNPGAKAGDFLVDPLPPIDFGRIAAQTAKQVIV 123

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPG 179
           QKVR+AER RQ+ E+KD+VGEI +G VKRVE+GNVIVDLG ++ ++RRDE I RE  R G
Sbjct: 124 QKVRDAERQRQFNEYKDRVGEISNGLVKRVEFGNVIVDLGRAEALLRRDELIPRETFRTG 183

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DRV++YI DVR+E RGPQ+ LSRT P FM KLF  EVPEIY+GI+++KAV+RDPGSRAK+
Sbjct: 184 DRVRAYIADVRQEPRGPQIFLSRTSPIFMSKLFAQEVPEIYDGIIEIKAVARDPGSRAKI 243

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS + ATFV+NAL PA V+KV
Sbjct: 244 AVISHDSSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSGEYATFVVNALAPAEVSKV 303

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           VLD++   +EV+VP +QLSLAIGRRGQNVRLASQLTGW+IDI+TE E+S  R ++F  R+
Sbjct: 304 VLDDETHTMEVVVPDDQLSLAIGRRGQNVRLASQLTGWSIDIMTEAEESERRNEEFRSRS 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + F+ A++VD++IAHLLV EGF  VEE+A V + +++ IEGFDE+ A E+Q RAR +L  
Sbjct: 364 KLFIDALDVDDVIAHLLVTEGFTTVEEVAYVPLEDLSGIEGFDEDVAAELQQRARTFLAE 423

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
            D       ++LGVS+E+ ++ G+   + V LG   IKT++DL   + D+L+        
Sbjct: 424 QDERYDAMRKDLGVSDEMAALEGLSPAMLVKLGHREIKTLDDLGDLASDELID------- 476

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                   +      +DQ  ++I+ AR    W + E
Sbjct: 477 -------IVGKDEMNEDQANAVIMAARAH--WFDGE 503


>gi|89052531|ref|YP_507982.1| transcription elongation factor NusA [Jannaschia sp. CCS1]
 gi|88862080|gb|ABD52957.1| NusA antitermination factor [Jannaschia sp. CCS1]
          Length = 590

 Score =  631 bits (1628), Expect = e-178,   Method: Composition-based stats.
 Identities = 286/566 (50%), Positives = 382/566 (67%), Gaps = 53/566 (9%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + SAN+LELLQ A+AVA EK ID ++V+  M +S+ +AA+S YG+  DIRV I+ +TG  
Sbjct: 3   ITSANQLELLQTAEAVAREKMIDPNLVVEAMEESLARAAKSRYGSELDIRVSIDRKTGRA 62

Query: 61  SLFRLLEVVEE--VENYTCQISLKVA------------------RDRDPSID-------- 92
           +  R+  V +E  +EN   ++ L  A                     D   +        
Sbjct: 63  TFTRVRTVADEDTLENDKAEMLLADADATVAAERPNVVVFNAKSHVYDEEGEVVETRDVR 122

Query: 93  -------------------------IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
                                    IG +++D +PP++ GR+A QSAKQVI+QKVREAER
Sbjct: 123 RFVMRKPTENDKLLTEGVDQSTGPVIGDMIADEVPPVEMGRIAAQSAKQVILQKVREAER 182

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           DRQ+ EFKD+VGEII+G VKR EYGNVIVD+G+ +  +RR+E I RE  R GDR++ YI 
Sbjct: 183 DRQFAEFKDRVGEIINGVVKREEYGNVIVDVGSGEAQLRRNEKIGREAYRNGDRIRCYIK 242

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           DVRRE RG Q+ LSRT P+FM +LF MEVPEIY+GI+++KAV+RDPGSRAK+AV S D+ 
Sbjct: 243 DVRRENRGHQIFLSRTAPEFMRELFKMEVPEIYDGIIEIKAVARDPGSRAKIAVISYDNG 302

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D+ TF++NAL+PA V+KVVLDED G+
Sbjct: 303 IDPVGACVGMRGSRVQAVVNELQGEKIDIIPWNEDAPTFLVNALQPAEVSKVVLDEDAGK 362

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           IEV+VP EQLSLAIGRRGQNVRLASQLT   IDI+TEEE+S  RQ +F ERT+ FM  ++
Sbjct: 363 IEVVVPDEQLSLAIGRRGQNVRLASQLTNLDIDILTEEEESKRRQAEFEERTKLFMDTLD 422

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           +DE  A LLV+EGF  +EE+A V+  E+  I+G DE TA E+Q RAR+YLE  +    +K
Sbjct: 423 LDEFFAQLLVSEGFTALEEVAYVEADELLVIDGVDEGTAEELQARARDYLEAQNKLALEK 482

Query: 428 IRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGF 487
            +E+GV E L +  G+  ++ VALGE+G+KT+ED A C+  +L G    +GG   K DG 
Sbjct: 483 AKEMGVEESLIAFEGLTPQMLVALGEDGVKTLEDFATCADWELAGGWTTEGGERIKDDGL 542

Query: 488 LSSLGTPKDQVESMIIHARYKMGWIE 513
           L       ++ ++M++ AR ++GW+ 
Sbjct: 543 LEPFEVSLEEAQNMVMTARLQLGWVT 568


>gi|288959698|ref|YP_003450039.1| N utilization substance protein A [Azospirillum sp. B510]
 gi|288912006|dbj|BAI73495.1| N utilization substance protein A [Azospirillum sp. B510]
          Length = 510

 Score =  630 bits (1627), Expect = e-178,   Method: Composition-based stats.
 Identities = 290/519 (55%), Positives = 374/519 (72%), Gaps = 16/519 (3%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +ELLQ+ADAVA EK+IDRD VL  M  +IQKA RS YG   DIR  I+ +TGDI L R L
Sbjct: 1   MELLQVADAVAREKNIDRDEVLEAMEQAIQKAGRSKYGHEHDIRARIDRKTGDIHLTRHL 60

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           EVVE VEN   Q++L  A+ R     +G  + DPLPP+DFGR+A Q+AKQVI+QKVR+AE
Sbjct: 61  EVVETVENEATQVTLPYAQRRKAGAKLGDFLVDPLPPIDFGRIAAQTAKQVIVQKVRDAE 120

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R RQ+ E+KD+ GEI++G VKRVEYGNV VDLG ++ ++RRDE + RE+ + GDRV++YI
Sbjct: 121 RKRQFNEYKDRNGEIVNGLVKRVEYGNVTVDLGRAEAILRRDELLPREHFKNGDRVRAYI 180

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           +DVR E RGPQ+ LSRTHP FM KLF  EVPEIY+GI+++KAV+RDPGSRAK+AV S DS
Sbjct: 181 FDVREEPRGPQIFLSRTHPMFMAKLFAQEVPEIYDGIIEIKAVARDPGSRAKIAVLSHDS 240

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ ++ TFV+NAL PA V KVVLD+D  
Sbjct: 241 SIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWNGEAPTFVVNALAPAEVAKVVLDDDNH 300

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
           RIEV+VP +QLSLAIGRRGQNVRLAS LTGW IDI+TE+E+S  R ++ + R+  FMQA+
Sbjct: 301 RIEVVVPDDQLSLAIGRRGQNVRLASMLTGWDIDILTEQEESERRSEEIHNRSALFMQAL 360

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           +VD++IAHLLVAEGF  VEE+A V+  E+A IEGFDE  A E++ RA  +L+  D     
Sbjct: 361 DVDDVIAHLLVAEGFTSVEEIAFVETEELAEIEGFDESVADELKQRALAFLDVQDEQANL 420

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDG 486
           +  ELGV + +  + G ++   V LGENG+KT++DLA  + D+L+               
Sbjct: 421 RRLELGVEDIVAELTGFNATQLVKLGENGVKTLDDLADLAGDELVE-------------- 466

Query: 487 FLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
            L   G  +++  ++I+ AR    W E E+        A
Sbjct: 467 ILGKDGPSEEEANAIIMAARAH--WFEGEEQGATAEGSA 503


>gi|16124300|ref|NP_418864.1| transcription elongation factor NusA [Caulobacter crescentus CB15]
 gi|221232982|ref|YP_002515418.1| transcription elongation factor NusA [Caulobacter crescentus
           NA1000]
 gi|13421138|gb|AAK22032.1| N utilization substance protein A [Caulobacter crescentus CB15]
 gi|220962154|gb|ACL93510.1| N utilization substance protein A [Caulobacter crescentus NA1000]
          Length = 548

 Score =  630 bits (1626), Expect = e-178,   Method: Composition-based stats.
 Identities = 300/514 (58%), Positives = 393/514 (76%), Gaps = 3/514 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           ++ANRLELLQIADAVA EK I+++VV+  + D++QKAAR+ YG   DIRV+I+P+TG+ +
Sbjct: 5   IAANRLELLQIADAVAREKGIEKEVVIEAIEDALQKAARARYGAEHDIRVKIDPKTGETT 64

Query: 62  LFRLLEVV---EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
             R++EVV    E+E    ++   +A+      +IG V  + LPP + GRV  Q A+QV+
Sbjct: 65  QKRVIEVVSDDAELEGEIGKMPFSIAKRTWRDAEIGKVYEEVLPPFEIGRVQTQMARQVV 124

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           + KVREAER+RQY E+KD+VGEI++G+VKRVEYGNVIVDLG  +G++RRD++I REN   
Sbjct: 125 MHKVREAERERQYDEYKDRVGEIVNGSVKRVEYGNVIVDLGRGEGIMRRDQSIPRENFNV 184

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDR+++YIYDVRRE +GPQ++LSR H  FM KLF  EVPE+Y+G+++++AV+RDPGSRAK
Sbjct: 185 GDRIRAYIYDVRRETKGPQIMLSRAHGGFMAKLFAQEVPEVYDGVIEIRAVARDPGSRAK 244

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S+D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATF++NAL PA V+K
Sbjct: 245 MAVISNDGSIDPVGACVGMRGSRVQAVVAELQGEKIDIIQWSEDEATFIVNALAPAEVSK 304

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VV+DE+  R+EV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE ++S  RQ++F ER
Sbjct: 305 VVMDEEDERVEVVVPDEQLSLAIGRRGQNVRLASQLTGWQIDIMTESQESERRQREFAER 364

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T  F +A++VDE+IA LLV EGFA VE++A V+  EIASIEGFDEETA E+Q RARE+LE
Sbjct: 365 TALFQEALDVDEVIAQLLVTEGFAAVEDVAYVEPHEIASIEGFDEETAEELQTRAREFLE 424

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                L  K + LGV +EL +I G+   + VALGE  +K++EDLAG   DD+ GW ENKG
Sbjct: 425 KEAAELDAKRKALGVEDELLTIEGVTLAMAVALGEGDVKSIEDLAGLVPDDMRGWFENKG 484

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
           G   +  G L S     +  E++I+ AR  MGW+
Sbjct: 485 GERVREPGILESFNLSPEDAEALIMRARIAMGWV 518


>gi|23016102|ref|ZP_00055862.1| COG0195: Transcription elongation factor [Magnetospirillum
           magnetotacticum MS-1]
          Length = 502

 Score =  629 bits (1623), Expect = e-178,   Method: Composition-based stats.
 Identities = 296/514 (57%), Positives = 375/514 (72%), Gaps = 16/514 (3%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + +  R ELLQ+ADAVA +K IDRD VL  M  +IQKA RS YG   DIR  I+ +TG+I
Sbjct: 4   IAALPRPELLQVADAVARDKGIDRDEVLEAMEQAIQKAGRSKYGHEHDIRAHIDRKTGEI 63

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            L R +EVVEEVEN   Q +LK    + P   +G  + DPLPP+DFGR+A Q+AKQVI+Q
Sbjct: 64  QLARYIEVVEEVENEATQQTLKQVLKKKPDAQVGDFLVDPLPPIDFGRIAAQTAKQVIVQ 123

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVR+AER RQ+ E+KD+VGEI +G VKRVE+GNVIVDLG ++ ++RRDE I RE  R GD
Sbjct: 124 KVRDAERQRQFNEYKDRVGEISNGLVKRVEFGNVIVDLGRAEALLRRDELIPRETFRTGD 183

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV++YIYDVR+E RGPQ+ LSRTHP FM KLF  EVPEIY+GI+++KAV+RDPGSRAK+A
Sbjct: 184 RVRAYIYDVRQEPRGPQIFLSRTHPIFMAKLFAQEVPEIYDGIIEIKAVARDPGSRAKIA 243

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+N L PA VTKVV
Sbjct: 244 VQSHDSSIDPVGACVGMRGSRVQAVVAELQGEKIDIIQWSPDVATFVVNGLAPAEVTKVV 303

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDE+ GRIEV+VP +QLSLAIGRRGQNVRLASQLT W IDI+TE E+S  R ++F  R+ 
Sbjct: 304 LDEEAGRIEVVVPDDQLSLAIGRRGQNVRLASQLTQWNIDILTEAEESERRTEEFRSRSN 363

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F+QA++VD++IAHLLV EGF+ VEE+A V   +IA IEGFDE  A E+Q RAR +L   
Sbjct: 364 MFIQALDVDDVIAHLLVTEGFSSVEEVAYVPSEDIADIEGFDENVAEELQTRARNFLAEQ 423

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           D    +  +++GV++E+ +I G+   + V LG+ GIKT++DL   + D+LL         
Sbjct: 424 DERYDQMRKDMGVADEMAAIEGLAPSMLVKLGDKGIKTLDDLGDLAGDELLD-------- 475

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                  L      +D+  ++I+ AR    W E+
Sbjct: 476 ------ILGKDAMSEDEANAVIMAARAH--WFEE 501


>gi|241761099|ref|ZP_04759188.1| NusA antitermination factor [Zymomonas mobilis subsp. mobilis ATCC
           10988]
 gi|241374718|gb|EER64179.1| NusA antitermination factor [Zymomonas mobilis subsp. mobilis ATCC
           10988]
          Length = 538

 Score =  627 bits (1619), Expect = e-177,   Method: Composition-based stats.
 Identities = 281/528 (53%), Positives = 386/528 (73%), Gaps = 7/528 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SAN+ ELL IADAVA EK IDR +V+  M ++IQ+AAR+ YG  +DIR +I+P+TGD+ 
Sbjct: 5   ISANKAELLAIADAVAREKLIDRAIVIEAMEEAIQRAARARYGAENDIRAKIDPKTGDMR 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+R++EVV++V+++  Q+S+  A+       +G  + DPLPP++FGR+A Q+AKQVI QK
Sbjct: 65  LWRVVEVVDQVDDFFKQVSVVDAQKLQNGASVGDFIVDPLPPIEFGRIAAQAAKQVIFQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+RQY EFKD++GEII+G VKR+E+G+V+VDLG ++G +RRD+ I RE  R GDR
Sbjct: 125 VRDAERERQYAEFKDRIGEIITGIVKRIEFGHVVVDLGRAEGALRRDQQIPRETFRVGDR 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+S I +VRRE RGPQ+LLSR+HP FM KLF  EVPEIY+GI+++KA SRDPGSRAK+AV
Sbjct: 185 VRSLIMNVRRENRGPQILLSRSHPNFMKKLFAQEVPEIYDGIIEIKACSRDPGSRAKIAV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D++IDPVGACVGM+GSRVQAVV E++ EKIDI+ WS D ATFV+N+L+PA V++VV+
Sbjct: 245 VSQDNTIDPVGACVGMKGSRVQAVVQEVQGEKIDIIPWSEDLATFVVNSLQPAQVSRVVI 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIE +VP +QLSLAIGRRGQNVRLASQLTG  IDI+TE + S  RQK+F   ++ 
Sbjct: 305 DEDDSRIEAVVPDDQLSLAIGRRGQNVRLASQLTGSAIDILTEADASERRQKEFVAHSEL 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F   ++VDE +A LLVAEGF  +EE+A V  +EI++IEG DEE A E+Q RARE LE  +
Sbjct: 365 FQHDLDVDETLAQLLVAEGFGSLEEVAYVDQAEISAIEGIDEELASELQNRAREALEQRE 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-----GWSEN 476
              +++ R+LGV + L  +P +   + + LG+ GIKT++DL   S D+L+          
Sbjct: 425 AEAREERRKLGVEDALADLPYMTEAMLLTLGKAGIKTLDDLGDLSTDELVHKKRQDQRRR 484

Query: 477 KGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQD 524
              +  + DG L+  G  ++Q   +I+ AR    W +  +      +D
Sbjct: 485 HSSDNNEEDGILAEYGLSQEQGNEIIMAARAH--WFDDAEDETHSSED 530


>gi|114799070|ref|YP_758846.1| transcription termination factor NusA [Hyphomonas neptunium ATCC
           15444]
 gi|114739244|gb|ABI77369.1| transcription termination factor NusA [Hyphomonas neptunium ATCC
           15444]
          Length = 592

 Score =  627 bits (1618), Expect = e-177,   Method: Composition-based stats.
 Identities = 289/528 (54%), Positives = 378/528 (71%), Gaps = 3/528 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLE+LQIA AVA EKSID+ +V+  M ++I+KAA++ YG   DIR +I+P TG+ +
Sbjct: 6   VSANRLEILQIAKAVAEEKSIDQRIVIEAMQEAIEKAAKAKYGQEHDIRAKIDPATGEQT 65

Query: 62  LFRLLEVVEEV--ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           L+R+  VV++   E+   Q+ L  A+  D ++  G  + + LPP DFGRVA Q+AKQVI 
Sbjct: 66  LWRIQTVVDDETFEDEAKQLRLSEAKRIDATLVAGSELKEELPPFDFGRVAAQTAKQVIT 125

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPG 179
           QKVR+AER+RQY E+KD+VGEI+SG VKRVEYG+VIVDLG ++G+IRR++ I REN +P 
Sbjct: 126 QKVRDAERERQYNEYKDRVGEIVSGIVKRVEYGHVIVDLGRAEGIIRRNDGIPRENFQPN 185

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DRV++Y+Y V RE +GPQ+ LSR  P FM KLF  EVPE+Y G++Q+KA +RDPGSRAK+
Sbjct: 186 DRVRAYLYKVSREVKGPQIFLSRAAPDFMRKLFAQEVPEVYEGVIQIKACARDPGSRAKI 245

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
            V S+DSSIDPVGACVGMRG+RVQAVV EL  EKIDI+ WS D+ATF++N L+PA V+KV
Sbjct: 246 GVISNDSSIDPVGACVGMRGARVQAVVGELSGEKIDIIPWSFDAATFIVNGLQPAEVSKV 305

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           VLDED  R+EV+V  +Q  LAIGRRGQNVRLASQLTGW ID+ITE  DS   QK+F ERT
Sbjct: 306 VLDEDERRVEVVVADDQFPLAIGRRGQNVRLASQLTGWQIDLITESADSERYQKEFQERT 365

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             FM+A++ DE +A LL +EGF  VEE+A V   +  +IEGFD++ A E+Q RAREYL+ 
Sbjct: 366 DLFMKALDADETLAQLLASEGFESVEEIAFVAPEDFITIEGFDKDVAEELQERAREYLDR 425

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN-KG 478
           +      K RELGV++E+  + G+     V LGE G+KT+ED+AG   DD+ G+ E    
Sbjct: 426 VATENDAKRRELGVADEVMELEGVTPSFAVKLGEQGVKTVEDVAGLVPDDITGYREPGPD 485

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDAS 526
           G     +G L      KD     ++ AR   GWIE E + +   Q  S
Sbjct: 486 GKPVWVEGILKKGEMRKDDANLFVMKARVAAGWIEPEAIEEMLAQQQS 533


>gi|83313172|ref|YP_423436.1| transcription elongation factor NusA [Magnetospirillum magneticum
           AMB-1]
 gi|82948013|dbj|BAE52877.1| Transcription elongation factor [Magnetospirillum magneticum AMB-1]
          Length = 503

 Score =  627 bits (1617), Expect = e-177,   Method: Composition-based stats.
 Identities = 295/514 (57%), Positives = 375/514 (72%), Gaps = 16/514 (3%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + +  R ELLQ+ADAVA +K IDRD VL  M  +IQKA RS YG   DIR  I+ +TG+I
Sbjct: 4   IAALPRPELLQVADAVARDKGIDRDEVLEAMEQAIQKAGRSKYGHEHDIRAHIDRKTGEI 63

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            L R +EVVEEVEN   Q +LK    + P   +G  + DPLPP+DFGR+A Q+AKQVI+Q
Sbjct: 64  QLARYIEVVEEVENEATQQTLKQVLKKKPDAVVGDFLVDPLPPIDFGRIAAQTAKQVIVQ 123

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVR+AER RQ+ E+KD+VGEI +G VKRVE+GNVIVDLG ++ ++RRDE I RE  R GD
Sbjct: 124 KVRDAERQRQFNEYKDRVGEISNGLVKRVEFGNVIVDLGRAEALLRRDELIPRETFRTGD 183

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV++YIYDVR+E RGPQ+ LSRTHP FM KLF  EVPEIY+GI+++KAV+RDPGSRAK+A
Sbjct: 184 RVRAYIYDVRQEPRGPQIFLSRTHPIFMAKLFAQEVPEIYDGIIEIKAVARDPGSRAKIA 243

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD ATFV+N L PA VTKVV
Sbjct: 244 VLSHDSSIDPVGACVGMRGSRVQAVVAELQGEKIDIIQWSPDVATFVVNGLAPAEVTKVV 303

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDE+ GRIEV+VP +QLSLAIGRRGQNVRLASQLT W IDI+TE E+S  R ++F  R+ 
Sbjct: 304 LDEEAGRIEVVVPDDQLSLAIGRRGQNVRLASQLTQWNIDILTEAEESERRTEEFRSRSN 363

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F+QA++VD++IAHLLV EGF+ VEE+A V   +IA IEGFDE  A E+Q RAR +L   
Sbjct: 364 MFIQALDVDDVIAHLLVTEGFSSVEEVAYVPAEDIADIEGFDENVAEELQTRARNFLAEQ 423

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           D    +  +++GV++E+ +I G+   + V LG+ GIKT++DL   + D+L+         
Sbjct: 424 DERYDQMRKDMGVADEMAAIEGLAPSMLVKLGDKGIKTLDDLGDLAGDELID-------- 475

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                  L      +D+  ++I+ AR    W E+
Sbjct: 476 ------ILGKDAMTEDEANAVIMAARAH--WFEE 501


>gi|260752935|ref|YP_003225828.1| transcription elongation factor NusA [Zymomonas mobilis subsp.
           mobilis NCIMB 11163]
 gi|283856277|ref|YP_162291.2| transcription elongation factor NusA [Zymomonas mobilis subsp.
           mobilis ZM4]
 gi|258552298|gb|ACV75244.1| NusA antitermination factor [Zymomonas mobilis subsp. mobilis NCIMB
           11163]
 gi|283775273|gb|AAV89180.2| NusA antitermination factor [Zymomonas mobilis subsp. mobilis ZM4]
          Length = 538

 Score =  627 bits (1617), Expect = e-177,   Method: Composition-based stats.
 Identities = 281/528 (53%), Positives = 386/528 (73%), Gaps = 7/528 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SAN+ ELL IADAVA EK IDR +V+  M ++IQ+AAR+ YG  +DIR +I+P+TGD+ 
Sbjct: 5   ISANKAELLAIADAVAREKLIDRAIVIEAMEEAIQRAARARYGAENDIRAKIDPKTGDMR 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+R++EVV++V+++  Q+S+  A+       +G  + DPLPP++FGR+A Q+AKQVI QK
Sbjct: 65  LWRVVEVVDQVDDFFKQVSVVDAQKLQNGAAVGDFIVDPLPPIEFGRIAAQAAKQVIFQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+RQY EFKD++GEII+G VKR+E+G+V+VDLG ++G +RRD+ I RE  R GDR
Sbjct: 125 VRDAERERQYAEFKDRIGEIITGIVKRIEFGHVVVDLGRAEGALRRDQQIPRETFRVGDR 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+S I +VRRE RGPQ+LLSR+HP FM KLF  EVPEIY+GI+++KA SRDPGSRAK+AV
Sbjct: 185 VRSLIMNVRRENRGPQILLSRSHPNFMKKLFAQEVPEIYDGIIEIKACSRDPGSRAKIAV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D++IDPVGACVGM+GSRVQAVV E++ EKIDI+ WS D ATFV+N+L+PA V++VV+
Sbjct: 245 VSQDNTIDPVGACVGMKGSRVQAVVQEVQGEKIDIIPWSEDLATFVVNSLQPAQVSRVVI 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIE +VP +QLSLAIGRRGQNVRLASQLTG  IDI+TE + S  RQK+F   ++ 
Sbjct: 305 DEDDSRIEAVVPDDQLSLAIGRRGQNVRLASQLTGSAIDILTEADASERRQKEFVAHSEL 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F   ++VDE +A LLVAEGF  +EE+A V  +EI++IEG DEE A E+Q RARE LE  +
Sbjct: 365 FQHDLDVDETLAQLLVAEGFGSLEEVAYVDQAEISAIEGIDEELASELQNRAREALEQRE 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL-----GWSEN 476
              +++ R+LGV + L  +P +   + + LG+ GIKT++DL   S D+L+          
Sbjct: 425 AEAREERRKLGVEDALADLPYMTEAMLLTLGKAGIKTLDDLGDLSTDELVHKKRQDQRRR 484

Query: 477 KGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQD 524
              +  + DG L+  G  ++Q   +I+ AR    W +  +      +D
Sbjct: 485 HSSDNNEEDGILAEYGLSQEQGNEIIMAARAH--WFDDAEDETHSSED 530


>gi|254295403|ref|YP_003061426.1| NusA antitermination factor [Hirschia baltica ATCC 49814]
 gi|254043934|gb|ACT60729.1| NusA antitermination factor [Hirschia baltica ATCC 49814]
          Length = 572

 Score =  626 bits (1616), Expect = e-177,   Method: Composition-based stats.
 Identities = 287/511 (56%), Positives = 381/511 (74%), Gaps = 1/511 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSAN+LE+L IA+ +A EK ID+ +VL  MA++IQKAARS YG   DI V I+P++G+ +
Sbjct: 6   VSANKLEILAIANILAAEKQIDKMIVLEAMAEAIQKAARSRYGQEHDIHVHIDPKSGETT 65

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           + R+  VVEEVE+    +SL+ AR+ DP+ +IG    + LPP +FGRVA Q+AKQVI  K
Sbjct: 66  ITRVQTVVEEVEDPAHHLSLEEAREIDPNAEIGTEFKEILPPFEFGRVAAQTAKQVITGK 125

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AERDRQY EFKDK G+II+G VKRVE+GN+IVDLG  +G+IRR++ + RENL PGDR
Sbjct: 126 VRDAERDRQYEEFKDKEGQIINGIVKRVEHGNIIVDLGRGEGIIRRNDGLPRENLNPGDR 185

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ +Y V RE +GPQ+ LSR HP FMV LF  EVPE+Y G++++KA SRDPGSRAK+ V
Sbjct: 186 VRAILYKVSREPKGPQLFLSRAHPTFMVALFSQEVPEVYEGVIEIKACSRDPGSRAKIGV 245

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+S+DPVGACVGMRG+RVQAVV+EL+ EKIDI+ WS D ATF++NAL+PA V+KVV+
Sbjct: 246 LSHDASVDPVGACVGMRGARVQAVVSELQGEKIDIIPWSEDEATFIVNALQPAEVSKVVV 305

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  R+EV+V + Q  LAIGRRGQNVRLASQLTGW ID+ TE +DS  RQK+F ER+  
Sbjct: 306 DEDEERVEVVVEESQFPLAIGRRGQNVRLASQLTGWQIDLTTEAQDSERRQKEFQERSGL 365

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+A++ DE++A LL +EGF ++EE+A V + + ASI+GFDE  A E+Q RAREYLE + 
Sbjct: 366 FMRALDADEMLAQLLASEGFENIEEIAYVDLEDFASIDGFDEAVASELQTRAREYLELLA 425

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG-GN 480
             + KK ++LGV++E+  + G+   + V  G++GIKT++DLAG   DDL+GW E    G 
Sbjct: 426 AAMDKKRKDLGVTDEVAFMDGVTPVMAVRFGDDGIKTIDDLAGLVPDDLIGWKEPDAKGK 485

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGW 511
                G L+     +D  E  I+ AR   GW
Sbjct: 486 SRWQPGLLAKGEMTRDAAELFILRARVLAGW 516


>gi|163796764|ref|ZP_02190722.1| Transcription elongation factor [alpha proteobacterium BAL199]
 gi|159178018|gb|EDP62565.1| Transcription elongation factor [alpha proteobacterium BAL199]
          Length = 517

 Score =  626 bits (1615), Expect = e-177,   Method: Composition-based stats.
 Identities = 283/516 (54%), Positives = 375/516 (72%), Gaps = 16/516 (3%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + +  +LEL+Q+AD VA +K IDR+ VL  M  +IQKA RS YG   DIR  I+  TG+I
Sbjct: 3   IATQPKLELIQVADVVARDKGIDREEVLIAMEQAIQKAGRSKYGPDHDIRATIDRRTGEI 62

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           SL R   VVEE+E+   QI+L  A+  DP+++IG V+S+PLPP+DFGR+A Q+AKQVI+Q
Sbjct: 63  SLKRCTTVVEEIEDEISQITLAQAQKIDPALEIGSVISEPLPPIDFGRIAAQTAKQVIVQ 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVRE ER RQY E+KD+ GEII+G+VKRVEYGNV V++  ++ ++RRD  + RE  R GD
Sbjct: 123 KVREFERQRQYEEYKDRSGEIINGSVKRVEYGNVTVEIQRAEAILRRDRLLPRETFRQGD 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+++YI DVR E RGPQ+ LSRTHP+FM +LF  EVPE+Y+GI+++KAV+RDPGSRAK+A
Sbjct: 183 RIRAYIEDVRSEPRGPQIFLSRTHPEFMRQLFRQEVPEVYDGIIEIKAVARDPGSRAKIA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATFV+NAL PA V+KVV
Sbjct: 243 VISYDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSDDPATFVVNALAPAEVSKVV 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           L ED GRIEV+VP EQLSLAIGRRGQNVRLAS LTGW IDI+TE+E+S  R+++F  R+ 
Sbjct: 303 LHEDAGRIEVVVPDEQLSLAIGRRGQNVRLASMLTGWDIDILTEQEESDRRKEEFRVRSD 362

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F+ A+++D++IA LLVAEGF  VEE+A V + ++A IEGFD + A E+Q RA  ++E  
Sbjct: 363 TFITALDIDDVIAGLLVAEGFTSVEEIADVDLEDLAEIEGFDVDIAGELQMRALNHVEAE 422

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            + L+    ELGV++E+ ++  +   + VALGE G+KT++D A  + D+LL         
Sbjct: 423 RVRLEALRTELGVTDEVAALEALSPAMLVALGEKGVKTLDDFADLASDELLE-------- 474

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                  L +    +D    +I+ AR    W + E 
Sbjct: 475 ------ILPADSMDEDTANDLIMAARAH--WFDDED 502


>gi|167644004|ref|YP_001681667.1| transcription elongation factor NusA [Caulobacter sp. K31]
 gi|167346434|gb|ABZ69169.1| NusA antitermination factor [Caulobacter sp. K31]
          Length = 568

 Score =  625 bits (1613), Expect = e-177,   Method: Composition-based stats.
 Identities = 294/514 (57%), Positives = 384/514 (74%), Gaps = 3/514 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANRLELLQIADAVA EK I+++VV+  + D++QKAAR+ YG   DIRV+I+ +TG+ +
Sbjct: 5   ISANRLELLQIADAVAREKGIEKEVVIEAIEDALQKAARARYGAEHDIRVKIDTKTGETT 64

Query: 62  LFRLLEVVEEVENYTCQIS---LKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
             R++EVV +      +I    L  A+      ++G +  + LPP + GRV  Q A+QV+
Sbjct: 65  QKRVIEVVPDDFELEGEIGKVQLSSAKRTWRDAEVGKIYEESLPPFEIGRVQTQMARQVV 124

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           + KVREAER+RQY E+KD+ GEI++G+VKRVEYGNVIVDLG  +G++RRD++I REN   
Sbjct: 125 MHKVREAERERQYDEYKDRAGEIVNGSVKRVEYGNVIVDLGRGEGIMRRDQSIPRENFNV 184

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDR+++YIYDVRRE +GPQ++LSR H  FM KLF  EVPE+Y+G+++++AV+RDPGSRAK
Sbjct: 185 GDRIRAYIYDVRRETKGPQIMLSRAHGGFMAKLFAQEVPEVYDGVIEIRAVARDPGSRAK 244

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATF++NAL PA V+K
Sbjct: 245 MAVISNDSSIDPVGACVGMRGSRVQAVVAELQGEKIDIIQWSEDEATFIVNALAPAEVSK 304

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VV+DE+  R+EV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE ++S  RQK F E 
Sbjct: 305 VVMDEEDERVEVVVPDEQLSLAIGRRGQNVRLASQLTGWQIDIMTESQESERRQKQFTET 364

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T  F +A++VDE+IA LLV EGFA VE++A V+  EIA+IEGFD+ETA E+Q RARE+L+
Sbjct: 365 TALFQEALDVDEVIAQLLVTEGFATVEDVAYVEPHEIAAIEGFDDETADELQTRAREFLD 424

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                L  K  ELGV + L  I G+   + VALGE  +K++EDLAG   DDL GW E K 
Sbjct: 425 KEAAALDAKRVELGVEDGLLEIEGVTLPVAVALGEGDVKSVEDLAGLIPDDLRGWFETKD 484

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
           G   +  G L S     +  E++I+ AR  MGW+
Sbjct: 485 GERTREAGILDSFNLSPEDAEALIMRARVVMGWV 518


>gi|58040013|ref|YP_191977.1| transcription elongation factor NusA [Gluconobacter oxydans 621H]
 gi|58002427|gb|AAW61321.1| N utilization substance protein A NusA [Gluconobacter oxydans 621H]
          Length = 517

 Score =  625 bits (1612), Expect = e-177,   Method: Composition-based stats.
 Identities = 281/523 (53%), Positives = 372/523 (71%), Gaps = 16/523 (3%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
            S  R ELL +ADAV+ EK+IDR+ VL  M  +IQKA R+ YG   DIR  I+ +TG++ 
Sbjct: 3   TSVTRPELLLVADAVSREKNIDREEVLEAMEQAIQKAGRAKYGHEKDIRATIDRKTGEVR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R  E VE VEN   QI L +AR   P I  G  + DPLPP+DFGR+A Q+AKQVI+Q+
Sbjct: 63  LSRWTEAVEHVENEDTQIPLHIARKFQPEIQAGEHLVDPLPPIDFGRIAAQTAKQVIVQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VRE ER RQY EFKD+VGEI++GTVKR EYGN++V++G+++ ++RRDE I RE+ R  DR
Sbjct: 123 VREYERKRQYNEFKDRVGEIVNGTVKRTEYGNLMVEIGHTEALLRRDELIPRESFRNSDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YIYDVR E RGPQ+ LSRTHP F+ KLF  EVPEIY+GI+++KAVSRDPGSRAK+AV
Sbjct: 183 VRAYIYDVRDEPRGPQIFLSRTHPAFLAKLFAQEVPEIYDGIIEIKAVSRDPGSRAKMAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D++IDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSP +ATFV+NAL PA V+KVV+
Sbjct: 243 ISRDAAIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPQAATFVVNALAPAEVSKVVM 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+ GR+EV+VP EQLSLAIGRRGQNVRLASQLT W IDI+TE E+S  RQ++F +R+  
Sbjct: 303 DEEAGRVEVVVPDEQLSLAIGRRGQNVRLASQLTRWDIDILTEAEESERRQEEFRKRSSQ 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F++A++VD++IA LLV EGF  +EELA     E+  IEGFDE  A E+  RA +YL   +
Sbjct: 363 FVEALDVDDVIAGLLVTEGFHTIEELAYTDPGELNDIEGFDESVAEELMHRANDYLASKE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L  + + LGV++++  +    +++ V LGE G+KT++DLA  + D+L+          
Sbjct: 423 QALDDQRKALGVTDDVAELGTFTNQMLVTLGEKGVKTLDDLADLAGDELVE--------- 473

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQD 524
                 L      +D    +I+ AR    W + E+    + ++
Sbjct: 474 -----ILGEEAIDEDAANEIIMAARAH--WFDGEEADSAKPEN 509


>gi|295687485|ref|YP_003591178.1| transcription termination factor NusA [Caulobacter segnis ATCC
           21756]
 gi|295429388|gb|ADG08560.1| transcription termination factor NusA [Caulobacter segnis ATCC
           21756]
          Length = 560

 Score =  624 bits (1611), Expect = e-176,   Method: Composition-based stats.
 Identities = 298/514 (57%), Positives = 394/514 (76%), Gaps = 3/514 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           ++ANRLELLQIADAVA EK I+++VV+  + D++QKAAR+ YG   DIRV+I+P+TG+ +
Sbjct: 5   IAANRLELLQIADAVAREKGIEKEVVIEAIEDALQKAARARYGAEHDIRVKIDPKTGETT 64

Query: 62  LFRLLEVV---EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
             R++EVV    E+E    ++ L +A+      +IG V  + LPP + GRV  Q A+QV+
Sbjct: 65  QKRVIEVVSDDAELEGEIGKMPLSIAKRAWRDAEIGKVYEEALPPFEIGRVQTQMARQVV 124

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           + KVREAER+RQY E+KD+VGEI++G+VKRVEYGNVIVDLG  +G++RRD++I REN   
Sbjct: 125 MHKVREAERERQYDEYKDRVGEIVNGSVKRVEYGNVIVDLGRGEGIMRRDQSIPRENFNV 184

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDR+++YIYDVRRE +GPQ++LSR H  FM KLF  EVPE+Y+G+++++AV+RDPGSRAK
Sbjct: 185 GDRIRAYIYDVRRETKGPQIMLSRAHGGFMAKLFAQEVPEVYDGVIEIRAVARDPGSRAK 244

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D ATF++NAL PA V+K
Sbjct: 245 MAVISNDSSIDPVGACVGMRGSRVQAVVAELQGEKIDIIQWSEDEATFIVNALAPAEVSK 304

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VV+DE+  R+EV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+TE ++S  RQ++F ER
Sbjct: 305 VVMDEEDERVEVVVPDEQLSLAIGRRGQNVRLASQLTGWQIDIMTESQESERRQREFTER 364

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T  F +A++VDE+IA LLV EGFA VE++A V+  EIA+IEGFDEETA E+Q RARE+LE
Sbjct: 365 TALFQEALDVDEVIAQLLVTEGFAAVEDVAYVEPHEIAAIEGFDEETAEELQARAREFLE 424

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                L  K + LGV +E+ +I G+   + VALGE  +KT+EDLAG   DD+ GW E+K 
Sbjct: 425 KEAAELDAKRKALGVEDEVLAIEGVTLAMAVALGEGDVKTVEDLAGLVPDDMRGWFESKN 484

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
           G   +  G L +     +  E++I+ AR  MGW+
Sbjct: 485 GERVREPGILETFNLSPEDAEALIMRARVAMGWV 518


>gi|87200505|ref|YP_497762.1| transcription elongation factor NusA [Novosphingobium
           aromaticivorans DSM 12444]
 gi|87136186|gb|ABD26928.1| NusA antitermination factor [Novosphingobium aromaticivorans DSM
           12444]
          Length = 544

 Score =  623 bits (1607), Expect = e-176,   Method: Composition-based stats.
 Identities = 290/540 (53%), Positives = 387/540 (71%), Gaps = 17/540 (3%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANR ELL IA+AVA EK ID+ +V+  M ++IQK+AR+ YG  +DIR +++P TGD+ 
Sbjct: 5   ISANRAELLAIANAVATEKMIDKSIVIEAMEEAIQKSARNRYGAENDIRAKLDPRTGDLR 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+R++EVVE VE+Y  Q+ LK A    P   IG  + DPLPP+D GR+  QSAKQVI QK
Sbjct: 65  LWRVVEVVEVVEDYFKQVDLKQAEKLQPGAKIGDFIVDPLPPVDLGRIDAQSAKQVIFQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AERDRQY EFKD+ GE+I+G +K VE+G+VIV+LG ++GVIRRD+ I RE  R G+R
Sbjct: 125 VRDAERDRQYDEFKDRAGEVITGVIKSVEFGHVIVNLGRAEGVIRRDQQIPREVPRVGER 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I  V R+ RGPQ+ LSR HP+FM KLF  EVPEIY+GI+++KA +RDPGSRAK+ V
Sbjct: 185 VRALILKVERQNRGPQIFLSRAHPEFMKKLFAQEVPEIYDGIIEIKAAARDPGSRAKIGV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGM+GSRVQAVV EL+ EKIDI+ WS D+ATFV+NAL+PA V++VV+
Sbjct: 245 ISRDSSIDPVGACVGMKGSRVQAVVQELQGEKIDIIPWSEDTATFVVNALQPATVSRVVI 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  RIEV+VP +QLSLAIGRRGQNVRLAS LTG  IDI+TE E S  RQK+F ER++ 
Sbjct: 305 DEEESRIEVVVPDDQLSLAIGRRGQNVRLASSLTGSAIDIMTEAEASEKRQKEFAERSKM 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + ++VDE ++ LLVAEGF ++EE+A ++++E+A+IEGFDEE A E+Q RA E +E  +
Sbjct: 365 FEEELDVDETLSQLLVAEGFTELEEVAYIEMAELAAIEGFDEELAEELQSRASEAIERRE 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGW-------- 473
             L+++ R LGV + L  +P +   + VALG+ GIKT++DLA  + D+L+          
Sbjct: 425 EALREQRRALGVDDALAELPHLTEAMLVALGKAGIKTLDDLADLATDELIAKKRAEQRRR 484

Query: 474 -------SENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDAS 526
                     +    E   G L   G  ++Q   +I+ AR    W E E VA+E     S
Sbjct: 485 NDKGPRERTERSERTEDKGGVLGEFGLSEEQGNEIIMAARAH--WFEDEPVAEEAADADS 542


>gi|148259243|ref|YP_001233370.1| transcription elongation factor NusA [Acidiphilium cryptum JF-5]
 gi|326402396|ref|YP_004282477.1| transcription elongation protein NusA [Acidiphilium multivorum
           AIU301]
 gi|146400924|gb|ABQ29451.1| NusA antitermination factor [Acidiphilium cryptum JF-5]
 gi|325049257|dbj|BAJ79595.1| transcription elongation protein NusA [Acidiphilium multivorum
           AIU301]
          Length = 506

 Score =  623 bits (1607), Expect = e-176,   Method: Composition-based stats.
 Identities = 294/513 (57%), Positives = 374/513 (72%), Gaps = 16/513 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
           R ELL +ADAVA EK IDR+ VL  M  +IQKA R+ YG   DIR  I+ +TGD+ L R 
Sbjct: 9   RPELLLVADAVAREKQIDREEVLEAMEQAIQKAGRAKYGHEKDIRATIDRKTGDVRLSRW 68

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            E VE VEN   QI + +AR   P I++GG + DPLPP+DFGR+A Q+AKQVI+Q+VRE 
Sbjct: 69  TEAVETVENEETQIPIHIARKFKPDIEVGGHLVDPLPPIDFGRIAAQTAKQVIVQRVREY 128

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER RQY E+KD+VGEII+G VKR EYGN++VDLG S+ ++RRDETI RENL  GDRV+++
Sbjct: 129 ERKRQYDEYKDRVGEIITGVVKRTEYGNLMVDLGRSEALLRRDETIPRENLHNGDRVRAF 188

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           IYDVR E RGPQ+ LSRTHP F+ KLF  EVPEIY GI+++KAV+RDPGSRAK+AV S D
Sbjct: 189 IYDVREEPRGPQIFLSRTHPGFLAKLFAQEVPEIYEGIIEIKAVARDPGSRAKMAVISRD 248

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           SSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSP+ ATFV+NAL PA V+KVVLDE+ 
Sbjct: 249 SSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPNPATFVVNALAPAEVSKVVLDEEA 308

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
           G++EV+VP  QLSLAIGRRGQNVRLASQLT W IDI+TE E+S  RQ++F  R+  F++A
Sbjct: 309 GKVEVVVPDTQLSLAIGRRGQNVRLASQLTRWDIDILTEAEESERRQEEFRRRSGLFVEA 368

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VD++IA LLV EGF  VE+LA   + E+A+IEGFDE  A E+Q RA   LE     L+
Sbjct: 369 LDVDDVIAGLLVTEGFEGVEDLAATPVEELAAIEGFDEGIAAELQRRAEVALERKATELE 428

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFD 485
            K R LGV+++L  + G+   + VALGE G+KT++DLA  + D+L+              
Sbjct: 429 DKRRALGVADDLAGLEGLSPAMLVALGEKGVKTLDDLADLASDELIE------------- 475

Query: 486 GFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
             + +    +D   ++I+ AR    W E E+ A
Sbjct: 476 -IVGADAMDEDAANAIIMAARAH--WFEGEEDA 505


>gi|149185835|ref|ZP_01864150.1| transcription elongation factor NusA [Erythrobacter sp. SD-21]
 gi|148830396|gb|EDL48832.1| transcription elongation factor NusA [Erythrobacter sp. SD-21]
          Length = 554

 Score =  621 bits (1602), Expect = e-175,   Method: Composition-based stats.
 Identities = 284/534 (53%), Positives = 386/534 (72%), Gaps = 19/534 (3%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SAN+ ELL IA+AVA EK ID+ +V+  M ++IQK+AR+ YG  +DIR +++P+TGD+ 
Sbjct: 5   ISANKAELLAIANAVASEKMIDKSIVIEAMEEAIQKSARNRYGAENDIRAKLDPQTGDLR 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+R++EVVEEVE+Y  Q+ LK A+  +    IG  + DPLPP+D GR+  QSAKQVI QK
Sbjct: 65  LWRVVEVVEEVEDYFKQVDLKAAQKLEADARIGDFIVDPLPPVDLGRIDAQSAKQVIFQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+RQ+ EF+D+ GE+I+G +K VE+G+VIV+LG ++GVIRRD+ I RE  R G+R
Sbjct: 125 VRDAERERQFNEFQDRAGEVITGVIKSVEFGHVIVNLGRAEGVIRRDQQIPREAARVGER 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I  V R  RGPQ+ LSR HP FM KLF  EVPEIY+GI+++KA +RDPGSRAK+ V
Sbjct: 185 VRALITKVERNNRGPQIFLSRAHPDFMKKLFAQEVPEIYDGIIEIKAAARDPGSRAKIGV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGM+GSRVQAVV EL+ EKIDI+ WS D ATF++NAL+PA V++VVL
Sbjct: 245 ISHDSSIDPVGACVGMKGSRVQAVVQELQGEKIDIIPWSEDGATFIVNALQPATVSRVVL 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+ GRIEV+VP +QLSLAIGRRGQNVRLASQLTG  IDI+TEEE S  RQK+F ER++ 
Sbjct: 305 DEEDGRIEVVVPDDQLSLAIGRRGQNVRLASQLTGNQIDIMTEEEASEKRQKEFAERSKM 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + ++VDE ++ LLVAEGFA++EE+A V++ E+ASIEGFDEE A E+Q RA+E L+  +
Sbjct: 365 FEEELDVDETLSQLLVAEGFAELEEVAYVELEELASIEGFDEELAEELQSRAQEALDRQE 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG--------- 472
              ++  +ELGV + L  +P +   + V LG+ G+KT++D+A  + D+L+          
Sbjct: 425 AAHREVRQELGVDDALAELPHMTEAMLVTLGKAGLKTLDDVADLATDELIAKKREAPRRR 484

Query: 473 --------WSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
                      ++    +   G L   G  ++Q   +I+ AR    W E E  A
Sbjct: 485 NNNPDGPPMRRDRPMREQDKGGVLGEYGLTEEQGNEIIMAARAH--WFEDEDEA 536


>gi|103486103|ref|YP_615664.1| transcription elongation factor NusA [Sphingopyxis alaskensis
           RB2256]
 gi|98976180|gb|ABF52331.1| NusA antitermination factor [Sphingopyxis alaskensis RB2256]
          Length = 548

 Score =  618 bits (1594), Expect = e-175,   Method: Composition-based stats.
 Identities = 284/532 (53%), Positives = 382/532 (71%), Gaps = 9/532 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SAN+ ELL IA++VA EK ID+ +V+  + ++IQ+AAR+ YG  +DIR +++P+TGD+ 
Sbjct: 5   ISANKAELLAIANSVASEKMIDKAIVIEAIEEAIQRAARARYGAENDIRAKLDPQTGDLR 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+R++EVVE VE+Y  Q+ L   +       IG  + DPLP +D GR+  QSAKQVI QK
Sbjct: 65  LWRVVEVVETVEDYFKQVDLAAGQKLQKDARIGDFIVDPLPAVDLGRIDAQSAKQVIFQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREA+R+RQY EFKD+ GEII+G VK VE+G+++V+LG ++GVIRRD+ I RE +R GDR
Sbjct: 125 VREADRERQYQEFKDRAGEIITGVVKSVEFGHIVVNLGRAEGVIRRDQQIPRELMRVGDR 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I  VR E RGPQ+ LSR HP FM KLF  EVPEIY+GI+++KA +RDPGSRAK+ V
Sbjct: 185 VRALILSVRSETRGPQIFLSRAHPDFMKKLFAQEVPEIYDGIIEIKAAARDPGSRAKIGV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGM+GSRVQAVV EL+ EKIDI+ WS D+ATFV+NAL+PA V +VV+
Sbjct: 245 ISYDSSIDPVGACVGMKGSRVQAVVQELQGEKIDIIPWSEDTATFVVNALQPATVQRVVI 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED GRIEV+VP +QLSLAIGRRGQNVRLASQLTG  IDI+TE + S  RQ++F ER+  
Sbjct: 305 DEDDGRIEVVVPDDQLSLAIGRRGQNVRLASQLTGKQIDIMTEADASEKRQREFVERSTM 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + ++VDE +A LLVAEGF+++EE+A V + E+ASIEGFDEE A E+Q RA E LE  +
Sbjct: 365 FQEELDVDETLAQLLVAEGFSELEEVAYVPLDELASIEGFDEELAQELQSRAAEGLERRE 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN----- 476
              + + RELGV + L  IP +   + V LG+ GI+T++DLA  + D+L+          
Sbjct: 425 EAARAERRELGVEDALADIPHLTEAMLVTLGKAGIRTLDDLADLATDELIAKKRTDNRRG 484

Query: 477 --KGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDAS 526
             +    E   G L   G  ++Q   +I+ AR    W + E+ ++     A+
Sbjct: 485 PARSERAEDKGGVLGEYGLSEEQGNEIIMAARAH--WFDDEESSEPATAPAA 534


>gi|332188268|ref|ZP_08389995.1| transcription termination factor NusA [Sphingomonas sp. S17]
 gi|332011664|gb|EGI53742.1| transcription termination factor NusA [Sphingomonas sp. S17]
          Length = 538

 Score =  617 bits (1592), Expect = e-174,   Method: Composition-based stats.
 Identities = 283/531 (53%), Positives = 382/531 (71%), Gaps = 9/531 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SAN+ EL+ IA+AVA EK ID+ +V+  M D+IQ+AAR+ YG  +DIR +++P +GD+ 
Sbjct: 5   ISANKAELIAIANAVASEKMIDKGIVIEAMEDAIQRAARARYGAENDIRAKLDPNSGDLR 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+R++EVVE+V++Y  QI LK A        IG  + DPLPP++FGR+A Q+AKQVI QK
Sbjct: 65  LWRVVEVVEQVDDYYKQIDLKGAEKLQKGAAIGDFIVDPLPPIEFGRIAAQAAKQVIFQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AERDRQY EFKD+ GEII+G VKRVE+G+++VDLG ++GVIRRD+ I RE +R  DR
Sbjct: 125 VRDAERDRQYDEFKDRQGEIITGVVKRVEFGHIVVDLGRAEGVIRRDQQIPREVVRVNDR 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++S I +VRRE RGPQ+ LSR HP FM KLF  EVPEIY+GI+++KA +RDPGSRAK+ V
Sbjct: 185 IRSLILNVRRENRGPQIFLSRAHPDFMKKLFAQEVPEIYDGIIEIKAAARDPGSRAKIGV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGM+GSRVQAVV E++ EKIDI+ WSPD+ATFV+NAL+PA V++VV+
Sbjct: 245 ISHDSSIDPVGACVGMKGSRVQAVVQEMQGEKIDIIPWSPDTATFVVNALQPANVSRVVI 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  RIEV+VP +QLSLAIGRRGQNVRLASQLT   IDI+TE + S  RQK+F   ++ 
Sbjct: 305 DEEEDRIEVVVPDDQLSLAIGRRGQNVRLASQLTAKAIDILTEADASEKRQKEFVANSEM 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F   ++VDE +A LLVAEGF  +EE+A V++ E+A+IEGFDE+ A E+Q RA+E L+  +
Sbjct: 365 FQNELDVDETLAQLLVAEGFGALEEVAYVELDELAAIEGFDEDLAQELQSRAQEALDRRE 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
              + + R LGV + L  +P +   + V LG+ GIKT++DLA  + D+L+    ++    
Sbjct: 425 QAARDERRALGVEDALAEMPYLTEAMLVTLGKAGIKTLDDLADLATDELVEKKRSEPRRR 484

Query: 482 EKF-------DGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
                      G L+  G   +Q   +I+ AR    W   E     E  +A
Sbjct: 485 GDDAPRAAPKGGILAEYGLSDEQGNEIIMAARAH--WFTDEDEPVAEAGEA 533


>gi|85373514|ref|YP_457576.1| transcription elongation factor NusA [Erythrobacter litoralis
           HTCC2594]
 gi|84786597|gb|ABC62779.1| N-utilization substance protein A [Erythrobacter litoralis
           HTCC2594]
          Length = 557

 Score =  616 bits (1589), Expect = e-174,   Method: Composition-based stats.
 Identities = 286/531 (53%), Positives = 386/531 (72%), Gaps = 18/531 (3%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SAN+ ELL IA+AVA EK ID+ +V+  M ++IQK+AR+ YG  +DIR +++P+TGD+ 
Sbjct: 5   ISANKAELLAIANAVASEKMIDKAIVIEAMEEAIQKSARNRYGAENDIRAKLDPQTGDLR 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+R++EVVEEVE+Y  Q+ LK A+  +    IG  + DPLPP+D GR+  QSAKQVI QK
Sbjct: 65  LWRVVEVVEEVEDYFKQVDLKSAQKLEEGAAIGDFIVDPLPPVDLGRIDAQSAKQVIFQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+RQ+ EFKD+ GE+I+G +K VE+G+VIV+LG ++GVIRRD+ I RE  R G+R
Sbjct: 125 VRDAERERQFEEFKDRAGEVITGVIKSVEFGHVIVNLGRAEGVIRRDQQIPREAARVGER 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I  V R  RGPQ+ LSR HP FM KLF  EVPEIY+GI+++KA +RDPGSRAK+ V
Sbjct: 185 VRAIITKVERNNRGPQIFLSRAHPDFMRKLFAQEVPEIYDGIIEIKAAARDPGSRAKIGV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGM+GSRVQAVV EL+ EKIDI+ WS D ATF++NAL+PA V++VVL
Sbjct: 245 ISHDSSIDPVGACVGMKGSRVQAVVQELQGEKIDIIPWSEDQATFIVNALQPATVSRVVL 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTG  IDI+TEEE S  + K+F ER++ 
Sbjct: 305 DEDESRIEVVVPDDQLSLAIGRRGQNVRLASQLTGNQIDIMTEEEASEKQSKEFAERSKM 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + ++VDE ++ LLVAEGFA++EE+A V + E+A+IEGFDEE A E+Q RA+E LE   
Sbjct: 365 FEEELDVDETLSQLLVAEGFAELEEVAYVAMEELAAIEGFDEELAEELQSRAQEALERQA 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG--------- 472
              +K+ RELGV ++L  +P +  ++ V LG++GIKT++DLA  + D+L+          
Sbjct: 425 EAYRKERRELGVEDDLAELPHLSEQMLVTLGKSGIKTLDDLADLATDELIQKKREAPRRR 484

Query: 473 -------WSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                     ++    +   G L   G  ++Q   +I+ AR    W E E+
Sbjct: 485 NTAEGPRMRSDRPQREQDKGGVLGEYGLTEEQGNEIIMAARAH--WFEDEE 533


>gi|258543556|ref|YP_003188989.1| transcription elongation factor NusA [Acetobacter pasteurianus IFO
           3283-01]
 gi|329113267|ref|ZP_08242050.1| Transcription elongation protein NusA [Acetobacter pomorum DM001]
 gi|256634634|dbj|BAI00610.1| transcription termination/elongation factor NusA [Acetobacter
           pasteurianus IFO 3283-01]
 gi|256637690|dbj|BAI03659.1| transcription termination/elongation factor NusA [Acetobacter
           pasteurianus IFO 3283-03]
 gi|256640744|dbj|BAI06706.1| transcription termination/elongation factor NusA [Acetobacter
           pasteurianus IFO 3283-07]
 gi|256643799|dbj|BAI09754.1| transcription termination/elongation factor NusA [Acetobacter
           pasteurianus IFO 3283-22]
 gi|256646854|dbj|BAI12802.1| transcription termination/elongation factor NusA [Acetobacter
           pasteurianus IFO 3283-26]
 gi|256649907|dbj|BAI15848.1| transcription termination/elongation factor NusA [Acetobacter
           pasteurianus IFO 3283-32]
 gi|256652897|dbj|BAI18831.1| transcription termination/elongation factor NusA [Acetobacter
           pasteurianus IFO 3283-01-42C]
 gi|256655951|dbj|BAI21878.1| transcription termination/elongation factor NusA [Acetobacter
           pasteurianus IFO 3283-12]
 gi|326697408|gb|EGE49066.1| Transcription elongation protein NusA [Acetobacter pomorum DM001]
          Length = 514

 Score =  615 bits (1588), Expect = e-174,   Method: Composition-based stats.
 Identities = 284/523 (54%), Positives = 371/523 (70%), Gaps = 16/523 (3%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
            S +R ELL +ADAV+ EK I+R+ VL  M  +IQKA R+ YG   DIR  I+ +TGD+ 
Sbjct: 3   TSVSRPELLLVADAVSREKGIEREEVLEAMEQAIQKAGRAKYGHEKDIRATIDRKTGDVR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R  EVV+EVEN   QI+L +AR   P I  G  + DPLPP+DFGR+A Q+AKQVI+Q+
Sbjct: 63  LSRWTEVVDEVENEDTQIALSIARKFRPEIQAGEYLIDPLPPIDFGRIAAQTAKQVIVQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VRE ER RQY EFKD+VGEI++GTVKR EYGN++V++G+++ ++RRDE I RE  R  DR
Sbjct: 123 VREYERKRQYNEFKDRVGEIVNGTVKRTEYGNLLVEIGSAEALLRRDELIPRETFRNSDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YIYDVR E RGPQ+ LSRTHP F+ KLF  EVPEIY+GI+++KAV+RDPGSRAK+AV
Sbjct: 183 VRAYIYDVRDEPRGPQIFLSRTHPAFLAKLFAQEVPEIYDGIIEIKAVARDPGSRAKMAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSP +ATFV+NAL PA V+KVV+
Sbjct: 243 ISRDASIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPQAATFVVNALAPAEVSKVVM 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+ GR+EV+VP EQLSLAIGRRGQNVRLASQLT W IDI+TE E+S  RQ++F  RT  
Sbjct: 303 DEEAGRVEVVVPDEQLSLAIGRRGQNVRLASQLTRWDIDILTEAEESERRQEEFRRRTAL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F++A++VD++IA LLV EGF  +EELA     E+  IEGFDE    E+  RA  YL   +
Sbjct: 363 FVEALDVDDVIAGLLVTEGFHSIEELAFADPDELIGIEGFDESVVQELVQRAESYLVQQE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L  + +ELGV +++  +    +++ V LGE G+KT++DLA  + D+L+          
Sbjct: 423 QKLDDRRKELGVVDDIADMGVFTNQMLVTLGEKGVKTLDDLADLAGDELVE--------- 473

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQD 524
                 L +    +D    +I+ AR    W E E     + ++
Sbjct: 474 -----ILGTDAIEEDAANEIIMAARAH--WFEDENQQPSDTKE 509


>gi|123440812|ref|YP_001004803.1| transcription elongation factor NusA [Yersinia enterocolitica
           subsp. enterocolitica 8081]
 gi|332160078|ref|YP_004296655.1| transcription elongation factor NusA [Yersinia enterocolitica
           subsp. palearctica 105.5R(r)]
 gi|122087773|emb|CAL10559.1| N utilization substance protein A [Yersinia enterocolitica subsp.
           enterocolitica 8081]
 gi|318607362|emb|CBY28860.1| transcription termination protein NusA [Yersinia enterocolitica
           subsp. palearctica Y11]
 gi|325664308|gb|ADZ40952.1| transcription elongation factor NusA [Yersinia enterocolitica
           subsp. palearctica 105.5R(r)]
 gi|330862029|emb|CBX72196.1| transcription elongation protein nusA [Yersinia enterocolitica
           W22703]
          Length = 495

 Score =  615 bits (1586), Expect = e-174,   Method: Composition-based stats.
 Identities = 201/510 (39%), Positives = 317/510 (62%), Gaps = 19/510 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIEVRVSIDRKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
              V+EV   T +I+L+ A+  DPS+ +G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVAVDEVTMPTREITLEAAQYEDPSLQLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+  +GEI++GTVK+V   ++ +DLGN ++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVEQFRQYLGEIVTGTVKKVNRDSIALDLGNNAEAVINREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +YDVR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYDVRPEARGAQLFVSRSRPEMLIELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V V    L+ AIGR GQNVRLA+QL+GW ++++T ++     Q + +     F +
Sbjct: 302 KHTMDVAVEASNLAQAIGRNGQNVRLAAQLSGWELNVMTADDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V + E+  I+G DE+T   ++ RA+  L  + +  
Sbjct: 362 YLDIDEDFATVLVEEGFSSLEELAYVPMKELLEIDGLDEDTVEALRDRAKAALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++ G++  +   L   G+ T+EDLA   +DDL              
Sbjct: 422 EESLGDQKPADDLLNLAGLERSMAFKLAARGVCTLEDLAEQGIDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                  G   +Q   +I+ AR  + W   
Sbjct: 472 -------GLSDEQAGELIMAAR-NICWFGD 493


>gi|238761767|ref|ZP_04622741.1| Transcription termination factor NusA [Yersinia kristensenii ATCC
           33638]
 gi|238699881|gb|EEP92624.1| Transcription termination factor NusA [Yersinia kristensenii ATCC
           33638]
          Length = 495

 Score =  615 bits (1586), Expect = e-174,   Method: Composition-based stats.
 Identities = 202/510 (39%), Positives = 316/510 (61%), Gaps = 19/510 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIEVRVSIDRKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
              V+EV   T +I+L  A+  DPSI +G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVAVDEVTMPTREITLDAAQYEDPSIQLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+  +GEI++GTVK+V   ++ +DLG N++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVEQFRQYLGEIVTGTVKKVNRDSIALDLGHNAEAVINREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +YDVR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYDVRPEARGAQLFVSRSRPEMLIELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V V    L+ AIGR GQNVRLA+QL+GW ++++T ++     Q + +     F +
Sbjct: 302 KHTMDVAVEASNLAQAIGRNGQNVRLAAQLSGWELNVMTADDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V + E+  I+G DE+T   ++ RA+  L  + +  
Sbjct: 362 YLDIDEDFATILVEEGFSSLEELAYVPMKELLEIDGLDEDTVEALRDRAKAALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++ G++  +   L   G+ T+EDLA   +DDL              
Sbjct: 422 EESLGDQKPADDLLNLAGLERSMAFKLAARGVCTLEDLAEQGIDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                  G   +Q   +I+ AR  + W   
Sbjct: 472 -------GLSDEQAGELIMAAR-NICWFGD 493


>gi|293393154|ref|ZP_06637469.1| N utilization substance A [Serratia odorifera DSM 4582]
 gi|291424300|gb|EFE97514.1| N utilization substance A [Serratia odorifera DSM 4582]
          Length = 495

 Score =  614 bits (1585), Expect = e-173,   Method: Composition-based stats.
 Identities = 204/510 (40%), Positives = 313/510 (61%), Gaps = 19/510 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIDVRVSIDRKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
              V+EV   T +I+L+ A+  DPSI++GG V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVAVDEVTQPTREITLEAAQYEDPSIELGGYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER      F+   GEI++G VK+V   ++ +DLG N++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDAFRQHEGEIVTGVVKKVNRDSIALDLGGNAEAVIGREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ +SR+ P+ + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYAVRPEARGAQLFVSRSSPEMLKELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F +
Sbjct: 302 RHTMDIAVEASNLAQAIGRNGQNVRLASQLSGWELNVMTADDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V I E+  I+G DE+    ++ RA+  L  + +  
Sbjct: 362 YLDIDEEFATVLVEEGFSTLEELAYVPIKELLEIDGLDEDMVEALRDRAKAALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++PG++  +   L   G+ T+EDLA   VDDL              
Sbjct: 422 EESLGDQKPADDLLNLPGLERSMAFKLAARGVCTLEDLAEQGVDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                  G    Q   +I+ AR  + W   
Sbjct: 472 -------GLSDQQAGELIMAAR-NICWFGD 493


>gi|296285012|ref|ZP_06863010.1| transcription elongation factor NusA [Citromicrobium bathyomarinum
           JL354]
          Length = 557

 Score =  614 bits (1584), Expect = e-173,   Method: Composition-based stats.
 Identities = 282/536 (52%), Positives = 381/536 (71%), Gaps = 20/536 (3%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANR ELL IA++VA EK ID+ +V+  M ++IQK+AR+ YG  +DIR +++P+TGD+ 
Sbjct: 5   ISANRAELLAIANSVASEKMIDKSIVIEAMEEAIQKSARNRYGAENDIRAKLDPQTGDLR 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+R++EVVEEVE+Y  Q+ LK A+       +G  + DPLPP+D GR+  QSAKQVI QK
Sbjct: 65  LWRVVEVVEEVEDYFKQVDLKQAQKLQDGAAVGDFIVDPLPPVDLGRIDAQSAKQVIFQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+RQY EFKD+ GEII+G +K VE+G+VIV+LG ++GVIRRD+ I RE  R G+R
Sbjct: 125 VRDAERERQYDEFKDRAGEIITGVIKSVEFGHVIVNLGRAEGVIRRDQQIPREAARVGER 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I  V R  RGPQ+ L+R HP FM KLF  EVPEIY+GI+++KA +RDPGSRAK+ V
Sbjct: 185 VRALISKVERNNRGPQIFLTRAHPDFMKKLFAQEVPEIYDGIIEIKAAARDPGSRAKIGV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGM+GSRVQAVV EL+ EKIDI+ WS + ATF++NAL+PA V++VVL
Sbjct: 245 ISHDSSIDPVGACVGMKGSRVQAVVQELQGEKIDIIPWSEEEATFIVNALQPATVSRVVL 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTG  IDI+TEEE S  + K+F  R++ 
Sbjct: 305 DEDESRIEVVVPDDQLSLAIGRRGQNVRLASQLTGNQIDIMTEEEASEKQSKEFAARSKM 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + ++VDE ++ LLVAEGFA++EE+A V++ E+A IEGFDEE A E+Q RA E LE  +
Sbjct: 365 FEEELDVDETLSQLLVAEGFAELEEVAYVQLDELAMIEGFDEELAEELQSRATEALERQE 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG--------- 472
              ++  RELGV + L  +P +   + V LG+ G+KT++D+A  + D+L+          
Sbjct: 425 AAHREARRELGVEDALADLPHLSEAMLVTLGKAGLKTLDDVADLATDELIAKKREAPRRR 484

Query: 473 ---------WSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVAD 519
                       ++    +   G L   G  ++Q   +I+ AR    W E E+ A 
Sbjct: 485 NNANADGPPMRRDRPQREQDKGGVLGEYGLTEEQGNEIIMAARAH--WFEDEEPAK 538


>gi|326388032|ref|ZP_08209636.1| transcription elongation factor NusA [Novosphingobium
           nitrogenifigens DSM 19370]
 gi|326207533|gb|EGD58346.1| transcription elongation factor NusA [Novosphingobium
           nitrogenifigens DSM 19370]
          Length = 551

 Score =  613 bits (1582), Expect = e-173,   Method: Composition-based stats.
 Identities = 281/526 (53%), Positives = 377/526 (71%), Gaps = 15/526 (2%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANR ELL IA+AVA EK ID+ +V+  M ++IQK+AR+ YG  +DIR +++P +GD+ 
Sbjct: 5   ISANRAELLAIANAVASEKMIDKSIVIEAMEEAIQKSARNRYGAENDIRAKLDPRSGDLR 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+R++EVVE VE+Y  Q+ LK A    P   IG  + DPLPP+D GR+  QSAKQVI QK
Sbjct: 65  LWRVVEVVEHVEDYFKQVDLKQAEKLQPGAKIGDFIVDPLPPVDLGRIDAQSAKQVIFQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+RQY EFKD+ GEII+G +K VE+G+VIV+LG ++GVIRRD+ I RE  R G+R
Sbjct: 125 VRDAERERQYDEFKDRAGEIITGVIKSVEFGHVIVNLGRAEGVIRRDQQIPREVPRVGER 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I  V R  RGPQ+ LSR HP FM +LF  EVPEIY+GI+++KA +RDPGSRAK+ V
Sbjct: 185 VRALILRVERTNRGPQIFLSRAHPDFMKRLFAQEVPEIYDGIIEIKAAARDPGSRAKIGV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGM+GSRVQAVV EL+ EKIDI+ WS D+ATFV+NAL+PA V++VV+
Sbjct: 245 ISRDSSIDPVGACVGMKGSRVQAVVQELQGEKIDIIPWSEDTATFVVNALQPATVSRVVI 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  RIEV+VP +QLSLAIGRRGQNVRLAS LTG  IDI+TE E S  RQK+F ER++ 
Sbjct: 305 DEEESRIEVVVPDDQLSLAIGRRGQNVRLASSLTGSAIDIMTEAEASEKRQKEFTERSKT 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + ++VDE ++ LLVAEGF+++EE+  + I+E+A+IEGFDEE A E+Q RA E LE  +
Sbjct: 365 FEEELDVDETLSQLLVAEGFSELEEVGYIDIAELATIEGFDEELATELQNRALEALERRE 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG--------- 472
              +++ R LGV + L  +P +   + V LG+ GIKT++DLA  + D+L+          
Sbjct: 425 EGQRQERRALGVEDALADLPHLTEAMLVTLGKAGIKTLDDLADLATDELIARKRGGEQRR 484

Query: 473 ----WSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                  ++    E   G L   G  ++Q   +I+ AR    W + 
Sbjct: 485 RGGNDRRDRSERSEDKGGVLGEYGLNEEQGNEIIMAARAH--WFDD 528


>gi|238750125|ref|ZP_04611628.1| Transcription termination factor NusA [Yersinia rohdei ATCC 43380]
 gi|238711669|gb|EEQ03884.1| Transcription termination factor NusA [Yersinia rohdei ATCC 43380]
          Length = 495

 Score =  613 bits (1582), Expect = e-173,   Method: Composition-based stats.
 Identities = 200/510 (39%), Positives = 317/510 (62%), Gaps = 19/510 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIEVRVSIDRKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
              V+EV   T +I+++ A+  DPS+ +G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVAVDEVTMPTREITIEAAQFEDPSLQLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+  +GEI++GTVK+V   ++ +DLGN ++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVEQFRQYLGEIVTGTVKKVNRDSIALDLGNNAEAVIGREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +YDVR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYDVRPEARGAQLFVSRSRPEMLIELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V V    L+ AIGR GQNVRLA+QL+GW ++++T ++     Q + +     F +
Sbjct: 302 KHTMDVAVEASNLAQAIGRNGQNVRLAAQLSGWELNVMTADDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V + E+  I+G DE+T   ++ RA+  L  + +  
Sbjct: 362 YLDIDEDFATILVEEGFSSLEELAYVPVKELLEIDGLDEDTVEALRDRAKAALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++ G++  +   L   G+ T+EDLA   +DDL              
Sbjct: 422 EESLGDQKPADDLLNLAGLERSMAFKLAARGVCTLEDLAEQGIDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                  G   +Q   +I+ AR  + W   
Sbjct: 472 -------GLSDEQAGELIMAAR-NICWFGD 493


>gi|238793021|ref|ZP_04636650.1| Transcription termination factor NusA [Yersinia intermedia ATCC
           29909]
 gi|238727621|gb|EEQ19146.1| Transcription termination factor NusA [Yersinia intermedia ATCC
           29909]
          Length = 495

 Score =  613 bits (1581), Expect = e-173,   Method: Composition-based stats.
 Identities = 199/510 (39%), Positives = 314/510 (61%), Gaps = 19/510 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIEVRVSIDRKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
              V EV   T +I+L  A+  DP++ +G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVAVNEVTMPTREITLDAAQYEDPTLQLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+  +GEI++G VK+V   ++ +DLGN ++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDQFRQYLGEIVTGVVKKVNRDSIALDLGNNAEAVIGREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +YDVR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYDVRPEARGAQLFVSRSRPEMLIELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V V    L+ AIGR GQNVRLA+QL+GW ++++T ++     Q + +     F +
Sbjct: 302 RHTMDVAVEASNLAQAIGRNGQNVRLAAQLSGWELNVMTADDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V + E+  I+G DE+T   ++ RA+  L  + +  
Sbjct: 362 YLDIDEDFATILVEEGFSSLEELAYVPMKELLEIDGLDEDTVEALRDRAKAALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++ G++  +   L   G+ T+EDLA   +DDL              
Sbjct: 422 EESLGDQKPADDLLNLAGLERSMAFKLAARGVCTLEDLAEQGIDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                  G   +Q   +I+ AR  + W   
Sbjct: 472 -------GLSDEQAGELIMAAR-NICWFGD 493


>gi|238787593|ref|ZP_04631391.1| Transcription termination factor NusA [Yersinia frederiksenii ATCC
           33641]
 gi|238724380|gb|EEQ16022.1| Transcription termination factor NusA [Yersinia frederiksenii ATCC
           33641]
          Length = 495

 Score =  612 bits (1580), Expect = e-173,   Method: Composition-based stats.
 Identities = 200/510 (39%), Positives = 315/510 (61%), Gaps = 19/510 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIEVRVSIDRKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
              V EV   T +I++  A+  DPS+ +G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVAVNEVTMPTREITIDAAQFEDPSLQLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+  +GEI++GTVK+V   ++ +DLGN ++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVEQFRQYLGEIVTGTVKKVNRDSIALDLGNNAEAVIGREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +YDVR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYDVRPEARGAQLFVSRSRPEMLIELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V V    L+ AIGR GQNVRLA+QL+GW ++++T ++     Q + +     F +
Sbjct: 302 KHTMDVAVEASNLAQAIGRNGQNVRLAAQLSGWELNVMTADDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V + E+  I+G DE+T   ++ RA+  L  + +  
Sbjct: 362 YLDIDEDFATVLVEEGFSSLEELAYVPMKELLEIDGLDEDTVEALRDRAKAALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++ G++  +   L   G+ T+EDLA   +DDL              
Sbjct: 422 EESLGDQKPADDLLNLAGLERSMAFKLAARGVCTLEDLAEQGIDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                  G   +Q   +I+ AR  + W   
Sbjct: 472 -------GLSDEQAGELIMAAR-NICWFGD 493


>gi|85710531|ref|ZP_01041595.1| transcription elongation factor NusA [Erythrobacter sp. NAP1]
 gi|85687709|gb|EAQ27714.1| transcription elongation factor NusA [Erythrobacter sp. NAP1]
          Length = 547

 Score =  612 bits (1580), Expect = e-173,   Method: Composition-based stats.
 Identities = 281/527 (53%), Positives = 379/527 (71%), Gaps = 16/527 (3%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SAN+ ELL IA++VA EK ID+ +V+  M ++IQK+AR+ YG  +DIR +++P TGD++
Sbjct: 5   ISANKAELLAIANSVASEKMIDKTIVIEAMEEAIQKSARNRYGAENDIRAKLDPNTGDLT 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+R++EVVEEVE+Y  Q+ LK A+       +G  + DPLPP+D GR+  QSAKQVI QK
Sbjct: 65  LWRVVEVVEEVEDYFKQVDLKQAQKLQDGASVGDFIVDPLPPVDLGRIDAQSAKQVIFQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+RQ+ EFKD+ GEII+G +K VE+G+VIV+LG ++GVIRRD+ I RE  R G+R
Sbjct: 125 VRDAERERQFEEFKDRAGEIITGVIKSVEFGHVIVNLGRAEGVIRRDQQIPREAARVGER 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I  V R  RGPQ+ LSR  P FM KLF  EVPEIY+GI+++KA +RDPGSRAK+ V
Sbjct: 185 VRALITKVERNNRGPQIFLSRAAPDFMRKLFAQEVPEIYDGIIEIKAAARDPGSRAKIGV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGM+GSRVQAVV EL+ EKIDI+ WS D+ATFV+NAL+PA V +VVL
Sbjct: 245 ISHDSSIDPVGACVGMKGSRVQAVVQELQGEKIDIIPWSEDTATFVVNALQPATVARVVL 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+ GRIEV+VP +QLSLAIGRRGQNVRLASQLTG  IDI+TEEE S  R K+F ER++ 
Sbjct: 305 DEEDGRIEVVVPDDQLSLAIGRRGQNVRLASQLTGHQIDIMTEEEASEKRSKEFAERSKM 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + ++VDE ++ LLVAEGFA +EE+A V+++E+A+IEGFDEE A E+Q RA E LE  +
Sbjct: 365 FEEELDVDETLSQLLVAEGFAMLEEVAYVEMAELAAIEGFDEELAEELQSRAIEALERQE 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN----- 476
              +   RELGV + +  +P ++  + V LG+ G+KT++D+A  + D+L+          
Sbjct: 425 EAHRTARRELGVEDAIAELPHLNEAMLVTLGKAGLKTLDDVADLATDELIAKKREAPRRR 484

Query: 477 ---------KGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                    +    +   G L   G  ++Q   +I+ AR    W E 
Sbjct: 485 NNTDGPPMRRPQREQDKGGVLGEYGLTEEQGNEIIMAARAH--WFED 529


>gi|238783516|ref|ZP_04627538.1| Transcription termination factor NusA [Yersinia bercovieri ATCC
           43970]
 gi|238797553|ref|ZP_04641050.1| Transcription termination factor NusA [Yersinia mollaretii ATCC
           43969]
 gi|238715571|gb|EEQ07561.1| Transcription termination factor NusA [Yersinia bercovieri ATCC
           43970]
 gi|238718550|gb|EEQ10369.1| Transcription termination factor NusA [Yersinia mollaretii ATCC
           43969]
          Length = 495

 Score =  612 bits (1579), Expect = e-173,   Method: Composition-based stats.
 Identities = 200/510 (39%), Positives = 315/510 (61%), Gaps = 19/510 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIEVRVSIDRKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
              V EV   T +I+L+ A+  DPS+ +G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVAVNEVTMPTREITLEAAQYEDPSLQLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+  +GEI++G VK+V   ++ +DLGN ++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVEQFRQYLGEIVTGIVKKVNRDSIALDLGNNAEAVIGREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +YDVR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYDVRPEARGAQLFVSRSRPEMLIELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V V    L+ AIGR GQNVRLA+QL+GW ++++T ++     Q + +     F +
Sbjct: 302 RHTMDVAVEASNLAQAIGRNGQNVRLAAQLSGWELNVMTADDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V + E+  I+G DE+T   ++ RA+  L  + +  
Sbjct: 362 YLDIDEDFATVLVEEGFSSLEELAYVPMKELLEIDGLDEDTVEALRDRAKAALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++ G++  +   L   G+ T+EDLA   +DDL              
Sbjct: 422 EESLGDQKPADDLLNLAGLERSMAFKLAARGVCTLEDLAEQGIDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                  G   +Q   +I+ AR  + W   
Sbjct: 472 -------GLSDEQAGELIMAAR-NICWFGD 493


>gi|51594831|ref|YP_069022.1| transcription elongation factor NusA [Yersinia pseudotuberculosis
           IP 32953]
 gi|108806045|ref|YP_649961.1| transcription elongation factor NusA [Yersinia pestis Antiqua]
 gi|108813401|ref|YP_649168.1| transcription elongation factor NusA [Yersinia pestis Nepal516]
 gi|145600793|ref|YP_001164869.1| transcription elongation factor NusA [Yersinia pestis Pestoides F]
 gi|153947426|ref|YP_001402551.1| transcription elongation factor NusA [Yersinia pseudotuberculosis
           IP 31758]
 gi|153997274|ref|ZP_02022374.1| N utilization substance protein A [Yersinia pestis CA88-4125]
 gi|162418514|ref|YP_001608285.1| transcription elongation factor NusA [Yersinia pestis Angola]
 gi|165925730|ref|ZP_02221562.1| transcription termination factor NusA [Yersinia pestis biovar
           Orientalis str. F1991016]
 gi|165936779|ref|ZP_02225346.1| transcription termination factor NusA [Yersinia pestis biovar
           Orientalis str. IP275]
 gi|166010132|ref|ZP_02231030.1| transcription termination factor NusA [Yersinia pestis biovar
           Antiqua str. E1979001]
 gi|166214620|ref|ZP_02240655.1| transcription termination factor NusA [Yersinia pestis biovar
           Antiqua str. B42003004]
 gi|167401309|ref|ZP_02306809.1| transcription termination factor NusA [Yersinia pestis biovar
           Antiqua str. UG05-0454]
 gi|167420758|ref|ZP_02312511.1| transcription termination factor NusA [Yersinia pestis biovar
           Orientalis str. MG05-1020]
 gi|167423617|ref|ZP_02315370.1| transcription termination factor NusA [Yersinia pestis biovar
           Mediaevalis str. K1973002]
 gi|170025946|ref|YP_001722451.1| transcription elongation factor NusA [Yersinia pseudotuberculosis
           YPIII]
 gi|186893840|ref|YP_001870952.1| transcription elongation factor NusA [Yersinia pseudotuberculosis
           PB1/+]
 gi|218930511|ref|YP_002348386.1| transcription elongation factor NusA [Yersinia pestis CO92]
 gi|229839149|ref|ZP_04459308.1| transcription termination/antitermination L factor [Yersinia pestis
           biovar Orientalis str. PEXU2]
 gi|229896638|ref|ZP_04511805.1| transcription termination/antitermination L factor [Yersinia pestis
           Pestoides A]
 gi|229899713|ref|ZP_04514854.1| transcription termination/antitermination L factor [Yersinia pestis
           biovar Orientalis str. India 195]
 gi|229903875|ref|ZP_04518988.1| transcription termination/antitermination L factor [Yersinia pestis
           Nepal516]
 gi|270489135|ref|ZP_06206209.1| transcription termination factor NusA [Yersinia pestis KIM D27]
 gi|294505370|ref|YP_003569432.1| transcription elongation factor NusA [Yersinia pestis Z176003]
 gi|51588113|emb|CAH19719.1| N utilization substance protein A [Yersinia pseudotuberculosis IP
           32953]
 gi|108777049|gb|ABG19568.1| N utilization substance protein A [Yersinia pestis Nepal516]
 gi|108777958|gb|ABG12016.1| N utilization substance protein A [Yersinia pestis Antiqua]
 gi|115349122|emb|CAL22085.1| N utilization substance protein A [Yersinia pestis CO92]
 gi|145212489|gb|ABP41896.1| N utilization substance protein A [Yersinia pestis Pestoides F]
 gi|149288911|gb|EDM38991.1| N utilization substance protein A [Yersinia pestis CA88-4125]
 gi|152958921|gb|ABS46382.1| transcription termination factor NusA [Yersinia pseudotuberculosis
           IP 31758]
 gi|162351329|gb|ABX85277.1| transcription termination factor NusA [Yersinia pestis Angola]
 gi|165915428|gb|EDR34038.1| transcription termination factor NusA [Yersinia pestis biovar
           Orientalis str. IP275]
 gi|165922342|gb|EDR39519.1| transcription termination factor NusA [Yersinia pestis biovar
           Orientalis str. F1991016]
 gi|165991039|gb|EDR43340.1| transcription termination factor NusA [Yersinia pestis biovar
           Antiqua str. E1979001]
 gi|166204195|gb|EDR48675.1| transcription termination factor NusA [Yersinia pestis biovar
           Antiqua str. B42003004]
 gi|166961564|gb|EDR57585.1| transcription termination factor NusA [Yersinia pestis biovar
           Orientalis str. MG05-1020]
 gi|167049334|gb|EDR60742.1| transcription termination factor NusA [Yersinia pestis biovar
           Antiqua str. UG05-0454]
 gi|167057787|gb|EDR67533.1| transcription termination factor NusA [Yersinia pestis biovar
           Mediaevalis str. K1973002]
 gi|169752480|gb|ACA69998.1| NusA antitermination factor [Yersinia pseudotuberculosis YPIII]
 gi|186696866|gb|ACC87495.1| NusA antitermination factor [Yersinia pseudotuberculosis PB1/+]
 gi|229679645|gb|EEO75748.1| transcription termination/antitermination L factor [Yersinia pestis
           Nepal516]
 gi|229687205|gb|EEO79280.1| transcription termination/antitermination L factor [Yersinia pestis
           biovar Orientalis str. India 195]
 gi|229695515|gb|EEO85562.1| transcription termination/antitermination L factor [Yersinia pestis
           biovar Orientalis str. PEXU2]
 gi|229700416|gb|EEO88448.1| transcription termination/antitermination L factor [Yersinia pestis
           Pestoides A]
 gi|262363436|gb|ACY60157.1| transcription elongation factor NusA [Yersinia pestis D106004]
 gi|262367189|gb|ACY63746.1| transcription elongation factor NusA [Yersinia pestis D182038]
 gi|270337639|gb|EFA48416.1| transcription termination factor NusA [Yersinia pestis KIM D27]
 gi|294355829|gb|ADE66170.1| transcription elongation factor NusA [Yersinia pestis Z176003]
 gi|320013700|gb|ADV97271.1| transcription termination/antitermination L factor [Yersinia pestis
           biovar Medievalis str. Harbin 35]
          Length = 495

 Score =  611 bits (1576), Expect = e-173,   Method: Composition-based stats.
 Identities = 199/510 (39%), Positives = 313/510 (61%), Gaps = 19/510 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIEVRVSIDRKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
              V+EV   T +I+L  A+  DPS+ +G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVAVDEVTMPTREITLDAAQFEDPSLQLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+  +G+I++G VK+V   ++ +DLG N++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVEQFRQYLGQIVTGIVKKVSRDSIALDLGHNAEAVIGREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +YDVR E RG Q+ +SR+  + +V+LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYDVRPEARGAQLFVSRSRSEMLVELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V V    L+ AIGR GQNVRLA+QL+GW ++++T ++     Q + +     F +
Sbjct: 302 KHTMDVAVEASNLAQAIGRNGQNVRLAAQLSGWELNVMTADDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V + E+  I+G DE+T   ++ RA+  L  + +  
Sbjct: 362 YLDIDEDFATVLVEEGFSSLEELAYVPMKELLEIDGLDEDTVEALRDRAKAALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++   +   +++L ++ G++  +   L   G+ T+EDLA   +DDL              
Sbjct: 422 EESFGDQKPADDLLNLAGLERSMAFKLAARGVCTLEDLAEQGIDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                  G   +Q   +I+ AR  + W   
Sbjct: 472 -------GLSDEQAGELIMAAR-NICWFGD 493


>gi|269137762|ref|YP_003294462.1| transcription elongation factor [Edwardsiella tarda EIB202]
 gi|267983422|gb|ACY83251.1| transcription elongation factor [Edwardsiella tarda EIB202]
 gi|304557819|gb|ADM40483.1| Transcription termination protein NusA [Edwardsiella tarda FL6-60]
          Length = 495

 Score =  611 bits (1576), Expect = e-173,   Method: Composition-based stats.
 Identities = 203/512 (39%), Positives = 316/512 (61%), Gaps = 19/512 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALETALATATKKKYEQEIDVRVAIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +V+EV   T +I+L  AR  DP++D+G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLIVDEVTQPTREITLDAARFEDPALDLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER      F++  GEI++G VK+V   ++ +DLGN ++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDAFREHEGEIVTGVVKKVNRDSISLDLGNNAEAVIGREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++K  +RDPGSRAK+AV ++
Sbjct: 182 VLYAVRPEARGAQLFVTRSRPEMLIELFRIEVPEIGEEVIEIKGAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T E+     Q + +     F +
Sbjct: 302 KHTMDIAVEASNLAQAIGRNGQNVRLASQLSGWELNVMTAEDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A LLV EGF+ +EELA V   E+ SI+G DEET   ++ RA+  L  + +  
Sbjct: 362 HLDIDEEFATLLVEEGFSTLEELAYVPERELLSIDGLDEETVEALRTRAKNALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++PG++  +   L   G+ T+EDLA   VDDL              
Sbjct: 422 EESLGDNKPADDLLNLPGMERSVAFKLAARGVCTLEDLAEQGVDDLTDIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                  G   +Q   +I+ AR  + W    +
Sbjct: 472 -------GLNNEQAGELIMAAR-NICWFGDSE 495


>gi|238755155|ref|ZP_04616501.1| Transcription termination factor NusA [Yersinia ruckeri ATCC 29473]
 gi|238706602|gb|EEP98973.1| Transcription termination factor NusA [Yersinia ruckeri ATCC 29473]
          Length = 495

 Score =  611 bits (1576), Expect = e-172,   Method: Composition-based stats.
 Identities = 201/510 (39%), Positives = 314/510 (61%), Gaps = 19/510 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIEVRVSIDRKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
              V+EV   T +I+L+ A+  DPS  +G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVAVDEVTMPTREITLEAAQFEDPSTQLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+  +GEI++GTVK+V   ++ +DLGN ++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVEQFRQYLGEIVTGTVKKVNRDSIALDLGNNAEAVIGREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +YDVR E RG Q+ +SR+  + +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYDVRPEARGAQLFVSRSRSEMLIELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F +
Sbjct: 302 RHTMDVAVEASNLAQAIGRNGQNVRLASQLSGWELNVMTADDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V I E+  I+G DE+    ++ RA+  L  + +  
Sbjct: 362 HLDIDEDFATVLVEEGFSSLEELAYVPIKELLEIDGLDEDMVEALRDRAKAALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++ G++  +   L   G+ T+EDLA   +DDL    E         
Sbjct: 422 EESLGDQKPADDLLNLEGLERSMAFKLAARGVCTLEDLAEQGIDDLADIEE--------- 472

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                      +Q   +I+ AR  + W   
Sbjct: 473 --------LSDEQAGELIMAAR-NICWFGD 493


>gi|22124601|ref|NP_668024.1| transcription elongation factor NusA [Yersinia pestis KIM 10]
 gi|45440440|ref|NP_991979.1| transcription elongation factor NusA [Yersinia pestis biovar
           Microtus str. 91001]
 gi|21957405|gb|AAM84275.1|AE013671_2 transcription pausing L factor [Yersinia pestis KIM 10]
 gi|45435297|gb|AAS60856.1| N utilization substance protein A [Yersinia pestis biovar Microtus
           str. 91001]
          Length = 501

 Score =  610 bits (1574), Expect = e-172,   Method: Composition-based stats.
 Identities = 199/510 (39%), Positives = 313/510 (61%), Gaps = 19/510 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RV I+ +TGD   FR 
Sbjct: 8   NKEILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIEVRVSIDRKTGDFDTFRR 67

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
              V+EV   T +I+L  A+  DPS+ +G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 68  WVAVDEVTMPTREITLDAAQFEDPSLQLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 127

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+  +G+I++G VK+V   ++ +DLG N++ VI R++ + REN RPGDR++ 
Sbjct: 128 ERAMVVEQFRQYLGQIVTGIVKKVSRDSIALDLGHNAEAVIGREDMLPRENFRPGDRIRG 187

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +YDVR E RG Q+ +SR+  + +V+LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 188 VLYDVRPEARGAQLFVSRSRSEMLVELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTN 247

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 248 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 307

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V V    L+ AIGR GQNVRLA+QL+GW ++++T ++     Q + +     F +
Sbjct: 308 KHTMDVAVEASNLAQAIGRNGQNVRLAAQLSGWELNVMTADDLQAKHQAEAHAAIDTFTK 367

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V + E+  I+G DE+T   ++ RA+  L  + +  
Sbjct: 368 YLDIDEDFATVLVEEGFSSLEELAYVPMKELLEIDGLDEDTVEALRDRAKAALTTLALAQ 427

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++   +   +++L ++ G++  +   L   G+ T+EDLA   +DDL              
Sbjct: 428 EESFGDQKPADDLLNLAGLERSMAFKLAARGVCTLEDLAEQGIDDLADIE---------- 477

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                  G   +Q   +I+ AR  + W   
Sbjct: 478 -------GLSDEQAGELIMAAR-NICWFGD 499


>gi|238918423|ref|YP_002931937.1| transcription elongation factor NusA [Edwardsiella ictaluri 93-146]
 gi|238867991|gb|ACR67702.1| transcription elongation factor NusA, putative [Edwardsiella
           ictaluri 93-146]
          Length = 495

 Score =  610 bits (1573), Expect = e-172,   Method: Composition-based stats.
 Identities = 203/512 (39%), Positives = 316/512 (61%), Gaps = 19/512 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALETALATATKKKYEQEIDVRVAIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEV   T +I+L  AR  DP++D+G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLIVEEVTQPTREITLDAARFEDPALDLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER      F++  GEI++G VK+V   ++ +DLGN ++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDAFREHEGEIVTGVVKKVNRDSISLDLGNNAEAVIGREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++K  +RDPGSRAK+AV ++
Sbjct: 182 VLYAVRPEARGAQLFVTRSRPEMLIELFRIEVPEIGEEVIEIKGAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T E+     Q + +     F +
Sbjct: 302 KHTMDIAVEASNLAQAIGRNGQNVRLASQLSGWELNVMTAEDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A LLV EGF+ +EELA V   E+ SI+G DE+T   ++ RA+  L  + +  
Sbjct: 362 HLDIDEEFATLLVEEGFSSLEELAYVPERELLSIDGLDEDTVEVLRTRAKNALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++PG++  +   L   G+ T+EDLA   VDDL              
Sbjct: 422 EESLGDNKPADDLLNLPGMERSVAFKLAARGVCTLEDLAEQGVDDLTDIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                  G   +Q   +I+ AR  + W    +
Sbjct: 472 -------GLNNEQAGELIMAAR-NICWFGDSE 495


>gi|238760242|ref|ZP_04621387.1| Transcription termination factor NusA [Yersinia aldovae ATCC 35236]
 gi|238701565|gb|EEP94137.1| Transcription termination factor NusA [Yersinia aldovae ATCC 35236]
          Length = 495

 Score =  610 bits (1573), Expect = e-172,   Method: Composition-based stats.
 Identities = 199/510 (39%), Positives = 313/510 (61%), Gaps = 19/510 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIEVRVSIDRKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
              V+EV   T +I+L  A+  DP++ +G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVAVDEVTMPTREITLDAAQYEDPTLQLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+  +GEI++G VK+V   ++ +DLGN ++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVEQFRQYLGEIVTGIVKKVNRDSIALDLGNNAEAVIGREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +YDVR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYDVRPEARGAQLFVSRSRPEMLIELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V V    L+ AIGR GQNVRLA+QL+GW ++++T ++     Q + +     F +
Sbjct: 302 RHTMDVAVEASNLAQAIGRNGQNVRLAAQLSGWELNVMTADDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + +DE  A  LV EGF+ +EELA V + E+  I+G DE+T   ++ RA+  L  + +  
Sbjct: 362 YLAIDEDFATTLVEEGFSSLEELAYVPMKELLEIDGLDEDTVEALRDRAKAALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++ G++  +   L   G+ T+EDLA   +DDL    E         
Sbjct: 422 EESLGDQKPADDLLNLAGLERSMAFKLAARGVCTLEDLAEQGIDDLADIEE--------- 472

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                      +Q   +I+ AR  + W   
Sbjct: 473 --------LSDEQAGELIMAAR-NICWFGD 493


>gi|152972093|ref|YP_001337239.1| transcription elongation factor NusA [Klebsiella pneumoniae subsp.
           pneumoniae MGH 78578]
 gi|238896676|ref|YP_002921421.1| transcription elongation factor NusA [Klebsiella pneumoniae
           NTUH-K2044]
 gi|262042727|ref|ZP_06015881.1| N utilization substance A [Klebsiella pneumoniae subsp.
           rhinoscleromatis ATCC 13884]
 gi|329997774|ref|ZP_08302913.1| transcription termination factor NusA [Klebsiella sp. MS 92-3]
 gi|150956942|gb|ABR78972.1| transcription elongation factor NusA [Klebsiella pneumoniae subsp.
           pneumoniae MGH 78578]
 gi|238549003|dbj|BAH65354.1| transcription elongation factor [Klebsiella pneumoniae subsp.
           pneumoniae NTUH-K2044]
 gi|259039952|gb|EEW41069.1| N utilization substance A [Klebsiella pneumoniae subsp.
           rhinoscleromatis ATCC 13884]
 gi|328538908|gb|EGF64969.1| transcription termination factor NusA [Klebsiella sp. MS 92-3]
          Length = 495

 Score =  609 bits (1572), Expect = e-172,   Method: Composition-based stats.
 Identities = 205/511 (40%), Positives = 317/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVEEVTQPTREITLEAARFEDESMNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDQFREHEGEIITGVVKKVNRDNITLDLGNNAEAVILREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVLEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F +
Sbjct: 302 KHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  + +  
Sbjct: 362 YLDIDEDFATVLVEEGFSSLEELAYVPMKELLEIDGLDEATVEALRERAKNALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++ G+D  +   L   G+ T+EDLA   VDDL              
Sbjct: 422 EESLGDNKPADDLLNLEGLDRALAFKLAARGVCTLEDLAEQGVDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   ++   +I+ AR  + W   E
Sbjct: 472 -------GMTDEKAGELIMAAR-NICWFGDE 494


>gi|206577127|ref|YP_002236420.1| transcription termination factor NusA [Klebsiella pneumoniae 342]
 gi|288933403|ref|YP_003437462.1| NusA antitermination factor [Klebsiella variicola At-22]
 gi|290511546|ref|ZP_06550915.1| N utilization substance protein A [Klebsiella sp. 1_1_55]
 gi|206566185|gb|ACI07961.1| transcription termination factor NusA [Klebsiella pneumoniae 342]
 gi|288888132|gb|ADC56450.1| NusA antitermination factor [Klebsiella variicola At-22]
 gi|289776539|gb|EFD84538.1| N utilization substance protein A [Klebsiella sp. 1_1_55]
          Length = 495

 Score =  609 bits (1572), Expect = e-172,   Method: Composition-based stats.
 Identities = 205/511 (40%), Positives = 317/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVEEVTQPTREITLEAARYEDESMNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDQFREHEGEIITGVVKKVNRDNITLDLGNNAEAVILREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVLEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F +
Sbjct: 302 KHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  + +  
Sbjct: 362 YLDIDEDFATVLVEEGFSSLEELAYVPMKELLEIDGLDEATVEALRERAKNALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++ G+D  +   L   G+ T+EDLA   VDDL              
Sbjct: 422 EESLGDNKPADDLLNLEGLDRALAFKLAARGVCTLEDLAEQGVDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   ++   +I+ AR  + W   E
Sbjct: 472 -------GMTDEKAGELIMAAR-NICWFGDE 494


>gi|294634514|ref|ZP_06713049.1| L factor [Edwardsiella tarda ATCC 23685]
 gi|291092028|gb|EFE24589.1| L factor [Edwardsiella tarda ATCC 23685]
          Length = 495

 Score =  609 bits (1571), Expect = e-172,   Method: Composition-based stats.
 Identities = 202/512 (39%), Positives = 315/512 (61%), Gaps = 19/512 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALETALATATKKKYEQEIDVRVAIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEV   T +I+L+ AR  DP+ D+G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLIVEEVTQPTREITLEAARFEDPAFDLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER      F++  GEI++G VK+V   ++ +DLGN ++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDAFREHEGEIVTGVVKKVNRDSISLDLGNNAEAVIGREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++K  +RDPGSRAK+AV ++
Sbjct: 182 VLYAVRPEARGAQLFVTRSRPEMLIELFRIEVPEIGEEVIEIKGAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T E+     Q + +     F +
Sbjct: 302 KHTMDIAVEASNLAQAIGRNGQNVRLASQLSGWELNVMTAEDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A LLV EGF+ +EELA V   E+ +I+G DEE+   ++ RA+  L  + +  
Sbjct: 362 HLDIDEEFATLLVEEGFSTLEELAYVPERELLAIDGLDEESVEALRTRAKNALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++PG++  +   L   G+ T+EDLA   VDDL              
Sbjct: 422 EESLGDNKPADDLLNLPGMERSVAFKLAARGVCTLEDLAEQGVDDLTDIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                  G   D    +I+ AR  + W    +
Sbjct: 472 -------GLNHDSAGELIMAAR-NICWFGDSE 495


>gi|170765858|ref|ZP_02900669.1| transcription termination/antitermination factor NusA [Escherichia
           albertii TW07627]
 gi|170125004|gb|EDS93935.1| transcription termination/antitermination factor NusA [Escherichia
           albertii TW07627]
          Length = 495

 Score =  608 bits (1570), Expect = e-172,   Method: Composition-based stats.
 Identities = 205/511 (40%), Positives = 317/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVDEVTQPTKEITLEAARFEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F +
Sbjct: 302 KHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTR 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L  I    
Sbjct: 362 YLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALATIAQAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL              
Sbjct: 422 EESLGDNKPADDLLNLEGMDRDLAFKLAARGVCTLEDLAEQGIDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   ++  ++I+ AR  + W   E
Sbjct: 472 -------GLTDEKAGALIMAAR-NICWFGDE 494


>gi|156935695|ref|YP_001439611.1| transcription elongation factor NusA [Cronobacter sakazakii ATCC
           BAA-894]
 gi|156533949|gb|ABU78775.1| hypothetical protein ESA_03562 [Cronobacter sakazakii ATCC BAA-894]
          Length = 495

 Score =  608 bits (1569), Expect = e-172,   Method: Composition-based stats.
 Identities = 204/511 (39%), Positives = 316/511 (61%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKAVPREKIFEALESALATATKKKYEQEIDVRVSIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEV   T +I+L+ AR  DPS+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVIVEEVTQPTREITLEAARYEDPSLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER     +F++  GEII+G VK+V   N+ +DLG N++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDQFREHEGEIITGVVKKVNRENITLDLGSNAEAVILREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R  P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYAVRPEARGAQLFVTRAKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T E+     Q + +     F +
Sbjct: 302 KHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVEDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  + +  
Sbjct: 362 YLDIDEEFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++ G+D  +   L   G+ T++DLA   VDDL              
Sbjct: 422 EESLGDNKPADDLLNLEGMDRTLAYKLAARGVCTLDDLADQGVDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   ++   +I+ AR  + W   E
Sbjct: 472 -------GLTDEKAGELIMAAR-NIRWFSDE 494


>gi|317493625|ref|ZP_07952046.1| transcription termination factor NusA [Enterobacteriaceae bacterium
           9_2_54FAA]
 gi|316918568|gb|EFV39906.1| transcription termination factor NusA [Enterobacteriaceae bacterium
           9_2_54FAA]
          Length = 495

 Score =  608 bits (1568), Expect = e-172,   Method: Composition-based stats.
 Identities = 203/512 (39%), Positives = 315/512 (61%), Gaps = 19/512 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIDVRVCIDRKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +V+EV   T +I+L  A+  DP++ +G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVIVDEVTQPTREITLDAAQFEDPALQLGEYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER      F+   GEI++G VK+V   N+ +DLG N++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDAFRQHQGEIVTGVVKKVSRDNISLDLGSNAEAVIGREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +YDVR E RG Q+ +SR+ P+ +V+LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYDVRPEARGAQLFVSRSRPEMLVELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLA+QL+GW ++++T ++     Q + +     F +
Sbjct: 302 KHTMDIAVEASNLAQAIGRNGQNVRLAAQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A LLV EGF+ +EELA V   E+ +I+G DE+T   ++ RA+  L  + +  
Sbjct: 362 YLDIDEDFATLLVEEGFSTLEELAYVPEQELLAIDGLDEDTVDALRERAKNALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +E+L ++ G+D  I   +   G+ T+EDLA   +DDL              
Sbjct: 422 EESLGDQKPAEDLLALEGLDRGIAFKMAARGVCTLEDLAEQGIDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                  G   ++   +I+ AR  + W    +
Sbjct: 472 -------GLNSEKAGELIMAAR-NICWFGDSE 495


>gi|218550454|ref|YP_002384245.1| transcription elongation factor NusA [Escherichia fergusonii ATCC
           35469]
 gi|218357995|emb|CAQ90641.1| transcription termination/antitermination L factor [Escherichia
           fergusonii ATCC 35469]
 gi|323966351|gb|EGB61785.1| transcription termination protein NusA [Escherichia coli M863]
 gi|324115225|gb|EGC09189.1| transcription termination protein NusA [Escherichia fergusonii
           B253]
 gi|325498752|gb|EGC96611.1| transcription elongation factor NusA [Escherichia fergusonii
           ECD227]
 gi|327255185|gb|EGE66785.1| transcription elongation protein nusA [Escherichia coli STEC_7v]
          Length = 495

 Score =  607 bits (1567), Expect = e-171,   Method: Composition-based stats.
 Identities = 206/511 (40%), Positives = 317/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVDEVTQPTKEITLEAARFEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F +
Sbjct: 302 KHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L  I    
Sbjct: 362 YLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALATIAQAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++ GID  +   L   G+ T+EDLA   +DDL              
Sbjct: 422 EESLGDNKPADDLLNLEGIDRDLAFKLAARGVCTLEDLAEQGIDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   ++  ++I+ AR  + W   E
Sbjct: 472 -------GLTDEKAGALIMAAR-NICWFGDE 494


>gi|114329058|ref|YP_746215.1| transcription elongation factor NusA [Granulibacter bethesdensis
           CGDNIH1]
 gi|114317232|gb|ABI63292.1| n utilization substance protein A [Granulibacter bethesdensis
           CGDNIH1]
          Length = 512

 Score =  607 bits (1567), Expect = e-171,   Method: Composition-based stats.
 Identities = 291/515 (56%), Positives = 370/515 (71%), Gaps = 16/515 (3%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
            + +R ELL +ADAVA EKSIDR+ VL  M  +IQKA R+ YG   DIR  I+ +TGD+ 
Sbjct: 8   TAISRPELLLVADAVAREKSIDREEVLEAMEQAIQKAGRAKYGHEKDIRATIDRKTGDVR 67

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R  E VE VEN   QI + +AR   P I++GG + DPLPP+DFGR+A Q+AKQVI+Q+
Sbjct: 68  LSRWTEAVEVVENEETQIPIHIARKFKPDIELGGHLVDPLPPIDFGRIAAQTAKQVIVQR 127

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VRE ER RQY EFKD+VGEII+G VKR EYGN++VDLG S+ ++RRDE I+RE+ R GDR
Sbjct: 128 VREYERRRQYDEFKDRVGEIINGVVKRTEYGNLMVDLGKSEALLRRDELIARESFRNGDR 187

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YIYDVR E RGPQ+ LSRTHP F+ KLF  EVPEIY+GI+++KAVSRDPGSRAK+AV
Sbjct: 188 VRAYIYDVREEPRGPQIFLSRTHPNFLAKLFAQEVPEIYDGIIEIKAVSRDPGSRAKMAV 247

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSP +ATFV+NAL PA VTKVV+
Sbjct: 248 ISRDQSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPQAATFVVNALAPAEVTKVVM 307

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+ GR+EV+VP +QLSLAIGRRGQNVRLASQLT W IDI+TE E+S  RQ++F +RT  
Sbjct: 308 DEEAGRVEVVVPDDQLSLAIGRRGQNVRLASQLTRWDIDILTEAEESERRQEEFRKRTSL 367

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F+ A++VD++IA LLV EGF  VEELA   + E++ IEGFDE  A E+  RA   L    
Sbjct: 368 FVDALDVDDVIAGLLVTEGFTTVEELAFSPVEELSEIEGFDENVAEELIRRAEVDLTRRA 427

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             +  K + LGV++E+  I  +   + VALGE G+KT++DLA  + D+L+          
Sbjct: 428 NEMDDKRKALGVTDEIADIETLTPAMLVALGEKGVKTLDDLADLAGDELVE--------- 478

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                 + S    ++    +I+ AR    W   E+
Sbjct: 479 -----IVGSDAMDEETANEIIMAARAH--WFTDEE 506


>gi|170680571|ref|YP_001745443.1| transcription elongation factor NusA [Escherichia coli SMS-3-5]
 gi|191168053|ref|ZP_03029853.1| transcription termination/antitermination factor NusA [Escherichia
           coli B7A]
 gi|193067419|ref|ZP_03048387.1| transcription termination/antitermination factor NusA [Escherichia
           coli E110019]
 gi|209920646|ref|YP_002294730.1| transcription elongation factor NusA [Escherichia coli SE11]
 gi|218701940|ref|YP_002409569.1| transcription elongation factor NusA [Escherichia coli IAI39]
 gi|218706791|ref|YP_002414310.1| transcription elongation factor NusA [Escherichia coli UMN026]
 gi|260857298|ref|YP_003231189.1| transcription termination/antitermination L factor NusA
           [Escherichia coli O26:H11 str. 11368]
 gi|260869921|ref|YP_003236323.1| transcription termination/antitermination L factor NusA
           [Escherichia coli O111:H- str. 11128]
 gi|293406780|ref|ZP_06650706.1| nusA [Escherichia coli FVEC1412]
 gi|293412544|ref|ZP_06655267.1| nusA [Escherichia coli B354]
 gi|298382521|ref|ZP_06992118.1| N utilization substance protein A [Escherichia coli FVEC1302]
 gi|300897933|ref|ZP_07116312.1| transcription termination factor NusA [Escherichia coli MS 198-1]
 gi|300938079|ref|ZP_07152857.1| transcription termination factor NusA [Escherichia coli MS 21-1]
 gi|301022024|ref|ZP_07185967.1| transcription termination factor NusA [Escherichia coli MS 69-1]
 gi|309793747|ref|ZP_07688173.1| transcription termination factor NusA [Escherichia coli MS 145-7]
 gi|331664783|ref|ZP_08365688.1| L factor [Escherichia coli TA143]
 gi|170518289|gb|ACB16467.1| transcription termination/antitermination factor NusA [Escherichia
           coli SMS-3-5]
 gi|190901922|gb|EDV61671.1| transcription termination/antitermination factor NusA [Escherichia
           coli B7A]
 gi|192959376|gb|EDV89811.1| transcription termination/antitermination factor NusA [Escherichia
           coli E110019]
 gi|209913905|dbj|BAG78979.1| N utilization substance protein A [Escherichia coli SE11]
 gi|218371926|emb|CAR19782.1| transcription termination/antitermination L factor [Escherichia
           coli IAI39]
 gi|218433888|emb|CAR14805.1| transcription termination/antitermination L factor [Escherichia
           coli UMN026]
 gi|257755947|dbj|BAI27449.1| transcription termination/antitermination L factor NusA
           [Escherichia coli O26:H11 str. 11368]
 gi|257766277|dbj|BAI37772.1| transcription termination/antitermination L factor NusA
           [Escherichia coli O111:H- str. 11128]
 gi|284923193|emb|CBG36287.1| transcription elongation protein [Escherichia coli 042]
 gi|291426786|gb|EFE99818.1| nusA [Escherichia coli FVEC1412]
 gi|291469315|gb|EFF11806.1| nusA [Escherichia coli B354]
 gi|298277661|gb|EFI19177.1| N utilization substance protein A [Escherichia coli FVEC1302]
 gi|300358363|gb|EFJ74233.1| transcription termination factor NusA [Escherichia coli MS 198-1]
 gi|300397739|gb|EFJ81277.1| transcription termination factor NusA [Escherichia coli MS 69-1]
 gi|300456939|gb|EFK20432.1| transcription termination factor NusA [Escherichia coli MS 21-1]
 gi|308122704|gb|EFO59966.1| transcription termination factor NusA [Escherichia coli MS 145-7]
 gi|323154383|gb|EFZ40584.1| transcription elongation protein nusA [Escherichia coli EPECa14]
 gi|323178882|gb|EFZ64458.1| transcription elongation protein nusA [Escherichia coli 1180]
 gi|323183124|gb|EFZ68522.1| transcription elongation protein nusA [Escherichia coli 1357]
 gi|324008768|gb|EGB77987.1| transcription termination factor NusA [Escherichia coli MS 57-2]
 gi|324018307|gb|EGB87526.1| transcription termination factor NusA [Escherichia coli MS 117-3]
 gi|331058031|gb|EGI30013.1| L factor [Escherichia coli TA143]
          Length = 495

 Score =  607 bits (1567), Expect = e-171,   Method: Composition-based stats.
 Identities = 206/511 (40%), Positives = 317/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVDEVTQPTKEITLEAARYEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F +
Sbjct: 302 KHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L  I    
Sbjct: 362 YLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALATIAQAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++ GID  +   L   G+ T+EDLA   +DDL              
Sbjct: 422 EESLGDNKPADDLLNLEGIDRDLAFKLAARGVCTLEDLAEQGIDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   ++  ++I+ AR  + W   E
Sbjct: 472 -------GLTDEKAGALIMAAR-NICWFGDE 494


>gi|15803711|ref|NP_289745.1| transcription elongation factor NusA [Escherichia coli O157:H7
           EDL933]
 gi|15833304|ref|NP_312077.1| transcription elongation factor NusA [Escherichia coli O157:H7 str.
           Sakai]
 gi|16131061|ref|NP_417638.1| transcription termination/antitermination L factor [Escherichia
           coli str. K-12 substr. MG1655]
 gi|24114460|ref|NP_708970.1| transcription elongation factor NusA [Shigella flexneri 2a str.
           301]
 gi|26249753|ref|NP_755793.1| transcription elongation factor NusA [Escherichia coli CFT073]
 gi|30064509|ref|NP_838680.1| transcription elongation factor NusA [Shigella flexneri 2a str.
           2457T]
 gi|74313706|ref|YP_312125.1| transcription elongation factor NusA [Shigella sonnei Ss046]
 gi|89109934|ref|AP_003714.1| transcription termination/antitermination L factor [Escherichia
           coli str. K-12 substr. W3110]
 gi|91212591|ref|YP_542577.1| transcription elongation factor NusA [Escherichia coli UTI89]
 gi|117625465|ref|YP_858788.1| transcription elongation factor NusA [Escherichia coli APEC O1]
 gi|157155683|ref|YP_001464646.1| transcription elongation factor NusA [Escherichia coli E24377A]
 gi|157162654|ref|YP_001459972.1| transcription elongation factor NusA [Escherichia coli HS]
 gi|168762136|ref|ZP_02787143.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4501]
 gi|168786054|ref|ZP_02811061.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC869]
 gi|168797770|ref|ZP_02822777.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC508]
 gi|170018579|ref|YP_001723533.1| transcription elongation factor NusA [Escherichia coli ATCC 8739]
 gi|170082706|ref|YP_001732026.1| transcription termination/antitermination L factor [Escherichia
           coli str. K-12 substr. DH10B]
 gi|188492867|ref|ZP_03000137.1| transcription termination/antitermination factor NusA [Escherichia
           coli 53638]
 gi|191172236|ref|ZP_03033779.1| transcription termination/antitermination factor NusA [Escherichia
           coli F11]
 gi|193062170|ref|ZP_03043266.1| transcription termination/antitermination factor NusA [Escherichia
           coli E22]
 gi|194433789|ref|ZP_03066064.1| transcription termination/antitermination factor NusA [Shigella
           dysenteriae 1012]
 gi|215488487|ref|YP_002330918.1| transcription elongation factor NusA [Escherichia coli O127:H6 str.
           E2348/69]
 gi|217326723|ref|ZP_03442806.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. TW14588]
 gi|218555741|ref|YP_002388654.1| transcription elongation factor NusA [Escherichia coli IAI1]
 gi|218560241|ref|YP_002393154.1| transcription elongation factor NusA [Escherichia coli S88]
 gi|218691461|ref|YP_002399673.1| transcription elongation factor NusA [Escherichia coli ED1a]
 gi|218696876|ref|YP_002404543.1| transcription elongation factor NusA [Escherichia coli 55989]
 gi|227887892|ref|ZP_04005697.1| N utilization substance A [Escherichia coli 83972]
 gi|237706078|ref|ZP_04536559.1| transcription termination/antitermination factor NusA [Escherichia
           sp. 3_2_53FAA]
 gi|238902273|ref|YP_002928069.1| transcription termination/antitermination L factor [Escherichia
           coli BW2952]
 gi|253771995|ref|YP_003034826.1| transcription elongation factor NusA [Escherichia coli
           'BL21-Gold(DE3)pLysS AG']
 gi|254038335|ref|ZP_04872393.1| transcription termination/antitermination factor NusA [Escherichia
           sp. 1_1_43]
 gi|254163113|ref|YP_003046221.1| transcription elongation factor NusA [Escherichia coli B str.
           REL606]
 gi|256018911|ref|ZP_05432776.1| transcription elongation factor NusA [Shigella sp. D9]
 gi|256024255|ref|ZP_05438120.1| transcription elongation factor NusA [Escherichia sp. 4_1_40B]
 gi|260845984|ref|YP_003223762.1| transcription termination/antitermination L factor NusA
           [Escherichia coli O103:H2 str. 12009]
 gi|261228181|ref|ZP_05942462.1| transcription elongation factor NusA [Escherichia coli O157:H7 str.
           FRIK2000]
 gi|261255037|ref|ZP_05947570.1| transcription termination/antitermination L factor NusA
           [Escherichia coli O157:H7 str. FRIK966]
 gi|291284545|ref|YP_003501363.1| Transcription elongation protein nusA [Escherichia coli O55:H7 str.
           CB9615]
 gi|293416602|ref|ZP_06659241.1| transcription elongation protein nusA [Escherichia coli B185]
 gi|293449505|ref|ZP_06663926.1| transcription elongation protein nusA [Escherichia coli B088]
 gi|300817579|ref|ZP_07097795.1| transcription termination factor NusA [Escherichia coli MS 107-1]
 gi|300823868|ref|ZP_07103992.1| transcription termination factor NusA [Escherichia coli MS 119-7]
 gi|300904355|ref|ZP_07122208.1| transcription termination factor NusA [Escherichia coli MS 84-1]
 gi|300918924|ref|ZP_07135483.1| transcription termination factor NusA [Escherichia coli MS 115-1]
 gi|300926092|ref|ZP_07141910.1| transcription termination factor NusA [Escherichia coli MS 182-1]
 gi|300929859|ref|ZP_07145305.1| transcription termination factor NusA [Escherichia coli MS 187-1]
 gi|300948819|ref|ZP_07162887.1| transcription termination factor NusA [Escherichia coli MS 116-1]
 gi|300955755|ref|ZP_07168100.1| transcription termination factor NusA [Escherichia coli MS 175-1]
 gi|300977836|ref|ZP_07174076.1| transcription termination factor NusA [Escherichia coli MS 200-1]
 gi|300990769|ref|ZP_07179341.1| transcription termination factor NusA [Escherichia coli MS 45-1]
 gi|301025986|ref|ZP_07189468.1| transcription termination factor NusA [Escherichia coli MS 196-1]
 gi|301047988|ref|ZP_07195030.1| transcription termination factor NusA [Escherichia coli MS 185-1]
 gi|301301775|ref|ZP_07207909.1| transcription termination factor NusA [Escherichia coli MS 124-1]
 gi|301326408|ref|ZP_07219762.1| transcription termination factor NusA [Escherichia coli MS 78-1]
 gi|301644880|ref|ZP_07244852.1| transcription termination factor NusA [Escherichia coli MS 146-1]
 gi|306816487|ref|ZP_07450619.1| transcription elongation factor NusA [Escherichia coli NC101]
 gi|307139856|ref|ZP_07499212.1| transcription elongation factor NusA [Escherichia coli H736]
 gi|307313124|ref|ZP_07592750.1| transcription termination factor NusA [Escherichia coli W]
 gi|312968492|ref|ZP_07782701.1| transcription elongation protein nusA [Escherichia coli 2362-75]
 gi|331643869|ref|ZP_08345000.1| L factor [Escherichia coli H736]
 gi|331648970|ref|ZP_08350058.1| L factor [Escherichia coli M605]
 gi|331654775|ref|ZP_08355775.1| L factor [Escherichia coli M718]
 gi|331659458|ref|ZP_08360400.1| L factor [Escherichia coli TA206]
 gi|331669998|ref|ZP_08370843.1| L factor [Escherichia coli TA271]
 gi|331674707|ref|ZP_08375466.1| L factor [Escherichia coli TA280]
 gi|331679250|ref|ZP_08379922.1| L factor [Escherichia coli H591]
 gi|331684818|ref|ZP_08385410.1| L factor [Escherichia coli H299]
 gi|332280000|ref|ZP_08392413.1| transcription pausing [Shigella sp. D9]
 gi|84028773|sp|P0AFF8|NUSA_ECO57 RecName: Full=Transcription elongation protein nusA; AltName:
           Full=L factor; AltName: Full=N utilization substance
           protein A
 gi|84028774|sp|P0AFF7|NUSA_ECOL6 RecName: Full=Transcription elongation protein nusA; AltName:
           Full=L factor; AltName: Full=N utilization substance
           protein A
 gi|84028775|sp|P0AFF6|NUSA_ECOLI RecName: Full=Transcription elongation protein nusA; AltName:
           Full=L factor; AltName: Full=N utilization substance
           protein A
 gi|84028776|sp|P0AFF9|NUSA_SHIFL RecName: Full=Transcription elongation protein nusA; AltName:
           Full=L factor; AltName: Full=N utilization substance
           protein A
 gi|12517780|gb|AAG58305.1|AE005545_7 transcription pausing; L factor [Escherichia coli O157:H7 str.
           EDL933]
 gi|26110181|gb|AAN82367.1|AE016767_127 N utilization substance protein A [Escherichia coli CFT073]
 gi|606109|gb|AAA57972.1| L factor [Escherichia coli str. K-12 substr. MG1655]
 gi|1789560|gb|AAC76203.1| transcription termination/antitermination L factor [Escherichia
           coli str. K-12 substr. MG1655]
 gi|13363523|dbj|BAB37473.1| transcription termination-antitermination factor NusA [Escherichia
           coli O157:H7 str. Sakai]
 gi|24053641|gb|AAN44677.1| transcription pausing; L factor [Shigella flexneri 2a str. 301]
 gi|30042768|gb|AAP18491.1| transcription pausing; L factor [Shigella flexneri 2a str. 2457T]
 gi|73857183|gb|AAZ89890.1| transcription pausing; L factor [Shigella sonnei Ss046]
 gi|85675965|dbj|BAE77215.1| transcription termination/antitermination L factor [Escherichia
           coli str. K12 substr. W3110]
 gi|91074165|gb|ABE09046.1| transcription pausing; L factor [Escherichia coli UTI89]
 gi|115514589|gb|ABJ02664.1| transcription elongation factor NusA [Escherichia coli APEC O1]
 gi|157068334|gb|ABV07589.1| transcription termination/antitermination factor NusA [Escherichia
           coli HS]
 gi|157077713|gb|ABV17421.1| transcription termination/antitermination factor NusA [Escherichia
           coli E24377A]
 gi|169753507|gb|ACA76206.1| NusA antitermination factor [Escherichia coli ATCC 8739]
 gi|169890541|gb|ACB04248.1| transcription termination/antitermination L factor [Escherichia
           coli str. K-12 substr. DH10B]
 gi|188488066|gb|EDU63169.1| transcription termination/antitermination factor NusA [Escherichia
           coli 53638]
 gi|189367615|gb|EDU86031.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4501]
 gi|189374081|gb|EDU92497.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC869]
 gi|189379809|gb|EDU98225.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC508]
 gi|190907546|gb|EDV67142.1| transcription termination/antitermination factor NusA [Escherichia
           coli F11]
 gi|192932390|gb|EDV84988.1| transcription termination/antitermination factor NusA [Escherichia
           coli E22]
 gi|194418052|gb|EDX34146.1| transcription termination/antitermination factor NusA [Shigella
           dysenteriae 1012]
 gi|209758328|gb|ACI77476.1| transcription termination-antitermination factor NusA [Escherichia
           coli]
 gi|209758330|gb|ACI77477.1| transcription termination-antitermination factor NusA [Escherichia
           coli]
 gi|209758332|gb|ACI77478.1| transcription termination-antitermination factor NusA [Escherichia
           coli]
 gi|209758334|gb|ACI77479.1| transcription termination-antitermination factor NusA [Escherichia
           coli]
 gi|215266559|emb|CAS10998.1| transcription termination/antitermination L factor [Escherichia
           coli O127:H6 str. E2348/69]
 gi|217319090|gb|EEC27515.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. TW14588]
 gi|218353608|emb|CAU99800.1| transcription termination/antitermination L factor [Escherichia
           coli 55989]
 gi|218362509|emb|CAR00133.1| transcription termination/antitermination L factor [Escherichia
           coli IAI1]
 gi|218367010|emb|CAR04781.1| transcription termination/antitermination L factor [Escherichia
           coli S88]
 gi|218429025|emb|CAR09972.2| transcription termination/antitermination L factor [Escherichia
           coli ED1a]
 gi|222034888|emb|CAP77631.1| Transcription elongation protein nusA [Escherichia coli LF82]
 gi|226839959|gb|EEH71980.1| transcription termination/antitermination factor NusA [Escherichia
           sp. 1_1_43]
 gi|226899118|gb|EEH85377.1| transcription termination/antitermination factor NusA [Escherichia
           sp. 3_2_53FAA]
 gi|227835288|gb|EEJ45754.1| N utilization substance A [Escherichia coli 83972]
 gi|238863681|gb|ACR65679.1| transcription termination/antitermination L factor [Escherichia
           coli BW2952]
 gi|242378714|emb|CAQ33504.1| transcription termination/antitermination L factor [Escherichia
           coli BL21(DE3)]
 gi|253323039|gb|ACT27641.1| NusA antitermination factor [Escherichia coli 'BL21-Gold(DE3)pLysS
           AG']
 gi|253975014|gb|ACT40685.1| transcription elongation factor NusA [Escherichia coli B str.
           REL606]
 gi|253979170|gb|ACT44840.1| transcription elongation factor NusA [Escherichia coli BL21(DE3)]
 gi|257761131|dbj|BAI32628.1| transcription termination/antitermination L factor NusA
           [Escherichia coli O103:H2 str. 12009]
 gi|260447802|gb|ACX38224.1| NusA antitermination factor [Escherichia coli DH1]
 gi|281180213|dbj|BAI56543.1| N utilization substance protein A [Escherichia coli SE15]
 gi|281602553|gb|ADA75537.1| Transcription elongation protein nusA [Shigella flexneri 2002017]
 gi|290764418|gb|ADD58379.1| Transcription elongation protein nusA [Escherichia coli O55:H7 str.
           CB9615]
 gi|291322595|gb|EFE62024.1| transcription elongation protein nusA [Escherichia coli B088]
 gi|291431958|gb|EFF04941.1| transcription elongation protein nusA [Escherichia coli B185]
 gi|294490229|gb|ADE88985.1| transcription termination/antitermination factor NusA [Escherichia
           coli IHE3034]
 gi|299879881|gb|EFI88092.1| transcription termination factor NusA [Escherichia coli MS 196-1]
 gi|300300131|gb|EFJ56516.1| transcription termination factor NusA [Escherichia coli MS 185-1]
 gi|300308213|gb|EFJ62733.1| transcription termination factor NusA [Escherichia coli MS 200-1]
 gi|300317388|gb|EFJ67172.1| transcription termination factor NusA [Escherichia coli MS 175-1]
 gi|300403706|gb|EFJ87244.1| transcription termination factor NusA [Escherichia coli MS 84-1]
 gi|300407077|gb|EFJ90615.1| transcription termination factor NusA [Escherichia coli MS 45-1]
 gi|300413950|gb|EFJ97260.1| transcription termination factor NusA [Escherichia coli MS 115-1]
 gi|300417857|gb|EFK01168.1| transcription termination factor NusA [Escherichia coli MS 182-1]
 gi|300451708|gb|EFK15328.1| transcription termination factor NusA [Escherichia coli MS 116-1]
 gi|300462221|gb|EFK25714.1| transcription termination factor NusA [Escherichia coli MS 187-1]
 gi|300523636|gb|EFK44705.1| transcription termination factor NusA [Escherichia coli MS 119-7]
 gi|300529877|gb|EFK50939.1| transcription termination factor NusA [Escherichia coli MS 107-1]
 gi|300842756|gb|EFK70516.1| transcription termination factor NusA [Escherichia coli MS 124-1]
 gi|300846897|gb|EFK74657.1| transcription termination factor NusA [Escherichia coli MS 78-1]
 gi|301076825|gb|EFK91631.1| transcription termination factor NusA [Escherichia coli MS 146-1]
 gi|305850052|gb|EFM50511.1| transcription elongation factor NusA [Escherichia coli NC101]
 gi|306907035|gb|EFN37543.1| transcription termination factor NusA [Escherichia coli W]
 gi|307555265|gb|ADN48040.1| transcription pausing [Escherichia coli ABU 83972]
 gi|307625230|gb|ADN69534.1| transcription elongation factor NusA [Escherichia coli UM146]
 gi|309703597|emb|CBJ02937.1| transcription elongation protein [Escherichia coli ETEC H10407]
 gi|312286710|gb|EFR14621.1| transcription elongation protein nusA [Escherichia coli 2362-75]
 gi|312947728|gb|ADR28555.1| transcription elongation factor NusA [Escherichia coli O83:H1 str.
           NRG 857C]
 gi|313648589|gb|EFS13031.1| transcription elongation protein nusA [Shigella flexneri 2a str.
           2457T]
 gi|315062477|gb|ADT76804.1| transcription termination/antitermination L factor [Escherichia
           coli W]
 gi|315137757|dbj|BAJ44916.1| transcription elongation protein nusA [Escherichia coli DH1]
 gi|315257095|gb|EFU37063.1| transcription termination factor NusA [Escherichia coli MS 85-1]
 gi|315297879|gb|EFU57149.1| transcription termination factor NusA [Escherichia coli MS 16-3]
 gi|315617252|gb|EFU97861.1| transcription elongation protein nusA [Escherichia coli 3431]
 gi|320181445|gb|EFW56363.1| Transcription termination protein NusA [Shigella boydii ATCC 9905]
 gi|320189523|gb|EFW64182.1| Transcription termination protein NusA [Escherichia coli O157:H7
           str. EC1212]
 gi|320194655|gb|EFW69285.1| Transcription termination protein NusA [Escherichia coli WV_060327]
 gi|320202083|gb|EFW76658.1| Transcription termination protein NusA [Escherichia coli EC4100B]
 gi|320640241|gb|EFX09813.1| transcription elongation factor NusA [Escherichia coli O157:H7 str.
           G5101]
 gi|320645538|gb|EFX14547.1| transcription elongation factor NusA [Escherichia coli O157:H- str.
           493-89]
 gi|320650848|gb|EFX19305.1| transcription elongation factor NusA [Escherichia coli O157:H- str.
           H 2687]
 gi|320656229|gb|EFX24141.1| transcription elongation factor NusA [Escherichia coli O55:H7 str.
           3256-97 TW 07815]
 gi|320661919|gb|EFX29327.1| transcription elongation factor NusA [Escherichia coli O55:H7 str.
           USDA 5905]
 gi|320666754|gb|EFX33733.1| transcription elongation factor NusA [Escherichia coli O157:H7 str.
           LSU-61]
 gi|323162863|gb|EFZ48698.1| transcription elongation protein nusA [Escherichia coli E128010]
 gi|323165127|gb|EFZ50917.1| transcription elongation protein nusA [Shigella sonnei 53G]
 gi|323189208|gb|EFZ74492.1| transcription elongation protein nusA [Escherichia coli RN587/1]
 gi|323376935|gb|ADX49203.1| NusA antitermination factor [Escherichia coli KO11]
 gi|323936135|gb|EGB32429.1| transcription termination protein NusA [Escherichia coli E1520]
 gi|323941729|gb|EGB37908.1| transcription termination protein NusA [Escherichia coli E482]
 gi|323946975|gb|EGB42991.1| transcription termination protein NusA [Escherichia coli H120]
 gi|323951311|gb|EGB47186.1| transcription termination protein NusA [Escherichia coli H252]
 gi|323957682|gb|EGB53396.1| transcription termination protein NusA [Escherichia coli H263]
 gi|323961059|gb|EGB56674.1| transcription termination protein NusA [Escherichia coli H489]
 gi|323970266|gb|EGB65537.1| transcription termination protein NusA [Escherichia coli TA007]
 gi|324012105|gb|EGB81324.1| transcription termination factor NusA [Escherichia coli MS 60-1]
 gi|324119536|gb|EGC13418.1| transcription termination protein NusA [Escherichia coli E1167]
 gi|326337871|gb|EGD61705.1| Transcription termination protein NusA [Escherichia coli O157:H7
           str. 1125]
 gi|326347440|gb|EGD71165.1| Transcription termination protein NusA [Escherichia coli O157:H7
           str. 1044]
 gi|330909225|gb|EGH37739.1| transcription termination protein NusA [Escherichia coli AA86]
 gi|331037340|gb|EGI09564.1| L factor [Escherichia coli H736]
 gi|331042717|gb|EGI14859.1| L factor [Escherichia coli M605]
 gi|331048157|gb|EGI20234.1| L factor [Escherichia coli M718]
 gi|331054040|gb|EGI26069.1| L factor [Escherichia coli TA206]
 gi|331062911|gb|EGI34825.1| L factor [Escherichia coli TA271]
 gi|331068146|gb|EGI39542.1| L factor [Escherichia coli TA280]
 gi|331073315|gb|EGI44638.1| L factor [Escherichia coli H591]
 gi|331078433|gb|EGI49639.1| L factor [Escherichia coli H299]
 gi|332086099|gb|EGI91261.1| transcription elongation protein nusA [Shigella boydii 5216-82]
 gi|332086431|gb|EGI91578.1| transcription elongation protein nusA [Shigella dysenteriae 155-74]
 gi|332102352|gb|EGJ05698.1| transcription pausing [Shigella sp. D9]
 gi|332345126|gb|AEE58460.1| transcription elongation protein NusA [Escherichia coli UMNK88]
 gi|332752329|gb|EGJ82719.1| transcription elongation protein nusA [Shigella flexneri 4343-70]
 gi|332752856|gb|EGJ83241.1| transcription elongation protein nusA [Shigella flexneri K-671]
 gi|332754694|gb|EGJ85060.1| transcription elongation protein nusA [Shigella flexneri 2747-71]
 gi|332765166|gb|EGJ95393.1| transcription termination/antitermination L factor [Shigella
           flexneri 2930-71]
 gi|332998811|gb|EGK18407.1| transcription elongation protein nusA [Shigella flexneri VA-6]
 gi|332999248|gb|EGK18834.1| transcription elongation protein nusA [Shigella flexneri K-272]
 gi|333014625|gb|EGK33972.1| transcription elongation protein nusA [Shigella flexneri K-304]
 gi|333014970|gb|EGK34314.1| transcription elongation protein nusA [Shigella flexneri K-227]
          Length = 495

 Score =  607 bits (1566), Expect = e-171,   Method: Composition-based stats.
 Identities = 205/511 (40%), Positives = 317/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVDEVTQPTKEITLEAARYEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F +
Sbjct: 302 KHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L  I    
Sbjct: 362 YLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALATIAQAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL              
Sbjct: 422 EESLGDNKPADDLLNLEGVDRDLAFKLAARGVCTLEDLAEQGIDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   ++  ++I+ AR  + W   E
Sbjct: 472 -------GLTDEKAGALIMAAR-NICWFGDE 494


>gi|283788203|ref|YP_003368068.1| transcription elongation protein [Citrobacter rodentium ICC168]
 gi|282951657|emb|CBG91357.1| transcription elongation protein [Citrobacter rodentium ICC168]
          Length = 495

 Score =  607 bits (1566), Expect = e-171,   Method: Composition-based stats.
 Identities = 204/511 (39%), Positives = 319/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEV   T +I+L+ AR  D S+++GG V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLIVEEVTQPTKEITLEAARFEDESLNLGGYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+ P+ +V+LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYAVRPEARGAQLFVTRSKPEMLVELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F +
Sbjct: 302 KHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  + +  
Sbjct: 362 YLDIDEEFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++ G++ ++   L   G+ T+EDLA   +DDL              
Sbjct: 422 EESLGDNKPADDLLNLEGMNRELAFKLAARGVCTLEDLAEQGIDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   ++   +I+ AR  + W   E
Sbjct: 472 -------GLTDEKAGELIMAAR-NICWFGDE 494


>gi|323979112|gb|EGB74190.1| transcription termination protein NusA [Escherichia coli TW10509]
          Length = 495

 Score =  607 bits (1565), Expect = e-171,   Method: Composition-based stats.
 Identities = 206/511 (40%), Positives = 317/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVDEVTQPTKEITLEAARFEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F +
Sbjct: 302 KHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L  I    
Sbjct: 362 YLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALATIAQPQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++ GID  +   L   G+ T+EDLA   +DDL              
Sbjct: 422 EESLGDNKPADDLLNLEGIDRDLAFKLAARGVCTLEDLAEQGIDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   ++  ++I+ AR  + W   E
Sbjct: 472 -------GLTDEKAGALIMAAR-NICWFGDE 494


>gi|194438826|ref|ZP_03070912.1| transcription termination/antitermination factor NusA [Escherichia
           coli 101-1]
 gi|194422298|gb|EDX38299.1| transcription termination/antitermination factor NusA [Escherichia
           coli 101-1]
          Length = 495

 Score =  607 bits (1565), Expect = e-171,   Method: Composition-based stats.
 Identities = 204/511 (39%), Positives = 316/511 (61%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVDEVTQPTKEITLEAARYEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQ V TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQTVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F +
Sbjct: 302 KHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L  I    
Sbjct: 362 YLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALATIAQAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL              
Sbjct: 422 EESLGDNKPADDLLNLEGVDRDLAFKLAARGVCTLEDLAEQGIDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   ++  ++I+ AR  + W   E
Sbjct: 472 -------GLTDEKAGALIMAAR-NICWFGDE 494


>gi|315288929|gb|EFU48327.1| transcription termination factor NusA [Escherichia coli MS 110-3]
          Length = 495

 Score =  606 bits (1563), Expect = e-171,   Method: Composition-based stats.
 Identities = 205/511 (40%), Positives = 317/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVDEVTQPTKEITLEAARYEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAMVVDQFREHEGEIITGVVKKVNCDNISLDLGNNAEAVILREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F +
Sbjct: 302 KHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L  I    
Sbjct: 362 YLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALATIAQAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL              
Sbjct: 422 EESLGDNKPADDLLNLEGVDRDLAFKLAARGVCTLEDLAEQGIDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   ++  ++I+ AR  + W   E
Sbjct: 472 -------GLTDEKAGALIMAAR-NICWFGDE 494


>gi|291616009|ref|YP_003518751.1| NusA [Pantoea ananatis LMG 20103]
 gi|291151039|gb|ADD75623.1| NusA [Pantoea ananatis LMG 20103]
          Length = 500

 Score =  606 bits (1563), Expect = e-171,   Method: Composition-based stats.
 Identities = 204/511 (39%), Positives = 319/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ ++GD   FR 
Sbjct: 7   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVSIDRKSGDFDTFRR 66

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            E+VE+V   T +I+L  AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 67  WEIVEQVTQPTREITLDAARYEDESLNLGEYVEDQIESVTFDRITTQTAKQVIVQKVREA 126

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+++ GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDR++ 
Sbjct: 127 ERAMVVDQFREQEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDRIRG 186

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 187 VLYAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVLEIKAAARDPGSRAKIAVKTN 246

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 247 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 306

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F +
Sbjct: 307 NHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDMFTK 366

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EE+A V I+E+  I+G DEET   ++ RA+  L  + +  
Sbjct: 367 HLDIDEEFATILVEEGFSTLEEMAYVPINELLEIDGLDEETIEALRERAKNALTTLALAK 426

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ +     +E+L ++ G+D  +   L   G+ T+EDLA   VDDL              
Sbjct: 427 EESLGNQEPAEDLLNLEGLDRALAFRLASKGVCTLEDLAEQGVDDLTDIE---------- 476

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   +Q  ++I+ AR  + W   +
Sbjct: 477 -------GLTDEQAGALIMAAR-NICWFGDD 499


>gi|82778483|ref|YP_404832.1| transcription elongation factor NusA [Shigella dysenteriae Sd197]
 gi|309785496|ref|ZP_07680127.1| transcription elongation protein nusA [Shigella dysenteriae 1617]
 gi|81242631|gb|ABB63341.1| transcription pausing [Shigella dysenteriae Sd197]
 gi|308926616|gb|EFP72092.1| transcription elongation protein nusA [Shigella dysenteriae 1617]
          Length = 495

 Score =  606 bits (1563), Expect = e-171,   Method: Composition-based stats.
 Identities = 206/511 (40%), Positives = 317/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVDEVTQPTKEITLEAARYEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F +
Sbjct: 302 KHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L  I    
Sbjct: 362 YLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALATIAQAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++ GID  +   L   G+ T+EDLA   +DDL              
Sbjct: 422 EESLGDNKPADDLLNLEGIDRDLTFKLAARGVCTLEDLAEQGIDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   ++  ++I+ AR  + W   E
Sbjct: 472 -------GLTDEKAGALIMAAR-NICWFGDE 494


>gi|168754150|ref|ZP_02779157.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4401]
 gi|168769587|ref|ZP_02794594.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4486]
 gi|168773164|ref|ZP_02798171.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4196]
 gi|168781312|ref|ZP_02806319.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4076]
 gi|195938389|ref|ZP_03083771.1| transcription elongation factor NusA [Escherichia coli O157:H7 str.
           EC4024]
 gi|208806905|ref|ZP_03249242.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4206]
 gi|208814506|ref|ZP_03255835.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4045]
 gi|208820220|ref|ZP_03260540.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4042]
 gi|209398727|ref|YP_002272640.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4115]
 gi|254795120|ref|YP_003079957.1| transcription elongation factor NusA [Escherichia coli O157:H7 str.
           TW14359]
 gi|187770909|gb|EDU34753.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4196]
 gi|189001070|gb|EDU70056.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4076]
 gi|189358578|gb|EDU76997.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4401]
 gi|189361406|gb|EDU79825.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4486]
 gi|208726706|gb|EDZ76307.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4206]
 gi|208735783|gb|EDZ84470.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4045]
 gi|208740343|gb|EDZ88025.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4042]
 gi|209160127|gb|ACI37560.1| transcription termination/antitermination factor NusA [Escherichia
           coli O157:H7 str. EC4115]
 gi|209758336|gb|ACI77480.1| transcription termination-antitermination factor NusA [Escherichia
           coli]
 gi|254594520|gb|ACT73881.1| transcription termination/antitermination L factor [Escherichia
           coli O157:H7 str. TW14359]
          Length = 495

 Score =  605 bits (1562), Expect = e-171,   Method: Composition-based stats.
 Identities = 205/511 (40%), Positives = 317/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVDEVTQPTKEITLEAARYEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F +
Sbjct: 302 KHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L  I    
Sbjct: 362 YLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALATIAQVQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL              
Sbjct: 422 EESLGDNKPADDLLNLEGVDRDLAFKLAARGVCTLEDLAEQGIDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   ++  ++I+ AR  + W   E
Sbjct: 472 -------GLTDEKAGALIMAAR-NICWFGDE 494


>gi|304396347|ref|ZP_07378228.1| transcription termination factor NusA [Pantoea sp. aB]
 gi|304355856|gb|EFM20222.1| transcription termination factor NusA [Pantoea sp. aB]
          Length = 495

 Score =  605 bits (1562), Expect = e-171,   Method: Composition-based stats.
 Identities = 203/511 (39%), Positives = 317/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    ++RV I+  +GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIEVRVSIDRRSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            E+VEEV   T +I+L  AR  D + ++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WEIVEEVTQPTREITLDAARFEDEAFNLGEYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+++ GEII+G VK+V   N+ +DLG N++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDQFREQEGEIITGVVKKVNRDNISLDLGSNAEAVILREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F +
Sbjct: 302 NHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDMFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V I+E+  ++G DEET   ++ RA+  L  + +  
Sbjct: 362 HLDIDEEFATVLVEEGFSSLEELAYVPINELLEVDGLDEETIEALRERAKNALTTLALAK 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ +     +E+L ++ G+D  +   L   G+ T+EDLA   VDDL              
Sbjct: 422 EESLGNQEPAEDLLNLEGLDRALAFRLASKGVCTLEDLAEQGVDDLTDIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   +Q  ++I+ AR  + W   +
Sbjct: 472 -------GLSDEQAGALIMAAR-NICWFGDD 494


>gi|157148740|ref|YP_001456059.1| transcription elongation factor NusA [Citrobacter koseri ATCC
           BAA-895]
 gi|157085945|gb|ABV15623.1| hypothetical protein CKO_04570 [Citrobacter koseri ATCC BAA-895]
          Length = 495

 Score =  605 bits (1562), Expect = e-171,   Method: Composition-based stats.
 Identities = 202/511 (39%), Positives = 316/511 (61%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLIVEEVTLPTKEITLEAARFEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER     +F++  GEII+G VK+V   N+ +DLG N++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDQFREHEGEIITGVVKKVNRDNISLDLGSNAEAVILREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLA+QL+GW ++++T ++     Q + +     F +
Sbjct: 302 KHTMDIAVEAGNLAQAIGRNGQNVRLAAQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGFA +EELA V + E+  I+G DE T   ++ RA+  L  + +  
Sbjct: 362 YLDIDEEFATVLVEEGFATLEELAYVPMKELLEIDGLDEPTVEALRERAKNALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   S++L ++ G+   +   L   G+ T+EDLA   +DDL              
Sbjct: 422 EESLGDNKPSDDLLNLEGLGRDLAFKLAARGVCTLEDLAEQGIDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   ++   +I+ AR  + W   E
Sbjct: 472 -------GLTDEKAGELIMAAR-NICWFGDE 494


>gi|308189112|ref|YP_003933243.1| Transcription elongation protein nusA [Pantoea vagans C9-1]
 gi|308059622|gb|ADO11794.1| Transcription elongation protein nusA [Pantoea vagans C9-1]
          Length = 495

 Score =  605 bits (1562), Expect = e-171,   Method: Composition-based stats.
 Identities = 203/511 (39%), Positives = 317/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    ++RV I+  +GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIEVRVSIDRRSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            E+VEEV   T +I+L  AR  D + ++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WEIVEEVTQPTREITLDAARFEDEAFNLGEYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+++ GEII+G VK+V   N+ +DLG N++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDQFREQEGEIITGVVKKVNRDNISLDLGSNAEAVILREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F +
Sbjct: 302 NHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDMFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V I+E+  ++G DEET   ++ RA+  L  + +  
Sbjct: 362 HLDIDEEFATVLVEEGFSSLEELAYVPINELLEVDGLDEETIEALRERAKNALTTLALAK 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ +     +E+L ++ G+D  +   L   G+ T+EDLA   VDDL              
Sbjct: 422 EESLGNQEPAEDLLNLEGLDRALAFRLASKGVCTLEDLAEQGVDDLTDIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   +Q  ++I+ AR  + W   +
Sbjct: 472 -------GMSDEQAGALIMAAR-NICWFGDD 494


>gi|271499173|ref|YP_003332198.1| transcription termination factor NusA [Dickeya dadantii Ech586]
 gi|270342728|gb|ACZ75493.1| transcription termination factor NusA [Dickeya dadantii Ech586]
          Length = 496

 Score =  605 bits (1561), Expect = e-171,   Method: Composition-based stats.
 Identities = 207/508 (40%), Positives = 316/508 (62%), Gaps = 19/508 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKAVPREKIFEALETALATATKKKYEQEIDVRVCIDRKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV EV   T +I+L+ A+  +PSID+GG + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVNEVTQPTREITLEAAQFEEPSIDLGGYIEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+++ GEI++G VK+V   N+ +DLG N++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDQFREQEGEIVTGVVKKVNRDNITLDLGSNAEAVIGREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYAVRPEARGAQLFVSRSRPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T E+     Q + +     F +
Sbjct: 302 KHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTIEDLQAKHQAEAHAAIDIFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A  LV EGF+ +EELA V I E+  I+G DEET   ++ RA+  L  + +  
Sbjct: 362 HLDIDEEFATALVEEGFSSLEELAYVPIHELQEIDGLDEETIEALRERAKAALTTLALAN 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++       +E+L ++ G+  ++   L   G+ T+EDLA   VDDL              
Sbjct: 422 EENRGNGQPAEDLLNLSGLSRELAFKLAARGVCTLEDLAEQGVDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  ++Q   +I+ AR  + W 
Sbjct: 472 -------GLNEEQAGELIMAAR-NICWF 491


>gi|260596201|ref|YP_003208772.1| transcription elongation factor NusA [Cronobacter turicensis z3032]
 gi|260215378|emb|CBA27401.1| Transcription elongation protein nusA [Cronobacter turicensis
           z3032]
          Length = 495

 Score =  605 bits (1561), Expect = e-171,   Method: Composition-based stats.
 Identities = 202/511 (39%), Positives = 316/511 (61%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKAVPREKIFEALESALATATKKKYEQEIDVRVSIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEV   T +I+L+ AR  DPS+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVIVEEVTQPTREITLEAARYEDPSLNVGEYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER     +F++  GEII+G VK+V   N+ +DLG N++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDQFREHEGEIITGVVKKVNRENITLDLGSNAEAVILREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R  P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYAVRPEARGAQLFVTRAKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F +
Sbjct: 302 KHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V + E+  ++G DE T   ++ RA+  L  + +  
Sbjct: 362 YLDIDEEFATILVEEGFSTLEELAYVPMKELLEVDGLDEPTVEALRERAKNALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++ G+D  +   L   G+ T++DLA   VDDL              
Sbjct: 422 EESLGDNKPADDLLNLEGMDRTLAYKLAARGVCTLDDLADQGVDDLADID---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   ++   +I+ AR  + W   E
Sbjct: 472 -------GLTDEKAGELIMAAR-NIRWFSDE 494


>gi|110807038|ref|YP_690558.1| transcription elongation factor NusA [Shigella flexneri 5 str.
           8401]
 gi|110616586|gb|ABF05253.1| transcription elongation factor NusA [Shigella flexneri 5 str.
           8401]
          Length = 495

 Score =  605 bits (1561), Expect = e-171,   Method: Composition-based stats.
 Identities = 205/511 (40%), Positives = 317/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVDEVTQPTKEITLEAARYEDESLNLGDYVEDQIESVIFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F +
Sbjct: 302 KHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L  I    
Sbjct: 362 YLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALATIAQAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL              
Sbjct: 422 EESLGDNKPADDLLNLEGVDRDLAFKLAARGVCTLEDLAEQGIDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   ++  ++I+ AR  + W   E
Sbjct: 472 -------GLTDEKAGALIMAAR-NICWFGDE 494


>gi|251791036|ref|YP_003005757.1| transcription elongation factor NusA [Dickeya zeae Ech1591]
 gi|247539657|gb|ACT08278.1| NusA antitermination factor [Dickeya zeae Ech1591]
          Length = 496

 Score =  605 bits (1561), Expect = e-171,   Method: Composition-based stats.
 Identities = 207/508 (40%), Positives = 318/508 (62%), Gaps = 19/508 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKAVPREKIFEALETALATATKKKYEQEIDVRVCIDRKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            +VV EV   T +I+L+ A+  +PSID+GG + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WQVVNEVTQPTREITLEAAQFEEPSIDLGGYIEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+++ GEI++G VK+V   N+ +DLG N++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDQFREQEGEIVTGVVKKVNRDNITLDLGSNAEAVIGREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYAVRPEARGAQLFVSRSRPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T E+     Q + +     F +
Sbjct: 302 KHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTIEDLQAKHQAEAHAAIDIFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A  LV EGF+ +EELA V I+E+  I+G DEET   ++ RA+  L  + +  
Sbjct: 362 HLDIDEEFATALVEEGFSSLEELAYVPINELQEIDGLDEETIEALRERAKAALTTLALAN 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++       +E+L ++ G+  ++   L   G+ T+EDLA   VDDL              
Sbjct: 422 EENRGNGQPAEDLLNLSGLSRELAFKLAARGVCTLEDLAEQGVDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  ++Q   +I+ AR  + W 
Sbjct: 472 -------GLDEEQAGELIMAAR-NICWF 491


>gi|82545591|ref|YP_409538.1| transcription elongation factor NusA [Shigella boydii Sb227]
 gi|187731710|ref|YP_001881914.1| transcription elongation factor NusA [Shigella boydii CDC 3083-94]
 gi|81247002|gb|ABB67710.1| NusA [Shigella boydii Sb227]
 gi|187428702|gb|ACD07976.1| transcription termination/antitermination factor NusA [Shigella
           boydii CDC 3083-94]
 gi|320175533|gb|EFW50629.1| Transcription termination protein NusA [Shigella dysenteriae CDC
           74-1112]
 gi|320186658|gb|EFW61382.1| Transcription termination protein NusA [Shigella flexneri CDC
           796-83]
 gi|332090718|gb|EGI95812.1| transcription elongation protein nusA [Shigella boydii 3594-74]
          Length = 495

 Score =  605 bits (1561), Expect = e-171,   Method: Composition-based stats.
 Identities = 205/511 (40%), Positives = 317/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVDEVTQPTKEITLEAARYEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F++  GEII+G VK+V   N+ ++LGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAMVVDQFREHEGEIITGVVKKVNRDNISLELGNNAEAVILREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F +
Sbjct: 302 KHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L  I    
Sbjct: 362 YLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALATIAQAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++ GID  +   L   G+ T+EDLA   +DDL              
Sbjct: 422 EESLGDNKPADDLLNLEGIDRDLAFKLAARGVCTLEDLAEQGIDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   ++  ++I+ AR  + W   E
Sbjct: 472 -------GVTDEKAGALIMAAR-NICWFGDE 494


>gi|237730089|ref|ZP_04560570.1| transcription elongation factor NusA [Citrobacter sp. 30_2]
 gi|226908695|gb|EEH94613.1| transcription elongation factor NusA [Citrobacter sp. 30_2]
          Length = 495

 Score =  605 bits (1560), Expect = e-171,   Method: Composition-based stats.
 Identities = 203/511 (39%), Positives = 319/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVIVEEVTQPTKEITLEAARFEDESLNVGEYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER     +F++  GEI++G VK+V   N+ +DLG N++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDQFREHEGEIVTGVVKKVNRDNISLDLGSNAEAVILREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F +
Sbjct: 302 KHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGFA +EELA V + E+  I+G DE+T   ++ RA+  L  + +  
Sbjct: 362 YLDIDEDFATVLVEEGFATLEELAYVPMKELLEIDGLDEQTVEALRERAKNALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++ G+D ++   L   G+ T+EDLA   +DDL              
Sbjct: 422 EESLGDNKPADDLLNLEGLDREMAFKLAARGVCTLEDLAEQGIDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   ++   +I+ AR  + W   E
Sbjct: 472 -------GLTDEKAGELIMAAR-NICWFGDE 494


>gi|327396260|dbj|BAK13682.1| transcription elongation protein NusA [Pantoea ananatis AJ13355]
          Length = 495

 Score =  605 bits (1560), Expect = e-171,   Method: Composition-based stats.
 Identities = 204/511 (39%), Positives = 319/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVSIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            E+VE+V   T +I+L  AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WEIVEQVTQPTREITLDAARYEDESLNLGEYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+++ GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDQFREQEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVLEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F +
Sbjct: 302 NHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDMFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EE+A V I+E+  I+G DEET   ++ RA+  L  + +  
Sbjct: 362 HLDIDEEFATILVEEGFSTLEEMAYVPINELLEIDGLDEETIEALRERAKNALTTLALAK 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ +     +E+L ++ G+D  +   L   G+ T+EDLA   VDDL              
Sbjct: 422 EESLGNQEPAEDLLNLEGLDRALAFRLASKGVCTLEDLAEQGVDDLTDIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   +Q  ++I+ AR  + W   +
Sbjct: 472 -------GLTDEQAGALIMAAR-NICWFGDD 494


>gi|295097658|emb|CBK86748.1| transcription termination factor NusA/transcription termination
           factor NusA, C-terminal duplication [Enterobacter
           cloacae subsp. cloacae NCTC 9394]
          Length = 500

 Score =  604 bits (1559), Expect = e-170,   Method: Composition-based stats.
 Identities = 206/516 (39%), Positives = 318/516 (61%), Gaps = 24/516 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVIVEEVTQPTKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPG 179
           ER     +F+D+ GEII+G VK+V   N+ +++      GN++ VI R++ + REN RPG
Sbjct: 122 ERALVVDQFRDQEGEIITGVVKKVNRDNISLEIKSEGLPGNAEAVILREDMLPRENFRPG 181

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR++  +Y VR E RG Q+ ++R+ P+ +V+LF +EVPEI   ++++KA +RDPGSRAK+
Sbjct: 182 DRIRGVLYAVRPEARGAQLFVTRSKPEMLVELFRIEVPEIGEEVIEIKAAARDPGSRAKI 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +
Sbjct: 242 AVKTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASI 301

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           V+DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +   
Sbjct: 302 VVDEDKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAI 361

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             F + +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  
Sbjct: 362 DTFTKYLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALTT 421

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           + +  ++ + +   +++L ++ G+D  I   L   G+ T+EDLA   VDDL         
Sbjct: 422 LALAQEESLGDKKPADDLLNLEGLDRAIAFKLAARGVCTLEDLAEQGVDDLADIE----- 476

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                       G   ++   +I+ AR  + W   E
Sbjct: 477 ------------GLTDEKAGELIMAAR-NICWFGDE 499


>gi|110643410|ref|YP_671140.1| transcription elongation factor NusA [Escherichia coli 536]
 gi|110345002|gb|ABG71239.1| N utilization substance protein A [Escherichia coli 536]
          Length = 495

 Score =  604 bits (1559), Expect = e-170,   Method: Composition-based stats.
 Identities = 204/511 (39%), Positives = 316/511 (61%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVDEVTQPTKEITLEAARYEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYSVRPEARGVQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F +
Sbjct: 302 KHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L  I    
Sbjct: 362 YLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALATIAQAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +    ++L ++ G+D  +   L   G+ ++EDLA   +DDL              
Sbjct: 422 EESLGDNKPCDDLLNLEGVDRDLAFKLAARGVCSLEDLAEQGIDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   ++  ++I+ AR  + W   E
Sbjct: 472 -------GLTDEKAGALIMAAR-NICWFGDE 494


>gi|330991197|ref|ZP_08315149.1| Transcription elongation protein nusA [Gluconacetobacter sp.
           SXCC-1]
 gi|329761690|gb|EGG78182.1| Transcription elongation protein nusA [Gluconacetobacter sp.
           SXCC-1]
          Length = 523

 Score =  603 bits (1557), Expect = e-170,   Method: Composition-based stats.
 Identities = 285/521 (54%), Positives = 371/521 (71%), Gaps = 16/521 (3%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
            S  R ELL +ADAVA EKSIDR+ VL  M  +IQKA R+ YG   DIR  I+  TGD+ 
Sbjct: 11  TSVARPELLLVADAVAREKSIDREEVLEAMEQAIQKAGRAKYGHEKDIRATIDRRTGDVR 70

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R  E VE VEN   QI L +AR   P I +G  + DPLPP+DFGR+A Q+AKQVI+Q+
Sbjct: 71  LSRWTEAVETVENEETQIPLYIARKFKPEIQLGEYLIDPLPPIDFGRIAAQTAKQVIVQR 130

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VRE ER RQ+ +FKD+VGEII+GTVKR EYGN++V++G+++ ++RRDE I RE+ R  DR
Sbjct: 131 VREYERRRQFNDFKDRVGEIINGTVKRTEYGNLLVEIGDAEALLRRDELIPRESFRNSDR 190

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YIYDVR E RGPQ+ LSRTHP F+ KLF  EVPEIY+GI+++KAV+RDPGSRAK+AV
Sbjct: 191 VRAYIYDVRDEPRGPQIFLSRTHPAFLAKLFAQEVPEIYDGIIEIKAVARDPGSRAKMAV 250

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D++IDPVGACVG+RG RVQ VV EL+ EKIDI+ WSP +ATFV+NAL PA V+KVV+
Sbjct: 251 ISRDAAIDPVGACVGVRGRRVQEVVKELQGEKIDIIPWSPQAATFVVNALAPAEVSKVVM 310

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+ GR+EV+VP +QLSLAIGRRGQNVRLASQLT W IDI+TE E+S  RQ++F  R+  
Sbjct: 311 DEEAGRVEVVVPDDQLSLAIGRRGQNVRLASQLTRWDIDILTEAEESERRQEEFRRRSSQ 370

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F+ +++VD++IA LLV EGF  VEELA     E+A+IEGFDE+ A E+  RA  +L   +
Sbjct: 371 FVTSLDVDDVIAGLLVTEGFHSVEELAFADPEELANIEGFDEDVAGELVLRAERHLAQQE 430

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L +K RELGVS+++  +    +++ V LGE G+KT++DLA  + D+L+          
Sbjct: 431 EQLDEKRRELGVSDDIAVLGVFTNQMLVTLGEKGVKTLDDLADLAGDELVE--------- 481

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEV 522
                 L S    +D    +I+ AR    W E +   D E 
Sbjct: 482 -----ILGSDAIDEDAANEIIMAARAH--WFEGDDRGDAEP 515


>gi|311277858|ref|YP_003940089.1| NusA antitermination factor [Enterobacter cloacae SCF1]
 gi|308747053|gb|ADO46805.1| NusA antitermination factor [Enterobacter cloacae SCF1]
          Length = 500

 Score =  603 bits (1557), Expect = e-170,   Method: Composition-based stats.
 Identities = 203/516 (39%), Positives = 318/516 (61%), Gaps = 24/516 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVIVEEVTQPTKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPG 179
           ER     +F+D+ GEI++G VK+V   N+ +++      GN++ VI R++ + REN RPG
Sbjct: 122 ERAMVVDQFRDQEGEIVTGMVKKVNRDNISLEIKSEGMAGNAEAVILREDMLPRENFRPG 181

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR++  +Y VR E RG Q+ ++R+ P+ +V+LF +EVPEI   ++++KA +RDPGSRAK+
Sbjct: 182 DRIRGVLYAVRPEARGAQLFVTRSKPEMLVELFRIEVPEIGEEVIEIKAAARDPGSRAKI 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +
Sbjct: 242 AVKTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASI 301

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           V+DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +   
Sbjct: 302 VVDEDKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAI 361

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             F + +++DE  A +LV EGF+ +EELA V + E+  I+G DE+T   ++ RA+  L  
Sbjct: 362 DTFTKYLDIDEEFATVLVEEGFSSLEELAYVPMKELLEIDGLDEDTVEALRERAKNALTT 421

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           + +  ++ +     +++L ++ G+D  +   L   G+ T+EDLA   VDDL    E    
Sbjct: 422 LALAQEESLGNNKPADDLLNLEGLDRAMAFKLAARGVCTLEDLAEQGVDDLADIEE---- 477

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                           ++   +I+ AR  + W   E
Sbjct: 478 -------------MTDEKAGELIMAAR-NICWFGDE 499


>gi|296104883|ref|YP_003615029.1| transcription elongation factor NusA [Enterobacter cloacae subsp.
           cloacae ATCC 13047]
 gi|295059342|gb|ADF64080.1| transcription elongation factor NusA [Enterobacter cloacae subsp.
           cloacae ATCC 13047]
          Length = 500

 Score =  603 bits (1557), Expect = e-170,   Method: Composition-based stats.
 Identities = 206/516 (39%), Positives = 318/516 (61%), Gaps = 24/516 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVIVEEVTQPTKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPG 179
           ER     +F+D+ GEII+G VK+V   N+ +++      GN++ VI R++ + REN RPG
Sbjct: 122 ERALVVDQFRDQEGEIITGVVKKVNRDNISLEIKSEGMPGNAEAVILREDMLPRENFRPG 181

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR++  +Y VR E RG Q+ ++R+ P+ +V+LF +EVPEI   ++++KA +RDPGSRAK+
Sbjct: 182 DRIRGVLYAVRPEARGAQLFVTRSKPEMLVELFRIEVPEIGEEVIEIKAAARDPGSRAKI 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +
Sbjct: 242 AVKTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASI 301

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           V+DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +   
Sbjct: 302 VVDEDKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAI 361

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             F + +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  
Sbjct: 362 DTFTKYLDIDEEFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALTT 421

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           + +  ++ + +   +++L ++ G+D  I   L   G+ T+EDLA   VDDL         
Sbjct: 422 LALAQEESLGDKKPADDLLNLEGLDRAIAFKLAARGVCTLEDLAEQGVDDLADIE----- 476

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                       G   ++   +I+ AR  + W   E
Sbjct: 477 ------------GLTDEKAGELIMAAR-NICWFGDE 499


>gi|307129384|ref|YP_003881400.1| transcription termination/antitermination L factor [Dickeya
           dadantii 3937]
 gi|306526913|gb|ADM96843.1| transcription termination/antitermination L factor [Dickeya
           dadantii 3937]
          Length = 496

 Score =  603 bits (1557), Expect = e-170,   Method: Composition-based stats.
 Identities = 207/508 (40%), Positives = 316/508 (62%), Gaps = 19/508 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKAVPREKIFEALETALATATKKKYEQEIDVRVCIDRKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            +VV EV   T +I+L+ A+  +PSID+GG + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WQVVNEVTQPTREITLEAAQFEEPSIDLGGYIEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+++ GEI++G VK+V   N+ +DLG N++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDQFREQEGEIVTGVVKKVNRDNISLDLGSNAEAVIGREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYAVRPEARGAQLFVSRSRPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T E+     Q + +     F +
Sbjct: 302 KHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTIEDLQAKHQAEAHAAIDIFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A  LV EGF+ +EELA V I E+  I+G DEET   ++ RA+  L  + +  
Sbjct: 362 HLDIDEEFATALVEEGFSSLEELAYVPIHELQEIDGLDEETIEALRERAKAALTTLALAN 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++       +E+L ++ G+  ++   L   G+ T+EDLA   VDDL              
Sbjct: 422 EENRGNGQPAEDLLNLSGLSRELAFKLAARGVCTLEDLAEQGVDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  + Q   +I+ AR  + W 
Sbjct: 472 -------GLDEAQAGELIMAAR-NICWF 491


>gi|261342615|ref|ZP_05970473.1| L factor [Enterobacter cancerogenus ATCC 35316]
 gi|288315263|gb|EFC54201.1| L factor [Enterobacter cancerogenus ATCC 35316]
          Length = 500

 Score =  603 bits (1557), Expect = e-170,   Method: Composition-based stats.
 Identities = 206/516 (39%), Positives = 318/516 (61%), Gaps = 24/516 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVIVEEVTQPTKEITLEAARYEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPG 179
           ER     +F+D+ GEII+G VK+V   N+ +++      GN++ VI R++ + REN RPG
Sbjct: 122 ERALVVDQFRDQEGEIITGVVKKVNRDNISLEIKSEGMPGNAEAVILREDMLPRENFRPG 181

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR++  +Y VR E RG Q+ ++R+ P+ +V+LF +EVPEI   ++++KA +RDPGSRAK+
Sbjct: 182 DRIRGVLYAVRPEARGAQLFVTRSKPEMLVELFRIEVPEIGEEVIEIKAAARDPGSRAKI 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +
Sbjct: 242 AVKTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASI 301

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           V+DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +   
Sbjct: 302 VVDEDKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAI 361

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             F + +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  
Sbjct: 362 DTFTKYLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIDGLDEATVEALRERAKNALTT 421

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           + +  ++ + +   +++L ++ G+D  I   L   G+ T+EDLA   VDDL         
Sbjct: 422 LALAQEESLGDNKPADDLLNLEGLDRAIAFKLAARGVCTLEDLAEQGVDDLADIE----- 476

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                       G   ++   +I+ AR  + W   E
Sbjct: 477 ------------GLTDEKAGELIMAAR-NICWFGDE 499


>gi|315294914|gb|EFU54253.1| transcription termination factor NusA [Escherichia coli MS 153-1]
          Length = 495

 Score =  603 bits (1556), Expect = e-170,   Method: Composition-based stats.
 Identities = 204/511 (39%), Positives = 316/511 (61%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVDEVTQPTKEITLEAARYEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  ID VGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDLVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F +
Sbjct: 302 KHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L  I    
Sbjct: 362 YLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALATIAQAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL              
Sbjct: 422 EESLGDNKPADDLLNLEGVDRDLAFKLAARGVCTLEDLAEQGIDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   ++  ++I+ AR  + W   E
Sbjct: 472 -------GLTDEKAGALIMAAR-NICWFGDE 494


>gi|56460077|ref|YP_155358.1| transcription elongation factor NusA [Idiomarina loihiensis L2TR]
 gi|56179087|gb|AAV81809.1| Transcription elongation factor NusA [Idiomarina loihiensis L2TR]
          Length = 499

 Score =  603 bits (1556), Expect = e-170,   Method: Composition-based stats.
 Identities = 205/516 (39%), Positives = 324/516 (62%), Gaps = 23/516 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK++ R+ +   +  ++  A +  Y    ++R++I+  TG+   FR 
Sbjct: 2   SKEILLVAEAVSNEKAVPREKIFEALESALAHATKKKYDGDIEVRIDIDRTTGEFDTFRR 61

Query: 66  LEVVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             VVE+    +E+   +ISL  A+  DPS+  G  V + +  + F R+  Q+AKQVI+QK
Sbjct: 62  WLVVEDTDSGLEHPYREISLSAAQYEDPSVQAGDYVEEQIDSIQFDRITTQTAKQVIVQK 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGD 180
           VREAER +   E++++VGE++SG VKR    +VI+DLGN ++ +I RDE + RE++RPGD
Sbjct: 122 VREAERAQVVDEYREQVGEMVSGIVKRANREHVILDLGNNAEAIIYRDEMLPRESVRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R++  +YDVR E RG Q+ +SRT+P F+++LF +EVPEI   +++++  +RDPGSRAK+A
Sbjct: 182 RIRGLLYDVRPEARGAQLFVSRTNPNFLLELFRIEVPEIGEEMIELRGAARDPGSRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDPVGACVGMRG+RVQAV  EL  E++DIV+W  + A +VINA+ PA V  +V
Sbjct: 242 VKSNDKRIDPVGACVGMRGARVQAVSGELGGERVDIVLWDDNPAQYVINAMAPAEVASIV 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V  + L+ AIG+ GQNVRLASQLTGWT++++TE+E +   + +      
Sbjct: 302 VDEDAHTMDIAVAADNLAQAIGKGGQNVRLASQLTGWTLNVMTEDEFNEKNEAETQRLLN 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F+  +++DE  A++LV EGF+ +EE+A V ++E   IEG DE+   E++ RAR YL   
Sbjct: 362 LFVSTLDIDEDFANVLVDEGFSSLEEVAYVPVAEFLDIEGMDEDIVEELRSRARAYLTTK 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  ++ +      + L ++ G++  +   L   G+ T+E+LA   VDDL    E     
Sbjct: 422 ALATEESLESAEPDDTLLNLEGMERHLAYVLASKGVTTLEELAEQGVDDLADIEE----- 476

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                         + Q   +I+ AR  + W  +E+
Sbjct: 477 ------------LNEQQAGDLIMKAR-NICWFNEEQ 499


>gi|148556720|ref|YP_001264302.1| transcription elongation factor NusA [Sphingomonas wittichii RW1]
 gi|148501910|gb|ABQ70164.1| NusA antitermination factor [Sphingomonas wittichii RW1]
          Length = 529

 Score =  603 bits (1556), Expect = e-170,   Method: Composition-based stats.
 Identities = 289/526 (54%), Positives = 384/526 (73%), Gaps = 14/526 (2%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SANR ELL IADAVA EK IDR++V+  M D+IQ+AAR+ YG  +DIR +I+ +TGD+ 
Sbjct: 5   ISANRAELLAIADAVAREKLIDREIVIEAMEDAIQRAARARYGAENDIRAKIDGKTGDMR 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+R++EVVE+V++Y  Q+S+  A+       IG  + DPLPP++FGR+A Q+AKQVI QK
Sbjct: 65  LWRVVEVVEQVDDYFKQVSVADAQKLQKDAAIGDFIVDPLPPIEFGRIAAQAAKQVIFQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+RQY EFKD+  EII+G VKRVE+G+V+VDLG ++GVIRRD+ I RE +R GDR
Sbjct: 125 VRDAERERQYEEFKDRANEIITGVVKRVEFGHVVVDLGRAEGVIRRDQQIPREVVRVGDR 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+S I  VRRE RGPQ+ LSR HP+FM KLF  EVPEIY+GI+++KA +RDPGSRAK+ V
Sbjct: 185 VRSLILSVRRENRGPQIFLSRAHPEFMKKLFAQEVPEIYDGIIEIKAAARDPGSRAKIGV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D SIDPVGACVGM+GSRVQAVV E++ EKIDI+ WSPD+ATFV+NAL+PA V++VV+
Sbjct: 245 ISHDGSIDPVGACVGMKGSRVQAVVQEMQGEKIDIIPWSPDTATFVVNALQPAQVSRVVI 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  RIEV+VP +QLSLAIGRRGQNVRLASQLTG  IDI+TE + S  RQK+F + ++ 
Sbjct: 305 DEEEERIEVVVPDDQLSLAIGRRGQNVRLASQLTGKAIDILTEADASEKRQKEFLQNSEM 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F   ++VDE +A LLVAEGF  +EE+A V++ E+ASIEGFDEE   E+Q RA+E LE  +
Sbjct: 365 FQNELDVDETLAQLLVAEGFGALEEVAYVELDELASIEGFDEELGAELQSRAQEALERRE 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSE------ 475
              +++ R LGV + L  +P +   + V LG+ GIKT++DLA  + D+L+          
Sbjct: 425 AAAREERRSLGVEDALAELPYLTEAMLVTLGKAGIKTLDDLADLATDELIQKKRPEQRRR 484

Query: 476 ------NKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  +G   E   G L+  G  ++Q   +I+ AR    W   E
Sbjct: 485 QNSDRPERGDREENKGGVLAEYGLSEEQGNEIIMAARAH--WFTDE 528


>gi|300718578|ref|YP_003743381.1| transcription elongation protein [Erwinia billingiae Eb661]
 gi|299064414|emb|CAX61534.1| Transcription elongation protein [Erwinia billingiae Eb661]
          Length = 495

 Score =  603 bits (1555), Expect = e-170,   Method: Composition-based stats.
 Identities = 203/511 (39%), Positives = 318/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RV I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALESALATATKKKYEQEIEVRVSIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +V+EV   T +I+L  AR  D ++++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVIVDEVTMPTREITLDAARYEDEALNLGEYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+ + GEII+G VK+V   N+ +DLG N++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDQFRQQEGEIITGVVKKVNRDNISLDLGSNAEAVIIREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYAVRPEARGAQLFVSRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLA+QL+GW ++++T ++     Q + +     F +
Sbjct: 302 NHTMDIAVEAGNLAQAIGRNGQNVRLAAQLSGWELNVMTVDDLQAKHQAEAHAAIDVFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V I+E+  I+G DEET   ++ RA+  L  + +  
Sbjct: 362 HLDIDEDFATVLVEEGFSSLEELAYVPINELLEIDGLDEETVEALRDRAKNALTTLALAK 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +E+L ++ G+D ++   L   G+ T+EDLA   VDDL              
Sbjct: 422 EESLGDNQPAEDLLNLEGLDRELAFKLAAIGVCTLEDLAEQGVDDLTDIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   +Q   +I+ AR  + W   +
Sbjct: 472 -------GLNDEQAGELIMAAR-NICWFGDD 494


>gi|85058354|ref|YP_454056.1| transcription elongation factor NusA [Sodalis glossinidius str.
           'morsitans']
 gi|84778874|dbj|BAE73651.1| transcription pausing L factor [Sodalis glossinidius str.
           'morsitans']
          Length = 495

 Score =  603 bits (1555), Expect = e-170,   Method: Composition-based stats.
 Identities = 203/510 (39%), Positives = 312/510 (61%), Gaps = 19/510 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    ++RV I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKAVPREKIFEALETALATATKKKYEQEIEVRVSIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +V+EV   T +I+L  A+  DP+  IGG + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLIVDEVTQPTREITLDAAQFDDPTAQIGGYIEDEIESVVFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+   GEI++G VK+V   ++ +DLG N++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDQFRSHEGEIVTGVVKKVNRDSISLDLGSNAEAVIGREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ +SR+ P+ +V+LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYSVRPEARGAQLFVSRSRPEMLVELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T E+     Q + +     F +
Sbjct: 302 KHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVEDLQAKHQAEAHAAIDIFTR 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V I+E+  IEG DEET   ++ RA+  L  + +  
Sbjct: 362 NLDIDEEFATVLVEEGFSSLEELAYVPINELLEIEGLDEETVEALRERAKNALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++       +E+L  +P ++  +   L   G+ T+EDLA   VDDL              
Sbjct: 422 EENRGAGVPAEDLLGLPELERDMAFKLAARGVCTLEDLAEQGVDDLTDIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                  G   ++   +I+ AR  + W   
Sbjct: 472 -------GLSSEKAGELIMAAR-NICWFGD 493


>gi|317046740|ref|YP_004114388.1| transcription termination factor NusA [Pantoea sp. At-9b]
 gi|316948357|gb|ADU67832.1| transcription termination factor NusA [Pantoea sp. At-9b]
          Length = 495

 Score =  603 bits (1555), Expect = e-170,   Method: Composition-based stats.
 Identities = 200/511 (39%), Positives = 316/511 (61%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+  +GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVSIDRRSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +V+EV   T +I+L+ AR  D + ++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLIVDEVTQPTREITLEAARFEDEAFNLGDFVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+++ G+II+G VK+V   N+ +DLG N++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDQFREQEGDIITGVVKKVNRDNITLDLGSNAEAVIVREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F +
Sbjct: 302 NHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDMFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V I+E+  I+G DE+T   ++ RA+  L  + +  
Sbjct: 362 HLDIDEEFATILVEEGFSSLEELAYVPINELLEIDGLDEDTVEALRERAKNALTTLALAK 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++       +E+L ++ G+D  +   L   G+ T+EDLA   VDDL              
Sbjct: 422 EESRGNQEPAEDLLNLEGLDRALAYRLAAIGVCTLEDLAEQGVDDLTDIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   ++  ++I+ AR  + W   +
Sbjct: 472 -------GLDDEKAGALIMAAR-NICWFGDD 494


>gi|161506147|ref|YP_001573259.1| transcription elongation factor NusA [Salmonella enterica subsp.
           arizonae serovar 62:z4,z23:-- str. RSK2980]
 gi|160867494|gb|ABX24117.1| hypothetical protein SARI_04337 [Salmonella enterica subsp.
           arizonae serovar 62:z4,z23:--]
          Length = 500

 Score =  602 bits (1554), Expect = e-170,   Method: Composition-based stats.
 Identities = 201/516 (38%), Positives = 318/516 (61%), Gaps = 24/516 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLIVEEVTMPTKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPG 179
           ER     +F+D+ GEI++G VK+V   N+ +++      GN++ VI R++ + REN RPG
Sbjct: 122 ERAMVVDQFRDQEGEIVTGVVKKVNRDNISLEIKSEGMAGNAEAVILREDMLPRENFRPG 181

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR++  +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+
Sbjct: 182 DRIRGVLYAVRPEARGAQLFVTRSRPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKI 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +
Sbjct: 242 AVKTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASI 301

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           V+DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +   
Sbjct: 302 VVDEDKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAETHAAI 361

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + F + +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  
Sbjct: 362 EIFTKHLDIDEEFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALAT 421

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           +    ++ + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL         
Sbjct: 422 LAQAQEESLGDNKPADDLLNLEGLDRDMAFKLAARGVCTLEDLADQGIDDLADIE----- 476

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                       G   ++   +I+ AR  + W   E
Sbjct: 477 ------------GLTDEKAGELIMAAR-NICWFGDE 499


>gi|146313241|ref|YP_001178315.1| transcription elongation factor NusA [Enterobacter sp. 638]
 gi|145320117|gb|ABP62264.1| NusA antitermination factor [Enterobacter sp. 638]
          Length = 495

 Score =  602 bits (1552), Expect = e-170,   Method: Composition-based stats.
 Identities = 205/511 (40%), Positives = 314/511 (61%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEV   T +I+L+ AR  D S ++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVIVEEVTQPTKEITLEAARYEDESFNVGEYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+   GEII+G VK+V   N+ +DLG N++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDQFRSHEGEIITGVVKKVNRDNIALDLGSNAEAVILREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+  + +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYAVRPEARGAQLFVTRSKAEMLIELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV TEL  E+IDI++W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSTELGGERIDIILWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F +
Sbjct: 302 KHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWDLNVMTVDDLQAKHQAEAHAAIATFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + +DE  A +LV EGF+ +EELA V I E+  I+G DE T   ++ RA+  L  + +  
Sbjct: 362 YLEIDEDFATVLVEEGFSSLEELAYVPIKELLEIDGLDEATVEALRERAKNALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++ G+D  I   L  +G+ T+EDLA   VDDL              
Sbjct: 422 EESLGDNKPADDLLNLEGLDRAIAFKLAAHGVCTLEDLAEQGVDDLADIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   ++   +I+ AR  + W   E
Sbjct: 472 -------GLTDEKAGELIMAAR-NICWFGDE 494


>gi|242240750|ref|YP_002988931.1| transcription elongation factor NusA [Dickeya dadantii Ech703]
 gi|242132807|gb|ACS87109.1| NusA antitermination factor [Dickeya dadantii Ech703]
          Length = 496

 Score =  602 bits (1552), Expect = e-170,   Method: Composition-based stats.
 Identities = 204/510 (40%), Positives = 316/510 (61%), Gaps = 19/510 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKAVPREKIFEALETALATATKKKYEQDIDVRVCIDRKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV EV   T +I+L+ A+  +P +D+GG + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVNEVTQPTREITLEAAQFEEPEVDLGGYIEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+++ GEI++G VK+V   N+ +DLG N++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDQFREQEGEIVTGVVKKVNRDNITLDLGSNAEAVIGREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYAVRPEARGAQLFVSRSRPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T E+     Q + +     F +
Sbjct: 302 KHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTIEDLQAKHQAEAHAAIDVFTR 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A  LV EGF+ +EELA V I+E+  I+G DEET   ++ RA+  L  + +  
Sbjct: 362 YLDIDEEFATALVEEGFSSLEELAYVPITELQEIDGLDEETIEALRERAKAALTTLALAR 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++       +E+L ++ G+  ++   L   G+ T+EDLA   VDDL              
Sbjct: 422 EENRGAGQPAEDLLNLAGLPREMAFTLAARGVCTLEDLAEQGVDDLTDID---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                  G  +++   +I+ AR  + W   
Sbjct: 472 -------GLNEERAGELIMAAR-NICWFGD 493


>gi|283836285|ref|ZP_06356026.1| L factor [Citrobacter youngae ATCC 29220]
 gi|291067648|gb|EFE05757.1| L factor [Citrobacter youngae ATCC 29220]
          Length = 500

 Score =  601 bits (1550), Expect = e-169,   Method: Composition-based stats.
 Identities = 203/516 (39%), Positives = 318/516 (61%), Gaps = 24/516 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVIVEEVTQPTKEITLEAARFEDESLNVGEYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPG 179
           ER     +F+D+ GEI++G VK+V   N+ +++      GN++ VI R++ + REN RPG
Sbjct: 122 ERAMVVDQFRDQEGEIVTGVVKKVNRDNISLEIKSEGMAGNAEAVILREDMLPRENFRPG 181

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR++  +Y VR E RG Q+ ++R+ P+ +V+LF +EVPEI   ++++KA +RDPGSRAK+
Sbjct: 182 DRIRGVLYAVRPEARGAQLFVTRSKPEMLVELFRIEVPEIGEEVIEIKAAARDPGSRAKI 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +
Sbjct: 242 AVKTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASI 301

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           V+DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +   
Sbjct: 302 VVDEDKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAI 361

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             F + +++DE  A +LV EGFA +EELA V + E+  I+G DE T   ++ RA+  L  
Sbjct: 362 DTFTKYLDIDEDFATVLVEEGFATLEELAYVPMKELLEIDGLDEPTVEALRERAKNALTT 421

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           + +  ++ + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL         
Sbjct: 422 LALAQEESLGDNKPADDLLNLEGLDRDMAFKLAARGVCTLEDLAEQGIDDLADIE----- 476

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                       G   ++   +I+ AR  + W   E
Sbjct: 477 ------------GLTDEKAGELIMAAR-NICWFGDE 499


>gi|292486836|ref|YP_003529706.1| transcription elongation protein nusA [Erwinia amylovora CFBP1430]
 gi|292900766|ref|YP_003540135.1| transcription elongation protein [Erwinia amylovora ATCC 49946]
 gi|291200614|emb|CBJ47746.1| transcription elongation protein [Erwinia amylovora ATCC 49946]
 gi|291552253|emb|CBA19290.1| Transcription elongation protein nusA [Erwinia amylovora CFBP1430]
 gi|312170904|emb|CBX79163.1| Transcription elongation protein nusA [Erwinia amylovora ATCC
           BAA-2158]
          Length = 501

 Score =  601 bits (1550), Expect = e-169,   Method: Composition-based stats.
 Identities = 203/517 (39%), Positives = 318/517 (61%), Gaps = 25/517 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALESALATATKKKYEQEIDVRVSIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +V+EV   T +I+L+ A   D S+ +GG V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLIVDEVTQPTREITLEAALYEDESLSLGGFVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-------NSDGVIRRDETISRENLRP 178
           ER     +F+++ GEII+G VK+V   N+ +++        N++ VI R++ + REN RP
Sbjct: 122 ERAMVVDQFREQEGEIITGVVKKVNRDNISLEVRPNDGSNTNAEAVIIREDMLPRENFRP 181

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDR++  +Y VR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK
Sbjct: 182 GDRIRGVLYAVRPEARGAQLFVSRSKPEMLIELFRIEVPEIAEEVLEIKAAARDPGSRAK 241

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  
Sbjct: 242 IAVKTNDKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVAS 301

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +  
Sbjct: 302 IVVDEDNHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWDLNVMTVDDLQAKHQAEAHAA 361

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
              F + +++DE  A LLV EGF+ +EELA V I+E+  I+G DEET   ++ RA+  L 
Sbjct: 362 IDVFTKHLDIDEDFATLLVEEGFSSLEELAYVPINELLEIDGLDEETVEALRDRAKNALT 421

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + +  ++ + +   +E+L S+ G++ ++   L   G+ T+EDLA   VDDL        
Sbjct: 422 TLALAKEESLGDTQPAEDLLSLEGLERELAFKLAAKGVCTLEDLAEQGVDDLSDID---- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                        G   ++   +I+ AR  + W   +
Sbjct: 478 -------------GLSNERAGELIMAAR-NICWFGDD 500


>gi|168237988|ref|ZP_02663046.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Schwarzengrund str.
           SL480]
 gi|194733934|ref|YP_002116237.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Schwarzengrund str. CVM19633]
 gi|194709436|gb|ACF88657.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Schwarzengrund str.
           CVM19633]
 gi|197289151|gb|EDY28520.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Schwarzengrund str.
           SL480]
          Length = 500

 Score =  600 bits (1549), Expect = e-169,   Method: Composition-based stats.
 Identities = 201/516 (38%), Positives = 317/516 (61%), Gaps = 24/516 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLIVEEVTMPTKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPG 179
           ER     +F+D+ GEI++G VK+V   N+ +++      GN++ VI R++ + REN RPG
Sbjct: 122 ERAMVVDQFRDQEGEIVTGVVKKVNRDNISLEIKSEGMAGNAEAVILREDMLPRENFRPG 181

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR++  +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+
Sbjct: 182 DRIRGVLYAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKI 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +
Sbjct: 242 AVKTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASI 301

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           V+DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +   
Sbjct: 302 VVDEDKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAI 361

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + F + +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  
Sbjct: 362 EIFTKYLDIDEEFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALTT 421

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           +    +  + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL         
Sbjct: 422 LAQDQEASLGDNKPADDLLNLEGLDRDMAFKLAARGVCTLEDLADQGIDDLADIE----- 476

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                       G   ++   +I+ AR  + W   E
Sbjct: 477 ------------GLTDEKAGELIMAAR-NICWFGDE 499


>gi|296114401|ref|ZP_06833055.1| transcription elongation factor NusA [Gluconacetobacter hansenii
           ATCC 23769]
 gi|295979162|gb|EFG85886.1| transcription elongation factor NusA [Gluconacetobacter hansenii
           ATCC 23769]
          Length = 516

 Score =  600 bits (1547), Expect = e-169,   Method: Composition-based stats.
 Identities = 287/523 (54%), Positives = 376/523 (71%), Gaps = 16/523 (3%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
            S +R ELL +ADAVA EKSIDR+ VL  M  +IQKA R+ YG   DIR  I+ +TGD+ 
Sbjct: 3   TSVSRPELLLVADAVAREKSIDREEVLEAMEQAIQKAGRAKYGHEKDIRATIDRKTGDVR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R  E VEEVEN   QI L +AR   P I +G  + DPLPP+DFGR+A Q+AKQVI+Q+
Sbjct: 63  LSRWTEAVEEVENEETQIPLHIARKFRPEIQLGEHLIDPLPPIDFGRIAAQTAKQVIVQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VRE ER RQY +FKD+VGEI++GTVKR EYGN++V++G+S+ ++RRDE I RE+ R  DR
Sbjct: 123 VREYERKRQYNDFKDRVGEIVNGTVKRTEYGNLMVEIGSSEALLRRDELIPRESFRNSDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YIYDVR E RGPQ+ LSRTHP F+ KLF  EVPEIY+GI+++KAV+RDPGSRAK+AV
Sbjct: 183 VRAYIYDVRDEPRGPQIFLSRTHPAFLAKLFAQEVPEIYDGIIEIKAVARDPGSRAKMAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSP +ATFV+NAL PA V+KVV+
Sbjct: 243 ISRDASIDPVGACVGMRGSRVQAVVQELQGEKIDIIPWSPQAATFVVNALAPAEVSKVVM 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+ GR+EV+VP EQLSLAIGRRGQNVRLASQLT W IDI+TE E+S  RQ++F  R+  
Sbjct: 303 DEEAGRVEVVVPDEQLSLAIGRRGQNVRLASQLTRWDIDILTEAEESERRQEEFRRRSNQ 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F++A++VD++IA LLV EGF  +EELA     E+A IEGFDE+ A E+  RA  +L   +
Sbjct: 363 FVEALDVDDVIAGLLVTEGFHSIEELAFADADELAGIEGFDEDVASELVRRAEGFLARRE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             + +K R LGVS+++ ++     ++ V LGE G+KT++DLA  + D+L+          
Sbjct: 423 EEMDEKRRALGVSDDIAALGVFTVQMLVTLGEKGVKTLDDLADLAGDELVD--------- 473

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQD 524
                 L      ++    +I+ AR    W E ++   +E  +
Sbjct: 474 -----ILGGDAIDEEAANEIIMAARAH--WFEGDESGADEAPE 509


>gi|16766585|ref|NP_462200.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhimurium str. LT2]
 gi|56415219|ref|YP_152294.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Paratyphi A str. ATCC 9150]
 gi|62181798|ref|YP_218215.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Choleraesuis str. SC-B67]
 gi|161616293|ref|YP_001590258.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Paratyphi B str. SPB7]
 gi|167552065|ref|ZP_02345818.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Saintpaul str. SARA29]
 gi|167990148|ref|ZP_02571248.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar 4,[5],12:i:- str.
           CVM23701]
 gi|168231896|ref|ZP_02656954.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Kentucky str. CDC 191]
 gi|168243121|ref|ZP_02668053.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Heidelberg str. SL486]
 gi|168262702|ref|ZP_02684675.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Hadar str. RI_05P066]
 gi|168463490|ref|ZP_02697407.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Newport str. SL317]
 gi|168819644|ref|ZP_02831644.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Weltevreden str.
           HI_N05-537]
 gi|194442917|ref|YP_002042544.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Newport str. SL254]
 gi|194450306|ref|YP_002047316.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Heidelberg str. SL476]
 gi|194469393|ref|ZP_03075377.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Kentucky str. CVM29188]
 gi|197248686|ref|YP_002148213.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Agona str. SL483]
 gi|197265797|ref|ZP_03165871.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Saintpaul str. SARA23]
 gi|197364149|ref|YP_002143786.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Paratyphi A str. AKU_12601]
 gi|198243925|ref|YP_002217260.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Dublin str. CT_02021853]
 gi|200388465|ref|ZP_03215077.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Virchow str. SL491]
 gi|204928046|ref|ZP_03219246.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Javiana str.
           GA_MM04042433]
 gi|207858537|ref|YP_002245188.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Enteritidis str. P125109]
 gi|224585085|ref|YP_002638884.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Paratyphi C strain RKS4594]
 gi|238910082|ref|ZP_04653919.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Tennessee str. CDC07-0191]
 gi|20141550|sp|P37430|NUSA_SALTY RecName: Full=Transcription elongation protein nusA; AltName:
           Full=L factor; AltName: Full=N utilization substance
           protein A
 gi|16421846|gb|AAL22159.1| L factor [Salmonella enterica subsp. enterica serovar Typhimurium
           str. LT2]
 gi|56129476|gb|AAV78982.1| L factor [Salmonella enterica subsp. enterica serovar Paratyphi A
           str. ATCC 9150]
 gi|62129431|gb|AAX67134.1| transcription pausing; L factor [Salmonella enterica subsp.
           enterica serovar Choleraesuis str. SC-B67]
 gi|161365657|gb|ABX69425.1| hypothetical protein SPAB_04099 [Salmonella enterica subsp.
           enterica serovar Paratyphi B str. SPB7]
 gi|194401580|gb|ACF61802.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Newport str. SL254]
 gi|194408610|gb|ACF68829.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Heidelberg str. SL476]
 gi|194455757|gb|EDX44596.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Kentucky str. CVM29188]
 gi|195633199|gb|EDX51613.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Newport str. SL317]
 gi|197095626|emb|CAR61194.1| L factor [Salmonella enterica subsp. enterica serovar Paratyphi A
           str. AKU_12601]
 gi|197212389|gb|ACH49786.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Agona str. SL483]
 gi|197244052|gb|EDY26672.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Saintpaul str. SARA23]
 gi|197938441|gb|ACH75774.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Dublin str.
           CT_02021853]
 gi|199605563|gb|EDZ04108.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Virchow str. SL491]
 gi|204322368|gb|EDZ07565.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Javiana str.
           GA_MM04042433]
 gi|205323222|gb|EDZ11061.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Saintpaul str. SARA29]
 gi|205331138|gb|EDZ17902.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar 4,[5],12:i:- str.
           CVM23701]
 gi|205333927|gb|EDZ20691.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Kentucky str. CDC 191]
 gi|205337851|gb|EDZ24615.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Heidelberg str. SL486]
 gi|205343493|gb|EDZ30257.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Weltevreden str.
           HI_N05-537]
 gi|205348590|gb|EDZ35221.1| transcription termination/antitermination factor NusA [Salmonella
           enterica subsp. enterica serovar Hadar str. RI_05P066]
 gi|206710340|emb|CAR34698.1| L factor [Salmonella enterica subsp. enterica serovar Enteritidis
           str. P125109]
 gi|224469613|gb|ACN47443.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Paratyphi C strain RKS4594]
 gi|261248453|emb|CBG26290.1| L factor [Salmonella enterica subsp. enterica serovar Typhimurium
           str. D23580]
 gi|267995484|gb|ACY90369.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhimurium str. 14028S]
 gi|301159837|emb|CBW19356.1| transcription termination/antitermination L factor [Salmonella
           enterica subsp. enterica serovar Typhimurium str.
           SL1344]
 gi|312914313|dbj|BAJ38287.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhimurium str. T000240]
 gi|320087734|emb|CBY97498.1| Transcription elongation protein nusA N utilization substance
           protein A; L factor [Salmonella enterica subsp. enterica
           serovar Weltevreden str. 2007-60-3289-1]
 gi|321225971|gb|EFX51025.1| Transcription termination protein NusA [Salmonella enterica subsp.
           enterica serovar Typhimurium str. TN061786]
 gi|322615292|gb|EFY12213.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 315996572]
 gi|322618349|gb|EFY15240.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 495297-1]
 gi|322622846|gb|EFY19690.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 495297-3]
 gi|322626832|gb|EFY23629.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 495297-4]
 gi|322631401|gb|EFY28161.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 515920-1]
 gi|322635332|gb|EFY32046.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 515920-2]
 gi|322643467|gb|EFY40030.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 531954]
 gi|322647097|gb|EFY43598.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. NC_MB110209-0054]
 gi|322648900|gb|EFY45345.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. OH_2009072675]
 gi|322655092|gb|EFY51403.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. CASC_09SCPH15965]
 gi|322657695|gb|EFY53963.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 19N]
 gi|322664191|gb|EFY60389.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 81038-01]
 gi|322667474|gb|EFY63636.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. MD_MDA09249507]
 gi|322674722|gb|EFY70814.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 414877]
 gi|322675645|gb|EFY71718.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 366867]
 gi|322682281|gb|EFY78304.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 413180]
 gi|322684884|gb|EFY80882.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 446600]
 gi|322716285|gb|EFZ07856.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Choleraesuis str. A50]
 gi|323131647|gb|ADX19077.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhimurium str. 4/74]
 gi|323191869|gb|EFZ77117.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 609458-1]
 gi|323199028|gb|EFZ84125.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 556150-1]
 gi|323204272|gb|EFZ89281.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 609460]
 gi|323207619|gb|EFZ92566.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 507440-20]
 gi|323211328|gb|EFZ96172.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 556152]
 gi|323214730|gb|EFZ99479.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. MB101509-0077]
 gi|323221210|gb|EGA05636.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. MB102109-0047]
 gi|323224049|gb|EGA08342.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. MB110209-0055]
 gi|323230302|gb|EGA14421.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. MB111609-0052]
 gi|323233278|gb|EGA17372.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 2009083312]
 gi|323239315|gb|EGA23365.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 2009085258]
 gi|323242434|gb|EGA26460.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. 315731156]
 gi|323246944|gb|EGA30910.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. IA_2009159199]
 gi|323254123|gb|EGA37943.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. IA_2010008282]
 gi|323255240|gb|EGA39017.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. IA_2010008283]
 gi|323262703|gb|EGA46259.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. IA_2010008284]
 gi|323264013|gb|EGA47521.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. IA_2010008285]
 gi|323269399|gb|EGA52854.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Montevideo str. IA_2010008287]
 gi|326625038|gb|EGE31383.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Dublin str. 3246]
 gi|332990145|gb|AEF09128.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhimurium str. UK-1]
          Length = 500

 Score =  600 bits (1547), Expect = e-169,   Method: Composition-based stats.
 Identities = 201/516 (38%), Positives = 317/516 (61%), Gaps = 24/516 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLIVEEVTMPTKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPG 179
           ER     +F+D+ GEI++G VK+V   N+ +++      GN++ VI R++ + REN RPG
Sbjct: 122 ERAMVVDQFRDQEGEIVTGVVKKVNRDNISLEIKSEGMAGNAEAVILREDMLPRENFRPG 181

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR++  +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+
Sbjct: 182 DRIRGVLYAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKI 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +
Sbjct: 242 AVKTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASI 301

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           V+DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +   
Sbjct: 302 VVDEDKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAI 361

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + F + +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  
Sbjct: 362 EIFTKYLDIDEEFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALAT 421

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           +    +  + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL         
Sbjct: 422 LAQDQEASLGDNKPADDLLNLEGLDRDMAFKLAARGVCTLEDLADQGIDDLADIE----- 476

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                       G   ++   +I+ AR  + W   E
Sbjct: 477 ------------GLTDEKAGELIMAAR-NICWFGDE 499


>gi|71908071|ref|YP_285658.1| transcription elongation factor NusA [Dechloromonas aromatica RCB]
 gi|71847692|gb|AAZ47188.1| NusA antitermination factor [Dechloromonas aromatica RCB]
          Length = 490

 Score =  600 bits (1547), Expect = e-169,   Method: Composition-based stats.
 Identities = 210/508 (41%), Positives = 330/508 (64%), Gaps = 23/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++ +++V   +  ++  A +      +D+R+ I+ +TG    FR  +
Sbjct: 4   EILLLVDALAREKNVSKEIVFGALELALASATKKRINDEADVRISIDRDTGSFESFRRWQ 63

Query: 68  VVEEVE--NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV + E  N   +I L  A+  DP I+ G  + +PL P+DFGR+  Q+AKQVI+QK+R+A
Sbjct: 64  VVPDNEYVNEFLEIPLSDAQKDDPEIEPGDSLEEPLEPIDFGRIGAQAAKQVILQKIRDA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F  +   ++SGT+KR+E GN I++ G  + ++ RD+ I +ENLR GDRV++Y
Sbjct: 124 EREQILADFLGRGEHVVSGTIKRMERGNAIIEAGKIEAMLPRDQMIPKENLRVGDRVRAY 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  + R  RGPQ++LSRT P+F++KLF MEVPEI +G++++KA +RDPG RAK+AV S+D
Sbjct: 184 LLRIDRNARGPQIILSRTAPEFVIKLFDMEVPEISDGLMELKACARDPGLRAKIAVKSND 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DP+G CVG+RGSRV AV  E+  E IDIV+WS D A FVI AL PA V+ +V+DE+ 
Sbjct: 244 PRVDPIGTCVGLRGSRVTAVRNEIGGENIDIVLWSADPAQFVIGALSPAEVSSIVVDEEK 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++V+V ++ L++AIGR GQNVRLAS+LTGWTI+++T++E +   + +F E    FM+ 
Sbjct: 304 HAMDVVVDEDNLAIAIGRNGQNVRLASELTGWTINLMTQDESAKKSEAEFAETRVVFMEK 363

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           +++DE +A LL+ EGF+ +EE+A V ++E+  IEG DEE   E++ RAR  L    I  +
Sbjct: 364 LDIDEELADLLIEEGFSTLEEVAYVPLAEMLEIEGLDEEIVNELRNRARNVLLTEAIATE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFD 485
           +K+    VSE+L  + G+  ++   L  + +KT +DLA  +VD+L   +           
Sbjct: 424 EKLE--SVSEDLIGLEGMSKELAAKLAGHDVKTRDDLAELAVDELTEMT----------- 470

Query: 486 GFLSSLGTPKDQVESMIIHARYKMGWIE 513
                 G   ++ + +I+ AR    W E
Sbjct: 471 ------GIDDERAKDLILKARAH--WFE 490


>gi|320540176|ref|ZP_08039831.1| putative transcription termination/antitermination L factor
           [Serratia symbiotica str. Tucson]
 gi|320029842|gb|EFW11866.1| putative transcription termination/antitermination L factor
           [Serratia symbiotica str. Tucson]
          Length = 502

 Score =  600 bits (1547), Expect = e-169,   Method: Composition-based stats.
 Identities = 200/517 (38%), Positives = 311/517 (60%), Gaps = 26/517 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIDVRVSIDRKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV   T +I+L+ A+  +P  ++GG + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVVVDEVTQPTREITLEAAQYEEPDTELGGYIEDQIDSVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER      F++  GEI++G VK+V   ++ +DLG N++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDAFREHEGEIVTGVVKKVNRDSIALDLGSNAEAVIGREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ +SR+ P+ + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYAVRPEARGAQLFVSRSSPEMLKELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDI++W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIILWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTG-------WTIDIITEEEDSINRQKDFNE 357
              +++ V    L+ AIGR GQNVRLASQL         W ++++T ++  +  Q + + 
Sbjct: 302 NCTMDIAVEASNLAQAIGRNGQNVRLASQLLKQHRDDDRWELNVMTADDLQVKHQAEAHA 361

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F + +++DE  A +LV EGF+ +EELA V I E+  I+G DE+T   ++ RAR   
Sbjct: 362 AIDTFTKYLDIDEDFATVLVEEGFSTLEELAYVPIKELLEIDGLDEDTVEALRDRARAAS 421

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
             + +  ++ +     +E+L ++PG++  +   L   G+ T+EDLA   VDDL       
Sbjct: 422 TTLALAQKESLGGQEPAEDLLNLPGLERSMAFKLAARGVGTLEDLAEQGVDDLADIE--- 478

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                         G    Q   +I+ +R  + W   
Sbjct: 479 --------------GLSNQQAGELIMASR-NICWFGD 500


>gi|188532503|ref|YP_001906300.1| transcription elongation factor NusA [Erwinia tasmaniensis Et1/99]
 gi|188027545|emb|CAO95392.1| Transcription elongation protein NusA (N utilization substance
           protein A) [Erwinia tasmaniensis Et1/99]
          Length = 501

 Score =  599 bits (1546), Expect = e-169,   Method: Composition-based stats.
 Identities = 203/517 (39%), Positives = 317/517 (61%), Gaps = 25/517 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALESALATATKKKYEQEIDVRVSIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +V+EV   T +I+L+ A   D S  +GG V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLIVDEVTQPTREITLEAALYEDESFSLGGFVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-------NSDGVIRRDETISRENLRP 178
           ER     +F+++ GEII+G VK+V   N+ +++        N++ VI R++ + REN RP
Sbjct: 122 ERAMVVDQFREQEGEIITGVVKKVSRDNISLEVRPNDGSSTNAEAVIIREDMLPRENFRP 181

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDR++  +Y VR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK
Sbjct: 182 GDRIRGVLYAVRPEARGAQLFVSRSKPEMLIELFRIEVPEIAEEVLEIKAAARDPGSRAK 241

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  
Sbjct: 242 IAVKTNDKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVAS 301

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +  
Sbjct: 302 IVVDEDNHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAA 361

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
              F + +++DE  A LLV EGF+ +EELA V I+E+  I+G DEET   ++ RA+  L 
Sbjct: 362 IDVFTKHLDIDEDFATLLVEEGFSSLEELAYVPINELLEIDGLDEETVEALRDRAKNALT 421

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + +  ++ + +   +E+L S+ G++ ++   L   G+ T+EDLA   VDDL        
Sbjct: 422 TLALAKEESLGDTQPAEDLLSLEGLERELAFKLAAKGVCTLEDLAEQGVDDLSDIE---- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                        G   ++   +I+ AR  + W   +
Sbjct: 478 -------------GLSDERAGELIMAAR-NICWFGDD 500


>gi|205354191|ref|YP_002227992.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Gallinarum str. 287/91]
 gi|205273972|emb|CAR38977.1| L factor [Salmonella enterica subsp. enterica serovar Gallinarum
           str. 287/91]
 gi|326629312|gb|EGE35655.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Gallinarum str. 9]
          Length = 500

 Score =  599 bits (1545), Expect = e-169,   Method: Composition-based stats.
 Identities = 200/516 (38%), Positives = 317/516 (61%), Gaps = 24/516 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLIVEEVTMPTKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPG 179
           ER     +F+D+ GEI++G VK+V   N+ +++      GN++ VI R++ + REN RPG
Sbjct: 122 ERAMVVDQFRDQEGEIVTGVVKKVNRDNISLEIKSEGMAGNAEAVILREDMLPRENFRPG 181

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR++  +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+
Sbjct: 182 DRIRGVLYAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKI 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA +  +
Sbjct: 242 AVKTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADIASI 301

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           V+DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +   
Sbjct: 302 VVDEDKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAI 361

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + F + +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  
Sbjct: 362 EIFTKYLDIDEEFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALAT 421

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           +    +  + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL         
Sbjct: 422 LAQDQEASLGDNKPADDLLNLEGLDRDMAFKLAARGVCTLEDLADQGIDDLADIE----- 476

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                       G   ++   +I+ AR  + W   E
Sbjct: 477 ------------GLTDEKAGELIMAAR-NICWFGDE 499


>gi|83595108|ref|YP_428860.1| transcription elongation factor NusA [Rhodospirillum rubrum ATCC
           11170]
 gi|83578022|gb|ABC24573.1| NusA antitermination factor [Rhodospirillum rubrum ATCC 11170]
          Length = 516

 Score =  599 bits (1545), Expect = e-169,   Method: Composition-based stats.
 Identities = 287/521 (55%), Positives = 385/521 (73%), Gaps = 21/521 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
           R EL+Q+AD VA +KSI+R+ V + M  +IQKA RS YG   DIR  I+ +TG+I L R 
Sbjct: 9   RPELVQVADTVARDKSIEREEVFAAMEQAIQKAGRSKYGHEHDIRARIDRKTGEIRLARY 68

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           +EVVEEVEN   QI+L  A+ +   I++G  + DPLPP+DFGR+A Q+AKQVI+QKVR+A
Sbjct: 69  IEVVEEVENEFTQITLAGAKRKKADIELGEFLVDPLPPIDFGRIAAQTAKQVIVQKVRDA 128

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+RQ+ E+KD++GEII+G VKRVE+GNVIVD+G ++ ++RRDE I RE+ + GDR+++Y
Sbjct: 129 ERERQFAEYKDRLGEIINGLVKRVEFGNVIVDMGRAEALLRRDEVIPREHFKNGDRIRAY 188

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I DVR+E RGPQ+ LSRTH QFM KLF  EVPEIY+GI+++K+V+RDPGSRAK+AV S+D
Sbjct: 189 IMDVRQEPRGPQIFLSRTHEQFMAKLFAQEVPEIYDGIIEIKSVARDPGSRAKIAVLSND 248

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            +IDPVGACVGMRGSRVQAVV EL+ EKIDI+ W+ D ATFV+NAL PA V KVVLDE+ 
Sbjct: 249 HAIDPVGACVGMRGSRVQAVVAELQGEKIDIIQWATDPATFVVNALAPAEVAKVVLDEEA 308

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            RIEV+VP EQLSLAIGRRGQNVRLAS+LTGW IDI+TE E+S  RQ +F  RTQ F++A
Sbjct: 309 NRIEVVVPDEQLSLAIGRRGQNVRLASKLTGWDIDILTEAEESERRQDEFRIRTQAFIEA 368

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VD++IAHLLV EGF  VE++A V I+E++ IEGFDE+ A E+Q RA+ +L   +   +
Sbjct: 369 LDVDDVIAHLLVTEGFTTVEDVAFVAIAELSEIEGFDEDVASELQNRAQVFLAERERLNE 428

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFD 485
           ++ +ELGV +E+  I G+ + + VALGE G+KT++DL   + D+L+              
Sbjct: 429 ERRKELGVVDEMAEIEGLTAAMLVALGEKGVKTLDDLGDLASDELIEIV----------- 477

Query: 486 GFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDAS 526
                 G  +D   ++I+ AR    W  +   A +   DA+
Sbjct: 478 -----GGLNEDDANAVIMAARAH--WFGE---AGDSADDAT 508


>gi|162147158|ref|YP_001601619.1| transcription elongation factor NusA [Gluconacetobacter
           diazotrophicus PAl 5]
 gi|209544214|ref|YP_002276443.1| transcription elongation factor NusA [Gluconacetobacter
           diazotrophicus PAl 5]
 gi|161785735|emb|CAP55306.1| Transcription elongation protein nusA [Gluconacetobacter
           diazotrophicus PAl 5]
 gi|209531891|gb|ACI51828.1| NusA antitermination factor [Gluconacetobacter diazotrophicus PAl
           5]
          Length = 523

 Score =  598 bits (1543), Expect = e-169,   Method: Composition-based stats.
 Identities = 286/511 (55%), Positives = 371/511 (72%), Gaps = 16/511 (3%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
            S +R ELL +ADAVA EK+IDR+ VL  M  +IQKA R+ YG   DIR  I+ +TGD+ 
Sbjct: 3   TSVSRPELLLVADAVAREKAIDREEVLEAMEQAIQKAGRAKYGHEKDIRATIDRKTGDVR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L R  E VEEVEN   QI L +AR   P I +G  + DPLPP+DFGR+A Q+AKQVI+Q+
Sbjct: 63  LSRWTEAVEEVENEETQIPLHIARKFKPEIQLGEHLVDPLPPIDFGRIAAQTAKQVIVQR 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VRE ER RQY EFKD+VGEI++GTVKR EYGN++V++G+S+ ++RRDE I RE+ R  DR
Sbjct: 123 VREYERKRQYDEFKDRVGEIVNGTVKRTEYGNLMVEIGSSEALLRRDELIPRESFRNSDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++YIYDVR E RGPQ+ LSRTHP F+ KLF  EVPEIY+GI+++KAV+RDPGSRAK+AV
Sbjct: 183 VRAYIYDVRDEPRGPQIFLSRTHPAFLAKLFAQEVPEIYDGIIEIKAVARDPGSRAKMAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSP +ATFV+NAL PA VTKVV+
Sbjct: 243 ISRDASIDPVGACVGMRGSRVQAVVQELQGEKIDIIPWSPQAATFVVNALAPAEVTKVVM 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+ GR+EV+VP EQLSLAIGRRGQNVRLASQLT W IDI+TE E+S  RQ++F  R+  
Sbjct: 303 DEEAGRVEVVVPDEQLSLAIGRRGQNVRLASQLTRWDIDILTEAEESERRQEEFRRRSGL 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F++A++VD++IA LLV EGF  +EELA     E+A IEGFDE+ A E+  RA  +L   +
Sbjct: 363 FVEALDVDDVIAGLLVTEGFHSIEELAYADPDELAEIEGFDEDVAGELVRRAEGFLARRE 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             L +K R LGVS+++ ++    +++ V LGE G+K+++DLA  + D+L+          
Sbjct: 423 DELDEKRRGLGVSDDVAALGVFSNQMLVTLGEKGVKSLDDLADLAGDELVE--------- 473

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
                 L      ++    +I+ AR    W 
Sbjct: 474 -----ILGGEVIDEEAANEIIMAARAH--WF 497


>gi|16762052|ref|NP_457669.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. CT18]
 gi|29143541|ref|NP_806883.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. Ty2]
 gi|213621934|ref|ZP_03374717.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. E98-2068]
 gi|213645859|ref|ZP_03375912.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. J185]
 gi|25299784|pir||AI0901 L factor [imported] - Salmonella enterica subsp. enterica serovar
           Typhi (strain CT18)
 gi|16504355|emb|CAD07807.1| L factor [Salmonella enterica subsp. enterica serovar Typhi]
 gi|29139175|gb|AAO70743.1| L factor [Salmonella enterica subsp. enterica serovar Typhi str.
           Ty2]
          Length = 500

 Score =  598 bits (1543), Expect = e-169,   Method: Composition-based stats.
 Identities = 200/516 (38%), Positives = 316/516 (61%), Gaps = 24/516 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLIVEEVTMPTKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPG 179
           ER     +F+D+ GEI++G VK+V   N+ +++      GN++ VI R++ + REN RPG
Sbjct: 122 ERAMVVDQFRDQEGEIVTGVVKKVNRDNISLEIKSEGMAGNAEAVILREDMLPRENFRPG 181

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR++  +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+
Sbjct: 182 DRIRGVLYAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKI 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +
Sbjct: 242 AVKTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASI 301

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           V+DED   +++ V    L+ AIGR GQNV LASQL+GW ++++T ++     Q + +   
Sbjct: 302 VVDEDKHTMDIAVEAGNLAQAIGRNGQNVHLASQLSGWELNVMTVDDLQAKHQAEAHAAI 361

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + F + +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  
Sbjct: 362 EIFTKYLDIDEEFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALAT 421

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           +    +  + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL         
Sbjct: 422 LAQDQEASLGDNKPADDLLNLEGLDRDMAFKLAARGVCTLEDLADQGIDDLADIE----- 476

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                       G   ++   +I+ AR  + W   E
Sbjct: 477 ------------GLTDEKAGELIMAAR-NICWFGDE 499


>gi|259907041|ref|YP_002647397.1| transcription elongation factor NusA [Erwinia pyrifoliae Ep1/96]
 gi|224962663|emb|CAX54118.1| Transcription elongation protein NusA (N utilization substance
           protein A) [Erwinia pyrifoliae Ep1/96]
 gi|283476837|emb|CAY72675.1| Transcription elongation protein nusA [Erwinia pyrifoliae DSM
           12163]
 gi|310766253|gb|ADP11203.1| transcription elongation factor NusA [Erwinia sp. Ejp617]
          Length = 501

 Score =  598 bits (1542), Expect = e-169,   Method: Composition-based stats.
 Identities = 203/517 (39%), Positives = 317/517 (61%), Gaps = 25/517 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALESALATATKKKYEQEIDVRVSIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +V+EV   T +I+L+ A   D S+ +GG V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLIVDEVTQPTREITLEAAIYEDESLSLGGFVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-------NSDGVIRRDETISRENLRP 178
           ER     +F+++ GEII+G VK+V   N+ +++        N++ VI R++ + REN RP
Sbjct: 122 ERAMVVDQFREQEGEIITGVVKKVNRDNISLEVRPNDGSNTNAEAVIIREDMLPRENFRP 181

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDR++  +Y VR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK
Sbjct: 182 GDRIRGVLYAVRPEARGAQLFVSRSKPEMLIELFRIEVPEIAEEVLEIKAAARDPGSRAK 241

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  
Sbjct: 242 IAVKTNDKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVAS 301

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +  
Sbjct: 302 IVVDEDNHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWDLNVMTVDDLQAKHQAEAHAA 361

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
              F + +++DE  A LLV EGF+ +EELA V I E+  I+G DEET   ++ RA+  L 
Sbjct: 362 IDVFTKHLDIDEDFATLLVEEGFSSLEELAYVPIKELLEIDGLDEETVEALRDRAKNALT 421

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + +  ++ + +   +E+L S+ G++ ++   L   G+ T+EDLA   VDDL        
Sbjct: 422 TLALAKEESLGDTQPAEDLLSLEGLERELAFKLAAKGVCTLEDLAEQGVDDLSDID---- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                        G   ++   +I+ AR  + W   +
Sbjct: 478 -------------GLSDERAGELIMAAR-NICWFGDD 500


>gi|262274884|ref|ZP_06052695.1| transcription termination protein NusA [Grimontia hollisae CIP
           101886]
 gi|262221447|gb|EEY72761.1| transcription termination protein NusA [Grimontia hollisae CIP
           101886]
          Length = 495

 Score =  597 bits (1540), Expect = e-168,   Method: Composition-based stats.
 Identities = 205/511 (40%), Positives = 315/511 (61%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TG+   FR 
Sbjct: 2   NKEILAVVEAVSNEKAVPRERIFEALETALATATKKKYDADIDVRVAIDRKTGEFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV   T +I+L+ A+  D ++++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVEEVTLPTREITLEAAQFDDETLELGSYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F +  GE+I+G VK+V    VIVDLGN ++  I+RD+ + REN RPGDRV+ 
Sbjct: 122 ERAQVVEQFMENEGELITGVVKKVNRDVVIVDLGNNAEAAIQRDDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   +++V   +RDPGSRAK+AV ++
Sbjct: 182 LLYAVRPEARGFQLFMTRSKPEMLIELFRIEVPEIGEEMIEVMGAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T ++     Q++  +  + F +
Sbjct: 302 THTMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVQDLQKKHQEEAGQSIELFSK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF  +EE+A V  +E+  I G DE+T  E++ RA+E L  I +  
Sbjct: 362 HLDIDEDFAAVLVEEGFTTLEEVAYVPAAELLEINGLDEDTVEELRSRAKEALTTIALAK 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ +     +E+L  + G++  +   L   GI T+EDLA    DDLL             
Sbjct: 422 EEILEGAEPAEDLLGLEGLERDLAFRLAAKGICTLEDLADQGTDDLLDIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G  + +   +I+ AR  + W   E
Sbjct: 472 -------GMDEVKAGELIMAAR-NICWFSDE 494


>gi|117927003|ref|YP_867620.1| NusA antitermination factor [Magnetococcus sp. MC-1]
 gi|117610759|gb|ABK46214.1| NusA antitermination factor [Magnetococcus sp. MC-1]
          Length = 506

 Score =  597 bits (1540), Expect = e-168,   Method: Composition-based stats.
 Identities = 245/516 (47%), Positives = 351/516 (68%), Gaps = 21/516 (4%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           +E+LQ+AD VA EK IDR VV+  M  +IQ A+R  YG   +I+   +P++G+  L +L 
Sbjct: 3   VEILQVADQVAREKGIDRKVVIEAMESAIQTASRKKYGANKNIQARFDPKSGEFQLNQLR 62

Query: 67  EVV-----EEVE-NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           EVV     E+++ +    ISL+ A   +P    G  +++ LPPM+FGR+A Q+AKQVI+Q
Sbjct: 63  EVVDLDQDEDLDFDEDIHISLEKALTMNPEAVPGDFIAEQLPPMEFGRIAAQTAKQVIVQ 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           KVR+AER+R + E+ D+ GE+++G VKRVE  N+ VDLG + G +  +E + RE+ RPGD
Sbjct: 123 KVRDAERERIFEEYADRQGEMVNGLVKRVERNNIHVDLGRTSGFLPHEEQLPREHYRPGD 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R++++I +VR   RGPQ++LSRTHPQ +V+LF MEVPEIY+GIV++KAV+RDPG R+K+A
Sbjct: 183 RIRAFIKEVREVTRGPQIILSRTHPQMVVRLFEMEVPEIYDGIVEIKAVARDPGHRSKIA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D+ +DPVGACVGMRGSRVQ+VVTEL+ E+IDI+ WS D A FV NAL PA V KVV
Sbjct: 243 VRSNDAHVDPVGACVGMRGSRVQSVVTELQGERIDIIEWSHDPAVFVCNALAPAEVVKVV 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DE+   I+V+V +  LSLAIGRRGQNVRLAS+LTGW IDIITE+E+   R++ F E  Q
Sbjct: 303 VDEEDRNIKVVVDETALSLAIGRRGQNVRLASELTGWRIDIITEQEERNLREEMFGELQQ 362

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+ +++ E +A +LV EGF   EE+A V ++E+ SIEGFDEE A E++ RAR+ L   
Sbjct: 363 TFMKDLDLGEEVAAVLVNEGFTSAEEVAYVPLNELTSIEGFDEEIAQELRNRARDTLLQQ 422

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  +++  EL + E L  +  +     +AL E  + T++DLA  + D+L+   +     
Sbjct: 423 ALQTEERKAELHIDERLAQLGLLTDDALIALAEKNVNTLDDLADLATDELVEMFD----- 477

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                          +  E++I+ AR   GW + E+
Sbjct: 478 ----------GELTTEDAETLILGARRAAGWFDDEE 503


>gi|157368735|ref|YP_001476724.1| transcription elongation factor NusA [Serratia proteamaculans 568]
 gi|157320499|gb|ABV39596.1| NusA antitermination factor [Serratia proteamaculans 568]
          Length = 502

 Score =  596 bits (1537), Expect = e-168,   Method: Composition-based stats.
 Identities = 197/517 (38%), Positives = 310/517 (59%), Gaps = 26/517 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIEVRVSIDRKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
              V+EV   T +I+L+ A+  +P I++GG + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVAVDEVTQPTREITLEAAQYEEPGIELGGYIEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER      F+   GEI++G VK+V   ++ +DLG N++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDAFRQHEGEIVTGVVKKVNRDSIALDLGSNAEAVIGREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ +SR+  + + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 ILYAVRPEARGAQLFVSRSSAEMLKELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDI++W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIILWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTG-------WTIDIITEEEDSINRQKDFNE 357
              +++ V    L+ AIGR GQNVRLASQL         W ++++T ++     Q + + 
Sbjct: 302 NCTMDIAVEASNLAQAIGRNGQNVRLASQLLKQHRDDDRWELNVMTADDLQAKHQAEAHA 361

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F + +++DE  A +LV EGF+ +EELA V I E+  I+G DE+    ++ RA+  L
Sbjct: 362 AIDTFTKHLDIDEDFATVLVEEGFSTLEELAYVPIKELLEIDGLDEDMVEALRDRAKAAL 421

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
             + +  ++ + +   +++L ++PG++  +   L   G+ T+EDLA   VDDL       
Sbjct: 422 TTLALAQEESLGDQKPADDLLNLPGLERSMAFKLAARGVCTLEDLAEQGVDDLADIE--- 478

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                         G   +Q   +I+ AR  + W   
Sbjct: 479 --------------GLSDEQAGELIMAAR-NICWFGD 500


>gi|289207909|ref|YP_003459975.1| NusA antitermination factor [Thioalkalivibrio sp. K90mix]
 gi|288943540|gb|ADC71239.1| NusA antitermination factor [Thioalkalivibrio sp. K90mix]
          Length = 495

 Score =  596 bits (1537), Expect = e-168,   Method: Composition-based stats.
 Identities = 211/516 (40%), Positives = 326/516 (63%), Gaps = 27/516 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +ADAVA EK +D+D++   +  ++  A R  +G   D+RV I+ E GD   FR 
Sbjct: 2   NKEILLVADAVANEKGVDKDIIFDALESALAMATRKYHGGKMDVRVSIDREEGDYEAFRR 61

Query: 66  LEVVE----EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             VV+    E E+   QI L  A+ ++P   +G V+ +P+  +DFGR+A Q+AKQVI+QK
Sbjct: 62  WTVVDDEDPEFESPEYQILLSYAQQKNPDAQVGDVIEEPVEAVDFGRIAAQTAKQVIVQK 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGD 180
           VREAER +   E++D+VG ++ G VKR +     VDLGN ++ +I R+  I RE +R  D
Sbjct: 122 VREAERAKVVEEYQDRVGTLVMGIVKRTDRNGTYVDLGNNAEALIPREHMIPRETVRTND 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R++ Y+ ++R + RGPQ++LSR+ P+F+++LF +EVPE+   I+ +   +RDPG RAK+A
Sbjct: 182 RLRGYLKEIRPDARGPQLILSRSAPEFLIELFKLEVPEVGQEIIDIMGAARDPGQRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  +DPVGACVGMRGSRVQ+V  EL  E+IDI+VW  + A FVINA+ PA V  +V
Sbjct: 242 VRSNDPRLDPVGACVGMRGSRVQSVSNELAGERIDIIVWDENPAQFVINAMSPAEVLSIV 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V +++LSLAIGR GQN+RLASQLTGW ++++TEE+ +   + +  +   
Sbjct: 302 VDEDKQSMDIAVEEDKLSLAIGRGGQNIRLASQLTGWELNVMTEEQAAEKSEAEAQQLVT 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
           FFM+A++VDE +A +LV EGF+ ++E+A V  +E+ +IE FDE+   E++ RA + L   
Sbjct: 362 FFMEALDVDEEVAGILVQEGFSTLDEVAYVDEAELLAIEEFDEDIVAELRNRASDALLTR 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            I   +  +    +E+L S+ G+   +   L  +G+ TMEDLA  + DD++  +      
Sbjct: 422 AIAGGENYQ---PAEDLLSMDGMTQGVANKLASHGVCTMEDLAEQAADDVVEMT------ 472

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                      G   ++   +I+ AR    W E  +
Sbjct: 473 -----------GLSTEEASELIMTARAP--WFETGE 495


>gi|270265058|ref|ZP_06193321.1| transcription elongation protein NusA [Serratia odorifera 4Rx13]
 gi|270040992|gb|EFA14093.1| transcription elongation protein NusA [Serratia odorifera 4Rx13]
          Length = 502

 Score =  595 bits (1536), Expect = e-168,   Method: Composition-based stats.
 Identities = 197/517 (38%), Positives = 310/517 (59%), Gaps = 26/517 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIEVRVSIDRKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
              V+EV   T +I+L+ A+  +P I++GG + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVAVDEVTQPTREITLEAAQYEEPGIELGGYIEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER      F+   GEI++G VK+V   ++ +DLG N++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDAFRQHEGEIVTGVVKKVNRDSIALDLGSNAEAVIGREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ +SR+  + + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 ILYAVRPEARGAQLFVSRSSAEMLKELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDI++W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIILWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTG-------WTIDIITEEEDSINRQKDFNE 357
              +++ V    L+ AIGR GQNVRLASQL         W ++++T ++     Q + + 
Sbjct: 302 NCTMDIAVEASNLAQAIGRNGQNVRLASQLLKQHRDDDRWELNVMTADDLQAKHQAEAHA 361

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F + +++DE  A +LV EGF+ +EELA V I E+  I+G DE+    ++ RA+  L
Sbjct: 362 AIDTFTKYLDIDEDFATVLVEEGFSTLEELAYVPIKELLEIDGLDEDMVEALRDRAKAAL 421

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
             + +  ++ + +   +++L ++PG++  +   L   G+ T+EDLA   VDDL       
Sbjct: 422 TTLALAQEESLGDQKPADDLLNLPGLERSMAFKLAARGVCTLEDLAEQGVDDLADIE--- 478

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                         G   +Q   +I+ AR  + W   
Sbjct: 479 --------------GLSDEQAGELIMAAR-NICWFGD 500


>gi|294011603|ref|YP_003545063.1| N utilization substance protein A [Sphingobium japonicum UT26S]
 gi|292674933|dbj|BAI96451.1| N utilization substance protein A [Sphingobium japonicum UT26S]
          Length = 523

 Score =  595 bits (1535), Expect = e-168,   Method: Composition-based stats.
 Identities = 280/520 (53%), Positives = 384/520 (73%), Gaps = 7/520 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SAN+ ELL IA++VA EK ID+ +V+  M D+IQ+AAR+ YG  +DIR +++PETGD+ 
Sbjct: 5   ISANKAELLAIANSVASEKMIDKAIVIEAMEDAIQRAARARYGAENDIRAKLDPETGDLR 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+R++EVVE V++Y  Q+ L+ A+       IG  + DPLPP+D GR+  QSAKQVI QK
Sbjct: 65  LWRVVEVVEVVDDYFKQVDLRQAQKLKKDAVIGDFIVDPLPPIDLGRIDAQSAKQVIFQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+RQ+ EFKD+VGEII+G VK VE+G+V+V+LG ++GVIRRD+ I RE +R GDR
Sbjct: 125 VRDAERERQHEEFKDRVGEIITGVVKSVEFGHVVVNLGRAEGVIRRDQQIPREVVRVGDR 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++S I +VRRE RGPQ+ LSR HP+FM KLF  EVPEIY+G++++KA +RDPGSRAK+ V
Sbjct: 185 IRSVILNVRRENRGPQIFLSRAHPEFMKKLFAQEVPEIYDGVIEIKAAARDPGSRAKIGV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGM+GSRVQAVV E++ EKIDI+ WS D+ATFV+NAL+PA V +VV+
Sbjct: 245 ISRDSSIDPVGACVGMKGSRVQAVVQEMQGEKIDIIPWSEDTATFVVNALQPAQVARVVI 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  RIEV+VP +QLSLAIGRRGQNVRLASQLTG  IDI+TE + S  RQK+F  R++ 
Sbjct: 305 DEEEERIEVVVPDDQLSLAIGRRGQNVRLASQLTGKAIDIMTEADASEKRQKEFVARSEM 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F   ++VDE ++ LLVAEGF ++EE+A V + E+A+IEGFDE+ A E+Q RA+E L+  +
Sbjct: 365 FQNELDVDETLSQLLVAEGFGELEEVAYVGVEELAAIEGFDEDLAAELQSRAQEALDRRE 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL-----LGWSEN 476
              +++ + LGV + L  +P +   + V LG+ GIKT++DLA  + D+L     +     
Sbjct: 425 AAAREERQALGVEDALADMPHLTEAMLVTLGKAGIKTLDDLADLATDELVAKKRVDQRRR 484

Query: 477 KGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
           +    E   G L+  G  ++Q   +I+ AR    W E E+
Sbjct: 485 RENKEEDKGGILAEYGLTEEQGNEIIMAARAH--WFEGEE 522


>gi|85712989|ref|ZP_01044027.1| transcription elongation factor NusA [Idiomarina baltica OS145]
 gi|85693158|gb|EAQ31118.1| transcription elongation factor NusA [Idiomarina baltica OS145]
          Length = 497

 Score =  595 bits (1534), Expect = e-168,   Method: Composition-based stats.
 Identities = 206/514 (40%), Positives = 325/514 (63%), Gaps = 23/514 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK++ R+ +   +  ++  A +  Y    D+R++I+  TG+   FR 
Sbjct: 2   SKEILLVAEAVSNEKAVPREKIFEALESALAHATKKKYDGDIDVRIDIDRATGEFDTFRR 61

Query: 66  LEVVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             VVE+    +E+   +ISL  A+  DPS+ +G  V + +  + F R+  Q+AKQVI+QK
Sbjct: 62  WLVVEDTDTGLEHPYREISLSAAQYEDPSLQLGDYVEEQIESIQFDRITTQTAKQVIVQK 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGD 180
           VREAER +   E++D+VGE+++GTVKR    +VI+DLGN ++ +I R+E + RE++RPGD
Sbjct: 122 VREAERAQVVDEYRDQVGELVTGTVKRANREHVILDLGNNAEAIIYREEMLPRESVRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV+  +YDVR E RG Q+ ++R+ P+F+++LF +EVPEI   ++++K  +RDPGSRAK+A
Sbjct: 182 RVRGLLYDVRPEARGAQLFVTRSRPEFLMELFRIEVPEIGEEMIELKGAARDPGSRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDPVGACVGMRG+RVQAV  EL  E++DIV+W  + A FVINA+ PA V  +V
Sbjct: 242 VKSNDRRIDPVGACVGMRGARVQAVSGELGGERVDIVLWDDNPAQFVINAMAPAEVASIV 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V  + L+ AIG+ GQNVRLASQL+GWT++++T ++ +   + + N    
Sbjct: 302 VDEDAHTMDIAVAADNLAQAIGKSGQNVRLASQLSGWTLNVMTVDDFNEKNEAETNRLLN 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F+ ++++DE  A +LV EGF+ +EE+A V ++E   IEG DE+   E++GRAR YL   
Sbjct: 362 LFITSLDIDEDFASVLVDEGFSSLEEVAYVPVAEFLEIEGMDEDIVEELRGRARAYLTTK 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  ++ +      E L  + G+D  +   L   G+ ++E+LA   +DDL G  E     
Sbjct: 422 ALADEESLESAEPDESLLGLEGMDRHLAYVLASRGVTSLEELAEQGIDDLAGIEE----- 476

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                         + Q   +I+ AR  + W  +
Sbjct: 477 ------------LDEQQAGDLIMKAR-NICWFSE 497


>gi|213052982|ref|ZP_03345860.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. E00-7866]
          Length = 495

 Score =  595 bits (1534), Expect = e-168,   Method: Composition-based stats.
 Identities = 199/512 (38%), Positives = 315/512 (61%), Gaps = 24/512 (4%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           + + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR   +V
Sbjct: 1   MAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRRWLIV 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
           EEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER  
Sbjct: 61  EEVTMPTKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREAERAM 120

Query: 130 QYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPGDRVK 183
              +F+D+ GEI++G VK+V   N+ +++      GN++ VI R++ + REN RPGDR++
Sbjct: 121 VVDQFRDQEGEIVTGVVKKVNRDNISLEIKSEGMAGNAEAVILREDMLPRENFRPGDRIR 180

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
             +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV +
Sbjct: 181 GVLYAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKT 240

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DE
Sbjct: 241 NDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDE 300

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +   + F 
Sbjct: 301 DKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIEIFT 360

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
           + +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  +   
Sbjct: 361 KYLDIDEEFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALATLAQD 420

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            +  + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL             
Sbjct: 421 QEASLGDNKPADDLLNLEGLDRDMAFKLAARGVCTLEDLADQGIDDLADIE--------- 471

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                   G   ++   +I+ AR  + W   E
Sbjct: 472 --------GLTDEKAGELIMAAR-NICWFGDE 494


>gi|329295928|ref|ZP_08253264.1| transcription elongation factor NusA [Plautia stali symbiont]
          Length = 495

 Score =  595 bits (1534), Expect = e-168,   Method: Composition-based stats.
 Identities = 202/511 (39%), Positives = 314/511 (61%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A R  Y    D+RV I+  +GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATRKKYEQEIDVRVSIDRRSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV   T + +L+ AR  D + ++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVVVEEVTQPTRETTLEAARFEDEAFNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+++ GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDQFREQEGEIITGVVKKVNRDNISLDLGNNAEAVIVREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLAS L+ W ++++T ++     Q + +     F +
Sbjct: 302 NHTMDIAVEAGNLAQAIGRNGQNVRLASLLSSWELNVMTVDDLQAKHQAEAHAAIDMFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V I+E+  I+G DEET   ++ RA+  L  + +  
Sbjct: 362 HLDIDEEFATVLVEEGFSSLEELAYVPINELLEIDGLDEETIEALRERAKNALTTLALAK 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ +     +E+L ++ G+D  +   L   G+ T+EDLA   VDDL              
Sbjct: 422 EESLGNQEPAEDLLNLEGLDRALAYRLASKGVCTLEDLAEQGVDDLTDIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   ++  ++I+ AR  + W   +
Sbjct: 472 -------GLDDEKAGALIMVAR-NICWFGDD 494


>gi|145298043|ref|YP_001140884.1| transcription elongation factor NusA [Aeromonas salmonicida subsp.
           salmonicida A449]
 gi|142850815|gb|ABO89136.1| transcription elongation factor nusA [Aeromonas salmonicida subsp.
           salmonicida A449]
          Length = 500

 Score =  594 bits (1533), Expect = e-168,   Method: Composition-based stats.
 Identities = 200/515 (38%), Positives = 315/515 (61%), Gaps = 22/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + DAV+ EK++ R+ +   +  ++  A +  Y    ++RVEI+ +TGD   +R 
Sbjct: 2   NKEILLVVDAVSNEKAVPREKIFQALETALATATKKKYEGEIEVRVEIDRKTGDYETYRR 61

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             VV +   +EN   +I+L+ A+   P I +G  V D +  + F R+  Q+AKQVI+QKV
Sbjct: 62  WVVVADQAAMENPYGEITLEAAQIEQPEIQLGDYVEDQIDSVTFDRITTQTAKQVIVQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER +   +FKDK G IISG VK+    NVI+DLG N++ VI RD+ + RE  RPGDR
Sbjct: 122 REAERSQVVDQFKDKEGTIISGVVKKSNRDNVILDLGSNAEAVIFRDDMLPRETFRPGDR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++  +Y VR E RG Q+ +SR+ P F+ +LF +EVPEI   ++++   +RDPGSRAK++V
Sbjct: 182 IRGLLYAVRPEARGSQLFVSRSSPDFLKELFRIEVPEIGEEMIEIMGAARDPGSRAKISV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDP+GAC+GMRG+RVQAV  EL  E+ DIV++  + A +VINA+ PA V  +++
Sbjct: 242 KTNDRRIDPIGACIGMRGARVQAVSAELSGERADIVLYDDNPAQYVINAMAPADVASIIV 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   +++ V    L+ AIGR GQNVRLASQLTGW ++++T E+     Q + +     
Sbjct: 302 DEDNHTMDIAVEAANLAQAIGRNGQNVRLASQLTGWELNVMTVEDMRSKHQAENDRILTL 361

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F  A+++D+  A LL+ EGF+ +EE+A V ++E+ +I+G DE+   E++ RA++ L    
Sbjct: 362 FTSALDIDDDFAGLLMEEGFSTLEEIAFVPVNELLAIDGLDEDMVEELRKRAKDVLTTKA 421

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           +  ++ +  +  SE+L ++ G+   +  AL   G+ T+EDLA   +DDL    E      
Sbjct: 422 LAKEESLDGVEPSEDLLNLAGLGRDMAYALAARGVGTLEDLAEQGIDDLADIEE------ 475

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                         ++   +I+ AR  + W  +E+
Sbjct: 476 -----------LTAEKAGELIMAAR-NICWFGEEQ 498


>gi|304310506|ref|YP_003810104.1| N utilization substance protein A [gamma proteobacterium HdN1]
 gi|301796239|emb|CBL44447.1| N utilization substance protein A [gamma proteobacterium HdN1]
          Length = 494

 Score =  594 bits (1533), Expect = e-167,   Method: Composition-based stats.
 Identities = 209/511 (40%), Positives = 320/511 (62%), Gaps = 23/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFR 64
             E+L + + V+ EK + RDV+   +  ++  A +  +    +D+RV IN  TG    +R
Sbjct: 2   SKEILLVVETVSNEKGVPRDVIFEAVETALATATKKRFPNEDADVRVSINRTTGAYDTWR 61

Query: 65  LLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VV  E+ E     ++L  A D D    IG +  + +P +DFGR+A Q+AKQVI+QKV
Sbjct: 62  RWTVVLDEDFEFPGRHMTLDEAHDHDTKYKIGDIYEEKIPSIDFGRIAAQTAKQVIVQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER +    F DK+G +++G VK+V   NVI+DLG N++ ++ R++ I RE LR  DR
Sbjct: 122 REAERAQIADAFSDKIGHLVNGVVKKVTRDNVILDLGGNAEALLPREDLIGRETLRVNDR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+  ++ + +E RG Q+ +SR  P+ +++LF +EVPEI   I+++KA +RDPGSRAK+AV
Sbjct: 182 VRGVLFSINKENRGAQLYVSRARPEMLIELFKIEVPEIGEDIIEIKAAARDPGSRAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGACVGMRGSRVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +V+
Sbjct: 242 KTNDQRIDPVGACVGMRGSRVQAVSNELGGERIDIVLWDDNPAQFVINAMSPAEVVSIVV 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+   +++ V +EQL+LAIGR GQN+RLAS+L+GW ++++T ++    ++++     + 
Sbjct: 302 DEESHSMDIAVEEEQLALAIGRGGQNIRLASELSGWELNVMTVKDAEAKQRQESESYLKV 361

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM  + VDE +A +LV EGFA VEE+A V   E+ SIEGFDE+   E++ RA+  L    
Sbjct: 362 FMDELGVDEELAQVLVDEGFASVEEVAYVPKEEMLSIEGFDEDLVDELRSRAKNALLTRA 421

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           +  +++ +    +++L S+ G+D ++ +AL + GI TMEDLA  +VDDLL          
Sbjct: 422 LVDEEQNQGGSPADDLLSMEGMDKELALALAKKGICTMEDLAEQAVDDLLDIE------- 474

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
                         ++  ++I+ AR    W 
Sbjct: 475 ----------NLDAEKAAALIMTARAP--WF 493


>gi|156975664|ref|YP_001446571.1| transcription elongation factor NusA [Vibrio harveyi ATCC BAA-1116]
 gi|156527258|gb|ABU72344.1| hypothetical protein VIBHAR_03397 [Vibrio harveyi ATCC BAA-1116]
          Length = 495

 Score =  594 bits (1532), Expect = e-167,   Method: Composition-based stats.
 Identities = 205/511 (40%), Positives = 320/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG+   FR 
Sbjct: 2   SKEILAVAEAVSNEKAVPRERIFEALEIALATSTKKKYEIEIDVRVAIDRKTGEFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE+VEN T +ISL+ A+  D  I +G  V D +P + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVEDVENPTKEISLEAAQYEDADIQLGDFVEDDIPSVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  G++I+G VK+V    V++DLGN ++ VI RD+ + REN RPGDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGDLITGVVKKVNRETVVLDLGNNAEAVILRDDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   I+++K  +RDPGSRAK+AV ++
Sbjct: 182 LLYKVAPEARGFQLFITRSKPEMLAELFRVEVPEIAEEIIELKGAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +      ++     + FM+
Sbjct: 302 AHSMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADLQKKHAEESQASIENFMK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++++E  A LLV EGF+ +EE+A V ++E+  ++G +EE   E++ RA++ L  I +  
Sbjct: 362 YLDIEEDFAQLLVEEGFSTLEEIAYVPVNELLDVDGLNEELVEELRSRAKDALTTIALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++    L  +E+L  + G++ ++   L   G+ T+EDLA   +DDL G            
Sbjct: 422 EESFEGLEPAEDLLGLEGLEREMAFKLAAKGVATLEDLADQGIDDLEGIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G  +++   +I+ AR  + W  +E
Sbjct: 472 -------GLTEERAGELIMAAR-NICWFGEE 494


>gi|269961979|ref|ZP_06176334.1| N utilization substance protein A [Vibrio harveyi 1DA3]
 gi|269833302|gb|EEZ87406.1| N utilization substance protein A [Vibrio harveyi 1DA3]
          Length = 495

 Score =  593 bits (1531), Expect = e-167,   Method: Composition-based stats.
 Identities = 205/511 (40%), Positives = 320/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG+   FR 
Sbjct: 2   SKEILAVAEAVSNEKAVPRERIFEALEIALATSTKKKYEIEIDVRVAIDRKTGEFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE+VEN T +ISL+ A+  D  I +G  V D +P + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVEDVENPTKEISLEAAQYEDADIQLGDFVEDDIPSVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  G++I+G VK+V    V++DLGN ++ VI RD+ + REN RPGDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGDLITGVVKKVNRETVVMDLGNNAEAVILRDDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   I+++K  +RDPGSRAK+AV ++
Sbjct: 182 LLYKVAPEARGFQLFITRSKPEMLAELFRVEVPEIAEEIIELKGAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +      ++     + FM+
Sbjct: 302 AHSMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADLQKKHAEESQASIENFMK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++++E  A LLV EGF+ +EE+A V ++E+  ++G +EE   E++ RA++ L  I +  
Sbjct: 362 YLDIEEDFAQLLVEEGFSTLEEIAYVPVNELLDVDGLNEELVEELRSRAKDALTTIALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++    L  +E+L  + G++ ++   L   G+ T+EDLA   +DDL G            
Sbjct: 422 EESFEGLEPAEDLLGLEGLEREMAFKLAAKGVATLEDLADQGIDDLEGIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G  +++   +I+ AR  + W  +E
Sbjct: 472 -------GLTEERAGELIMAAR-NICWFGEE 494


>gi|307293340|ref|ZP_07573186.1| transcription termination factor NusA [Sphingobium chlorophenolicum
           L-1]
 gi|306881406|gb|EFN12622.1| transcription termination factor NusA [Sphingobium chlorophenolicum
           L-1]
          Length = 523

 Score =  593 bits (1531), Expect = e-167,   Method: Composition-based stats.
 Identities = 280/520 (53%), Positives = 384/520 (73%), Gaps = 7/520 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SAN+ ELL IA++VA EK ID+ +V+  M D+IQ+AAR+ YG  +DIR +++PETGD+ 
Sbjct: 5   ISANKAELLAIANSVASEKMIDKAIVIEAMEDAIQRAARARYGAENDIRAKLDPETGDLR 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+R++EVVE V++Y  Q+ L+ A+       IG  + DPLPP+D GR+  QSAKQVI QK
Sbjct: 65  LWRVVEVVEAVDDYFKQVDLRQAQKLKKDAVIGDFIVDPLPPIDLGRIDAQSAKQVIFQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+RQ+ EFKD+VGEII+G VK VE+G+V+V+LG ++GVIRRD+ I RE +R GDR
Sbjct: 125 VRDAERERQHEEFKDRVGEIITGVVKSVEFGHVVVNLGRAEGVIRRDQQIPREVVRVGDR 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++S I +VRRE RGPQ+ LSR HP+FM KLF  EVPEIY+G++++KA +RDPGSRAK+ V
Sbjct: 185 IRSVILNVRRENRGPQIFLSRAHPEFMKKLFAQEVPEIYDGVIEIKAAARDPGSRAKIGV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGM+GSRVQAVV E++ EKIDI+ WS D+ATFV+NAL+PA V +VV+
Sbjct: 245 ISRDSSIDPVGACVGMKGSRVQAVVQEMQGEKIDIIPWSEDTATFVVNALQPAQVARVVI 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  RIEV+VP +QLSLAIGRRGQNVRLASQLTG  IDI+TE + S  RQK+F  R++ 
Sbjct: 305 DEEEERIEVVVPDDQLSLAIGRRGQNVRLASQLTGKAIDIMTEADASEKRQKEFVARSEL 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F   ++VDE ++ LLVAEGF ++EE+A V + E+A+IEGFDE+ A E+Q RA+E L+  +
Sbjct: 365 FQNELDVDETLSQLLVAEGFGELEEVAYVGVEELAAIEGFDEDLAAELQSRAQEALDRRE 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL-----LGWSEN 476
              +++ + LGV + L  +P +   + V LG+ GIKT++DLA  + D+L     +     
Sbjct: 425 AAAREERQALGVEDALADMPHLTEAMLVTLGKAGIKTLDDLADLATDELVAKKRVDQRRR 484

Query: 477 KGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
           +    E   G L+  G  ++Q   +I+ AR    W E E+
Sbjct: 485 RENKEEDKGGILAEYGLSEEQGNEIIMAARAH--WFEGEE 522


>gi|255019834|ref|ZP_05291910.1| Transcription termination protein NusA [Acidithiobacillus caldus
           ATCC 51756]
 gi|254970763|gb|EET28249.1| Transcription termination protein NusA [Acidithiobacillus caldus
           ATCC 51756]
          Length = 493

 Score =  593 bits (1530), Expect = e-167,   Method: Composition-based stats.
 Identities = 230/508 (45%), Positives = 337/508 (66%), Gaps = 22/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL +ADAVA+EK +DR+V+   +  S+  A++  YG   DI V ++ +TGD +  R   
Sbjct: 4   ELLYLADAVAHEKEVDREVIFQALEASLVSASKKKYGPNWDIVVTVDRKTGDYTTRRRWT 63

Query: 68  VV-EEVENYTCQ--ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV ++ E++  +  I L  AR RD  I +G V+ + LP ++FGR+A Q+AKQVI+Q+VR+
Sbjct: 64  VVADDAEDFEAEAQIRLSDARARDQGIAVGDVIEEELPDVEFGRIAAQTAKQVIVQRVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AERDR   +F  + GEIISG VKR+E GN I+D+G ++ ++ ++E I RE +RPGDR+K 
Sbjct: 124 AERDRIVADFAMRQGEIISGVVKRMEKGNAIIDMGRAEAILPKEEMIPREAIRPGDRIKV 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           ++ +VRR  RGPQ+ LSRT P+ ++KLF  EVPEI NG++++   +RDPG RAKLAV S+
Sbjct: 184 HLKEVRRVPRGPQLFLSRTSPELLMKLFAQEVPEIANGMIEIMGAARDPGLRAKLAVRSN 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           +  +DPVGACVGMRG+RVQ V+ EL+ E++DIVVWSP+ A+FVINAL PA V+ +++DE+
Sbjct: 244 EPRVDPVGACVGMRGNRVQTVINELKGERVDIVVWSPEPASFVINALSPAEVSSIIVDEN 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V  EQLSLAIGR GQNVRLASQLTGWTI+I+TE+E    R+++     Q FM 
Sbjct: 304 THSMDVVVDPEQLSLAIGRGGQNVRLASQLTGWTINILTEDEARAKREEEDARFRQQFMD 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + +DE +A LLV EGF  +EE+A V ++E+  IEG DEE   E++ RAR+ L    I  
Sbjct: 364 DLGIDEDLATLLVNEGFTSIEEVAYVPVAEMLEIEGLDEELVTELRRRARDVLLNKAIAR 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++++     +E+L ++ G+D  +   L   GI T E LA  +VD+L              
Sbjct: 424 EEQVVLSEPAEDLLALEGMDKGLAHLLASKGITTAESLAELAVDELCEL----------- 472

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                 +    ++ +++I+ AR    W 
Sbjct: 473 ------VDIEPERAKALILKARAP--WF 492


>gi|227327826|ref|ZP_03831850.1| transcription elongation factor NusA [Pectobacterium carotovorum
           subsp. carotovorum WPP14]
          Length = 509

 Score =  593 bits (1529), Expect = e-167,   Method: Composition-based stats.
 Identities = 205/524 (39%), Positives = 317/524 (60%), Gaps = 32/524 (6%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALETALATATKKKYEQEIDVRVSIDRKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV EV   T +I+L+ A+  DP++D+GG V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVNEVTQPTREITLEAAQFEDPALDVGGYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-------NSDGVIRRDETISRENLRP 178
           ER     +F+++ GEII+G VK+V   N+ +++        +++ VI R++ + REN RP
Sbjct: 122 ERAMVVDQFREQEGEIITGVVKKVNRDNISLEVRPIDGSNTSAEAVIGREDMLPRENFRP 181

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDR++  +Y VR E RG Q+ +SR+ P+ +V+LF +EVPEI   ++++KA +RDPGSRAK
Sbjct: 182 GDRIRGVLYSVRPEARGAQLFVSRSRPEMLVELFRIEVPEIGEEVIEIKAAARDPGSRAK 241

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGACVGMRG+RVQAV +EL  E+IDI++W  + A FVINA+ PA V  
Sbjct: 242 IAVKTNDKRIDPVGACVGMRGARVQAVSSELGGERIDIILWDDNPAQFVINAMAPADVVS 301

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTG-------WTIDIITEEEDSINR 351
           +V+DED   +++ V    L+ AIGR GQNVRLASQL         W ++++T E+     
Sbjct: 302 IVVDEDTCTMDIAVESSNLAQAIGRNGQNVRLASQLLKQHRSDDRWELNVMTVEDLQAKH 361

Query: 352 QKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           Q + +     F + +++DE  A +LV EGF+ +EELA V I E+ +IEG DEET   ++ 
Sbjct: 362 QAEAHAAIDVFTKHLDIDEEFATVLVEEGFSSLEELAYVPIKELLAIEGLDEETVEALRE 421

Query: 412 RAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           RA+  L  + +  ++ + +   +E+L  +PG+  ++   L   G+ T+EDLA   VDDL 
Sbjct: 422 RAKAALTTLALAHEESLGDGQPAEDLLGLPGLSRELAFKLAAIGVCTLEDLAEQGVDDLT 481

Query: 472 GWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
              E                    +Q   +I+ AR  + W   +
Sbjct: 482 DIEE-----------------LNDEQAGELIMAAR-NICWFGDD 507


>gi|94497164|ref|ZP_01303736.1| NusA antitermination factor [Sphingomonas sp. SKA58]
 gi|94423269|gb|EAT08298.1| NusA antitermination factor [Sphingomonas sp. SKA58]
          Length = 522

 Score =  593 bits (1529), Expect = e-167,   Method: Composition-based stats.
 Identities = 277/519 (53%), Positives = 380/519 (73%), Gaps = 7/519 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SAN+ EL+ IA++VA EK ID+ +V+  M D+IQ+AAR+ YG  +DIR +++P++GD+ 
Sbjct: 5   ISANKAELIAIANSVASEKMIDKAIVIEAMEDAIQRAARARYGAENDIRAKLDPDSGDLR 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L+R++EVVE VE+Y  Q+ LK  +       IG  + DPLP +D GR+  QSAKQVI QK
Sbjct: 65  LWRVVEVVETVEDYFKQVDLKQGQKLKKDAVIGDFIVDPLPAIDLGRIDAQSAKQVIFQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR+AER+RQY E+KD+VGEII+G VK VE+G+V+V+LG ++GVIRRD+ I RE +R GDR
Sbjct: 125 VRDAERERQYEEYKDRVGEIITGVVKSVEFGHVVVNLGRAEGVIRRDQQIPREVVRVGDR 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++S + +VRRE RGPQ+ LSR HP+FM KLF  EVPEIY+G++ + A +RDPGSRAK+ V
Sbjct: 185 IRSVVLNVRRENRGPQIFLSRAHPEFMKKLFAQEVPEIYDGVITIMAAARDPGSRAKIGV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S DSSIDPVGACVGM+GSRVQAVV E++ EKIDI+ WS D+ATFV+NAL+PA V +VV+
Sbjct: 245 ISRDSSIDPVGACVGMKGSRVQAVVQEMQGEKIDIIPWSEDTATFVVNALQPAQVARVVI 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  RIEV+VP +QLSLAIGRRGQNVRLASQLTG  IDI+TE + S  RQK+F  R++ 
Sbjct: 305 DEEEERIEVVVPDDQLSLAIGRRGQNVRLASQLTGKAIDIMTEADASEKRQKEFVARSEM 364

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F   ++VDE ++ LLVAEGF ++EE+A V + E+A IEGFDE+ A E+Q RA+E L+  +
Sbjct: 365 FQNELDVDETLSQLLVAEGFGELEEVAYVTVEELAGIEGFDEDLAAELQSRAQEALDRRE 424

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL-----LGWSEN 476
              +++ + LGV + L  +P +   + V LG+ GIKT++DLA  + D+L     +     
Sbjct: 425 AAAREERQALGVDDALADMPHLTEAMLVTLGKAGIKTLDDLADLATDELIAKKRVDQRRR 484

Query: 477 KGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
           K    E   G LS+ G  ++Q   +I+ AR    W E+E
Sbjct: 485 KSETTEDKGGILSAYGLNEEQGNEIIMAARAH--WFEEE 521


>gi|330813317|ref|YP_004357556.1| transcription termination protein NusA [Candidatus Pelagibacter sp.
           IMCC9063]
 gi|327486412|gb|AEA80817.1| transcription termination protein NusA [Candidatus Pelagibacter sp.
           IMCC9063]
          Length = 514

 Score =  592 bits (1527), Expect = e-167,   Method: Composition-based stats.
 Identities = 263/505 (52%), Positives = 366/505 (72%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           +  EL++IADAVA EKSI +D+VL+ M  +I+KAA++ YG  ++I V I+  TG I L R
Sbjct: 7   DSTELIRIADAVADEKSISKDLVLTSMESAIEKAAKTRYGNENEIYVVIDRATGKIELGR 66

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
            L+VVE+V N   +I L  A +++    I  +V++ LPP+DFGR+A Q+AKQVI  ++R+
Sbjct: 67  KLKVVEKVMNTHSEIGLGEALEKNSEAKIDDIVNEELPPVDFGRIAAQTAKQVISHQIRD 126

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AERDRQ+ EFKDKVGEI+SG VKR EYGNVIVDL  S+ +IRR+E I RENL+ GDR+K+
Sbjct: 127 AERDRQFEEFKDKVGEILSGIVKRSEYGNVIVDLQKSEAIIRREELIPRENLKNGDRIKA 186

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y YDVRRE +GPQ+ LSR HPQF+ KLFH EVPEIY G + +K+V+RDPGSRAK+ V S 
Sbjct: 187 YCYDVRRESKGPQIFLSRAHPQFLAKLFHQEVPEIYEGTIGIKSVARDPGSRAKICVQSK 246

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           DSSIDPVGACVGMRGSRVQA+V EL+ EKIDI+ W+ D+++ V +AL PA V KV++ ED
Sbjct: 247 DSSIDPVGACVGMRGSRVQAIVNELQGEKIDIINWTEDASSLVKSALSPAEVMKVIIAED 306

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
             RIEV++ ++ LS AIGRRGQNVRLAS+L  + IDI+T++E+S  RQ +F + T+  ++
Sbjct: 307 DRRIEVVIDEDNLSKAIGRRGQNVRLASKLLDYEIDILTDKEESEKRQTEFKDNTEKLVK 366

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
           ++ +D  +A LLVAEGF  +  +A   + E   IEGFDEET+ E+Q RA+EY++     +
Sbjct: 367 SLEIDTTMAQLLVAEGFPTINAIANASLPEFLKIEGFDEETSTELQNRAKEYIQEEAEEV 426

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
            KK++ELG+ ++L +  G+   + + LGE+ IKT++D A  + D+L+G  +   G  EKF
Sbjct: 427 SKKVKELGIEDDLATHKGLSLGMLLILGEDNIKTLKDFAELATDELIGGYDEIKGKREKF 486

Query: 485 DGFLSSLGTPKDQVESMIIHARYKM 509
           DG L      +   + +I+ AR K+
Sbjct: 487 DGILEEFDISRKDADDLIMRARKKV 511


>gi|119774097|ref|YP_926837.1| transcription elongation factor NusA [Shewanella amazonensis SB2B]
 gi|119766597|gb|ABL99167.1| NusA antitermination factor [Shewanella amazonensis SB2B]
          Length = 499

 Score =  592 bits (1526), Expect = e-167,   Method: Composition-based stats.
 Identities = 207/515 (40%), Positives = 321/515 (62%), Gaps = 23/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR 
Sbjct: 2   NKEILLVAEAVSNEKAVPREKIFEALETALATATKKKYEGDIDVRVAIDRKTGDYETFRR 61

Query: 66  LEVVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             VVE+    +EN   +I+L+ A+  +P I +G  + D +  + F R+  Q+AKQVI+QK
Sbjct: 62  WMVVEDNGEALENPYREITLEAAQYENPEIQVGEFIEDEIESVVFDRITTQTAKQVIVQK 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGD 180
           VREAER +   +F DK GEII+G VK+    +VIVDLGN +DGV+ +++ I+RE+ RPGD
Sbjct: 122 VREAERAQVVEQFYDKEGEIITGVVKKSNRDSVIVDLGNNADGVLYKEDLIARESFRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV++ +Y VR E RG Q+ L+RT P+ +++LF +EVPEI + ++QV   +RDPGSRAK+A
Sbjct: 182 RVRALLYAVRPEARGAQLYLTRTKPEMLIELFRVEVPEIADEMIQVMGAARDPGSRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A FVINA+ PA V  ++
Sbjct: 242 VKSNDRRIDPIGACVGMRGARVQAVSNELGGERVDIVLWDDNPAQFVINAMAPADVASII 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V  + L+ AIGR GQNVRLA+QLTGW ++++T  + +   Q +  +   
Sbjct: 302 VDEDNHSMDIAVEADSLAQAIGRNGQNVRLATQLTGWELNVMTVADMNAKHQAESAKVVA 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM +++VDE  A +L  EGF  +EE+A V ++E+ +I+GFDE+    ++ RA+  +   
Sbjct: 362 LFMASLDVDEDFAQVLADEGFTSLEEVAYVPVAELLAIDGFDEDIVEALRERAKAAISTR 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  ++ +     SEEL ++ G+D  +   L   G+ T+EDLA   +DDL+   E     
Sbjct: 422 ALASEEALDGAEPSEELLNLEGMDRHLAFVLASRGVVTLEDLAEQGIDDLIEIEELTEEK 481

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                              ++I+ AR  + W  +E
Sbjct: 482 -----------------AGALIMAAR-NICWFGEE 498


>gi|227112574|ref|ZP_03826230.1| transcription elongation factor NusA [Pectobacterium carotovorum
           subsp. brasiliensis PBR1692]
          Length = 509

 Score =  592 bits (1526), Expect = e-167,   Method: Composition-based stats.
 Identities = 204/524 (38%), Positives = 316/524 (60%), Gaps = 32/524 (6%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALETALATATKKKYEQEIDVRVSIDRKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV EV   T +I+L+ A+  DP++D+GG V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVNEVTQPTREITLEAAQFEDPALDVGGYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-------NSDGVIRRDETISRENLRP 178
           ER     +F+++ GEII+G VK+V   N+ +++        +++ VI R++ + REN RP
Sbjct: 122 ERAMVVDQFREQEGEIITGVVKKVNRDNISLEVRPIDGSNTSAEAVIGREDMLPRENFRP 181

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDR++  +Y VR E RG Q+ +SR+ P+ +V+LF +EVPEI   ++++KA +RDPGSRAK
Sbjct: 182 GDRIRGVLYSVRPEARGAQLFVSRSRPEMLVELFRIEVPEIGEEVIEIKAAARDPGSRAK 241

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGACVGMRG+RVQAV +EL  E+IDI++W  + A FVINA+ PA V  
Sbjct: 242 IAVKTNDKRIDPVGACVGMRGARVQAVSSELGGERIDIILWDDNPAQFVINAMAPADVVS 301

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTG-------WTIDIITEEEDSINR 351
           +V+DED   +++ V    L+ AIGR GQNVRLASQL         W ++++T E+     
Sbjct: 302 IVVDEDTCTMDIAVESSNLAQAIGRNGQNVRLASQLLKQHRSDDRWELNVMTVEDLQAKH 361

Query: 352 QKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           Q + +     F + +++D+  A +LV EGF+ +EELA V I E+ +IEG DEET   ++ 
Sbjct: 362 QAEAHAAIDVFTKHLDIDDEFATVLVEEGFSSLEELAYVPIKELLAIEGLDEETVEALRE 421

Query: 412 RAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           RA+  L  + +  ++   +   +E+L  +PG+  ++   L   G+ T+EDLA   VDDL 
Sbjct: 422 RAKAALTTLALAHEESRGDGQPAEDLLGLPGLSRELAFKLAAIGVCTLEDLAEQGVDDLT 481

Query: 472 GWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
              E                    +Q   +I+ AR  + W   +
Sbjct: 482 DIEE-----------------LNDEQAGELIMAAR-NICWFGDD 507


>gi|253686985|ref|YP_003016175.1| NusA antitermination factor [Pectobacterium carotovorum subsp.
           carotovorum PC1]
 gi|251753563|gb|ACT11639.1| NusA antitermination factor [Pectobacterium carotovorum subsp.
           carotovorum PC1]
          Length = 509

 Score =  592 bits (1526), Expect = e-167,   Method: Composition-based stats.
 Identities = 205/524 (39%), Positives = 317/524 (60%), Gaps = 32/524 (6%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKAVPREKIFEALETALATATKKKYEQEIDVRVSIDRKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV EV   T +I+L+ A+  D S+D+GG V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVNEVTQPTREITLEAAQFEDSSLDVGGYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-------NSDGVIRRDETISRENLRP 178
           ER     +F+++ GEII+G VK+V   N+ +++        +++ VI R++ + REN RP
Sbjct: 122 ERAMVVDQFREQEGEIITGVVKKVNRDNISLEVRPIDGSNTSAEAVIGREDMLPRENFRP 181

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDR++  +Y VR E RG Q+ +SR+ P+ +V+LF +EVPEI   ++++KA +RDPGSRAK
Sbjct: 182 GDRIRGVLYSVRPEARGAQLFVSRSRPEMLVELFRIEVPEIGEEVIEIKAAARDPGSRAK 241

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGACVGMRG+RVQAV +EL  E+IDI++W  + A FVINA+ PA V  
Sbjct: 242 IAVKTNDKRIDPVGACVGMRGARVQAVSSELGGERIDIILWDDNPAQFVINAMAPADVVS 301

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTG-------WTIDIITEEEDSINR 351
           +V+DED   +++ V    L+ AIGR GQNVRLASQL         W ++++T E+     
Sbjct: 302 IVVDEDTCTMDIAVESSNLAQAIGRNGQNVRLASQLLKQHRSDDRWELNVMTVEDLQAKH 361

Query: 352 QKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           Q + +     F + +++D+  A +LV EGF+ +EELA V I E+ +IEG DEET   ++ 
Sbjct: 362 QAEAHAAIDVFTKHLDIDDEFATVLVEEGFSSLEELAYVPIKELLAIEGLDEETVEALRE 421

Query: 412 RAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           RA+  L  + +  ++ + +   +E+L S+PG+  ++   L   G+ T+EDLA   VDDL 
Sbjct: 422 RAKAALTTLALAHEESLGDGQPAEDLLSLPGLSRELAFKLAAIGVCTLEDLAEQGVDDLT 481

Query: 472 GWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                               G   +Q   +I+ AR  + W   +
Sbjct: 482 DIE-----------------GLNDEQAGELIMAAR-NICWFGDD 507


>gi|515637|gb|AAA20049.1| transcription factor [Salmonella enterica subsp. enterica serovar
           Typhimurium]
          Length = 500

 Score =  591 bits (1524), Expect = e-166,   Method: Composition-based stats.
 Identities = 200/516 (38%), Positives = 316/516 (61%), Gaps = 24/516 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLIVEEVTMPTKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPG 179
           ER     +F+D+ GEI++G VK+V   N+ +++      GN++ VI R++ + REN RPG
Sbjct: 122 ERAMVVDQFRDQEGEIVTGVVKKVNRDNISLEIKSEGMAGNAEAVILREDMLPRENFRPG 181

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR++  +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+
Sbjct: 182 DRIRGVLYAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKI 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV ++D  IDPVGACVGMR +RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +
Sbjct: 242 AVKTNDKRIDPVGACVGMRRARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASI 301

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           V+DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +   
Sbjct: 302 VVDEDKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAI 361

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + F + +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  
Sbjct: 362 EIFTKYLDIDEEFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALAT 421

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           +    +  + +   +++L ++ G+D  +   L   G+ T+EDLA   +D L         
Sbjct: 422 LAQDQEASLGDNKPADDLLNLEGVDRDMAFKLAARGVCTLEDLAQQGIDHLADIE----- 476

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                       G   ++  ++II AR  + W   E
Sbjct: 477 ------------GLTDEKAGALIIAAR-NICWFGDE 499


>gi|91228266|ref|ZP_01262202.1| transcription elongation factor NusA [Vibrio alginolyticus 12G01]
 gi|254229307|ref|ZP_04922724.1| transcription termination factor NusA domain protein [Vibrio sp.
           Ex25]
 gi|262393381|ref|YP_003285235.1| transcription termination protein NusA [Vibrio sp. Ex25]
 gi|269966859|ref|ZP_06180932.1| N utilization substance protein A [Vibrio alginolyticus 40B]
 gi|91188143|gb|EAS74445.1| transcription elongation factor NusA [Vibrio alginolyticus 12G01]
 gi|151938115|gb|EDN56956.1| transcription termination factor NusA domain protein [Vibrio sp.
           Ex25]
 gi|262336975|gb|ACY50770.1| transcription termination protein NusA [Vibrio sp. Ex25]
 gi|269828526|gb|EEZ82787.1| N utilization substance protein A [Vibrio alginolyticus 40B]
          Length = 495

 Score =  591 bits (1524), Expect = e-166,   Method: Composition-based stats.
 Identities = 204/511 (39%), Positives = 323/511 (63%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG+   +R 
Sbjct: 2   SKEILAVAEAVSNEKAVPRERIFEALEIALATSTKKKYEIEIDVRVAIDRKTGEFVTYRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV++VEN T +ISL+ A+  D SI++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVDDVENPTKEISLEAAQYEDDSIELGDYVEDEIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  G++I+G VK+V    +++DLGN ++ VI RD+ + REN RPGDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGDLITGVVKKVNRDTIVLDLGNNAEAVILRDDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   I+++K  +RDPGSRAK+AV ++
Sbjct: 182 LLYKVAPEARGFQLFITRSKPEMLAELFRVEVPEIAEDIIELKGAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +      ++     + FM+
Sbjct: 302 AHSMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADLQKKHAEESQASIENFMK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++++E  A LLV EGF+ +EE+A V ++E+  I+G +EE   E++GRA++ L  I +  
Sbjct: 362 YLDIEEDFAQLLVEEGFSTLEEIAYVPVNELLEIDGLNEELIEELRGRAKDALTTIALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++    L  +E+L ++ G++ ++   L   G+ T+EDLA   +DDL G            
Sbjct: 422 EESFEGLEPAEDLLALEGLEREMAFKLAAKGVATLEDLADQGIDDLEGIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G  +++   +I+ AR  + W  +E
Sbjct: 472 -------GLTEERAGELIMAAR-NICWFGEE 494


>gi|170727895|ref|YP_001761921.1| transcription elongation factor NusA [Shewanella woodyi ATCC 51908]
 gi|169813242|gb|ACA87826.1| NusA antitermination factor [Shewanella woodyi ATCC 51908]
          Length = 499

 Score =  590 bits (1523), Expect = e-166,   Method: Composition-based stats.
 Identities = 201/515 (39%), Positives = 317/515 (61%), Gaps = 23/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK + R+ +   +  ++  A +  Y    ++RV+I+ +TG    FR 
Sbjct: 2   NKEILLVAEAVSNEKGVPREKIFEALEIALATATKKKYEGDIEVRVQIDRKTGGYETFRR 61

Query: 66  LEVVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             VVE+    +EN   +I+L+ A+  DP I +G  + D +  + F R+  Q+AKQVI+QK
Sbjct: 62  WMVVEDTGEPLENPFSEITLEAAQFEDPEIQLGDYIEDDIESVVFDRITTQTAKQVIVQK 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGD 180
           VREAER +   +F+DK GE+I+G VK+    +V+VDLGN +D V+ +++ ISRE+ RPGD
Sbjct: 122 VREAERAQVVDQFRDKEGELITGVVKKSNRESVVVDLGNNADAVLFKEDLISRESFRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV++ +Y VR E RG Q+ L+RT P  +++LF +EVPEI + ++++   +RDPGSRAK+A
Sbjct: 182 RVRALLYAVRPEARGAQLFLTRTKPDMLIELFRVEVPEIQDEMIEIMGAARDPGSRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A FVINA+ PA V  ++
Sbjct: 242 VKSNDKRIDPIGACVGMRGARVQAVSNELNGERVDIVLWDDNPAQFVINAMSPADVASII 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V  + L+ AIGR GQNVRLA+QL+GW ++++T  +     Q +  +   
Sbjct: 302 VDEDNHSMDIAVEADSLAQAIGRNGQNVRLATQLSGWELNVMTVADMQAKHQAESAKIVN 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F+ A+ VDE  A +L  EGF  +EE+A V  SE+  I+GFDEE    ++ RA+  +   
Sbjct: 362 LFVSALEVDEDFAQVLADEGFTSLEEVAYVPESELMEIDGFDEEIVEALRERAKAAISTR 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  ++ +     SE+L ++ G++  +   L   G+ T+EDLA   +DDL+   E     
Sbjct: 422 ALASEEALDGAEPSEDLLALEGLERHLAFVLASKGVITLEDLAEQGIDDLIDIEE----- 476

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                         +++   +I+ AR  + W  +E
Sbjct: 477 ------------LTEEKAGELIMAAR-NICWFGEE 498


>gi|330830889|ref|YP_004393841.1| transcription elongation factor NusA [Aeromonas veronii B565]
 gi|328806025|gb|AEB51224.1| transcription elongation factor NusA [Aeromonas veronii B565]
          Length = 500

 Score =  590 bits (1523), Expect = e-166,   Method: Composition-based stats.
 Identities = 202/515 (39%), Positives = 314/515 (60%), Gaps = 22/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + DAV+ EK++ R+ +   +  ++  A +  Y    ++RVEI+ +TGD   +R 
Sbjct: 2   NKEILLVVDAVSNEKAVPREKIFQALETALATATKKKYEGEIEVRVEIDRKTGDYDTYRR 61

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             V+ +   +EN   +I+L+ A+   P I IG  V D +  + F R+  Q+AKQVI+QKV
Sbjct: 62  WVVIADQAAMENPYAEITLEAAQIDQPEIQIGEYVEDQIDSVTFDRITTQTAKQVIVQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER +   +FKDK G IISG VK+    NVI+DLG N++ VI RD+ + RE  RPGDR
Sbjct: 122 REAERSQVVDQFKDKEGTIISGVVKKSNRDNVILDLGSNAEAVIFRDDMLPRETFRPGDR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+  +Y VR E RG Q+ +SR+ P F+ +LF +EVPEI   ++++   +RDPGSRAK+AV
Sbjct: 182 VRGLLYAVRPEARGSQLFVSRSSPDFLKELFRIEVPEIGEEMIEIMGAARDPGSRAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDP+GAC+GMRG+RVQAV  EL  E+ DIV++  + A +VINA+ PA V  +++
Sbjct: 242 KTNDRRIDPIGACIGMRGARVQAVSAELSGERADIVLYDDNPAQYVINAMAPADVASIIV 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   +++ V    L+ AIGR GQNVRLASQLTGW ++++T E+     Q + +     
Sbjct: 302 DEDNHTMDIAVEAANLAQAIGRNGQNVRLASQLTGWELNVMTVEDMRAKHQAENDRIMNL 361

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F   +++D+  A LL+ EGF+ +EE+A V ++E+ +I+G DE+   E++ RA++ L    
Sbjct: 362 FTSTLDIDDDFAGLLMEEGFSTLEEIAFVPVNELLAIDGLDEDMVEELRKRAKDALTTKA 421

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           +  ++    +  SEEL ++ G+  ++  AL   G+ T+EDLA   +DDL           
Sbjct: 422 LAKEESFDGVEPSEELLNLNGLSRELAYALAGRGVGTLEDLAEQGIDDLADIE------- 474

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                     G   ++   +I+ AR  + W  +E+
Sbjct: 475 ----------GLTAEKAGELIMAAR-NICWFGEEQ 498


>gi|28899231|ref|NP_798836.1| transcription elongation factor NusA [Vibrio parahaemolyticus RIMD
           2210633]
 gi|153838305|ref|ZP_01990972.1| transcription elongation factor NusA [Vibrio parahaemolyticus
           AQ3810]
 gi|260362206|ref|ZP_05775190.1| transcription termination factor NusA [Vibrio parahaemolyticus
           K5030]
 gi|260879074|ref|ZP_05891429.1| transcription termination factor NusA [Vibrio parahaemolyticus
           AN-5034]
 gi|260897745|ref|ZP_05906241.1| transcription termination factor NusA [Vibrio parahaemolyticus
           Peru-466]
 gi|260900801|ref|ZP_05909196.1| transcription termination factor NusA [Vibrio parahaemolyticus
           AQ4037]
 gi|28807455|dbj|BAC60720.1| N utilization substance protein A [Vibrio parahaemolyticus RIMD
           2210633]
 gi|149748294|gb|EDM59153.1| transcription elongation factor NusA [Vibrio parahaemolyticus
           AQ3810]
 gi|308088968|gb|EFO38663.1| transcription termination factor NusA [Vibrio parahaemolyticus
           Peru-466]
 gi|308089567|gb|EFO39262.1| transcription termination factor NusA [Vibrio parahaemolyticus
           AN-5034]
 gi|308108198|gb|EFO45738.1| transcription termination factor NusA [Vibrio parahaemolyticus
           AQ4037]
 gi|308111470|gb|EFO49010.1| transcription termination factor NusA [Vibrio parahaemolyticus
           K5030]
 gi|328474233|gb|EGF45038.1| transcription elongation factor NusA [Vibrio parahaemolyticus
           10329]
          Length = 495

 Score =  590 bits (1523), Expect = e-166,   Method: Composition-based stats.
 Identities = 201/511 (39%), Positives = 322/511 (63%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG+   +R 
Sbjct: 2   SKEILAVAEAVSNEKAVPRERIFEALEIALATSTKKKYEIEIDVRVAIDRKTGEFVTYRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV++VE+ T +ISL+ A+  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVDQVESPTKEISLEAAQYEDDSVELGDYVEDEIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  G++I+G VK+V    +++DLGN ++ VI RD+ + REN RPGDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGDLITGVVKKVNRDTIVLDLGNNAEAVILRDDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   I+++K  +RDPGSRAK+AV ++
Sbjct: 182 LLYKVAPEARGFQLFITRSKPEMLEELFRVEVPEIAEEIIELKGAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +      ++     + FM+
Sbjct: 302 AHSMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADLQKKHAEESQASIENFMK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++++E  A LLV EGF+ +EE+A V ++E+  I+G +EE   E++GRA++ L  I +  
Sbjct: 362 YLDIEEDFAQLLVEEGFSTLEEIAYVPVNELLEIDGLNEELVEELRGRAKDALTTIALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++    L  +++L  + G++ ++   L   G+ T+EDLA   +DDL G            
Sbjct: 422 EESFEGLEPADDLLGLEGLEREMAFKLAAKGVATLEDLADQGIDDLEGIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G  +++   +I+ AR  + W  +E
Sbjct: 472 -------GLTEERAGELIMAAR-NICWFGEE 494


>gi|149375756|ref|ZP_01893524.1| N utilization substance protein A [Marinobacter algicola DG893]
 gi|149359881|gb|EDM48337.1| N utilization substance protein A [Marinobacter algicola DG893]
          Length = 497

 Score =  590 bits (1522), Expect = e-166,   Method: Composition-based stats.
 Identities = 211/514 (41%), Positives = 325/514 (63%), Gaps = 23/514 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS-DIRVEINPETGDISLFR 64
             E+L + ++V+ EK +++DV+   +  ++  AA+  Y     DIRV I+  TG+   FR
Sbjct: 2   SKEILLVVESVSNEKGVEKDVIFEAIELALATAAKKRYDDEEADIRVSIDRRTGEYETFR 61

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VV+   V     +++++ A D D S+  G    + +  + FGR+  Q+AKQ+I QKV
Sbjct: 62  RWLVVDNDAVPALGTELTMQEAEDIDKSLQPGDTHEEKVESVAFGRIGAQAAKQIIFQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER +    ++D+VGE++SGTVK+V   NVIVDLG N++ ++ R+  I RE  R GDR
Sbjct: 122 REAERTKIVDSYRDRVGELVSGTVKKVTRDNVIVDLGANAEALLPREHLIPRETFRMGDR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+S + ++R + RGPQ++LSRT PQ +++LF +EVPEI   +++++  +RDPGSRAK+AV
Sbjct: 182 VRSLLQEIRTDHRGPQLILSRTDPQMLIELFRIEVPEIAEELIEIRGAARDPGSRAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGACVGMRGSRVQAV  EL  E++DIV+W  + A  VINA+ PA V  +V+
Sbjct: 242 KTNDRRIDPVGACVGMRGSRVQAVSNELGGERVDIVLWDDNPAQLVINAMAPAEVASIVM 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   +EV V ++ L+ AIGR GQNVRLA+ LTGWT++++TEEE    +++++N   + 
Sbjct: 302 DEDRHTMEVAVAEDNLAQAIGRNGQNVRLATDLTGWTLNVMTEEEAGERQEQEYNSLLEH 361

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F   ++VDE  A +L+ EGF  +EE+A + + E+ +I+GFDEET  E++ RA++ L    
Sbjct: 362 FTGNLDVDEEFAGVLIEEGFTSIEEVAYIPMEEMLAIDGFDEETVTELRRRAKDALLNQA 421

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           +  ++ +     +E+L ++ G+D  +   L   GI+TMEDLA  SVDDLL          
Sbjct: 422 LASEEALEGAEPAEDLLAMDGMDRGLAFKLAGMGIRTMEDLAEQSVDDLLDIE------- 474

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                     G  +++   +I+ AR    W E +
Sbjct: 475 ----------GMEEERAGQLIMAARAP--WFEDQ 496


>gi|260775410|ref|ZP_05884307.1| transcription termination protein NusA [Vibrio coralliilyticus ATCC
           BAA-450]
 gi|260608591|gb|EEX34756.1| transcription termination protein NusA [Vibrio coralliilyticus ATCC
           BAA-450]
          Length = 495

 Score =  590 bits (1522), Expect = e-166,   Method: Composition-based stats.
 Identities = 203/511 (39%), Positives = 322/511 (63%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK + R+ +   +  ++  + +  +    D+RVEI+ +TG+   FR 
Sbjct: 2   SKEILAVAEAVSNEKGVPRERIFEALEIALATSTKKKHEIEIDVRVEIDRKTGEFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEVE+ T +ISL+ A+  D +I+IG  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVEEVESPTKEISLEAAQFDDETIEIGDYVEDEIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  GE+++G VK+V    +++DLGN ++ VI RD+ + REN RPGDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGELVTGVVKKVNRETIVLDLGNNAEAVILRDDQLPRENHRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   I+++K  +RDPGSRAK+AV ++
Sbjct: 182 LLYRVAPEARGFQLFITRSKPEMLAELFRVEVPEIAEEIIELKGAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T E+      ++     + FM+
Sbjct: 302 AHAMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVEDLQKKHAEESQASIENFMK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++++E  A LLV EGF+ +EE+A V ++E+  ++G DE+   E++ RA++ L  + +  
Sbjct: 362 YLDIEEDFAQLLVEEGFSSLEEVAYVPVNELLEVDGLDEDLVEELRNRAKDALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++    L  +E+L ++ G++ ++   L   G+ T+EDLA   +DDL G            
Sbjct: 422 EESFEGLEPAEDLLALEGLEREMAFKLAAKGVATLEDLADQGIDDLEGIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G  ++    +I+ AR  + W  ++
Sbjct: 472 -------GLTEEYAGELIMAAR-NICWFGED 494


>gi|322831213|ref|YP_004211240.1| NusA antitermination factor [Rahnella sp. Y9602]
 gi|321166414|gb|ADW72113.1| NusA antitermination factor [Rahnella sp. Y9602]
          Length = 502

 Score =  590 bits (1522), Expect = e-166,   Method: Composition-based stats.
 Identities = 200/517 (38%), Positives = 315/517 (60%), Gaps = 26/517 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALEIALSTATKKKYEQEIEVRVSIDRKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
              V EV   T +I+L+ A+  DPSID+GG + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVAVNEVTQPTREITLEAAQYEDPSIDLGGYIEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+++ GEI++G VK+V   ++ +DLG N++ VI R++ + REN R GDR++ 
Sbjct: 122 ERAMVVDQFREQQGEIVTGVVKKVNRDSIALDLGSNAEAVILREDMLPRENFRSGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +YDVR E RG Q+ +SR+  + +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYDVRPEARGAQLFVSRSRNEMLIELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDI++W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIILWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLT-------GWTIDIITEEEDSINRQKDFNE 357
              +++ V    L+ AIGR GQNVRLASQL         W ++++T ++     Q + + 
Sbjct: 302 KCTMDIAVEASNLAQAIGRNGQNVRLASQLLKQHRGDDKWELNVMTADDLQAKHQAEAHA 361

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F + + +DE  A +LV EGF+ +EELA V ++E+  I+G DE+T   ++ RA+E L
Sbjct: 362 AIDTFTKYLAIDEDFATVLVEEGFSTLEELAYVPVNELLEIDGLDEDTVDALRERAKEAL 421

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
             + +  ++ + +   +++L ++ G++  +   L   G+ T+EDLA   VDDL       
Sbjct: 422 TTLALAQEESLGDKKPADDLLNLAGLERSMAFKLAAQGVCTLEDLAEQGVDDLADIE--- 478

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                         G   +Q   +I+ AR  + W   
Sbjct: 479 --------------GLTDEQAGELIMAAR-NICWFGD 500


>gi|253991503|ref|YP_003042859.1| transcription elongation factor NusA [Photorhabdus asymbiotica
           subsp. asymbiotica ATCC 43949]
 gi|211638381|emb|CAR67003.1| n utilization substance protein a (nusa protein) (l factor)
           [Photorhabdus asymbiotica subsp. asymbiotica ATCC 43949]
 gi|253782953|emb|CAQ86118.1| n utilization substance protein a (nusa protein) (l factor)
           [Photorhabdus asymbiotica]
          Length = 502

 Score =  590 bits (1521), Expect = e-166,   Method: Composition-based stats.
 Identities = 209/518 (40%), Positives = 316/518 (61%), Gaps = 26/518 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQDIDVRVSIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV   T +I+L+ AR  +P I +G    D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVEEVTQPTREITLEAARFEEPEITLGSYTEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+++ GEII+  VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAMVVDQFREQQGEIITSVVKKVNRENITLDLGNNAEAVILREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +YDVR E RG Q+ +SR+ P+ +V+LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYDVRPEARGAQLFVSRSRPEMLVELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLT-------GWTIDIITEEEDSINRQKDFNE 357
              ++V V    L+ AIGR GQNVRLA+QL         W ++++T +E     Q + + 
Sbjct: 302 KCTMDVAVESNNLAQAIGRNGQNVRLAAQLLKKHRGDDKWELNVMTADELQAKHQAEAHA 361

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F + +++DE  A +LV EGF+ +EELA V I+E+  IEG DEET   ++ RA+  L
Sbjct: 362 SIDIFTKHLDIDEEFATVLVEEGFSTLEELAYVPINELLEIEGLDEETIEVLRERAKAAL 421

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
             +++  ++ + +   +EEL ++ G++  +   L   GI T+EDLA   +DDL       
Sbjct: 422 TTLELAQKESLSDKQPTEELLNLTGMNRTLAFDLAACGICTLEDLAEQGIDDLSDIE--- 478

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                         G   ++   +I+ AR  + W   +
Sbjct: 479 --------------GLNDEKAGELIMAAR-NICWFGDD 501


>gi|254507512|ref|ZP_05119646.1| transcription elongation factor NusA [Vibrio parahaemolyticus 16]
 gi|219549582|gb|EED26573.1| transcription elongation factor NusA [Vibrio parahaemolyticus 16]
          Length = 495

 Score =  590 bits (1521), Expect = e-166,   Method: Composition-based stats.
 Identities = 201/511 (39%), Positives = 317/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  + +  +    D+RVEI+ +TG+   FR 
Sbjct: 2   SKEILAVVEAVSNEKAVPRERIFEALEIALATSTKKKHEIEIDVRVEIDRKTGEFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEVEN T +ISL+ A+  D  I +G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVEEVENPTKEISLEAAQYEDAEIQLGDFVEDDIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  GE+++G VK+V    V++DLGN ++ VI RD+ + REN RPGDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGELVTGVVKKVNRETVVLDLGNNAEAVILRDDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   I+++K  +RDPGSRAK+AV ++
Sbjct: 182 LLYKVAPEARGFQLFITRSKPEMLAELFRVEVPEIAEEIIELKGAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +      ++       FM+
Sbjct: 302 AHSMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADLQKKHAEESQAAIDAFMK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++++E  A LLV EGF+ +EE+A V ++E+  ++G DE+   E++ RA+  L  + +  
Sbjct: 362 HLDIEEDFAQLLVEEGFSTLEEVAYVPVNELLEVDGLDEDLVEELRNRAKNALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++    +  +E+L  + G++ ++   L   G+ T+EDLA   +DDL G            
Sbjct: 422 EESFEGVEPAEDLLGLEGLEREMAFKLAAKGVATLEDLADQGIDDLEGIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G  +++   +I+ AR  + W  ++
Sbjct: 472 -------GLTEERAGELIMAAR-NICWFGED 494


>gi|117619535|ref|YP_857795.1| transcription elongation factor NusA [Aeromonas hydrophila subsp.
           hydrophila ATCC 7966]
 gi|117560942|gb|ABK37890.1| transcription elongation protein NusA [Aeromonas hydrophila subsp.
           hydrophila ATCC 7966]
          Length = 500

 Score =  589 bits (1520), Expect = e-166,   Method: Composition-based stats.
 Identities = 202/515 (39%), Positives = 314/515 (60%), Gaps = 22/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + DAV+ EK++ R+ +   +  ++  A +  Y    ++RVEI+ +TGD   +R 
Sbjct: 2   NKEILLVVDAVSNEKAVPREKIFQALETALATATKKKYEGEIEVRVEIDRKTGDYDTYRR 61

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             V+ +   +EN   +I+L+ A+   P I IG  V D +  + F R+  Q+AKQVI+QKV
Sbjct: 62  WVVIADQAAMENPYAEITLEAAQIEQPEIQIGEYVEDQIDSVTFDRITTQTAKQVIVQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER +   +FKDK G IISG VK+    NVI+DLG N++ VI RD+ + RE  RPGDR
Sbjct: 122 REAERSQVVDQFKDKEGTIISGVVKKSNRDNVILDLGSNAEAVIFRDDMLPRETFRPGDR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++  +Y VR E RG Q+ +SR+ P F+ +LF +EVPEI   ++++   +RDPGSRAK+AV
Sbjct: 182 IRGLLYAVRPEARGSQLFVSRSSPDFLKELFRIEVPEIGEEMIEIMGAARDPGSRAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDP+GAC+GMRG+RVQAV  EL  E+ DIV++  + A +VINA+ PA V  +++
Sbjct: 242 KTNDRRIDPIGACIGMRGARVQAVSAELSGERADIVLYDDNPAQYVINAMAPADVASIIV 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   +++ V    L+ AIGR GQNVRLASQLTGW ++++T E+     Q + +     
Sbjct: 302 DEDNHTMDIAVEAANLAQAIGRNGQNVRLASQLTGWELNVMTVEDMRAKHQAENDRILTL 361

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F   +++D+  A LL+ EGF+ +EE+A V ++E+ +I+G DE+   E++ RA++ L    
Sbjct: 362 FTSTLDIDDDFASLLMEEGFSTLEEIAFVPVNELLAIDGLDEDMVEELRKRAKDALTTKA 421

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           +  ++    +  SEEL ++ G+  ++  AL   GI T+EDLA   +DDL           
Sbjct: 422 LAKEESFEGVEPSEELLNLNGLGREMAYALAARGIGTLEDLAEQGIDDLADIE------- 474

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                     G   ++   +I+ AR  + W  +E+
Sbjct: 475 ----------GLTAEKAGELIMAAR-NICWFGEEQ 498


>gi|311695959|gb|ADP98832.1| transcription elongation factor NusA [marine bacterium HP15]
          Length = 497

 Score =  589 bits (1520), Expect = e-166,   Method: Composition-based stats.
 Identities = 209/514 (40%), Positives = 326/514 (63%), Gaps = 23/514 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFR 64
             E+L + ++V+ EK +++DV+   +  ++  AA+  +    +DIRV I+ +TG+   FR
Sbjct: 2   SKEILLVVESVSNEKGVEKDVIFEAIELALATAAKKRFEDEEADIRVSIDRKTGEYETFR 61

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VV+   V     +++L+ A + DP++  G +  + +    FGR+  Q+AKQ+I QKV
Sbjct: 62  RWLVVDNDAVPALGTELTLQEAEEIDPALKPGDIHEEKIESEAFGRIGAQAAKQIIFQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER +    ++D+VGE++SGTVK+V   NVIVDLG N++ ++ R+  I RE  R GDR
Sbjct: 122 REAERTKIVDSYRDRVGELVSGTVKKVTRDNVIVDLGANAEALLPREFLIPRETFRMGDR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+S + ++R + RGPQ++LSRT PQ +++LF +EVPEI   +++++  +RDPGSRAK+AV
Sbjct: 182 VRSLLLEIRTDHRGPQLILSRTSPQMLIELFRIEVPEIAEDLIEIRGAARDPGSRAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGACVGMRGSRVQAV  EL  E++DIV+W  + A  VINA+ PA V  +V+
Sbjct: 242 KTNDRRIDPVGACVGMRGSRVQAVSNELGGERVDIVLWDDNPAQLVINAMAPAEVASIVM 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   +EV V ++ L+ AIGR GQNVRLA+ LTGWT++++TEEE    ++++++   + 
Sbjct: 302 DEDRHTMEVAVAEDNLAQAIGRNGQNVRLATDLTGWTLNVMTEEEAGERQEQEYSRLVEH 361

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F   ++VDE  A +L+ EGF  +EE+A V + E+ +IEGFDEET  E++ RA++ L    
Sbjct: 362 FTGNLDVDEEFAGVLIEEGFTSIEEVAYVPMEEMLAIEGFDEETVTELRRRAKDVLLNQA 421

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           +  ++ +     +E+L  + G+D  +   L   G++TMEDLA  SV DLL          
Sbjct: 422 LASEEALEGAEPAEDLLGMDGMDRSLAFKLAGMGVRTMEDLAEQSVGDLLEIE------- 474

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                     G  +++   +I+ AR    W E +
Sbjct: 475 ----------GMDEERAGQLIMTARAP--WFEDQ 496


>gi|229525295|ref|ZP_04414700.1| transcription termination protein NusA [Vibrio cholerae bv.
           albensis VL426]
 gi|229338876|gb|EEO03893.1| transcription termination protein NusA [Vibrio cholerae bv.
           albensis VL426]
          Length = 495

 Score =  589 bits (1520), Expect = e-166,   Method: Composition-based stats.
 Identities = 202/511 (39%), Positives = 316/511 (61%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG    FR 
Sbjct: 2   SKEILAVVEAVSNEKAVPRERIFEALETALATSTKKKYEIEIDVRVAIDRKTGAFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE VE+ T +IS   A   D S+ +G  + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVENVEHPTKEISFDAASFDDDSVQLGDYIEDQIDSVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  GE+++G VK+V    VI+DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGELVTGVVKKVNRETVILDLGNNAEAVILREDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 LLYKVAPEARGFQLFITRSKPEMLAELFRVEVPEIGEELIELKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIMDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +     Q++     + FM+
Sbjct: 302 AHSMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADLQKKHQEESMASIENFMK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++++  A LLV EGF+ +EE+A V ++E+  ++G DE+ A E++ RA+E L  I +  
Sbjct: 362 YLDIEQDFAELLVEEGFSTLEEIAYVPMNELLDVDGMDEDLADELRSRAKEALTTIALAK 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++    L  +E+L ++ G++  +   L   G+ T+EDLA   VDDL G            
Sbjct: 422 EESFEGLEPAEDLLALAGLERDMAFKLAAKGVATLEDLADQGVDDLEGIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G  + +   +I+ AR  + W  ++
Sbjct: 472 -------GLTEQRAGELIMAAR-NICWFGED 494


>gi|296533459|ref|ZP_06896041.1| transcription elongation factor NusA [Roseomonas cervicalis ATCC
           49957]
 gi|296266214|gb|EFH12257.1| transcription elongation factor NusA [Roseomonas cervicalis ATCC
           49957]
          Length = 525

 Score =  589 bits (1520), Expect = e-166,   Method: Composition-based stats.
 Identities = 283/522 (54%), Positives = 370/522 (70%), Gaps = 18/522 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
           R ELLQ+A+AVA EK I+RD VL  M  +IQKA R+ YG   DIR  I+  TG++ L R 
Sbjct: 9   RPELLQVAEAVAREKMIERDEVLEAMEQAIQKAGRAKYGHEKDIRAVIDRRTGEVKLSRW 68

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
            EVVE+  VEN   QI  ++A+   P I +G  + DPLPP+DFGR+A Q+AKQVI+Q+VR
Sbjct: 69  TEVVEQEPVENEATQIPHRIAQKIKPGIAVGEFIVDPLPPIDFGRIAAQTAKQVIVQRVR 128

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           E ER +Q+ E+KD+VGEII+G VKR EYGN++VDLG ++ ++RRDETI RE  R GDRV+
Sbjct: 129 EVERSKQFNEYKDRVGEIINGVVKRTEYGNLMVDLGRAEALLRRDETIPREAFRNGDRVR 188

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           +YIYDVR E RGPQ+ LSRTHP F+ KLF  EVPEIY+GI+++KAV+RDPGSRAK+AV S
Sbjct: 189 AYIYDVREEPRGPQIFLSRTHPGFLAKLFAQEVPEIYDGIIEIKAVARDPGSRAKMAVIS 248

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D+ TFV+NAL PA V+KVV+D+
Sbjct: 249 RDSSIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSADNPTFVVNALAPAEVSKVVMDD 308

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D  R+EV+VP +QLSLAIGRRGQNVRLASQLT W IDI+TE E+S  RQ++F +RT  F+
Sbjct: 309 DSKRVEVVVPDDQLSLAIGRRGQNVRLASQLTRWDIDILTEAEESERRQEEFRKRTGLFV 368

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
           +A++VD++IA LLV EGF  +EEL  V   ++A IEGFDE  A E++ R++ +L+  D  
Sbjct: 369 EALDVDDVIAGLLVTEGFGSIEELMEVPDEDLAEIEGFDENVAAELKRRSQAFLDRRDQE 428

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
           L +K + LGV + +    G    + V LGE G+KT++DLA  + D+L+            
Sbjct: 429 LDEKRQALGVEDAVAEAGGFTPAMLVTLGEKGVKTLDDLADLAADELIE----------- 477

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
               L +    +D   ++I+ AR    W  +E   D     A
Sbjct: 478 ---ILGTEAVDEDTANAIIMAAREH--WFAQEGNQDGGAAQA 514


>gi|192361293|ref|YP_001980958.1| transcription elongation factor NusA [Cellvibrio japonicus Ueda107]
 gi|190687458|gb|ACE85136.1| N utilization substance protein A [Cellvibrio japonicus Ueda107]
          Length = 493

 Score =  589 bits (1519), Expect = e-166,   Method: Composition-based stats.
 Identities = 216/510 (42%), Positives = 331/510 (64%), Gaps = 22/510 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +ADAV+ EK +D++++   +  ++  A +  +   S I V IN  TGD   +R 
Sbjct: 2   NKEILLVADAVSNEKGVDKELIFQAIETALATATKKRFDEDSTIEVIINRTTGDYETWRS 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
            +VV +  +     Q +L+ A ++D S+  G V  + +   +FGR+A Q+AKQVI+QKVR
Sbjct: 62  WDVVSDDILAELGTQFTLEEAHEKDTSLKAGDVYREKIENAEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +   E++D++GE++SGTVK+V   ++IVDLGN ++GV+ RD+ I RE  R GDRV
Sbjct: 122 EAERAQMVDEYRDRMGELVSGTVKKVTRDSIIVDLGNNAEGVLPRDQLIGREIFRMGDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + DVR E RGPQ+LLSR+ PQ +V+LF +EVPEI   ++++K  +RDPG RAK+AV 
Sbjct: 182 RALLLDVRTEARGPQLLLSRSAPQMLVELFKIEVPEIAEEVIEIKGAARDPGLRAKIAVK 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           ++D  IDPVGACVGMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA +  +V+D
Sbjct: 242 TNDGRIDPVGACVGMRGSRVQAVSNELGGERVDIVLWDDNPAQFVINAMSPAEIESIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V +E L++AIGR GQNVRLA +LTGW I++++  +    ++ +     Q F
Sbjct: 302 EDARSMDLAVNEENLAMAIGRGGQNVRLACELTGWNINVMSVADWQAKQEAESGSYIQIF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M A++VDE IA +LV EGF  +EE+A V + E+ +I+GFD++ A E++ RA++ L    +
Sbjct: 362 MSALDVDEDIAGVLVEEGFTTLEEVAYVPLEEMLAIDGFDQDIAEELRARAKDALLTQAL 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++++  +  +E+L S+ G+DS++ + L   GI TMEDLA  S+DDLL           
Sbjct: 422 ASEERLEGVAPAEDLLSMEGMDSQLAIRLASRGIVTMEDLAEQSIDDLLDIE-------- 473

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
                    G  + +  ++I+ AR    W 
Sbjct: 474 ---------GVDETRAAALIMKAREP--WF 492


>gi|74316716|ref|YP_314456.1| NusA antitermination factor [Thiobacillus denitrificans ATCC 25259]
 gi|74056211|gb|AAZ96651.1| NusA antitermination factor [Thiobacillus denitrificans ATCC 25259]
          Length = 492

 Score =  589 bits (1519), Expect = e-166,   Method: Composition-based stats.
 Identities = 211/509 (41%), Positives = 327/509 (64%), Gaps = 23/509 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +ADA+A EK++D++VV   +  ++  A +  +   SD+RV I+ ETGD   FR   
Sbjct: 4   EMLMLADALAREKNVDKEVVFEALEQALASATKKRFKEESDVRVAIDRETGDYESFRRWL 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV   E+E+   QI L  A+D+ P I+IG  + +PL  ++FGR+  Q+AKQVI+QK+R+A
Sbjct: 64  VVTEAELESEGYQILLVDAQDKIPDIEIGDYIEEPLENVEFGRIGAQAAKQVILQKIRDA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F  +   +++G VKR++ GN I++ G  +G + RD+ I RENLR GDRV++Y
Sbjct: 124 EREQIISDFLARKEHLVNGVVKRIDRGNAIIESGRVEGFLHRDQMIPRENLRVGDRVRAY 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  + R  RGPQV+LSRT P+F++KLF +EVPEI  G++++KA +RDPG RAK+AV S D
Sbjct: 184 LLRIDRGNRGPQVVLSRTAPEFIMKLFELEVPEIEEGLLEIKAAARDPGLRAKIAVVSHD 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDP+G C+G+RGSRV +V  EL  E++DI+ WS D A +VINAL PA V+ +V+DED 
Sbjct: 244 PRIDPIGTCIGLRGSRVTSVTNELAGERVDIIHWSADPAQYVINALAPAEVSSIVVDEDT 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++V+V +EQL++AIGR GQNVRLAS+LTGW ++I++ E     +  +  +  Q F++ 
Sbjct: 304 HSMDVVVDEEQLAMAIGRGGQNVRLASELTGWELNIMSREAAEEKQSSESQKTLQLFIEK 363

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE +A +LV EGF+ +EE+A V ++E+  IE FDE    E++ RAR  L    I  +
Sbjct: 364 LDVDEEVAQILVDEGFSTLEEVAYVPLNEMLEIEAFDEALVNELRNRARNALLTAAIVGE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFD 485
           +++     + +L S+ G+D++    L   G+ T EDLA  +VD+L   +           
Sbjct: 424 EQVEAS--AGDLLSLDGMDAETARLLASKGVHTTEDLAELAVDELTEMA----------- 470

Query: 486 GFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                     ++ + +I+ AR    W  +
Sbjct: 471 ------AMDAERAKQLIMAARAP--WFAQ 491


>gi|330447378|ref|ZP_08311027.1| transcription termination/antitermination L factor [Photobacterium
           leiognathi subsp. mandapamensis svers.1.1.]
 gi|328491569|dbj|GAA05524.1| transcription termination/antitermination L factor [Photobacterium
           leiognathi subsp. mandapamensis svers.1.1.]
          Length = 495

 Score =  588 bits (1518), Expect = e-166,   Method: Composition-based stats.
 Identities = 199/511 (38%), Positives = 312/511 (61%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  +    D+RV I+ +TG+   FR 
Sbjct: 2   NKEILAVVEAVSNEKAVPRERIFEALEIALATATKKKHEAEIDVRVTIDRKTGEFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            + VEEV   T +I+L+ A+  +P +  G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WKAVEEVTQPTLEITLEAAQFENPELVEGDYVEDEIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  GE+I+G VK+V    VI+DLGN ++ VI+RD+ + REN RPGDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGELITGIVKKVNRDAVIIDLGNNAEAVIQRDDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E RG Q+ ++R+ P+ + +LF +EVPE+   ++++   +RDPGSRAK+AV ++
Sbjct: 182 LLYKVAPEARGFQLFMTRSKPEMLSELFRIEVPEMGEELIELMGAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A +VINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDENPAQYVINAMAPAEVDSIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V K+ L+ AIGR GQNVRLASQLTGW ++++T E+     Q++  E  + F +
Sbjct: 302 NHTMDIAVQKDNLAQAIGRSGQNVRLASQLTGWELNVMTVEDLQKKHQEEAKESIEVFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF  +EE+A V +SE+  +EG DE+   +++ RA+  L  + +  
Sbjct: 362 HLDIDEEFATVLVEEGFTTLEEIAYVPVSELMEVEGLDEDLIEQLRSRAKAALTTLALAK 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ +     +E+L  + G++ ++   L   GI T+EDLA    DDL              
Sbjct: 422 EESLDGAEPAEDLLGLEGLERELAFKLAAKGICTLEDLADQGTDDLTDIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G    +   +I+ AR  + W   E
Sbjct: 472 -------GVDDAKAGELIMAAR-NICWFSDE 494


>gi|120556256|ref|YP_960607.1| transcription elongation factor NusA [Marinobacter aquaeolei VT8]
 gi|120326105|gb|ABM20420.1| NusA antitermination factor [Marinobacter aquaeolei VT8]
          Length = 497

 Score =  588 bits (1518), Expect = e-166,   Method: Composition-based stats.
 Identities = 203/514 (39%), Positives = 326/514 (63%), Gaps = 23/514 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFR 64
             E+L + ++V+ EK +++DV+   +  ++  AA+  Y    +DIRV I+  TG+   FR
Sbjct: 2   SKEILLVVESVSNEKGVEKDVIFEAIELALATAAKKRYEDEEADIRVAIDRRTGEYETFR 61

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VV+   V     +++L+ A + D ++  G +  + +  + FGR+  Q+AKQ+I QKV
Sbjct: 62  RWLVVDNDAVPALGTELTLQEAEEIDTNLKPGDMYEEKVESVAFGRIGAQAAKQIIFQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER +    ++D++GE++SGTVK+V   NVIVDLG N++ ++ R+  I RE  R GDR
Sbjct: 122 REAERMKIVDSYRDRIGELVSGTVKKVTRDNVIVDLGGNAEALLPREHLIPRETFRMGDR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ + ++R + RGPQ++LSRT  Q +++LF +EVPEI   +++++  +RDPGSRAK+AV
Sbjct: 182 VRALLLEIRTDHRGPQLILSRTDSQMLIELFRIEVPEIAEELIEIRGAARDPGSRAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGACVGMRGSRVQAV  EL  E++DIV++  + A  VINA+ PA V  +V+
Sbjct: 242 KTNDRRIDPVGACVGMRGSRVQAVSNELGGERVDIVLYDDNPAQLVINAMAPAEVASIVM 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   ++V V ++ L+ AIGR GQNVRLA++LTGWT++++TEEE    +++++N   + 
Sbjct: 302 DEDRHTMDVAVAEDNLAQAIGRNGQNVRLATELTGWTLNVMTEEEAGERQEQEYNRLLEH 361

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F   ++VDE  A +L+ EGF  +EE+A V + E+ +IEGFDEET  E++ RA++ L    
Sbjct: 362 FTAHLDVDEEFAGVLIEEGFTSIEEVAYVPMEEMLAIEGFDEETVTELRRRAKDVLLNQA 421

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           +  ++ +      ++L ++ G+D  +   L   G++TMEDLA  S+D+LL          
Sbjct: 422 LASEEALEGAEPEDDLLNMDGMDRALAFKLAGMGVRTMEDLAEQSIDELLEIE------- 474

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                     G  +++   +I+ AR    W E +
Sbjct: 475 ----------GMDEERAGQLIMTARAP--WFEDQ 496


>gi|315634096|ref|ZP_07889385.1| N utilization substance A [Aggregatibacter segnis ATCC 33393]
 gi|315477346|gb|EFU68089.1| N utilization substance A [Aggregatibacter segnis ATCC 33393]
          Length = 498

 Score =  588 bits (1518), Expect = e-166,   Method: Composition-based stats.
 Identities = 200/515 (38%), Positives = 317/515 (61%), Gaps = 24/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + R+ +   +  +I  + +  Y    D+RV IN +TG+   FR 
Sbjct: 2   SKEILLAAEAVSNEKLLPREKIFEALESAIALSTKKKYEYDVDVRVAINTKTGEFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV N T +I+L+ AR  DP+  IG  V D +  + F R+A+Q+A+QVI  K+REA
Sbjct: 62  WLVVEEVNNPTKEITLEAARFEDPNAQIGDYVEDQIESIAFDRIAMQTARQVISTKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-----NSDGVIRRDETISRENLRPGD 180
           ER +   +F+ K G+II+ TVK+    +VI+D+       ++ V+ R++ + REN RPGD
Sbjct: 122 ERSKIVDQFRSKEGQIITATVKKSNRDSVILDVNGEDGNKAEAVMLREDMLPRENFRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV+  +Y V  E +G Q+ ++R  P+ +++LF +EVPEI   ++++++ +RDPGSRAK+A
Sbjct: 182 RVRGVLYKVSPESKGAQLFVTRAKPEMLIELFRLEVPEIGEELIEIRSAARDPGSRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +V
Sbjct: 242 VKSNDKRIDPVGACVGMRGARVQAITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIV 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V +  L+ AIGR GQNVRLA+QLTGW ++++T ++ +   Q + ++   
Sbjct: 302 VDEDKHAMDIAVEEANLAQAIGRNGQNVRLATQLTGWVLNVMTTQDLNAKHQAEDDKVLN 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLEG 419
            F+ A+ +DE  A LL+ EGF+ +EELA V +SE+ +I+G  DE+   E+Q RA+  +  
Sbjct: 362 LFIDALEIDEEFAQLLIDEGFSTLEELAYVSVSELTAIDGLEDEDLVEELQTRAKNAITA 421

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
             +  ++ +++  + + L ++ G++  I   L E  I T+EDLA   VDDL         
Sbjct: 422 KALAEEEALKKAKIEDRLLNLEGMNRHIAFKLAEKQITTLEDLAEQGVDDLADIE----- 476

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                       G   +Q   +I+ AR  + W  +
Sbjct: 477 ------------GLSAEQAADLIMAAR-NICWFTE 498


>gi|323491074|ref|ZP_08096266.1| transcription elongation factor NusA [Vibrio brasiliensis LMG
           20546]
 gi|323314738|gb|EGA67810.1| transcription elongation factor NusA [Vibrio brasiliensis LMG
           20546]
          Length = 495

 Score =  588 bits (1518), Expect = e-166,   Method: Composition-based stats.
 Identities = 203/512 (39%), Positives = 319/512 (62%), Gaps = 19/512 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  + +  +    D+RVEI+ +TG+   FR 
Sbjct: 2   SKEILAVVEAVSNEKAVPRERIFEALEIALATSTKKKHEIEIDVRVEIDRKTGEFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEVEN T +ISL+ A+  D  I +G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVEEVENPTKEISLEAAQYEDAEIQLGDFVEDDIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  GE+++G VK+V    V++DLGN ++ VI RD+ + REN RPGDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGELVTGVVKKVNRETVVLDLGNNAEAVILRDDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   I+++K  +RDPGSRAK+AV ++
Sbjct: 182 LLYKVAPEARGFQLFITRSKPEMLAELFRVEVPEIAEEIIELKGAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T E+      ++     + FM+
Sbjct: 302 ANAMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVEDLHKKHAEESQAAIEGFMK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++++E  A LLV EGF+ +EE+A V ++E+  ++G DE+   E++ RA+  L  + +  
Sbjct: 362 HLDIEEDFAQLLVEEGFSTLEEVAYVPVNELLEVDGLDEDLVEELRNRAKNALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++    +  +E+L  + G++ ++   L   G+ T+EDLA   +DDL G            
Sbjct: 422 EESFEGVEPAEDLLGLEGLEREMAFKLAAKGVATLEDLADQGIDDLEGIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                  G  +++   +I+ AR  + W   E+
Sbjct: 472 -------GLTEERAGELIMAAR-NICWFGDEE 495


>gi|260914257|ref|ZP_05920730.1| N utilization substance A [Pasteurella dagmatis ATCC 43325]
 gi|260631890|gb|EEX50068.1| N utilization substance A [Pasteurella dagmatis ATCC 43325]
          Length = 494

 Score =  588 bits (1518), Expect = e-166,   Method: Composition-based stats.
 Identities = 199/511 (38%), Positives = 320/511 (62%), Gaps = 20/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + R+ +   +  ++  + +  Y    D+RV IN +TG+   FR 
Sbjct: 2   SKEILLAAEAVSNEKLLPREKIFEALESALALSTKKKYEQEIDVRVVINTKTGEFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV N T +I+L+ A+  DP++ +G  V D +  + F R+ +Q+A+QVI  K+REA
Sbjct: 62  WLVVEEVTNPTKEITLEAAQFEDPNVQLGDYVEDQIESVAFDRITMQTARQVISTKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER++   +F+ + GEI++GTVK+V   N+++DLG  ++ V+ R++ + REN RPGDRV+ 
Sbjct: 122 ERNKIVEQFRSQEGEIVTGTVKKVNRDNIVLDLGQQAEAVMLREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E +G Q+ ++R  P+ +++LF +EVPEI   ++++K  +RDPGSRAK+AV ++
Sbjct: 182 VLYKVSPENKGAQLFVTRAKPEMLIELFRIEVPEIGEELIEIKNAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLA+QLTGWT++++T +E +   Q + N+  + FM 
Sbjct: 302 SHSMDIAVESANLAQAIGRNGQNVRLATQLTGWTLNVMTTDELNQKHQAEDNKVLKLFMN 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLEGIDIT 423
            + +DE  AH+L+ EGF+ +EELA V ++E+ SI+G  DE+   E+Q RA+  +    + 
Sbjct: 362 TLEIDEEFAHILIEEGFSTLEELAYVSVNELTSIDGLEDEDLVEELQTRAKNAITAAALA 421

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            ++ +++  + + L ++ G++  I + L E  I T+E+LA   VDDL             
Sbjct: 422 EEEALKQAHIEDRLLALDGMNRHIALKLAEKNITTLEELAEQGVDDLADIE--------- 472

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                       +Q    I+ AR  + W  +
Sbjct: 473 --------DLTAEQAADFIMAAR-NICWFSE 494


>gi|153826517|ref|ZP_01979184.1| N utilization substance protein A [Vibrio cholerae MZO-2]
 gi|149739697|gb|EDM53904.1| N utilization substance protein A [Vibrio cholerae MZO-2]
          Length = 495

 Score =  588 bits (1518), Expect = e-166,   Method: Composition-based stats.
 Identities = 203/511 (39%), Positives = 317/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG    FR 
Sbjct: 2   SKEILAVVEAVSNEKAVPRERIFEALETALATSTKKKYEIEIDVRVAIDRKTGAFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE VE+ T +IS + A   D S+ +G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVENVEHPTKEISFEAASFDDDSVQLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  GE+++G VK+V    VI+DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGELVTGVVKKVNRETVILDLGNNAEAVILREDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 LLYKVAPEARGFQLFITRSKPEMLAELFRVEVPEIGEELIELKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIMDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +     Q++     + FM+
Sbjct: 302 AHSMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADLQKKHQEESMASIENFMK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++++  A LLV EGF+ +EE+A V ++E+  ++G DE+ A E++ RA+E L  I +  
Sbjct: 362 YLDIEQDFAELLVEEGFSTLEEIAYVPMNELLDVDGMDEDLADELRSRAKEALTTIALAK 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++    L  +E+L ++ G++  +   L   G+ T+EDLA   VDDL G            
Sbjct: 422 EESFEGLEPAEDLLALAGLERDMAFKLAAKGVATLEDLADQGVDDLEGIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G  + +   +I+ AR  + W  ++
Sbjct: 472 -------GLTEQRAGELIMAAR-NICWFGED 494


>gi|15640662|ref|NP_230291.1| transcription elongation factor NusA [Vibrio cholerae O1 biovar El
           Tor str. N16961]
 gi|121728410|ref|ZP_01681438.1| N utilization substance protein A [Vibrio cholerae V52]
 gi|147674353|ref|YP_001216136.1| transcription elongation factor NusA [Vibrio cholerae O395]
 gi|153801994|ref|ZP_01956580.1| N utilization substance protein A [Vibrio cholerae MZO-3]
 gi|153818700|ref|ZP_01971367.1| N utilization substance protein A [Vibrio cholerae NCTC 8457]
 gi|153822531|ref|ZP_01975198.1| N utilization substance protein A [Vibrio cholerae B33]
 gi|153829178|ref|ZP_01981845.1| N utilization substance protein A [Vibrio cholerae 623-39]
 gi|227080823|ref|YP_002809374.1| N utilization substance protein A [Vibrio cholerae M66-2]
 gi|229505736|ref|ZP_04395246.1| transcription termination protein NusA [Vibrio cholerae BX 330286]
 gi|229509231|ref|ZP_04398716.1| transcription termination protein NusA [Vibrio cholerae B33]
 gi|229519560|ref|ZP_04409003.1| transcription termination protein NusA [Vibrio cholerae RC9]
 gi|229608847|ref|YP_002879495.1| transcription elongation factor NusA [Vibrio cholerae MJ-1236]
 gi|254850876|ref|ZP_05240226.1| conserved hypothetical protein [Vibrio cholerae MO10]
 gi|255744141|ref|ZP_05418094.1| transcription termination protein NusA [Vibrio cholera CIRS 101]
 gi|262156117|ref|ZP_06029236.1| transcription termination protein NusA [Vibrio cholerae INDRE 91/1]
 gi|262169941|ref|ZP_06037631.1| transcription termination protein NusA [Vibrio cholerae RC27]
 gi|297580768|ref|ZP_06942694.1| N utilization substance protein A [Vibrio cholerae RC385]
 gi|298500758|ref|ZP_07010561.1| transcription elongation factor NusA [Vibrio cholerae MAK 757]
 gi|9655078|gb|AAF93808.1| N utilization substance protein A [Vibrio cholerae O1 biovar El Tor
           str. N16961]
 gi|121629344|gb|EAX61776.1| N utilization substance protein A [Vibrio cholerae V52]
 gi|124122453|gb|EAY41196.1| N utilization substance protein A [Vibrio cholerae MZO-3]
 gi|126510780|gb|EAZ73374.1| N utilization substance protein A [Vibrio cholerae NCTC 8457]
 gi|126519949|gb|EAZ77172.1| N utilization substance protein A [Vibrio cholerae B33]
 gi|146316236|gb|ABQ20775.1| N utilization substance protein A [Vibrio cholerae O395]
 gi|148875367|gb|EDL73502.1| N utilization substance protein A [Vibrio cholerae 623-39]
 gi|227008711|gb|ACP04923.1| N utilization substance protein A [Vibrio cholerae M66-2]
 gi|227012467|gb|ACP08677.1| N utilization substance protein A [Vibrio cholerae O395]
 gi|229344249|gb|EEO09224.1| transcription termination protein NusA [Vibrio cholerae RC9]
 gi|229353803|gb|EEO18739.1| transcription termination protein NusA [Vibrio cholerae B33]
 gi|229357959|gb|EEO22876.1| transcription termination protein NusA [Vibrio cholerae BX 330286]
 gi|229371502|gb|ACQ61925.1| transcription termination protein NusA [Vibrio cholerae MJ-1236]
 gi|254846581|gb|EET24995.1| conserved hypothetical protein [Vibrio cholerae MO10]
 gi|255738081|gb|EET93473.1| transcription termination protein NusA [Vibrio cholera CIRS 101]
 gi|262021675|gb|EEY40386.1| transcription termination protein NusA [Vibrio cholerae RC27]
 gi|262030153|gb|EEY48798.1| transcription termination protein NusA [Vibrio cholerae INDRE 91/1]
 gi|297535184|gb|EFH74019.1| N utilization substance protein A [Vibrio cholerae RC385]
 gi|297540539|gb|EFH76597.1| transcription elongation factor NusA [Vibrio cholerae MAK 757]
          Length = 495

 Score =  588 bits (1517), Expect = e-166,   Method: Composition-based stats.
 Identities = 202/511 (39%), Positives = 317/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG    FR 
Sbjct: 2   SKEILAVVEAVSNEKAVPRERIFEALETALATSTKKKYEIEIDVRVAIDRKTGAFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE VE+ T +IS + A   D S+ +G  + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVENVEHPTKEISFEAASFDDDSVQLGDYIEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  GE+++G VK+V    VI+DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGELVTGVVKKVNRETVILDLGNNAEAVILREDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 LLYKVAPEARGFQLFITRSKPEMLAELFRVEVPEIGEELIELKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIMDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +     Q++     + FM+
Sbjct: 302 AHSMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADLQKKHQEESMASIENFMK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++++  A LLV EGF+ +EE+A V ++E+  ++G DE+ A E++ RA+E L  I +  
Sbjct: 362 YLDIEQDFAELLVEEGFSTLEEIAYVPMNELLDVDGMDEDLADELRSRAKEALTTIALAK 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++    L  +E+L ++ G++  +   L   G+ T+EDLA   VDDL G            
Sbjct: 422 EESFEGLEPAEDLLALAGLERDMAFKLAAKGVATLEDLADQGVDDLEGIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G  + +   +I+ AR  + W  ++
Sbjct: 472 -------GLTEQRAGELIMAAR-NICWFGED 494


>gi|261212247|ref|ZP_05926533.1| transcription termination protein NusA [Vibrio sp. RC341]
 gi|260838855|gb|EEX65506.1| transcription termination protein NusA [Vibrio sp. RC341]
          Length = 495

 Score =  588 bits (1516), Expect = e-166,   Method: Composition-based stats.
 Identities = 202/511 (39%), Positives = 318/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG    FR 
Sbjct: 2   SKEILAVVEAVSNEKAVPRERIFEALETALATSTKKKYEIEIDVRVAIDRKTGAFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE VE+ T +IS + A   D S+ +G  + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVENVEHPTKEISFEAANFDDESVQMGDYIEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  GE+++G VK+V    VI+DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGELVTGVVKKVNRETVILDLGNNAEAVILREDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 LLYKVAPEARGFQLFITRSKPEMLTELFRVEVPEIGEELIELKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIMDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +     Q++     + FM+
Sbjct: 302 THSMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADLQKKHQEESMASIENFMK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++++  A LLV EGF+ +EE+A V ++E+  ++G DE+ A E++ RA+E L  I +  
Sbjct: 362 YLDIEQDFAELLVEEGFSTLEEIAYVPMNELLDVDGMDEDLAEELRSRAKEALTTIALAK 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++    L  +E+L ++ G++ ++   L   G+ T+EDLA   VDDL G            
Sbjct: 422 EESFEGLEPAEDLLALAGLEREMAFKLAAKGVATLEDLADQGVDDLEGIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G  + +   +I+ AR  + W  ++
Sbjct: 472 -------GLTEQRAGELIMAAR-NICWFGED 494


>gi|213852790|ref|ZP_03382322.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. M223]
          Length = 485

 Score =  588 bits (1516), Expect = e-166,   Method: Composition-based stats.
 Identities = 194/474 (40%), Positives = 305/474 (64%), Gaps = 6/474 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLIVEEVTMPTKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPG 179
           ER     +F+D+ GEI++G VK+V   N+ +++      GN++ VI R++ + REN RPG
Sbjct: 122 ERAMVVDQFRDQEGEIVTGVVKKVNRDNISLEIKSEGMAGNAEAVILREDMLPRENFRPG 181

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR++  +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+
Sbjct: 182 DRIRGVLYAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKI 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +
Sbjct: 242 AVKTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASI 301

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           V+DED   +++ V    L+ AIGR GQNV LASQL+GW ++++T ++     Q + +   
Sbjct: 302 VVDEDKHTMDIAVEAGNLAQAIGRNGQNVHLASQLSGWELNVMTVDDLQAKHQAEAHAAI 361

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + F + +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  
Sbjct: 362 EIFTKYLDIDEEFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALAT 421

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGW 473
           +    +  + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL   
Sbjct: 422 LAQDQEASLGDNKPADDLLNLEGLDRDMAFKLAARGVCTLEDLADQGIDDLADI 475


>gi|163802303|ref|ZP_02196197.1| transcription elongation factor NusA [Vibrio sp. AND4]
 gi|159173832|gb|EDP58646.1| transcription elongation factor NusA [Vibrio sp. AND4]
          Length = 495

 Score =  588 bits (1516), Expect = e-166,   Method: Composition-based stats.
 Identities = 203/511 (39%), Positives = 319/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG+   FR 
Sbjct: 2   SKEILAVAEAVSNEKAVPRERIFEALEIALATSTKKKYEIEIDVRVAIDRKTGEFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE VEN T +IS++ A+  D    +G  V D +P + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVENVENPTKEISIEAAQYEDADAQLGDFVEDDIPSVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  G++I+G VK+V    V++DLGN ++ VI RD+ + RENLRPGDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGDLITGVVKKVNRETVVLDLGNNAEAVILRDDQLPRENLRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   I+++K  +RDPGSRAK+AV ++
Sbjct: 182 LLYKVAPEARGFQLFITRSKPEMLAELFRVEVPEIAEEIIELKGAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D   DPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DKRTDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +      ++     + FM+
Sbjct: 302 AHSMDIAVEADNLAQAIGRSGQNVRLASQLTGWELNVMTVADLQKKHAEESQASIENFMK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++++E  A LLV EGF+ +EE+A V ++E+  ++G +EE   E++ RA++ L  I +  
Sbjct: 362 YLDIEEDFAQLLVEEGFSTLEEIAYVPVNELLDVDGLNEELIEELRTRAKDALTTIALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++    L  +E+L  + G++ ++   L   G+ T+EDLA   +DDL G            
Sbjct: 422 EESFDGLEPAEDLLGLEGLEREMAFKLAAKGVVTLEDLADQGIDDLEG------------ 469

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                + G  +++   +I+ AR  + W  +E
Sbjct: 470 -----TEGLTEERAGELIMAAR-NICWFGEE 494


>gi|121587876|ref|ZP_01677633.1| N utilization substance protein A [Vibrio cholerae 2740-80]
 gi|153215844|ref|ZP_01950176.1| N utilization substance protein A [Vibrio cholerae 1587]
 gi|229512904|ref|ZP_04402371.1| transcription termination protein NusA [Vibrio cholerae TMA 21]
 gi|229520933|ref|ZP_04410355.1| transcription termination protein NusA [Vibrio cholerae TM
           11079-80]
 gi|229530447|ref|ZP_04419835.1| transcription termination protein NusA [Vibrio cholerae 12129(1)]
 gi|121547912|gb|EAX57996.1| N utilization substance protein A [Vibrio cholerae 2740-80]
 gi|124114561|gb|EAY33381.1| N utilization substance protein A [Vibrio cholerae 1587]
 gi|229332220|gb|EEN97708.1| transcription termination protein NusA [Vibrio cholerae 12129(1)]
 gi|229342166|gb|EEO07162.1| transcription termination protein NusA [Vibrio cholerae TM
           11079-80]
 gi|229350153|gb|EEO15106.1| transcription termination protein NusA [Vibrio cholerae TMA 21]
 gi|327483444|gb|AEA77851.1| Transcription termination protein NusA [Vibrio cholerae LMA3894-4]
          Length = 495

 Score =  588 bits (1516), Expect = e-165,   Method: Composition-based stats.
 Identities = 202/511 (39%), Positives = 317/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG    FR 
Sbjct: 2   SKEILAVVEAVSNEKAVPRERIFEALETALATSTKKKYEIEIDVRVAIDRKTGAFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE VE+ T +IS + A   D S+ +G  + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVENVEHPTKEISFEAASFDDESVQLGDYIEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  GE+++G VK+V    VI+DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGELVTGVVKKVNRETVILDLGNNAEAVILREDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 LLYKVAPEARGFQLFITRSKPEMLAELFRVEVPEIGEELIELKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIMDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +     Q++     + FM+
Sbjct: 302 AHSMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADLQKKHQEESMASIENFMK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++++  A LLV EGF+ +EE+A V ++E+  ++G DE+ A E++ RA+E L  I +  
Sbjct: 362 YLDIEQDFAELLVEEGFSTLEEIAYVPMNELLDVDGMDEDLADELRSRAKEALTTIALAK 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++    L  +E+L ++ G++  +   L   G+ T+EDLA   VDDL G            
Sbjct: 422 EESFEGLEPAEDLLALAGLERDMAFKLAAKGVATLEDLADQGVDDLEGIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G  + +   +I+ AR  + W  ++
Sbjct: 472 -------GLTEQRAGELIMAAR-NICWFGED 494


>gi|260771174|ref|ZP_05880101.1| transcription termination protein NusA [Vibrio furnissii CIP
           102972]
 gi|260613771|gb|EEX38963.1| transcription termination protein NusA [Vibrio furnissii CIP
           102972]
 gi|315179220|gb|ADT86134.1| transcription elongation factor NusA [Vibrio furnissii NCTC 11218]
          Length = 495

 Score =  587 bits (1515), Expect = e-165,   Method: Composition-based stats.
 Identities = 200/511 (39%), Positives = 320/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG+ + FR 
Sbjct: 2   SKEILAVVEAVSNEKAVPRERIFEALEIALATSTKKKYEIEIDVRVAIDRKTGEFNTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EVEN T +ISL+ A   D S+ +G  + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVDEVENPTKEISLEAAVYDDESVKLGDFIEDEIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  G++I+G VK+V    VI+DLG N++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGDLITGVVKKVNRDTVILDLGSNAEAVILREDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   ++++K  +RDPGSRAK+AV ++
Sbjct: 182 LLYKVAPEARGFQLFITRSKPEMLAELFRVEVPEIGEELIELKGAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSGELCGERIDIVLWDDNPAQFVINAMAPADVASIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +     Q++     + FM+
Sbjct: 302 AHAMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADLQKKHQEESMASIENFMK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++++  A LLV EGF+ +EE+A V + E+  ++G DE+   E++ RA++ L  I +  
Sbjct: 362 YLDIEQDFAELLVEEGFSTLEEIAYVPVHELLEVDGLDEDLVEELRTRAKDALTTIALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++    L  +E+L ++ G++ ++   L   G+ T+EDLA   +DDL G            
Sbjct: 422 EESYEGLEPAEDLLALEGLEREMAFKLAAKGVATLEDLADQGIDDLEGIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G  +++   +I+ AR  + W  ++
Sbjct: 472 -------GLTEERAGELIMAAR-NICWFGED 494


>gi|258624683|ref|ZP_05719617.1| N utilization substance protein A [Vibrio mimicus VM603]
 gi|258582970|gb|EEW07785.1| N utilization substance protein A [Vibrio mimicus VM603]
          Length = 495

 Score =  587 bits (1515), Expect = e-165,   Method: Composition-based stats.
 Identities = 203/511 (39%), Positives = 319/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG    FR 
Sbjct: 2   SKEILAVVEAVSNEKAVPRERIFEALETALATSTKKKYEIEIDVRVAIDRKTGAFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE VE+ T +IS + A   D S+ +G  + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVENVEHPTKEISFEAASFDDESVQMGDYIEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  GE+++G VK+V    VI+DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGELVTGVVKKVNRETVILDLGNNAEAVILREDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E RG Q+ ++R+ P+ +V+LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 LLYKVAPEARGFQLFITRSKPEMLVELFRVEVPEIGEELIELKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIMDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +     Q++     + FM+
Sbjct: 302 THSMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADLQKKHQEESMASIENFMK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++++  A LLV EGF+ +EE+A V ++E+  ++G DE+ A E++ RA+E L  I +  
Sbjct: 362 YLDIEQDFAELLVEEGFSTLEEIAYVPMNELLDVDGMDEDLAEELRSRAKEALTTIALAK 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++    L  +E+L ++ G++ ++   L   G+ T+EDLA   VDDL G            
Sbjct: 422 EESFEGLEPAEDLLALAGLEREMAFKLAAKGVATLEDLADQGVDDLEGIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G  + +   +I+ AR  + W  ++
Sbjct: 472 -------GLTEQRAGELIMAAR-NICWFGED 494


>gi|312885214|ref|ZP_07744893.1| transcription elongation factor NusA [Vibrio caribbenthicus ATCC
           BAA-2122]
 gi|309367154|gb|EFP94727.1| transcription elongation factor NusA [Vibrio caribbenthicus ATCC
           BAA-2122]
          Length = 495

 Score =  587 bits (1514), Expect = e-165,   Method: Composition-based stats.
 Identities = 198/512 (38%), Positives = 318/512 (62%), Gaps = 19/512 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  + +  +    D+RVEI+ +TG+   FR 
Sbjct: 2   SKEILAVVEAVSNEKAVPRERIFEALEIALATSTKKKHEIEIDVRVEIDRKTGEFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEVEN T +ISL+ A+  D  I +G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVEEVENPTKEISLEAAQYEDAEIQLGDFVEDDIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  GE+++G VK+V    +++DLGN ++ VI RD+ + REN RPGDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGELVTGVVKKVNRDTIVLDLGNNAEAVILRDDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E RG Q+ ++R+ P  + +LF +EVPEI   I+++K  +RDPGSRAK+AV ++
Sbjct: 182 LLYKVAPEARGFQLFITRSKPDMLAELFRVEVPEIAEEIIELKGAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T ++      ++     + FM+
Sbjct: 302 TNTMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVDDLHKKHAEESQAAIENFMK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++++E  A LLV EGF+ +EE+A V ++E+  ++G DEE   E++ RA+  L  + +  
Sbjct: 362 HLDIEEDFAQLLVEEGFSTLEEVAYVPVNELLEVDGLDEELVEELRNRAKNALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++    +  +++L  + G++ ++   L   G+ T+EDLA   +DD+              
Sbjct: 422 EESFEGVEPADDLLGLEGLEREMAFKLAARGVATLEDLAEQGIDDIESIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                  G  +++   +I+ AR  + W  +++
Sbjct: 472 -------GLTEERAGELIMAAR-NICWFGEDE 495


>gi|37528349|ref|NP_931694.1| transcription elongation factor NusA [Photorhabdus luminescens
           subsp. laumondii TTO1]
 gi|36787787|emb|CAE16902.1| N utilization substance protein A (nusA protein) (L factor)
           [Photorhabdus luminescens subsp. laumondii TTO1]
          Length = 502

 Score =  587 bits (1514), Expect = e-165,   Method: Composition-based stats.
 Identities = 211/518 (40%), Positives = 316/518 (61%), Gaps = 26/518 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQDIDVRVSIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV   T +I+L+ AR  +P ID+G    D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVEEVTQPTREITLEAARFEEPEIDLGSYTEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+++ GEII+  VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAMVVDQFREQQGEIITSVVKKVNRENITLDLGNNAEAVILREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +YDVR E RG Q+ +SR+ P+ +V+LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYDVRPEARGAQLFVSRSRPEMLVELFRIEVPEIGEELIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLT-------GWTIDIITEEEDSINRQKDFNE 357
              ++V V    L+ AIGR GQNVRLA+QL         W ++++T EE     Q + + 
Sbjct: 302 KCTMDVAVESNNLAQAIGRNGQNVRLAAQLLKKHRGDDKWELNVMTAEELQAKHQAEAHA 361

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F + +++DE  A +LV EGF+ +EELA V I E+  IEG DEET   ++ RA+  L
Sbjct: 362 SIDTFTKHLDIDEEFATVLVEEGFSTLEELAYVPIKELLEIEGLDEETIEVLRERAKAAL 421

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
             +++  ++ + +   +EEL ++ G++  +   L   GI T+EDLA   +DDL       
Sbjct: 422 TTLELAQKESLSDKQPTEELLNLTGMNRTLAFDLAARGICTLEDLAEQGIDDLSDIE--- 478

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                         G   ++   +I+ AR  + W   +
Sbjct: 479 --------------GLNDEKTGELIMAAR-NICWFGDD 501


>gi|89072574|ref|ZP_01159146.1| transcription elongation factor NusA [Photobacterium sp. SKA34]
 gi|89051678|gb|EAR57131.1| transcription elongation factor NusA [Photobacterium sp. SKA34]
          Length = 495

 Score =  587 bits (1513), Expect = e-165,   Method: Composition-based stats.
 Identities = 200/511 (39%), Positives = 314/511 (61%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  +    ++RV I+ +TG+   FR 
Sbjct: 2   NKEILAVVEAVSNEKAVPRERIFEALEIALATATKKKHEAEIEVRVAIDRKTGEFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            + VEEV   T +I+L+ A+  DP+I  G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WKAVEEVTQPTLEITLEAAQFEDPTIVAGDYVEDDIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  GE+I+G VK+V    VI+DLG N++ VI+RD+ + REN RPGDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGELITGIVKKVNRDAVIIDLGSNAEAVIQRDDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E RG Q+ ++R+ P+ + +LF +EVPE+   ++++   +RDPGSRAK+AV ++
Sbjct: 182 LLYKVAPEARGFQLFMTRSKPEMLCELFRIEVPEMGEELIELMGAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A +VINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELAGERIDIVLWDENPAQYVINAMAPAEVDSIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V K+ L+ AIGR GQNVRLASQLTGW ++++T E+     Q++  E  + F +
Sbjct: 302 NHTMDIAVQKDNLAQAIGRSGQNVRLASQLTGWELNVMTVEDLQKKHQEEAKESIEVFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF  +EE+A V +SE+  ++G DEET  +++ RA+  L  + +  
Sbjct: 362 HLDIDEDFATVLVEEGFTTLEEIAYVPLSELMDVDGLDEETIDQLRSRAKAALTTLALAK 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ +     +E+L  + G++ ++       GI T+EDLA    DDL              
Sbjct: 422 EETLDGAEPAEDLLGLEGLERELAFKFAAKGICTLEDLADQGTDDLTDIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G    +   +I+ AR  + W   E
Sbjct: 472 -------GVDDAKAGELIMAAR-NICWFSDE 494


>gi|262163944|ref|ZP_06031683.1| transcription termination protein NusA [Vibrio mimicus VM223]
 gi|262027472|gb|EEY46138.1| transcription termination protein NusA [Vibrio mimicus VM223]
          Length = 495

 Score =  586 bits (1512), Expect = e-165,   Method: Composition-based stats.
 Identities = 201/511 (39%), Positives = 317/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG    FR 
Sbjct: 2   SKEILAVVEAVSNEKAVPRERIFEALETALATSTKKKYEIEIDVRVAIDRKTGAFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE VE+ T +IS + A   D S+ +G  + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVENVEHPTKEISFEAASFDDESVQMGDYIEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  GE+++G VK+V    VI+DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGELVTGVVKKVNRETVILDLGNNAEAVILREDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            ++ V  E RG Q+ ++R+ P+ + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 LLFKVAPEARGFQLFITRSKPEMLAELFRVEVPEIGEELIELKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIMDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +     Q++     + FM+
Sbjct: 302 THSMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADLQKKHQEESMASIENFMK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++++   A LLV EGF+ +EE+A V ++E+  ++G DE+ A E++ RA+E L  I +  
Sbjct: 362 YLDIEPDFAELLVEEGFSTLEEIAYVPMNELLDVDGMDEDLAEELRSRAKEALTTIALAK 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++    L  +E+L ++ G++ ++   L   G+ T+EDLA   VDDL G            
Sbjct: 422 EESFEGLEPAEDLLALAGLEREMAFKLAAKGVATLEDLADQGVDDLEGIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G  + +   +I+ AR  + W  ++
Sbjct: 472 -------GLTEQRAGELIMAAR-NICWFGED 494


>gi|261253851|ref|ZP_05946424.1| transcription termination protein NusA [Vibrio orientalis CIP
           102891]
 gi|260937242|gb|EEX93231.1| transcription termination protein NusA [Vibrio orientalis CIP
           102891]
          Length = 495

 Score =  586 bits (1512), Expect = e-165,   Method: Composition-based stats.
 Identities = 200/511 (39%), Positives = 321/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  + +  +    D+RVEI+ +TG+   FR 
Sbjct: 2   SKEILAVVEAVSNEKAVPRERIFEALEIALATSTKKKHEMEIDVRVEIDRKTGEFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVE VE+ T +ISL+ A+  DP +++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WEVVEVVESPTKEISLEAAQYEDPELNVGDFVEDDIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  GE+++G VK+V    V++DLGN ++ VI RD+ + REN RPGDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGELVTGVVKKVNRETVVLDLGNNAEAVILRDDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   I+++K  +RDPGSRAK+AV ++
Sbjct: 182 LLYKVAPEARGFQLFITRSKPEMLAELFRVEVPEIAEEIIELKGAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T E+      ++     + FM+
Sbjct: 302 TNTMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVEDLHKKHAEESQAAIESFMK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++++E  A LLV EGF+ +EE+A V ++E+  ++G DE+   E++ RA+  L  + +  
Sbjct: 362 HLDIEEDFAQLLVEEGFSTLEEVAYVPVNELLEVDGLDEDLVEELRSRAKNALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++    +  +E+L  + G++ ++   L   G+ T+EDLA   +DD+ G            
Sbjct: 422 EESFEGVEPAEDLLGLEGLEREMAFKLAAKGVATLEDLADQGIDDIEGIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G  +++   +I+ AR  + W  ++
Sbjct: 472 -------GLTEERAGELIMAAR-NICWFGED 494


>gi|88860547|ref|ZP_01135185.1| transcription elongation factor NusA [Pseudoalteromonas tunicata
           D2]
 gi|88817745|gb|EAR27562.1| transcription elongation factor NusA [Pseudoalteromonas tunicata
           D2]
          Length = 498

 Score =  586 bits (1512), Expect = e-165,   Method: Composition-based stats.
 Identities = 190/514 (36%), Positives = 318/514 (61%), Gaps = 23/514 (4%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
            E+L +A+AV+ EK++ ++ +   +  ++  A +  +    D+RV I+ +TG    FR  
Sbjct: 3   KEILLVAEAVSNEKAVPKEKIFEALEFALATATKKKHDGDIDVRVCIDRKTGAYDTFRRW 62

Query: 67  EVVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           ++VE+    +EN   +I+++ A   DP+  +G  + + +  + F R+  Q+AKQVI+QKV
Sbjct: 63  QIVEDREGGLENPYREITIEAAVYDDPNAKLGDFIEEQIESIKFDRITTQTAKQVIVQKV 122

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDR 181
           REAER      ++D+ GE+++G VK+     +++DLGN ++ VI RD+ + REN RPGDR
Sbjct: 123 REAERALIVEAYQDQEGEMVTGVVKKASREAIVLDLGNNAEAVIYRDDMLPRENFRPGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++  +Y V+ E RG Q+ ++R+ P+ +++LF +EVPEI   +++++  +RDPGSRAK+AV
Sbjct: 183 IRGLLYSVKPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEMIEIRGAARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+D  IDPVGACVGMRG+RVQAV TEL  E+IDIV++  + A FVINA+ PA V  +V+
Sbjct: 243 KSNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLYDDNPAQFVINAMAPAEVASIVM 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   +++ V  + L+ AIGR GQNVRLASQLTGW ++++T ++ +   Q++  +  + 
Sbjct: 303 DEDSRSMDIAVESDNLAQAIGRNGQNVRLASQLTGWELNVMTVDDMNKKNQEESGKAIKV 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + +++DE  A LL+ EGF+ +EE+A V  SE   I+G DE+T  E++ RA+  L    
Sbjct: 363 FTEGLDIDEDFAQLLIDEGFSTLEEVAYVPTSEFLEIDGIDEDTVEELRARAKASLTTQA 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           +  ++ +     + +L ++ G++  +   L   G+ T+EDLA   +D+L+  +E      
Sbjct: 423 LASEESLEGATPAADLLALEGLERHLAFVLASKGVVTLEDLAEQGIDELVDITE------ 476

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                         ++   +I+ AR  + W   E
Sbjct: 477 -----------LSSEKAGELIMAAR-NICWFGDE 498


>gi|262189773|ref|ZP_06048124.1| transcription termination protein NusA [Vibrio cholerae CT 5369-93]
 gi|262034350|gb|EEY52739.1| transcription termination protein NusA [Vibrio cholerae CT 5369-93]
          Length = 504

 Score =  586 bits (1512), Expect = e-165,   Method: Composition-based stats.
 Identities = 202/508 (39%), Positives = 316/508 (62%), Gaps = 18/508 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG    FR 
Sbjct: 2   SKEILAVVEAVSNEKAVPRERIFEALETALATSTKKKYEIEIDVRVAIDRKTGAFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE VE+ T +IS + A   D S+ +G  + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVENVEHPTKEISFEAASFDDDSVQLGDYIEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  GE+++G VK+V    VI+DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGELVTGVVKKVNRETVILDLGNNAEAVILREDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 LLYKVAPEARGFQLFITRSKPEMLAELFRVEVPEIGEELIELKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIMDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +     Q++     + FM+
Sbjct: 302 AHSMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADLQKKHQEESMASIENFMK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++++  A LLV EGF+ +EE+A V ++E+  ++G DE+ A E++ RA+E L  I +  
Sbjct: 362 YLDIEQDFAELLVEEGFSTLEEIAYVPMNELLDVDGMDEDLADELRSRAKEALTTIALAK 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++    L  +E+L ++ G++  +   L   G+ T+EDLA   VDDL G            
Sbjct: 422 EESFEGLEPAEDLLALAGLERDMAFKLAAKGVATLEDLADQGVDDLEGIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  + +   +I+ AR  +G +
Sbjct: 472 -------GLTEQRAGELIMAARNIVGLV 492


>gi|220934178|ref|YP_002513077.1| NusA antitermination factor [Thioalkalivibrio sp. HL-EbGR7]
 gi|219995488|gb|ACL72090.1| NusA antitermination factor [Thioalkalivibrio sp. HL-EbGR7]
          Length = 501

 Score =  586 bits (1512), Expect = e-165,   Method: Composition-based stats.
 Identities = 217/515 (42%), Positives = 323/515 (62%), Gaps = 25/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + DAV+ EK ++++V+   +  ++  A R  +G   D+RV I+ ETGD   FR 
Sbjct: 2   NKEILMVVDAVSNEKGVEKEVIFEAIEAALGSATRKKHGGEIDVRVSIHRETGDYETFRR 61

Query: 66  LEVVE----EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             VV+    E E+   Q  L  A    P I +G  + +P+  +DFGR+A Q+AKQVI+QK
Sbjct: 62  WLVVDDEDPEFESPERQKLLSYAHQTHPDIQVGEYIEEPMESVDFGRIAAQTAKQVIVQK 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGD 180
           VREAER +   EF+ +VGE++ G VKR E   V +DLG N++  I R+E I RE +RP D
Sbjct: 122 VREAERAKVVEEFRHRVGELVMGVVKRTERSGVFLDLGGNAEAFIPREEMIPRETVRPND 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R++ Y+ +VR E RGPQ+ +SRT P+F++++F +EVPE+  G++ +   +RDPG RAK+A
Sbjct: 182 RLRGYLKEVRSEPRGPQLFVSRTAPEFLIEMFKLEVPEVGQGLIDIMGAARDPGLRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+DS +DPVGACVGMRGSRVQ+V  EL  E++DI++W  + A FVINA+ PA V  +V
Sbjct: 242 VRSNDSRLDPVGACVGMRGSRVQSVSNELAGERVDIILWDDNPAQFVINAMSPAEVLSIV 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V +E+LS AIGR GQN+RLASQLTGW ++++ E + +   + +  E  +
Sbjct: 302 MDEDRHSMDIAVAEEKLSQAIGRGGQNIRLASQLTGWELNVMNEAQAAEKSEAEAAELQR 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+ ++VDE +A +LV EGF+ +EE+A V  SEI  IE FDEE   E++ RAR+ L   
Sbjct: 362 MFMENLDVDEEVAAILVQEGFSSIEEVAYVPTSEIMQIEEFDEEIVEELRARARDALLTK 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            I  +++      +E+L ++ G+D  +   L   GI TMEDLA  +VDDL+  S      
Sbjct: 422 AIATEEQ-GGGEPAEDLLNMEGMDRDLAFKLAAKGICTMEDLAEQAVDDLVEIS------ 474

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                      G   ++   +I+ AR    W  ++
Sbjct: 475 -----------GLDAEKAGELIMTARAP--WFAED 496


>gi|258620312|ref|ZP_05715350.1| N utilization substance protein A [Vibrio mimicus VM573]
 gi|262172282|ref|ZP_06039960.1| transcription termination protein NusA [Vibrio mimicus MB-451]
 gi|262401660|ref|ZP_06078226.1| transcription termination protein NusA [Vibrio sp. RC586]
 gi|258587191|gb|EEW11902.1| N utilization substance protein A [Vibrio mimicus VM573]
 gi|261893358|gb|EEY39344.1| transcription termination protein NusA [Vibrio mimicus MB-451]
 gi|262352077|gb|EEZ01207.1| transcription termination protein NusA [Vibrio sp. RC586]
          Length = 495

 Score =  586 bits (1511), Expect = e-165,   Method: Composition-based stats.
 Identities = 201/511 (39%), Positives = 318/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG    FR 
Sbjct: 2   SKEILAVVEAVSNEKAVPRERIFEALETALATSTKKKYEIEIDVRVAIDRKTGAFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE VE+ T +IS + A   D S+ +G  + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVENVEHPTKEISFEAASFDDESVQMGDYIEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  GE+++G VK+V    VI+DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGELVTGVVKKVNRETVILDLGNNAEAVILREDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            ++ V  E RG Q+ ++R+ P+ + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 LLFKVAPEARGFQLFITRSKPEMLAELFRVEVPEIGEELIELKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIMDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +     Q++     + FM+
Sbjct: 302 THSMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADLQKKHQEESMASIENFMK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++++  A LLV EGF+ +EE+A V ++E+  ++G DE+ A E++ RA+E L  I +  
Sbjct: 362 YLDIEQDFAELLVEEGFSTLEEIAYVPMNELLDVDGMDEDLAEELRSRAKEALTTIALAK 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++    L  +E+L ++ G++ ++   L   G+ T+EDLA   VDDL G            
Sbjct: 422 EESFEGLEPAEDLLALAGLEREMAFKLAAKGVATLEDLADQGVDDLEGIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G  + +   +I+ AR  + W  ++
Sbjct: 472 -------GLTEQRAGELIMAAR-NICWFGED 494


>gi|251792720|ref|YP_003007446.1| transcription elongation factor NusA [Aggregatibacter aphrophilus
           NJ8700]
 gi|247534113|gb|ACS97359.1| transcription elongation factor NusA [Aggregatibacter aphrophilus
           NJ8700]
          Length = 498

 Score =  586 bits (1511), Expect = e-165,   Method: Composition-based stats.
 Identities = 199/515 (38%), Positives = 316/515 (61%), Gaps = 24/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + R+ +   +  +I  + +  Y    D+RV INP+TG+   FR 
Sbjct: 2   SKEILLAAEAVSNEKLLPREKIFEALESAIALSTKKKYEYEVDVRVTINPKTGEFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE V + T +I+L+ AR  +P I +G  V D +  + F R+A+Q+A+QVI  K+REA
Sbjct: 62  WAVVENVMSPTKEITLEAARFENPDIQLGDYVEDQIESIAFDRIAMQTARQVISTKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-----NSDGVIRRDETISRENLRPGD 180
           ER +   +F+ K G+I++ TVK+    ++I+D+       ++ V+ R++ + REN RPGD
Sbjct: 122 ERSKIVDQFRAKEGQIVTATVKKSNRDSIILDVNGEDGNKAEAVMLREDMLPRENFRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV+  +Y V  E +G Q+ ++R  P+ +++LF +EVPEI   ++++++ +RDPGSRAK+A
Sbjct: 182 RVRGVLYKVNPESKGTQLFVTRAKPEMLIELFRLEVPEIGEELIEIRSAARDPGSRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDPVGACVGMRGSRVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +V
Sbjct: 242 VKSNDKRIDPVGACVGMRGSRVQAITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIV 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V +  L+ AIGR GQNVRLA+QLTGWT++++T EE S   Q + N+   
Sbjct: 302 VDEDKHAMDIAVEEVNLAQAIGRNGQNVRLATQLTGWTLNVMTTEELSEKHQAEDNKVLN 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLEG 419
            F+ A+ +DE  A LL+ EGF+ +EELA V + E+ +I+G  D +   E+Q RA+  +  
Sbjct: 362 LFIDALEIDEEFAQLLIDEGFSTLEELAYVPVRELTAIDGLEDGDLVEELQTRAKNAITA 421

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
             +  ++ +++  + + L ++ G++  I   L E  I T+E+LA   VDDL    E    
Sbjct: 422 KALAEEEALKKAQIEDRLLNLEGMNRHIAFKLAEKQITTLEELAEQGVDDLTDIEE---- 477

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                           +Q   +I+ AR  + W  +
Sbjct: 478 -------------LSAEQAADLIMAAR-NICWFTE 498


>gi|117919478|ref|YP_868670.1| transcription elongation factor NusA [Shewanella sp. ANA-3]
 gi|117611810|gb|ABK47264.1| NusA antitermination factor [Shewanella sp. ANA-3]
          Length = 499

 Score =  586 bits (1511), Expect = e-165,   Method: Composition-based stats.
 Identities = 205/515 (39%), Positives = 321/515 (62%), Gaps = 23/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TG    FR 
Sbjct: 2   NKEILLVAEAVSNEKAVPREKIFEALETALATATKKKYEGDIDVRVSIDRKTGAYETFRR 61

Query: 66  LEVVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             V+++    +EN   +I+L+ AR  +P I  G  + D +  + F R+  Q+AKQVI+QK
Sbjct: 62  WMVIDDNGVALENPYREITLEAARYENPEIQPGDYIEDQIESVAFDRITTQTAKQVIVQK 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGD 180
           VREAER +   +F+DK GE+I+G VK+    +V+VDLGN +DGV+ R++ ISRE+ RPGD
Sbjct: 122 VREAERAQVVEQFQDKEGELITGVVKKATRESVVVDLGNNADGVLFREDLISRESFRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV++ +Y VR E RG Q+ L+RT P  +++LF +EVPEI + +++V   +RDPG+RAK+A
Sbjct: 182 RVRALLYSVRPEARGAQLFLTRTKPDMLIELFRVEVPEIADELIEVMGAARDPGARAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A +VINA+ PA V  ++
Sbjct: 242 VKSNDRRIDPIGACVGMRGARVQAVSNELGGERVDIVLWDDNPAQYVINAMAPADVASII 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V  E L+ AIGR GQNVRLA+QLTGW ++++T E+ +   Q +  +   
Sbjct: 302 VDEDNHSMDIAVEAESLAQAIGRNGQNVRLATQLTGWELNVMTVEDMNKKHQAESAKVKS 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F+ A++VDE  A +L  EGF  +EE+A V +SE+ +I+GFDE+    ++ RA+  +   
Sbjct: 362 LFINALDVDEDFAQVLADEGFTSLEEVAYVPVSELLAIDGFDEDIVEALRERAKAAISTR 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  ++ +  +  SEEL ++ G++  +   L   GI T+EDLA   +DDL+   E     
Sbjct: 422 ALATEEALDGVEPSEELLALEGVERHLAYVLASKGIVTLEDLAEQGIDDLIEIEELTEEK 481

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                              ++I+ AR  + W  +E
Sbjct: 482 -----------------AGALIMAAR-NICWFGEE 498


>gi|27365056|ref|NP_760584.1| transcription elongation factor NusA [Vibrio vulnificus CMCP6]
 gi|37680893|ref|NP_935502.1| transcription elongation factor NusA [Vibrio vulnificus YJ016]
 gi|320155440|ref|YP_004187819.1| transcription termination protein NusA [Vibrio vulnificus MO6-24/O]
 gi|27361202|gb|AAO10111.1| Transcription termination protein NusA [Vibrio vulnificus CMCP6]
 gi|37199642|dbj|BAC95473.1| n utilization substance protein A [Vibrio vulnificus YJ016]
 gi|319930752|gb|ADV85616.1| transcription termination protein NusA [Vibrio vulnificus MO6-24/O]
          Length = 495

 Score =  586 bits (1511), Expect = e-165,   Method: Composition-based stats.
 Identities = 200/511 (39%), Positives = 318/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK++ R+ +   +  ++  + +  Y    D+RV I+ +TG+   FR 
Sbjct: 2   SKEILAVAEAVSNEKAVPRERIFEALEIALATSTKKKYEIEIDVRVAIDRKTGEFVTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EVEN T +IS + A   D S+ +G  + + +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVDEVENPTKEISFEAANYDDESVQLGDFIEEEIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  G++++G VK+V    V++DLGN ++ VI RD+ + REN RPGDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGDLVTGVVKKVNRETVVLDLGNNAEAVILRDDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   I+++K  +RDPGSRAK+AV ++
Sbjct: 182 LLYKVAPEARGFQLFITRSKPEMLAELFRVEVPEIAEEIIELKGAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DRRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQLTGW ++++T E+      ++       FM+
Sbjct: 302 AHSMDIAVEAGNLAQAIGRNGQNVRLASQLTGWELNVMTVEDLQKKHAEESQASIDNFMK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++++E  A LLV EGF+ +EE+A V ++E+  +EG DE+   E++ RA++ L  I +  
Sbjct: 362 YLDIEEDFAQLLVEEGFSTLEEVAYVPVNELLEVEGLDEDLIEELRSRAKDALTTIALAR 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++    +  +E+L ++ G++ ++   L   G+ ++EDLA   +DDL G            
Sbjct: 422 EESFEGVEPAEDLLNLEGLEREMAFKLAAKGVASLEDLADQGIDDLEGID---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G  +++   +I+ AR  + W  +E
Sbjct: 472 -------GLTEERAGQLIMAAR-NICWFGEE 494


>gi|120597899|ref|YP_962473.1| transcription elongation factor NusA [Shewanella sp. W3-18-1]
 gi|146293929|ref|YP_001184353.1| transcription elongation factor NusA [Shewanella putrefaciens
           CN-32]
 gi|120557992|gb|ABM23919.1| NusA antitermination factor [Shewanella sp. W3-18-1]
 gi|145565619|gb|ABP76554.1| NusA antitermination factor [Shewanella putrefaciens CN-32]
          Length = 499

 Score =  586 bits (1511), Expect = e-165,   Method: Composition-based stats.
 Identities = 204/515 (39%), Positives = 322/515 (62%), Gaps = 23/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TG    FR 
Sbjct: 2   NKEILLVAEAVSNEKAVPREKIFEALEIALATATKKKYDGDIDVRVAIDRKTGGYETFRR 61

Query: 66  LEVVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             VV++    +EN   +I+L+ AR  +P I  G  + D +  + F R+  Q+AKQVI+QK
Sbjct: 62  WMVVDDHGEALENPFREITLEAARYENPDIQPGEFIEDDIESVVFDRITTQTAKQVIVQK 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGD 180
           VREAER +   +F+DK GE+I+G VK+    +V+VDLGN +DGV+ R++ ISRE+ RPGD
Sbjct: 122 VREAERAQVVEQFRDKEGELITGVVKKATRESVVVDLGNNADGVLFREDLISRESFRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV++ +Y VR E RG Q+ LSRT P+ +++LF +EVPEI + +++V   +RDPG+RAK+A
Sbjct: 182 RVRALLYSVRPEARGAQLFLSRTKPEMLIELFRVEVPEIADELIEVMGAARDPGARAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A +VINA+ PA V  ++
Sbjct: 242 VKSNDRRIDPIGACVGMRGARVQAVSNELGGERVDIVLWDDNPAQYVINAMAPADVASII 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V  + L+ AIGR GQNVRLA+QLTGW ++++T E+ +   Q +  +   
Sbjct: 302 VDEDNHSMDIAVEADSLAQAIGRNGQNVRLATQLTGWELNVMTVEDMNKKHQAESAKVVS 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F+ +++VDE  A +L  EGF  +EE+A V +SE+ +I+GFDE+    ++ RA+  +   
Sbjct: 362 LFINSLDVDEDFAQVLANEGFTSLEEVAYVPVSELLAIDGFDEDLVEALRERAKAAISTR 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  ++ +  +  S+EL ++ G++  +   L   GI T+EDLA   +DDL+   E     
Sbjct: 422 ALASEEALDGVEPSDELLALEGVERHLAYVLASKGIVTLEDLAEQGIDDLIEIEELTEEK 481

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                              ++I+ AR  + W  +E
Sbjct: 482 -----------------AGTLIMAAR-NICWFGEE 498


>gi|113969369|ref|YP_733162.1| transcription elongation factor NusA [Shewanella sp. MR-4]
 gi|114046596|ref|YP_737146.1| transcription elongation factor NusA [Shewanella sp. MR-7]
 gi|113884053|gb|ABI38105.1| NusA antitermination factor [Shewanella sp. MR-4]
 gi|113888038|gb|ABI42089.1| NusA antitermination factor [Shewanella sp. MR-7]
          Length = 499

 Score =  585 bits (1510), Expect = e-165,   Method: Composition-based stats.
 Identities = 205/515 (39%), Positives = 322/515 (62%), Gaps = 23/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TG    FR 
Sbjct: 2   NKEILLVAEAVSNEKAVPREKIFEALETALATATKKKYEGDIDVRVAIDRKTGAYETFRR 61

Query: 66  LEVVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             V+++    +EN   +I+L+ AR  +P I  G  + D +  + F R+  Q+AKQVI+QK
Sbjct: 62  WMVIDDNGVALENPYREITLEAARFENPEIQPGDFIEDEIESVAFDRITTQTAKQVIVQK 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGD 180
           VREAER +   +F+DK GE+I+G VK+    +V+VDLGN +DGV+ R++ ISRE+ RPGD
Sbjct: 122 VREAERAQVVEQFQDKEGELITGVVKKATRESVVVDLGNNADGVLFREDLISRESFRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV++ +Y VR E RG Q+ L+RT P  +++LF +EVPEI + +++V   +RDPG+RAK+A
Sbjct: 182 RVRALLYSVRPEARGAQLFLTRTKPDMLIELFRVEVPEIADELIEVMGAARDPGARAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A +VINA+ PA V  ++
Sbjct: 242 VKSNDRRIDPIGACVGMRGARVQAVSNELGGERVDIVLWDDNPAQYVINAMAPADVASII 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V  E L+ AIGR GQNVRLA+QLTGW ++++T E+ +   Q +  +   
Sbjct: 302 VDEDNHSMDIAVEAESLAQAIGRNGQNVRLATQLTGWELNVMTVEDMNKKHQAESAKVKS 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM++++VDE  A +L  EGF  +EE+A V +SE+ +I+GFDE+    ++ RA+  +   
Sbjct: 362 LFMKSLDVDEDFAQVLADEGFTSLEEVAYVPVSELLAIDGFDEDIVEALRERAKAAISTR 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  ++ +  +  SEEL ++ G++  +   L   GI T+EDLA   +DDL+   E     
Sbjct: 422 ALASEEALDGVEPSEELLALEGVERHLAYVLASKGIVTLEDLAEQGIDDLIEIEELTEEK 481

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                              ++I+ AR  + W  +E
Sbjct: 482 -----------------AGALIMAAR-NICWFGEE 498


>gi|226940848|ref|YP_002795922.1| transcription elongation factor NusA [Laribacter hongkongensis
           HLHK9]
 gi|226715775|gb|ACO74913.1| NusA [Laribacter hongkongensis HLHK9]
          Length = 497

 Score =  585 bits (1510), Expect = e-165,   Method: Composition-based stats.
 Identities = 208/514 (40%), Positives = 322/514 (62%), Gaps = 28/514 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGT-----MSDIRVEINPETGDISL 62
           E+L + DA+A EK++ +D+V   +  ++  A +            D+RV I+  TG    
Sbjct: 4   EILLLVDALAREKNVSKDIVFGALELALASATKKKISQDTNQDEIDVRVSIDRHTGAYET 63

Query: 63  FRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           FR   VVE+   E  + QI++  A + +    +G +  +P+  ++FGR+  Q+AKQVI+Q
Sbjct: 64  FRRWTVVEDNDHEFPSRQIAMSDAAEHEVEAVVGTIKEEPVEAIEFGRIGAQTAKQVILQ 123

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           K+R+AER++   +F D+  +++SGT+KR+E GNVI+DLG  + ++ R++ I +ENLR GD
Sbjct: 124 KIRDAEREQVLNDFLDRNEKLVSGTIKRIERGNVIIDLGKLEALLPREQQIPKENLRVGD 183

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RVK+Y+  V R  RGPQ++LSR  PQF+ +LF  EVPEI +G++++K  +RD GSRAK+A
Sbjct: 184 RVKAYLLRVDRMGRGPQIILSRIAPQFITELFRQEVPEIDDGMLEIKGCARDAGSRAKIA 243

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V ++D  +DP G C+GMRGSRVQAV  EL  E++DIV+W+ D   +VINAL PA V +++
Sbjct: 244 VKANDPRLDPQGTCIGMRGSRVQAVTNELGGERVDIVLWAGDIVQYVINALSPAEVQRIL 303

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   ++V+V ++QL+LAIGR GQNVRLAS+LTGW ++I+T  E     + +     Q
Sbjct: 304 IDEDKHAMDVVVDEDQLALAIGRGGQNVRLASELTGWVLNIMTVAEAEEKHEAEDAAMKQ 363

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM A++VD+ +A +L +EGF  +EE+A V + E+  I  FD ET  E++ RARE L   
Sbjct: 364 LFMDALDVDQDVADVLASEGFTTLEEIAYVPLEEMLQISYFDAETVNELRSRAREALLTQ 423

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            I  ++K+    V + L  +PG+   + V L ENG+ T +DLA  +VD+L   +      
Sbjct: 424 AIASEEKMN--SVEDALRELPGMTQDVLVKLAENGVTTRDDLADLAVDELADMT------ 475

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                         +D+  ++I+ AR    W E+
Sbjct: 476 -----------NITEDEARALIMKAREH--WFEQ 496


>gi|270158099|ref|ZP_06186756.1| transcription elongation protein NusA [Legionella longbeachae
           D-4968]
 gi|289163636|ref|YP_003453774.1| Transcription elongation protein nusA [Legionella longbeachae
           NSW150]
 gi|269990124|gb|EEZ96378.1| transcription elongation protein NusA [Legionella longbeachae
           D-4968]
 gi|288856809|emb|CBJ10620.1| Transcription elongation protein nusA [Legionella longbeachae
           NSW150]
          Length = 492

 Score =  585 bits (1509), Expect = e-165,   Method: Composition-based stats.
 Identities = 203/510 (39%), Positives = 332/510 (65%), Gaps = 23/510 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL +A+A++ E+ + +DV++  +  +++ A R ++G    +R++++P TGD   FR 
Sbjct: 2   SKELLLVAEALSNERGVSKDVIILAIQAALESATRKIFGLDIGVRIKLDPRTGDYETFRY 61

Query: 66  LEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
            +VV  +++E+   Q++L+ A+ R+PS+++G  + + +P ++FGR+  Q+A+QVI+QKVR
Sbjct: 62  WDVVTDDDLEDPDRQLTLEQAKTRNPSVNVGDRIEESIPSIEFGRIEAQAARQVIMQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER+    +F+ K+G++I GTVK+V   N+I+DLG  ++  + R E +  E  RP DRV
Sbjct: 122 EAERELVIDQFRGKLGQLIYGTVKKVTRDNIIIDLGGKAEAFLPRTEMLPHEMFRPNDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++Y+Y++  + RGPQ+ +SRT  + +++LF +EVPEI   +++VKA +RDPG+RAK+AV 
Sbjct: 182 RAYLYEITPQARGPQLFVSRTRNEMLIELFRIEVPEIGENVIEVKAAARDPGNRAKIAVK 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           ++D  IDPVGACVGMRG+RVQAV +EL  E++DI++W  + A  VINA+ PA ++ +V+D
Sbjct: 242 TNDGRIDPVGACVGMRGARVQAVSSELGGERVDIILWDDNPAQLVINAMAPADISSIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V K+QLS AIGR GQNVRLASQLTGWT++++T +E      ++ ++  + F
Sbjct: 302 EDTHTMDLAVEKDQLSQAIGRNGQNVRLASQLTGWTLNVMTTDEFENKNLEESSKIIKLF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
             A+ +DE IA LLVA GF+ +EE+A V   E+ +IE FD+E   E++ RA + L  + +
Sbjct: 362 TSALEIDEEIATLLVAHGFSSLEEIAYVPKEELLAIEEFDDEIVEELRNRANDNLLTMAL 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
           +  K +      + L ++ G+   +   L   GI +MEDLA  SVD+LL           
Sbjct: 422 SSNKDLSG-QPDDSLLTMEGMTQDLANQLATRGITSMEDLAEQSVDELLELD-------- 472

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
                    G  +D+  ++I+ AR    W 
Sbjct: 473 ---------GMTEDKAAALIMKAREP--WF 491


>gi|15602625|ref|NP_245697.1| transcription elongation factor NusA [Pasteurella multocida subsp.
           multocida str. Pm70]
 gi|12721058|gb|AAK02844.1| NusA [Pasteurella multocida subsp. multocida str. Pm70]
          Length = 494

 Score =  585 bits (1509), Expect = e-165,   Method: Composition-based stats.
 Identities = 202/511 (39%), Positives = 320/511 (62%), Gaps = 20/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL  A+AV+ EK + R+ +   +  ++  + +  Y    D+RV IN +TG+   FR 
Sbjct: 2   SKELLLAAEAVSNEKLLPREKIFEALESALALSTKKKYEQEIDVRVVINTKTGEFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV N T +I+L+ A+  DP++ +G  V D +  + F R+ +Q+A+QVI  K+REA
Sbjct: 62  WLVVDEVTNPTKEITLEAAQFDDPNVQLGDYVEDQIESVAFDRITMQTARQVISTKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER++   +F+ + GEI++GTVK+V   N+++DLG  ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERNKIVEQFRSQEGEIVTGTVKKVNRDNIVLDLGQQAEAVILREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E +G Q+ ++R  P+ +++LF +EVPEI   ++++K  +RDPGSRAK+AV S+
Sbjct: 182 VLYKVSPESKGAQLFVTRAKPEMLIELFRIEVPEIGEELIEIKNAARDPGSRAKIAVKSN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA VT +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAITNELGGERVDIVLWDDNPAQFVINAMAPADVTSIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLA+QLT WT++++T +E +   Q + N+  + FM 
Sbjct: 302 SHAMDIAVEPANLAQAIGRNGQNVRLATQLTSWTLNVMTTDELNQKHQAEDNKVLKLFMN 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLEGIDIT 423
           A+ +DE  AH+L+ EGF+ +EELA V +SE+ +I+G  DE+   E+Q RA+  +    + 
Sbjct: 362 ALEIDEDFAHILIEEGFSTLEELAYVSVSELTAIDGLEDEDLVEELQARAKNAITAAALA 421

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            ++ +++  + + L ++ G++  I + L E  I T+E+LA   VDDL             
Sbjct: 422 EEEALKQAHIEDRLLALEGMNRHIALKLAEKQITTLEELAEQGVDDLADIE--------- 472

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                       +Q    I+ AR  + W  +
Sbjct: 473 --------DLTAEQAADFIMAAR-NICWFSE 494


>gi|323495468|ref|ZP_08100543.1| transcription elongation factor NusA [Vibrio sinaloensis DSM 21326]
 gi|323319465|gb|EGA72401.1| transcription elongation factor NusA [Vibrio sinaloensis DSM 21326]
          Length = 495

 Score =  585 bits (1509), Expect = e-165,   Method: Composition-based stats.
 Identities = 196/511 (38%), Positives = 318/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  + +  +    D+RVEI+ +TG+   FR 
Sbjct: 2   SKEILAVVEAVSNEKAVPRERIFEALEIALATSTKKKHEIEIDVRVEIDRKTGEFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VE+VEN T +ISL+ A+  +  +++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLIVEDVENPTKEISLEAAKFENEELELGDYVEDDIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  GE+++G VK+V    V++DLGN ++ VI RD+ + REN RPGDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGELVTGVVKKVNRDTVVLDLGNNAEAVILRDDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   I+++K  +RDPGSRAK+AV ++
Sbjct: 182 LLYKVAPEARGFQLFITRSKPEMLAELFRVEVPEIAEEIIELKGAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +      ++     + FM+
Sbjct: 302 AHAMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADLQKKHAEESQAAIEGFMK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++++E  A LLV EGF+ +EE+A V ++E+  ++G DE+   E++ RA+  L  + +  
Sbjct: 362 HLDIEEDFAQLLVEEGFSTLEEVAYVPVNELLEVDGLDEDLVEELRSRAKNALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++    +  +E+L  + G++ ++   L   G+ T+EDLA   +DD+              
Sbjct: 422 EESFEGVEPAEDLLGLEGLEREMAFKLAAKGVATLEDLADQGIDDIEDIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G  +++   +I+ AR  + W  +E
Sbjct: 472 -------GLTEERAGELIMAAR-NICWFGEE 494


>gi|257094534|ref|YP_003168175.1| transcription elongation factor NusA [Candidatus Accumulibacter
           phosphatis clade IIA str. UW-1]
 gi|257047058|gb|ACV36246.1| NusA antitermination factor [Candidatus Accumulibacter phosphatis
           clade IIA str. UW-1]
          Length = 490

 Score =  585 bits (1508), Expect = e-165,   Method: Composition-based stats.
 Identities = 210/508 (41%), Positives = 330/508 (64%), Gaps = 23/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + D +A EK++ +D+V   +  ++  A +      +++RV ++ ETGD   FR  E
Sbjct: 4   EILLLVDVLAREKNVTKDIVFGALEMALASATKKRVHDNANVRVVVDRETGDFETFRRWE 63

Query: 68  VVEEVE--NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV + +  +   QI L  A+++DP ++IG  + + L P+DFGR+  Q+AKQVI+Q++R+A
Sbjct: 64  VVADGDFLDEEQQIPLSDAQEQDPEVEIGDFLEESLEPIDFGRIGAQAAKQVILQRIRDA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F  +   +++GT+KR+E GN I++ G  + V+ RD+ I RENLR GDRVK+Y
Sbjct: 124 EREQILNDFLARKEHLVTGTIKRMERGNAIIETGKIEAVLPRDQMIPRENLRIGDRVKAY 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  + R  RGPQ++LSRT P+F+++LF +EVPE+ +G++++KA +RDPG RAK+AV S+D
Sbjct: 184 LLRIDRAARGPQLILSRTAPEFIIRLFALEVPEVDDGLLEIKAAARDPGMRAKIAVKSND 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDP+G CVGMRG RV AV  EL  E++DIV+WS D A FVI AL PA V+ +++DE+ 
Sbjct: 244 QRIDPIGTCVGMRGMRVTAVTNELAGERVDIVLWSADPAQFVIGALAPAEVSSIIVDEEK 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++V+V ++ L++AIGR GQNVRLAS++TGWTI+++TEEE     + +       FM+ 
Sbjct: 304 HSMDVVVDEQNLAIAIGRGGQNVRLASEMTGWTINLMTEEESKTLVEAEAAAIRVLFMEK 363

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE +A++L+ EGF+ +EE+A V + E+  IE FDE T  E++ RAR  L    I  +
Sbjct: 364 LDVDEELANILIEEGFSTLEEVAYVPLHEMIEIESFDEATVQELRERARNVLLTDAIVTE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFD 485
           +KI E  V+E++ ++ G+D  +   L  +GIKT +DLA  +VD+L   +           
Sbjct: 424 EKIGE--VAEDMLNLEGMDKVLAGKLASSGIKTRDDLADLAVDELTEIT----------- 470

Query: 486 GFLSSLGTPKDQVESMIIHARYKMGWIE 513
                 G    + + +I  AR    W E
Sbjct: 471 ------GIDTPRAKQLITTARAH--WFE 490


>gi|167625060|ref|YP_001675354.1| transcription elongation factor NusA [Shewanella halifaxensis
           HAW-EB4]
 gi|167355082|gb|ABZ77695.1| NusA antitermination factor [Shewanella halifaxensis HAW-EB4]
          Length = 499

 Score =  584 bits (1507), Expect = e-164,   Method: Composition-based stats.
 Identities = 202/515 (39%), Positives = 318/515 (61%), Gaps = 23/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK + R+ +   +  ++  A +  Y    ++RV I+ +TG    FR 
Sbjct: 2   NKEILLVAEAVSNEKGVPREKIFEALEIALATATKKKYEGDIEVRVAIDRKTGAYETFRR 61

Query: 66  LEVVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             VVE+    +EN   +I+L+ A+  DP I++GG + D +  + F R+  Q+AKQVI+QK
Sbjct: 62  WMVVEDAGVPLENPFREITLEAAKYDDPEIELGGYIEDEIDSVAFDRITTQTAKQVIVQK 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGD 180
           VREAER +   +F+D+ GE+I G VK+    +V+VDLGN +DGV+ R++ ISRE+ RPGD
Sbjct: 122 VREAERAQIVDQFRDREGELIVGVVKKSNRESVVVDLGNNADGVLFREDLISRESFRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV++ +Y VR E RG Q+ L+RT P  +++LF +EVPEI + ++++   +RDPGSRAK+A
Sbjct: 182 RVRALLYSVRPEARGAQLFLTRTKPDMLIELFRVEVPEIQDEMIEIMGAARDPGSRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A +VIN + PA V  ++
Sbjct: 242 VKSNDRRIDPIGACVGMRGARVQAVSNELGGERVDIVLWDDNPAQYVINCMAPADVASII 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V  + L+ AIGR GQN+RLA+QL+GW ++++T ++     Q +  +   
Sbjct: 302 VDEDNHSMDIAVEADSLAQAIGRNGQNIRLATQLSGWELNVMTVDDMKAKHQAESVKVVN 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F+QA++VDE  A LL  EGF  +EE+A V  SE+  I+GFDE+    ++GRA+  +   
Sbjct: 362 LFIQALDVDEDFAQLLSDEGFTSLEEIAYVPESELLEIDGFDEDIVESLRGRAKAAISTR 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  ++ +     SE+L ++ G+D  +   +   G+ T+EDLA   +DDL+   E     
Sbjct: 422 ALATEEALDGAEPSEDLLALEGLDRHLAFVMASKGVITLEDLAEQGIDDLIEIEELTEEK 481

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                               +I+ AR  + W  +E
Sbjct: 482 -----------------AGELIMAAR-NICWFGEE 498


>gi|15599939|ref|NP_253433.1| transcription elongation factor NusA [Pseudomonas aeruginosa PAO1]
 gi|107103844|ref|ZP_01367762.1| hypothetical protein PaerPA_01004915 [Pseudomonas aeruginosa PACS2]
 gi|116052892|ref|YP_793209.1| transcription elongation factor NusA [Pseudomonas aeruginosa
           UCBPP-PA14]
 gi|152989172|ref|YP_001350787.1| transcription elongation factor NusA [Pseudomonas aeruginosa PA7]
 gi|218893840|ref|YP_002442709.1| transcription elongation factor NusA [Pseudomonas aeruginosa
           LESB58]
 gi|254238519|ref|ZP_04931842.1| N utilization substance protein A [Pseudomonas aeruginosa C3719]
 gi|254244353|ref|ZP_04937675.1| N utilization substance protein A [Pseudomonas aeruginosa 2192]
 gi|296391572|ref|ZP_06881047.1| transcription elongation factor NusA [Pseudomonas aeruginosa PAb1]
 gi|313109726|ref|ZP_07795666.1| N utilization substance protein A [Pseudomonas aeruginosa 39016]
 gi|9951007|gb|AAG08131.1|AE004888_6 N utilization substance protein A [Pseudomonas aeruginosa PAO1]
 gi|115588113|gb|ABJ14128.1| N utilization substance protein A [Pseudomonas aeruginosa
           UCBPP-PA14]
 gi|126170450|gb|EAZ55961.1| N utilization substance protein A [Pseudomonas aeruginosa C3719]
 gi|126197731|gb|EAZ61794.1| N utilization substance protein A [Pseudomonas aeruginosa 2192]
 gi|150964330|gb|ABR86355.1| N utilization substance protein A [Pseudomonas aeruginosa PA7]
 gi|218774068|emb|CAW29884.1| N utilization substance protein A [Pseudomonas aeruginosa LESB58]
 gi|310882168|gb|EFQ40762.1| N utilization substance protein A [Pseudomonas aeruginosa 39016]
          Length = 493

 Score =  584 bits (1507), Expect = e-164,   Method: Composition-based stats.
 Identities = 209/511 (40%), Positives = 324/511 (63%), Gaps = 22/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + ++V+ EK +   V+   +  ++  A +  +    D+RVEIN   G    FR 
Sbjct: 2   SKEVLLVVESVSNEKGVPAGVIFEALELALATATKKRFEDEVDLRVEINRHNGSYETFRR 61

Query: 66  LEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV  E+ ++   +I+++  +++ P   +G V+ + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WHVVADEDYQDPATEITVEDVQEQKPGAKVGEVIEEKIESIEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +    +++KVGEIISGTVK+V   NVIVDLGN ++ ++ RD+ I RE  R G RV
Sbjct: 122 EAERAQVVDAYREKVGEIISGTVKKVTRDNVIVDLGNNAEALLARDQIIPRETFRVGTRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R E RGPQ++LSRT P+ +++LF +EVPEI   ++ V A +RDPGSRAK+AV 
Sbjct: 182 RALLKEIRTENRGPQLVLSRTAPEMLIELFRIEVPEIAEQLIDVMAAARDPGSRAKIAVR 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDP GAC+GMRGSRVQAV  E+  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 242 SKDKRIDPQGACIGMRGSRVQAVSGEIGGERVDIVLWDDNPAQFVINAMAPAEVAAIIVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V ++ L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  Q F
Sbjct: 302 EDTHTMDIAVAEDNLAQAIGRSGQNVRLASQLTGWTLNVMTEADIQAKQQAETGDILQRF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           +  ++VDE +A +LV EGF  +EE+A V + E+ SI+GFDE+   E++ RA++ L    I
Sbjct: 362 VDELDVDEELAQVLVEEGFTTLEEIAYVPMEEMLSIDGFDEDIVNELRSRAKDRLLTKAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ +   +E+L S+ G+  ++ + L   G+ T EDLA  S+DDLL           
Sbjct: 422 ATEEKLADAQPAEDLLSLDGMSKELALDLALRGVTTREDLAEQSIDDLLDID-------- 473

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                    G  +++   +I+ AR    W E
Sbjct: 474 ---------GMDEERAGKLIMAARAH--WFE 493


>gi|226946308|ref|YP_002801381.1| transcription elongation factor NusA [Azotobacter vinelandii DJ]
 gi|226721235|gb|ACO80406.1| Transcription termination factor NusA [Azotobacter vinelandii DJ]
          Length = 493

 Score =  584 bits (1506), Expect = e-164,   Method: Composition-based stats.
 Identities = 218/511 (42%), Positives = 330/511 (64%), Gaps = 22/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + ++V+ EK +   V+   +  ++  A +  Y    D+RV+IN ++G    FR 
Sbjct: 2   SKEVLLVVESVSNEKGVPAGVIFEALELALATATKKRYEDDVDLRVQINRQSGAYDTFRR 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVE+  +EN   +++L  AR+R P + +G V+ + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WTVVEDDLLENPAAELTLDEARERKPDVRVGDVIEEKIESIEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +    ++++VGEIISGTVK+V   NVIVDLGN ++ ++ R++ I RE  R G RV
Sbjct: 122 EAERAQVVDVYRERVGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIIPRETFRVGARV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R E RGPQ++LSRT P  +++LF +EVPEI  G+++VKA SRDPGSRAK+AV 
Sbjct: 182 RALLKEIRPENRGPQLILSRTAPGMLIELFRIEVPEIAEGLIEVKAASRDPGSRAKIAVR 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 242 SKDKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMAPAEVAAIIVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   ++V V  + L+ AIGR GQNVRLASQLTGWT++++TE +    ++ +  +  + F
Sbjct: 302 EDAHAMDVAVADDNLAQAIGRGGQNVRLASQLTGWTLNVMTEGDIQAKQRAETGDILRSF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           ++ + VDE +A +LV EGF  +EE+A V + E+ +I+GFDEE   E++ RA++ L    I
Sbjct: 362 VEELEVDEELAQVLVEEGFTSLEEIAYVPMEEMLAIDGFDEEIVNELRARAKDRLLTKAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ E   +E+L S+ G+D ++ V L   G+ T EDLA  S+DDLL           
Sbjct: 422 ATEEKLVEAHPAEDLLSLEGMDKELAVELAMRGVITREDLAEQSIDDLLDID-------- 473

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                    G  +++   +I+ AR    W E
Sbjct: 474 ---------GMDEERAGKLIMAARAH--WFE 493


>gi|194289950|ref|YP_002005857.1| transcription elongation factor nusa [Cupriavidus taiwanensis LMG
           19424]
 gi|193223785|emb|CAQ69792.1| transcription termination/antitermination L factor [Cupriavidus
           taiwanensis LMG 19424]
          Length = 491

 Score =  584 bits (1506), Expect = e-164,   Method: Composition-based stats.
 Identities = 210/509 (41%), Positives = 333/509 (65%), Gaps = 24/509 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV   +  ++  A +  +    DIRV I+ E+G+   FR   
Sbjct: 4   EVLLLVDALAREKNVDKDVVFGALEAALASATKKRFEEDVDIRVAIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    QI L  AR+ +PSI++G  +   +  ++FGR+  Q+AKQVI+Q++R+
Sbjct: 64  VVPDELGLQEPDKQILLFEAREENPSIELGDYIEQQIESVEFGRIGAQAAKQVILQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ D+  +I++GTVKR +   +IV+ G  + ++ RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLDRGEKIMTGTVKRADKKGLIVESGRVEALLARDQIIPKENLRTGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +V R  RGPQ+ LSRT P F++KLF  EVPE+  G++++KA +RDPG RAK+AV + 
Sbjct: 184 YILNVDRAARGPQIELSRTAPDFLIKLFENEVPEMEQGLLEIKAAARDPGVRAKIAVVAH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RG+RV AV  E+  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGVRGTRVTAVRNEIGGEAVDIVLWSEDPAQFVIGALAPAQVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+T+EE +  + ++ +   + FM 
Sbjct: 304 KHSMDVVVDEENLAVAIGRSGQNVRLASELTGWQINIMTQEESAQKQAEESDVVRKLFMS 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF+ +EE+A V ISE+  IE FDE+T  E++ RAR+ L  +++  
Sbjct: 364 KLDVDEEVADILIEEGFSTLEEVAYVPISEMMEIEAFDEDTVNELRNRARDALLTMELAR 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+ E  VS++L S+ G++ ++   L E  I T +DLA  +VD+L+  +          
Sbjct: 424 EEKVEE--VSQDLRSLDGLNPELIGKLAEGDIHTRDDLAELAVDELVEMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                  G  +++ +S+I+ AR    W  
Sbjct: 472 -------GVSEEEAKSLIMKAREH--WFN 491


>gi|90581550|ref|ZP_01237343.1| transcription elongation factor NusA [Vibrio angustum S14]
 gi|90437312|gb|EAS62510.1| transcription elongation factor NusA [Vibrio angustum S14]
          Length = 495

 Score =  584 bits (1506), Expect = e-164,   Method: Composition-based stats.
 Identities = 199/511 (38%), Positives = 311/511 (60%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  +    D+RV I+ +TG+   FR 
Sbjct: 2   NKEILAVVEAVSNEKAVPRERIFEALEIALATATKKKHEAEIDVRVAIDRKTGEFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            + VEEV   T +I+L+ A+  D +I  G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WKAVEEVTQPTLEITLEAAQFEDSTIVAGDYVEDDIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  GE+I+G VK+V    VI+DLGN ++ VI+RD+ + REN RPGDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGELITGIVKKVNRDAVIIDLGNNAEAVIQRDDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E RG Q+ ++R+ P+ + +LF +EVPE+   ++++   +RDPGSRAK+AV ++
Sbjct: 182 LLYKVAPEARGFQLFMTRSKPEMLSELFRIEVPEMGEELIELMGAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A +VINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDENPAQYVINAMAPAEVDSIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V K+ L+ AIGR GQNVRLASQLTGW ++++T E+     Q++  E  + F +
Sbjct: 302 NHTMDIAVQKDNLAQAIGRSGQNVRLASQLTGWELNVMTVEDLQKKHQEEAKESIEVFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF  +EE+A V +SE+  ++G DEE   +++ RA+  L  + +  
Sbjct: 362 HLDIDEEFATVLVEEGFTTLEEIAYVPVSELMDVDGLDEEIIDQLRSRAKAALTTLALAK 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ +     +E+L  + G++ ++       GI T+EDLA    DDL              
Sbjct: 422 EETLDGAEPAEDLLGLEGLERELAFKFAAKGICTLEDLADQGTDDLTDIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G    +   +I+ AR  + W   E
Sbjct: 472 -------GVDDAKAGELIMAAR-NICWFSDE 494


>gi|157962879|ref|YP_001502913.1| transcription elongation factor NusA [Shewanella pealeana ATCC
           700345]
 gi|157847879|gb|ABV88378.1| NusA antitermination factor [Shewanella pealeana ATCC 700345]
          Length = 499

 Score =  584 bits (1506), Expect = e-164,   Method: Composition-based stats.
 Identities = 200/515 (38%), Positives = 316/515 (61%), Gaps = 23/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK + R+ +   +  ++  A +  Y    ++RV I+ +TG    FR 
Sbjct: 2   NKEILLVAEAVSNEKGVPREKIFEALEIALATATKKKYEGDIEVRVAIDRKTGAYETFRR 61

Query: 66  LEVVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             VVE+    +EN   +I+L+ A+  DP I++GG + D +  + F R+  Q+AKQVI+QK
Sbjct: 62  WMVVEDAGVPLENPFREITLEAAKYDDPEIELGGYIEDEIESVAFDRITTQTAKQVIVQK 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGD 180
           VREAER +   +F+D+ GE+I G VK+    +V+VDLG N+DGV+ +++ ISRE+ RPGD
Sbjct: 122 VREAERAQIVDQFRDREGELIVGVVKKSNRESVVVDLGTNADGVLFKEDLISRESFRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV++ +Y VR E RG Q+ L+RT P  +++LF +EVPEI + ++++   +RDPGSRAK+A
Sbjct: 182 RVRALLYSVRPEARGAQLFLTRTKPDMLIELFRVEVPEIQDEMIEIMGAARDPGSRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A +VIN + PA V  ++
Sbjct: 242 VKSNDRRIDPIGACVGMRGARVQAVSNELGGERVDIVLWDDNPAQYVINCMAPADVASII 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V  + L+ AIGR GQN+RLA+QL+GW ++++T  +     Q +  +   
Sbjct: 302 VDEDNHSMDIAVEADSLAQAIGRNGQNIRLATQLSGWELNVMTVADMKAKHQAESAKVVN 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F+QA++VDE  A LL  EGF  +EE+A V  SE+  I+GFDE+    ++ RA+  +   
Sbjct: 362 LFIQALDVDEEFAQLLSDEGFTSLEEIAYVPASELLEIDGFDEDIVESLRERAKAAISTR 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  ++ +     SE+L ++ G+D  +   +   G+ T+EDLA   +DDL+   E     
Sbjct: 422 ALATEEALDGAEPSEDLLALEGLDRHLAFVMASKGVITLEDLAEQGIDDLIEIEELTEEK 481

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                               +I+ AR  + W  +E
Sbjct: 482 -----------------AGELIMAAR-NICWFGEE 498


>gi|198282694|ref|YP_002219015.1| NusA antitermination factor [Acidithiobacillus ferrooxidans ATCC
           53993]
 gi|218667138|ref|YP_002424886.1| transcription termination factor NusA [Acidithiobacillus
           ferrooxidans ATCC 23270]
 gi|198247215|gb|ACH82808.1| NusA antitermination factor [Acidithiobacillus ferrooxidans ATCC
           53993]
 gi|218519351|gb|ACK79937.1| transcription termination factor NusA [Acidithiobacillus
           ferrooxidans ATCC 23270]
          Length = 493

 Score =  583 bits (1505), Expect = e-164,   Method: Composition-based stats.
 Identities = 225/508 (44%), Positives = 333/508 (65%), Gaps = 22/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL +ADAVA+EK +DR+V+   +  S+  A++  YG    I V+++ +TGD    RL E
Sbjct: 4   ELLYLADAVAHEKDVDREVIFLALEASLVSASKKKYGQDWHIAVDVDRKTGDYVTRRLWE 63

Query: 68  VVEEVENYTC---QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +         QI L  AR   P  + G  + + LPP++FGR+A Q+AKQVI+QKVR+
Sbjct: 64  VVADDVADYDVDQQIRLSDARKTRPEAEPGDYLEEVLPPVEFGRIAAQTAKQVIVQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AERDR   +F  + G+I+SG VKR+E GN IVD+G ++ ++ ++E + RE +RPGDRV++
Sbjct: 124 AERDRIVSDFAIRKGDIVSGLVKRMEKGNAIVDMGRAEAILPKEEMMPREAIRPGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           ++ DVRR QRGPQ+ LSRT P+ ++KLF  EVPEI NG++++   +RDPG RAKLAV S+
Sbjct: 184 HLQDVRRVQRGPQLFLSRTSPELLIKLFAQEVPEIGNGMIEIMGAARDPGLRAKLAVRSN 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  +DPVGACVG+RG+RVQ V+ EL+ E+IDIV+W+ D A++VINAL PA V+ +V+DE+
Sbjct: 244 DPRVDPVGACVGLRGNRVQTVINELKGERIDIVIWAADPASYVINALSPAEVSSIVVDEN 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V  E LS AIGR GQNVRLA+QLTGWTI+I+TEEE    R+++ +     F+Q
Sbjct: 304 THSMDVVVGPEHLSQAIGRGGQNVRLATQLTGWTINILTEEEAQAKREEEESTFLNHFIQ 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + VDE +A LLV+EGF  +EE+A V ++E+  I+G DE    E++ RAR+ L    I  
Sbjct: 364 DLGVDEDLAALLVSEGFTSIEEVAYVPVAEMMEIDGLDENLVGELRRRARDVLLNKAIAQ 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++++     +E+L S+ G+D  +   L   G+ T EDLA  +  +L              
Sbjct: 424 EEQVALSEPAEDLLSLKGMDKGLAHLLASKGVVTSEDLAELAASELCEM----------- 472

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                 +G  +++ +++I+ AR    W 
Sbjct: 473 ------VGVDEERAKALILEARAP--WF 492


>gi|53804603|ref|YP_113778.1| transcription elongation factor NusA [Methylococcus capsulatus str.
           Bath]
 gi|53758364|gb|AAU92655.1| N utilization substance protein A [Methylococcus capsulatus str.
           Bath]
          Length = 499

 Score =  583 bits (1505), Expect = e-164,   Method: Composition-based stats.
 Identities = 213/516 (41%), Positives = 322/516 (62%), Gaps = 27/516 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + D V+ EK I+++V+ S + ++++ A    +    D+RV I+ +TGD   FR 
Sbjct: 3   NKEILLVVDVVSNEKDIEKEVIFSAIEEALRTATIKRHDGRYDVRVSIDRKTGDYETFRR 62

Query: 66  LEVVEE-------VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            +VVE        VE    +ISL+ AR   P I +G  V +P   ++FGR+A Q+AKQVI
Sbjct: 63  WQVVEPREEFGNGVEFPEREISLEEARKTHPGITVGEFVEEPFDSIEFGRIAAQTAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLR 177
           +QKVREAER +    ++ +VGE+++G +KR+E GNV +DLG N +  I RDE I RE++R
Sbjct: 123 VQKVREAERRKIADAYQSRVGELVTGVIKRIERGNVFLDLGGNVEAFIPRDEMIPRESVR 182

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            GDR++  +  VR + RGPQ+ +SRT P+ ++ LF +EVPE+   ++++K  +RDPG RA
Sbjct: 183 SGDRLRGILSAVRPDARGPQLFVSRTAPELLIALFRLEVPEVSENLIEIKGAARDPGVRA 242

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S+D  +DPVGACVGMRGSRVQAV  EL  E+IDI++W+ + A FV+NA+ PA + 
Sbjct: 243 KVAVKSNDPRLDPVGACVGMRGSRVQAVSNELAGERIDIILWNENEAQFVVNAMSPAEIV 302

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            +V+DED   +++ V  E LS AIGR GQNVRLAS+LTGWT+++++  +     Q++   
Sbjct: 303 SIVVDEDRHSMDIAVADENLSQAIGRGGQNVRLASELTGWTLNVMSSTQADAKTQEETRR 362

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
             Q F++ + VD  +A +LV EGF+ VEELA V   E+  IE FDE+   E++ RAR+ L
Sbjct: 363 LIQTFVEQLGVDGEVAEILVREGFSSVEELAYVPTKELLEIEEFDEDIVEELRNRARDAL 422

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
               I  ++K+ E+  SE+L  + G+D ++   L  +GI+T+EDLA  +V DLL      
Sbjct: 423 LIKAIASEEKLEEVEPSEDLLELEGMDRELAYRLARHGIRTLEDLADQAVPDLLDIE--- 479

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                            +++   +I+ AR    W  
Sbjct: 480 --------------DMEEEKAAELIMKAR--ASWFS 499


>gi|329896244|ref|ZP_08271422.1| Transcription termination protein NusA [gamma proteobacterium
           IMCC3088]
 gi|328921915|gb|EGG29282.1| Transcription termination protein NusA [gamma proteobacterium
           IMCC3088]
          Length = 496

 Score =  583 bits (1504), Expect = e-164,   Method: Composition-based stats.
 Identities = 206/512 (40%), Positives = 328/512 (64%), Gaps = 22/512 (4%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
            E+L +A+AV+ EK +  D++   +  ++  A +  Y   SDI V IN +TGD    R  
Sbjct: 3   KEILLVAEAVSNEKGVSEDIIFEAIELALATATKKRYDEDSDIHVTINRKTGDYVTVRRW 62

Query: 67  EVVEEVEN--YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
            VV + E      Q++ + A ++DPS+  G V  + +  + FGR+A Q+AKQVI+Q+VRE
Sbjct: 63  LVVPDDELALLGTQLTTEEAIEKDPSLVPGDVFEETVENVGFGRIAAQTAKQVIVQRVRE 122

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVK 183
           AER +   +++ +VGE+++G+VK+V   N+IVDLGN ++G++ R   + RE  R  DR++
Sbjct: 123 AERAQIVDQYRGRVGELVAGSVKKVTRDNIIVDLGNNAEGLLPRGNLVGRETFRVNDRLR 182

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           + + ++  E RGPQ++LSR+  + +++LF +EVPEI  G++Q++A +RDPGSRAK+AV +
Sbjct: 183 AILTEISTEIRGPQLILSRSCSEMLIELFRIEVPEIAEGVIQIRAAARDPGSRAKIAVKT 242

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  IDPVGACVGMRGSRVQAV  EL +E++DI++W  + A  VINA+ PA V  +V+DE
Sbjct: 243 NDQRIDPVGACVGMRGSRVQAVSNELDNERVDIILWDDNPAQLVINAMSPAEVESIVVDE 302

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   ++V V ++ L+ AIGR GQNVRLAS+LTGW I++++ EE    ++ +  +  Q F+
Sbjct: 303 DTHTMDVAVSEDNLAQAIGRSGQNVRLASELTGWMINVMSTEEAQEKQEAEVGQVLQLFV 362

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
           + ++VDE +A +LV EGF  +EE+A V + E+ +IEGFDEE + E++ RA++ L  + I 
Sbjct: 363 ERLDVDEDVAEVLVEEGFTTLEEVAYVPLEEMMAIEGFDEEISEELRARAKDALLTMAIA 422

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            ++++     +++L ++ G+D  +   L   GI TMEDLA   VDDL+   E        
Sbjct: 423 SEEQLGANEPADDLLNMEGMDRHLAFILASRGIVTMEDLAEQGVDDLMEIPE-------- 474

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                      +++  S+I+ AR    W  +E
Sbjct: 475 ---------MDEERAGSLIMTARAP--WFAEE 495


>gi|319427306|gb|ADV55380.1| NusA antitermination factor [Shewanella putrefaciens 200]
          Length = 499

 Score =  583 bits (1504), Expect = e-164,   Method: Composition-based stats.
 Identities = 203/515 (39%), Positives = 322/515 (62%), Gaps = 23/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TG    FR 
Sbjct: 2   NKEILLVAEAVSNEKAVPREKIFEALEIALATATKKKYDGDIDVRVAIDRKTGGYETFRR 61

Query: 66  LEVVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             V+++    +EN   +I+L+ AR  +P I  G  + D +  + F R+  Q+AKQVI+QK
Sbjct: 62  WMVIDDHGEALENPFREITLEAARYENPDIQPGEFIEDDIESVVFDRITTQTAKQVIVQK 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGD 180
           VREAER +   +F+DK GE+I+G VK+    +V+VDLGN +DGV+ R++ ISRE+ RPGD
Sbjct: 122 VREAERAQVVEQFRDKEGELITGVVKKATRESVVVDLGNNADGVLFREDLISRESFRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV++ +Y VR E RG Q+ LSRT P+ +++LF +EVPEI + +++V   +RDPG+RAK+A
Sbjct: 182 RVRALLYSVRPEARGAQLFLSRTKPEMLIELFRVEVPEIADELIEVMGAARDPGARAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A +VINA+ PA V  ++
Sbjct: 242 VKSNDRRIDPIGACVGMRGARVQAVSNELGGERVDIVLWDDNPAQYVINAMAPADVASII 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V  + L+ AIGR GQNVRLA+QLTGW ++++T E+ +   Q +  +   
Sbjct: 302 VDEDNHSMDIAVEADSLAQAIGRNGQNVRLATQLTGWELNVMTVEDMNKKHQAESAKVVS 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F+ +++VDE  A +L  EGF  +EE+A V +SE+ +I+GFDE+    ++ RA+  +   
Sbjct: 362 LFINSLDVDEDFAQVLANEGFTSLEEVAYVPVSELLAIDGFDEDLVEALRERAKAAISTR 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  ++ +  +  S+EL ++ G++  +   L   GI T+EDLA   +DDL+   E     
Sbjct: 422 ALASEEALDGVEPSDELLALEGVERHLAYVLASKGIVTLEDLAEQGIDDLIEIEELTEEK 481

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                              ++I+ AR  + W  +E
Sbjct: 482 -----------------AGTLIMAAR-NICWFGEE 498


>gi|52425500|ref|YP_088637.1| transcription elongation factor NusA [Mannheimia succiniciproducens
           MBEL55E]
 gi|52307552|gb|AAU38052.1| NusA protein [Mannheimia succiniciproducens MBEL55E]
          Length = 501

 Score =  583 bits (1504), Expect = e-164,   Method: Composition-based stats.
 Identities = 206/518 (39%), Positives = 316/518 (61%), Gaps = 26/518 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + R+ +   +  +I  + +  Y    D+RV IN +TG+   FR 
Sbjct: 2   SKEILLAAEAVSNEKLLPREKIFEALESAIALSTKKKYEQEIDVRVAINQKTGEFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV N T +I+L+ A+  DP I +G  V D +  + F R+ +Q+A+QVI  K+REA
Sbjct: 62  WLVVDEVVNPTKEITLEAAQFEDPDIQLGDYVEDQIDSVAFDRITMQTARQVISTKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-------GNSDGVIRRDETISRENLRP 178
           ER++   +F+ + G+I++GTVK+V   ++I+DL         ++ VI R++ + REN RP
Sbjct: 122 ERNKVVEQFRSEEGKIVTGTVKKVTRDSIILDLTGNKEDPAKAEAVITREDMLPRENFRP 181

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDRV+  +Y V  E +G Q+ ++R  P  + +LF +EVPEI   ++++K  SRD G RAK
Sbjct: 182 GDRVRGVLYKVNPESKGAQLFVTRAKPVMLEELFRLEVPEIGEELIEIKGASRDAGLRAK 241

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S+D  IDPVGACVGMRGSRVQA+  EL  E++DIV+W  + A FVINA+ PA V  
Sbjct: 242 IAVKSNDKRIDPVGACVGMRGSRVQAITNELGGERVDIVLWDDNPAQFVINAMAPADVNS 301

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   +++ V +E L+ AIGR GQNVRLA+QLTGWT++++T EE     Q + N+ 
Sbjct: 302 IVVDEDNHSMDIAVEQENLAQAIGRNGQNVRLATQLTGWTLNVMTTEELQQKHQAEDNKV 361

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYL 417
              FM ++ +DE  A LL+ EGF+ +EELA V +SE+ +I+G  DE+   E+Q RA++ L
Sbjct: 362 LNLFMTSLELDEDFAQLLIDEGFSSLEELAYVPVSELTAIDGLEDEDLVEELQNRAKDAL 421

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
               +  ++ +++  V + L ++ G++  I   L E  IKT+E+LA   VDDL    E  
Sbjct: 422 TAKAVAEEEALKQAEVEDRLLNLEGMERHIAFRLAEKNIKTLEELAEQGVDDLADIEE-- 479

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                             ++   +I+ AR  + W   E
Sbjct: 480 ---------------LSAEKAADLIMAAR-NICWFGDE 501


>gi|241662813|ref|YP_002981173.1| transcription elongation factor NusA [Ralstonia pickettii 12D]
 gi|309782264|ref|ZP_07676992.1| transcription termination/antitermination protein NusA [Ralstonia
           sp. 5_7_47FAA]
 gi|240864840|gb|ACS62501.1| NusA antitermination factor [Ralstonia pickettii 12D]
 gi|308918957|gb|EFP64626.1| transcription termination/antitermination protein NusA [Ralstonia
           sp. 5_7_47FAA]
          Length = 491

 Score =  583 bits (1503), Expect = e-164,   Method: Composition-based stats.
 Identities = 200/509 (39%), Positives = 329/509 (64%), Gaps = 24/509 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV   +  ++  A +  +    D+RV I+ E+G+   FR   
Sbjct: 4   EVLLLVDALAREKNVDKDVVFGALEAALASATKKRFEEDVDVRVAIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    QI L  A++++P +D+   V + +  ++FGR+  Q+AKQVI+Q++R+
Sbjct: 64  VVPDDAGLQEPDKQILLFEAKEQNPDLDVDDFVEEQIESVEFGRIGAQAAKQVILQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ D+  ++++GT+KR +   +IV+ G  + ++ RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLDRGEKVMTGTIKRADKKGLIVETGRVEALLARDQMIPKENLRTGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +V R  RGPQ+ LSRT P+F++KLF  EVPE+  G++++KA +RDPG RAK+AV + 
Sbjct: 184 YILNVDRTARGPQIELSRTCPEFLIKLFENEVPEMEQGLLEIKAAARDPGVRAKIAVVAH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RG+RV AV  E+  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGVRGTRVTAVRNEVGGEAVDIVLWSEDPAQFVIGALAPAQVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+T  E +  + ++ +   Q FM 
Sbjct: 304 KHSMDVVVDEENLAVAIGRSGQNVRLASELTGWQINIMTPAESAQKQAEESSVVRQLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF+ +EE+A V + E+  IE FDE+T  E++ RAR+ L  +++  
Sbjct: 364 KLDVDEEVADILIEEGFSSLEEVAYVPLQEMLEIEAFDEDTVNELRNRARDVLLTMELAK 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++++    VS++L  + G+  ++   L E  I+T +DLA  +VD+L+  +          
Sbjct: 424 EERVE--KVSQDLRDLEGLTPELIGKLAEGNIQTRDDLAELAVDELVEMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                  G  ++Q +++I+ AR    W  
Sbjct: 472 -------GVDEEQAKALIMKAREH--WFS 491


>gi|254787150|ref|YP_003074579.1| transcription elongation factor NusA [Teredinibacter turnerae
           T7901]
 gi|237684737|gb|ACR12001.1| transcription elongation / termination protein, N utilization
           substance A [Teredinibacter turnerae T7901]
          Length = 496

 Score =  583 bits (1503), Expect = e-164,   Method: Composition-based stats.
 Identities = 209/514 (40%), Positives = 329/514 (64%), Gaps = 22/514 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
           + E+L +ADAV+ EK +DRDV+   +  ++  A +  Y   SDI V I+  TGD    R 
Sbjct: 2   KKEILLVADAVSNEKGVDRDVIFQAIELALATATKKRYDEDSDIEVLIDRRTGDYVTKRR 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV++  +     Q +L+ A ++D ++  G V  + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WLVVDDDTLAELGTQFTLEEAHEKDTALVAGDVYEEVVENVEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +   +++ +VGE++SG+VK+V   N+IVDLGN ++G++ R+E + RE  R  DRV
Sbjct: 122 EAERAQIVDQYRSRVGELVSGSVKKVTRDNIIVDLGNNAEGLLPREELVGREVFRMNDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + DVR E RGPQ+ LSR   + +++LF +EVPEI   ++ +K  +RDPGSRAK+AV 
Sbjct: 182 RALLMDVRPEARGPQLYLSRACSEMLIELFKIEVPEIAEEVIALKGAARDPGSRAKIAVS 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           ++D  IDPVGACVGMRGSRVQAV  EL +E+IDIV+W  + A FVINA+ PA +  +VLD
Sbjct: 242 TNDGRIDPVGACVGMRGSRVQAVSNELGNERIDIVLWDDNPAQFVINAMAPAEIESIVLD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+   +++ V ++ L+ AIGR GQNVRLAS+LTGW I++++ E+ +  + ++     + F
Sbjct: 302 EETHAMDLAVDEDNLAQAIGRGGQNVRLASELTGWEINVMSVEQWNEKQAQEAGSSKEVF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+A++VDE +A +LV EGF  +EE+A V + E  +IEGFDE+ A E++ RA++ L    +
Sbjct: 362 MEALDVDEDVADVLVDEGFTTLEEVAYVPLEEFLAIEGFDEDIANELRSRAKDALLTQAL 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             +++      +E+L ++ G+D+++   L   G+  MEDLA  SVD+L+           
Sbjct: 422 ATEEQTVGQEPAEDLLTMEGMDNELAFVLASRGVTCMEDLAEQSVDELMEID-------- 473

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                    G  +++  ++I+ AR    W    +
Sbjct: 474 ---------GMDEERAAALIMKAREP--WFADGE 496


>gi|269103408|ref|ZP_06156105.1| transcription termination protein NusA [Photobacterium damselae
           subsp. damselae CIP 102761]
 gi|268163306|gb|EEZ41802.1| transcription termination protein NusA [Photobacterium damselae
           subsp. damselae CIP 102761]
          Length = 494

 Score =  583 bits (1503), Expect = e-164,   Method: Composition-based stats.
 Identities = 203/511 (39%), Positives = 317/511 (62%), Gaps = 20/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TG+   FR 
Sbjct: 2   NKEILAVVEAVSNEKAVPRERIFEALEIALATATKKKYEAEIDVRVTIDRKTGEFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            + V+EV   T +I+L+ A+  D ++++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WKAVDEVTQPTLEITLEAAQFEDETVELGDFVEDEIQSVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  G++I+G VK+V    VIVDLGN ++ VI RD+ + REN RPGDRV+ 
Sbjct: 122 ERAQIVAQFVDNEGDLITGVVKKVNRDAVIVDLGNNAEAVIGRDDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E RG Q+ ++R+ P  + +LF +EVPEI   ++++   +RDPGSRAK+AV ++
Sbjct: 182 LLYKVAPEARGFQLFMTRSKPAMLSELFRIEVPEIGEELIELMGAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A +VINA+ PA V+ +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDENPAQYVINAMAPAEVSSIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V K  L+ AIGR GQNVRLASQLTGW ++++T E+     Q++  E    F +
Sbjct: 302 SHTMDIAVEKANLAQAIGRNGQNVRLASQLTGWELNVMTVEDLQKKHQEEAQESIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF  +EE+A V ++E+  +EG +EET  E++ RA+E L  I +  
Sbjct: 362 YLDIDEDFASVLVTEGFTTLEEIAYVPVNELLEVEGLNEETIDELRNRAKEALTTIALAK 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +E+L ++ G++ ++   L   GI T+EDLA    DDL+             
Sbjct: 422 EESL-DAEPAEDLLALEGLERELAFKLAAKGILTLEDLADQGTDDLIDIE---------- 470

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G  + +   +I+ AR  + W   E
Sbjct: 471 -------GVDEAKAGELIMAAR-NICWFGDE 493


>gi|157376522|ref|YP_001475122.1| transcription elongation factor NusA [Shewanella sediminis HAW-EB3]
 gi|157318896|gb|ABV37994.1| NusA antitermination factor [Shewanella sediminis HAW-EB3]
          Length = 499

 Score =  583 bits (1503), Expect = e-164,   Method: Composition-based stats.
 Identities = 196/516 (37%), Positives = 315/516 (61%), Gaps = 23/516 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK + R+ +   +  ++  A +  Y    ++RVEI+ +TG    FR 
Sbjct: 2   NKEILLVTEAVSNEKGVPREKIFEALEIALATATKKKYEGDIEVRVEIDRKTGAYETFRR 61

Query: 66  LEVVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             VVE+    +EN   +I+L+ A+  +P I +G  + D +  + F R+  Q+AKQVI+QK
Sbjct: 62  WMVVEDTGEPLENPFSEITLEAAQFEEPEIQLGEYIEDDIESVVFDRITTQTAKQVIVQK 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGD 180
           VREAER +   +FKDK GE+I+G VK+    +V+VDLG N+D V+ +++ ISRE+ RPGD
Sbjct: 122 VREAERAQIVDQFKDKEGELITGVVKKSNRESVVVDLGSNADAVLFKEDLISRESFRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV++ ++ VR E RG Q+ L+RT P  +++LF +EVPEI + ++++   +RDPGSRAK+A
Sbjct: 182 RVRALLFAVRPEARGAQLFLTRTKPDMLIELFRVEVPEIADEMIEIMGAARDPGSRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A +VINA+ PA V  ++
Sbjct: 242 VKSNDRRIDPIGACVGMRGARVQAVSNELNGERVDIVLWDDNPAQYVINAMAPADVASII 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V  + L+ AIGR GQNVRLA+QL+GW ++++T  +     Q +  +   
Sbjct: 302 VDEDNHSMDIAVEADSLAQAIGRNGQNVRLATQLSGWELNVMTVADMQAKHQAESAKVVN 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F+ ++ VDE  A +L  EGF  +EE+A V  SE+  I+GFDE+    ++ RA+  +   
Sbjct: 362 LFVTSLEVDEDFAQVLADEGFTSLEEVAYVPASELMDIDGFDEDIVETLRERAKAAISTR 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  ++ +     SE+L ++ G++  +       G+ T+EDLA   +DDL+   E     
Sbjct: 422 ALASEEALDGAEPSEDLLALEGLERHLAFVFASKGVITLEDLAEQGIDDLIDIEE----- 476

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                         +++   +I+ AR  + W   E+
Sbjct: 477 ------------LTEEKAGELIMAAR-NICWFGDEE 499


>gi|293390259|ref|ZP_06634593.1| transcription elongation factor NusA [Aggregatibacter
           actinomycetemcomitans D7S-1]
 gi|290950793|gb|EFE00912.1| transcription elongation factor NusA [Aggregatibacter
           actinomycetemcomitans D7S-1]
          Length = 498

 Score =  583 bits (1503), Expect = e-164,   Method: Composition-based stats.
 Identities = 198/515 (38%), Positives = 315/515 (61%), Gaps = 24/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + R+ +   +  +I  + +  Y    D+RV INP+TG+   FR 
Sbjct: 2   SKEILLAAEAVSNEKLLPREKIFEALESAIALSTKKKYEYDVDVRVAINPKTGEFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV N T +I+L+ AR  DP   +G  V D +  + F R+ +Q+A+QVI  K+REA
Sbjct: 62  WVVVEEVNNPTKEITLEAARFEDPDAQVGDYVEDQIESIAFDRITMQTARQVISTKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-----NSDGVIRRDETISRENLRPGD 180
           ER +   +F+ K G+II+ TVK+    +VI+D+       ++ V+ R++ + REN RPGD
Sbjct: 122 ERSKIVDQFRSKEGQIITATVKKSNRDSVILDVNGEDGNKAEAVMLREDMLPRENFRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV+  +Y V  E +G Q+ ++R  P+ +++LF +EVPEI   ++++++ +RDPGSRAK+A
Sbjct: 182 RVRGVLYKVSPESKGTQLFVTRAKPEMLIELFRLEVPEIGEELIEIRSAARDPGSRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +V
Sbjct: 242 VKSNDKRIDPVGACVGMRGARVQAITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIV 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V +  L+ AIGR GQNVRLA+QLTGW ++++T +E +   Q + ++   
Sbjct: 302 VDEDKHSMDIAVEEVNLAQAIGRNGQNVRLATQLTGWVLNVMTTQELNAKHQAEDDKVLN 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLEG 419
            F+  + +DE  A LL+ EGF+ +EELA V +SE+ +I+G  DE+   E+Q RA+  +  
Sbjct: 362 LFIDTLEIDEEFAQLLIDEGFSTLEELAYVSVSELTAIDGLEDEDLVEELQTRAKNAITA 421

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
             +  ++ +++  + + L ++ G++  I   L E  I T+E+LA   VDDL    E    
Sbjct: 422 QALAEEEALKQAKIEDRLLNLEGMNRHIAFKLSEKQITTLEELAEQGVDDLADIEE---- 477

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                           +Q   +I+ AR  + W  +
Sbjct: 478 -------------LGAEQAADLIMAAR-NICWFTE 498


>gi|187478885|ref|YP_786909.1| transcription elongation factor NusA [Bordetella avium 197N]
 gi|115423471|emb|CAJ50005.1| transcription elongation protein (N utilization substance protein)
           [Bordetella avium 197N]
          Length = 492

 Score =  582 bits (1502), Expect = e-164,   Method: Composition-based stats.
 Identities = 205/511 (40%), Positives = 310/511 (60%), Gaps = 25/511 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++ R+VV   +  ++  A +  +   +DIRV I+ ETG    FR   
Sbjct: 4   EILLLVDALAREKNVTREVVFGALESALASAMKKRFKEDADIRVSIDRETGGHEGFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    Q  L  A +  P +++G  + +PL P++FGR+  Q+AKQ I+QK+R+
Sbjct: 64  VVPDEAGLQEPDKQELLSDAHEISPDLEVGDFIEEPLEPVEFGRIGAQAAKQAILQKIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F D+   IISGT+KR++ G+ IV+ G  +  + R E I +ENLR GDRV++
Sbjct: 124 AEREQVLNDFLDRGETIISGTIKRMDKGDYIVETGKIEARLPRTEMIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           ++  V    RG QV+LSRT P+F+ +LF  EVPEI  G++++KA +RDPG RAK+AV + 
Sbjct: 184 FVLRVDHAARGQQVILSRTSPEFIRQLFENEVPEIEQGLLEIKAAARDPGVRAKIAVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVGMRGSRV AV  EL  E++DIV+WS D A FVI AL PA V  +V+DED
Sbjct: 244 DKRIDPIGTCVGMRGSRVTAVRNELGGEQVDIVLWSEDPAQFVIGALAPANVESIVVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L  AIG +GQNVRLAS+LTGW I+I+T EE    ++ +       FM 
Sbjct: 304 KHAMDVVVDEENLPKAIGAKGQNVRLASELTGWQINIMTPEESLNRQENERVSLRATFMD 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RAR  L    I  
Sbjct: 364 KLDVDEEVADILIDEGFTGLEEIAYVPMQELLEIEAFDEDTINELRVRARNALLTEAIAQ 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           +++   L  +++L  + G+   +   L E  + T +DLA  + D+L   +          
Sbjct: 424 EER---LETAQDLLELEGVTPDLAAKLAERNVHTRDDLAELATDELAEIA---------- 470

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G  + +   +I+ AR    W ++E
Sbjct: 471 -------GMSEQEASDLIMRARAH--WFDEE 492


>gi|294142061|ref|YP_003558039.1| N utilization substance protein A [Shewanella violacea DSS12]
 gi|293328530|dbj|BAJ03261.1| N utilization substance protein A [Shewanella violacea DSS12]
          Length = 499

 Score =  582 bits (1502), Expect = e-164,   Method: Composition-based stats.
 Identities = 195/516 (37%), Positives = 319/516 (61%), Gaps = 23/516 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK + R+ +   +  ++  A +  +    ++RVEI+ +TG    FR 
Sbjct: 2   NKEILLVAEAVSNEKGVPREKIFEALEIALATATKKKHVGEIEVRVEIDRKTGAYETFRR 61

Query: 66  LEVVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +VVE+    +EN   +I+L+ A+  +  + +G  V D +  + F R+  Q+AKQVI+QK
Sbjct: 62  WQVVEDTGEPLENPYGEITLEAAQYENAELQVGDFVEDDMESVTFDRITTQTAKQVIVQK 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGD 180
           VREAER +   +F+D+ GE+I+G VK+    +V+VDLG N+D V+ +++ ISREN RPGD
Sbjct: 122 VREAERAQVVEQFQDREGELITGIVKKSNRESVVVDLGGNADAVLFKEDLISRENFRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+++ ++ VR E RG Q+ ++RT P  +++LF +EVPEI + ++++   +RDPGSRAK+A
Sbjct: 182 RIRALLFSVRPEARGAQLFMTRTQPDMLIELFRVEVPEIADEMIEIMGAARDPGSRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A FVINA+ PA V  +V
Sbjct: 242 VKSNDRRIDPIGACVGMRGARVQAVSNELNGERVDIVLWDDNPAQFVINAMAPADVASIV 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V  + L+ AIGR GQNVRLA+QL+GW ++++T E+     Q +  +   
Sbjct: 302 VDEDTHSMDIAVEADSLAQAIGRNGQNVRLATQLSGWVLNVMTVEDLQAKHQAESAKVVS 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F+ +++VDE  A +L  EGF  +EE+A V  +E+  I+GFDE+T   ++ RA+  +   
Sbjct: 362 LFVSSLDVDEDFAQILADEGFTSLEEVAYVPSAELMEIDGFDEDTVEALRERAKAAISTR 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  ++ +     SE+L ++ G++  +       G+ T+EDLA   +DDL+   E     
Sbjct: 422 ALATEEALDGAEPSEDLLALEGLEKHLAFVFASKGVITLEDLAEQGIDDLIDIEE----- 476

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                         +++   +I+ AR  + W   E+
Sbjct: 477 ------------LTEEKAGELIMAAR-NICWFGDEE 499


>gi|119898399|ref|YP_933612.1| transcription elongation factor NusA [Azoarcus sp. BH72]
 gi|119670812|emb|CAL94725.1| putative N utilization substance protein A [Azoarcus sp. BH72]
          Length = 491

 Score =  582 bits (1501), Expect = e-164,   Method: Composition-based stats.
 Identities = 212/509 (41%), Positives = 336/509 (66%), Gaps = 23/509 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++ +D+V   +  ++  A +      +D+RV I+ ETGD   FR   
Sbjct: 4   EILLLVDALAREKNVAKDIVFGALESALASATKKRIHDEADVRVSIDRETGDYESFRRWI 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           V+  EEV N   ++ +  AR+ D  I +G  + +PL P+DFGR+  Q+AKQVI+Q++R+A
Sbjct: 64  VMPDEEVTNDEAEMGIIDARELDSKIQLGEYIEEPLEPIDFGRIGAQAAKQVILQRIRDA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F D+   ++SG++KR+E GN I+++G  + V+ RD+ I RENLR GDRVK++
Sbjct: 124 EREQVLNDFLDRKEFLVSGSIKRMERGNAIIEVGRLEAVLPRDQQIPRENLRVGDRVKAF 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  + R  RGPQ++LSRT P+F++KLF +EVPEI +G++++KA +RDPG RAK+AV S+D
Sbjct: 184 LLKIDRGARGPQLILSRTAPEFLMKLFELEVPEIEDGLLEIKACARDPGLRAKIAVKSND 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDP+G CVG+RGSRV AV  E+  E+IDI+VW+ D A FVI AL+PA V  +V+DE+ 
Sbjct: 244 QRIDPIGTCVGLRGSRVTAVRNEIGGEQIDIIVWAADPAQFVIAALQPAEVVSIVVDEEA 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++V+V +  L++AIGR GQNV+LAS+LTGWTI++++E+E +   +++ +     FM+ 
Sbjct: 304 HAMDVVVDESNLAIAIGRNGQNVKLASELTGWTINLMSEQESAEKSEQEKSGIRSLFMEK 363

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE +A +L+ EGF+ +EE+A V ++E+  IE FDEET  E++ RAR  L    I  +
Sbjct: 364 LDVDEEVADILIDEGFSSLEEIAYVPLAEMLEIEAFDEETVTELRNRARNVLLTEAIVTE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFD 485
           +++    VS++L  + G+D  +   L   GI+T +DLA  +VD+L+  +           
Sbjct: 424 EQLEN--VSDDLLGLDGMDKSLAAKLAGKGIRTRDDLADLAVDELVEMA----------- 470

Query: 486 GFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                 G   +Q +++I  AR    W E+
Sbjct: 471 ------GLDVEQAKALISVARAH--WFEE 491


>gi|237808991|ref|YP_002893431.1| transcription elongation factor NusA [Tolumonas auensis DSM 9187]
 gi|237501252|gb|ACQ93845.1| NusA antitermination factor [Tolumonas auensis DSM 9187]
          Length = 499

 Score =  582 bits (1501), Expect = e-164,   Method: Composition-based stats.
 Identities = 206/514 (40%), Positives = 318/514 (61%), Gaps = 22/514 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + DAV+ EK++ R+ +   +  ++  A +  Y    ++RV I+ +TGD   FR 
Sbjct: 2   NKEILLVVDAVSNEKAVPREKIFQALETALATATKKKYEGDIEVRVTIDRKTGDFDTFRR 61

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +VVE    ++N   +ISL  A+  DPSI +G  V + +  + F R+  Q+AKQVI+QKV
Sbjct: 62  WQVVEGDGIMQNPYREISLDAAQYDDPSIQLGDYVEEQVESITFDRITTQTAKQVIVQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER +   +F+D+ G I++G VK+V   ++I+DLG N++GV+ R++ + RE+ R GDR
Sbjct: 122 REAERAQIVEQFRDQEGTIVTGVVKKVNRDSIIMDLGSNAEGVLYREDMLPRESFRNGDR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           VK  +  V+ E RG Q+ +SRTHP F+ +LF +EVPEI   I+++K  +RDPGSRAK+AV
Sbjct: 182 VKGLLAAVKPEARGSQLFISRTHPDFLKELFRIEVPEIGEEIIEIKGAARDPGSRAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++
Sbjct: 242 KTNDRRIDPVGACVGMRGARVQAVSGELAGERIDIVLWDDNPAQFVINAMAPADVASLIV 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T E+     Q + +     
Sbjct: 302 DEDNHTMDIAVISSNLAQAIGRNGQNVRLASQLSGWELNVMTVEDMQTKHQAEKDRILTL 361

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F QA+++D+  A LLV EGF+ VEE+A V +SE+  I+G D E   E++ RA++ L    
Sbjct: 362 FTQALDIDDDFAELLVEEGFSTVEEIAYVPLSELQRIDGLDNEQIEELRERAKQALSTQA 421

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           +  ++ +     +++L ++ G+   +   L   GI T+EDLA   +DDL G         
Sbjct: 422 LAKEETLAGAKPADDLLALQGMTLDLAYELAARGIPTLEDLAEQGIDDLSGIP------- 474

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                     G  +++   +I+ AR  + W  ++
Sbjct: 475 ----------GMTEEKAGELIMAAR-NICWFGEQ 497


>gi|153001790|ref|YP_001367471.1| transcription elongation factor NusA [Shewanella baltica OS185]
 gi|160876524|ref|YP_001555840.1| transcription elongation factor NusA [Shewanella baltica OS195]
 gi|217972314|ref|YP_002357065.1| transcription elongation factor NusA [Shewanella baltica OS223]
 gi|304410266|ref|ZP_07391885.1| transcription termination factor NusA [Shewanella baltica OS183]
 gi|307302023|ref|ZP_07581781.1| transcription termination factor NusA [Shewanella baltica BA175]
 gi|151366408|gb|ABS09408.1| NusA antitermination factor [Shewanella baltica OS185]
 gi|160862046|gb|ABX50580.1| NusA antitermination factor [Shewanella baltica OS195]
 gi|217497449|gb|ACK45642.1| NusA antitermination factor [Shewanella baltica OS223]
 gi|304351675|gb|EFM16074.1| transcription termination factor NusA [Shewanella baltica OS183]
 gi|306914061|gb|EFN44482.1| transcription termination factor NusA [Shewanella baltica BA175]
 gi|315268718|gb|ADT95571.1| NusA antitermination factor [Shewanella baltica OS678]
          Length = 499

 Score =  582 bits (1501), Expect = e-164,   Method: Composition-based stats.
 Identities = 203/515 (39%), Positives = 321/515 (62%), Gaps = 23/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TG    FR 
Sbjct: 2   NKEILLVAEAVSNEKAVPREKIFEALEIALATATKKKYEGDIDVRVAIDRKTGGYDTFRR 61

Query: 66  LEVVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             VV++    +EN   +I+L+ AR  +P I  G  + D +  + F R+  Q+AKQVI+QK
Sbjct: 62  WMVVDDHGEALENPYREITLEAARYENPDIQPGEFIEDDIESVVFDRITTQTAKQVIVQK 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGD 180
           VREAER +   +F+D+ GE+I+G VK+    +V+VDLGN +DGV+ R++ ISRE+ RPGD
Sbjct: 122 VREAERAQVVEQFQDQEGELITGIVKKATRESVVVDLGNNADGVLFREDLISRESFRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV++ +Y VR E RG Q+ LSRT P+ +++LF +EVPEI + ++++   +RDPG+RAK+A
Sbjct: 182 RVRALLYSVRPEARGAQLFLSRTKPEMLIELFRVEVPEIADELIEIMGAARDPGARAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A +VINA+ PA V  ++
Sbjct: 242 VKSNDRRIDPIGACVGMRGARVQAVSNELGGERVDIVLWDDNPAQYVINAMAPADVASII 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V  + L+ AIGR GQNVRLA+QLTGW ++++T E+ +   Q +  +  +
Sbjct: 302 VDEDNHSMDIAVEADSLAQAIGRNGQNVRLATQLTGWVLNVMTVEDMNKKHQAESAKVVE 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F+ +++VDE  A +L  EGF  +EE+A V +SE+ +I+GFDE+    ++ RA+  +   
Sbjct: 362 LFVNSLDVDEDFAQVLADEGFTSLEEVAYVPVSELLAIDGFDEDLVEALRERAKAAISTR 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  ++ +  +  SEEL ++ G+D  +       GI T+EDLA   +DDL+   E     
Sbjct: 422 ALATEEALDGVEPSEELLALEGVDRHLAYVFASKGIVTLEDLAEQGIDDLIEIEELTEEK 481

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                               +I+ AR  + W  +E
Sbjct: 482 -----------------AGELIMAAR-NICWFGEE 498


>gi|302878488|ref|YP_003847052.1| NusA antitermination factor [Gallionella capsiferriformans ES-2]
 gi|302581277|gb|ADL55288.1| NusA antitermination factor [Gallionella capsiferriformans ES-2]
          Length = 490

 Score =  582 bits (1501), Expect = e-164,   Method: Composition-based stats.
 Identities = 212/507 (41%), Positives = 324/507 (63%), Gaps = 23/507 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA++ EK++D++VV S +  ++  A +  +   +D+RV I+  TG+   FR  E
Sbjct: 4   EVLLLVDALSREKNVDKEVVFSALESALASATKKRFEDEADVRVAIDRNTGEFESFRCWE 63

Query: 68  VVEEV--ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           V+++   E     I L+ A  RDP+I +GG + +PL  +DFGR+  Q+AKQVI QK+R+A
Sbjct: 64  VMDDETFETPDLHIKLEEALKRDPAIALGGFIEEPLESVDFGRIGAQAAKQVIFQKIRDA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F D+   ++SGTVKR+E G+ IV+ G  + ++ RD+ I +EN+R GDRV+++
Sbjct: 124 EREQILADFMDRKEHLVSGTVKRLERGSAIVEFGKIEALLPRDQMIPKENMRIGDRVRAH 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V R  RGPQV+LSRT    +VKLF +EVPEI   ++++   +RDPGSRAK+AV S D
Sbjct: 184 LLRVDRGPRGPQVILSRTSTDLLVKLFELEVPEIEENLLEIVGAARDPGSRAKIAVQSHD 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDP+G CVGMRGSRVQ+V  EL  E++DI++WS D AT+VIN+L PA V+ +V+DED 
Sbjct: 244 QRIDPIGTCVGMRGSRVQSVTNELAGERVDIILWSEDPATYVINSLAPAEVSSIVVDEDR 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++V+V +E L+ AIGR GQNVRLAS++TGW ++I+T E+      ++F +    FM+ 
Sbjct: 304 HSMDVVVEEENLAQAIGRGGQNVRLASEMTGWELNIMTVEQAQEKHDQEFVKTRAIFMEK 363

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE +A +LV EGFA +EE+A V + E+  IE FDE+T  E++ RAR  L    +  +
Sbjct: 364 LDVDEEVADILVQEGFATLEEVAYVPVEEMLEIETFDEDTVNELRSRARNALLNAALVSE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFD 485
           +K+ E G+ + L  + G++ ++   L   G+ T E LA   VD+L+  S           
Sbjct: 424 EKV-EHGI-DGLLKLDGMNDELARELAVKGVTTQEQLADLDVDELVELS----------- 470

Query: 486 GFLSSLGTPKDQVESMIIHARYKMGWI 512
                 G   D   ++I+ AR    W 
Sbjct: 471 ------GLDADVANALIMAARAP--WF 489


>gi|149189795|ref|ZP_01868076.1| transcription elongation factor NusA [Vibrio shilonii AK1]
 gi|148836444|gb|EDL53400.1| transcription elongation factor NusA [Vibrio shilonii AK1]
          Length = 495

 Score =  581 bits (1499), Expect = e-164,   Method: Composition-based stats.
 Identities = 196/512 (38%), Positives = 319/512 (62%), Gaps = 19/512 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  + +  +    D+RV I+ +TG+   FR 
Sbjct: 2   SKEILAVVEAVSNEKAVPRERIFEALEIALATSTKKKHEIEIDVRVAIDRKTGEFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
              VEEVE  T +IS++ A+  D SI +G  V + +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WMAVEEVEFPTKEISIEAAQFDDESIQVGDFVEEEIDSVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  G++++G VK+V    +I+DLGN ++ VI RD+ + REN RPGDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGDLVTGVVKKVNRDTIILDLGNNAEAVILRDDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E RG Q+ ++R+ P+ + +LF +EVPEI   ++++K  +RDPGSRAK+AV ++
Sbjct: 182 LLYKVAPEARGFQLFITRSKPEMLAELFRVEVPEIAEELIELKGAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DRRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +     Q++     + FM+
Sbjct: 302 AHSMDIAVEADNLAQAIGRSGQNVRLASQLTGWELNVMTVADLQKKHQEEAIASIENFMK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++++  A +LV EGF+ +EE+A V ++E+  I+G +EE   E++ RA++ L  + +  
Sbjct: 362 HLDIEQDFAEMLVEEGFSTLEEVAYVPVNELLEIDGLNEELVEELRSRAKDALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++    +  +E+L ++ G++ ++   L   G+ T+EDLA   VD+L G            
Sbjct: 422 EESFEGVEPAEDLLALEGLEREMAFKLAAKGVATLEDLADQGVDELEGIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                  G  +++   +I+ AR  + W   E+
Sbjct: 472 -------GLTEERAGELIMAAR-NICWFGDEE 495


>gi|300704337|ref|YP_003745940.1| transcription termination/antitermination l factor [Ralstonia
           solanacearum CFBP2957]
 gi|299072001|emb|CBJ43331.1| transcription termination/antitermination L factor [Ralstonia
           solanacearum CFBP2957]
          Length = 491

 Score =  581 bits (1499), Expect = e-164,   Method: Composition-based stats.
 Identities = 198/509 (38%), Positives = 328/509 (64%), Gaps = 24/509 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV   +  ++  A +  +    ++RV I+ E+G+   FR   
Sbjct: 4   EVLLLVDALAREKNVDKDVVFGALEAALASATKKRFEEDVEVRVAIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR+++P + I   + + +  ++FGR+  Q+AKQVI+Q++R+
Sbjct: 64  VVPDDAGLQEPDKEILLFEAREQNPDVSIDDFIEEQIESVEFGRIGAQAAKQVILQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ D+  +I++GT+KR +   +IV+ G  + ++ RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLDRGEKIMTGTIKRADKKGLIVESGRVEALLARDQMIPKENLRTGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +V R  RGPQ+ LSRT P+F++KLF  EVPE+  G++++KA +RDPG RAK+AV + 
Sbjct: 184 YILNVDRTARGPQIELSRTCPEFLIKLFENEVPEMEQGLLEIKAAARDPGVRAKIAVVAH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RG+RV AV  E+  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGVRGTRVTAVRNEVGGEAVDIVLWSEDPAQFVIGALAPAQVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+T  E +  + ++ +   + FM+
Sbjct: 304 KHSMDVVVDEENLAVAIGRSGQNVRLASELTGWQINIMTPTESAQKQAEESSVVRKLFME 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VD+ +A +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RAR+ L  +++  
Sbjct: 364 RLDVDQEVADILIEEGFTSLEEVAYVPLQEMLEIEAFDEDTVNELRNRARDVLLTMELAK 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    VS++L  + G+  ++   L E  I+T +DLA  +VD+L+  +          
Sbjct: 424 EEKVE--KVSQDLRDLEGLTPELIGKLAEGNIQTRDDLAELAVDELVDMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                  G  ++Q +++I+ AR    W  
Sbjct: 472 -------GVDEEQAKALIMKAREH--WFS 491


>gi|24372786|ref|NP_716828.1| transcription elongation factor NusA [Shewanella oneidensis MR-1]
 gi|24346871|gb|AAN54273.1|AE015564_4 N utilization substance protein A [Shewanella oneidensis MR-1]
          Length = 499

 Score =  581 bits (1499), Expect = e-164,   Method: Composition-based stats.
 Identities = 205/515 (39%), Positives = 321/515 (62%), Gaps = 23/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TG    FR 
Sbjct: 2   NKEILLVAEAVSNEKAVPREKIFEALETALATATKKKYEGDIDVRVAIDRKTGAYETFRR 61

Query: 66  LEVVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             V+++    +EN   +I+L+ AR  +P I  G  + D +  + F R+  Q+AKQVI+QK
Sbjct: 62  WMVIDDNGVALENPYREITLEAARFEEPEIQPGEYIEDQIESVAFDRITTQTAKQVIVQK 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGD 180
           VREAER +   +F+DK GE+I+G VK+    +V+VDLGN +DGV+ R++ ISRE+ RPGD
Sbjct: 122 VREAERAQVVEQFQDKEGELITGVVKKATRESVVVDLGNNADGVLFREDLISRESFRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV++ +Y VR E RG Q+ L+RT P  +++LF +EVPEI + +++V   +RDPG+RAK+A
Sbjct: 182 RVRALLYSVRPEARGAQLFLTRTKPDMLIELFRVEVPEIADELIEVMGAARDPGARAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A +VINA+ PA V  ++
Sbjct: 242 VKSNDRRIDPIGACVGMRGARVQAVSNELGGERVDIVLWDDNPAQYVINAMAPADVASII 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V  E L+ AIGR GQNVRLA+QLTGW ++++T E+ +   Q +  +   
Sbjct: 302 VDEDNHSMDIAVEAESLAQAIGRNGQNVRLATQLTGWELNVMTVEDMNKKHQAESAKVKS 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM++++VDE  A +L  EGF  +EE+A V +SE+ +I+GFDE+    ++ RA+  +   
Sbjct: 362 LFMKSLDVDEDFAQVLADEGFTSLEEVAYVPVSELLAIDGFDEDLVEALRERAKAAISTR 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  ++ +  +  SEEL ++ G++  +   L   GI T+EDLA   +DDL+   E     
Sbjct: 422 ALASEEALDGVEPSEELLALEGVERHLAYVLASKGIVTLEDLAEQGIDDLIEIEELTEEK 481

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                               +I+ AR  + W  +E
Sbjct: 482 -----------------AGELIMAAR-NICWFGEE 498


>gi|148976708|ref|ZP_01813395.1| transcription elongation factor NusA [Vibrionales bacterium SWAT-3]
 gi|145964059|gb|EDK29317.1| transcription elongation factor NusA [Vibrionales bacterium SWAT-3]
          Length = 495

 Score =  581 bits (1499), Expect = e-164,   Method: Composition-based stats.
 Identities = 202/512 (39%), Positives = 320/512 (62%), Gaps = 19/512 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +       ++RVEI+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKAVPRERIFEALEIALATATKKKSELEIEVRVEIDRKTGDFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            E VE VEN T +ISL+ A+  DP I++GG + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WEAVEVVENPTKEISLEAAKYDDPEIELGGFIEDDIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  GE+++G VK+V    +I+DLGN ++ VI RD+ + REN RPGDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGELVTGVVKKVNRDTIILDLGNNAEAVILRDDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V+ E RG Q+ ++R+ P+ + +LF +EVPEI   ++++K  +RD GSRAK+AV ++
Sbjct: 182 LLYAVKPEARGFQLFITRSKPEMLAELFRVEVPEIGEELIELKGAARDAGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T E+     Q++     + FM+
Sbjct: 302 AHSMDIAVEADNLAQAIGRSGQNVRLASQLTGWELNVMTVEDLQKKHQEEAVASIENFMK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++++E  A LLV EGF+ +EE+A V ++E+  ++G DE    E++ RA++ L  + +  
Sbjct: 362 HLDIEEDFAQLLVEEGFSTLEEVAYVPVNELLEVDGLDEGIVEELRNRAKDALTTLALAK 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++    +  +E+L ++ G++ ++   L   G+ T+EDLA   VD+L G            
Sbjct: 422 EETFDGVEPAEDLLALEGLEREMAYKLAAKGVATLEDLADQGVDELEGIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                      ++   +I+ AR  + W   E+
Sbjct: 472 -------DLTAERAGELIMAAR-NICWFGDEE 495


>gi|254456337|ref|ZP_05069766.1| transcription termination factor [Candidatus Pelagibacter sp.
           HTCC7211]
 gi|207083339|gb|EDZ60765.1| transcription termination factor [Candidatus Pelagibacter sp.
           HTCC7211]
          Length = 517

 Score =  581 bits (1499), Expect = e-164,   Method: Composition-based stats.
 Identities = 244/507 (48%), Positives = 352/507 (69%), Gaps = 3/507 (0%)

Query: 4   ANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLF 63
           A++LELL+IA+AVA EKSID+++++S M   I KAA+S +G  ++I+V I+ ++GDI +F
Sbjct: 6   ADKLELLRIAEAVALEKSIDKELIISSMETGIAKAAKSKFGQDNEIKVSIDRDSGDIEIF 65

Query: 64  RLLEVVEEVENYTCQISLKVA---RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           R L V E  EN   +I L+ A    + +    +G  V  PLP  DFGR+A Q+AKQVI  
Sbjct: 66  RKLIVAENPENSNTEIKLEDAIILNEINKDKAVGDEVLQPLPSFDFGRIAAQTAKQVISF 125

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
            VREAER+RQY +F DK   I+SG VKR+E+GNVI DLG ++ +I+++E I REN++ GD
Sbjct: 126 NVREAERERQYNDFIDKKDTILSGIVKRLEFGNVIADLGRTEAIIQKNEMIPRENIKAGD 185

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K+Y YDVRRE RG Q+ LSR HP+FM KLF  EVPEIY+G++++K+ SRDPGSRAK+ 
Sbjct: 186 RIKAYCYDVRREPRGQQIFLSRAHPKFMEKLFVQEVPEIYDGLIEIKSSSRDPGSRAKIC 245

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V + D+S+DPVGACVGMRGSRVQAVV EL+ EKIDIV WS D A  V NAL PA V +V 
Sbjct: 246 VKAVDTSLDPVGACVGMRGSRVQAVVNELQGEKIDIVNWSEDPAILVSNALSPAEVQRVN 305

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +D +  +++VI+ +E LS AIGRRGQNVRLA++L  + I+I+T+ EDS  RQ +F E+T+
Sbjct: 306 VDIERKKLDVILTEENLSKAIGRRGQNVRLATKLLNYEINIMTDAEDSERRQVEFKEKTE 365

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F++ + +DE +  LLVAEGF+ ++++       +  IEG +E+TA+ +  RA+E+ +  
Sbjct: 366 NFVKNLELDETLGQLLVAEGFSSIDDIKDTTAENLMKIEGIEEDTAIALIERAKEFHQKD 425

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
              + ++I+ELG+ + L ++ G+   + V LGE  I T+ED A  + D+L G  +   G 
Sbjct: 426 QEDISERIKELGLQDSLINLKGLTPGMLVTLGEQKILTLEDFADLASDELTGGYDVVKGE 485

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARY 507
             K  G+L      K++ + +I+ AR 
Sbjct: 486 RVKIQGYLEDFALSKEEADELIMSARK 512


>gi|126664888|ref|ZP_01735872.1| transcription elongation factor NusA [Marinobacter sp. ELB17]
 gi|126631214|gb|EBA01828.1| transcription elongation factor NusA [Marinobacter sp. ELB17]
          Length = 497

 Score =  581 bits (1498), Expect = e-163,   Method: Composition-based stats.
 Identities = 203/514 (39%), Positives = 322/514 (62%), Gaps = 23/514 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS-DIRVEINPETGDISLFR 64
             E+L + ++V+ EK +++DV+   +  ++  AA+  +     DIRV I+  TG+   FR
Sbjct: 2   SKEILLVVESVSNEKGVEKDVIFEAIELALATAAKKRFDDEDADIRVSIDRRTGEYDTFR 61

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VV+   V     +++ + A D  P +  G +  + +  + FGR+  Q+AKQ+I QKV
Sbjct: 62  RWLVVDNDAVPALGTELTFQEAEDISPDLQPGDMHEERIDSVAFGRIGAQAAKQIIFQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDR 181
           REAER +    ++ +VGE++SGTVK+V   NVIVDLGN ++ ++ R+  I+RE  R GDR
Sbjct: 122 REAERTKIVDSYRGRVGELVSGTVKKVTRDNVIVDLGNNAEALLPREHLIARETFRMGDR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+S + ++R + RGPQ++LSR+  + +++LF +EVPEI   +++++  +RDPGSRAK+AV
Sbjct: 182 VRSLLLEIRTDHRGPQLILSRSDSKMLIELFRIEVPEIAEELIEIRGAARDPGSRAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGACVGMRGSRVQAV  EL  E++DIV+W  + A  VINA+ PA V  +V+
Sbjct: 242 KTNDRRIDPVGACVGMRGSRVQAVSNELNGERVDIVLWDDNPAQLVINAMAPAEVASIVM 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   ++V V  + L+ AIGR GQNVRLA++LTGWT++++TEEE    ++++     + 
Sbjct: 302 DEDRHTMDVAVAADNLAQAIGRNGQNVRLATELTGWTLNVMTEEEAGERQEQEQGRLLEH 361

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + +++DE  A +L+ EGF+ +EE+A + + E+ +IEGFDEET  E++ RA++ L    
Sbjct: 362 FTKHLDIDEEFAGVLIDEGFSSIEEVAYIPMEEMLAIEGFDEETVTELRKRAKDALLNQA 421

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           +  ++ +     +E+L ++ GID  +   L   GI+TMEDLA  SV DLL          
Sbjct: 422 LANEEALDGAEPAEDLLAMEGIDRGLAFKLAGMGIRTMEDLAEQSVGDLLEIE------- 474

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                     G  +++   +I+ AR    W E +
Sbjct: 475 ----------GMNEERAGQLIMTARAP--WFEDQ 496


>gi|260771815|ref|ZP_05880733.1| transcription termination protein NusA [Vibrio metschnikovii CIP
           69.14]
 gi|260613107|gb|EEX38308.1| transcription termination protein NusA [Vibrio metschnikovii CIP
           69.14]
          Length = 495

 Score =  581 bits (1498), Expect = e-163,   Method: Composition-based stats.
 Identities = 198/511 (38%), Positives = 317/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  + +  +    ++RV I+ +TG+   FR 
Sbjct: 2   SKEILAVVEAVSNEKAVPRERIFEALETALATSTKKKHEMEIEVRVAIDRKTGEFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE VE+ T +IS   A   D ++ +G  + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVENVEHPTKEISFDAANYDDETVQLGDYIEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  GE+++G VK+V   +VIVDLGN ++ VI R++ + REN R GDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGELVTGVVKKVNRDSVIVDLGNNAEAVILREDQLPRENFRSGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            ++ V  E RG Q+ ++R+ P+ + +LF +EVPEI   ++++K  +RDPGSRAK+AV S+
Sbjct: 182 LLFKVAPEARGFQLFITRSKPEMLAELFRVEVPEIGEEMIELKGAARDPGSRAKIAVKSN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +     Q++     + FM+
Sbjct: 302 AHSMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADLQKKHQEESTASIEKFMK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++++  A +LV EGF+ +EE+A V +SE+  I+G +EE   EI+ RA+E L  I +T 
Sbjct: 362 YLDIEQDFAEMLVEEGFSTLEEIAYVPVSELLEIDGLNEEIIEEIRARAKEALTTIALTQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++    L  +++L  + G++  +   L   G+ T+EDLA   +DDL G            
Sbjct: 422 EESFEGLEPADDLLGLAGLERDMAFKLAAKGVATLEDLADQGIDDLEGIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G  +++   +I+ AR  + W  ++
Sbjct: 472 -------GLTEERAGELIMAAR-NICWFGED 494


>gi|119470821|ref|ZP_01613432.1| transcription elongation factor NusA [Alteromonadales bacterium
           TW-7]
 gi|119446048|gb|EAW27327.1| transcription elongation factor NusA [Alteromonadales bacterium
           TW-7]
          Length = 499

 Score =  581 bits (1498), Expect = e-163,   Method: Composition-based stats.
 Identities = 191/515 (37%), Positives = 320/515 (62%), Gaps = 24/515 (4%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
            E+L +A+AV+ EK++ ++ +   +  ++  A +  +    ++RV I+ +TGD   FR  
Sbjct: 3   KEILLVAEAVSNEKAVPKEKIFEALEFALATATKKKHDGEIEVRVSIDRKTGDYDTFRRW 62

Query: 67  EVVE-----EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++ E      +EN   +I+L+ A+  +P + +G  V + +  + F R+  Q AKQVI+QK
Sbjct: 63  QIAEVLEDGSLENPYSEITLEAAQVEEPDLQLGDFVEEQIDSIKFDRITTQMAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGD 180
           VREAER      +KD+VGE+++G VK+    ++++DLGN ++ VI RD+ + REN RPGD
Sbjct: 123 VREAERALVVDAYKDQVGELVTGVVKKATRDSIVLDLGNNAEAVIYRDDMLPRENFRPGD 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R++  +Y+V+ E RG Q+ ++R+ P+ +++LF +EVPEI   +++++A +RDPGSRAK+A
Sbjct: 183 RIRGLLYEVKPEARGAQLFVTRSKPEMLMELFRIEVPEIGEEMIELRAAARDPGSRAKIA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDP+GACVGMRG+RVQAV +EL  E++DIV++  + A FVINA+ PA V  +V
Sbjct: 243 VKSNDKRIDPIGACVGMRGARVQAVSSELGGERVDIVLYDDNPAQFVINAMSPAEVASIV 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDED   +++ V  + L+ AIGR GQNVRLASQLTGW ++++T +E     + + ++   
Sbjct: 303 LDEDTHSMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVDEMRTKNEAESDKLLN 362

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F + +++D+  A LL+ EGF+ +EE+A V  SE   I+G DEET   ++ RA++ L   
Sbjct: 363 LFTENLDIDDEFATLLINEGFSTLEEVAYVPASEFLEIDGLDEETVDVLRSRAKDALTTK 422

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  ++ +     +E+L ++ G++  +   +   G+ T+EDLA   +D+L+  +E     
Sbjct: 423 ALKTEESLEGAEPAEDLLALEGLERHLAFVMASKGVVTLEDLAEQGIDELVDITE----- 477

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                          +Q   +I+ AR  + W   E
Sbjct: 478 ------------LSSEQAGELIMAAR-NICWFADE 499


>gi|163752374|ref|ZP_02159569.1| transcription elongation factor NusA [Shewanella benthica KT99]
 gi|161327746|gb|EDP98933.1| transcription elongation factor NusA [Shewanella benthica KT99]
          Length = 499

 Score =  581 bits (1498), Expect = e-163,   Method: Composition-based stats.
 Identities = 197/516 (38%), Positives = 318/516 (61%), Gaps = 23/516 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK + R+ +   +  ++  A +  +    ++RVEI+ +TG    FR 
Sbjct: 2   NKEILLVAEAVSNEKGVPREKIFEALEIALATATKKKHVGEIEVRVEIDRKTGAYETFRR 61

Query: 66  LEVVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            +VVE+    +EN   +I+L+ A+  DP + +G  V D +  + F R+  Q+AKQVI+QK
Sbjct: 62  WQVVEDTGEPLENPYGEITLEAAQYEDPELQVGDYVEDDMESVTFDRITTQTAKQVIVQK 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGD 180
           VREAER +    FKD+ GE+I+G VK+    +V+VDLG N+D V+ +++ ISREN RPGD
Sbjct: 122 VREAERAQVVELFKDREGELITGIVKKSNRESVVVDLGGNADAVLFKEDLISRENFRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+++ ++ VR E RG Q+ ++RT  + +++LF +EVPEI + ++++   +RDPGSRAK+A
Sbjct: 182 RIRALLFSVRPEARGAQLFMTRTKSEMLIELFRIEVPEIADEMIEIMGAARDPGSRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A FVINA+ PA V  +V
Sbjct: 242 VKSNDRRIDPIGACVGMRGARVQAVSNELNGERVDIVLWDDNPAQFVINAMAPAEVASIV 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V  + L+ AIGR GQNVRLA+QL+GW ++++T E+     Q +  +   
Sbjct: 302 VDEDSHSMDIAVEADSLAQAIGRNGQNVRLAAQLSGWELNVMTVEDLQKKHQAESAKVVS 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F+ ++ VDE  A +L  EGF  +EE+A V  +E+  I+GFDE+T   ++ RA+  +   
Sbjct: 362 LFVASLEVDEDFAQVLADEGFTSLEEVAYVPAAELMEIDGFDEDTVEALRERAKAAISTR 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  ++ +     SE+L ++ G+D  +       G+ T+E+LA   +DDL+   E     
Sbjct: 422 ALATEEALDGAAPSEDLLALEGLDKHLAFVFASKGVITLENLAEQGIDDLIDIEE----- 476

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                         +++   +I+ AR  + W   E+
Sbjct: 477 ------------LTEEKAGELIMAAR-NICWFGDEE 499


>gi|238897563|ref|YP_002923242.1| transcription pausing; L factor [Candidatus Hamiltonella defensa
           5AT (Acyrthosiphon pisum)]
 gi|229465320|gb|ACQ67094.1| transcription pausing; L factor [Candidatus Hamiltonella defensa
           5AT (Acyrthosiphon pisum)]
          Length = 494

 Score =  580 bits (1497), Expect = e-163,   Method: Composition-based stats.
 Identities = 205/511 (40%), Positives = 315/511 (61%), Gaps = 21/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++R++IN +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALESALATATKKKYDQDVEVRIKINRKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
              V+ V + T +I+L+ A+ +D  I +G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLAVDIVTSPTREITLEAAQFQDSQIQLGDYVEDQIESVIFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+   G+I++G VK+    N+ +DLGN ++G+I R++ + REN+R GDR++ 
Sbjct: 122 ERAMLVEQFRQHQGKIVTGVVKKATRENIYLDLGNNTEGIIGREDMLPRENIRTGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +YDVR E RG Q+ +SR+ P+ +++LF +EVPEI   ++++KA +RDP SRAK+AV S+
Sbjct: 182 VLYDVRPEARGAQLFISRSRPEMLIELFRIEVPEIGEELIEIKAAARDPASRAKIAVKSN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV TEL  E+IDI++W  +   FVINA+ PA V  V +DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSTELGGERIDIILWDDNPVQFVINAMAPAEVVSVTIDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLAS+L+GW ++++T EE     Q + +     F+Q
Sbjct: 302 KHTMDIAVEATHLAQAIGRNGQNVRLASRLSGWELNVMTAEELQSKNQAEVDSIVHTFIQ 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +N+D+  A +L+ EG + +EEL CV I E+  IEG DEET   ++ RA++ L  + +  
Sbjct: 362 HLNIDKEFAEVLIEEGLSSLEELVCVPIEELLEIEGLDEETVNALRDRAKKTLTTLALA- 420

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
            +       S++L ++P +DSKI   L  +GI T+EDLA  S+DDL              
Sbjct: 421 -ENFSGNSPSDDLLNLPNMDSKIAFRLSASGISTLEDLAEQSIDDLADIE---------- 469

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   D+   +I+ AR  + W   +
Sbjct: 470 -------GLSNDKAGELIMAAR-GICWFSDD 492


>gi|89095215|ref|ZP_01168138.1| transcription elongation factor NusA [Oceanospirillum sp. MED92]
 gi|89080512|gb|EAR59761.1| transcription elongation factor NusA [Oceanospirillum sp. MED92]
          Length = 495

 Score =  580 bits (1497), Expect = e-163,   Method: Composition-based stats.
 Identities = 210/513 (40%), Positives = 329/513 (64%), Gaps = 22/513 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK + ++V+   +  ++  A +  Y   +DIRV I+  TGD   FR 
Sbjct: 2   NKEILLVAEAVSNEKDVPKEVIFEAIEVALATATKKRYDEEADIRVVIDRATGDYETFRR 61

Query: 66  LEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV  EEV     +++++ A + D ++  G +  + +  + FGR+A Q+AKQVI+QKVR
Sbjct: 62  WLVVSNEEVPALGTELTMEEAEEIDTALQPGDIHEEQVESVAFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +   +++D+ GE+ISG+VK+V   N+IVDLGN ++ ++ RD+ I RE  R GDRV
Sbjct: 122 EAERAKVVEQYRDRQGELISGSVKKVTRDNIIVDLGNNAEALLPRDQLIQREAFRMGDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + +VR E RGPQ+++SR+  + +++LF +EVPEI   +++++A SRDPGSRAK+AV 
Sbjct: 182 RAVLKEVRSEGRGPQLIMSRSCNEMLIELFRIEVPEISEEVIEIRAASRDPGSRAKIAVK 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           ++D  IDPVGACVGMRG+RVQAV  EL  E++DIV+W  + A  VINA+ PA V  +VLD
Sbjct: 242 TNDGRIDPVGACVGMRGARVQAVSNELGGERVDIVLWDDNPAQLVINAMAPAEVASIVLD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+   ++V V +E L++AIGR GQNVRLAS+LTGW ++++TEE+     Q +       F
Sbjct: 302 EETHSMDVAVAEENLAMAIGRSGQNVRLASELTGWELNVMTEEDAQAKHQSEVGSVIDNF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           +  ++VDE +A +LV EGF  +EE+A V + E+  I+GFDE+   E++ RA++ L  + I
Sbjct: 362 INHLDVDEDVAEVLVEEGFTTLEEVAYVPVDEMLEIDGFDEDIVEELRKRAKDALLNLAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ +   +E+L ++ G+D  +   +   GI TMEDLA  S+DDLL           
Sbjct: 422 ASEEKLDKAEPAEDLLTMEGMDKHLAFLMAAQGIITMEDLAEQSIDDLLDIE-------- 473

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                    G  +++  ++I+ AR    W  +E
Sbjct: 474 ---------GLDEEKAAALIMTARAP--WFAEE 495


>gi|300691722|ref|YP_003752717.1| transcription termination/antitermination L factor [Ralstonia
           solanacearum PSI07]
 gi|299078782|emb|CBJ51442.1| transcription termination/antitermination L factor [Ralstonia
           solanacearum PSI07]
          Length = 491

 Score =  580 bits (1497), Expect = e-163,   Method: Composition-based stats.
 Identities = 200/509 (39%), Positives = 329/509 (64%), Gaps = 24/509 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV   +  ++  A +  +    ++RV I+ E+G+   FR   
Sbjct: 4   EVLLLVDALAREKNVDKDVVFGALEAALASATKKRFEEDVEVRVAIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    QI L  AR+++P + I   + + +  ++FGR+  Q+AKQVI+Q++R+
Sbjct: 64  VVPDDAGLQEPDKQILLFEAREQNPDVSIDEFIEEQIESVEFGRIGAQAAKQVILQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ D+  +I++GT+KR +   +IV+ G  + ++ RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLDRGEKIMTGTIKRADKKGLIVESGRVEALLARDQMIPKENLRTGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +V R  RGPQ+ LSRT P+F++KLF  EVPE+  G++++KA +RDPG RAK+AV + 
Sbjct: 184 YILNVDRTARGPQIELSRTCPEFLIKLFENEVPEMEQGLLEIKAAARDPGVRAKIAVVAH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RG+RV AV  E+  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGVRGTRVTAVRNEVGGEAVDIVLWSEDPAQFVIGALAPAQVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+T  E +  ++++ +   + FM+
Sbjct: 304 KHSMDVVVDEENLAVAIGRSGQNVRLASELTGWQINIMTPTESAQKQEEESSAVRKLFME 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RAR+ L  +++  
Sbjct: 364 KLDVDEEVADILIEEGFTSLEEVAYVPLQEMLEIEAFDEDTVNELRNRARDVLLTMELAK 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    VS++L  + G+  ++   L E  I+T +DLA  +VD+L+  +          
Sbjct: 424 EEKVE--KVSQDLRDLEGLTPELIGKLAEGNIQTRDDLAELAVDELVDMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                  G  ++Q +++I+ AR    W  
Sbjct: 472 -------GVDEEQAKALIMKAREH--WFS 491


>gi|126175440|ref|YP_001051589.1| transcription elongation factor NusA [Shewanella baltica OS155]
 gi|125998645|gb|ABN62720.1| NusA antitermination factor [Shewanella baltica OS155]
          Length = 499

 Score =  580 bits (1496), Expect = e-163,   Method: Composition-based stats.
 Identities = 203/515 (39%), Positives = 322/515 (62%), Gaps = 23/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+ +TG    FR 
Sbjct: 2   NKEILLVAEAVSNEKAVPREKIFEALEIALATATKKKYEGDIDVRVAIDRKTGGYDTFRR 61

Query: 66  LEVVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             VV++    +EN   +I+L+ AR  +P I  G  + D +  + F R+  Q+AKQVI+QK
Sbjct: 62  WMVVDDHGEALENPYREITLEAARYENPDIQPGEFIEDDIESVVFDRITTQTAKQVIVQK 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGD 180
           VREAER +   +F+D+ GE+I+G VK+    +V+VDLGN +DGV+ R++ ISRE+ RPGD
Sbjct: 122 VREAERAQVVEQFQDQEGELITGIVKKATRESVVVDLGNNADGVLFREDLISRESFRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV++ +Y VR E RG Q+ LSRT P+ +++LF +EVPEI + ++++   +RDPG+RAK+A
Sbjct: 182 RVRALLYSVRPEARGAQLFLSRTKPEMLIELFRVEVPEIADELIEIMGAARDPGARAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A +VINA+ PA V  ++
Sbjct: 242 VKSNDRRIDPIGACVGMRGARVQAVSNELGGERVDIVLWDDNPAQYVINAMAPADVASII 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V  + L+ AIGR GQNVRLA+QLTGW ++++T E+ +   Q +  +  +
Sbjct: 302 VDEDNHSMDIAVEADSLAQAIGRNGQNVRLATQLTGWVLNVMTVEDMNKKHQAESAKVVE 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F+ +++VDE  A +L  EGF  +EE+A V +SE+ +I+GFDE+    ++ RA+  +   
Sbjct: 362 LFVNSLDVDEDFAQVLADEGFTSLEEVAYVPVSELLAIDGFDEDLVEALRERAKAAISTR 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  ++ +  +  SEEL ++ G+D  +       GI+T+EDLA   +DDL+   E     
Sbjct: 422 ALATEEALDGVEPSEELLALEGVDRHLAYVFASKGIETLEDLAEQGIDDLIEIEELTEEK 481

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                               +I+ AR  + W  +E
Sbjct: 482 -----------------AGELIMAAR-NICWFGEE 498


>gi|254490591|ref|ZP_05103777.1| NusA N-terminal domain family [Methylophaga thiooxidans DMS010]
 gi|224464335|gb|EEF80598.1| NusA N-terminal domain family [Methylophaga thiooxydans DMS010]
          Length = 505

 Score =  580 bits (1496), Expect = e-163,   Method: Composition-based stats.
 Identities = 208/518 (40%), Positives = 323/518 (62%), Gaps = 25/518 (4%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  E+L + DA++ EK + ++V+   +  ++  A R  Y    D  V+I+  TGD   FR
Sbjct: 2   NNKEILLVVDAMSNEKGVSKEVIFQAIEAALAMATRKRYEMALDAHVQIDRVTGDYETFR 61

Query: 65  LLEVVEE-----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
              +VE+     +E+   QI+L  A  +    ++GG + +P+  ++FGR+A Q+AKQVI+
Sbjct: 62  QWLIVEDDDEEALESEETQITLSEALKKQDDAEVGGYIREPMESVEFGRIAAQTAKQVIV 121

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           QKVREAER +    +++KVG++I GTVKRV+ GNV +DLG N++  + R+E I RE+ R 
Sbjct: 122 QKVREAERAQVVDMYREKVGQMIHGTVKRVDRGNVTLDLGGNAEAFLPREEMIPRESFRT 181

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDR++ Y+ ++R E RGPQ+++SR  P+ +++LF +EVPEI +G++ +K  +RDPG RAK
Sbjct: 182 GDRIRGYLKEIRPEGRGPQLIVSRIAPELLIELFTLEVPEISDGMIDIKGAARDPGLRAK 241

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV + +S IDPVGACVGMRGSRVQAV  EL  E++DI++W  D A F INA+ PA V  
Sbjct: 242 IAVLAKESRIDPVGACVGMRGSRVQAVTNELGGERVDIILWDEDVARFAINAMAPAEVLS 301

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   +++ V   QLS AIGR GQNVRLASQLTGW +++++  +     + +  E 
Sbjct: 302 IVVDEDAHSMDIAVEDGQLSQAIGRSGQNVRLASQLTGWELNVMSSSDADKKAETEIGEL 361

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            Q FM+ ++VDE +A +L  EGF+ +EE+A V   E+  IE FD++   E++ RAR+ L 
Sbjct: 362 IQDFMKDLDVDEDVALILAQEGFSSLEEVAYVPEQEMLDIEEFDDDIVAELRSRARDVLL 421

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
              I  ++++     S+EL  + GI   + + L  N + T++DLA  +VD+L+       
Sbjct: 422 TRAIASEEQLESAEPSQELLDMEGITKDLALTLASNSVTTLDDLADLAVDELVEIG---- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                        G  ++Q  ++I+ AR    W   E+
Sbjct: 478 -------------GMKEEQAAALIMKARES--WFANEQ 500


>gi|241764251|ref|ZP_04762282.1| NusA antitermination factor [Acidovorax delafieldii 2AN]
 gi|241366374|gb|EER60896.1| NusA antitermination factor [Acidovorax delafieldii 2AN]
          Length = 494

 Score =  580 bits (1496), Expect = e-163,   Method: Composition-based stats.
 Identities = 202/514 (39%), Positives = 328/514 (63%), Gaps = 24/514 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL + +A++ EK+++RDVVL  +  ++ +A + LY    DIRV ++ ++G+   FR 
Sbjct: 2   NRELLMLVEAISREKNVERDVVLGAVESALAQATKKLYQGEVDIRVSVDRDSGNYETFRR 61

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             VV +   ++N   +  L  AR+R P +++G  + + +  +  GR+   +AKQVI+QK+
Sbjct: 62  WLVVPDDAGLQNPDAEELLMDARERVPDVEVGEYIEEAIESVPIGRIGAMAAKQVILQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           R+AER+    +F  +  +I +GTVKR++ G++IV+ G  +G +RR E I +ENLR GDRV
Sbjct: 122 RDAEREMLLNDFMSRGEKIFTGTVKRMDKGDIIVESGRVEGRLRRGEMIPKENLRSGDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ I +V    RG  ++LSR+ P+FM++LF  EVPEI  G++++K+ +RDPGSRAK+AV 
Sbjct: 182 RAMIMEVDLTLRGAPIILSRSAPEFMIELFRNEVPEIEQGLLEIKSCARDPGSRAKIAVL 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  +DP+G CVG+RG+RV AV  EL  E++DIV+WS D A FVI AL PA V+ +V+D
Sbjct: 242 SHDKRVDPIGTCVGVRGTRVNAVTNELAGERVDIVLWSEDPAQFVIGALAPANVSSIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+   ++V+V +E L++AIGR GQNVRLAS LTGW I+I+   E +  +  + +   + F
Sbjct: 302 EEKHAMDVVVDEENLAIAIGRGGQNVRLASDLTGWKINIMDAAESAQKQANETDTARKLF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+ ++VDE IA +L++EGFA +EE+A V + E+  IE FDE+T  E++ RA++ L  ++I
Sbjct: 362 MEKLDVDEEIADILISEGFASLEEVAYVPLQEMLEIESFDEDTVNELRARAKDALLTMEI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++ + E  VS++L  + G+  ++   L ENG+ T +DLA  ++D+L   +        
Sbjct: 422 AREESVGE--VSQDLRDLEGLTPELIAKLAENGVHTRDDLADLAIDELTDLT-------- 471

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                    G   +  +++I+ AR    W   ++
Sbjct: 472 ---------GQSAEDAKALIMKAREH--WFAGQE 494


>gi|299067340|emb|CBJ38537.1| transcription termination/antitermination L factor [Ralstonia
           solanacearum CMR15]
          Length = 491

 Score =  580 bits (1496), Expect = e-163,   Method: Composition-based stats.
 Identities = 199/509 (39%), Positives = 329/509 (64%), Gaps = 24/509 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV   +  ++  A +  +    ++RV I+ E+G+   FR   
Sbjct: 4   EVLLLVDALAREKNVDKDVVFGALEAALASATKKRFEEDVEVRVAIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    QI L  AR+++PS+++   + + +  ++FGR+  Q+AKQVI+Q++R+
Sbjct: 64  VVPDDAGLQEPDKQILLFEAREQNPSVNLDEFIEEQIESVEFGRIGAQAAKQVILQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ D+  +I++GT+KR +   +IV+ G  + ++ RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLDRGEKIMTGTIKRADKKGLIVESGRVEALLARDQMIPKENLRTGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +V R  RGPQ+ LSRT P+F++KLF  EVPE+  G++++KA +RDPG RAK+AV + 
Sbjct: 184 YILNVDRTARGPQIELSRTCPEFLIKLFENEVPEMEQGLLEIKAAARDPGVRAKIAVVAH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RG+RV AV  E+  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGVRGTRVTAVRNEVGGEAVDIVLWSEDPAQFVIGALAPAQVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLAS+LT W I+I+T  E +  + ++ +   + FM+
Sbjct: 304 KHSMDVVVDEENLAVAIGRSGQNVRLASELTNWQINIMTPAESAQKQAEESSTVRKLFME 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RAR+ L  +++  
Sbjct: 364 KLDVDEEVADILIEEGFTSLEEVAYVPLQEMLEIEAFDEDTVNELRNRARDVLLTMELAK 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    VS++L  + G+  ++   L E  I+T +DLA  +VD+L+  +          
Sbjct: 424 EEKVE--KVSQDLRDLEGLTPELIGKLAEGNIQTRDDLAELAVDELVDMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                  G  ++Q +++I+ AR    W  
Sbjct: 472 -------GVDEEQAKALIMKAREH--WFS 491


>gi|319762633|ref|YP_004126570.1| transcription termination factor nusa [Alicycliphilus denitrificans
           BC]
 gi|330824723|ref|YP_004388026.1| NusA antitermination factor [Alicycliphilus denitrificans K601]
 gi|317117194|gb|ADU99682.1| transcription termination factor NusA [Alicycliphilus denitrificans
           BC]
 gi|329310095|gb|AEB84510.1| NusA antitermination factor [Alicycliphilus denitrificans K601]
          Length = 494

 Score =  580 bits (1495), Expect = e-163,   Method: Composition-based stats.
 Identities = 201/514 (39%), Positives = 326/514 (63%), Gaps = 24/514 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL + +A++ EK+++RDVVL  +  ++ +A + LY    D+RV I+ ++GD   FR 
Sbjct: 2   NRELLMLVEAISREKNVERDVVLGAVESALAQATKKLYQGDVDLRVSIDRDSGDYETFRR 61

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             VV +   ++N   +  L  AR+R P I++G  + +P+  +  GR+   +AKQVI+QK+
Sbjct: 62  WLVVPDDAGLQNPDAEELLMDARERVPDIEVGEYIEEPVESVPIGRIGAMAAKQVILQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           R+AER+    +F  +  +I +GTVKR++ G++I++ G  +G +RR E I +ENLR GDRV
Sbjct: 122 RDAEREMLLNDFMSRGEKIFTGTVKRMDKGDLIIESGRVEGRLRRSEMIPKENLRNGDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ I +V    RG  ++LSR+ P+FM++LF  EVPEI  G++++K+ +RDPGSRAK+AV 
Sbjct: 182 RAMIMEVDLTLRGAPIILSRSAPEFMIELFRNEVPEIEQGLLEIKSCARDPGSRAKIAVL 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  +DP+G CVG+RG+RV AV  EL  E++DIV+WS D A FVI AL PA V  +V+D
Sbjct: 242 SHDKRVDPIGTCVGVRGTRVNAVTNELAGERVDIVLWSDDPAQFVIGALAPANVQSIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+   ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+   E +  +  + +   + F
Sbjct: 302 EEKHAMDVVVDEENLAIAIGRGGQNVRLASELTGWKINIMDAAESAQKQADETDAARRLF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+ ++VDE IA +L+AEGF  +EE+A V + E+  IE FDE+T  E++ RA++ L  ++I
Sbjct: 362 MEKLDVDEEIADILIAEGFESLEEVAYVPLQEMLEIESFDEDTVNELRVRAKDALLTMEI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++ +    VS++L  + G+  ++   L + G+ T +DLA  ++D+L   +        
Sbjct: 422 AREESMG--SVSQDLRDLEGLTPELIAKLADAGVNTRDDLADLAIDELTELT-------- 471

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                    G   +  +++I+ AR    W   ++
Sbjct: 472 ---------GQSAEDAKALIMKAREH--WFTGQE 494


>gi|261867879|ref|YP_003255801.1| transcription elongation factor NusA [Aggregatibacter
           actinomycetemcomitans D11S-1]
 gi|261413211|gb|ACX82582.1| transcription elongation factor NusA [Aggregatibacter
           actinomycetemcomitans D11S-1]
          Length = 498

 Score =  580 bits (1495), Expect = e-163,   Method: Composition-based stats.
 Identities = 198/515 (38%), Positives = 315/515 (61%), Gaps = 24/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + R+ +   +  +I  + +  Y    D+RV INP+TG+   FR 
Sbjct: 2   SKEILLAAEAVSNEKLLPREKIFEALESAIALSTKKKYEYDVDVRVAINPKTGEFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV N T +I+L+ AR  DP   +G  V D +  + F R+ +Q+A+QVI  K+REA
Sbjct: 62  WVVVEEVNNPTKEITLEAARFEDPDAQVGDYVEDQIESIAFDRITMQTARQVISTKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-----NSDGVIRRDETISRENLRPGD 180
           ER +   +F+ K G+II+ TVK+    +VI+D+       ++ V+ R++ + REN RPGD
Sbjct: 122 ERSKIVDQFRSKEGQIITATVKKSNRDSVILDVNGEDGNKAEAVMLREDMLPRENFRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV+  +Y V  E +G Q+ ++R  P+ +++LF +EVPEI   ++++++ +RDPGSRAK+A
Sbjct: 182 RVRGVLYKVSPESKGTQLFVTRAKPEMLIELFRLEVPEIGEELIEIRSAARDPGSRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +V
Sbjct: 242 VKSNDKRIDPVGACVGMRGARVQAITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIV 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V +  L+ AIGR GQNVRLA+QLTGW ++++T +E +   Q + ++   
Sbjct: 302 VDEDKHAMDIAVEEVNLAQAIGRNGQNVRLATQLTGWVLNVMTTQELNAKHQAEDDKVLN 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLEG 419
            F+  + +DE  A LL+ EGF+ +EELA V +SE+ +I+G  DE+   E+Q RA+  +  
Sbjct: 362 LFIDTLEIDEEFAQLLIDEGFSTLEELAYVSVSELTAIDGLEDEDLVEELQTRAKNAITA 421

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
             +  ++ +++  + + L ++ G++  I   L E  I T+E+LA   VDDL    E    
Sbjct: 422 QVLAEEEALKQAKIEDRLLNLEGMNRHIAFKLSEKQITTLEELAEQGVDDLADIEE---- 477

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                           +Q   +I+ AR  + W  +
Sbjct: 478 -------------LGAEQAADLIMAAR-NICWFTE 498


>gi|77359942|ref|YP_339517.1| transcription elongation factor NusA [Pseudoalteromonas
           haloplanktis TAC125]
 gi|76874853|emb|CAI86074.1| transcription elongation protein (N utilization substance protein
           A) (L factor) [Pseudoalteromonas haloplanktis TAC125]
          Length = 499

 Score =  579 bits (1494), Expect = e-163,   Method: Composition-based stats.
 Identities = 191/515 (37%), Positives = 320/515 (62%), Gaps = 24/515 (4%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
            E+L +A+AV+ EK++ ++ +   +  ++  A +  +G   D+RV I+ +TGD   +R  
Sbjct: 3   KEILLVAEAVSNEKAVPKEKIFEALEFALATATKKKHGGDIDVRVAIDRKTGDYDTYRRW 62

Query: 67  E---VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +   V+E+  +EN   +I+L+ A+  +P + +G  V + +  + F R+  Q AKQVI+QK
Sbjct: 63  QIAAVLEDGSLENPYSEITLEAAQVEEPDLQMGDFVEEQIDSIKFDRITTQMAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGD 180
           VREAER     E+K K GE+++G VK+     +++DLGN ++ VI RD+ + REN RPGD
Sbjct: 123 VREAERALVVEEYKSKEGELVTGVVKKATRDAIVLDLGNNAEAVIYRDDMLPRENFRPGD 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R++  +Y+V+ E RG Q+ ++R+ P+ +++LF +EVPEI   +++++A +RDPGSRAK+A
Sbjct: 183 RIRGLLYEVKPEARGAQLFVTRSKPEMLMELFRIEVPEIGEEMIELRAAARDPGSRAKIA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDP+GACVGMRG+RVQAV +EL  E++DIV++  + A FVINA+ PA V  +V
Sbjct: 243 VKSNDKRIDPIGACVGMRGARVQAVSSELGGERVDIVLYDDNPAQFVINAMAPAEVASIV 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V  + L+ AIGR GQNVRLASQLTGW ++++T E+     + + ++   
Sbjct: 303 MDEDTHSMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVEDMRSKNEAESDKLLN 362

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F + + +D+  A LL+ EGF+ +EE+A V  SE   I+G DEET   ++ RA++ L   
Sbjct: 363 LFTENLEIDDEFASLLINEGFSSLEEVAYVPASEFLEIDGLDEETVDLLRSRAKDALTTK 422

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  ++ +     +E+L ++ G++  +   +   G+ T+EDLA   +D+L+  +E     
Sbjct: 423 ALKTEESLDGAEPAEDLLALEGLERHLAFVMASKGVITLEDLAEQGIDELVDITE----- 477

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                          ++   +I+ AR  + W   E
Sbjct: 478 ------------LSPEKAGELIMAAR-NICWFADE 499


>gi|83748667|ref|ZP_00945684.1| N utilization substance protein A [Ralstonia solanacearum UW551]
 gi|207743364|ref|YP_002259756.1| n utilization substance protein [Ralstonia solanacearum IPO1609]
 gi|83724629|gb|EAP71790.1| N utilization substance protein A [Ralstonia solanacearum UW551]
 gi|206594761|emb|CAQ61688.1| n utilization substance protein [Ralstonia solanacearum IPO1609]
          Length = 491

 Score =  579 bits (1493), Expect = e-163,   Method: Composition-based stats.
 Identities = 198/509 (38%), Positives = 328/509 (64%), Gaps = 24/509 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV   +  ++  A +  +    ++RV I+ E+G+   FR   
Sbjct: 4   EVLLLVDALAREKNVDKDVVFGALEAALASATKKRFEEDVEVRVAIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    QI L  AR+++P + I   + + +  ++FGR+  Q+AKQVI+Q++R+
Sbjct: 64  VVPDDAGLQEPDKQILLFEAREQNPDVSIDEFIEEQIESVEFGRIGAQAAKQVILQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GT+KR +   +IV+ G  + ++ RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTIKRADKKGLIVESGRVEALLARDQMIPKENLRTGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +V R  RGPQ+ LSRT P+F++KLF  EVPE+  G++++KA +RDPG RAK+AV + 
Sbjct: 184 YILNVDRTARGPQIELSRTCPEFLIKLFENEVPEMEQGLLEIKAAARDPGVRAKIAVVAH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RG+RV AV  E+  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGVRGTRVTAVRNEVGGEAVDIVLWSEDPAQFVIGALAPAQVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+T  E +  + ++ +   + FM+
Sbjct: 304 KHSMDVVVDEENLAVAIGRSGQNVRLASELTGWQINIMTPTESAQKQAEESSVVRKLFME 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VD+ +A +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RAR+ L  +++  
Sbjct: 364 RLDVDQEVADILIEEGFTSLEEVAYVPLQEMLEIEAFDEDTVNELRNRARDVLLTMELAK 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    VS++L  + G+  ++   L E  I+T +DLA  +VD+L+  +          
Sbjct: 424 EEKVE--KVSQDLRDLEGLTPELIGKLAEGNIQTRDDLAELAVDELVDMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                  G  ++Q +++I+ AR    W  
Sbjct: 472 -------GVDEEQAKALIMKAREH--WFS 491


>gi|113460963|ref|YP_719030.1| transcription elongation factor NusA [Haemophilus somnus 129PT]
 gi|112823006|gb|ABI25095.1| transcription elongation protein, N utilization substance protein A
           [Haemophilus somnus 129PT]
          Length = 493

 Score =  579 bits (1493), Expect = e-163,   Method: Composition-based stats.
 Identities = 207/510 (40%), Positives = 318/510 (62%), Gaps = 20/510 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + R+ +   +  +I  + +  Y    D+RV IN +TG+ S FR 
Sbjct: 2   SKEILLAAEAVSNEKLLPREKIFEALESAIALSTKKKYEQEIDVRVVINTKTGEFSTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE V N T +I+L+ A+  DP I +G  + D +  + F R+A+Q+A+QVI  K+REA
Sbjct: 62  WLVVETVLNPTKEITLEAAQFEDPEIKLGDYIEDEIDSIAFDRIAMQTARQVISTKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER++   +F+ + GEI+SGTVK+V   ++I+DL   ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERNKIVEQFRSQEGEIVSGTVKKVNRDSIILDLSQQAEAVILREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E +G Q+ ++R  P+ +V+LF +EVPEI   ++++K  SRDPG RAK+AV S+
Sbjct: 182 VLYKVSPENKGIQLFVTRAKPEMLVELFRIEVPEIGEELIEIKGASRDPGLRAKIAVKSN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRGSRVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +V+DED
Sbjct: 242 DKRIDPVGACVGMRGSRVQAITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  E L+ AIGR GQNVRLA+QLTGW ++++T ++ +   Q + N+    FM 
Sbjct: 302 NHSMDIAVEPENLAQAIGRNGQNVRLATQLTGWVLNVMTIDDLNAKHQAEDNKILALFMT 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLEGIDIT 423
           A+ +DE  AH+LV EGF ++EE+A V ++E+ +I+G  DE+   E+Q RA+  +    + 
Sbjct: 362 ALEIDEEFAHILVDEGFTNLEEIAYVAVNELTAIDGLEDEDLVEELQARAKNAITARMLA 421

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            ++ +++  V E+L ++ G+   I   L E  I T+E+LA   VDDL    E        
Sbjct: 422 EEEALKQAHVEEKLLNLEGMSRHIAFRLSEKQITTLEELAEQGVDDLSDIEE-------- 473

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                       +Q   +I+ AR  + W  
Sbjct: 474 ---------LSAEQAADLIMAAR-NICWFN 493


>gi|113868282|ref|YP_726771.1| transcription elongation factor NusA [Ralstonia eutropha H16]
 gi|113527058|emb|CAJ93403.1| transcription pausing factor L [Ralstonia eutropha H16]
          Length = 491

 Score =  579 bits (1493), Expect = e-163,   Method: Composition-based stats.
 Identities = 209/509 (41%), Positives = 334/509 (65%), Gaps = 24/509 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV   +  ++  A +  +    DIRV I+ E+G+   FR   
Sbjct: 4   EVLLLVDALAREKNVDKDVVFGALEAALASATKKRFEEDVDIRVAIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    QI L  ARD +PSI++G  +   +  ++FGR+  Q+AKQVI+Q++R+
Sbjct: 64  VVPDELGLQEPDKQILLFEARDENPSIELGDFIEQQIESVEFGRIGAQAAKQVILQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ D+  +I++GTVKR +   +IV+ G  + ++ RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLDRGEKIMTGTVKRADKKGLIVESGRVEALLARDQIIPKENLRTGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +V R  RGPQ+ LSRT P+F++KLF  EVPE+  G++++KA +RDPG RAK+AV + 
Sbjct: 184 YILNVDRAARGPQIELSRTAPEFLIKLFENEVPEMEQGLLEIKAAARDPGVRAKIAVVAH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RG+RV AV  E+  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGVRGTRVTAVRNEIGGEAVDIVLWSEDPAQFVIGALAPAQVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L+++IGR GQNVRLA++LTGW I+I+T+EE +  + ++ +   + FM 
Sbjct: 304 KHSMDVVVDEENLAVSIGRSGQNVRLATELTGWQINIMTQEESAQKQAEESDVVRKLFMS 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF+ +EE+A V ISE+  IE FDE+T  E++ RAR+ L  +++  
Sbjct: 364 KLDVDEEVADILIEEGFSTLEEVAYVPISEMMEIEAFDEDTVNELRNRARDALLTMELAR 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+ E  VS++L S+ G++ ++   L E  I T +DLA  +VD+L+  +          
Sbjct: 424 EEKVEE--VSQDLRSLDGLNPELIGKLAEGDIHTRDDLAELAVDELVEMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                  G  +++ +S+I+ AR    W  
Sbjct: 472 -------GVSEEEAKSLIMKAREH--WFN 491


>gi|187928209|ref|YP_001898696.1| transcription elongation factor NusA [Ralstonia pickettii 12J]
 gi|187725099|gb|ACD26264.1| NusA antitermination factor [Ralstonia pickettii 12J]
          Length = 491

 Score =  579 bits (1493), Expect = e-163,   Method: Composition-based stats.
 Identities = 200/509 (39%), Positives = 328/509 (64%), Gaps = 24/509 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV   +  ++  A +  +    D+RV I+ E+G+   FR   
Sbjct: 4   EVLLLVDALAREKNVDKDVVFGALEAALASATKKRFEEDVDVRVAIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    QI L  A+++D  I++   V + +  ++FGR+  Q+AKQVI+Q++R+
Sbjct: 64  VVPDDAGLQEPDKQILLFEAKEQDADIEVDDFVEEQIESVEFGRIGAQAAKQVILQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ D+  ++++GT+KR +   +IV+ G  + ++ RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLDRGEKVMTGTIKRADKKGLIVETGRVEALLARDQMIPKENLRTGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +V R  RGPQ+ LSRT P+F++KLF  EVPE+  G++++KA +RDPG RAK+AV + 
Sbjct: 184 YILNVDRTARGPQIELSRTCPEFLIKLFENEVPEMEQGLLEIKAAARDPGVRAKIAVVAH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RG+RV AV  E+  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGVRGTRVTAVRNEVGGEAVDIVLWSEDPAQFVIGALAPAQVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+T  E +  + ++ +   Q FM 
Sbjct: 304 KHSMDVVVDEENLAVAIGRSGQNVRLASELTGWQINIMTPAESAQKQAEESSVVRQLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF+ +EE+A V + E+  IE FDE+T  E++ RAR+ L  +++  
Sbjct: 364 KLDVDEEVADILIEEGFSSLEEVAYVPLQEMLEIEAFDEDTVNELRNRARDVLLTMELAK 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++++    VS++L  + G+  ++   L E  I+T +DLA  +VD+L+  +          
Sbjct: 424 EERVE--KVSQDLRDLEGLTPELIGKLAEGNIQTRDDLAELAVDELVEMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                  G  ++Q +++I+ AR    W  
Sbjct: 472 -------GVDEEQAKALIMKAREH--WFS 491


>gi|207723239|ref|YP_002253638.1| n utilization substance protein [Ralstonia solanacearum MolK2]
 gi|206588435|emb|CAQ35398.1| n utilization substance protein [Ralstonia solanacearum MolK2]
          Length = 491

 Score =  578 bits (1492), Expect = e-163,   Method: Composition-based stats.
 Identities = 198/509 (38%), Positives = 328/509 (64%), Gaps = 24/509 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV   +  ++  A +  +    ++RV I+ E+G+   FR   
Sbjct: 4   EVLLLVDALAREKNVDKDVVFGALEAALASATKKRFEEDVEVRVAIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    QI L  AR+++P + I   + + +  ++FGR+  Q+AKQVI+Q++R+
Sbjct: 64  VVPDDAGLQEPDKQILLFEAREQNPDVSIDEFIEEQIESVEFGRIGAQAAKQVILQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GT+KR +   +IV+ G  + ++ RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTIKRADKKGLIVESGRVEALLARDQMIPKENLRTGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +V R  RGPQ+ LSRT P+F++KLF  EVPE+  G++++KA +RDPG RAK+AV + 
Sbjct: 184 YILNVDRTARGPQIELSRTCPEFLIKLFENEVPEMEQGLLEIKAAARDPGVRAKIAVVAH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RG+RV AV  E+  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGVRGTRVTAVRNEVGGEAVDIVLWSEDPAQFVIGALAPAQVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+T  E +  + ++ +   + FM+
Sbjct: 304 KHSMDVVVDEENLAVAIGRSGQNVRLASELTGWQINIMTPAESAQKQAEESSVVRKLFME 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VD+ +A +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RAR+ L  +++  
Sbjct: 364 RLDVDQEVADILIEEGFTSLEEVAYVPLQEMLEIEAFDEDTVNELRNRARDVLLTMELAK 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    VS++L  + G+  ++   L E  I+T +DLA  +VD+L+  +          
Sbjct: 424 EEKVE--KVSQDLRDLEGLTPELIGKLAEGNIQTRDDLAELAVDELVDMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                  G  ++Q +++I+ AR    W  
Sbjct: 472 -------GVDEEQAKALIMKAREH--WFS 491


>gi|73541717|ref|YP_296237.1| transcription elongation factor NusA [Ralstonia eutropha JMP134]
 gi|72119130|gb|AAZ61393.1| Transcription termination factor NusA:Transcription termination
           factor NusA, C-terminal duplication [Ralstonia eutropha
           JMP134]
          Length = 491

 Score =  578 bits (1492), Expect = e-163,   Method: Composition-based stats.
 Identities = 209/509 (41%), Positives = 333/509 (65%), Gaps = 24/509 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV   +  ++  A +  +    DIRV I+ E+G+   FR   
Sbjct: 4   EVLLLVDALAREKNVDKDVVFGALEAALASATKKRFEEDVDIRVAIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    QI L  ARD D S+++G  V   +  ++FGR+  Q+AKQVI+Q++R+
Sbjct: 64  VVPDEQGLQEPDKQILLFEARDDDASLELGDYVEQQIESVEFGRIGAQAAKQVILQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR +   +IV+ G  + ++ RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRADKKGLIVESGRVEALLARDQIIPKENLRTGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +V R  RGPQ+ LSRT P+F++KLF  EVPE+  G++++KA +RDPG RAK+AV + 
Sbjct: 184 YILNVDRAARGPQIELSRTAPEFLIKLFENEVPEMEQGLLEIKAAARDPGVRAKIAVVAH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RG+RV AV  E+  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGVRGTRVTAVRNEIGGEAVDIVLWSEDPAQFVIGALAPAQVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+T+EE +  + ++ +   + FM 
Sbjct: 304 KHCMDVVVDEENLAVAIGRSGQNVRLASELTGWQINIMTQEESAQKQAEESDAVRKLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF+ +EE+A V ISE+  IE FDE+T  E++ RAR+ L  +++  
Sbjct: 364 KLDVDEEVADILIEEGFSTLEEVAYVPISEMMEIEAFDEDTVNELRNRARDALLTMELAR 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+ E  VS++L S+ G++ ++   L E  I T +DLA  +VD+L+  +          
Sbjct: 424 EEKVEE--VSQDLRSLDGLNPELIGKLAEGDIHTRDDLAELAVDELVEMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                  G  +++ +++I+ AR    W  
Sbjct: 472 -------GVTEEEAKALIMKAREH--WFN 491


>gi|91788290|ref|YP_549242.1| NusA antitermination factor [Polaromonas sp. JS666]
 gi|91697515|gb|ABE44344.1| NusA antitermination factor [Polaromonas sp. JS666]
          Length = 506

 Score =  578 bits (1492), Expect = e-163,   Method: Composition-based stats.
 Identities = 201/523 (38%), Positives = 323/523 (61%), Gaps = 24/523 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL + DA++ EK+++RDVV   +  ++  A + +Y    DIRV ++ ++G+   FR 
Sbjct: 2   NRELLMLVDAISREKNVERDVVFGAVELALASATKKVYEDGVDIRVVVDRDSGNYETFRR 61

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             VV +   ++N   +  +  AR+  P I+ G  +  P+  +  GR+  Q+AKQVI+QK+
Sbjct: 62  WLVVPDEAGLQNPEAEELVSDAREEIPDIEEGDYIEKPVESLPIGRIGAQAAKQVILQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           R+AER+    +F  +  +I  GTVKR++ G++IV+ G  +G +RR + I +ENLR GDRV
Sbjct: 122 RDAEREMLLNDFMSRGDKIFVGTVKRMDKGDIIVESGRVEGRLRRSDMIPKENLRAGDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ I +V    RG  ++LSRT P++M++LF  EVPEI  G++++K+ +RDPGSRAK+AV 
Sbjct: 182 RAMIMEVDTTLRGAPIILSRTAPEYMIELFRQEVPEIEQGLLEIKSCARDPGSRAKIAVL 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  +DP+G CVG+RG+RV  V  EL  E++DIV+WS D A FVI AL PA V+ +V+D
Sbjct: 242 SHDKRVDPIGTCVGVRGTRVNGVTNELAGERVDIVLWSEDPAQFVIGALAPANVSSIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+   ++V+V +E L+++IGR GQNVRLA++LTGW I+I+T +E +  +  + +   + F
Sbjct: 302 EERHAMDVVVDEENLAISIGRGGQNVRLAAELTGWKINIMTADESAQKQATETDTSRKLF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+ ++VDE IA +L++EGF  +EE+A V + E+  IE FDE+T  E++ RA++ L  ++I
Sbjct: 362 MEKLDVDEEIADILISEGFTSLEEVAYVPLQEMLEIESFDEDTVNELRTRAKDALLTMEI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++     GVS+ L  + GI  ++   L E G+ T +DLA  +VD+L   +        
Sbjct: 422 AKEENAE--GVSQNLRDVEGITPELIAKLTEAGVHTRDDLADLAVDELTDIT-------- 471

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
                    G   D+ +++I+ AR    W   +         A
Sbjct: 472 ---------GQSADEAKALIMTARAH--WFTNDASDTAAPATA 503


>gi|170717519|ref|YP_001784611.1| transcription elongation factor NusA [Haemophilus somnus 2336]
 gi|168825648|gb|ACA31019.1| NusA antitermination factor [Haemophilus somnus 2336]
          Length = 493

 Score =  578 bits (1492), Expect = e-163,   Method: Composition-based stats.
 Identities = 207/510 (40%), Positives = 318/510 (62%), Gaps = 20/510 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + R+ +   +  +I  + +  Y    D+RV IN +TG+ S FR 
Sbjct: 2   SKEILLAAEAVSNEKLLPREKIFEALESAIALSTKKKYEQEIDVRVVINTKTGEFSTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE V N T +I+L+ A+  DP I +G  + D +  + F R+A+Q+A+QVI  K+REA
Sbjct: 62  WLVVETVLNPTKEITLEAAQFEDPEIKLGDYIEDEIDSIAFDRIAMQTARQVISTKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER++   +F+ + GEI+SGTVK+V   ++I+DL   ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERNKIVEQFRSQEGEIVSGTVKKVNRDSIILDLSQQAEAVILREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E +G Q+ ++R  P+ +V+LF +EVPEI   ++++K  SRDPG RAK+AV S+
Sbjct: 182 VLYKVSPENKGIQLFVTRAKPEMLVELFRIEVPEIGEELIEIKGASRDPGLRAKIAVKSN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRGSRVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +V+DED
Sbjct: 242 DKRIDPVGACVGMRGSRVQAITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  E L+ AIGR GQNVRLA+QLTGW ++++T ++ +   Q + N+    FM 
Sbjct: 302 NHSMDIAVEPENLAQAIGRNGQNVRLATQLTGWVLNVMTIDDLNAKHQAEDNKILALFMT 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLEGIDIT 423
           A+ +DE  AH+LV EGF ++EE+A V ++E+ +I+G  DE+   E+Q RA+  +    + 
Sbjct: 362 ALEIDEEFAHILVDEGFTNLEEIAYVAVNELTAIDGLEDEDLVEELQARAKNAITARMLA 421

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            ++ +++  V E+L ++ G+   I   L E  I T+E+LA   VDDL    E        
Sbjct: 422 EEEALKQAQVEEKLLNLEGMSRHIAFRLSEKQITTLEELAEQGVDDLSDIEE-------- 473

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                       +Q   +I+ AR  + W  
Sbjct: 474 ---------LSAEQAADLIMAAR-NICWFN 493


>gi|17546007|ref|NP_519409.1| transcription elongation factor NusA [Ralstonia solanacearum
           GMI1000]
 gi|17428302|emb|CAD14990.1| probable n utilization substance transcription regulator protein
           [Ralstonia solanacearum GMI1000]
          Length = 491

 Score =  578 bits (1491), Expect = e-163,   Method: Composition-based stats.
 Identities = 199/509 (39%), Positives = 329/509 (64%), Gaps = 24/509 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV   +  ++  A +  +    ++RV I+ E+G+   FR   
Sbjct: 4   EVLLLVDALAREKNVDKDVVFGALEAALASATKKRFEEDVEVRVAIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    QI L  AR+++PSI++   + + +  ++FGR+  Q+AKQVI+Q++R+
Sbjct: 64  VVPDDAGLQEPDKQILLFEAREQNPSINLDEFIEEQIESVEFGRIGAQAAKQVILQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GT+KR +   +IV+ G  + ++ RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTIKRADKKGLIVESGRVEALLARDQMIPKENLRTGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +V R  RGPQ+ LSRT P+F++KLF  EVPE+  G++++KA +RDPG RAK+AV + 
Sbjct: 184 YILNVDRTARGPQIELSRTCPEFLIKLFENEVPEMEQGLLEIKAAARDPGVRAKIAVVAH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RG+RV AV  E+  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGVRGTRVTAVRNEVGGEAVDIVLWSEDPAQFVIGALAPAQVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLAS+LT W I+I+T  E +  + ++ +   + FM+
Sbjct: 304 KHSMDVVVDEENLAVAIGRSGQNVRLASELTSWQINIMTPAESAQKQAEESSTVRKLFME 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RAR+ L  +++  
Sbjct: 364 KLDVDEEVADILIEEGFTSLEEVAYVPLQEMLEIEAFDEDTVNELRNRARDVLLTMELAK 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    VS++L  + G+  ++   L E  I+T +DLA  +VD+L+  +          
Sbjct: 424 EEKVE--KVSQDLRDLEGLTPELIGKLAEGNIQTRDDLAELAVDELVDMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                  G  ++Q +++I+ AR    W  
Sbjct: 472 -------GVDEEQAKALIMKAREH--WFS 491


>gi|148827021|ref|YP_001291774.1| transcription elongation factor NusA [Haemophilus influenzae
           PittGG]
 gi|148718263|gb|ABQ99390.1| transcription elongation factor NusA [Haemophilus influenzae
           PittGG]
          Length = 495

 Score =  578 bits (1491), Expect = e-163,   Method: Composition-based stats.
 Identities = 197/512 (38%), Positives = 324/512 (63%), Gaps = 20/512 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + R+ +   +  +I  + +  +   +DIRV INP+TG+   FR 
Sbjct: 2   SKEILLAAEAVSNEKLLPREKIFEALESAIAISTKKKFEYETDIRVSINPKTGEFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV+  T +I+L+ A+  DP++ +G  V D +  + F R+A+Q+A+QVI  K+REA
Sbjct: 62  WLVVDEVKVPTKEITLEAAQFDDPNLQLGEYVEDQIESIAFDRIAMQTARQVISTKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F+++ G+I++GTVK+V   ++I+DLG  ++ +I R++ + REN RPGDRV+ 
Sbjct: 122 ERAKVVEQFREEEGKIVTGTVKKVSRDSIILDLGNKAEAMIAREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E +  Q+ ++R+ P+ +++LF +EVPEI   +++++  +RD GSRAK+AV S+
Sbjct: 182 VLYKVNPEGKTAQLFVTRSKPEMLIELFRIEVPEIGEEMIEIRGAARDAGSRAKIAVKSN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T +E +   Q + N+    FM 
Sbjct: 302 NHSMDIAVEADNLAQAIGRNGQNVRLATQLTGWTLNVMTTDELNTKHQAEDNKVLNLFMN 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLEGIDIT 423
           A+ +DE  A +LV EGF  +EE+A V ++E+ +I+G  DE+   E+Q RA+  +    + 
Sbjct: 362 ALELDEEFAQILVEEGFTSLEEIAYVPMNELTAIDGLEDEDLVEELQTRAKNAITVAAVA 421

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            ++ +++  V + L ++ G++  + + L E  I T+E+LA   VDDL    E        
Sbjct: 422 EEEALKKANVEDRLLNLEGMNRHVAIKLAEKQITTLEELAEQGVDDLTDIEE-------- 473

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                       +Q   +I+ AR  + W  +E
Sbjct: 474 ---------LTAEQAADLIMAAR-NICWFGEE 495


>gi|256821530|ref|YP_003145493.1| NusA antitermination factor [Kangiella koreensis DSM 16069]
 gi|256795069|gb|ACV25725.1| NusA antitermination factor [Kangiella koreensis DSM 16069]
          Length = 497

 Score =  578 bits (1491), Expect = e-163,   Method: Composition-based stats.
 Identities = 208/514 (40%), Positives = 323/514 (62%), Gaps = 22/514 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK +  +V+   +  ++  A +  +G   D+RV+I+  TGD   +RL
Sbjct: 3   NKEILLVVEAVSNEKDVQPEVIFGAIEAALATATKKKHGVDIDVRVDIDRHTGDYDTYRL 62

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV +  VE+   + +L  A+  DP I IG  V + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 63  WTVVADDAVEDPLTETTLSAAQVEDPEIQIGDYVEEQIESIEFGRIAAQTAKQVIVQKVR 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER +    F+D+VG++++G VK+V    + +DLG N++ VI+R+E + RE +R GDRV
Sbjct: 123 EAERAKTVEAFRDRVGDLVTGVVKKVTRDYIFIDLGSNAEAVIQREEMMPRETVRTGDRV 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  +Y +  E RGPQ+ +SRT P+ + +LF +EVPEI   ++++K  +RDPGSRAK+AV 
Sbjct: 183 RGLLYAISTENRGPQLFVSRTRPEMLEELFRIEVPEIGEEVIEIKGAARDPGSRAKVAVK 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           ++D  IDPVGACVGMRG+RVQAV  EL  E+IDIV++  + A +VINA+ PA V  +V+D
Sbjct: 243 TNDKRIDPVGACVGMRGARVQAVTGELNGERIDIVLYDDNPAQYVINAMAPAEVVSIVVD 302

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V ++QL+ AIGR GQN+RLAS+LTGW ++++TEE+ +   Q +       F
Sbjct: 303 EDRRSMDIAVNEDQLAQAIGRNGQNIRLASELTGWELNVMTEEDFATKNQSETESIVSMF 362

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           +  + VDE +A +LV EGF  +EE+A V  SE+  IEGFDE+    ++ RA++ L    I
Sbjct: 363 VADLGVDEDLADILVQEGFTTLEEVAYVPQSEMLEIEGFDEDLVDALKSRAKDVLLTKAI 422

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++++ E+  +E+L ++ G+D  +   L   GI TMEDLA  SVD+L+   E       
Sbjct: 423 ANEEQLEEVEPAEDLLTMDGMDRHLAFVLASKGIVTMEDLAEQSVDELIEIEELDEER-- 480

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                             +I+ AR    W E+++
Sbjct: 481 ---------------AAKLIMTARAP--WFEEQE 497


>gi|119477402|ref|ZP_01617593.1| N utilization substance protein A [marine gamma proteobacterium
           HTCC2143]
 gi|119449328|gb|EAW30567.1| N utilization substance protein A [marine gamma proteobacterium
           HTCC2143]
          Length = 502

 Score =  578 bits (1491), Expect = e-163,   Method: Composition-based stats.
 Identities = 216/519 (41%), Positives = 329/519 (63%), Gaps = 22/519 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK + RD++   +  ++  A +  Y   +DI V I+ E+G    FR 
Sbjct: 2   NKEILLVAEAVSNEKGVPRDIIFEAIEQALATATKKRYDEDADIHVIIDRESGGYETFRR 61

Query: 66  LEVVEEVEN--YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
            EVV + E      Q + + A ++D S+ IG V  + +  + FGR+A Q+AKQVI+QKVR
Sbjct: 62  WEVVSDDEMALLGTQFTTEEAAEKDTSLQIGDVYEEKIENVGFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +   E++ +VGE+ISGTVK+V   N+IVDLGN ++G + R+E + RE  R GDRV
Sbjct: 122 EAERAQVVEEYEGRVGELISGTVKKVTRDNIIVDLGNNAEGSLPREELVGREVFRMGDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + DVR E RGPQ+ LSR   + +++LF +EVPEI   ++ ++A +RDPGSRAK+AV 
Sbjct: 182 RAILQDVRPEARGPQLFLSRACSEMLIELFKVEVPEISEEVIDIRAAARDPGSRAKIAVK 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           ++D  IDP+GACVGMRGSRVQAV  EL +E++DI++W  + A  VINA+ PA V  +V+D
Sbjct: 242 TNDGRIDPIGACVGMRGSRVQAVSGELGNERVDIILWDDNPAQLVINAMAPAEVESIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   ++V V  + L+ AIGR GQNVRLAS LTGWTI++++ E+ S   +K+       F
Sbjct: 302 EDSRSMDVAVAADNLAQAIGRSGQNVRLASDLTGWTINVMSLEDASEKHEKESGAVIAEF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M++++VDE IA +LV EGF  +EE+A V + E+A IEGFDE+ A E++ RA++ L    I
Sbjct: 362 MESLDVDEDIAEVLVDEGFTSLEEVAYVPLEELAGIEGFDEDIAEELRARAKDALLTQAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++++ ++  +E+L ++ G++  +   L   GI TMEDLA  +V+DL+           
Sbjct: 422 ASEEQLGDVEPAEDLLTMDGMERHLAFVLASKGIITMEDLAEQAVEDLMDIE-------- 473

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEE 521
                    G  + Q   +I+ AR    W  + +  + +
Sbjct: 474 ---------GLEEKQAGELIMTARAP--WFAEAEETENQ 501


>gi|86148618|ref|ZP_01066901.1| transcription elongation factor NusA [Vibrio sp. MED222]
 gi|218710446|ref|YP_002418067.1| transcription elongation factor NusA [Vibrio splendidus LGP32]
 gi|85833609|gb|EAQ51784.1| transcription elongation factor NusA [Vibrio sp. MED222]
 gi|218323465|emb|CAV19642.1| Transcription elongation protein nusA [Vibrio splendidus LGP32]
          Length = 495

 Score =  578 bits (1490), Expect = e-163,   Method: Composition-based stats.
 Identities = 198/512 (38%), Positives = 319/512 (62%), Gaps = 19/512 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +       ++RVEI+ +TG+   FR 
Sbjct: 2   NKEILAVVEAVSNEKAVPRERIFEALEIALATATKKKSELEIEVRVEIDRKTGNFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            E VEEVE  T +IS++ A+  DP I++GG + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WEAVEEVEFPTKEISIEAAKYDDPEIELGGFIEDDIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  GE+++G VK+V    VI+DLGN ++ VI RD+ + REN RPGDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGELVTGAVKKVNRDTVILDLGNNAEAVILRDDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V+ E RG Q+ ++R+ P+ + +LF +EVPEI   ++++K  +RD GSRAK+AV ++
Sbjct: 182 LLYAVKPEARGFQLFVTRSKPEMLAELFRVEVPEIGEELIELKGAARDAGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  +L  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSNDLGGERIDIVLWDDNPAQFVINAMAPADVASIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +     Q++     + FM+
Sbjct: 302 THSMDIAVEADNLAQAIGRSGQNVRLASQLTGWELNVMTVADLEKKHQEEAVASIENFMK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++++E  A +LV EGF+ +EE+A V ++E+  ++G DE    E++ RA++ L  + +  
Sbjct: 362 HLDIEEDFAQMLVEEGFSTLEEVAYVPVNELLEVDGLDEGIVEELRNRAKDALTTLALAK 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++    +  +E+L ++ G++ ++   L   G+ T+EDLA   VD+L G            
Sbjct: 422 EETFDGVEPAEDLLALEGLEREMAYKLAAKGVATLEDLADQGVDELEGIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                      ++   +I+ AR  + W   E+
Sbjct: 472 -------DLTAERAGELIMAAR-NICWFGDEE 495


>gi|114562167|ref|YP_749680.1| transcription elongation factor NusA [Shewanella frigidimarina
           NCIMB 400]
 gi|114333460|gb|ABI70842.1| NusA antitermination factor [Shewanella frigidimarina NCIMB 400]
          Length = 499

 Score =  578 bits (1490), Expect = e-163,   Method: Composition-based stats.
 Identities = 194/515 (37%), Positives = 318/515 (61%), Gaps = 23/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK + R+ +   +  ++  A +  Y    ++RV I+ +TG    FR 
Sbjct: 2   NKEILLVAEAVSNEKGLPREKIFEALEIALATATKKKYEGDIEVRVAIDRKTGHYDTFRR 61

Query: 66  LEVVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             VV++    +EN   +I+ + AR  +P I +G  + D +  + F R+  Q+AKQVI+QK
Sbjct: 62  WMVVDDQGEALENPYSEITFEAARYEEPEIQVGEFIEDQIDSVAFDRITTQTAKQVIVQK 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGD 180
           VREAER +   +F ++ GEI++G VK+    +V+VDLGN +DGV+ +++ ISRE+ RPGD
Sbjct: 122 VREAERAQIVEQFIEREGEIVTGVVKKSTRESVVVDLGNNADGVLFKEDLISRESFRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV++ +Y VR E RG Q+ L+R+  + +++LF +EVPEIY+ +++V   +RDPG+RAK+A
Sbjct: 182 RVRALLYSVRPEARGAQLFLTRSKAEMLIELFRVEVPEIYDELIEVMGAARDPGARAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A +VINA+ PA V  ++
Sbjct: 242 VKSNDRRIDPIGACVGMRGARVQAVSNELGGERVDIVLWDDNPAQYVINAMAPADVASII 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V  + L+ AIGR GQNVRLA+QLTGW ++++T E+ +   Q +  +   
Sbjct: 302 VDEDNHSMDIAVEADSLAQAIGRNGQNVRLATQLTGWELNVMTVEDMNKKHQAESAKVID 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F+  ++VD+  A +L  EGF  +EE+A V  SE+ ++EGFDE     ++ RA+  +   
Sbjct: 362 LFVAYLDVDKDFAAVLADEGFTSLEEIAYVPESELLAVEGFDEGIVEALRERAKAAISTR 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  ++ +     S++L ++ G++  +   L   G+ T+EDLA   +DDL+   E     
Sbjct: 422 ALASEEALDGAEPSDDLLALEGLERHLAYVLASKGVVTLEDLAEQGIDDLIDIEE----- 476

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                         +++   +I+ AR  + W  +E
Sbjct: 477 ------------LTEEKAGELIMAAR-NICWFGEE 498


>gi|91792366|ref|YP_562017.1| transcription elongation factor NusA [Shewanella denitrificans
           OS217]
 gi|91714368|gb|ABE54294.1| NusA antitermination factor [Shewanella denitrificans OS217]
          Length = 499

 Score =  578 bits (1490), Expect = e-163,   Method: Composition-based stats.
 Identities = 197/515 (38%), Positives = 319/515 (61%), Gaps = 23/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK++ R+ +   +  ++  A +  Y    ++RV I+ +TG    FR 
Sbjct: 2   NKEILLVAEAVSNEKAVPREKIFEALEIALATATKKKYEGDIEVRVAIDRKTGHYDTFRR 61

Query: 66  LEVVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             VV++    +EN   +I+L+ AR  +P I+ G  + D +  + F R+  Q+AKQVI+QK
Sbjct: 62  WMVVDDQGEALENPYSEITLEAARYEEPGIEPGQYIEDQIDSVVFDRITTQTAKQVIVQK 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGD 180
           VREAER +   +F +K GEI++G VK+    NV+VDLGN +DGV+ +++ ISRE+ RPGD
Sbjct: 122 VREAERAQVVEQFIEKEGEIVTGIVKKSSRENVVVDLGNNADGVLFKEDLISRESFRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV++ +Y VR E RG Q+ L+R+ P+ +++LF +EVPEIY+ ++++   +RDPG+RAK+A
Sbjct: 182 RVRALLYSVRPEARGAQLFLTRSKPEMLIELFRVEVPEIYDEMIEIMGAARDPGARAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A +VINA+ PA V  ++
Sbjct: 242 VKSNDRRIDPIGACVGMRGARVQAVSNELGGERVDIVLWDENPAQYVINAMAPADVASII 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V  + L+ AIGR GQNVRLA+QLTGW ++++T E+ +   Q +  +   
Sbjct: 302 VDEDNHSMDIAVEADSLAQAIGRNGQNVRLATQLTGWELNVMTVEDMNKKHQAESAKVID 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F+ A+ VD   A +L  EGF  +EE+A V  +E+ +I+GFD +    ++ RA+  +   
Sbjct: 362 LFVSALEVDTDFATVLAEEGFTSLEEIAYVPEAELLAIDGFDSDIVETLRERAKAAISTR 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  ++ +     SE+L ++ G++  +   L   G+ T+EDLA   +DDL+   E     
Sbjct: 422 ALATEEALDGAEPSEDLLALEGLERHLAYVLASKGVVTLEDLAEQGIDDLIEIEE----- 476

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                         + +   +I+ AR  + W  +E
Sbjct: 477 ------------LTEAKAGELIMAAR-NICWFGEE 498


>gi|254516618|ref|ZP_05128677.1| N utilization substance protein A [gamma proteobacterium NOR5-3]
 gi|219675041|gb|EED31408.1| N utilization substance protein A [gamma proteobacterium NOR5-3]
          Length = 497

 Score =  578 bits (1490), Expect = e-162,   Method: Composition-based stats.
 Identities = 208/512 (40%), Positives = 325/512 (63%), Gaps = 22/512 (4%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
            E+L +A+AV+ EK +  D++   +  ++  A +  Y   +DI V I+ ETGD    R  
Sbjct: 3   KEILLVAEAVSNEKGVSEDIIFEAIESALAMATKKRYDEDADIEVTIDRETGDYETVRRW 62

Query: 67  EVVEEVEN--YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
            VV + E      Q + + A ++DPS+  G V  + +  + FGR+A Q+AKQVI+QKVR+
Sbjct: 63  LVVPDDEMALLGTQFTTEEAIEQDPSLKPGDVYQEQVENVGFGRIAAQTAKQVIVQKVRD 122

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVK 183
           AER +   +++ +VGE+I+GTVK+V   NVIVDLGN ++G++ R++ + RE  R  DRV+
Sbjct: 123 AERAQVVEQYESRVGELIAGTVKKVTRDNVIVDLGNNAEGLLPREQLVGRETFRINDRVR 182

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           + + ++  E RGPQ++LSR  P+ +++LF +EVPEI   ++Q+++ +RDPGSRAK+AV +
Sbjct: 183 AILKEISTETRGPQLILSRACPEMLIELFKIEVPEISEEVIQIRSAARDPGSRAKIAVKT 242

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  IDPVGACVGMRGSRVQAV  EL +E++DIV+W  + A  VINA+ PA V  +V+DE
Sbjct: 243 NDQRIDPVGACVGMRGSRVQAVSNELDNERVDIVLWDDNPAQLVINAMSPAEVESIVVDE 302

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           +   ++V V ++ L+ AIGR GQNVRLAS+LTGWTI++++ +E    ++ +  +  Q FM
Sbjct: 303 ESNTMDVAVAEDNLAQAIGRAGQNVRLASELTGWTINVMSVDEAVEKQEAEAGQVIQTFM 362

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
             ++VDE +A +LV EGF  +EE+A V I E+ SI+GFDE+ A E++ RA++ L  + I 
Sbjct: 363 DKLDVDEDVAGILVDEGFTTLEEVAYVPIDEMTSIDGFDEDIAEELRARAKDALLTLAIA 422

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            ++++     + +L  + G+D  +   L   GI TMEDLA   VD+L+            
Sbjct: 423 SEEELGAQEPAADLLGMDGMDRHLAFILSSRGIVTMEDLAEQGVDELMDIE--------- 473

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                      +++   +I+ AR    W E+E
Sbjct: 474 --------DMTEERAGELIMTARAP--WFEEE 495


>gi|127513756|ref|YP_001094953.1| transcription elongation factor NusA [Shewanella loihica PV-4]
 gi|126639051|gb|ABO24694.1| NusA antitermination factor [Shewanella loihica PV-4]
          Length = 499

 Score =  577 bits (1489), Expect = e-162,   Method: Composition-based stats.
 Identities = 201/515 (39%), Positives = 316/515 (61%), Gaps = 23/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK++ R+ +   +  ++  A +  Y    ++RV I+ +TG+   FR 
Sbjct: 2   NKEILLVAEAVSNEKAVPREKIFEALEIALATATKKKYEGDIEVRVAIDRKTGEYETFRR 61

Query: 66  LEVVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             VVE+    +EN   +I+L+ AR  +P I +G  + D +  + F R+  Q+AKQVI+QK
Sbjct: 62  WMVVEDEGQALENPFREITLEAARYENPEIQVGEYIEDEIESVVFDRITTQTAKQVIVQK 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGD 180
           VREAER +   +F +K GE+I+G VK+    +V+VDLGN +D V+ +++ ISRE+ RPGD
Sbjct: 122 VREAERAQIVDQFLEKEGELITGVVKKSNRESVVVDLGNNADAVLFKEDLISRESFRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV++ +Y VR E RG Q+ L+RT P  +++LF +EVPEI + ++++   +RDPGSRAK+A
Sbjct: 182 RVRALLYAVRPEARGAQLFLTRTKPDMLIELFRVEVPEIADEMIEIMGAARDPGSRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A FVINA+ PA V  ++
Sbjct: 242 VKSNDRRIDPIGACVGMRGARVQAVSNELGGERVDIVLWDDNPAQFVINAMAPADVASII 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V  + L+ AIGR GQNVRLA+QL+GW ++++T E+     Q +  +   
Sbjct: 302 VDEDNHSMDIAVEADSLAQAIGRNGQNVRLATQLSGWELNVMTVEDMQAKHQAESAKIVN 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F+ A++VDE  A +L  EGF  +EE+A V  SE+  I+GFDEE    ++ RA+  +   
Sbjct: 362 LFVSALDVDEDFAQVLADEGFTSLEEVAYVPESELLEIDGFDEEIVEALRERAKAAISTR 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  ++ +     SE+L ++ G++  +   L   G+ T+EDLA   +DDL+   E     
Sbjct: 422 ALASEEALDGAEPSEDLLALEGLERHLAYVLASKGVITLEDLAEQGIDDLIEIEELTEEK 481

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                               +I+ AR  + W  +E
Sbjct: 482 -----------------AGELIMAAR-NICWFGEE 498


>gi|84387286|ref|ZP_00990307.1| transcription elongation factor NusA [Vibrio splendidus 12B01]
 gi|84377933|gb|EAP94795.1| transcription elongation factor NusA [Vibrio splendidus 12B01]
          Length = 495

 Score =  577 bits (1488), Expect = e-162,   Method: Composition-based stats.
 Identities = 198/512 (38%), Positives = 319/512 (62%), Gaps = 19/512 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +       ++RVEI+ +TG+   FR 
Sbjct: 2   NKEILAVVEAVSNEKAVPRERIFEALEIALATATKKKSELEIEVRVEIDRKTGNFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            E VEEVE  T +IS++ A+  DP I++GG + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WEAVEEVEFPTKEISIEAAKYDDPEIELGGFIEDDIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F D  GE+++G VK+V    VI+DLGN ++ VI RD+ + REN RPGDRV+ 
Sbjct: 122 ERAQIVEQFIDNEGELVTGAVKKVNRDTVILDLGNNAEAVILRDDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V+ E RG Q+ ++R+ P+ + +LF +EVPEI   ++++K  +RD GSRAK+AV ++
Sbjct: 182 LLYAVKPEARGFQLFVTRSKPEMLAELFRVEVPEIGEELIELKGAARDAGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  +L  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSNDLGGERIDIVLWDDNPAQFVINAMAPADVASIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  +     Q++     + FM+
Sbjct: 302 AHSMDIAVEADNLAQAIGRSGQNVRLASQLTGWELNVMTVADLEKKHQEEAVASIENFMK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++++E  A +LV EGF+ +EE+A V ++E+  ++G DE    E++ RA++ L  + +  
Sbjct: 362 HLDIEEDFAQMLVEEGFSTLEEVAYVPVNELLEVDGLDEGIVEELRNRAKDALTTLALAK 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++    +  +E+L ++ G++ ++   L   G+ T+EDLA   VD+L G            
Sbjct: 422 EETFDGVEPAEDLLALEGLEREMAYKLAAKGVATLEDLADQGVDELEGIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                      ++   +I+ AR  + W   E+
Sbjct: 472 -------DLTAERAGELIMAAR-NICWFGDEE 495


>gi|163857446|ref|YP_001631744.1| transcription elongation factor NusA [Bordetella petrii DSM 12804]
 gi|163261174|emb|CAP43476.1| N utilization substance protein A [Bordetella petrii]
          Length = 492

 Score =  577 bits (1488), Expect = e-162,   Method: Composition-based stats.
 Identities = 205/511 (40%), Positives = 311/511 (60%), Gaps = 25/511 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++ R+VV   +  ++  A +  +   ++IRV I+ ETG    FR   
Sbjct: 4   EILLLVDALAREKNVTREVVFGALESALASAMKKRFKEDAEIRVAIDRETGSHEGFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    Q  L  A +  P+I +G  + +PL P++FGR+  Q+AKQ I+QK+R+
Sbjct: 64  VVPDEAGLQEPDKQEMLSDALELVPNIQVGEYIEEPLEPIEFGRIGAQAAKQAILQKIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F D+   IISGT+KR++ G++IV+ G  +  + R E I +EN R GDR+++
Sbjct: 124 AEREQVLNDFLDRGETIISGTIKRMDKGDIIVETGKIEARLPRSEMIPKENFRVGDRLRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           ++  V    RG QV+LSRT P+F+ +LF  EVPEI  G++++KA +RDPG RAK+AV + 
Sbjct: 184 FVLRVDHAARGQQVILSRTSPEFIRQLFENEVPEIEQGLLEIKAAARDPGVRAKIAVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVGMRGSRV AV  EL  E++DIV+WS D A FVI AL PA V  +V+DED
Sbjct: 244 DKRIDPIGTCVGMRGSRVTAVRNELGGEQVDIVLWSEDPAQFVIGALAPANVESIVVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L  AIG +GQNVRLAS+LTGW I+I+T EE    ++ +       FM 
Sbjct: 304 KHAMDVVVDEENLPKAIGAKGQNVRLASELTGWQINIMTPEESLSRQETERAGLRAAFMS 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RAR  L    I  
Sbjct: 364 KLDVDEEVADILIDEGFTGIEEIAYVPMQELLEIEAFDEDTINELRARARNALLTEAIAQ 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           +++   L  +++L  + G+  ++   L E  + T +DLA  + D+L   S          
Sbjct: 424 EER---LETAQDLLELEGMTPELAAKLAERQVLTRDDLAELATDELAEIS---------- 470

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G  + Q   +I+ AR    W ++E
Sbjct: 471 -------GLDEQQASELIMRARAH--WFDEE 492


>gi|56478754|ref|YP_160343.1| transcription elongation factor NusA [Aromatoleum aromaticum EbN1]
 gi|56314797|emb|CAI09442.1| N utilization substance protein A [Aromatoleum aromaticum EbN1]
          Length = 491

 Score =  577 bits (1488), Expect = e-162,   Method: Composition-based stats.
 Identities = 209/509 (41%), Positives = 334/509 (65%), Gaps = 23/509 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++ +D+V   +  ++  A +      +D+RV I+ +TGD   FR   
Sbjct: 4   EILLLVDALAREKNVAKDIVFGALESALASATKKRINDEADVRVTIDRDTGDYESFRRWV 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           V+  EEV N   ++ +  AR+  P I++G  + +PL P+DFGR+  Q+AKQVI+Q++R+A
Sbjct: 64  VMPDEEVVNDEAEMGIIDAREMVPGIELGEYIEEPLEPIDFGRIGAQAAKQVILQRIRDA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F ++   ++SG++KR+E GN I+++G  + VI RD+ I RENLR GDRVK++
Sbjct: 124 EREQILNDFLERKEHLVSGSIKRMERGNAIIEIGRLEAVIPRDQMIPRENLRVGDRVKAF 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  + R  RGPQ++LSRT P+F+ KLF +EVPEI +G++++KA +RDPG RAK+AV S+D
Sbjct: 184 LLRIDRGARGPQLILSRTAPEFVGKLFELEVPEIEDGLLEIKACARDPGLRAKIAVQSND 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDP+G CVG+RGSRV AV  E+  E+IDI+VWS D A FVI AL+PA V  +V+DE+ 
Sbjct: 244 PRIDPIGTCVGLRGSRVTAVRNEIAGEQIDIIVWSADPAQFVIAALQPAEVVSIVVDEES 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++V+V +  L++AIGR GQNV+LAS+LTGWTI++++EEE +    ++     + FM+ 
Sbjct: 304 HAMDVVVDENNLAIAIGRNGQNVKLASELTGWTINLMSEEESAQKTGQEREGLRELFMEK 363

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VD+ +A +L+ EGF+ +EE+A V ++E+  IE FDE T  E++ RAR  L    I  +
Sbjct: 364 LDVDDELADILIDEGFSSLEEIAYVPLAEMLEIEAFDEGTVNELRNRARNVLLTEAIVTE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFD 485
           + +    VS++L ++ G+D  +   L  +G+ T +DLA  +VD+L+  +           
Sbjct: 424 EHLEN--VSDDLINLEGMDKSLAATLARHGVLTRDDLADLAVDELVEIA----------- 470

Query: 486 GFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                 G  +++  ++I  AR    W E+
Sbjct: 471 ------GIEQERASALISVARAH--WFEE 491


>gi|120612038|ref|YP_971716.1| NusA antitermination factor [Acidovorax citrulli AAC00-1]
 gi|120590502|gb|ABM33942.1| NusA antitermination factor [Acidovorax citrulli AAC00-1]
          Length = 494

 Score =  577 bits (1487), Expect = e-162,   Method: Composition-based stats.
 Identities = 200/514 (38%), Positives = 327/514 (63%), Gaps = 24/514 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL + +A++ EK+++RDVV   +  ++ +A + LY    DIRV I+ ++G+   FR 
Sbjct: 2   NRELLMLVEAISREKNVERDVVFGAVELALAQATKKLYPGEVDIRVAIDRDSGNYETFRR 61

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             VV +   ++N   +  L  A++R   I++G  + + +  +  GR+   +AKQVI+QK+
Sbjct: 62  WLVVPDDAGLQNPDAEELLMDAQERIADIEVGEYIEEGIESLPIGRIGAMAAKQVILQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           R+AER+    +F  +  +I +GTVKR++ G++IV+ G  +G +RR E I +ENLR GDRV
Sbjct: 122 RDAEREMLLNDFMSRGEKIFTGTVKRMDKGDIIVESGRVEGRLRRSEMIPKENLRNGDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ I +V    RG  ++LSR+ P+FM++LF  EVPEI  G++++K+ +RDPGSRAK+AV 
Sbjct: 182 RAMIMEVDLTLRGAPIILSRSAPEFMIELFRNEVPEIEQGLLEIKSCARDPGSRAKIAVL 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  +DP+G CVG+RG+RV AV  EL  E++DIV+WS D A FVI AL PA V+ +V+D
Sbjct: 242 SHDKRVDPIGTCVGVRGTRVNAVTNELAGERVDIVLWSEDPAQFVIGALAPANVSSIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+   ++V+V +E L++AIGR GQNVRLAS LTGW I+I+   E +  +  + +   + F
Sbjct: 302 EEKHAMDVVVDEENLAIAIGRGGQNVRLASDLTGWKINIMDAAESAQKQANETDASRRLF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+ ++VDE IA++L+ EGF+ +EE+A V + E+  IE FDE+T  E++ RA++ L  ++I
Sbjct: 362 MEKLDVDEEIANILIEEGFSSLEEVAYVPLQEMLEIESFDEDTVNELRARAKDALLTMEI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++ +   GVS+ L  + G+ S++   L E G+ T +DLA  ++D+L   +        
Sbjct: 422 AREESVE--GVSQNLRDLDGMTSELIGKLAEGGVHTRDDLADLAIDELTALT-------- 471

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                    G  +++ +++I+ AR    W   ++
Sbjct: 472 ---------GQSEEEAKALIMKAREH--WFAGQE 494


>gi|121604913|ref|YP_982242.1| NusA antitermination factor [Polaromonas naphthalenivorans CJ2]
 gi|120593882|gb|ABM37321.1| NusA antitermination factor [Polaromonas naphthalenivorans CJ2]
          Length = 506

 Score =  577 bits (1487), Expect = e-162,   Method: Composition-based stats.
 Identities = 201/511 (39%), Positives = 318/511 (62%), Gaps = 24/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL + DA++ EK+++RDVV   +  ++  A + +Y    DIRV ++ ++G+   FR 
Sbjct: 2   NRELLMLVDAISREKNVERDVVFGAVELALASATKKVYADGVDIRVAVDRDSGNYETFRR 61

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             VV +   ++N   +  +  ARD  P I+ G  +  P+  +  GR+  Q+AKQVI+QK+
Sbjct: 62  WLVVADEAGLQNPEAEELVTDARDEIPDIEEGDYIEKPVESLPIGRIGAQAAKQVILQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           R+AER+    +F  +  +I  GTVKR++ G++IV+ G  +G +RR + I +ENLR GDRV
Sbjct: 122 RDAEREMLLNDFMSRGDKIFVGTVKRMDKGDLIVESGRVEGRLRRSDMIPKENLRTGDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ I +V    RG  ++LSRT P++M++LF  EVPEI  G++++K  +RDPGSRAK+AV 
Sbjct: 182 RAMIMEVDTTLRGAPIILSRTSPEYMIELFRQEVPEIEQGLLEIKTCARDPGSRAKIAVL 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  +DP+G CVG+RG+RV  V  EL  E++DIV+WS D A FVI AL PA V+ +V+D
Sbjct: 242 SHDKRVDPIGTCVGVRGTRVNGVTNELAGERVDIVLWSEDPAQFVIGALAPANVSSIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+   ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+   E +  +  + +   + F
Sbjct: 302 EERHAMDVVVDEENLAIAIGRGGQNVRLASELTGWKINIMDANESAQKQATETDSSRKLF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M  ++VD+ IA +L+AEGF  +EE+A V + E+  IE FDE+T  E++ RA++ L  ++I
Sbjct: 362 MAKLDVDQEIADILIAEGFTSLEEVAYVPLQEMLEIESFDEDTVNELRTRAKDALLTMEI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++ +   GVS+ L  + G+  ++   L E G+ T +DLA  +VD+L   +        
Sbjct: 422 AQEENVG--GVSQNLRDVEGLTPELIAKLTEAGVATRDDLADLAVDELTDIT-------- 471

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                    G   D+ +++I+ AR    W  
Sbjct: 472 ---------GQSADEAKALIMTARAH--WFT 491


>gi|332290219|ref|YP_004421071.1| transcription elongation factor NusA [Gallibacterium anatis UMN179]
 gi|330433115|gb|AEC18174.1| transcription elongation factor NusA [Gallibacterium anatis UMN179]
          Length = 495

 Score =  577 bits (1487), Expect = e-162,   Method: Composition-based stats.
 Identities = 200/512 (39%), Positives = 315/512 (61%), Gaps = 19/512 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + R+ +   +  ++  + +  Y    D+RV I+ +TGD   FR 
Sbjct: 2   SKEILLAAEAVSNEKLLPREKIFEALESALAISTKKKYEQDIDVRVSIDQKTGDFVTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE V + T +I+L+ A+  +P I +G  + D +  + F R+ +Q+ +QVI  K+R+A
Sbjct: 62  WLVVENVTHPTKEITLEAAQIEEPEIQLGEYIEDEIESIPFDRITMQTVRQVISAKIRDA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER++   +FK++ GEII+G VK+V   NVI+DLGN ++ +I R++ + REN R GDRV+ 
Sbjct: 122 ERNKVVEQFKEREGEIITGIVKKVNRENVILDLGNQAEAIILREDLLPRENFRAGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  + +GPQ+ ++R+ P+ +++LF +EVPEI  G++++KA +RD G RAK+AV S 
Sbjct: 182 VLYRVSSDPKGPQLFVTRSKPEMLIELFKIEVPEIGEGVIEIKAATRDAGVRAKIAVKSH 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAITNELDGERVDIVLWDDNPAQFVINAMAPADVVSIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNV LAS+LTGW +++++ +E     Q +  +    FM+
Sbjct: 302 KKSMDIAVEAANLAQAIGRNGQNVNLASRLTGWKLNVMSSDELENKHQLENQKTVNLFME 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
           ++++DE  A+LL  EGF  +EE+A V   E+  I+GFDE+ A E++ RA+E L  I +  
Sbjct: 362 SLDLDEEFANLLTEEGFRTLEEIAYVPTEELLEIDGFDEDLAEELRNRAKEVLTKIALAE 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ +  + V E L  + G++  + V L E  I T+E+LA   VDDL              
Sbjct: 422 EQALANIDVEEALLKLDGMNRHLAVKLAEKKITTLEELAEQGVDDLADVE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                  G   +Q   +I+ AR  + W   E+
Sbjct: 472 -------GLSAEQAAQLIMAAR-NICWFGNEE 495


>gi|90022354|ref|YP_528181.1| transcription elongation factor NusA [Saccharophagus degradans
           2-40]
 gi|89951954|gb|ABD81969.1| transcription termination factor NusA [Saccharophagus degradans
           2-40]
          Length = 493

 Score =  577 bits (1487), Expect = e-162,   Method: Composition-based stats.
 Identities = 207/513 (40%), Positives = 326/513 (63%), Gaps = 25/513 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
           + E+L +ADAV+ EK +D+ ++   +  ++  A +  Y   +DI+V I+ + GD    R 
Sbjct: 2   KKEILLVADAVSNEKGVDKGIIFEAIELALASATKKRYDEDADIKVTIDRKDGDYVTVRR 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV++  +     Q + + A ++DPS+  G V  + +  +DFGR+A Q+AKQVI+QKVR
Sbjct: 62  WLVVDDDTLAELGTQFTTEEAIEKDPSLKPGDVYEEVIENVDFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER +   E++ +VGE+I+GTVK+V   N+IVDLG N++G++ R+E + RE  R  DRV
Sbjct: 122 EAERAQIVDEYRGRVGELIAGTVKKVTRDNIIVDLGGNAEGLLPREELVGREVFRMNDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + DVR E RGPQ+ LSR  P+ +++LF +EVPEI   ++ + A +RDPGSRAK+AV 
Sbjct: 182 RAVLADVRPEARGPQLFLSRACPEMLIELFKIEVPEIAEEVISLNAAARDPGSRAKIAVA 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           ++D  IDPVGACVGMRGSRVQAV  EL +E+IDI++W  + A FVINA+ PA +  +V+D
Sbjct: 242 TNDGRIDPVGACVGMRGSRVQAVSNELGNERIDIILWDDNPAQFVINAMAPAEIESIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+ G ++V V ++ L+ AIGR GQNVRLAS+LTGW I++++ ++ +  +  +       F
Sbjct: 302 EEAGSMDVAVAEDNLAQAIGRGGQNVRLASELTGWEINVMSVDQWNEKQAAEAGSARDVF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           + A+++DE +A +LV EGF  +EE+A V + E  +IEGFDEE A E++ RA++ L    +
Sbjct: 362 INALDIDEDVADVLVDEGFTTLEEVAYVPLEEFLAIEGFDEEIAEELRNRAKDALLTQAL 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K      +++L ++ G+D  +   L   G+  MEDLA  +VD+L+           
Sbjct: 422 AGEEK---NQPADDLVNMEGMDDALAQTLAARGVICMEDLAEQAVDELMEID-------- 470

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                    G  +++  ++I+ AR    W   E
Sbjct: 471 ---------GMDEERAAALIMKAREP--WFADE 492


>gi|114321098|ref|YP_742781.1| transcription elongation factor NusA [Alkalilimnicola ehrlichii
           MLHE-1]
 gi|114227492|gb|ABI57291.1| NusA antitermination factor [Alkalilimnicola ehrlichii MLHE-1]
          Length = 498

 Score =  576 bits (1486), Expect = e-162,   Method: Composition-based stats.
 Identities = 222/515 (43%), Positives = 328/515 (63%), Gaps = 25/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +A + EK +DR+V+   +  ++  A R  +    D RVE+N  TGD S FR 
Sbjct: 2   SKEILLVVEATSNEKGVDREVIFEAIEAALASATRKRHPEDIDARVEVNRNTGDYSTFRR 61

Query: 66  LEVVE---EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             VVE   +VE+   QI+L+ AR R P I++G  + +P+  ++FGR+A Q+AKQVI+QKV
Sbjct: 62  WWVVESDEDVESPARQITLEEARQRQPDIEVGECLEEPMESVEFGRIAAQTAKQVIVQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER +    F+D++GE+++GTVKR+E G+VI+DLG N++ +I R+  I RE +R  DR
Sbjct: 122 REAERAKVVEAFQDRIGELVTGTVKRLERGSVIMDLGGNAEALIPREAMIPREAVRREDR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ Y+ DVR E RGPQ+ +SRT P+F+V+LF +EVPE+   ++++   +RDPG RAK+AV
Sbjct: 182 LRGYLKDVRPEPRGPQLFVSRTAPEFLVELFKLEVPEVGQELIEIMGAARDPGVRAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            + D  IDPVGACVGMRGSRVQAV  EL  E+IDI++W  + A FVINAL PA V  +V+
Sbjct: 242 RALDPRIDPVGACVGMRGSRVQAVSNELAGERIDIILWDDNPAQFVINALAPAEVESIVV 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   +++ V +EQLS AIGR GQNVRLAS+LTGW ++++T EE     Q++  +  Q 
Sbjct: 302 DEDRHSMDIAVAEEQLSQAIGRGGQNVRLASELTGWELNVMTAEEAEAKNQEEAAQYQQL 361

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F + ++VDE IA +LV EGF+ +EE+A V  +E+  +E FDE+   E++ RAR+ L    
Sbjct: 362 FQEKLDVDEEIAAILVQEGFSSLEEVAYVPAAELLEVEEFDEDIVDELRARARDVLVSEA 421

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
              +        +E+L ++ G+D  +  AL   G+ TMEDLA  SVD+L+          
Sbjct: 422 EERESA--GTEPAEDLLTMEGMDEDLARALAARGVCTMEDLAEQSVDELMEIE------- 472

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                     G  + +   +I+ AR    W   ++
Sbjct: 473 ----------GMDETRAGQLIMKAREP--WFADQQ 495


>gi|307825109|ref|ZP_07655330.1| transcription termination factor NusA [Methylobacter tundripaludum
           SV96]
 gi|307733857|gb|EFO04713.1| transcription termination factor NusA [Methylobacter tundripaludum
           SV96]
          Length = 505

 Score =  576 bits (1486), Expect = e-162,   Method: Composition-based stats.
 Identities = 213/519 (41%), Positives = 323/519 (62%), Gaps = 27/519 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + D  + EK I++++V   +  +++ A    +      RV IN +TGD   +R+
Sbjct: 3   NKEILLVVDVFSNEKDIEKEIVFQAIESALEAATIKRHANQIKARVSINRKTGDYVTYRV 62

Query: 66  LEVVE-------EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            EVV+       +VE    Q+ L+VAR  +P + IG +V + +  +DFGR+A Q+AKQVI
Sbjct: 63  WEVVDANSQIDGDVEFPETQVLLEVARFDNPDVQIGDLVEEEIESVDFGRIAAQTAKQVI 122

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLR 177
           I KVREAER +    ++ +VGE+I+G VKR+E G+V +DLG   +  I +++ I RE +R
Sbjct: 123 IHKVREAERKKIVDAYQSRVGELITGIVKRIEKGSVYLDLGGHVEAYIAKEDMIPREAIR 182

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            GDR++ Y+ DVR E RGPQ+ +SRT P+ ++ LF +EVPE+  G+++V   +RDPGSRA
Sbjct: 183 IGDRIRGYLKDVRSEPRGPQLFVSRTAPELLIALFRLEVPEVGEGLIEVMGAARDPGSRA 242

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV  +D  +DPVGACVGMRGSRVQ+V  EL  E++DI++W+P  A FVINA+ PA + 
Sbjct: 243 KIAVKGNDPRLDPVGACVGMRGSRVQSVSNELAGERVDIILWNPSDAQFVINAMSPAEIQ 302

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            +V+DED   +++ V  + LS AIGR GQNVRLA+QLTGW +++I   +   N + + ++
Sbjct: 303 SIVVDEDKHSMDLAVSSDNLSQAIGRGGQNVRLATQLTGWELNVIDASKAEQNSEAEADK 362

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
             Q F+  +++DE IA +LV EGF  VEE+A V +SE+  IEGFDEE    ++ RA++ L
Sbjct: 363 IKQMFIDQLDIDEDIALILVEEGFNTVEEIAYVPVSEMLEIEGFDEELVNALRSRAKDAL 422

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
               I  ++KI     +++L  + G+D  +   +   GI TM+DLA  SVDDLL +    
Sbjct: 423 LISAIAAEEKIETAEPAQDLLEMEGMDRDLAYDMASQGIITMDDLAEQSVDDLLNFP--- 479

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                         G  +D+   +I+ AR    W  +E+
Sbjct: 480 --------------GINEDRAAKLIMKAREP--WFAEEQ 502


>gi|94310970|ref|YP_584180.1| transcription elongation factor NusA [Cupriavidus metallidurans
           CH34]
 gi|93354822|gb|ABF08911.1| transcription termination/antitermination L factor [Cupriavidus
           metallidurans CH34]
          Length = 491

 Score =  576 bits (1486), Expect = e-162,   Method: Composition-based stats.
 Identities = 205/509 (40%), Positives = 330/509 (64%), Gaps = 24/509 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV   +  ++  A +  +    DIRV I+ E+G+   FR   
Sbjct: 4   EVLLLVDALAREKNVDKDVVFGALEAALASATKKRFEEDVDIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    QI L  AR+++  I +   + + +  ++FGR+  Q+AKQVI+Q++R+
Sbjct: 64  VVPDEQGLQEPDKQILLFEAREQNADIQLDDYIEEQIESVEFGRIGAQAAKQVILQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ D+  +I++GTVKR +   +IV+ G  + ++ RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLDRGEKIMTGTVKRADKKGLIVESGRVEALLARDQIIPKENLRTGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +V R  RGPQ+ LSRT P+F++KLF  EVPE+  G++++KA +RDPG RAK+AV + 
Sbjct: 184 YILNVDRAARGPQIELSRTAPEFLIKLFENEVPEMEQGLLEIKAAARDPGVRAKIAVVAH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RG+RV AV  E+  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGVRGTRVTAVRNEIGGEAVDIVLWSEDPAQFVIGALAPAQVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L+++IGR GQNVRLAS+LTGW I+I+T+EE +  + ++     + FM 
Sbjct: 304 KHSMDVVVDEENLAVSIGRSGQNVRLASELTGWQINIMTQEESAQKQAEESEVVRKLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF+ +EE+A V ISE+  IE FDE+T  E++ RAR+ L  +++  
Sbjct: 364 KLDVDEEVADILIEEGFSSLEEVAYVPISEMMEIEAFDEDTVNELRNRARDALLTMELAR 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+ E  VS++L S+ G+  ++   L E  I T +DLA  +VD+L+  +          
Sbjct: 424 EEKVEE--VSQDLRSLDGLTPELIGKLAEGNIHTRDDLAELAVDELVELA---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                  G  +++ +++I+ AR    W  
Sbjct: 472 -------GVGEEEAKALIMKAREH--WFN 491


>gi|326316665|ref|YP_004234337.1| NusA antitermination factor [Acidovorax avenae subsp. avenae ATCC
           19860]
 gi|323373501|gb|ADX45770.1| NusA antitermination factor [Acidovorax avenae subsp. avenae ATCC
           19860]
          Length = 494

 Score =  576 bits (1485), Expect = e-162,   Method: Composition-based stats.
 Identities = 201/514 (39%), Positives = 327/514 (63%), Gaps = 24/514 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL + +A++ EK+++RDVV   +  ++ +A + LY    DIRV I+ ++G+   FR 
Sbjct: 2   NRELLMLVEAISREKNVERDVVFGAVELALAQATKKLYPGEVDIRVAIDRDSGNYETFRR 61

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             VV +   ++N   +  L  A++R   I++G  + + +  +  GR+   +AKQVI+QK+
Sbjct: 62  WLVVPDDAGLQNPDAEELLMDAQERIADIEVGEYIEEGIESVPIGRIGAMAAKQVILQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           R+AER+    +F  +  +I +GTVKR++ G++IV+ G  +G +RR E I +ENLR GDRV
Sbjct: 122 RDAEREMLLNDFMSRGEKIFTGTVKRMDKGDIIVESGRVEGRLRRSEMIPKENLRNGDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ I +V    RG  ++LSR+ P+FM++LF  EVPEI  G++++K+ +RDPGSRAK+AV 
Sbjct: 182 RAMIMEVDLTLRGAPIILSRSAPEFMIELFRNEVPEIEQGLLEIKSCARDPGSRAKIAVL 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  +DP+G CVG+RG+RV AV  EL  E++DIV+WS D A FVI AL PA V+ +V+D
Sbjct: 242 SHDKRVDPIGTCVGVRGTRVNAVTNELAGERVDIVLWSEDPAQFVIGALAPANVSSIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+   ++V+V +E L++AIGR GQNVRLAS LTGW I+I+   E +  +  + +   + F
Sbjct: 302 EEKHAMDVVVDEENLAIAIGRGGQNVRLASDLTGWKINIMDAAESAQKQANETDASRRLF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+ ++VDE IA++L+ EGFA +EE+A V + E+  IE FDE+T  E++ RA++ L  ++I
Sbjct: 362 MEKLDVDEEIANILIEEGFASLEEVAYVPLQEMLEIESFDEDTVNELRARAKDALLTMEI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++ +   GVS+ L  + G+ S++   L E G+ T +DLA  ++D+L   +        
Sbjct: 422 AREESVE--GVSQNLRDLDGMTSELIGKLAEGGVHTRDDLADLAIDELTALT-------- 471

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                    G  +++ +++I+ AR    W   ++
Sbjct: 472 ---------GQSEEEAKALIMKAREH--WFAGQE 494


>gi|149909281|ref|ZP_01897937.1| N utilization substance protein A [Moritella sp. PE36]
 gi|149807598|gb|EDM67546.1| N utilization substance protein A [Moritella sp. PE36]
          Length = 499

 Score =  576 bits (1485), Expect = e-162,   Method: Composition-based stats.
 Identities = 200/516 (38%), Positives = 314/516 (60%), Gaps = 23/516 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + DAV+ EK++ R+ +   M  ++  A +  Y    ++RVEI+ +TG+   FR 
Sbjct: 2   NKEILLVVDAVSNEKALPREKIFEAMEIALATATKKRYEGDIEVRVEIDRKTGNFETFRR 61

Query: 66  LEVVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             V+++    +EN   +I+L  A+  D +I++GG + D +  + F RV  Q+AKQVIIQK
Sbjct: 62  WLVIDDKGEPLENPFSEITLDAAKYDDETIEVGGYIEDTIDSVVFDRVTTQTAKQVIIQK 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGD 180
           VREAERD     +    GE+I+G VKR     V++DLGN ++ V+ RDE + RE+ R GD
Sbjct: 122 VREAERDLIVQHYAKHEGELITGLVKRANRETVVLDLGNNAEAVMFRDEMLPRESFRTGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K  + +V+ E RG Q+ +SR   + +++LF +EVPE    ++++KA +RDPGSRAK+A
Sbjct: 182 RIKGLLKEVKPEARGTQLFISRACNEMLIELFRIEVPEFNEEMLELKAAARDPGSRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDPVGACVGMRG+RVQAV  EL  E++DI++W  + A FVINA+ PA V  ++
Sbjct: 242 VKSNDKRIDPVGACVGMRGARVQAVSNELNGERVDIILWDDNPAQFVINAMAPAEVASII 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V +E L+ AIGR GQNVRLASQLTGW ++++T  E +   QK+ +    
Sbjct: 302 VDEDQHSMDIAVEQENLAQAIGRNGQNVRLASQLTGWELNVMTVAEANEKHQKENDRLMN 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F   +++DE +A LL+ EGF+ +EE+A V ++E   I+GFDE+   E++GRA+  L   
Sbjct: 362 IFTDKLDIDEDMAELLIEEGFSSLEEIAYVPVNEFLQIDGFDEDLVDELRGRAKNALTTS 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  ++ +     S +L ++ G++  +   L   G+ T+E+LA  S+DDL    E     
Sbjct: 422 ALAAEESLESAEPSADLLALEGLEKHLAYVLASIGVITLEELAEQSIDDLSEIEE----- 476

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                          ++   +I+ AR  + W    +
Sbjct: 477 ------------LTDERAGELIMAAR-NICWFSDSE 499


>gi|253997782|ref|YP_003049845.1| transcription elongation factor NusA [Methylovorus sp. SIP3-4]
 gi|253984461|gb|ACT49318.1| NusA antitermination factor [Methylovorus sp. SIP3-4]
          Length = 488

 Score =  576 bits (1485), Expect = e-162,   Method: Composition-based stats.
 Identities = 210/507 (41%), Positives = 331/507 (65%), Gaps = 25/507 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A+EK++ ++V+ + +  ++  A +  +   +D+RVEI  ++G+   FR  +
Sbjct: 4   EILLLVDALAHEKNVAKEVIFTALELALASATKKRFTEDADVRVEIERDSGNYHSFRRWQ 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV  +++EN   Q+      +R   + +G    +PL  ++FGR+  Q+AKQVI+QKVREA
Sbjct: 64  VVSDDDLENPAAQMYTDD--ERAEGLSLGDYYEEPLESVEFGRIGAQAAKQVILQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F  +   +++G +KR+E GN I+++G  + V+ RD+ I +ENLR GDRV++Y
Sbjct: 122 EREQILNDFLARKEHLVTGVIKRMEKGNAIIEVGRIESVLPRDQMIPKENLRVGDRVRAY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  + R  RGPQ++LSR  P+F++KLF +EVPEI  G++++K+ SRDPG R+K+AV S+D
Sbjct: 182 LSRIERTGRGPQLVLSRIAPEFLIKLFELEVPEIEEGLLEIKSASRDPGLRSKIAVKSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVG CVGMRGSRVQAV  EL  E++DIV+WS + A FVINA+ PA V+ +V+DED 
Sbjct: 242 QRLDPVGTCVGMRGSRVQAVTGELAGERVDIVLWSMEPAQFVINAMAPAEVSSIVVDEDA 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++V+V +EQL+ AIGR GQNVRLAS+LTGWT++I+TE E +   ++++ +  Q F+  
Sbjct: 302 HSMDVVVDEEQLAQAIGRNGQNVRLASELTGWTLNILTEAEAAQKHEEEYTKTRQLFIDK 361

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE +A +LV EGF  +EE+A V I+E++ I+ FDEET  E++ RAR  L    I  +
Sbjct: 362 LDVDEEVADILVQEGFNTLEEIAYVPIAEMSEIDAFDEETINELRKRARAALLTEAIAKE 421

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFD 485
           +K+ E   SE L ++ G+D      L   G+ TMEDLA  +VD+L+  +           
Sbjct: 422 EKLEEA--SESLLTMDGMDDATAHLLASKGVSTMEDLADLAVDELMEMA----------- 468

Query: 486 GFLSSLGTPKDQVESMIIHARYKMGWI 512
                     ++ + +I+ AR    W 
Sbjct: 469 ------NMDAERAKQLIMTARAP--WF 487


>gi|91762480|ref|ZP_01264445.1| transcription termination factor [Candidatus Pelagibacter ubique
           HTCC1002]
 gi|91718282|gb|EAS84932.1| transcription termination factor [Candidatus Pelagibacter ubique
           HTCC1002]
          Length = 530

 Score =  576 bits (1485), Expect = e-162,   Method: Composition-based stats.
 Identities = 242/506 (47%), Positives = 350/506 (69%), Gaps = 3/506 (0%)

Query: 4   ANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLF 63
           +++LELL+IA+AVA EKSID+++++  M   I KAA+S +G  ++I+V I+ E+GDI +F
Sbjct: 19  SDKLELLRIAEAVALEKSIDKELIIDSMETGIAKAAKSKFGQDNEIKVLIDRESGDIGIF 78

Query: 64  RLLEVVEEVENYTCQISLKVA---RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           R L VVE+ EN   +I+L+ A    + +    IG  +  PLP  DFGR+A Q+AKQVI  
Sbjct: 79  RKLIVVEKPENTNTEINLQDAIILNEVNKDKKIGDEILQPLPSFDFGRIAAQTAKQVISF 138

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
            VREAER+RQY +F DK   I+SG VKR+E+GNVIVDLG ++ +I+++E I REN++ GD
Sbjct: 139 NVREAERERQYNDFIDKKDSILSGIVKRLEFGNVIVDLGRTEAIIQKNEMIPRENIKAGD 198

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RVK+Y YDV+RE RG Q+ LSR HP+FM KLF  EVPEIY+G++++K+ +RDPGSRAK+ 
Sbjct: 199 RVKAYCYDVKREARGQQIFLSRAHPKFMEKLFVQEVPEIYDGLIEIKSSARDPGSRAKIC 258

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V + D+S+DPVGACVGMRGSRVQAVV EL+ EKIDIV WS D A  V NAL PA V +V 
Sbjct: 259 VKAVDTSLDPVGACVGMRGSRVQAVVNELQGEKIDIVNWSEDPAIVVSNALSPAEVQRVN 318

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +D    +++VI+ +E LS AIGRRGQNVRLA++L  + I+I+T+ EDS  RQ +F E+T+
Sbjct: 319 VDSVAKKLDVILTEENLSKAIGRRGQNVRLATKLLNYEINIMTDAEDSERRQSEFKEKTE 378

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F++ + +DE +  LLVAEGF+ + ++       +  IEG +E+TA  +  RA+E+ +  
Sbjct: 379 NFVKNLELDETLGQLLVAEGFSSISDIKDSSPENLMKIEGIEEDTAKALIERAKEFYQKD 438

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
              + ++I++LG+ ++L +  G+   + V LGE  I  +ED A  + D+L G  +   G 
Sbjct: 439 QEDITQRIKDLGLQDDLINHKGLTPGMLVTLGEQKILKLEDFADLASDELTGGYDVVKGE 498

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHAR 506
             K  G+L      K + + +I+ AR
Sbjct: 499 RIKIQGYLEDFALSKTEADELIMSAR 524


>gi|70734336|ref|YP_257976.1| transcription elongation factor NusA [Pseudomonas fluorescens Pf-5]
 gi|68348635|gb|AAY96241.1| N utilization substance protein A [Pseudomonas fluorescens Pf-5]
          Length = 493

 Score =  576 bits (1485), Expect = e-162,   Method: Composition-based stats.
 Identities = 211/511 (41%), Positives = 320/511 (62%), Gaps = 22/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + ++V+ EK +   V+   +  ++  A +  +    D+RVEIN  TG    FR 
Sbjct: 2   SKEVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVDLRVEINRHTGSYETFRR 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVEE  +++   +  L  AR+  P   +G V+ + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WTVVEEADLDDPAVETWLSKARETHPDAKVGDVIEEKIESIEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G R+
Sbjct: 122 EAERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRL 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV 
Sbjct: 182 RALLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVR 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 242 SKDKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDENPAQFVINAMSPAEVAAIIVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F
Sbjct: 302 EDAHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           +  + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L    I
Sbjct: 362 IDELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDIVNELRARAKDRLLTKAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S+DDLL           
Sbjct: 422 ATEEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLAEQSIDDLLDIDGIDDDR-- 479

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                             +I+ AR    W E
Sbjct: 480 ---------------AGKLIMAARAH--WFE 493


>gi|284006667|emb|CBA71929.1| transcription elongation protein (N utilization substance protein
           A) [Arsenophonus nasoniae]
          Length = 504

 Score =  575 bits (1484), Expect = e-162,   Method: Composition-based stats.
 Identities = 214/519 (41%), Positives = 318/519 (61%), Gaps = 25/519 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIDVRVNIDRKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV   T +I+L  A+  D  I +G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVEEVTQPTREITLDAAKFEDSEIKLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+++ GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAMVVEQFREQQGEIITGVVKKVNRENITLDLGNNAEAVILREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +YDVR E RG Q+ +SR+ P+ +V+LF +EVPEI   I+++KA +RDPGSR K+AV ++
Sbjct: 182 VLYDVRPEARGAQLFVSRSRPEMLVELFRIEVPEIGEEIIEIKAAARDPGSRTKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTG-------WTIDIITEEEDSINRQKDFNE 357
              ++V V    L+ AIGR GQNVRLASQL         W ++++T EE     Q + + 
Sbjct: 302 KCTMDVAVESSNLAQAIGRNGQNVRLASQLLKKHRGDDRWELNVMTAEELEAKHQAEAHA 361

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F++ +++DE  A  LV EGF+ +EELA V I+E+  IEG DE T   ++ RA+  L
Sbjct: 362 SINSFVKHLDIDEEFATALVEEGFSTLEELAYVPINELLEIEGLDETTIEVLRERAKAAL 421

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
             +++  ++ + +   +E+L ++PG++  + + L  +GI T+EDLA   +DDL    E  
Sbjct: 422 TTLELAQKESMGDNQRTEDLLNLPGMNHALAMNLAAHGICTLEDLAEQGIDDLRDIEE-- 479

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                         G   +Q   +I+ AR  + W   + 
Sbjct: 480 --------------GLNDEQAGEIIMAAR-NICWFGNDP 503


>gi|239997162|ref|ZP_04717686.1| transcription elongation factor NusA [Alteromonas macleodii ATCC
           27126]
          Length = 498

 Score =  575 bits (1484), Expect = e-162,   Method: Composition-based stats.
 Identities = 203/515 (39%), Positives = 316/515 (61%), Gaps = 22/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK + R+ +   +  +I  A +       ++RV I+  +GD   FR 
Sbjct: 2   NKEILLVAEAVSNEKQVPREKIFEALEFAIASATKKKNEGEIEVRVSIDRTSGDFDTFRR 61

Query: 66  LEVVEEV---ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             V+ +    EN   +I++  A+  +P I +G  V + +  + F R+  Q+AKQVI+QKV
Sbjct: 62  WLVIPDDQEQENPFAEITISAAQIDEPEIQLGDYVEEQIESIKFDRITTQTAKQVIVQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDR 181
           REAER +   E++DKVGE+++GTVK+V   N+I+DLGN ++GVI RD+ + RE  RPGDR
Sbjct: 122 REAERQQMIAEYEDKVGELVTGTVKKVNRDNIIIDLGNNAEGVIYRDDMLPRETFRPGDR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+  +Y +R E RG Q+ +SRTHP  +V+LF +EVPEI    +++K+ +RDPGSRAK+AV
Sbjct: 182 VRGLLYVIRPEARGAQLFISRTHPDMLVELFRLEVPEIAEETLEIKSAARDPGSRAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  +DPVGACVGMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +V+
Sbjct: 242 KTNDKRLDPVGACVGMRGSRVQAVSGELGGERVDIVLWDENPAQFVINAMAPAEVASIVV 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   ++V V  + L+ AIGR GQNVRLASQLTGW ++++T E+ +   +++  +    
Sbjct: 302 DEDSNSMDVAVEADNLAQAIGRSGQNVRLASQLTGWELNVMTVEDLNKKHEEENAKVLDL 361

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F   +++DE  A +LV EGF  +EE+A V  SE+ ++EG DEE   E++ RAR +L    
Sbjct: 362 FTAGLDIDEEFASVLVDEGFTTLEEVAYVPASELLAVEGLDEEMVEELRNRARAFLTTRA 421

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           +  ++ +     +E L ++ G+   +   L   G+  +E+LA    DD+    E      
Sbjct: 422 LANEESLEGAEPTEALLNLEGMSKHVAYVLASRGVTDLEELAEQGTDDISDIDE------ 475

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                        +++  ++I+ AR  + W  +E+
Sbjct: 476 -----------LDEEKAGALIMAAR-NIVWFSEEE 498


>gi|146283631|ref|YP_001173784.1| transcription elongation factor NusA [Pseudomonas stutzeri A1501]
 gi|145571836|gb|ABP80942.1| N utilization substance protein A [Pseudomonas stutzeri A1501]
 gi|327482026|gb|AEA85336.1| transcription elongation factor NusA [Pseudomonas stutzeri DSM
           4166]
          Length = 493

 Score =  575 bits (1484), Expect = e-162,   Method: Composition-based stats.
 Identities = 211/511 (41%), Positives = 325/511 (63%), Gaps = 22/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + ++V+ EK +   V+   +  ++  A +  Y    D+RVEIN   G    FR 
Sbjct: 2   SKEVLLVVESVSNEKGVPASVIFEALELALATATKKRYEDDVDLRVEINRHNGSYETFRR 61

Query: 66  LEVVEEV--ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV++   E+   Q++L  A++R+P   +G V  + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WTVVDDEHFEDPAHQLALDQAQERNPDAKLGDVFEEKIESIEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +    ++D+VGEIISGTVK+V   +VIVDLGN ++ ++ R++ I+RE  R G RV
Sbjct: 122 EAERAQVVEAYRDRVGEIISGTVKKVTRDSVIVDLGNNAEALLAREDIIARETFRVGARV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R E RGPQ++LSRT PQ +++LF +EVPEI  G+++V   SRDPGSRAK+AV 
Sbjct: 182 RALLKEIRTENRGPQLILSRTAPQMLIELFRIEVPEIAEGLIEVMGASRDPGSRAKIAVR 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDP GAC+GMRGSRVQAV  E+  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 242 SKDKRIDPQGACIGMRGSRVQAVSGEIGGERVDIVLWDENPAQFVINAMAPAEVAAIIVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V ++ L+ AIGR GQNVRLASQLTGWT++++TE +    +Q++  +  + F
Sbjct: 302 EDAHAMDIAVAEDNLAQAIGRGGQNVRLASQLTGWTLNVMTEADIQAKQQEETGDILRNF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           ++ ++VDE +A +LV EGF  +EE+A V + E+  IEGFDE+   E++ RA++ L    I
Sbjct: 362 IEELDVDEELAQVLVEEGFTSLEEIAYVPMEEMLGIEGFDEDIVNELRTRAKDRLLTKAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ +   +E+L ++ G+D ++ V L   G+ T EDLA  S                
Sbjct: 422 ANEEKLADAQPAEDLLALDGMDKELAVELAVRGVITREDLAEQS---------------- 465

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
             D  L   G  +++   +I+ AR    W E
Sbjct: 466 -IDDLLDIDGIDEERAGKLIMAARAH--WFE 493


>gi|313199846|ref|YP_004038504.1| nusa antitermination factor [Methylovorus sp. MP688]
 gi|312439162|gb|ADQ83268.1| NusA antitermination factor [Methylovorus sp. MP688]
          Length = 488

 Score =  575 bits (1483), Expect = e-162,   Method: Composition-based stats.
 Identities = 209/507 (41%), Positives = 332/507 (65%), Gaps = 25/507 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A+EK++ ++V+ + +  ++  A +  +   +D+RVEI  ++G+   FR  +
Sbjct: 4   EILLLVDALAHEKNVAKEVIFTALELALASATKKRFTEDADVRVEIERDSGNYHSFRRWQ 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           +V  +++EN   Q+      +R   +++G    +PL  ++FGR+  Q+AKQVI+QKVREA
Sbjct: 64  IVSDDDLENPAAQMYTDD--ERAEGLNLGDYYEEPLESVEFGRIGAQAAKQVILQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F  +   +++G +KR+E GN I+++G  + V+ RD+ I +ENLR GDRV++Y
Sbjct: 122 EREQILNDFLARKEHLVTGVIKRMEKGNAIIEVGRIESVLPRDQMIPKENLRVGDRVRAY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  + R  RGPQ++LSR  P+F++KLF +EVPEI  G++++K+ SRDPG R+K+AV S+D
Sbjct: 182 LSRIERTGRGPQLVLSRIAPEFLIKLFELEVPEIEEGLLEIKSASRDPGLRSKIAVKSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVG CVGMRGSRVQAV  EL  E++DIV+WS + A FVINA+ PA V+ +V+DED 
Sbjct: 242 QRLDPVGTCVGMRGSRVQAVTGELAGERVDIVLWSMEPAQFVINAMAPAEVSSIVVDEDA 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++V+V +EQL+ AIGR GQNVRLAS+LTGWT++I+TE E +   ++++ +  Q F+  
Sbjct: 302 HSMDVVVDEEQLAQAIGRNGQNVRLASELTGWTLNILTEAEAAQKHEEEYTKTRQLFIDK 361

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE +A +LV EGF  +EE+A V I+E++ I+ FDEET  E++ RAR  L    I  +
Sbjct: 362 LDVDEEVADILVQEGFNTLEEIAYVPIAEMSEIDAFDEETINELRKRARAALLTEAIAKE 421

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFD 485
           +K+ E   SE L ++ G+D      L   G+ TMEDLA  +VD+L+  +           
Sbjct: 422 EKLEEA--SESLLTMDGMDDATAHLLASKGVSTMEDLADLAVDELMEMA----------- 468

Query: 486 GFLSSLGTPKDQVESMIIHARYKMGWI 512
                     ++ + +I+ AR    W 
Sbjct: 469 ------NMDAERAKQLIMTARAP--WF 487


>gi|308050585|ref|YP_003914151.1| NusA antitermination factor [Ferrimonas balearica DSM 9799]
 gi|307632775|gb|ADN77077.1| NusA antitermination factor [Ferrimonas balearica DSM 9799]
          Length = 500

 Score =  575 bits (1483), Expect = e-162,   Method: Composition-based stats.
 Identities = 208/516 (40%), Positives = 326/516 (63%), Gaps = 24/516 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK++ R+ +   +  ++  A +  Y    D+RV I+  TG+   FR 
Sbjct: 2   SKEILLVAEAVSNEKAVPREKIFEALEFALATATKKKYELEIDVRVAIDQRTGEFDTFRR 61

Query: 66  LEVVE---EVENYTCQISLKVAR--DRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            EV+E   E+E  T Q+ L  AR  + D +I++G  V + +  + F R+  Q+AKQVI+Q
Sbjct: 62  WEVIEDDAEMEVPTRQVFLSSARAMEEDETIEVGDFVEEQIESITFDRITTQTAKQVIVQ 121

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPG 179
           KVREAER +   +FKDK GE+++G VK+V   ++IVDLGN +D ++ R+E + REN RPG
Sbjct: 122 KVREAERAQVVEQFKDKEGELVTGVVKKVNRDSIIVDLGNNADAILFREEMLPRENFRPG 181

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DRV++ ++ VR E RG Q+ LSRT P+ +++LF +EVPEI   ++++   +RDPGSRAK+
Sbjct: 182 DRVRALLHSVRLESRGSQLFLSRTRPEMLIELFRIEVPEIGEEMIEIVGAARDPGSRAKI 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S+D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W+ ++A +VINA+ PA V+ +
Sbjct: 242 AVKSNDKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWNDNTAQYVINAMAPADVSSI 301

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           V+DED   ++V V K+ L+ AIGR GQNVRLASQ+TGW ++++T E+     Q +  +  
Sbjct: 302 VVDEDAKSMDVAVEKDSLAQAIGRNGQNVRLASQVTGWELNVMTTEDMQEKHQAESAKLV 361

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             F++++++D+  A +LV EGF  +EE+A V ++E+  IEG DEET   ++ RA+  L  
Sbjct: 362 TQFVESLDIDDEFASVLVDEGFTSLEEIAYVPVNELLEIEGLDEETVEALRERAKAALTT 421

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
             +  ++ +     +E+L ++ G++  +   L   G+ T+EDLA   +DDL    E    
Sbjct: 422 RALASEEALDGAEPAEDLLNLEGMERHLAYVLASRGVVTLEDLADQGIDDLSDIEE---- 477

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                          ++Q   +I+ AR  + W  ++
Sbjct: 478 -------------LSEEQAGELIMAAR-NICWFGED 499


>gi|50119658|ref|YP_048825.1| transcription elongation factor NusA [Pectobacterium atrosepticum
           SCRI1043]
 gi|49610184|emb|CAG73626.1| N utilization substance protein A [Pectobacterium atrosepticum
           SCRI1043]
          Length = 509

 Score =  575 bits (1483), Expect = e-162,   Method: Composition-based stats.
 Identities = 209/524 (39%), Positives = 317/524 (60%), Gaps = 32/524 (6%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIDVRVSIDRKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV EV   T +I+L  A+  DPS+D+GG V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVNEVTLPTREITLDAAQFEDPSLDVGGYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-------NSDGVIRRDETISRENLRP 178
           ER     +F+ + GEII+G VK+V   N+ +++        +++ VI R++ + REN RP
Sbjct: 122 ERAMVVDQFRQQEGEIITGVVKKVNRDNISLEVRPIDGSNTSAEAVIGREDMLPRENFRP 181

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDR++  +Y VR E RG Q+ +SR+ P+ +V+LF +EVPEI   I+++KA +RDPGSRAK
Sbjct: 182 GDRIRGVLYSVRPEARGAQLFVSRSRPEMLVELFRIEVPEIGEEIIEIKAAARDPGSRAK 241

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGACVGMRG+RVQAV +EL  E+ID+++W  + A FVINA+ PA V  
Sbjct: 242 IAVKTNDKRIDPVGACVGMRGARVQAVSSELGGERIDVILWDDNPAQFVINAMAPADVVS 301

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTG-------WTIDIITEEEDSINR 351
           +V+DED   +++ V    L+ AIGR GQNVRLASQL         W ++++T E+     
Sbjct: 302 IVVDEDTYTMDIAVESSNLAQAIGRNGQNVRLASQLLKQHRSEDRWELNVMTVEDLQAKH 361

Query: 352 QKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           Q + +     F + +++DE  A +LV EGF+ +EELA V I E+ +IEGFDEET   ++ 
Sbjct: 362 QAEAHAAIDVFTKHLDIDEEFATVLVEEGFSSLEELAYVPIKELLAIEGFDEETVEALRE 421

Query: 412 RAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           RA+  L  + +  ++ + +   +E+L S+PG+  ++   L   G+ T+EDLA   VDDL 
Sbjct: 422 RAKAALTTLALAHEESLGDGQPAEDLLSLPGLSRELAFKLAAIGVCTLEDLAEQGVDDLT 481

Query: 472 GWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
              E                    +Q   +I+ AR  + W   +
Sbjct: 482 DIEE-----------------LNDEQAGELIMAAR-NICWFGDD 507


>gi|212634073|ref|YP_002310598.1| transcription elongation factor NusA [Shewanella piezotolerans WP3]
 gi|212555557|gb|ACJ28011.1| Transcription termination factor NusA [Shewanella piezotolerans
           WP3]
          Length = 499

 Score =  575 bits (1482), Expect = e-162,   Method: Composition-based stats.
 Identities = 196/515 (38%), Positives = 315/515 (61%), Gaps = 23/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK + R+ +   +  ++  A +  Y    ++RV I+ +TG    FR 
Sbjct: 2   NKEILLVAEAVSNEKGVPREKIFEALEIALATATKKKYEGDIEVRVAIDRKTGGYETFRR 61

Query: 66  LEVVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             VVE+    +EN   +I+L+ A   DP I++GG + D +  + F R+  Q+AKQVI+QK
Sbjct: 62  WMVVEDTGEPLENPFREITLEAAVYDDPEIELGGFIEDEIDSVAFDRITTQTAKQVIVQK 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGD 180
           VREAER +   +F+D+ GE+I G VK+    +V+VDLG N+DGV+ +++ ISRE+ RPGD
Sbjct: 122 VREAERAQIVDQFRDREGELIVGVVKKSNRESVVVDLGSNADGVLFKEDLISRESFRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV++ +Y VR E RG Q+ L+RT  + +++LF +EVPEI + ++++   +RDPGSRAK+A
Sbjct: 182 RVRALLYSVRPEARGAQLFLTRTKSEMLIELFRVEVPEIQDEMIEIMGAARDPGSRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A +VIN + PA V  ++
Sbjct: 242 VKSNDRRIDPIGACVGMRGARVQAVSNELGGERVDIVLWDDNPAQYVINCMAPADVASII 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V  + L+ AIGR GQN+RLA+QL+GW ++++T ++     Q +  +   
Sbjct: 302 VDEDNHSMDIAVEADSLAQAIGRNGQNIRLATQLSGWELNVMTVDDMKAKHQAESAKVVN 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F+++++VD   A +L  EGF  +EE+A V  SE+  IEGFDE+    ++ RA+  +   
Sbjct: 362 LFIESLDVDSEFAQVLADEGFTSLEEIAYVPSSELLEIEGFDEDIVESLRERAKAAISTR 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  ++ +     SE+L ++ G+D  +   +   G+ T+EDLA   +DDL+   E     
Sbjct: 422 ALATEEALDGAEPSEDLLALEGLDRHLAFVMASKGVITLEDLAEQGIDDLIEIEELTEEK 481

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                               +I+ AR  + W  +E
Sbjct: 482 -----------------AGELIMAAR-NICWFGEE 498


>gi|261820127|ref|YP_003258233.1| transcription elongation factor NusA [Pectobacterium wasabiae
           WPP163]
 gi|261604140|gb|ACX86626.1| NusA antitermination factor [Pectobacterium wasabiae WPP163]
          Length = 509

 Score =  575 bits (1482), Expect = e-162,   Method: Composition-based stats.
 Identities = 209/524 (39%), Positives = 316/524 (60%), Gaps = 32/524 (6%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIDVRVSIDRKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV EV   T +I+L  A+  DPS+D+GG V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVNEVTLPTREITLDAAQFEDPSLDVGGYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-------NSDGVIRRDETISRENLRP 178
           ER     +F+++ GEII+G VK+V   N+ +++         ++ VI R++ + REN RP
Sbjct: 122 ERAMVVDQFREQEGEIITGVVKKVNRDNISLEVRPIDGSNTGAEAVIGREDMLPRENFRP 181

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDR++  +Y VR E RG Q+ +SR+ P+ +V+LF +EVPEI   I+++KA +RDPGSRAK
Sbjct: 182 GDRIRGVLYSVRPEARGAQLFVSRSRPEMLVELFRIEVPEIGEEIIEIKAAARDPGSRAK 241

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGACVGMRG+RVQAV +EL  E+IDI++W  + A FVINA+ PA V  
Sbjct: 242 IAVKTNDKRIDPVGACVGMRGARVQAVSSELGGERIDIILWDDNPAQFVINAMAPADVVS 301

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTG-------WTIDIITEEEDSINR 351
           +V+DED   +++ V    L+ AIGR GQNVRLASQL         W ++++T E+     
Sbjct: 302 IVVDEDTCTMDIAVESSNLAQAIGRNGQNVRLASQLLKQHRSDDRWELNVMTVEDLQAKH 361

Query: 352 QKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           Q + +     F + +++DE  A +LV EGF+ +EELA V I E+ +IEG DEET   ++ 
Sbjct: 362 QAEAHAAIDVFTKHLDIDEEFATVLVEEGFSSLEELAYVPIKELLAIEGLDEETVEALRE 421

Query: 412 RAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           RA+  L  + +  ++ + +   +E+L S+PG+  ++   L   G+ T+EDLA   VDDL 
Sbjct: 422 RAKAALTTLALAHEESLGDGQPAEDLLSLPGLSRELAFKLAAIGVCTLEDLAEQGVDDLT 481

Query: 472 GWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
              E                    +Q   +I+ AR  + W   +
Sbjct: 482 DIEE-----------------LNDEQAGELIMAAR-NICWFGDD 507


>gi|332532410|ref|ZP_08408288.1| transcription termination protein NusA [Pseudoalteromonas
           haloplanktis ANT/505]
 gi|332038053|gb|EGI74500.1| transcription termination protein NusA [Pseudoalteromonas
           haloplanktis ANT/505]
          Length = 499

 Score =  575 bits (1482), Expect = e-162,   Method: Composition-based stats.
 Identities = 189/515 (36%), Positives = 320/515 (62%), Gaps = 24/515 (4%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
            E+L +A+AV+ EK++ ++ +   +  ++  A +  +    ++RV I+ +TGD   FR  
Sbjct: 3   KEILLVAEAVSNEKAVPKEKIFEALEFALATATKKKHDGEIEVRVAIDRKTGDYDTFRRW 62

Query: 67  E---VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +   V+E+  +EN   +I+L+ A+  +P + +G  V + +  + F R+  Q AKQVI+QK
Sbjct: 63  QIAAVLEDGSLENPYSEITLEAAQVEEPDLQMGDYVEEQIDSIKFDRITTQMAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGD 180
           VREAER      +KD+ GE+++G VK+     +++DLGN ++ VI RD+ + REN RPGD
Sbjct: 123 VREAERALVVEAYKDQEGELVTGVVKKATRDAIVLDLGNNAEAVIYRDDMLPRENFRPGD 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R++  +Y+V+ E RG Q+ ++R+ P+ +++LF +EVPEI   +++++A +RDPGSRAK+A
Sbjct: 183 RIRGLLYEVKPEARGAQLFVTRSKPEMLMELFRIEVPEIGEEMIELRAAARDPGSRAKIA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDP+GACVGMRG+RVQAV +EL  E++DIV++  + A FVINA+ PA V  +V
Sbjct: 243 VKSNDKRIDPIGACVGMRGARVQAVSSELGGERVDIVLYDDNPAQFVINAMAPAEVASIV 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V  + L+ AIGR GQNVRLASQLTGW ++++T E+     + + ++   
Sbjct: 303 MDEDTHSMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVEDMRTKNEAESDKLLN 362

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F + +++D+  A LL+ EGF+ +EE+A V  SE   I+G DEET   ++ RA++ L   
Sbjct: 363 LFTENLDIDDEFASLLINEGFSTLEEVAYVPASEFLEIDGLDEETVDLLRSRAKDALTTK 422

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  ++ +     +E+L ++ G++  +   +   G+ T+EDLA   +D+L+  +E     
Sbjct: 423 ALKTEESLDGAEPAEDLLALEGLERHLAFVMASKGVVTLEDLAEQGIDELVDITE----- 477

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                          ++   +I+ AR  + W   E
Sbjct: 478 ------------LSSEKAGELIMAAR-NICWFADE 499


>gi|222110449|ref|YP_002552713.1| nusa antitermination factor [Acidovorax ebreus TPSY]
 gi|221729893|gb|ACM32713.1| NusA antitermination factor [Acidovorax ebreus TPSY]
          Length = 494

 Score =  575 bits (1482), Expect = e-162,   Method: Composition-based stats.
 Identities = 202/514 (39%), Positives = 324/514 (63%), Gaps = 24/514 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL + +A++ EK+++RDVVL  +  ++ +A + LY    DIRV I+ ++G+   FR 
Sbjct: 2   NRELLMLVEAISREKNVERDVVLGAVESALAQATKKLYQGEVDIRVSIDRDSGEYETFRR 61

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             VV +   ++N   +  L  AR+R   I++G  + + +  +  GR+   +AKQVI+QK+
Sbjct: 62  WLVVPDDAGLQNPDAEELLMDARERVADIEVGEYIEEAVESVPIGRIGAMAAKQVILQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           R+AER+    +F  +  +I +GTVKR++ G++IV+ G  +G +RR E I +ENLR GDRV
Sbjct: 122 RDAEREMLLNDFMSRGEKIFTGTVKRMDKGDIIVESGRVEGRLRRGEMIPKENLRNGDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ I +V    RG  ++LSR+ P+FM++LF  EVPEI  G++++K+ +RDPGSRAK+AV 
Sbjct: 182 RAMIMEVDLTLRGAPIILSRSAPEFMIELFRNEVPEIEQGLLEIKSCARDPGSRAKIAVL 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  +DP+G CVG+RG+RV AV  EL  E++DIV+WS D A FVI AL PA VT +V+D
Sbjct: 242 SHDKRVDPIGTCVGVRGTRVNAVTNELAGERVDIVLWSDDPAQFVIGALAPANVTSIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+   ++V+V +E L++AIGR GQNVRLAS LTGW I+I+   E +  +  + +   + F
Sbjct: 302 EEKHAMDVVVDEENLAIAIGRGGQNVRLASDLTGWKINIMDAAESAQKQANETDAARRLF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+ ++VDE IA++L+ EGFA +EE+A V + E+  IE FDE+T  E++ RA++ L  ++I
Sbjct: 362 MEKLDVDEEIANILIEEGFASLEEVAYVPLQEMLEIESFDEDTVNELRARAKDALLTMEI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++ +    VS++L  + G+  ++   L E G+ T +DLA  ++D+L   +        
Sbjct: 422 VREESVE--SVSQDLRDLEGLTPELIAKLAEGGVHTRDDLADLAIDELTELT-------- 471

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                    G   +   ++I+ AR    W   ++
Sbjct: 472 ---------GQSAEDATALIMKAREH--WFTGQE 494


>gi|293604237|ref|ZP_06686645.1| N utilization substance A [Achromobacter piechaudii ATCC 43553]
 gi|292817462|gb|EFF76535.1| N utilization substance A [Achromobacter piechaudii ATCC 43553]
          Length = 492

 Score =  574 bits (1481), Expect = e-161,   Method: Composition-based stats.
 Identities = 206/511 (40%), Positives = 310/511 (60%), Gaps = 25/511 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++ RDVV   +  ++  A +  +   +DIRV I+ ETGD   FR   
Sbjct: 4   EILLLVDALAREKNVTRDVVFGALESALASAMKKRFKDDADIRVAIDRETGDHEGFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    Q  L  A++  P I  G  + +PL P++FGR+  Q+AKQ I+QK+R+
Sbjct: 64  VVPDEAGLQEPDKQEMLSDAQEIVPDIQEGEYIEEPLEPIEFGRIGAQAAKQAILQKIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F D+   I+SGT+KR++ G+ IV+ G  +  + R E I +ENLR  DRV++
Sbjct: 124 AEREQVLNDFLDRGETIVSGTIKRMDKGDAIVETGKIEARLPRSEMIPKENLRVADRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+  V    RG QV+LSRT P+F+ +LF  EVPEI  G++++KA +RD G RAK+AV + 
Sbjct: 184 YVLRVDHAARGQQVILSRTSPEFIRQLFENEVPEIEQGLLEIKAAARDAGVRAKIAVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVGMRGSRV AV  EL  E++DIV+WS D A FVI AL PA V  +V+DED
Sbjct: 244 DKRIDPIGTCVGMRGSRVTAVRNELGGEQVDIVLWSEDPAQFVIGALAPANVESIVVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L  AIG +GQNVRLAS+LTGW I+I+T EE    ++ + +     FM 
Sbjct: 304 KHAMDVVVDEENLPKAIGAKGQNVRLASELTGWQINIMTPEESLNRQEVERSGLRTTFMS 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RAR  L    I  
Sbjct: 364 KLDVDEEVADILIDEGFTGIEEIAYVPMQELLEIEAFDEDTINELRARARNALLTEAIAQ 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           +++   L  +++L  + G+  ++   L E  + T +DLA  + D+L   +          
Sbjct: 424 EER---LETAQDLLELEGMTQELAAKLAERQVHTRDDLAELATDELAEIA---------- 470

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G  + +   +I+ AR    W ++E
Sbjct: 471 -------GLTEQEASDLIMRARAH--WFDEE 492


>gi|301156201|emb|CBW15672.1| transcription termination/antitermination L factor [Haemophilus
           parainfluenzae T3T1]
          Length = 495

 Score =  574 bits (1480), Expect = e-161,   Method: Composition-based stats.
 Identities = 199/512 (38%), Positives = 320/512 (62%), Gaps = 20/512 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + R+ +   +  +I  + +  Y   +DIRV INP+TG+   FR 
Sbjct: 2   SKEILLAAEAVSNEKLLPREKIFEALESAIALSTKKKYDYETDIRVSINPKTGEFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV+  T +++L+ A+  DP++ +G  V D +  + F R+A+Q+A+QVI  K+REA
Sbjct: 62  WLVVDEVKVPTKEMTLEAAQFEDPNVQLGDYVEDQIESIAFDRIAMQTARQVISTKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F+ + G+I++GTVK+V   ++I+DLG  ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAKVVEQFRSEEGKIVTGTVKKVNRESIILDLGNKAEAVIMREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E +  Q+ ++R  P+ +++LF +EVPEI   +++++  +RDPGSRAK+AV S+
Sbjct: 182 VLYKVNPESKTAQLFVTRAKPEMLIELFRIEVPEIGEEMLEIRGAARDPGSRAKIAVKSN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A +VINA+ PA VT +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAITNELGGERVDIVLWDDNPAQYVINAMAPADVTSIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T E+ +   Q +  +    FM 
Sbjct: 302 NHSMDIAVNADNLAQAIGRNGQNVRLATQLTGWTLNVMTTEQLNEKHQAEDTKVLNLFMD 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLEGIDIT 423
            + +DE  A +LV EGF  +EE+A V +SE+ +I+G  DE+   E+QGRA++ +      
Sbjct: 362 KLGLDEDFAQILVDEGFTSLEEVAYVPVSELTAIDGLEDEDLIEELQGRAKDAITAAAAA 421

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            ++ +++  + + L ++ G++  I   L E  I T+E+LA   VDDL    E        
Sbjct: 422 EEEALKKANIEDRLLNLEGMNRHIAFKLAEKQITTLEELAEQGVDDLADIEE-------- 473

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                       +Q    I+ AR  + W  +E
Sbjct: 474 ---------LTAEQAADFIMAAR-NICWFSEE 495


>gi|315126157|ref|YP_004068160.1| transcription elongation factor NusA [Pseudoalteromonas sp. SM9913]
 gi|315014671|gb|ADT68009.1| transcription elongation factor NusA [Pseudoalteromonas sp. SM9913]
          Length = 499

 Score =  574 bits (1480), Expect = e-161,   Method: Composition-based stats.
 Identities = 189/515 (36%), Positives = 318/515 (61%), Gaps = 24/515 (4%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
            E+L +A+AV+ EK++ ++ +   +  ++  A +  +    D+RV I+ +TGD   FR  
Sbjct: 3   KEILLVAEAVSNEKAVPKEKIFEALEFALATATKKKHDGEIDVRVAIDRKTGDYDTFRRW 62

Query: 67  EVVEEVEN-----YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++ E +E+        +I+L+ A+  +P + +G  V + +  + F R+  Q AKQVI+QK
Sbjct: 63  QIAEVLEDGSLENPYSEITLEAAQVEEPDLKMGDYVEEQIESIKFDRITTQMAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGD 180
           VREAER      +KD+ GE+++G VK+     +++DLGN ++ VI RD+ + REN RPGD
Sbjct: 123 VREAERALVVEAYKDQEGELVTGVVKKATRDAIVLDLGNNAEAVIYRDDMLPRENFRPGD 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R++  +Y+V+ E RG Q+ ++R+ P+ +++LF +EVPEI   +++++A +RDPGSRAK+A
Sbjct: 183 RIRGLLYEVKPEARGAQLFVTRSKPEMLMELFRIEVPEIGEEMIELRAAARDPGSRAKIA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDPVGACVGMRG+RVQAV +EL  E++DIV++  + A FVINA+ PA V  +V
Sbjct: 243 VKSNDKRIDPVGACVGMRGARVQAVSSELGGERVDIVLYDDNPAQFVINAMAPAEVASIV 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V  + L+ AIGR GQNVRLASQLTGW ++++T +E     + + ++   
Sbjct: 303 MDEDTHSMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVDEMRAKNEAESDKLIN 362

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F + +++D+  A LL+ EGF+ +EE+A V  SE   I+G DEET   ++ RA++ L   
Sbjct: 363 LFTENLDIDDEFASLLINEGFSTLEEVAYVPASEFLEIDGLDEETVDVLRSRAKDALTTK 422

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  ++ +     +E+L ++ G++  +   +   G+ T+EDLA   +D+L+  +E     
Sbjct: 423 ALKTEESLEGAEPAEDLLALEGLERHLAFVMASKGVVTLEDLAEQGIDELVDITE----- 477

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                          ++   +I+ AR  + W   E
Sbjct: 478 ------------LSSEKAGELIMAAR-NICWFADE 499


>gi|88705684|ref|ZP_01103394.1| Transcription elongation protein nusA [Congregibacter litoralis
           KT71]
 gi|88700197|gb|EAQ97306.1| Transcription elongation protein nusA [Congregibacter litoralis
           KT71]
          Length = 497

 Score =  574 bits (1480), Expect = e-161,   Method: Composition-based stats.
 Identities = 207/512 (40%), Positives = 326/512 (63%), Gaps = 22/512 (4%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
            E+L +A+AV+ EK +  D++   +  ++  A +  Y   +DI V I+ ETGD    R  
Sbjct: 3   KEILLVAEAVSNEKGVSEDIIFEAIESALAMATKKRYDEDADIEVTIDRETGDYETVRRW 62

Query: 67  EVVEEVEN--YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
            VV + E      Q + + A ++DPS+  G V  + +  + FGR+A Q+AKQVI+QKVR+
Sbjct: 63  LVVPDDELALLGTQFTTEEAIEQDPSLKPGDVHEEKVENVGFGRIAAQTAKQVIVQKVRD 122

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVK 183
           AER +    ++ +VGE+++GTVK+V   NVIVDLGN ++G++ R++ + RE  R  DRV+
Sbjct: 123 AERAQVVELYESRVGELVAGTVKKVTRDNVIVDLGNNAEGLLPREQLVGRETFRINDRVR 182

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           + + ++  E RGPQ++LSR  P+ +++LF +EVPEI   ++Q+++ +RDPGSRAK+AV +
Sbjct: 183 AILKEISTETRGPQLILSRACPEMLIELFKIEVPEISEEVIQIRSAARDPGSRAKIAVKT 242

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  IDPVGACVGMRGSRVQAV  EL +E++DIV+W  + A  VINA+ PA V  +V+DE
Sbjct: 243 NDQRIDPVGACVGMRGSRVQAVSNELDNERVDIVLWDDNPAQLVINAMSPAEVESIVVDE 302

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           +   ++V V ++ L+ AIGR GQNVRLAS+LTGWTI++++ +E    ++ +  +  Q FM
Sbjct: 303 ENVTMDVAVAEDNLAQAIGRAGQNVRLASELTGWTINVMSVDEALEKQEAEAGQVIQTFM 362

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
             ++VDE +A +LV EGF  +EE+A V + E+ SI+GFDE+ A E++ RA++ L  + I 
Sbjct: 363 DKLDVDEDVAGILVDEGFTTLEEVAYVPLEEMTSIDGFDEDIAEELRARAKDALLTLAIA 422

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            ++++     +E+L ++ G+D  +   L   GI TMEDLA   VD+L+            
Sbjct: 423 SEEELGAQEPAEDLLTMDGMDRHLAFILSSRGIVTMEDLAEQGVDELMDIE--------- 473

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                      +++   +I+ AR    W E+E
Sbjct: 474 --------DMTEERAGELIMTARAP--WFEEE 495


>gi|332992817|gb|AEF02872.1| transcription elongation factor NusA [Alteromonas sp. SN2]
          Length = 497

 Score =  574 bits (1480), Expect = e-161,   Method: Composition-based stats.
 Identities = 206/514 (40%), Positives = 314/514 (61%), Gaps = 22/514 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK + R+ +   +  +I  A +       ++RV I+  +GD   FR 
Sbjct: 2   NKEILLVAEAVSNEKQVPREKIFEALEFAIASATKKKNEGDIEVRVSIDRTSGDFDTFRR 61

Query: 66  LEVVEEV---ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             ++ +    EN   +I+L  A+  +P + +G  V D +  + F R+  Q+AKQVI+QKV
Sbjct: 62  WLIIPDDQEQENPFAEITLSAAQVEEPELQLGDYVEDQIESIKFDRITTQTAKQVIVQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDR 181
           REAER +   E++DKVGE+++GTVK+V   N+I+DLGN ++GVI RD+ + RE  RPGDR
Sbjct: 122 REAERAQMIAEYEDKVGELVTGTVKKVNRDNIIIDLGNNAEGVIYRDDMLPRETFRPGDR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+  +Y +R E RG Q+ +SRTHP  +V+LF +EVPEI    +++KA +RDPGSRAK+AV
Sbjct: 182 VRGLLYVIRPEARGAQLFISRTHPDMLVELFRLEVPEIAEETLEIKAAARDPGSRAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  +DPVGACVGMRGSRVQAV  EL  E++DIV+W  +SA FVINA+ PA V  +V+
Sbjct: 242 KTNDKRLDPVGACVGMRGSRVQAVSGELGGERVDIVLWDENSAQFVINAMAPAEVASIVV 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   ++V V  + L+ AIGR GQNVRLASQLTGW ++++T E+ +   +++  +    
Sbjct: 302 DEDSHMMDVAVEADNLAQAIGRSGQNVRLASQLTGWELNVMTVEDLNKKHEEENAKVLNI 361

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F   ++VDE  A +LV EGF  +EE+A V  SE+ +I+G DE+T  E++ RAR +L    
Sbjct: 362 FTAGLDVDEEFAAMLVDEGFTTLEEVAYVPASELLAIDGLDEDTVEELRNRARAFLTTRA 421

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           +  ++ +     +E L  + G+   +   L   GI  +E+LA    D++    E      
Sbjct: 422 LANEESLEGAEPTEALLGLEGMSKHVAYVLASRGITDLEELAEQGTDEISDIDE------ 475

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                        +    ++I+ AR  + W  +E
Sbjct: 476 -----------LDEATAGALIMAAR-NIVWFNEE 497


>gi|145637799|ref|ZP_01793448.1| transcription elongation factor NusA [Haemophilus influenzae
           PittHH]
 gi|145268992|gb|EDK08946.1| transcription elongation factor NusA [Haemophilus influenzae
           PittHH]
          Length = 495

 Score =  574 bits (1480), Expect = e-161,   Method: Composition-based stats.
 Identities = 195/512 (38%), Positives = 323/512 (63%), Gaps = 20/512 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + R+ +   +  +I  + +  +   +DIRV INP+TG+   FR 
Sbjct: 2   SKEILLAAEAVSNEKLLPREKIFEALESAIAISTKKKFEYETDIRVSINPKTGEFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV+  T +I+L+ A+  DP++ +G  V D +  + F R+A+Q+A+QVI  K+REA
Sbjct: 62  WLVVDEVKVPTKEITLEAAQFDDPNLQLGEYVEDQIESIAFDRIAMQTARQVISTKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F+++ G+I++GTVK+V   ++I+DLG  ++ +I R++ + REN RPGDRV+ 
Sbjct: 122 ERAKVVEQFREEEGKIVTGTVKKVSRDSIILDLGNKAEAMITREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E +  Q+ ++R+ P+ +++LF +EVPEI   +++++  +RD GSRAK+AV S+
Sbjct: 182 VLYKVNPEGKTAQLFVTRSKPEMLIELFRIEVPEIGEEMIEIRGAARDAGSRAKIAVKSN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T +E +   Q + N+    F+ 
Sbjct: 302 NHSMDIAVEADNLAQAIGRNGQNVRLATQLTGWTLNVMTTDELNAKHQAEDNKVLNLFIN 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLEGIDIT 423
           A+ +DE  A +LV EGF  +EE+A V ++E+ +I+G  DE+   E+Q RA+  +    + 
Sbjct: 362 ALELDEEFAQILVEEGFTSLEEIAYVPMNELTAIDGLEDEDLVEELQTRAKNAITAAAVA 421

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            ++ +++  + + L ++ G++  +   L E  I T+E+LA   VDDL    E        
Sbjct: 422 EEEALKKANIEDRLLNLDGMNRHVAFRLAEKQITTLEELAEQGVDDLADIEE-------- 473

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                       +Q   +I+ AR  + W  +E
Sbjct: 474 ---------LTAEQAADLIMAAR-NICWFGEE 495


>gi|90409004|ref|ZP_01217134.1| transcription elongation factor NusA [Psychromonas sp. CNPT3]
 gi|90309889|gb|EAS38044.1| transcription elongation factor NusA [Psychromonas sp. CNPT3]
          Length = 500

 Score =  573 bits (1479), Expect = e-161,   Method: Composition-based stats.
 Identities = 199/515 (38%), Positives = 315/515 (61%), Gaps = 22/515 (4%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  E+L + +AV+ EK + R+ +   +  ++  A +  Y    ++RVEI+ ETG    FR
Sbjct: 2   NNKEILLVVEAVSNEKGLPREAIFEALESALAIATKKKYEMEIEVRVEIDRETGTFETFR 61

Query: 65  LLEV---VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
              V     E+EN   +++ + A    P I IG  + D +P + F R+  Q+AKQVI+QK
Sbjct: 62  RWLVLAPDAEMENSCAEMTYEAAVYDQPEIQIGEFIEDDIPSVTFDRITTQTAKQVIVQK 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGD 180
           VREAER +   ++ ++ GE+++G VKR+   ++++DLG N++ VI RDE + REN RPGD
Sbjct: 122 VREAERAQVVEQYIEQKGELVTGVVKRMTRDSILLDLGGNAEAVIFRDEMLPRENFRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R++  +YDVR E RG Q+ ++RT P+ +++LF +EVPEI   ++ + A +RDPGSRAK+A
Sbjct: 182 RLRGLLYDVRPEARGAQLFMTRTQPEMLIELFRLEVPEIAEEMIDLMAAARDPGSRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDP+GACVGMRG+RVQA+ +EL  E++DI++W  +SA F INA+ PA V  +V
Sbjct: 242 VKSNDQRIDPIGACVGMRGARVQAISSELGGERVDIILWDDNSAQFAINAMSPAEVVSIV 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V +E L+ AIGR GQN+RLASQLTGW ++++T  +     Q + +    
Sbjct: 302 VDEDSHSMDIAVEEENLAQAIGRNGQNIRLASQLTGWELNVMTVAQLQEKHQAEADSVIG 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F +A+ +D   A +LV EGF  +EE+A V ++E+  I+G DE    E++ RA+  L   
Sbjct: 362 VFTKALEIDADFAAVLVDEGFTSLEEIAYVPVTELLEIDGLDENMVDELRTRAKNVLATK 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  ++ I     +E+L ++ G+D+ +       GI T+EDLA  +VDDL+   E     
Sbjct: 422 ALAAEENIEGAKPAEDLLALEGLDAHLAYVFASKGIITLEDLAEQAVDDLIDIEE----- 476

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                         +++  ++I+ AR  + W   E
Sbjct: 477 ------------LNEEKAGTLIMAAR-NICWFSNE 498


>gi|68250159|ref|YP_249271.1| transcription elongation factor NusA [Haemophilus influenzae
           86-028NP]
 gi|145629346|ref|ZP_01785145.1| transcription elongation factor NusA [Haemophilus influenzae
           22.1-21]
 gi|145638849|ref|ZP_01794457.1| transcription elongation factor NusA [Haemophilus influenzae
           PittII]
 gi|68058358|gb|AAX88611.1| transcription elongation protein NusA [Haemophilus influenzae
           86-028NP]
 gi|144978849|gb|EDJ88572.1| transcription elongation factor NusA [Haemophilus influenzae
           22.1-21]
 gi|145271821|gb|EDK11730.1| transcription elongation factor NusA [Haemophilus influenzae
           PittII]
 gi|309750830|gb|ADO80814.1| Transcription elongation factor NusA [Haemophilus influenzae R2866]
          Length = 495

 Score =  573 bits (1479), Expect = e-161,   Method: Composition-based stats.
 Identities = 196/512 (38%), Positives = 324/512 (63%), Gaps = 20/512 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + R+ +   +  +I  + +  +   +DIRV INP+TG+   FR 
Sbjct: 2   SKEILLAAEAVSNEKLLPREKIFEALESAIAISTKKKFEYETDIRVSINPKTGEFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV+  T +I+L+ A+  DP++ +G  V D +  + F R+A+Q+A+QVI  K+REA
Sbjct: 62  WLVVDEVKVPTKEITLEAAQFDDPNLQLGEYVEDQIESIAFDRIAMQTARQVISTKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F+++ G+I++GTVK+V   ++I+DLG  ++ +I R++ + REN RPGDRV+ 
Sbjct: 122 ERAKVVEQFREEEGKIVTGTVKKVSRDSIILDLGNKAEAMIAREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E +  Q+ ++R+ P+ +++LF +EVPEI   +++++  +RD GSRAK+AV S+
Sbjct: 182 VLYKVNPEGKTAQLFVTRSKPEMLIELFRIEVPEIGEEMIEIRGAARDAGSRAKIAVKSN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T +E +   Q + N+    F+ 
Sbjct: 302 NHSMDIAVEADNLAQAIGRNGQNVRLATQLTGWTLNVMTTDELNAKHQAEDNKVLNLFIN 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLEGIDIT 423
           A+ +DE  A +LV EGF  +EE+A V ++E+ +I+G  DE+   E+Q RA+  +    + 
Sbjct: 362 ALELDEEFAQILVEEGFTSLEEIAYVPMNELTAIDGLEDEDLVEELQTRAKNAITAAAVA 421

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            ++ +++  V + L ++ G++  + + L E  I T+E+LA   VDDL    E        
Sbjct: 422 EEEALKKANVEDRLLNLEGMNRHVAIKLAEKQITTLEELAEQGVDDLTDIEE-------- 473

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                       +Q   +I+ AR  + W  +E
Sbjct: 474 ---------LTAEQAADLIMAAR-NICWFGEE 495


>gi|167035704|ref|YP_001670935.1| transcription elongation factor NusA [Pseudomonas putida GB-1]
 gi|325276164|ref|ZP_08141969.1| transcription elongation factor NusA [Pseudomonas sp. TJI-51]
 gi|166862192|gb|ABZ00600.1| NusA antitermination factor [Pseudomonas putida GB-1]
 gi|324098701|gb|EGB96742.1| transcription elongation factor NusA [Pseudomonas sp. TJI-51]
          Length = 493

 Score =  573 bits (1478), Expect = e-161,   Method: Composition-based stats.
 Identities = 208/511 (40%), Positives = 319/511 (62%), Gaps = 22/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + ++V+ EK +   V+   +  ++  A +  +    D+RVEIN  TG    FR 
Sbjct: 2   SKEVLLVVESVSNEKGVPPGVIFEALEVALATATKKRFEDEVDLRVEINRHTGSYETFRR 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV+E  +++   +  L   +D  P   +G V+ + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WTVVDEADLDDPAIETWLDKIKDTHPEAKVGDVIEEKIESIEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +    ++++VGEIISGTVK+V   NVIVDLGN ++ ++ R++ I RE  R G R+
Sbjct: 122 EAERAQVVDAYRERVGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIIPRETFRVGVRL 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R E RGPQ++LSRT PQ +++LF +EVPEI  G+++V A SRDPGSRAK+AV 
Sbjct: 182 RALLKEIRTENRGPQLILSRTAPQMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVR 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 242 SKDKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V ++ L+ AIGR GQNVRLASQLTGWT++++TE++    +Q +  +  + F
Sbjct: 302 EDAHAMDIAVAEDNLAQAIGRGGQNVRLASQLTGWTLNVMTEKDIQAKQQAETGDILRNF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           +  + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L    I
Sbjct: 362 IDELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDIVNELRARAKDRLLTKAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ +   +E+L S+ G+D  +   L   G+   EDLA  S                
Sbjct: 422 ATEEKLADAHPAEDLLSLEGMDKDLAAELAVRGVVNREDLAEQS---------------- 465

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
             D  L   G  +++   +I+ AR    W E
Sbjct: 466 -IDDLLDIDGIDEERAGKLIMAARAH--WFE 493


>gi|1075364|pir||D64114 transcription termination-antitermination factor nusA - Haemophilus
           influenzae (strain Rd KW20)
          Length = 507

 Score =  573 bits (1478), Expect = e-161,   Method: Composition-based stats.
 Identities = 195/512 (38%), Positives = 323/512 (63%), Gaps = 20/512 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + R+ +   +  +I  + +  +   +DIRV INP+TG+   FR 
Sbjct: 14  SKEILLAAEAVSNEKLLPREKIFEALESAIAISTKKKFEYETDIRVSINPKTGEFDTFRR 73

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV+  T +I+L+ A+  DP++ +G  V D +  + F R+A+Q+A+QVI  K+REA
Sbjct: 74  WLVVDEVKVPTKEITLEAAQFDDPNLQLGEYVEDQIESIAFDRIAMQTARQVISTKIREA 133

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F+++ G+I++GTVK+V   ++I+DLG  ++ +I R++ + REN RPGDRV+ 
Sbjct: 134 ERAKVVEQFREEEGKIVTGTVKKVSRDSIILDLGNKAEAMIAREDMLPRENFRPGDRVRG 193

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E +  Q+ ++R+ P+ +++LF +EVPEI   +++++  +RD GSRAK+AV S+
Sbjct: 194 VLYKVNPEGKTAQLFVTRSKPEMLIELFRIEVPEIGEEMIEIRGAARDAGSRAKIAVKSN 253

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQ +  EL  E++DIV+W  + A FVINA+ PA V+ +++DED
Sbjct: 254 DKRIDPVGACVGMRGARVQVITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIIVDED 313

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T +E +   Q + N+    F+ 
Sbjct: 314 NHSMDIAVEADNLAQAIGRNGQNVRLATQLTGWTLNVMTTDELNAKHQAEDNKVLNLFIN 373

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLEGIDIT 423
           A+ +DE  A +LV EGF  +EE+A V ++E+ +I+G  DE+   E+Q RA+  +    + 
Sbjct: 374 ALELDEEFAQILVEEGFTSLEEIAYVPMNELTAIDGLEDEDLVEELQTRAKNAITAAAVA 433

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            ++ +++  V + L ++ G++  + + L E  I T+E+LA   VDDL    E        
Sbjct: 434 EEEALKKANVEDRLLNLEGMNRHVAIKLAEKQITTLEELAEQGVDDLTDIEE-------- 485

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                       +Q   +I+ AR  + W  +E
Sbjct: 486 ---------LTAEQAADLIMAAR-NICWFGEE 507


>gi|145630836|ref|ZP_01786614.1| transcription elongation factor NusA [Haemophilus influenzae R3021]
 gi|145633248|ref|ZP_01788979.1| transcription elongation factor NusA [Haemophilus influenzae 3655]
 gi|145634372|ref|ZP_01790082.1| transcription elongation factor NusA [Haemophilus influenzae
           PittAA]
 gi|145641320|ref|ZP_01796899.1| transcription elongation factor NusA [Haemophilus influenzae R3021]
 gi|148825866|ref|YP_001290619.1| transcription elongation factor NusA [Haemophilus influenzae
           PittEE]
 gi|229845094|ref|ZP_04465229.1| transcription elongation factor NusA [Haemophilus influenzae
           6P18H1]
 gi|229846821|ref|ZP_04466928.1| transcription elongation factor NusA [Haemophilus influenzae
           7P49H1]
 gi|144983718|gb|EDJ91178.1| transcription elongation factor NusA [Haemophilus influenzae R3021]
 gi|144986094|gb|EDJ92684.1| transcription elongation factor NusA [Haemophilus influenzae 3655]
 gi|145268352|gb|EDK08346.1| transcription elongation factor NusA [Haemophilus influenzae
           PittAA]
 gi|145273863|gb|EDK13730.1| transcription elongation factor NusA [Haemophilus influenzae
           22.4-21]
 gi|148716026|gb|ABQ98236.1| transcription elongation factor NusA [Haemophilus influenzae
           PittEE]
 gi|229810310|gb|EEP46029.1| transcription elongation factor NusA [Haemophilus influenzae
           7P49H1]
 gi|229811930|gb|EEP47624.1| transcription elongation factor NusA [Haemophilus influenzae
           6P18H1]
 gi|309973011|gb|ADO96212.1| Transcription elongation factor NusA [Haemophilus influenzae R2846]
          Length = 495

 Score =  573 bits (1477), Expect = e-161,   Method: Composition-based stats.
 Identities = 195/512 (38%), Positives = 323/512 (63%), Gaps = 20/512 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + R+ +   +  +I  + +  +   +DIRV INP+TG+   FR 
Sbjct: 2   SKEILLAAEAVSNEKLLPREKIFEALESAIAISTKKKFEYETDIRVSINPKTGEFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV+  T +I+L+ A+  DP++ +G  V D +  + F R+A+Q+A+QVI  K+REA
Sbjct: 62  WLVVDEVKVPTKEITLEAAQFDDPNLQLGEYVEDQIESIAFDRIAMQTARQVISTKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F+++ G+I++GTVK+V   ++I+DLG  ++ +I R++ + REN RPGDRV+ 
Sbjct: 122 ERAKVVEQFREEEGKIVTGTVKKVSRDSIILDLGNKAEAMIAREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E +  Q+ ++R+ P+ +++LF +EVPEI   +++++  +RD GSRAK+AV S+
Sbjct: 182 VLYKVNPEGKTAQLFVTRSKPEMLIELFRIEVPEIGEEMIEIRGAARDAGSRAKIAVKSN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T +E +   Q + N+    F+ 
Sbjct: 302 NHSMDIAVEADNLAQAIGRNGQNVRLATQLTGWTLNVMTTDELNAKHQAEDNKVLNLFIN 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLEGIDIT 423
           A+ +DE  A +LV EGF  +EE+A V ++E+ +I+G  DE+   E+Q RA+  +    + 
Sbjct: 362 ALELDEEFAQILVEEGFTSLEEIAYVPMNELTAIDGLEDEDLVEELQTRAKNAITAAAVA 421

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            ++ +++  + + L ++ G++  +   L E  I T+E+LA   VDDL    E        
Sbjct: 422 EEEALKKANIEDRLLNLDGMNRHVAFRLAEKQITTLEELAEQGVDDLADIEE-------- 473

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                       +Q   +I+ AR  + W  +E
Sbjct: 474 ---------LTAEQAADLIMAAR-NICWFGEE 495


>gi|325578298|ref|ZP_08148433.1| N utilization substance A [Haemophilus parainfluenzae ATCC 33392]
 gi|325160034|gb|EGC72163.1| N utilization substance A [Haemophilus parainfluenzae ATCC 33392]
          Length = 495

 Score =  573 bits (1477), Expect = e-161,   Method: Composition-based stats.
 Identities = 200/512 (39%), Positives = 321/512 (62%), Gaps = 20/512 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + R+ +   +  +I  + +  Y   +DIRV INP+TG+   FR 
Sbjct: 2   SKEILLAAEAVSNEKLLPREKIFEALESAIALSTKKKYDYETDIRVSINPKTGEFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV+  T +++L+ A+  DP+I +G  V D +  + F R+A+Q+A+QVI  K+REA
Sbjct: 62  WLVVDEVKVPTKEMTLEAAQFEDPNIQLGDYVEDQIESIAFDRIAMQTARQVISTKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F+ + G+I++GTVK+V   ++I+DLG  ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAKVVEQFRSEEGKIVTGTVKKVNRESIILDLGNKAEAVIMREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E +  Q+ ++R  P+ +++LF +EVPEI   +++++  +RDPGSRAK+AV S+
Sbjct: 182 VLYKVNPESKTAQLFVTRAKPEMLIELFRIEVPEIGEEMLEIRGAARDPGSRAKIAVKSN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A +VINA+ PA VT +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAITNELGGERVDIVLWDDNPAQYVINAMAPADVTSIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T E+ +   Q +  +    FM 
Sbjct: 302 NHSMDIAVNADNLAQAIGRNGQNVRLATQLTGWTLNVMTTEQLNEKHQAEDTKVLNLFMD 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLEGIDIT 423
            + +DE  A +LV EGF  +EE+A V +SE+++I+G  DE+   E+QGRA++ +      
Sbjct: 362 KLGLDEEFAQILVDEGFTSLEEVAYVPVSELSAIDGLEDEDLIEELQGRAKDAITAAAAA 421

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            ++ +++  + + L ++ G++  I   L E  I T+E+LA   VDDL    E        
Sbjct: 422 EEEALKKANIEDRLLNLEGMNRHIAFKLAEKQITTLEELAEQGVDDLADIEE-------- 473

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                       +Q    I+ AR  + W  +E
Sbjct: 474 ---------LTAEQAADFIMAAR-NICWFSEE 495


>gi|33592374|ref|NP_880018.1| transcription elongation factor NusA [Bordetella pertussis Tohama
           I]
 gi|33602223|ref|NP_889783.1| transcription elongation factor NusA [Bordetella bronchiseptica
           RB50]
 gi|33572019|emb|CAE41542.1| N utilization substance protein A [Bordetella pertussis Tohama I]
 gi|33576661|emb|CAE33739.1| N utilization substance protein A [Bordetella bronchiseptica RB50]
 gi|332381790|gb|AEE66637.1| transcription elongation factor NusA [Bordetella pertussis CS]
          Length = 492

 Score =  573 bits (1477), Expect = e-161,   Method: Composition-based stats.
 Identities = 207/511 (40%), Positives = 313/511 (61%), Gaps = 25/511 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++ R+VV   +  ++  A +  +   +DIRV I+ ETG    FR   
Sbjct: 4   EILLLVDALAREKNVTREVVFGALESALASAMKKRFKDDADIRVSIDRETGGHEGFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    Q  L  AR+  P I++G  + + L P++FGR+  Q+AKQ I+QK+R+
Sbjct: 64  VVPDEAGLQEPDKQELLSEAREMAPDIEVGEYIEEALEPVEFGRIGAQAAKQAILQKIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F D+   IISG++KR++ G+VI++ G  +  + R E I +ENLR GDRV++
Sbjct: 124 AEREQVLNDFLDRGETIISGSIKRMDKGDVIIETGKIEARLPRSEMIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           ++  V    RG QV+LSRT P+F+ +LF  EVPEI  G++++KA +RDPG RAK+AV + 
Sbjct: 184 FVLRVDHAARGQQVILSRTSPEFIRQLFENEVPEIEQGLLEIKAAARDPGVRAKIAVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVGMRGSRV AV  EL  E++DIV+WS D A FVI AL PA V  +V+DED
Sbjct: 244 DKRIDPIGTCVGMRGSRVTAVRNELGGEQVDIVLWSEDPAQFVIGALAPANVESIVVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L  AIG +GQNVRLAS+LTGW I+I+T EE    ++ +       FM 
Sbjct: 304 KHAMDVVVDEENLPKAIGAKGQNVRLASELTGWQINIMTPEESLNRQETERAALRATFMS 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RAR  L    I  
Sbjct: 364 KLDVDEEVADILIDEGFTGIEEIAYVPMQELLEIEAFDEDTINELRARARNALLTEAIAQ 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           +++   L  +++L  + GI  ++   L E  + T +DLA  S D+L   +          
Sbjct: 424 EER---LETAQDLLELEGITPELAAKLAERQVHTRDDLAELSTDELAEIA---------- 470

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G  +++   +I+ AR    W ++E
Sbjct: 471 -------GLQEEEASDLIMRARAH--WFDEE 492


>gi|311104987|ref|YP_003977840.1| transcription elongation protein NusA [Achromobacter xylosoxidans
           A8]
 gi|310759676|gb|ADP15125.1| transcription elongation protein NusA [Achromobacter xylosoxidans
           A8]
          Length = 492

 Score =  573 bits (1477), Expect = e-161,   Method: Composition-based stats.
 Identities = 204/511 (39%), Positives = 309/511 (60%), Gaps = 25/511 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++ RDVV   +  ++  A +  +   +DIRV I+ +TGD   FR   
Sbjct: 4   EILLLVDALAREKNVTRDVVFGALESALASAMKKRFKDDADIRVAIDRDTGDHEGFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    Q  L  A++  P I  G  + +PL P++FGR+  Q+AKQ I+QK+R+
Sbjct: 64  VVPDEAGLQEPDKQEMLSDAQEIVPGIQEGEYIEEPLEPIEFGRIGAQAAKQAILQKIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F D+   I+SGT+KR++ G+ IV+ G  +  + R E I +ENLR  DRV++
Sbjct: 124 AEREQVLNDFLDRGESIVSGTIKRMDKGDAIVETGKIEARLPRSEMIPKENLRVADRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           ++  V    RG QV+LSRT P F+ +LF  EVPEI  G++++KA +RD G RAK+AV + 
Sbjct: 184 FVLRVDHAARGQQVILSRTAPDFIRQLFENEVPEIEQGLLEIKAAARDAGVRAKIAVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVGMRGSRV AV  EL  E++DIV+WS D A FVI AL PA V  +V+DED
Sbjct: 244 DKRIDPIGTCVGMRGSRVTAVRNELGGEQVDIVLWSEDPAQFVIGALAPANVESIVVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L  AIG +GQNVRLAS+LTGW I+I+T EE    ++ + +     FM 
Sbjct: 304 KHAMDVVVDEENLPKAIGAKGQNVRLASELTGWQINIMTPEESLNRQEVERSGLRATFMS 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RAR  L    I  
Sbjct: 364 KLDVDEEVADILIDEGFTGIEEIAYVPMQELLEIEAFDEDTINELRARARNALLTEAIAQ 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           +++   L  +++L  + G+  ++   L E  + T +DLA  + D+L   +          
Sbjct: 424 EER---LETAQDLLELEGMTPELAAKLAERQVHTRDDLAELATDELAEIA---------- 470

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G  + +   +I+ AR    W ++E
Sbjct: 471 -------GLTEQEASDLIMRARAH--WFDEE 492


>gi|296135767|ref|YP_003643009.1| transcription termination factor NusA [Thiomonas intermedia K12]
 gi|294339930|emb|CAZ88293.1| transcription pausing; L factor [Thiomonas sp. 3As]
 gi|295795889|gb|ADG30679.1| transcription termination factor NusA [Thiomonas intermedia K12]
          Length = 492

 Score =  573 bits (1477), Expect = e-161,   Method: Composition-based stats.
 Identities = 206/509 (40%), Positives = 325/509 (63%), Gaps = 24/509 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++DRDVV   +  ++  A + LY   +D+RV+I+  TG+   FR   
Sbjct: 4   EILMLVDALAREKNVDRDVVFGAVEAALASATKRLYEGEADVRVQIDRNTGEYESFRRWH 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P I++G  + +P+  + FGR+  Q+AKQVI+QK+R+
Sbjct: 64  VVPDEAGLQLPDSEILLFEAREQIPDIEVGDYIEEPIESIAFGRIGAQAAKQVILQKIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F  +  +I +G+VKR++ G++I++ G  D  +RR + I +ENLR GDRV++
Sbjct: 124 AEREQILNDFLARNDKIFNGSVKRLDKGDLIIESGKVDARLRRSDLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            I  + R  RGPQ+ +SRT P+FM++LF +EVPEI  G++++K+ +R+PG RAK+AV S 
Sbjct: 184 VITKIDRTARGPQIEISRTAPEFMIELFRLEVPEIEQGLMEIKSCAREPGVRAKIAVVSH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  +DP+G CVG+RGSRV AV  EL  E++DIV+WS D A FVI AL PA V+ +V+DE+
Sbjct: 244 DRRVDPIGTCVGIRGSRVTAVTNELGGERVDIVLWSEDPAQFVIGALAPANVSSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V V +E L+LAIGR GQNVRLAS+LTGW I+I++ EE      ++  +    F++
Sbjct: 304 KHAMDVAVDEENLALAIGRTGQNVRLASELTGWKINILSAEESDARNTQETQKMRSLFVE 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VD+ +A +L+AEGF  +EELA V I+E+  IE FDE+T  E++ RAR  L   +I  
Sbjct: 364 KLDVDQEVADILIAEGFTSLEELAYVPINEMLEIEAFDEDTVNELRERARNALLTQEIAR 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+ E+  +  L ++ G+ +     L E G+ T++DL   + D+L G            
Sbjct: 424 EQKLDEVDPA--LKALDGLSADELALLAEAGVLTLDDLGDLATDELTGI----------- 470

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                 L T + +   +I+ AR    W +
Sbjct: 471 ------LRTDEARAADLILKARAH--WFD 491


>gi|33596482|ref|NP_884125.1| transcription elongation factor NusA [Bordetella parapertussis
           12822]
 gi|33566251|emb|CAE37162.1| N utilization substance protein A [Bordetella parapertussis]
          Length = 492

 Score =  573 bits (1477), Expect = e-161,   Method: Composition-based stats.
 Identities = 206/511 (40%), Positives = 313/511 (61%), Gaps = 25/511 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++ R+VV   +  ++  A +  +   +DIRV I+ ETG    FR   
Sbjct: 4   EILLLVDALAREKNVTREVVFGALESALASAMKKRFKDDADIRVSIDRETGGHEGFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    Q  L  AR+  P I++G  + + L P++FGR+  Q+AKQ I+QK+R+
Sbjct: 64  VVPDEAGLQEPDKQELLSEAREMAPDIEVGEYIEEALEPVEFGRIGAQAAKQAILQKIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F D+   IISG++KR++ G+VI++ G  +  + R E I +ENLR GDRV++
Sbjct: 124 AEREQVLNDFLDRGETIISGSIKRMDKGDVIIETGKIEARLPRSEMIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           ++  V    RG Q++LSRT P+F+ +LF  EVPEI  G++++KA +RDPG RAK+AV + 
Sbjct: 184 FVLRVDHAARGQQLILSRTSPEFIRQLFENEVPEIEQGLLEIKATARDPGVRAKIAVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVGMRGSRV AV  EL  E++DIV+WS D A FVI AL PA V  +V+DED
Sbjct: 244 DKRIDPIGTCVGMRGSRVTAVRNELGGEQVDIVLWSEDPAQFVIGALAPANVESIVVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L  AIG +GQNVRLAS+LTGW I+I+T EE    ++ +       FM 
Sbjct: 304 KHAMDVVVDEENLPKAIGAKGQNVRLASELTGWQINIMTPEESLNRQETERAALRATFMS 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RAR  L    I  
Sbjct: 364 KLDVDEEVADILIDEGFTGIEEIAYVPMQELLEIEAFDEDTINELRARARNALLTEAIAQ 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           +++   L  +++L  + GI  ++   L E  + T +DLA  S D+L   +          
Sbjct: 424 EER---LETAQDLLELEGITPELAAKLAERQVHTRDDLAELSTDELAEIA---------- 470

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G  +++   +I+ AR    W ++E
Sbjct: 471 -------GLQEEEASDLIMRARAH--WFDEE 492


>gi|229592637|ref|YP_002874756.1| transcription elongation factor NusA [Pseudomonas fluorescens
           SBW25]
 gi|229364503|emb|CAY52353.1| transcription termination factor [Pseudomonas fluorescens SBW25]
          Length = 493

 Score =  573 bits (1477), Expect = e-161,   Method: Composition-based stats.
 Identities = 210/511 (41%), Positives = 319/511 (62%), Gaps = 22/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + ++V+ EK +  +V+   +  ++  A +  +    D+RVEIN  TG    FR 
Sbjct: 2   SKEVLLVVESVSNEKGVPANVIFEALELALATATKKRFEDEVDLRVEINRHTGAYETFRR 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVEE  +++   +       +  P   +G VV + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WTVVEEADLDDPAIETWPSKVAETHPGAQVGDVVEEKIESIEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G R+
Sbjct: 122 EAERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRL 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV 
Sbjct: 182 RALLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVR 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 242 SKDKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F
Sbjct: 302 EDAHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           +  + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+T  E++ RA++ L    I
Sbjct: 362 IDELEVDEDLAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDTVNELRARAKDRLLTKAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S+DDLL           
Sbjct: 422 ATEEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLAEQSIDDLLDIDGIDDDR-- 479

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                             +I+ AR    W E
Sbjct: 480 ---------------AGKLIMAARAH--WFE 493


>gi|26991396|ref|NP_746821.1| transcription elongation factor NusA [Pseudomonas putida KT2440]
 gi|148549780|ref|YP_001269882.1| transcription elongation factor NusA [Pseudomonas putida F1]
 gi|24986465|gb|AAN70285.1|AE016669_3 N utilization substance protein A [Pseudomonas putida KT2440]
 gi|148513838|gb|ABQ80698.1| NusA antitermination factor [Pseudomonas putida F1]
 gi|313500621|gb|ADR61987.1| NusA [Pseudomonas putida BIRD-1]
          Length = 493

 Score =  573 bits (1477), Expect = e-161,   Method: Composition-based stats.
 Identities = 208/511 (40%), Positives = 320/511 (62%), Gaps = 22/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + ++V+ EK +   V+   +  ++  A +  +    D+RVEIN  TG    FR 
Sbjct: 2   SKEVLLVVESVSNEKGVPPGVIFEALEVALATATKKRFEDEVDLRVEINRHTGSYETFRR 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV+E  +++   +  L   +D  P   +G V+ + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WTVVDEADLDDPAIETWLDKIKDTHPEAKVGDVIEEKIESIEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +    ++++VGEIISGTVK+V   NVIVDLGN ++ ++ R++ I RE  R G R+
Sbjct: 122 EAERAQVVDAYRERVGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIIPRETFRVGVRL 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R E RGPQ++LSRT PQ +++LF +EVPEI  G+++V A SRDPGSRAK+AV 
Sbjct: 182 RALLKEIRTENRGPQLILSRTAPQMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVR 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 242 SKDKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V ++ L+ AIGR GQNVRLASQLTGWT++++TE++    +Q +  +  + F
Sbjct: 302 EDAHAMDIAVAEDNLAQAIGRGGQNVRLASQLTGWTLNVMTEKDIQAKQQAETGDILRNF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           ++ + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L    I
Sbjct: 362 IEELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDIVNELRARAKDRLLTKAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ +   +E+L S+ G+D  +   L   G+   EDLA  S                
Sbjct: 422 ATEEKLADAHPAEDLLSLEGMDKDLAAELAVRGVVNREDLAEQS---------------- 465

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
             D  L   G  +++   +I+ AR    W E
Sbjct: 466 -IDDLLDIDGIDEERAGKLIMAARAH--WFE 493


>gi|224825864|ref|ZP_03698968.1| NusA antitermination factor [Lutiella nitroferrum 2002]
 gi|224602088|gb|EEG08267.1| NusA antitermination factor [Lutiella nitroferrum 2002]
          Length = 493

 Score =  573 bits (1477), Expect = e-161,   Method: Composition-based stats.
 Identities = 221/511 (43%), Positives = 334/511 (65%), Gaps = 25/511 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS-DIRVEINPETGDISLFRLL 66
           E+L + DA+A EKS+ +DVV + +  ++  A +  +     DIRVEI+  TG    FR  
Sbjct: 4   EILLLVDALASEKSVSKDVVFTALELALASATKKKFNQDDVDIRVEIDRHTGQYHTFRRW 63

Query: 67  EVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
            VVE+  +E    +I L  AR+RDPSI++G V+ +P+  ++FGR+  Q+AKQVI+QK+R+
Sbjct: 64  TVVEDDMLEFDDKEIELADARERDPSIEVGAVIEEPMEAVEFGRIGAQAAKQVILQKIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   EF  +   ++SGTVKR+E GN I++ G  + V+ R++ I +ENLR GDRVK+
Sbjct: 124 AEREQLLSEFLQRREHLVSGTVKRIERGNAIIECGKLEAVLPREQMIPKENLRVGDRVKA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+  + R  RGPQ++LSRT  +F++KLF +EVPEI  G++++K  +RDPG RAK+AV ++
Sbjct: 184 YLMRIDRLGRGPQLVLSRTSREFLIKLFELEVPEIEEGLLEIKEAARDPGLRAKIAVKAN 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP G C+GMRGSRVQ+V  EL  E++DIV+W+P+ A FVINAL PA V ++++DED
Sbjct: 244 DPRIDPQGTCIGMRGSRVQSVTQELAGERVDIVLWAPEPAQFVINALSPAEVNRIMIDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V ++QL+LAIGR GQNVRLA++LTGW ++I+T  E     Q++     + FM+
Sbjct: 304 NHAMDVVVEEDQLALAIGRSGQNVRLAAELTGWYLNIMTVTEAEEKHQEEDAALRETFMK 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + VDE  A  LV EGFA +EE+A V I+E+  IEGF+EE   E++ RAR+ L  + I  
Sbjct: 364 HLGVDEATAMTLVQEGFATLEEVAYVPIAEMLEIEGFEEEQVNELRSRARDALLTLAIAS 423

Query: 425 QKKIRELGVSEELCSIPGI-DSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
           ++K+    VS++L  I G+ D+ +   L ENG+ T ++LA  +VDDL+  +         
Sbjct: 424 EEKVE--SVSDDLKGIEGLEDADLVRKLAENGVTTRDELADLAVDDLVDMT--------- 472

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                   G   +   ++I+ AR    W  +
Sbjct: 473 --------GMEAEAARAIIMKAREH--WFAQ 493


>gi|82702986|ref|YP_412552.1| transcription elongation factor NusA [Nitrosospira multiformis ATCC
           25196]
 gi|82411051|gb|ABB75160.1| NusA antitermination factor [Nitrosospira multiformis ATCC 25196]
          Length = 495

 Score =  573 bits (1477), Expect = e-161,   Method: Composition-based stats.
 Identities = 209/513 (40%), Positives = 331/513 (64%), Gaps = 23/513 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++++++V + +  ++  A +  +   +D+RV I+ +TGD    R  +
Sbjct: 4   EVLLLVDALAREKNVEKNIVFAALELALASATKKRFNEDADVRVSIDHQTGDYQSLRRWQ 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV +  VE+   QISL  A  ++P I +   + + L P++FGR+  Q+AKQVI QK+R+A
Sbjct: 64  VVADDAVEDPARQISLSEAFRQNPEIQLDEYIEEILEPVEFGRIGAQAAKQVIFQKIRDA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F ++   +++GT+KR+E GN I++ G  + V+ RD+ I +ENLR GDRV++Y
Sbjct: 124 EREQILNDFLERKEYMVTGTIKRMERGNAIIESGRVEAVLPRDQMIPKENLRVGDRVRAY 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           ++ + R  RGPQ++LSR  P+F++KLF +EVPEI  G++++K  +RDPGSRAK+AV S+D
Sbjct: 184 LHRIDRTTRGPQLILSRIVPEFLIKLFELEVPEIEEGLLEIKVAARDPGSRAKIAVKSND 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DP+G CVGMRGSRVQAV  EL  E++DI++WS D ATFVINAL PA ++ +++DE+ 
Sbjct: 244 QRVDPIGTCVGMRGSRVQAVTGELAGERVDIILWSDDPATFVINALAPAEISSILVDEEK 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++++V +  L+ AIGR GQNVRLAS+LTGW ++I+T EE     +++F+     FM+ 
Sbjct: 304 HSMDIVVDEGNLAQAIGRGGQNVRLASELTGWELNIMTMEESQAKNEEEFSVLRHLFMEK 363

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE +A +L  EGF  +EE+A V +SE+  IE FDE+T  E++ RAR  L    I  +
Sbjct: 364 LDVDEEVADILAQEGFTTLEEVAYVPLSEMMEIEAFDEQTVNELRNRARNALLTEAIVSE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFD 485
           +K+    ++E+L ++ G+DS+    L   G+ T EDLA  +VDDL+   E          
Sbjct: 424 EKVE--HIAEDLLALEGMDSQTARELAAKGVSTQEDLADLAVDDLVEMVE---------- 471

Query: 486 GFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
                     ++   +I+ AR    W      A
Sbjct: 472 -------MDTERARQLIMAARAP--WFAPADRA 495


>gi|227357076|ref|ZP_03841446.1| transcription elongation protein (N utilization substance protein
           A) [Proteus mirabilis ATCC 29906]
 gi|227162768|gb|EEI47731.1| transcription elongation protein (N utilization substance protein
           A) [Proteus mirabilis ATCC 29906]
          Length = 502

 Score =  573 bits (1477), Expect = e-161,   Method: Composition-based stats.
 Identities = 209/515 (40%), Positives = 321/515 (62%), Gaps = 26/515 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIDVRVCIDRKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV   T +I+L+ A+  +P I++GG + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVEEVTQPTREITLEAAKYEEPEIELGGFIEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F++++GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAMVVDQFREQLGEIITGVVKKVNRDNITLDLGNNAEAVILREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +YDVR E RG Q+ ++R+ P+ +++LF +EVPEI   I+++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYDVRTETRGAQLFVTRSRPEMLIELFRIEVPEIGEEIIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLT-------GWTIDIITEEEDSINRQKDFNE 357
              ++V V    L+ AIGR GQNVRLA+QL         W ++++T +E +   Q + N 
Sbjct: 302 KCTMDVAVESSNLAQAIGRNGQNVRLAAQLLKKHRGDDKWELNVMTADELNAKHQAEANA 361

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
             + F + +++DE  A +LV EGF+ +EEL  V I E+ +I+G DEET   ++ RA+  L
Sbjct: 362 AIEIFTKHLDIDEDFATVLVEEGFSTLEELVYVPIDELLAIDGLDEETVEALRERAKAAL 421

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
             I++  ++ + +   +E+L ++ G++  +   L   GI T+EDLA   +DDL       
Sbjct: 422 TTIELAQKESLGDNQPAEDLLALEGMERSLAFDLAARGICTLEDLAEQGIDDLTDID--- 478

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
                         G   ++   +I+ AR  + W 
Sbjct: 479 --------------GLNSERAGELIMAAR-NICWF 498


>gi|332141181|ref|YP_004426919.1| transcription elongation factor NusA [Alteromonas macleodii str.
           'Deep ecotype']
 gi|327551203|gb|AEA97921.1| transcription elongation factor NusA [Alteromonas macleodii str.
           'Deep ecotype']
          Length = 498

 Score =  573 bits (1477), Expect = e-161,   Method: Composition-based stats.
 Identities = 202/515 (39%), Positives = 315/515 (61%), Gaps = 22/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK + R+ +   +  +I  A +       ++RV I+  +GD   FR 
Sbjct: 2   NKEILLVAEAVSNEKQVPREKIFEALEFAIASATKKKNEGEIEVRVSIDRTSGDFDTFRR 61

Query: 66  LEVVEEV---ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             V+ +    EN   +I++  A+  +P I +G  V + +  + F R+  Q+AKQVI+QKV
Sbjct: 62  WLVIPDDQEQENPFAEITISAAQIDEPEIQLGDYVEEQIESIKFDRITTQTAKQVIVQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDR 181
           REAER +   E++DKVGE+++GTVK+V   N+I+DLGN ++GVI RD+ + RE  RPGDR
Sbjct: 122 REAERQQMIAEYEDKVGELVTGTVKKVNRDNIIIDLGNNAEGVIYRDDMLPRETFRPGDR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+  +Y +R E RG Q+ +SRTHP  +V+LF +EVPEI    +++K+ +RDPGSRAK+AV
Sbjct: 182 VRGLLYVIRPEARGAQLFISRTHPDMLVELFRLEVPEIAEETLEIKSAARDPGSRAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  +DPVGACVGMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +V+
Sbjct: 242 KTNDKRLDPVGACVGMRGSRVQAVSGELGGERVDIVLWDENPAQFVINAMAPAEVASIVV 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   ++V V  + L+ AIGR GQNVRLASQLTGW ++++T E+ +   +++  +    
Sbjct: 302 DEDSNNMDVAVEADNLAQAIGRSGQNVRLASQLTGWELNVMTVEDLNKKHEEENAKVLNL 361

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F   +++DE  A +LV EGF  +EE+A V  SE+ ++EG DE+   E++ RAR +L    
Sbjct: 362 FTAGLDIDEEFASVLVDEGFTTLEEVAYVPASELLAVEGLDEDMVEELRNRARAFLTTRA 421

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           +  ++ +     +E L ++ G+   +   L   G+  +E+LA    DD+    E      
Sbjct: 422 LANEESLEGAEPTEALLNLEGMSKHVAYVLASRGVIDLEELAEQGTDDISDIDE------ 475

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                        +++   +I+ AR  + W  +E+
Sbjct: 476 -----------LDEEKAGELIMAAR-NIVWFSEEE 498


>gi|90412484|ref|ZP_01220487.1| transcription elongation factor NusA [Photobacterium profundum
           3TCK]
 gi|90326521|gb|EAS42927.1| transcription elongation factor NusA [Photobacterium profundum
           3TCK]
          Length = 495

 Score =  572 bits (1476), Expect = e-161,   Method: Composition-based stats.
 Identities = 196/511 (38%), Positives = 315/511 (61%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  +    D+RV I+ +TG    FR 
Sbjct: 2   NKEILAVVEAVSNEKAVPRERIFEALEIALATATKKKHEAEIDVRVAIDRKTGQFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
              V+EV   T +++++ A+  D +I++GG V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WIAVDEVTQPTLEMTIEAAQYDDETIELGGFVEDEIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER++   +F D  GE+I+G VK+V    V++DLGN ++ VI+RD+ + REN R GDR++ 
Sbjct: 122 EREQIVEQFMDNEGELITGIVKKVNRDAVVIDLGNNAEAVIQRDDQLPRENFRSGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+  + +++LF +EVPEI   ++++   +RDPGSRAK+AV ++
Sbjct: 182 LLYAVRPEARGFQLFMTRSKAEMLLELFRIEVPEIGEELIELMGAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  ++A +VINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELAGERIDIVLWDENAAQYVINAMAPAEVASIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V K+ L+ AIGR GQN+RLASQLTGW ++++T E+     Q++       F +
Sbjct: 302 NHTMDIAVEKDNLAQAIGRSGQNIRLASQLTGWELNVMTVEDLQKKHQEEAQVSIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A LLV EGF  +EE+A V +SE+  +EG DE+   E++ RA+  L  + +  
Sbjct: 362 HLDIDEDFATLLVQEGFTTLEEIAYVPVSELMDVEGLDEDAINELRDRAKAALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++    +  + +L  + G++ ++   L   GI T+EDLA    DDLL   E         
Sbjct: 422 EESFEGVEPAADLLGLDGLERELAFKLAAKGICTLEDLADQGTDDLLDLEE--------- 472

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                     + +   +I+ AR  + W   E
Sbjct: 473 --------MDEAKAGELIMAAR-NICWFSDE 494


>gi|109898014|ref|YP_661269.1| NusA antitermination factor [Pseudoalteromonas atlantica T6c]
 gi|109700295|gb|ABG40215.1| NusA antitermination factor [Pseudoalteromonas atlantica T6c]
          Length = 497

 Score =  572 bits (1476), Expect = e-161,   Method: Composition-based stats.
 Identities = 202/514 (39%), Positives = 317/514 (61%), Gaps = 22/514 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK + R+ +   +  +I  A +       ++RV I+  TGD   FR 
Sbjct: 2   NKEILLVAEAVSNEKQVPREKIFEALEFAIASATKKKTEGEIEVRVAIDRITGDFDTFRR 61

Query: 66  LEVVEEV---ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             V+ +    EN   ++++  A+  +P I +G  V D +  + F R+  Q+AKQVI+QKV
Sbjct: 62  WMVIADDQKQENPFAEMTISAAQIDEPDIQLGDYVEDQIESIKFDRITTQTAKQVIVQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDR 181
           REAER +   E++++VG++++GTVK+V   N+I+DLGN ++GVI RD+ + RE  RPGDR
Sbjct: 122 REAERAQVMAEYEERVGDLVTGTVKKVNRDNIIIDLGNNAEGVIYRDDMLPRETFRPGDR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+  +Y +R E RG Q+ +SRTHP  +V+LF +EVPEI    +++KA +RDPGSRAK+AV
Sbjct: 182 VRGLLYVIRPEARGAQLFVSRTHPDMLVELFRLEVPEIAEETLEIKAAARDPGSRAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  +DPVGACVGMRGSRVQAV +EL  E++DIV+W  + A FVINA+ PA V  +V+
Sbjct: 242 KTNDKRLDPVGACVGMRGSRVQAVSSELSGERVDIVLWDDNPAQFVINAMAPAEVASIVV 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   ++V V  + L+ AIGR GQNVRLA+QLTGW ++++T E+ +    ++ ++    
Sbjct: 302 DEDNHTMDVAVESDNLAQAIGRSGQNVRLAAQLTGWELNVMTVEDLNNKHDEENSKVLAV 361

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F+  +++DE  A +LV EGF+ +EE+A V I+E+  I+G DE+   +++ RAR  L    
Sbjct: 362 FVNGLDIDEEFAAVLVDEGFSTLEEIAYVPINELLEIDGLDEDIVDDLRSRARAALTTQA 421

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           +  ++ +      EEL S+ G++  +   L   GI  +E LA   VD++    E      
Sbjct: 422 LANEETLEASEPKEELLSLAGMERHVAYTLASRGITDLEALAEQGVDEISDIEE------ 475

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                        +++   +I+ AR  + W  +E
Sbjct: 476 -----------LDEEKAGQLIMAAR-NIVWFNEE 497


>gi|332306994|ref|YP_004434845.1| NusA antitermination factor [Glaciecola agarilytica 4H-3-7+YE-5]
 gi|332174323|gb|AEE23577.1| NusA antitermination factor [Glaciecola agarilytica 4H-3-7+YE-5]
          Length = 497

 Score =  572 bits (1475), Expect = e-161,   Method: Composition-based stats.
 Identities = 204/514 (39%), Positives = 318/514 (61%), Gaps = 22/514 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK + R+ +   +  +I  A +       ++RV I+  TGD   FR 
Sbjct: 2   NKEILLVAEAVSNEKQVPREKIFEALEFAIASATKKKTEGEIEVRVSIDRVTGDFDTFRR 61

Query: 66  LEVVEEV---ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             V+ +    EN   +++L  A+  +P I +G  V D +  + F R+  Q+AKQVI+QKV
Sbjct: 62  WMVIADDQKQENPFAEMTLSAAQIDEPDIQLGEYVEDQIESIKFDRITTQTAKQVIVQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDR 181
           REAER +   E++++VG++I+GTVK+V   N+I+DLGN ++GVI RD+ + RE  RPGDR
Sbjct: 122 REAERAQVMAEYEERVGDLITGTVKKVNRDNIIIDLGNNAEGVIYRDDMLPRETFRPGDR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+  +Y +R E RG Q+ +SRTHP  +V+LF +EVPEI    +++KA +RDPGSRAK+AV
Sbjct: 182 VRGLLYVIRPEARGAQLFISRTHPDMLVELFRLEVPEIAEETLEIKAAARDPGSRAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  +DPVGACVGMRGSRVQAV +EL  E++DIV+W  + A FVINA+ PA V  +V+
Sbjct: 242 KTNDKRLDPVGACVGMRGSRVQAVSSELSGERVDIVLWDDNPAQFVINAMAPAEVASIVV 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   ++V V  + L+ AIGR GQNVRLA+QLTGW ++++T E+ +   +++ ++    
Sbjct: 302 DEDNHTMDVAVESDNLAQAIGRSGQNVRLAAQLTGWELNVMTVEDLNSKHEEENSKVLAV 361

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F+  +++DE  A +LV EGF+ +EE+A V I+E+  I+G DE+   +++ RAR  L    
Sbjct: 362 FVNGLDIDEDFAAVLVDEGFSTLEEIAYVPINELLEIDGLDEDIVEDLRSRARAALTTQA 421

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           +  ++ +      EEL S+ G++  +   L   GI  +E LA   VD++    E      
Sbjct: 422 LANEETLEASEPKEELLSLAGMERHVAYTLASRGITDLEALAEQGVDEISDIEE------ 475

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                        +++   +I+ AR  + W  +E
Sbjct: 476 -----------LDEEKAGQLIMAAR-NIVWFNEE 497


>gi|28871625|ref|NP_794244.1| N utilization substance protein A [Pseudomonas syringae pv. tomato
           str. DC3000]
 gi|213966648|ref|ZP_03394799.1| N utilization substance protein A [Pseudomonas syringae pv. tomato
           T1]
 gi|301383158|ref|ZP_07231576.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           tomato Max13]
 gi|302063407|ref|ZP_07254948.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           tomato K40]
 gi|302133780|ref|ZP_07259770.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           tomato NCPPB 1108]
 gi|28854877|gb|AAO57939.1| N utilization substance protein A [Pseudomonas syringae pv. tomato
           str. DC3000]
 gi|213928498|gb|EEB62042.1| N utilization substance protein A [Pseudomonas syringae pv. tomato
           T1]
 gi|330877234|gb|EGH11383.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           morsprunorum str. M302280PT]
 gi|331016647|gb|EGH96703.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           lachrymans str. M302278PT]
          Length = 493

 Score =  572 bits (1475), Expect = e-161,   Method: Composition-based stats.
 Identities = 207/511 (40%), Positives = 324/511 (63%), Gaps = 22/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + ++V+ EK +   V+   +  ++  A +  +    ++RVEIN +TG+   FR 
Sbjct: 2   SKEVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVELRVEINRQTGNYETFRR 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVE+  +++   ++++  A+ + P    G ++ + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WTVVEDEDLDDPAYELAVDQAQAKKPGAVAGDLIEEKIDSIEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G RV
Sbjct: 122 EAERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV 
Sbjct: 182 RALLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVR 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 242 SKDKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F
Sbjct: 302 EDAHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           ++ + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L    I
Sbjct: 362 IEELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDIVNELRARAKDRLLTKAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S+DDLL           
Sbjct: 422 ATEEKLADAHPAEDLLSLEGMDKDLAMELAVRGVVTREDLAEQSIDDLLDIDGIDDDR-- 479

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                             +I+ AR    W E
Sbjct: 480 ---------------AGKLIMAARAH--WFE 493


>gi|330969650|gb|EGH69716.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           aceris str. M302273PT]
          Length = 493

 Score =  572 bits (1474), Expect = e-161,   Method: Composition-based stats.
 Identities = 207/511 (40%), Positives = 324/511 (63%), Gaps = 22/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + ++V+ EK +   V+   +  ++  A +  +    ++RVEIN +TG+   FR 
Sbjct: 2   SKEVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVELRVEINRQTGNYETFRR 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVE+  +++   ++++  A+ + P    G ++ + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WTVVEDEDLDDPAYELAVDQAQAKKPGAVAGDLIEEKIDSIEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G RV
Sbjct: 122 EAERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV 
Sbjct: 182 RALLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKVAVR 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 242 SKDKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F
Sbjct: 302 EDAHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           ++ + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L    I
Sbjct: 362 IEELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDIVNELRARAKDRLLTKAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S+DDLL           
Sbjct: 422 ATEEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLAEQSIDDLLDIDGIDDDR-- 479

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                             +I+ AR    W E
Sbjct: 480 ---------------AGKLIMAARAH--WFE 493


>gi|66047408|ref|YP_237249.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           syringae B728a]
 gi|289676023|ref|ZP_06496913.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           syringae FF5]
 gi|302185431|ref|ZP_07262104.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           syringae 642]
 gi|63258115|gb|AAY39211.1| Transcription termination factor NusA:Transcription termination
           factor NusA, C-terminal duplication [Pseudomonas
           syringae pv. syringae B728a]
 gi|330937945|gb|EGH41732.1| transcription elongation factor NusA [Pseudomonas syringae pv. pisi
           str. 1704B]
          Length = 493

 Score =  572 bits (1474), Expect = e-161,   Method: Composition-based stats.
 Identities = 207/511 (40%), Positives = 324/511 (63%), Gaps = 22/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + ++V+ EK +   V+   +  ++  A +  +    ++RVEIN +TG+   FR 
Sbjct: 2   SKEVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVELRVEINRQTGNYETFRR 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVE+  +++   ++++  A+ + P    G ++ + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WTVVEDEDLDDPAYELAVDQAQAKKPGAVAGDLIEEKIDSIEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G RV
Sbjct: 122 EAERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV 
Sbjct: 182 RALLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVR 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 242 SKDKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F
Sbjct: 302 EDAHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           ++ + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L    I
Sbjct: 362 IEELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDIVNELRARAKDRLLTKAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S+DDLL           
Sbjct: 422 ATEEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLAEQSIDDLLDIDGIDDDR-- 479

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                             +I+ AR    W E
Sbjct: 480 ---------------AGKLIMAARAH--WFE 493


>gi|32033691|ref|ZP_00133986.1| COG0195: Transcription elongation factor [Actinobacillus
           pleuropneumoniae serovar 1 str. 4074]
 gi|126208120|ref|YP_001053345.1| transcription elongation factor NusA [Actinobacillus
           pleuropneumoniae L20]
 gi|126096912|gb|ABN73740.1| transcription elongation protein NusA [Actinobacillus
           pleuropneumoniae serovar 5b str. L20]
          Length = 493

 Score =  572 bits (1474), Expect = e-161,   Method: Composition-based stats.
 Identities = 201/510 (39%), Positives = 317/510 (62%), Gaps = 20/510 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + ++ +   +  ++  + +       D+RV I+ +TGD   FR 
Sbjct: 2   SKEILLAAEAVSNEKLLPKEAIFEALETALAISTKKKKEMDIDVRVVIDRKTGDFQTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE+V N T +ISL  A+  +PS+ +G +V D +  + F R+ +Q+A+QVI  K+REA
Sbjct: 62  WIVVEQVHNMTREISLDAAQYENPSVQLGDIVEDEVDSIPFDRITMQTARQVISTKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER++   +F+ ++  II+ TVK+V    +I+DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERNKVIEQFRSQLNTIITATVKKVNREQIILDLGNQAEAVIVREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y ++ E +GPQ+ L+R  P  + +LF +EVPEI   ++++K  SRDPGSRAK+AV S 
Sbjct: 182 VLYAIKPESKGPQLFLTRAKPVMLEELFKLEVPEIGEDVIEIKGASRDPGSRAKIAVKSH 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAISNELGGERVDIVLWDDNPAQFVINAMAPAEVSAIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T E+     Q + N+    F+ 
Sbjct: 302 KHAMDIAVEGKNLAQAIGRNGQNVRLATQLTGWTLNVMTTEDLDKKHQAEDNKVISLFVS 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLEGIDIT 423
           A+ +D+  A LLV EGF+ +EE+A + +SE+ +I+G  DE  A E+Q RA+  +    + 
Sbjct: 362 ALEIDDEFAQLLVDEGFSSLEEIAFIPVSELTAIDGIEDENLAEELQTRAKNAITAKALA 421

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            ++ +++  + + L ++ G+D  I   L E GI T+E+LA  + DDL    E        
Sbjct: 422 EEEALKQAHIEDRLLNLEGLDRHIAFKLAEKGITTLEELAEQATDDLSDIEE-------- 473

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                       D+   +I+ AR ++ W  
Sbjct: 474 ---------LSADKASELIMAAR-QICWFS 493


>gi|254447046|ref|ZP_05060513.1| NusA antitermination factor [gamma proteobacterium HTCC5015]
 gi|198263185|gb|EDY87463.1| NusA antitermination factor [gamma proteobacterium HTCC5015]
          Length = 499

 Score =  572 bits (1474), Expect = e-161,   Method: Composition-based stats.
 Identities = 214/515 (41%), Positives = 325/515 (63%), Gaps = 25/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +ADAV+ EK +D+DV+   +  ++  A R  +    D RV IN E G    FR 
Sbjct: 3   NKEILLVADAVSNEKGVDKDVIFEALEIALATATRKKHPDDIDARVSINREDGSYETFRR 62

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             V+E+   +EN   ++    A D DPS  +G  V +P+  +D+GR+A Q+AKQVI+QKV
Sbjct: 63  WLVIEDDLVMENVDAELRHMDAIDIDPSYKVGDYVEEPIESVDYGRIAAQTAKQVIVQKV 122

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER +   EF+D+ GE++ G VKRVE GNV VDLG N++G I R+E I RE++RPGDR
Sbjct: 123 REAERMQVVEEFQDREGELVMGLVKRVERGNVYVDLGGNAEGFIPREEMIPRESVRPGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++  + +VR E RGPQ+ +SRT PQF+++LF +EVPEI  G++ + + SRDPG RAK+AV
Sbjct: 183 IRGLLREVRSELRGPQLFVSRTDPQFLIELFKIEVPEIGQGMIDILSASRDPGVRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+D  +DPVGACVGMRGSRVQ+V  EL  E++DI+++  + A FVINA+ PA V  +V+
Sbjct: 243 RSNDPRLDPVGACVGMRGSRVQSVSNELSGERVDIILFDDNPAQFVINAMSPAEVVSIVV 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   +++ V  E+LS AIGR GQN+RLAS+LT W ++++ EE  +   +++ ++  + 
Sbjct: 303 DEDNNSMDLAVTNEKLSQAIGRGGQNIRLASELTDWQLNVMDEESYAAKNEEEAHKYVEV 362

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+ ++VDE +A +LV EGF  +EE+A V ++E   IE FD+    E++ RAR+ L    
Sbjct: 363 FMEQLDVDEEVATILVQEGFTSIEEVAYVPMAEFQEIEEFDDGIIEELRNRARDALLTKA 422

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           I  ++   +    ++L  +  +D ++  AL   G+ TME+LA  +VDDL+          
Sbjct: 423 ILNEES--DAQPEQDLLDMETMDEEMAYALAAIGVTTMEELAEQAVDDLMVID------- 473

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                        +++  ++I+ AR    W  + +
Sbjct: 474 ----------DMDEERASALIMKAREP--WFAEAE 496


>gi|165976050|ref|YP_001651643.1| transcription elongation factor NusA [Actinobacillus
           pleuropneumoniae serovar 3 str. JL03]
 gi|190149948|ref|YP_001968473.1| transcription elongation protein NusA [Actinobacillus
           pleuropneumoniae serovar 7 str. AP76]
 gi|303249647|ref|ZP_07335852.1| transcription elongation factor NusA [Actinobacillus
           pleuropneumoniae serovar 6 str. Femo]
 gi|303253712|ref|ZP_07339849.1| transcription elongation factor NusA [Actinobacillus
           pleuropneumoniae serovar 2 str. 4226]
 gi|307247608|ref|ZP_07529651.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 2 str. S1536]
 gi|307249837|ref|ZP_07531813.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 4 str. M62]
 gi|307252189|ref|ZP_07534087.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 6 str. Femo]
 gi|307263276|ref|ZP_07544894.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 13 str. N273]
 gi|165876151|gb|ABY69199.1| transcription termination-antitermination factor, N utilization
           substance protein A [Actinobacillus pleuropneumoniae
           serovar 3 str. JL03]
 gi|189915079|gb|ACE61331.1| transcription elongation protein NusA [Actinobacillus
           pleuropneumoniae serovar 7 str. AP76]
 gi|302647437|gb|EFL77656.1| transcription elongation factor NusA [Actinobacillus
           pleuropneumoniae serovar 2 str. 4226]
 gi|302651459|gb|EFL81610.1| transcription elongation factor NusA [Actinobacillus
           pleuropneumoniae serovar 6 str. Femo]
 gi|306855878|gb|EFM88038.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 2 str. S1536]
 gi|306858139|gb|EFM90219.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 4 str. M62]
 gi|306860333|gb|EFM92348.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 6 str. Femo]
 gi|306871338|gb|EFN03064.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 13 str. N273]
          Length = 493

 Score =  572 bits (1474), Expect = e-161,   Method: Composition-based stats.
 Identities = 201/510 (39%), Positives = 318/510 (62%), Gaps = 20/510 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + ++ +   +  ++  + +       D+RV I+ +TGD   FR 
Sbjct: 2   SKEILLAAEAVSNEKLLPKEAIFEALETALAISTKKKKEMDIDVRVVIDRKTGDFQTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE+V N T +ISL+ A+  +PS+ +G +V D +  + F R+ +Q+A+QVI  K+REA
Sbjct: 62  WIVVEQVHNMTREISLEAAQYENPSVQLGDIVEDEVDSIPFDRITMQTARQVISTKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER++   +F+ ++  II+ TVK+V    +I+DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERNKVIEQFRSQLNTIITATVKKVNREQIILDLGNQAEAVIVREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y ++ E +GPQ+ L+R  P  + +LF +EVPEI   ++++K  SRDPGSRAK+AV S 
Sbjct: 182 VLYAIKPESKGPQLFLTRAKPVMLEELFKLEVPEIGEDVIEIKGASRDPGSRAKIAVKSH 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAISNELGGERVDIVLWDDNPAQFVINAMAPAEVSAIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T E+     Q + N+    F+ 
Sbjct: 302 KHAMDIAVEGKNLAQAIGRNGQNVRLATQLTGWTLNVMTTEDLDKKHQAEDNKVISLFVS 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLEGIDIT 423
           A+ +D+  A LLV EGF+ +EE+A + +SE+ +I+G  DE  A E+Q RA+  +    + 
Sbjct: 362 ALEIDDEFAQLLVDEGFSSLEEIAFIPVSELTAIDGIEDENLAEELQTRAKNAITAKALA 421

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            ++ +++  + + L ++ G+D  I   L E GI T+E+LA  + DDL    E        
Sbjct: 422 EEEALKQAHIEDRLLNLEGLDRHIAFKLAEKGITTLEELAEQATDDLSDIEE-------- 473

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                       D+   +I+ AR ++ W  
Sbjct: 474 ---------LSADKASELIMAAR-QICWFS 493


>gi|307245494|ref|ZP_07527581.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 1 str. 4074]
 gi|307254448|ref|ZP_07536285.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 9 str. CVJ13261]
 gi|307258907|ref|ZP_07540638.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 11 str. 56153]
 gi|306853553|gb|EFM85771.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 1 str. 4074]
 gi|306862589|gb|EFM94546.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 9 str. CVJ13261]
 gi|306866931|gb|EFM98788.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 11 str. 56153]
          Length = 493

 Score =  572 bits (1474), Expect = e-161,   Method: Composition-based stats.
 Identities = 200/510 (39%), Positives = 316/510 (61%), Gaps = 20/510 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + ++ +   +  ++  + +       D+RV I+ +TGD   FR 
Sbjct: 2   SKEILLAAEAVSNEKLLPKEAIFEALETALAISTKKKKEMDIDVRVVIDRKTGDFQTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE+V N T +ISL  A+  +PS+ +G +V D +  + F R+ +Q+A+QVI  K+REA
Sbjct: 62  WIVVEQVHNMTREISLDAAQYENPSVQLGDIVEDEVDSIPFDRITMQTARQVISTKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER++   +F+ ++  II+ TVK+V    +I+DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERNKVIEQFRSQLNTIITATVKKVNREQIILDLGNQAEAVIVREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y ++ E +GPQ+ ++R  P  + +LF +EVPEI   ++++K  SRDPGSRAK+AV S 
Sbjct: 182 VLYAIKPESKGPQLFVTRAKPVMLEELFKLEVPEIGEDVIEIKGASRDPGSRAKIAVKSH 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAISNELGGERVDIVLWDDNPAQFVINAMAPAEVSAIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T E+     Q + N+    F+ 
Sbjct: 302 KHAMDIAVEGKNLAQAIGRNGQNVRLATQLTGWTLNVMTTEDLDKKHQAEDNKVISLFVS 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLEGIDIT 423
           A+ +D+  A LLV EGF+ +EE+A + +SE+ +I+G  DE  A E+Q RA+  +    + 
Sbjct: 362 ALEIDDEFAQLLVDEGFSSLEEIAFIPVSELTAIDGIEDENLAEELQTRAKNAITAKALA 421

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            ++ +++  + + L ++ G+D  I   L E GI T+E LA  + DDL    E        
Sbjct: 422 EEEALKQAHIEDRLLNLEGLDRHIAFKLAEKGITTLEGLAEQATDDLSDIEE-------- 473

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                       D+   +I+ AR ++ W  
Sbjct: 474 ---------LSADKASELIMAAR-QICWFS 493


>gi|322514415|ref|ZP_08067458.1| N utilization substance A [Actinobacillus ureae ATCC 25976]
 gi|322119663|gb|EFX91721.1| N utilization substance A [Actinobacillus ureae ATCC 25976]
          Length = 493

 Score =  572 bits (1474), Expect = e-161,   Method: Composition-based stats.
 Identities = 197/510 (38%), Positives = 317/510 (62%), Gaps = 20/510 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + ++ +   +  ++  + +       D+RV I+ +TGD   FR 
Sbjct: 2   SKEILLAAEAVSNEKLLPKEAIFEALETALAISTKKKKEMDIDVRVVIDRKTGDFQTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE+V N T +ISL+ A+  +PS+ +G +V D +  + F R+ +Q+A+QVI  K+REA
Sbjct: 62  WIVVEQVHNMTREISLEAAQYENPSVQLGDIVEDEVDSIPFNRITMQTARQVISTKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER++   +F+ ++  II+ TVK+V    +I+DLGN ++ VI R++ + REN R GDRV+ 
Sbjct: 122 ERNKVIDQFRSQLNTIITATVKKVNRDQIILDLGNQAEAVIVREDMLPRENFRLGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y ++ E +GPQ+ ++R  P  + +LF +EVPEI   ++++K  SRDPGSRAK+AV S 
Sbjct: 182 VLYAIKPESKGPQLFVTRAKPIMLEELFKLEVPEIGEDVIEIKGASRDPGSRAKIAVKSH 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAISNELGGERVDIVLWDDNPAQFVINAMAPADVSSIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T E+     Q + N+    F+ 
Sbjct: 302 KHAMDIAVESKNLAQAIGRNGQNVRLATQLTGWTLNVMTTEDLDKKHQAEDNKVIDLFVT 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLEGIDIT 423
           ++ +D+  A +LV EGF+ +EELA + +SE+ +I+G  DE+   E+Q RA+  +    + 
Sbjct: 362 SLEIDQEFAQILVDEGFSSLEELAFIPVSELTAIDGLEDEDLVEELQTRAKNVITAKALA 421

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            ++ +++  + + L ++ G+D  I   L E GI T+E+LA  + DDL    E        
Sbjct: 422 EEEALQQAHIEDRLLNLEGLDRHIAFKLAEKGITTLEELAEQATDDLSDIEE-------- 473

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                       D+   +I+ AR ++ W  
Sbjct: 474 ---------LSADKASELIMAAR-QICWFS 493


>gi|16273197|ref|NP_439435.1| transcription elongation factor NusA [Haemophilus influenzae Rd
           KW20]
 gi|260581405|ref|ZP_05849219.1| transcription termination factor NusA [Haemophilus influenzae RdAW]
 gi|260582501|ref|ZP_05850292.1| transcription termination factor NusA [Haemophilus influenzae
           NT127]
 gi|1171872|sp|P43915|NUSA_HAEIN RecName: Full=Transcription elongation protein nusA
 gi|1574741|gb|AAC22932.1| N utilization substance protein A (nusA) [Haemophilus influenzae Rd
           KW20]
 gi|260091947|gb|EEW75896.1| transcription termination factor NusA [Haemophilus influenzae RdAW]
 gi|260094481|gb|EEW78378.1| transcription termination factor NusA [Haemophilus influenzae
           NT127]
          Length = 495

 Score =  571 bits (1473), Expect = e-161,   Method: Composition-based stats.
 Identities = 195/512 (38%), Positives = 323/512 (63%), Gaps = 20/512 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + R+ +   +  +I  + +  +   +DIRV INP+TG+   FR 
Sbjct: 2   SKEILLAAEAVSNEKLLPREKIFEALESAIAISTKKKFEYETDIRVSINPKTGEFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV+  T +I+L+ A+  DP++ +G  V D +  + F R+A+Q+A+QVI  K+REA
Sbjct: 62  WLVVDEVKVPTKEITLEAAQFDDPNLQLGEYVEDQIESIAFDRIAMQTARQVISTKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F+++ G+I++GTVK+V   ++I+DLG  ++ +I R++ + REN RPGDRV+ 
Sbjct: 122 ERAKVVEQFREEEGKIVTGTVKKVSRDSIILDLGNKAEAMIAREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E +  Q+ ++R+ P+ +++LF +EVPEI   +++++  +RD GSRAK+AV S+
Sbjct: 182 VLYKVNPEGKTAQLFVTRSKPEMLIELFRIEVPEIGEEMIEIRGAARDAGSRAKIAVKSN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQ +  EL  E++DIV+W  + A FVINA+ PA V+ +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQVITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T +E +   Q + N+    F+ 
Sbjct: 302 NHSMDIAVEADNLAQAIGRNGQNVRLATQLTGWTLNVMTTDELNAKHQAEDNKVLNLFIN 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLEGIDIT 423
           A+ +DE  A +LV EGF  +EE+A V ++E+ +I+G  DE+   E+Q RA+  +    + 
Sbjct: 362 ALELDEEFAQILVEEGFTSLEEIAYVPMNELTAIDGLEDEDLVEELQTRAKNAITAAAVA 421

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            ++ +++  V + L ++ G++  + + L E  I T+E+LA   VDDL    E        
Sbjct: 422 EEEALKKANVEDRLLNLEGMNRHVAIKLAEKQITTLEELAEQGVDDLTDIEE-------- 473

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                       +Q   +I+ AR  + W  +E
Sbjct: 474 ---------LTAEQAADLIMAAR-NICWFGEE 495


>gi|170719906|ref|YP_001747594.1| transcription elongation factor NusA [Pseudomonas putida W619]
 gi|169757909|gb|ACA71225.1| NusA antitermination factor [Pseudomonas putida W619]
          Length = 493

 Score =  571 bits (1473), Expect = e-161,   Method: Composition-based stats.
 Identities = 207/511 (40%), Positives = 319/511 (62%), Gaps = 22/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + ++V+ EK +   V+   +  ++  A +  +    D+RVEIN  TG    FR 
Sbjct: 2   SKEVLLVVESVSNEKGVPPGVIFEALEVALATATKKRFEDEVDLRVEINRHTGSYETFRR 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV+E  +++   +  L    +  P   +G V+ + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WTVVDEADLDDPAIETWLAKIHETHPEAKVGDVIEEKIESIEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +    ++++VGEIISGTVK+V   NVIVDLGN ++ ++ R++ I RE  R G R+
Sbjct: 122 EAERAQVVDAYRERVGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIIPRETFRVGVRL 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R E RGPQ++LSRT PQ +++LF +EVPEI  G+++V A SRDPGSRAK+AV 
Sbjct: 182 RALLKEIRTENRGPQLILSRTAPQMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVR 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 242 SKDKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDENPAQFVINAMSPAEVAAIIVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V ++ L+ AIGR GQNVRLASQLTGWT++++TE++    +Q +  +  + F
Sbjct: 302 EDAHAMDIAVAEDNLAQAIGRGGQNVRLASQLTGWTLNVMTEKDIQAKQQAETGDILRNF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           ++ + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L    I
Sbjct: 362 IEELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDIVNELRARAKDRLLTKAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ +   +E+L S+ G+D  +   L   G+   EDLA  S                
Sbjct: 422 ATEEKLADAHPAEDLLSLEGMDKDLAAELAVRGVVNREDLAEQS---------------- 465

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
             D  L   G  +++   +I+ AR    W E
Sbjct: 466 -IDDLLDIDGIDEERAGKLIMAARAH--WFE 493


>gi|268592826|ref|ZP_06127047.1| L factor [Providencia rettgeri DSM 1131]
 gi|291311611|gb|EFE52064.1| L factor [Providencia rettgeri DSM 1131]
          Length = 502

 Score =  571 bits (1473), Expect = e-160,   Method: Composition-based stats.
 Identities = 208/515 (40%), Positives = 320/515 (62%), Gaps = 26/515 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIDVRVEIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEV   T +I+L+ A+  DP++ +G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLIVEEVTMPTREITLEAAQYEDPALQLGEYVEDQIESVVFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+++ GEII+  VK+V   N+ +DLGN ++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDQFREQQGEIITAQVKKVNRENITLDLGNNAEAVILREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +YDVR E RG Q+ ++R+ P+ +++LF +EVPEI   I+++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYDVRPEARGAQLFVTRSRPEMLIELFRIEVPEIGEEIIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLT-------GWTIDIITEEEDSINRQKDFNE 357
              ++V V    L+ AIGR GQNVRLA+QL         W ++++T EE +   Q + + 
Sbjct: 302 KCTMDVAVESSNLAQAIGRNGQNVRLAAQLLKKHRGDDKWELNVMTAEELNAKHQAEAHA 361

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F + +++DE  A  LV EGF+ +EELA V I+E+  I+G DEET   ++ RA+  L
Sbjct: 362 SIDTFTKHLDIDEEFATALVEEGFSTLEELAYVPINELLEIDGLDEETVEVLRERAKAAL 421

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
             I++  ++ + +   +E+L ++ G+D  +   L   GI T+EDLA   +DDL+      
Sbjct: 422 TTIELAQKESLGDNQPAEDLLNLEGMDRTLAYNLATRGICTLEDLAEQGIDDLIDIE--- 478

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
                         G   ++  ++I+ AR  + W 
Sbjct: 479 --------------GLDDEKAGTLIMAAR-NICWF 498


>gi|330958050|gb|EGH58310.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           maculicola str. ES4326]
          Length = 493

 Score =  571 bits (1473), Expect = e-160,   Method: Composition-based stats.
 Identities = 206/511 (40%), Positives = 324/511 (63%), Gaps = 22/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + ++V+ EK +   V+   +  ++  A +  +    ++RVEIN +TG+   FR 
Sbjct: 2   SKEVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVELRVEINRQTGNYETFRR 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVE+  +++   ++++  A+ + P    G ++ + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WTVVEDEDLDDPAYELAVDQAQAKKPGAVAGDLIEEKIDSIEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G R+
Sbjct: 122 EAERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRM 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV 
Sbjct: 182 RALLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVR 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 242 SKDKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F
Sbjct: 302 EDAHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           ++ + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L    I
Sbjct: 362 IEELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDIVNELRARAKDRLLTKAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S+DDLL           
Sbjct: 422 ATEEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLAEQSIDDLLDIDGIDDDR-- 479

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                             +I+ AR    W E
Sbjct: 480 ---------------AGKLIMAARAH--WFE 493


>gi|104780027|ref|YP_606525.1| transcription elongation factor NusA [Pseudomonas entomophila L48]
 gi|95109014|emb|CAK13710.1| transcription termination/antitermination, L factor (N utilization
           substance protein A) [Pseudomonas entomophila L48]
          Length = 493

 Score =  571 bits (1472), Expect = e-160,   Method: Composition-based stats.
 Identities = 207/511 (40%), Positives = 318/511 (62%), Gaps = 22/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + ++V+ EK +   V+   +  ++  A +  +    D+RVEIN  TG    FR 
Sbjct: 2   SKEVLLVVESVSNEKGVPPGVIFEALEVALATATKKRFEDEVDLRVEINRHTGSYETFRR 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV+E  +++   +  L   +D  P   IG V+ + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WTVVDENDLDDPAIETWLSKIQDTHPDAKIGDVIEEKIESIEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +    ++++VGEIISGTVK+V   NVIVDLGN ++ ++ R++ I RE  R G R+
Sbjct: 122 EAERAQVVDAYRERVGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIIPRETFRVGVRL 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R E RGPQ++LSRT PQ +++LF +EVPEI  G+++V A SRDPGSRAK+AV 
Sbjct: 182 RALLKEIRTENRGPQLVLSRTAPQMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVR 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 242 SKDKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDENPAQFVINAMSPAEVAAIIVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V ++ L+ AIGR GQNVRLASQLT WT++++TE++    +Q +  +  + F
Sbjct: 302 EDAHAMDIAVAEDNLAQAIGRGGQNVRLASQLTAWTLNVMTEKDIQAKQQAETGDILRNF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           +  + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L    I
Sbjct: 362 IDELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDIVNELRARAKDRLLTKAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ +   +++L S+ G+D  +   L   G+   EDLA  S                
Sbjct: 422 ATEEKLADAHPADDLLSLEGMDKDLAAELAVRGVVNREDLAEQS---------------- 465

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
             D  L   G  +++   +I+ AR    W E
Sbjct: 466 -IDDLLDIDGIDEERAGKLIMAARAH--WFE 493


>gi|330888659|gb|EGH21320.1| transcription elongation factor NusA [Pseudomonas syringae pv. mori
           str. 301020]
          Length = 493

 Score =  571 bits (1472), Expect = e-160,   Method: Composition-based stats.
 Identities = 207/511 (40%), Positives = 324/511 (63%), Gaps = 22/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + ++V+ EK +   V+   +  ++  A +  +    ++RVEIN +TG+   FR 
Sbjct: 2   SKEVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVELRVEINRQTGNYETFRR 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVE+  +++   ++++  A+ + P    G ++ + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WTVVEDEDLDDPAYELAVDQAQVKKPGAVAGDLIEEKIDSIEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G RV
Sbjct: 122 EAERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSR+K+AV 
Sbjct: 182 RALLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRSKIAVR 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 242 SKDKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F
Sbjct: 302 EDAHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           ++ + VDE +A +LV EGF  +EE+A V + E+ +I+GFDEE   E++ RA++ L    I
Sbjct: 362 IEELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEEIVNELRARAKDRLLTKAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S+DDLL           
Sbjct: 422 ATEEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLAEQSIDDLLDIDGIDDDR-- 479

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                             +I+ AR    W E
Sbjct: 480 ---------------AGKLIMAARAH--WFE 493


>gi|307261095|ref|ZP_07542774.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 12 str. 1096]
 gi|306869227|gb|EFN01025.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 12 str. 1096]
          Length = 493

 Score =  571 bits (1472), Expect = e-160,   Method: Composition-based stats.
 Identities = 200/510 (39%), Positives = 317/510 (62%), Gaps = 20/510 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + ++ +   +  ++  + +       D+RV I+ +TGD   FR 
Sbjct: 2   SKEILLAAEAVSNEKLLPKEAIFEALETALAISTKKKKEMDIDVRVVIDRKTGDFQTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE+V N T +ISL  A+  +PS+ +G +V D +  + F R+ +Q+A+QVI  K+REA
Sbjct: 62  WIVVEQVHNMTREISLDAAQYENPSVQLGDIVEDEVDSIPFDRITMQTARQVISTKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER++   +F+ ++  II+ TVK+V    +I+DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERNKVIEQFRSQLNTIITATVKKVNREQIILDLGNQAEAVIVREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y ++ E +GPQ+ ++R  P  + +LF +EVPEI   ++++K  SRDPGSRAK+AV S 
Sbjct: 182 VLYAIKPESKGPQLFVTRAKPVMLEELFKLEVPEIGEDVIEIKGASRDPGSRAKIAVKSH 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAISNELGGERVDIVLWDDNPAQFVINAMAPAEVSAIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T E+     Q + N+    F+ 
Sbjct: 302 KHAMDIAVEGKNLAQAIGRNGQNVRLATQLTGWTLNVMTTEDLDKKHQAEDNKVISLFVS 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLEGIDIT 423
           A+ +D+  A LLV EGF+ +EE+A + +SE+ +I+G  DE  A E+Q RA+  +    + 
Sbjct: 362 ALEIDDEFAQLLVDEGFSSLEEIAFIPVSELTAIDGIEDENLAEELQTRAKNAITAKALA 421

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            ++ +++  + + L ++ G+D  I   L E GI T+E+LA  + DDL    E        
Sbjct: 422 EEEALKQAHIEDRLLNLEGLDRHIAFKLAEKGITTLEELAEQATDDLSDIEE-------- 473

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                       D+   +I+ AR ++ W  
Sbjct: 474 ---------LSADKASELIMAAR-QICWFS 493


>gi|71734581|ref|YP_276312.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           phaseolicola 1448A]
 gi|257482262|ref|ZP_05636303.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           tabaci ATCC 11528]
 gi|289646960|ref|ZP_06478303.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           aesculi str. 2250]
 gi|298488455|ref|ZP_07006486.1| Transcription termination protein NusA [Pseudomonas savastanoi pv.
           savastanoi NCPPB 3335]
 gi|71555134|gb|AAZ34345.1| N utilization substance protein A [Pseudomonas syringae pv.
           phaseolicola 1448A]
 gi|298157080|gb|EFH98169.1| Transcription termination protein NusA [Pseudomonas savastanoi pv.
           savastanoi NCPPB 3335]
 gi|330987054|gb|EGH85157.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           lachrymans str. M301315]
 gi|331011498|gb|EGH91554.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           tabaci ATCC 11528]
          Length = 493

 Score =  571 bits (1472), Expect = e-160,   Method: Composition-based stats.
 Identities = 208/511 (40%), Positives = 324/511 (63%), Gaps = 22/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + ++V+ EK +   V+   +  ++  A +  +    ++RVEIN +TG+   FR 
Sbjct: 2   SKEVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVELRVEINRQTGNYETFRR 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVE+  +++   ++++  A+ + P    G ++ + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WTVVEDEDLDDPAYELAVDQAQVKKPGAVAGDLIEEKIDSIEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G RV
Sbjct: 122 EAERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV 
Sbjct: 182 RALLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVR 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 242 SKDKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F
Sbjct: 302 EDAHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           ++ + VDE +A +LV EGF  +EE+A V + E+ +I+GFDEE   E++ RA++ L    I
Sbjct: 362 IEELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEEIVNELRARAKDRLLTKAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S+DDLL           
Sbjct: 422 ATEEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLAEQSIDDLLDIDGIDDDR-- 479

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                             +I+ AR    W E
Sbjct: 480 ---------------AGKLIMAARAH--WFE 493


>gi|289624601|ref|ZP_06457555.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           aesculi str. NCPPB3681]
 gi|330868245|gb|EGH02954.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           aesculi str. 0893_23]
          Length = 493

 Score =  571 bits (1472), Expect = e-160,   Method: Composition-based stats.
 Identities = 208/511 (40%), Positives = 324/511 (63%), Gaps = 22/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + ++V+ EK +   V+   +  ++  A +  +    ++RVEIN +TG+   FR 
Sbjct: 2   SKEVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVELRVEINRQTGNYETFRR 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVE+  +++   ++++  A+ + P    G ++ + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WTVVEDEDLDDPAYELAVDQAQVKKPGAVAGDLIEEKIDSIEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G RV
Sbjct: 122 EAERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV 
Sbjct: 182 RALLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVR 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 242 SKDKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F
Sbjct: 302 EDAHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIHAKQQAETGDILRNF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           ++ + VDE +A +LV EGF  +EE+A V + E+ +I+GFDEE   E++ RA++ L    I
Sbjct: 362 IEELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEEIVNELRARAKDRLLTKAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S+DDLL           
Sbjct: 422 ATEEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLAEQSIDDLLDIDGIDDDR-- 479

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                             +I+ AR    W E
Sbjct: 480 ---------------AGKLIMAARAH--WFE 493


>gi|77457005|ref|YP_346510.1| transcription elongation factor NusA [Pseudomonas fluorescens
           Pf0-1]
 gi|77381008|gb|ABA72521.1| transcription termination factor [Pseudomonas fluorescens Pf0-1]
          Length = 493

 Score =  570 bits (1471), Expect = e-160,   Method: Composition-based stats.
 Identities = 209/511 (40%), Positives = 317/511 (62%), Gaps = 22/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + ++V+ EK +   V+   +  ++  A +  +    D+RVEIN  TG    FR 
Sbjct: 2   SKEVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVDLRVEINRHTGSYETFRR 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVEE  +++   +       +  P   +G VV + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WTVVEENDLDDPAIETWPSKVAETHPGAKVGDVVEEKIESIEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G R+
Sbjct: 122 EAERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRL 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV 
Sbjct: 182 RALLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVR 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 242 SKDKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F
Sbjct: 302 EDAHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           +  + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L    I
Sbjct: 362 IDELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDIVNELRARAKDRLLTKAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S+DDLL           
Sbjct: 422 ATEEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLAEQSIDDLLDIDGIDDDR-- 479

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                             +I+ AR    W E
Sbjct: 480 ---------------AGKLIMAARAH--WFE 493


>gi|121594900|ref|YP_986796.1| NusA antitermination factor [Acidovorax sp. JS42]
 gi|120606980|gb|ABM42720.1| NusA antitermination factor [Acidovorax sp. JS42]
          Length = 494

 Score =  570 bits (1471), Expect = e-160,   Method: Composition-based stats.
 Identities = 202/514 (39%), Positives = 323/514 (62%), Gaps = 24/514 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL + +A++ EK+++RDVVL  +  ++ +A + LY    DIRV I  ++G+   FR 
Sbjct: 2   NRELLMLVEAISREKNVERDVVLGAVESALAQATKKLYQGEVDIRVSIERDSGEYETFRR 61

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             VV +   ++N   +  L  AR+R   I++G  + + +  +  GR+   +AKQVI+QK+
Sbjct: 62  WLVVPDDAGLQNPDAEELLMDARERVADIEVGEYIEEAVESVPIGRIGAMAAKQVILQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           R+AER+    +F  +  +I +GTVKR++ G++IV+ G  +G +RR E I +ENLR GDRV
Sbjct: 122 RDAEREMLLNDFMSRGEKIFTGTVKRMDKGDIIVESGRVEGRLRRGEMIPKENLRNGDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ I +V    RG  ++LSR+ P+FM++LF  EVPEI  G++++K+ +RDPGSRAK+AV 
Sbjct: 182 RAMIMEVDLTLRGAPIILSRSAPEFMIELFRNEVPEIEQGLLEIKSCARDPGSRAKIAVL 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  +DP+G CVG+RG+RV AV  EL  E++DIV+WS D A FVI AL PA VT +V+D
Sbjct: 242 SHDKRVDPIGTCVGVRGTRVNAVTNELAGERVDIVLWSDDPAQFVIGALAPANVTSIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+   ++V+V +E L++AIGR GQNVRLAS LTGW I+I+   E +  +  + +   + F
Sbjct: 302 EEKHAMDVVVDEENLAIAIGRGGQNVRLASDLTGWKINIMDAAESAQKQANETDAARRLF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+ ++VDE IA++L+ EGFA +EE+A V + E+  IE FDE+T  E++ RA++ L  ++I
Sbjct: 362 MEKLDVDEEIANILIEEGFASLEEVAYVPLQEMLEIESFDEDTVNELRARAKDALLTMEI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++ +    VS++L  + G+  ++   L E G+ T +DLA  ++D+L   +        
Sbjct: 422 VREESVE--SVSQDLRDLEGLTPELIAKLAEGGVHTRDDLADLAIDELTELT-------- 471

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                    G   +   ++I+ AR    W   ++
Sbjct: 472 ---------GQSAEDATALIMKAREH--WFTGQE 494


>gi|320322529|gb|EFW78622.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           glycinea str. B076]
          Length = 493

 Score =  570 bits (1471), Expect = e-160,   Method: Composition-based stats.
 Identities = 208/511 (40%), Positives = 324/511 (63%), Gaps = 22/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + ++V+ EK +   V+   +  ++  A +  +    ++RVEIN +TG+   FR 
Sbjct: 2   SKEVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVELRVEINRQTGNYETFRR 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVE+  +++   ++++  A+ + P    G ++ + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WTVVEDEDLDDPAYELAVDQAQVKKPGAVAGDLIEEKIDSIEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G RV
Sbjct: 122 EAERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRIGVRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV 
Sbjct: 182 RALLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVR 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 242 SKDKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F
Sbjct: 302 EDAHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           ++ + VDE +A +LV EGF  +EE+A V + E+ +I+GFDEE   E++ RA++ L    I
Sbjct: 362 IEELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEEIVNELRARAKDRLLTKAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S+DDLL           
Sbjct: 422 ATEEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLAEQSIDDLLDIDGIDDDR-- 479

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                             +I+ AR    W E
Sbjct: 480 ---------------AGKLIMAARAH--WFE 493


>gi|217970108|ref|YP_002355342.1| transcription elongation factor NusA [Thauera sp. MZ1T]
 gi|217507435|gb|ACK54446.1| NusA antitermination factor [Thauera sp. MZ1T]
          Length = 491

 Score =  570 bits (1471), Expect = e-160,   Method: Composition-based stats.
 Identities = 206/509 (40%), Positives = 333/509 (65%), Gaps = 23/509 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++ +D+V S +  ++  A +      +D+ V I+ ++GD +  R   
Sbjct: 4   EILLLVDALAREKNVAKDIVFSALETALASATKKRIHDDADVVVSIDRDSGDYTSKRRWL 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           V+  EEV N   ++ +  AR+    + IG  + + L P+DFGR+  Q+AKQVI+QK+R+A
Sbjct: 64  VMLDEEVANDEAEMGIIDARELRADVQIGDYIEEELEPIDFGRIGAQAAKQVILQKIRDA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F D+   ++SG++KR+E GN I+++G  + V+ RD+ I RENLR GDRVK++
Sbjct: 124 EREQVLNDFLDRKEFLVSGSIKRMERGNAIIEVGRMEAVLPRDQQIPRENLRVGDRVKAF 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  + R  RGPQ++LSRT P+F++KLF +EVPEI +G++++KA +RD G RAK+AV S+D
Sbjct: 184 LLRIDRGARGPQLVLSRTAPEFLMKLFELEVPEIEDGLLELKACARDAGLRAKIAVKSND 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDP+G CVG+RGSRV AV  E+  E+IDI+VWS D A FV+ AL+PA V  +V+DE+ 
Sbjct: 244 QRIDPIGTCVGLRGSRVTAVRNEIAGEQIDIIVWSQDPAQFVVAALQPAEVVSIVVDEES 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++V+V +  L++AIGR GQNV+LAS+LTGWTI++++E+E +    ++       FM+ 
Sbjct: 304 HAMDVVVDENNLAIAIGRSGQNVKLASELTGWTINLMSEQESAEKTAQEQQGLRALFMEK 363

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE +A +L+ EGF+ +EE+A V +SE+  IE FDE+T  E++ RAR  L    I  +
Sbjct: 364 LDVDEEVADILIEEGFSSLEEVAYVPLSEMLEIEAFDEDTVNELRNRARNVLLTEAIVTE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFD 485
           +++    VS++L  + G+D  +   L + GI+T +DLA  +VD+L+  +           
Sbjct: 424 EQLE--KVSDDLLGLEGMDKSLAATLAQQGIRTRDDLADLAVDELVEMA----------- 470

Query: 486 GFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                 G  +++ +++I  AR    W E+
Sbjct: 471 ------GIDEERAKALISVARAH--WFEE 491


>gi|297537315|ref|YP_003673084.1| transcription termination factor NusA [Methylotenera sp. 301]
 gi|297256662|gb|ADI28507.1| transcription termination factor NusA [Methylotenera sp. 301]
          Length = 488

 Score =  570 bits (1471), Expect = e-160,   Method: Composition-based stats.
 Identities = 207/507 (40%), Positives = 333/507 (65%), Gaps = 25/507 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A+EK++ ++V+ + +  ++  A +  +   +D+RV I+ E+G+   FR  +
Sbjct: 4   EILLLVDALAHEKNVSKEVIFTALELALASATKKKHHDDADVRVSIDRESGEYETFRRWQ 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            VE   +EN   QI  +   +    +++G    +PL  ++FGR+  Q+AKQVI+QKVREA
Sbjct: 64  YVEYDLLENSAYQIDEES--EHAKGLNVGDYYEEPLESIEFGRIGAQAAKQVILQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F  +  ++++G +KR+E GN I+++G  + ++ R++ I +ENLR GDRV+++
Sbjct: 122 EREQILEDFLARDEKLVTGVIKRMEKGNAIIEVGRIESLLPREQMIPKENLRVGDRVRAF 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  + R  RGPQ++LSR  P F+V+LF +EVPEI  G+++++A +RDPG R+K+AV S+D
Sbjct: 182 LSRIERGGRGPQLILSRITPDFLVRLFELEVPEIEEGLLEIRAAARDPGLRSKIAVKSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVG CVGMRGSRVQAV  EL  E++DIV+WS + A FVINA+ PA V+ +V+DED 
Sbjct: 242 QRIDPVGTCVGMRGSRVQAVTGELAGERVDIVLWSMEPAQFVINAMSPAEVSSIVVDEDA 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++V+V +EQL+LAIGR GQNVRLAS+LTGWT++I+T ++ +   Q +F   +Q FM  
Sbjct: 302 HSMDVVVDEEQLALAIGRNGQNVRLASELTGWTLNILTVDQAAQKNQDEFAGVSQLFMDK 361

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VD  +A +LV EGF+ +EE+A V ++E+  IE FDE+T  E++ RAR  L    I  +
Sbjct: 362 LDVDAEVAEILVQEGFSTLEEIAYVPLAEMNEIEAFDEDTIEELRKRARAALLTEAIAKE 421

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFD 485
           +K+ E   SE+L ++ G+D++    L   G+ TM+DLA  +VD+L   +           
Sbjct: 422 EKVEEA--SEDLLAMEGMDAETAHLLASKGVATMDDLAELAVDELEELT----------- 468

Query: 486 GFLSSLGTPKDQVESMIIHARYKMGWI 512
                 G   ++ +++I+ AR    W 
Sbjct: 469 ------GMDAERAKTLIMTARAP--WF 487


>gi|167950226|ref|ZP_02537300.1| transcription elongation factor NusA [Endoriftia persephone
           'Hot96_1+Hot96_2']
 gi|110589422|gb|ABG77220.1| N utilization substance protein A [Endoriftia persephone
           'Hot96_1+Hot96_2']
          Length = 497

 Score =  570 bits (1471), Expect = e-160,   Method: Composition-based stats.
 Identities = 211/517 (40%), Positives = 322/517 (62%), Gaps = 27/517 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + DAV+ EK +++ ++   +  ++  A R   G    +RVEI+  +GD   FR 
Sbjct: 2   SKEILLVVDAVSNEKGVEKVIIFEAIEAALASATRKKNGDDILVRVEIDRTSGDYESFRR 61

Query: 66  LEVVE-----EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            EVVE     E +    QI    A+++ P I IG  + + +  ++FGR+A Q+AKQVI+Q
Sbjct: 62  WEVVEDYSSDEPDAPLRQIIFDAAKEQQPDIQIGDFIEEEIDSIEFGRIAAQAAKQVIVQ 121

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPG 179
           KVREAER +    ++D+ GE+++G VKRV+ GNV +DLG N++  I R+  I +E +R G
Sbjct: 122 KVREAERAKVVAAYEDRKGELVTGVVKRVDRGNVFLDLGGNAEAFIGREHMIPKEAVRVG 181

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR++ Y+Y++R E RGPQ+ +SRT P+ +++LF +EVPE+  G+++++  +RD G RAK+
Sbjct: 182 DRIRGYLYEIRSEVRGPQLFVSRTMPELLIELFKLEVPEVGEGLIEIRGAARDAGLRAKI 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV + DS IDPVGACVGMRGSRVQAV  EL  E++DI++W+ + A FVI+A+ PA V  +
Sbjct: 242 AVKALDSRIDPVGACVGMRGSRVQAVSNELNGERVDIILWNDNPAQFVIDAMSPADVVSI 301

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           V+DED   ++V V +E LS AIGR GQNVRLASQLTGW ++++ E + +    ++     
Sbjct: 302 VVDEDRHAMDVAVSEENLSQAIGRGGQNVRLASQLTGWELNVMDEAQAAEKSDQESRGFI 361

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM+ + VDE +A +LV EGF  V+E+A V I E+  IE FD++   E++ RA++ L  
Sbjct: 362 EAFMEHLGVDEDVATILVQEGFTSVDEVAYVPIEEMLGIEEFDDDLVDELRNRAKDVLLT 421

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
             I  ++   E   +E+L ++ G+D  +   L  +GI TMEDLA  SVDDL+        
Sbjct: 422 KAIAKEEAFAE--PAEDLLTMDGMDKDLAYLLASHGIATMEDLAEQSVDDLMDVE----- 474

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                       G  +++   +II AR    W E  +
Sbjct: 475 ------------GMDEERAGKLIITARAP--WFEDAE 497


>gi|329123362|ref|ZP_08251927.1| N utilization substance A [Haemophilus aegyptius ATCC 11116]
 gi|327471362|gb|EGF16814.1| N utilization substance A [Haemophilus aegyptius ATCC 11116]
          Length = 507

 Score =  570 bits (1470), Expect = e-160,   Method: Composition-based stats.
 Identities = 194/512 (37%), Positives = 322/512 (62%), Gaps = 20/512 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + R+ +   +  +I  + +  +   +DIRV INP+TG+   FR 
Sbjct: 14  SKEILLAAEAVSNEKLLPREKIFEALESAIAISTKKKFEYETDIRVSINPKTGEFDTFRR 73

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV+  T +I+L+ A+  DP++ +G  V D +  + F R+A+Q+A+QVI  K+REA
Sbjct: 74  WLVVDEVKVPTKEITLEAAQFDDPNLQLGEYVEDQIESIAFDRIAMQTARQVISTKIREA 133

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F+++ G+I++GTVK+V   ++I+DLG  ++ +I R++ + REN R GDRV+ 
Sbjct: 134 ERAKVVEQFREEEGKIVTGTVKKVSRDSIILDLGNKAEAMIAREDMLPRENFRLGDRVRG 193

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E +  Q+ ++R+ P+ +++LF +EVPEI   +++++  +RD GSRAK+AV S+
Sbjct: 194 VLYKVNPEGKTAQLFVTRSKPEMLIELFRIEVPEIGEEMIEIRGAARDAGSRAKIAVKSN 253

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQ +  EL  E++DIV+W  + A FVINA+ PA V+ +++DED
Sbjct: 254 DKRIDPVGACVGMRGARVQVITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIIVDED 313

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T +E +   Q + N+    F+ 
Sbjct: 314 NHSMDIAVEADNLAQAIGRNGQNVRLATQLTGWTLNVMTTDELNAKHQAEDNKVLNLFIN 373

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLEGIDIT 423
           A+ +DE  A +LV EGF  +EE+A V ++E+ +I+G  DE+   E+Q RA+  +    + 
Sbjct: 374 ALKLDEEFAQILVEEGFTSLEEIAYVPMNELTAIDGLEDEDLVEELQTRAKNAITAAAVA 433

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            ++ +++  V + L ++ G++  + + L E  I T+E+LA   VDDL    E        
Sbjct: 434 EEEALKKANVEDRLLNLEGMNRHVAIKLAEKQITTLEELAEQGVDDLTDIEE-------- 485

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                       +Q   +I+ AR  + W  +E
Sbjct: 486 ---------LTAEQAADLIMAAR-NICWFGEE 507


>gi|317402909|gb|EFV83450.1| N utilization substance protein A [Achromobacter xylosoxidans C54]
          Length = 492

 Score =  570 bits (1470), Expect = e-160,   Method: Composition-based stats.
 Identities = 204/511 (39%), Positives = 311/511 (60%), Gaps = 25/511 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++ RDVV   +  ++  A +  +   +DIRV I+ ETGD   FR   
Sbjct: 4   EILLLVDALAREKNVTRDVVFGALESALASAMKKRFKDDADIRVAIDRETGDHEGFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    Q  L  A +  P+I +G  + +PL P++FGR+  Q+AKQ I+QK+R+
Sbjct: 64  VVPDEAGLQEPDKQEMLSDAVEIVPNIQVGEYIEEPLEPIEFGRIGAQAAKQAILQKIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F D+   I+SGT+KR++ G+ I++ G  +  + R E I +ENLR  DRV++
Sbjct: 124 AEREQVLNDFLDRGETIVSGTIKRMDKGDAIIETGKIEARLPRSEMIPKENLRVADRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           ++  V    RG QV+LSRT P+F+ +LF  EVPEI  G++++KA +RD G RAK+AV + 
Sbjct: 184 FVLRVDHAARGQQVILSRTSPEFIRQLFENEVPEIEQGLLEIKAAARDAGVRAKIAVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVGMRGSRV AV  EL  E++DIV+WS D A FVI AL PA V  +V+DED
Sbjct: 244 DKRIDPIGTCVGMRGSRVTAVRNELGGEQVDIVLWSEDPAQFVIGALAPANVESIVVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L  AIG +GQNVRLAS+LTGW I+I+T EE    ++ + +     FM 
Sbjct: 304 KHAMDVVVDEENLPKAIGAKGQNVRLASELTGWQINIMTPEESLNRQEVERSGLRATFMN 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RAR  L    I  
Sbjct: 364 KLDVDEEVADILIDEGFTGIEEIAYVPMQELLEIEAFDEDTINELRARARNALLTEAIAQ 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           +++   L  +++L  + G+  ++   L E  + T +DLA  + D+L   +          
Sbjct: 424 EER---LETAQDLLELEGVTPELAAKLAERQVHTRDDLAELATDELAEIA---------- 470

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G  + +   +I+ AR    W ++E
Sbjct: 471 -------GLTEQEASDLIMRARAH--WFDEE 492


>gi|226329684|ref|ZP_03805202.1| hypothetical protein PROPEN_03594 [Proteus penneri ATCC 35198]
 gi|225202870|gb|EEG85224.1| hypothetical protein PROPEN_03594 [Proteus penneri ATCC 35198]
          Length = 502

 Score =  570 bits (1470), Expect = e-160,   Method: Composition-based stats.
 Identities = 209/515 (40%), Positives = 322/515 (62%), Gaps = 26/515 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIDVRVCIDRKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
              V+EV   T +I+L+ A+  DPSI++GG + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVAVDEVTQPTREITLEAAQYEDPSIELGGYIEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F++++GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDQFREQLGEIITGVVKKVNRENITLDLGNNAEAVILREDMLPRENFRPGDRLRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +YDVR E RG Q+ ++R+ P+ +V+LF +EVPEI   I+++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYDVRTETRGAQLFVTRSRPEMLVELFRIEVPEIGEEIIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLT-------GWTIDIITEEEDSINRQKDFNE 357
              ++V V    L+ AIGR GQNVRLA+QL         W ++++T +E +   Q + N 
Sbjct: 302 KCTMDVAVESSNLAQAIGRNGQNVRLAAQLLKKHRGDDKWELNVMTADELNAKHQAEANA 361

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
             + F + +++DE  A +LV EGF+ +EEL  V ISE+ +I+G DE+T   ++ RA+  L
Sbjct: 362 AIEIFTKHLDIDEDFATVLVEEGFSTLEELVYVPISELLAIDGLDEDTVEALRERAKAAL 421

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
             I++  ++ + +   +E+L ++ G++  +   L   GI T+EDLA   +DDL       
Sbjct: 422 TTIELAQKESLGDNQPAEDLLALEGLERSLAFDLAARGICTLEDLAEQGIDDLTDIE--- 478

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
                         G   ++   +I+ AR  + W 
Sbjct: 479 --------------GLNSERAGELIMAAR-NICWF 498


>gi|320330002|gb|EFW85989.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           glycinea str. race 4]
 gi|330875221|gb|EGH09370.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           glycinea str. race 4]
          Length = 493

 Score =  570 bits (1470), Expect = e-160,   Method: Composition-based stats.
 Identities = 208/511 (40%), Positives = 324/511 (63%), Gaps = 22/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + ++V+ EK +   V+   +  ++  A +  +    ++RVEIN +TG+   FR 
Sbjct: 2   SKEVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVELRVEINRQTGNYETFRR 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVE+  +++   ++++  A+ + P    G ++ + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WTVVEDEDLDDPAYELAVDQAQVKKPGAVAGDLIEEKIDSIEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G RV
Sbjct: 122 EAERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRIGVRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV 
Sbjct: 182 RALLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVR 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 242 SKDKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F
Sbjct: 302 EDAHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           ++ + VDE +A +LV EGF  +EE+A V + E+ +I+GFDEE   E++ RA++ L    I
Sbjct: 362 IEELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEEIVNELRARAKDRLLTKAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S+DDLL           
Sbjct: 422 ATEEKLADAHPAEDLLSLGGMDKDLAMELAVRGVITREDLAEQSIDDLLDIDGIDDDR-- 479

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                             +I+ AR    W E
Sbjct: 480 ---------------AGKLIMAARAH--WFE 493


>gi|239815725|ref|YP_002944635.1| NusA antitermination factor [Variovorax paradoxus S110]
 gi|239802302|gb|ACS19369.1| NusA antitermination factor [Variovorax paradoxus S110]
          Length = 494

 Score =  570 bits (1470), Expect = e-160,   Method: Composition-based stats.
 Identities = 202/514 (39%), Positives = 324/514 (63%), Gaps = 24/514 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + DA++ EK+++RDVV   +  ++ +A + L+    DIRV ++ ++GD   FR 
Sbjct: 2   NREMLMLVDAISREKNVERDVVFGAVESALAQATKKLHQGDVDIRVSVDRDSGDYETFRR 61

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             VV +   ++    +I L  A++  P I++G  + + +  +  GR+   +AKQVI+QK+
Sbjct: 62  WHVVPDEAGLQLPDQEILLFEAKEEMPDIEVGEYIEEAVDSVPIGRIGAMAAKQVILQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           R+AER+    +F  +  +I  GTVKR++ G++IV+ G  +G +RR E I++ENLR GDRV
Sbjct: 122 RDAEREMLLNDFMSRGDKIFVGTVKRLDKGDIIVEAGRVEGRLRRSEMIAKENLRNGDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ I +V    RG  ++LSR+ P+FM++LF  EVPEI  G++++K+ +RDPGSRAK+AV 
Sbjct: 182 RAMIMEVDLTLRGAPIILSRSAPEFMIELFRQEVPEIEQGLLEIKSCARDPGSRAKIAVL 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  +DP+G CVG+RG+RV AV  EL  E++DIV+WS D A FVI AL PA V+ +V+D
Sbjct: 242 SHDKRVDPIGTCVGVRGTRVNAVTNELAGERVDIVLWSEDPAQFVIGALAPANVSSIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+   ++V+V +E L++AIGR GQNVRLAS LTGW I+I+   E +  +  + +   + F
Sbjct: 302 EEKHAMDVVVDEENLAIAIGRGGQNVRLASDLTGWKINIMDANESAQKQASETDASRKLF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+ ++VDE IA +L++EGF  +EE+A V ISE+  IE FDE+T  E++ RA++ L  ++I
Sbjct: 362 MEKLDVDEEIADILISEGFNSLEEVAYVPISEMLEIEAFDEDTINELRSRAKDALLTMEI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++ +    VS+ L  + G+D ++   L E G+ T +DLA  +VD+L   +        
Sbjct: 422 AKEEGVE--TVSQNLRDLEGLDPELIPKLAEAGVHTRDDLADLAVDELTEIT-------- 471

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                    G   D  +++I+ AR    W   ++
Sbjct: 472 ---------GHSADDAKALILKAREH--WFAGQE 494


>gi|124267111|ref|YP_001021115.1| NusA antitermination factor [Methylibium petroleiphilum PM1]
 gi|124259886|gb|ABM94880.1| NusA antitermination factor [Methylibium petroleiphilum PM1]
          Length = 492

 Score =  570 bits (1470), Expect = e-160,   Method: Composition-based stats.
 Identities = 210/511 (41%), Positives = 327/511 (63%), Gaps = 24/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             +LL   DA+A EKS++RDVV   +  ++  A++ L+G   DIRV ++ +TG+   FR 
Sbjct: 2   NRDLLDFVDAIAREKSVERDVVFEAVEAALASASKKLHGGEVDIRVSVDRDTGEYETFRR 61

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             VV +   ++N   +  L  ARDR   I+ G  + + +  +  GR+  Q+AKQVI+QKV
Sbjct: 62  WLVVPDSAGLQNADAEELLTDARDRIEDIEEGDYIEEAIESVSIGRIGAQAAKQVILQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           R+AER++   +F  +  +I  GTVKR++ G+++V+ G  +G ++R E I++ENLR GDRV
Sbjct: 122 RDAEREQLLNDFLSRGDKIFVGTVKRLDKGDLVVESGRVEGRLKRSELIAKENLRTGDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++YI +V   QRGPQ++LSR+ P FMV+LF  EVPEI  G++++K+ +RD GSRAK+AV 
Sbjct: 182 RAYITEVDTTQRGPQIMLSRSAPGFMVELFRHEVPEIEQGLLEIKSCARDAGSRAKIAVL 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  +DP+G CVG+RGSRV AV  EL  E++DIV+WS D A FVI AL PA V  +V+D
Sbjct: 242 SHDKRVDPIGTCVGVRGSRVNAVTNELAGERVDIVLWSADPAQFVIGALAPANVQSIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+   ++V+V +E L++AIGR GQNVRLAS+LTGW I+I++ EE    +  +     + F
Sbjct: 302 EEKHAMDVVVDEENLAIAIGRGGQNVRLASELTGWRINIMSAEESQDKQATESESIRKLF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           ++ ++VD  +A +L+AEGF  +EE+A V + E+  +E FDE+T  E++ RA++ L  ++I
Sbjct: 362 VEKLDVDAEVADILIAEGFTSLEEVAYVPLQEMLEMESFDEDTVHELRTRAKDALLTMEI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+    VS++L  + G+D+++   L E GI T +DLA  +VD+L   +        
Sbjct: 422 AQEEKLE--SVSQDLRDLEGLDAELIARLAEGGIHTRDDLADLAVDELTELT-------- 471

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                    G   +Q +++I+ AR    W  
Sbjct: 472 ---------GVADEQAKALIMKAREH--WFT 491


>gi|330950306|gb|EGH50566.1| transcription elongation factor NusA [Pseudomonas syringae Cit 7]
          Length = 493

 Score =  570 bits (1470), Expect = e-160,   Method: Composition-based stats.
 Identities = 207/511 (40%), Positives = 323/511 (63%), Gaps = 22/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + ++V+ EK +   V+   +  ++  A +  +    ++RVEIN +TG+   FR 
Sbjct: 2   SKEVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVELRVEINRQTGNYETFRR 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVE+  +++   + ++  A+ + P    G ++ + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WTVVEDEDLDDPAHEFAVDQAQAKKPGAVAGDLIEEKIESIEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G RV
Sbjct: 122 EAERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV 
Sbjct: 182 RALLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVR 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 242 SKDKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F
Sbjct: 302 EDAHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           ++ + V+E +A +LV EGF  +EE+A V + E+ +I+GFDEE   E++ RA++ L    I
Sbjct: 362 IEELQVEEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEEIVNELRARAKDCLLTKAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S+DDLL           
Sbjct: 422 ATEEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLAEQSIDDLLDIDGIDDDR-- 479

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                             +I+ AR    W E
Sbjct: 480 ---------------AGKLIMAARAH--WFE 493


>gi|262277759|ref|ZP_06055552.1| transcription termination factor [alpha proteobacterium HIMB114]
 gi|262224862|gb|EEY75321.1| transcription termination factor [alpha proteobacterium HIMB114]
          Length = 514

 Score =  570 bits (1470), Expect = e-160,   Method: Composition-based stats.
 Identities = 270/505 (53%), Positives = 368/505 (72%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           +  EL++IADAVA EKSID+D+VLS M  +I+KAAR+ YG+ ++I V I+ ETG I L R
Sbjct: 7   DSTELIRIADAVAAEKSIDKDLVLSSMETAIEKAARTRYGSENEIYVSIDRETGIIELGR 66

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
            L+VVE+V     +ISL  A+ +DPS +IGG + + LPP+DFGR+A Q+AKQVI  ++R+
Sbjct: 67  KLKVVEKVLESHSEISLDEAKQKDPSAEIGGEIKEELPPIDFGRIAAQTAKQVISVQIRD 126

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AERDRQ+ EFKDKVGEI+SG VKR E+GN+IVDL  S+ +IRR+E I RENL+ GDRVK+
Sbjct: 127 AERDRQFNEFKDKVGEILSGIVKRSEFGNIIVDLQKSEAIIRREELIPRENLKNGDRVKA 186

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y YDVRRE +GPQ+ LSR HPQF+ KLF  EVPEIY G + +K+V+RDPGSRAK+ V S 
Sbjct: 187 YCYDVRRENKGPQIFLSRAHPQFLAKLFQQEVPEIYEGTISIKSVARDPGSRAKICVQSK 246

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           DSSIDPVGACVGMRGSRVQ +V EL+ EKIDI+ W+ D  + V++AL PA V KVVLD++
Sbjct: 247 DSSIDPVGACVGMRGSRVQTIVNELQGEKIDIINWTEDVGSLVVSALAPAEVMKVVLDQE 306

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
             R EV++ +  LS AIGRRGQNVRLAS+L  + IDI+T++E+S  RQ +F E +   ++
Sbjct: 307 NRRAEVVIDENNLSKAIGRRGQNVRLASKLLDYEIDILTDKEESEKRQSEFKENSSKLIK 366

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
           A+ +D  +A LLV+EGF  ++++    + E   I+GFDEETA E+Q RA+E+LE  +  +
Sbjct: 367 ALEIDTTMAQLLVSEGFNTIKDINNANVDEFLKIDGFDEETAKELQDRAKEFLEEEEKEI 426

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
             K++ELG+ E+L +  G+   + + LGE  IKT++D A  S D+++G  +   G  EKF
Sbjct: 427 ASKVQELGIEEDLANHKGLTLGMLLTLGEENIKTLKDFAELSTDEIVGGYDEIKGKREKF 486

Query: 485 DGFLSSLGTPKDQVESMIIHARYKM 509
           DG L     P+   E +I+ AR K+
Sbjct: 487 DGVLEEFNIPRKDAEDLIMRARKKV 511


>gi|312963084|ref|ZP_07777569.1| N utilization substance protein A [Pseudomonas fluorescens WH6]
 gi|311282595|gb|EFQ61191.1| N utilization substance protein A [Pseudomonas fluorescens WH6]
          Length = 493

 Score =  570 bits (1469), Expect = e-160,   Method: Composition-based stats.
 Identities = 209/511 (40%), Positives = 317/511 (62%), Gaps = 22/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + ++V+ EK +   V+   +  ++  A +  +    D+RVEIN  TG    FR 
Sbjct: 2   SKEVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVDLRVEINRHTGAYETFRR 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVEE  +++   +          P   +G VV + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WTVVEEDDLDDPAIETWPSKVAQTHPGAQVGDVVEEKIESIEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G R+
Sbjct: 122 EAERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRL 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV 
Sbjct: 182 RALLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVR 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 242 SKDKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F
Sbjct: 302 EDAHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           ++ + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L    I
Sbjct: 362 IEELEVDEELAQVLVDEGFTSLEEIAYVPVEEMLNIDGFDEDIVNELRARAKDRLLTKAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S+DDLL           
Sbjct: 422 ATEEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLAEQSIDDLLDIDGIDDDR-- 479

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                             +I+ AR    W E
Sbjct: 480 ---------------AGKLIMAARAH--WFE 493


>gi|332528133|ref|ZP_08404164.1| NusA antitermination factor [Rubrivivax benzoatilyticus JA2]
 gi|332112704|gb|EGJ12497.1| NusA antitermination factor [Rubrivivax benzoatilyticus JA2]
          Length = 492

 Score =  570 bits (1469), Expect = e-160,   Method: Composition-based stats.
 Identities = 205/511 (40%), Positives = 323/511 (63%), Gaps = 24/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + DA++ EK++DRDVV   +  ++  A + L+G   DIRV ++ ETG+   FR 
Sbjct: 2   NREMLMLVDAISREKTVDRDVVFGAVEAALASATKKLHGGEVDIRVAVDRETGEYETFRR 61

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             VV     ++N   ++ L  A+++   I++   + + +  +  GR+  Q+AKQVI+QK+
Sbjct: 62  WHVVPNEAGLQNADAEVLLFEAQEQIADIEVDDYIEESVDSVPIGRIGAQAAKQVILQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           R+AER++   +F  +  +I  GTVKR++ G++IV+ G  +G ++R E I +ENLR GDRV
Sbjct: 122 RDAEREQLLNDFLARGDKIFVGTVKRLDKGDIIVESGRVEGRLKRSEMIPKENLRSGDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +++I  V   QRGPQ++LSR+ P FMV+LF  EVPEI  G++++K+ +RDPGSRAK+AV 
Sbjct: 182 RAFILGVDPTQRGPQIMLSRSAPGFMVELFGQEVPEIELGLLEIKSCARDPGSRAKIAVV 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  +DP+G CVG+RGSRV  V TEL  E++DIV+WS D A FVI AL PA V  +V+D
Sbjct: 242 SHDRRVDPIGTCVGVRGSRVNGVTTELAGERVDIVLWSEDPAQFVIGALAPANVQSIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+   ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+T EE    +  +     + F
Sbjct: 302 EERHAMDVVVDEENLAIAIGRGGQNVRLASELTGWRINIMTAEESQAKQATETESVRKIF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           ++ ++VDE +A +L+AEGF  +EE+A V + E+  IE FDE+T  E++ RA++ L  ++I
Sbjct: 362 VEKLDVDEEVADILIAEGFTSLEEVAYVPLQEMLEIEAFDEDTVQELRTRAKDALLTMEI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             +   +   VS++L  + G+  ++   L + G+ T +DLA  +VD+L+  +        
Sbjct: 422 ERE--EKVEEVSQDLRDLEGLTPELIGKLSDGGVNTRDDLADLAVDELVEMT-------- 471

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                    G  + Q  ++I+ AR    W  
Sbjct: 472 ---------GVDETQARALIMKAREH--WFT 491


>gi|197287229|ref|YP_002153101.1| transcription elongation factor NusA [Proteus mirabilis HI4320]
 gi|194684716|emb|CAR46696.1| transcription elongation protein (N utilization substance protein
           A) [Proteus mirabilis HI4320]
          Length = 502

 Score =  570 bits (1469), Expect = e-160,   Method: Composition-based stats.
 Identities = 208/515 (40%), Positives = 320/515 (62%), Gaps = 26/515 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIDVRVCIDRKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV   T +I+L+ A+  +P I++GG + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVEEVTQPTREITLEAAKYEEPEIELGGFIEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F++++GEII+G VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAMVVDQFREQLGEIITGVVKKVNRDNITLDLGNNAEAVILREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +YDVR E RG Q+ ++R+ P+ +++LF +EVPEI   I+++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYDVRTETRGAQLFVTRSRPEMLIELFRIEVPEIGEEIIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLT-------GWTIDIITEEEDSINRQKDFNE 357
              ++V V    L+ AIGR GQNVRLA+QL         W ++++T +E +   Q + N 
Sbjct: 302 KCTMDVAVESSNLAQAIGRNGQNVRLAAQLLKKHRGDDKWELNVMTADELNAKHQAEANA 361

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
             + F + +++DE  A +LV EGF+ +EEL  V I E+ +I+  DEET   ++ RA+  L
Sbjct: 362 AIEIFTKHLDIDEDFATVLVEEGFSTLEELVYVPIDELLAIDSLDEETVEALRERAKAAL 421

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
             I++  ++ + +   +E+L ++ G++  +   L   GI T+EDLA   +DDL       
Sbjct: 422 TTIELAQKESLGDNQPAEDLLALEGMERSLAFDLAARGICTLEDLAEQGIDDLTDID--- 478

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
                         G   ++   +I+ AR  + W 
Sbjct: 479 --------------GLNSERAGELIMAAR-NICWF 498


>gi|212709946|ref|ZP_03318074.1| hypothetical protein PROVALCAL_00996 [Providencia alcalifaciens DSM
           30120]
 gi|212687458|gb|EEB46986.1| hypothetical protein PROVALCAL_00996 [Providencia alcalifaciens DSM
           30120]
          Length = 502

 Score =  570 bits (1469), Expect = e-160,   Method: Composition-based stats.
 Identities = 209/515 (40%), Positives = 320/515 (62%), Gaps = 26/515 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIDVRVEIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEV   T +I+L+ A+  DP++ +G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVIVEEVTMPTREITLEAAQFEDPALQLGEYVEDQIESVVFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+++ GEII+  VK+V   N+ +DLGN ++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDQFREQQGEIITAQVKKVNRENITLDLGNNAEAVILREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +YDVR E RG Q+ ++R+ P+ +V+LF +EVPEI   I+++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYDVRPEARGAQLFVTRSRPEMLVELFRIEVPEIGEEIIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLT-------GWTIDIITEEEDSINRQKDFNE 357
              ++V V    L+ AIGR GQNVRLA+QL         W ++++T EE +   Q + + 
Sbjct: 302 NCTMDVAVESSNLAQAIGRNGQNVRLAAQLLKIHRGDDKWELNVMTAEELNAKHQAEAHA 361

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
             + F + +++DE  A  LV EGF+ +EELA V I E+  I+G DEET   ++ RA+  L
Sbjct: 362 SIETFTKHLDIDEEFATTLVEEGFSTLEELAYVPIKELLEIDGLDEETVEVLRERAKAAL 421

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
             I++  ++ + +   +E+L ++ G+D  +   L  +GI T+EDLA   +DDL+      
Sbjct: 422 TTIELAQKESLGDNQPAEDLLNLDGMDRTLAYNLATHGICTLEDLAEQGIDDLIDIE--- 478

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
                         G   ++   +I+ AR  + W 
Sbjct: 479 --------------GLNNEKAGELIMAAR-NICWF 498


>gi|330504828|ref|YP_004381697.1| transcription elongation factor NusA [Pseudomonas mendocina NK-01]
 gi|328919114|gb|AEB59945.1| transcription elongation factor NusA [Pseudomonas mendocina NK-01]
          Length = 493

 Score =  570 bits (1469), Expect = e-160,   Method: Composition-based stats.
 Identities = 206/511 (40%), Positives = 318/511 (62%), Gaps = 22/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + ++V+ EK +   V+   +  ++  A +  +    D+RV IN + G    FR 
Sbjct: 2   SKEVLLVVESVSNEKGVPAGVIFEALELALATATKKRFEDEVDLRVSINRQNGSYETFRR 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV+E   E+   Q++  + +  +    IG V+ + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WTVVDESEFEDPAYQLTEDMPQAVEAKAKIGDVLEEKVESIEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ I RE  R G R+
Sbjct: 122 EAERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIIPRETFRVGVRL 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G++ VKA SRDPGSRAK+AV 
Sbjct: 182 RALLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIDVKAASRDPGSRAKIAVR 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 242 SKDKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V ++ L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  Q F
Sbjct: 302 EDAHAMDIAVGEDNLAQAIGRGGQNVRLASQLTGWTLNVMTEADIQAKQQAETGDIMQSF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           +  + VDE +A +LV EGF  +EE+A V + E+ SI+GFDE+   E++ RA++ L    I
Sbjct: 362 IDELEVDEELAQVLVEEGFTSLEEIAYVPMEEMLSIDGFDEDIVNELRARAKDRLLTKAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ +   +++L  + G+D  + + L   G+ T EDLA  S                
Sbjct: 422 ANEEKLADAHPADDLLELEGMDKALALELALRGVITREDLAEQS---------------- 465

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
             D  L   G  +++   +I+ AR    W E
Sbjct: 466 -IDDLLDIDGIDEERAGKLIMAARAH--WFE 493


>gi|330895306|gb|EGH27644.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           japonica str. M301072PT]
          Length = 493

 Score =  570 bits (1469), Expect = e-160,   Method: Composition-based stats.
 Identities = 206/511 (40%), Positives = 323/511 (63%), Gaps = 22/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + ++V+ EK +   V+   +  ++  A +  +    ++RVEIN +TG+   FR 
Sbjct: 2   SKEVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVELRVEINRQTGNYETFRR 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVE+  +++   ++++  A+ + P    G ++ + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WTVVEDEDLDDPAYELAVDQAQAKKPGAVAGDLIEEKIDSIEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G RV
Sbjct: 122 EAERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV 
Sbjct: 182 RALLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVR 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 242 SKDKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ A GR GQNVRLASQLTGWT++++TE +    +Q +  +  + F
Sbjct: 302 EDAHAMDIAVGADNLAQASGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           ++ + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L    I
Sbjct: 362 IEELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDIVNELRARAKDRLLTKAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S+DDLL           
Sbjct: 422 ATEEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLAEQSIDDLLDIDGIDDDR-- 479

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                             +I+ AR    W E
Sbjct: 480 ---------------AGKLIMAARAH--WFE 493


>gi|332283701|ref|YP_004415612.1| transcription elongation protein [Pusillimonas sp. T7-7]
 gi|330427654|gb|AEC18988.1| transcription elongation protein [Pusillimonas sp. T7-7]
          Length = 494

 Score =  570 bits (1469), Expect = e-160,   Method: Composition-based stats.
 Identities = 205/511 (40%), Positives = 318/511 (62%), Gaps = 24/511 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++ R+VV   + +++  A +  +   +DIRV I+  +G+   FR   
Sbjct: 4   EILLLVDALAREKNVGREVVFGALENALASAMKKRFKEDADIRVTIDRMSGEHEGFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    Q  L  A++  P I++G  + + L P +FGR+  Q+AKQ I+QK+R+
Sbjct: 64  VVPDDAGLQEPDQQELLSDAQEIVPGIEVGEYIEEQLEPEEFGRIGAQAAKQAILQKIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F ++   IISGTVKR++ G+ I++ G  +  + R ETI +EN+R GDR+++
Sbjct: 124 AEREQVLNDFLERGENIISGTVKRMDKGDAIIETGKIEARLPRSETIPKENIRIGDRIRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           ++  V    RG QV+LSRT P F+ +LF  EVPEI  G++++KA +RDPG RAK+AV + 
Sbjct: 184 WVLKVDHTARGQQVILSRTAPDFIRQLFENEVPEIEQGLLEIKAAARDPGVRAKIAVIAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVGMRGSRV AV  EL  E++DIV+W+ D A FVI AL PA V  +V+DED
Sbjct: 244 DKRIDPIGTCVGMRGSRVTAVRNELGGEQVDIVLWAEDPAEFVIGALAPAHVDSIVVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V  E L  AIG RGQNVRLAS+LTGW I+I+T EE    ++++     Q F+ 
Sbjct: 304 KHAMDVVVDAENLPKAIGARGQNVRLASELTGWQINIMTPEESQNRQEEERTGLRQAFIT 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RAR  L    I  
Sbjct: 364 KLDVDEEVADILIDEGFTGLEEIAYVPLQELLEIEAFDEDTINELRTRARNALLTEAIAQ 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           +++++   V+++L  + G++ ++   L EN + T++DLA  + D+L   S          
Sbjct: 424 EERVQ--TVAQDLLEVEGMNPELVAKLAENEVLTLDDLAELATDELAEIS---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G  +D+   MI+ AR    W ++E
Sbjct: 472 -------GMSEDEASQMIMRARAH--WFDEE 493


>gi|301170017|emb|CBW29621.1| transcription termination/antitermination L factor [Haemophilus
           influenzae 10810]
          Length = 495

 Score =  570 bits (1469), Expect = e-160,   Method: Composition-based stats.
 Identities = 193/512 (37%), Positives = 322/512 (62%), Gaps = 20/512 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + R+ +   +  +I  + +  +   +DIRV INP+TG+   FR 
Sbjct: 2   SKEILLAAEAVSNEKLLPREKIFEALESAIAISTKKKFEYETDIRVSINPKTGEFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV+  T +I+L+ A+  DP++ +G  V D +  + F R+A+Q+A+QVI  K+REA
Sbjct: 62  WLVVDEVKVPTKEITLEAAQFDDPNLQLGEYVEDQIESIAFDRIAMQTARQVISTKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F+++ G+I++GTVK+V   ++I+DLG  ++ +I R++ + REN RPGDRV+ 
Sbjct: 122 ERAKVVEQFREEEGKIVTGTVKKVSRDSIILDLGNKAEAMIAREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E +  Q+ ++R+ P+ +++LF +EVPEI   +++++  +RD GSRAK+AV S+
Sbjct: 182 VLYKVNPEGKTAQLFVTRSKPEMLIELFRIEVPEIGEEMIEIRGAARDAGSRAKIAVKSN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQ +  EL  E++DIV+W  + A FVINA+ PA V+ +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQVITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T +E +   Q +  +    F+ 
Sbjct: 302 NHSMDIAVEADNLAQAIGRNGQNVRLATQLTGWTLNVMTTDELNAKHQAEDKKVLNLFIN 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLEGIDIT 423
           A+ +DE  A +LV EGF  +EE+A V ++E+ +I+G  DE+   E+Q RA+  +    + 
Sbjct: 362 ALELDEEFAQILVEEGFTSLEEIAYVPMNELTAIDGLEDEDLVEELQTRAKNAITAAAVA 421

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            ++ +++  + + L ++ G++  + + L E  I T+E+LA   VDDL    E        
Sbjct: 422 EEEALKKANIEDRLLNLEGMNRHVAIKLAEKQITTLEELAEQGVDDLTDIEE-------- 473

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                       +Q   +I+ AR  + W  +E
Sbjct: 474 ---------LTAEQAADLIMAAR-NICWFGEE 495


>gi|119944578|ref|YP_942258.1| NusA antitermination factor [Psychromonas ingrahamii 37]
 gi|119863182|gb|ABM02659.1| NusA antitermination factor [Psychromonas ingrahamii 37]
          Length = 499

 Score =  569 bits (1468), Expect = e-160,   Method: Composition-based stats.
 Identities = 193/514 (37%), Positives = 316/514 (61%), Gaps = 22/514 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK + R+ +   +  ++  A +  Y    ++RVEI+ E+G    FR 
Sbjct: 2   NKEILLVVEAVSNEKGLPREAIFQALESALAIATKKKYENDIEVRVEIDRESGKFDTFRR 61

Query: 66  LEVVE---EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             V+E   ++EN   +++ + A    P I +G  + D +  + F R+  Q+AKQVI+QKV
Sbjct: 62  WLVLEPDAKMENPCKEMTFEAAEYETPEIKVGDYIEDEIESVTFDRITTQTAKQVIVQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER +   ++ ++ GE+I+G VKR+   N+++DLG N++ VI RDE + REN RPGDR
Sbjct: 122 REAERAQVVAQYAEQEGELITGIVKRMNRDNILLDLGGNAEAVIFRDEMLPRENFRPGDR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++  ++ VR E RG Q+ ++RT P+ +++LF +EVPEI   ++ +   +RDPGSRAK+AV
Sbjct: 182 LRGLLFAVRPEARGAQLFVTRTQPEMLIELFRLEVPEIAEEMIDLMGAARDPGSRAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+D  IDPVGACVGMRG+RVQAV +EL  E++DI++W  + A + INA+ PA V  VV+
Sbjct: 242 KSNDKRIDPVGACVGMRGARVQAVSSELGGERVDIILWDENPAQYAINAMSPADVVSVVI 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   +++ V ++ L+ AIGR GQNVRLASQLTGW ++++T  +     Q +       
Sbjct: 302 DEDAHSMDIAVEEDNLAQAIGRNGQNVRLASQLTGWELNVMTVVQLREKHQAEAASVISV 361

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F +A+ +DE  A +LV EGF+ +EE+A V ++E+ +I+G DE    E++ RA+++L    
Sbjct: 362 FTEALEIDEEFAAVLVEEGFSSLEEIAYVPLNELLAIDGLDEALIDELRVRAKDFLATKA 421

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           +  ++ + +   +++L ++ G++  +   L   GI T+E+LA  +VDDLL   E      
Sbjct: 422 LVDEEGLEDTKPADDLLALEGLEGHLAYVLASKGIITLENLAEQAVDDLLEIEE------ 475

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                        + +   +I+ AR  + W  ++
Sbjct: 476 -----------LNEAKAGELIMAAR-NICWFSED 497


>gi|71083093|ref|YP_265812.1| transcription termination factor [Candidatus Pelagibacter ubique
           HTCC1062]
 gi|71062206|gb|AAZ21209.1| transcription termination factor [Candidatus Pelagibacter ubique
           HTCC1062]
          Length = 517

 Score =  569 bits (1468), Expect = e-160,   Method: Composition-based stats.
 Identities = 242/506 (47%), Positives = 350/506 (69%), Gaps = 3/506 (0%)

Query: 4   ANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLF 63
           +++LELL+IA+AVA EKSID+++++  M   I KAA+S +G  ++I+V I+ E+GDI +F
Sbjct: 6   SDKLELLRIAEAVALEKSIDKELIIDSMETGIAKAAKSKFGQDNEIKVLIDRESGDIGIF 65

Query: 64  RLLEVVEEVENYTCQISLKVA---RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           R L VVE+ EN   +I+L+ A    + +    IG  +  PLP  DFGR+A Q+AKQVI  
Sbjct: 66  RKLIVVEKPENTNTEINLQDAIILNEANKDKKIGDEILQPLPSFDFGRIAAQTAKQVISF 125

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
            VREAER+RQY +F DK   I+SG VKR+E+GNVIVDLG ++ +I+++E I REN++ GD
Sbjct: 126 NVREAERERQYNDFIDKKDSILSGIVKRLEFGNVIVDLGRTEAIIQKNEMIPRENIKAGD 185

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RVK+Y YDV+RE RG Q+ LSR HP+FM KLF  EVPEIY+G++++K+ +RDPGSRAK+ 
Sbjct: 186 RVKAYCYDVKREARGQQIFLSRAHPKFMEKLFVQEVPEIYDGLIEIKSSARDPGSRAKIC 245

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V + D+S+DPVGACVGMRGSRVQAVV EL+ EKIDIV WS D A  V NAL PA V +V 
Sbjct: 246 VKAVDTSLDPVGACVGMRGSRVQAVVNELQGEKIDIVNWSEDPAIVVSNALSPAEVQRVN 305

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +D    +++VI+ +E LS AIGRRGQNVRLA++L  + I+I+T+ EDS  RQ +F E+T+
Sbjct: 306 VDSVAKKLDVILTEENLSKAIGRRGQNVRLATKLLNYEINIMTDAEDSERRQSEFKEKTE 365

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F++ + +DE +  LLVAEGF+ + ++       +  IEG +E+TA  +  RA+E+ +  
Sbjct: 366 NFVKNLELDETLGQLLVAEGFSSISDIKDSSPENLMKIEGIEEDTAKALIERAKEFYQKD 425

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
              + ++I++LG+ ++L +  G+   + V LGE  I  +ED A  + D+L G  +   G 
Sbjct: 426 QEDITQRIKDLGLQDDLINHKGLTPGMLVTLGEQKILKLEDFADLASDELTGGYDVVKGE 485

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHAR 506
             K  G+L      K + + +I+ AR
Sbjct: 486 RIKIQGYLEDFALSKTEADELIMSAR 511


>gi|261345162|ref|ZP_05972806.1| L factor protein [Providencia rustigianii DSM 4541]
 gi|282566853|gb|EFB72388.1| L factor protein [Providencia rustigianii DSM 4541]
          Length = 502

 Score =  569 bits (1468), Expect = e-160,   Method: Composition-based stats.
 Identities = 207/515 (40%), Positives = 318/515 (61%), Gaps = 26/515 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++RVEI+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIEVRVEIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +V+EV   T +I+L  A+  DP + +GG V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLIVDEVTMPTREITLDAAQFEDPELQLGGYVEDQIESVVFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+++ GEII+  VK+V   N+ +DLGN ++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDQFREQQGEIITAQVKKVNRENITLDLGNNAEAVILREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +YDVR E RG Q+ ++R+ P+ +++LF +EVPEI   I+++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYDVRPEARGAQLFVTRSRPEMLIELFRIEVPEIGEEIIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLT-------GWTIDIITEEEDSINRQKDFNE 357
              ++V V    L+ AIGR GQNVRLA+QL         W ++++T EE +   Q + + 
Sbjct: 302 NCTMDVAVESSNLAQAIGRNGQNVRLAAQLLKIHRGDDKWELNVMTAEELNAKHQAEAHA 361

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
             + F + +++DE  A  LV EGF+ +EELA V I E+  I+G DEET   ++ RA+  L
Sbjct: 362 SIETFTKHLDIDEEFATTLVEEGFSTLEELAYVPIKELLEIDGLDEETVEVLRERAKAAL 421

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
             I++  ++ + +   +E+L ++ G+D  +   L   GI T+EDLA   +DDL+      
Sbjct: 422 TTIELAQKESLGDNQPAEDLLNLDGMDRTLAYNLATRGICTLEDLAEQGIDDLIDIE--- 478

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
                         G   ++   +I+ AR  + W 
Sbjct: 479 --------------GLNNEKAGELIMAAR-NICWF 498


>gi|121998529|ref|YP_001003316.1| transcription elongation factor NusA [Halorhodospira halophila SL1]
 gi|121589934|gb|ABM62514.1| NusA antitermination factor [Halorhodospira halophila SL1]
          Length = 501

 Score =  569 bits (1468), Expect = e-160,   Method: Composition-based stats.
 Identities = 222/521 (42%), Positives = 334/521 (64%), Gaps = 25/521 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +A + EK +DR+V+   +  ++  A R  +    D RV ++ ++GD + +R 
Sbjct: 2   SKEILLVVEATSNEKGVDREVIFEAIEAALASATRKRHLEDIDARVAVDRQSGDYATYRR 61

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            EVV +   VE    QISL+ AR+RD + ++GG V +P+  +DFGR+A Q+AKQVI+QKV
Sbjct: 62  WEVVPDEESVEEPQRQISLERARERDENAEVGGYVEEPIESVDFGRIAAQTAKQVIVQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER +    ++ ++GE+++G+VKR+E G+ I+DLG N++ ++ R++ I RE +RP DR
Sbjct: 122 REAERAQIVDAYQHRIGELVNGSVKRMERGSAIIDLGENTEALVSREDLIPREAVRPNDR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ Y+ DVR E RGPQ+ +SRT  +F+V+LF +EVPE+  G++++   +RDPG RAK++V
Sbjct: 182 IRGYLRDVRSEPRGPQLFVSRTANEFLVELFKIEVPEVGQGLIEILGAARDPGMRAKISV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            + D  IDPVGACVGMRGSRVQAV  EL  E+IDI+ W  + A FVINAL PA V  +V+
Sbjct: 242 RALDPRIDPVGACVGMRGSRVQAVSNELSGERIDIIPWDENPAQFVINALAPAEVESIVV 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED G ++V V +EQLS AIGR GQNVRLAS+LTGW ++++T EE     +++  E  Q 
Sbjct: 302 DEDRGAMDVAVAEEQLSQAIGRGGQNVRLASELTGWELNVMTAEEAEAKSEREAGELVQL 361

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F++ ++VDE +A +LV EGF+ +EE+A V  +E+  IE FDE+    ++ RAR+ L    
Sbjct: 362 FVEHLDVDEDVAGVLVQEGFSSIEEVAYVPTAELLEIEEFDEDIVEALRSRARDVLLAQA 421

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           I   ++  E   SEEL ++ G+D +   AL E G+ T+EDLA  SVDDL+          
Sbjct: 422 IA--EEANENQPSEELLALEGMDEQTAKALAERGVATVEDLADQSVDDLMEVE------- 472

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEV 522
                     G  +D+   +I+ AR    W    +  +   
Sbjct: 473 ----------GMDEDRAGQLIMKAREP--WFAASEGGERAD 501


>gi|42144|emb|CAA25200.1| unnamed protein product [Escherichia coli]
          Length = 494

 Score =  569 bits (1468), Expect = e-160,   Method: Composition-based stats.
 Identities = 192/511 (37%), Positives = 304/511 (59%), Gaps = 20/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVDEVTQPTKEITLEAARYEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F++  GEII+G VK+V   N+ +DLGN ++ VI R+++   +         +
Sbjct: 122 ERAMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDSCRVKTFALATAFVA 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
                 R   G Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 CSIPFAR-NGGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 240

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 241 DKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 300

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +     F +
Sbjct: 301 KHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTK 360

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L  I    
Sbjct: 361 YLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNALATIAQAQ 420

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL              
Sbjct: 421 EESLGDNKPADDLLNLEGVDRDLAFKLAARGVCTLEDLAEQGIDDLADIE---------- 470

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   ++  ++I+ AR  + W   E
Sbjct: 471 -------GLTDEKAGALIMAAR-NICWFGDE 493


>gi|146308624|ref|YP_001189089.1| transcription elongation factor NusA [Pseudomonas mendocina ymp]
 gi|145576825|gb|ABP86357.1| NusA antitermination factor [Pseudomonas mendocina ymp]
          Length = 493

 Score =  569 bits (1468), Expect = e-160,   Method: Composition-based stats.
 Identities = 207/511 (40%), Positives = 318/511 (62%), Gaps = 22/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + ++V+ EK +   V+   +  ++  A +  +    D+RV IN + G    FR 
Sbjct: 2   SKEVLLVVESVSNEKGVPAGVIFEALELALATATKKRFEDEVDLRVSINRQNGSYETFRR 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV+E   E+   Q++  + +  +    IG V+ + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WTVVDESEFEDPAYQLTEDMPQAVEAKAKIGDVLEEKVESIEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ I RE  R G R+
Sbjct: 122 EAERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIIPRETFRVGVRL 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G++ VKA SRDPGSRAK+AV 
Sbjct: 182 RALLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIDVKAASRDPGSRAKIAVR 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 242 SKDKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V ++ L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  Q F
Sbjct: 302 EDAHAMDIAVAEDNLAQAIGRGGQNVRLASQLTGWTLNVMTEADIQAKQQAETGDIMQSF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           +  + VDE +A +LV EGF  +EE+A V + E+ SI+GFDEE   E++ RA++ L    I
Sbjct: 362 IDELEVDEELAQVLVEEGFTSLEEIAYVPMEEMLSIDGFDEEIVNELRARAKDRLLTKAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ +   +++L  + G+D  + + L   G+ T EDLA  S                
Sbjct: 422 ANEEKLADAHPADDLLELEGMDKALALELALRGVITREDLAEQS---------------- 465

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
             D  L   G  +++   +I+ AR    W E
Sbjct: 466 -IDDLLDIDGIDEERAGKLIMAARAH--WFE 493


>gi|171058383|ref|YP_001790732.1| NusA antitermination factor [Leptothrix cholodnii SP-6]
 gi|170775828|gb|ACB33967.1| NusA antitermination factor [Leptothrix cholodnii SP-6]
          Length = 492

 Score =  569 bits (1468), Expect = e-160,   Method: Composition-based stats.
 Identities = 202/511 (39%), Positives = 324/511 (63%), Gaps = 24/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL + DA++ EK++DR+VV   +  ++  A + LY    DIRV ++ +TG    FR 
Sbjct: 2   NRELLMLVDAISREKNVDREVVFGAVEAALASATKKLYEGEVDIRVAVDRDTGVYETFRR 61

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             VV +   ++    +I    A+++   I++   + + +  +  GR+  Q+AKQVI+QK+
Sbjct: 62  WHVVPDEAGLQLPEAEILHFEAKEQIDDIEVDDYLEESVESVPIGRIGAQAAKQVILQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           R+AER++   +F  +  +I  GTVKR++ G+++V+ G  +G +RR E I +ENLR GDRV
Sbjct: 122 RDAEREQLLNDFMSRGEKIFVGTVKRLDKGDLVVESGRVEGRLRRSELIPKENLRTGDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ I +V    RGPQ++LSR+ P+FM++LF +EVPEI  G++++K+ +RD GSRAK+AV 
Sbjct: 182 RAIIVEVDPTLRGPQIVLSRSAPEFMIELFRLEVPEIEQGLLEIKSCARDSGSRAKIAVV 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  +DP+G CVG+RGSRV AV  EL  E++DIV+WS D A FVI AL PA V  +V+D
Sbjct: 242 SHDRRVDPIGTCVGVRGSRVNAVTNELAGERVDIVLWSEDPAQFVIGALAPANVQSIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+   ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+T EE    +  + +   + F
Sbjct: 302 EEKHAMDVVVDEENLAIAIGRGGQNVRLASELTGWRINIMTAEESQAKQATESDSIRKLF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           +  ++VDE +A +L+AEGF  +EE+A V + E+  IE FDE+T  E++ RA++ L  ++I
Sbjct: 362 VDKLDVDEDVADILIAEGFTSLEEVAYVPMQEMLEIESFDEDTVHELRTRAKDALLTMEI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ E  VS++L  + G+++++   L + GI T +DLA  +VD+L   +        
Sbjct: 422 VNEEKVDE--VSQDLRDLEGLNAELIGKLSDGGIHTRDDLADLAVDELTEMT-------- 471

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                    G   +  +++I+ AR    W  
Sbjct: 472 ---------GIDDNAAKALILKAREH--WFT 491


>gi|237798562|ref|ZP_04587023.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           oryzae str. 1_6]
 gi|331021415|gb|EGI01472.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           oryzae str. 1_6]
          Length = 493

 Score =  569 bits (1467), Expect = e-160,   Method: Composition-based stats.
 Identities = 207/511 (40%), Positives = 324/511 (63%), Gaps = 22/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + ++V+ EK +   V+   +  ++  A +  +    ++RVEIN +TG+   FR 
Sbjct: 2   SKEVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVELRVEINRQTGNYETFRR 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVE+  +++   ++++  A+ + P    G ++ + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WTVVEDEDLDDPAYELAVDQAQAKRPGAVAGELIEEKIDSIEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G RV
Sbjct: 122 EAERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV 
Sbjct: 182 RALLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVR 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 242 SKDKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F
Sbjct: 302 EDAHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           ++ + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L    I
Sbjct: 362 IEELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDIVNELRARAKDRLLTKAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S+DDLL           
Sbjct: 422 ATEEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLAEQSIDDLLDIDGIDDDR-- 479

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                             +I+ AR    W E
Sbjct: 480 ---------------AGKLIMAARAH--WFE 493


>gi|291613948|ref|YP_003524105.1| NusA antitermination factor [Sideroxydans lithotrophicus ES-1]
 gi|291584060|gb|ADE11718.1| NusA antitermination factor [Sideroxydans lithotrophicus ES-1]
          Length = 491

 Score =  569 bits (1467), Expect = e-160,   Method: Composition-based stats.
 Identities = 203/508 (39%), Positives = 320/508 (62%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFRLL 66
           E+L + DA+A EK++D+++V   +  ++  A +  +    +D+RV I+ ++G+   FR  
Sbjct: 4   EVLLLVDALAREKNVDKEIVFGALESALASATKKRFSDEEADVRVSIDRQSGEYESFRRW 63

Query: 67  EVVEEV--ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           +V+++   E     I L+ A+ RDP I +   + +PL  +DFGR+  Q+AKQVI QK+R+
Sbjct: 64  QVMDDETFETPELHIKLEEAQKRDPHIQLEEFIEEPLENIDFGRIGAQAAKQVIFQKIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F ++   ++SGT+KR+E GN IV+ G  + ++ RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILADFMERNEHLVSGTIKRIERGNAIVEFGKIEALLPRDQMIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+  V R  RGPQ++LSR   +F+ KLF +EVPEI  G++++ + +RDPGSRAK+AV S 
Sbjct: 184 YLLRVDRTVRGPQIILSRITTEFLSKLFELEVPEIEEGLLEIVSAARDPGSRAKIAVRSH 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  +DP+G CVGMRGSRVQAV  EL  E++DI++WS + AT+VINAL PA VT +V+DE+
Sbjct: 244 DQRLDPIGTCVGMRGSRVQAVTNELAGERVDIILWSEEPATYVINALAPAEVTSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L+ AIGR GQNVRLAS +TGW I+++T E+ +   +++F++    F+ 
Sbjct: 304 KHSMDVVVEEENLAQAIGRGGQNVRLASDMTGWEINLMTVEQSAEKNEQEFSKIRDLFVA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +LV EGF  +EE+A V + E+ +IE FDE T  E++ RAR  L    I  
Sbjct: 364 KLDVDEEVADILVQEGFNTLEEVAYVPLEEMQAIESFDEATVNELRSRARNALLTAAIVN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++++      E+L  I G+D +    L   G+ T E LA    D+L+  +          
Sbjct: 424 EEQVEHN--IEDLLKIAGMDEETARTLAGKGVGTQEQLADLDGDELVEMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G   ++   +I+ AR    W 
Sbjct: 472 -------GMDAERANQLIMTARAP--WF 490


>gi|300721537|ref|YP_003710812.1| transcription pausing L factor [Xenorhabdus nematophila ATCC 19061]
 gi|297628029|emb|CBJ88578.1| transcription pausing; L factor [Xenorhabdus nematophila ATCC
           19061]
          Length = 502

 Score =  569 bits (1467), Expect = e-160,   Method: Composition-based stats.
 Identities = 208/518 (40%), Positives = 320/518 (61%), Gaps = 26/518 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALEIALATATKKKYEQEIDVRVCIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV   T +I+L  A+  DP I++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVEEVTLPTREITLDAAKFEDPEIELGSYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+++ GEI++  VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAMVVDQFREQQGEIVTAQVKKVNRENITLDLGNNAEAVILREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +YDVR E RG Q+ ++R+ P+ +V+LF +EVPEI   I+++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYDVRPEARGAQLFITRSRPEMLVELFRIEVPEIGEEIIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLT-------GWTIDIITEEEDSINRQKDFNE 357
              ++V V    L+ AIGR GQNVRLA+QL         W ++++T EE     Q + + 
Sbjct: 302 NCTMDVAVENSNLAQAIGRNGQNVRLAAQLLKKHRGDDKWELNVMTAEELQAKHQAEAHA 361

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F + +++DE  A +LV EGF+ +EELA V I+E+ ++EG DEE+   ++ RA+  L
Sbjct: 362 SIDTFTKHLDIDEDFATVLVEEGFSTLEELAYVPINELLAVEGLDEESVEVLRERAKAAL 421

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
             +++  ++ + +   +E+L ++PG++  +   L  +GI T+EDLA   +DDL       
Sbjct: 422 TTLELAQKESLSDQQPAEDLLNLPGMERTLAFNLAAHGICTLEDLAEQGIDDLSDIE--- 478

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                         G   ++   +I+ AR  + W   +
Sbjct: 479 --------------GLNDEKAGELIMAAR-NICWFGDD 501


>gi|330807482|ref|YP_004351944.1| transcription elongation factor [Pseudomonas brassicacearum subsp.
           brassicacearum NFM421]
 gi|327375590|gb|AEA66940.1| Putative transcription elongation factor [Pseudomonas
           brassicacearum subsp. brassicacearum NFM421]
          Length = 493

 Score =  569 bits (1467), Expect = e-160,   Method: Composition-based stats.
 Identities = 210/511 (41%), Positives = 318/511 (62%), Gaps = 22/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + ++V+ EK +  +V+   +  ++  A +  +    D+RVEIN  TG    FR 
Sbjct: 2   SKEVLLVVESVSNEKGVPANVIFEALELALATATKKRFEDEVDLRVEINRHTGAYETFRR 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVEE  +++   +       +  P   +G VV + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WTVVEEADLDDPAIETWPSKVAETHPGAKVGDVVEEKIESIEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G R+
Sbjct: 122 EAERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRL 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV 
Sbjct: 182 RALLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVR 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 242 SKDKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F
Sbjct: 302 EDAHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           +  + VDE +A +LV EGF  +EE+A V + E+ +I+GFDEE   E++ RA++ L    I
Sbjct: 362 IDELEVDEELAQVLVDEGFTSLEEIAYVPVEEMLNIDGFDEEIVNELRARAKDRLLTKAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S+DDLL           
Sbjct: 422 ATEEKLADAHPAEDLLSLEGMDKDLAMELAVRGVITREDLAEQSIDDLLDIDGIDDDR-- 479

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                             +I+ AR    W E
Sbjct: 480 ---------------AGKLIMAARAH--WFE 493


>gi|319896984|ref|YP_004135179.1| transcription elongation protein nusa [Haemophilus influenzae
           F3031]
 gi|317432488|emb|CBY80845.1| Transcription elongation protein NusA [Haemophilus influenzae
           F3031]
          Length = 495

 Score =  569 bits (1467), Expect = e-160,   Method: Composition-based stats.
 Identities = 194/512 (37%), Positives = 322/512 (62%), Gaps = 20/512 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + R+ +   +  +I  + +  +   +DIRV INP+TG+   FR 
Sbjct: 2   SKEILLAAEAVSNEKLLPREKIFEALESAIAISTKKKFEYETDIRVSINPKTGEFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV+  T +I+L+ A+  DP++ +G  V D +  + F R+A+Q+A+QVI  K+REA
Sbjct: 62  WLVVDEVKVPTKEITLEAAQFDDPNLQLGEYVEDQIESIAFDRIAMQTARQVISTKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F+++ G+I++GTVK+V   ++I+DLG  ++ +I R++ + REN R GDRV+ 
Sbjct: 122 ERAKVVEQFREEEGKIVTGTVKKVSRDSIILDLGNKAEAMIAREDMLPRENFRLGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E +  Q+ ++R+ P+ +++LF +EVPEI   +++++  +RD GSRAK+AV S+
Sbjct: 182 VLYKVNPEGKTAQLFVTRSKPEMLIELFRIEVPEIGEEMIEIRGAARDAGSRAKIAVKSN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQ +  EL  E++DIV+W  + A FVINA+ PA V+ +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQVITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T +E +   Q + N+    F+ 
Sbjct: 302 NHSMDIAVEADNLAQAIGRNGQNVRLATQLTGWTLNVMTTDELNAKHQAEDNKVLNLFIN 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLEGIDIT 423
           A+ +DE  A +LV EGF  +EE+A V ++E+ +I+G  DE+   E+Q RA+  +    + 
Sbjct: 362 ALELDEEFAQILVEEGFTSLEEIAYVPMNELTAIDGLEDEDLVEELQTRAKNAITAAAVA 421

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            ++ +++  V + L ++ G++  + + L E  I T+E+LA   VDDL    E        
Sbjct: 422 EEEALKKANVEDRLLNLEGMNRHVAIKLAEKQITTLEELAEQGVDDLTDIEE-------- 473

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                       +Q   +I+ AR  + W  +E
Sbjct: 474 ---------LTAEQAADLIMAAR-NICWFGEE 495


>gi|83644100|ref|YP_432535.1| transcription elongation factor NusA [Hahella chejuensis KCTC 2396]
 gi|83632143|gb|ABC28110.1| N utilization substance protein A [Hahella chejuensis KCTC 2396]
          Length = 497

 Score =  569 bits (1467), Expect = e-160,   Method: Composition-based stats.
 Identities = 200/515 (38%), Positives = 327/515 (63%), Gaps = 23/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFR 64
             E+L + +AV+ EK +D+DV+   +  ++  A +  Y    +DIRV+I+ +TG+   FR
Sbjct: 2   NKEILLVVEAVSNEKGVDKDVIFEAIELALATATKKRYEDEEADIRVDIDRKTGEYQAFR 61

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VV+   V     +++L+   +    +  G    + +  + FGR+  Q+AKQ+I+QKV
Sbjct: 62  RWLVVDNDAVPALGTELTLEEVHESGLDLKPGDTHEEEVEAVAFGRIGAQAAKQIIVQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER +    +++KVG++++G VK+V   N+IVDLG N++ ++ +D+ ISRE  R GDR
Sbjct: 122 REAERTKIVDSYREKVGDLVNGVVKKVTRDNIIVDLGANAEALLPKDQLISRETYRVGDR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ + D+R + RGPQ++LSR   Q +++LF +EVPEI   ++++KA +RDPGSRAK+AV
Sbjct: 182 VRALLLDIRMDNRGPQLILSRACSQMLIELFRIEVPEIAEEVIEIKAAARDPGSRAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGACVGMRGSRVQAV +EL +E+IDIV+W  + A  VINA+ PA V  +++
Sbjct: 242 KTNDGRIDPVGACVGMRGSRVQAVSSELGNERIDIVLWDDNPAQLVINAMAPAEVASIIM 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   ++V V ++ L++AIGR GQNV+LAS++TGW I+++TEE+    ++++F      
Sbjct: 302 DEDSHTMQVAVSEDNLAMAIGRSGQNVKLASEMTGWEINVLTEEQAGQQQEEEFRRYVDC 361

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F+  + V+E +A +L +EGF  +EE+A V + E+ +I+ FDE+   E++ RA+  L    
Sbjct: 362 FIDQLGVEEDLAEVLASEGFTSLEEVAYVPMEEMLAIDDFDEDLVTELRKRAKNVLINQA 421

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           +  ++++ +   +E+L ++ G+D  +   L   GI TMEDLA  SVDDLL   E      
Sbjct: 422 LASEEQLEKAEPAEDLLNMEGMDRHLAFVLASKGIVTMEDLAEQSVDDLLDIDE------ 475

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                        +++   +I+ AR    W E+++
Sbjct: 476 -----------VDEERAAQLIMTARKP--WFEEQQ 497


>gi|332528893|ref|ZP_08404863.1| NusA antitermination factor [Hylemonella gracilis ATCC 19624]
 gi|332041650|gb|EGI78006.1| NusA antitermination factor [Hylemonella gracilis ATCC 19624]
          Length = 511

 Score =  569 bits (1467), Expect = e-160,   Method: Composition-based stats.
 Identities = 199/532 (37%), Positives = 326/532 (61%), Gaps = 28/532 (5%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M S    ELL + +A++ EK+++RDVV   +  ++ +A + LY    DIRV ++ +TG  
Sbjct: 1   MSSIKNSELLMLVEAISREKNVERDVVFGAVEAALAQATKKLYEGDVDIRVAVDRDTGLY 60

Query: 61  SLFRLLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQV 117
             FR   VV +   ++    +I L  A+++ P I++   + + +  +  GR+   +AKQV
Sbjct: 61  ETFRRWHVVPDEAGLQLPDQEILLFEAKEQIPDIEVDEYIEEAVESVPIGRIGAMAAKQV 120

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR 177
           I+QK+R+AER+    +F  +  +I  G+VKR++ G++IV+ G  +G ++R+E I +EN R
Sbjct: 121 ILQKIRDAEREMLLNDFMSRGEKIFVGSVKRMDKGDLIVESGRVEGRLKRNEMIPKENFR 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            GDRV++ I +V  EQRGP +LLSR+ P+FM++LF  EVPEI  G++++K+ +RD GSRA
Sbjct: 181 AGDRVRAMIMEVNTEQRGPAILLSRSAPEFMIELFRQEVPEIEQGLLEIKSCARDAGSRA 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  +DP+G CVG+RG+RV AV  EL  E++DIV+WS D A FVI AL PA V+
Sbjct: 241 KIAVLSHDKRVDPIGTCVGVRGARVNAVTNELAGERVDIVLWSEDPAQFVIGALAPANVS 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            +V+DE+   ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+   E +  +  +   
Sbjct: 301 SIVVDEEKHAMDVVVDEENLAIAIGRGGQNVRLASELTGWKINIMDAAESAQKQADETTT 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
             + FM+ ++VDE IA +L+ EGF  +EE+A V + E+  IE FDE+T  E++ RA++ L
Sbjct: 361 LRKLFMEKLDVDEEIADILITEGFTSLEEVAYVPLQEMLEIESFDEDTVNELRARAKDAL 420

Query: 418 EGIDITLQKKIRELGVSEELCSIPG----IDSKIKVALGENGIKTMEDLAGCSVDDLLGW 473
             ++I  ++ + E  VS++L  +      + + +   L + G+ T++DLA  ++D+L   
Sbjct: 421 LTLEIAREESVDE--VSQDLRDLQFQGKPLSADVIAKLADGGVHTLDDLADLAIDELTVI 478

Query: 474 SENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
           +                 G  ++  +++I+ AR    W   E         +
Sbjct: 479 T-----------------GHSEEDAKALILKAREH--WFTDEPATAASGTSS 511


>gi|319776227|ref|YP_004138715.1| Transcription elongation protein NusA [Haemophilus influenzae
           F3047]
 gi|317450818|emb|CBY87040.1| Transcription elongation protein NusA [Haemophilus influenzae
           F3047]
          Length = 495

 Score =  568 bits (1466), Expect = e-160,   Method: Composition-based stats.
 Identities = 194/512 (37%), Positives = 322/512 (62%), Gaps = 20/512 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + R+ +   +  +I  + +  +   +DIRV INP+TG+   FR 
Sbjct: 2   SKEILLAAEAVSNEKLLPREKIFEALESAIAISTKKKFEYETDIRVSINPKTGEFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV+  T +I+L+ A+  DP++ +G  V D +  + F R+A+Q+A+QVI  K+REA
Sbjct: 62  WLVVDEVKVPTKEITLEAAQFDDPNLQLGEYVEDQIESIAFDRIAMQTARQVISTKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER +   +F+++ G+I++GTVK+V   ++I+DLG  ++ +I R++ + REN R GDRV+ 
Sbjct: 122 ERAKVVEQFREEEGKIVTGTVKKVSRDSIILDLGNKAEAMIAREDMLPRENFRLGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E +  Q+ ++R+ P+ +++LF +EVPEI   +++++  +RD GSRAK+AV S+
Sbjct: 182 VLYKVNPEGKTAQLFVTRSKPEMLIELFRIEVPEIGEEMIEIRGAARDAGSRAKIAVKSN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQ +  EL  E++DIV+W  + A FVINA+ PA V+ +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQVITNELGGERVDIVLWDDNPAQFVINAMAPADVSSIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T +E +   Q + N+    F+ 
Sbjct: 302 NHSMDIAVEADNLAQAIGRNGQNVRLATQLTGWTLNVMTTDELNAKHQAEDNKVLNLFIN 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLEGIDIT 423
           A+ +DE  A +LV EGF  +EE+A V ++E+ +I+G  DE+   E+Q RA+  +    + 
Sbjct: 362 ALKLDEEFAQILVEEGFTSLEEIAYVPMNELTAIDGLEDEDLVEELQTRAKNAITAAAVA 421

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            ++ +++  V + L ++ G++  + + L E  I T+E+LA   VDDL    E        
Sbjct: 422 EEEALKKANVEDRLLNLEGMNRHVAIKLAEKQITTLEELAEQGVDDLTDIEE-------- 473

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                       +Q   +I+ AR  + W  +E
Sbjct: 474 ---------LTAEQAADLIMAAR-NICWFGEE 495


>gi|145589410|ref|YP_001156007.1| transcription elongation factor NusA [Polynucleobacter necessarius
           subsp. asymbioticus QLW-P1DMWA-1]
 gi|145047816|gb|ABP34443.1| NusA antitermination factor [Polynucleobacter necessarius subsp.
           asymbioticus QLW-P1DMWA-1]
          Length = 493

 Score =  568 bits (1466), Expect = e-160,   Method: Composition-based stats.
 Identities = 200/510 (39%), Positives = 329/510 (64%), Gaps = 25/510 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS-DIRVEINPETGDISLFRLL 66
           E+L +ADA+A EK++D+ +V   +  ++  A +  Y T   DIRV I+ E+G+   FR  
Sbjct: 4   EVLMLADALAREKNVDQAIVFEALEMALASATKKRYATEDVDIRVSIDRESGEYETFRRW 63

Query: 67  EVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
            VV +   ++    +I    A+++   I++G  + + +  + FGR+  Q+AKQVI+Q++R
Sbjct: 64  LVVPDEAGLQEPDKEILQFEAKEQLSDIEVGDYIEEQIESLAFGRIGAQAAKQVILQRIR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           +AER++   ++ ++  ++++GTVKR +   +I++ G  + ++RRD+ I +ENLR GDRV+
Sbjct: 124 DAEREQILNDYLERGEKVMTGTVKRADKNGLIIESGRVEALLRRDQMIPKENLRSGDRVR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           +YI  V RE RGPQ+ LSRT P F++KLF  EVPE+  G++++K  +RDPG RAK+AV +
Sbjct: 184 AYILKVDREARGPQIELSRTCPDFLIKLFENEVPEMEQGLLEIKGAARDPGIRAKIAVIT 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D  IDP+G CVG+RG+RV AV  E+  E +DIV+WS D A FVI AL PA V+ +V+DE
Sbjct: 244 YDKRIDPIGTCVGVRGTRVTAVRNEVAGEAVDIVLWSEDPAQFVIGALAPAQVSSIVVDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           +   ++V+V +E L++AIGR GQNVRLAS LTGW I+I+T EE +   +K+ +   Q FM
Sbjct: 304 ERHAMDVVVDEENLAIAIGRSGQNVRLASDLTGWQINIMTPEESAEKTEKEASSVRQLFM 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
             ++VD+ +A +L+ EGF  +EE+A V +SE+  I+ FDE+T  E++ RAR+ L  +++ 
Sbjct: 364 DKLDVDQEVADILIEEGFNTLEEVAYVPLSEMLEIDSFDEDTVNELRTRARDSLLTMELA 423

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            +++I E  VS++L S+ G+ +++   L +N + T +DLA  +VD+L+  ++        
Sbjct: 424 KEERIGE--VSQDLRSLDGMTTELIAKLADNQVHTRDDLAELAVDELVEATQ-------- 473

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                      ++  +++I+ AR    W  
Sbjct: 474 ---------IDEETAKTLIMKAREH--WFT 492


>gi|54307814|ref|YP_128834.1| transcription elongation factor NusA [Photobacterium profundum SS9]
 gi|46912237|emb|CAG19032.1| putative transcription pausing L factor [Photobacterium profundum
           SS9]
          Length = 495

 Score =  568 bits (1466), Expect = e-160,   Method: Composition-based stats.
 Identities = 196/511 (38%), Positives = 317/511 (62%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  +    D+RV I+ +TG ++ FR 
Sbjct: 2   NKEILAVVEAVSNEKAVPRERIFEALEIALATATKKKHEAEIDVRVAIDRKTGQVATFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
              V+EV   T +++++ A+  D +I++GG V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLAVDEVTQPTLEMTIEAAQYDDETIELGGFVEDEIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER++   +F D  GE+I+G VK+V    VI+DLGN ++ VI+RD+ + REN R GDR++ 
Sbjct: 122 EREQIVEQFMDNEGELITGIVKKVNRDAVIIDLGNNAEAVIQRDDQLPRENFRSGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR E RG Q+ ++R+  + +++LF +EVPEI   ++++   +RDPGSRAK+AV ++
Sbjct: 182 LLYAVRPEARGFQLFMTRSKAEMLLELFRIEVPEIGEELIELMGAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  ++A +VINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELAGERIDIVLWDENAAQYVINAMAPAEVASIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V K+ L+ AIGR GQN+RLASQLTGW ++++T E+     +++       F +
Sbjct: 302 SHTMDIAVEKDNLAQAIGRSGQNIRLASQLTGWELNVMTVEDLQKKHKEEAQVSIDTFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE  A LLV EGF  +EE+A V +SE+  +EG DE+   E++  A+E L  + +  
Sbjct: 362 YLDIDEDFATLLVQEGFTTLEEIAYVPVSELMDVEGLDEDAINELRKCAKEALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++    +  + +L  + G++ ++   L   GI T+EDLA    DDLL   E         
Sbjct: 422 EESFEGVEPAADLLGLDGLERELAFRLAAKGICTLEDLADQGTDDLLDLEE--------- 472

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                     + +   +I+ AR  + W   E
Sbjct: 473 --------MGEAKAGELIMAAR-NICWFSDE 494


>gi|330963974|gb|EGH64234.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           actinidiae str. M302091]
          Length = 493

 Score =  568 bits (1466), Expect = e-160,   Method: Composition-based stats.
 Identities = 207/511 (40%), Positives = 324/511 (63%), Gaps = 22/511 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + ++V+ EK +   V+   +  ++  A +  +    ++RVEIN +TG+   FR 
Sbjct: 2   SKEVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVELRVEINRQTGNYETFRR 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVE+  +++   ++++  A+ + P    G ++ + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WTVVEDEDLDDPAYELAVDQAQAKKPGAVAGDLIEEKIDSIEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G RV
Sbjct: 122 EAERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV 
Sbjct: 182 RALLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVR 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 242 SKDKRIDPQGACIGMRGSRVQAVSGELVGERVDIVLWDDNPAQFVINAMSPAEVAAIIVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F
Sbjct: 302 EDAHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           ++ + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L    I
Sbjct: 362 IEELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDIVNELRARAKDRLLTKAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ +   +E+L S+ G+D  + + L   G+ T EDLA  S+DDLL           
Sbjct: 422 ATEEKLADAHPAEDLLSLEGMDKDLAMELAVRGVVTREDLAEQSIDDLLDIDGIDDDR-- 479

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                             +I+ AR    W E
Sbjct: 480 ---------------AGKLIMAARAH--WFE 493


>gi|290473446|ref|YP_003466313.1| transcription pausing; L factor [Xenorhabdus bovienii SS-2004]
 gi|289172746|emb|CBJ79517.1| transcription pausing; L factor [Xenorhabdus bovienii SS-2004]
          Length = 502

 Score =  568 bits (1466), Expect = e-160,   Method: Composition-based stats.
 Identities = 207/518 (39%), Positives = 319/518 (61%), Gaps = 26/518 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALEIALATATKKKYEQEIDVRVCIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
              VEEV   T +I+L+ A+  DP +++GG + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVAVEEVTLPTREITLEAAKYEDPEMELGGYIEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+++ GEI++  VK+V   N+ +DLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAMVVDQFREQQGEIVTAQVKKVNRENITLDLGNNAEAVILREDMLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +YDVR E RG Q+ ++R+ P+ +V+LF +EVPEI   I+++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYDVRPEARGAQLFITRSRPEMLVELFRIEVPEIGEEIIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLT-------GWTIDIITEEEDSINRQKDFNE 357
              ++V V    L+ AIGR GQNVRLA+QL         W ++++T EE     Q + + 
Sbjct: 302 NCTMDVAVESSNLAQAIGRNGQNVRLAAQLLKKHRGDDKWELNVMTAEELQAKHQAEAHA 361

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F + +++D   A +LV EGF+ +EELA V I+E+ +IEG DEET   ++ RA+  L
Sbjct: 362 SIDTFTKHLDIDVDFATVLVEEGFSTLEELAYVPINELLAIEGLDEETVEVLRERAKAAL 421

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
             +++  ++ + +   +E+L ++ G+D  +   L  +GI T+EDLA   +DDL       
Sbjct: 422 TTLELAQKESLGDQQPAEDLLNLSGMDRTLAFNLAAHGICTLEDLAEQGIDDLSDIE--- 478

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                         G   ++   +I+ AR  + W   +
Sbjct: 479 --------------GLSDEKAGELIMAAR-NICWFGDD 501


>gi|254252537|ref|ZP_04945855.1| Transcription elongation factor [Burkholderia dolosa AUO158]
 gi|124895146|gb|EAY69026.1| Transcription elongation factor [Burkholderia dolosa AUO158]
          Length = 491

 Score =  568 bits (1465), Expect = e-160,   Method: Composition-based stats.
 Identities = 213/508 (41%), Positives = 338/508 (66%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P +++G  + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKPDVEVGEYIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVIAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E ++ + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESALKQGEERDRLRTLFMT 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    +  +L S+ G+  ++   L E+G++T +DLA  +VD+L+  +          
Sbjct: 424 EEKVENAAL--DLKSLDGVTPELLAKLAEHGVQTRDDLAELAVDELVDMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  +D  +++I+ AR    W 
Sbjct: 472 -------GMEEDAAKALIMKAREH--WF 490


>gi|183600365|ref|ZP_02961858.1| hypothetical protein PROSTU_03930 [Providencia stuartii ATCC 25827]
 gi|188020156|gb|EDU58196.1| hypothetical protein PROSTU_03930 [Providencia stuartii ATCC 25827]
          Length = 502

 Score =  568 bits (1464), Expect = e-159,   Method: Composition-based stats.
 Identities = 207/515 (40%), Positives = 319/515 (61%), Gaps = 26/515 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALETALATATKKKYEQEIDVRVEIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VE+V   T +I+L+ A+  +P + +G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLIVEDVTMPTREITLEAAQFENPELKLGEYVEDQIESVAFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+++ GEII+  VK+V   N+ +DLGN ++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERAMVVDQFREQQGEIITAQVKKVNRENITLDLGNNAEAVILREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +YDVR E RG Q+ ++R+ P+ +V+LF +EVPEI   I+++KA +RDPGSRAK+AV ++
Sbjct: 182 VLYDVRPEARGAQLFVTRSRPEMLVELFRIEVPEIGEEIIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLT-------GWTIDIITEEEDSINRQKDFNE 357
              ++V V    L+ AIGR GQNVRLA+QL         W ++++T EE +   Q + + 
Sbjct: 302 KCTMDVAVESSNLAQAIGRNGQNVRLAAQLLKKHRGDDKWELNVMTAEELNAKHQAEAHA 361

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F + +++DE  A  LV EGF+ +EELA V I E+  I+G DEET   ++ RA+  L
Sbjct: 362 SIDTFTKHLDIDEEFATALVEEGFSTLEELAYVPIKELLEIDGLDEETVEVLRERAKAAL 421

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
             I++  ++ + +   +E+L ++ G+D+ +   L   GI T+EDLA   +DDL+      
Sbjct: 422 TTIELAQKESLGDNQPAEDLLNLDGMDNTLAYNLAIRGICTLEDLAEQGIDDLIDIE--- 478

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
                         G   ++  ++I+ AR  + W 
Sbjct: 479 --------------GLDGEKAGALIMAAR-NICWF 498


>gi|221214880|ref|ZP_03587848.1| transcription termination factor NusA [Burkholderia multivorans
           CGD1]
 gi|221165107|gb|EED97585.1| transcription termination factor NusA [Burkholderia multivorans
           CGD1]
          Length = 491

 Score =  568 bits (1464), Expect = e-159,   Method: Composition-based stats.
 Identities = 213/508 (41%), Positives = 336/508 (66%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P +++G  + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKPDVEVGEYIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVIAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQGEERDRLRALFMT 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    +  +L S+ G+  ++   L E+G+ T +DLA  +VD+L+  +          
Sbjct: 424 EEKVENAAL--DLKSLDGVTPELLAKLAEHGVATRDDLAELAVDELVDMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  +D  +++I+ AR    W 
Sbjct: 472 -------GMEEDAAKALIMKAREH--WF 490


>gi|121609702|ref|YP_997509.1| NusA antitermination factor [Verminephrobacter eiseniae EF01-2]
 gi|121554342|gb|ABM58491.1| NusA antitermination factor [Verminephrobacter eiseniae EF01-2]
          Length = 494

 Score =  567 bits (1463), Expect = e-159,   Method: Composition-based stats.
 Identities = 199/510 (39%), Positives = 324/510 (63%), Gaps = 24/510 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            LELL + DA++ EK+++RDVVL  +  ++ +A + LY    DIRV ++ ++G    FR 
Sbjct: 2   SLELLMLIDAISREKNVERDVVLDAVESALAQATKKLYQGEVDIRVAVDRKSGGHETFRR 61

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             VV +   ++N   +  L  A++R   I++G  + + +  +  GR+   +AKQVI+QK+
Sbjct: 62  WLVVPDEAGLQNPDAEELLMDAKERIADIEVGEYIEETVDSVPIGRIGAMAAKQVILQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           R+AER+    +F  +  +I +GTVKR++ G++IV+ G  +G +RR E I +ENLR GDRV
Sbjct: 122 RDAEREMLLNDFMSRGEKIFTGTVKRMDKGDIIVESGRVEGRLRRSELIPKENLRSGDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ I +V    RG  ++LSR+ P+FM++LF  EVPEI   ++++K+ +RDPGSRAK+AV 
Sbjct: 182 RAMIMEVDLSLRGAPIILSRSAPEFMIELFRQEVPEIEQSLLEIKSCARDPGSRAKIAVL 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  +DP+G CVG+RG+RV AV  EL  E++DIV+WS D A FVI AL PA V+ +V+D
Sbjct: 242 SHDKRVDPIGTCVGVRGTRVNAVTNELAGERVDIVLWSEDPAQFVIGALAPANVSSIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+   ++V+V +E L++AIGR GQNVRLA+ LTGW I+I+   E +  + K+ +   + F
Sbjct: 302 EEKHAMDVVVDEENLAIAIGRGGQNVRLAADLTGWKINIMDAAESAQKQAKESDTARRLF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+ ++VDE IA +L+AEGF  +EE+A V + E+  I+ FDE+T  E++ RA++ L  ++I
Sbjct: 362 MEKLDVDEEIADILIAEGFNSLEEVAYVPLQEMLEIDSFDEDTVNELRARAKDALLTMEI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++ + E  VS++L  + G+   +   L + G+ T +DLA  ++D+L   +        
Sbjct: 422 AREESVEE--VSQDLRDLGGLSPALIAQLAKGGVHTRDDLADLAIDELTDLT-------- 471

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
                    G  +++ +++I+ AR    W 
Sbjct: 472 ---------GQSEEEAKALIMKAREH--WF 490


>gi|89900917|ref|YP_523388.1| NusA antitermination factor [Rhodoferax ferrireducens T118]
 gi|89345654|gb|ABD69857.1| NusA antitermination factor [Rhodoferax ferrireducens T118]
          Length = 498

 Score =  567 bits (1463), Expect = e-159,   Method: Composition-based stats.
 Identities = 195/518 (37%), Positives = 321/518 (61%), Gaps = 24/518 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +A++ EK+++ DVV   +  ++ +A R +Y    DIRV ++ ++G+   FR 
Sbjct: 2   NREMLMLVEAISREKNVELDVVFGAVEAALAQATRKIYPGDVDIRVALDRDSGNYETFRR 61

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             VV +   ++    +I L  A+++ P I++   + + +  +  GR+   +AKQVI+QK+
Sbjct: 62  WHVVPDEAGLQLPDQEILLFEAKEQIPDIEVDEYIEETVESLPIGRIGAMAAKQVILQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           R+AER+    +F  +   I  GTVKR++ G++IV+ G  +G +RR E I +ENLR GDRV
Sbjct: 122 RDAEREMLLNDFMSRGDNIFVGTVKRMDKGDLIVESGRVEGRLRRTEMIPKENLRVGDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ I +V    RG  ++LSR+ P+FM++LF  EVPEI  G++++K+ +RD GSRAK+AV 
Sbjct: 182 RAMIMEVDLTLRGAPIILSRSAPEFMIELFRQEVPEIEQGLLEIKSCARDVGSRAKIAVL 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  +DP+G CVG+RG+RV  V  EL  E++DIV+WS D A FVI AL PA V+ +V+D
Sbjct: 242 SHDKRVDPIGTCVGVRGTRVNGVTNELAGERVDIVLWSEDPAQFVIGALAPANVSSIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+   ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+   E +  +  + +   + F
Sbjct: 302 EERHAMDVVVDEENLAIAIGRGGQNVRLASELTGWKINILDAAESAQKQASETDSGRKLF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+ ++VDE IA LL+AEGF  +E++A V + E+  IE FDE+TA E++ RA++ L  ++I
Sbjct: 362 MEHLDVDEEIADLLIAEGFTSLEQVAYVPLEEMLEIESFDEDTANELRTRAKDALLTMEI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++ ++   VS +L  + G+  ++   L  +G+  ++DLA  +VD+L   +        
Sbjct: 422 AHEESVQA--VSLDLRDLQGLTPELIAKLATSGVNNLDDLADLAVDELTEIT-------- 471

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADE 520
                    G   D  +++I+ AR    W   +  + E
Sbjct: 472 ---------GQSADDAKTLIMKAREH--WFTNDAASQE 498


>gi|186476488|ref|YP_001857958.1| transcription elongation factor NusA [Burkholderia phymatum STM815]
 gi|184192947|gb|ACC70912.1| NusA antitermination factor [Burkholderia phymatum STM815]
          Length = 491

 Score =  567 bits (1463), Expect = e-159,   Method: Composition-based stats.
 Identities = 215/508 (42%), Positives = 335/508 (65%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV + +  ++  A++ L+   +DIRV I+ E+G+   FR  +
Sbjct: 4   EVLMLVDALAREKNVDKDVVFAALEAALASASKKLFDEDADIRVHIDRESGEHETFRRWK 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++     I   + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDQEILLFEAREQKADAQIDDFLEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F ++   I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDFLERGESIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENVDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++       FM 
Sbjct: 304 KHSMDVVVDESELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQNQERGVLRDLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+   GV+ +L S+ G+D+++   L E+ I+T +DLA  +VD+L+  +          
Sbjct: 424 EEKVE--GVALDLKSLDGMDAELLAKLAEHQIQTRDDLAELAVDELVEMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  +D  +++I+ AR    W 
Sbjct: 472 -------GVTEDAAKALIMKAREH--WF 490


>gi|161524929|ref|YP_001579941.1| transcription elongation factor NusA [Burkholderia multivorans ATCC
           17616]
 gi|189350321|ref|YP_001945949.1| transcription elongation factor NusA [Burkholderia multivorans ATCC
           17616]
 gi|221197756|ref|ZP_03570802.1| transcription termination factor NusA [Burkholderia multivorans
           CGD2M]
 gi|221204686|ref|ZP_03577703.1| transcription termination factor NusA [Burkholderia multivorans
           CGD2]
 gi|160342358|gb|ABX15444.1| NusA antitermination factor [Burkholderia multivorans ATCC 17616]
 gi|189334343|dbj|BAG43413.1| N utilization substance protein A [Burkholderia multivorans ATCC
           17616]
 gi|221175543|gb|EEE07973.1| transcription termination factor NusA [Burkholderia multivorans
           CGD2]
 gi|221181688|gb|EEE14089.1| transcription termination factor NusA [Burkholderia multivorans
           CGD2M]
          Length = 491

 Score =  567 bits (1463), Expect = e-159,   Method: Composition-based stats.
 Identities = 213/508 (41%), Positives = 336/508 (66%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P +++G  + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKPDVEVGEYIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQGEERDRLRALFMT 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    +  +L S+ G+  ++   L E+G+ T +DLA  +VD+L+  +          
Sbjct: 424 EEKVENAAL--DLKSLDGVTPELLAKLAEHGVATRDDLAELAVDELVDMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  +D  +++I+ AR    W 
Sbjct: 472 -------GMEEDAAKALIMKAREH--WF 490


>gi|78066110|ref|YP_368879.1| transcription elongation factor NusA [Burkholderia sp. 383]
 gi|77966855|gb|ABB08235.1| NusA antitermination factor [Burkholderia sp. 383]
          Length = 491

 Score =  567 bits (1463), Expect = e-159,   Method: Composition-based stats.
 Identities = 215/508 (42%), Positives = 338/508 (66%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  ARD++P +++G  V +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEARDQNPDVEVGEYVEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVIAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLA +LTGW I+I+T +E ++ + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLAGELTGWQINIMTPDESALKQGEERDRLRALFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    +  +L S+ GI  ++   L E+G++T +DLA  +VD+L+  +          
Sbjct: 424 EEKVENAAL--DLKSLDGITPELLAKLAEHGVQTRDDLAELAVDELVDLT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  +D  +++I+ AR    W 
Sbjct: 472 -------GMEEDAAKALIMKAREH--WF 490


>gi|260221430|emb|CBA29985.1| Transcription elongation protein nusA [Curvibacter putative
           symbiont of Hydra magnipapillata]
          Length = 498

 Score =  567 bits (1462), Expect = e-159,   Method: Composition-based stats.
 Identities = 199/518 (38%), Positives = 323/518 (62%), Gaps = 24/518 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL + +A++ EK+++RDVVL  +  ++ +A + LY    DIRV ++ ++G+   FR 
Sbjct: 2   NRELLMLVEAISREKNVERDVVLGAVEAALAQATKKLYAGDVDIRVALDRDSGNYETFRR 61

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             VV +   ++    +I L  A+++   I++   + +P+  +  GR+   +AKQVI+QK+
Sbjct: 62  WHVVPDEAGLQLPDQEILLFEAKEQIADIEVDEYIEEPVASVPIGRIGAMAAKQVILQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           R+AER+    +F  +  +I  GTVKR++ G++IV+ G  +G +RR E I +ENLR GDRV
Sbjct: 122 RDAEREMLLNDFMSRGEKIFVGTVKRMDKGDIIVESGRVEGRLRRGEMIPKENLRTGDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ I +V    RG  ++LSR+ P+FM++LF  EVPEI  G++++K+ +RD GSRAK+AV 
Sbjct: 182 RAMIMEVDLTLRGAPIVLSRSAPEFMIELFRQEVPEIEQGLLEIKSCARDAGSRAKIAVL 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  +DP+G CVG+RG+RV  V  EL  E++DIV+WS D A FVI AL PA VT +V+D
Sbjct: 242 SHDKRVDPIGTCVGVRGTRVNGVTNELAGERVDIVLWSEDPAQFVIGALAPANVTSIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+   ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+   E +     + +   + F
Sbjct: 302 EERHAMDVVVDEENLAIAIGRGGQNVRLASELTGWKINIMDAAESAQKLANETDSGRKLF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+ ++VDE IA +L+AEGF  +EE+A V + E+  IE FDE+T  E++ RA++ L  ++I
Sbjct: 362 MEKLDVDEEIADILIAEGFTSLEEVAYVPLQEMLEIESFDEDTVHELRNRAKDALLTMEI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++ + E  VS+ L  + G+  ++   L + G+ T ++LA  +VD+L   +        
Sbjct: 422 AHEESVEE--VSQNLRDLEGLTPELIGKLADGGVHTRDELADLAVDELTDIT-------- 471

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADE 520
                    G   D+ +++I+ AR    W   +  + E
Sbjct: 472 ---------GQSADEAKALIMKAREH--WFTNDGASQE 498


>gi|319793511|ref|YP_004155151.1| nusa antitermination factor [Variovorax paradoxus EPS]
 gi|315595974|gb|ADU37040.1| NusA antitermination factor [Variovorax paradoxus EPS]
          Length = 497

 Score =  567 bits (1461), Expect = e-159,   Method: Composition-based stats.
 Identities = 202/515 (39%), Positives = 324/515 (62%), Gaps = 23/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + DA++ EK+++RDVV   +  ++ +A + L+    DIRV ++ ++GD   FR 
Sbjct: 2   NREMLMLVDAISREKNVERDVVFGAVESALAQATKKLHQGDVDIRVAVDRDSGDYETFRR 61

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             VV +   ++    +I L  A++    I++G  + + +  +  GR+   +AKQVI+QK+
Sbjct: 62  WHVVPDEAGLQLPDQEILLFEAKEEMSDIEVGEYIEEAVDSVPIGRIGAMAAKQVILQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           R+AER+    +F  +  +I  GTVKR++ G++IV+ G  +G +RR E I++ENLR GDRV
Sbjct: 122 RDAEREMLLNDFMSRGDKIFVGTVKRLDKGDIIVEAGRVEGRLRRSEMIAKENLRNGDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ I +V    RG  ++LSR+ P+FM++LF  EVPEI  G++++K+ +RDPGSRAK+AV 
Sbjct: 182 RAMIMEVDLTLRGAPIILSRSAPEFMIELFRQEVPEIEQGLLEIKSCARDPGSRAKIAVL 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  +DP+G CVG+RG+RV AV  EL  E++DIV+WS D A FVI AL PA V+ +V+D
Sbjct: 242 SHDKRVDPIGTCVGVRGTRVNAVTNELAGERVDIVLWSEDPAQFVIGALAPANVSSIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+   ++V+V +E L++AIGR GQNVRLAS LTGW I+I+   E +  +  + +   + F
Sbjct: 302 EEKHAMDVVVDEENLAIAIGRGGQNVRLASDLTGWKINIMDANESAQKQATETDASRKLF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+ ++VDE IA +L+AEGF  +EE+A V ISE+  IE FDE+T  E++ RA++ L  ++I
Sbjct: 362 MEKLDVDEEIADILIAEGFNSLEEVAYVPISEMLEIEAFDEDTINELRSRAKDALLTMEI 421

Query: 423 TLQKKIR-ELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
             ++ +  +  VS+ L  + G+D ++   L E G+ T +DLA  +VD+L   +       
Sbjct: 422 AKEEGVETQSSVSQNLRDLEGLDPELIPKLAEAGVNTRDDLADLAVDELTEIT------- 474

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                     G   D  +++I+ AR    W   ++
Sbjct: 475 ----------GHSADDAKALILKAREH--WFAGQE 497


>gi|312796186|ref|YP_004029108.1| N utilization substance protein A [Burkholderia rhizoxinica HKI
           454]
 gi|312167961|emb|CBW74964.1| N utilization substance protein A [Burkholderia rhizoxinica HKI
           454]
          Length = 491

 Score =  566 bits (1460), Expect = e-159,   Method: Composition-based stats.
 Identities = 210/508 (41%), Positives = 334/508 (65%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++++DVV + +  ++  A + L+    DIRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVNKDVVFAALEAALASATKKLFDEDVDIRVSIDRESGEHETFRRWR 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           +V +   ++    +I L  AR++DP   + G + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  IVPDEAGLQQPDQEILLFEAREQDPDAQLDGYIEEPIPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F ++  +I++G+VKR++ GN++V+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDFLERGEKIMTGSVKRLDKGNLVVESGRVEALLRRDQLIPKENLRIGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF  EVPEI  G++++K+ +RDPG RAK+AV + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEFEVPEIEQGLLEIKSAARDPGVRAKIAVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENVDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++       FM+
Sbjct: 304 KHAMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAEKQSQERKVLRDLFME 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    +  EL S+ G+D ++   L E+ I T +DLA  +VD+L+  +          
Sbjct: 424 EEKVENASL--ELKSLEGMDRELLAKLAEHEIHTRDDLAELAVDELVEMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  ++  +++I+ AR    W 
Sbjct: 472 -------GIDEEAAKALIMKAREH--WF 490


>gi|325526251|gb|EGD03870.1| transcription elongation factor NusA [Burkholderia sp. TJI49]
          Length = 491

 Score =  566 bits (1459), Expect = e-159,   Method: Composition-based stats.
 Identities = 213/508 (41%), Positives = 337/508 (66%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P +++G  + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKPDVEVGEFIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVIAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E ++ + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESALKQGEERDRLRALFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    +  +L S+ G+  ++   L E+G+ T +DLA  +VD+L+  +          
Sbjct: 424 EEKVENAAL--DLKSLDGVTPELLAKLAEHGVATRDDLAELAVDELVDMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  +D  +++I+ AR    W 
Sbjct: 472 -------GMEEDAAKALIMKAREH--WF 490


>gi|253995583|ref|YP_003047647.1| transcription elongation factor NusA [Methylotenera mobilis JLW8]
 gi|253982262|gb|ACT47120.1| NusA antitermination factor [Methylotenera mobilis JLW8]
          Length = 488

 Score =  566 bits (1459), Expect = e-159,   Method: Composition-based stats.
 Identities = 206/507 (40%), Positives = 336/507 (66%), Gaps = 25/507 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A+EK++D+ V+ + +  ++  A +  +   +D+RV I+ E+G+   FR  +
Sbjct: 4   EILLLVDALAHEKNVDKSVIFTALELALASATKKKHHDDADVRVAIDRESGEYQTFRRWQ 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            V+   +EN   QI  +   +R   + IG    +PL  ++FGR+  Q+AKQVI+QKVREA
Sbjct: 64  YVDYDLLENSAYQIDEED--ERSKGLTIGDYYEEPLENLEFGRIGAQAAKQVILQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F  +  ++++G +KR+E GN I+++G  + ++ R++ I +ENLR GDRV++Y
Sbjct: 122 EREQILQDFLARDEKLVTGVIKRMEKGNAIIEVGRIESLLPREQMIPKENLRVGDRVRAY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  + R  RGPQ++LSR  P+F+V+LF +EVPEI  G++++++ +RDPG R+K+AV S+D
Sbjct: 182 LLRIERSGRGPQLILSRIIPEFLVRLFELEVPEIEEGLLEIRSAARDPGLRSKIAVKSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVG CVGMRGSRVQAV  EL  E++DIV+WS + A FVINA+ PA V+ +V+DED 
Sbjct: 242 QRLDPVGTCVGMRGSRVQAVTGELAGERVDIVLWSMEPAQFVINAMSPAEVSSIVVDEDA 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++V+V +EQL+LAIGR GQNVRLAS+LTGWT++I+T ++ +   Q+++   +Q FM+ 
Sbjct: 302 HSMDVVVEEEQLALAIGRSGQNVRLASELTGWTLNILTVDQAAQKNQEEYAGVSQLFMEK 361

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE +A +LV EGF+ +EE+A V ++E+  IE FDE+T  E++ RAR  L    I  +
Sbjct: 362 LDVDEEVAEILVQEGFSTLEEIAYVPLAEMNQIEAFDEDTVEELRKRARAALLTEAIAKE 421

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFD 485
           +K+ E   +E+L ++ G+D      L   GI TM+DLA  ++D+L+  +           
Sbjct: 422 EKVEEA--AEDLLTLEGMDDATAHQLAAKGISTMDDLAELAIDELVELT----------- 468

Query: 486 GFLSSLGTPKDQVESMIIHARYKMGWI 512
                    +++ +++I+ AR    W 
Sbjct: 469 ------NMDEERAKTLIMTARAP--WF 487


>gi|30248764|ref|NP_840834.1| transcription elongation factor NusA [Nitrosomonas europaea ATCC
           19718]
 gi|30180359|emb|CAD84671.1| S1 RNA binding domain:KH domain:Type 1 KH domain [Nitrosomonas
           europaea ATCC 19718]
          Length = 490

 Score =  565 bits (1458), Expect = e-159,   Method: Composition-based stats.
 Identities = 210/507 (41%), Positives = 323/507 (63%), Gaps = 23/507 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +A+A+EK++D+++V + +  ++  AA+       D+RV I+ +TG    FR   
Sbjct: 4   EILLLVNALAHEKNVDKNIVFTALEMALASAAKKHTRDDIDVRVSIDRDTGGFHCFRRWL 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           +V +  VE+   QI++  A  R+P    G  + D +  + F R+  Q+AKQVI QK+R+A
Sbjct: 64  IVADDPVEHPERQITVSEAVGRNPQAVPGEYIEDLMEDVTFDRIGAQAAKQVIFQKIRDA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F D+   ++ G +KR++ GN I++ G  + V+ RD+ IS ENLR GDRV++Y
Sbjct: 124 EREQNLNDFLDRGEYLVYGVIKRMDRGNAIIEFGKIEAVLPRDQMISHENLRMGDRVRAY 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  + R  RGPQ++LSRT P F+ KLF +EVPEI  GI+++KA +RDPGSRAK+AV S+D
Sbjct: 184 LLRIDRSVRGPQLVLSRTSPAFLAKLFELEVPEIEEGILEIKAAARDPGSRAKIAVKSND 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           S +DP+G CVGMRGSRVQAV +EL  E++DI+ WS D ATFV+NAL PA+++ +V+DE+ 
Sbjct: 244 SRVDPIGTCVGMRGSRVQAVTSELAGERVDIIQWSDDQATFVVNALAPAVISSIVVDEEK 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++++V +E L+ AIGR GQNVRLAS+LTGW ++I+TEEE     +++     + FM+ 
Sbjct: 304 HCMDIVVDEENLAQAIGRGGQNVRLASELTGWQLNIMTEEESQEKTEEEAASICELFMEK 363

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE +  +LV EGF+ +EE+A + I E+  I+ FD ET  E++ RAR  L    I  +
Sbjct: 364 LDVDEDVGRILVEEGFSTLEEVAYIPIEEMLEIQEFDRETIEELRNRARNALLTDAIATE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFD 485
           +KI     SE L ++ G+D ++   L E GI T E+LA  + DDL+  +           
Sbjct: 424 EKIGHA--SEALLALEGMDIELVRELAEKGISTQEELADLAADDLVELT----------- 470

Query: 486 GFLSSLGTPKDQVESMIIHARYKMGWI 512
                 G   ++   +II AR    W 
Sbjct: 471 ------GIDFERASKIIIKAREP--WF 489


>gi|134295573|ref|YP_001119308.1| transcription elongation factor NusA [Burkholderia vietnamiensis
           G4]
 gi|134138730|gb|ABO54473.1| NusA antitermination factor [Burkholderia vietnamiensis G4]
          Length = 491

 Score =  565 bits (1458), Expect = e-159,   Method: Composition-based stats.
 Identities = 214/508 (42%), Positives = 337/508 (66%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P +++G  + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKPDVEVGEFIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVIAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E ++ + ++       FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESALKQGEERERLRALFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    +  +L S+ GI  ++   L E+G++T +DLA  +VD+L+  +          
Sbjct: 424 EEKVENAAL--DLKSLDGITPELLTKLAEHGVQTRDDLAELAVDELVDMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  +D  +++I+ AR    W 
Sbjct: 472 -------GVEEDAAKALIMKAREH--WF 490


>gi|71281620|ref|YP_268927.1| transcription termination factor NusA [Colwellia psychrerythraea
           34H]
 gi|71147360|gb|AAZ27833.1| transcription termination factor NusA [Colwellia psychrerythraea
           34H]
          Length = 497

 Score =  565 bits (1458), Expect = e-159,   Method: Composition-based stats.
 Identities = 192/514 (37%), Positives = 311/514 (60%), Gaps = 22/514 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + DAV+ EK++ R+ +   M  +++ A +  Y     +RV I+  +G+   FR 
Sbjct: 2   SKEILLVVDAVSNEKALPRESIFEAMETALETATKKKYEGDIIVRVSIDRISGEFDTFRR 61

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             ++E+   +EN   +I L  A+   P +++G    D +  + F RV  Q+AKQVI+QK+
Sbjct: 62  WLIIEDGEPMENPYAEIGLAAAQYDAPELNVGDYSEDQIESVKFDRVTTQTAKQVIVQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDR 181
           REAER      +++ +GEI++G VK+    +VIVDLGN ++ VI RD+ + RE  RPGDR
Sbjct: 122 REAERALVTEAYQEHLGEIVTGVVKKASRESVIVDLGNNAEAVIYRDDMLPRETFRPGDR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+  +Y+++ E RG Q+ LSRT P+ +++LF +EVPEI   ++++K  +RDPGSRAK+AV
Sbjct: 182 VRGLLYEIKPEARGAQLFLSRTKPEMLIELFRVEVPEIGEEMLEIKGAARDPGSRAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+D  IDPVGACVGMRGSRVQAV  EL  E++DIV++  + A +VINA+ PA V  +++
Sbjct: 242 KSNDKRIDPVGACVGMRGSRVQAVSGELGGERVDIVLYDDNVAQYVINAMSPAEVASIIV 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED G +++ V +  L++AIGR GQN+RLASQLTGW ++++T  +     Q + ++    
Sbjct: 302 DEDKGTMDIAVEEANLAMAIGRSGQNIRLASQLTGWELNVMTVADMKEKHQAENDKVLNL 361

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F+  +++DE  A LL  EGF  +EE+A V  +E+  I+G DEE    ++ RA+E L    
Sbjct: 362 FIDKLDLDEDFATLLAEEGFTSLEEIAYVPTAEMLDIDGLDEEIIEALRERAKEALTTQA 421

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           +  ++ +     +++L  + G++  +   L   G++T+EDLA   +D++    E      
Sbjct: 422 LASEETLEGSEPAQDLLDLDGLERHLAFVLASRGVRTLEDLAEQGIDEISDIEE------ 475

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                        + +   +I+ AR  + W  +E
Sbjct: 476 -----------LDETKAGELIMAAR-NICWFNEE 497


>gi|292492785|ref|YP_003528224.1| transcription termination factor NusA [Nitrosococcus halophilus
           Nc4]
 gi|291581380|gb|ADE15837.1| transcription termination factor NusA [Nitrosococcus halophilus
           Nc4]
          Length = 506

 Score =  565 bits (1458), Expect = e-159,   Method: Composition-based stats.
 Identities = 225/522 (43%), Positives = 328/522 (62%), Gaps = 23/522 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + DAV+ EK + ++V+   +  ++  A R  Y     +RV I+  TGD   FR 
Sbjct: 2   NKEILMVVDAVSNEKGVGKEVIFQAIEAALAMATRKRYQEDIAVRVAIDRATGDYQSFRT 61

Query: 66  LEVVE---EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            EVVE   E+E    QI L  A  RDP+I++GG + +P+  + FGR+A Q+AKQVI+QKV
Sbjct: 62  WEVVEDEAELEAPQRQICLGEALKRDPNIEVGGFIEEPMESIAFGRIAAQTAKQVIVQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER +    +KD+VGE++ G VKR + GNVI+DLG N++G+I ++E I RE +RPGDR
Sbjct: 122 REAERAKVVAAYKDRVGEMVMGVVKRTDRGNVILDLGDNAEGIIPQEEMIPREAIRPGDR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ Y+ +VR E RGPQ++LSRT P+ +++LF +EVPEI    +++K  +RDPG RAK+AV
Sbjct: 182 LRGYLKEVRTEGRGPQLVLSRTAPELLIELFKLEVPEINENRIEIKGAARDPGLRAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++++ IDPVGACVGMRGSRVQAV  EL  E++DIV+W  D A FVINA+ PA V  +V+
Sbjct: 242 KTNEARIDPVGACVGMRGSRVQAVSNELAGERVDIVLWDEDPAHFVINAMAPAEVASIVV 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+   ++V V +  LS AIGR GQN+RLASQLTGW ++++TEEE     + +     Q 
Sbjct: 302 DEESHSMDVAVAEGNLSQAIGRGGQNIRLASQLTGWELNVMTEEEAGEKGEAEAKALQQM 361

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+ ++VDE +A +LV EGF+ +EE+A V   EI ++E FD +   E++ RAR+ L    
Sbjct: 362 FMEQLDVDEEVAAILVHEGFSSIEEVAYVPEQEILAVEEFDSQIVQELRNRARDVLLTRA 421

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           I  ++ I  +   +EL  +  ID ++   L   GI T +DLA  SVDDL+          
Sbjct: 422 IANEETIETMQPDQELLDMEEIDYELAGILASKGIVTKDDLAEQSVDDLMEIE------- 474

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQ 523
                     G  K++   +I+ AR    W   E+  +   +
Sbjct: 475 ----------GMDKEKAARLIMAARES--WFASEQEGEGTEE 504


>gi|209694189|ref|YP_002262117.1| transcription elongation factor NusA [Aliivibrio salmonicida
           LFI1238]
 gi|208008140|emb|CAQ78282.1| transcription elongation protein NusA [Aliivibrio salmonicida
           LFI1238]
          Length = 495

 Score =  565 bits (1458), Expect = e-159,   Method: Composition-based stats.
 Identities = 194/511 (37%), Positives = 313/511 (61%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +       ++RV I+ +TG +  FR 
Sbjct: 2   NKEILAVVEAVSNEKAVPRERIFEALEIALATATKKKSALEIEVRVAIDRKTGAVETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
              V +VE+ T +IS++ A+  D +I+IGG + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVAVAQVEHPTLEISIEAAQFEDETIEIGGFIEDDIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ER     +F D  GE+I+G VK+V    +IVDLG N++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAMIVEQFIDNEGELITGIVKKVNRDAIIVDLGSNAEAVILREDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V+ E RG Q+ ++R+    + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 LLYAVKPEARGFQLFMTRSKGVMLTELFRVEVPEIGEELIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  +L  E+IDIV+W  + A FVIN++ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSNDLGGERIDIVLWDDNPAQFVINSMAPAEVASIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  + +   Q++       F++
Sbjct: 302 NNTMDIAVEADNLAQAIGRSGQNVRLASQLTGWELNVMTVADLNKKHQEEAQGSIDAFVK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++D   A LLV EGF  +EE+A V ++E+  +E  DEET   ++ RA+E L  + +  
Sbjct: 362 HLDIDADFAQLLVEEGFTTLEEIAYVPVNELLEVEALDEETVDLLRTRAKEALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ +  +  +E+L ++ G++ ++       G+ T+EDLA   VD+L              
Sbjct: 422 EESLDGIEPAEDLLALEGLERELAFKFAAKGVITLEDLADQGVDELSDIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                     +++   +I+ AR  + W   E
Sbjct: 472 -------DLTEERAGELIMAAR-NICWFSDE 494


>gi|167582087|ref|ZP_02374961.1| transcription elongation factor NusA [Burkholderia thailandensis
           TXDOH]
          Length = 491

 Score =  565 bits (1458), Expect = e-159,   Method: Composition-based stats.
 Identities = 211/508 (41%), Positives = 336/508 (66%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P +++G  + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKPGVEVGDYIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQNEERDALRGLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ R+R+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRSRDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    +  +L S+ G+  ++   L E G++T +DLA  +VD+L+  +          
Sbjct: 424 EEKVETAAL--DLKSLDGVTPELLAKLAEQGVQTRDDLAELAVDELVDMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  ++  +++I+ AR    W 
Sbjct: 472 -------GMEEEAAKALIMKAREH--WF 490


>gi|107022573|ref|YP_620900.1| transcription elongation factor NusA [Burkholderia cenocepacia AU
           1054]
 gi|116689521|ref|YP_835144.1| transcription elongation factor NusA [Burkholderia cenocepacia
           HI2424]
 gi|254245586|ref|ZP_04938907.1| Transcription elongation factor [Burkholderia cenocepacia PC184]
 gi|105892762|gb|ABF75927.1| NusA antitermination factor [Burkholderia cenocepacia AU 1054]
 gi|116647610|gb|ABK08251.1| NusA antitermination factor [Burkholderia cenocepacia HI2424]
 gi|124870362|gb|EAY62078.1| Transcription elongation factor [Burkholderia cenocepacia PC184]
          Length = 491

 Score =  565 bits (1458), Expect = e-159,   Method: Composition-based stats.
 Identities = 214/508 (42%), Positives = 337/508 (66%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P +++G  V +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKPDVEVGEYVEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVIAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLA +LTGW I+I+T +E ++ + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLAGELTGWQINIMTPDESALKQGEERDRLRALFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    +  +L S+ GI  ++   L E+G++T +DLA  +VD+L+  +          
Sbjct: 424 EEKVENAAL--DLKSLDGITPELLAKLAEHGVQTRDDLAELAVDELVDMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  +D  +++I+ AR    W 
Sbjct: 472 -------GMEEDAAKALIMKAREH--WF 490


>gi|149926272|ref|ZP_01914534.1| transcription elongation factor NusA [Limnobacter sp. MED105]
 gi|149825090|gb|EDM84302.1| transcription elongation factor NusA [Limnobacter sp. MED105]
          Length = 489

 Score =  565 bits (1458), Expect = e-159,   Method: Composition-based stats.
 Identities = 211/508 (41%), Positives = 316/508 (62%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL + DA+A EK++D+D+V   +  ++  A +  +    D+RV I+ +TGD   FR  E
Sbjct: 4   ELLLLVDALAREKNVDKDIVFGALELALASATKKRFDEEVDVRVSIDRDTGDYDTFRRWE 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV  E+  +   Q+ L  A   D   ++G  + + L P++FGR+  Q+AKQVI+Q+VR+A
Sbjct: 64  VVTEEDFYDPAYQMVLDQALKHDEEAEMGDFIEEELEPVEFGRIGAQAAKQVILQRVRDA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F D+  +I+ G VKR+E G+ IV+ G  +  + RD+ I RE+LRPGDRV++Y
Sbjct: 124 EREQILQDFLDRGDKIVIGQVKRMERGDAIVESGRIEARLPRDQMIPRESLRPGDRVRAY 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           ++ V R  RG QV+LSRT P+F+  LF MEVPEI  G +++K  +RDPG RAK+AV + D
Sbjct: 184 LWKVDRMARGQQVILSRTSPEFIKALFAMEVPEIEQGHLEIKGAARDPGMRAKIAVLAHD 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDP+G CVG+RGSRVQAV  EL  E++DIV+WS D A FVI AL PA V  +V+DED 
Sbjct: 244 RRIDPIGTCVGVRGSRVQAVTQELGGERVDIVLWSEDPAQFVIGALSPATVQSIVVDEDQ 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             +EV+V + +L+ AIGR GQNVRLAS LTGW I+I+T EE +   +++  +  + F   
Sbjct: 304 HVMEVVVDEAELAQAIGRSGQNVRLASDLTGWQINIMTPEESAKRSEEEIGKLRELFTSK 363

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE +A++L+ EGF+ ++++A V I+E+  IE FD +T  E++ RAR  L    I  +
Sbjct: 364 LDVDEKVANILIEEGFSGLQKVAYVPIAEMQEIEAFDADTVEELRTRARNALLTEAIARE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFD 485
           + +   G   +L SI G+D+ +   L    I   E LA  +VD+L+  +           
Sbjct: 424 EMVEGAG---DLMSIEGVDADLVGKLAAAEISDREGLAELAVDELVEIA----------- 469

Query: 486 GFLSSLGTPKDQVESMIIHARYKMGWIE 513
                 G  +D+   +I+ AR    W E
Sbjct: 470 ------GIEEDRARDIIMKARAH--WFE 489


>gi|170732825|ref|YP_001764772.1| transcription elongation factor NusA [Burkholderia cenocepacia
           MC0-3]
 gi|169816067|gb|ACA90650.1| NusA antitermination factor [Burkholderia cenocepacia MC0-3]
          Length = 491

 Score =  565 bits (1458), Expect = e-159,   Method: Composition-based stats.
 Identities = 214/508 (42%), Positives = 337/508 (66%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P +++G  V +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKPGVEVGEYVEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVIAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLA +LTGW I+I+T +E ++ + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLAGELTGWQINIMTPDESALKQGEERDRLRALFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    +  +L S+ GI  ++   L E+G++T +DLA  +VD+L+  +          
Sbjct: 424 EEKVENAAL--DLKSLDGITPELLAKLAEHGVQTRDDLAELAVDELVDMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  +D  +++I+ AR    W 
Sbjct: 472 -------GMEEDAAKALIMKAREH--WF 490


>gi|171317091|ref|ZP_02906294.1| NusA antitermination factor [Burkholderia ambifaria MEX-5]
 gi|171097725|gb|EDT42552.1| NusA antitermination factor [Burkholderia ambifaria MEX-5]
          Length = 491

 Score =  565 bits (1457), Expect = e-159,   Method: Composition-based stats.
 Identities = 213/508 (41%), Positives = 337/508 (66%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR+++P +++G  V +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQNPDVEVGEFVEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVIAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLA +LTGW I+I+T +E ++ + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLAGELTGWQINIMTPDESALKQGEERDRLRALFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    +  +L  + GI  ++   L E+G++T +DLA  +VD+L+  +          
Sbjct: 424 EEKVENAAL--DLKGLDGITPELLAKLAEHGMQTRDDLAELAVDELVDMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  +D  +++I+ AR    W 
Sbjct: 472 -------GMEEDAAKALIMKAREH--WF 490


>gi|115351434|ref|YP_773273.1| transcription elongation factor NusA [Burkholderia ambifaria AMMD]
 gi|170700023|ref|ZP_02891048.1| NusA antitermination factor [Burkholderia ambifaria IOP40-10]
 gi|172060473|ref|YP_001808125.1| transcription elongation factor NusA [Burkholderia ambifaria
           MC40-6]
 gi|115281422|gb|ABI86939.1| NusA antitermination factor [Burkholderia ambifaria AMMD]
 gi|170135082|gb|EDT03385.1| NusA antitermination factor [Burkholderia ambifaria IOP40-10]
 gi|171992990|gb|ACB63909.1| NusA antitermination factor [Burkholderia ambifaria MC40-6]
          Length = 491

 Score =  565 bits (1457), Expect = e-159,   Method: Composition-based stats.
 Identities = 212/508 (41%), Positives = 337/508 (66%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR+++P +++G  V +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQNPDVEVGEFVEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVIAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLA +LTGW I+I+T +E ++ + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLAGELTGWQINIMTPDESALKQGEERDRLRALFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    +  +L  + G+  ++   L E+G++T +DLA  +VD+L+  +          
Sbjct: 424 EEKVENAAL--DLKGLDGVTPELLAKLAEHGMQTRDDLAELAVDELVDMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  +D  +++I+ AR    W 
Sbjct: 472 -------GMEEDAAKALIMKAREH--WF 490


>gi|148361087|ref|YP_001252294.1| N utilization substance protein A [Legionella pneumophila str.
           Corby]
 gi|148282860|gb|ABQ56948.1| N utilization substance protein A [Legionella pneumophila str.
           Corby]
          Length = 492

 Score =  565 bits (1457), Expect = e-159,   Method: Composition-based stats.
 Identities = 210/510 (41%), Positives = 328/510 (64%), Gaps = 23/510 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL +A+A++ E+ + +DV++  +  +++ A R + G    +R++I+P+TGD   FR 
Sbjct: 2   SKELLLVAEALSNERGVSKDVIILAIQAALESATRKILGLDIGVRIKIDPKTGDYETFRY 61

Query: 66  LEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
            +VV  EE+E    Q+SL+ A++R PS  +G  + + +P ++FGR+  Q+A+QVI+QKVR
Sbjct: 62  WDVVNEEELEFPDRQLSLEQAKERKPSAAVGDRIEEIIPSIEFGRIEAQTARQVIMQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER+    +F+ K+G++I GTVK+V   N+I+DLG  ++  + R E +  E  RP DRV
Sbjct: 122 EAERELIIDQFRSKLGQLIYGTVKKVTRDNIIIDLGGKAEAFLPRSEMLPHEMFRPNDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++Y+Y++  + RGPQ+ +SRT  + +++LF +EVPEI   I+ +KA +RDPG+RAK+AV 
Sbjct: 182 RAYLYEITPQARGPQLFVSRTRNEMLIELFRIEVPEIGENIIDIKAAARDPGNRAKIAVK 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           ++D  IDP+GACVGMRG+RVQAV +EL  E++DI++W  + A  VINA+ PA +T +V+D
Sbjct: 242 TNDGRIDPIGACVGMRGARVQAVSSELGGERVDIILWDDNPAQLVINAMAPADITSIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V KEQLS AIGR GQNVRLASQLTGWT++++T EE     Q++ ++    F
Sbjct: 302 EDTHTMDLAVAKEQLSQAIGRNGQNVRLASQLTGWTLNVMTTEEFESKNQEESSKIVNLF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
             A+ +DE IA LLVA GF+ +EE+A V   E+ +IE FDEE   E++ RA + L  + +
Sbjct: 362 TSALEIDEEIATLLVAHGFSSLEEVAYVPKEELLAIEEFDEEIVEELRNRANDKLLEMAL 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
           +  K +      + L ++ G+   +   L   GI TMEDLA  SVD+L+           
Sbjct: 422 SSGKGLSG-TPDDSLINMEGMTEDLANKLASKGITTMEDLAEQSVDELMEIE-------- 472

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
                    G  +++  ++I+ AR    W 
Sbjct: 473 ---------GISEEKAGALIMKAREP--WF 491


>gi|237746613|ref|ZP_04577093.1| transcription pausing [Oxalobacter formigenes HOxBLS]
 gi|229377964|gb|EEO28055.1| transcription pausing [Oxalobacter formigenes HOxBLS]
          Length = 518

 Score =  565 bits (1456), Expect = e-159,   Method: Composition-based stats.
 Identities = 204/468 (43%), Positives = 313/468 (66%), Gaps = 5/468 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            LE+LQ+ DA+A EK++D+++VL  +  ++  A +  Y    DIRV I+ ++G++  FR 
Sbjct: 2   SLEILQLVDALAREKNVDKEIVLGALEHALALATKKRYPGDVDIRVAIDRQSGEVETFRR 61

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             VV +   ++    ++    A+++ P I++G  + D +  +D GR   Q  KQ+++Q++
Sbjct: 62  WHVVPDEAGLQQPDQEMLFFEAKEQFPDIEVGDYIEDHVESVDLGRRFAQDTKQIVLQRI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           R+AER++   +F D+   +++GTVKR+E G+ IV+ G  +  + R++ I +ENLR GDRV
Sbjct: 122 RDAEREQILQDFLDRGDSLVTGTVKRMERGDAIVESGKVEARLPREQMIPKENLRIGDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++YI  V R  RGPQV+LSRT P+F+VKLF +EVPEI  G++++K+ +RDPG RAK+AV+
Sbjct: 182 RAYILRVERGARGPQVILSRTAPEFIVKLFELEVPEIEQGLLEIKSAARDPGVRAKIAVY 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           ++D  IDP+G CVGMRGSRVQAV  EL  E++DIV+WS D A FVI AL PA V+ +V+D
Sbjct: 242 TADKRIDPIGTCVGMRGSRVQAVTGELGGERVDIVLWSEDPAQFVIGALAPANVSSIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   ++VIV +E L++AIGR GQNVRLA++LTGW I+I+T EE +     +  E  + F
Sbjct: 302 EDKHAMDVIVDEENLAIAIGRSGQNVRLATELTGWKINIMTAEESADKTALEKAELQKLF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+ ++VD  +A +L+ EGF  +EE+A V I+E+  IE FDEET  EI+ RAR+ L    I
Sbjct: 362 MEKLDVDSEVADILIEEGFTSLEEIAYVPINEMLDIEAFDEETVNEIRQRARDALITEAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
             ++ +   G+ E L  + G+   +   LG  G+KT+E  AG + D+ 
Sbjct: 422 VSEEGM--AGMEEALSGLEGMSRSVAGKLGLAGVKTLERFAGLAYDEF 467


>gi|15836839|ref|NP_297527.1| transcription elongation factor NusA [Xylella fastidiosa 9a5c]
 gi|9105045|gb|AAF83047.1|AE003877_2 N utilization substance protein A [Xylella fastidiosa 9a5c]
          Length = 503

 Score =  564 bits (1454), Expect = e-158,   Method: Composition-based stats.
 Identities = 199/508 (39%), Positives = 321/508 (63%), Gaps = 22/508 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI--RVEINPETGDISLF 63
             ELL + D VA EK + R ++   +  ++  AA+  Y    DI  RV I+ ++G+   +
Sbjct: 2   SKELLLVVDVVANEKGVPRQIIFDAIEVALASAAKKRY-QDRDILTRVTIDQKSGNYETY 60

Query: 64  RLLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           R  EVV +   +E+   QI L  A D    +++G  + + +   DFGR++ Q+AKQVI+Q
Sbjct: 61  RRWEVVADDVVMESPERQIRLMDALDEADGVEVGDYIEEQIENPDFGRISAQAAKQVIVQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPG 179
           +VREAER +    +K++VGE+++G VKRVE GN+ VDLG  ++  I +D+ I R+ +RPG
Sbjct: 121 RVREAERQQVVDAWKNRVGELVTGVVKRVERGNIYVDLGGGTEAFIPKDKGIPRDVIRPG 180

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DRV+ Y+ +VR E RGPQ+ +SR+ P+FM++LF +EVPE+  G+V++K  +RDPG RAK+
Sbjct: 181 DRVRGYLAEVRSESRGPQLFISRSAPEFMIELFKLEVPEVGQGLVEIKGCARDPGDRAKI 240

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV + D+  DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  +
Sbjct: 241 AVIAHDNRTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNENPANFVINAMAPAEVQSI 300

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           ++DE+   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T E+ +   + +     
Sbjct: 301 IVDEEKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTAEQVAAKSEAEQVAAR 360

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM+ + VDE IA +LV EGF  +EE+A V + E+ ++EGFDE+   E++ RAR+ L  
Sbjct: 361 RLFMERLEVDEEIASILVMEGFNTIEEIAYVPVGELLAVEGFDEDIVEELRARARDALLN 420

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
             +  ++ +   G + +L  + G+D     AL  +G++T EDL+  + D+++ +      
Sbjct: 421 AALAEEEGLEHSGPAPDLLELNGMDEITAHALAAHGVRTSEDLSDLAADEIVEFDIQ--- 477

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARY 507
                       G    +   +I+ AR 
Sbjct: 478 ------------GMTVQRAAVLILAARA 493


>gi|254284119|ref|ZP_04959087.1| N utilization substance protein A [gamma proteobacterium NOR51-B]
 gi|219680322|gb|EED36671.1| N utilization substance protein A [gamma proteobacterium NOR51-B]
          Length = 499

 Score =  564 bits (1454), Expect = e-158,   Method: Composition-based stats.
 Identities = 206/516 (39%), Positives = 327/516 (63%), Gaps = 22/516 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK +  D++   +  ++  AA+  Y   SDI V+I+ ETGD    R 
Sbjct: 2   NKEILMVAEAVSNEKGVSEDIIFEAIELALATAAKKRYDEESDIEVQIDRETGDYVTTRR 61

Query: 66  LEVVEEVEN--YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV + E      Q + + A + +  +  G V  + +  +DFGR+A Q+AKQVI+Q+VR
Sbjct: 62  WLVVPDSELALLGTQFTTEEAIEVNAELKPGDVHEEVVDNVDFGRIAAQTAKQVIVQRVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           +AER +   +++ +VGE+++GTVK+V   NVIVDLG N++G++ R E + RE  R  DRV
Sbjct: 122 DAERAQIVEQYQSRVGELLAGTVKKVTRDNVIVDLGGNAEGLLPRTELVGRETFRINDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++  E RGPQ++LSR   + +++LF +EVPEI  G++Q++A +RDPGSRAK+AV 
Sbjct: 182 RAILTEINTESRGPQLILSRACKEMLIELFKIEVPEIAEGVIQIRAAARDPGSRAKIAVK 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           + D  IDPVGACVGMRGSRVQAV  EL +E++DI++W  ++A  VINA+ PA V  +V+D
Sbjct: 242 TGDQRIDPVGACVGMRGSRVQAVSNELDNERVDIILWDDNAAQLVINAMSPAEVESIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +EV V ++ L+ AIGR GQNVRLAS LT WTI++++ ++    ++ +  +  + F
Sbjct: 302 EDSNTMEVAVAEDNLAQAIGRGGQNVRLASDLTEWTINVMSVDDAIEKQEAEAIQVMETF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M A++VDE +A +LV EGF  +EE+A V + E+ SIEGFDE+ + E++ RA++ L  + I
Sbjct: 362 MNALDVDEDVAGVLVEEGFTTLEEVAYVPLEEMMSIEGFDEDISEELRARAKDALLTMAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++++     +E+L ++ G++  +   L   GI TMEDLA   VDD++           
Sbjct: 422 ASEEQLGANEPAEDLLAMEGMERHLAFVLASRGIVTMEDLAEQGVDDIMDIE-------- 473

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
                       +++  ++I+ AR    W  +E+ A
Sbjct: 474 ---------DMTEERAAALIMTAREP--WFAEEESA 498


>gi|167562940|ref|ZP_02355856.1| transcription elongation factor NusA [Burkholderia oklahomensis
           EO147]
          Length = 491

 Score =  563 bits (1453), Expect = e-158,   Method: Composition-based stats.
 Identities = 211/508 (41%), Positives = 338/508 (66%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P +++G  + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKPDVEVGDYIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E ++ + ++ +     F+ 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESALKQNEERDALRGLFIA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ R+R+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRSRDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    +  +L S+ G+ S++   L E G++T +DLA  +VD+L+  +          
Sbjct: 424 EEKVETAAL--DLKSLDGVTSELLAKLAEQGVQTRDDLAELAVDELVDMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  ++  +++I+ AR    W 
Sbjct: 472 -------GMDEESAKALIMKAREH--WF 490


>gi|167836822|ref|ZP_02463705.1| transcription elongation factor NusA [Burkholderia thailandensis
           MSMB43]
          Length = 491

 Score =  563 bits (1453), Expect = e-158,   Method: Composition-based stats.
 Identities = 212/508 (41%), Positives = 337/508 (66%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P +++G  + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKPEVEVGDYIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQNEERDALRGLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +LV EGF  +EE+A V ++E+  IE FDE+T  E++ R+R+ L  + I  
Sbjct: 364 RLDVDEEVADILVDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRSRDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    +  +L S+ G+ +++   L E G++T +DLA  +VD+L+  +          
Sbjct: 424 EEKVETAAL--DLKSLDGVTAELLTKLAEQGVQTRDDLAELAVDELVDMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  ++  +++I+ AR    W 
Sbjct: 472 -------GMEEEAAKALIMKAREH--WF 490


>gi|152980158|ref|YP_001354186.1| N utilization substance protein A [Janthinobacterium sp. Marseille]
 gi|151280235|gb|ABR88645.1| N utilization substance protein A [Janthinobacterium sp. Marseille]
          Length = 519

 Score =  563 bits (1453), Expect = e-158,   Method: Composition-based stats.
 Identities = 203/466 (43%), Positives = 311/466 (66%), Gaps = 5/466 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+D+V   +  ++ +A +  Y    DIRV I+ ETG+   FR   
Sbjct: 4   EILLLVDALAREKNVDKDIVFGALEHALAQATKKRYEGDVDIRVSIDRETGEFESFRRWH 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I    A+++   I++   + +P+  +DFGR   Q  KQV++Q++R+
Sbjct: 64  VVPDEAGLQLPDQEILHFEAKEQIGDIEVDDYIEEPIESVDFGRRFAQDTKQVVLQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F ++   +++GT+KR+E G+ IV+ G  +  + RD+TI +ENLR GDRV++
Sbjct: 124 AEREQILADFLERGDSLVTGTIKRMERGDAIVESGRIEARLPRDQTIPKENLRIGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  + R  RGPQV+LSRT P+F++KLF +EVPEI  G++++K+ +RD G RAK+AVF+S
Sbjct: 184 YILRIDRNARGPQVILSRTAPEFIMKLFELEVPEIEQGLLEIKSAARDAGVRAKIAVFTS 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVGMRGSRVQAV  EL  E++DIV+WS D A FVI AL PA V+ +V+DE+
Sbjct: 244 DKRIDPIGTCVGMRGSRVQAVTGELGGERVDIVLWSEDPAQFVIGALAPANVSSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+T EE +   Q +       FM+
Sbjct: 304 KHAMDVVVDEENLAIAIGRGGQNVRLASELTGWQINIMTAEESADKSQLETAAIRTLFME 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VD+ +A +LV EGFA +EE+A V ISE+  IE FDE+T  E++ RAR+ L    I  
Sbjct: 364 KLDVDQEVADILVDEGFASLEEIAYVPISEMLDIESFDEDTVNELRNRARDALVTEAIAS 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           ++ +   G+ E L ++ G+D  +   LG  GIKT+   +  + D+ 
Sbjct: 424 EEGLE--GMEEALANLEGMDRVMAGKLGLAGIKTLAAFSALAYDEF 467


>gi|167587339|ref|ZP_02379727.1| NusA antitermination factor [Burkholderia ubonensis Bu]
          Length = 491

 Score =  563 bits (1452), Expect = e-158,   Method: Composition-based stats.
 Identities = 212/508 (41%), Positives = 334/508 (65%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++   +++G  + + +P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKGDVEVGDYIEESVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQGEERDRLRALFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    +  +L S+ GI  ++   L E+G+ T +DLA  +VD+L+  +          
Sbjct: 424 EEKVENAAL--DLKSLDGITPELLSKLAEHGVATRDDLAELAVDELVDMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  +D  +++I+ AR    W 
Sbjct: 472 -------GVEEDAAKALIMKAREH--WF 490


>gi|53719533|ref|YP_108519.1| transcription elongation factor NusA [Burkholderia pseudomallei
           K96243]
 gi|53724824|ref|YP_102761.1| transcription elongation factor NusA [Burkholderia mallei ATCC
           23344]
 gi|76808602|ref|YP_333313.1| transcription elongation factor NusA [Burkholderia pseudomallei
           1710b]
 gi|121598320|ref|YP_992838.1| transcription elongation factor NusA [Burkholderia mallei SAVP1]
 gi|124384704|ref|YP_001026181.1| transcription elongation factor NusA [Burkholderia mallei NCTC
           10229]
 gi|126439048|ref|YP_001058778.1| transcription elongation factor NusA [Burkholderia pseudomallei
           668]
 gi|126449841|ref|YP_001080549.1| transcription elongation factor NusA [Burkholderia mallei NCTC
           10247]
 gi|126455004|ref|YP_001066030.1| transcription elongation factor NusA [Burkholderia pseudomallei
           1106a]
 gi|134282331|ref|ZP_01769036.1| transcription termination factor NusA [Burkholderia pseudomallei
           305]
 gi|167004351|ref|ZP_02270109.1| transcription termination factor NusA [Burkholderia mallei PRL-20]
 gi|167719819|ref|ZP_02403055.1| transcription elongation factor NusA [Burkholderia pseudomallei
           DM98]
 gi|167738820|ref|ZP_02411594.1| transcription elongation factor NusA [Burkholderia pseudomallei 14]
 gi|167816041|ref|ZP_02447721.1| transcription elongation factor NusA [Burkholderia pseudomallei 91]
 gi|167824417|ref|ZP_02455888.1| transcription elongation factor NusA [Burkholderia pseudomallei 9]
 gi|167845949|ref|ZP_02471457.1| transcription elongation factor NusA [Burkholderia pseudomallei
           B7210]
 gi|167894526|ref|ZP_02481928.1| transcription elongation factor NusA [Burkholderia pseudomallei
           7894]
 gi|167902931|ref|ZP_02490136.1| transcription elongation factor NusA [Burkholderia pseudomallei
           NCTC 13177]
 gi|167911167|ref|ZP_02498258.1| transcription elongation factor NusA [Burkholderia pseudomallei
           112]
 gi|167919191|ref|ZP_02506282.1| transcription elongation factor NusA [Burkholderia pseudomallei
           BCC215]
 gi|217423351|ref|ZP_03454852.1| transcription termination factor NusA [Burkholderia pseudomallei
           576]
 gi|226199712|ref|ZP_03795265.1| transcription termination factor NusA [Burkholderia pseudomallei
           Pakistan 9]
 gi|237812041|ref|YP_002896492.1| transcription elongation factor NusA [Burkholderia pseudomallei
           MSHR346]
 gi|238562584|ref|ZP_00440122.2| transcription termination factor NusA [Burkholderia mallei GB8
           horse 4]
 gi|242314941|ref|ZP_04813957.1| transcription termination factor NusA [Burkholderia pseudomallei
           1106b]
 gi|254178511|ref|ZP_04885166.1| transcription termination factor NusA [Burkholderia mallei ATCC
           10399]
 gi|254179981|ref|ZP_04886580.1| transcription termination factor NusA [Burkholderia pseudomallei
           1655]
 gi|254188607|ref|ZP_04895118.1| transcription termination factor NusA [Burkholderia pseudomallei
           Pasteur 52237]
 gi|254198017|ref|ZP_04904439.1| transcription termination factor NusA [Burkholderia pseudomallei
           S13]
 gi|254206031|ref|ZP_04912383.1| transcription termination factor NusA [Burkholderia mallei JHU]
 gi|254260843|ref|ZP_04951897.1| transcription termination factor NusA [Burkholderia pseudomallei
           1710a]
 gi|254358405|ref|ZP_04974678.1| transcription termination factor NusA [Burkholderia mallei
           2002721280]
 gi|52209947|emb|CAH35919.1| N utilization substance protein A [Burkholderia pseudomallei
           K96243]
 gi|52428247|gb|AAU48840.1| N utilization substance protein A [Burkholderia mallei ATCC 23344]
 gi|76578055|gb|ABA47530.1| N utilization substance protein A [Burkholderia pseudomallei 1710b]
 gi|121227130|gb|ABM49648.1| transcription termination factor NusA [Burkholderia mallei SAVP1]
 gi|124292724|gb|ABN01993.1| N utilization substance protein A [Burkholderia mallei NCTC 10229]
 gi|126218541|gb|ABN82047.1| transcription termination factor NusA [Burkholderia pseudomallei
           668]
 gi|126228646|gb|ABN92186.1| transcription termination factor NusA [Burkholderia pseudomallei
           1106a]
 gi|126242711|gb|ABO05804.1| transcription termination factor NusA [Burkholderia mallei NCTC
           10247]
 gi|134246369|gb|EBA46458.1| transcription termination factor NusA [Burkholderia pseudomallei
           305]
 gi|147753474|gb|EDK60539.1| transcription termination factor NusA [Burkholderia mallei JHU]
 gi|148027532|gb|EDK85553.1| transcription termination factor NusA [Burkholderia mallei
           2002721280]
 gi|157936286|gb|EDO91956.1| transcription termination factor NusA [Burkholderia pseudomallei
           Pasteur 52237]
 gi|160699550|gb|EDP89520.1| transcription termination factor NusA [Burkholderia mallei ATCC
           10399]
 gi|169654758|gb|EDS87451.1| transcription termination factor NusA [Burkholderia pseudomallei
           S13]
 gi|184210521|gb|EDU07564.1| transcription termination factor NusA [Burkholderia pseudomallei
           1655]
 gi|217393209|gb|EEC33230.1| transcription termination factor NusA [Burkholderia pseudomallei
           576]
 gi|225928298|gb|EEH24332.1| transcription termination factor NusA [Burkholderia pseudomallei
           Pakistan 9]
 gi|237503145|gb|ACQ95463.1| transcription elongation factor NusA [Burkholderia pseudomallei
           MSHR346]
 gi|238522259|gb|EEP85704.1| transcription termination factor NusA [Burkholderia mallei GB8
           horse 4]
 gi|242138180|gb|EES24582.1| transcription termination factor NusA [Burkholderia pseudomallei
           1106b]
 gi|243060319|gb|EES42505.1| transcription termination factor NusA [Burkholderia mallei PRL-20]
 gi|254219532|gb|EET08916.1| transcription termination factor NusA [Burkholderia pseudomallei
           1710a]
          Length = 491

 Score =  563 bits (1452), Expect = e-158,   Method: Composition-based stats.
 Identities = 210/508 (41%), Positives = 335/508 (65%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P +++G  + + +P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKPDVEVGDYIEESVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQNEERDALRGLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ R+R+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRSRDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    +  +L S+ G+  ++   L E G++T +DLA  +VD+L+  +          
Sbjct: 424 EEKVETAAL--DLKSLDGVTPELLAKLAEQGVQTRDDLAELAVDELVDMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  ++  +++I+ AR    W 
Sbjct: 472 -------GMEEEAAKALIMKAREH--WF 490


>gi|83719213|ref|YP_443082.1| transcription elongation factor NusA [Burkholderia thailandensis
           E264]
 gi|167620248|ref|ZP_02388879.1| transcription elongation factor NusA [Burkholderia thailandensis
           Bt4]
 gi|257139311|ref|ZP_05587573.1| transcription elongation factor NusA [Burkholderia thailandensis
           E264]
 gi|83653038|gb|ABC37101.1| N utilization substance protein A [Burkholderia thailandensis E264]
          Length = 491

 Score =  563 bits (1451), Expect = e-158,   Method: Composition-based stats.
 Identities = 210/508 (41%), Positives = 335/508 (65%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P +++G  + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKPGVEVGDYIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQNEERDALRGLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ R+R+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRSRDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    +  +L S+ G+  ++   L E  ++T +DLA  +VD+L+  +          
Sbjct: 424 EEKVETAAL--DLKSLDGVTPELLAKLAEQSVQTRDDLAELAVDELVDMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  ++  +++I+ AR    W 
Sbjct: 472 -------GMEEEAAKALIMKAREH--WF 490


>gi|54298757|ref|YP_125126.1| transcription elongation factor NusA [Legionella pneumophila str.
           Paris]
 gi|53752542|emb|CAH13974.1| Transcription elongation protein nusA [Legionella pneumophila str.
           Paris]
          Length = 492

 Score =  563 bits (1451), Expect = e-158,   Method: Composition-based stats.
 Identities = 210/510 (41%), Positives = 327/510 (64%), Gaps = 23/510 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL +A+A++ E+ + +DV++  +  +++ A R + G    +R++I+ +TGD   FR 
Sbjct: 2   SKELLLVAEALSNERGVSKDVIILAIQAALESATRKILGLDIGVRIKIDSKTGDYETFRY 61

Query: 66  LEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
            +VV  EE+E    Q+SL+ A++R PS  +G  + + +P ++FGR+  Q+A+QVI+QKVR
Sbjct: 62  WDVVNEEELEFPDRQLSLEQAKERKPSAAVGDRIEEIIPSIEFGRIEAQTARQVIMQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER+    +F+ K+G++I GTVK+V   NVI+DLG  ++  + R E +  E  RP DRV
Sbjct: 122 EAERELIIDQFRSKLGQLIYGTVKKVTRDNVIIDLGGKAEAFLPRSEMLPHEMFRPNDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++Y+Y++  + RGPQ+ +SRT  + +++LF +EVPEI   I+ +KA +RDPG+RAK+AV 
Sbjct: 182 RAYLYEITPQARGPQLFVSRTRNEMLIELFRIEVPEIGENIIDIKAAARDPGNRAKIAVK 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           ++D  IDP+GACVGMRG+RVQAV +EL  E++DI++W  + A  VINA+ PA +T +V+D
Sbjct: 242 TNDGRIDPIGACVGMRGARVQAVSSELGGERVDIILWDDNPAQLVINAMAPADITSIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V KEQLS AIGR GQNVRLASQLTGWT++++T EE     Q++ ++    F
Sbjct: 302 EDTHTMDLAVAKEQLSQAIGRNGQNVRLASQLTGWTLNVMTTEEFESKNQEESSKIVNLF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
             A+ +DE IA LLVA GF+ +EE+A V   E+ +IE FDEE   E++ RA + L  + +
Sbjct: 362 TNALEIDEEIATLLVAHGFSSLEEVAYVPKEELLAIEEFDEEIVEELRNRANDKLLEMAL 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
           +  K +      + L ++ G+   +   L   GI TMEDLA  SVD+L+           
Sbjct: 422 SSGKGLSG-TPDDSLINMEGMTEDLANKLASKGITTMEDLAEQSVDELMEIE-------- 472

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
                    G  +++  ++I+ AR    W 
Sbjct: 473 ---------GISEEKAGALIMKAREP--WF 491


>gi|160898430|ref|YP_001564012.1| NusA antitermination factor [Delftia acidovorans SPH-1]
 gi|160364014|gb|ABX35627.1| NusA antitermination factor [Delftia acidovorans SPH-1]
          Length = 495

 Score =  563 bits (1451), Expect = e-158,   Method: Composition-based stats.
 Identities = 202/514 (39%), Positives = 322/514 (62%), Gaps = 24/514 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL + +A++ EK+++RD+V   +  ++ +A + LY    DIRV I+ ++G+   FR 
Sbjct: 2   NRELLMLVEAISREKNVERDLVFGAVESALAQATKKLYQGEVDIRVAIDRDSGNYDTFRR 61

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             VV +   ++N   +  L  A+DR P I  G  + + +  +  GR+   +AKQVI+QK+
Sbjct: 62  WLVVPDDAGLQNPDAEEMLMDAQDRVPGISEGEYIEEEIESVPIGRIGAMAAKQVILQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           R+AER+    EF  +   I +GTVKR++ G++IV+ G  +G +RR+E I +ENLR GDRV
Sbjct: 122 RDAEREMLLNEFLSRGDRIFTGTVKRMDKGDIIVEAGRVEGRLRRNEMIPKENLRNGDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ I +V    RG  ++LSR+ P+FMV+LF  EVPEI  G++++K+ +RD GSRAK+AV 
Sbjct: 182 RAMIMEVDATLRGAPIILSRSAPEFMVELFRNEVPEIEQGLLEIKSCARDSGSRAKIAVL 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  +DP+G CVG+RG+RV AV  EL  E++DIV+WS D A FVI AL PA V+ +V+D
Sbjct: 242 SHDKRVDPIGTCVGVRGTRVNAVTNELAGERVDIVLWSEDPAQFVIGALAPANVSSIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+   ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+   E +  +  +     Q F
Sbjct: 302 EEKHAMDVVVDEENLAIAIGRGGQNVRLASELTGWKINIMDAAESAQKQADESAVARQLF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+ ++VDE IA++L+ EGF  +EE+A V + E+  IE FDEET  E++ RA++ L   +I
Sbjct: 362 MEKLDVDEEIANILIEEGFETLEEVAYVPLQEMLEIEAFDEETVNELRTRAKDALLTQEI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++ +    VS++L ++ G+  +I   L E  + T +DLA  ++D+L   +        
Sbjct: 422 AHEENVG--KVSQDLLTLEGMTPEIVDKLAEADVHTRDDLADLAIDELTELT-------- 471

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                    G  +++ +++I+ AR    W  + +
Sbjct: 472 ---------GQTEEEAKALIMKAREH--WFTEGQ 494


>gi|134095611|ref|YP_001100686.1| transcription pausing; L factor [Herminiimonas arsenicoxydans]
 gi|133739514|emb|CAL62565.1| Transcription elongation protein nusA (N utilization substance
           protein A) (L factor) [Herminiimonas arsenicoxydans]
          Length = 519

 Score =  563 bits (1451), Expect = e-158,   Method: Composition-based stats.
 Identities = 202/466 (43%), Positives = 312/466 (66%), Gaps = 5/466 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+LQ+ DA+A EK++D D+V   +  ++ +A +  Y    DIRV I+ +TG+   FR   
Sbjct: 4   EILQLVDALAREKNVDPDIVFGALEHALAQATKKRYEGDVDIRVSIDRDTGEFESFRRWH 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I    A+++   I++   + +P+  ++FGR   Q  KQV++Q++R+
Sbjct: 64  VVPDDAGLQLPDQEILHFEAKEQIGDIEVDDHIEEPIESVEFGRRFAQDTKQVVLQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F ++   +++GT+KR+E G+ IV+ G  +  + RD+TI +ENLR GDRV++
Sbjct: 124 AEREQILADFLERGDSLVTGTIKRMERGDAIVESGRIEARLPRDQTIPKENLRIGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  + R  RGPQV+LSRT P+F++KLF +EVPEI  G++++K+ +RD G RAK+AVF+S
Sbjct: 184 YILRIDRNARGPQVILSRTAPEFIMKLFELEVPEIEQGLLEIKSAARDAGVRAKIAVFTS 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVGMRGSRVQAV  EL  E++DIV+WS D A FVI AL PA V+ +V+DE+
Sbjct: 244 DKRIDPIGTCVGMRGSRVQAVTGELGGERVDIVLWSEDPAQFVIGALAPANVSSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+T EE +   Q +       FM+
Sbjct: 304 KHAMDVVVDEENLAIAIGRGGQNVRLASELTGWQINIMTAEESADKSQLETAATRILFME 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VD+ +A +LV EGFA +EE+A V I E+  IE FDE+T  E++ RAR+ L    I  
Sbjct: 364 KLDVDQEVADILVDEGFASLEEIAYVPIGEMLDIESFDEDTVNELRNRARDALVTEAIAS 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           ++ +   G+ E L ++ G+D  +   LG  G+KT++  AG + D+ 
Sbjct: 424 EEGME--GMDEALANLEGMDRIVAGKLGLAGVKTLDAFAGLAYDEF 467


>gi|323525724|ref|YP_004227877.1| NusA antitermination factor [Burkholderia sp. CCGE1001]
 gi|323382726|gb|ADX54817.1| NusA antitermination factor [Burkholderia sp. CCGE1001]
          Length = 491

 Score =  563 bits (1451), Expect = e-158,   Method: Composition-based stats.
 Identities = 214/508 (42%), Positives = 335/508 (65%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV + +  ++  A++ L+   +DIRV I+ E+G+   FR  +
Sbjct: 4   EVLMLVDALAREKNVDKDVVFAALEAALASASKKLFEEDADIRVHIDRESGEHETFRRWK 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P I I   + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDQEILLFEAREQKPEIQIDDYIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F ++   I++G+VKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDFLERGEHIMTGSVKRLDKGNFIVETGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENVDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++       FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQNQERGVLRDLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    V+ +L S+ G+D+ +   L E+ I+T ++LA  +VD+L+  +          
Sbjct: 424 EEKVEN--VALDLKSLDGMDADLLAKLAEHQIQTRDELAELAVDELVEMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  +D  +++I+ AR    W 
Sbjct: 472 -------GMEEDAAKALIMKAREH--WF 490


>gi|171463768|ref|YP_001797881.1| NusA antitermination factor [Polynucleobacter necessarius subsp.
           necessarius STIR1]
 gi|171193306|gb|ACB44267.1| NusA antitermination factor [Polynucleobacter necessarius subsp.
           necessarius STIR1]
          Length = 493

 Score =  563 bits (1451), Expect = e-158,   Method: Composition-based stats.
 Identities = 199/510 (39%), Positives = 326/510 (63%), Gaps = 25/510 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS-DIRVEINPETGDISLFRLL 66
           E+L +ADA+A EK++ + +V   +  ++  A +  Y T   DIRV I+ ETG+   FR  
Sbjct: 4   EVLMLADALAREKNVGQAIVFEALEMALASATKKCYATEDVDIRVSIDRETGEYETFRRW 63

Query: 67  EVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
            VV     ++    +I    A+++   +++G  + + +  + FGR+  Q+AKQVI+Q++R
Sbjct: 64  LVVPNEAGLQEPDKEILQFEAQEQLADMEVGDYIEEQIESLAFGRIGAQAAKQVILQRIR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           +AER++   +  ++  ++++GTVKR +   VI++ G  + ++RRD+ I +ENLR GDRV+
Sbjct: 124 DAEREQILNDHLERGEKVMTGTVKRADKNGVIIESGRVEALLRRDQMIPKENLRSGDRVR 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           +YI  V RE RGPQ+ LSRT P F++KLF  EVPE+  G++++K  +RDPG RAK+AV +
Sbjct: 184 AYILKVDREARGPQIELSRTCPDFLIKLFENEVPEMEQGLLEIKGAARDPGIRAKIAVIT 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D  IDP+G CVG+RG+RV AV  E+  E +DIV+WS D A FVI AL PA V+ +V+DE
Sbjct: 244 YDKRIDPIGTCVGVRGTRVTAVRNEVAGEAVDIVLWSEDPAQFVIGALAPAQVSSIVVDE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           +   ++V+V +E L++AIGR GQNVRLAS LTGW I+I+T EE +   +K+ +   Q FM
Sbjct: 304 ERHAMDVVVDEENLAIAIGRSGQNVRLASDLTGWQINIMTPEESAEKTEKEASSVRQLFM 363

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
             ++VD+ +A +L+ EGF  +EE+A V +SE+  I+ FD++T  E++ RAR+ L  +++ 
Sbjct: 364 DKLDVDQEVADILIEEGFNTLEEVAYVPLSEMLEIDSFDKDTVNELRTRARDSLLTMELA 423

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            +++I E  VS++L S+ G+ +++   L +N + T +DLA  +VD+L+  ++        
Sbjct: 424 KEERIGE--VSQDLRSLEGMTTELIAKLADNQVHTRDDLAELAVDELVEATQ-------- 473

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                      ++  +++I+ AR    W  
Sbjct: 474 ---------IDEETAKTLIMKAREH--WFT 492


>gi|206559872|ref|YP_002230636.1| transcription elongation factor NusA [Burkholderia cenocepacia
           J2315]
 gi|198035913|emb|CAR51805.1| N utilization substance protein A [Burkholderia cenocepacia J2315]
          Length = 491

 Score =  562 bits (1450), Expect = e-158,   Method: Composition-based stats.
 Identities = 213/508 (41%), Positives = 336/508 (66%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P +++G  V +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKPDVEVGEYVEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVIAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLA +LTGW I+I+T +E ++ + ++ +     FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLAGELTGWQINIMTPDESALKQGEERDRLRALFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    +  +L S+ GI  ++   L E+ ++T +DLA  +VD+L+  +          
Sbjct: 424 EEKVENAAL--DLKSLDGITPELLAKLAEHAVQTRDDLAELAVDELVDMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  +D  +++I+ AR    W 
Sbjct: 472 -------GMEEDAAKALIMKAREH--WF 490


>gi|167570129|ref|ZP_02363003.1| transcription elongation factor NusA [Burkholderia oklahomensis
           C6786]
          Length = 491

 Score =  562 bits (1450), Expect = e-158,   Method: Composition-based stats.
 Identities = 211/508 (41%), Positives = 338/508 (66%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P ++IG  + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKPDVEIGDYIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ + +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLVPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E ++ + ++ +     F+ 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESALKQNEERDALRGLFIA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ R+R+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRSRDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    +  +L S+ G+ S++   L E G++T +DLA  +VD+L+  +          
Sbjct: 424 EEKVETAAL--DLKSLDGVTSELLAKLAEQGVQTRDDLAELAVDELVDMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  ++  +++I+ AR    W 
Sbjct: 472 -------GMDEESAKALIMKAREH--WF 490


>gi|254297816|ref|ZP_04965269.1| transcription termination factor NusA [Burkholderia pseudomallei
           406e]
 gi|157807196|gb|EDO84366.1| transcription termination factor NusA [Burkholderia pseudomallei
           406e]
          Length = 487

 Score =  562 bits (1450), Expect = e-158,   Method: Composition-based stats.
 Identities = 209/507 (41%), Positives = 334/507 (65%), Gaps = 24/507 (4%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV I+ E+G+   FR   V
Sbjct: 1   MLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETFRRWLV 60

Query: 69  VEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           V +   ++    +I L  AR++ P +++G  + + +P ++FGR+  Q+AKQVI+QKVR+A
Sbjct: 61  VPDEAGLQEPDREILLFEAREQKPDVEVGDYIEESVPSIEFGRIGAQAAKQVILQKVRDA 120

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++Y
Sbjct: 121 EREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRAY 180

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + D
Sbjct: 181 IAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAYD 240

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+ 
Sbjct: 241 KRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEEK 300

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++ +     FM  
Sbjct: 301 HSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQNEERDALRGLFMAR 360

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ R+R+ L  + I  +
Sbjct: 361 LDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRSRDALLTMAIANE 420

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFD 485
           +K+    +  +L S+ G+  ++   L E G++T +DLA  +VD+L+  +           
Sbjct: 421 EKVETAAL--DLKSLDGVTPELLAKLAEQGVQTRDDLAELAVDELVDMT----------- 467

Query: 486 GFLSSLGTPKDQVESMIIHARYKMGWI 512
                 G  ++  +++I+ AR    W 
Sbjct: 468 ------GMEEEAAKALIMKAREH--WF 486


>gi|254496140|ref|ZP_05109038.1| transcription elongation factor NusA [Legionella drancourtii
           LLAP12]
 gi|254354627|gb|EET13264.1| transcription elongation factor NusA [Legionella drancourtii
           LLAP12]
          Length = 502

 Score =  562 bits (1450), Expect = e-158,   Method: Composition-based stats.
 Identities = 205/520 (39%), Positives = 332/520 (63%), Gaps = 33/520 (6%)

Query: 6   RLELLQIADAVAY---------EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPE 56
             ELL +A+A++          E+ + ++V++  +  +++ A R ++G    +R++++P 
Sbjct: 2   SKELLLVAEALSKISKPLSVPTERGVSKEVIILAIQAALESATRKIFGLEIGVRIKLDPR 61

Query: 57  TGDISLFRLLEVV---EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQS 113
           TG+   FR  +VV   ++VE    Q++L  A++R+P+I +G  + + +P ++FGR+  Q+
Sbjct: 62  TGEYETFRFWDVVADEDDVEFPEHQLTLAQAKERNPAITVGERIEESIPSIEFGRIEAQA 121

Query: 114 AKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETIS 172
           A+QVI+QKVREAERD    +F+ K+G++I G+VK+V   N+I+DLG  ++  + R E + 
Sbjct: 122 ARQVIMQKVREAERDLVIEQFRSKLGQLIYGSVKKVTRDNIIIDLGGKAEAFLPRTEMLP 181

Query: 173 RENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRD 232
            E  RP DRV++Y+Y++  + RGPQ+ +SRT  + +++LF +EVPEI   ++ VKA +R+
Sbjct: 182 HEMFRPNDRVRAYLYEIIPQARGPQLFVSRTRNEMLIELFRIEVPEIGENVIDVKAAARE 241

Query: 233 PGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALR 292
           PG+RAK+AV ++D  IDPVGACVGMRG+RVQAV +EL  E++DI++W  + A  VINA+ 
Sbjct: 242 PGNRAKIAVKTNDGRIDPVGACVGMRGARVQAVSSELGGERVDIILWDDNPAQLVINAMA 301

Query: 293 PAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
           PA +T +V+DED   +++ V K+QLS AIGR GQNVRLASQLTGWT++++T +E     Q
Sbjct: 302 PADITSIVVDEDTHTMDLAVEKDQLSQAIGRNGQNVRLASQLTGWTLNVMTTDEFENKNQ 361

Query: 353 KDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGR 412
           ++ ++  + F  A+ +DE IA LLVA GF+ +EE+A V   E+ +IE FD+E   E++ R
Sbjct: 362 EESSKIVKLFTSALEIDEEIATLLVAHGFSSLEEVAYVPKEELLAIEEFDDEIVEELRNR 421

Query: 413 AREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG 472
           A + L  + +T  K +      E L ++ G+  ++   L E GI +MEDLA  SVD+LL 
Sbjct: 422 ANDNLLTMALTSGKGLAGA-PDESLLAMDGMTEELANKLAEKGITSMEDLAEQSVDELLE 480

Query: 473 WSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
                              G  +++  ++I+ AR    W 
Sbjct: 481 ID-----------------GMSEEKAGALIMKAREP--WF 501


>gi|28198121|ref|NP_778435.1| transcription elongation factor NusA [Xylella fastidiosa Temecula1]
 gi|71898654|ref|ZP_00680824.1| Transcription termination factor NusA:Transcription termination
           factor NusA, C-terminal duplication [Xylella fastidiosa
           Ann-1]
 gi|182680749|ref|YP_001828909.1| transcription elongation factor NusA [Xylella fastidiosa M23]
 gi|28056181|gb|AAO28084.1| N utilization substance protein A [Xylella fastidiosa Temecula1]
 gi|71731601|gb|EAO33662.1| Transcription termination factor NusA:Transcription termination
           factor NusA, C-terminal duplication [Xylella fastidiosa
           Ann-1]
 gi|182630859|gb|ACB91635.1| NusA antitermination factor [Xylella fastidiosa M23]
 gi|307579213|gb|ADN63182.1| transcription elongation factor NusA [Xylella fastidiosa subsp.
           fastidiosa GB514]
          Length = 503

 Score =  562 bits (1450), Expect = e-158,   Method: Composition-based stats.
 Identities = 199/508 (39%), Positives = 319/508 (62%), Gaps = 22/508 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI--RVEINPETGDISLF 63
             ELL + D VA EK + R ++   +  ++  AA+  Y    DI  RV I+ + G+   +
Sbjct: 2   SKELLLVVDVVANEKGVPRQIIFDAIEVALASAAKKRY-QDRDILTRVTIDQKNGNYETY 60

Query: 64  RLLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           R  EVV +   +E+   QI L  A D    +++G  + + +   DFGR++ Q+AKQVI+Q
Sbjct: 61  RRWEVVADDVVMESPERQIRLMDALDEADGVEVGDYIEEQIENPDFGRISAQAAKQVIVQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPG 179
           +VREAER +    +K++VGE+++G VKRVE GN+ VDLG  ++  I +D+ I R+ +RPG
Sbjct: 121 RVREAERQQVVDAWKNRVGELVTGVVKRVERGNIYVDLGGGTEAFIPKDKGIPRDVIRPG 180

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DRV+ Y+ +VR E RGPQ+ +SR+ P+FM++LF +EVPE+  G+V++K  +RDPG RAK+
Sbjct: 181 DRVRGYLAEVRSESRGPQLFISRSAPEFMIELFKLEVPEVGQGLVEIKGCARDPGDRAKI 240

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV + D+  DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  +
Sbjct: 241 AVIAHDNRTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNENPANFVINAMAPAEVQSI 300

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           ++DE+   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T E+ +   + +     
Sbjct: 301 IVDEERHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTAEQVAAKSEAEQLAAR 360

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM  + VDE IA +LV EGF  +EE+A V + E+ ++EGFDE+   E++ RAR+ L  
Sbjct: 361 RLFMDRLEVDEEIASILVMEGFNTIEEIAYVPVGELLAVEGFDEDIVEELRARARDALLN 420

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
             +  ++ +   G + +L  + G+D     AL  +G++T EDL+  + D+++ +      
Sbjct: 421 AALAEEEVLEHSGPAPDLLELNGMDEITAHALAAHGVRTSEDLSDLAADEIVEFDIQ--- 477

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARY 507
                       G    +   +I+ AR 
Sbjct: 478 ------------GMTVQRAAVLILAARA 493


>gi|71276363|ref|ZP_00652640.1| Transcription termination factor NusA:Transcription termination
           factor NusA, C-terminal duplication [Xylella fastidiosa
           Dixon]
 gi|71901435|ref|ZP_00683525.1| Transcription termination factor NusA:Transcription termination
           factor NusA, C-terminal duplication [Xylella fastidiosa
           Ann-1]
 gi|170729432|ref|YP_001774865.1| transcription elongation factor NusA [Xylella fastidiosa M12]
 gi|71162825|gb|EAO12550.1| Transcription termination factor NusA:Transcription termination
           factor NusA, C-terminal duplication [Xylella fastidiosa
           Dixon]
 gi|71728806|gb|EAO30947.1| Transcription termination factor NusA:Transcription termination
           factor NusA, C-terminal duplication [Xylella fastidiosa
           Ann-1]
 gi|167964225|gb|ACA11235.1| N utilization substance protein A [Xylella fastidiosa M12]
          Length = 503

 Score =  562 bits (1450), Expect = e-158,   Method: Composition-based stats.
 Identities = 199/508 (39%), Positives = 319/508 (62%), Gaps = 22/508 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI--RVEINPETGDISLF 63
             ELL + D VA EK + R ++   +  ++  AA+  Y    DI  RV I+ + G+   +
Sbjct: 2   SKELLLVVDVVANEKGVPRQIIFDAIEVALASAAKKRY-QDRDILTRVTIDQKNGNYETY 60

Query: 64  RLLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           R  EVV +   +E+   QI L  A D    +++G  + + +   DFGR++ Q+AKQVI+Q
Sbjct: 61  RRWEVVADDVVMESPERQIRLMDALDEADGVEVGDYIEEQIENPDFGRISAQAAKQVIVQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPG 179
           +VREAER +    +K++VGE+++G VKRVE GN+ VDLG  ++  I +D+ I R+ +RPG
Sbjct: 121 RVREAERQQVVDAWKNRVGELVTGVVKRVERGNIYVDLGGGTEAFIPKDKGIPRDVIRPG 180

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DRV+ Y+ +VR E RGPQ+ +SR+ P+FM++LF +EVPE+  G+V++K  +RDPG RAK+
Sbjct: 181 DRVRGYLAEVRSESRGPQLFISRSAPEFMIELFKLEVPEVGQGLVEIKGCARDPGDRAKI 240

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV + D+  DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  +
Sbjct: 241 AVIAHDNRTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNENPANFVINAMAPAEVQSI 300

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           ++DE+   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T E+ +   + +     
Sbjct: 301 IVDEERHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTAEQVAAKSEAEQVAAR 360

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM  + VDE IA +LV EGF  +EE+A V + E+ ++EGFDE+   E++ RAR+ L  
Sbjct: 361 RLFMDRLEVDEEIASILVMEGFNTIEEIAYVPVGELLAVEGFDEDIVEELRARARDALLN 420

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
             +  ++ +   G + +L  + G+D     AL  +G++T EDL+  + D+++ +      
Sbjct: 421 AALAEEEVLEHSGPAPDLLELNGMDEITAHALAAHGVRTSEDLSDLAADEIVEFDIQ--- 477

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARY 507
                       G    +   +I+ AR 
Sbjct: 478 ------------GMTVQRAAVLILAARA 493


>gi|240949224|ref|ZP_04753568.1| transcription elongation factor NusA [Actinobacillus minor NM305]
 gi|240296340|gb|EER46984.1| transcription elongation factor NusA [Actinobacillus minor NM305]
          Length = 498

 Score =  562 bits (1450), Expect = e-158,   Method: Composition-based stats.
 Identities = 191/515 (37%), Positives = 308/515 (59%), Gaps = 25/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + ++ +   +  ++  A +       D+RV ++ +TG+   FR 
Sbjct: 2   SKEILFAAEAVSNEKQLPKEAIFEALETALTIATKKSSDLDIDVRVSVDRKTGNFQTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV N T +ISL+ A+  DP+I +G +V D +  ++FGRVA+Q+  QV+  K+REA
Sbjct: 62  WLVVEEVHNMTREISLEAAQFEDPNIQLGDIVEDEVESIEFGRVAIQTFGQVVKTKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG------NSDGVIRRDETISRENLRPG 179
           E+ +   EF+   G+IIS TVK+V   N+ ++L         + VI R++ + REN RPG
Sbjct: 122 EKGKIIDEFRSDEGKIISATVKKVTRDNIFLELQGKTEDIKGEAVIVREDMLPRENFRPG 181

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DRV+  +Y ++ E +GPQ+ L+R  P  + +LF +EVPEI    +++K  +RDPGSRAK+
Sbjct: 182 DRVRGVLYAIKPESKGPQIFLTRAKPVMLTELFKLEVPEIGEQTIEIKGAARDPGSRAKI 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S+D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +
Sbjct: 242 AVKSNDKRIDPVGACVGMRGARVQAISNELGGERVDIVLWDDNPAQFVINAMAPADVSSI 301

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           +++++   +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T EE     Q++  +  
Sbjct: 302 IINDETHSMDIAVEAKNLAQAIGRNGQNVRLATQLTGWTLNVMTVEELEKKNQEEDGKVI 361

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLE 418
                A+ +DE  A +L+ EGF  +E +A V +  + +I+G  DE+   E+Q RA+  + 
Sbjct: 362 NLLTSALEIDEEFAQVLIEEGFTSLEAIAYVPVDALTAIDGLEDEDLVEELQARAKNAIT 421

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
              +  ++ +++  + E+L ++ G++  I   L E GI T+EDLA    D+L    E   
Sbjct: 422 KQALAEEEALKQAHIDEKLLNLEGMERHIAFRLAEKGITTLEDLAEQGTDELADIEE--- 478

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                            +    +I+ AR ++ W  
Sbjct: 479 --------------LSAEAAGELIMAAR-QICWFS 498


>gi|52842972|ref|YP_096771.1| transcription elongation factor NusA [Legionella pneumophila subsp.
           pneumophila str. Philadelphia 1]
 gi|52630083|gb|AAU28824.1| N utilization substance protein A [Legionella pneumophila subsp.
           pneumophila str. Philadelphia 1]
          Length = 492

 Score =  562 bits (1450), Expect = e-158,   Method: Composition-based stats.
 Identities = 209/510 (40%), Positives = 327/510 (64%), Gaps = 23/510 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL +A+A++ E+ + +DV++  +  +++ A R + G    +R++I+ +TGD   FR 
Sbjct: 2   SKELLLVAEALSNERGVSKDVIILAIQAALESATRKILGLDIGVRIKIDSKTGDYETFRY 61

Query: 66  LEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
            +VV  EE+E    Q+SL+ A++R PS  +G  + + +P ++FGR+  Q+A+QVI+QKVR
Sbjct: 62  WDVVNEEELEFPDRQLSLEQAKERKPSAAVGDRIEEIIPSIEFGRIEAQTARQVIMQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER+    +F+ K+G++I GTVK+V   N+I+DLG  ++  + R E +  E  RP DRV
Sbjct: 122 EAERELIIDQFRSKLGQLIYGTVKKVTRDNIIIDLGGKAEAFLPRSEMLPHEMFRPNDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++Y+Y++  + RGPQ+ +SRT  + +++LF +EVPEI   I+ +KA +RDPG+RAK+AV 
Sbjct: 182 RAYLYEITPQARGPQLFVSRTRNEMLIELFRIEVPEIGENIIDIKAAARDPGNRAKIAVK 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           ++D  IDP+GACVGMRG+RVQAV +EL  E++DI++W  + A  VINA+ PA +T +V+D
Sbjct: 242 TNDGRIDPIGACVGMRGARVQAVSSELGGERVDIILWDDNPAQLVINAMAPADITSIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V KEQLS AIGR GQNVRLASQLTGWT++++T EE     Q++ ++    F
Sbjct: 302 EDTHTMDLAVAKEQLSQAIGRNGQNVRLASQLTGWTLNVMTTEEFESKNQEESSKIVNLF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
             A+ +DE IA LLVA GF+ +EE+A V   E+ +IE FDEE   E++ RA + L  + +
Sbjct: 362 TSALEIDEEIATLLVAHGFSSLEEVAYVPKEELLAIEEFDEEIVEELRNRANDKLLEMAL 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
           +  K +      + L ++ G+   +   L   GI TMEDLA  SVD+L+           
Sbjct: 422 SSGKGLSG-TPDDSLINMEGMTEDLANKLASKGITTMEDLAEQSVDELMEIE-------- 472

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
                    G  +++  ++I+ AR    W 
Sbjct: 473 ---------GISEEKAGALIMKAREP--WF 491


>gi|223042074|ref|ZP_03612250.1| transcription elongation protein NusA [Actinobacillus minor 202]
 gi|223017149|gb|EEF15585.1| transcription elongation protein NusA [Actinobacillus minor 202]
          Length = 498

 Score =  562 bits (1449), Expect = e-158,   Method: Composition-based stats.
 Identities = 190/515 (36%), Positives = 306/515 (59%), Gaps = 25/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + ++ +   +  ++  A +       D+RV ++ +TG    FR 
Sbjct: 2   SKEILFAAEAVSNEKQLPKEAIFEALETALTIATKKSSELDIDVRVVVDRKTGSFQTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE+V N T +ISL+ A+  +P I +G VV D +  ++FGRVA+Q+  QV+  K+REA
Sbjct: 62  WLVVEDVHNMTREISLEAAQFENPDIQLGDVVEDEVESIEFGRVAIQTFGQVVKTKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG------NSDGVIRRDETISRENLRPG 179
           E+ +   EF+   G+IIS TVK+V   N+ ++L         + VI R++ + REN RPG
Sbjct: 122 EKGKIIDEFRSDEGKIISATVKKVTRDNIFLELQGKTEDIKGEAVIAREDMLPRENFRPG 181

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DRV+  +Y ++ E +GPQ+ L+R  P  + +LF +EVPEI    +++K  +RDPGSRAK+
Sbjct: 182 DRVRGVLYAIKPESKGPQIFLTRAKPVMLTELFKLEVPEIGEQTIEIKGAARDPGSRAKI 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S+D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +
Sbjct: 242 AVKSNDKRIDPVGACVGMRGARVQAISNELGGERVDIVLWDDNPAQFVINAMAPADVSSI 301

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
            ++++   +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T EE +   Q++  +  
Sbjct: 302 TINDETHSMDIAVEAKNLAQAIGRNGQNVRLATQLTGWTLNVMTVEELAKKNQEEDGKVI 361

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLE 418
                A+ +DE  A +L+ EGF  +E +A V +  + +I+G  DE+   E+Q RA+  + 
Sbjct: 362 NLLTSALEIDEEFAQVLIEEGFTSLEAIAYVPVDALTAIDGLEDEDLVEELQARAKNAIT 421

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
              +  ++ +++  + E+L ++ G++  I   L E GI T+EDLA    D+L    E   
Sbjct: 422 KQALAEEEALKQAHIDEQLLNLEGMERHIAFRLAEKGITTLEDLAEQGTDELADIEE--- 478

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                            +    +I+ AR ++ W  
Sbjct: 479 --------------LSAEAAGELIMAAR-QICWFS 498


>gi|167856225|ref|ZP_02478960.1| translation initiation factor IF-2 [Haemophilus parasuis 29755]
 gi|167852645|gb|EDS23924.1| translation initiation factor IF-2 [Haemophilus parasuis 29755]
          Length = 510

 Score =  562 bits (1449), Expect = e-158,   Method: Composition-based stats.
 Identities = 198/527 (37%), Positives = 319/527 (60%), Gaps = 37/527 (7%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL-----------YGTMSDIRVEIN 54
             E+L  A+AV+ EK + +D +   +  ++  + +              G   D+RV I+
Sbjct: 2   SKEILLAAEAVSNEKLLPKDAIFEALETALAISTKKKAAAEREDRKTGNGIDIDVRVVID 61

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSA 114
            +TG  + +R   VVE+V ++T +I+L+ A+  DP+I +G  V D +  + F R+ +Q+A
Sbjct: 62  RKTGAFTTYRRWLVVEKVHHHTREITLEAAQFEDPNIQLGDYVEDEIESIAFDRITMQTA 121

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-------NSDGVIRR 167
           +QVI  K+REAER++   +F+ + G+I+ GTVK+V   ++I++L         ++ VI R
Sbjct: 122 RQVITMKIREAERNKVIEQFRSEEGKIVIGTVKKVSRESIILELAGKKDDTTKAEAVIVR 181

Query: 168 DETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVK 227
           ++ + REN RPGDRV+  +Y ++ E +GPQ+ ++R  P  + +LF +EVPEI   ++++K
Sbjct: 182 EDMLPRENFRPGDRVRGVLYAIKPESKGPQLFVTRAKPVMLQELFKLEVPEIGEEVIEIK 241

Query: 228 AVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFV 287
             SRDPGSRAK+AV S+D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A F+
Sbjct: 242 GASRDPGSRAKIAVKSNDKRIDPVGACVGMRGARVQAITNELGGERVDIVLWDDNPAQFL 301

Query: 288 INALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
           INA+ PA V+ +V+DED   +++ V    L+ AIGR GQNVRLA+QLTGWT++++T +E 
Sbjct: 302 INAMAPADVSSIVVDEDNHSMDIAVEANALAQAIGRNGQNVRLATQLTGWTLNVMTTDEL 361

Query: 348 SINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETA 406
               Q + N+    FM A+ +DE  AHLL+ EGF  +EE+A V + E+ +I+G  DE+  
Sbjct: 362 EKKHQAEDNKVINLFMDALEIDEEFAHLLIEEGFTSLEEIAYVPVKELTAIDGLEDEDLV 421

Query: 407 VEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
            E+Q RA+  +    +  ++ +++  + ++L ++ G+D  I   L E  I T+EDLA  S
Sbjct: 422 EELQVRAKNAITAKALAEEEALKQAHIEDKLLNLEGMDRHIAFKLAEKQITTLEDLAEQS 481

Query: 467 VDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           VDDL    E                    ++   +I+ AR ++ W  
Sbjct: 482 VDDLADIEE-----------------LTAEKAAELIMAAR-QICWFS 510


>gi|219870469|ref|YP_002474844.1| transcription elongation factor NusA [Haemophilus parasuis SH0165]
 gi|219690673|gb|ACL31896.1| transcription elongation factor NusA [Haemophilus parasuis SH0165]
          Length = 510

 Score =  562 bits (1449), Expect = e-158,   Method: Composition-based stats.
 Identities = 197/527 (37%), Positives = 318/527 (60%), Gaps = 37/527 (7%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL-----------YGTMSDIRVEIN 54
             E+L  A+AV+ EK + +D +   +  ++  + +              G   D+RV I+
Sbjct: 2   SKEILLAAEAVSNEKLLPKDAIFEALETALAISTKKKAAAEREDRKTGNGIDIDVRVVID 61

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSA 114
            +TG  + +R   VVE+V ++T +I+L+ A+  DP+I +G  V D +  + F R+ +Q+A
Sbjct: 62  RKTGAFTTYRRWLVVEKVHHHTREITLEAAQFEDPNIQLGDYVEDEIESIAFDRITMQTA 121

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-------NSDGVIRR 167
           +QVI  K+REAER++   +F+ + G+I+ GTVK+V   ++I++L         ++ VI R
Sbjct: 122 RQVITMKIREAERNKVIEQFRSEEGKIVIGTVKKVSRESIILELAGKKDDTTKAEAVIVR 181

Query: 168 DETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVK 227
           ++ + REN RPGDRV+  +Y ++ E +GPQ+ ++R  P  + +LF +EVPEI   ++++K
Sbjct: 182 EDMLPRENFRPGDRVRGVLYAIKPESKGPQLFVTRAKPVMLQELFKLEVPEIGEEVIEIK 241

Query: 228 AVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFV 287
             SRDPGSRAK+AV S+D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A F+
Sbjct: 242 GASRDPGSRAKIAVKSNDKRIDPVGACVGMRGARVQAITNELGGERVDIVLWDDNPAQFL 301

Query: 288 INALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
           INA+ PA V+ +V+DED   +++ V    L+ AIGR GQNVRLA+QLTGWT++++T +E 
Sbjct: 302 INAMAPADVSSIVVDEDNHSMDIAVEANALAQAIGRNGQNVRLATQLTGWTLNVMTTDEL 361

Query: 348 SINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETA 406
               Q + N+    FM A+ +DE  AHLL+ EGF  +EE+A V + E+ +I+G  DE+  
Sbjct: 362 EKKHQAEDNKVINLFMDALEIDEEFAHLLIEEGFTSLEEIAYVPVKELTAIDGLEDEDLV 421

Query: 407 VEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
            E+Q RA+  +    +  ++ +++  + ++L ++ G+D  I   L E  I T+EDLA   
Sbjct: 422 EELQVRAKNAITAKALAEEEALKQAHIEDKLLNLEGMDRHIAFKLAEKQITTLEDLAEQG 481

Query: 467 VDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           VDDL    E                    ++   +I+ AR ++ W  
Sbjct: 482 VDDLADIEE-----------------LTAEKAAELIMAAR-QICWFS 510


>gi|221067737|ref|ZP_03543842.1| NusA antitermination factor [Comamonas testosteroni KF-1]
 gi|220712760|gb|EED68128.1| NusA antitermination factor [Comamonas testosteroni KF-1]
          Length = 495

 Score =  561 bits (1448), Expect = e-158,   Method: Composition-based stats.
 Identities = 204/514 (39%), Positives = 321/514 (62%), Gaps = 24/514 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL + +A++ EK+++RDVV   +  ++ +A + LY    DIRV I+ E+GD   FR 
Sbjct: 2   NRELLMLVEAISREKNVERDVVFGAVESALAQATKKLYQGEVDIRVSIDRESGDYDTFRR 61

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             VV +   ++N   +  L  A DR P I IG  + + +  +  GR+   +AKQVI+QK+
Sbjct: 62  WVVVSDDAGLQNPDAEEMLMDAEDRVPGIQIGEFIEEQIESLPIGRIGAMAAKQVILQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           R+AER+    EF  +  +I +GTVKR++ G++IV+ G  +G ++R E I +ENLR GDRV
Sbjct: 122 RDAEREMLLNEFLARGDKIFTGTVKRMDKGDIIVESGRVEGRLKRGEMIPKENLRNGDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ I +V    RG  +LLSR+ P+FMV+LF  EVPEI  G++++K+ +RD GSRAK+AV 
Sbjct: 182 RAMIMEVDATLRGAPILLSRSAPEFMVELFRNEVPEIEQGLLEIKSCARDAGSRAKIAVL 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  +DP+G CVG+RG+RV AV  EL  E++DIV+WS D A FVI AL PA V+ +V+D
Sbjct: 242 SHDKRVDPIGTCVGVRGTRVNAVTNELAGERVDIVLWSEDPAQFVIGALAPANVSSIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+   ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+   E +  +  +     + F
Sbjct: 302 EEKHAMDVVVDEENLAIAIGRGGQNVRLASELTGWKINIMDAAESAQKQADESAVSRKLF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+ ++VDE IA++L+ EGF  +EE+A V + E+  IE FDEET  E++ RA++ L   +I
Sbjct: 362 MEKLDVDEEIANILIEEGFETLEEVAYVPLQEMLEIESFDEETVNELRSRAKDALLSQEI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++ + +   SE+L S+ G+ +++   L +  + T +DLA  ++D+L   +        
Sbjct: 422 AREENVSKA--SEDLVSLDGMTAELLDKLAQADVHTRDDLADLAIDELTDIT-------- 471

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                    G   ++ +++I+ AR    W    +
Sbjct: 472 ---------GQTAEEAKALIMKAREH--WFADGQ 494


>gi|238027585|ref|YP_002911816.1| transcription elongation factor NusA [Burkholderia glumae BGR1]
 gi|237876779|gb|ACR29112.1| Transcription elongation factor NusA [Burkholderia glumae BGR1]
          Length = 491

 Score =  561 bits (1448), Expect = e-158,   Method: Composition-based stats.
 Identities = 214/508 (42%), Positives = 338/508 (66%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVVL  +  ++  A++ L+   ++IRV+I+ E+G+   FR   
Sbjct: 4   EVLMLVDALAREKNVDKDVVLGALEAALASASKKLFDEGAEIRVQIDRESGEHETFRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P +D+G  + + +P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQQPGVDVGDYIEESVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR  DRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVSDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E ++ + ++ +     FM 
Sbjct: 304 KHSMDVVVDESELAVAIGRSGQNVRLASELTGWQINIMTPDESALKQNEERDRLRGLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDEET  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEETVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    +  +L S+ G+ S++   L ENG++T +DLA  +VD+L+  +          
Sbjct: 424 EEKVENAAL--DLKSLEGMTSELLAKLAENGVQTRDDLAELAVDELVEMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  ++  +++I+ AR    W 
Sbjct: 472 -------GVEEEAAKALIMKAREH--WF 490


>gi|264677930|ref|YP_003277837.1| NusA antitermination factor [Comamonas testosteroni CNB-2]
 gi|299530199|ref|ZP_07043625.1| NusA antitermination factor [Comamonas testosteroni S44]
 gi|262208443|gb|ACY32541.1| NusA antitermination factor [Comamonas testosteroni CNB-2]
 gi|298721856|gb|EFI62787.1| NusA antitermination factor [Comamonas testosteroni S44]
          Length = 495

 Score =  561 bits (1448), Expect = e-158,   Method: Composition-based stats.
 Identities = 204/514 (39%), Positives = 321/514 (62%), Gaps = 24/514 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL + +A++ EK+++RDVV   +  ++ +A + LY    DIRV I+ E+GD   FR 
Sbjct: 2   NRELLMLVEAISREKNVERDVVFGAVESALAQATKKLYQGEVDIRVSIDRESGDYDTFRR 61

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             VV +   ++N   +  L  A DR P I IG  + + +  +  GR+   +AKQVI+QK+
Sbjct: 62  WVVVSDDAGLQNPDAEEMLMDAEDRVPGIQIGEFIEEQIESLPIGRIGAMAAKQVILQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           R+AER+    EF  +  +I +GTVKR++ G++IV+ G  +G ++R E I +ENLR GDRV
Sbjct: 122 RDAEREMLLNEFLARGEKIFTGTVKRMDKGDIIVESGRVEGRLKRGEMIPKENLRNGDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ I +V    RG  +LLSR+ P+FMV+LF  EVPEI  G++++K+ +RD GSRAK+AV 
Sbjct: 182 RAMIMEVDATLRGAPILLSRSAPEFMVELFRNEVPEIEQGLLEIKSCARDAGSRAKIAVL 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  +DP+G CVG+RG+RV AV  EL  E++DIV+WS D A FVI AL PA V+ +V+D
Sbjct: 242 SHDKRVDPIGTCVGVRGTRVNAVTNELAGERVDIVLWSEDPAQFVIGALAPANVSSIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+   ++V+V +E L++AIGR GQNVRLAS+LTGW I+I+   E +  +  +     + F
Sbjct: 302 EEKHAMDVVVDEENLAIAIGRGGQNVRLASELTGWKINIMDAAESAQKQADESAVSRKLF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+ ++VDE IA++L+ EGF  +EE+A V + E+  IE FDEET  E++ RA++ L   +I
Sbjct: 362 MEKLDVDEEIANILIEEGFETLEEVAYVPLQEMLEIESFDEETVNELRSRAKDALLSQEI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++ + +   SE+L S+ G+ +++   L +  + T +DLA  ++D+L   +        
Sbjct: 422 AREENVSKA--SEDLVSLDGMTAELLDKLAQADVHTRDDLADLAIDELTEIT-------- 471

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                    G   ++ +++I+ AR    W    +
Sbjct: 472 ---------GQTAEEAKALIMKAREH--WFTDGQ 494


>gi|197335920|ref|YP_002155240.1| transcription termination factor NusA [Vibrio fischeri MJ11]
 gi|197317410|gb|ACH66857.1| transcription termination factor NusA [Vibrio fischeri MJ11]
          Length = 495

 Score =  561 bits (1448), Expect = e-158,   Method: Composition-based stats.
 Identities = 198/512 (38%), Positives = 314/512 (61%), Gaps = 19/512 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +       ++RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKAVPRERIFEALEIALATATKKKSEMEIEVRVAIDRKTGDFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
              VE VEN T +IS++ A+  D +I++GG + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVAVENVENPTLEISIEAAQFEDETIEVGGYIEDDIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F D  GE+I+G VK+V    +IVDLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAMIVEQFIDNEGELITGIVKKVNRDAIIVDLGNNAEAVILREDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V+ E RG Q+ ++R+    + +LF +EVPEI   ++++K  +RDPGSRAK+AV ++
Sbjct: 182 LLYAVKPEARGFQLFMTRSKGVMLTELFRVEVPEIGEELIELKGAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPAEVASIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  + +   Q++       F++
Sbjct: 302 NNTMDIAVEADNLAQAIGRSGQNVRLASQLTGWELNVMTVADLNKKHQEEAQGSIDAFVK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++D   A LLV EGF  +EE+A V ++E+  IE  DE+T   ++ RA+E L  + +  
Sbjct: 362 HLDIDADFAQLLVEEGFTTLEEIAYVPVNELLEIEELDEDTVDALRTRAKEALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ +  +  +E+L ++ G++ ++   L   G+ T+EDLA   VD+L              
Sbjct: 422 EESLDGVEPAEDLLALEGLERELAFKLAAKGVITLEDLADQGVDELSDIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                     +++   +I+ AR  + W   E+
Sbjct: 472 -------NLTEERAGELIMAAR-NICWFSDEE 495


>gi|59711092|ref|YP_203868.1| transcription elongation factor NusA [Vibrio fischeri ES114]
 gi|59479193|gb|AAW84980.1| transcription termination/antitermination L factor NusA [Vibrio
           fischeri ES114]
          Length = 495

 Score =  561 bits (1447), Expect = e-158,   Method: Composition-based stats.
 Identities = 200/512 (39%), Positives = 314/512 (61%), Gaps = 19/512 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +       ++RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKAVPRERIFEALEIALATATKKKSEMEIEVRVAIDRKTGDFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
              VE VEN T +IS++ A+  D +I+IGG V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVAVENVENPTLEISIEAAQFEDETIEIGGYVEDDIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F D  GE+I+G VK+V    +IVDLGN ++ VI R++ + REN RPGDRV+ 
Sbjct: 122 ERAMIVEQFIDNEGELITGIVKKVNRDAIIVDLGNNAEAVILREDQLPRENFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V+ E RG Q+ ++R+    + +LF +EVPEI   ++++K  +RDPGSRAK+AV ++
Sbjct: 182 LLYAVKPEARGFQLFMTRSKGVMLTELFRVEVPEIGEELIELKGAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFVINAMAPAEVASIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  + +   Q++       F++
Sbjct: 302 NNTMDIAVEADNLAQAIGRSGQNVRLASQLTGWELNVMTVADLNKKHQEEAQGSIDAFVK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++D   A LLV EGF  +EE+A V ++E+  IE  DE+T   ++ RA+E L  + +  
Sbjct: 362 HLDIDADFAQLLVEEGFTTLEEVAYVPVNELLEIEELDEDTVDALRTRAKEALTTLALAQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++ +  +  +E+L ++ G++ ++   L   G+ T+EDLA   VD+L              
Sbjct: 422 EESLDGVEPAEDLLALEGLERELAFKLAAKGVITLEDLADQGVDELSDIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                     +++   +I+ AR  + W   E+
Sbjct: 472 -------NLTEERAGELIMAAR-NICWFSDEE 495


>gi|296108417|ref|YP_003620118.1| N utilization substance protein A [Legionella pneumophila 2300/99
           Alcoy]
 gi|295650319|gb|ADG26166.1| N utilization substance protein A [Legionella pneumophila 2300/99
           Alcoy]
          Length = 492

 Score =  561 bits (1447), Expect = e-158,   Method: Composition-based stats.
 Identities = 209/510 (40%), Positives = 327/510 (64%), Gaps = 23/510 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL +A+A++ E+ + +DV++  +  +++ A R + G    +R++I+ +TGD   FR 
Sbjct: 2   SKELLLVAEALSNERGVSKDVIILAIQAALESATRKILGLDIGVRIKIDSKTGDYETFRY 61

Query: 66  LEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
            +VV  EE+E    Q+SL+ A++R PS  +G  + + +P ++FGR+  Q+A+QVI+QKVR
Sbjct: 62  WDVVNEEELEFPDRQLSLEQAKERKPSAAVGDRIEEIIPSIEFGRIEAQTARQVIMQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER+    +F+ K+G++I GTVK+V   N+I+DLG  ++  + R E +  E  RP DRV
Sbjct: 122 EAERELIIDQFRSKLGQLIYGTVKKVTRDNIIIDLGGKAEAFLPRSEMLPHEMFRPNDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++Y+Y++  + RGPQ+ +SRT  + +++LF +EVPEI   I+ +KA +RDPG+RAK+AV 
Sbjct: 182 RAYLYEITPQARGPQLFVSRTRNEMLIELFRIEVPEIGENIIDIKAAARDPGNRAKIAVK 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           ++D  IDP+GACVGMRG+RVQAV +EL  E++DI++W  + A  VINA+ PA +T +V+D
Sbjct: 242 TNDGRIDPIGACVGMRGARVQAVSSELGGERVDIILWDDNPAQLVINAMAPADITSIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V KEQLS AIGR GQNVRLASQLTGWT++++T EE     Q++ ++    F
Sbjct: 302 EDTHTMDLAVAKEQLSQAIGRNGQNVRLASQLTGWTLNVMTMEEFESKNQEESSKIVNLF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
             A+ +DE IA LLVA GF+ +EE+A V   E+ +IE FDEE   E++ RA + L  + +
Sbjct: 362 TSALEIDEEIATLLVAHGFSSLEEVAYVPKEELLAIEEFDEEIVEELRNRANDKLLEMAL 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
           +  K +      + L ++ G+   +   L   GI TMEDLA  SVD+L+           
Sbjct: 422 SSGKGLSG-TPDDSLINMEGMTEDLANKLASKGITTMEDLAEQSVDELMEIE-------- 472

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
                    G  +++  ++I+ AR    W 
Sbjct: 473 ---------GISEEKAGALIMKAREP--WF 491


>gi|54295603|ref|YP_128018.1| transcription elongation factor NusA [Legionella pneumophila str.
           Lens]
 gi|53755435|emb|CAH16931.1| Transcription elongation protein nusA [Legionella pneumophila str.
           Lens]
 gi|307611645|emb|CBX01332.1| transcription elongation protein nusA [Legionella pneumophila 130b]
          Length = 492

 Score =  561 bits (1447), Expect = e-157,   Method: Composition-based stats.
 Identities = 209/510 (40%), Positives = 327/510 (64%), Gaps = 23/510 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL +A+A++ E+ + +DV++  +  +++ A R + G    +R++I+ +TGD   FR 
Sbjct: 2   SKELLLVAEALSNERGVSKDVIILAIQAALESATRKILGLDIGVRIKIDSKTGDYETFRY 61

Query: 66  LEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
            +VV  EE+E    Q+SL+ A++R PS  +G  + + +P ++FGR+  Q+A+QVI+QKVR
Sbjct: 62  WDVVNEEELEFPDRQLSLEQAKERKPSAAVGDRIEEIIPSIEFGRIEAQTARQVIMQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER+    +F+ K+G++I GTVK+V   N+I+DLG  ++  + R E +  E  RP DRV
Sbjct: 122 EAERELIIDQFRSKLGQLIYGTVKKVTRDNIIIDLGGKAEAFLPRSEMLPHEMFRPNDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++Y+Y++  + RGPQ+ +SRT  + +++LF +EVPEI   I+ +KA +RDPG+RAK+AV 
Sbjct: 182 RAYLYEITPQARGPQLFVSRTRNEMLIELFRIEVPEIGENIIDIKAAARDPGNRAKIAVK 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           ++D  IDP+GACVGMRG+RVQAV +EL  E++DI++W  + A  VINA+ PA +T +V+D
Sbjct: 242 TNDGRIDPIGACVGMRGARVQAVSSELGGERVDIILWDDNPAQLVINAMAPADITSIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V KEQLS AIGR GQNVRLASQLTGWT++++T EE     Q++ ++    F
Sbjct: 302 EDTHTMDLAVVKEQLSQAIGRNGQNVRLASQLTGWTLNVMTTEEFESKNQEESSKIVNLF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
             A+ +DE IA LLVA GF+ +EE+A V   E+ +IE FDEE   E++ RA + L  + +
Sbjct: 362 TSALEIDEEIATLLVAHGFSSLEEVAYVPKEELLAIEEFDEEIVEELRNRANDKLLEMAL 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
           +  K +      + L ++ G+   +   L   GI TMEDLA  SVD+L+           
Sbjct: 422 SSGKGLSG-TPDDSLINMEGMTEDLANKLASKGITTMEDLAEQSVDELMEIE-------- 472

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
                    G  +++  ++I+ AR    W 
Sbjct: 473 ---------GISEEKAGALIMKAREP--WF 491


>gi|88797622|ref|ZP_01113211.1| N utilization substance protein A [Reinekea sp. MED297]
 gi|88779794|gb|EAR10980.1| N utilization substance protein A [Reinekea sp. MED297]
          Length = 503

 Score =  560 bits (1445), Expect = e-157,   Method: Composition-based stats.
 Identities = 200/515 (38%), Positives = 322/515 (62%), Gaps = 24/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM--SDIRVEINPETGDISLF 63
             E+L + DAVA EK + RDV+   M  ++  AA+         D+ V I+ +TG+   F
Sbjct: 8   SKEILLVVDAVANEKGVSRDVIFDAMELALATAAKKRLDDEGEPDVYVVIDRKTGEYETF 67

Query: 64  RLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           R  EV+ +  V     Q + + A + D ++  G V    +    FGR++ Q+AKQ+I+QK
Sbjct: 68  RRWEVMGDDVVPELGSQWTTEEAHEVDTNLKPGDVYEVQIENEGFGRISAQAAKQIIVQK 127

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGD 180
           VR+AER R    ++++VGE+++GTVK+V    +I+DLGN ++ V+ RD+ I RE  R  D
Sbjct: 128 VRDAERARIVDNYRERVGEMVTGTVKKVTRDALIIDLGNNAEAVLPRDQMIGREAFRLAD 187

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV++ + +++ E RGPQ++LSRT  + +V+LF +EVPEI   ++++++ +RDPGSRAK+A
Sbjct: 188 RVRAVLQEIKSEGRGPQLVLSRTSNEMLVELFRIEVPEIQEELIEIRSCARDPGSRAKIA 247

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V ++D  IDPVGACVGMRGSRVQAV  EL +E++DI++W  + A  VINA+ PA V  +V
Sbjct: 248 VKTNDGRIDPVGACVGMRGSRVQAVSNELGNERVDIILWDDNPAQLVINAMAPAEVASIV 307

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +EV V ++ L++AIGR GQNVRLA+ LTGW I+++TE+E    ++++  +   
Sbjct: 308 MDEDTNTMEVAVAEDNLAIAIGRNGQNVRLAADLTGWIINVMTEDEAGARQEQEAGQLVS 367

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F++ + VD+ +A +LV EGF  +EE+A V I+E+  I+GF+E+   E++ RA++ L   
Sbjct: 368 HFVEKLGVDDELAMILVEEGFTTLEEVAYVPINEMLDIDGFEEDLVNELRQRAKDELLTQ 427

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           ++  ++++      E+L  + G+   +   L  NG+ +MED+A  S+D+L+ +S      
Sbjct: 428 ELATEERLDSAEPQEDLLGLDGMTDHLARVLASNGVVSMEDVAELSIDELMEFS------ 481

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                      G  +D    +I+ AR    W E E
Sbjct: 482 -----------GLDEDASGKLIMAARAP--WFENE 503


>gi|170696460|ref|ZP_02887586.1| NusA antitermination factor [Burkholderia graminis C4D1M]
 gi|170138613|gb|EDT06815.1| NusA antitermination factor [Burkholderia graminis C4D1M]
          Length = 491

 Score =  560 bits (1445), Expect = e-157,   Method: Composition-based stats.
 Identities = 213/508 (41%), Positives = 335/508 (65%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV + +  ++  A++ L+   +DIRV I+ E+G+   FR  +
Sbjct: 4   EVLMLVDALAREKNVDKDVVFAALEAALASASKKLFEEDADIRVHIDRESGEHETFRRWK 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P I I   + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDQEILLFEAREQKPEIQIDDYIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F ++   I++G+VKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDFLERGEHIMTGSVKRLDKGNFIVETGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENVDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++       FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQNQERGVLRDLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ R+R+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRSRDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    V+ +L S+ G+D+ +   L E+ I+T ++LA  +VD+L+  +          
Sbjct: 424 EEKVEN--VALDLKSLDGMDADLLAKLAEHQIQTRDELAELAVDELVEMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  +D  +++I+ AR    W 
Sbjct: 472 -------GMEEDAAKALIMKAREH--WF 490


>gi|307730029|ref|YP_003907253.1| transcription termination factor NusA [Burkholderia sp. CCGE1003]
 gi|307584564|gb|ADN57962.1| transcription termination factor NusA [Burkholderia sp. CCGE1003]
          Length = 491

 Score =  560 bits (1444), Expect = e-157,   Method: Composition-based stats.
 Identities = 214/508 (42%), Positives = 335/508 (65%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV + +  ++  A++ L+   +DIRV I+ E+G+   FR  +
Sbjct: 4   EVLMLVDALAREKNVDKDVVFAALEAALASASKKLFEEDADIRVHIDRESGEHETFRRWK 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P I I   + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDQEILLFEAREQKPEIQIDEYIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F ++   I++G+VKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDFLERGEHIMTGSVKRLDKGNFIVETGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENVDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++       FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQNQERGVLRDLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    V+ +L S+ G+D+ +   L E+ I+T ++LA  +VD+L+  +          
Sbjct: 424 EEKVEN--VALDLKSLDGMDADLLAKLAEHQIQTRDELAELAVDELVEMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  +D  +++I+ AR    W 
Sbjct: 472 -------GMEEDAAKALIMKAREH--WF 490


>gi|330722350|gb|EGH00207.1| Transcription termination protein NusA [gamma proteobacterium
           IMCC2047]
          Length = 503

 Score =  560 bits (1444), Expect = e-157,   Method: Composition-based stats.
 Identities = 207/521 (39%), Positives = 326/521 (62%), Gaps = 27/521 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS--DIRVEINPETGDISLF 63
             E+L +A+AV+ EK +   V++  +  ++  A R  YG     DIRV I+  TGD   +
Sbjct: 2   SKEVLLVAEAVSNEKGVPESVIIEALELALATATRKRYGEDEQVDIRVTIDRRTGDYESY 61

Query: 64  RLLEVVEEVENY-----TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           R   V+ + +       T  ++   A+ +D S+++G V  + +  ++FGR+A Q+AKQVI
Sbjct: 62  RRWTVISDDDMDIEFHDTMHLTPAEAKKKDASLEVGDVWEEQIENVEFGRIAAQTAKQVI 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLR 177
           +QKVREAER +    ++D+VGE+++GTVK+V    VI+DLGN ++  + RD  I +E  R
Sbjct: 122 VQKVREAERAKVVEAYRDRVGEVLNGTVKKVTRDQVIIDLGNNAEAQLTRDHLIPKEIFR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
             DR+++ +  V  E RGPQ+++SRT P+F+++LF +EVPEI   +V+++A +RD G+RA
Sbjct: 182 MNDRLRALLVSVGEETRGPQLVVSRTAPEFLIELFKIEVPEIAEQVVEIRAAARDAGTRA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV ++D  IDPVGACVGMRGSRVQAV  EL  E+IDIV+W  + A  VINAL PA V 
Sbjct: 242 KIAVKTNDGRIDPVGACVGMRGSRVQAVSNELAGERIDIVLWDDNPAQMVINALAPAEVE 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            +++DE+   ++V V  + L++AIGR GQNVRLAS+LTGWTI+++T E+    ++++   
Sbjct: 302 SIIMDEESNTMDVAVSGDNLAIAIGRSGQNVRLASELTGWTINVMTAEDAEAKQEEEMVA 361

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
             + FM+ ++V+E +A LLV EGF  +EE+A V I E+  I+GFDEE    ++ RA++ L
Sbjct: 362 IIERFMERLDVEEDLAVLLVEEGFTSLEEIAYVPIEEMLEIDGFDEEIVEALRLRAKDVL 421

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
               I  ++++     +++L  + G+D  +   L   G+ TMEDLA  +VDDLLG     
Sbjct: 422 LTQAIASEEELEGTEPAQDLLEMDGMDKHLAYVLASKGVITMEDLAEQAVDDLLGIE--- 478

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
                         G  +++  ++I+ AR    W  +E+ +
Sbjct: 479 --------------GLDEERAANLIMTARAP--WFAEEQES 503


>gi|295676260|ref|YP_003604784.1| transcription termination factor NusA [Burkholderia sp. CCGE1002]
 gi|295436103|gb|ADG15273.1| transcription termination factor NusA [Burkholderia sp. CCGE1002]
          Length = 491

 Score =  560 bits (1444), Expect = e-157,   Method: Composition-based stats.
 Identities = 212/508 (41%), Positives = 336/508 (66%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV + +  ++  A++ L+   +DIRV I+ E+G+   FR  +
Sbjct: 4   EVLMLVDALAREKNVDKDVVFAALEAALASASKKLFEEDADIRVHIDRESGEHETFRRWK 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P+I +   + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDQEILLFEAREQQPNIQLDEFIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F ++   I++G+VKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDFLERGEHIMTGSVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENVDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++       FM 
Sbjct: 304 RHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQNQERGVLRDLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ R+R+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRSRDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    V+ +L S+ G+D+ +   L E+ I+T ++LA  +VD+L+  +          
Sbjct: 424 EEKVEN--VALDLKSLDGMDADLLAKLAEHQIQTRDELAELAVDELVEMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  +D  +++I+ AR    W 
Sbjct: 472 -------GMGEDAAKALIMKAREH--WF 490


>gi|209520195|ref|ZP_03268966.1| NusA antitermination factor [Burkholderia sp. H160]
 gi|209499354|gb|EDZ99438.1| NusA antitermination factor [Burkholderia sp. H160]
          Length = 491

 Score =  560 bits (1444), Expect = e-157,   Method: Composition-based stats.
 Identities = 212/508 (41%), Positives = 335/508 (65%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV + +  ++  A++ L+   +DIRV I+ E+G+   FR  +
Sbjct: 4   EVLMLVDALAREKNVDKDVVFAALEAALASASKKLFEEDADIRVHIDRESGEHETFRRWK 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P I +   + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDQEILLFEAREQQPDIQLDEYIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F ++   I++G+VKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILSDFLERGEHIMTGSVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENVDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++       FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQNQERGVLRDLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ R+R+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRSRDALLTLAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    V+ +L S+ G+D+ +   L E+ I+T ++LA  +VD+L+  +          
Sbjct: 424 EEKVEN--VALDLKSLDGMDADLLAKLAEHQIQTRDELAELAVDELVEMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  +D  +++I+ AR    W 
Sbjct: 472 -------GMGEDAAKALIMKAREH--WF 490


>gi|94676752|ref|YP_589057.1| transcription termination factor NusA [Baumannia cicadellinicola
           str. Hc (Homalodisca coagulata)]
 gi|94219902|gb|ABF14061.1| transcription termination factor NusA [Baumannia cicadellinicola
           str. Hc (Homalodisca coagulata)]
          Length = 495

 Score =  560 bits (1444), Expect = e-157,   Method: Composition-based stats.
 Identities = 191/511 (37%), Positives = 310/511 (60%), Gaps = 19/511 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    ++R+ I+ ++GD    R 
Sbjct: 2   NKEILAVVEAVSNEKSVPREKIFEALETALATATKKKYEQEIEVRINIDRKSGDFETLRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VE+V   T +I+L+ A+  +P+  +GG + D +  + F R+  Q+AKQVI+QKVR A
Sbjct: 62  WLIVEKVTQPTREITLEAAKFDNPNAQVGGYIEDIIESVTFDRITTQTAKQVIVQKVRAA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+   G+I+ G VK+V   N+ +D+GN ++ +I R++ + REN R GDR++ 
Sbjct: 122 ERAMIIEQFRKYKGQILIGLVKKVHRDNMSIDIGNNAEAIINREDMLPRENFRIGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y +R E RG Q+ +SRT P+ +V+LF +EVPEI   ++++KAV+RDPGSRAK+AV ++
Sbjct: 182 VLYSIRPEVRGTQLFVSRTCPEMLVELFRIEVPEIGEELIEIKAVARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDIV+W  +   FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDDNPVQFVINAMAPADVASIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V +  L+ AIGR GQNVRLASQL+GW +++IT  E     + + +   + F +
Sbjct: 302 TQIMDIAVEESNLAQAIGRNGQNVRLASQLSGWELNVITLSEMQEKHRAETSAAIEIFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +N++E +A +L+  G + +EELA V I E+  I+  DE    E++ +A++ +  + IT+
Sbjct: 362 TLNINEELATILIEGGISSLEELAYVPIKELLVIDKLDENIVEELRKKAKQAITQLTITM 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           Q+        ++L  +  ++  I   L   GI T+E+LA   +DDLL             
Sbjct: 422 QENNLAKKPDQDLLELSKLERHIAFKLAARGICTLENLAEQGIDDLLNIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                  G   +Q   +I+ AR K+ W   +
Sbjct: 472 -------GLSSEQAGELIMAAR-KICWFGDQ 494


>gi|237748745|ref|ZP_04579225.1| transcription elongation protein [Oxalobacter formigenes OXCC13]
 gi|229380107|gb|EEO30198.1| transcription elongation protein [Oxalobacter formigenes OXCC13]
          Length = 519

 Score =  560 bits (1443), Expect = e-157,   Method: Composition-based stats.
 Identities = 203/468 (43%), Positives = 312/468 (66%), Gaps = 5/468 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            LE+LQ+ DA+A EK++D+++VL  +  ++  A +  Y   +DIRV I+  TG++  FR 
Sbjct: 2   SLEILQLVDALAREKNVDKEIVLGALEHALALATKKRYPGDADIRVSIDRTTGEVETFRR 61

Query: 66  LEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             VV +   ++    ++    A+++ P I++   + D +  +D GR   Q  KQ+++Q++
Sbjct: 62  WHVVPDEAGLQQPDQEMLYFEAKEQFPDIEVDDYIEDHIESIDLGRRFAQDTKQIVLQRI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           R+AER++   +F D+   +++GTVKR+E G+ IV+ G  +  + R++ I +ENLR GDRV
Sbjct: 122 RDAEREQVLQDFLDRGDSLVTGTVKRMERGDAIVESGKVEARLPREQMIPKENLRVGDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++YI  V R  RGPQV+LSRT P+F+VKLF +EVPEI  G++++K+ +RDPG RAK+AVF
Sbjct: 182 RAYILRVERGARGPQVILSRTAPEFIVKLFELEVPEIEQGLLEIKSAARDPGVRAKIAVF 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           +SD  IDP+G CVGMRGSRVQAV  EL  E++DIV+WS D A FVI AL PA VT +V+D
Sbjct: 242 TSDKRIDPIGTCVGMRGSRVQAVTGELGGERVDIVLWSEDPAQFVIGALAPANVTSIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   ++VIV +E L++AIGR GQNVRLA++LTGW I+I+T EE +     +  E  + F
Sbjct: 302 EDKHAMDVIVDEENLAIAIGRSGQNVRLATELTGWKINIMTAEESADKSALEKAELQKLF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+ ++VD+ +A +L+ EGF  +EE+A V I E+  IE FDE+T  EI+ RAR+ L    I
Sbjct: 362 MERLDVDQEVADILIEEGFTALEEIAYVPIGEMLEIEAFDEDTVNEIRQRARDALITEAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
             ++ +  +     L ++ G+D ++   LG  G+KT++  A  + D+ 
Sbjct: 422 ASEEGMAGMEEE--LVNLEGMDRQVAGKLGLAGVKTLQRFAELAYDEF 467


>gi|90416134|ref|ZP_01224066.1| transcription elongation factor NusA [marine gamma proteobacterium
           HTCC2207]
 gi|90331859|gb|EAS47073.1| transcription elongation factor NusA [marine gamma proteobacterium
           HTCC2207]
          Length = 497

 Score =  559 bits (1442), Expect = e-157,   Method: Composition-based stats.
 Identities = 204/513 (39%), Positives = 325/513 (63%), Gaps = 22/513 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK +D++V+   +  ++  A +  Y   ++IRV I+ ETGD   FR 
Sbjct: 2   SKEILMVAEAVSNEKGVDQEVIFQAIEQALSTATKKRYDEGANIRVVIDRETGDYDSFRW 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
            +VV +  +     Q + + A ++DP++ +G    + +  + FGR+A Q+AKQVI+QKVR
Sbjct: 62  WDVVADDVMAELGTQFTTEEAHEKDPTLAVGDTFEETVENIAFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER+     F +++GE+++GTVK+V   ++IVD G N++G++ R+E + RE  R  DR 
Sbjct: 122 EAERELIISRFVNRIGEMLNGTVKKVTRDHIIVDFGDNAEGLLPREELVGREIFRINDRT 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  +  +R + RGPQ+L+SR   + +V+LFH+EVPEI  GI+++K  +RDPG RAK+AV 
Sbjct: 182 RVILTSIRDDTRGPQLLVSRAASEMLVQLFHIEVPEISEGIIEIKGAARDPGQRAKIAVK 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D+ IDPVGACVGMRG+RVQAV  +L DE+IDI++W  + A  VINA+ PA V  +V+D
Sbjct: 242 SKDARIDPVGACVGMRGARVQAVSNDLDDERIDIILWDDNPAQLVINAMAPAEVESIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   ++V V +E L+ AIG+ GQNVRLAS+LTGWTI+++T ++    +Q++     +  
Sbjct: 302 EDSHSMDVAVSEENLAQAIGKGGQNVRLASELTGWTINVMTMDQAQEKQQEESLNVVENL 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M A+++DE +A +LV EGF  +EE+A V + E+  IEGFDE  A E++ RA++ L  + +
Sbjct: 362 MTALDIDEDVAIVLVEEGFTSLEEVAYVPLEEMIDIEGFDEGIATELRARAKDALLTMAL 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++++     +E+L ++ G++  +   L   GI TMEDLA  +VDDL+           
Sbjct: 422 ASEEQLANAQPAEDLLTMDGMNDALANTLAGKGIITMEDLAEQAVDDLMEVD-------- 473

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                    G  ++   ++I+ AR    W   +
Sbjct: 474 ---------GMDEETAAALIMTARAP--WFVDQ 495


>gi|289825801|ref|ZP_06544969.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. E98-3139]
          Length = 472

 Score =  559 bits (1442), Expect = e-157,   Method: Composition-based stats.
 Identities = 192/482 (39%), Positives = 297/482 (61%), Gaps = 24/482 (4%)

Query: 40  RSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSD 99
           +  Y    D+RVEI+ ++GD   FR   +VEEV   T +I+L+ AR  D S+++G  V D
Sbjct: 8   KKKYEQEIDVRVEIDRKSGDFDTFRRWLIVEEVTMPTKEITLEAARFEDESLNVGDYVED 67

Query: 100 PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL- 158
            +  + F R+  Q+AKQVI+QKVREAER     +F+D+ GEI++G VK+V   N+ +++ 
Sbjct: 68  QIESVTFDRITTQTAKQVIVQKVREAERAMVVDQFRDQEGEIVTGVVKKVNRDNISLEIK 127

Query: 159 -----GNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFH 213
                GN++ VI R++ + REN RPGDR++  +Y VR E RG Q+ ++R+ P+ +++LF 
Sbjct: 128 SEGMAGNAEAVILREDMLPRENFRPGDRIRGVLYAVRPEARGAQLFVTRSKPEMLIELFR 187

Query: 214 MEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEK 273
           +EVPEI   ++++KA +RDPGSRAK+AV ++D  IDPVGACVGMRG+RVQAV TEL  E+
Sbjct: 188 IEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDKRIDPVGACVGMRGARVQAVSTELGGER 247

Query: 274 IDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQ 333
           IDIV+W  + A FVINA+ PA V  +V+DED   +++ V    L+ AIGR GQNV LASQ
Sbjct: 248 IDIVLWDDNPAQFVINAMAPADVASIVVDEDKHTMDIAVEAGNLAQAIGRNGQNVHLASQ 307

Query: 334 LTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKIS 393
           L+GW ++++T ++     Q + +   + F + +++DE  A +LV EGF+ +EELA V + 
Sbjct: 308 LSGWELNVMTVDDLQAKHQAEAHAAIEIFTKYLDIDEEFATVLVEEGFSTLEELAYVPMK 367

Query: 394 EIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGE 453
           E+  I+G DE T   ++ RA+  L  +    +  + +   +++L ++ G+D  +   L  
Sbjct: 368 ELLEIDGLDEPTVEALRERAKNALATLAQDQEASLGDNKPADDLLNLEGLDRDMAFKLAA 427

Query: 454 NGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
            G+ T+EDLA   +DDL                     G   ++   +I+ AR  + W  
Sbjct: 428 RGVCTLEDLADQGIDDLADIE-----------------GLTDEKAGELIMAAR-NICWFG 469

Query: 514 KE 515
            E
Sbjct: 470 DE 471


>gi|88812961|ref|ZP_01128204.1| transcription elongation factor NusA [Nitrococcus mobilis Nb-231]
 gi|88789739|gb|EAR20863.1| transcription elongation factor NusA [Nitrococcus mobilis Nb-231]
          Length = 500

 Score =  559 bits (1441), Expect = e-157,   Method: Composition-based stats.
 Identities = 202/513 (39%), Positives = 320/513 (62%), Gaps = 23/513 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + DA++ EK + ++V+   +  ++  A R  +    D RV +N  TG+   FR 
Sbjct: 2   SKEVLLVVDAISNEKGVSKEVIFEAVEAALASATRKRHPEDIDARVAVNRTTGEYETFRR 61

Query: 66  LEVVEEVEN---YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             VV++ E+      +I+L  AR ++P+I+ G  +  P+  ++FGR+A Q+AKQVI+QKV
Sbjct: 62  WLVVDDAESVQVPQREIALAEARAQEPTIEAGQYIEQPMESVEFGRIAAQTAKQVIVQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER +    +KD+ GE+++G VKRVE G+V +DLG N++  I R+E I RE +RPGDR
Sbjct: 122 REAERAKVITAYKDRQGELMTGIVKRVERGHVYLDLGGNAEAFIAREEMIPREAVRPGDR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ ++ ++  E RGPQ+++SRT P+F+++LF +EVPE+   ++Q+   +RD G RAK+AV
Sbjct: 182 LRGWLREICTEARGPQLVVSRTAPEFLIELFKLEVPEVGQDLLQLMGAARDAGQRAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            + D+ IDPVGACVGMRGSRVQAV  EL  E+IDI++W  + A +VINA+ PA V  +++
Sbjct: 242 RALDARIDPVGACVGMRGSRVQAVSNELAGERIDIILWDENPAQYVINAMAPAEVESIIV 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   +++ V +EQLS AIGR GQNVRLA +LTGW ++++T EE     + + +E  + 
Sbjct: 302 DEDRHSMDIAVSQEQLSQAIGRGGQNVRLAGELTGWELNVMTSEEAQAKSEAEADELIEL 361

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F+ +++VDE +A +L  EGF+ VEE+A V ++E   IE FDE+    ++ RAR+ L   +
Sbjct: 362 FVSSLDVDEEVAEILAREGFSSVEEIAYVPVAEFLEIEEFDEDIVELLRNRARDALLTRE 421

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           +   ++      + EL ++ G+D  +       G+ T+EDLA  SVD+L+          
Sbjct: 422 LAEVEQDSPAKPTPELLALEGMDEALAWQFAARGVVTVEDLADQSVDELMEIE------- 474

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                     G  + +  ++I+ AR    W   
Sbjct: 475 ----------GMDEQRAAALIMKAREP--WFAD 495


>gi|297180708|gb|ADI16917.1| transcription elongation factor [uncultured gamma proteobacterium
           HF0010_16J05]
          Length = 512

 Score =  558 bits (1440), Expect = e-157,   Method: Composition-based stats.
 Identities = 203/520 (39%), Positives = 320/520 (61%), Gaps = 28/520 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + ++V++EK + +DV+   +  ++  A +  YG  ++ RV I+ E+G+   FR 
Sbjct: 2   SKEILLVVESVSHEKGVSKDVLFGAIESALAVATKKKYGENAEFRVAIDRESGEYETFRT 61

Query: 66  LEVVE---------EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQ 116
             VV+            N   Q S+  A+   P   +G V+ + +  + FGR+A Q+AKQ
Sbjct: 62  WAVVDFGEIEAEEEAEVNPEAQYSVDQAQSFKPGAVLGDVIEEQVESVAFGRIAAQTAKQ 121

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISREN 175
           VI+QKVREAER +    +  +V E++SGTVK++   +VIVDLGN ++G++ R+  I RE 
Sbjct: 122 VIVQKVREAERAQVVEAYTSRVNELVSGTVKKLGRDSVIVDLGNNAEGILTREHLIPREI 181

Query: 176 LRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
            R GDR+++ + ++R + RGPQ++LSRT    +V+LF +EVPEI   ++Q+   +RDPGS
Sbjct: 182 FRVGDRLRAMLVEIRPDNRGPQLILSRTARSMLVELFKVEVPEISEDVIQILGAARDPGS 241

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDPVGACVGMRGSRVQAV  EL  E+IDIV+W  + A   INA+ PA 
Sbjct: 242 RAKIAVKTNDGRIDPVGACVGMRGSRVQAVSGELAGERIDIVLWDDNPAQLTINAMAPAE 301

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF 355
           V  +VLDE+   +++ V +E L+ AIGR GQNVRLAS L GW+++I+TEEE +   + + 
Sbjct: 302 VASIVLDEETHAMDIAVTEENLAQAIGRGGQNVRLASDLCGWSLNIMTEEEAAEKLEAES 361

Query: 356 NERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           ++    FM+A++VDE +A +LV EGF  +EE+A V + E+ +IEGFDEE   E++ RA++
Sbjct: 362 SKFISEFMEALSVDEDVAAVLVEEGFTTLEEIAYVPVEEVMAIEGFDEEIVNELRNRAKD 421

Query: 416 YLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSE 475
            L    I  ++ + +   +++L  + G++ ++   L  + + TMEDLA  +V +LL    
Sbjct: 422 ALLTRAIASEEALGDNKPADDLLEMEGMERELAFKLAAHEVITMEDLAELAVPELLEIDP 481

Query: 476 NKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                              +D+  ++I+ AR    W  +E
Sbjct: 482 E----------------LSEDKAAALILKAREP--WFAEE 503


>gi|21672641|ref|NP_660708.1| transcription elongation factor NusA [Buchnera aphidicola str. Sg
           (Schizaphis graminum)]
 gi|25090841|sp|Q8K9H0|NUSA_BUCAP RecName: Full=Transcription elongation protein nusA
 gi|21623276|gb|AAM67919.1| N utilization substance protein A [Buchnera aphidicola str. Sg
           (Schizaphis graminum)]
          Length = 495

 Score =  558 bits (1440), Expect = e-157,   Method: Composition-based stats.
 Identities = 187/509 (36%), Positives = 304/509 (59%), Gaps = 19/509 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV IN +TG+ S FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALEIALATATKKKYEQEIDVRVSINRKTGNFSTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+ V + T +I+L+ A      + I   V D +  ++F R+  Q+AKQVI+QKVREA
Sbjct: 62  WMVVDIVVHPTKEITLEAACFEGEQVKINDYVEDKIESVNFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+  +G+II+G VK++   N+ +DLGN ++ +I R+  + REN RPGDR++ 
Sbjct: 122 ERAMLVDQFRKHIGQIITGIVKKISRDNLTLDLGNNAEALILREGMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E RG Q+ LSR+  + +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 ILYGVYPEARGAQLFLSRSKTEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+GACVGMRG+RVQAV +EL  E+IDI++W  + A FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPIGACVGMRGARVQAVSSELCGERIDIILWDDNPAQFVINAMAPADVVSIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQ++GW ++++T E+     +++       F +
Sbjct: 302 HHTMDIAVDSSNLAQAIGRNGQNVRLASQISGWELNVMTTEDLRSKHKEEAYAAFNIFKK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +NV E +   LV EGF+ +EELA + ++E+  I    E     ++  A+  L  +++  
Sbjct: 362 NLNVSEKVIKTLVKEGFSSLEELAYIPLNELLEINNLTEREVQLVREGAKNGLLLLELDQ 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           + +I+   + + L ++ G++  + + L E  I T+E+LA   +DDL+             
Sbjct: 422 KNQIKNKKIEQALLNVNGMNELLALKLAEKNIFTVEELANQGIDDLIDIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                      +Q   +I+ AR  + W  
Sbjct: 472 -------NLNSEQAGLLIMAAR-NICWFS 492


>gi|330816693|ref|YP_004360398.1| NusA antitermination factor [Burkholderia gladioli BSR3]
 gi|327369086|gb|AEA60442.1| NusA antitermination factor [Burkholderia gladioli BSR3]
          Length = 491

 Score =  558 bits (1440), Expect = e-157,   Method: Composition-based stats.
 Identities = 210/508 (41%), Positives = 334/508 (65%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+D+VL  +  ++  A++ L+   ++IRV I+ E+G+   +R   
Sbjct: 4   EVLMLVDALAREKNVDKDIVLGALEAALASASKKLFDEGAEIRVHIDRESGEHETYRRWL 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++   I++G  + + +P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDREILLFEAREQKAEIEVGDYIEESVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   ++ ++  +I++GTVKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDYLERGEKIMTGTVKRLDKGNFIVESGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E IDIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENIDIVLWSDDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E ++ + ++ +     FM 
Sbjct: 304 KHSMDVVVDESELAVAIGRSGQNVRLASELTGWQINIMTPDESALKQGEERDRLRSLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDEET  E++ RAR+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEETVHELRNRARDALLTMAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    +  +L S+ GI  ++   L E+ + T +DLA  +VD+L+  +          
Sbjct: 424 EEKVENAAL--DLKSLDGITPELLAKLAEHSVATRDDLAELAVDELVEMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  ++  +++I+ AR    W 
Sbjct: 472 -------GVEEEAAKALIMKAREH--WF 490


>gi|91782988|ref|YP_558194.1| transcription elongation factor NusA [Burkholderia xenovorans
           LB400]
 gi|296158771|ref|ZP_06841600.1| NusA antitermination factor [Burkholderia sp. Ch1-1]
 gi|91686942|gb|ABE30142.1| NusA antitermination factor [Burkholderia xenovorans LB400]
 gi|295890976|gb|EFG70765.1| NusA antitermination factor [Burkholderia sp. Ch1-1]
          Length = 491

 Score =  558 bits (1440), Expect = e-157,   Method: Composition-based stats.
 Identities = 212/508 (41%), Positives = 335/508 (65%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV + +  ++  A++ L+   +DIRV I+ E+G+   FR  +
Sbjct: 4   EVLMLVDALAREKNVDKDVVFAALEAALASASKKLFEEDADIRVHIDRESGEHETFRRWK 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P I +   + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDQEILLFEAREQKPEIQLDEYIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F ++   I++G+VKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDFLERGEHIMTGSVKRLDKGNFIVETGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENVDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++       FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQNQERGVLRDLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ R+R+ L  + I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRSRDALLTLAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    V+ +L S+ G+D+ +   L E+ I+T ++LA  +VD+L+  +          
Sbjct: 424 EEKVEN--VALDLKSLDGMDADLLAKLAEHQIQTRDELAELAVDELVEMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  +D  +++I+ AR    W 
Sbjct: 472 -------GMEEDAAKALIMKAREH--WF 490


>gi|254482493|ref|ZP_05095732.1| NusA N-terminal domain family [marine gamma proteobacterium
           HTCC2148]
 gi|214037184|gb|EEB77852.1| NusA N-terminal domain family [marine gamma proteobacterium
           HTCC2148]
          Length = 497

 Score =  558 bits (1440), Expect = e-157,   Method: Composition-based stats.
 Identities = 203/513 (39%), Positives = 321/513 (62%), Gaps = 22/513 (4%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
            E+L +A+AV+ EK +   ++   +  ++  A +  Y   SDI V I+  TGD    R  
Sbjct: 3   KEILLVAEAVSNEKGVAESIIFEAIELALATATKKRYDEESDIEVTIDRSTGDYVTKRRW 62

Query: 67  EVVEEVEN--YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
            VV + E      Q + + A ++D S+  G +  + +  + FGR+A Q+AKQVI+Q+VR+
Sbjct: 63  LVVPDDELALLGTQFTTEEAAEQDTSLQPGDIYEEVIDNVGFGRIAAQTAKQVIVQRVRD 122

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVK 183
           AER++   ++  +VGE+++GTVK+V   NVIVDLGN ++G++ R E + RE  R  DRV+
Sbjct: 123 AEREQVVEQYMGRVGELVAGTVKKVTRDNVIVDLGNNAEGLLPRSELVGRETFRVNDRVR 182

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           + + ++  E RGPQ++LSR  P+ +++LF +EVPEI   ++Q++A +RDPGSRAK+AV +
Sbjct: 183 AILKEISTEARGPQLILSRACPEMLIELFKIEVPEISEEVIQIRAAARDPGSRAKIAVKT 242

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  IDPVGACVGMRGSRVQAV  EL +E++DIV+W  + A  VINA+ PA V  +V+DE
Sbjct: 243 NDQRIDPVGACVGMRGSRVQAVSNELDNERVDIVLWDDNPAQLVINAMAPAEVESIVVDE 302

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D G ++V V +E L+ AIGR GQNVRLA++LT WTI++++ EE +   + +  E    F 
Sbjct: 303 DSGTMDVAVSEENLAQAIGRSGQNVRLAAELTEWTINVMSLEEAADKHEAEAGEVIGVFC 362

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
           +A++VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+ A E++ RA++ L    I 
Sbjct: 363 KALDVDEDVAEILVEEGFTTLEEVAYVPLEEMTAIDGFDEDIAEELRARAKDALLTQAIA 422

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            ++++     +E+L ++ G+D  +   L    I TMEDLA  +V+DL+            
Sbjct: 423 SEEQLGANEPAEDLLTMEGMDRHLAYILSSREIVTMEDLAEQAVEDLMDIE--------- 473

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                      +++   +I+ AR    W  + +
Sbjct: 474 --------DMTEERAGELIMTARAP--WFAEAE 496


>gi|33152524|ref|NP_873877.1| transcription elongation factor NusA [Haemophilus ducreyi 35000HP]
 gi|33148747|gb|AAP96266.1| transcription termination-antitermination factor nusA, N
           utilization substance protein A [Haemophilus ducreyi
           35000HP]
          Length = 493

 Score =  558 bits (1439), Expect = e-157,   Method: Composition-based stats.
 Identities = 194/510 (38%), Positives = 318/510 (62%), Gaps = 20/510 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + ++ +   +  ++  + +   G   DIRV IN +TG+   FR 
Sbjct: 2   SKEILLAAEAVSNEKLLPKEAIFEALETALAISTKKKKGIDIDIRVVINRKTGEFQTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VE+V N T +ISL  A+  DP++ +G  V D +  + F R+ +Q+A+QVI  K+REA
Sbjct: 62  WLIVEQVHNMTREISLAAAQYEDPNVQLGDFVEDEIESIPFDRITMQTARQVISTKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER++   +F+ ++  I++ TVK+V    +I+DLGN ++ VI R++ + REN RPGDR++ 
Sbjct: 122 ERNKVIEQFRTQLNCIVTATVKKVNREQIILDLGNQAEAVIIREDMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y ++ E +GPQ+ ++R  P  +  LF +EVPEI   ++++K  SRD GSR+K+AV S+
Sbjct: 182 VLYAIKPESKGPQLFVTRAKPVMLEVLFKLEVPEIGEEVIEIKGASRDAGSRSKIAVKSN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAISNELGGERVDIVLWDDNPAQFVINAMSPAEVSHIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  + L+ AIGR GQNVRLA+QLTGW+++++T E+ +   Q + N+    F+ 
Sbjct: 302 KHAMDIAVETKNLAQAIGRNGQNVRLATQLTGWSLNVMTTEDLNEKHQAEDNKIIDLFVT 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEE-TAVEIQGRAREYLEGIDIT 423
           ++ +DE  AHLLV EGF+ +EE+A + ++E+  I+G D+E  A E+Q RA+  +    + 
Sbjct: 362 SLQIDEEFAHLLVDEGFSSLEEIAFIAVNELVDIDGIDDENLAEELQTRAKAAITEKALA 421

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            ++ ++   + + L ++ G++  I   L E GI T+E+LA   +DDL    E        
Sbjct: 422 EEEALKRADIEDRLLNLDGLERHIAFKLAEKGIVTLEELAEQGIDDLADIQE-------- 473

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                       ++   +I++AR ++ W  
Sbjct: 474 ---------LSAEKAGELIMNAR-QICWFS 493


>gi|78485466|ref|YP_391391.1| NusA antitermination factor [Thiomicrospira crunogena XCL-2]
 gi|78363752|gb|ABB41717.1| NusA antitermination factor [Thiomicrospira crunogena XCL-2]
          Length = 495

 Score =  558 bits (1438), Expect = e-156,   Method: Composition-based stats.
 Identities = 200/513 (38%), Positives = 309/513 (60%), Gaps = 24/513 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + + ++ EK ++++++   +  ++  A R  +    D RV I+  TGD   FR 
Sbjct: 2   SKEVLAVVEIMSNEKGVEKEIIFEAIEAALATATRKSHNDEIDARVSIDRHTGDYETFRR 61

Query: 66  LEVVEE-VENYTC---QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            EV+E+ VE        I    A D +P I+ G  + +P+  ++FGR+  Q+AKQVIIQK
Sbjct: 62  WEVIEDDVEIEDHVGWYIRHMDAVDIEPHIEPGEFIEEPMESIEFGRIGAQTAKQVIIQK 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGD 180
           VREAER +   E+  ++GEI++G VKR++ G+VI+DLG N D VI R E I+REN + GD
Sbjct: 122 VREAERKKVVEEYSKRIGEILTGQVKRIDRGDVILDLGDNVDAVIPRSELINRENFKMGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV++Y+ DV    RGPQ+ +SR   + +++LF +EVPEI + ++ + + +RD G RAK+A
Sbjct: 182 RVRAYVQDVSFRPRGPQIFMSRACKEMLMELFKIEVPEIGDDLIDIMSAARDVGLRAKVA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V ++D  +DP+GACVGMRG RVQAV  EL  E+IDI++W  + A FVINA+ PA VT ++
Sbjct: 242 VRANDPRLDPIGACVGMRGGRVQAVTNELNGERIDIILWDSNDAQFVINAMAPAEVTSIM 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V  EQLS AIG+ GQN+RLA++LTGW +++++E + +   + +   +  
Sbjct: 302 VDEDKHTMDLAVDDEQLSQAIGKNGQNIRLATELTGWELNVMSETDMAAKHETESKGQMD 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F+  + VDE +A +LVAEGF  +EE+A V  +E+  IEGFDEE    ++ RA++ L   
Sbjct: 362 LFVNGLEVDEELAEVLVAEGFTTLEEVAYVPAAEMLEIEGFDEEIVAALKERAKDALLTQ 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            I  ++K      +++L  + G+  ++   L   GI T EDLA    D+LL   E     
Sbjct: 422 AIANEEKTAMAEPAQDLLDLEGMTEEMAKTLASKGIITQEDLAELGTDELLEIVEMDA-- 479

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                          D    +I+ AR    W E
Sbjct: 480 ---------------DAASELILKARAP--WFE 495


>gi|152978792|ref|YP_001344421.1| transcription elongation factor NusA [Actinobacillus succinogenes
           130Z]
 gi|150840515|gb|ABR74486.1| NusA antitermination factor [Actinobacillus succinogenes 130Z]
          Length = 511

 Score =  558 bits (1438), Expect = e-156,   Method: Composition-based stats.
 Identities = 202/528 (38%), Positives = 317/528 (60%), Gaps = 37/528 (7%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-----------GTMSDIRVEIN 54
             E+L  A+AV+ EK++ ++V+   +  +I  + +  +            +  D+RV I+
Sbjct: 2   SKEILLAAEAVSNEKALPKEVIFEALEAAIALSTKKKHAQKQERLGVDKPSEIDVRVAID 61

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSA 114
           P+TG+   FR   VVEEV N T +I+L+ AR  DP+I +G VV D +  + F R+ +Q+A
Sbjct: 62  PKTGEFDTFRRWTVVEEVVNPTREITLEAARLDDPAIQLGDVVEDQIESVAFDRITMQTA 121

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-------GNSDGVIRR 167
           +QVI  K+R+AER +   +F  + G+I+ GTVK+V   +++++L         ++ VI R
Sbjct: 122 RQVISTKIRDAERSKVVEQFLSEEGKIVIGTVKKVNRESIVLELLGNKEDPAKAEAVIAR 181

Query: 168 DETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVK 227
           ++ I REN RPGDRV+  +Y V  E +G Q+ ++R+ P  + +LF +EVPEI   I+++K
Sbjct: 182 EDMIPRENFRPGDRVRGVLYKVSPESKGAQLFVTRSKPIMLEELFRLEVPEIGEQIIEIK 241

Query: 228 AVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFV 287
             +RD GSRAK+AV SSD  IDPVGACVGMRGSRVQ++  EL  E++DIV+W  + A +V
Sbjct: 242 GSARDAGSRAKIAVKSSDKRIDPVGACVGMRGSRVQSITNELGGERVDIVLWDENPAQYV 301

Query: 288 INALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
           INA+ PA V+ +V+DED   +++ V    L+ AIGR GQNVRLA+QLTGWT++++T EE 
Sbjct: 302 INAMAPADVSSIVVDEDNHSMDIAVEASNLAQAIGRNGQNVRLATQLTGWTLNVMTTEEL 361

Query: 348 SINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETA 406
           +   Q + N+    FM A+ +DE  A +LV EGF  +EELA V +SE+ +I+G  DE+  
Sbjct: 362 AQKHQAEDNKILNLFMTALEIDEDFAQILVDEGFTKLEELAYVSVSELTAIDGLEDEDLV 421

Query: 407 VEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
            E+Q RA++ +    +  +K +    + + L ++ G++  +   L E  I T+E+LA   
Sbjct: 422 EELQTRAKDAITAAALAEEKALENAQIEDRLLNLEGMERHLAFKLAEKQITTLEELAEQG 481

Query: 467 VDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
           VDDL    E                    ++   +I+ AR  + W  +
Sbjct: 482 VDDLADIEE-----------------LSAEKAADLIMAAR-NICWFGE 511


>gi|221134838|ref|ZP_03561141.1| transcription elongation factor NusA [Glaciecola sp. HTCC2999]
          Length = 494

 Score =  557 bits (1436), Expect = e-156,   Method: Composition-based stats.
 Identities = 206/514 (40%), Positives = 316/514 (61%), Gaps = 25/514 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK + ++ +   +  ++  A +       ++RV I+  TGD   FR 
Sbjct: 2   SKEILLVAEAVSNEKQVPKEKIFEALEFALSTATKKKNEGEIEVRVAIDRATGDFDTFRQ 61

Query: 66  LEVVEEV---ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             V+ +    EN   ++++  A+  +P I IG  V + +  + F R+  Q+AKQVI QKV
Sbjct: 62  WLVIPDDQVQENPYAEMTISAAQIDEPEIQIGDFVEEQIESIKFDRITTQTAKQVIFQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDR 181
           REAER +   E++D+VGE+++GTVK+V   NVI+DLGN ++GVI RD+ + REN RPGDR
Sbjct: 122 REAERAQMIAEYEDRVGELVTGTVKKVNRDNVIIDLGNNAEGVIYRDDMLPRENFRPGDR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+  +Y +R E RG Q+ +SRTHP  +V+LF +EVPEI    +++K+ +RDPGSRAK+AV
Sbjct: 182 VRGLLYVIRPEARGAQLFISRTHPDMIVELFRLEVPEIAEETLEIKSAARDPGSRAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  +DPVGACVGMRGSRVQAV +EL  E++DIV+W  ++  FVINA+ PA V  +V 
Sbjct: 242 KTNDKRLDPVGACVGMRGSRVQAVSSELGGERVDIVLWDEEAPQFVINAMAPAEVASIVA 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   ++V V  + L+ AIG+ GQNVRLASQLTGW ++++T E+    +Q +  +    
Sbjct: 302 DEDTMTMDVAVEPDNLAQAIGKSGQNVRLASQLTGWELNVMTIEDLEKKQQDESAQIIDV 361

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F+  +++DE  A +L +EGF  +EE+A V +SE+  IEG DE+   E++ RAR YL    
Sbjct: 362 FVTGLDIDEEFAGVLASEGFTSLEEIAYVPVSELLEIEGLDEDIIEELRNRARAYLTTKA 421

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           +  ++    L   EEL ++ G+ ++I VAL + G+  +E+LA    D++           
Sbjct: 422 LADEE---SLEPKEELLNLAGMTNEIAVALAKQGVTDLEELAEQGTDEICDIE------- 471

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                     G  +      I+ AR  + W  +E
Sbjct: 472 ----------GLDEKSAGDFIMAAR-NIKWFNEE 494


>gi|187923623|ref|YP_001895265.1| transcription elongation factor NusA [Burkholderia phytofirmans
           PsJN]
 gi|187714817|gb|ACD16041.1| NusA antitermination factor [Burkholderia phytofirmans PsJN]
          Length = 491

 Score =  556 bits (1435), Expect = e-156,   Method: Composition-based stats.
 Identities = 212/508 (41%), Positives = 335/508 (65%), Gaps = 24/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+DVV + +  ++  A++ L+   +DIRV+I+ E+G+   FR  +
Sbjct: 4   EVLMLVDALAREKNVDKDVVFAALEAALASASKKLFEEDADIRVQIDRESGEHETFRRWK 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I L  AR++ P I +   + +P+P ++FGR+  Q+AKQVI+QKVR+
Sbjct: 64  VVPDEAGLQEPDQEILLFEAREQKPEIQLDEFIEEPVPSIEFGRIGAQAAKQVILQKVRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F ++   I++G+VKR++ GN IV+ G  + ++RRD+ I +ENLR GDRV++
Sbjct: 124 AEREQILNDFLERGEHIMTGSVKRLDKGNFIVETGRVEALLRRDQLIPKENLRVGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQ+ LSRT P+F++KLF MEVPEI  G++++KA +RDPG RAK+ V + 
Sbjct: 184 YIAKVDRTARGPQIELSRTAPEFLMKLFEMEVPEIEQGLLEIKAAARDPGVRAKIGVVAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVG+RGSRVQAV  EL  E +DIV+WS D A FVI AL PA V  +V+DE+
Sbjct: 244 DKRIDPIGTCVGIRGSRVQAVRNELGGENVDIVLWSEDPAQFVIGALAPAAVQSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V + +L++AIGR GQNVRLAS+LTGW I+I+T +E +  + ++       FM 
Sbjct: 304 KHSMDVVVDENELAVAIGRSGQNVRLASELTGWQINIMTPDESAQKQNQERGVLRDLFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VDE +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ R+R+ L    I  
Sbjct: 364 RLDVDEEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVHELRNRSRDALLTQAIAN 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K+    V+ +L S+ G+D+ +   L E+ I+T ++LA  +VD+L+  +          
Sbjct: 424 EEKVEN--VALDLKSLDGMDADLLAKLAEHQIQTRDELAELAVDELVEMT---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  G  +D  +++I+ AR    W 
Sbjct: 472 -------GMEEDAAKALIMKAREH--WF 490


>gi|91774422|ref|YP_544178.1| transcription elongation factor NusA [Methylobacillus flagellatus
           KT]
 gi|91708409|gb|ABE48337.1| NusA antitermination factor [Methylobacillus flagellatus KT]
          Length = 488

 Score =  556 bits (1434), Expect = e-156,   Method: Composition-based stats.
 Identities = 208/507 (41%), Positives = 325/507 (64%), Gaps = 25/507 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A+EK++ + V+ + +  ++  A +  +   +D+RVEI+ ++G+   FR  +
Sbjct: 4   EILLLVDALAHEKNVAKTVIFTALELALASATKKRFTEDADVRVEIDRDSGEYRSFRRWQ 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VVE   +EN   QI++  AR       +G  + +PL  ++FGR+  Q+AKQVI+QKVREA
Sbjct: 64  VVEADALENPAAQIAVDDARA--EGFAVGDYIEEPLESVEFGRIGAQAAKQVILQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F  +   +++G +KR+E GN I+++G  + V+ R++ I +ENLR GDRV++Y
Sbjct: 122 EREQILDDFLARKEHLVTGVIKRMEKGNAIIEVGRLESVLPREQMIPKENLRVGDRVRAY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  + R  RGPQ++LSR  P+F++KLF +EVPEI  G++++K+ +RDPG R+K+AV S+D
Sbjct: 182 LSRIERSGRGPQLILSRVAPEFLIKLFELEVPEIEEGLLEIKSAARDPGLRSKIAVKSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVG CVGMRGSRVQAV  EL  E++DIV+WS D A FVINA+ PA V+ +V+DED 
Sbjct: 242 QRLDPVGTCVGMRGSRVQAVTGELAGERVDIVLWSMDPAQFVINAMAPAEVSGIVVDEDA 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++VIV +EQL+ AIGR GQNVRLAS+LTGWT++I+TEEE +   +++ +   Q F++ 
Sbjct: 302 HSMDVIVDEEQLAQAIGRNGQNVRLASELTGWTLNILTEEEAAKKSEEEHSSILQLFVEK 361

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE +A +LV EGF+ +EE+A V ++E++ IE FDE+T  E++ RAR  L    I  +
Sbjct: 362 LDVDEEVADILVQEGFSTLEEIAYVPLAEMSEIEAFDEDTINELRKRARAALLTEAIAKE 421

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFD 485
           +K  E   SE+L  + G+D      L   G+ TM                         D
Sbjct: 422 EKAGEA--SEDLLHMEGMDEATARTLAGKGVATM-----------------DDLADLAVD 462

Query: 486 GFLSSLGTPKDQVESMIIHARYKMGWI 512
             +   G   ++ + +I+ AR    W 
Sbjct: 463 DLVELTGMDVERAKQLIMTARAP--WF 487


>gi|329915249|ref|ZP_08276237.1| Transcription termination protein NusA [Oxalobacteraceae bacterium
           IMCC9480]
 gi|327544954|gb|EGF30295.1| Transcription termination protein NusA [Oxalobacteraceae bacterium
           IMCC9480]
          Length = 519

 Score =  556 bits (1434), Expect = e-156,   Method: Composition-based stats.
 Identities = 197/466 (42%), Positives = 304/466 (65%), Gaps = 5/466 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D+D+V   +  ++ +A +  Y    DIRV I+ +TG    FR   
Sbjct: 4   EVLLLVDALAREKNVDKDIVFGALEHALSQATKKRYEGDVDIRVTIDRDTGLFESFRRWH 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +I    A ++   I++   + +P+  +DFGR   Q  KQV++Q++R+
Sbjct: 64  VVPDEAGLQLPDQEILHFEALEQISDIEVDDHIEEPIESVDFGRRFAQDTKQVVLQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F ++   +++GT+KR+E G+ IV+ G  +  + RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILQDFLERGDSMVTGTIKRMERGDAIVESGKIEARLPRDQMIPKENLRIGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           +I  V R  RGPQV+LSRT P+F++KLF +EVPEI  G++ +K+ +RD G RAK+AVF+S
Sbjct: 184 FILRVDRNARGPQVILSRTSPEFIMKLFELEVPEIEQGLLIIKSAARDAGVRAKIAVFTS 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVGMRGSRVQAV  EL  E++DIV+WS D A FVI AL PA V+ +V+DE+
Sbjct: 244 DKRIDPIGTCVGMRGSRVQAVTGELGGERVDIVLWSEDPAQFVIGALAPANVSSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLA++LT W I+I+T EE +     +       FM 
Sbjct: 304 KHAMDVVVDEENLAIAIGRGGQNVRLAAELTNWQINIMTAEESASKSANETAAIRALFMA 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VD+ +A +LV EGFA +EE+A V ISE+  IE FDE+T  E++ RAR+ L    I  
Sbjct: 364 KLDVDQEVADILVDEGFASLEEIAYVPISEMLEIESFDEDTVNELRTRARDALVTEAIAS 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           ++ +   G+ + L ++ G+D      LG  G+KT+   +G + D+ 
Sbjct: 424 EEGLE--GMDDALATMEGMDRVTAGKLGLAGVKTLAAFSGLAYDEF 467


>gi|114331633|ref|YP_747855.1| transcription elongation factor NusA [Nitrosomonas eutropha C91]
 gi|114308647|gb|ABI59890.1| NusA antitermination factor [Nitrosomonas eutropha C91]
          Length = 490

 Score =  556 bits (1433), Expect = e-156,   Method: Composition-based stats.
 Identities = 208/508 (40%), Positives = 320/508 (62%), Gaps = 23/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + +A+A+EK++D+++V + +  ++  AA+       D+RV I+ +TG+   FR   
Sbjct: 4   EILLLVNALAHEKNVDKNIVFTALEMALASAAKKHARDDIDVRVSIDRDTGEFQCFRRWL 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           +V +  VE+   QI+L  A  ++P    G    + +  + F R+  Q+AKQVI QK+R+A
Sbjct: 64  IVADDVVEHPERQIALVEAVKQNPQSVPGEYTEELMEDVTFDRIGAQAAKQVIFQKIRDA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F ++   ++SG +KR++ GN I++ G  + V+ RD+ IS ENLR GDRV++Y
Sbjct: 124 EREQNLNDFLERGEYLVSGVIKRMDRGNAIIEFGKIEAVLPRDQMISHENLRMGDRVRAY 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  + R  RGPQ++LSRT   F+VKLF +EVPEI  GI++++A +RDPGSRAK+AV S+D
Sbjct: 184 LLKIDRAVRGPQLVLSRTSADFLVKLFELEVPEIEEGILEIRAAARDPGSRAKIAVKSND 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           + +DP+G CVGMRGSRVQAV  EL  E++DI+ WS D ATFV+NAL PA+++ +V+DED 
Sbjct: 244 ARVDPIGTCVGMRGSRVQAVTGELAGERVDIIQWSDDQATFVVNALAPAVISSIVMDEDK 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++V+V +E L+ AIGR GQNVRLAS+LTGW ++I+T EE     +++     + FM+ 
Sbjct: 304 HSMDVVVDEENLAQAIGRGGQNVRLASELTGWQLNIMTVEESHEKSEEEAASICELFMEK 363

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE +  +LV EGF+ +EE+A + I E+  I+ FD ET  E++ RAR  L    I  +
Sbjct: 364 LDVDEEVGRILVDEGFSTLEEIAYIPIEEMLEIQEFDHETIEELRNRARNVLLTAAIVTE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFD 485
           +KI     SE L ++ G+D  +   L   GI T E+LA  + DDL+  +           
Sbjct: 424 EKIGHA--SEALLALEGMDIDLVRELAAKGISTQEELADLAADDLVELT----------- 470

Query: 486 GFLSSLGTPKDQVESMIIHARYKMGWIE 513
                 G   D+   +II AR    W  
Sbjct: 471 ------GVDLDRASKIIIKAREP--WFT 490


>gi|118594129|ref|ZP_01551476.1| NusA antitermination factor [Methylophilales bacterium HTCC2181]
 gi|118439907|gb|EAV46534.1| NusA antitermination factor [Methylophilales bacterium HTCC2181]
          Length = 488

 Score =  555 bits (1432), Expect = e-156,   Method: Composition-based stats.
 Identities = 202/505 (40%), Positives = 328/505 (64%), Gaps = 21/505 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A+EK++ RD++ + +  ++  A +  +    DIRVEI+ E+G+   FR   
Sbjct: 4   EILLLVDALAHEKNVARDIIFTALELALASATKKKFEADVDIRVEIDKESGEYESFRCWT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VE+      +  L    DR   +++G V+ + +  ++FGR+  Q+AKQVI+QKVREAER
Sbjct: 64  IVEDELLEIPEAELSPTDDRAKDLEVGDVIKEAIDSVEFGRIGAQAAKQVILQKVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           ++   +F  +  +++SG ++R+E GN I+++G  D V+ RD  I +ENLR GDRV++ + 
Sbjct: 124 EQILNDFLARDEKLVSGQIRRMERGNAIIEVGRLDAVLPRDHMIPKENLRVGDRVRAILS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            +    RGPQ++LSRT P+F+++LF +EVPEI  G++++ + SRDPG R+K+AV ++D  
Sbjct: 184 KIETGMRGPQLILSRTAPEFLIRLFELEVPEIEEGLLEIMSASRDPGLRSKIAVKANDQR 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG CVGMRGSRVQAV  EL  E++DIV+WS + A FVINA+ PA V+ +V+DED   
Sbjct: 244 LDPVGTCVGMRGSRVQAVTGELAGERVDIVLWSIEPAQFVINAMAPAEVSSIVVDEDKHS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           ++++V ++QL+ AIGR GQN+RLAS+LTGW ++I+TEEE     ++++   +Q F++ ++
Sbjct: 304 MDLVVVEDQLAQAIGRNGQNIRLASELTGWELNILTEEESDQKNKEEYTSASQLFIEKLD 363

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           VDE +A +LV EGF+ +EE+A V + E+  IE FDE+T  E++ RA   +    I  ++ 
Sbjct: 364 VDEDVADILVQEGFSSIEEVAYVPLEEMVQIEAFDEDTVNELRSRASAAILTAAIAKEES 423

Query: 428 IRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGF 487
           + +   +E+L S+ G+D  +   +   GI TMEDLA  SVD+L                 
Sbjct: 424 VVD--PAEDLKSMDGMDIDMAKLMASKGIVTMEDLAELSVDEL----------------- 464

Query: 488 LSSLGTPKDQVESMIIHARYKMGWI 512
           L  +   +++ +++I+ AR    W 
Sbjct: 465 LELVKIDEEKAKTLIMTARAP--WF 487


>gi|325981567|ref|YP_004293969.1| NusA antitermination factor [Nitrosomonas sp. AL212]
 gi|325531086|gb|ADZ25807.1| NusA antitermination factor [Nitrosomonas sp. AL212]
          Length = 490

 Score =  555 bits (1430), Expect = e-156,   Method: Composition-based stats.
 Identities = 213/508 (41%), Positives = 321/508 (63%), Gaps = 23/508 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EKS+++++V + +  ++  A +  +    + R+ I+ ETGD   FR   
Sbjct: 4   EILLLVDALAREKSVEKEIVFTALELALSSATKKRFQEDIETRISIDRETGDHQSFRRWL 63

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV +  VE+   Q++L  A   D +I +G  +  PL P++FGR+  Q+AKQVI QK+REA
Sbjct: 64  VVNDDSVEDSARQVALSDAIKIDANIQVGDHLEKPLEPIEFGRIGAQAAKQVIFQKIREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F ++   +I+GT+KR+E GN I++ G  +  ++RD+ I +ENLR GDRV++Y
Sbjct: 124 EREQTLNDFLEREDYLINGTIKRMERGNAIIESGKIEAELQRDQMIPKENLRVGDRVRAY 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V R  RGPQ+ LSR  P+F++KLF +EVPEI  G++++KA +RDPGSRAK+AV S+D
Sbjct: 184 LYKVDRAARGPQLKLSRISPEFLMKLFELEVPEIEEGLLEIKAAARDPGSRAKIAVKSND 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDP+G CVGMRGSRVQAV++EL  E++DIV+WS D ATF+INAL PA ++ +++DE+ 
Sbjct: 244 QRIDPIGTCVGMRGSRVQAVISELAGERVDIVLWSDDPATFIINALAPAEISSIMVDEEK 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++++V  + L+ AIGR GQNVRLAS+LTGW ++I+T EE     +++ ++  Q FMQ 
Sbjct: 304 HSMDIVVDDDNLAQAIGRGGQNVRLASELTGWELNIMTIEESKTKHEQETSQICQLFMQK 363

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VDE IA +L+ EGF  +EE+A + ++E+  IE  DEET  EI+ RAR  L    I  +
Sbjct: 364 LDVDEEIAEILMQEGFVSLEEVAYIPLNEMLEIESLDEETVNEIRNRARNVLLTDAIANE 423

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFD 485
           +K+    V+E+L SI G+D  I   L   GI T                          D
Sbjct: 424 EKVE--HVAEDLLSIEGMDINIIRELAAKGIIT-----------------QSDLADLAAD 464

Query: 486 GFLSSLGTPKDQVESMIIHARYKMGWIE 513
             +   G   +    +II AR    W  
Sbjct: 465 DLVEMTGIDIELANQLIIKARAP--WFT 490


>gi|34496916|ref|NP_901131.1| transcription elongation factor NusA [Chromobacterium violaceum
           ATCC 12472]
 gi|34102772|gb|AAQ59136.1| N utilization substance transcription regulator protein
           [Chromobacterium violaceum ATCC 12472]
          Length = 492

 Score =  554 bits (1429), Expect = e-155,   Method: Composition-based stats.
 Identities = 212/510 (41%), Positives = 325/510 (63%), Gaps = 24/510 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFRLL 66
           E+L + DA+A EK++ +DVV S +  ++  A +  +     D+RVEI+  TG    FR  
Sbjct: 4   EILLLVDALASEKNVSKDVVFSALEMALASATKKKFTDDEMDVRVEIDRHTGQYQTFRRW 63

Query: 67  EVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
            VVE+  +E+ + +I L  ARDRDP I++G  + +P+  ++FGR+  Q+AKQVI+Q++R+
Sbjct: 64  LVVEDELLESESKEIGLIDARDRDPRIELGAFIEEPMEAVEFGRIGAQTAKQVILQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   EF  +   ++ GT+KR+E GN IV+ G  + V+ RD+ I +ENLR GDRVK+
Sbjct: 124 AEREQLLNEFLQRREHLVIGTIKRIERGNAIVECGKLEAVLPRDQMIPKENLRVGDRVKA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+  + R+ RGPQ++LSRT P+F+VKLF +EVPEI  G+++++A  RDPG RAK+AV ++
Sbjct: 184 YLLRIDRQGRGPQLILSRTAPEFLVKLFELEVPEIEEGMLEIRAAVRDPGMRAKIAVKAN 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D+ IDP G C+GMRGSRVQAV  EL  E++DIV+W+P+ A FVINAL PA V+++++DED
Sbjct: 244 DARIDPQGTCIGMRGSRVQAVTQELAGERVDIVLWAPEPAQFVINALSPAEVSRIMVDED 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++VIV +EQL+LAIGR GQNV+LA++LTGW ++I+T  E     Q +     Q F+ 
Sbjct: 304 NHSMDVIVEEEQLALAIGRSGQNVKLAAELTGWYLNIMTVAEAEEKHQAEDAALRQLFVS 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
           A++VDE  A  LV EGFA +EE+A V + E+  IEGF+EE   E++ RAR+ L    I  
Sbjct: 364 ALSVDEDTAAKLVEEGFAALEEVAYVPLEEMLEIEGFNEELVGELRSRARDALLTQAIAS 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++++    V+++L  + G+D+++   L   G+ T                          
Sbjct: 424 EEQVEN--VADDLKDVEGLDAELVRKLAAGGVTTR-----------------DDLADLAV 464

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
           D  +   G   +   ++I+ AR    W  +
Sbjct: 465 DDLVDMTGMEAEAARAIIMKAREH--WFNQ 492


>gi|307546728|ref|YP_003899207.1| transcription elongation factor NusA [Halomonas elongata DSM 2581]
 gi|307218752|emb|CBV44022.1| transcription elongation factor NusA [Halomonas elongata DSM 2581]
          Length = 497

 Score =  554 bits (1428), Expect = e-155,   Method: Composition-based stats.
 Identities = 206/515 (40%), Positives = 316/515 (61%), Gaps = 23/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFR 64
             E+L + DA++ EK + R+V+   +  ++  A+R  +    + +RV I+  TGD   FR
Sbjct: 2   SKEILAVVDAISNEKGVPREVIFEAVEAALASASRKRFEDEEASVRVHIDRNTGDYETFR 61

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             EVVE+   +    QI L  A  RDP + +G VV + +    FGR+A Q+AKQVI+QKV
Sbjct: 62  RWEVVEDDDFDGPDAQIKLSFAERRDPPLGLGDVVEERIENAVFGRIAAQTAKQVIVQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER      + ++ GE+++G VK+     +I+DLG N++  + R E I  E  R  +R
Sbjct: 122 REAERAEVVSLYAEREGELVAGIVKKTTRDGLIIDLGDNAEAFLPRSEMIPGERYRMNER 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ +  V  E RG Q++LSRT P+ +++LF +EVPEI   ++++K  +RDPGSRAK+AV
Sbjct: 182 VRALLTKVDPEARGAQLILSRTCPELIIELFKIEVPEIAEQLIEIKGAARDPGSRAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGACVGMRGSRVQAV TEL++E++DIV+W  + A  VINA+ PA V  +++
Sbjct: 242 KTNDRRIDPVGACVGMRGSRVQAVSTELQNERVDIVLWDDNPAQLVINAMAPADVASILV 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   ++V V ++ L+ AIGR GQNVRLAS+LTGW ++++TE E    R ++ +   + 
Sbjct: 302 DEDAHAMDVAVGEDNLAQAIGRSGQNVRLASELTGWRLNVMTEAEAETKRDQEIDSLVEH 361

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F+Q ++VD+ +A LLV EGF  +EE+A V + E+  IE  DEE   E++ RA++ L  + 
Sbjct: 362 FIQHLDVDDDVARLLVEEGFTSLEEVAYVPVEEMLEIEELDEELIEELRARAKDELLNLA 421

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           I  ++++     +++L ++ G++  +   L   GI TMEDLA  SVDDL    E      
Sbjct: 422 IASEEELDGAQPADDLLAMDGMERHLAFILASRGIVTMEDLAEQSVDDLTDIEE------ 475

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                         ++  S+I+ AR    W E E+
Sbjct: 476 -----------LDDERAASLIMTARAP--WFESEQ 497


>gi|300312899|ref|YP_003776991.1| transcription elongation factor protein [Herbaspirillum seropedicae
           SmR1]
 gi|300075684|gb|ADJ65083.1| transcription elongation factor protein [Herbaspirillum seropedicae
           SmR1]
          Length = 519

 Score =  553 bits (1426), Expect = e-155,   Method: Composition-based stats.
 Identities = 196/466 (42%), Positives = 306/466 (65%), Gaps = 5/466 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + DA+A EK++D++VV   +  ++ +A +  Y    DIRV I+ E+G+   FR   
Sbjct: 4   EILLLVDALAREKNVDKEVVFGALEHALAQATKKRYEGEVDIRVSIDRESGEFESFRRWH 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    ++ L  A+++ P I++   + DP+  ++FGR   Q  KQV++Q++R+
Sbjct: 64  VVPDEAGLQLPDQEVLLFEAKEQFPDIEVDEYIEDPIESVEFGRRFAQDTKQVVLQRIRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER++   +F  +   +++GT+KR+E G+ I++ G  +  + RD+ I +ENLR GDRV++
Sbjct: 124 AEREQILADFLARGDALVTGTIKRMERGDAIIESGKIEARLPRDQMIPKENLRIGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  V R  RGPQV+LSRT P+F++KLF +EVPEI  G +++K+ +RDPG RAK+AV+++
Sbjct: 184 YILRVDRSARGPQVILSRTAPEFIMKLFELEVPEIEQGSLEIKSAARDPGVRAKIAVYTA 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVGMRGSRVQAV  EL  E++DIV+WS D A FVI AL PA VT +V+DE+
Sbjct: 244 DKRIDPIGTCVGMRGSRVQAVTGELGGERVDIVLWSEDPAQFVIGALAPANVTSIVVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V +E L++AIGR GQNVRLA++LT W I+I+T EE +     +       FM+
Sbjct: 304 KHAMDVVVDEENLAIAIGRGGQNVRLAAELTRWQINIMTAEESADKSAAETALIRTLFME 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            ++VD+ +A +LV EGF+ +EE+A V I+E+  IE FDEET  E++ RAR+ L    I  
Sbjct: 364 KLDVDQEVADILVEEGFSTLEEIAYVPINEMLEIESFDEETVNELRNRARDALVTEAIAS 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
           ++ +  +       +  G+D  +   LG  G+KT+   AG + D+ 
Sbjct: 424 EEGLEGMEEEL--INFEGLDRVLAGKLGLAGVKTLPAFAGLAYDEF 467


>gi|219682291|ref|YP_002468675.1| transcription elongation factor NusA [Buchnera aphidicola str. Tuc7
           (Acyrthosiphon pisum)]
 gi|219622024|gb|ACL30180.1| transcription elongation factor NusA [Buchnera aphidicola str. Tuc7
           (Acyrthosiphon pisum)]
 gi|311086115|gb|ADP66197.1| transcription elongation factor NusA [Buchnera aphidicola str. LL01
           (Acyrthosiphon pisum)]
 gi|311086688|gb|ADP66769.1| transcription elongation factor NusA [Buchnera aphidicola str.
           TLW03 (Acyrthosiphon pisum)]
          Length = 496

 Score =  553 bits (1425), Expect = e-155,   Method: Composition-based stats.
 Identities = 191/510 (37%), Positives = 306/510 (60%), Gaps = 20/510 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  +    DIRV IN +TG  + FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALEMALATATKKKHEQEIDIRVSINRKTGGFTTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE V   T +I+L+ A      + +   + + +  +DF R+  Q+AKQVI+QKVREA
Sbjct: 62  WMVVETVTQPTREITLEAACFDGEKVYLNDYIEEQIESVDFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+   G+II+G VK++   N+++DLGN ++ +I R+  + REN RPGDR++ 
Sbjct: 122 ERAMLVEQFRKYTGQIITGIVKKINRDNIMLDLGNNAEALILREGMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E RG Q+ +SR+  + + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 ILYGVYPEARGAQLFISRSKTEMLTELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDI++W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELCGERIDIILWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQ++GW ++++T E+     +++ +    FF +
Sbjct: 302 CHTMDIAVDVNNLAQAIGRNGQNVRLASQISGWELNVMTTEDLHSKHKEEAHTAFNFFKK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +N++E I  +LV EGF+ +EELA +  +E+  ++   E+ A +++  A+  L  ++   
Sbjct: 362 NLNINENIIKILVKEGFSSLEELAYIPFNELLEVKNLTEDQAKKVREGAKSKLLLMESDK 421

Query: 425 QKK-IRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            K  I+E    +EL  I G+++ + + L E  I T+E+LA   +DDL             
Sbjct: 422 NKMIIQERKTEKELLKINGMNAVLALQLAEKNIFTIEELADQGIDDLTDIK--------- 472

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                       +Q   +I+ AR  + W  
Sbjct: 473 --------NLNSEQAGLLIMTAR-NICWFS 493


>gi|15616983|ref|NP_240196.1| transcription elongation factor NusA [Buchnera aphidicola str. APS
           (Acyrthosiphon pisum)]
 gi|219681736|ref|YP_002468122.1| transcription elongation factor NusA [Buchnera aphidicola str. 5A
           (Acyrthosiphon pisum)]
 gi|257471436|ref|ZP_05635435.1| transcription elongation factor NusA [Buchnera aphidicola str. LSR1
           (Acyrthosiphon pisum)]
 gi|11386974|sp|P57459|NUSA_BUCAI RecName: Full=Transcription elongation protein nusA
 gi|25299780|pir||B84974 N utilization substance protein A [imported] - Buchnera sp.
           (strain APS)
 gi|10039048|dbj|BAB13082.1| N utilization substance protein A [Buchnera aphidicola str. APS
           (Acyrthosiphon pisum)]
 gi|219624579|gb|ACL30734.1| transcription elongation factor NusA [Buchnera aphidicola str. 5A
           (Acyrthosiphon pisum)]
 gi|311087273|gb|ADP67353.1| transcription elongation factor NusA [Buchnera aphidicola str. JF99
           (Acyrthosiphon pisum)]
          Length = 496

 Score =  552 bits (1424), Expect = e-155,   Method: Composition-based stats.
 Identities = 191/510 (37%), Positives = 306/510 (60%), Gaps = 20/510 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  +    DIRV IN +TG  + FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALEMALATATKKKHEQEIDIRVSINRKTGGFTTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE V   T +I+L+ A      + +   + + +  +DF R+  Q+AKQVI+QKVREA
Sbjct: 62  WMVVETVTQPTREITLEAACFDGEKVYLNDYIEEQIESVDFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+   G+II+G VK++   N+++DLGN ++ +I R+  + REN RPGDR++ 
Sbjct: 122 ERAMLVEQFRKYTGQIITGIVKKINRDNIMLDLGNNAEALILREGMLPRENFRPGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V  E RG Q+ +SR+  + + +LF +EVPEI   ++++KA +RDPGSRAK+AV ++
Sbjct: 182 ILYGVYPEARGAQLFISRSKTEMLTELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV +EL  E+IDI++W  + A FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSSELCGERIDIILWDDNPAQFVINAMAPADVASIVVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V    L+ AIGR GQNVRLASQ++GW ++++T E+     +++ +    FF +
Sbjct: 302 CHTMDIAVDINNLAQAIGRNGQNVRLASQISGWELNVMTTEDLHSKHKEEAHTAFNFFKK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +N++E I  +LV EGF+ +EELA +  +E+  ++   E+ A +++  A+  L  ++   
Sbjct: 362 NLNINENIIKILVKEGFSSLEELAYIPFNELLEVKNLTEDQAKKVREGAKSKLLLMESDK 421

Query: 425 QKK-IRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
            K  I+E    +EL  I G+++ + + L E  I T+E+LA   +DDL             
Sbjct: 422 NKMIIQERKTEKELLKINGMNAVLALQLAEKNIFTIEELADQGIDDLTDIK--------- 472

Query: 484 FDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                       +Q   +I+ AR  + W  
Sbjct: 473 --------NLNSEQAGLLIMTAR-NICWFS 493


>gi|326794269|ref|YP_004312089.1| NusA antitermination factor [Marinomonas mediterranea MMB-1]
 gi|326545033|gb|ADZ90253.1| NusA antitermination factor [Marinomonas mediterranea MMB-1]
          Length = 496

 Score =  552 bits (1423), Expect = e-155,   Method: Composition-based stats.
 Identities = 194/514 (37%), Positives = 321/514 (62%), Gaps = 22/514 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +A+AV+ EK + + V+   +  ++  AA+  +     IRV I+  TGD + FR 
Sbjct: 2   SKEILLVAEAVSNEKDVPKQVIFEAVETALASAAKRRFEEDVKIRVSIDQRTGDYNTFRQ 61

Query: 66  LEVVEEVEN--YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             +V + +      ++++  + ++   + IG +  + +P  +FGR+A Q+AKQVI+QKVR
Sbjct: 62  WNIVADEDYSYPDSELTIDDSVEQSLGLAIGEIYEEEIPSEEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER +    + +KVG+++ G VK+V   ++IVDLG N++  + +D+ I+RE  R  DR+
Sbjct: 122 EAERAKVVARYSEKVGKLVHGQVKKVTRDSLIVDLGENAEAALPKDQLINREMFRMNDRI 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R + RGPQ++LSR  P+FM++LF +EVPEI   +++++  SRDPG RAK+AV 
Sbjct: 182 RALLSEIREDGRGPQLVLSRNVPEFMIELFKLEVPEIAEEVIEIRGASRDPGLRAKIAVK 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           ++D  IDP+GACVGMRG+RVQAV  E+  E++DIV+W  + A  VINA+ PA V  +V+D
Sbjct: 242 TNDRRIDPIGACVGMRGARVQAVSNEMNGERVDIVLWDDNPAQLVINAMAPAEVDSIVID 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   ++V V  + L+ AIGR GQNVRLA+ LTGW ++++T EE    +Q++  +    F
Sbjct: 302 EDAHSMDVAVKSDNLAQAIGRNGQNVRLATSLTGWALNVMTSEEAQSKQQEESQKLIDVF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           + ++++D+ +A  LV EGF  +EE+A V + E+  I+GFDE+   E++ RA+E L    +
Sbjct: 362 VNSLDIDDDLALQLVDEGFETLEEVAYVPMEEMLDIDGFDEDLVNELRSRAKESLLNQAL 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K+ +   +E+L ++ G+DS + +     GI TMEDLA  SVD+LL           
Sbjct: 422 QAEEKLDDAKPAEDLLTMEGMDSHLALVFASKGIITMEDLAEQSVDELLEIE-------- 473

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                    G  +++  S+I+ AR    W  + +
Sbjct: 474 ---------GITEERAASLILTARAP--WFAESE 496


>gi|300113656|ref|YP_003760231.1| transcription termination factor NusA [Nitrosococcus watsonii
           C-113]
 gi|299539593|gb|ADJ27910.1| transcription termination factor NusA [Nitrosococcus watsonii
           C-113]
          Length = 506

 Score =  552 bits (1423), Expect = e-155,   Method: Composition-based stats.
 Identities = 217/522 (41%), Positives = 329/522 (63%), Gaps = 23/522 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + DAV+ EK ++++V+   +  ++  A R  Y     ++V I+  TGD   FR 
Sbjct: 2   NKEILMVVDAVSNEKGVNKEVIFQAIEAALAMATRKRYQEDIAVQVVIDRTTGDYQSFRS 61

Query: 66  LEVVE---EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            EV+E   E+E    Q+ L  A  RD S ++GGVV +P+  + FGR+A Q+AKQVI+QKV
Sbjct: 62  WEVIEDEAELEAPERQMCLSEACKRDSSAEVGGVVKEPMESIAFGRIAAQTAKQVIVQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER +    ++ +V E++ G VKR++ GN+I+DLG N++G+I ++E I RE +RPGDR
Sbjct: 122 REAERAKVAAAYQGRVKEMVMGVVKRMDRGNIILDLGDNAEGIIPQEEMIPREAVRPGDR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ Y+ +VR E RGPQ+++SRT P+ +++LF +EVPEI    ++VK  +RDPG RAK+AV
Sbjct: 182 LRGYLKEVRAEGRGPQLVISRTAPELLIELFKLEVPEINENRIEVKGAARDPGLRAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++++ IDPVGACVGMRGSRVQAV  EL  E++DIV+W  D A FVINA+ PA    +V+
Sbjct: 242 KTNETRIDPVGACVGMRGSRVQAVSNELAGERVDIVLWDEDPARFVINAMAPAEAVSIVV 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+   ++V V +  LS AIGR GQN+RLASQLTGW ++++TE+E     + +     Q 
Sbjct: 302 DEERHSMDVAVAEGNLSQAIGRGGQNIRLASQLTGWELNVMTEQEAEEKGESEAKSLQQM 361

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+ ++VDE +A +LV EGF+ +EE+A V   EI +IE FD +   E++ RAR+ L    
Sbjct: 362 FMEQLDVDEEVAAILVHEGFSSIEEMAYVPEQEILAIEEFDSQIVQELRNRARDVLLTRA 421

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           I  ++ I  + + +EL  +  +D  +  AL   GI T E+LA  +VD+L+          
Sbjct: 422 IANEETIETVQLDQELLDMEEVDHGLASALASKGITTKENLAEQAVDELMEIE------- 474

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQ 523
                     G  +++   +I+ AR    W   E+ +DE  +
Sbjct: 475 ----------GMKREKAARLIMAARES--WFADEEQSDETEE 504


>gi|304386889|ref|ZP_07369151.1| transcription termination/antitermination protein NusA [Neisseria
           meningitidis ATCC 13091]
 gi|304339048|gb|EFM05140.1| transcription termination/antitermination protein NusA [Neisseria
           meningitidis ATCC 13091]
          Length = 503

 Score =  551 bits (1421), Expect = e-155,   Method: Composition-based stats.
 Identities = 212/518 (40%), Positives = 325/518 (62%), Gaps = 30/518 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 7   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 66

Query: 67  EVV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 67  LIVADEDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 126

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R GD
Sbjct: 127 RDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSGD 186

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG RAK
Sbjct: 187 RIRALFLRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQRAK 246

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V++
Sbjct: 247 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEVSR 306

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T  E       +    
Sbjct: 307 IVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAI 366

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ + 
Sbjct: 367 RRLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAIL 426

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  SVD+L+  +    
Sbjct: 427 TMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELSVDELIEIT---- 480

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                        G  ++  +++I+ AR    W  ++K
Sbjct: 481 -------------GVNEETAKAVILTAREH--WFTEDK 503


>gi|213580130|ref|ZP_03361956.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. E98-0664]
          Length = 464

 Score =  551 bits (1421), Expect = e-154,   Method: Composition-based stats.
 Identities = 191/481 (39%), Positives = 295/481 (61%), Gaps = 24/481 (4%)

Query: 41  SLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDP 100
                  D+RVEI+ ++GD   FR   +VEEV   T +I+L+ AR  D S+++G  V D 
Sbjct: 1   KNNEQEIDVRVEIDRKSGDFDTFRRWLIVEEVTMPTKEITLEAARFEDESLNVGDYVEDQ 60

Query: 101 LPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-- 158
           +  + F R+  Q+AKQVI+QKVREAER     +F+D+ GEI++G VK+V   N+ +++  
Sbjct: 61  IESVTFDRITTQTAKQVIVQKVREAERAMVVDQFRDQEGEIVTGVVKKVNRDNISLEIKS 120

Query: 159 ----GNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHM 214
               GN++ VI R++ + REN RPGDR++  +Y VR E RG Q+ ++R+ P+ +++LF +
Sbjct: 121 EGMAGNAEAVILREDMLPRENFRPGDRIRGVLYAVRPEARGAQLFVTRSKPEMLIELFRI 180

Query: 215 EVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKI 274
           EVPEI   ++++KA +RDPGSRAK+AV ++D  IDPVGACVGMRG+RVQAV TEL  E+I
Sbjct: 181 EVPEIGEEVIEIKAAARDPGSRAKIAVKTNDKRIDPVGACVGMRGARVQAVSTELGGERI 240

Query: 275 DIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQL 334
           DIV+W  + A FVINA+ PA V  +V+DED   +++ V    L+ AIGR GQNV LASQL
Sbjct: 241 DIVLWDDNPAQFVINAMAPADVASIVVDEDKHTMDIAVEAGNLAQAIGRNGQNVHLASQL 300

Query: 335 TGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISE 394
           +GW ++++T ++     Q + +   + F + +++DE  A +LV EGF+ +EELA V + E
Sbjct: 301 SGWELNVMTVDDLQAKHQAEAHAAIEIFTKYLDIDEEFATVLVEEGFSTLEELAYVPMKE 360

Query: 395 IASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGEN 454
           +  I+G DE T   ++ RA+  L  +    +  + +   +++L ++ G+D  +   L   
Sbjct: 361 LLEIDGLDEPTVEALRERAKNALATLAQDQEASLGDNKPADDLLNLEGLDRDMAFKLAAR 420

Query: 455 GIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
           G+ T+EDLA   +DDL                     G   ++   +I+ AR  + W   
Sbjct: 421 GVCTLEDLADQGIDDLADIE-----------------GLTDEKAGELIMAAR-NICWFGD 462

Query: 515 E 515
           E
Sbjct: 463 E 463


>gi|77165586|ref|YP_344111.1| transcription elongation factor NusA [Nitrosococcus oceani ATCC
           19707]
 gi|76883900|gb|ABA58581.1| NusA antitermination factor [Nitrosococcus oceani ATCC 19707]
          Length = 506

 Score =  551 bits (1421), Expect = e-154,   Method: Composition-based stats.
 Identities = 214/522 (40%), Positives = 328/522 (62%), Gaps = 23/522 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + DAV+ EK ++++V+   +  ++  A R  Y     ++V I+  TGD   FR 
Sbjct: 2   NKEILMVVDAVSNEKGVNKEVIFQAIEAALAMATRKRYQEDIAVQVVIDRTTGDYQSFRS 61

Query: 66  LEVVE---EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            EV+E   E++    Q+ L  A  RDP+ ++ G V +P+  + FGR+A Q+AKQVI+QKV
Sbjct: 62  WEVIEDEAELDAPERQMHLSEACKRDPNAEVSGFVKEPMESIAFGRIAAQTAKQVIVQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER +    ++ ++ E++ G VKR++ GN+I+DLG N++G++ ++E I RE +RPGDR
Sbjct: 122 REAERAKVVAAYRGRIKEMVMGVVKRMDRGNIILDLGDNAEGIVPQEEMIPREAVRPGDR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ Y+ +VR E RGPQ+++SRT P+ +++LF +EVPEI    ++VK  +RDPG RAK+AV
Sbjct: 182 LRGYLKEVRAEGRGPQLVISRTAPELLIELFKLEVPEINENRIEVKGAARDPGLRAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++++ IDPVGACVGMRGSRVQAV  EL  E++DIV+W  D A FVINA+ PA V  +V+
Sbjct: 242 KTNETRIDPVGACVGMRGSRVQAVSNELAGERVDIVLWDEDPARFVINAMAPAEVASIVV 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+   ++V V +  LS AIGR GQN+RLASQLTGW ++++TE+E     + +     Q 
Sbjct: 302 DEERHSMDVAVAEGNLSQAIGRGGQNIRLASQLTGWELNVMTEQEAEEKGESEAKSLQQM 361

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           FM+ ++VDE +A +LV EGF+ +EE+A V   EI +IE FD +   E++ RAR+ L    
Sbjct: 362 FMEQLDVDEEVAAILVHEGFSSIEEMAYVPEQEILAIEEFDSQIVQELRNRARDVLLTRA 421

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           I  ++ I  + + +EL  +  ID  +  AL   GI T E+LA  +VD+L+          
Sbjct: 422 IANEETIETVQLDQELLDMEEIDHGLASALASKGIVTKENLAEQAVDELMEIE------- 474

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQ 523
                     G  +++   +I+ AR    W   EK  +E  +
Sbjct: 475 ----------GMNREKAARLIMAARES--WFVSEKQDEETEE 504


>gi|92115190|ref|YP_575118.1| NusA antitermination factor [Chromohalobacter salexigens DSM 3043]
 gi|91798280|gb|ABE60419.1| NusA antitermination factor [Chromohalobacter salexigens DSM 3043]
          Length = 497

 Score =  551 bits (1420), Expect = e-154,   Method: Composition-based stats.
 Identities = 202/515 (39%), Positives = 311/515 (60%), Gaps = 23/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFR 64
             E+L + DA++ EK + R+V+   +  ++  A+R  + G     RV+I+  TGD   FR
Sbjct: 2   SKEILLVVDAISNEKGVPREVIFEAVESALASASRKRFDGQEVSTRVKIDRATGDYDTFR 61

Query: 65  LLEVVEEV--ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VVE+   EN   +I L  A  RDP + +G VV + +  + FGR+A Q+AKQVI+QKV
Sbjct: 62  RWTVVEDEAFENPDSEIPLSEAERRDPPLALGDVVEEQVESVAFGRIAAQTAKQVIVQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER     ++ ++ GE+++G VK+     +IVDLG N++  + R E I  E  R  +R
Sbjct: 122 REAERAEVVRQYAEREGELVAGIVKKTTREGLIVDLGENAEAFLPRSEMIPGERYRMNER 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ ++ V  E RG Q++L+RT P  +V+LF +EVPEI   ++++K  +RDPG+RAK+AV
Sbjct: 182 VRALLWKVDAEARGSQLILTRTRPDMIVELFKIEVPEIAEQLIEIKGAARDPGARAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGACVGMRGSRVQAV  ELR+E++DI++W  + A  VINA+ PA V  +++
Sbjct: 242 KTNDKRIDPVGACVGMRGSRVQAVSNELRNERVDIIMWDDNPAQLVINAMAPAEVGSILV 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED   ++V V ++ L+ AIGR GQNVRLAS+LTGWT++++TEEE    R+++ +   ++
Sbjct: 302 DEDAHSMDVAVAEDNLAQAIGRSGQNVRLASELTGWTLNVMTEEEAEGKREQEIDSLIEY 361

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F+  + VDE +A LLV EGF  +EELA V + E+  IE  DE     ++ RA++ L  + 
Sbjct: 362 FINHLEVDEELARLLVEEGFTSLEELAYVPLEELLEIEELDEALIETLRARAKDELLTLA 421

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           I  ++ +      ++L  + G+D  +   L   GI T EDLA  S+              
Sbjct: 422 IASEEALDGAQPDDDLLEMEGMDRHLAFTLASRGIVTREDLAEQSI-------------- 467

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
              D         +++  ++I+ AR    W E E+
Sbjct: 468 ---DDLKDIDDVDEERAAALIMTARAP--WFESEQ 497


>gi|87119792|ref|ZP_01075689.1| transcription elongation factor NusA [Marinomonas sp. MED121]
 gi|86165268|gb|EAQ66536.1| transcription elongation factor NusA [Marinomonas sp. MED121]
          Length = 496

 Score =  551 bits (1420), Expect = e-154,   Method: Composition-based stats.
 Identities = 191/514 (37%), Positives = 321/514 (62%), Gaps = 22/514 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ++L + +AV+ EK + + V+   +  ++  AA+  +   + IRV I+  TGD + +R 
Sbjct: 2   SKDILLVVEAVSNEKDVPKQVIFEAVEIALASAAKRRFEEEAKIRVSIDQRTGDYTTYRQ 61

Query: 66  LEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
            ++V  E+      ++++  + +++  + IG +  + +    FGR+A Q+AKQVI+QKVR
Sbjct: 62  WDIVADEDYAQPAHELTIDDSVEQNLGLAIGEIFEEEVESEAFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER +    + +KVG+ + G VK+V   ++IVDLG N++ V+ +D+ I+RE  R  DR+
Sbjct: 122 EAERAKVVARYSEKVGKPVHGQVKKVTRDSLIVDLGENAEAVLPKDQLIARETFRMNDRI 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R + RG Q++LSR  P FMV+LF +EVPEI   +++++  +RDPG RAK+AV 
Sbjct: 182 RALLLEIRDDSRGAQLILSRNDPAFMVELFRLEVPEIAEEMIEIRGAARDPGLRAKIAVK 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           ++D  IDP+GACVGMRG+RVQAV  EL  E++DIV+W  + A  VINA+ PA V  +V+D
Sbjct: 242 TNDRRIDPIGACVGMRGARVQAVSNELNGERVDIVLWDDNPAQLVINAMSPAEVDSIVID 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   ++V V  + L+ AIGR GQNVRLAS LTGW ++++T E+    +Q++ ++    F
Sbjct: 302 EDTHSMQVAVNADNLAQAIGRNGQNVRLASNLTGWQLNVMTSEDAVAKQQEESDKLINLF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           + ++++D+ +A  L  EGFA +EE+A V + E+  I+ FDE+   E++ RA+E L  + +
Sbjct: 362 VNSLDIDDDLAGQLADEGFATLEEIAYVPMEEMLDIDDFDEDLVNELRSRAKEALLNLAL 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++++ E   +E+L ++ G+D+ + + L   GI TMEDLA  SVDDL+   E       
Sbjct: 422 QAEEQLEEATPAEDLLTMEGMDNHLALVLASKGICTMEDLAEQSVDDLIDIEE------- 474

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                       +++  S+I+ AR    W  + +
Sbjct: 475 ----------INEERAASLIMTARAP--WFAESE 496


>gi|153207276|ref|ZP_01946040.1| transcription termination factor NusA [Coxiella burnetii 'MSU Goat
           Q177']
 gi|154706434|ref|YP_001423972.1| transcription elongation factor NusA [Coxiella burnetii Dugway
           5J108-111]
 gi|165918786|ref|ZP_02218872.1| transcription termination factor NusA [Coxiella burnetii RSA 334]
 gi|212212197|ref|YP_002303133.1| transcription elongation factor NusA [Coxiella burnetii CbuG_Q212]
 gi|212218228|ref|YP_002305015.1| transcription elongation factor NusA [Coxiella burnetii CbuK_Q154]
 gi|120576764|gb|EAX33388.1| transcription termination factor NusA [Coxiella burnetii 'MSU Goat
           Q177']
 gi|154355720|gb|ABS77182.1| N utilization substance protein A [Coxiella burnetii Dugway
           5J108-111]
 gi|165917510|gb|EDR36114.1| transcription termination factor NusA [Coxiella burnetii RSA 334]
 gi|212010607|gb|ACJ17988.1| N utilization substance protein A [Coxiella burnetii CbuG_Q212]
 gi|212012490|gb|ACJ19870.1| N utilization substance protein A [Coxiella burnetii CbuK_Q154]
          Length = 503

 Score =  550 bits (1419), Expect = e-154,   Method: Composition-based stats.
 Identities = 209/518 (40%), Positives = 329/518 (63%), Gaps = 27/518 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS-DIRVEINPETGDISLFR 64
             ++L I D+++ E+ + ++V+   +  ++       Y      IRV I+ +TGD   FR
Sbjct: 2   NKDILLIVDSMSNERGVSKEVIFEAIEAALAAVTAKRYEEDDVKIRVAIDQKTGDYESFR 61

Query: 65  LLEVVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
              VVE+    +E    +++LK AR+ D  +++G V+ +P+  + FGR+A Q AKQVI+Q
Sbjct: 62  CWTVVEDTNESLEFPNQEMTLKQAREIDSDLEVGDVIEEPVESVKFGRIAAQQAKQVIVQ 121

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPG 179
           KVREAER +   +++ +VGE++ G VKRV   ++I+D+G N++ ++ R+E I RE  R  
Sbjct: 122 KVREAERAKIIRQYEKRVGELVIGVVKRVTRESIILDMGENAEALLLREEMIPREAFRIN 181

Query: 180 DRVKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           DR+++Y+Y V + ++RGPQ+L+SRT P+F+V+LF +EVPEI   ++++K  +RDPGSRAK
Sbjct: 182 DRLRAYLYSVCQDKKRGPQLLVSRTRPEFLVELFKIEVPEIGEEVIEIKGAARDPGSRAK 241

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP+GACVGMRGSRVQAV  EL  E+IDIV+W  + A  VINA+ PA V  
Sbjct: 242 IAVKTNDGRIDPIGACVGMRGSRVQAVSNELGGERIDIVLWDDNPAQLVINAMAPAEVAS 301

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   +++ V K+QLS AIGR GQNVRLAS+LTGWT+++++E E +   +K+  + 
Sbjct: 302 IVVDEDSHTMDIAVNKDQLSQAIGRSGQNVRLASELTGWTLNVMSEAEMAQKHEKEAGKI 361

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
              FM+ ++VDE +A  LV  GF ++EE+A V   E+  +EGFDE+ + E+Q RA + L 
Sbjct: 362 KTAFMEKLDVDEEVADALVQAGFMNLEEVAYVPKEELQGVEGFDEDISAELQRRAGDVLL 421

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             +I  Q+ + E   +E+L ++PG+ +++   L EN + T +DLA  SV DL    E   
Sbjct: 422 TQEIAKQE-LDEKKPAEDLLTLPGMTTELARQLVENEVLTRDDLAEKSVLDLKEIIE--- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                            +   ++I+ AR    W  +E+
Sbjct: 478 --------------IDDEAAANLIMAARAH--WFAEEE 499


>gi|254361245|ref|ZP_04977388.1| N utilization substance A [Mannheimia haemolytica PHL213]
 gi|261492531|ref|ZP_05989084.1| N utilization substance A [Mannheimia haemolytica serotype A2 str.
           BOVINE]
 gi|261496806|ref|ZP_05993180.1| N utilization substance A [Mannheimia haemolytica serotype A2 str.
           OVINE]
 gi|153092741|gb|EDN73784.1| N utilization substance A [Mannheimia haemolytica PHL213]
 gi|261307553|gb|EEY08882.1| N utilization substance A [Mannheimia haemolytica serotype A2 str.
           OVINE]
 gi|261311690|gb|EEY12840.1| N utilization substance A [Mannheimia haemolytica serotype A2 str.
           BOVINE]
          Length = 498

 Score =  550 bits (1419), Expect = e-154,   Method: Composition-based stats.
 Identities = 188/515 (36%), Positives = 308/515 (59%), Gaps = 25/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L  A+AV+ EK + ++ +   +  ++  A +       D+RV ++ +TGD   FR 
Sbjct: 2   SKEILLAAEAVSNEKQLPKEAIFEALETALTIATKKSRDLDIDVRVVVDRKTGDFQTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE V N T +ISL+ A+  DP++ +G  + D +  ++FGRVA+Q+  QV+  K+REA
Sbjct: 62  WAVVENVNNMTREISLEAAQFEDPNVQLGDFIEDEVESIEFGRVAIQTFGQVVKTKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG------NSDGVIRRDETISRENLRPG 179
           E+ +   EF+  +G+II  TVK+V   N+ ++L         + VI R++ I REN RPG
Sbjct: 122 EKTKIIDEFRSDLGKIILATVKKVTRDNIFLELQGKSEDIKGEAVIVREDMIPRENFRPG 181

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DRV+  +Y+++ E +GPQ+ ++R  P  + +LF +EVPEI  G++++K  +RD GSRAK+
Sbjct: 182 DRVRGVLYEIKPESKGPQLFVTRAKPVMLEELFKLEVPEIGEGVIEIKGSARDVGSRAKI 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV + D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A FVINA+ PA V+ +
Sbjct: 242 AVKTHDKRIDPVGACVGMRGARVQAISNELGGERVDIVLWDENPAQFVINAMAPADVSSI 301

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           V++++   +++ V  + L+ AIGR GQNVRLA+QLTGW ++++T EE +   +++  +  
Sbjct: 302 VINDETHSMDIAVEAKNLAQAIGRNGQNVRLATQLTGWALNVMTVEELTKKSEEEDGKVI 361

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DEETAVEIQGRAREYLE 418
                A+ +DE  A +L+ EGF  +E +A V +  + +I+G  DE+   E+Q RA+  + 
Sbjct: 362 NLLTSALEIDEEFAQVLIEEGFTSLEAIAYVPVDTLTAIDGLEDEDLVEELQSRAKNAIT 421

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
              +  +K ++   + E+L ++ G+D  I   L E  I T+E+LA   VDDL    E   
Sbjct: 422 KKALEEEKLLKSAQIEEKLLTLEGMDRHIAFKLAEKQITTLEELAEQGVDDLADIEE--- 478

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                           +++   +I+ AR ++ W  
Sbjct: 479 --------------LSEEKAGELIMAAR-QICWFN 498


>gi|218768664|ref|YP_002343176.1| transcription elongation factor NusA [Neisseria meningitidis Z2491]
 gi|121052672|emb|CAM09013.1| N utilisation substance protein A [Neisseria meningitidis Z2491]
          Length = 505

 Score =  550 bits (1419), Expect = e-154,   Method: Composition-based stats.
 Identities = 211/518 (40%), Positives = 325/518 (62%), Gaps = 30/518 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 9   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 68

Query: 67  EVV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 69  LIVADEDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 128

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R GD
Sbjct: 129 RDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSGD 188

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG RAK
Sbjct: 189 RIRALFLRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQRAK 248

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V++
Sbjct: 249 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEVSR 308

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T  E       +    
Sbjct: 309 IVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAI 368

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ + 
Sbjct: 369 RRLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAIL 428

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  +VD+L+  +    
Sbjct: 429 TMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELIEIT---- 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                        G  ++  +++I+ AR    W  ++K
Sbjct: 483 -------------GVNEETAKAVILTAREH--WFTEDK 505


>gi|261856064|ref|YP_003263347.1| NusA antitermination factor [Halothiobacillus neapolitanus c2]
 gi|261836533|gb|ACX96300.1| NusA antitermination factor [Halothiobacillus neapolitanus c2]
          Length = 491

 Score =  550 bits (1418), Expect = e-154,   Method: Composition-based stats.
 Identities = 219/510 (42%), Positives = 321/510 (62%), Gaps = 24/510 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L +ADAV+ EK +DR+V+   +  ++ +AAR  +G   D RV+I+ ETGD   FR 
Sbjct: 2   SKEILFVADAVSNEKGVDREVIFEAIEAALAQAARKRHGGDIDTRVQIDHETGDYRTFRR 61

Query: 66  LEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
            +VVE    E    ++ L+ A+  DP I +G  V + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WQVVEGDSSEFPEREMILEAAQMDDPDIKVGEFVEEEIESVEFGRIAAQAAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER +    + D+ G +I G +KR++ GNVI+DLG N + +I RDE I RE +RPGDR+
Sbjct: 122 EAERRQIVDAYIDRKGSLIMGLIKRIDRGNVILDLGGNVEALIPRDEMIGREAVRPGDRL 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           + Y+ DVR E RGPQ+ +SRT PQF+++LF +EVPEI  G++++K  +RDPG RAK+AV 
Sbjct: 182 RGYLADVRHEPRGPQLFVSRTAPQFLIELFKLEVPEIEQGLIEIKGAARDPGLRAKIAVE 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S DS IDPVG CVGMRGSRVQ+V  EL  E++DI++W  + A FVINA+ PA V  +V+D
Sbjct: 242 SRDSRIDPVGTCVGMRGSRVQSVTNELNGERVDIIIWDSNPAQFVINAMSPAEVVSIVVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   ++V V +E+LS AIGR GQNVRLASQLTGW ++++ EEE     + +    T+ F
Sbjct: 302 EDRHSMDVAVTEEKLSQAIGRGGQNVRLASQLTGWHLNVMGEEEAVAKVETETRRATEAF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+ ++VDE +A +LV  GF+ +EE+A V  +E+  +EGFDE    E++ RAR+ L    I
Sbjct: 362 MRDLDVDEDVAAVLVEAGFSSLEEIAYVPTAELLDVEGFDEGIVEELRNRARDALLVQAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
           +      E     ++  + G+  ++   L   G+ T +DLA  SVD++  +         
Sbjct: 422 SDDA--GESTEELDIAQLEGMTPELLTILNAAGVHTSDDLAELSVDEMTAFD-------- 471

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
                    G  +   + +I+ AR    W 
Sbjct: 472 ---------GVDEALAQQLIMAARAP--WF 490


>gi|319787428|ref|YP_004146903.1| NusA antitermination factor [Pseudoxanthomonas suwonensis 11-1]
 gi|317465940|gb|ADV27672.1| NusA antitermination factor [Pseudoxanthomonas suwonensis 11-1]
          Length = 503

 Score =  550 bits (1418), Expect = e-154,   Method: Composition-based stats.
 Identities = 203/481 (42%), Positives = 320/481 (66%), Gaps = 5/481 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFR 64
             ELL + DAVA EK + R+V+   +  ++  AA+  Y       RV I+ + G    FR
Sbjct: 2   SKELLLVVDAVANEKGVPREVIFEALEAALASAAKKRYVDQDVVTRVAIDRKDGSYETFR 61

Query: 65  LLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             EVV +   +E+   QI L  A D    +++G  + + +   +FGR+A Q+AKQVI+Q+
Sbjct: 62  RWEVVADDVVMESPDRQIRLMDAVDEADGVEVGDYIEEQIENPEFGRIAAQAAKQVIVQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGD 180
           VREAER +    +KD+VGE+++G VKRVE GN+ VDLG N++  I +D+ I R+ LR GD
Sbjct: 122 VREAERQQVVDAWKDRVGELVTGVVKRVERGNIYVDLGGNAEAFIPKDKGIPRDVLRAGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV+ Y+Y+VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++KA +RDPG RAK+A
Sbjct: 182 RVRGYLYEVRSEPRGPQLFISRAAPEFMIELFKLEVPEVGQGLVEIKACARDPGDRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V + D+  DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  ++
Sbjct: 242 VIAHDNRTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNENPANFVINAMAPAEVQSII 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DE+   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T+++ +   + +     Q
Sbjct: 302 VDEEKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTQDQVAAKSEAEQAVARQ 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM  + VDE IA +LV+EGF+ VEE+A V + E+ ++EGFDE+   E++ RAR+ L   
Sbjct: 362 LFMDKLEVDEEIAGILVSEGFSTVEEIAYVPVGELLAVEGFDEDIVEELRARARDALLND 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            + +++++ E G +E+L ++ G+D     AL  +G++T EDL+  + D+++ +       
Sbjct: 422 ALAVEEQMGEEGPAEDLLALEGMDEDTAFALAAHGVRTSEDLSDLAADEVVEFGIEGLDE 481

Query: 481 I 481
            
Sbjct: 482 T 482


>gi|121635282|ref|YP_975527.1| transcription elongation factor NusA [Neisseria meningitidis FAM18]
 gi|120866988|emb|CAM10751.1| N utilisation substance protein A [Neisseria meningitidis FAM18]
          Length = 505

 Score =  550 bits (1418), Expect = e-154,   Method: Composition-based stats.
 Identities = 211/518 (40%), Positives = 324/518 (62%), Gaps = 30/518 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 9   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 68

Query: 67  EVV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 69  LIVADEDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 128

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R GD
Sbjct: 129 RDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSGD 188

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG RAK
Sbjct: 189 RIRALFLRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQRAK 248

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V++
Sbjct: 249 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEVSR 308

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   ++VIV + QL+LAIGR GQNVRLAS LTGW ++I+T  E       +    
Sbjct: 309 IVIDEDKHAVDVIVDENQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAI 368

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ + 
Sbjct: 369 RRLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAIL 428

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  +VD+L+  +    
Sbjct: 429 TMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELIEIT---- 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                        G  ++  +++I+ AR    W  ++K
Sbjct: 483 -------------GVNEETAKAVILTAREH--WFTEDK 505


>gi|325205639|gb|ADZ01092.1| transcription termination/antitermination protein nusA [Neisseria
           meningitidis M04-240196]
          Length = 500

 Score =  550 bits (1418), Expect = e-154,   Method: Composition-based stats.
 Identities = 210/518 (40%), Positives = 326/518 (62%), Gaps = 30/518 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 64  LIVADEDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R GD
Sbjct: 124 RDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSGD 183

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG RAK
Sbjct: 184 RIRALFLRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQRAK 243

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V++
Sbjct: 244 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEVSR 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   ++VIV ++QL+LAIGR GQNVRLAS+LTGW ++I+T  E       +    
Sbjct: 304 IVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASELTGWQLNIMTSAEADERNAAEDAAI 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ + 
Sbjct: 364 RRLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAIL 423

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + I  ++K+ E  VS+++ ++ G+D+ +  +L E GI T +DLA  +VD+L+  +    
Sbjct: 424 TMAIAAEEKLGE--VSDDMRNLEGVDADMLRSLAEAGITTRDDLAELAVDELIEIT---- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                        G  ++  +++I+ AR    W  ++K
Sbjct: 478 -------------GVNEETAKAVILTAREH--WFTEDK 500


>gi|15677491|ref|NP_274647.1| transcription elongation factor NusA [Neisseria meningitidis MC58]
 gi|7226892|gb|AAF41991.1| N utilization substance protein A [Neisseria meningitidis MC58]
 gi|319410895|emb|CBY91289.1| transcription elongation protein nusA (N utilization substance
           protein A; L factor) [Neisseria meningitidis WUE 2594]
 gi|325140713|gb|EGC63227.1| transcription termination/antitermination protein nusA [Neisseria
           meningitidis CU385]
 gi|325144892|gb|EGC67179.1| transcription termination/antitermination protein nusA [Neisseria
           meningitidis M01-240013]
 gi|325199764|gb|ADY95219.1| transcription termination/antitermination protein nusA [Neisseria
           meningitidis H44/76]
          Length = 500

 Score =  550 bits (1418), Expect = e-154,   Method: Composition-based stats.
 Identities = 211/518 (40%), Positives = 325/518 (62%), Gaps = 30/518 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 64  LIVADEDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R GD
Sbjct: 124 RDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSGD 183

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG RAK
Sbjct: 184 RIRALFLRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQRAK 243

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V++
Sbjct: 244 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEVSR 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T  E       +    
Sbjct: 304 IVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAI 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ + 
Sbjct: 364 RRLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAIL 423

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  +VD+L+  +    
Sbjct: 424 TMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELIEIT---- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                        G  ++  +++I+ AR    W  ++K
Sbjct: 478 -------------GVNEETAKAVILTAREH--WFTEDK 500


>gi|325128688|gb|EGC51554.1| transcription termination/antitermination protein nusA [Neisseria
           meningitidis N1568]
          Length = 500

 Score =  550 bits (1418), Expect = e-154,   Method: Composition-based stats.
 Identities = 211/518 (40%), Positives = 324/518 (62%), Gaps = 30/518 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 64  LIVADEDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R GD
Sbjct: 124 RDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRCGD 183

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG RAK
Sbjct: 184 RIRALFLRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQRAK 243

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V++
Sbjct: 244 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEVSR 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   ++VIV + QL+LAIGR GQNVRLAS LTGW ++I+T  E       +    
Sbjct: 304 IVIDEDKHAVDVIVDENQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAI 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ + 
Sbjct: 364 RRLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAIL 423

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  +VD+L+  +    
Sbjct: 424 TMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELIEIT---- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                        G  ++  +++I+ AR    W  ++K
Sbjct: 478 -------------GVNEETAKAVILTAREH--WFTEDK 500


>gi|29654724|ref|NP_820416.1| transcription elongation factor NusA [Coxiella burnetii RSA 493]
 gi|81628742|sp|Q83BS0|NUSA_COXBU RecName: Full=Transcription elongation protein nusA
 gi|29541992|gb|AAO90930.1| N utilization substance protein A [Coxiella burnetii RSA 493]
          Length = 503

 Score =  550 bits (1417), Expect = e-154,   Method: Composition-based stats.
 Identities = 210/518 (40%), Positives = 330/518 (63%), Gaps = 27/518 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS-DIRVEINPETGDISLFR 64
             ++L I D+++ E+ + ++V+   +  ++       Y      IRV I+ +TGD   FR
Sbjct: 2   NKDILLIVDSMSNERGVSKEVIFEAIEAALAAVTAKRYEEDDVKIRVAIDQKTGDYESFR 61

Query: 65  LLEVVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
              VVE+    +E    +++LK AR+ D  +++G V+ +P+  + FGR+AVQ AKQVI+Q
Sbjct: 62  CWTVVEDTNESLEFPNQEMTLKQAREIDSDLEVGDVIEEPVESVKFGRIAVQQAKQVIVQ 121

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPG 179
           KVREAER +   +++ +VGE++ G VKRV   ++I+D+G N++ ++ R+E I RE  R  
Sbjct: 122 KVREAERAKIIRQYEKRVGELVIGVVKRVTRESIILDMGENAEALLLREEMIPREAFRIN 181

Query: 180 DRVKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           DR+++Y+Y V + ++RGPQ+L+SRT P+F+V+LF +EVPEI   ++++K  +RDPGSRAK
Sbjct: 182 DRLRAYLYSVCQDKKRGPQLLVSRTRPEFLVELFKIEVPEIGEEVIEIKGAARDPGSRAK 241

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP+GACVGMRGSRVQAV  EL  E+IDIV+W  + A  VINA+ PA V  
Sbjct: 242 IAVKTNDGRIDPIGACVGMRGSRVQAVSNELGGERIDIVLWDDNPAQLVINAMAPAEVAS 301

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   +++ V K+QLS AIGR GQNVRLAS+LTGWT+++++E E +   +K+  + 
Sbjct: 302 IVVDEDSHTMDIAVNKDQLSQAIGRSGQNVRLASELTGWTLNVMSEAEMAQKHEKEAGKI 361

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
              FM+ ++VDE +A  LV  GF ++EE+A V   E+  +EGFDE+ + E+Q RA + L 
Sbjct: 362 KTAFMEKLDVDEEVADALVQAGFMNLEEVAYVPKEELQGVEGFDEDISAELQRRAGDVLL 421

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             +I  Q+ + E   +E+L ++PG+ +++   L EN + T +DLA  SV DL    E   
Sbjct: 422 TQEIAKQE-LDEKKPAEDLLTLPGMTTELARQLVENEVLTRDDLAEKSVLDLKEIIE--- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                            +   ++I+ AR    W  +E+
Sbjct: 478 --------------IDDEAAANLIMAARAH--WFAEEE 499


>gi|254805397|ref|YP_003083618.1| N utilization substance protein A [Neisseria meningitidis alpha14]
 gi|254668939|emb|CBA07185.1| N utilization substance protein A [Neisseria meningitidis alpha14]
          Length = 500

 Score =  550 bits (1417), Expect = e-154,   Method: Composition-based stats.
 Identities = 211/518 (40%), Positives = 324/518 (62%), Gaps = 30/518 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 64  LIVADEDYTYPDVEKTIEEIQEEIPGTAIQIGEYYEEQLPNESFGRQAAQTAKQIILQRI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R GD
Sbjct: 124 RDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSGD 183

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG RAK
Sbjct: 184 RIRALFLRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQRAK 243

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V++
Sbjct: 244 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEVSR 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   ++VIV + QL+LAIGR GQNVRLAS LTGW ++I+T  E       +    
Sbjct: 304 IVIDEDKHAVDVIVDENQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAI 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ + 
Sbjct: 364 RRLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAIL 423

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  +VD+L+  +    
Sbjct: 424 TMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELIEIT---- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                        G  ++  +++I+ AR    W  ++K
Sbjct: 478 -------------GVNEETAKAVILTAREH--WFTEDK 500


>gi|325132774|gb|EGC55456.1| transcription termination/antitermination protein nusA [Neisseria
           meningitidis M6190]
          Length = 500

 Score =  550 bits (1417), Expect = e-154,   Method: Composition-based stats.
 Identities = 211/518 (40%), Positives = 324/518 (62%), Gaps = 30/518 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 64  LIVADEDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R GD
Sbjct: 124 RDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSGD 183

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG RAK
Sbjct: 184 RIRALFLRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQRAK 243

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V++
Sbjct: 244 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEVSR 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   ++VIV + QL+LAIGR GQNVRLAS LTGW ++I+T  E       +    
Sbjct: 304 IVIDEDKHAVDVIVDENQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAI 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ + 
Sbjct: 364 RRLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAIL 423

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  +VD+L+  +    
Sbjct: 424 TMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELIEIT---- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                        G  ++  +++I+ AR    W  ++K
Sbjct: 478 -------------GVNEETAKAVILTAREH--WFTEDK 500


>gi|261392135|emb|CAX49635.1| transcription elongation protein nusA (N utilization substance
           protein A; L factor) [Neisseria meningitidis 8013]
 gi|325134692|gb|EGC57331.1| transcription termination/antitermination protein nusA [Neisseria
           meningitidis M13399]
          Length = 500

 Score =  550 bits (1417), Expect = e-154,   Method: Composition-based stats.
 Identities = 211/518 (40%), Positives = 325/518 (62%), Gaps = 30/518 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 64  LIVADEDYTYPDVEKTIEEIQEEIPGTAIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R GD
Sbjct: 124 RDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSGD 183

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG RAK
Sbjct: 184 RIRALFLRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQRAK 243

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V++
Sbjct: 244 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEVSR 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T  E       +    
Sbjct: 304 IVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAI 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ + 
Sbjct: 364 RRLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAIL 423

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  +VD+L+  +    
Sbjct: 424 TMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELIEIT---- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                        G  ++  +++I+ AR    W  ++K
Sbjct: 478 -------------GVNEETAKAVILTAREH--WFTEDK 500


>gi|161830897|ref|YP_001597277.1| transcription elongation factor NusA [Coxiella burnetii RSA 331]
 gi|161762764|gb|ABX78406.1| transcription termination factor NusA [Coxiella burnetii RSA 331]
          Length = 503

 Score =  549 bits (1416), Expect = e-154,   Method: Composition-based stats.
 Identities = 210/518 (40%), Positives = 331/518 (63%), Gaps = 27/518 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS-DIRVEINPETGDISLFR 64
             ++L I D+++ E+ + ++V+   +  ++       Y      IRV I+ +TGD   FR
Sbjct: 2   NKDILLIVDSMSNERGVSKEVIFEAIEAALAAVTAKRYEEDDVKIRVAIDQKTGDYESFR 61

Query: 65  LLEVVEE----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
              VVE+    +E    +++LK AR+ D  +++G V+ +P+  + FGR+AVQ AKQVI+Q
Sbjct: 62  CWTVVEDTNESLEFPNQEMTLKQAREIDSDLEVGDVIEEPVESVKFGRIAVQQAKQVIVQ 121

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPG 179
           KVREAER +   +++ +VGE++ G VKRV   ++I+D+G N++ ++ R+E I RE  R  
Sbjct: 122 KVREAERAKIIRQYEKRVGELVIGVVKRVTRESIILDMGENAEALLLREEMIPREAFRIN 181

Query: 180 DRVKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           DR+++Y+Y V + ++RGPQ+L+SRT P+F+V+LF +EVPEI   ++++K  +RDPGSRAK
Sbjct: 182 DRLRAYLYSVCQDKKRGPQLLVSRTRPEFLVELFKIEVPEIGEEVIEIKGAARDPGSRAK 241

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP+GACVGMRGSRVQAV  EL  E+IDIV+W  + A  VINA+ PA V  
Sbjct: 242 IAVKTNDGRIDPIGACVGMRGSRVQAVSNELGGERIDIVLWDDNPAQLVINAMAPAEVAS 301

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   +++ V K+QLS AIGR GQNVRLAS+LTGWT+++++E E +   +K+ ++ 
Sbjct: 302 IVVDEDSHTMDIAVNKDQLSQAIGRSGQNVRLASELTGWTLNVMSEAEMAQKHEKEADKI 361

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
              FM+ ++VDE +A  LV  GF ++EE+A V   E+  +EGFDE+ + E+Q RA + L 
Sbjct: 362 KTAFMEKLDVDEEVADALVQAGFMNLEEVAYVPKEELQGVEGFDEDISAELQRRAGDVLL 421

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             +I  Q+ + E   +E+L ++PG+ +++   L EN + T +DLA  SV DL    E   
Sbjct: 422 TQEIAKQE-LDEKKPAEDLLTLPGMTTELARQLVENEVLTRDDLAEKSVLDLKEIIE--- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                            +   ++I+ AR    W  +E+
Sbjct: 478 --------------IDDEAAANLIMAARAH--WFAEEE 499


>gi|325204603|gb|ADZ00057.1| transcription termination/antitermination protein nusA [Neisseria
           meningitidis M01-240355]
          Length = 500

 Score =  549 bits (1416), Expect = e-154,   Method: Composition-based stats.
 Identities = 212/518 (40%), Positives = 325/518 (62%), Gaps = 30/518 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 64  LIVADEDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R GD
Sbjct: 124 RDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSGD 183

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG RAK
Sbjct: 184 RIRALFLRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQRAK 243

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V++
Sbjct: 244 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEVSR 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T  E       +    
Sbjct: 304 IVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAI 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ + 
Sbjct: 364 RRLFMDYLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAIL 423

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  SVD+L+  +    
Sbjct: 424 TMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELSVDELIEIT---- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                        G  ++  +++I+ AR    W  ++K
Sbjct: 478 -------------GVNEETAKAVILTAREH--WFTEDK 500


>gi|254468012|ref|ZP_05081418.1| transcription termination factor NusA [beta proteobacterium KB13]
 gi|207086822|gb|EDZ64105.1| transcription termination factor NusA [beta proteobacterium KB13]
          Length = 485

 Score =  549 bits (1416), Expect = e-154,   Method: Composition-based stats.
 Identities = 202/506 (39%), Positives = 329/506 (65%), Gaps = 21/506 (4%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +L + DA+A+EK++ +++V + +  ++  A +  Y   +DIRV+I+PE+G    FR   V
Sbjct: 1   MLILVDALAHEKNVSKEIVFNALELALASATKKKYPHGTDIRVKIDPESGAYESFRCWTV 60

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VEE      +  + +  DR     IG V+ + +P  +FGR+  Q+AKQVI+QKVREAER+
Sbjct: 61  VEEENLENEEAEILLIDDRAKDKQIGDVIEESIPSEEFGRIGAQAAKQVILQKVREAERE 120

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
           +   EF  +  +++ G ++R+E GN I+++G  + ++ RD+ I +ENLR GDR+++ +  
Sbjct: 121 QVLNEFLARDEKLVMGQIRRMERGNAIIEIGKLEAILPRDQMIPKENLRVGDRIRAALLK 180

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           +    RGPQ++LSRT P+F++KLF +EVPEI  G++++ + SRDPGSR+K+AV ++D  +
Sbjct: 181 IETSMRGPQLILSRTSPEFIIKLFEIEVPEIEEGLLEIMSASRDPGSRSKIAVKANDQRL 240

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI 308
           DPVG CVGMRGSRVQAV TEL  E++DIV+WS + A FVIN++ PA V+ +V+DE+   +
Sbjct: 241 DPVGTCVGMRGSRVQAVTTELSGERVDIVLWSIEPAQFVINSMAPAEVSSIVVDEEKRSM 300

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINV 368
           +++V ++QL+LAIGR GQN+RLASQLTGW ++I+TEEE     +++++  +Q F++ ++V
Sbjct: 301 DIVVDEDQLALAIGRNGQNIRLASQLTGWELNIMTEEESEKKHEEEYSTVSQLFIEKLDV 360

Query: 369 DEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKI 428
           DE +A +LV EGF  +EE+A V   E+  ++ FDE+T  E++ RA+  +    I  ++K+
Sbjct: 361 DEEVADILVKEGFTSLEEIAYVPTEELNQMDIFDEDTIEELRSRAKAAILTAAIANEEKV 420

Query: 429 RELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFL 488
            E    E+L ++ G+D      L   GI +MEDLA  +VD+L                 L
Sbjct: 421 PEAQ--EDLLTMEGMDQNTANLLASKGIVSMEDLAELAVDEL-----------------L 461

Query: 489 SSLGTPKDQVESMIIHARYKMGWIEK 514
             +   +++ + +I+ AR    W  +
Sbjct: 462 DIIKIDEEKAKELIMTARAP--WFTE 485


>gi|325142812|gb|EGC65183.1| transcription termination/antitermination protein nusA [Neisseria
           meningitidis 961-5945]
 gi|325201699|gb|ADY97153.1| transcription termination/antitermination protein nusA [Neisseria
           meningitidis M01-240149]
 gi|325208565|gb|ADZ04017.1| transcription termination/antitermination protein nusA [Neisseria
           meningitidis NZ-05/33]
          Length = 500

 Score =  549 bits (1416), Expect = e-154,   Method: Composition-based stats.
 Identities = 211/518 (40%), Positives = 324/518 (62%), Gaps = 30/518 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 64  LIVADEDYTYPDVEKTIEEIQEEIPGTAIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R GD
Sbjct: 124 RDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSGD 183

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG RAK
Sbjct: 184 RIRALFLRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQRAK 243

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V++
Sbjct: 244 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEVSR 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   ++VIV + QL+LAIGR GQNVRLAS LTGW ++I+T  E       +    
Sbjct: 304 IVIDEDKHAVDVIVDENQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAI 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ + 
Sbjct: 364 RRLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAIL 423

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  +VD+L+  +    
Sbjct: 424 TMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELIEIT---- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                        G  ++  +++I+ AR    W  ++K
Sbjct: 478 -------------GVNEETAKAVILTAREH--WFTEDK 500


>gi|325130689|gb|EGC53429.1| transcription termination/antitermination protein nusA [Neisseria
           meningitidis OX99.30304]
          Length = 500

 Score =  549 bits (1415), Expect = e-154,   Method: Composition-based stats.
 Identities = 211/518 (40%), Positives = 325/518 (62%), Gaps = 30/518 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALAGEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 64  LIVADEDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R GD
Sbjct: 124 RDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSGD 183

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG RAK
Sbjct: 184 RIRALFLRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQRAK 243

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V++
Sbjct: 244 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEVSR 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T  E       +    
Sbjct: 304 IVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAI 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ + 
Sbjct: 364 RRLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAIL 423

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  +VD+L+  +    
Sbjct: 424 TMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELIEIT---- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                        G  ++  +++I+ AR    W  ++K
Sbjct: 478 -------------GVNEETAKAVILTAREH--WFTEDK 500


>gi|325136708|gb|EGC59308.1| transcription termination/antitermination protein nusA [Neisseria
           meningitidis M0579]
          Length = 500

 Score =  549 bits (1415), Expect = e-154,   Method: Composition-based stats.
 Identities = 212/518 (40%), Positives = 325/518 (62%), Gaps = 30/518 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 64  LIVADEDYTYPDVEKTIEEIQEEIPGTAIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R GD
Sbjct: 124 RDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSGD 183

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG RAK
Sbjct: 184 RIRALFLRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQRAK 243

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V++
Sbjct: 244 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEVSR 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T  E       +    
Sbjct: 304 IVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAI 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ + 
Sbjct: 364 RRLFMDYLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAIL 423

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  SVD+L+  +    
Sbjct: 424 TMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELSVDELIEIT---- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                        G  ++  +++I+ AR    W  ++K
Sbjct: 478 -------------GVNEETAKAVILTAREH--WFTEDK 500


>gi|157825875|ref|YP_001493595.1| transcription elongation factor NusA [Rickettsia akari str.
           Hartford]
 gi|157799833|gb|ABV75087.1| transcription elongation factor NusA [Rickettsia akari str.
           Hartford]
          Length = 503

 Score =  549 bits (1415), Expect = e-154,   Method: Composition-based stats.
 Identities = 243/511 (47%), Positives = 358/511 (70%), Gaps = 17/511 (3%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +   +E+LQI D+VA EK I +++++S +  ++Q A R  YG   +I+ +IN +TG+I
Sbjct: 1   MSNIGNVEILQIIDSVAREKGISKEILVSTVEQAVQVAGRKKYGNEYNIKAQINRKTGEI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +L R+L++VE+V++Y  QISL  A  ++P   IG  + + LPP+D  RV+ Q+AKQVI Q
Sbjct: 61  NLLRILKIVEDVQDYLTQISLAEALRKNPEAKIGDEIYEYLPPIDHARVSAQAAKQVITQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +V EAER++QY +FKD+ GEII+G VKR+EYG++IVDL  ++ +I++D+ I+ EN +P D
Sbjct: 121 RVIEAEREKQYHDFKDRKGEIINGIVKRIEYGDIIVDLSRAEAIIKKDQLINGENFKPND 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K+Y+ DVR+E +GPQ+ LSR   Q +VKLF +EVPEI   I+Q+K+V+RDPGSRAK+A
Sbjct: 181 RIKAYVQDVRQETKGPQIFLSRVDNQMLVKLFKIEVPEILEDIIQIKSVARDPGSRAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA---LRPAIVT 297
           VF+SDSSIDPVG+CVG+RG+RV+AV  EL  EKIDIV+WS D A F++NA   L P  +T
Sbjct: 241 VFASDSSIDPVGSCVGIRGNRVKAVTNELNGEKIDIVLWSNDLAQFIVNALAPLAPGEIT 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           K+++DED  ++EV+V +E  S+AIGRRGQNVRLAS+LTGW IDI+TEE++S  R ++F  
Sbjct: 301 KILIDEDRHKVEVVVSQENQSIAIGRRGQNVRLASKLTGWNIDIMTEEQESKRRNEEFVT 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
            TQ FM+A++V+E+I  LL   GF  VE++A  ++S +  IEGF+EE AVEI+ RA  Y+
Sbjct: 361 STQLFMEALDVEEVIGQLLSVTGFNSVEQIASSEVSTLTRIEGFEEELAVEIKNRAVNYV 420

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
           +  +  + KK+ +LGV +EL  I  +  ++ +   E GIKT+EDL   SV++    + N 
Sbjct: 421 DLKNEKIIKKLEDLGVEQELIDILALPLELILKFAEYGIKTIEDLGEMSVNEFKNLAPNS 480

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYK 508
                             + ++ +I  AR  
Sbjct: 481 --------------NITDENIKLLIKTARRH 497


>gi|330981089|gb|EGH79192.1| transcription elongation factor NusA [Pseudomonas syringae pv.
           aptata str. DSM 50252]
          Length = 453

 Score =  549 bits (1415), Expect = e-154,   Method: Composition-based stats.
 Identities = 191/452 (42%), Positives = 304/452 (67%), Gaps = 3/452 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + ++V+ EK +   V+   +  ++  A +  +    ++RVEIN +TG+   FR 
Sbjct: 2   SKEVLLVVESVSNEKGVPASVIFEALELALATATKKRFEDEVELRVEINRQTGNYETFRR 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVE+  +++   ++++  A+ + P    G ++ + +  ++FGR+A Q+AKQVI+QKVR
Sbjct: 62  WTVVEDEDLDDPAYELAVDQAQAKKPGAVAGDLIEEKIDSIEFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           EAER +    +++++GEIISGTVK+V   NVIVDLGN ++ ++ R++ ISRE  R G RV
Sbjct: 122 EAERAQVVDAYRERLGEIISGTVKKVTRDNVIVDLGNNAEALLAREDIISRETFRVGVRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R E RGPQ++LSRT P+ +++LF +EVPEI  G+++V A SRDPGSRAK+AV 
Sbjct: 182 RALLKEIRTENRGPQLILSRTAPEMLIELFRIEVPEIAEGLIEVMAASRDPGSRAKIAVR 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDP GAC+GMRGSRVQAV  EL  E++DIV+W  + A FVINA+ PA V  +++D
Sbjct: 242 SKDKRIDPQGACIGMRGSRVQAVSGELGGERVDIVLWDDNPAQFVINAMSPAEVAAIIVD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   +++ V  + L+ AIGR GQNVRLASQLTGWT++++TE +    +Q +  +  + F
Sbjct: 302 EDAHAMDIAVGADNLAQAIGRGGQNVRLASQLTGWTLNVMTESDIQAKQQAETGDILRNF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           ++ + VDE +A +LV EGF  +EE+A V + E+ +I+GFDE+   E++ RA++ L    I
Sbjct: 362 IEELEVDEELAQVLVDEGFTSLEEIAYVPLEEMLNIDGFDEDIVNELRARAKDRLLTKAI 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGEN 454
             ++K+ +   +E+L S+ G+D  + + L   
Sbjct: 422 ATEEKLADAHPAEDLLSLEGMDKDLAMELAVR 453


>gi|325921396|ref|ZP_08183253.1| transcription termination factor NusA [Xanthomonas gardneri ATCC
           19865]
 gi|325548154|gb|EGD19151.1| transcription termination factor NusA [Xanthomonas gardneri ATCC
           19865]
          Length = 503

 Score =  548 bits (1414), Expect = e-154,   Method: Composition-based stats.
 Identities = 203/473 (42%), Positives = 315/473 (66%), Gaps = 5/473 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFR 64
             ELL + DAVA EK + R+V+   +  ++  AA+  Y       RV I+ + G+   +R
Sbjct: 2   SKELLLVVDAVANEKGVPREVIFDAIEAALASAAKKRYPDQDVLARVTIDHKDGNYETYR 61

Query: 65  LLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             EVV +   +E+   Q+ L  A D    +D+G  + + +   DFGR+A Q+AKQVI+Q+
Sbjct: 62  RWEVVADDVVMESPDRQVRLMDAIDEADGVDVGDYIEEQIENPDFGRIAAQAAKQVIVQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGD 180
           VREAER +    +KD+VGE+I+G VKR E GN+ VDLG N++  I +D+ I R+ LRPGD
Sbjct: 122 VREAERQQVVDAWKDRVGELITGVVKRAERGNIFVDLGGNAEAFIPKDKGIPRDVLRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV+ Y+ +VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++KA +RDPG RAK+A
Sbjct: 182 RVRGYLAEVRSEPRGPQLFISRAAPEFMIELFKLEVPEVGQGLVEIKACARDPGDRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V + D+  DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  ++
Sbjct: 242 VIAHDTRTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNENPANFVINAMAPAEVQSII 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T ++ +   + +     Q
Sbjct: 302 VDEDKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTADQVAAKSEAEQTSARQ 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM  + VDE IA +LV EGF  VEE+A V + E+ ++EGFDE+   E++ RAR+ L   
Sbjct: 362 LFMDRLEVDEEIAAILVTEGFNTVEEIAYVPVGELLAVEGFDEDIVEELRARARDALLNA 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGW 473
            +  ++ +     +E+L ++ G+D +   AL E+G++T EDL+  + D+++ +
Sbjct: 422 ALAEEEGLEGTQPTEDLLALEGMDEETAFALAEHGVRTSEDLSDLAADEIVDF 474


>gi|160871616|ref|ZP_02061748.1| NusA antitermination factor [Rickettsiella grylli]
 gi|159120415|gb|EDP45753.1| NusA antitermination factor [Rickettsiella grylli]
          Length = 512

 Score =  548 bits (1414), Expect = e-154,   Method: Composition-based stats.
 Identities = 209/529 (39%), Positives = 316/529 (59%), Gaps = 37/529 (6%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
           + E+L +A+ V+ EK +D++++   +  ++  A +   G   D+R+ I+  TGD   FR 
Sbjct: 2   KKEILLVAETVSNEKDVDKELIFKAIEAALAMATKKKAGEDIDVRIAIDRRTGDYETFRT 61

Query: 66  LEVVEEV------------ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQS 113
             VV +              +    I L  A+ R P+  IG ++ + +P ++FGR+A Q+
Sbjct: 62  WTVVADEAEFNHSDEIPVSFDPLKHIQLSEAKKRHPNSQIGDIIEERMPSVEFGRIAAQT 121

Query: 114 AKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETIS 172
           AKQVIIQKVREAER +    + ++VGE++SG VKRV    +IVDLG + +  + R+E I 
Sbjct: 122 AKQVIIQKVREAERAKIAEAYTNRVGELLSGIVKRVTREGLIVDLGASVEAFVPREEMIP 181

Query: 173 RENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRD 232
           RE +R  DR++ Y+Y V  + RGPQ+L+SRT P+ +++LF +EVPEI   ++++K+ +RD
Sbjct: 182 REEIRSEDRLRGYLYAVNPQVRGPQLLMSRTRPEMLIELFKIEVPEIGEELIEIKSAARD 241

Query: 233 PGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALR 292
           PGSRAK+AV ++D  IDP+GACVGMRG+RVQAV +EL  E+IDIV+W  +    VINA+ 
Sbjct: 242 PGSRAKIAVKTNDGRIDPIGACVGMRGARVQAVSSELAGERIDIVLWDDNPVQLVINAMA 301

Query: 293 PAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
           PA V  +V+DED   ++V V ++QLS AIGR GQNVRLAS+LTGW I++IT EE +    
Sbjct: 302 PAEVASIVVDEDTKVMDVAVQEDQLSQAIGRNGQNVRLASELTGWIINVITVEEAAKKIV 361

Query: 353 KDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGR 412
           K+       F++ + +DE +A +LV EGF  +EE+A V   E+ +IEGFD      +Q R
Sbjct: 362 KESENLQNLFIEQLTIDEALAEMLVREGFTSLEEIAYVSAQELLAIEGFDSILVEMLQTR 421

Query: 413 AREYLEGIDITLQ-----KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSV 467
           A+E L     T Q     +  + L    +L S+ G+  +I   L + G+ + E LA  +V
Sbjct: 422 AKEVLALQAPTKQKSSTTEHEKFLEPHRDLLSLEGMTEEIATTLAKRGVSSREALAELAV 481

Query: 468 DDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
           DDLL   E                   +++   +I+ AR    W  +EK
Sbjct: 482 DDLLDIIE-----------------LDREKAGKLIMSARAP--WFVEEK 511


>gi|316984984|gb|EFV63938.1| transcription elongation protein nusA [Neisseria meningitidis
           H44/76]
          Length = 496

 Score =  548 bits (1412), Expect = e-153,   Method: Composition-based stats.
 Identities = 210/517 (40%), Positives = 324/517 (62%), Gaps = 30/517 (5%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLLE 67
           +LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR   
Sbjct: 1   MLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRWL 60

Query: 68  VV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           +V  E+      + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++R
Sbjct: 61  IVADEDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRIR 120

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGDR 181
           +AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R GDR
Sbjct: 121 DAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSGDR 180

Query: 182 VKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           +++    V         QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG RAK+
Sbjct: 181 IRALFLRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQRAKV 240

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V+++
Sbjct: 241 AVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEVSRI 300

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           V+DED   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T  E       +     
Sbjct: 301 VIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAIR 360

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ +  
Sbjct: 361 RLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAILT 420

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  +VD+L+  +     
Sbjct: 421 MAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELIEIT----- 473

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                       G  ++  +++I+ AR    W  ++K
Sbjct: 474 ------------GVNEETAKAVILTAREH--WFTEDK 496


>gi|293398726|ref|ZP_06642902.1| N utilization substance protein A [Neisseria gonorrhoeae F62]
 gi|59718534|gb|AAW89939.1| putative N utilisation substance protein A [Neisseria gonorrhoeae
           FA 1090]
 gi|291610866|gb|EFF39965.1| N utilization substance protein A [Neisseria gonorrhoeae F62]
          Length = 505

 Score =  548 bits (1412), Expect = e-153,   Method: Composition-based stats.
 Identities = 208/518 (40%), Positives = 325/518 (62%), Gaps = 30/518 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 9   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 68

Query: 67  EVV--EEVENYTCQISLKVARDRDPS--IDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P   I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 69  LIVADEDYTYPDVEKTIEEIQEEIPDTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 128

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R GD
Sbjct: 129 RDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSGD 188

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         Q++LSRT   F+VKL+  EVPEI +G+++++AV+RDPG RAK
Sbjct: 189 RIRALFLRVEEIGNTGRKQIILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQRAK 248

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V++
Sbjct: 249 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEVSR 308

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   ++VIV +++L+LAIGR GQNVRLAS LTGW ++I+T  E       +    
Sbjct: 309 IVIDEDKHAVDVIVAEDRLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAI 368

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ + 
Sbjct: 369 RRLFMNHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAIL 428

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + I  ++K+ E  VS+++ ++ G+D+ + ++L E GI T +DLA  +VD+L+  +    
Sbjct: 429 TMAIAAEEKLGE--VSDDMRNLEGVDADMLLSLAEAGITTRDDLAELAVDELIEIT---- 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                        G  ++  +++I+ AR    W  ++K
Sbjct: 483 -------------GVNEETAKAVILTAREH--WFTEDK 505


>gi|285017807|ref|YP_003375518.1| transcription elongation protein nusa [Xanthomonas albilineans GPE
           PC73]
 gi|283473025|emb|CBA15530.1| probable transcription elongation protein nusa [Xanthomonas
           albilineans]
          Length = 503

 Score =  548 bits (1412), Expect = e-153,   Method: Composition-based stats.
 Identities = 209/508 (41%), Positives = 320/508 (62%), Gaps = 22/508 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI--RVEINPETGDISLF 63
             ELL + DAVA EK + R+V+   +  ++  AA+  Y    D+  RV I+ + G    F
Sbjct: 2   SKELLLVVDAVANEKGVPREVIFDAIEAALASAAKKRY-PDQDVLTRVTIDHKEGSYETF 60

Query: 64  RLLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           R  EVV +   +E+   QI L  A D    +D+G  + + +   DFGR+A Q+AKQVI+Q
Sbjct: 61  RRWEVVADDVVMESPDRQIRLMDAVDEAEGVDVGDYIEEQIENPDFGRIAAQAAKQVIVQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPG 179
           +VREAER +    +KD+VGE+++G VKR E GN+ VDLG N++  I +D+ I R+ LR G
Sbjct: 121 RVREAERQQVVDAWKDRVGELVTGVVKRAERGNIYVDLGGNAEAFIPKDKGIPRDVLRAG 180

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DRV+ Y+ +VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++KA +RDPG RAK+
Sbjct: 181 DRVRGYLAEVRSEPRGPQLFISRAAPEFMIELFKLEVPEVGQGLVEIKACARDPGDRAKI 240

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV + D+  DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  +
Sbjct: 241 AVLAHDTRTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNDNPANFVINAMAPAEVQSI 300

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           ++DE+   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T E+ +   + +     
Sbjct: 301 IVDEEKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTAEQVAAKSEAEQAVAR 360

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           Q FM  + VDE IA +LVAEGF  VEE+A V + E+ ++EGFDE+   E++ RAR+ L  
Sbjct: 361 QLFMDKLEVDEEIAAILVAEGFNSVEEIAYVPVGELLAVEGFDEDIVEELRARARDALLN 420

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
             +  ++       + +L S+PG+D     AL  +G++T EDL+  + D++L +      
Sbjct: 421 EALAAEESDDGGVPAADLLSLPGMDEATAYALAGHGVRTSEDLSDLAADEILEFGIE--- 477

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARY 507
                           ++   +I+ AR 
Sbjct: 478 ------------DMDHERAAVLILAARA 493


>gi|254521780|ref|ZP_05133835.1| N utilization substance protein A [Stenotrophomonas sp. SKA14]
 gi|219719371|gb|EED37896.1| N utilization substance protein A [Stenotrophomonas sp. SKA14]
          Length = 503

 Score =  548 bits (1412), Expect = e-153,   Method: Composition-based stats.
 Identities = 203/473 (42%), Positives = 316/473 (66%), Gaps = 5/473 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI-RVEINPETGDISLFR 64
             ELL + DAVA EK + R+V+   +  ++  AA+  Y     + RV I+ + G    +R
Sbjct: 2   SKELLLVVDAVANEKGVPREVIFDAIEAALASAAKKRYPDEEVLTRVVIDHKDGSYETYR 61

Query: 65  LLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             EVV +   +E+   QI L  A D    +D+G  + + +   DFGR+A Q+AKQVI+Q+
Sbjct: 62  RWEVVADDVVMESPDRQIRLMDAVDEAEGVDVGDYIEEQIENPDFGRIAAQAAKQVIVQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGD 180
           VREAER +    +KD+VGE+I+G VKR E GN+ VDLG N++G I +D+ I R+ LR GD
Sbjct: 122 VREAERQQVVDAWKDRVGELITGVVKRAERGNIYVDLGGNAEGFIPKDKGIPRDVLRAGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV+ Y+ +VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++KA +RDPG RAK+A
Sbjct: 182 RVRGYLAEVRSEPRGPQLFISRAAPEFMIELFKLEVPEVGQGLVEIKACARDPGDRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V + D   DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  ++
Sbjct: 242 VLAHDQRTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNDNPANFVINAMAPAEVQSII 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T+++ +   + +     Q
Sbjct: 302 VDEDKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTQDQVTAKSEAEQASARQ 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM  + VDE IA +LV+EGF  VEE+A V + E+ ++EGFDE+   E++ RAR+ L   
Sbjct: 362 LFMDKLEVDEEIAGILVSEGFGTVEEIAYVPVGELLAVEGFDEDIVEELRARARDALLNE 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGW 473
            + +++ + +   +++L S+ G+D     AL  +G++T EDL+  + D+++ +
Sbjct: 422 ALAVEEGLEDGQPAQDLLSLKGMDEATAYALAGHGVRTSEDLSDLAADEVMDF 474


>gi|161572974|ref|YP_208351.2| transcription elongation factor NusA [Neisseria gonorrhoeae FA
           1090]
 gi|240014533|ref|ZP_04721446.1| transcription elongation factor NusA [Neisseria gonorrhoeae DGI18]
 gi|240121055|ref|ZP_04734017.1| transcription elongation factor NusA [Neisseria gonorrhoeae
           PID24-1]
          Length = 500

 Score =  547 bits (1411), Expect = e-153,   Method: Composition-based stats.
 Identities = 208/518 (40%), Positives = 325/518 (62%), Gaps = 30/518 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDPS--IDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P   I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 64  LIVADEDYTYPDVEKTIEEIQEEIPDTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R GD
Sbjct: 124 RDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSGD 183

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         Q++LSRT   F+VKL+  EVPEI +G+++++AV+RDPG RAK
Sbjct: 184 RIRALFLRVEEIGNTGRKQIILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQRAK 243

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V++
Sbjct: 244 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEVSR 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   ++VIV +++L+LAIGR GQNVRLAS LTGW ++I+T  E       +    
Sbjct: 304 IVIDEDKHAVDVIVAEDRLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAI 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ + 
Sbjct: 364 RRLFMNHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAIL 423

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + I  ++K+ E  VS+++ ++ G+D+ + ++L E GI T +DLA  +VD+L+  +    
Sbjct: 424 TMAIAAEEKLGE--VSDDMRNLEGVDADMLLSLAEAGITTRDDLAELAVDELIEIT---- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                        G  ++  +++I+ AR    W  ++K
Sbjct: 478 -------------GVNEETAKAVILTAREH--WFTEDK 500


>gi|325198741|gb|ADY94197.1| transcription termination/antitermination protein nusA [Neisseria
           meningitidis G2136]
          Length = 500

 Score =  547 bits (1411), Expect = e-153,   Method: Composition-based stats.
 Identities = 211/518 (40%), Positives = 325/518 (62%), Gaps = 30/518 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 64  LIVADEDYTYPDVEKTIEEIQEEIPGTAIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R GD
Sbjct: 124 RDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSGD 183

Query: 181 RVKSYIYDVRREQR--GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG RAK
Sbjct: 184 RIRALFLRVEEIGNIGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQRAK 243

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V++
Sbjct: 244 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEVSR 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T  E       +    
Sbjct: 304 IVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAI 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ + 
Sbjct: 364 RRLFMDYLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAIL 423

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  +VD+L+  +    
Sbjct: 424 TMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELIEIT---- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                        G  ++  +++I+ AR    W  ++K
Sbjct: 478 -------------GVNEETAKAVILTAREH--WFTEDK 500


>gi|110833189|ref|YP_692048.1| transcription elongation factor [Alcanivorax borkumensis SK2]
 gi|110646300|emb|CAL15776.1| transcription elongation factor [Alcanivorax borkumensis SK2]
          Length = 525

 Score =  547 bits (1410), Expect = e-153,   Method: Composition-based stats.
 Identities = 205/518 (39%), Positives = 325/518 (62%), Gaps = 24/518 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS-DIRVEINPETGDISLFR 64
             E+L +A+ V+ EK + RDV+   +  ++  A +  +     +IRV+I+ E+G+   FR
Sbjct: 25  NKEILLVAETVSNEKGVSRDVIFEAIELALAAATKKRFKQEDVEIRVDIDRESGNARSFR 84

Query: 65  LLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           +  VV  EE+  +  Q++L  A ++D S+ IG +  + +    FGR+A Q+AKQVI+QKV
Sbjct: 85  VWHVVPDEELFEFGKQLTLDEAHEQDTSLQIGDIWEEEVESEAFGRIAAQTAKQVIVQKV 144

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER +   E++D++G+++SGTVK+    ++++DLG N++ +I R+  I RE +R  DR
Sbjct: 145 REAERRQIVEEYRDRIGDLVSGTVKKASRDSIVLDLGGNAEALITREHMIPREAVRQNDR 204

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+  V  E RGPQ+  SR  P  +V+LF +EVPEI   ++++K  +RDPGSRAK+AV
Sbjct: 205 VRAYLLGVNEENRGPQLFASRACPDMLVELFKIEVPEIGEELIEIKGAARDPGSRAKIAV 264

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A  VINA++PA V  +V+
Sbjct: 265 KTNDQRIDPVGACVGMRGARVQAVSNELAGERIDIVLWDDNPAQLVINAMQPAEVASIVM 324

Query: 302 DEDVGRIEVIVPKEQ-LSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           DE+   +++ V  E  L+ AIGR GQN+RLAS+LTGW ++++T ++    ++++  +  Q
Sbjct: 325 DEESHSMDIAVEDESALAQAIGRSGQNIRLASELTGWELNVMTIDDAESKQEQEAEQALQ 384

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F+  + VDE +A +LV EGF+ +EE+A V   E+ +I+GFDEE    ++ RA++ L   
Sbjct: 385 TFINELEVDEDVAGVLVDEGFSTLEEVAYVPEEEMLAIDGFDEEIVELLRQRAKDALLTK 444

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  ++K  +   +E+L ++ G+D ++ V L    I TMEDLA  +VDDLL         
Sbjct: 445 ALVSEEKFDQAEPAEDLLNMEGMDRELAVELASRDIVTMEDLAEQAVDDLLEIE------ 498

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
                      G  +++   +I+ AR    W E E  A
Sbjct: 499 -----------GLSEERAAELIMTARAP--WFEGEDEA 523


>gi|21243417|ref|NP_642999.1| transcription elongation factor NusA [Xanthomonas axonopodis pv.
           citri str. 306]
 gi|21108968|gb|AAM37535.1| N utilization substance protein A [Xanthomonas axonopodis pv. citri
           str. 306]
          Length = 503

 Score =  547 bits (1410), Expect = e-153,   Method: Composition-based stats.
 Identities = 201/473 (42%), Positives = 315/473 (66%), Gaps = 5/473 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFR 64
             ELL + DAVA EK + R+V+   +  ++  AA+  Y       RV I+ + G    +R
Sbjct: 2   SKELLLVVDAVANEKGVPREVIFEAIEAALASAAKKRYPDQDVLARVTIDHKDGTYETYR 61

Query: 65  LLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             EVV +   +E+   Q+ L  A D    +++G  + + +   DFGR+A Q+AKQVI+Q+
Sbjct: 62  RWEVVADDVVMESPDRQVRLMDAIDEADGVEVGDYIEEQIENPDFGRIAAQAAKQVIVQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGD 180
           VREAER +    +KD+VGE+I+G VKR E GN+ VDLG N++  I +D+ I R+ LRPGD
Sbjct: 122 VREAERQQVVDAWKDRVGELITGVVKRAERGNIFVDLGGNAEAFIPKDKGIPRDVLRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV+ Y+ +VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++KA +RDPG RAK+A
Sbjct: 182 RVRGYLAEVRSEPRGPQLFVSRAAPEFMIELFKLEVPEVGQGLVEIKACARDPGDRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V + D+  DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  ++
Sbjct: 242 VIAHDARTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNENPANFVINAMAPAEVQSII 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T ++ +   + +     Q
Sbjct: 302 VDEDKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTADQVAAKSEAEQAAARQ 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM  + VDE I+ +LV+EGF  VEE+A V + E+ ++EGFDE+   E++ RAR+ L   
Sbjct: 362 LFMDRLEVDEEISAILVSEGFNTVEEIAYVPVGELLAVEGFDEDIVEELRARARDALLNA 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGW 473
            +  ++ +     +E+L ++ G+D +   AL E+G++T EDL+  + D+++ +
Sbjct: 422 ALAEEEGLEGTQPTEDLLALEGMDEETAFALAEHGVRTSEDLSDLAADEIVDF 474


>gi|325915554|ref|ZP_08177865.1| transcription termination factor NusA [Xanthomonas vesicatoria ATCC
           35937]
 gi|325538270|gb|EGD09955.1| transcription termination factor NusA [Xanthomonas vesicatoria ATCC
           35937]
          Length = 503

 Score =  546 bits (1409), Expect = e-153,   Method: Composition-based stats.
 Identities = 203/474 (42%), Positives = 318/474 (67%), Gaps = 7/474 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI--RVEINPETGDISLF 63
             ELL + DAVA EK + R+V+   +  ++  AA+  Y    D+  RV I+ + G+   F
Sbjct: 2   SKELLLVVDAVANEKGVPREVIFDAIEAALASAAKKRY-PDQDVLTRVTIDHKDGNYETF 60

Query: 64  RLLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           R  EVV +   +E+   Q+ L  A D    +++G  + + +   DFGR+A Q+AKQVI+Q
Sbjct: 61  RRWEVVADDVVMESPDRQVRLMDAIDEADGVEVGDYIEEQIENPDFGRIAAQAAKQVIVQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPG 179
           +VREAER +    +KD+VGE+I+G VKR E GN+ VDLG N++  I +D+ I R+ LRPG
Sbjct: 121 RVREAERQQVVDAWKDRVGELITGVVKRAERGNIFVDLGGNAEAFIPKDKGIPRDVLRPG 180

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DRV+ Y+ +VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++KA +RDPG RAK+
Sbjct: 181 DRVRGYLAEVRSEPRGPQLFISRAAPEFMIELFKLEVPEVGQGLVEIKACARDPGDRAKI 240

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV + D+  DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  +
Sbjct: 241 AVIAHDTRTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNENPANFVINAMAPAEVQSI 300

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           ++DED   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T ++ +   + +     
Sbjct: 301 IVDEDKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTADQVAAKSEAEQASAR 360

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           Q FM  + VDE I+ +LV+EGF  VEE+A V + E+ ++EGFDE+   E++ RAR+ L  
Sbjct: 361 QLFMDRLEVDEEISAILVSEGFNTVEEIAYVPVGELLAVEGFDEDIVEELRARARDALLN 420

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGW 473
             +  ++ +     +E+L ++ G+D +   AL E+G++T EDL+  + D+++ +
Sbjct: 421 AALAEEEGLEGTQPTEDLLALEGMDEETAFALAEHGVRTSEDLSDLAADEIVDF 474


>gi|21231945|ref|NP_637862.1| transcription elongation factor NusA [Xanthomonas campestris pv.
           campestris str. ATCC 33913]
 gi|188991044|ref|YP_001903054.1| transcription elongation factor NusA [Xanthomonas campestris pv.
           campestris str. B100]
 gi|21113674|gb|AAM41786.1| N utilization substance protein A [Xanthomonas campestris pv.
           campestris str. ATCC 33913]
 gi|167732804|emb|CAP50998.1| N utilization substance (transcription elongation) protein A
           [Xanthomonas campestris pv. campestris]
          Length = 503

 Score =  546 bits (1409), Expect = e-153,   Method: Composition-based stats.
 Identities = 204/474 (43%), Positives = 318/474 (67%), Gaps = 7/474 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI--RVEINPETGDISLF 63
             ELL + DAVA EK + R+V+   +  ++  AA+  Y    D+  RV I+ + G+   F
Sbjct: 2   SKELLLVVDAVANEKGVPREVIFDAIEAALASAAKKRY-PDQDVLTRVTIDHKDGNYETF 60

Query: 64  RLLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           R  EVV +   +E+   Q+ L  A +    +D+G  V + +   DFGR+A Q+AKQVI+Q
Sbjct: 61  RRWEVVADDVVMESPDRQVRLMDAIEEADGVDVGDYVEEQIENPDFGRIAAQAAKQVIVQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPG 179
           +VREAER +    +KD+VGE+I+G VKR E GN+ VDLG N++  I +D+ I R+ LRPG
Sbjct: 121 RVREAERQQVVDAWKDRVGELITGVVKRAERGNIFVDLGGNAEAFIPKDKGIPRDVLRPG 180

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DRV+ Y+ +VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++KA +RDPG RAK+
Sbjct: 181 DRVRGYLAEVRSEPRGPQLFISRAAPEFMIELFKLEVPEVGQGLVEIKACARDPGDRAKI 240

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV + D+  DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  +
Sbjct: 241 AVIAHDTRTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNENPANFVINAMAPAEVQSI 300

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           ++DED   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T ++ +   + +     
Sbjct: 301 IVDEDKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTADQVAAKSEAEQASAR 360

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           Q FM  + VDE I+ +LV+EGF  VEE+A V + E+ ++EGFDE+   E++ RAR+ L  
Sbjct: 361 QLFMDRLEVDEEISAILVSEGFNTVEEIAYVPVGELLAVEGFDEDIVEELRARARDALLN 420

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGW 473
             +  ++ +     +E+L ++ G+D +   AL E+G++T EDL+  + D+++ +
Sbjct: 421 AALAEEEGLEGTQPTEDLLALEGMDEETAFALAEHGVRTSEDLSDLAADEIVDF 474


>gi|309378387|emb|CBX22988.1| unnamed protein product [Neisseria lactamica Y92-1009]
          Length = 496

 Score =  546 bits (1409), Expect = e-153,   Method: Composition-based stats.
 Identities = 208/517 (40%), Positives = 323/517 (62%), Gaps = 30/517 (5%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLLE 67
           +LQ+A+A+A EK++D +VV   +  ++  AA+   G    D+RV+I+ +TG+   FR   
Sbjct: 1   MLQLAEALASEKNVDAEVVFQALEFALSTAAKKKAGREHMDVRVQIDRDTGEYQTFRRWL 60

Query: 68  VV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           +V  E+      + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++R
Sbjct: 61  IVADEDYTYPDIEKTIEEIQEEIPGTAIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRIR 120

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGDR 181
           +AER++   EF     +I++GTVKRVE   +IV++  G  D +I RD++I REN R GDR
Sbjct: 121 DAEREQNLNEFLATREDIVTGTVKRVERHGIIVEVVAGKLDALIPRDQSIPRENFRSGDR 180

Query: 182 VKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           +++    V         QV+LSRT   F+ KL+  EVPEI +G+++++AV+RDPG RAK+
Sbjct: 181 IRALFQRVEEIGNTGRKQVILSRTSADFLAKLYANEVPEISDGLLEIRAVARDPGQRAKV 240

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP  A FV++AL PA V+++
Sbjct: 241 AVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPKPAQFVMSALSPAEVSRI 300

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           V+DED   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T  E       +     
Sbjct: 301 VIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAIR 360

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ +  
Sbjct: 361 RLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAILT 420

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           + I  ++K+ E  VS+++ ++ G+D+ +   L E GI T +DLA  SVD+L+  +     
Sbjct: 421 MAIAAEEKLGE--VSDDMRNLEGVDADMLRNLAEAGITTRDDLAELSVDELIEIT----- 473

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                       G  ++  +++I+ AR    W  ++K
Sbjct: 474 ------------GIDEETAKAVILTAREH--WFTEDK 496


>gi|161870486|ref|YP_001599658.1| transcription elongation factor NusA [Neisseria meningitidis
           053442]
 gi|161596039|gb|ABX73699.1| N utilisation substance protein A [Neisseria meningitidis 053442]
          Length = 496

 Score =  546 bits (1409), Expect = e-153,   Method: Composition-based stats.
 Identities = 210/517 (40%), Positives = 325/517 (62%), Gaps = 30/517 (5%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLLE 67
           +LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR   
Sbjct: 1   MLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRWL 60

Query: 68  VV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           +V  E+      + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++R
Sbjct: 61  IVADEDYTYPDVEKTIEEIQEEIPGIAIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRIR 120

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGDR 181
           +AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R GDR
Sbjct: 121 DAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSGDR 180

Query: 182 VKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           +++    V         QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG RAK+
Sbjct: 181 IRALFLRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQRAKV 240

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V+++
Sbjct: 241 AVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEVSRI 300

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           V+DED   ++VIV ++QL+LAIGR GQNVRLAS+LTGW ++I+T  E       +     
Sbjct: 301 VIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASELTGWQLNIMTSAEADERNAAEDAAIR 360

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ +  
Sbjct: 361 RLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAILT 420

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  +VD+L+  +     
Sbjct: 421 MAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELIEIT----- 473

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                       G  ++  +++I+ AR    W  ++K
Sbjct: 474 ------------GVNEETAKAVILTAREH--WFTEDK 496


>gi|261400895|ref|ZP_05987020.1| transcription termination/antitermination protein NusA [Neisseria
           lactamica ATCC 23970]
 gi|269209254|gb|EEZ75709.1| transcription termination/antitermination protein NusA [Neisseria
           lactamica ATCC 23970]
          Length = 500

 Score =  546 bits (1409), Expect = e-153,   Method: Composition-based stats.
 Identities = 208/518 (40%), Positives = 325/518 (62%), Gaps = 30/518 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+   G    D+RV+I+ +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKAGREHMDVRVQIDRDTGEYQTFRRW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 64  LIVADEDYTYPDVEKTIEEIQEEIPGTAIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I++GTVKRVE   +IV++  G  D +I RD++I REN R GD
Sbjct: 124 RDAEREQNLNEFLATREDIVAGTVKRVERHGIIVEVVAGKLDALIPRDQSIPRENFRSGD 183

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         QV+LSRT   F+ KL+  EVPEI +G++++++V+RDPG RAK
Sbjct: 184 RIRALFQRVEEIGNTGRKQVILSRTSADFLAKLYANEVPEISDGLLEIRSVARDPGQRAK 243

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V++
Sbjct: 244 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEVSR 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T  E       +    
Sbjct: 304 IVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAI 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ + 
Sbjct: 364 RRLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAIL 423

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + I  ++K+ E  VS+++ ++ G+D+ +   L E GI T +DLA  SVD+L+  +    
Sbjct: 424 TMAIAAEEKLGE--VSDDMRNLEGVDADMLRNLAEAGITTRDDLAELSVDELIEIT---- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                        G  ++  +++I+ AR    W  ++K
Sbjct: 478 -------------GIDEETAKAVILTAREH--WFTEDK 500


>gi|190575263|ref|YP_001973108.1| transcription elongation factor NusA [Stenotrophomonas maltophilia
           K279a]
 gi|190013185|emb|CAQ46818.1| putative N utilization substance protein A [Stenotrophomonas
           maltophilia K279a]
          Length = 503

 Score =  546 bits (1409), Expect = e-153,   Method: Composition-based stats.
 Identities = 204/473 (43%), Positives = 316/473 (66%), Gaps = 5/473 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI-RVEINPETGDISLFR 64
             ELL + DAVA EK + R+V+   +  ++  AA+  Y     + RV I+ + G    FR
Sbjct: 2   SKELLLVVDAVANEKGVPREVIFDAIEAALASAAKKRYPDEEVLTRVVIDHKDGSYETFR 61

Query: 65  LLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             EVV +   +E+   QI L  A D    +D+G  + + +   DFGR+A Q+AKQVI+Q+
Sbjct: 62  RWEVVADDVVMESPDRQIRLMDAVDEAEGVDVGDYIEEQIENPDFGRIAAQAAKQVIVQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGD 180
           VREAER +    +KD+VGE+I+G VKR E GN+ VDLG N++G I +D+ I R+ LR GD
Sbjct: 122 VREAERQQVVDAWKDRVGELITGVVKRAERGNIYVDLGGNAEGFIPKDKGIPRDVLRAGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV+ Y+ +VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++KA +RDPG RAK+A
Sbjct: 182 RVRGYLAEVRSEPRGPQLFISRAAPEFMIELFKLEVPEVGQGLVEIKACARDPGDRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V + D   DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  ++
Sbjct: 242 VLAQDQRTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNDNPANFVINAMAPAEVQSII 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T+++ +   + +     Q
Sbjct: 302 VDEDKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTQDQVTAKSEAEQASARQ 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM  + VDE IA +LV+EGF  VEE+A V + E+ ++EGFDE+   E++ RAR+ L   
Sbjct: 362 LFMDKLEVDEEIAGILVSEGFGTVEEIAYVPVGELLAVEGFDEDIVEELRARARDALLNE 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGW 473
            + +++ + +   +++L S+ G+D     AL  +G++T EDL+  + D+++ +
Sbjct: 422 ALAVEEGLEDGQPAQDLLSLKGMDEATAYALAGHGVRTSEDLSDLAADEVMDF 474


>gi|268597521|ref|ZP_06131688.1| transcription elongation factor NusA [Neisseria gonorrhoeae FA19]
 gi|268601718|ref|ZP_06135885.1| transcription elongation factor NusA [Neisseria gonorrhoeae PID18]
 gi|268604051|ref|ZP_06138218.1| transcription elongation factor NusA [Neisseria gonorrhoeae PID1]
 gi|268682510|ref|ZP_06149372.1| transcription elongation factor NusA [Neisseria gonorrhoeae PID332]
 gi|268686952|ref|ZP_06153814.1| transcription elongation factor NusA [Neisseria gonorrhoeae
           SK-93-1035]
 gi|268551309|gb|EEZ46328.1| transcription elongation factor NusA [Neisseria gonorrhoeae FA19]
 gi|268585849|gb|EEZ50525.1| transcription elongation factor NusA [Neisseria gonorrhoeae PID18]
 gi|268588182|gb|EEZ52858.1| transcription elongation factor NusA [Neisseria gonorrhoeae PID1]
 gi|268622794|gb|EEZ55194.1| transcription elongation factor NusA [Neisseria gonorrhoeae PID332]
 gi|268627236|gb|EEZ59636.1| transcription elongation factor NusA [Neisseria gonorrhoeae
           SK-93-1035]
          Length = 503

 Score =  546 bits (1409), Expect = e-153,   Method: Composition-based stats.
 Identities = 208/518 (40%), Positives = 324/518 (62%), Gaps = 30/518 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 7   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 66

Query: 67  EVV--EEVENYTCQISLKVARDRDPS--IDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P   I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 67  LIVADEDYTYPDVEKTIEEIQEEIPDTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 126

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R GD
Sbjct: 127 RDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSGD 186

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         Q++LSRT   F+VKL+  EVPEI  G+++++AV+RDPG RAK
Sbjct: 187 RIRALFLRVEEIGNTGRKQIILSRTSGDFLVKLYANEVPEIAGGMLEIRAVARDPGQRAK 246

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V++
Sbjct: 247 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEVSR 306

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   ++VIV +++L+LAIGR GQNVRLAS LTGW ++I+T  E       +    
Sbjct: 307 IVIDEDKHAVDVIVAEDRLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAI 366

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ + 
Sbjct: 367 RRLFMNHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAIL 426

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + I  ++K+ E  VS+++ ++ G+D+ + ++L E GI T +DLA  +VD+L+  +    
Sbjct: 427 TMAIAAEEKLGE--VSDDMRNLEGVDADMLLSLAEAGITTRDDLAELAVDELIEIT---- 480

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                        G  ++  +++I+ AR    W  ++K
Sbjct: 481 -------------GVNEETAKAVILTAREH--WFTEDK 503


>gi|289665188|ref|ZP_06486769.1| transcription elongation factor NusA [Xanthomonas campestris pv.
           vasculorum NCPPB702]
 gi|289667364|ref|ZP_06488439.1| transcription elongation factor NusA [Xanthomonas campestris pv.
           musacearum NCPPB4381]
          Length = 503

 Score =  546 bits (1408), Expect = e-153,   Method: Composition-based stats.
 Identities = 202/473 (42%), Positives = 315/473 (66%), Gaps = 5/473 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFR 64
             ELL + DAVA EK + R+V+   +  ++  AA+  Y       RV I+ + G    +R
Sbjct: 2   SKELLLVVDAVANEKGVPREVIFDAIEAALASAAKKRYPDQDVLARVTIDHKDGTYETYR 61

Query: 65  LLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             EVV +   +E+   Q+ L  A D    +D+G  + + +   DFGR+A Q+AKQVI+Q+
Sbjct: 62  RWEVVADDVVMESPDRQVRLMDAIDEADGVDVGDYIEEQIENPDFGRIAAQAAKQVIVQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGD 180
           VREAER +    +KD+VGE+I+G VKR E GN+ VDLG N++  I +D+ I R+ LRPGD
Sbjct: 122 VREAERQQVVDAWKDRVGELITGVVKRAERGNIFVDLGGNAEAFIPKDKGIPRDVLRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV+ Y+ +VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++KA +RDPG RAK+A
Sbjct: 182 RVRGYLAEVRSEPRGPQLFISRAAPEFMIELFKLEVPEVGQGLVEIKACARDPGDRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V + D+  DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  ++
Sbjct: 242 VIAHDTRTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNENPANFVINAMAPAEVQSII 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T ++ +   + +     Q
Sbjct: 302 VDEDKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTADQVAAKSEAEQAAARQ 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM  + VDE I+ +LV+EGF  VEE+A V + E+ ++EGFDE+   E++ RAR+ L   
Sbjct: 362 LFMDRLEVDEEISAILVSEGFNTVEEIAYVPVGELLAVEGFDEDIVEELRARARDALLNA 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGW 473
            +  ++ +     +E+L ++ G+D +   AL E+G++T EDL+  + D+++ +
Sbjct: 422 ALAEEEGLEGTQPTEDLLALEGMDEETAFALAEHGVRTSEDLSDLAADEIVDF 474


>gi|194099046|ref|YP_002002127.1| transcription elongation factor NusA [Neisseria gonorrhoeae
           NCCP11945]
 gi|254494079|ref|ZP_05107250.1| transcription elongation factor NusA [Neisseria gonorrhoeae 1291]
 gi|268595172|ref|ZP_06129339.1| transcription elongation factor NusA [Neisseria gonorrhoeae 35/02]
 gi|268599676|ref|ZP_06133843.1| transcription elongation factor NusA [Neisseria gonorrhoeae MS11]
 gi|268684674|ref|ZP_06151536.1| transcription elongation factor NusA [Neisseria gonorrhoeae
           SK-92-679]
 gi|193934336|gb|ACF30160.1| transcription elongation factor NusA [Neisseria gonorrhoeae
           NCCP11945]
 gi|226513119|gb|EEH62464.1| transcription elongation factor NusA [Neisseria gonorrhoeae 1291]
 gi|268548561|gb|EEZ43979.1| transcription elongation factor NusA [Neisseria gonorrhoeae 35/02]
 gi|268583807|gb|EEZ48483.1| transcription elongation factor NusA [Neisseria gonorrhoeae MS11]
 gi|268624958|gb|EEZ57358.1| transcription elongation factor NusA [Neisseria gonorrhoeae
           SK-92-679]
 gi|317164606|gb|ADV08147.1| transcription elongation factor NusA [Neisseria gonorrhoeae
           TCDC-NG08107]
          Length = 503

 Score =  546 bits (1407), Expect = e-153,   Method: Composition-based stats.
 Identities = 209/518 (40%), Positives = 324/518 (62%), Gaps = 30/518 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 7   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 66

Query: 67  EVV--EEVENYTCQISLKVARDRDPS--IDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P   I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 67  LIVADEDYTYPDVEKTIEEIQEEIPDTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 126

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R GD
Sbjct: 127 RDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSGD 186

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         QV+LSRT   F+VKL+  EVPEI  G+++++AV+RDPG RAK
Sbjct: 187 RIRALFLRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIAGGMLEIRAVARDPGQRAK 246

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V++
Sbjct: 247 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEVSR 306

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   ++VIV +++L+LAIGR GQNVRLAS LTGW ++I+T  E       +    
Sbjct: 307 IVIDEDKHAVDVIVAEDRLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAI 366

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ + 
Sbjct: 367 RRLFMNHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAIL 426

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + I  ++K+ E  VS+++ ++ G+D+ + ++L E GI T +DLA  +VD+L+  +    
Sbjct: 427 TMAIAAEEKLGE--VSDDMRNLEGVDADMLLSLAEAGITTRDDLAELAVDELIEIT---- 480

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                        G  ++  +++I+ AR    W  ++K
Sbjct: 481 -------------GVNEETAKAVILTAREH--WFTEDK 503


>gi|78048394|ref|YP_364569.1| transcription elongation factor NusA [Xanthomonas campestris pv.
           vesicatoria str. 85-10]
 gi|294666762|ref|ZP_06731996.1| transcription elongation factor NusA [Xanthomonas fuscans subsp.
           aurantifolii str. ICPB 10535]
 gi|325924690|ref|ZP_08186128.1| transcription termination factor NusA [Xanthomonas perforans
           91-118]
 gi|78036824|emb|CAJ24517.1| N utilization substance (transcription elongation) protein A
           [Xanthomonas campestris pv. vesicatoria str. 85-10]
 gi|292603423|gb|EFF46840.1| transcription elongation factor NusA [Xanthomonas fuscans subsp.
           aurantifolii str. ICPB 10535]
 gi|325544896|gb|EGD16241.1| transcription termination factor NusA [Xanthomonas perforans
           91-118]
          Length = 503

 Score =  546 bits (1407), Expect = e-153,   Method: Composition-based stats.
 Identities = 201/473 (42%), Positives = 315/473 (66%), Gaps = 5/473 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFR 64
             ELL + DAVA EK + R+V+   +  ++  AA+  Y       RV I+ + G    +R
Sbjct: 2   SKELLLVVDAVANEKGVPREVIFEAIEAALASAAKKRYPDQDVLARVTIDHKDGTYETYR 61

Query: 65  LLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             EVV +   +E+   Q+ L  A D    +++G  + + +   DFGR+A Q+AKQVI+Q+
Sbjct: 62  RWEVVADDVVMESPDRQVRLMDAIDEADGVEVGDYIEEQIENPDFGRIAAQAAKQVIVQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGD 180
           VREAER +    +KD+VGE+I+G VKR E GN+ VDLG N++  I +D+ I R+ LRPGD
Sbjct: 122 VREAERQQVVDAWKDRVGELITGVVKRAERGNIFVDLGGNAEAFIPKDKGIPRDVLRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV+ Y+ +VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++KA +RDPG RAK+A
Sbjct: 182 RVRGYLAEVRSEPRGPQLFISRAAPEFMIELFKLEVPEVGQGLVEIKACARDPGDRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V + D+  DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  ++
Sbjct: 242 VIAHDARTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNENPANFVINAMAPAEVQSII 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T ++ +   + +     Q
Sbjct: 302 VDEDKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTADQVAAKSEAEQAAARQ 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM  + VDE I+ +LV+EGF  VEE+A V + E+ ++EGFDE+   E++ RAR+ L   
Sbjct: 362 LFMDRLEVDEEISAILVSEGFNTVEEIAYVPVGELLAVEGFDEDIVEELRARARDALLNA 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGW 473
            +  ++ +     +E+L ++ G+D +   AL E+G++T EDL+  + D+++ +
Sbjct: 422 ALAEEEGLEGTQPTEDLLALEGMDEETAFALAEHGVRTSEDLSDLAADEIVDF 474


>gi|313667982|ref|YP_004048266.1| N utilisation substance protein A [Neisseria lactamica ST-640]
 gi|313005444|emb|CBN86879.1| N utilisation substance protein A [Neisseria lactamica 020-06]
          Length = 500

 Score =  546 bits (1407), Expect = e-153,   Method: Composition-based stats.
 Identities = 209/518 (40%), Positives = 325/518 (62%), Gaps = 30/518 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+   G    D+RV+I+ +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKAGREHMDVRVQIDRDTGEYQTFRRW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 64  LIVADEDYTYPDVEKTIEEIQEEIPGTAIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I++GTVKRVE   +IV++  G  D +I RD++I REN R GD
Sbjct: 124 RDAEREQNLNEFLATREDIVAGTVKRVERHGIIVEVVAGKLDALIPRDQSIPRENFRSGD 183

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         QV+LSRT   F+ KL+  EVPEI +G++++++V+RDPG RAK
Sbjct: 184 RIRALFQRVEEIGNTGRKQVILSRTSADFLAKLYANEVPEISDGLLEIRSVARDPGQRAK 243

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V++
Sbjct: 244 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEVSR 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T  E       +    
Sbjct: 304 IVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAI 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ + 
Sbjct: 364 RRLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAIL 423

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + I  ++K+ E  VSE++ ++ G+D+ +   L E GI T +DLA  SVD+L+  +    
Sbjct: 424 TMAIAAEEKLGE--VSEDMRNLEGVDADMLRNLAEAGITTRDDLAELSVDELIEIT---- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                        G  ++  +++I+ AR    W  ++K
Sbjct: 478 -------------GIDEETAKAVILTAREH--WFTEDK 500


>gi|291043424|ref|ZP_06569145.1| transcription elongation factor NusA [Neisseria gonorrhoeae DGI2]
 gi|291012660|gb|EFE04645.1| transcription elongation factor NusA [Neisseria gonorrhoeae DGI2]
          Length = 505

 Score =  545 bits (1406), Expect = e-153,   Method: Composition-based stats.
 Identities = 208/518 (40%), Positives = 324/518 (62%), Gaps = 30/518 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 9   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 68

Query: 67  EVV--EEVENYTCQISLKVARDRDPS--IDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P   I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 69  LIVADEDYTYPDVEKTIEEIQEEIPDTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 128

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R GD
Sbjct: 129 RDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSGD 188

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         Q++LSRT   F+VKL+  EVPEI  G+++++AV+RDPG RAK
Sbjct: 189 RIRALFLRVEEIGNTGRKQIILSRTSGDFLVKLYANEVPEIAGGMLEIRAVARDPGQRAK 248

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V++
Sbjct: 249 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEVSR 308

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   ++VIV +++L+LAIGR GQNVRLAS LTGW ++I+T  E       +    
Sbjct: 309 IVIDEDKHAVDVIVAEDRLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAI 368

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ + 
Sbjct: 369 RRLFMNHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAIL 428

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + I  ++K+ E  VS+++ ++ G+D+ + ++L E GI T +DLA  +VD+L+  +    
Sbjct: 429 TMAIAAEEKLGE--VSDDMRNLEGVDADMLLSLAEAGITTRDDLAELAVDELIEIT---- 482

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                        G  ++  +++I+ AR    W  ++K
Sbjct: 483 -------------GVNEETAKAVILTAREH--WFTEDK 505


>gi|240016979|ref|ZP_04723519.1| transcription elongation factor NusA [Neisseria gonorrhoeae FA6140]
 gi|240081421|ref|ZP_04725964.1| transcription elongation factor NusA [Neisseria gonorrhoeae FA19]
 gi|240116051|ref|ZP_04730113.1| transcription elongation factor NusA [Neisseria gonorrhoeae PID18]
 gi|240118338|ref|ZP_04732400.1| transcription elongation factor NusA [Neisseria gonorrhoeae PID1]
 gi|240123886|ref|ZP_04736842.1| transcription elongation factor NusA [Neisseria gonorrhoeae PID332]
 gi|240128559|ref|ZP_04741220.1| transcription elongation factor NusA [Neisseria gonorrhoeae
           SK-93-1035]
 gi|260440135|ref|ZP_05793951.1| transcription elongation factor NusA [Neisseria gonorrhoeae DGI2]
          Length = 500

 Score =  545 bits (1405), Expect = e-153,   Method: Composition-based stats.
 Identities = 208/518 (40%), Positives = 324/518 (62%), Gaps = 30/518 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDPS--IDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P   I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 64  LIVADEDYTYPDVEKTIEEIQEEIPDTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R GD
Sbjct: 124 RDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSGD 183

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         Q++LSRT   F+VKL+  EVPEI  G+++++AV+RDPG RAK
Sbjct: 184 RIRALFLRVEEIGNTGRKQIILSRTSGDFLVKLYANEVPEIAGGMLEIRAVARDPGQRAK 243

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V++
Sbjct: 244 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEVSR 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   ++VIV +++L+LAIGR GQNVRLAS LTGW ++I+T  E       +    
Sbjct: 304 IVIDEDKHAVDVIVAEDRLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAI 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ + 
Sbjct: 364 RRLFMNHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAIL 423

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + I  ++K+ E  VS+++ ++ G+D+ + ++L E GI T +DLA  +VD+L+  +    
Sbjct: 424 TMAIAAEEKLGE--VSDDMRNLEGVDADMLLSLAEAGITTRDDLAELAVDELIEIT---- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                        G  ++  +++I+ AR    W  ++K
Sbjct: 478 -------------GVNEETAKAVILTAREH--WFTEDK 500


>gi|166712599|ref|ZP_02243806.1| transcription elongation factor NusA [Xanthomonas oryzae pv.
           oryzicola BLS256]
          Length = 503

 Score =  545 bits (1405), Expect = e-153,   Method: Composition-based stats.
 Identities = 202/473 (42%), Positives = 316/473 (66%), Gaps = 5/473 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFR 64
             ELL + DAVA EK + R+V+   +  ++  AA+  Y       RV I+ + G    +R
Sbjct: 2   SKELLLVVDAVANEKGVPREVIFDAIEAALASAAKKRYPDQDVLARVTIDHKDGTYETYR 61

Query: 65  LLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             EVV +   +E+   Q+ L  A D    +D+G  + + +   DFGR+A Q+AKQVI+Q+
Sbjct: 62  RWEVVADDVVMESPDRQVRLMDAIDEADGVDVGDYIEEQIENPDFGRIAAQAAKQVIVQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGD 180
           VREAER +    +KD+VGE+I+G VKR E GN+ VDLG N++  I +D+ I R+ LRPGD
Sbjct: 122 VREAERQQVVDAWKDRVGELITGVVKRAERGNIFVDLGGNAEAFIPKDKGIPRDVLRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV+ Y+ +VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++KA +RDPG RAK+A
Sbjct: 182 RVRGYLAEVRSEPRGPQLFISRAAPEFMIELFKLEVPEVGQGLVEIKACARDPGDRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V + D+  DP+GAC+GMRGSRVQA+  EL  E++DIV+W+ + A FVINA+ PA V  ++
Sbjct: 242 VIAHDARTDPIGACIGMRGSRVQAISNELNGERVDIVLWNENPANFVINAMAPAEVQSII 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T ++ +   + +     Q
Sbjct: 302 VDEDKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTADQVAAKSEAEQAAARQ 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM  + VDE I+ +LV+EGF  VEE+A V + E+ ++EGFDE+   E++ RAR+ L   
Sbjct: 362 LFMDRLEVDEEISAILVSEGFNTVEEIAYVPVGELLAVEGFDEDIVEELRARARDALLNA 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGW 473
            +  ++ +     +E+L ++ G+D +  VAL E+G++T EDL+  + D+++ +
Sbjct: 422 ALAEEEGLEGTQPTEDLLALEGMDEETAVALAEHGVRTSEDLSDLAADEIVDF 474


>gi|194366589|ref|YP_002029199.1| transcription elongation factor NusA [Stenotrophomonas maltophilia
           R551-3]
 gi|194349393|gb|ACF52516.1| NusA antitermination factor [Stenotrophomonas maltophilia R551-3]
          Length = 503

 Score =  545 bits (1405), Expect = e-153,   Method: Composition-based stats.
 Identities = 203/473 (42%), Positives = 316/473 (66%), Gaps = 5/473 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI-RVEINPETGDISLFR 64
             ELL + DAVA EK + R+V+   +  ++  AA+  Y     + RV I+ + G    FR
Sbjct: 2   SKELLLVVDAVANEKGVPREVIFDAIEAALASAAKKRYPDEEVLTRVVIDHKDGSYETFR 61

Query: 65  LLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             EVV +   +E+   QI L  A D    +D+G  + + +   DFGR+A Q+AKQVI+Q+
Sbjct: 62  RWEVVADDVVMESPDRQIRLMDAVDEAEGVDVGDYIEEQIENPDFGRIAAQAAKQVIVQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGD 180
           VREAER +    +KD+VGE+I+G VKR E GN+ VDLG N++G I +D+ I R+ LR GD
Sbjct: 122 VREAERQQVVDAWKDRVGELITGVVKRAERGNIYVDLGGNAEGFIPKDKGIPRDVLRAGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV+ Y+ +VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++KA +RDPG RAK+A
Sbjct: 182 RVRGYLAEVRSEPRGPQLFISRAAPEFMIELFKLEVPEVGQGLVEIKACARDPGDRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V + D   DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  ++
Sbjct: 242 VLAHDQRTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNDNPANFVINAMAPAEVQSII 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T+++ +   + +     Q
Sbjct: 302 VDEDKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTQDQVTAKSEAEQASARQ 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM  + VDE IA +LV+EGF  VEE+A V + E+ ++EGFDE+   E++ RAR+ L   
Sbjct: 362 LFMDKLEVDEEIAGILVSEGFGTVEEIAYVPVGELLAVEGFDEDIVEELRARARDALLNE 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGW 473
            + +++ + +   +++L S+ G+D     AL  +G++T E+L+  + D+++ +
Sbjct: 422 ALAVEEGLEDGQPAQDLLSLKGMDEATAYALAGHGVRTSEELSDLAADEVMDF 474


>gi|66767928|ref|YP_242690.1| transcription elongation factor NusA [Xanthomonas campestris pv.
           campestris str. 8004]
 gi|66573260|gb|AAY48670.1| N utilization substance protein A [Xanthomonas campestris pv.
           campestris str. 8004]
          Length = 503

 Score =  545 bits (1405), Expect = e-153,   Method: Composition-based stats.
 Identities = 204/474 (43%), Positives = 318/474 (67%), Gaps = 7/474 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI--RVEINPETGDISLF 63
             ELL + DAVA EK + R+V+   +  ++  AA+  Y    D+  RV I+ + G+   F
Sbjct: 2   SKELLLVVDAVANEKGVPREVIFDAIEAALASAAKKRY-PDQDVLTRVTIDHKDGNYETF 60

Query: 64  RLLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           R  EVV +   +E+   Q+ L  A +    +D+G  V + +   DFGR+A Q+AKQVI+Q
Sbjct: 61  RRWEVVADDVVMESPDRQVRLMDAIEEADGVDVGDYVEEQIENPDFGRIAAQAAKQVIVQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPG 179
           +VREAER +    +KD+VGE+I+G VKR E GN+ VDLG N++  I +D+ I R+ LRPG
Sbjct: 121 RVREAERQQVVDAWKDRVGELITGVVKRAERGNIFVDLGGNAEAFIPKDKGIPRDVLRPG 180

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DRV+ Y+ +VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++KA +RDPG RAK+
Sbjct: 181 DRVRGYLAEVRSEPRGPQLFISRAAPEFMIELFKLEVPEVGQGLVEIKACARDPGDRAKI 240

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV + D+  DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  +
Sbjct: 241 AVIAHDTRTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNENPANFVINAMAPAEVQSI 300

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           ++DED   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T ++ +   + +     
Sbjct: 301 IVDEDKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTADQVAAKSEAEQASAR 360

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           Q FM  + VDE I+ +LV+EGF  VEE+A V + E+ ++EGFDE+   E++ RAR+ L  
Sbjct: 361 QLFMDRLEVDEEISAILVSEGFNTVEEIAYVPVGELLAVEGFDEDIVEELRARARDALVN 420

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGW 473
             +  ++ +     +E+L ++ G+D +   AL E+G++T EDL+  + D+++ +
Sbjct: 421 AALAEEEGLEGTQPTEDLLALEGMDEETAFALAEHGVRTSEDLSDLAADEIVDF 474


>gi|304414228|ref|ZP_07395596.1| transcription termination/antitermination L factor [Candidatus
           Regiella insecticola LSR1]
 gi|304283442|gb|EFL91838.1| transcription termination/antitermination L factor [Candidatus
           Regiella insecticola LSR1]
          Length = 506

 Score =  545 bits (1405), Expect = e-153,   Method: Composition-based stats.
 Identities = 187/521 (35%), Positives = 307/521 (58%), Gaps = 30/521 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  +    ++RV I+ +TGD   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALEIALATATKKKHEQEIEVRVNIDRKTGDFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPS-----------IDIGGVVSDPLPPMDFGRVAVQSA 114
            +VV EV   T +I+L+ A++                +I   + D +  + F R+  Q+A
Sbjct: 62  WKVVSEVVMPTREITLEAAQEISKEEAQQNTPISTESEIPTYIEDQIKSVVFDRITTQTA 121

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISR 173
           KQVI+QKVREAER     +F+++ G+I++ TVK+V   ++I+DLGN ++G+I +++ + R
Sbjct: 122 KQVIVQKVREAERAVVIEQFREQEGKIVTATVKKVSRESIILDLGNNAEGIIGQEDMLPR 181

Query: 174 ENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDP 233
           EN+RPGDR++  +Y++R E RGPQ+ +SR+ P+ +++LF +EVPEI   ++++KA  RDP
Sbjct: 182 ENIRPGDRIRGILYEIRPEARGPQLFISRSRPEMLIELFRIEVPEIDEELIEIKAAIRDP 241

Query: 234 GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP 293
            SRAK+AV ++D  IDP+GACVGMRG+RVQAV  EL  E+IDIV+W  + A FV+NA+ P
Sbjct: 242 ASRAKIAVKTNDKRIDPIGACVGMRGARVQAVSNELGGERIDIVLWDDNPAQFVLNAMAP 301

Query: 294 AIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
           A V  +V+DED   + + V +   + AIGR GQNVRL SQL+GW ++++T  E     Q 
Sbjct: 302 AEVASIVVDEDAKTMNIAVEEGNSAQAIGRNGQNVRLVSQLSGWELNVMTINELKEKCQA 361

Query: 354 DFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           +       F++ + +DE  A +LV   F+ +EELA V  SE+  I+ FD++   E++ RA
Sbjct: 362 ETRTAIDMFIEHLEIDEECATVLVEAEFSSLEELAYVPESELPEIDSFDKKRLQELRDRA 421

Query: 414 REYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGW 473
           +  L  + +  ++   +   +++L ++  +D  +   L   G+ T+EDLA   V DL   
Sbjct: 422 QNVLTTLALKKEESFGDNKPADDLLNLASLDRDMAFKLAACGVCTLEDLAEQGVSDLADI 481

Query: 474 SENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
            E                    ++   +I+ AR  + W   
Sbjct: 482 EE-----------------LDDEKAGKLIMAAR-NICWFGD 504


>gi|239999349|ref|ZP_04719273.1| transcription elongation factor NusA [Neisseria gonorrhoeae 35/02]
 gi|240113616|ref|ZP_04728106.1| transcription elongation factor NusA [Neisseria gonorrhoeae MS11]
 gi|240126085|ref|ZP_04738971.1| transcription elongation factor NusA [Neisseria gonorrhoeae
           SK-92-679]
          Length = 500

 Score =  545 bits (1404), Expect = e-153,   Method: Composition-based stats.
 Identities = 209/518 (40%), Positives = 324/518 (62%), Gaps = 30/518 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDPS--IDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P   I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 64  LIVADEDYTYPDVEKTIEEIQEEIPDTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R GD
Sbjct: 124 RDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSGD 183

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         QV+LSRT   F+VKL+  EVPEI  G+++++AV+RDPG RAK
Sbjct: 184 RIRALFLRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIAGGMLEIRAVARDPGQRAK 243

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V++
Sbjct: 244 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEVSR 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   ++VIV +++L+LAIGR GQNVRLAS LTGW ++I+T  E       +    
Sbjct: 304 IVIDEDKHAVDVIVAEDRLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAI 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ + 
Sbjct: 364 RRLFMNHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAIL 423

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + I  ++K+ E  VS+++ ++ G+D+ + ++L E GI T +DLA  +VD+L+  +    
Sbjct: 424 TMAIAAEEKLGE--VSDDMRNLEGVDADMLLSLAEAGITTRDDLAELAVDELIEIT---- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                        G  ++  +++I+ AR    W  ++K
Sbjct: 478 -------------GVNEETAKAVILTAREH--WFTEDK 500


>gi|297180949|gb|ADI17152.1| transcription elongation factor [uncultured gamma proteobacterium
           HF0070_08D07]
          Length = 506

 Score =  545 bits (1404), Expect = e-152,   Method: Composition-based stats.
 Identities = 205/521 (39%), Positives = 310/521 (59%), Gaps = 30/521 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + D+V+ EK + ++ +   +  ++  A R  YG   D RV I+   G    FR 
Sbjct: 2   SKEILMVVDSVSNEKGVPKETLFEAVELALAVATRKRYGETFDFRVAIDRNDGSYETFRR 61

Query: 66  LEVVEEV-----------ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSA 114
             VV+E             N    ++L  A+ +D     G V  + +  + FGR+A Q+A
Sbjct: 62  WTVVDEENMVDEEGEEKEFNPDAHLNLSQAQIKDSESSFGSVFEEQVESVGFGRIAAQTA 121

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISR 173
           KQVI+QKVREAERD+    +  K+  I+SGTVK++   +VIVDLGN ++G++ R+  I R
Sbjct: 122 KQVIVQKVREAERDQIAAAYDGKINSIVSGTVKKLGRDSVIVDLGNNAEGILTREHLIPR 181

Query: 174 ENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDP 233
           E  R GDR+++ + +++ + RGPQ++LSRT  Q +V+LF +EVPEI   ++Q+   +RDP
Sbjct: 182 EIFRVGDRLRAMLVEIKSDNRGPQLMLSRTSRQMLVELFKIEVPEISEDVIQILGAARDP 241

Query: 234 GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP 293
           GSRAK+AV ++D  IDPVGACVGMRGSRVQAV  EL  E+IDIV+W  + A   INA+ P
Sbjct: 242 GSRAKIAVKTNDGRIDPVGACVGMRGSRVQAVSGELAGERIDIVLWDDNPAQLTINAMAP 301

Query: 294 AIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
           A V  +VLDE+   ++V V +E L+ AIGR GQNVRLAS L+GW+++I+TE+E +  +  
Sbjct: 302 AEVASIVLDEESHSMDVAVTEENLAQAIGRGGQNVRLASDLSGWSLNIMTEQEAAQKQDD 361

Query: 354 DFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           +       F++ ++VDE +A  LV EGF  +EE+A V I E++SIEGFDEE   E++ RA
Sbjct: 362 EAKSFIDDFIKYLSVDEDVAGALVEEGFTTLEEVAYVPIEELSSIEGFDEEIVSELRDRA 421

Query: 414 REYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGW 473
           ++ L    I  ++     G +E+L  + G+  ++   L  N + +MEDLA  SV +L+  
Sbjct: 422 KDSLLTKAIADEEANNLAGPNEDLLQMEGMTVELAKILSRNSVSSMEDLAELSVSELIEI 481

Query: 474 SENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
             +                  + +   +I+ AR    W E+
Sbjct: 482 EPS----------------IDESEGARLIMKAREP--WFEE 504


>gi|238650318|ref|YP_002916170.1| transcription elongation factor NusA [Rickettsia peacockii str.
           Rustic]
 gi|238624416|gb|ACR47122.1| transcription elongation factor NusA [Rickettsia peacockii str.
           Rustic]
          Length = 503

 Score =  545 bits (1404), Expect = e-152,   Method: Composition-based stats.
 Identities = 244/511 (47%), Positives = 357/511 (69%), Gaps = 17/511 (3%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +   +E+LQI D+VA EK I +++++S +  ++Q A R  YG   +I+ +IN +TG+I
Sbjct: 1   MSNIGNVEILQIIDSVAREKGISKEILISTVEQAVQAAGRKKYGNEYNIKAQINRKTGEI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +L R+L++VE+VE+Y  QISL+ A  ++P   IG  + + LPP+D  RV+ Q+AKQVI Q
Sbjct: 61  NLLRILKIVEDVEDYLTQISLEEALIKNPEAKIGDEIYEYLPPIDHARVSAQTAKQVITQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +V EAER++QY +FKD+ GEII+G VKR+EYG++IVDL  ++ +I++D+ I  EN +P D
Sbjct: 121 RVIEAEREKQYHDFKDRKGEIINGIVKRIEYGDIIVDLSRAEAIIKKDQLIKGENFKPND 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K+Y+ DVR+E +GPQ+ LSR   Q +VKLF +EVPEI   I+Q+K+V+RDPGS+AK+A
Sbjct: 181 RIKAYVQDVRQETKGPQIFLSRVDNQMLVKLFKLEVPEILESIIQIKSVARDPGSKAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA---LRPAIVT 297
           VF+SDSSIDPVG+CVG+RG+RV+AV  EL  EKIDIV+WS D A F++NA   L P  +T
Sbjct: 241 VFASDSSIDPVGSCVGIRGNRVKAVTNELNGEKIDIVLWSNDLAQFIVNALAPLAPGEIT 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           K+++DED  ++EV+V +E  S+AIGRRGQNVRLASQLTGW IDI+TEE++S  R ++F  
Sbjct: 301 KILIDEDRHKVEVVVSQENQSIAIGRRGQNVRLASQLTGWNIDIMTEEQESKRRNEEFLT 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
            T  FM+A++V+E+I  LL   GF  VE++A  +IS +  IEGF+EE AVEI+ RA  Y+
Sbjct: 361 STALFMEALDVEEVIGQLLSVTGFNSVEQIASSEISTLTRIEGFEEELAVEIKNRAINYV 420

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
           +  +  + KK+ +LGV +EL  I  +  ++ +   E GIKT+EDL   SV++    + N 
Sbjct: 421 DLKNEKIIKKLEDLGVEQELIDILELSLELILQFAEYGIKTIEDLGEMSVNEFKNLAPNS 480

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYK 508
                             + ++ +I  AR  
Sbjct: 481 --------------NITDENIKLLIKTARQH 497


>gi|152995057|ref|YP_001339892.1| NusA antitermination factor [Marinomonas sp. MWYL1]
 gi|150835981|gb|ABR69957.1| NusA antitermination factor [Marinomonas sp. MWYL1]
          Length = 496

 Score =  544 bits (1403), Expect = e-152,   Method: Composition-based stats.
 Identities = 183/514 (35%), Positives = 318/514 (61%), Gaps = 22/514 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK + + V+   +  ++  AA+  +   + IRV I+  TGD   +R 
Sbjct: 2   SKEILLVVEAVSNEKDVPKQVIFEAVEIALASAAKRRFEEDALIRVSIDQRTGDYKTYRQ 61

Query: 66  LEVVEEVE--NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             +V + +      ++++  + +++  + IG +  + +    FGR+A Q+AKQVI+QKVR
Sbjct: 62  WHIVADEDYSAPAFELTIDDSEEQNLGVPIGEIYEEEVESEVFGRIAAQTAKQVIVQKVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           EAER +    + +KVG+++ G VK+V   ++I+DLG N++  + +D+ I+RE+ R  DR+
Sbjct: 122 EAERAKMVALYTEKVGKLVHGQVKKVTRDSLIIDLGENAEASLPKDQLIARESFRMNDRI 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ + ++R + RG Q++LSR  P FM++LF +EVPEI   +++++  +RDPG RAK+AV 
Sbjct: 182 RALLLEIRDDSRGAQLILSRNAPAFMIELFRLEVPEISEEVIEIRGAARDPGLRAKIAVK 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           ++D  IDP+GACVGMRG+RVQAV  E+  E++DIV+W  + A  VINA+ PA V  +V+D
Sbjct: 242 TNDRRIDPIGACVGMRGARVQAVSNEMNGERVDIVLWDDNPAQLVINAMAPAEVDSIVID 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   ++V V  + L+ AIGR GQNVRLAS LTGW+++++T E+    +Q++  +    F
Sbjct: 302 EDAHSMDVAVKSDNLAQAIGRNGQNVRLASTLTGWSLNVMTSEDAEAKQQEESQKLIDIF 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           +  +++D+ +A  +V EGF  +EE+A + + E+  I+GFDE+   E++ RA+E L    +
Sbjct: 362 VNGLDIDDDLAIQMVDEGFTSLEEVAYIPMEEMLDIDGFDEDLVNELRSRAKEALLNQAL 421

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++++ +   + +L ++ G+D+ + + L   G+ TMEDLA  SVD+L            
Sbjct: 422 QAEEQLDDAKPAADLLAMEGMDNHLALVLASMGVITMEDLAEQSVDEL------------ 469

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                LS  G  +++   +I+ AR    W  + +
Sbjct: 470 -----LSVEGMTEERAGRLILTARAP--WFTESE 496


>gi|261364309|ref|ZP_05977192.1| transcription termination/antitermination protein NusA [Neisseria
           mucosa ATCC 25996]
 gi|288567563|gb|EFC89123.1| transcription termination/antitermination protein NusA [Neisseria
           mucosa ATCC 25996]
          Length = 500

 Score =  544 bits (1402), Expect = e-152,   Method: Composition-based stats.
 Identities = 205/517 (39%), Positives = 319/517 (61%), Gaps = 30/517 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK+++ +VV   +  ++  AA+        D+RVEI+ +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVEAEVVFQALEFALSTAAKKKADREHMDVRVEIDRDTGEYHTFRRW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P   I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 64  LIVADEDYTYPDLEKTIEEIQEEIPGTDIQIGDYYEETLPNEGFGRQAAQTAKQIILQRI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I R++ I REN R GD
Sbjct: 124 RDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVPGKLDALIPREQMIPRENFRGGD 183

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         QV+LSRT   F+ KL+ MEVPEI +G+++++ V+RDPG RAK
Sbjct: 184 RIRALFLRVDEIGNTGRKQVILSRTSGDFLAKLYEMEVPEIADGLLEIREVARDPGQRAK 243

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WS ++A FV+NAL PA V++
Sbjct: 244 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELAGERIDVVLWSSETAEFVMNALSPAEVSR 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T EE       +    
Sbjct: 304 IVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTVEEADERTAAEDAAI 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
              F   +N+D+  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ + 
Sbjct: 364 RDLFTAHLNIDDETADILVEEGFATLEEVAYVPAAELLAIEGFDEEIVETLRNRARDAIL 423

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + I  ++K+ E  VS+++ ++ G+DS +   L E G+ T +DLA  +VD+L+  +    
Sbjct: 424 TMAIASEEKLEE--VSDDMRNLDGVDSDMLRKLAEAGVTTRDDLAELAVDELIEIT---- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                        G  ++  + +I+ AR    W  +E
Sbjct: 478 -------------GVDEEAAKKVILAAREH--WFTEE 499


>gi|157827030|ref|YP_001496094.1| transcription elongation factor NusA [Rickettsia bellii OSU 85-389]
 gi|157802334|gb|ABV79057.1| transcription elongation factor NusA [Rickettsia bellii OSU 85-389]
          Length = 500

 Score =  544 bits (1402), Expect = e-152,   Method: Composition-based stats.
 Identities = 233/500 (46%), Positives = 348/500 (69%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +   +E+LQI D+VA EK I ++V++S +  ++Q A R  YG   +I+ +IN +TG+I
Sbjct: 1   MSNIGNIEILQIIDSVAREKGISKEVLISTVEQAVQVAGRKKYGNEYNIKAQINRKTGEI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +L R+L+VVE VE+Y  QIS+  A  +DP   I G + + LP +D  RVA Q+AKQVI Q
Sbjct: 61  NLLRVLKVVENVEDYLTQISITEALQKDPEAKIDGEIYEYLPSIDHARVAAQAAKQVITQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           ++ EAER++QY +FKD+ GE+I+G VKR+EYG++IVDL  ++ +I+R++ I  EN + GD
Sbjct: 121 RIIEAEREKQYHDFKDRKGEVINGVVKRIEYGDIIVDLNRAEAIIKREQQIKGENFKVGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RVK+Y+ DVR E +GPQ+ LSR   + + KLF +EV EIY G +++KAV+RDPGS+AK+A
Sbjct: 181 RVKAYVQDVRHETKGPQIFLSRADDRMLAKLFELEVTEIYEGGIEIKAVARDPGSKAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           VF+S++ IDP+G+CVG++G+RV+A+  EL  EKIDI++W+ D A F+INAL PA + K++
Sbjct: 241 VFASENGIDPIGSCVGIKGNRVRAITNELNGEKIDIILWNRDVAQFIINALAPAEILKIL 300

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED  ++EV+V +E  SLAIGRRGQNVRLA++LTGW IDI+TEE++S  R ++F   T+
Sbjct: 301 IDEDKRKVEVVVSQENQSLAIGRRGQNVRLAAKLTGWNIDIMTEEQESKRRNEEFVTSTE 360

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+A++V+E+I  LL   GF  VE++    I+ + +IEGF+EE AVEI+ RA  Y+   
Sbjct: 361 LFMEALDVEEVIGQLLSVSGFNTVEQIVNSDINALMNIEGFEEELAVEIRNRAINYVNLR 420

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +  + K++ ELGV +EL  I  I  ++ +   E GIKT+EDL   SV++    + N    
Sbjct: 421 NEKIVKELEELGVEQELIDILEIQPELILKFAEYGIKTIEDLGEMSVNEFKNLAPNSNIT 480

Query: 481 IEKFDGFLSSLGTPKDQVES 500
            E     + +     +  E 
Sbjct: 481 DENIKLLIKTAKQHSELKEE 500


>gi|91205427|ref|YP_537782.1| transcription elongation factor NusA [Rickettsia bellii RML369-C]
 gi|91068971|gb|ABE04693.1| N utilization substance protein A, transcription termination factor
           NusA [Rickettsia bellii RML369-C]
          Length = 500

 Score =  543 bits (1401), Expect = e-152,   Method: Composition-based stats.
 Identities = 233/500 (46%), Positives = 348/500 (69%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +   +E+LQI D+VA EK I ++V++S +  ++Q A R  YG   +I+ +IN +TG+I
Sbjct: 1   MSNIGNIEILQIIDSVAREKGISKEVLISTVEQAVQVAVRKKYGNEYNIKAQINRKTGEI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +L R+L+VVE VE+Y  QIS+  A  +DP   I G + + LP +D  RVA Q+AKQVI Q
Sbjct: 61  NLLRVLKVVENVEDYLTQISITEALQKDPEAKIDGEIYEYLPSIDHARVAAQAAKQVITQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           ++ EAER++QY +FKD+ GE+I+G VKR+EYG++IVDL  ++ +I+R++ I  EN + GD
Sbjct: 121 RIIEAEREKQYHDFKDRKGEVINGVVKRIEYGDIIVDLNRAEAIIKREQQIKGENFKVGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RVK+Y+ DVR E +GPQ+ LSR   + + KLF +EV EIY G +++KAV+RDPGS+AK+A
Sbjct: 181 RVKAYVQDVRHETKGPQIFLSRADDRMLAKLFELEVTEIYEGGIEIKAVARDPGSKAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           VF+S++ IDP+G+CVG++G+RV+A+  EL  EKIDI++W+ D A F+INAL PA + K++
Sbjct: 241 VFASENGIDPIGSCVGIKGNRVRAITNELNGEKIDIILWNRDVAQFIINALAPAEILKIL 300

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED  ++EV+V +E  SLAIGRRGQNVRLA++LTGW IDI+TEE++S  R ++F   T+
Sbjct: 301 IDEDKRKVEVVVSQENQSLAIGRRGQNVRLAAKLTGWNIDIMTEEQESKRRNEEFVTSTE 360

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM+A++V+E+I  LL   GF  VE++    I+ + +IEGF+EE AVEI+ RA  Y+   
Sbjct: 361 LFMEALDVEEVIGQLLSVSGFNTVEQIVNSDINALMNIEGFEEELAVEIRNRAINYVNLR 420

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +  + K++ ELGV +EL  I  I  ++ +   E GIKT+EDL   SV++    + N    
Sbjct: 421 NEKIVKELEELGVEQELIDILEIQPELILKFAEYGIKTIEDLGEMSVNEFKNLASNSNIT 480

Query: 481 IEKFDGFLSSLGTPKDQVES 500
            E     + +     +  E 
Sbjct: 481 DENIKLLIKTAKQHSELKEE 500


>gi|308389761|gb|ADO32081.1| N utilization substance protein A [Neisseria meningitidis alpha710]
          Length = 500

 Score =  543 bits (1401), Expect = e-152,   Method: Composition-based stats.
 Identities = 209/508 (41%), Positives = 321/508 (63%), Gaps = 28/508 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 64  LIVADEDYTYPDVEKTIEEIQEEIPGTAIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R GD
Sbjct: 124 RDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSGD 183

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG RAK
Sbjct: 184 RIRALFLRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQRAK 243

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V++
Sbjct: 244 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEVSR 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T  E       +    
Sbjct: 304 IVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAI 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ + 
Sbjct: 364 RRLFMDYLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAIL 423

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + I  ++K+ E  VS+++ ++ GID+ +  +L E GI T +DLA  +VD+L+  +    
Sbjct: 424 TMAIAAEEKLGE--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELIEIT---- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHAR 506
                        G  ++  +++I+ AR
Sbjct: 478 -------------GVNEEPAKAVILTAR 492



 Score = 40.8 bits (95), Expect = 0.61,   Method: Composition-based stats.
 Identities = 15/69 (21%), Positives = 29/69 (42%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
            +I  ++   E +        +D  +   L   G    ++LA + + E+  I G +EE A
Sbjct: 425 MAIAAEEKLGEVSDDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELIEITGVNEEPA 484

Query: 407 VEIQGRARE 415
             +   AR+
Sbjct: 485 KAVILTARD 493


>gi|319944110|ref|ZP_08018388.1| N utilization substance A [Lautropia mirabilis ATCC 51599]
 gi|319742604|gb|EFV95013.1| N utilization substance A [Lautropia mirabilis ATCC 51599]
          Length = 496

 Score =  543 bits (1399), Expect = e-152,   Method: Composition-based stats.
 Identities = 207/510 (40%), Positives = 330/510 (64%), Gaps = 23/510 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL + DA+A EK++ RDVV + +  ++  A +  Y    DIRV I+ E G    FR  +
Sbjct: 5   ELLLMVDALAREKNVPRDVVFAALESALASAMKKRYKDEVDIRVAISREDGSYRGFRRWQ 64

Query: 68  VVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV   E++++  QI L  AR +DP I +   + + L  ++FGR+  Q+AKQVI+QK+R+A
Sbjct: 65  VVPDGELDDHDLQIILSEARKQDPDIQLEEFIEEELEEIEFGRIGAQAAKQVILQKIRDA 124

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++   +F  +   ++SGT+KRV+    I++ G  +  + RD+ I +ENLR GDRV+++
Sbjct: 125 EREQIINDFLSRGDSLLSGTIKRVDREGAIIESGRIEARLPRDQMIPKENLRNGDRVRAW 184

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  + RE RGPQ+ LSRT P+F++KLF +EVPEI  G++Q++A +RDPG RAK+AV ++D
Sbjct: 185 VSRINREGRGPQLFLSRTAPEFIMKLFELEVPEIEQGLLQIRAAARDPGVRAKIAVHATD 244

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           S +DP+G CVG+RGSRVQAV  EL  E++DIV+WS D A FVI AL PA V+ +++DE+ 
Sbjct: 245 SRVDPIGTCVGVRGSRVQAVTQELAGERVDIVLWSEDPAQFVIGALAPANVSSILVDEER 304

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             ++V+V ++ L+LAIG  G+NVRLAS+LTGW I++++ EE    ++ +       FM+ 
Sbjct: 305 HVMDVVVDEDNLALAIGTGGRNVRLASELTGWQINLMSAEESEKKQEDERAAIRGVFMER 364

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           ++VD  +A +L+ EGF  +EE+A V ++E+  IE FDE+T  E++ RAR  L    I  +
Sbjct: 365 LDVDAEVADILIDEGFTSLEEIAYVPLNEMLEIEAFDEDTVNELRERARNALLTQAIATE 424

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFD 485
           +K+ E   +++L S+ G+D ++ V L E  ++T +DLA  +VD+L+  +E          
Sbjct: 425 EKLNET--ADDLLSLEGMDRELAVKLAEANVRTRDDLAELAVDELIEITE---------- 472

Query: 486 GFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                    +++ +++I+ AR    W  +E
Sbjct: 473 -------LDEERAKALILKAREH--WFVEE 493


>gi|119504358|ref|ZP_01626438.1| transcription elongation factor NusA [marine gamma proteobacterium
           HTCC2080]
 gi|119459866|gb|EAW40961.1| transcription elongation factor NusA [marine gamma proteobacterium
           HTCC2080]
          Length = 490

 Score =  543 bits (1399), Expect = e-152,   Method: Composition-based stats.
 Identities = 201/509 (39%), Positives = 318/509 (62%), Gaps = 23/509 (4%)

Query: 11  QIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE 70
            +A+AV+ EK +  D++   +  ++  AA+  Y   +DI V I+  +G+    R   VV 
Sbjct: 1   MVAEAVSAEKGVSEDIIFEAIELALATAAKKRYEEEADIEVVIDRVSGEYQTRRRWLVVP 60

Query: 71  EVEN--YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           + E      Q + + A + D ++ IG V  + +   DFGR+A Q+AKQVI+Q+VR+AER 
Sbjct: 61  DTELALLGTQFTTEEAAEADANLQIGDVHEEIIENADFGRIAAQTAKQVIVQRVRDAERA 120

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYIY 187
           +    ++D++GE+++G VK+V   NVIVDLGN ++G++ R E + RE  R  DRV++ + 
Sbjct: 121 QIVDLYRDRIGELLAGIVKKVTRDNVIVDLGNNAEGLLPRGELVGRETFRINDRVRAILS 180

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           ++  E RGPQ+++SR   + + +LF +EVPEI  G++Q++A +RDPGSRAK+AV + D  
Sbjct: 181 EINTESRGPQLVMSRACREMLTELFKIEVPEISEGVIQIRAAARDPGSRAKIAVKTGDQR 240

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVGACVGMRGSRVQAV  EL +E++DI++W  + A  VINA+ PA V  +V+DED   
Sbjct: 241 IDPVGACVGMRGSRVQAVSNELDNERVDIILWDDNPAQLVINAMSPAEVESIVVDEDSNT 300

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           +EV V ++ L+ AIGR GQNVRLAS LTGWTI++++ +E    ++ +  E  + FM A++
Sbjct: 301 MEVAVAEDNLAQAIGRGGQNVRLASDLTGWTINVMSTDEAVERQEAEAVEIIETFMNALD 360

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           VDE +A +LV EGF  ++E+A V + E+  IEGFDE  + E++ RA++ L  + I  ++K
Sbjct: 361 VDEDVAVVLVEEGFTTLDEVAYVPLEEMMGIEGFDEAISEELRARAKDALLTMAIATEEK 420

Query: 428 IRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGF 487
           + ++  +E+L ++ G++  +       GI TMEDLA   VDDL+                
Sbjct: 421 L-DVEPAEDLLTMDGMERHLAFVFASRGIVTMEDLAEQGVDDLMDIE------------- 466

Query: 488 LSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                  +++   +I+ AR    W  +E+
Sbjct: 467 ----DMTEERAGELIMTARAP--WFAEEE 489


>gi|157828686|ref|YP_001494928.1| transcription elongation factor NusA [Rickettsia rickettsii str.
           'Sheila Smith']
 gi|165933405|ref|YP_001650194.1| transcription elongation factor NusA [Rickettsia rickettsii str.
           Iowa]
 gi|157801167|gb|ABV76420.1| transcription elongation factor NusA [Rickettsia rickettsii str.
           'Sheila Smith']
 gi|165908492|gb|ABY72788.1| N utilization substance protein A [Rickettsia rickettsii str. Iowa]
          Length = 503

 Score =  543 bits (1399), Expect = e-152,   Method: Composition-based stats.
 Identities = 244/511 (47%), Positives = 357/511 (69%), Gaps = 17/511 (3%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +   +E+LQI D+VA EK I +++++S +  ++Q A R  YG   +I+ +IN +TG+I
Sbjct: 1   MSNVGNVEILQIIDSVAREKGISKEILISTVEQAVQAAGRKKYGNEYNIKAQINRKTGEI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +L R+L++VE+VE+Y  QISL+ A  ++P   IG  + + LPP+D  RV+ Q+AKQVI Q
Sbjct: 61  NLLRILKIVEDVEDYLTQISLEEALIKNPEAKIGDEIYEYLPPIDHARVSAQAAKQVITQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +V EAER++QY +FKD+ GEII+G VKR+EYG++IVDL  ++ +I++D+ I  EN +P D
Sbjct: 121 RVIEAEREKQYHDFKDRKGEIINGIVKRIEYGDIIVDLSRAEAIIKKDQLIKGENFKPND 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K+Y+ DVR+E +GPQ+ LSR   Q +VKLF +EVPEI   I+Q+K+V+RDPGS+AK+A
Sbjct: 181 RIKAYVQDVRQETKGPQIFLSRVDNQMLVKLFKLEVPEILESIIQIKSVARDPGSKAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA---LRPAIVT 297
           VF+SDSSIDPVG+CVG+RG+RV+AV  EL  EKIDIV+WS D A F++NA   L P  +T
Sbjct: 241 VFASDSSIDPVGSCVGIRGNRVKAVTNELNGEKIDIVLWSNDLAQFIVNALAPLAPGEIT 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           K+++DED  ++EV+V +E  S+AIGRRGQNVRLASQLTGW IDI+TEE++S  R ++F  
Sbjct: 301 KILIDEDRHKVEVVVSQENQSIAIGRRGQNVRLASQLTGWNIDIMTEEQESKRRNEEFLT 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
            T  FM+A++V+E+I  LL   GF  VE++A  +IS +  IEGF+EE AVEI+ RA  Y+
Sbjct: 361 STALFMEALDVEEVIGQLLSVTGFNSVEQIASSEISTLTRIEGFEEELAVEIKNRAINYV 420

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
           +  +  + KK+ +LGV +EL  I  +  ++ +   E GIKT+EDL   SV++    + N 
Sbjct: 421 DLKNEKIIKKLEDLGVEQELIDILELSLELILQFAEYGIKTIEDLGEMSVNEFKNLAPNS 480

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYK 508
                             + ++ +I  AR  
Sbjct: 481 --------------NITDENIKLLIKTARQH 497


>gi|51473734|ref|YP_067491.1| transcription elongation factor NusA [Rickettsia typhi str.
           Wilmington]
 gi|51460046|gb|AAU04009.1| transcription elongation protein NusA (N utilization substance
           protein A) [Rickettsia typhi str. Wilmington]
          Length = 503

 Score =  543 bits (1399), Expect = e-152,   Method: Composition-based stats.
 Identities = 243/511 (47%), Positives = 363/511 (71%), Gaps = 17/511 (3%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +   +E+LQI D+VA EK I ++++++ +  +IQ A R  YG   +I+ +IN +TG+I
Sbjct: 1   MSNIYNVEILQIIDSVAREKGISKEILIATVEQAIQVAGRKKYGNEYNIKAQINRKTGEI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +L R+L++VE+VE+Y  QISL+ A  ++P   IG  + + LPP+D+ RV+ Q+AKQVI Q
Sbjct: 61  NLLRILKIVEDVEDYLTQISLEDALVKNPEAKIGDEIYEYLPPIDYARVSAQAAKQVITQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +V EAER++QY +FKD+ G+II+G VKR+EYG++IVDLG ++ +I++D+ I  E+ +P D
Sbjct: 121 RVIEAEREKQYNDFKDRKGDIINGIVKRIEYGDIIVDLGRAEAIIKKDQLIKGEHFKPND 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K+Y+ DVR+E +GPQ+ LSR   + +VKLF +EVPEI   I+QVK+V+RDPGS+AK+A
Sbjct: 181 RIKAYVQDVRQETKGPQIFLSRVDNKMLVKLFKLEVPEILEDIIQVKSVARDPGSKAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA---LRPAIVT 297
           VF+SDSSIDPVG+CVG+RG+RV+AV  EL  EKIDIV+WS D A F++N+   L P+ +T
Sbjct: 241 VFASDSSIDPVGSCVGIRGNRVKAVTNELNGEKIDIVLWSNDLAQFIVNSLVPLAPSEIT 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           K+++DED  ++EV+V +E  S+AIGRRGQNVRLAS+LTGW IDI+TEE++S  R ++F+ 
Sbjct: 301 KILIDEDSHKVEVVVSQENQSIAIGRRGQNVRLASKLTGWNIDIMTEEQESKRRNEEFST 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
            T+ FM+A++V+E+I  LL   GF  VE++A  +IS +  IEGF+EE AVEI+ RA  Y+
Sbjct: 361 STELFMEALDVEEVIGQLLSVTGFNSVEQIASSEISTLTRIEGFEEELAVEIKNRAIRYV 420

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
           +  +  + KK+ ELGV +EL  I  +  ++ +   E GIKT+EDL   SV++    + N 
Sbjct: 421 DLKNEQIIKKLEELGVEQELIDILELPLELILKFAEYGIKTIEDLGEMSVNEFKNLAPNS 480

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYK 508
                             D ++ +I  AR+ 
Sbjct: 481 --------------NITDDNIKLLIKTARHH 497


>gi|34581537|ref|ZP_00143017.1| N utilization substance protein A [Rickettsia sibirica 246]
 gi|28262922|gb|EAA26426.1| N utilization substance protein A [Rickettsia sibirica 246]
          Length = 503

 Score =  542 bits (1398), Expect = e-152,   Method: Composition-based stats.
 Identities = 243/511 (47%), Positives = 357/511 (69%), Gaps = 17/511 (3%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +   +E+LQI D+VA EK I +++++S +  ++Q A R  YG   +I+ +IN +TG+I
Sbjct: 1   MSNIGNVEILQIIDSVAREKGISKEILISTVEQAVQAAGRKKYGNEYNIKAQINRKTGEI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +L R+L++VE+VE+Y  QISL+ A  ++P   IG  + + LPP+D  RV+ Q+AKQVI Q
Sbjct: 61  NLLRILKIVEDVEDYLTQISLEEALIKNPEAKIGDEIYEYLPPIDHARVSAQAAKQVITQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +V EAER++QY +FKD+ GEII+G VKR+EYG++IVDL  ++ +I++D+ I  EN +P D
Sbjct: 121 RVIEAEREKQYHDFKDRKGEIINGIVKRIEYGDIIVDLSRAEAIIKKDQLIKGENFKPND 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K+Y+ DVR+E +GPQ+ LSR   Q ++KLF +EVPEI   I+Q+K+V+RDPGS+AK+A
Sbjct: 181 RIKAYVQDVRQETKGPQIFLSRVDNQMLIKLFKLEVPEILESIIQIKSVARDPGSKAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA---LRPAIVT 297
           VF+SDSSIDPVG+CVG+RG+RV+AV  EL  EKIDIV+WS D A F++NA   L P  +T
Sbjct: 241 VFASDSSIDPVGSCVGIRGNRVKAVTNELNGEKIDIVLWSNDLAQFIVNALAPLAPGEIT 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           K+++DED  ++EV+V +E  S+AIGRRGQNVRLASQLTGW IDI+TEE++S  R ++F  
Sbjct: 301 KILIDEDRHKVEVVVSQENQSIAIGRRGQNVRLASQLTGWNIDIMTEEQESKRRNEEFLT 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
            T  FM+A++V+E+I  LL   GF  VE++A  +IS +  IEGF+EE AVEI+ RA  Y+
Sbjct: 361 STALFMEALDVEEVIGQLLSVTGFNSVEQIASSEISTLTRIEGFEEELAVEIKNRAINYV 420

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
           +  +  + KK+ +LGV +EL  I  +  ++ +   E GIKT+EDL   SV++    + N 
Sbjct: 421 DLKNEKIIKKLEDLGVEQELIDILELSLELILQFAEYGIKTIEDLGEMSVNEFKNLAPNS 480

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYK 508
                             + ++ +I  AR  
Sbjct: 481 --------------NITDENIKLLIKTARQH 497


>gi|58582842|ref|YP_201858.1| transcription elongation factor NusA [Xanthomonas oryzae pv. oryzae
           KACC10331]
 gi|84624709|ref|YP_452081.1| transcription elongation factor NusA [Xanthomonas oryzae pv. oryzae
           MAFF 311018]
 gi|58427436|gb|AAW76473.1| N utilization substance protein A [Xanthomonas oryzae pv. oryzae
           KACC10331]
 gi|84368649|dbj|BAE69807.1| N utilization substance protein A [Xanthomonas oryzae pv. oryzae
           MAFF 311018]
          Length = 503

 Score =  542 bits (1398), Expect = e-152,   Method: Composition-based stats.
 Identities = 201/473 (42%), Positives = 315/473 (66%), Gaps = 5/473 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFR 64
             ELL + DAVA EK + R+V+   +  ++  AA+  Y       RV I+ + G    +R
Sbjct: 2   SKELLLVVDAVANEKGVPREVIFDAIEAALASAAKKRYPDQDVLARVTIDHKDGTYETYR 61

Query: 65  LLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             EVV +   +E+   Q+ L  A D    +D+G  + + +   DFGR+A Q+AKQVI+Q+
Sbjct: 62  RWEVVADDVVMESPDRQVRLMDAIDEADGVDVGDYIEEQIENPDFGRIAAQAAKQVIVQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGD 180
           VREAER +    +KD+VGE+I+G VKR E GN+ VDLG N++  I +D+ I R+ LRPGD
Sbjct: 122 VREAERQQVVDAWKDRVGELITGVVKRAERGNIFVDLGGNAEAFIPKDKGIPRDVLRPGD 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RV+ Y+ +VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++ A +RDPG RAK+A
Sbjct: 182 RVRGYLAEVRSEPRGPQLFISRAAPEFMIELFKLEVPEVGQGLVEINACARDPGDRAKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V + D+  DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  ++
Sbjct: 242 VIAHDARTDPIGACIGMRGSRVQAVSNELNGERVDIVLWNENPANFVINAMAPAEVQSII 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T ++ +   + +     +
Sbjct: 302 VDEDKHSMDLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTADQVAAKSEAEQAAARK 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM  + VDE I+ +LV+EGF  VEE+A V + E+ ++EGFDE+   E++ RAR+ L   
Sbjct: 362 LFMDRLEVDEEISAILVSEGFNTVEEIAYVPVGELLAVEGFDEDIVEELRARARDALLNA 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGW 473
            +  ++ +     +E+L ++ G+D +  VAL E+G++T EDL+  + D+++ +
Sbjct: 422 ALAEEEGLEGTQPTEDLLALEGMDEETAVALAEHGVRTSEDLSDLAADEIVDF 474


>gi|229586874|ref|YP_002845375.1| transcription elongation factor NusA [Rickettsia africae ESF-5]
 gi|228021924|gb|ACP53632.1| N utilization substance protein A, transcription termination factor
           NusA [Rickettsia africae ESF-5]
          Length = 503

 Score =  542 bits (1398), Expect = e-152,   Method: Composition-based stats.
 Identities = 244/511 (47%), Positives = 357/511 (69%), Gaps = 17/511 (3%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +   +E+LQI D+VA EK I +++++S +  ++Q A R  YG   +I+ +IN +TG+I
Sbjct: 1   MSNIGNVEILQIIDSVAREKGISKEILISTVEQAVQAAGRKKYGNEYNIKAQINRKTGEI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +L R+L++VE+VE+Y  QISL+ A  ++P   IG  + + LPP+D  RV+ Q+AKQVI Q
Sbjct: 61  NLLRILKIVEDVEDYLTQISLEEALIKNPEAKIGDEIYEYLPPIDHARVSAQAAKQVITQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +V EAER++QY +FKD+ GEII+G VKR+EYG++IVDL  ++ +I++D+ I  EN +P D
Sbjct: 121 RVIEAEREKQYHDFKDRKGEIINGIVKRIEYGDIIVDLSRAEAIIKKDQLIKGENFKPND 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K+Y+ DVR+E +GPQ+ LSR   Q +VKLF +EVPEI   I+Q+K+V+RDPGS+AK+A
Sbjct: 181 RIKAYVQDVRQETKGPQIFLSRVDNQMLVKLFKLEVPEILESIIQIKSVARDPGSKAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA---LRPAIVT 297
           VF+SDSSIDPVG+CVG+RG+RV+AV  EL  EKIDIV+WS D A F++NA   L P  +T
Sbjct: 241 VFASDSSIDPVGSCVGIRGNRVKAVTNELNGEKIDIVLWSNDLAQFIVNALAPLAPGEIT 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           K+++DED  ++EV+V +E  S+AIGRRGQNVRLASQLTGW IDI+TEE++S  R ++F  
Sbjct: 301 KILIDEDRHKVEVVVSQENQSIAIGRRGQNVRLASQLTGWNIDIMTEEQESKRRNEEFLT 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
            T  FM+A++V+E+I  LL   GF  VE++A  +IS +  IEGF+EE AVEI+ RA  Y+
Sbjct: 361 STALFMEALDVEEVIGQLLSVTGFNSVEQIASSEISTLTRIEGFEEELAVEIKNRAINYV 420

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
           +  +  + KK+ +LGV +EL  I  +  ++ +   E GIKT+EDL   SV++    + N 
Sbjct: 421 DLKNEKIIKKLEDLGVEQELIDILELSLELILQFAEYGIKTIEDLGEMSVNEFKNLAPNS 480

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYK 508
                             + ++ +I  AR  
Sbjct: 481 --------------NITDENIKLLIKTARQH 497


>gi|255066627|ref|ZP_05318482.1| transcription termination/antitermination protein NusA [Neisseria
           sicca ATCC 29256]
 gi|255049211|gb|EET44675.1| transcription termination/antitermination protein NusA [Neisseria
           sicca ATCC 29256]
          Length = 500

 Score =  542 bits (1398), Expect = e-152,   Method: Composition-based stats.
 Identities = 203/517 (39%), Positives = 319/517 (61%), Gaps = 30/517 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK+++ +VV   +  ++  AA+        D+RVEI+ +TG+   +R  
Sbjct: 4   EMLQLAEALASEKNVEAEVVFQALEFALSTAAKKKADREHMDVRVEIDRDTGEYHTYRRW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P   I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 64  LIVADEDYTYPDLEKTIEEIQEEIPGTDIQIGDYYEETLPNEGFGRQAAQTAKQIILQRI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I R++ I REN R GD
Sbjct: 124 RDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVPGKLDALIPREQMIPRENFRGGD 183

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         QV+LSRT   F+ KL+ MEVPEI +G+++++ V+RDPG RAK
Sbjct: 184 RIRALFLRVDEIGNTGRKQVILSRTSGDFLAKLYEMEVPEIADGLLEIREVARDPGQRAK 243

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WS ++A FV+NAL PA V++
Sbjct: 244 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELAGERIDVVLWSSETAEFVMNALSPAEVSR 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+D+D   ++VIV ++QL+LAIGR GQNVRLAS LTGW ++I+T EE       +    
Sbjct: 304 IVIDDDKHAVDVIVAEDQLALAIGRGGQNVRLASDLTGWQLNIMTVEEADERTAAEDAAI 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
              F   +N+D+  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ + 
Sbjct: 364 RDLFTAHLNIDDETADILVEEGFATLEEVAYVPAAELFAIEGFDEEIVETLRNRARDAIL 423

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + I  ++K+ E  VS+++ ++ G+DS +   L E G+ T +DLA  +VD+L+  +    
Sbjct: 424 TMAIASEEKLEE--VSDDMRNLDGVDSDMLRKLAEAGVTTRDDLAELAVDELIEIT---- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                        G  ++  + +I+ AR    W  +E
Sbjct: 478 -------------GVDEEAAKKVILAAREH--WFTEE 499


>gi|261379110|ref|ZP_05983683.1| L Factor [Neisseria cinerea ATCC 14685]
 gi|269144431|gb|EEZ70849.1| L Factor [Neisseria cinerea ATCC 14685]
          Length = 500

 Score =  542 bits (1398), Expect = e-152,   Method: Composition-based stats.
 Identities = 207/516 (40%), Positives = 320/516 (62%), Gaps = 30/516 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EILQLAEALASEKNVDAEVVFQALEFALSSAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 64  LIVADEDYTYPDIEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I++GTVKRVE   +IV++  G  D +I RD+ I REN R GD
Sbjct: 124 RDAEREQNLNEFLAVKEDIVTGTVKRVERHGIIVEIIAGKLDALIPRDQAIPRENFRSGD 183

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         QV+LSRT   F+ KL+  EVPEI +G+++++AV+RDPG RAK
Sbjct: 184 RIRALFLRVDEIGNTGRKQVILSRTSGDFLAKLYANEVPEISDGMLEIRAVARDPGQRAK 243

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP+ A FV+ AL PA V++
Sbjct: 244 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPEPAQFVMGALSPAEVSR 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DE+   ++VIV ++QL+LAIGR GQNVRLAS+LTGW ++I+T  E       +    
Sbjct: 304 IVIDEEKHAVDVIVSEDQLALAIGRGGQNVRLASELTGWQLNIMTSAEADKRNAAEDAAI 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
              F+  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ + 
Sbjct: 364 RTLFVSHLNVDEETADILVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAIL 423

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            I I  ++K+ E  VS+++ S+ G+D+ + + L E  I T +DLA  SVD+L+  +    
Sbjct: 424 TIAIAAEEKLGE--VSDDMRSLEGVDADMLLKLAEADITTRDDLAELSVDELIEIT---- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                        G  ++  +++I+ AR    W  +
Sbjct: 478 -------------GVNEETAKAVILTAREH--WFTE 498


>gi|94501385|ref|ZP_01307905.1| N utilization substance protein A [Oceanobacter sp. RED65]
 gi|94426498|gb|EAT11486.1| N utilization substance protein A [Oceanobacter sp. RED65]
          Length = 497

 Score =  541 bits (1396), Expect = e-152,   Method: Composition-based stats.
 Identities = 206/515 (40%), Positives = 328/515 (63%), Gaps = 23/515 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFR 64
             E+L +A+AV+ EK ++++V+   +  ++  AA+  Y     DIRV I+  +G+   +R
Sbjct: 2   SKEILLVAEAVSNEKGVEKEVIFEAIELALAAAAKKRYEDEEPDIRVAIDRRSGEYETYR 61

Query: 65  LLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              +V  E V     +++++ A D D ++  G    + +   +FGR+A Q+AKQ+I+QKV
Sbjct: 62  HWTIVSNEVVPALGSELNMQEAADIDTNLKEGDSYEEQIENPEFGRIAAQAAKQIIMQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDR 181
           REAER +    ++D++GE++ GTVK+V   N+IVDLGN ++G++ R++ ++RE  R GDR
Sbjct: 122 REAERAKITAAYEDRIGELVHGTVKKVTRDNIIVDLGNNAEGLLPREQLVAREVFRIGDR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++ +  V  E RGPQ++LSR     +++LF +EVPEI   ++++KA +RDPGSRAK+AV
Sbjct: 182 LRAVLTSVNPENRGPQLILSRAAGSMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+D  IDPVGACVGMRG+RVQAV  EL +E++DIV+W  + A  VINAL PA V  +V+
Sbjct: 242 KSNDQRIDPVGACVGMRGARVQAVSNELGNERVDIVLWDDNPAQLVINALAPAEVESIVM 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+   ++V V ++QL++AIGR GQNV+LAS+LTGW I+++TEEE    +Q++     Q 
Sbjct: 302 DEETNSMDVAVAEDQLAIAIGRGGQNVKLASELTGWVINVMTEEEAGEKQQQEQGSLVQK 361

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
            M A+++DE +A +LV EGF  ++E+A V   E+  I+GFDEE   E+Q RA++ L    
Sbjct: 362 LMDALDIDEDMAAVLVGEGFTGLDEVAYVPREEMLEIDGFDEEVVDELQARAKDVLLTQA 421

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           I  ++K+ +   +E+L ++ G+D  + + L  +GI TMEDLA   VDD+           
Sbjct: 422 IASEEKLEDAQPAEDLLNMEGMDQHLALVLASHGIVTMEDLAEQGVDDISSLE------- 474

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                     G  +++   +I+ AR    W E+ +
Sbjct: 475 ----------GLDEEKAAQLIMTARKP--WFEESE 497


>gi|225075066|ref|ZP_03718265.1| hypothetical protein NEIFLAOT_00065 [Neisseria flavescens
           NRL30031/H210]
 gi|224953550|gb|EEG34759.1| hypothetical protein NEIFLAOT_00065 [Neisseria flavescens
           NRL30031/H210]
          Length = 501

 Score =  541 bits (1394), Expect = e-151,   Method: Composition-based stats.
 Identities = 209/517 (40%), Positives = 318/517 (61%), Gaps = 30/517 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK+++ +VV   +  ++  AA+        D+RVEI+ +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVETEVVFKALEFALSTAAKKKADREHMDVRVEIDRDTGEYQTFRRW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 64  LIVADEDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I R+E I REN R GD
Sbjct: 124 RDAEREQNLNEFLASKEDIVSGTVKRVERHGIIVEVVAGKLDALIPREEMIPRENFRSGD 183

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         QV+LSRT   F+ KL+  EVPEI +G+++++ V+RDPG RAK
Sbjct: 184 RIRALFLRVDEIGNTGRKQVILSRTSGDFLAKLYANEVPEIADGLLEIREVARDPGQRAK 243

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+IDIV+WSP+ A FV+NAL PA V++
Sbjct: 244 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDIVLWSPEPAQFVMNALSPAEVSR 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   ++VIV + QL+LAIGR GQNVRLAS LTGW ++I+T EE       +    
Sbjct: 304 IVIDEDKHAVDVIVDENQLALAIGRGGQNVRLASILTGWQLNIMTVEEADERNAAEDAVI 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
              F   +N+D+  A +LV EGFA +EE+A V  +E+ SI+GFDEE    ++ RAR+ + 
Sbjct: 364 RNLFTTHLNIDDETADILVEEGFATLEEVAYVPAAELLSIDGFDEEIVETLRNRARDAIL 423

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            I I  ++K+ E  VSE++ ++ G+DS +   L E G+   +DLA  SVD+L+  +    
Sbjct: 424 TITIAAEEKLGE--VSEDMRNLDGVDSDMLRKLAEAGVTQRDDLAELSVDELVEIT---- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                        G  +++ + +I+ AR    W  +E
Sbjct: 478 -------------GVDEEEAKKVILAAREH--WFTEE 499


>gi|15892740|ref|NP_360454.1| transcription elongation factor NusA [Rickettsia conorii str.
           Malish 7]
 gi|20139038|sp|Q92HF4|NUSA_RICCN RecName: Full=Transcription elongation protein nusA
 gi|15619917|gb|AAL03355.1| N utilization substance protein A [Rickettsia conorii str. Malish
           7]
          Length = 503

 Score =  541 bits (1394), Expect = e-151,   Method: Composition-based stats.
 Identities = 244/511 (47%), Positives = 357/511 (69%), Gaps = 17/511 (3%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +   +E+LQI D+VA EK I +++++S +  ++Q A R  YG   DI+ +IN +TG+I
Sbjct: 1   MSNIGNVEILQIIDSVAREKGISKEILISTVEQAVQAAGRKKYGNEYDIKAQINRKTGEI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +L R+L++VE+VE+Y  QISL+ A  ++P   IG  + + LPP+D  RV+ Q+AKQVI Q
Sbjct: 61  NLLRILKIVEDVEDYLTQISLEEALIKNPEAKIGDEIYEYLPPIDHARVSAQAAKQVITQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +V EAER++QY +FKD+ GEII+G VKR+EYG++IVDL  ++ +I++D+ I  EN +P D
Sbjct: 121 RVIEAEREKQYHDFKDRKGEIINGIVKRIEYGDIIVDLSRAEAIIKKDQLIKGENFKPND 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K+Y+ DVR+E +GPQ+ LSR   Q +VKLF +EVPEI   I+Q+K+V+RDPGS+AK+A
Sbjct: 181 RIKAYVQDVRQETKGPQIFLSRVDNQMLVKLFKLEVPEILESIIQIKSVARDPGSKAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA---LRPAIVT 297
           VF++DSSIDPVG+CVG+RG+RV+AV  EL  EKIDIV+WS D A F++NA   L P  +T
Sbjct: 241 VFAADSSIDPVGSCVGIRGNRVKAVTNELNGEKIDIVLWSNDLAQFIVNALAPLAPGEIT 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           K+++DED  ++EV+V +E  S+AIGRRGQNVRLASQLTGW IDI+TEE++S  R ++F  
Sbjct: 301 KILIDEDRHKVEVVVSQENQSIAIGRRGQNVRLASQLTGWNIDIMTEEQESKRRNEEFLT 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
            T  FM+A++V+E+I  LL   GF  VE++A  +IS +  IEGF+EE AVEI+ RA  Y+
Sbjct: 361 STALFMEALDVEEVIGQLLSVTGFNSVEQIASSEISTLTRIEGFEEELAVEIKNRAINYV 420

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
           +  +  + KK+ +LGV +EL  I  +  ++ +   E GIKT+EDL   SV++    + N 
Sbjct: 421 DLKNEKIIKKLEDLGVEQELIDILELSLELILQFAEYGIKTIEDLGEMSVNEFKNLAPNS 480

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYK 508
                             + ++ +I  AR  
Sbjct: 481 --------------NITDENIKLLIKTARQH 497


>gi|254428350|ref|ZP_05042057.1| NusA N-terminal domain family [Alcanivorax sp. DG881]
 gi|196194519|gb|EDX89478.1| NusA N-terminal domain family [Alcanivorax sp. DG881]
          Length = 502

 Score =  541 bits (1394), Expect = e-151,   Method: Composition-based stats.
 Identities = 204/518 (39%), Positives = 326/518 (62%), Gaps = 24/518 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS-DIRVEINPETGDISLFR 64
             E+L +A+ V+ EK + RDV+   +  ++  A +  +     +IRV+I+  +G+   FR
Sbjct: 2   NKEILLVAETVSNEKGVSRDVIFEAIELALAAATKKRFKQEDVEIRVDIDRVSGNAKSFR 61

Query: 65  LLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           +  VV  EE+  +  Q++L  A ++D S+ IG +  + +    FGR+A Q+AKQVI+QKV
Sbjct: 62  VWHVVPDEELYEFGKQLTLDEAHEQDTSLQIGDIWEEEVESEAFGRIAAQTAKQVIVQKV 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER +   E++D++G+++SGTVK+    ++I+DLG N++ +I R+  I RE +R  DR
Sbjct: 122 REAERRQIVEEYRDRIGDLVSGTVKKASRDSIILDLGGNAEALITREHMIPREAVRQNDR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++Y+  V  E RGPQ+  SR  P  +++LF +EVPEI   ++++K  +RDPGSRAK+AV
Sbjct: 182 IRAYLLGVNEENRGPQLFASRACPDMLIELFKIEVPEIGEELIEIKGAARDPGSRAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A  VINA++PA V  +V+
Sbjct: 242 KTNDQRIDPVGACVGMRGARVQAVSNELAGERIDIVLWDDNPAQLVINAMQPAEVASIVM 301

Query: 302 DEDVGRIEVIVPKEQ-LSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           DE+   +++ V  E  L+ AIGR GQN+RLAS+LTGW ++++T ++    ++++  +  Q
Sbjct: 302 DEESHSMDIAVEDESALAQAIGRSGQNIRLASELTGWELNVMTIDDAETKQEEEAEQALQ 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F+  ++VDE +A +LV EGF+ +EE+A V   E+ +I+GFDEE    ++ RA++ L   
Sbjct: 362 TFINELDVDEDVAGVLVDEGFSTLEEVAYVPEEEMLAIDGFDEEIVELLRQRAKDALLTK 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  ++K  +   +E+L ++ G+D ++ V L   GI TMEDLA  +VDDLL         
Sbjct: 422 ALVSEEKFEQAEPAEDLLNMEGMDRELAVELASRGIVTMEDLAEQAVDDLLEIE------ 475

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
                      G  +++   +I+ AR    W E E  A
Sbjct: 476 -----------GLSEERAAELIMTARAP--WFEGEDEA 500


>gi|67459264|ref|YP_246888.1| transcription elongation factor NusA [Rickettsia felis URRWXCal2]
 gi|67004797|gb|AAY61723.1| N utilization substance protein A, transcription termination factor
           NusA [Rickettsia felis URRWXCal2]
          Length = 503

 Score =  541 bits (1394), Expect = e-151,   Method: Composition-based stats.
 Identities = 241/511 (47%), Positives = 357/511 (69%), Gaps = 17/511 (3%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +   +E+LQI D+VA EK I +++++S +  ++Q A R  YG   +I+ +IN +TG+I
Sbjct: 1   MSNIGNVEILQIIDSVAREKGISKEILISTVEQAVQVAGRKKYGNEYNIKAQINRKTGEI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +L R+L++VE+VE+Y  QISL+ A  ++P   IG  + + LPP+D  RV+ Q+AKQVI Q
Sbjct: 61  NLLRILKIVEDVEDYLTQISLEEALIKNPEAKIGDEIYEYLPPIDHARVSAQAAKQVITQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +V EAER++QY +FKD+ GEII+G VKR+EYG++IVDL  ++ +I++D+ I  EN +P D
Sbjct: 121 RVIEAEREKQYHDFKDRKGEIINGIVKRIEYGDIIVDLSRAEAIIKKDQLIKGENFKPND 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K Y+ DVR+E +GPQ+ LSR   Q +VKLF +EVPEI   I+Q+K+V+RDPGS+AK+A
Sbjct: 181 RIKVYVQDVRQETKGPQIFLSRVDNQMLVKLFKLEVPEILEDIIQIKSVARDPGSKAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA---LRPAIVT 297
           VF+SDSSIDPVG+CVG+RG+RV+A+  EL  EKIDIV+WS D A F++NA   L P  +T
Sbjct: 241 VFASDSSIDPVGSCVGIRGNRVKAITNELNGEKIDIVLWSNDLAQFIVNALAPLAPGEIT 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           K+++DED  ++EV+V +E  S+AIGRRGQNVRLAS+LTGW IDI+TEE++S  R ++F  
Sbjct: 301 KILIDEDRHKVEVVVSQENQSIAIGRRGQNVRLASKLTGWNIDIMTEEQESKRRNEEFLT 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
            T+ FM+A++V+E+I  LL   GF  VE++A  ++S +  IEGF+EE AVEI+ RA  Y+
Sbjct: 361 STELFMEALDVEEVIGQLLSVTGFNSVEQIATSEVSALTRIEGFEEELAVEIKNRAINYV 420

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
           +  +  + KK+ +LGV +EL  I  +  ++ +   E GIKT+EDL   SV++    + N 
Sbjct: 421 DLKNEKIIKKLEDLGVEQELIDILELPLELILKFAEYGIKTIEDLGEMSVNEFKNLAPNS 480

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYK 508
                             + ++ +I  AR  
Sbjct: 481 --------------NITDENIKLLIKTARQH 497


>gi|15604408|ref|NP_220925.1| transcription elongation factor NusA [Rickettsia prowazekii str.
           Madrid E]
 gi|20139314|sp|Q9ZCZ7|NUSA_RICPR RecName: Full=Transcription elongation protein nusA
 gi|3861102|emb|CAA15002.1| N UTILIZATION SUBSTANCE PROTEIN A (nusA) [Rickettsia prowazekii]
 gi|292572170|gb|ADE30085.1| N utilization substanceprotein A,transcription termination factor
           NusA [Rickettsia prowazekii Rp22]
          Length = 503

 Score =  540 bits (1393), Expect = e-151,   Method: Composition-based stats.
 Identities = 241/511 (47%), Positives = 361/511 (70%), Gaps = 17/511 (3%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +   +E+LQI D+VA EK I +++++S +  ++Q A R  YG   +I+ +IN +TG+I
Sbjct: 1   MSNIYNIEILQIIDSVAREKGISKEILISTVEQAVQVAGRKKYGNEYNIKAQINRKTGEI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +L R+L++VE+VE+Y  QISL+ A  ++P   IG  + + LPP+D  RV+ Q+AKQVI Q
Sbjct: 61  NLLRILKIVEDVEDYLTQISLEDALVKNPEAKIGDEIYEYLPPIDHARVSAQAAKQVITQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +V EAER++QY +FKD+ G+II+G VKR+EYG++IVDL  ++ +I++D+ I  E+ +P D
Sbjct: 121 RVIEAEREKQYHDFKDRKGDIINGIVKRIEYGDIIVDLSRAEAIIKKDQLIKGEHFKPND 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K+Y+ DVR+E +GPQ+ LSR   Q +VKLF +EVPEI   I+Q+K+V+RDPGS+AK+A
Sbjct: 181 RIKAYVQDVRQETKGPQIFLSRVDNQMLVKLFKLEVPEILEDIIQIKSVARDPGSKAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA---LRPAIVT 297
           VF+SDSSIDPVG+CVG+RG+RV+AV  EL  EKIDIV+WS D A F++N+   L P+ +T
Sbjct: 241 VFASDSSIDPVGSCVGIRGNRVKAVTNELNGEKIDIVLWSNDLAQFIVNSLIPLAPSEIT 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           K+++DED  ++EV+V +E  S+AIGRRGQNVRLAS+LTGW IDI+TEE++S  R ++F+ 
Sbjct: 301 KILIDEDSHKVEVVVSQEHQSIAIGRRGQNVRLASKLTGWNIDIMTEEQESKRRNEEFST 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
            T+ FM+A++V+E+I  LL   GF  VE++A  +IS +  IEGF+EE AVEI+ RA  Y+
Sbjct: 361 STELFMEALDVEEVIGQLLSVTGFNSVEQIASSEISTLTRIEGFEEELAVEIKNRAIHYV 420

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
           +  +  + KK+ ELGV +EL  I  +  ++ +   E GIKT+EDL   SV++    + N 
Sbjct: 421 DLKNEKIIKKLEELGVEQELIDILELPLELILKFAEYGIKTIEDLGEMSVNEFKNLAPNS 480

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYK 508
                             + ++ +I  AR+ 
Sbjct: 481 --------------NITDENIKLLIKTARHH 497


>gi|157964683|ref|YP_001499507.1| transcription elongation factor NusA [Rickettsia massiliae MTU5]
 gi|157844459|gb|ABV84960.1| N utilization substance protein A, transcription termination factor
           NusA [Rickettsia massiliae MTU5]
          Length = 503

 Score =  540 bits (1392), Expect = e-151,   Method: Composition-based stats.
 Identities = 242/487 (49%), Positives = 352/487 (72%), Gaps = 3/487 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +   +E+LQI D+VA EK I +++++S +  ++Q A R  YG   +I+ +IN +TG+I
Sbjct: 1   MSNIGNVEILQIIDSVAREKGISKEILISTVEQAVQAAGRKKYGNEYNIKAQINRKTGEI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +L R+L++VE+VE+Y  QISL+ A  ++P   IG  + + LPP+D  RV+ Q+AKQVI Q
Sbjct: 61  NLLRILKIVEDVEDYLTQISLEEALIKNPEAKIGDEIYEYLPPIDHARVSAQAAKQVITQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +V EAER++QY +FKD+ GEII+G VKR+EYG++IVDL  ++ +I++D+ I  EN +P D
Sbjct: 121 RVIEAEREKQYHDFKDRKGEIINGIVKRIEYGDIIVDLSRAEAIIKKDQLIKGENFKPND 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K+Y+ DVR+E +GPQ+ LSR   Q +VKLF +EVPEI   I+Q+K+V+RDPGS+AK+A
Sbjct: 181 RIKAYVQDVRQETKGPQIFLSRVDNQMLVKLFKLEVPEILEAIIQIKSVARDPGSKAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA---LRPAIVT 297
           VF+SDSSIDPVG+CVG+RG+RV+AV  EL  EKIDIV+WS D A F++NA   L P  +T
Sbjct: 241 VFASDSSIDPVGSCVGIRGNRVKAVTNELNGEKIDIVLWSNDLAQFIVNALAPLAPGEIT 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           K+++DED  ++EV+V +E  S+AIGRRGQNVRLASQLTGW IDI+TEE++S  R ++F  
Sbjct: 301 KILIDEDRHKVEVVVSQENQSIAIGRRGQNVRLASQLTGWNIDIMTEEQESKRRNEEFLT 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
            T+ FM+A++V+E+I  LL   GF  VE++A  +IS +  IEGF+EE AVEI+ RA  Y+
Sbjct: 361 STELFMEALDVEEVIGQLLSVTGFNSVEQIASSEISTLTRIEGFEEELAVEIKNRAINYV 420

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
           +  +  + KK+ +LGV +EL  I  +  ++ +   E GIKT+EDL   SV++    + N 
Sbjct: 421 DLKNEKIIKKLEDLGVEQELIDILELSLELILKFAEYGIKTIEDLGEMSVNEFKNLAPNS 480

Query: 478 GGNIEKF 484
               E  
Sbjct: 481 NITDENI 487


>gi|241760381|ref|ZP_04758476.1| transcription elongation factor NusA [Neisseria flavescens SK114]
 gi|241319259|gb|EER55737.1| transcription elongation factor NusA [Neisseria flavescens SK114]
          Length = 501

 Score =  540 bits (1392), Expect = e-151,   Method: Composition-based stats.
 Identities = 209/517 (40%), Positives = 318/517 (61%), Gaps = 30/517 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK+++ +VV   +  ++  AA+        D+RVEI+ +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVETEVVFKALEFALSTAAKKKADREHMDVRVEIDRDTGEYQTFRRW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 64  LIVADEDYTYPEVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I R+E I REN R GD
Sbjct: 124 RDAEREQNLNEFLASKEDIVSGTVKRVERHGIIVEVVAGKLDALIPREEMIPRENFRSGD 183

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         QV+LSRT   F+ KL+  EVPEI +G+++++ V+RDPG RAK
Sbjct: 184 RIRALFLRVDEIGNTGRKQVILSRTSGDFLAKLYANEVPEIADGLLEIREVARDPGQRAK 243

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+IDIV+WSP+ A FV+NAL PA V++
Sbjct: 244 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDIVLWSPEPAQFVMNALSPAEVSR 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   ++VIV + QL+LAIGR GQNVRLAS LTGW ++I+T EE       +    
Sbjct: 304 IVIDEDKHAVDVIVDENQLALAIGRGGQNVRLASILTGWQLNIMTVEEADERNAAEDAVI 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
              F   +N+D+  A +LV EGFA +EE+A V  +E+ SI+GFDEE    ++ RAR+ + 
Sbjct: 364 RNLFTTHLNIDDETADILVEEGFATLEEVAYVPAAELLSIDGFDEEIVETLRNRARDAIL 423

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            I I  ++K+ E  VSE++ ++ G+DS +   L E G+   +DLA  SVD+L+  +    
Sbjct: 424 TITIAAEEKLGE--VSEDMRNLDGVDSDMLRKLAEAGVTQRDDLAELSVDELVEIT---- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                        G  +++ + +I+ AR    W  +E
Sbjct: 478 -------------GVDEEEAKKVILAAREH--WFTEE 499


>gi|298369368|ref|ZP_06980686.1| transcription termination/antitermination protein NusA [Neisseria
           sp. oral taxon 014 str. F0314]
 gi|298283371|gb|EFI24858.1| transcription termination/antitermination protein NusA [Neisseria
           sp. oral taxon 014 str. F0314]
          Length = 500

 Score =  540 bits (1391), Expect = e-151,   Method: Composition-based stats.
 Identities = 204/516 (39%), Positives = 322/516 (62%), Gaps = 30/516 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RVEI+ +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDTEVVFQALEFALSTAAKKKANREHMDVRVEIDRDTGEYRTFRRW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P   I IG    + L    FGR A Q+AKQ+I+Q++
Sbjct: 64  LIVADEDYTYPDVEKTIEEIQEEIPGTEIQIGEYYEEQLENEGFGRQAAQTAKQIILQRI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF  +  +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R GD
Sbjct: 124 RDAEREQILNEFLARKEDIVSGTVKRVERHGIIVEVVSGKLDALIPRDQMIPRENFRSGD 183

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++ +  V         QV+LSRT   F+ KL+ MEVPEI +G ++++AV+RDPG RAK
Sbjct: 184 RIRALLLRVDEIGSTGRKQVILSRTDKNFLAKLYAMEVPEIEDGSLEIRAVARDPGQRAK 243

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+ID+V+WSP++A FVINAL PA VT+
Sbjct: 244 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSPETAQFVINALSPAEVTR 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   ++V+V ++QL+LAIGR GQNVRLAS LT W ++I+T  E     + +    
Sbjct: 304 IVIDEDKHAVDVVVAEDQLALAIGRGGQNVRLASDLTEWQLNIMTVAEADERNEAEDEAI 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            + F + +N+DE  A +L+ EGFA +EE+A V  +E+  I+GFDEE    ++ RAR+ + 
Sbjct: 364 RKLFTEHLNIDEETADILLQEGFATLEEVAYVPAAELLEIDGFDEEIVEVLRNRARDAIL 423

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            + I  ++K+ +  V+++L S+ G+D+++   L + GI T +DLA  +VD+L+  +    
Sbjct: 424 TLAIASEEKLED--VADDLRSLEGLDTEMLRDLAQAGIITRDDLAELAVDELIEIT---- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                        G  +++ + +I+ AR    W  +
Sbjct: 478 -------------GVTEEEAKKVILAAREH--WFTE 498


>gi|319637701|ref|ZP_07992467.1| N utilization substance protein A [Neisseria mucosa C102]
 gi|317400856|gb|EFV81511.1| N utilization substance protein A [Neisseria mucosa C102]
          Length = 497

 Score =  539 bits (1390), Expect = e-151,   Method: Composition-based stats.
 Identities = 207/516 (40%), Positives = 317/516 (61%), Gaps = 30/516 (5%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLLE 67
           +LQ+A+A+A EK+++ +VV   +  ++  AA+        D+RVEI+ +TG+   FR   
Sbjct: 1   MLQLAEALASEKNVETEVVFKALEFALSTAAKKKADREHMDVRVEIDRDTGEYQTFRRWL 60

Query: 68  VV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           +V  E+      + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++R
Sbjct: 61  IVADEDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRIR 120

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGDR 181
           +AER++   EF     +I+SGTVKRVE   +IV++  G  D +I R+E I REN R GDR
Sbjct: 121 DAEREQNLNEFLASKEDIVSGTVKRVERHGIIVEVVAGKLDALIPREEMIPRENFRSGDR 180

Query: 182 VKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           +++    V         QV+LSRT   F+ KL+  EVPEI +G+++++ V+RDPG RAK+
Sbjct: 181 IRALFLRVDEIGNTGRKQVILSRTSGDFLAKLYANEVPEIADGLLEIREVARDPGQRAKV 240

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV ++D  IDP G C+G+RGSRV AV  EL  E+IDIV+WSP+ A FV+NAL PA V+++
Sbjct: 241 AVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDIVLWSPEPAQFVMNALSPAEVSRI 300

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           V+DED   ++VIV + QL+LAIGR GQNVRLAS LTGW ++I+T EE       +     
Sbjct: 301 VIDEDKHAVDVIVDENQLALAIGRGGQNVRLASILTGWQLNIMTVEEADERNAAEDAVIR 360

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             F   +N+D+  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ +  
Sbjct: 361 NLFTTHLNIDDETADILVEEGFATLEEVAYVPAAELLAIEGFDEEIVETLRNRARDAILT 420

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           + I  ++K+ E  VSE++ ++ G+DS +   L E G+   +DLA  SVD+L+  +     
Sbjct: 421 MTIAAEEKLGE--VSEDMRNLDGVDSDMLRKLAEAGVTQRDDLAELSVDELVEIT----- 473

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                       G  +++ + +I+ AR    W  +E
Sbjct: 474 ------------GVDEEEAKKVILAAREH--WFTEE 495


>gi|239946885|ref|ZP_04698638.1| transcription elongation factor NusA [Rickettsia endosymbiont of
           Ixodes scapularis]
 gi|239921161|gb|EER21185.1| transcription elongation factor NusA [Rickettsia endosymbiont of
           Ixodes scapularis]
          Length = 503

 Score =  539 bits (1389), Expect = e-151,   Method: Composition-based stats.
 Identities = 242/511 (47%), Positives = 357/511 (69%), Gaps = 17/511 (3%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +   +E+LQI D+VA EK I +++++S +  ++Q A R  YG   +I+ +IN +TG+I
Sbjct: 1   MSNIGNVEILQIIDSVAREKGISKEILISTVEQAVQVAGRKKYGNEYNIKAQINRKTGEI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +L R+L++VE VE+Y  QISL+ A  ++P   IG  + + LPP+D  RV+ Q+AKQVI Q
Sbjct: 61  NLLRILKIVENVEDYLTQISLEEALIKNPEAKIGDEIYEYLPPIDHARVSAQAAKQVITQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +V EAER++QY +FKD+ GEII+G VKR+EYG++IVDL  ++ +I++D+ I  EN +P D
Sbjct: 121 RVIEAEREKQYHDFKDRKGEIINGIVKRIEYGDIIVDLSRAEAIIKKDQLIKGENFKPND 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K+Y+ DVR+E +GPQ+ LSR   Q +VKLF +EVPEI   I+Q+K+++RDPGS+AK+A
Sbjct: 181 RIKAYVQDVRQETKGPQIFLSRVDNQMLVKLFKLEVPEILEDIIQIKSIARDPGSKAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA---LRPAIVT 297
           VF+SDSSIDPVG+CVG+RG+RV+AV  EL  EKIDIV+WS D A F++NA   L P  +T
Sbjct: 241 VFASDSSIDPVGSCVGIRGNRVKAVTNELNGEKIDIVLWSNDLAQFIVNALAPLAPGEIT 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           K+++DED  ++EV+V +E  S+AIGRRGQNVRLAS+LTGW IDI+TEE++S  R ++F  
Sbjct: 301 KILIDEDRHKVEVVVSQENQSIAIGRRGQNVRLASKLTGWNIDIMTEEQESKRRNEEFLT 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
            T+ FM+A++V+E+I  LL   GF  VE++A  +IS +  IEGF+EE AVEI+ RA  Y+
Sbjct: 361 STELFMEALDVEEVIGQLLSVTGFNSVEQIASSEISTLTRIEGFEEELAVEIKNRAINYV 420

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
           +  +  + KK+ +LGV +EL  I  +  ++ +   E GIKT+EDL   SV++    + N 
Sbjct: 421 DLKNEKIIKKLEDLGVEQELIDILELPLELILKFAEYGIKTIEDLGEMSVNEFKNLAPNS 480

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYK 508
                             + ++ +I  AR  
Sbjct: 481 --------------NITDENIKLLIKTARQH 497


>gi|319760247|ref|YP_004124185.1| transcription elongation protein nusA [Candidatus Blochmannia vafer
           str. BVAF]
 gi|318038961|gb|ADV33511.1| transcription elongation protein nusA [Candidatus Blochmannia vafer
           str. BVAF]
          Length = 507

 Score =  538 bits (1388), Expect = e-151,   Method: Composition-based stats.
 Identities = 190/520 (36%), Positives = 308/520 (59%), Gaps = 30/520 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ ++ +   +  ++  A +  Y    DIRV I+ ++G I  FR 
Sbjct: 2   NKEILFVVEAVSNEKSVPKEKIFLALESALITATKKQYQQDIDIRVTIDRKSGKICTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV++V + T +I+L+ AR  +  I I   + D +  + F R+  Q+AKQVIIQK+REA
Sbjct: 62  WIVVDQVVHPTKEITLEAARLENSKISINDYIEDIVESVGFDRITTQTAKQVIIQKLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F ++ G II+G +K++    + VDLGN ++G+I+R++ + REN R GDR++ 
Sbjct: 122 ERMIIIEQFLNRQGSIITGVIKKINRNAIHVDLGNNAEGIIKREDMLPRENFRLGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+ E +G Q+ +SRT  + +++LF +EVPEI   ++ VK+ +RDPGSR+K+AV ++
Sbjct: 182 ILCLVKPESKGHQLFISRTCTEMLIELFRIEVPEIGEEVITVKSAARDPGSRSKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+GACVGMRG+RVQAV +EL  E+ID+++W  +   FVINA+ PA V  +++DED
Sbjct: 242 DKRIDPIGACVGMRGARVQAVSSELGGERIDVILWDDNPVQFVINAMSPADVVSIIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V +  L+ AIGR GQN+RL SQL+GW ++++T  E    RQ +       F+ 
Sbjct: 302 KHSMDISVDESNLAQAIGRNGQNIRLVSQLSGWALNVMTTHELEKKRQSELYNTINIFVH 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEG-FDEETAVEIQGRAREYLEG---- 419
            +N+DE  A +L+  GF+ +EELA V I+E+ SI G FD +T   ++ +A++ L      
Sbjct: 362 VLNIDEKSARVLIDSGFSSLEELAYVPITELLSIGGVFDIKTVELLRSKAKQALTNFTES 421

Query: 420 ------IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGW 473
                 +  + Q     +    EL  + G+  +I + L E+GI T++DLA     D+L  
Sbjct: 422 GGSIGSMHKSNQDNCDSVNAVSELLKLSGLKYEIALKLVEHGIYTLQDLAEQ---DILSL 478

Query: 474 SENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           SE K                   ++  +I+ AR  + W  
Sbjct: 479 SEIK--------------ELTTKEIGDLIMEAR-NICWFN 503


>gi|261379745|ref|ZP_05984318.1| L factor [Neisseria subflava NJ9703]
 gi|284797423|gb|EFC52770.1| L factor [Neisseria subflava NJ9703]
          Length = 501

 Score =  538 bits (1386), Expect = e-150,   Method: Composition-based stats.
 Identities = 208/517 (40%), Positives = 319/517 (61%), Gaps = 30/517 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK+++ +VV   +  ++  AA+        D+RVEI+ +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVETEVVFKALEFALSTAAKKKADREHMDVRVEIDRDTGEYQTFRRW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 64  LIVADEDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I R+E I REN R GD
Sbjct: 124 RDAEREQNLNEFLASKEDIVSGTVKRVERHGIIVEVVAGKLDALIPREEMIPRENFRSGD 183

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         QV+LSRT   F+ KL+  EVPEI +G+++++ V+RDPG RAK
Sbjct: 184 RIRALFLRVDEIGNTGRKQVILSRTSGDFLAKLYANEVPEIADGLLEIREVARDPGQRAK 243

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDP G C+G+RGSRV AV  EL  E+IDIV+WSP++A FV+NAL PA V++
Sbjct: 244 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGERIDIVLWSPETAQFVMNALSPAEVSR 303

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DED   ++VIV + QL+LAIGR GQNVRLAS LTGW ++I+T EE       +    
Sbjct: 304 IVIDEDKHAVDVIVDENQLALAIGRGGQNVRLASILTGWQLNIMTVEEADERNAAEDAVI 363

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
              F   +N+D+  A +LV EGFA +EE+A V  +E+ +I+GFDEE    ++ RAR+ + 
Sbjct: 364 RNLFTTHLNIDDETADILVEEGFATLEEVAYVPAAELLAIDGFDEEIVETLRNRARDAIL 423

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
            I I  ++K+ E  VSE++ ++ G+DS +   L E G+   +DLA  SVD+L+  +    
Sbjct: 424 TITIAAEEKLGE--VSEDMRNLDGVDSDMLRKLAEAGVTQRDDLAELSVDELVEIT---- 477

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                        G  +++ + +I+ AR    W  +E
Sbjct: 478 -------------GVDEEEAKKVILAAREH--WFTEE 499


>gi|294085149|ref|YP_003551909.1| NusA antitermination factor [Candidatus Puniceispirillum marinum
           IMCC1322]
 gi|292664724|gb|ADE39825.1| NusA antitermination factor [Candidatus Puniceispirillum marinum
           IMCC1322]
          Length = 531

 Score =  536 bits (1383), Expect = e-150,   Method: Composition-based stats.
 Identities = 260/511 (50%), Positives = 353/511 (69%), Gaps = 17/511 (3%)

Query: 3   SANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISL 62
           S   +EL+Q+AD VA EKSIDR+ V+  M ++IQKA R+ YG   DIR  I+ ++G I L
Sbjct: 5   SIPGMELIQVADVVAREKSIDREEVMLAMEEAIQKAGRAKYGLERDIRAMIDRKSGAIRL 64

Query: 63  FRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            R +EVVEEVE+   QIS+       P++ +G      LPP++FGR+A Q+AKQVI QKV
Sbjct: 65  ERWMEVVEEVEDDETQISVDEGAKLTPAVGLGEFSKQSLPPIEFGRIAAQTAKQVISQKV 124

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           R+AER RQ+ E+KD+VGEI+ GT+KR E  ++ VDLG ++ VIRR+E I RENLR GDRV
Sbjct: 125 RDAERARQFEEYKDRVGEIVVGTIKRAESYSITVDLGRAEAVIRREEMIPRENLRQGDRV 184

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++YI DVR EQRGPQ+ LSR   +FM KLF  EVPEIY+GI+++K V+R+ GSRAK++V 
Sbjct: 185 RAYIIDVREEQRGPQIFLSRACNEFMAKLFTQEVPEIYDGIIEIKGVAREAGSRAKISVL 244

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D  IDPVGACVGMRGSRVQAVV EL+ EK++I+ ++ D A FV+NAL PA V KVV+D
Sbjct: 245 SNDPGIDPVGACVGMRGSRVQAVVGELQGEKVEIIPFNDDPAAFVVNALAPAEVAKVVMD 304

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E  GR+EV+VP +QLSLAIGRRGQNVRLASQL+GW IDI+TE E+S  RQ++F  R+  F
Sbjct: 305 EVAGRMEVVVPDDQLSLAIGRRGQNVRLASQLSGWYIDILTEAEESERRQEEFRTRSTGF 364

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           ++A+N+D++IAHLLVAEGF   EE+A   I E+A+I+GFDE+ A E+Q RA +Y+E    
Sbjct: 365 IEALNIDDVIAHLLVAEGFVLPEEIAESTIEELANIQGFDEDIATELQNRAVDYVERETT 424

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
            + + + +L V+++L +   I   + ++L EN I              L   +    + E
Sbjct: 425 RINEALDKLKVADDLRAFEYISLAMLLSLAENNI--------------LTLDDLADLDNE 470

Query: 483 KFDGFLSSLGTPKD-QVESMIIHARYKMGWI 512
           +    L   G   D +   +I+ AR    W 
Sbjct: 471 ELVSLLGEHGLSDDAEAGDIIMAARAH--WF 499


>gi|188577681|ref|YP_001914610.1| transcription elongation factor NusA [Xanthomonas oryzae pv. oryzae
           PXO99A]
 gi|188522133|gb|ACD60078.1| N utilization substance protein A [Xanthomonas oryzae pv. oryzae
           PXO99A]
          Length = 495

 Score =  535 bits (1380), Expect = e-150,   Method: Composition-based stats.
 Identities = 199/465 (42%), Positives = 311/465 (66%), Gaps = 5/465 (1%)

Query: 14  DAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFRLLEVVEE- 71
           DAVA EK + R+V+   +  ++  AA+  Y       RV I+ + G    +R  EVV + 
Sbjct: 2   DAVANEKGVPREVIFDAIEAALASAAKKRYPDQDVLARVTIDHKDGTYETYRRWEVVADD 61

Query: 72  --VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
             +E+   Q+ L  A D    +D+G  + + +   DFGR+A Q+AKQVI+Q+VREAER +
Sbjct: 62  VVMESPDRQVRLMDAIDEADGVDVGDYIEEQIENPDFGRIAAQAAKQVIVQRVREAERQQ 121

Query: 130 QYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYD 188
               +KD+VGE+I+G VKR E GN+ VDLG N++  I +D+ I R+ LRPGDRV+ Y+ +
Sbjct: 122 VVDAWKDRVGELITGVVKRAERGNIFVDLGGNAEAFIPKDKGIPRDVLRPGDRVRGYLAE 181

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           VR E RGPQ+ +SR  P+FM++LF +EVPE+  G+V++ A +RDPG RAK+AV + D+  
Sbjct: 182 VRSEPRGPQLFISRAAPEFMIELFKLEVPEVGQGLVEINACARDPGDRAKIAVIAHDART 241

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI 308
           DP+GAC+GMRGSRVQAV  EL  E++DIV+W+ + A FVINA+ PA V  +++DED   +
Sbjct: 242 DPIGACIGMRGSRVQAVSNELNGERVDIVLWNENPANFVINAMAPAEVQSIIVDEDKHSM 301

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINV 368
           ++ V +++L+ AIG+ GQNVRLAS+LTGW ++++T ++ +   + +     Q FM  + V
Sbjct: 302 DLAVAEDRLAQAIGKGGQNVRLASRLTGWQLNVMTADQVAAKSEAEQAAARQLFMDRLEV 361

Query: 369 DEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKI 428
           DE I+ +LV+EGF  VEE+A V + E+ ++EGFDE+   E++ RAR+ L    +  ++ +
Sbjct: 362 DEEISAILVSEGFNTVEEIAYVPVGELLAVEGFDEDIVEELRARARDALLNAALAEEEGL 421

Query: 429 RELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGW 473
                +E+L ++ G+D +  VAL E+G++T EDL+  + D+++ +
Sbjct: 422 EGTQPTEDLLALEGMDEETAVALAEHGVRTSEDLSDLAADEIVDF 466


>gi|288940250|ref|YP_003442490.1| NusA antitermination factor [Allochromatium vinosum DSM 180]
 gi|288895622|gb|ADC61458.1| NusA antitermination factor [Allochromatium vinosum DSM 180]
          Length = 499

 Score =  533 bits (1375), Expect = e-149,   Method: Composition-based stats.
 Identities = 193/510 (37%), Positives = 306/510 (60%), Gaps = 25/510 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK +   V+   +  ++  A R  +G   D+RV I+ +TG    FR 
Sbjct: 2   SKEILNVVEAVSNEKDVPEGVIFEAIEAALASATRKKHGGEIDVRVTIDRKTGSYRTFRR 61

Query: 66  LEVVEE-----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            E+V +     +E    QI+   A   +P + IG  + + +    FGR+A Q+AKQVI+Q
Sbjct: 62  WEIVSDPESGMLEAPARQITASAAAILEPELSIGDFMEEEIESELFGRIAAQTAKQVIVQ 121

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPG 179
           KVR+AER +    F  + G++++G VK+ E G +++DLGN ++ ++ RD  I RE++RPG
Sbjct: 122 KVRDAERAKIVDAFASRQGQLVTGIVKKAERGTILLDLGNNAEALVPRDHVIPRESVRPG 181

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR++ Y+YDVR EQ+GPQ+ +SRT P+ +++LF +EVPE+  G++++   +RDPG RAK+
Sbjct: 182 DRLRGYLYDVRSEQKGPQLFVSRTAPELLIELFKLEVPEVGEGLIEILGAARDPGVRAKI 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV + D  IDPVGACVGMRGSRVQAV  EL  E++DI++W  + A FVINA+ PA V  +
Sbjct: 242 AVRTRDPRIDPVGACVGMRGSRVQAVSNELNGERVDIILWDENPAQFVINAMSPADVVSI 301

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           V+DE+   ++V V +E L+ AIGR GQNVRLA+QL+GW ++++ E++ +   +++     
Sbjct: 302 VIDEEARSMDVAVKEENLAQAIGRFGQNVRLATQLSGWELNVMNEKDAAAKSEQEARRSA 361

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           Q FM  + +DE +A LLV EGF+ V+E+A V + E+ +I+  D+ET   ++ RA + L  
Sbjct: 362 QVFMDQLGIDEGLATLLVEEGFSSVDEVAYVPLDEMRAIDELDDETIELLRERANDVLVT 421

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
             I  ++     G+S  L ++ G+D  +   L E GI T                     
Sbjct: 422 RAIATEEVDEVGGMS--LSALEGMDEALVEVLAERGIAT-----------------LDDL 462

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKM 509
                D  +   G  +++   +I+ AR  M
Sbjct: 463 ADLAVDDLMEIEGMDEERAARLIMKAREPM 492


>gi|307256660|ref|ZP_07538439.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 10 str. D13039]
 gi|306864708|gb|EFM96612.1| Transcription termination factor NusA [Actinobacillus
           pleuropneumoniae serovar 10 str. D13039]
          Length = 453

 Score =  532 bits (1372), Expect = e-149,   Method: Composition-based stats.
 Identities = 194/470 (41%), Positives = 299/470 (63%), Gaps = 20/470 (4%)

Query: 46  MSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMD 105
             D+RV I+ +TGD   FR   VVE+V N T +ISL+ A+  +PS+ +G +V D +  + 
Sbjct: 2   DIDVRVVIDRKTGDFQTFRRWIVVEQVHNMTREISLEAAQYENPSVQLGDIVEDEVDSIP 61

Query: 106 FGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGV 164
           F R+ +Q+A+QVI  K+REAER++   +F+ ++  II+ TVK+V    +I+DLGN ++ V
Sbjct: 62  FDRITMQTARQVISTKIREAERNKVIEQFRSQLNTIITATVKKVNREQIILDLGNQAEAV 121

Query: 165 IRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           I R++ + REN RPGDRV+  +Y ++ E +GPQ+ L+R  P  + +LF +EVPEI   ++
Sbjct: 122 IVREDMLPRENFRPGDRVRGVLYAIKPESKGPQLFLTRAKPVMLEELFKLEVPEIGEDVI 181

Query: 225 QVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSA 284
           ++K  SRDPGSRAK+AV S D  IDPVGACVGMRG+RVQA+  EL  E++DIV+W  + A
Sbjct: 182 EIKGASRDPGSRAKIAVKSHDKRIDPVGACVGMRGARVQAISNELGGERVDIVLWDDNPA 241

Query: 285 TFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            FVINA+ PA V+ +V+DED   +++ V  + L+ AIGR GQNVRLA+QLTGWT++++T 
Sbjct: 242 QFVINAMAPAEVSAIVVDEDKHAMDIAVEGKNLAQAIGRNGQNVRLATQLTGWTLNVMTT 301

Query: 345 EEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF-DE 403
           E+     Q + N+    F+ A+ +D+  A LLV EGF+ +EE+A + +SE+ +I+G  DE
Sbjct: 302 EDLDKKHQAEDNKVISLFVSALEIDDEFAQLLVDEGFSSLEEIAFIPVSELTAIDGIEDE 361

Query: 404 ETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLA 463
             A E+Q RA+  +    +  ++ +++  + + L ++ G+D  I   L E GI T+E+LA
Sbjct: 362 NLAEELQTRAKNAITAKALAEEEALKQAHIEDRLLNLEGLDRHIAFKLAEKGITTLEELA 421

Query: 464 GCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
             + DDL    E                    D+   +I+ AR ++ W  
Sbjct: 422 EQATDDLSDIEE-----------------LSADKASELIMAAR-QICWFS 453


>gi|225023298|ref|ZP_03712490.1| hypothetical protein EIKCOROL_00151 [Eikenella corrodens ATCC
           23834]
 gi|224943943|gb|EEG25152.1| hypothetical protein EIKCOROL_00151 [Eikenella corrodens ATCC
           23834]
          Length = 498

 Score =  530 bits (1367), Expect = e-148,   Method: Composition-based stats.
 Identities = 201/516 (38%), Positives = 317/516 (61%), Gaps = 29/516 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK+++ +VV   +  ++  AA+        D+RV I+  TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVESEVVFEALEFALSVAAKKKADREHMDVRVSIDRNTGEYHTFRRW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDPS--IDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      Q +++  ++  P   + IG    + L  + FGR A Q+AKQ+I+Q++
Sbjct: 64  LIVADEDYTYPDTQKTIEEIQEEFPDSPLQIGEYYEEELENVAFGRQAAQTAKQIILQRI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           R+AER++   EF  +  +++ GTVKRVE   +IV++G  D +I RD+ I REN R GDR+
Sbjct: 124 RDAEREQILQEFLARREDVVMGTVKRVERHGIIVEIGRLDALIPRDQCIPRENFRSGDRI 183

Query: 183 KSYIYDVRREQR--GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           ++    V  +      QV+LSRT  +F+VKLF  EVPEI +G++++K  +RDPG RAK+A
Sbjct: 184 RALFLRVDEQGNSGRKQVILSRTSREFLVKLFEQEVPEIEDGLLEIKEAARDPGQRAKIA 243

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D+ IDP G C+G+RGSRV AV  EL  E++D+V+WSP++A FVINAL PA V++++
Sbjct: 244 VKSNDARIDPQGTCIGVRGSRVNAVSNELAGERVDVVLWSPETAQFVINALSPAEVSRIL 303

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   ++VIV ++QL+ AIGR GQNVRLA+ LTGW ++I+T +E     + +  +   
Sbjct: 304 IDEDNHSVDVIVAEDQLAPAIGRGGQNVRLAADLTGWQLNIMTVQEAEERHEAEDAQIRS 363

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FMQ +NVDE  A LL+ EGFA +EE+A V  +E+  I GFDE T   ++ RAR+ +  +
Sbjct: 364 LFMQHLNVDEQTADLLIEEGFAALEEVAYVPAAELVEI-GFDEATVETLRNRARDAILTL 422

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            I  ++K+ E+     L ++ GID  +   L + GI T + LA  S D+L+  +      
Sbjct: 423 AIMSEEKLDEVEEE--LKTLNGIDQDMLRDLAQAGITTRDSLAELSTDELIEIT------ 474

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                      G  +++ +++I+ AR    W  + +
Sbjct: 475 -----------GVSEEEAKTVILAAREH--WFAETQ 497


>gi|27904831|ref|NP_777957.1| transcription elongation factor NusA [Buchnera aphidicola str. Bp
           (Baizongia pistaciae)]
 gi|31340243|sp|Q89AF4|NUSA_BUCBP RecName: Full=Transcription elongation protein nusA
 gi|27904229|gb|AAO27062.1| N utilization substance protein A [Buchnera aphidicola str. Bp
           (Baizongia pistaciae)]
          Length = 497

 Score =  528 bits (1362), Expect = e-148,   Method: Composition-based stats.
 Identities = 185/508 (36%), Positives = 313/508 (61%), Gaps = 19/508 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EKS+ R+ +   +  ++  A +  Y    D+RV+IN + G+   FR 
Sbjct: 2   NKEILAVVEAVSNEKSLPREKIFEALECALAIATKKKYDQEIDVRVKINRKNGNFETFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV +V   T +I+L+ A+  D ++ +   + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVNQVLQPTKEITLEAAKFEDVTVKVNDYIEDKMISVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F+   G+I++G VK++   ++ +DLGN ++ +I +++ + REN R GDRV+ 
Sbjct: 122 ERAMIVEQFRKYFGKILTGIVKKINRESITLDLGNNAEALILKEDMLPRENFRLGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y +  E RG Q+ ++R+ P+ +++LF +EVPEI   I+++K+ +RDPGSRAK+AV S+
Sbjct: 182 VLYAIYPESRGAQLFVTRSKPEMLIELFKIEVPEIGEEIIEIKSAARDPGSRAKIAVKSN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  +D VGACVGMRG+RVQAV +EL  E+IDIV+W  +SA F+IN++ PA V+ +VLDED
Sbjct: 242 DKRVDAVGACVGMRGARVQAVSSELCGERIDIVLWDKNSAQFIINSMAPAEVSSIVLDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              I++ V    L+ AIGR GQNVRLASQL+GW I+++T ++  +  Q++ ++    F +
Sbjct: 302 RHTIDIAVDSNNLAQAIGRNGQNVRLASQLSGWEINVMTVDDLKLKHQEEKDKILNIFTK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            + +D+ I+++L+ EGF+ +EEL  +  +E+ +I    +E A  I+  A++ L  I++  
Sbjct: 362 YLKIDQKISNILIDEGFSSIEELVYIPFNELLNINSITQELAYSIRESAKKALCAIELEN 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           +K I E  + ++L ++ G++ K+   L +  I ++EDLA   +DDL+             
Sbjct: 422 KKVINERKLHKDLLNLKGMNQKLAFKLAKKNIFSLEDLAEQGIDDLIDIE---------- 471

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWI 512
                      +    +I+ AR  + W 
Sbjct: 472 -------NLNSNTAGMLIMAAR-NICWF 491


>gi|319778227|ref|YP_004129140.1| Transcription termination protein NusA [Taylorella equigenitalis
           MCE9]
 gi|317108251|gb|ADU90997.1| Transcription termination protein NusA [Taylorella equigenitalis
           MCE9]
          Length = 490

 Score =  527 bits (1358), Expect = e-147,   Method: Composition-based stats.
 Identities = 192/509 (37%), Positives = 302/509 (59%), Gaps = 25/509 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E++   DA+A+EK++  + + + +  ++  A +  +   +D+ V I+ +TG+    R  E
Sbjct: 4   EIIHFIDAMAHEKNLPVEEIFAAIEGALASAMKKQFKEGADVVVRIDRDTGNYVGVRRWE 63

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   ++    +     A +  P I +G  + +PL P +FGR+  Q A+QVI+QK+R+
Sbjct: 64  VVPDEHGIQEPEREEIYSDAVEDHPDIKVGDFIEEPLEPQEFGRIGAQIARQVILQKMRD 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           +ER +   EF  +  +I+SG VKR++ G+V+V++G  +  + + E I +E+ R GDRV++
Sbjct: 124 SERKQWIDEFVAQNDKIVSGVVKRIDKGDVVVEVGKLEARLPKAEMIPKESFRIGDRVRA 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+  + +E +G  + LSR  P+F+ +LF  EVPEI  G++++KA +RDPG RAK+AV + 
Sbjct: 184 YVQKIDKEAKGQIIQLSRIDPEFLRELFEYEVPEIEQGLLEIKAAARDPGIRAKIAVQAY 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+G CVGMRGSRV AV  EL  E+IDIV+WS + A FVI+AL PA V+ +++DE+
Sbjct: 244 DKRIDPIGTCVGMRGSRVGAVRHELNGEQIDIVLWSDEPAEFVISALSPAHVSSIIVDEE 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              ++V+V  E L+ AIG RGQNVRLAS LTGW I+I+T EE    +Q++     + F  
Sbjct: 304 KHVMDVVVDDENLAKAIGTRGQNVRLASDLTGWQINIMTPEESQARQQEEDQSIMKLFTD 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +++DE IA +L+ EGF  +EE+A V   E+  IEGFDEE   E++ RAR  L       
Sbjct: 364 KLDIDEEIATVLIEEGFTGLEEIAYVPEQELLEIEGFDEELVHELRNRARHSLSVAAAER 423

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
            +++     S+ L  I G+ +++   L EN I T +DLA  + D+L              
Sbjct: 424 DERVAS---SKGLIDIDGLTTEMVSKLVENNISTRDDLAELATDEL-------------- 466

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIE 513
              L  L   +     +I+ AR    W E
Sbjct: 467 ---LEILDVDEATAYDIILKARAH--WFE 490


>gi|319941974|ref|ZP_08016295.1| N utilization substance protein A [Sutterella wadsworthensis
           3_1_45B]
 gi|319804627|gb|EFW01497.1| N utilization substance protein A [Sutterella wadsworthensis
           3_1_45B]
          Length = 514

 Score =  526 bits (1355), Expect = e-147,   Method: Composition-based stats.
 Identities = 205/527 (38%), Positives = 321/527 (60%), Gaps = 29/527 (5%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL--YGTMSDIRVEINPETGDISL 62
           N  ++L++ D +A EK++ +DVV  V+  ++  A +     G  +DI V ++  TG+ S 
Sbjct: 2   NSRDMLELVDVLASEKNVAKDVVFGVLELALASAVKRARFPGEDADIVVRVDRTTGEFSA 61

Query: 63  FRLLEVVEEVE---NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDF---GRVAVQSAKQ 116
            R   VV + E       Q       D  P +  G  +  PL  +D    GR   Q AKQ
Sbjct: 62  VRRWLVVPDEEGLQEPDHQEMYSDIHDEFPDLQPGDYIERPLENVDVDSAGRRFAQDAKQ 121

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENL 176
           VI+Q++R+AER++   EF ++   I++GT+KR++ G+ IV++G  +  + R++ I REN+
Sbjct: 122 VILQRLRDAEREQILAEFLERHETIVTGTIKRMDKGDAIVEVGRLEARLPRNQMIPRENM 181

Query: 177 RPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
           R GDRV++Y+  V    +G  V+LSRT P+F+ KLF +EVPEI  GI+++KA +RDPG+R
Sbjct: 182 RTGDRVRAYVDHVGDTPKGRTVILSRTSPEFIKKLFELEVPEIEEGIIEIKAAARDPGAR 241

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           AK+AV S D  +DP+G C+GMRGSRV AV TEL  E+IDIVVW+ D A FV+ AL PA V
Sbjct: 242 AKIAVASHDQRVDPIGTCIGMRGSRVNAVTTELSGERIDIVVWNADPAQFVVGALEPAKV 301

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN 356
             +V+ ED   +EV+V ++ L++AIGR GQNVRLAS+LTGW I+I+T +E S  R  + N
Sbjct: 302 RSIVMLEDSHTMEVVVDEDNLAVAIGRGGQNVRLASELTGWQINILTAQEASEKRAAEVN 361

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
              + FM+++++DE  A++L+ EGF+ VEE+A V   E+ SIE FD ET  E++ RAR  
Sbjct: 362 RIREEFMKSLDIDEAAANVLIDEGFSSVEEIAYVPEKELFSIEAFDHETIEELRQRARNK 421

Query: 417 LEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN 476
           L    IT ++ +R+     ++ ++ G+D+ +   L   G+KT++DL   +V++L+  +  
Sbjct: 422 LLADAITREENLRKADP--KMLALEGMDNDLANKLVARGVKTLDDLGDLAVEELVEMT-- 477

Query: 477 KGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQ 523
                          G  +++ + +I+ AR    W    + AD+  +
Sbjct: 478 ---------------GLDEERAKKLIMGARAH--WFGDGESADQPAE 507


>gi|329120394|ref|ZP_08249061.1| N utilization substance A [Neisseria bacilliformis ATCC BAA-1200]
 gi|327462349|gb|EGF08675.1| N utilization substance A [Neisseria bacilliformis ATCC BAA-1200]
          Length = 502

 Score =  525 bits (1354), Expect = e-147,   Method: Composition-based stats.
 Identities = 200/522 (38%), Positives = 312/522 (59%), Gaps = 31/522 (5%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLLE 67
           +LQ+A+A+A EK++D DVV   +  ++  AAR   G    ++RVEI+ +TG+   +R   
Sbjct: 1   MLQLAEALASEKNVDADVVFDALEVALSTAARKKSGREHMNVRVEIDRDTGEHRTYRRWL 60

Query: 68  VV--EEVENYTCQISLKVARDRDPS--IDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           +V  E+      + +++  ++  PS  I IG    + +    FGR A  +AKQ+I+Q++R
Sbjct: 61  IVADEDYTYPDEEKTIEEIQEEIPSTQIQIGEYYEEQIENESFGRQAAMTAKQIILQRIR 120

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGDR 181
           +AER++   +F +   +II+GTVKR E   ++V+L  G  D +I RD+ I REN R GDR
Sbjct: 121 DAEREKVLNDFLENRDDIITGTVKRTERHGIVVELIPGKLDALIPRDQCIPRENFRSGDR 180

Query: 182 VKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           +++    V    +    QV+LSR   +F+ KLF  EVPEI +G+++++  +RDPG RAK+
Sbjct: 181 IRALFLRVEEIGQSGRKQVILSRASREFLAKLFEQEVPEIADGLLEIREAARDPGHRAKI 240

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV ++D  IDP G C+G+RGSRV AV  E+  E+ID+V+WSPD+A FVINAL PA V+++
Sbjct: 241 AVKANDQRIDPQGTCIGVRGSRVNAVTNEIGGERIDVVLWSPDTAQFVINALSPAEVSRI 300

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           V+DED   ++VIV ++QL+ AIGR GQNVRLA+ LTGW ++I+T +E       +     
Sbjct: 301 VIDEDNHAVDVIVAEDQLAPAIGRGGQNVRLAADLTGWQLNIMTVKEAEERHAAEDAAIR 360

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             F + +NVDE  A +LV EGF  +EE+A V   E+  I GFDE T   ++GRAR+ +  
Sbjct: 361 SLFTEHLNVDEETATVLVEEGFTSLEEIAYVPSEELVEI-GFDEATVDALRGRARDAILS 419

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           + +  ++K++E  ++E+L ++ G D  +   L + GI   + LA  SVD+L+  +  + G
Sbjct: 420 LAMAKEEKLQE--IAEDLRTLDGTDEDMLRDLAQAGITDRDALAELSVDELIEITGVETG 477

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEE 521
                              E +I+ AR    W E+      E
Sbjct: 478 E-----------------AEKIILAARAH--WFEENNQEQGE 500


>gi|71891890|ref|YP_277620.1| transcription elongation factor NusA [Candidatus Blochmannia
           pennsylvanicus str. BPEN]
 gi|71795996|gb|AAZ40747.1| L factor [Candidatus Blochmannia pennsylvanicus str. BPEN]
          Length = 505

 Score =  523 bits (1347), Expect = e-146,   Method: Composition-based stats.
 Identities = 197/519 (37%), Positives = 314/519 (60%), Gaps = 27/519 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ ++ +   +  ++  A +  Y    ++RV I+ ++G I+ FR 
Sbjct: 2   NKEILAVIEAVSNEKAVPQEKIFEALETALAAATKKKYEQDVEVRVVIDRKSGQINTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE+V   T +I+L  AR  +P + I   V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WVVVEQVTQPTKEITLDAARFENPKVQICDYVEDVIESISFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F ++ G+I++G VK++   ++ +DLGN ++G+I R+E + REN R GDR++ 
Sbjct: 122 ERAIIIEQFLNRQGDIVTGIVKKINRDSISIDLGNNAEGMINREEMLPRENFRLGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y VR + +GPQ+L+SRT  + +++LF +EVPEI   ++ +KA +RDPGSRAK+AV ++
Sbjct: 182 ILYLVRPDFKGPQLLISRTRTEMLIELFRIEVPEIGEELITIKAAARDPGSRAKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRG+RVQAV  EL  E++D+++W  +   FVINA+ PA V  +V+DED
Sbjct: 242 DKRIDPVGACVGMRGARVQAVSGELGGERVDVILWDDNPVQFVINAMSPADVASIVIDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V +  L  AIGR GQN+RL SQL+GW ++I+T +E    RQ +    T  F+ 
Sbjct: 302 KHTMDISVEETNLPQAIGRNGQNIRLVSQLSGWELNIMTVDELEKKRQVEICTITNIFIH 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID-IT 423
           ++N+ E  A +L+  GF+ +EELA V ++E+ SI+ FD +T   I+ RA+  L+    I 
Sbjct: 362 SLNISEQFAKILIDSGFSSLEELAYVPMTELLSIKEFDRKTVEIIRDRAKSALKNFSVIH 421

Query: 424 LQKKIREL-------GVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN 476
            +K I+E             L  +P I+ K+ + L E GI T+E+LA   + DL      
Sbjct: 422 NEKNIKEDNYTAAVIHPVTGLLRLPNIEYKLALTLVERGISTLEELAEQDISDLSDIE-- 479

Query: 477 KGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                          G  K+++  +I+ AR  + W   +
Sbjct: 480 ---------------GLTKEKIGELIMEAR-NICWFNND 502


>gi|157803622|ref|YP_001492171.1| transcription elongation factor NusA [Rickettsia canadensis str.
           McKiel]
 gi|157784885|gb|ABV73386.1| transcription elongation factor NusA [Rickettsia canadensis str.
           McKiel]
          Length = 503

 Score =  522 bits (1345), Expect = e-146,   Method: Composition-based stats.
 Identities = 239/511 (46%), Positives = 353/511 (69%), Gaps = 17/511 (3%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +   +E+LQI ++VA EK I +++++S +  ++Q A R  YG   +I+ +IN +TG+I
Sbjct: 1   MSNIGNVEILQIINSVAREKGISKEILISTVEQAVQVAGRKKYGNEYNIKAQINRKTGEI 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +L R+L++VE VE+Y  QIS + A  ++P+  IG  + + LPP+D  RV+ Q+AKQVI Q
Sbjct: 61  NLLRILKIVENVEDYLTQISFEEALIKNPAAKIGDEIYEYLPPIDHARVSAQAAKQVITQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +V EAER +QY +FKD+ GEII+G VKR+EYG++IVDL  ++ +I++D+ I  EN +P D
Sbjct: 121 RVIEAERAKQYHDFKDRKGEIINGIVKRIEYGDIIVDLSRAEAIIKKDQLIKGENFKPND 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K+Y+ DVR+E +GPQ+ LSR   Q +V LF +EVPEI+  I+Q+K+V+RDPGS+AK+A
Sbjct: 181 RIKAYVQDVRQETKGPQIFLSRVDNQMLVNLFKLEVPEIFEDIIQIKSVARDPGSKAKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVIN---ALRPAIVT 297
           VF+SDSSIDPVG+CVG+RG+RV+AV  EL  EKIDIV+WS D A F++N    L  A +T
Sbjct: 241 VFASDSSIDPVGSCVGIRGNRVKAVTNELNGEKIDIVLWSNDLAQFIVNALAPLAAAAIT 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           K+++DED  ++EV+V +E  S+AIGRRGQNVRLAS+LTGW IDI+TEE++S  R ++F  
Sbjct: 301 KILIDEDSHKVEVVVSQENQSIAIGRRGQNVRLASKLTGWNIDIMTEEQESKRRNEEFLT 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
            T  FM+A++V+E+I  LL   GF  VE++A  +IS +  IEGF+EE AVEI+ RA  Y+
Sbjct: 361 STGLFMEALDVEEVIGQLLSVTGFNSVEQIANSEISTLTRIEGFEEELAVEIKNRAINYV 420

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
              +  + KK+ ELGV +E+  I  +  ++ +   E GIKT+EDL   SV++    +   
Sbjct: 421 NLKNEKIIKKLEELGVEQEVIDILELPLELILKFAEYGIKTIEDLGEMSVNEFKNLA--- 477

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYK 508
                       S     + ++ +I  AR  
Sbjct: 478 -----------PSANITDENIKLLIKTARQH 497


>gi|116515165|ref|YP_802794.1| NusA [Buchnera aphidicola str. Cc (Cinara cedri)]
 gi|116257019|gb|ABJ90701.1| transcription pausing L factor [Buchnera aphidicola str. Cc (Cinara
           cedri)]
          Length = 495

 Score =  519 bits (1338), Expect = e-145,   Method: Composition-based stats.
 Identities = 188/510 (36%), Positives = 287/510 (56%), Gaps = 19/510 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + DAV++EKSI R+ +   +  +++ A +  Y    +IRV IN  TG  + +R 
Sbjct: 2   NKEILSVVDAVSHEKSIPREKIFQALESALEIATKKKYNQDINIRVCINRSTGSFNTYRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV  V N T +I+L+ AR  +  I +   + D +  + F R+A Q AKQVIIQKVREA
Sbjct: 62  WLVVNNVFNPTKEITLEAARFENKKIQLCDYIEDCIDSVTFDRIATQIAKQVIIQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           E++    +F  K G+II G VK++    +I+D+GN  +G+I R++ + REN R  DRV+ 
Sbjct: 122 EKEIILNKFDKKKGQIIIGIVKKISRDYIILDVGNNIEGIIMREDMLPRENFRINDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y++  E++G Q+ +SR+    +++LF +EVPEI    +++KA++RDPG R+K+AV + 
Sbjct: 182 ILYNISYEKQGAQLFISRSKSDMLIELFRIEVPEIREKFIEIKAIARDPGLRSKIAVTTY 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGMRGSRVQAV  EL  E+IDI++W  +   FVIN++ PA V+ + LD  
Sbjct: 242 DERIDPVGACVGMRGSRVQAVSNELCGERIDIILWDNNPKKFVINSMAPADVSSIFLDNT 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              I + V    L+ AIGR GQNVRLASQLTGW ++IIT       ++   N        
Sbjct: 302 NHVINIEVKLCNLAQAIGRNGQNVRLASQLTGWELNIITSNPIIKIKKSKKNNFFDILKN 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
             N  E    L++  GF+ ++ +A   I+++ SI+G   +  + +Q +A   LE      
Sbjct: 362 KFNFTENDILLVIHSGFSSIKSIAYASINQLLSIKGIKTDVVLNMQKKAIFILENDKKKS 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
            K  ++  ++ E  ++  I+  I   L E  I T+E LA  S+DDL              
Sbjct: 422 IKIYKKKYLNSEFANLKNINKFIIQQLIEKKICTLEHLAEQSIDDL-------------H 468

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
           D       T      S+I+ AR  + W  +
Sbjct: 469 DISFLFFRTSW----SLIMEAR-NICWFNE 493


>gi|32490976|ref|NP_871230.1| transcription elongation factor NusA [Wigglesworthia glossinidia
           endosymbiont of Glossina brevipalpis]
 gi|25166182|dbj|BAC24373.1| nusA [Wigglesworthia glossinidia endosymbiont of Glossina
           brevipalpis]
          Length = 494

 Score =  517 bits (1332), Expect = e-144,   Method: Composition-based stats.
 Identities = 182/509 (35%), Positives = 308/509 (60%), Gaps = 20/509 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  +    D+R+ I+ ++G    FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALEKALAAATKKKHEKDIDVRISIDRKSGSFGTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +V+EV   T +I+L+ A+  +P   +   + D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WMIVDEVTQPTKEITLEAAKIENPEAKLKEYIEDKIKSVLFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +FK++ GEII+G VK++    V +DLG+ ++ VI +++ + +E  RPGDRV+ 
Sbjct: 122 ERSMIVNKFKERKGEIITGIVKKLNRDGVSLDLGSHAEAVINKEDMLPKEYFRPGDRVRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y +  E +G Q+ +SR+  + +++LF +EVPEI   ++ +KA +RDPG R+K+AV ++
Sbjct: 182 VLYYINPESKGAQLFISRSKKEMLIELFRIEVPEIGEEVINIKATARDPGLRSKIAVQTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+GACVGMRG+RVQAV  EL  E+IDIV+W  + A FVINA+ PA VT +V+DED
Sbjct: 242 DKRIDPIGACVGMRGARVQAVSRELGGERIDIVLWDENPAQFVINAMSPADVTSIVIDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V  E L+ AIG+ GQN+RLASQL+GW ++++TE++     + +       F++
Sbjct: 302 NHTMDIAVNSENLAQAIGKNGQNIRLASQLSGWELNVMTEKDLKNKNKAEEENSMNLFLE 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
            +N+++ +A  LV EGF+ +E++A + I+E+ SI+  +E+TA  ++ +A+  L  I +  
Sbjct: 362 HLNINQELAKNLVKEGFSKIEDIAYIPINELLSIDILNEKTAKLLKEQAQYALTKIALMK 421

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           ++K     + E+L  + G++S I     E GI T+EDLA   +DD+              
Sbjct: 422 EEK-ELTSLDEKLIKLSGVNSNIAYKFAEKGIFTLEDLAEQGIDDISDIK---------- 470

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                       +   +I+ AR  + W  
Sbjct: 471 -------DLSNKKAGELIMAAR-NICWFN 491


>gi|254700792|ref|ZP_05162620.1| transcription elongation factor NusA [Brucella suis bv. 5 str. 513]
 gi|261751301|ref|ZP_05995010.1| transcription elongation protein nusA [Brucella suis bv. 5 str.
           513]
 gi|261741054|gb|EEY28980.1| transcription elongation protein nusA [Brucella suis bv. 5 str.
           513]
          Length = 356

 Score =  516 bits (1329), Expect = e-144,   Method: Composition-based stats.
 Identities = 259/354 (73%), Positives = 309/354 (87%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EKSIDR++VL+ MAD+IQKAARS YG  S+IR +IN ++G+I 
Sbjct: 3   VSANRLELLQIADAVAREKSIDREIVLAAMADAIQKAARSRYGQESNIRADINAKSGEIK 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVVE VE+Y  QISL +ARDR+P   +G  ++D LPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVENVEDYATQISLFMARDRNPDAQVGDFIADQLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQY E+KD+VGEI++GTVKRVEYGNVIVDLG  + ++RRDE I RE  R GDR
Sbjct: 123 VREAERDRQYDEYKDRVGEIVNGTVKRVEYGNVIVDLGRGEAIVRRDELIPREAFRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++Y+YDVRREQRGPQ+ LSRTHPQFM KLF MEVPEIY+GI+++K+V+RDPGSRAK+AV
Sbjct: 183 IRAYVYDVRREQRGPQIFLSRTHPQFMAKLFTMEVPEIYDGIIEIKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D+SIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WSPD+A+F++NAL+PA V KVVL
Sbjct: 243 VSRDASIDPVGACVGMRGSRVQAVVAELQGEKIDIIPWSPDAASFIVNALQPAEVAKVVL 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF 355
           DED  RIEV+VP +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F
Sbjct: 303 DEDAERIEVVVPNDQLSLAIGRRGQNVRLASQLTGWDIDILTEDEESERRQKEF 356


>gi|167630355|ref|YP_001680854.1| transcription termination factor nusa [Heliobacterium modesticaldum
           Ice1]
 gi|167593095|gb|ABZ84843.1| transcription termination factor nusa [Heliobacterium modesticaldum
           Ice1]
          Length = 442

 Score =  513 bits (1321), Expect = e-143,   Method: Composition-based stats.
 Identities = 156/389 (40%), Positives = 243/389 (62%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            +E L     +  EK I ++++L  +  ++  A +  +G++ ++RV I+  TG+  ++  
Sbjct: 2   NVEFLTALKDLEREKGISKEILLEAIEAALISAYKKNFGSLQNVRVHIDRSTGEFKVYSR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEE+ +   ++ L  A+  DP+  +  V+   + P +FGR+A Q+AKQV++Q++REA
Sbjct: 62  KLIVEELTDPRVEVLLADAQRIDPNYQVNDVIETEVTPREFGRIAAQTAKQVVVQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF ++ G+I++G V+R E  NV VDLG  + ++   E ++ E  R  DR+K+Y
Sbjct: 122 ERGMIYEEFSNREGDIVTGIVQRTENKNVFVDLGKVEALLAPSEQMNGETYRHNDRIKAY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V++  +GPQVL+SRTHP  + +LF +EVPEI++G V++KA SR+ G+R+K+AV+S D
Sbjct: 182 IVEVKKTTKGPQVLISRTHPGLLKRLFELEVPEIHDGTVELKAASREAGARSKIAVYSKD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVGACVG +G RVQAVV EL+ EKIDIV W+PD A FV NAL PA V  V + E+ 
Sbjct: 242 ENVDPVGACVGPKGMRVQAVVNELKGEKIDIVKWNPDPAKFVANALSPAKVVSVDIIEEE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
               V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E +    +    +    +  + 
Sbjct: 302 KVARVVVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQVKTAKAAFIDHDENYDAEY 361

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISE 394
            + DE +            +E A     +
Sbjct: 362 EDFDEQVGEDYNEAYDDAYDEEAYDDAYD 390


>gi|325267087|ref|ZP_08133756.1| N utilization substance A [Kingella denitrificans ATCC 33394]
 gi|324981440|gb|EGC17083.1| N utilization substance A [Kingella denitrificans ATCC 33394]
          Length = 499

 Score =  510 bits (1315), Expect = e-142,   Method: Composition-based stats.
 Identities = 186/515 (36%), Positives = 306/515 (59%), Gaps = 28/515 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+L + +A+A EK+++ DVV   +  ++  AA+        ++ V IN +TG+    R  
Sbjct: 4   EILALVEALASEKNVEPDVVFEALEVALGIAAKKKADREHMNLEVRINRDTGEYRTVRKW 63

Query: 67  EVVEEVEN--YTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +VE+++      + +++  ++  P   I++G    + +P   FGR A Q+AKQ+I+Q++
Sbjct: 64  LIVEDLDYTYPELEKTIEQIQEEIPGIDINVGDYFEEDIPNEAFGRQAAQTAKQIILQRI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           R+AER++    F     +I+ GTVKRVE   ++V+L    D +I RD+ + REN R GD+
Sbjct: 124 RDAEREQILNAFLATREDIVVGTVKRVERHGIVVELAPKLDALIPRDQMLPRENYRGGDK 183

Query: 182 VKSYIYDVRREQRG-PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           +++    V     G  Q+LLSRT  +F+ KLF  EVPEI +G++ ++ V+RDPG RAK+A
Sbjct: 184 IRALFLRVEEFNGGRKQILLSRTSGEFLRKLFEQEVPEIADGLLDIREVARDPGQRAKIA 243

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDP G C+G+RGSRV AV  EL  E+ID+V+WS D+A FVINAL PA V+++V
Sbjct: 244 VKSNDQRIDPQGTCIGVRGSRVNAVSNELSGERIDVVLWSDDTADFVINALSPAQVSRIV 303

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DE+   ++VIV ++QL+LAIGR GQNVRLA++LTG  ++I+T +E     +++     +
Sbjct: 304 IDEEKNAVDVIVTEDQLALAIGRGGQNVRLAAELTGLQLNIMTVQEAEQRSEEEAAALRE 363

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F   +  DE +A  LV   F  +EE+A V +S++  IE  D+E A  ++ +AR+ L   
Sbjct: 364 LFTSQLGADETVAQALVDAEFTSIEEVAFVPMSDLTDIEEIDDELAETLRAKARDVLLQT 423

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           ++  ++K+    V+++L  + G+D  +   L +  I   EDLA  S+D+L+  +      
Sbjct: 424 ELAAEEKLN--SVADDLRELEGVDDDMLRDLVDANITNREDLAELSIDELIEIT------ 475

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                      G   ++ E +I+ AR    W  ++
Sbjct: 476 -----------GVSHEEAEQVIMAARAH--WFAQD 497


>gi|323144579|ref|ZP_08079168.1| transcription termination factor NusA [Succinatimonas hippei YIT
           12066]
 gi|322415655|gb|EFY06400.1| transcription termination factor NusA [Succinatimonas hippei YIT
           12066]
          Length = 493

 Score =  510 bits (1314), Expect = e-142,   Method: Composition-based stats.
 Identities = 198/514 (38%), Positives = 311/514 (60%), Gaps = 27/514 (5%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
            E++ IA+A++ E++I RD +   +  ++  A +  Y     +RV I+ + G    +R  
Sbjct: 3   KEIIAIAEALSNERAIPRDKIFEALETALATATKKKYPVDIAVRVAIDRKDGSYRTYRRW 62

Query: 67  EVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
            V++    +EN   ++SL  A++    I  G VV + +P + F R+ +Q+AKQV+ QKV+
Sbjct: 63  NVIDTDGPLENPASEVSLAAAKEDHQGIQAGDVVEEEIPSVKFDRITIQTAKQVLSQKVK 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           +AER++   E ++ +G +++ TVK+     +I+DLGN ++ V+RRD+ I  E    GDR+
Sbjct: 123 DAEREQIIAEQREHLGHVVNATVKKQGRDFLILDLGNNAEAVLRRDQIIPHETFGRGDRI 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           K  + ++R + +GPQ++ SRT  +F+ +LF +EVPEI   I+++ +V+RDPGSRAK++V 
Sbjct: 183 KVLLSEIRADGKGPQIICSRTANEFLSELFRIEVPEIGEDIIEIMSVARDPGSRAKISVR 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDP GAC+GMRG+RV AV  EL  EKID+V+W  + A +V NA+ PA V+K++++
Sbjct: 243 SKDRRIDPRGACIGMRGARVMAVSNELAGEKIDVVLWDENLAQYVNNAMEPAEVSKIIIN 302

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED   I+V V  E L+LAIGR GQNVRLASQ+ GW + ++TE E     + +  +  + F
Sbjct: 303 EDSHTIDVAVADENLALAIGRNGQNVRLASQILGWNLKVMTESEMEEGLKAEEGKVIKTF 362

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           + A+N+D+  A  L + GF  +EE+A V I E  SIEG D ETA+ +Q  AR+ L     
Sbjct: 363 VDALNIDDEFAEALSSVGFTTLEEIAYVPIEEFESIEGIDRETAIILQENARKAL----A 418

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++K++E G SE L  + GIDS + + L   GIK  E+LA  +VDDLL           
Sbjct: 419 EREEKLKESG-SESLTKLEGIDSDLAMKLVAVGIKDPEELAEQAVDDLLDIE-------- 469

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
                    G  +++   +I+ AR    W + EK
Sbjct: 470 ---------GMTEEKAGQIIMAAR-NECWFKDEK 493


>gi|294788742|ref|ZP_06753983.1| transcription termination/antitermination protein NusA [Simonsiella
           muelleri ATCC 29453]
 gi|294483224|gb|EFG30910.1| transcription termination/antitermination protein NusA [Simonsiella
           muelleri ATCC 29453]
          Length = 500

 Score =  510 bits (1314), Expect = e-142,   Method: Composition-based stats.
 Identities = 187/518 (36%), Positives = 307/518 (59%), Gaps = 28/518 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+L +A+A+A EK+++ +VV   +  ++  AA+        D+ V I+ +TG+    R  
Sbjct: 4   EILALAEALASEKNVEPNVVFEALETALGIAAKKKADREHMDLEVRIHRDTGEYRTVRKW 63

Query: 67  EVVEEVEN--YTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +VE+++      + +++  ++  P   I +G    + +P   FGR A Q+AKQ+I+QK+
Sbjct: 64  LIVEDLDYTYPELEKTIEQIQEEIPGIDIQVGDYYEEDIPNEAFGRQAAQTAKQIILQKI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           R+AER++    F     +I+ GTVKRVE   ++V++    D +I R++ + REN R GD+
Sbjct: 124 RDAEREQILNAFLATREDIVVGTVKRVERHGIVVEIAPKLDALIPREQALPRENYRSGDK 183

Query: 182 VKSYIYDVRREQRG-PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           +++  + V     G  QV+LSR+  +F+ KLF  EVPEI +G+++++ VSRDPG RAK+A
Sbjct: 184 IRALFWKVEELNGGRKQVMLSRSSGEFLRKLFEQEVPEIADGLLEIREVSRDPGQRAKIA 243

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+D  IDP G C+G+RGSRV AV  E+  E+ID+V+WS D+  F+INAL PA V +++
Sbjct: 244 VKSNDQRIDPQGTCIGVRGSRVNAVSNEIGGERIDVVLWSDDAGDFIINALSPANVGRII 303

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DE+    +VIV ++QL+LAIGR GQNVRLA+ LTGW ++I+T +E       +     +
Sbjct: 304 IDEEKHACDVIVEEDQLALAIGRGGQNVRLAADLTGWQLNIMTVKEAEERNAAEDAAIRE 363

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM  +N+ E IA++LV EGF  +EE+A V I E+  IE    +   +I+ +AR+ +   
Sbjct: 364 IFMSQMNLSEDIANILVQEGFTSIEEVAYVAIDELQEIEDLSADDVDDIRTKARDAVLKA 423

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +  ++K+ +  + ++L ++ G+D  +   L E  I   +DLA  S+D+L+  +      
Sbjct: 424 ALEAEEKLNQ--IDQDLKNLDGMDEDMLRDLAEANITHRDDLAELSLDELIEIT------ 475

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
                      G  KD+ E +I+ AR    W   E  A
Sbjct: 476 -----------GVSKDEAEKVIMAARAH--WFADETNA 500


>gi|213425433|ref|ZP_03358183.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. E02-1180]
          Length = 431

 Score =  509 bits (1312), Expect = e-142,   Method: Composition-based stats.
 Identities = 179/448 (39%), Positives = 278/448 (62%), Gaps = 24/448 (5%)

Query: 74  NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
             T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREAER     +
Sbjct: 1   MPTKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREAERAMVVDQ 60

Query: 134 FKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPGDRVKSYIY 187
           F+D+ GEI++G VK+V   N+ +++      GN++ VI R++ + REN RPGDR++  +Y
Sbjct: 61  FRDQEGEIVTGVVKKVNRDNISLEIKSEGMAGNAEAVILREDMLPRENFRPGDRIRGVLY 120

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+AV ++D  
Sbjct: 121 AVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDKR 180

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V+DED   
Sbjct: 181 IDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKHT 240

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + +   + F + ++
Sbjct: 241 MDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHAAIEIFTKYLD 300

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           +DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  +    +  
Sbjct: 301 IDEEFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALATLAQDQEAS 360

Query: 428 IRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGF 487
           + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL                 
Sbjct: 361 LGDNKPADDLLNLEGLDRDMAFKLAARGVCTLEDLADQGIDDLADIE------------- 407

Query: 488 LSSLGTPKDQVESMIIHARYKMGWIEKE 515
               G   ++   +I+ AR  + W   E
Sbjct: 408 ----GLTDEKAGELIMAAR-NICWFGDE 430


>gi|119713529|gb|ABL97582.1| transcription elongation factor NusA [uncultured marine bacterium
           EB0_35D03]
          Length = 491

 Score =  509 bits (1311), Expect = e-142,   Method: Composition-based stats.
 Identities = 189/515 (36%), Positives = 309/515 (60%), Gaps = 31/515 (6%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           +  EL  + +A++ EK+I +D V+  + +++  A +       D+RVE++  +G+ + FR
Sbjct: 2   DGKELFLMIEAISNEKNITKDDVIESLEEALAVATKKR--NNIDVRVEVDRHSGEFNTFR 59

Query: 65  LLEVVEEVENY------TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
             +V+E+ E +      T    L + +     +++   V +P+  M+FGR+A Q AKQVI
Sbjct: 60  RWQVIEDGEQFVDDDGNTFDSELHIYQAESGGLEVDAYVEEPMESMEFGRIAAQVAKQVI 119

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           IQKVREAER      F  +VGE++  TVKRV+ GNV VD+G  DG+I + + I  E++R 
Sbjct: 120 IQKVREAERTVVVDNFTQRVGEVVMATVKRVDRGNVFVDMGGIDGMISKYDLIPNESIRK 179

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR+++YI +V+   RG Q+ LSRT    M++LF MEVPEI  G++++KA +RDPG R+K
Sbjct: 180 NDRLRAYIKEVKSTPRGAQIFLSRTVNDMMIELFEMEVPEISEGVIEIKAGARDPGLRSK 239

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           LAV + D  IDP+G+C+GMRG+RVQAV  EL  E++DI++W  D A FVINA+ PA V+ 
Sbjct: 240 LAVKAKDKRIDPIGSCIGMRGARVQAVSNELNGERVDIILWDEDPAQFVINAMAPAEVSS 299

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+DE+ G +++ V ++QL+LAIGR GQN++LAS+LTGW +++++  +    + K+  + 
Sbjct: 300 IVVDEEKGSMDIAVEEDQLALAIGRGGQNIKLASKLTGWKLNVMSLADADDMQAKELQKT 359

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            +   + + VD  +A +L+ EG+  ++E+A  +   ++ IE FD E   E+Q RA++   
Sbjct: 360 GEKLAEKLGVDAEVAGVLIDEGYTSLDEIADAESDVLSKIEEFDSEMVGELQERAQDA-- 417

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                L K + +   +E L  + G+D  +  +L +  I T+E LA  ++ +L        
Sbjct: 418 ----QLVKALNDSEATEILLGVEGVDDALANSLVDAEITTVEALAELAIVEL-------- 465

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                    L       D   ++I+ AR K GW +
Sbjct: 466 ---------LEIQDVGNDNASAIIMAAREKEGWFD 491


>gi|88657698|ref|YP_507374.1| transcription elongation factor NusA [Ehrlichia chaffeensis str.
           Arkansas]
 gi|88599155|gb|ABD44624.1| N utilization substance protein A [Ehrlichia chaffeensis str.
           Arkansas]
          Length = 517

 Score =  508 bits (1309), Expect = e-141,   Method: Composition-based stats.
 Identities = 212/527 (40%), Positives = 342/527 (64%), Gaps = 32/527 (6%)

Query: 3   SANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISL 62
           + + LEL+++A  +A +K ++ DV++  + ++IQ  +RS YG    I+V ++ +TG ++ 
Sbjct: 6   NFDNLELIRVAKDIADQKGLNLDVIIRAIEEAIQLTSRSRYGNCK-IKVTVDKKTGVVAT 64

Query: 63  FRLLEV--------VEEVENYTCQ---------ISLKVARDRDPSIDIGGVVSDPLPPMD 105
           +R + V        V E +              I+L  A+  D ++++G ++ +PLP +D
Sbjct: 65  YRQVLVINNNGDISVPEGKENEIDFSDVSKYKLITLAEAKQIDKNVEVGDIMLEPLPVID 124

Query: 106 FGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVI 165
               + + AKQ I Q +   ER +QY +FKD+VG+I+ GT KR+EY NVIVDL  ++G +
Sbjct: 125 LDYSSAKIAKQKIAQVIISEERKKQYEDFKDRVGDIVYGTAKRIEYNNVIVDLNGNEGYL 184

Query: 166 RRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
                I  E  R GDRVK++I DVR+E  GPQ+ LSR +  FM +LF  E+PEIY+GIV 
Sbjct: 185 SASNLIKGEVFRVGDRVKAHIEDVRKENSGPQIFLSRINKGFMEQLFKQEIPEIYDGIVT 244

Query: 226 VKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSAT 285
           +KA++RDPGSR+K+AVFSSD +IDPVGACVG RG R+Q +++EL  EKID++++SP+ A 
Sbjct: 245 IKAIARDPGSRSKVAVFSSDKNIDPVGACVGARGVRIQGIISELHGEKIDVILYSPELAK 304

Query: 286 FVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           F++NA+ PA V KV++DED  ++E+I+P+ QLSLAIGR GQN+RLAS+L GW I++I +E
Sbjct: 305 FIVNAIAPAEVLKVIIDEDKEKVELIIPENQLSLAIGRYGQNIRLASELVGWKINVIGDE 364

Query: 346 EDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEET 405
            +S  + K+ +  ++ F++ ++V+EII  LL  EGF  +E++    +S+I++I+GF+EE 
Sbjct: 365 TESSRKAKELSAGSKIFVEGLDVEEIIGQLLFTEGFVSIEDIDQASVSDISAIDGFNEEI 424

Query: 406 AVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGC 465
           A E++ RA +YL   D  +++ +  L V +++  +P +     +AL +NGI ++ED+AG 
Sbjct: 425 AEELKSRAADYLVRKDAEMKQILDNLSVDKDVTMLPFLRPSDIIALSKNGINSLEDIAGL 484

Query: 466 SVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
             D+                  +  +   KDQV+S+I+ +R K+GW+
Sbjct: 485 CTDEFFD--------------IIPDIALTKDQVDSVILESRKKIGWL 517


>gi|260893511|ref|YP_003239608.1| NusA antitermination factor [Ammonifex degensii KC4]
 gi|260865652|gb|ACX52758.1| NusA antitermination factor [Ammonifex degensii KC4]
          Length = 365

 Score =  508 bits (1308), Expect = e-141,   Method: Composition-based stats.
 Identities = 164/353 (46%), Positives = 234/353 (66%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E LQ    +  E+ +  +V+LSV+  ++  A R  +GT  + RVEI+  TG+  +   
Sbjct: 2   NAEFLQALRDLERERGLKTEVLLSVIEAALLSAYRRNFGTAQNARVEIDRTTGECRVLAQ 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV++   +ISL  AR+ DP   +G VV   + P DFGR+A Q+AKQV++Q+++EA
Sbjct: 62  RTVVEEVKDPRTEISLAEAREIDPRYQVGDVVEIEVTPRDFGRIAAQTAKQVVMQRIKEA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  Y  F  + G+I++GTV R +  NV +DLG ++ ++   E I  E  R GDRV++Y
Sbjct: 122 ERNMIYEAFAGREGDIVTGTVHRADKQNVYLDLGKTEAILPAAEQIPGERYRQGDRVRAY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +VRR  +GPQ++LSRTHP F+ +L  +EVPE+  G V++K + R+PGSR+K+AV+S D
Sbjct: 182 ILEVRRTPKGPQIILSRTHPGFLRRLLELEVPELQEGTVELKNLVREPGSRSKVAVYSRD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG RGSR+QAVV ELR EKID+V W PD + F+  AL PA VT V + E+ 
Sbjct: 242 PHVDPVGACVGPRGSRIQAVVNELRGEKIDVVRWDPDPSRFIAEALSPAKVTAVEIWEEE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
               VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E + +    +++   
Sbjct: 302 KIARVIVPDNQLSLAIGKEGQNARLAAKLTGWKIDIKSESQMAEIYAREYASY 354


>gi|332968911|gb|EGK07958.1| N utilization substance A [Kingella kingae ATCC 23330]
          Length = 499

 Score =  507 bits (1306), Expect = e-141,   Method: Composition-based stats.
 Identities = 183/515 (35%), Positives = 310/515 (60%), Gaps = 28/515 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+L +A+A+A EK++D +VV   +  ++  AA+        ++ V I+ ETG+    R  
Sbjct: 4   EILALAEALASEKNVDPNVVFEALETALGIAAKKKADREHMNLEVRIHRETGEYKTVRKW 63

Query: 67  EVVEEVEN--YTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +VE+++      + +++  ++  P   I++G    + +P   FGR A Q+AKQ+I+QK+
Sbjct: 64  LIVEDLDYTYPELEKTIEQIQEEQPGIEIEVGDYYEEEIPNEAFGRQAAQTAKQIILQKI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           R+AER++    F     +++ GTVKRVE   ++V++    D +I R+  + REN R GD+
Sbjct: 124 RDAEREQILNGFLANREDVVVGTVKRVERHGIVVEIAPKLDALIPREHMLPRENYRGGDK 183

Query: 182 VKSYIYDVRREQRG-PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           +++    V     G  QV+LSR   +F+ KLF  EVPEI +GI++++ V+RDPG RAK+A
Sbjct: 184 IRALFLKVEEFNGGRKQVMLSRASTEFLRKLFEQEVPEIRDGILEIREVARDPGQRAKIA 243

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V ++D  IDP G C+G+RGSRV AV  E+  E+ID+V+WS D+A FVINAL PA V+++V
Sbjct: 244 VHTNDQRIDPQGTCIGVRGSRVNAVSNEIGGERIDVVLWSDDTAQFVINALSPAQVSRIV 303

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +++++  ++VIV ++QL+LAIGR GQNVRLA++LTG  ++I+TE+E      ++      
Sbjct: 304 INDEMQSVDVIVAEDQLALAIGRGGQNVRLAAELTGLQLNIMTEQEAEQRNAEEELALRD 363

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            FM  +  DE +A  LVA  F  +EE+A V +S++  ++G D+ TA  ++ +ARE L   
Sbjct: 364 LFMSQLGADESVALALVAAEFTSIEEVAFVPMSDLTDLDGVDDATAENLRNKAREVLLQT 423

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           ++  ++K+    ++++L ++ G+D  +   L +  I   +DLA  S+D+L+  +      
Sbjct: 424 ELEAEEKLN--SIADDLRNLDGLDDDMLRDLVDANITNRDDLAELSIDELIEIT------ 475

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                      G  K++ E +I+ AR    W   +
Sbjct: 476 -----------GVSKEEAEQVILTARAH--WFADD 497


>gi|148244225|ref|YP_001218919.1| transcription termination factor NusA [Candidatus Vesicomyosocius
           okutanii HA]
 gi|146326052|dbj|BAF61195.1| transcription termination factor NusA [Candidatus Vesicomyosocius
           okutanii HA]
          Length = 491

 Score =  506 bits (1305), Expect = e-141,   Method: Composition-based stats.
 Identities = 184/515 (35%), Positives = 296/515 (57%), Gaps = 31/515 (6%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           +  EL  + +A++ EK+I ++ VL  +  ++  A +       D  VEIN +TG+   FR
Sbjct: 2   DGKELFLMVEAISNEKNISKEEVLESLEKALAIATKKR--NNIDAYVEINRQTGEFLTFR 59

Query: 65  LLEVVEE----VENYTCQISLK--VARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
              VV +    V++   +  L+  +       + +   +  P+   +FGR+A Q  KQVI
Sbjct: 60  QWMVVADGELFVDDDGTEFDLELHIYEKDTDGLVVDDYMRKPIETQEFGRIAAQIVKQVI 119

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           IQKVREAER+    ++  ++GE+I  TVKRV+ GN+ VD+G  DG+I + + I  E++R 
Sbjct: 120 IQKVREAEREVIVNDYSSRIGEVIMVTVKRVDRGNIYVDMGGVDGMIPKFDLIPNESVRK 179

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR+++YI +V+   RG Q+ LSR+  + M++LF MEVPEI  G++++   SRDPG R+K
Sbjct: 180 NDRLRAYIKEVKSSIRGVQIFLSRSVSEMMIELFKMEVPEISAGVIEIMGGSRDPGLRSK 239

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           LAV + D  IDP+G+C+GMRG+RVQAV  EL  E++DI++W  D A FVINA+ PA V+ 
Sbjct: 240 LAVRAKDKRIDPIGSCIGMRGARVQAVSNELNAERVDIILWDEDPAQFVINAMAPAEVSS 299

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +++DE+   +++ V  EQL+LAIGR GQN++LAS+LTGW +++++  +    + ++  + 
Sbjct: 300 IIVDENKHSMDIAVEDEQLALAIGRGGQNIKLASRLTGWKLNVMSTIQADEEQVQEMQKI 359

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           +      + VD  +A +L+ EGF  V+EL       + +IE FD     E+Q RA +   
Sbjct: 360 SDKLADQLGVDSEVAGVLIEEGFDSVDELVDADTQVLGNIEEFDASMVEELQERASDA-- 417

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                L + + +   SE L S+ G++  +   L E  I T++DLA  S+D+LL       
Sbjct: 418 ----QLVQALGDAEASEILMSVEGVNEDLASVLIEVDIFTVDDLAELSIDELLDIQ---- 469

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                            +   S+I+ AR   GW +
Sbjct: 470 -------------DMDIEIASSIIMTARENEGWFD 491


>gi|138894780|ref|YP_001125233.1| transcription elongation factor NusA [Geobacillus
           thermodenitrificans NG80-2]
 gi|196247596|ref|ZP_03146298.1| NusA antitermination factor [Geobacillus sp. G11MC16]
 gi|134266293|gb|ABO66488.1| N utilization substance protein A [Geobacillus thermodenitrificans
           NG80-2]
 gi|196212380|gb|EDY07137.1| NusA antitermination factor [Geobacillus sp. G11MC16]
          Length = 383

 Score =  506 bits (1305), Expect = e-141,   Method: Composition-based stats.
 Identities = 157/369 (42%), Positives = 236/369 (63%), Gaps = 5/369 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             +LL+    +  EK I ++V++  +  ++  A +  +G   ++RV++N +TG I +   
Sbjct: 2   NTQLLEALADLMREKGISKEVIMEAIEAALVSAYKRNFGQAQNVRVDLNMDTGTIRVLAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            +VVEEV +   +ISL+ A+  +P+  IG VV   + P DFGR+A Q+AKQV+ Q+VREA
Sbjct: 62  KDVVEEVTDPRLEISLEEAQRLNPNYQIGDVVELEVTPRDFGRIAAQTAKQVVTQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF D+  +I++G V+R++   V V LG ++ ++  +E +  E  +P DR+K Y
Sbjct: 122 ERSIIYAEFVDREEDIMTGIVQRIDPRFVYVSLGKAEALLPANEQMPNETYKPHDRLKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+++R+ G R+K++V S +
Sbjct: 182 ITKVEKTTKGPQIFVSRTHPGLLKRLFELEVPEIYDGTVEIKSIAREAGDRSKISVHSDN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG +G RVQA+V EL  EKIDIV WS D   FV NAL PA V +V+++E+ 
Sbjct: 242 PEVDPVGACVGPKGQRVQAIVDELHGEKIDIVRWSADPVEFVANALSPAKVLRVIVNEEQ 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
               VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E E            T     +
Sbjct: 302 KATTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSESEAREMGIDPHAPST-----S 356

Query: 366 INVDEIIAH 374
           ++ D + A 
Sbjct: 357 LDFDGVTAD 365


>gi|238020478|ref|ZP_04600904.1| hypothetical protein GCWU000324_00360 [Kingella oralis ATCC 51147]
 gi|237867458|gb|EEP68464.1| hypothetical protein GCWU000324_00360 [Kingella oralis ATCC 51147]
          Length = 500

 Score =  506 bits (1303), Expect = e-141,   Method: Composition-based stats.
 Identities = 193/520 (37%), Positives = 307/520 (59%), Gaps = 28/520 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS-DIRVEINPETGDISLFR 64
             E+L +A+A+A EK++  ++V   +  ++  AA+        D+ + I+ ETGD    R
Sbjct: 2   SKEILLLAEALASEKNVSNEIVFEALEVALGIAAKKKADREQMDLEIRIDRETGDYKTIR 61

Query: 65  LLEVVEEVEN--YTCQISLKVARDRDPSIDI--GGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
              +VE+++      + +++  ++  P I I  G    + LP   FGR A Q+AKQ+I+Q
Sbjct: 62  KWLIVEDLDYTYPELEKTIEQIQEEQPEIQISVGDYYEEELPNEAFGRQAAQTAKQIILQ 121

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPG 179
           ++R+AER++    F +    I++GTVKR+E   ++V+L    D +I R++ + REN R G
Sbjct: 122 RIRDAEREQILNHFLETHENIVTGTVKRMERHGIVVELAPKLDALIPREQMLPRENYRGG 181

Query: 180 DRVKSYIYDVRREQRG-PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           DR+++  + +     G  QVLLSRT P F+ +LF  EVPEI +G++++K V+RDPG RAK
Sbjct: 182 DRIRALFWKLEEFNGGRKQVLLSRTAPDFVRELFAQEVPEIADGLLEIKEVARDPGQRAK 241

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV + D  IDP G C+G+RGSRV AV  E+  E+ID+V+WS D+A FVINAL PA V++
Sbjct: 242 IAVLARDQRIDPQGTCIGVRGSRVNAVSNEIGGERIDVVLWSDDTAQFVINALSPAQVSR 301

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +V+D+++  ++VIV ++QL+LAIGR GQNVRLA++LTG  ++I+T +E       +    
Sbjct: 302 IVIDDELNSVDVIVAEDQLALAIGRGGQNVRLAAELTGLQLNIMTLQEAEERNAAESAAA 361

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
              F++ + V E IA  LV EGF  VEE+A V  SE+  +EGFD E A  ++ +ARE + 
Sbjct: 362 RNLFVEQLEVSEEIADALVNEGFESVEEVAYVPASELLEVEGFDAELAESLRAKAREVVL 421

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
                 + K+ E  + E+L ++ G+D  +   L E  I + +DLA  S+ +L+  +    
Sbjct: 422 KAAEEAEAKLNE--IDEDLRTLDGVDEDMLRDLAEANITSRDDLAELSIAELIEIT---- 475

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVA 518
                        G   ++ E  I+ AR    W  +E  A
Sbjct: 476 -------------GVSHEEAEKAILAARAH--WFAEEDNA 500


>gi|56419795|ref|YP_147113.1| transcription elongation factor NusA [Geobacillus kaustophilus
           HTA426]
 gi|56379637|dbj|BAD75545.1| transcription termination-antitermination factor [Geobacillus
           kaustophilus HTA426]
          Length = 383

 Score =  505 bits (1302), Expect = e-141,   Method: Composition-based stats.
 Identities = 160/356 (44%), Positives = 231/356 (64%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             +LL+    +  EK I ++VV+  +  +I  A +  +G   ++RV++N +TG I +F  
Sbjct: 2   NTQLLEALADLMREKGISKEVVMEAIEAAIVSAYKRNFGQAQNVRVDLNMDTGTIRVFAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            +VVEEV +   +ISL+ A+  +P+  IG VV   + P DFGR+A Q+AKQV+ Q+VREA
Sbjct: 62  KDVVEEVADPRLEISLEDAQRINPNYQIGDVVELEVTPRDFGRIAAQTAKQVVTQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF D+  +I++G V+RV+   V V LG ++ ++  +E +  E  +P DR+K Y
Sbjct: 122 ERSIIYAEFVDREEDIMTGIVQRVDPRFVYVSLGKAEALLPANEQMPNETYKPHDRLKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+++R+ G R+K++V S +
Sbjct: 182 ITKVEKTTKGPQIFVSRTHPGLLKRLFELEVPEIYDGTVEIKSIAREAGDRSKISVHSDN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG RG RVQA+V EL  EKIDIV WS D   FV NAL PA V +V+++E+ 
Sbjct: 242 PEVDPVGACVGPRGQRVQAIVDELNGEKIDIVRWSADPVEFVANALSPAKVLRVIVNEEQ 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
               VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E E            T  
Sbjct: 302 KATTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSESEAREMGIDPHAPSTSL 357


>gi|78042921|ref|YP_360589.1| transcription elongation factor NusA [Carboxydothermus
           hydrogenoformans Z-2901]
 gi|77995036|gb|ABB13935.1| transcription termination factor NusA [Carboxydothermus
           hydrogenoformans Z-2901]
          Length = 346

 Score =  505 bits (1302), Expect = e-141,   Method: Composition-based stats.
 Identities = 154/341 (45%), Positives = 237/341 (69%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E LQ    +  +K I  +V+L     ++  A +  YG   + RV I+  TG++ ++ L
Sbjct: 2   NTEFLQAVQEIEKQKGIPAEVLLEATEQALLSAYKKNYGINQNARVHIDRVTGEVKVYAL 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV++   +ISL+ AR++DP +++G V+   + P +FGR+A Q+AKQV+IQ++REA
Sbjct: 62  KTVVEEVKDPRLEISLEEAREKDPRLNLGDVLEIEVTPRNFGRIAAQNAKQVVIQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER++ Y EF  + G+II+G ++RV+  NV VDLG ++ ++   E I  EN + GDR+K+Y
Sbjct: 122 ERNQIYEEFSSREGDIITGIIRRVDQKNVYVDLGKTEAILPPQEQIPGENYKFGDRIKAY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V++  +GP ++LSRTHP  + +L  +E+PE+Y+G V++K+++R+ GSR+K+AV+S D
Sbjct: 182 LVEVKKTSKGPNIILSRTHPGLLKRLLELEIPELYDGTVELKSIAREAGSRSKIAVYSKD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DP+GACVG +G R++ +V EL  EKID+V WSPD A F+ NAL PA VT V + ED 
Sbjct: 242 ENVDPIGACVGNKGLRIKNIVEELNGEKIDVVKWSPDPAKFIANALSPAKVTSVEVFEDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E +
Sbjct: 302 KVARVVVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQ 342


>gi|189183523|ref|YP_001937308.1| transcription elongation factor NusA [Orientia tsutsugamushi str.
           Ikeda]
 gi|189180294|dbj|BAG40074.1| N utilization substance protein A [Orientia tsutsugamushi str.
           Ikeda]
          Length = 500

 Score =  504 bits (1300), Expect = e-140,   Method: Composition-based stats.
 Identities = 214/488 (43%), Positives = 322/488 (65%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           MV+    E+L++ + +A +K I +D ++S++ + IQ  ++ +YG   +I+VEIN ++G+ 
Sbjct: 1   MVNPINAEVLRVVNYIARDKDISQDALISIVEEMIQLISKKIYGAEHNIKVEINKKSGEC 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            L+R+L+VVEE E+   QISL  A   + +I +G  + + LPP++ GRV+ Q+A+  I Q
Sbjct: 61  KLYRVLDVVEETEDMYSQISLNDALQLNANIKVGEQIFETLPPINLGRVSAQTARHFIAQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           K+ E ER +QYLE KD+VGEII+  V R++ GN+I + G  + +I RD+ I  E  +  D
Sbjct: 121 KIAEIERRKQYLEVKDRVGEIITVIVSRIDAGNIIGEFGGVEVIIPRDQLIKSEAYKKND 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RVK+Y+  V  E +GP + LSRT  Q +VKL  MEVPEIY G + +KAV+RDPGSRAK+A
Sbjct: 181 RVKAYVQRVNEELKGPLMFLSRTDNQMLVKLLEMEVPEIYEGTIIIKAVARDPGSRAKVA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           VFS DSSID VG+C+GMRG+R++ +  EL  E+I+++ WS D A F INA+ P  +TKV+
Sbjct: 241 VFSPDSSIDAVGSCIGMRGNRIKNISHELAGERINVIKWSQDIAGFAINAMSPVQITKVI 300

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DE    IE+IV   QLS+AIGRRGQNVRL S+L GW IDIITEE++S  R  +F   T 
Sbjct: 301 IDESRRLIELIVSANQLSIAIGRRGQNVRLVSKLLGWNIDIITEEQESSRRTDEFTSATD 360

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F + + +DE++A LLVAEGF  +E++A   ++ + SI+  + E  +E+Q +A +Y+   
Sbjct: 361 LFTKNLGIDEMLAQLLVAEGFISIEQIAHADLNALTSIDKLNSELVLELQQKAIDYVNNQ 420

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +  +  K+ ELGV +EL     I  +  + L ENGIK +EDL   +  +     +N   +
Sbjct: 421 NKLILTKLEELGVEQELLETLEIPLESFITLAENGIKNLEDLEELTFSEFNTLVQNNCLS 480

Query: 481 IEKFDGFL 488
            E+F+  +
Sbjct: 481 EEEFNYII 488


>gi|261419460|ref|YP_003253142.1| transcription elongation factor NusA [Geobacillus sp. Y412MC61]
 gi|297530565|ref|YP_003671840.1| transcription termination factor NusA [Geobacillus sp. C56-T3]
 gi|319766275|ref|YP_004131776.1| NusA antitermination factor [Geobacillus sp. Y412MC52]
 gi|261375917|gb|ACX78660.1| NusA antitermination factor [Geobacillus sp. Y412MC61]
 gi|297253817|gb|ADI27263.1| transcription termination factor NusA [Geobacillus sp. C56-T3]
 gi|317111141|gb|ADU93633.1| NusA antitermination factor [Geobacillus sp. Y412MC52]
          Length = 383

 Score =  504 bits (1299), Expect = e-140,   Method: Composition-based stats.
 Identities = 160/356 (44%), Positives = 231/356 (64%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             +LL+    +  EK I ++VV+  +  +I  A +  +G   ++RV++N +TG I +F  
Sbjct: 2   NTQLLEALADLMREKGISKEVVMEAIEAAIVSAYKRNFGQAQNVRVDLNMDTGTIRVFTR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            +VVEEV +   +ISL+ A+  +P+  IG VV   + P DFGR+A Q+AKQV+ Q+VREA
Sbjct: 62  KDVVEEVADPRLEISLEDAQRINPNYQIGDVVELEVTPRDFGRIAAQTAKQVVTQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF D+  +I++G V+RV+   V V LG ++ ++  +E +  E  +P DR+K Y
Sbjct: 122 ERSIIYAEFVDREEDIMTGIVQRVDPRFVYVSLGKAEALLPANEQMPNETYKPHDRLKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+++R+ G R+K++V S +
Sbjct: 182 ITKVEKTTKGPQIFVSRTHPGLLKRLFELEVPEIYDGTVEIKSIAREAGDRSKISVHSDN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG RG RVQA+V EL  EKIDIV WS D   FV NAL PA V +V+++E+ 
Sbjct: 242 PEVDPVGACVGPRGQRVQAIVDELNGEKIDIVRWSADPVEFVANALSPAKVLRVIVNEEQ 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
               VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E E            T  
Sbjct: 302 KATTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSESEAREMGIDPHAPSTSL 357


>gi|118602111|ref|YP_903326.1| NusA antitermination factor [Candidatus Ruthia magnifica str. Cm
           (Calyptogena magnifica)]
 gi|118567050|gb|ABL01855.1| NusA antitermination factor [Candidatus Ruthia magnifica str. Cm
           (Calyptogena magnifica)]
          Length = 491

 Score =  504 bits (1299), Expect = e-140,   Method: Composition-based stats.
 Identities = 188/515 (36%), Positives = 293/515 (56%), Gaps = 32/515 (6%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           +  EL  + +A++ EK+I ++ VL  + +++  A +       D  VEIN +TG+   FR
Sbjct: 2   DGKELFLMVEAISNEKNISKEEVLESLEEALAIATKKR--NNIDAYVEINRQTGEFLTFR 59

Query: 65  LLEVVEE----VENYTCQI--SLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
              VV +    V++   +    L V       + +   V  P+    FGR+A Q  KQVI
Sbjct: 60  QWMVVADGETFVDDDGTEFDSELHVYAKDASGVAVDDYVRKPIETQKFGRIAAQIVKQVI 119

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLR 177
           +QKVREAER+    ++  ++GE++  TVKRV+ GNV VD G   DG+I + + I  E++R
Sbjct: 120 VQKVREAEREVIVNDYSSRIGEVVMVTVKRVDRGNVYVDTGGGVDGMIPKFDLIPNESVR 179

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
             DR+++YI +V+   RG Q+ LSR+ P+ M++LF MEVPEI  G++++   SRDPG R+
Sbjct: 180 KNDRLRAYIKEVKPSVRGAQIFLSRSMPEMMIELFKMEVPEISEGVIEIMGGSRDPGLRS 239

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           KLAV + D  IDP+G+C+GMRG+RVQAV  EL  E++DI++W  D A FVINA+ PA V+
Sbjct: 240 KLAVRAKDRRIDPIGSCIGMRGARVQAVSNELNAERVDIILWDEDHAQFVINAMAPAQVS 299

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            +++DED   +++ V  +QL+LAIGR GQN++LAS+LTGW +++++  +    + ++  +
Sbjct: 300 SIIVDEDKHSMDIAVEDDQLALAIGRGGQNIKLASRLTGWRLNVMSTTQADEKQAQETLK 359

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
            +      + VD  +A +L+ EGF  V EL       + +IE FD     E+Q RA +  
Sbjct: 360 ISDKLADQLGVDSEVAGVLIEEGFGSVGELVDADAQVLENIEEFDASMVEELQERASDA- 418

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
                 L + + +   SE L S+ G+   +  AL E  I T++DLA  S+DDLL      
Sbjct: 419 -----QLVQALGDAEASELLMSVEGVGEDLASALIEADIVTVDDLAELSIDDLLDIQ--- 470

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
                             +   S+I+ AR   GW 
Sbjct: 471 --------------NMDTEIASSVIMIARENEGWF 491


>gi|218782565|ref|YP_002433883.1| transcription elongation factor NusA [Desulfatibacillum
           alkenivorans AK-01]
 gi|218763949|gb|ACL06415.1| NusA antitermination factor [Desulfatibacillum alkenivorans AK-01]
          Length = 488

 Score =  504 bits (1299), Expect = e-140,   Method: Composition-based stats.
 Identities = 196/430 (45%), Positives = 285/430 (66%), Gaps = 5/430 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++ ++ D V+ +K ID++V+++ + +++Q AAR   G  +DI V+ N E G++ +F+  E
Sbjct: 5   DIGRVIDQVSRDKGIDKNVLIATLEEALQAAARKKLGPRADIEVQYNEEAGELEVFQFRE 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV     ++S++  R+ DP  ++G  +   +    FGR+A QSAKQVIIQK+++AER
Sbjct: 65  VVEEVTEPDLEMSMEDGRELDPDCELGDSLGSKMDTATFGRIAAQSAKQVIIQKLKDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           D  Y  F D+ GEII+G ++R++ G++IV+LG ++GV+   E + RE    GDR++++I 
Sbjct: 125 DAVYSSFMDRKGEIINGIMQRMDRGDIIVNLGQTEGVLPSREQVPRETYHRGDRIRAFIL 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           DV  E RGPQ++LSRTHP F+  LF MEVPEI  G+V V A +R+PG RAK+AV SSDS 
Sbjct: 185 DVVLEGRGPQIILSRTHPNFLTSLFKMEVPEIGEGVVSVMAGAREPGVRAKIAVASSDSD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVGM+GSRVQ VV ELR EKIDIV W  DSA FV NAL PA +++V++DE+   
Sbjct: 245 IDAVGACVGMKGSRVQNVVHELRGEKIDIVPWHADSAKFVCNALAPAQISRVIIDEENHA 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           +EVIVP E LS+AIG++GQNVRLAS+LTGW +D+ +E   S   Q  +N      M+   
Sbjct: 305 MEVIVPDEFLSVAIGKKGQNVRLASKLTGWHLDVKSETRYSRTMQDGYNS----LMELAE 360

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           +DE IA  L  +GF  VEEL+     ++  I+G D   A  +   A+E +  + +  Q  
Sbjct: 361 LDENIADALYEKGFYSVEELSAADPDDLVQIKGIDLTLADTLIIAAQEAMASMAMEKQAS 420

Query: 428 I-RELGVSEE 436
             +E   +E+
Sbjct: 421 APQEAEAAED 430


>gi|295399850|ref|ZP_06809831.1| transcription termination factor NusA [Geobacillus
           thermoglucosidasius C56-YS93]
 gi|312111638|ref|YP_003989954.1| NusA antitermination factor [Geobacillus sp. Y4.1MC1]
 gi|294978253|gb|EFG53850.1| transcription termination factor NusA [Geobacillus
           thermoglucosidasius C56-YS93]
 gi|311216739|gb|ADP75343.1| NusA antitermination factor [Geobacillus sp. Y4.1MC1]
          Length = 382

 Score =  504 bits (1298), Expect = e-140,   Method: Composition-based stats.
 Identities = 161/354 (45%), Positives = 230/354 (64%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             +LL     +  EK I ++VV+  +  +I  A +  +G   ++RV++N ETG I +F  
Sbjct: 2   NTQLLDALADIIREKGISKEVVMEAIEAAIISAYKRNFGQAQNVRVDLNMETGTIRVFAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEV +   QISL+ A+  DP+   G VV   + P DFGR+A Q+AKQV+ Q+VREA
Sbjct: 62  KEVVEEVTDPRLQISLEEAQRIDPNYQSGDVVELEVTPRDFGRIAAQTAKQVVTQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF D+  +I++G V+R++   V V LG ++G++   E +  E  +P DR+K Y
Sbjct: 122 ERSVIYAEFVDREEDIMTGIVQRIDPRFVYVSLGKTEGLLPASEQMPNETYKPHDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+++R+ G R+K++V S +
Sbjct: 182 ITKVEKTTKGPQIFVSRTHPGLLKRLFELEVPEIYDGTVEIKSIAREAGDRSKISVHSDN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG +G RVQAVV EL  EKIDIV WS D   FV NAL PA V +V+++E+ 
Sbjct: 242 PEVDPVGACVGPKGQRVQAVVEELNGEKIDIVRWSADPVEFVANALSPAKVLRVIVNEEQ 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
               VIVP  QLSLAIG+RGQN RLA++LT W IDI +E E        + + +
Sbjct: 302 KATTVIVPDYQLSLAIGKRGQNARLAAKLTNWKIDIKSESEARELGIDPYAQSS 355


>gi|148284846|ref|YP_001248936.1| transcription elongation factor NusA [Orientia tsutsugamushi str.
           Boryong]
 gi|146740285|emb|CAM80660.1| N utilization substance protein A, transcription termination factor
           [Orientia tsutsugamushi str. Boryong]
          Length = 500

 Score =  502 bits (1294), Expect = e-140,   Method: Composition-based stats.
 Identities = 210/488 (43%), Positives = 319/488 (65%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           MV+    E+L++ + +A +K I +D ++S++ + IQ  ++  YG   +I+VEIN ++G+ 
Sbjct: 1   MVNPINAEVLRVVNYIARDKDISQDALISIVEEMIQLISKKKYGAEHNIKVEINKKSGEC 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            L+R+L+VVEE E+   QISL  A   + +I +G  + + LPP++ GRV+ Q+A+  I Q
Sbjct: 61  KLYRVLDVVEETEDMCSQISLNDALQLNANIKVGEQIFETLPPINLGRVSAQTARYFIAQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           K+ E ER +QYLE KD+VGEII+  V R++ GN+I + G  + +I RD+ I  E  +  D
Sbjct: 121 KIAEIERRKQYLEVKDRVGEIITVIVSRIDAGNIIGEFGGVEVIIPRDQLIKSEAYKKND 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K+Y+  V  E +GP + LSRT  Q +VKL  MEVPEIY G + +KAV+RDPGSRAK+A
Sbjct: 181 RIKAYVQRVNEELKGPLMFLSRTDNQMLVKLLEMEVPEIYEGTISIKAVARDPGSRAKVA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           VFS DSSID VG+C+GMRG+R++ +  EL  E+I+++ W+ D A F INA+ P  +TKV+
Sbjct: 241 VFSPDSSIDAVGSCIGMRGNRIKNISNELSGERINVIKWNQDIAGFAINAMSPVQITKVI 300

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DE    IE+IV   QLS++IGRRGQNVRL S+L GW IDIITEE++S  R  +F   T 
Sbjct: 301 IDESRHLIELIVSANQLSISIGRRGQNVRLVSKLLGWNIDIITEEQESSRRTDEFTSATD 360

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F + + +DE++A LLVAEG   +E++A   ++ + SI+  + E  +E+Q +A +Y+   
Sbjct: 361 LFTKNLGIDEMLAQLLVAEGLISIEQIAHADLNVLTSIDRLNSELVLELQQKAIDYVNNQ 420

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +  +  K+ ELGV +EL     I  +  + L ENGIK +EDL   +  +      N   +
Sbjct: 421 NKLILTKLEELGVEQELLETLEIPLESFITLAENGIKNLEDLEELTFSEFNTLVPNNCLS 480

Query: 481 IEKFDGFL 488
            E+F+  +
Sbjct: 481 EEEFNYII 488


>gi|121535260|ref|ZP_01667074.1| NusA antitermination factor [Thermosinus carboxydivorans Nor1]
 gi|121306145|gb|EAX47073.1| NusA antitermination factor [Thermosinus carboxydivorans Nor1]
          Length = 348

 Score =  502 bits (1294), Expect = e-140,   Method: Composition-based stats.
 Identities = 150/341 (43%), Positives = 231/341 (67%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E +Q  + +  EK I  +++   +  ++  A +  +G+  ++RV ++  TG+I ++  
Sbjct: 3   NAEFMQAFEQLGKEKGIAPEILFDAIEAALISAYKRNFGSAQNVRVSLDRTTGEIHVYAR 62

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE V++   ++SL+ AR  D   ++  VV   + P DFGR+A Q+AKQV++Q++REA
Sbjct: 63  KTVVEVVKDPRLEMSLEEARAIDVRYELDDVVEIEVTPKDFGRIAAQTAKQVVVQRIREA 122

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF ++  +I++G V+R+E  NV +DLG ++ ++   E I  E  + GDR+K+Y
Sbjct: 123 ERGIIYEEFSNRESDIVTGIVQRIEQKNVYIDLGKAEAILTPSEQIPGEVYKHGDRLKTY 182

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V++  +GPQ+L+SRTHP  + +LF +EVPEI++G+V++K+V+R+PG R+K+AV S D
Sbjct: 183 IIEVKKTTKGPQILVSRTHPGLLKRLFELEVPEIHDGVVELKSVAREPGMRSKIAVHSRD 242

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++D VGACVG +G RVQ +V ELR EKIDIV WS D A F+ NAL PA V  V ++E  
Sbjct: 243 ENVDAVGACVGHKGMRVQTIVNELRGEKIDIVKWSSDPAKFIANALSPAKVISVEVNETE 302

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
              +V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E +
Sbjct: 303 KVSKVVVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQ 343


>gi|239826654|ref|YP_002949278.1| transcription elongation factor NusA [Geobacillus sp. WCH70]
 gi|239806947|gb|ACS24012.1| NusA antitermination factor [Geobacillus sp. WCH70]
          Length = 382

 Score =  501 bits (1292), Expect = e-140,   Method: Composition-based stats.
 Identities = 160/366 (43%), Positives = 234/366 (63%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             +LL     +  EK I ++VV+  +  +I  A +  +G   ++RV++N ETG I +F  
Sbjct: 2   NTQLLDALADIIREKGISKEVVMEAIEAAIISAYKRNFGQAQNVRVDLNTETGTIRVFAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISL+ A+  +P+  IG V+   + P DFGR+A Q+AKQV+ Q+VREA
Sbjct: 62  KEVVDEVNDPRLEISLEEAQRINPNYQIGDVLELEVTPKDFGRIAAQTAKQVVTQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF D+  +I++G V+RV+   V V LG ++ ++   E +  E  +P DR+K Y
Sbjct: 122 ERSVIYAEFVDREEDIMTGIVQRVDPRFVYVSLGKTEALLPASEQMPNETYKPHDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+++R+ G R+K++V S +
Sbjct: 182 ITKVEKTTKGPQIFVSRTHPGLLKRLFELEVPEIYDGTVEIKSIAREAGDRSKISVHSDN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG +G RVQAVV EL  EKIDIV WS D   FV NAL PA V +V+++E+ 
Sbjct: 242 PEVDPVGACVGPKGQRVQAVVEELNGEKIDIVRWSADPVEFVANALSPAKVLRVIVNEEQ 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
               VIVP  QLSLAIG+RGQN RLA++LT W IDI +E E        + + T    + 
Sbjct: 302 KATTVIVPDYQLSLAIGKRGQNARLAAKLTNWKIDIKSESEARELGIDPYAQSTFLDSEE 361

Query: 366 INVDEI 371
            +V+  
Sbjct: 362 TSVNNE 367


>gi|222475232|ref|YP_002563648.1| transcription termination factor nusA (nusA) [Anaplasma marginale
           str. Florida]
 gi|255003215|ref|ZP_05278179.1| transcription elongation factor NusA [Anaplasma marginale str.
           Puerto Rico]
 gi|255004343|ref|ZP_05279144.1| transcription elongation factor NusA [Anaplasma marginale str.
           Virginia]
 gi|222419369|gb|ACM49392.1| transcription termination factor nusA (nusA) [Anaplasma marginale
           str. Florida]
          Length = 515

 Score =  501 bits (1291), Expect = e-139,   Method: Composition-based stats.
 Identities = 213/527 (40%), Positives = 339/527 (64%), Gaps = 30/527 (5%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + + + LEL+++A  VA +K ++ ++V+  +  +++  +RS YG    I+  I+ +TG +
Sbjct: 4   LYNFDNLELIRVARDVAEQKGLNLEMVVDAIEQALELVSRSKYGDCK-IKASIDRKTGVV 62

Query: 61  SLFRLLEVVEEVENYTCQ--------------ISLKVARDRDPSIDIGGVVSDPLPPMDF 106
           S+ R   VV +  ++  +              + +  A      + +G ++ +PLPP+D 
Sbjct: 63  SISRQALVVNDDMSFDSEQYGIPPGEVSKYKLVKVSDAVADGKDVKVGDILFEPLPPVDV 122

Query: 107 GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIR 166
              + + A+Q + Q +   ER RQY EFKD+VG+++ G VKRVEY NV+VDL  S+G + 
Sbjct: 123 DYNSAKVARQKVAQLIMIQERKRQYEEFKDRVGDLVYGVVKRVEYNNVVVDLNGSEGYLP 182

Query: 167 RDETISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
              TI  E  RP DRVK+++ +VR+E+  GPQ+ LSR   +FM  LF  E+PE+Y+GIV 
Sbjct: 183 VYNTIRGEVFRPNDRVKAHVEEVRQEELSGPQIFLSRVSKRFMELLFKQEIPEVYDGIVS 242

Query: 226 VKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSAT 285
           +KA++RDPGSR+K+AVFSSD ++DPVGAC+G RG R+Q +V+EL  EKID+V++S D A 
Sbjct: 243 IKALARDPGSRSKVAVFSSDKNVDPVGACIGARGVRIQNIVSELHGEKIDVVLYSSDLAK 302

Query: 286 FVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           FV++A+ PA V KV++DEDV +IE++VP+ Q+SLAIGR GQN+RLAS+L GW ID+I +E
Sbjct: 303 FVVSAIAPAEVVKVIIDEDVEKIELVVPENQVSLAIGRYGQNIRLASELVGWEIDVIGDE 362

Query: 346 EDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEET 405
            +S  + K+ +   + F+  ++V+EII  LLV+EGF+ +E+L  V ++EI +I+GF+EE 
Sbjct: 363 TESTRKAKELSSGAKVFVDGLDVEEIIGQLLVSEGFSTIEDLDKVDVAEITAIDGFNEEI 422

Query: 406 AVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGC 465
           AVE++ RA EYL        + ++ + VSEE+  +P ++ +  V L E GI+++ED+A  
Sbjct: 423 AVELKKRAAEYLTRRREEALETLKNMSVSEEVLELPYLEIEDVVKLCEGGIRSVEDIASM 482

Query: 466 SVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
             D+                  +      K+QV+S+I+ +R +MGWI
Sbjct: 483 CTDEFYDM--------------VPKARLSKEQVDSIILESRKRMGWI 515


>gi|229544433|ref|ZP_04433491.1| NusA antitermination factor [Bacillus coagulans 36D1]
 gi|229324918|gb|EEN90595.1| NusA antitermination factor [Bacillus coagulans 36D1]
          Length = 399

 Score =  501 bits (1291), Expect = e-139,   Method: Composition-based stats.
 Identities = 168/403 (41%), Positives = 242/403 (60%), Gaps = 13/403 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+     +  EK I RDV++  +  ++  A R  +    ++R ++N   G I +F   +
Sbjct: 4   ELVDALTILEKEKGISRDVLVEAIEAALVSAYRRNFNQAQNVRTDLNLANGTIRVFARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISL+ A+  +PS +IG VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVEEVFDPRLEISLEDAQKINPSYEIGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y +F D+  E+++G V+R +     V LG ++ ++   E    E   P DR+K YI 
Sbjct: 124 GIIYNQFIDREDEVMTGIVQRKDPRFTYVSLGKTEALLPPGEQSPNETYNPHDRIKVYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V R  +GPQ+ +SRTHP  + +LF +EVPEIY+GIV++++++R+ G R+K++V++    
Sbjct: 184 KVERTTKGPQIFVSRTHPGLLKRLFELEVPEIYDGIVEIRSIAREAGDRSKISVYTDRPE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G RVQA+V EL  EKIDIV WS D A FV NAL PA V  V++DE+   
Sbjct: 244 VDPVGACVGPKGQRVQAIVNELHGEKIDIVKWSDDPAKFVANALSPAKVLDVLVDENNKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE---EDSINRQKDFNERTQFFMQ 364
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E    E  I  + + N+       
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDARESGIYPRSETNDDIDGETP 363

Query: 365 AINVDEIIAHLLVAEGFADVEELA--CVKISEIASIEGFDEET 405
            +  D+         G    E LA    K +++    G DEE 
Sbjct: 364 GLFDDD-------DAGRTS-EALAVPDAKEADLPENGGKDEEI 398


>gi|301063436|ref|ZP_07203968.1| transcription termination factor NusA [delta proteobacterium
           NaphS2]
 gi|300442375|gb|EFK06608.1| transcription termination factor NusA [delta proteobacterium
           NaphS2]
          Length = 474

 Score =  500 bits (1289), Expect = e-139,   Method: Composition-based stats.
 Identities = 192/429 (44%), Positives = 275/429 (64%), Gaps = 4/429 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L ++ D V+ EK +D+ V++  + ++++ AAR  YG   D+ V  N E G++  F   E
Sbjct: 4   DLRKVIDQVSREKGVDQAVLIGALEEAVKAAARKKYGNEYDLEVIYNEEMGEVEAFEFKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEE EN   QISLK A + DP  +IG  +   + P  FGR+A QSAKQVI+Q+++EAER
Sbjct: 64  VVEETENPNLQISLKEALELDPETEIGDSLGIKMDPDTFGRIAAQSAKQVIMQRLKEAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           D  Y +F D+ GEI++G V+R + G++IV+LG ++  +   E I RE+ + GDRV++YI 
Sbjct: 124 DIVYDDFIDRRGEIVNGIVQRFDRGSIIVNLGRAEAELPHKEQIPRESYKQGDRVRAYIL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           DVR+  RGPQ++LSRTHP  +  LF  EVPEI  GIVQ+  V+R+PG RAK+AV S D  
Sbjct: 184 DVRKISRGPQIILSRTHPNIVAILFENEVPEISEGIVQIIQVAREPGGRAKIAVSSKDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGM+G RVQAVV ELR EKIDIV W PDSA F+ NAL PA +T+V++DED   
Sbjct: 244 VDPVGACVGMKGRRVQAVVQELRGEKIDIVTWDPDSAKFICNALAPAEITRVIVDEDNHS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           +EV+VP +QLSLAIG+RGQNVRLA++LTGW +D++ E + +   +  F    +  +    
Sbjct: 304 MEVVVPDDQLSLAIGKRGQNVRLAAKLTGWRLDVVGETKYNETLKDGF----RSLLDLNG 359

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           V E IA  L    F    ++A   + ++  ++G  +E A  +   A  YL       ++ 
Sbjct: 360 VGEKIATELYDADFRSARDIAGSTVEDLMVVKGISQEKAEALIAEANAYLLAKSQETKED 419

Query: 428 IRELGVSEE 436
                  ++
Sbjct: 420 APGETDPDD 428


>gi|56416867|ref|YP_153941.1| transcription elongation factor NusA [Anaplasma marginale str. St.
           Maries]
 gi|56388099|gb|AAV86686.1| transcription termination factor A [Anaplasma marginale str. St.
           Maries]
          Length = 515

 Score =  500 bits (1289), Expect = e-139,   Method: Composition-based stats.
 Identities = 212/527 (40%), Positives = 339/527 (64%), Gaps = 30/527 (5%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + + + LEL+++A  VA +K ++ ++V+  +  +++  +RS YG    I+  I+ +TG +
Sbjct: 4   LYNFDNLELIRVARDVAEQKGLNLEMVVDAIEQALELVSRSKYGDCK-IKASIDRKTGVV 62

Query: 61  SLFRLLEVVEEVENYTCQ--------------ISLKVARDRDPSIDIGGVVSDPLPPMDF 106
           S+ R   VV +  ++  +              + +  A      + +G ++ +PLPP+D 
Sbjct: 63  SISRQALVVNDDMSFDSEQYGIPPGEVSKYKLVKVSDAVADGKDVKVGDILFEPLPPVDV 122

Query: 107 GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIR 166
              + + A+Q + Q +   ER RQY EFKD+VG+++ G VKRVEY NV+VDL  S+G + 
Sbjct: 123 DYNSAKVARQKVAQLIMIQERKRQYEEFKDRVGDLVYGVVKRVEYNNVVVDLNGSEGYLP 182

Query: 167 RDETISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
              TI  E  RP DRVK+++ +VR+E+  GPQ+ LSR   +FM  LF  E+PE+Y+GIV 
Sbjct: 183 VYNTIRGEVFRPNDRVKAHVEEVRQEELSGPQIFLSRVSKRFMELLFKQEIPEVYDGIVS 242

Query: 226 VKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSAT 285
           +KA++RDPGSR+K+AVFSSD ++DPVGAC+G RG R+Q +V+EL  EKID+V++S D A 
Sbjct: 243 IKALARDPGSRSKVAVFSSDKNVDPVGACIGARGVRIQNIVSELHGEKIDVVLYSSDLAK 302

Query: 286 FVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           FV++A+ PA V KV++DEDV +IE++VP+ Q+SLAIGR GQN+RLAS+L GW ID+I +E
Sbjct: 303 FVVSAIAPAEVVKVIIDEDVEKIELVVPENQVSLAIGRYGQNIRLASELVGWEIDVIGDE 362

Query: 346 EDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEET 405
            +S  + K+ +   + F+  ++V+EII  LLV+EGF+ +E+L  V ++EI +I+GF+EE 
Sbjct: 363 TESTRKAKELSSGAKVFVDGLDVEEIIGQLLVSEGFSTIEDLDKVDVAEITAIDGFNEEI 422

Query: 406 AVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGC 465
           AVE++ RA EYL        + ++ + VSEE+  +P ++ +  V L E GI+++ED+A  
Sbjct: 423 AVELKKRAAEYLTRRREEALETLKNMSVSEEVLELPYLEIEDVVKLCEGGIRSVEDIASM 482

Query: 466 SVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
             D+                  +      K+QV+S+I+ +R ++GWI
Sbjct: 483 CTDEFYDM--------------VPKARLSKEQVDSIILESRKRVGWI 515


>gi|57239198|ref|YP_180334.1| transcription elongation factor NusA [Ehrlichia ruminantium str.
           Welgevonden]
 gi|58579156|ref|YP_197368.1| transcription elongation factor NusA [Ehrlichia ruminantium str.
           Welgevonden]
 gi|58617209|ref|YP_196408.1| transcription elongation factor NusA [Ehrlichia ruminantium str.
           Gardel]
 gi|57161277|emb|CAH58198.1| putative N utilization substance protein A [Ehrlichia ruminantium
           str. Welgevonden]
 gi|58416821|emb|CAI27934.1| Transcription elongation protein nusA [Ehrlichia ruminantium str.
           Gardel]
 gi|58417782|emb|CAI26986.1| Transcription elongation protein nusA [Ehrlichia ruminantium str.
           Welgevonden]
          Length = 517

 Score =  500 bits (1289), Expect = e-139,   Method: Composition-based stats.
 Identities = 211/527 (40%), Positives = 338/527 (64%), Gaps = 32/527 (6%)

Query: 3   SANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISL 62
           + + LEL+++A  +A +K ++ DV++  + ++IQ  +RS YG    I+V ++ +TG IS 
Sbjct: 6   NFDNLELIRVAKDIADQKGLNLDVIIRAIEEAIQLTSRSRYGNCK-IKVTVDKKTGLIST 64

Query: 63  FRLLEVVEE-----------------VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMD 105
           +R + V+ +                   N    I+L  A+  D +  +G ++ +PLP +D
Sbjct: 65  YRQVLVISDNGEVVIPEGKENEIDHADVNKYKLITLTEAKQIDENAKLGDIMLEPLPVID 124

Query: 106 FGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVI 165
               + + AKQ I Q +   ER +QY  FKD++G+I+ GT KR+EY NVIVDL  ++G +
Sbjct: 125 LDYSSAKIAKQKIAQVIVSEERKKQYESFKDRIGDIVYGTAKRIEYNNVIVDLNGNEGYL 184

Query: 166 RRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
                I  E  R GDRVK++I DVR+E  GPQ+ LSR +  FM +LF  E+PEIY+GIV 
Sbjct: 185 SASNLIKGEVFRVGDRVKAHIEDVRKENSGPQIFLSRVNKGFMEQLFKQEIPEIYDGIVT 244

Query: 226 VKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSAT 285
           +KA++RDPGSR+K+AVFSSD +IDPVGACVG RG R+Q+++ EL  EKID+V++SP+   
Sbjct: 245 IKAIARDPGSRSKVAVFSSDKNIDPVGACVGARGVRIQSIIAELHGEKIDVVLYSPELPK 304

Query: 286 FVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           F++NA+ PA V KV++DED  ++E+I+P+ QLSLAIGR GQN+RLAS+L  W ID+I +E
Sbjct: 305 FIVNAIAPAEVLKVIIDEDKEKVELIIPENQLSLAIGRYGQNIRLASELVNWKIDVIGDE 364

Query: 346 EDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEET 405
            +S  + K+    ++ F++ ++V+EII  LL  EGF  +E++    +S+I++I+GF+EE 
Sbjct: 365 TESTRKAKELTVGSRIFVEGLDVEEIIGQLLFTEGFVSIEDIDQASVSDISAIDGFNEEI 424

Query: 406 AVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGC 465
           A+E++ RA +YL   D  +++ +  L + +++  +P +     +AL E+GI  +ED+AG 
Sbjct: 425 AIELKNRASDYLTRKDAEIKQILESLPIDKDVAVLPFLKPSDIIALSESGINNLEDIAGL 484

Query: 466 SVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
             D+              F   + ++   KDQ++S+I+ +R K+GW+
Sbjct: 485 CTDE--------------FYEIVPNVALTKDQIDSIILESRRKIGWL 517


>gi|269958718|ref|YP_003328505.1| transcription elongation factor [Anaplasma centrale str. Israel]
 gi|269848547|gb|ACZ49191.1| transcription elongation factor [Anaplasma centrale str. Israel]
          Length = 524

 Score =  500 bits (1288), Expect = e-139,   Method: Composition-based stats.
 Identities = 216/527 (40%), Positives = 339/527 (64%), Gaps = 30/527 (5%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + + + LEL+++A  VA +K ++ ++V+  +  +++  +RS YG    I+  I+ +TG I
Sbjct: 13  LYNFDNLELIRVARDVAEQKGLNLEMVVDAIEQALELVSRSKYGDCK-IKASIDRKTGVI 71

Query: 61  SLFRLLEVVEEVENYTCQ--------------ISLKVARDRDPSIDIGGVVSDPLPPMDF 106
           S+ R   VV +  ++  +              I +  A      + +G ++ +PLPP+D 
Sbjct: 72  SISRQALVVNDDMSFDGEQYGIPSGEVNKYKLIKISDAVADGKDVKVGDILLEPLPPVDV 131

Query: 107 GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIR 166
              + + AKQ + Q +   ER RQY EFKD+VG+++ G VKRVEY NV+VDL  S+G + 
Sbjct: 132 DYNSAKVAKQKVAQLILIQERKRQYEEFKDRVGDLVYGVVKRVEYNNVVVDLNGSEGYLP 191

Query: 167 RDETISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
              TI  E  RP DRVK+++ +VR+E+  GPQ+ LSR   +FM  LF  E+PE+Y+GIV 
Sbjct: 192 VYNTIRGEVFRPNDRVKAHVEEVRQEELSGPQIFLSRVSKRFMELLFKQEIPEVYDGIVS 251

Query: 226 VKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSAT 285
           +KA++RDPGSR+K+AVFSSD ++DPVGAC+G RG R+Q +V+EL  EKID+V++S D A 
Sbjct: 252 IKALARDPGSRSKVAVFSSDKNVDPVGACIGARGVRIQNIVSELHGEKIDVVLYSSDLAK 311

Query: 286 FVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           FV++A+ PA V KV++DEDV +IE++VP+ Q+SLAIGR GQN+RLAS+L GW ID+I +E
Sbjct: 312 FVVSAIAPAEVVKVIIDEDVEKIELVVPENQVSLAIGRYGQNIRLASELVGWEIDVIGDE 371

Query: 346 EDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEET 405
            +S  + K+ +   + F+  ++V+EII  LLV+EGF+ +E+L  V ++EI +I+GF+EE 
Sbjct: 372 TESTRKAKELSSGAKVFVDGLDVEEIIGQLLVSEGFSTIEDLDKVDVAEITAIDGFNEEI 431

Query: 406 AVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGC 465
           AVE++ RA EYL        + ++ + VSEE+  +P ++ +  V L E GI+ +ED+A  
Sbjct: 432 AVELKKRAAEYLVRRREEALEILKSMSVSEEVLELPYLEIEDVVKLCEGGIRNVEDIASM 491

Query: 466 SVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
             D+              F   +      K+QV+S+I+ +R +MGW+
Sbjct: 492 CTDE--------------FYDTVPKARLSKEQVDSIILESRRRMGWV 524


>gi|332999998|gb|EGK19581.1| transcription elongation protein nusA [Shigella flexneri K-218]
          Length = 407

 Score =  499 bits (1287), Expect = e-139,   Method: Composition-based stats.
 Identities = 177/424 (41%), Positives = 266/424 (62%), Gaps = 19/424 (4%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG 152
           +G  V D +  + F R+  Q+AKQVI+QKVREAER     +F++  GEII+G VK+V   
Sbjct: 1   MGDYVEDQIESVTFDRITTQTAKQVIVQKVREAERAMVVDQFREHEGEIITGVVKKVNRD 60

Query: 153 NVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKL 211
           N+ +DLGN ++ VI R++ + REN RPGDRV+  +Y VR E RG Q+ ++R+ P+ +++L
Sbjct: 61  NISLDLGNNAEAVILREDMLPRENFRPGDRVRGVLYSVRPEARGAQLFVTRSKPEMLIEL 120

Query: 212 FHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRD 271
           F +EVPEI   ++++KA +RDPGSRAK+AV ++D  IDPVGACVGMRG+RVQAV TEL  
Sbjct: 121 FRIEVPEIGEEVIEIKAAARDPGSRAKIAVKTNDKRIDPVGACVGMRGARVQAVSTELGG 180

Query: 272 EKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLA 331
           E+IDIV+W  + A FVINA+ PA V  +V+DED   +++ V    L+ AIGR GQNVRLA
Sbjct: 181 ERIDIVLWDDNPAQFVINAMAPADVASIVVDEDKHTMDIAVEAGNLAQAIGRNGQNVRLA 240

Query: 332 SQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVK 391
           SQL+GW ++++T ++     Q + +     F + +++DE  A +LV EGF+ +EELA V 
Sbjct: 241 SQLSGWELNVMTVDDLQAKHQAEAHAAIDTFTKYLDIDEDFATVLVEEGFSTLEELAYVP 300

Query: 392 ISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVAL 451
           + E+  IEG DE T   ++ RA+  L  I    ++ + +   +++L ++ G+D  +   L
Sbjct: 301 MKELLEIEGLDEPTVEALRERAKNALATIAQAQEESLGDNKPADDLLNLEGVDRDLAFKL 360

Query: 452 GENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGW 511
              G+ T+EDLA   +DDL                     G   ++  ++I+ AR  + W
Sbjct: 361 AARGVCTLEDLAEQGIDDLADIE-----------------GLTDEKAGALIMAAR-NICW 402

Query: 512 IEKE 515
              E
Sbjct: 403 FGDE 406


>gi|332976700|gb|EGK13538.1| N utilization substance A [Psychrobacter sp. 1501(2011)]
          Length = 495

 Score =  499 bits (1286), Expect = e-139,   Method: Composition-based stats.
 Identities = 184/515 (35%), Positives = 297/515 (57%), Gaps = 30/515 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS---DIRVEINPETGDISLFR 64
           E+L + + V+ EK ++ + +   + +++  + +    T      +RVEI+ +TGD   +R
Sbjct: 4   EILTVVETVSNEKGLNPEDIFEAIEEALVVSTKKRVYTEQPEVAVRVEIDRDTGDYDTYR 63

Query: 65  LLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VV  E+ E   CQ+++    +      IG +  + +  ++FGR+A   AKQVIIQK+
Sbjct: 64  YWTVVADEDHEMPACQLAISDLDEN--EWSIGDIKEEQIESIEFGRIAATQAKQVIIQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER      F+ ++GE++ G VK+      I+DLG N++G + RD+ + RE LR   R
Sbjct: 122 REAERALTADAFEPRIGEMMYGEVKKQTRDGYIIDLGDNAEGYLSRDQMLPREQLRVKSR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           + + +Y V R+ RG Q+LLSRT P  ++ L + EVPEI   I++++ V+R PG RAK++V
Sbjct: 182 INAILYHVNRDNRGAQLLLSRTSPDMLIALMNKEVPEISEQIIEIRDVARQPGVRAKISV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGAC+GMRG+R+QAV +EL  E+ID++VWS D A ++I+AL PA V+ ++L
Sbjct: 242 KTNDHRIDPVGACIGMRGTRIQAVQSELDGERIDVIVWSDDPAQYIISALEPADVSSIIL 301

Query: 302 DEDVGRIEVI-VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           DED    ++I    +QL+ AIG +GQNVRLAS+LTG+ ++++ E E    +Q +     +
Sbjct: 302 DEDAKTADIIFTANDQLARAIGAQGQNVRLASELTGYKLNMMLEAEYLERQQNETKAYLE 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F   + VDE +A  LV  GF  +EE+A V +     IEG D++    IQ RA+E +   
Sbjct: 362 LFYNRLEVDEDLAQALVDVGFTSIEEVAYVPVETFYDIEGLDDDAIEMIQERAKEVVIAD 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           ++  Q+ ++E   S+EL ++ G+ +     L +  I T++DLA  +V DL          
Sbjct: 422 ELVKQQNMKE--PSKELLTMDGMTTDWAYKLAQRDIITLDDLAEQAVFDLEDIE------ 473

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                      G  +     +I+ AR    W  +E
Sbjct: 474 -----------GLDEKTAGELIMKARES--WFNEE 495


>gi|93004904|ref|YP_579341.1| transcription elongation factor NusA [Psychrobacter cryohalolentis
           K5]
 gi|92392582|gb|ABE73857.1| NusA antitermination factor [Psychrobacter cryohalolentis K5]
          Length = 494

 Score =  499 bits (1286), Expect = e-139,   Method: Composition-based stats.
 Identities = 187/514 (36%), Positives = 293/514 (57%), Gaps = 30/514 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS---DIRVEINPETGDISLFR 64
           E+L + + V+ EK ++ + +   + D++  + +    T     ++RV I+  TGD   +R
Sbjct: 4   EILTVVETVSNEKGLNPEDIFEAIEDALVVSTKKKVYTDQPEVEVRVSIDRTTGDYDTYR 63

Query: 65  LLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VV  E+ E   CQ+++           IG +  + +  ++FGR+A   AKQVIIQK+
Sbjct: 64  YWTVVADEDHEMPACQLAITDLDQ--EEWSIGDIKEEQIESIEFGRIAATQAKQVIIQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER+     F+ +VGE++ G VK+      I+DLG N++G + RD+ + RE LR   R
Sbjct: 122 REAERNLVADAFEPRVGEMMYGEVKKQTRDGYIIDLGDNAEGYLSRDQMLPREQLRAKSR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           + + +Y V RE RG Q+LLSRTHP+ +  L   EVPEI   I++++ V+R PG+RAK+AV
Sbjct: 182 INAILYHVNRENRGAQLLLSRTHPEMLSALMQKEVPEIAEQIIEIRNVARLPGTRAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A F+I+AL PA V+ ++L
Sbjct: 242 KTNDHRIDPVGACIGMRGTRIQAVQQELDGERIDVVVWSDDPAQFIISALEPADVSSIIL 301

Query: 302 DEDVGRIEVIV-PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           DED    ++I    +QL+ AIG +GQNVRLAS+LTG+ ++++ EEE    +  +     +
Sbjct: 302 DEDTQTADIIFSTNDQLARAIGSQGQNVRLASELTGYKLNMMLEEEYQQRQANESKAFIE 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F + + VD+ +A  LV  GF  +EE+A V +     IEG D+E    IQ RA+E +   
Sbjct: 362 LFYERLEVDKDLAQALVDIGFTSIEEVAYVPVETFYDIEGLDDEAIDMIQERAKEVVIAD 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           ++  Q+ ++E   S+EL  + G+       + +  I T++DLA  +V DL          
Sbjct: 422 ELVKQQNMKE--PSQELQDLEGMTVSWAYKMAQKDIITVDDLAEQAVFDLEDIE------ 473

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                          +    +I+ AR    W  +
Sbjct: 474 -----------DLDTETAGKLIMKARES--WFNE 494


>gi|255658253|ref|ZP_05403662.1| transcription termination factor NusA [Mitsuokella multacida DSM
           20544]
 gi|260849564|gb|EEX69571.1| transcription termination factor NusA [Mitsuokella multacida DSM
           20544]
          Length = 378

 Score =  499 bits (1285), Expect = e-139,   Method: Composition-based stats.
 Identities = 156/367 (42%), Positives = 235/367 (64%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  E L     +  EK ID +V+   +  ++  A +  +G+  ++RV ++ ETG   ++ 
Sbjct: 11  NGQEFLTTLKELGKEKGIDEEVLFEAIEAALISAYKRNFGSAQNVRVTLSRETGHYHVYA 70

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           +  VVE+ E+   +ISL  AR   P  ++G V+   + P +FGR+A Q+AKQV++Q++RE
Sbjct: 71  IKTVVEDPEDEITEISLAQARTIKPDYEVGDVIEIEVTPANFGRIAAQTAKQVVVQRIRE 130

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER   Y EF  + G+I++G V+RVE  NV +DLG ++ V+   E I  E    GDR+K+
Sbjct: 131 AERGIIYEEFMSREGDILTGLVERVENHNVYIDLGKTEAVLTPAEQIPTETYAHGDRIKA 190

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+ +V++  +GPQ+++SRTHP  + +LF +EVPEI  GIV++K+V+R+PG+R+K+AV+S 
Sbjct: 191 YVVEVKKTNKGPQIVVSRTHPGLLKRLFELEVPEIQEGIVEIKSVAREPGNRSKIAVYSK 250

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D ++DPVG+CVG RG RVQ++V EL  EKIDIV WS + A F+ NAL PA V  V ++E 
Sbjct: 251 DENVDPVGSCVGHRGLRVQSIVDELGSEKIDIVKWSDNPAKFIANALSPAKVVSVAVNET 310

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
                V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E + +           +    
Sbjct: 311 EKVSRVVVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQAADEELDANMNEVEVTGD 370

Query: 365 AINVDEI 371
           A    E+
Sbjct: 371 AAFTAEV 377


>gi|328953957|ref|YP_004371291.1| NusA antitermination factor [Desulfobacca acetoxidans DSM 11109]
 gi|328454281|gb|AEB10110.1| NusA antitermination factor [Desulfobacca acetoxidans DSM 11109]
          Length = 442

 Score =  499 bits (1285), Expect = e-139,   Method: Composition-based stats.
 Identities = 184/429 (42%), Positives = 284/429 (66%), Gaps = 9/429 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGT-MSDIRVEINPETGDISLFRLL 66
           +L ++ + V+ +K ID+D++L+ + ++++ AA+  YG    +I V  + +TG+I +F+  
Sbjct: 4   DLRRLIEQVSRDKGIDKDLLLNTVMEAVRSAAKKRYGAKQDNIEVGFSEDTGEIEVFQFK 63

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           EVV+EV +   QI+L  AR  DP  D+G  +   L    FGR+A QSAKQVIIQ +R+AE
Sbjct: 64  EVVDEVIDSDRQITLPEARQLDPECDLGDSLGIKLDAGSFGRIAAQSAKQVIIQGMRDAE 123

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           RD  + ++KD+ GEII+G V+R +   +IV+LG ++ ++   E + RE  R GDR+++Y+
Sbjct: 124 RDIVFEDYKDRKGEIINGIVQRQDKSGIIVNLGRTEALLPITEQVPRELYRQGDRIRAYV 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            DV+R+ +GPQ++LSR    F++ LF  EVPEI  GIV++ AV+R+PGSR+K+AV S D+
Sbjct: 184 VDVKRQTKGPQIILSRVDENFLIMLFEAEVPEIQEGIVKIMAVAREPGSRSKIAVASRDA 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVGM+GSRVQ +V ELR EKIDI+ W+PD A FV  AL PA V+++++DED  
Sbjct: 244 DVDPVGACVGMKGSRVQNIVQELRGEKIDIIPWNPDPAKFVTQALAPAEVSRIIIDEDSQ 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +E+IVP +QL LAIG+RGQNVRLA++LTGW ID+ +E + S + ++ +       ++  
Sbjct: 304 NMEIIVPDDQLFLAIGKRGQNVRLAAKLTGWKIDVKSESKYSKSMKEGYLS----LLKIP 359

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
            V E+ A  L   GF   +E+A   ++E+  + G +E+ A +I G A    + +    + 
Sbjct: 360 GVGEMTASALYEAGFTSAKEVAEANLAELMQVPGINEKKATQILGAA----QTLMKASED 415

Query: 427 KIRELGVSE 435
                GV E
Sbjct: 416 NPETTGVEE 424


>gi|323701863|ref|ZP_08113533.1| transcription termination factor NusA [Desulfotomaculum nigrificans
           DSM 574]
 gi|323533167|gb|EGB23036.1| transcription termination factor NusA [Desulfotomaculum nigrificans
           DSM 574]
          Length = 386

 Score =  499 bits (1285), Expect = e-139,   Method: Composition-based stats.
 Identities = 155/348 (44%), Positives = 236/348 (67%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E L+    +  EK I  DV+L  +  ++  A +  +G++ + RV I+  TGD  ++  
Sbjct: 2   NSEFLEALKDLEKEKGIAVDVLLEAIEAALLSAYKRNFGSLQNARVHIDRNTGDFKVYSQ 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEVE+   +ISL+ AR  DP  ++G VV + + P +FGR+A Q+AKQV++Q++REA
Sbjct: 62  RTVVEEVEDDRLEISLEDARKIDPRFNLGDVVENEVTPRNFGRIAAQTAKQVVVQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  + EF ++ G+I++G V+R+E  NV ++LG ++ ++   E +  E  RPGDR+K+Y
Sbjct: 122 ERNIIFEEFANREGDILTGIVQRIENKNVFIELGKTEAILTPSEQMPGEEYRPGDRLKTY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +VR+  +GPQ+L+SRTHP  + +L  MEVPE+Y G++++K+++R+ G R+K+AV+S D
Sbjct: 182 IVEVRKTTKGPQILVSRTHPGLLKRLLEMEVPELYEGVIELKSIAREAGYRSKIAVYSKD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVGACVG +G RVQ +V+EL  EKIDIV W  D + FV ++L PA V  V + ED 
Sbjct: 242 ENVDPVGACVGPKGMRVQNIVSELNGEKIDIVKWDQDPSKFVASSLSPAKVVAVEVWEDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
               VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E + +    +
Sbjct: 302 KVARVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQMAEIYPE 349


>gi|148651972|ref|YP_001279065.1| transcription elongation factor NusA [Psychrobacter sp. PRwf-1]
 gi|148571056|gb|ABQ93115.1| NusA antitermination factor [Psychrobacter sp. PRwf-1]
          Length = 495

 Score =  499 bits (1285), Expect = e-139,   Method: Composition-based stats.
 Identities = 185/515 (35%), Positives = 297/515 (57%), Gaps = 30/515 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS---DIRVEINPETGDISLFR 64
           E+L + + V+ EK ++ + +   + +++  + +    T      +RVEI+ +TGD   +R
Sbjct: 4   EILTVVETVSNEKGLNPEDIFEAIEEALVVSTKKRVYTEQPEVAVRVEIDRDTGDYDTYR 63

Query: 65  LLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VV  E+ E   CQ+++    +      IG +  + +  ++FGR+A   AKQVIIQK+
Sbjct: 64  YWTVVADEDHEMPACQLAISDLDEN--EWSIGDIKEEQIESIEFGRIAATQAKQVIIQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER      F+ ++GE++ G VK+      I+DLG N++G + RD+ + RE LR   R
Sbjct: 122 REAERALTADAFEPRIGEMMYGEVKKQTRDGYIIDLGDNAEGYLSRDQMLPREQLRVKSR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           + + +Y V R+ RG Q+LLSRT P  +V L + EVPEI   I++++ V+R PG RAK++V
Sbjct: 182 INAILYHVNRDNRGAQLLLSRTSPDMLVALMNKEVPEINEQIIEIRDVARQPGVRAKISV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGAC+GMRG+R+QAV +EL  E+ID++VWS D A ++I+AL PA V+ ++L
Sbjct: 242 KTNDHRIDPVGACIGMRGTRIQAVQSELDGERIDVIVWSDDPAQYIISALEPADVSSIIL 301

Query: 302 DEDVGRIEVI-VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           DED    ++I    +QL+ AIG +GQNVRLAS+LTG+ ++++ E E    +Q +     +
Sbjct: 302 DEDAKTADIIFTANDQLARAIGAQGQNVRLASELTGYKLNMMLEAEYLERQQNETKAYLE 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F   + VDE +A  LV  GF  +EE+A V +     IEG D++    IQ RA+E +   
Sbjct: 362 LFYNRLEVDEDLAQALVDVGFTSIEEVAYVPVETFYDIEGLDDDAIEMIQERAKEVVIAD 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           ++  Q+ ++E   S+EL ++ G+ +     L +  I T++DLA  +V DL          
Sbjct: 422 ELVKQQNMKE--PSKELLTMDGMTTDWAYKLAQRDIITLDDLAEQAVFDLEDIE------ 473

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                      G  +     +I+ AR    W  +E
Sbjct: 474 -----------GLDEKTAGELIMKARES--WFNEE 495


>gi|304316865|ref|YP_003852010.1| NusA antitermination factor [Thermoanaerobacterium
           thermosaccharolyticum DSM 571]
 gi|302778367|gb|ADL68926.1| NusA antitermination factor [Thermoanaerobacterium
           thermosaccharolyticum DSM 571]
          Length = 345

 Score =  498 bits (1284), Expect = e-139,   Method: Composition-based stats.
 Identities = 154/340 (45%), Positives = 227/340 (66%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E ++  D +  +K I +D +   +  ++  A +  YGT  +++V+++ ETGD+ ++  
Sbjct: 2   NSEFIEALDQICKDKGIPKDTMFEAIEAALVSAYKKNYGTAQNVKVKMDRETGDVKVYAQ 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE V N   +ISL+ A+       +G VV   + P  FGR+A Q+AKQV++Q++REA
Sbjct: 62  KTVVENVYNDLFEISLEDAQKLSKKYQVGDVVDIEVTPKSFGRIAAQNAKQVVVQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y +F  K  EI++G V+R+E  NV+VDLG ++  +  +E I  E    GDR+K Y
Sbjct: 122 ERGIVYEDFLSKESEIVTGIVERIERKNVLVDLGKAEATLTPNEQIPNETYNHGDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V++  +GPQ+L+SR+HP  + +LF MEVPE+  GIV+++++SR+PGSR K+AV++ D
Sbjct: 182 IVEVKKTTKGPQILISRSHPGLVKRLFEMEVPELQQGIVEIRSISREPGSRTKMAVYTKD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVG+CVG +G+RVQAVV EL+ EKIDIV WS     FV NAL PA V  + +DE  
Sbjct: 242 ENVDPVGSCVGYKGARVQAVVNELKGEKIDIVKWSSKPQEFVTNALSPAKVLSIDIDEKE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
               V+VP  QLSLAIG+ GQNVRLA++LTGW IDI +E 
Sbjct: 302 KIARVVVPDYQLSLAIGKEGQNVRLAAKLTGWKIDITSES 341


>gi|71064649|ref|YP_263376.1| transcription elongation factor NusA [Psychrobacter arcticus 273-4]
 gi|71037634|gb|AAZ17942.1| NusA antitermination factor [Psychrobacter arcticus 273-4]
          Length = 494

 Score =  498 bits (1282), Expect = e-138,   Method: Composition-based stats.
 Identities = 186/514 (36%), Positives = 293/514 (57%), Gaps = 30/514 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS---DIRVEINPETGDISLFR 64
           E+L + + V+ EK ++ + +   + D++  + +    T     ++RV I+  TGD   +R
Sbjct: 4   EILTVVETVSNEKGLNPEDIFEAIEDALVVSTKKKVYTDQPEVEVRVSIDRATGDYDTYR 63

Query: 65  LLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VV  E+ E   CQ+++           IG V  + +  ++FGR+A   AKQVIIQK+
Sbjct: 64  YWTVVADEDHEMPACQLAITDLDQ--DEWSIGDVKEEQIESIEFGRIAATQAKQVIIQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER+     F+ +VGE++ G VK+      I+DLG N++G + RD+ + RE LR   R
Sbjct: 122 REAERNLVADAFEPRVGEMMYGEVKKQTRDGYIIDLGDNAEGYLSRDQMLPREQLRAKSR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           + + +Y V RE RG Q+LLSRTHP+ +  L   EVPEI   I++++ V+R PG+RAK+AV
Sbjct: 182 INAILYHVNRENRGAQLLLSRTHPEMLSALMQKEVPEIAEQIIEIRNVARLPGTRAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A F+I++L PA V+ ++L
Sbjct: 242 KTNDHRIDPVGACIGMRGTRIQAVQQELDGERIDVVVWSDDPAQFIISSLEPADVSSIIL 301

Query: 302 DEDVGRIEVIV-PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           DED    ++I    +QL+ AIG +GQNVRLAS+LTG+ ++++ EEE    +  +     +
Sbjct: 302 DEDTQSADIIFSTNDQLARAIGSQGQNVRLASELTGYKLNMMLEEEYQQRQANESKAFIE 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F + + VD+ +A  LV  GF  +EE+A V +     IEG D++    IQ RA+E +   
Sbjct: 362 LFYERLEVDKDLAQALVDIGFTSIEEVAYVPVETFYDIEGLDDDAIDMIQERAKEVVIAD 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           ++  Q+ ++E   S+EL  + G+       + +  I T++DLA  +V DL          
Sbjct: 422 ELVKQQNMKE--PSQELQDLEGMTVSWAYKMAQKDIITVDDLAEQAVFDLEDIE------ 473

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEK 514
                          +    +I+ AR    W  +
Sbjct: 474 -----------DLDTETAGKLIMKARES--WFNE 494


>gi|296132885|ref|YP_003640132.1| transcription termination factor NusA [Thermincola sp. JR]
 gi|296031463|gb|ADG82231.1| transcription termination factor NusA [Thermincola potens JR]
          Length = 535

 Score =  497 bits (1281), Expect = e-138,   Method: Composition-based stats.
 Identities = 162/364 (44%), Positives = 247/364 (67%), Gaps = 5/364 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E ++  + +  EK I  DV+L  +  ++  A +  +G+  ++RV+I+ ETG+I +F  
Sbjct: 2   NTEFIEALEELEREKGIAIDVLLEALEAALISAYKRNFGSAQNVRVDIDRETGEIKVFAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE+VE+   +ISL+ A+ RDP  ++  +V   + P DFGR+A Q+AKQV++Q++REA
Sbjct: 62  KTVVEKVEDDRLEISLEEAQKRDPRYELSDIVEIEVTPRDFGRIAAQTAKQVVVQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF ++ G+I++G V+R +  NV VDLG ++ ++   E I+ E  R GDR+K+Y
Sbjct: 122 ERGIIYEEFSNREGDIVTGIVQRQDPKNVYVDLGKTEAILAPSEQIAGEEYRHGDRIKTY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V++  +GPQ+L+SRTHP  + +LF +EVPEI++G+V++K+V+R+ G+R+K+AV+S D
Sbjct: 182 IVEVKKTTKGPQILVSRTHPGLLKRLFELEVPEIHDGVVELKSVAREAGARSKIAVYSKD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVGACVG +G RVQ +V EL+ EKIDIV WSPD A FV NAL PA V  V ++E  
Sbjct: 242 ENVDPVGACVGPKGMRVQTIVNELKGEKIDIVKWSPDPARFVANALSPAKVLDVKVNEAE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
               VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E + +     +  +    F + 
Sbjct: 302 KIARVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQMA-----EMADNDDLFEEN 356

Query: 366 INVD 369
            ++ 
Sbjct: 357 DDIT 360


>gi|212639524|ref|YP_002316044.1| transcription elongation factor NusA [Anoxybacillus flavithermus
           WK1]
 gi|212561004|gb|ACJ34059.1| Transcription elongation factor [Anoxybacillus flavithermus WK1]
          Length = 367

 Score =  496 bits (1277), Expect = e-138,   Method: Composition-based stats.
 Identities = 152/344 (44%), Positives = 223/344 (64%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL    A+  +K I ++V++  +  +I  A +  +    ++RV+ N ETG I +F  
Sbjct: 2   NTELLDALTALERDKGISKEVLIEAIEAAIVSAYKRNFNQAQNVRVDFNQETGTIRVFAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISL  A+  +P+  +G VV   + P +FGR+A Q+AKQV+ Q+VREA
Sbjct: 62  KEVVDEVYDSRLEISLDEAKRINPNYQVGDVVEIEVTPKNFGRIAAQTAKQVVTQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF D+  +I++G V+R +   + V LG  + ++   E +  E  +P DR+K Y
Sbjct: 122 ERGVIYAEFVDREEDIMTGIVQRTDSKFIYVSLGKIEALLPVSEQMPNETYKPHDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+V+R+ G R+K++V S +
Sbjct: 182 ITKVEKTTKGPQIYVSRTHPGLLKRLFELEVPEIYDGTVEIKSVAREAGDRSKISVHSDN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG +G RVQA+V EL+ EKIDIV WS D   FV NAL P+ V  V+++E+ 
Sbjct: 242 PEVDPVGACVGPKGQRVQAIVNELKGEKIDIVRWSSDPVEFVANALSPSKVLDVIVNEEE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
               VIVP  QLSLAIG+RGQN RLA++LT W IDI ++ E   
Sbjct: 302 KATTVIVPDYQLSLAIGKRGQNARLAAKLTNWKIDIKSQSEAEQ 345


>gi|73667087|ref|YP_303103.1| transcription elongation factor NusA [Ehrlichia canis str. Jake]
 gi|72394228|gb|AAZ68505.1| Transcription termination factor NusA C-terminal duplication
           [Ehrlichia canis str. Jake]
          Length = 517

 Score =  495 bits (1276), Expect = e-138,   Method: Composition-based stats.
 Identities = 214/527 (40%), Positives = 345/527 (65%), Gaps = 32/527 (6%)

Query: 3   SANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISL 62
           + + LEL+++A  +A +K ++ D+++  + ++IQ  +RS YG    I+V ++ +TG +S 
Sbjct: 6   NFDNLELIRVAKDIADQKGLNLDIIIRAIEEAIQLTSRSKYGNCK-IKVTVDRKTGVVST 64

Query: 63  FRLLEVVEE------VENYTCQI-----------SLKVARDRDPSIDIGGVVSDPLPPMD 105
           +R + V+ +       EN   +I           +L  A+  D + ++G ++ + LP +D
Sbjct: 65  YRQVLVINDNGEIVIPENKKSEIDSSDISKYKLITLTEAKQIDENAEVGDIMLEHLPVID 124

Query: 106 FGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVI 165
               + + AKQ I Q +   ER +QY +FKD++G+I+ GT KR+EY NVIVDL  ++G +
Sbjct: 125 LDYSSAKIAKQKIAQVIISEERKKQYEDFKDRIGDIVYGTAKRIEYNNVIVDLNGNEGYL 184

Query: 166 RRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
                I  E  R GDRVK++I DVR+E  GPQ+ LSR    FM +LF  E+PEIY+GIV 
Sbjct: 185 SAANLIKGEVFRVGDRVKAHIEDVRKENSGPQIFLSRISKGFMEQLFKQEIPEIYDGIVT 244

Query: 226 VKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSAT 285
           +KA++RDPGSR+K+AVFSSD +IDPVGACVG RG R+Q+++ EL  EKID++++SP+ A 
Sbjct: 245 IKAIARDPGSRSKVAVFSSDKNIDPVGACVGARGVRIQSIIYELHGEKIDVILYSPELAK 304

Query: 286 FVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           F++NA+ PA V KV++DED  ++E+I+P+ QLSLAIGR GQN+RLAS+L GW ID+I +E
Sbjct: 305 FIVNAIAPAEVLKVIIDEDKEKVELIIPENQLSLAIGRYGQNIRLASELIGWKIDVIGDE 364

Query: 346 EDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEET 405
            +S  + K+ +E ++ F++ ++V+EII  LL  EGF  +E++    +S+IA+I+GF+EE 
Sbjct: 365 TESSRKAKELSEGSKIFVEGLDVEEIIGQLLFTEGFVSIEDIDQASVSDIAAIDGFNEEI 424

Query: 406 AVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGC 465
           A E++ RA +YL   D  +++ +  L V +++ ++P +     +AL ENGIK++ED+AG 
Sbjct: 425 AEELKSRAADYLTRKDAEIKQILDNLSVDKDVTTLPFLKPSDIIALSENGIKSLEDIAGL 484

Query: 466 SVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
             D+                  + ++   KDQ++S+I+ +R K+GW+
Sbjct: 485 CTDEFFD--------------IVPNIALTKDQIDSVILESRKKIGWL 517


>gi|302342324|ref|YP_003806853.1| transcription termination factor NusA [Desulfarculus baarsii DSM
           2075]
 gi|301638937|gb|ADK84259.1| transcription termination factor NusA [Desulfarculus baarsii DSM
           2075]
          Length = 436

 Score =  494 bits (1272), Expect = e-137,   Method: Composition-based stats.
 Identities = 192/429 (44%), Positives = 282/429 (65%), Gaps = 4/429 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL ++ D VA EK +DR++++S + +++Q AAR   G+  ++ V  N E G++ +F   E
Sbjct: 3   ELRRMIDHVAREKGLDREILISTLEEAMQSAARRKLGSKVEVDVAYNDEIGEVEVFEFKE 62

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEE+ +   QI  + AR  DP  ++G  +   +   DFGR+A QSAKQVIIQ++++AER
Sbjct: 63  VVEELTDPDTQIGFEDARRLDPDCELGDELGIKVETADFGRIAAQSAKQVIIQRMKDAER 122

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           D  + +FKD+ GEII+G V+R + G+++V+LG ++ ++   E + RE  RPGDRV++Y+ 
Sbjct: 123 DIIFEDFKDRKGEIINGIVQRFDKGSIVVNLGRTEAILLAREQVPREGYRPGDRVRAYVL 182

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           DV+R  RGPQ++LSRTHP F+  LF +EVPEI  GIV ++ V+R+ GSR KL V SSD  
Sbjct: 183 DVKRVSRGPQIILSRTHPGFVEALFELEVPEIAEGIVTIEGVAREAGSRTKLGVSSSDRD 242

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGM+GSRVQAVV ELR EKIDI+ +  D A +V+NAL PA +++VV+DE    
Sbjct: 243 VDPVGACVGMKGSRVQAVVQELRGEKIDIIAYDSDPARYVVNALAPAEISRVVVDESNNT 302

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           +EVIV  E LSLAIGRRGQNVRLAS+LTGW ID+ +E + S + +  +    +  +  + 
Sbjct: 303 MEVIVADEMLSLAIGRRGQNVRLASKLTGWKIDVKSESKYSESLRDGY----RSLLDVVG 358

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           V +I A  L   G+A  + LA    +++A++ G D+E A  +   AR+Y++         
Sbjct: 359 VSDIGADTLFQAGYASADALAYANAADLAALPGIDDERAQRLIDDARDYIQRRRQASDAA 418

Query: 428 IRELGVSEE 436
                   E
Sbjct: 419 RAGGQAQRE 427


>gi|257453568|ref|ZP_05618858.1| transcription elongation factor NusA [Enhydrobacter aerosaccus
           SK60]
 gi|257449026|gb|EEV23979.1| transcription elongation factor NusA [Enhydrobacter aerosaccus
           SK60]
          Length = 493

 Score =  494 bits (1272), Expect = e-137,   Method: Composition-based stats.
 Identities = 181/515 (35%), Positives = 290/515 (56%), Gaps = 30/515 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL-YGTMSDI--RVEINPETGDISL 62
             E+L + + V+ EK ++ + +   +  ++  + +   Y    ++  RV IN +TGD   
Sbjct: 2   NREILTVVETVSNEKGLNPEDIFEAIEQALVVSTKKKVYSEQPEVAVRVHINRKTGDYDT 61

Query: 63  FRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +R   VV  E+ E   CQ+++    +      IG V  + +  ++FGR+A   AKQVIIQ
Sbjct: 62  YRYWTVVADEDHEMPACQLAISDLDEN--EWKIGDVKEEQIESIEFGRIAATQAKQVIIQ 119

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPG 179
           K+REAER      F+ ++GE+I+G VK+      I+DLG N +G + RD+ + RE LR  
Sbjct: 120 KIREAERSLVADAFEHRIGEMITGEVKKPARDGYIIDLGDNVEGYLPRDKMLPREQLRIK 179

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
            R+ + +  V R+ RG Q++LSRT PQ +  L   EVPEI   I++++ V+R PG RAK+
Sbjct: 180 GRINAILEQVNRDNRGAQLVLSRTSPQMLTALMQKEVPEIAEQIIEIRDVARQPGLRAKI 239

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           +V ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D+  ++I+AL PA V ++
Sbjct: 240 SVKTNDHRIDPVGACIGMRGTRIQAVQQELEGERIDVVVWSDDAVQYIISALEPADVDRI 299

Query: 300 VLDEDVGRIEVIV-PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           +LDED    ++I    +QL+ AIG +GQNVRLAS+LTG+ ++++ E+E +  ++ +    
Sbjct: 300 ILDEDTKTADIIFATNDQLARAIGSQGQNVRLASELTGYRLNMMLEDEYNAQQESETKVY 359

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
              F   + VDE +A  LV  GF  +EE+A V       I+G D++    IQ RA+E + 
Sbjct: 360 RDLFYTRLEVDEDLAQALVDIGFTSLEEVAYVPAETFYDIDGLDDDAIDAIQERAKEAVI 419

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             ++  Q+ I+E   S+EL ++ G+       L E  + T++DLA  ++ D+        
Sbjct: 420 ADELVKQQNIKE--PSQELLNLEGMTQAWAYKLAERDVITVDDLAEQAIFDIQDIE---- 473

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                        G  +     +I+ AR    W  
Sbjct: 474 -------------GLDEKTAGELIMKARES--WFN 493


>gi|295696156|ref|YP_003589394.1| transcription termination factor NusA [Bacillus tusciae DSM 2912]
 gi|295411758|gb|ADG06250.1| transcription termination factor NusA [Bacillus tusciae DSM 2912]
          Length = 383

 Score =  493 bits (1271), Expect = e-137,   Method: Composition-based stats.
 Identities = 157/345 (45%), Positives = 222/345 (64%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             + ++  D +  EK I +DV++  +  ++    +  + + +++RV++N ETGD+ +F  
Sbjct: 2   NQDFIEALDQLEREKGISKDVLIEAIEAALISGYKRNFNSAANVRVDVNRETGDVRVFAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEE  +   +ISL+ A    P   +G +V   + P DFGR+A Q+AKQV+ Q++REA
Sbjct: 62  KTVVEETADPRMEISLEAAEQISPHYTVGDIVEIEVTPKDFGRIAAQTAKQVVTQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y E+ D+  +I++G V+R +     VDLG  + ++   E I  E L+ GDRVK++
Sbjct: 122 ERGLIYHEYLDREEDIVTGLVQRQDARYTYVDLGKVEALLPFHEQIPGEKLKQGDRVKAF 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V +  +GPQVLLSRTHP  + +LF +EVPEIY G+V++K+V+R+ G R+K+AVFS  
Sbjct: 182 ITKVEKTTKGPQVLLSRTHPGLLKRLFELEVPEIYEGVVEIKSVAREAGHRSKIAVFSRK 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG RG RVQ VV EL  EK+DIV WS D   FV NAL PA V  V + ED 
Sbjct: 242 PEVDPVGACVGPRGMRVQHVVAELHGEKVDIVKWSEDPEEFVKNALSPAKVVSVEIAEDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
               VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E +   N
Sbjct: 302 RVARVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQVEAN 346


>gi|134299807|ref|YP_001113303.1| transcription elongation factor NusA [Desulfotomaculum reducens
           MI-1]
 gi|134052507|gb|ABO50478.1| NusA antitermination factor [Desulfotomaculum reducens MI-1]
          Length = 384

 Score =  493 bits (1271), Expect = e-137,   Method: Composition-based stats.
 Identities = 159/369 (43%), Positives = 241/369 (65%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E L+    +  EK I  DV+L  +  ++  A +  +G++ + RV I+ +TGD  ++  
Sbjct: 2   NSEFLEALRDLEKEKGIAVDVLLEAIEAALLSAYKRNFGSLQNARVHIDRDTGDYKVYSQ 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEVE+   +ISL+ AR  DP  ++  VV D + P +FGR+A Q+AKQV++Q++REA
Sbjct: 62  RAVVEEVEDDRVEISLEDARKIDPRFNLEDVVEDEVTPRNFGRIAAQTAKQVVVQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  + EF ++ G+I++G V+R+E  NV ++LG ++ ++   E I  E+ R GDR+K+Y
Sbjct: 122 ERNIIFEEFSNREGDILTGIVQRIENKNVFIELGKTEAILTPSEQIPNEDYRHGDRLKTY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +VR+  +GPQ+L+SRTHP  + +LF +EVPE+  G+V++K+++R+ G R+K+AV+S D
Sbjct: 182 IVEVRKTTKGPQILVSRTHPGLLKRLFELEVPELQEGVVELKSIAREAGYRSKIAVYSKD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            +IDPVGACVG +G RVQ +VTEL  EKIDI+ W+ D + +V ++L PA V  V + ED 
Sbjct: 242 ENIDPVGACVGPKGMRVQNIVTELNGEKIDIIKWNQDPSKYVASSLSPAKVVAVEVWEDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
               VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E + +    +   E    F   
Sbjct: 302 KVARVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQMTDIYPEYDAEENDGFSTD 361

Query: 366 INVDEIIAH 374
            N  E    
Sbjct: 362 DNYLETFED 370


>gi|323705403|ref|ZP_08116978.1| transcription termination factor NusA [Thermoanaerobacterium
           xylanolyticum LX-11]
 gi|323535305|gb|EGB25081.1| transcription termination factor NusA [Thermoanaerobacterium
           xylanolyticum LX-11]
          Length = 345

 Score =  493 bits (1271), Expect = e-137,   Method: Composition-based stats.
 Identities = 151/340 (44%), Positives = 227/340 (66%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E ++  + +  +K I ++ +   +  ++  A +  YGT  +++V+++ ETGD+ ++  
Sbjct: 2   NTEFIEALEQICKDKGIPKETMFEAIEAALVSAYKKNYGTAQNVKVKMDRETGDVKVYAQ 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE V N   +ISL+ A+       +G  V   + P  FGR+A Q+AKQV++Q++REA
Sbjct: 62  KTVVENVYNDLLEISLEEAQKLSKKYLVGDTVDIEVTPKSFGRIAAQNAKQVVVQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y +F  K  EI++G V+R+E  NV+VDLG ++  +  +E I  E  + GDR+K Y
Sbjct: 122 ERGIVYEDFLSKESEIVTGIVERIEKKNVLVDLGKTEATLTPNEQIPNETYKHGDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V++  +GPQ+L+SR+HP  + +LF MEVPE+  GIV+++++SR+PGSR K+AV++ D
Sbjct: 182 IVEVKKTTKGPQILISRSHPGLVKRLFEMEVPELQQGIVEIRSISREPGSRTKMAVYAKD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVG+CVG +G+RVQAVV EL+ EKIDIV WS     FV NAL PA V  + +DE  
Sbjct: 242 ENVDPVGSCVGYKGARVQAVVNELKGEKIDIVKWSSKPQEFVTNALSPAKVLSIDIDEKE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
               V+VP  QLSLAIG+ GQNVRLA++LTGW IDI +E 
Sbjct: 302 KIARVVVPDYQLSLAIGKEGQNVRLAAKLTGWKIDITSES 341


>gi|308173623|ref|YP_003920328.1| transcription translation coupling factor involved in Rho-dependent
           transcription termination [Bacillus amyloliquefaciens
           DSM 7]
 gi|307606487|emb|CBI42858.1| transcription translation coupling factor involved in Rho-dependent
           transcription termination [Bacillus amyloliquefaciens
           DSM 7]
 gi|328553445|gb|AEB23937.1| transcription elongation factor NusA [Bacillus amyloliquefaciens
           TA208]
 gi|328911764|gb|AEB63360.1| transcription translation coupling factor involved in Rho-dependent
           transcription termination [Bacillus amyloliquefaciens
           LL3]
          Length = 373

 Score =  493 bits (1271), Expect = e-137,   Method: Composition-based stats.
 Identities = 152/362 (41%), Positives = 233/362 (64%), Gaps = 5/362 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV++N ETG I +F   +
Sbjct: 4   ELLDALTILEKEKGISKDIIIEAIEAALISAYKRNFNQAQNVRVDLNRETGTIRVFARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISL  A+   P+  +G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDEVYDSRLEISLDDAQHIHPNYLVGDVVEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R++   + V LG  + ++  +E +  E+ +P DR+K +I 
Sbjct: 124 GVIYSEFIDREEDIMTGIVQRLDSKFIYVSLGKIEALLPVNEQMPNESYKPHDRIKVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+V+R+ G R+K++V + D  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEIEVPEIYDGTVELKSVAREAGDRSKISVRTDDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQA+V EL+ EKIDIV WS D   FV NAL P+ V  V+++E+   
Sbjct: 244 VDPVGSCVGPKGQRVQAIVNELKGEKIDIVNWSDDPVEFVANALSPSKVLDVIVNEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI-----NRQKDFNERTQFF 362
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E +           ++ ++    F
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDARDIGIFPREHEEDDDLEPLF 363

Query: 363 MQ 364
           M+
Sbjct: 364 ME 365


>gi|154686077|ref|YP_001421238.1| transcription elongation factor NusA [Bacillus amyloliquefaciens
           FZB42]
 gi|154351928|gb|ABS74007.1| NusA [Bacillus amyloliquefaciens FZB42]
          Length = 373

 Score =  493 bits (1271), Expect = e-137,   Method: Composition-based stats.
 Identities = 151/367 (41%), Positives = 231/367 (62%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV++N ETG I +F   +
Sbjct: 4   ELLDALTILEKEKGISKDIIIEAIEAALISAYKRNFNQAQNVRVDLNRETGTIRVFARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISL  A+   P+  +G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDEVYDSRLEISLDDAQHIHPNYLVGDVVEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R++   + V LG  + ++  +E +  E+ +P DR+K +I 
Sbjct: 124 GVIYSEFIDREEDIMTGIVQRLDSKFIYVSLGKIEALLPVNEQMPNESYKPHDRIKVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+V+R+ G R+K++V + D  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEIEVPEIYDGTVELKSVAREAGDRSKISVRTDDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQA+V EL+ EKIDIV WS D   FV NAL P+ V  V++ E+   
Sbjct: 244 VDPVGSCVGPKGQRVQAIVNELKGEKIDIVNWSDDPVEFVANALSPSKVLDVIVSEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E +                ++ + 
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDARDLGIYPREHEEDDDLEPLF 363

Query: 368 VDEIIAH 374
           ++   A 
Sbjct: 364 MEPETAE 370


>gi|332976856|gb|EGK13681.1| N utilization substance protein A [Desmospora sp. 8437]
          Length = 377

 Score =  493 bits (1270), Expect = e-137,   Method: Composition-based stats.
 Identities = 150/342 (43%), Positives = 223/342 (65%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E +   + +  EK I ++V++  +  ++    +  + +  ++RV+I+ +TG + +F  
Sbjct: 2   NAEFIDALNQLEKEKGISKEVLIEAIEAALISGYKRNFHSAQNVRVDIDRDTGRVRVFAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV +   +ISL+ A + +PS ++  +V   + P DFGR+A Q+AKQV+ Q++REA
Sbjct: 62  KTVVEEVTDPRLEISLEAATEINPSFELDDIVEIEVTPADFGRIAAQTAKQVVTQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF D+  +I++G V+R +  +  +DLG  + ++   ET+  E  +  DRVK+Y
Sbjct: 122 ERSIIYEEFVDREADIVTGVVQRADSRHYYIDLGRVEALLPFAETMPGERFKHNDRVKAY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V +  +GPQV +SRTHP  + +LF +EVPEIY GIV++++V+R+ G R+K+AV S D
Sbjct: 182 ITRVEKSTKGPQVFVSRTHPGLLKRLFELEVPEIYEGIVEIRSVAREAGHRSKIAVISRD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG RG RVQ VV ELR EKIDIV WS +   FV NAL P+ V +V + E  
Sbjct: 242 EQVDPVGACVGHRGMRVQTVVNELRGEKIDIVRWSDEPVEFVSNALSPSKVVRVDIREAE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
              +V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E E 
Sbjct: 302 KVAQVVVPDHQLSLAIGKEGQNARLAAKLTGWKIDIKSESES 343


>gi|325290363|ref|YP_004266544.1| NusA antitermination factor [Syntrophobotulus glycolicus DSM 8271]
 gi|324965764|gb|ADY56543.1| NusA antitermination factor [Syntrophobotulus glycolicus DSM 8271]
          Length = 429

 Score =  493 bits (1270), Expect = e-137,   Method: Composition-based stats.
 Identities = 152/342 (44%), Positives = 231/342 (67%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            +E ++    +  EK I  + +   +  ++  A +  Y ++ ++R +++  TG+I ++  
Sbjct: 2   NIEFIEAVGELEKEKGISSEKLFEAIEAALVSAYKKNYSSLQNVRPQVDRNTGEIKVYAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV++   QISL+ A+  DP+ D+  +V   + P +FGR+A Q+AKQV++Q++REA
Sbjct: 62  KNVVEEVDDSRQQISLEEAKKIDPNYDLNDIVEFEVTPREFGRIAAQTAKQVVVQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  Y E+ ++ G+I++G V+R E  NVIVDLG  + V+   E I  E  +P +R+K+Y
Sbjct: 122 ERELIYGEYINREGDIVTGVVQRYEQRNVIVDLGKVEAVLPPSEQIPGETYQPFERIKTY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V++  +GPQVLLSRTHP  + +LF +EVPEI++G V++KAV+R+ G+R+K+AV+S D
Sbjct: 182 VVEVKKTPKGPQVLLSRTHPGLIKRLFELEVPEIHDGFVEIKAVAREAGARSKIAVYSKD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVGACVG +GSRVQ +V EL+ EK+DI+ WS D   FV NAL PA V  V    + 
Sbjct: 242 ENVDPVGACVGPKGSRVQNIVNELKGEKMDIITWSQDPVEFVSNALSPAKVLGVFPRFED 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
               VIVP  QLSLAIG+ GQN RLA++LTGW IDI  E + 
Sbjct: 302 KVTLVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKNETQA 343


>gi|258516334|ref|YP_003192556.1| transcription elongation factor NusA [Desulfotomaculum acetoxidans
           DSM 771]
 gi|257780039|gb|ACV63933.1| NusA antitermination factor [Desulfotomaculum acetoxidans DSM 771]
          Length = 381

 Score =  491 bits (1266), Expect = e-136,   Method: Composition-based stats.
 Identities = 147/355 (41%), Positives = 233/355 (65%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E L     +  EK I  DV++  +  ++  A +  +G++ + RV I+ ETGD  ++  
Sbjct: 2   NTEFLDALRELEREKGIAVDVLIDAIEAALLSAYKRNFGSLQNARVHIDRETGDFKVYSQ 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             V EEV++   +I+L  A+  DP  ++G VV + + P +FGR+A Q+AKQV++Q++REA
Sbjct: 62  RTVTEEVQDDRLEITLADAQKIDPRFELGDVVENEVTPRNFGRIAAQTAKQVVVQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  Y  F  +  +II+G V+R+E  N+ ++LG ++ ++   E +  E  + GDR+K+Y
Sbjct: 122 ERNIIYETFSSRESDIITGVVQRIEQKNIYIELGKTEAILTPSEQMPNETYKHGDRIKAY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +VR+  +GPQ+ +SRTHP  + +LF +EVPE+  GIV++K+V+R+ G+R+K+AV+S D
Sbjct: 182 IVEVRKTTKGPQIYVSRTHPGLLKRLFELEVPELEEGIVELKSVAREAGARSKIAVYSKD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVGACVG +G+RVQ +V EL  EKIDI+ W PD++ +V ++L PA V  V + ED 
Sbjct: 242 ENVDPVGACVGPKGARVQNIVNELNGEKIDIIKWDPDASKYVASSLSPAKVVAVEIWEDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
               V+VP  QLSLAIG+ GQN RLA++LTG  IDI +E + +    + + E   
Sbjct: 302 KVARVVVPDYQLSLAIGKEGQNARLAAKLTGCKIDIKSESQMAALYPEGYGEAYD 356


>gi|251772259|gb|EES52829.1| transcription termination factor (NusA) [Leptospirillum
           ferrodiazotrophum]
          Length = 443

 Score =  490 bits (1263), Expect = e-136,   Method: Composition-based stats.
 Identities = 178/426 (41%), Positives = 253/426 (59%), Gaps = 14/426 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL + D +  EK I ++ ++  +  +I  AA+  YG   + +VEI+P TG+I +  L
Sbjct: 3   NQELLSVIDQLHREKGIPQETLIEALQSAILTAAKKRYGGGDNFQVEIDPRTGEIQVLHL 62

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VE V +   ++SL  A++ DP  ++G  +   L   DFGRVA Q+AKQVI QKVREA
Sbjct: 63  RRIVEHVVSPMEEVSLAEAKESDPEAEVGDEIGAYLEIDDFGRVAAQAAKQVIFQKVREA 122

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E      EF  + G +++G     E  N I+DLG ++ V+   E I RE+   GDRVK+ 
Sbjct: 123 EWSVVAKEFGGRKGNVVAGVYIGQEKRNFIIDLGKTEAVLPFKEQIPRESFHRGDRVKAL 182

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + D+R   RGPQ++LSRTHP F+ +LF  EVPEI  G++++K V RDPG RAK+AV S D
Sbjct: 183 LLDIRTTTRGPQLILSRTHPDFLARLFEKEVPEISEGLIEIKGVVRDPGERAKVAVLSRD 242

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DE 303
            +IDPVG+CVG++GSRVQA+V E+  EKIDI+ WSPD  TF+  AL PA V +V     E
Sbjct: 243 PNIDPVGSCVGVKGSRVQAIVREIHGEKIDIIDWSPDPGTFIARALSPAKVLRVATRDSE 302

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED------------SINR 351
                 V+V  +QLSL+IGRRGQNVRLA++LTGW IDI +E++             +   
Sbjct: 303 FDKVATVVVANQQLSLSIGRRGQNVRLAAKLTGWKIDIFSEQQYEADRQARAGGDGAEEE 362

Query: 352 QKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
             D             +   +A  L A G+  VE++A   I +IA +     +TA ++  
Sbjct: 363 HSDAAPLLLGIEDLPGMGGNVADALKAAGYDTVEKIAEANIDDIAILPRLGPKTAAKLVE 422

Query: 412 RAREYL 417
            AR++L
Sbjct: 423 TARDFL 428


>gi|311030088|ref|ZP_07708178.1| transcription elongation factor NusA [Bacillus sp. m3-13]
          Length = 374

 Score =  490 bits (1263), Expect = e-136,   Method: Composition-based stats.
 Identities = 146/342 (42%), Positives = 224/342 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL      +  EK I +DV++  +  ++  A +  +    ++RV++N ETG + +F   +
Sbjct: 4   ELFDALTLMEKEKGISKDVIIEAIEAALISAYKRNFNQAQNVRVDMNLETGTMRVFARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +IS++ AR  DP+     VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDEVFDSRLEISIQEARQIDPNYQENDVVEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+ ++  +I++G V+R++   + V LG  + ++  +E +  E+ +P DR+K ++ 
Sbjct: 124 GVIYSEYIEREEDIMTGIVQRLDSKFIYVSLGKIEALLPVNEQMPNEHYKPHDRIKVFLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF +EVPEIY+G V++K+V+R+ G R+K++V   +  
Sbjct: 184 KVEKTTKGPQIFVSRSHPGLLKRLFELEVPEIYDGTVEIKSVAREAGDRSKISVHCDNPE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G RVQA+V EL+ EKIDIV WS D   FV NAL P+ V +V ++E+   
Sbjct: 244 VDPVGACVGPKGQRVQAIVNELKGEKIDIVRWSKDPVEFVANALSPSKVLEVQVNEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E E   
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSESEAEE 345


>gi|52080267|ref|YP_079058.1| transcription elongation factor NusA [Bacillus licheniformis ATCC
           14580]
 gi|52785644|ref|YP_091473.1| transcription elongation factor NusA [Bacillus licheniformis ATCC
           14580]
 gi|319645953|ref|ZP_08000183.1| transcription elongation protein nusA [Bacillus sp. BT1B_CT2]
 gi|52003478|gb|AAU23420.1| NusA [Bacillus licheniformis ATCC 14580]
 gi|52348146|gb|AAU40780.1| NusA [Bacillus licheniformis ATCC 14580]
 gi|317391703|gb|EFV72500.1| transcription elongation protein nusA [Bacillus sp. BT1B_CT2]
          Length = 372

 Score =  490 bits (1263), Expect = e-136,   Method: Composition-based stats.
 Identities = 147/342 (42%), Positives = 225/342 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV++N +TG I +F   +
Sbjct: 4   ELLDALTVLEKEKGISKDIIIEAIEAALISAYKRNFNQAQNVRVDLNRDTGSIRVFARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +IS++ A + +P+  +G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDEVYDPRLEISIEDAVNINPNYIVGDVVEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R++   + V LG  + ++   E +  E  +P DR+K +I 
Sbjct: 124 GVIYSEFIDREEDIMTGIVQRIDNKFIYVSLGKIEALLPVAEQMPNEVYKPHDRIKVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+V+R+ G R+K++V + +  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEIEVPEIYDGTVELKSVAREAGDRSKISVRTDNPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVGACVG +G RVQA+V EL+ EKIDIV WS D   FV NAL P+ V  V+++E+   
Sbjct: 244 IDPVGACVGPKGQRVQAIVNELKGEKIDIVHWSNDPVEFVANALSPSKVLDVIVNEEDKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
             V+VP  QLSLAIG+RGQN RLA++LT W IDI +E +   
Sbjct: 304 TTVVVPDYQLSLAIGKRGQNARLAAKLTSWKIDIKSETDARE 345


>gi|313901626|ref|ZP_07835063.1| NusA antitermination factor [Thermaerobacter subterraneus DSM
           13965]
 gi|313468107|gb|EFR63584.1| NusA antitermination factor [Thermaerobacter subterraneus DSM
           13965]
          Length = 473

 Score =  490 bits (1263), Expect = e-136,   Method: Composition-based stats.
 Identities = 166/351 (47%), Positives = 239/351 (68%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E ++  + +  +K ID+D +L  +  ++  A R  +GT  ++ V I+ ETG+I +   
Sbjct: 2   NAEFIEALEDLERQKGIDKDTLLEAIEAALVAAFRRHFGTAQNVAVRIDRETGEIRVVAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            +VVEEVE+ + QIS+  AR+ DP    G VV   + P DFGR+A Q+AKQV++Q++REA
Sbjct: 62  RDVVEEVEDPSTQISVAEAREIDPRYKPGDVVEQEVTPRDFGRIAAQTAKQVVLQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ERD  Y EF  + G+I++G V+RV+  NV VDLG ++ V+   E I  E  RPGDR+K Y
Sbjct: 122 ERDLIYEEFIAREGDIVTGVVQRVQGRNVFVDLGRTETVLFPSEQIPGERYRPGDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +VR+  +GPQ+L+SR+HP  + +LF +EVPEI++GIV++K   R+PG RAK+AV + D
Sbjct: 182 IVEVRKTPKGPQILISRSHPNLIKRLFELEVPEIHDGIVEIKEAVREPGVRAKVAVDTRD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG RG+RVQAVV ELR E+ID++ W+ +   FV NAL PA VT+V+L+ + 
Sbjct: 242 ERVDPVGACVGPRGARVQAVVAELRGERIDVIRWAEEPEQFVANALSPAKVTRVILEPET 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN 356
               VIVP  QLSLAIG+ GQN RLA++LTGW IDI  E + +    ++ +
Sbjct: 302 RVARVIVPDHQLSLAIGKEGQNARLAARLTGWKIDIHAESQAAEWLAREDD 352


>gi|147677601|ref|YP_001211816.1| transcription elongation factor NusA [Pelotomaculum
           thermopropionicum SI]
 gi|146273698|dbj|BAF59447.1| transcription elongation factor [Pelotomaculum thermopropionicum
           SI]
          Length = 360

 Score =  490 bits (1263), Expect = e-136,   Method: Composition-based stats.
 Identities = 155/352 (44%), Positives = 235/352 (66%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E L+    +  EK I  DV+L  +  ++  A +  +G++ + RV I+ ETG+  ++  
Sbjct: 2   NTEFLEALKDLEREKGIAVDVLLEAIEAALLSAYKRNFGSLQNARVHIDRETGEFKVYTQ 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             V E VE+   +I +K AR  +P+   G +V   + P DFGR+A Q+AKQV++Q++REA
Sbjct: 62  RTVSEHVEDPRQEIDIKEARAINPNYAPGDIVESEVTPRDFGRIAAQTAKQVVVQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  Y EF ++ G+I++G V+RVE  NV ++LG ++ ++   E I  E  R GDR+K+Y
Sbjct: 122 ERNIIYEEFANREGDIVTGIVQRVEQKNVYIELGKTEAILAPSEQIPGEEYRQGDRIKTY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +VR+  +GPQ+L+SRTHP  + +L  MEVPE+  GIV++K ++R+ G+R+K+AV+S D
Sbjct: 182 IVEVRKTTKGPQILVSRTHPGLLKRLLEMEVPELQEGIVELKGIAREAGARSKIAVYSKD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVGACVG +G RVQ +V+EL  EKIDI+ W+PD + FV ++L PA V  V + E+ 
Sbjct: 242 ENVDPVGACVGPKGMRVQNIVSELNGEKIDIIKWNPDPSKFVASSLSPAKVIAVEIWEEE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
               VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E +      +++NE
Sbjct: 302 KVARVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSETQMREIYPEEYNE 353


>gi|88607683|ref|YP_505048.1| transcription elongation factor NusA [Anaplasma phagocytophilum HZ]
 gi|88598746|gb|ABD44216.1| N utilization substance protein A [Anaplasma phagocytophilum HZ]
          Length = 514

 Score =  490 bits (1262), Expect = e-136,   Method: Composition-based stats.
 Identities = 207/526 (39%), Positives = 334/526 (63%), Gaps = 29/526 (5%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + + + LEL+++A  VA ++ +D  V++  +  +++  +   YG    I+V I+ +TG I
Sbjct: 4   LYNFDNLELIRVARDVAEQRGLDLGVIVEAIEQALEVVSHVKYGDSK-IKVSIDRKTGVI 62

Query: 61  SLFRLLEVVEEVENYTCQ--------------ISLKVARDRDPSIDIGGVVSDPLPPMDF 106
           S+ R + VV++   +  +              + +  A      +++G ++ +PLPP+D 
Sbjct: 63  SVARQVLVVKDDFTFDSEECGIAAEEVNKYKLVRISDALADGEQVEVGDILLEPLPPIDI 122

Query: 107 GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIR 166
              + + AKQ + Q +   ER RQY EFKD+VG+++ G VKRVEY N+IVDL  S+G + 
Sbjct: 123 DYNSAKLAKQKVAQLIMMQERKRQYEEFKDRVGDLVYGVVKRVEYNNIIVDLNGSEGYLP 182

Query: 167 RDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
              TI  E  RP  RVK+++ DVRRE  GPQ+ LSR   +FM  LF  E+ E+Y+GIV +
Sbjct: 183 VYNTIRGEVFRPNARVKAHVEDVRREATGPQIFLSRVSKRFMELLFKQEISEVYDGIVTI 242

Query: 227 KAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATF 286
           KA++RD GSR+K+AV+SSD ++DPVGAC+G RG R+Q +V EL  EKID++ +SPD A F
Sbjct: 243 KALARDAGSRSKVAVYSSDKNVDPVGACIGARGVRIQNIVAELNGEKIDVIPYSPDLAKF 302

Query: 287 VINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           V++A+ PA V KV++DEDV +IE++VP+ Q+SLAIGR GQN+RLAS+L GW+ID+I +E 
Sbjct: 303 VVSAIAPAEVVKVIIDEDVEKIELVVPESQVSLAIGRYGQNIRLASELVGWSIDVIGDET 362

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
           +S  + K+ +   + F++ ++V+EII  LLV+EGF+ +E+L   ++ +IA+++GF+EE A
Sbjct: 363 ESTRKAKELSSGAKVFVEDLDVEEIIGQLLVSEGFSSIEDLDRAEVGDIAAVDGFNEEIA 422

Query: 407 VEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
            E++ RA E L        + +  + VSEE+  +P +  +  V L ENG++++ED+A   
Sbjct: 423 RELKTRAAECLARKRKEAIEMLESMSVSEEVMQLPFLQVEDIVKLSENGVRSVEDIASLC 482

Query: 467 VDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
            D+              F   +      K+QV+S+I+ +R ++GW+
Sbjct: 483 TDE--------------FYDIVPRAKLSKEQVDSVILESRKRVGWV 514


>gi|15614979|ref|NP_243282.1| transcription elongation factor NusA [Bacillus halodurans C-125]
 gi|20139215|sp|Q9KA74|NUSA_BACHD RecName: Full=Transcription elongation protein nusA
 gi|10175036|dbj|BAB06135.1| transcriptional terminator [Bacillus halodurans C-125]
          Length = 382

 Score =  490 bits (1262), Expect = e-136,   Method: Composition-based stats.
 Identities = 151/369 (40%), Positives = 233/369 (63%), Gaps = 3/369 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E +     +  EK I ++V++  +  ++    +  +    ++RV++N E G I +F  
Sbjct: 2   NSEFMDALTTLEKEKGISKEVIIEAIEAALISGYKRNFNQAQNVRVDVNRENGSIRVFAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEV +   +ISL  A+  +P+ ++  VV   + P DFGR+A Q+AKQV+ Q+VREA
Sbjct: 62  KEVVEEVFDARLEISLDEAKGINPNYEVDDVVEIEVTPKDFGRIAAQTAKQVVTQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y +F D+  +I++G V+R +   + VDLG  + ++   E +  E+ R  DR+K+Y
Sbjct: 122 ERGIIYADFIDREEDIMTGIVQRQDNRFIYVDLGKVEALLPLSEQMPNESYRHNDRIKAY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V +  +GPQ+++SRTHP  + +LF +EVPEIY+G V++K+V+R+ G R+K++V + +
Sbjct: 182 ITKVEKTTKGPQIMISRTHPGLLKRLFELEVPEIYDGTVELKSVAREAGDRSKISVHAEN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG +GSRVQ +V EL+ EKIDIV WS D   +V NAL P+ V KV ++E+ 
Sbjct: 242 PEVDPVGACVGPKGSRVQTIVNELKGEKIDIVRWSEDPVEYVANALSPSKVVKVNVNEEE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
              +VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E E       +    +    + 
Sbjct: 302 KTTQVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSESEAQELGLLEDEAASH---ET 358

Query: 366 INVDEIIAH 374
           + +D+  A 
Sbjct: 359 LALDQETAD 367


>gi|317129165|ref|YP_004095447.1| NusA antitermination factor [Bacillus cellulosilyticus DSM 2522]
 gi|315474113|gb|ADU30716.1| NusA antitermination factor [Bacillus cellulosilyticus DSM 2522]
          Length = 374

 Score =  490 bits (1262), Expect = e-136,   Method: Composition-based stats.
 Identities = 152/366 (41%), Positives = 235/366 (64%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E +     +  +K ID++++L  +  ++    +  + +  ++RV+I+  TG I +F  
Sbjct: 2   NSEFMDALTTIEKDKGIDKEIILEAIEQALITGYKRNFNSAQNVRVDIDRNTGSIRVFAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEV +   +ISL+ A++  P  D+  VV   + P DFGR+A Q+AKQV+ Q+VREA
Sbjct: 62  KEVVEEVFDSRLEISLEAAKNIHPQYDVDDVVEIEVTPRDFGRIAAQTAKQVVTQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y +F D+  +I++G V+R ++  + VDLG  + ++   E +  E  +  DR+K+Y
Sbjct: 122 ERGIIYSDFIDREEDIMTGIVQRQDHRFIYVDLGKVEALMPVSEQMPNETYKHNDRIKAY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V +  +GPQ+++SRTHP  + +LF +EVPEIY+G V++K+VSR+ G R+K+AV + D
Sbjct: 182 ITKVEKTTKGPQIMISRTHPGLLKRLFELEVPEIYDGTVEIKSVSREAGDRSKIAVHAED 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVG+CVG +G RVQ +V EL+ EKIDIV WS D   +V NAL P+ V +V ++E+ 
Sbjct: 242 PEVDPVGSCVGPKGQRVQTIVNELKGEKIDIVRWSEDPKVYVANALSPSNVVQVTVNEEE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
              +VIVP  QLSLAIG++GQN RLA++LTGW IDI ++ E       + N  T+     
Sbjct: 302 KMTQVIVPDYQLSLAIGKKGQNARLAAKLTGWKIDIKSQSEAEELGLYNSNTDTEQDWTD 361

Query: 366 INVDEI 371
            +V+EI
Sbjct: 362 EDVEEI 367


>gi|115372730|ref|ZP_01460036.1| NusA protein [Stigmatella aurantiaca DW4/3-1]
 gi|310823422|ref|YP_003955780.1| transcription termination factor NusA [Stigmatella aurantiaca
           DW4/3-1]
 gi|115370211|gb|EAU69140.1| NusA protein [Stigmatella aurantiaca DW4/3-1]
 gi|309396494|gb|ADO73953.1| Transcription termination factor NusA [Stigmatella aurantiaca
           DW4/3-1]
          Length = 565

 Score =  489 bits (1261), Expect = e-136,   Method: Composition-based stats.
 Identities = 197/498 (39%), Positives = 292/498 (58%), Gaps = 47/498 (9%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L  + D VA +K I+R V+++ + D+++ AA+  +G   ++  + + E G + LF+ + V
Sbjct: 11  LNLVLDQVAKDKGIERSVLIATLEDAMKTAAKKHFGQDRNLEAKYDVEKGVVELFQAITV 70

Query: 69  VEEVENYT---CQISLKVARDRDPSIDIGGVVSDPLPPMD-------------------- 105
           VEE+ +      QI++  A  +   ++ G  +   +   D                    
Sbjct: 71  VEEIVDPVQAVNQITMAEAHKKGMEVEPGDELVFQIMYRDEDAAEAKAQDDQYGDILRLK 130

Query: 106 -----FGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN 160
                FGR+A Q+AKQVI+Q+ R+AER+  + E+KD+  EI++G  +R E GN+IVDLG 
Sbjct: 131 TFRRGFGRIAAQTAKQVILQRTRDAERENVFNEYKDRKNEIVTGIARRFERGNIIVDLGR 190

Query: 161 SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIY 220
           ++ V+   E + RE  RPGDRV++Y+ DV RE +GPQ++LSR     + KLF MEVPEI 
Sbjct: 191 AEAVLPVREQVPRETYRPGDRVQAYVLDVLRESKGPQIVLSRASVNLLTKLFEMEVPEIA 250

Query: 221 NGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
            GIV ++A +R+PG RAK+AV S DS +DPVGACVGM+GSRVQAVV ELR EKIDIV + 
Sbjct: 251 EGIVVIEAAAREPGGRAKIAVSSRDSDVDPVGACVGMKGSRVQAVVQELRGEKIDIVPFD 310

Query: 281 PDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
            D A+FV +AL PA V++V++DE    +E+IVP +QLSLAIGRRGQNVRLA+QLTGW +D
Sbjct: 311 EDPASFVCSALAPAEVSRVIIDEANHAMELIVPDDQLSLAIGRRGQNVRLAAQLTGWKLD 370

Query: 341 IITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEG 400
           I +E    +   ++F  R+        V+E++   L A GF   +++A      ++ I G
Sbjct: 371 INSES--RVREMREFANRS--LGSLPGVNEMLIETLYAHGFRQAKDVAEASPEVLSQIPG 426

Query: 401 FDEETAVEIQGRAREYL------------EGIDITLQKKIR---ELGVSEELCSIPGIDS 445
            D      +Q  AR+ +            E     + +  R   EL  SE +  + G+  
Sbjct: 427 LDPTRLPAMQESARKQMVDDAAELSRMDHEREAARIAEARRHPDELSQSERMARVRGLGE 486

Query: 446 KIKVALGENGIKTMEDLA 463
           K   AL  +G KT+ED+A
Sbjct: 487 KTIEALIVSGYKTVEDIA 504


>gi|253573564|ref|ZP_04850907.1| transcription termination factor NusA [Paenibacillus sp. oral taxon
           786 str. D14]
 gi|251847092|gb|EES75097.1| transcription termination factor NusA [Paenibacillus sp. oral taxon
           786 str. D14]
          Length = 365

 Score =  489 bits (1260), Expect = e-136,   Method: Composition-based stats.
 Identities = 146/364 (40%), Positives = 237/364 (65%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            ++ ++  + +  EK I +D++   +  ++  + +  + T  ++RV++N  TG+I ++  
Sbjct: 2   SMDFIEALNELEREKGISKDILFEAIEAALISSYKRNFNTAQNVRVDMNRHTGEIKVYAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV +   +ISL+ AR+ +P+  +  +    + P DFGR+A Q+AKQV+ Q++REA
Sbjct: 62  KLVVEEVLDPRTEISLQAAREINPNYHLDDITEIEVTPRDFGRIAAQTAKQVVTQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y  F +K  +I++G V+R +  N+ VDLG  +  +  +E +  E  + GDR+K+Y
Sbjct: 122 ERGLIYNAFVEKEEDIVTGIVQRQDLRNIYVDLGKVEAHLPLNELMPNEKFKHGDRIKAY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V    +GPQ+LLSRTHP  + +LF +EVPEI++G+V++++V+R+ G R+K+AV+S +
Sbjct: 182 ITKVENTTKGPQILLSRTHPGLLKRLFELEVPEIFDGVVEIRSVAREAGFRSKIAVYSRN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           S +DPVG+CVG +G+RVQ +V ELR EKIDIV +S +   +V NAL P+ V +V + E  
Sbjct: 242 SEVDPVGSCVGPKGTRVQTIVNELRGEKIDIVRYSENVEEYVANALSPSKVLEVQVFEAE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
               VIVP  QLSLAIG +GQN RLA++LTGW IDI +E +      ++  ++ +    +
Sbjct: 302 KMARVIVPDYQLSLAIGIKGQNARLAAKLTGWKIDIKSETQAEEEFGREKTDQGEMPQDS 361

Query: 366 INVD 369
           I+VD
Sbjct: 362 ISVD 365


>gi|227499045|ref|ZP_03929182.1| NusA antitermination factor [Acidaminococcus sp. D21]
 gi|226904494|gb|EEH90412.1| NusA antitermination factor [Acidaminococcus sp. D21]
          Length = 359

 Score =  489 bits (1259), Expect = e-136,   Method: Composition-based stats.
 Identities = 145/341 (42%), Positives = 222/341 (65%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             + ++    +A EK I  DV+ S + +++  A +  +G+  ++RV +N E G+I ++  
Sbjct: 2   NADFVRAIAQLAKEKHISPDVLYSAVEEALITAYKKNFGSTQNVRVSMNKENGEIHVYAQ 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +V EVEN   +ISL  A   +P    G VV + + P +FGR+A Q+AKQVI+Q++REA
Sbjct: 62  KNIVTEVENPLTEISLDEAFKLNPRYQAGDVVEEEVTPKNFGRIAAQNAKQVIVQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y ++ D+  +I++GT++R+E  N+ VDLG ++G +  +E I  E      R+K Y
Sbjct: 122 ERGMVYEKYSDRENDIVTGTIQRIEGRNIFVDLGTAEGTLLPNEQIPGETYEYHQRIKCY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V++  +GPQ++LSRTHP  + +LF +EV EI +G V + +V+R+PG R+K+AV S++
Sbjct: 182 VVEVKKTTKGPQIILSRTHPGLLKRLFELEVAEIQDGTVIIDSVAREPGMRSKIAVHSTN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            S+DPVGACVG +G RVQ VV EL  EKIDIV +S +   +V +AL P+ V     D + 
Sbjct: 242 PSVDPVGACVGPKGMRVQTVVDELGGEKIDIVKYSDNPEEYVASALSPSKVVSAAADAEH 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E +
Sbjct: 302 KICRVVVPDFQLSLAIGKEGQNARLAAKLTGWKIDIKSETQ 342


>gi|284048695|ref|YP_003399034.1| transcription termination factor NusA [Acidaminococcus fermentans
           DSM 20731]
 gi|283952916|gb|ADB47719.1| transcription termination factor NusA [Acidaminococcus fermentans
           DSM 20731]
          Length = 362

 Score =  489 bits (1259), Expect = e-136,   Method: Composition-based stats.
 Identities = 147/340 (43%), Positives = 226/340 (66%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             + ++    +A EKSI  DV+ S + +++  A +  YG+  ++RV ++ ETG+I ++  
Sbjct: 2   NADFVKAIALLAKEKSISPDVLYSAVEEALITAYKKNYGSAQNVRVSMHKETGEIHVYAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEV + T +ISL+ A+  +     G ++   + P +FGR+A Q+AKQVI+Q++REA
Sbjct: 62  KNIVEEVTDPTTEISLEDAQKMNAHYQAGDILETEVTPKNFGRIAAQNAKQVIVQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y  + D+  +I++GTV+R+E  NV +DLG ++G++  +E I  E      R+K Y
Sbjct: 122 ERGMVYERYSDRENDIVTGTVQRIEGRNVFIDLGTAEGLLLPNEQIPHETYDYHQRLKCY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V++  +GPQ++LSRTHP  + +LF +EV EI +G V + +V+R+PG R+K+AV S++
Sbjct: 182 VVEVKKTTKGPQIILSRTHPGLLKRLFELEVSEIQDGTVIIDSVAREPGMRSKIAVHSTN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            S+DPVGACVG +G RV+ +V ELR EKIDIV +S D   +V NAL P+ V     D+D 
Sbjct: 242 PSVDPVGACVGPKGMRVRTIVDELRGEKIDIVKYSEDPEEYVANALSPSKVVSARADKDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
               V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E 
Sbjct: 302 KICRVVVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSES 341


>gi|184156669|ref|YP_001845008.1| transcription elongation factor NusA [Acinetobacter baumannii
           ACICU]
 gi|332873077|ref|ZP_08441034.1| transcription termination factor NusA [Acinetobacter baumannii
           6014059]
 gi|183208263|gb|ACC55661.1| Transcription elongation factor [Acinetobacter baumannii ACICU]
 gi|322506556|gb|ADX02010.1| nusA [Acinetobacter baumannii 1656-2]
 gi|323516435|gb|ADX90816.1| transcription elongation factor NusA [Acinetobacter baumannii
           TCDC-AB0715]
 gi|332738589|gb|EGJ69459.1| transcription termination factor NusA [Acinetobacter baumannii
           6014059]
          Length = 494

 Score =  489 bits (1259), Expect = e-136,   Method: Composition-based stats.
 Identities = 195/516 (37%), Positives = 292/516 (56%), Gaps = 35/516 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD-----IRVEINPETGDISL 62
           E+L + + V+ EK + R+ +   +  ++  A +  +   ++     +RVEI+  TGD   
Sbjct: 4   EILTVVETVSNEKGVSREAIFEALEQALVAATKKKFYEGTNSEEAQLRVEIDRRTGDYRT 63

Query: 63  FRLLEVV--EEVENYTCQISLKVARDRDP-SIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           FR   VV  E+ E   CQ ++      DP    IG V    +  ++FGR+A Q AKQVI+
Sbjct: 64  FRQWTVVADEDHEMPACQDAISD---VDPAKWSIGDVRELEVESIEFGRIAAQIAKQVIV 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           QK+REAER      ++ KVGE+I G VK+      I+DLG N++  + R+E I +E LRP
Sbjct: 121 QKIREAERALVADAYESKVGELIYGEVKKQTKDGFIIDLGDNAEAYLAREEMIPKEILRP 180

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
             RV + +Y V RE RG Q+LLSR  P+ ++ L   E+PEI   I+++KA +R PG RAK
Sbjct: 181 KQRVNAILYSVNREGRGAQLLLSRAKPEMLIALMKKEIPEISEEIIEIKAAARQPGVRAK 240

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A ++ +AL PA V+ 
Sbjct: 241 IAVKTNDHRIDPVGACIGMRGTRIQAVQQELNGERIDVVVWSDDPAQYIASALEPADVSG 300

Query: 299 VVLDEDVGRIEVIV-PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +VLDED    ++I    +QL+ AIG +GQNVRLAS LTG+ +D++ EEE    +Q +  +
Sbjct: 301 IVLDEDAKSADIIFATNDQLARAIGSQGQNVRLASDLTGYKLDMMLEEEYRARQQNEAQQ 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F+  ++++E +A  LV  GF  +EE+A V       IE  D E    +Q RA+E  
Sbjct: 361 YLDMFVSRLDIEEDLAMALVEMGFTSLEEIAYVPAETFDEIE-LDAELVELLQSRAKEAA 419

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
               +  Q+ I+E   S +L ++ G+ S+I  +L   GI T++DLA  + DD+       
Sbjct: 420 LTDALKQQENIQE--PSADLLNMEGMTSEIAYSLAARGIITVDDLADQATDDISDIE--- 474

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                         G   D+   +I+ AR    W  
Sbjct: 475 --------------GLGHDKAGQLIMKARES--WFN 494


>gi|169797408|ref|YP_001715201.1| transcription elongation factor NusA [Acinetobacter baumannii AYE]
 gi|213155778|ref|YP_002317823.1| transcription elongation factor NusA [Acinetobacter baumannii
           AB0057]
 gi|215484847|ref|YP_002327084.1| Transcription elongation protein nusA [Acinetobacter baumannii
           AB307-0294]
 gi|239500931|ref|ZP_04660241.1| transcription elongation factor NusA [Acinetobacter baumannii
           AB900]
 gi|260556300|ref|ZP_05828519.1| transcription termination factor NusA [Acinetobacter baumannii ATCC
           19606]
 gi|301346315|ref|ZP_07227056.1| transcription elongation factor NusA [Acinetobacter baumannii
           AB056]
 gi|301513268|ref|ZP_07238505.1| transcription elongation factor NusA [Acinetobacter baumannii
           AB058]
 gi|301596448|ref|ZP_07241456.1| transcription elongation factor NusA [Acinetobacter baumannii
           AB059]
 gi|332855373|ref|ZP_08435838.1| transcription termination factor NusA [Acinetobacter baumannii
           6013150]
 gi|332867631|ref|ZP_08437763.1| transcription termination factor NusA [Acinetobacter baumannii
           6013113]
 gi|169150335|emb|CAM88232.1| transcription termination/antitermination, L factor (N utilization
           substance protein A) [Acinetobacter baumannii AYE]
 gi|193076182|gb|ABO10797.2| transcription termination/antitermination L factor [Acinetobacter
           baumannii ATCC 17978]
 gi|213054938|gb|ACJ39840.1| transcription elongation factor NusA [Acinetobacter baumannii
           AB0057]
 gi|213986270|gb|ACJ56569.1| Transcription elongation protein nusA [Acinetobacter baumannii
           AB307-0294]
 gi|260410355|gb|EEX03654.1| transcription termination factor NusA [Acinetobacter baumannii ATCC
           19606]
 gi|332727505|gb|EGJ58931.1| transcription termination factor NusA [Acinetobacter baumannii
           6013150]
 gi|332733825|gb|EGJ64972.1| transcription termination factor NusA [Acinetobacter baumannii
           6013113]
          Length = 494

 Score =  488 bits (1258), Expect = e-136,   Method: Composition-based stats.
 Identities = 194/516 (37%), Positives = 292/516 (56%), Gaps = 35/516 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD-----IRVEINPETGDISL 62
           E+L + + V+ EK + R+ +   +  ++  A +  +   ++     +RVEI+  TGD   
Sbjct: 4   EILTVVETVSNEKGVSREAIFEALEQALVAATKKKFYEGTNSEEAQLRVEIDRRTGDYRT 63

Query: 63  FRLLEVV--EEVENYTCQISLKVARDRDP-SIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           FR   VV  E+ E   CQ ++      DP    IG V    +  ++FGR+A Q AKQVI+
Sbjct: 64  FRQWTVVADEDHEMPACQDAISD---VDPAKWSIGDVRELEVESIEFGRIAAQIAKQVIV 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           QK+REAER      ++ KVGE+I G VK+      I+DLG N++  + R+E I +E LRP
Sbjct: 121 QKIREAERALVADAYESKVGELIYGEVKKQTKDGFIIDLGDNAEAYLAREEMIPKEILRP 180

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
             RV + +Y V RE RG Q+LLSR  P+ ++ L   E+PEI   I+++KA +R PG RAK
Sbjct: 181 KQRVNAILYSVNREGRGAQLLLSRAKPEMLIALMKKEIPEISEEIIEIKAAARQPGVRAK 240

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A ++ +AL PA V+ 
Sbjct: 241 IAVKTNDHRIDPVGACIGMRGTRIQAVQQELNGERIDVVVWSDDPAQYIASALEPADVSG 300

Query: 299 VVLDEDVGRIEVIV-PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +VLDED    ++I    +QL+ AIG +GQNVRLAS LTG+ +D++ EEE    +Q +  +
Sbjct: 301 IVLDEDAKSADIIFATNDQLARAIGSQGQNVRLASDLTGYKLDMMLEEEYRARQQNEAQQ 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F+  ++++E +A  LV  GF  +EE+A V       IE  D E    +Q RA+E  
Sbjct: 361 YLDMFVSRLDIEEDLAMALVEMGFTSLEEIAYVPAETFDEIE-LDAELVELLQSRAKEAA 419

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
               +  Q+ I+E   S +L ++ G+ S+I  +L   GI T++DLA  + DD+       
Sbjct: 420 LTDALKQQENIQE--PSADLLNMEGMTSEIAYSLAARGIITVDDLADQATDDISDIE--- 474

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                         G   ++   +I+ AR    W  
Sbjct: 475 --------------GLGHEKAGQLIMKARES--WFN 494


>gi|33519578|ref|NP_878410.1| transcription elongation factor NusA [Candidatus Blochmannia
           floridanus]
 gi|33517241|emb|CAD83624.1| transcription pausing; L factor [Candidatus Blochmannia floridanus]
          Length = 501

 Score =  488 bits (1258), Expect = e-136,   Method: Composition-based stats.
 Identities = 178/513 (34%), Positives = 301/513 (58%), Gaps = 19/513 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + + V+ EK++ ++ +   +  ++  A R  Y    DIRV I+ ++G IS FR 
Sbjct: 2   NKEILAVVEVVSNEKAVPKEKIFLALEMALAAATRKKYSQDIDIRVSIDRKSGKISTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV +V   T +++L+ A+  +  I I   V D +  + F R+  Q+AKQVIIQK+REA
Sbjct: 62  WVVVNQVIQPTREMTLEAAQLENLEIKINDYVEDIVESVTFDRITTQTAKQVIIQKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKS 184
           ER     +F  + GEI++G +K++   +V VDLGN ++G+I+R+E + REN R GDR++ 
Sbjct: 122 ERMIIIEQFLSRQGEIVTGIIKKISRYSVSVDLGNNAEGIIKREEMLPRENFRVGDRIRG 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +Y V+ + +G  + +SRT  + +++LF +EVPEI   ++ ++A +RDPGSR+K+AV ++
Sbjct: 182 ILYLVKTDSKGSNLFISRTCTEMLIELFRIEVPEIGEELITIQAAARDPGSRSKIAVKTN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDP+GACVGMRG+RVQAV +EL  E++D+++W  +   FV+NA+ PA +  +++DED
Sbjct: 242 DKRIDPIGACVGMRGARVQAVSSELGGERVDVILWDDNPVQFVVNAMIPADIVSMIVDED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              +++ V +  L+  IGR GQN+RL SQL  W ++++T  E    RQ +       FM+
Sbjct: 302 KHTMDIAVEESNLAQIIGRNGQNIRLISQLIDWELNVMTVVELEKKRQSEDRNILDIFMR 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT- 423
            +N++E  A +L+  GF+ +EELA + ISE+ SI  FD+E    ++ +A++ L+ +    
Sbjct: 362 VLNINEESAKVLIDSGFSSLEELAYIPISELLSIGVFDKEEIDLLRFKAKDALKDLSNKD 421

Query: 424 -LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
                   +    EL  +  +  +I + L   GI  +EDLA   +  L G          
Sbjct: 422 NNDDNSTIMNSVSELLKLSSLKYEIALKLINYGIYKLEDLAEQDIVSLSG---------- 471

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                +  L   ++++  +I+ AR  + W   +
Sbjct: 472 -----IKDLNLTEEEIGELIMEAR-NICWFNHD 498


>gi|169634554|ref|YP_001708290.1| transcription elongation factor NusA [Acinetobacter baumannii SDF]
 gi|169153346|emb|CAP02459.1| transcription termination/antitermination, L factor (N utilization
           substance protein A) [Acinetobacter baumannii]
          Length = 494

 Score =  488 bits (1258), Expect = e-136,   Method: Composition-based stats.
 Identities = 193/516 (37%), Positives = 292/516 (56%), Gaps = 35/516 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD-----IRVEINPETGDISL 62
           E+L + + V+ EK + R+ +   +  ++  A +  +   ++     +RVEI+  TGD   
Sbjct: 4   EILTVVETVSNEKGVSREAIFEALEQALVAATKKKFYEGTNSEEAQLRVEIDRRTGDYRT 63

Query: 63  FRLLEVV--EEVENYTCQISLKVARDRDP-SIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           FR   VV  ++ E   CQ ++      DP    IG V    +  ++FGR+A Q AKQVI+
Sbjct: 64  FRQWTVVADDDHEMPACQDAISD---VDPAKWSIGDVRELEVESIEFGRIAAQIAKQVIV 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           QK+REAER      ++ KVGE+I G VK+      I+DLG N++  + R+E I +E LRP
Sbjct: 121 QKIREAERALVADAYESKVGELIYGEVKKQTKDGFIIDLGDNAEAYLAREEMIPKEILRP 180

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
             RV + +Y V RE RG Q+LLSR  P+ ++ L   E+PEI   I+++KA +R PG RAK
Sbjct: 181 KQRVNAILYSVNREGRGAQLLLSRAKPEMLIALMKKEIPEISEEIIEIKAAARQPGVRAK 240

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A ++ +AL PA V+ 
Sbjct: 241 IAVKTNDHRIDPVGACIGMRGTRIQAVQQELNGERIDVVVWSDDPAQYIASALEPADVSG 300

Query: 299 VVLDEDVGRIEVIV-PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +VLDED    ++I    +QL+ AIG +GQNVRLAS LTG+ +D++ EEE    +Q +  +
Sbjct: 301 IVLDEDAKSADIIFATNDQLARAIGSQGQNVRLASDLTGYKLDMMLEEEYRARQQNEAQQ 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F+  ++++E +A  LV  GF  +EE+A V       IE  D E    +Q RA+E  
Sbjct: 361 YLDMFVSRLDIEEDLAMALVEMGFTSLEEIAYVPAETFDEIE-LDAELVELLQSRAKEAA 419

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
               +  Q+ I+E   S +L ++ G+ S+I  +L   GI T++DLA  + DD+       
Sbjct: 420 LTDALKQQENIQE--PSADLLNMEGMTSEIAYSLAARGIITVDDLADQATDDISDIE--- 474

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                         G   ++   +I+ AR    W  
Sbjct: 475 --------------GLGHEKAGQLIMKARES--WFN 494


>gi|260550521|ref|ZP_05824731.1| transcription termination/antitermination L factor [Acinetobacter
           sp. RUH2624]
 gi|260406436|gb|EEW99918.1| transcription termination/antitermination L factor [Acinetobacter
           sp. RUH2624]
          Length = 494

 Score =  488 bits (1257), Expect = e-136,   Method: Composition-based stats.
 Identities = 195/516 (37%), Positives = 293/516 (56%), Gaps = 35/516 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI-----RVEINPETGDISL 62
           E+L + + V+ EK + R+ +   +  ++  A +  +   +       RVEI+ +TGD   
Sbjct: 4   EILTVVETVSNEKGVSREAIFEALEQALVAATKKRFYEGTHAEEAQLRVEIDRKTGDYRT 63

Query: 63  FRLLEVV--EEVENYTCQISLKVARDRDPS-IDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           FR   VV  E+ E   CQ ++      DPS   IG V    +  ++FGR+A Q AKQVI+
Sbjct: 64  FRQWTVVADEDHEMPACQDAISD---VDPSKWSIGDVRELEVESIEFGRIAAQIAKQVIV 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           QK+REAER      ++ KVGE+I G VK+      I+DLG N++  + R+E I +E LRP
Sbjct: 121 QKIREAERALVADAYESKVGELIYGEVKKQTKDGFIIDLGDNAEAYLAREEMIPKEILRP 180

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
             RV + +Y+V RE RG Q+LLSR  P+ ++ L   E+PEI   I+++KA +R PG RAK
Sbjct: 181 KQRVNAILYNVNREGRGAQLLLSRAKPEMLIALMKKEIPEISEEIIEIKAAARQPGVRAK 240

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A ++ +AL PA V+ 
Sbjct: 241 IAVKTNDHRIDPVGACIGMRGTRIQAVQQELNGERIDVVVWSDDPAQYIASALEPADVSG 300

Query: 299 VVLDEDVGRIEVIV-PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +VLDED    ++I    +QL+ AIG +GQNVRLAS LTG+ +D++ EEE    +Q +  +
Sbjct: 301 IVLDEDARSADIIFATSDQLARAIGSQGQNVRLASDLTGYKLDMMLEEEYRARQQNEAQQ 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F+  ++++E +A  LV  GF  +EE+A V       IE  D E    +Q RA+E  
Sbjct: 361 YLDMFVSRLDIEEDLAMALVEMGFTSLEEIAYVPAETFDEIE-LDAELVELLQSRAKEAA 419

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
               +  Q+ I+E   S +L ++ G+ S+I  +L   GI T++DLA  + DD+       
Sbjct: 420 LTDALKQQENIQE--PSADLLTMEGMTSEIAYSLAARGIITVDDLADQATDDISDIE--- 474

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                         G   ++   +I+ AR    W  
Sbjct: 475 --------------GLDHEKAGQLIMKARES--WFN 494


>gi|311068183|ref|YP_003973106.1| transcription elongation factor NusA [Bacillus atrophaeus 1942]
 gi|310868700|gb|ADP32175.1| transcription elongation factor NusA [Bacillus atrophaeus 1942]
          Length = 372

 Score =  488 bits (1257), Expect = e-135,   Method: Composition-based stats.
 Identities = 151/361 (41%), Positives = 231/361 (63%), Gaps = 4/361 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV++N ETG I +F   +
Sbjct: 4   ELLDALTILEKEKGISKDIIIEAIEAALISAYKRNFNQAQNVRVDLNRETGTIRVFARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +IS+  A   DP+  +G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDEVYDPRLEISIDDAHAIDPNYVVGDVVEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R++   + V LG  + ++  +E +  E+ +P DR+K +I 
Sbjct: 124 GVIYTEFIDREEDIMTGIVQRLDNKFIYVSLGKIEALLPVNEQMPNESYKPHDRIKVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+V+R+ G R+K++V + D  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEIEVPEIYDGTVELKSVAREAGDRSKISVRTDDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQA+V EL+ EKIDIV WS D   FV NAL P+ V  V+++E+   
Sbjct: 244 VDPVGSCVGPKGQRVQAIVNELKGEKIDIVNWSNDPVEFVANALSPSKVLDVIVNEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI----NRQKDFNERTQFFM 363
             VIVP  QLSLAIG+RGQN RLA++LT W IDI +E +        R+ + +     F 
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTSWKIDIKSETDARELGIYPRELEEDLDEPLFT 363

Query: 364 Q 364
           +
Sbjct: 364 E 364


>gi|293610134|ref|ZP_06692435.1| conserved hypothetical protein [Acinetobacter sp. SH024]
 gi|292827366|gb|EFF85730.1| conserved hypothetical protein [Acinetobacter sp. SH024]
 gi|325124307|gb|ADY83830.1| nusA; transcription elongation factor NusA [Acinetobacter
           calcoaceticus PHEA-2]
          Length = 494

 Score =  488 bits (1257), Expect = e-135,   Method: Composition-based stats.
 Identities = 194/516 (37%), Positives = 292/516 (56%), Gaps = 35/516 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI-----RVEINPETGDISL 62
           E+L + + V+ EK + R+ +   +  ++  A +  +   +       RVEI+ +TGD   
Sbjct: 4   EILTVVETVSNEKGVSREAIFEALEQALVAATKKRFYEGTHAEEAQLRVEIDRKTGDYRT 63

Query: 63  FRLLEVV--EEVENYTCQISLKVARDRDP-SIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           FR   VV  E+ E   CQ ++      DP    IG V    +  ++FGR+A Q AKQVI+
Sbjct: 64  FRQWTVVADEDHEMPACQDAISD---VDPAKWSIGDVRELEVESIEFGRIAAQIAKQVIV 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           QK+REAER      ++ KVGE+I G VK+      I+DLG N++  + R+E I +E LRP
Sbjct: 121 QKIREAERALVADAYESKVGELIYGEVKKQTKDGFIIDLGDNAEAYLAREEMIPKEILRP 180

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
             RV + +Y+V RE RG Q+LLSR  P+ ++ L   E+PEI   I+++KA +R PG RAK
Sbjct: 181 KQRVNAILYNVNREGRGAQLLLSRAKPEMLIALMKKEIPEISEEIIEIKAAARQPGVRAK 240

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A ++ +AL PA V+ 
Sbjct: 241 IAVKTNDHRIDPVGACIGMRGTRIQAVQQELNGERIDVVVWSDDPAQYIASALEPADVSG 300

Query: 299 VVLDEDVGRIEVIV-PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +VLDED    ++I    +QL+ AIG +GQNVRLAS LTG+ +D++ EEE    +Q +  +
Sbjct: 301 IVLDEDARSADIIFATSDQLARAIGSQGQNVRLASDLTGYKLDMMLEEEYRARQQNEAQQ 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F+  ++++E +A  LV  GF  +EE+A V       IE  D E    +Q RA+E  
Sbjct: 361 YLDMFVSRLDIEEDLAMALVEMGFTSLEEIAYVPAETFDEIE-LDAELVELLQSRAKEAA 419

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
               +  Q+ I+E   S +L ++ G+ S+I  +L   GI T++DLA  + DD+       
Sbjct: 420 LTDALKQQENIQE--PSADLLTMEGMTSEIAYSLAARGIITVDDLADQATDDISDIE--- 474

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                         G   ++   +I+ AR    W  
Sbjct: 475 --------------GLGHEKAGQLIMKARES--WFN 494


>gi|319649523|ref|ZP_08003679.1| transcription elongation factor NusA [Bacillus sp. 2_A_57_CT2]
 gi|317398685|gb|EFV79367.1| transcription elongation factor NusA [Bacillus sp. 2_A_57_CT2]
          Length = 385

 Score =  488 bits (1256), Expect = e-135,   Method: Composition-based stats.
 Identities = 151/355 (42%), Positives = 227/355 (63%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I RDV++  +  ++  A R  +    ++R+++N   G + +F   E
Sbjct: 4   ELLDALTLLEKEKGISRDVIIEAIEAALVSAYRRNFNQAQNVRIDLNLGNGTMRVFARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +IS++ A+  +P+  +  VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDEVFDPRLEISVEDAQKINPNYQVEDVVEMEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V LG  + ++  +E +  E  +P DR+K +I 
Sbjct: 124 GIIYSEFIDREEDIMTGIVQRTDPKFIYVSLGKIEAILPANEQMPNERYQPHDRIKVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+V+R+ G R+K++V S +  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEIEVPEIYDGTVEIKSVAREAGDRSKISVHSDNEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G+RVQAVV EL+ EKIDIV WS D   FV NAL P+ V  V+++ED   
Sbjct: 244 VDPVGSCVGPKGTRVQAVVNELKGEKIDIVKWSSDPVVFVANALSPSKVLDVIVNEDDKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +         +E    F
Sbjct: 304 TTVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDAREAGIYPRDETLLNF 358


>gi|294670565|ref|ZP_06735444.1| hypothetical protein NEIELOOT_02287 [Neisseria elongata subsp.
           glycolytica ATCC 29315]
 gi|291307690|gb|EFE48933.1| hypothetical protein NEIELOOT_02287 [Neisseria elongata subsp.
           glycolytica ATCC 29315]
          Length = 457

 Score =  488 bits (1256), Expect = e-135,   Method: Composition-based stats.
 Identities = 187/478 (39%), Positives = 285/478 (59%), Gaps = 30/478 (6%)

Query: 47  SDIRVEINPETGDISLFRLLEVV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLP 102
            D RVEI+  TG+   FR   +V  E+      + +++  ++  P  +I IG    + + 
Sbjct: 1   MDARVEIDRNTGEHRTFRRWLIVADEDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQIE 60

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GN 160
              FGR A  +AKQ+I+Q++R+AER++   +F     +I+ GTVKRVE   +IV+L  G 
Sbjct: 61  NEGFGRQAAMTAKQIILQRIRDAEREKVLNDFLATREDIVIGTVKRVERHGIIVELVPGK 120

Query: 161 SDGVIRRDETISRENLRPGDRVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPE 218
            D +I RD++I REN R GDR+++    V    +    QV+LSRT  +F+ KLF  EVPE
Sbjct: 121 LDALIPRDQSIPRENFRSGDRIRALFLRVEEIGQSGRKQVILSRTSREFLAKLFEQEVPE 180

Query: 219 IYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           I +G+++++  +RDPG RAK+AV ++D  IDP G C+G+RGSRV AV  E+  E+ID+V+
Sbjct: 181 IADGLLEIREAARDPGHRAKIAVKANDQRIDPQGTCIGVRGSRVNAVTNEIGGERIDVVL 240

Query: 279 WSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
           WSPD+A FVINAL PA V+++V+DED   ++VIV ++QL+LAIGR GQNVRLA+ LTGW 
Sbjct: 241 WSPDTAQFVINALSPAEVSRIVIDEDHHAVDVIVAEDQLALAIGRGGQNVRLAADLTGWQ 300

Query: 339 IDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASI 398
           ++I+T  E       +       F + ++VDE  A +LV EGFA +EE+A V   E+  I
Sbjct: 301 LNIMTITEAEERHAAEDAALRSLFTEHLDVDEETADVLVQEGFASLEEIAYVPSEELEEI 360

Query: 399 EGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKT 458
            GFD  T   ++ RAR+ +    +  ++K+ E  ++E+L ++ GID  +   L + GI T
Sbjct: 361 -GFDAATVDTLRNRARDAILTQAMAQEEKLEE--IAEDLRTLDGIDEDLLRDLAQAGITT 417

Query: 459 MEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
            + LA  S+D+L   +  + G                   E +I+ AR    W E ++
Sbjct: 418 RDGLAELSIDELREITGVEPGE-----------------AEKIILAARAH--WFETDE 456


>gi|258545583|ref|ZP_05705817.1| N utilization substance A [Cardiobacterium hominis ATCC 15826]
 gi|258519283|gb|EEV88142.1| N utilization substance A [Cardiobacterium hominis ATCC 15826]
          Length = 496

 Score =  488 bits (1256), Expect = e-135,   Method: Composition-based stats.
 Identities = 205/513 (39%), Positives = 301/513 (58%), Gaps = 26/513 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFR 64
             +LL I +AVA EK +DR V++  +  ++  A R  Y       +V INP TG+   FR
Sbjct: 2   SKDLLNIIEAVANEKEVDRSVIIEALEAALAAATRKRYPDEEIGAKVVINPRTGEYKSFR 61

Query: 65  LLEVVEE---VENYTCQISLKVARDRDPSI--DIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           L  VV++   +EN   ++   VA    P     +G V   P+    FGR++ Q AKQ+II
Sbjct: 62  LWTVVDDEAILENPDAEMRESVAAIEFPEAHLQVGDVHEVPIENEPFGRISAQQAKQIII 121

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPG 179
           QK+REAER + Y +F  + G ++ G V+R E GNVIVD+  ++  I RD  I RE+LR G
Sbjct: 122 QKLREAERRKVYDQFIAEEGTLVHGIVRRHERGNVIVDINGAEATILRDGMIPRESLRIG 181

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR++ Y+  V  E RGPQ+ +SR  P+ + +LF +EVPEI +GI+++  V+RDPG RAK+
Sbjct: 182 DRIRGYLAKVNLEMRGPQLEVSRVAPEMLKQLFTLEVPEIGSGIIEIMGVARDPGLRAKI 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV + D  IDPVGACVG+RGSRVQ V+ EL  E+IDIV+W  D  T+V  A+ PA +T  
Sbjct: 242 AVRTFDPRIDPVGACVGIRGSRVQGVMNELAGERIDIVLWDEDPETYVRKAMAPAQITNA 301

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
             DE    +++ VP+ +L  A+GR GQNVRLAS+LTGWTI++++E E    ++   + + 
Sbjct: 302 AADEARRVMDIAVPENKLPQAVGRGGQNVRLASELTGWTINVLSEAEFEARQEAVQDAQE 361

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           Q   +A++VD+ IA +L+  G+   E +A  +  E+  IE FDEET   +  RA +YL  
Sbjct: 362 QALAEALDVDDEIADILIDAGYTAPEMVAYAERDELLGIEAFDEETVDALMARAADYLLQ 421

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
                + +  E  +   L ++ GID     AL ENG+ T EDLA  +VD+L+ ++     
Sbjct: 422 QAFVAEVEPEE-EMQLPLENVEGIDEATIAALQENGLHTQEDLAELAVDELVAYT----- 475

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
                       G  K+Q  ++I+ AR    W 
Sbjct: 476 ------------GLDKEQASALILKAREP--WF 494


>gi|262280758|ref|ZP_06058541.1| transcription termination/antitermination L factor [Acinetobacter
           calcoaceticus RUH2202]
 gi|299771783|ref|YP_003733809.1| transcription elongation factor NusA [Acinetobacter sp. DR1]
 gi|262257658|gb|EEY76393.1| transcription termination/antitermination L factor [Acinetobacter
           calcoaceticus RUH2202]
 gi|298701871|gb|ADI92436.1| transcription elongation factor NusA [Acinetobacter sp. DR1]
          Length = 494

 Score =  487 bits (1255), Expect = e-135,   Method: Composition-based stats.
 Identities = 195/516 (37%), Positives = 294/516 (56%), Gaps = 35/516 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI-----RVEINPETGDISL 62
           E+L + + V+ EK + R+ +   +  ++  A +  +   +       RVEI+ +TGD S 
Sbjct: 4   EILTVVETVSNEKGVSREAIFEALEQALVAATKKRFYEGTHAEEAQLRVEIDRKTGDYST 63

Query: 63  FRLLEVV--EEVENYTCQISLKVARDRDPS-IDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           FR   VV  E+ E   CQ ++      DPS   IG V    +  ++FGR+A Q AKQVI+
Sbjct: 64  FRQWTVVADEDHEMPACQDAISD---LDPSKWSIGDVRELEVESIEFGRIAAQIAKQVIV 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           QK+REAER      ++ KVGE+I G VK+      I+DLG N++  + R+E I +E LRP
Sbjct: 121 QKIREAERALVADAYESKVGELIYGEVKKQTKDGFIIDLGDNAEAYLAREEMIPKEILRP 180

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
             R+ + +Y+V RE RG Q+LLSR  P+ ++ L   E+PEI   I+++KA +R PG RAK
Sbjct: 181 KQRMNAILYNVNREGRGAQLLLSRAKPEMLIALMKKEIPEISEEIIEIKAAARQPGVRAK 240

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A ++ +AL PA V+ 
Sbjct: 241 IAVKTNDHRIDPVGACIGMRGTRIQAVQQELNGERIDVVVWSDDPAQYIASALEPADVSG 300

Query: 299 VVLDEDVGRIEVIV-PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +VLDED    ++I    +QL+ AIG +GQNVRLAS LTG+ +D++ EEE    +Q +  +
Sbjct: 301 IVLDEDARSADIIFATSDQLARAIGSQGQNVRLASDLTGYKLDMMLEEEYRARQQNEAQQ 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F+  ++++E +A  LV  GF  +EE+A V       IE  D E    +Q RA+E  
Sbjct: 361 YLDMFVSRLDIEEDLAMALVEMGFTSLEEIAYVPAETFDEIE-LDAELVELLQSRAKEAA 419

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
               +  Q+ I+E   S +L ++ G+ S+I  +L   GI T++DLA  + DD+       
Sbjct: 420 LTDALKQQENIQE--PSADLLTMEGMTSEIAYSLAARGIITVDDLADQATDDISDIE--- 474

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                         G   ++   +I+ AR    W  
Sbjct: 475 --------------GLDHEKAGQLIMKARES--WFN 494


>gi|302389798|ref|YP_003825619.1| transcription termination factor NusA [Thermosediminibacter oceani
           DSM 16646]
 gi|302200426|gb|ADL07996.1| transcription termination factor NusA [Thermosediminibacter oceani
           DSM 16646]
          Length = 351

 Score =  486 bits (1252), Expect = e-135,   Method: Composition-based stats.
 Identities = 146/349 (41%), Positives = 239/349 (68%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            +E ++  D +  EK I ++++L  +  ++  A +  YGT  ++++ I+ ETG++ ++  
Sbjct: 2   NIEFIEALDQIEKEKGISKEILLEAIEAALVSAYKKNYGTSQNVKINIDRETGEVKVYSQ 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             V E+V++   +ISL  A+  +P + IG ++S  + P  FGR+A Q+AKQV++Q+++EA
Sbjct: 62  KTVKEDVKDPLLEISLLDAKKINPLVKIGDIISVEVTPKKFGRIAAQTAKQVVMQRIKEA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  Y EF  +  ++++G V+R +  NVI+DLG ++ ++  +E I  E   PG+R+K Y
Sbjct: 122 ERNIIYEEFAGRETDLVTGVVQRFDKKNVIIDLGKTEVILPPNEQIPNETYTPGERIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V++  +GP +++SR+HP  + +LF +EVPEIY GIV++K+++R+ GSR K+AV+S D
Sbjct: 182 ILEVKKTTKGPVIIVSRSHPGLVKRLFELEVPEIYEGIVEIKSIAREAGSRTKVAVYSKD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVGACVG +G+RVQAVV EL+ EKIDI+ WS +   ++ NAL PA V  V ++ED 
Sbjct: 242 ENVDPVGACVGPKGTRVQAVVEELKGEKIDIIKWSKNVTEYISNALSPAKVISVDVEEDS 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
               V+V  +QLSLAIG+ GQN RLA++LTGW IDI + + DS   + +
Sbjct: 302 KIARVLVSDQQLSLAIGKEGQNARLAAKLTGWKIDIKSSKTDSRGDENE 350


>gi|294500900|ref|YP_003564600.1| transcription termination factor NusA [Bacillus megaterium QM
           B1551]
 gi|295706246|ref|YP_003599321.1| transcription termination factor NusA [Bacillus megaterium DSM 319]
 gi|294350837|gb|ADE71166.1| transcription termination factor NusA [Bacillus megaterium QM
           B1551]
 gi|294803905|gb|ADF40971.1| transcription termination factor NusA [Bacillus megaterium DSM 319]
          Length = 370

 Score =  486 bits (1251), Expect = e-135,   Method: Composition-based stats.
 Identities = 154/366 (42%), Positives = 229/366 (62%), Gaps = 1/366 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL      +  EK I +DV++  +  ++  A +  +    ++RV++N E G + +F   +
Sbjct: 4   ELFDALVILEKEKGISKDVIIEAIEAALISAYKRNFNQAQNVRVDLNLERGSMRVFARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +IS++ A+  +P+  +  VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDEVYDPRLEISVEEAQTINPNFQLDDVVEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V LG  + ++ + E +  E  +P DR+K YI 
Sbjct: 124 GVIYSEFSDREEDIMTGIVQRQDSRFIYVSLGKIEALLPQSEQMPNEQYKPHDRIKVYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF  EVPEIY+G V++K+V+R+ G R+K++V S  + 
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEKEVPEIYDGTVELKSVAREAGDRSKISVHSEYAE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQAVV EL+ EKIDIV WS D   FV NAL P+ V  V++DE+   
Sbjct: 244 VDPVGSCVGPKGQRVQAVVNELKGEKIDIVRWSNDPVEFVANALSPSKVVDVIVDENEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ-AI 366
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI ++ E         N       Q A 
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSQSEAEQEGMVVKNSDDMLVSQHAF 363

Query: 367 NVDEII 372
           + DE +
Sbjct: 364 DSDEDM 369


>gi|125973509|ref|YP_001037419.1| NusA antitermination factor [Clostridium thermocellum ATCC 27405]
 gi|256003327|ref|ZP_05428318.1| NusA antitermination factor [Clostridium thermocellum DSM 2360]
 gi|281417712|ref|ZP_06248732.1| NusA antitermination factor [Clostridium thermocellum JW20]
 gi|125713734|gb|ABN52226.1| NusA antitermination factor [Clostridium thermocellum ATCC 27405]
 gi|255992617|gb|EEU02708.1| NusA antitermination factor [Clostridium thermocellum DSM 2360]
 gi|281409114|gb|EFB39372.1| NusA antitermination factor [Clostridium thermocellum JW20]
 gi|316940252|gb|ADU74286.1| NusA antitermination factor [Clostridium thermocellum DSM 1313]
          Length = 404

 Score =  485 bits (1250), Expect = e-135,   Method: Composition-based stats.
 Identities = 150/350 (42%), Positives = 237/350 (67%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             +L+   + +  EK ID+D ++  +  ++  A +  +G+  +++V I+ ETGD  ++ L
Sbjct: 2   SADLIHALEQLEKEKGIDKDTLIEAIEAALISAYKRSFGSSQNVKVSIDRETGDFKVYAL 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            +V    +N   +IS++ A+  +P  +   +V   + P  FGR+A Q+AKQV++Q++REA
Sbjct: 62  KKVTANPQNELLEISIENAKKINPDFEENDIVEIEVTPRKFGRIAAQTAKQVVVQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF +K GEI++G V+R+E  NVI+DLG ++ ++   E I  E  +  DR+K+Y
Sbjct: 122 ERGIIYNEFSNKEGEIVTGVVQRIERKNVIIDLGKAEAILAPSEQIPGEEYKFNDRIKTY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V++  +GPQ+L+SRTHP  + +LF +EVPEIY GIV++K+++R+PGSR K+AV+S D
Sbjct: 182 IIEVKKTTKGPQILVSRTHPGIIKRLFELEVPEIYEGIVEIKSIAREPGSRTKIAVYSKD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVGACVG +G+RVQAVV ELR EKIDI+ WS +   ++ ++L PA V +V ++E+ 
Sbjct: 242 ENVDPVGACVGQKGTRVQAVVDELRGEKIDIIKWSSNPEEYISSSLSPAKVIRVDINEEE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF 355
              +V VP  QLSLAIG+ GQN RLA++LTGW IDI +E +     ++  
Sbjct: 302 KSAKVTVPDFQLSLAIGKEGQNARLAAKLTGWKIDIKSESQLRAAIEQQL 351


>gi|94272101|ref|ZP_01292067.1| Transcription termination factor NusA [delta proteobacterium
           MLMS-1]
 gi|93450237|gb|EAT01518.1| Transcription termination factor NusA [delta proteobacterium
           MLMS-1]
          Length = 476

 Score =  485 bits (1249), Expect = e-135,   Method: Composition-based stats.
 Identities = 186/410 (45%), Positives = 270/410 (65%), Gaps = 7/410 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL +I D +  +K IDR++++  + +++  AA+  YG   ++    N E G++ LF+   
Sbjct: 4   ELKRIIDQICRDKGIDRELLIEAIEEAVMSAAKKRYGMRREVEARFNDELGEVELFQFRA 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM-DFGRVAVQSAKQVIIQKVREAE 126
           VV+EVE+   QIS   A+  DP +++G  +   +  + D GR+A QSAKQVIIQK++EAE
Sbjct: 64  VVDEVEDEQTQISYADAKALDPEVEMGDELGSKMESVADLGRIAAQSAKQVIIQKMKEAE 123

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
            D  +  FKD+ G+I++G V+R E GN+IV+LG +D ++   E + R++ R GDR+++Y+
Sbjct: 124 SDVVFDMFKDRKGDIVNGIVQRFERGNMIVNLGRTDAILPSREQMPRKSYRQGDRIRAYL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            DVR+  + PQ++LSRT  +F++KLF +EVPE+  GIV +  V+R+PGSRAK+AV S+++
Sbjct: 184 LDVRQSSKDPQLILSRTCNEFLIKLFALEVPEVAEGIVNILGVAREPGSRAKIAVSSTET 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVGM+GSRVQ VV EL+ EKIDIV WSPD A FV NAL PA V+ VV+DE+  
Sbjct: 244 DVDPVGACVGMKGSRVQNVVQELQGEKIDIVPWSPDPARFVSNALSPAQVSLVVVDEESK 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            + V+VP +QLSLAIGR+GQNVRLAS L  W ID+ +E   +   +  F    Q  ++  
Sbjct: 304 TLLVVVPDDQLSLAIGRQGQNVRLASALLDWRIDVKSESRYARFIEDGF----QSLLELA 359

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD--EETAVEIQGRAR 414
            + E  A LL   G+  V ELA     E+  I+GFD  EE    +   AR
Sbjct: 360 GMTEKRAELLAENGYGSVTELAAASAEELQEIDGFDLGEEDTEALLVVAR 409



 Score = 38.9 bits (90), Expect = 2.1,   Method: Composition-based stats.
 Identities = 36/189 (19%), Positives = 62/189 (32%), Gaps = 37/189 (19%)

Query: 322 GRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGF 381
           G R QNV    +L G  IDI+    D      +     Q  +    VDE    LLV    
Sbjct: 256 GSRVQNV--VQELQGEKIDIVPWSPDPARFVSNALSPAQVSLVV--VDEESKTLLV---- 307

Query: 382 ADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSE---ELC 438
                   V   +++   G   +        A   L+       +      + +    L 
Sbjct: 308 -------VVPDDQLSLAIGRQGQNV----RLASALLDWRIDVKSESRYARFIEDGFQSLL 356

Query: 439 SIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQV 498
            + G+  K    L ENG  ++ +LA  S ++L                 +      ++  
Sbjct: 357 ELAGMTEKRAELLAENGYGSVTELAAASAEELQE---------------IDGFDLGEEDT 401

Query: 499 ESMIIHARY 507
           E++++ AR 
Sbjct: 402 EALLVVARL 410


>gi|20807843|ref|NP_623014.1| transcription elongation factor NusA [Thermoanaerobacter
           tengcongensis MB4]
 gi|20516405|gb|AAM24618.1| Transcription terminator [Thermoanaerobacter tengcongensis MB4]
          Length = 346

 Score =  484 bits (1248), Expect = e-134,   Method: Composition-based stats.
 Identities = 153/341 (44%), Positives = 228/341 (66%), Gaps = 1/341 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E ++  +++  EK I ++ +   +  ++  A R  YGT  ++++ ++ ETGD+ ++  
Sbjct: 2   NAEFIEALNSICEEKGIPKETMFEAIEAALVSAYRKNYGTAQNVKIVMDRETGDVKVYAQ 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV+N   +ISL+ AR  +    IG +V   + P +FGR+A Q+AKQV+IQ++REA
Sbjct: 62  KTVVEEVKNDLLEISLEDARKINKKYQIGDIVDIEVTPKNFGRIAAQNAKQVVIQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  Y EF  K  E+++G V R    NV+++LG  + ++   E I  E   PGDR+K Y
Sbjct: 122 ERNVIYEEFLAKETEVVTGIVTRAAKNNVLINLGRVEAILTPSEQIPGETFSPGDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V++  +GPQ+++SR+HP  + +LF +E PEI  GIV++++++R+PGSR K+AVFS D
Sbjct: 182 IVEVKKTTKGPQIIISRSHPGLVKRLFELESPEIQQGIVEIRSIAREPGSRTKMAVFSRD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
            ++DP+GACVG +GSRVQAVV EL+ EKIDIV WS     F++NAL PA    V ++DE 
Sbjct: 242 PNVDPIGACVGYKGSRVQAVVNELKGEKIDIVKWSSKPQEFIMNALSPAKAISVEIVDEK 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
                VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E 
Sbjct: 302 EKVARVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSES 342


>gi|308272453|emb|CBX29057.1| Transcription elongation protein nusA [uncultured Desulfobacterium
           sp.]
          Length = 432

 Score =  484 bits (1248), Expect = e-134,   Method: Composition-based stats.
 Identities = 180/431 (41%), Positives = 279/431 (64%), Gaps = 5/431 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+ ++ D V+ ++ ID++V++  + ++++ AAR  YG   DI ++ N E+GDI  F+  +
Sbjct: 5   EIKRVVDQVSRDRGIDKNVLIKAIEEALKSAARKKYGNKIDIEIQYNEESGDIEAFQFKK 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE V +   QISL+  +  DP  +IG  +   +    FGR+A QSAKQVIIQK+++AER
Sbjct: 65  VVETVTDSMTQISLEEGQTLDPECEIGDSLGTKMDTTAFGRIAAQSAKQVIIQKMKDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           +  Y  F ++ GEII+G V+R+E+ G++IV+LG ++G++  +E IS+E  + GDR+++ +
Sbjct: 125 NAVYSSFIERKGEIINGIVQRIEHSGDIIVNLGQTEGILPINEQISKETYKRGDRIRALL 184

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V ++ RGPQ++LSRTH  F+  LF  EVPEI  GIV++    R+PG RAK+AV S+DS
Sbjct: 185 LEVLQDSRGPQIVLSRTHSNFLANLFKTEVPEISEGIVKIMGAVREPGVRAKIAVSSNDS 244

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            I PVGACVGM+GSRVQ VV ELR EKIDI+ W  DSA +V NAL PA + +V++DED  
Sbjct: 245 DIHPVGACVGMKGSRVQNVVQELRGEKIDIIPWHVDSAKYVCNALAPAEIIRVIIDEDNH 304

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +EVIVP E LS+AIG+RGQNVRLAS+LTGW +D+ +E   +   +  ++          
Sbjct: 305 AMEVIVPDESLSIAIGKRGQNVRLASKLTGWNLDVQSESHYNEVLKNGYDSLVSL----P 360

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
            V   + + L+ +GF  V+E++    S++  I+G  +E A ++   A E +   +  +  
Sbjct: 361 GVGINLVNSLIEKGFTSVDEISNASASDLMQIKGIAKEKAEKLINSATEAISKDEDKVSA 420

Query: 427 KIRELGVSEEL 437
           +     +   +
Sbjct: 421 EEENPDIENNV 431


>gi|225677161|ref|ZP_03788159.1| transcription elongation factor NusA [Wolbachia endosymbiont of
           Muscidifurax uniraptor]
 gi|225590785|gb|EEH12014.1| transcription elongation factor NusA [Wolbachia endosymbiont of
           Muscidifurax uniraptor]
          Length = 523

 Score =  484 bits (1247), Expect = e-134,   Method: Composition-based stats.
 Identities = 202/513 (39%), Positives = 326/513 (63%), Gaps = 16/513 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            L++++ A  ++ +K +D DVV+  +  +I+  A   YG+ S I V I+  TG ++ +R 
Sbjct: 21  SLDVIKTAGELSLQKGLDFDVVIKALESAIEAVAYQKYGSKSKIVVNIDRNTGKVTSYRK 80

Query: 66  LEVVEEV----ENYTCQ-ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           L+V+++     EN   + I+L  A+       IG  VS+ L   +    + + A+Q I Q
Sbjct: 81  LKVIDDESNREENTEYESITLTQAKLIKEDAKIGDTVSELLSL-NTDLASARIAQQKIAQ 139

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
            +++ E  +QY EFKDKVGEI  G VK+VEY ++I+D+  +   +        E+ R GD
Sbjct: 140 IIKDEESKKQYEEFKDKVGEIRYGIVKQVEYSDLIIDINGTKAYLPLRNLTGGESFREGD 199

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           +VK+YI  V+R   G Q++LSRTH  F+  L + E+PEI +G+V +K ++RD GSR+K+A
Sbjct: 200 KVKTYIQTVKRSDDGRQIILSRTHEGFLEALLNQEIPEIADGLVTIKGIARDAGSRSKVA 259

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           VFS D +IDPVGACVG++G R++ ++ EL  EKID++ +S D   FVI A+ PA V+KV+
Sbjct: 260 VFSPDKNIDPVGACVGVKGDRIKTIIHELNGEKIDVINYSSDLGQFVIKAITPAEVSKVI 319

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DE+   IE+IV ++QLSLAIG++GQNVRLAS+L GW I+I++ +++S  R K+ ++ + 
Sbjct: 320 IDENENCIELIVAEDQLSLAIGKKGQNVRLASELVGWKIEILSTQQESERRSKELSQCSA 379

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F +A+N++EI+  LLV EGF+ VE+++   I E+ASIEGF+E+ A E+  RA +YL+  
Sbjct: 380 LFAEALNLEEIMGQLLVTEGFSSVEDISSASIKELASIEGFNEDIANELHNRANKYLKAE 439

Query: 421 DITLQKKIRELGVSEELCSIP-GIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           +    ++++ LG+ +++ ++   ID+KI   L ++ IKT+ED+A  S  +      +   
Sbjct: 440 NDRKIEELKSLGMEDDVINLTLSIDNKIA--LSKHDIKTLEDIADLSSYEFCSILSSSAD 497

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
           N    +         KD V+S+II AR K+G I
Sbjct: 498 NKMNSENL-------KDTVDSIIIEARKKLGLI 523


>gi|262197038|ref|YP_003268247.1| NusA antitermination factor [Haliangium ochraceum DSM 14365]
 gi|262080385|gb|ACY16354.1| NusA antitermination factor [Haliangium ochraceum DSM 14365]
          Length = 538

 Score =  484 bits (1247), Expect = e-134,   Method: Composition-based stats.
 Identities = 193/498 (38%), Positives = 288/498 (57%), Gaps = 39/498 (7%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L  + D V  +K+I+RDV++  +  +I  AA+  +G   ++  + N +TG + LF ++ V
Sbjct: 5   LNMVIDQVGRDKNIERDVLVQALEQAILTAAKKTFGASRELEAQYNEDTGVVDLFLIVNV 64

Query: 69  VEEVEN--YTCQISLKVARDRDPSIDIGGVVSDPL------------------------- 101
           VE+ E+  Y  +I+   A       +IG  +   +                         
Sbjct: 65  VEDEEDAIYGREITAPDAETHGLEAEIGDELLFQVFYRAEDNERASEQDAKFGDLIDLKN 124

Query: 102 PPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS 161
               FGR+A Q+AKQVI Q+VREAERD  Y E+KD+ GE+I+G V+R E G+++VDLG +
Sbjct: 125 AHKRFGRIAAQTAKQVIYQRVREAERDNVYNEYKDRKGELITGIVRRFERGSIVVDLGRA 184

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
           + ++   + + RE+ R GD +K+Y+ D+ R  RGPQ++LSRTH   + KLF  EVPEIY 
Sbjct: 185 EAILPTRDQVPRESYRVGDSIKAYVLDIDRNARGPQIILSRTHKGLLEKLFEQEVPEIYE 244

Query: 222 GIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
            IV++++ +R+PG+RAK+AV S D  +DPVGACVGM+GSRVQAVV ELR EKIDIV +  
Sbjct: 245 KIVRIESSAREPGARAKIAVSSRDRDVDPVGACVGMKGSRVQAVVQELRGEKIDIVPYDE 304

Query: 282 DSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           D A FV NA+ PA V++V++D D  R+E++VP ++LSLAIG++GQNVRLASQLTGW IDI
Sbjct: 305 DPARFVCNAIAPAEVSRVLIDADGHRMELVVPDDKLSLAIGKKGQNVRLASQLTGWRIDI 364

Query: 342 ITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
            +E +     ++      +       +D+ +A  +   G+  V EL+     E+A + G 
Sbjct: 365 HSESKIQDLERR----AKEQLAAVEGMDDDLADTVFRLGWRSVGELSRAAPEELAGVPGI 420

Query: 402 DE-ETAVEIQGRAREYLEGIDITLQKKIRE------LGVSEELCSIPGIDSKIKVALG-E 453
           D  E   ++   AR +LE   +  +   RE      L   E L  +  +   I   L  E
Sbjct: 421 DGVEVGRQVVAGARAFLEEEKLRQEHARREADRRNSLSDRERLLEVRDMSEAIADQLAEE 480

Query: 454 NGIKTMEDLAGCSVDDLL 471
             +  +EDLA   +D L 
Sbjct: 481 AQVMRVEDLARWPLDRLT 498


>gi|58696914|ref|ZP_00372417.1| N utilization substance protein A [Wolbachia endosymbiont of
           Drosophila simulans]
 gi|58698399|ref|ZP_00373311.1| N utilization substance protein A, putative [Wolbachia endosymbiont
           of Drosophila ananassae]
 gi|225631019|ref|YP_002727810.1| transcription elongation factor NusA [Wolbachia sp. wRi]
 gi|13569584|gb|AAK31158.1|AF348330_4 N utilization substance protein A [Wolbachia sp. wRi]
 gi|58535081|gb|EAL59168.1| N utilization substance protein A, putative [Wolbachia endosymbiont
           of Drosophila ananassae]
 gi|58536861|gb|EAL60065.1| N utilization substance protein A [Wolbachia endosymbiont of
           Drosophila simulans]
 gi|225593000|gb|ACN96019.1| transcription elongation factor NusA [Wolbachia sp. wRi]
          Length = 520

 Score =  483 bits (1245), Expect = e-134,   Method: Composition-based stats.
 Identities = 202/513 (39%), Positives = 328/513 (63%), Gaps = 19/513 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            L++++ A  ++ +K +D DVV+  +  +I+  A   YG+ S I V+I+  TG ++ +R 
Sbjct: 21  SLDVIKTAGELSLQKGLDFDVVIKALESAIEAVAHQKYGSKSKIVVDIDRNTGKVTSYRK 80

Query: 66  LEVVEEV----ENYTCQ-ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           L+V+++     EN  C+ I+L  A+       +G  VS+ L   +    + + A+Q I Q
Sbjct: 81  LKVIDDESNEKENTECESITLTQAKLIKGDAKVGDTVSELLSL-NTDLASARIAQQTIAQ 139

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
            +++ E  +QY EFKDKVGEI  G VK+VEY ++I+D+  +   +        E+ R GD
Sbjct: 140 IIKDEESKKQYEEFKDKVGEIRYGIVKQVEYSDLIIDINGTRAYLPLRNLTGGESFREGD 199

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           +VK+YI  V+R   G Q++LSRTH  F+  L + E+PEI +G+V +K ++RD GSR+K+A
Sbjct: 200 KVKAYIQTVKRSDDGRQIILSRTHEGFLEALLNQEIPEIADGLVTIKGIARDAGSRSKVA 259

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           VFS D +IDPVGACVG++G R++ ++ EL  EKID++ +S D   FVI A+ PA V+KV+
Sbjct: 260 VFSPDKNIDPVGACVGVKGDRIKTIIHELNGEKIDVINYSSDLGQFVIKAITPAEVSKVI 319

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DE+   IE+IV ++QLSLAIG++GQNVRLAS+L GW I+I++ +++S  R K+ ++ + 
Sbjct: 320 IDENENCIELIVAEDQLSLAIGKKGQNVRLASELVGWKIEILSTQQESERRSKELSQCSA 379

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F +A+N++EI+  LLV EGF+ VE+++   I E+ASIEGF+E+ A E+  RA +YL+  
Sbjct: 380 LFAEALNLEEIMGQLLVTEGFSSVEDISSASIKELASIEGFNEDIANELHNRANKYLKAE 439

Query: 421 DITLQKKIRELGVSEELCSIP-GIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           +    ++++ LG+ +++ ++   ID+KI   L ++ IKT+ED+A  S  +      +   
Sbjct: 440 NDRKIEELKSLGMEDDVINLTLSIDNKIA--LSKHDIKTLEDIADLSSYEFCSILSSSSD 497

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
           + E            KD V+S+II AR K+G I
Sbjct: 498 SKEDL----------KDIVDSIIIEARKKLGLI 520


>gi|238927232|ref|ZP_04658992.1| transcription elongation factor NusA [Selenomonas flueggei ATCC
           43531]
 gi|238884907|gb|EEQ48545.1| transcription elongation factor NusA [Selenomonas flueggei ATCC
           43531]
          Length = 379

 Score =  483 bits (1245), Expect = e-134,   Method: Composition-based stats.
 Identities = 158/350 (45%), Positives = 232/350 (66%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  E LQ    +AYEK ID +++   +  ++  A R  +G   ++R+ ++ ETG   +F 
Sbjct: 13  NGKEFLQTLKELAYEKGIDEELLFETIEAALISAYRRNFGAAQNVRISLSRETGAFHVFA 72

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           +  VV+EVE+   +ISL  AR  +P   +G VV   + P +FGR+A Q+AKQV++Q++RE
Sbjct: 73  IKTVVDEVESDVTEISLARARAINPDYTVGDVVEIEMTPANFGRIAAQTAKQVVMQRLRE 132

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER   Y E+ ++  EI++G V+R+E  NV VD+G ++ V+   E +  E    GD V++
Sbjct: 133 AERGIVYEEYMNRSSEIVTGIVQRIEGHNVFVDIGRAEAVLMATEQLPTETYNYGDTVRA 192

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +V+R  RGPQ++LSRTHP  + KLF ++VPEI  G+V++++++R+ GSR+K+AV+SS
Sbjct: 193 YIIEVKRTSRGPQIMLSRTHPGLLKKLFELQVPEIQEGVVEIRSIAREAGSRSKVAVWSS 252

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           +  +DP+GACVG    RVQAVV EL  EKIDIV WS D AT++ N+L PA V  V ++E 
Sbjct: 253 EERVDPIGACVGPHYMRVQAVVDELAGEKIDIVKWSDDPATYIANSLNPAKVISVAVNEA 312

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
                V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E +     Q D
Sbjct: 313 EKISRVVVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSETQAREEEQAD 362


>gi|94263057|ref|ZP_01286876.1| Transcription termination factor NusA [delta proteobacterium
           MLMS-1]
 gi|93456600|gb|EAT06708.1| Transcription termination factor NusA [delta proteobacterium
           MLMS-1]
          Length = 472

 Score =  483 bits (1245), Expect = e-134,   Method: Composition-based stats.
 Identities = 185/410 (45%), Positives = 269/410 (65%), Gaps = 7/410 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL +I D +  +K IDR++++  + +++  AA+  YG   ++    N E G++ LF+   
Sbjct: 4   ELKRIIDQICRDKGIDRELLIEAIEEAVMSAAKKRYGMRREVEARFNDELGEVELFQFRA 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM-DFGRVAVQSAKQVIIQKVREAE 126
           VV+EV +   QIS   A+  DP +++G  +   +  + D GR+A QSAKQVIIQK++EAE
Sbjct: 64  VVDEVADEQTQISYADAKALDPEVEMGDELGSKMESVADLGRIAAQSAKQVIIQKMKEAE 123

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
            D  +  FKD+ G+I++G V+R E GN+IV+LG +D ++   E + R++ R GDR+++Y+
Sbjct: 124 SDVVFDMFKDRKGDIVNGIVQRFERGNMIVNLGRTDAILPSREQMPRKSYRQGDRIRAYL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            DVR+  + PQ++LSRT  +F++KLF +EVPE+  GIV +  V+R+PGSRAK+AV S+++
Sbjct: 184 LDVRQSSKDPQLILSRTCNEFLIKLFALEVPEVAEGIVNILGVAREPGSRAKIAVSSTET 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVGM+GSRVQ VV EL+ EKIDIV WSPD A FV NAL PA V+ VV+DE+  
Sbjct: 244 DVDPVGACVGMKGSRVQNVVQELQGEKIDIVPWSPDPARFVSNALSPAQVSLVVVDEESK 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            + V+VP +QLSLAIGR+GQNVRLAS L  W ID+ +E   +   +  F    Q  ++  
Sbjct: 304 TLLVVVPDDQLSLAIGRQGQNVRLASALLDWRIDVKSESRYARFIEDGF----QSLLELA 359

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD--EETAVEIQGRAR 414
            + E  A LL   G+  V ELA     E+  I+GFD  EE    +   AR
Sbjct: 360 GMTEKRAELLAENGYGSVTELAAASAEELQEIDGFDLGEEDTEALLVVAR 409



 Score = 38.9 bits (90), Expect = 1.9,   Method: Composition-based stats.
 Identities = 36/189 (19%), Positives = 62/189 (32%), Gaps = 37/189 (19%)

Query: 322 GRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGF 381
           G R QNV    +L G  IDI+    D      +     Q  +    VDE    LLV    
Sbjct: 256 GSRVQNV--VQELQGEKIDIVPWSPDPARFVSNALSPAQVSLVV--VDEESKTLLV---- 307

Query: 382 ADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSE---ELC 438
                   V   +++   G   +        A   L+       +      + +    L 
Sbjct: 308 -------VVPDDQLSLAIGRQGQNV----RLASALLDWRIDVKSESRYARFIEDGFQSLL 356

Query: 439 SIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQV 498
            + G+  K    L ENG  ++ +LA  S ++L                 +      ++  
Sbjct: 357 ELAGMTEKRAELLAENGYGSVTELAAASAEELQE---------------IDGFDLGEEDT 401

Query: 499 ESMIIHARY 507
           E++++ AR 
Sbjct: 402 EALLVVARL 410


>gi|262374026|ref|ZP_06067303.1| transcription termination factor NusA [Acinetobacter junii SH205]
 gi|262311037|gb|EEY92124.1| transcription termination factor NusA [Acinetobacter junii SH205]
          Length = 494

 Score =  483 bits (1244), Expect = e-134,   Method: Composition-based stats.
 Identities = 196/516 (37%), Positives = 296/516 (57%), Gaps = 35/516 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-----GTMSDIRVEINPETGDISL 62
           E+L +A+ V+ EK + R+ +   +  ++  A +  +        + +RVEI+ +TGD   
Sbjct: 4   EILTVAETVSNEKGVSREAIFQALEQALVAATKKKFYEGTHSEEAQLRVEIDRKTGDYRT 63

Query: 63  FRLLEVV--EEVENYTCQISLKVARDRDPS-IDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           FR   VV  E+ E   CQ ++      DPS   IG V    +  ++FGR+A Q AKQVI+
Sbjct: 64  FRQWTVVADEDHEMPACQDAISD---VDPSKWSIGDVRELEVESIEFGRIAAQIAKQVIV 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           QK+REAER      ++ KVGE+I G VK+      I+DLG N++  + R+ETI +E LRP
Sbjct: 121 QKIREAERALVADAYESKVGELIYGEVKKQTKDGFIIDLGDNAEAYLAREETIHKEILRP 180

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
             R+ + +Y V RE RG Q+LLSR+ P+ ++ L   E+PEI   I+++KA +R PG RAK
Sbjct: 181 KQRINAILYSVNREGRGAQLLLSRSRPEMLIALMKKEIPEISEEIIEIKAAARQPGVRAK 240

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A ++ +AL PA V+ 
Sbjct: 241 IAVKTNDHRIDPVGACIGMRGTRIQAVQQELNGERIDVVVWSDDPAQYIASALEPADVSG 300

Query: 299 VVLDEDVGRIEVIV-PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +VLDED    ++I    +QL+ AIG +GQNVRLAS+LTG+ +D++ EEE    +Q +  +
Sbjct: 301 IVLDEDARSADIIFATNDQLARAIGSQGQNVRLASELTGYKLDMMLEEEYRARQQNEAQQ 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F+  +++DE +A  LV  GF  +EE+A V       IE  + +    +Q RA+E  
Sbjct: 361 YLDMFVSRLDIDEDLAMALVEMGFTSLEEIAYVPAETFDEIE-LEADLVELLQSRAKEAA 419

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
               +  Q+ I+E   S EL  + G+ ++I  AL   G+ T++DLA  + DD+       
Sbjct: 420 LTDALKQQENIQE--PSAELLGMEGMTTEIAYALAARGVITIDDLADQATDDISDIE--- 474

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                         G   D+   +I+ AR    W  
Sbjct: 475 --------------GLGHDKAGQLIMKARES--WFN 494


>gi|224367580|ref|YP_002601743.1| transcription elongation factor NusA [Desulfobacterium
           autotrophicum HRM2]
 gi|223690296|gb|ACN13579.1| NusA [Desulfobacterium autotrophicum HRM2]
          Length = 482

 Score =  483 bits (1244), Expect = e-134,   Method: Composition-based stats.
 Identities = 178/433 (41%), Positives = 280/433 (64%), Gaps = 8/433 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++ ++ + V+ EK I+ +V++S + ++++ AA+   GT +DI V    ++G++ +F+  E
Sbjct: 5   DIKRVIEQVSREKGINIEVLISTIKEAVESAAKKKLGTRADIEVHYEEKSGEVEVFQFKE 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV EV +   +++LK  +  DP+ +IG  +   +   +FGR+A QSAKQVIIQK++EAER
Sbjct: 65  VVLEVNDPDIELTLKDGQQYDPACEIGDSLGIKVDTSEFGRIAAQSAKQVIIQKMKEAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y  F  K GEII+G V+R++ GN+IV+LG ++ V+   E + RE+ R GDR+++YI 
Sbjct: 125 NAVYENFIHKKGEIINGIVQRIDRGNIIVNLGQAEAVLTSREQMPRESYRRGDRIRAYIL 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           DV  E RG QV+LSRTHP+F+ KLF  EVPEI  GIV ++  +R+ G R+K+AV S+DS 
Sbjct: 185 DVLEEARGSQVILSRTHPEFVAKLFATEVPEIAEGIVTIRGTAREAGVRSKIAVSSTDSD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGM+G+RVQ++V ELR EK+DIV W+PD A FV NAL PA + +V++DED   
Sbjct: 245 VDPVGACVGMKGNRVQSIVQELRGEKVDIVPWNPDVAKFVCNALAPAEIARVIIDEDNRS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           +EVIVP + LS+AIG+ GQNVRLA +LTGW +++++E+E S     +  +     M    
Sbjct: 305 MEVIVPDDFLSIAIGKNGQNVRLACRLTGWHLEVMSEDEYS----SELKQGYDSLMSIPG 360

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK- 426
           V   +A  L   GF+  ++++     ++ S+    E     +  RA++ LE    +  + 
Sbjct: 361 VSLALAEKLFKGGFSSFKDVSLANPGDLISVTDLSESDVEALVLRAKKMLEADHTSQVED 420

Query: 427 ---KIRELGVSEE 436
              +++E      
Sbjct: 421 GDSEVQENEPEAR 433


>gi|304437178|ref|ZP_07397139.1| transcription termination factor NusA [Selenomonas sp. oral taxon
           149 str. 67H29BP]
 gi|304369840|gb|EFM23504.1| transcription termination factor NusA [Selenomonas sp. oral taxon
           149 str. 67H29BP]
          Length = 379

 Score =  483 bits (1244), Expect = e-134,   Method: Composition-based stats.
 Identities = 157/348 (45%), Positives = 230/348 (66%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
            E LQ    +AYEK ID +++   +  ++  A R  +G   ++R+ ++ ETG   +F + 
Sbjct: 15  KEFLQTLKELAYEKGIDEELLFETIEAALISAYRRNFGAAQNVRISLSRETGAFHVFAIK 74

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VV+EVE+   +I L  AR  +P   +G VV   + P +FGR+A Q+AKQV++Q++REAE
Sbjct: 75  TVVDEVESDVTEIGLAQARAINPDYVVGDVVEIEMTPANFGRIAAQTAKQVVMQRLREAE 134

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R   Y E+ ++  EI++G V+RVE  NV VD+G ++ V+   E +  E    GD V++YI
Sbjct: 135 RGIVYEEYMNRSSEIVTGIVQRVEGHNVFVDIGRAEAVLMATEQLPNETYNYGDTVRAYI 194

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V+R  RGPQ++LSRTHP  + KLF ++VPEI  G+V++++++R+ GSR+K+AV+SS+ 
Sbjct: 195 IEVKRTSRGPQIMLSRTHPGLLKKLFELQVPEIQEGVVEIRSIAREAGSRSKVAVWSSEE 254

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DP+GACVG    RVQAVV EL  EKIDIV WS D AT++ N+L PA V  V ++E   
Sbjct: 255 RVDPIGACVGPHYMRVQAVVDELAGEKIDIVKWSDDPATYIANSLNPAKVISVAVNEAEK 314

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
              V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E +     Q D
Sbjct: 315 ISRVVVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSETQARETEQAD 362


>gi|190571750|ref|YP_001976108.1| N utilization substance protein A [Wolbachia endosymbiont of Culex
           quinquefasciatus Pel]
 gi|213019234|ref|ZP_03335041.1| N utilization substance protein A [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
 gi|190358022|emb|CAQ55491.1| N utilization substance protein A [Wolbachia endosymbiont of Culex
           quinquefasciatus Pel]
 gi|212995343|gb|EEB55984.1| N utilization substance protein A [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
          Length = 517

 Score =  483 bits (1244), Expect = e-134,   Method: Composition-based stats.
 Identities = 195/510 (38%), Positives = 324/510 (63%), Gaps = 16/510 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            L++++ A  ++ +K +D +++++ +  +I+  A+  YG+ S I V I+  TG ++ +R 
Sbjct: 21  SLDVIKTAGELSLQKGLDFNIIINALKSAIEAVAQQKYGSKSKIVVNIDRNTGKVTSYRQ 80

Query: 66  LEVVEEV--ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           L+V+ +   EN    I L  A+       +G  +S+ +   +   V+ + A+Q I + ++
Sbjct: 81  LKVINDESNENECDLIKLTQAKLIKEDAKVGDTISELISL-NTDLVSARIAQQKISEIIK 139

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
             E  +QY EFKDKVGE+  G VK+VEY ++I+D+      +     I  E+ R GD+VK
Sbjct: 140 NEELKKQYEEFKDKVGEMRYGIVKQVEYSDLIIDINGIGAYLPLRNLIGGESFREGDKVK 199

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           +YI  V+R   G Q++LSRTH  F+  L + EVPEI +G++ +K ++RD GSR+K+AVFS
Sbjct: 200 AYIQAVKRSDDGRQIILSRTHEGFLEALLNQEVPEIADGLITIKGIARDAGSRSKIAVFS 259

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           SD +IDPVGACVG++G R++ ++ EL  EKID++ +S D   F+I A+ PA V+KV++DE
Sbjct: 260 SDRNIDPVGACVGVKGDRIKTIIHELNGEKIDVIHYSSDLGQFIIKAITPAEVSKVIIDE 319

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           +   IE+IV ++QLSLAIG++GQNVRLAS+L GW I+I++ +++S  R K+F++ +  F 
Sbjct: 320 NENCIELIVAEDQLSLAIGKKGQNVRLASELVGWKIEILSTQQESERRNKEFSQCSVLFA 379

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
           +A+N++EI+  LLV EGF+ VE+++   I E+ASIEGF+E+ A E+  RA  YL+  +  
Sbjct: 380 EALNLEEIMGQLLVTEGFSSVEDISNTSIKELASIEGFNEDIANELHNRANNYLKAENDR 439

Query: 424 LQKKIRELGVSEELCSIP-GIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
             ++++ LG+ +++ ++   ID+KI   L ++ IKT+ED+A  S  +      +   N +
Sbjct: 440 KIEELKNLGMEDDVINLALSIDNKIA--LSKHNIKTLEDIADLSNYEFCSILSSSTNNKD 497

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
                       KD  + +II AR K+G I
Sbjct: 498 NL----------KDTADLIIIEARKKLGLI 517


>gi|294649082|ref|ZP_06726525.1| transcription elongation factor NusA [Acinetobacter haemolyticus
           ATCC 19194]
 gi|292825028|gb|EFF83788.1| transcription elongation factor NusA [Acinetobacter haemolyticus
           ATCC 19194]
          Length = 494

 Score =  483 bits (1243), Expect = e-134,   Method: Composition-based stats.
 Identities = 195/516 (37%), Positives = 295/516 (57%), Gaps = 35/516 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI-----RVEINPETGDISL 62
           E+L +A+ V+ EK + R+ +   +  ++  A +  +   +       RVEI+ +TGD   
Sbjct: 4   EILTVAETVSNEKGVSREAIFQALEQALVAATKKKFYENTHAEEAQLRVEIDRKTGDYRT 63

Query: 63  FRLLEVV--EEVENYTCQISLKVARDRDPS-IDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           FR   VV  E+ E   CQ ++      DP+   IG V    +  ++FGR+A Q AKQVI+
Sbjct: 64  FRQWTVVADEDHEMPACQDAISD---VDPAQWSIGDVRELEVESIEFGRIAAQIAKQVIV 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           QK+REAER      ++ KVGE+I G VK+      I+DLG N++  + R+ETI +E LRP
Sbjct: 121 QKIREAERALVADAYESKVGELIYGEVKKQTKDGFIIDLGDNAEAYLAREETIHKEILRP 180

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
             R+ + +Y+V RE RG Q+LLSR  P+ ++ L   E+PEI   I+++KA +R PG RAK
Sbjct: 181 KQRINAILYNVNREGRGAQLLLSRARPEMLIALMKKEIPEISEEIIEIKAAARQPGVRAK 240

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A ++ +AL PA V+ 
Sbjct: 241 IAVKTNDHRIDPVGACIGMRGTRIQAVQQELNGERIDVVVWSDDPAQYIASALEPADVSG 300

Query: 299 VVLDEDVGRIEVIV-PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +VLDED    ++I    +QL+ AIG +GQNVRLAS+LTG+ +D++ EEE    +Q +  +
Sbjct: 301 IVLDEDARSADIIFATNDQLARAIGSQGQNVRLASELTGYKLDMMLEEEYRARQQNEAQQ 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F+  ++++E +A  LV  GF  +EE+A V       IE  D +    +Q RA+E  
Sbjct: 361 YLDMFVSRLDIEEDLAMALVEMGFTSLEEIAYVPAETFDEIE-LDADLVELLQSRAKEAA 419

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
               +  Q+ I+E   S EL  + G+ ++I  AL   G+ T++DLA  + DD+       
Sbjct: 420 LTDALKQQENIQE--PSAELLGMDGMTTEIAYALAARGVITVDDLADQATDDISDIE--- 474

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                         G   D+   +I+ AR    W  
Sbjct: 475 --------------GLGHDKAGQLIMKARES--WFN 494


>gi|89098596|ref|ZP_01171478.1| transcription elongation factor NusA [Bacillus sp. NRRL B-14911]
 gi|89086558|gb|EAR65677.1| transcription elongation factor NusA [Bacillus sp. NRRL B-14911]
          Length = 394

 Score =  483 bits (1243), Expect = e-134,   Method: Composition-based stats.
 Identities = 154/355 (43%), Positives = 229/355 (64%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I RD+++  +  ++  A R  +    ++R+++N  +G + +F   E
Sbjct: 4   ELLDALTLLEKEKGISRDIIIEAIEAALISAYRRNFNQAQNVRIDLNLGSGTMRVFARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE+V +   +ISL  A+  +P+  +  VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVEQVFDPRLEISLDEAKGINPNYQVEDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V LG  + ++  +E +  E  +P DR+K +I 
Sbjct: 124 GIIYSEFIDREEDIMTGIVQRQDPKFIYVSLGKIEAILPANEQMPNEQYKPHDRIKVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+VSR+ G R+K++V + +S 
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEIEVPEIYDGTVEIKSVSREAGDRSKISVHADNSE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G+RVQAVV EL+ EKIDIV WSPD   FV NAL P+ V  V+++E+   
Sbjct: 244 VDPVGSCVGPKGTRVQAVVNELKGEKIDIVKWSPDPVVFVANALSPSKVLDVIVNEEDKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E E   +      E    F
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETEARESGIFPREESLLTF 358


>gi|83589895|ref|YP_429904.1| NusA antitermination factor [Moorella thermoacetica ATCC 39073]
 gi|83572809|gb|ABC19361.1| NusA antitermination factor [Moorella thermoacetica ATCC 39073]
          Length = 362

 Score =  483 bits (1243), Expect = e-134,   Method: Composition-based stats.
 Identities = 154/342 (45%), Positives = 234/342 (68%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E +Q    +  EK I+ D++L  +  ++  A +  +G++ ++RV+I  +TG+I +   
Sbjct: 2   NSEFIQALRDLEREKGINADILLEAIEAALISAYKKNFGSLQNVRVDIQRDTGEIKVLAQ 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            +VVEEV +   +ISL+ AR  +   ++G +V   + P DFGR+A Q+AKQV++Q++REA
Sbjct: 62  RQVVEEVTDPRQEISLEEARAINSKYELGDIVEKEVTPRDFGRIAAQTAKQVVVQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF  +  ++++G V+R E  N+I+DLG ++ ++   E    E  R G+R+K Y
Sbjct: 122 ERGLIYEEFIGRENDLVTGVVQRQEGKNIILDLGRAEAILLPSEQSPGETYRQGERLKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +VR+  +GPQ+L+SRTHP  + +LF +EVPEI++GIV++K V+R+PG+R+K+AV S D
Sbjct: 182 VLEVRKTNKGPQILVSRTHPGLIKRLFELEVPEIHDGIVEIKGVAREPGARSKIAVHSRD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVG+CVG +G+RVQAVV ELR EK+DI+ WS D A +V N+L PA V  V +DE+ 
Sbjct: 242 EKVDPVGSCVGPKGARVQAVVQELRGEKVDIIKWSDDPAVYVANSLSPARVLDVTVDEEN 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
              +VIVP  QLSLAIG+ GQN RLA+++TGW IDI  E E 
Sbjct: 302 KVSQVIVPDNQLSLAIGKEGQNARLAARITGWKIDIKPESEA 343


>gi|42521112|ref|NP_967027.1| transcription elongation factor NusA [Wolbachia endosymbiont of
           Drosophila melanogaster]
 gi|42410853|gb|AAS14961.1| N utilization substance protein A [Wolbachia endosymbiont of
           Drosophila melanogaster]
          Length = 520

 Score =  482 bits (1242), Expect = e-134,   Method: Composition-based stats.
 Identities = 201/513 (39%), Positives = 327/513 (63%), Gaps = 19/513 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            L++++ A  ++ +K +D DVV+  +  +I+  A   YG+ S I V+I+  TG ++ +R 
Sbjct: 21  SLDVIKTAGELSLQKGLDFDVVIKALESAIEAVAHQKYGSKSKIVVDIDRNTGKVTSYRK 80

Query: 66  LEVVEEV----ENYTCQ-ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           L+V+++     EN  C+ I+L  A+       +G  VS+ L   +    + + A+Q I Q
Sbjct: 81  LKVIDDESNEKENTECESITLTQAKLIKGDAKVGDTVSELLSL-NTDLASARIAQQKIAQ 139

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
            +++ E  +QY EFKDKVGEI  G VK+VEY ++I+D+  +   +        E+ R GD
Sbjct: 140 VIKDEESKKQYEEFKDKVGEIRYGIVKQVEYSDLIIDINGTRAYLPLRNLTGGESFREGD 199

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           +VK+YI  V+    G Q++LSRTH  F+  L + E+PEI +G+V +K ++RD GSR+K+A
Sbjct: 200 KVKAYIQTVKHSDDGRQIILSRTHEGFLEALLNQEIPEIADGLVTIKGIARDAGSRSKVA 259

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           VFS D +IDPVGACVG++G R++ ++ EL  EKID++ +S D   FVI A+ PA V+KV+
Sbjct: 260 VFSPDKNIDPVGACVGVKGDRIKTIIHELNGEKIDVINYSSDLGQFVIKAITPAEVSKVI 319

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DE+   IE+IV ++QLSLAIG++GQNVRLAS+L GW I+I++ +++S  R K+ ++ + 
Sbjct: 320 IDENENCIELIVAEDQLSLAIGKKGQNVRLASELVGWKIEILSTQQESERRSKELSQCSA 379

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F +A+N++EI+  LLV EGF+ VE+++   I E+ASIEGF+E+ A E+  RA +YL+  
Sbjct: 380 LFAEALNLEEIMGQLLVTEGFSSVEDISSASIKELASIEGFNEDIANELHNRANKYLKAE 439

Query: 421 DITLQKKIRELGVSEELCSIP-GIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           +    ++++ LG+ +++ ++   ID+KI   L ++ IKT+ED+A  S  +      +   
Sbjct: 440 NDRKIEELKSLGMEDDVINLTLSIDNKIA--LSKHDIKTLEDIADLSSYEFCSILSSSSD 497

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
           + E            KD V+S+II AR K+G I
Sbjct: 498 SKEDL----------KDTVDSIIIEARKKLGLI 520


>gi|255319713|ref|ZP_05360921.1| transcription termination/antitermination, L factor [Acinetobacter
           radioresistens SK82]
 gi|262380005|ref|ZP_06073160.1| transcription termination factor NusA [Acinetobacter radioresistens
           SH164]
 gi|255303242|gb|EET82451.1| transcription termination/antitermination, L factor [Acinetobacter
           radioresistens SK82]
 gi|262298199|gb|EEY86113.1| transcription termination factor NusA [Acinetobacter radioresistens
           SH164]
          Length = 494

 Score =  482 bits (1242), Expect = e-134,   Method: Composition-based stats.
 Identities = 191/516 (37%), Positives = 293/516 (56%), Gaps = 35/516 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-----GTMSDIRVEINPETGDISL 62
           E+L + + V+ EK + R+ +   +  ++  A +  +        + +RVEI+ +TGD   
Sbjct: 4   EILTVVETVSNEKGVSREAIFEALEQALVAATKKKFYEGTTAEEARLRVEIDRKTGDYRT 63

Query: 63  FRLLEVV--EEVENYTCQISLKVARDRDP-SIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           FR  EVV  E+ E   CQ ++      DP    IG +    +  ++FGR+A Q AKQVI+
Sbjct: 64  FRQWEVVADEDHEMPACQDAISD---VDPAKWSIGDIRELEVESIEFGRIAAQIAKQVIV 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           QK+REAER      ++ KVGE+I G VK+      I+DLG N++  + R+E I++E LRP
Sbjct: 121 QKIREAERALIADAYESKVGELIYGEVKKQTKDGFIIDLGDNAEAYLAREEMIAKEILRP 180

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
             R+ + +Y V RE RG Q+LLSR  P+ ++ L   E+PEI   I+++KA +R PG RAK
Sbjct: 181 KQRINAILYSVNREGRGAQLLLSRAKPEMLIALMKKEIPEISEEIIEIKAAARQPGVRAK 240

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A ++ +AL PA V+ 
Sbjct: 241 IAVKTNDHRIDPVGACIGMRGTRIQAVQQELNGERIDVVVWSDDPAQYIASALEPADVSG 300

Query: 299 VVLDEDVGRIEVIV-PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +VLDED    ++I    +QL+ AIG +GQNVRLAS+LTG+ +D++ E+E    +Q +  +
Sbjct: 301 IVLDEDTHSADIIFATSDQLARAIGSQGQNVRLASELTGYKLDMMLEDEYRARQQNEAQQ 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F+  ++++E +A  LV  GF  +EE+A V       IE  D E    +Q RA+E  
Sbjct: 361 YLDMFVSRLDIEEDLAMALVEMGFTSLEEVAYVPAETFDEIE-LDTELVELLQSRAKEAA 419

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
               +  Q+ I++   SEEL ++ G+  +I  +L   G+ T++DLA  + DD+       
Sbjct: 420 LADALKQQENIQD--PSEELLNMEGMTREIAYSLAARGVVTVDDLADQATDDIADIE--- 474

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                         G        +I+ AR    W  
Sbjct: 475 --------------GLDAASAGQLIMKARES--WFN 494


>gi|50083628|ref|YP_045138.1| transcription elongation factor NusA [Acinetobacter sp. ADP1]
 gi|49529604|emb|CAG67316.1| transcription termination/antitermination, L factor (N utilization
           substance protein A) [Acinetobacter sp. ADP1]
          Length = 494

 Score =  482 bits (1241), Expect = e-134,   Method: Composition-based stats.
 Identities = 188/515 (36%), Positives = 293/515 (56%), Gaps = 33/515 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI-----RVEINPETGDISL 62
           E+L + + V+ EK + R+ +   +  ++  A +  +   ++      RVEI+ +TGD   
Sbjct: 4   EILTVVETVSNEKGVSREAIFEALEQALVAATKKKFYEGTNAEEAQLRVEIDRKTGDYRT 63

Query: 63  FRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           FR   +V  E+ E   CQ ++           IG V    +  ++FGR+A Q AKQVI+Q
Sbjct: 64  FRQWTLVADEDHEMPACQDAISDV--DASKWSIGDVRELEVESIEFGRIAAQIAKQVIVQ 121

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPG 179
           K+REAER      ++ KVGE+I G VK+      I+DLG N++  + R+E I++E LRP 
Sbjct: 122 KIREAERALIADAYESKVGELIYGEVKKQTKDGFIIDLGDNAEAYLAREEMIAKEILRPK 181

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
            R+ + +Y V RE RG Q+LLSR  P+ ++ L   E+PEI   I+++KA +R PG RAK+
Sbjct: 182 QRMNAILYSVNREGRGAQLLLSRARPEMLMALMKKEIPEISEEIIEIKAAARQPGVRAKI 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A ++ +AL PA V+ +
Sbjct: 242 AVKTNDHRIDPVGACIGMRGTRIQAVQQELNGERIDVVVWSDDPAQYIASALEPADVSGI 301

Query: 300 VLDEDVGRIEVIV-PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           VLDED    ++I    +QL+ AIG +GQNVRLAS+LTG+ +D++ EEE    +Q +  + 
Sbjct: 302 VLDEDTRSADIIFATNDQLARAIGSQGQNVRLASELTGYKLDMMLEEEYRARQQNEAQQY 361

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
              F+  ++++E +A  LV  GF  +EE+A V       IE  D+E    +Q RA+E   
Sbjct: 362 LDMFVTRLDIEEDLAMALVEMGFTSLEEIAYVPPETFDEIE-LDQELVELLQSRAKEAAL 420

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
              +  Q+ ++E  V  EL ++ G+  ++  AL   G+ T++DLA  + DD+        
Sbjct: 421 TDALKQQENVQEPSV--ELLAMAGMTQELAYALAARGVVTVDDLADQATDDISDIE---- 474

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                        G  +++   +I+ AR    W  
Sbjct: 475 -------------GLSEEKAGQLIMKARES--WFN 494


>gi|58584795|ref|YP_198368.1| transcription elongation factor NusA [Wolbachia endosymbiont strain
           TRS of Brugia malayi]
 gi|58419111|gb|AAW71126.1| Transcription elongation factor, NusA [Wolbachia endosymbiont
           strain TRS of Brugia malayi]
          Length = 520

 Score =  481 bits (1240), Expect = e-134,   Method: Composition-based stats.
 Identities = 192/512 (37%), Positives = 318/512 (62%), Gaps = 17/512 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            L++++ A  ++ +K +D +V++  +  +I+  A   YG+ S + V I+  TG++  +R 
Sbjct: 21  NLDIIKTAGEISLQKGLDFEVIMKALESAIEAVAYQKYGSKSKVVVNIDRSTGEVISYRE 80

Query: 66  LEVVEEVENYTCQ-----ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           L+VV++  N         I+L  A+       +G  +++ L   +    + + A+Q I Q
Sbjct: 81  LKVVDDEPNGEEHNGYGSITLTQAKLIKEDAKVGDTINELLSL-NTDLASARIAQQRIAQ 139

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
            ++  E  +QY EFKDKVGEI  G VK+VEY ++I+D+  +   +     I  E  R GD
Sbjct: 140 VIKYEELKKQYEEFKDKVGEIRYGIVKQVEYSDLIIDINGTRAYLPLRNLIGGELFREGD 199

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           ++K+YI  V+R   G Q++LSR    F+  L   E+PEI +G+V VK ++RD GSR+K+A
Sbjct: 200 KIKAYIQTVKRSDDGRQIILSRASEGFLEALLSQEIPEIADGLVTVKGIARDAGSRSKVA 259

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           VFS D +IDPVGACVG++G R++A++ EL  EKID+V +  D   FVI A+ PA V+KV+
Sbjct: 260 VFSPDKNIDPVGACVGVKGERIKAIIHELNGEKIDVVHYFSDLGQFVIKAITPAEVSKVI 319

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DE    +E+IV ++QLSLAIG++GQNVRLAS+L GW I+I++ +++S  R ++ ++ + 
Sbjct: 320 IDESENCVELIVAEDQLSLAIGKKGQNVRLASELIGWKIEILSTQQESERRNRELSQCSA 379

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F +A+N++EI+  LLV EGF+ VE+++   I E+ASIEGF+E+ A E++ RA  YL+  
Sbjct: 380 LFAEALNLEEIMGQLLVTEGFSSVEDISNASIKELASIEGFNEDIASELRNRANRYLKAE 439

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +    ++++ LG+  ++ ++P +    K+AL E+GIKT+E++A  S  +      +   +
Sbjct: 440 NDRKIEELKSLGMESDVINLP-LSIDDKIALSEHGIKTLENIADLSSYEFCSILSSSASD 498

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
            E            K+ V S+I+ AR K+G I
Sbjct: 499 KENL----------KNTVNSIIMEARKKLGVI 520


>gi|288556945|ref|YP_003428880.1| transcription elongation factor NusA [Bacillus pseudofirmus OF4]
 gi|288548105|gb|ADC51988.1| transcription elongation factor NusA [Bacillus pseudofirmus OF4]
          Length = 378

 Score =  481 bits (1240), Expect = e-134,   Method: Composition-based stats.
 Identities = 147/368 (39%), Positives = 230/368 (62%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E +     +  EK I ++V++  +  ++    +  +    ++RV++N + G I +F  
Sbjct: 2   NSEFMDALTTLEKEKGISKEVIIEAIEAALISGYKRNFSQAQNVRVDVNRDNGSIRVFAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEV +   +ISL  A+  +P+ ++  VV   + P DFGR+A Q+AKQV+ Q+VREA
Sbjct: 62  KTIVEEVFDARLEISLDEAKSINPNYEVDDVVEIEVTPKDFGRIAAQTAKQVVTQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y +F D+  +I++G V+R ++  + VDLG  + ++  +E +  E  +  DR+K++
Sbjct: 122 ERGIIYSDFIDREEDIMTGIVQRQDHRFIYVDLGKVEALLPLNEQMPNETYKHNDRIKAF 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V +  +GPQ+L+SRTHP  + +LF +EVPEIY+G V++K+VSR+ G R+K+AV + +
Sbjct: 182 ITKVEKTTKGPQILISRTHPGLLKRLFELEVPEIYDGTVEIKSVSREAGDRSKIAVHAEN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVG+CVG RG RVQ +V EL+ EKIDIV WS D   +V NAL P+ V KV ++E+ 
Sbjct: 242 PEVDPVGSCVGPRGQRVQTIVDELKGEKIDIVRWSEDPVEYVANALSPSKVVKVNVNEEE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
              +VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E E       +  + +    + 
Sbjct: 302 KMTQVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSESEARELGLLNEEDSSASEYED 361

Query: 366 INVDEIIA 373
              +E   
Sbjct: 362 PASEEAFV 369


>gi|225181381|ref|ZP_03734825.1| NusA antitermination factor [Dethiobacter alkaliphilus AHT 1]
 gi|225167962|gb|EEG76769.1| NusA antitermination factor [Dethiobacter alkaliphilus AHT 1]
          Length = 396

 Score =  481 bits (1240), Expect = e-133,   Method: Composition-based stats.
 Identities = 157/364 (43%), Positives = 243/364 (66%), Gaps = 1/364 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E L   DA+  EK + ++V+   +  ++  A +  +   +++RV++N E+G+I ++  
Sbjct: 2   NEEFLAAMDAIEKEKGVKKEVLFEAIEAALVSAYKRNFNAAANVRVQLNRESGEIKVYTR 61

Query: 66  LEVVEEV-ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           LEVVEE   +   +ISL+ A+  D   + G +V   + P +FGR+A Q+AKQV+IQ++RE
Sbjct: 62  LEVVEEESNDPQLEISLQDAQKIDSRYEPGEIVEKEVTPKNFGRIAAQTAKQVVIQRIRE 121

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER+  + E+ D+  +II+G V+R+E  NVI+DLG ++ V+   E +  ++ R  +RVK+
Sbjct: 122 AEREIVFDEYIDREEDIITGIVQRMEQKNVIMDLGKTEAVLLPTEQMPGDDYRQSERVKA 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +V++  +GPQ+ +SRTHP  + +LF +EVPEI++G V++K+V+R+ G R+KLAV+S 
Sbjct: 182 YITEVKKTSKGPQIFVSRTHPGLLKRLFELEVPEIFDGTVEIKSVAREAGYRSKLAVYSK 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           +  +DPVGACVG +G+RVQA+VTELR EKIDIV W  D   FV N+L PA V  V L ++
Sbjct: 242 NKDVDPVGACVGPKGARVQAIVTELRGEKIDIVKWDEDPVIFVANSLSPAKVMSVSLHQE 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
                V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E + +  +     ER++ F  
Sbjct: 302 QKVASVVVPDYQLSLAIGKEGQNARLAAKLTGWKIDITSESQAAERQGLPVEERSELFGN 361

Query: 365 AINV 368
             +V
Sbjct: 362 DEDV 365


>gi|226951828|ref|ZP_03822292.1| transcription elongation factor [Acinetobacter sp. ATCC 27244]
 gi|226837368|gb|EEH69751.1| transcription elongation factor [Acinetobacter sp. ATCC 27244]
          Length = 494

 Score =  481 bits (1239), Expect = e-133,   Method: Composition-based stats.
 Identities = 196/516 (37%), Positives = 295/516 (57%), Gaps = 35/516 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI-----RVEINPETGDISL 62
           E+L +A+ V+ EK + R+ +   +  ++  A +  +   +       RVEI+ +TGD   
Sbjct: 4   EILTVAETVSNEKGVSREAIFQALEQALVAATKKKFYENTHAEEAQLRVEIDRKTGDYRT 63

Query: 63  FRLLEVV--EEVENYTCQISLKVARDRDPS-IDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           FR   VV  E+ E   CQ ++      DP+   IG V    +  ++FGR+A Q AKQVI+
Sbjct: 64  FRQWTVVADEDHEMPACQDAISD---VDPAQWSIGDVRELEVESIEFGRIAAQIAKQVIV 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           QK+REAER      ++ KVGE+I G VK+      I+DLG N++  + R+ETI +E LRP
Sbjct: 121 QKIREAERALVADAYESKVGELIYGEVKKQTKDGFIIDLGDNAEAYLAREETIHKEILRP 180

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
             R+ + +Y+V RE RG Q+LLSR  P+ ++ L   E+PEI   I+++KA +R PG RAK
Sbjct: 181 KQRINAILYNVNREGRGAQLLLSRARPEMLIALMKKEIPEISEEIIEIKAAARQPGVRAK 240

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A ++ +AL PA V+ 
Sbjct: 241 IAVKTNDHRIDPVGACIGMRGTRIQAVQQELNGERIDVVVWSDDPAQYIASALEPADVSG 300

Query: 299 VVLDEDVGRIEVIV-PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +VLDED    ++I    +QL+ AIG +GQNVRLAS+LTG+ +D++ EEE    +Q +  E
Sbjct: 301 IVLDEDARSADIIFATNDQLARAIGSQGQNVRLASELTGYKLDMMLEEEYRARQQNEAQE 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F+  ++++E +A  LV  GF  +EE+A V       IE  D +    +Q RA+E  
Sbjct: 361 YLDMFVSRLDIEEDLAMALVEMGFTSLEEIAYVPAETFDEIE-LDADLVELLQSRAKEAA 419

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
               +  Q+ I+E   S EL  + G+ ++I  AL   G+ T++DLA  + DD+       
Sbjct: 420 LTDALKQQENIQE--PSAELLGMDGMTTEIAYALAARGVITVDDLADQATDDISDIE--- 474

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                         G   D+   +I+ AR    W  
Sbjct: 475 --------------GLGHDKAGQLIMKARES--WFN 494


>gi|167037624|ref|YP_001665202.1| transcription elongation factor NusA [Thermoanaerobacter
           pseudethanolicus ATCC 33223]
 gi|307264912|ref|ZP_07546474.1| transcription termination factor NusA [Thermoanaerobacter wiegelii
           Rt8.B1]
 gi|320116039|ref|YP_004186198.1| transcription termination factor NusA [Thermoanaerobacter brockii
           subsp. finnii Ako-1]
 gi|326389438|ref|ZP_08211005.1| NusA antitermination factor [Thermoanaerobacter ethanolicus JW 200]
 gi|166856458|gb|ABY94866.1| NusA antitermination factor [Thermoanaerobacter pseudethanolicus
           ATCC 33223]
 gi|306920170|gb|EFN50382.1| transcription termination factor NusA [Thermoanaerobacter wiegelii
           Rt8.B1]
 gi|319929130|gb|ADV79815.1| transcription termination factor NusA [Thermoanaerobacter brockii
           subsp. finnii Ako-1]
 gi|325994443|gb|EGD52868.1| NusA antitermination factor [Thermoanaerobacter ethanolicus JW 200]
          Length = 346

 Score =  481 bits (1239), Expect = e-133,   Method: Composition-based stats.
 Identities = 155/341 (45%), Positives = 228/341 (66%), Gaps = 1/341 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E ++  +++  EK I +D +   +  ++  A +  YGT  ++++ ++ ETGD+ ++  
Sbjct: 2   NAEFIEALNSICEEKGIPKDTMFEAIEAALVSAYKKNYGTSQNVKIVMDRETGDVKVYAQ 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV N   +ISL+ AR  +    IG +V   + P +FGR+A Q+AKQV+IQ++REA
Sbjct: 62  KTVVEEVYNDLLEISLEEARKINKKYQIGDIVDIEVTPKNFGRIAAQNAKQVVIQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  Y EF  K  E+++G V RV+  NV+++LG  + ++   E I  E   PGDRVK Y
Sbjct: 122 ERNVIYEEFLAKETEVVTGIVTRVDKKNVLINLGRVEAILGPSEQIPGETFAPGDRVKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V++  +GPQ+L+SR+HP  + +LF +E PEI  GIV++++++R+ GSR K+AVFS D
Sbjct: 182 IVEVKKTTKGPQILISRSHPGLVKRLFELESPEIQQGIVEIRSIAREAGSRTKMAVFSRD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
            ++DPVGACVG +G+RVQAVV EL+ EKIDIV WS     F++NAL PA    + +LDE 
Sbjct: 242 ENVDPVGACVGYKGARVQAVVNELKGEKIDIVKWSSKPQEFIMNALSPAKALSIEILDEK 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
                VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E 
Sbjct: 302 EKVARVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSES 342


>gi|146329748|ref|YP_001208968.1| transcription termination factor [Dichelobacter nodosus VCS1703A]
 gi|146233218|gb|ABQ14196.1| transcription termination factor [Dichelobacter nodosus VCS1703A]
          Length = 495

 Score =  481 bits (1239), Expect = e-133,   Method: Composition-based stats.
 Identities = 193/513 (37%), Positives = 302/513 (58%), Gaps = 26/513 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGT-MSDIRVEINPETGDISLFR 64
             ELL I +AVA EK +DR+V+   +  ++  A R  +G    + RV I+ ++G+   FR
Sbjct: 2   SKELLAIVEAVANEKDVDRNVIFEALEAALAAATRKRHGDKEIETRVSIDRKSGEYETFR 61

Query: 65  LLEVVEE---VENYTCQISLKVARDRDPSIDI--GGVVSDPLPPMDFGRVAVQSAKQVII 119
           + ++V++   +EN   +I   VA    P  D+  G +  + +    FGR++ Q AKQ+II
Sbjct: 62  VWKIVDDDAILENTDIEIRETVAHIDFPDADLVAGDIYEEKIENEPFGRISAQMAKQIII 121

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPG 179
           QK+REAER++ Y +F ++ G ++ G V+R E GN IVDLG  +G I R++ I RE LR G
Sbjct: 122 QKLREAEREKIYQQFIEQEGTLVHGIVRRHERGNAIVDLGGVEGTILRNDMIPREPLRSG 181

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR+  Y+  V RE RGPQ+ +SR  P+ +++LF  EVPEI +G++++   +RDPG RAK+
Sbjct: 182 DRILGYLEKVNRELRGPQLQISRIAPELLIQLFQKEVPEISSGMIEIMGAARDPGLRAKI 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           +V + D  IDPVGACVG+RGSRVQ VV EL  E+IDIV+W  D+ T+V  A+ PA+++  
Sbjct: 242 SVRTFDPRIDPVGACVGIRGSRVQGVVNELAGERIDIVLWDDDAETYVRKAMAPAVISDT 301

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
            ++E    I++ VP+E+L  A+GR GQNVRLAS+LTGWTI++++E E +   Q   + + 
Sbjct: 302 CVNEATKTIDIAVPEEKLPQAVGRGGQNVRLASELTGWTINVLSESEFAEKIQATQSAQE 361

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           Q     ++VDE +A  L+A G    E +A     E+ +I+ FD E   ++  RA  Y+  
Sbjct: 362 QSLSTILDVDETVATQLIAHGITTPEAVAYTGRDELLTIDAFDAELVDDLLERAANYV-M 420

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           ++   ++   E  +   +  + G+DS +   L   GI T EDLA  SV++L+        
Sbjct: 421 VEAFKEEDTPEEEMQTSVSVMEGVDSVLAAKLQAAGIHTQEDLAELSVEELITIGNT--- 477

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
                          +++  ++I+ AR    W 
Sbjct: 478 --------------TQNEAAALILKAREP--WF 494


>gi|108759193|ref|YP_630295.1| transcription termination factor NusA [Myxococcus xanthus DK 1622]
 gi|108463073|gb|ABF88258.1| transcription termination factor NusA [Myxococcus xanthus DK 1622]
          Length = 566

 Score =  481 bits (1238), Expect = e-133,   Method: Composition-based stats.
 Identities = 195/498 (39%), Positives = 287/498 (57%), Gaps = 47/498 (9%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L  + D VA +K IDR V+++ + D+++ AA+  +G   ++  + +P+ G + LF+ + V
Sbjct: 12  LNLVLDQVAKDKGIDRAVLIATLEDAMKTAAKKHFGQDRELEAKYDPDKGVVELFQAITV 71

Query: 69  VEEVENYT---CQISLKVARDRDPSIDIGGVVSDPLPPMD-------------------- 105
           VEE+ +      QISL  A  +   ++ G  +   +   D                    
Sbjct: 72  VEEIVDPVQAVNQISLVEAHKKGMEVEPGDELVFQIFYRDEDAAEAKAQDDQYGDILRLK 131

Query: 106 -----FGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN 160
                FGR+A Q+AKQVI+Q+ R+AER+  + E++D+  EI++G  +R E GN+IVDLG 
Sbjct: 132 TFRRGFGRIAAQTAKQVILQRTRDAERENVFNEYRDRKNEIVTGIARRFERGNIIVDLGR 191

Query: 161 SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIY 220
           ++ V+   E + RE  RPGDRV++Y+ DV RE +GPQ++LSR     + KLF MEVPEI 
Sbjct: 192 AEAVLPVREQVPRETYRPGDRVQAYVLDVLRESKGPQIVLSRASVNLLTKLFEMEVPEIA 251

Query: 221 NGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
            GIV ++A +R+PG RAK+AV S DS +DPVGACVGM+GSRVQAVV ELR EKIDIV + 
Sbjct: 252 EGIVVIEAAAREPGGRAKIAVSSRDSDVDPVGACVGMKGSRVQAVVQELRGEKIDIVPFD 311

Query: 281 PDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
            D A FV +AL PA V++V++DE    +E+IVP +QLSLAIGRRGQNVRLA+QLTGW +D
Sbjct: 312 EDPARFVCSALAPAEVSRVIIDEANHAMELIVPDDQLSLAIGRRGQNVRLAAQLTGWKLD 371

Query: 341 IITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEG 400
           I +E    +   ++F  R+        V+E++   L A GF    ++A      +A + G
Sbjct: 372 INSES--RVRELREFANRS--LGSLPGVNEMLVETLYAHGFRQARDIAEANAELLAQLPG 427

Query: 401 FDEETAVEIQGRAR-------EYLEGIDITLQKKI--------RELGVSEELCSIPGIDS 445
            D      +Q  AR         L  +D   ++           EL   E +  + G+  
Sbjct: 428 IDPARIPSMQEAARTRMVEDQAELSRMDYEREQARIAEARRHPDELSQPERMARVRGVGE 487

Query: 446 KIKVALGENGIKTMEDLA 463
           K    L   G +++ED+A
Sbjct: 488 KTIEQLILAGYRSVEDIA 505



 Score = 38.5 bits (89), Expect = 2.7,   Method: Composition-based stats.
 Identities = 16/87 (18%), Positives = 33/87 (37%), Gaps = 1/87 (1%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELA-CVKISEIASIEGFDEET 405
               R  D   + +   +   V E     L+  G+  VE++A    ++++  + G   + 
Sbjct: 464 AEARRHPDELSQPERMARVRGVGEKTIEQLILAGYRSVEDIANEKDLAKLGDVPGVGIKK 523

Query: 406 AVEIQGRAREYLEGIDITLQKKIRELG 432
           A +++  A  YL        +   E G
Sbjct: 524 ARQLKSAAENYLVEEAKLRAELNAERG 550


>gi|315648098|ref|ZP_07901199.1| NusA antitermination factor [Paenibacillus vortex V453]
 gi|315276744|gb|EFU40087.1| NusA antitermination factor [Paenibacillus vortex V453]
          Length = 365

 Score =  481 bits (1238), Expect = e-133,   Method: Composition-based stats.
 Identities = 145/364 (39%), Positives = 232/364 (63%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            ++ ++  + +  EK I +DV+   +  ++  + +  + T  ++RV++N  TG I +F  
Sbjct: 2   SMDFIEAMNELEREKGISKDVLFEAIEAALISSYKRNFNTAQNVRVDMNRNTGVIKVFAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +V+EV +   +ISL  AR+ +P   I  +    + P DFGR+A Q+AKQV+ Q++REA
Sbjct: 62  KLIVDEVLDPRTEISLHAAREINPHFQIEDIAEIEVTPRDFGRIAAQTAKQVVTQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y  F DK  +I++GT++R +  N+ +DLG  +  +   E +  E  + GDR+K+Y
Sbjct: 122 ERGLIYSAFIDKEDDIVTGTLQRQDMRNIYIDLGKIEAALPLTELMPNEKFKHGDRIKAY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V    +GPQ++LSRTHP  + +LF +EVPEI++G+V++++V+R+ G R+K+AV+S +
Sbjct: 182 ITKVENTTKGPQIMLSRTHPGLLKRLFELEVPEIFDGVVEIRSVAREAGFRSKIAVYSRN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVG+CVG +G RVQ +V ELR EKIDIV +S +   +V NAL P+ V +V + ED 
Sbjct: 242 DEVDPVGSCVGPKGMRVQTIVNELRGEKIDIVRYSEEVEEYVANALSPSKVLEVQVFEDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
               VIVP  QLSLAIG +GQN RLA++LTGW IDI +E +      +  ++  +    +
Sbjct: 302 KMARVIVPDYQLSLAIGIKGQNARLAAKLTGWKIDIKSESQAEQEFGRPKSQSGEMHQDS 361

Query: 366 INVD 369
           ++VD
Sbjct: 362 VSVD 365


>gi|261407939|ref|YP_003244180.1| NusA antitermination factor [Paenibacillus sp. Y412MC10]
 gi|329929345|ref|ZP_08283098.1| transcription termination factor NusA [Paenibacillus sp. HGF5]
 gi|261284402|gb|ACX66373.1| NusA antitermination factor [Paenibacillus sp. Y412MC10]
 gi|328936714|gb|EGG33157.1| transcription termination factor NusA [Paenibacillus sp. HGF5]
          Length = 365

 Score =  481 bits (1238), Expect = e-133,   Method: Composition-based stats.
 Identities = 145/364 (39%), Positives = 231/364 (63%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            ++ ++  + +  EK I +DV+   +  ++  + +  + T  ++RV++N  TG I +F  
Sbjct: 2   SMDFIEAMNELEREKGISKDVLFEAIEAALISSYKRNFNTAQNVRVDMNRNTGVIKVFAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +V+EV +   +ISL  AR+ +P   I  +    + P DFGR+A Q+AKQV+ Q++REA
Sbjct: 62  KLIVDEVLDPRTEISLHAAREINPHFQIEDIAEIEVTPRDFGRIAAQTAKQVVTQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y  F DK  +I++GT++R +  N+ +DLG  +  +   E +  E  + GDR+K+Y
Sbjct: 122 ERGLIYSAFIDKEDDIVTGTLQRQDLRNIYIDLGKIEAALPLTELMPNEKFKHGDRIKAY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V    +GPQ++LSRTHP  + +LF +EVPEI++G+V++++V+R+ G R+K+AV+S +
Sbjct: 182 ITKVENTTKGPQIMLSRTHPGLLKRLFELEVPEIFDGVVEIRSVAREAGFRSKIAVYSRN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVG+CVG +G RVQ +V ELR EKIDIV +S     +V NAL P+ V +V + ED 
Sbjct: 242 DEVDPVGSCVGPKGLRVQTIVNELRGEKIDIVRYSDQVEEYVANALSPSKVLEVQVFEDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
               VIVP  QLSLAIG +GQN RLA++LTGW IDI +E +      +  ++  +    +
Sbjct: 302 KMARVIVPDYQLSLAIGIKGQNARLAAKLTGWKIDIKSESQAEQEFGRPKSQSGEMHQDS 361

Query: 366 INVD 369
           ++VD
Sbjct: 362 VSVD 365


>gi|219669697|ref|YP_002460132.1| NusA antitermination factor [Desulfitobacterium hafniense DCB-2]
 gi|219539957|gb|ACL21696.1| NusA antitermination factor [Desulfitobacterium hafniense DCB-2]
          Length = 493

 Score =  481 bits (1238), Expect = e-133,   Method: Composition-based stats.
 Identities = 158/436 (36%), Positives = 255/436 (58%), Gaps = 11/436 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            +E ++    +  ++ I  D++   +  ++  A +  + ++ ++RV I+  TG+  +F  
Sbjct: 2   NMEFIEALHELEKDRGISADILFEAIEAALISAYKKNFASLQNVRVHIDRMTGEFKVFAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEVE+   Q+S++ A+  DP+  I  VV   + P +FGR+A Q+AKQV++Q++REA
Sbjct: 62  KNVVEEVEDSRTQVSMEEAQKIDPNYAIDDVVEYEVTPREFGRIAAQTAKQVVVQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y E+ ++ G+I++G V+R +  NVIVDLG  + ++   E I  E  +P +R+K++
Sbjct: 122 ERGMIYDEYINREGDIVTGIVQRYDQKNVIVDLGKVEAILTAQEQIPGETYQPFERIKTF 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V++  +GPQV+LSRTHP  + +LF +EVPEI++G+V++K VSR+ G+R+K+AV+S D
Sbjct: 182 VVEVKKTTKGPQVMLSRTHPGLIKRLFELEVPEIHDGLVEIKGVSREAGARSKIAVYSRD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           +++DPVGACVG +GSRVQ +VTEL+ EKIDIV +S D   FV NAL PA V  V    + 
Sbjct: 242 ANVDPVGACVGPKGSRVQTIVTELKGEKIDIVNYSTDPEEFVANALSPAKVVGVYPKPNE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
               V+VP  QLSLAIG+ GQN RLA++LT W IDI +E +             Q   + 
Sbjct: 302 KVALVVVPDYQLSLAIGKEGQNARLAAKLTNWKIDIKSESQALAQNLIPDKNEVQGEYEE 361

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA------VEIQGRAREYLEG 419
            +     A     E + + E+    +  +    E +DE          E+     +  E 
Sbjct: 362 YD---EFADYAEYENYDEYED--YSEYDDYEENEDYDENATYGENYDDELVYDENDQYEE 416

Query: 420 IDITLQKKIRELGVSE 435
            D    +++      +
Sbjct: 417 FDAYQNEELPYEESED 432


>gi|297569836|ref|YP_003691180.1| transcription termination factor NusA [Desulfurivibrio alkaliphilus
           AHT2]
 gi|296925751|gb|ADH86561.1| transcription termination factor NusA [Desulfurivibrio alkaliphilus
           AHT2]
          Length = 449

 Score =  480 bits (1237), Expect = e-133,   Method: Composition-based stats.
 Identities = 187/407 (45%), Positives = 270/407 (66%), Gaps = 5/407 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL +I D ++ +K I+RD+++  + +++  AA+  YG   +I    N E G+I LF+   
Sbjct: 4   ELKRIIDQISRDKGINRDLLIEAIEEAVMSAAKKKYGHRREIEARYNDEYGEIELFQFRT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM-DFGRVAVQSAKQVIIQKVREAE 126
           VV+EV +   +ISL  A++ DP +++G  +   +    D GR+A QSAKQVIIQK++EAE
Sbjct: 64  VVDEVTDEQTEISLAEAKELDPEVEMGDELGSKMDSAADLGRIAAQSAKQVIIQKMKEAE 123

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
            D  Y  FK++ G+I++G V+R E GN+IV+LG +D ++   E + R++ R GDR+++Y+
Sbjct: 124 SDVVYDLFKERKGDIVNGIVQRFERGNMIVNLGRTDAILPSREQMPRKSYRQGDRIRAYL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            DVR+  + PQ++LSRT  +F+ KLF MEVPEI  GIV+V  V+R+PGSRAK+AV S++S
Sbjct: 184 LDVRQSSKEPQLVLSRTCNEFLTKLFTMEVPEIAEGIVKVMGVAREPGSRAKIAVSSTES 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVGM+GSRVQ VV EL+ EKIDIV WSPD A +V NAL PA V+ VV+DE+  
Sbjct: 244 DVDPVGACVGMKGSRVQNVVQELQGEKIDIVPWSPDPARYVSNALAPAQVSMVVVDEENN 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            + V+VP +QLSLAIGR+GQNVRLAS L GW ID+ +E   S + ++ F    Q  +   
Sbjct: 304 TLLVVVPDDQLSLAIGRQGQNVRLASALLGWRIDVKSETRYSRSIEEGF----QSLLDVA 359

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
            + E  A  L   G +   ELA    +E+A+  G +E  A  +   A
Sbjct: 360 GISEKQAEKLYDGGISSAAELAAADPAEVATTLGLEEPEAQALVSAA 406


>gi|89895266|ref|YP_518753.1| hypothetical protein DSY2520 [Desulfitobacterium hafniense Y51]
 gi|89334714|dbj|BAE84309.1| hypothetical protein [Desulfitobacterium hafniense Y51]
          Length = 493

 Score =  480 bits (1237), Expect = e-133,   Method: Composition-based stats.
 Identities = 160/436 (36%), Positives = 255/436 (58%), Gaps = 11/436 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            +E ++    +  ++ I  D++   +  ++  A +  + ++ ++RV I+  TG+  +F  
Sbjct: 2   NMEFIEALHELEKDRGISADILFEAIEAALISAYKKNFASLQNVRVHIDRMTGEFKVFAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEVE+   Q+S++ AR  DP+  I  VV   + P +FGR+A Q+AKQV++Q++REA
Sbjct: 62  KNVVEEVEDARTQVSMEEARKIDPNYAIDDVVEYEVTPREFGRIAAQTAKQVVVQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y E+ ++ G+I++G V+R +  NVIVDLG  + ++   E I  E  +P +R+K++
Sbjct: 122 ERGMIYDEYINREGDIVTGIVQRYDQKNVIVDLGKVEAILTAQEQIPGETYQPFERIKTF 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V++  +GPQV+LSRTHP  + +LF +EVPEI++G+V++K VSR+ G+R+K+AV+S D
Sbjct: 182 VVEVKKTTKGPQVMLSRTHPGLIKRLFELEVPEIHDGLVEIKGVSREAGARSKIAVYSRD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           S++DPVGACVG +GSRVQ +VTEL+ EKIDIV +S D   FV NAL PA V  V    + 
Sbjct: 242 SNVDPVGACVGPKGSRVQTIVTELKGEKIDIVNYSTDPEEFVANALSPAKVVGVYPKPNE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
               V+VP  QLSLAIG+ GQN RLA++LT W IDI +E +             Q   + 
Sbjct: 302 KVALVVVPDYQLSLAIGKEGQNARLAAKLTNWKIDIKSESQALAQNLIPDKNEVQGEYEE 361

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA------VEIQGRAREYLEG 419
            +     A     E + + E+    +  +    E +DE          E+     +  E 
Sbjct: 362 YD---EFADYAEYENYDEYED--YSEYDDYEENEDYDENATYGENYDDELVYDENDQYEE 416

Query: 420 IDITLQKKIRELGVSE 435
            D    +++      +
Sbjct: 417 FDAYQNEELPYEESED 432


>gi|332799221|ref|YP_004460720.1| NusA antitermination factor [Tepidanaerobacter sp. Re1]
 gi|332696956|gb|AEE91413.1| NusA antitermination factor [Tepidanaerobacter sp. Re1]
          Length = 357

 Score =  480 bits (1237), Expect = e-133,   Method: Composition-based stats.
 Identities = 146/340 (42%), Positives = 229/340 (67%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            +E ++    +  EK I +D++L  +  S+  A +  YG+  ++ V I+ +TG++ +F  
Sbjct: 2   NIEFIEALAQIEKEKGISKDILLDALEASLISAYKKNYGSSQNVSVSIDRDTGEVKVFSK 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             V +EV++   +I +  A   +P+  IG V+S  + P  FGR+A Q+AKQV++Q++REA
Sbjct: 62  KVVTDEVKDTLLEIDINEAYTFNPTAKIGDVISIEVTPKKFGRIAAQTAKQVVMQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ERD  + E+  +  +I++G V+R +  NVI+DLG ++ ++   E IS E    G+R+K Y
Sbjct: 122 ERDLIFEEYSGRETDIVTGIVQRFDKKNVIIDLGKTEAILPTGEQISSEEYVQGNRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V++  +GPQ+ +SR+HP  + +LF +EVPEIY GIV++K ++R+ GSR K+AV+S +
Sbjct: 182 ILEVKKTTKGPQITVSRSHPGLVKRLFELEVPEIYEGIVEIKGIAREAGSRTKIAVYSKN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            +IDPVGACVG +GSRVQ++V EL  EKIDI+ W  D A F+ NAL PA V  V+++E+ 
Sbjct: 242 ENIDPVGACVGPKGSRVQSIVDELNGEKIDIIKWDKDVAEFISNALSPAKVLNVIVEENT 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
               V V + QLSLAIG+ GQN RLA++LTGW IDI +++
Sbjct: 302 KTARVTVSESQLSLAIGKEGQNARLAARLTGWKIDIKSKD 341


>gi|317121853|ref|YP_004101856.1| NusA antitermination factor [Thermaerobacter marianensis DSM 12885]
 gi|315591833|gb|ADU51129.1| NusA antitermination factor [Thermaerobacter marianensis DSM 12885]
          Length = 486

 Score =  480 bits (1237), Expect = e-133,   Method: Composition-based stats.
 Identities = 166/344 (48%), Positives = 236/344 (68%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            +E ++  + +  +K ID+D +L  +  ++  A R  +GT  ++ V I+ E+G+I +   
Sbjct: 2   NVEFIEALEDLERQKGIDKDTLLEAIEAALVAAFRRHFGTAQNVAVRIDRESGEIRVVAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            +VVEEV++ + QISL  AR+ DP   +G VV   + P DFGR+A Q+AKQV++Q++REA
Sbjct: 62  RDVVEEVQDPSTQISLAEAREIDPRYQVGDVVEQEVTPRDFGRIAAQTAKQVVLQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ERD  Y EF  + G+II+G V+RV+  NV VDLG ++ V+   E I  E  RPGDR+K Y
Sbjct: 122 ERDLIYEEFIAREGDIITGVVQRVQGRNVFVDLGRTETVLFPSEQIPGERYRPGDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +VR+  +GPQ+L+SR+HP  + +LF +EVPEI++GIV++K   R+PG RAK+AV + D
Sbjct: 182 IVEVRKTPKGPQILISRSHPNLIKRLFELEVPEIHDGIVEIKEAVREPGVRAKVAVDTRD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG RG RVQAVV ELR E+ID++ W+ +   FV NAL PA VT+V+L+ + 
Sbjct: 242 ERVDPVGACVGPRGVRVQAVVAELRGERIDVIRWAEEPEQFVANALSPAKVTRVILEPET 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
               VIVP  QLSLAIG+ GQN RLA++LTGW IDI  E +   
Sbjct: 302 RVARVIVPDHQLSLAIGKEGQNARLAARLTGWKIDIHAESQAQE 345


>gi|167465394|ref|ZP_02330483.1| transcription elongation factor NusA [Paenibacillus larvae subsp.
           larvae BRL-230010]
 gi|322382349|ref|ZP_08056256.1| transcription elongation factor NusA-like protein [Paenibacillus
           larvae subsp. larvae B-3650]
 gi|321153702|gb|EFX46077.1| transcription elongation factor NusA-like protein [Paenibacillus
           larvae subsp. larvae B-3650]
          Length = 365

 Score =  480 bits (1236), Expect = e-133,   Method: Composition-based stats.
 Identities = 149/364 (40%), Positives = 230/364 (63%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E ++    +  EK I +D+++  +  ++  + +  + T  ++RV+IN +TG I +F  
Sbjct: 2   NSEFIEALSEIEREKGISKDLLIDAIEAAMISSYKRNFNTAQNVRVDINRQTGVIRVFAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE+V +   +ISL  AR+ + +  +G +V   + P DFGR+A Q+AKQV+ Q++REA
Sbjct: 62  KTVVEDVLDPRLEISLTAAREINQNYQLGDIVEIEVTPRDFGRIAAQTAKQVVTQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y  F DK  +I++G V+R +  +  VDLG  + V+  +E +  E  + GDRVK+Y
Sbjct: 122 ERGLIYNAFIDKEEDIVTGIVQRQDQRSYYVDLGKVEAVLPLNEVMPTEKFKHGDRVKAY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V    +GPQ++LSRTHP  + +LF +EVPEI++G+V++++V+R+ G R+K+AV S +
Sbjct: 182 ITKVENTTKGPQIILSRTHPGLLKRLFELEVPEIFDGVVEIRSVAREAGFRSKIAVDSRN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVG+CVG +G RVQ +V ELR EKIDIV W   +  +V NAL P+ V +V + ED 
Sbjct: 242 EEVDPVGSCVGPKGLRVQTIVNELRGEKIDIVRWMESTEEYVANALSPSKVLEVNIFEDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
               VIVP  QLSLAIG +GQN RLA++LTGW IDI +E +      +      +    +
Sbjct: 302 KMARVIVPDYQLSLAIGIKGQNARLAAKLTGWKIDIKSETQAEQEFGRPRTSTEEMHQDS 361

Query: 366 INVD 369
           I++D
Sbjct: 362 ISID 365


>gi|297584078|ref|YP_003699858.1| NusA antitermination factor [Bacillus selenitireducens MLS10]
 gi|297142535|gb|ADH99292.1| NusA antitermination factor [Bacillus selenitireducens MLS10]
          Length = 396

 Score =  480 bits (1236), Expect = e-133,   Method: Composition-based stats.
 Identities = 149/373 (39%), Positives = 233/373 (62%), Gaps = 1/373 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E +    ++  +K ID++++L  +  ++    +  + +  ++RV+I+ E+G I +F  
Sbjct: 2   NSEFMDALASIEKDKGIDKEIILEAIEQALITGYKRNFNSAQNVRVDIDRESGQIRVFAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV +   +IS + A+  +P  ++  +V   + P DFGR+A Q+AKQV+ Q+VREA
Sbjct: 62  KTVVEEVFDARLEISQEEAKGINPHYEVDDIVEIEVTPRDFGRIAAQTAKQVVTQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y +F D+  +I++G V+R ++  + VDLG  + ++  +E +  E  R  DR+K++
Sbjct: 122 ERGIIYSDFIDREEDIMTGIVQRQDHRFIYVDLGKVEALMPLNEQMPNETYRHNDRIKAF 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V +  +GPQ+++SR+HP  + +LF +EVPEIY+G V+VK+VSR+ G R+K++V + D
Sbjct: 182 ITKVEKTTKGPQIMISRSHPGLLKRLFELEVPEIYDGTVEVKSVSREAGERSKISVHAED 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVG+CVG RG RVQ +V EL+ EKIDIV WS D   +V NAL P+ V  V+++E+ 
Sbjct: 242 EDIDPVGSCVGQRGQRVQTIVDELKGEKIDIVRWSEDPKVYVSNALSPSKVVDVLVNEEQ 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
               VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E E   +      +  + F   
Sbjct: 302 KMTTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSESEAEESGIYPVADNDEPF-DD 360

Query: 366 INVDEIIAHLLVA 378
              DE +      
Sbjct: 361 EETDEDLPQSFAE 373


>gi|256750788|ref|ZP_05491673.1| NusA antitermination factor [Thermoanaerobacter ethanolicus CCSD1]
 gi|256750371|gb|EEU63390.1| NusA antitermination factor [Thermoanaerobacter ethanolicus CCSD1]
          Length = 346

 Score =  480 bits (1236), Expect = e-133,   Method: Composition-based stats.
 Identities = 152/341 (44%), Positives = 227/341 (66%), Gaps = 1/341 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E ++  +++  EK I +D +   +  ++  A +  YG+  + ++ ++ ETGD+ ++  
Sbjct: 2   NTEFIEALNSICEEKGIPKDTMFEAIEAALVSAYKKNYGSSQNAKIVMDRETGDVKVYAQ 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV N   +ISL+ AR  +    IG +V   + P +FGR+A Q+AKQV+IQ++R+A
Sbjct: 62  KTVVEEVYNDLLEISLEEARKINKKYQIGDIVDIEVTPKNFGRIAAQTAKQVVIQRIRKA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  Y EF  K  E+++G V +V+  NV+++LG  + ++   E I  E   PGDRVK Y
Sbjct: 122 ERNVIYEEFLSKETEVVTGIVTKVDKKNVLINLGRVEAILSPAEQIPGETFAPGDRVKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V++  +GPQ+L+SR+HP  + +LF +E PEI  GIV++++++R+ GSR K+AVFS D
Sbjct: 182 IVEVKKTTKGPQILISRSHPGLVKRLFELESPEIQQGIVEIRSIAREAGSRTKMAVFSRD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
            ++DPVGACVG +G+RVQAVV EL+ EKIDIV WS     F++NAL PA    + +LDE 
Sbjct: 242 ENVDPVGACVGYKGARVQAVVNELKGEKIDIVKWSSKPQEFIMNALSPAKALSIEILDEK 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
                VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E 
Sbjct: 302 EKVARVIVPDYQLSLAIGKEGQNARLAAKLTGWRIDIKSES 342


>gi|315282175|ref|ZP_07870640.1| transcription termination factor NusA [Listeria marthii FSL S4-120]
 gi|313614179|gb|EFR87858.1| transcription termination factor NusA [Listeria marthii FSL S4-120]
          Length = 372

 Score =  480 bits (1236), Expect = e-133,   Method: Composition-based stats.
 Identities = 147/338 (43%), Positives = 223/338 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     + ++K I R+V++  +  ++  A +  +    ++RV++N E G I +    E
Sbjct: 4   ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VE+V +   +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  AVEQVFDSRLEISMEEAHKLNPVYQPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y+ 
Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++++  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTANEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E    
Sbjct: 244 VDPVGACVGPKGARVQTIVNELKGEKIDIVEWSDDPFTFVANALSPSKVLDVIVNEADQA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E 
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSET 341


>gi|289578389|ref|YP_003477016.1| transcription termination factor NusA [Thermoanaerobacter italicus
           Ab9]
 gi|297544665|ref|YP_003676967.1| transcription termination factor NusA [Thermoanaerobacter mathranii
           subsp. mathranii str. A3]
 gi|289528102|gb|ADD02454.1| transcription termination factor NusA [Thermoanaerobacter italicus
           Ab9]
 gi|296842440|gb|ADH60956.1| transcription termination factor NusA [Thermoanaerobacter mathranii
           subsp. mathranii str. A3]
          Length = 346

 Score =  479 bits (1235), Expect = e-133,   Method: Composition-based stats.
 Identities = 155/341 (45%), Positives = 226/341 (66%), Gaps = 1/341 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E ++  +++  EK I +D +   +  ++  A +  YG+  + ++ ++ ETGD+ ++  
Sbjct: 2   NTEFIEALNSICEEKGIPKDTMFEAIEAALVSAYKKNYGSSQNAKIVMDRETGDVKVYAQ 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV N   +ISL+ AR  +    IG +V   + P +FGR+A Q+AKQV+IQ++REA
Sbjct: 62  KTVVEEVYNDLLEISLEEARKINKKYQIGDIVDIEVTPKNFGRIAAQTAKQVVIQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  Y EF  K  E+I+G V R +  NV+++LG  + ++   E I  E   PGDRVK Y
Sbjct: 122 ERNVIYEEFLSKETEVITGIVTRADKKNVLINLGRVEAILGPAEQIPGETFAPGDRVKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V++  +GPQ+L+SR+HP  + +LF +E PEI  GIV++++++R+ GSR K+AVFS D
Sbjct: 182 IVEVKKTTKGPQILISRSHPGLVKRLFELESPEIQQGIVEIRSIAREAGSRTKMAVFSRD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
            ++DPVGACVG +G+RVQAVV EL+ EKIDIV WS     F+INAL PA    + +LDE 
Sbjct: 242 ENVDPVGACVGYKGARVQAVVNELKGEKIDIVKWSSKPQEFIINALSPARALSIEILDEK 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
                VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E 
Sbjct: 302 EKVARVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSES 342


>gi|116748667|ref|YP_845354.1| transcription elongation factor NusA [Syntrophobacter fumaroxidans
           MPOB]
 gi|116697731|gb|ABK16919.1| NusA antitermination factor [Syntrophobacter fumaroxidans MPOB]
          Length = 449

 Score =  479 bits (1234), Expect = e-133,   Method: Composition-based stats.
 Identities = 179/429 (41%), Positives = 264/429 (61%), Gaps = 4/429 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL ++ D V+ EK IDR  ++  + ++I+ A +  YGT  D+ V  N E G++  F+  E
Sbjct: 4   ELKRLIDQVSREKGIDRQTLIHTLEEAIKSAIKKKYGTRQDLDVTYNEEYGELEAFQFKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE V +   Q+SL  A   DP  +IG  +   +     GR+A QSAKQVIIQK+++AER
Sbjct: 64  VVETVTDPDKQVSLAEAIKLDPESEIGDELGIRMDTETLGRIAAQSAKQVIIQKMKDAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EFK + GEI  G V+RV+   ++V++G ++ ++   E I RE  R GDRV++Y+ 
Sbjct: 124 EVVYEEFKSRKGEIAHGVVQRVDKSGIVVNMGQAEAILPPKEQIPREVFRQGDRVRAYVL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           DV++  +GPQ++LSRTHP F+++LFH EVPEI  GIV + + +R+PGSRAK+AV S  + 
Sbjct: 184 DVKKISKGPQIVLSRTHPHFLIQLFHGEVPEIVEGIVSIISAAREPGSRAKIAVISKATD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGM+G+RVQ VV ELR EKIDIV W+ D A FV+NAL PAI++KV++D+    
Sbjct: 244 VDPVGACVGMKGTRVQNVVQELRGEKIDIVPWNMDPAKFVVNALAPAIISKVIIDQANRS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           +EVIVP +QLSLAIG++GQNVRLAS+LT W ID+  E       ++      Q  ++   
Sbjct: 304 MEVIVPDDQLSLAIGKKGQNVRLASRLTNWRIDVKNES----RHERQKQTGYQSMLRING 359

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           +   +A  L   G   ++E      SE+  +         E++  A   +   + T +  
Sbjct: 360 LTAQLADRLYEAGITSLQEFIDASGSELEELTQLAGPVIEEMKAEAGRLVLENETTAEAA 419

Query: 428 IRELGVSEE 436
                  ++
Sbjct: 420 SEGNETQQD 428


>gi|85860522|ref|YP_462724.1| transcription elongation factor NusA [Syntrophus aciditrophicus SB]
 gi|85723613|gb|ABC78556.1| transcription elongation factor [Syntrophus aciditrophicus SB]
          Length = 420

 Score =  479 bits (1234), Expect = e-133,   Method: Composition-based stats.
 Identities = 177/419 (42%), Positives = 271/419 (64%), Gaps = 5/419 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL ++ + +  ++ +D+ V++  +  ++  AAR   G   DI    N E G+I +F+   
Sbjct: 4   ELKRLIEQMGKDRGLDKSVIIEALETAMLTAARKKLGAHVDIEAHYNDELGEIEVFQFKT 63

Query: 68  VVEEVENYTCQISLKVA-RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           VVE+V +   QIS++ A RD D   + G  +   +    FGR+AVQ+AKQ+I+Q+V++AE
Sbjct: 64  VVEKVVDPDMQISIEAAHRDLDEEAEPGDSLGMKIDASTFGRIAVQTAKQIIVQRVKDAE 123

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           RD  Y E+KD+ GE+++G V+R E G++IV+LG ++GVI   E I RE  + GDR++SYI
Sbjct: 124 RDNVYDEYKDRKGELVNGFVQRFEAGSIIVNLGRAEGVIPVSEQIHREVYKRGDRIRSYI 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V++  +GPQ++LSRTHP F+  LF +EVPEI  G+++V  V+R+PG RAK+AV + D 
Sbjct: 184 CEVKKVSKGPQIILSRTHPNFLKALFEVEVPEIAEGLIEVLGVAREPGKRAKIAVRTKDK 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            IDPVGACVGMRG+RVQ+VV ELR EKIDI+ +S D + +VI+AL PA V+ V + E+  
Sbjct: 244 DIDPVGACVGMRGARVQSVVQELRGEKIDIIPYSEDPSQYVISALSPAKVSHVTVYENEH 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            +EV+VP +QLSLAIG+ GQNVRLA +LTGW ID+ +E  D+ +   D+    +  ++  
Sbjct: 304 AMEVVVPDDQLSLAIGKNGQNVRLAVKLTGWKIDVKSESVDAGSENADY----RTLLKIP 359

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
            ++E +A  L  +G   V  +A      +++I G +E TA      A   ++  D   +
Sbjct: 360 GMEEAMAERLFNKGLKSVAMVAAADPEMLSAIPGVEERTATLWIEEAGRIIDEEDAASK 418


>gi|16803362|ref|NP_464847.1| transcription elongation factor NusA [Listeria monocytogenes EGD-e]
 gi|224501735|ref|ZP_03670042.1| transcription elongation factor NusA [Listeria monocytogenes FSL
           R2-561]
 gi|16410738|emb|CAC99400.1| nusA [Listeria monocytogenes EGD-e]
          Length = 372

 Score =  479 bits (1233), Expect = e-133,   Method: Composition-based stats.
 Identities = 147/338 (43%), Positives = 223/338 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     + ++K I R+V++  +  ++  A +  +    ++RV++N E G I +    E
Sbjct: 4   ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VE+V +   +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  AVEQVFDSRLEISMEEAHKLNPVYQPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y+ 
Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++++  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTANEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E    
Sbjct: 244 VDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEADQA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E 
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSET 341


>gi|310641593|ref|YP_003946351.1| transcription elongation factor-like protein [Paenibacillus
           polymyxa SC2]
 gi|309246543|gb|ADO56110.1| Transcription elongation factor-like protein [Paenibacillus
           polymyxa SC2]
          Length = 365

 Score =  479 bits (1233), Expect = e-133,   Method: Composition-based stats.
 Identities = 144/364 (39%), Positives = 231/364 (63%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            ++ ++  + +  EK I +DV+   +  ++  + +  + T  ++RV++N  +G I ++  
Sbjct: 2   SMDFIEAMNELEREKGISKDVLFEAIEAALISSYKRNFNTAQNVRVDMNRNSGVIKVYAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEV +   +ISL  AR+ +P   +  V    + P DFGR+A Q+AKQV+ Q++REA
Sbjct: 62  KLIVEEVLDPRTEISLPAAREINPHFQLEDVAEIEVTPRDFGRIAAQTAKQVVTQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y +F DK  +I++GTV+R +  N+ +DLG  + V+   E +  E     DR+K+Y
Sbjct: 122 ERGLIYNKFVDKEEDIVTGTVQRQDPRNIYIDLGKVEAVLPLSELMPNEKFNHLDRIKAY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V    +GPQ++LSR+HP  + +LF +EVPEI++G+V++++V+R+ G R+K+AV S +
Sbjct: 182 ITKVENTTKGPQIMLSRSHPGLLKRLFELEVPEIFDGVVEIRSVAREAGFRSKIAVHSRN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           + +DPVG+CVG RG+RVQ +V ELR EKIDIV +S +   +V NAL P+ V +V + E+ 
Sbjct: 242 AEVDPVGSCVGPRGTRVQTIVNELRGEKIDIVRYSDNVDEYVANALSPSKVLEVQVFEEE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
               VIVP  QLSLAIG +GQN RLA++LTGW IDI +E +      +      +    +
Sbjct: 302 KMARVIVPDYQLSLAIGIKGQNARLAAKLTGWKIDIKSETQAEEELGRPRTSTDEMHQDS 361

Query: 366 INVD 369
           ++VD
Sbjct: 362 VSVD 365


>gi|167040285|ref|YP_001663270.1| transcription elongation factor NusA [Thermoanaerobacter sp. X514]
 gi|300914369|ref|ZP_07131685.1| transcription termination factor NusA [Thermoanaerobacter sp. X561]
 gi|307724395|ref|YP_003904146.1| transcription termination factor NusA [Thermoanaerobacter sp. X513]
 gi|166854525|gb|ABY92934.1| NusA antitermination factor [Thermoanaerobacter sp. X514]
 gi|300889304|gb|EFK84450.1| transcription termination factor NusA [Thermoanaerobacter sp. X561]
 gi|307581456|gb|ADN54855.1| transcription termination factor NusA [Thermoanaerobacter sp. X513]
          Length = 346

 Score =  479 bits (1233), Expect = e-133,   Method: Composition-based stats.
 Identities = 154/341 (45%), Positives = 228/341 (66%), Gaps = 1/341 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E ++  +++  EK I +D +   +  ++  A +  YGT  ++++ ++ ETGD+ ++  
Sbjct: 2   NAEFIEALNSICEEKGIPKDTMFEAIEAALVSAYKKNYGTSQNVKIVMDRETGDVKVYAQ 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV N   +ISL+ AR  +    IG +V   + P +FGR+A Q+AKQV+IQ++REA
Sbjct: 62  KTVVEEVYNDLLEISLEEARKINKKYQIGDIVDIEVTPKNFGRIAAQNAKQVVIQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  Y EF  K  E+++G V +V+  NV+++LG  + ++   E I  E   PGDRVK Y
Sbjct: 122 ERNVIYEEFLAKETEVVTGIVTKVDKKNVLINLGRVEAILSPAEQIPGETFAPGDRVKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V++  +GPQ+L+SR+HP  + +LF +E PEI  GIV++++++R+ GSR K+AVFS D
Sbjct: 182 IVEVKKTTKGPQILISRSHPGLVKRLFELESPEIQQGIVEIRSIAREAGSRTKMAVFSRD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
            ++DPVGACVG +G+RVQAVV EL+ EKIDIV WS     F++NAL PA    + +LDE 
Sbjct: 242 ENVDPVGACVGYKGARVQAVVNELKGEKIDIVKWSSKPQEFIMNALSPAKALSIEILDEK 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
                VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E 
Sbjct: 302 EKVARVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSES 342


>gi|229191985|ref|ZP_04318955.1| Transcription elongation protein nusA [Bacillus cereus ATCC 10876]
 gi|228591536|gb|EEK49385.1| Transcription elongation protein nusA [Bacillus cereus ATCC 10876]
          Length = 368

 Score =  478 bits (1232), Expect = e-133,   Method: Composition-based stats.
 Identities = 150/379 (39%), Positives = 229/379 (60%), Gaps = 17/379 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NPE G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPEVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V++ ++ 
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVYAENTD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ +V EL+ EKIDIV WS D   +V NAL P+ V KV++DE+   
Sbjct: 244 VDPVGSCVGPKGQRVQRIVDELKGEKIDIVRWSNDPVEYVANALSPSQVVKVLVDEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +          +R   F     
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGIVTEEDRVIAF----- 358

Query: 368 VDEIIAHLLVAEGFADVEE 386
                       GF  VE+
Sbjct: 359 ------------GFDSVED 365


>gi|158523046|ref|YP_001530916.1| transcription elongation factor NusA [Desulfococcus oleovorans
           Hxd3]
 gi|158511872|gb|ABW68839.1| NusA antitermination factor [Desulfococcus oleovorans Hxd3]
          Length = 475

 Score =  478 bits (1232), Expect = e-133,   Method: Composition-based stats.
 Identities = 182/425 (42%), Positives = 263/425 (61%), Gaps = 4/425 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++ ++ + V+ +K IDRD ++  + ++I+ AAR  YG   DI    + +TG+I +F+  E
Sbjct: 5   DVKRVVEQVSRDKGIDRDTLVKALEEAIKSAARKRYGAAIDIETMYDEDTGEIEIFQFKE 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE V++   QI+    R  DP  ++G  +   +    FGR+A QSAKQVIIQK+REAER
Sbjct: 65  VVETVQDPDLQITFVEGRALDPECELGDSLGVKMDTQSFGRIAAQSAKQVIIQKMREAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y  F +K GEII+G V R+E GNVIV++G ++ ++   E I  E  R GDRV++ + 
Sbjct: 125 SAVYKNFVEKEGEIINGIVSRMERGNVIVNIGEAEAILNSREQIPGEGYRRGDRVRANVM 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V  E  GPQ++LSR HP F+V LF  EVPEI  GI+ +KA++R+ G R K+AV S+D  
Sbjct: 185 KVLEETAGPQIILSRAHPDFVVNLFKTEVPEISEGIITIKAIAREAGGRTKIAVVSNDMD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVGACVG+RG+R+Q VV EL+ EKIDIV W+PD A FV NAL PA + +V++DED   
Sbjct: 245 IDPVGACVGVRGNRIQNVVKELKGEKIDIVPWNPDPAKFVCNALSPAEIARVIIDEDNAA 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           +E+IVP E  SLAIGRRGQNVRLAS+LTGW +D+ +E        +         +Q   
Sbjct: 305 MEIIVPDESHSLAIGRRGQNVRLASKLTGWHLDVQSES----IYTQAMERGYDTLLQIPG 360

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           VD  +A+ L   GF   ++++   + ++  +EG DE +A  +   A +  E        +
Sbjct: 361 VDGSLANALCEVGFFSADDISGAAVDDLIELEGIDEASAKALIRDAVKVAEQAAREQAIR 420

Query: 428 IRELG 432
            +   
Sbjct: 421 EKAAK 425


>gi|150390438|ref|YP_001320487.1| NusA antitermination factor [Alkaliphilus metalliredigens QYMF]
 gi|149950300|gb|ABR48828.1| NusA antitermination factor [Alkaliphilus metalliredigens QYMF]
          Length = 346

 Score =  478 bits (1232), Expect = e-133,   Method: Composition-based stats.
 Identities = 148/341 (43%), Positives = 232/341 (68%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            LE ++  + +  +K I RDV+   +  ++  + +  +G+  ++RVE+  +TGD+ ++  
Sbjct: 2   SLEFIEALEQIEKDKGISRDVLFDALEAALISSYKRNFGSAVNVRVEMLRDTGDVHVYSQ 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            +VVE VE+   +I++  A++ DP+  +  +V   + P +FGR+A Q+AKQV++Q++REA
Sbjct: 62  KKVVEVVEDDLLEINIDEAKEIDPNYALDDIVEKQVTPRNFGRIAAQTAKQVVVQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF ++  EII+GTV RV  GNV ++LG ++ ++  +E I  E     DR+K+Y
Sbjct: 122 ERGIVYEEFINRESEIITGTVSRVAKGNVYINLGKTEAILGPNEQIPNEVYNHADRIKTY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V+   +GPQ+ +SRTHP  + +LF +EVPEI++G+V+VK++SR+ GSR K+AVFS D
Sbjct: 182 IVEVKNTTKGPQIHVSRTHPGLVKRLFELEVPEIHDGVVEVKSISREAGSRTKIAVFSID 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVGACVG +GSRVQ +V EL+ EKIDI+ +S +   F+ N+L PA V    ++ + 
Sbjct: 242 ENVDPVGACVGPKGSRVQMIVDELKGEKIDIIKYSEEPKEFISNSLSPAKVLNARVNPED 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E +
Sbjct: 302 KTARVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQ 342


>gi|206972659|ref|ZP_03233600.1| N utilization substance protein A [Bacillus cereus AH1134]
 gi|218235265|ref|YP_002368617.1| transcription elongation factor NusA [Bacillus cereus B4264]
 gi|228922570|ref|ZP_04085870.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar huazhongensis BGSC 4BD1]
 gi|228954092|ref|ZP_04116121.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar kurstaki str. T03a001]
 gi|228960032|ref|ZP_04121696.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar pakistani str. T13001]
 gi|229047502|ref|ZP_04193092.1| Transcription elongation protein nusA [Bacillus cereus AH676]
 gi|229071314|ref|ZP_04204537.1| Transcription elongation protein nusA [Bacillus cereus F65185]
 gi|229081071|ref|ZP_04213581.1| Transcription elongation protein nusA [Bacillus cereus Rock4-2]
 gi|229111287|ref|ZP_04240840.1| Transcription elongation protein nusA [Bacillus cereus Rock1-15]
 gi|229146387|ref|ZP_04274758.1| Transcription elongation protein nusA [Bacillus cereus BDRD-ST24]
 gi|229152015|ref|ZP_04280210.1| Transcription elongation protein nusA [Bacillus cereus m1550]
 gi|229180092|ref|ZP_04307436.1| Transcription elongation protein nusA [Bacillus cereus 172560W]
 gi|296504311|ref|YP_003666011.1| transcription elongation factor NusA [Bacillus thuringiensis
           BMB171]
 gi|206732416|gb|EDZ49597.1| N utilization substance protein A [Bacillus cereus AH1134]
 gi|218163222|gb|ACK63214.1| N utilization substance protein A [Bacillus cereus B4264]
 gi|228603301|gb|EEK60778.1| Transcription elongation protein nusA [Bacillus cereus 172560W]
 gi|228631364|gb|EEK87998.1| Transcription elongation protein nusA [Bacillus cereus m1550]
 gi|228637020|gb|EEK93479.1| Transcription elongation protein nusA [Bacillus cereus BDRD-ST24]
 gi|228672063|gb|EEL27354.1| Transcription elongation protein nusA [Bacillus cereus Rock1-15]
 gi|228702115|gb|EEL54591.1| Transcription elongation protein nusA [Bacillus cereus Rock4-2]
 gi|228711768|gb|EEL63720.1| Transcription elongation protein nusA [Bacillus cereus F65185]
 gi|228723749|gb|EEL75104.1| Transcription elongation protein nusA [Bacillus cereus AH676]
 gi|228799548|gb|EEM46501.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar pakistani str. T13001]
 gi|228805658|gb|EEM52248.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar kurstaki str. T03a001]
 gi|228836999|gb|EEM82340.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar huazhongensis BGSC 4BD1]
 gi|296325363|gb|ADH08291.1| transcription elongation factor NusA [Bacillus thuringiensis
           BMB171]
          Length = 368

 Score =  478 bits (1231), Expect = e-132,   Method: Composition-based stats.
 Identities = 151/379 (39%), Positives = 231/379 (60%), Gaps = 17/379 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NPE G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPEVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V++ ++ 
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVYAENTD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ +V EL+ EKIDIV WS D   +V NAL P+ V KV++DE+   
Sbjct: 244 VDPVGSCVGPKGQRVQRIVDELKGEKIDIVRWSNDPVEYVANALSPSQVVKVLVDEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +                     
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGI--------------- 348

Query: 368 VDEIIAHLLVAEGFADVEE 386
           V E     ++A GF  VE+
Sbjct: 349 VTEE--DSVIAFGFDSVED 365


>gi|56963996|ref|YP_175727.1| transcription elongation factor NusA [Bacillus clausii KSM-K16]
 gi|56910239|dbj|BAD64766.1| transcriptional elongation protein [Bacillus clausii KSM-K16]
          Length = 368

 Score =  478 bits (1231), Expect = e-132,   Method: Composition-based stats.
 Identities = 148/344 (43%), Positives = 220/344 (63%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E ++    +  +K I ++V++  +  ++    +  +G   ++RV++N + G I +F  
Sbjct: 2   NSEFMEALSTLEADKGIKKEVIIEAIEAALISGYKRNFGQAQNVRVDVNRDNGSIRVFAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV +   +IS   A+  +P  ++  +V   + P DFGR+A Q+AKQV+ Q+VREA
Sbjct: 62  KVVVEEVFDKRLEISEAEAQRINPHYEVDDIVEIEVTPKDFGRIAAQTAKQVVTQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y +F D+  +I++G V+R ++  + VDLG  + ++   E +  E  +  DR+K+Y
Sbjct: 122 ERGIIYSDFIDREEDIMNGIVQRQDHRFIYVDLGKVEALLPLSEQMPNETYKHNDRIKAY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V +  +GPQ+L+SRTHP  + +LF +EVPEIY+G V++K+VSR+ G R+K+AV S +
Sbjct: 182 ITKVEKTTKGPQILISRTHPGLLKRLFELEVPEIYDGTVEIKSVSREAGDRSKIAVHSDN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +D VGACVG RG RVQ +V EL+ EKIDIV WS D   +V NAL PA V KV + E  
Sbjct: 242 PEVDSVGACVGQRGQRVQTIVDELKGEKIDIVEWSEDPVVYVANALSPAKVMKVNVLEGE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
              +VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E E   
Sbjct: 302 KMTQVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSESEARE 345


>gi|228966761|ref|ZP_04127805.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar sotto str. T04001]
 gi|228792860|gb|EEM40418.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar sotto str. T04001]
          Length = 368

 Score =  478 bits (1231), Expect = e-132,   Method: Composition-based stats.
 Identities = 153/379 (40%), Positives = 229/379 (60%), Gaps = 17/379 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NPE G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPEVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V + +  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVHAENID 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ VV EL+ EKIDIV WS D   +V NAL P+ V KV++DED   
Sbjct: 244 VDPVGSCVGPKGQRVQRVVDELKGEKIDIVRWSNDPVEYVANALSPSQVVKVLVDEDEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +                     
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGI--------------- 348

Query: 368 VDEIIAHLLVAEGFADVEE 386
           V E     ++A GF  VE+
Sbjct: 349 VTEE--DSVIAFGFDSVED 365


>gi|251797400|ref|YP_003012131.1| NusA antitermination factor [Paenibacillus sp. JDR-2]
 gi|247545026|gb|ACT02045.1| NusA antitermination factor [Paenibacillus sp. JDR-2]
          Length = 365

 Score =  478 bits (1231), Expect = e-132,   Method: Composition-based stats.
 Identities = 141/364 (38%), Positives = 227/364 (62%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            ++ ++    +  +K I ++V+L  +  ++  + +  +    ++RV+IN  +G I ++  
Sbjct: 2   SMDFIEALSEIERDKGIAKEVLLEAIEAALISSYKRNFNAAQNVRVDINRHSGVIKVYAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV +   +I++  +R+ +P   +  +    + P DFGR+A Q+AKQV+ Q++REA
Sbjct: 62  KTVVDEVLDPRLEITVDASREINPHYQLDDIADIEVTPRDFGRIAAQTAKQVVTQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y  F DK  +I++G V+R +  N+ VDLG  + V+   E +  +  + GDRVKSY
Sbjct: 122 ERGLIYNAFIDKEEDIVNGIVQRQDTRNLFVDLGKVEAVLPLTELMPTDKFKHGDRVKSY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V    +GPQ++LSRTHP  + +LF +EVPEIY+G+V++++V+R+ G R+K+AV+S +
Sbjct: 182 ITKVENTTKGPQIILSRTHPGLLKRLFELEVPEIYDGVVEIRSVAREAGFRSKIAVYSRN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVG+CVG +G RVQ +V EL  EKIDIV WS     +V NAL P+ V +V++ E  
Sbjct: 242 EEVDPVGSCVGPKGMRVQTIVNELTGEKIDIVRWSESVEEYVANALSPSKVLEVIVFEQE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
               VIVP  QLSLAIG +GQN RLA++LTGW IDI +E +      +     +     +
Sbjct: 302 KMARVIVPDYQLSLAIGIKGQNARLAAKLTGWKIDIKSETQAEQEYGRPKTTASTMHQDS 361

Query: 366 INVD 369
           +++D
Sbjct: 362 VSID 365


>gi|299534743|ref|ZP_07048073.1| transcription elongation factor NusA [Lysinibacillus fusiformis
           ZC1]
 gi|298729831|gb|EFI70376.1| transcription elongation factor NusA [Lysinibacillus fusiformis
           ZC1]
          Length = 379

 Score =  478 bits (1231), Expect = e-132,   Method: Composition-based stats.
 Identities = 156/371 (42%), Positives = 237/371 (63%), Gaps = 2/371 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +LL   +A+  +K I RDV++  +  ++  A +  +    ++RV++N + G I +F   +
Sbjct: 4   DLLDALNALEEQKGISRDVLIEAIEAALVTAYKRNFNQAQNVRVDLNLDKGSIRVFSRKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+   QISL+ A+  +P+  +  +V   + P +FGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVEEVEDDRLQISLEDAKVINPAYQLEDIVEQEVTPRNFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y ++ D+  +I++G V+R++  N+ V LG  +  +  +E I  E+  P DR+K YI 
Sbjct: 124 GLIYEQYVDREDDIVTGVVERLDARNIYVGLGKVEAALPVNEQIQGESYHPHDRIKVYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V R  RGPQV++SRTHP  + +LF MEVPEIY GIV++K+++R+ G R+K++VF+ +  
Sbjct: 184 KVERTTRGPQVIVSRTHPGLLRRLFEMEVPEIYEGIVEIKSIAREAGDRSKISVFAHNEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G+RVQ +V EL  EKIDIV WS D   FV NAL P+ V  V ++E+   
Sbjct: 244 VDPVGSCVGAKGARVQTIVNELNGEKIDIVEWSEDPVIFVANALSPSKVLDVQVNEEEKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +        +   T  F+ A +
Sbjct: 304 TTVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDARELGI--YPSATSTFIPADD 361

Query: 368 VDEIIAHLLVA 378
            +     + V 
Sbjct: 362 EESDFDDVAVD 372


>gi|169827165|ref|YP_001697323.1| transcription elongation factor NusA [Lysinibacillus sphaericus
           C3-41]
 gi|168991653|gb|ACA39193.1| Transcription elongation protein [Lysinibacillus sphaericus C3-41]
          Length = 379

 Score =  478 bits (1230), Expect = e-132,   Method: Composition-based stats.
 Identities = 155/371 (41%), Positives = 237/371 (63%), Gaps = 2/371 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +LL   +A+  +K I RDV++  +  ++  A +  +    ++RV++N + G I +F   +
Sbjct: 4   DLLDALNALEEQKGISRDVLIEAIEAALVTAYKRNFNQAQNVRVDLNLDKGSIRVFSRKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+   QISL+ A+  +P+  +  +V   + P +FGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVEEVEDDRLQISLEDAKVINPAYQLEDIVEQEVTPRNFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y ++ D+  +I++G V+R++  N+ V LG  +  +  +E I  E   P DR+K YI 
Sbjct: 124 GLIYEQYVDREDDIVTGVVERLDARNIYVGLGKVEAALPVNEQIQGETYHPHDRIKVYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V R  RGPQV++SRTHP  + +LF MEVPEIY GIV++K+++R+ G R+K++V++ +  
Sbjct: 184 KVERTTRGPQVIVSRTHPGLLRRLFEMEVPEIYEGIVEIKSIAREAGDRSKISVYAHNEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G+RVQ +V EL  EKIDIV WS D   FV NAL P+ V  V ++E+   
Sbjct: 244 VDPVGSCVGAKGARVQTIVNELNGEKIDIVEWSEDPVVFVANALSPSKVLDVQVNEEEKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +        +   T  F+ A++
Sbjct: 304 TTVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDARELGI--YPSATSTFVPAVD 361

Query: 368 VDEIIAHLLVA 378
            +     + V 
Sbjct: 362 EESDFEEVAVD 372


>gi|126652571|ref|ZP_01724736.1| transcription elongation factor NusA [Bacillus sp. B14905]
 gi|126590699|gb|EAZ84815.1| transcription elongation factor NusA [Bacillus sp. B14905]
          Length = 379

 Score =  477 bits (1229), Expect = e-132,   Method: Composition-based stats.
 Identities = 156/371 (42%), Positives = 237/371 (63%), Gaps = 2/371 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +LL   +A+  +K I RDV++  +  ++  A +  +    ++RV++N + G I +F   +
Sbjct: 4   DLLDALNALEEQKGISRDVLIEAIEAALVTAYKRNFNQAQNVRVDLNLDKGSIRVFSRKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+   QISL+ A+  +P+  +  +V   + P +FGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVEEVEDDRLQISLEDAKVINPAYQLEDIVEQEVTPRNFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y ++ D+  +I++G V+R++  N+ V LG  +  +  +E I  E  RP DR+K YI 
Sbjct: 124 GLIYEQYVDREDDIVTGVVERLDARNIYVGLGKVEAALPVNEQIQGETYRPHDRIKVYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V R  RGPQV++SRTHP  + +LF MEVPEIY GIV++K+++R+ G R+K++V++ +  
Sbjct: 184 KVERTTRGPQVIVSRTHPGLLRRLFEMEVPEIYEGIVEIKSIAREAGDRSKISVYAHNEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G+RVQ +V EL  EKIDIV WS D   FV NAL P+ V  V ++E+   
Sbjct: 244 VDPVGSCVGAKGARVQTIVNELNGEKIDIVEWSEDPVVFVANALSPSKVLDVQVNEEEKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +        +   T  F+ A +
Sbjct: 304 TTVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDARELGI--YPSATSTFVPAED 361

Query: 368 VDEIIAHLLVA 378
            +     + V 
Sbjct: 362 EESDFDEVAVD 372


>gi|228935130|ref|ZP_04097957.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar andalousiensis BGSC 4AW1]
 gi|228824495|gb|EEM70300.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar andalousiensis BGSC 4AW1]
          Length = 368

 Score =  477 bits (1229), Expect = e-132,   Method: Composition-based stats.
 Identities = 151/379 (39%), Positives = 229/379 (60%), Gaps = 17/379 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NP+ G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPQVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V + +  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVHAENID 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ +V EL+ EKIDIV WS D   +V NAL P+ V KV++DE+   
Sbjct: 244 VDPVGSCVGPKGQRVQRIVDELKGEKIDIVRWSNDPVEYVANALSPSQVLKVLVDEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +                     
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGI--------------- 348

Query: 368 VDEIIAHLLVAEGFADVEE 386
           V E     +VA GF  VE+
Sbjct: 349 VTEE--DSVVAFGFDSVED 365


>gi|320530108|ref|ZP_08031178.1| transcription termination factor NusA [Selenomonas artemidis F0399]
 gi|320137541|gb|EFW29453.1| transcription termination factor NusA [Selenomonas artemidis F0399]
          Length = 379

 Score =  477 bits (1229), Expect = e-132,   Method: Composition-based stats.
 Identities = 157/367 (42%), Positives = 233/367 (63%), Gaps = 4/367 (1%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
            E LQ    +AYEK ID +++   +  ++  A R  +G+  ++R+ ++ ETG   +F + 
Sbjct: 13  KEFLQTLKELAYEKGIDEELLFETIEAALISAYRRNFGSAQNVRIALSRETGAFHVFAIK 72

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VVEE E+    ISL  A   +P   +G VV   + P +FGR+A Q+AKQV++Q++REAE
Sbjct: 73  TVVEEAESGVTDISLAQAHAINPDYQVGDVVEIEMTPANFGRIAAQTAKQVVMQRLREAE 132

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R   Y  + ++  +I++G V+R+E  +V VD+G ++ V+   E I  E    GD +++YI
Sbjct: 133 RGIVYEAYMNRSADIVTGIVQRIEGRSVYVDIGKAEAVLMPTEQIPGETYNYGDTIRAYI 192

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V+R  RGPQ++LSRTHP  + KLF ++VPEI  GIV++KA++R+ GSR+K+AV S++ 
Sbjct: 193 IEVKRSPRGPQIMLSRTHPGLLKKLFELQVPEIQEGIVEIKAIAREAGSRSKVAVHSTEE 252

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DP+GACVG    RVQAVV EL  EKIDIV WS D AT++ N+L PA V  V + E   
Sbjct: 253 RVDPIGACVGPHFMRVQAVVDELAGEKIDIVKWSEDPATYIANSLNPAKVISVAVSETEK 312

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
              V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E + +    ++ N      +  I
Sbjct: 313 LSRVVVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQAA----QEENGGVPEPVDDI 368

Query: 367 NVDEIIA 373
           +  E  A
Sbjct: 369 DAAETSA 375


>gi|296113981|ref|YP_003627919.1| transcription termination/antitermination protein NusA [Moraxella
           catarrhalis RH4]
 gi|295921675|gb|ADG62026.1| transcription termination/antitermination protein NusA [Moraxella
           catarrhalis RH4]
 gi|326559307|gb|EGE09734.1| transcription elongation factor NusA [Moraxella catarrhalis 7169]
 gi|326564317|gb|EGE14547.1| transcription elongation factor NusA [Moraxella catarrhalis
           103P14B1]
 gi|326565082|gb|EGE15275.1| transcription elongation factor NusA [Moraxella catarrhalis
           46P47B1]
 gi|326567250|gb|EGE17370.1| transcription elongation factor NusA [Moraxella catarrhalis
           12P80B1]
 gi|326568244|gb|EGE18326.1| transcription elongation factor NusA [Moraxella catarrhalis BC8]
 gi|326569945|gb|EGE19992.1| transcription elongation factor NusA [Moraxella catarrhalis BC1]
 gi|326570023|gb|EGE20069.1| transcription elongation factor NusA [Moraxella catarrhalis BC7]
 gi|326572881|gb|EGE22866.1| transcription elongation factor NusA [Moraxella catarrhalis CO72]
 gi|326573671|gb|EGE23629.1| transcription elongation factor NusA [Moraxella catarrhalis O35E]
 gi|326574706|gb|EGE24642.1| transcription elongation factor NusA [Moraxella catarrhalis
           101P30B1]
          Length = 493

 Score =  477 bits (1229), Expect = e-132,   Method: Composition-based stats.
 Identities = 186/513 (36%), Positives = 288/513 (56%), Gaps = 30/513 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS---DIRVEINPETGDISLFR 64
           E+L + + V+ EK ++ + +   +  ++  + +    T      IRV I+ +TG+   FR
Sbjct: 4   EILTVVETVSNEKGLNPEDIFEAIEQALVVSTKKKVYTEQPEVAIRVHIDRKTGNYDTFR 63

Query: 65  LLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VV  E+ E   CQ+++    +      IG V  + +  ++FGR+A   AKQVIIQK+
Sbjct: 64  YWTVVADEDHEMPACQLAISDLDEN--EWQIGDVKEEQIESIEFGRIAATQAKQVIIQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           REAER      F+ ++G++ISG +K+      IVDLG   +G + +D+T+ RE LR   R
Sbjct: 122 REAERALVADAFESRIGDLISGEIKKQSRDAYIVDLGEGGEGYLAKDQTLPRETLRVKSR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V + +  V R+ R PQ++LSRT  + ++ L + EVPEI   I++++ V+R PG RAK++V
Sbjct: 182 VSAILSQVNRDGRSPQLMLSRTSNEMLIALMNKEVPEISEQIIEIRDVARLPGLRAKISV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID++VW+ D A ++I+AL PA V  +VL
Sbjct: 242 KTNDHRIDPVGACIGMRGTRIQAVQQELDGERIDVIVWNEDPAQYIISALEPADVIGLVL 301

Query: 302 DEDVGRIEVIV-PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           DED    EVI    +QL+ AIG +GQNVRLAS+LTG+ +++I E E S  +  +      
Sbjct: 302 DEDAKTAEVIFATNDQLARAIGSQGQNVRLASELTGYKLNMILESEYSERQASENQAVID 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F + + +D  +A +L   GFAD+E +A   + E   I+G D+ET   IQ RA+E +   
Sbjct: 362 LFYERLELDRDLAEVLAEVGFADIETVAYAPVEEFYEIDGLDDETITAIQERAKEVIISD 421

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +I  Q+ I+E   S EL ++  +   I   L E  I T++DLA  ++ D+          
Sbjct: 422 EIAKQQNIKE--PSAELLALEDMTPAIAYKLAERDIITLDDLAEQAIFDIEDIE------ 473

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                      G         I+ AR    W E
Sbjct: 474 -----------GLNSQSAGKFIMAARQS--WFE 493


>gi|30263819|ref|NP_846196.1| transcription elongation factor NusA [Bacillus anthracis str. Ames]
 gi|42782904|ref|NP_980151.1| transcription elongation factor NusA [Bacillus cereus ATCC 10987]
 gi|47529243|ref|YP_020592.1| transcription elongation factor NusA [Bacillus anthracis str. 'Ames
           Ancestor']
 gi|47569093|ref|ZP_00239782.1| transcription termination factor nusA [Bacillus cereus G9241]
 gi|49186666|ref|YP_029918.1| transcription elongation factor NusA [Bacillus anthracis str.
           Sterne]
 gi|49479412|ref|YP_037877.1| transcription elongation factor NusA [Bacillus thuringiensis
           serovar konkukian str. 97-27]
 gi|52141674|ref|YP_085157.1| transcription elongation factor NusA [Bacillus cereus E33L]
 gi|65321143|ref|ZP_00394102.1| COG0195: Transcription elongation factor [Bacillus anthracis str.
           A2012]
 gi|118479036|ref|YP_896187.1| transcription elongation factor NusA [Bacillus thuringiensis str.
           Al Hakam]
 gi|165872619|ref|ZP_02217250.1| N utilization substance protein A [Bacillus anthracis str. A0488]
 gi|167639787|ref|ZP_02398056.1| N utilization substance protein A [Bacillus anthracis str. A0193]
 gi|170706870|ref|ZP_02897328.1| N utilization substance protein A [Bacillus anthracis str. A0389]
 gi|177652046|ref|ZP_02934592.1| N utilization substance protein A [Bacillus anthracis str. A0174]
 gi|190568469|ref|ZP_03021376.1| N utilization substance protein A [Bacillus anthracis
           Tsiankovskii-I]
 gi|196042176|ref|ZP_03109459.1| N utilization substance protein A [Bacillus cereus NVH0597-99]
 gi|196044653|ref|ZP_03111888.1| N utilization substance protein A [Bacillus cereus 03BB108]
 gi|206978435|ref|ZP_03239302.1| N utilization substance protein A [Bacillus cereus H3081.97]
 gi|217961236|ref|YP_002339804.1| transcription elongation factor NusA [Bacillus cereus AH187]
 gi|218904944|ref|YP_002452778.1| N utilization substance protein A [Bacillus cereus AH820]
 gi|222097260|ref|YP_002531317.1| transcription elongation factor nusa [Bacillus cereus Q1]
 gi|225865795|ref|YP_002751173.1| N utilization substance protein A [Bacillus cereus 03BB102]
 gi|227813276|ref|YP_002813285.1| N utilization substance protein A [Bacillus anthracis str. CDC 684]
 gi|228916453|ref|ZP_04080019.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar pulsiensis BGSC 4CC1]
 gi|228928864|ref|ZP_04091896.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar pondicheriensis BGSC 4BA1]
 gi|228947535|ref|ZP_04109825.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar monterrey BGSC 4AJ1]
 gi|228986959|ref|ZP_04147085.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar tochigiensis BGSC 4Y1]
 gi|229092856|ref|ZP_04223990.1| Transcription elongation protein nusA [Bacillus cereus Rock3-42]
 gi|229123329|ref|ZP_04252533.1| Transcription elongation protein nusA [Bacillus cereus 95/8201]
 gi|229140457|ref|ZP_04269012.1| Transcription elongation protein nusA [Bacillus cereus BDRD-ST26]
 gi|229186053|ref|ZP_04313223.1| Transcription elongation protein nusA [Bacillus cereus BGSC 6E1]
 gi|229197926|ref|ZP_04324642.1| Transcription elongation protein nusA [Bacillus cereus m1293]
 gi|229602496|ref|YP_002868054.1| N utilization substance protein A [Bacillus anthracis str. A0248]
 gi|254721998|ref|ZP_05183787.1| transcription elongation factor NusA [Bacillus anthracis str.
           A1055]
 gi|254735854|ref|ZP_05193560.1| transcription elongation factor NusA [Bacillus anthracis str.
           Western North America USA6153]
 gi|254756007|ref|ZP_05208038.1| transcription elongation factor NusA [Bacillus anthracis str.
           Vollum]
 gi|254759332|ref|ZP_05211357.1| transcription elongation factor NusA [Bacillus anthracis str.
           Australia 94]
 gi|301055306|ref|YP_003793517.1| transcription elongation factor NusA [Bacillus anthracis CI]
 gi|30258463|gb|AAP27682.1| N utilization substance protein A [Bacillus anthracis str. Ames]
 gi|42738831|gb|AAS42759.1| N utilization substance protein A [Bacillus cereus ATCC 10987]
 gi|47504391|gb|AAT33067.1| N utilization substance protein A [Bacillus anthracis str. 'Ames
           Ancestor']
 gi|47554255|gb|EAL12617.1| transcription termination factor nusA [Bacillus cereus G9241]
 gi|49180593|gb|AAT55969.1| N utilization substance protein A [Bacillus anthracis str. Sterne]
 gi|49330968|gb|AAT61614.1| N utilization substance protein A [Bacillus thuringiensis serovar
           konkukian str. 97-27]
 gi|51975143|gb|AAU16693.1| N utilization substance protein A [Bacillus cereus E33L]
 gi|118418261|gb|ABK86680.1| N utilization substance protein A [Bacillus thuringiensis str. Al
           Hakam]
 gi|164711651|gb|EDR17197.1| N utilization substance protein A [Bacillus anthracis str. A0488]
 gi|167512188|gb|EDR87565.1| N utilization substance protein A [Bacillus anthracis str. A0193]
 gi|170128288|gb|EDS97157.1| N utilization substance protein A [Bacillus anthracis str. A0389]
 gi|172082415|gb|EDT67480.1| N utilization substance protein A [Bacillus anthracis str. A0174]
 gi|190560473|gb|EDV14451.1| N utilization substance protein A [Bacillus anthracis
           Tsiankovskii-I]
 gi|196024688|gb|EDX63360.1| N utilization substance protein A [Bacillus cereus 03BB108]
 gi|196027028|gb|EDX65652.1| N utilization substance protein A [Bacillus cereus NVH0597-99]
 gi|206743350|gb|EDZ54790.1| N utilization substance protein A [Bacillus cereus H3081.97]
 gi|217063696|gb|ACJ77946.1| N utilization substance protein A [Bacillus cereus AH187]
 gi|218538022|gb|ACK90420.1| N utilization substance protein A [Bacillus cereus AH820]
 gi|221241318|gb|ACM14028.1| N utilization substance protein A [Bacillus cereus Q1]
 gi|225790987|gb|ACO31204.1| N utilization substance protein A [Bacillus cereus 03BB102]
 gi|227004195|gb|ACP13938.1| N utilization substance protein A [Bacillus anthracis str. CDC 684]
 gi|228585644|gb|EEK43746.1| Transcription elongation protein nusA [Bacillus cereus m1293]
 gi|228597472|gb|EEK55122.1| Transcription elongation protein nusA [Bacillus cereus BGSC 6E1]
 gi|228643018|gb|EEK99294.1| Transcription elongation protein nusA [Bacillus cereus BDRD-ST26]
 gi|228660105|gb|EEL15741.1| Transcription elongation protein nusA [Bacillus cereus 95/8201]
 gi|228690478|gb|EEL44261.1| Transcription elongation protein nusA [Bacillus cereus Rock3-42]
 gi|228772737|gb|EEM21177.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar tochigiensis BGSC 4Y1]
 gi|228812055|gb|EEM58386.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar monterrey BGSC 4AJ1]
 gi|228830671|gb|EEM76276.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar pondicheriensis BGSC 4BA1]
 gi|228843032|gb|EEM88114.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar pulsiensis BGSC 4CC1]
 gi|229266904|gb|ACQ48541.1| N utilization substance protein A [Bacillus anthracis str. A0248]
 gi|300377475|gb|ADK06379.1| transcription elongation factor NusA [Bacillus cereus biovar
           anthracis str. CI]
 gi|324327710|gb|ADY22970.1| transcription elongation factor NusA [Bacillus thuringiensis
           serovar finitimus YBT-020]
          Length = 368

 Score =  477 bits (1229), Expect = e-132,   Method: Composition-based stats.
 Identities = 151/379 (39%), Positives = 229/379 (60%), Gaps = 17/379 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NP+ G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPQVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V + +  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVHAENID 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ +V EL+ EKIDIV WS D   +V NAL P+ V KV++DE+   
Sbjct: 244 VDPVGSCVGPKGQRVQRIVDELKGEKIDIVRWSNDPVEYVANALSPSQVVKVLVDEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +                     
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGI--------------- 348

Query: 368 VDEIIAHLLVAEGFADVEE 386
           V E     +VA GF  VE+
Sbjct: 349 VTEE--DSVVAFGFDSVED 365


>gi|47095907|ref|ZP_00233510.1| N utilization substance protein A [Listeria monocytogenes str. 1/2a
           F6854]
 gi|224499904|ref|ZP_03668253.1| transcription elongation factor NusA [Listeria monocytogenes
           Finland 1988]
 gi|254828682|ref|ZP_05233369.1| transcription elongation factor NusA [Listeria monocytogenes FSL
           N3-165]
 gi|254829921|ref|ZP_05234576.1| transcription elongation factor NusA [Listeria monocytogenes
           10403S]
 gi|254898513|ref|ZP_05258437.1| transcription elongation factor NusA [Listeria monocytogenes J0161]
 gi|254911996|ref|ZP_05262008.1| N utilization substance protein A [Listeria monocytogenes J2818]
 gi|254936323|ref|ZP_05268020.1| transcription elongation factor NusA [Listeria monocytogenes F6900]
 gi|284801707|ref|YP_003413572.1| transcription elongation factor NusA [Listeria monocytogenes
           08-5578]
 gi|284994849|ref|YP_003416617.1| transcription elongation factor NusA [Listeria monocytogenes
           08-5923]
 gi|47015653|gb|EAL06583.1| N utilization substance protein A [Listeria monocytogenes str. 1/2a
           F6854]
 gi|258601086|gb|EEW14411.1| transcription elongation factor NusA [Listeria monocytogenes FSL
           N3-165]
 gi|258608913|gb|EEW21521.1| transcription elongation factor NusA [Listeria monocytogenes F6900]
 gi|284057269|gb|ADB68210.1| transcription elongation factor NusA [Listeria monocytogenes
           08-5578]
 gi|284060316|gb|ADB71255.1| transcription elongation factor NusA [Listeria monocytogenes
           08-5923]
 gi|293589960|gb|EFF98294.1| N utilization substance protein A [Listeria monocytogenes J2818]
 gi|313623922|gb|EFR94030.1| transcription termination factor NusA [Listeria innocua FSL J1-023]
          Length = 372

 Score =  477 bits (1228), Expect = e-132,   Method: Composition-based stats.
 Identities = 147/338 (43%), Positives = 223/338 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     + ++K I R+V++  +  ++  A +  +    ++RV++N E G I +    E
Sbjct: 4   ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VE+V +   +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  AVEQVFDSRLEISMEEAHKLNPVYKPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y+ 
Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++++  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTANEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E    
Sbjct: 244 VDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEADQA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E 
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSET 341


>gi|323489587|ref|ZP_08094814.1| transcription elongation factor NusA [Planococcus donghaensis
           MPA1U2]
 gi|323396718|gb|EGA89537.1| transcription elongation factor NusA [Planococcus donghaensis
           MPA1U2]
          Length = 375

 Score =  477 bits (1228), Expect = e-132,   Method: Composition-based stats.
 Identities = 154/364 (42%), Positives = 235/364 (64%), Gaps = 1/364 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  +K I R+V++  +  ++  A +  +    ++RV++N  TG + ++   +
Sbjct: 4   ELLDAFEVLEKQKGISREVLIEAIEAALVTAYKRNFNQAQNVRVDLNLNTGTMLVYSRKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+   QISL+ A+  +P+ ++G VV + + P +FGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVEEVEDERLQISLEDAKVINPAYELGDVVEEEVTPRNFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              + EF D+  +I++G V+R++  N+ V LG  + V+ + E +  E+ +P DR+K YI 
Sbjct: 124 GLIFEEFVDRADDIVNGIVERMDARNLYVGLGKVEAVLPQTEQMPNEHYKPHDRIKVYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V R  RGPQV +SRTHP  + +LF  EVPEIY+GIV++K+++R+ G R+K++VF+    
Sbjct: 184 KVERTTRGPQVFVSRTHPGLLRRLFENEVPEIYDGIVEIKSIAREAGDRSKISVFAHRDD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVG+CVG +G RVQ +V EL  EKIDIV WS +   FV NAL P+ V  V ++E+   
Sbjct: 244 IDPVGSCVGSKGGRVQTIVNELSGEKIDIVEWSEEPVIFVANALSPSKVLDVQVNEEAKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI-NRQKDFNERTQFFMQAI 366
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +        + N   +      
Sbjct: 304 TTVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDARELGIYPNENSNIELLESGE 363

Query: 367 NVDE 370
            +D+
Sbjct: 364 ELDD 367


>gi|262377017|ref|ZP_06070243.1| transcription termination factor NusA [Acinetobacter lwoffii SH145]
 gi|262308055|gb|EEY89192.1| transcription termination factor NusA [Acinetobacter lwoffii SH145]
          Length = 494

 Score =  477 bits (1228), Expect = e-132,   Method: Composition-based stats.
 Identities = 192/516 (37%), Positives = 291/516 (56%), Gaps = 35/516 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-----GTMSDIRVEINPETGDISL 62
           E+L + + V+ EK + R+ +   +  ++  A +  +        + +RVEI+ +TGD   
Sbjct: 4   EILTVVETVSNEKGVPREAIFEALEQALVAATKKKFYEGTHSEEARLRVEIDRKTGDYRT 63

Query: 63  FRLLEVV--EEVENYTCQISLKVARDRDP-SIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           FR  EVV  E+ E   CQ ++      DP    IG +    +  +DFGR+A Q AKQVI+
Sbjct: 64  FRQWEVVADEDHEMPACQDAISD---VDPAKWSIGDIRELEVESIDFGRIAAQIAKQVIV 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           QK+REAER      ++ KVGE+I G VK+      I+DLG N++  + R+E I +E LRP
Sbjct: 121 QKIREAERALVADAYESKVGELIYGEVKKQTKDGFIIDLGDNAEAYLAREEMIPKEILRP 180

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
             RV + +++V RE RG Q+ LSR  P  ++ L   E+PEI   I+++KA +R PG RAK
Sbjct: 181 KQRVNAILFNVNREGRGAQLQLSRAKPDMLIALMKKEIPEISEEIIEIKAAARQPGVRAK 240

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A ++ +AL PA V+ 
Sbjct: 241 IAVKTNDHRIDPVGACIGMRGTRIQAVQQELNGERIDVVVWSDDPAQYIASALEPADVSS 300

Query: 299 VVLDEDVGRIEVIV-PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +V+DED    ++I    +QL+ AIG +GQNVRLAS+LTG+ +D++ EEE    +Q +  +
Sbjct: 301 IVIDEDARTADIIFATSDQLARAIGSQGQNVRLASELTGYKLDMMLEEEYYARQQNEAQQ 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F+  +++ E +A  LV  GF  +EE+A V       IE  D E    +Q RA+E  
Sbjct: 361 YLDMFVTRLDIAEDLAMALVEMGFTSLEEIAYVPAETFDEIE-LDAELVELLQSRAKEIA 419

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
               +  Q+ I+    SEEL ++ G+  +I  AL   G+ T++DLA  + DD+       
Sbjct: 420 LADALQQQENIQA--PSEELVAMEGMTVEIAQALAARGVVTVDDLADQATDDIEDIE--- 474

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                         G   ++   +I+ AR    W  
Sbjct: 475 --------------GLGAEKAGQLIMKARES--WFN 494


>gi|229157392|ref|ZP_04285470.1| Transcription elongation protein nusA [Bacillus cereus ATCC 4342]
 gi|228626119|gb|EEK82868.1| Transcription elongation protein nusA [Bacillus cereus ATCC 4342]
          Length = 368

 Score =  477 bits (1228), Expect = e-132,   Method: Composition-based stats.
 Identities = 150/379 (39%), Positives = 229/379 (60%), Gaps = 17/379 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NP+ G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPQVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V + +  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVHAENID 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ +V EL+ EKIDIV WS D   +V NAL P+ V KV++DE+   
Sbjct: 244 VDPVGSCVGPKGQRVQRIVDELKGEKIDIVRWSNDPVEYVANALSPSQVVKVLVDEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +                     
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGI--------------- 348

Query: 368 VDEIIAHLLVAEGFADVEE 386
           V E     +VA GF  +E+
Sbjct: 349 VTEE--DSVVAFGFDSIED 365


>gi|218898968|ref|YP_002447379.1| N utilization substance protein A [Bacillus cereus G9842]
 gi|228909640|ref|ZP_04073463.1| Transcription elongation protein nusA [Bacillus thuringiensis IBL
           200]
 gi|228940904|ref|ZP_04103463.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar berliner ATCC 10792]
 gi|228973833|ref|ZP_04134409.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar thuringiensis str. T01001]
 gi|228980422|ref|ZP_04140732.1| Transcription elongation protein nusA [Bacillus thuringiensis
           Bt407]
 gi|218542029|gb|ACK94423.1| N utilization substance protein A [Bacillus cereus G9842]
 gi|228779242|gb|EEM27499.1| Transcription elongation protein nusA [Bacillus thuringiensis
           Bt407]
 gi|228785858|gb|EEM33861.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar thuringiensis str. T01001]
 gi|228818740|gb|EEM64806.1| Transcription elongation protein nusA [Bacillus thuringiensis
           serovar berliner ATCC 10792]
 gi|228849929|gb|EEM94760.1| Transcription elongation protein nusA [Bacillus thuringiensis IBL
           200]
 gi|326941582|gb|AEA17478.1| transcription elongation factor NusA [Bacillus thuringiensis
           serovar chinensis CT-43]
          Length = 368

 Score =  477 bits (1228), Expect = e-132,   Method: Composition-based stats.
 Identities = 153/379 (40%), Positives = 229/379 (60%), Gaps = 17/379 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NPE G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPEVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V + +  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVHAENID 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ VV EL+ EKIDIV WS D   +V NAL P+ V KV++DED   
Sbjct: 244 VDPVGSCVGPKGQRVQRVVDELKGEKIDIVRWSNDPVEYVANALSPSQVVKVLVDEDEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +                     
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGI--------------- 348

Query: 368 VDEIIAHLLVAEGFADVEE 386
           V E     ++A GF  VE+
Sbjct: 349 VTEE--DSVIAFGFDSVED 365


>gi|308068697|ref|YP_003870302.1| transcription elongation protein nusA [Paenibacillus polymyxa E681]
 gi|305857976|gb|ADM69764.1| Transcription elongation protein nusA [Paenibacillus polymyxa E681]
          Length = 365

 Score =  477 bits (1228), Expect = e-132,   Method: Composition-based stats.
 Identities = 143/364 (39%), Positives = 231/364 (63%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            ++ ++  + +  EK I +DV+   +  ++  + +  + T  ++RV++N  +G I ++  
Sbjct: 2   SMDFIEAMNELEREKGISKDVLFEAIEAALISSYKRNFNTAQNVRVDMNRNSGVIKVYAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEV +   +ISL  AR+ +P   +  +    + P DFGR+A Q+AKQV+ Q++REA
Sbjct: 62  KLIVEEVLDPRTEISLPAAREINPHFQLEDIAEIEVTPRDFGRIAAQTAKQVVTQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y +F DK  +I++GTV+R +  N+ +DLG  + V+   E +  E     DR+K+Y
Sbjct: 122 ERGLIYNKFVDKEEDIVTGTVQRQDPRNIYIDLGKVEAVLPLGELMPNEKFSHLDRIKAY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V    +GPQ++LSR+HP  + +LF +EVPEI++G+V++++V+R+ G R+K+AV S +
Sbjct: 182 ITKVENTTKGPQIMLSRSHPGLLKRLFELEVPEIFDGVVEIRSVAREAGFRSKIAVHSRN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           + +DPVG+CVG RG+RVQ +V ELR EKIDIV +S +   +V NAL P+ V +V + E+ 
Sbjct: 242 AEVDPVGSCVGPRGTRVQTIVNELRGEKIDIVRYSDNVDEYVANALSPSKVLEVQVFEEE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
               VIVP  QLSLAIG +GQN RLA++LTGW IDI +E +      +      +    +
Sbjct: 302 KMARVIVPDYQLSLAIGIKGQNARLAAKLTGWKIDIKSETQAEEELGRPRTSTDEMHQDS 361

Query: 366 INVD 369
           ++VD
Sbjct: 362 VSVD 365


>gi|299823034|ref|ZP_07054920.1| transcription termination factor NusA [Listeria grayi DSM 20601]
 gi|299816563|gb|EFI83801.1| transcription termination factor NusA [Listeria grayi DSM 20601]
          Length = 367

 Score =  476 bits (1227), Expect = e-132,   Method: Composition-based stats.
 Identities = 147/338 (43%), Positives = 226/338 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL++    +  +K I R+V++  +  ++  A +  +    ++RV++N E G I +    +
Sbjct: 4   ELMEALYVLENDKGISREVLVDAIEAALVSAYKRNFDKAENVRVDLNMENGSIRVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV++V +   +IS + A+  +P  ++G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDQVFDSRLEISPEEAQKINPVYNVGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E  R  DR+K Y+ 
Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYRAHDRIKVYLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY G V++K+V+R+ G R+K++V++++  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYEGSVEIKSVAREAGDRSKISVYTANKE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVGACVG +G+RVQA+V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E    
Sbjct: 244 IDPVGACVGPKGARVQAIVDELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEADQA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E 
Sbjct: 304 TTVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSET 341


>gi|163941553|ref|YP_001646437.1| transcription elongation factor NusA [Bacillus weihenstephanensis
           KBAB4]
 gi|229061419|ref|ZP_04198764.1| Transcription elongation protein nusA [Bacillus cereus AH603]
 gi|229134623|ref|ZP_04263433.1| Transcription elongation protein nusA [Bacillus cereus BDRD-ST196]
 gi|229168555|ref|ZP_04296278.1| Transcription elongation protein nusA [Bacillus cereus AH621]
 gi|163863750|gb|ABY44809.1| NusA antitermination factor [Bacillus weihenstephanensis KBAB4]
 gi|228614961|gb|EEK72063.1| Transcription elongation protein nusA [Bacillus cereus AH621]
 gi|228648884|gb|EEL04909.1| Transcription elongation protein nusA [Bacillus cereus BDRD-ST196]
 gi|228717842|gb|EEL69490.1| Transcription elongation protein nusA [Bacillus cereus AH603]
          Length = 368

 Score =  476 bits (1227), Expect = e-132,   Method: Composition-based stats.
 Identities = 146/355 (41%), Positives = 221/355 (62%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NPE G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPEVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V++ +  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVYAENID 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ VV EL+ EKIDIV WS D   +V NAL P+ V KV++DE    
Sbjct: 244 VDPVGSCVGPKGQRVQRVVDELKGEKIDIVRWSNDPVEYVANALSPSQVVKVLVDEAEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +          +    F
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGIVTEEDSVIAF 358


>gi|229019010|ref|ZP_04175852.1| Transcription elongation protein nusA [Bacillus cereus AH1273]
 gi|229162752|ref|ZP_04290709.1| Transcription elongation protein nusA [Bacillus cereus R309803]
 gi|228620634|gb|EEK77503.1| Transcription elongation protein nusA [Bacillus cereus R309803]
 gi|228742338|gb|EEL92496.1| Transcription elongation protein nusA [Bacillus cereus AH1273]
          Length = 368

 Score =  476 bits (1226), Expect = e-132,   Method: Composition-based stats.
 Identities = 151/379 (39%), Positives = 230/379 (60%), Gaps = 17/379 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NPE G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPEVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V++ +  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVYAENID 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ +V EL+ EKIDIV WS D   +V NAL P+ V KV++DE+   
Sbjct: 244 VDPVGSCVGPKGQRVQRIVDELKGEKIDIVRWSNDPVEYVANALSPSQVVKVLVDEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +                     
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGI--------------- 348

Query: 368 VDEIIAHLLVAEGFADVEE 386
           V E     ++A GF  VE+
Sbjct: 349 VTEE--DSVIAFGFDSVED 365


>gi|313896800|ref|ZP_07830348.1| transcription termination factor NusA [Selenomonas sp. oral taxon
           137 str. F0430]
 gi|312974717|gb|EFR40184.1| transcription termination factor NusA [Selenomonas sp. oral taxon
           137 str. F0430]
          Length = 379

 Score =  476 bits (1226), Expect = e-132,   Method: Composition-based stats.
 Identities = 156/367 (42%), Positives = 233/367 (63%), Gaps = 4/367 (1%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
            E LQ    +AYEK ID +++   +  ++  A R  +G+  ++R+ ++ ETG   +F + 
Sbjct: 13  KEFLQTLKELAYEKGIDEELLFETIEAALISAYRRNFGSAQNVRIALSRETGAFHVFAIK 72

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VVEE E+    ISL  A   +P   +G VV   + P +FGR+A Q+AKQV++Q++REAE
Sbjct: 73  TVVEEAESGVTDISLAQAHAINPDYQVGDVVEIEMTPANFGRIAAQTAKQVVMQRLREAE 132

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R   Y  + ++  +I++G V+R+E  +V VD+G ++ V+   E I  E    GD +++YI
Sbjct: 133 RGIVYEAYMNRSADIVTGIVQRIEGRSVYVDIGKAEAVLMPTEQIPGETYNYGDTIRAYI 192

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V+R  RGPQ++LSRTHP  + KLF ++VPE+  GIV++KA++R+ GSR+K+AV S++ 
Sbjct: 193 IEVKRSPRGPQIMLSRTHPGLLKKLFELQVPEMQEGIVEIKAIAREAGSRSKVAVHSTEE 252

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DP+GACVG    RVQAVV EL  EKIDIV WS D AT++ N+L PA V  V + E   
Sbjct: 253 RVDPIGACVGPHFMRVQAVVDELAGEKIDIVKWSEDPATYIANSLNPAKVISVAVSETEK 312

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
              V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E + +    ++ N      +  I
Sbjct: 313 LSRVVVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQAA----QEENGGVPEPVDDI 368

Query: 367 NVDEIIA 373
           +  E  A
Sbjct: 369 DAAETSA 375


>gi|229031446|ref|ZP_04187446.1| Transcription elongation protein nusA [Bacillus cereus AH1271]
 gi|229098285|ref|ZP_04229232.1| Transcription elongation protein nusA [Bacillus cereus Rock3-29]
 gi|229104378|ref|ZP_04235047.1| Transcription elongation protein nusA [Bacillus cereus Rock3-28]
 gi|229117302|ref|ZP_04246680.1| Transcription elongation protein nusA [Bacillus cereus Rock1-3]
 gi|229174482|ref|ZP_04302014.1| Transcription elongation protein nusA [Bacillus cereus MM3]
 gi|228609042|gb|EEK66332.1| Transcription elongation protein nusA [Bacillus cereus MM3]
 gi|228666202|gb|EEL21666.1| Transcription elongation protein nusA [Bacillus cereus Rock1-3]
 gi|228679076|gb|EEL33284.1| Transcription elongation protein nusA [Bacillus cereus Rock3-28]
 gi|228685183|gb|EEL39114.1| Transcription elongation protein nusA [Bacillus cereus Rock3-29]
 gi|228729735|gb|EEL80715.1| Transcription elongation protein nusA [Bacillus cereus AH1271]
          Length = 368

 Score =  476 bits (1226), Expect = e-132,   Method: Composition-based stats.
 Identities = 151/379 (39%), Positives = 229/379 (60%), Gaps = 17/379 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NPE G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPEVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V + +  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVHAENID 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ +V EL+ EKIDIV WS D   +V NAL P+ V KV++DE+   
Sbjct: 244 VDPVGSCVGPKGQRVQRIVDELKGEKIDIVRWSNDPVEYVANALSPSQVVKVLVDEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +                     
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGI--------------- 348

Query: 368 VDEIIAHLLVAEGFADVEE 386
           V E     ++A GF  VE+
Sbjct: 349 VTEE--DSVIAFGFDSVED 365


>gi|325138675|gb|EGC61230.1| Transcription elongation protein nusA [Neisseria meningitidis
           ES14902]
          Length = 413

 Score =  476 bits (1225), Expect = e-132,   Method: Composition-based stats.
 Identities = 186/430 (43%), Positives = 275/430 (63%), Gaps = 25/430 (5%)

Query: 91  IDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVE 150
           I IG    + LP   FGR A Q+AKQ+I+Q++R+AER++   EF     +I+SGTVKRVE
Sbjct: 5   IQIGEYYEEQLPNEGFGRQAAQTAKQIILQRIRDAEREQNLNEFLAVKEDIVSGTVKRVE 64

Query: 151 YGNVIVDL--GNSDGVIRRDETISRENLRPGDRVKSYIYDVRR--EQRGPQVLLSRTHPQ 206
              +IV++  G  D +I RD+ I REN R GDR+++    V         QV+LSRT   
Sbjct: 65  RHGIIVEVVAGKLDALIPRDQMIPRENFRSGDRIRALFLRVEEIGNTGRKQVILSRTSGD 124

Query: 207 FMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVV 266
           F+VKL+  EVPEI +G+++++AV+RDPG RAK+AV ++D  IDP G C+G+RGSRV AV 
Sbjct: 125 FLVKLYANEVPEIADGMLEIRAVARDPGQRAKVAVKANDQRIDPQGTCIGVRGSRVNAVS 184

Query: 267 TELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQ 326
            EL  E+ID+V+WSP+ A FV++AL PA V+++V+DED   ++VIV + QL+LAIGR GQ
Sbjct: 185 NELSGERIDVVLWSPEPAQFVMSALSPAEVSRIVIDEDKHAVDVIVDENQLALAIGRGGQ 244

Query: 327 NVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEE 386
           NVRLAS LTGW ++I+T  E       +     + FM  +NVDE  A +LV EGFA +EE
Sbjct: 245 NVRLASDLTGWQLNIMTSAEADERNAAEDAAIRRLFMDHLNVDEETADVLVQEGFATLEE 304

Query: 387 LACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSK 446
           +A V  +E+ +IEGFDEE    ++ RAR+ +  + I  ++K+ E  VS+++ ++ GID+ 
Sbjct: 305 VAYVPAAELLAIEGFDEEIVDMLRNRARDAILTMAIAAEEKLGE--VSDDMRNLEGIDAD 362

Query: 447 IKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHAR 506
           +  +L E GI T +DLA  +VD+L+  +                 G  ++  +++I+ AR
Sbjct: 363 MLRSLAEAGITTRDDLAELAVDELIEIT-----------------GVNEETAKAVILTAR 405

Query: 507 YKMGWIEKEK 516
               W  ++K
Sbjct: 406 EH--WFTEDK 413


>gi|218288337|ref|ZP_03492636.1| NusA antitermination factor [Alicyclobacillus acidocaldarius LAA1]
 gi|258511413|ref|YP_003184847.1| NusA antitermination factor [Alicyclobacillus acidocaldarius subsp.
           acidocaldarius DSM 446]
 gi|218241696|gb|EED08869.1| NusA antitermination factor [Alicyclobacillus acidocaldarius LAA1]
 gi|257478139|gb|ACV58458.1| NusA antitermination factor [Alicyclobacillus acidocaldarius subsp.
           acidocaldarius DSM 446]
          Length = 373

 Score =  476 bits (1225), Expect = e-132,   Method: Composition-based stats.
 Identities = 159/343 (46%), Positives = 236/343 (68%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            ++ L+  D +A EK ID++V+L  +  ++  + R  + + +++RVE+  +TG++ ++  
Sbjct: 2   NVDFLEALDQLAREKGIDKEVLLEAIEAALIASYRRNFHSAANVRVEVKRDTGEVHVYAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEE ++   +ISL  ARD +PS  IG VV   + P DFGR+A Q+AKQV++Q+V+EA
Sbjct: 62  KTVVEEPKDTRLEISLDAARDINPSYQIGDVVEIEVTPRDFGRIAAQAAKQVVMQRVKEA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y +F D+  E++SG V R+E     +DLG+++ ++ + E ++ + L+ G R+K +
Sbjct: 122 ERSVIYSKFADREEEVVSGIVSRLEPRVAYIDLGDTEAILPQSEQMASDKLQVGKRLKVF 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V R  +GPQ+++SRTHP  + +LF +EVPEIY GIV++KAV+R+ GSR+K+AV S +
Sbjct: 182 IARVERTSKGPQIVVSRTHPGLLRRLFELEVPEIYEGIVEIKAVAREAGSRSKIAVHSRN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DP+GACVG RGSRVQA+V EL  EK+DIV WS D ATFV NAL PA V  V + ED 
Sbjct: 242 PEVDPIGACVGARGSRVQAIVNELNGEKVDIVEWSEDPATFVANALSPAKVIDVHIYEDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
                +VP  QLSLAIG+ GQN RLA++LTGW IDI +E + +
Sbjct: 302 RVARTVVPDYQLSLAIGKEGQNARLAARLTGWKIDIKSESQMA 344


>gi|323141193|ref|ZP_08076094.1| transcription termination factor NusA [Phascolarctobacterium sp.
           YIT 12067]
 gi|322414336|gb|EFY05154.1| transcription termination factor NusA [Phascolarctobacterium sp.
           YIT 12067]
          Length = 357

 Score =  475 bits (1224), Expect = e-132,   Method: Composition-based stats.
 Identities = 145/341 (42%), Positives = 231/341 (67%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             + +     +  EK ID +++   + D++  A +   GT  ++RVE+N ETG+I ++  
Sbjct: 2   NADFISAIQELGKEKGIDPELLFQAVDDALVAAYKKNTGTNQNVRVEMNKETGEIHVYAQ 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE   +   +++L+ A+  +P    G +V   + P +FGR+A Q+AKQ ++Q++REA
Sbjct: 62  RTVVEGEADGINEMTLEDAQAINPQYLAGDIVEVEVTPKNFGRIAAQNAKQFVVQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER + Y  F+ +  +I++G ++R+E  NV +DLG  + V+  +E I  E  +  +R+K+Y
Sbjct: 122 ERGQVYERFQSRANDIVTGIIERMENQNVYIDLGKVEAVLTPNEQIPGEIYQYHERMKTY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V+R  +GPQ+++SRTHP  + +LF +EVPEI++G+V++K+V+R+PG R+K++V+++D
Sbjct: 182 IVEVKRTNKGPQIMVSRTHPGLLKRLFELEVPEIHDGVVEIKSVAREPGMRSKISVYTAD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           S++DPVGACVG +G RVQ +V ELR EKIDIV +S D A +V NAL PA V K  ++E  
Sbjct: 242 SNVDPVGACVGHKGMRVQTIVNELRGEKIDIVKYSEDPAQYVANALSPAKVVKTNVNEAD 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E +
Sbjct: 302 KICRVVVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSETQ 342


>gi|94986976|ref|YP_594909.1| transcription elongation factor NusA [Lawsonia intracellularis
           PHE/MN1-00]
 gi|94731225|emb|CAJ54588.1| transcription elongation factor [Lawsonia intracellularis
           PHE/MN1-00]
          Length = 440

 Score =  475 bits (1224), Expect = e-132,   Method: Composition-based stats.
 Identities = 174/430 (40%), Positives = 267/430 (62%), Gaps = 5/430 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            LEL +  D ++ +K +DRD+++  + D+++ +    YG   D+ V  N +TG+I +++ 
Sbjct: 2   NLELKKALDQISKDKGLDRDMLVDTLEDAVRTSVIRRYGDNLDVEVSYNDDTGEIEVYQF 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV +   Q+S+  A+  DPS  +   +   L   D GR+A QSAKQVIIQ++R+A
Sbjct: 62  KIVVEEVTDPITQLSITEAKTHDPSAQLDDEMGFRLKVEDLGRIAAQSAKQVIIQRMRDA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E++  Y E+KD++GEI+SG V+R + G  I++LG ++ ++ +DE I +E+ + GDRV+  
Sbjct: 122 EQEIIYEEYKDRIGEIVSGIVQRRDKGGWIINLGRTEALLPKDEQIPKEHYKRGDRVQGL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I DVR+E RGPQV++SR H  +M  LF  EVPE+ +G VQ+  V+RDPGSRAK+ V S +
Sbjct: 182 IIDVRKEGRGPQVIISRAHRDYMAALFRREVPEVDDGTVQIMGVARDPGSRAKVTVLSRE 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG+RGSR+Q +V EL  E+IDIV+WSP+  T+  NAL PAI++++ +DE  
Sbjct: 242 RDVDPVGACVGVRGSRIQNIVQELHGERIDIVIWSPEITTYARNALAPAIISRITVDETE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             +EV VP +QL+ AIGR+GQNV+LA++L GW IDI TE      R  + N   +   Q 
Sbjct: 302 NLLEVTVPDDQLTSAIGRKGQNVKLAAKLLGWKIDIFTET-----RYNESNAVGRGLEQV 356

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
            +V EI    L+  G   +E++      E+    G  E    +++           +   
Sbjct: 357 ASVAEISIETLLHSGLNTLEQINETSDEELIEKLGISESQVNDLRAAVNFLSTTATVDSN 416

Query: 426 KKIRELGVSE 435
           KK +E+   +
Sbjct: 417 KKKKEVEAEQ 426


>gi|297617185|ref|YP_003702344.1| transcription termination factor NusA [Syntrophothermus lipocalidus
           DSM 12680]
 gi|297145022|gb|ADI01779.1| transcription termination factor NusA [Syntrophothermus lipocalidus
           DSM 12680]
          Length = 350

 Score =  475 bits (1224), Expect = e-132,   Method: Composition-based stats.
 Identities = 147/344 (42%), Positives = 233/344 (67%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+Q    +  E+ I ++V++  +  +++ A +  +G++ ++ V+++ E+G++ ++    
Sbjct: 4   ELIQALGEIEKERGIPKEVLVEAIESALRTAYKKNFGSLQNVTVQMDMESGEVKVYAKKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V E V++   ++ L  AR+  P ++IG  +   + P DFGR+A Q+AKQV+IQ++REAER
Sbjct: 64  VAETVKDERLEVRLAEAREIYPEVEIGDEIDVEVTPADFGRIAAQTAKQVVIQRLREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              + EF ++ GEI++GTV+RVE   VI++LG ++ ++   + I  E   PG R+K+YI 
Sbjct: 124 SIVFNEFSNRAGEIVTGTVQRVEQKTVIINLGRTEALMGSQDQIPNEAYEPGQRIKAYIS 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+R  +GPQ+ LSRTHP F+ +LF +EVPEIY G+V++K+++R+ GSR+K++V+S +  
Sbjct: 184 EVKRSAKGPQIFLSRTHPNFLKRLFELEVPEIYEGLVEIKSIAREAGSRSKISVYSRNEK 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G RVQ +V EL  EKIDI+ WSPD   ++ NAL P+ V  V   E    
Sbjct: 244 VDPVGACVGPKGLRVQNIVRELNGEKIDIIKWSPDIEQYIANALSPSKVVSVEASESEKM 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINR 351
             V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E +    R
Sbjct: 304 ARVVVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQVEAVR 347


>gi|229086368|ref|ZP_04218545.1| Transcription elongation protein nusA [Bacillus cereus Rock3-44]
 gi|228696980|gb|EEL49788.1| Transcription elongation protein nusA [Bacillus cereus Rock3-44]
          Length = 366

 Score =  475 bits (1223), Expect = e-132,   Method: Composition-based stats.
 Identities = 145/360 (40%), Positives = 223/360 (61%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NPE G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPEVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV  V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVSNVFDPRLEISVEEARQMNPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++++V+R+ G R+K++V++ ++ 
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEIEVPEIYDGTVEIRSVAREAGDRSKISVYAENTD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ +V EL+ EKIDIV WS D   +V NAL P+ V KV++DED   
Sbjct: 244 VDPVGSCVGPKGQRVQRIVDELKGEKIDIVRWSNDPVEYVANALSPSQVVKVLVDEDEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +          +    F    +
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGIVTEEDNMIAFDSVED 363


>gi|152976182|ref|YP_001375699.1| transcription elongation factor NusA [Bacillus cereus subsp.
           cytotoxis NVH 391-98]
 gi|152024934|gb|ABS22704.1| NusA antitermination factor [Bacillus cytotoxicus NVH 391-98]
          Length = 366

 Score =  475 bits (1223), Expect = e-132,   Method: Composition-based stats.
 Identities = 144/360 (40%), Positives = 222/360 (61%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NPE G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPEVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQNGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V++ +  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVYAENID 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ +V EL+ EKIDIV WS D   +V NAL P+ V  V+++E+   
Sbjct: 244 VDPVGSCVGPKGQRVQRIVDELKGEKIDIVRWSNDPVEYVANALSPSQVVSVLVNEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E +          +    F    +
Sbjct: 304 TTVIVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGIVTEEDNMIAFDSVED 363


>gi|167635811|ref|ZP_02394120.1| N utilization substance protein A [Bacillus anthracis str. A0442]
 gi|170687901|ref|ZP_02879115.1| N utilization substance protein A [Bacillus anthracis str. A0465]
 gi|254683477|ref|ZP_05147337.1| transcription elongation factor NusA [Bacillus anthracis str.
           CNEVA-9066]
 gi|254739620|ref|ZP_05197314.1| transcription elongation factor NusA [Bacillus anthracis str.
           Kruger B]
 gi|167528768|gb|EDR91526.1| N utilization substance protein A [Bacillus anthracis str. A0442]
 gi|170668217|gb|EDT18966.1| N utilization substance protein A [Bacillus anthracis str. A0465]
          Length = 368

 Score =  475 bits (1223), Expect = e-132,   Method: Composition-based stats.
 Identities = 151/379 (39%), Positives = 229/379 (60%), Gaps = 17/379 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NP+ G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPQVGIIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V + +  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVHAENID 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ +V EL+ EKIDIV WS D   +V NAL P+ V KV++DE+   
Sbjct: 244 VDPVGSCVGPKGQRVQRIVDELKGEKIDIVRWSNDPVEYVANALSPSQVVKVLVDEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +                     
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGI--------------- 348

Query: 368 VDEIIAHLLVAEGFADVEE 386
           V E     +VA GF  VE+
Sbjct: 349 VTEE--DSVVAFGFDSVED 365


>gi|329577093|gb|EGG58566.1| transcription termination factor NusA [Enterococcus faecalis
           TX1467]
          Length = 399

 Score =  474 bits (1222), Expect = e-131,   Method: Composition-based stats.
 Identities = 148/363 (40%), Positives = 229/363 (63%), Gaps = 1/363 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L   D +  EK I +D V+  +  ++  A +  YG  S++ VE  P+ G+I ++ +
Sbjct: 2   SKEMLNALDVLEAEKGIPKDTVIEALQAALVSAYKRHYGQASNVEVEFEPKKGNIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV EEV +   ++SLK A   + + +IG  +   + P DFGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVTEEVFDSQLEVSLKDAVALNGAYEIGDKIRFEVTPKDFGRIAAQTAKQVILQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF +   +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K Y
Sbjct: 122 ERTIIYNEFSEYENDIMQGIVERQDRRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SR+HP  + +LF  E+PE+Y+GIV++ +V+R+ G R+K+AV S+D
Sbjct: 182 VSRVENTSKGPQVFVSRSHPDLLKRLFEQEIPEVYDGIVEIVSVAREAGDRSKVAVRSTD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD-ED 304
            +IDPVG CVG +G RVQA+V EL+ E +DIV W+ D A ++ NAL PA V  V+ D E+
Sbjct: 242 PNIDPVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAIYISNALNPAQVLDVIFDPEN 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
                V+VP  QLSLAIG+RGQN RLA++LTG  IDI +E + +   ++  N+      +
Sbjct: 302 SKACTVVVPDYQLSLAIGKRGQNARLAAKLTGHKIDIKSESDMAEFYEQQANQEVAEVAE 361

Query: 365 AIN 367
            ++
Sbjct: 362 EMD 364


>gi|51892657|ref|YP_075348.1| transcription elongation factor NusA [Symbiobacterium thermophilum
           IAM 14863]
 gi|51856346|dbj|BAD40504.1| transcriptional termination-antitermination factor [Symbiobacterium
           thermophilum IAM 14863]
          Length = 360

 Score =  474 bits (1222), Expect = e-131,   Method: Composition-based stats.
 Identities = 151/355 (42%), Positives = 231/355 (65%), Gaps = 3/355 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
           + E+L+  D +  E+ I R+V++  +  ++  A R  +G+  ++RV  + +TG+  ++  
Sbjct: 2   KAEILEALDDLVRERGISREVLIEAIEAALISAYRRNFGSAQNVRVFFDDKTGEYRVYAQ 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            E+VEEV +   Q+SL+ AR ++PS+ +G V    + P DFGR+A Q+AKQV++Q++REA
Sbjct: 62  KEIVEEVTDPRLQVSLEEARMKNPSLQLGDVFEVEVTPRDFGRIAAQTAKQVVVQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG---NSDGVIRRDETISRENLRPGDRV 182
           ER   Y E+  + GEI++G V+R +     V L      + V+  +E I  E      R+
Sbjct: 122 ERGMIYEEYSSREGEIVTGLVQRQDPKTRTVYLELARGVEAVLTANEQIPGERYVENQRI 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           K+Y+ +V+R  +GP + +SRTHP  + +LF +EVPEI++G V++K ++R+ GSR+K+AV 
Sbjct: 182 KAYVIEVKRTTKGPAIAVSRTHPGLLKRLFELEVPEIHDGTVEIKGIAREAGSRSKIAVM 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           + D ++DPVGACVG +G RVQ +V EL+ EKID+V WSPD   FV  AL PA VT+VV D
Sbjct: 242 ARDPNVDPVGACVGQKGQRVQNIVDELQGEKIDVVEWSPDPEVFVAKALSPAKVTQVVCD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           E+     VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E +       + +E
Sbjct: 302 EESRIARVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQAEAGAWDELSE 356


>gi|158320557|ref|YP_001513064.1| NusA antitermination factor [Alkaliphilus oremlandii OhILAs]
 gi|158140756|gb|ABW19068.1| NusA antitermination factor [Alkaliphilus oremlandii OhILAs]
          Length = 345

 Score =  474 bits (1222), Expect = e-131,   Method: Composition-based stats.
 Identities = 139/344 (40%), Positives = 226/344 (65%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E  +  + +  +K I +D+++  +  ++  + +  +G+  ++RVEIN + G++ ++  
Sbjct: 2   NAEFTEALEQIEKDKGISKDILIDAVEAALISSYKRNFGSSQNVRVEINRDNGEVHVYAQ 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            ++ ++V +   +I +  A+  +P   +G      + P +FGR+A Q+AKQV++Q++REA
Sbjct: 62  KKITDDVIDDLLEIHIDDAKIVNPKYSVGDTFESEVTPKNFGRIAAQTAKQVVVQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF ++  EII+G V RV  GNV + LG ++ ++   E I  E    GDR+K Y
Sbjct: 122 ERGIVYDEFINRESEIITGEVSRVAKGNVYISLGRTEAILGPGEQIPNEVYEHGDRIKCY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V++  +GPQ+LLSRTHP  + +LF +EVPEI++G V++K++SR+ GSRAK+AV S D
Sbjct: 182 IVEVKKTTKGPQILLSRTHPGLVKRLFELEVPEIHDGTVEIKSISREAGSRAKIAVDSKD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++D VGACVG +G+RVQ +V EL+ EKIDI+ +S D+  F+ ++L PA V    ++ D 
Sbjct: 242 PNVDAVGACVGPKGARVQTIVDELKGEKIDIIKYSEDAKEFIASSLSPAKVLLCDINNDA 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
              +V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E + + 
Sbjct: 302 KTAKVVVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQINE 345


>gi|75760860|ref|ZP_00740874.1| N utilization substance protein A [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
 gi|228902319|ref|ZP_04066476.1| Transcription elongation protein nusA [Bacillus thuringiensis IBL
           4222]
 gi|74491644|gb|EAO54846.1| N utilization substance protein A [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
 gi|228857288|gb|EEN01791.1| Transcription elongation protein nusA [Bacillus thuringiensis IBL
           4222]
          Length = 368

 Score =  474 bits (1222), Expect = e-131,   Method: Composition-based stats.
 Identities = 152/379 (40%), Positives = 228/379 (60%), Gaps = 17/379 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  N E G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNTEVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V + +  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVHAENID 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ VV EL+ EKIDIV WS D   +V NAL P+ V KV++DED   
Sbjct: 244 VDPVGSCVGPKGQRVQRVVDELKGEKIDIVRWSNDPVEYVANALSPSQVVKVLVDEDEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +                     
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGI--------------- 348

Query: 368 VDEIIAHLLVAEGFADVEE 386
           V E     ++A GF  VE+
Sbjct: 349 VTEE--DSVIAFGFDSVED 365


>gi|258404630|ref|YP_003197372.1| transcription elongation factor NusA [Desulfohalobium retbaense DSM
           5692]
 gi|257796857|gb|ACV67794.1| NusA antitermination factor [Desulfohalobium retbaense DSM 5692]
          Length = 440

 Score =  474 bits (1222), Expect = e-131,   Method: Composition-based stats.
 Identities = 169/407 (41%), Positives = 262/407 (64%), Gaps = 5/407 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            +EL +  D ++ ++ IDRD+++  + ++++ +    +    DI V  + E GDI +++ 
Sbjct: 2   SMELKKAIDQISKDRGIDRDLLIDTLEEAVRSSVNKKFKNKLDIEVSFDEEAGDIEVYQF 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV++   +ISL  AR  DP++ +   +   +   D GR+A QSAKQVIIQ++R+A
Sbjct: 62  KVVVEEVDDPNTEISLDEARIEDPNVQLEDELGFRMEISDLGRIAAQSAKQVIIQRMRDA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E++  Y E+KD+ GEIISG ++R +    I++LG ++ ++ + E I RE  R GDRV+ Y
Sbjct: 122 EQEIIYEEYKDRRGEIISGIIQRRDRAGWIINLGRTEAILPKQEQIPRERFRRGDRVQGY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I DVR+E RGPQ+++SR+HP +M  LF  EVPE+ +G V +  V+RDPG RAK+AV S D
Sbjct: 182 IIDVRKEGRGPQIVVSRSHPDYMAALFKREVPEVGDGTVTIMGVARDPGKRAKVAVLSQD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           S +DPVGACVG+RGSR+Q +V E + E+IDIVVW+ D AT+ +NAL PA ++++ +D+  
Sbjct: 242 SDVDPVGACVGVRGSRIQNIVQEFKGERIDIVVWNHDVATYAMNALSPAKISRMTVDDVE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             +EV+VP +QL+LAIGR+GQNV+LAS+L GW IDIITE     +     +       QA
Sbjct: 302 KTLEVVVPDDQLTLAIGRKGQNVKLASKLLGWKIDIITESRYGADPSDQAD-----LEQA 356

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGR 412
            +V  I     V  G   ++ L      ++A+++G D     +++  
Sbjct: 357 EHVTGIPTDHFVQAGLGSLDALREASDEQLAAVDGMDTSKMADLRAA 403


>gi|262370081|ref|ZP_06063408.1| transcription termination/antitermination protein [Acinetobacter
           johnsonii SH046]
 gi|262315120|gb|EEY96160.1| transcription termination/antitermination protein [Acinetobacter
           johnsonii SH046]
          Length = 494

 Score =  474 bits (1221), Expect = e-131,   Method: Composition-based stats.
 Identities = 188/516 (36%), Positives = 297/516 (57%), Gaps = 35/516 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD-----IRVEINPETGDISL 62
           E+L + + V+ EK + R+ +   +  ++  A +  +   ++     +RVEI+ +TG+ S 
Sbjct: 4   EILTVVETVSNEKGVPREAIFEALEQALVAATKKKFYEGTNSEEAQLRVEIDRKTGEYST 63

Query: 63  FRLLEVV--EEVENYTCQISLKVARDRDPS-IDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           FR  EVV  E+ E   CQ ++      DP+   IG +    +P +DFGR+A Q AKQVI+
Sbjct: 64  FRQWEVVADEDHEMPACQDAISD---VDPAQWSIGDIRELEVPSIDFGRIAAQIAKQVIV 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           QK+REAER      ++ KVGE+I G VK+      I+DLG N++  + R+E I++E LRP
Sbjct: 121 QKIREAERALIADAYESKVGELIYGEVKKQTKDGFIIDLGDNAEAYLAREEMIAKEILRP 180

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
             RV + +++V RE RG Q+ LSR  P+ ++ L   E+PEI   I+++KA +R PG RAK
Sbjct: 181 KQRVNAILFNVNREGRGAQLQLSRAKPEMLIALMKKEIPEISEEIIEIKAAARQPGVRAK 240

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV ++D  IDPVGAC+GMRG+R+QAV  EL  E+ID+VVWS D A ++ +AL PA V+ 
Sbjct: 241 IAVKTNDHRIDPVGACIGMRGTRIQAVQQELNGERIDVVVWSDDPAQYIASALEPADVSG 300

Query: 299 VVLDEDVGRIEVIV-PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +V+DE+    ++I    +QL+ AIG +GQNVRLAS+LTG+ ++++ E+E    +Q +  +
Sbjct: 301 IVIDEEERTADIIFATSDQLARAIGSQGQNVRLASELTGYKLNMMLEDEYHARQQNEAQQ 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F+  ++++E +A  LV  GF  +EE+A V       IE  D E    +Q RA+E  
Sbjct: 361 YLDLFVSRLDIEEDLAMALVEMGFTSLEEIAYVPAETFDEIE-LDAEVVELLQSRAKEVA 419

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
               +  Q+ I++   S EL ++ G+  +I  AL   G+ T++DLA  + DD+       
Sbjct: 420 LADALQQQENIQD--PSAELVAMEGMTQEIAYALAARGVITIDDLADQATDDIADIES-- 475

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                             ++   +I+ AR    W  
Sbjct: 476 ---------------LGTEKAGQLIMKARES--WFN 494


>gi|320354998|ref|YP_004196337.1| NusA antitermination factor [Desulfobulbus propionicus DSM 2032]
 gi|320123500|gb|ADW19046.1| NusA antitermination factor [Desulfobulbus propionicus DSM 2032]
          Length = 451

 Score =  474 bits (1221), Expect = e-131,   Method: Composition-based stats.
 Identities = 179/452 (39%), Positives = 283/452 (62%), Gaps = 16/452 (3%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           MV A  L+  +I D +  +K IDR +++  + ++++ A R  YGT  +I V+ N + G++
Sbjct: 1   MVGAENLK--RIVDQICRDKGIDRALLIDAIEEAVRSAVRKKYGTRREIEVQFNEDLGEV 58

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLP-PMDFGRVAVQSAKQVII 119
            +F+   VV+EV +   +ISL+ AR  DP I++   + + +    D GR+A QSAKQVII
Sbjct: 59  EVFQYRTVVDEVYDEETEISLEEARRLDPEIELDDDLGEKMDNIADLGRIAAQSAKQVII 118

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPG 179
            ++R+AERD  Y  F+D+ G I++G V+R E G++I++LG +D V+ R+  I + + + G
Sbjct: 119 HRMRDAERDVIYEMFRDREGTIVNGIVQRFERGDMIINLGRTDAVLPREGQIPKRSYKQG 178

Query: 180 DRVKSYIYDVRREQR-----GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
           DR+++Y+ +VRR+ R       Q++LSRT  +F++KLF MEVPEI  GIV++   SR+PG
Sbjct: 179 DRIRAYLQEVRRDTREGKFRDSQLILSRTCNEFLIKLFEMEVPEIAEGIVKIMGASREPG 238

Query: 235 SRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA 294
            RAK+AV S +S +DPVGACVG++GSRVQ VV EL+ E+IDIV WSPD A +V NAL PA
Sbjct: 239 FRAKIAVSSIESDVDPVGACVGLKGSRVQNVVQELQGERIDIVPWSPDPARYVCNALAPA 298

Query: 295 IVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
            V+ V+++++   + V+VP +QLSLAIGR+GQNVRLAS+L GW ID+ ++   +     +
Sbjct: 299 EVSMVIVEDERKALLVVVPDDQLSLAIGRQGQNVRLASRLLGWKIDVKSQSRYANMDNTE 358

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
           +    +  +    VDE +A  L A G      LA + I ++ ++   D++ A  +Q  A 
Sbjct: 359 Y----RSLLAVDGVDENLADRLFAAGITSAPLLAAMDIEQLMALARIDQDKAQGMQKAA- 413

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSK 446
                +  + +K  +     +EL     +  +
Sbjct: 414 ---AAMQPSKEKTAQPAPDVQELTDQEPVTPQ 442


>gi|304404290|ref|ZP_07385952.1| transcription termination factor NusA [Paenibacillus
           curdlanolyticus YK9]
 gi|304347268|gb|EFM13100.1| transcription termination factor NusA [Paenibacillus
           curdlanolyticus YK9]
          Length = 366

 Score =  474 bits (1220), Expect = e-131,   Method: Composition-based stats.
 Identities = 143/365 (39%), Positives = 232/365 (63%), Gaps = 1/365 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            +E ++    +  EK I +D+++  +  ++  + +  + T  ++RV++N  TG I ++  
Sbjct: 2   SMEFIEALQEIEREKGISKDILIDAIEAALISSYKRNFNTAQNVRVDVNRFTGVIKVYAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV +   +I+++ AR+ +P   +  +    + P DFGR+A Q+AKQV+ Q++REA
Sbjct: 62  KTVVDEVLDSRMEITVEAAREINPHYQLDDIADIEVTPRDFGRIAAQTAKQVVTQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y  F DK  +I++G V+R +  N+ VDLG  + V+   E +  +  + GDRVKS+
Sbjct: 122 ERGLIYNAFIDKEEDIVNGIVQRQDTRNLFVDLGKVEAVLPLTELMPTDKFKHGDRVKSF 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V    +GPQ+++SRTHP  + +LF +EVPEIY+G+V++++V+R+ G R+K+AV S +
Sbjct: 182 ITKVENTTKGPQIIMSRTHPGLLKRLFELEVPEIYDGVVEIRSVAREAGFRSKIAVHSRN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVG+CVG +G RVQ +V EL+ EKIDIV WS +   +V NAL P+ V +V++ E  
Sbjct: 242 VEVDPVGSCVGPKGMRVQTIVNELKGEKIDIVRWSENIDEYVANALSPSKVLEVIVFEQE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE-DSINRQKDFNERTQFFMQ 364
               VIVP  QLSLAIG +GQN RLA++LTGW IDI +E + +    +   +E       
Sbjct: 302 KMARVIVPDYQLSLAIGIKGQNARLAAKLTGWKIDIKSETQAEQEFGRPRSDESDTMHQD 361

Query: 365 AINVD 369
           ++++D
Sbjct: 362 SVSID 366


>gi|116872753|ref|YP_849534.1| transcription elongation factor NusA [Listeria welshimeri serovar
           6b str. SLCC5334]
 gi|116741631|emb|CAK20755.1| N utilization substance protein A, transcription factor [Listeria
           welshimeri serovar 6b str. SLCC5334]
          Length = 372

 Score =  474 bits (1220), Expect = e-131,   Method: Composition-based stats.
 Identities = 152/371 (40%), Positives = 233/371 (62%), Gaps = 5/371 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     + ++K I R+V++  +  ++  A +  +    ++RV++N E G I +    E
Sbjct: 4   ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VE+V +   +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  AVEQVFDSRLEISMEEAHKINPVYKPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y+ 
Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++++  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTANEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E    
Sbjct: 244 VDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEADQA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E   +       N      ++A  
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETVATELGIYPRNG-----IEAPE 358

Query: 368 VDEIIAHLLVA 378
           V+E  +  L  
Sbjct: 359 VEEAESETLTE 369


>gi|296330875|ref|ZP_06873350.1| transcription elongation factor NusA [Bacillus subtilis subsp.
           spizizenii ATCC 6633]
 gi|305674393|ref|YP_003866065.1| transcription translation coupling factor involved in Rho-dependent
           transcription termination [Bacillus subtilis subsp.
           spizizenii str. W23]
 gi|296151880|gb|EFG92754.1| transcription elongation factor NusA [Bacillus subtilis subsp.
           spizizenii ATCC 6633]
 gi|305412637|gb|ADM37756.1| transcription translation coupling factor involved in Rho-dependent
           transcription termination [Bacillus subtilis subsp.
           spizizenii str. W23]
          Length = 372

 Score =  473 bits (1219), Expect = e-131,   Method: Composition-based stats.
 Identities = 149/342 (43%), Positives = 226/342 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +++++  +  ++  A +  +    ++RV++N ETG I +F   +
Sbjct: 4   ELLDALTILEKEKGISKEIIIEAIEAALISAYKRNFNQAQNVRVDLNRETGSIRVFARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +IS++ A+   P   +G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDEVYDQRLEISIEEAQGIHPEYMVGDVVEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R++   + V LG  + ++  +E +  E+ +P DR+K YI 
Sbjct: 124 GVIYSEFIDREEDIMTGIVQRLDNKFIYVSLGKIEALLPVNEQMPNESYKPHDRIKVYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+V+R+ G R+K++V + D  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEIEVPEIYDGTVELKSVAREAGDRSKISVRTDDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQA+V EL+ EKIDIV WS D   FV NAL P+ V  V+++E+   
Sbjct: 244 VDPVGSCVGPKGQRVQAIVNELKGEKIDIVNWSSDPVEFVANALSPSKVLDVIVNEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E +   
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDARE 345


>gi|289434603|ref|YP_003464475.1| transcription termination factor [Listeria seeligeri serovar 1/2b
           str. SLCC3954]
 gi|289170847|emb|CBH27389.1| transcription termination factor [Listeria seeligeri serovar 1/2b
           str. SLCC3954]
 gi|313638097|gb|EFS03364.1| transcription termination factor NusA [Listeria seeligeri FSL
           S4-171]
          Length = 372

 Score =  473 bits (1219), Expect = e-131,   Method: Composition-based stats.
 Identities = 149/360 (41%), Positives = 227/360 (63%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     + ++K I R+V++  +  ++  A +  +    ++RV++N E G I +    E
Sbjct: 4   ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VE+V +   +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  AVEQVFDSRLEISMEEAHKINPVYKPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y+ 
Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++S+  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTSNEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E    
Sbjct: 244 VDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEADQA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E   +       N      ++   
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETVATELGIYPRNNEDAAPVEEAE 363


>gi|169831086|ref|YP_001717068.1| transcription elongation factor NusA [Candidatus Desulforudis
           audaxviator MP104C]
 gi|169637930|gb|ACA59436.1| NusA antitermination factor [Candidatus Desulforudis audaxviator
           MP104C]
          Length = 359

 Score =  473 bits (1219), Expect = e-131,   Method: Composition-based stats.
 Identities = 159/348 (45%), Positives = 237/348 (68%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E L     +  E+SI  +V+L  +  ++  A R  +GT  + RV+++  TGD  ++  
Sbjct: 2   NSEFLAALRDLEKERSISVEVLLEAIEAALLSAYRRNFGTSHNARVQVDRHTGDCKVYAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EVE+   QISL+ AR  +P   +   V   + P +FGR+A Q+AKQV++Q++REA
Sbjct: 62  RTVVQEVEDPQDQISLEEARAINPGYQLEDTVESEITPRNFGRIAAQTAKQVVVQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  + EF  + G+I++G V+R+E  NV ++LG ++ V+   E I REN RPG R+K+Y
Sbjct: 122 ERNMVFEEFASREGDIVTGVVQRIEQRNVYIELGKTEAVLPPAEQIPRENYRPGQRLKTY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V++  +GP +L+SRTHP  + +LF +EVPE++ G+V++KAV+R+ G R+K+AV+S+D
Sbjct: 182 IVEVKKTTKGPLILVSRTHPGLLKRLFEIEVPELHQGLVELKAVAREAGIRSKIAVYSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVGACVG +G+RVQA+V EL  EKID+V WSPDS+ FV ++L PA V  V + ED 
Sbjct: 242 EGIDPVGACVGPKGARVQAIVQELNGEKIDVVKWSPDSSKFVSSSLSPAKVIAVEVWEDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
               VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E + +   ++
Sbjct: 302 KIARVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQMAEIYRE 349


>gi|30021905|ref|NP_833536.1| transcription elongation factor NusA [Bacillus cereus ATCC 14579]
 gi|229129092|ref|ZP_04258065.1| Transcription elongation protein nusA [Bacillus cereus BDRD-Cer4]
 gi|29897461|gb|AAP10737.1| N utilization substance protein A [Bacillus cereus ATCC 14579]
 gi|228654329|gb|EEL10194.1| Transcription elongation protein nusA [Bacillus cereus BDRD-Cer4]
          Length = 368

 Score =  473 bits (1219), Expect = e-131,   Method: Composition-based stats.
 Identities = 150/379 (39%), Positives = 230/379 (60%), Gaps = 17/379 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NPE G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPEVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V++ ++ 
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVYAENTD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ +V EL+ EKI IV WS D   +V NAL P+ V KV++DE+   
Sbjct: 244 VDPVGSCVGPKGQRVQRIVDELKGEKIAIVRWSNDPVEYVANALSPSQVVKVLVDEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +                     
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGI--------------- 348

Query: 368 VDEIIAHLLVAEGFADVEE 386
           V E     ++A GF  VE+
Sbjct: 349 VTEE--DSVIAFGFDSVED 365


>gi|229012999|ref|ZP_04170164.1| Transcription elongation protein nusA [Bacillus mycoides DSM 2048]
 gi|228748253|gb|EEL98113.1| Transcription elongation protein nusA [Bacillus mycoides DSM 2048]
          Length = 364

 Score =  473 bits (1219), Expect = e-131,   Method: Composition-based stats.
 Identities = 144/354 (40%), Positives = 220/354 (62%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +L     +  EK I +D+++  +  ++  A +  +    ++RV  NPE G I +    +V
Sbjct: 1   MLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPEVGTIQVLARKDV 60

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           V+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER 
Sbjct: 61  VDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAERG 120

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
             Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I  
Sbjct: 121 VIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFITK 180

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G V++++V+R+ G R+K++V++ +  +
Sbjct: 181 VEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIYDGTVEIRSVAREAGDRSKISVYAENIDV 240

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI 308
           DPVG+CVG +G RVQ VV EL+ EKIDIV WS D   +V NAL P+ V KV++DE     
Sbjct: 241 DPVGSCVGPKGQRVQRVVDELKGEKIDIVRWSNDPVEYVANALSPSQVVKVLVDEAEKAT 300

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
            V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +          +    F
Sbjct: 301 TVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGIVTEEDSVIAF 354


>gi|313633405|gb|EFS00241.1| transcription termination factor NusA [Listeria seeligeri FSL
           N1-067]
          Length = 372

 Score =  473 bits (1218), Expect = e-131,   Method: Composition-based stats.
 Identities = 148/360 (41%), Positives = 227/360 (63%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     + ++K I R+V++  +  ++  A +  +    ++RV++N E G I +    E
Sbjct: 4   ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VE+V +   +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  AVEQVFDSRLEISMEEAHKINPVYKPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y+ 
Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++++  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTANEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E    
Sbjct: 244 VDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEADQA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E   +       N      ++   
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETVATELGIYPRNNEDAAPVEEAE 363


>gi|292669518|ref|ZP_06602944.1| transcription termination factor NusA [Selenomonas noxia ATCC
           43541]
 gi|292648841|gb|EFF66813.1| transcription termination factor NusA [Selenomonas noxia ATCC
           43541]
          Length = 377

 Score =  473 bits (1218), Expect = e-131,   Method: Composition-based stats.
 Identities = 158/364 (43%), Positives = 232/364 (63%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
            E LQ    +AYEK ID +++   +  ++  A R  +G+  ++R+ ++ ETG   +F + 
Sbjct: 13  KEFLQTLKELAYEKGIDEELLFETIEAALISAYRRNFGSAQNVRIALSRETGAFHVFAIK 72

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VVEE EN    ISL  AR  +P   +G V+   + P +FGR+A Q+AKQV++Q++REAE
Sbjct: 73  TVVEEAENDITDISLAQARAINPDYAVGDVIEIEMTPANFGRIAAQTAKQVVMQRLREAE 132

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R   Y E+ ++  +I++G V+RVE  NV VD+G ++ V+   E +  E    GD +++YI
Sbjct: 133 RGIVYEEYMNRSADIVTGIVQRVEGRNVFVDIGRAEAVLMATEQMPTETYNYGDTLRAYI 192

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V+R  RGPQ++LSRTHP  + KLF ++VPE+  G+V++K+++R+ GSR+K+AV SS+ 
Sbjct: 193 IEVKRTSRGPQIMLSRTHPGLLKKLFELQVPEMQEGVVEIKSIAREAGSRSKIAVASSEE 252

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DP+GACVG    RVQAVV EL  EKIDIV WS D AT++ N+L PA V  V ++E   
Sbjct: 253 RVDPIGACVGPHYMRVQAVVDELAGEKIDIVKWSEDPATYIANSLNPAKVISVAVNEAEK 312

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
              VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E +          E       A+
Sbjct: 313 VSRVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQAQELESGSEEEADMPVAPAL 372

Query: 367 NVDE 370
             +E
Sbjct: 373 TAEE 376


>gi|228992544|ref|ZP_04152471.1| Transcription elongation protein nusA [Bacillus pseudomycoides DSM
           12442]
 gi|228998592|ref|ZP_04158179.1| Transcription elongation protein nusA [Bacillus mycoides Rock3-17]
 gi|229006092|ref|ZP_04163780.1| Transcription elongation protein nusA [Bacillus mycoides Rock1-4]
 gi|228755168|gb|EEM04525.1| Transcription elongation protein nusA [Bacillus mycoides Rock1-4]
 gi|228761060|gb|EEM10019.1| Transcription elongation protein nusA [Bacillus mycoides Rock3-17]
 gi|228767178|gb|EEM15814.1| Transcription elongation protein nusA [Bacillus pseudomycoides DSM
           12442]
          Length = 366

 Score =  473 bits (1217), Expect = e-131,   Method: Composition-based stats.
 Identities = 143/360 (39%), Positives = 223/360 (61%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +D+++  +  ++  A +  +    ++RV  NPE G I +    +
Sbjct: 4   ELLDALLVLESEKGISKDIIIDAIEAALISAYKRNFNQAQNVRVSFNPEVGTIQVLARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +IS++ AR  +P+   G V+   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDNVFDPRLEISVEEARQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I+ G V+R +   + V LG  + ++   E +  E  +P DR++ +I 
Sbjct: 124 GVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEALLPVSEQMPNEQYKPHDRIRVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++++V+R+ G R+K++V++ +  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEIEVPEIYDGTVEIRSVAREAGDRSKISVYAENID 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQ +V EL+ EKIDIV WS D   +V NAL P+ V KV+++E+   
Sbjct: 244 VDPVGSCVGPKGQRVQRIVDELKGEKIDIVRWSNDPIEYVANALSPSQVVKVLVNEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +          +    F    +
Sbjct: 304 TTVVVPDHQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAKQLGIVTEEDNMIAFDSVED 363


>gi|226313023|ref|YP_002772917.1| transcription elongation factor NusA [Brevibacillus brevis NBRC
           100599]
 gi|226095971|dbj|BAH44413.1| transcription elongation protein NusA [Brevibacillus brevis NBRC
           100599]
          Length = 363

 Score =  473 bits (1217), Expect = e-131,   Method: Composition-based stats.
 Identities = 146/345 (42%), Positives = 229/345 (66%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             + ++  +A+  EK I +DV++  +  ++    +  + +  ++RV++N  +G + ++  
Sbjct: 2   NGDFIEALEAIEREKGITKDVLIEAIEAALISGYKRNFNSAQNVRVDVNRHSGMVRVYAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV +   +IS + A++ DP+  +  +V   + P DFGR+A Q+AKQV+ Q++REA
Sbjct: 62  KSVVEEVLDPRLEISQEAAQEIDPNFRLEDIVEIEVTPRDFGRIAAQTAKQVVTQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF ++  +I++G V+R++  N  +DLG ++ V+   E +  E+ +  DRVK+Y
Sbjct: 122 ERGLIYSEFIEREDDIVTGVVQRMDARNYYIDLGKAEAVMPITEKMPSEDFKSQDRVKAY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V +  +GPQ+++SRTHP  + +LF +EVPEIY+G+V++K+V+R+ G R+K+AV S +
Sbjct: 182 IIKVEKTTKGPQIVVSRTHPGLLKRLFELEVPEIYDGVVEIKSVAREAGDRSKIAVHSIN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           + +DPVGACVG +G RVQ +VTEL+ EKIDIV WS D A +V NAL PA V  V ++   
Sbjct: 242 ADVDPVGACVGPKGMRVQTIVTELKGEKIDIVRWSEDPAEYVANALSPAKVLHVEVNVAE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
               VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E +    
Sbjct: 302 KVTRVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSESQADQE 346


>gi|220931626|ref|YP_002508534.1| NusA antitermination factor [Halothermothrix orenii H 168]
 gi|219992936|gb|ACL69539.1| NusA antitermination factor [Halothermothrix orenii H 168]
          Length = 377

 Score =  473 bits (1217), Expect = e-131,   Method: Composition-based stats.
 Identities = 154/348 (44%), Positives = 234/348 (67%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            +E L   D +  EK I ++V++  +  ++  A +  +G+  ++RV I P++G++ ++  
Sbjct: 2   NIEFLHALDDIEKEKGISKEVLIEAIETALLSAYKKEFGSKENVRVHIVPDSGEVHVYSQ 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            +VV+EV N   +ISL+ A+  + + + G +V   + P +FGR+A Q+AKQV++Q++REA
Sbjct: 62  KKVVDEVNNERKEISLEEAQKLNKNYEPGDIVEKEVTPANFGRIAAQTAKQVVMQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ERD  Y E+K K GEII+GTV+R    NV++DLG ++ ++   E I  E    G R+K Y
Sbjct: 122 ERDVIYEEYKQKEGEIITGTVQRFHNNNVLIDLGRTEALLPPSEQIPGELYEMGRRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V    +GP++L+SR+HP  + +LF +EVPEI++GIV++KAV+R+ G R+K+AV S D
Sbjct: 182 VVEVASTTKGPRILVSRSHPGLLKRLFEVEVPEIFDGIVEIKAVAREAGYRSKMAVSSYD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVG+CVG +G RVQAVV +L  EKIDI+ WS D A  V NAL PA V  V LDE+ 
Sbjct: 242 ENVDPVGSCVGPKGMRVQAVVDQLNGEKIDIIEWSEDPAILVANALNPAKVINVSLDEEE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
              EV+VP  QLSLAIG+ GQN RLA++LTGW +DI +E +      +
Sbjct: 302 KVAEVVVPDFQLSLAIGKEGQNARLAAKLTGWKVDIKSESQFEKETGE 349


>gi|69246862|ref|ZP_00604154.1| Transcription termination factor NusA [Enterococcus faecium DO]
 gi|257882944|ref|ZP_05662597.1| transcription termination factor NusA [Enterococcus faecium
           1,231,502]
 gi|257884342|ref|ZP_05663995.1| transcription termination factor NusA [Enterococcus faecium
           1,231,501]
 gi|257889277|ref|ZP_05668930.1| transcription termination factor NusA [Enterococcus faecium
           1,231,410]
 gi|260560111|ref|ZP_05832289.1| transcription termination factor NusA [Enterococcus faecium C68]
 gi|261207401|ref|ZP_05922087.1| transcription termination factor NusA [Enterococcus faecium TC 6]
 gi|289566677|ref|ZP_06447094.1| transcription termination factor NusA [Enterococcus faecium
           D344SRF]
 gi|293560200|ref|ZP_06676702.1| transcription termination factor NusA [Enterococcus faecium E1162]
 gi|293567723|ref|ZP_06679065.1| transcription termination factor NusA [Enterococcus faecium E1071]
 gi|294613937|ref|ZP_06693872.1| transcription termination factor NusA [Enterococcus faecium E1636]
 gi|294620763|ref|ZP_06699970.1| transcription termination factor NusA [Enterococcus faecium U0317]
 gi|314937505|ref|ZP_07844838.1| transcription termination factor NusA [Enterococcus faecium
           TX0133a04]
 gi|314942164|ref|ZP_07849018.1| transcription termination factor NusA [Enterococcus faecium
           TX0133C]
 gi|314947496|ref|ZP_07850911.1| transcription termination factor NusA [Enterococcus faecium TX0082]
 gi|314951483|ref|ZP_07854532.1| transcription termination factor NusA [Enterococcus faecium
           TX0133A]
 gi|314992573|ref|ZP_07857991.1| transcription termination factor NusA [Enterococcus faecium
           TX0133B]
 gi|314995492|ref|ZP_07860592.1| transcription termination factor NusA [Enterococcus faecium
           TX0133a01]
 gi|68195043|gb|EAN09506.1| Transcription termination factor NusA [Enterococcus faecium DO]
 gi|257818602|gb|EEV45930.1| transcription termination factor NusA [Enterococcus faecium
           1,231,502]
 gi|257820180|gb|EEV47328.1| transcription termination factor NusA [Enterococcus faecium
           1,231,501]
 gi|257825637|gb|EEV52263.1| transcription termination factor NusA [Enterococcus faecium
           1,231,410]
 gi|260073946|gb|EEW62270.1| transcription termination factor NusA [Enterococcus faecium C68]
 gi|260078292|gb|EEW65997.1| transcription termination factor NusA [Enterococcus faecium TC 6]
 gi|289161536|gb|EFD09419.1| transcription termination factor NusA [Enterococcus faecium
           D344SRF]
 gi|291589566|gb|EFF21372.1| transcription termination factor NusA [Enterococcus faecium E1071]
 gi|291593212|gb|EFF24786.1| transcription termination factor NusA [Enterococcus faecium E1636]
 gi|291599743|gb|EFF30753.1| transcription termination factor NusA [Enterococcus faecium U0317]
 gi|291605872|gb|EFF35304.1| transcription termination factor NusA [Enterococcus faecium E1162]
 gi|313590326|gb|EFR69171.1| transcription termination factor NusA [Enterococcus faecium
           TX0133a01]
 gi|313592865|gb|EFR71710.1| transcription termination factor NusA [Enterococcus faecium
           TX0133B]
 gi|313596323|gb|EFR75168.1| transcription termination factor NusA [Enterococcus faecium
           TX0133A]
 gi|313599087|gb|EFR77932.1| transcription termination factor NusA [Enterococcus faecium
           TX0133C]
 gi|313643146|gb|EFS07726.1| transcription termination factor NusA [Enterococcus faecium
           TX0133a04]
 gi|313646046|gb|EFS10626.1| transcription termination factor NusA [Enterococcus faecium TX0082]
          Length = 391

 Score =  472 bits (1216), Expect = e-131,   Method: Composition-based stats.
 Identities = 147/380 (38%), Positives = 233/380 (61%), Gaps = 4/380 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L   DA+  EK I +++V+  +  ++  A +  YG   ++ VE + + G I ++ +
Sbjct: 2   SKEMLNALDALEAEKGISKEIVIDALEAALVSAYKRHYGQAQNVEVEFDQKKGKIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV EEV +   ++SLK A   +P+ +IG  +   + P DFGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVTEEVMDSQLEVSLKDALLINPAYEIGDTIRFEVTPKDFGRIAAQTAKQVILQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF     +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K Y
Sbjct: 122 ERTIIYNEFSAYEKDIMQGIVERQDKRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SR+HP  + +LF  EVPE+Y+GIV++ +++R+ G R+K+AV S+D
Sbjct: 182 VSRVENTSKGPQVFVSRSHPDLLRRLFEQEVPEVYDGIVEIVSIAREAGDRSKVAVRSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            +ID VG CVG +G RVQA+V EL+ E +DIV W+ D A F+ NAL PA V  V+ DE  
Sbjct: 242 PNIDAVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAVFIANALNPAQVMDVIFDETN 301

Query: 306 GRI-EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
            +   V+VP  QLSLAIG+RGQN RLA++LT   IDI +E + +   +    ++     +
Sbjct: 302 PKACTVVVPDYQLSLAIGKRGQNARLAAKLTNHKIDIKSESDMTEFYENQEQQKE---TE 358

Query: 365 AINVDEIIAHLLVAEGFADV 384
            ++ + I+   L  + +  +
Sbjct: 359 ELHDEAIVQSDLTDDEYETI 378


>gi|327441013|dbj|BAK17378.1| transcription elongation factor [Solibacillus silvestris StLB046]
          Length = 375

 Score =  472 bits (1216), Expect = e-131,   Method: Composition-based stats.
 Identities = 151/368 (41%), Positives = 236/368 (64%), Gaps = 2/368 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL    A+  +K I RDV++  +  ++  A +  +    ++RV++N +TG + ++   +
Sbjct: 4   ELLDALTALEEQKGISRDVLIEAIEAALVTAYKRNFNQAQNVRVDLNLQTGSMVVYSRKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+   +I+L+ A+  + + +IG VV + + P +FGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVEEVEDDRLEIALEDAKFINAAYEIGDVVEEEVTPRNFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+ D+  +I++G ++R +  N+ V +G  +  +  +E I  E  +P  R++ YI 
Sbjct: 124 GLIYEEYVDREDDIVTGVIERQDARNIYVSIGKVEAALPVNEQIQGEVYKPTSRIRVYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V R  RGPQV++SRTHP  + +LF MEVPEIY+G V++K+++R+ G R+K++V++ +  
Sbjct: 184 KVERTTRGPQVIVSRTHPGLLRRLFEMEVPEIYDGTVEIKSIAREAGDRSKISVYAHNEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G+RVQ +V EL  EKIDIV WS D   FV NAL P+ V  V ++E+   
Sbjct: 244 VDPVGSCVGAKGARVQTIVNELNGEKIDIVEWSEDPVVFVANALSPSKVLDVQVNEEEKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +            T  F+   +
Sbjct: 304 TTVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDARELGIYPSETST--FVPRED 361

Query: 368 VDEIIAHL 375
            +E+   L
Sbjct: 362 AEEVKFDL 369


>gi|317153847|ref|YP_004121895.1| transcription termination factor NusA [Desulfovibrio aespoeensis
           Aspo-2]
 gi|316944098|gb|ADU63149.1| transcription termination factor NusA [Desulfovibrio aespoeensis
           Aspo-2]
          Length = 466

 Score =  472 bits (1216), Expect = e-131,   Method: Composition-based stats.
 Identities = 171/403 (42%), Positives = 265/403 (65%), Gaps = 5/403 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL +  D ++ ++ IDRD+++  + ++++ A    +G   DI V  N ++G+I +F    
Sbjct: 3   ELKKAIDQISKDRGIDRDLLIDTLEEAVRSAVARKHGETMDIEVAFNEDSGEIEVFEFKV 62

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV EV +   +ISL+ AR+ DP+  +   +  P+   D GR+A QSAKQVIIQ++R+AE+
Sbjct: 63  VVAEVHDPISEISLENAREHDPNAQLDDEMGFPVRIEDLGRIAAQSAKQVIIQRMRDAEQ 122

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + E+KD++GEI SG V+R +    I++LG ++ ++ +DE I RE  + GDRV++YI 
Sbjct: 123 EIIFEEYKDRLGEITSGIVQRRDRTGWIINLGRTEALLPKDEQIPRERYKRGDRVQAYII 182

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           DV +E RGPQV++SR+HP +M++LF  EVPE+ +G V++  V+RDPG RAK+AV S D  
Sbjct: 183 DVLKESRGPQVVVSRSHPDYMIELFKREVPEVADGTVKIMGVARDPGLRAKVAVMSRDRD 242

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG+RGSR+Q VV E++ E+IDIVVWSPD A +  +AL PA++T++ +D++   
Sbjct: 243 VDPVGACVGIRGSRIQNVVQEMKGERIDIVVWSPDIAMYAQHALSPAVITRITVDDEEEA 302

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           +EV+ P +QL+LAIGR+GQNV+LA++L GW IDI TE      R  + N   +   Q  +
Sbjct: 303 LEVVCPDDQLTLAIGRKGQNVKLAAKLLGWKIDIFTES-----RYGELNASRKGMDQVAS 357

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
           V EI        GF  +E +      E+ +I G  +    +I+
Sbjct: 358 VAEIPMESFFNAGFESLESIVRATNEELLAINGLTKSKIGDIR 400


>gi|206602206|gb|EDZ38688.1| Transcription termination factor (NusA) [Leptospirillum sp. Group
           II '5-way CG']
          Length = 452

 Score =  472 bits (1216), Expect = e-131,   Method: Composition-based stats.
 Identities = 174/431 (40%), Positives = 262/431 (60%), Gaps = 19/431 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL + D +  EK I ++ ++  +  ++  AAR  YG   + +VEINP TG++ + ++
Sbjct: 3   NQELLSVIDQLHREKGISQETLIVALESALLAAARKRYGGGDNFQVEINPRTGEVQVLQI 62

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VE+VE+ + +ISL  A + DP  ++G  +   L   DFGR+A Q+AKQV+ QKVREA
Sbjct: 63  RRIVEQVESPSEEISLAEALESDPEAEVGDEIGSYLEIDDFGRIAAQAAKQVMFQKVREA 122

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E D    EF  + G+I++G +   E  N IVDLG ++ V+   E + RE+ R GDR+K+ 
Sbjct: 123 EWDVVTKEFGGRQGDIVNGVIIGHERKNYIVDLGKTEAVLPLREQMPRESFRRGDRIKAL 182

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + D+R   RGPQ++LSRTHP F+ +LF  EVPEI  GI++V+ V R+PG RAK+AV+S D
Sbjct: 183 LLDMRTTSRGPQLVLSRTHPDFVSRLFEKEVPEIAEGILEVRNVVREPGERAKIAVYSRD 242

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED- 304
            ++DPVG+CVG++G RVQAVV EL  EK+DI+ WSPD +TF+  AL PA   +V + +  
Sbjct: 243 PNVDPVGSCVGVKGVRVQAVVRELHGEKVDIIEWSPDPSTFIARALSPAKAVRVSIKDMG 302

Query: 305 -VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED-SINRQKDFNERTQFF 362
                 V+V   QLSLAIGRRG NVRLA++LTGW +DI +E +  S     +  ER    
Sbjct: 303 TEKVATVVVQDSQLSLAIGRRGHNVRLAAKLTGWKVDIFSETQMQSEAGLDERAERVASL 362

Query: 363 MQAI----------------NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
            + +                 V   +A +L   GF  ++ +A   +  I+++  F  +TA
Sbjct: 363 AETLGSQSGDTSLLRIEDLPGVGGNMAEILRDAGFDTLQAIAHASVEAISALPKFGPKTA 422

Query: 407 VEIQGRAREYL 417
            ++   A+++L
Sbjct: 423 AKLIQTAQDFL 433


>gi|323697469|ref|ZP_08109381.1| transcription termination factor NusA [Desulfovibrio sp. ND132]
 gi|323457401|gb|EGB13266.1| transcription termination factor NusA [Desulfovibrio desulfuricans
           ND132]
          Length = 459

 Score =  472 bits (1216), Expect = e-131,   Method: Composition-based stats.
 Identities = 173/403 (42%), Positives = 265/403 (65%), Gaps = 5/403 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL +  D ++ ++ IDRD+++  + ++++ A    YG   DI V  N E G+I +F    
Sbjct: 3   ELKRAIDQISKDRGIDRDLLIDTLEEAVRSAVARKYGETMDIEVAFNEERGEIEVFEFKV 62

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISL+ AR  DP+  +   +  P+   D GR+A QSAKQVIIQ++R+AE+
Sbjct: 63  VVDEVHDPISEISLEDARTHDPNAQLDDEMGFPVKVEDLGRIAAQSAKQVIIQRMRDAEQ 122

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y E+KD+V EI SG ++R +    I++LG ++ ++ ++E I RE  + GDRV++YI 
Sbjct: 123 EIIYEEYKDRVSEIASGIIQRRDRTGWIINLGRTEALLPKEEQIPRERYKRGDRVQAYII 182

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           DV +E RGPQV++SR+HP +MV+LF  EVPE+ +G V++  V+RDPG RAK+AV S D  
Sbjct: 183 DVLKESRGPQVIVSRSHPDYMVELFKREVPEVADGTVKIMGVARDPGLRAKVAVMSRDRD 242

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG+RGSR+Q VV EL+ E+IDIVVWSPD A +  +AL PA++T++ +D++   
Sbjct: 243 VDPVGACVGIRGSRIQNVVQELKGERIDIVVWSPDIAMYAQHALSPAVITRITVDDEEEA 302

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           +EV+ P +QL+LAIGR+GQNV+LA++L GW IDI TE      R  + N   +   Q  +
Sbjct: 303 LEVVCPDDQLTLAIGRKGQNVKLAAKLLGWKIDIFTES-----RYGELNAARKGMDQIAS 357

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
           V E+      + GF  +E +      E+ +I+G  E    +++
Sbjct: 358 VAEVPMENFFSAGFESIESIVQASDEELLAIKGMTESKIGDMR 400


>gi|257878526|ref|ZP_05658179.1| transcription termination factor NusA [Enterococcus faecium
           1,230,933]
 gi|257894715|ref|ZP_05674368.1| transcription termination factor NusA [Enterococcus faecium
           1,231,408]
 gi|294618723|ref|ZP_06698255.1| transcription termination factor NusA [Enterococcus faecium E1679]
 gi|257812754|gb|EEV41512.1| transcription termination factor NusA [Enterococcus faecium
           1,230,933]
 gi|257831094|gb|EEV57701.1| transcription termination factor NusA [Enterococcus faecium
           1,231,408]
 gi|291595036|gb|EFF26381.1| transcription termination factor NusA [Enterococcus faecium E1679]
          Length = 391

 Score =  472 bits (1215), Expect = e-131,   Method: Composition-based stats.
 Identities = 147/380 (38%), Positives = 232/380 (61%), Gaps = 4/380 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L   DA+  EK I +++V+  +  ++  A +  YG   ++ VE + + G I ++ +
Sbjct: 2   SKEMLNALDALEAEKGISKEIVIDALEAALVSAYKRHYGQAQNVEVEFDQKKGKIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV EEV +   ++SLK A   +P+ +IG  +   + P DFGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVTEEVMDSQLEVSLKDALLINPAYEIGDTIRFEVTPKDFGRIAAQTAKQVILQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF     +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K Y
Sbjct: 122 ERTIIYNEFSAYEKDIMQGIVERQDKRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SR+HP  + +LF  EVPE+Y+GIV++ +++R+ G R+K+AV S+D
Sbjct: 182 VSRVENTSKGPQVFVSRSHPDLLRRLFEQEVPEVYDGIVEIVSIAREAGDRSKVAVRSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            +ID VG CVG +G RVQA+V EL+ E +DIV W+ D A F+ NAL PA V  V+ DE  
Sbjct: 242 PNIDAVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAVFIANALNPAQVMDVIFDETN 301

Query: 306 -GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
                V+VP  QLSLAIG+RGQN RLA++LT   IDI +E + +   +    ++     +
Sbjct: 302 SKACTVVVPDYQLSLAIGKRGQNARLAAKLTNHKIDIKSESDMTEFYENQEQQKE---TE 358

Query: 365 AINVDEIIAHLLVAEGFADV 384
            ++ + I+   L  + +  +
Sbjct: 359 ELHDEAIVQSDLTDDEYETI 378


>gi|16800427|ref|NP_470695.1| transcription elongation factor NusA [Listeria innocua Clip11262]
 gi|16413832|emb|CAC96590.1| nusA [Listeria innocua Clip11262]
          Length = 372

 Score =  471 bits (1214), Expect = e-131,   Method: Composition-based stats.
 Identities = 153/379 (40%), Positives = 235/379 (62%), Gaps = 10/379 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     + ++K I R+V++  +  ++  A +  +    ++RV++N E G I +    E
Sbjct: 4   ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VE+V +   +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  AVEQVFDSRLEISMEEAHKLNPVYKPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y+ 
Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++++  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTANEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E    
Sbjct: 244 VDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEADQA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E   +       N          +
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETVATELGIYPRN----------D 353

Query: 368 VDEIIAHLLVAEGFADVEE 386
           V+  +     +E F + EE
Sbjct: 354 VEAPVVEEAESETFTEDEE 372


>gi|293556649|ref|ZP_06675214.1| transcription termination factor NusA [Enterococcus faecium E1039]
 gi|291601184|gb|EFF31471.1| transcription termination factor NusA [Enterococcus faecium E1039]
          Length = 391

 Score =  471 bits (1214), Expect = e-130,   Method: Composition-based stats.
 Identities = 145/353 (41%), Positives = 222/353 (62%), Gaps = 1/353 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L   DA+  EK I +++V+  +  ++  A +  YG   ++ VE + + G I ++ +
Sbjct: 2   SKEMLNALDALEAEKGISKEIVIDALEAALVSAYKRHYGQAQNVEVEFDQKKGKIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV EEV +   ++SLK A   +P+ +IG  +   + P DFGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVTEEVMDSQLEVSLKDALLINPAYEIGDTIRFEVTPKDFGRIAAQTAKQVILQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF     +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K Y
Sbjct: 122 ERTIIYNEFSAYEKDIMQGIVERQDKRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SR+HP  + +LF  EVPE+Y+GIV++ +++R+ G R+K+AV S+D
Sbjct: 182 VSRVENTSKGPQVFVSRSHPDLLRRLFEQEVPEVYDGIVEIVSIAREAGDRSKVAVRSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            +ID VG CVG +G RVQA+V EL+ E +DIV W+ D A F+ NAL PA V  V+ DE  
Sbjct: 242 PNIDAVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAVFIANALNPAQVMDVIFDETN 301

Query: 306 GRI-EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            +   V+VP  QLSLAIG+RGQN RLA++LT   IDI +E + +   +    +
Sbjct: 302 PKACTVVVPDYQLSLAIGKRGQNARLAAKLTNHKIDIKSESDMTEFYENQEQQ 354


>gi|46907548|ref|YP_013937.1| transcription elongation factor NusA [Listeria monocytogenes
           serotype 4b str. F2365]
 gi|46880816|gb|AAT04114.1| N utilization substance protein A [Listeria monocytogenes serotype
           4b str. F2365]
          Length = 372

 Score =  471 bits (1213), Expect = e-130,   Method: Composition-based stats.
 Identities = 147/338 (43%), Positives = 223/338 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     + ++K I R+V++  +  ++  A +  +    ++RV++N E G I +    E
Sbjct: 4   ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VE+V +   +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  AVEQVFDSRLEISMEEAHKLNPVYKPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y+ 
Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++++  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTANEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E    
Sbjct: 244 VDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEADQA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E 
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSET 341


>gi|217964531|ref|YP_002350209.1| transcription termination factor NusA [Listeria monocytogenes
           HCC23]
 gi|290893567|ref|ZP_06556550.1| N utilization substance protein A [Listeria monocytogenes FSL
           J2-071]
 gi|217333801|gb|ACK39595.1| transcription termination factor NusA [Listeria monocytogenes
           HCC23]
 gi|290556912|gb|EFD90443.1| N utilization substance protein A [Listeria monocytogenes FSL
           J2-071]
 gi|307570903|emb|CAR84082.1| transcription termination factor [Listeria monocytogenes L99]
 gi|313619131|gb|EFR90921.1| transcription termination factor NusA [Listeria innocua FSL S4-378]
          Length = 372

 Score =  471 bits (1213), Expect = e-130,   Method: Composition-based stats.
 Identities = 147/338 (43%), Positives = 223/338 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     + ++K I R+V++  +  ++  A +  +    ++RV++N E G I +    E
Sbjct: 4   ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VE+V +   +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  AVEQVFDSRLEISMEEAHKLNPVYKPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y+ 
Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++++  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTANEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E    
Sbjct: 244 VDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEADQA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E 
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSET 341


>gi|254824619|ref|ZP_05229620.1| transcription elongation factor NusA [Listeria monocytogenes FSL
           J1-194]
 gi|254852628|ref|ZP_05241976.1| transcription elongation factor NusA [Listeria monocytogenes FSL
           R2-503]
 gi|254932363|ref|ZP_05265722.1| transcription elongation factor NusA [Listeria monocytogenes
           HPB2262]
 gi|255521785|ref|ZP_05389022.1| transcription elongation factor NusA [Listeria monocytogenes FSL
           J1-175]
 gi|300765438|ref|ZP_07075420.1| N utilization substance protein A [Listeria monocytogenes FSL
           N1-017]
 gi|258605943|gb|EEW18551.1| transcription elongation factor NusA [Listeria monocytogenes FSL
           R2-503]
 gi|293583919|gb|EFF95951.1| transcription elongation factor NusA [Listeria monocytogenes
           HPB2262]
 gi|293593857|gb|EFG01618.1| transcription elongation factor NusA [Listeria monocytogenes FSL
           J1-194]
 gi|300513875|gb|EFK40940.1| N utilization substance protein A [Listeria monocytogenes FSL
           N1-017]
 gi|328468605|gb|EGF39605.1| transcription elongation factor NusA [Listeria monocytogenes 1816]
 gi|328475044|gb|EGF45832.1| transcription elongation factor NusA [Listeria monocytogenes 220]
 gi|332311765|gb|EGJ24860.1| Transcription elongation protein nusA [Listeria monocytogenes str.
           Scott A]
          Length = 372

 Score =  471 bits (1213), Expect = e-130,   Method: Composition-based stats.
 Identities = 147/338 (43%), Positives = 223/338 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     + ++K I R+V++  +  ++  A +  +    ++RV++N E G I +    E
Sbjct: 4   ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VE+V +   +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  AVEQVFDSRLEISMEEAHKLNPVYKPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y+ 
Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++++  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTANEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E    
Sbjct: 244 VDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEADQA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E 
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSET 341


>gi|78358201|ref|YP_389650.1| transcription elongation factor NusA [Desulfovibrio desulfuricans
           subsp. desulfuricans str. G20]
 gi|78220606|gb|ABB39955.1| NusA antitermination factor [Desulfovibrio desulfuricans subsp.
           desulfuricans str. G20]
          Length = 429

 Score =  471 bits (1213), Expect = e-130,   Method: Composition-based stats.
 Identities = 178/409 (43%), Positives = 270/409 (66%), Gaps = 5/409 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            +EL +  D ++ ++ +DR +++  + ++++ +    YG   D+ V  N ETG+I +++ 
Sbjct: 2   SMELKKAIDQISKDRGLDRALLIETLEEAVRTSVIRKYGDELDLEVNFNEETGEIEVYQF 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             V EEVE+   QISL+ AR  DPS+ +   +   L   D GR+A QSAKQVIIQ++R+A
Sbjct: 62  KIVTEEVEDEASQISLEDARAHDPSVQLDDEMGFRLKIEDLGRIAAQSAKQVIIQRMRDA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E++  Y EFKD++ E+ SG ++R +    I++LG ++ ++ +DE I RE+ + GDRV++ 
Sbjct: 122 EQEIIYEEFKDRLNEVASGIIQRRDKTGWIINLGRTEALLPKDEQIPREHYKRGDRVQAI 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +VR+E RGPQV++SR+HP +M  LF  EVPE+ +  VQV  V+RDPGSRAK+AV S D
Sbjct: 182 IIEVRKEGRGPQVVVSRSHPDYMAALFKREVPEVDDETVQVMGVARDPGSRAKVAVTSRD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG+RGSR+Q +V ELR E+IDIVVWSPD AT+  NAL PA+++++++DE+ 
Sbjct: 242 RDVDPVGACVGIRGSRIQNIVQELRGERIDIVVWSPDIATYARNALSPAVISRIIVDEEE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             +EV+VP +QL+ AIGR+GQNV+LAS+L GW IDI TE      R  + N   +   Q 
Sbjct: 302 NMLEVVVPDDQLTNAIGRKGQNVKLASKLLGWKIDIYTET-----RYNEANAIGRGLEQL 356

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
            +V E+     VA GF+ +EEL      E+ ++EG       +++    
Sbjct: 357 ASVAEVPIEQFVAAGFSSIEELRDATDEELMAVEGLTPGKISDLRAAIN 405


>gi|303240818|ref|ZP_07327331.1| transcription termination factor NusA [Acetivibrio cellulolyticus
           CD2]
 gi|302591706|gb|EFL61441.1| transcription termination factor NusA [Acetivibrio cellulolyticus
           CD2]
          Length = 371

 Score =  471 bits (1213), Expect = e-130,   Method: Composition-based stats.
 Identities = 147/363 (40%), Positives = 237/363 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L+   + +  EK I++D+++  +  ++  A +  +G+  ++RV ++ +TGD  ++ L  
Sbjct: 4   DLIHALEQLEKEKGIEKDIIIEAIEAALISAYKRNFGSSQNVRVSVDRQTGDFKVYALKR 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V  + +N    IS++ A+  +  +D   +    + P  FGR+A Q+AKQV++Q++REAER
Sbjct: 64  VTSDPQNEYMDISVENAKKINAELDEEDMAEVEVTPKKFGRIAAQTAKQVVVQRLREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              + EF +K  EI++G V+R E  NVI+DLG ++ V+   E IS E  +  DR+K Y+ 
Sbjct: 124 GIIFDEFSNKEAEIVTGIVQRTEKKNVIIDLGKTEAVLAPTEQISGEEYKFNDRIKVYVI 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+R  +GPQ+++SRTHP  + +LF +EVPEI+ G+V++K++SR+PGSR K+AV+S D +
Sbjct: 184 EVKRTTKGPQIMVSRTHPGLIKRLFELEVPEIHEGVVEIKSISREPGSRTKIAVYSKDDN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G+RVQ +V ELR EKIDI+ WS +   ++ ++L PA V +V + E+   
Sbjct: 244 VDPVGACVGQKGTRVQTIVDELRGEKIDIIKWSSNPQEYISSSLSPAKVVRVDISEEEKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
            +V VP  QLSLAIG+ GQN RLA++LTGW IDI +E +     ++        F  A +
Sbjct: 304 AKVTVPDFQLSLAIGKEGQNARLAAKLTGWKIDIKSESQLRATIEQQLLNFDGGFQSAFS 363

Query: 368 VDE 370
            DE
Sbjct: 364 EDE 366


>gi|194014307|ref|ZP_03052924.1| transcription termination factor NusA [Bacillus pumilus ATCC 7061]
 gi|194013333|gb|EDW22898.1| transcription termination factor NusA [Bacillus pumilus ATCC 7061]
          Length = 371

 Score =  471 bits (1212), Expect = e-130,   Method: Composition-based stats.
 Identities = 151/368 (41%), Positives = 233/368 (63%), Gaps = 1/368 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +++++  +  ++  A +  +    ++RV++N ETG I +F   +
Sbjct: 4   ELLDALTVLEKEKGISKEIIIEAIEAALISAYKRNFNQAQNVRVDLNRETGTIRVFARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +IS+  A + +P+  +G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDEVYDSRLEISVDDAANMNPNYMVGDVVEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R++   + V LG  + ++  +E +  E+ +P DR+K +I 
Sbjct: 124 GVIYTEFIDREEDIMTGIVQRIDSKFIYVSLGKIEALLPVNEQMPNEDYKPHDRIKVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+V+R+ G R+K++V + D  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEIEVPEIYDGTVELKSVAREAGDRSKISVRTDDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQA+V EL+ EKIDIV WS D   FV NAL P+ V  V+++E+   
Sbjct: 244 VDPVGSCVGPKGQRVQAIVNELKGEKIDIVHWSNDPVEFVANALSPSKVLDVIVNEEDKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI-NRQKDFNERTQFFMQAI 366
             VIVP  QLSLAIG+RGQN RLA++LT W IDI +E +           +    F++A 
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTSWKIDIKSETDARELGIFPRTEDSESLFLEAE 363

Query: 367 NVDEIIAH 374
            V E    
Sbjct: 364 PVAEESDE 371


>gi|157692343|ref|YP_001486805.1| transcription elongation factor NusA [Bacillus pumilus SAFR-032]
 gi|157681101|gb|ABV62245.1| transcription elongation factor NusA [Bacillus pumilus SAFR-032]
          Length = 371

 Score =  471 bits (1212), Expect = e-130,   Method: Composition-based stats.
 Identities = 151/368 (41%), Positives = 233/368 (63%), Gaps = 1/368 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +++++  +  ++  A +  +    ++RV++N ETG I +F   +
Sbjct: 4   ELLDALTVLEKEKGISKEIIIEAIEAALISAYKRNFNQAQNVRVDLNRETGTIRVFARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +IS+  A + +P+  +G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDEVYDSRLEISVDDAANINPNYMVGDVVEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R++   + V LG  + ++  +E +  E+ +P DR+K +I 
Sbjct: 124 GVIYTEFIDREEDIMTGIVQRIDSKFIYVSLGKIEALLPVNEQMPNEDYKPHDRIKVFIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+V+R+ G R+K++V + D  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEIEVPEIYDGTVELKSVAREAGDRSKISVRTDDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQA+V EL+ EKIDIV WS D   FV NAL P+ V  V+++E+   
Sbjct: 244 VDPVGSCVGPKGQRVQAIVNELKGEKIDIVHWSNDPVEFVANALSPSKVLDVIVNEEDKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI-NRQKDFNERTQFFMQAI 366
             VIVP  QLSLAIG+RGQN RLA++LT W IDI +E +           +    F++A 
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTSWKIDIKSETDARELGIFPRTEDSESLFLEAE 363

Query: 367 NVDEIIAH 374
            V E    
Sbjct: 364 PVAEESDE 371


>gi|317484449|ref|ZP_07943362.1| transcription termination factor NusA [Bilophila wadsworthia 3_1_6]
 gi|316924309|gb|EFV45482.1| transcription termination factor NusA [Bilophila wadsworthia 3_1_6]
          Length = 434

 Score =  471 bits (1212), Expect = e-130,   Method: Composition-based stats.
 Identities = 169/409 (41%), Positives = 267/409 (65%), Gaps = 5/409 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            LEL +  D ++ +K +DRD+++  + D+++ +    YG   D+ V  N +TG+I + + 
Sbjct: 2   NLELKKAIDQISKDKGLDRDMLVDTLEDAVRTSVIRKYGENIDVEVSYNDDTGEIQVHQF 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV++V +   +I ++ AR+ DPS+ +   +  PL   D GR+A QSAKQVIIQ++R+A
Sbjct: 62  KIVVDDVADPDTEIDIEKARELDPSVQLDDEIGFPLKVTDLGRIAAQSAKQVIIQRMRDA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E++  Y EFKD+VGEI SG ++R + G  I++LG ++ ++ ++E I RE+ + GDRV++ 
Sbjct: 122 EQELIYEEFKDRVGEICSGIIQRRDKGGWIINLGRTEAILPKEEQIPREHYKRGDRVQAL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V++E RGPQ+++SR+H  +   LF  EVPE+ +G VQ+  V+RDPGSRAK+AV S +
Sbjct: 182 IIEVKKEGRGPQIVISRSHRDYTAALFRREVPEVDDGTVQIMGVARDPGSRAKVAVLSRE 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG+RGSR+Q +V EL  E+IDIVVWSP+ +T+  NAL PA+++++V+DE  
Sbjct: 242 RDVDPVGACVGVRGSRIQNIVQELHGERIDIVVWSPEISTYARNALAPAVISRIVVDEAE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             +EV VP +QL+ AIGR+GQNV+LA++L GW IDI TE      R  + N   +   Q 
Sbjct: 302 NLLEVTVPDDQLTSAIGRKGQNVKLAAKLLGWKIDIFTET-----RYNETNAIGRGLEQV 356

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
            +V E+    LV+ GF  +E+L      E++      +    +++    
Sbjct: 357 ASVAEVSVDSLVSAGFTTLEQLQDATDEELSEKLSLSDSRIGDLRAAIN 405


>gi|256618850|ref|ZP_05475696.1| transcription termination factor NusA [Enterococcus faecalis ATCC
           4200]
 gi|256598377|gb|EEU17553.1| transcription termination factor NusA [Enterococcus faecalis ATCC
           4200]
          Length = 399

 Score =  471 bits (1212), Expect = e-130,   Method: Composition-based stats.
 Identities = 152/370 (41%), Positives = 231/370 (62%), Gaps = 3/370 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L   D +  EK I +D V+  +  ++  A +  YG  S++ VE  P+ G+I ++ +
Sbjct: 2   SKEMLNALDVLEAEKGIPKDTVIEALQAALVSAYKRHYGQASNVEVEFEPKKGNIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV EEV +   ++SLK A   + + +IG  +   + P DFGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVTEEVFDSQLEVSLKDAVALNGAYEIGDKIRFEVTPKDFGRIAAQTAKQVILQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF     +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K Y
Sbjct: 122 ERTIIYNEFSKYENDIMQGIVERQDRRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SR+HP  + +LF  E+PE+Y+GIV++ +V+R+ G R+K+AV S+D
Sbjct: 182 VSRVENTSKGPQVFVSRSHPDLLKRLFEQEIPEVYDGIVEIVSVAREAGDRSKVAVRSTD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD-ED 304
            +IDPVG CVG +G RVQA+V EL+ E +DIV W+ D A ++ NAL PA V  V+ D E+
Sbjct: 242 PNIDPVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAIYISNALNPAQVLDVIFDPEN 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
                V+VP  QLSLAIG+RGQN RLA++LTG  IDI +E + +   ++  N+      +
Sbjct: 302 SKACTVVVPDYQLSLAIGKRGQNARLAAKLTGHKIDIKSESDMAEFYEQQANQEVAEVAE 361

Query: 365 AINVDEIIAH 374
              +DE I H
Sbjct: 362 --EMDEAIIH 369


>gi|226223923|ref|YP_002758030.1| N utilization substance protein A (NusA protein) [Listeria
           monocytogenes Clip81459]
 gi|225876385|emb|CAS05094.1| Putative N utilization substance protein A (NusA protein) [Listeria
           monocytogenes serotype 4b str. CLIP 80459]
          Length = 372

 Score =  471 bits (1212), Expect = e-130,   Method: Composition-based stats.
 Identities = 147/338 (43%), Positives = 223/338 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     + ++K I R+V++  +  ++  A +  +    ++RV++N E G I +    E
Sbjct: 4   ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VE+V +   +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  AVEQVFDSRLEISMEEAHKVNPVYKPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y+ 
Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++++  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTANEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E    
Sbjct: 244 VDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEADQA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E 
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSET 341


>gi|257085469|ref|ZP_05579830.1| transcription termination factor NusA [Enterococcus faecalis Fly1]
 gi|256993499|gb|EEU80801.1| transcription termination factor NusA [Enterococcus faecalis Fly1]
          Length = 403

 Score =  471 bits (1212), Expect = e-130,   Method: Composition-based stats.
 Identities = 152/370 (41%), Positives = 232/370 (62%), Gaps = 3/370 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L   D +  EK I +D V+  +  ++  A +  YG  S++ VE  P+ G+I ++ +
Sbjct: 2   SKEMLNALDVLEAEKGIPKDTVIEALQAALVSAYKRHYGQASNVEVEFEPKKGNIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV EEV +   ++SLK A   + + +IG  +   + P DFGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVTEEVFDSQLEVSLKDAVALNGAYEIGDKIRFEVTPKDFGRIAAQTAKQVILQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF +   +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K Y
Sbjct: 122 ERTIIYNEFSEYENDIMQGIVERQDRRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SR+HP  + +LF  E+PE+Y+GIV++ +V+R+ G R+K+AV S+D
Sbjct: 182 VSRVENTSKGPQVFVSRSHPDLLKRLFEQEIPEVYDGIVEIVSVAREAGDRSKVAVRSTD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD-ED 304
            +IDPVG CVG +G RVQA+V EL+ E +DIV W+ D A ++ NAL PA V  V+ D E+
Sbjct: 242 PNIDPVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAIYISNALNPAQVLDVIFDPEN 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
                V+VP  QLSLAIG+RGQN RLA++LTG  IDI +E + +   ++  N+      +
Sbjct: 302 SKACTVVVPDYQLSLAIGKRGQNARLAAKLTGHKIDIKSESDMAEFYEQQANQEVAEVAE 361

Query: 365 AINVDEIIAH 374
              +DE I H
Sbjct: 362 --EMDEAIIH 369


>gi|29375840|ref|NP_814994.1| transcription elongation factor NusA [Enterococcus faecalis V583]
 gi|227518531|ref|ZP_03948580.1| transcription elongation factor NusA [Enterococcus faecalis TX0104]
 gi|227553057|ref|ZP_03983106.1| transcription elongation factor NusA [Enterococcus faecalis HH22]
 gi|229546052|ref|ZP_04434777.1| transcription elongation factor NusA [Enterococcus faecalis TX1322]
 gi|229550242|ref|ZP_04438967.1| transcription elongation factor NusA [Enterococcus faecalis ATCC
           29200]
 gi|255973018|ref|ZP_05423604.1| transcription termination factor NusA [Enterococcus faecalis T1]
 gi|256762268|ref|ZP_05502848.1| transcription termination factor NusA [Enterococcus faecalis T3]
 gi|256852913|ref|ZP_05558283.1| transcription elongation factor NusA [Enterococcus faecalis T8]
 gi|256958759|ref|ZP_05562930.1| transcription termination factor NusA [Enterococcus faecalis DS5]
 gi|256962135|ref|ZP_05566306.1| transcription termination factor NusA [Enterococcus faecalis
           Merz96]
 gi|256965334|ref|ZP_05569505.1| transcription termination factor NusA [Enterococcus faecalis
           HIP11704]
 gi|257078788|ref|ZP_05573149.1| transcription termination factor NusA [Enterococcus faecalis JH1]
 gi|257082768|ref|ZP_05577129.1| transcription termination factor NusA [Enterococcus faecalis E1Sol]
 gi|257086618|ref|ZP_05580979.1| transcription termination factor NusA [Enterococcus faecalis D6]
 gi|257089675|ref|ZP_05584036.1| transcriptional termination factor nusA [Enterococcus faecalis
           CH188]
 gi|257415889|ref|ZP_05592883.1| transcription termination factor NusA [Enterococcus faecalis
           AR01/DG]
 gi|257419091|ref|ZP_05596085.1| transcription termination factor nusA [Enterococcus faecalis T11]
 gi|257422841|ref|ZP_05599831.1| transcription elongation factor nusA [Enterococcus faecalis X98]
 gi|293383160|ref|ZP_06629077.1| transcription termination factor NusA [Enterococcus faecalis R712]
 gi|293387686|ref|ZP_06632231.1| transcription termination factor NusA [Enterococcus faecalis S613]
 gi|294780121|ref|ZP_06745494.1| transcription termination factor NusA [Enterococcus faecalis PC1.1]
 gi|300859670|ref|ZP_07105758.1| transcription termination factor NusA [Enterococcus faecalis TUSoD
           Ef11]
 gi|307268540|ref|ZP_07549913.1| transcription termination factor NusA [Enterococcus faecalis
           TX4248]
 gi|307273441|ref|ZP_07554686.1| transcription termination factor NusA [Enterococcus faecalis
           TX0855]
 gi|307277604|ref|ZP_07558696.1| transcription termination factor NusA [Enterococcus faecalis
           TX2134]
 gi|307288429|ref|ZP_07568417.1| transcription termination factor NusA [Enterococcus faecalis
           TX0109]
 gi|307291252|ref|ZP_07571136.1| transcription termination factor NusA [Enterococcus faecalis
           TX0411]
 gi|312899340|ref|ZP_07758673.1| transcription termination factor NusA [Enterococcus faecalis
           TX0470]
 gi|312904021|ref|ZP_07763189.1| transcription termination factor NusA [Enterococcus faecalis
           TX0635]
 gi|312907251|ref|ZP_07766242.1| transcription termination factor NusA [Enterococcus faecalis DAPTO
           512]
 gi|312909869|ref|ZP_07768717.1| transcription termination factor NusA [Enterococcus faecalis DAPTO
           516]
 gi|312952268|ref|ZP_07771143.1| transcription termination factor NusA [Enterococcus faecalis
           TX0102]
 gi|29343302|gb|AAO81064.1| N utilization substance protein A [Enterococcus faecalis V583]
 gi|227074013|gb|EEI11976.1| transcription elongation factor NusA [Enterococcus faecalis TX0104]
 gi|227177800|gb|EEI58772.1| transcription elongation factor NusA [Enterococcus faecalis HH22]
 gi|229304680|gb|EEN70676.1| transcription elongation factor NusA [Enterococcus faecalis ATCC
           29200]
 gi|229308825|gb|EEN74812.1| transcription elongation factor NusA [Enterococcus faecalis TX1322]
 gi|255964036|gb|EET96512.1| transcription termination factor NusA [Enterococcus faecalis T1]
 gi|256683519|gb|EEU23214.1| transcription termination factor NusA [Enterococcus faecalis T3]
 gi|256711372|gb|EEU26410.1| transcription elongation factor NusA [Enterococcus faecalis T8]
 gi|256949255|gb|EEU65887.1| transcription termination factor NusA [Enterococcus faecalis DS5]
 gi|256952631|gb|EEU69263.1| transcription termination factor NusA [Enterococcus faecalis
           Merz96]
 gi|256955830|gb|EEU72462.1| transcription termination factor NusA [Enterococcus faecalis
           HIP11704]
 gi|256986818|gb|EEU74120.1| transcription termination factor NusA [Enterococcus faecalis JH1]
 gi|256990798|gb|EEU78100.1| transcription termination factor NusA [Enterococcus faecalis E1Sol]
 gi|256994648|gb|EEU81950.1| transcription termination factor NusA [Enterococcus faecalis D6]
 gi|256998487|gb|EEU85007.1| transcriptional termination factor nusA [Enterococcus faecalis
           CH188]
 gi|257157717|gb|EEU87677.1| transcription termination factor NusA [Enterococcus faecalis
           ARO1/DG]
 gi|257160919|gb|EEU90879.1| transcription termination factor nusA [Enterococcus faecalis T11]
 gi|257164665|gb|EEU94625.1| transcription elongation factor nusA [Enterococcus faecalis X98]
 gi|291079499|gb|EFE16863.1| transcription termination factor NusA [Enterococcus faecalis R712]
 gi|291082875|gb|EFE19838.1| transcription termination factor NusA [Enterococcus faecalis S613]
 gi|294452796|gb|EFG21225.1| transcription termination factor NusA [Enterococcus faecalis PC1.1]
 gi|295112810|emb|CBL31447.1| transcription termination factor NusA [Enterococcus sp. 7L76]
 gi|300850488|gb|EFK78237.1| transcription termination factor NusA [Enterococcus faecalis TUSoD
           Ef11]
 gi|306497483|gb|EFM67016.1| transcription termination factor NusA [Enterococcus faecalis
           TX0411]
 gi|306500600|gb|EFM69929.1| transcription termination factor NusA [Enterococcus faecalis
           TX0109]
 gi|306505869|gb|EFM75047.1| transcription termination factor NusA [Enterococcus faecalis
           TX2134]
 gi|306509968|gb|EFM78993.1| transcription termination factor NusA [Enterococcus faecalis
           TX0855]
 gi|306515136|gb|EFM83678.1| transcription termination factor NusA [Enterococcus faecalis
           TX4248]
 gi|310626279|gb|EFQ09562.1| transcription termination factor NusA [Enterococcus faecalis DAPTO
           512]
 gi|310629652|gb|EFQ12935.1| transcription termination factor NusA [Enterococcus faecalis
           TX0102]
 gi|310632497|gb|EFQ15780.1| transcription termination factor NusA [Enterococcus faecalis
           TX0635]
 gi|311289827|gb|EFQ68383.1| transcription termination factor NusA [Enterococcus faecalis DAPTO
           516]
 gi|311293491|gb|EFQ72047.1| transcription termination factor NusA [Enterococcus faecalis
           TX0470]
 gi|315027493|gb|EFT39425.1| transcription termination factor NusA [Enterococcus faecalis
           TX2137]
 gi|315030928|gb|EFT42860.1| transcription termination factor NusA [Enterococcus faecalis
           TX4000]
 gi|315034084|gb|EFT46016.1| transcription termination factor NusA [Enterococcus faecalis
           TX0017]
 gi|315036752|gb|EFT48684.1| transcription termination factor NusA [Enterococcus faecalis
           TX0027]
 gi|315145578|gb|EFT89594.1| transcription termination factor NusA [Enterococcus faecalis
           TX2141]
 gi|315147751|gb|EFT91767.1| transcription termination factor NusA [Enterococcus faecalis
           TX4244]
 gi|315151452|gb|EFT95468.1| transcription termination factor NusA [Enterococcus faecalis
           TX0012]
 gi|315153231|gb|EFT97247.1| transcription termination factor NusA [Enterococcus faecalis
           TX0031]
 gi|315155990|gb|EFU00007.1| transcription termination factor NusA [Enterococcus faecalis
           TX0043]
 gi|315157838|gb|EFU01855.1| transcription termination factor NusA [Enterococcus faecalis
           TX0312]
 gi|315160336|gb|EFU04353.1| transcription termination factor NusA [Enterococcus faecalis
           TX0645]
 gi|315165485|gb|EFU09502.1| transcription termination factor NusA [Enterococcus faecalis
           TX1302]
 gi|315166759|gb|EFU10776.1| transcription termination factor NusA [Enterococcus faecalis
           TX1341]
 gi|315169950|gb|EFU13967.1| transcription termination factor NusA [Enterococcus faecalis
           TX1342]
 gi|315575674|gb|EFU87865.1| transcription termination factor NusA [Enterococcus faecalis
           TX0309B]
 gi|315578368|gb|EFU90559.1| transcription termination factor NusA [Enterococcus faecalis
           TX0630]
 gi|315579882|gb|EFU92073.1| transcription termination factor NusA [Enterococcus faecalis
           TX0309A]
 gi|323480502|gb|ADX79941.1| transcription elongation protein nusA [Enterococcus faecalis 62]
 gi|327534893|gb|AEA93727.1| transcription termination factor NusA [Enterococcus faecalis OG1RF]
          Length = 399

 Score =  471 bits (1212), Expect = e-130,   Method: Composition-based stats.
 Identities = 152/370 (41%), Positives = 232/370 (62%), Gaps = 3/370 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L   D +  EK I +D V+  +  ++  A +  YG  S++ VE  P+ G+I ++ +
Sbjct: 2   SKEMLNALDVLEAEKGIPKDTVIEALQAALVSAYKRHYGQASNVEVEFEPKKGNIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV EEV +   ++SLK A   + + +IG  +   + P DFGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVTEEVFDSQLEVSLKDAVALNGAYEIGDKIRFEVTPKDFGRIAAQTAKQVILQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF +   +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K Y
Sbjct: 122 ERTIIYNEFSEYENDIMQGIVERQDRRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SR+HP  + +LF  E+PE+Y+GIV++ +V+R+ G R+K+AV S+D
Sbjct: 182 VSRVENTSKGPQVFVSRSHPDLLKRLFEQEIPEVYDGIVEIVSVAREAGDRSKVAVRSTD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD-ED 304
            +IDPVG CVG +G RVQA+V EL+ E +DIV W+ D A ++ NAL PA V  V+ D E+
Sbjct: 242 PNIDPVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAIYISNALNPAQVLDVIFDPEN 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
                V+VP  QLSLAIG+RGQN RLA++LTG  IDI +E + +   ++  N+      +
Sbjct: 302 SKACTVVVPDYQLSLAIGKRGQNARLAAKLTGHKIDIKSESDMAEFYEQQANQEVAEVAE 361

Query: 365 AINVDEIIAH 374
              +DE I H
Sbjct: 362 --EMDEAIIH 369


>gi|293570613|ref|ZP_06681664.1| transcription termination factor NusA [Enterococcus faecium E980]
 gi|291609284|gb|EFF38555.1| transcription termination factor NusA [Enterococcus faecium E980]
          Length = 391

 Score =  470 bits (1211), Expect = e-130,   Method: Composition-based stats.
 Identities = 148/380 (38%), Positives = 233/380 (61%), Gaps = 4/380 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L   DA+  EK I +++V+  +  ++  A +  YG   ++ VE + + G I ++ +
Sbjct: 2   SKEMLNALDALEAEKGISKEIVIDALEAALVSAYKRHYGQAQNVEVEFDQKKGKIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV EEV +   ++SLK A   +P+ +IG  +   + P DFGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVTEEVMDSQLEVSLKDALLINPAYEIGDTIRFEVTPKDFGRIAAQTAKQVILQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF     +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K Y
Sbjct: 122 ERTIIYNEFSAYEKDIMQGIVERQDKRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SR+HP  + +LF  EVPE+Y+GIV++ +++R+ G R+K+AV S+D
Sbjct: 182 VSRVENTSKGPQVFVSRSHPDLLRRLFEQEVPEVYDGIVEIVSIAREAGDRSKVAVRSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            +ID VG CVG +G RVQA+V EL+ E +DIV W+ D A F+ NAL PA V  V+ DE  
Sbjct: 242 QNIDAVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAVFIANALNPAQVMDVIFDETN 301

Query: 306 GRI-EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
            +   V+VP  QLSLAIG+RGQN RLA++LT   IDI +E + +   +K   +      +
Sbjct: 302 PKACTVVVPDYQLSLAIGKRGQNARLAAKLTNHKIDIKSESDMAEFYEKQEQQNE---TE 358

Query: 365 AINVDEIIAHLLVAEGFADV 384
            ++ + I+   L  + +  +
Sbjct: 359 ELHDEAIVQSDLTDDEYETI 378


>gi|42523053|ref|NP_968433.1| transcription elongation factor NusA [Bdellovibrio bacteriovorus
           HD100]
 gi|39575258|emb|CAE79426.1| N utilization substance protein A [Bdellovibrio bacteriovorus
           HD100]
          Length = 462

 Score =  470 bits (1211), Expect = e-130,   Method: Composition-based stats.
 Identities = 173/410 (42%), Positives = 261/410 (63%), Gaps = 7/410 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L ++ D V  +K ID+ VV+  +   +  AAR  YGT  +I    N +TG++ LF   E
Sbjct: 8   DLSKVIDQVGKDKGIDKQVVIDAITQGMLVAARKKYGTYREIEAAYNEDTGEVELFEFKE 67

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV  E+  +   +I L  A+  DP++ +   +   +   D GR+A Q+AKQ+I+QKVR+A
Sbjct: 68  VVPREKYIDEEVEIPLDEAQKLDPNVQLDDSIGIKMEASDLGRIAAQTAKQIIMQKVRDA 127

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  + EF+++ GEI SG  +RVE G ++VDLG ++  I   E I  E  +PGDR++ Y
Sbjct: 128 ERNIIFNEFEERKGEIASGIARRVEKGAIVVDLGRTEAYIPPREQIPGEQYKPGDRIQGY 187

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +VR+  RGPQ+++SR   ++++KLF MEVPEIY+G+V++ A +R+PG RAK+AV S D
Sbjct: 188 LSEVRQTTRGPQIIMSRADERYLMKLFEMEVPEIYDGVVEIMAAAREPGQRAKIAVRSKD 247

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           +S+DPVGACVGM+GSRVQ +V ELR EKIDIV W  D   F  NAL PA +++V LD+  
Sbjct: 248 NSVDPVGACVGMKGSRVQNIVQELRGEKIDIVPWDEDITRFACNALAPAEISRVFLDDAN 307

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             +E++VP  QLSLAIG+RGQNVRLA++LT W +DII+E   +    +         M  
Sbjct: 308 REMEIVVPDSQLSLAIGKRGQNVRLAAKLTTWKLDIISESSAASRTAESIFN----LMLI 363

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE-ETAVEIQGRAR 414
             + E +A  +   GF   + +A   + E+ +I G+D+ + A ++   A+
Sbjct: 364 PGMSETMAQNIFQSGFGSFQAVATAAVEELMTIPGYDDPDKAEKLSKEAK 413


>gi|323173571|gb|EFZ59200.1| transcription elongation protein nusA [Escherichia coli LT-68]
          Length = 381

 Score =  470 bits (1211), Expect = e-130,   Method: Composition-based stats.
 Identities = 167/398 (41%), Positives = 250/398 (62%), Gaps = 19/398 (4%)

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLR 177
           +QKVREAER     +F++  GEII+G VK+V   N+ +DLGN ++ VI R++ + REN R
Sbjct: 1   MQKVREAERAMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFR 60

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
           PGDRV+  +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRA
Sbjct: 61  PGDRVRGVLYSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRA 120

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V 
Sbjct: 121 KIAVKTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVA 180

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            +V+DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + + 
Sbjct: 181 SIVVDEDKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEAHA 240

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F + +++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+  L
Sbjct: 241 AIDTFTKYLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKNAL 300

Query: 418 EGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
             I    ++ + +   +++L ++ GID  +   L   G+ T+EDLA   +DDL       
Sbjct: 301 ATIAQAQEESLGDNKPADDLLNLEGIDRDLAFKLAARGVCTLEDLAEQGIDDLADIE--- 357

Query: 478 GGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                         G   ++  ++I+ AR  + W   E
Sbjct: 358 --------------GLTDEKAGALIMAAR-NICWFGDE 380


>gi|16078723|ref|NP_389542.1| transcription elongation factor NusA [Bacillus subtilis subsp.
           subtilis str. 168]
 gi|221309538|ref|ZP_03591385.1| transcription elongation factor NusA [Bacillus subtilis subsp.
           subtilis str. 168]
 gi|221313862|ref|ZP_03595667.1| transcription elongation factor NusA [Bacillus subtilis subsp.
           subtilis str. NCIB 3610]
 gi|221318785|ref|ZP_03600079.1| transcription elongation factor NusA [Bacillus subtilis subsp.
           subtilis str. JH642]
 gi|221323057|ref|ZP_03604351.1| transcription elongation factor NusA [Bacillus subtilis subsp.
           subtilis str. SMY]
 gi|321315427|ref|YP_004207714.1| transcription elongation factor NusA [Bacillus subtilis BSn5]
 gi|7404400|sp|P32727|NUSA_BACSU RecName: Full=Transcription elongation protein nusA
 gi|2634032|emb|CAB13533.1| transcription translation coupling factor involved in Rho-dependent
           transcription termination [Bacillus subtilis subsp.
           subtilis str. 168]
 gi|291484215|dbj|BAI85290.1| transcription elongation factor NusA [Bacillus subtilis subsp.
           natto BEST195]
 gi|320021701|gb|ADV96687.1| transcription elongation factor NusA [Bacillus subtilis BSn5]
          Length = 371

 Score =  470 bits (1211), Expect = e-130,   Method: Composition-based stats.
 Identities = 149/342 (43%), Positives = 226/342 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +++++  +  ++  A +  +    ++RV++N ETG I +F   +
Sbjct: 4   ELLDALTILEKEKGISKEIIIEAIEAALISAYKRNFNQAQNVRVDLNRETGSIRVFARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +IS++ A+   P   +G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  VVDEVYDQRLEISIEEAQGIHPEYMVGDVVEIEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R++   + V LG  + ++  +E +  E+ +P DR+K YI 
Sbjct: 124 GVIYSEFIDREEDIMTGIVQRLDNKFIYVSLGKIEALLPVNEQMPNESYKPHDRIKVYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+V+R+ G R+K++V + D  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEIEVPEIYDGTVELKSVAREAGDRSKISVRTDDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQA+V EL+ EKIDIV WS D   FV NAL P+ V  V+++E+   
Sbjct: 244 VDPVGSCVGPKGQRVQAIVNELKGEKIDIVNWSSDPVEFVANALSPSKVLDVIVNEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E +   
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDARE 345


>gi|227551756|ref|ZP_03981805.1| transcription termination factor NusA [Enterococcus faecium TX1330]
 gi|257895648|ref|ZP_05675301.1| transcription termination factor NusA [Enterococcus faecium Com12]
 gi|293377741|ref|ZP_06623930.1| transcription termination factor NusA [Enterococcus faecium PC4.1]
 gi|227179061|gb|EEI60033.1| transcription termination factor NusA [Enterococcus faecium TX1330]
 gi|257832213|gb|EEV58634.1| transcription termination factor NusA [Enterococcus faecium Com12]
 gi|292643741|gb|EFF61862.1| transcription termination factor NusA [Enterococcus faecium PC4.1]
          Length = 391

 Score =  470 bits (1210), Expect = e-130,   Method: Composition-based stats.
 Identities = 146/353 (41%), Positives = 224/353 (63%), Gaps = 1/353 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L   DA+  EK I +++V+  +  ++  A +  YG   ++ VE + + G I ++ +
Sbjct: 2   SKEMLNALDALEAEKGISKEIVIDALEAALVSAYKRHYGQAQNVEVEFDQKKGKIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV EEV +   ++SLK A   +P+ +IG  +   + P DFGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVTEEVMDSQLEVSLKDALLINPAYEIGDTIRFEVTPKDFGRIAAQTAKQVILQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF     +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K Y
Sbjct: 122 ERTIIYNEFSAYEKDIMQGIVERQDKRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SR+HP  + +LF  EVPE+Y+GIV++ +++R+ G R+K+AV S+D
Sbjct: 182 VSRVENTSKGPQVFVSRSHPDLLRRLFEQEVPEVYDGIVEIVSIAREAGDRSKVAVRSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            +ID VG CVG +G RVQA+V EL+ E +DIV W+ D A F+ NAL PA V  V+ DE  
Sbjct: 242 QNIDAVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAVFIANALNPAQVMDVIFDETN 301

Query: 306 GRI-EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            +   V+VP  QLSLAIG+RGQN RLA++LT   IDI +E + +   +K  ++
Sbjct: 302 PKACTVVVPDYQLSLAIGKRGQNARLAAKLTNHKIDIKSESDMAEFYEKQEHQ 354


>gi|153004006|ref|YP_001378331.1| NusA antitermination factor [Anaeromyxobacter sp. Fw109-5]
 gi|152027579|gb|ABS25347.1| NusA antitermination factor [Anaeromyxobacter sp. Fw109-5]
          Length = 556

 Score =  470 bits (1210), Expect = e-130,   Method: Composition-based stats.
 Identities = 205/538 (38%), Positives = 296/538 (55%), Gaps = 53/538 (9%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            + L  I D VA +K IDR  ++ ++ ++I  AA+  +G   +++   + E G + LF++
Sbjct: 4   NVNLNLILDQVAKDKGIDRTRLVEILEEAIGSAAKRHFGMERNLKARYDEEKGQVDLFQV 63

Query: 66  LEVVEEVE------NYTCQISLKVARDRDPSIDIGGVVSDPLPPM--------------- 104
           L +V +        +    I + VA ++   ++ G  +  P+                  
Sbjct: 64  LTIVTDPTEETPLADPVNMIPVSVAHEKGIEVEPGDELDFPIYYRTEDEAEARAQDEQWG 123

Query: 105 ----------DFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNV 154
                      FGR+A Q+AKQV+IQ  R AER+  + E+KD+ GE+I+G V+R E GNV
Sbjct: 124 DLLKLKTYRRSFGRIAAQTAKQVMIQGTRNAERENVFNEYKDRKGEVITGIVRRFERGNV 183

Query: 155 IVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHM 214
           IVDLG ++ V+   E + RE+ R GDR+++Y+ DV RE +GPQ++LSR     + KLF M
Sbjct: 184 IVDLGRAEAVLPVREQVPRESYRAGDRIQAYVMDVLRESKGPQIILSRASVDLLRKLFEM 243

Query: 215 EVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKI 274
           EVPEI  G+V ++A +R+PG RAK+AV S DS +DPVGACVGM+GSRVQAVV ELR EKI
Sbjct: 244 EVPEIAEGVVVIEAAAREPGGRAKIAVSSRDSDVDPVGACVGMKGSRVQAVVQELRGEKI 303

Query: 275 DIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQL 334
           DIV W  D A FV NAL PA V++V+LDE    +E+IVP +QLSLAIGRRGQNVRLASQL
Sbjct: 304 DIVPWDDDYARFVCNALAPAEVSRVLLDEQNKAMEIIVPDDQLSLAIGRRGQNVRLASQL 363

Query: 335 TGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISE 394
           TGW +DI +E      R K+  E       AI + E    +L A GF   +++A      
Sbjct: 364 TGWKLDINSES-----RVKEMREFATESFGAIGIPEATQEMLYAHGFRKAQDVANAASEM 418

Query: 395 IASIEGFDEETAVEIQGRARE------------YLEGIDITLQKKIR---ELGVSEELCS 439
           +    GF  +   E+Q RARE              E     + +  R   EL   E    
Sbjct: 419 LTQFPGFTMDMIPELQKRAREQSIVDAEKEMRLEQEREAARIAEARRHPDELTQEERFAR 478

Query: 440 IPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQ 497
           + G+  K    L   G  ++E +   S  D++  +E+ G  I+K      ++G   ++
Sbjct: 479 VRGVGEKTIEQLKVAGYGSVEAVHNES--DVMRLAESSGLGIKKARQLKHAVGVYLEE 534


>gi|257887083|ref|ZP_05666736.1| transcription termination factor NusA [Enterococcus faecium
           1,141,733]
 gi|257823137|gb|EEV50069.1| transcription termination factor NusA [Enterococcus faecium
           1,141,733]
          Length = 391

 Score =  469 bits (1209), Expect = e-130,   Method: Composition-based stats.
 Identities = 146/353 (41%), Positives = 223/353 (63%), Gaps = 1/353 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L   DA+  EK I +++V+  +  ++  A +  YG   ++ VE + + G I ++ +
Sbjct: 2   SKEMLNALDALEAEKGISKEIVIDALEAALVSAYKRHYGQAQNVEVEFDQKKGKIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV EEV +   ++SLK A   +P+ +IG  +   + P DFGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVTEEVMDSQLEVSLKDALLINPAYEIGDTIRFEVTPKDFGRIAAQTAKQVILQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF     +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K Y
Sbjct: 122 ERTIIYNEFSAYEKDIMQGIVERQDKRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SR+HP  + +LF  EVPE+Y+GIV++ +++R+ G R+K+AV S+D
Sbjct: 182 VSRVENTSKGPQVFVSRSHPDLLRRLFEQEVPEVYDGIVEIVSIAREAGDRSKVAVRSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            +ID VG CVG +G RVQA+V EL+ E +DIV W+ D A F+ NAL PA V  V+ DE  
Sbjct: 242 QNIDAVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAVFIANALNPAQVMDVIFDETN 301

Query: 306 GRI-EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            +   V+VP  QLSLAIG+RGQN RLA++LT   IDI +E + +   +K   +
Sbjct: 302 PKACTVVVPDYQLSLAIGKRGQNARLAAKLTNHKIDIKSESDMAEFYEKQEQQ 354


>gi|196229760|ref|ZP_03128624.1| NusA antitermination factor [Chthoniobacter flavus Ellin428]
 gi|196226086|gb|EDY20592.1| NusA antitermination factor [Chthoniobacter flavus Ellin428]
          Length = 421

 Score =  469 bits (1209), Expect = e-130,   Method: Composition-based stats.
 Identities = 168/411 (40%), Positives = 264/411 (64%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L   D    +K I R+V+L  + +++  AAR   G   D+RV+I+P++G++ ++  
Sbjct: 3   NSEILAGLDFFERDKGIKREVLLEAINNAVLAAARKAVGPAKDLRVDIDPKSGEMKVYAK 62

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           L VVE+VEN   +I L +A+     + +G  +  P+ P DFGR+A Q+AKQ ++Q++R+A
Sbjct: 63  LIVVEKVENKHDEIKLDLAKKFKNDVQLGEELEVPVTPRDFGRIAAQTAKQAMMQRIRQA 122

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E++  Y EFKD+ GEI+SGTV+R E  +V+VDLG  + V+   E +  E+   GDR+++Y
Sbjct: 123 EKEMIYDEFKDRAGEIVSGTVRRFERLDVVVDLGKFEAVMPNKERVQTEDYNVGDRIRAY 182

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V+   RGP++++SR+HP F+ +LF  EV EI +  V++K ++R+ G R K+AV+S++
Sbjct: 183 VVAVQNGARGPEIIISRSHPNFVRRLFETEVSEIADRTVEIKGIAREAGHRTKIAVWSAN 242

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVGMRG+RV+ +V EL +EK+DI+ WS D+  FV+ AL+PA V  V LDE  
Sbjct: 243 DKVDPVGACVGMRGARVKNIVRELNNEKVDIIRWSSDTKEFVLEALKPAKVKSVTLDESK 302

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             I + V ++QLSLAIG+RGQN RL S+LTGW I+I  ++    +  +   +  +    A
Sbjct: 303 KNILIKVDEDQLSLAIGKRGQNARLTSRLTGWDINIEQDKSVIEDFNERVGKAAKTLADA 362

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
           + +D+ +A  LV  G + +E L  V+  +IA   G   E A EIQ  A+  
Sbjct: 363 LGIDQAVAVSLVKGGLSTLETLTEVEPQDIADTVGIPLEKATEIQTAAKRA 413


>gi|124515701|gb|EAY57210.1| transcription termination factor (NusA) [Leptospirillum rubarum]
          Length = 452

 Score =  469 bits (1209), Expect = e-130,   Method: Composition-based stats.
 Identities = 173/431 (40%), Positives = 260/431 (60%), Gaps = 19/431 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL + D +  EK I ++ ++  +  ++  AAR  YG   + +VEINP TG++ + ++
Sbjct: 3   NQELLSVIDQLHREKGISQETLIVALESALLAAARKRYGGGDNFQVEINPRTGEVQVLQI 62

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VE VE+ + +ISL  A + DP  ++G  +   L   DFGR+A Q+AKQV+ QKVREA
Sbjct: 63  RRIVERVESPSEEISLAEALESDPEAEVGDEIGSYLEIDDFGRIAAQAAKQVMFQKVREA 122

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E D    EF  + G+I++G +   E  N IVDLG ++ V+   E + RE+ R GDR+K+ 
Sbjct: 123 EWDVVTKEFGGRQGDIVNGVIIGHERKNYIVDLGKTEAVLPLREQMPRESFRRGDRIKAL 182

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + D+R   RGPQ++LSRTHP F+ +LF  EVPEI  GI++V+ V R+PG RAK+AV+S D
Sbjct: 183 LLDMRTTSRGPQLVLSRTHPDFVSRLFEKEVPEIAEGILEVRNVVREPGERAKIAVYSRD 242

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED- 304
            ++DPVG+CVG++G RVQAVV EL  EK+DI+ W+ D ATF+  AL PA   +V + +  
Sbjct: 243 PNVDPVGSCVGVKGVRVQAVVRELHGEKVDIIEWNSDPATFIARALSPAKAVRVSIKDMG 302

Query: 305 -VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED-SINRQKDFNERTQFF 362
                 V+V   QLSLAIGRRG NVRLA++LTGW +DI +E +  S     +  ER    
Sbjct: 303 SEKVATVVVQDSQLSLAIGRRGHNVRLAAKLTGWKVDIFSETQMQSEAGLDERAERVASL 362

Query: 363 MQAI----------------NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
            + +                 V   +A +L   GF  ++ +A   +  I+++  F  +TA
Sbjct: 363 AETLGSQSGDTSLLRIEDLPGVGGNMAEILRDAGFDTLQAIAHASVEAISALPKFGPKTA 422

Query: 407 VEIQGRAREYL 417
            ++   A+++L
Sbjct: 423 AKLIQTAQDFL 433


>gi|315174358|gb|EFU18375.1| transcription termination factor NusA [Enterococcus faecalis
           TX1346]
          Length = 399

 Score =  469 bits (1209), Expect = e-130,   Method: Composition-based stats.
 Identities = 151/370 (40%), Positives = 232/370 (62%), Gaps = 3/370 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L   + +  EK I +D V+  +  ++  A +  YG  S++ VE  P+ G+I ++ +
Sbjct: 2   SKEMLNALEVLEAEKGIPKDTVIEALQAALVSAYKRHYGQASNVEVEFEPKKGNIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV EEV +   ++SLK A   + + +IG  +   + P DFGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVTEEVFDSQLEVSLKDAVALNGAYEIGDKIRFEVTPKDFGRIAAQTAKQVILQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF +   +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K Y
Sbjct: 122 ERTIIYNEFSEYENDIMQGIVERQDRRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SR+HP  + +LF  E+PE+Y+GIV++ +V+R+ G R+K+AV S+D
Sbjct: 182 VSRVENTSKGPQVFVSRSHPDLLKRLFEQEIPEVYDGIVEIVSVAREAGDRSKVAVRSTD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD-ED 304
            +IDPVG CVG +G RVQA+V EL+ E +DIV W+ D A ++ NAL PA V  V+ D E+
Sbjct: 242 PNIDPVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAIYISNALNPAQVLDVIFDPEN 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
                V+VP  QLSLAIG+RGQN RLA++LTG  IDI +E + +   ++  N+      +
Sbjct: 302 SKACTVVVPDYQLSLAIGKRGQNARLAAKLTGHKIDIKSESDMAEFYEQQANQEVAEVAE 361

Query: 365 AINVDEIIAH 374
              +DE I H
Sbjct: 362 --EMDEAIIH 369


>gi|259046783|ref|ZP_05737184.1| N utilization substance protein A [Granulicatella adiacens ATCC
           49175]
 gi|259036551|gb|EEW37806.1| N utilization substance protein A [Granulicatella adiacens ATCC
           49175]
          Length = 366

 Score =  469 bits (1209), Expect = e-130,   Method: Composition-based stats.
 Identities = 140/353 (39%), Positives = 218/353 (61%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  EK I +DVV++ +  ++  A +  YG   ++ VE + + G++ ++ +
Sbjct: 2   SKEMLRALTVLEEEKGISKDVVITALEAALVSAYKKNYGQAQNVEVEFDQKKGNMHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVE V + T ++SL+ A ++  + ++G  +   + P DFGR+A Q+AKQVI+Q++R+A
Sbjct: 62  KEVVEYVFDSTLEVSLEEAHEKHKAYEVGDKIRFEVTPKDFGRIAAQTAKQVIMQRLRDA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF     EI++G V R ++  V V+LG     + + + I  E   P  R+K  
Sbjct: 122 ERTNIYNEFIQYENEIMTGVVDRQDFRYVYVNLGRIVAGMAKQDQIPTEEYLPDQRIKVL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQ+ +SRTHP  + +LF  EVPEIY+G+V++ +++R+ G RAK+AV ++D
Sbjct: 182 VSKVDNTTKGPQIFVSRTHPDLLKRLFEQEVPEIYDGVVEIVSIAREAGDRAKVAVRTND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           +++DPVG CVG RG RV  +V EL  E +DIV W+ D A ++ NAL PA V KV  + D 
Sbjct: 242 ANLDPVGTCVGPRGQRVHNIVEELNGENMDIVEWNEDPAIYIKNALNPAQVLKVEFNSDN 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
               V+VP  QLSLAIG+RGQN RLA++LTG+ IDI +E       +   N  
Sbjct: 302 NGCIVVVPDHQLSLAIGKRGQNARLAAKLTGYRIDIKSETAYEEYLENLANPV 354


>gi|23099050|ref|NP_692516.1| transcription elongation factor NusA [Oceanobacillus iheyensis
           HTE831]
 gi|22777278|dbj|BAC13551.1| transcriptional termination-antitermination factor [Oceanobacillus
           iheyensis HTE831]
          Length = 364

 Score =  469 bits (1209), Expect = e-130,   Method: Composition-based stats.
 Identities = 146/345 (42%), Positives = 229/345 (66%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            ++L    + +A EK ID+D+++  +  ++  A +  + + S++RVE+N ETG ++++  
Sbjct: 2   SMQLFDAIENLAKEKGIDKDILMEALEAALISAYKKNFKSASNVRVELNEETGKMAVYAR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+E+E+   +I L  A+  DP+ ++  V+   + P DFGR+A Q+AKQV+ Q+VREA
Sbjct: 62  KTVVDEIEDVQQEIPLDEAKKIDPNYEVDDVIEVEVTPKDFGRIAAQAAKQVVTQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   + E+ D+  ++++G ++R +   V V+LG  +  +   E +  E+    DR+K +
Sbjct: 122 ERGVIFSEYVDREEDVMTGIIQRKDPRFVYVNLGKIEAKLAESEQMPTEDYHVHDRLKVF 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQ+ +SR+HP  + +LF MEVPEIY+G V++K+V+R+ G R+K++V++ D
Sbjct: 182 VTKVENTSKGPQIFISRSHPGLLKRLFEMEVPEIYDGTVEIKSVAREAGDRSKISVYAPD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVG+CVG RG RVQA+VTEL+ EKIDIV WS D   +V NAL P+ V KV ++E+ 
Sbjct: 242 PEIDPVGSCVGQRGQRVQAIVTELKGEKIDIVQWSEDPVVYVSNALSPSKVVKVSVNEEE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
               V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E E    
Sbjct: 302 KSTTVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSESEAREE 346


>gi|256830179|ref|YP_003158907.1| NusA antitermination factor [Desulfomicrobium baculatum DSM 4028]
 gi|256579355|gb|ACU90491.1| NusA antitermination factor [Desulfomicrobium baculatum DSM 4028]
          Length = 441

 Score =  469 bits (1208), Expect = e-130,   Method: Composition-based stats.
 Identities = 163/407 (40%), Positives = 263/407 (64%), Gaps = 5/407 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            LEL +  D ++ +K IDR++++  + ++I+ +    YG   DI V  N ETG+I +++ 
Sbjct: 2   NLELKKAIDQISKDKGIDREMLIDTLEEAIRASVTKKYGDKMDIEVTFNEETGEIEVYQF 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEE+E+   +I +  A   DP++++   +   L   D GR+A QSAKQVIIQ++R+A
Sbjct: 62  KIVVEEIEDPDTEILMVDALKHDPNVELDDAIGFRLQVEDLGRIAAQSAKQVIIQRMRDA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E++  + E+K++ GEI+SG ++R +    I++LG ++ ++ +D+ I RE  R GDRV+  
Sbjct: 122 EQEIIFEEYKNRKGEIVSGIIQRRDRSGWIINLGRTEALLPKDKQIPRERFRQGDRVEGL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +VR+E RGPQ++++R+ P++M  LF  EVPE+ +G V +  V+RDPG RAK+ V S D
Sbjct: 182 IIEVRKEGRGPQIIITRSDPEYMTALFRREVPEVADGTVNIMGVARDPGLRAKVTVLSQD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           S++DPVGACVG+RGSR+ ++V ELR E+IDIV+WSPD AT+  NAL PA ++K+ +D++ 
Sbjct: 242 SNVDPVGACVGIRGSRIHSIVQELRGERIDIVLWSPDIATYAANALSPARISKIAIDDEE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             +EV+VP++QL+ AIG++GQNV+LA++L GW IDI T       R    ++      Q 
Sbjct: 302 KSLEVVVPEDQLTPAIGKKGQNVKLAAKLLGWKIDIFT-----NTRFNKVHKDRHLLEQL 356

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGR 412
            +  ++        GF  +E +A     ++  I+G  EE    ++G 
Sbjct: 357 ASAAQVSIADFAEAGFDSLEAMAACTNEQLLDIQGISEENIGALRGA 403


>gi|315641143|ref|ZP_07896222.1| transcription elongation factor NusA [Enterococcus italicus DSM
           15952]
 gi|315483151|gb|EFU73668.1| transcription elongation factor NusA [Enterococcus italicus DSM
           15952]
          Length = 376

 Score =  469 bits (1208), Expect = e-130,   Method: Composition-based stats.
 Identities = 152/382 (39%), Positives = 231/382 (60%), Gaps = 13/382 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L   DA+  EK I +D+V+  +  ++  A +  YG   ++ VE + + G+I ++ +
Sbjct: 2   SKEMLNALDALEAEKGISKDIVIDALEAALISAYKRHYGQSQNVEVEFDRKKGNIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV EEV +   ++SLK A   +P+ +IG  +   + P DFGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVTEEVMDSQLEVSLKEAMTINPAYEIGDKIRFEVTPKDFGRIAAQTAKQVILQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF     +I+ G V+R +   + V+LG  + V+ + + ++ E  +P DR+K Y
Sbjct: 122 ERSIIYNEFSAYEKDIMQGIVERQDSRYIYVNLGKIEAVLSKQDQMANEFYQPHDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SR+HP  + +LF  EVPE+Y+G V++ +++R+ G R+K+AV S D
Sbjct: 182 VSRVENTSKGPQVFVSRSHPDLLRRLFEQEVPEVYDGTVEIVSIAREAGDRSKIAVRSHD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            +IDPVG CVG +G RVQA+V EL+ E +DIV W  D A F+ NAL PA VT V+ D   
Sbjct: 242 ENIDPVGTCVGPKGQRVQALVNELKGENMDIVEWDEDPAIFIANALNPAEVTDVLFDTTN 301

Query: 306 GRI-EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
            +   V+VP  QLSLAIG+RGQN RLA++LTG  IDI +E + +             F +
Sbjct: 302 PKACTVVVPDYQLSLAIGKRGQNARLAAKLTGHKIDIKSESDMAE------------FYE 349

Query: 365 AINVDEIIAHLLVAEGFADVEE 386
            ++  E  A +      A +E 
Sbjct: 350 ELDRQEAQADVSEDTEVATLEA 371


>gi|298528714|ref|ZP_07016118.1| NusA antitermination factor [Desulfonatronospira thiodismutans
           ASO3-1]
 gi|298512366|gb|EFI36268.1| NusA antitermination factor [Desulfonatronospira thiodismutans
           ASO3-1]
          Length = 432

 Score =  469 bits (1207), Expect = e-130,   Method: Composition-based stats.
 Identities = 170/434 (39%), Positives = 271/434 (62%), Gaps = 9/434 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            LEL +I D ++ +K IDRD+++  + ++++ +    YG+  DI V  N + G+I +++ 
Sbjct: 2   SLELKKIIDQISKDKGIDRDMLVDTLEEAVRSSVYKKYGSNLDIEVNFNEDNGEIEVYQF 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+E+ +   +I L+ A++ DP++ +   +   L   D GR+A QSAKQV++QK+R+A
Sbjct: 62  KVVVDEIGDPNNEILLEDAKEHDPNVQLEDELGFTLDVKDLGRIAAQSAKQVLMQKMRDA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E++  Y E+KD++GEIISG ++R +    I++LG ++ ++ RDE I +E    GDRV++Y
Sbjct: 122 EQEIIYEEYKDRIGEIISGIIQRRDRAGWIINLGRTEALLPRDEQIPKERFHRGDRVEAY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I DVRRE R PQ+++SR+HP++++ LF  EVPEI +G +++  V RDPG RAK+ V + D
Sbjct: 182 IIDVRRESRTPQIIVSRSHPEYLISLFKREVPEISDGTIKIMNVVRDPGKRAKVGVMTKD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG++GSR+  +V EL+ E+IDIV+WSPD AT+  NAL PA +T++ +DED 
Sbjct: 242 MDVDPVGACVGVKGSRIHNIVQELKGERIDIVIWSPDIATYAANALSPARITRITVDEDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             +EV+VP +QL+ AIG++GQNV+LAS L GW ID+ TE      R  +  E  Q   Q 
Sbjct: 302 KSLEVVVPDDQLTPAIGQKGQNVKLASSLLGWKIDVYTES-----RYNEVYEHHQVMEQL 356

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL- 424
            +   I       EGF  ++ L      E+       +E    ++G A  +L    + L 
Sbjct: 357 ASAAGISISEFNREGFDSLDSLVQSTDEELKQKLDLSDENLESLKG-AINFLGPQKLNLT 415

Query: 425 --QKKIRELGVSEE 436
             +  ++E    + 
Sbjct: 416 GEEPLLQEKKPEQN 429


>gi|257869192|ref|ZP_05648845.1| transcription termination factor NusA [Enterococcus gallinarum EG2]
 gi|257803356|gb|EEV32178.1| transcription termination factor NusA [Enterococcus gallinarum EG2]
          Length = 398

 Score =  469 bits (1207), Expect = e-130,   Method: Composition-based stats.
 Identities = 146/349 (41%), Positives = 224/349 (64%), Gaps = 1/349 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L   DA+  EK I +++V+  +  ++  A +  YG   ++ VE + + G+I ++ +
Sbjct: 2   SKEMLNALDALEAEKGISKEIVIDALEAALVSAYKRHYGQAQNVEVEFDQKKGNIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV EEV +   ++SLK A   +P+ +IG  +   + P DFGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVTEEVMDSQLEVSLKEAMTINPAYEIGDKIRFEVTPKDFGRIAAQTAKQVILQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF     +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K +
Sbjct: 122 ERTIIYNEFSAYEKDILQGIVERQDNRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVF 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SR+HP  + +LF  EVPE+Y+G V++ +++R+ G R+K+AV S D
Sbjct: 182 VSRVENTSKGPQVFVSRSHPDLLRRLFEQEVPEVYDGTVEIVSIAREAGDRSKVAVRSFD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           +++DPVG CVG +G RVQA+V EL+ E +DIV W+ D A F+ NAL PA VT V+ D D 
Sbjct: 242 ANVDPVGTCVGPKGQRVQAIVNELKGENMDIVEWNDDPAVFIANALNPAEVTDVIFDVDN 301

Query: 306 GRI-EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
            +   V+VP  QLSLAIG+RGQN RLA++LTG+ IDI +E +      K
Sbjct: 302 PKACTVVVPDYQLSLAIGKRGQNARLAAKLTGFKIDIKSESDMEEFYAK 350


>gi|257865909|ref|ZP_05645562.1| transcription termination factor NusA [Enterococcus casseliflavus
           EC30]
 gi|257872242|ref|ZP_05651895.1| transcription termination factor NusA [Enterococcus casseliflavus
           EC10]
 gi|257799843|gb|EEV28895.1| transcription termination factor NusA [Enterococcus casseliflavus
           EC30]
 gi|257806406|gb|EEV35228.1| transcription termination factor NusA [Enterococcus casseliflavus
           EC10]
          Length = 404

 Score =  468 bits (1206), Expect = e-130,   Method: Composition-based stats.
 Identities = 146/349 (41%), Positives = 225/349 (64%), Gaps = 1/349 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L   DA+  EK I +++V+  +  ++  A +  YG   ++ VE + + G+I ++ +
Sbjct: 2   SKEMLNALDALEAEKGISKEIVIDALEAALVSAYKRHYGQAQNVEVEFDQKKGNIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV EEV +   ++SLK A   +P+ +IG  +   + P DFGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVTEEVMDSQLEVSLKEAMTINPAYEIGDKIRFEVTPKDFGRIAAQTAKQVILQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  Y EF     +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K +
Sbjct: 122 ERNIIYNEFSAYEKDILQGIVERQDNRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVF 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SR+HP  + +LF  EVPE+Y+G V++ +++R+ G RAK+AV S D
Sbjct: 182 VSRVENTSKGPQVFVSRSHPDLLRRLFEQEVPEVYDGTVEIVSIAREAGDRAKVAVRSFD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           +++DPVG CVG +G RVQA+V EL+ E +DIV W+ D A F+ NAL PA V+ V+ D D 
Sbjct: 242 ANVDPVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAIFIANALNPAEVSDVIFDVDN 301

Query: 306 GRI-EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
            +   V+VP  QLSLAIG+RGQN RLA++LTG+ IDI +E +      K
Sbjct: 302 PKACTVVVPDYQLSLAIGKRGQNARLAAKLTGFKIDIKSETDMEEFYAK 350


>gi|303229675|ref|ZP_07316463.1| transcription termination factor NusA [Veillonella atypica
           ACS-134-V-Col7a]
 gi|303232179|ref|ZP_07318882.1| transcription termination factor NusA [Veillonella atypica
           ACS-049-V-Sch6]
 gi|302513285|gb|EFL55324.1| transcription termination factor NusA [Veillonella atypica
           ACS-049-V-Sch6]
 gi|302515800|gb|EFL57754.1| transcription termination factor NusA [Veillonella atypica
           ACS-134-V-Col7a]
          Length = 361

 Score =  468 bits (1205), Expect = e-129,   Method: Composition-based stats.
 Identities = 153/348 (43%), Positives = 222/348 (63%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+Q    +  +K    +V+   +  ++ +A R    +  D  VE+N ETG   +    +
Sbjct: 4   ELIQAVMVLTKQKGFAPEVIFESLEAALLQAYRKEPHSNPDAYVELNRETGAYKVMAKKQ 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE    +ISL  AR  D   +IG +V   + P +FGR A  +AKQ++IQ+++EAER
Sbjct: 64  VVETVEFPETEISLLDARKIDKRYEIGDIVEADVTPANFGRSAAHTAKQMLIQRLKEAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+  + G+II+G + RVE  NV ++LG ++ ++   E I  E    GDR+K YI 
Sbjct: 124 SVVYEEYYSREGDIITGVITRVEGKNVYINLGKTEAILPPTEQIGTETYHEGDRIKCYIV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V++  +GPQ+++SRTHP  + +LF +EVPEIY G+V++K+V+R+PG R+K+AV+S D S
Sbjct: 184 EVKKTTKGPQIMISRTHPGLLKRLFELEVPEIYEGVVELKSVAREPGMRSKIAVYSRDES 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVGACVG +G RVQ +V EL DEKIDIV W  D A ++ N+L PA V  V + E+   
Sbjct: 244 IDPVGACVGPKGQRVQHIVDELHDEKIDIVKWDEDPAIYIANSLSPAKVISVDVSEEEKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF 355
             V+VP  QLSLAIG+ GQN RLA++LT W IDI +E + + N    F
Sbjct: 304 SYVVVPDYQLSLAIGKAGQNARLAAKLTNWKIDIKSETQAAENPFTGF 351


>gi|325569920|ref|ZP_08145914.1| transcription elongation factor NusA [Enterococcus casseliflavus
           ATCC 12755]
 gi|325157043|gb|EGC69211.1| transcription elongation factor NusA [Enterococcus casseliflavus
           ATCC 12755]
          Length = 404

 Score =  468 bits (1204), Expect = e-129,   Method: Composition-based stats.
 Identities = 146/349 (41%), Positives = 225/349 (64%), Gaps = 1/349 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L   DA+  EK I +++V+  +  ++  A +  YG   ++ VE + + G+I ++ +
Sbjct: 2   SKEMLNALDALEAEKGISKEIVIDALEAALVSAYKRHYGQAQNVEVEFDQKKGNIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV EEV +   ++SLK A   +P+ +IG  +   + P DFGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVTEEVMDSQLEVSLKEAMTINPAYEIGDKIRFEVTPKDFGRIAAQTAKQVILQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  Y EF     +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K +
Sbjct: 122 ERNIIYNEFSAYEKDILQGIVERQDNRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVF 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SR+HP  + +LF  EVPE+Y+G V++ +++R+ G RAK+AV S D
Sbjct: 182 VSRVENTSKGPQVFVSRSHPDLLRRLFEQEVPEVYDGTVEIVSIAREAGDRAKVAVRSFD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           +++DPVG CVG +G RVQA+V EL+ E +DIV W+ D A F+ NAL PA V+ V+ D D 
Sbjct: 242 ANVDPVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAIFIANALNPAEVSNVIFDVDN 301

Query: 306 GRI-EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
            +   V+VP  QLSLAIG+RGQN RLA++LTG+ IDI +E +      K
Sbjct: 302 PKACTVVVPDYQLSLAIGKRGQNARLAAKLTGFKIDIKSETDMEEFYAK 350


>gi|238019442|ref|ZP_04599868.1| hypothetical protein VEIDISOL_01311 [Veillonella dispar ATCC 17748]
 gi|237864141|gb|EEP65431.1| hypothetical protein VEIDISOL_01311 [Veillonella dispar ATCC 17748]
          Length = 358

 Score =  468 bits (1204), Expect = e-129,   Method: Composition-based stats.
 Identities = 152/353 (43%), Positives = 223/353 (63%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+Q    +  +K    +V+   +  ++ +A R    +  D  V I+ ETGD  +    +
Sbjct: 4   ELIQAVMVLTKQKGFAPEVIFESLEAALLQAYRKEPTSNPDAYVVIDRETGDYKVMAKKQ 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE    +ISL  AR  D   +IG VV   + P +FGR A  +AKQ++IQ+++EAER
Sbjct: 64  VVETVELPETEISLLEARKIDKRFEIGDVVEVDVTPANFGRSAAHTAKQMLIQRLKEAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+  + G+II+G + RVE  NV ++LG ++ ++   E I+ E  R GDR+K YI 
Sbjct: 124 SVVYEEYYSREGDIITGVITRVEGKNVFINLGKTEAILPPTEQIATETYREGDRIKCYIV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V++  +GPQ+++SRTHP  + +LF +EVPEIY G+V++K+V+R+PG R+K+AV+S D +
Sbjct: 184 EVKKTTKGPQIMISRTHPGLLKRLFELEVPEIYEGVVELKSVAREPGMRSKIAVYSRDEN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G RVQ +V EL DEKIDIV W  D A ++ N+L PA V  V + E+   
Sbjct: 244 VDPVGACVGPKGQRVQHIVDELHDEKIDIVKWDEDPAIYIANSLSPAKVVSVDVSEEEKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
             V+VP  QLSLAIG+ GQN RLA++LT W IDI +E + +      F     
Sbjct: 304 SYVVVPDYQLSLAIGKAGQNARLAAKLTNWKIDIKSETQAAEEPFTGFGNAED 356


>gi|260887250|ref|ZP_05898513.1| transcription termination factor NusA [Selenomonas sputigena ATCC
           35185]
 gi|330838993|ref|YP_004413573.1| NusA antitermination factor [Selenomonas sputigena ATCC 35185]
 gi|260863312|gb|EEX77812.1| transcription termination factor NusA [Selenomonas sputigena ATCC
           35185]
 gi|329746757|gb|AEC00114.1| NusA antitermination factor [Selenomonas sputigena ATCC 35185]
          Length = 380

 Score =  468 bits (1204), Expect = e-129,   Method: Composition-based stats.
 Identities = 154/357 (43%), Positives = 233/357 (65%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  + L+   A+  E+ ++ +V+ + +  ++  A    + T   +RV ++  TG   ++ 
Sbjct: 13  NDGDFLEAVHALGKERGLEAEVLFAAIEAALSSAYLKDFKTAEQVRVALDRMTGKYHVYA 72

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
              VVEEVE+   QISL  AR  +P+ ++   +   + P  FGR+A Q+AKQV++Q +RE
Sbjct: 73  TKTVVEEVEDDARQISLADARAVNPNYEVDDKIELEVTPATFGRIAAQTAKQVVVQHIRE 132

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER   Y EF ++ G+I++G V+RVE  NV +DLG ++ V+   E I  E    GDR+K+
Sbjct: 133 AERGIVYEEFSNRDGDIVTGRVQRVEAKNVFIDLGKTEAVLTATEQIPGEEYHHGDRIKA 192

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +V +  +GP+VL+SRTHP  + +LF +EVPEI  G+V++K+V+R+PG R+K+AV+S 
Sbjct: 193 YIIEVCKTVKGPRVLVSRTHPGLLKRLFELEVPEIQEGVVEIKSVAREPGMRSKIAVYSK 252

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D ++DPVG+ VG +G RVQA+V ELR+EKIDIV W+P+ A F+ NAL PA V  V ++E+
Sbjct: 253 DENVDPVGSSVGHKGMRVQAIVDELRNEKIDIVKWNPEPAKFIANALSPAKVISVAINEE 312

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
                V+VP  QLSLAIG+ GQNVRLA++LTGW IDI  EE+ +     +     + 
Sbjct: 313 AKESRVVVPDYQLSLAIGKEGQNVRLAAKLTGWKIDIKNEEQAAAETLDESMSVIEV 369


>gi|218887601|ref|YP_002436922.1| transcription elongation factor NusA [Desulfovibrio vulgaris str.
           'Miyazaki F']
 gi|218758555|gb|ACL09454.1| NusA antitermination factor [Desulfovibrio vulgaris str. 'Miyazaki
           F']
          Length = 443

 Score =  467 bits (1203), Expect = e-129,   Method: Composition-based stats.
 Identities = 181/429 (42%), Positives = 271/429 (63%), Gaps = 6/429 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            LEL +  D ++ +K +DRD+++  + ++++ +    +G   D  V  N ETG+I +++ 
Sbjct: 2   SLELKKAIDQISKDKGLDRDMLIDTLEEAVRTSVARKFGDEMDAEVSYNDETGEIDVYQF 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV++VEN   +ISL+ AR  DPS+ +   +   +   D GR+A QSAKQVIIQ++R+A
Sbjct: 62  KIVVKKVENPNSEISLEDARTHDPSVQLDDEMGFRVKIEDLGRIAAQSAKQVIIQRMRDA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E++  Y E+KD+ GEI+SG ++R +    I++LG ++ ++ ++E I RE+ + GDRV++ 
Sbjct: 122 EQEIIYEEYKDRRGEIVSGIIQRRDKAGWIINLGRTEALLPKEEQIPREHYKRGDRVQAI 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + DVR+E RGPQV++SR H  +M  LF  EVPE+ +G VQ+  VSRDPGSRAK AV S D
Sbjct: 182 LIDVRKEGRGPQVIVSRAHRDYMAALFRREVPEVDDGTVQIMGVSRDPGSRAKAAVMSRD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG+RGSR+Q +V E+R E+IDIVVWSPD AT+  NAL PA+++++V+DE+ 
Sbjct: 242 RDVDPVGACVGIRGSRIQNIVQEMRGERIDIVVWSPDIATYARNALSPAVISRIVVDEEE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             +EVIVP +QL+ AIGR+GQNV+LA++L GW IDI TE      R  + N   +   Q 
Sbjct: 302 NLLEVIVPDDQLTNAIGRKGQNVKLAAKLLGWKIDIYTET-----RYNEANAIGRGLEQI 356

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
            +V EI     +A GF  +E L      E+AS  G       +++  A  +L        
Sbjct: 357 ASVAEISIEQFIAAGFQSIERLREADDEELASALGLAPGKIADLRA-AINFLAPQAQDDA 415

Query: 426 KKIRELGVS 434
               E    
Sbjct: 416 DATAEPDAE 424


>gi|255976057|ref|ZP_05426643.1| transcription termination factor NusA [Enterococcus faecalis T2]
 gi|307279086|ref|ZP_07560144.1| transcription termination factor NusA [Enterococcus faecalis
           TX0860]
 gi|255968929|gb|EET99551.1| transcription termination factor NusA [Enterococcus faecalis T2]
 gi|306504211|gb|EFM73423.1| transcription termination factor NusA [Enterococcus faecalis
           TX0860]
          Length = 399

 Score =  467 bits (1203), Expect = e-129,   Method: Composition-based stats.
 Identities = 153/404 (37%), Positives = 239/404 (59%), Gaps = 8/404 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L   D +  EK I +D V+  +  ++  A +  YG  S++ VE  P+ G+I ++ +
Sbjct: 2   SKEMLNALDVLEAEKGIPKDTVIEALQAALVSAYKRHYGQASNVEVEFEPKKGNIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV EEV +   ++SLK A   + + +IG  +   + P DFGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVTEEVFDSQLEVSLKDAVALNGAYEIGDKIRFEVTPKDFGRIAAQTAKQVILQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF +   +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K Y
Sbjct: 122 ERTIIYNEFSEYENDIMQGIVERQDRRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SR+HP  + +LF  E+PE+Y+GIV++ +V+R+ G R+K+AV S+D
Sbjct: 182 VSRVENTSKGPQVFVSRSHPDLLKRLFEQEIPEVYDGIVEIVSVAREAGDRSKVAVRSTD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD-ED 304
            +IDPVG CVG +G RVQA+V EL+ E +DIV W+ D A ++ NAL PA V  V+ D E+
Sbjct: 242 PNIDPVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAIYISNALNPAQVLDVIFDPEN 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
                V+VP  QLSLAIG+RGQN RLA++LTG  IDI +E + +   ++  N+      +
Sbjct: 302 SKACTVVVPDYQLSLAIGKRGQNARLAAKLTGHKIDIKSESDMAEFYEQQANQ------E 355

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVE 408
              V E +   ++       ++   +   E        EE   +
Sbjct: 356 VAEVAEEMDEAIIHSD-MTADDYENLATEEAVVEAEITEELPEQ 398


>gi|291523276|emb|CBK81569.1| transcription termination factor NusA [Coprococcus catus GD/7]
          Length = 348

 Score =  467 bits (1202), Expect = e-129,   Method: Composition-based stats.
 Identities = 151/341 (44%), Positives = 226/341 (66%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
            EL++  D +  EK I +D++L  + +S+  A ++ YG   +IRV +N ETG++ +F   
Sbjct: 5   KELIKALDDIEKEKGISKDILLEAIENSLVAACKNEYGKADNIRVTMNRETGEVKVFADK 64

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VVEEVE+   +IS+  AR ++   D G +V   + P +FGR+A Q AKQV++QK+RE E
Sbjct: 65  TVVEEVEDPEMEISVADARLKNKFYDPGDIVHVEIVPKNFGRIAAQKAKQVVVQKIREEE 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R   Y E+  +  +I++G V+R    N+ V+LG  D V+  +E +  E  +P DR+K YI
Sbjct: 125 RKSLYNEYYGREKDIVTGVVQRYNGKNISVNLGKVDAVLTENEQVKGEVFKPTDRIKLYI 184

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V+   +GP+V +SRTHP+ + +LF  EV E+ +G V++K+++R+ GSR K+AV S++ 
Sbjct: 185 VEVKNTTKGPKVTVSRTHPELVKRLFEAEVTEVRDGTVEIKSIAREAGSRTKIAVSSNNP 244

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           ++DPVGACVGM G+RV A+V ELR EKIDI+ WS D A  + NAL PA V  V +D +  
Sbjct: 245 NVDPVGACVGMNGARVNAIVDELRGEKIDIINWSEDPAVLIENALSPAKVVSVDVDPEEK 304

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
              V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E + 
Sbjct: 305 SAAVVVPDYQLSLAIGKEGQNARLAAKLTGYKIDIKSESQA 345


>gi|312898335|ref|ZP_07757725.1| transcription termination factor NusA [Megasphaera micronuciformis
           F0359]
 gi|310620254|gb|EFQ03824.1| transcription termination factor NusA [Megasphaera micronuciformis
           F0359]
          Length = 375

 Score =  467 bits (1202), Expect = e-129,   Method: Composition-based stats.
 Identities = 149/362 (41%), Positives = 222/362 (61%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL   + ++ EK +  DV+   +   +  A +  Y    +  V ++  TGD S+   
Sbjct: 2   NKELLSAIEYLSKEKGVTADVICDSLEAVLITAYKKEYDGNPNATVRLDRLTGDYSIVSP 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV EV +   +ISL+ AR  D   + G  +   + P +FGR+A Q+AKQV+IQ++REA
Sbjct: 62  KTVVAEVADEENEISLEDARAIDKGYEEGDEILVDVTPKNFGRIAAQAAKQVMIQRLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  Y EF  +  +II+G ++R+E  NV +DLG ++ V+   E I  E    G R+K Y
Sbjct: 122 ERNIVYDEFYGRTDDIITGIIQRIEQKNVYIDLGKAEAVLPYSEQIPTEEYTVGQRIKCY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +VR   +G Q+ LSRTHP  + +LF +EVPEIY+G+V++ +V+R+PG R+K+AV+S D
Sbjct: 182 VVEVRNSPKGAQIQLSRTHPGLLKRLFELEVPEIYDGVVELHSVAREPGKRSKIAVYSRD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++D VGACVG +G+RVQ +V EL++EKIDIV W  D A ++ NAL PA V  V +DE  
Sbjct: 242 PNVDCVGACVGPKGARVQNIVMELQNEKIDIVKWDEDPAVYIANALSPAQVVSVTIDEGA 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
               V+VP  QLSLAIG+ GQN RLA++LT W IDI +E +         ++       A
Sbjct: 302 KSSVVVVPDYQLSLAIGKAGQNARLAAKLTNWKIDIKSESQAEDGDVATGDDDILAEFDA 361

Query: 366 IN 367
           ++
Sbjct: 362 VD 363


>gi|197121571|ref|YP_002133522.1| NusA antitermination factor [Anaeromyxobacter sp. K]
 gi|220916334|ref|YP_002491638.1| NusA antitermination factor [Anaeromyxobacter dehalogenans 2CP-1]
 gi|196171420|gb|ACG72393.1| NusA antitermination factor [Anaeromyxobacter sp. K]
 gi|219954188|gb|ACL64572.1| NusA antitermination factor [Anaeromyxobacter dehalogenans 2CP-1]
          Length = 557

 Score =  466 bits (1201), Expect = e-129,   Method: Composition-based stats.
 Identities = 193/501 (38%), Positives = 279/501 (55%), Gaps = 51/501 (10%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            + L  I D VA +K IDR  ++ ++ ++I  AA+  +G   +++   + E G + LF++
Sbjct: 4   NVNLNLILDQVAKDKGIDRAKLIEILEEAIGSAAKRHFGLERNLKARYDEEKGQVDLFQV 63

Query: 66  LEVVEEVE------NYTCQISLKVARDRDPSIDIGGVVSDPLPPM--------------- 104
           L +V +        +    + + VA ++   ++ G  +  P+                  
Sbjct: 64  LTIVPDPTEEAPLADPVNMVPVAVAHEKGIDVEPGDELDFPIYYRVEDEAEARAQDEQWG 123

Query: 105 ----------DFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNV 154
                      FGR+A Q+AKQV+IQ  R AER+  + E+KD+ GE+I+G V+R E GNV
Sbjct: 124 DLLKLKTYRRSFGRIAAQTAKQVMIQGTRNAERENVFNEYKDRKGEVITGIVRRFERGNV 183

Query: 155 IVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHM 214
           IVDLG ++ V+   E + RE+ R GDR+++++ DV RE +GPQ++LSR   + + KLF M
Sbjct: 184 IVDLGRAEAVLPVREQVPRESYRAGDRIQAFVMDVLRESKGPQIILSRASVELLKKLFEM 243

Query: 215 EVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKI 274
           EVPEI  G+V ++A +R+PG RAK+AV S DS +DPVGACVGM+GSRVQAVV ELR EKI
Sbjct: 244 EVPEIAEGVVVIEAAAREPGGRAKIAVSSRDSDVDPVGACVGMKGSRVQAVVQELRGEKI 303

Query: 275 DIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQL 334
           DIV W  D A FV NAL PA V++V+LDE    +E+IVP +QLSLAIGRRGQNVRLASQ+
Sbjct: 304 DIVPWDEDPARFVCNALAPAEVSRVLLDEQNRAMEIIVPDDQLSLAIGRRGQNVRLASQV 363

Query: 335 TGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISE 394
           TGW +DI +E      R K+  E       AI + E    +L A GF   +++A      
Sbjct: 364 TGWKLDINSES-----RVKEMREFATESFGAIGIPEQTQEMLYAHGFRKAQDVANAAPEM 418

Query: 395 IASIEGFDEETAVEIQGRARE------------YLEGIDITLQKKIR---ELGVSEELCS 439
           +    GF  +   ++Q RARE              E     + +  R    L   E    
Sbjct: 419 LTQFPGFTMDMIPDLQKRAREQSIEDAEKEMRLEQEREAARIAEARRHPDSLTQEERFAR 478

Query: 440 IPGIDSKIKVALGENGIKTME 460
           + G+  K    +   G  T+E
Sbjct: 479 VRGVGEKTIEQMKLAGYPTVE 499


>gi|332704826|ref|ZP_08424914.1| NusA antitermination factor [Desulfovibrio africanus str. Walvis
           Bay]
 gi|332554975|gb|EGJ52019.1| NusA antitermination factor [Desulfovibrio africanus str. Walvis
           Bay]
          Length = 494

 Score =  466 bits (1201), Expect = e-129,   Method: Composition-based stats.
 Identities = 178/430 (41%), Positives = 275/430 (63%), Gaps = 6/430 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL +  D ++ ++ IDRD+++  + ++++ +    YG   DI V  + +TG+I +F    
Sbjct: 4   ELRKAIDQISKDRGIDRDLLVDTLEEAVRSSVVRKYGDELDIEVNFSEDTGEIEVFHYKV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EVE+   +IS++ AR  DP + +   +   L   D GR+A QSAKQVIIQ++R+AE+
Sbjct: 64  VVDEVEDPNTEISMEDARQHDPGVQMDDDIGFKLNIEDLGRIAAQSAKQVIIQRMRDAEQ 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + E+KD++GEI+SG ++R +    I++LG ++ ++ R+E I +E  + GDRV+ YI 
Sbjct: 124 EIIFEEYKDRMGEIVSGIIQRRDRSGWIINLGRTEALLPREEQIPKERYKRGDRVQGYII 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V +E RGPQV+LSR+HP++M  LF  EVPE+ + +V++  V+RDPGSRAK+AV S D  
Sbjct: 184 NVLKEGRGPQVILSRSHPEYMSALFRREVPEVADSVVKIMGVARDPGSRAKVAVMSRDRD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG+RGSR+Q +V E R E+IDIVVW PD A +  NAL PA++T++ +DE+   
Sbjct: 244 VDPVGACVGIRGSRIQNIVQEFRGERIDIVVWKPDIADYARNALSPALITRITVDEEETL 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           +EV+VP +QL+LAIGR+GQNV+LAS+L GW IDI TE      R  + +   Q   Q  N
Sbjct: 304 LEVVVPDDQLTLAIGRKGQNVKLASKLLGWKIDIFTES-----RYGELHAARQTLEQVAN 358

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           V EI     +  GF  +EE+A  +  ++  I G  E    ++   A + L          
Sbjct: 359 VVEINIERFLEAGFDSLEEVARAEDEDLLKIRGMSESKINDLHA-AIKLLAPSAYATPAD 417

Query: 428 IRELGVSEEL 437
           + E  + E++
Sbjct: 418 MTEGEIGEDV 427


>gi|257898238|ref|ZP_05677891.1| transcription termination factor NusA [Enterococcus faecium Com15]
 gi|257836150|gb|EEV61224.1| transcription termination factor NusA [Enterococcus faecium Com15]
          Length = 391

 Score =  466 bits (1200), Expect = e-129,   Method: Composition-based stats.
 Identities = 146/353 (41%), Positives = 222/353 (62%), Gaps = 1/353 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L   DA+  EK I +++V+  +  ++  A +  YG   ++ VE +   G I ++ +
Sbjct: 2   SKEMLNALDALEAEKGISKEIVIDALEAALVSAYKRHYGQAQNVEVEFDQIKGKIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV EEV +   ++SLK A   +P+ +IG  +   + P DFGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVTEEVMDSQLEVSLKDALLINPAYEIGDTIRFEVTPKDFGRIAAQTAKQVILQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF     +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K Y
Sbjct: 122 ERTIIYNEFSAYEKDIMQGIVERQDKRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SR+HP  + +LF  EVPE+Y+GIV++ +++R+ G R+K+AV S+D
Sbjct: 182 VSRVENTSKGPQVFVSRSHPDLLRRLFEQEVPEVYDGIVEIVSIAREAGDRSKVAVRSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            +ID VG CVG +G RVQA+V EL+ E +DIV W+ D A F+ NAL PA V  V+ DE  
Sbjct: 242 QNIDAVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPAVFIANALNPAQVMDVIFDETN 301

Query: 306 GRI-EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            +   V+VP  QLSLAIG+RGQN RLA++LT   IDI +E + +   +K   +
Sbjct: 302 PKACTVVVPDYQLSLAIGKRGQNARLAAKLTNHKIDIKSESDMAEFYEKQEQQ 354


>gi|116333944|ref|YP_795471.1| transcription elongation factor NusA [Lactobacillus brevis ATCC
           367]
 gi|116099291|gb|ABJ64440.1| Transcription elongation factor [Lactobacillus brevis ATCC 367]
          Length = 401

 Score =  466 bits (1199), Expect = e-129,   Method: Composition-based stats.
 Identities = 158/403 (39%), Positives = 233/403 (57%), Gaps = 4/403 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL   D +  EK ID+ VV+  +  ++  A +  Y    ++ VE +   GDI ++ +
Sbjct: 2   SKELLGALDVLETEKGIDKQVVIDALEAALVSAYKRNYDQAQNVEVEFDQRKGDIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            +VV++V +   ++ L  A   +   ++G  +   + P +FGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KKVVDQVYDSRLEVGLDEALTINKGYELGDDIKFEVTPKNFGRIAAQTAKQVILQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  Y ++     EI++G V+R +   V V LG  + V+ R + +  E  R  DRVK Y
Sbjct: 122 ERNIIYNQYSQYENEIVTGEVERQDSRFVYVSLGKVEAVMGRQDQMPNETYRIHDRVKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SRTH   + +LF  EVPEIY+G V++ A++R+ G RAK+AV S++
Sbjct: 182 VTRVENATKGPQVFVSRTHADLLKRLFEQEVPEIYDGTVEIMAIAREAGDRAKVAVRSNN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVG  VG RG RVQ +V EL  E +DIV W+ D A F+ NAL PA V  V+ D + 
Sbjct: 242 PDIDPVGTSVGPRGQRVQTIVNELGGENMDIVEWTDDEAKFIANALNPAEVLDVIFDPNN 301

Query: 306 GRI-EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
            R  EVIVP  QLSLAIG+RGQN RLA++LTG+ IDI +E E S     + ++       
Sbjct: 302 ERACEVIVPDYQLSLAIGKRGQNARLAAKLTGYKIDIKSESEASAIM--EADQAADEATT 359

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV 407
              V E  A    AE  AD        +++ A+ +   +E+A 
Sbjct: 360 GATVSEDDATEPAAETVADDTTSEETPVND-ATTDVASDESAE 401


>gi|86157527|ref|YP_464312.1| NusA antitermination factor [Anaeromyxobacter dehalogenans 2CP-C]
 gi|85774038|gb|ABC80875.1| NusA antitermination factor [Anaeromyxobacter dehalogenans 2CP-C]
          Length = 557

 Score =  466 bits (1199), Expect = e-129,   Method: Composition-based stats.
 Identities = 193/501 (38%), Positives = 279/501 (55%), Gaps = 51/501 (10%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            + L  I D VA +K IDR  ++ ++ ++I  AA+  +G   +++   + E G + LF++
Sbjct: 4   NVNLNLILDQVAKDKGIDRAKLIEILEEAIGSAAKRHFGLERNLKARYDEEKGQVDLFQV 63

Query: 66  LEVVEEVE------NYTCQISLKVARDRDPSIDIGGVVSDPLPPM--------------- 104
           L +V +        +    + + VA ++   ++ G  +  P+                  
Sbjct: 64  LTIVPDPTEEAPLADPVNMVPVAVAHEKGIDVEPGDELDFPIYYRAEDEAEARAQDEQWG 123

Query: 105 ----------DFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNV 154
                      FGR+A Q+AKQV+IQ  R AER+  + E+KD+ GE+I+G V+R E GNV
Sbjct: 124 DLLKLKTYRRSFGRIAAQTAKQVMIQGTRNAERENVFNEYKDRKGEVITGIVRRFERGNV 183

Query: 155 IVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHM 214
           IVDLG ++ V+   E + RE+ R GDR+++++ DV RE +GPQ++LSR   + + KLF M
Sbjct: 184 IVDLGRAEAVLPVREQVPRESYRAGDRIQAFVMDVLRESKGPQIILSRASVELLKKLFEM 243

Query: 215 EVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKI 274
           EVPEI  G+V ++A +R+PG RAK+AV S DS +DPVGACVGM+GSRVQAVV ELR EKI
Sbjct: 244 EVPEIAEGVVVIEAAAREPGGRAKIAVSSRDSDVDPVGACVGMKGSRVQAVVQELRGEKI 303

Query: 275 DIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQL 334
           DIV W  D A FV NAL PA V++V+LDE    +E+IVP +QLSLAIGRRGQNVRLASQ+
Sbjct: 304 DIVPWDEDPARFVCNALAPAEVSRVLLDEQNRAMEIIVPDDQLSLAIGRRGQNVRLASQV 363

Query: 335 TGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISE 394
           TGW +DI +E      R K+  E       AI + E    +L A GF   +++A      
Sbjct: 364 TGWKLDINSES-----RVKEMREFATESFGAIGIPEQTQEMLYAHGFRKSQDVANAAPEM 418

Query: 395 IASIEGFDEETAVEIQGRARE------------YLEGIDITLQKKIRE---LGVSEELCS 439
           +    GF  +   ++Q RARE              E     + +  R    L   E    
Sbjct: 419 LTQFPGFTMDMIPDLQKRAREQSIEDAEKEMRLEQEREAARIAEARRHPDTLTQEERFAR 478

Query: 440 IPGIDSKIKVALGENGIKTME 460
           + G+  K    +   G  T+E
Sbjct: 479 VRGVGEKTIEQMKLAGYPTVE 499


>gi|303256975|ref|ZP_07342989.1| transcription termination factor NusA [Burkholderiales bacterium
           1_1_47]
 gi|330999163|ref|ZP_08322882.1| transcription termination factor NusA [Parasutterella
           excrementihominis YIT 11859]
 gi|302860466|gb|EFL83543.1| transcription termination factor NusA [Burkholderiales bacterium
           1_1_47]
 gi|329575363|gb|EGG56907.1| transcription termination factor NusA [Parasutterella
           excrementihominis YIT 11859]
          Length = 499

 Score =  465 bits (1198), Expect = e-129,   Method: Composition-based stats.
 Identities = 174/512 (33%), Positives = 299/512 (58%), Gaps = 31/512 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL--YGTMSDIRVEINPETGDISLFRL 65
           +LL + + +A+EK++D+ VVL+ +  ++  A +     G  +DI V+++P TGD  ++R 
Sbjct: 4   DLLTMVEVLAHEKNVDQSVVLAALESALASAVKKAEFPGEDADIVVKVDPTTGDQKVWRQ 63

Query: 66  LEVVEE---VENYTCQISLKVARDRDPS---IDIGGVVSDPLPPMDF-GRVAVQSAKQVI 118
             VV +   ++    QI    A++       +++G  V  PLP ++  GR     AKQVI
Sbjct: 64  WLVVPDEQGLQEPDRQILQWEAKEDYSDQGEMNVGDYVRKPLPDVNVTGRRFATDAKQVI 123

Query: 119 IQKVREAERDRQYLEFKDKVGEI--ISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENL 176
           IQ++REAER++   EF ++  ++  ++G VKR +  + I+++G  D  + R + I  ENL
Sbjct: 124 IQRLREAERNQLLNEFLERYKDVKVVTGQVKRFDKSDAIIEIGRIDARLPRHQMIPMENL 183

Query: 177 RPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
           RPGDRV++Y+  +    R  Q+ LSRT  +F+ +L    VPEI  G++++K ++RDPG R
Sbjct: 184 RPGDRVRAYVLKIDPTSRQQQITLSRTCNEFLGELMRQVVPEINEGLLEIKGIARDPGIR 243

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           AK+AV   D  IDP+G+C+G++GSR+Q+V  EL +E+IDI+ W+   A +V++AL PA +
Sbjct: 244 AKVAVQVKDKRIDPIGSCIGVKGSRIQSVSGELMNERIDIIRWADQPAEYVMSALSPATI 303

Query: 297 TKVVLDEDVGRIEVIVPK-EQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF 355
           + +++ ED  ++EV+ P  +   +AIG  G N RLAS+LTGW I+++ +++ +  R+ + 
Sbjct: 304 SSIIVHEDEHKVEVVTPDLDNSKIAIGSNGVNKRLASELTGWEIEVMDDDQAAKKREDEI 363

Query: 356 NERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
             R Q     +++DE +A +L+  G   +EE+A +   E+ SIE FDE+T  E++ RAR 
Sbjct: 364 APRRQELCDRLDIDEEVAQVLIENGIETLEEVAYLPEEELLSIEQFDEDTVKELRSRART 423

Query: 416 YLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSE 475
            L    +  ++ ++     + L  +PG+  +I   L   GIKT++ LA  S D+L+  + 
Sbjct: 424 ALLTSALEREELLK--WADKSLVDLPGMTHEIANKLKPAGIKTLDQLADLSTDELVEMT- 480

Query: 476 NKGGNIEKFDGFLSSLGTPKDQVESMIIHARY 507
                           G   D+  ++I  AR 
Sbjct: 481 ----------------GIDHDKAAALITKARE 496


>gi|313893742|ref|ZP_07827309.1| transcription termination factor NusA [Veillonella sp. oral taxon
           158 str. F0412]
 gi|313441756|gb|EFR60181.1| transcription termination factor NusA [Veillonella sp. oral taxon
           158 str. F0412]
          Length = 358

 Score =  465 bits (1197), Expect = e-128,   Method: Composition-based stats.
 Identities = 151/353 (42%), Positives = 223/353 (63%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+Q    +  +K    +V+   +  ++ +A R    +  D  V I+ ETG   +    +
Sbjct: 4   ELIQAVMVLTKQKGFAPEVIFESLEAALLQAYRKEPTSNPDAYVVIDRETGVYKVMAKKQ 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE    +ISL  AR +D   +IG VV   + P +FGR A  +AKQ++IQ+++EAER
Sbjct: 64  VVETVELPETEISLLDARKKDKRFEIGDVVEVDVTPANFGRSAAHTAKQMLIQRLKEAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+  + G+II+G + RVE  NV +DLG ++ ++   E I+ E  R GDR+K YI 
Sbjct: 124 SVVYEEYYSREGDIITGVITRVEGKNVFIDLGKTEAILPPTEQIATETYREGDRIKCYIV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V++  +GPQ+++SRTHP  + +LF +EVPEI+ G+V++K+V+R+PG R+K+AV+S D +
Sbjct: 184 EVKKTTKGPQIMISRTHPGLLKRLFELEVPEIFEGVVELKSVAREPGMRSKIAVYSRDEN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G RVQ +V EL DEKIDIV W  D A ++ N+L PA V  V + E+   
Sbjct: 244 VDPVGACVGPKGQRVQHIVDELHDEKIDIVKWDEDPAIYIANSLSPAKVISVDVSEEEKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
             V+VP  QLSLAIG+ GQN RLA++LT W IDI +E + +      F     
Sbjct: 304 SYVVVPDYQLSLAIGKAGQNARLAAKLTNWKIDIKSETQAAEEPFTGFGNAED 356


>gi|328957408|ref|YP_004374794.1| transcription elongation factor NusA [Carnobacterium sp. 17-4]
 gi|328673732|gb|AEB29778.1| transcription elongation factor NusA [Carnobacterium sp. 17-4]
          Length = 425

 Score =  465 bits (1197), Expect = e-128,   Method: Composition-based stats.
 Identities = 143/367 (38%), Positives = 224/367 (61%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L   +A+  EK I ++ V+  +  ++  A +  Y    ++ VE + + G+I ++ +
Sbjct: 2   SKEMLNALEALEQEKGISKEFVIEALEVALVSAYKRNYDQAQNVEVEFDLKKGNIHVYSV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+ V +   ++ ++ A + + + ++G  +   + P DFGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVVDVVYDSRLEVGIEEALEINKAYELGDKIRFEVTPKDFGRIAAQTAKQVIMQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  Y EF     +I+ G V+R ++  + V+LG  + V+ + E I  E  +P DR+K Y
Sbjct: 122 ERNIIYNEFIAYENDIMQGIVERQDHRYIYVNLGKIEAVLSKQEQIPNEVYKPHDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQ+ +SR+HP  + +LF  EVPEIY+G+V++ +++R+ G RAK+AV S +
Sbjct: 182 VTKVENTSKGPQIFVSRSHPDLLKRLFEQEVPEIYDGVVEIVSIAREAGDRAKVAVRSRE 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVG CVG +G RVQA+V EL+ E +DIV W  D AT++ NAL PA V  V  +E  
Sbjct: 242 EHIDPVGTCVGPKGQRVQAIVNELKGENMDIVEWDADPATYIGNALNPAQVVSVTFNESN 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
           G   V+VP  QLSLAIG+RGQN RLA++LTG+ IDI +E +             +   + 
Sbjct: 302 GSCLVVVPDYQLSLAIGKRGQNARLAAKLTGYKIDIKSETDMEAINLAKEETGLEKDAKY 361

Query: 366 INVDEII 372
             V E I
Sbjct: 362 AEVIETI 368


>gi|257875536|ref|ZP_05655189.1| transcription termination factor NusA [Enterococcus casseliflavus
           EC20]
 gi|257809702|gb|EEV38522.1| transcription termination factor NusA [Enterococcus casseliflavus
           EC20]
          Length = 404

 Score =  464 bits (1195), Expect = e-128,   Method: Composition-based stats.
 Identities = 147/349 (42%), Positives = 226/349 (64%), Gaps = 1/349 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L   DA+  EK I +++V+  +  ++  A +  YG   ++ VE + + G+I ++ +
Sbjct: 2   SKEMLNALDALEAEKGISKEIVIDALEAALVSAYKRHYGQAQNVEVEFDQKKGNIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV EEV +   ++SLK A   +P+ +IG  +   + P DFGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVTEEVMDSQLEVSLKEAMTINPAYEIGDKIRFEVTPKDFGRIAAQTAKQVILQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  Y EF     +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K +
Sbjct: 122 ERNIIYNEFSAYEKDILQGIVERQDNRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVF 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SR+HP  + +LF  EVPE+Y+G V++ +++R+ G RAK+AV S D
Sbjct: 182 VSRVENTSKGPQVFVSRSHPDLLRRLFEQEVPEVYDGTVEIVSIAREAGDRAKVAVRSFD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           +++DPVG CVG +G RVQA+V EL+ E +DIV W+ DSA F+ NAL PA V+ V+ D D 
Sbjct: 242 ANVDPVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDSAIFIANALNPAEVSDVIFDVDN 301

Query: 306 GRI-EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
            +   V+VP  QLSLAIG+RGQN RLA++LTG+ IDI +E +      K
Sbjct: 302 PKACTVVVPDYQLSLAIGKRGQNARLAAKLTGFKIDIKSETDMEEFYAK 350


>gi|282848827|ref|ZP_06258220.1| transcription termination factor NusA [Veillonella parvula ATCC
           17745]
 gi|294791739|ref|ZP_06756887.1| transcription termination factor NusA [Veillonella sp. 6_1_27]
 gi|294793600|ref|ZP_06758737.1| transcription termination factor NusA [Veillonella sp. 3_1_44]
 gi|282581481|gb|EFB86871.1| transcription termination factor NusA [Veillonella parvula ATCC
           17745]
 gi|294455170|gb|EFG23542.1| transcription termination factor NusA [Veillonella sp. 3_1_44]
 gi|294456969|gb|EFG25331.1| transcription termination factor NusA [Veillonella sp. 6_1_27]
          Length = 358

 Score =  464 bits (1195), Expect = e-128,   Method: Composition-based stats.
 Identities = 152/353 (43%), Positives = 223/353 (63%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+Q    +  +K    +V+   +  ++ +A R    +  D  V I+ ETG   +    +
Sbjct: 4   ELIQAVMVLTKQKGFAPEVIFESLEAALLQAYRKEPTSNPDAYVVIDRETGVYKVMAKKQ 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE    +ISL  AR +D   +IG VV   + P +FGR A  +AKQ++IQ+++EAER
Sbjct: 64  VVETVELPETEISLLDARKKDKRFEIGDVVEVDVTPANFGRSAAHTAKQMLIQRLKEAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+  + G+II+G + RVE  NV +DLG ++ ++   E I+ E  R GDR+K YI 
Sbjct: 124 SVVYEEYYSREGDIITGVITRVEGKNVFIDLGKTEAILPPTEQIATETYREGDRIKCYIV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V++  +GPQ+++SRTHP  + +LF +EVPEI+ G+V++K+V+R+PG R+K+AV+S D +
Sbjct: 184 EVKKTTKGPQIMISRTHPGLLKRLFELEVPEIFEGVVELKSVAREPGMRSKIAVYSRDEN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVGACVG +G RVQ +V EL DEKIDIV W  D A ++ N+L PA V  V + E+   
Sbjct: 244 IDPVGACVGPKGQRVQHIVDELHDEKIDIVKWDEDPAIYIANSLSPAKVVSVDVSEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
             V+VP  QLSLAIG+ GQN RLA++LT W IDI +E + +      F     
Sbjct: 304 SYVVVPDYQLSLAIGKAGQNARLAAKLTNWKIDIKSETQAAEEPFTGFGNAED 356


>gi|222151100|ref|YP_002560254.1| transcription termination-antitermination factor [Macrococcus
           caseolyticus JCSC5402]
 gi|222120223|dbj|BAH17558.1| transcription termination-antitermination factor [Macrococcus
           caseolyticus JCSC5402]
          Length = 353

 Score =  464 bits (1195), Expect = e-128,   Method: Composition-based stats.
 Identities = 152/344 (44%), Positives = 226/344 (65%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL   D +  EKSI R+V++  +  ++  A +  Y + +++RVE+N + G   ++  
Sbjct: 3   NNELLNAIDFLEKEKSIPREVLIETIEAALITAYKKNYNSANNVRVELNMDNGAYRVYSR 62

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV N   ++SL+ A   +P+ +IG +  + + P DFGRV+ Q+AKQ ++Q++R+A
Sbjct: 63  KNVVEEVMNSREEVSLETALLSNPAYEIGDIYEEDVTPKDFGRVSAQAAKQAVLQRLRDA 122

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF DK  +I++G + RV++  V V LG ++ V+   E    E  RP +R+K Y
Sbjct: 123 ERGILYNEFIDKEDDIMTGIIDRVDHRYVYVTLGKTEAVLSEAERSPNEVYRPTERIKVY 182

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V +  +GPQ+ +SR+HP  + +LF  EVPEI++G V VK+V+R+ G R+K++V+S +
Sbjct: 183 VNKVEQTTKGPQIFVSRSHPGLLKRLFEQEVPEIFDGTVVVKSVAREAGDRSKISVYSDN 242

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             ID VGACVG +G+RV+AVV EL  EKIDIV WS D+ TFV NAL P+ V  V++DE  
Sbjct: 243 PDIDAVGACVGAKGARVEAVVEELGGEKIDIVEWSADTKTFVKNALSPSQVVDVLVDEAN 302

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
               VIVP  QLSLAIG++GQN RLA++LTGW IDI +E +   
Sbjct: 303 QSTTVIVPDYQLSLAIGKKGQNARLAAKLTGWKIDIKSETDAKE 346


>gi|258591348|emb|CBE67647.1| Transcription elongation protein nusA (N utilization substance
           protein A) (L factor) [NC10 bacterium 'Dutch sediment']
          Length = 433

 Score =  464 bits (1195), Expect = e-128,   Method: Composition-based stats.
 Identities = 172/431 (39%), Positives = 258/431 (59%), Gaps = 14/431 (3%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           ++LLQ+ + V  EK ID  V++  ++ +I  A+R   G   D+RVE +  +    L+ + 
Sbjct: 3   IDLLQVIEQVGREKEIDSAVLIEAVSAAILSASRKTLGAALDLRVEFDQRSRCFMLYAVR 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           +VVE+V N   +I++  A+  +P   +G      L   +FGR+A Q+AKQVIIQ+V+EAE
Sbjct: 63  KVVEQVVNPHVEIAIDEAQQLNPEAQLGDETKTELKAKEFGRIAAQTAKQVIIQRVKEAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R+  +  FK +VGE++ G V+RV  GNVIV+LG ++ ++   E + RE+ R GDR+++Y+
Sbjct: 123 RESVFQAFKARVGELVGGVVQRVAKGNVIVNLGKAEAILPPREQLPREDYRVGDRIRAYV 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            DV++  RG Q++LSRTHP  + KL  +EVPEIY GIV++KAVSRD G RAK+AV S DS
Sbjct: 183 LDVKKLPRGSQIVLSRTHPGLLAKLLEIEVPEIYEGIVEIKAVSRDAGERAKVAVASRDS 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           ++DPVGACVG RGSR+QA+V EL  EKID++ W  D A+FV +AL PA +  V + ++  
Sbjct: 243 NVDPVGACVGYRGSRIQAIVRELMGEKIDVIAWKDDPASFVKSALAPADIESVEVVQETH 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ------ 360
            + V+V   QLSLAIG+RGQN RLA++L GW +D+    E     ++      +      
Sbjct: 303 TLHVLVADGQLSLAIGKRGQNARLAAKLLGWKVDVRGRGEIQKASEERLQPEFEPVASTV 362

Query: 361 --------FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGR 412
                      +   V E +A  L+  G     +LA      +  +EG   +TA ++   
Sbjct: 363 EGRAGTDLRLAEVPGVGEKLADRLIEAGVDSCRKLADASDEALVQVEGIGPKTAQKLIEA 422

Query: 413 AREYLEGIDIT 423
           A+  L   D  
Sbjct: 423 AKAALALRDAE 433


>gi|269797844|ref|YP_003311744.1| NusA antitermination factor [Veillonella parvula DSM 2008]
 gi|269094473|gb|ACZ24464.1| NusA antitermination factor [Veillonella parvula DSM 2008]
          Length = 358

 Score =  464 bits (1194), Expect = e-128,   Method: Composition-based stats.
 Identities = 151/353 (42%), Positives = 222/353 (62%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+Q    +  +K    +V+   +  ++ +A R    +  D  V I+ ETG   +    +
Sbjct: 4   ELIQAVMVLTKQKGFAPEVIFESLEAALLQAYRKEPTSNPDAYVVIDRETGVYKVMAKKQ 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE    +ISL  AR +D   +IG VV   + P +FGR A  +AKQ++IQ+++EAER
Sbjct: 64  VVETVELPETEISLLDARKKDKRFEIGDVVEVDVTPANFGRSAAHTAKQMLIQRLKEAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+  + G+II+G + RVE  NV ++LG ++ ++   E I  E  R GDR+K YI 
Sbjct: 124 SVVYEEYYSREGDIITGVITRVEGKNVFINLGKTEAILPPTEQIVTETYREGDRIKCYIV 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V++  +GPQ+++SRTHP  + +LF +EVPEI+ G+V++K+V+R+PG R+K+AV+S D +
Sbjct: 184 EVKKTTKGPQIMISRTHPGLLKRLFELEVPEIFEGVVELKSVAREPGMRSKIAVYSRDEN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVGACVG +G RVQ +V EL DEKIDIV W  D A ++ N+L PA V  V + E+   
Sbjct: 244 IDPVGACVGPKGQRVQHIVDELHDEKIDIVKWDEDPAIYIANSLSPAKVVSVDVSEEEKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
             V+VP  QLSLAIG+ GQN RLA++LT W IDI +E + +      F     
Sbjct: 304 SYVVVPDYQLSLAIGKAGQNARLAAKLTNWKIDIKSETQAAEEPFTGFGNAED 356


>gi|49316|emb|CAA79231.1| ORF2 [Bacillus subtilis subsp. subtilis str. 168]
          Length = 371

 Score =  464 bits (1194), Expect = e-128,   Method: Composition-based stats.
 Identities = 147/342 (42%), Positives = 225/342 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     +  EK I +++++  +  ++  A +  +    ++RV++N ETG I +F   +
Sbjct: 4   ELLDALTILEKEKGISKEIIIEAIEAALISAYKRNFNQAQNVRVDLNRETGSIRVFARKD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +IS++ A+   P   +G VV   + P DFGR+A Q+A +V+ Q+VREAER
Sbjct: 64  VVDEVYDQRLEISIEEAQGIHPEYMVGDVVEIEVTPKDFGRIAAQTANEVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R++   + V LG  + ++  +E +  E+ +P DR+K YI 
Sbjct: 124 GVIYSEFIDREEDIMTGIVQRLDNKFIYVSLGKIEALLPVNEQMPNESYKPHDRIKVYIT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEIY+G V++K+V+R+ G R+K++V + D  
Sbjct: 184 KVEKTTKGPQIYVSRTHPGLLKRLFEIEVPEIYDGTVELKSVAREAGDRSKISVRTDDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG+CVG +G RVQA+V EL+ EKIDIV WS D   FV NAL P+ V  V+++E+   
Sbjct: 244 VDPVGSCVGPKGQRVQAIVNELKGEKIDIVNWSSDPVEFVANALSPSKVLDVIVNEEEKA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E +   
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDARE 345


>gi|81428862|ref|YP_395862.1| transcription elongation factor NusA [Lactobacillus sakei subsp.
           sakei 23K]
 gi|78610504|emb|CAI55555.1| Transcription elongation protein NusA (Transcription
           termination-antitermination factor NusA) [Lactobacillus
           sakei subsp. sakei 23K]
          Length = 405

 Score =  463 bits (1193), Expect = e-128,   Method: Composition-based stats.
 Identities = 149/421 (35%), Positives = 236/421 (56%), Gaps = 18/421 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L   DA+  EK + +++V+  +  ++  A +  YG   ++ VE + + G+I ++ +
Sbjct: 2   SKEMLGALDALEQEKGVKKEIVIEALEAALVSAYKRNYGQAQNVEVEFDQKKGNIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV +EV +   ++S + A + + + ++G  +   + P DFGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVTDEVFDSRLEVSYQDALEINKAYEVGDTIRFEVTPKDFGRIAAQTAKQVIMQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y E+     EI+ G V+R +   + V+LG  + V+ + + I  E     DR+K Y
Sbjct: 122 ERSIIYNEYSQYENEIMQGIVERRDNKFIYVNLGKIEAVLSKQDQIPNEVYNAHDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SRTHP  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D
Sbjct: 182 VSKVENTTKGPQVFVSRTHPDLVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVRSTD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE-D 304
            ++DPVG CVG +G RVQ VV EL  E +DIV W  D + ++ NAL PA V  V  ++ +
Sbjct: 242 PNVDPVGTCVGPKGQRVQLVVNELHGENMDIVKWEEDPSDYIANALNPAEVIAVQFNDGN 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
                VIVP  QLSLAIG++GQN RLA++LTG+ IDI  E E               F+ 
Sbjct: 302 EHTCTVIVPDYQLSLAIGKKGQNARLAAKLTGYKIDIKPESEVE-------------FVD 348

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
             + ++  A   V EGF +           +A       E A +I+  A   ++  +   
Sbjct: 349 GDDSEDESA---VVEGFEEETITPETTEETVAVAPE-TAEVAEDIEQPAETVVDSEEQPQ 404

Query: 425 Q 425
           +
Sbjct: 405 E 405


>gi|242278479|ref|YP_002990608.1| transcription elongation factor NusA [Desulfovibrio salexigens DSM
           2638]
 gi|242121373|gb|ACS79069.1| NusA antitermination factor [Desulfovibrio salexigens DSM 2638]
          Length = 456

 Score =  463 bits (1192), Expect = e-128,   Method: Composition-based stats.
 Identities = 173/441 (39%), Positives = 277/441 (62%), Gaps = 17/441 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL +  D ++ ++ IDRD+++  + ++++ +    YG   DI V  N + G+I +++   
Sbjct: 4   ELKKAIDQISKDRGIDRDLLIDTLEEAVRSSVARKYGDAMDIEVNFNEDAGEIEVYQFKV 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V EEVE+   +I+L+ A++ DP++ I   +   L   D GR+A QSAKQVIIQ++R+AE+
Sbjct: 64  VAEEVEDEISEITLEEAKEHDPNVQIDDEMGFKLKVEDLGRIAAQSAKQVIIQRMRDAEQ 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EFK+++ EI+SG ++R +    I++LG ++ V+ + E I RE  + GDRV+++I 
Sbjct: 124 EIIYDEFKNRMHEIVSGIIQRRDRTGWIINLGRTEAVLPKGEQIPRERYKRGDRVQAFII 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           DV++E RGPQ+ +SR+HP +M  LF  EVPE+ +  V++  V+RDPG RAK+AV S D  
Sbjct: 184 DVQKESRGPQITVSRSHPDYMTALFKREVPEVDDATVKIMGVARDPGLRAKVAVNSLDRD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG+RGSR+Q +V ELR E+IDIVVWS D A +  NAL PA++T++ +DE+   
Sbjct: 244 VDPVGACVGIRGSRIQNIVQELRGERIDIVVWSQDIAMYAQNALSPAVITRIAVDEEEKT 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           +EV+VP +QL++AIGR+GQNV+LAS+L GW ID+ TE      R  + N  ++   Q  +
Sbjct: 304 LEVVVPDDQLTVAIGRKGQNVKLASRLLGWKIDVFTES-----RYGEMNAASKGLDQLAS 358

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGR--------AREYLEG 419
           V EI     ++ GF  V ++A      + SI G       +++          A + +E 
Sbjct: 359 VAEIPVDNFLSAGFETVSQVANASEEILMSISGMTPSKVSDMKSAIMLLGIGDAEDAVEE 418

Query: 420 ID----ITLQKKIRELGVSEE 436
            +    +  + ++ E   +EE
Sbjct: 419 TETEAPVEAEAQVEETSQTEE 439


>gi|310828067|ref|YP_003960424.1| hypothetical protein ELI_2479 [Eubacterium limosum KIST612]
 gi|308739801|gb|ADO37461.1| hypothetical protein ELI_2479 [Eubacterium limosum KIST612]
          Length = 411

 Score =  463 bits (1192), Expect = e-128,   Method: Composition-based stats.
 Identities = 160/425 (37%), Positives = 257/425 (60%), Gaps = 15/425 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E ++  DA+  EK+ID++ ++  +  SI+ A +  YG + D+ V+++ +TG+I+++  
Sbjct: 2   NAEFMRALDALEAEKNIDKEELIDAIEVSIESAYKKNYGNVQDVDVKLDRDTGEITVYAT 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            ++VE+VEN   QISL+ AR+ DP+ ++G V    + P DFGR+A Q+AKQ+I+Q+++EA
Sbjct: 62  RDIVEDVENLETQISLEEAREIDPTYEVGDVYRKVITPRDFGRIAAQNAKQLIVQRIKEA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  Y E+ ++  E+++G + R+E GNV VD+GNS+G +   E +  E   PG R+K Y
Sbjct: 122 ERNMVYNEYLERQEEVMTGIINRIERGNVFVDIGNSEGCMPPMEQVPGEKYYPGQRLKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  VR+  +GPQ+ LSRTHP  + +LF  EVPEIY+GIV + ++SR+ GSR K+AV ++D
Sbjct: 182 LLMVRKTTKGPQLRLSRTHPGLVKRLFETEVPEIYDGIVDIVSISREAGSRTKIAVKAND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           SS+DPVGACVG +G RVQ ++ EL  EKIDI+ +S D   ++ NAL PA + +++ ++  
Sbjct: 242 SSVDPVGACVGQKGIRVQNIINELNGEKIDIIKYSDDVREYLSNALSPAKIYRILPNKTE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
                +V   QLSLAIG+ GQNVRLA++L  W IDI ++ +      +  N         
Sbjct: 302 KTAIAVVDDFQLSLAIGKEGQNVRLAAKLASWKIDIKSKSDYERMLAE--NPDFDADYTN 359

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
              +E I   L  E            + E+  I+  DE+ A  +     + +   ++   
Sbjct: 360 AGEEEDILDELKNE------------LDEVLDIQ-IDEDNAESLDNVLDDLVMTDELEDL 406

Query: 426 KKIRE 430
               E
Sbjct: 407 DDFFE 411


>gi|332184778|gb|AEE27032.1| Transcription termination protein NusA [Francisella cf. novicida
           3523]
          Length = 489

 Score =  462 bits (1190), Expect = e-128,   Method: Composition-based stats.
 Identities = 165/517 (31%), Positives = 297/517 (57%), Gaps = 38/517 (7%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL + + VA EK I +D++   M +++    +       +I V+I+  TGD    R+
Sbjct: 2   SKELLLVLETVANEKDISKDLLFEAMEEALAIITKKELDEHMNIEVKIDRVTGDFKADRV 61

Query: 66  LEVV---EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             +V   E++ +Y+ ++   VA+++  ++  G V+ +P+   ++GR+A   AKQ++++K+
Sbjct: 62  WHIVSENEDLIDYSKELYEDVAQEKGYNVKAGDVIREPVEVKEYGRIAATMAKQILMKKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDR 181
           +  ER++    +++K+G+I+ G +KR  Y  +IVDLGN ++G++ + + I+RE  R GD+
Sbjct: 122 KNFEREKTARFYQNKIGDIVYGEIKRATYEILIVDLGNNAEGILPKKDLIARERYRVGDK 181

Query: 182 VKSYIYDVRREQRGPQ--VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           +++ +  V  +  G    V+LSR+    +  LF +EVPE+   ++ +  V R+PG R+K+
Sbjct: 182 IRACVESVECDDSGKPNTVMLSRSSNTMLKALFKLEVPEVEEELINIVNVVREPGFRSKV 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP---AIV 296
            V S+D  IDP GACVG+RGSR+ ++++EL  EK+D+++W+ D   + IN+L P   A +
Sbjct: 242 TVKSNDQRIDPCGACVGVRGSRIHSIMSELNGEKVDVILWNEDMVQYAINSLSPVDAADI 301

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN 356
            +V +DE+   ++++V +E LS AIG+ G NVRLAS L GW I+++++ E    +     
Sbjct: 302 LEVNVDEETNSMDIVVKQESLSKAIGKNGVNVRLASTLIGWKINVLSDAEQEEKQM---- 357

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
              + F++A+++D   A +L+ EG   +E+LA +  +E+  IEGFDEE   E+Q RA+  
Sbjct: 358 SIVEKFVEALDIDHDFALVLIEEGIETLEDLAYLDRAELLEIEGFDEEIVDELQERAKAV 417

Query: 417 LEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN 476
           +          +     +++L  + G+   +   L +N I TMEDLA  SVD+L      
Sbjct: 418 ILSQA------LGGKKPAQDLLDMQGMSLDLAEQLAQNNIVTMEDLAELSVDEL------ 465

Query: 477 KGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                      L  +   ++Q  ++I+ AR    W E
Sbjct: 466 -----------LDIVDMDEEQATNLIMQARAP--WFE 489


>gi|254556874|ref|YP_003063291.1| transcription elongation factor NusA [Lactobacillus plantarum JDM1]
 gi|300768187|ref|ZP_07078092.1| transcription termination factor NusA [Lactobacillus plantarum
           subsp. plantarum ATCC 14917]
 gi|308180815|ref|YP_003924943.1| transcription elongation factor NusA [Lactobacillus plantarum
           subsp. plantarum ST-III]
 gi|254045801|gb|ACT62594.1| transcription elongation factor NusA [Lactobacillus plantarum JDM1]
 gi|300494251|gb|EFK29414.1| transcription termination factor NusA [Lactobacillus plantarum
           subsp. plantarum ATCC 14917]
 gi|308046306|gb|ADN98849.1| transcription elongation factor NusA [Lactobacillus plantarum
           subsp. plantarum ST-III]
          Length = 405

 Score =  462 bits (1189), Expect = e-128,   Method: Composition-based stats.
 Identities = 145/344 (42%), Positives = 218/344 (63%), Gaps = 1/344 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL   D +  EK I ++VV+  +  ++  A +  YG   ++ V+ +   G+I ++ +
Sbjct: 2   SKELLGALDTLESEKGIKKEVVIEALEAALVSAYKRNYGQAQNVEVDFDQIKGNIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVE+V +   ++SL+ A   + + +IG  +   + P +FGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVVEDVFDSRLEVSLQDALAINRAYEIGDDIRFEVTPKNFGRIAAQTAKQVIMQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y E+     EI++G V+R +   V V LG  + V+ R + +  E  R  D++K Y
Sbjct: 122 ERGIIYDEYSQYENEIVTGEVERQDNRFVYVSLGKVEAVMGRSDQLPGEVYRIHDKIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SRT P  + +LF  EVPEI++GIV++ +++R+ G RAK+AV S++
Sbjct: 182 VSKVENATKGPQVFVSRTAPDLLKRLFEQEVPEIFDGIVEIVSIAREAGDRAKVAVRSNN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD-ED 304
            ++DPVG CVG +G RVQ +V EL  E +DIV W+ D A F+ NAL PA V  V+ D E+
Sbjct: 242 PNVDPVGTCVGPKGQRVQTIVNELHGENMDIVEWTDDQAVFIANALNPAEVLDVIFDPEN 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
                V+VP  QLSLAIG+RGQN RLA++LTG+ IDI +E E S
Sbjct: 302 ERGCTVVVPDYQLSLAIGKRGQNARLAAKLTGFKIDIKSETEAS 345


>gi|28378676|ref|NP_785568.1| transcription elongation factor NusA [Lactobacillus plantarum
           WCFS1]
 gi|28271512|emb|CAD64417.1| transcription termination-antitermination factor NusA
           [Lactobacillus plantarum WCFS1]
          Length = 405

 Score =  462 bits (1189), Expect = e-128,   Method: Composition-based stats.
 Identities = 145/344 (42%), Positives = 218/344 (63%), Gaps = 1/344 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL   D +  EK I ++VV+  +  ++  A +  YG   ++ V+ +   G+I ++ +
Sbjct: 2   SKELLGALDTLESEKGIKKEVVIEALEAALVSAYKRNYGQAQNVEVDFDQIKGNIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVE+V +   ++SL+ A   + + +IG  +   + P +FGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVVEDVFDSRLEVSLQDALAINRAYEIGDDIRFEVTPKNFGRIAAQTAKQVIMQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y E+     EI++G V+R +   V V LG  + V+ R + +  E  R  D++K Y
Sbjct: 122 ERGIIYDEYSQYENEIVTGEVERQDNRFVYVSLGKVEAVMGRSDQLPGEVYRIHDKIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SRT P  + +LF  EVPEI++GIV++ +++R+ G RAK+AV S++
Sbjct: 182 VSKVENATKGPQVFVSRTAPDLLKRLFEQEVPEIFDGIVEIVSIAREAGDRAKVAVRSNN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD-ED 304
            ++DPVG CVG +G RVQ +V EL  E +DIV W+ D A F+ NAL PA V  V+ D E+
Sbjct: 242 PNVDPVGTCVGPKGQRVQTIVNELHGENMDIVEWTYDQAVFIANALNPAEVLDVIFDPEN 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
                V+VP  QLSLAIG+RGQN RLA++LTG+ IDI +E E S
Sbjct: 302 ERGCTVVVPDYQLSLAIGKRGQNARLAAKLTGFKIDIKSETEAS 345


>gi|326803576|ref|YP_004321394.1| transcription termination factor NusA [Aerococcus urinae
           ACS-120-V-Col10a]
 gi|326651243|gb|AEA01426.1| transcription termination factor NusA [Aerococcus urinae
           ACS-120-V-Col10a]
          Length = 455

 Score =  461 bits (1188), Expect = e-127,   Method: Composition-based stats.
 Identities = 154/447 (34%), Positives = 250/447 (55%), Gaps = 2/447 (0%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L+Q  + +  EK I +D ++  +  ++  A +  +    ++ V  + + G   ++ + EV
Sbjct: 5   LIQAFEMLEQEKGISKDTIIDAVQSALVFAYKRNFDQAQNVEVVFDDKKGSFHVYSVKEV 64

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VE V +   ++SL+ A + +   +IG  +   + P DFGR+A Q+AKQVI Q++REAER+
Sbjct: 65  VETVMDSNLEVSLEDALEINRGYEIGDKIRCEVTPEDFGRIAAQTAKQVITQRLREAERE 124

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
             Y EF D   ++++GTV+R +   + V+LG  + V+  +  I  E  +P DR++ Y+  
Sbjct: 125 IIYEEFIDYEDDLLTGTVERQDRRYIYVNLGKIEAVLTPEGQIPGEYFQPHDRIQVYVER 184

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V    +GPQ+ +SRTHP  + +LF  EVPEIY+G V++++++R+ G R+KLAV+S+D ++
Sbjct: 185 VENTTKGPQIYVSRTHPNMLKRLFEQEVPEIYDGTVEIRSIAREAGDRSKLAVYSNDPNV 244

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI 308
           DPVG CVG RGSRVQ VV EL+ E +DI+ W  D A  + NAL PA V  V    +    
Sbjct: 245 DPVGTCVGPRGSRVQTVVNELKGENMDIIEWDEDPAVLIANALNPADVLAVHFVPNEQAC 304

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINV 368
            V+VP   LSLAIG+RGQN RLA++LTG+ IDI +E E    +  +  + T    Q +  
Sbjct: 305 VVVVPDNHLSLAIGKRGQNARLAAKLTGYKIDIKSETEYEDYQDSEEYKETFLQDQNLEA 364

Query: 369 DEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKI 428
           +      L+ +   +VEE      + +AS     EET   +   + +   G +   ++ I
Sbjct: 365 ESEEVESLLND--VNVEEELMSDPAALASDSLVSEETDPLLSEVSADDQAGFENYDEENI 422

Query: 429 RELGVSEELCSIPGIDSKIKVALGENG 455
               + E +  +   D      L + G
Sbjct: 423 HPDDMEEIVSDVEESDEVTYDELLDEG 449


>gi|290969147|ref|ZP_06560672.1| transcription termination factor NusA [Megasphaera genomosp. type_1
           str. 28L]
 gi|290780653|gb|EFD93256.1| transcription termination factor NusA [Megasphaera genomosp. type_1
           str. 28L]
          Length = 372

 Score =  461 bits (1187), Expect = e-127,   Method: Composition-based stats.
 Identities = 157/359 (43%), Positives = 225/359 (62%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL     ++ EK +  DV+   +   +  A +          VE+N ETGD  +   
Sbjct: 2   NKELLNAIAFLSKEKGVSPDVICDSLEAVLITAYKKEPEANPMADVELNRETGDYRIVAA 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV EV N   +I L  AR ++ + +IG +V   + P +FGR+A Q+AKQV+IQ++REA
Sbjct: 62  KTVVAEVTNENEEIVLAEARKQNAAYEIGDMVKVDVTPHNFGRIAAQAAKQVMIQRLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF ++  +II+G V+R+E   V VDLG ++ V+   E I+ E    G R+K Y
Sbjct: 122 ERSIVYDEFYNRTDDIITGLVQRIENKIVYVDLGKAEAVLPVSEQIAEEQYYVGQRLKCY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +VR+  +G Q+L+SRTHP  + +LF +EVPEIY+G+V++K+V+R+PG R+K+AVFS D
Sbjct: 182 VVEVRKTTKGAQILVSRTHPGLLKRLFELEVPEIYDGVVELKSVAREPGRRSKIAVFSRD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           +++D VGACVG +G RVQ +VTEL++EKIDIV W  D A ++ NAL PA V  V +DE+ 
Sbjct: 242 TNVDCVGACVGPKGVRVQNIVTELQNEKIDIVKWDEDPAVYIANALSPAQVVSVTIDEEN 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
               VIVP  QLSLAIG+ GQN RLA++LT W IDI +E +      KD         +
Sbjct: 302 KMSAVIVPDYQLSLAIGKAGQNARLAAKLTNWKIDIKSESQAKDGNSKDNEGEPDILSE 360


>gi|51246466|ref|YP_066350.1| transcription elongation factor NusA [Desulfotalea psychrophila
           LSv54]
 gi|50877503|emb|CAG37343.1| related to transcription termination factor (NusA) [Desulfotalea
           psychrophila LSv54]
          Length = 466

 Score =  461 bits (1186), Expect = e-127,   Method: Composition-based stats.
 Identities = 179/447 (40%), Positives = 285/447 (63%), Gaps = 8/447 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L +I D ++ ++ ID+ +++S + ++++ AA+  +G+  DI V  N E G++ +F+   
Sbjct: 4   DLKRIIDQISRDRGIDKGILVSAIEEAVESAAKKKFGSRRDIEVRYNEEYGEVDVFQFRT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPL-PPMDFGRVAVQSAKQVIIQKVREAE 126
           VVEE+E+   +I+L+ AR  DP++ +G  + + +    D GR+A QSAKQVII ++++AE
Sbjct: 64  VVEEIEDEQTEIALEDARILDPAVQLGDDLGEKMSNITDLGRIAAQSAKQVIINRMKDAE 123

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           RD  Y  +KD+VGE++SG V+R E GN++V+LG +D ++ ++  I +   + GDR+++Y+
Sbjct: 124 RDVIYDMYKDRVGEVVSGIVQRFERGNMVVNLGRTDAILPKEHQIPKRTFKQGDRIRAYL 183

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +VR+  R  Q++LSRT  +F+ KLF MEVPE+  GIV+V  VSR+PG RAK+AV SS+S
Sbjct: 184 LEVRQTSRDCQLILSRTCDEFLEKLFQMEVPEMSEGIVRVLGVSREPGFRAKIAVSSSES 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVGM+GSRVQ VV EL+ E+IDIV WSPD A +V NAL PA V+ V  DE+  
Sbjct: 244 DVDPVGACVGMKGSRVQNVVQELQGERIDIVTWSPDIAKYVYNALAPAHVSMVRNDEERN 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
            + V+VP +QLSLAIGR+GQNVRLAS+L G  ID+ +E+  +  +    +   Q  ++  
Sbjct: 304 SLLVVVPNDQLSLAIGRQGQNVRLASRLLGCRIDVKSEQRYANLQ----DPGYQSLLKIH 359

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE---YLEGIDIT 423
            +DE +A  L A G      LA  +I+++  +   +EE A  +   A+      E  +I+
Sbjct: 360 GIDEGLADQLWARGIVSTAVLAQTEIADLTVLRAINEEFAAALVKDAQANPFVAEETEIS 419

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVA 450
             +      ++ +       +  + V 
Sbjct: 420 SVEASEAENINADTVDAESSEEAVVVE 446


>gi|293374143|ref|ZP_06620477.1| transcription termination factor NusA [Turicibacter sanguinis
           PC909]
 gi|325837442|ref|ZP_08166424.1| transcription termination factor NusA [Turicibacter sp. HGF1]
 gi|292647246|gb|EFF65222.1| transcription termination factor NusA [Turicibacter sanguinis
           PC909]
 gi|325490974|gb|EGC93272.1| transcription termination factor NusA [Turicibacter sp. HGF1]
          Length = 351

 Score =  461 bits (1186), Expect = e-127,   Method: Composition-based stats.
 Identities = 150/343 (43%), Positives = 217/343 (63%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  E     + +  EK I +D+++     ++  A +  +   ++++VEIN  TG + L++
Sbjct: 2   NTKEFFAALELLEKEKGISKDIIIEAFEHALISAYKKNFNQATNVKVEINEVTGTVKLYQ 61

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
              VVEEV     QISL  A   +P    G +++  + P DFGR+A Q+AKQV+ Q++R+
Sbjct: 62  QKTVVEEVTRPQEQISLDEAMRLNPHYQEGDIINFEVTPKDFGRIATQTAKQVVKQRIRQ 121

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AERD  + EFKD+ GEI++G V + +  +V VDLG  + ++   E ++ + ++P  R+K 
Sbjct: 122 AERDNLFQEFKDREGEIVTGIVVKDDGKHVFVDLGKIEALLPIREIMNPDEIKPNSRIKV 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI  +  + +GP V +SR  P  + +LF +EVPEIY+G V++ +V+RD G R K+ V S 
Sbjct: 182 YISKIESKNKGPVVYVSRKDPNLIKRLFELEVPEIYDGTVEIMSVARDAGDRTKICVASE 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D ++DPVGACVG  G RVQ +V EL  EKIDI+ +S D A  V NAL PA V+KVV+DE 
Sbjct: 242 DENVDPVGACVGPSGQRVQNIVDELNGEKIDIIQFSKDPAVLVANALSPAQVSKVVVDEA 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
                V+VP  QLSLAIG+RGQN RLA+QLTGW IDI  E E 
Sbjct: 302 KKATVVLVPDNQLSLAIGKRGQNARLAAQLTGWKIDIKPESEA 344


>gi|163791587|ref|ZP_02185988.1| transcription elongation factor NusA [Carnobacterium sp. AT7]
 gi|159873136|gb|EDP67239.1| transcription elongation factor NusA [Carnobacterium sp. AT7]
          Length = 425

 Score =  460 bits (1185), Expect = e-127,   Method: Composition-based stats.
 Identities = 150/402 (37%), Positives = 236/402 (58%), Gaps = 5/402 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L   +A+  EK I ++ V+  +  ++  A +  Y    ++ VE + + G+I ++ +
Sbjct: 2   SKEMLNALNALEQEKGIPKEFVIEALEVALISAYKRNYDQAQNVEVEFDLKKGNIHVYSV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV + V +   ++ L+ A + + + ++G  +   + P DFGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVADVVYDSRLEVGLEEALELNKAYELGDKIRFEVTPKDFGRIAAQTAKQVIMQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  Y EF     +I+ G V+R ++  + V+LG  + V+ + E I  E  +P DR+K Y
Sbjct: 122 ERNIIYNEFIAYENDIMQGIVERQDHRYIYVNLGKIEAVLSKQEQIPNEVYKPHDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQ+ +SR+HP  + +LF  EVPEIY+G+V++ +++R+ G RAK+AV S +
Sbjct: 182 VTKVENTSKGPQIFVSRSHPDLLKRLFEQEVPEIYDGVVEIVSIAREAGDRAKVAVRSRE 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            +IDPVG CVG +G RVQA+V EL+ E +DIV W  D AT++ NAL PA V  V  +E  
Sbjct: 242 ENIDPVGTCVGPKGQRVQAIVNELKGENMDIVEWDADPATYIGNALNPAQVVSVTFNEAA 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
           G   V+VP  QLSLAIG+RGQN RLA++LTG+ IDI +E + +  +            + 
Sbjct: 302 GSCLVVVPDYQLSLAIGKRGQNARLAAKLTGYKIDIKSETDMAAIQLAKEEAGLVKDAEY 361

Query: 366 INVDEII----AHLLVAEGFADVEELACVKISEIASIEGFDE 403
             V E I      +   E    VE+L   +  EI      +E
Sbjct: 362 AEVIETIESQEQEMNEEEIIQTVEDL-DTEFDEITIDADIEE 402


>gi|118498223|ref|YP_899273.1| transcription elongation factor NusA [Francisella tularensis subsp.
           novicida U112]
 gi|194324407|ref|ZP_03058180.1| transcription termination factor NusA [Francisella tularensis
           subsp. novicida FTE]
 gi|208780250|ref|ZP_03247592.1| transcription termination factor NusA [Francisella novicida FTG]
 gi|118424129|gb|ABK90519.1| transcription elongation factor [Francisella novicida U112]
 gi|194321472|gb|EDX18957.1| transcription termination factor NusA [Francisella tularensis
           subsp. novicida FTE]
 gi|208743899|gb|EDZ90201.1| transcription termination factor NusA [Francisella novicida FTG]
 gi|332678959|gb|AEE88088.1| Transcription termination protein NusA [Francisella cf. novicida
           Fx1]
          Length = 489

 Score =  460 bits (1185), Expect = e-127,   Method: Composition-based stats.
 Identities = 163/517 (31%), Positives = 298/517 (57%), Gaps = 38/517 (7%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL + + VA EK I +D++   M +++    +       +I V+I+  TGD    R+
Sbjct: 2   SKELLLVLETVANEKDISKDLLFEAMEEALAIITKKELDEHMNIEVKIDRVTGDFKADRV 61

Query: 66  LEVV---EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             +V   E++ +Y+ ++   VA+++  ++  G V+ +P+   ++GR+A   AKQ++++K+
Sbjct: 62  WHIVSEDEDLIDYSKELYEDVAQEKGYNVKAGDVIREPVEVKEYGRIAATMAKQILMKKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDR 181
           +  ER++    +++K+G+I+ G +KR  Y  ++VDLGN ++G++ + + I+RE  R GD+
Sbjct: 122 KNFEREKSARFYQNKIGDIVYGEIKRATYEILVVDLGNNAEGILPKKDLIARERYRVGDK 181

Query: 182 VKSYIYDVRREQRGPQ--VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           +++ +  V  ++ G    ++LSR+    +  LF +EVPE+   ++ +  V R+PG R+K+
Sbjct: 182 IRACVEAVESDESGKPNTIMLSRSSNTMLKALFKLEVPEVEEELINIVNVVREPGFRSKV 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP---AIV 296
            V S+D  IDP GACVG+RGSR+ ++++EL  EK+D+++W+ D   + IN+L P   A +
Sbjct: 242 TVKSNDQRIDPCGACVGVRGSRIHSIMSELNGEKVDVILWNEDMVQYAINSLSPVDAADI 301

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN 356
            +V +DE+   ++++V +E LS AIG+ G NVRLAS L GW I+++++ E    +     
Sbjct: 302 LEVNVDEETNSMDIVVKQESLSKAIGKNGVNVRLASSLIGWKINVLSDAEQEEKQM---- 357

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
              + F++A+++D   A +L+ EG   +E+LA +  +E+  IEGFDEE   E+Q RA+  
Sbjct: 358 SIVEKFVEALDIDHDFALVLIEEGIETLEDLAYLDRAELLEIEGFDEEIVDELQERAKAV 417

Query: 417 LEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN 476
           +          +     +++L  + G+   +   L +N I TMEDLA  SVD+L      
Sbjct: 418 ILSQA------LGGKKPAQDLLDMQGMSLDLAEQLAQNNIVTMEDLAELSVDEL------ 465

Query: 477 KGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                      L  +   ++Q  ++I+ AR    W E
Sbjct: 466 -----------LDIVDMDEEQATNLIMQARAP--WFE 489


>gi|78222794|ref|YP_384541.1| transcription elongation factor NusA [Geobacter metallireducens
           GS-15]
 gi|78194049|gb|ABB31816.1| NusA antitermination factor [Geobacter metallireducens GS-15]
          Length = 381

 Score =  460 bits (1184), Expect = e-127,   Method: Composition-based stats.
 Identities = 180/372 (48%), Positives = 250/372 (67%), Gaps = 2/372 (0%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L  I D +  EK IDRD+V+  +  ++  AA   Y    D+    NPE G++ LF  + V
Sbjct: 7   LKHIIDQIVKEKGIDRDIVVEALEQAVLSAANKKYRNTRDLEAHYNPEVGEVELFEFVTV 66

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           V+EV +   +I L+ AR+ DP +++G  +   +    F R+A Q+AKQVIIQKVREAER+
Sbjct: 67  VDEVMDSYKEIDLEEAREIDPDVEVGDSLGMKMDASGFTRIAAQTAKQVIIQKVREAERE 126

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
             + EFKD++GE+I+G V+R E G+++VDLG ++ ++   E   RE  R GDR+K+ I D
Sbjct: 127 TIFNEFKDRIGELINGVVRRFEKGDLVVDLGRAEALLSNKEQAPREVYRQGDRIKALIMD 186

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           +R   +GPQ++LSRTHP  + KLF  EVPEI  GIV++K+V R+PGSR+K+AV+S DS +
Sbjct: 187 IRMTPKGPQIILSRTHPGVLAKLFEAEVPEIAEGIVEIKSVVREPGSRSKIAVYSHDSDV 246

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI 308
           DPVGACVGMRGSRVQ VV+ELR EKIDI+ WS D A F  NAL+PA V+KV +DE+   +
Sbjct: 247 DPVGACVGMRGSRVQNVVSELRGEKIDIIPWSEDPARFACNALQPAAVSKVYIDEENKAL 306

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI-- 366
           E+IV  +QLSLAIG++GQNVRLA++LTGW IDI +E   +     +F+       +A   
Sbjct: 307 EIIVADDQLSLAIGKKGQNVRLAAKLTGWRIDIKSETRAAEAELLEFSSYDGATEEAPQE 366

Query: 367 NVDEIIAHLLVA 378
            V+E  A  L  
Sbjct: 367 PVEESEAQPLEQ 378


>gi|254375031|ref|ZP_04990511.1| transcription elongation factor [Francisella novicida GA99-3548]
 gi|151572749|gb|EDN38403.1| transcription elongation factor [Francisella novicida GA99-3548]
          Length = 489

 Score =  459 bits (1183), Expect = e-127,   Method: Composition-based stats.
 Identities = 163/517 (31%), Positives = 298/517 (57%), Gaps = 38/517 (7%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL + + VA EK I +D++   M +++    +       +I V+I+  TGD    R+
Sbjct: 2   SKELLLVLETVANEKDISKDLLFEAMEEALAIITKKELDEHMNIEVKIDRVTGDFKADRV 61

Query: 66  LEVV---EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             +V   E++ +Y+ ++   VA+++  ++  G V+ +P+   ++GR+A   AKQ++++K+
Sbjct: 62  WHIVSEDEDLIDYSKELYEDVAQEKGYNVKAGDVIREPVEVKEYGRIAATMAKQILMKKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDR 181
           +  ER++    +++K+G+I+ G +KR  Y  ++VDLGN ++G++ + + I+RE  R GD+
Sbjct: 122 KNFEREKSARFYQNKIGDIVYGEIKRATYEILVVDLGNNAEGILPKKDLIARERYRVGDK 181

Query: 182 VKSYIYDVRREQRG--PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           +++ +  V  ++ G    ++LSR+    +  LF +EVPE+   ++ +  V R+PG R+K+
Sbjct: 182 IRACVEAVESDESGKLSTIMLSRSSNTMLKALFKLEVPEVEEELINIVNVVREPGFRSKV 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP---AIV 296
            V S+D  IDP GACVG+RGSR+ ++++EL  EK+D+++W+ D   + IN+L P   A +
Sbjct: 242 TVKSNDQRIDPCGACVGVRGSRIHSIMSELNGEKVDVILWNEDMVQYAINSLSPVDAADI 301

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN 356
            +V +DE+   ++++V +E LS AIG+ G NVRLAS L GW I+++++ E    +     
Sbjct: 302 LEVNVDEETNSMDIVVKQESLSKAIGKNGVNVRLASSLIGWKINVLSDAEQEEKQM---- 357

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
              + F++A+++D   A +L+ EG   +E+LA +  +E+  IEGFDEE   E+Q RA+  
Sbjct: 358 SIVEKFVEALDIDHDFALVLIEEGIETLEDLAYLDRAELLEIEGFDEEIVDELQERAKAV 417

Query: 417 LEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN 476
           +          +     +++L  + G+   +   L +N I TMEDLA  SVD+L      
Sbjct: 418 ILSQA------LGGKKPAQDLLDMQGMSLDLAEQLAQNNIVTMEDLAELSVDEL------ 465

Query: 477 KGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                      L  +   ++Q  ++I+ AR    W E
Sbjct: 466 -----------LDIVDMDEEQATNLIMQARAP--WFE 489


>gi|116624262|ref|YP_826418.1| NusA antitermination factor [Candidatus Solibacter usitatus
           Ellin6076]
 gi|116227424|gb|ABJ86133.1| NusA antitermination factor [Candidatus Solibacter usitatus
           Ellin6076]
          Length = 542

 Score =  459 bits (1181), Expect = e-127,   Method: Composition-based stats.
 Identities = 163/425 (38%), Positives = 249/425 (58%), Gaps = 6/425 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           + Q  + ++ EK ID  +VL  + D++  AAR  Y +  D   +++P+TG I L+ + +V
Sbjct: 26  IFQSIEILSKEKGIDPQIVLDAVKDAMLIAARKHYRSTEDYVADMDPKTGAIKLYAVKKV 85

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VE VE+ + +++L  AR  D + ++GG V  P      GR++ Q+AKQVI QKVREAER+
Sbjct: 86  VEAVEDPSHEMTLAEARRIDSTAEVGGEVRIPKNTDALGRISAQTAKQVIFQKVREAERE 145

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
             + E+  + GE+++ T+KRVE  + I+DLG ++  + + E    E    GDRV+  I  
Sbjct: 146 TVFNEYSGRTGELVNCTIKRVEGPDYILDLGKTEAKLPKKEQSRLEGYSVGDRVRCIIKL 205

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  +GP VL+SR  P+ +++LF  EVPEIY+G V ++  +R+ G R K+AV S D  +
Sbjct: 206 VDKSSKGPGVLVSRAAPELVMRLFEQEVPEIYDGTVAIRGCAREAGERTKIAVQSRDRDV 265

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           D VGACVGM+G RVQ+++ ELR EKIDI+ +S DS  F  +AL PA V+++ V+D     
Sbjct: 266 DSVGACVGMKGMRVQSIIRELRGEKIDIIEYSEDSVVFATHALSPAKVSRITVIDPLEKH 325

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ-----FF 362
           +EVIV   QLSLAIG++GQNVRLA++L GW IDI +EEE     +               
Sbjct: 326 MEVIVDDSQLSLAIGKKGQNVRLAAKLLGWKIDIKSEEEKRQEVESQMAALVAPGAPVSV 385

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           +    + E +A  L+  G A +E+L  +   E+  + G   E+   IQ     Y    + 
Sbjct: 386 LIDYGMAEEMAVKLLENGVATIEKLGAMTPEELEVLPGIGPESVEGIQTAVVAYYSQFED 445

Query: 423 TLQKK 427
              + 
Sbjct: 446 PASEN 450


>gi|148263956|ref|YP_001230662.1| transcription elongation factor NusA [Geobacter uraniireducens Rf4]
 gi|146397456|gb|ABQ26089.1| NusA antitermination factor [Geobacter uraniireducens Rf4]
          Length = 383

 Score =  459 bits (1181), Expect = e-127,   Method: Composition-based stats.
 Identities = 176/352 (50%), Positives = 239/352 (67%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
              L    D +  EK ID+DVVL  +  ++  AA   +    D+    NPE G++ LF  
Sbjct: 4   NFNLKHTIDQIVKEKGIDKDVVLEALEQAVLTAANKKFRNTRDLEAHYNPEIGEVELFEF 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           + VVEEV++   +I L  AR+ DP +++G  +   +    F R+A Q+AKQVIIQKVREA
Sbjct: 64  VTVVEEVQDSYKEIDLDEAREIDPDVEVGDSLGMKMDASGFSRIAAQTAKQVIIQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  + EF+++ GE+I+G V+R E G+++VDLG ++ ++   E   RE  R GDRVK+ 
Sbjct: 124 ERETIFNEFQERHGEVINGVVRRFEKGDLVVDLGRAEALLPHKEQAPREVYRQGDRVKAL 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I ++R   +GPQ+LLSRTHP  + KLF  EVPEI  GIV++K+V R+PGSRAK+AV+S D
Sbjct: 184 ITEIRMTTKGPQILLSRTHPMMLAKLFEAEVPEIAEGIVEIKSVVREPGSRAKIAVYSHD 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           S +DPVGACVGMRGSRVQ VV+ELR EKIDI+ WS D A F  NAL PA+V+KV +DED 
Sbjct: 244 SDVDPVGACVGMRGSRVQNVVSELRGEKIDIIPWSEDVARFACNALAPAVVSKVYVDEDN 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
             +E++V  +QLSLAIG+RGQNVRLA++LTGW IDI +E   +      F  
Sbjct: 304 RSMEIVVADDQLSLAIGKRGQNVRLAAKLTGWRIDIKSETRVAEAELLQFAS 355


>gi|322418688|ref|YP_004197911.1| NusA antitermination factor [Geobacter sp. M18]
 gi|320125075|gb|ADW12635.1| NusA antitermination factor [Geobacter sp. M18]
          Length = 397

 Score =  459 bits (1181), Expect = e-127,   Method: Composition-based stats.
 Identities = 172/350 (49%), Positives = 236/350 (67%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L    D +  EK ID+ +V+  +  ++  AA   +    D+    NPE G++ LF  + V
Sbjct: 7   LKHTIDQIVKEKGIDKGIVVEALEQAVLTAANKKFRNTRDLEAHYNPEIGEVELFEFVTV 66

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           V+EV++   +I L  AR+ DP ++IG  +   +    F R+A Q+AKQVIIQ+VREAER+
Sbjct: 67  VDEVQDSYREIELDEAREEDPDVEIGDSIGMKMDASGFSRIAAQTAKQVIIQRVREAERE 126

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
             + EF ++ GEI++G V+R E G++IVDLG ++ ++   E   RE  R GDRVK+ I +
Sbjct: 127 TIFNEFMERQGEIVNGVVRRFEKGDLIVDLGRAEALLPHKEQAPREVYRQGDRVKALITE 186

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           +R   +GPQ++LSRTHP  + KLF  EVPEI  GIV++K+V R+PG RAK+AV+S D  +
Sbjct: 187 IRMTTKGPQIMLSRTHPTMLAKLFEAEVPEIAEGIVEIKSVVREPGGRAKIAVYSHDGDV 246

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI 308
           DPVGACVGMRGSRVQ VV+ELR EKIDI+ WS D A F  NAL PA+VTKV +DE+   +
Sbjct: 247 DPVGACVGMRGSRVQNVVSELRGEKIDIIPWSDDIARFACNALAPAVVTKVYVDEEDYAM 306

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           EVIV  +QLSLAIG+RGQNVRLA++LTGW IDI +E   +    + F   
Sbjct: 307 EVIVADDQLSLAIGKRGQNVRLAAKLTGWKIDIKSETRMAEAELQQFASY 356


>gi|332686768|ref|YP_004456542.1| transcription termination protein NusA [Melissococcus plutonius
           ATCC 35311]
 gi|332370777|dbj|BAK21733.1| transcription termination protein NusA [Melissococcus plutonius
           ATCC 35311]
          Length = 396

 Score =  458 bits (1179), Expect = e-126,   Method: Composition-based stats.
 Identities = 143/356 (40%), Positives = 223/356 (62%), Gaps = 1/356 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L   +A+  EK I +++V+  +  ++  A +  YG   ++ VE N + GDI ++ +
Sbjct: 2   SKEILNALNALEAEKGISKEIVIDALEAALVSAYKRHYGQAQNVEVEFNNKKGDIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV EEV +   +I+L+ A   + + +IG V+   + P DFGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVTEEVMDSQLEIALEDALAINGAYEIGDVIHFEVTPKDFGRIAAQTAKQVILQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF +   +I+ G V+R +   + V+LG  + V+ + + +  E  +  DR+K Y
Sbjct: 122 ERTIIYNEFSEYENDIMQGIVERQDRRYIYVNLGKIEAVLSKQDQMPNEFYQAHDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SR+HP  + +LF  E+PE+Y+GIV++ +++R+ G R+K+AV S D
Sbjct: 182 VSKVENTSKGPQVFVSRSHPDLLKRLFEQEIPEVYDGIVEIVSIAREAGDRSKIAVRSID 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD-ED 304
            +IDPVG CVG +G RVQA+V EL+ E +DIV W+ D   ++ NAL PA V  V+ D E+
Sbjct: 242 PNIDPVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPVVYISNALNPAQVVDVIFDPEN 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
                ++VP  QLSLAIG+RGQN RLA++LTG+ IDI  E   +   ++   E   
Sbjct: 302 NKVCTIVVPDHQLSLAIGKRGQNARLAAKLTGFKIDIKAESNMADYYEQKQEEIED 357


>gi|282882060|ref|ZP_06290701.1| transcription termination factor NusA [Peptoniphilus lacrimalis
           315-B]
 gi|300813713|ref|ZP_07094033.1| transcription termination factor NusA [Peptoniphilus sp. oral taxon
           836 str. F0141]
 gi|281298090|gb|EFA90545.1| transcription termination factor NusA [Peptoniphilus lacrimalis
           315-B]
 gi|300512170|gb|EFK39350.1| transcription termination factor NusA [Peptoniphilus sp. oral taxon
           836 str. F0141]
          Length = 430

 Score =  458 bits (1179), Expect = e-126,   Method: Composition-based stats.
 Identities = 149/345 (43%), Positives = 230/345 (66%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E ++  + +  EK I +D++   +  ++  + +  YGT  ++ V+++ ETG+I LF  
Sbjct: 2   NQEFIEALNEIEKEKGISKDIIFDALEQALVSSYKKNYGTSQNVIVKMDRETGEIKLFAY 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEVEN   +ISL+ A+  D +  +G   +  + P +FGR+A Q+AKQV+IQ++++A
Sbjct: 62  KNIVEEVENPEIEISLEDAKKIDINFKLGDNYTKEIHPKNFGRIAAQTAKQVVIQRIKDA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ERD  + +F  K  E+++G V+R  +GNV VDLG ++G++  +E I  E+ + GDR K  
Sbjct: 122 ERDVIFEDFTKKERELLTGLVQRSNHGNVYVDLGKTEGILLPNEQIKGESYKHGDRYKML 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V++  +GPQV+LSR+HP  + +LF +EVPEI  GIV++ ++SR+ GSR K+AVFS D
Sbjct: 182 LLEVKKSSKGPQVILSRSHPDLIKRLFELEVPEINEGIVEIYSISREAGSRTKIAVFSLD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DP+GACVG +G RV A+V EL +EKIDIV++  D   F+ N+L P+ V KV ++ED 
Sbjct: 242 PEVDPLGACVGYKGQRVNAIVDELSNEKIDIVIYQKDPQEFIANSLSPSKVEKVFINEDD 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
                IVP  QLSLAIG+ GQNVRLA++LTGW IDI +  +    
Sbjct: 302 KSALAIVPDYQLSLAIGKEGQNVRLAAKLTGWKIDIKSMSQYEEY 346


>gi|220903347|ref|YP_002478659.1| transcription elongation factor NusA [Desulfovibrio desulfuricans
           subsp. desulfuricans str. ATCC 27774]
 gi|219867646|gb|ACL47981.1| NusA antitermination factor [Desulfovibrio desulfuricans subsp.
           desulfuricans str. ATCC 27774]
          Length = 449

 Score =  458 bits (1179), Expect = e-126,   Method: Composition-based stats.
 Identities = 175/429 (40%), Positives = 272/429 (63%), Gaps = 7/429 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            LEL +  D ++ +K +DR++++  + D+++ +    +    D+ V  N ETGDI +++ 
Sbjct: 2   NLELKKAIDQISKDKGLDRNMLIDTLEDAVRTSVLRRFSEDMDVEVSYNDETGDIEVYQF 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             V+ +  V N   QI L  AR+ DPS+ +   +   +   D GR+A QSAKQVIIQ++R
Sbjct: 62  KIVMADGDVANPDTQIELAEAREHDPSVQVDDEMGFRVKVEDLGRIAAQSAKQVIIQRMR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           +AE++  Y E+KD+VGEI+SG V+R + G  +V+LG ++ ++ R+E I RE+ + GDRV+
Sbjct: 122 DAEQEIIYEEYKDRVGEIVSGIVQRRDKGGWVVNLGRTEAILPREEQIPREHYKRGDRVQ 181

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           + I +VR+E RGPQV++SR H  +M  LF  EVPE+ +G+VQ+  V+RDPGSRAK+AV S
Sbjct: 182 ALIIEVRQEGRGPQVVISRAHRDYMAALFRREVPEVDDGVVQIMGVARDPGSRAKVAVLS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            +  +DPVGACVG+RGSR+Q +V EL  E+IDIVVWS D AT+  NAL PA+V+++V+DE
Sbjct: 242 RERDVDPVGACVGVRGSRIQNIVQELHGERIDIVVWSADIATYARNALAPALVSRIVVDE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           +   +EVIVP +QL+ AIGR+GQNV+LA++L GW +DI TE      R  + N       
Sbjct: 302 EENLLEVIVPDDQLTNAIGRKGQNVKLAARLLGWKVDIFTET-----RYNEANAIGHGLE 356

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
           Q  +V E+    L+  G++ +++L      E++           +++         ++ T
Sbjct: 357 QVASVAEVSIEALLGAGYSSLDQLRQATDQELSDKLTISASRIADLRSAINFLAPVVEET 416

Query: 424 LQKKIRELG 432
            +    ELG
Sbjct: 417 PESSAVELG 425


>gi|116495058|ref|YP_806792.1| transcription elongation factor NusA [Lactobacillus casei ATCC 334]
 gi|191638561|ref|YP_001987727.1| transcription elongation factor NusA [Lactobacillus casei BL23]
 gi|239631347|ref|ZP_04674378.1| transcription elongation factor NusA [Lactobacillus paracasei
           subsp. paracasei 8700:2]
 gi|301066621|ref|YP_003788644.1| transcription elongation factor [Lactobacillus casei str. Zhang]
 gi|116105208|gb|ABJ70350.1| Transcription elongation factor [Lactobacillus casei ATCC 334]
 gi|190712863|emb|CAQ66869.1| Transcription elongation protein NusA (Transcription
           termination-antitermination factor NusA) [Lactobacillus
           casei BL23]
 gi|239525812|gb|EEQ64813.1| transcription elongation factor NusA [Lactobacillus paracasei
           subsp. paracasei 8700:2]
 gi|300439028|gb|ADK18794.1| Transcription elongation factor [Lactobacillus casei str. Zhang]
 gi|327382599|gb|AEA54075.1| N utilization substance protein A [Lactobacillus casei LC2W]
 gi|327385797|gb|AEA57271.1| N utilization substance protein A [Lactobacillus casei BD-II]
          Length = 417

 Score =  457 bits (1178), Expect = e-126,   Method: Composition-based stats.
 Identities = 141/352 (40%), Positives = 214/352 (60%), Gaps = 2/352 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E++Q  DA+  EK + ++VV+  +  ++  A +  Y    ++ VE +P+ GDI ++ +
Sbjct: 2   SKEMIQALDALEQEKGVKKEVVIEALEAALVSAYKRNYNQAQNVDVEFDPKQGDIHIYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV +EV +   ++SLK A   + + +IG  +   + P DFGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVTDEVFDSRLEVSLKEALAINKAYEIGDQIKFEVTPKDFGRIAAQTAKQVIMQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y E+     EI+ G V+R +   + V+LG  + V+ R + +  E     DR+K Y
Sbjct: 122 ERSIVYDEYSQYEDEILQGVVERRDNRFIYVNLGKIEAVLGRQDQMPNEKYEAHDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SRTHP  + +LF  EVPEI++G V++  ++R+ G R K+AV S++
Sbjct: 182 VTKVENTSKGPQVFVSRTHPGLVKRLFEQEVPEIFDGTVEIVNIAREAGDRTKIAVRSTN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++D VG  VG RG+RVQAVV EL  E +D+V W  D A ++ NAL PA V  V  +++ 
Sbjct: 242 DAVDAVGTTVGPRGARVQAVVNELSGENMDVVQWEEDPADYIANALNPAQVIAVQFNDEA 301

Query: 306 --GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF 355
                 VIVP  QLSLAIG++GQN RLA++LTG+ IDI  E E       + 
Sbjct: 302 NDRSATVIVPDYQLSLAIGKKGQNARLAAKLTGYKIDIKPESEVEFVDDDEL 353


>gi|255655319|ref|ZP_05400728.1| transcription elongation protein [Clostridium difficile QCD-23m63]
 gi|296451304|ref|ZP_06893044.1| transcription termination factor NusA [Clostridium difficile NAP08]
 gi|296880344|ref|ZP_06904307.1| transcription termination factor NusA [Clostridium difficile NAP07]
 gi|296259910|gb|EFH06765.1| transcription termination factor NusA [Clostridium difficile NAP08]
 gi|296428585|gb|EFH14469.1| transcription termination factor NusA [Clostridium difficile NAP07]
          Length = 384

 Score =  457 bits (1178), Expect = e-126,   Method: Composition-based stats.
 Identities = 151/371 (40%), Positives = 237/371 (63%), Gaps = 5/371 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E ++  D +  ++ ID+++++  +  ++  A +  +G+  ++RVE + + GDI +F  
Sbjct: 2   NHEFMEALDELVVDRGIDKEILIDTIEQALLTAYKKNFGSAQNVRVEFDRDKGDIKVFSQ 61

Query: 66  LEVVEEVENYTC--QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV+E + Y    +I L  AR+ +P+ ++G ++   + P +FGR+A Q+AKQV++Q++R
Sbjct: 62  RVVVDESDLYDTFLEIELADAREINPNYELGDIIEHEVTPKNFGRIAAQTAKQVVVQRIR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           EAER+  Y EF +K  EI++G V R     V V+LG  +G++ + E I  EN + G ++K
Sbjct: 122 EAEREIVYNEFIEKENEIVTGEVARANKNVVYVNLGRIEGIMTQSEQIPFENYKAGQKIK 181

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            YI +V++  +GPQ+++SR+HP  + +LF  EVPEIY GIVQ+K+V+R+ GSR K+AV S
Sbjct: 182 FYILEVKKTNKGPQIVVSRSHPGLVKRLFEEEVPEIYEGIVQIKSVAREAGSRTKMAVRS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D  IDP+GACVG +G RV+ +V EL DEKIDI+ +S D A F+  AL P+ V +V +DE
Sbjct: 242 IDEKIDPIGACVGPKGLRVKNIVDELGDEKIDIIKYSEDPAEFISAALSPSKVVRVDIDE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D     VIVP  QLSLAIG+ GQN RLA++LT W IDI +E +         N +    +
Sbjct: 302 DEKSALVIVPDYQLSLAIGKEGQNARLAAKLTNWKIDIKSESQAEQEMLNLENSKK---I 358

Query: 364 QAINVDEIIAH 374
           +A +V+     
Sbjct: 359 EAEDVEAEFIE 369


>gi|212704654|ref|ZP_03312782.1| hypothetical protein DESPIG_02717 [Desulfovibrio piger ATCC 29098]
 gi|212671888|gb|EEB32371.1| hypothetical protein DESPIG_02717 [Desulfovibrio piger ATCC 29098]
          Length = 438

 Score =  457 bits (1177), Expect = e-126,   Method: Composition-based stats.
 Identities = 179/427 (41%), Positives = 272/427 (63%), Gaps = 8/427 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            LEL +  D ++ +K +DRD+++  + D+++ + +  +    D+ V  N  TGDI +++ 
Sbjct: 2   NLELKKAIDQISKDKGLDRDMLIKTLEDAVRTSVQRRFSEDMDVEVRYNDNTGDIEVYQF 61

Query: 66  LEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVE  EVEN    I +  AR  DPS+ I   V   +   D GR+A QSAKQVIIQ++R
Sbjct: 62  KIVVEDGEVENEDTHIGITEARTHDPSVQIDDEVGFRVKVEDLGRIAAQSAKQVIIQRMR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           +AE++  Y E+KD++GEI+SG V+R + G  +V+LG ++ ++ R+E I RE+ +  DRV+
Sbjct: 122 DAEQEIIYDEYKDRMGEIVSGIVQRRDKGGWVVNLGRTEAILPREEQIPREHYKRNDRVQ 181

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           + I DVR+E RGPQV++SR H  +M  LF  EVPE+ +G+VQ+  V+RDPGSRAK+AV S
Sbjct: 182 AIIIDVRKEGRGPQVVISRAHRDYMAALFRREVPEVDDGVVQIMGVARDPGSRAKVAVLS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            +  +DPVGACVG+RGSR+Q +V ELR E+IDIVVWSPD AT+  NAL PA+V+++V+DE
Sbjct: 242 RERDVDPVGACVGVRGSRIQNIVQELRGERIDIVVWSPDIATYARNALAPAMVSRIVVDE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           +   +EVIVP +QL+ AIGR+GQNV+LA++L GW +DI TE      R  + N       
Sbjct: 302 EENLLEVIVPDDQLTNAIGRKGQNVKLAARLLGWKVDIFTET-----RYNEANAIGHGLE 356

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
           Q  +V E+  + L+  G+  ++ L      E++      +    +++  A  +L  +   
Sbjct: 357 QVASVAEVSMNQLLEAGYTSLDLLRQATDEELSDKLAISDSRIADLRS-AINFLAPVAEP 415

Query: 424 LQKKIRE 430
             +   E
Sbjct: 416 EPRAAEE 422


>gi|188586067|ref|YP_001917612.1| NusA antitermination factor [Natranaerobius thermophilus
           JW/NM-WN-LF]
 gi|179350754|gb|ACB85024.1| NusA antitermination factor [Natranaerobius thermophilus
           JW/NM-WN-LF]
          Length = 380

 Score =  457 bits (1177), Expect = e-126,   Method: Composition-based stats.
 Identities = 143/340 (42%), Positives = 229/340 (67%), Gaps = 1/340 (0%)

Query: 18  YEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTC 77
            +K I++D++   +  ++  A +  + +  ++RV +  ETGD+ ++   +VVEEVEN   
Sbjct: 14  RDKGINKDILFEAIEAALISAYKRNFDSDKNVRVHMERETGDVRVYHQKQVVEEVENPKE 73

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QISL+ AR   P  ++  +V + + P +FGR+A Q+AKQV+IQ++REAER+  Y E+ DK
Sbjct: 74  QISLEEARKISPGYEVDDLVEEEVTPKNFGRIAAQTAKQVVIQRIREAERELIYEEYVDK 133

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
             +II+G V+R+E  NVI+DLG  + ++   E +  +    GDR+K+Y+ +V++  + PQ
Sbjct: 134 QDDIINGIVQRIEQKNVIIDLGKVEAILPPQEQMDTDEYNQGDRIKAYVVEVKKTTKEPQ 193

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           ++LSRTHP  + +L  +EVPEIY+G V++K ++R+ G R+K+AV+S    +DPVG+CVG 
Sbjct: 194 IILSRTHPGLIKRLLELEVPEIYDGTVEIKGIAREAGYRSKVAVYSRHEEVDPVGSCVGN 253

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQ 316
           +GSR+Q++V EL+ E ID++ WS D   F+ N+L P+ V +V VLDE   +  V+VP  Q
Sbjct: 254 KGSRIQSIVDELKGENIDVITWSSDPVVFISNSLSPSKVLEVKVLDEQDQKARVVVPDHQ 313

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN 356
           LSLAIG+ GQN RLA++LT W IDI++E + +   +    
Sbjct: 314 LSLAIGKEGQNARLAAKLTNWKIDILSESQLAEKGESSVE 353


>gi|254974853|ref|ZP_05271325.1| transcription elongation protein [Clostridium difficile QCD-66c26]
 gi|255092240|ref|ZP_05321718.1| transcription elongation protein [Clostridium difficile CIP 107932]
 gi|255313980|ref|ZP_05355563.1| transcription elongation protein [Clostridium difficile QCD-76w55]
 gi|255516660|ref|ZP_05384336.1| transcription elongation protein [Clostridium difficile QCD-97b34]
 gi|255649759|ref|ZP_05396661.1| transcription elongation protein [Clostridium difficile QCD-37x79]
 gi|260682915|ref|YP_003214200.1| transcription elongation protein [Clostridium difficile CD196]
 gi|260686513|ref|YP_003217646.1| transcription elongation protein [Clostridium difficile R20291]
 gi|306519864|ref|ZP_07406211.1| transcription elongation protein [Clostridium difficile QCD-32g58]
 gi|260209078|emb|CBA62223.1| transcription elongation protein [Clostridium difficile CD196]
 gi|260212529|emb|CBE03480.1| transcription elongation protein [Clostridium difficile R20291]
          Length = 384

 Score =  457 bits (1176), Expect = e-126,   Method: Composition-based stats.
 Identities = 151/371 (40%), Positives = 237/371 (63%), Gaps = 5/371 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E ++  D +  ++ ID+++++  +  ++  A +  +G+  ++RVE + + GDI +F  
Sbjct: 2   NHEFMEALDELVVDRGIDKEILIDTIEQALLTAYKKNFGSAQNVRVEFDRDKGDIKVFSQ 61

Query: 66  LEVVEEVENYTC--QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV+E + Y    +I L  AR+ +P+ ++G ++   + P +FGR+A Q+AKQV++Q++R
Sbjct: 62  RVVVDESDLYDTFLEIELADAREINPNYELGDIIEHEVTPKNFGRIAAQTAKQVVVQRIR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           EAER+  Y EF +K  EI++G V R     V V+LG  +G++ + E I  EN + G ++K
Sbjct: 122 EAEREIVYNEFIEKENEIVTGEVARANKNVVYVNLGRIEGIMTQSEQIPFENYKAGQKIK 181

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            YI +V++  +GPQ+++SR+HP  + +LF  EVPEIY GIVQ+K+V+R+ GSR K+AV S
Sbjct: 182 FYILEVKKTNKGPQIVVSRSHPGLVKRLFEEEVPEIYEGIVQIKSVAREAGSRTKMAVKS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D  IDP+GACVG +G RV+ +V EL DEKIDI+ +S D A F+  AL P+ V +V +DE
Sbjct: 242 IDEKIDPIGACVGPKGLRVKNIVDELGDEKIDIIKYSEDPAEFISAALSPSKVVRVDIDE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D     VIVP  QLSLAIG+ GQN RLA++LT W IDI +E +         N +    +
Sbjct: 302 DEKSALVIVPDYQLSLAIGKEGQNARLAAKLTNWKIDIKSESQAEQEMLNLENSKE---I 358

Query: 364 QAINVDEIIAH 374
           +A +V+     
Sbjct: 359 EAEDVEAEFID 369


>gi|160880908|ref|YP_001559876.1| NusA antitermination factor [Clostridium phytofermentans ISDg]
 gi|160429574|gb|ABX43137.1| NusA antitermination factor [Clostridium phytofermentans ISDg]
          Length = 354

 Score =  457 bits (1176), Expect = e-126,   Method: Composition-based stats.
 Identities = 148/351 (42%), Positives = 228/351 (64%), Gaps = 2/351 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL++  + +  EK I ++V+L  M +S+  A ++ +G   +I+V I+  TG +S+F  
Sbjct: 4   NKELIEALNQIEKEKDISKEVLLDAMENSLVAACKNHFGKADNIKVYIDRTTGAVSVFAE 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPS--IDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVE+V++   +ISL  A  + P    ++G +V   + P +FGR+A Q AKQV++QK+R
Sbjct: 64  RVVVEQVQDPVLEISLAEATMKFPKGKYELGDIVQVEVTPKNFGRIAAQKAKQVVVQKIR 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           E ER   + ++  +  +I++G V+R    NV ++LG  D V+  +E I  E+ RP DR+K
Sbjct: 124 EEERKVLFNQYYGREKDIVTGIVQRYVGNNVSINLGKVDAVLMENEQIKGEHFRPTDRIK 183

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            Y+ +V+   +GP++ +SRTHP+ + +LF  EV E+  GIV++K++SR+ G R K+AV S
Sbjct: 184 LYVLEVKDTTKGPKITVSRTHPELVKRLFEAEVTEVKEGIVEIKSISREAGDRTKMAVSS 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D ++DPVGACVG+ G+RV A+V EL  EKIDIV WS D A  + NAL PA V  V + E
Sbjct: 244 NDPNVDPVGACVGLNGARVNAIVNELGGEKIDIVNWSDDPAELIENALSPAKVVSVDVSE 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
                +VIVP  QLSLAIGR+GQN RLA++LTG+ IDI +E +   +  ++
Sbjct: 304 GEMSAKVIVPDYQLSLAIGRQGQNARLAARLTGYKIDIKSESQVYGSYYEE 354


>gi|260583738|ref|ZP_05851486.1| transcription termination factor NusA [Granulicatella elegans ATCC
           700633]
 gi|260158364|gb|EEW93432.1| transcription termination factor NusA [Granulicatella elegans ATCC
           700633]
          Length = 369

 Score =  457 bits (1176), Expect = e-126,   Method: Composition-based stats.
 Identities = 141/374 (37%), Positives = 221/374 (59%), Gaps = 7/374 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+++  + +  EK I ++VV++ +  ++  A +  YG   ++ VE + + G + ++ +
Sbjct: 2   SKEMIKALNILEEEKGISKEVVITALEAALVSAYKKNYGQAQNVEVEFDAKKGKMHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVE V + T ++S+  A +   + ++G  +   + P DFGR+A Q+AKQVI+Q++R+A
Sbjct: 62  KEVVEYVFDSTLEVSIDEAHELHKAYEVGDKIRFEVTPKDFGRIAAQTAKQVIMQRLRDA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF +   EI++G V R ++  V V+LG     + + + I  E   P  R+K  
Sbjct: 122 ERTNIYNEFIEYENEIMTGVVDRQDFRYVYVNLGKIVAGMTKQDQIPTEEYLPDQRIKVL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GP + +SRTHP  + +LF  EVPEIY G+V++ +++R+ G RAK+AV S D
Sbjct: 182 VSKVDNTTKGPLIFVSRTHPDLLKRLFEQEVPEIYEGVVEIVSIAREAGDRAKVAVRSRD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           +++DPVG CVG RG RVQ +V EL  E +DIV W+ D + ++ NAL PA V KV  D D 
Sbjct: 242 TNLDPVGTCVGPRGQRVQNIVNELNGENMDIVEWNEDPSVYIANALNPAQVVKVDFDSDR 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
               V+VP  QLSLAIG+RGQN RLA++LTG+ IDI +E               Q   + 
Sbjct: 302 NSCIVVVPDHQLSLAIGKRGQNARLAAKLTGFRIDIKSESAYQEYLD-------QLDSEL 354

Query: 366 INVDEIIAHLLVAE 379
             V+E  +  +  E
Sbjct: 355 PTVEEDSSEEVQTE 368


>gi|187931005|ref|YP_001890989.1| transcription elongation factor NusA [Francisella tularensis subsp.
           mediasiatica FSC147]
 gi|187711914|gb|ACD30211.1| transcription termination factor NusA [Francisella tularensis
           subsp. mediasiatica FSC147]
          Length = 489

 Score =  457 bits (1176), Expect = e-126,   Method: Composition-based stats.
 Identities = 162/517 (31%), Positives = 297/517 (57%), Gaps = 38/517 (7%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL + + VA EK I +D++   M +++    +       +I V+I+  TGD    R+
Sbjct: 2   SKELLLVLETVANEKDISKDLLFEAMEEALAIITKKELDEHMNIEVKIDRVTGDFKADRV 61

Query: 66  LEVV---EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             +V   E++ +Y+ ++   V +++  ++  G V+ +P+   ++GR+A   AKQ++++K+
Sbjct: 62  WHIVSEDEDLIDYSKELYEDVVQEKGYNVKAGDVMREPVEVKEYGRIAATMAKQILMKKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDR 181
           +  ER++    +++K+G+I+ G +KR  Y  ++VDLGN ++G++ + + I+RE  R GD+
Sbjct: 122 KNFEREKSARFYQNKIGDIVYGEIKRATYEILVVDLGNNAEGILPKKDLIARERYRVGDK 181

Query: 182 VKSYIYDVRREQRGPQ--VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           +++ +  V  ++ G    ++LSR+    +  LF +EVPE+   ++ +  V R+PG R+K+
Sbjct: 182 IRACVEAVESDESGKPNTIMLSRSSNTMLKALFKLEVPEVEEELINIVNVVREPGFRSKV 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP---AIV 296
            V S+D  IDP GACVG+RGSR+ ++++EL  EK+D+++W+ D   + IN+L P   A +
Sbjct: 242 TVKSNDQRIDPCGACVGVRGSRIHSIMSELNGEKVDVILWNEDMVQYAINSLSPVDAADI 301

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN 356
            +V +DE+   ++++V +E LS AIG+ G NVRLAS L GW I+++++ E    +     
Sbjct: 302 LEVNVDEETNSMDIVVKQESLSKAIGKNGVNVRLASSLIGWKINVLSDAEQEEKQM---- 357

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
              + F++A+++D   A +L+ EG   +E+LA +  +E+  IEGFDEE   E+Q RA+  
Sbjct: 358 SIVEKFVEALDIDHDFALVLIEEGIETLEDLAYLDRAELLEIEGFDEEIVDELQERAKAV 417

Query: 417 LEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN 476
           +          +     +++L  + G+   +   L +N I TMEDLA  SVD+L      
Sbjct: 418 ILSQA------LGGKKPAQDLLDMQGMSLDLAEQLAQNNIVTMEDLAELSVDEL------ 465

Query: 477 KGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                      L  +   ++Q  ++I+ AR    W E
Sbjct: 466 -----------LDIVDIDEEQATNLIMQARAP--WFE 489


>gi|313608989|gb|EFR84731.1| transcription termination factor NusA [Listeria monocytogenes FSL
           F2-208]
          Length = 330

 Score =  457 bits (1176), Expect = e-126,   Method: Composition-based stats.
 Identities = 140/327 (42%), Positives = 215/327 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     + ++K I R+V++  +  ++  A +  +    ++RV++N E G I +    E
Sbjct: 4   ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VE+V +   +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  AVEQVFDSRLEISMEEAHKLNPVYKPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y+ 
Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++++  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTANEE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E    
Sbjct: 244 VDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEADQA 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQL 334
             VIVP  QLSLAIG+RGQN RLA++L
Sbjct: 304 TTVIVPDYQLSLAIGKRGQNARLAAKL 330


>gi|220927907|ref|YP_002504816.1| NusA antitermination factor [Clostridium cellulolyticum H10]
 gi|219998235|gb|ACL74836.1| NusA antitermination factor [Clostridium cellulolyticum H10]
          Length = 382

 Score =  457 bits (1176), Expect = e-126,   Method: Composition-based stats.
 Identities = 157/362 (43%), Positives = 243/362 (67%), Gaps = 6/362 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL+   + +  EK I +++++  +  ++  A +  +G+  +++V I+  TGD+ +F L
Sbjct: 2   SAELILALEQLEKEKGIKKEIIIEAIEAALISAYKKNFGSAMNVKVNIDRVTGDVKVFAL 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            +V E+ +     IS+  A   +P++DIG  V   + P  FGR+A Q+AKQV++QK+REA
Sbjct: 62  RKVAEDPDVEAMDISIGEAAKLNPTLDIGDYVESEVTPRSFGRIAAQTAKQVVVQKLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF +K  +I++G ++R+E  NVIVDLG ++ V+   E    E  R  +R+KSY
Sbjct: 122 ERGIIYDEFYNKESDIVTGIIQRIEKRNVIVDLGKTEAVLGSTEQTPGEEYRFNERLKSY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V++  +GPQ++LSRTHP  + +LF +EVPEI++G V++K++SR+PGSR KLAV+S D
Sbjct: 182 IVEVKKTTKGPQIMLSRTHPGLVKRLFELEVPEIHDGTVEIKSISREPGSRTKLAVYSKD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVGACVG +G+RVQA+V ELR EKIDI+ WS D   ++ ++L PA V +V +DE+ 
Sbjct: 242 ENVDPVGACVGQKGTRVQAIVDELRGEKIDIIKWSNDPKDYISSSLSPAKVVRVDVDEEE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
              +V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E +   + +K      Q F  +
Sbjct: 302 KSAKVVVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQLRQSIEK------QLFDDS 355

Query: 366 IN 367
           +N
Sbjct: 356 LN 357


>gi|227534931|ref|ZP_03964980.1| transcription elongation factor NusA [Lactobacillus paracasei
           subsp. paracasei ATCC 25302]
 gi|227187687|gb|EEI67754.1| transcription elongation factor NusA [Lactobacillus paracasei
           subsp. paracasei ATCC 25302]
          Length = 417

 Score =  456 bits (1175), Expect = e-126,   Method: Composition-based stats.
 Identities = 140/352 (39%), Positives = 213/352 (60%), Gaps = 2/352 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E++Q  DA+  EK + ++VV+  +  ++  A +  Y    ++ VE +P+ GDI ++ +
Sbjct: 2   SKEMIQALDALEQEKGVKKEVVIEALEAALVSAYKRNYNQAQNVDVEFDPKQGDIHIYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV +EV +   ++SLK A   + + +IG  +   + P DFGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVTDEVFDSRLEVSLKEALAINKAYEIGDQIKFEVTPKDFGRIAAQTAKQVIMQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y E+     EI+ G V+R +   + V+LG  + V+ R + +  E     DR+K Y
Sbjct: 122 ERSIVYDEYSQYEDEILQGVVERRDNRFIYVNLGKIEAVLGRQDQMPNEKYEAHDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SRTHP  + +LF  EVPEI++G V++  ++R+ G R K+AV S++
Sbjct: 182 VTKVENTSKGPQVFVSRTHPGLVKRLFEQEVPEIFDGTVEIVNIAREAGDRTKIAVRSTN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++D VG  VG RG+RVQAVV EL  E +D+V W  D A ++ NAL PA V  V  +++ 
Sbjct: 242 DAVDAVGTTVGPRGARVQAVVNELSGENMDVVQWEEDPADYIANALNPAQVIAVQFNDEA 301

Query: 306 --GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF 355
                 VIVP  QLSLAIG++GQN RLA++LTG+ I I  E E       + 
Sbjct: 302 NDRSATVIVPDYQLSLAIGKKGQNARLAAKLTGYKIHIKPESEVEFVDDDEL 353


>gi|229824126|ref|ZP_04450195.1| hypothetical protein GCWU000282_01430 [Catonella morbi ATCC 51271]
 gi|229786480|gb|EEP22594.1| hypothetical protein GCWU000282_01430 [Catonella morbi ATCC 51271]
          Length = 397

 Score =  456 bits (1174), Expect = e-126,   Method: Composition-based stats.
 Identities = 142/345 (41%), Positives = 213/345 (61%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL++    +  EK I R V+   +  ++  A +  Y    ++ V+ +   G I ++ +
Sbjct: 2   SKELVKAMQVLEEEKGISRQVIKEALESALALAYKKNYDQAQNVEVQFDENKGTIKVYSV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVE   + T +ISL+ A   + + +IG  +   + P DFGR+A Q+AK VI+Q++REA
Sbjct: 62  KEVVETNYDSTLEISLEEALKINRAYEIGDKIKFEVTPKDFGRIATQTAKHVIMQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  + EF   V EI++GTV+R ++  + V++G  + ++   E I  E   P  R+K Y
Sbjct: 122 ERENIFEEFSQYVDEIMTGTVERQDHRFIYVNIGRVEAIMPLGEQIPSEQFEPDQRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V +  +GPQ+++SR H  F+ +LF  EVPEIY+G V+V A++R+ G RAK+AV S D
Sbjct: 182 VAKVDKTSKGPQIVVSRAHNDFLRRLFEQEVPEIYDGTVEVMAIAREAGDRAKVAVRSRD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            +IDPVG CVG RG RVQA+V EL  E +DI+ W+ D   F+ NAL PA V KV  +E+ 
Sbjct: 242 KNIDPVGTCVGPRGQRVQAIVNELNGENMDIIEWNEDPVVFIQNALSPAQVIKVDFNEEA 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
               V+VP  QLSLAIG+RGQN RLA++LT + IDI +E   +  
Sbjct: 302 HACIVVVPDNQLSLAIGKRGQNARLAARLTTYKIDIKSESSYADY 346


>gi|253701581|ref|YP_003022770.1| transcription elongation factor NusA [Geobacter sp. M21]
 gi|251776431|gb|ACT19012.1| NusA antitermination factor [Geobacter sp. M21]
          Length = 382

 Score =  456 bits (1174), Expect = e-126,   Method: Composition-based stats.
 Identities = 174/350 (49%), Positives = 237/350 (67%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L    D +  EK ID+ +V+  +  ++  AA   +    D+    NPE G++ LF  + V
Sbjct: 7   LKHTIDQIVKEKGIDKSIVVEALEQAVLTAANKKFRNTRDLEAHYNPEEGEVELFEFVTV 66

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VEEV++   +I L  AR+ DP ++IG  +   +    F R+A Q+AKQVIIQ+VREAER+
Sbjct: 67  VEEVQDSYREIELDEAREEDPEVEIGDSIGMKMDASGFSRIAAQTAKQVIIQRVREAERE 126

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
             + EF ++ GEI++G V+R E G++IVDLG ++ ++   E   RE  R GDRVK+ I +
Sbjct: 127 TIFNEFMERQGEIVNGVVRRFEKGDLIVDLGRAEALLPHKEQAPREVYRQGDRVKALITE 186

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           +R   +GPQ++LSRTHP  + KLF  EVPEI  GIV++K+V R+PG RAK+AV+S DS +
Sbjct: 187 IRMTTKGPQIMLSRTHPTMLAKLFEAEVPEIAEGIVEIKSVVREPGGRAKIAVYSHDSDV 246

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI 308
           DPVGACVGMRGSRVQ VV+ELR EKIDI+ WS D A F  NAL PA+VTKV +DE+   +
Sbjct: 247 DPVGACVGMRGSRVQNVVSELRGEKIDIIPWSEDIARFACNALAPAVVTKVYVDEEEYAM 306

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           EVIV  +QLSLAIG+RGQNVRLA++LTGW IDI +E   +    + F   
Sbjct: 307 EVIVADDQLSLAIGKRGQNVRLAAKLTGWKIDIKSETRMAEAELQQFASY 356


>gi|126698905|ref|YP_001087802.1| transcription elongation protein [Clostridium difficile 630]
 gi|255100326|ref|ZP_05329303.1| transcription elongation protein [Clostridium difficile QCD-63q42]
 gi|255306264|ref|ZP_05350436.1| transcription elongation protein [Clostridium difficile ATCC 43255]
 gi|115250342|emb|CAJ68164.1| Transcription elongation protein [Clostridium difficile]
          Length = 384

 Score =  456 bits (1173), Expect = e-126,   Method: Composition-based stats.
 Identities = 151/371 (40%), Positives = 237/371 (63%), Gaps = 5/371 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E ++  D +  ++ ID+++++  +  ++  A +  +G+  ++RVE + + GDI +F  
Sbjct: 2   NHEFMEALDELVVDRGIDKEILIDTIEQALLTAYKKNFGSAQNVRVEFDRDKGDIKVFSQ 61

Query: 66  LEVVEEVENYTC--QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV+E + Y    +I L  AR+ +P+ ++G ++   + P +FGR+A Q+AKQV++Q++R
Sbjct: 62  RVVVDESDLYDTFLEIELADAREINPNYELGDIIEHEVTPKNFGRIAAQTAKQVVVQRIR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           EAER+  Y EF +K  EI++G V R     V V+LG  +G++ + E I  EN + G ++K
Sbjct: 122 EAEREIVYNEFIEKENEIVTGEVARANKNVVYVNLGRIEGIMTQSEQIPFENYKAGQKIK 181

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            YI +V++  +GPQ+++SR+HP  + +LF  EVPEIY GIVQ+K+V+R+ GSR K+AV S
Sbjct: 182 FYILEVKKTNKGPQIVVSRSHPGLVKRLFEEEVPEIYEGIVQIKSVAREAGSRTKMAVRS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D  IDP+GACVG +G RV+ +V EL DEKIDI+ +S D A F+  AL P+ V +V +DE
Sbjct: 242 IDEKIDPIGACVGPKGLRVKNIVDELGDEKIDIIKYSEDPAEFISAALSPSKVVRVDIDE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D     VIVP  QLSLAIG+ GQN RLA++LT W IDI +E +         N +    +
Sbjct: 302 DEKSALVIVPDYQLSLAIGKEGQNARLAAKLTNWKIDIKSESQAEQEMLNLENSKE---I 358

Query: 364 QAINVDEIIAH 374
           +A +V+     
Sbjct: 359 EAEDVEAEFID 369


>gi|56707228|ref|YP_169124.1| transcription elongation factor NusA [Francisella tularensis subsp.
           tularensis SCHU S4]
 gi|110669698|ref|YP_666255.1| transcription elongation factor NusA [Francisella tularensis subsp.
           tularensis FSC198]
 gi|134301263|ref|YP_001121231.1| transcription elongation factor NusA [Francisella tularensis subsp.
           tularensis WY96-3418]
 gi|224456289|ref|ZP_03664762.1| transcription elongation factor NusA [Francisella tularensis subsp.
           tularensis MA00-2987]
 gi|254369913|ref|ZP_04985921.1| hypothetical protein [Francisella tularensis subsp. tularensis
           FSC033]
 gi|254874067|ref|ZP_05246777.1| transcription factor nusA [Francisella tularensis subsp. tularensis
           MA00-2987]
 gi|56603720|emb|CAG44682.1| N utilization substance protein A [Francisella tularensis subsp.
           tularensis SCHU S4]
 gi|110320031|emb|CAL08065.1| N utilization substance protein A [Francisella tularensis subsp.
           tularensis FSC198]
 gi|134049040|gb|ABO46111.1| transcription factor NusA [Francisella tularensis subsp. tularensis
           WY96-3418]
 gi|151568159|gb|EDN33813.1| hypothetical protein FTBG_01505 [Francisella tularensis subsp.
           tularensis FSC033]
 gi|254840066|gb|EET18502.1| transcription factor nusA [Francisella tularensis subsp. tularensis
           MA00-2987]
 gi|282158336|gb|ADA77727.1| transcription elongation factor NusA [Francisella tularensis subsp.
           tularensis NE061598]
          Length = 489

 Score =  455 bits (1172), Expect = e-126,   Method: Composition-based stats.
 Identities = 163/517 (31%), Positives = 297/517 (57%), Gaps = 38/517 (7%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL + + VA EK I +D++   M +++    +       +I V+I+  TGD    R+
Sbjct: 2   SKELLLVLETVANEKDISKDLLFEAMEEALAIITKKELDEHMNIEVKIDRVTGDFKADRV 61

Query: 66  LEVV---EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             +V   E++ +Y+ ++   V +++  ++  G V+ +P+   ++GR+A   AKQ++++K+
Sbjct: 62  WHIVSEDEDLIDYSKELYEDVVQEKGYNVKAGDVMREPVEVKEYGRIAATMAKQILMKKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDR 181
           +  ER++    +++K+G+I+ G +KR  Y  ++VDLGN ++G++ + + I+RE  R GD+
Sbjct: 122 KNFEREKSARFYQNKIGDIVYGEIKRATYEILVVDLGNNAEGILPKKDLIARERYRVGDK 181

Query: 182 VKSYIYDVRREQRGPQ--VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           +++ +  V  ++ G    ++LSR+    +  LF +EVPE+   ++ +  V R+PG R+K+
Sbjct: 182 IRACVEAVESDESGKPNTIMLSRSSNTMLKALFKLEVPEVEEELINIVNVVREPGFRSKV 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP---AIV 296
            V S+D  IDP GACVG+RGSR+ ++++EL  EK+D+++W+ D   + IN+L P   A +
Sbjct: 242 TVKSNDQRIDPCGACVGVRGSRIHSIMSELNGEKVDVILWNEDMVQYAINSLSPVDAADI 301

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN 356
            +V +DE+   I+++V +E LS AIG+ G NVRLAS L GW I+++++ E    +     
Sbjct: 302 LEVNVDEETNSIDIVVKQESLSKAIGKNGVNVRLASSLIGWKINVLSDAEQEEKQM---- 357

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
              + F++A+++D   A +L+ EG   +E+LA +  +E+  IEGFDEE   E+Q RA+  
Sbjct: 358 SIVEKFVEALDIDHDFALVLIEEGIETLEDLAYLDRAELLEIEGFDEEIVDELQERAKAV 417

Query: 417 LEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN 476
           +          +     +++L  + G+   +   L +N I TMEDLA  SVD+L      
Sbjct: 418 ILSQA------LGGKKPAQDLLDMQGMSLDLAEQLAQNNIVTMEDLAELSVDEL------ 465

Query: 477 KGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                      L  +   ++Q  ++I+ AR    W E
Sbjct: 466 -----------LDIVDIDEEQATNLIMQARAP--WFE 489


>gi|197117688|ref|YP_002138115.1| transcription elongation factor NusA [Geobacter bemidjiensis Bem]
 gi|197087048|gb|ACH38319.1| transcription termination factor NusA [Geobacter bemidjiensis Bem]
          Length = 383

 Score =  455 bits (1172), Expect = e-126,   Method: Composition-based stats.
 Identities = 174/350 (49%), Positives = 237/350 (67%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L    D +  EK ID+ +V+  +  ++  AA   +    D+    NPE G++ LF  + V
Sbjct: 7   LKHTIDQIVKEKGIDKSIVVEALEQAVLTAANKKFRNTRDLEAHYNPEEGEVELFEFVTV 66

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VEEV++   +I L  AR+ DP ++IG  +   +    F R+A Q+AKQVIIQ+VREAER+
Sbjct: 67  VEEVQDSYREIELDEAREEDPEVEIGDSIGMKMDASGFSRIAAQTAKQVIIQRVREAERE 126

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
             + EF ++ GEI++G V+R E G++IVDLG ++ ++   E   RE  R GDRVK+ I +
Sbjct: 127 TIFNEFMERQGEIVNGVVRRFEKGDLIVDLGRAEALLPHKEQAPREVYRQGDRVKALITE 186

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           +R   +GPQ++LSRTHP  + KLF  EVPEI  GIV++K+V R+PG RAK+AV+S DS +
Sbjct: 187 IRMTTKGPQIMLSRTHPTMLAKLFEAEVPEIAEGIVEIKSVVREPGGRAKIAVYSHDSDV 246

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI 308
           DPVGACVGMRGSRVQ VV+ELR EKIDI+ WS D A F  NAL PA+VTKV +DE+   +
Sbjct: 247 DPVGACVGMRGSRVQNVVSELRGEKIDIIPWSEDIARFACNALAPAVVTKVYVDEEEYAM 306

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           EVIV  +QLSLAIG+RGQNVRLA++LTGW IDI +E   +    + F   
Sbjct: 307 EVIVADDQLSLAIGKRGQNVRLAAKLTGWKIDIKSETRMAEAELQQFASY 356


>gi|303326256|ref|ZP_07356699.1| transcription termination factor NusA [Desulfovibrio sp. 3_1_syn3]
 gi|302864172|gb|EFL87103.1| transcription termination factor NusA [Desulfovibrio sp. 3_1_syn3]
          Length = 464

 Score =  455 bits (1172), Expect = e-126,   Method: Composition-based stats.
 Identities = 178/429 (41%), Positives = 275/429 (64%), Gaps = 7/429 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            LEL +  D ++ +K +DRD+++  + D+++ +    +    D+ V  N +TGDI +++ 
Sbjct: 2   NLELKKAIDQISKDKGLDRDMLIDTLEDAVRTSVLRRFSEDMDVEVTYNDDTGDIEVYQF 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVE+  V N   QI+L  AR+ DPS+ +   +   +   D GR+A QSAKQVIIQ++R
Sbjct: 62  KIVVEDDDVANEDTQIALADAREHDPSVQLDDEMGFRVKVEDLGRIAAQSAKQVIIQRMR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           +AE++  Y E+KD+VGEI+SG ++R + G  +V+LG ++ ++ R+E I RE+ + GDRV+
Sbjct: 122 DAEQEIIYEEYKDRVGEIVSGIIQRRDKGGWVVNLGRTEAILPREEQIPREHYKRGDRVQ 181

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           + I +VR+E RGPQV++SR H  +M  LF  EVPE+ +G+VQ+  V+RDPGSRAK+AV S
Sbjct: 182 ALIIEVRKEGRGPQVVISRAHRDYMAALFRREVPEVDDGVVQIMGVARDPGSRAKVAVLS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            +  +DPVGACVG+RGSR+Q +V ELR E+IDIVVWSP+ AT+  NAL PA+V+++V+DE
Sbjct: 242 RERDVDPVGACVGVRGSRIQNIVQELRGERIDIVVWSPEIATYARNALAPALVSRIVVDE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           +   +EVIVP +QL+ AIGR+GQNV+LA++L GW +DI TE      R  + N       
Sbjct: 302 EENLLEVIVPDDQLTNAIGRKGQNVKLAARLLGWKVDIFTET-----RYNEANAIGHGLE 356

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
           Q  +V E+    L+  G++ ++ L      E+A           +++         ++ T
Sbjct: 357 QVASVAEVSIEALLEAGYSSLDALREASDEELADKLTISASRISDLRSAINFLAPVVEST 416

Query: 424 LQKKIRELG 432
            +    ELG
Sbjct: 417 PESSAVELG 425


>gi|255524231|ref|ZP_05391190.1| NusA antitermination factor [Clostridium carboxidivorans P7]
 gi|296185352|ref|ZP_06853762.1| transcription termination factor NusA [Clostridium carboxidivorans
           P7]
 gi|255512056|gb|EET88337.1| NusA antitermination factor [Clostridium carboxidivorans P7]
 gi|296050186|gb|EFG89610.1| transcription termination factor NusA [Clostridium carboxidivorans
           P7]
          Length = 368

 Score =  455 bits (1171), Expect = e-126,   Method: Composition-based stats.
 Identities = 145/367 (39%), Positives = 233/367 (63%), Gaps = 4/367 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDIS 61
             E ++    +  EK I  D++ + + D++  A +  Y    G   +++V +N E G+I 
Sbjct: 2   NQEFIEALKEIVKEKGISEDLLFTTIEDALVAAYKKNYINQGGNNQNVKVTMNRENGEIH 61

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++    V++EV +   +ISL+ A+  DP+ DI  VVS  + P  FGRVA Q+AKQV+IQ+
Sbjct: 62  VYSQKTVIDEVFDEINEISLEEAKSIDPNYDIDDVVSIEVTPKKFGRVAAQAAKQVVIQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++E ER   Y +F +K  +II+G V R +  NV+VDLG ++ V+  +E +  E     D+
Sbjct: 122 IKEEERRIVYNDFIEKEDDIITGAVIRKDKNNVLVDLGKTEAVLGPNEQMPGEKYNFNDK 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K YI +V+   +G Q+++SRTHP  + +LF +EVPEI++G V++K+++R+ GSR K+AV
Sbjct: 182 IKLYIVEVKNTTKGAQIVISRTHPGLVKRLFELEVPEIFDGTVEIKSIAREAGSRTKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+D ++DP+GACVG +G RVQ +V EL++EKIDI+ WS     ++ NAL PA V  V L
Sbjct: 242 NSNDENVDPMGACVGPKGIRVQNIVNELKNEKIDIIKWSKLPEEYIANALSPAKVIDVTL 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+    +++V   QLSLAIG+ GQNVRLA++LTGW IDI ++ +     + +   + + 
Sbjct: 302 DEENKFAQIVVDDNQLSLAIGKEGQNVRLAAKLTGWKIDIKSKSQVETVPEVETVSQAED 361

Query: 362 FMQAINV 368
                ++
Sbjct: 362 ISDEEDI 368


>gi|225390157|ref|ZP_03759881.1| hypothetical protein CLOSTASPAR_03907 [Clostridium asparagiforme
           DSM 15981]
 gi|225043751|gb|EEG53997.1| hypothetical protein CLOSTASPAR_03907 [Clostridium asparagiforme
           DSM 15981]
          Length = 393

 Score =  455 bits (1171), Expect = e-125,   Method: Composition-based stats.
 Identities = 156/389 (40%), Positives = 241/389 (61%), Gaps = 5/389 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL+  + +  EK+I ++ +L  + +S+  A ++ +G   ++RV INP+T D +++  
Sbjct: 8   NKELLEAMEVLEKEKNISKETLLEAIENSLLTACKNHFGKADNVRVNINPDTCDFAVYME 67

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVE  E+   QISL  A+  +P  ++G  V  PL    FGR+A Q+AK VI+QK+RE 
Sbjct: 68  KEVVETPEDDQLQISLVDAKMMNPKYEVGDTVQIPLDSKKFGRIATQNAKNVILQKIREE 127

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y E+  K  ++++G V+R+   NV ++LG  D ++   E +  E  RP +RVK Y
Sbjct: 128 ERSSLYKEYYMKEKDVMTGIVQRMLGKNVSINLGRVDAILNESEQVKGETFRPTERVKVY 187

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V+   +GP++ +SRTHP  + +LF  EV E+ +G V++KA++R+ GSR+K+AV S+D
Sbjct: 188 ILEVKDTPKGPRISVSRTHPDLVKRLFESEVAEVRDGTVEIKAIAREAGSRSKIAVMSND 247

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVGACVG+ GSRV ++V ELR EKIDI+ W  + A  + NAL PA V  VV DE+ 
Sbjct: 248 PNVDPVGACVGLNGSRVNSIVNELRGEKIDIINWDENPAYLIENALSPAKVICVVADEEE 307

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
              +VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E +      ++     Q  +Q 
Sbjct: 308 REAQVIVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSETQA-----REMGLFEQMGLQY 362

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISE 394
            +  E      + E + D +  A  + ++
Sbjct: 363 GDAPEDTYEEEIQEDYQDYDSEAGQEDAD 391


>gi|302392348|ref|YP_003828168.1| NusA antitermination factor [Acetohalobium arabaticum DSM 5501]
 gi|302204425|gb|ADL13103.1| NusA antitermination factor [Acetohalobium arabaticum DSM 5501]
          Length = 376

 Score =  455 bits (1171), Expect = e-125,   Method: Composition-based stats.
 Identities = 160/353 (45%), Positives = 245/353 (69%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            +EL+Q  + +  +K+I ++++L  +  +++ A +  +G+  ++ +EI+ E G+++++  
Sbjct: 2   NIELIQALEDIEKDKNIPKEMLLDALKAALESAYKKNFGSKQNVEIEIDEENGEVNVYSN 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV+N   ++SL+ AR+ DP+ + G VVS  + P +FGR+A Q+AKQV+IQ++REA
Sbjct: 62  REVVKEVDNPNLEMSLEEAREIDPNYEAGDVVSVEVTPANFGRIAAQTAKQVVIQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ERD  Y EF D   EII+G ++R    NVIVDLG ++ ++   E I  EN  P +R+K Y
Sbjct: 122 ERDIIYEEFADMEDEIITGIIQRNHKKNVIVDLGRTEAILIPPEQIPNENYEPSERIKIY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V++  +GP +L+SRTHP  + +LF +EVPEI++G+V++KAV+R+ G R+K+AV S++
Sbjct: 182 IVEVKQTTKGPNILVSRTHPGLLKRLFELEVPEIHDGVVKIKAVAREAGFRSKIAVDSTE 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           + +DP+G+CVG  G RVQAVV EL  EKIDIV WS D A F+ NAL PA VT V +DE+ 
Sbjct: 242 AEVDPIGSCVGPNGMRVQAVVDELNGEKIDIVNWSEDPAEFIANALSPAEVTGVEVDEEE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
               V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E E      +  ++ 
Sbjct: 302 QVAVVVVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESEVDEEILESMDDV 354


>gi|222055779|ref|YP_002538141.1| NusA antitermination factor [Geobacter sp. FRC-32]
 gi|221565068|gb|ACM21040.1| NusA antitermination factor [Geobacter sp. FRC-32]
          Length = 380

 Score =  455 bits (1171), Expect = e-125,   Method: Composition-based stats.
 Identities = 176/353 (49%), Positives = 238/353 (67%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
              L    D +  EK ID+DVVL  +  ++  AA   +    D+    NPE G++ LF  
Sbjct: 4   NFNLKHTIDQIVKEKGIDKDVVLEALEQAVLTAANKKFRNTRDLEAHYNPEIGEVELFEF 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           + VV+EV++   +I L  AR+ DP +++G  +   +    F R+A Q+AKQVIIQKVREA
Sbjct: 64  VTVVDEVQDSYKEIDLDEAREIDPEVEVGDSLGMKMDASGFSRIAAQTAKQVIIQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  + EF+++ GE+I+G V+R E G+++VDLG ++ ++   E   RE  R GDRVK+ 
Sbjct: 124 ERETIFNEFQERQGEVINGVVRRFEKGDLVVDLGRAEALLSHKEQAPREVYRQGDRVKAL 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I ++R   +GPQ+LLSRTHP  + KLF  EVPEI  GIV+VK V R+PGSRAK+AV+S D
Sbjct: 184 ITEIRMTTKGPQILLSRTHPMMLAKLFEAEVPEIAEGIVEVKNVVREPGSRAKIAVYSHD 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           S +DPVGACVGMRGSRVQ VV+ELR EKIDI+ WS D A F  NAL PA+V+KV +DED 
Sbjct: 244 SDVDPVGACVGMRGSRVQNVVSELRGEKIDIIPWSEDVARFACNALAPAVVSKVYVDEDN 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
             +E++V  +QLSLAIG+RGQNVRLA++LTGW IDI +E   +      F   
Sbjct: 304 RAMEIVVADDQLSLAIGKRGQNVRLAAKLTGWRIDIKSETRVAEAELLQFASY 356


>gi|199597100|ref|ZP_03210532.1| transcription elongation factor NusA [Lactobacillus rhamnosus
           HN001]
 gi|258508610|ref|YP_003171361.1| transcription elongation factor NusA [Lactobacillus rhamnosus GG]
 gi|199591904|gb|EDY99978.1| transcription elongation factor NusA [Lactobacillus rhamnosus
           HN001]
 gi|257148537|emb|CAR87510.1| Transcription elongation factor NusA [Lactobacillus rhamnosus GG]
 gi|259649917|dbj|BAI42079.1| transcription elongation factor NusA [Lactobacillus rhamnosus GG]
          Length = 402

 Score =  454 bits (1170), Expect = e-125,   Method: Composition-based stats.
 Identities = 140/353 (39%), Positives = 215/353 (60%), Gaps = 2/353 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E++Q  DA+  EK + ++VV+  +  ++  A +  Y    ++ VE +P+ GDI ++ +
Sbjct: 2   SKEMIQALDALEQEKGVKKEVVIEALEAALVSAYKRNYNQAQNVDVEFDPKQGDIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV +EV +   ++SLK A   + + +IG  +   + P DFGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVTDEVFDSRLEVSLKDALAINKAYEIGDQIKFEVTPKDFGRIAAQTAKQVIMQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y E+     EI+ G V+R +   + V+LG  + V+ R + +  E     DR+K Y
Sbjct: 122 ERSIVYDEYSQYEDEILQGVVERRDNRFIYVNLGKIEAVLGRQDQMPNEKYEAHDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SRTHP  + +LF  EVPEI++G V++  ++R+ G R K+AV +++
Sbjct: 182 VTKVENTSKGPQVFVSRTHPGLVKRLFEQEVPEIFDGTVEIVNIAREAGDRTKIAVRATN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD--E 303
            ++D VG  VG RG+RVQAVV EL  E +D+V W  D A ++ NAL PA V  V  +  +
Sbjct: 242 DAVDAVGTTVGPRGARVQAVVNELSGENMDVVQWEEDPADYIANALNPAQVIAVQFNDED 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN 356
           +     VIVP  QLSLAIG++GQN RLA++LTG+ IDI  E E       + +
Sbjct: 302 NDRSATVIVPDYQLSLAIGKKGQNARLAAKLTGYKIDIKPESEVEFVDDDELS 354


>gi|89257073|ref|YP_514435.1| transcription elongation factor NusA [Francisella tularensis subsp.
           holarctica LVS]
 gi|115315429|ref|YP_764152.1| transcription elongation factor NusA [Francisella tularensis subsp.
           holarctica OSU18]
 gi|156503283|ref|YP_001429348.1| transcription elongation factor NusA [Francisella tularensis subsp.
           holarctica FTNF002-00]
 gi|167009460|ref|ZP_02274391.1| transcription termination factor NusA [Francisella tularensis
           subsp. holarctica FSC200]
 gi|290954351|ref|ZP_06558972.1| transcription elongation factor NusA [Francisella tularensis subsp.
           holarctica URFT1]
 gi|295312215|ref|ZP_06803015.1| transcription elongation factor NusA [Francisella tularensis subsp.
           holarctica URFT1]
 gi|89144904|emb|CAJ80249.1| N utilization substance protein A [Francisella tularensis subsp.
           holarctica LVS]
 gi|115130328|gb|ABI83515.1| N utilization substance protein A [Francisella tularensis subsp.
           holarctica OSU18]
 gi|156253886|gb|ABU62392.1| transcription termination factor NusA [Francisella tularensis
           subsp. holarctica FTNF002-00]
          Length = 489

 Score =  454 bits (1170), Expect = e-125,   Method: Composition-based stats.
 Identities = 161/517 (31%), Positives = 296/517 (57%), Gaps = 38/517 (7%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL + + VA EK I +D++   M +++    +       +I V+I+  TGD    R+
Sbjct: 2   SKELLLVLETVANEKDISKDLLFEAMEEALAIITKKELDEHMNIEVKIDRVTGDFKADRV 61

Query: 66  LEVV---EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             +V   E++ +Y+ ++   V +++  ++  G V+ +P+   ++GR+A   AKQ++++K+
Sbjct: 62  WHIVSEDEDLIDYSKELYEDVVQEKGYNVKAGDVMREPVEIKEYGRIAATMAKQILMKKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDR 181
           +  ER++    +++K+G+I+ G +KR  Y  ++VDLGN ++G++ + + I+RE  R GD+
Sbjct: 122 KNFEREKSARFYQNKIGDIVYGEIKRATYEILVVDLGNNAEGILPKKDLIARERYRVGDK 181

Query: 182 VKSYIYDVRREQRGPQ--VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           +++ +  V  ++ G    ++LSR+    +  LF +EVPE+   ++ +  V R+ G R+K+
Sbjct: 182 IRACVEAVESDESGKPNTIMLSRSSNTMLKALFKLEVPEVEEELINIVNVVREHGFRSKV 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP---AIV 296
            V S+D  IDP GACVG+RGSR+ ++++EL  EK+D+++W+ D   + IN+L P   A +
Sbjct: 242 TVKSNDQRIDPCGACVGVRGSRIHSIMSELNGEKVDVILWNEDMVQYAINSLSPVDAADI 301

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN 356
            +V +DE+   ++++V +E LS AIG+ G NVRLAS L GW I+++++ E    +     
Sbjct: 302 LEVNVDEETNSMDIVVKQESLSKAIGKNGVNVRLASSLIGWKINVLSDAEQEEKQM---- 357

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
              + F++A+++D   A +L+ EG   +E+LA +  +E+  IEGFDEE   E+Q RA+  
Sbjct: 358 SIVEKFVEALDIDHNFALVLIEEGIETLEDLAYLDRAELLEIEGFDEEIVDELQERAKAV 417

Query: 417 LEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN 476
           +          +     +++L  + G+   +   L +N I TMEDLA  SVD+L      
Sbjct: 418 ILSQA------LGGKKPAQDLLDMQGMSLDLAEQLAQNNIVTMEDLAELSVDEL------ 465

Query: 477 KGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                      L  +   ++Q  ++I+ AR    W E
Sbjct: 466 -----------LDIVDIDEEQATNLIMQARAP--WFE 489


>gi|301300268|ref|ZP_07206477.1| transcription termination factor NusA [Lactobacillus salivarius
           ACS-116-V-Col5a]
 gi|300214374|gb|ADJ78790.1| N utilization substance protein A [Lactobacillus salivarius CECT
           5713]
 gi|300852109|gb|EFK79784.1| transcription termination factor NusA [Lactobacillus salivarius
           ACS-116-V-Col5a]
          Length = 375

 Score =  454 bits (1169), Expect = e-125,   Method: Composition-based stats.
 Identities = 145/353 (41%), Positives = 224/353 (63%), Gaps = 1/353 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL   +A+  EK + +++V+  +  ++  A +  YG   ++ VE +   G+I ++ +
Sbjct: 2   SKELLNALNALEVEKGVKKEIVIEALEAALVSAYKRNYGQAQNVEVEFDKIAGNIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV EV +   +ISLK A + + + +IG  + + + P DFGR+A Q+AKQVI+Q+VR+ 
Sbjct: 62  KEVVNEVYDSQLEISLKSALEINRAYEIGDTIREEVTPKDFGRIAAQTAKQVIMQRVRKE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  Y E+     EI++G V+R +   V V+LG  + V+ R + I  E  +  D++K Y
Sbjct: 122 EREVIYNEYVQYEQEIVTGEVERRDNKFVYVNLGRIEAVLSRQDQIPGEEYKSHDKIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           IY V    +GPQV +SR+HP  + +LF  E+PEI++G V++ ++SR+ G RAK+AV S++
Sbjct: 182 IYKVENTSKGPQVFVSRSHPDLLRRLFEQEIPEIFDGTVEIVSISREAGDRAKVAVRSNE 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DED 304
             +DPVG CVG RG RVQA+V EL+ E +DIV W  D A ++ NAL PA V  V   DE+
Sbjct: 242 DGVDPVGTCVGPRGERVQAIVNELKGENMDIVEWREDPAEYIANALNPAKVLDVRFDDEN 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
                V+VP +QLSLAIG+RGQN RLA++LTG+ IDI +E + +     + + 
Sbjct: 302 EHACTVVVPDDQLSLAIGKRGQNARLAARLTGYKIDIKSESDAADLNNVEADN 354


>gi|114566431|ref|YP_753585.1| transcription elongation factor NusA [Syntrophomonas wolfei subsp.
           wolfei str. Goettingen]
 gi|114337366|gb|ABI68214.1| NusA antitermination factor [Syntrophomonas wolfei subsp. wolfei
           str. Goettingen]
          Length = 378

 Score =  454 bits (1169), Expect = e-125,   Method: Composition-based stats.
 Identities = 145/372 (38%), Positives = 233/372 (62%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L+Q  + +  E+ I +  ++  +  ++  A +  +G   ++ VE N   G++ +F   +
Sbjct: 4   DLVQALNDIEKERGIPKRALIEAIKSALSTAYKKNFGIAQNVSVEFNEINGEVKVFSQKK 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           + +EV++   ++SL+ A++  P   +  +V     P DFGR+A Q+AKQV+IQK+REAER
Sbjct: 64  ISDEVKDPRLEMSLEEAQELYPDCKVEDLVYVEATPSDFGRIAAQTAKQVVIQKLREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF ++ GEII+GT++R+E   V + LG ++G++   + I  E    G R+K+YIY
Sbjct: 124 SLIYEEFLEREGEIITGTIQRLESKTVYISLGRTEGIMMASDQIFGERYEVGQRIKAYIY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP + +SR+HP F+ +LF MEVPEIY+G+V++K+++R+ G+R+K+AV+S D  
Sbjct: 184 EVKNTSKGPNIFVSRSHPYFLRRLFEMEVPEIYDGVVEIKSIAREAGARSKIAVYSLDDK 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG RG RVQ +V+EL  EKIDI+ +  D   ++ NAL P+ V  V ++E    
Sbjct: 244 IDSVGACVGPRGLRVQNIVSELGGEKIDIIKYDKDPERYISNALSPSRVVAVNINETDKI 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             VIVP  QLSLAIG+ GQN RLA++LTGW +DI +E + S    +   E     ++   
Sbjct: 304 ARVIVPDYQLSLAIGKEGQNARLAAKLTGWKVDIRSESQMSDYYNEIDAEMDDEVLEQDW 363

Query: 368 VDEIIAHLLVAE 379
            +E      + E
Sbjct: 364 AEENTGETKIDE 375


>gi|326204063|ref|ZP_08193924.1| NusA antitermination factor [Clostridium papyrosolvens DSM 2782]
 gi|325985830|gb|EGD46665.1| NusA antitermination factor [Clostridium papyrosolvens DSM 2782]
          Length = 382

 Score =  454 bits (1169), Expect = e-125,   Method: Composition-based stats.
 Identities = 154/368 (41%), Positives = 245/368 (66%), Gaps = 2/368 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL+   + +  EK I +++++  +  ++  A +  +G+  +++V I+  TGD+ ++ L
Sbjct: 2   SAELILALEQLEKEKGIKKEIIIEAIEAALISAYKKNFGSAMNVKVNIDRVTGDVKVYAL 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            +V E+ +     IS+  A   +P+++IG  V   + P  FGR+A Q+AKQV++QK+REA
Sbjct: 62  RKVAEDPDMEAMDISVGEAAILNPTLEIGDYVESEVTPRSFGRIAAQTAKQVVVQKLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF +K  +I++G ++R+E  NVIVDLG ++ V+   E    E  R  +R+KSY
Sbjct: 122 ERGIIYDEFYNKESDIVTGIIQRIEKRNVIVDLGKTEAVLGPTEQTPGEEYRFNERLKSY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V++  +GPQ+++SRTHP  + +LF +EVPEI++G V++K++SR+PGSR K+AV+S D
Sbjct: 182 IVEVKKTTKGPQIMISRTHPGLVKRLFELEVPEIHDGTVEIKSISREPGSRTKIAVYSKD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVGACVG +G+RVQA+V ELR EKIDI+ WS D   ++ ++L PA V +V +DED 
Sbjct: 242 ENVDPVGACVGQKGTRVQAIVDELRGEKIDIIKWSNDPRDYISSSLSPAKVVRVDVDEDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF--NERTQFFM 363
              +V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E +   + +K    +     F+
Sbjct: 302 KSAKVVVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSESQLRQSIEKQLFDDSIGSGFL 361

Query: 364 QAINVDEI 371
              + D+I
Sbjct: 362 DETDPDDI 369


>gi|46578925|ref|YP_009733.1| transcription elongation factor NusA [Desulfovibrio vulgaris str.
           Hildenborough]
 gi|120603474|ref|YP_967874.1| transcription elongation factor NusA [Desulfovibrio vulgaris DP4]
 gi|46448337|gb|AAS94992.1| N utilization substance protein A [Desulfovibrio vulgaris str.
           Hildenborough]
 gi|120563703|gb|ABM29447.1| NusA antitermination factor [Desulfovibrio vulgaris DP4]
 gi|311232783|gb|ADP85637.1| transcription termination factor NusA [Desulfovibrio vulgaris RCH1]
          Length = 428

 Score =  454 bits (1169), Expect = e-125,   Method: Composition-based stats.
 Identities = 179/424 (42%), Positives = 272/424 (64%), Gaps = 10/424 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            +EL +  D ++ +K ++RD++++ + ++++ +    YG   D+ V  N E+G+I +++ 
Sbjct: 2   SMELKKAIDQISKDKGLERDMLVATLEEAVRTSVVRKYGDDIDVEVSYNDESGEIEVYQF 61

Query: 66  LEVVEEVENYT----CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
             VV E+++        I L+ AR  DPS+ I   +   L   D GR+A QSAKQVIIQ+
Sbjct: 62  KIVVAELDDEDEDGNAHIVLEEARKHDPSVQIDDEMGFRLKVEDLGRIAAQSAKQVIIQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AE++  Y EFKD+ GEIISG ++R +    I++LG ++ ++ ++E I RE+ + GDR
Sbjct: 122 MRDAEQELIYDEFKDRRGEIISGIIQRRDKAGWIINLGRTEALLPKEEQIPREHYKRGDR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I +VR+E RGPQV++SR+H  +M  LF  EVPE+ +G VQ+  V+RDPGSRAK+AV
Sbjct: 182 VQAIIIEVRKEGRGPQVIVSRSHRDYMAALFRREVPEVDDGTVQIMGVARDPGSRAKVAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S +  +DPVGACVG+RGSR+Q VV ELR E+IDIVVWSP+ AT+  NAL PA+++++V+
Sbjct: 242 LSRERDVDPVGACVGIRGSRIQNVVQELRGERIDIVVWSPEIATYARNALSPAVISRIVV 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+   +EVIVP +QL+ AIGR+GQNV+LA++L GW IDI TE      R  + N   + 
Sbjct: 302 DEEENLLEVIVPDDQLTNAIGRKGQNVKLAAKLLGWKIDIYTET-----RYNEANAIGRG 356

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
             Q  +V EI     V  GF  +E L      E+AS  G D+    +++  A  +L    
Sbjct: 357 LEQIASVAEISIEQFVTAGFQSIERLREASDEELASGLGIDDNRIADLRA-AINFLSPAP 415

Query: 422 ITLQ 425
               
Sbjct: 416 SASD 419


>gi|95929628|ref|ZP_01312370.1| NusA antitermination factor [Desulfuromonas acetoxidans DSM 684]
 gi|95134325|gb|EAT15982.1| NusA antitermination factor [Desulfuromonas acetoxidans DSM 684]
          Length = 388

 Score =  454 bits (1168), Expect = e-125,   Method: Composition-based stats.
 Identities = 167/346 (48%), Positives = 241/346 (69%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L  + D V  +K +DRD+++  +  ++  AA   Y    ++    N E G++ LF  + V
Sbjct: 5   LNHVIDQVVKDKGVDRDILVEALESAVLSAANKKYRNTRELEAHYNTEQGEVELFEFVTV 64

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           V+EV++   +I L+ AR+ DP ++ G  +   +    F R+A Q+AKQVIIQKVREAER+
Sbjct: 65  VDEVQDSYKEIDLEEAREIDPDVECGDSLGMKMDSGSFSRIAAQTAKQVIIQKVREAERE 124

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
             Y EFKD+VGE+++G V+R E G++IVDLG ++ ++   E + REN R  DRV++YI +
Sbjct: 125 GVYNEFKDRVGELVNGIVRRYERGDLIVDLGRAEALLPHREQVPRENYRQADRVRAYIAE 184

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V+   +GPQ++LSRTHP  +++LF  EVPEI  GIV++ + SR+PGSRAK+AV S D  +
Sbjct: 185 VKMSPKGPQIILSRTHPSLVIELFKTEVPEISEGIVEIVSCSREPGSRAKIAVVSHDPDV 244

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI 308
           DPVGACVGMRGSRVQ VV+ELR EKIDI+ W+PD A F  +AL PA V++V +D +   +
Sbjct: 245 DPVGACVGMRGSRVQNVVSELRGEKIDIIPWTPDMARFACSALAPADVSRVYVDNEEQAM 304

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
           E+IVP +QLSLAIG++GQNVRLA++L GW IDI +E   +   Q++
Sbjct: 305 EIIVPDDQLSLAIGKKGQNVRLAARLIGWKIDIKSETRAAEIEQEE 350


>gi|90961545|ref|YP_535461.1| transcription elongation factor NusA [Lactobacillus salivarius
           UCC118]
 gi|227890633|ref|ZP_04008438.1| transcription elongation factor NusA [Lactobacillus salivarius ATCC
           11741]
 gi|90820739|gb|ABD99378.1| N utilization substance protein A [Lactobacillus salivarius UCC118]
 gi|227867571|gb|EEJ74992.1| transcription elongation factor NusA [Lactobacillus salivarius ATCC
           11741]
          Length = 375

 Score =  453 bits (1167), Expect = e-125,   Method: Composition-based stats.
 Identities = 145/353 (41%), Positives = 224/353 (63%), Gaps = 1/353 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL   +A+  EK + +++V+  +  ++  A +  YG   ++ VE +   G+I ++ +
Sbjct: 2   SKELLNALNALEVEKGVKKEIVIEALEAALVSAYKRNYGQAQNVEVEFDKIAGNIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV EV +   +ISLK A + + + +IG  + + + P DFGR+A Q+AKQVI+Q+VR+ 
Sbjct: 62  KEVVNEVYDSQLEISLKSALEINRAYEIGDTIREEVTPKDFGRIAAQTAKQVIMQRVRKE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  Y E+     EI++G V+R +   V V+LG  + V+ R + I  E  +  D++K Y
Sbjct: 122 EREVIYNEYVQYEQEIVTGEVERRDNKFVYVNLGRIEAVLSRQDQIPGEEYKSHDKIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           IY V    +GPQV +SR+HP  + +LF  E+PEI++G V++ ++SR+ G RAK+AV S++
Sbjct: 182 IYKVENTSKGPQVFVSRSHPDLLRRLFEQEIPEIFDGTVEIVSISREAGDRAKVAVRSNE 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DED 304
             +DPVG CVG RG RVQA+V EL+ E +DIV W  D A ++ NAL PA V  V   DE+
Sbjct: 242 DGVDPVGTCVGPRGERVQAIVNELKGENMDIVEWREDPAEYIANALNPAKVLDVRFDDEN 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
                V+VP +QLSLAIG+RGQN RLA++LTG+ IDI +E + +     + + 
Sbjct: 302 EHACTVVVPDDQLSLAIGKRGQNARLAARLTGYKIDIKSESDAADLNNVEADN 354


>gi|239626256|ref|ZP_04669287.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47_FAA]
 gi|239520486|gb|EEQ60352.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47FAA]
          Length = 401

 Score =  453 bits (1167), Expect = e-125,   Method: Composition-based stats.
 Identities = 153/389 (39%), Positives = 233/389 (59%), Gaps = 6/389 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL+  + +  EK+I +D ++  + +S+  A ++ +G   +++V +NP T D +++  
Sbjct: 8   NKELLEAMEVLEKEKNIAKDTLIEAIENSLLTACKNHFGKADNVKVTVNPNTCDFAVYAE 67

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE+VE+   +ISL  A+   P  D+G  V  PL    FGR+A Q+AK VI+QK+RE 
Sbjct: 68  KTVVEQVEDDIMEISLADAKMLSPKYDLGDTVQIPLDSKKFGRIATQNAKNVILQKIREE 127

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y E+  K  ++++G V+R    NV ++LG  D ++   E +  E  RP +R+K Y
Sbjct: 128 ERKVLYNEYYTKEKDVMTGIVQRYLGRNVSINLGRVDAILNESEQVKGETFRPTERIKVY 187

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V+   +GP+V +SRTHP  + +LF  EV E+ +G V++KA++R+ GSR K+AV S+D
Sbjct: 188 VLEVKDTPKGPRVSVSRTHPDLVKRLFESEVAEVRDGTVEIKAIAREAGSRTKIAVKSND 247

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           S++DPVGACVG+ G+RV A+V+ELR EKIDI+ W  + A  + NAL PA V  VV DE+ 
Sbjct: 248 SNVDPVGACVGLNGARVNAIVSELRGEKIDIINWDDNPAYLIENALSPAKVICVVADEEE 307

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
              +VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E +       +          A
Sbjct: 308 REAQVIVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSETQAREMGLFEQMGLQYGDAPA 367

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISE 394
            + +E             +EE       E
Sbjct: 368 PSFEEDSFEE------DSLEETENYPEYE 390


>gi|302387320|ref|YP_003823142.1| transcription termination factor NusA [Clostridium saccharolyticum
           WM1]
 gi|302197948|gb|ADL05519.1| transcription termination factor NusA [Clostridium saccharolyticum
           WM1]
          Length = 400

 Score =  453 bits (1167), Expect = e-125,   Method: Composition-based stats.
 Identities = 144/344 (41%), Positives = 221/344 (64%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL+  + +  E +I +D +L  + +S+  A ++ +G   +I+V IN ET D ++F  
Sbjct: 2   NKELLEALNILEKENNISKDTLLEAIENSLLTACKNHFGKADNIKVSINRETCDFNVFAE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVE VE+   QISL  A+  DP  D+G V+  P+    FGR+A Q+AK VI+QK+RE 
Sbjct: 62  KEVVETVEDPLLQISLAEAKMTDPKYDVGDVIHCPIDSKKFGRIATQNAKNVILQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   + ++  +  E+++G V+R    NV ++LG  D ++   E +  E  +  +R+K +
Sbjct: 122 GRKSLFNDWYCQEREVVTGIVQRYLGRNVSINLGKVDAILNETEMVKGEVFKATERIKVF 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V+   +GP++ +SRTHP  + +LF  EV E+ +G V++KA++R+ GSR K+AV S+D
Sbjct: 182 VLEVKDTPKGPRISVSRTHPDLVKRLFESEVAEVKDGTVEIKAIAREAGSRTKIAVKSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           +++DPVGACVG+ G+RV ++V ELR EKIDI+ W  + A  + NAL PA V  VV DE  
Sbjct: 242 ANVDPVGACVGLNGARVNSIVNELRGEKIDIINWDDNPAYLIENALSPAKVICVVADEVS 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
              +VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E +   
Sbjct: 302 KEAQVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSETQARE 345


>gi|160940464|ref|ZP_02087809.1| hypothetical protein CLOBOL_05354 [Clostridium bolteae ATCC
           BAA-613]
 gi|158437044|gb|EDP14811.1| hypothetical protein CLOBOL_05354 [Clostridium bolteae ATCC
           BAA-613]
          Length = 394

 Score =  453 bits (1167), Expect = e-125,   Method: Composition-based stats.
 Identities = 146/345 (42%), Positives = 224/345 (64%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL+  + +  EK+I +D ++  + +S+  A ++ +G   +++V +NP T D +++  
Sbjct: 8   NKELLEAMEVLEKEKNISKDTLIEAIENSLLTACKNHFGKADNVKVTVNPNTCDFAVYAE 67

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE VE+   ++SL  A+  +P  +IG  V  PL    FGR+A Q+AK VI+QK+RE 
Sbjct: 68  KAVVENVEDDCLEMSLADAKMLNPKYEIGDTVQIPLDSKKFGRIATQNAKNVILQKIREE 127

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y E+  K  ++++G V+R    NV ++LG  D ++   E +  E  RP +RVK Y
Sbjct: 128 ERKALYNEYYMKEKDVMTGVVQRYLGRNVSINLGRVDAILNESEQVKGETFRPTERVKVY 187

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V+   +GP+V +SRTHP  + +LF  EV E+ +G V++KA++R+ GSR K+AV S+D
Sbjct: 188 VIEVKDTPKGPRVSVSRTHPDLVKRLFESEVAEVRDGTVEIKAIAREAGSRTKIAVKSND 247

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           +++DPVGACVG+ GSRV ++V+EL+ EKIDI+ W  + A  + NAL PA V  VV DE+ 
Sbjct: 248 ANVDPVGACVGLNGSRVNSIVSELKGEKIDIINWDDNPAYLIENALSPAKVICVVADEEE 307

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
              +VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E +    
Sbjct: 308 REAQVIVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSETQAREM 352


>gi|331269630|ref|YP_004396122.1| NusA antitermination factor [Clostridium botulinum BKT015925]
 gi|329126180|gb|AEB76125.1| NusA antitermination factor [Clostridium botulinum BKT015925]
          Length = 348

 Score =  453 bits (1166), Expect = e-125,   Method: Composition-based stats.
 Identities = 146/348 (41%), Positives = 224/348 (64%), Gaps = 5/348 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDIS 61
             E ++    +  EK I+  ++   + D++  A +  Y    G   +++V I+ E G+I 
Sbjct: 2   NAEFIEALREIVKEKGIEEQLLFDTVEDALVSAYKKNYAKVGGNSQNVKVTIDRENGEIH 61

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++    + EE      +ISL+ AR+ +P  ++G +V   + P  FGR+A Q+AKQV+IQ+
Sbjct: 62  VYAQKRI-EEDPLTINEISLEEAREFNPKYEMGDIVDLEVTPKSFGRIAAQTAKQVVIQR 120

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++EAER   Y EF  K  +II+GTV R + GNV VDL  ++ V+  +E I  E     D+
Sbjct: 121 IKEAERKVIYNEFIAKEFDIITGTVIRKDKGNVFVDLEKTEAVLGPNEQIPSEEYNFNDK 180

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K YI +V+   +GPQV++SRTHP  + +LF +EVPEIY G+V++K+++R+ GSR K+AV
Sbjct: 181 LKLYIVEVKNTTKGPQVVVSRTHPGLVKRLFELEVPEIYEGVVEIKSIAREAGSRTKIAV 240

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S+D ++D  GACVG +G RVQ +VTEL++EKIDI+ W  D   ++ NAL PA V  V +
Sbjct: 241 YSNDENVDATGACVGPKGMRVQNIVTELKNEKIDIIKWDKDPEKYIANALSPARVVSVEI 300

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           DE+    +++V   QLSLAIG+ GQNVRLA++LTGW IDI +E +   
Sbjct: 301 DEENKSAKIVVEDGQLSLAIGKEGQNVRLAAKLTGWKIDIKSESQVEA 348


>gi|253682577|ref|ZP_04863374.1| transcription termination factor NusA [Clostridium botulinum D str.
           1873]
 gi|253562289|gb|EES91741.1| transcription termination factor NusA [Clostridium botulinum D str.
           1873]
          Length = 348

 Score =  453 bits (1166), Expect = e-125,   Method: Composition-based stats.
 Identities = 145/348 (41%), Positives = 223/348 (64%), Gaps = 5/348 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDIS 61
             E ++    +  EK I+  ++   + D++  A +  Y    G   +++V I+ E G+I 
Sbjct: 2   NAEFIEALREIVKEKGIEEQLLFDTVEDALVSAYKKNYAKVGGNSQNVKVTIDRENGEIH 61

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++    + EE      +ISL+ AR+ +P  ++G +V   + P  FGR+A Q+AKQV+IQ+
Sbjct: 62  VYAQKRI-EEDPLTINEISLEEAREINPKYEMGDIVDLEVTPKSFGRIAAQTAKQVVIQR 120

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++EAER   Y EF  K  +II+GTV R + GNV VDL  ++ V+  +E I  E     D+
Sbjct: 121 IKEAERKVIYNEFIAKEFDIITGTVIRKDKGNVFVDLEKTEAVLGPNEQIPSEEYNFNDK 180

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K YI +V+   +GPQV++SRTHP  + +LF +EVPEIY G+V++K+++R+ GSR K+AV
Sbjct: 181 LKLYIVEVKNTTKGPQVVVSRTHPGLVKRLFELEVPEIYEGVVEIKSIAREAGSRTKIAV 240

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S+D ++D  GACVG +G RVQ +V EL++EKIDI+ W  D   ++ NAL PA V  V +
Sbjct: 241 YSNDENVDATGACVGPKGMRVQNIVNELKNEKIDIIKWDKDPEKYIANALSPARVVNVEI 300

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           DE+    +++V   QLSLAIG+ GQNVRLA++LTGW IDI +E +   
Sbjct: 301 DEENKSAKIVVEDGQLSLAIGKEGQNVRLAAKLTGWKIDIKSESQVEA 348


>gi|323485570|ref|ZP_08090915.1| hypothetical protein HMPREF9474_02666 [Clostridium symbiosum
           WAL-14163]
 gi|323692918|ref|ZP_08107141.1| transcription termination factor NusA [Clostridium symbiosum
           WAL-14673]
 gi|323401109|gb|EGA93462.1| hypothetical protein HMPREF9474_02666 [Clostridium symbiosum
           WAL-14163]
 gi|323503025|gb|EGB18864.1| transcription termination factor NusA [Clostridium symbiosum
           WAL-14673]
          Length = 412

 Score =  452 bits (1165), Expect = e-125,   Method: Composition-based stats.
 Identities = 155/430 (36%), Positives = 247/430 (57%), Gaps = 20/430 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL++  + +  E +I +D++L  + +S+  A ++ +G   +++V IN ETGD S++  
Sbjct: 2   NKELIEALNVLEKENNISKDILLEAIENSLLTACKNHFGKADNVKVTINRETGDFSVYAE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVE VE+   QISL  A+  +   D+G +V   +   +FGR+A Q+AK VI+QK+RE 
Sbjct: 62  KEVVESVEDPMLQISLAEAKMMNGRYDLGDIVHVQINSKEFGRIATQNAKNVILQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   + ++  K  ++++G V+R    N+ +DLG  D ++   E +  E  +P +R+K Y
Sbjct: 122 ERKALFNDWYCKEKDVVTGIVQRYVNRNICIDLGKIDAILNESEQVKGEVFKPTERIKLY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V+   +GP++ +SRTHP  + +LF  EV E+ +G V++KA++R+ GSR K+AV+S++
Sbjct: 182 VLEVKDTNKGPRITVSRTHPDLVKRLFESEVAEVKDGTVEIKAIAREAGSRTKIAVYSNN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG+ G+RV A+V+ELR EKIDI+ W  + A  + NAL PA V  V  DED 
Sbjct: 242 PDVDPVGACVGLNGARVNAIVSELRGEKIDIINWDENPAYLIENALSPAKVIFVAADEDA 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
              +VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E +   +            +  
Sbjct: 302 REAQVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSETQARES----------GLLDD 351

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           + +          +GF   E  A       +   G DE  A E    A   ++      +
Sbjct: 352 LELG-------YEQGF---EGYAEEPFDSFSEEAGADENHAEEDGTAAFGDVDFAGNEAE 401

Query: 426 KKIRELGVSE 435
           + + E    E
Sbjct: 402 EGLGEENYQE 411


>gi|258539789|ref|YP_003174288.1| transcription elongation factor NusA [Lactobacillus rhamnosus Lc
           705]
 gi|257151465|emb|CAR90437.1| Transcription elongation factor NusA [Lactobacillus rhamnosus Lc
           705]
          Length = 404

 Score =  452 bits (1165), Expect = e-125,   Method: Composition-based stats.
 Identities = 140/353 (39%), Positives = 215/353 (60%), Gaps = 2/353 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E++Q  DA+  EK + ++VV+  +  ++  A +  Y    ++ VE +P+ GDI ++ +
Sbjct: 2   SKEMIQALDALEQEKGVKKEVVIEALEAALVSAYKRNYNQAQNVDVEFDPKQGDIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV +EV +   ++SLK A   + + +IG  +   + P DFGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVTDEVFDSRLEVSLKDALAINKAYEIGDQIKFEVTPKDFGRIAAQTAKQVIMQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y E+     EI+ G V+R +   + V+LG  + V+ R + +  E     DR+K Y
Sbjct: 122 ERSIVYDEYSQYEDEILQGVVERRDNRFIYVNLGKIEAVLGRQDQMPNEKYEAHDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SRTHP  + +LF  EVPEI++G V++  ++R+ G R K+AV +++
Sbjct: 182 VTKVENTSKGPQVFVSRTHPGLVKRLFEQEVPEIFDGTVEIVNIAREAGDRTKIAVRATN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD--E 303
            ++D VG  VG RG+RVQAVV EL  E +D+V W  D A ++ NAL PA V  V  +  +
Sbjct: 242 DAVDAVGTTVGPRGARVQAVVNELSGENMDVVQWEEDPADYIANALNPAQVIAVQFNDED 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN 356
           +     VIVP  QLSLAIG++GQN RLA++LTG+ IDI  E E       + +
Sbjct: 302 NDRSATVIVPDYQLSLAIGKKGQNARLAAKLTGYKIDIKPESEVEFVDDDELS 354


>gi|323464620|gb|ADX76773.1| transcription termination factor NusA [Staphylococcus
           pseudintermedius ED99]
          Length = 392

 Score =  452 bits (1165), Expect = e-125,   Method: Composition-based stats.
 Identities = 158/397 (39%), Positives = 239/397 (60%), Gaps = 10/397 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N ++G   +    E
Sbjct: 5   ELLLATEYLEKEKKIPREVLVDAIEAALITAYKKNYDSARNVRVELNLDSGTFRVISRKE 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV ++  +I L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDHREEIDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF DK  +I++G + RV++  V V+LG ++ V+   E    E   P +R+K Y+ 
Sbjct: 125 EILYEEFIDKEDDIMTGVIDRVDHRYVYVNLGRTEAVLSEAERSPNETYLPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEI+ G V+VK+V+R+ G R+K++V+S +  
Sbjct: 185 KVEQTTKGPQIFVSRSHPGLLKRLFEQEVPEIFEGTVEVKSVAREAGDRSKISVYSENPD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV WS D   FV NAL P+ V  V++DE+   
Sbjct: 245 IDAVGACVGAKGARVEAVVAELGGEKIDIVQWSEDPKVFVRNALSPSQVIDVIVDEENQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E +       +    T        
Sbjct: 305 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDAKALGIGEKETTTVETEPVAM 364

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEE 404
             E +          D+E      I + AS+E   +E
Sbjct: 365 TAEEL----------DLEATTDEHIEDNASLEDESKE 391


>gi|229552419|ref|ZP_04441144.1| transcription termination factor NusA [Lactobacillus rhamnosus
           LMS2-1]
 gi|229314156|gb|EEN80129.1| transcription termination factor NusA [Lactobacillus rhamnosus
           LMS2-1]
          Length = 404

 Score =  452 bits (1165), Expect = e-125,   Method: Composition-based stats.
 Identities = 139/353 (39%), Positives = 215/353 (60%), Gaps = 2/353 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E++Q  DA+  EK + ++VV+  +  ++  A +  Y    ++ V+ +P+ GDI ++ +
Sbjct: 2   SKEMIQALDALEQEKGVKKEVVIEALEAALVSAYKRNYNQAQNVDVKFDPKQGDIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV +EV +   ++SLK A   + + +IG  +   + P DFGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVTDEVFDSRLEVSLKDALAINKAYEIGDQIKFEVTPKDFGRIAAQTAKQVIMQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y E+     EI+ G V+R +   + V+LG  + V+ R + +  E     DR+K Y
Sbjct: 122 ERSIVYDEYSQYEDEILQGVVERRDNRFIYVNLGKIEAVLGRQDQMPNEKYEAHDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SRTHP  + +LF  EVPEI++G V++  ++R+ G R K+AV +++
Sbjct: 182 VTKVENTSKGPQVFVSRTHPGLVKRLFEQEVPEIFDGTVEIVNIAREAGDRTKIAVRATN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD--E 303
            ++D VG  VG RG+RVQAVV EL  E +D+V W  D A ++ NAL PA V  V  +  +
Sbjct: 242 DAVDAVGTTVGPRGARVQAVVNELSGENMDVVQWEEDPADYIANALNPAQVIAVQFNDED 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN 356
           +     VIVP  QLSLAIG++GQN RLA++LTG+ IDI  E E       + +
Sbjct: 302 NDRSATVIVPDYQLSLAIGKKGQNARLAAKLTGYKIDIKPESEVEFVDDDELS 354


>gi|39996686|ref|NP_952637.1| transcription elongation factor NusA [Geobacter sulfurreducens PCA]
 gi|39983567|gb|AAR34960.1| N utilization substance protein A [Geobacter sulfurreducens PCA]
 gi|298505697|gb|ADI84420.1| transcription elongation factor NusA [Geobacter sulfurreducens
           KN400]
          Length = 385

 Score =  452 bits (1165), Expect = e-125,   Method: Composition-based stats.
 Identities = 173/350 (49%), Positives = 244/350 (69%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L  I D +  EK IDR +V+  +  ++  AA   +    D+    NPE G++ LF  + V
Sbjct: 7   LKHIIDQIVKEKGIDRHIVVEALEQAVLTAANKKFRNTRDLEAHYNPEVGEVELFEFVTV 66

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           V+EV++   +I ++ AR+ DP +++G  +   L    F R+A Q+AKQVIIQKVREAER+
Sbjct: 67  VDEVQDSYKEIDMEEAREIDPDVEVGDSLGMKLDASGFTRIAAQTAKQVIIQKVREAERE 126

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
             + EFKD++GE+++G V+R E G++++DLG ++ V+   E   RE  R GDRVK+ I D
Sbjct: 127 TIFNEFKDRIGELVTGVVRRFEKGDLVIDLGRAEAVLSHKEQAPREVYRQGDRVKTLITD 186

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           +R   +GPQ++LSRTHP  + KLF  EVPEI  GIV++KAV R+PGSRAK+AV+S DS +
Sbjct: 187 IRMTPKGPQIVLSRTHPGVLAKLFEAEVPEIAEGIVEIKAVVREPGSRAKIAVYSHDSDV 246

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI 308
           DPVGACVGMRGSRVQ VV+ELR EKIDI+ WS D+A F  NAL+PA+V+KV +D++   +
Sbjct: 247 DPVGACVGMRGSRVQNVVSELRGEKIDIIPWSDDAARFACNALQPAVVSKVYIDDENRSM 306

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           E+IV  +QLSLAIG++GQNVRLA++LTGW IDI +E   +      ++  
Sbjct: 307 EIIVADDQLSLAIGKKGQNVRLAAKLTGWRIDIKSETTAAEAELLQYSSY 356


>gi|291519298|emb|CBK74519.1| transcription termination factor NusA [Butyrivibrio fibrisolvens
           16/4]
          Length = 393

 Score =  452 bits (1164), Expect = e-125,   Method: Composition-based stats.
 Identities = 145/348 (41%), Positives = 218/348 (62%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           ++AN  +  +    +A EK+I  DV++  + +S+  A ++ YG   + +VEI+  TG+  
Sbjct: 1   MAANTNDFWEALTDLAKEKNISMDVLIETIENSLLIACKNNYGKADNAKVEIDKNTGEYH 60

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++    VV+EV +   +ISL  A+D      +G +V   +   DFGR+A  +AK  I QK
Sbjct: 61  VYLSKTVVDEVMDPVEEISLSDAQDISGKHQVGDIVQIEVKSKDFGRIAATAAKNTITQK 120

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +RE ER   Y E+ +   ++++G V R    N+ V+LG  +G +   E +  E  +P DR
Sbjct: 121 IREEERKVLYEEYYELQHKVVTGVVTRFSGNNIHVNLGKLEGFLSETEQVKGEYYKPQDR 180

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K YI +V+   +GP++L+SRTHP+ + KLF  EV E+ +GIV++K++SR+ GSR K+AV
Sbjct: 181 IKVYIVEVKTSNKGPRILVSRTHPELVKKLFEEEVSEVRDGIVEIKSISREAGSRTKIAV 240

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S+D  +DPVGACVG  G+RV A+V ELR EKIDIV W  + A  + NAL PA V  V+ 
Sbjct: 241 WSNDEDVDPVGACVGQNGARVNAIVNELRGEKIDIVEWDENPAYLIENALSPAKVVAVIA 300

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           D D     V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E +   
Sbjct: 301 DADEKTARVVVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSETQAKE 348


>gi|227513181|ref|ZP_03943230.1| transcription elongation factor NusA [Lactobacillus buchneri ATCC
           11577]
 gi|227083562|gb|EEI18874.1| transcription elongation factor NusA [Lactobacillus buchneri ATCC
           11577]
          Length = 440

 Score =  452 bits (1163), Expect = e-125,   Method: Composition-based stats.
 Identities = 157/421 (37%), Positives = 236/421 (56%), Gaps = 17/421 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL    A+  EK I ++VV+  M  ++  A +  YG   ++ V  +   G++ ++ +
Sbjct: 2   SKELLGALSALEEEKGIKKEVVIEAMQAALVSAYKRNYGQAQNVEVSFDGTKGEMHVYSV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE V +   Q+SL  A   +   +IG  +   + P +FGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KTVVETVTDDQMQVSLDDALQINKGYEIGDDIKFEVTPKNFGRIAAQTAKQVIMQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  + E+     ++++GTV+R +   V ++L   + V+   + +  E  RP +R+K Y
Sbjct: 122 ERENIFDEYSKYEDDLVTGTVERQDTRFVYINLDKVEAVMGPRDQMPNEVYRPQERIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SRT P  + +LF  EVPEIY+G V++ +++R+ G RAK+AV S++
Sbjct: 182 VTRVENATKGPQVFVSRTDPGMLKRLFEQEVPEIYDGTVEIVSIAREAGDRAKVAVRSNN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DED 304
           S IDPVG  VG +G RVQ +V EL  E +DIV W  D A ++ NAL PA V  V+  D++
Sbjct: 242 SDIDPVGTAVGPKGQRVQTIVNELHGENMDIVEWDEDDARYIANALNPAEVIDVIFEDDN 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
                VIVP  QLSLAIG+RGQN RLA++LTG+ IDI +E E      +    R Q   Q
Sbjct: 302 DRACTVIVPDYQLSLAIGKRGQNARLAAKLTGFKIDIKSETEAKEFLAE----RKQKAQQ 357

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
           A N DE              EE    +  +  S E  D ++  E+Q  + E +E      
Sbjct: 358 AENEDE-----------GTTEESETAEPDQETSGEAVDTDS-QEVQTESDEDVEADAQDD 405

Query: 425 Q 425
           Q
Sbjct: 406 Q 406


>gi|283850804|ref|ZP_06368090.1| NusA antitermination factor [Desulfovibrio sp. FW1012B]
 gi|283573727|gb|EFC21701.1| NusA antitermination factor [Desulfovibrio sp. FW1012B]
          Length = 496

 Score =  452 bits (1163), Expect = e-125,   Method: Composition-based stats.
 Identities = 172/411 (41%), Positives = 264/411 (64%), Gaps = 7/411 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL +  D ++ ++ IDRD+++  + ++++ +    YG   D+ V  N E G+I +++ 
Sbjct: 1   MTELKKAIDQISKDRGIDRDLLVDTLEEAVRSSVIRKYGENLDVEVSYNDEQGEIEVYQF 60

Query: 66  LEVVEEVEN--YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVE+ +      +I L  AR  DP++ +   +   L   D GR+A QSAKQVIIQ++R
Sbjct: 61  KVVVEDDDVADPAAEICLADARAIDPNVALEDEMGFKLTVEDLGRIAAQSAKQVIIQRMR 120

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           +AE++  Y E+KD+ GEIISG ++R +    I++LG ++ ++ ++E I RE  + GDRV+
Sbjct: 121 DAEQEIIYEEYKDRKGEIISGIIQRRDRSGWIINLGRTEALLPKEEQIPRERYKRGDRVQ 180

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           +YI +V    RGPQ+++SRTH  +M  LF  EVPE+ +G V++  V+RDPGSRAK+AV S
Sbjct: 181 AYIIEVLPSGRGPQIIVSRTHADYMKALFAREVPEVSDGTVKIVGVARDPGSRAKVAVIS 240

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D  +DPVGACVG+RGSR+Q +V ELR E+IDIVVW+P+ AT+  NAL PA VT++ +DE
Sbjct: 241 KDRDVDPVGACVGIRGSRIQNIVQELRGERIDIVVWNPEIATYAANALSPARVTRISVDE 300

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   +EV+V  +QL+LAIGR+GQNV+LA++L GW IDI TE      R ++ N   +F  
Sbjct: 301 DDKALEVVVTDDQLNLAIGRKGQNVKLAAKLLGWKIDIFTES-----RFREVNASKKFLE 355

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
           Q  +V EI    +++ GF  +E+LA      I +I G       +++   +
Sbjct: 356 QLASVAEIPVDNIISAGFESMEQLADAPDEAIDAISGMTPSKRNDLRAALK 406


>gi|319892283|ref|YP_004149158.1| Transcription termination protein NusA [Staphylococcus
           pseudintermedius HKU10-03]
 gi|317161979|gb|ADV05522.1| Transcription termination protein NusA [Staphylococcus
           pseudintermedius HKU10-03]
          Length = 392

 Score =  452 bits (1163), Expect = e-125,   Method: Composition-based stats.
 Identities = 158/397 (39%), Positives = 239/397 (60%), Gaps = 10/397 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N ++G   +    E
Sbjct: 5   ELLLATEYLEKEKKIPREVLVDAIEAALITAYKKNYDSARNVRVELNLDSGTFRVISRKE 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV ++  +I L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDHREEIDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF DK  +I++G + RV++  V V+LG ++ V+   E    E   P +R+K Y+ 
Sbjct: 125 EILYEEFIDKEDDIMTGVIDRVDHRYVYVNLGRTEAVLSEAERSPNETYLPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEI+ G V+VK+V+R+ G R+K++V+S +  
Sbjct: 185 KVEQTTKGPQIFVSRSHPGLLKRLFEQEVPEIFEGTVEVKSVAREAGDRSKISVYSENPD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV WS D   FV NAL P+ V  V++DE+   
Sbjct: 245 IDAVGACVGAKGARVEAVVAELGGEKIDIVQWSEDPKVFVRNALSPSQVIDVIVDEENQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E +       +    T        
Sbjct: 305 TTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDAKALGIGEKEATTVETEPVAM 364

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEE 404
             E +          D+E      I + AS+E   +E
Sbjct: 365 TAEEL----------DLEATTDEHIEDNASLEDESKE 391


>gi|302670327|ref|YP_003830287.1| transcription termination factor NusA [Butyrivibrio proteoclasticus
           B316]
 gi|302394800|gb|ADL33705.1| transcription termination factor NusA [Butyrivibrio proteoclasticus
           B316]
          Length = 384

 Score =  452 bits (1163), Expect = e-125,   Method: Composition-based stats.
 Identities = 134/344 (38%), Positives = 215/344 (62%), Gaps = 3/344 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+   D +  EK+I +D +   + +S+  A ++ +G   +IRVE++    D   +   E
Sbjct: 4   ELMDALDLLEKEKNISKDSLFDAIENSLITACKNNFGKADNIRVEVDRNNCDFKCYADKE 63

Query: 68  VVE---EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VVE   +V +   +ISL  A+       +G +V+  L   +FGR+A Q+AK VI+QK+RE
Sbjct: 64  VVETADDVMDPQIEISLDDAKKISKKAKVGDIVAVSLNSKEFGRIATQNAKNVILQKIRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
            ER   Y E+ +K  +I++G V+R    N+ ++LG +D ++  +E +  E  RP  R++ 
Sbjct: 124 EERGAIYNEYFEKEHDIVTGVVQRFIGKNISINLGRADAILNENEQVKGEVYRPTQRLRV 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+ +V+   +GP++L+SRTHP  + +LF  EV EI +G V++K+++R+ GSR K+AV+S+
Sbjct: 184 YVLEVKNGSKGPRILVSRTHPDLVKRLFEQEVAEIQDGTVEIKSIAREAGSRTKIAVYST 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           + ++D VGACVG+ G+RV  +V EL  EKID++ W  +    + NAL PA +  V  D D
Sbjct: 244 NPNVDAVGACVGVNGARVNLIVDELGGEKIDVINWDENPGNLIQNALSPAKIVAVFADPD 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
               +V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E +  
Sbjct: 304 EKSAKVVVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSETQAK 347


>gi|295110274|emb|CBL24227.1| transcription termination factor NusA [Ruminococcus obeum A2-162]
          Length = 389

 Score =  451 bits (1162), Expect = e-124,   Method: Composition-based stats.
 Identities = 147/344 (42%), Positives = 225/344 (65%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL++  D +  EK+I +D +L  +  S+ +A ++ +G   ++ V INPET D S++  
Sbjct: 2   NKELMEALDILEKEKNISKDTLLGAIEQSLIQACKNHFGKADNVHVTINPETCDFSVYAE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV E VE+   +ISL  A+  + + ++G ++   +   +FGR+A Q+AK VI+QK+RE 
Sbjct: 62  REVKEFVEDPAMEISLVEAQKLNTNAELGDIIKVEIHSKEFGRIATQNAKNVILQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y ++     E+++G V+RV   NV V+LG +DGV+  +E +  E  +P +R+K Y
Sbjct: 122 ERKVLYDQYYGMEKEVVTGIVQRVMGKNVSVNLGKADGVLSENEQVKGEEFKPTERIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V+   +GP++LLSRTHP  + +LF  EV E+ +G V++K+++R+ GSR K+AV+S+D
Sbjct: 182 ILEVKDTPKGPRILLSRTHPGLVKRLFESEVAEVKDGTVEIKSIAREAGSRTKIAVWSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVGM G+RV ++V ELR EKIDI+ W  + A  + NAL PA V  V+ D D 
Sbjct: 242 PDVDPVGACVGMNGARVNSIVEELRGEKIDIINWDENPAILIENALSPAKVIAVMADPDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
               V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E +   
Sbjct: 302 KTALVVVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSETQARE 345


>gi|15895075|ref|NP_348424.1| transcription elongation factor NusA [Clostridium acetobutylicum
           ATCC 824]
 gi|15024772|gb|AAK79764.1|AE007689_2 Transcription terminator NusA [Clostridium acetobutylicum ATCC 824]
 gi|325509213|gb|ADZ20849.1| transcription elongation factor NusA [Clostridium acetobutylicum EA
           2018]
          Length = 353

 Score =  451 bits (1162), Expect = e-124,   Method: Composition-based stats.
 Identities = 149/352 (42%), Positives = 224/352 (63%), Gaps = 4/352 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDIS 61
             E +Q    +  EK I  +++ S + D++  A +  Y      + ++RV +N E G+I 
Sbjct: 2   NQEFIQALKEIVEEKGISEELLFSTIEDALVAAYKKNYAKLTENVHNVRVSMNRENGEIH 61

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++   +VV+E+E+  C+ISL  A+  DP   +  +V   + P  FGRVA Q+AKQV+IQ+
Sbjct: 62  VYSQKKVVQEIEDSICEISLDDAKSIDPKYQLDDIVDIEITPKSFGRVAAQAAKQVVIQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++EAER   Y EF +K  +II+GTV R + GN+++DLG  + ++   E I  E+     +
Sbjct: 122 IKEAERSLLYDEFSEKEFDIITGTVLRKDKGNILIDLGRIEAILGPSEQIPGEDYIYNSK 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K YI +V+   +G QV++SRTHP  + +LF +EVPEIYNGIV++K +SR+ GSR K+AV
Sbjct: 182 IKLYIVEVKNTTKGAQVVISRTHPGLVKRLFELEVPEIYNGIVEIKGISREAGSRTKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S D ++D +GACVG +G RVQ +V EL++EKIDI+ WS     F+ N+L PA V  V +
Sbjct: 242 YSHDENVDAMGACVGPKGMRVQNIVNELKNEKIDIIKWSKLPEEFISNSLSPAKVLDVYI 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
           DED      IV   QLSLAIG+ GQNVRLA++LT W IDI ++ +      +
Sbjct: 302 DEDTKSARAIVEDNQLSLAIGKEGQNVRLAAKLTEWKIDIKSKSQYDSEVHE 353


>gi|227892601|ref|ZP_04010406.1| transcription elongation factor NusA [Lactobacillus ultunensis DSM
           16047]
 gi|227865586|gb|EEJ73007.1| transcription elongation factor NusA [Lactobacillus ultunensis DSM
           16047]
          Length = 413

 Score =  451 bits (1161), Expect = e-124,   Method: Composition-based stats.
 Identities = 137/357 (38%), Positives = 216/357 (60%), Gaps = 2/357 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +   K I +DV++  +  ++  A +  Y    ++ V+ +   G+  +  +
Sbjct: 17  SKEMLEAFATLEKTKGIKQDVIIDAIKAALVAAYKKNYNQAQNVEVDFDERKGNFKVMAV 76

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   ++SLK A   + + ++G  +   + P +FGR+A Q+AKQVI+Q++REA
Sbjct: 77  KTVVDEVQDDRLEVSLKDALAINRAYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLREA 136

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+    E+     E+++GTV+R +   V V +GN + V+   + +S E   P D+++  
Sbjct: 137 ERNHIIDEYSQYEDELVTGTVERRDNRFVYVKIGNVEAVMPHRDQMSNEVYNPQDQIRVL 196

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+ +SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D
Sbjct: 197 VTHVGSDSKGAQITVSRTAPDMVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVKSND 256

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DE 303
            +IDPVG CVG +G+RVQ VV EL  E IDIV +  D + F+ NAL PA V  V    DE
Sbjct: 257 PNIDPVGTCVGQKGTRVQNVVNELGGENIDIVKYEDDPSDFIANALNPAEVIAVQFGEDE 316

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           D     VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E     +K  +  T+
Sbjct: 317 DEKSALVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESEVEFVDEKSTDNTTE 373


>gi|291546819|emb|CBL19927.1| transcription termination factor NusA [Ruminococcus sp. SR1/5]
          Length = 397

 Score =  451 bits (1161), Expect = e-124,   Method: Composition-based stats.
 Identities = 145/342 (42%), Positives = 220/342 (64%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L    D +  EK+I +D +L  +  S+ +A ++ +G   ++ V I+PET D S++    
Sbjct: 4   DLRDALDVLEKEKNISKDTLLEAIEQSLIQACKNHFGKADNVHVMIDPETCDFSVYADRT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE VE+   +ISL  A+  + + +IG V+   +   +FGR+A Q+AK VI+QK+RE ER
Sbjct: 64  VVEHVEDPALEISLVDAQKTNTNAEIGDVMKVEIQSKEFGRIATQNAKNVILQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y ++     E+++G V+RV   NV ++LG +D V+  +E +  E  +P +RVK YI 
Sbjct: 124 KVLYDQYYGIEKEVVTGIVQRVMGKNVSINLGKADAVLTENEQVKGETFQPTERVKVYIL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP++L+SRTHP  + +LF  EV E+ +G V++K+++R+ GSR K+AV+S+D  
Sbjct: 184 EVKDTPKGPRILVSRTHPGLVKRLFESEVAEVRDGTVEIKSIAREAGSRTKIAVWSNDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +D VGACVGM G+RV AVV EL  EKIDI+ W  + A  + NAL PA V  V+ D D   
Sbjct: 244 VDAVGACVGMNGARVGAVVNELHGEKIDIINWDENPAILIENALSPAKVIAVMADPDEKT 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
             V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E +   
Sbjct: 304 ALVVVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSETQARE 345


>gi|221632782|ref|YP_002522004.1| transcription termination factor NusA [Thermomicrobium roseum DSM
           5159]
 gi|221155810|gb|ACM04937.1| transcription termination factor NusA [Thermomicrobium roseum DSM
           5159]
          Length = 439

 Score =  451 bits (1161), Expect = e-124,   Method: Composition-based stats.
 Identities = 150/340 (44%), Positives = 224/340 (65%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
           + +L      VA E+ I R+ V+  +  +++   +   G+  ++ +EI+  TG I +F  
Sbjct: 2   KSDLYTAIAQVAAERGIPREAVMESVQQALRTVYKKATGSDEEVEIEIDVNTGKIRIFAP 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE+V +   +IS++ AR  DP   +G +V     P +FGR+A Q+AKQVI+Q++R+ 
Sbjct: 62  KRVVEKVNDPLSEISIEEARKIDPRAIVGDIVRIERQPSNFGRIAAQTAKQVILQRIRDF 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ERD  Y EF D+VGE+++GTV+RV+   VI+  G ++ ++   E I  E  RPG R+K Y
Sbjct: 122 ERDTIYNEFIDRVGEVLTGTVQRVDARAVILSFGKAEAILPAREQIPGERYRPGQRLKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + DV ++ +GPQ+L+SRTHP  + +L  +EVPE+ +G V+V A++R+PG R+K+AV +  
Sbjct: 182 LVDVTKDAKGPQLLVSRTHPNLIKRLLELEVPEVASGAVEVMAIAREPGQRSKVAVAARQ 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG+RG R+Q++VTEL  EKID++ WS D  TF+ NAL PA    V+L+ED 
Sbjct: 242 DKVDPVGACVGVRGVRIQSIVTELSGEKIDVIEWSSDIRTFIANALSPAKPITVILNEDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
               V+VP EQ+S AIG+ GQN RLA +LTGW IDI   E
Sbjct: 302 KVARVVVPPEQMSQAIGKDGQNARLAYKLTGWRIDIKDPE 341


>gi|227524396|ref|ZP_03954445.1| transcription elongation factor NusA [Lactobacillus hilgardii ATCC
           8290]
 gi|227088627|gb|EEI23939.1| transcription elongation factor NusA [Lactobacillus hilgardii ATCC
           8290]
          Length = 440

 Score =  451 bits (1161), Expect = e-124,   Method: Composition-based stats.
 Identities = 157/421 (37%), Positives = 236/421 (56%), Gaps = 17/421 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL    A+  EK I ++VV+  M  ++  A +  YG   ++ V  +   G++ ++ +
Sbjct: 2   SKELLGALSALEEEKGIKKEVVIEAMQAALVSAYKRNYGQAQNVEVSFDGTKGEMHVYSV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE V +   Q+SL  A   +   +IG  +   + P +FGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KTVVETVTDDQMQVSLDDALQINKGYEIGDDIKFEVTPKNFGRIAAQTAKQVIMQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  + E+     ++++GTV+R +   V ++L   + V+   + +  E  RP +R+K Y
Sbjct: 122 ERENIFDEYSKYEDDLVTGTVERQDTRFVYINLDKVEAVMGPRDQMPNEVYRPQERIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SRT P  + +LF  EVPEIY+G V++ +++R+ G RAK+AV S++
Sbjct: 182 VTRVENATKGPQVFVSRTDPGMLKRLFEQEVPEIYDGTVEIVSIAREAGDRAKVAVRSNN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DED 304
           S IDPVG  VG +G RVQ +V EL  E +DIV W  D A ++ NAL PA V  V+  D++
Sbjct: 242 SDIDPVGTAVGPKGQRVQTIVNELHGENMDIVEWDEDDARYIANALNPAEVIDVIFEDDN 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
                VIVP  QLSLAIG+RGQN RLA++LTG+ IDI +E E      +    R Q   Q
Sbjct: 302 DRACTVIVPDYQLSLAIGKRGQNARLAAKLTGFKIDIKSETEAKEFLAE----RKQKAQQ 357

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
           A N DE              EE    +  +  S E  D ++  E+Q  + E +E      
Sbjct: 358 AENEDE-----------GTTEESETAEPDQETSGEVVDTDS-QEVQTESDEDVEADAQDD 405

Query: 425 Q 425
           Q
Sbjct: 406 Q 406


>gi|227510252|ref|ZP_03940301.1| transcription elongation factor NusA [Lactobacillus brevis subsp.
           gravesensis ATCC 27305]
 gi|227189904|gb|EEI69971.1| transcription elongation factor NusA [Lactobacillus brevis subsp.
           gravesensis ATCC 27305]
          Length = 444

 Score =  451 bits (1160), Expect = e-124,   Method: Composition-based stats.
 Identities = 143/367 (38%), Positives = 217/367 (59%), Gaps = 1/367 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL    A+  EK I ++VV+  M  ++  A +  YG   ++ V  +   G++ ++ +
Sbjct: 2   SKELLGALSALEEEKGIKKEVVIEAMQAALVSAYKRNYGQAQNVEVSFDGTKGEMHVYSV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE V +   Q+SL  A   +   +IG  +   + P +FGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KTVVETVTDDQMQVSLDDALQINKGYEIGDDIKFEVTPKNFGRIAAQTAKQVIMQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  + E+     ++++GTV+R +   V ++L   + V+   + +  E  RP +R+K Y
Sbjct: 122 ERENIFDEYSKYEDDLVTGTVERQDTRFVYINLDKVEAVMGPRDQMPNEVYRPQERIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SRT P  + +LF  EVPEIY+G V++ +++R+ G RAK+AV S++
Sbjct: 182 VTRVENATKGPQVFVSRTDPGMLKRLFEQEVPEIYDGTVEIVSIAREAGDRAKVAVRSNN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           S IDPVG  VG +G RVQ +V EL  E +DIV W  D A ++ NAL PA V  V+ D+D 
Sbjct: 242 SDIDPVGTAVGPKGQRVQTIVNELHGENMDIVEWDEDDARYIANALNPAEVIDVIFDDDN 301

Query: 306 GRI-EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
            R   VIVP  QLSLAIG+RGQN RLA++LTG+ IDI +E E      +   +  Q   +
Sbjct: 302 DRACTVIVPDYQLSLAIGKRGQNARLAAKLTGFKIDIKSETEAKEFLAERKQKAQQVENE 361

Query: 365 AINVDEI 371
                + 
Sbjct: 362 DEGTTDE 368


>gi|227904178|ref|ZP_04021983.1| transcription elongation factor NusA [Lactobacillus acidophilus
           ATCC 4796]
 gi|227868197|gb|EEJ75618.1| transcription elongation factor NusA [Lactobacillus acidophilus
           ATCC 4796]
          Length = 400

 Score =  451 bits (1160), Expect = e-124,   Method: Composition-based stats.
 Identities = 140/395 (35%), Positives = 227/395 (57%), Gaps = 13/395 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +   K I++DV++  +  ++  A +  Y    ++ V+ +   G+  +  +
Sbjct: 12  SKEMLEAFATLEKNKGIEQDVIVDAIKAALVAAYKKNYNQAQNVEVDFDERKGNFKVMAV 71

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   ++SLK A   + + ++G  +   + P +FGR+A Q+AKQVI+Q++REA
Sbjct: 72  KTVVDEVQDDRLEVSLKDALAINRAYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLREA 131

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+    E+     E+++GTV+R +   V V +GN + V+   + +  E   P D+++  
Sbjct: 132 ERNHIIDEYSQYEDELVTGTVERRDNRFVYVKIGNVEAVMPHRDQMPNEVYNPQDQIRVL 191

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+ +SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D
Sbjct: 192 VTHVGSDSKGAQITVSRTAPDMVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVKSND 251

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DE 303
            +IDPVG CVG +G+RVQ VV EL  E IDIV +  D + ++ NAL PA V  V    DE
Sbjct: 252 PNIDPVGTCVGQKGARVQNVVNELGGENIDIVKYEEDPSDYIANALNPAEVIAVQFGEDE 311

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           +     VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E     +K  +  ++   
Sbjct: 312 EEKSALVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESEVEFVDEKSTDSVSK--- 368

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASI 398
           +  +  E +         +  E  A V   E A I
Sbjct: 369 EDTDSSEDVV--------STEESTADVTTEEKAKI 395


>gi|154506276|ref|ZP_02043014.1| hypothetical protein RUMGNA_03818 [Ruminococcus gnavus ATCC 29149]
 gi|153793415|gb|EDN75835.1| hypothetical protein RUMGNA_03818 [Ruminococcus gnavus ATCC 29149]
          Length = 397

 Score =  451 bits (1160), Expect = e-124,   Method: Composition-based stats.
 Identities = 150/358 (41%), Positives = 234/358 (65%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL++    +  EK+I RD ++  + +S+  A ++ +GT  +I+V +N ET D +++  
Sbjct: 2   NTELMEALTILEKEKNISRDTMMDAIENSLISACKNHFGTSDNIKVIMNRETCDYAVYAE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEV +   +I+L+ A + D ++ IG V   P+   +FGR+A  +AK +I+QK+RE 
Sbjct: 62  KEVVEEVFDPAIEITLEDAEEIDSALQIGDVCQVPVQSKEFGRIATMNAKNLILQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y ++ +K  +I++G V+R    N+ V+LG +D ++  +E +  E  +P DR+K Y
Sbjct: 122 ERKVVYDQYFEKEKDIVTGIVQRYVGKNISVNLGKADAMLTENEQVKGEVFKPTDRIKLY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V+   +GP++L+SRTHP+ + +LF  EV E+ +G V++K+++R+ GSR K+AV+S+D
Sbjct: 182 IVEVKNTPKGPKILVSRTHPELVKRLFEAEVAEVKDGTVEIKSIAREAGSRTKMAVWSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVGACVGM G+RV AVV ELR EKIDI+ WS + A  + NAL PA V  V+ D D 
Sbjct: 242 ENVDPVGACVGMNGARVNAVVEELRGEKIDIINWSDNPALLIENALSPAKVISVMADPDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
               VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E +   + +   +   Q  M
Sbjct: 302 KVASVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSETQAIESGELPEDYMDQMNM 359


>gi|295693137|ref|YP_003601747.1| transcription termination-antitermination factor nusa
           [Lactobacillus crispatus ST1]
 gi|295031243|emb|CBL50722.1| Transcription termination-antitermination factor NusA
           [Lactobacillus crispatus ST1]
          Length = 397

 Score =  450 bits (1159), Expect = e-124,   Method: Composition-based stats.
 Identities = 146/401 (36%), Positives = 231/401 (57%), Gaps = 7/401 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +   K I +DV++  +  ++  A +  Y    ++ V+ +   G+  +  +
Sbjct: 2   SKEMLEAFATLENTKGIKQDVIVDAIKAALVAAYKKNYNQAQNVEVDFDERKGNFKVMAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   ++SLK A   + + ++G  +   + P +FGR+A Q+AKQVI+Q++REA
Sbjct: 62  KTVVDEVQDDRLEVSLKDALTINRAYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+    E+     E+++GTV+R +   V V +GN + V+   + +  E   P D+++  
Sbjct: 122 ERNHIIDEYSQYEDELVTGTVERRDNRFVYVKIGNVEAVMPHRDQMPNEVYNPQDQIRVL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+ +SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D
Sbjct: 182 VTHVGSDSKGAQITVSRTAPDMVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVKSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DE 303
            +IDPVG CVG +G+RVQ VV EL  E IDIV +  D + F+ NAL PA V  V    DE
Sbjct: 242 PNIDPVGTCVGQKGARVQNVVNELGGENIDIVKYEEDPSDFIANALNPAEVIAVQFGDDE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           +     VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E      +  +E+T    
Sbjct: 302 EEKSALVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESE-----VEFVDEKTNDTA 356

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEE 404
            A +  E   ++   +  ADVE        E +S E   EE
Sbjct: 357 DAADSSETSENVESTDDAADVESSDDTTTVEDSSKEDKTEE 397


>gi|164688521|ref|ZP_02212549.1| hypothetical protein CLOBAR_02166 [Clostridium bartlettii DSM
           16795]
 gi|164602934|gb|EDQ96399.1| hypothetical protein CLOBAR_02166 [Clostridium bartlettii DSM
           16795]
          Length = 384

 Score =  450 bits (1159), Expect = e-124,   Method: Composition-based stats.
 Identities = 142/361 (39%), Positives = 231/361 (63%), Gaps = 2/361 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E ++  D +  ++ ID+++++  +  ++  A +  +G+  ++RV ++ E G++ ++  
Sbjct: 2   NHEFMEALDELEKDRGIDKEIIIDTIEQALLTAYKKNFGSAQNVRVSVDREGGEVRVYSQ 61

Query: 66  LEVVEEVENYTC--QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV+E + Y    +I L  A   DPS ++G ++ + + P +FGR+A Q+AKQV++Q++R
Sbjct: 62  RRVVDESDLYDTFLEIELADAIKIDPSYELGDIIENEVTPKEFGRIAAQTAKQVVVQRIR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           EAER+  Y EF +K  EI++G + R     V V++G  +  +  +E I  E  + G ++K
Sbjct: 122 EAEREIVYNEFIEKESEIVTGEIARATSKTVYVNVGKIEASMPENEQIPGEVYKAGQKIK 181

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            YI +V++  +GPQ+++SR+HP  + +LF M+V EI+ GIVQ+K+VSR+ GSR K+AV S
Sbjct: 182 VYILEVKKTNKGPQIVVSRSHPGLVKRLFEMQVVEIFEGIVQIKSVSREAGSRTKIAVQS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D  IDP+GACVG +GSRV+AVV EL  EKIDI+ +S D A F+  AL P+ V KV ++E
Sbjct: 242 IDEKIDPIGACVGPKGSRVKAVVDELGGEKIDIINYSEDPAEFISAALSPSKVEKVEINE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           +     V+VP  QLSLAIG+ GQN RLA++LT W IDI +  +     +   N +   F+
Sbjct: 302 EEKTALVVVPDYQLSLAIGKSGQNARLAAKLTNWKIDIKSVSQMQAEMEAIKNVQDVDFV 361

Query: 364 Q 364
           +
Sbjct: 362 E 362


>gi|295396943|ref|ZP_06807065.1| transcription termination factor NusA [Aerococcus viridans ATCC
           11563]
 gi|294974796|gb|EFG50501.1| transcription termination factor NusA [Aerococcus viridans ATCC
           11563]
          Length = 447

 Score =  450 bits (1159), Expect = e-124,   Method: Composition-based stats.
 Identities = 159/442 (35%), Positives = 252/442 (57%), Gaps = 17/442 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+  +A+  EK I ++V+L  +  ++  A +  Y    ++ V  + + G I ++ +
Sbjct: 2   SKEMLRAFEALEDEKGISKEVILEALEAALVSAYKRNYQQAQNVEVNFDVKKGSIEVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+ V +   ++SL+ A   + + +IG  +   + P DFGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVVDLVMDSQLEVSLEDAHHLNSAYEIGDKIKFEVTPKDFGRIAAQTAKQVIMQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y E+ D   +I++G V+R +   V V LG  + VI  +  I  E  +P +RV+ Y
Sbjct: 122 ERSIIYNEYIDYEDDILTGIVERQDRRYVYVSLGKIEAVIPPEGQIPNETFQPHERVQVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SR+HP  + +LF  EVPEI++G V++KA++R+ G R+K+AV S+D
Sbjct: 182 VERVENTTKGPQVYVSRSHPSLLKRLFEQEVPEIFDGTVEIKAIAREAGDRSKVAVVSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           ++ID VG CVG RGSRVQ +V EL+ E +DIV WS D ATF+ NAL PA V  V      
Sbjct: 242 ANIDAVGTCVGPRGSRVQRIVDELKGENMDIVQWSDDMATFISNALNPADVLSVHFVPGE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
               V+VP+  LSLAIG+RGQN RLA++LT   IDI +E +     Q +  E  + F + 
Sbjct: 302 TSCVVVVPENHLSLAIGKRGQNARLAAKLTNHKIDIKSEADFEAYIQTE--EYAERFAEK 359

Query: 366 INVDEIIAHLL------------VAEGFADVEE---LACVKISEIASIEGFDEETAVEIQ 410
           + VDE +  +L            V EG   ++E   LA   + E        E+   +++
Sbjct: 360 VLVDEDVDPILAGDIESAEEYEVVTEGSTSIDEEDLLAMDDLEEGNVGPEAIEDQIDDVE 419

Query: 411 GRAREYLEGIDITLQKKIRELG 432
           G   + ++   +  ++ + +  
Sbjct: 420 GEDNDIIDDEALIGEEDLDQQE 441


>gi|223936317|ref|ZP_03628229.1| NusA antitermination factor [bacterium Ellin514]
 gi|223894835|gb|EEF61284.1| NusA antitermination factor [bacterium Ellin514]
          Length = 425

 Score =  450 bits (1159), Expect = e-124,   Method: Composition-based stats.
 Identities = 152/398 (38%), Positives = 241/398 (60%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             + L + +    EK I R V++S + +S+  AA+   G   ++R  I+P++GDI  F  
Sbjct: 2   NADFLTVLEFWEREKGISRQVLISAVEESLLSAAKKAVGPARELRCIIDPKSGDIKAFAK 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           L V E+V +    ISL  A+   P   +G  V   + P  FGR+A Q AKQ ++Q +R A
Sbjct: 62  LIVSEKVVSKHDHISLPDAKKIKPDAQLGEEVEVEVTPAGFGRIASQYAKQSLMQHIRRA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E+   + EFKD+VG+IISG V+R +  +V VDLG  + ++   E +  E  + G+R++ Y
Sbjct: 122 EKQLIFTEFKDRVGDIISGVVRRFDRSDVSVDLGKYEALLPNRERVPTEEYQIGERIRCY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V     GP+++LSR  P+F++KLF +EV EI +G +++K ++R+PG R KLAV++ D
Sbjct: 182 VKAVENGPHGPEIILSRADPRFVIKLFQLEVSEINDGTIEIKGIAREPGFRTKLAVYTRD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG+RG RV+ +V EL +EK+DI+ W P+   F+ NAL PA +    +DE  
Sbjct: 242 EKVDPVGACVGLRGQRVKNIVRELNNEKVDIIRWEPNIKGFLTNALAPAQLKTFEVDEAN 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            R++++V ++QLSLAIG+RGQN RL+S+LTGW +DI  E    +  ++   E  +     
Sbjct: 302 KRVKIVVGEDQLSLAIGKRGQNARLSSKLTGWQVDIEPEVVHRMGFEEKVAEAVKTLAAI 361

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
             + +  A  LV +G   +E+L    IS+++ I    +
Sbjct: 362 PGITQEQADTLVHQGLTRLEDLLQADISDLSGIPQIGD 399


>gi|331090930|ref|ZP_08339772.1| transcription termination factor NusA [Lachnospiraceae bacterium
           2_1_46FAA]
 gi|330405152|gb|EGG84688.1| transcription termination factor NusA [Lachnospiraceae bacterium
           2_1_46FAA]
          Length = 368

 Score =  450 bits (1158), Expect = e-124,   Method: Composition-based stats.
 Identities = 146/344 (42%), Positives = 225/344 (65%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL+    +  EK I ++ +L  + +S+  A ++ +G   +I+V +N ET D S+F  
Sbjct: 2   NTELLEALTILEQEKDISKETLLDAIENSLINACKNHFGKADNIKVIMNRETCDYSVFAE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE VE+   +ISL  A+  D   ++G +V  P+   +FGR+A Q+AK +I+QK+RE 
Sbjct: 62  KTVVENVEDDVMEISLANAKMIDSKFELGDIVQIPVESKEFGRIATQNAKNLILQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y ++ +K  +I++G V+R    NV ++LG +D ++  +E +  E  +P +R+K Y
Sbjct: 122 ERKVVYDQYFEKEKDIVTGIVQRYVGKNVSINLGKADAMLTENEQVKGEVFKPTERIKLY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V+   +GP++L+SRTHP+ + +LF  EV E+ +G V++K+++R+ GSR+K+AV+S+D
Sbjct: 182 VVEVKNTTKGPKILVSRTHPELVKRLFESEVAEVKDGTVEIKSIAREAGSRSKIAVWSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVGM G+RV A+V ELR EKIDI+ WS + A  + NAL PA V  V+ D D 
Sbjct: 242 PDVDPVGACVGMNGARVNAIVNELRGEKIDIINWSENPAILIENALSPAKVISVMADPDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
               VIVP  QLSLAIG+ GQN RLA++LTG+ IDI  E +   
Sbjct: 302 KTASVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKNETQAIE 345


>gi|260589530|ref|ZP_05855443.1| transcription termination factor NusA [Blautia hansenii DSM 20583]
 gi|260540098|gb|EEX20667.1| transcription termination factor NusA [Blautia hansenii DSM 20583]
          Length = 384

 Score =  450 bits (1158), Expect = e-124,   Method: Composition-based stats.
 Identities = 144/344 (41%), Positives = 222/344 (64%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL+  + +  EKSI +D +L  +  S+ +A ++ +G   +I+V INPET D  +   
Sbjct: 2   NTELLEALNILEKEKSISKDTLLEAIEQSLIQACKNHFGKADNIKVNINPETCDFGVLAE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV +   +ISL  A+  +    +G +V+  +   +FGR+A Q+AK VI+QK+RE 
Sbjct: 62  KTVVEEVYDPVTEISLADAKMMNSQYGLGDIVNVEIKSKEFGRIATQNAKNVILQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   + ++  K  ++++G V+R    N  ++LG +D ++  +E +  E  +P +R+K Y
Sbjct: 122 ERKVIFDQYYGKEKDVVTGIVQRSLGRNYSINLGKADAILTENEQVKTEVFKPTERIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V+   +GP++++SRTHP+ + +LF  EV EI +G V+VK+++R+ GSR K+AV+S+D
Sbjct: 182 ILEVKDAPKGPKIMVSRTHPELVKRLFEAEVTEIKDGTVEVKSIAREAGSRTKIAVWSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG+ G+RV +VV ELR EKIDI+ WS + A  + NAL PA V  V  D + 
Sbjct: 242 PDVDPVGACVGINGARVNSVVEELRGEKIDIINWSDNPALLIENALSPAKVISVTADPEE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
               VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E +   
Sbjct: 302 KSATVIVPDFQLSLAIGKEGQNARLAARLTGFKIDIKSETQARE 345


>gi|225572728|ref|ZP_03781483.1| hypothetical protein RUMHYD_00917 [Blautia hydrogenotrophica DSM
           10507]
 gi|225039901|gb|EEG50147.1| hypothetical protein RUMHYD_00917 [Blautia hydrogenotrophica DSM
           10507]
          Length = 405

 Score =  449 bits (1157), Expect = e-124,   Method: Composition-based stats.
 Identities = 146/344 (42%), Positives = 226/344 (65%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL   + +  EK+I +D +L  +  S+ +A ++ YG   +++V I+P+T D S++  
Sbjct: 2   NTELLGALEILEKEKNISKDTLLDAIEQSLIQACKNHYGKADNVKVSIDPQTCDFSVYAE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE+VE+   +ISL+ A       ++G V+  P+   +FGR+A Q+AK VI+QK+RE 
Sbjct: 62  RTVVEQVEDPVMEISLENALKISARAEVGDVIKVPINSKEFGRIATQNAKNVILQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y ++  K  ++++G V+R    NV ++LG +D ++  +E +  E   P +R+K Y
Sbjct: 122 ERKVLYNQYYGKEKDVVTGIVQRNLGKNVSINLGKADALLNENEQVKTEVFHPTERIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V+   +GP++L+SRTHP+ + +LF  EV E+  GIV++K+++R+ GSR K+AV+S+D
Sbjct: 182 ILEVKDTPKGPRILVSRTHPELVKRLFESEVAEVREGIVEIKSIAREAGSRTKIAVWSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVGM G+RV A+V+ELR EKIDI+ WS + A  + NAL PA V  V+ D D 
Sbjct: 242 PDVDPVGACVGMNGARVNAIVSELRGEKIDIINWSENPAILIENALSPAKVIAVMADPDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
               V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E +   
Sbjct: 302 KTALVVVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSETQAKE 345


>gi|257413921|ref|ZP_04744677.2| transcription termination factor NusA [Roseburia intestinalis
           L1-82]
 gi|257201821|gb|EEV00106.1| transcription termination factor NusA [Roseburia intestinalis
           L1-82]
          Length = 425

 Score =  449 bits (1157), Expect = e-124,   Method: Composition-based stats.
 Identities = 148/349 (42%), Positives = 231/349 (66%), Gaps = 2/349 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           ++S N  ELL+  + +  EK+I +D +L  + +S+  A ++ +G+  +++V I+PET + 
Sbjct: 18  IMSNN--ELLEALNILEQEKNISKDTLLEAIENSLVTACKNHFGSSDNVKVSIDPETCEF 75

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            +F+   VVE VE+   QISL  A+  +   +IG VV+  +   +FGR+A Q+AK VI+Q
Sbjct: 76  HVFQEKTVVETVEDPVEQISLVNAKMINSKYEIGDVVNIEVQSKEFGRIATQNAKNVILQ 135

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           K+RE ER   Y ++     ++++G V+R    NV ++LG  D ++  +E +  E  +P +
Sbjct: 136 KIREEERKVLYDQYYSMEKDVVTGVVQRYVGRNVSINLGRVDAILTENEQVKGEVFQPTE 195

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K YI +V+   +GP+VL+SRTHP+ + +LF  EV E+  GIV++KA++R+ GSR K+A
Sbjct: 196 RIKVYILEVKATSKGPKVLVSRTHPELVKRLFESEVAEVREGIVEIKAIAREAGSRTKIA 255

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V+S+D  +DPVGACVGM G+RV A+V ELR EKIDI+ W+ + A  + NAL PA V  V+
Sbjct: 256 VWSNDPDVDPVGACVGMNGARVNAIVGELRGEKIDIITWNENPAMMIENALSPAKVISVI 315

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
            D +    +V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E +   
Sbjct: 316 ADAEEKSAKVVVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSETQARE 364


>gi|300854498|ref|YP_003779482.1| transcription elongation protein [Clostridium ljungdahlii DSM
           13528]
 gi|300434613|gb|ADK14380.1| transcription elongation protein [Clostridium ljungdahlii DSM
           13528]
          Length = 354

 Score =  449 bits (1157), Expect = e-124,   Method: Composition-based stats.
 Identities = 141/352 (40%), Positives = 228/352 (64%), Gaps = 4/352 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDIS 61
             E ++    +  EK I  D++ + + D++  A +  Y        +++V +N E G+I 
Sbjct: 2   NQEFIEALKEIVKEKGISEDLLFTTIEDALVAAYKKNYMGHGAGSQNVKVTMNRENGEIH 61

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++    VVEEV +   +IS++ A+  D S ++G + +  + P  FGRVA Q+AKQV+IQ+
Sbjct: 62  VYSQKNVVEEVCDKFGEISVEDAKSMDSSYEVGDIANIEVTPRKFGRVAAQAAKQVVIQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++E ER   Y +F +K  +II+GTV R +  NV++DLG ++ V+  +E I  E     D+
Sbjct: 122 IKEEERRIIYSDFAEKEDDIITGTVIRKDKNNVLIDLGKTEAVLGPNEQIPGEKYNFNDK 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K YI +V+   +G Q+++SRTHP  + +LF +EVPEI++G V +K+++R+ GSR K+AV
Sbjct: 182 LKLYIIEVKNTTKGAQIVISRTHPGLIKRLFELEVPEIFDGTVDIKSIAREAGSRTKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+D ++DP+GACVG +G RVQ +V EL++EKIDI+ WS     ++ N+L PA V  V L
Sbjct: 242 HSNDENVDPMGACVGPKGVRVQNIVNELKNEKIDIIKWSKLPEEYIANSLSPAKVLDVDL 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
           +ED+   +++V   QLSLAIG+ GQNVRLA++LTGW IDI ++ +     ++
Sbjct: 302 NEDIKFAQIVVDDNQLSLAIGKEGQNVRLAAKLTGWKIDIKSKSQVETQNEE 353


>gi|229918666|ref|YP_002887312.1| NusA antitermination factor [Exiguobacterium sp. AT1b]
 gi|229470095|gb|ACQ71867.1| NusA antitermination factor [Exiguobacterium sp. AT1b]
          Length = 387

 Score =  449 bits (1156), Expect = e-124,   Method: Composition-based stats.
 Identities = 159/391 (40%), Positives = 229/391 (58%), Gaps = 14/391 (3%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFRLLE 67
           LL   D +A EK ID+++++  +  ++  A R         ++VE +  TGDI ++ LLE
Sbjct: 5   LLTTIDQIAKEKGIDKNIIIDALEQALISAYRRNVANPNEHVKVEFDQVTGDIRVYALLE 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE +     Q+SL+ A + DP+ ++G    + + P DFGRVA  +AKQV+ QK+REAER
Sbjct: 65  VVERLTQPDQQLSLEEAHEIDPNYELGDFHKEEVTPSDFGRVAAMTAKQVVTQKMREAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
           +R Y  F DK  EI++G V+R +  N+ + L N  + V+  +E +  E+ +  DR+K Y+
Sbjct: 125 ERIYNHFADKEDEIMTGIVERFDPRNLYIGLENNIEAVLTPNEQMPNESYQIHDRIKVYV 184

Query: 187 YDVRREQRG--PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
             V    +G    + +SRTHP  + +LF +EVPEI NG V V +VSR+ G R+K+AV S 
Sbjct: 185 TKVDSTTKGSGAAIQVSRTHPGLLRRLFELEVPEISNGTVDVMSVSREAGDRSKIAVHS- 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
              +DPVGACVG +G RVQ +V EL  EKIDIV WS D   FV NAL PA V  V ++E 
Sbjct: 244 -DIVDPVGACVGPKGQRVQTIVDELNGEKIDIVRWSEDPKEFVRNALSPAQVVAVYVNEP 302

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
                V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +       +  +    F +
Sbjct: 303 AKSTTVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDA------EALDLFDTFAE 356

Query: 365 AINVDEIIAHLLVAEGFA--DVEELACVKIS 393
            +  +  I    V +  +   VE  A  +  
Sbjct: 357 KVESEPKIVQNEVEQDLSDATVETTAVKEEE 387


>gi|325265380|ref|ZP_08132104.1| transcription termination factor NusA [Clostridium sp. D5]
 gi|324029381|gb|EGB90672.1| transcription termination factor NusA [Clostridium sp. D5]
          Length = 407

 Score =  449 bits (1156), Expect = e-124,   Method: Composition-based stats.
 Identities = 147/358 (41%), Positives = 234/358 (65%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL+  + +  EK+I +D ++  + +S+  A ++ +GT  +I+V ++ ET D +++  
Sbjct: 2   NTELLEALNILEQEKNISKDTMMDAIENSLISACKNHFGTAENIKVIMDRETCDYAVYAE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEV +   +ISL+ A   D ++ IG +   P+    FGR+A Q+AK +I+QK+RE 
Sbjct: 62  KEVVEEVFDPALEISLEDAEQIDSALQIGDIAQIPIESKSFGRIATQNAKNLILQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y ++ +K  +I++G V+R    N+ ++LG +D ++  +E +  E  +P +R+K Y
Sbjct: 122 ERKVVYDQYFEKEKDIVTGIVQRYVGRNISINLGRADAMLTENEQVKGEVFKPTERIKLY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V+   +GP++L+SRTHP+ + +LF  EV E+ +G V++K+++R+ GSR K+AV+S+D
Sbjct: 182 VVEVKNTPKGPKILVSRTHPELVKRLFEAEVAEVKDGTVEIKSIAREAGSRTKMAVWSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVGACVGM G+RV AVV ELR EKIDI+ WS + A  + NAL PA V  V+ D D 
Sbjct: 242 ENVDPVGACVGMNGARVNAVVNELRGEKIDIINWSDNPALLIENALSPAKVISVMADPDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
               VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E +   + +   +   Q  M
Sbjct: 302 KAASVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSETQAIESGELPEDYMEQMAM 359


>gi|291550231|emb|CBL26493.1| transcription termination factor NusA [Ruminococcus torques L2-14]
          Length = 395

 Score =  449 bits (1156), Expect = e-124,   Method: Composition-based stats.
 Identities = 153/386 (39%), Positives = 244/386 (63%), Gaps = 12/386 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL+  D +  EK+I +DV+L  + +S+  A ++ +GT  +I++ ++  T D S++  
Sbjct: 2   NTELLEALDILEKEKNISKDVMLEAIENSLLSACKNHFGTSDNIKIVMDRNTCDYSVYAE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEV +   +ISL+ A   +P++ IG +    L   +FGR+A Q+AK +I+QK+RE 
Sbjct: 62  REVVEEVFDPAIEISLEDAEKINPALHIGDIAQVELHSKEFGRIATQNAKNLILQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   + ++ +K  +I++G V+R    N+ V+LG +D ++  +E +  E+  P +R+K Y
Sbjct: 122 ERKAVFDQYFEKEKDIVTGIVQRYIGKNISVNLGKADAILTENEQVKGEHFEPTERIKLY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V+   +GP++L+SRTHP+ + +LF  EV E+ +G V++K+++R+ GSR K+AV+S+D
Sbjct: 182 IVEVKNTPKGPKILVSRTHPELVKRLFESEVAEVKDGTVEIKSIAREAGSRTKMAVWSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVGACVGM G+RV AVV ELR EKIDI+ W  + A  + NAL PA V  V+ D D 
Sbjct: 242 PNVDPVGACVGMNGARVNAVVKELRGEKIDIINWDENPALLIENALSPAKVISVMADPDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
               VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E +       +  +  + +M+ 
Sbjct: 302 KIAGVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSETQAI-----ECGDLPENYMEQ 356

Query: 366 INVDEIIAHLLVAEGFADVEELACVK 391
           + +       +  EG+   EE   V 
Sbjct: 357 MGM-------VGEEGYTVGEEYDDVP 375


>gi|238924307|ref|YP_002937823.1| transcription elongation factor NusA [Eubacterium rectale ATCC
           33656]
 gi|238875982|gb|ACR75689.1| transcription elongation factor NusA [Eubacterium rectale ATCC
           33656]
 gi|291525077|emb|CBK90664.1| transcription termination factor NusA [Eubacterium rectale DSM
           17629]
 gi|291529172|emb|CBK94758.1| transcription termination factor NusA [Eubacterium rectale M104/1]
          Length = 414

 Score =  449 bits (1156), Expect = e-124,   Method: Composition-based stats.
 Identities = 154/397 (38%), Positives = 242/397 (60%), Gaps = 6/397 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL+  + +  EK+I ++ +L  + +S+  A ++ +G   +++VEI+PET   S ++   
Sbjct: 4   ELLEALNILEQEKNISKETLLEAIENSLVTACKNHFGKSDNVKVEIDPETCAFSCYQEKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ VE+   +ISL  A   + +  +G +V   +   +FGR+A Q+AK VI+QK+RE ER
Sbjct: 64  VVDTVEDPVEEISLADAHKVNGNYQLGDIVRVEVKSKEFGRIATQNAKNVILQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              + E+  K  ++++G V+R    NV ++LG +D ++   E I  E  +P +R+K YI 
Sbjct: 124 KVIFDEYNSKEKDVVTGVVQRYIGKNVSINLGKADALLTESEQIKGEVFKPTERIKVYIL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP++L+SRTHP+ + +LF  EV E+  GIV++KA+SR+ GSR K+AV+S+D +
Sbjct: 184 EVKSTSKGPKILVSRTHPELVKRLFESEVTEVKEGIVEIKAISREAGSRTKIAVWSNDPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVGM G+RV A+V ELR EKIDI+ W  + A  + NAL PA V  V+ D D   
Sbjct: 244 VDPVGACVGMNGARVNAIVNELRGEKIDIITWDENPAILIQNALSPAKVISVIADADEKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
            +V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E +   +      E         +
Sbjct: 304 AKVVVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSETQARESGDFMDYENDYEEDDYDD 363

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEE 404
             +     L        E LA  + +++ + E FD E
Sbjct: 364 DYDYSDDELAEN-----ERLADTEQADVQA-EAFDTE 394


>gi|315038575|ref|YP_004032143.1| transcription elongation factor NusA [Lactobacillus amylovorus GRL
           1112]
 gi|312276708|gb|ADQ59348.1| transcription elongation factor NusA [Lactobacillus amylovorus GRL
           1112]
          Length = 395

 Score =  449 bits (1155), Expect = e-124,   Method: Composition-based stats.
 Identities = 136/357 (38%), Positives = 215/357 (60%), Gaps = 2/357 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +   K I +DV++  +  ++  A +  Y    ++ V+ +   GD  +  +
Sbjct: 2   SKEMLEAFATLEKTKGIKQDVIVDAIKAALVAAYKKNYNQAQNVEVDFDERKGDFKVMAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   ++SLK A   + + ++G  +   + P +FGR+A Q+AKQVI+Q++REA
Sbjct: 62  KTVVDEVQDDRLEVSLKDALAINRAYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+    E+     E+++GTV+R +   V V +GN + V+   + +  E   P D+++  
Sbjct: 122 ERNHIIDEYSQYEDELVTGTVERRDNRFVYVKIGNVEAVMPHHDQMPNEVYNPQDQIRVL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+ +SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D
Sbjct: 182 VTHVGSDSKGAQITVSRTAPDMVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVKSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DE 303
            +IDPVG CVG +G+RVQ VV EL  E IDIV +  D + F+ NAL PA V  V    DE
Sbjct: 242 PNIDPVGTCVGQKGARVQNVVNELGGENIDIVKYEEDPSDFIANALNPAEVIAVQFGDDE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           D     VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E     +K  +  ++
Sbjct: 302 DEKSALVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESEVEFVDEKSSDSDSE 358


>gi|302874660|ref|YP_003843293.1| NusA antitermination factor [Clostridium cellulovorans 743B]
 gi|307690726|ref|ZP_07633172.1| transcription elongation factor NusA [Clostridium cellulovorans
           743B]
 gi|302577517|gb|ADL51529.1| NusA antitermination factor [Clostridium cellulovorans 743B]
          Length = 356

 Score =  449 bits (1155), Expect = e-124,   Method: Composition-based stats.
 Identities = 146/355 (41%), Positives = 226/355 (63%), Gaps = 4/355 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDIS 61
             + L     +  EK I  D +   + D++  A +  Y     T  + +V +N ETGDI 
Sbjct: 2   NADFLLALKEIVKEKGISEDQLFETIEDAMVAAYKKNYSKGSETNQNFKVTMNRETGDIK 61

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +F   ++VE V N   +I+L+ A++ DP  +IG +V   + P DFGRVA Q+AKQ++IQ+
Sbjct: 62  VFSRKDIVENVLNPVNEITLEEAKNYDPRYEIGEIVDIEVTPKDFGRVAAQAAKQLVIQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++EAER+  Y EF +K  +II+GTV R +  NV+V++G  + V+   E I  E     ++
Sbjct: 122 IKEAERNLIYEEFAEKEFDIINGTVIRKDKKNVLVNIGRIETVLNESEQIPGEQYNFNEK 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+ +V++  +GP +++SRTHP  + +LF +EVPEIY GIV++K+++R+ GSR K+AV
Sbjct: 182 LKLYVVEVKKTSKGPSIVVSRTHPNLVKRLFEIEVPEIYEGIVEIKSIAREAGSRTKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S+D  +D +GACVG +G RVQ +V EL +EKIDI+ W+     ++ N+L PA    V +
Sbjct: 242 YSNDEDVDAMGACVGSKGLRVQNIVNELGNEKIDIIKWNKLPEEYIANSLSPAKTLDVSI 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN 356
           DE     +VIV   QLSLAIG+ GQNVRLA++LTGW IDI ++ + S+    +  
Sbjct: 302 DEQNKCAKVIVDDNQLSLAIGKEGQNVRLAAKLTGWKIDIKSKSQHSVEATTEEE 356


>gi|227878819|ref|ZP_03996726.1| transcription elongation factor NusA [Lactobacillus crispatus
           JV-V01]
 gi|227861567|gb|EEJ69179.1| transcription elongation factor NusA [Lactobacillus crispatus
           JV-V01]
          Length = 407

 Score =  449 bits (1155), Expect = e-124,   Method: Composition-based stats.
 Identities = 145/401 (36%), Positives = 229/401 (57%), Gaps = 7/401 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +   K I +DV++  +  ++  A +  Y    ++ V+ +   G+  +  +
Sbjct: 12  SKEMLEAFATLENTKGIKQDVIVDAIKAALVAAYKKNYNQAQNVEVDFDERKGNFKVMAV 71

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   ++SLK A   + + ++G  +   + P +FGR+A Q+AKQVI+Q++REA
Sbjct: 72  KTVVDEVQDDRLEVSLKDALTINRAYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLREA 131

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER     E+     E+++GTV+R +   V V +GN + V+   + +  E   P D+++  
Sbjct: 132 ERKHIIDEYSQYEDELVTGTVERRDNRFVYVKIGNVEAVMPHRDQMPNEVYNPQDQIRVL 191

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+ +SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D
Sbjct: 192 VTHVGSDSKGAQITVSRTAPDMVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVKSND 251

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DE 303
            +IDPVG CVG +G+RVQ VV EL  E IDIV +  D + F+ NAL PA V  V    DE
Sbjct: 252 PNIDPVGTCVGQKGARVQNVVNELGGENIDIVKYEEDPSDFIANALNPAEVIAVQFGDDE 311

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           +     VIVP  QLSLAIG++GQNVRLA++LT + IDI  E E      +  +E+T    
Sbjct: 312 EEKSALVIVPDYQLSLAIGKKGQNVRLAARLTSYKIDIRPESE-----VEFVDEKTNDTA 366

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEE 404
            A +  E   ++   +  ADVE        E +S E   EE
Sbjct: 367 DAADSSETSENVESTDDAADVESSDDTTTVEDSSKEDKTEE 407


>gi|241667733|ref|ZP_04755311.1| transcription elongation factor NusA [Francisella philomiragia
           subsp. philomiragia ATCC 25015]
 gi|254876277|ref|ZP_05248987.1| transcription elongation factor nusA [Francisella philomiragia
           subsp. philomiragia ATCC 25015]
 gi|254842298|gb|EET20712.1| transcription elongation factor nusA [Francisella philomiragia
           subsp. philomiragia ATCC 25015]
          Length = 489

 Score =  448 bits (1154), Expect = e-124,   Method: Composition-based stats.
 Identities = 165/517 (31%), Positives = 293/517 (56%), Gaps = 38/517 (7%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL + + VA EK I +D++   M +++    +       +I V+I+  TGD    R+
Sbjct: 2   SKELLLVLETVANEKDISKDLLFEAMEEALAIITKKELDEHMNIEVKIDRVTGDFKADRV 61

Query: 66  LEVV---EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             +V   E++ +Y+ ++   VA+++  ++  G V+ + +   ++GR+A   AKQ++++K+
Sbjct: 62  WHIVSEDEDLIDYSKELYEDVAQEKGYNVKAGDVIRESVEVKEYGRIAATMAKQILMKKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDR 181
           +  ER++    ++ K+G+I+ G VKR  Y  +++DLGN ++G++ + + ISRE  R GD+
Sbjct: 122 KNFEREKTARFYQGKIGDIVYGEVKRATYEILVIDLGNNAEGILPKKDLISRERFRVGDK 181

Query: 182 VKSYIYDVRREQRGPQ--VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           ++S +  V  ++ G    V+LSR     +  LF +EVPE+   ++ V  V R+PG R+K+
Sbjct: 182 IRSCVESVEVDEFGKPSTVMLSRASNMMLKALFKLEVPEVEEELINVVNVVREPGFRSKV 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA---IV 296
            V S+D  IDP GACVG+RGSR+ ++++EL  EK+D+++W  D   + IN+L P     +
Sbjct: 242 TVKSNDQRIDPCGACVGVRGSRIHSIMSELNGEKVDVILWDEDMVQYAINSLSPVDSEDI 301

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN 356
            +V +DE+   ++++V +E LS AIG+ G NVRLAS L GW I+++++ E    +     
Sbjct: 302 LEVNVDEETNSMDIVVKQESLSKAIGKNGVNVRLASALIGWKINVLSDTEQEEKQM---- 357

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
              + F++A+++D   A +L+ EG   +E+LA +   E+  IEGFDEE   E+Q RA+  
Sbjct: 358 SIVEKFVEALDIDHDFALVLIEEGIETLEDLAYLDRDELLEIEGFDEEIVDELQERAKAV 417

Query: 417 LEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN 476
           +          +     +E+L ++ G++ ++   L +N I TME+LA  SVD+L      
Sbjct: 418 ILSQA------LGGKKPAEDLLNMQGMNQELADKLAQNNIVTMENLAELSVDEL------ 465

Query: 477 KGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                      L  +   + Q   +I+ AR    W E
Sbjct: 466 -----------LDIVAIDEKQATDLIMQARAP--WFE 489


>gi|210612465|ref|ZP_03289323.1| hypothetical protein CLONEX_01524 [Clostridium nexile DSM 1787]
 gi|210151573|gb|EEA82580.1| hypothetical protein CLONEX_01524 [Clostridium nexile DSM 1787]
          Length = 373

 Score =  448 bits (1154), Expect = e-124,   Method: Composition-based stats.
 Identities = 156/372 (41%), Positives = 235/372 (63%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL+    +  EK I ++ +L  + +S+  A ++ +G   +I+V +N ET D S+F  
Sbjct: 2   NTELLEALTILEQEKDISKETLLDAIENSLINACKNHFGKADNIKVVMNRETCDYSVFAE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEVE+   +ISL  A+  D   ++G +V  P+   +FGR+A Q+AK +I+QK+RE 
Sbjct: 62  KTVVEEVEDDVMEISLANAKMIDSKFELGDIVQIPVESKEFGRIATQNAKNLILQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y ++ +K  +I++G V+R    NV ++LG +D ++  +E +  E  +P +R+K Y
Sbjct: 122 ERKVVYDQYFEKEKDIVTGIVQRYVGKNVSINLGKADAMLTENEQVKGEVFKPTERIKLY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V+   +GP++L+SRTHP+ + +LF  EV E+  GIV++K++SR+ GSR K+AV+S+D
Sbjct: 182 IVEVKNTTKGPKILVSRTHPELVKRLFESEVAEVKEGIVEIKSISREAGSRTKIAVWSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVGM G+RV A+V+ELR EKIDI+ WS + A  + NAL PA V  V+ D D 
Sbjct: 242 PDVDPVGACVGMNGARVNAIVSELRGEKIDIINWSDNPAILIENALSPAKVISVMADPDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
               VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E +     +   N        +
Sbjct: 302 KTASVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSETQAIEAGELPENYMNLSTEVS 361

Query: 366 INVDEIIAHLLV 377
              DE I   LV
Sbjct: 362 EEADEEIPDELV 373


>gi|168187910|ref|ZP_02622545.1| transcription termination factor NusA [Clostridium botulinum C str.
           Eklund]
 gi|169294236|gb|EDS76369.1| transcription termination factor NusA [Clostridium botulinum C str.
           Eklund]
          Length = 348

 Score =  448 bits (1154), Expect = e-124,   Method: Composition-based stats.
 Identities = 143/348 (41%), Positives = 223/348 (64%), Gaps = 5/348 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDIS 61
             E ++    +  EK I  +++   + D++  A +  Y    G   +++V I+ E G+I 
Sbjct: 2   NAEFIEALREIVKEKGIGEELLFDTVEDALVSAYKKNYAKVGGNSQNVKVTIDRENGEIH 61

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++   ++ EE  +   +ISL+ AR+ D    +G +V   + P  FGR+A Q+AKQV+IQ+
Sbjct: 62  VYAQKKI-EEEPSGVNEISLEDAREIDSRYQMGDIVDLEVTPKSFGRIAAQTAKQVVIQR 120

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++EAER   Y EF  K  +II+GTV R + GNV VDL  ++ V+  +E +  E      +
Sbjct: 121 IKEAERKVIYDEFIAKEFDIITGTVIRKDKGNVFVDLEKTEAVLGPNEQMPGEEYNFNQK 180

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K YI +V+   +GPQV++SRTHP  + +LF +EVPEIY GIV++K+++R+ GSR K+AV
Sbjct: 181 LKLYIVEVKNTTKGPQVVVSRTHPGLVKRLFELEVPEIYAGIVEIKSIAREAGSRTKIAV 240

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S+D ++D  GACVG +G RVQ +VTEL++EKIDI+ W  +   ++ NAL PA V  V +
Sbjct: 241 YSNDENVDATGACVGPKGMRVQNIVTELKNEKIDIIKWDKEPEKYIANALSPARVLSVDI 300

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           D++    +++V   QLSLAIG+ GQNVRLA++LTGW IDI +E +   
Sbjct: 301 DDENKSAKIVVEDNQLSLAIGKEGQNVRLAAKLTGWKIDIKSESQVEE 348


>gi|310658997|ref|YP_003936718.1| transcription translation coupling factor [Clostridium sticklandii
           DSM 519]
 gi|308825775|emb|CBH21813.1| transcription translation coupling factor involved in Rho-dependent
           transcription termination [Clostridium sticklandii]
          Length = 357

 Score =  448 bits (1154), Expect = e-124,   Method: Composition-based stats.
 Identities = 142/355 (40%), Positives = 229/355 (64%), Gaps = 12/355 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E +   + +  EK I ++++   +  ++  A +  +GT S++RVE++ + G++ +F  
Sbjct: 2   NAEFIAALEQIETEKGISKEILFEALESALLNAYKKNFGTSSNVRVEMDKDKGEVKVFSR 61

Query: 66  LEVVE--EVENYTCQISLKVARD-RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             VV   E +    +IS++ A++   P+   G V+ + + P +FGR+A Q+A+Q++IQK+
Sbjct: 62  KSVVNKYEYDLGEGEISVEEAQERYGPNYGDGDVIEEEVTPKNFGRIAAQAARQMVIQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG---------NSDGVIRRDETISR 173
           +EAERD  Y EF ++  EII+G V R   GNV V+L          +++ V+   E I  
Sbjct: 122 KEAERDIVYEEFLNRESEIITGEVSRQGKGNVYVNLSIIGSKDITISAEAVLPPSEQIPF 181

Query: 174 ENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDP 233
           EN  PG RVK Y+ +V++    PQ+L+SR+HP  + +LF  EVPEI++G+VQ+K++SR+ 
Sbjct: 182 ENYMPGARVKVYVLEVKKNNNVPQILVSRSHPGLVKRLFESEVPEIFDGVVQIKSISREA 241

Query: 234 GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP 293
           GSR K+AV S D ++DP+GACVG +G RV+ +V EL+ EKIDI+++S D   F+  +L P
Sbjct: 242 GSRTKMAVHSVDENVDPIGACVGPKGQRVKNIVDELKGEKIDIIIYSEDPKEFISASLSP 301

Query: 294 AIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           + V  V ++ED    +V+VP ++LSLAIG+ GQN RLA++LTGW IDI +E +  
Sbjct: 302 SKVISVDVNEDDKSAKVVVPDDKLSLAIGKEGQNARLAAKLTGWKIDIKSESQAE 356


>gi|167627171|ref|YP_001677671.1| transcription elongation factor NusA [Francisella philomiragia
           subsp. philomiragia ATCC 25017]
 gi|167597172|gb|ABZ87170.1| transcription elongation factor [Francisella philomiragia subsp.
           philomiragia ATCC 25017]
          Length = 489

 Score =  448 bits (1154), Expect = e-124,   Method: Composition-based stats.
 Identities = 165/517 (31%), Positives = 293/517 (56%), Gaps = 38/517 (7%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL + + VA EK I +D++   M +++    +       +I V+I+  TGD    R+
Sbjct: 2   SKELLLVLETVANEKDISKDLLFEAMEEALAIITKKELDEHMNIEVKIDRVTGDFKADRV 61

Query: 66  LEVV---EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             +V   E++ +Y+ ++   VA+++  ++  G V+ + +   ++GR+A   AKQ++++K+
Sbjct: 62  WHIVSEDEDLIDYSKELYEDVAQEKGYNVKAGDVIRESVEVKEYGRIAATMAKQILMKKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDR 181
           +  ER++    ++ K+G+I+ G VKR  Y  +++DLGN ++G++ + + ISRE  R GD+
Sbjct: 122 KNFEREKTARFYQSKIGDIVYGEVKRATYEILVIDLGNNAEGILPKKDLISRERFRVGDK 181

Query: 182 VKSYIYDVRREQRGPQ--VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           ++S +  V  ++ G    V+LSR     +  LF +EVPE+   ++ V  V R+PG R+K+
Sbjct: 182 IRSCVESVEVDEFGKPSTVMLSRASNMMLKALFKLEVPEVEEELINVVNVVREPGFRSKV 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA---IV 296
            V S+D  IDP GACVG+RGSR+ ++++EL  EK+D+++W  D   + IN+L P     +
Sbjct: 242 TVKSNDQRIDPCGACVGVRGSRIHSIMSELNGEKVDVILWDEDMVQYAINSLSPVDSEDI 301

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN 356
            +V +DE+   ++++V +E LS AIG+ G NVRLAS L GW I+++++ E    +     
Sbjct: 302 LEVNVDEETNSMDIVVKQESLSKAIGKNGVNVRLASALIGWKINVLSDTEQEEKQM---- 357

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
              + F++A+++D   A +L+ EG   +E+LA +   E+  IEGFDEE   E+Q RA+  
Sbjct: 358 SIVEKFVEALDIDHDFALVLIEEGIETLEDLAYLDRDELLEIEGFDEEIVDELQERAKAV 417

Query: 417 LEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN 476
           +          +     +E+L ++ G++ ++   L +N I TME+LA  SVD+L      
Sbjct: 418 ILSQA------LGGKKPAEDLLNMQGMNQELADKLAQNNIVTMENLAELSVDEL------ 465

Query: 477 KGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                      L  +   + Q   +I+ AR    W E
Sbjct: 466 -----------LDIVAIDEKQATDLIMQARAP--WFE 489


>gi|327183772|gb|AEA32219.1| transcription elongation factor NusA [Lactobacillus amylovorus GRL
           1118]
          Length = 395

 Score =  448 bits (1153), Expect = e-123,   Method: Composition-based stats.
 Identities = 135/357 (37%), Positives = 214/357 (59%), Gaps = 2/357 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +   K I +DV++  +  ++  A +  Y    ++ V+ +   GD  +  +
Sbjct: 2   SKEMLEAFATLEKTKGIKQDVIVDAIKAALVAAYKKNYNQAQNVEVDFDERKGDFKVMAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   ++SLK A   + + ++G  +   + P +FGR+A Q+AKQVI+Q++REA
Sbjct: 62  KTVVDEVQDDRLEVSLKDALAINRAYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+    E+     E+++GTV+R +   V V +GN + V+   + +  E   P D+++  
Sbjct: 122 ERNHIIDEYSQYEDELVTGTVERRDNRFVYVKIGNVEAVMPHHDQMPNEVYNPQDQIRVL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+ +SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D
Sbjct: 182 VTHVGSDSKGAQITVSRTAPDMVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVKSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DE 303
            +IDPVG CVG +G+RVQ VV EL  E IDIV +  D + F+ NAL PA V  V    DE
Sbjct: 242 PNIDPVGTCVGQKGARVQNVVNELGGENIDIVKYEEDPSDFIANALNPAEVIAVQFGDDE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           D     VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E     +   +  ++
Sbjct: 302 DEKSALVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESEVEFVDENSSDSDSE 358


>gi|317500433|ref|ZP_07958657.1| transcription termination factor NusA [Lachnospiraceae bacterium
           8_1_57FAA]
 gi|331089560|ref|ZP_08338459.1| transcription termination factor NusA [Lachnospiraceae bacterium
           3_1_46FAA]
 gi|316898188|gb|EFV20235.1| transcription termination factor NusA [Lachnospiraceae bacterium
           8_1_57FAA]
 gi|330404928|gb|EGG84466.1| transcription termination factor NusA [Lachnospiraceae bacterium
           3_1_46FAA]
          Length = 404

 Score =  447 bits (1151), Expect = e-123,   Method: Composition-based stats.
 Identities = 140/356 (39%), Positives = 233/356 (65%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL++    +  EK+I +DV++  + +S+  A ++ +GT  +I+V ++ +T D +++  
Sbjct: 2   NTELMEALTILEKEKNISKDVMMDAIENSLISACKNHFGTSDNIKVIMDRDTCDYAVYAE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEVE+   +ISL+ A   D ++ +G +   P+   +FGR+A Q+AK +I+QK+RE 
Sbjct: 62  KNVVEEVEDPALEISLEEAEKLDSALQVGDIAQIPVHSKEFGRIATQNAKNLILQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   + ++ +K  +I++G V+R    N+ ++LG +D ++  +E +  E+ +P +R+K Y
Sbjct: 122 ERKVVFDQYFEKEKDIVTGVVQRYVGKNISINLGRADAMLTENEQVKGEHFKPTERIKLY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V+   +GP++L+SRTHP+ + +LF  EV E+ +G V++K+++R+ GSR K+AV+S+D
Sbjct: 182 VVEVKNTPKGPKILVSRTHPELVKRLFEAEVAEVRDGTVEIKSIAREAGSRTKMAVWSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVGACVGM G+RV AVV ELR EKIDI+ W  + A  + N+L PA V  V+ D + 
Sbjct: 242 PNVDPVGACVGMNGARVNAVVQELRGEKIDIINWDENPALLIENSLSPAKVISVMADPEE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
               VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E +     +   N   + 
Sbjct: 302 KIASVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSETQAIEAGELPENYMEEM 357


>gi|153954053|ref|YP_001394818.1| transcription elongation factor NusA [Clostridium kluyveri DSM 555]
 gi|219854666|ref|YP_002471788.1| hypothetical protein CKR_1323 [Clostridium kluyveri NBRC 12016]
 gi|146346934|gb|EDK33470.1| NusA [Clostridium kluyveri DSM 555]
 gi|219568390|dbj|BAH06374.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 355

 Score =  447 bits (1151), Expect = e-123,   Method: Composition-based stats.
 Identities = 139/352 (39%), Positives = 230/352 (65%), Gaps = 4/352 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG----TMSDIRVEINPETGDIS 61
             E ++    +  EK I  D++ + + D++  A +  Y     +  +++V +N E G+I 
Sbjct: 2   NQEFIEALKEIVKEKGISEDLLFTTIEDALVAAYKKNYIGHGISNQNVKVTMNRENGEIH 61

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++    +V+ V +   +ISL+ A++ D + D+G +V+  + P  FGRVA Q+AKQV+IQ+
Sbjct: 62  VYSQKSIVDNVVDDVSEISLEDAKEIDSNYDMGDIVNIEVTPRKFGRVAAQAAKQVVIQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++E ER   Y +F +K  +II+GTV R +  N++V+LG ++ ++  +E I  E     D+
Sbjct: 122 IKEEERRIIYNDFVEKEDDIITGTVIRKDKNNILVNLGKTEAILGPNEQIPGEKYNFNDK 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K YI +V+   +G Q+++SRTHP  + +LF +EVPE+++G V +K+++R+ GSR K+AV
Sbjct: 182 LKLYIVEVKNTTKGAQIVISRTHPGLIKRLFELEVPEVFDGTVDIKSIAREAGSRTKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+D ++DP+GACVG +G RVQ +V EL+ EKIDI+ WS     ++ NAL PA V  V L
Sbjct: 242 HSNDENVDPMGACVGPKGVRVQNIVNELKSEKIDIIKWSKLPEEYIANALSPAKVLDVTL 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
           DE++   +++V   QLSLAIG+ GQNVRLA++LTGW IDI ++ +  +  +K
Sbjct: 302 DEEIKFAQIVVDDSQLSLAIGKEGQNVRLAAKLTGWKIDIKSKSQSDVEDEK 353


>gi|153814921|ref|ZP_01967589.1| hypothetical protein RUMTOR_01136 [Ruminococcus torques ATCC 27756]
 gi|145847952|gb|EDK24870.1| hypothetical protein RUMTOR_01136 [Ruminococcus torques ATCC 27756]
          Length = 404

 Score =  447 bits (1151), Expect = e-123,   Method: Composition-based stats.
 Identities = 140/356 (39%), Positives = 234/356 (65%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            +EL++    +  EK+I +DV++  + +S+  A ++ +GT  +I+V ++ +T D +++  
Sbjct: 2   NIELMEALTILEKEKNISKDVMMDAIENSLISACKNHFGTSDNIKVIMDRDTCDYAVYAE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEVE+   +ISL+ A   D ++ +G +   P+   +FGR+A Q+AK +I+QK+RE 
Sbjct: 62  KNVVEEVEDPALEISLEEAEKLDSALQVGDIAQIPVHSKEFGRIATQNAKNLILQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   + ++ +K  +I++G V+R    N+ ++LG +D ++  +E +  E+ +P +R+K Y
Sbjct: 122 ERKVVFDQYFEKEKDIVTGVVQRYVGKNISINLGRADAMLTENEQVKGEHFKPTERIKLY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V+   +GP++L+SRTHP+ + +LF  EV E+ +G V++K+++R+ GSR K+AV+S+D
Sbjct: 182 VVEVKNTPKGPKILVSRTHPELVKRLFEAEVAEVRDGTVEIKSIAREAGSRTKMAVWSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVGACVGM G+RV AVV ELR EKIDI+ W  + A  + N+L PA V  V+ D + 
Sbjct: 242 PNVDPVGACVGMNGARVNAVVQELRGEKIDIINWDENPALLIENSLSPAKVISVMADPEE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
               VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E +     +   N   + 
Sbjct: 302 KIASVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSETQAIEAGELPENYMEEM 357


>gi|197303044|ref|ZP_03168092.1| hypothetical protein RUMLAC_01771 [Ruminococcus lactaris ATCC
           29176]
 gi|197297899|gb|EDY32451.1| hypothetical protein RUMLAC_01771 [Ruminococcus lactaris ATCC
           29176]
          Length = 397

 Score =  447 bits (1151), Expect = e-123,   Method: Composition-based stats.
 Identities = 149/356 (41%), Positives = 234/356 (65%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL+    +  EK+I +DV++  + +S+  A ++ +GT  +I++ ++ ET D S+F  
Sbjct: 2   NTELLEALTILEKEKNISKDVMMEAIENSLLSACKNHFGTSDNIKIVMDRETCDYSVFAE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEV +   +ISL+ A   +PS+ IG +   P+   +FGR+A Q+AK +I+QK+RE 
Sbjct: 62  KEVVEEVFDPAIEISLEDAEKINPSLHIGDIAQVPVYSKEFGRIATQNAKNLILQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   + ++ +K  +I++G V+R    N+ ++LG +D ++  +E +  E+  P +R+K Y
Sbjct: 122 ERKVVFDQYFEKEKDIVTGIVQRYVGKNISINLGRADAMLTENEQVKGEHFEPTERIKLY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V+   +GP++L+SRTHP+ + +LF  EV E+ +G V++K+++R+ GSR K+AV+S+D
Sbjct: 182 IVEVKNTTKGPKILVSRTHPELVKRLFEAEVAEVKDGTVEIKSIAREAGSRTKMAVWSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVGACVGM G+RV AVV ELR EKIDI+ W  + A  + NAL PA V  V+ D D 
Sbjct: 242 PNVDPVGACVGMNGARVNAVVQELRGEKIDIINWDENPALLIENALSPAKVISVMADPDA 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
               VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E +   + +   N   Q 
Sbjct: 302 KVASVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSETQAIESGELPENYMEQM 357


>gi|256843341|ref|ZP_05548829.1| transcription termination factor NusA [Lactobacillus crispatus
           125-2-CHN]
 gi|256849840|ref|ZP_05555271.1| transcription termination-antitermination factor [Lactobacillus
           crispatus MV-1A-US]
 gi|262046914|ref|ZP_06019874.1| transcription termination factor NusA [Lactobacillus crispatus
           MV-3A-US]
 gi|256614761|gb|EEU19962.1| transcription termination factor NusA [Lactobacillus crispatus
           125-2-CHN]
 gi|256713329|gb|EEU28319.1| transcription termination-antitermination factor [Lactobacillus
           crispatus MV-1A-US]
 gi|260572896|gb|EEX29456.1| transcription termination factor NusA [Lactobacillus crispatus
           MV-3A-US]
          Length = 397

 Score =  447 bits (1151), Expect = e-123,   Method: Composition-based stats.
 Identities = 145/401 (36%), Positives = 229/401 (57%), Gaps = 7/401 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +   K I +DV++  +  ++  A +  Y    ++ V+ +   G+  +  +
Sbjct: 2   SKEMLEAFATLENTKGIKQDVIVDAIKAALVAAYKKNYNQAQNVEVDFDERKGNFKVMAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   ++SLK A   + + ++G  +   + P +FGR+A Q+AKQVI+Q++REA
Sbjct: 62  KTVVDEVQDDRLEVSLKDALTINRAYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER     E+     E+++GTV+R +   V V +GN + V+   + +  E   P D+++  
Sbjct: 122 ERKHIIDEYSQYEDELVTGTVERRDNRFVYVKIGNVEAVMPHRDQMPNEVYNPQDQIRVL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+ +SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D
Sbjct: 182 VTHVGSDSKGAQITVSRTAPDMVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVKSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DE 303
            +IDPVG CVG +G+RVQ VV EL  E IDIV +  D + F+ NAL PA V  V    DE
Sbjct: 242 PNIDPVGTCVGQKGARVQNVVNELGGENIDIVKYEEDPSDFIANALNPAEVIAVQFGDDE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           +     VIVP  QLSLAIG++GQNVRLA++LT + IDI  E E      +  +E+T    
Sbjct: 302 EEKSALVIVPDYQLSLAIGKKGQNVRLAARLTSYKIDIRPESE-----VEFVDEKTNDTA 356

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEE 404
            A +  E   ++   +  ADVE        E +S E   EE
Sbjct: 357 DAADSSETSENVESTDDAADVESSDDTTTVEDSSKEDKTEE 397


>gi|291536069|emb|CBL09181.1| transcription termination factor NusA [Roseburia intestinalis
           M50/1]
          Length = 402

 Score =  447 bits (1151), Expect = e-123,   Method: Composition-based stats.
 Identities = 146/344 (42%), Positives = 227/344 (65%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL+  + +  EK+I +D +L  + +S+  A ++ +G+  +++V I+PET +  +F+ 
Sbjct: 3   NNELLEALNILEQEKNISKDTLLEAIENSLVTACKNHFGSSDNVKVSIDPETCEFHVFQE 62

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE VE+   QISL  A+  +   +IG VV+  +   +FGR+A Q+AK VI+QK+RE 
Sbjct: 63  KTVVETVEDPVEQISLVNAKMINSKYEIGDVVNIEVQSKEFGRIATQNAKNVILQKIREE 122

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y ++     ++++G V+R    NV ++LG  D ++  +E +  E  +P +R+K Y
Sbjct: 123 ERKVLYDQYYSMEKDVVTGVVQRYVGRNVSINLGRVDAILTENEQVKGEVFQPTERIKVY 182

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V+   +GP+VL+SRTHP+ + +LF  EV E+  GIV++KA++R+ GSR K+AV+S+D
Sbjct: 183 ILEVKATSKGPKVLVSRTHPELVKRLFESEVAEVREGIVEIKAIAREAGSRTKIAVWSND 242

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVGM G+RV A+V ELR EKIDI+ W+ + A  + NAL PA V  V+ D + 
Sbjct: 243 PDVDPVGACVGMNGARVNAIVGELRGEKIDIITWNENPAMMIENALSPAKVISVIADAEE 302

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
              +V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E +   
Sbjct: 303 KSAKVVVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSETQARE 346


>gi|118443498|ref|YP_878211.1| transcription elongation factor NusA [Clostridium novyi NT]
 gi|118133954|gb|ABK60998.1| transcription termination factor NusA [Clostridium novyi NT]
          Length = 348

 Score =  447 bits (1150), Expect = e-123,   Method: Composition-based stats.
 Identities = 143/348 (41%), Positives = 222/348 (63%), Gaps = 5/348 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDIS 61
             E ++    +  EK I   ++   + D++  A +  Y    G   +++V I+ E G+I 
Sbjct: 2   NAEFIEALREIVKEKGIGEQLLFDTVEDALVSAYKKNYAKVGGNSQNVKVTIDRENGEIH 61

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++   ++ EE  +   +ISL+ AR+ D    +G +V   + P  FGR+A Q+AKQV+IQ+
Sbjct: 62  VYAQKKI-EEEPSGVNEISLEDAREIDSRYQMGDIVDLEVTPKSFGRIAAQTAKQVVIQR 120

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++EAER   Y EF  K  +II+GTV R + GNV VDL  ++ V+  +E +  E      +
Sbjct: 121 IKEAERKVVYDEFIAKEFDIITGTVIRKDKGNVFVDLEKTEAVLGPNEQMPGEEYNFNQK 180

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K YI +V+   +GPQV++SRTHP  + +LF +EVPEIY G+V+VK+++R+ GSR K+AV
Sbjct: 181 LKLYIVEVKNTTKGPQVVVSRTHPGLVKRLFELEVPEIYAGVVEVKSIAREAGSRTKIAV 240

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S+D ++D  GACVG +G RVQ +VTEL++EKIDI+ W  +   ++ NAL PA V  V +
Sbjct: 241 YSNDENVDATGACVGPKGMRVQNIVTELKNEKIDIIKWDKEPEKYIANALSPARVLSVDI 300

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           D++    +++V   QLSLAIG+ GQNVRLA++LTGW IDI +E +   
Sbjct: 301 DDENKSAKIVVEDSQLSLAIGKEGQNVRLAAKLTGWKIDIKSESQVEE 348


>gi|325957049|ref|YP_004292461.1| transcription elongation factor NusA [Lactobacillus acidophilus
           30SC]
 gi|325333614|gb|ADZ07522.1| transcription elongation factor NusA [Lactobacillus acidophilus
           30SC]
          Length = 395

 Score =  447 bits (1150), Expect = e-123,   Method: Composition-based stats.
 Identities = 135/357 (37%), Positives = 214/357 (59%), Gaps = 2/357 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +   K I +DV++  +  ++  A +  Y    ++ V+ +   GD  +  +
Sbjct: 2   SKEMLEAFATLEKTKGIKQDVIVDAIKAALVAAYKKNYKQAQNVEVDFDERKGDFKVMAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   ++SLK A   + + ++G  +   + P +FGR+A Q+AKQVI+Q++REA
Sbjct: 62  KTVVDEVQDDRLEVSLKDALAINRAYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+    E+     E+++GTV+R +   V V +GN + V+   + +  E   P D+++  
Sbjct: 122 ERNHIIDEYSQYEDELVTGTVERRDNRFVYVKIGNVEAVMPHHDQMPNEVYNPQDQIRVL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+ +SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D
Sbjct: 182 VTHVGSDSKGAQITVSRTAPDMVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVKSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DE 303
            +IDPVG CVG +G+RVQ VV EL  E IDIV +  D + F+ NAL PA V  V    DE
Sbjct: 242 PNIDPVGTCVGQKGARVQNVVNELGGENIDIVKYEEDPSDFIANALNPAEVIAVQFGDDE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           D     VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E     +   +  ++
Sbjct: 302 DEKSALVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESEVEFVDENSSDSDSE 358


>gi|303248242|ref|ZP_07334505.1| transcription termination factor NusA [Desulfovibrio fructosovorans
           JJ]
 gi|302490380|gb|EFL50291.1| transcription termination factor NusA [Desulfovibrio fructosovorans
           JJ]
          Length = 478

 Score =  447 bits (1150), Expect = e-123,   Method: Composition-based stats.
 Identities = 174/432 (40%), Positives = 270/432 (62%), Gaps = 7/432 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL +  D ++ ++ IDRD+++  + ++++ +    YG   D+ V  N E G+I +++ 
Sbjct: 1   MTELKKAIDQISKDRGIDRDLLIDTLEEAVRSSVIRKYGENLDVEVSYNDEQGEIEVYQF 60

Query: 66  LEVVEEVEN--YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVE+ +      +I L  AR  DP++ +   +   L   + GR+A QSAKQVIIQ++R
Sbjct: 61  KVVVEDDDVADPAAEICLSDARAIDPNVALDDEMGFKLTVENLGRIAAQSAKQVIIQRMR 120

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           +AE++  Y E+KD+ GEIISG ++R +    I++LG ++ ++ ++E I RE  + GDRV+
Sbjct: 121 DAEQEIIYEEYKDRKGEIISGIIQRRDRTGWIINLGRTEALLPKEEQIPRERYKRGDRVQ 180

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           +YI +V    RGPQ+++SRTH  +M  LF  EVPE+ +G V++  V+RDPGSRAK+AV S
Sbjct: 181 AYIIEVLPSGRGPQIIVSRTHADYMKALFAREVPEVSDGTVKIVGVARDPGSRAKVAVVS 240

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D  +DPVGACVG+RGSR+Q +V ELR E+IDIVVW+P+ AT+  NAL P+ VT++ +DE
Sbjct: 241 KDRDVDPVGACVGIRGSRIQNIVQELRGERIDIVVWNPEIATYAANALSPSRVTRISVDE 300

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   +EV+V  +QL+LAIGR+GQNV+LA++L GW IDI TE      R ++ N   +F  
Sbjct: 301 DEKALEVVVSDDQLNLAIGRKGQNVKLAAKLLGWKIDIFTES-----RFREVNASKKFLE 355

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
           Q  +V EI    ++A GF  +E+LA      I +I G       +++   +        +
Sbjct: 356 QLASVAEIPVDNILAAGFESMEQLAEAPDEAIDAISGMTPSKRDDLRAALKLMGAVAARS 415

Query: 424 LQKKIRELGVSE 435
            +    E  V+E
Sbjct: 416 EEADAEEDAVAE 427


>gi|225570594|ref|ZP_03779619.1| hypothetical protein CLOHYLEM_06696 [Clostridium hylemonae DSM
           15053]
 gi|225160607|gb|EEG73226.1| hypothetical protein CLOHYLEM_06696 [Clostridium hylemonae DSM
           15053]
          Length = 397

 Score =  447 bits (1150), Expect = e-123,   Method: Composition-based stats.
 Identities = 144/344 (41%), Positives = 226/344 (65%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL+  + +  EK I ++ +L  + +S+  A ++ +G   +I+V ++ ET D  +F  
Sbjct: 2   NTELLEALNILEKEKDISKETLLDAIENSLLNACKNHFGKADNIKVIMDRETCDYKVFAE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
              VEEVE+   QISL+ AR+ D + ++G +V  P+    FGR+A Q+AK +I+QK+RE 
Sbjct: 62  KTAVEEVEDDLEQISLEDAREIDSTFELGDIVQIPIESKSFGRIATQNAKNLILQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y ++ +K  +I++G V+R    N+ ++LG +D ++  +E +  E  +P +R+K Y
Sbjct: 122 ERKVVYDQYFEKEKDIVTGIVQRYVGKNISINLGKADAMLTENEQVKGEVFKPTERIKLY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V+   +GP++L+SRTHP+ + +LF  EV E+ +G V++K+++R+ GSR K+AV+S+D
Sbjct: 182 VVEVKNTTKGPKILVSRTHPELVKRLFESEVTEVKDGTVEIKSIAREAGSRTKIAVWSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVGM G+RV  +V ELR EKIDI+ WS + A  + NAL PA V  V+ D D 
Sbjct: 242 PDVDPVGACVGMNGARVNTIVNELRGEKIDIINWSDNPAILIENALSPAKVISVMADPDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
               VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E +   
Sbjct: 302 KAASVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSETQAIE 345


>gi|293381214|ref|ZP_06627222.1| transcription termination factor NusA [Lactobacillus crispatus
           214-1]
 gi|290922254|gb|EFD99248.1| transcription termination factor NusA [Lactobacillus crispatus
           214-1]
          Length = 397

 Score =  447 bits (1150), Expect = e-123,   Method: Composition-based stats.
 Identities = 144/401 (35%), Positives = 229/401 (57%), Gaps = 7/401 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +   K I +D+++  +  ++  A +  Y    ++ V+ +   G+  +  +
Sbjct: 2   SKEMLEAFATLENTKGIKQDIIVDAIKAALVAAYKKNYNQAQNVEVDFDERKGNFKVMAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   ++SLK A   + + ++G  +   + P +FGR+A Q+AKQVI+Q++REA
Sbjct: 62  KTVVDEVQDDRLEVSLKDALTINRAYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER     E+     E+++GTV+R +   V V +GN + V+   + +  E   P D+++  
Sbjct: 122 ERKHIIDEYSQYEDELVTGTVERRDNRFVYVKIGNVEAVMPHRDQMPNEVYNPQDQIRVL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+ +SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D
Sbjct: 182 VTHVGSDSKGAQITVSRTAPDMVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVKSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DE 303
            +IDPVG CVG +G+RVQ VV EL  E IDIV +  D + F+ NAL PA V  V    DE
Sbjct: 242 PNIDPVGTCVGQKGARVQNVVNELGGENIDIVKYEEDPSDFIANALNPAEVIAVQFGDDE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           +     VIVP  QLSLAIG++GQNVRLA++LT + IDI  E E      +  +E+T    
Sbjct: 302 EEKSALVIVPDYQLSLAIGKKGQNVRLAARLTSYKIDIRPESE-----VEFVDEKTNDTA 356

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEE 404
            A +  E   ++   +  ADVE        E +S E   EE
Sbjct: 357 DAADSSETSENVESTDDAADVESSDDTTTVEDSSKEDKTEE 397


>gi|253580823|ref|ZP_04858086.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA]
 gi|251847893|gb|EES75860.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA]
          Length = 406

 Score =  447 bits (1150), Expect = e-123,   Method: Composition-based stats.
 Identities = 149/342 (43%), Positives = 222/342 (64%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL +  D +  EKSI +D +L  +  S+ +A ++ +G   ++ V I+PET D S++    
Sbjct: 4   ELREALDILEKEKSISKDTLLEAIEQSLIQACKNHFGKADNVHVTIDPETCDFSVYADRS 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +VE VE+   +ISL  A       +IGG++  P+   +FGR+A Q+AK VI+QK+RE ER
Sbjct: 64  IVEYVEDPAMEISLADALKITSRAEIGGMIQVPIQSKEFGRIATQNAKNVILQKIREEER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+  K  E+++G V+RV   NV ++LG +D V+  +E +  E  +P +R+K YI 
Sbjct: 124 KVLYDEYYGKEKEVVTGIVQRVMGKNVSINLGKADAVLSENEQVKGETFQPTERIKVYIL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V+   +GP++L+SRTHP  + +LF  EV E+ +G V++K+++R+ GSR K+AV+S+D  
Sbjct: 184 EVKDTPKGPRILVSRTHPGLVKRLFESEVAEVKDGTVEIKSIAREAGSRTKIAVWSNDPD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +D VGACVGM G+RV AVV ELR EKIDI+ W  + A  + NAL PA V  V+ D D   
Sbjct: 244 VDAVGACVGMNGARVNAVVEELRGEKIDIINWDENPAILIENALSPAKVIAVMADPDEKT 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
             V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E +   
Sbjct: 304 ALVVVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSETQAKE 345


>gi|313888283|ref|ZP_07821954.1| transcription termination factor NusA [Peptoniphilus harei
           ACS-146-V-Sch2b]
 gi|312845686|gb|EFR33076.1| transcription termination factor NusA [Peptoniphilus harei
           ACS-146-V-Sch2b]
          Length = 411

 Score =  446 bits (1149), Expect = e-123,   Method: Composition-based stats.
 Identities = 159/408 (38%), Positives = 252/408 (61%), Gaps = 7/408 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E +     +  EK I +++V   +  ++  + R  YGT  ++ V ++ ETG+I LF  
Sbjct: 2   NQEFIDALSEIEKEKGISKEIVFEALESALVSSYRKNYGTSENVIVNMDRETGEIKLFAS 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            ++VE+VE+   +ISL  A+  +P+ +IG V +  + P +FGR+A Q+AKQV+IQ++++A
Sbjct: 62  KDIVEKVEDPQLEISLDEAKKINPNYEIGDVYNQEIHPKNFGRIAAQTAKQVVIQRIKDA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ERD  + E+ ++  EII+G V+R  Y NV VDLG+++ ++   E IS E+   GDR K  
Sbjct: 122 ERDIVFDEYVEREKEIITGLVQRKSYNNVYVDLGSTEAILPYSEQISGESYNHGDRYKML 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V +  +GPQ++LSR+HP  + +LF +E+PE+  GIV++ ++SR+ GSR K+AVFS D
Sbjct: 182 ILSVEKSTKGPQIVLSRSHPDLIKRLFELEIPEVSEGIVEIYSISREAGSRTKIAVFSRD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DP+GACVG +G RV A+V E+ +EKIDIV++  +   F+ N+L P+ V KV ++E  
Sbjct: 242 PEVDPLGACVGYKGQRVNAIVDEIDNEKIDIVIYEKEIDKFIANSLSPSKVEKVFVNEAE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
                IVP  QLSLAIG+ GQNVRLA++LTGW IDI +  +     ++          + 
Sbjct: 302 KSALAIVPDYQLSLAIGKEGQNVRLAAKLTGWKIDIKSNLQFEEYLEERNITEEDLIEEY 361

Query: 366 IN-VDEIIAHLLVAEGFADVEE----LACVKISEIASIEGFDEETAVE 408
            N V E +    V+E   + EE    +  ++     ++E  DEE++VE
Sbjct: 362 ENAVKENVEE--VSEDLNNPEEQDIKIDDIEDEVCGNLENADEESSVE 407


>gi|238854742|ref|ZP_04645072.1| transcription termination factor NusA [Lactobacillus jensenii
           269-3]
 gi|260663974|ref|ZP_05864827.1| transcription termination factor NusA [Lactobacillus jensenii
           SJ-7A-US]
 gi|282932867|ref|ZP_06338264.1| transcription termination factor NusA [Lactobacillus jensenii
           208-1]
 gi|313472265|ref|ZP_07812757.1| transcription termination factor NusA [Lactobacillus jensenii 1153]
 gi|238832532|gb|EEQ24839.1| transcription termination factor NusA [Lactobacillus jensenii
           269-3]
 gi|239529661|gb|EEQ68662.1| transcription termination factor NusA [Lactobacillus jensenii 1153]
 gi|260561860|gb|EEX27829.1| transcription termination factor NusA [Lactobacillus jensenii
           SJ-7A-US]
 gi|281302902|gb|EFA95107.1| transcription termination factor NusA [Lactobacillus jensenii
           208-1]
          Length = 368

 Score =  446 bits (1149), Expect = e-123,   Method: Composition-based stats.
 Identities = 131/342 (38%), Positives = 209/342 (61%), Gaps = 2/342 (0%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
            E+L+    +  EK I +++++  +  ++  A +  Y    ++ V+ +   G+  +  + 
Sbjct: 3   KEMLEAFATLENEKGIKQEIIVDAIKAALVAAYKKNYNQAQNVEVDFDERKGNFKVMAIK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VV+EV++   ++SLK A + + + ++G  +   + P DFGR++ Q+AKQVI+Q++REAE
Sbjct: 63  TVVDEVQDARLEVSLKEALEINKAYEVGDEIKFEVTPKDFGRISAQTAKQVIMQRLREAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R+    E+     E+++G V+R +   V V +   + V+ R + +  E   P D+++  +
Sbjct: 123 RNHIVSEYSQYQDELVTGVVERHDNRFVYVMIDKVEAVMPRGDQMPNEVYNPQDKIRVLV 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V  + +G Q+++SRT P  + +LF  EVPE+Y+G VQ+ +V+R+ G R K+AV S D 
Sbjct: 183 TKVGNDTKGAQIVVSRTAPDMVKRLFEQEVPEVYDGTVQIVSVAREAGDRTKIAVKSDDP 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DED 304
           +IDPVG CVG +G+RVQ VV EL  E IDIV +  D A F+ NAL PA V       DED
Sbjct: 243 NIDPVGTCVGPKGARVQNVVNELGGENIDIVKYEDDPADFIANALNPAEVIAAQFGEDED 302

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
                VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E +
Sbjct: 303 EKSALVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESQ 344


>gi|291279908|ref|YP_003496743.1| N utilization substance protein A [Deferribacter desulfuricans
           SSM1]
 gi|290754610|dbj|BAI80987.1| N utilization substance protein A [Deferribacter desulfuricans
           SSM1]
          Length = 443

 Score =  446 bits (1148), Expect = e-123,   Method: Composition-based stats.
 Identities = 172/429 (40%), Positives = 269/429 (62%), Gaps = 9/429 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL ++AD +  EK + ++++   + DSI+ A    YG ++D  V ++ E G I +   
Sbjct: 1   MKELAKVADEIGKEKGLSKELLKEALEDSIKAAVIRKYGRLTDPEVTVDIERGKIDIKVP 60

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVE VEN   +I L+ A+   P  ++G V+  P+   + GR A   AKQ +++K+REA
Sbjct: 61  KEVVESVENKKYEILLEDAKKIKPDAELGDVIMVPISFQELGRQAATVAKQRMVEKIREA 120

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E+   Y EF++K+G+I++G V + +  ++IV +G ++  + + E I  +    GD V++ 
Sbjct: 121 EKQVVYDEFQNKIGQIVTGVVLKSDKDSMIVSIGKTEAFMPKREIIPGDYYDRGDYVRAL 180

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + ++R  +  PQ++LSRTHP F+ KLF +E+PE++ GI++VKAV+R+PG RAK+AV+S +
Sbjct: 181 LLEIRVIRGWPQLILSRTHPDFLKKLFEVEIPEVFEGIIEVKAVAREPGDRAKVAVYSKN 240

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           S+IDPVGAC+G++G+R+ A+  ELR EKID++ WSPD   FV NAL PA V    + ED 
Sbjct: 241 SNIDPVGACIGLKGTRINAISNELRGEKIDVIEWSPDPVKFVCNALSPADVILTNIFEDE 300

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ---KDFNERTQFF 362
             IEV+VP +QLSLAIG+RGQNVRLA+ LTGW +D++ E E +I R+   ++  E  + F
Sbjct: 301 KTIEVVVPDDQLSLAIGKRGQNVRLAAMLTGWRLDVLKESEYNIIRKERLQEQEEELKEF 360

Query: 363 MQAIN------VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
            +  N      +DE +   L+  G  DVE+L+   + E+    G +E+ AV I   A +Y
Sbjct: 361 YEIYNLENIDVLDENMISKLIEHGIDDVEKLSTASVDEVVMALGVNEDQAVVIINSAIDY 420

Query: 417 LEGIDITLQ 425
           L      L 
Sbjct: 421 LTEKLEELD 429


>gi|258645576|ref|ZP_05733045.1| transcription termination factor NusA [Dialister invisus DSM 15470]
 gi|260402934|gb|EEW96481.1| transcription termination factor NusA [Dialister invisus DSM 15470]
          Length = 377

 Score =  446 bits (1147), Expect = e-123,   Method: Composition-based stats.
 Identities = 152/344 (44%), Positives = 221/344 (64%), Gaps = 4/344 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           LLQ  + +  +K ++ DVV   +   +  A +   G+ +   + ++  TG+  ++    V
Sbjct: 5   LLQAVNFLVDKKKVEADVVFDALEMVLLTAYKKEMGSNAKTSISLDRTTGEYKIYEEKTV 64

Query: 69  VE----EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VE    E EN   +I+++ A+      + G ++   + P DFGRVA Q+AKQV+IQK+RE
Sbjct: 65  VEVIDPESENAINEITVENAKKISKDYEAGDMLRVDVTPKDFGRVAAQAAKQVLIQKLRE 124

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER   Y EF  + G+II+GTVK  E   V VDLG  +G++   E I  E  +P D++K 
Sbjct: 125 AERGSIYEEFSGREGDIITGTVKWSESRTVFVDLGRVEGILPFAEQIEGETFQPNDKIKC 184

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+ +VR+  +GP+++LSRTHP  + +LF MEVPEIY+G V++K+V R+ GSRAK+AV++ 
Sbjct: 185 YVQEVRKTTKGPEIILSRTHPGLLKRLFEMEVPEIYSGTVEIKSVVREAGSRAKIAVYAM 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D ++DPVGACVG +G RVQ +V EL DEKIDIV W  D A ++ NAL PA V  V + ++
Sbjct: 245 DPNVDPVGACVGPKGQRVQNIVNELHDEKIDIVRWDEDPAIYIANALSPAKVVSVSVWDE 304

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
                VIVP  QLSLAIG+ GQN RLA++LT W IDI +E + +
Sbjct: 305 ERSSYVIVPDYQLSLAIGKAGQNARLANKLTNWKIDIKSESQAA 348


>gi|73662811|ref|YP_301592.1| transcription elongation factor NusA [Staphylococcus saprophyticus
           subsp. saprophyticus ATCC 15305]
 gi|72495326|dbj|BAE18647.1| transcription termination-antitermination factor [Staphylococcus
           saprophyticus subsp. saprophyticus ATCC 15305]
          Length = 397

 Score =  446 bits (1147), Expect = e-123,   Method: Composition-based stats.
 Identities = 157/405 (38%), Positives = 245/405 (60%), Gaps = 11/405 (2%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +S+N  ELL   + +  EK I R+V++  +  ++  A +  Y +   +RVE+N + G   
Sbjct: 1   MSSN--ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARTVRVELNMDQGSFK 58

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +    EVVEE  +   +ISL  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q+
Sbjct: 59  VIARKEVVEESMDDREEISLDTALVKNPAYEIGDIYEEDVTPSDFGRVGAQAAKQAVMQR 118

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+  Y EF DK  +I++G + RV++  V V+LG ++ V+   E    E+  P +R
Sbjct: 119 LRDAEREILYDEFIDKEDDIVTGLIDRVDHRYVYVNLGRTEAVLSEAERSPNESYIPNER 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ Y+  V +  +GPQ+ +SR+HP  + +LF  EVPEI++G V VK+V+R+ G R+K++V
Sbjct: 179 IRVYVNKVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIFDGTVIVKSVAREAGDRSKISV 238

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S +  ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++
Sbjct: 239 HSDNPDIDAVGACVGAKGARVEAVVEELGGEKIDIVQWNEDPKVFVKNALSPSQVLQVIV 298

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE      V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +               
Sbjct: 299 DEPNQSTVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDARAAGVYPAE----- 353

Query: 362 FMQAINVDEIIA--HLLVAEGFADVEELACVKISEIASIEGFDEE 404
             +A+N ++ +    ++ +E     E+    + +E   IE  D E
Sbjct: 354 --EALNEEDEMQLDDVVSSENIEVEEDTTESQPTETVEIEDEDAE 396


>gi|150016083|ref|YP_001308337.1| transcription elongation factor NusA [Clostridium beijerinckii
           NCIMB 8052]
 gi|149902548|gb|ABR33381.1| NusA antitermination factor [Clostridium beijerinckii NCIMB 8052]
          Length = 398

 Score =  446 bits (1147), Expect = e-123,   Method: Composition-based stats.
 Identities = 155/402 (38%), Positives = 249/402 (61%), Gaps = 9/402 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM----SDIRVEINPETGDIS 61
             E +     +  EK I  D++ + + D++  A +  Y        +++V I+ ETG+I 
Sbjct: 2   NEEFVGALKELVKEKGICEDLLFTTIQDAMVAAYKKNYANANTNAQNVKVNIDRETGEIH 61

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++    VV+EV +   +ISL+ A++ +P  ++  ++S  + P +FGRVA Q AKQV+ Q+
Sbjct: 62  VYAQKTVVDEVYDDVTEISLEEAKELNPKSEVDDIISLEVTPKNFGRVAAQLAKQVVTQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++EAER   Y E+K+K  +II+GT+ R + G V V+LG  +G+I  +E I  E  +  ++
Sbjct: 122 IKEAERTIIYDEYKEKEFDIITGTILRKDKGIVFVNLGKLEGIIGPNEQIPNEEYKFNEK 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K YI +V+   +GPQ+ +SRTHP  + +LF +EVPEI+ G+V++K++SR+ GSR+K+AV
Sbjct: 182 LKLYIVEVKNGNKGPQIHVSRTHPGLVKRLFELEVPEIFEGVVEIKSISREAGSRSKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S+D  +DP+GACVG +G RVQ++V EL++EKIDI+ WS +   F+ N+L PA V  V +
Sbjct: 242 YSNDEEVDPMGACVGPKGVRVQSIVNELKNEKIDIIKWSKNPEEFIANSLSPAKVLSVAV 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+    +V+V   QLSLAIG+ GQNVRLA++LT W IDI ++ +    + ++       
Sbjct: 302 DENNKSAKVVVDDNQLSLAIGKEGQNVRLAAKLTNWKIDIKSKSQ-KEAQDEEDERILNT 360

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
            ++  N  E    L   E F D+E      I E  S+E   E
Sbjct: 361 EVEIEN--EQTTDLNELEIFDDIE--VDDSIDEETSMEEIQE 398


>gi|309389230|gb|ADO77110.1| NusA antitermination factor [Halanaerobium praevalens DSM 2228]
          Length = 408

 Score =  446 bits (1147), Expect = e-123,   Method: Composition-based stats.
 Identities = 155/417 (37%), Positives = 255/417 (61%), Gaps = 14/417 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            +E +Q  D +  +K I ++V+L  +  ++  A +  +G+  ++R+EI+ E G++ +F  
Sbjct: 2   NIEFIQALDDIEKDKGISKEVLLDAIETALVSAYKKDFGSKDNVRIEISAEAGEVKVFSR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEVEN   +ISL  A + D    IG +V   + P +FGR+A Q+AKQV++Q++REA
Sbjct: 62  KEVVEEVENKNSEISLIEAENIDSKYTIGDIVEIEVTPANFGRIAAQTAKQVVMQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ERD  + ++K+K  E+I+GT++R    N+++D+G ++ ++   E I+ E    G+R+K Y
Sbjct: 122 ERDVIFDQYKEKEDELITGTIQRFHNDNILIDMGKTEALLPPSEQIAGERYEIGERIKLY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V    +GP++L+SRTHP  + +LF +EVPEI+ G+V++K V+R+ G R+K+AV S++
Sbjct: 182 VVEVSTTNKGPRILVSRTHPGLLKRLFEIEVPEIFQGLVEIKEVAREAGQRSKMAVSSTE 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVG+CVG +G RVQAVV +L +EKIDIV W  D   FV NAL PA V  V +++  
Sbjct: 242 KQVDPVGSCVGPKGMRVQAVVDQLNNEKIDIVKWDEDPEVFVANALNPAEVISVDINKSE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE-DSINRQKDFNERTQFFMQ 364
               V+VP  QLSLAIG+ GQN RLA++LTGW +DI  E E ++   +K   +      +
Sbjct: 302 KIARVVVPDFQLSLAIGKEGQNARLAAKLTGWKVDIKKESEIEAEIEKKKIEKNASELAK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           +++  E                 A ++   + + E  +E    +++    E  E ++
Sbjct: 362 SLDKFEENIE-------------AEMETDNLEAAEKVNENLIDKMENDLDEQTEDLE 405


>gi|225374838|ref|ZP_03752059.1| hypothetical protein ROSEINA2194_00459 [Roseburia inulinivorans DSM
           16841]
 gi|225213299|gb|EEG95653.1| hypothetical protein ROSEINA2194_00459 [Roseburia inulinivorans DSM
           16841]
          Length = 390

 Score =  445 bits (1146), Expect = e-123,   Method: Composition-based stats.
 Identities = 144/348 (41%), Positives = 230/348 (66%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           + A   ELL+  + +  EK+I ++ +L  + +S+  A ++ +G   +++V I+PET +  
Sbjct: 5   IMAKNNELLEALNILEQEKNISKETLLEAIENSLITACKNHFGKSENVKVNIDPETCEYH 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +F+  +VVE+VE+   +ISL  A+  D   ++  +V+  +   +FGR+A Q+AK VI+QK
Sbjct: 65  VFQEKKVVEKVEDPVEEISLVNAKMIDSKYELDDIVNVEVKSKEFGRIATQNAKNVILQK 124

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +RE ER   + E+  K  +I++G V+R    NV ++LG  D ++  +E +  E  +P +R
Sbjct: 125 IREEERKVLFDEYYSKEKDIVTGIVQRYVGKNVSINLGKVDAILTENEQVKGEVFQPTER 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K YI +V+   +GP+VL+SRTHP+ + +LF  EV E+ +G V++KA++R+ GSR K+AV
Sbjct: 185 IKVYILEVKSTSKGPRVLVSRTHPELVKRLFESEVAEVKDGTVEIKAIAREAGSRTKIAV 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S+D  +DPVGACVGM G+RV A+V ELR EKIDI+ W+ + A  + NAL PA V  V+ 
Sbjct: 245 WSNDPDVDPVGACVGMNGARVNAIVNELRGEKIDIITWNENPAMLIENALSPAKVISVIA 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           D +    +V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E +   
Sbjct: 305 DAEEKAAKVVVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSETQARE 352


>gi|116492653|ref|YP_804388.1| transcription elongation factor [Pediococcus pentosaceus ATCC
           25745]
 gi|116102803|gb|ABJ67946.1| Transcription elongation factor [Pediococcus pentosaceus ATCC
           25745]
          Length = 362

 Score =  445 bits (1145), Expect = e-122,   Method: Composition-based stats.
 Identities = 137/343 (39%), Positives = 207/343 (60%), Gaps = 1/343 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E++   D +  EK I ++V++  +  ++  A +  YG   ++ VE N   GDI ++ +
Sbjct: 2   SKEMITALDILEKEKGIKKEVIVEALEAALVSAFKRNYGQAQNVEVEFNDRKGDIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            +VVEEVE+   ++SL  A   + + ++   +   + P +FGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KKVVEEVEDDQLEVSLADALMINRAYELDDEIRFEVTPKNFGRIAAQTAKQVIMQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y ++     EI++G V   +   V VDLG  + V+ + + I  E   P D +K Y
Sbjct: 122 ERGVIYEKYGQYEDEIVTGEVSHRDNRYVYVDLGGVEAVMAKSDQIPGEQYEPHDHIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V    +GPQ+  SRT    + +LF  EVPE+Y+G V++ +++R+ G RAK+AV S+D
Sbjct: 182 ITKVENNGKGPQIFASRTDSGLLKRLFEQEVPEVYDGTVEIMSIAREAGDRAKIAVRSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD-ED 304
             ID VG CVG +G RVQ +V EL  E +DI+ W  D A ++ NAL+P+ V  V+ + ED
Sbjct: 242 PDIDAVGTCVGAKGQRVQTIVNELHGENMDIIEWKEDPAEYIANALKPSEVIDVLFNEED 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
                VIVP  QLSLAIGRRGQN RLA++L  + IDI +E + 
Sbjct: 302 ENYCMVIVPDYQLSLAIGRRGQNARLAAKLVNFKIDIKSETDA 344


>gi|255284074|ref|ZP_05348629.1| transcription termination factor NusA [Bryantella formatexigens DSM
           14469]
 gi|255265419|gb|EET58624.1| transcription termination factor NusA [Bryantella formatexigens DSM
           14469]
          Length = 427

 Score =  445 bits (1145), Expect = e-122,   Method: Composition-based stats.
 Identities = 145/344 (42%), Positives = 225/344 (65%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL++  D +  EK+I ++V+L  +  S+ +A ++ +G   +++V+INP+T + S+   
Sbjct: 2   NNELMEALDVLEKEKNISKEVLLEAIEQSLLQACKNHFGKADNVKVDINPDTCEFSVHAE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEVE+   +ISL  A+ +D   ++G VV+  +   +FGR+A Q+AK VI+QK+RE 
Sbjct: 62  KTVVEEVEDPVTEISLVDAKMKDSRYEVGDVVNVEIKSKEFGRIATQNAKNVILQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y E+  K  E+++G V+R    NV ++LG  D ++  +E +  E  RP +R+K Y
Sbjct: 122 ERKVLYNEYYSKEREVVTGIVQRYLGRNVSINLGKVDAILNENEMVKGETFRPTERIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V+   +GP+VL+SRTHP+ + +LF  EV E+ +G V++K ++R+ G+R K+AV+S+D
Sbjct: 182 VLEVKDTPKGPKVLVSRTHPELVKRLFESEVTEVRDGTVEIKCIAREAGNRTKMAVWSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +D VGACVG+ GSRV  +V ELR EKIDI+ W  + A  + NAL PA V  V  D D 
Sbjct: 242 PDVDAVGACVGINGSRVNTIVEELRGEKIDIINWDENPALLIENALSPAKVIYVAADNDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
              +V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E +   
Sbjct: 302 KTAKVVVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSETQAIE 345


>gi|28210959|ref|NP_781903.1| transcription elongation factor NusA [Clostridium tetani E88]
 gi|28203398|gb|AAO35840.1| N utilization substance protein A [Clostridium tetani E88]
          Length = 361

 Score =  444 bits (1144), Expect = e-122,   Method: Composition-based stats.
 Identities = 146/345 (42%), Positives = 222/345 (64%), Gaps = 4/345 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG----TMSDIRVEINPETGDIS 61
             E +     +  EK I  +++ + + D++  A +  Y     T   + V +N ETG+I 
Sbjct: 2   NEEFIVALKEIVKEKGISAELLFNTIEDALVAAYKKNYSKQGATSQHVNVSMNRETGEIH 61

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++    VVEEVE+   +I ++ A+  DP  ++  +V   + P  FGRVA Q+AKQV++Q+
Sbjct: 62  VYSRKNVVEEVEDEFNEIFVEDAKTIDPRYELEDIVDIEVTPEKFGRVAAQAAKQVVVQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++E ER   Y EF +K  +II+G V R +  NV ++LG  + V+  +E +  E     D+
Sbjct: 122 IKEEERRIVYNEFIEKECDIITGNVIRKDKTNVFINLGKIEAVLGPNEQMPGEEYNFNDK 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K YI +V+   +G QV++SRTHP  + +LF +EVPEIYNGIV++K++SR+ GSR K+AV
Sbjct: 182 LKLYIVEVKNTTKGAQVVVSRTHPGLVKRLFELEVPEIYNGIVEIKSISREAGSRTKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+D ++D +GACVG +G+RVQ +V EL++EKIDI+ WS     F+ NAL PA V KV +
Sbjct: 242 HSNDENVDSMGACVGPKGTRVQNIVNELKNEKIDIIKWSKLPDEFISNALSPARVLKVDV 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           DE+    +V+V   QLSLAIG+ GQNVRLA++LTGW IDI +  +
Sbjct: 302 DEESKSAKVLVEDNQLSLAIGKEGQNVRLAAKLTGWKIDIKSLSQ 346


>gi|58337537|ref|YP_194122.1| transcription elongation factor NusA [Lactobacillus acidophilus
           NCFM]
 gi|58254854|gb|AAV43091.1| transcription termination-antitermination factor [Lactobacillus
           acidophilus NCFM]
          Length = 389

 Score =  444 bits (1144), Expect = e-122,   Method: Composition-based stats.
 Identities = 137/391 (35%), Positives = 225/391 (57%), Gaps = 5/391 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +   K I++DV++  +  ++  A +  Y    ++ V+ +   G+  +  +
Sbjct: 2   SKEMLEAFATLEKNKGIEQDVIVDAIKAALVAAYKKNYNQAQNVEVDFDERKGNFKVMAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   ++SLK A   + + ++G  +   + P +FGR+A Q+AKQVI+Q++REA
Sbjct: 62  KTVVDEVQDDRLEVSLKDALAINRAYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+    E+     E+++GTV+R +   V V +GN + V+   + +  E   P D+++  
Sbjct: 122 ERNHIIDEYSQYEDELVTGTVERRDNRFVYVKIGNVEAVMPHRDQMPNEVYNPQDQIRVL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+ +SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D
Sbjct: 182 VTHVGSDSKGAQITVSRTAPDMVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVKSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DE 303
            +IDPVG CVG +G+RVQ VV EL  E IDIV +  D + ++ NAL PA V  V    DE
Sbjct: 242 PNIDPVGTCVGQKGARVQNVVNELGGENIDIVKYEEDPSDYIANALNPAEVIAVQFGEDE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           +     VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E     +K  +  ++   
Sbjct: 302 EEKSALVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESEVEFVDEKSTDSVSK--- 358

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISE 394
           +  +  E +     +      EE +     E
Sbjct: 359 EDTDSSEDVVSTEESTADVTTEEKSEDNTEE 389


>gi|291538564|emb|CBL11675.1| transcription termination factor NusA [Roseburia intestinalis
           XB6B4]
          Length = 407

 Score =  444 bits (1143), Expect = e-122,   Method: Composition-based stats.
 Identities = 145/344 (42%), Positives = 226/344 (65%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL+  + +  EK+I +D +L  + +S+  A ++ +G+  +++V I+PET +  +F+ 
Sbjct: 3   NNELLEALNILEQEKNISKDTLLEAIENSLVTACKNHFGSSDNVKVSIDPETCEFHVFQE 62

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE VE+   QISL  A+  +   +IG V +  +   +FGR+A Q+AK VI+QK+RE 
Sbjct: 63  KTVVETVEDPVEQISLVNAKMINSKYEIGDVANIEVQSKEFGRIATQNAKNVILQKIREE 122

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y ++     ++++G V+R    NV ++LG  D ++  +E +  E  +P +R+K Y
Sbjct: 123 ERKVLYDQYYSMEKDVVTGVVQRYVGRNVSINLGRVDAILTENEQVKGEVFQPTERIKVY 182

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V+   +GP+VL+SRTHP+ + +LF  EV E+  GIV++KA++R+ GSR K+AV+S+D
Sbjct: 183 ILEVKATSKGPKVLVSRTHPELVKRLFESEVAEVREGIVEIKAIAREAGSRTKIAVWSND 242

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVGM G+RV A+V ELR EKIDI+ W+ + A  + NAL PA V  V+ D + 
Sbjct: 243 PDVDPVGACVGMNGARVNAIVGELRGEKIDIITWNENPAMMIENALSPAKVISVIADAEE 302

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
              +V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E +   
Sbjct: 303 KSAKVVVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSETQARE 346


>gi|270290314|ref|ZP_06196539.1| transcription termination factor NusA [Pediococcus acidilactici
           7_4]
 gi|270281095|gb|EFA26928.1| transcription termination factor NusA [Pediococcus acidilactici
           7_4]
          Length = 388

 Score =  444 bits (1143), Expect = e-122,   Method: Composition-based stats.
 Identities = 138/343 (40%), Positives = 210/343 (61%), Gaps = 1/343 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E++     +  EK I + VV+  +  ++  A +  YG   ++ VE N   GDI ++ +
Sbjct: 2   SKEMVTALANLEKEKGIKQSVVIEALEAALVSAYKRNYGQAQNVEVEFNERKGDIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            +VVEEVE+   Q+SL  A   + + ++   +   + P +FGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KKVVEEVEDDQLQVSLADALQINRAYELDDEIRFEVTPKNFGRIAAQTAKQVIMQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  Y ++   + E+++G V R +   V VDLG  + V+ + + I  E   P D +K Y
Sbjct: 122 EREVIYEKYSQYLDEMVTGEVVRRDNRYVYVDLGGVEAVMSKQDQIPGEQYEPHDHIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    RGPQ+ +SR+H   + +LF  E+PEIY+G V++ +V+R+ G RAK+AV S++
Sbjct: 182 VTKVEYSGRGPQIFVSRSHEGLLKRLFEQEIPEIYDGTVEIMSVAREAGDRAKVAVRSNN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD-ED 304
             ID VG CVG RG R+Q +V EL  E +D++ W  D A F+ NAL PA V  V+ + E+
Sbjct: 242 PDIDAVGTCVGPRGQRIQTIVNELHGENMDVIEWEDDDAEFISNALNPAEVIDVLFNEEE 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
                VIVP  QLSLAIG+RGQN RLA++LT + IDI +E + 
Sbjct: 302 ENSCIVIVPDYQLSLAIGKRGQNARLAAKLTNYKIDIKSETDA 344


>gi|304384867|ref|ZP_07367213.1| transcription termination factor NusA [Pediococcus acidilactici DSM
           20284]
 gi|304329061|gb|EFL96281.1| transcription termination factor NusA [Pediococcus acidilactici DSM
           20284]
          Length = 388

 Score =  444 bits (1143), Expect = e-122,   Method: Composition-based stats.
 Identities = 138/343 (40%), Positives = 210/343 (61%), Gaps = 1/343 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E++     +  EK I + VV+  +  ++  A +  YG   ++ VE N   GDI ++ +
Sbjct: 2   SKEMVTALANLEKEKGIKQSVVIEALEAALVSAYKRNYGQAQNVEVEFNERKGDIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            +VVEEVE+   Q+SL  A   + + ++   +   + P +FGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KKVVEEVEDDQLQVSLADALQINRAYELDDEIRFEVTPKNFGRIAAQTAKQVIMQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  Y ++   + E+++G V R +   V VDLG  + V+ + + I  E   P D +K Y
Sbjct: 122 EREVIYEKYSQYLDEMVTGEVARRDNRYVYVDLGGVEAVMSKQDQIPGEQYEPHDHIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    RGPQ+ +SR+H   + +LF  E+PEIY+G V++ +V+R+ G RAK+AV S++
Sbjct: 182 VTKVEYSGRGPQIFVSRSHEGLLKRLFEQEIPEIYDGTVEIMSVAREAGDRAKVAVRSNN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD-ED 304
             ID VG CVG RG R+Q +V EL  E +D++ W  D A F+ NAL PA V  V+ + E+
Sbjct: 242 PDIDAVGTCVGPRGQRIQTIVNELHGENMDVIEWEDDDAEFISNALNPAEVIDVLFNEEE 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
                VIVP  QLSLAIG+RGQN RLA++LT + IDI +E + 
Sbjct: 302 ENSCIVIVPDYQLSLAIGKRGQNARLAAKLTNYKIDIKSETDA 344


>gi|328465727|gb|EGF36931.1| transcription elongation factor NusA [Lactobacillus helveticus MTCC
           5463]
          Length = 405

 Score =  444 bits (1143), Expect = e-122,   Method: Composition-based stats.
 Identities = 137/391 (35%), Positives = 221/391 (56%), Gaps = 10/391 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +   K I +DV++  +  ++  A +  Y    ++ V+ +   G+  +  +
Sbjct: 14  SKEMLEAFATLEKTKGIKQDVIVDAIKAALVAAYKKNYNQAQNVEVDFDERRGNFKVMAV 73

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   ++SLK A   +   ++G  +   + P +FGR+A Q+AKQVI+Q++REA
Sbjct: 74  KTVVDEVQDDRLEVSLKDALAINRGYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLREA 133

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER     E+     E+++GTV+R +   V V +GN + ++ + + +  E   P D+++  
Sbjct: 134 ERSHIIDEYSQYEDELVTGTVERRDNRFVYVKIGNVEAIMPQCDQMPNEVYNPQDQIRVL 193

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+++SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D
Sbjct: 194 VTHVGSDSKGAQIVVSRTAPDVVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVKSND 253

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DE 303
            +IDPVG CVG +G+RVQ VV EL  E ID+V +  D + F+ NAL PA V  V    DE
Sbjct: 254 PNIDPVGTCVGQKGARVQNVVNELGGENIDVVKYEEDPSDFIANALNPAEVIAVQFGDDE 313

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           +     VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E     +K  +       
Sbjct: 314 EEKSALVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESEVEFVDEKSDDSAKS--- 370

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISE 394
                 E  A    +      +E   V+  E
Sbjct: 371 -----TETTAEEDSSADIDTADEDTTVQAEE 396


>gi|242373557|ref|ZP_04819131.1| transcription elongation factor NusA [Staphylococcus epidermidis
           M23864:W1]
 gi|242348920|gb|EES40522.1| transcription elongation factor NusA [Staphylococcus epidermidis
           M23864:W1]
          Length = 403

 Score =  444 bits (1142), Expect = e-122,   Method: Composition-based stats.
 Identities = 159/393 (40%), Positives = 240/393 (61%), Gaps = 14/393 (3%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +S+N  ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   
Sbjct: 1   MSSN--ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGSFR 58

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +    EVVEEV +   ++ L  A  ++P+ ++G +  + + P DFGRV  Q+AKQ ++Q+
Sbjct: 59  VIARKEVVEEVFDDREEVDLSTALVKNPAYEVGDIYEEDVTPKDFGRVGAQAAKQAVMQR 118

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E+  P +R
Sbjct: 119 LRDAEREILYDEFIDKEEDILTGVIDRVDHRYVYVNLGRIEAVLSEAERSPNESYIPNER 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V
Sbjct: 179 IKVYVNKVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISV 238

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S +  ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++
Sbjct: 239 YSENPDIDAVGACVGSKGARVEAVVEELGGEKIDIVQWNEDPKVFVRNALSPSQVLEVIV 298

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DED     V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +          E    
Sbjct: 299 DEDNQSTVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDAREAGIYPIIE---- 354

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISE 394
                   E +A  +V  G  DVE    V + E
Sbjct: 355 -------SEEVADEIVNTGDEDVE-FDDVNLEE 379


>gi|331082958|ref|ZP_08332078.1| transcription termination factor NusA [Lachnospiraceae bacterium
           6_1_63FAA]
 gi|330399953|gb|EGG79611.1| transcription termination factor NusA [Lachnospiraceae bacterium
           6_1_63FAA]
          Length = 384

 Score =  444 bits (1142), Expect = e-122,   Method: Composition-based stats.
 Identities = 144/344 (41%), Positives = 222/344 (64%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL+  + +  EKSI +D +L  +  S+ +A ++ +G   +I+V INPET D  +   
Sbjct: 2   NTELLEALNILEKEKSISKDTLLEAIEQSLIQACKNHFGKADNIKVNINPETCDFGVLAE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV +   +ISL  A+  +    +G +V+  +   +FGR+A Q+AK VI+QK+RE 
Sbjct: 62  KTVVEEVYDPVTEISLADAKMMNSQYGLGDIVNVEIKSKEFGRIATQNAKNVILQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   + ++  K  ++++G V+R    N  ++LG +D ++  +E +  E  +P +R+K Y
Sbjct: 122 ERKVIFDQYYGKEKDVVTGIVQRSLGRNYSINLGKADAILTENEQVKTEVFKPTERIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V+   +GP++++SRTHP+ + +LF  EV EI +G V+VK+++R+ GSR K+AV+S+D
Sbjct: 182 ILEVKDAPKGPKIMVSRTHPELVKRLFEAEVTEIKDGTVEVKSIAREAGSRTKIAVWSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG+ G+RV +VV ELR EKIDI+ WS + A  + NAL PA V  V  D + 
Sbjct: 242 PDVDPVGACVGINGARVNSVVEELRGEKIDIINWSDNPALLIENALSPAKVISVTADPEE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
               VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E +   
Sbjct: 302 KSATVIVPDFQLSLAIGKEGQNARLAARLTGFKIDIKSETQARE 345


>gi|256851259|ref|ZP_05556648.1| transcription termination factor NusA [Lactobacillus jensenii
           27-2-CHN]
 gi|260660683|ref|ZP_05861598.1| transcription termination factor NusA [Lactobacillus jensenii
           115-3-CHN]
 gi|282934727|ref|ZP_06339970.1| transcription termination factor NusA [Lactobacillus jensenii
           208-1]
 gi|297206126|ref|ZP_06923521.1| transcription termination factor NusA [Lactobacillus jensenii
           JV-V16]
 gi|256616321|gb|EEU21509.1| transcription termination factor NusA [Lactobacillus jensenii
           27-2-CHN]
 gi|260548405|gb|EEX24380.1| transcription termination factor NusA [Lactobacillus jensenii
           115-3-CHN]
 gi|281301302|gb|EFA93603.1| transcription termination factor NusA [Lactobacillus jensenii
           208-1]
 gi|297149252|gb|EFH29550.1| transcription termination factor NusA [Lactobacillus jensenii
           JV-V16]
          Length = 368

 Score =  444 bits (1142), Expect = e-122,   Method: Composition-based stats.
 Identities = 131/342 (38%), Positives = 210/342 (61%), Gaps = 2/342 (0%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
            E+L+    +  EK I +++++  +  ++  A +  Y    ++ V+++   G+  +  + 
Sbjct: 3   KEMLEAFATLETEKGIKQEIIVDAIKAALVAAYKKNYNQAQNVEVDLDERKGNFKVMAIK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VV+EV++   ++SLK A + + + ++G  +   + P DFGR++ Q+AKQVI+Q++REAE
Sbjct: 63  TVVDEVQDDRLEVSLKDALEINKAYEVGDEIKFEVTPKDFGRISAQTAKQVIMQRLREAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R+    E+     E+++G V+R +   V V +   + V+ R + +  E   P D+++  +
Sbjct: 123 RNHIVSEYSQYQDELVTGVVERHDNRFVYVMIDKVEAVMPRGDQMPNEVYNPQDKIRVLV 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V  + +G Q+++SRT P  + +LF  EVPE+Y+G VQ+ +V+R+ G R K+AV S D 
Sbjct: 183 TKVGNDTKGAQIVVSRTAPDMVKRLFEQEVPEVYDGTVQIVSVAREAGDRTKIAVKSDDP 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DED 304
           +IDPVG CVG +G+RVQ VV EL  E IDIV +  D A F+ NAL PA V       DED
Sbjct: 243 NIDPVGTCVGPKGARVQNVVNELGGENIDIVKYEDDPADFIANALNPAEVIAAQFGEDED 302

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
                VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E +
Sbjct: 303 EKSALVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESQ 344


>gi|162454076|ref|YP_001616443.1| N utilization substance protein A [Sorangium cellulosum 'So ce 56']
 gi|161164658|emb|CAN95963.1| N utilization substance protein A [Sorangium cellulosum 'So ce 56']
          Length = 547

 Score =  444 bits (1142), Expect = e-122,   Method: Composition-based stats.
 Identities = 203/491 (41%), Positives = 296/491 (60%), Gaps = 35/491 (7%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           I D VA EK ID+ +++  +  +I KAA+S++G   ++    N +TG I LF+ + VVE 
Sbjct: 17  ILDQVAKEKGIDKKILVETIEAAILKAAQSVFGPTRELEARFNEDTGQIDLFQYMTVVEA 76

Query: 72  VENYTCQISLKVA-------------------------RDRDPSIDIGGVVSDPLPPMDF 106
           V     +IS+                            + RD   + G ++        F
Sbjct: 77  VTEPEREISITDVDKLKLDATLGEELGFQVFWRPEDAEKARDQDKEYGDILKLKHGRTTF 136

Query: 107 GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-VIVDLGNSDGVI 165
           GR+A Q+AKQV++Q+VR+AERD  + E+KD+ GE+I G V+R E GN +IVD+G ++GV+
Sbjct: 137 GRIAAQTAKQVLLQRVRDAERDLIFNEYKDRKGELIRGIVRRFEKGNNIIVDIGRTEGVL 196

Query: 166 RRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
              E   RE  RPGDR+ +Y+ D+ RE RGPQV+LSR+ P+ + KLF  EVPEIY GIV+
Sbjct: 197 TFREQTPRETYRPGDRIVAYVKDIDREARGPQVILSRSDPRLVEKLFEAEVPEIYEGIVR 256

Query: 226 VKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSAT 285
           + +V+R+PG+R+K+AV S D+ +DPVGACVGM+GSRVQAVV ELR EKIDIV +  D A 
Sbjct: 257 IVSVAREPGARSKIAVTSRDADVDPVGACVGMKGSRVQAVVQELRGEKIDIVPFDRDPAR 316

Query: 286 FVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +VI A++PA V KV++DE  GR+E++VP E+LSLAIGR+GQNVRLA+QLT W +DII+E 
Sbjct: 317 YVIAAIQPAEVHKVIVDEADGRMELVVPDEKLSLAIGRKGQNVRLAAQLTNWKLDIISET 376

Query: 346 EDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE-E 404
           +     ++  +   Q  +    V E IA  +   GF  +EE++   + E+A+I G    E
Sbjct: 377 KFKQMEEEAISALQQMDV----VTEQIAKSMYRLGFRALEEVSEASVEELAAIPGLGGVE 432

Query: 405 TAVEIQGRAREYLEGIDITLQK----KIRELGVSEELCSIPGIDSKIKVALGENGIKTME 460
            A  I+ +A   +E +     +    +   L   E L  I G+  +  V L E G +++E
Sbjct: 433 AADRIKSQADTTMERLRQERIRSASSRTEPLTDRERLMFIRGVGDRTVVLLEEAGYRSVE 492

Query: 461 DLAGCSVDDLL 471
           D+     D L 
Sbjct: 493 DVLREDEDRLA 503


>gi|149925033|ref|ZP_01913351.1| transcription termination factor NusA [Plesiocystis pacifica SIR-1]
 gi|149814097|gb|EDM73723.1| transcription termination factor NusA [Plesiocystis pacifica SIR-1]
          Length = 461

 Score =  443 bits (1141), Expect = e-122,   Method: Composition-based stats.
 Identities = 179/438 (40%), Positives = 271/438 (61%), Gaps = 32/438 (7%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            + L  + DAV  EK+I RDV++  +  ++  AA+ ++    +I    + ETG+++LF++
Sbjct: 4   NVNLSTVIDAVCQEKNISRDVLVDTVEQAVATAAKRVF-ADREIEASFDLETGNVNLFQV 62

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMD-------------------- 105
           L VVE VE    ++S+  AR      +IG  +   +  ++                    
Sbjct: 63  LYVVETVELPMREMSIDQARRSGLEAEIGDELLFQIFYLEDDRKQAEDQAKQYPEIPALQ 122

Query: 106 -----FGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-- 158
                FGR+A Q+AKQVIIQ+VREAER+  Y  +KDK GE+++G V+R E G+++V++  
Sbjct: 123 KVNTAFGRIAAQTAKQVIIQRVREAERENLYDRYKDKKGELMTGIVRRFERGSIVVEVDN 182

Query: 159 GNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPE 218
           G ++ ++   + + RE+LRPGDR+ +++ DV +  RGPQ++LSRTH   + KLF  EVPE
Sbjct: 183 GRAEAILPSRDQVPRESLRPGDRIVAFVKDVDKSARGPQIILSRTHKGLVEKLFEHEVPE 242

Query: 219 IYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           I+ GIV+++A +R+PG+R+K+AV S D  +DPVGACVGMRGSRVQAVV ELR EKIDIV 
Sbjct: 243 IFEGIVRIEACAREPGARSKIAVSSRDRDVDPVGACVGMRGSRVQAVVQELRGEKIDIVP 302

Query: 279 WSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
           +  D A FV NA++PA V++V++D +   +E++VP ++LSLAIG+RGQNVRLAS+LTGW 
Sbjct: 303 FDEDPARFVCNAIQPAQVSRVLIDAERHTMELVVPDDKLSLAIGKRGQNVRLASRLTGWR 362

Query: 339 IDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASI 398
           IDI +  +     ++   E          V   +A  L   G+  + +LA   + E+AS+
Sbjct: 363 IDIHSRSKIRQMERRSQAEIAA----IPGVGHELAAQLFDLGWRTLRDLAVANMEELASV 418

Query: 399 EGFDEETAVEIQGRAREY 416
            G D + A  I   A E 
Sbjct: 419 IGGDLDAADAIIDTANEA 436


>gi|260101365|ref|ZP_05751602.1| N utilization substance protein A [Lactobacillus helveticus DSM
           20075]
 gi|260084817|gb|EEW68937.1| N utilization substance protein A [Lactobacillus helveticus DSM
           20075]
          Length = 364

 Score =  443 bits (1141), Expect = e-122,   Method: Composition-based stats.
 Identities = 131/353 (37%), Positives = 212/353 (60%), Gaps = 2/353 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +   K I +DV++  +  ++  A +  Y    ++ V+ +   G+  +  +
Sbjct: 12  SKEMLEAFATLEKTKGIKQDVIVDAIKAALVAAYKKNYNQAQNVEVDFDERRGNFKVMAV 71

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   ++SLK A   +   ++G  +   + P +FGR+A Q+AKQVI+Q++REA
Sbjct: 72  KTVVDEVQDDRLEVSLKDALAINRGYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLREA 131

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER     E+     E+++G V+R +   V V +GN + ++ + + +  E   P D+++  
Sbjct: 132 ERSHIIDEYSQYEDELVTGPVERRDNRFVYVKIGNVEAIMPQCDQMPNEVYNPQDQIRVL 191

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+++SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D
Sbjct: 192 VTHVGSDSKGAQIVVSRTAPDVVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVKSND 251

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DE 303
            +IDPVG CVG +G+RVQ VV EL  E ID+V +  D + F+ NAL PA V  V    DE
Sbjct: 252 PNIDPVGTCVGQKGARVQNVVNELGGENIDVVKYEEDPSDFIANALNPAEVIAVQFGDDE 311

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN 356
           +     VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E     +K  +
Sbjct: 312 EEKSALVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESEVEFVDEKSDD 364


>gi|166030876|ref|ZP_02233705.1| hypothetical protein DORFOR_00556 [Dorea formicigenerans ATCC
           27755]
 gi|166029143|gb|EDR47900.1| hypothetical protein DORFOR_00556 [Dorea formicigenerans ATCC
           27755]
          Length = 401

 Score =  443 bits (1140), Expect = e-122,   Method: Composition-based stats.
 Identities = 147/344 (42%), Positives = 225/344 (65%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL+  + +  EK I ++ +L  + +S+  A ++ +G   +I+V ++ +T D  LF  
Sbjct: 2   NTELLEALNILEKEKEISKETLLDAIENSLLNACKNHFGKADNIKVIMDHDTCDYQLFAE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE VE+   QISL  A   D   D+G +V  P+    FGR+A Q+AK +I+QK+RE 
Sbjct: 62  KTVVETVEDPLEQISLDEASQLDGHYDLGDIVRVPIESKSFGRIATQNAKNLILQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y ++ +K  +I++G V+R    NV ++LG +D ++  +E +  E  +P +R+K Y
Sbjct: 122 ERKVVYDQYFEKEKDIVTGIVQRYVGKNVSINLGKADAMLTENEQVKGEVFKPTERIKLY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V+   +GP++L+SRTHP+ + +LF  EV E+ +GIV++K+++R+ GSR K+AV+S+D
Sbjct: 182 VVEVKNTTKGPKILVSRTHPELVKRLFESEVTEVRDGIVEIKSIAREAGSRTKIAVWSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVGM G+RV A+V ELR EKIDI+ WS + A  + NAL PA V  V+ D D 
Sbjct: 242 PDVDPVGACVGMNGARVNAIVNELRGEKIDIINWSDNPAILIENALSPAKVISVMADPDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
            +  VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E +   
Sbjct: 302 KKASVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSETQAIE 345


>gi|283797337|ref|ZP_06346490.1| transcription termination factor NusA [Clostridium sp. M62/1]
 gi|291075009|gb|EFE12373.1| transcription termination factor NusA [Clostridium sp. M62/1]
 gi|295090489|emb|CBK76596.1| transcription termination factor NusA [Clostridium cf.
           saccharolyticum K10]
          Length = 408

 Score =  443 bits (1140), Expect = e-122,   Method: Composition-based stats.
 Identities = 139/363 (38%), Positives = 223/363 (61%), Gaps = 2/363 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL +  + +  E +I ++V+   + +S+  A ++ +G   +I+V I+ E  D +++  
Sbjct: 2   SKELFEALNVLEKENNISKEVLFEAIENSLLTACKNHFGRADNIKVYIDREKCDFAVYAE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVE VE+   Q+SL  A+  DP    G +V   +   +FGR+A Q+AK VI+QK+RE 
Sbjct: 62  KEVVENVEDPLTQVSLAEAKLMDPRHVYGDIVRVNINSKEFGRIATQNAKNVILQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   +  +  +  ++++G V+R    +V +DLG  D V++  E +  E  +P   +K +
Sbjct: 122 ERTALFDHWYCREKDVVTGIVQRYVGHDVYIDLGKIDAVLKESEQVKGEEFKPTQHIKLF 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V+  ++GP++ +SRTHP  + +LF  EV E+ +G V++KA++R+ GSR K+AV S+D
Sbjct: 182 ILEVKNTKKGPRITVSRTHPDLVKRLFESEVAEVKDGTVEIKAIAREAGSRTKIAVASND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVGACVG+ G+RV +VV+EL  EKIDI+ W  + A  + NAL PA V  V  DE+ 
Sbjct: 242 PNVDPVGACVGLNGARVNSVVSELNGEKIDIINWDDNPALLIENALSPAKVIFVAADEEA 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN--RQKDFNERTQFFM 363
              +VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E +   +    +      Q F 
Sbjct: 302 REAQVIVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSETQARESGLFDEMEMGYEQGFE 361

Query: 364 QAI 366
           + +
Sbjct: 362 EGL 364


>gi|332981612|ref|YP_004463053.1| NusA antitermination factor [Mahella australiensis 50-1 BON]
 gi|332699290|gb|AEE96231.1| NusA antitermination factor [Mahella australiensis 50-1 BON]
          Length = 349

 Score =  443 bits (1140), Expect = e-122,   Method: Composition-based stats.
 Identities = 142/346 (41%), Positives = 231/346 (66%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E +Q    +  EK + +DV+L  +  ++  A +  YGT +++ V+IN  +GDI ++   +
Sbjct: 4   EFMQALYKIEKEKHLPKDVLLQAIQSALLSAYKKDYGTANNVSVDINANSGDIKVYAAKK 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE+V+N   +I L  ARD  P + +G +++  + P DF R+A ++A+ +++QK+ E E+
Sbjct: 64  VVEDVKNSAVEIDLYKARDIRPDVQLGDIINIEVTPKDFRRIAAKAARDIVLQKIHEVEK 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           D    E+ +K GEI++ TV R++  NV +DLG  +G++  +ET+  E  +  DR+K YI 
Sbjct: 124 DIILDEYSEKEGEILTATVARLDRKNVYLDLGKIEGIMPMNETVPSEIYKVNDRLKVYIL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           + ++  + P V++SR+HP  + +LF +E+PEI++GIV ++A++R+ G R+K+AV+S    
Sbjct: 184 EAKKGGKSPNVIVSRSHPGLVKRLFELEIPEIHDGIVDIRAIAREAGHRSKVAVYSKYDK 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDP+G+C+G +G+R+Q ++ ELR E+IDIV WS     F+ NAL PA V +V+L+E    
Sbjct: 244 IDPIGSCIGPKGTRIQTIMNELRGERIDIVEWSLMPERFIANALSPAKVLEVILNEKEKS 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
             VIVPK QLSLAIG+ GQN RLA++LTGW IDI T ++  +N  K
Sbjct: 304 ARVIVPKNQLSLAIGKEGQNARLAAKLTGWKIDIKTPDQQEVNETK 349


>gi|153855238|ref|ZP_01996404.1| hypothetical protein DORLON_02418 [Dorea longicatena DSM 13814]
 gi|149752237|gb|EDM62168.1| hypothetical protein DORLON_02418 [Dorea longicatena DSM 13814]
          Length = 399

 Score =  443 bits (1140), Expect = e-122,   Method: Composition-based stats.
 Identities = 147/344 (42%), Positives = 227/344 (65%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL+  + +  EK I ++ +L  + +S+  A ++ +G   +I++ +N ET +  L+  
Sbjct: 2   NTELLEALNILEKEKDISKETLLDAIENSLMNACKNHFGKTDNIKLIMNKETCEYQLYAE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEVE+   QISL+ A++ D   ++G +V  P+    FGR+A Q+AK +I+QK+RE 
Sbjct: 62  KTVVEEVEDKLEQISLEDAKEIDSKFELGDIVHIPIESKSFGRIATQNAKNLILQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y ++ +K  +I++G V+R    NV ++LG +D ++  +E +  E  +P +R+K Y
Sbjct: 122 ERKVVYDQYFEKEKDIVTGIVQRYVGKNVSINLGKADAMLTENEQVKGEVFKPTERIKLY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V+   +GP++L+SRTHP+ + +LF  EV E+ +GIV++K+++R+ GSR K+AV+S+D
Sbjct: 182 IVEVKNTTKGPKILVSRTHPELVKRLFESEVTEVKDGIVEIKSIAREAGSRTKIAVWSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVGM G+RV A+V ELR EKIDI+ WS + A  + NAL PA V  V+ D D 
Sbjct: 242 PDVDPVGACVGMNGARVNAIVNELRGEKIDIINWSDNPAILIENALSPAKVISVMADPDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
               VIVP  QLSLAIG+ GQN RLA++LTG+ IDI  E +   
Sbjct: 302 KTASVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKNETQAIE 345


>gi|331701346|ref|YP_004398305.1| NusA antitermination factor [Lactobacillus buchneri NRRL B-30929]
 gi|329128689|gb|AEB73242.1| NusA antitermination factor [Lactobacillus buchneri NRRL B-30929]
          Length = 398

 Score =  442 bits (1139), Expect = e-122,   Method: Composition-based stats.
 Identities = 141/345 (40%), Positives = 216/345 (62%), Gaps = 1/345 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL    A+  EK I ++VV+  +  ++  A +  YG   ++ V  + + G++ ++ +
Sbjct: 2   SKELLGALSALEEEKGIKKEVVIEALEAALVSAYKRNYGQAQNVEVSFDDKKGEMHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV++V +   Q+SL  A + +   ++G  +   + P +FGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KTVVDDVVDDQLQVSLDEALEINKGYELGDEIKFEVTPKNFGRIAAQTAKQVIMQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  + E+     E+++GTV+R +   V V+LG  + V+   + +  E  RP DR+K Y
Sbjct: 122 ERENVFDEYSKYEDELVTGTVERQDTRFVYVNLGKVEAVMGSKDQMPNEVYRPQDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V    +GPQV +SRT    + +LF  EVPEIY+G V++ +++R+ G RAK+AV S++
Sbjct: 182 VTKVENATKGPQVFVSRTATGMLKRLFEQEVPEIYDGTVEIVSIAREAGDRAKVAVRSNN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           S IDPVG  VG RG RVQ +V EL  E +DIV W  D A+++ N+L PA V  V+ D+D 
Sbjct: 242 SDIDPVGTAVGPRGQRVQTIVNELHGENMDIVEWDEDDASYIANSLNPAEVIDVIFDDDN 301

Query: 306 GRI-EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
            R   VIVP  QLSLAIG++GQN RLA++LTG+ IDI +E E   
Sbjct: 302 ERACTVIVPDYQLSLAIGKKGQNARLAAKLTGFKIDIKSETEAKE 346


>gi|254995056|ref|ZP_05277246.1| transcription elongation factor NusA [Anaplasma marginale str.
           Mississippi]
          Length = 512

 Score =  442 bits (1139), Expect = e-122,   Method: Composition-based stats.
 Identities = 205/536 (38%), Positives = 325/536 (60%), Gaps = 51/536 (9%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + + + LEL+++A  VA +K ++ ++V+  +  +++  +RS YG    I+  I+ +TG +
Sbjct: 4   LYNFDNLELIRVARDVAEQKGLNLEMVVDAIEQALELVSRSKYGDCK-IKASIDRKTGVV 62

Query: 61  SLFRLLEVVEEVENYTCQ--------------ISLKVARDRDPSIDIGGVVSDPLPPMDF 106
           S+ R   VV +  ++  +              + +  A      + +G ++ +PLPP+D 
Sbjct: 63  SISRQALVVNDDMSFDSEQYGIPLGEVSKYKLVKVSDAVADGKDVKVGDILFEPLPPVDV 122

Query: 107 GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIR 166
              + + A++ + Q +   ER RQY EFKD+VG+++ G VKRVEY NV+VDL  S+G + 
Sbjct: 123 DYNSAKVARRKVAQLIMIQERKRQYEEFKDRVGDLVYGVVKRVEYNNVVVDLNGSEGYLP 182

Query: 167 RDETISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
              TI  E  RP DRVK  + +VR+E+  GPQ+ LSR   +FM  LF  E+PE+Y+GIV 
Sbjct: 183 VYNTIRGEVFRPNDRVKD-VEEVRQEELSGPQIFLSRVSKRFMELLFKQEIPEVYDGIVS 241

Query: 226 VKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSAT 285
           +KA++RDPGSR+K+AVFSSD ++DPVGAC+G RG R+Q +V+ELR E    V        
Sbjct: 242 IKALARDPGSRSKVAVFSSDKNVDPVGACIGARGVRIQNIVSELRGEDRRCV-------V 294

Query: 286 FVINALRP---------AIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTG 336
           F+     P         A V KV++DEDV +IE++VP+ Q+SLAIGR GQN+RLAS+L G
Sbjct: 295 FIR----PREVCSERDSAEVVKVIIDEDVEKIELVVPENQVSLAIGRYGQNIRLASELVG 350

Query: 337 WTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIA 396
           W ID+I +E +S  + K+ +   + F+  ++V+EII  LLV+EGF+ +E+L  V ++EI 
Sbjct: 351 WEIDVIGDETESTRKAKELSSGAKVFVDGLDVEEIIGQLLVSEGFSTIEDLDKVDVAEIT 410

Query: 397 SIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGI 456
           +I+GF+EE AVE++ RA EYL        + ++ + VSEE+  +P ++ +  V L E GI
Sbjct: 411 AIDGFNEEIAVELKKRAAEYLTRRREEALETLKNMSVSEEVLELPYLEIEDVVKLCEGGI 470

Query: 457 KTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
           +++ED+A    D+                  +      K+QV+S+I+ +R +MGWI
Sbjct: 471 RSVEDIASMCTDEFYDM--------------VPKARLSKEQVDSIILESRKRMGWI 512


>gi|323466337|gb|ADX70024.1| transcription elongation factor NusA [Lactobacillus helveticus H10]
          Length = 410

 Score =  442 bits (1138), Expect = e-122,   Method: Composition-based stats.
 Identities = 132/354 (37%), Positives = 214/354 (60%), Gaps = 2/354 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +   K I +DV++  +  ++  A +  Y    ++ V+ +   G+  +  +
Sbjct: 19  SKEMLEAFATLEKTKGIKQDVIVDAIKAALVAAYKKNYNQAQNVEVDFDERRGNFKVMAV 78

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   ++SLK A   + + ++G  +   + P +FGR+A Q+AKQVI+Q++REA
Sbjct: 79  KTVVDEVQDDRLEVSLKDALAINRAYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLREA 138

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER     E+     E+++GTV+R +   V V +GN + ++ + + +  E   P D+++  
Sbjct: 139 ERSHIIDEYSQYEDELVTGTVERRDNRFVYVKIGNVEAIMPQRDQMPNEVYNPQDQIRVL 198

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+++SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D
Sbjct: 199 VTHVGSDSKGVQIVVSRTAPNVVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVKSND 258

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DE 303
            +IDPVG CVG +G+RVQ VV EL  E ID+V +  D + F+ NAL PA V  V    DE
Sbjct: 259 PNIDPVGTCVGQKGARVQNVVNELGGENIDVVKYEEDPSDFIANALNPAEVIAVQFGDDE 318

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +     VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E     +K  + 
Sbjct: 319 EEKSALVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESEVEFVDEKSDDS 372


>gi|225874866|ref|YP_002756325.1| transcription termination factor NusA [Acidobacterium capsulatum
           ATCC 51196]
 gi|225794228|gb|ACO34318.1| transcription termination factor NusA [Acidobacterium capsulatum
           ATCC 51196]
          Length = 548

 Score =  442 bits (1138), Expect = e-122,   Method: Composition-based stats.
 Identities = 174/418 (41%), Positives = 250/418 (59%), Gaps = 9/418 (2%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L Q  +A++ +K ID +VV+  + D+I  A R  Y T  ++R E++ ETG+I  +    V
Sbjct: 5   LYQSIEALSRDKGIDPEVVVGAVEDAIALATRKYYKTQENMRAELDRETGEIRAYIYKAV 64

Query: 69  VEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VE    +E+   QI+L+ AR   P +++GG +    P    GR+A Q AKQVI QKVREA
Sbjct: 65  VETPELIEDPLNQITLEEARQLAPGVEVGGEIRFYKPTDVLGRIAAQMAKQVIFQKVREA 124

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ERD  + E+  +VGE+++ TVKRVE  +VI DLG ++  + + E    E    G+RV+  
Sbjct: 125 ERDTVFNEYAHRVGEVLTATVKRVEMQDVIFDLGKAEARMPKREQSRLEQFSVGERVRVV 184

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V R  +GPQV++SR  P+ +  LF  EVPEIY+  V ++A++R+ G R K+AV S D
Sbjct: 185 LLRVDRAAKGPQVIVSRAAPELVTSLFQGEVPEIYDNTVTIRAIAREAGERTKIAVMSRD 244

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DED 304
             +DPVGACVGM+G RVQ+++ ELR EKIDI+ +S +  TF   AL+PA V++V + D  
Sbjct: 245 KDVDPVGACVGMKGMRVQSIIRELRGEKIDIIEFSEEVTTFAERALQPAKVSRVSIADLS 304

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ---- 360
              +EVIV   QLSLAIG++GQNVRLA++L GW IDI +EEE     ++      Q    
Sbjct: 305 EKHLEVIVDDTQLSLAIGKKGQNVRLAAKLLGWKIDIKSEEEKRQEVEQQMGGFAQGGTA 364

Query: 361 -FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               +   + E I   LVA G   VE LA +   ++  I G  E+T  +I    R Y 
Sbjct: 365 TAIEEVKELGESIIQKLVAAGITTVESLADMTPEQLEEIPGIGEKTLEKISTAVRHYF 422


>gi|254519187|ref|ZP_05131243.1| transcription elongation factor NusA [Clostridium sp. 7_2_43FAA]
 gi|226912936|gb|EEH98137.1| transcription elongation factor NusA [Clostridium sp. 7_2_43FAA]
          Length = 360

 Score =  442 bits (1137), Expect = e-122,   Method: Composition-based stats.
 Identities = 147/359 (40%), Positives = 232/359 (64%), Gaps = 4/359 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGT----MSDIRVEINPETGDIS 61
             E +     +  +K I  D++ S + D++  A +  Y +      +++V IN ETG+I 
Sbjct: 2   NQEFIGALKEIVKDKGISEDLIFSTIEDALVAAYKKNYASPTTSAQNVKVSINRETGEIH 61

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++    VVE+V +   +ISL+ A++  P  D+  +V   + P +FGRVA Q AK V+ Q+
Sbjct: 62  VYAQKVVVEDVYDDVTEISLEEAKEVSPRYDLDDIVDLEVTPKNFGRVAAQLAKGVVTQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +REAER+  Y E+K+   +II+GTV R + GNV V+LG  +  I  +E I RE  +  ++
Sbjct: 122 IREAERNIVYSEYKELEYDIITGTVLRKDKGNVFVNLGRIETSIGPNEQIPREEYKFNEK 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           VK Y+ +V+   +G Q+L+SRTHP  + +LF +EVPEIY G+V++K++SR+ GSR+K+AV
Sbjct: 182 VKLYVVEVKNGSKGAQILVSRTHPGLVKRLFELEVPEIYEGVVEIKSISREAGSRSKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S+D ++DP+GACVG +G+RVQ +V EL+ EKIDI+ WS +   F+  +L PA V +VV 
Sbjct: 242 YSNDENVDPMGACVGPKGTRVQNIVNELKGEKIDIIKWSKNPEEFIAASLSPAKVLEVVA 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
            E+    +V+V   QLSLAIG+ GQNVRLA++LT W IDI ++ +    +++   E  +
Sbjct: 302 CEETKSAKVVVDDNQLSLAIGKEGQNVRLAAKLTNWKIDIKSKSQSDALKEETVEETIE 360


>gi|77919153|ref|YP_356968.1| transcription elongation factor NusA [Pelobacter carbinolicus DSM
           2380]
 gi|77545236|gb|ABA88798.1| NusA antitermination factor [Pelobacter carbinolicus DSM 2380]
          Length = 406

 Score =  441 bits (1136), Expect = e-121,   Method: Composition-based stats.
 Identities = 183/400 (45%), Positives = 254/400 (63%), Gaps = 2/400 (0%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L  I + V  EK IDR V++  +  ++  AA   Y    D+    N   G++ LF  + V
Sbjct: 5   LNHIIEQVVKEKGIDRGVLVEALESAVLSAANKKYRNTRDLEAHFNDGLGEVELFEFVTV 64

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           V+EV +   +I L+ AR+ D  +++G  +   +   +F R+A Q+AKQVIIQKVREAER+
Sbjct: 65  VDEVVDSYKEIDLEEAREIDEEVEVGDSLGMKIESGNFSRIAAQTAKQVIIQKVREAERE 124

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
           + Y EFKD+VGE+++G V+R E G++IVDLG ++G++   E + REN R GDR +  I +
Sbjct: 125 KIYNEFKDRVGELVNGIVRRYERGDLIVDLGLAEGLLPHREQVPRENYRQGDRARVLISE 184

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V+   +GPQ++LSRTHP  +  LF  EVPEI  GIV++KAV+R+ GSR K+AV S D  +
Sbjct: 185 VKISTKGPQIILSRTHPGLVASLFQFEVPEIAEGIVEIKAVAREAGSRTKIAVASYDPDV 244

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI 308
           DPVGACVGMRGSRVQ VV+ELR EKIDIV WSPD   FV  +L PA VT++ LD D   +
Sbjct: 245 DPVGACVGMRGSRVQNVVSELRGEKIDIVPWSPDVGRFVCASLAPAEVTRIYLDNDEQAL 304

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINV 368
           EVIVP +QLSLAIG++GQNVRLA++LTGW IDI +E   +   ++   E       A + 
Sbjct: 305 EVIVPDDQLSLAIGKKGQNVRLAARLTGWNIDIKSETRAAEAAKEALGESVAV-EDASSE 363

Query: 369 DEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVE 408
           D       V E    V+ +      E+  +   +EE +VE
Sbjct: 364 DVASEDATVQES-PSVDAVLDDASDEVTEVSDSNEEGSVE 402


>gi|187251076|ref|YP_001875558.1| transcription termination factor [Elusimicrobium minutum Pei191]
 gi|186971236|gb|ACC98221.1| Transcription termination factor [Elusimicrobium minutum Pei191]
          Length = 463

 Score =  441 bits (1136), Expect = e-121,   Method: Composition-based stats.
 Identities = 167/461 (36%), Positives = 270/461 (58%), Gaps = 29/461 (6%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +  N  EL+   +++  EK+I RD ++  + D++  A R   G  + I  +INPE GDI 
Sbjct: 1   MEGNPKELMMALESLEREKNIKRDDIIKTIEDALVSALRKNLGKTAQISAKINPEEGDIK 60

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            F++L +VE V N   +ISL+ A+  D   ++GG +++ L   DF R+A Q AKQV+IQK
Sbjct: 61  AFQVLNIVEIVANPEMEISLEQAKAMDDRSEVGGTITNVLEVEDFSRIAAQIAKQVLIQK 120

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VR  ER+  Y EFK + GE+I+G+V+R    +++VDLG  + ++   E I RE    G R
Sbjct: 121 VRGIERENTYKEFKPREGEVITGSVRRFSDRDIVVDLGKVEAILPYSEQIKRERYSNGSR 180

Query: 182 VKSYIYDV-------------------------RREQRGPQVLLSRTHPQFMVKLFHMEV 216
           +K+ I  V                          + QRGP V+LSRT P F+  LF +EV
Sbjct: 181 IKAIITKVLSQQDLLTIGEDPVLGRYKSAAFKMDKGQRGPYVILSRTSPAFLEDLFKVEV 240

Query: 217 PEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDI 276
           PEI  GIV++KA+ RDPG RAK+ V S D+ +DP+G CVGMRG R++A++ EL  E+ID+
Sbjct: 241 PEIGEGIVEIKAIQRDPGFRAKVVVRSYDNKVDPIGTCVGMRGIRIRAIMNELSGERIDL 300

Query: 277 VVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLT 335
           + +S D  T ++N++ PA    V ++  +  +  +IVP +QL++AIG+  QN++LAS+LT
Sbjct: 301 IPYSEDVTTMIMNSIAPARANSVKIISAEEKKALIIVPDDQLAIAIGKDWQNIKLASKLT 360

Query: 336 GWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEI 395
           GW +++ +E +     Q   +           +    A  LV  GF+ VE++A ++   +
Sbjct: 361 GWELEVKSESQKLQEGQATVDNLESLLASVEGIGPKTAETLVKAGFSSVEKIAALEPEHL 420

Query: 396 ASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE 436
           A+++G  E++A +I   A++YLE      ++ ++E  V+++
Sbjct: 421 ATVQGIGEKSAAKIIEGAKKYLETQ---GEEVLQEEAVNDD 458


>gi|242242549|ref|ZP_04796994.1| transcription elongation factor NusA [Staphylococcus epidermidis
           W23144]
 gi|242233976|gb|EES36288.1| transcription elongation factor NusA [Staphylococcus epidermidis
           W23144]
          Length = 407

 Score =  441 bits (1135), Expect = e-121,   Method: Composition-based stats.
 Identities = 156/407 (38%), Positives = 241/407 (59%), Gaps = 5/407 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +S+N  ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   
Sbjct: 1   MSSN--ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGSFR 58

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +    EVVEEV +   ++ L  A  ++P+ ++G +    + P DFGRV  Q+AKQ ++Q+
Sbjct: 59  VIARKEVVEEVFDDRDEVDLSTALVKNPAYEVGDIYEQDVTPKDFGRVGAQAAKQAVMQR 118

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R
Sbjct: 119 LRDAEREILYDEFIDKEEDILTGVIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNER 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V
Sbjct: 179 IKVYVNKVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISV 238

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S +  ID VGACVG +G+RV+AVV EL  EKIDIV W  D   FV NAL P+ V +V++
Sbjct: 239 YSDNPDIDAVGACVGSKGARVEAVVEELGGEKIDIVQWDEDPKVFVRNALSPSQVLEVIV 298

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK---DFNER 358
           DE+     V+VP  QLSLAIG+RGQN RLA++LT W IDI +E +          +  E 
Sbjct: 299 DEENQSTVVVVPDYQLSLAIGKRGQNARLAAKLTSWKIDIKSESDAREAGIYPVIETEEV 358

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEET 405
               + + + D    ++ + E      ELA     E  +    D +T
Sbjct: 359 ADEIVNSGDEDVEFDNVNLEETNLTSTELAAETDEEKTAKTEEDNDT 405


>gi|224476389|ref|YP_002633995.1| transcription elongation factor NusA [Staphylococcus carnosus
           subsp. carnosus TM300]
 gi|222420996|emb|CAL27810.1| putative transcription elongation protein NusA [Staphylococcus
           carnosus subsp. carnosus TM300]
          Length = 437

 Score =  441 bits (1134), Expect = e-121,   Method: Composition-based stats.
 Identities = 153/398 (38%), Positives = 240/398 (60%), Gaps = 12/398 (3%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +S+N  ELL   + +  EK I R+V++  +  ++  A +  Y    ++RVE+N + G   
Sbjct: 1   MSSN--ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYEAARNVRVELNMDEGTFH 58

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +    EVV++V +   ++ +  A +++P+ +IG +  + + P DFGRV  Q+AKQ ++Q+
Sbjct: 59  VIARKEVVDDVFDDREEVDISTALEKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQR 118

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+  Y EF DK  +I++G + RV++  V V+LG ++ V+   E    E+  P +R
Sbjct: 119 LRDAEREILYDEFIDKEEDIVTGIIDRVDHRYVYVNLGRTEAVLSEAERSPNESYIPNER 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V +K+V+R+ G R+K++V
Sbjct: 179 IKVYVNKVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVVIKSVAREAGDRSKISV 238

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S +  ID VGACVG +G RV+A+V EL  EKIDIV W+ D   FV NAL P+ V +V++
Sbjct: 239 YSDNPDIDAVGACVGSKGVRVEAIVEELGGEKIDIVQWNEDPKVFVKNALSPSQVLEVIV 298

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE      VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E +               
Sbjct: 299 DEANQSTTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAREAGIYPVP----- 353

Query: 362 FMQAINVDEIIAHLLVAE---GFADVEELACVKISEIA 396
             +    D+ +   L  E   G  D E    V+  E++
Sbjct: 354 --EVEETDDEVTEDLTEEVVVGQVDEEPEVDVEAEEVS 389


>gi|167758065|ref|ZP_02430192.1| hypothetical protein CLOSCI_00403 [Clostridium scindens ATCC 35704]
 gi|167663962|gb|EDS08092.1| hypothetical protein CLOSCI_00403 [Clostridium scindens ATCC 35704]
          Length = 398

 Score =  441 bits (1134), Expect = e-121,   Method: Composition-based stats.
 Identities = 144/344 (41%), Positives = 226/344 (65%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL+  + +  EK I ++ +L  + +S+  A ++ +G   +I++ ++  T D  LF  
Sbjct: 2   NTELLEALNILEEEKDISKETLLDAIENSLLNACKNHFGKADNIKLIMDRTTCDYQLFAE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE+VE+   QISL+ A++ D   ++G +V  P+    FGR+A Q+AK +I+QK+RE 
Sbjct: 62  KTVVEDVEDKLEQISLEDAKEIDSQYELGDIVQIPIESKSFGRIATQNAKNLILQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y ++ +K  +I++G V+R    N+ ++LG +D ++  +E +  E  +P +R+K Y
Sbjct: 122 ERKVVYDQYFEKEKDIVTGIVQRYVGKNISINLGKADAMLTENEQVKGEVFKPTERIKLY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V+   +GP++L+SRTHP+ + +LF  EV E+  GIV++K+++R+ GSR K+AV+S+D
Sbjct: 182 VVEVKNTTKGPKILVSRTHPELVKRLFESEVIEVKEGIVEIKSIAREAGSRTKIAVWSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVGM G+RV A+V ELR EKIDI+ WS + A  + NAL PA V  V+ D D 
Sbjct: 242 PDVDPVGACVGMNGARVNAIVNELRGEKIDIINWSDNPAILIENALSPAKVISVMADPDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
               VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E +   
Sbjct: 302 KAASVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSETQAIE 345


>gi|148657848|ref|YP_001278053.1| NusA antitermination factor [Roseiflexus sp. RS-1]
 gi|148569958|gb|ABQ92103.1| NusA antitermination factor [Roseiflexus sp. RS-1]
          Length = 442

 Score =  441 bits (1134), Expect = e-121,   Method: Composition-based stats.
 Identities = 144/343 (41%), Positives = 220/343 (64%), Gaps = 3/343 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS---DIRVEINPETGDISL 62
           + +       +A E+ I ++ ++ VM  ++  A R   G      +I V ++P TG   +
Sbjct: 2   KSDFYAAISQIASERGIPKEAIVEVMEKALATAYRRTLGPNPPPMEISVRLDPVTGMARV 61

Query: 63  FRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           +   +VV++V +   +I L+ AR   P +++G  V     P DFGR+A Q+AKQVI+Q +
Sbjct: 62  YAEKQVVDDVFDERFEIDLESARKIKPDVELGESVVVEATPRDFGRIAAQTAKQVILQGI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           +E ER+  Y E+ D+ GE+++ TV+R+  GNVI+++G ++ ++   E +  +    G R+
Sbjct: 122 KEVEREHIYGEYMDREGELVTATVQRIAKGNVILEMGKAEAILPPKEQVETDRYYHGQRL 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           K Y+ ++RRE RGP+++ SR H   + +LF MEVPEIYNG V++K+++R+PG R K+AV 
Sbjct: 182 KVYLMEIRREDRGPKLIASRAHKNLITRLFEMEVPEIYNGAVEIKSIAREPGIRTKVAVA 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           +    IDPVG+CVGMRG R+Q +V EL  EKID+V WS +   F+ NAL PA V +V L 
Sbjct: 242 ARQEGIDPVGSCVGMRGIRIQNIVNELNGEKIDVVQWSSNPKEFIANALSPAQVVEVQLR 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +D     VIVP +QLSLAIG+ GQNVRLA++LTGW IDI +  
Sbjct: 302 DDEHAATVIVPDKQLSLAIGKEGQNVRLAAKLTGWRIDIKSAS 344


>gi|319401444|gb|EFV89654.1| transcription elongation protein nusA [Staphylococcus epidermidis
           FRI909]
          Length = 407

 Score =  441 bits (1134), Expect = e-121,   Method: Composition-based stats.
 Identities = 156/407 (38%), Positives = 241/407 (59%), Gaps = 5/407 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +S+N  ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   
Sbjct: 1   MSSN--ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGSFR 58

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +    EVVEEV +   ++ L  A  ++P+ ++G +    + P DFGRV  Q+AKQ ++Q+
Sbjct: 59  VIARKEVVEEVFDDRDEVDLSTALVKNPAYEVGDIYEQDVTPKDFGRVGAQAAKQAVMQR 118

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R
Sbjct: 119 LRDAEREILYDEFIDKEEDILTGVIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNER 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V
Sbjct: 179 IKVYVNKVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISV 238

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S +  ID VGACVG +G+RV+AVV EL  EKIDIV W  D   FV NAL P+ V +V++
Sbjct: 239 YSDNPDIDAVGACVGSKGARVEAVVEELGGEKIDIVQWDEDPKVFVRNALSPSQVLEVIV 298

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK---DFNER 358
           DE+     V+VP  QLSLAIG+RGQN RLA++LT W IDI +E +          +  E 
Sbjct: 299 DEENQSTVVVVPDYQLSLAIGKRGQNARLAAKLTSWKIDIKSESDAREAGIYPVIETEEV 358

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEET 405
               + + + D    ++ + E      ELA     E  +    D +T
Sbjct: 359 ADEIVNSGDEDVEFDNVNLEETNLTSTELAAETDKEKTAKTEEDNDT 405


>gi|315924374|ref|ZP_07920596.1| transcription termination factor NusA [Pseudoramibacter
           alactolyticus ATCC 23263]
 gi|315622253|gb|EFV02212.1| transcription termination factor NusA [Pseudoramibacter
           alactolyticus ATCC 23263]
          Length = 411

 Score =  440 bits (1133), Expect = e-121,   Method: Composition-based stats.
 Identities = 133/373 (35%), Positives = 226/373 (60%), Gaps = 1/373 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E L   D +  EK I+++ ++  +  SI++A R  YG+  ++ V  +  +G+I ++  
Sbjct: 2   NAEFLAALDVLEKEKGINKEELIEAIESSIEQAYRKNYGSEQNVEVRFDRSSGEIQVYTT 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV +   + +L  A   D + +IG ++   + P  FGR+A Q+AKQ+I QK++E 
Sbjct: 62  WLVVDEVMDPDKEKTLAEALAIDEAAEIGQMIEKKIAPRHFGRIAAQNAKQMIYQKIKEQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y  F ++  E+++G +  V+   V VD+G++ G++   E I  E+ + G R++ Y
Sbjct: 122 ERKNIYDTFIERQDEVVTGKIDHVDRRMVYVDIGDATGLMPLSEQIPTEHYKAGQRIRVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V+   +GP++++SRTH   + +L   EVPEIY+G+V V++++R+ GSR+K+AV S+D
Sbjct: 182 ITSVKETSKGPEIMVSRTHSGLLKRLLEEEVPEIYDGVVDVESIAREAGSRSKIAVKSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           S++DPVG+CVG RG+R+Q ++ EL  EKID++ ++ D   F+ NAL PA V +V+ +   
Sbjct: 242 STVDPVGSCVGYRGTRIQNIIDELGGEKIDVIRYNEDIHEFIANALSPANVIEVLANPRD 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            +   +V   Q SLAIG+ GQNVRLA +LTGW IDI +  +       +     + F Q 
Sbjct: 302 KQAYAVVDDFQFSLAIGKEGQNVRLAVRLTGWKIDIKSASDFQAMLD-ENPNLREEFSQE 360

Query: 366 INVDEIIAHLLVA 378
              ++++  +L  
Sbjct: 361 KETEKLVDDILQE 373


>gi|160892797|ref|ZP_02073587.1| hypothetical protein CLOL250_00328 [Clostridium sp. L2-50]
 gi|156865838|gb|EDO59269.1| hypothetical protein CLOL250_00328 [Clostridium sp. L2-50]
          Length = 393

 Score =  440 bits (1133), Expect = e-121,   Method: Composition-based stats.
 Identities = 149/402 (37%), Positives = 237/402 (58%), Gaps = 15/402 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+++  + +  EK+I +D++L  +  S++ A +  + T  +I V ++ ETG+  ++   E
Sbjct: 3   EIIEALNQLEKEKNISKDILLDAIERSLKAACKKDFDTDENIDVVMDRETGEFHVYAKKE 62

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE    QISL+ A+  +   D+G +++  +   DFGR+A Q A+ VI+Q + E+ER
Sbjct: 63  VVEEVERPATQISLEKAKMMNSKYDLGDIINIEITTKDFGRIAAQRARNVIVQAINESER 122

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
           D  Y  F  K  +II+G V+R    N+ V L   ++ +++  E +  E    GDR+K Y+
Sbjct: 123 DAIYDHFYTKEKDIITGIVQRYVGNNINVSLDDKTEAILKESEMVPGEVYNRGDRIKLYV 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V++  RGP++ +SRTHP  + +LF  EV EI +G V++K+  R+ GSR+K+AV+S D 
Sbjct: 183 TEVKKGSRGPKITVSRTHPDLVKRLFEKEVTEIADGTVEIKSSCREAGSRSKIAVYSHDE 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           ++DPVGACVG+ GSRV  VV +L  EKIDI+ W  + A F+ NAL P+ V  V +D +  
Sbjct: 243 NVDPVGACVGVNGSRVNNVVEDLNGEKIDIICWDENPAIFIKNALSPSEVIAVDVDLNEK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
              V+VP  QLSLAIG++GQN RLA++LTG+ IDI +E +               F +  
Sbjct: 303 SAFVVVPDYQLSLAIGKKGQNARLAAKLTGYKIDIKSESQAEEMGY---------FSEEN 353

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVE 408
           +  +        E F +++++      E  S+E  D E   E
Sbjct: 354 DDYKEPEQ---EEAFDNIDDIVDGSYEE--SLEQQDTEKVKE 390


>gi|251778646|ref|ZP_04821566.1| transcription termination factor NusA [Clostridium botulinum E1
           str. 'BoNT E Beluga']
 gi|243082961|gb|EES48851.1| transcription termination factor NusA [Clostridium botulinum E1
           str. 'BoNT E Beluga']
          Length = 384

 Score =  440 bits (1133), Expect = e-121,   Method: Composition-based stats.
 Identities = 149/374 (39%), Positives = 236/374 (63%), Gaps = 4/374 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG----TMSDIRVEINPETGDIS 61
             E +     +  EK I  D++ + + D++  A +  Y     +  ++++ IN E G+I 
Sbjct: 2   NEEFVGALKEIVKEKGISEDLLFTTIEDAMVAAYKKNYANLNTSAQNVKISINRENGEIH 61

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++    VV+EV +   +ISL+ A+  +P  ++  VV   + P +FGRVA Q AKQV+ Q+
Sbjct: 62  VYAQKMVVDEVYDEVTEISLEEAKAINPKYEVDDVVDLEVTPKNFGRVAAQLAKQVVTQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++EAER+  Y E+K+K  +II+GT+ R + G V V LG  +G+I  +E +S E+ R  + 
Sbjct: 122 IKEAERNIIYSEYKEKEFDIITGTILRKDKGMVFVSLGKIEGIIGPNEQMSNEDYRFNEM 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K YI +V+   +G QV +SRTHP  + +LF +EVPEI+NG+V++K++SR+ GSR+K+AV
Sbjct: 182 LKLYIVEVKNTSKGAQVHVSRTHPGLVKRLFELEVPEIFNGVVEIKSISREAGSRSKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S+D  +D +GACVG +G RVQ +V EL++EKIDI+ WS D A F+ NAL PA V    +
Sbjct: 242 YSNDEEVDAMGACVGPKGVRVQNIVNELKNEKIDIIKWSKDPAEFISNALSPAKVINAEV 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           +E+    +++V  +QLSLAIG+ GQNVRLA++LT W IDI ++ +      +      Q 
Sbjct: 302 NEESKSAKIVVADDQLSLAIGKEGQNVRLAAKLTNWKIDIKSKSQQEALEAEQEKAIDQD 361

Query: 362 FMQAINVDEIIAHL 375
              +  V E +A L
Sbjct: 362 VDMSEEVTENVAEL 375


>gi|257425320|ref|ZP_05601745.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus 55/2053]
 gi|257427981|ref|ZP_05604379.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus 65-1322]
 gi|257430614|ref|ZP_05606996.1| transcription termination-antitermination factor [Staphylococcus
           aureus subsp. aureus 68-397]
 gi|257433374|ref|ZP_05609732.1| transcription termination-antitermination factor [Staphylococcus
           aureus subsp. aureus E1410]
 gi|257436216|ref|ZP_05612263.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus M876]
 gi|282914043|ref|ZP_06321830.1| N utilization substance protein A [Staphylococcus aureus subsp.
           aureus M899]
 gi|282924088|ref|ZP_06331764.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus C101]
 gi|293501075|ref|ZP_06666926.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus 58-424]
 gi|293510037|ref|ZP_06668745.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus M809]
 gi|293526623|ref|ZP_06671308.1| N utilization substance protein A [Staphylococcus aureus subsp.
           aureus M1015]
 gi|257271777|gb|EEV03915.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus 55/2053]
 gi|257274822|gb|EEV06309.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus 65-1322]
 gi|257278742|gb|EEV09361.1| transcription termination-antitermination factor [Staphylococcus
           aureus subsp. aureus 68-397]
 gi|257281467|gb|EEV11604.1| transcription termination-antitermination factor [Staphylococcus
           aureus subsp. aureus E1410]
 gi|257284498|gb|EEV14618.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus M876]
 gi|282314060|gb|EFB44452.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus C101]
 gi|282322111|gb|EFB52435.1| N utilization substance protein A [Staphylococcus aureus subsp.
           aureus M899]
 gi|290920695|gb|EFD97758.1| N utilization substance protein A [Staphylococcus aureus subsp.
           aureus M1015]
 gi|291096080|gb|EFE26341.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus 58-424]
 gi|291466981|gb|EFF09499.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus M809]
          Length = 391

 Score =  440 bits (1133), Expect = e-121,   Method: Composition-based stats.
 Identities = 156/392 (39%), Positives = 238/392 (60%), Gaps = 9/392 (2%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +S+N  ELL   + +  EK I R V++  +  ++  A +  Y +  ++RVE+N + G   
Sbjct: 1   MSSN--ELLLATEYLEKEKKIPRAVLIDAIEAALITAYKKNYDSARNVRVELNMDQGTFK 58

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +    +VVEEV +   ++ L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q+
Sbjct: 59  VIARKDVVEEVFDDRDEVDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQR 118

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+  + EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R
Sbjct: 119 LRDAEREILFEEFIDKEEDILTGIIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNER 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V
Sbjct: 179 IKVYVNKVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISV 238

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           FS ++ ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++
Sbjct: 239 FSENNDIDAVGACVGAKGARVEAVVEELGGEKIDIVQWNEDPKVFVKNALSPSQVLEVIV 298

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE      V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +               
Sbjct: 299 DETNQSTVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDAHEAGIYPV------ 352

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKIS 393
            ++A  V E    L  A+     EE+  V + 
Sbjct: 353 -VEAEKVTEEDVALEDADTTESTEEVTDVSVE 383


>gi|188588167|ref|YP_001920615.1| transcription elongation factor NusA [Clostridium botulinum E3 str.
           Alaska E43]
 gi|188498448|gb|ACD51584.1| transcription termination factor NusA [Clostridium botulinum E3
           str. Alaska E43]
          Length = 384

 Score =  440 bits (1132), Expect = e-121,   Method: Composition-based stats.
 Identities = 148/374 (39%), Positives = 236/374 (63%), Gaps = 4/374 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG----TMSDIRVEINPETGDIS 61
             E +     +  EK I  D++ + + D++  A +  Y     +  ++++ IN E G+I 
Sbjct: 2   NEEFVGALKEIVKEKGISEDLLFTTIEDAMVAAYKKNYANLNTSAQNVKISINRENGEIH 61

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++    VV+EV +   +ISL+ A+  +P  ++  +V   + P +FGRVA Q AKQV+ Q+
Sbjct: 62  VYAQKMVVDEVYDEVTEISLEEAKAINPKYEVDDIVDLEVTPKNFGRVAAQLAKQVVTQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++EAER+  Y E+K+K  +II+GT+ R + G V V LG  +G+I  +E +S E+ R  + 
Sbjct: 122 IKEAERNIIYSEYKEKEFDIITGTILRKDKGMVFVSLGKIEGIIGPNEQMSNEDYRFNEM 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K YI +V+   +G QV +SRTHP  + +LF +EVPEI+NG+V++K++SR+ GSR+K+AV
Sbjct: 182 LKLYIVEVKNTSKGAQVHVSRTHPGLVKRLFELEVPEIFNGVVEIKSISREAGSRSKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S+D  +D +GACVG +G RVQ +V EL++EKIDI+ WS D A F+ NAL PA V    +
Sbjct: 242 YSNDEEVDAMGACVGPKGVRVQNIVNELKNEKIDIIKWSKDPAEFISNALSPAKVINAEV 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           +E+    +++V  +QLSLAIG+ GQNVRLA++LT W IDI ++ +      +      Q 
Sbjct: 302 NEESKSAKIVVADDQLSLAIGKEGQNVRLAAKLTNWKIDIKSKSQQEALEAEQEKAIDQD 361

Query: 362 FMQAINVDEIIAHL 375
              +  V E +A L
Sbjct: 362 VDMSEEVTENVAEL 375


>gi|94971244|ref|YP_593292.1| NusA antitermination factor [Candidatus Koribacter versatilis
           Ellin345]
 gi|94553294|gb|ABF43218.1| NusA antitermination factor [Candidatus Koribacter versatilis
           Ellin345]
          Length = 534

 Score =  440 bits (1132), Expect = e-121,   Method: Composition-based stats.
 Identities = 167/422 (39%), Positives = 250/422 (59%), Gaps = 8/422 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL  + DA++ EK ID  VV++ + D+I  A R  Y T  + R  ++ E+G I  + + +
Sbjct: 4   ELYNVIDALSREKGIDPQVVVTAVEDAIVVATRKFYKTGENFRAVLDKESGQIRAYAVRQ 63

Query: 68  VV---EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV   +E+E+   Q+ L+ AR+ DP+ ++GG +         GR+A Q AKQVI QKVRE
Sbjct: 64  VVINEDELEDPATQVPLEEARELDPAAEVGGELLIEKKTDMLGRIAAQLAKQVIFQKVRE 123

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AERD  Y E+  +VGEI++ T+KR E  ++I D+G ++  + + E    E+   G+RV+ 
Sbjct: 124 AERDTVYNEYIGRVGEIVNATMKRNEGPDLIWDIGKAEARMPKKEQSRLESFAIGERVRV 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            I  V +  +GPQV++SR  P+ +  LF  EVPEIY+  V ++A++R+ G R K+AV S 
Sbjct: 184 VITRVEKASKGPQVIVSRAAPELVSHLFQTEVPEIYDNTVVIRAIAREAGERTKIAVMSK 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  +D VGACVGM+G RVQ+++ ELR EKIDI+ +  D+ TF   AL+PA V++V + E 
Sbjct: 244 DKDVDAVGACVGMKGMRVQSIIRELRGEKIDIIEYHEDAVTFAEKALQPAKVSRVTILES 303

Query: 305 -VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF----NERT 359
               +EVIV   QLSLAIG++GQNVRLA++L GW IDI +EEE     ++      N   
Sbjct: 304 GDKHLEVIVDDTQLSLAIGKKGQNVRLAAKLLGWKIDIKSEEEKRQEVEQQMSALVNPSI 363

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
               +  ++ E I   L A G   VE LA +   ++  + G   +T  +I      Y   
Sbjct: 364 TPLDKVPDLGEAIIEKLSAAGINSVEALADMTPEQLEEVPGIGPKTVDKIFVAVNAYFSA 423

Query: 420 ID 421
           +D
Sbjct: 424 LD 425


>gi|154485019|ref|ZP_02027467.1| hypothetical protein EUBVEN_02737 [Eubacterium ventriosum ATCC
           27560]
 gi|149733972|gb|EDM50091.1| hypothetical protein EUBVEN_02737 [Eubacterium ventriosum ATCC
           27560]
          Length = 408

 Score =  440 bits (1132), Expect = e-121,   Method: Composition-based stats.
 Identities = 143/348 (41%), Positives = 223/348 (64%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL++  + +  EK I ++ +   + +++  A ++ +    ++ V ++ ETGD  ++  
Sbjct: 2   NKELIEALNILEKEKDISKESLFEAIENNLVVAYKNNFNKADNVTVTMDRETGDFHIYSQ 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEV +   +ISL+ AR    + ++G +V+  +   DFGR+A QSAK  I+QK+RE 
Sbjct: 62  KEVVEEVMDPVTEISLEDARSIKGTYELGDIVNIEIQSKDFGRIATQSAKNGILQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y ++ +K  +I++G V+R+   N+ V+LG  D V+   E    E+ RP +R+K Y
Sbjct: 122 ERKSLYEQYFEKQDDIVTGIVQRINGKNISVNLGKVDTVLMEKEQAKGEHFRPTERIKLY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V+   RGP++++SRTHP  + +LF  EV EI +G V++K+++R+ GSR K+AV+S++
Sbjct: 182 ITEVKDNGRGPRIVVSRTHPGLVKRLFEQEVTEIQDGTVEIKSIAREAGSRTKMAVWSNN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +D VGACVG+ G+RV AVV ELRDEKIDIV WS + A  + NAL P+ V  V+ D D 
Sbjct: 242 EDVDAVGACVGVNGARVNAVVDELRDEKIDIVNWSENPAILIENALSPSKVVAVLADPDN 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
               V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E +      +
Sbjct: 302 KEALVVVPDFQLSLAIGKEGQNARLAAKLTGFKIDIKSESQAKEEGIQ 349


>gi|289550942|ref|YP_003471846.1| Transcription termination protein NusA [Staphylococcus lugdunensis
           HKU09-01]
 gi|289180474|gb|ADC87719.1| Transcription termination protein NusA [Staphylococcus lugdunensis
           HKU09-01]
          Length = 387

 Score =  440 bits (1132), Expect = e-121,   Method: Composition-based stats.
 Identities = 150/368 (40%), Positives = 227/368 (61%), Gaps = 1/368 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   +     
Sbjct: 5   ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGTFKVVARKS 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV ++  ++ L  A  ++P+ ++G +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVSDHRDEVDLSTALVKNPAYEVGDIYEEDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R+K Y+ 
Sbjct: 125 EILYDEFVDKEDDILTGLIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V+S +  
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISVYSENPD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV W  D   FV NAL P+ V +V++DE    
Sbjct: 245 IDAVGACVGAKGARVEAVVEELGGEKIDIVQWDEDPKVFVKNALSPSQVLEVIVDESNQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA-I 366
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E +          E      +A I
Sbjct: 305 TVVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDACEAGIYPIVEAENHADEAEI 364

Query: 367 NVDEIIAH 374
            +D+    
Sbjct: 365 EIDDESIE 372


>gi|70726649|ref|YP_253563.1| transcription elongation factor NusA [Staphylococcus haemolyticus
           JCSC1435]
 gi|68447373|dbj|BAE04957.1| transcription termination-antitermination factor [Staphylococcus
           haemolyticus JCSC1435]
          Length = 410

 Score =  440 bits (1132), Expect = e-121,   Method: Composition-based stats.
 Identities = 148/359 (41%), Positives = 225/359 (62%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   +    E
Sbjct: 5   ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGTFKVIARKE 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   ++ L  A  ++P+ ++G +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDDRDEVDLSTALVKNPAYEVGDIYEEDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R+K Y+ 
Sbjct: 125 EILYTEFIDKEDDILTGVIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V+S +  
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISVYSDNPD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++DED   
Sbjct: 245 IDAVGACVGAKGARVEAVVEELGGEKIDIVQWNEDPKVFVRNALSPSQVLEVIVDEDNQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +          E  +     +
Sbjct: 305 TVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDARDAGIYPVIESEELAEDIV 363


>gi|49483429|ref|YP_040653.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus MRSA252]
 gi|82750867|ref|YP_416608.1| transcription elongation factor NusA [Staphylococcus aureus RF122]
 gi|258423893|ref|ZP_05686778.1| transcription termination factor NusA [Staphylococcus aureus A9635]
 gi|282903821|ref|ZP_06311709.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus C160]
 gi|282905584|ref|ZP_06313439.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus Btn1260]
 gi|282908559|ref|ZP_06316389.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus WW2703/97]
 gi|282910838|ref|ZP_06318641.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus WBG10049]
 gi|282918965|ref|ZP_06326700.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus C427]
 gi|283958009|ref|ZP_06375460.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus A017934/97]
 gi|295427753|ref|ZP_06820385.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus EMRSA16]
 gi|297591289|ref|ZP_06949927.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus MN8]
 gi|49241558|emb|CAG40244.1| putative N utilization substance protein A [Staphylococcus aureus
           subsp. aureus MRSA252]
 gi|82656398|emb|CAI80817.1| transcription termination-antitermination factor [Staphylococcus
           aureus RF122]
 gi|257845922|gb|EEV69951.1| transcription termination factor NusA [Staphylococcus aureus A9635]
 gi|282316775|gb|EFB47149.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus C427]
 gi|282325443|gb|EFB55752.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus WBG10049]
 gi|282327621|gb|EFB57904.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus WW2703/97]
 gi|282330876|gb|EFB60390.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus Btn1260]
 gi|282595439|gb|EFC00403.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus C160]
 gi|283790158|gb|EFC28975.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus A017934/97]
 gi|295128111|gb|EFG57745.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus EMRSA16]
 gi|297576175|gb|EFH94891.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus MN8]
 gi|302332872|gb|ADL23065.1| transcription termination-antitermination factor [Staphylococcus
           aureus subsp. aureus JKD6159]
 gi|312438354|gb|ADQ77425.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus TCH60]
 gi|315194154|gb|EFU24547.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus CGS00]
 gi|323441046|gb|EGA98753.1| transcription elongation factor NusA [Staphylococcus aureus O11]
 gi|323443915|gb|EGB01526.1| transcription elongation factor NusA [Staphylococcus aureus O46]
          Length = 391

 Score =  440 bits (1132), Expect = e-121,   Method: Composition-based stats.
 Identities = 156/392 (39%), Positives = 238/392 (60%), Gaps = 9/392 (2%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +S+N  ELL   + +  EK I R V++  +  ++  A +  Y +  ++RVE+N + G   
Sbjct: 1   MSSN--ELLLATEYLEKEKKIPRAVLIDAIEAALITAYKKNYDSARNVRVELNMDQGTFK 58

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +    +VVEEV +   ++ L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q+
Sbjct: 59  VIARKDVVEEVFDDRDEVDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQR 118

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+  + EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R
Sbjct: 119 LRDAEREILFEEFIDKEEDILTGIIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNER 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V
Sbjct: 179 IKVYVNKVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISV 238

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           FS ++ ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++
Sbjct: 239 FSENNDIDAVGACVGAKGARVEAVVEELGGEKIDIVQWNEDPKVFVKNALSPSQVLEVIV 298

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE      V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +               
Sbjct: 299 DETNQSTVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDAREAGIYPV------ 352

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKIS 393
            ++A  V E    L  A+     EE+  V + 
Sbjct: 353 -VEAEKVTEEDVALEDADTTESTEEVTDVSVE 383


>gi|27467860|ref|NP_764497.1| transcription elongation factor NusA [Staphylococcus epidermidis
           ATCC 12228]
 gi|251810697|ref|ZP_04825170.1| transcription elongation factor NusA [Staphylococcus epidermidis
           BCM-HMP0060]
 gi|282876302|ref|ZP_06285169.1| transcription termination factor NusA [Staphylococcus epidermidis
           SK135]
 gi|27315405|gb|AAO04539.1|AE016747_36 transcription termination-antitermination factor [Staphylococcus
           epidermidis ATCC 12228]
 gi|251805857|gb|EES58514.1| transcription elongation factor NusA [Staphylococcus epidermidis
           BCM-HMP0060]
 gi|281295327|gb|EFA87854.1| transcription termination factor NusA [Staphylococcus epidermidis
           SK135]
          Length = 407

 Score =  440 bits (1132), Expect = e-121,   Method: Composition-based stats.
 Identities = 153/396 (38%), Positives = 237/396 (59%), Gaps = 5/396 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +S+N  ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   
Sbjct: 1   MSSN--ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGSFR 58

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +    EVVEEV +   ++ L  A  ++P+ ++G +    + P DFGRV  Q+AKQ ++Q+
Sbjct: 59  VIARKEVVEEVFDDRDEVDLSTALVKNPAYEVGDIYEQDVTPKDFGRVGAQAAKQAVMQR 118

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R
Sbjct: 119 LRDAEREILYDEFIDKEEDILTGVIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNER 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V
Sbjct: 179 IKVYVNKVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISV 238

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S +  ID VGACVG +G+RV+AVV EL  EKIDIV W  D   FV NAL P+ V +V++
Sbjct: 239 YSDNPDIDAVGACVGSKGARVEAVVEELGGEKIDIVQWDEDPKVFVRNALSPSQVLEVIV 298

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK---DFNER 358
           DE+     V+VP  QLSLAIG+RGQN RLA++LT W IDI +E +          +  E 
Sbjct: 299 DEENQSTVVVVPDYQLSLAIGKRGQNARLAAKLTSWKIDIKSESDAREAGIYPVIESEEV 358

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISE 394
               + + + D    ++ + E      ELA     +
Sbjct: 359 ADEIVNSGDEDVEFDNVNLEETNLTSTELAAETDED 394


>gi|223044244|ref|ZP_03614281.1| transcription termination factor NusA [Staphylococcus capitis SK14]
 gi|222442394|gb|EEE48502.1| transcription termination factor NusA [Staphylococcus capitis SK14]
          Length = 407

 Score =  439 bits (1131), Expect = e-121,   Method: Composition-based stats.
 Identities = 156/396 (39%), Positives = 240/396 (60%), Gaps = 5/396 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +S+N  ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   
Sbjct: 1   MSSN--ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGSFR 58

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +    EVVEEV +   ++ L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q+
Sbjct: 59  VIARKEVVEEVFDDRDEVDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQR 118

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E+  P +R
Sbjct: 119 LRDAEREILYDEFIDKEEDILTGVIDRVDHRYVYVNLGRIEAVLSEAERSPNESYIPNER 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V
Sbjct: 179 IKVYVNKVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISV 238

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S ++ ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++
Sbjct: 239 YSDNADIDAVGACVGSKGARVEAVVEELGGEKIDIVQWNEDPKVFVRNALSPSQVLEVIV 298

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK---DFNER 358
           DE+     V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +          +  E 
Sbjct: 299 DEENQSTIVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAREAGVYPVIESEEV 358

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISE 394
               +   + D     + + E      ELA     E
Sbjct: 359 ADEIVNTGDEDVEFDDVNLEESNLTTAELAAETDEE 394


>gi|268319261|ref|YP_003292917.1| transcription elongation factor NusA [Lactobacillus johnsonii
           FI9785]
 gi|262397636|emb|CAX66650.1| transcription elongation factor NusA [Lactobacillus johnsonii
           FI9785]
          Length = 394

 Score =  439 bits (1131), Expect = e-121,   Method: Composition-based stats.
 Identities = 137/380 (36%), Positives = 220/380 (57%), Gaps = 2/380 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+++    +  EK I ++V++  +  ++  A +  Y    ++ V  + + G+  +  +
Sbjct: 2   SKEMVEAFATLEKEKGIKQEVIVDAIKAALVAAYKKNYNQAQNVEVVFDEKKGNFKVNAI 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   ++SLK A + + + ++G  +   + P DFGR+A Q+AKQVI+Q++REA
Sbjct: 62  KTVVDEVQDSRLEVSLKDALEINRAYEVGDEIRFEVTPKDFGRLAAQTAKQVIMQRLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+    E+     EI++GTV+R +   V V +GN + V+  ++ +  E   P D+V+  
Sbjct: 122 EREHIISEYSQYKDEIVTGTVERRDNRFVYVKIGNVEAVMPHNDQLPGETYNPQDKVRVL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+ +SRT P  + +LF  EVPE+Y+G V++ +++R+ G R K+AV S+D
Sbjct: 182 VTRVGSDSKGAQITVSRTAPDLVKRLFEQEVPEVYDGTVEIVSIAREAGDRTKIAVKSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DE 303
           S IDPVG  VG +G+RVQ +V EL  E ID+V +  + + F+ NAL PA V  V    DE
Sbjct: 242 SDIDPVGTLVGPKGARVQNIVNELGGENIDVVKYEDNPSDFIANALNPAEVIAVQFSGDE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D     VIVP  QLSLAIG+RGQNVRLA++LTG+ IDI  E +      +  +       
Sbjct: 302 DDKNALVIVPDYQLSLAIGKRGQNVRLAARLTGYKIDIKPESQVEFVDSEGDDVEADQET 361

Query: 364 QAINVDEIIAHLLVAEGFAD 383
              NV        +AE   D
Sbjct: 362 TNDNVSNEETPEAIAEQIED 381


>gi|329736283|gb|EGG72555.1| transcription termination factor NusA [Staphylococcus epidermidis
           VCU028]
          Length = 404

 Score =  439 bits (1131), Expect = e-121,   Method: Composition-based stats.
 Identities = 161/413 (38%), Positives = 244/413 (59%), Gaps = 21/413 (5%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +S+N  ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   
Sbjct: 1   MSSN--ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGSFR 58

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +    EVVEEV +   ++ L  A  ++P+ ++G +    + P DFGRV  Q+AKQ ++Q+
Sbjct: 59  VIARKEVVEEVFDDRDEVDLSTALVKNPAYEVGDIYEQDVTPKDFGRVGAQAAKQAVMQR 118

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R
Sbjct: 119 LRDAEREILYDEFIDKEEDILTGVIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNER 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V
Sbjct: 179 IKVYVNKVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISV 238

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S +  ID VGACVG +G+RV+AVV EL  EKIDIV W  D   FV NAL P+ V +V++
Sbjct: 239 YSDNPDIDAVGACVGSKGARVEAVVEELGGEKIDIVQWDEDPKVFVRNALSPSQVLEVIV 298

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+     V+VP  QLSLAIG+RGQN RLA++LT W IDI +E +          E    
Sbjct: 299 DEENQSTVVVVPDYQLSLAIGKRGQNARLAAKLTSWKIDIKSESDAREAGIYPVIE---- 354

Query: 362 FMQAINVDEIIAHLLVAEGFADVE------ELACVKISEIASIEGFDEETAVE 408
                   E +A  +V  G  DVE      E   +  +E+A+    DE+   E
Sbjct: 355 -------SEEVADEIVNSGDEDVEFDNVNLEETNLTSTELAAEN--DEDKTEE 398


>gi|239907795|ref|YP_002954536.1| transcription elongation protein NusA [Desulfovibrio magneticus
           RS-1]
 gi|239797661|dbj|BAH76650.1| transcription elongation protein NusA [Desulfovibrio magneticus
           RS-1]
          Length = 463

 Score =  439 bits (1131), Expect = e-121,   Method: Composition-based stats.
 Identities = 170/411 (41%), Positives = 266/411 (64%), Gaps = 7/411 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL +  D ++ ++ IDRD+++  + ++++ +    YG   D+ V  N E G+I +++ 
Sbjct: 1   MTELKKAIDQISKDRGIDRDLLVDTLEEAVRSSVIRKYGENLDVEVSYNDEQGEIEVYQF 60

Query: 66  LEVVEEVEN--YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVE+ +      +I L  A+  DP++ +   +   L   D GR+A QSAKQVIIQ++R
Sbjct: 61  KVVVEDDDVADPAAEICLSDAKAIDPNVALEDEMGFKLAVEDLGRIAAQSAKQVIIQRMR 120

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           +AE++  Y E+KD+ GEIISG ++R +    I++LG ++ ++ ++E I RE  + GDRV+
Sbjct: 121 DAEQEIIYEEYKDRKGEIISGIIQRRDRAGWIINLGRTEALLPKEEQIPRERYKRGDRVQ 180

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           ++I +V    RGPQ+++SRTH  +M  LF  EVPE+ +G V++ AV+RDPGSRAK+AV S
Sbjct: 181 AFIIEVLPSGRGPQIIVSRTHGDYMKALFAREVPEVSDGTVKIVAVARDPGSRAKVAVIS 240

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D  +DPVGACVG+RGSR+Q +V ELR E+IDIVVW+P+ A++  NAL P+ VT++ +DE
Sbjct: 241 KDRDVDPVGACVGIRGSRIQNIVQELRGERIDIVVWNPEIASYAANALSPSRVTRISVDE 300

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   +EV+V  +QL+LAIGR+GQNV+LA++L GW IDI+TE      R ++ N   +F  
Sbjct: 301 DEKSLEVVVTDDQLNLAIGRKGQNVKLAAKLLGWKIDIVTES-----RFREANASKKFLE 355

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
           Q  +V EI    ++A GF  +E+LA      I +I G       +++   +
Sbjct: 356 QLASVAEIHVDNIIAAGFVSMEQLAEADDEAIDAIVGMTPSKRDDLRAALK 406


>gi|289423074|ref|ZP_06424889.1| transcription termination factor NusA [Peptostreptococcus
           anaerobius 653-L]
 gi|289156405|gb|EFD05055.1| transcription termination factor NusA [Peptostreptococcus
           anaerobius 653-L]
          Length = 424

 Score =  439 bits (1131), Expect = e-121,   Method: Composition-based stats.
 Identities = 168/437 (38%), Positives = 264/437 (60%), Gaps = 26/437 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            +E +Q  + +  ++ ID++V+L  +  ++  A +  +G+  ++R+++N ETGDI ++  
Sbjct: 2   NVEFMQALEELVKDRGIDKEVLLETIEQALTSAYKKNFGSAQNVRIDLNRETGDIKVYSQ 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV+E  + +   +I L  AR+  P+ ++G ++   + PMDFGR+A Q+AKQ+++QK+R
Sbjct: 62  RVVVDEQDLYDNFLEIELSEAREISPNYELGDIIEHEVTPMDFGRIAAQTAKQIVVQKIR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGN----VIVDLGNSDGVIRRDETISRENLRPG 179
           EAER+  Y EF +K  E+I+G + R    +    V   +G  +GV+   E I  E  + G
Sbjct: 122 EAEREMTYNEFIEKQDELITGEISRTSQRDGKCIVFAQIGKGEGVLLASEQIRGEEYKIG 181

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
             +K Y+ DV +  + PQ+LLSR+H   + +LF MEVPEI +G VQ+K++SR+ GSR K+
Sbjct: 182 TNMKFYVVDVNKTSKNPQILLSRSHTGLVKRLFEMEVPEIQDGTVQIKSISREAGSRTKM 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S+D +IDP+GACVG +GSRV+ +V EL DEKIDIV +S D   FV  +L P+ VTKV
Sbjct: 242 AVLSTDENIDPIGACVGTQGSRVRNIVDELGDEKIDIVKYSDDIGQFVEASLSPSKVTKV 301

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
            ++E      VIVP  QLSLAIG+ GQN RLA++LT W IDI  E + +   ++      
Sbjct: 302 FVNEKEKSAVVIVPDYQLSLAIGKEGQNARLAARLTNWKIDIKPESDFTEEDERAL---- 357

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
                   +++I +  L  E     EE A  +++E    E  D+E A+E    A+E +E 
Sbjct: 358 --------LEKIASDKLAVE-----EEKASKELAEENPAEDMDKEVALE---SAQEAMEP 401

Query: 420 IDITLQKKIRELGVSEE 436
            D+ + ++I   G  EE
Sbjct: 402 ADVEVAEEILSDGEVEE 418


>gi|187934771|ref|YP_001885468.1| transcription elongation factor NusA [Clostridium botulinum B str.
           Eklund 17B]
 gi|187722924|gb|ACD24145.1| transcription termination factor NusA [Clostridium botulinum B str.
           Eklund 17B]
          Length = 384

 Score =  439 bits (1131), Expect = e-121,   Method: Composition-based stats.
 Identities = 147/374 (39%), Positives = 238/374 (63%), Gaps = 4/374 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG----TMSDIRVEINPETGDIS 61
             E +     +  EK I  D++ + + D++  A +  Y     +  ++++ IN E G+I 
Sbjct: 2   NEEFVGALKEIVKEKGISEDLLFTTIEDAMVAAYKKNYANLNTSAQNVKISINRENGEIH 61

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++    VV+EV +   +ISL+ A+  +P  ++  +V   + P +FGRVA Q AKQV+ Q+
Sbjct: 62  VYAQKMVVDEVYDEVTEISLEEAKAINPKYEVDDIVDLEVTPKNFGRVAAQLAKQVVTQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++EAER+  Y E+K+K  +II+GT+ R + G V V LG  +G+I  +E +S E+ R  ++
Sbjct: 122 IKEAERNIIYSEYKEKEFDIITGTILRKDKGMVFVSLGKIEGIIGPNEQMSNEDYRFNEK 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K YI +V+   +G QV +SRTHP  + +LF +EVPEI+NG+V++K++SR+ GSR+K+AV
Sbjct: 182 LKLYIVEVKNTSKGAQVHVSRTHPGLVKRLFELEVPEIFNGVVEIKSISREAGSRSKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S+D  +D +GACVG +G RVQ +V EL++EKIDI+ W+ D A F+ NAL PA V    +
Sbjct: 242 YSNDEEVDAMGACVGPKGIRVQNIVNELKNEKIDIIKWNKDPAEFISNALSPAKVISAEV 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           +E+    +++V  +QLSLAIG+ GQNVRLA++LT W IDI ++ +      +      Q 
Sbjct: 302 NEESKSAKIVVADDQLSLAIGKEGQNVRLAAKLTNWKIDIKSKSQQEALEAEKEKAMDQN 361

Query: 362 FMQAINVDEIIAHL 375
              + +V E +A L
Sbjct: 362 ADISEDVTENVAEL 375


>gi|307243330|ref|ZP_07525494.1| transcription termination factor NusA [Peptostreptococcus stomatis
           DSM 17678]
 gi|306493277|gb|EFM65266.1| transcription termination factor NusA [Peptostreptococcus stomatis
           DSM 17678]
          Length = 423

 Score =  439 bits (1131), Expect = e-121,   Method: Composition-based stats.
 Identities = 167/406 (41%), Positives = 247/406 (60%), Gaps = 18/406 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E +Q  D +  ++ ID+DV+L  +  ++  A +  +G+  ++R+++N ETGDI ++  
Sbjct: 2   NTEFIQALDELVRDRGIDKDVLLETIEQALTSAYKKNFGSAQNVRIDMNRETGDIKVYSQ 61

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV+E  + +   +I L  AR+ +P+ ++G ++   + P DFGR+A Q+AKQ+++QK+R
Sbjct: 62  RVVVDESDLYDNFLEIELSEAREINPNYELGDIIEHEVTPKDFGRIAAQTAKQIVVQKIR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGN----VIVDLGNSDGVIRRDETISRENLRPG 179
           EAER+  Y EF +K  E+++G + R    +    V V +G  +GV+ + E I  E+ + G
Sbjct: 122 EAEREMTYNEFLEKQDELVTGEISRTSSRDGKQIVFVQIGKGEGVLLQSEQIRNEDYKIG 181

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
             +K Y+ +V R  + PQ+LLSRT+   + +LF MEVPEI  GIV +K++SR+ GSR K+
Sbjct: 182 SNMKFYVLEVNRTNKNPQILLSRTNAGLVKRLFEMEVPEIQEGIVHIKSISREAGSRTKM 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S D +IDP+GACVG +G+RV+ +V EL DEKIDIV +S D ATF+  AL P+ VT+V
Sbjct: 242 AVKSIDENIDPIGACVGTQGARVRNIVDELGDEKIDIVKYSDDPATFIEAALSPSKVTRV 301

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
            +DE      VIVP  QLSLAIG+ GQN RLA++LT W IDI  E E     +    E  
Sbjct: 302 FIDEANKSAIVIVPDYQLSLAIGKEGQNARLAARLTNWKIDIKPESEFGPEEEAALLEEI 361

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASI-EGFDEE 404
           +    A    E  A  LV E        A +K  E A I  G DEE
Sbjct: 362 EKNKIAA---EEEAKRLVEE--------AELKAHEEAEILAGQDEE 396


>gi|167772658|ref|ZP_02444711.1| hypothetical protein ANACOL_04039 [Anaerotruncus colihominis DSM
           17241]
 gi|167665136|gb|EDS09266.1| hypothetical protein ANACOL_04039 [Anaerotruncus colihominis DSM
           17241]
          Length = 358

 Score =  439 bits (1130), Expect = e-121,   Method: Composition-based stats.
 Identities = 145/347 (41%), Positives = 213/347 (61%), Gaps = 3/347 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           ++ +  E  +    +  EK I R ++   +A +I  A R   G   D  V+INP+TG   
Sbjct: 7   MNTSNTEFFEALALMEKEKGIPRSLLAEKIATAIGNAIRRDMGASEDSVVDINPDTGRFY 66

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +     VV+++ +   +I  + A   D    +G +V  PL    FGR+A Q+AK VI Q 
Sbjct: 67  VAMRKTVVDDLLDPAQEILPEEAVKYDSGATLGDIVEIPLDTKQFGRIAAQTAKHVIRQG 126

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVE--YGNVIVDLGNSDGVIRRDETISRENLRPG 179
           +REAER + + EF  +  +I++ TV R +   GNV ++LG S+ V+ + E +  E    G
Sbjct: 127 IREAERGQLFAEFSSRQHDIVTATVLRTDQVRGNVTLELGKSEAVLPKGEQVPGEEYADG 186

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
            R+K Y+ DV   ++GP++++SRTHP  + +LF MEVPEI++G ++VK++SR+ GSR K+
Sbjct: 187 ARIKVYVVDVVNGEKGPRIMISRTHPGLVKRLFEMEVPEIFDGTIEVKSISREAGSRTKI 246

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV+S+D ++DPVGAC+G +G RV A+V EL  EKID+V +S D A F+  AL PA V  V
Sbjct: 247 AVWSNDENVDPVGACIGPKGQRVSAIVEELGGEKIDVVRYSADPAEFIAAALSPADVVSV 306

Query: 300 VLDED-VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
            +D D      V VP  QLSLAIG +GQN RLA++LTGW IDI  E 
Sbjct: 307 EVDPDGAKSCRVSVPDHQLSLAIGNKGQNARLAAKLTGWKIDIKPES 353


>gi|293366770|ref|ZP_06613446.1| transcription elongation factor NusA [Staphylococcus epidermidis
           M23864:W2(grey)]
 gi|291319071|gb|EFE59441.1| transcription elongation factor NusA [Staphylococcus epidermidis
           M23864:W2(grey)]
 gi|329736653|gb|EGG72919.1| transcription termination factor NusA [Staphylococcus epidermidis
           VCU045]
          Length = 407

 Score =  439 bits (1130), Expect = e-121,   Method: Composition-based stats.
 Identities = 155/384 (40%), Positives = 233/384 (60%), Gaps = 13/384 (3%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +S+N  ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   
Sbjct: 1   MSSN--ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGSFR 58

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +    EVVEEV +   ++ L  A  ++P+ ++G +    + P DFGRV  Q+AKQ ++Q+
Sbjct: 59  VIARKEVVEEVFDDRDEVDLSTALVKNPAYEVGDIYEQDVTPKDFGRVGAQAAKQAVMQR 118

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R
Sbjct: 119 LRDAEREILYDEFIDKEEDILTGVIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNER 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V
Sbjct: 179 IKVYVNKVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISV 238

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S +  ID VGACVG +G+RV+AVV EL  EKIDIV W  D   FV NAL P+ V +V++
Sbjct: 239 YSDNPDIDAVGACVGSKGARVEAVVEELGGEKIDIVQWDEDPKVFVRNALSPSQVLEVIV 298

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+     V+VP  QLSLAIG+RGQN RLA++LT W IDI +E +          E    
Sbjct: 299 DEENQSTVVVVPDYQLSLAIGKRGQNARLAAKLTSWKIDIKSESDAREAGIYPVIE---- 354

Query: 362 FMQAINVDEIIAHLLVAEGFADVE 385
                   E +A  +V  G  DVE
Sbjct: 355 -------SEEVADEIVNSGDEDVE 371


>gi|315658444|ref|ZP_07911316.1| transcription termination factor NusA [Staphylococcus lugdunensis
           M23590]
 gi|315496773|gb|EFU85096.1| transcription termination factor NusA [Staphylococcus lugdunensis
           M23590]
          Length = 387

 Score =  439 bits (1130), Expect = e-121,   Method: Composition-based stats.
 Identities = 150/368 (40%), Positives = 227/368 (61%), Gaps = 1/368 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   +     
Sbjct: 5   ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGTFKVVARKS 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV ++  ++ L  A  ++P+ ++G +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVSDHRDEVDLSTALVKNPAYEVGDIYEEDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R+K Y+ 
Sbjct: 125 EILYDEFVDKEDDILTGLIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V+S +  
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISVYSENPD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +G+RV+AVV EL  EKIDIV W  D   FV NAL P+ V +V++DE    
Sbjct: 245 IDAVGACVGAKGARVEAVVEELGGEKIDIVQWDEDPKVFVKNALSPSQVLEVIVDESNQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA-I 366
             VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E +          E      +A I
Sbjct: 305 TVVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDAREAGIYPIVEAENHADEAEI 364

Query: 367 NVDEIIAH 374
            +D+    
Sbjct: 365 EIDDESIE 372


>gi|283470481|emb|CAQ49692.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus ST398]
          Length = 391

 Score =  439 bits (1130), Expect = e-121,   Method: Composition-based stats.
 Identities = 156/395 (39%), Positives = 239/395 (60%), Gaps = 15/395 (3%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +S+N  ELL   + +  EK I R V++  +  ++  A +  Y +  ++RVE+N + G   
Sbjct: 1   MSSN--ELLLATEYLEKEKKIPRAVLIDAIEAALITAYKKNYDSARNVRVELNMDQGTFK 58

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +    +VVEEV +   ++ L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q+
Sbjct: 59  VIARKDVVEEVFDDRDEVDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQR 118

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+  + EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R
Sbjct: 119 LRDAEREILFEEFIDKEEDILTGIIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNER 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V
Sbjct: 179 IKVYVNKVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISV 238

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           FS ++ ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++
Sbjct: 239 FSENNDIDAVGACVGAKGARVEAVVEELGGEKIDIVQWNEDPKVFVKNALSPSQVLEVIV 298

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE---EDSINRQKDFNER 358
           DE      V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E    E  I    +  + 
Sbjct: 299 DETNQSTVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDAREAGIYPVVEAEKV 358

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKIS 393
           T+  +   +VD               EE+  V + 
Sbjct: 359 TEEDVALEDVDTT----------ESTEEVTDVSVE 383


>gi|228475002|ref|ZP_04059730.1| transcription termination factor NusA [Staphylococcus hominis
           SK119]
 gi|228270987|gb|EEK12375.1| transcription termination factor NusA [Staphylococcus hominis
           SK119]
          Length = 408

 Score =  439 bits (1130), Expect = e-121,   Method: Composition-based stats.
 Identities = 154/388 (39%), Positives = 232/388 (59%), Gaps = 4/388 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   +    E
Sbjct: 5   ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGTFKVIARKE 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   ++ L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDDREEVDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R+K Y+ 
Sbjct: 125 EILYSEFIDKEEDILTGVIDRVDHRYVYVNLGRIEAVLSEAERSPNETYVPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V+S +  
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISVYSENPD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +GSRV+AVV EL  EKIDIV W  D   FV NAL P+ V +V++DED   
Sbjct: 245 IDAVGACVGAKGSRVEAVVEELGGEKIDIVQWDEDPNVFVRNALSPSQVLEVIVDEDNQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +          E  +   + + 
Sbjct: 305 TVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDAREAGIYPIIESEEKADEIVF 364

Query: 368 VDEIIAHL----LVAEGFADVEELACVK 391
            ++    +    L        E  A V 
Sbjct: 365 SEDKDIEIDDINLEETNLTTTELSAEVD 392


>gi|329724329|gb|EGG60841.1| transcription termination factor NusA [Staphylococcus epidermidis
           VCU144]
          Length = 407

 Score =  439 bits (1130), Expect = e-121,   Method: Composition-based stats.
 Identities = 153/396 (38%), Positives = 237/396 (59%), Gaps = 5/396 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +S+N  ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   
Sbjct: 1   MSSN--ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGSFR 58

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +    EVVEEV +   ++ L  A  ++P+ ++G +    + P DFGRV  Q+AKQ ++Q+
Sbjct: 59  VIARKEVVEEVFDDRDEVDLSTALVKNPAYEVGDIYEQDVTPKDFGRVGAQAAKQAVMQR 118

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R
Sbjct: 119 LRDAEREILYDEFIDKEEDILTGVIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNER 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V
Sbjct: 179 IKVYVNKVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISV 238

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S +  ID VGACVG +G+RV+AVV EL  EKIDIV W  D   FV NAL P+ V +V++
Sbjct: 239 YSDNPDIDAVGACVGSKGARVEAVVEELGGEKIDIVQWDEDPKVFVRNALSPSQVLEVIV 298

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK---DFNER 358
           DE+     V+VP  QLSLAIG+RGQN RLA++LT W IDI +E +          +  E 
Sbjct: 299 DEENQSTVVVVPDYQLSLAIGKRGQNARLAAKLTSWKIDIKSESDAREAGIYPVIETEEV 358

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISE 394
               + + + D    ++ + E      ELA     +
Sbjct: 359 ADEIVNSGDEDVEFDNVNLEETNLTSTELAAETDED 394


>gi|161507684|ref|YP_001577638.1| transcription elongation factor NusA [Lactobacillus helveticus DPC
           4571]
 gi|160348673|gb|ABX27347.1| transcription termination-antitermination factor [Lactobacillus
           helveticus DPC 4571]
          Length = 393

 Score =  439 bits (1130), Expect = e-121,   Method: Composition-based stats.
 Identities = 132/354 (37%), Positives = 214/354 (60%), Gaps = 2/354 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +   K I +DV++  +  ++  A +  Y    ++ V+ +   G+  +  +
Sbjct: 2   SKEMLEAFATLEKTKGIKQDVIVDAIKAALVAAYKKNYNQAQNVEVDFDERRGNFKVMAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   ++SLK A   + + ++G  +   + P +FGR+A Q+AKQVI+Q++REA
Sbjct: 62  KTVVDEVQDDRLEVSLKDALAINRAYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER     E+     E+++GTV+R +   V V +GN + ++ + + +  E   P D+++  
Sbjct: 122 ERSHIIDEYSQYEDELVTGTVERRDNRFVYVKIGNVEAIMPQCDQMPNEVYNPQDQIRVL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+++SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S+D
Sbjct: 182 VTHVGSDSKGAQIVVSRTAPDVVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKMAVKSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DE 303
            +IDPVG CVG +G+RVQ VV EL  E ID+V +  D + F+ NAL PA V  V    DE
Sbjct: 242 PNIDPVGTCVGQKGARVQNVVNELGGENIDVVKYEEDPSDFIANALNPAEVIAVQFGDDE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +     VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E     +K  + 
Sbjct: 302 EEKSALVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESEVEFVDEKSDDS 355


>gi|314936573|ref|ZP_07843920.1| transcription termination factor NusA [Staphylococcus hominis
           subsp. hominis C80]
 gi|313655192|gb|EFS18937.1| transcription termination factor NusA [Staphylococcus hominis
           subsp. hominis C80]
          Length = 408

 Score =  439 bits (1130), Expect = e-121,   Method: Composition-based stats.
 Identities = 154/388 (39%), Positives = 232/388 (59%), Gaps = 4/388 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   +    E
Sbjct: 5   ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGTFKVIARKE 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   ++ L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q++R+AER
Sbjct: 65  VVEEVFDDREEVDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQRLRDAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R+K Y+ 
Sbjct: 125 EILYSEFIDKEEDILTGVIDRVDHRYVYVNLGRIEAVLSEAERSPNETYVPNERIKVYVN 184

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V+S +  
Sbjct: 185 KVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISVYSENPD 244

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           ID VGACVG +GSRV+AVV EL  EKIDIV W  D   FV NAL P+ V +V++DED   
Sbjct: 245 IDAVGACVGAKGSRVEAVVEELGGEKIDIVQWDEDPNVFVRNALSPSQVLEVIVDEDNQS 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +          E  +   + + 
Sbjct: 305 TVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDAREAGIYPIIESEEKADEIVF 364

Query: 368 VDEIIAHL----LVAEGFADVEELACVK 391
            ++    +    L        E  A V 
Sbjct: 365 SEDKDIEIDDINLEETNLTTAELSAEVD 392


>gi|57866748|ref|YP_188415.1| transcription elongation factor NusA [Staphylococcus epidermidis
           RP62A]
 gi|57637406|gb|AAW54194.1| N utilization substance protein A, putative [Staphylococcus
           epidermidis RP62A]
          Length = 407

 Score =  439 bits (1129), Expect = e-121,   Method: Composition-based stats.
 Identities = 152/396 (38%), Positives = 236/396 (59%), Gaps = 5/396 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +S+N  ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   
Sbjct: 1   MSSN--ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGSFR 58

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +    EVVEEV +   ++ L  A  ++P+ ++G +    + P DFGRV  Q+AKQ ++Q+
Sbjct: 59  VIARKEVVEEVFDDRDEVDLSTALVKNPAYEVGDIYEQDVTPKDFGRVGAQAAKQAVMQR 118

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+  Y EF DK  +I++G + RV++  V V+ G  + V+   E    E   P +R
Sbjct: 119 LRDAEREILYDEFIDKEEDILTGVIDRVDHRYVYVNFGRIEAVLSEAERSPNEKYIPNER 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V
Sbjct: 179 IKVYVNKVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISV 238

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S +  ID VGACVG +G+RV+AVV EL  EKIDIV W  D   FV NAL P+ V +V++
Sbjct: 239 YSDNPDIDAVGACVGSKGARVEAVVEELGGEKIDIVQWDEDPKVFVRNALSPSQVLEVIV 298

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK---DFNER 358
           DE+     V+VP  QLSLAIG+RGQN RLA++LT W IDI +E +          +  E 
Sbjct: 299 DEENQSTVVVVPDYQLSLAIGKRGQNARLAAKLTSWKIDIKSESDAREAGIYPVIESEEV 358

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISE 394
               + + + D    ++ + E      ELA     +
Sbjct: 359 ADEIVNSGDEDVEFDNVNLEETNLTSTELAAETDED 394


>gi|222526490|ref|YP_002570961.1| NusA antitermination factor [Chloroflexus sp. Y-400-fl]
 gi|222450369|gb|ACM54635.1| NusA antitermination factor [Chloroflexus sp. Y-400-fl]
          Length = 442

 Score =  439 bits (1129), Expect = e-121,   Method: Composition-based stats.
 Identities = 144/345 (41%), Positives = 223/345 (64%), Gaps = 5/345 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS---DIRVEINPETGDISL 62
           + +       +A E+ I ++ ++ VM  ++  A R L G      D+ V+++P +G   +
Sbjct: 2   KSDFYAAITQIASERGIPKEAIIDVMERALVSAYRRLLGPNPPAIDVVVKLDPVSGVARV 61

Query: 63  FRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           +   +VV+EV +   +I L+ AR   P   IG  V     P DFGR+A Q+AKQV++Q +
Sbjct: 62  YAEKQVVDEVYDERFEIDLEAARRIKPDAQIGEAVLVESTPRDFGRIAAQTAKQVVLQGI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVE--YGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           ++ ER+  Y EF+D+ GE+++ TV+R     GNVI++LG ++ +I   E ++ +    G 
Sbjct: 122 KDIERNYIYSEFEDREGELLTATVQRNNGPRGNVILELGKAEAIIPPKEQVANDRYYHGQ 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K Y+ +V++++RGP+++ SR H   +++LF MEVPEIYNG V++K+++R+PG R K+A
Sbjct: 182 RLKVYLMEVKKDERGPRLIASRAHKNLILRLFEMEVPEIYNGAVEIKSIAREPGLRTKVA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V +    IDPVG+CVGMRG R+Q +V EL  EKID+V WS D   ++ NAL PA V +V 
Sbjct: 242 VAARQEGIDPVGSCVGMRGIRIQNIVNELNGEKIDVVQWSSDPREYIANALSPAQVVEVH 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           L++      VIVP +QLSLAIG+ GQNVRLA++LTGW IDI +  
Sbjct: 302 LNDHEHTALVIVPDKQLSLAIGKEGQNVRLAAKLTGWRIDIKSAS 346


>gi|189424726|ref|YP_001951903.1| transcription elongation factor NusA [Geobacter lovleyi SZ]
 gi|189420985|gb|ACD95383.1| NusA antitermination factor [Geobacter lovleyi SZ]
          Length = 385

 Score =  439 bits (1129), Expect = e-121,   Method: Composition-based stats.
 Identities = 180/371 (48%), Positives = 245/371 (66%), Gaps = 5/371 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L Q  + +  EK IDR VV+  M  ++  AA   Y    ++    N +TG++ LF  + V
Sbjct: 7   LKQAIEQIVKEKGIDRQVVIEAMEQAVLSAANKKYRNTRNLEAHYNNDTGEVELFEYVVV 66

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VEEV++   +ISL  AR+ DP  ++G  + + +   DFGR+A Q+AKQVIIQKVREAER+
Sbjct: 67  VEEVQDSYTEISLDEAREMDPECEVGDELGEKIDSGDFGRIAAQTAKQVIIQKVREAERE 126

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
             + E+KD+  EI++G V+R E G++++DLG ++ ++   E + RE  RPGDR+++ I D
Sbjct: 127 TVFNEYKDRQWEIVTGQVRRFERGDLLIDLGRAEAILSGKEQMPREVYRPGDRIRAIITD 186

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           +    +GPQ++LSRTHPQ + KLF  EVPEI  G+V++  V RDPGSRAK+AV S D  I
Sbjct: 187 IAMTTKGPQIILSRTHPQMLAKLFEAEVPEIGEGLVEIVNVVRDPGSRAKIAVASHDRDI 246

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI 308
           DPVGACVGMRGSRVQ VV+ELR EKIDI+ WS D A FV NAL PA V KV +DE+   +
Sbjct: 247 DPVGACVGMRGSRVQNVVSELRGEKIDIIPWSADIARFVCNALSPAQVVKVFMDEEQRTL 306

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINV 368
           EVIVP +QLSLAIG+RGQNV LA++LTG  IDI  E +      ++F           +V
Sbjct: 307 EVIVPDDQLSLAIGKRGQNVSLAARLTGCRIDIKGEGKVEEGDLEEFASF-----DGTHV 361

Query: 369 DEIIAHLLVAE 379
           +E    + V E
Sbjct: 362 EEEPEEMAVDE 372


>gi|320144367|gb|EFW36133.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus MRSA177]
          Length = 391

 Score =  439 bits (1129), Expect = e-121,   Method: Composition-based stats.
 Identities = 156/392 (39%), Positives = 238/392 (60%), Gaps = 9/392 (2%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +S+N  ELL   + +  EK I R V++  +  ++  A +  Y +  ++RVE+N + G   
Sbjct: 1   MSSN--ELLLATEYLEKEKKIPRAVLIDAIEAALITAYKKNYDSARNVRVELNMDQGTFK 58

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +    +VVEEV +   ++ L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q+
Sbjct: 59  VIARKDVVEEVFDDRVEVDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQR 118

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+  + EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R
Sbjct: 119 LRDAEREILFEEFIDKEEDILTGIIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNER 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V
Sbjct: 179 IKVYVNKVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISV 238

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           FS ++ ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++
Sbjct: 239 FSENNDIDAVGACVGAKGARVEAVVEELGGEKIDIVQWNEDPKVFVKNALSPSQVLEVIV 298

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE      V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +               
Sbjct: 299 DETNQSTVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDAREAGIYPV------ 352

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKIS 393
            ++A  V E    L  A+     EE+  V + 
Sbjct: 353 -VEAEKVTEEDVALEDADTTESTEEVNDVSVE 383


>gi|118579397|ref|YP_900647.1| transcription elongation factor NusA [Pelobacter propionicus DSM
           2379]
 gi|118502107|gb|ABK98589.1| NusA antitermination factor [Pelobacter propionicus DSM 2379]
          Length = 401

 Score =  439 bits (1129), Expect = e-121,   Method: Composition-based stats.
 Identities = 180/394 (45%), Positives = 247/394 (62%), Gaps = 5/394 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            + L    + +  EK IDR VVL  M  ++  AA   Y    D+    N +TG++ LF  
Sbjct: 4   NISLKHAIEQIVKEKGIDRQVVLEAMEQAVLTAANKKYRNTRDLEARYNSDTGEVELFEF 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           + VVEEVE+   +ISL  AR+ DP +++G  + + +    F R+A Q+AKQVIIQKVREA
Sbjct: 64  VIVVEEVEDSYKEISLDEAREIDPDVEVGDSLGEKIDSSGFTRIAAQTAKQVIIQKVREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  + E+ D+  E+I+G V+R E G++++DLG ++ V+   E + RE  RPGDR+++ 
Sbjct: 124 ERETIFNEYSDRQWEVITGMVRRFEKGDLLIDLGRAEAVLPSKEQMPREVYRPGDRIRAI 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I D+R   +GPQ++LSRTHP  + KLF  EVPE+  GIV++ A+ RDPGSRAKLAV S+D
Sbjct: 184 ITDIRVTPKGPQIILSRTHPSMLAKLFEAEVPEVAEGIVEINAIVRDPGSRAKLAVSSND 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVGMRGSRVQ VV+ELR EKIDI+ WS D A F  NAL PA V+KV +DED 
Sbjct: 244 PDVDPVGACVGMRGSRVQNVVSELRGEKIDIIPWSEDIARFACNALSPAQVSKVFVDEDN 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT-----EEEDSINRQKDFNERTQ 360
             +EV+V  +QLSLAIG+RGQNV LA++LTG  IDI +     E E       D  +   
Sbjct: 304 RALEVVVADDQLSLAIGKRGQNVSLAARLTGCRIDIKSEAKAAEAELQAYASYDGTQLED 363

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISE 394
             M+   V       +  +    VE +     +E
Sbjct: 364 EEMEEGEVAADEQDAVETDAVETVETVETAPEAE 397


>gi|15924256|ref|NP_371790.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus Mu50]
 gi|15926849|ref|NP_374382.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus N315]
 gi|148267756|ref|YP_001246699.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus JH9]
 gi|150393815|ref|YP_001316490.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus JH1]
 gi|156979587|ref|YP_001441846.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus Mu3]
 gi|253315622|ref|ZP_04838835.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus str. CF-Marseille]
 gi|253733496|ref|ZP_04867661.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus TCH130]
 gi|255006053|ref|ZP_05144654.2| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus Mu50-omega]
 gi|257795678|ref|ZP_05644657.1| transcription termination factor NusA [Staphylococcus aureus A9781]
 gi|258416081|ref|ZP_05682349.1| transcription termination-antitermination factor [Staphylococcus
           aureus A9763]
 gi|258421664|ref|ZP_05684588.1| transcription termination factor NusA [Staphylococcus aureus A9719]
 gi|258444604|ref|ZP_05692933.1| transcription termination-antitermination factor [Staphylococcus
           aureus A8115]
 gi|258447563|ref|ZP_05695707.1| transcription termination-antitermination factor [Staphylococcus
           aureus A6300]
 gi|258449405|ref|ZP_05697508.1| transcription termination-antitermination factor [Staphylococcus
           aureus A6224]
 gi|258454784|ref|ZP_05702748.1| transcription termination-antitermination factor [Staphylococcus
           aureus A5937]
 gi|269202883|ref|YP_003282152.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus ED98]
 gi|282892754|ref|ZP_06300989.1| transcription termination factor NusA [Staphylococcus aureus A8117]
 gi|282927608|ref|ZP_06335224.1| transcription termination factor NusA [Staphylococcus aureus
           A10102]
 gi|295406203|ref|ZP_06816010.1| transcription termination factor NusA [Staphylococcus aureus A8819]
 gi|296274824|ref|ZP_06857331.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus MR1]
 gi|297244431|ref|ZP_06928314.1| transcription termination factor NusA [Staphylococcus aureus A8796]
 gi|13701066|dbj|BAB42361.1| transcription termination-antitermination factor [Staphylococcus
           aureus subsp. aureus N315]
 gi|14247036|dbj|BAB57428.1| transcription termination-antitermination factor [Staphylococcus
           aureus subsp. aureus Mu50]
 gi|147740825|gb|ABQ49123.1| NusA antitermination factor [Staphylococcus aureus subsp. aureus
           JH9]
 gi|149946267|gb|ABR52203.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus JH1]
 gi|156721722|dbj|BAF78139.1| transcription termination-antitermination factor [Staphylococcus
           aureus subsp. aureus Mu3]
 gi|253728550|gb|EES97279.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus TCH130]
 gi|257789650|gb|EEV27990.1| transcription termination factor NusA [Staphylococcus aureus A9781]
 gi|257839229|gb|EEV63705.1| transcription termination-antitermination factor [Staphylococcus
           aureus A9763]
 gi|257842350|gb|EEV66775.1| transcription termination factor NusA [Staphylococcus aureus A9719]
 gi|257850097|gb|EEV74050.1| transcription termination-antitermination factor [Staphylococcus
           aureus A8115]
 gi|257853754|gb|EEV76713.1| transcription termination-antitermination factor [Staphylococcus
           aureus A6300]
 gi|257857393|gb|EEV80291.1| transcription termination-antitermination factor [Staphylococcus
           aureus A6224]
 gi|257863167|gb|EEV85931.1| transcription termination-antitermination factor [Staphylococcus
           aureus A5937]
 gi|262075173|gb|ACY11146.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus ED98]
 gi|282590611|gb|EFB95688.1| transcription termination factor NusA [Staphylococcus aureus
           A10102]
 gi|282764751|gb|EFC04876.1| transcription termination factor NusA [Staphylococcus aureus A8117]
 gi|285816948|gb|ADC37435.1| Transcription termination protein NusA [Staphylococcus aureus
           04-02981]
 gi|294968791|gb|EFG44813.1| transcription termination factor NusA [Staphylococcus aureus A8819]
 gi|297178461|gb|EFH37707.1| transcription termination factor NusA [Staphylococcus aureus A8796]
 gi|312829660|emb|CBX34502.1| transcription elongation protein nusA [Staphylococcus aureus subsp.
           aureus ECT-R 2]
 gi|315131060|gb|EFT87044.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus CGS03]
 gi|329727637|gb|EGG64093.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus 21172]
          Length = 391

 Score =  439 bits (1129), Expect = e-121,   Method: Composition-based stats.
 Identities = 156/392 (39%), Positives = 238/392 (60%), Gaps = 9/392 (2%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +S+N  ELL   + +  EK I R V++  +  ++  A +  Y +  ++RVE+N + G   
Sbjct: 1   MSSN--ELLLATEYLEKEKKIPRAVLIDAIEAALITAYKKNYDSARNVRVELNMDQGTFK 58

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +    +VVEEV +   ++ L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q+
Sbjct: 59  VIARKDVVEEVFDDRDEVDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQR 118

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+  + EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R
Sbjct: 119 LRDAEREILFEEFIDKEEDILTGIIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNER 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V
Sbjct: 179 IKVYVNKVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISV 238

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           FS ++ ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++
Sbjct: 239 FSENNDIDAVGACVGAKGARVEAVVEELGGEKIDIVQWNEDPKVFVKNALSPSQVLEVIV 298

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE      V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +               
Sbjct: 299 DETNQSTVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDAREAGIYPV------ 352

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKIS 393
            ++A  V E    L  A+     EE+  V + 
Sbjct: 353 -VEAEKVTEEDIALEDADTTESTEEVNDVSVE 383


>gi|57651836|ref|YP_186142.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus COL]
 gi|87160356|ref|YP_493856.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus USA300_FPR3757]
 gi|88194976|ref|YP_499776.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus NCTC 8325]
 gi|151221388|ref|YP_001332210.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus str. Newman]
 gi|161509432|ref|YP_001575091.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus USA300_TCH1516]
 gi|221142500|ref|ZP_03566993.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus str. JKD6009]
 gi|258452565|ref|ZP_05700571.1| transcription termination-antitermination factor [Staphylococcus
           aureus A5948]
 gi|262048158|ref|ZP_06021045.1| transcription elongation factor NusA [Staphylococcus aureus D30]
 gi|262051328|ref|ZP_06023551.1| transcription elongation factor NusA [Staphylococcus aureus
           930918-3]
 gi|282920510|ref|ZP_06328231.1| transcription termination factor NusA [Staphylococcus aureus A9765]
 gi|284024259|ref|ZP_06378657.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus 132]
 gi|294848262|ref|ZP_06789009.1| transcription termination factor NusA [Staphylococcus aureus A9754]
 gi|304381170|ref|ZP_07363823.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus ATCC BAA-39]
 gi|57286022|gb|AAW38116.1| N utilization substance protein A, putative [Staphylococcus aureus
           subsp. aureus COL]
 gi|87126330|gb|ABD20844.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus USA300_FPR3757]
 gi|87202534|gb|ABD30344.1| transcription termination-antitermination factor, putative
           [Staphylococcus aureus subsp. aureus NCTC 8325]
 gi|150374188|dbj|BAF67448.1| transcription termination-antitermination factor [Staphylococcus
           aureus subsp. aureus str. Newman]
 gi|160368241|gb|ABX29212.1| N utilization substance A [Staphylococcus aureus subsp. aureus
           USA300_TCH1516]
 gi|257859783|gb|EEV82625.1| transcription termination-antitermination factor [Staphylococcus
           aureus A5948]
 gi|259160703|gb|EEW45724.1| transcription elongation factor NusA [Staphylococcus aureus
           930918-3]
 gi|259163724|gb|EEW48279.1| transcription elongation factor NusA [Staphylococcus aureus D30]
 gi|269940757|emb|CBI49139.1| putative N utilization substance protein A [Staphylococcus aureus
           subsp. aureus TW20]
 gi|282594172|gb|EFB99159.1| transcription termination factor NusA [Staphylococcus aureus A9765]
 gi|294825062|gb|EFG41484.1| transcription termination factor NusA [Staphylococcus aureus A9754]
 gi|302751089|gb|ADL65266.1| transcription termination-antitermination factor [Staphylococcus
           aureus subsp. aureus str. JKD6008]
 gi|304340153|gb|EFM06094.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus ATCC BAA-39]
 gi|315198508|gb|EFU28837.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus CGS01]
 gi|320140917|gb|EFW32764.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus MRSA131]
 gi|329313936|gb|AEB88349.1| NusA antitermination factor [Staphylococcus aureus subsp. aureus
           T0131]
 gi|329727836|gb|EGG64287.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus 21189]
 gi|329733550|gb|EGG69878.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus 21193]
          Length = 391

 Score =  439 bits (1129), Expect = e-121,   Method: Composition-based stats.
 Identities = 156/392 (39%), Positives = 238/392 (60%), Gaps = 9/392 (2%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +S+N  ELL   + +  EK I R V++  +  ++  A +  Y +  ++RVE+N + G   
Sbjct: 1   MSSN--ELLLATEYLEKEKKIPRAVLIDAIEAALITAYKKNYDSARNVRVELNMDQGTFK 58

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +    +VVEEV +   ++ L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q+
Sbjct: 59  VIARKDVVEEVFDDRDEVDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQR 118

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+  + EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R
Sbjct: 119 LRDAEREILFEEFIDKEEDILTGIIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNER 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V
Sbjct: 179 IKVYVNKVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISV 238

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           FS ++ ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++
Sbjct: 239 FSENNDIDAVGACVGAKGARVEAVVEELGGEKIDIVQWNEDPKVFVKNALSPSQVLEVIV 298

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE      V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +               
Sbjct: 299 DETNQSTVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDAREAGIYPV------ 352

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKIS 393
            ++A  V E    L  A+     EE+  V + 
Sbjct: 353 -VEAEKVTEEDVALEDADTTESTEEVNDVSVE 383


>gi|314933445|ref|ZP_07840810.1| transcription termination factor NusA [Staphylococcus caprae C87]
 gi|313653595|gb|EFS17352.1| transcription termination factor NusA [Staphylococcus caprae C87]
          Length = 407

 Score =  439 bits (1129), Expect = e-121,   Method: Composition-based stats.
 Identities = 155/396 (39%), Positives = 237/396 (59%), Gaps = 5/396 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +S+N  ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   
Sbjct: 1   MSSN--ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGSFR 58

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +    EVVEEV +   ++ L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q+
Sbjct: 59  VIARKEVVEEVFDDRDEVDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQR 118

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+  Y EF DK  +I++G + RV++  V V+ G  + V+   E    E+  P +R
Sbjct: 119 LRDAEREILYDEFIDKEEDILTGVIDRVDHRYVYVNFGRIEAVLSEAERSPNESYIPNER 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V
Sbjct: 179 IKVYVNKVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISV 238

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S    ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++
Sbjct: 239 YSEKPDIDAVGACVGSKGARVEAVVEELGGEKIDIVQWNEDPKVFVRNALSPSQVLEVIV 298

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK---DFNER 358
           DE+     V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +          +  E 
Sbjct: 299 DEENQSTVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAREAGVYPVIESEEV 358

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISE 394
               +   + D     + + E      ELA     E
Sbjct: 359 ADEIVNTGDEDVEFDDVNLEESNLTTAELAAETDEE 394


>gi|156741122|ref|YP_001431251.1| NusA antitermination factor [Roseiflexus castenholzii DSM 13941]
 gi|156232450|gb|ABU57233.1| NusA antitermination factor [Roseiflexus castenholzii DSM 13941]
          Length = 442

 Score =  438 bits (1128), Expect = e-121,   Method: Composition-based stats.
 Identities = 145/343 (42%), Positives = 221/343 (64%), Gaps = 3/343 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS---DIRVEINPETGDISL 62
           + +       +A E+ I ++ ++ VM  ++  A R   G      +I V ++P TG   +
Sbjct: 2   KSDFYAAISQIASERGIPKEAIVEVMEKALATAYRRTLGPNPPPMEISVRLDPLTGAARV 61

Query: 63  FRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           +   +VV++V +   +I L+ AR   P +++G  V     P DFGR+A Q+AKQVI+Q +
Sbjct: 62  YSEKQVVDDVYDERFEIDLESARKIKPDVELGESVVVETTPKDFGRIAAQTAKQVILQGI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           +E ER+  Y E+ D+ GE+++ TV+R+  GNVI+++G ++ V+   E +  +    G R+
Sbjct: 122 KEVEREHIYGEYMDREGELVTATVQRMAKGNVILEMGKAEAVLPPKEQVETDRYYHGQRL 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           K Y+ ++RRE+RGP+++ SR H   + +LF MEVPEIYNG V++K+++R+PG R K+AV 
Sbjct: 182 KVYLMEIRREERGPKLIASRAHKNLITRLFEMEVPEIYNGAVEIKSIAREPGIRTKVAVA 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           +    IDPVG+CVGMRG R+Q +V EL  EKID+V WS +   F+ NAL PA V +V L 
Sbjct: 242 ARQEGIDPVGSCVGMRGIRIQNIVNELNGEKIDVVQWSSNPKEFIANALSPAQVVEVQLR 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +D     VIVP +QLSLAIG+ GQNVRLA++LTGW IDI +  
Sbjct: 302 DDEHAATVIVPDKQLSLAIGKEGQNVRLAAKLTGWRIDIKSAS 344


>gi|21282878|ref|NP_645966.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus MW2]
 gi|49486105|ref|YP_043326.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus MSSA476]
 gi|253731885|ref|ZP_04866050.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus USA300_TCH959]
 gi|297208088|ref|ZP_06924519.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus ATCC 51811]
 gi|300912169|ref|ZP_07129612.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus TCH70]
 gi|21204317|dbj|BAB95014.1| transcription termination-antitermination factor [Staphylococcus
           aureus subsp. aureus MW2]
 gi|49244548|emb|CAG42977.1| putative N utilization substance protein A [Staphylococcus aureus
           subsp. aureus MSSA476]
 gi|253724295|gb|EES93024.1| transcription elongation factor NusA [Staphylococcus aureus subsp.
           aureus USA300_TCH959]
 gi|296887331|gb|EFH26233.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus ATCC 51811]
 gi|300886415|gb|EFK81617.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus TCH70]
          Length = 391

 Score =  438 bits (1128), Expect = e-120,   Method: Composition-based stats.
 Identities = 156/392 (39%), Positives = 238/392 (60%), Gaps = 9/392 (2%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +S+N  ELL   + +  EK I R V++  +  ++  A +  Y +  ++RVE+N + G   
Sbjct: 1   MSSN--ELLLATEYLEKEKKIPRAVLIDAIEAALITAYKKNYDSARNVRVELNMDQGTFK 58

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +    +VVEEV +   ++ L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q+
Sbjct: 59  VIARKDVVEEVFDDRDEVDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQR 118

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+  + EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R
Sbjct: 119 LRDAEREILFEEFIDKEEDILTGIIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNER 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V
Sbjct: 179 IKVYVNKVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISV 238

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           FS ++ ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++
Sbjct: 239 FSENNDIDAVGACVGAKGARVEAVVEELGGEKIDIVQWNEDPKVFVKNALSPSQVLEVIV 298

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE      V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +               
Sbjct: 299 DETNQSTIVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDAREAGIYPV------ 352

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKIS 393
            ++A  V E    L  A+     EE+  V + 
Sbjct: 353 -VEAEKVTEEDVALEDADTTESTEEVNDVSVE 383


>gi|239636256|ref|ZP_04677258.1| transcription termination factor NusA [Staphylococcus warneri
           L37603]
 gi|239597611|gb|EEQ80106.1| transcription termination factor NusA [Staphylococcus warneri
           L37603]
          Length = 410

 Score =  438 bits (1127), Expect = e-120,   Method: Composition-based stats.
 Identities = 153/406 (37%), Positives = 241/406 (59%), Gaps = 5/406 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +S+N  ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   
Sbjct: 1   MSSN--ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGTFK 58

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +    EVVEEV +   ++ +  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q+
Sbjct: 59  VIARKEVVEEVFDDREEVDISTALVKNPAYEIGDIYEEDVTPQDFGRVGAQAAKQAVMQR 118

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E+  P +R
Sbjct: 119 LRDAEREILYDEFIDKEEDILTGVIDRVDHRYVYVNLGRIEAVLSEAERSPNESYIPNER 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K ++  V +  +GPQ+ +SR+HP  + +LF  EVPEI++G V VK+V+R+ G R+K++V
Sbjct: 179 IKVFVNKVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIFDGTVIVKSVAREAGDRSKISV 238

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S +  ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++
Sbjct: 239 YSDNPEIDAVGACVGSKGARVEAVVEELGGEKIDIVQWNEDPKVFVRNALSPSQVLEVIV 298

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK---DFNER 358
           DE+     V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +          +  E 
Sbjct: 299 DEENQSTVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSESDAREAGVYPVIESEEI 358

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEE 404
               +   + D     + + E      ELA      +   +    E
Sbjct: 359 ADEVVNTGDEDIEFEDVNLEESNLTTAELAAETDETLEDTDEVTTE 404


>gi|210622610|ref|ZP_03293270.1| hypothetical protein CLOHIR_01218 [Clostridium hiranonis DSM 13275]
 gi|210154111|gb|EEA85117.1| hypothetical protein CLOHIR_01218 [Clostridium hiranonis DSM 13275]
          Length = 390

 Score =  438 bits (1127), Expect = e-120,   Method: Composition-based stats.
 Identities = 145/371 (39%), Positives = 231/371 (62%), Gaps = 4/371 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E L   + +   K ID++V++  +  ++  A +  +G   ++ VE + + GDI ++  
Sbjct: 2   NQEFLNALNEIVETKGIDKEVLIDTIEQALLTAYKKNFGQARNVEVEFDRDNGDIKVYST 61

Query: 66  LEVVEEVE--NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV+E +  +   +I L  AR   PS +IG V+ + + P +FGR+A Q+AKQV++Q++R
Sbjct: 62  RTVVDESDYYDSFLEIELSEARKISPSYEIGDVIRNEVTPSNFGRIAAQTAKQVVVQRLR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           EAER+  Y EF ++  EI+ G + R     V VDLG  +GV+ R E I  E  + G R+K
Sbjct: 122 EAEREIVYNEFMERESEIVDGEITRATPSVVYVDLGKIEGVMPRSEKIDNETYKEGQRIK 181

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            Y+ +V++  +GPQ+++SR++   + +LF +EVPEI  GIVQ+K+++R+ GSR K+AV S
Sbjct: 182 VYVVEVKKGSKGPQIIVSRSNKGLVGRLFELEVPEIEQGIVQIKSIAREAGSRTKMAVKS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D  IDP+GACVG +GSRV+ +V EL DEKIDI+ +S D A ++  +L P+ V KV ++E
Sbjct: 242 LDDKIDPIGACVGPKGSRVKNIVDELGDEKIDIIKYSDDFAEYISASLSPSKVVKVEVNE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           +     V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E +   +      ++ +   
Sbjct: 302 EEKSALVVVPDYQLSLAIGKDGQNARLAAKLTGWKIDIKSESQYEEDLANGVYDKKE--E 359

Query: 364 QAINVDEIIAH 374
             +  ++  A 
Sbjct: 360 SELEFNDEFAD 370


>gi|258434820|ref|ZP_05688894.1| transcription termination-antitermination factor [Staphylococcus
           aureus A9299]
 gi|257849181|gb|EEV73163.1| transcription termination-antitermination factor [Staphylococcus
           aureus A9299]
          Length = 391

 Score =  438 bits (1127), Expect = e-120,   Method: Composition-based stats.
 Identities = 156/392 (39%), Positives = 238/392 (60%), Gaps = 9/392 (2%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +S+N  ELL   + +  EK I R V++  +  ++  A +  Y +  ++RVE+N + G   
Sbjct: 1   MSSN--ELLLATEYLEKEKKIPRAVLIDAIEAALITAYKKNYDSARNVRVELNMDQGTFK 58

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +    +VVEEV +   ++ L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q+
Sbjct: 59  VIARKDVVEEVFDDRDEVDLSTALVKNPAYEIGDIYEEDVTPNDFGRVGAQAAKQAVMQR 118

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+  + EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R
Sbjct: 119 LRDAEREILFEEFIDKEEDILTGIIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNER 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V
Sbjct: 179 IKVYVNKVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISV 238

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           FS ++ ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++
Sbjct: 239 FSENNDIDAVGACVGAKGARVEAVVEELGGEKIDIVQWNEDPKVFVKNALSPSQVLEVIV 298

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE      V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +               
Sbjct: 299 DETNQSTVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDAREAGIYPV------ 352

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKIS 393
            ++A  V E    L  A+     EE+  V + 
Sbjct: 353 -VEAEKVTEEDIALEDADTTESTEEVNDVSVE 383


>gi|311110885|ref|ZP_07712282.1| transcription termination factor NusA [Lactobacillus gasseri MV-22]
 gi|311066039|gb|EFQ46379.1| transcription termination factor NusA [Lactobacillus gasseri MV-22]
          Length = 406

 Score =  438 bits (1127), Expect = e-120,   Method: Composition-based stats.
 Identities = 138/399 (34%), Positives = 227/399 (56%), Gaps = 8/399 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+++    +  EK I +++++  +  ++  A +  Y    ++ V  + + G+  +  +
Sbjct: 2   SKEMVEAFATLEKEKGIKQEIIVDAIKAALVAAYKKNYNQAQNVEVVFDEKKGNFKVNAI 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   ++SLK A + + + ++G  +   + P DFGR+A Q+AKQVI+Q++REA
Sbjct: 62  KTVVDEVQDSRLEVSLKDALEINRAYEVGDEIRFEVTPKDFGRLAAQTAKQVIMQRLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+    E+     EI++GTV+R +   V V +GN + V+  ++ +  EN  P D+V+  
Sbjct: 122 EREHIISEYSQYKDEIVTGTVERRDNRFVYVKIGNVEAVMPHNDQLPGENYNPQDKVRVL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+ +SRT P  + +LF  EVPE+Y+G V++ +++R+ G R K+AV S+D
Sbjct: 182 VTRVGSDSKGAQITVSRTAPDLVKRLFEQEVPEVYDGTVEIVSIAREAGDRTKIAVKSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DE 303
             IDPVG  VG +G+RVQ +V EL  E ID+V +  + + F+ NAL PA V  V    D+
Sbjct: 242 PDIDPVGTLVGPKGTRVQNIVNELGGENIDVVKYEENPSDFIANALNPAEVIAVQFSGDD 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D     VIVP  QLSLAIG+RGQNVRLA++LTG+ IDI  E +      +  +  T   +
Sbjct: 302 DDKNALVIVPDYQLSLAIGKRGQNVRLAARLTGYKIDIKPESQVEFVDSEGDDVETDQDI 361

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
              NV    A        +  E+L      +  + E  D
Sbjct: 362 DDSNVSNEEATE------STAEQLEEDSSEDFPNGEDVD 394


>gi|269469301|gb|EEZ80807.1| transcription elongation factor [uncultured SUP05 cluster
           bacterium]
          Length = 390

 Score =  438 bits (1127), Expect = e-120,   Method: Composition-based stats.
 Identities = 172/413 (41%), Positives = 255/413 (61%), Gaps = 23/413 (5%)

Query: 101 LPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN 160
           +   +FGR+A Q  KQVIIQKVREAER+    ++  +VGE+I  TVKRV+ GNV VD+G 
Sbjct: 1   METEEFGRIAAQIFKQVIIQKVREAEREVIVDDYTKRVGEVIIVTVKRVDRGNVYVDMGG 60

Query: 161 SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIY 220
            DG+I + + I  E+ R  DR+++YI DV+   RG Q+ LSRT P+ M++LF MEVPEI 
Sbjct: 61  VDGMISKFDLIPNESTRKNDRLRAYIKDVKSTPRGAQIFLSRTAPEMMIQLFEMEVPEIS 120

Query: 221 NGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
            G++++   +RDPG R+KLAV S D  +DP+G+C+GMRGSRVQAV  EL  E++DI++W 
Sbjct: 121 EGVIEIMGGARDPGLRSKLAVKSKDKRLDPIGSCIGMRGSRVQAVSNELNGERVDIILWD 180

Query: 281 PDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
            D A FVINA+ PA V+ +V+DED   +++ V  +QL+LAIGR GQN++LAS+LTGW ++
Sbjct: 181 EDPAQFVINAMAPAEVSSIVVDEDKNSMDIAVEDDQLALAIGRGGQNIKLASRLTGWKLN 240

Query: 341 IITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEG 400
           +++  E    + ++  + +    + + VD  +A +L+ EGF  ++E+A      + SIE 
Sbjct: 241 VMSINESEDKQAEENQKVSGKLAEQLGVDSEVAGVLIEEGFGSIDEVADADADALESIEE 300

Query: 401 FDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTME 460
           FD     E+Q RA +        L + + +   SE L  + G+D  +  AL E  I T++
Sbjct: 301 FDVSMVEELQERASDA------QLVQALGDAESSEVLMGVEGMDEDLVQALIEAEIATVD 354

Query: 461 DLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           DLA  S+D+LL   E                   K++  SMI+ AR   GW +
Sbjct: 355 DLAELSIDELLDIQE-----------------MDKEKASSMIMTARENEGWFD 390


>gi|282916526|ref|ZP_06324284.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus D139]
 gi|283770330|ref|ZP_06343222.1| N utilization substance protein A [Staphylococcus aureus subsp.
           aureus H19]
 gi|282319013|gb|EFB49365.1| transcription termination factor NusA [Staphylococcus aureus subsp.
           aureus D139]
 gi|283460477|gb|EFC07567.1| N utilization substance protein A [Staphylococcus aureus subsp.
           aureus H19]
          Length = 391

 Score =  438 bits (1127), Expect = e-120,   Method: Composition-based stats.
 Identities = 152/392 (38%), Positives = 237/392 (60%), Gaps = 9/392 (2%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +S+N  ELL   + +  EK I R V++  +  ++  A +  Y +  ++RVE+N + G   
Sbjct: 1   MSSN--ELLLATEYLEKEKKIPRAVLIDAIEAALITAYKKNYDSARNVRVELNMDQGTFK 58

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +    +VVEEV +   ++ L  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q+
Sbjct: 59  VIARKDVVEEVFDDRDEVDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAKQAVMQR 118

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+  + EF DK  +I++G + RV++  V V+LG  + V+   E    E   P +R
Sbjct: 119 LRDAEREILFEEFIDKEEDILTGIIDRVDHRYVYVNLGRIEAVLSEAERSPNEKYIPNER 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G R+K++V
Sbjct: 179 IKVYVNKVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGDRSKISV 238

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           FS ++ ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++
Sbjct: 239 FSENNDIDAVGACVGAKGARVEAVVEELGGEKIDIVQWNEDPKVFVKNALSPSQVLEVIV 298

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE      V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +          E  + 
Sbjct: 299 DETNQSTVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDAREAGIYPVVEAEKA 358

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKIS 393
             + + +++              EE+  V + 
Sbjct: 359 TEEDVALEDADTT-------ESTEEVTDVSVE 383


>gi|227890227|ref|ZP_04008032.1| transcription elongation factor NusA [Lactobacillus johnsonii ATCC
           33200]
 gi|227849229|gb|EEJ59315.1| transcription elongation factor NusA [Lactobacillus johnsonii ATCC
           33200]
          Length = 416

 Score =  437 bits (1126), Expect = e-120,   Method: Composition-based stats.
 Identities = 137/380 (36%), Positives = 220/380 (57%), Gaps = 2/380 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+++    +  EK I ++V++  +  ++  A +  Y    ++ V  + + G+  +  +
Sbjct: 12  SKEMVEAFATLEKEKGIKQEVIVDAIKAALVAAYKKNYNQAQNVEVVFDEKKGNFKVNAI 71

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   ++SLK A + + + ++G  +   + P DFGR+A Q+AKQVI+Q++REA
Sbjct: 72  KTVVDEVQDSRLEVSLKDALEINRAYEVGDEIRFEVTPKDFGRLAAQTAKQVIMQRLREA 131

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+    E+     EI++GTV+R +   V V +GN + V+  ++ +  E   P D+V+  
Sbjct: 132 EREHIISEYSQYKDEIVTGTVERRDNRFVYVKIGNVEAVMPHNDQLPGETYNPQDKVRVL 191

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+ +SRT P  + +LF  EVPE+Y+G V++ +++R+ G R K+AV S+D
Sbjct: 192 VTRVGSDSKGAQITVSRTAPALVKRLFEQEVPEVYDGTVEIVSIAREAGDRTKIAVKSND 251

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DE 303
           S IDPVG  VG +G+RVQ +V EL  E ID+V +  + + F+ NAL PA V  V    DE
Sbjct: 252 SDIDPVGTLVGPKGARVQNIVNELGGENIDVVKYEDNPSDFIANALNPAEVIAVQFSGDE 311

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D     VIVP  QLSLAIG+RGQNVRLA++LTG+ IDI  E +      +  +       
Sbjct: 312 DDKNALVIVPDYQLSLAIGKRGQNVRLAARLTGYKIDIKPESQVEFVDSEGDDVEADQET 371

Query: 364 QAINVDEIIAHLLVAEGFAD 383
              NV        +AE   D
Sbjct: 372 TNDNVSNEETPESIAEQIED 391


>gi|312143666|ref|YP_003995112.1| NusA antitermination factor [Halanaerobium sp. 'sapolanicus']
 gi|311904317|gb|ADQ14758.1| NusA antitermination factor [Halanaerobium sp. 'sapolanicus']
          Length = 402

 Score =  437 bits (1126), Expect = e-120,   Method: Composition-based stats.
 Identities = 157/387 (40%), Positives = 245/387 (63%), Gaps = 3/387 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            +E +Q  D +  +K I ++V++  +  ++  A +  +G+  ++R++I+ + G++ ++  
Sbjct: 2   NVEFIQALDDIEKDKGISKEVLIDAIETALVSAYKKDFGSKDNVRIDISTDAGEVKVYSR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEVEN   QISLK A   D    IG +V   + P +FGR+A Q+AKQV++Q++REA
Sbjct: 62  KEVVEEVENENTQISLKEADKIDGKYKIGDIVEIEVTPGNFGRIAAQTAKQVVMQRIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ERD  + +FK+K  E+I+GT++R    N+++D+G ++ ++   E I+ E    G R+K Y
Sbjct: 122 ERDVIFDQFKEKEDELITGTIQRFHNDNILIDMGKTEALLPPSEQIAGEKYEIGKRIKLY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V    +GP++L+SRTHP  + +LF +EVPEI+ G+V++KAV+R+ G R+K+AV S D
Sbjct: 182 VVEVSSTSKGPRILVSRTHPGLLKRLFEIEVPEIFQGLVEIKAVAREAGQRSKMAVASKD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG +G RVQAVV +L  EKIDIV W      FV NAL PA V  V +++  
Sbjct: 242 KQVDPVGACVGPKGMRVQAVVEQLNREKIDIVKWDESPEVFVANALNPAEVIDVKINKSD 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE--DSINRQKDFNERTQFFM 363
              EV+VP  QLSLAIG+ GQN RLA++LTGW +DI  E E   S  + K+  +  Q   
Sbjct: 302 KIAEVVVPDFQLSLAIGKEGQNARLAAKLTGWKVDIKKESEIVKSPAKTKEIEKSAQELE 361

Query: 364 QAINVDEIIAHLLVAEGFADVEELACV 390
           ++++  E  +  +  E     +E   V
Sbjct: 362 KSLDEFEESSE-MENEDLESKQEELEV 387


>gi|116629468|ref|YP_814640.1| transcription elongation factor NusA [Lactobacillus gasseri ATCC
           33323]
 gi|116095050|gb|ABJ60202.1| Transcription elongation factor [Lactobacillus gasseri ATCC 33323]
          Length = 423

 Score =  437 bits (1125), Expect = e-120,   Method: Composition-based stats.
 Identities = 138/399 (34%), Positives = 227/399 (56%), Gaps = 8/399 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+++    +  EK I +++++  +  ++  A +  Y    ++ V  + + G+  +  +
Sbjct: 19  SKEMVEAFATLEKEKGIKQEIIVDAIKAALVAAYKKNYNQAQNVEVVFDEKKGNFKVNAI 78

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   ++SLK A + + + ++G  +   + P DFGR+A Q+AKQVI+Q++REA
Sbjct: 79  KTVVDEVQDSRLEVSLKDALEINRAYEVGDEIRFEVTPKDFGRLAAQTAKQVIMQRLREA 138

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+    E+     EI++GTV+R +   V V +GN + V+  ++ +  EN  P D+V+  
Sbjct: 139 EREHIISEYSQYKDEIVTGTVERRDNRFVYVKIGNVEAVMTHNDQLPGENYNPQDKVRVL 198

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+ +SRT P  + +LF  EVPE+Y+G V++ +++R+ G R K+AV S+D
Sbjct: 199 VTRVGSDSKGAQITVSRTAPDLVKRLFEQEVPEVYDGTVEIVSIAREAGDRTKIAVKSND 258

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DE 303
             IDPVG  VG +G+RVQ +V EL  E ID+V +  + + F+ NAL PA V  V    D+
Sbjct: 259 PDIDPVGTLVGPKGTRVQNIVNELGGENIDVVKYEENPSDFIANALNPAEVIAVQFSGDD 318

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D     VIVP  QLSLAIG+RGQNVRLA++LTG+ IDI  E +      +  +  T   +
Sbjct: 319 DDKNALVIVPDYQLSLAIGKRGQNVRLAARLTGYKIDIKPESQVEFVDSEGDDVETDQDI 378

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
              NV    A        +  E+L      +  + E  D
Sbjct: 379 DDSNVSNEEATE------STAEQLEEDSSEDFPNGEDVD 411


>gi|238852618|ref|ZP_04643028.1| transcription termination factor NusA [Lactobacillus gasseri 202-4]
 gi|238834764|gb|EEQ26991.1| transcription termination factor NusA [Lactobacillus gasseri 202-4]
          Length = 406

 Score =  437 bits (1125), Expect = e-120,   Method: Composition-based stats.
 Identities = 139/392 (35%), Positives = 227/392 (57%), Gaps = 10/392 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+++    +  EK I +++++  +  ++  A +  Y    ++ V  + + G+  +  +
Sbjct: 2   SKEMVEAFATLEKEKGIKQEIIVDAIKAALVAAYKKNYNQAQNVEVVFDEKKGNFKVNAI 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   ++SLK A + + + ++G  +   + P DFGR+A Q+AKQVI+Q++REA
Sbjct: 62  KTVVDEVQDSRLEVSLKDALEINRAYEVGDEIRFEVTPKDFGRLAAQTAKQVIMQRLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+    E+     EI++GTV+R +   V V +GN + V+  ++ +  EN  P D+V+  
Sbjct: 122 EREHIISEYSQYKDEIVTGTVERRDNRFVYVKIGNVEAVMPHNDQLPGENYNPQDKVRVL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+ +SRT P  + +LF  EVPE+Y+G V++ +++R+ G R K+AV S+D
Sbjct: 182 VTRVGSDSKGAQITVSRTAPDLVKRLFEQEVPEVYDGTVEIVSIAREAGDRTKIAVKSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DE 303
             IDPVG  VG +G+RVQ +V EL  E ID+V +  + + F+ NAL PA V  V    D+
Sbjct: 242 PDIDPVGTLVGPKGTRVQNIVNELGGENIDVVKYEENPSDFIANALNPAEVIAVQFSGDD 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D     VIVP  QLSLAIG+RGQNVRLA++LTG+ IDI  E +      +  +  T   +
Sbjct: 302 DDKNALVIVPDYQLSLAIGKRGQNVRLAARLTGYKIDIKPESQVEFVDSEGDDVETDQDI 361

Query: 364 QAINVD-----EIIAHLLVA---EGFADVEEL 387
              NV      E  A  L     E F + E++
Sbjct: 362 DDSNVSNEEATESTAEQLEEDSSEDFPNGEDV 393


>gi|289450259|ref|YP_003474585.1| transcription termination factor NusA [Clostridiales genomosp.
           BVAB3 str. UPII9-5]
 gi|289184806|gb|ADC91231.1| transcription termination factor NusA [Clostridiales genomosp.
           BVAB3 str. UPII9-5]
          Length = 372

 Score =  437 bits (1125), Expect = e-120,   Method: Composition-based stats.
 Identities = 147/366 (40%), Positives = 225/366 (61%), Gaps = 2/366 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG--TMSDIRVEINPETGDISLF 63
            +EL++    +  E+ ID +++   + +++  A +  +   +  +IR E++ ETGD+ +F
Sbjct: 2   NVELIEAIKLLEKERGIDAEILFQSIEEALVSAYKREFDVKSSDNIRAEVDRETGDMQVF 61

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
              EVVEEV + + Q+SL+ AR   P  DIG V+   L P DFGR+A  +AK VI QK+ 
Sbjct: 62  LEKEVVEEVADSSLQVSLEEARKFSPDFDIGDVLEYQLSPQDFGRLAAATAKNVINQKLC 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
            AER+R   EF  ++ E+ +G V+R +  +VIVD+G ++ ++  +E +  EN     +++
Sbjct: 122 NAERERIQNEFSSRINELANGVVQRRDRRDVIVDIGRAEAILPGNEQVRGENYDFNKQMR 181

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            YI  V  +   P V +SR+HP  + KLF  EVPEI +G V++ AVSR+ GSR+K+AV S
Sbjct: 182 LYILRVNEKMGRPVVYVSRSHPNLVRKLFEHEVPEIKDGTVEIMAVSREAGSRSKIAVRS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           ++ ++DP+GACVG RG RVQAV+ EL  E+IDI+ WSP+   F+ NAL PA V  V +  
Sbjct: 242 NNENVDPLGACVGQRGMRVQAVMDELNGERIDIIQWSPNPEEFIANALSPAKVVSVEVAP 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           +     V+VP  QL+LAIG+ GQN  LA++LTGW IDI +E +   N +++   R     
Sbjct: 302 ESKMAAVVVPDNQLALAIGKEGQNAHLAARLTGWKIDIKSESQVRQNLEQELIHRFDRAA 361

Query: 364 QAINVD 369
                D
Sbjct: 362 SEYEAD 367


>gi|42519362|ref|NP_965292.1| transcription elongation factor NusA [Lactobacillus johnsonii NCC
           533]
 gi|41583650|gb|AAS09258.1| N utilization substance protein A-like protein [Lactobacillus
           johnsonii NCC 533]
          Length = 406

 Score =  437 bits (1125), Expect = e-120,   Method: Composition-based stats.
 Identities = 138/381 (36%), Positives = 221/381 (58%), Gaps = 7/381 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+++    +  EK I ++V++  +  ++  A +  Y    ++ V  + + G+  +  +
Sbjct: 2   SKEMVEAFATLEKEKGIKQEVIVDAIKAALVAAYKKNYNQAQNVEVVFDEKKGNFKVNAI 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   ++SLK A + + + ++G  +   + P DFGR+A Q+AKQVI+Q++REA
Sbjct: 62  KTVVDEVQDSRLEVSLKDALEINRAYEVGDEIRFEVTPKDFGRLAAQTAKQVIMQRLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+    E+     EI++GTV+R +   V V +GN + V+  ++ +  E   P D+V+  
Sbjct: 122 EREHIISEYSQYKDEIVTGTVERRDNRFVYVKIGNVEAVMPHNDQLPGETYNPQDKVRVL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+ +SRT P  + +LF  EVPE+Y+G V++ +++R+ G R K+AV S+D
Sbjct: 182 VTRVGSDSKGAQITVSRTAPDLVKRLFEQEVPEVYDGTVEIVSIAREAGDRTKIAVKSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DE 303
           S IDPVG  VG +G+RVQ +V EL  E ID+V +  + + F+ NAL PA V  V    DE
Sbjct: 242 SDIDPVGTLVGPKGARVQNIVNELGGENIDVVKYEDNPSDFIANALNPAEVIAVQFSGDE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D     VIVP  QLSLAIG+RGQNVRLA++LTG+ IDI  E +      +  +       
Sbjct: 302 DDKNALVIVPDYQLSLAIGKRGQNVRLAARLTGYKIDIKPESQVEFVDSEGDDVEADQET 361

Query: 364 QAINVD-----EIIAHLLVAE 379
              NV      E IA  +  E
Sbjct: 362 TNDNVSNEETPESIAEQIEDE 382


>gi|329667119|gb|AEB93067.1| N utilization substance protein A-like protein [Lactobacillus
           johnsonii DPC 6026]
          Length = 406

 Score =  437 bits (1125), Expect = e-120,   Method: Composition-based stats.
 Identities = 137/380 (36%), Positives = 220/380 (57%), Gaps = 2/380 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+++    +  EK I ++V++  +  ++  A +  Y    ++ V  + + G+  +  +
Sbjct: 2   SKEMVEAFATLEKEKGIKQEVIVDAIKAALVAAYKKNYNQAQNVEVVFDEKKGNFKVNAI 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   ++SLK A + + + ++G  +   + P DFGR+A Q+AKQVI+Q++REA
Sbjct: 62  KTVVDEVQDSRLEVSLKDALEINRAYEVGDEIRFEVTPKDFGRLAAQTAKQVIMQRLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+    E+     EI++GTV+R +   V V +GN + V+  ++ +  E   P D+V+  
Sbjct: 122 EREHIISEYSQYKDEIVTGTVERRDNRFVYVKIGNVEAVMPHNDQLPGETYNPQDKVRVL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+ +SRT P  + +LF  EVPE+Y+G V++ +++R+ G R K+AV S+D
Sbjct: 182 VTRVGSDSKGAQITVSRTAPDLVKRLFEQEVPEVYDGTVEIVSIAREAGDRTKIAVKSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DE 303
           S IDPVG  VG +G+RVQ +V EL  E ID+V +  + + F+ NAL PA V  V    DE
Sbjct: 242 SDIDPVGTLVGPKGARVQNIVNELGGENIDVVKYEDNPSDFIANALNPAEVIAVQFSGDE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D     VIVP  QLSLAIG+RGQNVRLA++LTG+ IDI  E +      +  +       
Sbjct: 302 DDKNALVIVPDYQLSLAIGKRGQNVRLAARLTGYKIDIKPESQVEFVDSEGDDVEADQET 361

Query: 364 QAINVDEIIAHLLVAEGFAD 383
              NV        +AE   D
Sbjct: 362 TNDNVSNEETPESIAEQIED 381


>gi|323340011|ref|ZP_08080277.1| transcription termination factor NusA [Lactobacillus ruminis ATCC
           25644]
 gi|323092517|gb|EFZ35123.1| transcription termination factor NusA [Lactobacillus ruminis ATCC
           25644]
          Length = 401

 Score =  437 bits (1124), Expect = e-120,   Method: Composition-based stats.
 Identities = 146/368 (39%), Positives = 220/368 (59%), Gaps = 19/368 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL   DA+  EK I ++V++  +  ++  A +  YG   +++V  +   GDI +F +
Sbjct: 2   SKELLNALDALETEKGIKKEVIIDALEQALVSAYKKNYGQAQNVKVTFDARRGDIKVFAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV EV +   ++SL  A + + + +IG  +   + P DFGR+A Q+AKQVI+Q+VRE 
Sbjct: 62  KEVVNEVLDSCLEVSLSDALEINRAYEIGDTIDFEVTPRDFGRIAAQTAKQVIMQRVREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y ++     EI++G V+R +   V V+LGN + V+ + + +  E     DR+K Y
Sbjct: 122 ERQMIYNQYSRYENEIMTGEVERRDSRYVYVNLGNVEAVLSKRDQVPGEVYNSHDRIKVY 181

Query: 186 IYDV------------------RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVK 227
           +Y V                  +R  RGPQV +SR+HP  + ++F  EVPEI++G V++K
Sbjct: 182 VYKVVDPNENQNAEQNEEEGKKKRRNRGPQVYVSRSHPDLLKRMFENEVPEIFDGTVEIK 241

Query: 228 AVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFV 287
           +++R+ G RAK+AV S    IDP+G CVG RG RV+A+V EL  EK+DIV WS D + ++
Sbjct: 242 SIAREAGDRAKIAVCSDQEGIDPIGTCVGPRGERVKAIVEELNGEKMDIVEWSEDPSEYI 301

Query: 288 INALRPAIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             AL+PA + +V  D ED     V+VP  QLSLAIG+RGQN RLA+ LTG+ IDI +E  
Sbjct: 302 KAALKPAEILEVRFDREDDHACTVVVPDTQLSLAIGKRGQNARLAAHLTGYKIDIKSESN 361

Query: 347 DSINRQKD 354
                ++ 
Sbjct: 362 MEELDRQS 369


>gi|163848555|ref|YP_001636599.1| transcription termination factor NusA [Chloroflexus aurantiacus
           J-10-fl]
 gi|163669844|gb|ABY36210.1| transcription termination factor NusA [Chloroflexus aurantiacus
           J-10-fl]
          Length = 442

 Score =  437 bits (1124), Expect = e-120,   Method: Composition-based stats.
 Identities = 144/345 (41%), Positives = 222/345 (64%), Gaps = 5/345 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS---DIRVEINPETGDISL 62
           + +       +A E+ I ++ ++ VM  ++  A R L G      D+ V+++P +G   +
Sbjct: 2   KSDFYAAITQIASERGIPKEAIIDVMERALVSAYRRLLGPNPPAIDVVVKLDPVSGVARV 61

Query: 63  FRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           +   +VV+EV +   +I L+ AR   P   IG  V     P DFGR+A Q+AKQV++Q +
Sbjct: 62  YAEKQVVDEVYDERFEIDLEAARRIKPDAQIGEAVLVESTPRDFGRIAAQTAKQVVLQGI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVE--YGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           ++ ER+  Y EF+D+ GE+++ TV+R     GNVI++LG ++ +I   E ++ +    G 
Sbjct: 122 KDIERNYIYSEFEDREGELLTATVQRNNGPRGNVILELGKAEAIIPPKEQVANDRYYHGQ 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K Y+ +V++++RGP+++ SR H   +++LF MEVPEIYNG V++K+++R+PG R K+A
Sbjct: 182 RLKVYLMEVKKDERGPRLIASRAHKNLILRLFEMEVPEIYNGAVEIKSIAREPGLRTKVA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V +    IDPVG+CVGMRG R+Q +V EL  EKID+V WS D   ++ NAL PA V +V 
Sbjct: 242 VAARQEGIDPVGSCVGMRGIRIQNIVNELNGEKIDVVQWSSDPREYIANALSPAQVVEVH 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           L++      VIVP +QLSLAIG+ GQNVRLA +LTGW IDI +  
Sbjct: 302 LNDHEHTALVIVPDKQLSLAIGKEGQNVRLAEKLTGWRIDIKSAS 346


>gi|172057849|ref|YP_001814309.1| NusA antitermination factor [Exiguobacterium sibiricum 255-15]
 gi|171990370|gb|ACB61292.1| NusA antitermination factor [Exiguobacterium sibiricum 255-15]
          Length = 375

 Score =  436 bits (1123), Expect = e-120,   Method: Composition-based stats.
 Identities = 153/350 (43%), Positives = 222/350 (63%), Gaps = 5/350 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD-IRVEINPETGDISLFRLLE 67
           LL+  + +A EK ID+++++  +  ++  A R  +G  S+ ++VE + +TGDI +F L E
Sbjct: 5   LLEAIEQIAKEKEIDKNIIIDALEQALISAYRRNFGKESEAVKVEFDQQTGDIRVFALKE 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVE +     Q+SL+ A + DP+ ++G      + P DFGRVA Q+AKQ++ QK+REAER
Sbjct: 65  VVERLTQPEEQLSLEEAHEIDPTYELGDFHKVEVTPGDFGRVAAQTAKQIVTQKMREAER 124

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +R Y  F D+  EI++G V+R +  N+ V+L   + V+   E +  E     + +K Y+ 
Sbjct: 125 ERIYNHFADREDEIMTGMVERQDARNLYVNLEGIEAVLTTHEQMPNERFGIREYIKVYVT 184

Query: 188 DVRREQRG--PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
            V    +G    +L+SRTHP  + +LF +EVPEI +G V+VK+V+R+ G R+K+AV S  
Sbjct: 185 KVDPMVKGSGASILVSRTHPGLLKRLFEIEVPEIASGEVEVKSVAREAGDRSKIAVAS-- 242

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVGACVG +G+RVQ +V EL  EKIDIV +S D   +V NAL PA V  V ++E  
Sbjct: 243 DEIDPVGACVGQKGARVQRIVNELNGEKIDIVRYSDDPKEYVANALSPAQVVAVYVNEPA 302

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF 355
               V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E E      KD 
Sbjct: 303 KATIVVVPDFQLSLAIGKRGQNARLAAKLTGWKIDIKSESEAESMELKDV 352


>gi|163815206|ref|ZP_02206583.1| hypothetical protein COPEUT_01364 [Coprococcus eutactus ATCC 27759]
 gi|158449401|gb|EDP26396.1| hypothetical protein COPEUT_01364 [Coprococcus eutactus ATCC 27759]
          Length = 398

 Score =  436 bits (1123), Expect = e-120,   Method: Composition-based stats.
 Identities = 137/344 (39%), Positives = 220/344 (63%), Gaps = 1/344 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+++  + +  E++I +DV+L  +  S++ A +  + T  +I V ++ ETG+  ++   E
Sbjct: 3   EIIEALNQLEKERNISKDVLLEAIERSLKTACKKDFNTDENITVSLDRETGECHVYAAKE 62

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EVEN + QISL  A+  +   +IG  V+  +   +FGR+A Q A+ VI+Q + E ER
Sbjct: 63  VVDEVENPSFQISLSQAKMLNRRYEIGDTVNVEITTKNFGRIAAQRARNVIVQAINENER 122

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
              Y  F  K  ++++G V+R    +V V L   ++ +++  E I  E    GDR+K Y+
Sbjct: 123 AAIYDHFHMKEKDVVTGIVERQVGDSVNVSLDDKTEALLKPSEMIEGETYERGDRIKLYV 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V++  +GP++++SRTHP+ + +LF  EV EI +G+V++K+  R+ GSR+K+AV+S+D 
Sbjct: 183 TEVKKTNKGPKIVVSRTHPELVKRLFEKEVTEIADGVVEIKSFCREAGSRSKIAVWSNDE 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           ++D VGACVG+ G RV AVV +L  EKIDI+ WS + A F+ NAL P+ V  V +D D  
Sbjct: 243 NVDAVGACVGVNGDRVNAVVADLNGEKIDIIPWSENPAEFIYNALSPSDVEDVSVDLDEK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
              V+VP  QLSLAIG++GQN RLA++LTG+ IDI +  +    
Sbjct: 303 SAFVVVPDTQLSLAIGKKGQNARLAAKLTGYKIDIKSHSKAEEM 346


>gi|330685665|gb|EGG97306.1| transcription termination factor NusA [Staphylococcus epidermidis
           VCU121]
          Length = 410

 Score =  436 bits (1121), Expect = e-120,   Method: Composition-based stats.
 Identities = 152/406 (37%), Positives = 242/406 (59%), Gaps = 5/406 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +S+N  ELL   + +  EK I R+V++  +  ++  A +  Y +  ++RVE+N + G   
Sbjct: 1   MSSN--ELLLATEYLEKEKKIPREVLIDAIEAALITAYKKNYDSARNVRVELNMDEGTFK 58

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +    EVVE+V +   ++ +  A  ++P+ +IG +  + + P DFGRV  Q+AKQ ++Q+
Sbjct: 59  VIARKEVVEKVFDDREEVDISTALVKNPAYEIGDIYEEDVTPQDFGRVGAQAAKQAVMQR 118

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+AER+  Y EF DK  +I++G + RV++  V V+LG  + V+   E    E+  P +R
Sbjct: 119 LRDAEREILYDEFIDKEEDILTGVIDRVDHRYVYVNLGRIEAVLSEAERSPNESYIPNER 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K ++  V +  +GPQ+ +SR+HP  + +LF  EVPEI++G V VK+V+R+ G R+K++V
Sbjct: 179 IKVFVNKVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIFDGTVIVKSVAREAGDRSKISV 238

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S +  ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ V +V++
Sbjct: 239 YSENPEIDAVGACVGSKGARVEAVVEELGGEKIDIVQWNEDPKVFVRNALSPSQVLEVIV 298

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK---DFNER 358
           DE+     V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +          +  E 
Sbjct: 299 DEENQSTVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSESDARDAGVYPVIESEEI 358

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEE 404
               + + + D     + + E      ELA      +   +    E
Sbjct: 359 ADEVVNSGDEDIEFDDVNLEESNLTTAELAAETDESLEETDEVTTE 404


>gi|88608874|ref|YP_506405.1| N utilization substance protein A [Neorickettsia sennetsu str.
           Miyayama]
 gi|88601043|gb|ABD46511.1| N utilization substance protein A [Neorickettsia sennetsu str.
           Miyayama]
          Length = 537

 Score =  436 bits (1121), Expect = e-120,   Method: Composition-based stats.
 Identities = 185/544 (34%), Positives = 305/544 (56%), Gaps = 53/544 (9%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVM--ADSIQKAARSLYGTMSDIRVEINPETGDISLF 63
            L++++  ++VA ++ +  D +   +    + +   +  YG    I VEI+ ++G+I + 
Sbjct: 10  NLQIVESINSVAEKEGLSPDTLFRAIGIELAHEIG-KRQYGDHR-IFVEIDKKSGEILVS 67

Query: 64  RLLEVVEEVE----------------------------NYTCQISLKVARDRDPSIDI-- 93
           + L VVE+ +                            +Y   I L  AR + PSI+   
Sbjct: 68  KRLLVVEDSDKARMLEQMEVTTEESDDLPSSFRAEEKVHYDGVIDLSTARLKYPSIEHKA 127

Query: 94  GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVK-----R 148
           G ++++ LP    G +  +  K  + + +    R++QY  +K +VGEI++G VK     +
Sbjct: 128 GDIITEHLPSFSSGYIIARVMKAKLERLITSLVREKQYHCYKGRVGEIVTGIVKKSIDFK 187

Query: 149 VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFM 208
               ++IVD+   +G++     +  E+ RPG+RVK  I  V      PQ+LLSR+   F+
Sbjct: 188 TGSRSIIVDIAGVEGLLPYSSLVKGESFRPGERVKCVIQKVEYSVVKPQILLSRSSGSFV 247

Query: 209 VKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTE 268
            +LF  +VPEIY+ +V+++ V+RD GSR+K+AVFSSD +IDPVGAC+GM GSR+ AVV E
Sbjct: 248 AQLFSQQVPEIYDRVVEIRKVARDAGSRSKVAVFSSDRNIDPVGACIGMGGSRINAVVNE 307

Query: 269 LRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNV 328
           L  EKIDIV +S D+ATF+ NAL+P    K+ ++E+  +IE++VP E +SL IGR GQNV
Sbjct: 308 LHGEKIDIVEYSNDTATFLANALKPIRPVKITVNEETKKIELVVPDESVSLVIGRGGQNV 367

Query: 329 RLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELA 388
            L S L G+ ++++++ E S  + ++F   T  F++A+NV+E+IA LLV EGF+ VEE+A
Sbjct: 368 YLLSSLLGYRVEVLSDAEFSKKKMEEFISGTARFVEALNVEEVIAQLLVTEGFSTVEEIA 427

Query: 389 CVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIK 448
               S +A IEGFD++ A EI+ RA EY+      ++    +   +  + ++   D+ + 
Sbjct: 428 DCNTSRLAFIEGFDKDIAEEIRSRAVEYVNEQPKRVRALAEKYKANPNMLALSSFDTGLL 487

Query: 449 VALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYK 508
             L  +G+  +E +A  S D+L     + G             G P   +E +II +R  
Sbjct: 488 EVLFSSGLTDLEKVAELSCDELREVIGDNG------------FGVPL--LEQLIIRSRKT 533

Query: 509 MGWI 512
           +GW+
Sbjct: 534 LGWL 537


>gi|229829176|ref|ZP_04455245.1| hypothetical protein GCWU000342_01261 [Shuttleworthia satelles DSM
           14600]
 gi|229792339|gb|EEP28453.1| hypothetical protein GCWU000342_01261 [Shuttleworthia satelles DSM
           14600]
          Length = 406

 Score =  435 bits (1120), Expect = e-120,   Method: Composition-based stats.
 Identities = 136/349 (38%), Positives = 215/349 (61%), Gaps = 3/349 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY---GTMSDIRVEINPETGDISL 62
             +LL+  DA+  E+ I ++ +L  +  S+  A +  Y      +++R  ++ ETGD  +
Sbjct: 3   NTDLLEALDALETERGISKEHILEAIEKSLVAACKVTYKFSDNATNLRAVVDRETGDFHV 62

Query: 63  FRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           F    VV+EV N   ++SL+ A D D S+++G    + L   DF R+A  +AK ++ Q +
Sbjct: 63  FVKKTVVDEVTNPQSEMSLEEAHDIDGSLNVGDTAEEELQSHDFSRIAASTAKNIMKQMI 122

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
            E ER     E+     +I++G V+R    N+ V+LG  D  +   E +  E+    DR+
Sbjct: 123 LEEERKILLDEYIKIEHDIVTGVVQRFIGRNISVNLGKVDAFLPESEQVKGEHYHQSDRI 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           + Y+ +V+   +GP++ +SRTHP+ + +LF  EV E+ +GIV++KA++R+ GSR K+AV+
Sbjct: 183 RVYVLEVKDAAKGPRIRVSRTHPELVKRLFEEEVTEVKDGIVEIKAIAREAGSRTKMAVW 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D  +DP+GACVG+ GSRV A+V EL +EKIDI+ W+ + A  + NAL PA V  V+ D
Sbjct: 243 SNDPDVDPLGACVGVNGSRVNAIVNELHNEKIDIINWNENPAMLIENALSPAKVIAVLAD 302

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINR 351
           ED    +V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E +     
Sbjct: 303 EDAREAKVVVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSETQAQEAE 351


>gi|171913143|ref|ZP_02928613.1| transcription elongation factor NusA [Verrucomicrobium spinosum DSM
           4136]
          Length = 417

 Score =  435 bits (1120), Expect = e-120,   Method: Composition-based stats.
 Identities = 157/407 (38%), Positives = 246/407 (60%), Gaps = 1/407 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL  + +    EK IDR  ++  +  ++  A++   G   ++R+EI+P+ G I  F  L 
Sbjct: 4   ELKALFEYYEKEKGIDRSKMVDALQSALLAASKKSIGPARELRIEIDPDKGSIRAFARLL 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V + VEN   Q+S+K AR        G  V   + P DFGR+A Q+AKQ  +Q++REAE+
Sbjct: 64  VSDTVENPFEQLSVKHARKLKADAQPGDEVDIEVTPKDFGRIAAQTAKQTWMQRLREAEK 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EFKD+ G+++SGT++R +  +V+VDLG  +G++   E +  E+   GDR++ Y+ 
Sbjct: 124 ANLYDEFKDRTGDVVSGTIRRFDKSDVVVDLGKFEGIMTSRERVPTEDYTSGDRMRFYVK 183

Query: 188 DVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            V +   RGP+++LSR+HP F+ +LF  EV EI +  V++ +++R+ G R K+AV S+D 
Sbjct: 184 AVEKSTSRGPEIILSRSHPNFVRRLFEFEVSEIADRTVEIVSIAREAGYRTKVAVHSADD 243

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVG+RG+RV+ +V EL +EK+DI+ WS D A F   AL+P  +  + +DED  
Sbjct: 244 KVDPVGACVGLRGARVKNIVRELNNEKVDIIRWSKDVAEFTKEALKPIKILSIKVDEDHK 303

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
           R+ + V +E+LS AIGR+GQN RL S+L G+ + I  +E  +   +    E        +
Sbjct: 304 RVLLTVSEEELSKAIGRKGQNARLTSRLIGYDLVIEKDEHAAKVFESHVEEAVHRIAADL 363

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           ++D  IA  LV EG +D+   A   + +IASI   D E A +I  + 
Sbjct: 364 DIDRNIARKLVGEGLSDLSNFADADVDDIASIVDGDTELAQQIVDKV 410


>gi|269837284|ref|YP_003319512.1| NusA antitermination factor [Sphaerobacter thermophilus DSM 20745]
 gi|269786547|gb|ACZ38690.1| NusA antitermination factor [Sphaerobacter thermophilus DSM 20745]
          Length = 443

 Score =  435 bits (1120), Expect = e-120,   Method: Composition-based stats.
 Identities = 151/366 (41%), Positives = 230/366 (62%), Gaps = 4/366 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINP----ETGDIS 61
           + +       +A E++I R+ VLS +  +++   + + GT  ++ V+I+P      G I 
Sbjct: 2   KSDFYTAIATIAAERNIPREAVLSSVEHALRTVYKKMAGTEEEVEVQIDPTLDPNKGGIR 61

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +F +  VVEEVE+   +IS++ AR   P   +G V+     P +FGR+A Q+AKQV++Q+
Sbjct: 62  IFVVKRVVEEVEDPNTEISVEEARKTHPDAVVGDVIRFDRTPQNFGRIAAQTAKQVVLQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +R+ ERD  Y E+ D+VGE+++G V+R +   VIVDLG ++ V+   E +  E  R G R
Sbjct: 122 IRDYERDSVYAEYIDRVGEVLNGIVQRADPKAVIVDLGKAEAVMPAREQVPNERYRVGQR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+ +V ++ RGPQ+++SRTH   + +LF +EVPEIY+G V++ AV+R+PG R+K+AV
Sbjct: 182 LKVYLLEVNKDTRGPQLIVSRTHANLIRRLFELEVPEIYSGAVEIMAVAREPGLRSKVAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            +    +DPVG+CVG+RG R+Q +V EL  EKID++ WSPD+ TF+ NAL PA    V L
Sbjct: 242 AARQEKVDPVGSCVGVRGVRIQNIVNELYGEKIDVIEWSPDTPTFIANALSPAKPISVQL 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           +E      VIVP EQ+SLAIG+ GQN RLA +LTGW IDI   E    +      +    
Sbjct: 302 NEAEKVARVIVPTEQMSLAIGKDGQNARLAYKLTGWRIDIKGPEALRGSDDDILRQARAA 361

Query: 362 FMQAIN 367
             +  +
Sbjct: 362 LAEVPD 367


>gi|313885291|ref|ZP_07819042.1| transcription termination factor NusA [Eremococcus coleocola
           ACS-139-V-Col8]
 gi|312619397|gb|EFR30835.1| transcription termination factor NusA [Eremococcus coleocola
           ACS-139-V-Col8]
          Length = 415

 Score =  435 bits (1120), Expect = e-120,   Method: Composition-based stats.
 Identities = 149/412 (36%), Positives = 237/412 (57%), Gaps = 13/412 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL+Q    +  EK I  DV+   +  ++  A +  Y    ++ V  N + G I +F++
Sbjct: 2   SKELVQAMQVLEEEKGISADVIKDALESALVLAYKRNYDQSQNVEVVFNADKGTIKVFQV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            +VVEEV +   +I+L  A D   + ++   +   + P DFGR+A Q+AK VI+Q++REA
Sbjct: 62  KKVVEEVNDPNEEIALSDALDIHKAYELDDTIKFEITPKDFGRIATQTAKHVILQRLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+  Y E+     EI++GTV+R +   + ++LG  + V+   E I  E L    RVK Y
Sbjct: 122 ERNIVYDEYIQYEDEILNGTVERQDNRFIYINLGKIEAVMPVREQIPTEELTMDQRVKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V +  RGPQ+++SR H  F+ +LF  EVPEI+NGIV++ +++R+ G R+K+AV S D
Sbjct: 182 VSKVDKTNRGPQIIVSRAHANFLRRLFENEVPEIFNGIVEIMSIAREAGDRSKVAVRSQD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           S IDP+G CVG  G RV  +V EL  E IDIV +  D A F+ NA+ P+ V  VV ++  
Sbjct: 242 SQIDPIGTCVGAGGERVNTIVAELNGENIDIVEYDDDPAQFIKNAMSPSQVIDVVFNDPE 301

Query: 306 --GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
                 V+VP  QLSLAIG++GQN RLA++LTG+ IDI +E +  + +++  N+     +
Sbjct: 302 NPNHCIVVVPDYQLSLAIGKKGQNARLAARLTGYKIDIKSESDFQVYQEEMANQD----L 357

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEG-------FDEETAVE 408
            +  VD +    ++A   + VE+     +  + ++E         ++E A E
Sbjct: 358 TSQEVDMMEGQEVLAADASMVEDPVTESLEVVENMEENPDFEDIIEDEEATE 409


>gi|37926540|pdb|1L2F|A Chain A, Crystal Structure Of Nusa From Thermotoga Maritima: A
           Structure-Based Role Of The N-Terminal Domain
          Length = 369

 Score =  435 bits (1119), Expect = e-119,   Method: Composition-based stats.
 Identities = 141/335 (42%), Positives = 224/335 (66%), Gaps = 1/335 (0%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           LL+  D +  EK I ++ V+ ++  ++  A R  +G   ++ V I+  TG+I +++LLEV
Sbjct: 30  LLEALDQLEEEKGISKEEVIPILEKALVSAYRKNFGNSKNVEVVIDRNTGNIKVYQLLEV 89

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VEEVE+   QISL+ A+  DP  ++G +V   L   +FGR+A Q+AKQV+IQ++RE E++
Sbjct: 90  VEEVEDPATQISLEEAKKIDPLAEVGSIVKKELNVKNFGRIAAQTAKQVLIQRIRELEKE 149

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
           +Q+ ++ +  G + +  V RV      + +G  +  + + E I  E ++ GD VK YI D
Sbjct: 150 KQFEKYSELKGTVTTAEVIRVXGEWADIRIGKLETRLPKKEWIPGEEIKAGDLVKVYIID 209

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  +GP++L+SR  P+F++ L  +E+PE+ NGIV++KA++R+PG R K+AV S+D ++
Sbjct: 210 VVKTTKGPKILVSRRVPEFVIGLXKLEIPEVENGIVEIKAIAREPGVRTKVAVASNDPNV 269

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           DP+GAC+G  GSR+ A++ EL+ EK+D++ WS D    + NAL PA V +V +LD++   
Sbjct: 270 DPIGACIGEGGSRIAAILKELKGEKLDVLKWSDDPKQLIANALAPATVIEVEILDKENKA 329

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
             V+VP  QLSLAIG+ GQN RLA++LTGW IDI 
Sbjct: 330 ARVLVPPTQLSLAIGKGGQNARLAAKLTGWKIDIK 364


>gi|266625027|ref|ZP_06117962.1| transcription termination factor NusA [Clostridium hathewayi DSM
           13479]
 gi|288863082|gb|EFC95380.1| transcription termination factor NusA [Clostridium hathewayi DSM
           13479]
          Length = 401

 Score =  434 bits (1118), Expect = e-119,   Method: Composition-based stats.
 Identities = 146/345 (42%), Positives = 222/345 (64%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL+  + +  E +I +D +L  + +S+  A ++ +G   +++V +N ET D S++  
Sbjct: 2   NKELLEALNILEKENNISKDTLLEAIENSLLTACKNHFGKADNVKVSMNHETCDFSVYAE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEVE+   QISL  A+  DP  DIG +V  P+    FGR+A Q+AK VI+QK+RE 
Sbjct: 62  KEVVEEVEDPLLQISLAEAKMTDPKYDIGDIVQCPIDSKKFGRIATQNAKNVILQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y ++  +  E+++G V+R    NV ++LG  D ++   E +  E  +  +R+K Y
Sbjct: 122 GRKALYNDWYCQEKEVVTGIVQRYLGKNVSINLGKVDAILNETEMVKGEVFKATERIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V+   +GP++ +SRTHP  + +LF  EV E+ +G V++KA++R+ GSR K+AV S+D
Sbjct: 182 VLEVKDTPKGPRISVSRTHPDLVKRLFESEVAEVKDGTVEIKAIAREAGSRTKIAVKSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVGACVG+ G+RV ++V ELR EKIDI+ W  + A  + NAL PA V  VV DE+ 
Sbjct: 242 QNVDPVGACVGLNGARVNSIVNELRGEKIDIINWDDNPAYLIENALSPAKVICVVADEES 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
              +VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E +    
Sbjct: 302 REAQVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSETQAREM 346


>gi|217967593|ref|YP_002353099.1| NusA antitermination factor [Dictyoglomus turgidum DSM 6724]
 gi|217336692|gb|ACK42485.1| NusA antitermination factor [Dictyoglomus turgidum DSM 6724]
          Length = 360

 Score =  434 bits (1118), Expect = e-119,   Method: Composition-based stats.
 Identities = 145/337 (43%), Positives = 220/337 (65%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +  EK +D++VVL  +  ++  A +  YGT    RVEIN    +I+++ + ++VE+
Sbjct: 10  VLEQIITEKKLDKNVVLEALRKALLSAFKKAYGTSKGARVEINFNKQEINIYVVKKIVEK 69

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
           V +   +ISL+ A+   P   IG  +   + P +FGR+AVQ AKQVI+Q ++EAER   Y
Sbjct: 70  VNDNISEISLEEAKSLKPDAKIGDEIEIEIEPQEFGRIAVQVAKQVIMQSLKEAERKILY 129

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRR 191
            ++K K GE+++GTV RVE GNV V   + + ++   E I  E    G R+++Y+ +VR+
Sbjct: 130 EKYKAKEGELVNGTVVRVEKGNVYVRFPDIEAILPVKEQIPGEEYWIGRRLRAYLLEVRK 189

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPV 251
             + P V+LSR+HP F+ +LF +EVPEI  G V++ +++R+PG R+K+AV+S    +DP+
Sbjct: 190 TTKDPLVILSRSHPGFLKRLFELEVPEIREGTVEIVSIAREPGMRSKVAVYSHLPEVDPI 249

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI 311
           GACVG +G R+Q ++ EL  EKIDIV+WS D A FV  +L PA    V + ED  +  VI
Sbjct: 250 GACVGYKGVRIQNIINELNGEKIDIVLWSKDPAEFVARSLSPAKPLSVEIREDEHKAIVI 309

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           VP +Q SLAIG+ GQNVRLA +LT W ID+ T E+ +
Sbjct: 310 VPPDQFSLAIGKDGQNVRLAVKLTSWRIDVRTPEQYA 346


>gi|222099941|ref|YP_002534509.1| N utilization substance protein A [Thermotoga neapolitana DSM 4359]
 gi|221572331|gb|ACM23143.1| N utilization substance protein A [Thermotoga neapolitana DSM 4359]
          Length = 344

 Score =  434 bits (1118), Expect = e-119,   Method: Composition-based stats.
 Identities = 142/335 (42%), Positives = 227/335 (67%), Gaps = 1/335 (0%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           LL+  D +  EK I ++ V+ ++  ++  A R  +G+  ++ V I+  TG+I +++LLEV
Sbjct: 5   LLEALDQLEEEKGISKEEVIPILEKALVSAYRKNFGSSKNVEVVIDRNTGNIKVYQLLEV 64

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VE VE+ T QISL+ A+  DP+ +IG ++   L   +FGR+A Q+AKQV+IQ++RE E++
Sbjct: 65  VENVEDSTTQISLEEAKKLDPTAEIGSIIKKELDVKNFGRIAAQTAKQVLIQRIRELEKE 124

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
           +Q+ ++ +  G + +  V RV      + +G  +  + + E I  E ++PGD VK YI D
Sbjct: 125 KQFEKYSELKGTVTTAEVIRVTSDWADIRIGKLETRLPKKEWIPGEEIKPGDLVKVYIID 184

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  +GP++L+SR  P+F++ L  +E+PEI NGIV++KA++R+PG R K+AV S++ ++
Sbjct: 185 VVKTTKGPKILVSRRVPEFVIGLMKLEIPEIENGIVEIKAIAREPGVRTKVAVTSNNPNV 244

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           DP+GAC+G  GSR+ A++ EL+ EK+D++ WS D    + NAL PA V +V +LD++   
Sbjct: 245 DPIGACIGEGGSRIAAILRELKGEKLDVLKWSDDPKQLIANALAPATVIEVEILDKENRA 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
             V+VP  QLSLAIG+ GQN RLA++LTGW IDI 
Sbjct: 305 ARVLVPPTQLSLAIGKGGQNARLAAKLTGWKIDIK 339


>gi|329121255|ref|ZP_08249882.1| transcription termination factor NusA [Dialister micraerophilus DSM
           19965]
 gi|327470189|gb|EGF15652.1| transcription termination factor NusA [Dialister micraerophilus DSM
           19965]
          Length = 373

 Score =  434 bits (1118), Expect = e-119,   Method: Composition-based stats.
 Identities = 146/353 (41%), Positives = 223/353 (63%), Gaps = 5/353 (1%)

Query: 23  DRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEV----ENYTCQ 78
           D ++V + +   +  A +   G+ +   V  N ETG+  ++    VVEE+    EN   +
Sbjct: 19  DEEIVFNALEMVLLTAYKKETGSNAKSSVTFNRETGEYHIYAEKTVVEEIDPLSENAINE 78

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           +++  A+  D +++ G +    + P +FGRVAVQ+AKQV+IQK+REAER   Y EF  + 
Sbjct: 79  VTVAEAKKYDENLEAGDLFRIEVTPENFGRVAVQTAKQVMIQKLREAERGSIYDEFSGRE 138

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
           G+II+GTVK  +   V VDLG  +G++   E I  E+  P D++K YI +VR+  +GP++
Sbjct: 139 GDIITGTVKWSDDRTVYVDLGRVEGILPFSEQIEGEHFAPNDKIKCYISEVRKTTKGPEI 198

Query: 199 LLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMR 258
            LSR  P+ + +LF +EVPEIY+G++++KAV R+ GSR+K+AV++ D ++DP+GACVG  
Sbjct: 199 FLSRKSPELLKRLFEVEVPEIYSGVIEIKAVVREAGSRSKIAVYTMDPTLDPIGACVGPE 258

Query: 259 GSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLS 318
           G RV+ +V EL DEKIDIV W  D A ++ NAL P+ V  V + E+     V+VP  QLS
Sbjct: 259 GQRVRNIVNELHDEKIDIVRWDEDPAVYIANALSPSKVISVSIWEEENSSYVVVPDYQLS 318

Query: 319 LAIGRRGQNVRLASQLTGWTIDIITEEEDSIN-RQKDFNERTQFFMQAINVDE 370
           LAIG+ GQN RLA++LT W IDI +E + + +   ++     + F +A    E
Sbjct: 319 LAIGKAGQNARLAAKLTNWKIDIKSESQAAEDGFGQEEGSVLEDFEEAYEKPE 371


>gi|313892549|ref|ZP_07826136.1| transcription termination factor NusA [Dialister microaerophilus
           UPII 345-E]
 gi|313118946|gb|EFR42151.1| transcription termination factor NusA [Dialister microaerophilus
           UPII 345-E]
          Length = 373

 Score =  434 bits (1118), Expect = e-119,   Method: Composition-based stats.
 Identities = 146/353 (41%), Positives = 223/353 (63%), Gaps = 5/353 (1%)

Query: 23  DRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEV----ENYTCQ 78
           D ++V + +   +  A +   G+ +   V  N ETG+  ++    VVEE+    EN   +
Sbjct: 19  DEEIVFNALEMVLLTAYKKETGSNAKSSVTFNRETGEYHIYAEKTVVEEIDPLSENAINE 78

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           +++  A+  D +++ G +    + P +FGRVAVQ+AKQV+IQK+REAER   Y EF  + 
Sbjct: 79  VTVAEAKKYDENLEAGDLFRIEVTPENFGRVAVQTAKQVMIQKLREAERGSIYDEFSGRE 138

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
           G+II+GTVK  +   V VDLG  +G++   E I  E+  P D++K YI +VR+  +GP++
Sbjct: 139 GDIITGTVKWSDDRTVYVDLGRVEGILPFSEQIEGEHFAPNDKIKCYISEVRKTTKGPEI 198

Query: 199 LLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMR 258
            LSR  P+ + +LF +EVPEIY+G++++KAV R+ GSR+K+AV++ D ++DP+GACVG  
Sbjct: 199 FLSRKSPELLKRLFEVEVPEIYSGVIEIKAVVREAGSRSKIAVYTMDPTLDPIGACVGPE 258

Query: 259 GSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLS 318
           G RV+ +V EL DEKIDIV W  D A ++ NAL P+ V  V + E+     V+VP  QLS
Sbjct: 259 GQRVRNIVNELHDEKIDIVRWDEDPAVYIANALSPSKVISVSIWEEENSSYVVVPDYQLS 318

Query: 319 LAIGRRGQNVRLASQLTGWTIDIITEEEDSIN-RQKDFNERTQFFMQAINVDE 370
           LAIG+ GQN RLA++LT W IDI +E + + +   ++     + F +A    E
Sbjct: 319 LAIGKAGQNARLAAKLTNWKIDIKSESQAAEDGFGQEEGSVLEDFDEAYEKPE 371


>gi|332638631|ref|ZP_08417494.1| transcription elongation factor NusA [Weissella cibaria KACC 11862]
          Length = 379

 Score =  434 bits (1117), Expect = e-119,   Method: Composition-based stats.
 Identities = 149/375 (39%), Positives = 234/375 (62%), Gaps = 3/375 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL+   DA+  EK I  +V++  + ++++KA    Y    ++ V+ + + G+I ++ +
Sbjct: 2   SKELVNALDALEQEKGIKAEVLVEAIEEALKKAYEKNYDESENVEVQFDQKKGNIKVYSV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEE++    QI+L+ A + + + +IG  +   + P DFGR+A Q+AKQ+I+QKVREA
Sbjct: 62  KTVVEEIDEPYEQITLEEALELNKAYEIGDEIRFEVTPADFGRLAAQTAKQIIMQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRVKS 184
           ER   Y +F     E+I+G V+R +   + + L GN +  +++ + +  E+ R GD++K 
Sbjct: 122 ERGVVYDKFIGYENEVITGEVERQDSRFLYIILPGNQEAAMKQGDQMPNESYRMGDKIKV 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+ EQ+GPQV +SRTHP+ + +LF  EVPE+++G V++K+++R+ G R+K+AV+S 
Sbjct: 182 LVSQVQNEQKGPQVFVSRTHPELVKRLFEAEVPEVFDGTVEIKSIAREAGDRSKIAVYSH 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           +S++D VG  VG RG+RVQAVVTEL  E +DIV W+ D A F+ NAL PA V  V+ D  
Sbjct: 242 NSNLDAVGTMVGQRGARVQAVVTELSGENMDIVEWTEDPAQFIKNALNPAEVVDVIFDPT 301

Query: 305 VGRIE-VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
             R   V+VP  QLSLAIG+RGQN RLA++LTG+ IDI  E E       D   +     
Sbjct: 302 NDRAVTVLVPDYQLSLAIGKRGQNARLAARLTGFKIDIKPESERDAV-VADMANKENESA 360

Query: 364 QAINVDEIIAHLLVA 378
            A  ++  +A    A
Sbjct: 361 NAPVIEADVADDFEA 375


>gi|219850522|ref|YP_002464955.1| NusA antitermination factor [Chloroflexus aggregans DSM 9485]
 gi|219544781|gb|ACL26519.1| NusA antitermination factor [Chloroflexus aggregans DSM 9485]
          Length = 442

 Score =  434 bits (1116), Expect = e-119,   Method: Composition-based stats.
 Identities = 142/345 (41%), Positives = 218/345 (63%), Gaps = 5/345 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS---DIRVEINPETGDISL 62
           + +       +A E+ I ++ ++ VM  ++  A + L G      ++ V+++P +G   +
Sbjct: 2   KSDFYAAITQIASERGIPKEAIIDVMERALVSAYKRLLGPNPPAVEVTVKLDPVSGMARV 61

Query: 63  FRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           +   +VV+EV +   +I L  AR   P + IG  V     P DFGR+A Q+AKQV++Q +
Sbjct: 62  YAEKQVVDEVYDERFEIDLNSARQIKPDVQIGETVLVESTPRDFGRIAAQTAKQVVLQGI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVE--YGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +E ER   Y EF+D+ GE+++ TV+R     GNVI+++G ++ +I   E ++ +    G 
Sbjct: 122 KEIERSYIYSEFEDREGELVTATVQRNNGPRGNVILEIGKAEAIIPPKEQVANDRYYHGQ 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R+K  + +V+++ RGP+++ SR H   + +LF MEVPEIYNG V++K+V+R+PG R K+A
Sbjct: 182 RLKVLLLEVKKDDRGPRLIASRAHKNLINRLFEMEVPEIYNGSVEIKSVAREPGLRTKVA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V +    IDPVG+CVGMRG R+Q +V EL  EKID+V WS D   ++ NAL PA V +V 
Sbjct: 242 VAARQEGIDPVGSCVGMRGIRIQNIVNELNGEKIDVVQWSSDPREYIANALSPAQVVEVH 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           L +      VIVP +QLSLAIG+ GQNVRLA++LTGW IDI +  
Sbjct: 302 LHDHDHTALVIVPDKQLSLAIGKEGQNVRLAAKLTGWRIDIKSAS 346


>gi|302039405|ref|YP_003799727.1| transcription termination factor NusA [Candidatus Nitrospira
           defluvii]
 gi|300607469|emb|CBK43802.1| Transcription termination factor NusA [Candidatus Nitrospira
           defluvii]
          Length = 379

 Score =  433 bits (1115), Expect = e-119,   Method: Composition-based stats.
 Identities = 156/359 (43%), Positives = 233/359 (64%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL+ + D +  +K ID+  V+  +  ++Q AA+  +G   +I+VEI+P+TG+IS+   
Sbjct: 2   NRELIAVIDEIGRQKGIDKARVIGAIESALQTAAKKRFGQAENIQVEIDPKTGEISVVSK 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +V+ V N   +ISLK AR+ D   ++G  +   +   + GR+A Q+AKQVI QKVREA
Sbjct: 62  KIIVDTVANPKAEISLKEAREYDEGAEVGDEIGSLIEMDELGRIAAQTAKQVIFQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E +    E+  + G++++G +  +E  N +VDLG ++ ++   E I RE  R GDRVK+ 
Sbjct: 122 EWEAVQKEYSTRQGDLVNGIILGMERRNFLVDLGKTEAILPIQEQIPRETYRRGDRVKAL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +VRR  +  QV+LSR+HPQF+ K+F +EVPE+   IV++K++ R+PG R K+AV S D
Sbjct: 182 LLEVRRTPKDVQVILSRSHPQFVAKMFELEVPEVGEKIVEIKSIVREPGDRTKIAVSSRD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVGACVG++GSRVQAVV ELR EKIDI+ W+ D   F+  AL PA + KV +DE+ 
Sbjct: 242 KAVDPVGACVGIKGSRVQAVVRELRGEKIDIITWTQDPRVFIAEALNPATIEKVGIDEEK 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
               V+V   QLSLAIG+ GQNVRLA++LTGW IDII+  E    + +   +      +
Sbjct: 302 KSALVVVADSQLSLAIGKNGQNVRLAARLTGWKIDIISATEYEKEKAERDRDIKAALAE 360


>gi|189219874|ref|YP_001940515.1| transcription elongation factor [Methylacidiphilum infernorum V4]
 gi|189186732|gb|ACD83917.1| Transcription elongation factor [Methylacidiphilum infernorum V4]
          Length = 441

 Score =  433 bits (1114), Expect = e-119,   Method: Composition-based stats.
 Identities = 161/410 (39%), Positives = 258/410 (62%), Gaps = 2/410 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L I + +  EK I+R V +  M  ++  AA+   G   D+RVEI+P+TG I++   
Sbjct: 25  NQEVLAIMEYMEKEKGINRQVFIEAMQSALLAAAKKSIGPARDLRVEIHPKTGRINVRAK 84

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           LEVVE+V+N   QISLK AR+ DP+++IG +V   + P DFGR+A Q  KQ I Q ++  
Sbjct: 85  LEVVEKVQNSHDQISLKRAREIDPNVNIGDLVEVEVTPKDFGRIAAQVFKQTINQALKGI 144

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER     EFKD++  I+SGT++R+E  ++I+DLG  +G++   E +  E    G+R+K+Y
Sbjct: 145 ERKMVLSEFKDRINNIVSGTIRRIERSDIIIDLGRYEGIMPFKERVPTEEYVVGERIKAY 204

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V     GP ++LSR+HP F+++L  +EV E+ + IV+VKA++R+PG R K+AV+SS+
Sbjct: 205 VLSVDDTPHGPMIILSRSHPNFILRLLELEVSEVADKIVEVKAIAREPGFRTKIAVWSSN 264

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVG+CVG+RG+RV+ +V EL  EKID+  WSP+     I AL+PA V KV +D+  
Sbjct: 265 PKIDPVGSCVGVRGARVKNIVRELHSEKIDLFKWSPNVEELAIEALKPAKVKKVEVDQQN 324

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI-NRQKDFNERTQFFMQ 364
            R++V V +E  S+A+G++G+N  LAS++ GW IDI+ E    + N  +   +  +    
Sbjct: 325 HRVKVTVDEENYSIALGKKGKNAWLASKIVGWDIDIVKEPSFVVDNFTQKITKAAEEMAS 384

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIAS-IEGFDEETAVEIQGRA 413
           ++ +D+ +A  +V  GF + E +A  +  ++ S +   D +    ++  A
Sbjct: 385 SLAIDQSVAEQIVRAGFINPEAVAESEEEDLMSALPELDPQLIHRLKEAA 434


>gi|300361902|ref|ZP_07058079.1| transcription termination factor NusA [Lactobacillus gasseri
           JV-V03]
 gi|300354521|gb|EFJ70392.1| transcription termination factor NusA [Lactobacillus gasseri
           JV-V03]
          Length = 416

 Score =  433 bits (1114), Expect = e-119,   Method: Composition-based stats.
 Identities = 135/398 (33%), Positives = 226/398 (56%), Gaps = 6/398 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+++    +  EK I +++++  +  ++  A +  Y    ++ V  + + G+  +  +
Sbjct: 12  SKEMVEAFATLEKEKGIKQEIIVDAIKAALVAAYKKNYNQAQNVEVVFDEKKGNFKVNAI 71

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   ++SLK A + + + ++G  +   + P DFGR+A Q+AKQVI+Q++REA
Sbjct: 72  KTVVDEVQDSRLEVSLKDALEINRAYEVGDEIRFEVTPKDFGRLAAQTAKQVIMQRLREA 131

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+    E+     EI++GTV+R +   V V +GN + V+  ++ +  EN  P D+V+  
Sbjct: 132 EREHIISEYSQYKDEIVTGTVERRDNRFVYVKIGNVEAVMPHNDQLPGENYNPQDKVRVL 191

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+ +SRT P  + +LF  EVPE+Y+G V++ +++R+ G R K+AV S+D
Sbjct: 192 VTRVGSDSKGAQITVSRTAPDLVKRLFEQEVPEVYDGTVEIVSIAREAGDRTKIAVKSND 251

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD-ED 304
             IDPVG  VG +G+RVQ +V EL  E ID+V +  + + F+ NAL PA V  V    +D
Sbjct: 252 PDIDPVGTLVGPKGARVQNIVNELGGENIDVVKYEENPSDFIANALNPAEVIAVQFSGDD 311

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
                VIVP  QLSLAIG+RGQNVRLA++LTG+ IDI  E +      +  +  T     
Sbjct: 312 DKNALVIVPDYQLSLAIGKRGQNVRLAARLTGYKIDIKPESQVEFVDSEGDDVETDQ--- 368

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
             ++D+           +  E+L      +  + E  D
Sbjct: 369 --DIDDSNESSNEETTESTAEQLEEDSSDDFPNEEDVD 404


>gi|170017453|ref|YP_001728372.1| transcription elongation factor [Leuconostoc citreum KM20]
 gi|169804310|gb|ACA82928.1| Transcription elongation factor [Leuconostoc citreum KM20]
          Length = 363

 Score =  433 bits (1114), Expect = e-119,   Method: Composition-based stats.
 Identities = 140/359 (38%), Positives = 221/359 (61%), Gaps = 4/359 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL+   DA+  E+ I+R +V+  + D+++ A +  Y    ++    + + G++++ ++
Sbjct: 2   SKELVDALDALEAERGIERAIVIEALEDALKAAYKKQYNAEQNVEAVFDTKKGNVAIKQV 61

Query: 66  LEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV  E+ EN   +ISL+ A   + + + G  +   + P DFGR+A Q+AKQVI+QK+R
Sbjct: 62  KHVVLDEDFENEDTEISLEDALAINRAYEPGDEIRFDVTPKDFGRMAAQAAKQVIMQKIR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRV 182
           EA R+  Y +F D   EII+G V R +   + + L GN +  +  ++ +  E+ R GDR+
Sbjct: 122 EAGREAIYNKFADYQDEIITGEVDRQDSRFLYMTLPGNQEAAMAPNDQMPNEHYRMGDRI 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           K  +  V    +GPQ+ +SRT P  + +LF  EVPE+Y+G V++ ++SR+ G R+K+AV+
Sbjct: 182 KVLVNKVENNAKGPQIFVSRTAPDLVKRLFEQEVPEVYDGTVEIMSISREAGDRSKIAVY 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           + D  +DPVGA VG RG RVQ+VV EL  E +DIV W  D A ++ NAL P+ VT V+ D
Sbjct: 242 THDPDLDPVGAMVGQRGGRVQSVVNELGGENMDIVEWVEDEAQYIANALNPSEVTDVIFD 301

Query: 303 -EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
            E+   + VIVP  QLSLAIG++GQN RLA++LTG+ IDI +E E + +         +
Sbjct: 302 SENERAVTVIVPDNQLSLAIGKKGQNARLAARLTGFKIDIKSETEAAKDLGNQTVSSVE 360


>gi|167766535|ref|ZP_02438588.1| hypothetical protein CLOSS21_01041 [Clostridium sp. SS2/1]
 gi|317498935|ref|ZP_07957218.1| transcription termination factor NusA [Lachnospiraceae bacterium
           5_1_63FAA]
 gi|167711658|gb|EDS22237.1| hypothetical protein CLOSS21_01041 [Clostridium sp. SS2/1]
 gi|291558575|emb|CBL37375.1| transcription termination factor NusA [butyrate-producing bacterium
           SSC/2]
 gi|316893768|gb|EFV15967.1| transcription termination factor NusA [Lachnospiraceae bacterium
           5_1_63FAA]
          Length = 395

 Score =  432 bits (1112), Expect = e-119,   Method: Composition-based stats.
 Identities = 156/403 (38%), Positives = 241/403 (59%), Gaps = 12/403 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+   + +  EK ID+DV++  + +S+  A +  +G+  ++ V ++ ETGDI ++ + E
Sbjct: 3   ELIAALNQLEKEKGIDKDVIMEAIENSLLAACKRDFGSADNVVVNMDRETGDIYVYAIKE 62

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +ISL  A+  D ++++G  V   + P DFGR+A   A+ VI+QK++E ER
Sbjct: 63  VVDEVYDPALEISLGKAKAIDQNLNLGDTVRIEITPKDFGRIAAMHARSVIVQKIKEEER 122

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
              Y  F  K  +I++G V+R    NV V L   +D ++ + E I  E  +P +R+K YI
Sbjct: 123 RVVYDHFYCKEKDIVTGVVQRYVGENVSVSLDDKTDALLMKSEQIRGEVFKPTERIKLYI 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V+   RGP++L+SRTHP  + +LF  EV EI +G V++K + R+ GSR K+AV+S+D 
Sbjct: 183 VEVKETNRGPRILVSRTHPDLVKRLFEKEVAEIQDGTVEIKNIVREAGSRTKMAVWSNDK 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           ++DPVGACVG+ G+RV A+V +L+ EKIDI+ W+ D   F+ NAL P+ V  V +D +  
Sbjct: 243 NVDPVGACVGLNGARVNAIVNDLKGEKIDIINWNEDPCVFIENALSPSKVVSVAVDVEEK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
             EV+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E + +    K          +  
Sbjct: 303 SAEVVVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSESQAAEEAAK--------VSEEP 354

Query: 367 NVDE-IIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVE 408
             DE  I   L  E   D  +      +   ++E FD E   E
Sbjct: 355 EADEFEIEEDLFNEEIND--DFVEDAENTEEAVEDFDAEDIEE 395


>gi|291562551|emb|CBL41367.1| transcription termination factor NusA [butyrate-producing bacterium
           SS3/4]
          Length = 388

 Score =  432 bits (1112), Expect = e-119,   Method: Composition-based stats.
 Identities = 146/344 (42%), Positives = 220/344 (63%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL++  + +  E +I +D +L  + +S+  A ++ +G   +++V I+P+  D S++  
Sbjct: 2   NKELMESMNILEKEYNISKDTLLEAIENSLLTACKNHFGKADNVKVIIDPDGCDYSVYME 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVE VE+   QISL  AR   P   +G +V  P+   DFGR+A Q+AK VI+QK+RE 
Sbjct: 62  KEVVETVEDPITQISLADARMIAPRHVLGDIVQIPIDSHDFGRIATQNAKNVILQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R  Q  E++ K  E+++G V+R    NV VDLG  D ++   E +  E  +  +R+K Y
Sbjct: 122 SRKSQLSEWQCKEKEVVTGIVQRYIGRNVSVDLGKIDAILPEAEQVKGEVFQRTERIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V+   +GP++ +SRTHP  + +LF  E+ E+ +G V+++A++R+ GSR K+AV S+D
Sbjct: 182 ILEVKDSPKGPRISVSRTHPDLVRRLFEAEIAEVRDGTVEIRAIAREAGSRTKIAVSSTD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVGACVG+ G+RV A+V ELR EKIDI+ W  + A  + NAL PA V  VV DED 
Sbjct: 242 PNVDPVGACVGLNGARVNAIVNELRGEKIDIINWDDNPAFLIENALSPAKVISVVADEDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
              +VIVP  QLSLAIG+ GQN RLA++LT + IDI +E +   
Sbjct: 302 KEAQVIVPDYQLSLAIGKEGQNARLAARLTTYKIDIKSETQARE 345


>gi|206890467|ref|YP_002248539.1| transcription termination factor NusA [Thermodesulfovibrio
           yellowstonii DSM 11347]
 gi|206742405|gb|ACI21462.1| transcription termination factor NusA [Thermodesulfovibrio
           yellowstonii DSM 11347]
          Length = 365

 Score =  432 bits (1112), Expect = e-119,   Method: Composition-based stats.
 Identities = 163/354 (46%), Positives = 244/354 (68%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
            EL  + + +  EK I +D V+ ++  ++  A R  YG  S I+++I P+T DI++F + 
Sbjct: 3   KELKFLVEQIMREKGITKDAVIELLETALISAIRKKYGNKSSIKIKIEPQTFDINIFEIK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           +VVEEV++   +IS++  + +     IG  V  PL   DFGR+AVQ+AK V+ QK+RE E
Sbjct: 63  KVVEEVKDSASEISIEEVKQKYIDKGIGDTVEVPLSIQDFGRIAVQTAKHVLFQKIREIE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R + + EFKDKVG I+SGTV R E GN  + +G ++ ++   E + ++NL+ GD VK+YI
Sbjct: 123 RSQIFEEFKDKVGNIVSGTVLRKEKGNFYILVGKAEAILPDKEVLPQDNLKRGDIVKAYI 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           ++V++  + P + LSRTHP F+V LF +EVPEI +GIV++K ++RDPG R K+A  S D 
Sbjct: 183 FEVKQTPKEPIIKLSRTHPNFVVGLFTLEVPEIQDGIVEIKTIARDPGERTKIAASSKDP 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           S+DPVGACVGM+G+RVQAVV EL+ E+IDI+ +S D + F+  AL PA V KV ++E+  
Sbjct: 243 SVDPVGACVGMKGTRVQAVVRELKGERIDIIPYSDDMSFFIAKALTPATVLKVGINENEK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
              V+V  +QLSLAIG++GQNVRLAS+LTGW+ID+++E E +  + K+     +
Sbjct: 303 TAVVVVENDQLSLAIGKKGQNVRLASRLTGWSIDVLSESEYNQMKHKETERAFK 356


>gi|325479444|gb|EGC82540.1| transcription termination factor NusA [Anaerococcus prevotii
           ACS-065-V-Col13]
          Length = 425

 Score =  432 bits (1111), Expect = e-118,   Method: Composition-based stats.
 Identities = 141/356 (39%), Positives = 228/356 (64%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             + +   D +  EK +D+  +L  +  ++ K+ +  Y    ++ V I+ E+G I +F L
Sbjct: 2   NNDFMLALDELCKEKGLDKATILDALKKALIKSYQKNYDNQENVDVIIDEESGKIEVFAL 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEVE+   +IS+K A+  + + D+G VV   L P +FGRVA Q+A+ ++IQK+R+A
Sbjct: 62  KNVVEEVEDSISEISIKDAKKVNSTYDLGDVVRIELTPKNFGRVAAQTARNIVIQKIRDA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           +RD  Y E+ ++  E+I+G ++R +  N+ V+L   +GV+   E +  EN  P +R+K  
Sbjct: 122 QRDSLYGEYIERSNEMITGLIQRADNYNLYVNLDKIEGVVPLKEQVPTENYAPNERMKFL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +VR   + PQ++LSR+    + +LF +EVPEI  G++++ +++R+ GSR K+AVFS+D
Sbjct: 182 IKEVRNSSKDPQIILSRSSQDLITRLFELEVPEITEGVIEIYSIAREAGSRTKMAVFSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            +ID VGAC+G +G+RV ++V EL+ EKIDI+ +  D   F+ NAL PA +  V+++E  
Sbjct: 242 ETIDAVGACIGFKGARVNSIVEELQGEKIDIINFDKDIKVFISNALSPADIIDVIVNEKN 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
            +  V+V  +QLSLAIG+ GQN RLA++LTGW IDI ++EE     Q D +E    
Sbjct: 302 KQSLVVVSSDQLSLAIGKEGQNARLAARLTGWKIDIKSKEEFDTLSQDDIDEILGL 357


>gi|260438329|ref|ZP_05792145.1| transcription termination factor NusA [Butyrivibrio crossotus DSM
           2876]
 gi|292808916|gb|EFF68121.1| transcription termination factor NusA [Butyrivibrio crossotus DSM
           2876]
          Length = 366

 Score =  431 bits (1110), Expect = e-118,   Method: Composition-based stats.
 Identities = 138/343 (40%), Positives = 220/343 (64%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL+   D +  EK I + V++  + +S+  A ++ +G   +   +++ +TGD  +   
Sbjct: 2   NTELITALDILEKEKKISKKVLIEAIENSLLAACKNHFGKNENFTAKVDTKTGDFKVTAA 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVE VE+   QISL  A+   P  +IG  ++  +   +FGR+AVQ++K  I+QK+RE 
Sbjct: 62  KEVVETVEDSVTQISLADAQMISPKYNIGDTINVEIKSAEFGRIAVQNSKSAILQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y E+  K  +I++G V R    N++++LG +D ++   + +  E  +P DR+K Y
Sbjct: 122 ERQAVYNEYHAKEKDIVTGIVSRYAGNNLVINLGRADAILSEADMVKGEKYKPNDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V+ E++G ++ +SR HP+F+ +LF  EV E+ +G V++++++R+ GSR K+AV+S +
Sbjct: 182 VTEVKTEKKGLKIAVSRCHPEFVKRLFEAEVAELRDGTVEIRSIAREAGSRTKMAVWSKN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVG+CVG+ GSRV AVV+EL  EKIDI+ WS + A  + NAL PA V  V  D + 
Sbjct: 242 PNVDPVGSCVGVNGSRVNAVVSELNGEKIDIINWSKNPANLIENALSPAKVVYVAADAEE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
              +VIVP  QLSLAIGR GQN RLA++LTG+ IDI +E +  
Sbjct: 302 KTAQVIVPDYQLSLAIGREGQNARLAARLTGFKIDIKSESQAR 344


>gi|182417570|ref|ZP_02948895.1| transcription termination factor NusA [Clostridium butyricum 5521]
 gi|237667179|ref|ZP_04527163.1| transcription termination factor NusA [Clostridium butyricum E4
           str. BoNT E BL5262]
 gi|182378583|gb|EDT76111.1| transcription termination factor NusA [Clostridium butyricum 5521]
 gi|237655527|gb|EEP53083.1| transcription termination factor NusA [Clostridium butyricum E4
           str. BoNT E BL5262]
          Length = 384

 Score =  431 bits (1109), Expect = e-118,   Method: Composition-based stats.
 Identities = 146/384 (38%), Positives = 237/384 (61%), Gaps = 8/384 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGT----MSDIRVEINPETGDIS 61
             E +     +  EK I  D++ + + D++  A +  Y        +++V I+ ETG+I 
Sbjct: 2   NEEFVGALRELVKEKGICEDLIFTTIQDALVAAYKKNYANVNTNAQNVKVNIDRETGEIR 61

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++    VV+EV +   +IS++ A+   P  ++  +V   + P +FGRVA Q AKQV+ Q+
Sbjct: 62  VYAQKVVVDEVYDDVTEISIEEAKVVSPKYEVDDIVDLEVTPKNFGRVAAQLAKQVVTQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++EAER+  Y E+K++  +II+GT+ R + G V V+LG  +GVI  +E I  E  +  ++
Sbjct: 122 IKEAERNIIYDEYKEQEFDIITGTILRKDKGMVFVNLGKLEGVIGPNEQIPGEEYKFNEK 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K YI +V+   +GPQ+ +SRTHP  + +LF +EVPEI+ G+V+VK++SR+ GSR+K+AV
Sbjct: 182 LKLYIVEVKNGSKGPQIHVSRTHPGLVKRLFELEVPEIFEGVVEVKSISREAGSRSKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S+D  +D +GACVG +G RVQ +V EL++EKIDI+ WS D A F+ N+L PA V  V +
Sbjct: 242 YSNDEEVDAMGACVGPKGVRVQNIVNELKNEKIDIIKWSKDPAEFIANSLSPAKVLSVEV 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+    +V+V   QLSLAIG+ GQNVRLA++LT W IDI ++ +      ++     + 
Sbjct: 302 DEENKTAKVVVDDNQLSLAIGKEGQNVRLAAKLTNWKIDIKSKSQKDALDAEE----EKL 357

Query: 362 FMQAINVDEIIAHLLVAEGFADVE 385
               + +D      L     + ++
Sbjct: 358 VNTEVEIDNEDTTDLSDLDISTID 381


>gi|282850815|ref|ZP_06260189.1| transcription termination factor NusA [Lactobacillus gasseri 224-1]
 gi|282557767|gb|EFB63355.1| transcription termination factor NusA [Lactobacillus gasseri 224-1]
          Length = 406

 Score =  431 bits (1109), Expect = e-118,   Method: Composition-based stats.
 Identities = 136/399 (34%), Positives = 225/399 (56%), Gaps = 8/399 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+++    +  EK I +++++  +  ++  A +  Y    ++ V  + + G+  +  +
Sbjct: 2   SKEMVEAFATLEKEKGIKQEIIVDAIKAALVAAYKKNYNQAQNVEVVFDEKKGNFKVNAI 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   ++SLK A + + + ++G  +   + P DFGR+A Q+AKQVI+Q++REA
Sbjct: 62  KTVVDEVQDSRLEVSLKDALEINRAYEVGDEIRFEVTPKDFGRLAAQTAKQVIMQRLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+    E+     EI++GTV+R +   V V +GN + V+  ++ +  EN  P D+V+  
Sbjct: 122 EREHIISEYSQYKDEIVTGTVERRDNRFVYVKIGNVEAVMPHNDQLPGENYNPQDKVRVL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+ +SRT P  + +LF  EVPE+Y+G V++ +++R+ G R K+AV S+D
Sbjct: 182 VTRVGSDSKGAQITVSRTAPDLVKRLFEQEVPEVYDGTVEIVSIAREAGDRTKIAVKSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DE 303
             ID VG  VG +G+RVQ +V EL  E ID+V +  + + F+ NAL PA V  V    D+
Sbjct: 242 PDIDSVGTLVGPKGTRVQNIVNELGGENIDVVKYEENPSDFIANALNPAEVIAVQFSGDD 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D     VIVP  QLSLAIG+RGQNVRLA++L G+ IDI  E +      +  +  T   +
Sbjct: 302 DDKNALVIVPDYQLSLAIGKRGQNVRLAARLAGYKIDIKPESQVEFVDSEGDDVETDQDI 361

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
              NV    A        +  E+L      +  + E  D
Sbjct: 362 DDSNVSNEEATE------STAEQLEEDSSEDFPNGEDVD 394


>gi|299144046|ref|ZP_07037126.1| transcription termination factor NusA [Peptoniphilus sp. oral taxon
           386 str. F0131]
 gi|298518531|gb|EFI42270.1| transcription termination factor NusA [Peptoniphilus sp. oral taxon
           386 str. F0131]
          Length = 379

 Score =  431 bits (1108), Expect = e-118,   Method: Composition-based stats.
 Identities = 155/392 (39%), Positives = 247/392 (63%), Gaps = 18/392 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E +   + +  EK I ++V+   +  ++  + R  +GT  +++V+IN ++G+I++F L
Sbjct: 2   NEEFIGALNELEKEKGISKEVIFEALESALVSSYRKNFGTSQNVQVDINKDSGEINVFAL 61

Query: 66  LEVVEEV--ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
            ++V +V  E+   QI +  A+D D   ++G V S+ + P +FGR+A Q+AKQV+IQ+++
Sbjct: 62  KDIVADVDFEDENLQIPISKAKDIDAKFELGDVYSEKIKPANFGRIAAQTAKQVVIQRIK 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           +AERD  + +F D+  EII+G V+RV YGNV  DLG ++ ++   E I  E  R GDR+K
Sbjct: 122 DAERDIIFEDFTDRENEIITGQVQRVSYGNVYFDLGKTEAILPVAEQIKGEVYRQGDRLK 181

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
             + +V++  +GPQ++LSR+HP  + +LF +EVPEI  GIV+V ++SR+ GSR K+AVFS
Sbjct: 182 LLLLEVKKTTKGPQIILSRSHPNLVKRLFELEVPEISEGIVEVYSISREAGSRTKIAVFS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            +  +DP+GACVG +GSRV+A+V EL DEK+DIV++      F+ NAL P+ V KV  +E
Sbjct: 242 RNEDVDPLGACVGYKGSRVKAIVDELHDEKVDIVIYEKQIDKFIANALSPSKVEKVFANE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
                 V+VP  QLSLAIG+ GQN RLA++LT W IDI +  +               F 
Sbjct: 302 KEKSALVVVPDYQLSLAIGKEGQNARLAAKLTNWKIDIKSVSQ---------------FE 346

Query: 364 QAINVDEIIAHLLVAE-GFADVEELACVKISE 394
           + ++ ++I    L  + G++ V E++     E
Sbjct: 347 EYLDCEKINEEDLKEKYGYSYVSEISEDYYEE 378


>gi|170288839|ref|YP_001739077.1| NusA antitermination factor [Thermotoga sp. RQ2]
 gi|281412459|ref|YP_003346538.1| NusA antitermination factor [Thermotoga naphthophila RKU-10]
 gi|170176342|gb|ACB09394.1| NusA antitermination factor [Thermotoga sp. RQ2]
 gi|281373562|gb|ADA67124.1| NusA antitermination factor [Thermotoga naphthophila RKU-10]
          Length = 344

 Score =  431 bits (1108), Expect = e-118,   Method: Composition-based stats.
 Identities = 141/335 (42%), Positives = 224/335 (66%), Gaps = 1/335 (0%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           LL+  D +  EK I ++ V+ ++  ++  A R  +G   ++ V I+  TG+I +++LLEV
Sbjct: 5   LLEALDQLEEEKGISKEEVIPILEKALVSAYRKNFGNSKNVEVVIDRNTGNIRVYQLLEV 64

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VEEVE+   QISL+ A+  DP  ++G +V   L   +FGR+A Q+AKQV+IQ++RE E++
Sbjct: 65  VEEVEDPATQISLEEAKKIDPLAEVGSIVKKELNVKNFGRIAAQTAKQVLIQRIRELEKE 124

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
           +Q+ ++ +  G + +  V RV      + +G  +  + + E I  E ++ GD VK YI D
Sbjct: 125 KQFEKYSELKGTVTTAEVIRVTSEWADIRIGKLETRLPKKEWIPGEEIKAGDLVKVYIID 184

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  +GP++L+SR  P+F++ L  +E+PE+ NGIV++KA++R+PG R K+AV S+D ++
Sbjct: 185 VVKTTKGPKILVSRRVPEFVIGLMKLEIPEVENGIVEIKAIAREPGVRTKVAVASNDPNV 244

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           DP+GAC+G  GSR+ A++ EL+ EK+D++ WS D    + NAL PA V +V +LD++   
Sbjct: 245 DPIGACIGEGGSRIAAILKELKGEKLDVLKWSDDPKQLIANALAPATVIEVEILDKENKA 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
             V+VP  QLSLAIG+ GQN RLA++LTGW IDI 
Sbjct: 305 ARVLVPPTQLSLAIGKGGQNARLAAKLTGWKIDIK 339


>gi|309791818|ref|ZP_07686305.1| NusA antitermination factor [Oscillochloris trichoides DG6]
 gi|308226140|gb|EFO79881.1| NusA antitermination factor [Oscillochloris trichoides DG6]
          Length = 442

 Score =  430 bits (1107), Expect = e-118,   Method: Composition-based stats.
 Identities = 149/368 (40%), Positives = 233/368 (63%), Gaps = 8/368 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS---DIRVEINPETGDISL 62
           + +       +A E+ I ++ ++ VM  ++  A +   G      ++ V+++P+TG   +
Sbjct: 2   KSDFYTAISQIAAERGIPKEAIIDVMEKALITAYKRTLGNNPPPMEVSVKLDPQTGAARV 61

Query: 63  FRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           +   +VV+EV +   ++ L VAR   P++ IG  V     P DFGR+A Q+AKQV++Q +
Sbjct: 62  YAEKQVVDEVYDERFEVELAVARKVQPNVQIGETVVIESTPNDFGRIAAQTAKQVVLQGI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           +E ER+  Y E+ D+ GE+I+ TV+R+  GNVI+++G ++ ++   E +  +    G R+
Sbjct: 122 KEVEREHIYGEYMDREGELITATVQRLAKGNVILEMGKAEAILPPKEQVESDRYYHGQRL 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           K Y+ ++R+E RGP+++ SRTH   +V+LF MEVPEI+NG V++K+++R+PG R K+AV 
Sbjct: 182 KVYLMEIRKEDRGPRLIASRTHKNLIVRLFEMEVPEIFNGTVEIKSIAREPGLRTKVAVA 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           +    IDPVG+CVGMRG R+Q +V EL  EKID+V WSPD    + NAL PA V +V L+
Sbjct: 242 ARQEGIDPVGSCVGMRGIRIQNIVNELNGEKIDVVQWSPDPKDLIANALSPAQVVEVHLN 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT-----EEEDSINRQKDFNE 357
           ED     VIVP +QLSLAIG+ GQNVRLA++L+GW IDI +     EEE +    + + E
Sbjct: 302 EDDHVALVIVPDKQLSLAIGKEGQNVRLAAKLSGWRIDIKSATALLEEERAAAEVRGYAE 361

Query: 358 RTQFFMQA 365
                 + 
Sbjct: 362 AEAMATEV 369


>gi|332653588|ref|ZP_08419333.1| transcription termination factor NusA [Ruminococcaceae bacterium
           D16]
 gi|332518734|gb|EGJ48337.1| transcription termination factor NusA [Ruminococcaceae bacterium
           D16]
          Length = 392

 Score =  430 bits (1107), Expect = e-118,   Method: Composition-based stats.
 Identities = 142/348 (40%), Positives = 212/348 (60%), Gaps = 7/348 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARS-LYGTMSDIRVEINPETGDISLF 63
           +  E       +  EK I    ++  +  ++  A R    G   ++ V+ NPET  + +F
Sbjct: 15  DGQEFFAAIAQIEQEKGIKPGYMMEKITQALVSAYRRDHEGVGDNLIVDANPETNTVRMF 74

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
              +VVE V+N   +ISL+ A+   P  ++G VV   + P  FGR+A Q+A+QVIIQ +R
Sbjct: 75  LKKDVVEVVDNPNTEISLQEAKAALPRAELGDVVRIEVKPKSFGRIAAQTARQVIIQGIR 134

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLR 177
           EAE+   Y EF  K  E+++G V R++  N  V L        +D  +  +E +  E+  
Sbjct: 135 EAEQGMVYDEFSSKEHELLTGVVTRIDPRNGAVTLRISSGSEFTDAYLGANEQVKGESYV 194

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G R+K Y+ +VR+  +GPQV++SRTHP  + +LF +EVPEIY+G V++++++R+ GSR 
Sbjct: 195 EGQRLKVYMVEVRKATKGPQVIISRTHPGLVKRLFELEVPEIYDGTVEIRSIAREAGSRT 254

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           KLAV+S+D ++DP+GACVG RG RV  +V EL+ EK+DI+ +S D A ++  AL PA V 
Sbjct: 255 KLAVWSADPNVDPIGACVGPRGQRVNTIVEELKGEKMDIIKYSDDPAEYIAAALSPADVV 314

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
            V    D     V+VP +QLSLAIG+ GQN RLA++LTGW IDI    
Sbjct: 315 SVEPLPDGKSCRVVVPDDQLSLAIGKEGQNARLAAKLTGWKIDIKPAS 362


>gi|296111951|ref|YP_003622333.1| transcription elongation factor NusA [Leuconostoc kimchii IMSNU
           11154]
 gi|295833483|gb|ADG41364.1| transcription elongation factor NusA [Leuconostoc kimchii IMSNU
           11154]
          Length = 363

 Score =  430 bits (1107), Expect = e-118,   Method: Composition-based stats.
 Identities = 141/354 (39%), Positives = 219/354 (61%), Gaps = 4/354 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL+   DA+  E+ I+R VV+  + D+++ A +  Y    ++    + + G++++ ++
Sbjct: 2   SKELVDALDALEAERGIERTVVIEALEDALRAAYKKQYNAEQNVEAVFDTKKGNVAIKQV 61

Query: 66  LEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV  E+ EN   +I+L+ A   + + + G  +   + P DFGR+A Q+AKQVI+QK+R
Sbjct: 62  KSVVLDEDFENEDTEIALQDALAINRAYEPGDEIRFDVTPKDFGRMAAQAAKQVIVQKMR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRV 182
           EA R+  Y +F D   EII+G V R +   + + L GN +  +  ++ +  E+ R GDR+
Sbjct: 122 EAGREAIYNKFADYQDEIITGEVDRQDARFLYLTLPGNQEAAMAPNDQMPNEHYRMGDRI 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           K  +  V    +GPQ+ +SRT P  + +LF  EVPE+Y+G V++  +SR+ G R+K+AV+
Sbjct: 182 KVLVNKVENNAKGPQIFVSRTAPDLVKRLFEQEVPEVYDGTVEIMNISREAGDRSKIAVY 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           + D+ +DPVGA VG RG RVQAVV EL  E +DIV W  D A ++ NAL P+ V  V+ D
Sbjct: 242 THDTDLDPVGAMVGQRGGRVQAVVNELGGENMDIVEWVEDEAQYIANALNPSEVADVIFD 301

Query: 303 -EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF 355
            E+   + VIVP  QLSLAIG++GQN RLA++LTG+ IDI +E E +     D 
Sbjct: 302 PENERAVTVIVPDNQLSLAIGKKGQNARLAARLTGFKIDIKSESEAASALTNDV 355


>gi|254796878|ref|YP_003081715.1| N utilization substance protein A [Neorickettsia risticii str.
           Illinois]
 gi|254590114|gb|ACT69476.1| N utilization substance protein A [Neorickettsia risticii str.
           Illinois]
          Length = 537

 Score =  430 bits (1106), Expect = e-118,   Method: Composition-based stats.
 Identities = 182/544 (33%), Positives = 306/544 (56%), Gaps = 53/544 (9%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVM--ADSIQKAARSLYGTMSDIRVEINPETGDISLF 63
            L++++  ++VA ++ ++ D +   +    + +   +  YG    I VEI+ ++G+I + 
Sbjct: 10  NLQIVESINSVAEKEGLNPDALFRAIGIELAHEIG-KRQYGDHR-IFVEIDKKSGEIIVS 67

Query: 64  RLLEVVEEVE----------------------------NYTCQISLKVARDRDPSIDI-- 93
           + L VVE+ +                            ++   I L  A+ + P+++   
Sbjct: 68  KRLLVVEDSDKARMLEQLEVTTEEFPDSPSSFGVQEKIHHDDIIDLSTAKLKYPNVEHKA 127

Query: 94  GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV---- 149
           G ++++ LP    G +  +  K  + + +    R++QY  +K +VGEI++G VK+     
Sbjct: 128 GDIITERLPSFSSGYIIARVMKAKLERLITSLVREKQYHCYKGRVGEIVTGIVKKSIDFK 187

Query: 150 -EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFM 208
               ++IVD+   +G++     +  E+ RPG+RVK  I  V      PQ+LLSR+   F+
Sbjct: 188 AGSRSIIVDIAGVEGLLPYSSLVKGESFRPGERVKCVIQKVEYSVIKPQILLSRSSGSFV 247

Query: 209 VKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTE 268
            +LF  +VPEIY+ +V++K V+RD GSR+K+AVFSSD +IDPVGAC+GM GSR+ AVV+E
Sbjct: 248 AQLFSQQVPEIYDRVVEIKKVARDAGSRSKVAVFSSDRNIDPVGACIGMGGSRINAVVSE 307

Query: 269 LRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNV 328
           L  EKID+V +S D+ATF+ NAL+P    K+ ++E+V +IE++VP E +SL IGR GQNV
Sbjct: 308 LHGEKIDVVEYSSDTATFLANALKPIRPVKIAVNEEVKKIELVVPDESVSLVIGRGGQNV 367

Query: 329 RLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELA 388
            L S L G+ ++++++ E S  + ++F   T  F++A+NV+E+IA LLV EGF+ VEE+A
Sbjct: 368 YLLSSLLGYRVEVLSDAEVSKKKMEEFISGTARFVEALNVEEVIAQLLVTEGFSTVEEIA 427

Query: 389 CVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIK 448
               S +A IEGFDE+ A EI+ RA EY+       Q  + +   +  + ++   D+ + 
Sbjct: 428 DCNTSRLAFIEGFDEDVAEEIRSRAVEYVNEQPKRTQALVEKYKANPNMLALSSFDTGLL 487

Query: 449 VALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYK 508
             L  +G+  +E +A  S D+L                 +   G     +E +II +R  
Sbjct: 488 EVLFSSGLTDLEKVAELSCDELRE--------------VIGDNGFAVPLLEQLIIRSRET 533

Query: 509 MGWI 512
           +GW+
Sbjct: 534 LGWL 537


>gi|281355268|ref|ZP_06241762.1| NusA antitermination factor [Victivallis vadensis ATCC BAA-548]
 gi|281318148|gb|EFB02168.1| NusA antitermination factor [Victivallis vadensis ATCC BAA-548]
          Length = 414

 Score =  430 bits (1106), Expect = e-118,   Method: Composition-based stats.
 Identities = 159/410 (38%), Positives = 241/410 (58%), Gaps = 7/410 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL I + +  E+ I RD ++  +  +I  AAR      S+++V+I+P TG I  +  LE
Sbjct: 4   ELLTILEYIEQERGISRDSLIKALESAILTAARKSIHPASELKVKIDPVTGQIQAWATLE 63

Query: 68  VVEEVENYTC-QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           VVEE  N TC Q+ +  AR+R P + +G  V   + P +FGR+A Q+A+Q I+Q++R+AE
Sbjct: 64  VVEE--NPTCDQLVIARARERFPDVQLGEKVEWEVTPRNFGRIAAQTARQAIVQQLRKAE 121

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           ++    EF D++G+IISGTV+R E GN+I+D   ++G++   E I  E   PGD +++ +
Sbjct: 122 KENVQEEFADRIGQIISGTVRRFEAGNIIIDFQKAEGIMPSKEKIHDEQYMPGDIIRALL 181

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V     GP +++SR+ P+F+ +LF  E+ EI++G+V++  ++R+ G R K++V S+D 
Sbjct: 182 LRVDINTAGPSLIVSRSCPEFVTRLFEREIAEIHDGVVKIMGIAREAGKRTKISVMSTDP 241

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
            +DPVGACVGMRG RV+ +  EL +E+IDIV +  D   +  NAL PA V  V ++E   
Sbjct: 242 RVDPVGACVGMRGQRVRNITNELGNERIDIVPYDADIRKYATNALLPAKVQSVEVNEAKH 301

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT----QFF 362
            + V V  EQ  LA G++ QNVRL S+L GW I+I  EEE          E+     Q  
Sbjct: 302 ELIVRVTDEQSKLAFGKKAQNVRLCSKLIGWNINIRNEEERGAEAGHSIGEQLKIAAQKL 361

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGR 412
            +AI V E  A LLV  G+  V+ +       +  IEG D         R
Sbjct: 362 AEAIGVSEATAGLLVNNGYVTVDGVKAADPEALLEIEGIDTAEMQNALER 411


>gi|255611947|ref|XP_002539363.1| Transcription elongation protein nusA, putative [Ricinus communis]
 gi|223506838|gb|EEF23020.1| Transcription elongation protein nusA, putative [Ricinus communis]
          Length = 316

 Score =  429 bits (1105), Expect = e-118,   Method: Composition-based stats.
 Identities = 203/316 (64%), Positives = 250/316 (79%)

Query: 208 MVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVT 267
           MVKLF MEVP IY+GI+QV++V+RDPGSRAK+AV S+DSSIDPVGACVGMRGSRVQAVV 
Sbjct: 1   MVKLFTMEVPGIYDGIIQVRSVARDPGSRAKIAVISNDSSIDPVGACVGMRGSRVQAVVG 60

Query: 268 ELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQN 327
           EL+ EKIDI+ WS D ATFV+NAL+PA V KVVLDED  RIEV+VP EQLSLAIGRRGQN
Sbjct: 61  ELQGEKIDIIPWSQDPATFVVNALQPAEVAKVVLDEDAERIEVVVPDEQLSLAIGRRGQN 120

Query: 328 VRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEEL 387
           VRLASQLTGW IDI+TE E+S  RQK+FNERT  FM A++VDE++  +L +EGFA VEEL
Sbjct: 121 VRLASQLTGWDIDIMTEAEESERRQKEFNERTNLFMDALDVDEMVGQVLASEGFAAVEEL 180

Query: 388 ACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKI 447
           A V + EIASI+GFDE+TA EIQ RAREYLE ++  + +K + LGV++EL  I GI +++
Sbjct: 181 AYVDLDEIASIDGFDEDTAQEIQTRAREYLEKLEAEMDEKRKALGVTDELRQINGITAQM 240

Query: 448 KVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARY 507
            VALGE+GIKT+ED AGC+ DDL+GW+E K G  +KF+G  S     + + E M++ AR 
Sbjct: 241 MVALGEDGIKTVEDFAGCAADDLVGWTERKNGETKKFEGLFSKFDVSRVEAEQMVVQARL 300

Query: 508 KMGWIEKEKVADEEVQ 523
             GWI +E +A E   
Sbjct: 301 LAGWITEEDLAKEAEA 316


>gi|299139239|ref|ZP_07032415.1| transcription termination factor NusA [Acidobacterium sp. MP5ACTX8]
 gi|298598919|gb|EFI55081.1| transcription termination factor NusA [Acidobacterium sp. MP5ACTX8]
          Length = 544

 Score =  429 bits (1105), Expect = e-118,   Method: Composition-based stats.
 Identities = 170/438 (38%), Positives = 254/438 (57%), Gaps = 9/438 (2%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L Q  + ++ EK ID ++V+  + D+I  A R  Y T+ ++R E++ ETG+I  +    V
Sbjct: 5   LYQSIELLSREKGIDPEIVVGAVEDAIALATRKYYKTVENMRGEMDRETGEIRAYVFKTV 64

Query: 69  VEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VE    VE+   Q++L+ AR+  P +++GG +         GR+A Q AKQVI QKVREA
Sbjct: 65  VETPELVEDADNQLALEQARELAPEVEVGGELRFYKDTTPLGRIAAQMAKQVIFQKVREA 124

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ERD  + E+  + GEI++ TVKR+E  +VI DLG ++  + + E    E     +RV+  
Sbjct: 125 ERDTVFNEYAHRAGEILTATVKRLEPMDVIFDLGKAEARMPKREQSRLEQFSVAERVRVV 184

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V R  +GPQV++SR  P  +  LF  EVPEIY+G V ++A++R+ G R K+AV S D
Sbjct: 185 LLRVDRAAKGPQVIVSRAAPALVQSLFQSEVPEIYDGTVSIRAIAREAGERTKIAVVSRD 244

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DED 304
             +DPVGACVGM+G RVQ+++ ELR EKIDI+ +S +  TF   AL+PA V++V + D  
Sbjct: 245 KDVDPVGACVGMKGMRVQSIIRELRGEKIDIIEYSEEITTFAEKALQPAKVSRVSITDLA 304

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF--- 361
             ++EVIV   QLSLAIG++GQNVRLA++L  W IDI +EEE     ++     T     
Sbjct: 305 EKQLEVIVDDTQLSLAIGKKGQNVRLAAKLLQWKIDIKSEEEKRQEVEQQMQAMTGGPST 364

Query: 362 -FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
              Q   + E +   L+A G   VE LA +   E+  + G  ++T  +I    R Y    
Sbjct: 365 PIEQVTELGESVMEKLIAAGITTVESLADMTAEELGEVPGIGDKTVEKIAVAVRHYFGQY 424

Query: 421 DITLQKKIRELGVSEELC 438
           +   +++     V   L 
Sbjct: 425 E-EGEERPVPAPVEPALL 441


>gi|15644522|ref|NP_229574.1| transcription elongation factor NusA [Thermotoga maritima MSB8]
 gi|16975175|pdb|1HH2|P Chain P, Crystal Structure Of Nusa From Thermotoga Maritima
 gi|4982355|gb|AAD36840.1|AE001815_14 N utilization substance protein A [Thermotoga maritima MSB8]
          Length = 344

 Score =  429 bits (1105), Expect = e-118,   Method: Composition-based stats.
 Identities = 141/335 (42%), Positives = 224/335 (66%), Gaps = 1/335 (0%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           LL+  D +  EK I ++ V+ ++  ++  A R  +G   ++ V I+  TG+I +++LLEV
Sbjct: 5   LLEALDQLEEEKGISKEEVIPILEKALVSAYRKNFGNSKNVEVVIDRNTGNIKVYQLLEV 64

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VEEVE+   QISL+ A+  DP  ++G +V   L   +FGR+A Q+AKQV+IQ++RE E++
Sbjct: 65  VEEVEDPATQISLEEAKKIDPLAEVGSIVKKELNVKNFGRIAAQTAKQVLIQRIRELEKE 124

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
           +Q+ ++ +  G + +  V RV      + +G  +  + + E I  E ++ GD VK YI D
Sbjct: 125 KQFEKYSELKGTVTTAEVIRVMGEWADIRIGKLETRLPKKEWIPGEEIKAGDLVKVYIID 184

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  +GP++L+SR  P+F++ L  +E+PE+ NGIV++KA++R+PG R K+AV S+D ++
Sbjct: 185 VVKTTKGPKILVSRRVPEFVIGLMKLEIPEVENGIVEIKAIAREPGVRTKVAVASNDPNV 244

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           DP+GAC+G  GSR+ A++ EL+ EK+D++ WS D    + NAL PA V +V +LD++   
Sbjct: 245 DPIGACIGEGGSRIAAILKELKGEKLDVLKWSDDPKQLIANALAPATVIEVEILDKENKA 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
             V+VP  QLSLAIG+ GQN RLA++LTGW IDI 
Sbjct: 305 ARVLVPPTQLSLAIGKGGQNARLAAKLTGWKIDIK 339


>gi|284108775|ref|ZP_06386440.1| transcription elongation factor NusA [Candidatus Poribacteria sp.
           WGA-A3]
 gi|283829849|gb|EFC34140.1| transcription elongation factor NusA [Candidatus Poribacteria sp.
           WGA-A3]
          Length = 404

 Score =  429 bits (1104), Expect = e-118,   Method: Composition-based stats.
 Identities = 156/359 (43%), Positives = 231/359 (64%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
           + EL+ + + V  EK ID+  VL+ +  ++  AA+  YG   +I+V+I+PETG+IS+  L
Sbjct: 2   KHELMAVIEQVGREKGIDKHRVLAAVESALLTAAKKRYGNNENIQVQIDPETGEISIVSL 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             + +++ +   QISL  AR  D   ++G  +   +   +FGR+A Q+AKQVI QKVREA
Sbjct: 62  KTIADQITDVNAQISLDEARAIDGEAELGDEIGSLIDVEEFGRIAAQAAKQVICQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
             +    E+  + G+++ G +   E  N +V++G ++ V+   E I RE  R GDRV++ 
Sbjct: 122 TWEAVEREYSKREGDLVHGIILGQERRNYLVEIGKTEAVLPVHEQIPREVHRRGDRVRAL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +VRR  +  QV+LSR HPQF+VKLF +EVPE+   I+++K V R+PG R K+AVFS D
Sbjct: 182 LLEVRRTPKDVQVILSRAHPQFVVKLFQLEVPEVTEKILEIKGVVREPGDRTKIAVFSKD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++DPVGACVG++GSRVQA+V EL+ EKIDI+ W+ D   F+  AL PA + KV +DE+ 
Sbjct: 242 KAVDPVGACVGIKGSRVQAIVRELKGEKIDIIPWTTDPRVFIGEALNPASIEKVGIDEEK 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
               V+V   QLSLAIG+ GQNVRLA++LTGW IDII+  E    + +   E      +
Sbjct: 302 KAALVVVADSQLSLAIGKNGQNVRLAAKLTGWKIDIISVSEYEKEKLEREREIKAALAE 360


>gi|313680244|ref|YP_004057983.1| nusa antitermination factor [Oceanithermus profundus DSM 14977]
 gi|313152959|gb|ADR36810.1| NusA antitermination factor [Oceanithermus profundus DSM 14977]
          Length = 401

 Score =  429 bits (1103), Expect = e-118,   Method: Composition-based stats.
 Identities = 151/353 (42%), Positives = 219/353 (62%), Gaps = 10/353 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD---------IRVEINPE 56
             E ++    VA E+ +  D ++    +++ KA     G             + V + P 
Sbjct: 2   NREFVEALQHVALERGVSTDELIEAFEEALAKAYLRHKGFKPKEVEEGLGPLVEVHLEPS 61

Query: 57  TGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQ 116
           TG+I +  +  VVEEVEN    I L+ A+  DP + +G  +  P+ P +F R+AVQ+AKQ
Sbjct: 62  TGEIEVLEIRRVVEEVENPDRDIPLEEAKKYDPEVQVGEEMEFPVDPDEFSRIAVQAAKQ 121

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISREN 175
           ++ Q+++EAER+R Y E+KD+ GEII+G V RV+  GNV VDLG  + ++   E I  E 
Sbjct: 122 ILTQRLKEAERNRVYEEYKDREGEIITGQVTRVDNRGNVYVDLGRGEALMPPREQIPGER 181

Query: 176 LRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
             PG RVK Y+ +VRR  +GP +++SR H + +  L   EVPEI  G V++K V+R+PGS
Sbjct: 182 YHPGQRVKVYLKEVRRSSKGPSLIVSRAHEELLKYLMRQEVPEIAEGTVEIKVVAREPGS 241

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           R+K+AV S + ++DP+GAC+G +G R+QAV  EL  EKID++ WS +   F+ NAL PA 
Sbjct: 242 RSKVAVVSHNPNVDPIGACIGHKGQRIQAVSAELGREKIDVIPWSSNPREFIRNALSPAT 301

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           V  + +D + GR  V V K+Q S+AIGR GQNVRLAS+LTG+ ID    EE S
Sbjct: 302 VGNIEIDTEAGRAVVSVGKDQHSVAIGRGGQNVRLASKLTGFEIDFKEAEEVS 354


>gi|269926028|ref|YP_003322651.1| NusA antitermination factor [Thermobaculum terrenum ATCC BAA-798]
 gi|269789688|gb|ACZ41829.1| NusA antitermination factor [Thermobaculum terrenum ATCC BAA-798]
          Length = 372

 Score =  429 bits (1103), Expect = e-118,   Method: Composition-based stats.
 Identities = 159/340 (46%), Positives = 228/340 (67%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
           R E       ++ E+ I RDV++  + ++++   R  Y    DI V+I+P TG  +++R+
Sbjct: 2   RGEFYAAISQLSLERGIPRDVLIKSVEEAVKAVYRKNYDASGDIEVKIDPNTGQATVYRV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           L+VVE V++   QISL  A+  D    IG VV   + P  FGR+A Q  KQV++QK+REA
Sbjct: 62  LQVVENVKDPKTQISLADAKKIDKEARIGSVVHQDVTPDTFGRIAAQMTKQVMLQKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E +  Y EF D+ GE+++G V+RVE G VIV LG ++ ++ + E +  EN +PG R+K  
Sbjct: 122 EHETIYKEFGDREGELVTGVVQRVENGLVIVQLGKAEAIMPKAEQVESENYKPGQRLKVL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V +  RGPQ+++SR     + +LF +EVPEIYNG V++KA++R PG R+K+AV +  
Sbjct: 182 LLKVVKTPRGPQLIVSRRDKNLLKRLFEIEVPEIYNGSVEIKAIARIPGVRSKIAVAARQ 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVG+CVG+RG+RVQ VV EL+ EKIDI+ WS D ATF+  AL PA V +V+LD++ 
Sbjct: 242 PGIDPVGSCVGVRGTRVQNVVDELQGEKIDIIQWSDDPATFIARALSPAQVNEVILDKET 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
               VIVP++QLSLAIG+ GQN RLA+ LTGW IDI + E
Sbjct: 302 KTATVIVPEKQLSLAIGKDGQNARLAANLTGWRIDIRSPE 341


>gi|300173097|ref|YP_003772263.1| N utilization substance protein A [Leuconostoc gasicomitatum LMG
           18811]
 gi|299887476|emb|CBL91444.1| N utilization substance protein A [Leuconostoc gasicomitatum LMG
           18811]
          Length = 363

 Score =  428 bits (1102), Expect = e-118,   Method: Composition-based stats.
 Identities = 139/353 (39%), Positives = 221/353 (62%), Gaps = 4/353 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL+   DA+  E+ I+R++V++ + D+++ A +  Y    ++    + + G++++ ++
Sbjct: 2   SKELVDALDALEAERGIEREIVVAALEDALRAAYKKQYNAEQNVEAVFDTKKGNVAIKQV 61

Query: 66  LEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV  ++ EN   +ISL  A   + + + G  +   + P DFGR+A Q+AKQVI+QK+R
Sbjct: 62  KNVVLDDDFENEDTEISLTDALVINRAYEAGDEIRFDVTPKDFGRMAAQAAKQVIVQKMR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRV 182
           EA R+  Y +F D   EII+G V R +   + + L GN +  +  ++ +  E  R GDR+
Sbjct: 122 EAGREAIYNKFADYQDEIITGEVDRQDARFLYMTLPGNQEAAMAPNDQMPNERYRMGDRI 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           K  +  V    +GPQ+ +SRT P  + +LF  EVPE+Y+G V++  +SR+ G R+K+AV+
Sbjct: 182 KVLVNKVENNAKGPQIFVSRTAPDLVKRLFEQEVPEVYDGTVEIMNISREAGDRSKIAVY 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           + D+ +DPVGA VG RG+RVQAVV EL  E +DIV W  D A ++ NAL P+ V  V+ +
Sbjct: 242 THDTDLDPVGAMVGQRGARVQAVVNELGGENMDIVEWVEDEAQYIANALNPSEVADVIFN 301

Query: 303 -EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
            E+   + VIVP  QLSLAIG++GQN RLA++LTG+ IDI +E E + +  K 
Sbjct: 302 PENERAVTVIVPDNQLSLAIGKKGQNARLAARLTGFKIDIKSESEAANSLSKQ 354


>gi|329769654|ref|ZP_08261058.1| transcription termination factor NusA [Gemella sanguinis M325]
 gi|328838409|gb|EGF88018.1| transcription termination factor NusA [Gemella sanguinis M325]
          Length = 343

 Score =  428 bits (1102), Expect = e-118,   Method: Composition-based stats.
 Identities = 144/342 (42%), Positives = 215/342 (62%), Gaps = 2/342 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             +LL+    +  EK I  D+++  +  ++  A +  +    ++RV+ N  TGD      
Sbjct: 2   SKDLLKAIKLIEQEKGIAEDILVEAIELALLSAYKKNFNAAKNVRVDFNRATGDYKFIIR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            +VVEEV +   + +L+ A   +P+ ++G +  +   P DFGRV  Q+AKQ ++Q++REA
Sbjct: 62  KDVVEEVYDDRIEFALEDALKINPAYEVGDIYEEEDLPSDFGRVGAQAAKQALLQRLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E++  + E+ +  GEI+SGTV R++   V V LG  + ++  +E +  E   P   +K Y
Sbjct: 122 EKEILFKEYSEYEGEILSGTVDRIDTRYVYVKLGKIEAILGENERVPGEEYVPQTPIKVY 181

Query: 186 IYDVRREQRG--PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           I  V    RG  P VL SR+HP+F+ +LF +EVPEIYNG+V++K+VSR+ G R K+AV+S
Sbjct: 182 IAKVDNPSRGSKPHVLASRSHPEFIRRLFEIEVPEIYNGVVEIKSVSREAGDRTKIAVYS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D +IDPVGACVG +G RV  +V+EL  EKIDI+ W  D   F+ NAL PA V ++ +DE
Sbjct: 242 EDKNIDPVGACVGNKGERVNRIVSELNGEKIDIITWDADPVKFITNALAPAKVEEISIDE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +     V V  +QLSLAIG++GQNVRLA++LTGW IDI   E
Sbjct: 302 EEKIANVKVKDDQLSLAIGKKGQNVRLAAKLTGWKIDIKAAE 343


>gi|153938223|ref|YP_001391719.1| transcription elongation factor NusA [Clostridium botulinum F str.
           Langeland]
 gi|152934119|gb|ABS39617.1| N utilization substance protein A [Clostridium botulinum F str.
           Langeland]
 gi|295319745|gb|ADG00123.1| N utilization substance protein A [Clostridium botulinum F str.
           230613]
          Length = 439

 Score =  428 bits (1102), Expect = e-117,   Method: Composition-based stats.
 Identities = 163/434 (37%), Positives = 269/434 (61%), Gaps = 11/434 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDIS 61
             E ++    +  EK I  D++ + + D++  A +  Y    G+ ++++V +N E G+I 
Sbjct: 2   NQEFVEALREIVKEKGISADLLFTTIEDALVTAYKKNYAKQGGSTNNVKVIMNRENGEIK 61

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++   +VV+ VE    +ISL+ A++ DP+ ++  +++  + P  FGR+A Q+AKQV+IQ+
Sbjct: 62  VYAQKKVVDFVEEEVEEISLEDAKEIDPNYELEDIINIEVTPKKFGRIAAQAAKQVVIQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++E ER   Y E+ +K  +I++GTV R + GN+++++G S+ V+  +E I  E  R  ++
Sbjct: 122 IKEEERRIVYNEYIEKEEDILTGTVLRKDKGNILINVGKSEAVLGPNEQIPGEQFRFNEK 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+ +V+   +GPQVL+SRTHP  + +LF +EVPEIYNGIV++K+++R+ GSR K+AV
Sbjct: 182 IKLYVVEVKNTTKGPQVLISRTHPGLVKRLFELEVPEIYNGIVEIKSIAREAGSRTKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
           +S+D ++DP+GACVG +G RVQ +V EL++EKIDI+ WS      + NAL PA V  V +
Sbjct: 242 YSNDEAVDPMGACVGPKGVRVQNIVNELKNEKIDIIKWSKFPDELICNALSPAKVIDVTI 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT----EEEDSINRQKDFN 356
           +DE+    +V+V   QLSLAIG+ GQNVRLA++LTGW IDI +    E+E ++N  +  +
Sbjct: 302 VDEENKAAKVVVDDSQLSLAIGKEGQNVRLAAKLTGWKIDIKSKSQAEKEGTLNSSETKD 361

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
           E+     +    D+I     +     +V+E     IS     E   EE         +E 
Sbjct: 362 EKILENKKEDKEDKIDLKEEIDNTVENVKEYIEKDISVSEDKENITEEDVNS--SEDKED 419

Query: 417 LEGIDITLQKKIRE 430
           +E ++I  +K I E
Sbjct: 420 IEEVNIDTEKAIEE 433


>gi|226323231|ref|ZP_03798749.1| hypothetical protein COPCOM_01003 [Coprococcus comes ATCC 27758]
 gi|225208421|gb|EEG90775.1| hypothetical protein COPCOM_01003 [Coprococcus comes ATCC 27758]
          Length = 393

 Score =  428 bits (1102), Expect = e-117,   Method: Composition-based stats.
 Identities = 153/344 (44%), Positives = 226/344 (65%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL+    +  EK I RD ++  + +S+  A ++ +G   +I+V ++ ET D +L + 
Sbjct: 2   NTELLEALTILEEEKDISRDTLMDAIENSLINACKNHFGKADNIKVIMDKETCDYTLIQE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEVE+   QISL  A+  DPS +IG +V  P+    FGR+A Q+AK +I+QK+RE 
Sbjct: 62  KTVVEEVEDKVEQISLADAKMIDPSYEIGDIVQIPVESKSFGRIATQNAKNLILQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y ++ +K  +I++G V+R    NV V+LG +D ++  +E +  E   P +R+K Y
Sbjct: 122 ERKVVYDQYFEKEKDIVTGVVQRYIGKNVSVNLGKADAILTENEQVKGEKFEPTERIKLY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V+   +GP++L+SRTHP+ + +LF  EV E+ +GIV++K+++R+ GSR K+AV+S+D
Sbjct: 182 VVEVKNTTKGPKILVSRTHPELVKRLFEAEVTEVRDGIVEIKSIAREAGSRTKIAVWSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVGM G+RV AVV ELR EKIDI+ WS + A  + NAL PA V  V+ D D 
Sbjct: 242 PDVDPVGACVGMNGARVGAVVNELRGEKIDIINWSDNPAILIENALSPAKVISVMADPDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
               VIVP  QLSLAIG+ GQN RLA++LTG+ IDI  E +   
Sbjct: 302 RTASVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKNETQAIE 345


>gi|254445533|ref|ZP_05059009.1| transcription termination factor NusA [Verrucomicrobiae bacterium
           DG1235]
 gi|198259841|gb|EDY84149.1| transcription termination factor NusA [Verrucomicrobiae bacterium
           DG1235]
          Length = 419

 Score =  428 bits (1102), Expect = e-117,   Method: Composition-based stats.
 Identities = 155/417 (37%), Positives = 260/417 (62%), Gaps = 1/417 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + + +  EK I R+ ++S +  +I+ AA        ++++ I+P  G ++ + LL+
Sbjct: 4   EILSVLEYMEKEKGIGREDMISAIVTAIKNAAAKGVNAGQELKITIDPRHGKMNAWALLD 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +ISL+ AR  D  ++IG V    + P   GR+A Q+A+Q I+Q++R+ E+
Sbjct: 64  VVDSVSDPKTEISLEKARQIDDELNIGDVFEKEIDPAYLGRIAAQTARQAIMQRLRQFEK 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +R Y +FKD+VG+I+SG V+R E G++IVDLG ++ ++   + +  E+  PG+R++  + 
Sbjct: 124 ERIYDDFKDQVGDIVSGIVRRRERGDLIVDLGKAEAMMPSRDQVPGEDYSPGERIRCLLL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            +    RGP+++L+R++P+F+++LF +EV EI +G V+++A SR+PG R K+AV SSD  
Sbjct: 184 KIEATNRGPELILTRSNPKFVLRLFDLEVTEIADGTVKIEAFSREPGYRTKIAVTSSDPK 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG RG+RV+++V EL  EKIDI+ +  D     + AL+PAI   V++DE   R
Sbjct: 244 VDPVGACVGARGARVKSIVRELGGEKIDIIRYFEDPKEMALEALKPAIPRNVIMDERSRR 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           I + V ++ L++AIGR+GQN RL S+L GW IDI+ EE   ++ +    E  Q   Q   
Sbjct: 304 ISIEVSEDDLAIAIGRKGQNARLTSKLVGWKIDIMKEEVKVVSMETKQAEAAQGLNQIEG 363

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
           +D   A  LV  G    E    V+  ++  + GF  E A +I  +   +++  +I+ 
Sbjct: 364 IDSATAERLVNNGLISPELFLDVEEDDLVEM-GFSAEEAADIIAKVTTFIQSQNISS 419


>gi|319937395|ref|ZP_08011802.1| transcription termination-antitermination factor [Coprobacillus sp.
           29_1]
 gi|319807761|gb|EFW04354.1| transcription termination-antitermination factor [Coprobacillus sp.
           29_1]
          Length = 481

 Score =  428 bits (1101), Expect = e-117,   Method: Composition-based stats.
 Identities = 156/436 (35%), Positives = 259/436 (59%), Gaps = 10/436 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFR 64
             + +Q  + +  EK I+++VVL  + ++++K+ +  YG   S IRV+IN   G I L+ 
Sbjct: 3   SKKFIQALELLESEKGIEKEVVLEALKEALEKSYKKNYGGPESIIRVDINENNGKIRLYE 62

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           +  VV++V +   ++SL+ A+  +P   IG  V + + P  FGR+A    KQ++ QK+RE
Sbjct: 63  IKHVVDDVNDEDFELSLEEAQMINPKYQIGDDVVNEIDPEVFGRLAAVQTKQLLKQKIRE 122

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AE++  Y EF DK  +II+G V RVE    I+++G +  ++  ++ I  E +  G  +K 
Sbjct: 123 AEKETLYNEFVDKKDDIITGIVDRVEERFAIINIGRTGALLPSNQQIPGETIYEGQHLKV 182

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+ DV R  +G  + +SRT P  + +LF MEVPEIY+G V++K+VSR+ G R+K+AV+++
Sbjct: 183 YVSDVERNTKGTHIGVSRTEPGLVKRLFEMEVPEIYDGTVEIKSVSREAGDRSKIAVYTT 242

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           + ++DP+G+CVG +GSRV+ VV EL  E IDIV W+ +   F+ +AL P+ V  V ++E+
Sbjct: 243 NENVDPIGSCVGPKGSRVRNVVNELNGEMIDIVEWNENPVIFISHALSPSEVVNVDINEN 302

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN--RQKDFNERTQFF 362
                VIVP  QLSLAIG++GQN RLA +LTGW IDI +  E +          E  + F
Sbjct: 303 DHSALVIVPDNQLSLAIGKKGQNARLAVRLTGWKIDIKSVSEAAREGIIYGQDAEFEKTF 362

Query: 363 MQAINVDE-IIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           ++ +  DE +I  +++ E F ++E++    I+E   +E   E     I    +  +E  +
Sbjct: 363 VEEMTKDEPVIEDVMIEESFEELEDIIEEPITENIIVE---EPVVQPIVEEVKADVEVTE 419

Query: 422 ITLQKKIRELGVSEEL 437
               + + +  V  ++
Sbjct: 420 ---PEILLDDEVENDM 432


>gi|218133589|ref|ZP_03462393.1| hypothetical protein BACPEC_01458 [Bacteroides pectinophilus ATCC
           43243]
 gi|217990964|gb|EEC56970.1| hypothetical protein BACPEC_01458 [Bacteroides pectinophilus ATCC
           43243]
          Length = 393

 Score =  428 bits (1101), Expect = e-117,   Method: Composition-based stats.
 Identities = 142/380 (37%), Positives = 219/380 (57%), Gaps = 3/380 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD--IRVEINPETGDISLF 63
             EL+   DA+  EK I +D+++  + +S+    +  +G   D  I V I+  TGD  +F
Sbjct: 2   NKELIGALDALEKEKGISKDILIEAIENSLITGCKQHFGITKDDGIVVRIDRNTGDFRVF 61

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
               VVE VE+   QISL+ A   +    IG  ++  +   DF R+A Q AK +I+Q++R
Sbjct: 62  ITKRVVEHVEDPVEQISLEDAVKINSKAQIGNGINVEIKSEDFSRIAAQKAKGIILQRIR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           E ER   Y E+  K  +I++G V+R+    + ++LG  D V+   E +  E   P +R+K
Sbjct: 122 EEERKSVYSEYAMKEKDIVTGIVQRINGDKISINLGKMDAVLLPKEQVKGEVFVPTERIK 181

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            Y+  V    +G  V +SR+HP  + +LF  EV E+ +G V++K ++R+ GSR K+AV+S
Sbjct: 182 LYVVSVTDTAKGVIVKVSRSHPDLVKRLFESEVTEVKDGTVEIKGIAREAGSRTKMAVWS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           ++  +DPVGACVG+ G+RV A+V ELR EKIDI+ WS + A  + NAL PA V  V+ D+
Sbjct: 242 NNPDVDPVGACVGLNGARVNAIVNELRGEKIDIINWSENPAILIENALSPAKVVSVIADD 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           +    +V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E +     + +     + + 
Sbjct: 302 EEKTAQVVVPDYQLSLAIGKEGQNARLAARLTGFKIDIKSESQAREAGEYE-GYNEESYD 360

Query: 364 QAINVDEIIAHLLVAEGFAD 383
                 E +   L  E   D
Sbjct: 361 DDAEYSENMNDALPDEDIQD 380


>gi|301167102|emb|CBW26681.1| transcription pausing; L factor [Bacteriovorax marinus SJ]
          Length = 467

 Score =  427 bits (1100), Expect = e-117,   Method: Composition-based stats.
 Identities = 171/429 (39%), Positives = 266/429 (62%), Gaps = 4/429 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL ++ + +  E+ I++D+V+  +  +    AR  YG   +     N    DI +++   
Sbjct: 4   ELGRVIETLGKERGIEKDIVVKAVEQAFLVTARKKYGIQGEYETRYNDGDDDIEIYQYKN 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV +   +I+L  A++ D  ++IG  +   +   +F RV VQ+A+Q+I QKVR+AER
Sbjct: 64  VVDEVRDPIVEITLADAKELDEEVEIGDQIGIKIENPNFSRVDVQTARQIIFQKVRDAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + EFK K GE+++G  +R E GN++VDLG +D V+ R E I  EN +PGDR+++++ 
Sbjct: 124 EILFAEFKHKEGELVTGIARRYERGNIVVDLGKADAVLSRREVIPGENFKPGDRIQAFLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V    RGP++ LSRT P F+VKLF +EVPEI +G +++K+ +R+PG RAK+AV S D  
Sbjct: 184 EVVMTNRGPEIRLSRTSPLFLVKLFELEVPEIQDGTIEIKSAAREPGQRAKIAVTSVDKD 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVGACVGM+GSRVQ VV EL+ EKIDIV W+ D  TF   AL P+ +T + +D +   
Sbjct: 244 IDPVGACVGMKGSRVQNVVNELQGEKIDIVKWADDVDTFARAALAPSEITNIQIDHEDHT 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           ++V+V ++QLSLAIGRRGQNVRLA+ L+G+ I+II++ +     QK         +Q  +
Sbjct: 304 MDVVVEEDQLSLAIGRRGQNVRLAAMLSGYKINIISKTKLQERIQKSVAN----LVQISS 359

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           + + +A ++V  G   + ++A    +E+A +   D E A  I       ++  +I LQ  
Sbjct: 360 ITDTLAQVMVQNGIQAIGDIAAADATELAELLEVDAEQATGIINDTIAAIDAGNIQLQAD 419

Query: 428 IRELGVSEE 436
             E  VS  
Sbjct: 420 EEEELVSAS 428


>gi|259501585|ref|ZP_05744487.1| N utilization substance protein A [Lactobacillus iners DSM 13335]
 gi|259167103|gb|EEW51598.1| N utilization substance protein A [Lactobacillus iners DSM 13335]
          Length = 374

 Score =  427 bits (1100), Expect = e-117,   Method: Composition-based stats.
 Identities = 131/343 (38%), Positives = 208/343 (60%), Gaps = 2/343 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL++   A+  +K I ++ ++  +  ++  A +  Y    ++ V  +   G   +  +
Sbjct: 14  SKELIKSFTALEEQKGIKQEEIVDAIKAALIAAYKKNYNQAQNVEVIFDENKGKFIVQAV 73

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   Q+SLK A + + + ++G  +   + P +FGR+A Q+AKQVI+Q++REA
Sbjct: 74  KTVVDEVQDDRQQVSLKDALEINRAYEVGDEIRFEVTPQNFGRLAAQTAKQVIMQRLREA 133

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER     E+     E+I+GTV+RV+   V + +GN + V+  ++ +  E  +P DR+K  
Sbjct: 134 ERAHIIEEYSQYQNELITGTVERVDNRFVYIKIGNVEAVMPHNDQMPGEVYKPQDRIKVL 193

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+ +SRT P  + +LF  EVPE+YNG V++ +++R+ G R K+AV SSD
Sbjct: 194 VTKVGSDAKGTQITVSRTAPGLVKRLFEQEVPEVYNGTVEIISIAREAGDRTKIAVKSSD 253

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            +IDPVG  VG +GSRVQ +V EL  E ID+V +  D + ++ NAL PA V  V   E  
Sbjct: 254 PNIDPVGTLVGPKGSRVQNIVNELSGENIDVVKYEEDPSDYIANALNPAEVIAVQFGEAN 313

Query: 306 --GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
                 VIVP  QLSLAIG++GQNVRLA++LT + IDI  E +
Sbjct: 314 DDKSALVIVPDYQLSLAIGKKGQNVRLAARLTEYKIDIKPESQ 356


>gi|300087631|ref|YP_003758153.1| transcription termination factor NusA [Dehalogenimonas
           lykanthroporepellens BL-DC-9]
 gi|299527364|gb|ADJ25832.1| transcription termination factor NusA [Dehalogenimonas
           lykanthroporepellens BL-DC-9]
          Length = 500

 Score =  427 bits (1099), Expect = e-117,   Method: Composition-based stats.
 Identities = 161/456 (35%), Positives = 258/456 (56%), Gaps = 9/456 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL-YGTMSDIRVEINPETGDISLFR 64
           + + L     ++ EK++ ++VVL+ +  ++  A R   +    +I+ E++  TG I ++ 
Sbjct: 2   KSDFLLAITQLSAEKNLSKEVVLAAVEAALVSAYRKESFTPNQNIQAELDTMTGKIKVWA 61

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
             +VVE+V +   +++L  AR  +PSI +G  V     P D GR+A Q+AKQVI+Q++ E
Sbjct: 62  EKKVVEKVTDRRIEVTLDEARKVNPSIQLGEPVLIEDTPHDAGRIAAQTAKQVILQRLHE 121

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AE      E+  K G+I+SG ++RVE   VI+DLG ++ V+   E +  E  RPG R+K 
Sbjct: 122 AENTAIVDEYAGKAGDIVSGVIQRVEPKQVIIDLGRAEAVMPPSEQVYTERYRPGQRLKV 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           ++ +V    +G  V++SR+HP  + +LF ME+PEIY+G+V++KAV+R+ G+R+K+AV + 
Sbjct: 182 FLVEVATTIKGATVIVSRSHPGLLRRLFEMEIPEIYSGMVEIKAVAREGGARSKVAVSAR 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
            S IDPVG CVG+RG R+Q +V+EL  EKID++ WS D A  + NAL PA V +V+++E 
Sbjct: 242 QSGIDPVGCCVGLRGIRIQNIVSELNGEKIDVIPWSEDPALLITNALSPAQVVRVIINEA 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
           +     ++P  Q SLAIG+ GQNVRLA +LTGW IDI +  +                 +
Sbjct: 302 LKSATAVIPDRQQSLAIGKEGQNVRLAVKLTGWRIDIKSVSDYEAELPAVAPAPAVETEK 361

Query: 365 AINVDEIIAHLL----VAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
             +    +A       V +   D  E A VK    A  E    E  +E+   A E     
Sbjct: 362 PEDKTAQVAKEKPAKPVEKQAEDAREKATVKAE--AKPEEKPVEVLLELPPEALEPALAT 419

Query: 421 DITLQKKIRELG--VSEELCSIPGIDSKIKVALGEN 454
             + + ++ E G  +S ++   P I ++  V   E+
Sbjct: 420 APSAEPEVEEGGTKLSLDMAERPDIKNESGVRFAED 455


>gi|302191441|ref|ZP_07267695.1| transcription elongation factor NusA [Lactobacillus iners AB-1]
          Length = 362

 Score =  427 bits (1099), Expect = e-117,   Method: Composition-based stats.
 Identities = 131/343 (38%), Positives = 208/343 (60%), Gaps = 2/343 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL++   A+  +K I ++ ++  +  ++  A +  Y    ++ V  +   G   +  +
Sbjct: 2   SKELIKSFTALEEQKGIKQEEIVDAIKAALIAAYKKNYNQAQNVEVIFDENKGKFIVQAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   Q+SLK A + + + ++G  +   + P +FGR+A Q+AKQVI+Q++REA
Sbjct: 62  KTVVDEVQDDRQQVSLKDALEINRAYEVGDEIRFEVTPQNFGRLAAQTAKQVIMQRLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER     E+     E+I+GTV+RV+   V + +GN + V+  ++ +  E  +P DR+K  
Sbjct: 122 ERAHIIEEYSQYQNELITGTVERVDNRFVYIKIGNVEAVMPHNDQMPGEVYKPQDRIKVL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+ +SRT P  + +LF  EVPE+YNG V++ +++R+ G R K+AV SSD
Sbjct: 182 VTKVGSDAKGTQITVSRTAPGLVKRLFEQEVPEVYNGTVEIISIAREAGDRTKIAVKSSD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            +IDPVG  VG +GSRVQ +V EL  E ID+V +  D + ++ NAL PA V  V   E  
Sbjct: 242 PNIDPVGTLVGPKGSRVQNIVNELSGENIDVVKYEEDPSDYIANALNPAEVIAVQFGEAN 301

Query: 306 --GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
                 VIVP  QLSLAIG++GQNVRLA++LT + IDI  E +
Sbjct: 302 DDKSALVIVPDYQLSLAIGKKGQNVRLAARLTEYKIDIKPESQ 344


>gi|160947563|ref|ZP_02094730.1| hypothetical protein PEPMIC_01498 [Parvimonas micra ATCC 33270]
 gi|158446697|gb|EDP23692.1| hypothetical protein PEPMIC_01498 [Parvimonas micra ATCC 33270]
          Length = 378

 Score =  427 bits (1099), Expect = e-117,   Method: Composition-based stats.
 Identities = 139/349 (39%), Positives = 224/349 (64%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +     + L+  D +  EK + ++++   +  ++ K+    +G   ++++ IN  TG + 
Sbjct: 7   MMKGTTDFLRALDEIEREKGVSKEIIFDSLEKALLKSYEKNFGEYENVKININRTTGKVE 66

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           LF +  VVE VE+   +ISL  A+       +G  VS  L  MDFGRVA Q+A+ ++IQK
Sbjct: 67  LFAIKTVVEVVEDNITEISLDDAKAISTKYSLGDEVSIKLKTMDFGRVAAQTARNIVIQK 126

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +++AER+  Y +F+DK  E+ISG ++R++  N+ ++LG  + ++   E I  E  R G+R
Sbjct: 127 IKDAEREVIYNDFQDKERELISGQIQRIDRNNLFINLGKLEAIVTPPEQIKSEVYRVGER 186

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+ +V+   +G QVLLSR+   F++KLF +EVPEI +G V++++++R+PGSR K+AV
Sbjct: 187 LKFYVKEVKNTPKGAQVLLSRSDVNFVLKLFELEVPEILDGTVEIQSIAREPGSRTKIAV 246

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           FS +  +DPVGACVG + SRV +++ EL+ EKIDI+V+S +   ++ N+L P+ V  V  
Sbjct: 247 FSKNDDVDPVGACVGYKRSRVSSIIKELKGEKIDIIVYSKNVKEYLSNSLSPSEVIAVFT 306

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
           +E   R  +IVP  QLSLAIG+ GQN RLA++LT W IDI   E+   +
Sbjct: 307 NESENRARIIVPDSQLSLAIGKEGQNARLAAKLTNWRIDIKGLEKYKED 355


>gi|291460012|ref|ZP_06599402.1| transcription termination factor NusA [Oribacterium sp. oral taxon
           078 str. F0262]
 gi|291417353|gb|EFE91072.1| transcription termination factor NusA [Oribacterium sp. oral taxon
           078 str. F0262]
          Length = 444

 Score =  427 bits (1099), Expect = e-117,   Method: Composition-based stats.
 Identities = 151/345 (43%), Positives = 218/345 (63%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL    + +  EK I +  ++  +  S+Q A R+ +G+  ++RV ++PE+ D S+   
Sbjct: 2   NTELRDALELLEKEKGIPKQALIEAIELSLQTACRNHFGSADNVRVNVDPESCDFSVIAD 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE V N   +I L  A+  DP  ++G +V  P+    FGR+A Q+AK VI+QK+RE 
Sbjct: 62  KTVVETVSNPIAEIGLSEAKLVDPKYELGDIVQVPVDSRSFGRIATQNAKGVIVQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y E+     E++SG V+R    ++IV+LG  DG +  +E +  E L P DR+K Y
Sbjct: 122 ERRVLYREYYSMAREVVSGVVERDTGRSIIVNLGRVDGYLSENEQVKGEVLNPTDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +VR   +GP+VLLSRTHP+ + KLF  E PEI  GIV+++A++R+ GSR K+AV S+D
Sbjct: 182 VVEVRDSPKGPRVLLSRTHPELVKKLFEEEAPEIREGIVEIRAIAREAGSRTKMAVLSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVG+CVG+ G+RV AVV ELR EKIDI+ +  + A  + NAL PA V  V+ D D 
Sbjct: 242 PDVDPVGSCVGLDGTRVNAVVEELRGEKIDIINYDENPAYLIENALSPAKVIAVIADPDN 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
               VIVP  QLSLAIG+ GQN RL+++LTG+ IDI +E +    
Sbjct: 302 KDAMVIVPDTQLSLAIGKEGQNARLSAKLTGYKIDIKSESQAQEQ 346


>gi|159897005|ref|YP_001543252.1| NusA antitermination factor [Herpetosiphon aurantiacus ATCC 23779]
 gi|159890044|gb|ABX03124.1| NusA antitermination factor [Herpetosiphon aurantiacus ATCC 23779]
          Length = 444

 Score =  427 bits (1099), Expect = e-117,   Method: Composition-based stats.
 Identities = 150/344 (43%), Positives = 225/344 (65%), Gaps = 4/344 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS---DIRVEINPETGDISL 62
           + +       +A E+ I R+ V  V+  ++  A R   G+     D+++E+ P TG I +
Sbjct: 2   KSDFYAAISQIAAERGIPRESVQDVVEQALISAYRRYLGSNPPPVDVKIELEPNTGRIRV 61

Query: 63  FRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           +   +VV+EV +   +I ++ AR+    ++IG  V     P DFGR+A Q+AKQV++Q++
Sbjct: 62  YAEKQVVDEVMDDRFEIDIEDARNVRADVEIGETVYVESTPDDFGRIAAQTAKQVVLQRI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           +E ERD  Y E+ D+ GEI++ TV+R   GNVI+++G ++ ++ + E IS +N R G R+
Sbjct: 122 KEVERDHIYGEYFDREGEIVTATVQRTAKGNVILEVGRAEAILPQKEQISHDNYRHGQRL 181

Query: 183 KSYIYDVRRE-QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           K Y+ + RR+  RGP+++ SRTH   + +LF MEVPEIYNG V++K+++R+PG R+K+AV
Sbjct: 182 KVYLMEARRDDPRGPRLVASRTHKDLIKRLFEMEVPEIYNGTVEIKSIAREPGLRSKVAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            +    IDPVG+CVGMRG R+Q +V EL  EKID+V W  D   F+ NAL PA V +V L
Sbjct: 242 HARQEGIDPVGSCVGMRGIRIQNIVNELNGEKIDVVQWGADMRVFIANALSPAQVVEVHL 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           DE      V+VP +QLSLAIG+ GQNVRLA++L GW IDI +  
Sbjct: 302 DEGEKTATVVVPDKQLSLAIGKEGQNVRLAAKLVGWRIDIKSAS 345


>gi|313906214|ref|ZP_07839560.1| transcription termination factor NusA [Eubacterium cellulosolvens
           6]
 gi|313468944|gb|EFR64300.1| transcription termination factor NusA [Eubacterium cellulosolvens
           6]
          Length = 415

 Score =  427 bits (1098), Expect = e-117,   Method: Composition-based stats.
 Identities = 140/345 (40%), Positives = 213/345 (61%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL   + +  EK+I ++ +L  +  S+ +A ++ Y    ++ V I+P+T D  ++  
Sbjct: 2   NSELLDALNILEKEKNISKETLLEAIQQSLLQAYKNQYDRSDNVVVSIDPDTCDFHIYAE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE VE+   +I+   A   D +  IG  V   +   +FGR+A  +AK VI+QK+RE 
Sbjct: 62  KTVVETVEDPVTEIAQIDAFKYDSTAQIGETVRVEIQSKNFGRIATTNAKNVILQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   + E+++K  E+++GTV+R    NV V+LG  D ++   E +  E  R  +RVK Y
Sbjct: 122 ERRALFNEYREKEHEVMTGTVQRYVGQNVNVNLGKVDALLTAKEMVKGEKFRLTERVKIY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +VR   +GP++L+SRTHP+ + +LF  EV EI  GI+++K+++R+ GSR K+AV+S+D
Sbjct: 182 VLEVRDTPKGPKILVSRTHPELVKRLFEEEVAEIREGIIEIKSIAREAGSRTKIAVWSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +D VGACVG+ GSRV A+V EL  EKID++ W  + A  + +AL PA V  V+ D D 
Sbjct: 242 PDVDAVGACVGVNGSRVNAIVDELDGEKIDVIEWDENEAVLIEHALSPAKVISVLADPDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
               VIVP  QLSLAIG+ GQN RLA+ LT + IDI +E +    
Sbjct: 302 KTALVIVPDYQLSLAIGKEGQNARLAAHLTQYKIDIKSESQAKEE 346


>gi|297180246|gb|ADI16466.1| transcription elongation factor [uncultured bacterium HF770_11D24]
          Length = 467

 Score =  427 bits (1098), Expect = e-117,   Method: Composition-based stats.
 Identities = 154/408 (37%), Positives = 241/408 (59%), Gaps = 1/408 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E +   +    EK +DR++++S + D++  AA+   G   ++R EI+ + GDI  F  
Sbjct: 2   NAEFIASMEYWEREKGLDREILISAVEDAMVSAAKRAVGPARELRCEIDRKDGDIRAFAT 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           L VVE V +   +ISL  A+   P   +   +   + P +FGR+A Q+AKQ ++Q +R A
Sbjct: 62  LIVVETVTDKQNEISLDSAQRIKPDAQLEEELEVEVTPKNFGRIASQNAKQALMQAIRRA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E+   Y EFKD+VG+I+SG V+  +  +V+VDLG  + ++   E +  E  + G+R++  
Sbjct: 122 EKALIYTEFKDRVGDIVSGEVRGFDRSDVLVDLGKFEALLPNRERVPTEEYQRGERIRCL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V       +++LSR    F++KLF +EV EI +G +++KA++R+PG R KLAV S D
Sbjct: 182 VKAVEGSDSSSEIILSRRDSDFVIKLFQLEVSEINDGTIEIKAIAREPGFRTKLAVHSRD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG+RG RV+ +V EL +EKIDI+ W  D  T+V N+L PA + ++ + +D 
Sbjct: 242 EKVDPVGACVGLRGQRVKNIVRELNNEKIDIIRWDSDVETYVTNSLAPAQLKRLEIQQDR 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            R+ V+V  +QLSLAIGRRGQN RL S LTGW IDI  E+E  +  ++   +        
Sbjct: 302 KRVHVLVDPDQLSLAIGRRGQNARLTSLLTGWQIDIDPEQEVRVGFEEQVADAVDALAAI 361

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
             +++  A  LV  G   ++ L  V+ S++A I G   E A  +   A
Sbjct: 362 PGIEKEQADALVHAGLLTLDALNGVEASDLADIPGL-AEHAESVLAAA 408


>gi|168184627|ref|ZP_02619291.1| N utilization substance protein A [Clostridium botulinum Bf]
 gi|237795857|ref|YP_002863409.1| transcription elongation factor NusA [Clostridium botulinum Ba4
           str. 657]
 gi|182672266|gb|EDT84227.1| N utilization substance protein A [Clostridium botulinum Bf]
 gi|229261617|gb|ACQ52650.1| N utilization substance protein A [Clostridium botulinum Ba4 str.
           657]
          Length = 439

 Score =  427 bits (1098), Expect = e-117,   Method: Composition-based stats.
 Identities = 158/434 (36%), Positives = 265/434 (61%), Gaps = 11/434 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDIS 61
             E ++    +  EK I  D++ + + D++  A +  Y    G+ ++++V +N E G+I 
Sbjct: 2   NQEFVEALKEIVKEKGISADLLFTTIEDALVTAYKKNYAKQGGSTNNVKVIMNRENGEIK 61

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++   +VV+ VE    +ISL+ A++ DP+ ++  +++  + P  FGR+A Q+AKQV+IQ+
Sbjct: 62  VYAQKKVVDFVEEEVEEISLEDAKEIDPNYELEDIINIEVTPKKFGRIAAQAAKQVVIQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++E ER   Y E+ +K  +I++GTV R + GN+++++G S+ V+  +E I  E  R  ++
Sbjct: 122 IKEEERRIVYNEYIEKEEDILTGTVLRKDKGNILINVGKSEAVLGPNEQIPGEQFRFNEK 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+ +V+   +GPQVL+SRTHP  + +LF +EVPEIYNGIV++K+++R+ GSR K+AV
Sbjct: 182 IKLYVVEVKNTTKGPQVLISRTHPGLVKRLFELEVPEIYNGIVEIKSIAREAGSRTKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
           +S+D ++DP+GACVG +G RVQ +V EL++EKIDI+ WS      + NAL PA V  V +
Sbjct: 242 YSNDEAVDPMGACVGPKGVRVQNIVNELKNEKIDIIKWSKFPDELICNALSPAKVIDVTI 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE-DSINRQKDFNERT 359
           +DE+    +V+V   QLSLAIG+ GQNVRLA++LTGW IDI ++ + +          + 
Sbjct: 302 VDEENKAAKVVVDDSQLSLAIGKEGQNVRLAAKLTGWKIDIKSKSQAEKEGTLNSSETKD 361

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIA---SIEGFDEETAVEIQGRAREY 416
           +  ++    D+     L  E    V+ +      +I+     E   EE         +E 
Sbjct: 362 EKILEDKKEDKEDRIDLKEEIDNTVKNVKEYIEEDISVSEDKEDITEEDVNS--SEDKED 419

Query: 417 LEGIDITLQKKIRE 430
           +E ++I  +K I E
Sbjct: 420 IEEVNIDTEKAIEE 433


>gi|309804404|ref|ZP_07698478.1| transcription termination factor NusA [Lactobacillus iners LactinV
           11V1-d]
 gi|309807206|ref|ZP_07701180.1| transcription termination factor NusA [Lactobacillus iners LactinV
           03V1-b]
 gi|309808384|ref|ZP_07702285.1| transcription termination factor NusA [Lactobacillus iners LactinV
           01V1-a]
 gi|309809697|ref|ZP_07703552.1| transcription termination factor NusA [Lactobacillus iners SPIN
           2503V10-D]
 gi|312871846|ref|ZP_07731931.1| transcription termination factor NusA [Lactobacillus iners LEAF
           3008A-a]
 gi|312872033|ref|ZP_07732111.1| transcription termination factor NusA [Lactobacillus iners LEAF
           2062A-h1]
 gi|312873348|ref|ZP_07733401.1| transcription termination factor NusA [Lactobacillus iners LEAF
           2052A-d]
 gi|312875707|ref|ZP_07735704.1| transcription termination factor NusA [Lactobacillus iners LEAF
           2053A-b]
 gi|325912466|ref|ZP_08174859.1| transcription termination factor NusA [Lactobacillus iners UPII
           143-D]
 gi|325912547|ref|ZP_08174934.1| transcription termination factor NusA [Lactobacillus iners UPII
           60-B]
 gi|329919859|ref|ZP_08276797.1| transcription termination factor NusA [Lactobacillus iners SPIN
           1401G]
 gi|308163519|gb|EFO65792.1| transcription termination factor NusA [Lactobacillus iners LactinV
           11V1-d]
 gi|308166427|gb|EFO68632.1| transcription termination factor NusA [Lactobacillus iners LactinV
           03V1-b]
 gi|308168369|gb|EFO70486.1| transcription termination factor NusA [Lactobacillus iners LactinV
           01V1-a]
 gi|308169977|gb|EFO72015.1| transcription termination factor NusA [Lactobacillus iners SPIN
           2503V10-D]
 gi|311088772|gb|EFQ47219.1| transcription termination factor NusA [Lactobacillus iners LEAF
           2053A-b]
 gi|311091138|gb|EFQ49529.1| transcription termination factor NusA [Lactobacillus iners LEAF
           2052A-d]
 gi|311092446|gb|EFQ50812.1| transcription termination factor NusA [Lactobacillus iners LEAF
           2062A-h1]
 gi|311092627|gb|EFQ50986.1| transcription termination factor NusA [Lactobacillus iners LEAF
           3008A-a]
 gi|325475713|gb|EGC78886.1| transcription termination factor NusA [Lactobacillus iners UPII
           143-D]
 gi|325478156|gb|EGC81281.1| transcription termination factor NusA [Lactobacillus iners UPII
           60-B]
 gi|328936949|gb|EGG33379.1| transcription termination factor NusA [Lactobacillus iners SPIN
           1401G]
          Length = 362

 Score =  427 bits (1098), Expect = e-117,   Method: Composition-based stats.
 Identities = 131/343 (38%), Positives = 208/343 (60%), Gaps = 2/343 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL++   A+  +K I ++ ++  +  ++  A +  Y    ++ V  +   G   +  +
Sbjct: 2   SKELIKSFTALEEQKGIKQEEIVDAIKAALIAAYKKNYNQAQNVEVIFDENKGKFIVQAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   Q+SLK A + + + ++G  +   + P +FGR+A Q+AKQVI+Q++REA
Sbjct: 62  KTVVDEVQDDRQQVSLKDALEINRAYEVGDEIRFEVTPQNFGRLAAQTAKQVIMQRLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER     E+     E+I+GTV+RV+   V + +GN + V+  ++ +  E  +P DR+K  
Sbjct: 122 ERAHIIEEYSQYQNELITGTVERVDNRFVYIKIGNVEAVMPHNDQMPGEVYKPQDRIKVL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+ +SRT P  + +LF  EVPE+YNG V++ +++R+ G R K+AV SSD
Sbjct: 182 VTKVGSDAKGTQITVSRTAPGLVKRLFEQEVPEVYNGTVEIISIAREAGDRTKIAVKSSD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            +IDPVG  VG +GSRVQ +V EL  E ID+V +  D + ++ NAL PA V  V   E  
Sbjct: 242 PNIDPVGTLVGPKGSRVQNIVNELSGENIDVVKYEEDPSDYIANALNPAEVIAVQFGEAN 301

Query: 306 --GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
                 VIVP  QLSLAIG++GQNVRLA++LT + IDI  E +
Sbjct: 302 DDKSALVIVPDYQLSLAIGKKGQNVRLAARLTEYKIDIKPESQ 344


>gi|315653432|ref|ZP_07906354.1| transcription elongation factor NusA [Lactobacillus iners ATCC
           55195]
 gi|315489357|gb|EFU78997.1| transcription elongation factor NusA [Lactobacillus iners ATCC
           55195]
          Length = 374

 Score =  427 bits (1098), Expect = e-117,   Method: Composition-based stats.
 Identities = 131/343 (38%), Positives = 207/343 (60%), Gaps = 2/343 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL++   A+  +K I ++ ++  +  ++  A +  Y    ++ V  +   G   +  +
Sbjct: 14  SKELIKSFTALEEQKGIKQEEIVDAIKAALIAAYKKNYNQAQNVEVIFDENKGKFIVQAV 73

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   Q+SLK A + + + ++G  +   + P +FGR+A Q+AKQVI+Q++REA
Sbjct: 74  KTVVDEVQDDRQQVSLKDALEINRAYEVGDEIRFEVTPQNFGRLAAQTAKQVIMQRLREA 133

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER     E+     E+I+GTV+RV+   V + +GN + V+  ++ +  E  +P DR+K  
Sbjct: 134 ERAHIIEEYSQYQNELITGTVERVDNRFVYIKIGNVEAVMPHNDQMPGEVYKPQDRIKVL 193

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  + +G Q+ +SRT P  + +LF  EVPE+YNG V++ +++R+ G R K+AV SSD
Sbjct: 194 VTKVGSDAKGTQITVSRTAPGLVKRLFEQEVPEVYNGTVEIISIAREAGDRTKIAVKSSD 253

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVG  VG +GSRVQ +V EL  E ID+V +  D + ++ NAL PA V  V   E  
Sbjct: 254 PDIDPVGTLVGPKGSRVQNIVNELSGENIDVVKYEEDPSDYIANALNPAEVIAVQFGEAN 313

Query: 306 --GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
                 VIVP  QLSLAIG++GQNVRLA++LT + IDI  E +
Sbjct: 314 DDKSALVIVPDYQLSLAIGKKGQNVRLAARLTEYKIDIKPESQ 356


>gi|312972559|ref|ZP_07786732.1| transcription elongation protein nusA [Escherichia coli 1827-70]
 gi|310332501|gb|EFP99714.1| transcription elongation protein nusA [Escherichia coli 1827-70]
          Length = 335

 Score =  427 bits (1098), Expect = e-117,   Method: Composition-based stats.
 Identities = 143/352 (40%), Positives = 218/352 (61%), Gaps = 18/352 (5%)

Query: 164 VIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGI 223
           +I R++ + REN RPGDRV+  +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   +
Sbjct: 1   MILREDMLPRENFRPGDRVRGVLYSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEV 60

Query: 224 VQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDS 283
           +++KA +RDPGSRAK+AV ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + 
Sbjct: 61  IEIKAAARDPGSRAKIAVKTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNP 120

Query: 284 ATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           A FVINA+ PA V  +V+DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T
Sbjct: 121 AQFVINAMAPADVASIVVDEDKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMT 180

Query: 344 EEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
            ++     Q + +     F + +++DE  A +LV EGF+ +EELA V + E+  IEG DE
Sbjct: 181 VDDLQAKHQAEAHAAIDTFTKYLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDE 240

Query: 404 ETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLA 463
            T   ++ RA+  L  I    ++ + +   +++L ++ G+D  +   L   G+ T+EDLA
Sbjct: 241 PTVEALRERAKNALATIAQAQEESLGDNKPADDLLNLEGVDRDLAFKLAARGVCTLEDLA 300

Query: 464 GCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
              +DDL                     G   ++  ++I+ AR  + W   E
Sbjct: 301 EQGIDDLADIE-----------------GLTDEKAGALIMAAR-NICWFGDE 334


>gi|241895994|ref|ZP_04783290.1| transcription elongation factor [Weissella paramesenteroides ATCC
           33313]
 gi|241870725|gb|EER74476.1| transcription elongation factor [Weissella paramesenteroides ATCC
           33313]
          Length = 386

 Score =  426 bits (1097), Expect = e-117,   Method: Composition-based stats.
 Identities = 147/376 (39%), Positives = 233/376 (61%), Gaps = 3/376 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL+   DA+  EK I  +V+++ + ++++KA    Y    ++ V+ + + G I ++ +
Sbjct: 12  SKELVSALDALEEEKGIKAEVLIAALEEALKKAYEKNYDESENVEVQFDKKKGSIKVYAV 71

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+E+E    QISL+ A + + + ++G  +   + P DFGR+A Q+AKQ+I+QKVREA
Sbjct: 72  KTVVDEIEEPYEQISLEEALELNKAYEVGDEIRFEVTPKDFGRLAAQTAKQIIMQKVREA 131

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRVKS 184
           ER   Y  F     EII+G V+R +   + + L GN    ++ ++ +  EN + GD++K 
Sbjct: 132 ERGVVYDNFVGYEDEIITGEVEREDSRYLYIILPGNQMAAMKPNDQMPSENYQMGDKIKV 191

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V+ EQ+GPQV +SRTHP  + +LF  EVPE+++G V++K+++R+ G R+K+AV+S 
Sbjct: 192 LVSQVQNEQKGPQVFVSRTHPDLVKRLFEAEVPEVFDGTVEIKSIAREAGDRSKIAVYSH 251

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           + ++D VG  VG RG+RVQ+VVTEL  E +DIV W+ D A F+ N+L PA V +V+ D  
Sbjct: 252 NENLDAVGTMVGQRGARVQSVVTELSGENMDIVEWTEDPAEFIKNSLNPAEVVEVIFDPT 311

Query: 305 V-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
                 V+VP  QLSLAIG+RGQN RLA++LTG+ IDI  E        +  N+ T   +
Sbjct: 312 NDRAATVLVPDYQLSLAIGKRGQNARLAARLTGFKIDIKPESAREEVIAELENQSTDNSV 371

Query: 364 QAINVDEIIAHLLVAE 379
            A N++E+       E
Sbjct: 372 -AENIEEVELDDNSEE 386


>gi|168180700|ref|ZP_02615364.1| N utilization substance protein A [Clostridium botulinum NCTC 2916]
 gi|182668525|gb|EDT80504.1| N utilization substance protein A [Clostridium botulinum NCTC 2916]
          Length = 457

 Score =  426 bits (1096), Expect = e-117,   Method: Composition-based stats.
 Identities = 157/436 (36%), Positives = 262/436 (60%), Gaps = 20/436 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDIS 61
             E ++    +  EK I  D++ + + D++  A +  Y    G+ ++++V +N E G+I 
Sbjct: 2   NQEFVEALREIVKEKGISADLLFTTIEDALVTAYKKNYAKQGGSTNNVKVIMNRENGEIK 61

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++   +VV+ VE    +ISL+ A++ DP+ ++  +++  + P  FGR+A Q+AKQV+IQ+
Sbjct: 62  VYAQKKVVDFVEEEVEEISLEDAKEIDPNYELEDIINIEVTPKKFGRIAAQAAKQVVIQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++E ER   Y E+ +K  +I++GTV R + GN+++++G S+ V+  +E I  E  R  ++
Sbjct: 122 IKEEERRIVYNEYIEKEEDILTGTVLRKDKGNILINVGKSEAVLGPNEQIPGEQFRFNEK 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+ +V+   +GPQVL+SRTHP  + +LF +EVPEIYNGIV++K+++R+ GSR K+AV
Sbjct: 182 IKLYVVEVKNTTKGPQVLISRTHPGLVKRLFELEVPEIYNGIVEIKSIAREAGSRTKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
           +S+D S+DP+GACVG +G RVQ +V EL++EKIDI+ WS      + NAL PA V  V +
Sbjct: 242 YSNDESVDPMGACVGPKGVRVQNIVNELKNEKIDIIKWSKFPDELICNALSPAKVIDVTI 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DE+      +V   QLSLAIG+ GQNVRLA++LTGW IDI ++ +              
Sbjct: 302 VDEENKAARAVVDDSQLSLAIGKEGQNVRLAAKLTGWKIDIKSKSQAEKEAT-------- 353

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
                +N+ E     ++     D E+   +     + +E   E    EI        + +
Sbjct: 354 -----LNLSEAKDEKILENKKEDKEDKIDLHAEMDSIVEDTKENIKEEI--SVSHDNQEV 406

Query: 421 DITLQKKIRELGVSEE 436
           D  L+K + E+  +E+
Sbjct: 407 DSELEKAMEEVFNTED 422


>gi|320159637|ref|YP_004172861.1| transcription elongation protein NusA [Anaerolinea thermophila
           UNI-1]
 gi|319993490|dbj|BAJ62261.1| transcription elongation protein NusA [Anaerolinea thermophila
           UNI-1]
          Length = 633

 Score =  426 bits (1096), Expect = e-117,   Method: Composition-based stats.
 Identities = 148/361 (40%), Positives = 224/361 (62%), Gaps = 6/361 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGT--MSDIRVEINPETGDISLF 63
           + E +   + V  EK + RDV+L  +  ++  A R          +  +++ +TG ++++
Sbjct: 2   KNEFVLAFNEVLEEKQLPRDVILKALESAMVSAYRRAVNASNAQQVEAKVDLDTGKVTIY 61

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
              EVVE+V     ++SL+ AR  +P + +G ++     P DFGRVA Q+A+QVI Q++R
Sbjct: 62  AEKEVVEQVREPLTEVSLEEARRYNPHVQLGDMIVVESTPRDFGRVAAQTARQVIQQRIR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           +AER  Q   +  +VGEI+SG V+ V    + + L   ++G + R E I  E  R  DRV
Sbjct: 122 DAERQMQLNHYAKQVGEIVSGVVQAVNAQGLTIGLEMRAEGTMPRKEMIPGERFRVHDRV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ I +V+   RGPQ++LSRTH  F+ +L   EVPEIY+GIV++++++R+PG RAK+AV 
Sbjct: 182 RALIAEVKDSPRGPQIILSRTHRNFLRRLLETEVPEIYHGIVEIRSIAREPGERAKVAVS 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           ++   IDPVGACVG+RG R+QA+V EL DEKID++ W+ D A ++  AL PA VT V LD
Sbjct: 242 ATQPGIDPVGACVGIRGVRIQAIVRELHDEKIDVIEWNADPAVYIAKALSPARVTGVYLD 301

Query: 303 ED---VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           +         V+VP++QLSLAIGR GQN RLA++LTGW IDI +  E +           
Sbjct: 302 DKSSVNKTATVVVPEDQLSLAIGRDGQNARLAAKLTGWRIDIKSLPEAAAEALHRLQTDP 361

Query: 360 Q 360
           +
Sbjct: 362 E 362


>gi|297588445|ref|ZP_06947088.1| transcription termination factor NusA [Finegoldia magna ATCC 53516]
 gi|297573818|gb|EFH92539.1| transcription termination factor NusA [Finegoldia magna ATCC 53516]
          Length = 424

 Score =  426 bits (1096), Expect = e-117,   Method: Composition-based stats.
 Identities = 145/343 (42%), Positives = 218/343 (63%), Gaps = 6/343 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG------TMSDIRVEINPETGD 59
             + ++  D +   K I R+VV   +  ++ K+    +         S + V IN + G 
Sbjct: 2   NNDFIKALDELEKSKKIPREVVFDALEKALIKSYEKNFDYQDHENEESSVEVNINRDNGK 61

Query: 60  ISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           ++L+ +  VVE VE+   +ISL+ A+      D+G  V   + P +FGR+A Q+A+ ++I
Sbjct: 62  VNLYAIKTVVENVEDKNTEISLEEAKTIKRKYDLGDKVKIEITPKNFGRIAAQTARNIVI 121

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPG 179
           QK+++AERD  Y EF D+  EII+GTV+RVE G V +DLG  +G+I   E I  E   P 
Sbjct: 122 QKLKDAERDNIYNEFIDREKEIITGTVQRVERGIVYIDLGRVEGIIPVSEQIKSEEYTPN 181

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
            R+K +I +V+   +G Q++LSRT    + +LF +EVPEI +G V++ +V+R+PGSR K+
Sbjct: 182 KRLKLFIKEVKNTTKGAQIILSRTDNSLIKRLFELEVPEINDGTVEIFSVAREPGSRTKI 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AVFS+D ++DPVG+CVG  G+RV+++V EL  EK+DIV+WS D  TF+ N+L P+ V   
Sbjct: 242 AVFSNDENVDPVGSCVGFSGTRVKSIVDELNGEKLDIVIWSKDIKTFISNSLSPSEVIAT 301

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
            +DE      VIV ++QLSLAIG+ GQN RLA++LT W IDI 
Sbjct: 302 FIDEAQKICRVIVSEDQLSLAIGKEGQNARLAAKLTNWKIDIK 344


>gi|329767072|ref|ZP_08258600.1| transcription termination factor NusA [Gemella haemolysans M341]
 gi|328837797|gb|EGF87422.1| transcription termination factor NusA [Gemella haemolysans M341]
          Length = 343

 Score =  426 bits (1096), Expect = e-117,   Method: Composition-based stats.
 Identities = 145/342 (42%), Positives = 212/342 (61%), Gaps = 2/342 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             +LL+    +  EK I  D+++  +  ++  A +  +    ++RV+ N  TGD      
Sbjct: 2   SKDLLKAIKLIEQEKGIAEDILVEAIELALLSAYKKNFNAAKNVRVDFNRATGDYKFIIR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            +VVEEV +   + SL+ A   +P+ ++G +      P DFGRV  Q+AKQ ++Q++REA
Sbjct: 62  KDVVEEVYDDRIEFSLEDALQINPAYEVGDIYEVVDLPSDFGRVGAQAAKQALLQRLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E++  Y E+ +  GEI+SGTV R++   V V LG  + ++  +E +  E   P   +K Y
Sbjct: 122 EKEILYKEYIEHEGEILSGTVDRIDSRYVYVKLGKIEAILGENERVKGETYIPQTPIKVY 181

Query: 186 IYDVRREQRG--PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           I  V    RG  P VL SR+HP+F+ +LF +EVPEIY+G V++K+VSR+ G R KLAV++
Sbjct: 182 IAKVDNPSRGSKPHVLASRSHPEFIRRLFEIEVPEIYSGTVEIKSVSREAGERTKLAVYA 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D +IDPVGACVG +G RV  +V EL  EKIDI+ W  D   F+ NAL PA V ++ +DE
Sbjct: 242 EDKNIDPVGACVGNKGDRVNRIVEELNGEKIDIITWDADPVKFITNALAPAKVEEITIDE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +     V V  +QLSLAIG++GQNVRLA++LTGW IDI   E
Sbjct: 302 EEKIANVKVKDDQLSLAIGKKGQNVRLAAKLTGWKIDIKATE 343


>gi|170754323|ref|YP_001781964.1| transcription elongation factor NusA [Clostridium botulinum B1 str.
           Okra]
 gi|169119535|gb|ACA43371.1| N utilization substance protein A [Clostridium botulinum B1 str.
           Okra]
          Length = 457

 Score =  426 bits (1096), Expect = e-117,   Method: Composition-based stats.
 Identities = 154/436 (35%), Positives = 261/436 (59%), Gaps = 5/436 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDIS 61
             E ++    +  EK I  D++ + + D++  A +  Y    G+ ++++V +N E G+I 
Sbjct: 2   NQEFVEALREIVKEKGISADLLFTTIEDALVTAYKKNYAKQGGSTNNVKVIMNRENGEIK 61

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++   +VV+ VE    +ISL+ A++ DP+ ++  +++  + P  FGR+A Q+AKQV+IQ+
Sbjct: 62  VYAQKKVVDFVEEEVEEISLEDAKEIDPNYELEDIINIEVTPKKFGRIAAQAAKQVVIQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++E ER   Y E+ +K  +I++GTV R + GN+++++G S+ V+  +E I  E  R  ++
Sbjct: 122 IKEEERRIVYNEYIEKEEDILTGTVLRKDKGNILINVGKSEAVLGPNEQIPGEQFRFNEK 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+ +V+   +GPQVL+SRTHP  + +LF +EVPEIYNGIV++K+++R+ GSR K+AV
Sbjct: 182 IKLYVVEVKNTTKGPQVLISRTHPGLVKRLFELEVPEIYNGIVEIKSIAREAGSRTKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
           +S+D ++DP+GACVG +G RVQ +V EL++EKIDI+ WS      + NAL PA V  V +
Sbjct: 242 YSNDEAVDPMGACVGPKGVRVQNIVNELKNEKIDIIKWSKFPDELICNALSPAKVIDVTI 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DE+     V+V   QLSLAIG+ GQNVRLA++LTGW IDI ++ +     + + +E   
Sbjct: 302 VDEENKAARVVVDDSQLSLAIGKEGQNVRLAAKLTGWKIDIKSKSQAEKEGRLNLSEAKD 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
             +     ++    +   E    + E     I E  S+   +EE    ++    E     
Sbjct: 362 EKILENKKEDKEDKIDSHEEMDSIVEDTKENIKEEISVSESNEEVDSGLEKTMEEAFNTE 421

Query: 421 DITLQKKIRELGVSEE 436
           D   + +       ++
Sbjct: 422 DKENKLEKDINLFEDD 437


>gi|326692688|ref|ZP_08229693.1| transcription elongation factor NusA [Leuconostoc argentinum KCTC
           3773]
          Length = 365

 Score =  426 bits (1095), Expect = e-117,   Method: Composition-based stats.
 Identities = 141/354 (39%), Positives = 221/354 (62%), Gaps = 4/354 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL+   DA+  E+ I+R VV+  + D+++ A +  Y    ++    + + G++++ ++
Sbjct: 2   SKELVDALDALEAERGIERAVVIEALEDALRAAYKKQYNAEQNVEAVFDTKKGNVAIKQV 61

Query: 66  LEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV  E+ EN   +I L+ A   + + + G  +   + P DFGR+A Q+AKQVI+QK+R
Sbjct: 62  KVVVLDEDFENEDTEIPLEDALAINRAYEPGDEIRFDVTPKDFGRMAAQAAKQVIVQKMR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRV 182
           EA R+  Y +F D   EII+G V R +   + + L GN +  +   + +  E+ R GDR+
Sbjct: 122 EASREAIYNKFADYQDEIITGEVDRQDTRFLYLTLPGNQEAAMAPADQMPNEHYRMGDRI 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           K  +  V    +GPQ+ +SRT P  + +LF  EVPE+Y+G V++ ++SR+ G R+K+AV+
Sbjct: 182 KVLVNKVENNAKGPQIFVSRTAPDLVKRLFEQEVPEVYDGTVEIMSISREAGDRSKIAVY 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           + D+ +DPVGA VG RG+RVQAVV EL  E +DIV W  D A ++ NAL P+ VT V+ D
Sbjct: 242 THDADLDPVGAMVGQRGARVQAVVNELGGENMDIVEWVEDEAQYIANALNPSEVTDVIFD 301

Query: 303 -EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF 355
            E+   + VIVP  QLSLAIG++GQN RLA++LTG+ IDI +E E + +   + 
Sbjct: 302 PENDRAVTVIVPDNQLSLAIGKKGQNARLAARLTGFKIDIKSESEAANSLVAEA 355


>gi|313673261|ref|YP_004051372.1| nusa antitermination factor [Calditerrivibrio nitroreducens DSM
           19672]
 gi|312940017|gb|ADR19209.1| NusA antitermination factor [Calditerrivibrio nitroreducens DSM
           19672]
          Length = 428

 Score =  426 bits (1095), Expect = e-117,   Method: Composition-based stats.
 Identities = 159/426 (37%), Positives = 254/426 (59%), Gaps = 9/426 (2%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
            E+L++AD +  EK   R ++ + + D+I  A     G   +  VEI+ E    ++    
Sbjct: 3   KEILKVADEIVREKGFSRKIISNALRDAIYTALVKKLGKYGEPVVEIDLEKNIFNISVPK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           EVVE+V++   +I L  A   D    +G V+  P+   + GR    + K  + +K+R+AE
Sbjct: 63  EVVEDVDSVWHEILLDDALKIDKDAYLGKVIMVPVTIEEIGRQLATTVKTRLFEKLRDAE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           +D  Y EF+ KVGEII+G V + +   V V +G ++ ++ + E I  +    GD +++ +
Sbjct: 123 KDIVYSEFQGKVGEIITGIVLKSDKEGVTVSIGKTEAILPKKEMIPGDYYTRGDYIRALL 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +++  +  PQ++LSRTHPQF+ KLF  E+PE+++G+V+VK+V+R+PG RAK+AV+S+ S
Sbjct: 183 LEIKLIKGWPQLVLSRTHPQFLKKLFESEIPEVFDGLVEVKSVAREPGDRAKVAVYSTSS 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           +IDPVGAC+G++G R+ A+  EL+ EKID++ WSPD   FV  ++ PA V    + ED  
Sbjct: 243 NIDPVGACIGLKGVRINAISNELKGEKIDVIQWSPDPVKFVCASISPAEVLLTNIFEDES 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK---DFNERTQFFM 363
            IEV+VP +QLSLAIG+RGQNV+LAS LTGW +DI+ E E    R++   +  +  + F 
Sbjct: 303 TIEVVVPDDQLSLAIGKRGQNVKLASILTGWKLDILKESEYKELRKQRLIEQEQEMKEFY 362

Query: 364 QAINVD------EIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
              ++D      + +   LVA G  D+E+LA   +  I+ I     E A+ I   A +YL
Sbjct: 363 MIYSLDNLTVLTDEMISKLVAAGVTDLEKLADTDVDRISEILNISHEDAINILNAALDYL 422

Query: 418 EGIDIT 423
             +   
Sbjct: 423 ASVLEE 428



 Score = 38.1 bits (88), Expect = 4.0,   Method: Composition-based stats.
 Identities = 27/160 (16%), Positives = 59/160 (36%), Gaps = 14/160 (8%)

Query: 321 IGRRGQNVRLAS-QLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAE 379
           IG +G  +   S +L G  ID+I    D +          +  +  I  DE    ++V +
Sbjct: 251 IGLKGVRINAISNELKGEKIDVIQWSPDPVKFVCASISPAEVLLTNIFEDESTIEVVVPD 310

Query: 380 GFADV------EELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGV 433
               +      + +    I     ++   E    E++ +         I  +++++E  +
Sbjct: 311 DQLSLAIGKRGQNVKLASILTGWKLDILKESEYKELRKQ-------RLIEQEQEMKEFYM 363

Query: 434 SEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGW 473
              L ++  +  ++   L   G+  +E LA   VD +   
Sbjct: 364 IYSLDNLTVLTDEMISKLVAAGVTDLEKLADTDVDRISEI 403


>gi|304439999|ref|ZP_07399892.1| transcription termination factor NusA [Peptoniphilus duerdenii ATCC
           BAA-1640]
 gi|304371491|gb|EFM25104.1| transcription termination factor NusA [Peptoniphilus duerdenii ATCC
           BAA-1640]
          Length = 412

 Score =  426 bits (1095), Expect = e-117,   Method: Composition-based stats.
 Identities = 146/360 (40%), Positives = 234/360 (65%), Gaps = 1/360 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFR 64
             E +   + +  EK I +D+V   +  ++  + +  +G +  +I V+IN E G+I +F+
Sbjct: 2   NEEFILALNQLESEKGIKKDIVFEALEAALISSYKKNFGMSNQNIVVDINKENGNIKIFK 61

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
            + VV+EVE+   +ISL+ A +      +G +V   + PM FGR+A Q+AKQV+IQK+++
Sbjct: 62  EMTVVDEVEDEDTEISLEDAEEISSKYKVGSIVRIEIDPMKFGRIAAQTAKQVVIQKIKD 121

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AE+D  Y +F D+ GE+I+G V+R   G V +DLG S+G++  +E I  E+   G+R K 
Sbjct: 122 AEKDIIYDDFIDREGELITGQVQRSSKGYVFIDLGKSEGILPPNEQIKGEDYSHGNRYKM 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            I +V++  +GPQ++LSR+HP  + +LF +EVPEI++GIV+V  +SR+ GSR K+AVFS 
Sbjct: 182 IILEVKKTPKGPQIILSRSHPNLIKRLFELEVPEIHDGIVEVFNISREAGSRTKIAVFSK 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
              +DP+GACVG +G+RV+A++  + +EKIDI++W  D   F+ NAL P+ V KV +D+ 
Sbjct: 242 SEDVDPLGACVGFKGARVKAILDSIGEEKIDIIIWDRDIDHFIANALSPSNVEKVFIDDS 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
             +  V+VP  QLSLAIG+ GQNVRLA++LT W IDI +  +     + +     + + +
Sbjct: 302 NKQALVVVPDYQLSLAIGKEGQNVRLAAKLTNWKIDIKSVSQFEEYLEAENMTEDELYAK 361


>gi|148380376|ref|YP_001254917.1| N utilization substance protein A [Clostridium botulinum A str.
           ATCC 3502]
 gi|153933708|ref|YP_001384596.1| transcription elongation factor NusA [Clostridium botulinum A str.
           ATCC 19397]
 gi|153936194|ref|YP_001388112.1| transcription elongation factor NusA [Clostridium botulinum A str.
           Hall]
 gi|170761276|ref|YP_001787732.1| transcription elongation factor NusA [Clostridium botulinum A3 str.
           Loch Maree]
 gi|226949774|ref|YP_002804865.1| N utilization substance protein A [Clostridium botulinum A2 str.
           Kyoto]
 gi|148289860|emb|CAL83968.1| putative transcription elongation protein NusA [Clostridium
           botulinum A str. ATCC 3502]
 gi|152929752|gb|ABS35252.1| transcription termination factor NusA [Clostridium botulinum A str.
           ATCC 19397]
 gi|152932108|gb|ABS37607.1| N utilization substance protein A [Clostridium botulinum A str.
           Hall]
 gi|169408265|gb|ACA56676.1| N utilization substance protein A [Clostridium botulinum A3 str.
           Loch Maree]
 gi|226843922|gb|ACO86588.1| N utilization substance protein A [Clostridium botulinum A2 str.
           Kyoto]
 gi|322806687|emb|CBZ04256.1| transcription termination protein NusA [Clostridium botulinum
           H04402 065]
          Length = 457

 Score =  425 bits (1094), Expect = e-117,   Method: Composition-based stats.
 Identities = 154/436 (35%), Positives = 261/436 (59%), Gaps = 5/436 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDIS 61
             E ++    +  EK I  D++ + + D++  A +  Y    G+ ++++V +N E G+I 
Sbjct: 2   NQEFVEALREIVKEKGISADLLFTTIEDALVTAYKKNYAKQGGSTNNVKVIMNRENGEIK 61

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++   +VV+ VE    +ISL+ A++ DP+ ++  +++  + P  FGR+A Q+AKQV+IQ+
Sbjct: 62  VYAQKKVVDFVEEEVEEISLEDAKEIDPNYELEDIINIEVTPKKFGRIAAQAAKQVVIQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++E ER   Y E+ +K  +I++GTV R + GN+++++G S+ V+  +E I  E  R  ++
Sbjct: 122 IKEEERRIVYNEYIEKEEDILTGTVLRKDKGNILINVGKSEAVLGPNEQIPGEQFRFNEK 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+ +V+   +GPQVL+SRTHP  + +LF +EVPEIYNGIV++K+++R+ GSR K+AV
Sbjct: 182 IKLYVVEVKNTTKGPQVLISRTHPGLVKRLFELEVPEIYNGIVEIKSIAREAGSRTKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
           +S+D S+DP+GACVG +G RVQ +V EL++EKIDI+ WS      + NAL PA V  V +
Sbjct: 242 YSNDESVDPMGACVGPKGVRVQNIVNELKNEKIDIIKWSKFPDELICNALSPAKVIDVTI 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DE+      +V   QLSLAIG+ GQNVRLA++LTGW IDI ++ +       + +E   
Sbjct: 302 VDEENKAARAVVDDSQLSLAIGKEGQNVRLAAKLTGWKIDIKSKSQAEKEATLNLSEAKD 361

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
             +     ++    + + E    + E     I E  S+   ++E   E++    E     
Sbjct: 362 EKILENKKEDKEDKIDLHEEMDSIVEDTKENIKEEISVSHDNQEVDSELEKAMEEVFNTE 421

Query: 421 DITLQKKIRELGVSEE 436
           D   + +       ++
Sbjct: 422 DKENKLEKDMNLFEDD 437


>gi|148270198|ref|YP_001244658.1| transcription elongation factor NusA [Thermotoga petrophila RKU-1]
 gi|147735742|gb|ABQ47082.1| NusA antitermination factor [Thermotoga petrophila RKU-1]
          Length = 344

 Score =  425 bits (1094), Expect = e-117,   Method: Composition-based stats.
 Identities = 142/335 (42%), Positives = 223/335 (66%), Gaps = 1/335 (0%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           LL+  D +  EK I ++ V+ ++  ++  A R  +G   ++ V I+  TG+I +++LLEV
Sbjct: 5   LLEALDQLEEEKGISKEEVIPILEKALVSAYRKNFGNSKNVEVVIDRNTGNIKVYQLLEV 64

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VEEVE+   QIS++ A+  DP  ++G VV   L   +FGR+A Q+AKQV+IQ++RE E++
Sbjct: 65  VEEVEDPATQISIEEAKKVDPLAEVGSVVKKELNVKNFGRIAAQTAKQVLIQRIRELEKE 124

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
           +Q+ ++ +  G + +  V RV      + +G  +  + + E I  E +  GD VK YI D
Sbjct: 125 KQFEKYSELKGTVTTAEVIRVTGEWADIRIGKLETRLPKKEWIPDEEIEAGDLVKVYIID 184

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  +GP++L+SR  P+F++ L  +E+PE+ NGIV++KA++R+PG R K+AV S+D ++
Sbjct: 185 VVKTTKGPKILVSRRVPEFVIGLMKLEIPEVENGIVEIKAIAREPGVRTKVAVSSNDPNV 244

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           DP+GAC+G  GSR+ A++ EL+ EK+D++ WS D    + NAL PA V +V +LD++   
Sbjct: 245 DPIGACIGEGGSRIAAILKELKGEKLDVLKWSDDPKQLIANALAPATVIEVEILDKENKA 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
             VIVP  QLSLAIG+ GQN RLA++LTGW IDI 
Sbjct: 305 ARVIVPPTQLSLAIGKGGQNARLAAKLTGWKIDIK 339


>gi|254669623|emb|CBA03666.1| N utilization substance protein A [Neisseria meningitidis alpha153]
          Length = 358

 Score =  425 bits (1094), Expect = e-117,   Method: Composition-based stats.
 Identities = 164/379 (43%), Positives = 244/379 (64%), Gaps = 25/379 (6%)

Query: 142 ISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGDRVKSYIYDVRR--EQRGPQ 197
           +SGTVKRVE   +IV++  G  D +I RD+ I REN R GDR+++    V         Q
Sbjct: 1   MSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSGDRIRALFLRVEEIGNTGRKQ 60

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           V+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG RAK+AV ++D  IDP G C+G+
Sbjct: 61  VILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQRAKVAVKANDQRIDPQGTCIGV 120

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQL 317
           RGSRV AV  EL  E+ID+V+WSP+ A FV++AL PA V+++V+DED   ++VIV ++QL
Sbjct: 121 RGSRVNAVSNELSGERIDVVLWSPEPAQFVMSALSPAEVSRIVIDEDKHAVDVIVAEDQL 180

Query: 318 SLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLV 377
           +LAIGR GQNVRLAS LTGW ++I+T  E       +     + FM  +NVDE  A +LV
Sbjct: 181 ALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAIRRLFMDHLNVDEETADVLV 240

Query: 378 AEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEEL 437
            EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ +  + I  ++K+ E  VS+++
Sbjct: 241 QEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAILTMAIAAEEKLGE--VSDDM 298

Query: 438 CSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQ 497
            ++ GID+ +  +L E GI T +DLA  +VD+L+  +                 G  ++ 
Sbjct: 299 RNLEGIDADMLRSLAEAGITTRDDLAELAVDELIEIT-----------------GVNEET 341

Query: 498 VESMIIHARYKMGWIEKEK 516
            +++I+ AR    W  ++K
Sbjct: 342 AKAVILTAREH--WFTEDK 358


>gi|322436508|ref|YP_004218720.1| NusA antitermination factor [Acidobacterium sp. MP5ACTX9]
 gi|321164235|gb|ADW69940.1| NusA antitermination factor [Acidobacterium sp. MP5ACTX9]
          Length = 534

 Score =  425 bits (1093), Expect = e-116,   Method: Composition-based stats.
 Identities = 170/425 (40%), Positives = 250/425 (58%), Gaps = 8/425 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L Q  +A++ EK I+  VV+S + D+I  A R  Y T  ++R E++ +TG+I  +    V
Sbjct: 5   LYQSIEALSREKGIEPAVVVSAIEDAIALATRKYYKTQENMRAEMDKDTGEIRAYVFKTV 64

Query: 69  VE---EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VE   E+ +   Q++L+ AR   P +++GG +         GR+A Q AKQVI QKVREA
Sbjct: 65  VETPEEIVDEINQLALEPARALAPEVEVGGELRFYKDTTPLGRIAAQMAKQVIFQKVREA 124

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ERD  + E+  + GE+++ TVKR+E  +VI DLG ++  + + E    E    G+RV+  
Sbjct: 125 ERDTVFNEYNHRAGEVLNATVKRLEPMDVIFDLGKAEARMPKREQSRLEQFAVGERVRVV 184

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V R  +GPQV++SR  P  +  LF  EVPEIY+G V ++A++R+ G R K+AV S D
Sbjct: 185 LLRVDRAAKGPQVIVSRAAPALVQNLFQSEVPEIYDGTVSIRAIAREAGERTKIAVMSRD 244

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DED 304
             +DPVGACVGM+G RVQ+++ ELR EKIDI+ +S +  TF   AL+PA V++V + D  
Sbjct: 245 KDVDPVGACVGMKGMRVQSIIRELRGEKIDIIEYSEEITTFAEKALQPAKVSRVSITDLA 304

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM- 363
             +IEVIV   QLSLAIG++GQNVRLA++L  W IDI +EEE     ++     +     
Sbjct: 305 EKQIEVIVDDTQLSLAIGKKGQNVRLAAKLLQWKIDIKSEEEKRQEVEQQMQAMSGGPTT 364

Query: 364 ---QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
              Q   + E I   L+A G   VE +A +   E+  I G  E+T  +I    R Y    
Sbjct: 365 PIEQVTELGEQILEKLIAAGITTVEAVADMTAEELEQIPGIGEKTIEKISVAVRHYFGQY 424

Query: 421 DITLQ 425
           +   +
Sbjct: 425 EEGEE 429


>gi|325661695|ref|ZP_08150318.1| transcription termination factor NusA [Lachnospiraceae bacterium
           4_1_37FAA]
 gi|331084712|ref|ZP_08333800.1| transcription termination factor NusA [Lachnospiraceae bacterium
           9_1_43BFAA]
 gi|325471948|gb|EGC75163.1| transcription termination factor NusA [Lachnospiraceae bacterium
           4_1_37FAA]
 gi|330410806|gb|EGG90228.1| transcription termination factor NusA [Lachnospiraceae bacterium
           9_1_43BFAA]
          Length = 377

 Score =  424 bits (1092), Expect = e-116,   Method: Composition-based stats.
 Identities = 152/365 (41%), Positives = 232/365 (63%), Gaps = 1/365 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             ELL+    +  EK I ++ +L  + +S+  A ++ +G   +I++ +N ET D S+F  
Sbjct: 2   NTELLEALTILEEEKDISKETMLDAIENSLMNACKNHFGKADNIKIIMNRETCDYSVFAE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEVE+   +ISL  A+  D   ++G +V  P+   +FGR+A Q+AK +I+QK+RE 
Sbjct: 62  KVVVEEVEDEVMEISLADAKMIDSKFELGDIVQIPVESKEFGRIATQNAKNLILQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y ++ +K  +I++G V+R    NV ++LG +D ++  +E +  E  +P +R+K Y
Sbjct: 122 ERKVVYDQYFEKEKDIVTGIVQRYVGKNVSINLGKADAMLTENEQVKGEVFKPTERIKLY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V+   +GP++L+SRTHP+ + +LF  EV E+ +G V++K++SR+ GSR K+AV+S+D
Sbjct: 182 VVEVKNTTKGPKILVSRTHPELVKRLFESEVAEVKDGTVEIKSISREAGSRTKIAVWSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVGM G+RV A+V ELR EKIDI+ WS + A  + NAL PA V  V+ D D 
Sbjct: 242 PDVDPVGACVGMNGARVNAIVNELRGEKIDIINWSENPAILIENALSPAKVISVMADPDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
               VIVP  QLSLAIG+ GQN RLA++LTG+ IDI +E +                M+A
Sbjct: 302 KTASVIVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSETQAIEAGDLP-ENYMDMAMEA 360

Query: 366 INVDE 370
             VDE
Sbjct: 361 AEVDE 365


>gi|134102374|ref|YP_001108035.1| transcription elongation factor NusA [Saccharopolyspora erythraea
           NRRL 2338]
 gi|291004241|ref|ZP_06562214.1| transcription elongation factor NusA [Saccharopolyspora erythraea
           NRRL 2338]
 gi|133914997|emb|CAM05110.1| putative transcriptional termination/antitermination factor
           [Saccharopolyspora erythraea NRRL 2338]
          Length = 352

 Score =  424 bits (1092), Expect = e-116,   Method: Composition-based stats.
 Identities = 137/346 (39%), Positives = 198/346 (57%), Gaps = 27/346 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  +K I  + VL  +  ++  A R   G     RVE++ +TG + +       
Sbjct: 5   IAALRAIESDKGIPFETVLEAIESALLTAYRHTEGHQPHARVEVDRKTGVVRV------- 57

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                        +A        +     D   P  FGR+A  +A+QVI+Q++R+AE +R
Sbjct: 58  -------------IAHTLGADGTVAEEWDD--TPEGFGRIAATTARQVILQRLRDAEHER 102

Query: 130 QYLEFKDKVGEIISGTVKR----VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            + EF  K GEI+ G ++R       G VIV +G+S+GVI   E +  E    G R+K Y
Sbjct: 103 TFGEFSTKEGEILGGVIQRDAKANSRGMVIVQVGDSEGVIPAAEQVPGERYEHGMRIKCY 162

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V R  RGPQ+ LSRTHP  + +LF +EVPEI +G V++ AV+R+ G R+K+AV S+ 
Sbjct: 163 VVGVSRSARGPQITLSRTHPNLVRRLFALEVPEIADGTVEIPAVAREAGHRSKIAVRSTV 222

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
             ++  GAC+G  G+RV+ V++EL  EKIDI+ +S D ATFV NAL PA V  V V+DE 
Sbjct: 223 GGVNAKGACIGPMGARVRNVMSELGGEKIDIIDYSDDPATFVGNALSPAKVVSVEVVDER 282

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
                V+VP  QLSLAIG+ GQN RLA++LTGW IDI ++ + S  
Sbjct: 283 AKTARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRSDADPSSP 328


>gi|295698482|ref|YP_003603137.1| transcription termination factor NusA [Candidatus Riesia
           pediculicola USDA]
 gi|291156972|gb|ADD79417.1| transcription termination factor NusA [Candidatus Riesia
           pediculicola USDA]
          Length = 390

 Score =  424 bits (1091), Expect = e-116,   Method: Composition-based stats.
 Identities = 154/371 (41%), Positives = 244/371 (65%), Gaps = 10/371 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + + V+ EKSI R+ +   +  +I  A +       D+RV IN +TGD   FR 
Sbjct: 2   NKEILTVVELVSNEKSIPREKIFEALEIAIATATKKKSVQNIDVRVSINQKTGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV   T +I+L+ A+  +P +++G  +   +  + F R+A Q+AKQVI QKVREA
Sbjct: 62  WLVVKEVVQPTLEITLEAAQFENPRVELGHYLEYRIRSIQFDRIATQTAKQVIFQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ERD    +F ++ GE++SG VK+V   + I D+G N + ++ +++ + REN R  DR+K 
Sbjct: 122 ERDIVVQQFSERSGEMLSGIVKKVNKDSTIFDIGQNIEAIVSKEDMLPRENFRINDRIKG 181

Query: 185 YIYDVRREQRG-PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            +YD+R++ RG PQ+++SRT  + +++LF +EVPEIY GIV++K + RDPG+R+K+AV +
Sbjct: 182 VLYDIRQDSRGRPQLIVSRTSKRMLIELFRLEVPEIYEGIVEIKIIVRDPGTRSKMAVIT 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  IDPVGACVGMRGSRVQ++  EL  E+ID+++W+ + A F INA+ PA V+ +++DE
Sbjct: 242 NDKRIDPVGACVGMRGSRVQSISNELCGERIDVILWNENLARFTINAMAPAEVSSIIVDE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTG-------WTIDIITEEEDSINRQKDFN 356
               +++ V +  L+ AIGR GQNVRLASQL         W ++I+TE+E  +   ++  
Sbjct: 302 KKHSVDIAVEERNLAQAIGRNGQNVRLASQLLKEHRKDDRWELNIMTEKEMLLKNNQNKE 361

Query: 357 ERTQFFMQAIN 367
           E+ + F++ I 
Sbjct: 362 EK-KVFLENIE 371


>gi|269127538|ref|YP_003300908.1| NusA antitermination factor [Thermomonospora curvata DSM 43183]
 gi|268312496|gb|ACY98870.1| NusA antitermination factor [Thermomonospora curvata DSM 43183]
          Length = 351

 Score =  424 bits (1091), Expect = e-116,   Method: Composition-based stats.
 Identities = 138/352 (39%), Positives = 204/352 (57%), Gaps = 24/352 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    ++  EK I  ++V   + D++  A     G     RVE++ +TG ++++      
Sbjct: 1   MAALRSLESEKDISLELVAQAIEDALLIAYHRTEGAAPRARVELDRKTGHVTVW------ 54

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A + D   ++     D   P DF R+A  +AKQVI+QK+R+AE + 
Sbjct: 55  --------------AAETDDEGNVLREYDD--TPEDFSRIAATTAKQVILQKLRDAEDEV 98

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
            + E+  + G+I+SG +++  +  NV+VDLG  + ++   E +  E+   GDR+++Y+  
Sbjct: 99  TFGEYAGREGDIVSGVIQQGKDPRNVLVDLGRIEAILPPSEQVPGESYEHGDRIRAYVVQ 158

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           VR+  RGP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S    +
Sbjct: 159 VRKGHRGPSVQLSRTHPNLVRKLFALEVPEIADGTVEIAAIAREAGHRTKIAVRSRKPGV 218

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  GSRV+ V+ ELR EKIDIV WS D A FV NAL PA V+ V V+DE    
Sbjct: 219 NAKGACIGPMGSRVRNVMHELRGEKIDIVDWSEDPAEFVGNALSPARVSSVQVIDEAART 278

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
             VIVP  QLSLAIG+ GQN RLA++LTGW IDI  + E   + Q     R+
Sbjct: 279 ARVIVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTEVEQSGQVGAVRRS 330


>gi|206901624|ref|YP_002250930.1| transcription termination factor NusA [Dictyoglomus thermophilum
           H-6-12]
 gi|206740727|gb|ACI19785.1| transcription termination factor NusA [Dictyoglomus thermophilum
           H-6-12]
          Length = 364

 Score =  424 bits (1090), Expect = e-116,   Method: Composition-based stats.
 Identities = 146/337 (43%), Positives = 220/337 (65%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
           + + +  EK +D++VVL  +  ++  A +  YGT    RVEIN    +IS+F + +VVE+
Sbjct: 10  VLEQIITEKKLDKNVVLEALRKALLSAFKKAYGTSKGARVEINFNKQEISIFVVKKVVEK 69

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
           V +   +ISL+ A+   P   +G  +   + P +FGR+AVQ AKQVI+Q ++EAER   Y
Sbjct: 70  VNDNISEISLEEAKSLKPDAKLGDEIEIEIEPQEFGRIAVQVAKQVIMQSLKEAERRILY 129

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRR 191
            ++K K GE+++GTV R+E GNV V   + + V+   E I  E    G R+++Y+ +VR+
Sbjct: 130 EKYKAKEGELVNGTVVRIEKGNVYVRFPDIEAVLPVKEQIPGEEYWIGRRLRAYLLEVRK 189

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPV 251
             + P V+LSR+HP F+ +LF +EVPEI  G V++ +++R+PG R+K+AV+S    +DP+
Sbjct: 190 TTKDPLVILSRSHPGFLKRLFELEVPEIREGTVEIVSIAREPGMRSKVAVYSHLPEVDPI 249

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI 311
           GACVG +G R+Q ++ EL  EKIDIV+WS D A FV  +L PA    V + E+  +  VI
Sbjct: 250 GACVGYKGVRIQNIINELNGEKIDIVLWSKDPAEFVARSLSPAKPISVEIREEEHKAIVI 309

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           VP +Q SLAIG+ GQNVRLA +LT W ID+ T E+ +
Sbjct: 310 VPPDQFSLAIGKDGQNVRLAVKLTSWRIDVRTPEQYA 346


>gi|256379832|ref|YP_003103492.1| transcription elongation factor NusA [Actinosynnema mirum DSM
           43827]
 gi|255924135|gb|ACU39646.1| NusA antitermination factor [Actinosynnema mirum DSM 43827]
          Length = 337

 Score =  423 bits (1089), Expect = e-116,   Method: Composition-based stats.
 Identities = 139/343 (40%), Positives = 199/343 (58%), Gaps = 27/343 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  +K I  D VL  +  ++  A +   G     RVEI+ ++G + +       
Sbjct: 5   IAALRAIERDKDIPFDTVLEAIETALLTAYKHTDGHHPHSRVEIDRKSGAVRVL------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A+D  P   +     D   P  FGR+A  +A+QVI+Q++R+AE +R
Sbjct: 59  --------------AQDLGPDGVVTEEWDD--TPEGFGRIAATTARQVILQRLRDAEHER 102

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN----VIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            + EF  K GEII G V+R    N    V+V +G+++GV+   E +  E  + G R+K Y
Sbjct: 103 TFGEFSAKEGEIIGGVVQRDARANARGMVVVQVGDTEGVLPPAEQVPGEEYKHGARIKCY 162

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V R  RGPQ+ LSRTHP  + +LF +EVPEI +G V++ AV+R+ G R+K+AV +S 
Sbjct: 163 VVGVSRSARGPQITLSRTHPNLVRRLFALEVPEIADGTVEIPAVAREAGHRSKIAVRTSV 222

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
             ++  GAC+G  G+RV+ V++EL  EKIDI+  S D ATFV NAL PA V  V VLDE 
Sbjct: 223 PGVNAKGACIGPMGARVRNVMSELAGEKIDIIDHSDDPATFVGNALSPAKVVSVRVLDER 282

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
                V+VP  QLSLAIG+ GQN RLA++LTGW IDI ++ E 
Sbjct: 283 AKTARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRSDAEA 325


>gi|227499286|ref|ZP_03929398.1| transcription termination factor NusA [Anaerococcus tetradius ATCC
           35098]
 gi|227218637|gb|EEI83871.1| transcription termination factor NusA [Anaerococcus tetradius ATCC
           35098]
          Length = 407

 Score =  423 bits (1089), Expect = e-116,   Method: Composition-based stats.
 Identities = 152/408 (37%), Positives = 251/408 (61%), Gaps = 15/408 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             + +   D +  EK++D+  +L  +  ++ K+ +  Y    ++ V I+ ETG I ++ L
Sbjct: 2   NNDFMLALDELCKEKNLDKPTILDALQKALIKSYQKNYDNQENVDVIIDEETGKIEVYAL 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            E+V+EV +   +ISLK AR  +P+  +G +    L P +FGRVA Q+A+ ++IQK+R+A
Sbjct: 62  KEIVDEVNDNIVEISLKDARVINPTYRLGDIARIKLTPKNFGRVAAQTARNIVIQKIRDA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           +RD  Y E+ ++  E+I+GT++R +  NV V+L   +G++   E +S E   P  R+K  
Sbjct: 122 QRDSLYGEYIERANEMITGTIQREDKYNVYVNLDKIEGIVPAKEQVSTEKYLPNARMKFL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +VR   + PQ++LSR     + +LF +EVPEI +GI+++ +++R+ GSR K+AVFS+D
Sbjct: 182 IKEVRNSSKEPQIILSRASQDLITRLFELEVPEITDGIIEIYSLAREAGSRTKMAVFSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            +ID +GAC+G +G+RV ++V EL+ EKIDI+ +  D   F+ NAL PA + KV+++E  
Sbjct: 242 ENIDAIGACIGFKGARVNSIVEELQGEKIDIINFDKDIKVFISNALSPADIIKVLVNEKN 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE---------DSINRQKDFN 356
            +  V+V  +QLSLAIG+ GQN RLA++LTGW IDI + EE         D I    + +
Sbjct: 302 KQSLVVVASDQLSLAIGKEGQNARLAARLTGWKIDIKSSEEFEKLSQVDIDEILGLNELD 361

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEE 404
           E +Q   ++++ DE    L V+E + + E +    I E    +  D+E
Sbjct: 362 EESQLSEESLSKDEE--DLEVSEDYDNKEPVEEDYIGE----DEIDDE 403


>gi|317495160|ref|ZP_07953530.1| transcription termination factor NusA [Gemella moribillum M424]
 gi|316914582|gb|EFV36058.1| transcription termination factor NusA [Gemella moribillum M424]
          Length = 343

 Score =  423 bits (1089), Expect = e-116,   Method: Composition-based stats.
 Identities = 146/342 (42%), Positives = 215/342 (62%), Gaps = 2/342 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             +LL+    +  EK I  D+++  +  ++  A +  +    ++RV+ N  TGD      
Sbjct: 2   SKDLLKAIKLIEQEKGIAEDILVEAIELALLSAYKKNFNAAKNVRVDFNRATGDYKFIIR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            +VVEEV +   + +L+ A   +P+ ++G +      P DFGRV  Q+AKQ ++Q++REA
Sbjct: 62  KDVVEEVYDDRIEFALEDALKINPAYEVGDIYEVVDLPDDFGRVGAQAAKQALLQRLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E++  + E+ +  GEI+SGTV R++   V V LG  + ++  +E +  EN  P   +K Y
Sbjct: 122 EKEILFKEYSEYEGEILSGTVDRIDTRYVYVKLGKIEAILGENERVPGENYVPQIPIKVY 181

Query: 186 IYDVRREQRG--PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           I  V    RG  P VL SR+HP+F+ +LF MEVPEIY+G V++K+VSR+ G R KLAVFS
Sbjct: 182 IAKVDNPSRGSKPHVLASRSHPEFIRRLFEMEVPEIYSGTVEIKSVSREAGERTKLAVFS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D ++DPVGACVG +G RV  +V EL  EKIDI+ W  D   F+ NAL PA V ++++DE
Sbjct: 242 EDKNVDPVGACVGNKGDRVNRIVDELNGEKIDIITWDADPVKFITNALAPAKVEEIIIDE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +     V V ++QLSLAIG++GQNVRLA++LTGW IDI   E
Sbjct: 302 EEKIANVKVKEDQLSLAIGKKGQNVRLAARLTGWKIDIKAAE 343


>gi|117928724|ref|YP_873275.1| transcription elongation factor NusA [Acidothermus cellulolyticus
           11B]
 gi|117649187|gb|ABK53289.1| NusA antitermination factor [Acidothermus cellulolyticus 11B]
          Length = 348

 Score =  423 bits (1088), Expect = e-116,   Method: Composition-based stats.
 Identities = 125/341 (36%), Positives = 193/341 (56%), Gaps = 24/341 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    ++  EK I  D+++  +  ++  A +   G     RV ++ +TG++++       
Sbjct: 5   MAALRSLEREKDISFDLLVQAIETALLTAYQRTEGAYPRARVVLDRKTGEVTVLAAET-- 62

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                                 +   +      P DF R+A  +AKQVI+Q++R+AE + 
Sbjct: 63  --------------------DAEGNVIREFDHTPQDFNRIAAMTAKQVILQRLRDAEHEL 102

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
            + E+  + G+++ G +++  +  NV V+LG  +GV+   E +  E    G+R++ Y+  
Sbjct: 103 TFGEYAGREGDVVGGIIQQQHDSRNVYVNLGKVEGVLPVTEQVPGERYVHGERIRCYVLS 162

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  RGPQ+ LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S    +
Sbjct: 163 VHKGIRGPQITLSRTHPGLVRKLFALEVPEIADGSVEIVALAREAGHRTKIAVRSKVPGL 222

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  G RV+AV+ EL  EKIDI+ +S D ATFV NAL PA VT V ++D     
Sbjct: 223 NAKGACIGPLGQRVRAVMAELHGEKIDIIDYSDDPATFVANALSPARVTSVEIVDPVTKS 282

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
             VIVP  QLSLAIGR GQN RLA++LTGW IDI  + E +
Sbjct: 283 ARVIVPDYQLSLAIGREGQNARLAARLTGWRIDIRPDTEAA 323


>gi|160932906|ref|ZP_02080295.1| hypothetical protein CLOLEP_01747 [Clostridium leptum DSM 753]
 gi|156867980|gb|EDO61352.1| hypothetical protein CLOLEP_01747 [Clostridium leptum DSM 753]
          Length = 361

 Score =  423 bits (1088), Expect = e-116,   Method: Composition-based stats.
 Identities = 145/341 (42%), Positives = 214/341 (62%), Gaps = 3/341 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+ +    +  E+ I  D +L  +  +I  A +S Y    D  + +NP+TG   ++    
Sbjct: 4   EVFEALSLLEKERGIPVDFMLDKIKKAILTACKSSYNGNDDAIINMNPDTGVFEVYLQKT 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+   +ISL  AR+ DP+  +G  V   L    FGR+A Q+A+ +I Q +R+ ER
Sbjct: 64  VVEEVEDKGREISLLDAREIDPNTAVGEKVGVQLDTKQFGRIAAQTARNIIRQGIRDGER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGN--VIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            +   EF+ +  E+++ TV+R++  +    + +G ++ V+ + E +  E LR GD VK Y
Sbjct: 124 GQMMQEFQSRHQELVTATVERIDPRSGAATLKIGKAEAVLPKSEQVGGEELREGDHVKVY 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + DV+  ++GP+ ++SRTHP  + +LF  EVPEIY+G V++K+VSR+ GSR KLAV+S D
Sbjct: 184 VVDVKETEKGPRAMISRTHPDLVKRLFETEVPEIYDGTVEIKSVSREAGSRTKLAVWSKD 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED- 304
            ++D VGAC+G RG+RV  VV EL  EKIDI+ +S D A F+  AL PA V  V +D D 
Sbjct: 244 PNVDAVGACIGARGARVGNVVNELGGEKIDIIEYSEDPAKFIAAALSPADVLSVEVDPDG 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +   +V VP  QLSLAIG +GQN RLA++LTGW IDI  E 
Sbjct: 304 MKACQVTVPDHQLSLAIGNKGQNARLAAKLTGWKIDIKPES 344


>gi|330466360|ref|YP_004404103.1| transcription elongation factor NusA [Verrucosispora maris
           AB-18-032]
 gi|328809331|gb|AEB43503.1| transcription elongation factor NusA [Verrucosispora maris
           AB-18-032]
          Length = 347

 Score =  423 bits (1088), Expect = e-116,   Method: Composition-based stats.
 Identities = 137/344 (39%), Positives = 200/344 (58%), Gaps = 27/344 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           L    A+  E+ I  D +L+ +  ++  A R   G  S  RVEI+ ++G   ++      
Sbjct: 5   LAALRALEREREIPFDTILAAIETALLTAYRHTEGAQSHARVEIDRKSGAALVY------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A++ DP   +     D   P DFGR+A  +AKQVI+Q++REA  + 
Sbjct: 59  --------------AQEMDPEGGVVREWDD--TPHDFGRIAAMTAKQVILQRLREATDEV 102

Query: 130 QYLEFKDKVGEIISGTVK----RVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            + E+  + G++++G V+    R E G V VDLG  +GV+ + E +  E    G+R++  
Sbjct: 103 HFGEYVGRDGDLVTGVVQAHEARAEKGIVTVDLGKLEGVLPQSEQVPGERYTHGERIRCV 162

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V +  RGPQ+ LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ 
Sbjct: 163 VVHVAKGMRGPQITLSRTHPNLVKKLFALEVPEIADGTVEISAIAREAGHRTKIAVRSTT 222

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
             ++  GAC+G  G RV+AV++EL  EKIDI+ WS D ATFV NAL PA   +V V+D  
Sbjct: 223 PGVNAKGACIGPMGQRVRAVMSELHGEKIDIIDWSDDPATFVGNALSPAKALRVEVVDLA 282

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
                V VP  QLSLAIGR GQN RLA++LTGW IDI ++ E +
Sbjct: 283 NRAARVTVPDFQLSLAIGREGQNARLAARLTGWRIDIRSDAEQA 326


>gi|227486447|ref|ZP_03916763.1| transcription termination factor NusA [Anaerococcus lactolyticus
           ATCC 51172]
 gi|227235628|gb|EEI85643.1| transcription termination factor NusA [Anaerococcus lactolyticus
           ATCC 51172]
          Length = 407

 Score =  422 bits (1087), Expect = e-116,   Method: Composition-based stats.
 Identities = 144/403 (35%), Positives = 256/403 (63%), Gaps = 10/403 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             + +   D +  +K+++++V+L  +  ++ K+ +  Y    ++ V I+ ETG+I ++ L
Sbjct: 2   NKDFMLALDELCKDKNVEKEVILDALEKALVKSYQKNYDNQENVDVTIDHETGEIGVYAL 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV++VE+   QI+LK A+D D S+ +G      L P +FGRVA Q+A+ ++IQK+R+A
Sbjct: 62  KEVVDKVEDPINQINLKDAKDLDASLAVGDTARIKLVPKNFGRVAAQTARNIVIQKIRDA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           +R+  + ++ D+  E+I+G ++RV+  NV V+L   +G++   E +  E+  P +R+K  
Sbjct: 122 QRESLFGDYLDRENELITGLIQRVDKYNVYVNLDRIEGIVPLKEQVPTESYIPNERMKFL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +VR   + PQ++LSR+    + +LF +EVPEI +G++++ +++R+ GSR K+AVFS+D
Sbjct: 182 IKEVRNSGKDPQIVLSRSSENLVTRLFELEVPEITDGVIEIYSIAREAGSRTKMAVFSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            +ID VGAC+G +G+RV ++V  L+ EKIDI+ +S D  +F+ NAL PA + +V ++E  
Sbjct: 242 ETIDAVGACIGYKGARVNSIVDSLQGEKIDIINYSKDIESFISNALSPADIIEVYVNERN 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            +  V+V  +QLSLAIG+ GQN RLA++LTGW IDI ++ E     Q++ +       + 
Sbjct: 302 KQSLVVVEDDQLSLAIGKEGQNARLAARLTGWKIDIKSKLEFDSLSQEEID-------EI 354

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVE 408
           ++++E     +  E   D ++L    ++E  + +  DEE + E
Sbjct: 355 LSINE---EEVSDEKSTDDKDLEAYDLAEENASDDKDEEISDE 394


>gi|229824767|ref|ZP_04450836.1| hypothetical protein GCWU000182_00116 [Abiotrophia defectiva ATCC
           49176]
 gi|229791096|gb|EEP27210.1| hypothetical protein GCWU000182_00116 [Abiotrophia defectiva ATCC
           49176]
          Length = 360

 Score =  422 bits (1087), Expect = e-116,   Method: Composition-based stats.
 Identities = 145/342 (42%), Positives = 218/342 (63%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  EL++  D +     I ++++L  + +S+  A +  +G   +I+V IN E G +S+  
Sbjct: 15  NSKELIEALDQLEKTNDISKEIILEAVENSLLVACKDEFGKADNIKVTINRENGKVSVLS 74

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
              VVE VE+   QISL  A++  P+   G VV+  + P +FGR+A Q AKQV++QK+RE
Sbjct: 75  EKTVVETVEDPITQISLAEAKETFPNAVEGQVVNIVITPKNFGRIAAQKAKQVVVQKIRE 134

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
            ER   + ++  K  +I++G V+R   GN+ ++LG  D ++   E +  E     DR+K 
Sbjct: 135 EERKVLFNQYFAKEHDIVTGIVQRYTGGNISINLGKVDALLSESERVKTEKFSSTDRIKL 194

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+ +V+   +GP++ +SRTHP  + +LF  EV EI +G V++K++SR+ GSR K+AV+S+
Sbjct: 195 YVVEVKDTSKGPRITVSRTHPDLVKRLFESEVTEIKDGTVEIKSISREAGSRTKIAVYSN 254

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           +  +D VGACVG+  SRV+AVV ELR EKIDIVVWS D   F++NAL PA    V  D +
Sbjct: 255 NPEVDAVGACVGLNRSRVEAVVDELRGEKIDIVVWSEDPRVFIMNALSPARAISVEADPE 314

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               +VIV   QLSLAIG+ GQN RLA++LTG+ IDI +E +
Sbjct: 315 EKTAKVIVADSQLSLAIGKEGQNARLAARLTGYKIDIKSESQ 356


>gi|241889783|ref|ZP_04777081.1| transcription termination factor NusA [Gemella haemolysans ATCC
           10379]
 gi|241863405|gb|EER67789.1| transcription termination factor NusA [Gemella haemolysans ATCC
           10379]
          Length = 343

 Score =  422 bits (1087), Expect = e-116,   Method: Composition-based stats.
 Identities = 143/342 (41%), Positives = 212/342 (61%), Gaps = 2/342 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             +LL+    +  EK I  D+++  +  ++  A +  +    ++RV+ N  TGD      
Sbjct: 2   SKDLLKAIKLIEQEKGIAEDILVEAIELALLSAYKKNFNVAKNVRVDFNRTTGDYKFIIR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            +VVEEV +   + +L+ A   +P+ ++G +      P DFGRV  Q+AKQ ++Q++REA
Sbjct: 62  KDVVEEVYDDRIEFALEDALKINPAYEVGDIYEVVDLPSDFGRVGAQAAKQALLQRLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E++  Y E+ +  GEI+SGT+ R++   V V LG  + ++  +E +  E   P   +K Y
Sbjct: 122 EKEILYKEYIEHEGEILSGTIDRIDSRYVYVKLGKIEAILGENERVKGETYVPQTPIKVY 181

Query: 186 IYDVRREQRG--PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           I  V    RG  P VL SR+HP+F+ +LF +EVPEIY+G V++K+VSR+ G R KLAV++
Sbjct: 182 IAKVDNPTRGSKPHVLASRSHPEFIRRLFEIEVPEIYSGTVEIKSVSREAGERTKLAVYA 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D +IDPVGACVG +G RV  +V EL  EKIDI+ W  D   F+ NAL PA V ++ +DE
Sbjct: 242 EDKNIDPVGACVGNKGERVNRIVEELNGEKIDIITWDADPVKFITNALAPAKVEEINIDE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +     V V  +QLSLAIG++GQNVRLA++LTGW IDI   E
Sbjct: 302 EEKIANVKVKDDQLSLAIGKKGQNVRLAAKLTGWKIDIKAAE 343


>gi|257066114|ref|YP_003152370.1| NusA antitermination factor [Anaerococcus prevotii DSM 20548]
 gi|256797994|gb|ACV28649.1| NusA antitermination factor [Anaerococcus prevotii DSM 20548]
          Length = 433

 Score =  422 bits (1086), Expect = e-116,   Method: Composition-based stats.
 Identities = 141/370 (38%), Positives = 231/370 (62%), Gaps = 4/370 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             + +   D +  EK++D+  +L  +  ++ K+ +  Y    ++ V I+ ETG I +F L
Sbjct: 2   NNDFMLALDELCKEKNLDKATILDALQKALIKSYQKNYDNEENVDVIIDEETGQIEVFAL 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV++   +ISLK A + + S  +G +    L P +FGRVA Q+A+ ++IQK+R+A
Sbjct: 62  KEVVDEVDDTITEISLKDALEENSSYHLGDIARIKLTPKNFGRVAAQTARNIVIQKIRDA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           +RD  Y E+ ++  E+I+GT++R +  NV V+L   +GV+   E +  E      ++K  
Sbjct: 122 QRDSLYGEYIERANEMITGTIQRQDKYNVYVNLDKIEGVVPIKEQVPTEEYPANAKMKFL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +VR   + PQ++LSR+    + +LF +EVPEI +GI+++ +++R+ GSR K+AVFS+D
Sbjct: 182 IKEVRNSSKEPQIVLSRSSQDLITRLFELEVPEITDGIIEIYSLAREAGSRTKMAVFSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             ID VGAC+G +G RV ++V EL+ EKIDI+ +  D   F+ NAL PA + +V+++E  
Sbjct: 242 EGIDAVGACIGFKGIRVNSIVEELQGEKIDIINFDKDIKVFISNALSPADIIEVLVNEKS 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            +  V+V  +QLSLAIG+ GQN RLA++LTGW IDI + EE     Q++ +E        
Sbjct: 302 KKSLVVVSSDQLSLAIGKEGQNARLAARLTGWKIDIKSSEEYESLSQEEIDEILGLN--- 358

Query: 366 INVDEIIAHL 375
             +DE  + +
Sbjct: 359 -EIDEEASEV 367


>gi|237734616|ref|ZP_04565097.1| transcription termination-antitermination factor [Mollicutes
           bacterium D7]
 gi|229382436|gb|EEO32527.1| transcription termination-antitermination factor [Coprobacillus sp.
           D7]
          Length = 443

 Score =  422 bits (1085), Expect = e-116,   Method: Composition-based stats.
 Identities = 151/375 (40%), Positives = 227/375 (60%), Gaps = 2/375 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFR 64
             + +   + +  EK I++DV L ++ +SI KA +  Y    +++RVEIN +TG   LF 
Sbjct: 3   SKKFMDALNLLIEEKGIEKDVFLEMLKESIGKAYKKNYLNPDANVRVEINEKTGKFRLFE 62

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           L  VV+++++   ++SL+ A+  +P+  IG VV         GR+A    KQ+  QK+RE
Sbjct: 63  LRTVVDDLDDEDIELSLEEAQAINPNYQIGDVVETEADIEHIGRLAAIQTKQLFRQKIRE 122

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
            E++  Y EF DK  +II+G V RVE    IV++G +   +  ++ I  E L  G  +K 
Sbjct: 123 TEKETLYNEFADKKDDIITGIVDRVEDKFAIVNIGKTGAFLASNQQIPGEKLNEGQHLKV 182

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+ DV R  +G  +++SRT P F+ +LF +EVPE+Y+G V++KAVSR+PG R+K+AV++S
Sbjct: 183 YVSDVDRGTKGTHIVVSRTEPSFVKRLFELEVPEVYDGTVEIKAVSREPGERSKVAVYTS 242

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           + +IDP+G+CVG +GSRV+ VV EL  E IDI++WS D   F+ NAL P+ V  V ++E+
Sbjct: 243 NENIDPIGSCVGPKGSRVKNVVDELNGEMIDIILWSSDPVVFISNALSPSDVKWVSINEE 302

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
                V+VP +QLSLAIG+RGQN RLA +LTGW IDI +  E       D         +
Sbjct: 303 NHSALVVVPDDQLSLAIGKRGQNARLAVRLTGWKIDIKSVSEAVELGLIDLQTVNNT-EE 361

Query: 365 AINVDEIIAHLLVAE 379
           +  VD         E
Sbjct: 362 SSPVDASFEEEFAQE 376


>gi|167756908|ref|ZP_02429035.1| hypothetical protein CLORAM_02457 [Clostridium ramosum DSM 1402]
 gi|167703083|gb|EDS17662.1| hypothetical protein CLORAM_02457 [Clostridium ramosum DSM 1402]
          Length = 448

 Score =  422 bits (1085), Expect = e-116,   Method: Composition-based stats.
 Identities = 151/375 (40%), Positives = 227/375 (60%), Gaps = 2/375 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFR 64
             + +   + +  EK I++DV L ++ +SI KA +  Y    +++RVEIN +TG   LF 
Sbjct: 3   SKKFMDALNLLIEEKGIEKDVFLEMLKESIGKAYKKNYLNPDANVRVEINEKTGKFRLFE 62

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           L  VV+++++   ++SL+ A+  +P+  IG VV         GR+A    KQ+  QK+RE
Sbjct: 63  LRTVVDDLDDEDIELSLEEAQAINPNYQIGDVVETEADIEHIGRLAAIQTKQLFRQKIRE 122

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
            E++  Y EF DK  +II+G V RVE    IV++G +   +  ++ I  E L  G  +K 
Sbjct: 123 TEKETLYNEFADKKDDIITGIVDRVEDKFAIVNIGKTGAFLASNQQIPGEKLNEGQHLKV 182

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+ DV R  +G  +++SRT P F+ +LF +EVPE+Y+G V++KAVSR+PG R+K+AV++S
Sbjct: 183 YVSDVDRGTKGTHIVVSRTEPSFVKRLFELEVPEVYDGTVEIKAVSREPGERSKVAVYTS 242

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           + +IDP+G+CVG +GSRV+ VV EL  E IDI++WS D   F+ NAL P+ V  V ++E+
Sbjct: 243 NENIDPIGSCVGPKGSRVKNVVDELNGEMIDIILWSSDPVVFISNALSPSDVKWVSINEE 302

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
                V+VP +QLSLAIG+RGQN RLA +LTGW IDI +  E       D         +
Sbjct: 303 NHSALVVVPDDQLSLAIGKRGQNARLAVRLTGWKIDIKSVSEAVELGLIDLQTVNNT-EE 361

Query: 365 AINVDEIIAHLLVAE 379
           +  VD         E
Sbjct: 362 SSPVDASFEEEFAQE 376


>gi|288924202|ref|ZP_06418238.1| NusA antitermination factor [Frankia sp. EUN1f]
 gi|288344449|gb|EFC78942.1| NusA antitermination factor [Frankia sp. EUN1f]
          Length = 362

 Score =  421 bits (1084), Expect = e-115,   Method: Composition-based stats.
 Identities = 139/348 (39%), Positives = 200/348 (57%), Gaps = 28/348 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
               +  EK I  D ++  +  ++  A +   G+  D RV I+  +G++++F        
Sbjct: 7   ALRGIEREKEIAFDTLVEAIETALLTAYKHTTGSADDARVVIDRTSGEVAVF-------- 58

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
                       AR+  P    G        P DFGR+A  +AKQVI+Q++REA+++  Y
Sbjct: 59  ------------ARESAPD---GTSREWDDTPADFGRIATMTAKQVIMQRLREAQQEVTY 103

Query: 132 LEFKDKVGEIISGTVKRVEYGN----VIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
            ++ D+  E++SG V+  E       V+VDLG  +GV+   E +  E L  GDR+K Y+ 
Sbjct: 104 GQYADREHEVVSGVVQHHEQRAGSRVVLVDLGTVEGVLPPAEQVPGERLEHGDRIKCYVV 163

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V R   GP V LSRTHP+ +  LF +EVPE+ +G V++ A++R+ G R K+AV S    
Sbjct: 164 HVSRGAHGPTVTLSRTHPELVKGLFRLEVPEVADGTVELAAIAREAGHRTKIAVRSKAPG 223

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVG 306
           ++P GAC+G  GSRV+AV+ EL  EKIDIV WS D A FV +AL PA V+KV + D    
Sbjct: 224 VNPKGACIGPMGSRVRAVMAELHGEKIDIVDWSADPAAFVGSALSPARVSKVEVTDLANR 283

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
              V+VP  QLSLAIGR GQN RLA++LTGW IDI ++ E + +R   
Sbjct: 284 SARVVVPDYQLSLAIGREGQNARLAARLTGWRIDIHSDTEGNPDRADQ 331


>gi|154497680|ref|ZP_02036058.1| hypothetical protein BACCAP_01656 [Bacteroides capillosus ATCC
           29799]
 gi|150273178|gb|EDN00323.1| hypothetical protein BACCAP_01656 [Bacteroides capillosus ATCC
           29799]
          Length = 400

 Score =  421 bits (1084), Expect = e-115,   Method: Composition-based stats.
 Identities = 149/362 (41%), Positives = 221/362 (61%), Gaps = 7/362 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARS-LYGTMSDIRVEINPETGDISLF 63
           +  E       +  EK I +  +L  +  ++  A +    G   +I VE + E G++ ++
Sbjct: 15  DGKEFFAAIGMIEQEKGIPKGYMLEKITQALISAYKRDHEGAGDNIMVEADEEKGEVRMY 74

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
              +VVE V+N   ++SL  AR R P I +G VV   +   DFGR+A Q+A+QVIIQ +R
Sbjct: 75  VKKDVVETVDNPYTEVSLADARQRLPHIRLGDVVRVEVKTKDFGRIAAQTARQVIIQGMR 134

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEY--GNVIVDLGN----SDGVIRRDETISRENLR 177
           EAER   Y EF  K  E+++G V R++   G+  + +G+    +D  +   E +  E  R
Sbjct: 135 EAERGMIYDEFSSKEHELLTGVVTRIDPRSGSASLRIGSGNEATDAFLAAGEQVRGETFR 194

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            GDR+K Y+ +VRR  +GPQVL+SRTHP  + +LF +EVPEI++G V+VK+++R+ GSR 
Sbjct: 195 EGDRLKVYVVEVRRSTKGPQVLISRTHPGLVKRLFELEVPEIFDGTVEVKSIAREAGSRT 254

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           KLAV+S+D ++DP+GACVG RG RV  +V EL+ EK+DI+ +S D A +V  AL PA V 
Sbjct: 255 KLAVWSADPNVDPIGACVGPRGQRVNNIVEELKGEKVDIIKYSEDPAEYVAAALSPADVI 314

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            V   +D     V+VP +QLSLAIG+ GQN RLA++LTG+ IDI        +   + +E
Sbjct: 315 SVTTLDDGKSCRVVVPDDQLSLAIGKEGQNARLAAKLTGFKIDIKPASNPGGDEADELDE 374

Query: 358 RT 359
             
Sbjct: 375 VL 376


>gi|289522943|ref|ZP_06439797.1| transcription termination factor NusA [Anaerobaculum
           hydrogeniformans ATCC BAA-1850]
 gi|289503486|gb|EFD24650.1| transcription termination factor NusA [Anaerobaculum
           hydrogeniformans ATCC BAA-1850]
          Length = 375

 Score =  421 bits (1083), Expect = e-115,   Method: Composition-based stats.
 Identities = 143/352 (40%), Positives = 227/352 (64%), Gaps = 5/352 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           + ++    +  EK +  +V++S +  ++  A +   GT S++ VE++ + G I ++ + E
Sbjct: 9   DFMRALKQIETEKGLPLEVIISSIEAALVSAYKKYKGTNSNVEVELDSDNGIIKIYEVKE 68

Query: 68  VVEEVENYTCQISLKVARDRD-PSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           VV+ V N   +IS++ A+         G ++   + P DFGR+AVQ+A+QVI Q++++AE
Sbjct: 69  VVDTVRNPAFEISVEEAKSMGLDDAKEGEMIKVEVSPRDFGRIAVQTARQVITQRLKDAE 128

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSY 185
           R   Y +F  KVGEI++G V R E G  +V +G   D ++ R+E I  E+ RPGDR K Y
Sbjct: 129 RQIIYNDFSGKVGEIVTGVVFRDEGGQALVRIGDKIDAMLPREERIPTESYRPGDRKKFY 188

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + DVR+  +GP+++LSR+HP  +  L  +EVPEI  G++ +K ++R+ G R+K+AV + D
Sbjct: 189 VLDVRKTSKGPRIVLSRSHPGLLKSLLELEVPEIKEGVIDIKNIAREAGVRSKVAVTTLD 248

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV--LDE 303
            ++DPVGAC+G +G+R++A+  EL  E+ID+++WS D   ++ NAL PA V K+   LDE
Sbjct: 249 PNVDPVGACIGTKGNRIKAISDELAGERIDVIIWSNDPIAYIKNALSPAKVVKIEPRLDE 308

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF 355
           D   + V V  +QLSLAIG+ GQNVRLA++LTGW IDI   E D +   +D 
Sbjct: 309 D-KAVNVYVRPDQLSLAIGKGGQNVRLAAKLTGWKIDINVMEPDRLPTLQDL 359


>gi|291287256|ref|YP_003504072.1| NusA antitermination factor [Denitrovibrio acetiphilus DSM 12809]
 gi|290884416|gb|ADD68116.1| NusA antitermination factor [Denitrovibrio acetiphilus DSM 12809]
          Length = 460

 Score =  421 bits (1082), Expect = e-115,   Method: Composition-based stats.
 Identities = 158/424 (37%), Positives = 256/424 (60%), Gaps = 9/424 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL ++ D +  EK I R+++   + +SI  A     G + +  V ++ + G I +   
Sbjct: 2   SKELTKVVDEIGREKGIARELLQEALEESIFAAVARKIGKLLEPDVFVDIDKGTIEILLP 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV E V++   +I +  A +   +  +G V+  P    + GR A   AKQ + +K+R+A
Sbjct: 62  KEVCESVDDKWTEIHIDNADEFKENPQLGDVIMVPATLEELGRQAALVAKQKLFEKLRDA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E+     +F+D++GEI++G V + +  N+I+++G ++ V+ + E I  +    GD V++ 
Sbjct: 122 EKQVVLDQFQDRIGEIVNGVVLKTDRDNLIINIGKTEAVLPKREMIGGDFFNRGDYVRAL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + D+R  +  PQ++LSRTHP+FM KLF  E+PE++ GI+ VKAVSR+PG RAK+AV++++
Sbjct: 182 LLDIRIIKGWPQLILSRTHPEFMKKLFETEIPEVFEGIIDVKAVSREPGDRAKVAVYTTN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           SSIDPVGAC+G++G R+ A+  ELR EKID++ WSPDS  FV NA+ PA V    + ED 
Sbjct: 242 SSIDPVGACIGLKGVRINAISNELRGEKIDVIEWSPDSIKFVCNAISPAEVVLTNIFEDE 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ- 364
             IE++VP +QLSLAIG++GQNVRLA++LT W +D++ E E +  R++   ++ Q   + 
Sbjct: 302 ETIEIVVPDDQLSLAIGKKGQNVRLAAKLTEWRLDVLKESEYAEIRKERMQDQEQDLKEF 361

Query: 365 --------AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
                      +D    H L+  G+ D+E+L+     E+A     +EE AV +   A +Y
Sbjct: 362 YEMYNLDNLEGLDADTMHSLIEAGYDDIEKLSNADFKEVAQELECEEEKAVSLINMALDY 421

Query: 417 LEGI 420
           L   
Sbjct: 422 LANK 425


>gi|302865966|ref|YP_003834603.1| transcription termination factor NusA [Micromonospora aurantiaca
           ATCC 27029]
 gi|302568825|gb|ADL45027.1| transcription termination factor NusA [Micromonospora aurantiaca
           ATCC 27029]
          Length = 347

 Score =  420 bits (1080), Expect = e-115,   Method: Composition-based stats.
 Identities = 136/349 (38%), Positives = 202/349 (57%), Gaps = 27/349 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           L    A+  E+ I  D +L+ +  ++  A R   G     RVEI+ ++G  S++      
Sbjct: 5   LAALRALEREREIPFDTILAAIETALLTAYRHTDGAEPHARVEIDRKSGAASVY------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A++ D    +     D   P DFGR+A  +AKQVI+Q++REA  + 
Sbjct: 59  --------------AQELDADGTVTREWDD--TPHDFGRIAAMTAKQVILQRLREATDEV 102

Query: 130 QYLEFKDKVGEIISGTVK----RVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            + E+  + G++++G V+    R E G V VDLG  +GV+ + E +  E    G+R++  
Sbjct: 103 HFGEYVGRDGDLVTGVVQAHETRREKGIVSVDLGKLEGVLPQSEQVPGERYEHGERIRCV 162

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V +  RGPQ+ LSR+HP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ 
Sbjct: 163 VVHVAKGMRGPQITLSRSHPALVKKLFALEVPEIADGTVEIGAIAREAGHRTKIAVRSTT 222

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
           S ++  GAC+G  G RV+AV++EL  EKIDI+ WS D ATFV NAL PA   +V V+D  
Sbjct: 223 SGVNAKGACIGPMGQRVRAVMSELHGEKIDIIDWSDDPATFVGNALSPAKALRVEVVDLA 282

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
                V VP  QLSLAIGR GQN RLA++LTGW IDI ++ E +  + +
Sbjct: 283 SRTARVTVPDFQLSLAIGREGQNARLAARLTGWRIDIRSDAETAAPQSR 331


>gi|315502523|ref|YP_004081410.1| nusa antitermination factor [Micromonospora sp. L5]
 gi|315409142|gb|ADU07259.1| NusA antitermination factor [Micromonospora sp. L5]
          Length = 347

 Score =  420 bits (1080), Expect = e-115,   Method: Composition-based stats.
 Identities = 136/349 (38%), Positives = 202/349 (57%), Gaps = 27/349 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           L    A+  E+ I  D +L+ +  ++  A R   G     RVEI+ ++G  S++      
Sbjct: 5   LAALRALEREREIPFDTILAAIETALLTAYRHTDGAEPHARVEIDRKSGAASVY------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A++ D    +     D   P DFGR+A  +AKQVI+Q++REA  + 
Sbjct: 59  --------------AQELDADGTVTREWDD--TPHDFGRIAAMTAKQVILQRLREATDEV 102

Query: 130 QYLEFKDKVGEIISGTVK----RVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            + E+  + G++++G V+    R E G V VDLG  +GV+ + E +  E    G+R++  
Sbjct: 103 HFGEYVGRDGDLVTGVVQAHETRREKGIVSVDLGKLEGVLPQSEQVPGERYEHGERIRCV 162

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V +  RGPQ+ LSR+HP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ 
Sbjct: 163 VVHVAKGMRGPQITLSRSHPALVKKLFALEVPEIADGTVEIGAIAREAGHRTKIAVRSTT 222

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
           S ++  GAC+G  G RV+AV++EL  EKIDI+ WS D ATFV NAL PA   +V V+D  
Sbjct: 223 SGVNAKGACIGPMGQRVRAVMSELHGEKIDIIDWSDDPATFVGNALSPAKALRVEVVDLA 282

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
                V VP  QLSLAIGR GQN RLA++LTGW IDI ++ E +  + +
Sbjct: 283 SRTARVTVPDFQLSLAIGREGQNARLAARLTGWRIDIRSDAETAAPQSR 331


>gi|331007796|ref|ZP_08330909.1| Transcription termination protein NusA [gamma proteobacterium
           IMCC1989]
 gi|330418395|gb|EGG92948.1| Transcription termination protein NusA [gamma proteobacterium
           IMCC1989]
          Length = 336

 Score =  420 bits (1080), Expect = e-115,   Method: Composition-based stats.
 Identities = 159/334 (47%), Positives = 237/334 (70%), Gaps = 3/334 (0%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
            E+L +A+AV+ EK +D +V+   +  ++  A +  Y   S I V I+  TGD   FR  
Sbjct: 3   KEILLVAEAVSNEKGVDAEVIFEALELALATATKKRYDEDSTIDVSIDRRTGDYETFRSW 62

Query: 67  EVVEEVEN--YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           EVV++        Q + + A +++  +  G +  + +  +DFGR+A Q+AKQVI+QKVRE
Sbjct: 63  EVVDDETLALLGTQFTTEEAIEQNADLVPGDIHREQVENVDFGRIAAQTAKQVIVQKVRE 122

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVK 183
           AER++   E++DK+GE+ISG+VK+V   N+IVDLGN ++G++ R+E + RE  R GDR++
Sbjct: 123 AEREQVVEEYRDKIGELISGSVKKVTRDNIIVDLGNNAEGLLPREELVGREIYRMGDRIR 182

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           + + +VR E RGPQ+ LSR  P+ +V+LF +EVPEI   I+++KA +RDPGSRAK+AV +
Sbjct: 183 AMLMEVRSEMRGPQLYLSRACPEMLVELFRIEVPEIAEEIIELKAAARDPGSRAKIAVKT 242

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  IDPVGACVGMRG+RVQAV  EL +E+IDI++W  ++A FVINA+ PA +  +V+DE
Sbjct: 243 NDGRIDPVGACVGMRGARVQAVSNELANERIDIILWDDNAAQFVINAMAPAEIESIVVDE 302

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           +   ++V V ++ L++AIGR GQNVRLAS+LTGW
Sbjct: 303 ETASMDVAVAEDNLAMAIGRGGQNVRLASELTGW 336


>gi|328950381|ref|YP_004367716.1| NusA antitermination factor [Marinithermus hydrothermalis DSM
           14884]
 gi|328450705|gb|AEB11606.1| NusA antitermination factor [Marinithermus hydrothermalis DSM
           14884]
          Length = 397

 Score =  420 bits (1080), Expect = e-115,   Method: Composition-based stats.
 Identities = 144/350 (41%), Positives = 219/350 (62%), Gaps = 10/350 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARS---------LYGTMSDIRVEINPE 56
             E ++    VA E+ +  + ++    +++ KA              G    + V ++P+
Sbjct: 2   NKEFVEALQHVALERGVSPEELIQAFEEALAKAYVRQKGFRPKEVEEGKGPLVEVHLDPQ 61

Query: 57  TGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQ 116
            G I +  +  VVE+VEN   +I+L  A   DP + +G  +  P+ P +F R+AVQ+AKQ
Sbjct: 62  QGTIEVLEIKRVVEKVENPEREIALADALTYDPEVQVGEEMEFPVDPEEFSRIAVQTAKQ 121

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISREN 175
           ++ Q+++EAER+R Y E+KDK GEI++G V RV+  GNV VDLG  + ++   E I  E 
Sbjct: 122 ILTQRLKEAERNRVYEEYKDKKGEILTGQVTRVDNRGNVYVDLGRGEALMPPREQIPTER 181

Query: 176 LRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
             PG R+K Y+ +V+R  +GP +++SR H + +  L   EVPEI  G+V+VKA++R+PGS
Sbjct: 182 YYPGQRIKVYLKEVQRSSKGPSLIVSRAHEELLRYLLKQEVPEIAEGVVEVKAIAREPGS 241

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           R+K+AV S + ++DP+GAC+G +G R+QAV  EL  E++DI+ WSP+   F+ NAL PA 
Sbjct: 242 RSKVAVMSHNPNVDPIGACIGHKGQRIQAVSAELGRERVDIIQWSPNPREFIRNALSPAT 301

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           V  + +D + G   V V K+Q SLAIG+ GQNVRLAS+LTG+ ID    E
Sbjct: 302 VGAIEIDPETGHAAVTVAKDQHSLAIGKAGQNVRLASKLTGYEIDFKEAE 351


>gi|187778986|ref|ZP_02995459.1| hypothetical protein CLOSPO_02581 [Clostridium sporogenes ATCC
           15579]
 gi|187772611|gb|EDU36413.1| hypothetical protein CLOSPO_02581 [Clostridium sporogenes ATCC
           15579]
          Length = 454

 Score =  420 bits (1080), Expect = e-115,   Method: Composition-based stats.
 Identities = 159/439 (36%), Positives = 267/439 (60%), Gaps = 20/439 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----GTMSDIRVEINPETGDIS 61
             E ++    +  EK I  D++ + + D++  A +  Y    G+ ++++V +N E+G+I 
Sbjct: 2   NQEFVEALKEIVKEKGISADLLFTTIEDALVTAYKKNYAKQGGSTNNVKVIMNRESGEIK 61

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++   +VVE VE    +ISL+ A++ DP+ ++  +++  + P  FGR+A Q+AKQV+IQ+
Sbjct: 62  VYAQKKVVELVEEEIEEISLEDAKEIDPNYELEDIINIEVTPKKFGRIAAQAAKQVVIQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++E ER   Y E+ +K  +I++GTV R + GN+++++G S+ V+  +E I  E  R  ++
Sbjct: 122 IKEEERRIVYNEYIEKEEDILTGTVLRKDKGNILINVGKSEAVLGPNEQIPGEQFRFNEK 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+ +V+   +GPQVL+SRTHP  + +LF +EVPEIYNG+V++K+++R+ GSR K+AV
Sbjct: 182 IKLYVVEVKNTTKGPQVLISRTHPGLVKRLFELEVPEIYNGVVEIKSIAREAGSRTKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
           +S+D ++DP+GACVG +G RVQ +V EL++EKIDI+ WS      + NAL PA V  V +
Sbjct: 242 YSNDEAVDPMGACVGPKGVRVQNIVNELKNEKIDIIKWSKFPDELISNALSPAKVIDVTI 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DE+     V+V   QLSLAIG+ GQNVRLA++LTGW IDI ++ +              
Sbjct: 302 VDEENKAARVVVDDSQLSLAIGKEGQNVRLAAKLTGWKIDIKSKSQAEKE---------- 351

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
              + +N+ E    +++     D EE   +     + +E   E    EI     E  + +
Sbjct: 352 ---EILNLSETKDEVILENKEDDKEEKIDLYEEMDSMVEDTKENIKEEI--SVSENNQEV 406

Query: 421 DITLQKKIRELGVSEELCS 439
           D  L+K + E+  +E+   
Sbjct: 407 DSELEKAMEEVFNTEDKLE 425


>gi|332298598|ref|YP_004440520.1| NusA antitermination factor [Treponema brennaborense DSM 12168]
 gi|332181701|gb|AEE17389.1| NusA antitermination factor [Treponema brennaborense DSM 12168]
          Length = 483

 Score =  420 bits (1080), Expect = e-115,   Method: Composition-based stats.
 Identities = 157/475 (33%), Positives = 247/475 (52%), Gaps = 31/475 (6%)

Query: 11  QIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE 70
                +  +K I  D +L  + ++++ A +  +GT  +  V+ + +  D++++    +V+
Sbjct: 7   DAIRQLTQDKGISEDAILQTIENTLKAAYKRKFGTSDNAVVKFSDDLSDVAIYSRKVIVD 66

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
            V +   +I L  A +  P  ++G  +   + P +F R AVQ+ KQ   Q + E ++D  
Sbjct: 67  GVYDPVTEIELDEALELSPECEVGDEIDILVDPKEFDRSAVQTGKQTAHQSLSEIQKDSL 126

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVR 190
           + E+KDKVGEII G  +R   G++ VDLG  +GV+       RE     DR+K+ I DV+
Sbjct: 127 FAEYKDKVGEIIIGYYQRERNGSIYVDLGKIEGVLPAKNQSPRETYHKNDRIKALITDVK 186

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDP 250
           +   G Q++LSRT P F+  +  +EVPEIY+  V++  + R+PG R K+AVFS    IDP
Sbjct: 187 KTNSGLQLVLSRTDPDFVRAVVELEVPEIYDKTVEIHKIVREPGYRTKIAVFSHREDIDP 246

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGRIE 309
           VGACVG++G R+QAV+ EL  EKIDI+ + PD   F+ NAL PA V  VV+ DE   +  
Sbjct: 247 VGACVGLKGVRIQAVIRELEGEKIDILKYDPDPREFIKNALSPAEVLDVVILDESKRQAL 306

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT---QFF---- 362
            +VP+EQ SLAIG++G NVRLA++L  W+ID+ TE +           R    Q F    
Sbjct: 307 AVVPEEQFSLAIGKQGLNVRLANRLADWSIDVKTEAQYEEFDSVVAESRKAVEQLFSDIP 366

Query: 363 ------MQAINVDEIIAHLLVAEGFADVEE-LACVKISEIASIEGFDEETAVEIQGRARE 415
                  +   VDE +A +L   G  D+E+ +  V+   I  IEG  +     +Q    +
Sbjct: 367 ETIASVAELPGVDEQVAAVLKENGIEDIEQFMQSVESGAIRQIEGLSDTDITAVQSLIND 426

Query: 416 YLEGID----ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
            +E ++    +  +    ++   EE                E G K   D+  C 
Sbjct: 427 TVEFVEDPAPVAAESAAEQIEEDEE------------YVCPECGAKITIDMTTCP 469


>gi|302338537|ref|YP_003803743.1| transcription termination factor NusA [Spirochaeta smaragdinae DSM
           11293]
 gi|301635722|gb|ADK81149.1| transcription termination factor NusA [Spirochaeta smaragdinae DSM
           11293]
          Length = 496

 Score =  420 bits (1080), Expect = e-115,   Method: Composition-based stats.
 Identities = 154/450 (34%), Positives = 249/450 (55%), Gaps = 19/450 (4%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L +   ++  ++ I  ++V   + D +  A +  +GT  +  V  + +  ++++F   E+
Sbjct: 5   LAEAIRSLVQDRGISEELVRKTIEDFLLAAYKRKFGTTENAVVRFSEDGNEVAIFAAKEI 64

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VE VE+   ++ LK A   +   +IG  +   + P +F RVAVQSAKQ   Q +RE ++D
Sbjct: 65  VENVEDPVTEMPLKEALTYNEECEIGDELLIEINPKEFDRVAVQSAKQKAKQTLREIQKD 124

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
             Y EFK+K GE++ G  +R   GN+ VDLG  +G++ R     RE  RP DR+K+ IY+
Sbjct: 125 TLYSEFKEKEGEMVIGYYQRERNGNIFVDLGKIEGILPRRYQSPREVYRPNDRIKALIYE 184

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +   G Q++LSRTH  F+ ++F +EVPE+Y+  V++  + R+PG R K+AV+S+   +
Sbjct: 185 VSKSPSGLQIVLSRTHTDFVKRIFELEVPEVYDKTVEIFKIVREPGYRTKIAVYSNRDDV 244

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGR 307
           DPVGACVGM+G R+QAVV EL  EKIDI+ +  D+ +F+ NAL PA V  VV+ DE   +
Sbjct: 245 DPVGACVGMKGVRIQAVVRELEGEKIDILKYDIDARSFIKNALSPAEVQNVVILDEAKRQ 304

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINR--QKDFNERTQFFM-- 363
              +V + QLSLAIG++G NVRLA++L  W ID+ T E+        +   E    F   
Sbjct: 305 ALAVVEENQLSLAIGKQGLNVRLANRLVDWNIDVKTIEQFEEMDLSAETKKELNALFNDV 364

Query: 364 --------------QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEI 409
                         +   + E ++ +L+  G   +E L  +   +++ +EG   +    I
Sbjct: 365 EEDDENVEEISRISELPGISERLSEILMQNGVELIETLVGLSGEDLSRLEGVTVQDVETI 424

Query: 410 QGRAREYLEGIDITLQKKIRELGVSEELCS 439
           Q    E ++ I+   ++ I +    E L  
Sbjct: 425 QNIISENVDIIEEQEEEAIAQTESHEHLAE 454


>gi|169824466|ref|YP_001692077.1| transcription terminator [Finegoldia magna ATCC 29328]
 gi|167831271|dbj|BAG08187.1| transcription terminator [Finegoldia magna ATCC 29328]
          Length = 422

 Score =  419 bits (1079), Expect = e-115,   Method: Composition-based stats.
 Identities = 149/375 (39%), Positives = 229/375 (61%), Gaps = 12/375 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG------TMSDIRVEINPETGD 59
             + ++  D +   K I R+VV   +  ++ K+    +         S + V IN + G 
Sbjct: 2   NNDFIKALDELEKSKKIPREVVFDALEKALIKSYEKNFDYQDHENEESSVEVNINRDNGK 61

Query: 60  ISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           ++L+ +  VVE VE+   +ISL+ A+      D+G  +   + P +FGR+A Q+A+ ++I
Sbjct: 62  VNLYAIKTVVESVEDKNTEISLEEAKAIKHKYDLGDKIKIEITPKNFGRIAAQTARNIVI 121

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPG 179
           QK+++AERD  Y EF D+  EII+GTV+RVE G V +DLG  +G+I   E I  E   P 
Sbjct: 122 QKLKDAERDNIYNEFIDREKEIITGTVQRVERGIVYIDLGRVEGIIPVSEQIKTEEYIPN 181

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
            R+K +I +V+   +G Q++LSRT    + +LF +EVPEI +G V++ +V+R+PGSR K+
Sbjct: 182 KRLKLFIKEVKNTTKGAQIILSRTDNSLIKRLFELEVPEINDGTVEIFSVAREPGSRTKI 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AVFS+D ++DPVG+CVG  G+RV+++V EL  EK+DIV+WS D  TF+ N+L P+ V   
Sbjct: 242 AVFSNDENVDPVGSCVGFSGTRVKSIVDELNGEKLDIVIWSKDIKTFISNSLSPSEVIAT 301

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT-----EEEDSINRQKD 354
            +DE      VIV ++QLSLAIG+ GQN RLA++LT W IDI       E  D      +
Sbjct: 302 FIDEAQKICRVIVSEDQLSLAIGKEGQNARLAAKLTNWKIDIKGLNQYLEAYDDGILSVE 361

Query: 355 FNERTQFFMQAINVD 369
           F+     F++A  ++
Sbjct: 362 FDGEAD-FLEANGIE 375


>gi|194467745|ref|ZP_03073731.1| NusA antitermination factor [Lactobacillus reuteri 100-23]
 gi|194452598|gb|EDX41496.1| NusA antitermination factor [Lactobacillus reuteri 100-23]
          Length = 393

 Score =  419 bits (1079), Expect = e-115,   Method: Composition-based stats.
 Identities = 142/375 (37%), Positives = 219/375 (58%), Gaps = 25/375 (6%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E++   D +  EK I +++V+  +  +++ A +  YG   ++ VE N  TG+I ++ +
Sbjct: 7   NTEMIGALDYLEKEKGIKKEIVIEALEQALESAYKQNYG-DKNVEVEFNSLTGNIKVYAV 65

Query: 66  LEVVEEVE----NYTCQISLKVARD--RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
             + ++ E    +    +SL  AR        DIG  + + + P DFGR+A Q+AKQV++
Sbjct: 66  KTITDDEEAVEADSNEFMSLADARKLPHGQGYDIGDEIREEVTPRDFGRIAAQTAKQVVM 125

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRP 178
           Q++RE ER   Y ++K    EII+G V R +     VDLG+  +G +   + +  E+   
Sbjct: 126 QRLREEERKIIYDKYKTYENEIITGEVSREDKRFTYVDLGDGVEGAMGFRDKMPNEHYHV 185

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ Y+  V  ++RGPQ+ +SRT P+ + +LF  EVPEI +G V ++ ++R+ G RAK
Sbjct: 186 HDRIQVYVTKVNDDRRGPQIFVSRTAPELLKRLFEREVPEIKDGTVLIENIAREAGDRAK 245

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV+S+D ++DPVG CVG RGSRVQA+V EL  E +DIV +  D A F+ NAL PA V  
Sbjct: 246 VAVYSNDPNVDPVGTCVGPRGSRVQAIVNELDGENMDIVEYVKDPAKFIANALNPAEVLD 305

Query: 299 VVLDEDV-----------------GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           V+ +ED                      V+VP  QLSLAIG+RGQN RLA++LT + IDI
Sbjct: 306 VIFNEDKPASENEESEETTEGQTERSCTVVVPDNQLSLAIGKRGQNARLAARLTKYKIDI 365

Query: 342 ITEEEDSINRQKDFN 356
            +E E + N Q+   
Sbjct: 366 KSESEMAENDQESEE 380


>gi|303233744|ref|ZP_07320398.1| transcription termination factor NusA [Finegoldia magna BVS033A4]
 gi|302495178|gb|EFL54930.1| transcription termination factor NusA [Finegoldia magna BVS033A4]
          Length = 422

 Score =  419 bits (1078), Expect = e-115,   Method: Composition-based stats.
 Identities = 149/375 (39%), Positives = 229/375 (61%), Gaps = 12/375 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG------TMSDIRVEINPETGD 59
             + ++  D +   K I R+VV   +  ++ K+    +         S + V IN + G 
Sbjct: 2   NNDFIKALDELEKSKKIPREVVFDALEKALIKSYEKNFDYQDHENEESSVEVNINRDNGK 61

Query: 60  ISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           ++L+ +  VVE VE+   +ISL+ A+      D+G  +   + P +FGR+A Q+A+ ++I
Sbjct: 62  VNLYAIKTVVESVEDKNTEISLEEAKAIKHKYDLGDKIKIEITPKNFGRIAAQTARNIVI 121

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPG 179
           QK+++AERD  Y EF D+  EII+GTV+RVE G V +DLG  +G+I   E I  E   P 
Sbjct: 122 QKLKDAERDNIYNEFIDREKEIITGTVQRVERGIVYIDLGRVEGIIPVSEQIKTEEYIPN 181

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
            R+K +I +V+   +G Q++LSRT    + +LF +EVPEI +G V++ +V+R+PGSR K+
Sbjct: 182 KRLKLFIKEVKNTTKGAQIILSRTDNSLIKRLFELEVPEINDGTVEIFSVAREPGSRTKI 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AVFS+D ++DPVG+CVG  G+RV+++V EL  EK+DIV+WS D  TF+ N+L P+ V   
Sbjct: 242 AVFSNDENVDPVGSCVGFSGTRVKSIVDELNGEKLDIVIWSKDIKTFISNSLSPSEVIAT 301

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT-----EEEDSINRQKD 354
            +DE      VIV ++QLSLAIG+ GQN RLA++LT W IDI       E  D      +
Sbjct: 302 FIDEGQKICRVIVSEDQLSLAIGKEGQNARLAAKLTNWKIDIKGLNQYLEAYDDGILSVE 361

Query: 355 FNERTQFFMQAINVD 369
           F+     F++A  ++
Sbjct: 362 FDGEAD-FLEANGIE 375


>gi|157363142|ref|YP_001469909.1| transcription elongation factor NusA [Thermotoga lettingae TMO]
 gi|157313746|gb|ABV32845.1| NusA antitermination factor [Thermotoga lettingae TMO]
          Length = 344

 Score =  419 bits (1078), Expect = e-115,   Method: Composition-based stats.
 Identities = 140/338 (41%), Positives = 220/338 (65%), Gaps = 1/338 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            L LL   D +  EK I +D ++ ++  ++  A +  +GT  ++ V+I+  TGDI LF++
Sbjct: 2   NLGLLDALDQLEEEKGISKDEIIEILEKALVSAYKKNFGTAKNVDVKIDRMTGDIQLFQV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            +VVEEVE+   Q+S++ AR  DP  + G  +   +   +FGR+A Q+AKQV+IQ++RE 
Sbjct: 62  FDVVEEVEDPLTQMSVEEARKADPLAESGKKIFKKISVKNFGRIAAQTAKQVLIQRIREL 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E++RQY  +    G +I+  V RV      + +G  +  + + E IS E++  G+ +K Y
Sbjct: 122 EKERQYEHYSTLAGSVITVEVIRVTSDWADIRVGKIETRLPKREWISGESISAGELIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V ++++GP++++SR  P+F+  L  +E+PEI N IVQ+KA+ R+PG R K+AV S++
Sbjct: 182 VQSVVKDKKGPKIMVSRAVPEFVAGLLKLEIPEIENDIVQIKAIVREPGVRTKVAVVSTN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
             +DPVGAC+G  GSR+ A++ EL+ EK+DI  W+ D    ++NAL PA VT V +LD +
Sbjct: 242 PQVDPVGACIGEGGSRISAILRELKGEKVDIFRWTDDPRQLIVNALAPASVTSVEILDFE 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
              + V+VP  QLSLAIG+ GQN RLA++LTGW IDI 
Sbjct: 302 RKAVRVLVPPTQLSLAIGKGGQNARLAAKLTGWKIDIK 339


>gi|46446396|ref|YP_007761.1| transcription elongation factor NusA [Candidatus Protochlamydia
           amoebophila UWE25]
 gi|46400037|emb|CAF23486.1| putative transcription termination-antitermination factor nusA
           [Candidatus Protochlamydia amoebophila UWE25]
          Length = 424

 Score =  418 bits (1076), Expect = e-114,   Method: Composition-based stats.
 Identities = 152/420 (36%), Positives = 250/420 (59%), Gaps = 10/420 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             +L+ I + +  EK I R++V+S + +S+Q AAR      S++ V I+P+TG+I ++  
Sbjct: 2   NKDLIAIFEYLEREKGIKRELVISAIEESLQAAARKSVSGASNVTVTIHPKTGNIDVYCE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            E+V++VE  + +ISL  AR+ DP  +IG  +   + P DFGR+A Q A+Q+I QK+R A
Sbjct: 62  KEIVDDVEVPSQEISLLAAREIDPDAEIGQFIDIVVTPKDFGRIAAQKARQIITQKLRGA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           ERD  Y E++ ++ E+ISGT+KR   G N+I+DLG  + ++   E    E  + G++V +
Sbjct: 122 ERDVIYEEYRHRINELISGTIKRFVRGSNLIIDLGKVEAILPTREYPKTEKYQVGEKVLA 181

Query: 185 YIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            + +V+  E  G +V+LSR+HP+F+ +L   EVPE+ +G + +  + RD G R KL V S
Sbjct: 182 LVLEVKDTENGGAEVILSRSHPEFVKQLLVQEVPEVSDGTIIIDKIVRDAGYRTKLTVRS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  +DPVGACVGMRG+RV+ +V EL +EKIDI+ +S D    + NAL P  + K+ L+E
Sbjct: 242 TDLKVDPVGACVGMRGNRVKNIVRELHNEKIDIIPFSNDPIELLQNALSPIEIRKINLNE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT---- 359
           + G I ++V  +  +  IG++G N RL S+L G+ +++    + +     + NE      
Sbjct: 302 EDGIISIVVEDDDFAAVIGKKGMNARLNSRLIGYDLEVQRMTDYNRAMAIERNELAATDD 361

Query: 360 ----QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
               Q  +    ++ +I   LV  G+  ++ L      E+A+I G   E A +I  + R+
Sbjct: 362 PTLDQPLVGIEGINSLIFDHLVDAGYHTLKSLLTATPKELAAIPGISLEMADKILEQIRK 421


>gi|295426316|ref|ZP_06818975.1| transcription termination factor NusA [Lactobacillus amylolyticus
           DSM 11664]
 gi|295063989|gb|EFG54938.1| transcription termination factor NusA [Lactobacillus amylolyticus
           DSM 11664]
          Length = 401

 Score =  418 bits (1076), Expect = e-114,   Method: Composition-based stats.
 Identities = 128/345 (37%), Positives = 209/345 (60%), Gaps = 4/345 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++V++  +  ++  A +  Y    ++ V+ +   G+  +  +
Sbjct: 2   SKEMLEAFATLEEKKGIKQEVIVDAIKAALVAAYKKNYNQAQNVEVDFDERKGNFKVMAV 61

Query: 66  LEVVEEVENYTC--QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV++ +      ++SL  A   + + ++G  +   + P +FGR+A Q+AKQVI+Q++R
Sbjct: 62  KTVVDDDQLQDDRLEVSLSDALAINRAYEVGDEIRFEVTPKNFGRIAAQTAKQVIMQRLR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           EAER+    E+     E+I+GTV+R +   V V +GN + V+ R + +  E   P D+++
Sbjct: 122 EAERNHIVDEYSQYEDELITGTVERRDNRFVYVKIGNVEAVMPRSDQMPNETYNPQDKIR 181

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
             +  V  + +G Q+++SRT P  + +LF  EVPEIY+G V++ +++R+ G R K+AV S
Sbjct: 182 VLVTRVGSDSKGAQIVVSRTAPDLVKRLFEQEVPEIYDGTVEIVSIAREAGDRTKIAVKS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-- 301
            D +IDPVG CVG RG+RVQ VV EL  E IDIV +  D + ++ NAL PA V  V    
Sbjct: 242 IDPNIDPVGTCVGQRGARVQNVVNELGGENIDIVRYEDDPSDYIANALSPAEVIAVQFGD 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           D++     VIVP  QLSLAIG++GQ+VRLA++LTG+ I+I  E E
Sbjct: 302 DDEEKSALVIVPDYQLSLAIGKKGQSVRLAARLTGYKINIRPESE 346


>gi|256847048|ref|ZP_05552494.1| transcription termination factor NusA [Lactobacillus coleohominis
           101-4-CHN]
 gi|256715712|gb|EEU30687.1| transcription termination factor NusA [Lactobacillus coleohominis
           101-4-CHN]
          Length = 385

 Score =  418 bits (1075), Expect = e-114,   Method: Composition-based stats.
 Identities = 145/371 (39%), Positives = 218/371 (58%), Gaps = 22/371 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFR 64
           + ELL   D +  EK I +DV+++ + D++  A +  Y    +++ V+I+ +TGD  +F 
Sbjct: 7   KAELLGAMDVLEKEKGIKKDVIVNALTDALANAYQKNYDDNNANVEVKIDEQTGDFKVFA 66

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
             +VV+EV N   QISL+ A       +IG    + + P DFGR+A Q+AK V++Q++RE
Sbjct: 67  TKKVVDEVTNPIEQISLRDAMHVSHGYEIGDDFKEEVTPNDFGRIAAQTAKSVVLQQLRE 126

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRVK 183
            ER   Y ++     +++ G V R +   + ++L G  +  + + + +  E+ R  D V+
Sbjct: 127 EERRIVYEKYNKLKDDLVDGEVAREDSRFIYINLTGGVEAAMNKHDQMPNEHYRTHDHVQ 186

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            Y+  V ++ +GPQV +SRT P  + +LF  EVPEI  GIV++K + R+ G RAK+AVFS
Sbjct: 187 VYVTRVLKDTKGPQVFVSRTAPDLLKRLFEKEVPEISQGIVEIKGIVREAGDRAKVAVFS 246

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            DS++D VG CVG RG+RVQ +V +L  E IDIV +  +   F+ NAL PA V  V+ DE
Sbjct: 247 RDSNVDAVGTCVGPRGARVQTIVNQLGGENIDIVKFEEEPEDFIRNALNPAEVKAVIFDE 306

Query: 304 DVGRIE--------------------VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           + G IE                    VIVP +QLSLAIG+RGQNVRLA+QLTG+ IDI  
Sbjct: 307 NNGEIEENQPKVDGEESEPRVHRGCTVIVPDDQLSLAIGKRGQNVRLAAQLTGYKIDIKP 366

Query: 344 EEEDSINRQKD 354
             E   +   +
Sbjct: 367 LSEVDTDDLDE 377


>gi|302528542|ref|ZP_07280884.1| transcription termination factor NusA [Streptomyces sp. AA4]
 gi|302437437|gb|EFL09253.1| transcription termination factor NusA [Streptomyces sp. AA4]
          Length = 350

 Score =  418 bits (1075), Expect = e-114,   Method: Composition-based stats.
 Identities = 131/346 (37%), Positives = 204/346 (58%), Gaps = 27/346 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  +K I  D V+  +  ++  A +   G     R++I+ +TG + +       
Sbjct: 3   IAALRAIERDKDIPFDTVIEAIETALLTAYKHTEGHQPHARIDIDRKTGLVRVL------ 56

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A       ++     D   P  FGR+A  +A+QVI+Q++R+AE ++
Sbjct: 57  --------------AHTLTSEGEVDEEWDD--TPEGFGRIAATTARQVILQRLRDAEHEK 100

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN----VIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            Y EF  K GEI++G V+R    N    V++ +G+++GV+ + E ++ E+   G R+K++
Sbjct: 101 TYGEFSAKEGEIVAGVVQRDARANARGMVVIQVGDTEGVLPQAEQVAGESYEHGTRIKAF 160

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           ++ V R  RGPQ++LSR+HP  + KLF +EVPEI +G V++ AV+R+PG R+K+AV S+ 
Sbjct: 161 VFGVSRSNRGPQIMLSRSHPNLVRKLFALEVPEIADGTVEIAAVAREPGHRSKIAVRSTI 220

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
             ++  GAC+G  G+RV+ V++EL  EKIDI+ WS D A FV NAL PA V  V V+DE 
Sbjct: 221 PGVNAKGACIGPMGARVRNVMSELAGEKIDIIDWSDDPAKFVGNALSPAKVVSVRVVDER 280

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
                V+VP  QLSLAIG+ GQN RLA++LTGW IDI ++   +  
Sbjct: 281 AKTARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRSDAAPAEP 326


>gi|312869034|ref|ZP_07729211.1| transcription termination factor NusA [Lactobacillus oris
           PB013-T2-3]
 gi|311095460|gb|EFQ53727.1| transcription termination factor NusA [Lactobacillus oris
           PB013-T2-3]
          Length = 398

 Score =  418 bits (1075), Expect = e-114,   Method: Composition-based stats.
 Identities = 142/389 (36%), Positives = 222/389 (57%), Gaps = 21/389 (5%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
            S    E++   D +  EK I ++VV+  +  +++ A +  YG   ++ VE N  TG+I 
Sbjct: 3   KSKVNSEMIGALDYLEKEKGIKKEVVIEALEQALESAYKQNYG-DKNVEVEFNATTGNIK 61

Query: 62  LFRLLEVVEEVE----NYTCQISLKVARD--RDPSIDIGGVVSDPLPPMDFGRVAVQSAK 115
           ++ +  + ++ E    +    +SL  AR        D+   + + + P +FGR+A Q+AK
Sbjct: 62  VYAVKTITDDEEKVAADSNQYMSLAEARKLPHGQGYDVDDQIREEVTPRNFGRIAAQTAK 121

Query: 116 QVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRE 174
           QV++Q++RE ER   Y ++K    EII+G V R +     VDLG+  +G +   + +  E
Sbjct: 122 QVVMQRLREEERRIVYDKYKTYENEIITGEVSREDKRFTYVDLGDGVEGAMGFRDKMPNE 181

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
           + R  DR++ Y+  V  ++RGPQ+ +SRT P+ + +LF  EVPEI +G V ++ ++R+ G
Sbjct: 182 HYRVHDRIQVYVSKVNDDRRGPQIYVSRTAPELLKRLFEREVPEIKDGTVLIENIAREAG 241

Query: 235 SRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA 294
            RAK+AV+S+D +IDPVG CVG RGSRVQA+V EL  E +DIV +  D A F+ NAL PA
Sbjct: 242 DRAKVAVYSNDDNIDPVGTCVGPRGSRVQAIVNELDGENMDIVEYVKDPAKFIANALNPA 301

Query: 295 IVTKVVLDED------------VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
            V  V+ ++                  V+VP +QLSLAIG+RGQN RLA++LT + IDI 
Sbjct: 302 EVLDVIFNDPVTIEREDGEEEQERSCTVVVPDDQLSLAIGKRGQNARLAARLTKYKIDIK 361

Query: 343 TEEEDSINRQK-DFNERTQFFMQAINVDE 370
           +  E    + + +  E          VDE
Sbjct: 362 SASEMEELQAQAETAEDQPATDDQPLVDE 390


>gi|158313032|ref|YP_001505540.1| NusA antitermination factor [Frankia sp. EAN1pec]
 gi|158108437|gb|ABW10634.1| NusA antitermination factor [Frankia sp. EAN1pec]
          Length = 361

 Score =  417 bits (1074), Expect = e-114,   Method: Composition-based stats.
 Identities = 139/347 (40%), Positives = 202/347 (58%), Gaps = 28/347 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
               +  EK I  D ++  +  ++  A +   G+  D RV I+  +G++++F        
Sbjct: 7   ALRGIEREKEIAFDTLVEAIETALLTAYKHTTGSADDARVVIDRTSGEVAVF-------- 58

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
                       AR+  P    G        P DFGR+A  +AKQVI+Q++REA+++  Y
Sbjct: 59  ------------ARESGPD---GTSREWDDTPADFGRIATMTAKQVIMQRLREAQQEVTY 103

Query: 132 LEFKDKVGEIISGTVKRVEYGN----VIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
            ++ D+  E++SG V+  E       V+VDLG  +GV+   E +  E L  GDR+K Y+ 
Sbjct: 104 GQYADREHEVVSGVVQHHEQRAGSRVVLVDLGTVEGVLPPAEQVPGERLEHGDRIKCYVV 163

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V R   GP V LSRTHP+ +  LF +EVPE+ +G V++ A++R+ G R K+AV S  + 
Sbjct: 164 HVARGMHGPTVTLSRTHPELVKGLFRLEVPEVADGTVELAAIAREAGHRTKIAVRSKAAG 223

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVG 306
           ++P GAC+G  GSRV+AV+ EL  EKIDIV WS D A+FV +AL PA V++V + D    
Sbjct: 224 VNPKGACIGPMGSRVRAVMAELHGEKIDIVDWSADPASFVGSALSPARVSRVEVTDLASR 283

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
              V+VP  QLSLAIGR GQN RLA++LTGW IDI ++ E S  R +
Sbjct: 284 SARVVVPDYQLSLAIGREGQNARLAARLTGWRIDIHSDTEGSEPRAE 330


>gi|320103081|ref|YP_004178672.1| NusA antitermination factor [Isosphaera pallida ATCC 43644]
 gi|319750363|gb|ADV62123.1| NusA antitermination factor [Isosphaera pallida ATCC 43644]
          Length = 520

 Score =  417 bits (1073), Expect = e-114,   Method: Composition-based stats.
 Identities = 161/428 (37%), Positives = 249/428 (58%), Gaps = 37/428 (8%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            L+L +I D +  EK I +D+++  +  +I  AAR  +     + + I+P+T  I   R 
Sbjct: 2   SLDLPRIIDTIHREKGIPKDLLIDAIQTAILNAARKFFNDSEGLSITIDPQTLKIDATRG 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
                                            + + P  FGR+A Q+AKQ++IQK REA
Sbjct: 62  --------------------------------GERVDPAVFGRIAAQTAKQIMIQKFREA 89

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ERD  + EF+ + G++++GTV+R E G V+V+LG +D ++ R E I  E L PGDR+++ 
Sbjct: 90  ERDTLFEEFESQKGDLLTGTVQRFEGGAVLVNLGKTDAILPRPEQIPGEALHPGDRIRAV 149

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +++V+++ +  +++LSRTHP F+ KLF +E+PEI +  +Q++A++R+ G R K+AV S D
Sbjct: 150 VHEVKKQGQRVKIILSRTHPDFVRKLFELEIPEIADNTIQIRALAREAGYRTKVAVASVD 209

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +D VGACVG+RGSR++ +  EL  E+IDIV W+      + NAL PA + +V+L   +
Sbjct: 210 PKVDAVGACVGVRGSRIKTITDELGGERIDIVRWNDSLQVLIPNALAPAEIDEVMLCGLL 269

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
           GR  V+V  +QLSLAIGRRGQNVRLAS+L GW I+I+T EE         +   Q F Q 
Sbjct: 270 GRAIVLVRDDQLSLAIGRRGQNVRLASKLVGWDIEIMTAEELDEV----IDRAIQMFTQI 325

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEI-ASIEGFDEETAVEIQGRAREYLEGIDITL 424
             VD  +A  LV +G    ++L+ ++I ++ A+IEG D E A+ I   A E  E      
Sbjct: 326 EGVDAELAQNLVEQGILSYDDLSVMEIDDLVATIEGLDHERAIRIVEAAEELAEQQSEES 385

Query: 425 QKKIRELG 432
            ++    G
Sbjct: 386 PRRKGGRG 393


>gi|269792606|ref|YP_003317510.1| NusA antitermination factor [Thermanaerovibrio acidaminovorans DSM
           6589]
 gi|269100241|gb|ACZ19228.1| NusA antitermination factor [Thermanaerovibrio acidaminovorans DSM
           6589]
          Length = 369

 Score =  417 bits (1072), Expect = e-114,   Method: Composition-based stats.
 Identities = 143/351 (40%), Positives = 224/351 (63%), Gaps = 3/351 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E  +    +  EK +  DV+ S +  ++  A R   G   ++ V I+ E G+I L  + +
Sbjct: 6   EFGKALKQLEAEKGLSLDVISSSLEAALVSAYRKFKGGNQNVEVFIDFENGEIFLSEVKQ 65

Query: 68  VVEEVENYTCQISLKVARDRD-PSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           VV EV     +IS++ A       ++ G V+   + P +FGR+A Q+A+QVIIQ++++AE
Sbjct: 66  VVREVTCPDTEISVEEAHRMGFGDVEEGDVIRIEVFPENFGRIAAQTARQVIIQRLKDAE 125

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRVKSY 185
           R   + EF D+ G+++ GT+ +VE   ++V L   ++ ++ R+E +  E  R GDR K +
Sbjct: 126 RQIIFEEFADRTGDLVQGTIFKVEGDQILVRLNDRTEAILPREERVLGEAYRVGDRYKFF 185

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + DVR+  +GP++++SRTHP  + KLF +EVPEI +GI+++K V R+ G R+K+AV S D
Sbjct: 186 LLDVRQTTKGPRIVVSRTHPGLLRKLFELEVPEIRDGIIEIKNVVREAGGRSKVAVQSLD 245

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV-LDED 304
           S++DPVGACVG +G+R+++V+ EL  E++D++VWS D   +V NAL PA V KV  L + 
Sbjct: 246 SNVDPVGACVGPKGTRIKSVMDELGGERVDVIVWSSDPIAYVKNALSPAKVVKVEPLLDQ 305

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF 355
              + V V  +QLSLAIG+ GQNVRLA++LTGW IDI   E + +   KD 
Sbjct: 306 ERALRVFVRPDQLSLAIGKAGQNVRLAARLTGWKIDIKVLEPERLPTLKDL 356


>gi|86742245|ref|YP_482645.1| NusA antitermination factor [Frankia sp. CcI3]
 gi|86569107|gb|ABD12916.1| NusA antitermination factor [Frankia sp. CcI3]
          Length = 365

 Score =  417 bits (1072), Expect = e-114,   Method: Composition-based stats.
 Identities = 141/339 (41%), Positives = 198/339 (58%), Gaps = 28/339 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
               +  EK I  D ++  M  ++  A     G+  D RV I+  TGD+S+         
Sbjct: 7   ALRGIEREKDIAFDTLVQAMETALLTAYHHTAGSAQDARVVIDRTTGDVSVL-------- 58

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
                       AR++ P    G        P DFGR+A  +AKQVI+Q++REA+++  Y
Sbjct: 59  ------------AREQGPD---GTSREYDDTPADFGRIATMTAKQVIMQRLREAQQEVTY 103

Query: 132 LEFKDKVGEIISGTVKRVEYGN----VIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
            ++ D+  EI+SG V+  E       V+V+LG  +GV+   E +  E L  GDR+K Y+ 
Sbjct: 104 GQYADREHEIVSGVVQHHEQRAGSRVVLVNLGTVEGVLPPAEQVPGERLEHGDRIKCYVV 163

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V R   GP V LSRTHP+ +  LF +EVPE+ +G V++ A++R+ G R+K+AV S  + 
Sbjct: 164 HVARGPHGPTVTLSRTHPELVKGLFRLEVPEVADGTVELAAIAREAGHRSKIAVRSRVAG 223

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVG 306
           ++P GAC+G  GSRV+AV+ ELR EKIDIV WS D ATFV +AL PA V +V + D    
Sbjct: 224 VNPKGACIGPMGSRVRAVMAELRGEKIDIVDWSADPATFVGSALSPARVARVEVTDPASR 283

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
              V+VP  QLSLAIGR GQN RLA++LTGW IDI ++ 
Sbjct: 284 SARVVVPDYQLSLAIGREGQNARLAARLTGWRIDIHSDT 322


>gi|111225121|ref|YP_715915.1| transcription elongation protein nusA [Frankia alni ACN14a]
 gi|111152653|emb|CAJ64394.1| Transcription elongation protein nusA [Frankia alni ACN14a]
          Length = 365

 Score =  417 bits (1072), Expect = e-114,   Method: Composition-based stats.
 Identities = 141/342 (41%), Positives = 198/342 (57%), Gaps = 28/342 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
               +  EK I  D ++  M  ++  A     G+  D RV I+  TG++S+         
Sbjct: 7   ALRGIEREKDIAFDTLVQAMETALLTAYHHTAGSAPDARVVIDRTTGEVSVL-------- 58

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
                       AR+  P    G        P DFGR+A  +AKQVI+Q++REA+++  Y
Sbjct: 59  ------------AREPGPD---GTSREYDDTPADFGRIATMTAKQVIMQRLREAQQEVTY 103

Query: 132 LEFKDKVGEIISGTVKRVEYGN----VIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
            ++ D+  E++SG V+  E       V+VDLG  +GV+   E +  E L  GDR+K Y+ 
Sbjct: 104 GQYADREHEVVSGVVQHHEQRAGSKVVLVDLGTIEGVLPPAEQVPGERLEHGDRIKCYVV 163

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V R   GP V LSRTHP+ +  LF +EVPE+ +G V++ A++R+ G R+K+AV S  + 
Sbjct: 164 HVARGPHGPTVTLSRTHPELVKGLFRLEVPEVADGTVELAAIAREAGHRSKIAVRSKVAG 223

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVG 306
           ++P GAC+G  GSRV+AV+ EL  EKIDIV WS D ATFV +AL PA V +V + D    
Sbjct: 224 VNPKGACIGPMGSRVRAVMAELHGEKIDIVDWSADPATFVGSALSPARVARVEVTDLASR 283

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
              V+VP  QLSLAIGR GQN RLA++LTGW IDI ++ ED 
Sbjct: 284 SARVVVPDYQLSLAIGREGQNARLAARLTGWRIDIHSDAEDR 325


>gi|261881035|ref|ZP_06007462.1| N utilization substance protein A [Prevotella bergensis DSM 17361]
 gi|270332217|gb|EFA43003.1| N utilization substance protein A [Prevotella bergensis DSM 17361]
          Length = 424

 Score =  416 bits (1071), Expect = e-114,   Method: Composition-based stats.
 Identities = 148/414 (35%), Positives = 236/414 (57%), Gaps = 5/414 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           ++        +K IDR  ++SV+ +S +      YG+  +  V +NP+ GD  ++R   V
Sbjct: 13  MIDTFREFKTDKDIDRTTLVSVLEESFRNVLAKKYGSDENFDVIVNPDKGDFEIYRNRVV 72

Query: 69  VE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           VE  EVE+   QISL  A+  +P  ++G  VS+P+    FGR A+ + +Q +  K+ E E
Sbjct: 73  VENGEVEDDNKQISLADAQKIEPDYEVGEDVSEPVDFAKFGRRAILTLRQTLASKILELE 132

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            D  Y ++KD+VG++ISG V +V    V+ VD  N++ ++ R E I R+  R G+ +++ 
Sbjct: 133 HDSLYNKYKDRVGQVISGEVYQVWKREVLLVDDENNELILPRSEQIPRDQYRKGETLRAV 192

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V  E   P+++LSRT P FM +L   EVPEI +G++ +K ++R PG RAK+AV S D
Sbjct: 193 IDRVENENNNPKIILSRTSPVFMERLLEQEVPEIADGLIAIKKIARMPGERAKIAVESYD 252

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVGACVG+RGSRV  +V EL +E ID++ W+ ++  F+  AL PA +T + LDE+ 
Sbjct: 253 DRIDPVGACVGVRGSRVHGIVRELCNENIDVINWTANTMLFIQRALSPAKITSISLDEEN 312

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            + +V +  E++SLAIGR G N++LAS LT +TID+     ++   Q++ +     F   
Sbjct: 313 RKADVYLQPEEVSLAIGRGGLNIKLASMLTEYTIDVYRVVNENEQGQQEDDVYLDQFND- 371

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             +D+ I   + A G    + +       +      +EET   +    R+  E 
Sbjct: 372 -EIDQWIIDAIKAIGLDTAKAVMNAPREMLVERADLEEETVDHVLEVLRKEFES 424


>gi|116618453|ref|YP_818824.1| transcription elongation factor [Leuconostoc mesenteroides subsp.
           mesenteroides ATCC 8293]
 gi|116097300|gb|ABJ62451.1| Transcription elongation factor [Leuconostoc mesenteroides subsp.
           mesenteroides ATCC 8293]
          Length = 365

 Score =  416 bits (1071), Expect = e-114,   Method: Composition-based stats.
 Identities = 141/348 (40%), Positives = 216/348 (62%), Gaps = 4/348 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL++  +A+  E+ IDR VV+  + D+++ A +  Y T  ++    + + G+IS+ ++
Sbjct: 2   SKELVEALNALESERGIDRLVVVEALEDALKAAYKKQYNTADNVEATFDDKKGNISIKQV 61

Query: 66  LEVVEEVENYTCQI--SLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV + +    +I  SL  A   + + + G  +   + P DFGR+A Q+AKQVI+QK+R
Sbjct: 62  KHVVLDDDLEDEEIEISLSDALAINRAYEAGDEIRFDVTPKDFGRMAAQAAKQVIVQKMR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRV 182
           EA R   Y +F D   EII+G V R +   + V+L GN + V+  ++ +  E    GDR+
Sbjct: 122 EAGRQAIYNKFSDYEDEIITGEVDRQDARFLYVNLPGNQEAVMAPNDQMPNERYHMGDRI 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           K  +  V    +GPQV +SRT    + +LF  EVPE+Y+G V++ +++R+ G R+K+AV+
Sbjct: 182 KVLVNKVENNAKGPQVFVSRTAADLVKRLFEQEVPEVYDGTVEIMSIAREAGDRSKIAVY 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           + D+ +DPVGA VG RG+RVQ+VV EL  E +DIV W  D A ++ NAL P+ VT V+ D
Sbjct: 242 THDTDLDPVGAMVGQRGARVQSVVNELAGENMDIVEWVEDEAQYIANALNPSEVTDVIFD 301

Query: 303 EDVGRIE-VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
               R   VIVP  QLSLAIG++GQN RLA++LTG+ IDI +E E + 
Sbjct: 302 PANDRAVTVIVPDNQLSLAIGKKGQNARLAARLTGFKIDIKSESEAAA 349


>gi|227431859|ref|ZP_03913883.1| transcription termination factor NusA [Leuconostoc mesenteroides
           subsp. cremoris ATCC 19254]
 gi|227352401|gb|EEJ42603.1| transcription termination factor NusA [Leuconostoc mesenteroides
           subsp. cremoris ATCC 19254]
          Length = 365

 Score =  416 bits (1071), Expect = e-114,   Method: Composition-based stats.
 Identities = 141/348 (40%), Positives = 215/348 (61%), Gaps = 4/348 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL++  +A+  E+ IDR VV+  + D+++ A +  Y T  ++    + + G+IS+ ++
Sbjct: 2   SKELVEALNALESERGIDRLVVVEALEDALKAAYKKQYNTADNVEATFDDKKGNISIKQV 61

Query: 66  LEVVEEVENYTCQI--SLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV + +    +I  SL  A   + + + G  +   + P DFGR+A Q+AKQVI+QK+R
Sbjct: 62  KHVVLDDDLEDEEIEISLSDALAINRAYEAGDEIRFDVTPKDFGRMAAQAAKQVIVQKMR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRV 182
           EA R   Y +F D   EII+G V R +   + V+L GN + V+   + +  E    GDR+
Sbjct: 122 EAGRQAIYNKFSDYEDEIITGEVDRQDARFLYVNLPGNQEAVMAPSDQMPNERYHMGDRI 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           K  +  V    +GPQV +SRT    + +LF  EVPE+Y+G V++ +++R+ G R+K+AV+
Sbjct: 182 KVLVNKVENNAKGPQVFVSRTAADLVKRLFEQEVPEVYDGTVEIMSIAREAGDRSKIAVY 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           + D+ +DPVGA VG RG+RVQ+VV EL  E +DIV W  D A ++ NAL P+ VT V+ D
Sbjct: 242 THDTDLDPVGAMVGQRGARVQSVVNELAGENMDIVEWVEDEAQYIANALNPSEVTDVIFD 301

Query: 303 EDVGRIE-VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
               R   VIVP  QLSLAIG++GQN RLA++LTG+ IDI +E E + 
Sbjct: 302 PANDRAVTVIVPDNQLSLAIGKKGQNARLAARLTGFKIDIKSESEAAA 349


>gi|238063380|ref|ZP_04608089.1| transcription elongation factor nusA [Micromonospora sp. ATCC
           39149]
 gi|237885191|gb|EEP74019.1| transcription elongation factor nusA [Micromonospora sp. ATCC
           39149]
          Length = 347

 Score =  416 bits (1070), Expect = e-114,   Method: Composition-based stats.
 Identities = 135/356 (37%), Positives = 201/356 (56%), Gaps = 27/356 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           L    A+  E+ I  D +L+ +  ++  A R   G  S  RVEI+ + G   ++      
Sbjct: 5   LAALRALEREREIPFDTILAAIETALLTAYRHTEGAESHARVEIDRKNGAALVY------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A++ D    +     D   P DFGR+A  +AKQVI+Q++REA  + 
Sbjct: 59  --------------AQELDDDGTVVREWDD--TPHDFGRIAAMTAKQVILQRLREATDEV 102

Query: 130 QYLEFKDKVGEIISGTVK----RVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            + E+  + G++++G V+    R E G V VDLG  +GV+ + E +  E    G+R++  
Sbjct: 103 HFGEYVGRDGDLVTGVVQAHEARSEKGIVSVDLGKLEGVLPQSEQVPGERYTHGERIRCV 162

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V +  RGPQ+ LSR+HP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ 
Sbjct: 163 VVHVAKGMRGPQITLSRSHPALVKKLFALEVPEIADGTVEIGAIAREAGHRTKIAVRSAV 222

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
             ++  GAC+G  G RV+AV++EL  EKIDI+ WS D ATFV NAL PA   +V V+D  
Sbjct: 223 PGVNAKGACIGPMGQRVRAVMSELHGEKIDIIDWSDDPATFVGNALSPAKALRVEVVDLA 282

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
                V VP  QLSLAIGR GQN RLA++LTGW IDI ++ E +    +   +  +
Sbjct: 283 TRTARVTVPDFQLSLAIGREGQNARLAARLTGWRIDIRSDAEQATTAARSAADHVR 338


>gi|110803140|ref|YP_698976.1| transcription elongation factor NusA [Clostridium perfringens
           SM101]
 gi|110683641|gb|ABG87011.1| N utilization substance protein A [Clostridium perfringens SM101]
          Length = 366

 Score =  416 bits (1070), Expect = e-114,   Method: Composition-based stats.
 Identities = 144/353 (40%), Positives = 225/353 (63%), Gaps = 4/353 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG----TMSDIRVEINPETGDIS 61
             E L     +  EK I  + +L  + D+I  A +  +     T  +++V+ + ++G+I 
Sbjct: 2   NEEFLGALSEIVKEKGISVEALLETIDDAIIAAYKKNFSNSGTTAQNVKVKRDEKSGEIH 61

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++    VVEEV +   +ISL+ A+       +  +V   + P +FGRVA Q AKQ++IQ+
Sbjct: 62  VYAQKVVVEEVYDDVTEISLEDAKAISAIYQLDDIVEIEVTPKNFGRVAAQLAKQMVIQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++E+ER+  Y EF +K  +I+ GTV R + GNV VDLG  +GV+  +E +  E     ++
Sbjct: 122 IKESERNVIYSEFAEKEFDILPGTVIRKDKGNVFVDLGKIEGVLGPNEQMPTEKYNFNEK 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ Y+ +V++  +G  VL SRTHP  + +LF +EVPEIY GIV++K+++R+ GSR K+AV
Sbjct: 182 LQLYVVEVKKTSKGASVLCSRTHPGLVKRLFELEVPEIYEGIVEIKSIAREAGSRTKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S+D S+D +GACVG +G RVQ +V EL++EKIDI+ WS   + ++ NAL PA V  V  
Sbjct: 242 YSNDESVDAMGACVGPKGVRVQNIVNELKNEKIDIIKWSNTPSEYIENALSPAKVVSVEA 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
           DE+    +VIV   QLSLAIG+ GQNVRLA++LTGW IDI ++ +     Q++
Sbjct: 302 DEETKSAKVIVDDSQLSLAIGKEGQNVRLAAKLTGWKIDIKSKSKAEELLQEE 354


>gi|317125351|ref|YP_004099463.1| NusA antitermination factor [Intrasporangium calvum DSM 43043]
 gi|315589439|gb|ADU48736.1| NusA antitermination factor [Intrasporangium calvum DSM 43043]
          Length = 339

 Score =  416 bits (1070), Expect = e-114,   Method: Composition-based stats.
 Identities = 131/341 (38%), Positives = 202/341 (59%), Gaps = 13/341 (3%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           L    A+  E+ I  DV++  +  ++  A     G+    RVE++ +TG + ++      
Sbjct: 5   LAALRALERERGISLDVLIPAIEQALLVAYHRTEGSYRSARVELDRKTGHVVVWAR---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
           EE +    +   +  +  +P  +          P+ FGR+A  +A+QVI+Q++R+ E ++
Sbjct: 61  EEGDLLPAE-EGERPQRGEPGPEFDD------TPVGFGRIAASTARQVIVQRLRDLEDEQ 113

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              +FK + G++ISG +++  +  NV+VD G  +G++   E +  E    G+R++ Y+  
Sbjct: 114 ILGDFKGREGDVISGVIQQSQDPRNVLVDFGAVEGILPLAEQVPGERYVHGERLRCYVVS 173

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V+R  RGPQV LSRTHP  +  LF  EVPEI +G V++ A++R+ G R K+AV S    +
Sbjct: 174 VKRGPRGPQVGLSRTHPNLVRTLFKFEVPEIADGTVEIAALARESGHRTKIAVHSKVPGV 233

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  G+RV+AV+TELR EKIDIV +S D ATFV  AL PA V  V ++D     
Sbjct: 234 NAKGACIGPMGARVRAVMTELRGEKIDIVDYSEDPATFVAAALSPARVQSVEIVDAAART 293

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
             V+VP  QLSLAIG+ GQN RLA++LTGW IDI  + E +
Sbjct: 294 ARVVVPDYQLSLAIGKEGQNARLAAKLTGWRIDIRPDTEAT 334


>gi|227872001|ref|ZP_03990386.1| transcription elongation factor NusA [Oribacterium sinus F0268]
 gi|227842144|gb|EEJ52389.1| transcription elongation factor NusA [Oribacterium sinus F0268]
          Length = 390

 Score =  416 bits (1070), Expect = e-114,   Method: Composition-based stats.
 Identities = 143/374 (38%), Positives = 217/374 (58%), Gaps = 4/374 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL    D +  EK I +  ++  +  S+Q A ++ +G+  ++ V +NP+T   S+   
Sbjct: 2   NEELRLALDMLEKEKKISKQALIEAIELSLQTACKNHFGSADNVHVSMNPDTAVFSVLAD 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE+V + + +ISL+ A + DPS  +G VV  P+    F R+A Q+AK VI+QK+RE 
Sbjct: 62  KTVVEKVGDKSTEISLEEAHEMDPSYTLGDVVQVPIDSKSFSRIAAQNAKGVIVQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   + E+     +I +  V++     +I++LG  DG +   E I  ENL PG R K Y
Sbjct: 122 ERKNLFEEYYAMSKKIFTALVEKNTGRALIMNLGKVDGYLAEAEQIPGENLTPGQRAKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V+   +GP+++LSRTHP+ + KLF  EV E+  GIV++K+++R+ GSR K+AV S++
Sbjct: 182 VVEVKDSPKGPKLMLSRTHPELVRKLFFEEVSELREGIVEIKSIAREAGSRTKMAVISNE 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +D VGACVG+ G+RV  +V ELR EKIDI+ +  + A  + N+L PA V  V+ D D 
Sbjct: 242 EDVDAVGACVGLNGNRVNTIVEELRGEKIDIINYDENPAYLIENSLSPAKVIAVIADPDN 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN----ERTQF 361
               VIVP  QLSLAIG+ GQN RLA++LT + IDI +E +       D           
Sbjct: 302 KEALVIVPDNQLSLAIGKEGQNARLAAKLTNYKIDIKSESQAQEQGIFDEMGIDYHGESL 361

Query: 362 FMQAINVDEIIAHL 375
             + +  DE     
Sbjct: 362 EEEDLGYDEDYEDA 375


>gi|297623578|ref|YP_003705012.1| transcription termination factor NusA [Truepera radiovictrix DSM
           17093]
 gi|297164758|gb|ADI14469.1| transcription termination factor NusA [Truepera radiovictrix DSM
           17093]
          Length = 397

 Score =  416 bits (1070), Expect = e-114,   Method: Composition-based stats.
 Identities = 134/357 (37%), Positives = 223/357 (62%), Gaps = 1/357 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             + +   + +A+E+++D++ +L+   +++++A          I V ++PE+G+I +  +
Sbjct: 2   NKDFIDALNQLAHERNLDKEQLLASFEEALEQAYERNVEPGKQIEVHVDPESGEIDVLVV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVE VE+   ++SL+ AR+ DP++++G  +  P+ P  F R+AVQ+ KQVI QK+REA
Sbjct: 62  KRVVETVEDPGLEMSLEEARELDPTVEVGMEMELPVDPERFTRIAVQTTKQVITQKIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           ER   + E+KD+ G++I+  V R +   NV VDLG  + ++   E I  E    G R+K 
Sbjct: 122 ERALVFNEYKDRAGDVITAVVSRTDNKRNVFVDLGRGEAIMPPKEQIPGERYMVGMRLKV 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           ++  V    RGP +L+SR  P+ +  L   E+PEI +  V++KAV+R+ G R+K+AV S 
Sbjct: 182 FVMKVELGNRGPSILVSRAAPELLEYLMRQEIPEIADDTVEIKAVAREAGQRSKVAVVSR 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           + ++DP+GAC+G RG+R+QAV  EL+ E++DI++W P    F+ NAL PA V  + ++ +
Sbjct: 242 NPNVDPIGACIGHRGARIQAVTGELQRERVDIILWDPSPREFIRNALSPAKVGTIEVNSE 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
            G  +V V  +QLSLAIG+ GQNVRLA++LTG+ ID++  E  S          ++ 
Sbjct: 302 TGEAKVTVSNDQLSLAIGKGGQNVRLAAKLTGFKIDLVASEHISDLDAALQAAASRV 358


>gi|296269042|ref|YP_003651674.1| NusA antitermination factor [Thermobispora bispora DSM 43833]
 gi|296091829|gb|ADG87781.1| NusA antitermination factor [Thermobispora bispora DSM 43833]
          Length = 333

 Score =  415 bits (1068), Expect = e-114,   Method: Composition-based stats.
 Identities = 131/351 (37%), Positives = 204/351 (58%), Gaps = 24/351 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           + +  ++  EK I  D+V+  + D++  A     G     R E++ ETG ++++      
Sbjct: 5   MSVLRSLEREKDISFDLVVKAIEDALLIAYHRTEGAAPKARAELDRETGHVTIW------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A + D + ++     D   P +F R+A  +AKQVI+Q++R+AE + 
Sbjct: 59  --------------AAELDENGEVIREYDD--TPSNFSRIAATTAKQVILQQLRDAEDEI 102

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
            + EF  + GE++SG +++  +   V VDLG  + ++  +E +  E  R GDR++ Y+  
Sbjct: 103 NFGEFASREGELVSGVIQQGRDSRVVHVDLGKIEAILPPNEQVPGEEYRHGDRIRCYVVQ 162

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V++  +GP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S    +
Sbjct: 163 VKKGPKGPSVTLSRTHPNLVKKLFALEVPEIADGTVEIAAIAREAGHRTKIAVRSRRPGV 222

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  GSRV+ V+ EL  EKIDI+ WS D A FV NAL PA V++V V+D +   
Sbjct: 223 NAKGACIGPMGSRVRNVMAELHGEKIDIIDWSEDPAEFVGNALSPARVSRVEVVDRENRV 282

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
             V VP  QLSLAIG+ GQN RLA++LTGW IDI  + +++     D + R
Sbjct: 283 ARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTQEAPADPADVSAR 333


>gi|297565903|ref|YP_003684875.1| transcription termination factor NusA [Meiothermus silvanus DSM
           9946]
 gi|296850352|gb|ADH63367.1| transcription termination factor NusA [Meiothermus silvanus DSM
           9946]
          Length = 393

 Score =  415 bits (1068), Expect = e-114,   Method: Composition-based stats.
 Identities = 144/351 (41%), Positives = 217/351 (61%), Gaps = 10/351 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD---------IRVEINPE 56
             + ++    VA E+ +  D +++   +S++ A     G             + V ++P 
Sbjct: 2   NKDFVEALQQVALERGVTADELITAFEESLRLAYLRQKGYKPKDVEEGLGPVVEVHLDPA 61

Query: 57  TGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQ 116
            G + +  +  VVE+VE+   +ISL  A   DP + +G  +  P+ P +F R+AVQ AKQ
Sbjct: 62  GGGLEVLEIKTVVEKVEDPDKEISLADALAYDPDVQLGEEMEFPVDPEEFSRIAVQIAKQ 121

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISREN 175
           V+ Q+++EAER+R + E+KDK GE+I+G V RV+  GNV VDLG  + ++   E I  E 
Sbjct: 122 VLTQRLKEAERNRVHTEYKDKEGEVITGQVTRVDNRGNVYVDLGRGEALMPPKEQIPSER 181

Query: 176 LRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
             PG RVK Y+  V+R  +GP +++SR   + +  L   EVPEI  GIV++KAV+R+PGS
Sbjct: 182 YHPGQRVKVYLKQVQRSAKGPSLIVSRASEELLKYLLRQEVPEINEGIVEIKAVAREPGS 241

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           R+K+AV S + ++DP+GAC+G +G R+QAV  EL  E++DI+ WS +   F+ NAL PA 
Sbjct: 242 RSKVAVTSHNPNVDPIGACIGHKGQRIQAVSAELGRERVDIIQWSANPREFIRNALSPAQ 301

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           V  +  D +  R +V+V K+Q SLAIG+ GQNVRLAS+LTG+ ID    EE
Sbjct: 302 VGNIETDNETKRAKVVVSKDQHSLAIGKAGQNVRLASKLTGYEIDFEEAEE 352


>gi|259503125|ref|ZP_05746027.1| N utilization substance protein A [Lactobacillus antri DSM 16041]
 gi|259168991|gb|EEW53486.1| N utilization substance protein A [Lactobacillus antri DSM 16041]
          Length = 389

 Score =  415 bits (1068), Expect = e-114,   Method: Composition-based stats.
 Identities = 138/382 (36%), Positives = 222/382 (58%), Gaps = 21/382 (5%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           ++   D +  EK I +++V+  +  +++ A +  YG   ++ VE N  TG+I ++ +  +
Sbjct: 1   MIGALDYLEKEKGIKKEIVIEALEQALESAYKQNYG-DKNVEVEFNATTGNIKVYAVKTI 59

Query: 69  VEEVE----NYTCQISLKVARD--RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            ++ E    +    +SL  AR        D+   + + + P +FGR+A Q+AKQV++Q++
Sbjct: 60  TDDEEKVAADSNQYMSLAEARKLPHGQGYDVDDQIREEVTPRNFGRIAAQTAKQVVMQRL 119

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDR 181
           RE ER   Y ++K    EII+G V R +     VDLG+  +G +   + +  E+ R  DR
Sbjct: 120 REEERRIVYDKYKTYENEIITGEVSREDKRFTYVDLGDGVEGAMGFRDKMPNEHYRVHDR 179

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ Y+  V  ++RGPQ+ +SRT P+ + +LF  EVPEI +G V ++ ++R+ G RAK+AV
Sbjct: 180 IQVYVSKVNDDRRGPQIYVSRTAPELLKRLFEREVPEIKDGTVLIENIAREAGDRAKVAV 239

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S+D ++DPVG CVG RGSRVQA+V EL  E +DIV +  D A F+ NAL PA V  V+ 
Sbjct: 240 YSNDDNVDPVGTCVGPRGSRVQAIVNELDGENMDIVEYVKDPAKFIANALNPAEVLDVIF 299

Query: 302 DED------------VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           ++                  V+VP +QLSLAIG+RGQN RLA++LT + IDI +  E   
Sbjct: 300 NDPVTIEREDGEEEQERSCTVVVPDDQLSLAIGKRGQNARLAARLTKYKIDIKSASEMEE 359

Query: 350 NRQKDFNERTQFFM-QAINVDE 370
            + ++  +  Q       +VDE
Sbjct: 360 IQAQEALDEDQPVADDQPSVDE 381


>gi|289643647|ref|ZP_06475760.1| NusA antitermination factor [Frankia symbiont of Datisca glomerata]
 gi|289506538|gb|EFD27524.1| NusA antitermination factor [Frankia symbiont of Datisca glomerata]
          Length = 362

 Score =  415 bits (1067), Expect = e-113,   Method: Composition-based stats.
 Identities = 137/342 (40%), Positives = 198/342 (57%), Gaps = 28/342 (8%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
               +  EK I  D ++  +  ++  A R   G  +D RV I+  +G ++++        
Sbjct: 7   ALRGIEREKDIAFDTLVEAIETALLTAYRHTDGAAADARVVIDRTSGHVAVYAR------ 60

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
                 + SL            G        P DFGR+A  +AKQVI+Q++REA+++  Y
Sbjct: 61  ------ETSLD-----------GMTREWEDTPADFGRIATMTAKQVIMQRLREAQQEITY 103

Query: 132 LEFKDKVGEIISGTVKRVEYGN----VIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
            ++ D+  E++SG V+  E       V+VDLG  +GV+   E +  E    GDR+K Y+ 
Sbjct: 104 GQYADREHEVVSGVVQHHEQRAGSKVVLVDLGTIEGVLPPAEQVPGERFEHGDRIKCYVV 163

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V R   GP V LSRTHP+ +  LF MEVPE+ +G V++ A++R+ G R+K+AV S+ + 
Sbjct: 164 SVTRGVHGPTVTLSRTHPELVKGLFRMEVPEVADGTVEIAAIAREAGHRSKIAVRSTVAG 223

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVG 306
           ++P GAC+G  G+RV+AV+ EL  EKIDIV WS D A FV NAL PA V +V + D  V 
Sbjct: 224 VNPKGACIGPMGARVRAVMAELHGEKIDIVDWSADPAAFVGNALSPARVARVEVADPAVR 283

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
              V+VP  QLSLAIGR GQN RLA++LTGW IDI ++ E +
Sbjct: 284 AARVVVPDYQLSLAIGREGQNARLAARLTGWRIDIHSDTEGA 325


>gi|168214478|ref|ZP_02640103.1| N utilization substance protein A [Clostridium perfringens CPE str.
           F4969]
 gi|170714047|gb|EDT26229.1| N utilization substance protein A [Clostridium perfringens CPE str.
           F4969]
          Length = 366

 Score =  415 bits (1067), Expect = e-113,   Method: Composition-based stats.
 Identities = 144/353 (40%), Positives = 225/353 (63%), Gaps = 4/353 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG----TMSDIRVEINPETGDIS 61
             E L     +  EK I  + +L  + D+I  A +  +     T  +++V+ + ++G+I 
Sbjct: 2   NEEFLGALSEIVKEKGISVEALLETIDDAIIAAYKKNFSNSGTTAQNVKVKRDEKSGEIH 61

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++    VVEEV +   +ISL+ A+       +  +V   + P +FGRVA Q AKQ++IQ+
Sbjct: 62  VYAQKVVVEEVYDDVTEISLEDAKAISAIYQLDDIVEIEVTPKNFGRVAAQLAKQMVIQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++E+ER+  Y EF +K  +I+ GTV R + GNV VDLG  +GV+  +E +  E     ++
Sbjct: 122 IKESERNVIYSEFAEKEFDILPGTVIRKDKGNVFVDLGKIEGVLGPNEQMPTEKYNFNEK 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ Y+ +V++  +G  VL SRTHP  + +LF +EVPEIY GIV++K+++R+ GSR K+AV
Sbjct: 182 LQLYVVEVKKTSKGASVLCSRTHPGLVKRLFELEVPEIYEGIVEIKSIAREAGSRTKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S+D S+D +GACVG +G RVQ +V EL++EKIDI+ WS   + ++ NAL PA V  V  
Sbjct: 242 YSNDESVDAMGACVGPKGVRVQNIVNELKNEKIDIIKWSSTPSEYIENALSPAKVISVEA 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
           DE+    +VIV   QLSLAIG+ GQNVRLA++LTGW IDI ++ +     Q++
Sbjct: 302 DEETKSAKVIVDDSQLSLAIGKEGQNVRLAAKLTGWKIDIKSKSKAEELLQEE 354


>gi|297520389|ref|ZP_06938775.1| transcription elongation factor NusA [Escherichia coli OP50]
          Length = 323

 Score =  415 bits (1067), Expect = e-113,   Method: Composition-based stats.
 Identities = 138/340 (40%), Positives = 209/340 (61%), Gaps = 18/340 (5%)

Query: 176 LRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
            RPGDRV+  +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGS
Sbjct: 1   FRPGDRVRGVLYSVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGS 60

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           RAK+AV ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA 
Sbjct: 61  RAKIAVKTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPAD 120

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF 355
           V  +V+DED   +++ V    L+ AIGR GQNVRLASQL+GW ++++T ++     Q + 
Sbjct: 121 VASIVVDEDKHTMDIAVEAGNLAQAIGRNGQNVRLASQLSGWELNVMTVDDLQAKHQAEA 180

Query: 356 NERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           +     F + +++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+ 
Sbjct: 181 HAAIDTFTKYLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAKN 240

Query: 416 YLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSE 475
            L  I    ++ + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL     
Sbjct: 241 ALATIAQAQEESLGDNKPADDLLNLEGVDRDLAFKLAARGVCTLEDLAEQGIDDLADIE- 299

Query: 476 NKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                           G   ++  ++I+ AR  + W   E
Sbjct: 300 ----------------GLTDEKAGALIMAAR-NICWFGDE 322


>gi|18310671|ref|NP_562605.1| transcription elongation factor NusA [Clostridium perfringens str.
           13]
 gi|110800366|ref|YP_696376.1| transcription elongation factor NusA [Clostridium perfringens ATCC
           13124]
 gi|168211423|ref|ZP_02637048.1| N utilization substance protein A [Clostridium perfringens B str.
           ATCC 3626]
 gi|168216976|ref|ZP_02642601.1| N utilization substance protein A [Clostridium perfringens NCTC
           8239]
 gi|169342667|ref|ZP_02863708.1| N utilization substance protein A [Clostridium perfringens C str.
           JGS1495]
 gi|18145352|dbj|BAB81395.1| probable transcriptional terminator [Clostridium perfringens str.
           13]
 gi|110675013|gb|ABG84000.1| N utilization substance protein A [Clostridium perfringens ATCC
           13124]
 gi|169299173|gb|EDS81243.1| N utilization substance protein A [Clostridium perfringens C str.
           JGS1495]
 gi|170710583|gb|EDT22765.1| N utilization substance protein A [Clostridium perfringens B str.
           ATCC 3626]
 gi|182380937|gb|EDT78416.1| N utilization substance protein A [Clostridium perfringens NCTC
           8239]
          Length = 366

 Score =  414 bits (1066), Expect = e-113,   Method: Composition-based stats.
 Identities = 144/353 (40%), Positives = 225/353 (63%), Gaps = 4/353 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG----TMSDIRVEINPETGDIS 61
             E L     +  EK I  + +L  + D+I  A +  +     T  +++V+ + ++G+I 
Sbjct: 2   NEEFLGALSEIVKEKGISVEALLETIDDAIIAAYKKNFSNSGTTAQNVKVKRDEKSGEIH 61

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++    VVEEV +   +ISL+ A+       +  +V   + P +FGRVA Q AKQ++IQ+
Sbjct: 62  VYAQKVVVEEVYDDVTEISLEDAKAISAIYQLDDIVEIEVTPKNFGRVAAQLAKQMVIQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++E+ER+  Y EF +K  +I+ GTV R + GNV VDLG  +GV+  +E +  E     ++
Sbjct: 122 IKESERNVIYSEFAEKEFDILPGTVIRKDKGNVFVDLGKIEGVLGPNEQMPTEKYNFNEK 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ Y+ +V++  +G  VL SRTHP  + +LF +EVPEIY GIV++K+++R+ GSR K+AV
Sbjct: 182 LQLYVVEVKKTSKGASVLCSRTHPGLVKRLFELEVPEIYEGIVEIKSIAREAGSRTKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S+D S+D +GACVG +G RVQ +V EL++EKIDI+ WS   + ++ NAL PA V  V  
Sbjct: 242 YSNDESVDAMGACVGPKGVRVQNIVNELKNEKIDIIKWSNTPSEYIENALSPAKVISVEA 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
           DE+    +VIV   QLSLAIG+ GQNVRLA++LTGW IDI ++ +     Q++
Sbjct: 302 DEETKSAKVIVDDSQLSLAIGKEGQNVRLAAKLTGWKIDIKSKSKAEELLQEE 354


>gi|331698436|ref|YP_004334675.1| NusA antitermination factor [Pseudonocardia dioxanivorans CB1190]
 gi|326953125|gb|AEA26822.1| NusA antitermination factor [Pseudonocardia dioxanivorans CB1190]
          Length = 348

 Score =  414 bits (1065), Expect = e-113,   Method: Composition-based stats.
 Identities = 133/344 (38%), Positives = 198/344 (57%), Gaps = 29/344 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  +K I  D+VL  +  ++  A +   G     R++I+ +TG + +       
Sbjct: 5   IAALRAIERDKDIPFDMVLEAIETALLTAYKHTDGHEPHARIDIDRKTGLVRVL------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A++      +     D   P  FGRVA  +A+QVI+Q++R+AE +R
Sbjct: 59  --------------AQELGDDGQVAREWDD--TPEGFGRVAATTARQVIVQRLRDAEHER 102

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN----VIVDLGN--SDGVIRRDETISRENLRPGDRVK 183
            + EF  K GEII+G V+     N    V+V L    ++GV+ + E +  E  + GDR++
Sbjct: 103 TFGEFSAKEGEIITGEVQADSRANARGVVVVSLSGSQAEGVLPQTEQVPGERYQHGDRLR 162

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            Y+  V R  RG Q+ LSRTHP  + KLF +EVPE+ +G V++ AV+R+ G R K+AV S
Sbjct: 163 CYVLGVSRGPRGTQITLSRTHPNLVRKLFALEVPELVDGSVEIVAVAREAGHRTKIAVRS 222

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLD 302
           +   ++P GAC+G  G+RV+ V++EL  EKIDI+ WS D ATFV NAL P+ V  V V+D
Sbjct: 223 TVPGVNPKGACIGPMGARVRGVMSELAGEKIDIIDWSDDPATFVGNALSPSKVVSVTVID 282

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
                  V+VP  QLSLAIG+ GQN RLA++LTGW IDI ++ +
Sbjct: 283 AKTRTARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRSDSD 326


>gi|257055490|ref|YP_003133322.1| transcription elongation factor NusA [Saccharomonospora viridis DSM
           43017]
 gi|256585362|gb|ACU96495.1| transcription termination factor NusA [Saccharomonospora viridis
           DSM 43017]
          Length = 348

 Score =  414 bits (1065), Expect = e-113,   Method: Composition-based stats.
 Identities = 135/356 (37%), Positives = 203/356 (57%), Gaps = 27/356 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  +K I  + VL  +  ++  A +   G     R++I+ +TG + +       
Sbjct: 5   IAALRAIEADKDIPFETVLEAIESALLTAYKHTEGRQPHARIDIDRKTGYVRV------- 57

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                        +A   D + ++     D   P  FGR+A  +A+QVI+Q++R+AE ++
Sbjct: 58  -------------IAYTLDENGEVVEEWDD--TPEGFGRIAAATARQVILQRLRDAEHEK 102

Query: 130 QYLEFKDKVGEIISGTVKR----VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            Y EF  + GEI++G V+R       G VIV +G+++GV+   E +  E    G R+K+Y
Sbjct: 103 TYGEFSAQEGEIVAGVVQRDAKANARGMVIVQVGDTEGVLPPAEQVPGEVYEHGARLKAY 162

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V R  RGPQ+ LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV S+ 
Sbjct: 163 VVGVSRTARGPQITLSRTHPNLVRKLFALEVPEIADGTVEITAVAREAGHRSKIAVRSTV 222

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
             ++  GAC+G  G+RV+ V++EL  EKIDI+  S D A FV NAL PA V  V V+DE 
Sbjct: 223 PGVNAKGACIGHVGARVRNVMSELGGEKIDIIDHSDDPARFVGNALSPAKVVSVDVVDER 282

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
                VIVP  QLSLAIG+ GQN RLA++LTGW IDI ++       Q+  +   +
Sbjct: 283 TKTARVIVPDFQLSLAIGKEGQNARLAARLTGWRIDIRSDAAPEPGEQQHMDPAEK 338


>gi|167746758|ref|ZP_02418885.1| hypothetical protein ANACAC_01470 [Anaerostipes caccae DSM 14662]
 gi|317471572|ref|ZP_07930918.1| transcription termination factor NusA [Anaerostipes sp. 3_2_56FAA]
 gi|167653718|gb|EDR97847.1| hypothetical protein ANACAC_01470 [Anaerostipes caccae DSM 14662]
 gi|316900951|gb|EFV22919.1| transcription termination factor NusA [Anaerostipes sp. 3_2_56FAA]
          Length = 391

 Score =  414 bits (1064), Expect = e-113,   Method: Composition-based stats.
 Identities = 146/345 (42%), Positives = 221/345 (64%), Gaps = 5/345 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+   + +  EK ID+DV++  + +S+  A +  +G   ++ V ++ ETGDI ++   E
Sbjct: 3   ELIDALNQLEKEKHIDKDVIMEAIENSLVAACKRDFGNADNVVVNMDRETGDIVVYAEKE 62

Query: 68  VVE----EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           VVE    E  +   QISL  A+  DP  ++G +V   + P DFGR+A   A+ VI+QK++
Sbjct: 63  VVETADGEDFDPALQISLAKAKAMDPKYELGDIVRVEITPKDFGRIAAMHARSVIVQKIK 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           E ER   +  F  K  +I++G V+R    NV V L   +D ++ + E I  E  +P +R+
Sbjct: 123 EEERRVVFDHFYCKEKDIVTGVVQRYVGENVSVSLDDKTDALLMKSEQIRGEVFQPTERI 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           K YI +V+   RGP++L+SRTHP  + +LF  EV EI +GIV++K + R+ GSR KLAV+
Sbjct: 183 KLYIVEVKDTNRGPRILVSRTHPDLVKRLFEKEVAEIQDGIVEIKNIVREAGSRTKLAVW 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D ++DPVGACVGM G+RV A+V +L+ EKIDI+ W+ D   ++ NAL P+ V  V +D
Sbjct: 243 SNDPNVDPVGACVGMNGARVNAIVNDLKGEKIDIINWNEDPCVYIENALSPSKVVSVSVD 302

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
            +    +V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E + 
Sbjct: 303 VEEKSAQVVVPDYQLSLAIGKEGQNARLAARLTGYKIDIKSESQA 347


>gi|283782403|ref|YP_003373158.1| NusA antitermination factor [Pirellula staleyi DSM 6068]
 gi|283440856|gb|ADB19298.1| NusA antitermination factor [Pirellula staleyi DSM 6068]
          Length = 404

 Score =  414 bits (1064), Expect = e-113,   Method: Composition-based stats.
 Identities = 154/421 (36%), Positives = 243/421 (57%), Gaps = 35/421 (8%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  ++L+I D++  EK+ID+DVV   +  ++  AA+  YG  +DI + I+  TG +S   
Sbjct: 2   NPADMLRIVDSLHREKNIDKDVVFQAIEAALVSAAKKHYGDAADITINIDRNTGALS--- 58

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
                           +   +  DP                 GR+  Q+AKQVIIQK+RE
Sbjct: 59  ---------------GIADGQALDPE-------------EISGRIGAQTAKQVIIQKIRE 90

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AERD    E+ D++G++I+G V R E    IV LG  + ++ R E I  E   P +RV++
Sbjct: 91  AERDSLLGEYGDQIGQLINGVVTRSEGAATIVSLGTIEAILPRSEQIPGETHHPNERVRA 150

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +++V+ +    +V+LSRT PQF+ +LF  E+PEI +G++ V A++R+P  R+K+AV S+
Sbjct: 151 IVFEVKPQGSRVKVVLSRTRPQFVQRLFEQEIPEIADGVISVNAIAREPAHRSKVAVSST 210

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  +D VGACVG+RG+R++ +V EL  E+IDIV WS D+ T +  +L+PA V +V+L + 
Sbjct: 211 DQRVDCVGACVGVRGNRIKNIVDELSGERIDIVRWSDDAETLIRASLQPAEVDQVLLCDM 270

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
           +GR  V+V ++QLSLAIGR+GQNVRLAS+L GW I+I+T +E      +  +     F +
Sbjct: 271 IGRAIVLVREDQLSLAIGRKGQNVRLASKLCGWDIEIMTNDELE----QQIDRAVGGFSK 326

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
              V E +A  LV +G+   ++L+ ++   +  + G  EE   EI  +A       +   
Sbjct: 327 IEGVTEELAQRLVEQGYLSYDDLSVIEPDALMEMGGLTEEQVEEIVNQAETLATDAERAA 386

Query: 425 Q 425
            
Sbjct: 387 D 387


>gi|182414628|ref|YP_001819694.1| NusA antitermination factor [Opitutus terrae PB90-1]
 gi|177841842|gb|ACB76094.1| NusA antitermination factor [Opitutus terrae PB90-1]
          Length = 408

 Score =  414 bits (1064), Expect = e-113,   Method: Composition-based stats.
 Identities = 143/406 (35%), Positives = 246/406 (60%), Gaps = 4/406 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + + +  EK I R  +++ +A++++ AA+    +  ++++EIN + G +  + LL+
Sbjct: 4   EILSVLEYMEKEKGIPRADMIATIANALKTAAQKGVNSGQELKIEINAKNGQLHAWCLLK 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V N   +I ++ A+   P   IG ++   + P   GR+A Q+A+Q ++Q++R+ E+
Sbjct: 64  VVDSVSNPKTEIHVERAQALKPGAIIGEIIEKEIDPSTLGRIAAQTARQAVMQRLRQFEK 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           DR + +FKD+VG I++GTV+R E  ++ +DLG ++ V+   E +  E  +PG+R++  + 
Sbjct: 124 DRIFDDFKDQVGNIVTGTVRRRERNDLYIDLGKAEAVMPAKEQVPGEEYQPGERIRCLLL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           ++    RGP+++L+R  P+F+ +LF +EV EI +G V+++A +R+PG R K+AV S+D  
Sbjct: 184 NIESTPRGPEIILTRGSPKFVRRLFELEVTEIADGTVKIEAFAREPGYRTKIAVISTDPK 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG RG+RV+ +V EL  EKIDI+ +       +I A++PA+  ++ LDE   R
Sbjct: 244 VDPVGACVGARGARVKTIVRELNGEKIDIIRYFASPREMIIEAMKPAVPREITLDEKNHR 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           I + V  + L++AIGR+GQN RL S+L GW +DI   EE                ++A  
Sbjct: 304 ILLKVATDDLAIAIGRKGQNARLTSRLIGWRLDI---EEFRAVGDDPRGNAIASLVKAFA 360

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           +D  +A  LV  G         V+ +++    GF E  A +I GR 
Sbjct: 361 LDATVAGRLVDMGINSPAAFEGVEANDLVDA-GFTEAEATDIIGRV 405


>gi|187735458|ref|YP_001877570.1| NusA antitermination factor [Akkermansia muciniphila ATCC BAA-835]
 gi|187425510|gb|ACD04789.1| NusA antitermination factor [Akkermansia muciniphila ATCC BAA-835]
          Length = 431

 Score =  414 bits (1064), Expect = e-113,   Method: Composition-based stats.
 Identities = 155/426 (36%), Positives = 247/426 (57%), Gaps = 16/426 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY---GTMSDIRVEINPETGDISLFR 64
           ++  + D    EK + R+ +L  +  +   A R +    G+++ +R EIN + G + +F 
Sbjct: 4   DIKALIDYYEREKGLSREKILLALESAFLSAYRKMVPGSGSINYLRAEINVDKGKVRIFA 63

Query: 65  LLEVVEEVE--NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            LEVV + E  +   QI L +A   D +  +  ++   + P  FGR+AVQ+A+Q ++QK+
Sbjct: 64  DLEVVPDEEYSDKFNQIPLSLAVKLDKNAVLHDLLPTNITPKGFGRIAVQTARQTMLQKL 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
            +AE++  Y EFKD+ G++++GT++R E G++ VDLG  +GV+   E +  E+   GDR+
Sbjct: 124 LDAEKEMLYDEFKDRAGDLVTGTIRRFEKGDIFVDLGKFEGVMTSRERVPNEDYSVGDRM 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           + Y+ +VR E RGP+V+LSR+HP  + +LF  EV EI +  V++  ++R+ G R K+AV 
Sbjct: 184 RFYVVEVRTEARGPEVILSRSHPNLVRRLFESEVVEIGDQTVEIHGIAREAGYRTKVAVI 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  +DPVGACVGMRG+RV+ +V EL +EK+DI+ W+ D  TFV  AL P    ++ +D
Sbjct: 244 SHDDKVDPVGACVGMRGARVKNIVRELNNEKVDILEWTEDPVTFVREALSPVEPREITVD 303

Query: 303 EDVGRIEVIVPKE-QLSLAIGRRGQNVRLASQLTGWTIDIIT----EEE------DSINR 351
           E+  +I VIV  +  LS AIGRRGQN RL S+L GW + +      E E       +   
Sbjct: 304 EEARKIFVIVQDDKDLSKAIGRRGQNARLTSRLMGWDVQVRVFDVQEAEKRQSQAAAEEV 363

Query: 352 QKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
            +      +   + + + E  A  LV  G  D+  L   + S+IA   G   E A +I  
Sbjct: 364 MRQCQAAAKTLSEQLEIPEETAMGLVTMGGTDLVALTGFEASDIAESMGIPAEEAAQILD 423

Query: 412 RAREYL 417
           +AR+ +
Sbjct: 424 KARDLI 429


>gi|303235674|ref|ZP_07322281.1| transcription termination factor NusA [Prevotella disiens
           FB035-09AN]
 gi|302484121|gb|EFL47109.1| transcription termination factor NusA [Prevotella disiens
           FB035-09AN]
          Length = 409

 Score =  413 bits (1063), Expect = e-113,   Method: Composition-based stats.
 Identities = 145/414 (35%), Positives = 237/414 (57%), Gaps = 8/414 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +++  +     KSIDR  ++SV+ +S +     +YG+  +  V +NP+ GD  ++R   V
Sbjct: 1   MIETFNEFKETKSIDRTTLVSVLEESFRNVIAKIYGSDENFDVIVNPDKGDFEIYRNRVV 60

Query: 69  VE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           V   EV++   +ISL  A+   P  ++G  VS+P+    FGR A+ + +Q +  KV E E
Sbjct: 61  VADGEVQDENKEISLTDAQKIVPDYEVGEDVSEPVDFAKFGRRAILNLRQTLSSKVLELE 120

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            D  Y ++KD+VG+IISG V +V    V+ VD  N++ ++ + E I R+  R G+ +++ 
Sbjct: 121 HDSLYNKYKDRVGQIISGEVYQVWKREVLLVDEDNNELILPKGEQIPRDQYRKGETIRAV 180

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V  E   P+++LSRT P F+ +L   EVPEI +G++ +K ++R PG RAK+AV S D
Sbjct: 181 ILRVDNENNNPKIILSRTAPTFLERLLEAEVPEIEDGLISIKGIARMPGERAKIAVESYD 240

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVGACVG+RGSRV  +V EL +E ID++ W+ ++  F+  AL PA V+ + +DE+ 
Sbjct: 241 DRIDPVGACVGVRGSRVHGIVRELCNENIDVINWTANTKLFIQRALSPAKVSSLTIDEEN 300

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            + EV +  E++SLAIGR G N++LAS LTG+TID+  E ++   +  + +     F   
Sbjct: 301 KKAEVFLQPEEVSLAIGRGGMNIKLASMLTGYTIDVFRELDE---QTSEEDIYLDEFSD- 356

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             +D+ +   + + G     ++       +      +EET   +    R   E 
Sbjct: 357 -EIDKWVIDAIKSIGLDTARQVLNAPREMLIEKADLEEETVDNVLNILRAEFES 409


>gi|159036964|ref|YP_001536217.1| transcription elongation factor NusA [Salinispora arenicola
           CNS-205]
 gi|157915799|gb|ABV97226.1| NusA antitermination factor [Salinispora arenicola CNS-205]
          Length = 347

 Score =  413 bits (1062), Expect = e-113,   Method: Composition-based stats.
 Identities = 137/346 (39%), Positives = 199/346 (57%), Gaps = 27/346 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           L    A+  E+ I  D +L+ +  ++  A R   G     RVEI+ +TG   ++      
Sbjct: 5   LAALRALEREREIPFDTILAAIETALLTAYRHTEGAQPHARVEIDRKTGVALVY------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A++ D    +     D   P DFGR+A  +AKQVI+Q++REA  + 
Sbjct: 59  --------------AQEMDADGGVVREWDD--TPHDFGRIAAMTAKQVILQRLREATDEV 102

Query: 130 QYLEFKDKVGEIISGTVK----RVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            + E+  + G++++G V+    R E G V VDLG  +GV+ + E +  E    G+RV+  
Sbjct: 103 HFGEYVGRDGDLVTGVVQAHEARAEKGIVSVDLGKLEGVLPQSEQVPGEQYAHGERVRCV 162

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V +  RGPQV LSR+HP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ 
Sbjct: 163 VVHVAKGVRGPQVTLSRSHPALVKKLFALEVPEIADGTVEITAIAREAGHRTKIAVRSTA 222

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
           + ++  GAC+G  G RV+AV++EL  EKIDI+ WS D ATFV NAL PA   +V V+D  
Sbjct: 223 AGVNAKGACIGPMGQRVRAVMSELHGEKIDIIDWSEDPATFVGNALSPAKALRVDVVDLA 282

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
                V VP  QLSLAIGR GQN RLA++LTGW IDI ++ E +  
Sbjct: 283 SRTARVTVPDFQLSLAIGREGQNARLAARLTGWRIDIRSDVEPARP 328


>gi|227514704|ref|ZP_03944753.1| transcription termination factor NusA [Lactobacillus fermentum ATCC
           14931]
 gi|227086908|gb|EEI22220.1| transcription termination factor NusA [Lactobacillus fermentum ATCC
           14931]
 gi|299783112|gb|ADJ41110.1| Transcription termination factor NusA [Lactobacillus fermentum CECT
           5716]
          Length = 408

 Score =  412 bits (1061), Expect = e-113,   Method: Composition-based stats.
 Identities = 147/403 (36%), Positives = 230/403 (57%), Gaps = 29/403 (7%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLF 63
           +R+ELL   D +  EK I ++V++  + D++  A +  Y    +++ VEI+  TG+  ++
Sbjct: 6   DRVELLDAMDILEKEKGIKKEVIIEALKDALANAYQKNYEDNAANVEVEISDRTGEFKVY 65

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
               VVEEV N   +ISL  A   +   ++G +  + + P +FGR+A Q+AK V++QK+R
Sbjct: 66  AAKTVVEEVTNDVEEISLADALRVNRGYELGDIFKEEVTPRNFGRLAAQTAKSVVLQKLR 125

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           + ER+  + ++     +++ G V R +   + V+LG+  +  + + + +  E+ R  DR+
Sbjct: 126 DEERNIIFDKYNKLKDDLVEGEVSREDERYIYVNLGDGVEAAMNKHDQMPNEHYRVHDRI 185

Query: 183 KSYIYDV--RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           + Y+  V  +   RGP V +SRT P  + +LF  EVPEI  GIV+VK + R+ G RAK+A
Sbjct: 186 QVYVTRVNDKSGARGPLVFVSRTSPDLLKRLFEKEVPEIQQGIVEVKGIVREAGDRAKVA 245

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           VFS D ++DPVG CVG RG+RVQA+V +L  E IDIV +      F+ NAL PA V  V+
Sbjct: 246 VFSRDENVDPVGTCVGPRGTRVQAIVNQLGGENIDIVKYEEAPEEFIRNALNPAEVEGVL 305

Query: 301 LDEDVGRIE---------------------VIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
            DE+ G ++                     VIVP +QLSLAIG+RGQNVRLA+QLTG+ I
Sbjct: 306 FDENNGEVDEPASVDENGRKHEERIHRGCTVIVPDDQLSLAIGKRGQNVRLAAQLTGYKI 365

Query: 340 DIITEEEDS---INRQKDFNERTQFFMQAINVDEIIAHLLVAE 379
           DI +  + +     + +   E  +   QA  +D+  A     E
Sbjct: 366 DIKSSSQAAALEEAQPEPAAEVVEQPTQAPELDQA-ADSFADE 407


>gi|254369910|ref|ZP_04985919.1| hypothetical protein FTAG_01671 [Francisella tularensis subsp.
           holarctica FSC022]
 gi|157122880|gb|EDO66997.1| hypothetical protein FTAG_01671 [Francisella tularensis subsp.
           holarctica FSC022]
          Length = 447

 Score =  412 bits (1061), Expect = e-113,   Method: Composition-based stats.
 Identities = 151/476 (31%), Positives = 277/476 (58%), Gaps = 38/476 (7%)

Query: 47  SDIRVEINPETGDISLFRLLEVV---EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPP 103
            +I V+I+  TGD    R+  +V   E++ +Y+ ++   V +++  ++  G V+ +P+  
Sbjct: 1   MNIEVKIDRVTGDFKADRVWHIVSEDEDLIDYSKELYEDVVQEKGYNVKAGDVMREPVEV 60

Query: 104 MDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SD 162
            ++GR+A   AKQ++++K++  ER++    +++K+G+I+ G +KR  Y  ++VDLGN ++
Sbjct: 61  KEYGRIAATMAKQILMKKIKNFEREKSARFYQNKIGDIVYGEIKRTTYEILVVDLGNNAE 120

Query: 163 GVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ--VLLSRTHPQFMVKLFHMEVPEIY 220
           G++ + + I+RE  R GD++++ +  V  ++ G    ++LSR+    +  LF +EVPE+ 
Sbjct: 121 GILPKKDLIARERYRVGDKIRACVEAVESDESGKPNTIMLSRSSNTMLKALFKLEVPEVE 180

Query: 221 NGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
             ++ +  V R+ G R+K+ V S+D  IDP GACVG+RGSR+ ++++EL  EK+D+++W+
Sbjct: 181 EELINIVNVVREHGFRSKVTVKSNDQRIDPCGACVGVRGSRIHSIMSELNGEKVDVILWN 240

Query: 281 PDSATFVINALRP---AIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
            D   + IN+L P   A + +V +DE+   ++++V +E LS AIG+ G NVRLAS L GW
Sbjct: 241 EDIVQYAINSLSPVDAADILEVNVDEETNSMDIVVKQESLSKAIGKNGVNVRLASSLIGW 300

Query: 338 TIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIAS 397
            I+++++ E    +        + F++A+++D   A +L+ EG   +E+LA +  +E+  
Sbjct: 301 KINVLSDAEQEEKQM----SIVEKFVEALDIDHNFALVLIEEGIETLEDLAYLDRAELLE 356

Query: 398 IEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIK 457
           IEGFDEE   E+Q RA+  +          +     +++L  + G+   +   L +N I 
Sbjct: 357 IEGFDEEIVDELQERAKAVILSQA------LGGKKPAQDLLDMQGMSLDLAEQLAQNNIV 410

Query: 458 TMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
           TMEDLA  SVD+L                 L  +   ++Q  ++I+ AR    W E
Sbjct: 411 TMEDLAELSVDEL-----------------LDIVDIDEEQATNLIMQARAP--WFE 447


>gi|21224053|ref|NP_629832.1| transcription elongation factor NusA [Streptomyces coelicolor
           A3(2)]
 gi|7801276|emb|CAB91140.1| putative transcriptional termination/antitermination factor
           [Streptomyces coelicolor A3(2)]
          Length = 340

 Score =  412 bits (1060), Expect = e-113,   Method: Composition-based stats.
 Identities = 133/347 (38%), Positives = 198/347 (57%), Gaps = 21/347 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  EK I  D+++  +  ++  A     G+    RVE++  TG ++++      
Sbjct: 5   MSALRGLVREKEISFDLLVEAIESALLIAYHRTEGSRRHARVELDRNTGHVTVWAK---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
              E+       + AR+ D              P DFGR+A  +AKQVI+Q++R+AE D 
Sbjct: 61  ---EDPDDLEEGQAAREFDD------------TPSDFGRIAATTAKQVILQRLRDAEDDA 105

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              E+  + G+I++G V++  +  NV+VD+G  + ++   E +  E    G R++SY+  
Sbjct: 106 TLGEYAGREGDIVTGVVQQGRDPKNVLVDIGKLEAILPVQEQVPGETYPHGARLRSYVVR 165

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  RGP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S +
Sbjct: 166 VAKGVRGPSVTLSRTHPNLVKKLFALEVPEIADGSVEISAIAREAGHRTKIAVRSTRSGL 225

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  G RV+ V+ EL  EKIDIV WS D A  V NAL PA V+KV V+D     
Sbjct: 226 NAKGACIGPMGGRVRNVMGELNGEKIDIVDWSDDPAEMVANALSPARVSKVEVVDLAARS 285

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
             VIVP  QLSLAIG+ GQN RLA++LTGW IDI  + E   +   +
Sbjct: 286 ARVIVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTEQPSDASPE 332


>gi|148543928|ref|YP_001271298.1| NusA antitermination factor [Lactobacillus reuteri DSM 20016]
 gi|184153324|ref|YP_001841665.1| transcription termination-antitermination factor [Lactobacillus
           reuteri JCM 1112]
 gi|227364837|ref|ZP_03848884.1| transcription termination factor NusA [Lactobacillus reuteri MM2-3]
 gi|325682537|ref|ZP_08162054.1| N utilization substance protein A [Lactobacillus reuteri MM4-1A]
 gi|148530962|gb|ABQ82961.1| NusA antitermination factor [Lactobacillus reuteri DSM 20016]
 gi|183224668|dbj|BAG25185.1| transcription termination-antitermination factor [Lactobacillus
           reuteri JCM 1112]
 gi|227070100|gb|EEI08476.1| transcription termination factor NusA [Lactobacillus reuteri MM2-3]
 gi|324978376|gb|EGC15326.1| N utilization substance protein A [Lactobacillus reuteri MM4-1A]
          Length = 395

 Score =  412 bits (1060), Expect = e-113,   Method: Composition-based stats.
 Identities = 141/377 (37%), Positives = 218/377 (57%), Gaps = 27/377 (7%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E++   D +  EK I +++V+  +  +++ A +  YG   ++ VE N  TG+I ++ +
Sbjct: 7   NTEMIGALDYLEKEKGIKKEIVIEALEQALESAYKQNYG-DKNVEVEFNSLTGNIKVYAV 65

Query: 66  LEVVEEVE----NYTCQISLKVARD--RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
             + ++ E    +    +SL  AR        DIG  + + + P DFGR+A Q+AKQV++
Sbjct: 66  KTITDDEEAVEADSNEFMSLADARKLPHGQGYDIGDEIREEVTPRDFGRIAAQTAKQVVM 125

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRP 178
           Q++RE ER   Y  +K    EII+G V R +     VDLG+  +G +   + +  E+   
Sbjct: 126 QRLREEERKIIYDRYKTYENEIITGEVSREDKRFTYVDLGDGVEGAMGFRDKMPNEHYHV 185

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ Y+  V  ++RGPQ+ +SRT P+ + +LF  EVPEI +G V ++ ++R+ G RAK
Sbjct: 186 HDRIQVYVTKVNDDRRGPQIFVSRTAPELLKRLFEREVPEIKDGTVLIENIAREAGDRAK 245

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV+S+D ++DPVG CVG RGSRVQA+V EL  E +DIV +  D A F+ NAL PA V  
Sbjct: 246 VAVYSNDPNVDPVGTCVGPRGSRVQAIVNELDGENMDIVEYVKDPAKFIANALNPAEVLD 305

Query: 299 VVLDED-------------------VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
           V+ +E+                        V+VP  QLSLAIG+RGQN RLA++LT + I
Sbjct: 306 VIFNEEKAASETEDSEGEETTEGQTERSCTVVVPDSQLSLAIGKRGQNARLAARLTKYKI 365

Query: 340 DIITEEEDSINRQKDFN 356
           DI +E E + N Q+   
Sbjct: 366 DIKSESEMAENDQESEE 382


>gi|256784869|ref|ZP_05523300.1| transcription elongation factor NusA [Streptomyces lividans TK24]
 gi|289768763|ref|ZP_06528141.1| transcription termination factor NusA [Streptomyces lividans TK24]
 gi|289698962|gb|EFD66391.1| transcription termination factor NusA [Streptomyces lividans TK24]
          Length = 340

 Score =  412 bits (1060), Expect = e-113,   Method: Composition-based stats.
 Identities = 133/353 (37%), Positives = 200/353 (56%), Gaps = 21/353 (5%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  EK I  D+++  +  ++  A     G+    RVE++  TG ++++      
Sbjct: 5   MSALRGLVREKEISFDLLVEAIESALLIAYHRTEGSRRHARVELDRNTGHVTVWAK---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
              E+       + AR+ D              P DFGR+A  +AKQVI+Q++R+AE D 
Sbjct: 61  ---EDPDDLEEGQAAREFDD------------TPSDFGRIAATTAKQVILQRLRDAEDDA 105

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              E+  + G+I++G V++  +  NV+VD+G  + ++   E +  E    G R++SY+  
Sbjct: 106 TLGEYAGREGDIVTGVVQQGRDPKNVLVDIGKLEAILPVQEQVPGETYPHGARLRSYVVR 165

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  RGP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S +
Sbjct: 166 VAKGVRGPSVTLSRTHPNLVKKLFALEVPEIADGSVEISAIAREAGHRTKIAVRSTRSGL 225

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  G RV+ V+ EL  EKIDIV WS D A  V NAL PA V+KV V+D     
Sbjct: 226 NAKGACIGPMGGRVRNVMGELNGEKIDIVDWSDDPAEMVANALSPARVSKVEVVDLAARS 285

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
             VIVP  QLSLAIG+ GQN RLA++LTGW IDI  + E   +   + +   +
Sbjct: 286 ARVIVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTEQPSDASPEQSSGRR 338


>gi|182626384|ref|ZP_02954138.1| N utilization substance protein A [Clostridium perfringens D str.
           JGS1721]
 gi|177908335|gb|EDT70883.1| N utilization substance protein A [Clostridium perfringens D str.
           JGS1721]
          Length = 366

 Score =  412 bits (1059), Expect = e-112,   Method: Composition-based stats.
 Identities = 143/353 (40%), Positives = 224/353 (63%), Gaps = 4/353 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG----TMSDIRVEINPETGDIS 61
             E L     +  EK I  + +L  + D+I  A +  +     T  +++V+ + ++G+I 
Sbjct: 2   NEEFLGALSEIVKEKGISVEALLETIDDAIIAAYKKNFSNSGTTAQNVKVKRDEKSGEIH 61

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++    VVEEV +   +ISL+ A+       +  +V   + P +FGRVA Q AKQ++IQ+
Sbjct: 62  VYAQKVVVEEVYDDVTEISLEDAKAISAIYQLDDIVEIEVTPKNFGRVAAQLAKQMVIQR 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++E+ER+  Y EF +K  +I+  TV R + GNV VDLG  +GV+  +E +  E     ++
Sbjct: 122 IKESERNVIYSEFAEKEFDILPSTVIRKDKGNVFVDLGKIEGVLGPNEQMPTEKYNFNEK 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ Y+ +V++  +G  VL SRTHP  + +LF +EVPEIY GIV++K+++R+ GSR K+AV
Sbjct: 182 LQLYVVEVKKTSKGASVLCSRTHPGLVKRLFELEVPEIYEGIVEIKSIAREAGSRTKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S+D S+D +GACVG +G RVQ +V EL++EKIDI+ WS   + ++ NAL PA V  V  
Sbjct: 242 YSNDESVDAMGACVGPKGVRVQNIVNELKNEKIDIIKWSNTPSEYIENALSPAKVISVEA 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
           DE+    +VIV   QLSLAIG+ GQNVRLA++LTGW IDI ++ +     Q++
Sbjct: 302 DEETKSAKVIVDDSQLSLAIGKEGQNVRLAAKLTGWKIDIKSKSKAEELLQEE 354


>gi|184155206|ref|YP_001843546.1| transcription termination-antitermination factor NusA
           [Lactobacillus fermentum IFO 3956]
 gi|260662294|ref|ZP_05863190.1| transcription termination factor NusA [Lactobacillus fermentum
           28-3-CHN]
 gi|183226550|dbj|BAG27066.1| transcription termination-antitermination factor NusA
           [Lactobacillus fermentum IFO 3956]
 gi|260553677|gb|EEX26569.1| transcription termination factor NusA [Lactobacillus fermentum
           28-3-CHN]
          Length = 408

 Score =  412 bits (1059), Expect = e-112,   Method: Composition-based stats.
 Identities = 147/403 (36%), Positives = 230/403 (57%), Gaps = 29/403 (7%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLF 63
           +R+ELL   D +  EK I ++V++  + D++  A +  Y    +++ VEI+  TG+  ++
Sbjct: 6   DRVELLDAMDILEKEKGIKKEVIIEALKDALANAYQKNYEDNAANVEVEISDRTGEFKVY 65

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
               VVEEV N   +ISL  A   +   ++G +  + + P +FGR+A Q+AK V++QK+R
Sbjct: 66  AAKTVVEEVTNDVEEISLADALRVNRGYELGDIFKEEVTPRNFGRLAAQTAKSVVLQKLR 125

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRV 182
           + ER+  + ++     +++ G V R +   + V+LG+  +  + + + +  E+ R  DR+
Sbjct: 126 DEERNIIFDKYNKLKDDLVEGEVSREDERYIYVNLGDGVEAAMNKHDQMPNEHYRVHDRI 185

Query: 183 KSYIYDV--RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           + Y+  V  +   RGP V +SRT P  + +LF  EVPEI  GIV+VK + R+ G RAK+A
Sbjct: 186 QVYVTRVNDKSGARGPLVFVSRTSPDLLKRLFEKEVPEIQQGIVEVKGIVREAGDRAKVA 245

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           VFS D ++DPVG CVG RG+RVQA+V +L  E IDIV +      F+ NAL PA V  V+
Sbjct: 246 VFSRDENVDPVGTCVGPRGTRVQAIVNQLGGENIDIVKYEEAPEEFIRNALNPAEVEGVL 305

Query: 301 LDEDVGRIE---------------------VIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
            DE+ G ++                     VIVP +QLSLAIG+RGQNVRLA+QLTG+ I
Sbjct: 306 FDENNGEVDEPASVDENGREHEERIHRGCTVIVPDDQLSLAIGKRGQNVRLAAQLTGYKI 365

Query: 340 DIITEEEDS---INRQKDFNERTQFFMQAINVDEIIAHLLVAE 379
           DI +  + +     + +   E  +   QA  +D+  A     E
Sbjct: 366 DIKSSSQAAALEEAQPEPAAEVVEQPTQAPELDQA-ADSFADE 407


>gi|300788185|ref|YP_003768476.1| transcription elongation factor NusA [Amycolatopsis mediterranei
           U32]
 gi|299797699|gb|ADJ48074.1| transcription elongation factor NusA [Amycolatopsis mediterranei
           U32]
          Length = 348

 Score =  412 bits (1059), Expect = e-112,   Method: Composition-based stats.
 Identities = 130/341 (38%), Positives = 199/341 (58%), Gaps = 27/341 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  +K I  + V+  +  ++  A +   G  S  R++I+ +TG + +       
Sbjct: 5   IAALRAIERDKDIPFETVIEAIETALLTAYKHTEGHQSHARIDIDRKTGLVRVL------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A        +     D   P  FGR+A  +A+QVI+Q++R+AE ++
Sbjct: 59  --------------AHTLTHDGQVDEEWDD--TPEGFGRIAATTARQVILQRLRDAEHEK 102

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN----VIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            + EF  K GEI++G ++R    N    V+V +G+++GV+   E ++ E+   G R+K+Y
Sbjct: 103 TFGEFSTKEGEIVAGVIQRDARANARGMVVVQVGDTEGVLPSGEQVAGESYEHGSRIKAY 162

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V R  RGPQ+ LSR+HP  + KLF +EVPEI +G V++ AV+R+PG R K+AV S+ 
Sbjct: 163 VVTVSRSNRGPQITLSRSHPNLVRKLFALEVPEIADGTVEIAAVAREPGHRTKIAVKSTV 222

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
             ++  GAC+G  G+RV+ V++EL  EKIDI+ +S D A FV NAL PA V  V V+DE 
Sbjct: 223 PGVNAKGACIGPVGARVRNVMSELAGEKIDIIDFSEDPARFVGNALSPAKVVSVRVVDER 282

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
                V+VP  QLSLAIG+ GQN RLA++LTGW IDI ++ 
Sbjct: 283 AKTARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRSDA 323


>gi|312127897|ref|YP_003992771.1| transcription termination factor nusa [Caldicellulosiruptor
           hydrothermalis 108]
 gi|311777916|gb|ADQ07402.1| transcription termination factor NusA [Caldicellulosiruptor
           hydrothermalis 108]
          Length = 357

 Score =  412 bits (1059), Expect = e-112,   Method: Composition-based stats.
 Identities = 136/346 (39%), Positives = 211/346 (60%), Gaps = 8/346 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS----DIRVEINPETGDI 60
           +  EL    D +  E  I++D V SV+  ++  A + + G       +++V I+PE G +
Sbjct: 9   DFQELFSAIDELEREYKIEKDYVYSVLESALLTAYKQVKGIKDKNLSNVKVSIDPEKGSV 68

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            ++   +VVE V++   +ISL+ A+  D    +G +V+  +P   F R A  + +Q +I 
Sbjct: 69  KIYEYRKVVENVKDRKSEISLEDAQKIDKRYKVGDIVAIEVPISQFSRKAAMTVRQTVIG 128

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRP 178
           K+RE  R   + ++  KV  I++G V+R++  NVIV++  G  + ++  +E I  E  +P
Sbjct: 129 KIREKRRSIIFEDYSSKVDNIVTGVVQRIDKKNVIVEIEGGKVEAILPMEEQIPGEEYKP 188

Query: 179 GDRVKSYIYDVR--REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
           G  +K YI +VR   +++ P V LSRTHP  + +L   EVPEI  GI+++KA++R+ GSR
Sbjct: 189 GVMMKFYITEVRIPPKEKEPIVYLSRTHPNLIKRLMENEVPEIQEGIIEIKAIAREAGSR 248

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           +K+AV+S+   +DPVGAC+G +G R+Q V+  L  EKIDIV WS D   F+ NAL PA V
Sbjct: 249 SKVAVYSNSLKVDPVGACIGEKGIRIQNVLKHLNGEKIDIVKWSSDIGEFIKNALSPAEV 308

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
             + L+    +  V+VP  QLSLAIG+ GQN RLA++LTGW IDI 
Sbjct: 309 VHIDLNLIEKKAFVLVPNSQLSLAIGKGGQNARLAAKLTGWKIDIK 354


>gi|320108355|ref|YP_004183945.1| NusA antitermination factor [Terriglobus saanensis SP1PR4]
 gi|319926876|gb|ADV83951.1| NusA antitermination factor [Terriglobus saanensis SP1PR4]
          Length = 562

 Score =  411 bits (1058), Expect = e-112,   Method: Composition-based stats.
 Identities = 169/425 (39%), Positives = 248/425 (58%), Gaps = 12/425 (2%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M SA    L Q  + ++ +K ID  +V+  + D+I  A R  Y T  ++R E + E+G+I
Sbjct: 1   MASA----LYQAIELMSRDKGIDPQIVVGAVEDAIALATRKFYKTQENMRGEFDKESGEI 56

Query: 61  SLFRLLEVVE---EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQV 117
             +    VVE   +VE+   Q++L  A++    +++G  +         GR+A Q AKQV
Sbjct: 57  RAYVYKTVVEGAEQVEDAENQLTLDQAKELAGEVEVGAELRFYKDTSPLGRIAAQMAKQV 116

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR 177
           I QKVREAERD  + E+  +VGEI++ TVKRVE  +VIVDL  ++  + + E    E   
Sbjct: 117 IFQKVREAERDTVFNEYNHRVGEILNATVKRVEPMDVIVDLDKAEARMPKREQSRLEQFA 176

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+R++  +  V R  +GPQV++SR  P  +  LF  EVPEIY+G V ++A++R+ G R 
Sbjct: 177 VGERIRVALIRVDRAAKGPQVIVSRAAPSLVQNLFQSEVPEIYDGTVMIRAIAREAGERT 236

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  +DPVGACVGM+G RVQ+++ ELR EKIDI+ +S +  TF   AL+PA V 
Sbjct: 237 KIAVVSRDKDVDPVGACVGMKGMRVQSIIRELRGEKIDIIEFSEEITTFAEKALQPAKVA 296

Query: 298 KVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN 356
           +V + D    +IEVIV   QLSLAIG++GQNVRLA++L GW IDI +EEE     ++  +
Sbjct: 297 RVSITDLAEKQIEVIVDDTQLSLAIGKKGQNVRLAAKLLGWKIDIKSEEEKRQEVEQQMS 356

Query: 357 ERTQF----FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGR 412
                      Q   + E +   L+A G   VE LA +   E+  + G  E++  +I   
Sbjct: 357 AMQGAPQTPIEQVTELGESVLEKLIAAGITTVESLADMTAEELEEVPGIGEKSVEKITVA 416

Query: 413 AREYL 417
            R Y 
Sbjct: 417 VRHYF 421


>gi|291166364|gb|EFE28410.1| transcription termination factor NusA [Filifactor alocis ATCC
           35896]
          Length = 412

 Score =  411 bits (1058), Expect = e-112,   Method: Composition-based stats.
 Identities = 140/387 (36%), Positives = 221/387 (57%), Gaps = 31/387 (8%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-------------------GTM 46
             E +     +  EK I +D+++  +  ++ KA +  +                      
Sbjct: 2   NAEFISAIQQLEDEKGISKDILIEAVEMALVKAYKKNFVEKNNYNDTLVEKDPKKLSLEK 61

Query: 47  SDIRVEINPETGDISLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM 104
           ++++V I+ ETGDI +F   EVV   E++    +ISL+ A++ D +  +G +V + + P 
Sbjct: 62  NNVQVSIDRETGDIKVFSKKEVVNKREIDLLEGEISLEGAQEIDINYKVGDIVQEEITPR 121

Query: 105 DFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-------VIVD 157
           +FGR+A Q+A+QV+IQK+ EA RD  Y EF ++  EI+ G V R+   N       ++ +
Sbjct: 122 NFGRIATQTARQVVIQKITEAGRDIIYNEFSNRESEIMIGEVVRIGKHNTCHLNLSLVSE 181

Query: 158 LGNS---DGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHM 214
            G++   +  +   E I  E    G R+  YI +V++    PQ+L+SR+ P  + +LF  
Sbjct: 182 KGHTIYGEATMISQEQIPYEEYSVGQRIIVYILEVKKHNNVPQILVSRSRPGLVKRLFER 241

Query: 215 EVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKI 274
           EVPEI +GIVQ+K+++R+ GSR KL+V S D S+D +GACVG +G RV  +V EL  EKI
Sbjct: 242 EVPEISDGIVQIKSIAREAGSRTKLSVCSVDPSVDAIGACVGGKGIRVANIVEELHGEKI 301

Query: 275 DIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQL 334
           DIV +  +   ++ NAL P+ V  V ++E+    +VIVP  QLSLAIG+ GQN RLA++L
Sbjct: 302 DIVNYDENPIEYISNALSPSKVVDVSVNEEEKTAKVIVPDYQLSLAIGKEGQNARLAAKL 361

Query: 335 TGWTIDIITEEEDSINRQKDFNERTQF 361
           TGW IDI +E +       D +  +Q 
Sbjct: 362 TGWKIDIKSESQALQETMDDGDFSSQM 388


>gi|169350438|ref|ZP_02867376.1| hypothetical protein CLOSPI_01206 [Clostridium spiroforme DSM 1552]
 gi|169292758|gb|EDS74891.1| hypothetical protein CLOSPI_01206 [Clostridium spiroforme DSM 1552]
          Length = 432

 Score =  411 bits (1058), Expect = e-112,   Method: Composition-based stats.
 Identities = 151/374 (40%), Positives = 230/374 (61%), Gaps = 4/374 (1%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFRL 65
           ++ ++  + +  EK I++DV L ++ +SI KA +  Y  + +++RVEIN +TG   LF L
Sbjct: 4   IKFMEALNLLIEEKGIEKDVFLEMLKESIAKAYKKNYLNSDANVRVEINEKTGKFRLFEL 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+++E+   ++SL+ A+  +P   IG VV         GR+A    KQ+  QK+RE 
Sbjct: 64  RTVVDDLEDEDLELSLEEAQAINPFYKIGDVVETEADVEHIGRLAAIQTKQLFRQKIRET 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E++  Y EF DK  +II+G V RVE    IV++G +   +  ++ I  E L+ G  +K Y
Sbjct: 124 EKETLYNEFADKKDDIITGIVDRVEDKFAIVNIGKTGAFLALNQQIPGEKLKEGQHLKVY 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + DV R  +G  +++SRT P F+ +LF +EVPE+++G V++KAVSR+PG R+K+AV++S+
Sbjct: 184 VCDVDRGTKGTHIVVSRTEPNFVKRLFELEVPEVFDGTVEIKAVSREPGERSKIAVYASN 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            +IDP+G+CVG +GSRV+ VV EL  E IDI++WS D   F+ NAL P+ V  V ++E  
Sbjct: 244 ENIDPIGSCVGPKGSRVKNVVDELNGEMIDIIIWSNDPVEFISNALSPSEVKYVSINEKD 303

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
               VIVP +QLSLAIG+RGQN RLA +LTGW IDI +  E             +   ++
Sbjct: 304 HSALVIVPDDQLSLAIGKRGQNARLAVRLTGWKIDIKSVSEALE---NGLITLEELESKS 360

Query: 366 INVDEIIAHLLVAE 379
           + VD         E
Sbjct: 361 VPVDASFEEQFAQE 374


>gi|72161180|ref|YP_288837.1| transcription elongation factor NusA [Thermobifida fusca YX]
 gi|71914912|gb|AAZ54814.1| transcription termination factor NusA [Thermobifida fusca YX]
          Length = 329

 Score =  411 bits (1057), Expect = e-112,   Method: Composition-based stats.
 Identities = 137/347 (39%), Positives = 203/347 (58%), Gaps = 24/347 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           + +  ++  EK I  D+V+  + D++  A R   G  ++ RVE++  TG ++++      
Sbjct: 5   MSVLRSLEREKDISVDLVVKAIEDALLIAYRRQEGPDTNARVELDRATGHVTVWA----- 59

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
           EE +     I    A                  P  FGR+A  +AKQVI+Q++R+AE + 
Sbjct: 60  EERDEEGRLIREYDA-----------------TPSGFGRIAASTAKQVILQRLRDAEDEI 102

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              EF  +  +I+SG V++  +  NV+VDLG  + ++   E +  E    G+R+++Y+  
Sbjct: 103 TLGEFAGRESQIVSGVVQQGKDPRNVLVDLGRVEAILPPQEQVPTETYTHGERLRAYVVQ 162

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           VRR  RGP + LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+   +
Sbjct: 163 VRRGHRGPSITLSRTHPNLVRKLFELEVPEIADGTVEIAAIAREAGHRTKMAVKSNKPGV 222

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  GSRV+ V+ ELR EKIDIV +S D A FV NAL PA VT V VLD     
Sbjct: 223 NAKGACIGPLGSRVRNVMNELRGEKIDIVDYSDDPAQFVANALSPAQVTHVEVLDAAARV 282

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
             VIVP  Q SLAIG+ GQN RLA++LTGW IDI ++ E +    ++
Sbjct: 283 ARVIVPDYQQSLAIGKEGQNARLAARLTGWRIDIRSDTEMAEQHGEE 329


>gi|256544696|ref|ZP_05472068.1| transcription termination factor NusA [Anaerococcus vaginalis ATCC
           51170]
 gi|256399585|gb|EEU13190.1| transcription termination factor NusA [Anaerococcus vaginalis ATCC
           51170]
          Length = 415

 Score =  411 bits (1057), Expect = e-112,   Method: Composition-based stats.
 Identities = 141/421 (33%), Positives = 245/421 (58%), Gaps = 7/421 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E +   + +   K++D+ ++L  +  ++ K+ +  Y    ++ V I+ ETG+I ++ L
Sbjct: 2   NKEFIIALEELEKTKNVDKRIILEALEKALVKSYQKNYDNNENVDVSIDDETGEIEVYSL 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VVEEV     +IS   A++ DP +D+G +    + P +FGRVA Q+A+ ++IQK+R+A
Sbjct: 62  KNVVEEVNEPIAEISKTKAKEIDPKLDLGDICRVKIAPKNFGRVAAQTARNIVIQKIRDA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           +RD  Y E+ D+  EII+G V+R +  N+ ++L   +G+I   E +  E   P  R+K  
Sbjct: 122 QRDSVYSEYLDRANEIITGVVQREDKFNIYINLDKIEGIIPLKEQVENETYTPNQRIKVL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V+   + PQ++LSR     +V+LF +EVPEI NGI+++  + R+ GSR K+AVFS+D
Sbjct: 182 IKEVKNTTKEPQIILSRKDKALVVRLFELEVPEITNGIIEIYGIDREAGSRTKIAVFSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             ID +GAC+G +GSRV ++V EL+ EKIDI+ +  D   F+ N+L PA + +V +++  
Sbjct: 242 PEIDSIGACIGFKGSRVNSIVEELQGEKIDIINYDKDIKVFIKNSLSPAEINEVYINDKK 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            +  V+V ++QLSLAIG+ GQN RLA++LTGW IDI ++EE     Q++ +       + 
Sbjct: 302 KQSLVVVREDQLSLAIGKEGQNARLAARLTGWKIDIKSQEEFDQLSQEEID-------EI 354

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
           + ++E     L        E++   + ++       D+E   ++     + ++       
Sbjct: 355 LGLNEQTDKDLENIEENSKEDILEDENAQQGENLDIDKENIEDLSNDLDQIIKEDIEESD 414

Query: 426 K 426
           +
Sbjct: 415 E 415


>gi|73748752|ref|YP_307991.1| transcription elongation factor NusA [Dehalococcoides sp. CBDB1]
 gi|147669518|ref|YP_001214336.1| transcription elongation factor NusA [Dehalococcoides sp. BAV1]
 gi|289432778|ref|YP_003462651.1| transcription termination factor NusA [Dehalococcoides sp. GT]
 gi|73660468|emb|CAI83075.1| N utilization substance protein A [Dehalococcoides sp. CBDB1]
 gi|146270466|gb|ABQ17458.1| NusA antitermination factor [Dehalococcoides sp. BAV1]
 gi|288946498|gb|ADC74195.1| transcription termination factor NusA [Dehalococcoides sp. GT]
          Length = 491

 Score =  411 bits (1057), Expect = e-112,   Method: Composition-based stats.
 Identities = 149/416 (35%), Positives = 240/416 (57%), Gaps = 4/416 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL-YGTMSDIRVEINPETGDISLFR 64
           + + L     ++ EK++ ++VVL+ +  ++  A R   +    +I V+I+  TG + +  
Sbjct: 2   KSDFLLAITQLSAEKNLPKEVVLATVESALVSAYRKESFAPNQNITVKIDQLTGKVKVMA 61

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
             +VVE+V +   ++ L  A+       IG ++     P D GR+A Q+AKQVI+Q++ E
Sbjct: 62  EKQVVEKVIDSRQEMRLLEAKRLKADAKIGDLMMVEDTPADAGRIAAQTAKQVILQRLHE 121

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AE    + E+  K G+ + G V+R+E   + VD+G  + ++  +E    E  R G R+K 
Sbjct: 122 AENTAIFDEYASKAGDTLVGVVQRIEPKQITVDIGRVEAIMPANEQAYGERYRAGQRIKV 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+ DV +  +GP V++SR+HP  + +LF MEVPE++N +V++KAV+R+ GSR+K+AV + 
Sbjct: 182 YVVDVAKTAKGPSVIVSRSHPGLVRRLFEMEVPEVFNQLVEIKAVAREAGSRSKVAVGAL 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
              IDPVG CVG+RG R+Q +V+EL  EKID+V WS + A+F+ N+L PA VTKV+L+E 
Sbjct: 242 QPGIDPVGCCVGLRGIRIQNIVSELNGEKIDVVAWSSEIASFIANSLSPAQVTKVILNEA 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
                V++P  QLSL IG+ GQNVRLA +LTGW IDI +  ++ + R  +   R Q  + 
Sbjct: 302 ERSAIVVIPDRQLSLGIGKEGQNVRLAVKLTGWRIDIKSASDEDVER-AEVAARQQEEIS 360

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
              + E +         A V +   V + ++   +   E  A E   +A    E  
Sbjct: 361 KSKITEKVVEK--QPVIAAVSKTETVPVEKVLPADTIIEPVAKETPAKAESVPEEQ 414


>gi|315185930|gb|EFU19694.1| transcription termination factor NusA [Spirochaeta thermophila DSM
           6578]
          Length = 488

 Score =  411 bits (1057), Expect = e-112,   Method: Composition-based stats.
 Identities = 149/439 (33%), Positives = 237/439 (53%), Gaps = 22/439 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L +    +  E+ I  ++V   + D +  A +  +GT  +  VE + +  +++L+   +
Sbjct: 4   DLKEAIQMLVQERGIPEELVQKTIEDFLLAAYKKRFGTAENAHVEFSEDGTEVTLYAKKQ 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV  E+ E+   QI L  AR   P  + G  +   + P  F R AVQ AKQ   Q+++E 
Sbjct: 64  VVADEDFEDEVLQIPLSEARKLAPEAEPGDELLMEVDPKSFDRGAVQVAKQRAQQELKEI 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           +RD  Y EFKDKVGE+I G  +R   GN+ VDLG  +G++ R     RE  RP DR+K+ 
Sbjct: 124 QRDTLYSEFKDKVGELIIGYYQRERNGNIYVDLGKIEGILPRKYQSPREVYRPNDRIKAL 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           IY+V +   G QV+LSRTH +F+ K+  +EVPEIY+  V++  + R+PG R K+AV+S  
Sbjct: 184 IYEVNKTPSGLQVILSRTHTEFVRKILELEVPEIYDKTVEIFKIVREPGYRTKIAVYSRK 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DED 304
             +DPVGACVG++G R+QA+V EL  E++D++ + PD   F+ N+L PA V +V++ D +
Sbjct: 244 EGVDPVGACVGVKGVRIQALVNELEGERVDVIRYDPDPVAFIKNSLSPAEVEQVIILDRN 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN-------------- 350
                 +V   QLSLAIG++G NVRLA++L  W ID+ T ++                  
Sbjct: 304 KKHALAVVKDNQLSLAIGKQGLNVRLANRLVDWNIDVKTAKQVEEMGIGKEAMEAVSAVF 363

Query: 351 -RQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACV-KISEIASIEGFDEE---T 405
               +  E      +   +   I  +L  +G+ ++E+L    + + +  I    EE    
Sbjct: 364 SDLDEQVEEITRIEELPGLPPHIVEILSRQGYEEIEDLVFAYQDNGLEHIPELTEEDRQL 423

Query: 406 AVEIQGRAREYLEGIDITL 424
             +I   A E +E  +   
Sbjct: 424 IGKILEDAVEIVEEEETAQ 442


>gi|270308254|ref|YP_003330312.1| transcription elongation factor [Dehalococcoides sp. VS]
 gi|270154146|gb|ACZ61984.1| transcription elongation factor [Dehalococcoides sp. VS]
          Length = 487

 Score =  411 bits (1057), Expect = e-112,   Method: Composition-based stats.
 Identities = 143/391 (36%), Positives = 238/391 (60%), Gaps = 3/391 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL-YGTMSDIRVEINPETGDISLFR 64
           + + L     ++ EK++ ++VVL+ +  ++  A R   +    +I V+I+P TG + +  
Sbjct: 2   KSDFLLAITQLSAEKNLPKEVVLATVESALVSAYRKESFAPNQNITVKIDPLTGKVKVMA 61

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
             +VVE+V +   ++ L  A+ +     IG ++     P D GR+A Q+AKQVI+Q++ E
Sbjct: 62  EKQVVEKVIDSRQEMRLLEAKRQKADAKIGDLMMVEDTPADAGRIAAQTAKQVILQRLHE 121

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AE    + E+  K G+ + G V+R+E   + VD+G  + ++   E    E  R G R+K 
Sbjct: 122 AENTAIFDEYASKAGDTLVGVVQRIEPKQITVDIGRVEAIMPASEQAYGERYRAGQRIKV 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+ DV +  +GP V++SR+HP  + +LF MEVPE++N +V++KAV+R+ GSR+K+AV + 
Sbjct: 182 YVVDVAKTAKGPAVIVSRSHPGLVRRLFEMEVPEVFNQLVEIKAVAREAGSRSKVAVGAL 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
              IDPVG CVG+RG R+Q +V+EL  EKID+V W  + ATF+ N+L PA VTKV+L+E 
Sbjct: 242 QPGIDPVGCCVGLRGIRIQNIVSELNGEKIDVVAWDNEIATFIANSLSPAQVTKVILNEA 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
                V++P  QLSL IG+ GQNVRLA +LTGW IDI +  ++ + R ++   +    ++
Sbjct: 302 EKSAIVVIPDRQLSLGIGKEGQNVRLAVKLTGWRIDIKSASDEEVERAEEVARKQAEHIK 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEI 395
              V++    + V++   + E +  +  +E+
Sbjct: 362 PEAVEKQPVAVPVSK--IEEESVGKLPPAEL 390


>gi|126640415|ref|YP_001083399.1| transcription elongation factor NusA [Acinetobacter baumannii ATCC
           17978]
          Length = 418

 Score =  410 bits (1056), Expect = e-112,   Method: Composition-based stats.
 Identities = 173/431 (40%), Positives = 252/431 (58%), Gaps = 25/431 (5%)

Query: 86  DRDP-SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           D DP    IG V    +  ++FGR+A Q AKQVI+QK+REAER      ++ KVGE+I G
Sbjct: 10  DVDPAKWSIGDVRELEVESIEFGRIAAQIAKQVIVQKIREAERALVADAYESKVGELIYG 69

Query: 145 TVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRT 203
            VK+      I+DLG N++  + R+E I +E LRP  RV + +Y V RE RG Q+LLSR 
Sbjct: 70  EVKKQTKDGFIIDLGDNAEAYLAREEMIPKEILRPKQRVNAILYSVNREGRGAQLLLSRA 129

Query: 204 HPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQ 263
            P+ ++ L   E+PEI   I+++KA +R PG RAK+AV ++D  IDPVGAC+GMRG+R+Q
Sbjct: 130 KPEMLIALMKKEIPEISEEIIEIKAAARQPGVRAKIAVKTNDHRIDPVGACIGMRGTRIQ 189

Query: 264 AVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIV-PKEQLSLAIG 322
           AV  EL  E+ID+VVWS D A ++ +AL PA V+ +VLDED    ++I    +QL+ AIG
Sbjct: 190 AVQQELNGERIDVVVWSDDPAQYIASALEPADVSGIVLDEDAKSADIIFATNDQLARAIG 249

Query: 323 RRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFA 382
            +GQNVRLAS LTG+ +D++ EEE    +Q +  +    F+  ++++E +A  LV  GF 
Sbjct: 250 SQGQNVRLASDLTGYKLDMMLEEEYRARQQNEAQQYLDMFVSRLDIEEDLAMALVEMGFT 309

Query: 383 DVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPG 442
            +EE+A V       IE  D E    +Q RA+E      +  Q+ I+E   S +L ++ G
Sbjct: 310 SLEEIAYVPAETFDEIE-LDAELVELLQSRAKEAALTDALKQQENIQE--PSADLLNMEG 366

Query: 443 IDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMI 502
           + S+I  +L   GI T++DLA  + DD+                     G   ++   +I
Sbjct: 367 MTSEIAYSLAARGIITVDDLADQATDDISDIE-----------------GLGHEKAGQLI 409

Query: 503 IHARYKMGWIE 513
           + AR    W  
Sbjct: 410 MKARES--WFN 418


>gi|227544951|ref|ZP_03975000.1| transcription termination factor NusA [Lactobacillus reuteri
           CF48-3A]
 gi|300910018|ref|ZP_07127478.1| transcription termination factor NusA [Lactobacillus reuteri
           SD2112]
 gi|227185062|gb|EEI65133.1| transcription termination factor NusA [Lactobacillus reuteri
           CF48-3A]
 gi|300892666|gb|EFK86026.1| transcription termination factor NusA [Lactobacillus reuteri
           SD2112]
          Length = 395

 Score =  410 bits (1056), Expect = e-112,   Method: Composition-based stats.
 Identities = 140/377 (37%), Positives = 219/377 (58%), Gaps = 27/377 (7%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E++   D +  EK I +++V+  +  +++ A +  YG   ++ VE N  TG+I ++ +
Sbjct: 7   NTEMIGALDYLEKEKGIKKEIVIEALEQALESAYKQNYG-DKNVEVEFNSLTGNIKVYAV 65

Query: 66  LEVVEEVE----NYTCQISLKVARD--RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
             + ++ E    +    +SL  AR        DIG  + + + P DFGR+A Q+AKQV++
Sbjct: 66  KTITDDEEAVEADSNEFMSLADARKLPHGQGYDIGDEIREEVTPRDFGRIAAQTAKQVVM 125

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRP 178
           Q++RE ER   Y ++K    EII+G V R +     VDLG+  +G +   + +  E+   
Sbjct: 126 QRLREEERKIIYDKYKTYENEIITGEVSREDKRFTYVDLGDGVEGAMGFRDKMPNEHYHV 185

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ Y+  V  ++RGPQ+ +SRT P+ + +LF  EVPEI +G V ++ ++R+ G RAK
Sbjct: 186 HDRIQVYVTKVNDDRRGPQIFVSRTAPELLKRLFEREVPEIKDGTVLIENIAREAGDRAK 245

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV+S+D ++DPVG CVG RGSRVQA+V EL  E +DIV +  + A F+ NAL PA V  
Sbjct: 246 VAVYSNDPNVDPVGTCVGPRGSRVQAIVNELDGENMDIVEYVKEPAKFIANALNPAEVLD 305

Query: 299 VVLDED-------------------VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
           V+ +E+                        V+VP  QLSLAIG+RGQN RLA++LT + I
Sbjct: 306 VIFNEEKAASETEDSEGEETTEGQTERSCTVVVPDSQLSLAIGKRGQNARLAARLTKYKI 365

Query: 340 DIITEEEDSINRQKDFN 356
           DI +E E + N Q+   
Sbjct: 366 DIKSESEMAENDQESEE 382


>gi|153873979|ref|ZP_02002372.1| Transcription termination factor NusA [Beggiatoa sp. PS]
 gi|152069556|gb|EDN67627.1| Transcription termination factor NusA [Beggiatoa sp. PS]
          Length = 355

 Score =  410 bits (1055), Expect = e-112,   Method: Composition-based stats.
 Identities = 162/355 (45%), Positives = 242/355 (68%), Gaps = 6/355 (1%)

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLR 177
           +QK+REAER +    ++D+ GE+ISG VKRVE GNVI+DLG N++ +I RDE I RE++R
Sbjct: 1   MQKIREAERAQIIEAYQDRQGELISGVVKRVERGNVILDLGGNAEALITRDEMIPRESVR 60

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
           PGDR++ Y+Y VR E RGPQ+ LSRT P+ ++KLF+MEVPEI    +++   +RDPG RA
Sbjct: 61  PGDRLRGYLYSVRPESRGPQIFLSRTAPELLIKLFNMEVPEIGEHFLEIVDAARDPGLRA 120

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV   D  IDPVGACVGMRGSRVQA+  EL  E++DI+V+  + A FV+NA+ PA V 
Sbjct: 121 KIAVKPKDPRIDPVGACVGMRGSRVQAISNELAGERVDIIVFDENPAQFVMNAMAPADVV 180

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            +++DE+   ++V V +EQLS AIGR GQNVRLASQLT WT++++T+++     +++   
Sbjct: 181 SIIVDEETHSMDVAVQEEQLSQAIGRNGQNVRLASQLTSWTLNVMTDKQAREKHEQEALV 240

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
             + FM  + VDE IA++LV EGF+ +EE+A V ++E+  IE FDE    E++ RA++ L
Sbjct: 241 MLELFMDELEVDEEIANILVQEGFSSIEEVAYVPLTEMLQIEAFDENLVKELRSRAKDAL 300

Query: 418 EGIDITLQKKIRELGVSEELC--SI--PGIDSKIKVALG-ENGIKTMEDLAGCSV 467
               I  +++   + +SEE    ++    ++ +    +   + + T E+L   S+
Sbjct: 301 LTRAIATEEQDESILLSEEKLPQNMVADEMNEQFMQPVATTHKVITQENLNEQSI 355


>gi|307718805|ref|YP_003874337.1| hypothetical protein STHERM_c11190 [Spirochaeta thermophila DSM
           6192]
 gi|306532530|gb|ADN02064.1| hypothetical protein STHERM_c11190 [Spirochaeta thermophila DSM
           6192]
          Length = 488

 Score =  410 bits (1055), Expect = e-112,   Method: Composition-based stats.
 Identities = 149/439 (33%), Positives = 237/439 (53%), Gaps = 22/439 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L +    +  E+ I  ++V   + D +  A +  +GT  +  VE + +  +++L+   +
Sbjct: 4   DLKEAIQMLVQERGIPEELVQKTIEDFLLAAYKKRFGTAENAHVEFSEDGTEVTLYAKKQ 63

Query: 68  VV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV  E+ E+   QI L  AR   P  + G  +   + P  F R AVQ AKQ   Q+++E 
Sbjct: 64  VVADEDFEDEVLQIPLSEARKLAPEAEPGDELLMEVDPKSFDRGAVQVAKQRAQQELKEI 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           +RD  Y EFKDKVGE+I G  +R   GN+ VDLG  +G++ R     RE  RP DR+K+ 
Sbjct: 124 QRDTLYSEFKDKVGELIIGYYQRERNGNIYVDLGKIEGILPRKYQSPREVYRPNDRIKAL 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           IY+V +   G QV+LSRTH +F+ K+  +EVPEIY+  V++  + R+PG R K+AV+S  
Sbjct: 184 IYEVNKTPSGLQVILSRTHTEFVRKVLELEVPEIYDKTVEIFKIVREPGYRTKIAVYSRK 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DED 304
             +DPVGACVG++G R+QA+V EL  E++D++ + PD   F+ N+L PA V +V++ D +
Sbjct: 244 EGVDPVGACVGVKGVRIQALVNELEGERVDVIRYDPDPVAFIKNSLSPAEVEQVIILDRN 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN-------------- 350
                 +V   QLSLAIG++G NVRLA++L  W ID+ T ++                  
Sbjct: 304 KKHALAVVKDNQLSLAIGKQGLNVRLANRLVDWNIDVKTAKQVEEMGIGKEAMEAVSAVF 363

Query: 351 -RQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACV-KISEIASIEGFDEE---T 405
               +  E      +   +   I  +L  +G+ ++E+L    + + +  I    EE    
Sbjct: 364 SDLDEQVEEITRIEELPGLPPHIVEILSRQGYEEIEDLVFAYQDNGLEHIPELTEEDRQL 423

Query: 406 AVEIQGRAREYLEGIDITL 424
             +I   A E +E  +   
Sbjct: 424 IGKILEDAVEIVEEEETAQ 442


>gi|312876952|ref|ZP_07736927.1| NusA antitermination factor [Caldicellulosiruptor lactoaceticus 6A]
 gi|311796267|gb|EFR12621.1| NusA antitermination factor [Caldicellulosiruptor lactoaceticus 6A]
          Length = 357

 Score =  410 bits (1055), Expect = e-112,   Method: Composition-based stats.
 Identities = 133/346 (38%), Positives = 210/346 (60%), Gaps = 8/346 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS----DIRVEINPETGDI 60
           +  EL    D +  E  I++D V SV+  ++  A + + G       +++V I+PE G +
Sbjct: 9   DFQELFSAIDELEREYKIEKDYVYSVLESALLTAYKQVKGIKDKNLSNVKVSIDPEKGSV 68

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            ++   +VVE V++   +ISL+ A+  D    +G +V+  +P   F R A  + +Q +I 
Sbjct: 69  KIYEYRKVVENVKDRKSEISLEDAQKIDKRYKVGDIVAIEVPISQFSRKAAMTVRQTVIG 128

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRP 178
           K+RE  R   +  +  K+  I++G ++R++  NVIV++  G  + ++  +E I  E  +P
Sbjct: 129 KIREKRRSIIFENYSSKIDNIVTGVIQRIDKKNVIVEIEGGKVEAILPMEEQIPGEEYKP 188

Query: 179 GDRVKSYIYDVR--REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
           G  +K YI +V+   +++ P V LSRTHP  + +L   EVPEI  GI+++KA++R+ GSR
Sbjct: 189 GTMMKFYITEVKIPPKEKEPIVYLSRTHPNLIKRLMENEVPEIQEGIIEIKAIAREAGSR 248

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           +K+AV+S+   +DPVGAC+G +G R+Q V+  L  EKIDIV WS D   F+ NAL PA V
Sbjct: 249 SKVAVYSNSLKVDPVGACIGEKGIRIQNVLKHLNGEKIDIVKWSSDIGEFIKNALSPAEV 308

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
             + L+    +  V+VP  QLSLAIG+ GQN RLA++LTGW IDI 
Sbjct: 309 VHIDLNLIEKKAFVLVPNSQLSLAIGKGGQNARLAAKLTGWKIDIK 354


>gi|225027047|ref|ZP_03716239.1| hypothetical protein EUBHAL_01303 [Eubacterium hallii DSM 3353]
 gi|224955511|gb|EEG36720.1| hypothetical protein EUBHAL_01303 [Eubacterium hallii DSM 3353]
          Length = 414

 Score =  410 bits (1054), Expect = e-112,   Method: Composition-based stats.
 Identities = 150/388 (38%), Positives = 236/388 (60%), Gaps = 18/388 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+   + +  EK I+++V++  + DS+  A    +G  + ++V ++ +TGDIS++    
Sbjct: 3   ELIDALNQLQKEKHIEKEVIMQAIEDSLVAACNRDFGKNAIVKVNMDRDTGDISVYVEKT 62

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+   +ISL  A+      +IG VV+  + P +FGR+A Q A+ VI+QK++E ER
Sbjct: 63  VVEEVEDPATEISLADAKMIRFHYEIGDVVNIEVTPKNFGRIAAQHARSVIVQKIKEEER 122

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
              +  F  K  +I++G V+R    N+ V L   +D V+   E +  E  +P DR+K YI
Sbjct: 123 RVVFEHFAHKEKDIVTGVVQRYNGKNISVSLDDKTDAVLTEKEQVKGEVFKPTDRIKLYI 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V+   +GP++L+SRTHP+ + +LF  EV E+Y+G V++K+++R+ GSR K+AV S+D 
Sbjct: 183 VEVKDTNKGPKILVSRTHPELVKRLFEKEVAEVYDGTVEIKSIAREAGSRTKIAVASNDP 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           ++DPVGACVG+ G+RV A+V++LR EKIDI+ W+ D A  + NAL P+ V  V +DE+  
Sbjct: 243 NVDPVGACVGINGARVNAIVSDLRGEKIDIIEWNDDPAVLIENALSPSNVVSVDVDEEEK 302

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI 366
              V+VP  QLSLAIG+ GQN RLA++LTG+ IDI +E + +               + +
Sbjct: 303 SARVVVPDYQLSLAIGKEGQNARLAAKLTGYKIDIKSESQAAE------------LAEEL 350

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISE 394
           +  E    L  AE F          + E
Sbjct: 351 DFGEDFGDLDEAEDFD-----LEAPVEE 373


>gi|294101966|ref|YP_003553824.1| NusA antitermination factor [Aminobacterium colombiense DSM 12261]
 gi|293616946|gb|ADE57100.1| NusA antitermination factor [Aminobacterium colombiense DSM 12261]
          Length = 362

 Score =  410 bits (1054), Expect = e-112,   Method: Composition-based stats.
 Identities = 131/351 (37%), Positives = 222/351 (63%), Gaps = 3/351 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           + ++    +  E+ +  +V+ S +  ++  A +   G   ++ V I+ E+G++S++ +  
Sbjct: 6   DFVRALKQLTAERGLTSEVIASSLEAALISAYKKYQGGDRNVEVHIDLESGNVSIYEVRL 65

Query: 68  VVEEVENYTCQISLKVARDRD-PSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           VV+EV+N   QISL   +      +++   V     P +FGR+A Q+A+QVIIQK+++AE
Sbjct: 66  VVDEVDNPDAQISLIDVQKLGFTDVEVNEYVRIEKNPENFGRIAAQTARQVIIQKLKDAE 125

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRVKSY 185
           R   + EF  +VG++++G + + E   V+V L   ++ ++ ++E +  E   PG+R+K Y
Sbjct: 126 RQIIFEEFSGRVGDLVNGIIFKSENDQVLVRLNDRTEAILPKEERVINEKYTPGERLKFY 185

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + DVR+  RGP++++SRTHP  + KL  +EVPEI  GI+++K++ R+ G+RAK+AV + D
Sbjct: 186 LLDVRQTTRGPRIVVSRTHPGLLRKLLELEVPEIQEGIIEIKSIVREAGTRAKVAVQTLD 245

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV-LDED 304
            ++DPVGACVG  G+R++++  EL  EKID+++WS D   FV N+L PA + K+  + E 
Sbjct: 246 INVDPVGACVGNNGARIKSISQELSGEKIDVIIWSSDPLIFVRNSLSPAKIVKIEPILEQ 305

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF 355
              + V    +QLSLAIG+ GQNVRLA++LT W IDI   E + +   +D 
Sbjct: 306 DKAVTVYARPDQLSLAIGKAGQNVRLAARLTSWKIDIKALEPERMPTLQDI 356


>gi|222529041|ref|YP_002572923.1| NusA antitermination factor [Caldicellulosiruptor bescii DSM 6725]
 gi|222455888|gb|ACM60150.1| NusA antitermination factor [Caldicellulosiruptor bescii DSM 6725]
          Length = 357

 Score =  410 bits (1054), Expect = e-112,   Method: Composition-based stats.
 Identities = 134/346 (38%), Positives = 212/346 (61%), Gaps = 8/346 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS----DIRVEINPETGDI 60
           +  EL    D +  E  I++D V SV+  ++  A + + G       +++V I+PE G +
Sbjct: 9   DFQELFSAIDELEREYKIEKDYVYSVLESALLTAYKQVKGIKDKNLSNVKVSIDPEKGSV 68

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            ++   +VVE V++   +ISL+ A+  D    IG +V+  +P   F R A  + +Q +I 
Sbjct: 69  KIYEYRKVVENVKDRKNEISLEDAQKIDKRYKIGDIVAIEIPISQFSRKAAMTVRQTVIG 128

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRP 178
           K+RE +R   + ++  K+  I++G ++R++  NVIV++  G  + ++  +E I  E  +P
Sbjct: 129 KIREKKRSIIFEDYSSKIDNIVTGIIQRIDKKNVIVEIEGGKVEAILPMEEQIPGEEYKP 188

Query: 179 GDRVKSYIYDVR--REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
           G  +K Y+ DV+   +++ P V LSRTHP  + +L   EVPEI  GI+++KA++R+ GSR
Sbjct: 189 GTLMKFYLVDVKIPPKEKEPIVYLSRTHPNLIKRLMENEVPEIQEGIIEIKAIAREAGSR 248

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           +K+AV+S+   +DPVGAC+G +G R+Q V+  L  EKIDIV WS D   F+ NAL PA V
Sbjct: 249 SKVAVYSNSLKVDPVGACIGEKGIRIQNVLKHLNGEKIDIVKWSSDIGEFIKNALSPAEV 308

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
             + L+    +  V+VP  QLSLAIG+ GQN RLA++LTGW IDI 
Sbjct: 309 VHIDLNLIEKKAFVLVPNSQLSLAIGKGGQNARLAAKLTGWKIDIK 354


>gi|312622703|ref|YP_004024316.1| nusa antitermination factor [Caldicellulosiruptor kronotskyensis
           2002]
 gi|312203170|gb|ADQ46497.1| NusA antitermination factor [Caldicellulosiruptor kronotskyensis
           2002]
          Length = 357

 Score =  410 bits (1054), Expect = e-112,   Method: Composition-based stats.
 Identities = 134/346 (38%), Positives = 212/346 (61%), Gaps = 8/346 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS----DIRVEINPETGDI 60
           +  EL    D +  E  I++D V SV+  ++  A + + G       +++V I+PE G +
Sbjct: 9   DFQELFSAIDELEREYKIEKDYVYSVLESALLTAYKQVKGIKDKNLSNVKVSIDPEKGSV 68

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            ++   +VVE V++   +ISL+ A+  D    IG +V+  +P   F R A  + +Q +I 
Sbjct: 69  KIYEYRKVVENVKDRKNEISLEDAQKIDKRYKIGDIVAIEVPISQFSRKAAMTVRQTVIG 128

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRP 178
           K+RE +R   + ++  K+  I++G ++R++  NVIV++  G  + ++  +E I  E  +P
Sbjct: 129 KIREKKRSIIFEDYSSKIDNIVTGIIQRIDKKNVIVEIEGGKVEAILPMEEQIPGEEYKP 188

Query: 179 GDRVKSYIYDVR--REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
           G  +K Y+ DV+   +++ P V LSRTHP  + +L   EVPEI  GI+++KA++R+ GSR
Sbjct: 189 GTLMKFYLVDVKIPPKEKEPIVYLSRTHPNLIKRLMENEVPEIQEGIIEIKAIAREAGSR 248

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           +K+AV+S+   +DPVGAC+G +G R+Q V+  L  EKIDIV WS D   F+ NAL PA V
Sbjct: 249 SKVAVYSNSLKVDPVGACIGEKGIRIQNVLKHLNGEKIDIVKWSSDIGEFIKNALSPAEV 308

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
             + L+    +  V+VP  QLSLAIG+ GQN RLA++LTGW IDI 
Sbjct: 309 VHIDLNLIEKKAFVLVPNSQLSLAIGKGGQNARLAAKLTGWKIDIK 354


>gi|312793236|ref|YP_004026159.1| nusa antitermination factor [Caldicellulosiruptor kristjanssonii
           177R1B]
 gi|312180376|gb|ADQ40546.1| NusA antitermination factor [Caldicellulosiruptor kristjanssonii
           177R1B]
          Length = 357

 Score =  410 bits (1054), Expect = e-112,   Method: Composition-based stats.
 Identities = 137/346 (39%), Positives = 211/346 (60%), Gaps = 8/346 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS----DIRVEINPETGDI 60
           +  EL    D +  E  IDRD V SV+  ++  A + + G       +++V I+PE G +
Sbjct: 9   DFQELFSAIDELEREYKIDRDYVYSVLESALLTAYKQVKGIKDKNLSNVKVSIDPEKGSV 68

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            ++   +VVE V++   +ISL+ A+  D    +G +V+  +P   F R A  + +Q +I 
Sbjct: 69  KIYEYRKVVENVKDRKSEISLEDAQKIDKRYKVGDIVAIEVPISQFSRKAAMTVRQTVIG 128

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRP 178
           K+RE  R   +  +  K+  I++G ++R++  NVIV++  G  + ++  +E IS E  +P
Sbjct: 129 KIREKRRSIIFENYSSKIDNIVTGVIQRIDKKNVIVEIEGGKVEAILPMEEQISGEEYKP 188

Query: 179 GDRVKSYIYDVR--REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
           G  +K YI DV+   +++ P V LSRTHP  + +L   EVPEI  GI+++KA++R+ GSR
Sbjct: 189 GTMMKFYITDVKIPPKEKEPIVYLSRTHPNLIKRLMENEVPEIQEGIIEIKAIAREAGSR 248

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           +K+AV+S+   +DPVGAC+G +G R+Q V+  L  EKIDIV WS D   F+ NAL PA V
Sbjct: 249 SKVAVYSNSLKVDPVGACIGEKGIRIQNVLKHLNGEKIDIVKWSSDIGEFIKNALSPAEV 308

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
             + L+    +  V+VP  QLSLAIG+ GQN RLA++LTGW IDI 
Sbjct: 309 VHIDLNLIEKKAFVLVPNSQLSLAIGKGGQNARLAAKLTGWKIDIK 354


>gi|146297077|ref|YP_001180848.1| NusA antitermination factor [Caldicellulosiruptor saccharolyticus
           DSM 8903]
 gi|145410653|gb|ABP67657.1| NusA antitermination factor [Caldicellulosiruptor saccharolyticus
           DSM 8903]
          Length = 356

 Score =  409 bits (1053), Expect = e-112,   Method: Composition-based stats.
 Identities = 134/348 (38%), Positives = 216/348 (62%), Gaps = 8/348 (2%)

Query: 3   SANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS----DIRVEINPETG 58
           + +  EL    D +  E  I+R+ + SV+  ++  A + + G       +++V I+PE G
Sbjct: 7   TTDFQELFSAIDELEREYKIEREYIYSVLESALLTAYKQVRGIKDKNLSNVKVSIDPEKG 66

Query: 59  DISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           D+ +F   +VVE V++   +IS++ AR  D    +G +V+  +P  DF R A  + +Q +
Sbjct: 67  DVKIFEYKKVVENVKDKRNEISVEDARKIDKRYQVGDIVAIEVPISDFSRKAAMTVRQTV 126

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENL 176
           I K+RE +R+  + ++  K+  I++G ++R++  NVIV++  G  + ++  +E I  E  
Sbjct: 127 IGKIREKKRNIIFEDYSAKIDNIVTGVIQRIDKKNVIVEIEGGKVEAILPMEEQIPGEEY 186

Query: 177 RPGDRVKSYIYDVR--REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
           +PG  +K Y+ DV+   +++ P V LSRTHP  + +L   EVPEI  GI+++K ++R+ G
Sbjct: 187 KPGTMMKFYLVDVKIPPKEKEPIVYLSRTHPNLIKRLMENEVPEIQEGIIEIKGIAREAG 246

Query: 235 SRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA 294
           SR+K+AV+S+   +DPVGAC+G +G R+Q V+  L  EKIDIV WS D   F+ NAL PA
Sbjct: 247 SRSKVAVYSNSLKVDPVGACIGEKGIRIQNVLKYLGSEKIDIVRWSSDIGEFIKNALSPA 306

Query: 295 IVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
            V  + L+    +  V+VP +QLSLAIG+ GQN RLA++LTGW IDI 
Sbjct: 307 EVVHIDLNLVEKKAFVLVPNDQLSLAIGKGGQNARLAAKLTGWKIDIR 354


>gi|54026039|ref|YP_120281.1| transcription elongation factor NusA [Nocardia farcinica IFM 10152]
 gi|54017547|dbj|BAD58917.1| putative transcriptional termination/antitermination factor
           [Nocardia farcinica IFM 10152]
          Length = 342

 Score =  409 bits (1053), Expect = e-112,   Method: Composition-based stats.
 Identities = 132/349 (37%), Positives = 201/349 (57%), Gaps = 32/349 (9%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            +E+ +   A+  +K I  + V+S +  ++  A R   G   + RV+IN  TG + +   
Sbjct: 2   NIEI-EALRAIVADKGISIETVISAIESALLTAYRHTEGHQPNARVDINQRTGAVRVM-- 58

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
                             AR+ D   ++     D   P  FGR+A  +A+QV++Q++R+A
Sbjct: 59  ------------------ARELDADGNVISEWDD--TPEGFGRIAATTARQVVLQRLRDA 98

Query: 126 ERDRQYLEFKDKVGEIISGTVKR----VEYGNVIVDLG----NSDGVIRRDETISRENLR 177
           E ++ + EF    G+I+ G V+R       G V+V +G     ++G+I   E +  E   
Sbjct: 99  ENEKSFGEFSTHEGDIVGGVVQRDARANARGTVVVRIGSELHGTEGLIPPAEQVPGETYE 158

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            GDR+K Y+  V R  RGPQ+ LSRTHP  + +LF +EVPEI +G V++ AV+R+ G R+
Sbjct: 159 HGDRIKCYVVGVSRGPRGPQITLSRTHPNLVRRLFALEVPEIADGSVEIVAVAREAGHRS 218

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S+   ++  GAC+G  G RV+ V++EL  EKIDI+ ++ D ATFV NAL P+ V 
Sbjct: 219 KIAVRSTVPGVNAKGACIGPMGQRVRNVMSELAGEKIDIIDYADDPATFVGNALSPSKVV 278

Query: 298 KV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
            V ++D D     V+VP  QLSLAIG+ GQN RLA++LTGW IDI ++ 
Sbjct: 279 SVTIVDPDARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRSDA 327


>gi|145593916|ref|YP_001158213.1| transcription elongation factor NusA [Salinispora tropica CNB-440]
 gi|145303253|gb|ABP53835.1| transcription termination factor NusA [Salinispora tropica CNB-440]
          Length = 347

 Score =  409 bits (1052), Expect = e-112,   Method: Composition-based stats.
 Identities = 137/346 (39%), Positives = 198/346 (57%), Gaps = 27/346 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           L    A+  E+ I  D +L+ +  ++  A R   G     RVEI+ +TG   +F      
Sbjct: 5   LAALRALEREREIPFDTILAAIETALLTAYRHTEGAQPHARVEIDRKTGAALVF------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A++ +P   +     D   P DFGR+A  +AKQVI+Q++REA  + 
Sbjct: 59  --------------AQEVEPDGGVVREWDD--TPHDFGRIAAMTAKQVILQRLREATDEV 102

Query: 130 QYLEFKDKVGEIISGTVK----RVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            + E+  + G++++G V+    R E G V VDLG  +GV+ + E +  E    G+RV+  
Sbjct: 103 HFGEYVGRDGDLVTGVVQAHEARAEKGIVSVDLGKLEGVLPQSEQVPGEQYAHGERVRCV 162

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V +  RGPQV LSR+HP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ 
Sbjct: 163 VVHVAKGVRGPQVTLSRSHPALVKKLFALEVPEIADGTVEITAIAREAGHRTKIAVRSTA 222

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
           + ++  GAC+G  G RV+AV+ EL  EKIDI+ WS D A FV NAL PA   +V V+D  
Sbjct: 223 AGVNAKGACIGPMGQRVRAVMGELHGEKIDIIDWSEDPAAFVGNALSPAKALRVEVVDLA 282

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
                V VP  QLSLAIGR GQN RLA++LTGW IDI ++ E +  
Sbjct: 283 SRTARVTVPDFQLSLAIGREGQNARLAARLTGWRIDIRSDAEPARP 328


>gi|167751796|ref|ZP_02423923.1| hypothetical protein ALIPUT_00037 [Alistipes putredinis DSM 17216]
 gi|167660037|gb|EDS04167.1| hypothetical protein ALIPUT_00037 [Alistipes putredinis DSM 17216]
          Length = 410

 Score =  409 bits (1052), Expect = e-112,   Method: Composition-based stats.
 Identities = 140/418 (33%), Positives = 232/418 (55%), Gaps = 12/418 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           + L L+         K+ID+  ++ V+ D  + A +  + T  +  V INPE GD+ ++R
Sbjct: 2   DNLNLISNFAEFKELKNIDKATMIGVLEDVFRHALQKQFETDENFDVIINPEKGDLEIWR 61

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VVE+  VEN   QI++   +  DP+ ++G    DP+    FGR AV S +Q +  ++
Sbjct: 62  NRTVVEDGAVENPNMQIAVSEVKAIDPTYEVGDEYVDPIKLESFGRRAVLSLRQNLASRI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNV-IVDLGNSDGVIRRDETISRENLRPGDR 181
            + E+   Y ++ +KVGEII+G V +V    V I+D   ++ ++ + E I  +  R GD 
Sbjct: 122 LDLEKANLYEKYSEKVGEIITGEVYQVWKKEVLILDDEGNELILPKTEQIPNDYYRKGDT 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K+ +  V      P+++LSRT  QF+ +LF  EVPEI++G++ +K + R PG RAK+AV
Sbjct: 182 IKAIVKSVEMNNNQPRIILSRTANQFLERLFEQEVPEIFDGLITLKKIVRIPGERAKVAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  IDPVGACVGM+GSR+ ++V ELR+E ID+V ++ +    +  AL PA ++ + +
Sbjct: 242 ESYDERIDPVGACVGMKGSRIYSIVKELRNENIDVVNYTTNPQLMIQRALNPAKISSITI 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+     V +  +Q+SLAIG+ G N+RL+  LTG+ ID+  E E+      +F +    
Sbjct: 302 DEEKKTASVYLKPDQVSLAIGKGGLNIRLSKMLTGYDIDVYREIEEEDVALTEFAD---- 357

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
                 +D  +   L A G    + +  + + EIA+    + E A ++    +   E 
Sbjct: 358 -----EIDGWVIDALKACGCDTAKSVLELPVEEIAARADLELEQAQKVVEILKAEFEE 410


>gi|29829095|ref|NP_823729.1| transcription elongation factor NusA [Streptomyces avermitilis
           MA-4680]
 gi|29606201|dbj|BAC70264.1| putative transcriptional termination/antitermination factor
           [Streptomyces avermitilis MA-4680]
          Length = 328

 Score =  409 bits (1052), Expect = e-112,   Method: Composition-based stats.
 Identities = 134/341 (39%), Positives = 197/341 (57%), Gaps = 21/341 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  EK I  D+++  +  ++  A     G+    RVE+N ETG ++++      
Sbjct: 5   MSALRGLVREKEISFDLLVEAIESALLIAYHRTEGSRRHARVELNRETGHVTVWAK---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
              E+       + AR+ D              P  FGR+A  +AKQVI+Q++R+AE D 
Sbjct: 61  ---EDPEDLEEGQEAREFDD------------TPSGFGRIAATTAKQVILQRLRDAEDDA 105

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              E+  + G+I++G V++  +  NV+VD+G  + ++   E +  E  + G R++SY+  
Sbjct: 106 TLGEYAGREGDIVTGVVQQGRDPKNVLVDIGKLEAILPVQEQVPGETYQHGLRLRSYVVR 165

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  RGP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S +
Sbjct: 166 VAKGVRGPSVTLSRTHPNLVKKLFALEVPEIADGSVEISAIAREAGHRTKIAVRSTRSGL 225

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  G RV+ V+ EL  EKIDIV WS D A  V NAL PA V+KV V+D     
Sbjct: 226 NAKGACIGPMGGRVRNVMAELNGEKIDIVDWSDDPAEMVANALSPARVSKVEVVDLAARS 285

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
             V VP  QLSLAIG+ GQN RLA++LTGW IDI  + E S
Sbjct: 286 ARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTEQS 326


>gi|302558072|ref|ZP_07310414.1| transcription termination factor NusA [Streptomyces griseoflavus
           Tu4000]
 gi|302475690|gb|EFL38783.1| transcription termination factor NusA [Streptomyces griseoflavus
           Tu4000]
          Length = 332

 Score =  409 bits (1052), Expect = e-112,   Method: Composition-based stats.
 Identities = 131/347 (37%), Positives = 199/347 (57%), Gaps = 21/347 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  EK I  ++++  +  ++  A     G+    RVE+N ETG ++++      
Sbjct: 5   MSALRLLVREKEISLELLVEAIESALLIAYHRTEGSRRHARVELNRETGHVTVWAK---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
              E+       + AR+ D              P  FGR+A  +AKQVI+Q++R+AE D 
Sbjct: 61  ---EDPEDLEEGQEAREFDD------------TPSGFGRIAATTAKQVILQRLRDAEDDA 105

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              E+  + G+I++G V++  +  NV+VD+G  + ++   E +  E    G R++SY+  
Sbjct: 106 TLGEYAGREGDIVTGVVQQGRDPKNVLVDIGKLEAILPVQEQVPGETYPHGMRLRSYVVR 165

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  RGP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S +
Sbjct: 166 VAKGVRGPSVTLSRTHPNLVKKLFALEVPEIADGSVEISAIAREAGHRTKIAVRSTRSGL 225

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  G RV+ V+ EL  EKIDIV WS D A  V NAL PA V++V ++D     
Sbjct: 226 NAKGACIGPMGGRVRNVMGELNGEKIDIVDWSDDPAEMVANALSPARVSRVDIVDMAARS 285

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
             V VP  QLSLAIG+ GQN RLA++LTGW IDI  + E S ++  +
Sbjct: 286 ARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTEQSGDQAGE 332


>gi|46198657|ref|YP_004324.1| transcription elongation factor NusA [Thermus thermophilus HB27]
 gi|55980670|ref|YP_143967.1| transcription elongation factor NusA [Thermus thermophilus HB8]
 gi|1352608|sp|P48514|NUSA_THET8 RecName: Full=Transcription elongation protein nusA
 gi|642364|emb|CAA88036.1| NusA protein [Thermus thermophilus]
 gi|46196280|gb|AAS80697.1| N utilization substance protein A [Thermus thermophilus HB27]
 gi|55772083|dbj|BAD70524.1| N utilization substance protein A (NusA) [Thermus thermophilus HB8]
          Length = 387

 Score =  409 bits (1051), Expect = e-112,   Method: Composition-based stats.
 Identities = 136/351 (38%), Positives = 213/351 (60%), Gaps = 11/351 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY----------GTMSDIRVEINP 55
             E ++    +A E+ +  + +L    ++++KA               G   ++ V I+P
Sbjct: 2   NREFVEAMQHLALERGVSVEEILEAFKEALRKAYIKRQKGYKKEEIDQGKGPEVDVYIDP 61

Query: 56  ETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAK 115
            +G I +  +  VVE+VE+   +I+L  A   DP + +G  +  P+ P +  R+A+Q  +
Sbjct: 62  NSGRIEMVEVRRVVEKVEDPDKEIALAEALQYDPEVQVGDEMEFPINPEELSRMAIQDLR 121

Query: 116 QVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRE 174
           Q++ Q+++E+ER+R Y E+KDK G++++G V RV+  GNV V+LG  +  + R E I  E
Sbjct: 122 QILTQRLKESERNRIYNEYKDKEGQVLTGVVTRVDNRGNVFVELGRGEAYLPRSEQIPTE 181

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
              PG R+K Y+  V +  +GP +L+SR H + +  L   EVPEI  GIV++KA++R+PG
Sbjct: 182 KYHPGQRIKVYLKKVDKSAKGPSLLVSRAHEKLLEHLLKQEVPEIAEGIVEIKAIAREPG 241

Query: 235 SRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA 294
            R+K+AV S + ++DP+GAC+G +G R+QAV  EL  EK+DI++WS D   F+ NAL PA
Sbjct: 242 RRSKVAVTSHNPNVDPIGACIGHKGQRIQAVSAELGREKVDIILWSKDPKEFIRNALSPA 301

Query: 295 IVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
            V  + LD +  +  V V K+Q SLAIG  GQNVRLAS+LTG+ I     E
Sbjct: 302 QVGSIELDPEAKKARVKVTKDQHSLAIGTGGQNVRLASKLTGYDIHFEEAE 352


>gi|302554522|ref|ZP_07306864.1| transcription termination factor NusA [Streptomyces
           viridochromogenes DSM 40736]
 gi|302472140|gb|EFL35233.1| transcription termination factor NusA [Streptomyces
           viridochromogenes DSM 40736]
          Length = 340

 Score =  409 bits (1051), Expect = e-112,   Method: Composition-based stats.
 Identities = 132/352 (37%), Positives = 200/352 (56%), Gaps = 21/352 (5%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  EK I  D+++  +  ++  A     G+    RVE+N ETG ++++      
Sbjct: 5   MSALRGLVREKEISFDLLVEAIESALLIAYHRTEGSRRHARVELNRETGHVTVWAK---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
              E+       + AR+ D              P  FGR+A  +AKQVI+Q++R+AE D 
Sbjct: 61  ---EDPDDLEEGQEAREFDD------------TPTGFGRIAATTAKQVILQRLRDAEDDA 105

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              E+  + G+I++G V++  +  NV+VD+G  + ++   E +  E    G R++SY+  
Sbjct: 106 TLGEYAGREGDIVTGVVQQGRDPKNVLVDIGKLEAILPVQEQVPGETYGHGMRLRSYVVR 165

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  RGP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S +
Sbjct: 166 VAKGVRGPSVTLSRTHPNLVKKLFALEVPEIADGSVEISAIAREAGHRTKIAVRSTRSGL 225

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  G RV+ V+ EL  EKIDIV WS D A  V NAL PA V+KV ++D     
Sbjct: 226 NAKGACIGPVGGRVRNVMGELNGEKIDIVDWSEDPAEMVANALSPARVSKVEIVDMATRS 285

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
             V VP  QLSLAIG+ GQN RLA++LTGW IDI  + E +  +  + + + 
Sbjct: 286 ARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTEPAGEQSGERSGQR 337


>gi|89898348|ref|YP_515458.1| transcription elongation factor NusA [Chlamydophila felis Fe/C-56]
 gi|89331720|dbj|BAE81313.1| N utilization protein A [Chlamydophila felis Fe/C-56]
          Length = 434

 Score =  409 bits (1051), Expect = e-112,   Method: Composition-based stats.
 Identities = 149/424 (35%), Positives = 240/424 (56%), Gaps = 9/424 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             +L+ I D +  EK I R V++  +  +++ AA+      +++ V INP TGDI +F  
Sbjct: 2   NKDLVAIFDYMEKEKGIQRPVIIGAIESALKIAAKKTLRDDANVSVNINPRTGDIEVFCE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            E+VE  EN + +I L  AR+ DP   IG  +  P     FGR+A  +A+Q+I QK+R A
Sbjct: 62  KEIVEVCENPSKEIPLDKAREYDPECQIGQYMDVPFVSEHFGRIAAHAARQIIGQKLRHA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           ERD  Y E++ +V EI+SG VKR   G N+++DLG  +G++        E  + GD++ +
Sbjct: 122 ERDVIYEEYRHRVNEILSGVVKRFAKGSNLVIDLGKVEGLLPARYYPKTEKHKVGDKIYA 181

Query: 185 YIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            +Y+V   E  G +V+LSR+HP+F+ +LF  EVPE+ +G V++  ++R+ G R KLAV S
Sbjct: 182 LLYEVQESENGGAEVILSRSHPEFVKQLFLQEVPELEDGSVEIIKIAREAGYRTKLAVSS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D   DPVGA VGMRGSRV+ ++ EL DEKIDIV +SP +   + N L P  + K+ + E
Sbjct: 242 TDPKTDPVGAFVGMRGSRVKNIIRELNDEKIDIVNYSPVTTELLQNLLCPIEIQKIAILE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI-------NRQKDFN 356
           D   I ++V     +  IG+RG N RL SQ+  + +++    E +           +  N
Sbjct: 302 DDKVIAIVVHDADYATVIGKRGINARLISQILDYELEVQRMSEYNKLLEIQRLQLAEFDN 361

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
            +    +    + +++   LV  G+  + ++     +++AS+ G   E A +I  +  +Y
Sbjct: 362 PQLDEPLDMEGISKLVVQNLVHAGYDTIRKVLLASANDLASVPGISLELAYKILEQVSKY 421

Query: 417 LEGI 420
            EG 
Sbjct: 422 GEGK 425


>gi|315652148|ref|ZP_07905146.1| transcription termination factor NusA [Eubacterium saburreum DSM
           3986]
 gi|315485640|gb|EFU76024.1| transcription termination factor NusA [Eubacterium saburreum DSM
           3986]
          Length = 386

 Score =  409 bits (1051), Expect = e-112,   Method: Composition-based stats.
 Identities = 152/373 (40%), Positives = 233/373 (62%), Gaps = 8/373 (2%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEV------E 73
           K+I +  +L  + +S+  A ++ +GT  +++V +NP T D S+ +  EVVE +      E
Sbjct: 16  KNISKAAILEAIENSLISACKNSFGTADNVKVSVNPTTCDYSIIQAKEVVESLGNKPSLE 75

Query: 74  NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
           +   +ISL  AR ++P++ +G  V  P+   +FGR+A   AK VI+QK+RE ER   + +
Sbjct: 76  DRATKISLAEARMQNPNLGVGDTVLVPVISKEFGRIAAGVAKNVILQKIREEERKVIFND 135

Query: 134 FKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
           +  K  +I+SG V R    N+ ++LG  D V+   E +  E+L+ GDR+K ++ +V+   
Sbjct: 136 YYMKERDIVSGVVTRFMGKNIAINLGKIDAVLAESEQVKGEDLKLGDRLKVFVLEVKDNP 195

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
           +GP++ +SRTHP+F+ +LF  +VPEI +G+V++K+++R+ GSR K+AV S +  IDPVGA
Sbjct: 196 KGPRISVSRTHPEFVKRLFEAQVPEIRDGVVEIKSIAREAGSRTKIAVCSHEPDIDPVGA 255

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVP 313
           CVG+ G RV AVV ELRDEK+DIV W  + A  + NAL PA V  VV DE+    +VIVP
Sbjct: 256 CVGVDGVRVNAVVEELRDEKVDIVNWDDNPAYLIENALSPAKVIAVVADEETKEADVIVP 315

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIA 373
             QLSLAIG+ GQN RLA++LTG+ IDI +E +       D  + ++      + +E  A
Sbjct: 316 DYQLSLAIGKEGQNARLAARLTGYKIDIKSESQARELGVFDSLDGSENMSANTDNNED-A 374

Query: 374 HLLVAEGFADVEE 386
                 G  D+EE
Sbjct: 375 EAEKENG-NDIEE 386


>gi|331002483|ref|ZP_08326001.1| transcription termination factor NusA [Lachnospiraceae oral taxon
           107 str. F0167]
 gi|330410299|gb|EGG89733.1| transcription termination factor NusA [Lachnospiraceae oral taxon
           107 str. F0167]
          Length = 395

 Score =  408 bits (1050), Expect = e-111,   Method: Composition-based stats.
 Identities = 150/358 (41%), Positives = 227/358 (63%), Gaps = 6/358 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEV------E 73
           K+I +  +L  + +S+  A ++ +GT  +++V +NP+T D S+ +  EVVE +      E
Sbjct: 16  KNISKAAILEAIENSLISACKNNFGTADNVKVSVNPDTCDYSIIQAKEVVETLGNKPTIE 75

Query: 74  NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
           +   +ISL  AR ++P++ +G  V  P+   +FGR+A   AK VI+QK+RE ER   + +
Sbjct: 76  DKATKISLAEARMKNPNLSVGDTVLVPVISKEFGRIAAGVAKNVILQKIREEERKVIFND 135

Query: 134 FKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
           +  K  +I+SG V R    N+ ++LG  D V+   E +  E L+ GDR+K ++ +V+   
Sbjct: 136 YYMKERDIVSGAVTRFMGKNIAINLGRIDAVLAESEQVKSEELKLGDRLKVFVLEVKDNP 195

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
           +GP++ +SRTHP+F+ +LF  EVPEI +G+V++K++SR+ GSR K+AVFS ++ IDPVGA
Sbjct: 196 KGPRISVSRTHPEFVKRLFESEVPEIRDGVVEIKSISREAGSRTKIAVFSHEADIDPVGA 255

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVP 313
           CVG+ G RV AVV ELR EK+DIV W  +    + NAL PA V  VV DE+    +VIVP
Sbjct: 256 CVGVDGVRVNAVVEELRGEKVDIVNWDDNPGYLIENALSPAKVIAVVADEETKEADVIVP 315

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEI 371
             QLSLAIG+ GQN RLA++LTG+ IDI +E +       D  + +      + VDE 
Sbjct: 316 DYQLSLAIGKEGQNARLAARLTGYKIDIKSESQARELGVFDSLDGSDDISDDMPVDEE 373


>gi|57234284|ref|YP_181708.1| transcription elongation factor NusA [Dehalococcoides ethenogenes
           195]
 gi|57224732|gb|AAW39789.1| N utilization substance protein A [Dehalococcoides ethenogenes 195]
          Length = 491

 Score =  408 bits (1050), Expect = e-111,   Method: Composition-based stats.
 Identities = 140/369 (37%), Positives = 223/369 (60%), Gaps = 2/369 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL-YGTMSDIRVEINPETGDISLFR 64
           + + L     ++ EK++ ++VVL+ +  ++  A R   +    +I V+I+  TG + +  
Sbjct: 2   KSDFLLAITQLSAEKNLPKEVVLATVESALVSAYRKESFAPNQNIAVKIDQLTGKVKVMA 61

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
              VVE+V +   ++ L  A+       IG ++     P D GR+A Q+AKQVI+Q++ E
Sbjct: 62  EKLVVEKVTDSRQEMRLLEAKRLKADAKIGDLMMVEDTPADAGRIAAQTAKQVILQRLHE 121

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AE    + E+  K G+ + G V+R+E   + VD+G  + ++   E    E  R G R+K 
Sbjct: 122 AENTAIFDEYASKAGDTLVGVVQRIEPKQITVDIGRVEAIMPASEQAYGERYRAGQRIKV 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+ DV +  +GP V++SR+HP  + +LF MEVPE++N +V++KAV+R+ GSR+K+AV + 
Sbjct: 182 YVVDVAKTAKGPAVIVSRSHPGLVRRLFEMEVPEVFNQLVEIKAVAREAGSRSKVAVGAL 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
              IDPVG CVG+RG R+Q +V+EL  EKID+V W  + A F+ N+L PA VTKV+L+E 
Sbjct: 242 QPGIDPVGCCVGLRGIRIQNIVSELNGEKIDVVAWDSEIANFIANSLSPAQVTKVILNEA 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
                V++P  QLSL IG+ GQNVRLA +LTGW IDI +  ++ + R ++   R Q   +
Sbjct: 302 EKSAIVVIPDRQLSLGIGKEGQNVRLAVKLTGWRIDIKSASDEEVERAEETA-RKQGETE 360

Query: 365 AINVDEIIA 373
              + E + 
Sbjct: 361 KPAITEKVI 369


>gi|290957021|ref|YP_003488203.1| transcriptional termination/antitermination factor [Streptomyces
           scabiei 87.22]
 gi|260646547|emb|CBG69644.1| putative transcriptional termination/antitermination factor
           [Streptomyces scabiei 87.22]
          Length = 328

 Score =  408 bits (1049), Expect = e-111,   Method: Composition-based stats.
 Identities = 134/339 (39%), Positives = 196/339 (57%), Gaps = 21/339 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  EK I  D+++  +  ++  A     G+    RVE+N ETG ++++      
Sbjct: 5   MSALRGLVREKEISFDLLVEAIEAALLIAYHRTEGSRRHARVELNRETGHVTVWAK---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
              E+       + AR  D              P DFGR+A  +AKQVI+Q++R+AE D 
Sbjct: 61  ---EDPEDLEEGQEARAFDD------------TPSDFGRIAATTAKQVILQRLRDAEDDA 105

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              E+  + G+I++G V++  +  NV+VD+G  + ++   E +  E  + G R++SY+  
Sbjct: 106 TLGEYAGREGDIVTGVVQQGRDPKNVLVDIGKLEAILPVQEQVPGETYQHGMRLRSYVVR 165

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  RGP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S +
Sbjct: 166 VAKGVRGPSVTLSRTHPSLVKKLFALEVPEIADGSVEIAAIAREAGHRTKIAVRSTRSGL 225

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  G RV+ V+ EL  EKIDIV WS D A  V NAL PA V+KV V+D     
Sbjct: 226 NAKGACIGPMGGRVRNVMGELNGEKIDIVDWSDDPAEMVANALSPARVSKVEVVDLAARS 285

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             V VP  QLSLAIG+ GQN RLA++LTGW IDI  + E
Sbjct: 286 ARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTE 324


>gi|291513589|emb|CBK62799.1| transcription termination factor NusA [Alistipes shahii WAL 8301]
          Length = 409

 Score =  408 bits (1049), Expect = e-111,   Method: Composition-based stats.
 Identities = 139/417 (33%), Positives = 232/417 (55%), Gaps = 12/417 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           + L L+         K+ID+  ++ V+ D  + A +  Y T  +  V INPE GD+ ++R
Sbjct: 2   DNLNLISNFAEFKELKNIDKSTMIGVLEDVFRHALQKQYETDENFDVIINPEKGDLEIWR 61

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VVE+  VE+   QIS+   +  DP+ +IG   +D +    FGR AV S +Q +  ++
Sbjct: 62  NRTVVEDDAVEDPNAQISVSEVKAIDPTYEIGDEYADEIKLSSFGRRAVLSLRQNLASRI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNV-IVDLGNSDGVIRRDETISRENLRPGDR 181
            + E+   Y ++ +KVG+I++G V +V    V I+D   ++ ++ + E I  +  R GD 
Sbjct: 122 LDLEKASLYEKYSEKVGDIVTGEVYQVWKKEVLILDDEENELILPKAEQIPNDFYRKGDT 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K+ +  V      P+++LSRT  QF+ +LF  EVPEI++G++ +K + R PG RAK+AV
Sbjct: 182 IKAIVKSVEMNNNQPRIILSRTANQFLERLFEQEVPEIFDGLITIKKIVRIPGERAKVAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  IDPVGACVGM+GSR+ ++V ELR+E ID+V ++ +    +  +L PA V+ + +
Sbjct: 242 ESYDERIDPVGACVGMKGSRIYSIVKELRNENIDVVNYTANPTLMIQRSLNPAKVSSITI 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+     V +  +Q+SLAIG+ G N+RL+  LTG+ ID+  E E+      +F +    
Sbjct: 302 DEEKMTASVYLKPDQVSLAIGKGGLNIRLSKMLTGYDIDVYREVEEEDVALTEFAD---- 357

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
                 +D  +   L A G    + +  + + EIA+    + E A ++    +   E
Sbjct: 358 -----EIDGWVIDALKAAGCDTAKSVLELPVEEIAARADLELEQAQKVVEILKAEFE 409


>gi|294055327|ref|YP_003548985.1| transcription termination factor NusA [Coraliomargarita akajimensis
           DSM 45221]
 gi|293614660|gb|ADE54815.1| transcription termination factor NusA [Coraliomargarita akajimensis
           DSM 45221]
          Length = 416

 Score =  407 bits (1048), Expect = e-111,   Method: Composition-based stats.
 Identities = 153/414 (36%), Positives = 245/414 (59%), Gaps = 1/414 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L + + +  EK IDR  +++ ++ +I  AA+       DIRVEINP TG +  +  LE
Sbjct: 4   EILSVLEYMEKEKGIDRADMITAISAAIASAAQKGVSAGQDIRVEINPRTGALKAWSRLE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+ V +   +I ++ AR  DP  +IG V+   + P   GR+A Q+A+Q I+Q++R+ E+
Sbjct: 64  VVDSVSDQALEIHIEKARQIDPDAEIGQVIEKEMDPAYLGRIAAQTARQAIMQRIRQFEK 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           DR Y +FKD VG+I++GTV+R E G++I+DLG ++ ++   E +  E+   GD ++  + 
Sbjct: 124 DRIYDDFKDTVGDIVTGTVRRRERGDLIIDLGKAEAILPPRERVPGEDYSIGDSIRCLLL 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            + +  RGP ++LSR++  F+ +LF +EV EI +G V ++A++R+ G R K+AV S+D  
Sbjct: 184 KIEQTNRGPDIILSRSNLNFVRRLFELEVTEIADGTVTIEAMAREAGYRTKIAVHSADPK 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVGACVG RG+RV+ +V EL  EKIDI+    D    +  ALRPA+   V L++   R
Sbjct: 244 VDPVGACVGARGARVKTIVRELGGEKIDIIRHFTDPVQMLEEALRPAVPKNVRLNDVERR 303

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           +   V ++ LS+AIGRRG N +L S+L GW +DI  EE+++I   +   +  Q       
Sbjct: 304 MHFEVAEDDLSIAIGRRGFNAKLTSRLLGWKLDIGKEEKEAIGFDEKIAKAIQGITVIPG 363

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           ++  IA  LV  G    E    V  +++    GF    A +I  +   Y +   
Sbjct: 364 IEPAIAQRLVGIGLISPEAFEGVAANDLVDA-GFTAAEADDIISKVAAYAQSNA 416


>gi|325126000|gb|ADY85330.1| Transcription termination-antitermination factor [Lactobacillus
           delbrueckii subsp. bulgaricus 2038]
          Length = 468

 Score =  407 bits (1048), Expect = e-111,   Method: Composition-based stats.
 Identities = 140/377 (37%), Positives = 222/377 (58%), Gaps = 8/377 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+  D +   K I +DV++  M  ++  A +  YG   ++ ++ N + GD  +  L
Sbjct: 64  SKEMLEAFDVLEKTKGIKQDVIVEAMKAALAAAYKKNYGLAENVEIDFNEKKGDFKVMAL 123

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   ++SLK A   + + ++G  +   + P +FGR A  +AKQV++Q++REA
Sbjct: 124 KTVVDEVQDDRVEVSLKDALAINRAYEVGDTIKFEVTPKNFGRTAAATAKQVVMQRLREA 183

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVI-RRDETISRENLRPGDRVKS 184
           E      E+     E+++GTV+R +   V V++GN + V+  + +TI  E+  P DRV+ 
Sbjct: 184 ENAHIVNEYSQYEDELVTGTVERTDNRFVYVNIGNVEAVMDIKCDTIPGEHYNPQDRVRV 243

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V  + +G Q+ +SRT P  + + F  EVPEI++G V++ +++R+ G R K+AV S+
Sbjct: 244 LVTKVGADGKGAQIRVSRTPPDVVKRFFEQEVPEIFDGTVEIMSIAREAGERTKIAVKSN 303

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--D 302
           D +IDPVG CVG RGSRVQ VV  L  E IDIV +  D + ++ NAL PA V  V    +
Sbjct: 304 DPNIDPVGTCVGPRGSRVQNVVNALGGENIDIVQYEEDPSDYIANALNPAEVIAVQFEDE 363

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           +D  +  VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E     + +  + T+  
Sbjct: 364 DDERKAFVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESEVEFVDESEVEDETEVA 423

Query: 363 MQAINVDEIIAHLLVAE 379
                 D+ +    V E
Sbjct: 424 E-----DQDLQQAAVEE 435


>gi|329936656|ref|ZP_08286363.1| transcriptional termination/antitermination factor [Streptomyces
           griseoaurantiacus M045]
 gi|329303886|gb|EGG47769.1| transcriptional termination/antitermination factor [Streptomyces
           griseoaurantiacus M045]
          Length = 330

 Score =  407 bits (1047), Expect = e-111,   Method: Composition-based stats.
 Identities = 129/345 (37%), Positives = 199/345 (57%), Gaps = 21/345 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  EK I  D+++  +  ++  A     G+    RVE++ ++G ++++      
Sbjct: 5   MSALRGLVREKEISFDLLVEAIESALLIAYHRTDGSRRHARVELDRDSGHVTVWAK---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
           E+ E+      L+  ++                P  FGR+A  +AKQVI+Q++R+AE D 
Sbjct: 61  EDPED------LEEGQEPR---------EFDDTPSGFGRIAATTAKQVILQRLRDAEDDA 105

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              E+  + G+I++G V++  +  NV+VD+G  + ++   E +  E+ + G R++SY+  
Sbjct: 106 TLGEYAGREGDIVTGVVQQGRDPKNVLVDIGKLEAILPVQEQVPGESYQHGMRLRSYVVR 165

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  RGP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S +
Sbjct: 166 VAKGVRGPSVTLSRTHPNLVKKLFALEVPEIADGSVEIAAIAREAGHRTKIAVRSTRSGL 225

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  G RV+ V+ EL  EKIDIV WS D A  V NAL PA V+ V V+D     
Sbjct: 226 NAKGACIGPMGGRVRNVMGELNGEKIDIVDWSDDPAEMVANALSPARVSAVDVVDLAARS 285

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
             V VP  QLSLAIG+ GQN RLA++LTGW IDI  + E +  R 
Sbjct: 286 ARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTEPAEPRD 330


>gi|313158663|gb|EFR58052.1| transcription termination factor NusA [Alistipes sp. HGB5]
          Length = 410

 Score =  407 bits (1047), Expect = e-111,   Method: Composition-based stats.
 Identities = 139/418 (33%), Positives = 233/418 (55%), Gaps = 12/418 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           + L L+         K+ID+  ++ V+ D  + A +  Y T  +  V INPE GD+ ++R
Sbjct: 2   DNLNLISNFAEFKELKNIDKSTMIGVLEDVFRHALQKQYETDENFDVIINPEKGDLEIWR 61

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VVE+  VE+   QI++   +  DP+ +IG   +D +    FGR AV S +Q +  ++
Sbjct: 62  NRTVVEDGAVEDPNAQIAVSEVKAIDPTYEIGDEYADEIKLSSFGRRAVLSLRQNLASRI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNV-IVDLGNSDGVIRRDETISRENLRPGDR 181
            + E+   Y ++ +KVGEI++G V +V    V I+D   ++ ++ + E I  +  R GD 
Sbjct: 122 LDLEKASLYEKYSEKVGEIVTGEVYQVWKKEVLILDDEENELILPKAEQIPNDFYRKGDT 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K+ +  V      P+++LSRT  QF+ +LF  EVPEI++G++ +K + R PG RAK+AV
Sbjct: 182 IKAIVKSVEMNNNQPRIILSRTANQFLERLFEQEVPEIFDGLITIKKIVRIPGERAKVAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  IDPVGACVGM+GSR+ ++V ELR+E ID+V ++ + +  +  AL PA ++ + +
Sbjct: 242 ESYDERIDPVGACVGMKGSRIYSIVKELRNENIDVVNYTANPSLMIQRALNPAKISSITI 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+     V +  +Q+SLAIG+ G N+RL+  LTG+ ID+  E E+      +F +    
Sbjct: 302 DEEKMTASVYLKPDQVSLAIGKGGLNIRLSKMLTGYDIDVYREVEEEDVALTEFAD---- 357

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
                 +D  I   L + G    + +  + + EIA+    + E A ++    +   E 
Sbjct: 358 -----EIDGWIIDALKSVGCDSAKSVLELPVEEIAARADLELEQAQKVVAILKAEFEE 410


>gi|329942818|ref|ZP_08291597.1| transcription termination factor NusA [Chlamydophila psittaci
           Cal10]
 gi|332287410|ref|YP_004422311.1| transcription elongation factor NusA [Chlamydophila psittaci 6BC]
 gi|313847990|emb|CBY16987.1| N utilization substance protein A [Chlamydophila psittaci RD1]
 gi|325507005|gb|ADZ18643.1| transcription elongation factor NusA [Chlamydophila psittaci 6BC]
 gi|328815078|gb|EGF85067.1| transcription termination factor NusA [Chlamydophila psittaci
           Cal10]
 gi|328914659|gb|AEB55492.1| N utilization substance protein A [Chlamydophila psittaci 6BC]
          Length = 434

 Score =  407 bits (1047), Expect = e-111,   Method: Composition-based stats.
 Identities = 149/424 (35%), Positives = 241/424 (56%), Gaps = 9/424 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             +L+ I D +  EK I R V++  +  +++ AA+      +++ V INP+TGDI +F  
Sbjct: 2   NKDLVAIFDYMEKEKGIQRPVIIGAIESALKIAAKKTLRDDANVSVNINPKTGDIEVFCE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            E+VE  EN + +I L  AR+ DP  +IG  +  P     FGR+A  +A+Q+I QK+R A
Sbjct: 62  KEIVEVCENPSKEIPLDKAREYDPECEIGQYMDVPFVSEHFGRIAAHAARQIIGQKLRHA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           ERD  Y E++ +V EI+SG VKR   G N+I+DLG  +G++        E  + GD++ +
Sbjct: 122 ERDVIYEEYRHRVNEILSGVVKRFAKGSNLIIDLGKVEGLLPARCYPKTEKHKVGDKIYA 181

Query: 185 YIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            +Y+V   E  G +V+LSR+HP+F+ +LF  EVPE+  G V++  ++R+ G R K+AV S
Sbjct: 182 LLYEVQESENGGAEVILSRSHPEFVKQLFLQEVPELEEGSVEIVKIAREAGYRTKIAVSS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           SD   DPVGA VGMRGSRV+ ++ EL DEKIDIV +SP +   + N L P  + K+ + E
Sbjct: 242 SDPKTDPVGAFVGMRGSRVKNIIRELNDEKIDIVNYSPVTTELLQNLLCPIEIQKIAILE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI-------NRQKDFN 356
           D   I ++V     +  IG+RG N RL SQ+  + +++    E +           +  +
Sbjct: 302 DDKVIAIVVQDADYATVIGKRGINARLISQILDYELEVQRMSEYNKLLEIQRLQLAEFDS 361

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
                 ++   + +++   LV  G+  + ++     +++AS+ G   E A +I  +  +Y
Sbjct: 362 PLLDEPLEMEGISKLVVQNLVHAGYDTIRKVLLASANDLASVPGISLELAYKILEQVSKY 421

Query: 417 LEGI 420
            EG 
Sbjct: 422 GEGK 425


>gi|189485237|ref|YP_001956178.1| transcription antitermination factor NusA [uncultured Termite group
           1 bacterium phylotype Rs-D17]
 gi|170287196|dbj|BAG13717.1| transcription antitermination factor NusA [uncultured Termite group
           1 bacterium phylotype Rs-D17]
          Length = 418

 Score =  407 bits (1047), Expect = e-111,   Method: Composition-based stats.
 Identities = 142/389 (36%), Positives = 238/389 (61%), Gaps = 1/389 (0%)

Query: 30  VMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDP 89
           V+ +++  A +   G   ++  ++NPE G+++   +  VV++V N   +I ++ A+  D 
Sbjct: 28  VIENALVSAYKKHVGKNVNVEAKVNPELGEMTASVVKVVVKDVVNPLLEICVQDAKKFDQ 87

Query: 90  SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV 149
           S++IG  V  PL   DF R+A Q+AKQVI+QK+RE+ERD  + E K+K+G+I +G + R+
Sbjct: 88  SVEIGTEVRIPLDTRDFSRIAAQTAKQVIVQKIRESERDSLFDEMKEKIGQIANGAIYRI 147

Query: 150 EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMV 209
              N+IVDLG ++ ++   E + +E    G  +K+ I  V +  +G  V+LSRT  + + 
Sbjct: 148 TNRNLIVDLGKTEAILPSSEQVFKEKFSVGQYIKAVIIKVEKSVKGSGVVLSRTSIELVK 207

Query: 210 KLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTEL 269
           +LF +EVPEIY  IV++  V R+PG R K+ V S +  +DPVGACVG++G+RV+ ++ EL
Sbjct: 208 RLFELEVPEIYEKIVEIVNVVREPGVRTKITVLSHNPKVDPVGACVGVKGARVKPIIDEL 267

Query: 270 RDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNV 328
           R E+ID+V +S D A ++ +A+ PA +  V  + E+  + EV+V  + L LAIG+ G NV
Sbjct: 268 RGERIDLVSYSVDPAKYIASAMSPAKIVSVTTISEEEKKAEVLVTDDMLFLAIGKNGHNV 327

Query: 329 RLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELA 388
           RLA++LTGW ID+ +E +      +   ++ + F +     E I  +LV  G  DVE+L+
Sbjct: 328 RLAAKLTGWHIDVKSEGQKKQEGNERIEKQAEVFEKLEGFSERIIKMLVKAGITDVEKLS 387

Query: 389 CVKISEIASIEGFDEETAVEIQGRAREYL 417
            +    + ++ G   +TA +I   A+  +
Sbjct: 388 LLTTEYLITLPGIGHKTAEKIIEVAKNSI 416


>gi|325110092|ref|YP_004271160.1| NusA antitermination factor [Planctomyces brasiliensis DSM 5305]
 gi|324970360|gb|ADY61138.1| NusA antitermination factor [Planctomyces brasiliensis DSM 5305]
          Length = 496

 Score =  407 bits (1046), Expect = e-111,   Method: Composition-based stats.
 Identities = 150/422 (35%), Positives = 242/422 (57%), Gaps = 38/422 (9%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  E+L+I DA+  +K ID+++V   +  +I  A R  YG   ++ V I+  +G      
Sbjct: 2   NASEVLRIVDAIHRDKGIDKEIVFEGIEQAILTALRKYYGDEDELIVLIDRNSG------ 55

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
                                   PS+   G     L P   GR+A Q+AKQV+IQK+RE
Sbjct: 56  -----------------------APSVQHNGEY---LDPDILGRIAAQTAKQVMIQKIRE 89

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AERD  Y EF ++  ++++GTV R+E+G   V++G  + ++ R E I  E+ R  +R+++
Sbjct: 90  AERDALYDEFIEQKSQLLTGTVTRLEHGVATVNIGKVEAILPRSEQIPGESHRVNERIRA 149

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            I DVR+     +++LSR HP F+ +LF +E+PEI   +++V++++R+ G R K+AV   
Sbjct: 150 VITDVRKAGSRIKIVLSRVHPDFVRRLFEVEIPEIAENVIEVRSLAREAGYRTKIAVSCY 209

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D+SID VGACVG+RG+R++ +V EL  E+IDIV W+      + NAL+PA V  V+L   
Sbjct: 210 DNSIDAVGACVGVRGARIRNIVDELSGERIDIVRWNDSLQILIPNALQPAEVEDVILCPM 269

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
           +GR+ V+V  +QLSLAIG++GQNVRLAS+L GW I+++T +E      +        F +
Sbjct: 270 LGRVIVLVRDDQLSLAIGKKGQNVRLASKLVGWDIEVMTRDE----LDEQLERSVIAFSE 325

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
              V E +A  LV++GF   ++L+ ++   +  + G  +E   EI   A    E + +  
Sbjct: 326 VPLVTEDLAESLVSQGFFSFDDLSVIEPEHLVELSGLTDEQCDEIIEHADA--ESLRLEQ 383

Query: 425 QK 426
           ++
Sbjct: 384 EE 385


>gi|268316867|ref|YP_003290586.1| NusA antitermination factor [Rhodothermus marinus DSM 4252]
 gi|262334401|gb|ACY48198.1| NusA antitermination factor [Rhodothermus marinus DSM 4252]
          Length = 421

 Score =  407 bits (1046), Expect = e-111,   Method: Composition-based stats.
 Identities = 148/406 (36%), Positives = 233/406 (57%), Gaps = 12/406 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL+     +A+ K IDRD +  ++ D  +   R  YG+     +  NP+ GDI +  +
Sbjct: 3   NSELVSSFAEIAHSKGIDRDTLQLIVEDVFRAMIRKRYGSDEAFEIIFNPDHGDIQILHI 62

Query: 66  LEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
            EVV   E+E+   QI L  AR  DP  ++G  V+  +   +FGR A+ +A+Q   Q++R
Sbjct: 63  REVVPDWELEDPVTQIELSEARKIDPDFEVGDEVASEVNIAEFGRRAIMTARQTFSQRIR 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           + E+++ Y E+ + +GEI+ G + ++    V+V    ++ ++ R+E I R+  R GD ++
Sbjct: 123 DLEKEKIYQEYSELIGEIVVGEIYQIRRREVLVMHNRTELILPREEQIPRDRYRKGDTLR 182

Query: 184 SYIYDVRREQRG-PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           + + +VRRE  G PQV++SR  P F+ +L  +EVPEI  GIV+VK + R+PG RAK+AV 
Sbjct: 183 AIVKEVRREAGGAPQVIISRADPVFLERLLELEVPEIEEGIVEVKKIVREPGERAKVAVV 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  +DPVGACVG+RG+R+ A+V EL +E ID++ WS D    +  AL PA    V L+
Sbjct: 243 SHDERVDPVGACVGLRGNRIHAIVRELSNENIDVIEWSDDPRELIKRALTPARPLSVTLN 302

Query: 303 EDVG--RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           E+    R +V+V  +++S AIGR G N+RLAS+LTG+ +D+  E      R  + +   +
Sbjct: 303 EEANPPRAKVVVRADEVSQAIGRGGVNIRLASRLTGYELDVYRE-----IRPDEEDIEIE 357

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
            F   +  DE I   L   G      +  + + E+    G D ETA
Sbjct: 358 EFADEL--DEEIIARLREIGCDTARAVLDLSVEELMRRSGLDAETA 401


>gi|218296560|ref|ZP_03497288.1| NusA antitermination factor [Thermus aquaticus Y51MC23]
 gi|218243102|gb|EED09634.1| NusA antitermination factor [Thermus aquaticus Y51MC23]
          Length = 385

 Score =  406 bits (1045), Expect = e-111,   Method: Composition-based stats.
 Identities = 143/382 (37%), Positives = 221/382 (57%), Gaps = 12/382 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL----------YGTMSDIRVEINP 55
             E ++    +A E+ +  + VL    ++++KA               G   ++ V I+P
Sbjct: 2   NREFIEALQQLALERGVSAEEVLEAFKEALRKAYIKRQKGYKKEEVEEGKGPEVDVYIDP 61

Query: 56  ETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAK 115
           +TG I +  +  VVE+VE+   +ISL  A   DP + +G  +  P+ P    RVA+Q  +
Sbjct: 62  QTGRIEMVEVRRVVEKVEDPDKEISLAEALQYDPEVQLGDEMEFPIDPEGLSRVAIQDLR 121

Query: 116 QVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRE 174
           Q++ Q+++E+ER+R + E+KDK G++++G V RV+  GNV VDLG  +  + + E I  E
Sbjct: 122 QLLTQRLKESERNRIFNEYKDKEGQVLTGVVTRVDNRGNVFVDLGRGEAYLPKSEQIPTE 181

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
              PG R+K+Y+  V R  +GP +++SR H + +  L   EVPEI  GIV++KA++R+PG
Sbjct: 182 RYYPGQRLKAYLKKVDRSAKGPSLIVSRAHEKLLEHLLKQEVPEIAEGIVEIKAIAREPG 241

Query: 235 SRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA 294
            R+K+AV S + ++DP+GAC+G +G R+QAV  EL  EK+DI++WS D   F+ NAL PA
Sbjct: 242 RRSKVAVTSHNPNVDPIGACIGHKGQRIQAVSAELGREKVDIILWSKDPKEFIRNALSPA 301

Query: 295 IVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
            V  + LD +  +  V V K+Q SLAIG  GQNVRLAS+LTG+ I    E E S   +  
Sbjct: 302 QVGSIELDPEAKKARVKVTKDQHSLAIGTGGQNVRLASKLTGYDIH-FEEAEISDLDEAI 360

Query: 355 FNERTQFFMQAINVDEIIAHLL 376
                +   +     E    L 
Sbjct: 361 RRAAQEEAEEKTRAKEEFEKLF 382


>gi|29840227|ref|NP_829333.1| transcription elongation factor NusA [Chlamydophila caviae GPIC]
 gi|29834575|gb|AAP05211.1| N utilization substance protein A [Chlamydophila caviae GPIC]
          Length = 434

 Score =  406 bits (1045), Expect = e-111,   Method: Composition-based stats.
 Identities = 150/424 (35%), Positives = 238/424 (56%), Gaps = 9/424 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             +L+ I D +  EK I R V++  +  +++ AA+      +++ V INP TGDI +F  
Sbjct: 2   NKDLVAIFDYMEKEKGIQRPVIIGAIESALKIAAKKTLRDDANVSVNINPRTGDIEVFCE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            E+VE  EN + +I L  AR+ DP   IG  +  P     FGR+A  +A+Q+I QK+R A
Sbjct: 62  KEIVEVCENPSKEIPLDKAREYDPECQIGQYMDVPFVSEHFGRIAAHAARQIIGQKLRHA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           ERD  Y E++ +V EI+SG VKR   G N+I+DLG  +G++        E  + GD++ +
Sbjct: 122 ERDVIYEEYRHRVNEILSGVVKRFAKGSNLIIDLGKVEGLLPARCYPKTEKHKVGDKIYA 181

Query: 185 YIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            + +V   E  G +V+LSR+HP+F+ +LF  EVPE+  G V++  ++R+ G R KLAV S
Sbjct: 182 LLQEVQESENGGAEVILSRSHPEFVKQLFLQEVPELEEGFVEIVKIAREAGYRTKLAVSS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           SD   DPVGA VGMRGSRV+ ++ EL DEKIDIV +SP +   + N L P  + K+ + E
Sbjct: 242 SDPKTDPVGAFVGMRGSRVKNIIRELNDEKIDIVNYSPVTTELLQNLLCPIEIQKIAILE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI-------NRQKDFN 356
           D   I ++V     +  IG+RG N RL SQ+  + +++    E +           +  N
Sbjct: 302 DDKVIAIVVHDADYATVIGKRGINARLISQILDYELEVQRMSEYNKLLEIQRLQLAEFDN 361

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
            +    +    + +++   LV  G+  + ++     +++AS+ G   E A +I  +  +Y
Sbjct: 362 PQLDEPLDMEGISKLVVQNLVHAGYDTIRKVLLASANDLASVPGISLELAYKILEQVSKY 421

Query: 417 LEGI 420
            EG 
Sbjct: 422 GEGK 425


>gi|239928612|ref|ZP_04685565.1| transcription elongation factor NusA [Streptomyces ghanaensis ATCC
           14672]
 gi|291436937|ref|ZP_06576327.1| transcriptional termination [Streptomyces ghanaensis ATCC 14672]
 gi|291339832|gb|EFE66788.1| transcriptional termination [Streptomyces ghanaensis ATCC 14672]
          Length = 328

 Score =  406 bits (1045), Expect = e-111,   Method: Composition-based stats.
 Identities = 132/341 (38%), Positives = 198/341 (58%), Gaps = 21/341 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  EK I  D+++  +  ++  A     G+    RVE+N ETG ++++      
Sbjct: 5   MSALRGLVREKEISFDLLVEAIESALLIAYHRTEGSRRHARVELNRETGHVTVWAK---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
           E+ E+      L+  ++                P  FGR+A  +AKQVI+Q++R+AE D 
Sbjct: 61  EDPED------LEEGQEPR---------EFDDTPSGFGRIAATTAKQVILQRLRDAEDDA 105

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              E+  + G+I++G V++  +  NV+VD+G  + ++   E +  E+   G R++SY+  
Sbjct: 106 TLGEYAGREGDIVTGVVQQGRDPKNVLVDIGKLEAILPVQEQVPGESYPHGMRLRSYVVR 165

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  RGP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S +
Sbjct: 166 VAKGVRGPSVTLSRTHPNLVKKLFALEVPEIADGSVEIAAIAREAGHRTKIAVRSTRSGL 225

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  G RV+ V+ EL  EKIDIV WS D A  V NAL PA V+KV V+D     
Sbjct: 226 NAKGACIGPMGGRVRNVMGELNGEKIDIVDWSDDPAEMVANALSPARVSKVEVVDMAARS 285

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
             V VP  QLSLAIG+ GQN RLA++LTGW IDI  + E +
Sbjct: 286 ARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTEQA 326


>gi|297748226|gb|ADI50772.1| N utilization substance protein A [Chlamydia trachomatis D-EC]
 gi|297749106|gb|ADI51784.1| N utilization substance protein A [Chlamydia trachomatis D-LC]
          Length = 465

 Score =  406 bits (1044), Expect = e-111,   Method: Composition-based stats.
 Identities = 147/424 (34%), Positives = 236/424 (55%), Gaps = 9/424 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             +L+ I D +  EK I R  ++  +  +++ AA+      +++ V INP TGDI +F  
Sbjct: 33  NKDLVAIFDYMEREKGIQRSTIVGAIESALKIAAKKTLRDDANVSVSINPRTGDIEVFCE 92

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            ++VE+ +N + +I L  AR+ DP   IG  +  P     FGR+A  +A+Q+I QK+R A
Sbjct: 93  KQIVEKCQNPSKEIPLDKAREYDPDCQIGQYMDVPFISDQFGRIAAHAARQIIGQKLRHA 152

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           ERD  Y E++ +  EIISG VK    G N++VDLG  +G++        E  + GD++ +
Sbjct: 153 ERDVIYEEYRHRKNEIISGVVKSFARGANLVVDLGKVEGLLPARFYPKTEKHKVGDKIYA 212

Query: 185 YIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            +Y+V   E  G +V+LSR HP+F+ +LF  EVPE+  G V++  ++R+ G R K+AV S
Sbjct: 213 LLYEVQESENGGAEVILSRNHPEFVKQLFVQEVPELEEGSVEIVKIAREAGYRTKMAVRS 272

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           S+   D VGA VGMRGSR++ ++ EL DEKID+V +SP S   + N L P  + K+ + E
Sbjct: 273 SNPQTDAVGAFVGMRGSRIKNIIRELNDEKIDVVNYSPVSTELLQNLLYPVEIQKIAILE 332

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI-------NRQKDFN 356
           D   I +IV     +  IG+RG N RL SQ+ G+ +++    E +           +  +
Sbjct: 333 DDKVIAIIVQDSDYATVIGKRGINARLISQILGYELEVQRVSEYNKLLEIQRLQLAEFED 392

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
            R    ++   ++ +I   L   G+  + ++     SE+AS+ G   E A +I  +  +Y
Sbjct: 393 PRLDQPLEVEGINTLIVQNLEHAGYDTIRKILLASASELASVPGISLELAYKILEQVSKY 452

Query: 417 LEGI 420
            EG 
Sbjct: 453 GEGK 456


>gi|295112228|emb|CBL28978.1| NusA antitermination factor [Synergistetes bacterium SGP1]
          Length = 364

 Score =  405 bits (1043), Expect = e-111,   Method: Composition-based stats.
 Identities = 135/365 (36%), Positives = 221/365 (60%), Gaps = 9/365 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           + +Q  + +A E+++  ++++S +  ++  A +        + V +N ETGDI +  L  
Sbjct: 6   DFVQALNQIAEERNLAPELIVSSLEAALISAYKKYQSGDQRVEVHVNTETGDILVEELRT 65

Query: 68  VVEEVENYTCQISLKVARDRD-PSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           VVEE+E+   +I+L  A+        +G  +     P  FGR+A Q+A+QVIIQ++++AE
Sbjct: 66  VVEELESPDTEITLGDAKRLGFADASVGDELHLEKDPGHFGRIAAQTARQVIIQRLKDAE 125

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSY 185
           R   Y EF DKVGE+++GT+ + E   V+  +G  ++ ++ R E I  E   PG  +K Y
Sbjct: 126 RQVIYSEFSDKVGEMMTGTIVKAENDQVLARIGERTEAILPRKERIPGEEYVPGQTMKFY 185

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + DVR+  RGP++++SRTHP  + KL  +E+PE+ +G+++++ + R+ G RAK+++ + D
Sbjct: 186 VLDVRQMTRGPKIVISRTHPGLLRKLMELEIPEVRDGVIEIRNIVREGGGRAKVSLSTMD 245

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV-LDED 304
            ++DPVGACVG  G+R++A+  EL  EK+DI+VWS D   ++ NAL PA V KV  + + 
Sbjct: 246 QNVDPVGACVGAGGARIKAISQELMGEKVDIIVWSSDPLAYIRNALSPAQVVKVEPVLDQ 305

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
               +  V  EQLSLAIG+ GQNVRLA++LTGW IDI      +  + +        F +
Sbjct: 306 EHAAKAYVEPEQLSLAIGKAGQNVRLAARLTGWKIDI------NALQAERMPTLQDIFHE 359

Query: 365 AINVD 369
               D
Sbjct: 360 VAEAD 364


>gi|294631732|ref|ZP_06710292.1| transcription termination factor NusA [Streptomyces sp. e14]
 gi|292835065|gb|EFF93414.1| transcription termination factor NusA [Streptomyces sp. e14]
          Length = 328

 Score =  405 bits (1043), Expect = e-111,   Method: Composition-based stats.
 Identities = 132/341 (38%), Positives = 195/341 (57%), Gaps = 21/341 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  EK I  D+++  +  ++  A     G+    RVE+N ETG ++++      
Sbjct: 5   MSALRGLVREKEISFDLLVEAIESALLIAYHRTEGSRRHARVELNRETGHVTVWAK---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
           E+ E+      L+  +                 P  FGR+A  +AKQVI+Q++R+AE D 
Sbjct: 61  EDPED------LEEGQAPR---------EFDDTPSGFGRIAATTAKQVILQRLRDAEDDA 105

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              E+  + G+I++G V++  +  NV+VD+G  + ++   E +  E    G R++SY+  
Sbjct: 106 TLGEYAGREGDIVTGVVQQGRDPKNVLVDIGKLEAILPVQEQVPGETYPHGMRLRSYVVR 165

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  RGP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S +
Sbjct: 166 VAKGVRGPSVTLSRTHPNLVKKLFALEVPEIADGSVEIAAIAREAGHRTKIAVRSTRSGL 225

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  G RV+ V+ EL  EKIDIV WS D A  V NAL PA V KV V+D     
Sbjct: 226 NAKGACIGPMGGRVRNVMGELNGEKIDIVDWSDDPAEMVANALSPARVHKVEVVDLAARS 285

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
             V VP  QLSLAIG+ GQN RLA++LTGW IDI  + E +
Sbjct: 286 ARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTEQA 326


>gi|291296311|ref|YP_003507709.1| NusA antitermination factor [Meiothermus ruber DSM 1279]
 gi|290471270|gb|ADD28689.1| NusA antitermination factor [Meiothermus ruber DSM 1279]
          Length = 392

 Score =  405 bits (1042), Expect = e-111,   Method: Composition-based stats.
 Identities = 142/355 (40%), Positives = 223/355 (62%), Gaps = 14/355 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARS----------LYGTMSDIRVEINP 55
             + +     VA+E+ +  + ++S   ++++ A               G    I V ++P
Sbjct: 2   NKDFVDALSQVAHERGVTAEELISNFEEALRLAYLRQKGFRPKDVEEEGKGPIIEVHLDP 61

Query: 56  ETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAK 115
           + G + +  +  VVEEV++   +I L+ A+  DP +++G  +  P+ P +F R+AVQ AK
Sbjct: 62  QEGHLEVLEIRRVVEEVKDPDKEIDLETAKKYDPEVEVGEEMEFPVDPEEFSRIAVQIAK 121

Query: 116 QVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRE 174
           QV+ Q+++EAER R + E+KDK GE+++G+V RV+  GNV V+LG  + ++ + E I  E
Sbjct: 122 QVLTQRLKEAERTRVHNEYKDKEGEVVTGSVARVDNRGNVYVELGRGEALMPQKEQIPTE 181

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
              PG R+K Y+  V+R  +GP +++SR H + +  L   EVPEI  GIV+VKAV+R+PG
Sbjct: 182 RYHPGQRIKVYLKQVQRSSKGPSLVVSRAHEELLRYLLRQEVPEIAEGIVEVKAVAREPG 241

Query: 235 SRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA 294
           SR+K+AV S + ++DP+GAC+G +G R+QAV  EL  E+IDI+ WSP+   F+ NAL PA
Sbjct: 242 SRSKVAVVSHNPNVDPIGACIGHKGQRIQAVSAELGRERIDIIQWSPNPKEFIRNALSPA 301

Query: 295 IVTKVVLDEDV---GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            V ++ ++       R  V+V K+Q SLAIG+ GQNVRLAS+LTG+ I+    EE
Sbjct: 302 TVGEITIENSENGQNRASVVVAKDQHSLAIGKAGQNVRLASKLTGYEINFEEAEE 356


>gi|218670845|ref|ZP_03520516.1| transcription elongation factor NusA [Rhizobium etli GR56]
          Length = 276

 Score =  405 bits (1042), Expect = e-111,   Method: Composition-based stats.
 Identities = 199/275 (72%), Positives = 235/275 (85%)

Query: 164 VIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGI 223
           +IRRDE I REN+R GDRV++Y+YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+GI
Sbjct: 1   IIRRDEMIPRENVRYGDRVRAYVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGI 60

Query: 224 VQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDS 283
           +QVK+V+RDPGSRAK+AV S+DSSIDPVGACVGMRGSRVQAVV EL+ EKIDI+ WS D 
Sbjct: 61  IQVKSVARDPGSRAKIAVISNDSSIDPVGACVGMRGSRVQAVVGELQGEKIDIIPWSQDP 120

Query: 284 ATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           ATFV+NAL+PA V KVVLDED  RIEV+VP EQLSLAIGRRGQNVRLASQLTGW IDI+T
Sbjct: 121 ATFVVNALQPAEVAKVVLDEDAERIEVVVPDEQLSLAIGRRGQNVRLASQLTGWDIDIMT 180

Query: 344 EEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
           E E+S  RQK+FNERT  FM +++VDE++  +L +EGFA VEELA V + EIASI+GFDE
Sbjct: 181 EAEESERRQKEFNERTNLFMDSLDVDEMVGQVLASEGFAAVEELAYVDLDEIASIDGFDE 240

Query: 404 ETAVEIQGRAREYLEGIDITLQKKIRELGVSEELC 438
           ETA EIQ RARE+LE ++  + +K + LGV +EL 
Sbjct: 241 ETAQEIQQRAREFLERLEAEMDEKRKALGVEDELR 275


>gi|332881709|ref|ZP_08449357.1| transcription termination factor NusA [Capnocytophaga sp. oral
           taxon 329 str. F0087]
 gi|332680348|gb|EGJ53297.1| transcription termination factor NusA [Capnocytophaga sp. oral
           taxon 329 str. F0087]
          Length = 420

 Score =  405 bits (1042), Expect = e-111,   Method: Composition-based stats.
 Identities = 142/413 (34%), Positives = 234/413 (56%), Gaps = 10/413 (2%)

Query: 4   ANRLELLQIADAVAY---EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           A + E + + D  A     K+IDR  ++SV+ +S +     L+G+  +  V +NP+ GD 
Sbjct: 2   AKKAETISLIDTFAEFKETKNIDRATLVSVLEESFRSVIAKLFGSDDNYDVIVNPDKGDF 61

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R   VV   EV++   +ISL  AR  D   ++G  VS+ +    FGR A+ + +Q +
Sbjct: 62  EIYRNRTVVADGEVKDDNREISLTEARRIDEDYEVGEEVSENVDFAKFGRRAILTLRQTL 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLR 177
             K+ E E D  Y ++KD+VGEI+S  V ++    ++ VD   ++ ++ + E I  +  R
Sbjct: 122 ASKILELEHDSLYNKYKDRVGEIVSAEVYQIWKKEMLCVDDEGNELILPKTEQIPSDFYR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+ V++ +  V      P+++LSRT P F+ +L   EVPEI++G++ V+ ++R PG RA
Sbjct: 182 KGEAVRAVVARVDNTNNNPKIILSRTSPVFLQRLLEAEVPEIHDGLITVRKIARMPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVG++GSRV  +V ELR E ID++ ++ + + F+  AL PA V 
Sbjct: 242 KIAVESYDDRIDPVGACVGVKGSRVHGIVRELRGENIDVINYTQNISLFITRALSPAAVN 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            V + E+  + EV +  +Q+SLAIG+ G N++LAS LT +TID+  E E +     D   
Sbjct: 302 SVRIHEEEHKAEVYLNPDQVSLAIGKSGLNIKLASMLTEYTIDVFREIEGAEGEGDDI-- 359

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
               F+   ++D+ I   L + G    +++       + S    +EET  E+ 
Sbjct: 360 YLDEFVG--DIDQWIIDALKSIGMETAKDVLNAPREMLVSRADLEEETVDEVL 410


>gi|330718231|ref|ZP_08312831.1| transcription elongation factor NusA [Leuconostoc fallax KCTC 3537]
          Length = 375

 Score =  405 bits (1042), Expect = e-111,   Method: Composition-based stats.
 Identities = 140/353 (39%), Positives = 218/353 (61%), Gaps = 5/353 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFR 64
             EL+   DA+  E+ IDR +V+  +  ++  A +  +  T S++ V  N   G I++ +
Sbjct: 2   SKELVDALDALENERGIDRQIVVDALELALAAAYKKQFNATQSNVDVTFNDRNGSITIKQ 61

Query: 65  LLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           +  VV  E+ E+   +I L  A   + + + G  +   + P +FGR+A Q+AKQVI+QK+
Sbjct: 62  IKTVVLDEDFEDEVIEIPLSEALAINRAYEAGDEIRFDVTPKNFGRIAAQTAKQVIMQKL 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDR 181
           REA R+  Y +F +   EII+G V+R +   + V L GN + V+ +++ +  E+ R  DR
Sbjct: 122 REAGREAIYKKFSEYQDEIITGEVERQDARFLYVMLPGNQEAVMAQNDQMPNEHYRMHDR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K  +  V    +GPQ+ +SR     + +LF  EVPE+Y+G V++ +++R+ G R+K+AV
Sbjct: 182 IKVLVSKVENSPKGPQIFVSRAAEDLVKRLFEQEVPEVYDGTVEIMSIAREAGDRSKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           ++ DS +DPVGA VG RG+RVQAVV EL  E +DIV W  D A ++ NAL P+ V  V+ 
Sbjct: 242 YTHDSDLDPVGALVGQRGTRVQAVVNELGGENMDIVEWVEDEAQYIANALNPSEVVDVIF 301

Query: 302 D-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
           D E+   + VIVP  QLSLAIG++GQN RLA++LTG+ IDI +E E +    K
Sbjct: 302 DPENNHAVTVIVPDNQLSLAIGKKGQNARLAARLTGFKIDIKSESEAADFLAK 354


>gi|256396850|ref|YP_003118414.1| NusA antitermination factor [Catenulispora acidiphila DSM 44928]
 gi|256363076|gb|ACU76573.1| NusA antitermination factor [Catenulispora acidiphila DSM 44928]
          Length = 324

 Score =  405 bits (1042), Expect = e-110,   Method: Composition-based stats.
 Identities = 132/337 (39%), Positives = 204/337 (60%), Gaps = 25/337 (7%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
               +  ++ I  + ++  +  ++  A +   G  +  RV+++  +G ++++     VE+
Sbjct: 7   ALRDLEKDRGIPFEKLVEDIEAALLIAYKRTDGAKTRARVQVDRSSGHVTVWA----VED 62

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
           +E+ +        R+ D              P +FGR+A  +AKQVI+Q++R+ E ++ +
Sbjct: 63  IEDGST-------REYDD------------TPSEFGRIASTTAKQVILQRLRDHEDEQTF 103

Query: 132 LEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVR 190
            EF  + G++I+G V++  +   V+V++G  +G +   E +  E  R G+R+K Y+ DVR
Sbjct: 104 GEFSGRKGDLITGVVQQGRDPRAVLVNIGKIEGTLPAAEQVPGEEYRHGERLKCYVVDVR 163

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDP 250
           R QRGPQV LSRTHP  + KLF +EVPEI  G V++ A++R+ G R K+AV S  + ++ 
Sbjct: 164 RGQRGPQVTLSRTHPDLVRKLFALEVPEIAEGAVEITAIAREAGHRTKIAVRSHRAGVNA 223

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIE 309
            GAC+G  G+RV+ V+ EL  EKIDIV WS D A  V NAL PA V+KV V+D D     
Sbjct: 224 KGACIGPMGARVRNVMAELHGEKIDIVDWSEDPAEMVGNALSPARVSKVQVVDLDQRSAR 283

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           VIVP  QLSLAIG+ GQN RLA++LTGW IDI ++ E
Sbjct: 284 VIVPDFQLSLAIGKEGQNARLAARLTGWRIDIRSDAE 320


>gi|312865489|ref|ZP_07725716.1| transcription termination factor NusA [Streptococcus downei F0415]
 gi|311099007|gb|EFQ57224.1| transcription termination factor NusA [Streptococcus downei F0415]
          Length = 429

 Score =  405 bits (1042), Expect = e-110,   Method: Composition-based stats.
 Identities = 131/360 (36%), Positives = 209/360 (58%), Gaps = 15/360 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  EK ID++ ++  + +S++ A +  YG      VE N +TGD  ++ +
Sbjct: 2   SKEMLEAFRVLEEEKHIDKNDIIDAVTESLKSAYKRRYGQSDSCEVEFNEKTGDFQVYSV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEV +   +ISL  A     + ++G  +       +FGRVA QSAKQ I++K+R  
Sbjct: 62  REVVEEVFDSRLEISLADALKISSAYELGDKIRFEESVKEFGRVAAQSAKQTIMEKMRRQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R+  Y E+K+  GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR++ Y
Sbjct: 122 MREITYNEYKEHEGEIMTGTVERFDQRFIYVNLGSIEAQLSHQDQIPGETFKSHDRIEVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HPQF+ ++   E+PE+++G V++ +VSR+ G R K+AV S +
Sbjct: 182 VYKVENNPRGVNVFVSRSHPQFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ VV++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGANIKKVVSKFHPVRLDPKSGLAVPVEENIDVIQWEEDPAEFIYNAI 301

Query: 292 RPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V  V+  DE+     V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDYVIFDDENSKHATVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSATEYETM 361


>gi|302872115|ref|YP_003840751.1| transcription termination factor NusA [Caldicellulosiruptor
           obsidiansis OB47]
 gi|302574974|gb|ADL42765.1| transcription termination factor NusA [Caldicellulosiruptor
           obsidiansis OB47]
          Length = 356

 Score =  405 bits (1041), Expect = e-110,   Method: Composition-based stats.
 Identities = 133/346 (38%), Positives = 209/346 (60%), Gaps = 8/346 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS----DIRVEINPETGDI 60
           +  EL    D +  E  I+RD + SV+  ++  A + + G       +++V I PE G +
Sbjct: 9   DFQELFSAIDELEREYKIERDYIYSVLESALLTAYKQVKGIKDKNLSNVKVSIEPEKGSV 68

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            ++   +VVE V++   +ISL+ A+  D    +G +V   +P   F R A  + +Q +I 
Sbjct: 69  KIYEYRKVVENVKDRKSEISLEDAQKIDKRYKVGDIVVIEVPISQFSRKAAMTVRQTVIG 128

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRP 178
           K+RE  +   + ++  KV  I++G ++R++  NVIV++  G  + ++  +E I  E  +P
Sbjct: 129 KIREKRKSIIFEDYSSKVDNIVTGIIQRIDKKNVIVEIEGGKVEAILPMEEQIPGEEYKP 188

Query: 179 GDRVKSYIYDVR--REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
           G  +K YI +V+   +++ P V LSRTHP  + +L   EVPEI  GI+++KA++R+ GSR
Sbjct: 189 GVMMKFYITEVKIPPKEKEPIVYLSRTHPNLIKRLMENEVPEIQEGIIEIKAIAREAGSR 248

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           +K+AV+S+   +DPVGAC+G +G R+Q V+  L  EKIDIV WS D   F+ NAL PA V
Sbjct: 249 SKVAVYSNSLKVDPVGACIGEKGIRIQNVLKHLNGEKIDIVKWSSDIGEFIKNALSPAEV 308

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
             + L+    +  V+VP  QLSLAIG+ GQN RLA++LTGW IDI 
Sbjct: 309 VHIDLNLIEKKAFVLVPNSQLSLAIGKGGQNARLAAKLTGWKIDIK 354


>gi|322373936|ref|ZP_08048471.1| transcription termination factor NusA [Streptococcus sp. C150]
 gi|321277308|gb|EFX54378.1| transcription termination factor NusA [Streptococcus sp. C150]
          Length = 396

 Score =  405 bits (1041), Expect = e-110,   Method: Composition-based stats.
 Identities = 129/355 (36%), Positives = 207/355 (58%), Gaps = 15/355 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  EK I++D ++  + +S++ A +  YG      VE N +TGD  ++ +
Sbjct: 2   SKEMLEAFRVLEEEKHINKDDIIEAVVESLKSAYKRRYGQSESAVVEFNEKTGDFQVYTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R+ 
Sbjct: 62  REVVDEVFDSRLEISLKDALAISSAYELGDKIRFEESVDEFGRVAAQSAKQTIMEKMRKQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R+  Y ++K   GEI+ GTV+R +   + V+LG  +  + R + I  E+ +  D +  Y
Sbjct: 122 MREITYNDYKQHEGEIMQGTVERFDQRFIYVNLGTLEAQLSRQDQIPGESFKSHDVIDVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S +
Sbjct: 182 VYKVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  GS ++ VV+                 +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGSNIKKVVSRFHPTRLDAKTGIEVPVEENIDVIQWVEDPAEFIYNAI 301

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
            PA V  V+ DE+   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  
Sbjct: 302 APAEVDYVLFDENDSKRATVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSAT 356


>gi|302537260|ref|ZP_07289602.1| transcription termination factor NusA [Streptomyces sp. C]
 gi|302446155|gb|EFL17971.1| transcription termination factor NusA [Streptomyces sp. C]
          Length = 333

 Score =  405 bits (1041), Expect = e-110,   Method: Composition-based stats.
 Identities = 131/339 (38%), Positives = 195/339 (57%), Gaps = 21/339 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  EK I  D+++  +  ++  A     G+    RV ++   G + ++      
Sbjct: 5   MSALRGLVREKEISFDLLVEAIESALLIAYHRTEGSFRRARVVLDRTNGHVVVWAT---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
              E+      L+  ++                P DFGR+A  +AKQVI+Q++R+AE D 
Sbjct: 61  ---EDPR---DLEEGQEPK---------EFDDTPSDFGRIAATTAKQVILQRLRDAEDDL 105

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
            + EF  + G++I+G V++  +  NV+VD+G  + ++   E +  E    G R+K+Y+  
Sbjct: 106 TFGEFAGREGDVITGVVQQGKDPKNVLVDIGKLEAILPVQEQVPGEEYTHGLRLKTYVVR 165

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  RGP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S +
Sbjct: 166 VAKGVRGPSVTLSRTHPNLVKKLFALEVPEIADGSVEISAIAREAGHRTKIAVRSTRSGL 225

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +P GAC+G  G+RV+ V+ EL  EKIDIV WS D A  V NAL PA V+KV V+D D   
Sbjct: 226 NPKGACIGPMGARVRNVMAELHGEKIDIVDWSDDPAEMVANALSPARVSKVEVVDWDTRS 285

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             V VP  QLSLAIG+ GQN RLA++LTGW IDI  + E
Sbjct: 286 ARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTE 324


>gi|212696551|ref|ZP_03304679.1| hypothetical protein ANHYDRO_01089 [Anaerococcus hydrogenalis DSM
           7454]
 gi|212676487|gb|EEB36094.1| hypothetical protein ANHYDRO_01089 [Anaerococcus hydrogenalis DSM
           7454]
          Length = 410

 Score =  405 bits (1041), Expect = e-110,   Method: Composition-based stats.
 Identities = 145/406 (35%), Positives = 240/406 (59%), Gaps = 4/406 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E +   + +   K++D+ ++L  +  ++ K+ +  Y    ++ V I+ ETG+I ++ L
Sbjct: 2   NKEFIIALEELEKSKNVDKKIILEALEKALVKSYQKNYENNENVDVNIDDETGEIEVYSL 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV +   +IS   AR+ D  +D+G +    + P +FGRVA Q+A+ +++QK+R+A
Sbjct: 62  KNVVDEVNDPIAEISKTKAREIDSKLDLGDICRVKIAPKNFGRVAAQTARNIVLQKIRDA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           +RD  Y E+ D+  EII+G V+R +  NV ++L   +G+I   E +  E      R+K  
Sbjct: 122 QRDSVYSEYLDRANEIITGVVQREDKYNVYINLDKIEGIIPLKEQVENEKYIANQRIKVL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I DV+   + PQ++LSR     +V+LF +EVPEI NGI+++  + R+ GSR K+AVFS+D
Sbjct: 182 IKDVKNTTKEPQIILSRKDKDLVVRLFELEVPEITNGIIEIYGIDREAGSRTKIAVFSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             ID +GAC+G +GSRV ++V EL+ EKIDI+ +  D  TF+ N+L PA + +V +++  
Sbjct: 242 PEIDSIGACIGFKGSRVNSIVEELQGEKIDIINYDKDIKTFIKNSLSPAEINEVYINDMK 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            +  V+V ++QLSLAIG+ GQN RLA++LTGW IDI ++EE     Q++ +E      + 
Sbjct: 302 KQSLVVVREDQLSLAIGKEGQNARLAARLTGWKIDIKSQEEFDKLDQEEIDEILGLNEEE 361

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
             + E I    +      VE+       +   IE   E+    I+ 
Sbjct: 362 DEIVENI-DGEIENSLDQVEDETDFIEDD---IENLSEDLDQIIKE 403


>gi|297202732|ref|ZP_06920129.1| transcription termination factor NusA [Streptomyces sviceus ATCC
           29083]
 gi|297148179|gb|EFH28866.1| transcription termination factor NusA [Streptomyces sviceus ATCC
           29083]
          Length = 328

 Score =  405 bits (1041), Expect = e-110,   Method: Composition-based stats.
 Identities = 130/341 (38%), Positives = 196/341 (57%), Gaps = 21/341 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  EK I  D+++  +  ++  A     G+    RV+++ ++G + ++      
Sbjct: 5   MSALRGLVREKEISFDLLVEAIESALLIAYHRTEGSHRHARVKLDRDSGHVVVWAK---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
           E+ E+      L+  ++                P DFGR+A  +AKQVI+Q++R+AE D 
Sbjct: 61  EDPED------LEEGQEPR---------EFDDTPSDFGRIAATTAKQVILQRLRDAEDDA 105

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              E+  + G+I+ G V++  +  NV+VD+G  + ++   E +  E    G R++SY+  
Sbjct: 106 TLGEYAGREGDIVMGVVQQGRDPKNVLVDIGKLEAILPVQEQVPGETYPHGMRLRSYVVR 165

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V R  RGP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S +
Sbjct: 166 VARGVRGPSVTLSRTHPNLVKKLFALEVPEIADGSVEIAAIAREAGHRTKIAVRSTRSGL 225

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  G RV+ V+ EL  EKIDIV WS D A  V NAL PA V+KV V+D     
Sbjct: 226 NAKGACIGPMGGRVRNVMGELNGEKIDIVDWSDDPAEMVANALSPARVSKVEVVDMAARS 285

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
             V VP  QLSLAIG+ GQN RLA++LTGW IDI  + E +
Sbjct: 286 ARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTEQA 326


>gi|62185081|ref|YP_219866.1| transcription elongation factor NusA [Chlamydophila abortus S26/3]
 gi|62148148|emb|CAH63905.1| N utilization substance protein A [Chlamydophila abortus S26/3]
          Length = 434

 Score =  404 bits (1040), Expect = e-110,   Method: Composition-based stats.
 Identities = 149/424 (35%), Positives = 241/424 (56%), Gaps = 9/424 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             +L+ I D +  EK I R V++  +  +++ AA+      +++ V INP+TGDI +F  
Sbjct: 2   NKDLVAIFDYMEKEKGIQRPVIIGAIESALKIAAKKTLRDDANVSVNINPKTGDIEVFCE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            E+VE  EN + +I L  AR+ DP  +IG  +  P     FGR+A  +A+Q+I QK+R A
Sbjct: 62  KEIVEVCENPSKEIPLDKAREYDPECEIGQYMDVPFVSEHFGRIAAHAARQIIGQKLRHA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           ERD  Y E++ +V EI+SG VKR   G N+I+DLG  +G++        E  + GD++ +
Sbjct: 122 ERDVIYEEYRHRVNEILSGVVKRFAKGSNLIIDLGKVEGLLPARCYPKTEKHKVGDKIYA 181

Query: 185 YIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            +Y+V   E  G +V+LSR+HP+F+ +LF  EVPE+  G V++  ++R+ G R K+AV S
Sbjct: 182 LLYEVQESENGGAEVILSRSHPEFVKQLFLQEVPELEEGSVEIVKIAREAGYRTKIAVSS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           SD   DPVGA VGMRGSRV+ ++ EL DEKIDIV +SP +   + N L P  + K+ + E
Sbjct: 242 SDPKTDPVGAFVGMRGSRVKNIIRELNDEKIDIVNYSPVTTELLQNLLCPIEIQKIAVLE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI-------NRQKDFN 356
           D   I ++V     +  IG+RG N RL SQ+  + +++    E +           +  +
Sbjct: 302 DDKVIAIVVQDADYATVIGQRGINARLISQILDYELEVQRMSEYNKLLEIQRLQLAEFDS 361

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
                 ++   + +++   LV  G+  + ++     +++AS+ G   E A +I  +  +Y
Sbjct: 362 PLLDEPLEMEGISKLVVQNLVHAGYDTIRKVLLASANDLASVPGISLELAYKILEQVSKY 421

Query: 417 LEGI 420
            EG 
Sbjct: 422 GEGK 425


>gi|254382096|ref|ZP_04997458.1| transcription elongation factor NusA [Streptomyces sp. Mg1]
 gi|194341003|gb|EDX21969.1| transcription elongation factor NusA [Streptomyces sp. Mg1]
          Length = 336

 Score =  404 bits (1040), Expect = e-110,   Method: Composition-based stats.
 Identities = 131/347 (37%), Positives = 199/347 (57%), Gaps = 21/347 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  EK I  D+++  +  ++  A     G+    RV ++   G + ++      
Sbjct: 5   MSALRGLVREKEISFDLLVEAIESALLIAYHRTEGSFRRARVVLDRTNGHVVVWAT---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
              E+      L+  ++                P DFGR+A  +AKQVI+Q++R+AE D 
Sbjct: 61  ---EDPR---DLEEGQEPK---------EFDDTPSDFGRIAATTAKQVILQRLRDAEDDL 105

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
            + EF  + G++I+G V++  +  NV+VD+G  + ++   E +  E+   G R+K+Y+  
Sbjct: 106 TFGEFAGREGDVITGVVQQGKDPKNVLVDIGKLEAILPVQEQVPGEDYTHGLRLKTYVVR 165

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  RGP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ + +
Sbjct: 166 VAKGVRGPSVTLSRTHPNLVKKLFALEVPEIADGSVEICAIAREAGHRTKIAVRSTRAGL 225

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +P GAC+G  G+RV+ V+ EL  EKIDIV WS D A  V NAL PA V+KV V+D D   
Sbjct: 226 NPKGACIGPMGARVRNVMAELHGEKIDIVDWSDDPAEMVANALSPARVSKVEVVDWDTRS 285

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
             V VP  QLSLAIG+ GQN RLA++LTGW IDI  + E +    +D
Sbjct: 286 ARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTEPAEGADRD 332


>gi|261367202|ref|ZP_05980085.1| transcription termination factor NusA [Subdoligranulum variabile
           DSM 15176]
 gi|282570800|gb|EFB76335.1| transcription termination factor NusA [Subdoligranulum variabile
           DSM 15176]
          Length = 357

 Score =  404 bits (1040), Expect = e-110,   Method: Composition-based stats.
 Identities = 146/350 (41%), Positives = 210/350 (60%), Gaps = 6/350 (1%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGD 59
           M +AN  E      A+  E+ +  D ++  +  +I  A +  Y     ++ V+I+PE G 
Sbjct: 1   MATANN-EFFDALAALEKERGLPEDYLIEKIKAAIVIAVKKDYEVEDDNVVVDIDPEIGA 59

Query: 60  ISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
                L ++VEEVEN   Q+SL+ A+    S  +G  +   L   +FGR+A Q+AK VI 
Sbjct: 60  FRASLLRDIVEEVENPHTQVSLEEAQKVRKSYKVGQRMVTQLKTKEFGRIAAQTAKHVIR 119

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRV--EYGNVIVDLGNS-DGVIRRDETISRENL 176
           Q +RE ER+ Q  E + +  E+I+ TV  +  E GNV++DLG     V+ R+E +  E  
Sbjct: 120 QGLREGERNLQCSEMQSRAHELITATVVSIDPERGNVVLDLGKGGSAVLPRNEQVPGETF 179

Query: 177 RPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
             G+ V+ Y+ DV    RGP+V +SRTHP  + ++F +EVPEIY+G V++KA++R+ G+R
Sbjct: 180 HEGETVQVYVVDVLATDRGPRVTISRTHPGLVKRMFELEVPEIYDGTVEIKAIAREAGAR 239

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
            KLAV+S +  +DPVGAC+G RG+RV+ +V EL  EKID++ WS D   F+  AL PA V
Sbjct: 240 TKLAVWSKNPDVDPVGACIGARGARVEKIVQELGGEKIDVIRWSEDITEFISAALSPAKV 299

Query: 297 TKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
            KV L         V VP  QLSLAIG +GQNVRL + LTG+ IDI  E 
Sbjct: 300 VKVELLPGETKSCRVTVPDHQLSLAIGNKGQNVRLCAHLTGYNIDIRPES 349


>gi|332523131|ref|ZP_08399383.1| transcription termination factor NusA [Streptococcus porcinus str.
           Jelinkova 176]
 gi|332314395|gb|EGJ27380.1| transcription termination factor NusA [Streptococcus porcinus str.
           Jelinkova 176]
          Length = 384

 Score =  404 bits (1040), Expect = e-110,   Method: Composition-based stats.
 Identities = 134/386 (34%), Positives = 218/386 (56%), Gaps = 24/386 (6%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  EK I++D ++  + +S++ A +  YG      +E N +TGD  +F +
Sbjct: 2   SKEMLEAFRILEEEKHINKDDIIEAVTESLKSAYKRRYGQSESCVIEFNEKTGDFQVFSV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEV +   +ISL  A     + ++G  +       +FGRVA QSAKQ I++K+R  
Sbjct: 62  REVVEEVFDSRLEISLSDALAISSAYELGDKIRFEESVAEFGRVAAQSAKQTIMEKMRRQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R+  Y E+K+  GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR++ Y
Sbjct: 122 MREITYNEYKEHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIEVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S +
Sbjct: 182 VYKVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGSNIKKVISKFHPKRYDAKTGIEIPVEENIDVIQWVDDPAEFIYNAI 301

Query: 292 RPAIVTKVVLDE-DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V  V+ DE D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDMVLFDEIDSKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEYDAL 361

Query: 351 RQKDFNERTQFFMQAINVDEIIAHLL 376
             +          + +N  E +  +L
Sbjct: 362 ETEQ---------EHVNTSEEVEQVL 378


>gi|325000941|ref|ZP_08122053.1| transcription elongation factor NusA [Pseudonocardia sp. P1]
          Length = 344

 Score =  404 bits (1040), Expect = e-110,   Method: Composition-based stats.
 Identities = 133/353 (37%), Positives = 198/353 (56%), Gaps = 25/353 (7%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
              A+  +K I  + VL  +  ++  A R   G  SD RV+I+ +TG + +         
Sbjct: 7   ALRAIERDKEIPFETVLEAIETALLTAYRHTEGHHSDARVDIDRKTGVVRVLAR------ 60

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
                   +   A D  P  +          P  FGR+A  +A+QVI+Q++R+AE +R Y
Sbjct: 61  -------DASDAAEDGTPGPEFDD------TPEGFGRIAATTARQVIVQRLRDAEHERTY 107

Query: 132 LEFKDKVGEIISGTVKRVEYGN----VIVDLGN-SDGVIRRDETISRENLRPGDRVKSYI 186
            EF  K GE+++G V+R    N    VIV+LG  ++ V+   E +  E  + G+R++ Y+
Sbjct: 108 GEFSTKEGEVVAGIVQRDARANARGVVIVELGGGTEAVLPAAEQVPGEVYQHGERIRCYV 167

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V R  RG  + LSRTHP  + KLF +EVPE+ +G +++ +V+R+ G R+K+AV S+  
Sbjct: 168 IGVARGPRGTTITLSRTHPNLVRKLFALEVPELVDGSIEIVSVAREAGFRSKIAVRSARP 227

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDV 305
            ++  GAC+G  G+RV+ V+ EL  EKIDI+ WS D   FV NAL P+ V  V VLDE  
Sbjct: 228 GLNAKGACIGPMGARVRGVMGELAGEKIDIIDWSEDPGEFVGNALSPSKVVSVTVLDERA 287

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
               V+VP  QLSLAIG+ GQN RLA++LTGW IDI ++ +       D +  
Sbjct: 288 RIARVVVPDFQLSLAIGKEGQNARLAARLTGWKIDIRSDADPRDPVGPDGDPV 340


>gi|325847934|ref|ZP_08170105.1| transcription termination factor NusA [Anaerococcus hydrogenalis
           ACS-025-V-Sch4]
 gi|325480803|gb|EGC83857.1| transcription termination factor NusA [Anaerococcus hydrogenalis
           ACS-025-V-Sch4]
          Length = 410

 Score =  404 bits (1040), Expect = e-110,   Method: Composition-based stats.
 Identities = 137/356 (38%), Positives = 224/356 (62%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E +   + +   K++D+ ++L  +  ++ K+ +  Y    ++ V I+ ETG+I ++ L
Sbjct: 2   NKEFIIALEELEKSKNVDKKIILEALEKALVKSYQKNYENNENVDVNIDEETGEIEVYSL 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV +   +IS   AR+ D  +D+G +    + P +FGRVA Q+A+ +++QK+R+A
Sbjct: 62  KNVVDEVNDPIAEISKTKAREIDSKLDLGDICRVKIAPKNFGRVAAQTARNIVLQKIRDA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           +RD  Y E+ D+  EII+G V+R +  NV ++L   +G+I   E +  E      R+K  
Sbjct: 122 QRDSVYSEYLDRANEIITGVVQREDKYNVYINLDKIEGIIPLKEQVENEKYIANQRIKVL 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I DV+   + PQ++LSR     +V+LF +EVPEI NGI+++  + R+ GSR K+AVFS+D
Sbjct: 182 IKDVKNTTKEPQIILSRKDKDLVVRLFELEVPEITNGIIEIYGIDREAGSRTKIAVFSND 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             ID +GAC+G +GSRV ++V EL+ EKIDI+ +  D  TF+ N+L PA + +V +++  
Sbjct: 242 PEIDSIGACIGFKGSRVNSIVEELQGEKIDIINYDKDIKTFIKNSLSPAEINEVYINDMK 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
            +  V+V ++QLSLAIG+ GQN RLA++LTGW IDI ++EE     Q + +E    
Sbjct: 302 KQSLVVVREDQLSLAIGKEGQNARLAARLTGWKIDIKSQEEFDKLDQDEIDEILGL 357


>gi|332670044|ref|YP_004453052.1| transcription termination factor NusA [Cellulomonas fimi ATCC 484]
 gi|332339082|gb|AEE45665.1| transcription termination factor NusA [Cellulomonas fimi ATCC 484]
          Length = 350

 Score =  404 bits (1039), Expect = e-110,   Method: Composition-based stats.
 Identities = 128/352 (36%), Positives = 205/352 (58%), Gaps = 27/352 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +Q    +  E+ I  DV+++ +  ++  A     G+    RVE++  +G ++++      
Sbjct: 5   MQALRLLEREREISLDVLVAAIEQALLSAYHRTPGSHQRARVEVDRRSGHVTVW------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLP-----PMDFGRVAVQSAKQVIIQKVRE 124
                         AR+  P  + G  V   +P     P  FGR+A  +A+QVI+Q++R+
Sbjct: 59  --------------AREPAPVGEDGRPVEVDMPEFDDTPDGFGRIATATARQVIVQRLRD 104

Query: 125 AERDRQYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           AE D+    F+ K GE++ G +++  +   V+VD+G ++ V+ + E +  E    G+R++
Sbjct: 105 AEDDQVLGTFRGKEGEVLGGVIQQGRDPRTVLVDVGGTEAVLPQHEQVPGEEYVHGERLR 164

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           +Y+ +V R  RGPQV LSRTHP  + +LF +EVPE+ +G V++ A++R+ G R K+AV +
Sbjct: 165 AYVLEVARGPRGPQVTLSRTHPNLVRRLFALEVPEVADGTVEITAMAREAGHRTKMAVRA 224

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLD 302
           + + ++  GAC+G  G RV+AV+ EL  EKIDIV  S D A  + +AL PA V  V V+D
Sbjct: 225 TVAGVNAKGACIGPMGGRVRAVMAELHGEKIDIVDHSDDPAEMIAHALSPARVVSVTVVD 284

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
            D     V+VP  QLSLAIG+ GQN RLA++LTGW IDI ++ E     + D
Sbjct: 285 PDARAARVVVPDYQLSLAIGKEGQNARLAAKLTGWRIDIRSDAETGAADESD 336


>gi|330997781|ref|ZP_08321616.1| transcription termination factor NusA [Paraprevotella xylaniphila
           YIT 11841]
 gi|329569669|gb|EGG51434.1| transcription termination factor NusA [Paraprevotella xylaniphila
           YIT 11841]
          Length = 420

 Score =  404 bits (1039), Expect = e-110,   Method: Composition-based stats.
 Identities = 145/423 (34%), Positives = 238/423 (56%), Gaps = 11/423 (2%)

Query: 4   ANRLELLQIADAVAY---EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           A + E + + D  A     K+IDR  ++SV+ +S +     L+G+  +  V +NP+ GD 
Sbjct: 2   AKKAETISLIDTFAEFKETKNIDRATLVSVLEESFRSVIAKLFGSDDNYDVIVNPDKGDF 61

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R   VV   EV++   +ISL  AR  D   ++G  VS+ +    FGR A+ + +Q +
Sbjct: 62  EIYRNRTVVADGEVKDGNREISLTEARQIDEDYEVGEEVSENVDFAGFGRRAILTLRQTL 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLR 177
             K+ E E D  Y ++KD+VGEI+S  V ++    ++ VD   ++ ++ + E I  +  R
Sbjct: 122 ASKILELEHDSLYNKYKDRVGEIVSAEVYQIWKKEMLCVDDEGNELILPKTEQIPSDFYR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+ V++ +  V      P+++LSRT P F+ +L   EVPEI++G++ V+ ++R PG RA
Sbjct: 182 KGEAVRAVVARVDNTNNNPKIILSRTSPVFLQRLLEAEVPEIHDGLITVRKIARMPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVG++GSRV  +V ELR E ID++ ++ + + F+  AL PA V 
Sbjct: 242 KIAVESYDDRIDPVGACVGVKGSRVHGIVRELRGENIDVINYTQNISLFITRALSPATVN 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            V + E+  + EV +  +Q+SLAIG+ G N++LAS LT +TID+  E E +     D   
Sbjct: 302 SVRIHEEERKAEVYLNPDQVSLAIGKSGLNIKLASMLTEYTIDVFREIEGAEGEGDDI-- 359

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVE-IQGRAREY 416
               F+   ++D+ I   L   G    +++       + S    +EET  E ++  A E+
Sbjct: 360 YLDEFVG--DIDQWIIDALKGIGMETAKDVLNAPREMLVSRADLEEETVDEVLRILAEEF 417

Query: 417 LEG 419
            E 
Sbjct: 418 EEE 420


>gi|315606722|ref|ZP_07881732.1| transcription termination factor NusA [Prevotella buccae ATCC
           33574]
 gi|315251577|gb|EFU31556.1| transcription termination factor NusA [Prevotella buccae ATCC
           33574]
          Length = 421

 Score =  404 bits (1039), Expect = e-110,   Method: Composition-based stats.
 Identities = 138/414 (33%), Positives = 234/414 (56%), Gaps = 8/414 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           ++         K+IDR  ++SV+ +S +     ++G+  +  V +NP+ GD  ++R   V
Sbjct: 13  MIDTFREFKETKNIDRTTLVSVLEESFRNVLAKIFGSDENFDVIVNPDKGDFEIYRNRVV 72

Query: 69  VE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           V   EVE+   +ISL  A+  +P  ++G  VS+ +    FGR A+ + +Q +  K+ E E
Sbjct: 73  VADGEVEDENKEISLTEAQKIEPDYEVGEDVSEKVDFNKFGRRAILTLRQTLASKILELE 132

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNV-IVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            D  Y ++KD+VG++ISG V ++    V IVD  N++ ++ + E I  +  R G+ V++ 
Sbjct: 133 HDSLYNKYKDRVGQVISGEVYQMWKREVLIVDDENNELILPKAEQIPADQYRKGETVRAV 192

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V  E   P+++LSRT P F+ +L   EVPEI +G++ ++ ++R PG RAK+AV S D
Sbjct: 193 ILRVDNENNNPKIILSRTSPMFLERLLEAEVPEISDGLIAIRKIARMPGDRAKVAVESFD 252

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVGACVG++GSRV  +V EL +E ID++ ++ +   F+  AL PA V+ + +DE+ 
Sbjct: 253 ERIDPVGACVGVKGSRVHGIVRELCNENIDVINYTSNVKLFIQRALSPAKVSSINIDEEN 312

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            + EV +  E++SLAIGR G N++LAS LT +TID+  E +++     D +   + F   
Sbjct: 313 HKAEVYLQPEEVSLAIGRGGMNIKLASMLTEYTIDVFREIDENA---ADEDIYLEEFSD- 368

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             +D+ +   + + G    +++       +      +EET   +    R   E 
Sbjct: 369 -EIDQWVIDAIKSIGLDTAKQVLNAPREMLIEKADLEEETVDNVLNVLRAEFEQ 421


>gi|315302978|ref|ZP_07873697.1| transcription termination factor NusA [Listeria ivanovii FSL
           F6-596]
 gi|313628646|gb|EFR97060.1| transcription termination factor NusA [Listeria ivanovii FSL
           F6-596]
          Length = 312

 Score =  404 bits (1039), Expect = e-110,   Method: Composition-based stats.
 Identities = 133/281 (47%), Positives = 193/281 (68%)

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
             E VE+V +   +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VRE
Sbjct: 1   RKEAVEQVFDSRLEISMEEAHKINPVYKPGDVVELEVTPKDFGRIAAQTAKQVVTQRVRE 60

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AER   Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K 
Sbjct: 61  AERGIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKV 120

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+  V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V+++
Sbjct: 121 YLTKVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTA 180

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           +  +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E 
Sbjct: 181 NEEVDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEA 240

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
                VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E 
Sbjct: 241 DQATTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSET 281


>gi|329117087|ref|ZP_08245804.1| transcription termination factor NusA [Streptococcus parauberis
           NCFD 2020]
 gi|326907492|gb|EGE54406.1| transcription termination factor NusA [Streptococcus parauberis
           NCFD 2020]
          Length = 395

 Score =  404 bits (1038), Expect = e-110,   Method: Composition-based stats.
 Identities = 135/389 (34%), Positives = 219/389 (56%), Gaps = 21/389 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  EK I++  ++  + +S++ A +  YG      +E N +TGD  +F +
Sbjct: 13  SKEMLEAFRILEEEKHINKSDIIEAVTESLKSAYKRRYGQSESCVIEFNEKTGDFQVFTV 72

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEV +   +I LK A     + ++G  +       +FGRVA QSAKQ I++K+R  
Sbjct: 73  REVVEEVFDSRLEIGLKDALAISSAYELGDKIRFEESVAEFGRVAAQSAKQTIMEKMRRQ 132

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R+  + E+K+  GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR+  Y
Sbjct: 133 MREVTFNEYKEHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIDVY 192

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S +
Sbjct: 193 VYKVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHN 252

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+
Sbjct: 253 PNVDAIGTIVGRGGSNIKKVISKFHPKRFDQKAGAEIPVEENIDVIQWVDDPAEFIYNAI 312

Query: 292 RPAIVTKVVLDE-DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V  V+ DE D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  +    
Sbjct: 313 APAEVDMVLFDEADSKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASDYERM 372

Query: 351 RQKDFNERTQFFMQAINVDEIIAHLLVAE 379
             +  N+ T+       V+E IA     E
Sbjct: 373 EAEQENQSTEL------VEETIAPTNEEE 395


>gi|15639877|ref|NP_219327.1| transcription elongation factor NusA [Treponema pallidum subsp.
           pallidum str. Nichols]
 gi|189026115|ref|YP_001933887.1| transcription elongation factor NusA [Treponema pallidum subsp.
           pallidum SS14]
 gi|3323210|gb|AAC65849.1| N utilization substance protein A (nusA) [Treponema pallidum subsp.
           pallidum str. Nichols]
 gi|189018690|gb|ACD71308.1| N utilization substance protein A [Treponema pallidum subsp.
           pallidum SS14]
 gi|291060251|gb|ADD72986.1| transcription elongation protein NusA [Treponema pallidum subsp.
           pallidum str. Chicago]
          Length = 485

 Score =  404 bits (1038), Expect = e-110,   Method: Composition-based stats.
 Identities = 155/467 (33%), Positives = 240/467 (51%), Gaps = 28/467 (5%)

Query: 17  AYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYT 76
           A EK +D D    ++  +++ A ++ + T  +  V    E   + ++    VVEEV +  
Sbjct: 13  AQEKGLDEDFAFKIVEQTLKAAYKTTFKTDENAVVTFGEE--RVCIYARKRVVEEVYDRV 70

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            ++ L  A + DP+  +   V   L   DF R +VQ+A Q I +  RE ++D  Y E+K 
Sbjct: 71  SEVDLSTALELDPTTSLDSEVLVELESEDFKRGSVQAAVQRITELSREIQKDALYAEYKS 130

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           K GEII G  +R    ++ VDLG  +G++ +   + +++ R  DR+KS + +VR+  +  
Sbjct: 131 KEGEIIVGYYQRARNEHIYVDLGKVEGLMPKSHQLPQDDYRQNDRIKSLVREVRKHPKSS 190

Query: 197 --QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
             Q++LSRT   F+ +L  +EVPEIY+GIV+V  + R+PG R K+AV S    +DPVGAC
Sbjct: 191 VVQLILSRTDSAFVKELLAVEVPEIYDGIVEVAKIVREPGYRTKIAVTSRRDDVDPVGAC 250

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVP 313
           VG RG R++ V+ EL DEKID++ +SPD   F+ NAL PA V  VV+ DE+      IV 
Sbjct: 251 VGPRGIRIRMVIKELNDEKIDVLEYSPDPVIFIKNALSPAEVLNVVVLDEEKRSALAIVA 310

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ------------F 361
           + QLS+AIG++G NVRLA++L  W ID+ TE +           R               
Sbjct: 311 ESQLSIAIGKQGLNVRLANRLVDWNIDVKTESQFEEMDVYTDTRRAAENLFDNDYQEESE 370

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F   +     +  +L   G  DV+ L  +    + ++EG DE    E+     E  E   
Sbjct: 371 FSSYVGFTPELIKILQDNGIQDVQTLVDLGEEGLRALEGMDEAHVQELLAAIEENFE--- 427

Query: 422 ITLQKKIRELGVSEELCSIPGI--DSKIKVALGENGIKTMEDLAGCS 466
                 + E G    + S PG   D    +   E G++   D++ C 
Sbjct: 428 ------VVEEGEEASVTSSPGTGGDEDQALQCPECGVRITTDMSECP 468


>gi|257457666|ref|ZP_05622833.1| transcription elongation factor NusA [Treponema vincentii ATCC
           35580]
 gi|257445052|gb|EEV20128.1| transcription elongation factor NusA [Treponema vincentii ATCC
           35580]
          Length = 485

 Score =  404 bits (1038), Expect = e-110,   Method: Composition-based stats.
 Identities = 152/471 (32%), Positives = 251/471 (53%), Gaps = 19/471 (4%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGD--ISLFRLLE 67
           ++     A EK +D D+ + ++  +++ A ++ + T ++  V     TGD  I+++   +
Sbjct: 6   IEDVRKFALEKELDEDLAIKIVEQTLKAAYKTAFKTDANAVVI----TGDDAINIYARKK 61

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +V++V     ++ ++ A    P  +IG  +   L P DF R ++Q+  Q + Q  RE ++
Sbjct: 62  IVDDVVKPELEVDIEEATKLAPDCEIGDELLFELDPKDFKRGSIQAGVQRVHQSTREIQK 121

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           D  Y E+K K GEII G  +R +  N+ VDLG  +G++ R   + +E   P DR+K+ I 
Sbjct: 122 DSIYSEYKAKEGEIIIGYYQRKKNDNIYVDLGKVEGLLPRKFQLPQEIYHPNDRIKALIK 181

Query: 188 DVR--REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +V+  R+    Q++LSRT P F+ +L  +EVPEIY+ IV++  + R+PG R K+AV S  
Sbjct: 182 EVKKHRQSNVVQLILSRTDPDFVRRLMELEVPEIYDNIVELYKIVREPGYRTKVAVISHR 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG +GSR+Q ++TEL  EKID++ +S D A F+ NAL PA V  VV+ +  
Sbjct: 242 EDVDPVGACVGPKGSRIQTIITELEGEKIDVLEYSSDPAVFIANALSPAEVLNVVILDAE 301

Query: 306 GRIEV-IVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD---------F 355
            R+ + +V + QLS+AIG++G NVRLA++L  W+ID+ TE++                 F
Sbjct: 302 KRMALAVVAESQLSIAIGKQGLNVRLANRLADWSIDVKTEKQFQEMDIHAETRKAAEELF 361

Query: 356 NERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           N+          +D  +   L       VE+L  +   E+ ++ G  EE A  ++    E
Sbjct: 362 NDDAVLLKDVEGIDPGVLAALHENHIETVEQLLDIPHEELRALPGMSEEKAAALEALINE 421

Query: 416 YLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
             E ID   Q+  +E     +       D++      E G     D+  C 
Sbjct: 422 TFEIID-ENQESAQEPQPENQTMPASSEDAEEVYECPECGAPITIDMTVCP 471


>gi|228476580|ref|ZP_04061262.1| transcription termination factor NusA [Streptococcus salivarius
           SK126]
 gi|228251775|gb|EEK10840.1| transcription termination factor NusA [Streptococcus salivarius
           SK126]
          Length = 399

 Score =  404 bits (1038), Expect = e-110,   Method: Composition-based stats.
 Identities = 136/384 (35%), Positives = 217/384 (56%), Gaps = 20/384 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  EK I+++ ++  + +S++ A +  YG      VE N +TGD  ++ +
Sbjct: 2   SKEMLEAFRVLEEEKHINKEDIIDAVVESLKSAYKRRYGQSESAVVEFNEKTGDFQVYTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R+ 
Sbjct: 62  REVVDEVFDSRLEISLKDALAISSAYELGDKIRFEESVDEFGRVAAQSAKQTIMEKMRKQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R+  Y ++K   GEI+ GTV+R +   + V+LG  +  + R + I  E+ +  D +  Y
Sbjct: 122 MREITYNDYKQHEGEIMQGTVERFDQRFIYVNLGTLEAQLSRQDQIPGESFKSHDVIDVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S +
Sbjct: 182 VYKVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  GS ++ VV+                 +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGSNIKKVVSRFHPTRLDAKTGIEVPVEENIDVIQWVEDPAEFIYNAI 301

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V  V+ DED   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDYVLFDEDDSKRATVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEYEAL 361

Query: 351 RQKDFNERTQFFMQAINVDEIIAH 374
             +     T+       VDEI+A 
Sbjct: 362 EAEKAEAATEEV-----VDEIVAE 380


>gi|297621094|ref|YP_003709231.1| Transcription elongation protein nusA [Waddlia chondrophila WSU
           86-1044]
 gi|297376395|gb|ADI38225.1| Transcription elongation protein nusA [Waddlia chondrophila WSU
           86-1044]
          Length = 424

 Score =  404 bits (1038), Expect = e-110,   Method: Composition-based stats.
 Identities = 149/420 (35%), Positives = 239/420 (56%), Gaps = 10/420 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             +L+ I + +  EK I R++V+  + +S+Q AAR      S++ V+I+P+TG+I++F  
Sbjct: 2   NKDLVAIFEYLEKEKGIQREIVIHAIEESLQAAARKSVSGASNVTVQIDPKTGNINVFSE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            E+V+EVE    +I L+ AR+ DP  +IG  +     P DFGR+A Q A+Q+I QK+R A
Sbjct: 62  KEIVDEVEVPAQEILLEEAREIDPDCEIGQFIDILATPKDFGRIAAQKARQIISQKLRSA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           ERD  Y E++ +V E++SGTVKR   G N++VDLG  + ++   +    E  + GDRV +
Sbjct: 122 ERDVIYEEYRHRVNEVVSGTVKRFVKGANLVVDLGKVEALMPMRQYPKTEKYKIGDRVLA 181

Query: 185 YIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            + +V   +  G +V+LSR+ P+F+ +L   EVPEI  GIV +  + R+ G R KL V +
Sbjct: 182 LLMEVNDTDSGGAEVILSRSSPEFVRQLMIQEVPEIVEGIVVIDKIEREAGYRTKLTVRA 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +D  +DPVGACVGMRG+RV+ VV EL  EKIDI+ +S D    + NAL P  + K+ + E
Sbjct: 242 TDQKVDPVGACVGMRGNRVKNVVRELNSEKIDIIPYSDDPIELLQNALSPIEIRKISISE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF-- 361
           D   I +++  +  +  IG++G N RL S+L G+ +++    + +        E  +   
Sbjct: 302 DDRVISIVIDDDDYAAVIGKKGMNARLNSRLIGYELEVQRMTDYNKTMAIQRTELAESDD 361

Query: 362 ------FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
                       V++++   LVAEGF     L      ++++      E A  I  + R+
Sbjct: 362 PTLDHPLTGIEGVNKLVFEHLVAEGFNTPRTLLLASPEQLSNAASISLEMADHILEQVRK 421


>gi|306820436|ref|ZP_07454072.1| transcription termination factor NusA [Eubacterium yurii subsp.
           margaretiae ATCC 43715]
 gi|304551511|gb|EFM39466.1| transcription termination factor NusA [Eubacterium yurii subsp.
           margaretiae ATCC 43715]
          Length = 359

 Score =  404 bits (1038), Expect = e-110,   Method: Composition-based stats.
 Identities = 134/354 (37%), Positives = 220/354 (62%), Gaps = 12/354 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E ++  D +  +K I ++++L  +  +I  A +  YG+ +++ V I+ + GDI +   
Sbjct: 2   NTEFIRALDQLEKQKGIKKEILLDAINQAILNAYKKNYGSNAEVEVSIDTKKGDIKIINP 61

Query: 66  LEVVEE--VENYTCQISLKVA-RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           + +V++  V+    +++++ A +        G +V + + P DFGR+A Q+A+Q+++QK+
Sbjct: 62  ITIVDDDKVDILDNEMTVEYANQFFGKQYKEGDIVREEVTPKDFGRIATQAARQIVVQKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG---------NSDGVIRRDETISR 173
           +EAE+D QY EFK K  EII+G V R+    V  D+          N++GV+   E +S 
Sbjct: 122 KEAEKDIQYTEFKKKETEIITGMVSRISKSTVYADISILGENDIMINAEGVLPNGEQMSG 181

Query: 174 ENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDP 233
           +N   G  +K YI +V+R     Q++LSR+HP  + +LF MEVPEI++G V++ ++SR+ 
Sbjct: 182 DNYELGQNMKFYILEVKRTNNKTQIVLSRSHPGLVKRLFEMEVPEIFDGTVEIISISREA 241

Query: 234 GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP 293
           GSR K+AV ++   +DP+GACVG RG RV+ +  E+  EKIDI+ ++ D A ++  +L P
Sbjct: 242 GSRTKMAVKTNMQDVDPIGACVGTRGQRVKNITDEINGEKIDIIEYNDDLAEYITASLSP 301

Query: 294 AIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
           A V  V +DE+    +VIVP ++LSLAIG+ GQN RLA++LT W IDI  E E 
Sbjct: 302 AKVVSVEIDEEEKIAKVIVPDDKLSLAIGKEGQNARLAAKLTNWKIDIKCESEM 355


>gi|284030871|ref|YP_003380802.1| NusA antitermination factor [Kribbella flavida DSM 17836]
 gi|283810164|gb|ADB32003.1| NusA antitermination factor [Kribbella flavida DSM 17836]
          Length = 330

 Score =  404 bits (1038), Expect = e-110,   Method: Composition-based stats.
 Identities = 130/339 (38%), Positives = 198/339 (58%), Gaps = 24/339 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           + +  ++  EK I  +VV+  +  ++  A     G     R E++ +TG +++F      
Sbjct: 5   MAVLRSLEREKDIAFEVVVEAIEQALLVAYHRTEGAQQHARAELDRKTGHVTVF------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         AR+  P   +     D   P DFGR+A  +AKQVI+Q++R+AE + 
Sbjct: 59  --------------AREMGPDGTLVREYDD--TPADFGRIAATTAKQVILQRLRDAEDEV 102

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
           +Y EF  K G+I+SG V++  +  +V+VDLG  + V+   E +  E    G R++ Y+  
Sbjct: 103 RYGEFSGKEGDIVSGVVQQGRDPRSVMVDLGKIEAVLPGPEQVPGEKYEHGSRLRVYVVG 162

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           VR+  +GPQ+ +SRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV + + S+
Sbjct: 163 VRKGFKGPQITVSRTHPNLVKKLFALEVPEIADGTVEITAIAREAGHRTKIAVRTLNPSV 222

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV-LDEDVGR 307
           +  GAC+G  G RV+ ++ EL  EKIDI+  S D ATFV NAL PA V+ V  +D     
Sbjct: 223 NGKGACIGPMGQRVRNIMHELHGEKIDIIDHSDDPATFVGNALSPAQVSSVEVVDAAARA 282

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             V+VP  QLSLAIG+ GQN RLA++LTGW IDI  + +
Sbjct: 283 ARVVVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTD 321


>gi|256832250|ref|YP_003160977.1| NusA antitermination factor [Jonesia denitrificans DSM 20603]
 gi|256685781|gb|ACV08674.1| NusA antitermination factor [Jonesia denitrificans DSM 20603]
          Length = 354

 Score =  403 bits (1037), Expect = e-110,   Method: Composition-based stats.
 Identities = 135/347 (38%), Positives = 208/347 (59%), Gaps = 10/347 (2%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  E+ I  DV+L  +  ++  A +    ++   RVEI+ +TG + ++      
Sbjct: 5   MAALRMLEREREISLDVLLEAIEQALALAYQRTPDSLRHARVEIDRKTGQVVVWAR---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
           EE+E    ++  + A    P  ++G        P DFG VA  +A+QVI Q++R+ E D+
Sbjct: 61  EEIEREPARVDDEGA-YVPPVRELGDEFD--HTPKDFGHVATATARQVIFQRMRDVEDDQ 117

Query: 130 QYLEFKDKVGEIISGTVKRV-EYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYIY 187
              +FKDK G ++SG +++      V VDLGN  + V+   E +  E+ R G RV++Y+ 
Sbjct: 118 VLGQFKDKEGHVVSGIIQQAAHPRAVNVDLGNGVEAVLPEHEQVPGEDYRHGARVRAYVV 177

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V R+ +GP + LSRTHP  + +LF MEVPE+ +G V++ A++R+ G R K+AV S+   
Sbjct: 178 EVARKAKGPSITLSRTHPNLVRRLFEMEVPEVADGAVEIIALAREAGHRTKMAVTSTIPG 237

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVG 306
           ++P GAC+G  G RV+AV+ EL  EKIDIV ++ D A F+ +AL PA V+ V +LDE   
Sbjct: 238 LNPKGACIGPMGQRVRAVMAELGGEKIDIVDYTEDPAQFIASALSPATVSSVSILDERAR 297

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
              VIVP  QLSLAIG+ GQN RLA++LTGW IDI ++ +D     +
Sbjct: 298 MARVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIRSDADDQGAEVE 344


>gi|125624585|ref|YP_001033068.1| transcription elongation factor NusA [Lactococcus lactis subsp.
           cremoris MG1363]
 gi|124493393|emb|CAL98367.1| transcription elongation factor nusA [Lactococcus lactis subsp.
           cremoris MG1363]
 gi|300071376|gb|ADJ60776.1| transcription elongation factor NusA [Lactococcus lactis subsp.
           cremoris NZ9000]
          Length = 382

 Score =  403 bits (1037), Expect = e-110,   Method: Composition-based stats.
 Identities = 138/367 (37%), Positives = 219/367 (59%), Gaps = 2/367 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L     +  +K I  ++V+  +  +I  A +  YG   +++V  + + G+ +++  
Sbjct: 2   SKEMLNAFAMLEEQKGIKSEIVIEAIEQAITAAYKRQYGQAQNVKVIFDEKKGNFNVYST 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISL+ A + +P  +IG  +     P DF R A  +AKQVI+QK+RE 
Sbjct: 62  REVVDEVFDSRLEISLEDAHELNPHYEIGDKIMFEEKPKDFARTAAGAAKQVIMQKMREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y E+     EII GTV++V+   V V+LG  D ++ + + I +EN   GDRVK Y
Sbjct: 122 ERTIIYNEYSRYKDEIIQGTVEKVDARAVYVNLGRVDALLTKKDQIPQENFHVGDRVKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + DV    +G +V +SRT P  + ++F  E+PE+++G V++K+++RD G RAK+ V S D
Sbjct: 182 VTDVVLTPKGTRVFISRTAPDMLKRMFEKEIPEVFDGTVEIKSIARDAGDRAKVIVQSHD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++D +G  VG +GSR+Q ++ EL  EK+DI+ WS D AT V NAL+PA + +V++    
Sbjct: 242 ENVDAIGTMVGAKGSRIQGIIRELAGEKMDIIEWSEDKATLVANALKPARIEQVLIT-AD 300

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
           G    +V ++QLSLAIG+RGQNVRLA+ +T   IDI   +E +     +F          
Sbjct: 301 GSSLAVVARDQLSLAIGKRGQNVRLAAHVTNSKIDIKAADEFN-MDDYEFVGEADEETPT 359

Query: 366 INVDEII 372
           + V+E I
Sbjct: 360 LEVEETI 366


>gi|288925326|ref|ZP_06419260.1| transcription termination factor NusA [Prevotella buccae D17]
 gi|288337797|gb|EFC76149.1| transcription termination factor NusA [Prevotella buccae D17]
          Length = 421

 Score =  403 bits (1037), Expect = e-110,   Method: Composition-based stats.
 Identities = 137/414 (33%), Positives = 233/414 (56%), Gaps = 8/414 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           ++         K+IDR  ++SV+ +S +     ++G+  +  V +NP+ GD  ++R   V
Sbjct: 13  MIDTFREFKETKNIDRTTLVSVLEESFRNVLAKIFGSDENFDVIVNPDKGDFEIYRNRVV 72

Query: 69  VE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           V   EVE+   +I L  A+  +P  ++G  VS+ +    FGR A+ + +Q +  K+ E E
Sbjct: 73  VADGEVEDENKEICLTEAQKIEPDYEVGEDVSEKVDFNKFGRRAILTLRQTLASKILELE 132

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNV-IVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            D  Y ++KD+VG++ISG V ++    V IVD  N++ ++ + E I  +  R G+ V++ 
Sbjct: 133 HDSLYNKYKDRVGQVISGEVYQMWKREVLIVDDENNELILPKAEQIPADQYRKGETVRAV 192

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V  E   P+++LSRT P F+ +L   EVPEI +G++ ++ ++R PG RAK+AV S D
Sbjct: 193 ILRVDNENNNPKIILSRTSPMFLERLLEAEVPEISDGLIAIRKIARMPGDRAKVAVESFD 252

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVGACVG++GSRV  +V EL +E ID++ ++ +   F+  AL PA V+ + +DE+ 
Sbjct: 253 ERIDPVGACVGVKGSRVHGIVRELCNENIDVINYTSNVKLFIQRALSPAKVSSINIDEEN 312

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            + EV +  E++SLAIGR G N++LAS LT +TID+  E +++     D +   + F   
Sbjct: 313 HKAEVYLQPEEVSLAIGRGGMNIKLASMLTEYTIDVFREIDENA---ADEDIYLEEFSD- 368

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             +D+ +   + + G    +++       +      +EET   +    R   E 
Sbjct: 369 -EIDQWVIDAIKSIGLDTAKQVLNAPREMLIEKADLEEETVDNVLNVLRAEFEQ 421


>gi|307565711|ref|ZP_07628180.1| transcription termination factor NusA [Prevotella amnii CRIS 21A-A]
 gi|307345537|gb|EFN90905.1| transcription termination factor NusA [Prevotella amnii CRIS 21A-A]
          Length = 421

 Score =  403 bits (1036), Expect = e-110,   Method: Composition-based stats.
 Identities = 141/413 (34%), Positives = 238/413 (57%), Gaps = 8/413 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +  +R  +++        KSIDR  ++SV+ +S +     ++G+  +  V +NP+ GD  
Sbjct: 6   IEEDRPNMVETFKEFKDTKSIDRTTLVSVLEESFRNVLAKIFGSDENFDVIVNPDKGDFE 65

Query: 62  LFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           ++R   VV  +E+EN   QISL  AR  +P  ++G  VS+ +    FGR A+ + +Q + 
Sbjct: 66  IYRNRVVVADDELENENKQISLTDARKLEPDFEVGEDVSEKIDFNKFGRRAILNLRQTLA 125

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRP 178
            K+ E E D  Y ++K++VG+I+SG V +     V+ VD  N++ ++ + E I R+N R 
Sbjct: 126 SKILELEHDSLYNKYKNRVGQIVSGEVYQTWKREVLLVDEDNNEMILPKGEQIPRDNYRK 185

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           G+ +++ I+ V  +   P+++LSRT P+F+ +L   EVPEI +G++ +K V+R PG RAK
Sbjct: 186 GETIRAVIHRVTNDNNNPKIILSRTAPEFLERLLEAEVPEINDGLIAIKKVARMPGERAK 245

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D  IDPVGACVG+RGSRV  +V EL +E ID++ W+ ++  F+  AL PA V+ 
Sbjct: 246 IAVESYDERIDPVGACVGVRGSRVHGIVRELCNENIDVITWTANTKLFIQRALAPAKVSS 305

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           + +DE+  + EV +  E++SLAIGR G N++LAS LT +TID+  E +++     + +  
Sbjct: 306 LTIDEETKKAEVYLQPEEVSLAIGRNGLNIKLASMLTDYTIDVFRELDENET---EDDIY 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
              F     +D+ +   +   G     ++       +      +EET   +  
Sbjct: 363 LDEFAD--EIDQWVIDAIKGIGMETARQVLNAPREMLIEKADLEEETVDNVLN 413


>gi|227529106|ref|ZP_03959155.1| transcription termination factor NusA [Lactobacillus vaginalis ATCC
           49540]
 gi|227350950|gb|EEJ41241.1| transcription termination factor NusA [Lactobacillus vaginalis ATCC
           49540]
          Length = 410

 Score =  403 bits (1036), Expect = e-110,   Method: Composition-based stats.
 Identities = 136/404 (33%), Positives = 220/404 (54%), Gaps = 50/404 (12%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E++   D +  EK I +++V+  +  +++ A +  YG   ++ V+ +  TG+I ++ +
Sbjct: 7   NTEMIAALDYLEKEKGIKKEIVIEALEQALELAYKQNYG-EKNVEVDFDGVTGNIKVYAV 65

Query: 66  LEVVEEV----ENYTCQISLKVARD--RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
             + +      E+    +SL  AR        D+G  + + + P DFGR+A Q+AKQV++
Sbjct: 66  KTITDNEDLVEEDDNEYMSLADARKLPHGQGYDVGDEIREEVTPRDFGRIAAQTAKQVVM 125

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRP 178
           Q++RE ER   Y ++K    EII+G V R +     VDLG+  +G +   + +  E+   
Sbjct: 126 QRLREEERKIIYNKYKTYENEIITGEVSREDKRFTWVDLGDGVEGAMGYRDKMPNEHYHI 185

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR++ Y+  V  ++ GPQ+ +SRT P+ + +LF  EVPEI +G V ++ ++R+ G RAK
Sbjct: 186 HDRIQVYVSKVNDDRHGPQIFVSRTAPELLKRLFEREVPEIKDGTVLIENIAREAGDRAK 245

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV+S+D ++DPVG CVG RGSRVQA+V EL  E +DIV +  D A F+ NAL PA V  
Sbjct: 246 VAVYSNDPNVDPVGTCVGPRGSRVQAIVNELDGENMDIVEYVKDPAQFIANALNPAEVLD 305

Query: 299 VVLDED----------------------------------------VGRIEVIVPKEQLS 318
           V+ +E                                              V+VP  QLS
Sbjct: 306 VIFNEPEAPVTEEQPEENSTDDSVTETSDTSTEAESTEEEPVATTEERSCTVVVPDSQLS 365

Query: 319 LAIGRRGQNVRLASQLTGWTIDII--TEEEDSINRQKDFNERTQ 360
           LAIG+RGQN RLA++LT + IDI   +E ED+ +  ++  + ++
Sbjct: 366 LAIGKRGQNARLAARLTKYKIDIKPASEMEDNTDTLEEETDASE 409


>gi|330444480|ref|YP_004377466.1| transcription termination factor NusA [Chlamydophila pecorum E58]
 gi|328807590|gb|AEB41763.1| transcription termination factor NusA [Chlamydophila pecorum E58]
          Length = 435

 Score =  402 bits (1035), Expect = e-110,   Method: Composition-based stats.
 Identities = 147/431 (34%), Positives = 242/431 (56%), Gaps = 10/431 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             +L+ I D +  EK I R  ++S +  +++ AA+      ++I V INP TGDI +F  
Sbjct: 2   NKDLIAIFDYMEKEKGIQRTTIISAIESALKIAAKKTLRDDANISVNINPRTGDIEVFCE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            E+V+   N + +I L  AR+ DP  +IG  +  P    +FGR+A  +A+Q+I QK+R A
Sbjct: 62  KEIVDFCNNPSKEIPLDKAREFDPDCEIGQYMDVPFVSENFGRIAAHTARQIIGQKLRYA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           ERD  Y E++ +V EI+SG VKR   G N+I+DLG  + ++        E  + GD++ +
Sbjct: 122 ERDVIYEEYRHRVNEILSGVVKRFVKGSNLIIDLGKVEAILPARFYPKTEKHKIGDKIYA 181

Query: 185 YIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            +Y+V+  +  G +V+LSR+HP+F+ +LF  EVPE+  G+V +  ++R+PG R KLAV S
Sbjct: 182 LLYEVQELDNGGAEVILSRSHPEFVKQLFLQEVPELEEGVVSIVKIAREPGYRTKLAVSS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           SD   DPVGA VGMRG+RV+ ++ EL DEKIDIV +S      + N L P  + K+ + E
Sbjct: 242 SDFKTDPVGAFVGMRGARVKNIIRELNDEKIDIVNYSSTPTELLQNLLYPIEIQKIAILE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI------NRQKDFN- 356
           D   I ++V     +  IG+RG N RL SQ+  + +++    E +        +  +F+ 
Sbjct: 302 DDKVIAIVVNDADYATVIGKRGINARLISQILDYELEVQRMSEYNKLLEIQRLQLAEFDS 361

Query: 357 -ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
            +  Q   +   + +++   L   G+  + ++     S+++S+ G   E A +I  +  +
Sbjct: 362 PQLDQPLQEIEGISKLVIQNLEHAGYDTIRKVLLASASDLSSVPGIGLELAYKILEQVSK 421

Query: 416 YLEGIDITLQK 426
           Y EG      +
Sbjct: 422 YGEGKVDEKPE 432


>gi|295836231|ref|ZP_06823164.1| transcription termination factor NusA [Streptomyces sp. SPB74]
 gi|295825916|gb|EFG64550.1| transcription termination factor NusA [Streptomyces sp. SPB74]
          Length = 365

 Score =  402 bits (1035), Expect = e-110,   Method: Composition-based stats.
 Identities = 127/339 (37%), Positives = 193/339 (56%), Gaps = 18/339 (5%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  EK I  D ++  +  ++  A      +    RV ++ E+G ++++    V 
Sbjct: 5   MSALRGLVREKEISFDRLVEAIESALLIAYHRTEHSHRRARVHLDRESGHVTVW----VK 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
           E+  +         AR+ D              P DFGR+A  +AKQVI+Q++R+A+ D 
Sbjct: 61  EDEADLADLGEGARAREFDD------------TPSDFGRIAATTAKQVILQRLRDAQDDA 108

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              E+  + G+I++G V++  +  NV+VD+G  + ++   E +  E    G R++SY+  
Sbjct: 109 TLGEYAGREGDIVTGVVQQGRDPKNVLVDIGKLEAILPVQEQVPGEEYTHGLRLRSYVVR 168

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  RGP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S +
Sbjct: 169 VAKGMRGPSVTLSRTHPNLVKKLFSLEVPEIADGSVEIAAIAREAGHRTKIAVRSNRSGL 228

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  G RV+ V+ EL  EKIDIV WS + A  V +AL PA V+ V V+D     
Sbjct: 229 NAKGACIGPMGGRVRNVMAELNGEKIDIVDWSDNPAELVAHALSPARVSHVEVVDLATRS 288

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             V VP  QLSLAIG+ GQN RLA++LTGW IDI  + E
Sbjct: 289 ARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTE 327


>gi|281491260|ref|YP_003353240.1| transcription antitermination factor [Lactococcus lactis subsp.
           lactis KF147]
 gi|281375001|gb|ADA64519.1| Transcription antitermination factor [Lactococcus lactis subsp.
           lactis KF147]
          Length = 382

 Score =  402 bits (1035), Expect = e-110,   Method: Composition-based stats.
 Identities = 134/348 (38%), Positives = 215/348 (61%), Gaps = 1/348 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L     +  +K I  ++V+  +  +I  A +  YG   +++V  + + G+ +++  
Sbjct: 2   SKEMLNAFAMLEEQKGIKSEIVIEAIEQAITAAYKRQYGQAQNVKVIFDEKKGNFNVYST 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISL+ A + +P  +IG  +     P DF R A  +AKQVI+QK+RE 
Sbjct: 62  REVVDEVFDSRLEISLEDAHELNPHYEIGDKIMFEEKPKDFARTAAGAAKQVIMQKMREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y E+     EII GTV++V+   V V+LG  D ++ + + I +EN   GDRVK Y
Sbjct: 122 ERTIIYNEYSRYKDEIIQGTVEKVDARAVYVNLGRVDALLTKKDQIPQENFHVGDRVKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + DV    +G +V +SRT P  + ++F  E+PE+++G V++K+++RD G RAK+ V S D
Sbjct: 182 VTDVVLTPKGTRVFISRTAPDMLKRMFEKEIPEVFDGTVEIKSIARDAGDRAKVIVQSHD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++D +G  VG +GSR+Q ++ EL  EK+DI+ WS D AT V NAL+PA + +V++    
Sbjct: 242 ENVDAIGTMVGAKGSRIQGIIHELAGEKMDIIEWSEDKATLVANALKPARIEQVLIT-AD 300

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
           G    +V ++QLSLAIG+RGQNVRLA+ +T   IDI   +E +++  +
Sbjct: 301 GSSLAVVARDQLSLAIGKRGQNVRLAAHVTNSKIDIKAADEFNMDDYE 348


>gi|212550409|ref|YP_002308726.1| transcription elongation factor NusA [Candidatus Azobacteroides
           pseudotrichonymphae genomovar. CFP2]
 gi|212548647|dbj|BAG83315.1| transcription elongation factor NusA [Candidatus Azobacteroides
           pseudotrichonymphae genomovar. CFP2]
          Length = 417

 Score =  402 bits (1034), Expect = e-110,   Method: Composition-based stats.
 Identities = 133/416 (31%), Positives = 228/416 (54%), Gaps = 13/416 (3%)

Query: 11  QIADAVAY---EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
            + +A A     K+IDR  ++SV+ ++ + A   ++G+  +  + +NP+ GD  ++R  E
Sbjct: 9   NMIEAFANFKSNKNIDRTTLISVLEETFRNAINKMFGSDKNYNIIVNPDKGDFEIWRNRE 68

Query: 68  VVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV +  +EN   QI+L  AR  DP  + G  +SD +    FGR  V + +Q++  K+ E 
Sbjct: 69  VVPDDKLENPNLQITLSEARKIDPDYESGEEISDAVNFSSFGRRTVLNLRQILTSKILEL 128

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNV-IVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           + +  Y ++KDK+G I++G V ++    + ++D   ++ ++ + E I  +  R  +  ++
Sbjct: 129 QNNSLYNKYKDKIGHIVTGEVYQIWKKEILLLDDEGNELILPKSEQIPNDFFRKNESCRA 188

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V      P+++LSRT   FM +LF +EVPEI +G++ +K ++R PG RAK+AV S 
Sbjct: 189 VVLRVDNNYSNPKIILSRTSNSFMQQLFELEVPEIQDGLITIKHIARIPGERAKIAVESY 248

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           +  IDP+G CVGM+G R+  +V ELR+E IDI+ ++ + + F+  AL PA ++ + + E 
Sbjct: 249 NERIDPIGTCVGMKGMRIHGIVRELRNENIDIINYTSNISLFIQRALSPAKISSIKIHEK 308

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
             + EV +  E++SLAIG+ G N++LAS LTG+TID+  E E       D +     F  
Sbjct: 309 EKKAEVFLRPEEVSLAIGKSGLNIKLASILTGYTIDVFREGE-----NDDEDIYLDEFKD 363

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
              ++E I   L   G    + +      EI      +E T  EI    +   E  
Sbjct: 364 --EIEEWIIEALKNIGCYTAKSVLTKNKEEIVRQTDLEENTVDEILKILKTEFEEE 417


>gi|258647228|ref|ZP_05734697.1| transcription termination factor NusA [Prevotella tannerae ATCC
           51259]
 gi|260852981|gb|EEX72850.1| transcription termination factor NusA [Prevotella tannerae ATCC
           51259]
          Length = 419

 Score =  402 bits (1034), Expect = e-110,   Method: Composition-based stats.
 Identities = 136/411 (33%), Positives = 235/411 (57%), Gaps = 11/411 (2%)

Query: 6   RLELLQIADAVA--YE-KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISL 62
           + E++ + D  A   E K+IDR  ++SV+ +S +     L+G+  +  V +NP+ GD  +
Sbjct: 5   KAEVISLTDTFAEFKENKNIDRTTLVSVLEESFRSVITKLFGSDENFDVIVNPDKGDCEI 64

Query: 63  FRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +R   VV +  VE++  QISL  AR+ D   + G  VS+P+    FGR A+ + +Q +  
Sbjct: 65  YRNRVVVADNAVEDHKSQISLTEAREIDSDYEEGEEVSEPINFAKFGRRAILTLRQTLAS 124

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLRPG 179
           K+ E + D  + ++KD+VGEII+  V +      +++D   ++  + +++ I R+    G
Sbjct: 125 KLLELDHDALFNKYKDRVGEIIAAEVYQTWKQETLLMDDEGNELYLPKNQQIPRDFFHKG 184

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           D V++ I  V      P++ LSRT P+F+ +L   E+PEI +G++ +K ++R PG RAK+
Sbjct: 185 DNVRAVIDRVDNLNGTPKIFLSRTSPEFLRRLLEQEIPEIGDGLISLKRIARIPGERAKI 244

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S D  IDPVGACVG++GSR+  +V EL +E ID++ ++ + A F+  AL PA V+ +
Sbjct: 245 AVESYDDRIDPVGACVGVKGSRIHGIVRELHNENIDVINYTSNPALFIQRALNPAQVSSI 304

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
            LDE+  + +V +  E++SLAIG+ GQN++LAS LT +TID+  E E      ++ +   
Sbjct: 305 QLDEENRKAQVYLRPEEVSLAIGKGGQNIKLASMLTEYTIDVFREVE---GDDQEDDIFL 361

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
             F     +D+ +   + + G    +++       +      +E T  E+ 
Sbjct: 362 DEFAD--EIDQWVIDAIKSIGLQTAKDVLNAPRQMLIEKADLEESTVDEVL 410


>gi|55820434|ref|YP_138876.1| transcription elongation factor NusA [Streptococcus thermophilus
           LMG 18311]
 gi|55822318|ref|YP_140759.1| transcription elongation factor NusA [Streptococcus thermophilus
           CNRZ1066]
 gi|55736419|gb|AAV60061.1| transcription termination-antitermination factor [Streptococcus
           thermophilus LMG 18311]
 gi|55738303|gb|AAV61944.1| transcription termination-antitermination factor [Streptococcus
           thermophilus CNRZ1066]
          Length = 395

 Score =  402 bits (1034), Expect = e-110,   Method: Composition-based stats.
 Identities = 131/355 (36%), Positives = 207/355 (58%), Gaps = 15/355 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  EK I+++ ++  + +S++ A +  YG      VE N +TGD  +F +
Sbjct: 2   SKEMLEAFRVLEEEKHINKEDIIDAVVESLKSAYKRRYGQSESAVVEFNEKTGDFQVFTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R+ 
Sbjct: 62  REVVDEVFDSRLEISLKDALAISSAYELGDKIRFEESVDEFGRVAAQSAKQTIMEKMRKQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R+  Y E+K   GEI+ GTV+R +   + V+LG  +  + R + I  E+ +  D +  Y
Sbjct: 122 MREITYNEYKQHEGEIMQGTVERFDQRFIYVNLGTLEAQLSRQDQIPGESFKSHDVIDVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S +
Sbjct: 182 VYKVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  GS ++ VV+                 +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGSNIKKVVSRFHPTRLDAKTGIEVPVEENIDVIQWVEDPAEFIYNAI 301

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
            PA V  V+ DED   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  
Sbjct: 302 APAEVDYVLFDEDDSKRATVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSAS 356


>gi|119717416|ref|YP_924381.1| transcription elongation factor NusA [Nocardioides sp. JS614]
 gi|119538077|gb|ABL82694.1| transcription termination factor NusA [Nocardioides sp. JS614]
          Length = 327

 Score =  402 bits (1033), Expect = e-110,   Method: Composition-based stats.
 Identities = 131/341 (38%), Positives = 198/341 (58%), Gaps = 24/341 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           + I   +  EK I  DV++  +  ++  A     G     RV ++ ++G +++       
Sbjct: 5   MSILRMLEREKEISFDVLVEAIEQALLTAYHKSPGAHEQARVVLDRKSGHVTVL------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A + D   +  G   D   P  FGR+A  +AKQ+++Q++R+AE D 
Sbjct: 59  --------------ASEVDEEGNAVGEYDD--TPAGFGRIAATTAKQIMLQRLRDAEDDV 102

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
           ++ EF  K G+IISG +++     +V+VDLG  + ++   E +  E    G R+K  +  
Sbjct: 103 RFGEFSGKEGDIISGIIQQGRNPDDVMVDLGKLEALLPVGERVPGERYDHGTRIKCLVVS 162

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           VR+  RGPQ+ LSR+HP  + KLF +EVPEI +G V++ A++R+ G R KLAV S+   +
Sbjct: 163 VRKGMRGPQITLSRSHPNLVKKLFALEVPEIADGTVEIAAIAREAGHRTKLAVRSTVPGV 222

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  GSRV+AV++EL  EKIDIV WS D A  V +AL PA VT V ++D     
Sbjct: 223 NAKGACIGPMGSRVRAVMSELHGEKIDIVDWSEDPAEMVAHALSPARVTSVEIVDAAAKS 282

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
             V+VP  QLSLAIG+ GQN RLA++LTGW IDI ++E ++
Sbjct: 283 ARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRSDEAEA 323


>gi|313889714|ref|ZP_07823357.1| transcription termination factor NusA [Streptococcus pseudoporcinus
           SPIN 20026]
 gi|313122011|gb|EFR45107.1| transcription termination factor NusA [Streptococcus pseudoporcinus
           SPIN 20026]
          Length = 384

 Score =  402 bits (1033), Expect = e-109,   Method: Composition-based stats.
 Identities = 131/382 (34%), Positives = 222/382 (58%), Gaps = 16/382 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  EK I+++ ++  + +S++ A +  YG      +E N +TGD  +F +
Sbjct: 2   SKEMLEAFRILEEEKHINKEDIIEAVTESLKSAYKRRYGQSESCVIEFNEKTGDFQVFSV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEV +   +ISL  A     + ++G  +       +FGRVA QSAKQ I++K+R  
Sbjct: 62  REVVEEVFDSRLEISLSDALAISSAYELGDKIRFEESVAEFGRVAAQSAKQTIMEKMRRQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R+  Y E+K+  GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR++ Y
Sbjct: 122 MREVTYNEYKEHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIEVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S +
Sbjct: 182 VYKVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGSNIKKVISKFHPKRYDAKTGIEIPVEENIDVIQWVDDPAEFIYNAI 301

Query: 292 RPAIVTKVVLDE-DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE-DSI 349
            PA V  V+ D+ D  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  + +++
Sbjct: 302 APAEVDMVLFDDTDTKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASDYEAL 361

Query: 350 NRQKDFNERTQFFMQAINVDEI 371
             +++    ++   Q + V E 
Sbjct: 362 EAEQEEVNTSEEVDQGLPVTEE 383


>gi|15672746|ref|NP_266920.1| transcription elongation factor NusA [Lactococcus lactis subsp.
           lactis Il1403]
 gi|12723682|gb|AAK04862.1|AE006310_4 transcription termination protein NusA [Lactococcus lactis subsp.
           lactis Il1403]
          Length = 382

 Score =  401 bits (1032), Expect = e-109,   Method: Composition-based stats.
 Identities = 134/348 (38%), Positives = 215/348 (61%), Gaps = 1/348 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L     +  +K I  ++V+  +  +I  A +  YG   +++V  + + G+ +++  
Sbjct: 2   SKEMLNAFAMLEEQKGIKSEIVIEAIEQAITAAYKRQYGQAQNVKVIFDEKKGNFNVYST 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISL+ A + +P  +IG  +     P DF R A  +AKQVI+QK+RE 
Sbjct: 62  REVVDEVFDSRLEISLEDAHELNPHYEIGDKIMFEEKPKDFARTAAGAAKQVIMQKMREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y E+     EII GTV++V+   V V+LG  D ++ + + I +EN   GDRVK Y
Sbjct: 122 ERTIIYNEYSRYKDEIIQGTVEKVDARAVYVNLGRVDALLTKKDQIPQENFHVGDRVKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + DV    +G +V +SRT P  + ++F  E+PE+++G V++K+++RD G RAK+ V S D
Sbjct: 182 VTDVVLTPKGTRVFISRTAPDMLKRMFEKEIPEVFDGTVEIKSIARDAGDRAKVIVQSHD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++D +G  VG +GSR+Q ++ EL  EK+DI+ WS D AT V NAL+PA + +V++    
Sbjct: 242 ENVDAIGTMVGTKGSRIQGIIRELAGEKMDIIEWSEDKATLVANALKPARIEQVLIT-AD 300

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
           G    +V ++QLSLAIG+RGQNVRLA+ +T   IDI   +E +++  +
Sbjct: 301 GSSLAVVARDQLSLAIGKRGQNVRLAAHVTNSKIDIKAADEFNLDDYE 348


>gi|312139328|ref|YP_004006664.1| transcriptional termination/antitermination factor nusa
           [Rhodococcus equi 103S]
 gi|325676662|ref|ZP_08156337.1| transcription elongation factor NusA [Rhodococcus equi ATCC 33707]
 gi|311888667|emb|CBH47979.1| transcriptional termination/antitermination factor NusA
           [Rhodococcus equi 103S]
 gi|325552517|gb|EGD22204.1| transcription elongation factor NusA [Rhodococcus equi ATCC 33707]
          Length = 343

 Score =  401 bits (1032), Expect = e-109,   Method: Composition-based stats.
 Identities = 130/345 (37%), Positives = 195/345 (56%), Gaps = 30/345 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  +K I    +++ +  ++  A R   G     R++++ ++G + +       
Sbjct: 5   IAALRAIEADKGISAGTIIAAIETALLTAYRHTEGHQPHARIDVDTKSGVVRVM------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         ARD D   +  G   D   P  FGR+A  +A+QVI+Q++R+AE +R
Sbjct: 59  --------------ARDVDSDGNQVGEEWDD-TPEGFGRIAATTARQVILQRLRDAEHER 103

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN----VIVDLG----NSDGVIRRDETISRENLRPGDR 181
            + EF    GEI+ G ++R    N    V+V +G     ++G+I   E +  E    GDR
Sbjct: 104 SFGEFATHEGEIVGGVIQRDTRANARGMVVVRIGSEANGAEGLIPPAEQVPGETYEHGDR 163

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V R QRGPQ+ LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV
Sbjct: 164 IKCYVVGVSRGQRGPQITLSRTHPNLVRKLFALEVPEIADGSVEIVAVARESGHRSKIAV 223

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            S    ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL P+ V  V V
Sbjct: 224 HSRVPGLNAKGACIGPMGQRVRNVMSELAGEKIDIIDYDEDPAKFVGNALSPSKVVSVTV 283

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +D +     V+VP  QLSLAIG+ GQN RLA++LTGW IDI ++ 
Sbjct: 284 VDPEARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRSDA 328


>gi|258652414|ref|YP_003201570.1| transcription elongation factor NusA [Nakamurella multipartita DSM
           44233]
 gi|258555639|gb|ACV78581.1| NusA antitermination factor [Nakamurella multipartita DSM 44233]
          Length = 336

 Score =  401 bits (1032), Expect = e-109,   Method: Composition-based stats.
 Identities = 131/345 (37%), Positives = 198/345 (57%), Gaps = 31/345 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    AV  EK ID + ++  +  ++  A R   G     RV+I+ +TG I ++      
Sbjct: 5   IAALRAVEKEKGIDFNSLIDTLETALLTAYRHTQGHAGHARVQIDRKTGGIRVW------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A++ D S +I     D   P DFGR+A  +A+QVI+Q++R+ + +R
Sbjct: 59  --------------AQETDDSGEIVREWDD--TPEDFGRIAATTARQVILQRLRDVDNER 102

Query: 130 QYLEFKDKVGEIISGTV----KRVEYGNVIVDLGN----SDGVIRRDETISRENLRPGDR 181
            + +F  +  ++I+GT+    K    G V+V LG      +G+I   E +  E+   G R
Sbjct: 103 TFGDFAGREHDLITGTISADAKVNARGVVVVSLGEGKNAVEGIIPAAEQVPGESYPHGQR 162

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ Y+  V R  RGPQ+ LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV
Sbjct: 163 LRCYVVSVARGLRGPQITLSRTHPNLVRKLFALEVPEIADGSVEITAVAREAGHRSKIAV 222

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK-VV 300
             + + ++  GAC+G  G+RV+AV++EL  EKIDI+ +  D ATFV NAL PA      V
Sbjct: 223 RPAVAGVNAKGACIGPMGARVRAVMSELNGEKIDIIDYDEDPATFVGNALSPARALSTTV 282

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +D       V+VP  QLSLAIG+ GQN RLA++LTGW IDI ++ 
Sbjct: 283 IDPVAKAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRSDA 327


>gi|167764123|ref|ZP_02436250.1| hypothetical protein BACSTE_02506 [Bacteroides stercoris ATCC
           43183]
 gi|167698239|gb|EDS14818.1| hypothetical protein BACSTE_02506 [Bacteroides stercoris ATCC
           43183]
          Length = 421

 Score =  401 bits (1031), Expect = e-109,   Method: Composition-based stats.
 Identities = 141/424 (33%), Positives = 242/424 (57%), Gaps = 11/424 (2%)

Query: 4   ANRLELLQIADAVA--YE-KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           A + E + + D  +   E K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD 
Sbjct: 2   AKKEETISLIDTFSEFKELKNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDF 61

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R  EVV  E++EN   QISL  AR  D S ++G  V+D +    FGR A+ + +Q +
Sbjct: 62  EIWRNREVVADEDLENPNLQISLSEARKIDASYEVGEEVTDEVNFAKFGRRAILNLRQTL 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLR 177
             K+ E E+D  Y ++ DKVG II+  V ++     +++D   ++ ++ + E I  +  R
Sbjct: 122 ASKILELEKDSIYNKYIDKVGTIINAEVYQIWKKEMLLLDDEGNELLLPKTEQIPSDFYR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+  ++ +  V  +   P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RA
Sbjct: 182 KGETARAVVARVDNKNNNPKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVG++GSR+  +V ELR+E ID++ ++ +   F+  AL PA ++
Sbjct: 242 KIAVESYDDRIDPVGACVGVKGSRIHGIVRELRNENIDVINYTSNIQLFIQRALSPAKIS 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            + L+E+  + EV +  E++SLAIG+ G N++LAS LT +TID+  E ++++   +D + 
Sbjct: 302 SIRLNEEEHKAEVFLKPEEVSLAIGKGGLNIKLASMLTEYTIDVFRELDEAV---EDEDI 358

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F     +D  +   + A G    + +       +      +EET  E+    +   
Sbjct: 359 YLDEFRD--EIDGWVIDAIKAIGIDTAKAVLNAPREMLIEKTDLEEETVDEVLRILKSEF 416

Query: 418 EGID 421
           E  +
Sbjct: 417 EEGE 420


>gi|319947585|ref|ZP_08021815.1| transcription elongation factor NusA [Streptococcus australis ATCC
           700641]
 gi|319746273|gb|EFV98536.1| transcription elongation factor NusA [Streptococcus australis ATCC
           700641]
          Length = 381

 Score =  401 bits (1031), Expect = e-109,   Method: Composition-based stats.
 Identities = 130/380 (34%), Positives = 213/380 (56%), Gaps = 15/380 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L     +  +K I ++ ++  + +S++ A R  YG      +E N +TGD  ++ +
Sbjct: 2   SKEMLDAFRILEEDKGIKKEDIIEAVTESLRSAYRRRYGQAESAAIEFNEKTGDFRVYTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 62  REVVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E  +  DR++ +
Sbjct: 122 TRAITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFQSHDRIEVF 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S +
Sbjct: 182 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  GS ++ + ++                +E ID++ W PD A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGSNIKKITSKFHPARYDQKLDRMVPTEENIDVIEWVPDPAEFIYNAI 301

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ DE+      V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDQVIFDEEDSKHALVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEYEEM 361

Query: 351 RQKDFNERTQFFMQAINVDE 370
                    +      +VDE
Sbjct: 362 EASQEPAFEEVESDLNSVDE 381


>gi|226226960|ref|YP_002761066.1| transcription elongation protein NusA [Gemmatimonas aurantiaca
           T-27]
 gi|226090151|dbj|BAH38596.1| transcription elongation protein NusA [Gemmatimonas aurantiaca
           T-27]
          Length = 438

 Score =  401 bits (1031), Expect = e-109,   Method: Composition-based stats.
 Identities = 158/430 (36%), Positives = 241/430 (56%), Gaps = 12/430 (2%)

Query: 4   ANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLF 63
           A   ++L     ++  K I R+ +  ++ D I  A    +G      VEI+   G+I + 
Sbjct: 2   AGSADILTALRELSNLKQITREELHGLLQDGIHAALAKKHGANVQAEVEIDEARGEIRIV 61

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
            L  VV+EV + + +++++ AR  DP   +G V+  P+  M+FGR AVQ+AKQ IIQ+VR
Sbjct: 62  LLKTVVDEVTDESREVTVEEARFMDPEFQVGDVMEIPVDFMEFGRTAVQAAKQRIIQRVR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN---SDGVIRRDETISRENLRPGD 180
           E ER R   EF  +VG+++SG V+++E G ++V L     ++ +I   E   RE+   G+
Sbjct: 122 EGERTRIRDEFAGRVGDLLSGEVQQIERGKLVVMLNKFREAEAIIPYREQNHREHYHQGE 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            V++ +  V    +GP+++LSR+   F+  LF +EVPEI  GIV++KA +R+ GSR K+A
Sbjct: 182 PVRAVLKRVEDTPKGPRLILSRSDALFVQALFKLEVPEIQQGIVEIKAAAREVGSRTKIA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S D ++DPVGACVG++G+RVQAVV EL  E+IDIV WSPD   F   AL PA V +V 
Sbjct: 242 VTSRDEAVDPVGACVGLKGARVQAVVNELGGERIDIVPWSPDPERFAKLALAPARVARVF 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT---------EEEDSINR 351
            D     I+ +V ++QLSLAIGR GQNVRLAS+LTGW ID+ +         E       
Sbjct: 302 SDAASRTIQAVVDEDQLSLAIGRNGQNVRLASELTGWKIDLYSSREWLEKGGEAPLFAPL 361

Query: 352 QKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
            ++  E      +   ++     +L   G+  + ++  +   ++  + G   E A  I  
Sbjct: 362 PEETEEADVPLNEIEGLETATVAVLAEAGYRTLNDILDLDRDDLLRLPGIAPEEADRIMA 421

Query: 412 RAREYLEGID 421
              E     D
Sbjct: 422 IIDELTTEDD 431


>gi|326406315|gb|ADZ63386.1| transcription antitermination factor [Lactococcus lactis subsp.
           lactis CV56]
          Length = 382

 Score =  401 bits (1031), Expect = e-109,   Method: Composition-based stats.
 Identities = 134/348 (38%), Positives = 215/348 (61%), Gaps = 1/348 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L     +  +K I  ++V+  +  +I  A +  YG   +++V  + + G+ +++  
Sbjct: 2   SKEMLNAFAMLEEQKGIKSEIVIEAIEQAITAAYKRQYGQAQNVKVIFDEKKGNFNVYST 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISL+ A + +P  +IG  +     P DF R A  +AKQVI+QK+RE 
Sbjct: 62  REVVDEVFDSRLEISLEDAHELNPHYEIGDKIMFEEKPKDFARTAAGAAKQVIMQKMREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y E+     EII GTV++V+   V V+LG  D ++ + + I +EN   GDRVK Y
Sbjct: 122 ERTIIYNEYSRYKDEIIQGTVEKVDARAVYVNLGRVDALLTKKDQIPQENFHVGDRVKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + DV    +G +V +SRT P  + ++F  E+PE+++G V++K+++RD G RAK+ V S D
Sbjct: 182 VTDVVLTPKGTRVFISRTAPDMLKRMFEKEIPEVFDGTVEIKSIARDAGDRAKVIVQSHD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++D +G  VG +GSR+Q ++ EL  EK+DI+ WS D AT V NAL+PA + +V++    
Sbjct: 242 ENVDAIGTMVGAKGSRIQGIIRELAGEKMDIIEWSEDKATLVANALKPARIEQVLIT-AD 300

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
           G    +V ++QLSLAIG+RGQNVRLA+ +T   IDI   +E +++  +
Sbjct: 301 GSSLAVVARDQLSLAIGKRGQNVRLAAHVTNSKIDIKAADEFNLDDYE 348


>gi|329954143|ref|ZP_08295238.1| transcription termination factor NusA [Bacteroides clarus YIT
           12056]
 gi|328528120|gb|EGF55100.1| transcription termination factor NusA [Bacteroides clarus YIT
           12056]
          Length = 421

 Score =  401 bits (1031), Expect = e-109,   Method: Composition-based stats.
 Identities = 141/424 (33%), Positives = 242/424 (57%), Gaps = 11/424 (2%)

Query: 4   ANRLELLQIADAVA--YE-KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           A + E + + D  +   E K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD 
Sbjct: 2   AKKEETISLIDTFSEFKELKNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDF 61

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R  EVV  E++EN   QISL  AR  D S ++G  V+D +    FGR A+ + +Q +
Sbjct: 62  EIWRNREVVADEDLENPNLQISLSEARKIDASYEVGEEVTDEVNFAKFGRRAILNLRQTL 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLR 177
             K+ E E+D  Y ++ DKVG II+  V ++     +++D   ++ ++ + E I  +  R
Sbjct: 122 ASKILELEKDSIYNKYIDKVGTIINAEVYQIWKKEMLLLDDEGNELLLPKTEQIPSDFYR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+  ++ +  V  +   P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RA
Sbjct: 182 KGETARAVVARVDNKNNNPKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVG++GSR+  +V ELR+E ID++ ++ +   F+  AL PA ++
Sbjct: 242 KIAVESYDDRIDPVGACVGVKGSRIHGIVRELRNENIDVINYTSNIQLFIQRALSPAKIS 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            + L+E+  + EV +  E++SLAIG+ G N++LAS LT +TID+  E ++++   +D + 
Sbjct: 302 SIRLNEEEHKAEVFLKPEEVSLAIGKGGLNIKLASMLTEYTIDVFRELDEAV---EDEDI 358

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F     +D  +   + A G    + +       +      +EET  E+    +   
Sbjct: 359 YLDEFRD--EIDGWVIDAIKAIGIDTAKAVLNAPREMLIEKTDLEEETVDEVLRILKSEF 416

Query: 418 EGID 421
           E  +
Sbjct: 417 EEEN 420


>gi|255348459|ref|ZP_05380466.1| transcription elongation factor NusA [Chlamydia trachomatis 70]
 gi|255503001|ref|ZP_05381391.1| transcription elongation factor NusA [Chlamydia trachomatis 70s]
          Length = 434

 Score =  400 bits (1030), Expect = e-109,   Method: Composition-based stats.
 Identities = 148/424 (34%), Positives = 237/424 (55%), Gaps = 9/424 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             +L+ I D +  EK I R  ++  +  +++ AA+      +++ V INP TGDI +F  
Sbjct: 2   NKDLVAIFDYMEREKGIQRSTIVGAIESALKIAAKKTLRDDANVSVSINPRTGDIEVFCE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            ++VE+ +N + +I L  AR+ DP   IG  +  P     FGR+A  +A+Q+I QK+R A
Sbjct: 62  KQIVEKCQNPSKEIPLDKAREYDPDCQIGQYMDVPFISDQFGRIAAHAARQIIGQKLRHA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           ERD  Y E++ +  EIISG VK    G N++VDLG  +G++        E  + GD++ +
Sbjct: 122 ERDVIYEEYRHRKNEIISGVVKSFARGANLVVDLGKVEGLLPARFYPKTEKHKVGDKIYA 181

Query: 185 YIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            +Y+V   E  G +V+LSR+HP+F+ +LF  EVPE+  G V++  ++R+ G R K+AV S
Sbjct: 182 LLYEVQESENGGAEVILSRSHPEFVKQLFVQEVPELEEGSVEIVKIAREAGYRTKMAVRS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           SD   D VGA VGMRGSR++ ++ EL DEKID+V +SP S   + N L P  + K+ + E
Sbjct: 242 SDPQTDAVGAFVGMRGSRIKNIIRELNDEKIDVVNYSPVSTELLQNLLYPVEIQKIAILE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI-------NRQKDFN 356
           D   I +IV     +  IG+RG N RL SQ+ G+ +++    E +           +  +
Sbjct: 302 DDKVIAIIVQDSDYATVIGKRGINARLISQILGYELEVQRVSEYNKLLEIQRLQLAEFED 361

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
            R    ++   ++ +I   L   G+  + ++     SE+AS+ G   E A +I  +  +Y
Sbjct: 362 PRLDQPLEVEGINTLIVQNLEHAGYDTIRKILLASASELASVPGISLELAYKILEQVSKY 421

Query: 417 LEGI 420
            EG 
Sbjct: 422 GEGK 425


>gi|15834991|ref|NP_296750.1| transcription elongation factor NusA [Chlamydia muridarum Nigg]
 gi|270285160|ref|ZP_06194554.1| transcription elongation factor NusA [Chlamydia muridarum Nigg]
 gi|270289179|ref|ZP_06195481.1| transcription elongation factor NusA [Chlamydia muridarum Weiss]
 gi|301336555|ref|ZP_07224757.1| transcription elongation factor NusA [Chlamydia muridarum
           MopnTet14]
 gi|7190412|gb|AAF39230.1| N utilization substance protein A [Chlamydia muridarum Nigg]
          Length = 434

 Score =  400 bits (1030), Expect = e-109,   Method: Composition-based stats.
 Identities = 144/420 (34%), Positives = 234/420 (55%), Gaps = 9/420 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             +L+ I D +  EK I R  ++  +  +++ AA+      +++ V INP TGDI +F  
Sbjct: 2   NKDLVAIFDYMEREKGIQRSTIVGAIESALKIAAKKTLRDDANVSVSINPRTGDIEVFCE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            ++VE+ +N + +I L  AR+ DP   IG  +  P     FGR+A  +A+Q+I QK+R A
Sbjct: 62  KQIVEKCQNPSKEIPLDKAREYDPDCQIGQYMDVPFVSDQFGRIAAHAARQIIGQKLRHA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           ERD  Y E++ +  EIISG +K    G N++VDLG  +G++        E  + GD++ +
Sbjct: 122 ERDVIYEEYRHRKNEIISGVIKSFSRGSNLVVDLGKVEGLLPARFYPKTEKHKVGDKIYA 181

Query: 185 YIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            +Y+V   E  G +V+LSR+HP+F+ +LF  EVPE+  G V++  ++R+ G R K+AV S
Sbjct: 182 LLYEVQESENGGAEVILSRSHPEFVKQLFMQEVPELEEGSVEIVKIAREAGYRTKMAVRS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           S    D VGA VGMRGSR++ ++ EL DEKID+V +SP S   + N L P  + K+ + E
Sbjct: 242 SSPQTDAVGAFVGMRGSRIKNIIRELNDEKIDVVNYSPVSTELLQNLLYPVEIQKIAILE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI-------NRQKDFN 356
           D   I +IV     +  IG+RG N RL SQ+ G+ +++    E +           +  +
Sbjct: 302 DDKVIAIIVQDSDYATVIGKRGINARLISQILGYELEVQRMSEYNKLLEIQRLQLAEFED 361

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
            R    ++   ++ +I   L   G+  + ++     SE+AS+ G   E A +I  +  +Y
Sbjct: 362 PRLDQPLEVEGINTLIVQNLEHAGYDTIRKILLASASELASVPGISLELAYKILEQVSKY 421


>gi|312862513|ref|ZP_07722755.1| transcription termination factor NusA [Streptococcus vestibularis
           F0396]
 gi|322517414|ref|ZP_08070287.1| transcription termination factor NusA [Streptococcus vestibularis
           ATCC 49124]
 gi|311101918|gb|EFQ60119.1| transcription termination factor NusA [Streptococcus vestibularis
           F0396]
 gi|322123896|gb|EFX95455.1| transcription termination factor NusA [Streptococcus vestibularis
           ATCC 49124]
          Length = 399

 Score =  400 bits (1030), Expect = e-109,   Method: Composition-based stats.
 Identities = 137/384 (35%), Positives = 217/384 (56%), Gaps = 20/384 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  EK I+++ ++  + +S++ A +  YG      VE N +TGD  +F +
Sbjct: 2   SKEMLEAFRVLEEEKHINKEDIIDAVVESLKSAYKRRYGQSESAVVEFNEKTGDFQVFTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R+ 
Sbjct: 62  REVVDEVFDSRLEISLKDALAISSAYELGDKIRFEESVDEFGRVAAQSAKQTIMEKMRKQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R+  Y ++K   GEI+ GTV+R +   + V+LG  +  + R + I  E+ +  D +  Y
Sbjct: 122 MREITYNDYKQHEGEIMQGTVERFDQRFIYVNLGALEAQLSRQDQIPGESFKSHDVIDVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S +
Sbjct: 182 VYKVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  GS ++ VV+                 +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGSNIKKVVSRFHPTRLDAKTGIEVPVEENIDVIQWVEDPAEFIYNAI 301

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V  V+ DED   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDYVLFDEDDSKRATVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEYEAL 361

Query: 351 RQKDFNERTQFFMQAINVDEIIAH 374
             +     T+       VDEI+A 
Sbjct: 362 EAEKSEAATEEV-----VDEIVAE 380


>gi|318062643|ref|ZP_07981364.1| transcription elongation factor NusA [Streptomyces sp. SA3_actG]
          Length = 367

 Score =  400 bits (1030), Expect = e-109,   Method: Composition-based stats.
 Identities = 126/339 (37%), Positives = 194/339 (57%), Gaps = 18/339 (5%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  EK I  D ++  +  ++  A      +    RV ++ E+G ++++ + E  
Sbjct: 1   MSALRGLVREKEISFDRLVEAIESALLIAYHRTEHSHRRARVHLDRESGHVTVW-VKEEA 59

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
            ++ +       + AR R               P DFGR+A  +AKQVI+Q++R+A+ D 
Sbjct: 60  ADLADLG-----EDARPR----------EFDDTPSDFGRIAATTAKQVILQRLRDAQDDA 104

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              E+  + G+I++G V++  +  NV+VD+G  + ++   E +  E    G R++SY+  
Sbjct: 105 TLGEYAGREGDIVTGVVQQGRDPKNVLVDIGKLEAILPVQEQVPGEEYTHGLRLRSYVVR 164

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  RGP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S +
Sbjct: 165 VAKGMRGPSVTLSRTHPNLVKKLFSLEVPEIADGSVEIAAIAREAGHRTKIAVRSNRSGL 224

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  G RV+ V+ EL  EKIDIV WS + A  V +AL PA V+ V V+D     
Sbjct: 225 NAKGACIGPMGGRVRNVMAELNGEKIDIVDWSDNPADLVAHALSPARVSHVEVVDLATRS 284

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             V VP  QLSLAIG+ GQN RLA++LTGW IDI  + E
Sbjct: 285 ARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTE 323


>gi|213418035|ref|ZP_03351112.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. E01-6750]
          Length = 319

 Score =  400 bits (1030), Expect = e-109,   Method: Composition-based stats.
 Identities = 131/336 (38%), Positives = 204/336 (60%), Gaps = 18/336 (5%)

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR++  +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPGSRAK+
Sbjct: 1   DRIRGVLYAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPGSRAKI 60

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +
Sbjct: 61  AVKTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASI 120

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           V+DED   +++ V    L+ AIGR GQNV LASQL+GW ++++T ++     Q + +   
Sbjct: 121 VVDEDKHTMDIAVEAGNLAQAIGRNGQNVHLASQLSGWELNVMTVDDLQAKHQAEAHAAI 180

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           + F + +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  
Sbjct: 181 EIFTKYLDIDEEFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALAT 240

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
           +    +  + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL         
Sbjct: 241 LAQDQEASLGDNKPADDLLNLEGLDRDMAFKLAARGVCTLEDLADQGIDDLADIE----- 295

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                       G   ++   +I+ AR  + W   E
Sbjct: 296 ------------GLTDEKAGELIMAAR-NICWFGDE 318


>gi|320537771|ref|ZP_08037693.1| transcription termination factor NusA [Treponema phagedenis F0421]
 gi|320145361|gb|EFW37055.1| transcription termination factor NusA [Treponema phagedenis F0421]
          Length = 488

 Score =  400 bits (1030), Expect = e-109,   Method: Composition-based stats.
 Identities = 154/467 (32%), Positives = 251/467 (53%), Gaps = 22/467 (4%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
            A EK +D D+   ++  +++ A ++ + T  +  V        +S++   +VV+EV++ 
Sbjct: 12  FAQEKEMDEDLAFKIVEQTLKAAYKTTFKTDENAVVTFGDN--HVSIYSRKKVVDEVDDD 69

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
             +I L+ A+    + ++G  +   L P +F R +VQ+A Q I Q  RE ++D  Y E+K
Sbjct: 70  VTEIDLEDAKKLTENAELGDELLVELDPENFKRGSVQAAVQRIHQLSRELQKDSLYAEYK 129

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
            K GEII G  +R+  G++ VDLG  +GV+ R   I  E     DR+K+ I +V++ Q  
Sbjct: 130 SKEGEIIIGYFQRMREGSIYVDLGKVEGVLPRKYQIPGEEFHQNDRIKALIREVKKHQSN 189

Query: 196 -PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
             Q++LSRT   F+  L   E+PEIY+GIV++  + R+PG R K+AVF+    IDPVGAC
Sbjct: 190 LVQLILSRTDADFVRGLLSSEIPEIYDGIVEIHKIVREPGYRTKVAVFTRREDIDPVGAC 249

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVP 313
           VG RG+R+Q ++ EL DEKID+V +S D A F+ NAL PA V  V++ DE+      +V 
Sbjct: 250 VGQRGARIQTIIKELDDEKIDVVEYSDDPAEFIRNALSPAEVLNVIILDEEKRSALAVVS 309

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINR--------------QKDFNERT 359
             QLS+AIG++G NVRLA++L  W+ID+ TE++ +                   +     
Sbjct: 310 DSQLSIAIGKQGLNVRLANRLADWSIDVKTEKQFAEMEVVTDSRKAAEELFSDDEEVAEY 369

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
               +  N+D  I  +L   G  ++E L  +  +E+ ++EG   E   E+    +E  E 
Sbjct: 370 DIQEELPNLDPAIITILHQNGIKEIETLVNLSENEVRALEGMTSEYVEEL---FKEINEN 426

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
            +I  +++I E   +     +P  + +      E G +   D+  C 
Sbjct: 427 FEIVQEERIDEPEQTNTEEQLPEYEEQ-SFECPECGARITTDMTECP 472


>gi|166154318|ref|YP_001654436.1| transcription elongation factor NusA [Chlamydia trachomatis 434/Bu]
 gi|166155193|ref|YP_001653448.1| transcription elongation factor NusA [Chlamydia trachomatis
           L2b/UCH-1/proctitis]
 gi|301335569|ref|ZP_07223813.1| transcription elongation factor NusA [Chlamydia trachomatis L2tet1]
 gi|2160697|gb|AAB58904.1| NusA [Chlamydia trachomatis]
 gi|165930306|emb|CAP03792.1| N utilization substance protein A [Chlamydia trachomatis 434/Bu]
 gi|165931181|emb|CAP06746.1| N utilization substance protein A [Chlamydia trachomatis
           L2b/UCH-1/proctitis]
          Length = 434

 Score =  400 bits (1029), Expect = e-109,   Method: Composition-based stats.
 Identities = 148/424 (34%), Positives = 237/424 (55%), Gaps = 9/424 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             +L+ I D +  EK I R  ++  +  +++ AA+      +++ V INP TGDI +F  
Sbjct: 2   NKDLVAIFDYMEREKGIQRSTIVGAIESALKIAAKKTLRDDANVSVSINPRTGDIEVFCE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            ++VE+ +N + +I L  AR+ DP   IG  +  P     FGR+A  +A+Q+I QK+R A
Sbjct: 62  KQIVEKCQNPSKEIPLDKAREYDPDCQIGQYMDVPFISDQFGRIAAHAARQIIGQKLRHA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           ERD  Y E++ +  EIISG VK    G N++VDLG  +G++        E  + GD++ +
Sbjct: 122 ERDVIYEEYRHRKNEIISGVVKSFARGANLVVDLGKVEGLLPARFYPKTEKHKVGDKIYA 181

Query: 185 YIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            +Y+V   E  G +V+LSR+HP+F+ +LF  EVPE+  G V++  ++R+ G R K+AV S
Sbjct: 182 LLYEVQESENGGAEVILSRSHPEFVKQLFVQEVPELEEGSVEIVKIAREAGYRTKMAVRS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           SD   D VGA VGMRGSR++ ++ EL DEKID+V +SP S   + N L P  + K+ + E
Sbjct: 242 SDPQTDAVGAFVGMRGSRIKNIIRELNDEKIDVVNYSPVSTELLQNLLYPVEIQKIAILE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI-------NRQKDFN 356
           D   I +IV     +  IG+RG N RL SQ+ G+ +++    E +           +  +
Sbjct: 302 DDKVIAIIVQDSDYATVIGKRGINARLISQILGYELEVQRMSEYNKLLEIQRLQLAEFED 361

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
            R    ++   ++ +I   L   G+  + ++     SE+AS+ G   E A +I  +  +Y
Sbjct: 362 PRLDQPLEVEGINTLIVQNLEHAGYDTIRKILLASASELASVPGISLELAYKILEQVSKY 421

Query: 417 LEGI 420
            EG 
Sbjct: 422 GEGK 425


>gi|269795641|ref|YP_003315096.1| transcription termination factor NusA [Sanguibacter keddieii DSM
           10542]
 gi|269097826|gb|ACZ22262.1| transcription termination factor NusA [Sanguibacter keddieii DSM
           10542]
          Length = 365

 Score =  400 bits (1029), Expect = e-109,   Method: Composition-based stats.
 Identities = 137/343 (39%), Positives = 206/343 (60%), Gaps = 8/343 (2%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV- 68
           +     +  E+ I  DV++S +  ++  A +   G     RVEI+ ++G ++++   ++ 
Sbjct: 5   MSALRLLEREREISLDVLVSAIEQALALAYQRTPGAQRTARVEIDRKSGHVTVWAREDIE 64

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVV-----SDPLPPMDFGRVAVQSAKQVIIQKVR 123
            EE                D       VV          P DFGR+A  +A+QVI+Q++R
Sbjct: 65  TEEPVEPRYSDGDDADGTEDDEAPTTRVVRTLGPEFDDTPTDFGRIATSTARQVIMQRLR 124

Query: 124 EAERDRQYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           +AE D+   +F+DK GE++SG +++  +   V+VD+G ++ V+   E +  E    G+R+
Sbjct: 125 DAEDDQVLGQFRDKEGELVSGIIQQGRDPRVVLVDVGGTEAVLGAHEQVPTEKYTHGERL 184

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +SY+ DV R  +GPQ+ LSRTHP  + KLF MEVPE+ +G V++ A++R+ G R K+AV 
Sbjct: 185 RSYVLDVSRGMKGPQISLSRTHPNLVRKLFEMEVPEVADGSVEIVAIAREAGHRTKMAVR 244

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VL 301
           +  S ++  GAC+G  GSRV+AV+ EL DEKIDIV W+ D A FV +AL PA V  V V+
Sbjct: 245 ARVSGLNAKGACIGPMGSRVRAVMAELHDEKIDIVDWNDDPAAFVASALSPATVISVTVV 304

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           D D     VIVP  QLSLAIG+ GQN RLA++LTGW IDI ++
Sbjct: 305 DADARAARVIVPDFQLSLAIGKEGQNARLAAKLTGWRIDIRSD 347


>gi|218131824|ref|ZP_03460628.1| hypothetical protein BACEGG_03445 [Bacteroides eggerthii DSM 20697]
 gi|317474560|ref|ZP_07933834.1| transcription termination factor NusA [Bacteroides eggerthii
           1_2_48FAA]
 gi|217986127|gb|EEC52466.1| hypothetical protein BACEGG_03445 [Bacteroides eggerthii DSM 20697]
 gi|316909241|gb|EFV30921.1| transcription termination factor NusA [Bacteroides eggerthii
           1_2_48FAA]
          Length = 422

 Score =  400 bits (1029), Expect = e-109,   Method: Composition-based stats.
 Identities = 139/424 (32%), Positives = 241/424 (56%), Gaps = 11/424 (2%)

Query: 4   ANRLELLQIADAVA--YE-KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           A + E + + D  +   E K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD 
Sbjct: 2   AKKEETISLIDTFSEFKELKNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDF 61

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R  EVV +  +EN   QISL  A+  D S ++G  V+D +    FGR A+ + +Q +
Sbjct: 62  EIWRNREVVADKDLENPNLQISLSEAQKIDASYEVGEEVTDEVNFAKFGRRAILNLRQTL 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLR 177
             K+ E E+D  Y ++ DKVG II+  V ++     +++D   ++ ++ + E I  +  R
Sbjct: 122 ASKILELEKDSIYNKYIDKVGTIINAEVYQIWKKEMLLLDDEGNELLLPKTEQIPSDFYR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+  ++ +  V  +   P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RA
Sbjct: 182 KGETARAVVARVDNKNNNPKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVG++GSR+  +V ELR+E ID++ ++ +   F+  AL PA ++
Sbjct: 242 KIAVESYDDRIDPVGACVGVKGSRIHGIVRELRNENIDVINYTSNIQLFIQRALSPAKIS 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            + L+E+  + EV +  E++SLAIG+ G N++LAS LT +TID+  E ++++   +D + 
Sbjct: 302 SIRLNEEEHKAEVFLKPEEVSLAIGKGGLNIKLASMLTEYTIDVFRELDEAV---EDEDI 358

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F     +D  +   + A G    + +       +      +EET  E+    +   
Sbjct: 359 YLDEFRD--EIDGWVIDAIKAIGIDTAKAVLNAPREMLIEKTDLEEETVDEVLRILKSEF 416

Query: 418 EGID 421
           E  +
Sbjct: 417 EEEE 420


>gi|288928619|ref|ZP_06422465.1| transcription termination factor NusA [Prevotella sp. oral taxon
           317 str. F0108]
 gi|288329603|gb|EFC68188.1| transcription termination factor NusA [Prevotella sp. oral taxon
           317 str. F0108]
          Length = 422

 Score =  400 bits (1029), Expect = e-109,   Method: Composition-based stats.
 Identities = 141/418 (33%), Positives = 233/418 (55%), Gaps = 8/418 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N L ++         K+IDR  ++SV+ +S +     ++G+  +  V +NP+ GD  ++R
Sbjct: 9   NILSMVDTFKEFKDTKNIDRMTLVSVLEESFRNVLARIFGSDENFDVIVNPDKGDFEIYR 68

Query: 65  LLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VV   EVE+   QI+L  A+  +P  ++G  V++ +    FGR A+ + +Q +  K+
Sbjct: 69  NRMVVADGEVEDENKQIALAEAQKIEPDYEVGEEVTERVDFAKFGRRAILTLRQTLASKI 128

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNV-IVDLGNSDGVIRRDETISRENLRPGDR 181
            E E D  Y ++KD+VG++I+G V +V    V IVD  N++ ++ + E I  +  R G+ 
Sbjct: 129 LELEHDSLYNKYKDRVGQVIAGEVYQVWKREVLIVDDENNELILPKSEQIPADQYRKGET 188

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++ I  V  E   P+++LSRT P F+ +L   EVPEI +G++ +K ++R PG RAK+AV
Sbjct: 189 IRAVILRVDNENNNPKIILSRTSPMFLERLLEAEVPEINDGLISIKRIARMPGERAKIAV 248

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  IDPVGACVG+RGSRV  +V EL +E ID++ ++ ++  F+  AL PA V+ + +
Sbjct: 249 ESYDERIDPVGACVGVRGSRVHGIVRELCNENIDVINYTANTKLFIQRALSPAQVSSINI 308

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  + EV +  E++SLAIGR G N++LAS LT +TID+  E  +      D +     
Sbjct: 309 DEETRKAEVFLRPEEVSLAIGRGGLNIKLASMLTEYTIDVFREVAEGE---ADEDIYLDE 365

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           F     VD+ +   + + G    + +       +      +EET   +    R   E 
Sbjct: 366 FSD--EVDQWVIDAIKSIGLDTAKAVLNAPREMLVEKADLEEETVDNLLRVLRAEFEQ 421


>gi|323343775|ref|ZP_08084002.1| transcription elongation factor NusA [Prevotella oralis ATCC 33269]
 gi|323095594|gb|EFZ38168.1| transcription elongation factor NusA [Prevotella oralis ATCC 33269]
          Length = 421

 Score =  400 bits (1029), Expect = e-109,   Method: Composition-based stats.
 Identities = 139/414 (33%), Positives = 234/414 (56%), Gaps = 8/414 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           ++         K+IDR  ++SV+ +S +     +YG+  +  V +NP+ GD  ++R   V
Sbjct: 13  MIDTFREFKDTKNIDRTTLVSVLEESFRNVLAKIYGSDENFDVIVNPDKGDFEIYRNRMV 72

Query: 69  VE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           V   EV +   +I+LK A+  +P  +IG  VS+P+    FGR A+ + +Q +  KV E E
Sbjct: 73  VADGEVADENKEIALKEAQKIEPDYEIGEEVSEPVNFAKFGRRAILNLRQTLASKVLELE 132

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNV-IVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            D  Y ++KD+VG++ISG V ++    V +VD  N++ ++ + E I  +  R G+ +++ 
Sbjct: 133 HDSLYNKYKDRVGQVISGEVYQIWKREVLVVDDENNELILPKSEQIPSDQYRKGETIRAV 192

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V  E   P+++LSRT P F+ +L   EVPEI +G++ +K ++R PG RAK+AV S D
Sbjct: 193 ILRVDNENNNPKIILSRTSPMFLERLLEAEVPEINDGLISIKKIARMPGERAKIAVESYD 252

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVGACVG++GSRV  +V EL +E ID++ ++ +   F+  AL PA VT + +DE+ 
Sbjct: 253 ERIDPVGACVGVKGSRVHGIVRELCNENIDVINYTSNVKLFIQRALSPAKVTSITVDEEN 312

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            + EV +  E++SLAIGR G N++LAS LT +TID+    +++ + +   +     F   
Sbjct: 313 HKAEVYLQPEEVSLAIGRSGLNIKLASMLTEFTIDVFRVLDENEDNE---DIYLDEFAD- 368

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             +D+ +   + A G    +++       +      +EET   +    +   E 
Sbjct: 369 -EIDQWVIDAIKAIGLDTAKQVLNAPREMLIEKADLEEETVDNLLRVLKAEFEQ 421


>gi|281422606|ref|ZP_06253605.1| transcription termination factor NusA [Prevotella copri DSM 18205]
 gi|281403276|gb|EFB33956.1| transcription termination factor NusA [Prevotella copri DSM 18205]
          Length = 420

 Score =  400 bits (1029), Expect = e-109,   Method: Composition-based stats.
 Identities = 137/414 (33%), Positives = 234/414 (56%), Gaps = 8/414 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           ++         K+IDR  ++SV+ +S +     ++G+  +  V +NP+ GD  ++R   V
Sbjct: 12  MVDTFREFKETKNIDRTTLVSVLEESFRNVLAKIFGSDENFDVIVNPDKGDFEIYRNRIV 71

Query: 69  VE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           V   EVE+   +I+L  AR  +P  ++G  VS+ +    FGR A+ + +Q +  K+ E E
Sbjct: 72  VADGEVEDENKEITLSEARKIEPDYEVGEDVSETVDFNKFGRRAILTLRQTLASKILELE 131

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNV-IVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            D  Y ++KD+VG++ISG V +V    V IVD  N++ ++ + E I  +  R G+ V++ 
Sbjct: 132 HDSLYNKYKDRVGQVISGEVYQVWKREVLIVDDENNELMLPKTEQIPGDTYRKGETVRAV 191

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V  E   P+++LSRT P F+ +L   EVPEI +G++ ++ ++R PG RAK+AV + D
Sbjct: 192 ILRVDNENNNPKIILSRTAPIFLQRLLEAEVPEIADGLIAIRRIARLPGERAKIAVETFD 251

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVGACVG++GSRV  +V EL +E +D++ +S ++  F+  AL PA V+ + +D++ 
Sbjct: 252 ERIDPVGACVGVKGSRVHGIVRELCNENLDVINYSSNTKLFIQRALAPAKVSSINVDDEN 311

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            + EV +  E++SLAIGR G N++LAS LT +TID+  E +++     D +     F   
Sbjct: 312 KKAEVYLQPEEVSLAIGRGGMNIKLASMLTEYTIDVFREVDENE---ADEDIYLDEFSD- 367

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             +D+ +   +   G    +++     + +      +EET   +    R   E 
Sbjct: 368 -EIDQWVIDAIKGIGLDTAKQVLNAPRNLLIEKADLEEETVDHVLSVLRAEFEQ 420


>gi|325105520|ref|YP_004275174.1| NusA antitermination factor [Pedobacter saltans DSM 12145]
 gi|324974368|gb|ADY53352.1| NusA antitermination factor [Pedobacter saltans DSM 12145]
          Length = 411

 Score =  400 bits (1028), Expect = e-109,   Method: Composition-based stats.
 Identities = 129/398 (32%), Positives = 227/398 (57%), Gaps = 13/398 (3%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M S N ++  Q        K+IDR  V+SV+ +  +   R  +GT  +  V +NP+ GD+
Sbjct: 1   MSSINLIDSFQEFKDF---KNIDRPTVISVLEEVFRSMLRKRFGTDENCDVIVNPDNGDL 57

Query: 61  SLFRLLEVVEEV--ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R   V+E+   E+   +I L  A   DP +++G    + +    FGR A+ +A+Q +
Sbjct: 58  EIWRTRTVMEDGFSEDDDLEIELADAHKIDPDLEVGDDFIEQITLESFGRRAILAARQTL 117

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLR 177
           + K+ E E+D  +  +KD++GEI++G V +V     +V D   ++ ++ + E I  +  +
Sbjct: 118 VSKILELEKDEIFKNYKDRIGEIVTGEVYQVWKKETLVLDDEGNELILPKTEQIPADYFK 177

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            GD V++ +  V      P++++SRT P F+ +LF +EVPE+++G++ +K + R+PG RA
Sbjct: 178 KGDSVRAVVLKVDMMNANPKIIISRTAPAFLQRLFELEVPEVFDGLITIKNIVREPGERA 237

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVGM+GSR+  +V EL++E ID++ ++ + + ++  AL PA ++
Sbjct: 238 KVAVESYDDRIDPVGACVGMKGSRIHGIVRELKNENIDVINFTNNISLYIQRALSPAKIS 297

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            + LD++  R  V +  +Q+SLAIGR G N++LA +LTG+ ID+  E  +          
Sbjct: 298 SIKLDDETKRAAVYLKPDQVSLAIGRGGHNIKLAGKLTGYEIDVYREASEEDED-----V 352

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEI 395
               F     +D  I   L   G    + +  + ++E+
Sbjct: 353 DLDEFSD--EIDSWIIDELKKVGLDTAKSVLALNVNEL 388


>gi|116627258|ref|YP_819877.1| transcription elongation factor NusA [Streptococcus thermophilus
           LMD-9]
 gi|116100535|gb|ABJ65681.1| Transcription elongation factor [Streptococcus thermophilus LMD-9]
 gi|312277742|gb|ADQ62399.1| Putative transcription factor [Streptococcus thermophilus ND03]
          Length = 391

 Score =  400 bits (1028), Expect = e-109,   Method: Composition-based stats.
 Identities = 130/352 (36%), Positives = 206/352 (58%), Gaps = 15/352 (4%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +L+    +  EK I+++ ++  + +S++ A +  YG      VE N +TGD  +F + EV
Sbjct: 1   MLEAFRVLEEEKHINKEDIIDAVVESLKSAYKRRYGQSESAVVEFNEKTGDFQVFTVREV 60

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           V+EV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R+  R+
Sbjct: 61  VDEVFDSRLEISLKDALAISSAYELGDKIRFEESVDEFGRVAAQSAKQTIMEKMRKQMRE 120

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
             Y E+K   GEI+ GTV+R +   + V+LG  +  + R + I  E+ +  D +  Y+Y 
Sbjct: 121 ITYNEYKQHEGEIMQGTVERFDQRFIYVNLGTLEAQLSRQDQIPGESFKSHDVIDVYVYK 180

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S + ++
Sbjct: 181 VENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHNPNV 240

Query: 249 DPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRPA 294
           D +G  VG  GS ++ VV+                 +E ID++ W  D A F+ NA+ PA
Sbjct: 241 DAIGTIVGRGGSNIKKVVSRFHPTRLDAKTGIEVPVEENIDVIQWVEDPAEFIYNAIAPA 300

Query: 295 IVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
            V  V+ DED   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  
Sbjct: 301 EVDYVLFDEDDSKRATVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSAS 352


>gi|326799022|ref|YP_004316841.1| NusA antitermination factor [Sphingobacterium sp. 21]
 gi|326549786|gb|ADZ78171.1| NusA antitermination factor [Sphingobacterium sp. 21]
          Length = 411

 Score =  399 bits (1027), Expect = e-109,   Method: Composition-based stats.
 Identities = 139/421 (33%), Positives = 241/421 (57%), Gaps = 13/421 (3%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M + N ++  Q        K+IDR  V+SV+ +  +   R  +GT  +  V +NP+ GD+
Sbjct: 1   MSNINLIDSFQEFKDF---KNIDRPTVISVLEEVFRSMIRKRFGTDENCDVIVNPDNGDL 57

Query: 61  SLFRLLEVVEEV--ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R   VVE+   E+   +I L  AR  DP ++IG    + +    FGR A+ +A+Q +
Sbjct: 58  EIWRTRTVVEDEFSEDDDLEIELAEARKVDPDLEIGDDFIEEITLESFGRRAILAARQTL 117

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLR 177
           + KV E E+D  + ++KD+VGEI++G V ++     +V D   ++ ++ + E I  +  +
Sbjct: 118 VSKVLELEKDEIFKKYKDRVGEIVTGEVYQIWKKETLVLDDEGNELILPKTEQIPADYFK 177

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            GD +++ +Y V      P++++SRT P+F+ +LF +EVPEI++G++ +K + R+PG RA
Sbjct: 178 KGDTIRAVVYKVDMMNTTPKIIISRTAPEFLQRLFELEVPEIFDGLITIKKIVREPGERA 237

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVGM+GSR+  +V ELR+E ID++ ++ + + ++  AL PA ++
Sbjct: 238 KVAVESYDDRIDPVGACVGMKGSRIHGIVRELRNENIDVINFTNNISLYIQRALSPARIS 297

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            + LD++  R  V +  +Q+SLAIGR G N++LA +LTG+ ID+  E +++     D + 
Sbjct: 298 SIKLDDEEKRAAVYLQSDQVSLAIGRGGHNIKLAGKLTGYEIDVYRESDEN-----DEDV 352

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
             + F     +D  I       G    + +  + + E+      +E T  E+    R   
Sbjct: 353 DLEEFAD--EIDGWILDEFKRVGLDTAKSVLALSMDELVRRTDLEENTIQEVVQVLRSEF 410

Query: 418 E 418
           E
Sbjct: 411 E 411


>gi|322391042|ref|ZP_08064546.1| transcription elongation factor NusA [Streptococcus parasanguinis
           ATCC 903]
 gi|321142272|gb|EFX37746.1| transcription elongation factor NusA [Streptococcus parasanguinis
           ATCC 903]
          Length = 380

 Score =  399 bits (1027), Expect = e-109,   Method: Composition-based stats.
 Identities = 130/384 (33%), Positives = 215/384 (55%), Gaps = 20/384 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG      +E N +TGD  ++ +
Sbjct: 2   SKEMLEAFRILEEDKGIKKEDIIEAVTESLRSAYRRRYGQSESAAIEFNEKTGDFRVYTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 62  REVVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E  +  DR++ +
Sbjct: 122 TRTITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFQSHDRIEVF 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S +
Sbjct: 182 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  GS ++ + ++                +E ID++ W PD A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGSNIKKITSKFHPARYDQKLDRMVPTEENIDVIEWVPDPAEFIYNAI 301

Query: 292 RPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+  DED     V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDQVIFDDEDSKHALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE---- 357

Query: 351 RQKDFNERTQFFMQAINVDEIIAH 374
             ++     + F   +   E    
Sbjct: 358 -FEEMEAAQETFEDQVESGEEQVD 380


>gi|325282976|ref|YP_004255517.1| NusA antitermination factor [Deinococcus proteolyticus MRP]
 gi|324314785|gb|ADY25900.1| NusA antitermination factor [Deinococcus proteolyticus MRP]
          Length = 405

 Score =  399 bits (1027), Expect = e-109,   Method: Composition-based stats.
 Identities = 135/333 (40%), Positives = 214/333 (64%), Gaps = 1/333 (0%)

Query: 11  QIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE 70
                VA +++I+   ++    +S+  A +        + V ++P++G++ +  + EVVE
Sbjct: 9   DALREVAQQRNINELQLIEAFEESLALAYKRNIDAEKRVEVHLDPQSGELEVLIIKEVVE 68

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           +VE+   QISL  A + DP +++G  +  P+    F R+A+Q+AKQ + QK+RE ER+  
Sbjct: 69  KVEDENMQISLAEALELDPGVEVGMEMEFPVEREQFSRIALQAAKQTLTQKMRETERNVV 128

Query: 131 YLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDV 189
           Y E+KD+ G++++  V R +  GN  V+LG  + ++   E I  E L PG+RVK Y+ +V
Sbjct: 129 YNEYKDREGQVLTAQVVRSDNKGNWFVELGAGEAIMPPREQIPGEKLTPGNRVKIYLKEV 188

Query: 190 RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSID 249
           R+  +GP +L SR   + +  L   E+PE+ NG+V++KAVSR+ G R+K+AVFS++S++D
Sbjct: 189 RKTPKGPTILASRADERLLDYLLRQEIPEVQNGVVEIKAVSREAGQRSKVAVFSNNSNVD 248

Query: 250 PVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIE 309
           P+GAC+G RG R+QAV  EL  E++D+++W  D   F+ NAL PA V  + LDE+ G   
Sbjct: 249 PIGACIGHRGGRIQAVTGELGRERVDVILWDEDQREFIRNALSPAKVGPIDLDEETGTAT 308

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
           V V  +QLSLAIG+ GQNVRLA++LTG  ID+ 
Sbjct: 309 VTVTPDQLSLAIGKGGQNVRLAAKLTGQKIDLR 341


>gi|312867863|ref|ZP_07728068.1| transcription termination factor NusA [Streptococcus parasanguinis
           F0405]
 gi|311096618|gb|EFQ54857.1| transcription termination factor NusA [Streptococcus parasanguinis
           F0405]
          Length = 380

 Score =  399 bits (1027), Expect = e-109,   Method: Composition-based stats.
 Identities = 128/383 (33%), Positives = 216/383 (56%), Gaps = 20/383 (5%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
            E+L+    +  +K I ++ ++  + +S++ A R  YG      +E N +TGD  ++ + 
Sbjct: 3   KEMLEAFRILEEDKGIKKEDIIEAVTESLRSAYRRRYGQSESAAIEFNEKTGDFRVYTVR 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           EVV+EV +   +ISLK A     + ++G  +     P +FGRVA Q+AKQ I++K+R+  
Sbjct: 63  EVVDEVFDSRLEISLKDALTISSAYELGDKIKFEEAPAEFGRVAAQAAKQTIMEKMRKQT 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E  +  DR++ ++
Sbjct: 123 RTITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFQSHDRIEVFV 182

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
           Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + 
Sbjct: 183 YKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNP 242

Query: 247 SIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALR 292
           ++D +G  VG  GS ++ + ++                +E ID++ W PD A F+ NA+ 
Sbjct: 243 NVDAIGTIVGRGGSNIKKITSKFHPARYDQKLDRMVPTEENIDVIEWVPDPAEFIYNAIA 302

Query: 293 PAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINR 351
           PA V +V+  DED     V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI ++ E     
Sbjct: 303 PAEVDQVIFDDEDSKHALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSDSE----- 357

Query: 352 QKDFNERTQFFMQAINVDEIIAH 374
            ++     + F   +   +    
Sbjct: 358 FEEMEVAQETFEDQVESSQEQVD 380


>gi|239982635|ref|ZP_04705159.1| transcription elongation factor NusA [Streptomyces albus J1074]
 gi|291454476|ref|ZP_06593866.1| transcription elongation factor NusA [Streptomyces albus J1074]
 gi|291357425|gb|EFE84327.1| transcription elongation factor NusA [Streptomyces albus J1074]
          Length = 358

 Score =  399 bits (1026), Expect = e-109,   Method: Composition-based stats.
 Identities = 131/353 (37%), Positives = 201/353 (56%), Gaps = 18/353 (5%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  EK I  D+++  +  ++  A     G+    RV ++ ETG ++++      
Sbjct: 5   MSALRGLVREKEISFDLLVEAIESALLIAYHRTEGSRRQARVRLDRETGHVTVWAK---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
           E+ ++    +     R+ D              P DFGR+A  +AKQVI+Q++R+A+ D 
Sbjct: 61  EDRDDLVGAVEGTEPREFDD------------TPSDFGRIAATTAKQVILQRLRDAQDDA 108

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              E+  + G+I++G V++  +  NV+VD+G  + ++   E +  E    G R++SY+  
Sbjct: 109 TLGEYAGREGDIVTGVVQQGRDPKNVLVDIGKLEAILPVQEQVPGEEYPHGARLRSYVVR 168

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  RGP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S +
Sbjct: 169 VAKGVRGPSVTLSRTHPGLVKKLFALEVPEIADGSVEIAAIAREAGHRTKIAVRSTRSGL 228

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  G RV+ V+ EL  EKIDIV WS D A  V NAL PA V+KV V+D     
Sbjct: 229 NAKGACIGPMGGRVRNVMAELNGEKIDIVDWSDDPADMVANALSPARVSKVEVVDFAARS 288

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
             V VP  QLSLAIG+ GQN RLA++LTGW IDI  + E      +  ++R +
Sbjct: 289 ARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTEQPGEGGEAGDDRAE 341


>gi|15604816|ref|NP_219600.1| transcription elongation factor NusA [Chlamydia trachomatis
           D/UW-3/CX]
 gi|76788811|ref|YP_327897.1| transcription elongation factor NusA [Chlamydia trachomatis
           A/HAR-13]
 gi|237802529|ref|YP_002887723.1| transcription elongation factor NusA [Chlamydia trachomatis
           B/Jali20/OT]
 gi|255310899|ref|ZP_05353469.1| transcription elongation factor NusA [Chlamydia trachomatis 6276]
 gi|255317199|ref|ZP_05358445.1| transcription elongation factor NusA [Chlamydia trachomatis 6276s]
 gi|255506672|ref|ZP_05382311.1| transcription elongation factor NusA [Chlamydia trachomatis
           D(s)2923]
 gi|3328493|gb|AAC67688.1| Transcription antitermination factor [Chlamydia trachomatis
           D/UW-3/CX]
 gi|76167341|gb|AAX50349.1| N utilization substance protein A [Chlamydia trachomatis A/HAR-13]
 gi|231273763|emb|CAX10544.1| N utilization substance protein A [Chlamydia trachomatis
           B/Jali20/OT]
 gi|289525141|emb|CBJ14613.1| N utilization substance protein A [Chlamydia trachomatis Sweden2]
 gi|296434685|gb|ADH16863.1| transcription elongation factor NusA [Chlamydia trachomatis E/150]
 gi|296435614|gb|ADH17788.1| transcription elongation factor NusA [Chlamydia trachomatis G/9768]
 gi|296436537|gb|ADH18707.1| transcription elongation factor NusA [Chlamydia trachomatis
           G/11222]
 gi|296437474|gb|ADH19635.1| transcription elongation factor NusA [Chlamydia trachomatis
           G/11074]
 gi|296438402|gb|ADH20555.1| transcription elongation factor NusA [Chlamydia trachomatis
           E/11023]
 gi|297139973|gb|ADH96731.1| transcription elongation factor NusA [Chlamydia trachomatis G/9301]
          Length = 434

 Score =  399 bits (1026), Expect = e-109,   Method: Composition-based stats.
 Identities = 147/424 (34%), Positives = 236/424 (55%), Gaps = 9/424 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             +L+ I D +  EK I R  ++  +  +++ AA+      +++ V INP TGDI +F  
Sbjct: 2   NKDLVAIFDYMEREKGIQRSTIVGAIESALKIAAKKTLRDDANVSVSINPRTGDIEVFCE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            ++VE+ +N + +I L  AR+ DP   IG  +  P     FGR+A  +A+Q+I QK+R A
Sbjct: 62  KQIVEKCQNPSKEIPLDKAREYDPDCQIGQYMDVPFISDQFGRIAAHAARQIIGQKLRHA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           ERD  Y E++ +  EIISG VK    G N++VDLG  +G++        E  + GD++ +
Sbjct: 122 ERDVIYEEYRHRKNEIISGVVKSFARGANLVVDLGKVEGLLPARFYPKTEKHKVGDKIYA 181

Query: 185 YIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            +Y+V   E  G +V+LSR HP+F+ +LF  EVPE+  G V++  ++R+ G R K+AV S
Sbjct: 182 LLYEVQESENGGAEVILSRNHPEFVKQLFVQEVPELEEGSVEIVKIAREAGYRTKMAVRS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           S+   D VGA VGMRGSR++ ++ EL DEKID+V +SP S   + N L P  + K+ + E
Sbjct: 242 SNPQTDAVGAFVGMRGSRIKNIIRELNDEKIDVVNYSPVSTELLQNLLYPVEIQKIAILE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI-------NRQKDFN 356
           D   I +IV     +  IG+RG N RL SQ+ G+ +++    E +           +  +
Sbjct: 302 DDKVIAIIVQDSDYATVIGKRGINARLISQILGYELEVQRVSEYNKLLEIQRLQLAEFED 361

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
            R    ++   ++ +I   L   G+  + ++     SE+AS+ G   E A +I  +  +Y
Sbjct: 362 PRLDQPLEVEGINTLIVQNLEHAGYDTIRKILLASASELASVPGISLELAYKILEQVSKY 421

Query: 417 LEGI 420
            EG 
Sbjct: 422 GEGK 425


>gi|237804446|ref|YP_002888600.1| transcription elongation factor NusA [Chlamydia trachomatis
           B/TZ1A828/OT]
 gi|231272746|emb|CAX09650.1| N utilization substance protein A [Chlamydia trachomatis
           B/TZ1A828/OT]
          Length = 434

 Score =  399 bits (1026), Expect = e-109,   Method: Composition-based stats.
 Identities = 147/424 (34%), Positives = 236/424 (55%), Gaps = 9/424 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             +L+ I D +  EK I R  ++  +  +++ AA+      +++ V INP TGDI +F  
Sbjct: 2   NKDLVAIFDYMEREKGIQRSTIVGAIESALKIAAKKTLRDDANVSVSINPRTGDIEVFCE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            ++VE+ +N + +I L  AR+ DP   IG  +  P     FGR+A  +A+Q+I QK+R A
Sbjct: 62  KQIVEKCQNPSKEIPLDEAREYDPDCQIGQYMDVPFISDQFGRIAAHAARQIIGQKLRHA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           ERD  Y E++ +  EIISG VK    G N++VDLG  +G++        E  + GD++ +
Sbjct: 122 ERDVIYEEYRHRKNEIISGVVKSFARGANLVVDLGKVEGLLPARFYPKTEKHKVGDKIYA 181

Query: 185 YIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            +Y+V   E  G +V+LSR HP+F+ +LF  EVPE+  G V++  ++R+ G R K+AV S
Sbjct: 182 LLYEVQESENGGAEVILSRNHPEFVKQLFVQEVPELEEGSVEIVKIAREAGYRTKMAVRS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           S+   D VGA VGMRGSR++ ++ EL DEKID+V +SP S   + N L P  + K+ + E
Sbjct: 242 SNPQTDAVGAFVGMRGSRIKNIIRELNDEKIDVVNYSPVSTELLQNLLYPVEIQKIAILE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI-------NRQKDFN 356
           D   I +IV     +  IG+RG N RL SQ+ G+ +++    E +           +  +
Sbjct: 302 DDKVIAIIVQDSDYATVIGKRGINARLISQILGYELEVQRVSEYNKLLEIQRLQLAEFED 361

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
            R    ++   ++ +I   L   G+  + ++     SE+AS+ G   E A +I  +  +Y
Sbjct: 362 PRLDQPLEVEGINTLIVQNLEHAGYDTIRKILLASASELASVPGISLELAYKILEQVSKY 421

Query: 417 LEGI 420
            EG 
Sbjct: 422 GEGK 425


>gi|333024104|ref|ZP_08452168.1| putative transcription termination factor NusA [Streptomyces sp.
           Tu6071]
 gi|332743956|gb|EGJ74397.1| putative transcription termination factor NusA [Streptomyces sp.
           Tu6071]
          Length = 369

 Score =  399 bits (1026), Expect = e-109,   Method: Composition-based stats.
 Identities = 128/339 (37%), Positives = 194/339 (57%), Gaps = 18/339 (5%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  EK I  D ++  +  ++  A      +    RV ++ E+G ++++     V
Sbjct: 5   MSALRGLVREKEISFDRLVEAIESALLIAYHRTEHSHRRARVHLDRESGHVTVW-----V 59

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
           +E E     +  + AR R               P DFGR+A  +AKQVI+Q++R+A+ D 
Sbjct: 60  KEEEADLADLG-EDARPR----------EFDDTPSDFGRIAATTAKQVILQRLRDAQDDA 108

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              E+  + G+I++G V++  +  NV+VD+G  + ++   E +  E    G R++SY+  
Sbjct: 109 TLGEYAGREGDIVTGVVQQGRDPKNVLVDIGKLEAILPVQEQVPGEEYTHGLRLRSYVVR 168

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  RGP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S +
Sbjct: 169 VAKGMRGPSVTLSRTHPNLVKKLFSLEVPEIADGSVEIAAIAREAGHRTKIAVRSNRSGL 228

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  G RV+ V+ EL  EKIDIV WS + A  V +AL PA V+ V V+D     
Sbjct: 229 NAKGACIGPMGGRVRNVMAELNGEKIDIVDWSDNPADLVAHALSPARVSHVEVVDLATRS 288

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             V VP  QLSLAIG+ GQN RLA++LTGW IDI  + E
Sbjct: 289 ARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTE 327


>gi|325856510|ref|ZP_08172199.1| transcription termination factor NusA [Prevotella denticola CRIS
           18C-A]
 gi|327313033|ref|YP_004328470.1| transcription termination factor NusA [Prevotella denticola F0289]
 gi|325483479|gb|EGC86452.1| transcription termination factor NusA [Prevotella denticola CRIS
           18C-A]
 gi|326944462|gb|AEA20347.1| transcription termination factor NusA [Prevotella denticola F0289]
          Length = 421

 Score =  399 bits (1026), Expect = e-109,   Method: Composition-based stats.
 Identities = 143/417 (34%), Positives = 235/417 (56%), Gaps = 8/417 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
           R  +++        KSIDR  ++SV+ +S +     ++G+  +  V +NP+ GD  + R 
Sbjct: 10  RPNMIETFKEFKDTKSIDRTTLVSVLEESFRNVLAKIFGSDENFDVIVNPDKGDFEIHRN 69

Query: 66  LEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV   EVE+   QISL  AR  +   ++G  VS+ +    FGR A+ + +Q +  K+ 
Sbjct: 70  RVVVADGEVEDENKQISLTDARKIEADYEVGEDVSEEVDFNKFGRRAILNLRQTLASKIL 129

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRV 182
           E E D  Y ++KD+VG+IISG V +     V+ VD  N++ ++ +DE I R+  R G+ V
Sbjct: 130 ELEHDSLYNKYKDRVGQIISGEVYQTWKREVLLVDDENNELILPKDEQIPRDQYRKGETV 189

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ I  V  E   P+++LSRT P+F+ +L   EVPEI +G++ ++ ++R PG RAK+AV 
Sbjct: 190 RAVILRVDNENNNPKIILSRTAPEFLERLLEAEVPEISDGLIAIRKIARMPGERAKIAVE 249

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDPVGACVG+RGSRV  +V EL +E +D++ W+ ++  F+  AL PA V+ + +D
Sbjct: 250 SFDDRIDPVGACVGVRGSRVHGIVRELCNENLDVINWTANTKLFIQRALSPAKVSSLNVD 309

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+  + EV +  E++SLAIGR G N++LAS LTG+TID+  E ++   +  + +     F
Sbjct: 310 EENKKAEVYLQPEEVSLAIGRGGMNIKLASMLTGYTIDVFRELDE---QNAEEDIYLDEF 366

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
                +D+ +   +   G     ++       +      +EET   +    +   E 
Sbjct: 367 SD--EIDQWVIDAIKGIGLDTARQVLNAPREMLIEKADLEEETVDNVLRVLKSEFEQ 421


>gi|282881115|ref|ZP_06289802.1| transcription termination factor NusA [Prevotella timonensis CRIS
           5C-B1]
 gi|281304919|gb|EFA96992.1| transcription termination factor NusA [Prevotella timonensis CRIS
           5C-B1]
          Length = 421

 Score =  399 bits (1026), Expect = e-109,   Method: Composition-based stats.
 Identities = 141/414 (34%), Positives = 233/414 (56%), Gaps = 8/414 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           ++         K+IDR  ++SV+ +S +     +YG+  +  V +NP+ GD  ++R   V
Sbjct: 13  MIDTFREFKDTKNIDRATLVSVLEESFRNVLAKIYGSDENFDVIVNPDKGDFEIYRNRIV 72

Query: 69  VE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           V   EVE+   +I+LK A + +P  +IG  VS+P+    FGR A+ + +Q +  KV E E
Sbjct: 73  VADGEVEDENKEIALKEALEIEPDYEIGEEVSEPINFSKFGRRAILNLRQTLASKVLELE 132

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            D  Y ++KD+VG+IISG V ++    V+ +D  N++ ++ + E I  +  R G+ +++ 
Sbjct: 133 HDALYNKYKDRVGQIISGEVYQIWKREVLLIDDENNELILPKSEQIPSDQYRKGETIRAV 192

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V  E   P+++LSRT P F+ +L   EVPEI +G++ +K ++R PG RAK+AV S D
Sbjct: 193 ILRVDNENNNPKIILSRTSPVFLERLLEAEVPEINDGLISIKRIARMPGERAKIAVESYD 252

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVGACVG++GSRV  +V EL +E ID+V ++ +    V  AL PA ++ + +DE+ 
Sbjct: 253 ERIDPVGACVGVKGSRVHGIVRELCNENIDVVNYTSNIKLLVQRALSPAHISSINIDEEN 312

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            + EV +  E++SLAIGR G N++LAS LT +TID+  E  D+     D +     F   
Sbjct: 313 HKAEVYLKPEEVSLAIGRGGLNIKLASMLTEYTIDVFREVSDA---DADEDIYLDEFDD- 368

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             +D+ +   + + G    +++       +      +EET   +    +   E 
Sbjct: 369 -EIDQWVIDAIKSIGLDTAKQVLNAPREMLIEKADLEEETVDNLIKVLKAEFEQ 421


>gi|260910869|ref|ZP_05917513.1| N utilization substance protein A [Prevotella sp. oral taxon 472
           str. F0295]
 gi|260635020|gb|EEX53066.1| N utilization substance protein A [Prevotella sp. oral taxon 472
           str. F0295]
          Length = 422

 Score =  399 bits (1026), Expect = e-109,   Method: Composition-based stats.
 Identities = 140/418 (33%), Positives = 232/418 (55%), Gaps = 8/418 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N L ++         K+IDR  ++SV+ +S +     ++G+  +  V +NP+ GD  ++R
Sbjct: 9   NILSMVDTFKEFKDTKNIDRMTLVSVLEESFRNVLARIFGSDENFDVIVNPDKGDFEIYR 68

Query: 65  LLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VV   EVE+   QI+L  A+  +   ++G  V++ +    FGR A+ + +Q +  K+
Sbjct: 69  NRMVVADGEVEDENKQIALTEAQKIEHDYEVGEEVTERVDFAKFGRRAILTLRQTLASKI 128

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNV-IVDLGNSDGVIRRDETISRENLRPGDR 181
            E E D  Y ++KD+VG++I+G V +V    V IVD  N++ ++ + E I  +  R G+ 
Sbjct: 129 LELEHDSLYNKYKDRVGQVIAGEVYQVWKREVLIVDDENNELILPKSEQIPADQYRKGET 188

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++ I  V  E   P+++LSRT P F+ +L   EVPEI +G++ +K ++R PG RAK+AV
Sbjct: 189 IRAVILRVDNENNNPKIILSRTSPMFLERLLEAEVPEINDGLISIKRIARMPGERAKIAV 248

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  IDPVGACVG+RGSRV  +V EL +E ID++ ++ ++  F+  AL PA V+ + +
Sbjct: 249 ESYDERIDPVGACVGVRGSRVHGIVRELCNENIDVINYTANTKLFIQRALSPAQVSSINI 308

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  + EV +  E++SLAIGR G N++LAS LT +TID+  E  +      D +     
Sbjct: 309 DEENRKAEVFLHPEEVSLAIGRGGLNIKLASMLTEYTIDVFREVAEGE---ADEDIYLDE 365

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           F     VD+ +   + + G    + +       +      +EET   +    R   E 
Sbjct: 366 FSD--EVDQWVIDAIKSIGLDTAKAVLNAPREMLVEKADLEEETVDSLLRVLRAEFEQ 421


>gi|332830404|gb|EGK03032.1| transcription termination factor NusA [Dysgonomonas gadei ATCC
           BAA-286]
          Length = 420

 Score =  399 bits (1026), Expect = e-109,   Method: Composition-based stats.
 Identities = 143/419 (34%), Positives = 242/419 (57%), Gaps = 12/419 (2%)

Query: 6   RLELLQIADAVA--YE-KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISL 62
           + E++ + D  +   E K+IDR  ++SV+ DS +     L+G+  +  V INP+ GD+ +
Sbjct: 3   KKEVISMIDTFSEFKELKNIDRMTMISVLEDSFRNVIAKLFGSNDNYDVIINPDKGDLEI 62

Query: 63  FRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           +R   +VE  E+E+   QISL  AR  D   ++G  V+D +   DFGR A+ + +Q +  
Sbjct: 63  WRNRTIVEDSELEDENTQISLTEARKIDEDFEVGEDVTDEVFFEDFGRRAILNLRQTLTS 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPG 179
           K+ E +++  Y  +K+K+GEI+SG V ++    +++ D    + ++ + E I  +  R G
Sbjct: 123 KILELQKEGLYNRYKEKIGEIVSGEVYQIWKKEILLLDDEKEELLLPKTEQIPSDFFRKG 182

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           + V++ +  V  +   P+++LSRT P F+ +L  +EVPEI +G++ +K ++R PG RAK+
Sbjct: 183 EHVRAVVERVENKNNNPKIILSRTSPVFLERLLEIEVPEINDGLITIKNIARIPGERAKV 242

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S D  IDPVGACVGM+GSR+  +V ELR+E IDI+ ++P+ + ++  AL PA +T V
Sbjct: 243 AVESYDDRIDPVGACVGMKGSRIHGIVRELRNENIDIINYTPNMSLYIQRALSPAKITSV 302

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
            L+E+  R EV++  E++SLAIG+ G N++LAS LTG+TID+  + +D        +E  
Sbjct: 303 KLNEEEKRAEVLLRPEEVSLAIGKGGFNIKLASMLTGYTIDVYRDIDDFDEEDIYLDEFR 362

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
                   +D  +   L   G    + +      ++      +E+T  EI    R   +
Sbjct: 363 D------EIDGWVIDQLKKIGCVTAKNVLAADRDKLIQEADLEEDTVDEILDILRAEFD 415


>gi|325269683|ref|ZP_08136296.1| N utilization substance protein A [Prevotella multiformis DSM
           16608]
 gi|324988051|gb|EGC20021.1| N utilization substance protein A [Prevotella multiformis DSM
           16608]
          Length = 421

 Score =  399 bits (1025), Expect = e-109,   Method: Composition-based stats.
 Identities = 142/417 (34%), Positives = 234/417 (56%), Gaps = 8/417 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
           R  +++        KSIDR  ++SV+ +S +     ++G+  +  V +NP+ GD  + R 
Sbjct: 10  RPNMIETFKEFKDTKSIDRTTLVSVLEESFRNVLAKIFGSDENFDVIVNPDKGDFEIHRN 69

Query: 66  LEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV   EVE+   QISL  AR  +   ++G  VS+ +    FGR A+ + +Q +  K+ 
Sbjct: 70  RVVVADGEVEDENKQISLTDARKIEDDYEVGEDVSEEVDFNKFGRRAILNLRQTLASKIL 129

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRV 182
           E E D  Y ++KD+VG+IISG V +     V+ VD  N++ ++ + E I R+  R G+ V
Sbjct: 130 ELEHDSLYNKYKDRVGQIISGEVYQTWKREVLLVDDENNELILPKGEQIPRDQYRKGETV 189

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ I  V  E   P+++LSRT P+F+ +L   EVPEI +G++ ++ ++R PG RAK+AV 
Sbjct: 190 RAVILRVDNENNNPKIILSRTAPEFLERLLEAEVPEISDGLIAIRKIARMPGERAKIAVE 249

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDPVGACVG+RGSRV  +V EL +E +D++ W+ ++  F+  AL PA V+ + +D
Sbjct: 250 SFDDRIDPVGACVGVRGSRVHGIVRELCNENLDVINWTANTKLFIQRALSPAKVSSLNVD 309

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+  + EV +  E++SLAIGR G N++LAS LTG+TID+  E ++   +  + +     F
Sbjct: 310 EENKKAEVYLQPEEVSLAIGRGGMNIKLASMLTGYTIDVFRELDE---QNAEEDIYLDEF 366

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
                +D+ +   +   G     ++       +      +EET   +    +   E 
Sbjct: 367 SD--EIDQWVIDAIKGIGLDTARQVLNAPREMLIEKADLEEETVDNVLRVLKSEFEQ 421


>gi|326333613|ref|ZP_08199851.1| transcription termination factor NusA [Nocardioidaceae bacterium
           Broad-1]
 gi|325948594|gb|EGD40696.1| transcription termination factor NusA [Nocardioidaceae bacterium
           Broad-1]
          Length = 325

 Score =  399 bits (1025), Expect = e-109,   Method: Composition-based stats.
 Identities = 130/339 (38%), Positives = 199/339 (58%), Gaps = 24/339 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           + I   +  E+ I  DV++  +   +  A     G  +  RV+++ +TG + +       
Sbjct: 5   MSILRMLEREREISLDVLVEAIEQGLLTAYHKTEGAQTKARVDLDRKTGHVRVL------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A + D   ++ G   D   P  FGR+A  +AKQ+++Q++R+AE D 
Sbjct: 59  --------------ASEVDDEGNVVGEYDD--TPEGFGRIAATTAKQIVLQRLRDAEDDV 102

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
           ++ EF  K G+I+SG +++     +V+VDLG  +GVI   E +  E+   G R+K+ +  
Sbjct: 103 KFGEFSGKEGDILSGVIQQGRNPDDVLVDLGRLEGVIPLSERVPGEDYGHGTRIKALVVS 162

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           VR+  RGPQ+ LSR+HP  + KLF  EVPEI +G V++ A++R+ G R K+AV S+   +
Sbjct: 163 VRKGMRGPQITLSRSHPNLVKKLFSFEVPEIADGTVEIAAIAREAGHRTKIAVKSTVPGV 222

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  G RV+ V++EL+ EKIDIV WS D    V +AL PA V+ V ++DE    
Sbjct: 223 NAKGACIGPMGQRVRQVMSELQGEKIDIVDWSEDPKVLVASALSPARVSSVEIIDEATKS 282

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             V+VP  QLSLAIG+ GQN RLA++LTGW IDI ++EE
Sbjct: 283 ARVVVPDYQLSLAIGKEGQNARLAARLTGWRIDIRSDEE 321


>gi|94985335|ref|YP_604699.1| transcription elongation factor NusA [Deinococcus geothermalis DSM
           11300]
 gi|94555616|gb|ABF45530.1| NusA antitermination factor [Deinococcus geothermalis DSM 11300]
          Length = 395

 Score =  399 bits (1025), Expect = e-109,   Method: Composition-based stats.
 Identities = 136/386 (35%), Positives = 223/386 (57%), Gaps = 5/386 (1%)

Query: 11  QIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE 70
                VA  ++I+   ++     S+ +A          + V ++P +G++ +  + EVVE
Sbjct: 10  DALREVAQARNINELQLIEAFEQSLAQAYSRNVEPDRRVEVHLDPVSGELEVLIVREVVE 69

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           +VE+   QISL  A + DP ++IG  +  P+    F R+A+Q+AKQ + QK+RE ER+  
Sbjct: 70  KVEDENLQISLADALELDPGVEIGMEMEFPVDREKFSRIALQAAKQTLTQKMRETERNVV 129

Query: 131 YLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDV 189
           Y E+KD+ G++++  V R +  GN  V+LG  + ++   E I  E L PG+RVK Y+ +V
Sbjct: 130 YNEYKDREGQVLTAQVVRSDNKGNWFVELGAGEAILPPREQIPGEKLVPGNRVKIYLKEV 189

Query: 190 RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSID 249
           R+  +GP +L SR   + +  L   E+PE+ NGIV++KA++R+ G R+K+AV+S + ++D
Sbjct: 190 RKTPKGPTILASRADERLLEYLLRQEIPEVANGIVEIKAIAREAGQRSKVAVYSHNPNVD 249

Query: 250 PVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIE 309
           P+GAC+G RG+R+QAV  EL  E++D+++W  ++  F+ NAL PA V  + +  D     
Sbjct: 250 PIGACIGHRGNRIQAVTGELGRERVDVILWDANARDFIRNALSPAKVGLIEVRPDTREAT 309

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVD 369
           V V  +QLSLAIG+ GQNVRLA++LTG+ ID+    E +  +  D   +     +  N  
Sbjct: 310 VTVTPDQLSLAIGKGGQNVRLAAKLTGFKIDLR---ETAAIQDLDAAMQQALQEEQGNTG 366

Query: 370 E-IIAHLLVAEGFADVEELACVKISE 394
               A       F D + +A     +
Sbjct: 367 PSSAAASAFDALFRDSKSVATASPDD 392


>gi|296877069|ref|ZP_06901110.1| transcription termination factor NusA [Streptococcus parasanguinis
           ATCC 15912]
 gi|296431930|gb|EFH17736.1| transcription termination factor NusA [Streptococcus parasanguinis
           ATCC 15912]
          Length = 380

 Score =  399 bits (1025), Expect = e-109,   Method: Composition-based stats.
 Identities = 130/384 (33%), Positives = 215/384 (55%), Gaps = 20/384 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG      +E N +TGD  ++ +
Sbjct: 2   SKEMLEAFRILEEDKGIKKEDIIEAVTESLRSAYRRRYGQSESAAIEFNEKTGDFRVYTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 62  REVVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E  +  DR++ +
Sbjct: 122 TRTITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFQSHDRIEVF 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S +
Sbjct: 182 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  GS ++ + ++                +E ID++ W PD A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGSNIKKITSKFHPARYDQKLERMVPTEENIDVIEWVPDPAEFIYNAI 301

Query: 292 RPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+  DED     V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDQVIFDDEDSKHALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASE---- 357

Query: 351 RQKDFNERTQFFMQAINVDEIIAH 374
             ++     + F   +   E    
Sbjct: 358 -FEEMEAAQETFEDQVESGEEQVD 380


>gi|15806798|ref|NP_295520.1| transcription elongation factor NusA [Deinococcus radiodurans R1]
 gi|6459575|gb|AAF11353.1|AE002021_2 N-utilization substance protein A [Deinococcus radiodurans R1]
          Length = 401

 Score =  399 bits (1025), Expect = e-109,   Method: Composition-based stats.
 Identities = 140/386 (36%), Positives = 225/386 (58%), Gaps = 3/386 (0%)

Query: 11  QIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE 70
           +    VA  ++I+   ++     S+Q+A          I V ++P++G + +  + EVVE
Sbjct: 14  EALREVAQARNINELQLIEAFEQSLQQAYVRNVEPDKRIEVHLDPQSGVLEVLIVREVVE 73

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           +VE+   QISL  A + DP ++IG  +  P+    F R+A+Q+AKQ + QK+RE ER+  
Sbjct: 74  KVEDEHMQISLADALELDPGVEIGMEMEFPVDQEMFSRIALQAAKQTLTQKMRETERNVV 133

Query: 131 YLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDV 189
           + E+KD+ G++++  V R +  GN  V+LG  + ++   E I  E L PG RVK Y+ +V
Sbjct: 134 FNEYKDREGQVLNAQVVRSDNKGNWFVELGAGEAILPPREQIPGEKLTPGGRVKIYLKEV 193

Query: 190 RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSID 249
           R+  +GP +L SR   + +  L   E+PE+ NGIV+VKA++R+ G R+K+AVFS +S++D
Sbjct: 194 RKTPKGPTILASRADERLLDYLLKQEIPEVANGIVEVKAIAREAGQRSKVAVFSHNSNVD 253

Query: 250 PVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIE 309
           P+GAC+G RG+R+QAV  EL  E++D+++W  ++  F+ NAL PA V  + + +D     
Sbjct: 254 PIGACIGHRGNRIQAVTGELGRERVDVILWDANTREFIRNALSPAKVGPIEVQQDSRDAT 313

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVD 369
           V V  +QLSLAIG+ GQNVRLA++LTG+ ID+      S           +   Q    +
Sbjct: 314 VTVTPDQLSLAIGKGGQNVRLAAKLTGFKIDLRETAAISDLDAAMQQALEE--EQQGGGN 371

Query: 370 EIIAHLLVAEGFADVEELACVKISEI 395
           E  A       F D + +A     ++
Sbjct: 372 ENAAQSAFDALFKDSKSVATASPDDV 397


>gi|145224621|ref|YP_001135299.1| transcription elongation factor NusA [Mycobacterium gilvum PYR-GCK]
 gi|315444953|ref|YP_004077832.1| transcription termination factor NusA [Mycobacterium sp. Spyr1]
 gi|145217107|gb|ABP46511.1| NusA antitermination factor [Mycobacterium gilvum PYR-GCK]
 gi|315263256|gb|ADT99997.1| transcription termination factor NusA [Mycobacterium sp. Spyr1]
          Length = 353

 Score =  399 bits (1025), Expect = e-109,   Method: Composition-based stats.
 Identities = 134/348 (38%), Positives = 197/348 (56%), Gaps = 31/348 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  +K I  DVV+  +  ++  A R   G  +D  ++I+ +TG + +       
Sbjct: 5   MAALHAIEADKGITVDVVVETIKSALLTAYRHTEGHEADAHIDIDRKTGVVKVM------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         AR  D   ++     D   P  FGR+A  +A+QVI+Q++R+AE ++
Sbjct: 59  --------------ARQTDEDGNVLHEWDD--TPEGFGRIAATTARQVILQRLRDAENEK 102

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN----VIVDLG----NSDGVIRRDETISRENLRPGDR 181
            Y EF  + G+I++G ++R    N    V+V +G     S+GVI   E +  E    GDR
Sbjct: 103 NYGEFSAREGDIVAGVIQRDARANARGLVVVRMGSETKGSEGVIPAAEQVPGERYEHGDR 162

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ Y+  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV
Sbjct: 163 LRCYVVGVARGAREPVITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAV 222

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            S    ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V  V V
Sbjct: 223 TSRAPGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDEDPARFVANALSPAKVVSVTV 282

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           +DE      VIVP  QLSLAIG+ GQN RLA++LTGW IDI +++ D 
Sbjct: 283 IDEAARAARVIVPDFQLSLAIGKEGQNARLAARLTGWRIDIRSDDADK 330


>gi|291298941|ref|YP_003510219.1| NusA antitermination factor [Stackebrandtia nassauensis DSM 44728]
 gi|290568161|gb|ADD41126.1| NusA antitermination factor [Stackebrandtia nassauensis DSM 44728]
          Length = 347

 Score =  399 bits (1025), Expect = e-109,   Method: Composition-based stats.
 Identities = 134/341 (39%), Positives = 199/341 (58%), Gaps = 27/341 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           L    ++ +E+ I    ++  +  ++  A R      S  RVE+N ETG +++       
Sbjct: 5   LVALRSLEHERDIPFHTIIDAIESALLTAYRHTPDAQSHARVEVNRETGTVTV------- 57

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         AR+ D   ++     D   P DFGR+A  +AKQVI+Q++REA  D 
Sbjct: 58  -------------RAREVDAEGNVVREWDD--TPDDFGRIAAMTAKQVIMQRLREATDDV 102

Query: 130 QYLEFKDKVGEIISGTVKRVE----YGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            + EF    G++++G ++  E     G V+VDLG  + ++   E +  EN   G R+++ 
Sbjct: 103 NFGEFASLEGDVVTGVIQAHEGASEKGTVMVDLGKIEAMLPHVEQVPGENYSHGRRLRAA 162

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V R  RGPQ+ +SR+HP  + KLF  EVPEI +G+V++ AV+R+ G R K+AV ++ 
Sbjct: 163 VVQVSRGPRGPQITVSRSHPNLVKKLFAAEVPEIADGLVEIAAVAREAGHRTKIAVRATV 222

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
           + ++  GAC+G  GSRV+AV++EL  EKIDI+ +S D ATFV NAL P+ V  V VLD D
Sbjct: 223 ADLNAKGACIGPMGSRVRAVMSELDGEKIDIIDYSEDPATFVGNALSPSKVVSVEVLDPD 282

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
                V+VP  QLSLAIGR GQN RLA++LTGW IDI ++ 
Sbjct: 283 DKVARVVVPDFQLSLAIGREGQNARLAARLTGWRIDIKSDA 323


>gi|288574932|ref|ZP_06393289.1| NusA antitermination factor [Dethiosulfovibrio peptidovorans DSM
           11002]
 gi|288570673|gb|EFC92230.1| NusA antitermination factor [Dethiosulfovibrio peptidovorans DSM
           11002]
          Length = 366

 Score =  399 bits (1025), Expect = e-109,   Method: Composition-based stats.
 Identities = 129/364 (35%), Positives = 219/364 (60%), Gaps = 8/364 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           + ++    +  E+++ + ++L  +  ++  A +       +  V+I+ ETGDIS+  +  
Sbjct: 6   DFIRALMQLTEERNLSQSIILGSIEAALASAYKKYKEKNLEPEVKIDGETGDISIMEIRR 65

Query: 68  VVEEVENYTCQISLKVARDRD-PSIDIGGVV--SDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV+EV+N   +++ + A     P +  G VV     + P  FGR+A Q+A+QVIIQ++++
Sbjct: 66  VVDEVKNSDAELTSEEAAALGFPGLVEGDVVKTEVEIAPESFGRIAAQTARQVIIQRLKD 125

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRVK 183
           AER+  + EF ++VG++++G V + E   ++V +   ++ ++ R+E I+ E    G R+K
Sbjct: 126 AEREIIFNEFSERVGDMVNGVVFKAENDQILVRISERTEAMLPREERINGETYELGSRMK 185

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            Y+ DVR+  RGP++++SRTHP  + +L  +E+PEI +G+V++  + R+ G+RAK+AV +
Sbjct: 186 FYLLDVRQTTRGPRIVVSRTHPGLLRRLMELEIPEIRDGVVEIHGIVREAGARAKVAVTT 245

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV-LD 302
            D ++DPVGACVG  GSR++ +  EL  EKID+V+WS D   ++ N L PA V +V  + 
Sbjct: 246 LDPNVDPVGACVGNGGSRIKTISNELNGEKIDVVIWSDDPLQYIRNTLSPAKVVRVEPIL 305

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E     +V    +QLSLAIG+ GQNVRLA++LTGW +DI   E      +         F
Sbjct: 306 EQEKSAKVFARPDQLSLAIGKAGQNVRLAARLTGWKVDINPLE---APEKDSMPTLQDLF 362

Query: 363 MQAI 366
               
Sbjct: 363 EDIP 366


>gi|300727483|ref|ZP_07060874.1| transcription termination factor NusA [Prevotella bryantii B14]
 gi|299775186|gb|EFI71787.1| transcription termination factor NusA [Prevotella bryantii B14]
          Length = 420

 Score =  398 bits (1024), Expect = e-109,   Method: Composition-based stats.
 Identities = 138/413 (33%), Positives = 231/413 (55%), Gaps = 8/413 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           ++         K+IDR  ++SV+ +S +     ++G+  +  V +NP+ GD  ++R   V
Sbjct: 13  MISTFKEFKETKNIDRTTLVSVLEESFRNVLAKIFGSDENFDVIVNPDKGDFEIYRNRVV 72

Query: 69  VE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           V   E+E+   QISL  AR  +P  ++G  VS+ +    FGR AV + +Q +  K+ E E
Sbjct: 73  VADGEIEDENKQISLTEARKIEPDYEVGEDVSEKVDFSKFGRRAVLNLRQTLASKILELE 132

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNV-IVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            D  Y ++KD+VG+IISG V ++    V IVD  N++ ++ + E I  +  R G+ V++ 
Sbjct: 133 HDSLYNKYKDRVGQIISGEVYQIWKREVLIVDDENNELILPKSEQIPADQYRKGETVRAV 192

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V  E   P+++LSRT P F+ +L   EVPEI +G++ ++ ++R PG RAK+AV S D
Sbjct: 193 IARVDNENNNPKIILSRTSPMFLERLLEAEVPEINDGLIAIRKIARMPGERAKIAVESFD 252

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVGACVG++GSRV  +V EL +E ID++ ++ +   F+  AL PA V+ + ++E+ 
Sbjct: 253 ERIDPVGACVGVKGSRVHGIVRELCNENIDVINYTSNIKLFIQRALSPAKVSSININEEE 312

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            + EV +  E++SLAIGR G N++LAS LT +TID+  E +++     + +     F   
Sbjct: 313 KKAEVYLQPEEVSLAIGRGGLNIKLASMLTEFTIDVFREIDENE---AEDDIYLDEFSD- 368

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
             +D+ +   +   G     ++       +      +EET   +    +   E
Sbjct: 369 -EIDQWVIDAIKGIGLDTARQVLNAPREMLVEKADLEEETVDNVINILKAEFE 420


>gi|328885406|emb|CCA58645.1| Transcription termination protein NusA [Streptomyces venezuelae
           ATCC 10712]
          Length = 331

 Score =  398 bits (1024), Expect = e-108,   Method: Composition-based stats.
 Identities = 130/346 (37%), Positives = 199/346 (57%), Gaps = 22/346 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +++   +A+EK I  D+++  +  ++  A           RVE++  TG ++++      
Sbjct: 5   VKLLKGLAHEKEISFDLLVEAIESALLIAYHRTPDARRHARVELDRVTGHVTVWAK---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
              E+ +     +  +D D              P DFGR+A  +A+QVI Q++R+AE D 
Sbjct: 61  ---EDPSELEEGQEPKDFDD------------TPSDFGRIAASTARQVIQQRLRDAENDV 105

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIY 187
            + E+  + G++++G V++  +  NV+V L    + ++   E +  E    G R+++Y+ 
Sbjct: 106 TFGEYARREGDVVAGVVQQGKDPKNVLVKLDDKLEAILPVQEQVPGEEYSHGLRLRTYVV 165

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  RGP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S 
Sbjct: 166 RVAKGVRGPSVTLSRTHPNLVKKLFALEVPEIADGSVEIAAIAREAGHRTKIAVRSTRSG 225

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVG 306
           ++P GAC+G  GSRV+ V+ EL  EKIDIV WS D A  V NAL PA V+KV V+D    
Sbjct: 226 LNPKGACIGPMGSRVRNVMAELLGEKIDIVDWSDDPAEMVANALSPARVSKVEVVDMAAR 285

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
              V VP  QLSLAIG+ GQN RLA++LTGW IDI  + E S  + 
Sbjct: 286 SARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTEPSGPQD 331


>gi|318081083|ref|ZP_07988415.1| transcription elongation factor NusA [Streptomyces sp. SA3_actF]
          Length = 343

 Score =  398 bits (1024), Expect = e-108,   Method: Composition-based stats.
 Identities = 126/339 (37%), Positives = 194/339 (57%), Gaps = 18/339 (5%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  EK I  D ++  +  ++  A      +    RV ++ E+G ++++ + E  
Sbjct: 1   MSALRGLVREKEISFDRLVEAIESALLIAYHRTEHSHRRARVHLDRESGHVTVW-VKEEA 59

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
            ++ +       + AR R               P DFGR+A  +AKQVI+Q++R+A+ D 
Sbjct: 60  ADLADLG-----EDARPR----------EFDDTPSDFGRIAATTAKQVILQRLRDAQDDA 104

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              E+  + G+I++G V++  +  NV+VD+G  + ++   E +  E    G R++SY+  
Sbjct: 105 TLGEYAGREGDIVTGVVQQGRDPKNVLVDIGKLEAILPVQEQVPGEEYTHGLRLRSYVVR 164

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  RGP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S +
Sbjct: 165 VAKGMRGPSVTLSRTHPNLVKKLFSLEVPEIADGSVEIAAIAREAGHRTKIAVRSNRSGL 224

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  G RV+ V+ EL  EKIDIV WS + A  V +AL PA V+ V V+D     
Sbjct: 225 NAKGACIGPMGGRVRNVMAELNGEKIDIVDWSDNPADLVAHALSPARVSHVEVVDLATRS 284

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             V VP  QLSLAIG+ GQN RLA++LTGW IDI  + E
Sbjct: 285 ARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTE 323


>gi|108799047|ref|YP_639244.1| transcription elongation factor NusA [Mycobacterium sp. MCS]
 gi|119868162|ref|YP_938114.1| transcription elongation factor NusA [Mycobacterium sp. KMS]
 gi|126434650|ref|YP_001070341.1| transcription elongation factor NusA [Mycobacterium sp. JLS]
 gi|108769466|gb|ABG08188.1| NusA antitermination factor [Mycobacterium sp. MCS]
 gi|119694251|gb|ABL91324.1| NusA antitermination factor [Mycobacterium sp. KMS]
 gi|126234450|gb|ABN97850.1| NusA antitermination factor [Mycobacterium sp. JLS]
          Length = 347

 Score =  398 bits (1024), Expect = e-108,   Method: Composition-based stats.
 Identities = 132/356 (37%), Positives = 199/356 (55%), Gaps = 31/356 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  +K I  DVV+  +  ++  A R   G  +D R++I+ ++G + +       
Sbjct: 5   MAALHAIEADKGISVDVVVDTIKSALLTAYRHTEGHQADARIDIDRKSGAVKVM------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         AR+ D   ++     D   P  FGR+A  +A+QVI+Q++R+AE ++
Sbjct: 59  --------------ARETDADGNLIQEWDD--TPEGFGRIAATTARQVILQRLRDAENEK 102

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN----VIVDLG----NSDGVIRRDETISRENLRPGDR 181
            Y EF  + G+I++G ++R    N    V+V +G     ++GVI   E +  E    GDR
Sbjct: 103 NYGEFSAREGDIVAGVIQRDARANARGLVVVRMGSETKGNEGVIPAAEQVPGERYEHGDR 162

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ Y+  V R  R P + LSRTHP  + KLF +EVPEI +G V + AV+R+ G R+K+AV
Sbjct: 163 LRCYVVGVTRGAREPLITLSRTHPNLVRKLFSLEVPEINDGSVDIVAVAREAGHRSKIAV 222

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            S    ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V  V V
Sbjct: 223 ASRVPGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDEDPARFVANALSPAKVVSVSV 282

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN 356
           +DE      V+VP  QLSLAIG+ GQN RLA++LTGW IDI ++       + D +
Sbjct: 283 IDEQTRAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRSDAAPPDQHRPDSD 338


>gi|255027177|ref|ZP_05299163.1| transcription elongation factor NusA [Listeria monocytogenes FSL
           J2-003]
          Length = 301

 Score =  398 bits (1024), Expect = e-108,   Method: Composition-based stats.
 Identities = 129/270 (47%), Positives = 187/270 (69%)

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
             +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VREAER   Y EF 
Sbjct: 1   RLEISMEEAHKLNPVYKPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAERGIIYDEFI 60

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y+  V +  +G
Sbjct: 61  DREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLTKVEKTTKG 120

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           PQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++++  +DPVGACV
Sbjct: 121 PQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTANEEVDPVGACV 180

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           G +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E      VIVP  
Sbjct: 181 GPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEADQATTVIVPDY 240

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           QLSLAIG+RGQN RLA++LTGW IDI +E 
Sbjct: 241 QLSLAIGKRGQNARLAAKLTGWKIDIKSET 270


>gi|291541940|emb|CBL15050.1| transcription termination factor NusA [Ruminococcus bromii L2-63]
          Length = 386

 Score =  398 bits (1023), Expect = e-108,   Method: Composition-based stats.
 Identities = 132/370 (35%), Positives = 219/370 (59%), Gaps = 5/370 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             +L +       EK I  D +L  +  +I  A ++ YG   ++  +++PE        +
Sbjct: 3   NKDLFEALRTFEKEKGIPMDYMLQNIEKAISVACKNYYGGNENVVFKVDPEKNSFDAKLV 62

Query: 66  LEVVEEVENYTCQISLKVARDRDPSID--IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV+EV +   +++++ A+  +      +G  +  P+ P   G  +V SA+ VI Q +R
Sbjct: 63  KTVVDEVFDPNFEVTVEEAQQINKRKKFIVGDEIEVPIDPKHLGWTSVSSARNVIRQGIR 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEY--GNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           + E+ +  +EF+ K+GEI++ TV+R++   G   + +G S+  + + E +  ++L+ GD 
Sbjct: 123 QGEKGQTLIEFQSKLGEIVTATVERIDPKSGVATIKIGKSEATLPKSEQLGHDDLKEGDH 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K YI DV+  +RGP  ++SRTHP  + +LF  EVPEIY+G+V++K++SR+ GSR K+AV
Sbjct: 183 IKVYIADVKDNERGPHAIISRTHPGLVKRLFEQEVPEIYDGVVEIKSISREAGSRTKMAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +SS+  +D +G+C+G +G+RV  +V EL  EKIDIV++S D   ++  AL PA V KV +
Sbjct: 243 YSSNPDVDAIGSCIGNKGARVNKIVEELGGEKIDIVLYSDDPEKYISAALSPASVCKVEI 302

Query: 302 -DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
            DE+       VP  QLSLAIG +GQN RLA++LTGW IDI  E       + D  +  +
Sbjct: 303 TDEETKSCRATVPDGQLSLAIGNKGQNARLAARLTGWRIDIRPESGFYGEDEDDEPKTEE 362

Query: 361 FFMQAINVDE 370
                +++DE
Sbjct: 363 KSEDVLDLDE 372


>gi|189465081|ref|ZP_03013866.1| hypothetical protein BACINT_01425 [Bacteroides intestinalis DSM
           17393]
 gi|189437355|gb|EDV06340.1| hypothetical protein BACINT_01425 [Bacteroides intestinalis DSM
           17393]
          Length = 440

 Score =  398 bits (1023), Expect = e-108,   Method: Composition-based stats.
 Identities = 138/413 (33%), Positives = 240/413 (58%), Gaps = 11/413 (2%)

Query: 4   ANRLELLQIADAVA--YE-KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           A ++E + + D  +   E K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD 
Sbjct: 2   AKKVETVSLIDTFSEFKELKNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDF 61

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R  EVV  E++EN   QI+L  A+  D S ++G  V+D +   +FGR A+ + +Q +
Sbjct: 62  EIWRNREVVADEDLENPNLQIALSEAQKIDASYEVGEEVTDEVIFANFGRRAILNLRQTL 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLR 177
             K+ E E+D  Y ++ DKVG II+  V ++     +++D   ++ ++ + E I  +  R
Sbjct: 122 ASKILELEKDSIYNKYIDKVGNIINAEVYQIWKKEMLLLDDEGNELLLPKTEQIPSDFYR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+  ++ +  V  +   P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RA
Sbjct: 182 KGETARAVVARVDNKNNNPKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVG++GSR+  +V ELR+E ID++ ++ +   F+  AL PA ++
Sbjct: 242 KIAVESYDDRIDPVGACVGVKGSRIHGIVRELRNENIDVINYTSNIQLFIQRALSPAKIS 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            + L+E+  + EV +  E++SLAIG+ G N++LAS LT +TID+  E + ++   +D + 
Sbjct: 302 SIRLNEEERKAEVFLRPEEVSLAIGKGGLNIKLASMLTEYTIDVFRELDQAV---EDEDI 358

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
               F     +D  +   + A G    + +       +      +EET  E+ 
Sbjct: 359 YLDEFRD--EIDGWVIDAIKAIGIDTAKAVLNAPREMLIEKTDLEEETVDEVL 409


>gi|271963647|ref|YP_003337843.1| transcription elongation factor NusA [Streptosporangium roseum DSM
           43021]
 gi|270506822|gb|ACZ85100.1| transcription elongation factor NusA [Streptosporangium roseum DSM
           43021]
          Length = 331

 Score =  398 bits (1023), Expect = e-108,   Method: Composition-based stats.
 Identities = 125/339 (36%), Positives = 202/339 (59%), Gaps = 23/339 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           + +  ++  EK I  D+V+  + D++  A     G  +  R E++ ++G +++F      
Sbjct: 1   MSVLRSLEREKDISFDLVVKAIEDALLIAYFRSEGAAAKARAELDRQSGHVTIFA----- 55

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
            E+++ + ++     R+ D              P +F R+A  +AKQVI+Q++R+AE + 
Sbjct: 56  AEIDDESGEVL----REFDD------------TPGNFSRIAATTAKQVILQQLRDAEDEI 99

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
            + EF  + GE+++G +++  +   V+VDLG  + V+  +E +  E    G+R++ Y+  
Sbjct: 100 NFGEFASREGELVAGVIQQGKDPRVVLVDLGKIEAVLPHNEQVPGEEYVHGERLRCYVVQ 159

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V++  +GP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S    +
Sbjct: 160 VKKGHKGPSVTLSRTHPGLVKKLFALEVPEIADGTVEIAAIAREAGHRTKIAVRSRRPGV 219

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  GSRV+ V+ EL  EKIDI+ WS D A FV NAL P+ V+ V V+D +   
Sbjct: 220 NAKGACIGPMGSRVRNVMAELHGEKIDIIDWSEDPAEFVGNALSPSRVSHVEVIDAEGRA 279

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             V VP  QLSLAIG+ GQN RLA++LTGW IDI  + +
Sbjct: 280 ARVTVPDYQLSLAIGKEGQNARLANRLTGWRIDIRPDTQ 318


>gi|269956009|ref|YP_003325798.1| NusA antitermination factor [Xylanimonas cellulosilytica DSM 15894]
 gi|269304690|gb|ACZ30240.1| NusA antitermination factor [Xylanimonas cellulosilytica DSM 15894]
          Length = 344

 Score =  398 bits (1023), Expect = e-108,   Method: Composition-based stats.
 Identities = 128/339 (37%), Positives = 202/339 (59%), Gaps = 15/339 (4%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV- 68
           +     +  E+ +  DV++  +  ++  A        +  RVE++  TG ++++   E  
Sbjct: 5   MTTLRLLERERDLSLDVLVEAIESALLHAYHRTPDAYAKARVEVDRRTGHVTVWAREEFR 64

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
             +  +           +  P +++G        P DFGR+A  +A+QVI+Q++R+AE D
Sbjct: 65  TPDPSDP----------EGRPLVELGPEFD--HTPQDFGRIATATARQVIVQRLRDAEDD 112

Query: 129 RQYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +    F+ K GE+I+G +++  +   V+VD+G ++ V+   E +  E    G+R+++Y+ 
Sbjct: 113 QVLGLFRGKEGEVIAGVIQQGRDPRVVLVDVGGTEAVLPPHEQVPTEEYVHGERLRAYVV 172

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V R  +G QV LSRTHP  + KLF +EVPE+ +G V++ A++R+ G R+K+AV S    
Sbjct: 173 EVARGAKGAQVTLSRTHPGLVRKLFELEVPEVADGSVEITAIAREAGHRSKVAVRSRVQG 232

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVG 306
           ++  GAC+G  G+RV+AV+ EL  EKIDIV  S D A FV NAL PA VT V V+DED  
Sbjct: 233 LNAKGACIGPMGARVRAVMAELHGEKIDIVDHSDDPARFVANALSPARVTSVTVVDEDAR 292

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
               +VP  QLSLAIG+ GQN RLA++LTGW IDI ++E
Sbjct: 293 AARAVVPDYQLSLAIGKEGQNARLAAKLTGWRIDIRSDE 331


>gi|189459826|ref|ZP_03008611.1| hypothetical protein BACCOP_00456 [Bacteroides coprocola DSM 17136]
 gi|189433436|gb|EDV02421.1| hypothetical protein BACCOP_00456 [Bacteroides coprocola DSM 17136]
          Length = 418

 Score =  397 bits (1022), Expect = e-108,   Method: Composition-based stats.
 Identities = 136/403 (33%), Positives = 230/403 (57%), Gaps = 8/403 (1%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTC 77
           K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD  ++R  EVV  +E+ N   
Sbjct: 21  KNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDFEIWRNREVVADDELTNPNL 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QISL  AR  D S ++G  V+D +    FGR A+ + +Q +  K+ E E+D  Y ++ DK
Sbjct: 81  QISLTEARKIDASYEVGEEVTDEVIFEKFGRRAILNLRQTLASKILELEKDSLYNKYIDK 140

Query: 138 VGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG II+  V ++    +++ D   ++ ++ + E I  +  R G+ V++ +  V  +   P
Sbjct: 141 VGTIIAAEVYQIWKKEILLLDDEGNELLLPKTEQIPSDFYRKGETVRAVVARVDNKNNNP 200

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +++LSRT P F+ +LF  EVPEI +G++ +K ++R PG RAK+AV S D  IDPVGACVG
Sbjct: 201 KIILSRTSPMFLQRLFEQEVPEINDGLITIKKIARIPGERAKIAVESYDERIDPVGACVG 260

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           ++GSR+  +V ELR+E ID++ ++ +   FV  AL PA V+ +++ E+  + EV +  E+
Sbjct: 261 VKGSRIHGIVRELRNENIDVINYTSNIQLFVQRALSPAKVSSIIMHEEEKKAEVYLKPEE 320

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLL 376
           +SLAIG+ G N++LAS LT +TID+  E +++     D +     F     +DE + + +
Sbjct: 321 VSLAIGKGGMNIKLASMLTEYTIDVYRELDENAT---DEDIYLDEFKD--EIDEWVINAI 375

Query: 377 VAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
              G    + +       +      +E T  ++    R   E 
Sbjct: 376 KGIGIDTAKGVLNAPREMLIEKADLEENTVDDVLRILRAEFEE 418


>gi|306832818|ref|ZP_07465953.1| transcription termination factor NusA [Streptococcus bovis ATCC
           700338]
 gi|304425053|gb|EFM28184.1| transcription termination factor NusA [Streptococcus bovis ATCC
           700338]
          Length = 399

 Score =  397 bits (1022), Expect = e-108,   Method: Composition-based stats.
 Identities = 129/380 (33%), Positives = 213/380 (56%), Gaps = 15/380 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  EK I+++ ++  + +S++ A +  YG      +E + + GD  ++ +
Sbjct: 5   SKEMLEAFRILEEEKHINKEDIIDAVKESLKSAYKRRYGQSESCVIEFDDKKGDFKVYTV 64

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEV +   +ISL  A     + ++G  +       +FGRVA QSAKQ I++K+R  
Sbjct: 65  REVVEEVFDSRLEISLSDALKISSAYELGDKIRFEESVAEFGRVAAQSAKQTIMEKMRRQ 124

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R+  Y E+K   GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR++ Y
Sbjct: 125 IREVTYNEYKQHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIEVY 184

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    +G  V +SR+HPQF+ ++   E+PE+++G V++ +VSR+ G R K+AV S +
Sbjct: 185 VYKVENNPKGVNVFVSRSHPQFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHN 244

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+
Sbjct: 245 PNVDAIGTIVGRGGSNIKKVISKFHPKRYDAKAGIEVPIEENIDVIQWVEDPAEFIYNAI 304

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V  V+ DE+   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 305 APAEVDMVLFDEEDSKRATVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEYEAL 364

Query: 351 RQKDFNERTQFFMQAINVDE 370
             +          +   V+E
Sbjct: 365 EAEHEANAAVTQEEVAPVEE 384


>gi|255692953|ref|ZP_05416628.1| transcription termination factor NusA [Bacteroides finegoldii DSM
           17565]
 gi|260621264|gb|EEX44135.1| transcription termination factor NusA [Bacteroides finegoldii DSM
           17565]
          Length = 421

 Score =  397 bits (1022), Expect = e-108,   Method: Composition-based stats.
 Identities = 140/424 (33%), Positives = 241/424 (56%), Gaps = 11/424 (2%)

Query: 4   ANRLELLQIADAVA--YE-KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           A + E + + D  +   E K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD 
Sbjct: 2   AKKEETISLIDTFSEFKELKNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDF 61

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R  EVV  E++ N   QISL  A+  D S ++G  V+D +    FGR A+ + +Q +
Sbjct: 62  EIWRNREVVADEDLTNPNMQISLSEAQKIDASYEVGEEVTDEVIFAKFGRRAILNLRQTL 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLR 177
             K+ E E+D  Y ++ DKVG II+  V ++     +++D   ++ ++ + E I  +  R
Sbjct: 122 ASKILELEKDSIYNKYIDKVGTIINAEVYQIWKKEMLLLDDEGNELLLPKTEQIPSDFYR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+  ++ +  V  +   P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RA
Sbjct: 182 KGETARAVVARVDNKNNNPKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVG++GSR+  +V ELR+E ID++ ++ + + F+  AL PA ++
Sbjct: 242 KIAVESYDDRIDPVGACVGVKGSRIHGIVRELRNENIDVINYTSNISLFIQRALSPAKIS 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            + L+E+  + EV +  E++SLAIG+ G N++LAS LT +TID+  E ++S+    D + 
Sbjct: 302 SIRLNEEEKKAEVFLKPEEVSLAIGKGGLNIKLASMLTEYTIDVFRELDESV---ADEDI 358

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F     +D  +   + A G    + +       +      +EET  E+    +   
Sbjct: 359 YLDEFRD--EIDGWVIDAIKAIGIDTAKAVLNAPREMLIEKTDLEEETVDEVIRILKSEF 416

Query: 418 EGID 421
           E  +
Sbjct: 417 EESE 420


>gi|237716685|ref|ZP_04547166.1| transcription elongation factor NusA [Bacteroides sp. D1]
 gi|262405461|ref|ZP_06082011.1| transcription termination factor NusA [Bacteroides sp. 2_1_22]
 gi|293370440|ref|ZP_06616993.1| transcription termination factor NusA [Bacteroides ovatus SD CMC
           3f]
 gi|294646240|ref|ZP_06723894.1| transcription termination factor NusA [Bacteroides ovatus SD CC 2a]
 gi|294809092|ref|ZP_06767810.1| transcription termination factor NusA [Bacteroides xylanisolvens SD
           CC 1b]
 gi|229442668|gb|EEO48459.1| transcription elongation factor NusA [Bacteroides sp. D1]
 gi|262356336|gb|EEZ05426.1| transcription termination factor NusA [Bacteroides sp. 2_1_22]
 gi|292634432|gb|EFF52968.1| transcription termination factor NusA [Bacteroides ovatus SD CMC
           3f]
 gi|292638458|gb|EFF56822.1| transcription termination factor NusA [Bacteroides ovatus SD CC 2a]
 gi|294443646|gb|EFG12395.1| transcription termination factor NusA [Bacteroides xylanisolvens SD
           CC 1b]
          Length = 424

 Score =  397 bits (1022), Expect = e-108,   Method: Composition-based stats.
 Identities = 139/413 (33%), Positives = 237/413 (57%), Gaps = 11/413 (2%)

Query: 4   ANRLELLQIADAVA--YE-KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           A + E + + D  +   E K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD 
Sbjct: 2   AKKEETISLIDTFSEFKELKNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDF 61

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R  EVV  E++ N   QISL  A+  D S + G  V+D +    FGR A+ + +Q +
Sbjct: 62  EIWRNREVVADEDLTNPNMQISLSEAQKIDASYEEGEEVTDEVIFAKFGRRAILNLRQTL 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLR 177
             K+ E E+D  Y ++ DKVG II+  V ++     +++D   ++ ++ + E I  +  R
Sbjct: 122 ASKILELEKDSIYNKYIDKVGTIINAEVYQIWKKEMLLLDDEGNELLLPKTEQIPSDFYR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+  ++ +  V  +   P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RA
Sbjct: 182 KGETARAVVARVDNKNNNPKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVG++GSR+  +V ELR+E ID++ ++ + + F+  AL PA ++
Sbjct: 242 KIAVESYDDRIDPVGACVGVKGSRIHGIVRELRNENIDVINYTSNISLFIQRALSPAKIS 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            + L+E+  + EV +  E++SLAIG+ G N++LAS LT +TID+  E ++S+    D + 
Sbjct: 302 SIRLNEEEKKAEVFLKPEEVSLAIGKGGLNIKLASMLTEYTIDVFRELDESV---ADEDI 358

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
               F     +D  +   + A G    + +       +      +EET  E+ 
Sbjct: 359 YLDEFRD--EIDGWVIDAIKAIGIDTAKAVLNAPREMLIEKTDLEEETVDEVI 409


>gi|297191724|ref|ZP_06909122.1| transcription elongation factor NusA [Streptomyces
           pristinaespiralis ATCC 25486]
 gi|197721420|gb|EDY65328.1| transcription elongation factor NusA [Streptomyces
           pristinaespiralis ATCC 25486]
          Length = 331

 Score =  397 bits (1022), Expect = e-108,   Method: Composition-based stats.
 Identities = 127/340 (37%), Positives = 195/340 (57%), Gaps = 22/340 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +++   +A EK I  D+++  +  ++  A     G+    RV ++  TG ++++      
Sbjct: 5   VKLLKGLAQEKEIGFDLLVEAIESALLIAYHRTEGSRRHARVVLDRNTGHVTVWAK---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
              E+      L+  ++                P DFGR+A  +A+QVI Q++R+AE D 
Sbjct: 61  ---EDPA---DLEEGQEPK---------EFDDTPSDFGRIAATTARQVIQQRLRDAENDV 105

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIY 187
            + E+  + G++++G V++  +  NV+V L    + ++   E +  E    G R+++Y+ 
Sbjct: 106 TFGEYARREGDVVAGMVQQGKDPKNVLVKLDDKLEAILPVQEQVPGEEYTHGLRLRTYVV 165

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V R  RGP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S 
Sbjct: 166 RVARGVRGPSVTLSRTHPNLVKKLFALEVPEIADGSVEIAAIAREAGHRTKIAVRSTRSG 225

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVG 306
           ++P GAC+G  G RV+ V+ EL  EKIDIV WS D A  V NAL PA V+KV ++D    
Sbjct: 226 LNPKGACIGPMGGRVRNVMAELHGEKIDIVDWSDDPAEMVANALSPARVSKVEIVDLGAR 285

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
              V VP  QLSLAIG+ GQN RLA++LTGW IDI  + E
Sbjct: 286 SARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTE 325


>gi|224543310|ref|ZP_03683849.1| hypothetical protein CATMIT_02510 [Catenibacterium mitsuokai DSM
           15897]
 gi|224523843|gb|EEF92948.1| hypothetical protein CATMIT_02510 [Catenibacterium mitsuokai DSM
           15897]
          Length = 435

 Score =  397 bits (1021), Expect = e-108,   Method: Composition-based stats.
 Identities = 135/340 (39%), Positives = 212/340 (62%), Gaps = 2/340 (0%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFRLLEVVE 70
             + +  +K +D  +V+  + +++ K+ +  Y GT S +   I+ + G I +F    VV+
Sbjct: 11  ALENLIEDKGLDSAIVIEALTEALAKSYKKNYCGTESIVDCRIDGD-GQIRIFITHHVVD 69

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           +V +   + S++ A++ DP   +G  V +     +FGR+A    KQ++ QK+REAE++  
Sbjct: 70  DVNDEDYEYSIEEAQEIDPKYQVGDEVVEEADISEFGRLAAIQTKQLLRQKIREAEKEAL 129

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVR 190
           Y E+ +K+ EII+GTV RVE    I+++G +  ++   + I  E L  G+ VK Y+ +V 
Sbjct: 130 YNEYINKLDEIINGTVDRVEERFAIINIGKTGALLSSKDQIPGETLVEGEHVKVYVSEVE 189

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDP 250
           R  +G  + +SRTH   + +LF MEVPEI+ G V++K+VSR+ G R+K+AV++++  IDP
Sbjct: 190 RTTKGTHISVSRTHEGLVKRLFEMEVPEIFEGTVEIKSVSREAGERSKIAVYTANPDIDP 249

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEV 310
           +GACVG +G+RV+ VV EL  E IDI+ WS D  TF+ +AL PA V +V L+       V
Sbjct: 250 IGACVGPKGNRVRNVVEELNGEMIDIIEWSDDPVTFISHALSPAKVERVKLNHAKNSALV 309

Query: 311 IVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
           +VP +QLSLAIG+RGQN RLA +LT W IDI +  E    
Sbjct: 310 VVPDDQLSLAIGKRGQNARLAVKLTNWKIDIKSVSEILEE 349


>gi|304383857|ref|ZP_07366314.1| transcription termination factor NusA [Prevotella marshii DSM
           16973]
 gi|304334935|gb|EFM01208.1| transcription termination factor NusA [Prevotella marshii DSM
           16973]
          Length = 420

 Score =  397 bits (1021), Expect = e-108,   Method: Composition-based stats.
 Identities = 147/413 (35%), Positives = 232/413 (56%), Gaps = 8/413 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +++        K+IDR  ++SV+ +S +     L+G+  +  V +NP+ GD  ++R   V
Sbjct: 13  MIETFKEFKDTKNIDRTTLVSVLEESFRNVIAKLFGSDENFDVIVNPDKGDFEIYRNRVV 72

Query: 69  VE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           V   EV++   +ISL  A+  +   +IG  VS+P+    FGR AV + +Q +  KV E E
Sbjct: 73  VADGEVQDENKEISLSEAQKIEKDYEIGEEVSEPVDFAKFGRRAVLNLRQTLASKVLELE 132

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNV-IVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            D  Y ++KD+VG+IISG V +V    V IVD  N++ ++ + E I  +  R G+ +++ 
Sbjct: 133 HDSLYNKYKDRVGQIISGEVYQVWKREVLIVDDENNELILPKSEQIPADQYRKGETIRTV 192

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V  E   P+++LSRT P F+ +L   EVPEI +G++ V+ ++R PG RAK+AV S D
Sbjct: 193 ILRVDNENNNPKIILSRTSPMFLQRLLEAEVPEIGDGLITVRKIARIPGERAKVAVESYD 252

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVGACVG+RGSRV  +V EL +E ID++ ++ +   F+  AL PA V+ + +DE+ 
Sbjct: 253 ERIDPVGACVGVRGSRVHGIVYELCNENIDVINYTSNVKLFIQRALSPAKVSSINIDEEN 312

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            + EV +  E++SLAIGR G N++LAS LT +TID+  E ED      D +     F   
Sbjct: 313 RKAEVFLKPEEVSLAIGRSGMNIKLASMLTEYTIDVFREIEDGDI---DEDIYLDEFSD- 368

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
             +D+ I   + A G    + +       +      +EET   +    +   E
Sbjct: 369 -EIDKWIIDSIKAIGLDTAKAVINAPREMLVEKADLEEETVDNVLRILKAEFE 420


>gi|297562526|ref|YP_003681500.1| NusA antitermination factor [Nocardiopsis dassonvillei subsp.
           dassonvillei DSM 43111]
 gi|296846974|gb|ADH68994.1| NusA antitermination factor [Nocardiopsis dassonvillei subsp.
           dassonvillei DSM 43111]
          Length = 337

 Score =  397 bits (1021), Expect = e-108,   Method: Composition-based stats.
 Identities = 131/347 (37%), Positives = 197/347 (56%), Gaps = 24/347 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           + +  ++  EK I  ++V   + D++  A     G     RVE+N  TG ++++      
Sbjct: 1   MSVLRSLEREKDISVELVAKAIEDALLIAYHREEGPEKRARVELNRSTGHVTVW------ 54

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                           + D   +  G       P  FGR+A  +AKQVI+Q++R+AE + 
Sbjct: 55  --------------VAETDEDGESVGEFDG--TPTGFGRIATSTAKQVILQRLRDAEDEL 98

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              EF  +  +I+SG +++  +  NV+VDLG  + V+   E +  E    G+R+++Y+  
Sbjct: 99  TLGEFAGREHDIVSGIIQQGKDPRNVLVDLGKIEAVLPPQEQVPTETYTHGERLRAYVVQ 158

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           VR+  RGP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+   +
Sbjct: 159 VRKGHRGPSVTLSRTHPNLVRKLFELEVPEIADGTVEIAAIAREAGHRTKMAVHSNRGGV 218

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  GSRV+ V+ EL  EKIDIV +S D A FV NAL PA V  V +LD     
Sbjct: 219 NAKGACIGPLGSRVRNVMAELHGEKIDIVDYSEDPAVFVANALSPARVNSVEILDMASRV 278

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
             VIVP  Q SLAIG+ GQN RLA++LTGW IDI ++ E +   +++
Sbjct: 279 ARVIVPDYQQSLAIGKEGQNARLAARLTGWRIDIRSDAEPAGEPERE 325


>gi|306830060|ref|ZP_07463246.1| transcription termination factor NusA [Streptococcus mitis ATCC
           6249]
 gi|304427773|gb|EFM30867.1| transcription termination factor NusA [Streptococcus mitis ATCC
           6249]
          Length = 378

 Score =  397 bits (1021), Expect = e-108,   Method: Composition-based stats.
 Identities = 132/389 (33%), Positives = 220/389 (56%), Gaps = 27/389 (6%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ +
Sbjct: 2   SKEMLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 62  REVVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y
Sbjct: 122 TRAITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S +
Sbjct: 182 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGANIKKITSKFHPARYDAKSDRMIPVEENIDVIEWVADPAEFIYNAI 301

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ DE+   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEFEAM 361

Query: 351 RQKDFNERTQFFMQAINVDEIIAHLLVAE 379
                        +A  VD  +A  L+ E
Sbjct: 362 E------------EAGQVDYAVADELIEE 378


>gi|222153583|ref|YP_002562760.1| transcription elongation factor NusA [Streptococcus uberis 0140J]
 gi|222114396|emb|CAR43159.1| putative N utilization substance protein A [Streptococcus uberis
           0140J]
          Length = 382

 Score =  397 bits (1021), Expect = e-108,   Method: Composition-based stats.
 Identities = 130/381 (34%), Positives = 219/381 (57%), Gaps = 15/381 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  EK I+++ ++  + +S++ A +  YG      +E N +TGD  +F +
Sbjct: 2   SKEMLEAFRILEEEKHINKEDIIEAVTESLKSAYKRRYGQSESCVIEFNEKTGDFQVFSV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEV +   +ISL  A     + ++G  +       +FGRVA QSAKQ I++K+R  
Sbjct: 62  REVVEEVFDSRLEISLSDALAISSAYELGDKIRFEESVAEFGRVAAQSAKQTIMEKMRRQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R+  + E+K+  GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR++ Y
Sbjct: 122 IREVTFNEYKEHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIEVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S +
Sbjct: 182 VYKVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGSNIKKVISKFHPKRFDAKTGIEIPVEENIDVIQWVEDPAEFIYNAI 301

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V  V+ D+D   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  +   +
Sbjct: 302 APAEVDMVLFDDDDLKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASDYEAS 361

Query: 351 RQKDFNERTQFFMQAINVDEI 371
                +  +Q   + I+ +E 
Sbjct: 362 EAALADLDSQEAEEVISNEEE 382


>gi|255530056|ref|YP_003090428.1| transcription elongation factor NusA [Pedobacter heparinus DSM
           2366]
 gi|255343040|gb|ACU02366.1| transcription termination factor NusA [Pedobacter heparinus DSM
           2366]
          Length = 411

 Score =  397 bits (1021), Expect = e-108,   Method: Composition-based stats.
 Identities = 138/421 (32%), Positives = 240/421 (57%), Gaps = 13/421 (3%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M + N ++  Q        K+IDR  V+SV+ +  +   R  YGT  +  V +NP+ GD+
Sbjct: 1   MSNINLIDSFQEFKDF---KNIDRPTVISVLEEVFRSMLRKKYGTDENCDVIVNPDNGDL 57

Query: 61  SLFRLLEVVEEV--ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R  +V+E+   E+   +I L   +  DP +++G    + +    FGR A+ +A+Q +
Sbjct: 58  EIWRTRKVMEDGFSEDDDLEIELAEVKQLDPDMEVGDDYIEQITLESFGRRAILAARQTL 117

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLR 177
           + KV E E+D  + ++KD+VGEI++G V +V     +V D   ++ ++ + E I  +  +
Sbjct: 118 VSKVLELEKDEIFKKYKDRVGEIVTGEVYQVWKKETLVLDDEGNELMMPKTEQIPADYFK 177

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            GD V++ I  V      P++++SR  P+F+ +LF +EVPEI++G++ +K + R+PG RA
Sbjct: 178 KGDTVRAVILKVDMVNATPKIIISRIAPEFLQRLFEIEVPEIFDGLITIKKIVREPGERA 237

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVGM+GSR+  +V EL++E ID++ ++ + + ++  AL PA +T
Sbjct: 238 KVAVESYDDRIDPVGACVGMKGSRIHGIVRELKNENIDVINFTNNISLYITRALSPAKIT 297

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            + LD++     V +  +Q+SLAIGR G N++LA +LTG+ ID+  E       ++D + 
Sbjct: 298 SIKLDDETKHASVYLKPDQVSLAIGRGGHNIKLAGKLTGYEIDVYREA-----GEEDEDV 352

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
             + F     +D  I   L A G    + +  + + E+      +EET  E+    +   
Sbjct: 353 DIEEFSD--EIDSWIIDELKAIGCDTAKSVLALSVDELVKRTDLEEETIKEVMSILKSEF 410

Query: 418 E 418
           E
Sbjct: 411 E 411


>gi|224025208|ref|ZP_03643574.1| hypothetical protein BACCOPRO_01942 [Bacteroides coprophilus DSM
           18228]
 gi|224018444|gb|EEF76442.1| hypothetical protein BACCOPRO_01942 [Bacteroides coprophilus DSM
           18228]
          Length = 418

 Score =  397 bits (1021), Expect = e-108,   Method: Composition-based stats.
 Identities = 139/422 (32%), Positives = 236/422 (55%), Gaps = 11/422 (2%)

Query: 4   ANRLELLQIADAVA--YE-KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           A + E + + D  +   E K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD 
Sbjct: 2   AKKEETVSLIDTFSEFKELKNIDRTTLVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDF 61

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R  EVV  E++ N   QISL  AR  D S +IG  V+D +    FGR A+ + +Q +
Sbjct: 62  EIWRNREVVADEDLTNPNSQISLSQARQIDASYEIGEEVTDEVIFEKFGRRAILNLRQTL 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLR 177
             K+ E E+D  Y ++ DKVG +IS  V ++    +++ D   ++ ++ + E I  +  R
Sbjct: 122 ASKILELEKDSLYNKYIDKVGTVISAEVYQIWKKEILLLDDEGNELLLPKTEQIPGDFYR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+  ++ +  V      P+++LSRT P F+ +LF  EVPEI +G++ ++ ++R PG RA
Sbjct: 182 KGETARAVVARVDNPGNNPKIILSRTSPMFLQRLFEQEVPEIADGLITIRRIARIPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVG++GSR+  +V ELR+E ID++ ++ +   F+  AL PA ++
Sbjct: 242 KIAVESYDDRIDPVGACVGVKGSRIHGIVRELRNENIDVINYTSNIQLFIQRALSPAKIS 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            +V+ ED  + EV +  E++SLAIG+ G N++LAS LT +TID+  E ++S     D + 
Sbjct: 302 SIVMHEDEKKAEVYLKPEEVSLAIGKGGMNIKLASMLTEYTIDVYRELDESAT---DEDI 358

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F     +DE + + +   G    + +       +      +E T  ++    +   
Sbjct: 359 YLDEFKD--EIDEWVINAIKGIGIDTAKGVLNAPREMLIEKADLEENTVDDVLRILKAEF 416

Query: 418 EG 419
           E 
Sbjct: 417 EA 418


>gi|171778095|ref|ZP_02919352.1| hypothetical protein STRINF_00187 [Streptococcus infantarius subsp.
           infantarius ATCC BAA-102]
 gi|171283077|gb|EDT48501.1| hypothetical protein STRINF_00187 [Streptococcus infantarius subsp.
           infantarius ATCC BAA-102]
          Length = 397

 Score =  397 bits (1021), Expect = e-108,   Method: Composition-based stats.
 Identities = 127/355 (35%), Positives = 207/355 (58%), Gaps = 15/355 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  EK I++D ++  + +S++ A +  YG      +E + + GD  ++ +
Sbjct: 5   SKEMLEAFRILEEEKHINKDDIIDAVKESLKSAYKRRYGQSESCVIEFDDKKGDFKVYTV 64

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEV +   +ISL  A     + ++G  +       +FGRVA QSAKQ I++K+R  
Sbjct: 65  REVVEEVFDSRLEISLSDALKISSAYELGDKIRFEESVAEFGRVAAQSAKQTIMEKMRRQ 124

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R+  Y E+K   GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR++ Y
Sbjct: 125 IREVTYNEYKQHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETWKSHDRIEVY 184

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    +G  V +SR+HPQF+ ++   E+PE+++G V++ +VSR+ G R K+AV S +
Sbjct: 185 VYKVENNPKGVNVFVSRSHPQFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHN 244

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+
Sbjct: 245 PNVDAIGTIVGRGGSNIKKVISKFHPKRYDAKAGVEVPVEENIDVIQWVEDPAEFIYNAI 304

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
            PA V  V+ DE+   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  
Sbjct: 305 APAEVDMVLFDEEDSKRATVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSAS 359


>gi|53711553|ref|YP_097545.1| transcription elongation factor NusA [Bacteroides fragilis YCH46]
 gi|60679812|ref|YP_209956.1| transcription elongation factor NusA [Bacteroides fragilis NCTC
           9343]
 gi|253564386|ref|ZP_04841843.1| transcription elongation factor NusA [Bacteroides sp. 3_2_5]
 gi|265764945|ref|ZP_06093220.1| transcription termination factor NusA [Bacteroides sp. 2_1_16]
 gi|52214418|dbj|BAD47011.1| putative nitrogen utilization substance protein [Bacteroides
           fragilis YCH46]
 gi|60491246|emb|CAH05994.1| putative N utilization substance protein A [Bacteroides fragilis
           NCTC 9343]
 gi|251948162|gb|EES88444.1| transcription elongation factor NusA [Bacteroides sp. 3_2_5]
 gi|263254329|gb|EEZ25763.1| transcription termination factor NusA [Bacteroides sp. 2_1_16]
 gi|301161335|emb|CBW20875.1| putative N utilization substance protein A [Bacteroides fragilis
           638R]
          Length = 420

 Score =  397 bits (1021), Expect = e-108,   Method: Composition-based stats.
 Identities = 139/424 (32%), Positives = 241/424 (56%), Gaps = 11/424 (2%)

Query: 4   ANRLELLQIADAVA--YE-KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           A + E + + D  +   E K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD 
Sbjct: 2   AKKEETISLIDTFSEFKELKNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDF 61

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R  EVV  E++ N   QISL  A+  D S ++G  V+D +    FGR A+ + +Q +
Sbjct: 62  EIWRNREVVADEDLTNPNMQISLTEAQKIDASYEVGEEVTDEVIFAKFGRRAILNLRQTL 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLR 177
             K+ E E+D  Y ++ DKVG II+  V ++     +++D   ++ ++ + E I  +  R
Sbjct: 122 ASKILELEKDSIYNKYIDKVGTIINAEVYQIWKKEMLLLDDEGNELLLPKTEQIPSDFYR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+  ++ +  V  +   P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RA
Sbjct: 182 KGETARAVVARVDNKNNNPKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVG++GSR+  +V ELR+E ID++ ++ + + F+  AL PA ++
Sbjct: 242 KIAVESYDDRIDPVGACVGVKGSRIHGIVRELRNENIDVINYTSNISLFIQRALSPAKIS 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            + L+E+  + EV +  E++SLAIG+ G N++LAS LT +TID+  E +++    +D + 
Sbjct: 302 SIRLNEEERKAEVFLKPEEVSLAIGKGGLNIKLASMLTEYTIDVFRELDENA---QDEDI 358

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F     +D  +   + A G    + +       +      +EET  E+    +   
Sbjct: 359 YLDEFRD--EIDGWVIDAIKAIGIDTAKSVLNAPREMLIEKTDLEEETVDEVLRILKSEF 416

Query: 418 EGID 421
           E  +
Sbjct: 417 EDNE 420


>gi|320449995|ref|YP_004202091.1| transcription termination factor NusA [Thermus scotoductus SA-01]
 gi|320150164|gb|ADW21542.1| transcription termination factor NusA [Thermus scotoductus SA-01]
          Length = 387

 Score =  397 bits (1020), Expect = e-108,   Method: Composition-based stats.
 Identities = 135/351 (38%), Positives = 212/351 (60%), Gaps = 11/351 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL----------YGTMSDIRVEINP 55
             E +     +A E+ +  + VL    ++++KA               G   ++ V I+P
Sbjct: 2   NREFIDAMQQLALERGVTTEEVLEAFKEALRKAYIKRQKGYRKEEIDAGKGPEVDVYIDP 61

Query: 56  ETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAK 115
           +TG I +  +  VVE+VE+   +I+L  A   DP + +G  +  P+ P    R+A+Q  +
Sbjct: 62  QTGRIEMVEVRRVVEKVEDPDKEIALSEALQYDPEVQVGDEMEFPIDPEGLSRMAIQDLR 121

Query: 116 QVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRE 174
           Q++ Q+++E+ER+R Y E+KDK G++++G V RV+  GNV V+LG  +  + + E I  E
Sbjct: 122 QILTQRLKESERNRIYNEYKDKEGQVLTGVVTRVDNRGNVFVELGRGEAYLPKSEQIPTE 181

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
              PG R+K Y+  V R  +GP +++SR H + +  L   EVPEI  GIV++KA++R+PG
Sbjct: 182 RYYPGQRLKVYLKKVDRSAKGPSLIVSRAHEKLLEHLLKQEVPEIAEGIVEIKAIAREPG 241

Query: 235 SRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA 294
            R+K+AV + + ++DP+GAC+G +G R+QAV  EL  EK+DI++W+ D   F+ NAL PA
Sbjct: 242 RRSKVAVMTHNPNVDPIGACIGHKGQRIQAVSAELGREKVDIILWAKDPKEFIRNALSPA 301

Query: 295 IVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
            V  + L+ D  +  V V K+Q SLAIG  GQNVRLAS+LTG+ I     E
Sbjct: 302 QVGSIELEPDGQKARVKVTKDQHSLAIGTGGQNVRLASKLTGYEIHFEEAE 352


>gi|183981905|ref|YP_001850196.1| N utilization substance protein a NusA [Mycobacterium marinum M]
 gi|183175231|gb|ACC40341.1| N utilization substance protein a NusA [Mycobacterium marinum M]
          Length = 347

 Score =  397 bits (1020), Expect = e-108,   Method: Composition-based stats.
 Identities = 130/361 (36%), Positives = 199/361 (55%), Gaps = 31/361 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  ++ I  + +L  +  ++  A R   G  +D R+EI+ +TG + +       
Sbjct: 5   MAALHAIEVDRGISVNELLETIKSALLTAYRHTQGHQTDARIEIDRKTGVVRVM------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         AR+ D   ++     D   P  FGR+A  +A+QV++Q+ R+AE +R
Sbjct: 59  --------------ARETDDDGNVISEWDD--TPEGFGRIAATTARQVMLQRFRDAENER 102

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDR 181
            Y EF  + GEI++G ++R    N    V+V +G+    S+GVI   E +  E+   G+R
Sbjct: 103 TYGEFSTREGEIVAGVIQRDSRANARGLVVVRMGSETKASEGVIPSAEQVPGESYEHGNR 162

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ Y+  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV
Sbjct: 163 LRCYVVGVSRGSREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAV 222

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            S+   ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V  V V
Sbjct: 223 RSNVPGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDEDPARFVANALSPAKVVSVSV 282

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +D+      V+VP  QLSLAIG+ GQN RLA++LTGW IDI  +  +      +      
Sbjct: 283 IDQTARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRGDSPEQSAEHPERGASRG 342

Query: 361 F 361
            
Sbjct: 343 L 343


>gi|320547937|ref|ZP_08042220.1| transcription termination factor NusA [Streptococcus equinus ATCC
           9812]
 gi|320447477|gb|EFW88237.1| transcription termination factor NusA [Streptococcus equinus ATCC
           9812]
          Length = 389

 Score =  397 bits (1020), Expect = e-108,   Method: Composition-based stats.
 Identities = 128/368 (34%), Positives = 210/368 (57%), Gaps = 15/368 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  EK I++D ++  + +S++ A +  YG      +E + + GD  ++ +
Sbjct: 5   SKEMLEAFRILEEEKHINKDDIIDAVKESLKSAYKRRYGQSESCVIEFDDKKGDFKVYTV 64

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEV +   +ISL  A     + ++G  +       +FGRVA QSAKQ I++K+R  
Sbjct: 65  REVVEEVFDSRLEISLSDALKISSAYELGDKIRFEESVAEFGRVAAQSAKQTIMEKMRRQ 124

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R+  Y E+K   GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR++ Y
Sbjct: 125 IREVTYNEYKQHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETWKSHDRIEVY 184

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    +G  V +SR+HPQF+ ++   E+PE+++G V++ +VSR+ G R K+AV S +
Sbjct: 185 VYKVENNPKGVNVFVSRSHPQFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHN 244

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+
Sbjct: 245 PNVDAIGTIVGRGGSNIKKVISKFHPKRYDAKAGVEVPVEENIDVIQWVEDPAEFIYNAI 304

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V  V+ DE+   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 305 APAEVDMVLFDEEDSKRATVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEYEAL 364

Query: 351 RQKDFNER 358
             +   + 
Sbjct: 365 EAERAEQV 372


>gi|24378911|ref|NP_720866.1| transcription elongation factor NusA [Streptococcus mutans UA159]
 gi|290581068|ref|YP_003485460.1| putative transcription factor [Streptococcus mutans NN2025]
 gi|24376794|gb|AAN58172.1|AE014888_10 putative transcription factor NusA [Streptococcus mutans UA159]
 gi|254997967|dbj|BAH88568.1| putative transcription factor [Streptococcus mutans NN2025]
          Length = 397

 Score =  397 bits (1020), Expect = e-108,   Method: Composition-based stats.
 Identities = 130/387 (33%), Positives = 218/387 (56%), Gaps = 20/387 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L+    +  EK I++D ++  + +S++ A +  YG      +E + ++GD  +F + E
Sbjct: 4   EMLEAFRILEEEKHINKDDIIDAVKESLKSAYKRRYGQAESAEIEFDEKSGDFKVFTVRE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R   R
Sbjct: 64  VVEEVFDSRLEISLKDALAISTAYELGDKIRFEESPKEFGRVAAQSAKQTIMEKMRRQMR 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +  + E+K+   EI++GTV+R +   + V+LG  +  + R + +  E     DR++ Y+Y
Sbjct: 124 EVTFNEYKEHEREIMTGTVERFDNRFIYVNLGTIEAQLSRQDQVPGETFASHDRIEVYVY 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +V+R+ G R K+AV S + +
Sbjct: 184 KVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVAREAGDRTKVAVRSHNPN 243

Query: 248 IDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRP 293
           +D +G  VG +G+ ++ V ++                +E +D++ W  D A F+ NA+ P
Sbjct: 244 VDAIGTIVGRKGANIKKVTSKFHPKRFDQKTGLWVPMEENVDVIEWVDDPAEFIYNAVAP 303

Query: 294 AIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
           A V +V+ D ED     V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E      
Sbjct: 304 AEVDQVLFDEEDDKHATVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEFEEMEA 363

Query: 353 K-----DFNERTQFFMQAINVDEIIAH 374
           +     +  E T     A  V E+   
Sbjct: 364 EWAAQDETQEATYEEAPAEEVSELSQE 390


>gi|118470868|ref|YP_886962.1| transcription elongation factor NusA [Mycobacterium smegmatis str.
           MC2 155]
 gi|118172155|gb|ABK73051.1| transcription termination factor NusA [Mycobacterium smegmatis str.
           MC2 155]
          Length = 343

 Score =  397 bits (1020), Expect = e-108,   Method: Composition-based stats.
 Identities = 135/345 (39%), Positives = 195/345 (56%), Gaps = 31/345 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  +K I  DVV+  +  ++  A R   G   D R++I+ +TG + +       
Sbjct: 5   MAALHAIEADKGISVDVVVETIKSALLTAYRHTDGHEPDARIDIDRKTGVVKV------- 57

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                        +AR  D   ++     D   P  FGR+A  +A+QVI+Q++R+AE ++
Sbjct: 58  -------------IARQTDADGNVLAEWDD--TPEGFGRIAATTARQVILQRLRDAENEK 102

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN----VIVDLG----NSDGVIRRDETISRENLRPGDR 181
            Y EF    G+I++G ++R    N    V+V +G     S+GVI   E +  E    GDR
Sbjct: 103 VYGEFAAHEGDIVAGVIQRDARANARGLVVVRMGSETKGSEGVIPAAEQVPGERYEHGDR 162

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+ Y+  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV
Sbjct: 163 VRCYVVGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAV 222

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            S    ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V  V V
Sbjct: 223 ASRVPGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDEDPARFVANALSPAKVVSVSV 282

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +DE      VIVP  QLSLAIG+ GQN RLA++LTGW IDI ++ 
Sbjct: 283 IDEAGRAARVIVPDFQLSLAIGKEGQNARLAARLTGWRIDIRSDA 327


>gi|160887870|ref|ZP_02068873.1| hypothetical protein BACUNI_00273 [Bacteroides uniformis ATCC 8492]
 gi|317477855|ref|ZP_07937041.1| transcription termination factor NusA [Bacteroides sp. 4_1_36]
 gi|156862556|gb|EDO55987.1| hypothetical protein BACUNI_00273 [Bacteroides uniformis ATCC 8492]
 gi|316905991|gb|EFV27759.1| transcription termination factor NusA [Bacteroides sp. 4_1_36]
          Length = 421

 Score =  396 bits (1019), Expect = e-108,   Method: Composition-based stats.
 Identities = 140/424 (33%), Positives = 245/424 (57%), Gaps = 11/424 (2%)

Query: 4   ANRLELLQIADAVA--YE-KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           A ++E + + D  +   E K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD 
Sbjct: 2   AKKVETVSLIDTFSEFKELKNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDF 61

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R  EVV  E++EN   QI+L  A+  D S ++G  V+D +   +FGR A+ + +Q +
Sbjct: 62  EIWRNREVVADEDLENPNLQIALSEAQKIDASYEVGEEVTDEVIFANFGRRAILNLRQTL 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLR 177
             K+ E E+D  Y ++ DKVG II+  V ++     +++D   ++ ++ + E I  +  R
Sbjct: 122 ASKILELEKDSIYNKYIDKVGTIINAEVYQIWKKEMLLLDDEGNELLLPKTEQIPSDFYR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+  ++ +  V  +   P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RA
Sbjct: 182 KGETARAVVARVDNKNNNPKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVG++GSR+  +V ELR+E ID++ ++ +   F+  AL PA ++
Sbjct: 242 KIAVESYDDRIDPVGACVGVKGSRIHGIVRELRNENIDVINYTSNIQLFIQRALSPAKIS 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            + L+E+  + EV +  E++SLAIG+ G N++LAS LT +TID+  E +++I   +D + 
Sbjct: 302 SIRLNEEERKAEVFLKPEEVSLAIGKGGLNIKLASMLTEYTIDVFRELDEAI---EDEDI 358

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F     +D  +   + A G    + +       +      +EET  E+    ++  
Sbjct: 359 YLDEFRD--EIDGWVIDAIKAIGIDTAKAVLNAPREMLIEKTDLEEETVDEVLRILKQEF 416

Query: 418 EGID 421
           E  +
Sbjct: 417 EEEE 420


>gi|50903880|gb|AAT87595.1| N utilization substance protein A [Streptococcus pyogenes
           MGAS10394]
 gi|71803212|gb|AAX72565.1| N utilization substance protein A [Streptococcus pyogenes MGAS6180]
 gi|94548429|gb|ABF38475.1| N utilization substance protein A [Streptococcus pyogenes
           MGAS10750]
          Length = 396

 Score =  396 bits (1019), Expect = e-108,   Method: Composition-based stats.
 Identities = 130/363 (35%), Positives = 210/363 (57%), Gaps = 15/363 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  EK ID+  ++  + +S++ A +  YG      +E N +T D  +F +
Sbjct: 13  SKEMLEAFRILEEEKHIDKADIIDAVTESLKSAYKRRYGQSESCVIEFNEKTADFQVFTV 72

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R  
Sbjct: 73  REVVEEVFDSRLEISLKDALAISSAYELGDKIRFEESVNEFGRVAAQSAKQTIMEKMRRQ 132

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R+  + E+K+  GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR+  Y
Sbjct: 133 MREVMFNEYKEHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIDVY 192

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S +
Sbjct: 193 VYKVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHN 252

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+
Sbjct: 253 PNVDAIGTIVGRGGSNIKKVISKFHPKRVDAKTGLEIPVEENIDVIQWVDDPAEFIYNAI 312

Query: 292 RPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V  V+  DED+ R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 313 APAEVDMVLFDDEDLKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEYDRL 372

Query: 351 RQK 353
             +
Sbjct: 373 EAE 375


>gi|255010119|ref|ZP_05282245.1| transcription elongation factor NusA [Bacteroides fragilis 3_1_12]
 gi|313147917|ref|ZP_07810110.1| transcription elongation factor NusA [Bacteroides fragilis 3_1_12]
 gi|313136684|gb|EFR54044.1| transcription elongation factor NusA [Bacteroides fragilis 3_1_12]
          Length = 420

 Score =  396 bits (1019), Expect = e-108,   Method: Composition-based stats.
 Identities = 139/424 (32%), Positives = 241/424 (56%), Gaps = 11/424 (2%)

Query: 4   ANRLELLQIADAVA--YE-KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           A + E + + D  +   E K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD 
Sbjct: 2   AKKEETISLIDTFSEFKELKNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDF 61

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R  EVV  E++ N   QISL  A+  D S ++G  V+D +    FGR A+ + +Q +
Sbjct: 62  EIWRNREVVADEDLTNPNMQISLTEAQQIDASYEVGEEVTDEVIFAKFGRRAILNLRQTL 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLR 177
             K+ E E+D  Y ++ DKVG II+  V ++     +++D   ++ ++ + E I  +  R
Sbjct: 122 ASKILELEKDSIYNKYIDKVGTIINAEVYQIWKKEMLLLDDEGNELLLPKTEQIPSDFYR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+  ++ +  V  +   P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RA
Sbjct: 182 KGETARAVVARVDNKNNNPKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVG++GSR+  +V ELR+E ID++ ++ + + F+  AL PA ++
Sbjct: 242 KIAVESYDDRIDPVGACVGVKGSRIHGIVRELRNENIDVINYTSNISLFIQRALSPAKIS 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            + L+E+  + EV +  E++SLAIG+ G N++LAS LT +TID+  E +++    +D + 
Sbjct: 302 SIRLNEEERKAEVFLKPEEVSLAIGKGGLNIKLASMLTEYTIDVFRELDENA---QDEDI 358

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F     +D  +   + A G    + +       +      +EET  E+    +   
Sbjct: 359 YLDEFRD--EIDGWVIDAIKAIGIDTAKSVLTAPREMLIEKTDLEEETVDEVLRILKSEF 416

Query: 418 EGID 421
           E  +
Sbjct: 417 EDNE 420


>gi|319900402|ref|YP_004160130.1| NusA antitermination factor [Bacteroides helcogenes P 36-108]
 gi|319415433|gb|ADV42544.1| NusA antitermination factor [Bacteroides helcogenes P 36-108]
          Length = 421

 Score =  396 bits (1019), Expect = e-108,   Method: Composition-based stats.
 Identities = 137/416 (32%), Positives = 235/416 (56%), Gaps = 8/416 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L+         K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD  ++R  EV
Sbjct: 10  LIDTFSEFKELKNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDFEIWRNREV 69

Query: 69  VEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           V +  VEN   QI L  AR  D S ++G  V+D +   +FGR A+ + +Q +  K+ E E
Sbjct: 70  VADADVENSNLQIPLSEARKIDASYEVGEEVTDEVIFANFGRRAILNLRQTLASKIMELE 129

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           +D  Y ++ DKVG II+  V ++     +++D   ++ ++ + E I  +  R G+  ++ 
Sbjct: 130 KDSIYNKYIDKVGTIINAEVYQIWKKEMLLLDDEGNELLLPKTEQIPSDFYRKGETARAV 189

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  +   P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RAK+AV S D
Sbjct: 190 VARVDNKNNNPKIILSRTSPIFLQRLFEMEVPEINDGLITIKKIARIPGERAKIAVESYD 249

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVGACVG++GSR+  +V ELR+E ID++ ++ +   F+  AL PA ++ + L+E+ 
Sbjct: 250 DRIDPVGACVGVKGSRIHGIVRELRNENIDVINYTSNIQLFIQRALSPAKISSIRLNEEE 309

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            + EV +  E++SLAIG+ G N++LAS LT +TID+  E + ++   +D +     F   
Sbjct: 310 HKAEVFLKPEEVSLAIGKGGLNIKLASMLTEYTIDVFRELDQAV---EDEDIYLDEFRD- 365

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
             +D  +   + A G    + +       +      +EET  E+    ++  E  +
Sbjct: 366 -EIDGWVIDAIKAIGIDTAKAVLNAPREMLIEKTDLEEETVDEVLRILKQEFEEEE 420


>gi|329964512|ref|ZP_08301566.1| transcription termination factor NusA [Bacteroides fluxus YIT
           12057]
 gi|328524912|gb|EGF51964.1| transcription termination factor NusA [Bacteroides fluxus YIT
           12057]
          Length = 423

 Score =  396 bits (1019), Expect = e-108,   Method: Composition-based stats.
 Identities = 140/423 (33%), Positives = 242/423 (57%), Gaps = 11/423 (2%)

Query: 4   ANRLELLQIADAVA--YE-KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           A + E + + D  +   E K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD 
Sbjct: 2   AKKEETISLIDTFSEFKELKNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDF 61

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R  EVVE  E+EN   QI+L  A+  D S ++G  V+D +   +FGR A+ + +Q +
Sbjct: 62  EIWRNREVVEDAELENPNLQIALSEAQKIDASYEVGEEVTDEVIFANFGRRAILNLRQTL 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLR 177
             K+ E E+D  Y ++ DKVG II+  V ++     +++D   ++ ++ + E I  +  R
Sbjct: 122 ASKILELEKDSIYNKYIDKVGTIINAEVYQIWKKEMLLLDDEGNELLLPKTEQIPSDFYR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+  ++ +  V  +   P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RA
Sbjct: 182 KGETARAVVARVDNKNNNPKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVG++GSR+  +V ELR+E ID++ ++ +   F+  AL PA ++
Sbjct: 242 KIAVESYDDRIDPVGACVGVKGSRIHGIVRELRNENIDVINYTSNIQLFIQRALSPAKIS 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            + L+E+  + EV +  E++SLAIG+ G N++LAS LT +TID+  E + ++   +D + 
Sbjct: 302 SIRLNEEEHKAEVFLKPEEVSLAIGKGGLNIKLASMLTEYTIDVFRELDQAV---EDEDI 358

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F     +D  +   + A G    + +       +      +EET  E+    ++  
Sbjct: 359 YLDEFRD--EIDGWVIDAIKAIGIDTAKAVLNAPREMLIEKTDLEEETVDEVLRILKQEF 416

Query: 418 EGI 420
           E  
Sbjct: 417 EEE 419


>gi|322376136|ref|ZP_08050645.1| transcription termination factor NusA [Streptococcus sp. C300]
 gi|321278904|gb|EFX55948.1| transcription termination factor NusA [Streptococcus sp. C300]
          Length = 378

 Score =  396 bits (1019), Expect = e-108,   Method: Composition-based stats.
 Identities = 132/389 (33%), Positives = 220/389 (56%), Gaps = 27/389 (6%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ +
Sbjct: 2   SKEMLETFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 62  REVVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y
Sbjct: 122 TRAITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S +
Sbjct: 182 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGANIKKITSKFHPARYDAKSDRMIPVEENIDVIEWVADPAEFIYNAI 301

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ DE+   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEFEAM 361

Query: 351 RQKDFNERTQFFMQAINVDEIIAHLLVAE 379
                        +A  VD  +A  L+ E
Sbjct: 362 E------------EAGQVDYAVADELIEE 378


>gi|260172453|ref|ZP_05758865.1| transcription elongation factor NusA [Bacteroides sp. D2]
 gi|315920747|ref|ZP_07916987.1| transcription elongation factor NusA [Bacteroides sp. D2]
 gi|313694622|gb|EFS31457.1| transcription elongation factor NusA [Bacteroides sp. D2]
          Length = 427

 Score =  396 bits (1019), Expect = e-108,   Method: Composition-based stats.
 Identities = 141/430 (32%), Positives = 244/430 (56%), Gaps = 11/430 (2%)

Query: 4   ANRLELLQIADAVA--YE-KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           A + E + + D  +   E K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD 
Sbjct: 2   AKKEETISLIDTFSEFKELKNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDF 61

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R  EVV  E++ N   QISL  A+  D S + G  V+D +    FGR A+ + +Q +
Sbjct: 62  EIWRNREVVADEDLTNPNMQISLSEAQKIDASYEEGEEVTDEVIFAKFGRRAILNLRQTL 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLR 177
             K+ E E+D  Y ++ DKVG II+  V ++     +++D   ++ ++ + E I  +  R
Sbjct: 122 ASKILELEKDSIYNKYIDKVGTIINAEVYQIWKKEMLLLDDEGNELLLPKTEQIPSDFYR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+  ++ +  V  +   P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RA
Sbjct: 182 KGETARAVVARVDNKNNNPKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVG++GSR+  +V ELR+E ID++ ++ + + F+  AL PA ++
Sbjct: 242 KIAVESYDDRIDPVGACVGVKGSRIHGIVRELRNENIDVINYTSNISLFIQRALSPAKIS 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            + L+E+  + EV +  E++SLAIG+ G N++LAS LT +TID+  E ++++    D + 
Sbjct: 302 SIRLNEEEKKAEVFLKPEEVSLAIGKGGLNIKLASMLTEYTIDVFRELDENV---ADEDI 358

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F     +D  +   + A G    + +       +      +EET  E+    +   
Sbjct: 359 YLDEFRD--EIDGWVIDAIKAIGIDTAKAVLNAPREMLIEKTDLEEETVDEVIRILKSEF 416

Query: 418 EGIDITLQKK 427
           E  D +++ K
Sbjct: 417 EEEDPSIENK 426


>gi|306830580|ref|ZP_07463747.1| transcription termination factor NusA [Streptococcus gallolyticus
           subsp. gallolyticus TX20005]
 gi|325977559|ref|YP_004287275.1| transcription elongation protein nusA [Streptococcus gallolyticus
           subsp. gallolyticus ATCC BAA-2069]
 gi|304427298|gb|EFM30403.1| transcription termination factor NusA [Streptococcus gallolyticus
           subsp. gallolyticus TX20005]
 gi|325177487|emb|CBZ47531.1| Transcription elongation protein nusA [Streptococcus gallolyticus
           subsp. gallolyticus ATCC BAA-2069]
          Length = 399

 Score =  396 bits (1018), Expect = e-108,   Method: Composition-based stats.
 Identities = 129/380 (33%), Positives = 213/380 (56%), Gaps = 15/380 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  EK I+++ ++  + +S++ A +  YG      +E + + GD  ++ +
Sbjct: 5   SKEMLEAFRILEEEKHINKEDIIDAVKESLKSAYKRRYGQSESCVIEFDDKKGDFKVYTV 64

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEV +   +ISL  A     + ++G  +       +FGRVA QSAKQ I++K+R  
Sbjct: 65  REVVEEVFDSRLEISLSDALKISSAYELGDKIRFEESVAEFGRVAAQSAKQTIMEKMRRQ 124

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R+  Y E+K   GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR++ Y
Sbjct: 125 IREVTYNEYKQHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIEVY 184

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    +G  V +SR+HPQF+ ++   E+PE+++G V++ +VSR+ G R K+AV S +
Sbjct: 185 VYKVENNPKGVNVFVSRSHPQFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHN 244

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+
Sbjct: 245 PNVDAIGTIVGRGGSNIKKVISKFHPKRYDAKAGVEVPIEENIDVIQWVEDPAEFIYNAI 304

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V  V+ DE+   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 305 APAEVDMVLFDEEDSKRATVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEYEAL 364

Query: 351 RQKDFNERTQFFMQAINVDE 370
             +          +   V+E
Sbjct: 365 EAEREANAAVAQEEVAPVEE 384


>gi|302522224|ref|ZP_07274566.1| transcription termination factor NusA [Streptomyces sp. SPB78]
 gi|302431119|gb|EFL02935.1| transcription termination factor NusA [Streptomyces sp. SPB78]
          Length = 371

 Score =  396 bits (1018), Expect = e-108,   Method: Composition-based stats.
 Identities = 128/339 (37%), Positives = 194/339 (57%), Gaps = 18/339 (5%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  EK I  D ++  +  ++  A      +    RV ++ E+G ++++     V
Sbjct: 5   MSALRGLVREKEISFDRLVEAIESALLIAYHRTEHSHRRARVHLDRESGHVTVW-----V 59

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
           +E E     +  + AR R               P DFGR+A  +AKQVI+Q++R+A+ D 
Sbjct: 60  KEEEADLADLG-EDARPR----------EFDDTPSDFGRIAATTAKQVILQRLRDAQDDA 108

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              E+  + G+I++G V++  +  NV+VD+G  + ++   E +  E    G R++SY+  
Sbjct: 109 TLGEYAGREGDIVTGVVQQGRDPKNVLVDIGKLEAILPVQEQVPGEEYTHGLRLRSYVVR 168

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  RGP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S +
Sbjct: 169 VAKGMRGPSVTLSRTHPNLVKKLFSLEVPEIADGSVEIAAIAREAGHRTKIAVRSNRSGL 228

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  G RV+ V+ EL  EKIDIV WS + A  V +AL PA V+ V V+D     
Sbjct: 229 NAKGACIGPMGGRVRNVMAELNGEKIDIVDWSDNPADLVAHALSPARVSHVEVVDLATRS 288

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             V VP  QLSLAIG+ GQN RLA++LTGW IDI  + E
Sbjct: 289 ARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTE 327


>gi|302344943|ref|YP_003813296.1| transcription termination factor NusA [Prevotella melaninogenica
           ATCC 25845]
 gi|302149887|gb|ADK96149.1| transcription termination factor NusA [Prevotella melaninogenica
           ATCC 25845]
          Length = 409

 Score =  396 bits (1018), Expect = e-108,   Method: Composition-based stats.
 Identities = 140/414 (33%), Positives = 233/414 (56%), Gaps = 8/414 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +++        KSIDR  ++SV+ +S +     ++G+  +  V +NP+ GD  + R   V
Sbjct: 1   MIETFKEFKDTKSIDRTTLVSVLEESFRNVLAKIFGSDENFDVIVNPDKGDFEIHRNRVV 60

Query: 69  VE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           V   EVE+   +ISL  AR  +   ++G  VS+ +    FGR A+ + +Q +  K+ E E
Sbjct: 61  VADGEVEDENKEISLTDARKIEADYEVGEDVSEEVDFNKFGRRAILNLRQTLASKILELE 120

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            D  Y ++KD+VG+IISG V +     V+ VD  N++ ++ + E I R+  R G+ V++ 
Sbjct: 121 HDSLYNKYKDRVGQIISGEVYQTWKREVLLVDEENNELILPKGEQIPRDQYRKGETVRAV 180

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I+ V  E   P+++LSRT P+F+ +L   EVPEI +G++ ++ ++R PG RAK+AV S D
Sbjct: 181 IHRVDNENNNPKIILSRTAPEFLERLLEAEVPEINDGLIAIRKIARMPGERAKIAVESFD 240

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVGACVG+RGSRV  +V EL +E +D++ W+ ++  F+  AL PA V+ + +DE+ 
Sbjct: 241 ERIDPVGACVGVRGSRVHGIVRELCNENLDVINWTANTKLFIQRALAPAKVSSLTIDEEN 300

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            + EV +  E++SLAIGR G N++LAS LTG+TID+  E ++   +  + +     F   
Sbjct: 301 KKAEVYLQPEEVSLAIGRGGMNIKLASMLTGYTIDVFRELDE---QNAEEDIYLDEFSD- 356

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             +D+ +   +   G     ++       +      + ET   +    R   E 
Sbjct: 357 -EIDQWVIDAIKGIGLDTARQVLNAPREMLIEKADLEVETVDSVLNVLRSEFEQ 409


>gi|94544550|gb|ABF34598.1| N utilization substance protein A [Streptococcus pyogenes
           MGAS10270]
          Length = 396

 Score =  396 bits (1018), Expect = e-108,   Method: Composition-based stats.
 Identities = 130/363 (35%), Positives = 210/363 (57%), Gaps = 15/363 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  EK ID+  ++  + +S++ A +  YG      +E N +T D  +F +
Sbjct: 13  SKEMLEAFRILEEEKHIDKADIIDAVTESLKSAYKRRYGQSESCVIEFNEKTADFQVFTV 72

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R  
Sbjct: 73  REVVEEVFDSRLEISLKDALAISSAYELGDKIRFEESVNEFGRVAAQSAKQTIMEKMRRQ 132

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R+  + E+K+  GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR+  Y
Sbjct: 133 MREVMFNEYKEHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIDVY 192

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S +
Sbjct: 193 VYKVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHN 252

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+
Sbjct: 253 PNVDAIGTIVGRGGSNIKKVISKFHPKRVDAKTGLEIPVEENIDVIQWVDDPAEFIYNAI 312

Query: 292 RPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V  V+  DED+ R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 313 APAEVDMVLFDDEDLKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEYDRL 372

Query: 351 RQK 353
             +
Sbjct: 373 EAE 375


>gi|281424957|ref|ZP_06255870.1| transcription termination factor NusA [Prevotella oris F0302]
 gi|281400801|gb|EFB31632.1| transcription termination factor NusA [Prevotella oris F0302]
          Length = 421

 Score =  396 bits (1018), Expect = e-108,   Method: Composition-based stats.
 Identities = 137/414 (33%), Positives = 229/414 (55%), Gaps = 8/414 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           ++         K+IDR  ++SV+ +S +     ++G+  +  V +NP+ GD  ++R   V
Sbjct: 13  MIDTFREFKDTKNIDRTTLVSVLEESFRNVLAKIFGSDENFDVIVNPDKGDFEIYRNRVV 72

Query: 69  VE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           V   EVE+   QI+L  A   +P  +IG  VS+ +    FGR A+ + +Q +  K+ E E
Sbjct: 73  VADGEVEDENKQIALGEALKIEPDYEIGEEVSEQVNFAKFGRRAILNLRQTLASKILELE 132

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNV-IVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            D  Y ++KD+VG+I+SG V ++    V +VD  N++ ++ + E I  +  R G+ +++ 
Sbjct: 133 HDTLYNKYKDRVGQIVSGEVYQIWKREVLVVDDENNELILPKSEQIPADVYRKGETIRAV 192

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V  E   P+++LSRT P F+ +L   EVPEI +G++ ++ ++R PG RAK+AV S D
Sbjct: 193 ILRVDNENNNPKIILSRTSPMFLERLLEAEVPEINDGLIAIRKIARMPGERAKIAVESFD 252

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVGACVG++GSRV  +V EL +E +D+V ++ +   F+  AL PA V+ + +DE+ 
Sbjct: 253 DRIDPVGACVGVKGSRVHGIVRELCNENLDVVNYTTNINLFIQRALSPARVSSINIDEEN 312

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            + EV +  E++SLAIGR G N++LAS LT +TID+  E  +      D +     F   
Sbjct: 313 HKAEVYLQPEEVSLAIGRGGLNIKLASMLTEYTIDVFREVPEGE---ADEDIYLDEFSD- 368

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             +D+ +   + + G    + +       +      +EET   +    R   E 
Sbjct: 369 -EIDQWVIDAIKSIGLDTAKAVLNAPREMLIEKADLEEETVDHVINVLRAEFEQ 421


>gi|325686965|gb|EGD28989.1| N utilization substance protein A [Streptococcus sanguinis SK72]
          Length = 420

 Score =  396 bits (1018), Expect = e-108,   Method: Composition-based stats.
 Identities = 142/428 (33%), Positives = 231/428 (53%), Gaps = 28/428 (6%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ +
Sbjct: 4   SKEMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTV 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 64  REVVDEVFDSRLEISLKDALTISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ +
Sbjct: 124 TRAITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVF 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S +
Sbjct: 184 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHN 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 244 PNVDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAI 303

Query: 292 RPAIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 304 APAEVDQVIFNQEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDIKSATEFEEM 363

Query: 351 RQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
              +       F Q    +EI+A   V E          V  +E    +   EET +E  
Sbjct: 364 ---EAANELGGFAQ--EAEEILADAAVLE--------TEVSGAEATDFDAVAEETVLETV 410

Query: 411 GRAREYLE 418
           G  RE  E
Sbjct: 411 GLEREAEE 418


>gi|322391412|ref|ZP_08064882.1| transcription elongation factor NusA [Streptococcus peroris ATCC
           700780]
 gi|321145838|gb|EFX41229.1| transcription elongation factor NusA [Streptococcus peroris ATCC
           700780]
          Length = 378

 Score =  396 bits (1018), Expect = e-108,   Method: Composition-based stats.
 Identities = 128/381 (33%), Positives = 216/381 (56%), Gaps = 19/381 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ +
Sbjct: 2   SKEMLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 62  REVVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPGEFGRVAAQSAKQTIMEKMRKQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y
Sbjct: 122 TRAITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S +
Sbjct: 182 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGANIKKITSKFHPARYDAKSDRMVPVEENIDVIEWVADPAEFIYNAI 301

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ DE+   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEFEAM 361

Query: 351 RQKDFNERTQFFMQAINVDEI 371
            +    +    F     + E 
Sbjct: 362 EEAGQVD----FADTDELTEE 378


>gi|309811468|ref|ZP_07705250.1| transcription termination factor NusA [Dermacoccus sp. Ellin185]
 gi|308434519|gb|EFP58369.1| transcription termination factor NusA [Dermacoccus sp. Ellin185]
          Length = 339

 Score =  396 bits (1018), Expect = e-108,   Method: Composition-based stats.
 Identities = 128/351 (36%), Positives = 200/351 (56%), Gaps = 18/351 (5%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  E+ I  DV++  +  ++  A +   G+    RVE++  TG + ++      
Sbjct: 5   MAALRALEREREIPMDVIVPAIEQALLLAYQKEEGSYRRARVELDRRTGHVVVWAR---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
              E+   Q   +     +P  +          P +FGRVA  +A+QVI+Q++R+ E + 
Sbjct: 61  ---EDGEKQ---EDGTWSEPGPEFDD------TPKNFGRVAAGTARQVIMQRMRDVEDEA 108

Query: 130 QYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              +F  K G+I+SGT+++  +   V VD G  +G++   E +  E  R G+R++ Y+  
Sbjct: 109 ILGDFIGKEGDIVSGTIQQSLDSRFVKVDFGTVEGILPTAEQVPGETYRHGERLRCYVVS 168

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           VRR  +GPQ+ LSRTHP  + KLF MEVPEI +G V++ A++R+ G R K+AV ++   I
Sbjct: 169 VRRGPKGPQISLSRTHPNLVRKLFAMEVPEIADGSVEIAALAREAGHRTKIAVHATKPGI 228

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  G RV+AV++EL+ EKIDIV +S     F+  AL P+ V  V V+D     
Sbjct: 229 NAKGACIGPMGQRVRAVMSELQGEKIDIVDYSRQPDEFIAAALSPSRVESVEVVDPKARA 288

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
             V+VP  QLSLAIG+ GQN RLA++LTGW IDI  +   +   + D + R
Sbjct: 289 ARVVVPDFQLSLAIGKEGQNARLAAKLTGWRIDIRPDTALADGGRDDESAR 339


>gi|289167249|ref|YP_003445516.1| transcription termination-antitermination factor [Streptococcus
           mitis B6]
 gi|288906814|emb|CBJ21648.1| transcription termination-antitermination factor [Streptococcus
           mitis B6]
          Length = 378

 Score =  396 bits (1018), Expect = e-108,   Method: Composition-based stats.
 Identities = 126/362 (34%), Positives = 212/362 (58%), Gaps = 15/362 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ +
Sbjct: 2   SKEMLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 62  REVVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y
Sbjct: 122 TRAITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S +
Sbjct: 182 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGANIKKITSKFHPARYDAKSDRMVPIEENIDVIEWVADPAEFIYNAI 301

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ DE+   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEFEAM 361

Query: 351 RQ 352
            +
Sbjct: 362 EE 363


>gi|300871262|ref|YP_003786135.1| putative transcription elongation factor NusA [Brachyspira
           pilosicoli 95/1000]
 gi|300688963|gb|ADK31634.1| putative transcription elongation factor, NusA [Brachyspira
           pilosicoli 95/1000]
          Length = 495

 Score =  396 bits (1018), Expect = e-108,   Method: Composition-based stats.
 Identities = 143/446 (32%), Positives = 244/446 (54%), Gaps = 34/446 (7%)

Query: 13  ADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEV 72
              ++ EK I  D++  V+   +  A +  YG   +  +  +    + +++R + VVEEV
Sbjct: 9   LQMLSEEKDISIDLLKEVVESVMILALKKKYGDNVNFHINFD-NNNNPTVYRGVNVVEEV 67

Query: 73  ENYTCQISLKVARDRDPSIDIGGVVSDPLPPM-DFGRVAVQSAKQVIIQKVREAERDRQY 131
           ++   +ISL+ A+  D  I++G  V   +  + DFGR+   +AK    QK+ E E++  Y
Sbjct: 68  KDDRKEISLEEAKKLDSDINLGDEVLILVDHVGDFGRIESTAAKTTFFQKISELEKNIIY 127

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRR 191
            EFK +  ++++G  +R   GN+ V+LG ++GV+ + +   RE+   GDR+++YIY V  
Sbjct: 128 NEFKRRENQLVNGYFQRENRGNIYVNLGKTEGVLLKKDLSPREHYAAGDRIRAYIYKVEN 187

Query: 192 EQRG-PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDP 250
           ++ G P + L+RT   F+ KLF +E+PEI +G +++K V R PG + K+AV S+   +DP
Sbjct: 188 DRSGHPTIYLTRTKADFIKKLFELEIPEIADGTIEIKNVVRQPGLKIKIAVVSNKPEVDP 247

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGRIE 309
           +GAC+G +G R+QA++ E+  EKID+V WS D   ++  A+ PA  T++++ D +     
Sbjct: 248 IGACIGQKGIRIQAIIKEIEGEKIDVVKWSKDIREYIAEAIAPAKPTRIIITDPEKKEAM 307

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ--KDFNERTQFFMQAI- 366
           +I+P +QLSLA+GR G NV+LASQLTG+T D+ TE +   N +  KD     Q F + + 
Sbjct: 308 IIIPDDQLSLALGRSGYNVKLASQLTGYTFDLKTETDIKENPELLKDIVPLNQIFAENVE 367

Query: 367 ---------------------------NVDEIIAHLLVAEGFADVEELACVKISEIASIE 399
                                      ++D+ +   L+  G   +EEL  +  + I    
Sbjct: 368 ENVENEEAIADTEDTQEAAVSNLYSLTDIDKDVIKTLIDGGINSIEELYGMDANTIIEKT 427

Query: 400 GFDEETAVEIQGRAREYLEGIDITLQ 425
             DEET   I    +E +  ++ T +
Sbjct: 428 NLDEETVNNIINILKEVVSVVEETDE 453


>gi|150003921|ref|YP_001298665.1| transcription elongation factor NusA [Bacteroides vulgatus ATCC
           8482]
 gi|212692747|ref|ZP_03300875.1| hypothetical protein BACDOR_02245 [Bacteroides dorei DSM 17855]
 gi|237709443|ref|ZP_04539924.1| transcription elongation factor NusA [Bacteroides sp. 9_1_42FAA]
 gi|237724957|ref|ZP_04555438.1| transcription elongation factor NusA [Bacteroides sp. D4]
 gi|254880838|ref|ZP_05253548.1| transcription elongation factor NusA [Bacteroides sp. 4_3_47FAA]
 gi|265754642|ref|ZP_06089694.1| transcription termination factor NusA [Bacteroides sp. 3_1_33FAA]
 gi|294775077|ref|ZP_06740606.1| transcription termination factor NusA [Bacteroides vulgatus PC510]
 gi|319639848|ref|ZP_07994577.1| hypothetical protein HMPREF9011_00174 [Bacteroides sp. 3_1_40A]
 gi|149932345|gb|ABR39043.1| putative nitrogen utilization substance protein [Bacteroides
           vulgatus ATCC 8482]
 gi|212664683|gb|EEB25255.1| hypothetical protein BACDOR_02245 [Bacteroides dorei DSM 17855]
 gi|229436695|gb|EEO46772.1| transcription elongation factor NusA [Bacteroides dorei 5_1_36/D4]
 gi|229456499|gb|EEO62220.1| transcription elongation factor NusA [Bacteroides sp. 9_1_42FAA]
 gi|254833631|gb|EET13940.1| transcription elongation factor NusA [Bacteroides sp. 4_3_47FAA]
 gi|263234756|gb|EEZ20324.1| transcription termination factor NusA [Bacteroides sp. 3_1_33FAA]
 gi|294451121|gb|EFG19592.1| transcription termination factor NusA [Bacteroides vulgatus PC510]
 gi|317388512|gb|EFV69362.1| hypothetical protein HMPREF9011_00174 [Bacteroides sp. 3_1_40A]
          Length = 418

 Score =  396 bits (1018), Expect = e-108,   Method: Composition-based stats.
 Identities = 139/422 (32%), Positives = 237/422 (56%), Gaps = 11/422 (2%)

Query: 4   ANRLELLQIADAVA--YE-KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           A + E + + D  +   E K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD 
Sbjct: 2   AKKEETISLIDTFSEFKELKNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDF 61

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R  EVV  E++ N   QISL  A+  D S ++G  V+D +    FGR A+ + +Q +
Sbjct: 62  EIWRNREVVADEDLTNPNMQISLTEAQKIDASYEVGEEVTDEVIFAKFGRRAILNLRQTL 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLR 177
             K+ E E+D  Y ++ D+VG +IS  V ++     +++D   ++ ++ + E I  +  R
Sbjct: 122 ASKILELEKDSLYNKYIDRVGTVISAEVYQIWKKEMLLLDDEGNELLLPKTEQIPSDFYR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+  ++ +  V  +   P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RA
Sbjct: 182 KGETARAVVARVDNKNNNPKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVG++GSR+  +V ELR+E ID++ ++ +   F+  AL PA ++
Sbjct: 242 KIAVESYDDRIDPVGACVGVKGSRIHGIVRELRNENIDVINYTSNIQLFIQRALSPAKIS 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            +VL E+  + EV +  E++SLAIG+ G N++LAS LT +TID+  E ++S     D + 
Sbjct: 302 SIVLHEEEKKAEVYLKPEEVSLAIGKGGMNIKLASMLTEYTIDVYRELDESAM---DEDI 358

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F     +DE +   +   G    + +       +      +E T  ++    R   
Sbjct: 359 YLDEFKD--EIDEWVITAIKNIGLDTAKAVLNAPREMLIEKADLEENTVDDVLRVLRAEF 416

Query: 418 EG 419
           E 
Sbjct: 417 EE 418


>gi|332883100|gb|EGK03384.1| transcription termination factor NusA [Dysgonomonas mossii DSM
           22836]
          Length = 418

 Score =  395 bits (1017), Expect = e-108,   Method: Composition-based stats.
 Identities = 137/424 (32%), Positives = 235/424 (55%), Gaps = 9/424 (2%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M     + L+         KSIDR  ++SV+ DS +     L+G+  +  V INP+ GD+
Sbjct: 1   MAKKETINLIDTFSEFKELKSIDRMTMISVLEDSFRNVIAKLFGSNDNYDVIINPDKGDL 60

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R   +VE+  +E+   +I+L  A+  D   ++G  V+D +   DFGR A+ + +Q +
Sbjct: 61  EIWRNRVIVEDDQLEDDNTEIALSEAKKIDEDFEVGEEVTDEVFFEDFGRRAILNLRQTL 120

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNV-IVDLGNSDGVIRRDETISRENLR 177
             K+ E +++  Y  +K+K+GEI+SG V ++    + ++D    + ++ + E I  +  R
Sbjct: 121 TSKILELQKESLYNRYKEKIGEIVSGEVYQIWKKEILLLDDEKEELLLPKTEQIPSDFFR 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+ V++ +  V  +   P+++LSRT P F+ +L  +EVPEI +G++ +K ++R PG RA
Sbjct: 181 KGEHVRAVVERVDNKNNNPKIILSRTSPTFLERLLELEVPEINDGLITIKNIARIPGERA 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVGM+GSR+  +V ELR+E IDI+ ++ +   ++  AL PA +T
Sbjct: 241 KVAVESYDERIDPVGACVGMKGSRIHGIVRELRNENIDIINYTSNMNLYIQRALSPAKIT 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            V ++E+  R EV++  E++SLAIG+ G N++LAS LTG+TID+  + +D        +E
Sbjct: 301 SVKINEEEKRAEVLLRPEEVSLAIGKGGFNIKLASMLTGYTIDVYRDIDDFDEEDIYLDE 360

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
                     +D  +   L   G    + +      ++      +E T  EI    R   
Sbjct: 361 FRD------EIDGWVIDQLKKIGCVTAKNVLATDRDKLIQEADLEENTVDEILNILRAEF 414

Query: 418 EGID 421
           +   
Sbjct: 415 DDEA 418


>gi|260591778|ref|ZP_05857236.1| transcription termination factor NusA [Prevotella veroralis F0319]
 gi|260536062|gb|EEX18679.1| transcription termination factor NusA [Prevotella veroralis F0319]
          Length = 421

 Score =  395 bits (1017), Expect = e-108,   Method: Composition-based stats.
 Identities = 139/417 (33%), Positives = 233/417 (55%), Gaps = 8/417 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
           R  +++        KSIDR  ++SV+ +S +     ++G+  +  V +NP+ GD  + R 
Sbjct: 10  RPNMIETFKEFKDTKSIDRTTLVSVLEESFRNVLAKIFGSDENFDVIVNPDKGDFEIHRN 69

Query: 66  LEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV   EV++   +ISL  AR  +   ++G  VS+ +    FGR A+ + +Q +  K+ 
Sbjct: 70  RVVVADGEVKDENKEISLTDARKIEADYEVGEDVSEEVDFNKFGRRAILNLRQTLASKIL 129

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRV 182
           E E D  Y ++KD+VG+IISG V +     V+ VD  N++ ++ + E I R+  R G+ +
Sbjct: 130 ELEHDSLYNKYKDRVGQIISGEVYQTWKREVLLVDDENNELILPKGEQIPRDQYRKGETI 189

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ I  V  E   P+++LSRT P+F+ +L   EVPEI  G++ ++ ++R PG RAK+AV 
Sbjct: 190 RAVILRVDNENNNPKIILSRTAPEFLERLLEAEVPEIAEGLIAIRKIARMPGERAKIAVE 249

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDPVGACVG+RGSRV  +V EL +E +D++ W+ ++  F+  AL PA V+ + +D
Sbjct: 250 SFDDRIDPVGACVGVRGSRVHGIVRELCNENLDVINWTANTKLFIQRALAPAKVSSLTID 309

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+  + EV +  E++SLAIGR G N++LAS LTG+TID+  E ++   +  + +     F
Sbjct: 310 EENKKAEVYLQPEEVSLAIGRGGMNIKLASMLTGYTIDVFRELDE---QNAEEDIYLDEF 366

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
                +D+ +   +   G     ++       +      +EET   +    +   E 
Sbjct: 367 SD--EIDQWVIDAIKGIGLDTARQVLNAPREMLIEKADLEEETVDNVLNILKSEFEQ 421


>gi|226306117|ref|YP_002766077.1| transcription elongation protein NusA [Rhodococcus erythropolis
           PR4]
 gi|229491401|ref|ZP_04385225.1| transcription termination factor NusA [Rhodococcus erythropolis
           SK121]
 gi|226185234|dbj|BAH33338.1| transcription elongation protein NusA [Rhodococcus erythropolis
           PR4]
 gi|229321686|gb|EEN87483.1| transcription termination factor NusA [Rhodococcus erythropolis
           SK121]
          Length = 343

 Score =  395 bits (1017), Expect = e-108,   Method: Composition-based stats.
 Identities = 131/345 (37%), Positives = 197/345 (57%), Gaps = 30/345 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  EK +  + V++ +  ++  A R   G   + R+++N +TG + +       
Sbjct: 5   IAALRAIEAEKGVSIETVIATIQTALLTAYRHTEGHKQNARIDVNIKTGSVRVM------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A D D   ++ G   D   P  FGR+A  +A+QVI+Q++R+AE +R
Sbjct: 59  --------------AHDTDADGNMIGEEWDD-TPEGFGRIAATTARQVILQRLRDAEHER 103

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN----VIVDLG----NSDGVIRRDETISRENLRPGDR 181
            + EF    GEI+ G ++R    N    V+V +G     ++G++   E +  EN   G+R
Sbjct: 104 SFGEFSTHEGEIVGGVIQRDTRANSRGMVVVRIGSESNGAEGLLPPAEQVPGENYEHGER 163

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V R  RGPQ+ LSRTHP  + KLF +EVPEI +G V++  V+R+ G R+K+AV
Sbjct: 164 IKCYVVGVARGARGPQITLSRTHPNLVRKLFALEVPEIADGSVEIINVAREAGHRSKIAV 223

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            S    ++  GAC+G  G RV+ V++EL  EKIDI+ +  D ATFV NAL P+ V  V V
Sbjct: 224 ASRVQGLNAKGACIGPMGQRVRNVMSELAGEKIDIIDFDEDPATFVGNALSPSKVVSVTV 283

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +D +     VIVP  QLSLAIG+ GQN RLA++LTGW IDI ++ 
Sbjct: 284 VDPEARAARVIVPDFQLSLAIGKEGQNARLAARLTGWRIDIRSDA 328


>gi|270294867|ref|ZP_06201068.1| transcription termination factor NusA [Bacteroides sp. D20]
 gi|270274114|gb|EFA19975.1| transcription termination factor NusA [Bacteroides sp. D20]
          Length = 421

 Score =  395 bits (1017), Expect = e-108,   Method: Composition-based stats.
 Identities = 140/425 (32%), Positives = 245/425 (57%), Gaps = 11/425 (2%)

Query: 4   ANRLELLQIADAVA--YE-KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           A ++E + + D  +   E K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD 
Sbjct: 2   AKKVETVSLIDTFSEFKELKNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDF 61

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R  EVV  E++EN   QI+L  A+  D S ++G  V+D +   +FGR A+ + +Q +
Sbjct: 62  EIWRNREVVADEDLENPNLQIALSEAQKIDASYEVGEEVTDEVIFANFGRRAILNLRQTL 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLR 177
             K+ E E+D  Y ++ DKVG II+  V ++     +++D   ++ ++ + E I  +  R
Sbjct: 122 ASKILELEKDSIYNKYIDKVGTIINAEVYQIWKKEMLLLDDEGNELLLPKTEQIPSDFYR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+  ++ +  V  +   P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RA
Sbjct: 182 KGETARAVVARVDNKNNNPKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVG++GSR+  +V ELR+E ID++ ++ +   F+  AL PA ++
Sbjct: 242 KIAVESYDDRIDPVGACVGVKGSRIHGIVRELRNENIDVINYTSNIQLFIQRALSPAKIS 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            + L+E+  + EV +  E++SLAIG+ G N++LAS LT +TID+  E +++I   +D + 
Sbjct: 302 SIRLNEEERKAEVFLKPEEVSLAIGKGGLNIKLASMLTEYTIDVFRELDEAI---EDEDI 358

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F     +D  +   + A G    + +       +      +EET  E+    ++  
Sbjct: 359 YLDEFRD--EIDGWVIDAIKAIGIDTAKAVLNAPREMLIEKTDLEEETVDEVLRILKQEF 416

Query: 418 EGIDI 422
           E  + 
Sbjct: 417 EEENE 421


>gi|326382939|ref|ZP_08204629.1| transcription elongation factor NusA [Gordonia neofelifaecis NRRL
           B-59395]
 gi|326198529|gb|EGD55713.1| transcription elongation factor NusA [Gordonia neofelifaecis NRRL
           B-59395]
          Length = 347

 Score =  395 bits (1017), Expect = e-108,   Method: Composition-based stats.
 Identities = 130/354 (36%), Positives = 202/354 (57%), Gaps = 31/354 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  +K +  + VLS +  ++  A R   G   + R++I+ ++G + +       
Sbjct: 5   ISALRLIEADKGVPAETVLSAIETALLTAYRHTDGFAPNARIDIDRKSGQVRVM------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A++ D   ++     D   P  FGR+A  +A+QVI+Q++R+AE ++
Sbjct: 59  --------------AQELDEDRNVVHEWDD--TPEGFGRIAATTARQVILQRLRDAENEK 102

Query: 130 QYLEFKDKVGEIISGTVKR----VEYGNVIVDLGN----SDGVIRRDETISRENLRPGDR 181
            Y E     GE++ G V+        G VIV +G+    ++GVI   E +  E+ + GDR
Sbjct: 103 NYGELVAHEGEVVGGIVQADAKANARGMVIVQIGSDSNATEGVIPPAEQVPGESYKHGDR 162

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V R  RGPQ+ LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV
Sbjct: 163 IKCYVVGVARGSRGPQITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAV 222

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            +  + ++  GAC+G  G RV+ V++EL  EKIDI+ ++ D A FV +AL PA V  V V
Sbjct: 223 HTGVAGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYATDPAEFVGHALSPAKVVSVTV 282

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
           +D++     VIVP  QLSLAIG+ GQN RLA++LTGW IDI ++  D   R  +
Sbjct: 283 IDQETKAARVIVPDYQLSLAIGKEGQNARLAARLTGWRIDIRSDAGDGGPRDTE 336


>gi|293364176|ref|ZP_06610903.1| transcription elongation factor NusA [Streptococcus oralis ATCC
           35037]
 gi|315611732|ref|ZP_07886654.1| transcription termination factor NusA [Streptococcus sanguinis ATCC
           49296]
 gi|291317354|gb|EFE57780.1| transcription elongation factor NusA [Streptococcus oralis ATCC
           35037]
 gi|315316147|gb|EFU64177.1| transcription termination factor NusA [Streptococcus sanguinis ATCC
           49296]
          Length = 378

 Score =  395 bits (1017), Expect = e-108,   Method: Composition-based stats.
 Identities = 132/389 (33%), Positives = 219/389 (56%), Gaps = 27/389 (6%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ +
Sbjct: 2   SKEMLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 62  REVVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y
Sbjct: 122 TRAITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S +
Sbjct: 182 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGANIKKITSKFHPARYDAKSDRMIPVEENIDVIEWVADPAEFIYNAI 301

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ DE+   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEFEAM 361

Query: 351 RQKDFNERTQFFMQAINVDEIIAHLLVAE 379
                        +A  VD   A  L+ E
Sbjct: 362 E------------EAGQVDYAAADELIEE 378


>gi|313205355|ref|YP_004044012.1| nusa antitermination factor [Paludibacter propionicigenes WB4]
 gi|312444671|gb|ADQ81027.1| NusA antitermination factor [Paludibacter propionicigenes WB4]
          Length = 421

 Score =  395 bits (1017), Expect = e-108,   Method: Composition-based stats.
 Identities = 129/414 (31%), Positives = 230/414 (55%), Gaps = 8/414 (1%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M     + L+         KSIDR  ++SVM +S +     L+GT  +  V INP+ GD 
Sbjct: 1   MSKKETISLIDTFSEFKELKSIDRSTLISVMEESFRNVISKLFGTDENYDVIINPDKGDF 60

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R   VV  E++ +   QISL  A+  D   +I   V+D +  + FGR A+ + +Q +
Sbjct: 61  EIYRNRTVVADEDLTDPNLQISLTEAKKIDEDYEIDEDVTDTVDFLSFGRRAILTLRQTL 120

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLR 177
             K+ E ++D  + ++ +KVG+I+S  + ++     +++D   ++  + + E I  +  R
Sbjct: 121 SSKILELQKDNVFSKYSEKVGQIVSAELYQIWKKEMLLIDDEGNELYLPKTEQIPTDFYR 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            GD V++ +  V  +   P+++LSR  P F+ +LF +EVPEI+ G++ +K ++R PG RA
Sbjct: 181 KGDTVRAVVAMVENKNNNPKIILSRISPVFLERLFELEVPEIHEGLITIKKIARIPGERA 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVG++GSR+  +V ELR+E ID++ ++ +   F+  AL PA ++
Sbjct: 241 KVAVESYDDRIDPVGACVGVKGSRIHGIVRELRNENIDVINYTNNVNLFISRALSPAKIS 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            + L+E   + E+ +  E++S AIG+ G N++LA  L+G+T+D+  E ++     +  + 
Sbjct: 301 SIRLNEAEKKAEIYLKPEEVSQAIGKGGLNIKLAGMLSGYTLDVFREMDED---TESEDI 357

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
               F     +D+ +   L A G    + +  +   ++      +EET  E+  
Sbjct: 358 YLDEFSD--EIDQWVIDALKAIGCDTAKSVLAISRQDLVRRTDLEEETIDEVLA 409


>gi|320008230|gb|ADW03080.1| NusA antitermination factor [Streptomyces flavogriseus ATCC 33331]
          Length = 346

 Score =  395 bits (1017), Expect = e-108,   Method: Composition-based stats.
 Identities = 129/345 (37%), Positives = 200/345 (57%), Gaps = 22/345 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +++   +A +K I  DV++  +  ++  A     G+    RVE++  +G ++++      
Sbjct: 5   VKLLKGLAQDKEIPFDVLVGAIESALLIAYHRTEGSHRRARVELD-ASGHVTVWAK---- 59

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
              ++      L+  ++                P  FGR+A  +AKQVI+Q++R+AE DR
Sbjct: 60  ---DDPA---ELEEGQEPK---------EFDDTPSGFGRIAATTAKQVILQRLRDAEDDR 104

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
            + E+    G++++G V++  +  NV+VD+G  + ++   E +  E    G R+++Y+  
Sbjct: 105 TFGEYAGHEGDVVTGLVQQGKDPKNVLVDIGKLEAILPVQEQVPGEEYTHGLRLRTYVVR 164

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  RGP V LSRTHP  + KLF +EVPEI +G V ++A++R+ G R K+AV S+ + +
Sbjct: 165 VAKGVRGPSVTLSRTHPNLVKKLFALEVPEIADGSVVIEAIAREAGHRTKIAVRSTRAGL 224

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +P GAC+G  GSRV+ V+ EL  EKIDIV WS D A  V NAL PA V+KV V+D     
Sbjct: 225 NPKGACIGPMGSRVRNVMAELHGEKIDIVDWSDDPAEMVANALSPARVSKVEVVDLGTRS 284

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
             V VP  QLSLAIG+ GQN RLA++LTGW IDI  + E    R 
Sbjct: 285 ARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTETEAERD 329


>gi|300812554|ref|ZP_07092971.1| transcription termination factor NusA [Lactobacillus delbrueckii
           subsp. bulgaricus PB2003/044-T3-4]
 gi|300496427|gb|EFK31532.1| transcription termination factor NusA [Lactobacillus delbrueckii
           subsp. bulgaricus PB2003/044-T3-4]
          Length = 403

 Score =  395 bits (1017), Expect = e-108,   Method: Composition-based stats.
 Identities = 142/377 (37%), Positives = 223/377 (59%), Gaps = 8/377 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+  D +   K I +DV++  M  ++  A +  YG   ++ ++ N + GD  +  L
Sbjct: 2   SKEMLEAFDVLEKTKGIKQDVIVEAMKAALAAAYKKNYGLAENVEIDFNEKKGDFKVMAL 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   ++SLK A   + + ++G  +   + P DFGR A  +AKQV++Q++REA
Sbjct: 62  KTVVDEVQDDRVEVSLKDALAINRAYEVGDTIKFEVTPKDFGRTAAATAKQVVMQRLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVI-RRDETISRENLRPGDRVKS 184
           E      E+     E+++GTV+R +   V V++GN + V+  + +TI  E+  P DRV+ 
Sbjct: 122 ENAHIVNEYSQYEDELVTGTVERTDNRFVYVNIGNVEAVMDIKRDTIPGEHYNPQDRVRV 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V  + +G Q+ +SRT P  + +LF  EVPEI++G V++ +++R+ G R K+AV S+
Sbjct: 182 LVTKVGADGKGAQIRVSRTAPDVVKRLFEQEVPEIFDGTVEIISIAREAGERTKIAVKSN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--D 302
           D +IDPVG CVG RGSRVQ VV EL  E IDIV +  D + ++ NAL PA V  V    +
Sbjct: 242 DPNIDPVGTCVGPRGSRVQNVVNELGGENIDIVQYEEDPSDYIANALNPAEVIAVQFEDE 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           +D  +  VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E     + +  + T+  
Sbjct: 302 DDERKAFVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESEVEFVDESEVEDETEVA 361

Query: 363 MQAINVDEIIAHLLVAE 379
                 D+ +      E
Sbjct: 362 E-----DQDLQQTEAEE 373


>gi|262202085|ref|YP_003273293.1| transcription termination factor NusA [Gordonia bronchialis DSM
           43247]
 gi|262085432|gb|ACY21400.1| transcription termination factor NusA [Gordonia bronchialis DSM
           43247]
          Length = 340

 Score =  395 bits (1017), Expect = e-108,   Method: Composition-based stats.
 Identities = 126/348 (36%), Positives = 198/348 (56%), Gaps = 31/348 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  +K I  D V++ +  ++  A R   G     R+++N +TG + +       
Sbjct: 5   INALRMIEADKGISIDTVITAIETALLTAYRHTEGFAPHARIDVNRKTGAVRVM------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A++ D + D+     D   P  FGR+A  +A+QVI+Q++R+AE ++
Sbjct: 59  --------------AQELDDNGDVVHEWDD--TPEGFGRIAATTARQVILQRLRDAENEK 102

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDR 181
            + +     GEI+ G V++    N    ++V +G+    ++G+I   E +  E+   GDR
Sbjct: 103 NFGDLVTHEGEIVGGVVQQDARANARGMIVVQIGSDANSTEGIIPPAEQVPGESYTHGDR 162

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V R  RGPQ+ LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV
Sbjct: 163 IKCYVVGVSRGARGPQITLSRTHPNLVRKLFSLEVPEIEDGSVEIVAVAREAGHRSKIAV 222

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            +  + ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V  V V
Sbjct: 223 HTGVAGLNAKGACIGPMGQRVRNVMSELAGEKIDIIDFDTDPAVFVGNALSPAKVVSVSV 282

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           +D       V+VP  QLSLAIG+ GQN RLA++LTGW IDI ++ + +
Sbjct: 283 VDPTAKAARVVVPDYQLSLAIGKEGQNARLAARLTGWRIDIRSDADPA 330


>gi|251783184|ref|YP_002997489.1| transcription elongation factor NusA [Streptococcus dysgalactiae
           subsp. equisimilis GGS_124]
 gi|242391816|dbj|BAH82275.1| N utilization substance protein A [Streptococcus dysgalactiae
           subsp. equisimilis GGS_124]
          Length = 404

 Score =  395 bits (1017), Expect = e-108,   Method: Composition-based stats.
 Identities = 128/363 (35%), Positives = 210/363 (57%), Gaps = 15/363 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  EK ID+  ++  + +S++ A +  YG      +E N +T D  +F +
Sbjct: 21  SKEMLEAFRILEEEKHIDKADIIDAVTESLKSAYKRRYGQAESCVIEFNEKTADFQVFTV 80

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R  
Sbjct: 81  REVVEEVFDSRLEISLKDALAISSAYELGDKIRFEESVNEFGRVAAQSAKQTIMEKMRRQ 140

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R+  + E+K+  GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR++ Y
Sbjct: 141 MREVTFNEYKEHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIEVY 200

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S +
Sbjct: 201 VYKVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHN 260

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+
Sbjct: 261 PNVDAIGTIVGRGGSNIKKVISKFHPKRLDAKTGLEIPVEENIDVIQWVDDPAEFIYNAI 320

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V  V+ D+D   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  +    
Sbjct: 321 APAEVDMVLFDDDDLKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASDYDRL 380

Query: 351 RQK 353
             +
Sbjct: 381 EAE 383


>gi|29348812|ref|NP_812315.1| transcription elongation factor NusA [Bacteroides thetaiotaomicron
           VPI-5482]
 gi|253568843|ref|ZP_04846253.1| transcription elongation factor NusA [Bacteroides sp. 1_1_6]
 gi|298387892|ref|ZP_06997441.1| transcription termination factor NusA [Bacteroides sp. 1_1_14]
 gi|29340718|gb|AAO78509.1| putative nitrogen utilization substance protein [Bacteroides
           thetaiotaomicron VPI-5482]
 gi|251840862|gb|EES68943.1| transcription elongation factor NusA [Bacteroides sp. 1_1_6]
 gi|298259299|gb|EFI02174.1| transcription termination factor NusA [Bacteroides sp. 1_1_14]
          Length = 439

 Score =  395 bits (1017), Expect = e-108,   Method: Composition-based stats.
 Identities = 138/413 (33%), Positives = 237/413 (57%), Gaps = 11/413 (2%)

Query: 4   ANRLELLQIADAVA--YE-KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           A + E + + D  +   E K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD 
Sbjct: 2   AKKEETISLIDTFSEFKELKNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDF 61

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R  EVV  E++ N   QISL  A+  D S + G  V+D +    FGR A+ + +Q +
Sbjct: 62  EIWRNREVVADEDLTNPNMQISLTEAQKIDASYEEGEEVTDEVIFAKFGRRAILNLRQTL 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLR 177
             K+ E E+D  Y ++ DKVG II+  V ++     +++D   ++ ++ + E I  +  R
Sbjct: 122 ASKILELEKDSIYNKYIDKVGTIINAEVYQIWKKEMLLLDDEGNELLLPKTEQIPSDFYR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+  ++ +  V  +   P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RA
Sbjct: 182 KGETARAVVARVDNKNNNPKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVG++GSR+  +V ELR+E ID++ ++ + + F+  AL PA ++
Sbjct: 242 KIAVESYDDRIDPVGACVGVKGSRIHGIVRELRNENIDVINYTSNISLFIQRALSPAKIS 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            + L+E+  + EV +  E++SLAIG+ G N++LAS LT +TID+  E ++++    D + 
Sbjct: 302 SIRLNEEEKKAEVFLKPEEVSLAIGKGGLNIKLASMLTEYTIDVFRELDENV---ADEDI 358

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
               F     +D  +   + A G    + +       +      +EET  E+ 
Sbjct: 359 YLDEFRD--EIDGWVIDAIKAIGIDTAKAVLNAPREMLIEKTDLEEETVDEVI 409


>gi|270292191|ref|ZP_06198406.1| N utilization substance protein A [Streptococcus sp. M143]
 gi|270279719|gb|EFA25561.1| N utilization substance protein A [Streptococcus sp. M143]
          Length = 378

 Score =  395 bits (1017), Expect = e-108,   Method: Composition-based stats.
 Identities = 126/362 (34%), Positives = 212/362 (58%), Gaps = 15/362 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ +
Sbjct: 2   SKEMLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 62  REVVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y
Sbjct: 122 TRAITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S +
Sbjct: 182 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGANIKKITSKFHPARYDAKSDRMIPVEENIDVIEWVADPAEFIYNAI 301

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ DE+   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEFEAM 361

Query: 351 RQ 352
            +
Sbjct: 362 EE 363


>gi|309799813|ref|ZP_07694020.1| transcription termination factor NusA [Streptococcus infantis
           SK1302]
 gi|308116529|gb|EFO53998.1| transcription termination factor NusA [Streptococcus infantis
           SK1302]
          Length = 378

 Score =  395 bits (1017), Expect = e-108,   Method: Composition-based stats.
 Identities = 126/370 (34%), Positives = 215/370 (58%), Gaps = 15/370 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ +
Sbjct: 2   SKEMLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 62  REVVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPGEFGRVAAQSAKQTIMEKMRKQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y
Sbjct: 122 TRAITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S +
Sbjct: 182 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGANIKKITSKFHPARYDAKSDRMVPIEENIDVIEWVADPAEFIYNAI 301

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ DE+   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEFEAM 361

Query: 351 RQKDFNERTQ 360
              +  ++ +
Sbjct: 362 EAAEQADQVE 371


>gi|288904585|ref|YP_003429806.1| transcription termination factor NusA [Streptococcus gallolyticus
           UCN34]
 gi|288731310|emb|CBI12861.1| Transcription termination factor NusA [Streptococcus gallolyticus
           UCN34]
          Length = 396

 Score =  395 bits (1017), Expect = e-108,   Method: Composition-based stats.
 Identities = 129/380 (33%), Positives = 213/380 (56%), Gaps = 15/380 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  EK I+++ ++  + +S++ A +  YG      +E + + GD  ++ +
Sbjct: 2   SKEMLEAFRILEEEKHINKEDIIDAVKESLKSAYKRRYGQSESCVIEFDDKKGDFKVYTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEV +   +ISL  A     + ++G  +       +FGRVA QSAKQ I++K+R  
Sbjct: 62  REVVEEVFDSRLEISLSDALKISSAYELGDKIRFEESVAEFGRVAAQSAKQTIMEKMRRQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R+  Y E+K   GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR++ Y
Sbjct: 122 IREVTYNEYKQHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIEVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    +G  V +SR+HPQF+ ++   E+PE+++G V++ +VSR+ G R K+AV S +
Sbjct: 182 VYKVENNPKGVNVFVSRSHPQFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGSNIKKVISKFHPKRYDAKAGVEVPIEENIDVIQWVEDPAEFIYNAI 301

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V  V+ DE+   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDMVLFDEEDSKRATVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEYEAL 361

Query: 351 RQKDFNERTQFFMQAINVDE 370
             +          +   V+E
Sbjct: 362 EAEREANAAVAQEEVAPVEE 381


>gi|239944687|ref|ZP_04696624.1| transcription elongation factor NusA [Streptomyces roseosporus NRRL
           15998]
 gi|239991150|ref|ZP_04711814.1| transcription elongation factor NusA [Streptomyces roseosporus NRRL
           11379]
 gi|291448148|ref|ZP_06587538.1| transcription elongation factor NusA [Streptomyces roseosporus NRRL
           15998]
 gi|291351095|gb|EFE77999.1| transcription elongation factor NusA [Streptomyces roseosporus NRRL
           15998]
          Length = 346

 Score =  395 bits (1017), Expect = e-108,   Method: Composition-based stats.
 Identities = 129/346 (37%), Positives = 201/346 (58%), Gaps = 22/346 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +++   +A +K I  DV++  +  ++  A     G+    RV+++ E G ++++      
Sbjct: 5   VKLLKGLAQDKEIPFDVLVGAIESALLIAYHRTDGSYRRARVKLD-ENGHVTVWAK---- 59

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
              E+      L+  ++                P  FGR+A  +AKQVI+Q++R+AE D+
Sbjct: 60  ---EDPA---DLEEGQEPK---------EFDDTPSGFGRIAATTAKQVILQRLRDAEDDK 104

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
            + E+    G++++G V++  +  NV+VD+G  + ++   E +  E    G R+++Y+  
Sbjct: 105 TFGEYAGHEGDVVTGVVQQGKDPKNVLVDIGKLEAILPVQEQVPGEEYTHGLRLRTYVVR 164

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  RGP V LSRTHP  + KLF +EVPEI +G V ++A++R+ G R K+AV S+ + +
Sbjct: 165 VAKGVRGPSVTLSRTHPNLVKKLFALEVPEIADGSVVIEAIAREAGHRTKIAVRSTRAGL 224

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +P GAC+G  GSRV+ V+ EL  EKIDIV WS D A  V NAL PA V+KV V+D     
Sbjct: 225 NPKGACIGPMGSRVRNVMAELHGEKIDIVDWSDDPAEMVANALSPARVSKVEVVDLGARS 284

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
             V VP  QLSLAIG+ GQN RLA++LTGW IDI  + E    R+ 
Sbjct: 285 ARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTETDEEREN 330


>gi|322387178|ref|ZP_08060788.1| transcription elongation factor NusA [Streptococcus infantis ATCC
           700779]
 gi|321141707|gb|EFX37202.1| transcription elongation factor NusA [Streptococcus infantis ATCC
           700779]
          Length = 378

 Score =  395 bits (1016), Expect = e-108,   Method: Composition-based stats.
 Identities = 126/362 (34%), Positives = 212/362 (58%), Gaps = 15/362 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ +
Sbjct: 2   SKEMLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 62  REVVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPGEFGRVAAQSAKQTIMEKMRKQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y
Sbjct: 122 TRAITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S +
Sbjct: 182 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGANIKKITSKFHPARYDAKSDRMVPVEENIDVIEWVADPAEFIYNAI 301

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ DE+   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEFEAM 361

Query: 351 RQ 352
            +
Sbjct: 362 EE 363


>gi|282889767|ref|ZP_06298306.1| hypothetical protein pah_c004o139 [Parachlamydia acanthamoebae str.
           Hall's coccus]
 gi|281500341|gb|EFB42621.1| hypothetical protein pah_c004o139 [Parachlamydia acanthamoebae str.
           Hall's coccus]
          Length = 424

 Score =  395 bits (1016), Expect = e-108,   Method: Composition-based stats.
 Identities = 152/420 (36%), Positives = 245/420 (58%), Gaps = 10/420 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             +L+ I + +  EK I R++V++ + +S++ AA+      S++ V INP++G+I ++  
Sbjct: 2   NKDLIAIFEYLEREKGIKRNIVVAAIEESLRAAAKKSISGASNVTVTINPKSGNIDVYCE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            E+VEEVE    +ISL+ AR+ DP  +IG  +     P DFGR+A Q A+Q+I QK+R A
Sbjct: 62  KEIVEEVEVEAQEISLQDAREIDPDCEIGQFIDVVATPKDFGRIAAQKARQIITQKLRNA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           ERD  Y E++ +  E+ISGT+KR   G NV++DLG  + ++        E    G++V +
Sbjct: 122 ERDVIYEEYRHRTNELISGTIKRFVRGSNVVIDLGKVEAIMPTKHYPKTEKYHVGEKVLA 181

Query: 185 YIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            +Y+V   E  G +V+LSR+HP+F+ +L   EVPE+ +GIV +  + R+ G R K+ V S
Sbjct: 182 LLYEVNETENGGAEVVLSRSHPEFVKQLMMQEVPELNDGIVVIDRIVREAGYRTKMTVRS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +DS IDPVG+CVGMRG RV+ VV EL +EKIDI+ +S D    + NAL P  + KV ++E
Sbjct: 242 TDSKIDPVGSCVGMRGIRVKNVVRELNNEKIDIIPYSQDPVELLQNALDPIEIRKVSVNE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT---- 359
           D   I ++V     +  IG++G N RL SQL G+ +++    E +     + +E      
Sbjct: 302 DDKTISIVVDDADFAAVIGKKGMNARLNSQLIGYELEVQRMAEYNHAMAVERSELATSQE 361

Query: 360 ----QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
               +       V+ +I   L+AEG++    +      ++A++ G   E A +I  + R+
Sbjct: 362 PWLDKPLKNIEGVNTLIFEHLIAEGYSTPRAILTAAPEKLATVPGISIELADKILEQIRK 421


>gi|116511573|ref|YP_808789.1| transcription elongation factor NusA [Lactococcus lactis subsp.
           cremoris SK11]
 gi|116107227|gb|ABJ72367.1| Transcription elongation factor [Lactococcus lactis subsp. cremoris
           SK11]
          Length = 382

 Score =  395 bits (1016), Expect = e-108,   Method: Composition-based stats.
 Identities = 136/367 (37%), Positives = 217/367 (59%), Gaps = 2/367 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L     +  +K I  ++ +  +  +I  A +  YG   +++V  + + G+ +++  
Sbjct: 2   SKEMLNAFAMLEEQKGIKSEIAIEAIEQAITAAYKRQYGQAQNVKVIFDEKKGNFNVYST 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISL+ A + +P  +IG  +     P DF R A  +AKQVI+QK+RE 
Sbjct: 62  REVVDEVFDSRLEISLEDAHELNPHYEIGDKIMFEEKPKDFARTAAGAAKQVIMQKMREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y E+     EII GTV++V+   V V+LG  D ++ + + I +EN    DRVK Y
Sbjct: 122 ERTIIYNEYSRYKDEIIQGTVEKVDARAVYVNLGRVDALLTKKDQIPQENFHVDDRVKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + DV    +G +V +SRT P  + ++F  E+PE+++G V++K+++RD G RAK+ V S D
Sbjct: 182 VTDVVLTPKGTRVFISRTVPDMLKRMFEKEIPEVFDGTVEIKSIARDAGDRAKVIVQSHD 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
            ++D +G  VG +GSR+Q ++ EL  EK+DI+ WS D AT V NAL+PA + +V++    
Sbjct: 242 ENVDAIGTMVGAKGSRIQGIIRELAGEKMDIIEWSEDKATLVANALKPARIEQVLIT-AD 300

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
           G    +V ++QLSLAIG+RGQNVRLA+ +T   IDI   +E +     +F          
Sbjct: 301 GSSLAVVARDQLSLAIGKRGQNVRLAAHVTNSKIDIKAADEFN-MDDYEFVGEADEETPT 359

Query: 366 INVDEII 372
           + V+E I
Sbjct: 360 LEVEETI 366


>gi|149178853|ref|ZP_01857433.1| transcription elongation factor NusA [Planctomyces maris DSM 8797]
 gi|148842328|gb|EDL56711.1| transcription elongation factor NusA [Planctomyces maris DSM 8797]
          Length = 494

 Score =  395 bits (1016), Expect = e-108,   Method: Composition-based stats.
 Identities = 154/409 (37%), Positives = 243/409 (59%), Gaps = 32/409 (7%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           +  E+L+I DA+  +KSID+++V   +  +I  AAR  +G   ++ V+I+ +TG+ ++  
Sbjct: 2   DGKEVLRIVDAIQRDKSIDKEIVFGGIEQAILSAARRHFGDDHELSVDIDRDTGEPTVLC 61

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
                                        G  +   +     GRVA Q+AKQV+IQK+RE
Sbjct: 62  ----------------------------DGDKLGKDILGEILGRVAAQTAKQVMIQKIRE 93

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AERD  + E+ +   + +SGTV RVE G V+V+LG  +G++ R E I  E+ R  DRV++
Sbjct: 94  AERDTVFDEYMEMQYQSVSGTVSRVEGGAVLVNLGKIEGILPRGEQIPGESFRVNDRVRA 153

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + DVR+     +V+LSRTHP  + +LF +E+PE+ + I+ V++++R+ G R+K+AV   
Sbjct: 154 VVLDVRKAGSRVKVILSRTHPDMVRRLFELEIPEVADRIIDVRSLAREAGYRSKVAVSCI 213

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           DSSID VGACVGMRG+R++ +V EL  E+IDIV W+      V N+L+PA V  V+L   
Sbjct: 214 DSSIDCVGACVGMRGARIKNIVDELAGERIDIVRWNDSLQVLVPNSLQPAEVEDVILCPM 273

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
           +GR+ V+V  +QL LAIGR+GQNVRLAS+L GW I+++T+ E      +  ++  + F  
Sbjct: 274 LGRVIVLVRDDQLPLAIGRKGQNVRLASKLVGWDIEVMTQTE----LDEQLDKTVEAFSS 329

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
              V E +A  LV++GF    +L+ ++  ++A + G   E   +I   A
Sbjct: 330 IPGVSEELAESLVSQGFFSYYDLSVIEPDQLAELGGLTAEQCEQIVEVA 378


>gi|146319503|ref|YP_001199215.1| transcription elongation factor NusA [Streptococcus suis 05ZYH33]
 gi|146321698|ref|YP_001201409.1| transcription elongation factor NusA [Streptococcus suis 98HAH33]
 gi|223934079|ref|ZP_03626028.1| NusA antitermination factor [Streptococcus suis 89/1591]
 gi|253752514|ref|YP_003025655.1| N utilization substance protein A [Streptococcus suis SC84]
 gi|253754340|ref|YP_003027481.1| N utilization substance protein A [Streptococcus suis P1/7]
 gi|253756274|ref|YP_003029414.1| N utilization substance protein A [Streptococcus suis BM407]
 gi|302024448|ref|ZP_07249659.1| transcription elongation factor NusA [Streptococcus suis 05HAS68]
 gi|145690309|gb|ABP90815.1| Transcription elongation factor [Streptococcus suis 05ZYH33]
 gi|145692504|gb|ABP93009.1| Transcription elongation factor [Streptococcus suis 98HAH33]
 gi|223897249|gb|EEF63661.1| NusA antitermination factor [Streptococcus suis 89/1591]
 gi|251816803|emb|CAZ52446.1| putative N utilization substance protein A [Streptococcus suis
           SC84]
 gi|251818738|emb|CAZ56574.1| putative N utilization substance protein A [Streptococcus suis
           BM407]
 gi|251820586|emb|CAR47342.1| putative N utilization substance protein A [Streptococcus suis
           P1/7]
 gi|292559121|gb|ADE32122.1| transcription termination factor NusA [Streptococcus suis GZ1]
 gi|319758923|gb|ADV70865.1| transcription elongation factor NusA [Streptococcus suis JS14]
          Length = 380

 Score =  395 bits (1016), Expect = e-108,   Method: Composition-based stats.
 Identities = 125/367 (34%), Positives = 207/367 (56%), Gaps = 15/367 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +  I++  ++  + +S++ A +  YG      +E + + GD  +F +
Sbjct: 2   SKEMLEAFRILEEDMGINKADIIDAVTESLRSAYKRRYGQSESAVIEFDEKKGDFHVFTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 62  REVVDEVFDSRLEISLKDALAISSAYEMGDKIKFQEDPAEFGRVAAQSAKQTIMEKMRKQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           +R   +  +K    EI+SGTV+R +   + V+LG  +  + + + I  E  +  DR++ Y
Sbjct: 122 KRAITFNTYKQHENEIMSGTVERFDNRFIYVNLGTIEAQLSKQDQIPGEVFQSHDRIEVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S +
Sbjct: 182 VYKVEDNGRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  GS ++ + ++                +E ID++ W  D A F+ NAL
Sbjct: 242 PNVDAIGTIVGRGGSNIKKITSKFHPARYDAKNDRMIPTEENIDVIEWVADEAEFIYNAL 301

Query: 292 RPAIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ D ED     V+VP ++LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDQVLFDTEDGKHATVVVPDDKLSLAIGRRGQNVRLAAHLTGFRIDIKSASEYEAF 361

Query: 351 RQKDFNE 357
               +  
Sbjct: 362 EATQYAT 368


>gi|284044673|ref|YP_003395013.1| NusA antitermination factor [Conexibacter woesei DSM 14684]
 gi|283948894|gb|ADB51638.1| NusA antitermination factor [Conexibacter woesei DSM 14684]
          Length = 503

 Score =  395 bits (1015), Expect = e-107,   Method: Composition-based stats.
 Identities = 140/366 (38%), Positives = 218/366 (59%), Gaps = 24/366 (6%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L     +A EK+I  + ++  + D++  A +   G     +VE++ E GD +++ L
Sbjct: 2   SKEILDAVRGLAAEKNISSEKLMVALEDALLSAYKKQPGAAPYAQVEMDRELGDFTVWEL 61

Query: 66  LEVVEEVEN----YTCQISLKVARDRDPS-----------------IDIGGVVS-DPLPP 103
             + E++E+       +I        DP                   +    +    + P
Sbjct: 62  K-IPEDLEDQLITEQEEIIAAEFSGVDPETGEARELPEPELDFEKLAEYEDQIERVDVTP 120

Query: 104 MDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSD 162
            DFGR+A Q+AKQVI+Q++REAERD  + E++D+VGE+I+G V++ +    +V L    +
Sbjct: 121 EDFGRIAAQTAKQVILQRIREAERDMMFEEYRDRVGELITGIVQQSDSRYTLVQLRERVE 180

Query: 163 GVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNG 222
            ++ + E +  E      R+K+ I DV    +GP +++SR  P+ +  LF +EVPEI +G
Sbjct: 181 ALLPKSEQVDGERYDHSQRIKAVIKDVSASTKGPSIIVSRRDPELIKALFELEVPEIADG 240

Query: 223 IVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPD 282
           +V++  V+R+PG R+K+AV S    +DPVGACVG RGSRV+ VV+ELR EKIDI+ ++ +
Sbjct: 241 LVEITNVAREPGYRSKIAVVSHADGVDPVGACVGPRGSRVRMVVSELRGEKIDIIPYNDE 300

Query: 283 SATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
            A FV  AL PA V +V++D+D  +  VIVP +QLSLAIGR GQN RLA++LTGW IDI 
Sbjct: 301 PARFVAKALSPARVREVLVDDDGKQATVIVPDDQLSLAIGREGQNARLAARLTGWRIDIR 360

Query: 343 TEEEDS 348
           +E E +
Sbjct: 361 SETEFA 366


>gi|153809150|ref|ZP_01961818.1| hypothetical protein BACCAC_03460 [Bacteroides caccae ATCC 43185]
 gi|149128126|gb|EDM19346.1| hypothetical protein BACCAC_03460 [Bacteroides caccae ATCC 43185]
          Length = 430

 Score =  395 bits (1015), Expect = e-107,   Method: Composition-based stats.
 Identities = 137/413 (33%), Positives = 237/413 (57%), Gaps = 11/413 (2%)

Query: 4   ANRLELLQIADAVA--YE-KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           A + E + + D  +   E K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD 
Sbjct: 2   AKKEETISLIDTFSEFKELKNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDF 61

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R  EVV  E++ N   QI+L  A+  D S + G  V+D +    FGR A+ + +Q +
Sbjct: 62  EIWRNREVVADEDLTNPNMQIALSEAQKIDASYEEGEEVTDEVIFAKFGRRAILNLRQTL 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLR 177
             K+ E E+D  Y ++ DKVG II+  V ++     +++D   ++ ++ + E I  +  R
Sbjct: 122 ASKILELEKDSIYNKYIDKVGTIINAEVYQIWKKEMLLLDDEGNELLLPKTEQIPSDFYR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+  ++ +  V  +   P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RA
Sbjct: 182 KGETARAVVARVDNKNNNPKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVG++GSR+  +V ELR+E ID++ ++ + + F+  AL PA ++
Sbjct: 242 KIAVESYDDRIDPVGACVGVKGSRIHGIVRELRNENIDVINYTSNISLFIQRALSPAKIS 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            + L+E+  + EV +  E++SLAIG+ G N++LAS LT +TID+  E ++++    D + 
Sbjct: 302 SIRLNEEEKKAEVFLKPEEVSLAIGKGGLNIKLASMLTEYTIDVFRELDENV---ADEDI 358

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
               F     +D  +   + A G    + +       +      +EET  E+ 
Sbjct: 359 YLDEFRD--EIDGWVIDAIKAIGIDTAKAVLNAPREMLIEKTDLEEETVDEVI 409


>gi|299142250|ref|ZP_07035383.1| transcription termination factor NusA [Prevotella oris C735]
 gi|298576339|gb|EFI48212.1| transcription termination factor NusA [Prevotella oris C735]
          Length = 421

 Score =  395 bits (1015), Expect = e-107,   Method: Composition-based stats.
 Identities = 136/414 (32%), Positives = 229/414 (55%), Gaps = 8/414 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           ++         K+IDR  ++SV+ +S +     ++G+  +  V +NP+ GD  ++R   V
Sbjct: 13  MIDTFREFKDTKNIDRTTLVSVLEESFRNVLAKIFGSDENFDVIVNPDKGDFEIYRNRVV 72

Query: 69  VE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           V   EVE+   QI+L  A   +P  +IG  VS+ +    FGR A+ + +Q +  K+ E E
Sbjct: 73  VADGEVEDENKQIALGEALKIEPDYEIGEEVSEQVNFAKFGRRAILNLRQTLASKILELE 132

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNV-IVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            D  Y ++KD+VG+I+SG + ++    V +VD  N++ ++ + E I  +  R G+ +++ 
Sbjct: 133 HDTLYNKYKDRVGQIVSGEIYQIWKREVLVVDDENNELILPKSEQIPADVYRKGETIRAV 192

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V  E   P+++LSRT P F+ +L   EVPEI +G++ ++ ++R PG RAK+AV S D
Sbjct: 193 ILRVDNENNNPKIILSRTSPMFLERLLEAEVPEINDGLIAIRKIARMPGERAKIAVESFD 252

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVGACVG++GSRV  +V EL +E +D+V ++ +   F+  AL PA V+ + +DE+ 
Sbjct: 253 DRIDPVGACVGVKGSRVHGIVRELCNENLDVVNYTTNINLFIQRALSPARVSSINIDEEN 312

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            + EV +  E++SLAIGR G N++LAS LT +TID+  E  +      D +     F   
Sbjct: 313 HKAEVYLQPEEVSLAIGRGGLNIKLASMLTEYTIDVFREVPEGE---ADEDIYLDEFSD- 368

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             +D+ +   + + G    + +       +      +EET   +    R   E 
Sbjct: 369 -EIDQWVIDAIKSIGLDTAKAVLNAPREMLIEKADLEEETVDHVINVLRAEFEQ 421


>gi|296171600|ref|ZP_06852840.1| transcription elongation factor NusA [Mycobacterium
           parascrofulaceum ATCC BAA-614]
 gi|295894055|gb|EFG73817.1| transcription elongation factor NusA [Mycobacterium
           parascrofulaceum ATCC BAA-614]
          Length = 351

 Score =  395 bits (1015), Expect = e-107,   Method: Composition-based stats.
 Identities = 130/354 (36%), Positives = 198/354 (55%), Gaps = 31/354 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  ++ I  + +L  +  ++  A R   G  +D R+EI+ +TG + +       
Sbjct: 5   MAALHAIEVDRGISVNELLETIKSALLTAYRHTEGHQNDARIEIDRKTGVVKV------- 57

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                        VAR+ D   ++     D   P  FGR+A  +A+QV++Q+ R+AE +R
Sbjct: 58  -------------VARETDDDGNVISEWDD--TPEGFGRIAATTARQVMLQRFRDAENER 102

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDR 181
            Y EF  + GEI++G ++R    N    V+V +G     S+GVI   E +  E+   G+R
Sbjct: 103 TYGEFSTREGEIVAGVIQRDSRANARGLVVVRMGTETKASEGVIPAAEQVPGESYEHGNR 162

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+ Y+  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV
Sbjct: 163 VRCYVIGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAV 222

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            S+   ++  GAC+G  G RV+ V++EL  EKIDI+ +  D + FV NAL PA V  V +
Sbjct: 223 KSNVPGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDEDPSRFVANALSPAKVVSVSI 282

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
           +D +     V+VP  QLSLAIG+ GQN RLA++LTGW IDI  +         +
Sbjct: 283 IDPNARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRGDTPGGSEGHSE 336


>gi|306824618|ref|ZP_07457963.1| transcription termination factor NusA [Streptococcus sp. oral taxon
           071 str. 73H25AP]
 gi|304433186|gb|EFM36157.1| transcription termination factor NusA [Streptococcus sp. oral taxon
           071 str. 73H25AP]
          Length = 378

 Score =  395 bits (1015), Expect = e-107,   Method: Composition-based stats.
 Identities = 131/389 (33%), Positives = 218/389 (56%), Gaps = 27/389 (6%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ +
Sbjct: 2   SKEMLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 62  REVVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y
Sbjct: 122 TRAITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S +
Sbjct: 182 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGANIKKITSKFHPARYDAKSDRMIPVEENIDVIEWVADPAEFIYNAI 301

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ DE+   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEFEAM 361

Query: 351 RQKDFNERTQFFMQAINVDEIIAHLLVAE 379
                        +   VD   A  L+ E
Sbjct: 362 E------------EVGQVDYAAADELIEE 378


>gi|331265777|ref|YP_004325407.1| transcription termination-antitermination factor [Streptococcus
           oralis Uo5]
 gi|326682449|emb|CBZ00066.1| transcription termination-antitermination factor [Streptococcus
           oralis Uo5]
          Length = 374

 Score =  395 bits (1015), Expect = e-107,   Method: Composition-based stats.
 Identities = 131/386 (33%), Positives = 219/386 (56%), Gaps = 27/386 (6%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ + EV
Sbjct: 1   MLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTVREV 60

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           V+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+  R 
Sbjct: 61  VDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTRA 120

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
             Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y+Y 
Sbjct: 121 ITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVYVYK 180

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + ++
Sbjct: 181 VEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPNV 240

Query: 249 DPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRPA 294
           D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ PA
Sbjct: 241 DAIGTIVGRGGANIKKITSKFHPARYDAKSDRMIPVEENIDVIEWVADPAEFIYNAIAPA 300

Query: 295 IVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
            V +V+ DE+   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E       
Sbjct: 301 EVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEFEAME-- 358

Query: 354 DFNERTQFFMQAINVDEIIAHLLVAE 379
                     +A  VD  +A  L+ E
Sbjct: 359 ----------EAGQVDYAVADELIEE 374


>gi|119962022|ref|YP_947326.1| transcription termination factor NusA [Arthrobacter aurescens TC1]
 gi|119948881|gb|ABM07792.1| transcription termination factor NusA [Arthrobacter aurescens TC1]
          Length = 326

 Score =  395 bits (1015), Expect = e-107,   Method: Composition-based stats.
 Identities = 120/338 (35%), Positives = 196/338 (57%), Gaps = 24/338 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  E+ I  D+++  +  ++  A     G     R E++ ++G ++++      
Sbjct: 5   MSALRLLEREREIPLDLLIPTIEQALLVAYHKTPGAFEKARAELDRKSGHVTIW------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A + D   +  G   D   P  FGR+A  +A+Q+I+Q++R+ E D 
Sbjct: 59  --------------ATEIDDDGEPIGEFED--TPAGFGRIAASTARQIILQRLRDVEDDN 102

Query: 130 QYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              EFK + GE+++G +++    ++I V+LG  + ++   E +  E    G R+++++ D
Sbjct: 103 VLGEFKGREGELVAGMIQQGNNPHMIQVNLGAVEALLPPPEQVPGEKYLHGSRLRAFVVD 162

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V R  +GP + LSR+HP  + KLF MEVPEI +  V++ A++R+ G R K+AV ++   +
Sbjct: 163 VHRGAKGPSITLSRSHPGLVRKLFEMEVPEIADHSVEIVALAREAGHRTKIAVKANTPGV 222

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGR 307
           +  GAC+G  GSRV+AV+TEL DEKIDIV +S D ATF+ N+L P+ V  V + DE    
Sbjct: 223 NAKGACIGEMGSRVRAVMTELNDEKIDIVDFSDDPATFIANSLSPSRVNSVTITDESTRS 282

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
             V+VP  QLSLAIG+ GQN RLA++LTGW IDI+++ 
Sbjct: 283 ARVVVPDYQLSLAIGKEGQNARLAAKLTGWRIDIVSDA 320


>gi|288801646|ref|ZP_06407088.1| transcription termination factor NusA [Prevotella melaninogenica
           D18]
 gi|288335688|gb|EFC74121.1| transcription termination factor NusA [Prevotella melaninogenica
           D18]
          Length = 421

 Score =  395 bits (1015), Expect = e-107,   Method: Composition-based stats.
 Identities = 141/417 (33%), Positives = 234/417 (56%), Gaps = 8/417 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
           R  +++        KSIDR  ++SV+ +S +     ++G+  +  V +NP+ GD  + R 
Sbjct: 10  RPNMIETFKEFKDTKSIDRTTLVSVLEESFRNVLAKIFGSDENFDVIVNPDKGDFEIHRN 69

Query: 66  LEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV   EVE+   +ISL  AR  +   ++G  VS+ +    FGR A+ + +Q +  K+ 
Sbjct: 70  RVVVADGEVEDENKEISLTDARKIEADYEVGEDVSEEVDFNKFGRRAILNLRQTLASKIL 129

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRV 182
           E E D  Y ++KD+VG+IISG V +     V+ VD  N++ ++ + E I R+  R G+ V
Sbjct: 130 ELEHDSLYNKYKDRVGQIISGEVYQTWKREVLLVDEENNELILPKGEQIPRDQYRKGETV 189

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ I+ V  E   P+++LSRT P+F+ +L   EVPEI +G++ ++ ++R PG RAK+AV 
Sbjct: 190 RAVIHRVDNENNNPKIILSRTAPEFLERLLEAEVPEINDGLIAIRKIARMPGERAKIAVE 249

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDPVGACVG+RGSRV  +V EL +E +D++ W+ ++  F+  AL PA V+ + +D
Sbjct: 250 SFDERIDPVGACVGVRGSRVHGIVRELCNENLDVINWTANTKLFIQRALAPAKVSSLTVD 309

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+  + EV +  E++SLAIGR G N++LAS LTG+TID+  E ++   +  + +     F
Sbjct: 310 EENKKAEVYLQPEEVSLAIGRGGMNIKLASMLTGYTIDVFRELDE---QNAEEDIYLDEF 366

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
                +D+ +   +   G     ++       +      + ET   +    R   E 
Sbjct: 367 SD--EIDQWVIDAIKGIGLDTARQVLNAPREMLIEKADLEVETVDSVLNVLRSEFEQ 421


>gi|160883929|ref|ZP_02064932.1| hypothetical protein BACOVA_01903 [Bacteroides ovatus ATCC 8483]
 gi|237720417|ref|ZP_04550898.1| transcription elongation factor NusA [Bacteroides sp. 2_2_4]
 gi|299147096|ref|ZP_07040163.1| transcription termination factor NusA [Bacteroides sp. 3_1_23]
 gi|156110659|gb|EDO12404.1| hypothetical protein BACOVA_01903 [Bacteroides ovatus ATCC 8483]
 gi|229450168|gb|EEO55959.1| transcription elongation factor NusA [Bacteroides sp. 2_2_4]
 gi|298514981|gb|EFI38863.1| transcription termination factor NusA [Bacteroides sp. 3_1_23]
          Length = 431

 Score =  395 bits (1015), Expect = e-107,   Method: Composition-based stats.
 Identities = 141/430 (32%), Positives = 244/430 (56%), Gaps = 11/430 (2%)

Query: 4   ANRLELLQIADAVA--YE-KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           A + E + + D  +   E K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD 
Sbjct: 2   AKKEETISLIDTFSEFKELKNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDF 61

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R  EVV  E++ N   QISL  A+  D S + G  V+D +    FGR A+ + +Q +
Sbjct: 62  EIWRNREVVADEDLTNPNMQISLSEAQKIDASYEEGEEVTDEVIFAKFGRRAILNLRQTL 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLR 177
             K+ E E+D  Y ++ DKVG II+  V ++     +++D   ++ ++ + E I  +  R
Sbjct: 122 ASKILELEKDSIYNKYIDKVGTIINAEVYQIWKKEMLLLDDEGNELLLPKTEQIPSDFYR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+  ++ +  V  +   P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RA
Sbjct: 182 KGETARAVVARVDNKNNNPKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVG++GSR+  +V ELR+E ID++ ++ + + F+  AL PA ++
Sbjct: 242 KIAVESYDDRIDPVGACVGVKGSRIHGIVRELRNENIDVINYTSNISLFIQRALSPAKIS 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            + L+E+  + EV +  E++SLAIG+ G N++LAS LT +TID+  E ++++    D + 
Sbjct: 302 SIRLNEEEKKAEVFLKPEEVSLAIGKGGLNIKLASMLTEYTIDVFRELDENV---ADEDI 358

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F     +D  +   + A G    + +       +      +EET  E+    +   
Sbjct: 359 YLDEFRD--EIDGWVIDAIKAIGIDTAKAVLNAPREMLIEKTDLEEETVDEVIRILKSEF 416

Query: 418 EGIDITLQKK 427
           E  D +++ K
Sbjct: 417 EEEDPSIENK 426


>gi|229820977|ref|YP_002882503.1| NusA antitermination factor [Beutenbergia cavernae DSM 12333]
 gi|229566890|gb|ACQ80741.1| NusA antitermination factor [Beutenbergia cavernae DSM 12333]
          Length = 346

 Score =  395 bits (1015), Expect = e-107,   Method: Composition-based stats.
 Identities = 126/347 (36%), Positives = 198/347 (57%), Gaps = 22/347 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  E+ I  DV++  +  ++  A     G   + RV ++ ++G +++     V 
Sbjct: 5   MSALRALEREREISLDVLVGAIEQALLSAYERTPGAYPEARVHLDRQSGHVTVLATEVVG 64

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
           E  E    +                        P  FGR+A  +A+QVIIQ++R+AE D+
Sbjct: 65  EGDEEVRRE--------------------FDHTPEGFGRIATSTARQVIIQRLRDAEDDQ 104

Query: 130 QYLEFKDKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
               F+ + GE+I+G V++    G V+VD+G  + V+   E +  E+   G+R+++Y+ D
Sbjct: 105 VLGTFRGREGELIAGVVQQGGRVGAVLVDVGGVEAVLPPHEQVPGESYPHGERIRAYVLD 164

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V R  +GP + LSRTHP F+ ++F +EVPE+ +G V++ A++R+ G R K+AV S    +
Sbjct: 165 VSRGLKGPSITLSRTHPNFVRRMFALEVPEVADGSVEIAALAREAGHRTKMAVRSLVPGV 224

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
              GAC+G  G RV+AV+ ELR EKIDIV +S D A FV  AL PA V+ V ++D +   
Sbjct: 225 GAKGACIGPMGQRVRAVMAELRGEKIDIVDFSEDPARFVAAALSPARVSSVQIVDAEARS 284

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
             VIVP  QLSLAIG+ GQN RLA++LTGW IDI  + + + +   +
Sbjct: 285 ARVIVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTQPADDAASE 331


>gi|150010113|ref|YP_001304856.1| transcription elongation factor NusA [Parabacteroides distasonis
           ATCC 8503]
 gi|255012627|ref|ZP_05284753.1| transcription elongation factor NusA [Bacteroides sp. 2_1_7]
 gi|298374483|ref|ZP_06984441.1| transcription termination factor NusA [Bacteroides sp. 3_1_19]
 gi|149938537|gb|ABR45234.1| putative nitrogen utilization substance protein [Parabacteroides
           distasonis ATCC 8503]
 gi|298268851|gb|EFI10506.1| transcription termination factor NusA [Bacteroides sp. 3_1_19]
          Length = 421

 Score =  395 bits (1015), Expect = e-107,   Method: Composition-based stats.
 Identities = 139/414 (33%), Positives = 240/414 (57%), Gaps = 12/414 (2%)

Query: 4   ANRLELLQIADAVA--YE-KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           A + E + + D +A   E K+ID+D ++SV+ DS +     ++GT  +  V INPE GD 
Sbjct: 2   AKKEETISMIDTLAEFKELKNIDKDTMISVLEDSFRNVIAKMFGTDENYDVIINPEKGDF 61

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R   VV  +E+E+   Q++L  AR  D   ++G  V+D +   DFGR A+ + +Q +
Sbjct: 62  EIWRNRTVVADDELEDENLQLTLTEARKIDADCEVGEEVTDEVHFADFGRRAILNLRQTL 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLR 177
             K+ E ++D  Y ++KDK+G II+  V +V    +++ D   ++ ++ + E I  +  R
Sbjct: 122 ASKILELQKDSLYAKYKDKIGHIIAAEVYQVWKKEILLLDDDGNELLLPKSEQIPTDFYR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+ V++ +  V      P++LLSRT   F+ +LF +EVPEI +G++ +KA++R PG RA
Sbjct: 182 KGETVRAIVQRVDNYNNNPKILLSRTDKVFLQRLFELEVPEINDGLITIKAIARIPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVGM+GSR+  +V ELR+E ID++ ++ + + F+  AL PA ++
Sbjct: 242 KVAVESYDDRIDPVGACVGMKGSRIHGIVRELRNENIDVINYTSNLSLFIQRALSPAKIS 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            + ++E+  + EV +  E++SLAIG+ G N++LA  LT +TID+  + E +     + + 
Sbjct: 302 SIRVNEEEKKAEVYLRPEEVSLAIGKGGLNIKLACMLTEYTIDVFRDIEGA----DEEDI 357

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
               F     +D  +   L   G    + +  +  +EI      +E+T  ++  
Sbjct: 358 YLDEFSD--EIDSWVIDALKNIGCYTAKSVLAMDRNEIIERADLEEQTVDDLLA 409


>gi|311744143|ref|ZP_07717949.1| transcription termination factor NusA [Aeromicrobium marinum DSM
           15272]
 gi|311313273|gb|EFQ83184.1| transcription termination factor NusA [Aeromicrobium marinum DSM
           15272]
          Length = 332

 Score =  395 bits (1015), Expect = e-107,   Method: Composition-based stats.
 Identities = 129/339 (38%), Positives = 195/339 (57%), Gaps = 16/339 (4%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR-LLEV 68
           +    A+  EK +  DVV+  +  ++  A           RVE++ + G + ++      
Sbjct: 5   MNALRALEREKDLSFDVVVEAIEQALLSAYHKTPDAHGHARVELDRKNGHVVVWAAERLP 64

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VE  E               P         D   P DFGR A   A+QVI+Q++REAE +
Sbjct: 65  VEPTEE-----------QPHPPAAWSEEFDD--TPEDFGRFAAAIARQVIMQRLREAEDE 111

Query: 129 RQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           ++Y EF  +VG+I+SG +++    G+V++DLG  + ++   E ++ E    G+R+K+Y+Y
Sbjct: 112 QKYGEFSGRVGDIVSGVIQQGRSPGDVMIDLGRVEAILPSAERVAEEKYAHGERIKAYVY 171

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V +  RGP+V +SRTHP  +  LF +EVPEI +  V++ AV+R+ G R K+AV +    
Sbjct: 172 EVEKGLRGPRVKVSRTHPNLVRLLFALEVPEIADHSVEIVAVAREAGHRTKIAVRARVPG 231

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVG 306
           ++  GAC+G  G+RV+ V+ EL  EKIDIV  S D A F+  AL P+ VT V V+DE   
Sbjct: 232 VNAKGACIGPLGARVRNVMHELHGEKIDIVDHSDDPAEFIGYALSPSRVTSVTVVDEATR 291

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
              V+VP  QLSLAIG+ GQN RLA++LTGW IDI ++ 
Sbjct: 292 SARVVVPDFQLSLAIGKEGQNARLAAKLTGWRIDIRSDT 330


>gi|282859024|ref|ZP_06268160.1| transcription termination factor NusA [Prevotella bivia JCVIHMP010]
 gi|282588192|gb|EFB93361.1| transcription termination factor NusA [Prevotella bivia JCVIHMP010]
          Length = 421

 Score =  395 bits (1015), Expect = e-107,   Method: Composition-based stats.
 Identities = 140/413 (33%), Positives = 237/413 (57%), Gaps = 8/413 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +  +R  +++        KSIDR  ++SV+ +S +     ++G+  +  V +NP+ GD  
Sbjct: 6   IEEDRPNMIETFKEFKDTKSIDRTTLMSVLEESFRNVLAKIFGSDENFDVIVNPDKGDFE 65

Query: 62  LFRLLEVVEEVENY--TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           ++R   VV + +      +ISL  AR  +P  ++G  VS+ +    FGR A+ + +Q + 
Sbjct: 66  IYRNRVVVADDDVEDENKEISLTDARKLEPDFEVGEDVSEKIDFNKFGRRAILNLRQTLA 125

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRP 178
            KV E E D  Y ++KD+VG+II+G V +     V+ VD  N++ ++ + E I R+N R 
Sbjct: 126 SKVLELEHDSLYNKYKDRVGQIITGEVYQTWKREVLLVDEDNNEMILPKGEQIPRDNYRK 185

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           G+ +++ I+ V  E   P+++LSRT P+F+ +L   EVPEI +G++ +K ++R PG RAK
Sbjct: 186 GETIRAVIHRVDNENNNPKIILSRTAPEFLERLLEAEVPEINDGLIAIKKIARMPGERAK 245

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D  IDPVGACVG+RGSRV  +V EL +E ID++ W+ ++  F+  AL PA V+ 
Sbjct: 246 IAVESFDERIDPVGACVGVRGSRVHGIVRELCNENIDVITWTANTKLFIQRALAPAKVSS 305

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           + +DE+  + EV +  E++SLAIGR G N++LAS LTG+TID+  E +++     + +  
Sbjct: 306 LTIDEENKKAEVYLQPEEVSLAIGRGGLNIKLASMLTGYTIDVFRELDEN---DAEDDIY 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
              F     +D+ +   + + G     ++       +      +EET   +  
Sbjct: 363 LDEFSD--EIDQWVIDAIKSIGMETARQVLNAPREMLIEKADLEEETVDNVLN 413


>gi|224536664|ref|ZP_03677203.1| hypothetical protein BACCELL_01540 [Bacteroides cellulosilyticus
           DSM 14838]
 gi|224521755|gb|EEF90860.1| hypothetical protein BACCELL_01540 [Bacteroides cellulosilyticus
           DSM 14838]
          Length = 446

 Score =  394 bits (1014), Expect = e-107,   Method: Composition-based stats.
 Identities = 137/413 (33%), Positives = 240/413 (58%), Gaps = 11/413 (2%)

Query: 4   ANRLELLQIADAVA--YE-KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           A ++E + + D  +   E K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD 
Sbjct: 2   AKKVETISLIDTFSEFKELKNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDF 61

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R  EVV  E++EN   QI+L  A+  D S ++G  V+D +   +FGR A+ + +Q +
Sbjct: 62  EIWRNREVVADEDLENPNLQIALSEAQKIDASYEVGEEVTDEVIFANFGRRAILNLRQTL 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLR 177
             K+ E E+D  Y ++ DKVG II+  V ++     +++D   ++ ++ + E I  +  R
Sbjct: 122 ASKILELEKDSIYNKYIDKVGNIINAEVYQIWKKEMLLLDDEGNELLLPKTEQIPSDFYR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+  ++ +  V  +   P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RA
Sbjct: 182 KGETARAVVARVDNKNNNPKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVG++GSR+  +V ELR+E ID++ ++ +   F+  AL PA ++
Sbjct: 242 KIAVESYDDRIDPVGACVGVKGSRIHGIVRELRNENIDVINYTSNIQLFIQRALSPAKIS 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            + L+E+  + EV +  E++SLAIG+ G N++LAS LT +TID+  E + ++   +D + 
Sbjct: 302 SIRLNEEERKAEVFLRPEEVSLAIGKGGLNIKLASMLTEYTIDVFRELDQAV---EDEDI 358

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
               F     +D  +   + + G    + +       +      +EET  E+ 
Sbjct: 359 YLDEFRD--EIDGWVIDAIKSIGIDTAKAVLNAPRELLIEKTDLEEETVDEVL 409


>gi|330833473|ref|YP_004402298.1| transcription elongation factor NusA [Streptococcus suis ST3]
 gi|329307696|gb|AEB82112.1| transcription elongation factor NusA [Streptococcus suis ST3]
          Length = 380

 Score =  394 bits (1014), Expect = e-107,   Method: Composition-based stats.
 Identities = 125/367 (34%), Positives = 206/367 (56%), Gaps = 15/367 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +  I++  ++  + +S+  A +  YG      +E + + GD  +F +
Sbjct: 2   SKEMLEAFRILEEDMGINKADIIDAVTESLCSAYKRRYGQSESAVIEFDEKKGDFHVFTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 62  REVVDEVFDSRLEISLKDALAISSAYEMGDKIKFQEDPAEFGRVAAQSAKQTIMEKMRKQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           +R   +  +K    EI+SGTV+R +   + V+LG  +  + + + I  E  +  DR++ Y
Sbjct: 122 KRAITFNTYKQHENEIMSGTVERFDNRFIYVNLGTIEAQLSKQDQIPGEVFQSHDRIEVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S +
Sbjct: 182 VYKVEDNGRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  GS ++ + ++                +E ID++ W  D A F+ NAL
Sbjct: 242 PNVDAIGTIVGRGGSNIKKITSKFHPARYDAKNDRMIPTEENIDVIEWVADEAEFIYNAL 301

Query: 292 RPAIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ D ED     V+VP ++LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDQVLFDTEDGKHATVVVPDDKLSLAIGRRGQNVRLAAHLTGFRIDIKSASEYEAF 361

Query: 351 RQKDFNE 357
               +  
Sbjct: 362 EATQYAT 368


>gi|295102730|emb|CBL00275.1| transcription termination factor NusA [Faecalibacterium prausnitzii
           L2-6]
          Length = 373

 Score =  394 bits (1014), Expect = e-107,   Method: Composition-based stats.
 Identities = 145/352 (41%), Positives = 211/352 (59%), Gaps = 8/352 (2%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGD 59
           M +AN  E  +    + +E+ I  + ++  +  +I  A +  Y      + VEI+P TG 
Sbjct: 1   MAAANN-EFFEALSMLEHERGITAEYLIEKIKAAIVIAVKKNYEVEDDHVMVEIDPNTGK 59

Query: 60  ISLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQV 117
            ++  + +VV  E+  +   +I +  A+    S  +G  V  PL   DFGR+A Q+AK V
Sbjct: 60  FNVALIQDVVADEDWYDEHSEIGITEAQHIRKSYQVGDRVVTPLKTKDFGRIAAQTAKHV 119

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRV--EYGNVIVDLGNS-DGVIRRDETISRE 174
           I Q +REAER +Q  E + +  +I+  TV RV  E G V +DLG   + ++ R+E +  E
Sbjct: 120 IRQGIREAERSQQLSEIQSRAHDIVQATVTRVDPEKGIVALDLGKGGEAILPRNEQVPGE 179

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
               G  ++ YI DV   +RGP+V++SRTHP  + +LF +EVPEIY+G V+VKA+SR+ G
Sbjct: 180 VYTEGQMLQVYIVDVVASERGPRVMISRTHPGLVKRLFELEVPEIYDGTVEVKAISREAG 239

Query: 235 SRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA 294
           +R K+AV+S D++++PV AC+G  G RV AVV +L  EKIDIV WS D + F+  AL PA
Sbjct: 240 ARTKMAVWSKDANVNPVSACIGPHGDRVAAVVEKLGGEKIDIVKWSEDISEFISAALSPA 299

Query: 295 IVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
            V KV L         V VP +QLSLAIG +GQN RL ++LTG+ IDI  E 
Sbjct: 300 KVVKVELLPGETRSCRVTVPDQQLSLAIGNKGQNARLCARLTGYNIDIRPES 351


>gi|87309244|ref|ZP_01091380.1| transcription elongation factor NusA [Blastopirellula marina DSM
           3645]
 gi|87287883|gb|EAQ79781.1| transcription elongation factor NusA [Blastopirellula marina DSM
           3645]
          Length = 425

 Score =  394 bits (1014), Expect = e-107,   Method: Composition-based stats.
 Identities = 158/426 (37%), Positives = 247/426 (57%), Gaps = 37/426 (8%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  E+L+I DA+  +K+ID++VV   +  ++  A R  +   S++ + I+ E G IS   
Sbjct: 2   NPTEVLRIVDAIHRDKNIDKEVVFQAIESALVSATRKYHSEESEVVIHIDREDGSIS--- 58

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMD-FGRVAVQSAKQVIIQKVR 123
                                        G +  +P+ P +  GR+  Q+AKQVIIQK+R
Sbjct: 59  -----------------------------GHIDGEPVDPEEAVGRIGAQTAKQVIIQKIR 89

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           EAERD  + E+ + VG++++GTV R E G  IV LGN + ++ R E I  E+    DRV+
Sbjct: 90  EAERDSLHDEYDEMVGQMVNGTVHRAEGGAAIVALGNVEAILPRSEQIPGESFHANDRVR 149

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           + + +VR++    +V+LSR + +F+ +LF  E+PEI + ++++K +SR+PG R+K+AV S
Sbjct: 150 AIVLEVRKQGSRVKVVLSRANKRFVQRLFEQEIPEITDEVIEIKNISREPGYRSKVAVDS 209

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           SD  +D VGACVG+RG+R++ +V EL  E+IDIV W+ D  T + NAL+PA V +V+L +
Sbjct: 210 SDQRVDCVGACVGVRGNRIKNIVDELSGERIDIVRWTDDPETLIPNALQPAEVEEVILCK 269

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
            +GR  V+V ++QLSLAIGRRGQNVRLAS+L GW I+I+  EE               F 
Sbjct: 270 MMGRAIVLVREDQLSLAIGRRGQNVRLASKLCGWDIEIMLREELEE----QIERAVTAFT 325

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
               V + +A  LV EGF   ++L+ ++   + ++  F EE    I+  A       +  
Sbjct: 326 GIDGVTDSVAEQLVGEGFLSYDDLSVIESDALMAMGEFTEEEIERIRDEAENRGMEAERA 385

Query: 424 LQKKIR 429
           L+ + R
Sbjct: 386 LETERR 391


>gi|332358012|gb|EGJ35845.1| N utilization substance protein A [Streptococcus sanguinis SK1056]
          Length = 420

 Score =  394 bits (1014), Expect = e-107,   Method: Composition-based stats.
 Identities = 135/416 (32%), Positives = 228/416 (54%), Gaps = 16/416 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ +
Sbjct: 4   SKEMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTV 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 64  REVVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ +
Sbjct: 124 TRAITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVF 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S +
Sbjct: 184 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHN 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 244 PNVDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAI 303

Query: 292 RPAIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 304 APAEVDQVIFNQEDNKRALVVVPDSKLSLAIGRRGQNVRLAAHLTGFRIDIKSATEFEEM 363

Query: 351 R-QKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEET 405
               +     Q   + +    ++   + A    D + +A   + EIA +E   EE 
Sbjct: 364 EAANELGGFAQEAEEILGDAAVLETEVSAAEATDFDAVAEETVLEIAGLESEAEEL 419


>gi|256838936|ref|ZP_05544446.1| transcription termination factor NusA [Parabacteroides sp. D13]
 gi|262382600|ref|ZP_06075737.1| transcription termination factor NusA [Bacteroides sp. 2_1_33B]
 gi|301308163|ref|ZP_07214117.1| transcription termination factor NusA [Bacteroides sp. 20_3]
 gi|256739855|gb|EEU53179.1| transcription termination factor NusA [Parabacteroides sp. D13]
 gi|262295478|gb|EEY83409.1| transcription termination factor NusA [Bacteroides sp. 2_1_33B]
 gi|300833633|gb|EFK64249.1| transcription termination factor NusA [Bacteroides sp. 20_3]
          Length = 421

 Score =  394 bits (1014), Expect = e-107,   Method: Composition-based stats.
 Identities = 139/414 (33%), Positives = 240/414 (57%), Gaps = 12/414 (2%)

Query: 4   ANRLELLQIADAVA--YE-KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           A + E + + D +A   E K+ID+D ++SV+ DS +     ++GT  +  V INPE GD 
Sbjct: 2   AKKEETISMIDTLAEFKELKNIDKDTMISVLEDSFRNVIAKMFGTDENYDVIINPEKGDF 61

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R   VV  +E+E+   Q++L  AR  D   ++G  V+D +   DFGR A+ + +Q +
Sbjct: 62  EIWRNRTVVADDELEDENLQLTLTEARKIDADCEVGEEVTDEVHFADFGRRAILNLRQTL 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLR 177
             K+ E ++D  Y ++KDK+G II+  V +V    +++ D   ++ ++ + E I  +  R
Sbjct: 122 ASKILELQKDSLYAKYKDKIGHIIAAEVYQVWKKEILLLDDDGNELLLPKSEQIPTDFYR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+ V++ +  V      P++LLSRT   F+ +LF +EVPEI +G++ +KA++R PG RA
Sbjct: 182 KGETVRAIVQRVDNYNNNPKILLSRTDKVFLQRLFELEVPEINDGLITIKAIARIPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVGM+GSR+  +V ELR+E ID++ ++ + + F+  AL PA ++
Sbjct: 242 KVAVESYDDRIDPVGACVGMKGSRIHGIVRELRNENIDVINYTSNLSLFIQRALSPAKIS 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            + ++E+  + EV +  E++SLAIG+ G N++LA  LT +TID+  + E +     + + 
Sbjct: 302 SIRVNEEEKKAEVYLRPEEVSLAIGKGGLNIKLACMLTEYTIDVFRDIEGA----DEEDI 357

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
               F     +D  +   L   G    + +  +  +EI      +E+T  ++  
Sbjct: 358 YLDEFSD--EIDSWVIDALKNIGCYTAKSVLAMNRNEIIERADLEEQTVDDLLA 409


>gi|312892421|ref|ZP_07751916.1| transcription termination factor NusA [Mucilaginibacter paludis DSM
           18603]
 gi|311295205|gb|EFQ72379.1| transcription termination factor NusA [Mucilaginibacter paludis DSM
           18603]
          Length = 411

 Score =  394 bits (1014), Expect = e-107,   Method: Composition-based stats.
 Identities = 135/421 (32%), Positives = 238/421 (56%), Gaps = 13/421 (3%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M + N ++  Q        K+IDR  ++SV+ D  +   R  YGT  +  V +N + GD+
Sbjct: 1   MSNINLIDSFQEFKDF---KNIDRPTMMSVLEDVFRSMIRKKYGTDENCDVIVNTDNGDL 57

Query: 61  SLFRLLEVVEEV--ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R   V+E+   E+   +I L  A+  DP +++G    + +    FGR A+ +A+Q +
Sbjct: 58  EIWRTRVVMEDGFSEDDDLEIELAEAKLLDPDLEVGDEHIELITLESFGRRAILAARQTL 117

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLR 177
           + K+ E E+D  Y ++KD+VGEII+G V +V     +V D   ++ ++ + E I  +  +
Sbjct: 118 VSKILELEKDEIYKKYKDRVGEIITGEVYQVWKKETLVLDDEGNELLLPKSEQIPADYFK 177

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            GD V++ ++ V      P++++SRT P+F+ +LF +EVPEI++G++ +K + R+PG RA
Sbjct: 178 KGDSVRAVVHKVDMMNTNPKIIISRTAPEFLQRLFELEVPEIFDGLITIKKIVREPGERA 237

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVGM+GSR+  +V EL++E ID++ ++ +   ++  AL PA +T
Sbjct: 238 KVAVESYDDRIDPVGACVGMKGSRIHGIVRELKNENIDVINFTNNVQLYIQRALSPAKIT 297

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            + LD+D     V +  +Q+SLAIGR G N++LA +LTG+ ID+  E ++      + + 
Sbjct: 298 SIKLDDDKKTAAVYLKPDQVSLAIGRGGHNIKLAGKLTGYEIDVYREADE-----HEEDV 352

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
             + F     ++  I       G    + +  + + E+      +EET  ++    +   
Sbjct: 353 DIEEFSD--EIEGWILDEFKRIGLDTAKSVLALSVGELVKRTDLEEETVKDVLSILQAEF 410

Query: 418 E 418
           E
Sbjct: 411 E 411


>gi|311898673|dbj|BAJ31081.1| putative transcription elongation protein NusA [Kitasatospora setae
           KM-6054]
          Length = 333

 Score =  394 bits (1014), Expect = e-107,   Method: Composition-based stats.
 Identities = 130/344 (37%), Positives = 197/344 (57%), Gaps = 21/344 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  EK +  D+++  +  ++  A     G+    RVE+N +TG ++++      
Sbjct: 5   MSALRGLVTEKGVPFDLLVESIESALLIAYHRTEGSRRRARVELNRKTGHVTVWA----- 59

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                      L+ A + D  ++          P  FGR+A  +AKQVI+Q++R+A  D+
Sbjct: 60  -----------LEDASELDEGVEPK---EFDDTPSGFGRIAASTAKQVILQRLRDAADDQ 105

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
            + E+  K G+I++G V++  +  +V+VD+G  + ++   E +  E+ R G R+K Y+  
Sbjct: 106 TFGEYAGKEGDIVTGVVQQGNDPKSVLVDIGKLEAILPPQEQVPGEDYRHGTRLKCYVVG 165

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           VRR  RGP V LSRTHP  + +LF +EVPEI +G V++ A++R+ G R K+AV+S    +
Sbjct: 166 VRRGVRGPSVTLSRTHPSLVKRLFALEVPEIADGSVEIAAIAREAGHRTKIAVWSRRQGL 225

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  G RV+ V+ EL  EKIDIV WS D A  V  AL PA VTKV ++D     
Sbjct: 226 NAKGACIGPNGMRVRGVMAELHGEKIDIVDWSEDPAEMVAAALSPARVTKVEIVDLAQRS 285

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINR 351
             VIVP  QLSLAIG+ GQN RLA++LTGW IDI  + E     
Sbjct: 286 ARVIVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTEAPAEE 329


>gi|94542552|gb|ABF32601.1| N utilization substance protein A [Streptococcus pyogenes MGAS9429]
 gi|94546443|gb|ABF36490.1| N utilization substance protein A [Streptococcus pyogenes MGAS2096]
          Length = 396

 Score =  394 bits (1013), Expect = e-107,   Method: Composition-based stats.
 Identities = 132/382 (34%), Positives = 218/382 (57%), Gaps = 18/382 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  EK ID+  ++  + +S++ A +  YG      +E N +T D  +F +
Sbjct: 13  SKEMLEAFRILEEEKHIDKADIIDAVTESLKSAYKRRYGQSESCVIEFNEKTADFQVFTV 72

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R  
Sbjct: 73  REVVEEVFDSRLEISLKDALAISSAYELGDKIRFEESVNEFGRVAAQSAKQTIMEKMRRQ 132

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R+  + E+K+  GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR+  Y
Sbjct: 133 MREVMFNEYKEHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIDVY 192

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S +
Sbjct: 193 VYKVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHN 252

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+
Sbjct: 253 PNVDAIGTIVGRGGSNIKKVISKFHPKRVDAKTGLEIPVEENIDVIQWVDDPAEFIYNAI 312

Query: 292 RPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V  V+  DED+ R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 313 APAEVDMVLFDDEDLKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEYDRL 372

Query: 351 RQKDFNERTQFFMQAINVDEII 372
              +  +     ++   VD+++
Sbjct: 373 ---EAEKEAATAVEEPVVDDVM 391


>gi|118617680|ref|YP_906012.1| transcription elongation factor NusA [Mycobacterium ulcerans Agy99]
 gi|118569790|gb|ABL04541.1| N utilization substance protein a NusA [Mycobacterium ulcerans
           Agy99]
          Length = 347

 Score =  394 bits (1013), Expect = e-107,   Method: Composition-based stats.
 Identities = 129/361 (35%), Positives = 198/361 (54%), Gaps = 31/361 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  ++ I  + +L  +  ++  A R   G  +D R+EI+ +TG + +       
Sbjct: 5   MAALHAIEVDRGISVNELLETIKSALLTAYRHTQGHQTDARIEIDRKTGVVRVM------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         AR+ D   ++     D   P  FGR+A  +A+QV++Q+ R+AE +R
Sbjct: 59  --------------ARETDDDGNVISEWDD--TPEGFGRIAATTARQVMLQRFRDAENER 102

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDR 181
            Y EF  + GEI++G ++R    N    V+V +G+    S+GVI   E +  E+   G+R
Sbjct: 103 TYGEFSTREGEIVAGVIQRDSRANARGLVVVRMGSETKASEGVIPSAEQVPGESYEHGNR 162

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ Y+  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV
Sbjct: 163 LRCYVVGVSRGSREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAV 222

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            S+   ++  GAC+G  G RV+ V++EL  EKIDI+ +  D   FV NAL PA V  V V
Sbjct: 223 RSNVPGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDEDPGRFVANALSPAKVVSVSV 282

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +D+      V+VP  QLSLAIG+ GQN RLA++LTGW IDI  +  +      +      
Sbjct: 283 IDQTARAARVVVPDFQLSLAIGKEGQNARLAARLTGWWIDIRGDSPEQSAEHPERGASRG 342

Query: 361 F 361
            
Sbjct: 343 L 343


>gi|19746626|ref|NP_607762.1| transcription elongation factor NusA [Streptococcus pyogenes
           MGAS8232]
 gi|139473254|ref|YP_001127969.1| transcription elongation factor NusA [Streptococcus pyogenes str.
           Manfredo]
 gi|161761305|ref|YP_060778.2| transcription elongation factor NusA [Streptococcus pyogenes
           MGAS10394]
 gi|162139101|ref|YP_599142.2| transcription elongation factor NusA [Streptococcus pyogenes
           MGAS10270]
 gi|162139179|ref|YP_603019.2| transcription elongation factor NusA [Streptococcus pyogenes
           MGAS10750]
 gi|162139397|ref|YP_280920.2| transcription elongation factor NusA [Streptococcus pyogenes
           MGAS6180]
 gi|306826865|ref|ZP_07460165.1| transcription termination factor NusA [Streptococcus pyogenes ATCC
           10782]
 gi|19748845|gb|AAL98261.1| transcription termination-antitermination factor [Streptococcus
           pyogenes MGAS8232]
 gi|134271500|emb|CAM29721.1| putative N utilization substance protein A [Streptococcus pyogenes
           str. Manfredo]
 gi|304430883|gb|EFM33892.1| transcription termination factor NusA [Streptococcus pyogenes ATCC
           10782]
          Length = 385

 Score =  394 bits (1013), Expect = e-107,   Method: Composition-based stats.
 Identities = 130/363 (35%), Positives = 210/363 (57%), Gaps = 15/363 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  EK ID+  ++  + +S++ A +  YG      +E N +T D  +F +
Sbjct: 2   SKEMLEAFRILEEEKHIDKADIIDAVTESLKSAYKRRYGQSESCVIEFNEKTADFQVFTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R  
Sbjct: 62  REVVEEVFDSRLEISLKDALAISSAYELGDKIRFEESVNEFGRVAAQSAKQTIMEKMRRQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R+  + E+K+  GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR+  Y
Sbjct: 122 MREVMFNEYKEHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIDVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S +
Sbjct: 182 VYKVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGSNIKKVISKFHPKRVDAKTGLEIPVEENIDVIQWVDDPAEFIYNAI 301

Query: 292 RPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V  V+  DED+ R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDMVLFDDEDLKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEYDRL 361

Query: 351 RQK 353
             +
Sbjct: 362 EAE 364


>gi|317504200|ref|ZP_07962194.1| transcription elongation factor NusA [Prevotella salivae DSM 15606]
 gi|315664689|gb|EFV04362.1| transcription elongation factor NusA [Prevotella salivae DSM 15606]
          Length = 421

 Score =  394 bits (1013), Expect = e-107,   Method: Composition-based stats.
 Identities = 138/421 (32%), Positives = 233/421 (55%), Gaps = 8/421 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +  + + L+         K+IDR  ++SV+ +S +     ++G+  +  V +NP+ GD  
Sbjct: 6   IEEDSISLIDTFREFKETKNIDRTTLVSVLEESFRNVLAKIFGSDENFDVIVNPDKGDFE 65

Query: 62  LFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           ++R   VV   EVE+   Q++L  AR  +P  ++G  VS+ +    FGR A+ + +Q + 
Sbjct: 66  IYRNRIVVADGEVEDENKQVALTEARKIEPDYEVGEEVSEQVNFAKFGRRAILNLRQTLA 125

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNV-IVDLGNSDGVIRRDETISRENLRP 178
            K+ E E D  Y ++KD+VG+IISG V ++    V +VD  N++ ++ + E I  +  R 
Sbjct: 126 SKILELEHDTLYNKYKDRVGQIISGEVYQIWKREVLVVDDENNELILPKSEQIPADVYRK 185

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           G+ V++ I  V  E   P+++LSRT P F+ +L   EVPEI +G++ ++ ++R PG RAK
Sbjct: 186 GETVRAVILRVDNENNNPKIILSRTSPLFLERLLEAEVPEINDGLIAIRKIARMPGERAK 245

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D  IDPVGACVG++GSRV  +V EL +E +D+V ++ +   F+  AL PA V+ 
Sbjct: 246 IAVESFDDRIDPVGACVGVKGSRVHGIVRELCNENLDVVNYTSNINLFIQRALSPARVSS 305

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           + +D++  + EV +  E++SLAIGR G N++LAS LT +TID+  E  +      D +  
Sbjct: 306 INIDQENHKAEVYLQPEEVSLAIGRGGLNIKLASMLTEFTIDVFREVPEGE---ADEDIY 362

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
              F     +D+ +   + + G    + +       +      +EET   +    R   E
Sbjct: 363 LDEFSD--EIDQWVIEAIKSIGLDTAKAVLNAPREMLVEKADLEEETVDHVINVLRAEFE 420

Query: 419 G 419
            
Sbjct: 421 Q 421


>gi|307707652|ref|ZP_07644133.1| transcription termination factor NusA [Streptococcus mitis NCTC
           12261]
 gi|307616365|gb|EFN95557.1| transcription termination factor NusA [Streptococcus mitis NCTC
           12261]
          Length = 378

 Score =  394 bits (1013), Expect = e-107,   Method: Composition-based stats.
 Identities = 128/380 (33%), Positives = 216/380 (56%), Gaps = 18/380 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ +
Sbjct: 2   SKEMLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 62  REVVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y
Sbjct: 122 TRAITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S +
Sbjct: 182 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGANIKKITSKFHPARYDAKSDRMVPIEENIDVIEWVADPAEFIYNAI 301

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ DE+   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEFEAM 361

Query: 351 RQKDFNERTQFFMQAINVDE 370
              +         +   V+E
Sbjct: 362 ---EEAGSVDLEAENDTVEE 378


>gi|298480547|ref|ZP_06998744.1| transcription termination factor NusA [Bacteroides sp. D22]
 gi|295086245|emb|CBK67768.1| transcription termination factor NusA [Bacteroides xylanisolvens
           XB1A]
 gi|298273368|gb|EFI14932.1| transcription termination factor NusA [Bacteroides sp. D22]
          Length = 426

 Score =  394 bits (1013), Expect = e-107,   Method: Composition-based stats.
 Identities = 139/430 (32%), Positives = 240/430 (55%), Gaps = 11/430 (2%)

Query: 4   ANRLELLQIADAVA--YE-KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           A + E + + D  +   E K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD 
Sbjct: 2   AKKEETISLIDTFSEFKELKNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDF 61

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R  EVV  E++ N   QISL  A+  D S + G  V+D +    FGR A+ + +Q +
Sbjct: 62  EIWRNREVVADEDLTNPNMQISLSEAQKIDASYEEGEEVTDEVIFAKFGRRAILNLRQTL 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLR 177
             K+ E E+D  Y ++ DKVG II+  V ++     +++D   ++ ++ + E I  +  R
Sbjct: 122 ASKILELEKDSIYNKYIDKVGTIINAEVYQIWKKEMLLLDDEGNELLLPKTEQIPSDFYR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+  ++ +  V  +   P+++LSRT P F+ +LF MEVPEI +G++ +K ++R PG RA
Sbjct: 182 KGETARAVVARVDNKNNNPKIILSRTSPVFLQRLFEMEVPEINDGLITIKKIARIPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVG++GSR+  +V ELR+E ID++ ++ + + F+  AL PA ++
Sbjct: 242 KIAVESYDDRIDPVGACVGVKGSRIHGIVRELRNENIDVINYTSNISLFIQRALSPAKIS 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            + L+E+  + EV +  E++SLAIG+ G N++LAS LT +TID+  E ++++    D + 
Sbjct: 302 SIRLNEEEKKAEVFLKPEEVSLAIGKGGLNIKLASMLTEYTIDVFRELDENV---ADEDI 358

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F     +D  +   + A G    + +       +      +EET  E+    +   
Sbjct: 359 YLDEFRD--EIDGWVIDAIKAIGIDTAKAVLNAPREMLIEKTDLEEETVDEVIRILKSEF 416

Query: 418 EGIDITLQKK 427
           E       + 
Sbjct: 417 EEEGENSVEN 426


>gi|322377700|ref|ZP_08052190.1| transcription termination factor NusA [Streptococcus sp. M334]
 gi|321281465|gb|EFX58475.1| transcription termination factor NusA [Streptococcus sp. M334]
          Length = 378

 Score =  394 bits (1013), Expect = e-107,   Method: Composition-based stats.
 Identities = 128/380 (33%), Positives = 216/380 (56%), Gaps = 18/380 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ +
Sbjct: 2   SKEMLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 62  REVVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y
Sbjct: 122 TRAITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S +
Sbjct: 182 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGANIKKITSKFHPARYDAKNDRMVPIEENIDVIEWVADPAEFIYNAI 301

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ DE+   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEFEAM 361

Query: 351 RQKDFNERTQFFMQAINVDE 370
              +         +   V+E
Sbjct: 362 ---EEAGSVDLEAENDTVEE 378


>gi|15900465|ref|NP_345069.1| transcription elongation factor NusA [Streptococcus pneumoniae
           TIGR4]
 gi|111657275|ref|ZP_01408041.1| hypothetical protein SpneT_02001513 [Streptococcus pneumoniae
           TIGR4]
 gi|148983931|ref|ZP_01817250.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP3-BS71]
 gi|148990071|ref|ZP_01821325.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP6-BS73]
 gi|148992337|ref|ZP_01822060.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP9-BS68]
 gi|148998226|ref|ZP_01825695.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP11-BS70]
 gi|149005663|ref|ZP_01829402.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP18-BS74]
 gi|149012573|ref|ZP_01833570.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP19-BS75]
 gi|149021508|ref|ZP_01835563.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP23-BS72]
 gi|168482793|ref|ZP_02707745.1| transcription termination factor NusA [Streptococcus pneumoniae
           CDC1873-00]
 gi|168488244|ref|ZP_02712443.1| transcription termination factor NusA [Streptococcus pneumoniae
           SP195]
 gi|168490557|ref|ZP_02714700.1| transcription termination factor NusA [Streptococcus pneumoniae
           CDC0288-04]
 gi|168576545|ref|ZP_02722419.1| transcription termination factor NusA [Streptococcus pneumoniae
           MLV-016]
 gi|169834095|ref|YP_001694040.1| transcription elongation factor NusA [Streptococcus pneumoniae
           Hungary19A-6]
 gi|182683486|ref|YP_001835233.1| transcription elongation factor NusA [Streptococcus pneumoniae
           CGSP14]
 gi|221231386|ref|YP_002510538.1| N utilization substance protein A [Streptococcus pneumoniae ATCC
           700669]
 gi|225854094|ref|YP_002735606.1| transcription elongation factor NusA [Streptococcus pneumoniae JJA]
 gi|225856263|ref|YP_002737774.1| transcription elongation factor NusA [Streptococcus pneumoniae
           P1031]
 gi|225858391|ref|YP_002739901.1| transcription elongation factor NusA [Streptococcus pneumoniae
           70585]
 gi|225860558|ref|YP_002742067.1| transcription elongation factor NusA [Streptococcus pneumoniae
           Taiwan19F-14]
 gi|237650175|ref|ZP_04524427.1| transcription elongation factor NusA [Streptococcus pneumoniae CCRI
           1974]
 gi|237821775|ref|ZP_04597620.1| transcription elongation factor NusA [Streptococcus pneumoniae CCRI
           1974M2]
 gi|298230907|ref|ZP_06964588.1| transcription elongation factor NusA [Streptococcus pneumoniae str.
           Canada MDR_19F]
 gi|298255627|ref|ZP_06979213.1| transcription elongation factor NusA [Streptococcus pneumoniae str.
           Canada MDR_19A]
 gi|298502347|ref|YP_003724287.1| transcription elongation factor NusA [Streptococcus pneumoniae
           TCH8431/19A]
 gi|303255252|ref|ZP_07341325.1| transcription elongation factor NusA [Streptococcus pneumoniae
           BS455]
 gi|303260042|ref|ZP_07346015.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP-BS293]
 gi|303261226|ref|ZP_07347174.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP14-BS292]
 gi|303263891|ref|ZP_07349812.1| transcription elongation factor NusA [Streptococcus pneumoniae
           BS397]
 gi|303267073|ref|ZP_07352944.1| transcription elongation factor NusA [Streptococcus pneumoniae
           BS457]
 gi|303269288|ref|ZP_07355062.1| transcription elongation factor NusA [Streptococcus pneumoniae
           BS458]
 gi|307126756|ref|YP_003878787.1| transcription termination factor NusA [Streptococcus pneumoniae
           670-6B]
 gi|14972027|gb|AAK74709.1| N utilization substance protein A [Streptococcus pneumoniae TIGR4]
 gi|147755869|gb|EDK62913.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP11-BS70]
 gi|147762603|gb|EDK69563.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP18-BS74]
 gi|147763378|gb|EDK70315.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP19-BS75]
 gi|147924078|gb|EDK75190.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP3-BS71]
 gi|147924597|gb|EDK75684.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP6-BS73]
 gi|147928963|gb|EDK79975.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP9-BS68]
 gi|147930204|gb|EDK81189.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP23-BS72]
 gi|168996597|gb|ACA37209.1| transcription termination factor NusA [Streptococcus pneumoniae
           Hungary19A-6]
 gi|172043571|gb|EDT51617.1| transcription termination factor NusA [Streptococcus pneumoniae
           CDC1873-00]
 gi|182628820|gb|ACB89768.1| transcription elongation factor NusA [Streptococcus pneumoniae
           CGSP14]
 gi|183573000|gb|EDT93528.1| transcription termination factor NusA [Streptococcus pneumoniae
           SP195]
 gi|183574829|gb|EDT95357.1| transcription termination factor NusA [Streptococcus pneumoniae
           CDC0288-04]
 gi|183577711|gb|EDT98239.1| transcription termination factor NusA [Streptococcus pneumoniae
           MLV-016]
 gi|220673846|emb|CAR68349.1| putative putative N utilization substance protein A [Streptococcus
           pneumoniae ATCC 700669]
 gi|225720770|gb|ACO16624.1| transcription termination factor NusA [Streptococcus pneumoniae
           70585]
 gi|225723031|gb|ACO18884.1| transcription termination factor NusA [Streptococcus pneumoniae
           JJA]
 gi|225725477|gb|ACO21329.1| transcription termination factor NusA [Streptococcus pneumoniae
           P1031]
 gi|225727542|gb|ACO23393.1| transcription termination factor NusA [Streptococcus pneumoniae
           Taiwan19F-14]
 gi|298237942|gb|ADI69073.1| transcription elongation factor NusA [Streptococcus pneumoniae
           TCH8431/19A]
 gi|301793757|emb|CBW36144.1| putative putative N utilization substance protein A [Streptococcus
           pneumoniae INV104]
 gi|301799610|emb|CBW32165.1| putative putative N utilization substance protein A [Streptococcus
           pneumoniae OXC141]
 gi|301801434|emb|CBW34121.1| putative putative N utilization substance protein A [Streptococcus
           pneumoniae INV200]
 gi|302597793|gb|EFL64866.1| transcription elongation factor NusA [Streptococcus pneumoniae
           BS455]
 gi|302637360|gb|EFL67847.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP14-BS292]
 gi|302638737|gb|EFL69199.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP-BS293]
 gi|302641185|gb|EFL71558.1| transcription elongation factor NusA [Streptococcus pneumoniae
           BS458]
 gi|302643401|gb|EFL73677.1| transcription elongation factor NusA [Streptococcus pneumoniae
           BS457]
 gi|302646296|gb|EFL76522.1| transcription elongation factor NusA [Streptococcus pneumoniae
           BS397]
 gi|306483818|gb|ADM90687.1| transcription termination factor NusA [Streptococcus pneumoniae
           670-6B]
 gi|327390293|gb|EGE88634.1| transcription termination factor NusA [Streptococcus pneumoniae
           GA04375]
 gi|332074367|gb|EGI84843.1| transcription termination factor NusA [Streptococcus pneumoniae
           GA17570]
 gi|332076389|gb|EGI86852.1| transcription termination factor NusA [Streptococcus pneumoniae
           GA41301]
 gi|332202437|gb|EGJ16506.1| transcription termination factor NusA [Streptococcus pneumoniae
           GA41317]
 gi|332204573|gb|EGJ18638.1| transcription termination factor NusA [Streptococcus pneumoniae
           GA47901]
          Length = 378

 Score =  394 bits (1013), Expect = e-107,   Method: Composition-based stats.
 Identities = 128/380 (33%), Positives = 218/380 (57%), Gaps = 18/380 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ +
Sbjct: 2   SKEMLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 62  REVVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y
Sbjct: 122 TRAITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S +
Sbjct: 182 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGANIKKITSKFHPARYDAKNDRMVPIEENIDVIEWVADPAEFIYNAI 301

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ DE+   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEFEAM 361

Query: 351 RQKDFNERTQFFMQAINVDE 370
              +     +  ++   V+E
Sbjct: 362 ---EDAASVELEVENDTVEE 378


>gi|111023601|ref|YP_706573.1| transcription elongation factor NusA [Rhodococcus jostii RHA1]
 gi|110823131|gb|ABG98415.1| transcription elongation protein NusA [Rhodococcus jostii RHA1]
          Length = 343

 Score =  394 bits (1012), Expect = e-107,   Method: Composition-based stats.
 Identities = 131/345 (37%), Positives = 197/345 (57%), Gaps = 30/345 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  +K I  + V+S +  ++  A R   G     R++++ ++G + +       
Sbjct: 5   IAALRAIEADKGISIETVISTIQTALLTAYRHTEGHQQHARIDVDTKSGIVRVM------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A D D   ++ G   D   P  FGR+A  +A+QVI+Q++R+AE +R
Sbjct: 59  --------------AHDVDADGNMVGEEWDD-TPEGFGRIAATTARQVILQRLRDAEHER 103

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN----VIVDLG----NSDGVIRRDETISRENLRPGDR 181
            + E+    GEI+ G ++R    N    V+V +G     ++G+I   E +  EN   G+R
Sbjct: 104 SFGEYSTHEGEIVGGVIQRDTRANSRGMVVVRIGSEASGAEGLIPPAEQVPGENYEHGER 163

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V R QRGPQ+ LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV
Sbjct: 164 LKCYVVGVARGQRGPQITLSRTHPNLVRKLFALEVPEIADGSVEIIAVAREAGHRSKIAV 223

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            S    ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL P+ V  V V
Sbjct: 224 QSRVQGLNAKGACIGPMGQRVRNVMSELAGEKIDIIDFDEDPARFVGNALSPSKVVSVTV 283

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +D D     V+VP  QLSLAIG+ GQN RLA++LTGW IDI ++ 
Sbjct: 284 VDPDARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRSDA 328


>gi|154491955|ref|ZP_02031581.1| hypothetical protein PARMER_01585 [Parabacteroides merdae ATCC
           43184]
 gi|154088196|gb|EDN87241.1| hypothetical protein PARMER_01585 [Parabacteroides merdae ATCC
           43184]
          Length = 424

 Score =  394 bits (1012), Expect = e-107,   Method: Composition-based stats.
 Identities = 137/414 (33%), Positives = 238/414 (57%), Gaps = 12/414 (2%)

Query: 4   ANRLELLQIADAVA--YE-KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           A + E + + D +A   E K+ID+D ++SV+ DS +     ++GT  +  V INPE GD 
Sbjct: 2   AKKEETISMIDTLAEFKELKNIDKDTMISVLEDSFRNVIAKMFGTDENYDVIINPEKGDF 61

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R   VV  +E+E+   Q++L  AR  D   ++G  V+D +   DFGR A+ + +Q +
Sbjct: 62  EIWRNRTVVADDELEDENLQLTLTEARKIDADCEVGEEVTDEVHFADFGRRAILNLRQTL 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLR 177
             K+ E ++D  + ++KDK+G II+  V +V    +++ D   ++ ++ + E I  +  R
Sbjct: 122 ASKILELQKDSLFAKYKDKIGNIIAADVYQVWKKEILLLDDEGNELLLPKTEQIPTDFYR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+ V++ +  V      P+++LSRT   F+ +LF +EVPEI +G++ +KA++R PG RA
Sbjct: 182 KGETVRAIVQRVDNYNNNPKIILSRTDKLFLQRLFELEVPEINDGLITIKAIARIPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVGM+GSR+  +V ELR+E ID++ ++ + + F+  AL PA ++
Sbjct: 242 KVAVESYDDRIDPVGACVGMKGSRIHGIVRELRNENIDVINYTSNISLFIQRALSPAKIS 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            + ++E+  + EV +  E++SLAIG+ G N++LA  LT + ID+  + E +     + + 
Sbjct: 302 SIRVNEEEHKAEVYLRPEEVSLAIGKGGLNIKLACMLTEYAIDVFRDVEGA----DEEDI 357

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
               F     +D  +   L   G    + +  +   EI      +E+T  E+  
Sbjct: 358 YLDEFSD--EIDSWVIEALKNIGCYTAKSVLAMNREEIVERADLEEQTVDEVLA 409


>gi|149002224|ref|ZP_01827166.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP14-BS69]
 gi|168485664|ref|ZP_02710172.1| transcription termination factor NusA [Streptococcus pneumoniae
           CDC1087-00]
 gi|147759539|gb|EDK66530.1| transcription elongation factor NusA [Streptococcus pneumoniae
           SP14-BS69]
 gi|183571232|gb|EDT91760.1| transcription termination factor NusA [Streptococcus pneumoniae
           CDC1087-00]
          Length = 378

 Score =  394 bits (1012), Expect = e-107,   Method: Composition-based stats.
 Identities = 128/380 (33%), Positives = 217/380 (57%), Gaps = 18/380 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ +
Sbjct: 2   SKEMLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 62  REVVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y
Sbjct: 122 TRAITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S +
Sbjct: 182 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGANIKKITSKFHPARYDAKNDRMVPIEENIDVIEWVADPAEFIYNAI 301

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ DE    R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDQVIFDESDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEFEAM 361

Query: 351 RQKDFNERTQFFMQAINVDE 370
              +     +  ++   V+E
Sbjct: 362 ---EDAASVELEVENDTVEE 378


>gi|226366090|ref|YP_002783873.1| transcription elongation factor NusA [Rhodococcus opacus B4]
 gi|226244580|dbj|BAH54928.1| transcription elongation protein NusA [Rhodococcus opacus B4]
          Length = 343

 Score =  394 bits (1012), Expect = e-107,   Method: Composition-based stats.
 Identities = 130/345 (37%), Positives = 197/345 (57%), Gaps = 30/345 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  +K I  + V+S +  ++  A R   G     R++++ ++G + +       
Sbjct: 5   IAALRAIEADKGISIETVISTIQTALLTAYRHTEGHQQHARIDVDTKSGIVRVM------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A D D   ++ G   D   P  FGR+A  +A+QVI+Q++R+AE +R
Sbjct: 59  --------------AHDVDSDGNMVGEEWDD-TPEGFGRIAATTARQVILQRLRDAEHER 103

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN----VIVDLG----NSDGVIRRDETISRENLRPGDR 181
            + E+    GEI+ G ++R    N    V+V +G     ++G+I   E +  EN   G+R
Sbjct: 104 SFGEYSTHEGEIVGGVIQRDTRANSRGMVVVRIGSEASGAEGLIPPAEQVPGENYEHGER 163

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V R QRGPQ+ LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV
Sbjct: 164 LKCYVVGVARGQRGPQITLSRTHPNLVRKLFALEVPEIADGSVEIIAVAREAGHRSKIAV 223

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            S    ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL P+ V  V V
Sbjct: 224 QSRVQGLNAKGACIGPMGQRVRNVMSELAGEKIDIIDFDEDPARFVGNALSPSKVVSVTV 283

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +D +     V+VP  QLSLAIG+ GQN RLA++LTGW IDI ++ 
Sbjct: 284 VDPEARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRSDA 328


>gi|327462402|gb|EGF08727.1| N utilization substance protein A [Streptococcus sanguinis SK1057]
          Length = 420

 Score =  394 bits (1012), Expect = e-107,   Method: Composition-based stats.
 Identities = 141/428 (32%), Positives = 230/428 (53%), Gaps = 28/428 (6%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ +
Sbjct: 4   SKEMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTV 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 64  REVVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ +
Sbjct: 124 TRAITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVF 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S +
Sbjct: 184 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHN 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 244 PNVDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAI 303

Query: 292 RPAIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 304 APAEVDQVIFNQEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDIKSATEFEEM 363

Query: 351 RQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
              +       F Q    +EI+A   V E          V  +E    +   EET +E  
Sbjct: 364 ---EAANELGGFAQ--EAEEILADAAVLE--------TEVSGAEATDFDAVAEETVLETA 410

Query: 411 GRAREYLE 418
           G   E  E
Sbjct: 411 GLESEAEE 418


>gi|294815429|ref|ZP_06774072.1| Transcription elongation factor NusA [Streptomyces clavuligerus
           ATCC 27064]
 gi|326443782|ref|ZP_08218516.1| transcription elongation factor NusA [Streptomyces clavuligerus
           ATCC 27064]
 gi|294328028|gb|EFG09671.1| Transcription elongation factor NusA [Streptomyces clavuligerus
           ATCC 27064]
          Length = 335

 Score =  394 bits (1012), Expect = e-107,   Method: Composition-based stats.
 Identities = 127/340 (37%), Positives = 195/340 (57%), Gaps = 22/340 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +++   +A EK I  D+++  +  ++  A     G+    R E++ +TG ++++      
Sbjct: 5   VKLLKGLAQEKEIPFDLLVEAIESALLIAYHRTEGSRRHARAELSRQTGHVTVWAE---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
              E+      L+  ++                P DFGR+A  +A+QVI Q++R+AE D 
Sbjct: 61  ---EDPA---DLEEGQEPK---------EFDDTPSDFGRIAATTARQVIQQRLRDAENDV 105

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIY 187
            + E+  + G+++SG V++  +  NV+V L    + ++   E +  E    G R+++Y+ 
Sbjct: 106 TFGEYARREGDVVSGQVQQGKDPKNVLVKLDDKLEAILPVQEQVPGEEYPHGLRLRTYVV 165

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  RGP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S 
Sbjct: 166 RVAKGVRGPSVTLSRTHPNLVKKLFALEVPEIADGSVEIAAIAREAGHRTKIAVRSTRSG 225

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVG 306
           ++  GAC+G  G RV+ V+ EL  EKIDIV WS D A  V NAL PA V+KV V+D    
Sbjct: 226 LNAKGACIGPMGGRVRNVMAELHGEKIDIVDWSDDPAEMVANALSPARVSKVEVVDLGAR 285

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
              V VP  QLSLAIG+ GQN RLA++LTGW IDI  + E
Sbjct: 286 SARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTE 325


>gi|327467113|gb|EGF12623.1| N utilization substance protein A [Streptococcus sanguinis SK330]
          Length = 420

 Score =  393 bits (1011), Expect = e-107,   Method: Composition-based stats.
 Identities = 134/416 (32%), Positives = 227/416 (54%), Gaps = 16/416 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ +
Sbjct: 4   SKEMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTV 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 64  REVVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ +
Sbjct: 124 TRAITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVF 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S +
Sbjct: 184 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHN 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 244 PNVDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAI 303

Query: 292 RPAIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 304 APAEVDQVIFNQEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDIKSATEFEEM 363

Query: 351 R-QKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEET 405
               +     Q   + +    ++   + A    D + +A   + E A +E   EE 
Sbjct: 364 EAANELGGFAQEAEEILGDAAVLETEVSAAEATDFDAVAEETVLETAGLESEAEEL 419


>gi|307702469|ref|ZP_07639424.1| transcription elongation protein nusA [Streptococcus oralis ATCC
           35037]
 gi|307623963|gb|EFO02945.1| transcription elongation protein nusA [Streptococcus oralis ATCC
           35037]
          Length = 374

 Score =  393 bits (1011), Expect = e-107,   Method: Composition-based stats.
 Identities = 131/386 (33%), Positives = 218/386 (56%), Gaps = 27/386 (6%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ + EV
Sbjct: 1   MLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTVREV 60

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           V+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+  R 
Sbjct: 61  VDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTRA 120

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
             Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y+Y 
Sbjct: 121 ITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVYVYK 180

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + ++
Sbjct: 181 VEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPNV 240

Query: 249 DPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRPA 294
           D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ PA
Sbjct: 241 DAIGTIVGRGGANIKKITSKFHPARYDAKSDRMIPVEENIDVIEWVADPAEFIYNAIAPA 300

Query: 295 IVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
            V +V+ DE+   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E       
Sbjct: 301 EVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEFEAME-- 358

Query: 354 DFNERTQFFMQAINVDEIIAHLLVAE 379
                     +A  VD   A  L+ E
Sbjct: 359 ----------EAGQVDYAAADELIEE 374


>gi|332364628|gb|EGJ42397.1| N utilization substance protein A [Streptococcus sanguinis SK1059]
          Length = 420

 Score =  393 bits (1011), Expect = e-107,   Method: Composition-based stats.
 Identities = 141/428 (32%), Positives = 230/428 (53%), Gaps = 28/428 (6%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ +
Sbjct: 4   SKEMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTV 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 64  REVVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ +
Sbjct: 124 TRAITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVF 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S +
Sbjct: 184 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHN 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 244 PNVDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAI 303

Query: 292 RPAIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 304 APAEVDQVIFNQEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDIKSATEFEEM 363

Query: 351 RQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
              +       F Q    +EI+A   V E          V  +E    +   EET +E  
Sbjct: 364 ---EAANELGGFAQ--EAEEILADAAVLE--------TEVSAAEATDFDAAAEETVLETA 410

Query: 411 GRAREYLE 418
           G   E  E
Sbjct: 411 GLESEAEE 418


>gi|227537266|ref|ZP_03967315.1| transcription elongation factor NusA [Sphingobacterium spiritivorum
           ATCC 33300]
 gi|300772910|ref|ZP_07082779.1| transcription termination factor NusA [Sphingobacterium
           spiritivorum ATCC 33861]
 gi|227242870|gb|EEI92885.1| transcription elongation factor NusA [Sphingobacterium spiritivorum
           ATCC 33300]
 gi|300759081|gb|EFK55908.1| transcription termination factor NusA [Sphingobacterium
           spiritivorum ATCC 33861]
          Length = 412

 Score =  393 bits (1011), Expect = e-107,   Method: Composition-based stats.
 Identities = 128/408 (31%), Positives = 232/408 (56%), Gaps = 10/408 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            + L+         K+IDR  V+SV+ +  +   R  +GT  ++ V +NP+ GD+ ++R 
Sbjct: 4   NINLIDSFQEFKEFKNIDRPTVISVLEEVFRSMIRKRFGTDENVDVIVNPDNGDLEIWRT 63

Query: 66  LEVVEEV--ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVE+   E+   +I L  A   D  +++G    + +    FGR A+ +A+Q ++ K+ 
Sbjct: 64  RVVVEDEFSEDDDLEIELAEAVKHDADLEVGDDYIEQITLESFGRRAILAARQTLVSKIL 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRV 182
           E E+D  + ++KD+ GE++ G V ++    ++V D   ++ ++ + E I  +  + GD +
Sbjct: 124 ELEKDEVFKKYKDREGELVIGEVYQIWKKEILVLDDDGNELILPKTEQIPADYFKKGDSI 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ ++ V      P++++SRT P F+ +LF +EVPEI++G++ +K + R+PG RAK+AV 
Sbjct: 184 RAVVHKVDMMNNNPKIIISRTAPAFLQRLFELEVPEIFDGLITIKKIVREPGERAKVAVE 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDPVGACVGM+GSR+  +V ELR+E ID++ ++ + + ++  AL PA ++ + +D
Sbjct: 244 SYDDRIDPVGACVGMKGSRIHGIVRELRNENIDVINFTTNHSLYITRALSPARISSIKID 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED     V +  +Q+SLAIGR G N++LA +LTG+ ID+  E ++      D +   + F
Sbjct: 304 EDNKTAAVYLKSDQVSLAIGRGGHNIKLAGKLTGYEIDVYRENDEF-----DEDVDIEEF 358

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
                ++  +   L   G    + +  +   E+      +E+T  EI 
Sbjct: 359 SD--EIEGWVIDELKRVGLDTAKSVLSLTEEELVRRTDLEEDTIQEIV 404


>gi|332366408|gb|EGJ44159.1| N utilization substance protein A [Streptococcus sanguinis SK355]
          Length = 417

 Score =  393 bits (1011), Expect = e-107,   Method: Composition-based stats.
 Identities = 136/419 (32%), Positives = 227/419 (54%), Gaps = 21/419 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG    + +E + ++GD  ++ +
Sbjct: 4   SKEMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSVAIEFDEKSGDFRVYTV 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 64  REVVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ +
Sbjct: 124 TRAITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVF 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S +
Sbjct: 184 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHN 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 244 PNVDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAI 303

Query: 292 RPAIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 304 APAEVDQVIFNEEDNKRALVVVPDSKLSLAIGRRGQNVRLAAHLTGFRIDIKSATEFEEM 363

Query: 351 RQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEI 409
              +       F Q    +EI+A   V E      +        +    G + E A E+
Sbjct: 364 ---EAANELGGFAQ--EAEEILADADVLETEFSATDFDAAAEETVLETAGLESE-AEEL 416


>gi|149277310|ref|ZP_01883452.1| transcription elongation factor NusA [Pedobacter sp. BAL39]
 gi|149232187|gb|EDM37564.1| transcription elongation factor NusA [Pedobacter sp. BAL39]
          Length = 411

 Score =  393 bits (1011), Expect = e-107,   Method: Composition-based stats.
 Identities = 138/421 (32%), Positives = 238/421 (56%), Gaps = 13/421 (3%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M + N ++  Q        K+IDR  V+SV+ +  +   R  YGT  +  V +NP+ GD+
Sbjct: 1   MSNINLIDSFQEFKDF---KNIDRPTVISVLEEVFRSMLRKKYGTDENCDVIVNPDNGDL 57

Query: 61  SLFRLLEVVEEV--ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R  +V+E+   E+   +I L   +  D  +++G    + +    FGR A+ +A+Q +
Sbjct: 58  EIWRTRKVMEDGFSEDDDLEIELAEVKLLDADMEVGDDYIEQITLESFGRRAILAARQTL 117

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLR 177
           + KV E E+D  + ++KD+VGEI++G V +V     +V D   ++ ++ + E I  +  +
Sbjct: 118 VSKVLELEKDEIFKKYKDRVGEIVTGEVYQVWKKETLVLDDEGNELMMPKTEQIPADYFK 177

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            GD V++ I  V      P++++SR  P F+ +LF +EVPEI++G++ +K + R+PG RA
Sbjct: 178 KGDTVRAVILKVDMVNATPKIIISRIAPDFLQRLFEIEVPEIFDGLITIKKIVREPGERA 237

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVGM+GSR+  +V EL++E ID++ ++ + + ++  AL PA +T
Sbjct: 238 KVAVESYDDRIDPVGACVGMKGSRIHGIVRELKNENIDVINFTNNISLYITRALSPAKIT 297

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            + LD++     V +  +Q+SLAIGR G N++LA +LTG+ ID+  E       ++D + 
Sbjct: 298 SIKLDDETKHASVYLKPDQVSLAIGRGGHNIKLAGKLTGYEIDVYREA-----GEEDEDV 352

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
             + F     +D  I   L A G    + +  + I E+      +EET  E+    +   
Sbjct: 353 DIEEFSD--EIDSWIIDELKAIGCDTAKSVLALSIDELVKRTDLEEETIKEVMSILKSEF 410

Query: 418 E 418
           E
Sbjct: 411 E 411


>gi|237743254|ref|ZP_04573735.1| transcription elongation factor NusA [Fusobacterium sp. 7_1]
 gi|256028609|ref|ZP_05442443.1| transcription elongation factor NusA [Fusobacterium sp. D11]
 gi|260495123|ref|ZP_05815252.1| transcription termination factor NusA [Fusobacterium sp. 3_1_33]
 gi|289766527|ref|ZP_06525905.1| transcription elongation factor NusA [Fusobacterium sp. D11]
 gi|229433033|gb|EEO43245.1| transcription elongation factor NusA [Fusobacterium sp. 7_1]
 gi|260197566|gb|EEW95084.1| transcription termination factor NusA [Fusobacterium sp. 3_1_33]
 gi|289718082|gb|EFD82094.1| transcription elongation factor NusA [Fusobacterium sp. D11]
          Length = 359

 Score =  393 bits (1010), Expect = e-107,   Method: Composition-based stats.
 Identities = 128/360 (35%), Positives = 220/360 (61%), Gaps = 4/360 (1%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M + +    L+  D +  EK I ++ VL  +  ++  A +  YG   ++ V ++ E GDI
Sbjct: 1   MKAKDSKNFLEALDELEKEKGISKESVLEAIELALLAAYKKNYGEDENVEVTVDRENGDI 60

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            +F    VV  +++ +   +ISL+ A+     + IG ++   +   +F R AVQ+ KQ++
Sbjct: 61  KVFASKTVVAADDLLDPNEEISLEDAKKIKKRVKIGDILKFEVDCENFRRNAVQNGKQIV 120

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLR 177
           IQKVREAER+  + +FK++   I++G ++R++   N+ +++   + ++   E    +  R
Sbjct: 121 IQKVREAEREHIFNKFKEREDSIVTGIIRRIDNRKNIFIEIDGVELILPPAEQSVSDIYR 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+R+K Y+  V +  + P++L+SR +   + KLF +E+PEI +GI+++K+V+R+ GSRA
Sbjct: 181 VGERIKVYVLSVEKTSKFPKILISRRNEGLLRKLFEIEIPEITSGIIEIKSVAREAGSRA 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV+S+  +ID +GAC+G +G+R++ +V EL  E+IDIV W P    FV   L PA+V 
Sbjct: 241 KVAVYSAVPNIDTIGACIGQKGARIKNIVDELNGERIDIVEWKPVVEEFVSAVLSPAVVE 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            V + ED G   V+V   QLSLAIG+ GQN RLA++LTG  +DI   ++D    ++  +E
Sbjct: 301 SVTILED-GTARVLVEPSQLSLAIGKNGQNARLAARLTGMRVDIKVIDKDKETLKEGEDE 359


>gi|182435606|ref|YP_001823325.1| transcription elongation factor NusA [Streptomyces griseus subsp.
           griseus NBRC 13350]
 gi|326776240|ref|ZP_08235505.1| NusA antitermination factor [Streptomyces cf. griseus XylebKG-1]
 gi|178464122|dbj|BAG18642.1| putative transcriptional termination/antitermination factor
           [Streptomyces griseus subsp. griseus NBRC 13350]
 gi|326656573|gb|EGE41419.1| NusA antitermination factor [Streptomyces cf. griseus XylebKG-1]
          Length = 346

 Score =  393 bits (1010), Expect = e-107,   Method: Composition-based stats.
 Identities = 129/346 (37%), Positives = 200/346 (57%), Gaps = 22/346 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +++   +A +K I  DV++  +  ++  A     G+    RVE++   G ++++      
Sbjct: 5   VKLLKGLAQDKEIPFDVLVGAIESALLIAYHRTDGSHRRARVELD-ANGHVTVWAK---- 59

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
              E+      L+  ++                P  FGR+A  +AKQVI+Q++R+AE D+
Sbjct: 60  ---EDPA---DLEEGQEPK---------EFDDTPSGFGRIAATTAKQVILQRLRDAEDDK 104

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
            + E+    G++++G V++  +  NV+VD+G  + ++   E +  E    G R+++Y+  
Sbjct: 105 TFGEYAGHEGDVVTGVVQQGKDPKNVLVDIGKMEAMLPVQEQVPGEEYVHGLRLRTYVVR 164

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  RGP V LSRTHP  + KLF +EVPEI +G V ++A++R+ G R K+AV S+ + +
Sbjct: 165 VAKGVRGPSVTLSRTHPNLVKKLFALEVPEIADGSVVIEAIAREAGHRTKIAVRSTRAGL 224

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +P GAC+G  GSRV+ V+ EL  EKIDIV WS D A  V NAL PA V+KV V+D     
Sbjct: 225 NPKGACIGPMGSRVRNVMAELHGEKIDIVDWSEDPAEMVANALSPARVSKVEVVDLGARS 284

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
             V VP  QLSLAIG+ GQN RLA++LTGW IDI  + E    R+ 
Sbjct: 285 ARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTETDEEREN 330


>gi|254302278|ref|ZP_04969636.1| N utilization substance protein A [Fusobacterium nucleatum subsp.
           polymorphum ATCC 10953]
 gi|148322470|gb|EDK87720.1| N utilization substance protein A [Fusobacterium nucleatum subsp.
           polymorphum ATCC 10953]
          Length = 357

 Score =  393 bits (1010), Expect = e-107,   Method: Composition-based stats.
 Identities = 130/356 (36%), Positives = 218/356 (61%), Gaps = 4/356 (1%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M + +    L+  D +  EK I ++ VL  +  ++  A +  YG   ++ V ++ E GDI
Sbjct: 1   MKAKDSKNFLEALDELEREKGISKESVLEAIELALLAAYKKNYGEDENVEVVVDRENGDI 60

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            +F    +V  +E+ +   +ISL+ A+     I +G  +   +   DF R AVQ+ KQ++
Sbjct: 61  KVFASKIIVNTDELLDPNKEISLEDAKQIKKRIKVGDTLKFEVNCEDFRRNAVQNGKQIV 120

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLR 177
           IQKVREAER+  + +FK++   I++G ++R++   N+ +++   + ++   E    +  R
Sbjct: 121 IQKVREAEREHIFNKFKEREDSIVTGIIRRIDNRKNIFIEIDGIELILPPAEQSVSDVYR 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+R+K Y+  V +  + P++L+SR +   + KLF +E+PEI +GI+++K+V+R+ GSRA
Sbjct: 181 VGERIKVYVLSVEKTNKFPKILISRKNEGLLKKLFEIEIPEITSGIIEIKSVAREAGSRA 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV+S   +ID VGAC+G RG+R++ +V EL  E+IDIV W P    FV   L PA+V+
Sbjct: 241 KVAVYSEVPNIDTVGACIGQRGARIKNIVDELNGERIDIVEWKPVVEEFVSAVLSPAVVS 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
            V + ED G   V+V   QLSLAIG+ GQN RLA++LTG  +DI   E +++  ++
Sbjct: 301 NVTILED-GTARVLVAPSQLSLAIGKNGQNARLAARLTGMRVDIKVIENETLKEEE 355


>gi|282861439|ref|ZP_06270504.1| NusA antitermination factor [Streptomyces sp. ACTE]
 gi|282564097|gb|EFB69634.1| NusA antitermination factor [Streptomyces sp. ACTE]
          Length = 343

 Score =  393 bits (1010), Expect = e-107,   Method: Composition-based stats.
 Identities = 130/345 (37%), Positives = 201/345 (58%), Gaps = 22/345 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +++   +A +K I  DV++  +  ++  A     G+    RVE++   G ++++      
Sbjct: 5   VKLLKGLAQDKEIPFDVLVGAIESALLIAYHRTEGSHRRARVELD-AAGHVTVWAK---- 59

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
              E+       + A++ D              P  FGR+A  +AKQVI+Q++R+AE DR
Sbjct: 60  ---EDPADLEEGQEAKEFDD------------TPSGFGRIAASTAKQVILQRLRDAEDDR 104

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
            + E+    G++++G V++  +  NV+VD+G  + ++   E +  E    G R+++Y+  
Sbjct: 105 TFGEYAGHEGDVVTGLVQQGKDPKNVLVDIGKLEAILPVQEQVPGEEYTHGLRLRTYVVR 164

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  RGP V LSRTHP  + KLF +EVPEI +G V ++A++R+ G R K+AV S+ + +
Sbjct: 165 VAKGVRGPSVTLSRTHPNLVKKLFALEVPEIADGSVVIEAIAREAGHRTKIAVRSTRAGL 224

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +P GAC+G  GSRV+ V+ EL  EKIDIV WS D A  V NAL PA V++V V+D     
Sbjct: 225 NPKGACIGPMGSRVRNVMAELHGEKIDIVDWSDDPAEMVANALSPARVSEVEVVDLGARS 284

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
             V VP  QLSLAIG+ GQN RLA++LTGW IDI  + E    R+
Sbjct: 285 ARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTETDEERE 329


>gi|25010487|ref|NP_734882.1| transcription elongation factor NusA [Streptococcus agalactiae
           NEM316]
 gi|76788260|ref|YP_329098.1| transcription elongation factor NusA [Streptococcus agalactiae
           A909]
 gi|161485616|ref|NP_687412.2| transcription elongation factor NusA [Streptococcus agalactiae
           2603V/R]
 gi|23094840|emb|CAD46058.1| Unknown [Streptococcus agalactiae NEM316]
 gi|76563317|gb|ABA45901.1| transcription termination factor NusA [Streptococcus agalactiae
           A909]
          Length = 383

 Score =  393 bits (1010), Expect = e-107,   Method: Composition-based stats.
 Identities = 126/367 (34%), Positives = 210/367 (57%), Gaps = 15/367 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  EK I+++ ++  + +S++ A +  YG      +E N +  D +++ +
Sbjct: 2   SKEMLEAFRILEEEKHINKEDIIDAVTESLKSAYKRRYGQSESCVIEFNEKKADFTVYTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R  
Sbjct: 62  REVVDEVFDSRLEISLKDALAISSAYELGDKIRFEESVTEFGRVAAQSAKQTIMEKMRRQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R+  + E+K   GEI++GTV+R +   + V+LG+ +  +   + I  E+ +  D +  Y
Sbjct: 122 MREVTFNEYKQHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGESFKSHDMIDVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S +
Sbjct: 182 VYKVENNPKGVNVFVSRSHPEFIKRIMEREIPEVFDGTVEIMSVSREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
           S++D +G  VG  GS ++ V++                 +E ID++ W  D A F+ NA+
Sbjct: 242 SNVDAIGTIVGRGGSNIKKVISNFHPKRVDAKTGLEIPVEENIDVIQWVEDPAEFIYNAI 301

Query: 292 RPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V  V+  DED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDMVLFDDEDTKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEYEKM 361

Query: 351 RQKDFNE 357
             ++   
Sbjct: 362 EAQELQT 368


>gi|269303191|gb|ACZ33291.1| transcription termination factor NusA [Chlamydophila pneumoniae
           LPCoLN]
          Length = 434

 Score =  393 bits (1010), Expect = e-107,   Method: Composition-based stats.
 Identities = 145/430 (33%), Positives = 233/430 (54%), Gaps = 9/430 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
              L+ I D +  EK I R  ++  +  +++ AA+      ++I V IN  TGDI +F  
Sbjct: 2   NKNLVAIFDYMEKEKGIQRSTIIGAIESALKIAAKKTLRDDANISVNINSRTGDIEVFCE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            E+VE  +N + +I L  AR+ DP   IG  +  P    +FGR+A  +A+Q+I QK+R A
Sbjct: 62  KEIVEICQNPSKEIPLDKAREYDPDCQIGQYMDVPFVSDNFGRIAAHAARQIIGQKLRHA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           ERD  Y E++ +V EI+SG VKR   G N+I+DLG  + ++        E  + GD++ +
Sbjct: 122 ERDVIYEEYRHRVNEILSGVVKRFAKGSNLIIDLGKVEAILPTRFYPKTEKHKIGDKIYA 181

Query: 185 YIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            +Y+V   E  G +V+LSR+H +F+ +LF  EVPE+  G V++  ++R+ G R KLAV S
Sbjct: 182 LLYEVQESENGGAEVILSRSHAEFVKQLFIQEVPELEEGSVEIVKIAREAGYRTKLAVRS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           SD   DPVGA VGMRGSRV+ ++ EL DEKIDIV +SP S   + N L P  + K+ + E
Sbjct: 242 SDPKTDPVGAFVGMRGSRVKNIIRELNDEKIDIVNYSPVSTELLQNLLYPIEIQKIAILE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI-------NRQKDFN 356
           D   I ++V     +  IG+RG N RL SQ+  + +++    E +           +  +
Sbjct: 302 DDKVIAIVVNDADYATVIGKRGINARLISQILDYELEVQRMSEYNKLLEIQRLQLAEFDS 361

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
                 ++   + +++   L   G+  +  +     +++AS+ G   E A +I  +  +Y
Sbjct: 362 PHLDQPLEMEGISKLVIQNLEHAGYDTIRRVLLASANDLASVPGISLELAYKILEQVSKY 421

Query: 417 LEGIDITLQK 426
            E       +
Sbjct: 422 GESKVDEKPE 431


>gi|194398628|ref|YP_002037214.1| transcription elongation factor NusA [Streptococcus pneumoniae G54]
 gi|194358295|gb|ACF56743.1| transcription termination factor NusA [Streptococcus pneumoniae
           G54]
          Length = 378

 Score =  393 bits (1010), Expect = e-107,   Method: Composition-based stats.
 Identities = 128/380 (33%), Positives = 218/380 (57%), Gaps = 18/380 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ +
Sbjct: 2   SKEMLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 62  REVVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y
Sbjct: 122 TRAITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S +
Sbjct: 182 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGANIKKITSKFHPARYDAKNDRMVPIEENIDVIEWVADPAEFIYNAI 301

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ DE+   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDQVIFDENDSKRALVVVPXNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEFEAM 361

Query: 351 RQKDFNERTQFFMQAINVDE 370
              +     +  ++   V+E
Sbjct: 362 ---EDAASVELEVENDTVEE 378


>gi|325299860|ref|YP_004259777.1| NusA antitermination factor [Bacteroides salanitronis DSM 18170]
 gi|324319413|gb|ADY37304.1| NusA antitermination factor [Bacteroides salanitronis DSM 18170]
          Length = 423

 Score =  393 bits (1010), Expect = e-107,   Method: Composition-based stats.
 Identities = 135/414 (32%), Positives = 230/414 (55%), Gaps = 8/414 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L+         K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD  ++R  EV
Sbjct: 10  LIDTFSEFKELKNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDFEIWRNREV 69

Query: 69  V--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           V  E+  N   QISL  AR  D S ++G  V+D +    FGR A+ + +Q +  K+ E E
Sbjct: 70  VADEDFANPNRQISLTEARKIDASYEVGEEVTDEVIFEKFGRRAILNLRQTLASKILELE 129

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRVKSY 185
           +D  Y ++ D+VG II+  V ++    +++ D   ++ ++ + E I  +  R G+ V++ 
Sbjct: 130 KDSLYNKYIDRVGTIIAAEVYQIWKKEILLLDDEGNELLLPKAEQIPSDFYRKGETVRAV 189

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  +   P+++LSRT P+F+ +LF  EVPEI +G++ +K ++R PG RAK+AV S D
Sbjct: 190 VARVDNKNNNPKIILSRTAPEFLQRLFEQEVPEINDGLITIKKIARIPGERAKIAVESYD 249

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVGACVG++GSR+  +V ELR+E ID++ ++ +   F+  AL PA V+ +V+ E+ 
Sbjct: 250 DRIDPVGACVGVKGSRIHGIVRELRNENIDVINYTSNIQLFIQRALSPATVSSIVMHEEE 309

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            R EV +  E++SLAIG+ G N++LAS LT +TID+  E +++     D +     F   
Sbjct: 310 KRAEVYLKPEEVSLAIGKGGMNIKLASMLTEYTIDVYREVDENAV---DEDIYLDEFKD- 365

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             +D  +   +   G    + +       +      +E T  ++    +   E 
Sbjct: 366 -EIDGWVIDAIKGIGIETAKGVLNAPREMLIEKADLEENTVDDVLRILKAEFEE 418


>gi|19705318|ref|NP_602813.1| transcription elongation factor NusA [Fusobacterium nucleatum
           subsp. nucleatum ATCC 25586]
 gi|296328566|ref|ZP_06871085.1| transcription termination factor NusA [Fusobacterium nucleatum
           subsp. nucleatum ATCC 23726]
 gi|19713289|gb|AAL94112.1| N utilization substance protein A [Fusobacterium nucleatum subsp.
           nucleatum ATCC 25586]
 gi|296154375|gb|EFG95174.1| transcription termination factor NusA [Fusobacterium nucleatum
           subsp. nucleatum ATCC 23726]
          Length = 357

 Score =  393 bits (1010), Expect = e-107,   Method: Composition-based stats.
 Identities = 128/356 (35%), Positives = 218/356 (61%), Gaps = 4/356 (1%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M + +    L+  D +  EK I ++ VL  +  ++  A +  YG   ++ V ++ E GDI
Sbjct: 1   MKAKDSKNFLEALDELEREKGISKESVLEAIELALLAAYKKNYGEDENVEVIVDRENGDI 60

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            +F    +V  +++ +   +ISL+ A+     + +G  +   +   DF R AVQ+ KQ++
Sbjct: 61  KVFASKIIVNADDLLDPNKEISLEDAKKIKKRVKVGDTLKFEVNCEDFRRNAVQNGKQIV 120

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLR 177
           IQKVREAER+  + +FK++   I++G ++R++   N+ +++   + ++   E    +  R
Sbjct: 121 IQKVREAEREHIFNKFKEREDSIVTGIIRRIDNRKNIFIEIDGIELILPPAEQSISDVYR 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+R+K YI  V +  + P++L+SR +   + KLF +E+PEI +GI+++K+V+R+ GSRA
Sbjct: 181 VGERIKVYILSVEKTNKFPKILISRKNEGLLKKLFEIEIPEITSGIIEIKSVAREAGSRA 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV+S   +ID VGAC+G RG+R++ +V EL  E+IDIV W P    FV   L PA+V+
Sbjct: 241 KVAVYSEVPNIDTVGACIGQRGARIKNIVDELNGERIDIVEWKPVIEEFVSAVLSPAVVS 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
            V + ED G   V+V   QLSLAIG+ GQN RLA++LTG  +DI   + +++  ++
Sbjct: 301 NVTILED-GTARVLVEPSQLSLAIGKNGQNARLAARLTGMRVDIKVIDSEALKEEE 355


>gi|218264757|ref|ZP_03478469.1| hypothetical protein PRABACTJOHN_04178 [Parabacteroides johnsonii
           DSM 18315]
 gi|218221806|gb|EEC94456.1| hypothetical protein PRABACTJOHN_04178 [Parabacteroides johnsonii
           DSM 18315]
          Length = 424

 Score =  393 bits (1010), Expect = e-107,   Method: Composition-based stats.
 Identities = 138/429 (32%), Positives = 241/429 (56%), Gaps = 12/429 (2%)

Query: 4   ANRLELLQIADAVA--YE-KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           A + E + + D +A   E K+ID+D ++SV+ DS +     ++GT  +  V INPE GD 
Sbjct: 2   AKKEETISMIDTLAEFKELKNIDKDTMISVLEDSFRNVIAKMFGTDENYDVIINPEKGDF 61

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R   VV  +E+E+   Q++L  AR  D   ++G  V+D +   DFGR A+ + +Q +
Sbjct: 62  EIWRNRTVVADDELEDENLQLTLTEARKIDADCEVGEEVTDEVHFADFGRRAILNLRQTL 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLR 177
             K+ E ++D  + ++KDK+G II+  V +V    +++ D   ++ ++ + E I  +  R
Sbjct: 122 ASKILELQKDSLFAKYKDKIGNIIAADVYQVWKKEILLLDDEGNELLLPKTEQIPTDFYR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+ V++ +  V      P+++LSRT   F+ +LF +EVPEI +G++ +KA++R PG RA
Sbjct: 182 KGETVRAIVQRVDNYNNNPKIILSRTDKLFLQRLFELEVPEINDGLITIKAIARIPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVGM+GSR+  +V ELR+E ID++ ++ + + F+  AL PA ++
Sbjct: 242 KIAVESYDDRIDPVGACVGMKGSRIHGIVRELRNENIDVINYTSNISLFIQRALSPAKIS 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            + ++E+  + EV +  +++SLAIG+ G N++LA  LT + ID+  + E +     + + 
Sbjct: 302 SIRVNEEERKAEVYLHPDEVSLAIGKGGLNIKLACMLTEYAIDVFRDLEGA----DEEDI 357

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F     +D  +   L   G    + +  +   EI      +E+T  E+        
Sbjct: 358 YLDEFSD--EIDSWVIEALKNIGCYTAKSVLAMSREEIIERADLEEQTVDEVLAILSAEF 415

Query: 418 EGIDITLQK 426
           E      Q+
Sbjct: 416 EEEQDETQE 424


>gi|327472754|gb|EGF18181.1| N utilization substance protein A [Streptococcus sanguinis SK408]
          Length = 420

 Score =  393 bits (1010), Expect = e-107,   Method: Composition-based stats.
 Identities = 141/428 (32%), Positives = 230/428 (53%), Gaps = 28/428 (6%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ +
Sbjct: 4   SKEMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTV 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 64  REVVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ +
Sbjct: 124 TRAITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVF 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S +
Sbjct: 184 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHN 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 244 PNVDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAI 303

Query: 292 RPAIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 304 APAEVDQVIFNQEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDIKSATEFEEM 363

Query: 351 RQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
              +       F Q    +EI+A   V E          V  +E    +   EET +E  
Sbjct: 364 ---EAANELGGFAQ--EAEEILADADVLE--------TEVSAAEATDFDAVAEETVLETA 410

Query: 411 GRAREYLE 418
           G   E  E
Sbjct: 411 GLESEAEE 418


>gi|195977581|ref|YP_002122825.1| transcription elongation factor NusA [Streptococcus equi subsp.
           zooepidemicus MGCS10565]
 gi|225869110|ref|YP_002745058.1| N utilization substance protein A [Streptococcus equi subsp.
           zooepidemicus]
 gi|225869938|ref|YP_002745885.1| N utilization substance protein A [Streptococcus equi subsp. equi
           4047]
 gi|195974286|gb|ACG61812.1| transcription termination protein NusA [Streptococcus equi subsp.
           zooepidemicus MGCS10565]
 gi|225699342|emb|CAW92741.1| putative N utilization substance protein A [Streptococcus equi
           subsp. equi 4047]
 gi|225702386|emb|CAX00230.1| putative N utilization substance protein A [Streptococcus equi
           subsp. zooepidemicus]
          Length = 384

 Score =  393 bits (1010), Expect = e-107,   Method: Composition-based stats.
 Identities = 128/370 (34%), Positives = 209/370 (56%), Gaps = 15/370 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  EK ID+  ++  + +S++ A +  YG      +E N +T D  +F +
Sbjct: 2   SKEMLEAFRILEEEKHIDKADIIEAVTESLKSAYKRRYGQAESCVIEFNDKTADFQVFTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEV +   +ISL  A     + ++G  +       +FGRVA QSAKQ I++++R  
Sbjct: 62  REVVEEVFDSRLEISLNDALAISSAYELGDKIRFEESVSEFGRVAAQSAKQTIMERMRRQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R+  + E+K   GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR+  Y
Sbjct: 122 MREITFNEYKQHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIDVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S +
Sbjct: 182 VYKVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGSNIKKVISKFHPKRYDAKTGLEIPVEENIDVIQWVDDPAEFIYNAI 301

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V  V+ D+D   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDMVLFDDDDLKRATVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEYERL 361

Query: 351 RQKDFNERTQ 360
             +     T+
Sbjct: 362 EAEKEAAMTE 371


>gi|237742964|ref|ZP_04573445.1| transcription elongation factor NusA [Fusobacterium sp. 4_1_13]
 gi|256846936|ref|ZP_05552390.1| transcription termination factor NusA [Fusobacterium sp. 3_1_36A2]
 gi|229430612|gb|EEO40824.1| transcription elongation factor NusA [Fusobacterium sp. 4_1_13]
 gi|256717734|gb|EEU31293.1| transcription termination factor NusA [Fusobacterium sp. 3_1_36A2]
          Length = 357

 Score =  393 bits (1010), Expect = e-107,   Method: Composition-based stats.
 Identities = 129/356 (36%), Positives = 218/356 (61%), Gaps = 4/356 (1%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M + +    L+  D +  EK I ++ VL  +  ++  A +  YG   ++ V ++   GDI
Sbjct: 1   MKAKDSKNFLEALDELEREKGISKESVLEAIELALLAAYKKNYGEDENVEVVVDRANGDI 60

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            +F    VV+   + +   +ISL+ A+     + IG V+   +   +F R AVQ+ KQ++
Sbjct: 61  KVFASKTVVDADNLLDPNEEISLEDAKQIKKRVKIGDVLKFEVDCENFRRNAVQNGKQIV 120

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLR 177
           IQKVREAER+  + +FK++   I++G ++R++   N+ +++   + ++   E    +  R
Sbjct: 121 IQKVREAEREHIFNKFKEREDNIVTGIIRRIDNRKNIFIEIDGIELILPPAEQSLSDVYR 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+R+K YI  V +  + P++L+SR +   + KLF +E+PEI +GI+++K+V+R+ GSRA
Sbjct: 181 VGERIKVYILSVEKTNKFPKILISRKNEGLLKKLFEIEIPEITSGIIEIKSVAREAGSRA 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV+S+  +ID VGAC+G RG+R++ +V EL  E+IDIV W P    FV   L PA+V+
Sbjct: 241 KVAVYSAVPNIDTVGACIGQRGARIKNIVDELNGERIDIVEWKPVVEEFVSAVLSPAVVS 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
            V + ED G   V+V   QLSLAIG+ GQN RLA++LTG  +DI   + +++  ++
Sbjct: 301 NVTILED-GTARVLVEPSQLSLAIGKNGQNARLAARLTGMRVDIKVIDNETLKEEE 355


>gi|262282171|ref|ZP_06059940.1| transcription termination factor NusA [Streptococcus sp. 2_1_36FAA]
 gi|262262625|gb|EEY81322.1| transcription termination factor NusA [Streptococcus sp. 2_1_36FAA]
          Length = 413

 Score =  393 bits (1010), Expect = e-107,   Method: Composition-based stats.
 Identities = 123/361 (34%), Positives = 206/361 (57%), Gaps = 15/361 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L     +  +K I ++ ++  + +S++ A R  YG      ++ + + GD  ++ +
Sbjct: 2   SKEMLDAFRILEEDKGIKKEDIIDAVKESLRSAYRRRYGQADSALIDFDEKKGDFHVYTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 62  REVVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ +
Sbjct: 122 TRTITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVF 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S +
Sbjct: 182 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGANIKKITSKFHPAKYDAKSDRMVPVEENIDVIEWVADPAEFIYNAI 301

Query: 292 RPAIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDQVIFNAEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEFEAM 361

Query: 351 R 351
            
Sbjct: 362 E 362


>gi|298242762|ref|ZP_06966569.1| transcription termination factor NusA [Ktedonobacter racemifer DSM
           44963]
 gi|297555816|gb|EFH89680.1| transcription termination factor NusA [Ktedonobacter racemifer DSM
           44963]
          Length = 374

 Score =  392 bits (1009), Expect = e-107,   Method: Composition-based stats.
 Identities = 143/342 (41%), Positives = 216/342 (63%), Gaps = 8/342 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
           R E       +  EK + R+VV+  +A+++  A R  +G   ++R+E++ + G++ ++  
Sbjct: 2   RSEFQAAIAQLIAEKGLPREVVMETVANALLAAYRKSFGGGENVRIEVD-KNGEVHVWAS 60

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV +V +   +ISL  A+   P+  +G ++        F R+  Q+AKQVI+Q++REA
Sbjct: 61  KRVVAQVNDSNEEISLAEAQRLVPNAALGQLLDVD-SSFIFSRIPTQTAKQVILQRIREA 119

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVD-----LGNSDGVIRRDETISRENLRPGD 180
           E +  Y + K  VGEI  GT+ R E    +VD     +   +G++   ETI  E+ R   
Sbjct: 120 EHEHLYEQVKGWVGEIRLGTLIREEQRGWVVDFDLDKVDKVEGLMPISETIPGEHYRMKQ 179

Query: 181 RVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           R++ YIYDVRR + R  Q+L+SRTH   + +LF  EVPEIY+G V++KA++R+PGSRAK+
Sbjct: 180 RLRLYIYDVRRIQGRMLQILVSRTHRDLVRRLFENEVPEIYDGSVEIKAITREPGSRAKV 239

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV++    +DP+G+CVG+RG R+  +V EL DEKIDI+ WSPD+A+FV NAL P    KV
Sbjct: 240 AVYARQEGLDPIGSCVGVRGQRISNIVRELNDEKIDIIQWSPDTASFVANALSPVKPLKV 299

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            L +      V VP+ QLSLAIG+ GQN RLA++LTGW +D+
Sbjct: 300 ELRDSDHTAIVTVPERQLSLAIGKDGQNARLAAKLTGWRVDV 341


>gi|116514302|ref|YP_813208.1| transcription elongation factor NusA [Lactobacillus delbrueckii
           subsp. bulgaricus ATCC BAA-365]
 gi|116093617|gb|ABJ58770.1| Transcription elongation factor [Lactobacillus delbrueckii subsp.
           bulgaricus ATCC BAA-365]
          Length = 406

 Score =  392 bits (1009), Expect = e-107,   Method: Composition-based stats.
 Identities = 140/377 (37%), Positives = 222/377 (58%), Gaps = 8/377 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+  D +   K I +DV++  M  ++  A +  YG   ++ ++ N + GD  +  L
Sbjct: 2   SKEMLEAFDVLEKTKGIKQDVIVEAMKAALAAAYKKNYGLAENVEIDFNEKKGDFKVMAL 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   ++SLK A   + + ++G  +   + P +FGR A  +AKQV++Q++REA
Sbjct: 62  KTVVDEVQDDRVEVSLKDALAINRAYEVGDTIKFEVTPKNFGRTAAATAKQVVMQRLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVI-RRDETISRENLRPGDRVKS 184
           E      E+     E+++GTV+R +   V V++GN + V+  + +TI  E+  P DRV+ 
Sbjct: 122 ENAHIVNEYSQYEDELVTGTVERTDNRFVYVNIGNVEAVMDIKCDTIPGEHYNPQDRVRV 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V  + +G Q+ +SRT P  + + F  EVPEI++G V++ +++R+ G R K+AV S+
Sbjct: 182 LVTKVGADGKGAQIRVSRTAPDVVKRFFEQEVPEIFDGTVEIMSIAREAGERTKIAVKSN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--D 302
           D +IDPVG CVG RGSRVQ VV  L  E IDIV +  D + ++ NAL PA V  V    +
Sbjct: 242 DPNIDPVGTCVGPRGSRVQNVVNALGGENIDIVQYEEDPSDYIANALNPAEVIAVQFEDE 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           +D  +  VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E     + +  + T+  
Sbjct: 302 DDKRKAFVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESEVEFVDESEVEDETEVA 361

Query: 363 MQAINVDEIIAHLLVAE 379
                 D+ +    V E
Sbjct: 362 E-----DQDLQQAAVEE 373


>gi|282879392|ref|ZP_06288135.1| transcription termination factor NusA [Prevotella buccalis ATCC
           35310]
 gi|281298505|gb|EFA90931.1| transcription termination factor NusA [Prevotella buccalis ATCC
           35310]
          Length = 421

 Score =  392 bits (1009), Expect = e-107,   Method: Composition-based stats.
 Identities = 140/414 (33%), Positives = 231/414 (55%), Gaps = 8/414 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           ++         K+IDR  ++SV+ +S +     +YG+  +  V +NP+ GD  ++R   V
Sbjct: 13  MIDTFREFKDTKNIDRATLVSVLEESFRNVLAKIYGSDENFDVIVNPDKGDFEIYRNRIV 72

Query: 69  VE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           V   EV +   +ISLK AR+ +   + G  VS+ +    FGR A+ + +Q +  KV E E
Sbjct: 73  VPDGEVADENKEISLKEAREIEDDYEEGEEVSEQIDFAKFGRRAILNLRQTLKSKVLELE 132

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            D  Y ++KD+VG++ISG V ++    V+ VD  N++ ++ + E I  +  R G+ +++ 
Sbjct: 133 HDSLYNKYKDRVGQVISGEVYQIWKREVLLVDDENNELILPKSEQIPADQYRKGETIRAV 192

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V  E   P+++LSRT P F+ +L   EVPEI +G++ +K ++R PG RAK+AV S D
Sbjct: 193 ILRVDNENNNPKIILSRTSPVFLERLLEAEVPEINDGLISIKKIARMPGERAKVAVESYD 252

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVGACVG++GSRV  +V EL +E ID++ ++ +   F+  AL PA ++ + LDE+ 
Sbjct: 253 DRIDPVGACVGVKGSRVHGIVRELCNENIDVINYTSNIKLFIQRALSPARISSINLDEEN 312

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            + EV +  E++SLAIGR G N++LAS LT +TID+  E  D+     D +   + F   
Sbjct: 313 RKAEVYLQPEEVSLAIGRGGLNIKLASMLTEFTIDVYREVSDA---DADEDIYLEEFND- 368

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             +D+ I   +   G    +++       +      +EET   +    +   E 
Sbjct: 369 -EIDQWIIDAIKGIGLDTAKQVLNAPREMLIEKADLEEETVDHLIRVLKSEFEQ 421


>gi|240172759|ref|ZP_04751418.1| transcription elongation factor NusA [Mycobacterium kansasii ATCC
           12478]
          Length = 347

 Score =  392 bits (1009), Expect = e-107,   Method: Composition-based stats.
 Identities = 130/361 (36%), Positives = 201/361 (55%), Gaps = 31/361 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  ++ I  + +L  +  ++  A R   G  +D R+EI+ ++G + +       
Sbjct: 5   MAALHAIEVDRGISVNELLETIKSALLSAYRHTQGHQTDARIEIDRKSGVVRV------- 57

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                        +AR+ D   ++     D   P  FGR+A  +A+QV++Q+ R+AE +R
Sbjct: 58  -------------IARELDDEGNLISEWDD--TPEGFGRIAATTARQVMLQRFRDAENER 102

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDR 181
            Y EF  + GEI++G ++R    N    V+V +G+    S+GVI   E +  E+   G+R
Sbjct: 103 TYGEFSTREGEIVAGVIQRDSRANARGLVVVRMGSETKASEGVIPAAEQVPGESYEHGNR 162

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ Y+  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV
Sbjct: 163 LRCYVVGVSRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAV 222

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            S+   ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V  V V
Sbjct: 223 RSNVPGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDEDPARFVANALSPAKVVSVSV 282

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +D++     V+VP  QLSLAIG+ GQN RLA++LTGW IDI  +       Q +      
Sbjct: 283 IDQNARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRGDSPAHPAGQPEQGASRG 342

Query: 361 F 361
            
Sbjct: 343 M 343


>gi|324991725|gb|EGC23657.1| N utilization substance protein A [Streptococcus sanguinis SK353]
          Length = 420

 Score =  392 bits (1009), Expect = e-107,   Method: Composition-based stats.
 Identities = 140/428 (32%), Positives = 230/428 (53%), Gaps = 28/428 (6%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ +
Sbjct: 4   SKEMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTV 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 64  REVVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + ++LG+ +  + + + I  E     DR++ +
Sbjct: 124 TRAITYNTYKEHENEIMSGTVERFDNRFIYINLGSIEAQLSKQDQIPGEVFASHDRIEVF 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S +
Sbjct: 184 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHN 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 244 PNVDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAI 303

Query: 292 RPAIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 304 APAEVDQVIFNQEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDIKSATEFEEM 363

Query: 351 RQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
              +       F Q    +EI+A   V E          V  +E    +   EET +E  
Sbjct: 364 ---EAANELGGFAQ--EAEEILADAAVLE--------TEVSAAEATDFDAAAEETVLETA 410

Query: 411 GRAREYLE 418
           G   E  E
Sbjct: 411 GLESEAEE 418


>gi|120403303|ref|YP_953132.1| transcription elongation factor NusA [Mycobacterium vanbaalenii
           PYR-1]
 gi|119956121|gb|ABM13126.1| NusA antitermination factor [Mycobacterium vanbaalenii PYR-1]
          Length = 333

 Score =  392 bits (1009), Expect = e-107,   Method: Composition-based stats.
 Identities = 132/354 (37%), Positives = 199/354 (56%), Gaps = 31/354 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  +K I  DVV+  +  ++  A R   G  +D  ++I+ +TG + +       
Sbjct: 1   MAALHAIEADKGISVDVVVDTIKSALLTAYRHTEGHEADAHIDIDRKTGAVKV------- 53

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                        +AR  D   ++     D   P  FGR+A  +A+QVI+Q++R+AE ++
Sbjct: 54  -------------IARQTDEDGNVLHEWDD--TPEGFGRIAATTARQVILQRLRDAENEK 98

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN----VIVDLG----NSDGVIRRDETISRENLRPGDR 181
            Y EF  + G+I++G ++R    N    V+V +G     S+GVI   E +  E    GDR
Sbjct: 99  NYGEFSAREGDIVAGVIQRDARANARGLVVVRMGSETKGSEGVIPAAEQVPGERYEHGDR 158

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ Y+  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV
Sbjct: 159 LRCYVVGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAV 218

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            +    ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V  V V
Sbjct: 219 ATRAPGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDEDPARFVANALSPAKVVSVTV 278

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
           +DE      VIVP  QLSLAIG+ GQN RLA++LTGW IDI +++       ++
Sbjct: 279 IDEAARAARVIVPDFQLSLAIGKEGQNARLAARLTGWRIDIRSDDAAKEGAVEE 332


>gi|297626628|ref|YP_003688391.1| Transcription termination/ antitermination factor NusA
           [Propionibacterium freudenreichii subsp. shermanii
           CIRM-BIA1]
 gi|296922393|emb|CBL56965.1| Transcription termination/ antitermination factor NusA
           [Propionibacterium freudenreichii subsp. shermanii
           CIRM-BIA1]
          Length = 352

 Score =  392 bits (1009), Expect = e-107,   Method: Composition-based stats.
 Identities = 138/338 (40%), Positives = 196/338 (57%), Gaps = 24/338 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+ +EK I  D ++  + D++  A            V +N  TG++S+      V
Sbjct: 5   MTALRALEHEKEIPLDYLVGTLEDALLNAYEKTEHPKPGAHVVLNRRTGEVSVM-----V 59

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
            EV               +   +  G   D   P DFGRVA  +A+QVI Q++REAE ++
Sbjct: 60  PEV---------------NDEGESVGEYDD--TPTDFGRVAASTARQVIFQRLREAEDEQ 102

Query: 130 QYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
           +Y +F    G+++ G V++      I VDLG+ + ++   E +  E+ + G R++ Y+  
Sbjct: 103 KYGKFSAVEGDVVMGVVQQDRGSKTIRVDLGDIEAIMPLAEQVPGEDYKHGTRLRVYVVT 162

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           VR+E RGPQV++SRTHP  + KLF +EVPEI  G+V+VKA++R+ G R K+AV S +  +
Sbjct: 163 VRKEARGPQVVVSRTHPNLVKKLFELEVPEIEQGVVEVKAIARESGHRTKIAVVSHNPDV 222

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
              GAC+G  G RV+AV+ EL DEKIDI+ WS D A FV NAL PA   KV V+D     
Sbjct: 223 SAKGACIGPMGQRVRAVMRELNDEKIDIIDWSADPAEFVANALSPAKALKVTVVDAGARA 282

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
             VIVP  QLSLAIGR GQN RLA++LTGW IDI  + 
Sbjct: 283 ARVIVPDYQLSLAIGREGQNARLAARLTGWRIDIRPDT 320


>gi|324994121|gb|EGC26035.1| N utilization substance protein A [Streptococcus sanguinis SK678]
          Length = 420

 Score =  392 bits (1009), Expect = e-107,   Method: Composition-based stats.
 Identities = 138/418 (33%), Positives = 227/418 (54%), Gaps = 28/418 (6%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ +
Sbjct: 4   SKEMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTV 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 64  REVVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ +
Sbjct: 124 TRAITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVF 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S +
Sbjct: 184 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHN 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 244 PNVDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAI 303

Query: 292 RPAIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 304 APAEVDQVIFNQEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDIKSATEFEEM 363

Query: 351 RQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVE 408
              +       F Q    +EI+A   V E          V  +E    +   EET +E
Sbjct: 364 ---EAANELGGFAQ--EAEEILADAAVLE--------TEVSAAEATDFDAAAEETVLE 408


>gi|257463891|ref|ZP_05628277.1| transcription elongation factor NusA [Fusobacterium sp. D12]
 gi|317061420|ref|ZP_07925905.1| transcription elongation factor NusA [Fusobacterium sp. D12]
 gi|313687096|gb|EFS23931.1| transcription elongation factor NusA [Fusobacterium sp. D12]
          Length = 353

 Score =  392 bits (1008), Expect = e-107,   Method: Composition-based stats.
 Identities = 131/345 (37%), Positives = 211/345 (61%), Gaps = 3/345 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M + +    L+  + +  EK I ++ +L  +  ++  A +  YG   ++ V I+ E GD+
Sbjct: 1   MTNKDAKAFLEALNELEKEKGIAKESLLQAVEQALLTAYKKNYGDEENVEVIIDRENGDV 60

Query: 61  SLFRLLEVVEEVE--NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++ +  VVEE +  +   +ISL+ AR       +G  +   +    F R A+Q+ KQ+I
Sbjct: 61  KVYEVKTVVEEEDLYDAALEISLEEARKISRKAKLGEEIRIEVDCESFRRNAIQNGKQII 120

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLR 177
           IQKVREAER+  Y  FK + GEI++G ++R+ E  NV ++ G  + ++   E    +  +
Sbjct: 121 IQKVREAERENIYDRFKAQEGEILTGIIRRIDERKNVFIEFGGIETILTAGEQCISDRYK 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+R+K Y+ +V +  + P++++SR H   + KLF +E+PEI +G++++KAV+R+ GSRA
Sbjct: 181 VGNRIKVYLVEVEKTNKFPKIVISRRHEGLLRKLFELEIPEISSGVIEIKAVAREAGSRA 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV+S  ++ID VGAC+G + SR++ +V EL  EKIDIV+W  +   FV   L PA V 
Sbjct: 241 KVAVYSELANIDIVGACIGQKRSRIKNIVDELGGEKIDIVIWKENMEEFVSAVLSPAKVN 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
            V L ED     V+V + QLSLAIG+ GQN RLA++LTG  +DI 
Sbjct: 301 SVELLEDGETARVLVDESQLSLAIGKSGQNARLAAKLTGMRVDIK 345


>gi|310778372|ref|YP_003966705.1| transcription termination factor NusA [Ilyobacter polytropus DSM
           2926]
 gi|309747695|gb|ADO82357.1| transcription termination factor NusA [Ilyobacter polytropus DSM
           2926]
          Length = 356

 Score =  392 bits (1008), Expect = e-107,   Method: Composition-based stats.
 Identities = 135/356 (37%), Positives = 210/356 (58%), Gaps = 4/356 (1%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD-IRVEINPETGD 59
           M S +    L+    +  EK I ++ ++  +  ++  A +  YG     I VEIN E+GD
Sbjct: 1   MKSKDAKVFLEALTELEKEKGISKESLIETVEQALLAAYKKHYGEEDSSIEVEINRESGD 60

Query: 60  ISLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQV 117
           + ++ +  VVE  ++ +  C+I L+ A        +G V+   +   +F R A+Q+ KQ+
Sbjct: 61  VKVYEIKTVVEAEDLYDSACEIILEDALLEKKRAKVGDVLKIEVNCEEFRRNAIQNGKQI 120

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENL 176
           +IQKVREAER   + +FK +  +II+G ++R++   N+ ++    + ++   E    +  
Sbjct: 121 VIQKVREAERQFVFDKFKSREKDIINGIIRRIDDRRNIFIEFDGIEAMLPIVEQSPSDVY 180

Query: 177 RPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
           R GDR+K Y+ +V +  R P++L+SR H   + KLF +E+PEI +G++++KAV+R+ GSR
Sbjct: 181 RVGDRLKVYVVEVEKTSRFPKILISRKHEGLLKKLFELEIPEIEDGLIEIKAVAREAGSR 240

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           AK+AV+S +  ID VGAC+G +G R++ VV EL  EKIDIV W      FV  AL PA V
Sbjct: 241 AKVAVYSENKEIDTVGACIGQKGLRIKNVVNELNGEKIDIVEWLDSQEEFVSAALSPAKV 300

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
             V + ED     VIV   QLSLAIG+ GQN RLA++LTG  +DI T E  +    
Sbjct: 301 MSVEVLEDQVTARVIVDTSQLSLAIGKNGQNARLAAKLTGMRVDIKTPEAAAEEEN 356


>gi|332362937|gb|EGJ40726.1| N utilization substance protein A [Streptococcus sanguinis SK49]
          Length = 420

 Score =  392 bits (1008), Expect = e-107,   Method: Composition-based stats.
 Identities = 141/428 (32%), Positives = 230/428 (53%), Gaps = 28/428 (6%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ +
Sbjct: 4   SKEMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTV 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 64  REVVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPTEFGRVAAQSAKQTIMEKMRKQ 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ +
Sbjct: 124 TRAITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVF 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S +
Sbjct: 184 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHN 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 244 PNVDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAI 303

Query: 292 RPAIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 304 APAEVDQVIFNQEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDIKSATEFEEM 363

Query: 351 RQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
              +       F Q    +EI+A   V E          V  +E    +   EET +E  
Sbjct: 364 ---EAANELGGFAQ--EAEEILADADVLE--------TEVSAAEATDFDAAAEETVLETA 410

Query: 411 GRAREYLE 418
           G   E  E
Sbjct: 411 GLESEAEE 418


>gi|319744370|gb|EFV96730.1| transcription termination factor NusA [Streptococcus agalactiae
           ATCC 13813]
          Length = 386

 Score =  392 bits (1008), Expect = e-107,   Method: Composition-based stats.
 Identities = 126/367 (34%), Positives = 210/367 (57%), Gaps = 15/367 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  EK I+++ ++  + +S++ A +  YG      +E N +  D +++ +
Sbjct: 5   SKEMLEAFRILEEEKHINKEDIIDAVTESLKSAYKRRYGQSESCVIEFNEKKADFTVYTV 64

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R  
Sbjct: 65  REVVDEVFDSRLEISLKNALAISSAYELGDKIRFEESVTEFGRVAAQSAKQTIMEKMRRQ 124

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R+  + E+K   GEI++GTV+R +   + V+LG+ +  +   + I  E+ +  D +  Y
Sbjct: 125 MREVTFNEYKQHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGESFKSHDMIDVY 184

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S +
Sbjct: 185 VYKVENNPKGVNVFVSRSHPEFIKRIMEREIPEVFDGTVEIMSVSREAGDRTKVAVRSHN 244

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
           S++D +G  VG  GS ++ V++                 +E ID++ W  D A F+ NA+
Sbjct: 245 SNVDAIGTIVGRGGSNIKKVISNFHPKRVDAKTGLEIPVEENIDVIQWVEDPAEFIYNAI 304

Query: 292 RPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V  V+  DED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 305 APAEVDMVLFDDEDTKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEYEKM 364

Query: 351 RQKDFNE 357
             ++   
Sbjct: 365 EAQELQT 371


>gi|152965409|ref|YP_001361193.1| NusA antitermination factor [Kineococcus radiotolerans SRS30216]
 gi|151359926|gb|ABS02929.1| NusA antitermination factor [Kineococcus radiotolerans SRS30216]
          Length = 339

 Score =  392 bits (1008), Expect = e-107,   Method: Composition-based stats.
 Identities = 132/346 (38%), Positives = 198/346 (57%), Gaps = 28/346 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM----SDIRVEINPETGDISLFRL 65
           +     +  E+ I  + ++  +  ++  A             D RVE++  +G++ +   
Sbjct: 5   MAALRMLEREREIPFETLVRTIEQALLVAYHRTEHEDHKAHPDARVELDRASGEVRVL-- 62

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
                             A++RD +  + G   D   P  FGR+A  +A+QVI+Q++R+A
Sbjct: 63  ------------------AKERDDAGLVVGEFDD--TPSGFGRIAATTARQVILQRLRDA 102

Query: 126 ERDRQYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           E D    E+    GEI+SG V++  +   V VDLG+ +GV+   E +  E    G R++ 
Sbjct: 103 EDDAVIGEYAQTEGEIVSGVVQQGRDPRMVQVDLGSLEGVLPPQEQVPGEKYEHGSRLRC 162

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           ++  V++  +GPQV+LSR+HPQ + KLF +EVPEI +G VQ+ A+SR+ G R+K+AV ++
Sbjct: 163 FVVSVKKGPKGPQVVLSRSHPQLVKKLFALEVPEIADGTVQITALSREAGHRSKMAVRAT 222

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDE 303
              ++  GAC+G  G RV+AV+ ELR EKIDIV  S D A FV NAL PA V+ V V+D 
Sbjct: 223 RGGVNAKGACIGPMGQRVRAVMAELRGEKIDIVDHSDDPAQFVGNALSPARVSSVEVVDL 282

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
                 VIVP  QLSLAIG+ GQN RLA++LTGW IDI  + E + 
Sbjct: 283 AARSARVIVPDYQLSLAIGKEGQNARLAAKLTGWRIDIRPDTEPTA 328


>gi|327459330|gb|EGF05676.1| N utilization substance protein A [Streptococcus sanguinis SK1]
          Length = 420

 Score =  392 bits (1008), Expect = e-107,   Method: Composition-based stats.
 Identities = 140/428 (32%), Positives = 229/428 (53%), Gaps = 28/428 (6%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ +
Sbjct: 4   SKEMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTV 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 64  REVVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ +
Sbjct: 124 TRAITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVF 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S +
Sbjct: 184 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHN 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 244 PNVDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAI 303

Query: 292 RPAIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 304 APAEVDQVIFNQEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDIKSATEFEEM 363

Query: 351 RQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
              +       F Q    +EI+    V E          V  +E    +   EET +E  
Sbjct: 364 ---EAANELGGFAQ--EAEEILGDAAVLE--------TEVSAAEATDFDAAAEETVLETA 410

Query: 411 GRAREYLE 418
           G   E  E
Sbjct: 411 GLESEAEE 418


>gi|328944976|gb|EGG39133.1| N utilization substance protein A [Streptococcus sanguinis SK1087]
          Length = 420

 Score =  392 bits (1008), Expect = e-107,   Method: Composition-based stats.
 Identities = 141/428 (32%), Positives = 230/428 (53%), Gaps = 28/428 (6%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ +
Sbjct: 4   SKEMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTV 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 64  REVVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ +
Sbjct: 124 TRAITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVF 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S +
Sbjct: 184 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHN 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 244 PNVDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAI 303

Query: 292 RPAIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 304 APAEVDQVIFNQEDNKRALVVVPDSKLSLAIGRRGQNVRLAAHLTGFRIDIKSATEFEEM 363

Query: 351 RQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
              +       F Q    +EI+A   V E          V  +E    +   EET +E  
Sbjct: 364 ---EAANELGGFAQ--EAEEILADAAVLE--------TEVSAAEATDFDAAAEETILETA 410

Query: 411 GRAREYLE 418
           G   E  E
Sbjct: 411 GLESEAEE 418


>gi|325695172|gb|EGD37073.1| N utilization substance protein A [Streptococcus sanguinis SK150]
          Length = 420

 Score =  392 bits (1008), Expect = e-107,   Method: Composition-based stats.
 Identities = 142/428 (33%), Positives = 230/428 (53%), Gaps = 28/428 (6%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ +
Sbjct: 4   SKEMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTV 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 64  REVVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ +
Sbjct: 124 TRAITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVF 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S +
Sbjct: 184 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHN 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 244 PNVDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAI 303

Query: 292 RPAIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 304 APAEVDQVIFNQEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDIKSATEFEEM 363

Query: 351 RQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
              +       F Q    +EI+A   V E          V  +E    +   EET VE  
Sbjct: 364 ---EAANELGGFAQ--EAEEILADADVLE--------TEVSAAEATDFDAAAEETVVETA 410

Query: 411 GRAREYLE 418
           G   E  E
Sbjct: 411 GLESEAEE 418


>gi|15675574|ref|NP_269748.1| transcription elongation factor NusA [Streptococcus pyogenes M1
           GAS]
 gi|71911225|ref|YP_282775.1| transcription elongation factor NusA [Streptococcus pyogenes
           MGAS5005]
 gi|162139078|ref|YP_597145.2| transcription elongation factor NusA [Streptococcus pyogenes
           MGAS9429]
 gi|162139127|ref|YP_601034.2| transcription elongation factor NusA [Streptococcus pyogenes
           MGAS2096]
 gi|13622778|gb|AAK34469.1| transcription termination-antitermination factor [Streptococcus
           pyogenes M1 GAS]
 gi|71854007|gb|AAZ52030.1| N utilization substance protein A [Streptococcus pyogenes MGAS5005]
          Length = 385

 Score =  392 bits (1007), Expect = e-107,   Method: Composition-based stats.
 Identities = 132/382 (34%), Positives = 218/382 (57%), Gaps = 18/382 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  EK ID+  ++  + +S++ A +  YG      +E N +T D  +F +
Sbjct: 2   SKEMLEAFRILEEEKHIDKADIIDAVTESLKSAYKRRYGQSESCVIEFNEKTADFQVFTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R  
Sbjct: 62  REVVEEVFDSRLEISLKDALAISSAYELGDKIRFEESVNEFGRVAAQSAKQTIMEKMRRQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R+  + E+K+  GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR+  Y
Sbjct: 122 MREVMFNEYKEHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIDVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S +
Sbjct: 182 VYKVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGSNIKKVISKFHPKRVDAKTGLEIPVEENIDVIQWVDDPAEFIYNAI 301

Query: 292 RPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V  V+  DED+ R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDMVLFDDEDLKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEYDRL 361

Query: 351 RQKDFNERTQFFMQAINVDEII 372
              +  +     ++   VD+++
Sbjct: 362 ---EAEKEAATAVEEPVVDDVM 380


>gi|157151698|ref|YP_001449859.1| transcription elongation factor NusA [Streptococcus gordonii str.
           Challis substr. CH1]
 gi|157076492|gb|ABV11175.1| transcription termination factor NusA [Streptococcus gordonii str.
           Challis substr. CH1]
          Length = 413

 Score =  392 bits (1007), Expect = e-107,   Method: Composition-based stats.
 Identities = 123/361 (34%), Positives = 207/361 (57%), Gaps = 15/361 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L     +  +K I ++ ++  + +S++ A R  YG      ++ + + GD  ++ +
Sbjct: 2   SKEMLDAFRILEEDKGIKKEDIIDAVKESLRSAYRRRYGQADSALIDFDEKKGDFHVYTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +     P++FGRVA QSAKQ I++K+R+ 
Sbjct: 62  REVVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPVEFGRVAAQSAKQTIMEKMRKQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ +
Sbjct: 122 TRTITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEIFASHDRIEVF 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S +
Sbjct: 182 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGANIKKITSKFHPAKYDAKSDRMIPVEENIDVIEWVADPAEFIYNAI 301

Query: 292 RPAIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDQVIFNAEDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEFEAM 361

Query: 351 R 351
            
Sbjct: 362 E 362


>gi|77414451|ref|ZP_00790602.1| transcription termination factor NusA [Streptococcus agalactiae
           515]
 gi|77159496|gb|EAO70656.1| transcription termination factor NusA [Streptococcus agalactiae
           515]
          Length = 381

 Score =  392 bits (1007), Expect = e-107,   Method: Composition-based stats.
 Identities = 125/364 (34%), Positives = 209/364 (57%), Gaps = 15/364 (4%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +L+    +  EK I+++ ++  + +S++ A +  YG      +E N +  D +++ + EV
Sbjct: 1   MLEAFRILEEEKHINKEDIIDAVTESLKSAYKRRYGQSESCVIEFNEKKADFTVYTVREV 60

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           V+EV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R   R+
Sbjct: 61  VDEVFDSRLEISLKDALAISSAYELGDKIRFEESVTEFGRVAAQSAKQTIMEKMRRQMRE 120

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
             + E+K   GEI++GTV+R +   + V+LG+ +  +   + I  E+ +  D +  Y+Y 
Sbjct: 121 VTFNEYKQHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGESFKSHDMIDVYVYK 180

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S +S++
Sbjct: 181 VENNPKGVNVFVSRSHPEFIKRIMEREIPEVFDGTVEIMSVSREAGDRTKVAVRSHNSNV 240

Query: 249 DPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRPA 294
           D +G  VG  GS ++ V++                 +E ID++ W  D A F+ NA+ PA
Sbjct: 241 DAIGTIVGRGGSNIKKVISNFHPKRVDAKTGLEIPVEENIDVIQWVEDPAEFIYNAIAPA 300

Query: 295 IVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
            V  V+  DED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E      +
Sbjct: 301 EVDMVLFDDEDTKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEYEKMEAQ 360

Query: 354 DFNE 357
           +   
Sbjct: 361 ELQT 364


>gi|325697660|gb|EGD39545.1| N utilization substance protein A [Streptococcus sanguinis SK160]
 gi|327490545|gb|EGF22326.1| N utilization substance protein A [Streptococcus sanguinis SK1058]
          Length = 420

 Score =  392 bits (1007), Expect = e-107,   Method: Composition-based stats.
 Identities = 140/428 (32%), Positives = 229/428 (53%), Gaps = 28/428 (6%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ +
Sbjct: 4   SKEMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTV 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 64  REVVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ +
Sbjct: 124 TRAITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVF 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S +
Sbjct: 184 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHN 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 244 PNVDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAI 303

Query: 292 RPAIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 304 APAEVDQVIFNQEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDIKSATEFEEM 363

Query: 351 RQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
              +       F Q    +EI+A   V            V  +E    +   EET +E  
Sbjct: 364 ---EAANELGGFAQ--EAEEILADAAVLG--------TEVSAAEATDFDAAAEETVLETA 410

Query: 411 GRAREYLE 418
           G   E  E
Sbjct: 411 GLESEAEE 418


>gi|198277417|ref|ZP_03209948.1| hypothetical protein BACPLE_03631 [Bacteroides plebeius DSM 17135]
 gi|198269915|gb|EDY94185.1| hypothetical protein BACPLE_03631 [Bacteroides plebeius DSM 17135]
          Length = 419

 Score =  392 bits (1007), Expect = e-106,   Method: Composition-based stats.
 Identities = 137/414 (33%), Positives = 230/414 (55%), Gaps = 7/414 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L+         K+IDR  ++SV+ +S +     ++GT  +  V +NP+ GD  ++R  EV
Sbjct: 10  LIDTFSEFKELKNIDRTTMVSVLEESFRSVIAKMFGTDENYDVIVNPDKGDFEIWRNREV 69

Query: 69  V--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           V  EE+ N   QI+L  AR  D S ++G  V+D +    FGR A+ + +Q +  K+ E E
Sbjct: 70  VADEELTNPNLQIALSEARKIDASYEVGEEVTDEVIFEKFGRRAILNLRQTLASKILELE 129

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRVKSY 185
           +D  Y ++ DKVG +IS  V ++    +++ D   ++ ++ + E I  +  R G+  ++ 
Sbjct: 130 KDSLYNKYIDKVGTVISAEVYQIWKKEILLLDDEGNELLLPKTEQIPSDFYRKGETARAV 189

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  +   P+++LSRT P F+ +LF  EVPEI +G++ +K ++R PG RAK+AV S D
Sbjct: 190 VARVDNKNNNPKIILSRTSPVFLQRLFEQEVPEINDGLITIKKIARIPGERAKIAVESYD 249

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVGACVG++GSR+  +V ELR+E ID++ ++ +   F+  AL PA V+ +++ ED 
Sbjct: 250 ERIDPVGACVGVKGSRIHGIVRELRNENIDVINYTSNIQLFIQRALSPAKVSSIIMHEDE 309

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            R EV +  E++SLAIG+ G N++LAS LT +TID+    E   +   D +     F   
Sbjct: 310 KRAEVYLKPEEVSLAIGKGGLNIKLASMLTEYTIDVYR--ELGEDAVADEDIYLDEFKD- 366

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
             +DE + + + A G    + +       +      +E T  ++    +   E 
Sbjct: 367 -EIDEWVINAIKAIGIDTAKGVLNAPREMLIEKADLEENTVDDVLRILKAEFEE 419


>gi|162139854|ref|YP_619194.2| transcription elongation factor NusA [Lactobacillus delbrueckii
           subsp. bulgaricus ATCC 11842]
          Length = 406

 Score =  392 bits (1007), Expect = e-106,   Method: Composition-based stats.
 Identities = 140/377 (37%), Positives = 222/377 (58%), Gaps = 8/377 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+  D +   K I +DV++  M  ++  A +  YG   ++ ++ N + GD  +  L
Sbjct: 2   SKEMLEAFDVLEKTKGIKQDVIVEAMKAALAAAYKKNYGLAENVEIDFNEKKGDFKVMAL 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   ++SLK A   + + ++G  +   + P +FGR A  +AKQV++Q++REA
Sbjct: 62  KTVVDEVQDDRVEVSLKDALAINRAYEVGDTIKFEVTPKNFGRTAAATAKQVVMQRLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVI-RRDETISRENLRPGDRVKS 184
           E      E+     E+++GTV+R +   V V++GN + V+  + +TI  E+  P DRV+ 
Sbjct: 122 ENAHIVNEYSQYEDELVTGTVERTDNRFVYVNIGNVEAVMDIKCDTIPGEHYNPQDRVRV 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V  + +G Q+ +SRT P  + + F  EVPEI++G V++ +++R+ G R K+AV S+
Sbjct: 182 LVTKVGADGKGAQIRVSRTAPDVVKRFFEQEVPEIFDGTVEIMSIAREAGERTKIAVKSN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--D 302
           D +IDPVG CVG RGSRVQ VV  L  E IDIV +  D + ++ NAL PA V  V    +
Sbjct: 242 DPNIDPVGTCVGPRGSRVQNVVNALGGENIDIVQYEEDPSDYIANALNPAEVIAVQFEDE 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           +D  +  VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E     + +  + T+  
Sbjct: 302 DDERKAFVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESEVEFVDESEVEDETEVA 361

Query: 363 MQAINVDEIIAHLLVAE 379
                 D+ +    V E
Sbjct: 362 E-----DQDLQQAAVEE 373


>gi|307710806|ref|ZP_07647234.1| transcription elongation protein nusA [Streptococcus mitis SK321]
 gi|307617412|gb|EFN96584.1| transcription elongation protein nusA [Streptococcus mitis SK321]
          Length = 374

 Score =  392 bits (1007), Expect = e-106,   Method: Composition-based stats.
 Identities = 127/377 (33%), Positives = 215/377 (57%), Gaps = 18/377 (4%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ + EV
Sbjct: 1   MLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTVREV 60

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           V+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+  R 
Sbjct: 61  VDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTRA 120

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
             Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y+Y 
Sbjct: 121 ITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVYVYK 180

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + ++
Sbjct: 181 VEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPNV 240

Query: 249 DPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRPA 294
           D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ PA
Sbjct: 241 DAIGTIVGRGGANIKKITSKFHPARYDAKSDRMVPIEENIDVIEWVADPAEFIYNAIAPA 300

Query: 295 IVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
            V +V+ DE+   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E       
Sbjct: 301 EVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEFEAM--- 357

Query: 354 DFNERTQFFMQAINVDE 370
           +         +   V+E
Sbjct: 358 EEAGSIDLEAENETVEE 374


>gi|288800576|ref|ZP_06406034.1| transcription termination factor NusA [Prevotella sp. oral taxon
           299 str. F0039]
 gi|288332789|gb|EFC71269.1| transcription termination factor NusA [Prevotella sp. oral taxon
           299 str. F0039]
          Length = 421

 Score =  392 bits (1007), Expect = e-106,   Method: Composition-based stats.
 Identities = 140/413 (33%), Positives = 227/413 (54%), Gaps = 8/413 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           ++         K+IDR  ++SV+ +S +     L+G+  +  V +NP+ GD  ++R   V
Sbjct: 13  MIDTFKEFKDTKNIDRATLVSVLEESFRNVLAKLFGSDENFDVIVNPDKGDFEIYRNRVV 72

Query: 69  VE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           V   EV +   +I+L  A   +P  ++G  VS+ +    FGR A+ + +Q +  KV E E
Sbjct: 73  VANGEVSDENKEIALNDAIKIEPDYEVGEEVSERVNFAGFGRRAILNLRQTLASKVLELE 132

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            D  Y ++KD+VG+IIS  V +V    V+ VD  N++  + + E I  +  R G+ V++ 
Sbjct: 133 HDALYNKYKDRVGQIISAEVYQVWKREVLLVDDENNELKLPKSEQIPSDVYRKGETVRAV 192

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V  E   P++ LSRT P F+ +L   EVPEI +G++ +K ++R PG RAK+AV S D
Sbjct: 193 IARVDNENNNPKIFLSRTSPMFLERLLEAEVPEINDGLISIKKIARMPGERAKIAVESYD 252

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVGACVG++G+R+  +V EL +E ID+V ++ ++  F+  AL PA++  + +DE+ 
Sbjct: 253 ERIDPVGACVGVKGNRIHGIVRELCNENIDVVNYTSNTKLFIQRALSPAVINSINIDEEA 312

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            + EV +  EQ+SLAIGR G N++LAS LT +TID+  E  ++     D +     F   
Sbjct: 313 HKAEVFLQPEQVSLAIGRSGLNIKLASMLTEYTIDVFREINENE---ADEDIYLDEFAD- 368

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
             +D+ I   + A G    + +       +      +EET   +    R   E
Sbjct: 369 -EIDQWIIDSIKAIGLDTAKSVLSAPREMLIEKADLEEETVDHVLNVLRAEFE 420


>gi|307709807|ref|ZP_07646258.1| transcription elongation protein nusA [Streptococcus mitis SK564]
 gi|307619509|gb|EFN98634.1| transcription elongation protein nusA [Streptococcus mitis SK564]
          Length = 374

 Score =  392 bits (1007), Expect = e-106,   Method: Composition-based stats.
 Identities = 127/377 (33%), Positives = 215/377 (57%), Gaps = 18/377 (4%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ + EV
Sbjct: 1   MLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTVREV 60

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           V+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+  R 
Sbjct: 61  VDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTRA 120

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
             Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y+Y 
Sbjct: 121 ITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVYVYK 180

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + ++
Sbjct: 181 VEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPNV 240

Query: 249 DPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRPA 294
           D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ PA
Sbjct: 241 DAIGTIVGRGGANIKKITSKFHPARYDAKNDRMVPIEENIDVIEWVADPAEFIYNAIAPA 300

Query: 295 IVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
            V +V+ DE+   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E       
Sbjct: 301 EVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEFEAM--- 357

Query: 354 DFNERTQFFMQAINVDE 370
           +         +   V+E
Sbjct: 358 EEAGSVDLEAENDTVEE 374


>gi|257465970|ref|ZP_05630281.1| transcription elongation factor NusA [Fusobacterium gonidiaformans
           ATCC 25563]
 gi|315917126|ref|ZP_07913366.1| transcription elongation factor NusA [Fusobacterium gonidiaformans
           ATCC 25563]
 gi|313691001|gb|EFS27836.1| transcription elongation factor NusA [Fusobacterium gonidiaformans
           ATCC 25563]
          Length = 353

 Score =  392 bits (1007), Expect = e-106,   Method: Composition-based stats.
 Identities = 129/345 (37%), Positives = 210/345 (60%), Gaps = 3/345 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M + +    L+  D +  EK I+++ +L  +  ++  A +  YG   ++ V I+ E GD+
Sbjct: 1   MTNKDARAFLEALDELEKEKGIEKESLLQAVEQALLTAYKKNYGDEENVEVVIDRENGDV 60

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++ +  VV  E++ +   +ISL+ A+       +G  V   +    F R A+Q+ KQ++
Sbjct: 61  KVYEVKTVVTEEDLYDAALEISLEEAKKISRRAKLGEEVRIEVDCESFRRNAIQNGKQIV 120

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLR 177
           IQKVREAER+  Y  FK + GEI++G ++R+ E  NV ++ G  + ++   E    +  +
Sbjct: 121 IQKVREAERENIYDRFKAQEGEILTGIIRRIDERKNVFIEFGGIETILTAGEQCVSDRYK 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+R+K Y+ +V +  + P++++SR H   + KLF +E+PEI +G +++KAV+R+ GSRA
Sbjct: 181 VGNRIKVYLVEVEKTNKFPKIVISRRHEGLLRKLFELEIPEISSGAIEIKAVAREAGSRA 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV+S   +ID VGAC+G + +R++ +V EL  EKIDIV+W  +   FV   L PA V 
Sbjct: 241 KVAVYSELPNIDIVGACIGQKRARIKNIVDELGGEKIDIVIWKENMEEFVSAVLSPAKVN 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
            V L ED     V+V + QLSLAIG+ GQN RLA++LTG  +DI 
Sbjct: 301 SVELLEDGETARVLVDESQLSLAIGKSGQNARLAAKLTGMRVDIK 345


>gi|294784277|ref|ZP_06749572.1| transcription termination factor NusA [Fusobacterium sp. 3_1_27]
 gi|294488143|gb|EFG35494.1| transcription termination factor NusA [Fusobacterium sp. 3_1_27]
          Length = 357

 Score =  392 bits (1007), Expect = e-106,   Method: Composition-based stats.
 Identities = 129/356 (36%), Positives = 218/356 (61%), Gaps = 4/356 (1%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M + +    L+  D +  EK I ++ VL  +  ++  A +  YG   ++ V ++   GDI
Sbjct: 1   MKAKDSKNFLEALDELEREKGISKESVLEAIELALLAAYKKNYGEDENVEVVVDRANGDI 60

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            +F    VV+   + +   +ISL+ A+     + IG V+   +   +F R AVQ+ KQ++
Sbjct: 61  KVFASKTVVDADNLLDPNEEISLEDAKQIKKRVKIGDVLKFEVDCENFRRNAVQNGKQIV 120

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLR 177
           IQKVREAER+  + +FK++   I++G ++R++   N+ +++   + ++   E    +  R
Sbjct: 121 IQKVREAEREHIFNKFKEREDSIVTGIIRRIDNRKNIFIEIDGIELILPPVEQSLSDVYR 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+R+K YI  V +  + P++L+SR +   + KLF +E+PEI +GI+++K+V+R+ GSRA
Sbjct: 181 VGERIKVYILSVEKTNKFPKILISRKNEGLLKKLFEIEIPEITSGIIEIKSVAREAGSRA 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV+S+  +ID VGAC+G RG+R++ +V EL  E+IDIV W P    FV   L PA+V+
Sbjct: 241 KVAVYSAVPNIDTVGACIGQRGARIKNIVDELNGERIDIVEWKPVVEEFVSAVLSPAVVS 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
            V + ED G   V+V   QLSLAIG+ GQN RLA++LTG  +DI   + +++  ++
Sbjct: 301 NVTILED-GTARVLVEPSQLSLAIGKNGQNARLAARLTGMRVDIKVIDNETLKEEE 355


>gi|183603429|ref|ZP_02716853.2| transcription termination factor NusA [Streptococcus pneumoniae
           CDC3059-06]
 gi|307067174|ref|YP_003876140.1| transcription elongation factor [Streptococcus pneumoniae AP200]
 gi|183576810|gb|EDT97338.1| transcription termination factor NusA [Streptococcus pneumoniae
           CDC3059-06]
 gi|306408711|gb|ADM84138.1| Transcription elongation factor [Streptococcus pneumoniae AP200]
 gi|332076985|gb|EGI87447.1| transcription termination factor NusA [Streptococcus pneumoniae
           GA17545]
          Length = 374

 Score =  391 bits (1006), Expect = e-106,   Method: Composition-based stats.
 Identities = 127/377 (33%), Positives = 217/377 (57%), Gaps = 18/377 (4%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ + EV
Sbjct: 1   MLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTVREV 60

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           V+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+  R 
Sbjct: 61  VDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTRA 120

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
             Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y+Y 
Sbjct: 121 ITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVYVYK 180

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + ++
Sbjct: 181 VEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPNV 240

Query: 249 DPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRPA 294
           D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ PA
Sbjct: 241 DAIGTIVGRGGANIKKITSKFHPARYDAKNDRMVPIEENIDVIEWVADPAEFIYNAIAPA 300

Query: 295 IVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
            V +V+ DE+   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E       
Sbjct: 301 EVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEFEAM--- 357

Query: 354 DFNERTQFFMQAINVDE 370
           +     +  ++   V+E
Sbjct: 358 EDAASVELEVENDTVEE 374


>gi|28895281|ref|NP_801631.1| transcription elongation factor NusA [Streptococcus pyogenes SSI-1]
 gi|161485737|ref|NP_665302.2| transcription elongation factor NusA [Streptococcus pyogenes
           MGAS315]
 gi|209559841|ref|YP_002286313.1| transcription elongation factor NusA [Streptococcus pyogenes NZ131]
 gi|28810527|dbj|BAC63464.1| putative transcription termination-antitermination factor
           [Streptococcus pyogenes SSI-1]
 gi|209541042|gb|ACI61618.1| Transcription termination protein NusA [Streptococcus pyogenes
           NZ131]
          Length = 385

 Score =  391 bits (1006), Expect = e-106,   Method: Composition-based stats.
 Identities = 130/363 (35%), Positives = 210/363 (57%), Gaps = 15/363 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  EK ID+  ++  + +S++ A +  YG      +E N +T D  +F +
Sbjct: 2   SKEMLEAFRILEEEKHIDKADIIDAVTESLKSAYKRRYGQSESCVIEFNEKTADFQVFTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R  
Sbjct: 62  REVVEEVFDSRLEISLKDALAISSAYELGDKIRFEESVNEFGRVAAQSAKQTIMEKMRRQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R+  + E+K+  GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR+  Y
Sbjct: 122 MREVMFNEYKEHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIDVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S +
Sbjct: 182 VYKVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGSNIKKVISKFHPKRVDAKTGLEIPVEENIDVIQWVDDPAEFIYNAI 301

Query: 292 RPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V  V+  DED+ R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDMVLFDDEDLKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEYDRL 361

Query: 351 RQK 353
             +
Sbjct: 362 EAE 364


>gi|296122805|ref|YP_003630583.1| transcription termination factor NusA [Planctomyces limnophilus DSM
           3776]
 gi|296015145|gb|ADG68384.1| transcription termination factor NusA [Planctomyces limnophilus DSM
           3776]
          Length = 442

 Score =  391 bits (1006), Expect = e-106,   Method: Composition-based stats.
 Identities = 148/430 (34%), Positives = 244/430 (56%), Gaps = 32/430 (7%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  E+L+I D++  +KSID+++V   +  +I  AAR  +G    I V I+  +G   +  
Sbjct: 2   NGNEVLRIVDSIHRDKSIDKEIVFEGVEQAILSAARKHFGEEEVIEVHIDRTSGQPMVK- 60

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
                               R+ D   ++G ++         GR++ Q+AKQV+IQK+RE
Sbjct: 61  -----------------TNGREIDRD-ELGDIL---------GRISAQTAKQVMIQKIRE 93

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AERD  + E+    G+I+SGTV R E   + V++G ++ ++ R E I  E+ RP +R+++
Sbjct: 94  AERDTLFDEYAQLRGQIVSGTVTRNEGSAITVNIGKAEAILPRSEMIPGESHRPNERIRA 153

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + +V++     +V+LSR HP F+ +L  +E+PE+   I+++++++R+ G R K+AV  +
Sbjct: 154 VVLEVKKMGPRVRVVLSRAHPDFVRRLLELEIPEVNERIIEIRSLAREAGYRTKVAVSCA 213

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           DS+IDPVGACVG+RG+R++ V  EL  E+I++V W+      V NA++P+ V  V+L   
Sbjct: 214 DSNIDPVGACVGVRGARIRNVGEELGGERIEVVRWNDSLQVLVPNAMQPSEVEDVILCPM 273

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
           +GR+ V+V  +QLSLAIG+RGQNVRLAS+L GW ID++T EE      +     +Q    
Sbjct: 274 LGRVLVLVRDDQLSLAIGKRGQNVRLASKLVGWDIDVMTREELDQQLDQAVVAYSQ---- 329

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
              V E +A  LV++GF   E+L+ ++  E+  +    +E A  I   A    E I+   
Sbjct: 330 IPGVSEELAEGLVSQGFLSFEDLSVIEPDELMEMGSLTQEQADVIVEYAERESERIEKEQ 389

Query: 425 QKKIRELGVS 434
             +       
Sbjct: 390 DLRRATEKAE 399


>gi|313124031|ref|YP_004034290.1| transcription elongation factor nusa [Lactobacillus delbrueckii
           subsp. bulgaricus ND02]
 gi|312280594|gb|ADQ61313.1| transcription elongation factor NusA [Lactobacillus delbrueckii
           subsp. bulgaricus ND02]
 gi|325685946|gb|EGD28009.1| N utilization substance protein A [Lactobacillus delbrueckii subsp.
           lactis DSM 20072]
          Length = 383

 Score =  391 bits (1006), Expect = e-106,   Method: Composition-based stats.
 Identities = 142/377 (37%), Positives = 223/377 (59%), Gaps = 8/377 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+  D +   K I +DV++  M  ++  A +  YG   ++ ++ N + GD  +  L
Sbjct: 2   SKEMLEAFDVLEKTKGIKQDVIVEAMKAALAAAYKKNYGLAENVEIDFNEKKGDFKVMAL 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV++   ++SLK A   + + ++G  +   + P DFGR A  +AKQV++Q++REA
Sbjct: 62  KTVVDEVQDDRVEVSLKDALAINRAYEVGDTIKFEVTPKDFGRTAAATAKQVVMQRLREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVI-RRDETISRENLRPGDRVKS 184
           E      E+     E+++GTV+R +   V V++GN + V+  + +TI  E+  P DRV+ 
Sbjct: 122 ENAHIVNEYSQYEDELVTGTVERTDNRFVYVNIGNVEAVMDIKRDTIPGEHYNPQDRVRV 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            +  V  + +G Q+ +SRT P  + +LF  EVPEI++G V++ +++R+ G R K+AV S+
Sbjct: 182 LVTKVGADGKGAQIRVSRTAPDVVKRLFEQEVPEIFDGTVEIISIAREAGERTKIAVKSN 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--D 302
           D +IDPVG CVG RGSRVQ VV EL  E IDIV +  D + ++ NAL PA V  V    +
Sbjct: 242 DPNIDPVGTCVGPRGSRVQNVVNELGGENIDIVQYEEDPSDYIANALNPAEVIAVQFEDE 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           +D  +  VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E     + +  + T+  
Sbjct: 302 DDERKAFVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESEVEFVDESEVEDETEVA 361

Query: 363 MQAINVDEIIAHLLVAE 379
                 D+ +      E
Sbjct: 362 E-----DQDLQQTEAEE 373


>gi|326791500|ref|YP_004309321.1| NusA antitermination factor [Clostridium lentocellum DSM 5427]
 gi|326542264|gb|ADZ84123.1| NusA antitermination factor [Clostridium lentocellum DSM 5427]
          Length = 376

 Score =  391 bits (1006), Expect = e-106,   Method: Composition-based stats.
 Identities = 134/366 (36%), Positives = 212/366 (57%), Gaps = 28/366 (7%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG----TMSDIRVEINPETGDIS 61
             E +   D +A  K I+++ ++  +  SI+ A +  +G       +I++ I+ +TGD+ 
Sbjct: 2   NQEFIMAIDQIAKSKGINKEKLIDAIKQSIEVACKKHFGISTNGKQNIKINIDEKTGDVK 61

Query: 62  LFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           +F    VV  EEV N   ++ +  A++ +  + +  ++   + P +FGR+A Q+AKQV+I
Sbjct: 62  VFAAKTVVPDEEVTNELLEVGITEAQNLNRLVQLDDIIDIEITPRNFGRIAAQNAKQVVI 121

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENL--- 176
           QK++EAER   Y E+  K+ +I+ G V R E    IV L  ++  +   E +  +N    
Sbjct: 122 QKIKEAERQMVYEEYSVKLNDIVKGKVLRREKNGYIVQLDFTEASLPSTEAMPNDNFDEQ 181

Query: 177 -RPGDRV---KS-YIYDVRREQR------------GPQVLLSRTHPQFMVKLFHMEVPEI 219
               D +   K+ Y+ +V+   +            G QV++SRTHP+ + +LF  EV EI
Sbjct: 182 MEMNDGIGTYKAFYLLNVKDFNKNENKLDGKSKNAGAQVIVSRTHPELVKRLFEQEVVEI 241

Query: 220 YNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVW 279
            +G V +K+++R+ GSR K+AV+S+D  +DPVGACVG +G R+  +V EL  EKID+V W
Sbjct: 242 KDGTVVIKSIAREAGSRTKIAVYSNDPLVDPVGACVGEKGKRINNIVQELNGEKIDVVHW 301

Query: 280 SPDSATFVINALRPAIVTKVVLDEDVGR--IEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           S D   F+  AL PA V  V L+E  G    +VIVP   L+LAIG+ GQNVRLA++L G+
Sbjct: 302 SEDPKEFIREALSPAKVIDVELEETEGERNAKVIVPSHILTLAIGKGGQNVRLAAKLCGF 361

Query: 338 TIDIIT 343
            IDI +
Sbjct: 362 KIDIKS 367


>gi|323350354|ref|ZP_08086018.1| transcription elongation factor NusA [Streptococcus sanguinis
           VMC66]
 gi|322123427|gb|EFX95103.1| transcription elongation factor NusA [Streptococcus sanguinis
           VMC66]
          Length = 420

 Score =  391 bits (1006), Expect = e-106,   Method: Composition-based stats.
 Identities = 136/418 (32%), Positives = 224/418 (53%), Gaps = 28/418 (6%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ +
Sbjct: 4   SKEMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTV 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 64  REVVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ +
Sbjct: 124 TRAITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVF 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S +
Sbjct: 184 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHN 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 244 PNVDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAI 303

Query: 292 RPAIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 304 APAEVDQVIFNQEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDIKSATEFEEM 363

Query: 351 RQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVE 408
              +       F Q        A +L  E          V  +E    +   EET +E
Sbjct: 364 ---EAANELGGFAQEAEEILAEAAVLETE----------VSAAEATDFDAAAEETVLE 408


>gi|282857788|ref|ZP_06266997.1| transcription termination factor NusA [Pyramidobacter piscolens
           W5455]
 gi|282584458|gb|EFB89817.1| transcription termination factor NusA [Pyramidobacter piscolens
           W5455]
          Length = 364

 Score =  391 bits (1006), Expect = e-106,   Method: Composition-based stats.
 Identities = 140/356 (39%), Positives = 219/356 (61%), Gaps = 5/356 (1%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           ++ L     +  E+ +  +V+ S +  ++  A R       D  V I+  TG +S+F + 
Sbjct: 5   VDFLGALKQLGEERGLSEEVIFSSIEAALALAYRKFRDGKFDPVVAIDRATGSVSIFDVR 64

Query: 67  EVVEEVENYTCQISLKVARDRD-PSIDIGGVVSDPL--PPMDFGRVAVQSAKQVIIQKVR 123
             V+   +   +ISL  AR    P +  G  V  P+   P  FGR+A Q+A+QVI Q+++
Sbjct: 65  RAVDAETHSDSEISLAEARALGYPDVREGDSVKVPVLEHPKSFGRIAAQTARQVITQRLK 124

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRV 182
           +AER+  Y EF DK+G++I+ T+ + E   ++V L   S+ V+ R+E I+ E   PG+  
Sbjct: 125 DAEREIVYNEFNDKIGDLITATIFKAENDQILVRLSERSEAVLPREERIAGEVYTPGESK 184

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           K ++ DVR+  RGP++++SRTHP  + KL  +E+PEI++G V++K + R+ G+RAK+AV 
Sbjct: 185 KFFLLDVRQTGRGPRIVVSRTHPGLLRKLLELEIPEIHDGTVEIKGIVREAGARAKVAVA 244

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+D ++D VGACVG  G+R++++  +L DEKIDI+VW+ D   F+ NAL PA VT V   
Sbjct: 245 STDPAVDSVGACVGNSGARIRSISADLCDEKIDIIVWNEDPLEFIRNALSPARVTGVEAV 304

Query: 303 E-DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           E      +V  P +QLSLAIG+ GQNVRLA++LTGW +DI T   D+   + +  E
Sbjct: 305 EGQDRTAKVYAPADQLSLAIGKAGQNVRLAARLTGWKVDINTNTGDTPAGKPEIEE 360


>gi|307705617|ref|ZP_07642469.1| transcription elongation protein nusA [Streptococcus mitis SK597]
 gi|307620894|gb|EFN99978.1| transcription elongation protein nusA [Streptococcus mitis SK597]
          Length = 374

 Score =  391 bits (1005), Expect = e-106,   Method: Composition-based stats.
 Identities = 127/377 (33%), Positives = 215/377 (57%), Gaps = 18/377 (4%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ + EV
Sbjct: 1   MLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTVREV 60

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           V+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+  R 
Sbjct: 61  VDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTRA 120

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
             Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y+Y 
Sbjct: 121 ITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVYVYK 180

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + ++
Sbjct: 181 VEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPNV 240

Query: 249 DPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRPA 294
           D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+ PA
Sbjct: 241 DAIGTIVGRGGANIKKITSKFHPARYDAKSDRMVPIEENIDVIEWVADPAEFIYNAIAPA 300

Query: 295 IVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
            V +V+ DE+   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E       
Sbjct: 301 EVDQVIFDENDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEFEAM--- 357

Query: 354 DFNERTQFFMQAINVDE 370
           +         +   V+E
Sbjct: 358 EEAASVDLEAENDTVEE 374


>gi|325688733|gb|EGD30742.1| N utilization substance protein A [Streptococcus sanguinis SK115]
          Length = 420

 Score =  391 bits (1005), Expect = e-106,   Method: Composition-based stats.
 Identities = 138/418 (33%), Positives = 227/418 (54%), Gaps = 28/418 (6%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ +
Sbjct: 4   SKEMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTV 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 64  REVVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ +
Sbjct: 124 TRAITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVF 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S +
Sbjct: 184 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHN 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 244 PNVDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAI 303

Query: 292 RPAIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 304 APAEVDQVIFNQEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDIKSATEFEEM 363

Query: 351 RQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVE 408
              +       F Q    +EI+A   V E          V  +E    +   EET +E
Sbjct: 364 ---EAANELGGFAQ--EAEEILADADVLE--------TEVSAAEATDFDAAAEETVLE 408


>gi|125718693|ref|YP_001035826.1| transcription elongation factor NusA [Streptococcus sanguinis SK36]
 gi|125498610|gb|ABN45276.1| N utilization substance protein A, putative [Streptococcus
           sanguinis SK36]
          Length = 420

 Score =  391 bits (1005), Expect = e-106,   Method: Composition-based stats.
 Identities = 140/428 (32%), Positives = 230/428 (53%), Gaps = 28/428 (6%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ +
Sbjct: 4   SKEMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTV 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 64  REVVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ +
Sbjct: 124 TRAITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVF 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S +
Sbjct: 184 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHN 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 244 PNVDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAI 303

Query: 292 RPAIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 304 APAEVDQVIFNEEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDIKSATEFEEM 363

Query: 351 RQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
              +       F Q    +EI+A   + E          V  +E    +   EET +E  
Sbjct: 364 ---EAANELGGFAQ--EAEEILADAAILE--------TEVSGAEATDFDAAAEETVLETA 410

Query: 411 GRAREYLE 418
           G   E  E
Sbjct: 411 GLESEAEE 418


>gi|315222140|ref|ZP_07864049.1| transcription termination factor NusA [Streptococcus anginosus
           F0211]
 gi|315188766|gb|EFU22472.1| transcription termination factor NusA [Streptococcus anginosus
           F0211]
          Length = 397

 Score =  391 bits (1005), Expect = e-106,   Method: Composition-based stats.
 Identities = 127/362 (35%), Positives = 209/362 (57%), Gaps = 15/362 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG      +E N +TGD  ++ +
Sbjct: 2   SKEMLEAFRILEEDKGIKKEDIIEAVTESLRSAYRRRYGQADSAAIEFNEKTGDFRVYTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 62  REVVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPTEFGRVAAQSAKQTIMEKMRKQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y ++K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ +
Sbjct: 122 TRAITYNKYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVF 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S +
Sbjct: 182 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGANIKKITSKFHPAKYDAKSGRMIPVEENIDVIEWVADPAEFIYNAI 301

Query: 292 RPAIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ D ED     V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDQVIFDSEDSKHALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEFEAM 361

Query: 351 RQ 352
            +
Sbjct: 362 EE 363


>gi|323127911|gb|ADX25208.1| transcription elongation factor NusA [Streptococcus dysgalactiae
           subsp. equisimilis ATCC 12394]
          Length = 385

 Score =  390 bits (1004), Expect = e-106,   Method: Composition-based stats.
 Identities = 128/363 (35%), Positives = 210/363 (57%), Gaps = 15/363 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  EK ID+  ++  + +S++ A +  YG      +E N +T D  +F +
Sbjct: 2   SKEMLEAFRILEEEKHIDKADIIDAVTESLKSAYKRRYGQAESCVIEFNEKTADFQVFTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R  
Sbjct: 62  REVVEEVFDSRLEISLKDALAISSAYELGDKIRFEESVNEFGRVAAQSAKQTIMEKMRRQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R+  + E+K+  GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR++ Y
Sbjct: 122 MREVTFNEYKEHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIEVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S +
Sbjct: 182 VYKVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGSNIKKVISKFHPKRLDAKTGLEIPVEENIDVIQWVDDPAEFIYNAI 301

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V  V+ D+D   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  +    
Sbjct: 302 APAEVDMVLFDDDDLKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASDYDRF 361

Query: 351 RQK 353
             +
Sbjct: 362 EAE 364


>gi|76798057|ref|ZP_00780314.1| transcription termination factor NusA [Streptococcus agalactiae
           18RS21]
 gi|77406370|ref|ZP_00783432.1| transcription termination factor NusA [Streptococcus agalactiae
           H36B]
 gi|77408786|ref|ZP_00785516.1| transcription termination factor NusA [Streptococcus agalactiae
           COH1]
 gi|77411664|ref|ZP_00788004.1| transcription termination factor NusA [Streptococcus agalactiae
           CJB111]
 gi|22533395|gb|AAM99284.1|AE014208_24 N utilization substance protein A [Streptococcus agalactiae
           2603V/R]
 gi|76586616|gb|EAO63117.1| transcription termination factor NusA [Streptococcus agalactiae
           18RS21]
 gi|77162308|gb|EAO73279.1| transcription termination factor NusA [Streptococcus agalactiae
           CJB111]
 gi|77172631|gb|EAO75770.1| transcription termination factor NusA [Streptococcus agalactiae
           COH1]
 gi|77175039|gb|EAO77846.1| transcription termination factor NusA [Streptococcus agalactiae
           H36B]
          Length = 379

 Score =  390 bits (1004), Expect = e-106,   Method: Composition-based stats.
 Identities = 125/364 (34%), Positives = 209/364 (57%), Gaps = 15/364 (4%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +L+    +  EK I+++ ++  + +S++ A +  YG      +E N +  D +++ + EV
Sbjct: 1   MLEAFRILEEEKHINKEDIIDAVTESLKSAYKRRYGQSESCVIEFNEKKADFTVYTVREV 60

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           V+EV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R   R+
Sbjct: 61  VDEVFDSRLEISLKDALAISSAYELGDKIRFEESVTEFGRVAAQSAKQTIMEKMRRQMRE 120

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
             + E+K   GEI++GTV+R +   + V+LG+ +  +   + I  E+ +  D +  Y+Y 
Sbjct: 121 VTFNEYKQHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGESFKSHDMIDVYVYK 180

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S +S++
Sbjct: 181 VENNPKGVNVFVSRSHPEFIKRIMEREIPEVFDGTVEIMSVSREAGDRTKVAVRSHNSNV 240

Query: 249 DPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRPA 294
           D +G  VG  GS ++ V++                 +E ID++ W  D A F+ NA+ PA
Sbjct: 241 DAIGTIVGRGGSNIKKVISNFHPKRVDAKTGLEIPVEENIDVIQWVEDPAEFIYNAIAPA 300

Query: 295 IVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
            V  V+  DED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E      +
Sbjct: 301 EVDMVLFDDEDTKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEYEKMEAQ 360

Query: 354 DFNE 357
           +   
Sbjct: 361 ELQT 364


>gi|84498575|ref|ZP_00997338.1| transcription elongation factor NusA [Janibacter sp. HTCC2649]
 gi|84381108|gb|EAP96993.1| transcription elongation factor NusA [Janibacter sp. HTCC2649]
          Length = 385

 Score =  390 bits (1004), Expect = e-106,   Method: Composition-based stats.
 Identities = 126/360 (35%), Positives = 201/360 (55%), Gaps = 25/360 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL--- 66
           L +   V  E+ I  DV++  +  ++  A +   G   + R E++ +TG ++++      
Sbjct: 5   LAVLRGVERERDISLDVLIPAIEQALLLAYQRTDGAYRNSRAELDRKTGHVTIWAREEFE 64

Query: 67  -----------------EVVEEVENYTCQISLK-VARDRDPSIDIGGVV--SDPLPPMDF 106
                                +V     + +     R   P+  +           P DF
Sbjct: 65  VPVEEEPEAPAETPTPDTASADVAAPATESAGATEERVERPAPRMRREYGPEFDDTPTDF 124

Query: 107 GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVI 165
           GRVA  +A+QVI+Q++R+ E D    +FK + G+I++G +++  +  +V VD G  +G++
Sbjct: 125 GRVAAATARQVIVQRLRDIEDDAIMGDFKGREGDIVAGVIQQSPDPRHVTVDFGTVEGIL 184

Query: 166 RRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
              E +  E    G R++ Y+  V+R  RGPQ+ LSRTHP  + KLF +EVPEI +G V+
Sbjct: 185 PVAEQVPGEKYVHGQRLRVYVVSVKRGLRGPQIGLSRTHPNLVRKLFALEVPEIADGSVE 244

Query: 226 VKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSAT 285
           + A++R+ G R K+AV +  + ++  GAC+G  G+RV+AV+ EL  EKIDIV +S D A+
Sbjct: 245 IAALARESGHRTKIAVHTKVAGLNAKGACIGPMGARVRAVMAELHGEKIDIVDFSEDPAS 304

Query: 286 FVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
           F+ +AL P+ V  V ++D  +    VIVP  QLSLAIGR GQN RLA++LTGW IDI ++
Sbjct: 305 FIASALSPSRVQSVEIVDWQLRAARVIVPDYQLSLAIGREGQNARLAAKLTGWRIDIRSD 364


>gi|322386001|ref|ZP_08059641.1| transcription elongation factor NusA [Streptococcus cristatus ATCC
           51100]
 gi|321269984|gb|EFX52904.1| transcription elongation factor NusA [Streptococcus cristatus ATCC
           51100]
          Length = 413

 Score =  390 bits (1004), Expect = e-106,   Method: Composition-based stats.
 Identities = 133/404 (32%), Positives = 218/404 (53%), Gaps = 16/404 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG      +E N +TGD  ++ +
Sbjct: 4   SKEMLEAFRILEEDKGIKKEDIIEAVTESLRSAYRRRYGQADSAAIEFNEKTGDFHVYTV 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 64  REVVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ +
Sbjct: 124 TRAITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVF 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S +
Sbjct: 184 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHN 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A ++ NA+
Sbjct: 244 PNVDAIGTIVGRGGANIKKITSKFHPAKYDAKSGRMIPTEENIDVIEWVSDPAEYIYNAI 303

Query: 292 RPAIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+   ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 304 APAEVDQVIFHAEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDIKSASEFEAM 363

Query: 351 RQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISE 394
              +             VD   A     E   D E    +++ E
Sbjct: 364 EAANELGGFGQDYVPTEVDAPSAEFEAEE-LNDTEVATEIELEE 406


>gi|333029428|ref|ZP_08457489.1| NusA antitermination factor [Bacteroides coprosuis DSM 18011]
 gi|332740025|gb|EGJ70507.1| NusA antitermination factor [Bacteroides coprosuis DSM 18011]
          Length = 420

 Score =  390 bits (1004), Expect = e-106,   Method: Composition-based stats.
 Identities = 131/420 (31%), Positives = 233/420 (55%), Gaps = 9/420 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           + + L+         K ID+  ++SV+ +S +     + GT  +  V +NP+ GD  ++R
Sbjct: 6   DNISLIDTFSDFKENKKIDKTTMISVLEESFRSVIAKIVGTDENYDVIVNPDQGDFEIWR 65

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             EVV +  V +   QISL  AR  D S +IG  V+D +    FGR A+ + +Q +  K+
Sbjct: 66  NREVVADGDVTDENMQISLTEARKTDESYEIGEEVTDKVHFESFGRRAILNLRQTLASKI 125

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDR 181
            E E+D  Y ++ ++VG I+S  V ++    ++ VD   ++ ++ + E I R+  R G+ 
Sbjct: 126 LELEKDSLYNKYIERVGMIVSAEVYQIWKKEILLVDDEGNELILPKSEQIPRDFFRKGES 185

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ +  V  +   P+++LSRT P F+ +LF +EVPEI +G++ +K V+R PG RAK+AV
Sbjct: 186 VRAVVARVDNKNNNPKIILSRTSPLFLERLFELEVPEINDGLITIKKVARIPGERAKVAV 245

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  IDPVGACVG++GSR+  +V EL +E ID++ ++ +   F+  +L PA ++ + L
Sbjct: 246 ESYDDRIDPVGACVGVKGSRIHGIVRELCNENIDVINYTSNIQLFIQRSLSPATISSIRL 305

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           +E+  + E+ +  +++SLAIG+ G N++LAS LT +TID+  E +++       +     
Sbjct: 306 NEEEHKAEIFLQPDEVSLAIGKGGLNIKLASMLTEYTIDVFRELDETEGE----DIYLDE 361

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F     ++  +   +   G    + +  V  + +      +EET  E+    +   E  +
Sbjct: 362 FSD--EIEGWVIDAIKGLGLTTAKAVLEVPRNRLIEDADLEEETVDEVLSILKSEFEEDE 419


>gi|322412488|gb|EFY03396.1| transcription elongation factor NusA [Streptococcus dysgalactiae
           subsp. dysgalactiae ATCC 27957]
          Length = 385

 Score =  390 bits (1003), Expect = e-106,   Method: Composition-based stats.
 Identities = 128/363 (35%), Positives = 210/363 (57%), Gaps = 15/363 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  EK ID+  ++  + +S++ A +  YG      +E N +T D  +F +
Sbjct: 2   SKEMLEAFRILEEEKHIDKADIIDAVTESLKSAYKRRYGQAESCVIEFNEKTADFQVFTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R  
Sbjct: 62  REVVEEVFDSRLEISLKDALAISSAYELGDKIRFEESVNEFGRVAAQSAKQTIMEKMRRQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R+  + E+K+  GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR++ Y
Sbjct: 122 MREVTFNEYKEHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIEVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S +
Sbjct: 182 VYKVENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGSNIKKVISKFHPKRLDAKTGLEIPVEENIDVIQWVDDPAEFIYNAI 301

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V  V+ D+D   R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  +    
Sbjct: 302 APAEVDMVLFDDDDLKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASDYDRL 361

Query: 351 RQK 353
             +
Sbjct: 362 EAE 364


>gi|253581490|ref|ZP_04858715.1| transcription elongation factor NusA [Fusobacterium varium ATCC
           27725]
 gi|251836560|gb|EES65095.1| transcription elongation factor NusA [Fusobacterium varium ATCC
           27725]
          Length = 361

 Score =  390 bits (1003), Expect = e-106,   Method: Composition-based stats.
 Identities = 137/347 (39%), Positives = 214/347 (61%), Gaps = 3/347 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M S +    L+  D +  EK I ++ +L  +  ++  A +  +G   ++ VEIN ETGD+
Sbjct: 1   MKSKDAKVFLEALDELEREKGISKESLLLTVEQALLAAYKKNHGEEENVEVEINRETGDV 60

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            L+ +  VVE  ++ +   +ISL  A++      +G +V   +   +F R A+Q+ KQ++
Sbjct: 61  KLYEVKTVVETEDLYDAAIEISLDDAQEIKKRAKVGDIVRIEINCEEFRRNAIQNGKQIV 120

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLR 177
           IQKVREAER   Y  FK+K  +II+G ++R+ E  N+ V+    + ++   E    +  R
Sbjct: 121 IQKVREAERQYIYDRFKEKENDIINGIIRRIDEKKNIFVEFDGIEAILPTTEQSPADTYR 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+R+K ++ +V +  + P++++SR H   + KLF +E+PEI +G++++KAV+R+ GSRA
Sbjct: 181 VGERLKVFLAEVEKTNKFPKIVISRKHEGLLKKLFELEIPEITSGLIEIKAVAREAGSRA 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV+SSD +ID VGAC+G +G R++ +V EL  EKIDIV+W      FV   L PA V 
Sbjct: 241 KVAVYSSDPNIDTVGACIGQKGLRIKNIVNELNGEKIDIVIWKESVEEFVSAVLSPAKVK 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            V + ED     VIV   QLSLAIG+ GQN RLA++LTG  +DI TE
Sbjct: 301 SVEVIEDENTARVIVDNSQLSLAIGKNGQNARLAAKLTGMRVDIKTE 347


>gi|257468347|ref|ZP_05632441.1| transcription elongation factor NusA [Fusobacterium ulcerans ATCC
           49185]
 gi|317062620|ref|ZP_07927105.1| transcription elongation factor NusA [Fusobacterium ulcerans ATCC
           49185]
 gi|313688296|gb|EFS25131.1| transcription elongation factor NusA [Fusobacterium ulcerans ATCC
           49185]
          Length = 361

 Score =  390 bits (1002), Expect = e-106,   Method: Composition-based stats.
 Identities = 136/356 (38%), Positives = 216/356 (60%), Gaps = 3/356 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M S +    L+  D +  EK I ++ +L  +  ++  A +  +G   ++ VEIN ETGD+
Sbjct: 1   MKSKDAKVFLEALDELEREKGISKENLLLTVEQALLAAYKKNHGEEENVEVEINRETGDV 60

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            L+ +  VVE  ++ +   +ISL  A++    + +G +V   +   +F R A+Q+ KQ++
Sbjct: 61  KLYEVKTVVETEDLYDAAIEISLDDAQEIKKRVKVGDIVRIEINCEEFRRNAIQNGKQIV 120

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLR 177
           IQKVREAER   Y  FK K  +II+G ++R+ E  N+ V+    + ++   E    +  R
Sbjct: 121 IQKVREAERQYIYDRFKGKENDIINGIIRRIDEKKNIFVEFDGIEAILPTTEQSPADTYR 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+R+K ++ +V +  + P++++SR H   + KLF +E+PEI +G++++KAV+R+ GSRA
Sbjct: 181 VGERLKVFLAEVEKTNKFPKIVISRKHEGLLKKLFELEIPEITSGLIEIKAVAREAGSRA 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV+S+D +ID VGAC+G +G R++ +V EL  EKIDIV+W      FV   L PA V 
Sbjct: 241 KVAVYSADPNIDTVGACIGQKGLRIKNIVNELNGEKIDIVIWKESVEEFVSAVLSPAKVK 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
            V + ED     VIV   QLSLAIG+ GQN RLA++LTG  +DI TE     +  +
Sbjct: 301 SVEVIEDENTARVIVDNSQLSLAIGKNGQNARLAAKLTGMRVDIKTENSSKEDSLE 356


>gi|294675008|ref|YP_003575624.1| transcription termination factor NusA [Prevotella ruminicola 23]
 gi|294472210|gb|ADE81599.1| transcription termination factor NusA [Prevotella ruminicola 23]
          Length = 408

 Score =  390 bits (1002), Expect = e-106,   Method: Composition-based stats.
 Identities = 133/413 (32%), Positives = 228/413 (55%), Gaps = 8/413 (1%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +++        K+IDR  ++SV+ +S +     ++G+  +  V +NP+ GD  + R   V
Sbjct: 1   MIETFQEFKETKNIDRTTLVSVLEESFRNVIAKIFGSDENFDVIVNPDKGDFEIHRNRVV 60

Query: 69  VE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           V   EV +   +I L  A+  +P  ++G  VS+ +    FGR A+ + +Q +  K+ E E
Sbjct: 61  VPDGEVMDENKEIELSEAQKIEPDYEVGEEVSEEVQFAKFGRRAILNLRQTLASKILELE 120

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            D  Y ++KDKV +++SG V ++    V+ +D   ++  + + E I  +N   G+ V++ 
Sbjct: 121 HDSLYQKYKDKVHQVVSGEVYQIWKREVLLIDDEGNELHLPKQEQIPGDNYHKGETVRAV 180

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + +V+ E   P+++LSRT P F+ +L   EVPEI +G++ +K V+R PG RAK+AV S D
Sbjct: 181 VKEVQNENNNPRIILSRTSPVFLERLLEAEVPEIQDGLITIKRVARIPGDRAKVAVESYD 240

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVGACVG++GSRV  +V EL +E ID++ +S ++  F+  AL PA ++ + LD++ 
Sbjct: 241 DRIDPVGACVGVKGSRVHGIVRELCNENIDVINYSANTQLFIQRALSPAKISSINLDQEN 300

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            + EV +  E++SLAIGR G N++LAS LT +TID+     +      D +     F   
Sbjct: 301 HKAEVYLQPEEVSLAIGRGGMNIKLASMLTEYTIDVFRVLNEGE---ADEDIYLDEFSD- 356

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
             +D+ +   + A G    + +       +      +EET  ++    R   E
Sbjct: 357 -EIDQWVIDAIKAIGLDTAKAVLNAPREMLIEKADLEEETVDQLLDVLRAEFE 408


>gi|15618236|ref|NP_224521.1| transcription elongation factor NusA [Chlamydophila pneumoniae
           CWL029]
 gi|15835851|ref|NP_300375.1| transcription elongation factor NusA [Chlamydophila pneumoniae
           J138]
 gi|16752722|ref|NP_444989.1| transcription elongation factor NusA [Chlamydophila pneumoniae
           AR39]
 gi|33241661|ref|NP_876602.1| transcription elongation factor NusA [Chlamydophila pneumoniae
           TW-183]
 gi|4376593|gb|AAD18465.1| N Utilization Protein A [Chlamydophila pneumoniae CWL029]
 gi|7189363|gb|AAF38280.1| N utilization substance protein A [Chlamydophila pneumoniae AR39]
 gi|8978690|dbj|BAA98526.1| N utilization protein A [Chlamydophila pneumoniae J138]
 gi|33236170|gb|AAP98259.1| transcription termination-antitermination factor [Chlamydophila
           pneumoniae TW-183]
          Length = 434

 Score =  390 bits (1002), Expect = e-106,   Method: Composition-based stats.
 Identities = 143/430 (33%), Positives = 231/430 (53%), Gaps = 9/430 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
              L+ I D +  EK I R  ++  +  +++ AA+      ++I V IN  TGDI +F  
Sbjct: 2   NKNLVAIFDYMEKEKGIQRSTIIGAIESALKIAAKKTLRDDANISVNINSRTGDIEVFCE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            E+VE  +N + +I L  AR+ DP   IG  +  P    +FGR+A  +A+Q+I QK+R A
Sbjct: 62  KEIVEICQNPSKEIPLDKAREYDPDCQIGQYMDVPFVSDNFGRIAAHAARQIIGQKLRHA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           ERD  Y E++ +V E +SG VKR   G N+I+DLG  + ++        E  + GD++ +
Sbjct: 122 ERDVIYEEYRHRVNETLSGVVKRFAKGSNLIIDLGKVEAILPTRFYPKTEKHKIGDKIYA 181

Query: 185 YIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            +Y+V   E  G +V+LSR+H +F+ +LF  EVPE+  G V++  ++R+ G R KLAV S
Sbjct: 182 LLYEVQESENGGAEVILSRSHAEFVKQLFIQEVPELEEGSVEIVKIAREAGYRTKLAVRS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           SD   DPVGA VGMRGSRV+ ++ EL DEKIDIV +SP S   + N L P  + K+ + E
Sbjct: 242 SDPKTDPVGAFVGMRGSRVKNIIRELNDEKIDIVNYSPVSTELLQNLLYPIEIQKIAILE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI-------NRQKDFN 356
           D   I ++V     +  IG+RG N RL S +  + +++    E +           +  +
Sbjct: 302 DDKVIAIVVNDADYATVIGKRGINARLISHILDYELEVQRMSEYNKLLEIQRLQLAEFDS 361

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
                 ++   + +++   L   G+  +  +     +++AS+ G   E A +I  +  +Y
Sbjct: 362 PHLDQPLEMEGISKLVIQNLEHAGYDTIRRVLLASANDLASVPGISLELAYKILEQVSKY 421

Query: 417 LEGIDITLQK 426
            E       +
Sbjct: 422 GESKVDEKPE 431


>gi|116515364|ref|YP_815985.1| transcription elongation factor NusA [Streptococcus pneumoniae D39]
 gi|116075940|gb|ABJ53660.1| transcription termination factor NusA [Streptococcus pneumoniae
           D39]
          Length = 378

 Score =  390 bits (1002), Expect = e-106,   Method: Composition-based stats.
 Identities = 128/380 (33%), Positives = 217/380 (57%), Gaps = 18/380 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ +
Sbjct: 2   SKEMLEAFRILEEDKRIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 62  REVVDEVFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y
Sbjct: 122 TRAITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S +
Sbjct: 182 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGANIKKITSKFHPARYDAKNDRMVPIEENIDVIEWVADPAEFIYNAI 301

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ DE    R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDQVIFDESDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEFEAM 361

Query: 351 RQKDFNERTQFFMQAINVDE 370
              +     +  ++   V+E
Sbjct: 362 ---EDAASVELEVENDTVEE 378


>gi|163839410|ref|YP_001623815.1| transcription elongation factor [Renibacterium salmoninarum ATCC
           33209]
 gi|162952886|gb|ABY22401.1| transcription elongation factor [Renibacterium salmoninarum ATCC
           33209]
          Length = 330

 Score =  389 bits (1001), Expect = e-106,   Method: Composition-based stats.
 Identities = 126/338 (37%), Positives = 194/338 (57%), Gaps = 24/338 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  E+ I  + ++  +  ++  A R   G     R EI+ ++G ++++      
Sbjct: 5   MSALRLLEREREIPLEKLIPTIEQALLVAYRKSPGAFEQARAEIDRKSGHVTIW------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A + D      G   D   P  FGR+A  +A+Q+I+Q++R+ E + 
Sbjct: 59  --------------ATEIDDDGAPVGEFED--TPAGFGRIAASTARQIILQRLRDVEDEN 102

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              EF+ K GE++SG +++    N V V+LG  +GV+   E    E    G R+++++ D
Sbjct: 103 VLGEFRGKEGELVSGQIQQGHNPNMVQVNLGTVEGVLPPTEQSPGERYPHGSRIRAFVVD 162

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V R Q+GP + LSR+HP  + KLF +EVPEI +  V++ A++R+ G R K+AV +    I
Sbjct: 163 VHRGQKGPSITLSRSHPGLVRKLFELEVPEIADKSVEIVALAREAGHRTKIAVKAHRPGI 222

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGR 307
           +  GAC+G  GSRV+AV+TEL DEKIDIV +S D ATF+ ++L P+ V  V + DE    
Sbjct: 223 NAKGACIGEMGSRVRAVMTELNDEKIDIVDFSEDPATFIASSLSPSRVNSVTITDEATRS 282

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
             VIVP  QLSLAIG+ GQN RLA++LTGW IDII++ 
Sbjct: 283 ARVIVPDYQLSLAIGKEGQNARLAAKLTGWRIDIISDA 320


>gi|103423295|emb|CAI98136.1| Transcription elongation factor NusA [Lactobacillus delbrueckii
           subsp. bulgaricus ATCC 11842]
          Length = 402

 Score =  389 bits (1001), Expect = e-106,   Method: Composition-based stats.
 Identities = 139/374 (37%), Positives = 221/374 (59%), Gaps = 8/374 (2%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +L+  D +   K I +DV++  M  ++  A +  YG   ++ ++ N + GD  +  L  V
Sbjct: 1   MLEAFDVLEKTKGIKQDVIVEAMKAALAAAYKKNYGLAENVEIDFNEKKGDFKVMALKTV 60

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           V+EV++   ++SLK A   + + ++G  +   + P +FGR A  +AKQV++Q++REAE  
Sbjct: 61  VDEVQDDRVEVSLKDALAINRAYEVGDTIKFEVTPKNFGRTAAATAKQVVMQRLREAENA 120

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVI-RRDETISRENLRPGDRVKSYIY 187
               E+     E+++GTV+R +   V V++GN + V+  + +TI  E+  P DRV+  + 
Sbjct: 121 HIVNEYSQYEDELVTGTVERTDNRFVYVNIGNVEAVMDIKCDTIPGEHYNPQDRVRVLVT 180

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V  + +G Q+ +SRT P  + + F  EVPEI++G V++ +++R+ G R K+AV S+D +
Sbjct: 181 KVGADGKGAQIRVSRTAPDVVKRFFEQEVPEIFDGTVEIMSIAREAGERTKIAVKSNDPN 240

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DEDV 305
           IDPVG CVG RGSRVQ VV  L  E IDIV +  D + ++ NAL PA V  V    ++D 
Sbjct: 241 IDPVGTCVGPRGSRVQNVVNALGGENIDIVQYEEDPSDYIANALNPAEVIAVQFEDEDDE 300

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            +  VIVP  QLSLAIG++GQNVRLA++LTG+ IDI  E E     + +  + T+     
Sbjct: 301 RKAFVIVPDYQLSLAIGKKGQNVRLAARLTGYKIDIRPESEVEFVDESEVEDETEVAE-- 358

Query: 366 INVDEIIAHLLVAE 379
              D+ +    V E
Sbjct: 359 ---DQDLQQAAVEE 369


>gi|324992028|gb|EGC23950.1| N utilization substance protein A [Streptococcus sanguinis SK405]
          Length = 420

 Score =  389 bits (1001), Expect = e-106,   Method: Composition-based stats.
 Identities = 137/418 (32%), Positives = 226/418 (54%), Gaps = 28/418 (6%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG      +E + ++GD  ++ +
Sbjct: 4   SKEMLEAFRILEEDKGIKKEDIIDAVTESLRSAYRRRYGQADSAAIEFDEKSGDFRVYTV 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++   +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 64  REVVDEVFDSRLEISLKDALAISSAYELRDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ +
Sbjct: 124 TRAITYNTYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVF 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S +
Sbjct: 184 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHN 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 244 PNVDAIGTIVGRGGANIKKITSKFHPAKYDPKSGRMVPTEENIDVIEWVADPAEFIYNAI 303

Query: 292 RPAIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ + ED  R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 304 APAEVDQVIFNQEDNKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGFRIDIKSATEFEEM 363

Query: 351 RQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVE 408
              +       F Q    +EI+A   V E          V  +E    +   EET +E
Sbjct: 364 ---EAANELGGFAQ--EAEEILADAAVLE--------TEVSAAEATDFDAAAEETVLE 408


>gi|325962805|ref|YP_004240711.1| transcription termination factor NusA [Arthrobacter
           phenanthrenivorans Sphe3]
 gi|323468892|gb|ADX72577.1| transcription termination factor NusA [Arthrobacter
           phenanthrenivorans Sphe3]
          Length = 326

 Score =  389 bits (1001), Expect = e-106,   Method: Composition-based stats.
 Identities = 120/338 (35%), Positives = 198/338 (58%), Gaps = 24/338 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  E+ I  D+++  +  ++  A     G     R E++ ++G ++++ +    
Sbjct: 5   MSALRLLEREREIPLDLLIPTIEQALLVAYHKSPGAFEKARAELDRKSGHVTIWAV---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
            E+++    I                       P  FGR+A  +A+Q+I+Q++R+ E D 
Sbjct: 61  -EIDDDGAPIG-----------------EFEHTPEGFGRIAASTARQIILQRLRDVEDDN 102

Query: 130 QYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              EFK + GE++SGT+++    ++I V+LG+ + ++   E +  E    G+R+++ + D
Sbjct: 103 VLGEFKGREGELVSGTIQQGNNPHMIQVNLGSVEALLPPPEQVPGEKYIHGNRLRALVID 162

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V R  +GP V LSR+HP  + KLF +EVPEI +  V++ A++R+ G R K+AV ++   I
Sbjct: 163 VHRGSKGPSVTLSRSHPGLVRKLFELEVPEIADRSVEIVALAREAGHRTKIAVKANVPGI 222

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGR 307
           +  GAC+G  GSRV+AV+TEL DEKIDIV +S + ATF+ +AL P+ V  V + DE    
Sbjct: 223 NAKGACIGEMGSRVRAVMTELNDEKIDIVDFSENPATFIASALSPSRVNSVTITDEATRS 282

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
             V+VP  QLSLAIG+ GQN RLA++LTGW IDI+++ 
Sbjct: 283 ARVVVPDYQLSLAIGKEGQNARLAAKLTGWRIDIVSDA 320


>gi|257063653|ref|YP_003143325.1| transcription termination factor NusA [Slackia heliotrinireducens
           DSM 20476]
 gi|256791306|gb|ACV21976.1| transcription termination factor NusA [Slackia heliotrinireducens
           DSM 20476]
          Length = 401

 Score =  389 bits (1001), Expect = e-106,   Method: Composition-based stats.
 Identities = 142/367 (38%), Positives = 212/367 (57%), Gaps = 37/367 (10%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL+    A+A+EK ID   ++  +  S+ K+ +S+     D RV I+  TG I ++ L+ 
Sbjct: 4   ELMDALQALAHEKKIDEIYLIERLEASLAKSYQSILNLEWDARVTIDRTTGQIYVYELV- 62

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
                   T ++        D            + P +  R+A Q+AK VI   VREA R
Sbjct: 63  -------PTGEM--------DEDGYWTEFEERDVTPSNVSRIAAQNAKSVIASIVREAGR 107

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIR----------RDETISRENL 176
              Y EF+D+VG+I++GTV +      IV +    +  +           R+E  + E  
Sbjct: 108 QSIYDEFRDRVGDIVTGTVLQGTPDFTIVKIRDGVEAELPHYDEKRNPGERNEVPAGERY 167

Query: 177 RPGDRVKSYIYDVRR----EQRG------PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
           R   R+K+ I DVR     E RG      P +++SRTHP  + +LF +EVPEIY+G+V++
Sbjct: 168 RHNQRIKTLIIDVRDPNSVENRGRGDQARPAIVVSRTHPDLIRRLFELEVPEIYDGMVEI 227

Query: 227 KAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATF 286
           K+++R+PG+R+K+AV S + ++DPVGACVG +GSRV+ VV ELR+E++D++ WS D A +
Sbjct: 228 KSIAREPGARSKVAVASREPNLDPVGACVGPKGSRVRMVVEELRNERVDVIQWSEDPAKY 287

Query: 287 VINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           V NAL PA VT+V +DE+     VIVP +QLSLAIG+ GQN RLA++LTGW IDI +   
Sbjct: 288 VANALSPARVTRVSVDEENQYATVIVPDDQLSLAIGKEGQNARLAARLTGWHIDIKSTSF 347

Query: 347 DSINRQK 353
                 +
Sbjct: 348 AGQPAPE 354


>gi|21905243|gb|AAM80105.1| putative transcription termination-antitermination factor
           [Streptococcus pyogenes MGAS315]
          Length = 381

 Score =  389 bits (1000), Expect = e-106,   Method: Composition-based stats.
 Identities = 129/360 (35%), Positives = 209/360 (58%), Gaps = 15/360 (4%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +L+    +  EK ID+  ++  + +S++ A +  YG      +E N +T D  +F + EV
Sbjct: 1   MLEAFRILEEEKHIDKADIIDAVTESLKSAYKRRYGQSESCVIEFNEKTADFQVFTVREV 60

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VEEV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R   R+
Sbjct: 61  VEEVFDSRLEISLKDALAISSAYELGDKIRFEESVNEFGRVAAQSAKQTIMEKMRRQMRE 120

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
             + E+K+  GEI++GTV+R +   + V+LG+ +  +   + I  E  +  DR+  Y+Y 
Sbjct: 121 VMFNEYKEHEGEIMTGTVERFDQRFIYVNLGSLEAQLSHQDQIPGETFKSHDRIDVYVYK 180

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V    +G  V +SR+HP+F+ ++   E+PE+++G V++ +VSR+ G R K+AV S + ++
Sbjct: 181 VENNPKGVNVFVSRSHPEFIKRIMEQEIPEVFDGTVEIMSVSREAGDRTKVAVRSHNPNV 240

Query: 249 DPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRPA 294
           D +G  VG  GS ++ V+++                +E ID++ W  D A F+ NA+ PA
Sbjct: 241 DAIGTIVGRGGSNIKKVISKFHPKRVDAKTGLEIPVEENIDVIQWVDDPAEFIYNAIAPA 300

Query: 295 IVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
            V  V+  DED+ R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E      +
Sbjct: 301 EVDMVLFDDEDLKRATVVVPDSKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEYDRLEAE 360


>gi|325280551|ref|YP_004253093.1| NusA antitermination factor [Odoribacter splanchnicus DSM 20712]
 gi|324312360|gb|ADY32913.1| NusA antitermination factor [Odoribacter splanchnicus DSM 20712]
          Length = 412

 Score =  389 bits (1000), Expect = e-106,   Method: Composition-based stats.
 Identities = 140/418 (33%), Positives = 235/418 (56%), Gaps = 12/418 (2%)

Query: 7   LELLQIADAVA--YE-KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLF 63
           +E + + D+ A   E K+IDR  ++ V+ D  +      YGT  +  + IN + GD+ ++
Sbjct: 1   MENINLIDSFAEFKEFKNIDRATLMRVLEDIFRNMLLKRYGTDENFDIIINIDKGDLEIW 60

Query: 64  RLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           R   VVE+  +EN   +I+L  A+  D   ++G  V+D +   DFGR +V + +Q +  +
Sbjct: 61  RNRTVVEDDKLENPNSEITLTEAKKIDEDYELGEEVTDEVKFKDFGRRSVLALRQNLSAR 120

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGD 180
           + E E+D  Y ++KDKVG+II G V +V    ++V D   ++ ++ + E I  +  + GD
Sbjct: 121 ILELEKDNVYNKYKDKVGQIILGEVYQVWKKEMLVLDDEGNELILPKQEQIPTDFFKKGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V      P ++LSRT P F+ +LF  EVPEI++G++ +K V R PG RAK+A
Sbjct: 181 SIKAVVIRVEMRNSNPYIILSRTSPVFLERLFENEVPEIFDGLITIKNVVRVPGERAKVA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S D  IDPVGACVGM+GSR+  +V ELR+E ID++ ++ +   ++  AL PA +  + 
Sbjct: 241 VESYDDRIDPVGACVGMKGSRIHGIVRELRNENIDVINYTNNLQLYITRALNPAKIKNIE 300

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DE   +  V +  E++SLAIG+ G N++LASQLTG+ ID+  E + +    ++ +    
Sbjct: 301 IDEAHKKANVYLDPEEVSLAIGKGGLNIKLASQLTGYDIDVYRELDQA----QEEDVNLD 356

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            F     ++  +   L   G    + +  +  SE+ S    + ET  E+    +   E
Sbjct: 357 EFAD--EIEGWVIDELKRVGCDTAKSVLELSESELESRTDLEIETIREVLNILKAEFE 412


>gi|312880100|ref|ZP_07739900.1| NusA antitermination factor [Aminomonas paucivorans DSM 12260]
 gi|310783391|gb|EFQ23789.1| NusA antitermination factor [Aminomonas paucivorans DSM 12260]
          Length = 375

 Score =  389 bits (1000), Expect = e-106,   Method: Composition-based stats.
 Identities = 130/351 (37%), Positives = 225/351 (64%), Gaps = 3/351 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           + ++    +  EK +  +++ S +  ++  A +   G    + V ++ E G+ISL  + +
Sbjct: 6   DFVRALRQIESEKGLSEEIIASSLEAALVSAYKKFKGGNQTVEVFLDFENGEISLCEVRQ 65

Query: 68  VVEEVENYTCQISLKVARDRD-PSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           VV E+EN   +++L  A       ++ G V+   + P +FGR+A Q+A+QVIIQ++++AE
Sbjct: 66  VVGEIENPDQEVTLDEAHAMGFADVESGDVIRIEVFPENFGRIAAQTARQVIIQRLKDAE 125

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRVKSY 185
           R   + EF D++G++++G++ + E   ++V +   ++ ++ R+E I  E   PGDR+K +
Sbjct: 126 RQVIFEEFADRIGDLVTGSIFKTEGDQILVRVNERTEAILPREERIVGEAYHPGDRLKFF 185

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + DVR+  RGP++++SRTHP  + +L  +E+PEI  G ++++ + R+ G+RAK+AV S D
Sbjct: 186 LLDVRQTTRGPRIVVSRTHPGLLRRLLELEIPEIQEGTIEIRNIVREAGARAKVAVASLD 245

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV-LDED 304
           +++DPVGACVG RG+R++++  EL  E+ID++VWS D   +V NAL PA + K+  + E 
Sbjct: 246 TNVDPVGACVGSRGTRIKSISGELGGERIDVIVWSSDPLAYVRNALSPAKIAKIEPILEQ 305

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF 355
              + V V  +QLSL+IG+ GQNVRLA++LTGW IDI   E + +   KD 
Sbjct: 306 EKALRVFVRPDQLSLSIGKAGQNVRLAARLTGWKIDIKVLEPERLPTLKDL 356


>gi|254821852|ref|ZP_05226853.1| transcription elongation factor NusA [Mycobacterium intracellulare
           ATCC 13950]
          Length = 348

 Score =  389 bits (1000), Expect = e-106,   Method: Composition-based stats.
 Identities = 129/345 (37%), Positives = 195/345 (56%), Gaps = 31/345 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  ++ I  + +L  +  ++  A R   G  +D R+EI+ +TG + +       
Sbjct: 5   MAALHAIEVDRGISVNELLETIKSALLTAYRHTEGHQNDARIEIDRKTGVVRV------- 57

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                        +AR+ D   ++     D   P  FGR+A  +A+QV++Q+ R+AE +R
Sbjct: 58  -------------IARETDEDDNVISEWDD--TPEGFGRIAATTARQVMLQRFRDAENER 102

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDR 181
            Y EF  + GEI++G ++R    N    V+V +G     S+GVI   E +  E+   G+R
Sbjct: 103 TYGEFSTREGEIVAGVIQRDSRANARGLVVVRMGTETKASEGVIPAAEQVPGESYEHGNR 162

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+ Y+  V R  R P + LSRTHP  + KLF +EVPEI +  V++ AV+R+ G R+K+AV
Sbjct: 163 VRCYVIGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADESVEIVAVAREAGHRSKIAV 222

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            S+   ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V  V +
Sbjct: 223 KSNLPGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDEDPARFVANALSPAKVVSVSI 282

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +D       V+VP  QLSLAIG+ GQN RLA++LTGW IDI  + 
Sbjct: 283 IDPSARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRGDS 327


>gi|284036133|ref|YP_003386063.1| NusA antitermination factor [Spirosoma linguale DSM 74]
 gi|283815426|gb|ADB37264.1| NusA antitermination factor [Spirosoma linguale DSM 74]
          Length = 414

 Score =  389 bits (999), Expect = e-106,   Method: Composition-based stats.
 Identities = 137/415 (33%), Positives = 239/415 (57%), Gaps = 11/415 (2%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L++     A  K+IDR  +++++ D  +   R  YGT  +  V IN E+GD+ ++R  E+
Sbjct: 6   LIESFADFARSKNIDRPTMIAILEDVFRTMIRKKYGTDENFDVIINAESGDLEMWRTREI 65

Query: 69  V----EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           V    E++ +Y   I L  AR      ++G  V++ +   DFGR  VQ+A+Q +IQK+++
Sbjct: 66  VDDNSEDIWDYDK-IPLAEARKIQDDFEVGEQVAEEVKLDDFGRRVVQTARQTLIQKIKD 124

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVK 183
            E++  Y ++KD+VG++++  V ++    +I VD  +++  + R E IS++  R G+ VK
Sbjct: 125 MEKELLYQKYKDQVGDLVTAEVYQLLKHEIILVDGESNELSLPRTEQISKDRYRKGEPVK 184

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           + I  V      P+++LSRT P F+ +LF +EVPEIY+G++ ++ + R+PG RAK+AV S
Sbjct: 185 AVISRVDMLNGTPKIVLSRTSPVFLERLFEIEVPEIYDGLISIRKIVREPGERAKVAVES 244

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D  IDPVGACVGM+GSR+  +V EL +E ID++ ++ +    +  AL PA ++ + +D 
Sbjct: 245 YDDRIDPVGACVGMKGSRIHGIVRELGNENIDVINYTENLELLISRALSPAKISSMQIDR 304

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           +  R+ V +  +Q+SLAIG+ GQN++LA +L    ID+  + E      ++ +E      
Sbjct: 305 ETKRVSVFLKPDQVSLAIGKGGQNIKLAGRLVDMEIDVFRDNE-----GQEDDEDVDLME 359

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
            +  +DE +   L   G    + +  +   E+      +E+T  EI    ++  E
Sbjct: 360 FSDEIDEWMIQELRKVGLDTAKSVLALNKEELVRRTDLEEDTVEEILNILKQEFE 414


>gi|317133695|ref|YP_004093009.1| NusA antitermination factor [Ethanoligenens harbinense YUAN-3]
 gi|315471674|gb|ADU28278.1| NusA antitermination factor [Ethanoligenens harbinense YUAN-3]
          Length = 370

 Score =  389 bits (999), Expect = e-106,   Method: Composition-based stats.
 Identities = 135/342 (39%), Positives = 202/342 (59%), Gaps = 2/342 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E     +A+  EK I    +   +A++I  A +  Y T  +  VE++P+     +   
Sbjct: 2   NAEFFDALEALEKEKGIPEGHLAEKIANAITIAVKHNYKTGDNTIVELDPQKRIFRVALR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             V E VEN   +I L  A+  DP + IG  V   L    FGR+A Q+AK VI Q +RE 
Sbjct: 62  KTVSETVENPQMEIYLDEAKAIDPRVTIGDTVDIELDTRKFGRIAAQTAKHVIRQGIREV 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEY--GNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           ER+    E   +  E+++  + R++   G+  +D+G ++ V+  +E I  E LR G  VK
Sbjct: 122 EREIIKDESMSRQHEMVTAGISRIDSVTGSAYLDIGRAEAVMPANEQIPGEQLREGQMVK 181

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            Y+ +V+  ++G + L+SRTHP  + +LF +EVPEIY+G V++  ++R+PGSR K+AV S
Sbjct: 182 VYVVEVKNGEKGVRTLVSRTHPGMIRRLFELEVPEIYDGTVEIMGIAREPGSRTKVAVAS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            +  +D +G+C+G +G RV  +V EL  EKID++ ++ D   ++  AL PA V +V  DE
Sbjct: 242 KNEDVDAIGSCIGPKGGRVGNIVEELHGEKIDLIPYAQDIGQYIAAALAPAAVVEVTTDE 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
              R  VIVP +QLSLAIG RGQNVRLA++LTGW IDI  E 
Sbjct: 302 KERRARVIVPDDQLSLAIGNRGQNVRLAAKLTGWRIDIRPES 343


>gi|319939747|ref|ZP_08014104.1| transcription termination factor NusA [Streptococcus anginosus
           1_2_62CV]
 gi|319811085|gb|EFW07396.1| transcription termination factor NusA [Streptococcus anginosus
           1_2_62CV]
          Length = 397

 Score =  389 bits (999), Expect = e-106,   Method: Composition-based stats.
 Identities = 127/362 (35%), Positives = 209/362 (57%), Gaps = 15/362 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG      +E N +TGD  ++ +
Sbjct: 2   SKEMLEAFRILEEDKGIKKEDIIEAVTESLRSAYRRRYGQADSAAIEFNEKTGDFRVYTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+EV +   +ISLK A     + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 62  REVVDEVFDSRLEISLKDALAISSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y ++K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ +
Sbjct: 122 TRAITYNKYKEHENEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVF 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +VSR+ G R K+AV S +
Sbjct: 182 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVSREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            +ID +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNIDAIGTIVGRGGANIKKITSKFHPAKYDAKSDRMIPIEENIDVIEWVADPAEFIYNAI 301

Query: 292 RPAIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ D +D     V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDQVIFDSQDSKHALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEFEAM 361

Query: 351 RQ 352
            +
Sbjct: 362 EE 363


>gi|116669975|ref|YP_830908.1| NusA antitermination factor [Arthrobacter sp. FB24]
 gi|116610084|gb|ABK02808.1| NusA antitermination factor [Arthrobacter sp. FB24]
          Length = 326

 Score =  388 bits (998), Expect = e-105,   Method: Composition-based stats.
 Identities = 121/338 (35%), Positives = 198/338 (58%), Gaps = 24/338 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  E+ I  D+++  +  ++  A     G     R E++ ++G ++++      
Sbjct: 5   MSALRLLEREREIPLDLLIPTIEQALLVAYHKSPGAFEKARAELDRKSGHVTIW------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A + D      G   D   P  FGR+A  +A+Q+I+Q++R+AE D 
Sbjct: 59  --------------ATEIDDDGAPIGEFED--TPAGFGRIAASTARQIILQRLRDAEDDN 102

Query: 130 QYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              +FK + GE+++GT+++    ++I V+LG  + ++   E +  E    G+R+++++ D
Sbjct: 103 VLGQFKGREGELVAGTIQQGNNPHMIQVNLGTVEALLPPPEQVPGEKYIHGNRLRAFVID 162

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V R  +GP + LSR+HP  + KLF +EVPEI +  V++ A++R+ G R K+AV ++   I
Sbjct: 163 VHRGTKGPSITLSRSHPGLVRKLFELEVPEIADRSVEIVALAREAGHRTKIAVKANIPGI 222

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGR 307
           +  GAC+G  GSRV+AV+TEL DEKIDIV +S D ATF+ +AL P+ V  V + DE    
Sbjct: 223 NAKGACIGEMGSRVRAVMTELNDEKIDIVDFSEDPATFIASALSPSRVNSVTITDEATRS 282

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
             V+VP  QLSLAIG+ GQN RLA++LTGW IDI+++ 
Sbjct: 283 ARVVVPDYQLSLAIGKEGQNARLAAKLTGWRIDIVSDA 320


>gi|295132451|ref|YP_003583127.1| transcription elongation factor NusA [Zunongwangia profunda SM-A87]
 gi|294980466|gb|ADF50931.1| transcription elongation factor NusA [Zunongwangia profunda SM-A87]
          Length = 410

 Score =  388 bits (998), Expect = e-105,   Method: Composition-based stats.
 Identities = 137/417 (32%), Positives = 230/417 (55%), Gaps = 12/417 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            L L+        +K IDR  +++++ D  + A +  YG   +  + +NP+ GD+ ++R 
Sbjct: 3   NLALIDSFSEFKDDKLIDRVTLMAILEDVFRNALKKKYGEDDNFDIIVNPDKGDLEIWRN 62

Query: 66  LEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV   EVE+   +ISL  AR  +P  ++G  VS+ +   D GR A+ + +Q +I K+ 
Sbjct: 63  RVVVADGEVEDPNQEISLAEARKIEPDFEVGEDVSEEVKLKDLGRRAILALRQNLISKIH 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRV 182
           E +    Y +FKD  GEI +  V  + +  +I +D   ++ V+ +D  I  +  R G+ V
Sbjct: 123 EHDNTNIYKQFKDLEGEIYTAEVHHIRHRAIILLDDEGNEIVLPKDRQIPSDFFRKGENV 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  I  V  +   P ++LSRT P F+ KLF  E+PE+++G++ +K V R PG +AK+AV 
Sbjct: 183 RGVIESVELKGNKPSIILSRTAPAFLEKLFEQEIPEVFDGLITIKKVVRVPGEKAKVAVD 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDPVGACVGM+GSR+ ++V EL +E ID++ ++ +   F+  AL PA +T + +D
Sbjct: 243 SYDDRIDPVGACVGMKGSRIHSIVRELGNENIDVINYTNNDQLFITRALSPAKITSIKID 302

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+  R EV++  E++S AIGR G N+RLA QLTG+ ID+  E  +      +F++     
Sbjct: 303 EENKRAEVMLKPEEVSKAIGRGGHNIRLAGQLTGYEIDVFREGVEEDVELSEFSD----- 357

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
                +++ +       G    + +    ++++      +EET  E+    RE  E 
Sbjct: 358 ----EIEDWVIKEFAKIGLDTAKSILEQDVNDLIKRTDLEEETVREVLKVLREEFEE 410


>gi|32473747|ref|NP_866741.1| transcription elongation factor NusA [Rhodopirellula baltica SH 1]
 gi|32444283|emb|CAD74281.1| N utilization substance protein A [Rhodopirellula baltica SH 1]
          Length = 498

 Score =  388 bits (998), Expect = e-105,   Method: Composition-based stats.
 Identities = 152/407 (37%), Positives = 232/407 (57%), Gaps = 37/407 (9%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  ++L+  D++  +K+ID +++   +  ++Q AA+  YG  SD+ V I+ + G I    
Sbjct: 2   NPQDILRYVDSLHRDKNIDPELLFQAIESALQSAAKKQYGEESDVIVSISRDNGAI---- 57

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
                                          +  +PL     GR+  Q+AKQVIIQKVRE
Sbjct: 58  ----------------------------AATLAGEPLGDDQIGRIGAQTAKQVIIQKVRE 89

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AERD   LE++D++GEI+SG + R + G   V+LGN + ++ R E I  E+L   +RV++
Sbjct: 90  AERDALMLEYRDQIGEIVSGMIGRADGGVATVNLGNVEAILPRSEQIPGESLHANERVRA 149

Query: 185 YIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            +++VR       +V+LSRT PQF+ +LF  E+PE+ +G++ +K++SR+PG R+K+AV S
Sbjct: 150 IVFEVRPSGGNRVRVVLSRTRPQFVQRLFEQEIPELNDGVIAIKSISREPGYRSKVAVSS 209

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D  IDP+  CVG RGSR++AV  EL  E ID+V +  D    + NAL+PA V +V+L +
Sbjct: 210 EDQQIDPISVCVGYRGSRIKAVREELAGEHIDVVRYDSDPEVLIPNALQPAEVDQVLLCD 269

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
            +GR  V+V ++QLSLAIGRRGQNVRLAS+L GW I+I+T  E               F 
Sbjct: 270 MIGRAIVLVQEDQLSLAIGRRGQNVRLASKLCGWDIEIMTNAELEE----QIERAVGGFS 325

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
           Q   + E IA  LV +G+   ++L+ ++      + G  E     I 
Sbjct: 326 QIPGITEEIAQALVEQGYLSYDDLSVIEPDLFMEMSGLSEADVDRIV 372


>gi|220912195|ref|YP_002487504.1| NusA antitermination factor [Arthrobacter chlorophenolicus A6]
 gi|219859073|gb|ACL39415.1| NusA antitermination factor [Arthrobacter chlorophenolicus A6]
          Length = 326

 Score =  388 bits (997), Expect = e-105,   Method: Composition-based stats.
 Identities = 122/338 (36%), Positives = 198/338 (58%), Gaps = 24/338 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  E+ I  D+++  +  ++  A     G     R E++ ++G ++++ +    
Sbjct: 5   MSALRLLEREREIPLDLLIPTIEQALLVAYHKSPGAFEKARAELDRKSGHVTIWAV---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                           + D      G   D   P  FGR+A  +A+Q+I+Q++R+ E D 
Sbjct: 61  ----------------EIDDDGAPIGEFED--TPAGFGRIAASTARQIILQRLRDVEDDN 102

Query: 130 QYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              EFK + GE++SGT+++    ++I V+LG+ + ++   E +  E    G+R+++ + D
Sbjct: 103 VLGEFKGREGELVSGTIQQGNNPHMIQVNLGSLEALLPPPEQVPGEKYIHGNRLRALVID 162

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V R  +GP V LSR+HP  + KLF +EVPEI +  V++ A++R+ G R K+AV ++ S I
Sbjct: 163 VHRGTKGPSVTLSRSHPGLVRKLFELEVPEIADHSVEIVALAREAGHRTKIAVKANASGI 222

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGR 307
           +  GAC+G  GSRV+AV+TEL DEKIDIV +S + ATF+ +AL P+ V  V + DE    
Sbjct: 223 NAKGACIGEMGSRVRAVMTELNDEKIDIVDFSENPATFIASALSPSRVNSVTITDEATRS 282

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
             V+VP  QLSLAIG+ GQN RLA++LTGW IDI+++ 
Sbjct: 283 ARVVVPDYQLSLAIGKEGQNARLAAKLTGWRIDIVSDA 320


>gi|327542469|gb|EGF28948.1| transcription elongation factor NusA [Rhodopirellula baltica WH47]
          Length = 498

 Score =  387 bits (996), Expect = e-105,   Method: Composition-based stats.
 Identities = 152/407 (37%), Positives = 232/407 (57%), Gaps = 37/407 (9%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  ++L+  D++  +K+ID +++   +  ++Q AA+  YG  SD+ V I+ + G I    
Sbjct: 2   NPQDILRYVDSLHRDKNIDPELLFQAIESALQSAAKKQYGEESDVIVSISRDNGAI---- 57

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
                                          +  +PL     GR+  Q+AKQVIIQKVRE
Sbjct: 58  ----------------------------AATLAGEPLGDDQIGRIGAQTAKQVIIQKVRE 89

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AERD   LE++D++GEI+SG + R + G   V+LGN + ++ R E I  E+L   +RV++
Sbjct: 90  AERDALMLEYRDQIGEIVSGMIGRADGGVATVNLGNVEAILPRSEQIPGESLHANERVRA 149

Query: 185 YIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            +++VR       +V+LSRT PQF+ +LF  E+PE+ +G++ +K++SR+PG R+K+AV S
Sbjct: 150 IVFEVRPSGGNRVRVVLSRTRPQFVQRLFEQEIPELNDGVIAIKSISREPGYRSKVAVSS 209

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D  IDP+  CVG RGSR++AV  EL  E ID+V +  D    + NAL+PA V +V+L +
Sbjct: 210 EDQQIDPISVCVGYRGSRIKAVREELAGEHIDVVRYDSDPEVLIPNALQPAEVDQVLLCD 269

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
            +GR  V+V ++QLSLAIGRRGQNVRLAS+L GW I+I+T  E               F 
Sbjct: 270 MIGRAIVLVQEDQLSLAIGRRGQNVRLASKLCGWDIEIMTNAELEE----QIERAVGGFS 325

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
           Q   + E IA  LV +G+   ++L+ ++      + G  E     I 
Sbjct: 326 QIPGITEEIAQALVEQGYLSYDDLSVIEPDLFMEMSGLSEADVDRIV 372


>gi|262066535|ref|ZP_06026147.1| transcription termination factor NusA [Fusobacterium periodonticum
           ATCC 33693]
 gi|291379769|gb|EFE87287.1| transcription termination factor NusA [Fusobacterium periodonticum
           ATCC 33693]
          Length = 353

 Score =  387 bits (996), Expect = e-105,   Method: Composition-based stats.
 Identities = 127/354 (35%), Positives = 219/354 (61%), Gaps = 4/354 (1%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M + +    L+  D +  EK I ++ VL  +  ++  A +  YG   ++ V ++ E+G+I
Sbjct: 1   MKAKDSKIFLEALDELEKEKGISKESVLEAIELALLAAYKKNYGEDENVEVIVDRESGEI 60

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            +     VV+  ++ +   +ISL+ A++      IG V+   +   +F R AVQ+ KQ++
Sbjct: 61  KVLASKTVVDADDLLDPNEEISLEDAKEIKKRAKIGDVLKFEVSCDNFRRNAVQNGKQIV 120

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLR 177
           IQKVREAER+  Y +FK++  +I++G ++R++   N+ +++   + ++   E    +  R
Sbjct: 121 IQKVREAEREHIYEKFKERENDIVTGIIRRIDNKKNIFIEIDGIELILPPAEQSYSDIYR 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+R+K ++Y+V +  + P++L+SR +   + KLF +E+PEI  GI+++K+V+R+ GSRA
Sbjct: 181 VGERIKVFVYNVEKTNKFPKILISRKNEGLLKKLFEIEIPEISAGIIEIKSVAREAGSRA 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV+S   +ID VGAC+G +G+R++ +V EL  E+IDIV W      FV   L PA+V+
Sbjct: 241 KVAVYSQVPNIDTVGACIGQKGTRIKNIVDELNGERIDIVEWKESMEQFVSAVLSPAVVS 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINR 351
            V + ED G  +V+V   QLSLAIG+ GQN RLA++LTG  +DI   E++  + 
Sbjct: 301 SVEILED-GTAKVLVEPSQLSLAIGKNGQNARLAARLTGTRVDIKVLEKEEDDE 353


>gi|169630217|ref|YP_001703866.1| transcription elongation factor NusA [Mycobacterium abscessus ATCC
           19977]
 gi|169242184|emb|CAM63212.1| Transcription elongation protein NusA [Mycobacterium abscessus]
          Length = 331

 Score =  387 bits (996), Expect = e-105,   Method: Composition-based stats.
 Identities = 133/344 (38%), Positives = 194/344 (56%), Gaps = 31/344 (9%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
             + +A +K I  D  + ++  ++  A R   G   + R+EI+ +TG + +         
Sbjct: 7   AVNLMAADKGITVDEAIDIIKSALLTAYRHTDGHEPNARIEIDRKTGVVRVM-------- 58

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
                       AR+ D   ++  +      P  FGR+A  +A+QV  Q VR+AE + ++
Sbjct: 59  ------------ARETDQDGNL--ITEWDATPEGFGRIAATTARQVFQQGVRDAENEHKF 104

Query: 132 LEFKDKVGEIISGTVKRVEYGN----VIVDLG----NSDGVIRRDETISRENLRPGDRVK 183
            EF  + GEI+ G ++R    N    V+V +G     S+GVI   E +  E    GDR++
Sbjct: 105 GEFSTREGEIVGGVIQRDARANARGLVVVRMGSETKGSEGVIPSAEQVPGEEYHHGDRLR 164

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            Y+  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV S
Sbjct: 165 CYVVGVSRGAREPLITLSRTHPNLVRKLFSLEVPEISDGSVEIVAVAREAGHRSKIAVAS 224

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLD 302
             S ++  GAC+G  G RV+ V++EL  EKIDI+ + PD A FV NAL PA V  V V+D
Sbjct: 225 KVSGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDPDPARFVANALSPAKVVSVSVID 284

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           E      VIVP  QLSLAIG+ GQN RLA++LTGW IDI ++ +
Sbjct: 285 EAGKAARVIVPDFQLSLAIGKEGQNARLAARLTGWRIDIRSDAD 328


>gi|257791560|ref|YP_003182166.1| NusA antitermination factor [Eggerthella lenta DSM 2243]
 gi|317490693|ref|ZP_07949159.1| transcription termination factor NusA [Eggerthella sp. 1_3_56FAA]
 gi|325833259|ref|ZP_08165765.1| transcription termination factor NusA [Eggerthella sp. HGA1]
 gi|257475457|gb|ACV55777.1| NusA antitermination factor [Eggerthella lenta DSM 2243]
 gi|316910224|gb|EFV31867.1| transcription termination factor NusA [Eggerthella sp. 1_3_56FAA]
 gi|325485641|gb|EGC88109.1| transcription termination factor NusA [Eggerthella sp. HGA1]
          Length = 405

 Score =  387 bits (996), Expect = e-105,   Method: Composition-based stats.
 Identities = 139/359 (38%), Positives = 213/359 (59%), Gaps = 36/359 (10%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL++   A+A+E+ ID   ++  +  S+ K+ + +     D RV I+ +TG I ++ L+ 
Sbjct: 5   ELIEALQALAHERKIDEFYLIERLEASLAKSYQHILDLEWDARVTIDRQTGHIYVYELVP 64

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V E  E                + +        + P D  R+A Q+AK VI   VREA R
Sbjct: 65  VGEPDEE---------------TGEYSEFEERDVTPDDVSRIAAQNAKGVIASIVREAGR 109

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIR----------RDETISRENL 176
              Y EF D+VG++++GTV +      I+ +    +  +           R+E  S E+ 
Sbjct: 110 QSIYEEFSDRVGDLVTGTVLQGTPDFTIIKIRDGVEAELPHYDVKRNPNERNERPSNEHY 169

Query: 177 RPGDRVKSYIYDVRR----------EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
           R   R+K  I +VR           EQ  P +++SRTHP  + +LF +EVPEIY+G+V++
Sbjct: 170 RHNQRLKVLIIEVRDPNSDAPKMRGEQARPAIVVSRTHPDLIRRLFEIEVPEIYDGMVEI 229

Query: 227 KAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATF 286
           K+++R+PG+R+K+AV S ++++DPVGACVG +GSRV+ VV ELR+E++D++ W+ D A +
Sbjct: 230 KSIAREPGARSKIAVASREANLDPVGACVGPKGSRVRMVVEELRNERVDVIQWAEDPAVY 289

Query: 287 VINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           V NAL PA VT+VV+DED     V+VP +QLSLAIG+ GQN RLA++LTGW IDI +  
Sbjct: 290 VANALSPAKVTRVVIDEDNHYATVVVPDDQLSLAIGKEGQNARLAARLTGWHIDIKSAS 348


>gi|15902522|ref|NP_358072.1| transcription elongation factor NusA [Streptococcus pneumoniae R6]
 gi|15458048|gb|AAK99282.1| Transcription termination [Streptococcus pneumoniae R6]
          Length = 378

 Score =  387 bits (995), Expect = e-105,   Method: Composition-based stats.
 Identities = 127/380 (33%), Positives = 216/380 (56%), Gaps = 18/380 (4%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +TGD +++ +
Sbjct: 2   SKEMLEAFRILEEDKRIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEKTGDFTVYTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVV+E  +   +ISLK A   + + ++G  +     P +FGRVA QSAKQ I++K+R+ 
Sbjct: 62  REVVDEAFDSRLEISLKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
            R   Y  +K+   EI+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y
Sbjct: 122 TRAITYNTYKEHEQEIMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +Y V    RG  V +SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S +
Sbjct: 182 VYKVEDNPRGVNVFVSRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELR--------------DEKIDIVVWSPDSATFVINAL 291
            ++D +G  VG  G+ ++ + ++                +E ID++ W  D A F+ NA+
Sbjct: 242 PNVDAIGTIVGRGGANIKKITSKFHPARYDAKNDRMVPIEENIDVIEWVADPAEFIYNAI 301

Query: 292 RPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            PA V +V+ DE    R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E    
Sbjct: 302 APAEVDQVIFDESDSKRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEFEAM 361

Query: 351 RQKDFNERTQFFMQAINVDE 370
              +     +  ++   V+E
Sbjct: 362 ---EDAASVELEVENDTVEE 378


>gi|327403853|ref|YP_004344691.1| NusA antitermination factor [Fluviicola taffensis DSM 16823]
 gi|327319361|gb|AEA43853.1| NusA antitermination factor [Fluviicola taffensis DSM 16823]
          Length = 411

 Score =  387 bits (995), Expect = e-105,   Method: Composition-based stats.
 Identities = 138/417 (33%), Positives = 234/417 (56%), Gaps = 10/417 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N LEL++        KSID+  +  V+ D  +   +  + T   I V +N + GD+ +F 
Sbjct: 2   NSLELVESFSEFKELKSIDKQTMQHVLEDVFRAMLKKKFNTDEHIDVIVNIDKGDVQIFV 61

Query: 65  LLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
             E+V   EVE+   +I+   A   +P  +IG  VS+     DFGR  + S +Q +I ++
Sbjct: 62  NKEIVADGEVEDQNTEIAYSDAIKIEPDFEIGEEVSEEFRFNDFGRRNILSLRQNLISRI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDR 181
            E E+D  Y ++K+++GEII+G V +V    ++V D  N++ ++ + E I  +  + G+ 
Sbjct: 122 LELEKDHLYKKYKERIGEIITGEVYQVWKKEIMVLDDENNELILPKSEQIPSDYFKKGES 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++ +  V      P ++LSR  P+F+ +LF +EVPE+++G++ +K + R+PG RAK+AV
Sbjct: 182 IRAVVSKVDMRNSSPVIILSRIAPEFLERLFELEVPEVFDGLITIKRIVREPGERAKVAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  IDPVGACVGM+GSR+  +V ELR+E ID++ ++ +   F+  AL PA +T + +
Sbjct: 242 ESYDDRIDPVGACVGMKGSRIHGIVRELRNENIDVINFTSNPKLFIQRALSPAKITNIEI 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  R  V +  +Q+SLAIG+ G N+RLA +LTG+ ID+  + E         +   + 
Sbjct: 302 DEEQKRASVFLKPDQVSLAIGKGGYNIRLAGKLTGFEIDVFRDGESDNE-----DVDLEE 356

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           F     +D  I   L A G    + +  + ++++      +EET  E+    R   E
Sbjct: 357 FAD--EIDSWILDELKAVGCDTAKSVLELTVADLVQRTDLEEETVQEVLRILRSEFE 411


>gi|260654723|ref|ZP_05860211.1| transcription termination factor NusA [Jonquetella anthropi E3_33
           E1]
 gi|260630438|gb|EEX48632.1| transcription termination factor NusA [Jonquetella anthropi E3_33
           E1]
          Length = 358

 Score =  387 bits (995), Expect = e-105,   Method: Composition-based stats.
 Identities = 131/352 (37%), Positives = 223/352 (63%), Gaps = 5/352 (1%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           L+ ++   ++A E ++  DV+++ +  ++  A R      ++  V +N ETG++ ++ + 
Sbjct: 5   LDCIRALKSLAEESNLSEDVIVASLEAALGAAYRKYREGTTEPEVHLNRETGEVEIYDVR 64

Query: 67  EVVEEVENYTCQISLKVA-RDRDPSIDIGGVVSDPL--PPMDFGRVAVQSAKQVIIQKVR 123
              E     T +I+   A +     +  G +V  P+   P  FGR+A Q+A+QVIIQ+++
Sbjct: 65  RTTENPVAGTSEITQAEAAQMGYSDVQPGDLVRVPVYVHPEKFGRIAAQTARQVIIQRLK 124

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
           +AER+  + EF +K+G+++ G V R E   V++ +G  S+ +++R+E I  E    G R+
Sbjct: 125 DAEREVVFNEFSEKIGDLVLGEVIRSENDQVLIHIGERSEALLQREERIPNEKYDIGMRL 184

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           + ++ DVR+  RGP+++LSRTHP  + +L  +E+PEI +G V++K + R+ G+RAK+AV 
Sbjct: 185 RFFLLDVRQTTRGPRIVLSRTHPGLLRRLMELEIPEIADGTVEIKGIVREAGARAKVAVA 244

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           ++D S+DP+GACVG  G+R++++ +EL +EKIDIV+W  D  T+V N+L PA   K+ L 
Sbjct: 245 TTDPSVDPLGACVGASGARIRSISSELCEEKIDIVLWDEDPLTYVKNSLSPATPVKIELV 304

Query: 303 ED-VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
            D    + V V  +QLSLAIG+ GQNVRLA++LTGW +DI + E+      +
Sbjct: 305 PDAERSVRVFVKPDQLSLAIGKTGQNVRLAARLTGWKLDIQSSEKLDEPAGQ 356


>gi|294783786|ref|ZP_06749110.1| transcription termination factor NusA [Fusobacterium sp. 1_1_41FAA]
 gi|294480664|gb|EFG28441.1| transcription termination factor NusA [Fusobacterium sp. 1_1_41FAA]
          Length = 353

 Score =  387 bits (995), Expect = e-105,   Method: Composition-based stats.
 Identities = 128/354 (36%), Positives = 220/354 (62%), Gaps = 4/354 (1%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M + +    L+  D +  EK I ++ VL  +  ++  A +  YG   ++ V ++ E+G+I
Sbjct: 1   MKAKDSKIFLEALDELEKEKGISKESVLEAIELALLAAYKKNYGEDENVEVIVDRESGEI 60

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            +     VV+  ++ +   +ISL+ A++    + IG V+   +   +F R AVQ+ KQ++
Sbjct: 61  KVLASKTVVDADDLLDPNEEISLEDAKEIKKRVKIGDVLKFEVSCDNFRRNAVQNGKQIV 120

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLR 177
           IQKVREAER+  Y +FK++  +I+SG ++R++   N+ +++   + ++   E    +  R
Sbjct: 121 IQKVREAEREHIYEKFKERENDIVSGIIRRIDNKKNIFIEIDGIELILPPAEQSYSDIYR 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+R+K ++Y+V +  + P++L+SR +   + KLF +E+PEI  GI+++K+V+R+ GSRA
Sbjct: 181 VGERIKVFVYNVEKTNKFPKILISRKNEGLLKKLFEIEIPEISAGIIEIKSVAREAGSRA 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV+S   +ID VGAC+G +G+R++ +V EL  E+IDIV W      FV   L PA+V+
Sbjct: 241 KVAVYSQVPNIDTVGACIGQKGTRIKNIVDELNGERIDIVEWKESMEQFVSAVLSPAVVS 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINR 351
            V + ED G  +V+V   QLSLAIG+ GQN RLA++LTG  +DI   E++  + 
Sbjct: 301 SVEILED-GTAKVLVEPSQLSLAIGKNGQNARLAARLTGTRVDIKVLEKEEDDE 353


>gi|15827820|ref|NP_302083.1| transcription elongation factor NusA [Mycobacterium leprae TN]
 gi|221230297|ref|YP_002503713.1| transcription elongation factor NusA [Mycobacterium leprae Br4923]
 gi|20139308|sp|Q9Z5J1|NUSA_MYCLE RecName: Full=Transcription elongation protein nusA
 gi|4455676|emb|CAB36568.1| putative transcriptional termination/antitermination factor
           [Mycobacterium leprae]
 gi|13093372|emb|CAC30509.1| probable transcription termination/antitermination factor
           [Mycobacterium leprae]
 gi|219933404|emb|CAR71653.1| probable transcription termination/antitermination factor
           [Mycobacterium leprae Br4923]
          Length = 347

 Score =  387 bits (994), Expect = e-105,   Method: Composition-based stats.
 Identities = 128/345 (37%), Positives = 196/345 (56%), Gaps = 31/345 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  ++ I  + +L  +  ++  A R   G   D R++I+ +TG + +       
Sbjct: 5   MAALHAIEMDRGISVNELLDTIRSALLTAYRHTQGHQIDARIDIDRKTGVVKV------- 57

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                        +AR+ D   ++     D   P  FGR+A  +A+QV++Q+ R+AE +R
Sbjct: 58  -------------IAREVDDDGNVISEWDD--TPEGFGRIAATTARQVMLQRFRDAENER 102

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDR 181
            Y EF  + GEI++G ++R    N    V+V +G+    S+GVI   E +  E+   G+R
Sbjct: 103 TYGEFSTREGEIVAGVIQRDSRANARGLVVVRMGSETKASEGVIPAAEQVLGESYEHGNR 162

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ Y+  V R  R P + LSRTHP  + KLF +EVPEI +G V++ +V+R+ G R+K+AV
Sbjct: 163 LRCYVVGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVSVAREAGHRSKIAV 222

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            S    ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V  V V
Sbjct: 223 ASRVPGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDEDPARFVANALSPAKVVSVSV 282

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +D+      V+VP  QLSLAIG+ GQN RLA++LTGW IDI  + 
Sbjct: 283 IDQTARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRGDS 327


>gi|312194982|ref|YP_004015043.1| transcription termination factor NusA [Frankia sp. EuI1c]
 gi|311226318|gb|ADP79173.1| transcription termination factor NusA [Frankia sp. EuI1c]
          Length = 391

 Score =  386 bits (993), Expect = e-105,   Method: Composition-based stats.
 Identities = 133/349 (38%), Positives = 196/349 (56%), Gaps = 38/349 (10%)

Query: 13  ADAVAYEKSIDRDVVLSVMADSIQKAARSLY-----GTMS-----DIRVEINPETGDISL 62
              +  E  +  + ++  +  ++ KA +        G        D RV ++ ++G++++
Sbjct: 8   LRGIEREYDLSFETLVEAIETALLKAYQHTRVQQDAGDEEEPRVADARVVVDRKSGEVTV 67

Query: 63  FRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
                                A++  P    G        P DFGR+A  +AKQVI+Q++
Sbjct: 68  L--------------------AQEIQPD---GSAREWDDTPADFGRIAQATAKQVIMQRL 104

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGN----VIVDLGNSDGVIRRDETISRENLRP 178
           REA+++  Y ++ D+  EI+SG V+  E       V+VDLG  +GV+   E +  E L  
Sbjct: 105 REAKQEVTYGQYADREHEIVSGVVQHHEQRAGSRVVLVDLGTIEGVLPPAEQVPGETLEH 164

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           GDR+K Y+  V R   G  V LSRTHP+ +  LF +EVPE+ +G V++ A++R+ G R+K
Sbjct: 165 GDRIKCYVVHVARGPHGAAVTLSRTHPELVKGLFRLEVPEVADGTVEIAAIAREAGHRSK 224

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S  + ++P GAC+G  GSRV+AV+ EL  EKIDIV WS D ATFV NAL PA V++
Sbjct: 225 IAVRSKVAGVNPKGACIGPMGSRVRAVMAELHGEKIDIVDWSADPATFVGNALSPARVSR 284

Query: 299 VVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           V + D       V VP  QLSLAIGR GQN RLA++LT W IDI ++ E
Sbjct: 285 VEVTDLAGRAARVTVPDYQLSLAIGREGQNARLAARLTSWRIDIHSDTE 333


>gi|297156812|gb|ADI06524.1| transcription elongation factor NusA [Streptomyces bingchenggensis
           BCW-1]
          Length = 330

 Score =  386 bits (993), Expect = e-105,   Method: Composition-based stats.
 Identities = 129/344 (37%), Positives = 199/344 (57%), Gaps = 21/344 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  EK I  D+++  +  ++  A     G+    RVE++  TG ++++      
Sbjct: 5   MSALRGLVREKEISFDLLVEAIESALLIAYHRTEGSRRRARVELDRATGHVTVWAR---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
           E+ E+       +  R+ D              P  FGR+A  +AKQVI+Q++R+AE + 
Sbjct: 61  EDAEDLA---EGEEPREFDD------------TPSGFGRIAAMTAKQVILQRLRDAEEEI 105

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
            + E+  + G++++G V++  +  NV+VD+G  + ++   E +  E+   G R++SY+  
Sbjct: 106 TFGEYAGREGDVVTGVVQQGKDPKNVLVDIGRLEAILPVQEQVPGEDYAHGTRLRSYVVR 165

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  RGP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S +
Sbjct: 166 VVKGVRGPSVTLSRTHPNLVKKLFALEVPEIADGSVEIAAIAREAGHRTKIAVRSTRSGL 225

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  G RV++V+ EL  EKIDIV WS D A  V NAL PA V+KV V+D     
Sbjct: 226 NAKGACIGPMGGRVRSVMAELHGEKIDIVDWSDDPAELVANALSPARVSKVEVVDMGARS 285

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINR 351
             V VP  QLSLAIG+ GQN RLA++LTGW IDI  + E    +
Sbjct: 286 ARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTEQPAEQ 329


>gi|160902006|ref|YP_001567587.1| transcription elongation factor NusA [Petrotoga mobilis SJ95]
 gi|160359650|gb|ABX31264.1| NusA antitermination factor [Petrotoga mobilis SJ95]
          Length = 341

 Score =  386 bits (992), Expect = e-105,   Method: Composition-based stats.
 Identities = 128/339 (37%), Positives = 212/339 (62%), Gaps = 2/339 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            L LL+  DA+  +K I RD ++ ++A SI+ A +  YG   ++ +EI+     +++++L
Sbjct: 2   NLNLLEALDALERDKGISRDSLVDIIAKSIKSAYKKNYG-AKNVEIEIDKNLTKLNVYQL 60

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM-DFGRVAVQSAKQVIIQKVRE 124
            +VVE VEN   +ISL+ A+  +P I+IG +V   +    DF RVA Q+AKQVI+Q ++E
Sbjct: 61  WKVVETVENPKEEISLEEAKKINPKIEIGEMVRKKINLKKDFRRVAAQTAKQVILQNLKE 120

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
            E+   + ++      I +  + +V    + + +G  +  +   ETI  E  + G+ VK 
Sbjct: 121 LEKKNLFDKYVALKNRISTAEIIKVSDEYIDIRIGKLETKLPMKETIPGETFKSGELVKV 180

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           YI +++   +GP++++SRT P+ + +L    VPEI  GI+++  + R+PG R K+AV SS
Sbjct: 181 YIKNIQNTSKGPKIMVSRTVPELITELLSSIVPEIEEGIIKIVKIVREPGIRTKVAVVSS 240

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
              +DPVGAC+G +GSR+  ++ EL++EK+DI+ +S D   F+ +AL PA V  ++L+ED
Sbjct: 241 MPGVDPVGACIGEKGSRISELLKELKNEKVDIIEYSEDPKIFIKHALAPAEVKNIILNED 300

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
                V VP+ QLSLA+G+ GQ  RLA+++TGW IDI +
Sbjct: 301 EKTAFVYVPENQLSLAVGKGGQTARLAAKITGWKIDIHS 339


>gi|296129355|ref|YP_003636605.1| transcription termination factor NusA [Cellulomonas flavigena DSM
           20109]
 gi|296021170|gb|ADG74406.1| transcription termination factor NusA [Cellulomonas flavigena DSM
           20109]
          Length = 364

 Score =  386 bits (992), Expect = e-105,   Method: Composition-based stats.
 Identities = 126/342 (36%), Positives = 197/342 (57%), Gaps = 7/342 (2%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +Q    +  E+ I  DV++  +  ++  A     G  S  RVE++  TG ++++      
Sbjct: 5   MQALRLIEREREISLDVLVEAIEQALLSAYHRTPGARSRARVELDRRTGHVTVWARDPAP 64

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
           E       +    VA    P +           P  FGR+A  +A+QVI+Q++R+AE D+
Sbjct: 65  EAPAPEVAEDGTVVAVAPAPEMP-----EYDDTPEGFGRIATATARQVIVQRLRDAEDDQ 119

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
               F+ K GE++ G +++  +   V+VD+G  + V+   E +  E    G+R+++++ +
Sbjct: 120 VLGTFRSKAGEVLGGVIQQGRDPRTVLVDVGGVEAVLPAHEQVPGERYVHGERLRAFVLE 179

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V R QRGPQ+ LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV ++ + +
Sbjct: 180 VARGQRGPQITLSRTHPNLVRKLFALEVPEIADGTVEITAMAREAGHRTKMAVRANVAGV 239

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT-KVVLDEDVGR 307
           +  GAC+G  G RV+AV+ EL  EKIDIV  S D A  + +AL PA V    V+D     
Sbjct: 240 NAKGACIGPMGGRVRAVMAELHGEKIDIVDHSDDPAEMIAHALSPARVLDVRVVDAAARA 299

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
             V+VP  QLSLAIG+ GQN RLA++LTGW IDI ++ E + 
Sbjct: 300 ARVVVPDYQLSLAIGKEGQNARLAAKLTGWRIDIRSDAEPAA 341


>gi|237739230|ref|ZP_04569711.1| transcription elongation factor NusA [Fusobacterium sp. 2_1_31]
 gi|229422838|gb|EEO37885.1| transcription elongation factor NusA [Fusobacterium sp. 2_1_31]
          Length = 353

 Score =  386 bits (992), Expect = e-105,   Method: Composition-based stats.
 Identities = 128/354 (36%), Positives = 219/354 (61%), Gaps = 4/354 (1%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M + +    L+  D +  EK I ++ VL  +  ++  A +  YG   ++ V ++ E+G+I
Sbjct: 1   MKAKDSKIFLEALDELEKEKGISKESVLEAIELALLAAYKKNYGEDENVEVIVDRESGEI 60

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            +     VV+  ++ +   +ISL+ A++      IG V+   +   +F R AVQ+ KQ++
Sbjct: 61  KVLASKTVVDADDLLDPNEEISLEDAKEIKKRAKIGDVLKFEVSCDNFRRNAVQNGKQIV 120

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLR 177
           IQKVREAER+  Y +FK++  +I+SG ++R++   N+ +++   + ++   E    +  R
Sbjct: 121 IQKVREAEREHIYEKFKERENDIVSGIIRRIDNKKNIFIEIDGIELILPPAEQSYSDIYR 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+R+K ++Y+V +  + P++L+SR +   + KLF +E+PEI  GI+++K+V+R+ GSRA
Sbjct: 181 VGERIKVFVYNVEKTNKFPKILISRKNEGLLKKLFEIEIPEISAGIIEIKSVAREAGSRA 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV+S   +ID VGAC+G +G+R++ +V EL  E+IDIV W      FV   L PA+V+
Sbjct: 241 KVAVYSEVPNIDTVGACIGQKGTRIKNIVDELNGERIDIVEWKESMEQFVSAVLSPAVVS 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINR 351
            V + ED G  +V+V   QLSLAIG+ GQN RLA++LTG  +DI   E++  + 
Sbjct: 301 SVEILED-GTAKVLVEPSQLSLAIGKNGQNARLAARLTGTRVDIKVLEKEDDDE 353


>gi|307331528|ref|ZP_07610641.1| transcription termination factor NusA [Streptomyces violaceusniger
           Tu 4113]
 gi|306882845|gb|EFN13918.1| transcription termination factor NusA [Streptomyces violaceusniger
           Tu 4113]
          Length = 330

 Score =  386 bits (992), Expect = e-105,   Method: Composition-based stats.
 Identities = 128/339 (37%), Positives = 199/339 (58%), Gaps = 21/339 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  EK I  D+++  +  ++  A     G+    RVE+N +TG ++++      
Sbjct: 5   MSALRGLVREKEISFDLLVEAIESALLIAYHRTDGSRRRARVELNRDTGHVTVWAR---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
           E+ E+      L+  ++                P  FGR+A  +AKQVI+Q++R+AE + 
Sbjct: 61  EDAED------LEEGQEPR---------EFDDTPSGFGRIAATTAKQVILQRLRDAEEEI 105

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
            + E+  + G++++G V++  +  NV+VD+G  + ++   E +  E+   G R+++Y+  
Sbjct: 106 TFGEYAGREGDVVAGVVQQGKDPKNVLVDIGRLEAILPVQEQVPGEDYAHGTRLRTYVVR 165

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  RGP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S +
Sbjct: 166 VVKGVRGPSVTLSRTHPNLVKKLFALEVPEIADGSVEIAAIAREAGHRTKIAVRSTRSGL 225

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  G RV++V+ EL  EKIDIV WS D A  V NAL PA V+KV V+D     
Sbjct: 226 NAKGACIGPMGGRVRSVMAELHGEKIDIVDWSDDPADLVANALSPARVSKVEVVDLAARS 285

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             V VP  QLSLAIG+ GQN RLA++LTGW IDI  + E
Sbjct: 286 ARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTE 324


>gi|311748745|ref|ZP_07722530.1| transcription termination factor NusA [Algoriphagus sp. PR1]
 gi|126577279|gb|EAZ81527.1| transcription termination factor NusA [Algoriphagus sp. PR1]
          Length = 414

 Score =  385 bits (991), Expect = e-105,   Method: Composition-based stats.
 Identities = 137/405 (33%), Positives = 234/405 (57%), Gaps = 10/405 (2%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L++     A  K++DR  ++ ++ D  +   R  +    +  V IN + GD+ +FR+ E+
Sbjct: 6   LIESFAEFARSKNVDRPTMIRILEDVFRAMIRKKFENDENFDVTINADKGDLEIFRIREI 65

Query: 69  VEEVENYTCQ---ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           V++          ISL  AR  +P  +IG  V + +   +FGR AVQ A+Q +IQ++++ 
Sbjct: 66  VDDNSEDIWDFDKISLTEARKIEPDFEIGEEVYEKIELEEFGRRAVQMARQTLIQRIKDL 125

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRVKS 184
           E+D  Y +++++VGEI+S  V ++    V++ D   ++ ++ + E I ++  R GD VK+
Sbjct: 126 EKDILYNKYEEQVGEIVSAEVYQILGREVLLMDNEGNELILPKGEQIPKDRFRKGDAVKA 185

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            ++ V      P+++LSRT P F+ +LF  EVPE+Y+G++ +  + R+PG RAK+AV S 
Sbjct: 186 IVHRVDMMNGNPKIILSRTSPVFLERLFENEVPEVYDGLITIVKIVREPGERAKVAVESY 245

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGM+GSR+ AVV EL++E ID++ ++ +   +V  AL PA V+ +  D++
Sbjct: 246 DDRIDPVGACVGMKGSRIHAVVRELQNENIDVINFTDNLDLYVTRALSPAKVSSITADQE 305

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
             RI V +  +Q+SLAIG+ G N++LAS+L G+ ID+  E    +N  ++ +     F  
Sbjct: 306 TKRISVFLKPDQVSLAIGKGGYNIKLASKLVGYEIDVFRE----LNEYEEEDVDLVEFTD 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEI 409
              +D  I   L   G    + +  +   ++      +EET  EI
Sbjct: 362 --EIDGWIIEELKKTGLDTAKSVLTLSKEDLLRRTELEEETIDEI 404


>gi|325286756|ref|YP_004262546.1| NusA antitermination factor [Cellulophaga lytica DSM 7489]
 gi|324322210|gb|ADY29675.1| NusA antitermination factor [Cellulophaga lytica DSM 7489]
          Length = 410

 Score =  385 bits (991), Expect = e-105,   Method: Composition-based stats.
 Identities = 136/416 (32%), Positives = 227/416 (54%), Gaps = 12/416 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            + L++       +K IDR  +++++ +  + A +  +G+  +  + INP+ GD+ ++R 
Sbjct: 3   NIALIESFSEFKDDKFIDRVTLMAILEEVFRNALKKKFGSDDNFDIIINPDKGDLEIWRN 62

Query: 66  LEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVE  EVE    +ISL  AR  +P  ++G  VS+ +  +D GR A+ + +Q +I K+ 
Sbjct: 63  RIVVEDGEVEEPNEEISLTDARKIEPDFEVGEDVSEEVKLIDLGRRAILALRQNLIAKIH 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRV 182
           E +    Y +FKD  GEI +  V  + +  VI VD   ++ V+ +D  I  +  R GD V
Sbjct: 123 EHDNTTIYKQFKDLEGEIYTAEVHHIRHRAVILVDDEGNEIVMPKDRQIPSDFFRKGDNV 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  I  V  +   P +++SRT P+F+ +LF  E+PE+++G++ +K   R PG +AK+AV 
Sbjct: 183 RGIIESVELKGNKPSIIMSRTSPKFLEQLFFQEIPEVFDGLITIKKAVRIPGEKAKVAVD 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDPVGACVG++GSR+  +V EL +E ID+V W+ +    V  AL PA ++ V LD
Sbjct: 243 SYDDRIDPVGACVGVKGSRIHGIVRELGNENIDVVNWTSNPQLLVTRALSPAKISSVKLD 302

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ++    +V +  +++S AIGR G N+RLA QLTG+ ID+  E  +      +F++     
Sbjct: 303 DEKMTAQVYLKPDEVSRAIGRGGHNIRLAGQLTGYEIDVFREGVEEDVELTEFSD----- 357

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
                +D  I       G      +      ++A     + ET +E+    +E LE
Sbjct: 358 ----EIDNWIIEEFKKIGLDTARSVLEQDSEDLAKRTDLEVETILEVVRILKEELE 409


>gi|225848027|ref|YP_002728190.1| transcription termination factor NusA [Sulfurihydrogenibium
           azorense Az-Fu1]
 gi|225644454|gb|ACN99504.1| transcription termination factor NusA [Sulfurihydrogenibium
           azorense Az-Fu1]
          Length = 370

 Score =  385 bits (991), Expect = e-105,   Method: Composition-based stats.
 Identities = 156/364 (42%), Positives = 228/364 (62%), Gaps = 18/364 (4%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD-IRVEINPETGDISLFRL 65
           ++L  + + VA EK+I  +V+   + D I  A +  Y   +D I+V  + +  ++ +   
Sbjct: 3   IKLKNVIETVAKEKNIPEEVIERALKDGIFVAVKKEYKLRNDQIKVIYDKDKDELKVLIK 62

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            +V   VE+   +ISL+ A+  +P++D G  V  PL   D GR+A+  AK+VI +KV   
Sbjct: 63  KKVTPFVEDEKKEISLEEAKKYNPNVDYGKFVEVPLDLEDIGRIALSVAKEVIAEKVSRV 122

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ERD  Y EFK+  G+II+GTV+R E  ++IVDLG  + ++ ++E I +E  + GDRV++ 
Sbjct: 123 ERDILYKEFKEYEGKIITGTVRRFEGEDIIVDLGRVEAILPKEEQIPKEKYKIGDRVRAL 182

Query: 186 IYDVRREQR-----------------GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKA 228
           +  V +E +                 GP ++LSRTHP F+ KL  +EVPEI  G ++VKA
Sbjct: 183 VLKVLKENKYPILEKGKVKRVIKVSEGPLIILSRTHPNFLKKLLEIEVPEIQEGEIEVKA 242

Query: 229 VSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVI 288
           V+R+PG RAK+AV++ D +IDPVG  VG++GSR+Q V  EL DEKID++ WS D A FVI
Sbjct: 243 VAREPGERAKVAVYTKDKNIDPVGVVVGLKGSRIQNVSNELSDEKIDVIEWSEDPARFVI 302

Query: 289 NALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
            AL PA  TK  L     RIEV VPKE+LSLAIG+ G N +LA +LTGW IDI++EE+  
Sbjct: 303 RALSPARPTKYRLLPKEKRIEVAVPKEELSLAIGKNGINAKLAHKLTGWHIDILSEEDFE 362

Query: 349 INRQ 352
             ++
Sbjct: 363 KIQK 366


>gi|50842972|ref|YP_056199.1| transcription elongation factor NusA [Propionibacterium acnes
           KPA171202]
 gi|289426473|ref|ZP_06428216.1| transcription termination factor NusA [Propionibacterium acnes
           SK187]
 gi|289428703|ref|ZP_06430386.1| transcription termination factor NusA [Propionibacterium acnes
           J165]
 gi|295131043|ref|YP_003581706.1| transcription termination factor NusA [Propionibacterium acnes
           SK137]
 gi|50840574|gb|AAT83241.1| transcriptional termination/antitermination factor
           [Propionibacterium acnes KPA171202]
 gi|289153201|gb|EFD01919.1| transcription termination factor NusA [Propionibacterium acnes
           SK187]
 gi|289158101|gb|EFD06321.1| transcription termination factor NusA [Propionibacterium acnes
           J165]
 gi|291377248|gb|ADE01103.1| transcription termination factor NusA [Propionibacterium acnes
           SK137]
 gi|313763591|gb|EFS34955.1| transcription termination factor NusA [Propionibacterium acnes
           HL013PA1]
 gi|313773529|gb|EFS39495.1| transcription termination factor NusA [Propionibacterium acnes
           HL074PA1]
 gi|313793985|gb|EFS42009.1| transcription termination factor NusA [Propionibacterium acnes
           HL110PA1]
 gi|313801372|gb|EFS42623.1| transcription termination factor NusA [Propionibacterium acnes
           HL110PA2]
 gi|313807949|gb|EFS46430.1| transcription termination factor NusA [Propionibacterium acnes
           HL087PA2]
 gi|313811582|gb|EFS49296.1| transcription termination factor NusA [Propionibacterium acnes
           HL083PA1]
 gi|313813358|gb|EFS51072.1| transcription termination factor NusA [Propionibacterium acnes
           HL025PA1]
 gi|313816771|gb|EFS54485.1| transcription termination factor NusA [Propionibacterium acnes
           HL059PA1]
 gi|313819518|gb|EFS57232.1| transcription termination factor NusA [Propionibacterium acnes
           HL046PA2]
 gi|313822158|gb|EFS59872.1| transcription termination factor NusA [Propionibacterium acnes
           HL036PA1]
 gi|313823608|gb|EFS61322.1| transcription termination factor NusA [Propionibacterium acnes
           HL036PA2]
 gi|313825931|gb|EFS63645.1| transcription termination factor NusA [Propionibacterium acnes
           HL063PA1]
 gi|313829611|gb|EFS67325.1| transcription termination factor NusA [Propionibacterium acnes
           HL063PA2]
 gi|313831322|gb|EFS69036.1| transcription termination factor NusA [Propionibacterium acnes
           HL007PA1]
 gi|313834932|gb|EFS72646.1| transcription termination factor NusA [Propionibacterium acnes
           HL056PA1]
 gi|313839907|gb|EFS77621.1| transcription termination factor NusA [Propionibacterium acnes
           HL086PA1]
 gi|314914745|gb|EFS78576.1| transcription termination factor NusA [Propionibacterium acnes
           HL005PA4]
 gi|314919293|gb|EFS83124.1| transcription termination factor NusA [Propionibacterium acnes
           HL050PA1]
 gi|314920797|gb|EFS84628.1| transcription termination factor NusA [Propionibacterium acnes
           HL050PA3]
 gi|314924649|gb|EFS88480.1| transcription termination factor NusA [Propionibacterium acnes
           HL036PA3]
 gi|314930476|gb|EFS94307.1| transcription termination factor NusA [Propionibacterium acnes
           HL067PA1]
 gi|314954366|gb|EFS98772.1| transcription termination factor NusA [Propionibacterium acnes
           HL027PA1]
 gi|314957448|gb|EFT01551.1| transcription termination factor NusA [Propionibacterium acnes
           HL002PA1]
 gi|314962084|gb|EFT06185.1| transcription termination factor NusA [Propionibacterium acnes
           HL002PA2]
 gi|314963663|gb|EFT07763.1| transcription termination factor NusA [Propionibacterium acnes
           HL082PA1]
 gi|314968509|gb|EFT12607.1| transcription termination factor NusA [Propionibacterium acnes
           HL037PA1]
 gi|314974197|gb|EFT18293.1| transcription termination factor NusA [Propionibacterium acnes
           HL053PA1]
 gi|314976694|gb|EFT20789.1| transcription termination factor NusA [Propionibacterium acnes
           HL045PA1]
 gi|314984332|gb|EFT28424.1| transcription termination factor NusA [Propionibacterium acnes
           HL005PA1]
 gi|314986521|gb|EFT30613.1| transcription termination factor NusA [Propionibacterium acnes
           HL005PA2]
 gi|314990880|gb|EFT34971.1| transcription termination factor NusA [Propionibacterium acnes
           HL005PA3]
 gi|315079513|gb|EFT51506.1| transcription termination factor NusA [Propionibacterium acnes
           HL053PA2]
 gi|315081257|gb|EFT53233.1| transcription termination factor NusA [Propionibacterium acnes
           HL078PA1]
 gi|315083455|gb|EFT55431.1| transcription termination factor NusA [Propionibacterium acnes
           HL027PA2]
 gi|315087141|gb|EFT59117.1| transcription termination factor NusA [Propionibacterium acnes
           HL002PA3]
 gi|315095336|gb|EFT67312.1| transcription termination factor NusA [Propionibacterium acnes
           HL038PA1]
 gi|315099219|gb|EFT71195.1| transcription termination factor NusA [Propionibacterium acnes
           HL059PA2]
 gi|315100430|gb|EFT72406.1| transcription termination factor NusA [Propionibacterium acnes
           HL046PA1]
 gi|315106776|gb|EFT78752.1| transcription termination factor NusA [Propionibacterium acnes
           HL030PA1]
 gi|315109017|gb|EFT80993.1| transcription termination factor NusA [Propionibacterium acnes
           HL030PA2]
 gi|327328401|gb|EGE70163.1| transcription termination factor NusA [Propionibacterium acnes
           HL096PA2]
 gi|327329733|gb|EGE71489.1| transcription termination factor NusA [Propionibacterium acnes
           HL096PA3]
 gi|327444188|gb|EGE90842.1| transcription termination factor NusA [Propionibacterium acnes
           HL043PA2]
 gi|327444933|gb|EGE91587.1| transcription termination factor NusA [Propionibacterium acnes
           HL043PA1]
 gi|327446418|gb|EGE93072.1| transcription termination factor NusA [Propionibacterium acnes
           HL013PA2]
 gi|327451993|gb|EGE98647.1| transcription termination factor NusA [Propionibacterium acnes
           HL092PA1]
 gi|327454970|gb|EGF01625.1| transcription termination factor NusA [Propionibacterium acnes
           HL087PA3]
 gi|327457744|gb|EGF04399.1| transcription termination factor NusA [Propionibacterium acnes
           HL083PA2]
 gi|328752173|gb|EGF65789.1| transcription termination factor NusA [Propionibacterium acnes
           HL020PA1]
 gi|328755195|gb|EGF68811.1| transcription termination factor NusA [Propionibacterium acnes
           HL087PA1]
 gi|328758325|gb|EGF71941.1| transcription termination factor NusA [Propionibacterium acnes
           HL025PA2]
 gi|328760059|gb|EGF73639.1| transcription termination factor NusA [Propionibacterium acnes
           HL099PA1]
 gi|332675923|gb|AEE72739.1| transcription elongation protein NusA [Propionibacterium acnes 266]
          Length = 323

 Score =  385 bits (990), Expect = e-104,   Method: Composition-based stats.
 Identities = 131/338 (38%), Positives = 198/338 (58%), Gaps = 25/338 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           L     +  +K I  D +L+ + D++  A       ++  +V+++ +TG++++       
Sbjct: 5   LSTLRMIERDKDIPLDYLLTTLEDALLNAYDKTEAPVNGAKVQLDRKTGNVAVML----- 59

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                           ++D    + G       P DFGRVA  +A+QVI Q++REAE ++
Sbjct: 60  ---------------PEKDEEGQVVGWYDG--TPEDFGRVAASTARQVIFQRLREAEDEQ 102

Query: 130 QYLEFKDKVGEIISGTVKRV--EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +Y  F    G++I+G V++   +   V VDLG+ +G++   E +  E    G R++ Y+ 
Sbjct: 103 KYGHFSAVEGDVITGVVQQSYRDTRTVRVDLGSLEGIMPPAEQVPGEKYSHGRRIRVYVV 162

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            VR+E RGPQV++SRTHP  + KLF MEVPEI  G+V++KA++R+ G R+K+AV S +  
Sbjct: 163 AVRKEARGPQVIVSRTHPNLVRKLFAMEVPEIEQGVVEIKALAREAGHRSKIAVVSHNPD 222

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVG 306
           +   GAC+G  G RV+AV+ EL +EKIDI+ WS D A FV  AL P+ V+ V V+D    
Sbjct: 223 VSAKGACIGPMGQRVRAVMHELDEEKIDIIDWSEDPAEFVGAALSPSKVSSVTVIDPKAK 282

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
               IVP  QLSLAIGR GQN RLA++LTGW IDI  +
Sbjct: 283 TARAIVPDYQLSLAIGREGQNARLAARLTGWRIDIRPD 320


>gi|154249422|ref|YP_001410247.1| transcription elongation factor NusA [Fervidobacterium nodosum
           Rt17-B1]
 gi|154153358|gb|ABS60590.1| NusA antitermination factor [Fervidobacterium nodosum Rt17-B1]
          Length = 344

 Score =  385 bits (989), Expect = e-104,   Method: Composition-based stats.
 Identities = 128/339 (37%), Positives = 207/339 (61%), Gaps = 2/339 (0%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N   LL+    +  EK I  D  + ++  ++  A ++  G   ++ + IN  +G+I  ++
Sbjct: 2   NSPMLLEALRELEREKGISVDESIEILEKALMSAYKNKTG-ERNVEIVINKLSGEIEAYQ 60

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           +LEVVE+VEN   QISL+ A    P   IG +V   +     GR A+Q AKQV+IQK+RE
Sbjct: 61  ILEVVEKVENENIQISLEDALKIKPDATIGDIVKRKMNIKRLGRFAIQVAKQVLIQKIRE 120

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
            E+++QY ++ + VG +++  V +V    + + +G  +  + + E I  E     D +K 
Sbjct: 121 IEKEKQYEKYAELVGRVVTAEVLKVTPEWLDIRIGKLETHLPKKEWIPGEEFEQSDLIKV 180

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+ +V+++++GP+++++R   +F+V L  +EVPEI +GI+++  + R+PG R K+AV S 
Sbjct: 181 YVREVKKDKKGPKIIVTRIDNEFVVGLLKLEVPEIESGIIEIVKIVREPGVRTKIAVISH 240

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  +DPVG+C+G  GSR+  ++ EL+ EKIDI+ WS D    + NAL PA V  V + + 
Sbjct: 241 DPKVDPVGSCIGPEGSRIAPILKELKIEKIDIIKWSNDPKELIANALLPASVIDVEILDY 300

Query: 305 VGRI-EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
             +   V+V   QLSLAIG+ GQN RLA++LTGW IDI 
Sbjct: 301 ESKASRVLVSPNQLSLAIGKAGQNARLAAKLTGWKIDIK 339


>gi|312130305|ref|YP_003997645.1| nusa antitermination factor [Leadbetterella byssophila DSM 17132]
 gi|311906851|gb|ADQ17292.1| NusA antitermination factor [Leadbetterella byssophila DSM 17132]
          Length = 414

 Score =  385 bits (989), Expect = e-104,   Method: Composition-based stats.
 Identities = 135/416 (32%), Positives = 241/416 (57%), Gaps = 11/416 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L++     A EK+IDR  +++++ D ++   R  YG   +  + +NPE+GD+ ++R  E
Sbjct: 5   DLIESFAEFAREKNIDRPTMIAILEDVLRTMIRKAYGEDHNFDIILNPESGDLEMWRKRE 64

Query: 68  VV----EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           +V    E++ ++   I L  A+  +P  +IG  V++P+   DFGR  VQ+A+Q +IQKV+
Sbjct: 65  IVDDNSEDIWDHDK-IPLSEAKKIEPDFEIGEEVAEPVKIEDFGRRIVQTARQTLIQKVK 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRV 182
           + E++  Y ++KD+VGE+++  V ++    VI +D   ++  + + E I ++  + G  +
Sbjct: 124 DLEKEMLYDQYKDQVGELVTVEVYQILSREVICIDEEGNELSLPKGEQIPKDRFKKGSSI 183

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           ++ I+ V      P++ LSRT P F+ +LF +E+PEI +GI+ ++ + R+PG RAK+AV 
Sbjct: 184 RAIIHKVEIHNGNPKLTLSRTSPVFLERLFELEIPEIQDGIISIRKIVREPGERAKVAVE 243

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDPVGACVGM+GSR+ ++V EL +E ID++ W+ +    +  AL PA ++ V  D
Sbjct: 244 SFDDRIDPVGACVGMKGSRIHSIVRELENENIDVIQWTDNINLLISRALSPAKISNVRFD 303

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+  R+ V +  +Q+SLAIG+ G N++LAS+L G  ID+  + +      ++ +     F
Sbjct: 304 ENAERVSVFLKPDQVSLAIGKGGLNIKLASKLIGLEIDVFRDID---GVVEEEDVDLMEF 360

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
                ++E I       G    + +  V   ++      +EET  E+    ++  E
Sbjct: 361 TD--EIEEWILLEFRKIGLDTAKSVLNVPKEDLVRRTPLEEETIEEVFDILKKEFE 414


>gi|296139427|ref|YP_003646670.1| NusA antitermination factor [Tsukamurella paurometabola DSM 20162]
 gi|296027561|gb|ADG78331.1| NusA antitermination factor [Tsukamurella paurometabola DSM 20162]
          Length = 333

 Score =  385 bits (989), Expect = e-104,   Method: Composition-based stats.
 Identities = 127/351 (36%), Positives = 196/351 (55%), Gaps = 31/351 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  EK I  + V+  +  ++  A +   G     R+++N  TG++ +       
Sbjct: 5   MATLRAIEAEKDISVETVIEAIQVALLTAYKHTEGHEPHARIDVNRRTGEVKVL------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A++ D   +I     D   P  FGR+A  SA+Q+I Q++R+AE DR
Sbjct: 59  --------------AQELDADGNIITEWDD--TPEGFGRIAADSARQLITQRLRDAENDR 102

Query: 130 QYLEFKDKVGEIISGTVKRVEY----GNVIVDLGNS----DGVIRRDETISRENLRPGDR 181
            + EF    GE++SG V+        G V+V +G+     +G++   E +  EN   GDR
Sbjct: 103 TFGEFAVYEGEVVSGVVQADARAAARGFVVVRIGSEREGHEGLLPPAEQVPGENYEHGDR 162

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V R QRG Q+ LSRTHP  + KLF +EVPEI +G V++ +V+R+ G R+K+AV
Sbjct: 163 MKFYVVGVSRGQRGTQITLSRTHPNLVKKLFALEVPEIADGSVEITSVAREAGHRSKIAV 222

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            +S   ++  GAC+G  G RV+ V+++L  EKIDI+ +  D A FV NAL P+ V  V +
Sbjct: 223 RTSVPGLNAKGACIGPMGQRVRNVMSDLDGEKIDIIAYDDDPAVFVGNALSPSSVVSVTI 282

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINR 351
           +D       V+VP  +LSLAIG+ GQN RLA++LTGW IDI ++ + +   
Sbjct: 283 VDPKEKAARVVVPDFKLSLAIGKEGQNARLAARLTGWRIDIRSDADPAAAE 333


>gi|34540099|ref|NP_904578.1| transcription elongation factor NusA [Porphyromonas gingivalis W83]
 gi|188994218|ref|YP_001928470.1| transcription elongation factor NusA [Porphyromonas gingivalis ATCC
           33277]
 gi|34396410|gb|AAQ65477.1| N utilization substance protein A, putative [Porphyromonas
           gingivalis W83]
 gi|188593898|dbj|BAG32873.1| putative nitrogen utilization substance protein A [Porphyromonas
           gingivalis ATCC 33277]
          Length = 444

 Score =  384 bits (988), Expect = e-104,   Method: Composition-based stats.
 Identities = 125/410 (30%), Positives = 231/410 (56%), Gaps = 12/410 (2%)

Query: 4   ANRLELLQIADAVA--YE-KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           A + E + + +++A   E K+ID++ +++V+ DS +     ++G+  +  V INPE GD 
Sbjct: 2   AKKQETISMIESLAEFKELKNIDKETMINVLEDSFRNVLAKIFGSDDNFDVIINPEKGDF 61

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R  +VVE+  VE+ + ++SL  A + DP  ++G  V+D +    FGR A+ + +Q +
Sbjct: 62  EIWRTRQVVEDGAVEDESREVSLSDAHEIDPEAEVGEEVTDSVNFASFGRRAILNLRQAL 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLR 177
             K+ E +++  +  F +++G++IS  V +V     +++D   ++ ++ + E I  +  R
Sbjct: 122 SSKIMELQKENLFNTFTERIGQLISAEVYQVWKREALLIDDDGNELLMPKSEQIPSDFFR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+ V + +  V      P++++SRT  +F+ +LF + VPEI +G++ ++ V+R PG RA
Sbjct: 182 KGETVHAVVERVENANNNPKIIVSRTSGEFLKRLFELNVPEIADGLITIRCVARIPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVGM GSR++ +V ELR E ID+  ++ ++A F+  AL PA ++
Sbjct: 242 KMAVESYDDRIDPVGACVGMNGSRIRGIVRELRGENIDVTQYTTNTALFIQRALSPARIS 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            + L E   + EV +  E++ LAIG+   N++LAS LTG+ I++  + +D        +E
Sbjct: 302 SIRLLEAEHKAEVFLRPEEVPLAIGKNASNIKLASGLTGYQIEVFRDIDDMDEEDIYLDE 361

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV 407
                     +D+ I  L    G    + +      ++      ++ T  
Sbjct: 362 FND------EIDQWIIDLFKNIGCNTAKSVLSKNREDLIKETDLEDSTID 405


>gi|160913530|ref|ZP_02076221.1| hypothetical protein EUBDOL_00006 [Eubacterium dolichum DSM 3991]
 gi|158434082|gb|EDP12371.1| hypothetical protein EUBDOL_00006 [Eubacterium dolichum DSM 3991]
          Length = 548

 Score =  384 bits (988), Expect = e-104,   Method: Composition-based stats.
 Identities = 137/345 (39%), Positives = 219/345 (63%), Gaps = 2/345 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLL 66
           + +    A+  ++ + +++V+  + +++ KA R       + +RV ++ E G+I +F+  
Sbjct: 5   DFMTAMQAIESDRQLSKEIVVDALQEALSKAFRKHIEIPDALVRVAVDDENGEIKVFQQR 64

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            VVE VE+   +ISL  A+  + ++++G VV + +   DFGR AV  AK V+ QK+REAE
Sbjct: 65  AVVETVEDDELEISLNDAKRINEALELGDVVEEEVNIADFGRAAVILAKNVMKQKIREAE 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           +   Y E+ DKV E+I GTV+ VE    +V++G +  ++ +++ I  E  R G  ++  I
Sbjct: 125 KLAVYEEYCDKVEEMIFGTVESVEEKFCVVNIGKTLAIMPKNQQIPNETYREGSMIRVVI 184

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V +E +G QVL+SR     + +LF  EVPEIY GI+++KA++R+ G R K+AV+S + 
Sbjct: 185 SEVNKETKGAQVLVSRADATLVKRLFEKEVPEIYQGIIEIKAIAREAGERTKMAVYSHNE 244

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           +IDP+GAC+G RG+RVQ ++ EL+ EKIDI  WS D +  + NAL PA V  V+ +E   
Sbjct: 245 NIDPIGACIGPRGTRVQVIIDELKGEKIDIFEWSDDVSELIKNALSPAEVLAVIPNEARK 304

Query: 307 R-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
             + V+VP  QLSLAIG+RG+N RLA +LTG  IDI +E + +  
Sbjct: 305 DGLLVVVPDNQLSLAIGKRGKNARLAVKLTGHKIDIKSESDINEM 349


>gi|225849798|ref|YP_002730032.1| transcription termination factor NusA [Persephonella marina EX-H1]
 gi|225646384|gb|ACO04570.1| transcription termination factor NusA [Persephonella marina EX-H1]
          Length = 374

 Score =  384 bits (988), Expect = e-104,   Method: Composition-based stats.
 Identities = 148/365 (40%), Positives = 223/365 (61%), Gaps = 19/365 (5%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
           ++L  + +AVA EK++  +++   + D I  A +  YG   +++V  + E  ++ +    
Sbjct: 3   VKLKNVIEAVAKEKNVPEEIIEKALIDGITAAVKKEYGYKDNVQVIFDKEADELKVLLKK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
            V   VEN    ISL+ A+  DP  ++G  V  PL   + GR+A+ +AK+VI  KV   E
Sbjct: 63  RVTPFVENPKRDISLEEAKKIDPKAEVGSYVFVPLNLEELGRIALNAAKEVITHKVARVE 122

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           ++  + EFK+  G+I++GTV+R E G++IVDLG  + V+  +E I +E  R GDR+++ I
Sbjct: 123 KNILFKEFKELEGKIVTGTVRRFEDGDIIVDLGRIEAVLPEEEQIKKEKYRVGDRIRALI 182

Query: 187 YDVRREQR-------------------GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVK 227
             V ++                      P V+LSRTHP F+ KL  +EVPEI  G +++K
Sbjct: 183 LKVIKDGSYPVYERGKVKRVIKPIDRDKPLVILSRTHPNFLRKLIEIEVPEIQEGEIEIK 242

Query: 228 AVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFV 287
           A++R+PG RAK+AV++ D +IDPVG  VG++GSR+Q V  EL  EKID++ W PD A F+
Sbjct: 243 AIAREPGERAKVAVWTEDKNIDPVGVVVGLKGSRIQNVSAELSGEKIDVIEWDPDPAQFI 302

Query: 288 INALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
           + AL P+   K  L ED  RIEV VPK +LSLAIG+ G N +LA +LTGW IDI++EE+ 
Sbjct: 303 LRALSPSHPKKWRLLEDEKRIEVAVPKNELSLAIGKGGINAKLAHKLTGWHIDILSEEDF 362

Query: 348 SINRQ 352
              +Q
Sbjct: 363 ERIQQ 367


>gi|282854640|ref|ZP_06263975.1| transcription termination factor NusA [Propionibacterium acnes
           J139]
 gi|282582222|gb|EFB87604.1| transcription termination factor NusA [Propionibacterium acnes
           J139]
 gi|314981920|gb|EFT26013.1| transcription termination factor NusA [Propionibacterium acnes
           HL110PA3]
 gi|315090735|gb|EFT62711.1| transcription termination factor NusA [Propionibacterium acnes
           HL110PA4]
          Length = 323

 Score =  384 bits (987), Expect = e-104,   Method: Composition-based stats.
 Identities = 131/338 (38%), Positives = 198/338 (58%), Gaps = 25/338 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           L     +  +K I  D +L+ + D++  A       ++  +V+++ +TG++++       
Sbjct: 5   LSTLRMIERDKDIPLDYLLTTLEDALLNAYDKTEAPVNGAKVQLDRKTGNVAVML----- 59

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                           ++D    + G       P DFGRVA  +A+QVI Q++REAE ++
Sbjct: 60  ---------------PEKDEEGQVVGWYDG--TPEDFGRVAASTARQVIFQRLREAEDEQ 102

Query: 130 QYLEFKDKVGEIISGTVKRV--EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +Y  F    G++I+G V++   +   V VDLG+ +G++   E +  E    G R++ Y+ 
Sbjct: 103 KYGHFSAVEGDVITGVVQQSYRDTRTVRVDLGSLEGIMPPAEQVPGEKYSHGRRIRVYVV 162

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            VR+E RGPQV++SRTHP  + KLF MEVPEI  G+V++KA++R+ G R+K+AV S +  
Sbjct: 163 AVRKEARGPQVIVSRTHPNLVRKLFAMEVPEIEQGVVEIKALAREAGHRSKIAVVSHNPD 222

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVG 306
           +   GAC+G  G RV+AV+ EL +EKIDI+ WS D A FV  AL P+ V+ V V+D    
Sbjct: 223 VSAKGACIGPMGQRVRAVMHELDEEKIDIIDWSGDPAEFVGAALSPSKVSSVTVIDPKAK 282

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
               IVP  QLSLAIGR GQN RLA++LTGW IDI  +
Sbjct: 283 TARAIVPDYQLSLAIGREGQNARLAARLTGWRIDIRPD 320


>gi|218509055|ref|ZP_03506933.1| transcription elongation factor NusA [Rhizobium etli Brasil 5]
          Length = 266

 Score =  384 bits (987), Expect = e-104,   Method: Composition-based stats.
 Identities = 201/264 (76%), Positives = 238/264 (90%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           VSANRLELLQIADAVA EK IDR++VL+ MAD+IQKAARS YGT S+IR +INP+TG+I 
Sbjct: 3   VSANRLELLQIADAVAREKVIDREIVLAAMADAIQKAARSRYGTESNIRADINPKTGEIR 62

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           L RLLEVV++ E+Y+ QI L++ARDR+P   +G  ++DPLPPMDFGR+A QSAKQVI+QK
Sbjct: 63  LQRLLEVVDKAEDYSTQIPLELARDRNPDAALGDFIADPLPPMDFGRIAAQSAKQVIVQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAERDRQ+ EFKD+VGEI++GTVKRVEYGNVIVDLG  +G+IRRDE I REN+R GDR
Sbjct: 123 VREAERDRQFDEFKDRVGEIVNGTVKRVEYGNVIVDLGRGEGIIRRDEMIPRENVRYGDR 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++Y+YDVRREQRGPQ+ LSRTHPQFMVKLF MEVPEIY+GI+QVK+V+RDPGSRAK+AV
Sbjct: 183 VRAYVYDVRREQRGPQIFLSRTHPQFMVKLFTMEVPEIYDGIIQVKSVARDPGSRAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAV 265
            S+DSSIDPVGACVGMRGSRVQAV
Sbjct: 243 ISNDSSIDPVGACVGMRGSRVQAV 266


>gi|302542143|ref|ZP_07294485.1| transcription termination factor NusA [Streptomyces hygroscopicus
           ATCC 53653]
 gi|302459761|gb|EFL22854.1| transcription termination factor NusA [Streptomyces himastatinicus
           ATCC 53653]
          Length = 330

 Score =  384 bits (986), Expect = e-104,   Method: Composition-based stats.
 Identities = 123/345 (35%), Positives = 199/345 (57%), Gaps = 23/345 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  EK I  D+++  +  ++  A     G+    RV+++  +G ++++      
Sbjct: 5   MSALRGLVREKEISFDLLVEAIESALLIAYHRTEGSRRRARVQLDRNSGHVTVW------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGV-VSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                         A++    ++ G         P  FGR+A  +AKQVI+Q++R+AE +
Sbjct: 59  --------------AQEDADDLEEGEEPREFDDTPSGFGRIAAMTAKQVILQRLRDAEEE 104

Query: 129 RQYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
             + E+  + G++++G V++  +  N++VD+G  + ++   E +  E+   G R+++Y+ 
Sbjct: 105 ITFGEYAGREGDVVAGVVQQGKDPKNILVDIGRLEAILPSQEQVPGEDYAHGTRLRTYVV 164

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  RGP V LSRTHP  + KLF +EVPEI +G V++ A++R+ G R K+AV S+ S 
Sbjct: 165 RVVKGVRGPSVTLSRTHPNLVKKLFALEVPEIADGSVEIAAIAREAGHRTKIAVRSTRSG 224

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVG 306
           ++  GAC+G  G RV++V+ EL  EKIDIV WS D A  V NAL PA V+KV V+D    
Sbjct: 225 LNAKGACIGPMGGRVRSVMAELHGEKIDIVDWSDDPAELVANALSPARVSKVEVVDLAAR 284

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINR 351
              V VP  QLSLAIG+ GQN RLA++LTGW IDI  + + S ++
Sbjct: 285 SARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIRPDTDQSADQ 329


>gi|305665253|ref|YP_003861540.1| transcription elongation factor NusA [Maribacter sp. HTCC2170]
 gi|88710006|gb|EAR02238.1| transcription elongation factor NusA [Maribacter sp. HTCC2170]
          Length = 410

 Score =  384 bits (986), Expect = e-104,   Method: Composition-based stats.
 Identities = 134/416 (32%), Positives = 227/416 (54%), Gaps = 12/416 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            + L++       +K IDR  +++++ D  + A +  +G+  +  + INP+ GD+ ++R 
Sbjct: 3   NIALIESFSEFKDDKFIDRVTLMAILEDVFRNALKKKFGSDENFDIIINPDKGDLEIWRN 62

Query: 66  LEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVE  EVE    +ISL  A+  +P  ++G  VS+ +  +D GR A+ + +Q +I K+ 
Sbjct: 63  RIVVEDGEVEEPNEEISLSEAQKIEPDFEVGEDVSEEVKLIDLGRRAILALRQNLISKIH 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRV 182
           E +    Y +FKD  GEI +  V  + +  VI+ D   ++ ++ +D  I  +  R GD V
Sbjct: 123 EHDNTTIYKQFKDLEGEIYTAEVHHIRHKAVILLDDEGNEIILPKDRQIPSDFFRKGDNV 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  I  V  +   P +++SR+ P+F+ +LF  E+PE+++G++ +K   R PG +AK+AV 
Sbjct: 183 RGIIESVELKGNKPSIIMSRSSPRFLEQLFFQEIPEVFDGLITIKKAVRIPGEKAKVAVD 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDPVGACVGM+GSR+  +V EL +E ID++ W+ +    V  AL PA V+ V L+
Sbjct: 243 SYDDRIDPVGACVGMKGSRIHGIVRELGNENIDVINWTNNPQLLVTRALSPARVSSVKLN 302

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ++    +V +  E++S AIGR G N+RLA QLTG+ ID+  E  +      +F++     
Sbjct: 303 DEKMTAQVYLRPEEVSKAIGRGGHNIRLAGQLTGYEIDVFREGVEEDVELTEFSD----- 357

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
                +D  I       G      +    + ++      +EET  E+    +E LE
Sbjct: 358 ----EIDAWIIEEFKKIGMDTARSVLEQDVDDLVKRTDLEEETISEVVRILKEELE 409


>gi|314978822|gb|EFT22916.1| transcription termination factor NusA [Propionibacterium acnes
           HL072PA2]
 gi|315089313|gb|EFT61289.1| transcription termination factor NusA [Propionibacterium acnes
           HL072PA1]
          Length = 323

 Score =  384 bits (986), Expect = e-104,   Method: Composition-based stats.
 Identities = 131/338 (38%), Positives = 197/338 (58%), Gaps = 25/338 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           L     +  +K I  D +L+ + D++  A       ++  +V+++ +TG++++       
Sbjct: 5   LSTLRMIERDKDIPLDYLLTTLEDALLNAYDKTEAPVNGAKVQLDRKTGNVAVML----- 59

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                           ++D    + G       P DFGRVA  +A+QVI Q++REAE ++
Sbjct: 60  ---------------PEKDEEGQVVGWYDG--TPEDFGRVAASTARQVIFQRLREAEDEQ 102

Query: 130 QYLEFKDKVGEIISGTVKRV--EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +Y  F    G++I+G V++   +   V VDLG+ +G++   E +  E    G R++ Y+ 
Sbjct: 103 KYGHFSAVEGDVITGVVQQSYRDTRTVRVDLGSLEGIMPPAEQVPGEKYSHGRRIRVYVV 162

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            VR+E RGPQV++SRTHP  + KLF MEVPEI  G+V++KA+ R+ G R+K+AV S +  
Sbjct: 163 AVRKEARGPQVIVSRTHPNLVRKLFAMEVPEIEQGVVEIKALVREAGHRSKIAVVSHNPD 222

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVG 306
           +   GAC+G  G RV+AV+ EL +EKIDI+ WS D A FV  AL P+ V+ V V+D    
Sbjct: 223 VSAKGACIGPMGQRVRAVMHELDEEKIDIIDWSEDPAEFVGAALSPSKVSSVTVIDPKAK 282

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
               IVP  QLSLAIGR GQN RLA++LTGW IDI  +
Sbjct: 283 TARAIVPDYQLSLAIGREGQNARLAARLTGWRIDIRPD 320


>gi|332520007|ref|ZP_08396471.1| transcription termination factor NusA [Lacinutrix algicola
           5H-3-7-4]
 gi|332044566|gb|EGI80760.1| transcription termination factor NusA [Lacinutrix algicola
           5H-3-7-4]
          Length = 410

 Score =  383 bits (985), Expect = e-104,   Method: Composition-based stats.
 Identities = 132/416 (31%), Positives = 231/416 (55%), Gaps = 12/416 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            L L+        +K IDR  +++++ D  + A +  +G   +  + INP+ GD+ ++R 
Sbjct: 3   NLALIDSFSEFKDDKLIDRVTLMAILEDVFRSALKKKFGDDDNFDIIINPDKGDLEIWRN 62

Query: 66  LEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV   EVE    +ISL  AR  +P  ++G  VS+ +  +D GR A+ + +Q +I K+ 
Sbjct: 63  RIVVADGEVEEPNQEISLTAARKIEPDFEVGEDVSEEVKLIDLGRRAILALRQNLISKIH 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRV 182
           E +    + +FK+  G++ +  V  + +  VI +D   ++ ++ +D+ I  +  R GD V
Sbjct: 123 EHDNTNIFKQFKELEGDLYTAEVHHIRHRAVILLDDEGNEIILPKDKQIPSDFFRKGDNV 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  I  V  +   P +++SRT P+F+ KLF  E+PE+++G++ +K V R PG +AK+AV 
Sbjct: 183 RGIIDSVELKGNKPAIIMSRTSPKFLEKLFESEIPEVFDGLITIKNVVRIPGEKAKVAVD 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDPVGACVGM+GSR+  +V EL +E ID++ ++ +   ++  AL PA VT + +D
Sbjct: 243 SYDDRIDPVGACVGMKGSRIHGIVRELGNENIDVINYTNNLQLYITRALSPARVTSIKID 302

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+  R E I+  E++S AIGR G N+RLA QLTG+ ID+  E  +     ++F++     
Sbjct: 303 EENKRAEAILKPEEVSKAIGRGGHNIRLAGQLTGYDIDVFREGAEEDVELREFSD----- 357

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
                +++ I       G    + +    + ++      +EET +++    +E  E
Sbjct: 358 ----EIEDWIIAEFSKAGLDTAKSILEQDVEDLVKRTDLEEETILDVIRILKEEFE 409


>gi|110639790|ref|YP_680000.1| transcription elongation factor NusA [Cytophaga hutchinsonii ATCC
           33406]
 gi|110282471|gb|ABG60657.1| transcription elongation factor [Cytophaga hutchinsonii ATCC 33406]
          Length = 418

 Score =  383 bits (985), Expect = e-104,   Method: Composition-based stats.
 Identities = 136/418 (32%), Positives = 234/418 (55%), Gaps = 13/418 (3%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L++     A  KSIDR  ++ ++ D  +   R  YGT  +  V IN + GD+ ++ + E+
Sbjct: 6   LIESFAEFAKFKSIDRPTMMKIVEDVFRTMIRKKYGTDDNFNVIINVDKGDLEIWWMREI 65

Query: 69  VEEV-------ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           V +         +    ISL  A   +   + G  V+  +   DFGR  VQ+A+Q +IQK
Sbjct: 66  VSDDFAEDSFDYDPNKHISLTDAHLIEKDFEEGEEVATEVKLEDFGRRMVQTARQTLIQK 125

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           V++ E+D  + ++KD VGEII+G + +V     +++D   ++  + + E I ++  R GD
Sbjct: 126 VKDLEKDNLFQKYKDLVGEIINGEIYQVLSKEILLIDADGNELALPKYEQIPKDRFRKGD 185

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            V++ ++ V      P+++LSRT P+F+ +LF +EVPE+Y+G++ ++ + R+PG RAK+A
Sbjct: 186 NVRAIVHRVEMHNGNPKIILSRTSPKFLERLFELEVPEVYDGLISIRNIVREPGERAKVA 245

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S D  IDPVGACVGM+GSR+ ++V EL +E ID++ ++ +   F+  AL PA ++ + 
Sbjct: 246 VESYDDRIDPVGACVGMKGSRIHSIVRELENENIDVINFTDNIDLFIARALSPAKISSLK 305

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           ++ D GR  V +  +Q+SLAIG+ GQN++LAS+L G  ID+  E         + NE   
Sbjct: 306 VEADKGRASVYLKPDQVSLAIGKGGQNIKLASKLVGLEIDVFRE-----LTGNEDNEDVD 360

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
                  +++ I   L   G    + +  +   ++      +EET  ++    R+  E
Sbjct: 361 LTEFVDEIEDWILEELKRIGLDTAKSVLALSKDDLVRRTELEEETVEDVLQILRQEFE 418


>gi|307297718|ref|ZP_07577524.1| transcription termination factor NusA [Thermotogales bacterium
           mesG1.Ag.4.2]
 gi|306916978|gb|EFN47360.1| transcription termination factor NusA [Thermotogales bacterium
           mesG1.Ag.4.2]
          Length = 342

 Score =  383 bits (985), Expect = e-104,   Method: Composition-based stats.
 Identities = 133/338 (39%), Positives = 209/338 (61%), Gaps = 1/338 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            L LL+  D +  EK+I+++ V+ ++  ++Q A +  + + SD+ V I+  TGDI +F  
Sbjct: 2   NLNLLEALDQLQDEKNIEKEEVIDILEKALQSAYKKNFASESDVDVRIDRLTGDIEVFEK 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           L VVE VEN + ++ L+ A   D S +IG  V   L    F R+A Q+A+QV+IQK+RE 
Sbjct: 62  LLVVEAVENPSLEVKLEEALKLDSSAEIGSTVERKLNIKKFKRIAAQTARQVLIQKIREK 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E++  + ++ D  G + +  V RV    + + +G  +  I   E I  E  R    +K Y
Sbjct: 122 EKENLFDKYVDMKGTVTTSEVLRVTDEWIDLRIGKLETRIPTKELIPGEQPRLNSLMKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + DV +  RGP++L++R  P F+++L  ++VPEI +G V VKA++R+ G R K+AVFS +
Sbjct: 182 VVDVTKSVRGPRLLVTRRTPDFVIELLKLQVPEIASGDVTVKAIAREEGIRTKVAVFSQN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DED 304
           + +DPVGAC+G  G+R+  V+ E++ EK+DI+ WS + A FV N++ PA   +V + + +
Sbjct: 242 TKVDPVGACIGESGTRIAEVLREIKPEKVDILRWSDNPAEFVGNSIAPASALEVKVANIE 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                V V   QLSLAIG+ GQN RLA++LTGW IDI 
Sbjct: 302 NHEATVFVSPTQLSLAIGKGGQNARLAAKLTGWKIDIK 339


>gi|225011158|ref|ZP_03701620.1| NusA antitermination factor [Flavobacteria bacterium MS024-3C]
 gi|225004720|gb|EEG42680.1| NusA antitermination factor [Flavobacteria bacterium MS024-3C]
          Length = 410

 Score =  383 bits (984), Expect = e-104,   Method: Composition-based stats.
 Identities = 132/416 (31%), Positives = 230/416 (55%), Gaps = 12/416 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            + L++       +K IDR  +++++ +  + A +  +G+  +  + INP+ GD+ ++R 
Sbjct: 3   NIALIESFSEFKDDKFIDRVTLMAILEEVFRSALKKKFGSDDNFDIIINPDKGDLEIWRN 62

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVE+  V +   +IS+  AR  +P  ++G  VS+ +  +D GR A+ + +Q +I K+ 
Sbjct: 63  RVVVEDIDVMDPNEEISITEARKIEPDFEVGEDVSEEVKLIDLGRRAILALRQNLIAKIH 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRV 182
           E +    Y +FKD  GEI +  V  + +  +I+ D   ++ ++ +D+ I  +  R GD V
Sbjct: 123 EHDNTTIYKQFKDLEGEIYTAEVHHIRHQAIILLDDEGNEIILPKDKQIPADFFRKGDNV 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  I  V  +   P +++SRT P F+ +LF  E+PE+++G++ +K   R PG +AK+AV 
Sbjct: 183 RGIIESVELKGNKPSIIMSRTSPLFLEQLFFQEIPEVFDGLITIKKAVRIPGEKAKVAVD 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDPVGACVGM+GSR+  +V EL +E ID++ W+ +    V  AL PA V+ V LD
Sbjct: 243 SYDDRIDPVGACVGMKGSRIHGIVKELGNENIDVINWTNNPTLLVTRALSPARVSSVKLD 302

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ++    +V +  E++S AIGR G N+RLA QLTG+ ID+  E  +      +F++     
Sbjct: 303 DEKMTAQVYLKPEEVSKAIGRGGHNIRLAGQLTGYEIDVFREGVEEDVELTEFSD----- 357

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
                ++  I   L   G      +    + ++A     +EET +++    +E LE
Sbjct: 358 ----EIEAWIIAELSKIGLDTARAVLEQDVEDLAKRTDLEEETILDVVRILKEELE 409


>gi|296125433|ref|YP_003632685.1| NusA antitermination factor [Brachyspira murdochii DSM 12563]
 gi|296017249|gb|ADG70486.1| NusA antitermination factor [Brachyspira murdochii DSM 12563]
          Length = 498

 Score =  383 bits (984), Expect = e-104,   Method: Composition-based stats.
 Identities = 134/450 (29%), Positives = 239/450 (53%), Gaps = 38/450 (8%)

Query: 13  ADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEV 72
              ++ EK I  +++  V+A +++ A +  YG   +  +  + +  + ++++   VVEEV
Sbjct: 9   LQQLSDEKDISVELLKEVIASTMELALKKKYGNDINFHIHFDNKN-NPTVYKGANVVEEV 67

Query: 73  ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMD-FGRVAVQSAKQVIIQKVREAERDRQY 131
            +   +ISL+ A+  D  I++G  V   +  ++ FGR+    AK    QK+ + E++  Y
Sbjct: 68  RDKNKEISLEEAKKLDQDINLGDEVLILVDQVEAFGRIESMVAKTTFFQKISDLEKNIIY 127

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDV-- 189
            EFK +  ++++G  +R   G + ++LG ++G +++ +   RE+   GDR+++YIY V  
Sbjct: 128 NEFKRRENQLVNGYFQREHKGTIYINLGKTEGELQKKDQSPREHYTVGDRIRAYIYKVQG 187

Query: 190 ---RREQRGP--QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
               R  +    ++LL+RT   F+ KLF +E+PEI +G +++K V R PG + K+AV S+
Sbjct: 188 GKDDRTGKEIPTKILLTRTKADFIKKLFELEIPEIADGTIEIKNVVRQPGLKIKVAVVSN 247

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DE 303
              +DP+GAC+G +G R+Q+++ E+  EKID+V WS D   ++  A+ PA   ++++ D 
Sbjct: 248 KPEVDPIGACIGQKGIRIQSIIKEIEGEKIDVVKWSKDIREYIAEAITPAKPIRIIITDP 307

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ--KDFNERTQF 361
           +     +I+P EQLSLA+G+ G NV+LASQLTG+  DI TE +   N +  KD     Q 
Sbjct: 308 EKKEAMIIIPDEQLSLALGKSGYNVKLASQLTGYYFDIKTETDIKENPELLKDIVPLNQI 367

Query: 362 FMQAI--------------------------NVDEIIAHLLVAEGFADVEELACVKISEI 395
           F                               +DE I   L+  G   +EEL  +   EI
Sbjct: 368 FSDTAEETENSSEAEAAEAAEVFESNLYSLQGIDESIIKTLIDNGINSIEELYNLSAEEI 427

Query: 396 ASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
                 D++T   +    ++ +E ++   +
Sbjct: 428 MEKTNLDKDTVDNLMLVMKDVVEIVESEDE 457


>gi|108804247|ref|YP_644184.1| NusA antitermination factor [Rubrobacter xylanophilus DSM 9941]
 gi|108765490|gb|ABG04372.1| NusA antitermination factor [Rubrobacter xylanophilus DSM 9941]
          Length = 381

 Score =  383 bits (984), Expect = e-104,   Method: Composition-based stats.
 Identities = 131/339 (38%), Positives = 198/339 (58%), Gaps = 30/339 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           LL     +  EK I  + V  V+ +S+  A R   G +    V ++ ETGD+ + +    
Sbjct: 5   LLSALHEIETEKGIPFETVKRVLEESLLAAYREREGAVEGAEVVLDRETGDLRVMK---- 60

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
             + E+    I+ +                      DF R+A    +Q  +Q++ E    
Sbjct: 61  --DGED----ITPED--------------------FDFTRIAASLMRQNFMQRLNEVHNQ 94

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
           +   E+ +++G++++G V++      I+DLG  + ++   E +  E    G R+K Y+ D
Sbjct: 95  QLVKEYGERIGDVVTGIVQQAHRRMTIIDLGRVEALLPASEQVPGERYENGQRLKVYLLD 154

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           ++   RGP +++SR H   +  LF +EVPEIY+G+V++KAV+R+ G R+K+AV+S++  I
Sbjct: 155 IKEAGRGPSIIVSRRHEGLLRGLFELEVPEIYDGLVEIKAVAREAGLRSKVAVWSNEPGI 214

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI 308
           DPVGACVG RGSRV+AVV+ELR+EKIDI+ W PD A F+  AL PA V +V LDE+  + 
Sbjct: 215 DPVGACVGPRGSRVRAVVSELRNEKIDIIQWDPDPARFIAKALSPARVREVYLDEEEKQA 274

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
           EVIVP +QLSLAIGR GQN RLA +LT W IDI  E + 
Sbjct: 275 EVIVPDDQLSLAIGREGQNARLAVKLTDWKIDIKPESQA 313


>gi|255033849|ref|YP_003084470.1| transcription elongation factor NusA [Dyadobacter fermentans DSM
           18053]
 gi|254946605|gb|ACT91305.1| NusA antitermination factor [Dyadobacter fermentans DSM 18053]
          Length = 413

 Score =  383 bits (984), Expect = e-104,   Method: Composition-based stats.
 Identities = 146/414 (35%), Positives = 239/414 (57%), Gaps = 10/414 (2%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L++     A  K+IDR  ++SV+ +  +   R  YGT  +  V INPE+GD+ ++R  E+
Sbjct: 6   LIESFAEFASSKNIDRPTMISVLEEVFRTMIRKKYGTDDNFDVIINPESGDLEMWRTREI 65

Query: 69  VEEVENYTCQ---ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           V++      +   I L  AR      ++G  V++ +  ++FGR  VQ+A+Q +IQK+++ 
Sbjct: 66  VDDNSEDIWEYNKIPLNEARKIQSDFEVGEEVAEEVKLVEFGRRLVQTARQTLIQKIKDM 125

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRVKS 184
           E++  Y ++KD+VGE+I+G V +     VI VD   ++  + R E IS++  R G+ VKS
Sbjct: 126 EKEIMYEKYKDQVGEMITGEVYQTLRHEVIIVDSEGNELSLPRTEQISKDRFRKGESVKS 185

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            I+ V      P++ LSRT P F+ +LF +E+PEIY+GI+ V+ V R+PG RAK+AV S 
Sbjct: 186 VIHKVEMNNGSPKITLSRTSPVFLERLFEVEIPEIYDGIISVRKVVREPGERAKVAVESY 245

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D  IDPVGACVGM+GSR+ ++V EL +E ID++ ++ +    +  AL PA V+ + +D +
Sbjct: 246 DDRIDPVGACVGMKGSRIHSIVRELGNENIDVINYTDNLELLISRALSPAKVSSMQIDRE 305

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
             R+ V +  +Q+SLAIG+ GQN++LA +L G  ID+  + E+  +   D  E +     
Sbjct: 306 AKRVSVFLKPDQVSLAIGKGGQNIKLAGKLVGMEIDVFRDIEEQNDEDVDLTEFSD---- 361

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
              +DE I   L   G    + +  +   E+      +E T  ++    R+  E
Sbjct: 362 --EIDEWIIDELHKIGLDTAKSVLALSKEELVRRTDLEEATVEDVLDILRKEFE 413


>gi|256824991|ref|YP_003148951.1| transcription termination factor NusA [Kytococcus sedentarius DSM
           20547]
 gi|256688384|gb|ACV06186.1| transcription termination factor NusA [Kytococcus sedentarius DSM
           20547]
          Length = 357

 Score =  383 bits (984), Expect = e-104,   Method: Composition-based stats.
 Identities = 118/334 (35%), Positives = 193/334 (57%), Gaps = 18/334 (5%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           + +   V  E+ I  DV++  +  ++ +A +   G   + RVE++  +G + ++      
Sbjct: 5   MAVLREVEREREIPLDVLVPALETALLQAYQHEAGGRRNARVELDRRSGQVVVWAR---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
              E+           +     + G    D   P DFGR+   + +QVI Q++R+ E + 
Sbjct: 61  ---ED-------APVLEDGTRGEAGPEFDD--TPEDFGRIGAFTVRQVIRQRLRDLEDEA 108

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              +FK K G+I++G +++  +   + VDLG  +G++   E +  E+ + GDR++ Y+  
Sbjct: 109 VLGDFKGKEGDIVAGVIQQSNDPHAIHVDLGTVEGLLGTSEQVPLEDYKHGDRIRCYVIH 168

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
            +R  +GP + LSRTHP  + KLF +EVPE+ +G V++++++R+ G R+K+AV ++   +
Sbjct: 169 AKRGMKGPLIGLSRTHPNLVRKLFALEVPEVADGTVRIESIAREAGHRSKMAVRATQPGV 228

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  G+C+G  G RV+AV+ EL+ EKIDIV +  D   FV  AL PA VT V V+DE    
Sbjct: 229 NAKGSCIGPMGGRVRAVMNELQGEKIDIVDYDDDPRKFVAAALSPAKVTSVTVVDEKTRS 288

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             V VP  QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 289 ARVTVPAHQLSLAIGKEGQNARLAARLTGWRIDI 322


>gi|328948922|ref|YP_004366259.1| NusA antitermination factor [Treponema succinifaciens DSM 2489]
 gi|328449246|gb|AEB14962.1| NusA antitermination factor [Treponema succinifaciens DSM 2489]
          Length = 484

 Score =  382 bits (983), Expect = e-104,   Method: Composition-based stats.
 Identities = 139/422 (32%), Positives = 218/422 (51%), Gaps = 22/422 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGT-MSDIRVEINPETGDISLFRLL 66
           E+     A++ EK ID   +   +   I  A +  +G    +  V+   +  D++++   
Sbjct: 3   EMADAIRALSAEKGIDESSIRQTIERMILAAYQKSFGKGYDNCIVKFADDMSDVNVYARK 62

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM-DFGRVAVQSAKQVIIQKVREA 125
            VV+ V +   +I L+ A+   P   I   +  PL P  DF R AV   KQ   + + E 
Sbjct: 63  TVVDGVYDPVIEIELEEAQKLAPEAVIHDTLDIPLDPKRDFERGAVSVGKQEAHKDLNEN 122

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
              +   E+K+K+G+II G  +R   GN+ V+LG  +GV+       RE     DR+++ 
Sbjct: 123 SSKKLLDEYKEKLGQIIIGYYQREHKGNIYVELGKVEGVLPVKYQSPREVYEKNDRIRAL 182

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I DV++   G QV+LSRT   F+  +  +EVPEI +  + VK++SR+PG R K+AV S+ 
Sbjct: 183 IKDVKKVPSGIQVVLSRTDENFVKSILELEVPEIQDNTIVVKSISREPGYRTKIAVASNK 242

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG++G R+Q V+ EL  EKID++ +  D   F+ NAL PA V  VV+ +  
Sbjct: 243 IDVDPVGACVGLKGVRIQNVIRELEGEKIDVLRYDEDPHVFIKNALSPAEVKHVVIKDAE 302

Query: 306 GR-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-----------------EED 347
            R    +V  E  S+AIG++G NVRLA++L  W+ID+ TE                 EE 
Sbjct: 303 KREALAVVSDENFSIAIGKQGLNVRLANRLCNWSIDVKTEAMVTDEDLVENDTRRAAEEL 362

Query: 348 SINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV 407
               + +  E      Q   VD+ +A +L   G+ D+E    V   E  ++ G D+ T  
Sbjct: 363 FGGSENESYEEILTVAQLPGVDQRVAEILKEAGYDDIE--VFVSSYESGALNGLDDVTKE 420

Query: 408 EI 409
           ++
Sbjct: 421 QL 422


>gi|327334250|gb|EGE75964.1| transcription termination factor NusA [Propionibacterium acnes
           HL097PA1]
          Length = 323

 Score =  382 bits (983), Expect = e-104,   Method: Composition-based stats.
 Identities = 130/338 (38%), Positives = 197/338 (58%), Gaps = 25/338 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           L     +  +K I  D +L+ + D++  A       ++  +V+++ +TG++++       
Sbjct: 5   LSTLRMIERDKDIPLDYLLTTLEDALLNAYDKTEAPVNGAKVQLDRKTGNVAVML----- 59

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                           ++D    + G       P DFGRVA  +A+QVI Q++REAE ++
Sbjct: 60  ---------------PEKDEEGQVVGWYDG--TPEDFGRVAASTARQVIFQRLREAEDEQ 102

Query: 130 QYLEFKDKVGEIISGTVKRV--EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +Y  F    G++I+G V++   +   V VDLG+ +G++   E +  E    G R++ Y+ 
Sbjct: 103 KYGHFSAVEGDVITGVVQQSYRDTRTVRVDLGSLEGIMPPAEQVPGEKYSHGRRIRVYVV 162

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            VR+E RGPQV++SRTHP  + KLF MEVPEI  G+V++KA++R+ G R+K+AV S +  
Sbjct: 163 AVRKEARGPQVIVSRTHPNLVRKLFAMEVPEIEQGVVEIKALAREAGHRSKIAVVSHNPD 222

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVG 306
           +   GAC+G  G RV+AV+ EL +EKIDI+ WS D A FV  AL P+ V+ V V+D    
Sbjct: 223 VSAKGACIGPMGQRVRAVMHELDEEKIDIIDWSEDPAEFVGAALSPSKVSSVTVIDPKAK 282

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
               IVP  QLSL IGR GQN RLA++LTGW IDI  +
Sbjct: 283 TARAIVPDYQLSLGIGREGQNARLAARLTGWRIDIRPD 320


>gi|309775437|ref|ZP_07670440.1| N utilization substance protein A [Erysipelotrichaceae bacterium
           3_1_53]
 gi|308916826|gb|EFP62563.1| N utilization substance protein A [Erysipelotrichaceae bacterium
           3_1_53]
          Length = 565

 Score =  382 bits (983), Expect = e-104,   Method: Composition-based stats.
 Identities = 147/427 (34%), Positives = 247/427 (57%), Gaps = 5/427 (1%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRL 65
            + +    A+  ++ + ++VV+  + +++ KA R       + +RV++N ++GDI +++ 
Sbjct: 4   KDFMAAMQAIETDRKLSKEVVVDALQEALAKAFRKHIEIPDALVRVDVNEKSGDIKVYQQ 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VE VE+   +ISL+ A+  +  +++GGVV + +   D GR AV  AK V+ QK+REA
Sbjct: 64  RLIVENVEDDELEISLEDAKRVNQELELGGVVEEEVSIADLGRAAVILAKNVMKQKIREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E+   Y E+ DKV E++ GT++ VE    +V++G +  ++ +++ I  E  R G+ ++  
Sbjct: 124 EKLVVYEEYCDKVEEMVMGTIESVEEKFCVVNIGKTLALMPKNQQIPNERYREGEMIRVV 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V +E +G QVL+SR     + +LF  EVPEI+ GI+++KA++R+ G R K+AV+S +
Sbjct: 184 ITEVNKETKGAQVLVSRGDATLVKRLFEKEVPEIFQGIIEIKAIAREAGERTKMAVYSHN 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DED 304
            +IDP+GAC+G RG RVQ ++ EL  EKIDI  WS D    + NAL PA V  V+  +E 
Sbjct: 244 ENIDPIGACIGPRGQRVQVIIDELGGEKIDIFEWSEDVTELIKNALSPAEVLAVIPSEER 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINR---QKDFNERTQF 361
            G + V+VP  QLSLAIG+RG+N RLA +LTG  IDI  E + +      ++   ++ + 
Sbjct: 304 KGGLLVVVPDNQLSLAIGKRGKNARLAVKLTGNKIDIKAETDVNAAGINWKEIAMKQREE 363

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           F+      +  A +   E  A  +E   +  + ++  E   +E   E Q       E I 
Sbjct: 364 FLARQQEAKEAAQMERFEENAQPQEAVSLDDAGVSFQEVVTDEEVSEPQTAVDAVAEEIP 423

Query: 422 ITLQKKI 428
               ++I
Sbjct: 424 AEAVEEI 430


>gi|313897438|ref|ZP_07830981.1| transcription termination factor NusA [Clostridium sp. HGF2]
 gi|312957808|gb|EFR39433.1| transcription termination factor NusA [Clostridium sp. HGF2]
          Length = 566

 Score =  382 bits (982), Expect = e-104,   Method: Composition-based stats.
 Identities = 154/451 (34%), Positives = 257/451 (56%), Gaps = 26/451 (5%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRL 65
            + +    A+  ++ + ++VV+  + +++ KA R       + +RV++N ++GDI +++ 
Sbjct: 4   KDFMAAMQAIETDRKLSKEVVVDALQEALAKAFRKHIEIPDALVRVDVNEKSGDIKVYQQ 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VE VE+   +ISL+ A+  +  +++GGVV + +   D GR AV  AK V+ QK+REA
Sbjct: 64  RLIVENVEDDELEISLEDAKRVNQELELGGVVEEEVSIADLGRAAVILAKNVMKQKIREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E+   Y E+ DKV E++ GT++ VE    +V++G +  ++ +++ I  E  R G+ ++  
Sbjct: 124 EKLVVYEEYCDKVEEMVMGTIESVEEKFCVVNIGKTLALMPKNQQIPNERYREGEMIRVV 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V +E +G QVL+SR     + +LF  EVPEI+ GI+++KA++R+ G R K+AV+S +
Sbjct: 184 ITEVNKETKGAQVLVSRGDATLVKRLFEKEVPEIFQGIIEIKAIAREAGERTKMAVYSHN 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DED 304
            +IDP+GAC+G RG RVQ ++ EL  EKIDI  WS D    + NAL PA V  V+  +E 
Sbjct: 244 ENIDPIGACIGPRGQRVQVIIDELGGEKIDIFEWSEDVTELIKNALSPAEVLAVIPSEER 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE----------EDSINRQKD 354
            G + V+VP  QLSLAIG+RG+N RLA +LTG  IDI  E           E ++ ++++
Sbjct: 304 KGGLLVVVPDNQLSLAIGKRGKNARLAVKLTGNKIDIKAETDVDAAGINWKEIAMKQREE 363

Query: 355 FNERTQFFMQAINVD--EIIAH-----LLVAEGFADVEELACVKISEIASIEGFDEETAV 407
           F  R Q    A  ++  E  A       L   G +  E +    +SE        EE++ 
Sbjct: 364 FLARQQEAKLAAQMERFEENAQPQDALSLDDAGVSFQEAVTEEAVSEPVV-----EESSE 418

Query: 408 EIQGRAREYLEGIDITL--QKKIRELGVSEE 436
            ++  A   +E   ++   ++ + E    EE
Sbjct: 419 PVEATASPAVEEATVSAPVEEVVEEAQPQEE 449


>gi|314923905|gb|EFS87736.1| transcription termination factor NusA [Propionibacterium acnes
           HL001PA1]
 gi|314966035|gb|EFT10134.1| transcription termination factor NusA [Propionibacterium acnes
           HL082PA2]
 gi|315094983|gb|EFT66959.1| transcription termination factor NusA [Propionibacterium acnes
           HL060PA1]
 gi|315104208|gb|EFT76184.1| transcription termination factor NusA [Propionibacterium acnes
           HL050PA2]
 gi|327328082|gb|EGE69851.1| transcription termination factor NusA [Propionibacterium acnes
           HL103PA1]
          Length = 323

 Score =  382 bits (982), Expect = e-104,   Method: Composition-based stats.
 Identities = 131/338 (38%), Positives = 198/338 (58%), Gaps = 25/338 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           L     +  +K I  D +L+ + D++  A       ++  +V+++ +TG++++       
Sbjct: 5   LSTLRMIERDKDIPLDYLLTTLEDALLNAYDKTEAPVNGAKVQLDRKTGNVAVML----- 59

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                           ++D    + G       P DFGRVA  +A+QVI Q++REAE ++
Sbjct: 60  ---------------PEKDEEGQVVGWYDG--TPEDFGRVAASTARQVIFQRLREAEDEQ 102

Query: 130 QYLEFKDKVGEIISGTVKRV--EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +Y  F    G++I+G V++   +   V VDLG+ +G++   E +  E    G R++ Y+ 
Sbjct: 103 KYGHFSAVEGDVITGVVQQSYRDTRTVRVDLGSLEGIMPPAEQVPGEKYSHGRRIRVYVV 162

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            VR+E RGPQV++SRTHP  + KLF MEVPEI  G+V++KA++R+ G R+K+AV S +  
Sbjct: 163 AVRKEARGPQVIVSRTHPNLVRKLFAMEVPEIEQGVVEIKALAREAGHRSKIAVVSHNPD 222

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVG 306
           +   GAC+G  G RV+AV+ EL +EKIDI+ WS D A FV  AL P+ V+ V V+D    
Sbjct: 223 VSAKGACIGPMGQRVRAVMHELDEEKIDIIDWSGDPAEFVGAALSPSKVSSVTVIDSKAK 282

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
               IVP  QLSLAIGR GQN RLA++LTGW IDI  +
Sbjct: 283 TARAIVPDYQLSLAIGREGQNARLAARLTGWRIDIRPD 320


>gi|293400740|ref|ZP_06644885.1| N utilization substance protein A [Erysipelotrichaceae bacterium
           5_2_54FAA]
 gi|291305766|gb|EFE47010.1| N utilization substance protein A [Erysipelotrichaceae bacterium
           5_2_54FAA]
          Length = 559

 Score =  382 bits (982), Expect = e-104,   Method: Composition-based stats.
 Identities = 135/342 (39%), Positives = 217/342 (63%), Gaps = 2/342 (0%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRL 65
            + +    A+  ++ + ++VV+  + +++ KA R       + +RV++N +TG+I +++ 
Sbjct: 4   KDFMAAMQAIESDRKLPQEVVVEALQEALAKAFRKHIEIPDALVRVDVNEKTGNIKVYQQ 63

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VE VE+   +ISL+ A+  +  +++ GVV + +     GR AV  AK V+ QK+REA
Sbjct: 64  RTIVETVEDDELEISLEDAKKINQELELDGVVEEEVDITQLGRAAVILAKNVMKQKIREA 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E+   Y E+ DKV E++ GT++ VE    IV++G +  ++ +++ I  E    GDR++  
Sbjct: 124 EKLIVYEEYCDKVDEMVVGTIESVEEKFCIVNIGKTLALMPKNQQIPNERYHEGDRIRVV 183

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I +V +E +G QVL+SR     + +LF  EVPEI+ G++++KA++R+ G R K+AV+S +
Sbjct: 184 IIEVNKETKGAQVLVSRGDATLVKRLFEKEVPEIFQGVIEIKAIAREAGERTKMAVYSHN 243

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DED 304
            +IDP+GAC+G RG RVQ ++ EL  EKIDI  WS D A  + NAL PA V  V+  +E 
Sbjct: 244 ENIDPIGACIGPRGQRVQVIINELGGEKIDIFEWSEDVAELIKNALSPAEVLAVIPSEER 303

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            G + V+VP  QLSLAIG+RG+N RLA +LTG  IDI  E +
Sbjct: 304 KGGLLVVVPDNQLSLAIGKRGKNARLAVKLTGNKIDIKAESD 345


>gi|317051740|ref|YP_004112856.1| transcription termination factor NusA [Desulfurispirillum indicum
           S5]
 gi|316946824|gb|ADU66300.1| transcription termination factor NusA [Desulfurispirillum indicum
           S5]
          Length = 382

 Score =  382 bits (981), Expect = e-104,   Method: Composition-based stats.
 Identities = 141/356 (39%), Positives = 221/356 (62%), Gaps = 1/356 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
           + E +   + +  EK++D+  +L  +  ++  A +  Y    +I   I+ ETG   +   
Sbjct: 2   KNEFISSIEQLCREKNLDKTTLLEAIETAVVAALKRKYSQECEIFFRIDDETGVFDVSFE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVE+V + + +ISL  A        +G  +  P+      R+  Q+AKQ+I+Q+VR+ 
Sbjct: 62  KEVVEKVRDKSLEISLTDAIKIQEDAKVGQRIHVPIDIQTIARITAQTAKQIIMQRVRDV 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E+     E+++++GE+I   V+RVE   V++ +G  DGV+ + + +  +  + GD VK+ 
Sbjct: 122 EKASLMDEYRERIGELILAPVERVEARRVVLSMGECDGVLLQSDILPTDTYKQGDVVKAV 181

Query: 186 IYDVRREQRG-PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           I DV+  +RG  Q+LLSRT  QF+++LF  EVPEI +  V +KAV+R+ GSR+K+AV + 
Sbjct: 182 IRDVQLSRRGDVQILLSRTSEQFLLQLFREEVPEISSSNVVIKAVAREGGSRSKIAVKAL 241

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
            S +DPVGACVG++GSRV AVV E+  EKIDI+ WS + A F+ NAL PA V K+ + ++
Sbjct: 242 KSGMDPVGACVGVKGSRVSAVVEEIGGEKIDIIEWSDEPALFICNALNPAEVVKMDIYDE 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
            G   V+VP+ QLSLAIGR+GQN RLA++LT W IDI +EEE     + +  +  +
Sbjct: 302 EGVAVVVVPERQLSLAIGRKGQNARLAAKLTNWKIDIYSEEEYEAYLRGETPQARR 357


>gi|330836562|ref|YP_004411203.1| NusA antitermination factor [Spirochaeta coccoides DSM 17374]
 gi|329748465|gb|AEC01821.1| NusA antitermination factor [Spirochaeta coccoides DSM 17374]
          Length = 477

 Score =  381 bits (980), Expect = e-103,   Method: Composition-based stats.
 Identities = 148/492 (30%), Positives = 259/492 (52%), Gaps = 30/492 (6%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L +   ++  EK I +D+V+S + D ++ A +  +GT ++  V+ + +  +++L     +
Sbjct: 5   LSEAIKSMVEEKGISQDLVISTIEDFLRAAYKRKFGTDANAVVQFSDDLSNVTLNARRII 64

Query: 69  VEEV--ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           VE+    + T +ISL+ A +     +IG  +  P+   +F R+++QSAKQ   Q +R+ +
Sbjct: 65  VEDENYYDMTTEISLEEAEELVGKCEIGDELLVPIDLKEFDRISIQSAKQRSRQSLRDIQ 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           +D  + E+++K G++I G V+R    +  VD+G+++G++ R    SRE  R GD+VK Y+
Sbjct: 125 KDTTFKEYENKTGQLIIGYVQRQIGDDFYVDIGSTEGILPRRNQSSREVYRQGDKVKFYV 184

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
             V +   G +V+LSRT  + +  LF +EVPEIY+  +++  + R+ G R K+AV+S   
Sbjct: 185 EKVEKTDHGVRVVLSRTSAELVKLLFELEVPEIYDHSIEIHDIVREAGYRTKVAVYSHRD 244

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV-LDEDV 305
            IDPVGACVG++G R+Q ++ E+  EKIDI+ + P+   F+ NAL PA V  V+ L ++ 
Sbjct: 245 DIDPVGACVGLKGMRIQTIMKEIEGEKIDILKYDPNPEVFIRNALAPAEVKDVILLKQNE 304

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            R   IV   QLSLAIG++G NVRLA+QL+ W I++ TE + +                 
Sbjct: 305 RRALAIVDDTQLSLAIGKQGLNVRLANQLSDWIIEVKTEAQFAELDIASTARSR------ 358

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
                  A  L    F D +E+  V   E+        E    ++    E  +   +T +
Sbjct: 359 -------AEAL----FTDADEVEDVSDYEMT-------EDVPALRFDEGEVADEDYVTEE 400

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFD 485
           +   E  +   L  +P ID+++   L  +GI T+         +L    +      +K D
Sbjct: 401 EDGDEGDL--NLSELP-IDAELIAKLNSHGIYTVGQYINLDDAELTSLDDVTVEEKQKLD 457

Query: 486 GFLSSLGTPKDQ 497
              +   + +++
Sbjct: 458 EIFNEFVSIEEE 469


>gi|312134896|ref|YP_004002234.1| transcription termination factor nusa [Caldicellulosiruptor
           owensensis OL]
 gi|311774947|gb|ADQ04434.1| transcription termination factor NusA [Caldicellulosiruptor
           owensensis OL]
          Length = 353

 Score =  381 bits (980), Expect = e-103,   Method: Composition-based stats.
 Identities = 128/344 (37%), Positives = 201/344 (58%), Gaps = 9/344 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS----DIRVEINPETGDI 60
           +  EL    D +  E  I++D V SV+  ++  A + + G       +++V I+PE G +
Sbjct: 9   DFQELFSAIDELEREYKIEKDYVYSVLESALLTAYKQVKGIKDKNLSNVKVSIDPEKGSV 68

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            ++   +VVE V++   +I L+ A+  D    IG +V+  +P   F R A  + +Q +I 
Sbjct: 69  KIYEYKKVVENVKDKKSEILLEDAQKIDKRYKIGDIVAIEVPISQFSRKAAMTVRQTVIG 128

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRP 178
           K+RE  R   + ++  KV  I++G ++R++  NVIV++  G  + ++  +E I  E  +P
Sbjct: 129 KIREKRRSIIFEDYSSKVDNIVTGVIQRIDKKNVIVEIEGGKVEAILPMEEQIPGEEYKP 188

Query: 179 GDRVKSYIYDVR--REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
           G  +K YI +V+   +++ P V LSRTHP  + +L   EVPEI  GI+++KA++R+ GSR
Sbjct: 189 GVMMKFYITEVKIPPKEKEPIVYLSRTHPNLIKRLMENEVPEIQEGIIEIKAIAREAGSR 248

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           +K+AV+S+   +DPVGAC+G +G R+Q V+  L  EKIDIV WS D   F+ NAL PA V
Sbjct: 249 SKVAVYSNSLKVDPVGACIGEKGIRIQNVLKHLNGEKIDIVKWSSDIGEFIKNALSPAEV 308

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
             + L+    +  V+VP  QLSLAIGR G   R A   T W  D
Sbjct: 309 VHIDLNLIEKKAFVLVPNSQLSLAIGRGGTE-RSACSKTDWLED 351


>gi|119953577|ref|YP_945787.1| transcription elongation factor NusA [Borrelia turicatae 91E135]
 gi|119862348|gb|AAX18116.1| N utilization substance protein A [Borrelia turicatae 91E135]
          Length = 495

 Score =  381 bits (980), Expect = e-103,   Method: Composition-based stats.
 Identities = 142/450 (31%), Positives = 240/450 (53%), Gaps = 26/450 (5%)

Query: 11  QIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE 70
           Q+   +A E+ +  D +   + +SI  A +  +GT  +  ++ + +TGD+ ++   ++VE
Sbjct: 21  QMIANIANERGMSIDAIRKTVRESIMIAYKKYFGTSENALIKFDEDTGDLIVYSKKKIVE 80

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           EV++   +I    +++    +   G     + P  F R+++Q AKQ     ++  E +  
Sbjct: 81  EVQDDILEILKDDSQEF--EVMEDGYAYIEIDPKIFDRLSIQVAKQRTKSDLQGIEDNEL 138

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVR 190
           YLEFK K+ +I+ G V++   G++ V+LG++DGVI +     RE     D+V+  +Y V+
Sbjct: 139 YLEFKHKLHKIVIGYVQQNRNGDLYVNLGSTDGVIPKKYQSPREVYGLNDKVRVLVYSVK 198

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDP 250
           + + G +V+LSRTHP+F+ +L  +E+PEI  G++++  + RDPG R K+AV+S    IDP
Sbjct: 199 KGKNGIEVVLSRTHPKFIEELLTLEIPEIEEGLIKIHKIVRDPGYRTKVAVYSEKEEIDP 258

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIE 309
           VG C+G +G R+Q+++ EL  EKIDI+ +S D   F+ +AL PA +  V ++DED+ +  
Sbjct: 259 VGPCIGQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIRDALTPAKIDNVYIVDEDLHKAL 318

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK---------------D 354
           V+V  EQLSLAIG+ GQNVRLA++L  W ID+ T  + +  +                  
Sbjct: 319 VVVSDEQLSLAIGKMGQNVRLANRLLDWAIDVKTSSQFAEMKASGEFKQETFEMFDKIIQ 378

Query: 355 FNERTQFFMQAINVDE------IIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVE 408
            N +   F +   + E       I   LV  GF D++        ++  + G   E   E
Sbjct: 379 DNVQEDEFEEINKISELKILDNDIVDKLVEAGFDDIDSFLDASEEKLFEL-GIGYEKQEE 437

Query: 409 IQGRAREYLEGIDITLQKKIRELGVSEELC 438
           I    +E +  I       I  +   EEL 
Sbjct: 438 INKILKEGMVIISND-DGSIEGMKDEEELL 466


>gi|184201252|ref|YP_001855459.1| transcription elongation protein NusA [Kocuria rhizophila DC2201]
 gi|183581482|dbj|BAG29953.1| transcription elongation protein NusA [Kocuria rhizophila DC2201]
          Length = 325

 Score =  381 bits (979), Expect = e-103,   Method: Composition-based stats.
 Identities = 122/338 (36%), Positives = 191/338 (56%), Gaps = 24/338 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  E+ I  DV++  +  ++  A     G +   R E+   TG ++++      
Sbjct: 5   MSTLRLLERERDIPVDVLIPTIEQALLLAYMRSPGAIDGARAEVERRTGHVTIW------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A + D      G   D   P  FGR+A  +A+QVI+QK+R+ E D 
Sbjct: 59  --------------APELDEQDQRIGEFDD--TPSGFGRIAAATARQVILQKLRDVEDDN 102

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
               FK + GE++SG +++      V V+LG  +G++   E +  E  R GDR+++++ +
Sbjct: 103 VLGHFKGREGELVSGQIQQGNNPRMVQVNLGTVEGLLPPHEQVPGETYRHGDRIRAFVVE 162

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
            +R  +GP + LSR+HP  + +LF MEVPEI +G V++  ++R+ G R K+AV +     
Sbjct: 163 AKRGFKGPSITLSRSHPDLVRRLFEMEVPEIADGSVEIVTLAREAGHRTKMAVEARRPGA 222

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGR 307
           +  GAC+G  GSRV+AV+ EL +EKIDI+ +S D A F+ NAL PA V++VV+ D+    
Sbjct: 223 NAKGACIGDMGSRVRAVMNELGEEKIDIIDFSQDPAEFIGNALSPARVSRVVVLDDAARS 282

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
              +VP  QLSLAIG+ GQN RLA++LTGW IDI+ E 
Sbjct: 283 ARAVVPDSQLSLAIGKEGQNARLAARLTGWKIDIVPES 320


>gi|188996513|ref|YP_001930764.1| NusA antitermination factor [Sulfurihydrogenibium sp. YO3AOP1]
 gi|188931580|gb|ACD66210.1| NusA antitermination factor [Sulfurihydrogenibium sp. YO3AOP1]
          Length = 371

 Score =  381 bits (979), Expect = e-103,   Method: Composition-based stats.
 Identities = 148/366 (40%), Positives = 225/366 (61%), Gaps = 19/366 (5%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG--TMSDIRVEINPETGDISLF 63
            ++L  + + ++ EK+I  DV+   + D I  A +  +       +++  + E  ++ + 
Sbjct: 2   SVKLKNVIETISREKNIPEDVIEKALRDGILTAVKKEFKLREKDAVKIIFDKEKDELKVL 61

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
              +V   VE+ T +I+L+ A++ DP+ D G  V  PL   D GR+A+  AK+VI +KV 
Sbjct: 62  IKKKVTPFVEDETKEIALEEAKNYDPNADYGKYVYVPLNLEDIGRIALSVAKEVIAKKVS 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           + ERD  Y EFKD  G+II+GTV+R E  ++IVDLG  + ++ ++E I +E  + GDR++
Sbjct: 122 KVERDILYREFKDYEGKIITGTVRRFEGDDIIVDLGRIEAILPKEEQIPKEKYKIGDRIR 181

Query: 184 SYIYDVRREQ------RG-----------PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
           + +  V +E       +G           P V+LSRTHP F+ KL  +EVPEI  G ++V
Sbjct: 182 ALVLKVSKENTYPIIEKGKLKRVIKVFEPPMVILSRTHPNFLKKLLEIEVPEIAEGEIEV 241

Query: 227 KAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATF 286
           KAV+R+PG RAK+AV+S D +IDPVG  VG++GSR+  V +EL  EKID++ W  D A F
Sbjct: 242 KAVAREPGERAKVAVYSKDKNIDPVGVVVGLKGSRILNVSSELSGEKIDVIEWDEDPAKF 301

Query: 287 VINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           +I AL PA   K  L     RIE+ VP+E+LSLAIG+ G N +LA +LTGW IDI++EE+
Sbjct: 302 IIRALAPARAKKYRLLPREKRIEIAVPREELSLAIGKNGINAKLAHKLTGWHIDILSEED 361

Query: 347 DSINRQ 352
               ++
Sbjct: 362 FERIQK 367


>gi|150024572|ref|YP_001295398.1| transcription elongation factor NusA [Flavobacterium psychrophilum
           JIP02/86]
 gi|149771113|emb|CAL42580.1| Transcription elongation protein NusA [Flavobacterium psychrophilum
           JIP02/86]
          Length = 413

 Score =  380 bits (978), Expect = e-103,   Method: Composition-based stats.
 Identities = 132/417 (31%), Positives = 234/417 (56%), Gaps = 9/417 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            L L+        +KSIDR  +++++ D  + A +  YG+  +  + INP+ GD+ +++ 
Sbjct: 3   NLALIDSFSEFKDDKSIDRPTLMAILEDVFRNALKKKYGSDDNFDIIINPDKGDMEIWQR 62

Query: 66  LEVVEEVENYT--CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             +V + +      +I+L  AR  +P  +IG  VS+ +  +D GR A+ + +Q +I K+ 
Sbjct: 63  RVIVADDDLDLDHLEITLTDARKIEPDFEIGEEVSEEVKLIDLGRRAILALRQNLISKIH 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRV 182
           E +    Y +FKD +G+I +G V  V    VI VD   ++ ++ +++ I  +  R GD V
Sbjct: 123 EHDNTNLYKQFKDLIGDIYTGEVHHVRPRVVILVDDEGNEIILPKEKQIPSDFFRKGDNV 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  I  V  +   PQ+++SRT  +F+ KLF  E+PE+++G++ VK V R PG +AK+AV 
Sbjct: 183 RGIIESVELKGNKPQIIMSRTSEKFLEKLFEQEIPEVFDGLIMVKNVVRIPGEKAKVAVD 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDPVGACVGM+GSR+  +V EL +E ID++ ++ ++  ++  AL PA V+ + ++
Sbjct: 243 SYDDRIDPVGACVGMKGSRIHGIVRELGNENIDVINYTTNTQLYITRALSPAKVSSIKIN 302

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+  R EV +  E++S AIGR G N++LA QLTG+ +D+I E   + +   +  E +   
Sbjct: 303 EETKRAEVFLKLEEVSKAIGRGGHNIKLAGQLTGYELDVIREGTVAADDDVELTEFSD-- 360

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
                ++  +       G    + +    ++++      +EET +E+    +E  E 
Sbjct: 361 ----EIEAWVIEEFAKIGLDTAKSILSQDVNDLVRRTDLEEETILEVVKILKEEFEE 413


>gi|183601974|ref|ZP_02963343.1| transcription elongation factor NusA [Bifidobacterium animalis
           subsp. lactis HN019]
 gi|219682886|ref|YP_002469269.1| transcription elongation factor NusA [Bifidobacterium animalis
           subsp. lactis AD011]
 gi|241190463|ref|YP_002967857.1| transcription elongation factor NusA [Bifidobacterium animalis
           subsp. lactis Bl-04]
 gi|241195869|ref|YP_002969424.1| transcription elongation factor NusA [Bifidobacterium animalis
           subsp. lactis DSM 10140]
 gi|183218859|gb|EDT89501.1| transcription elongation factor NusA [Bifidobacterium animalis
           subsp. lactis HN019]
 gi|219620536|gb|ACL28693.1| N utilization substance-like protein [Bifidobacterium animalis
           subsp. lactis AD011]
 gi|240248855|gb|ACS45795.1| transcription elongation factor NusA [Bifidobacterium animalis
           subsp. lactis Bl-04]
 gi|240250423|gb|ACS47362.1| transcription elongation factor NusA [Bifidobacterium animalis
           subsp. lactis DSM 10140]
 gi|289178187|gb|ADC85433.1| N utilization substance protein A [Bifidobacterium animalis subsp.
           lactis BB-12]
 gi|295793450|gb|ADG32985.1| transcription elongation factor NusA [Bifidobacterium animalis
           subsp. lactis V9]
          Length = 358

 Score =  380 bits (978), Expect = e-103,   Method: Composition-based stats.
 Identities = 122/354 (34%), Positives = 203/354 (57%), Gaps = 15/354 (4%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           L    A+A E+ ID + V + ++++++ A   +       RVE++P  G  +++   E+ 
Sbjct: 5   LNGIHALAQEQGIDAETVDAALSEALRLAYLKMPHAAKYARVELDPRAGSFTIWARDEIP 64

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
           +E                 P+ ++G    D   P DFGR+A  +A+QVI Q  R+AE DR
Sbjct: 65  QEPTEDN----------PHPAPELGEEYDD--TPHDFGRLAASTARQVIQQLFRKAEDDR 112

Query: 130 QYLEFKDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
            +  F  + G++I+G V++   +  NV V +G+ + ++ R E +  E  R G+R++ Y+ 
Sbjct: 113 VFGAFSGQRGKLITGVVQQDVKDPANVHVAVGDVEALLPRREQVPGERYRHGERIRVYVT 172

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V R  +GP++++SR+HP+ + +LF  EVPE+ +G V + A++R+ G+R K+AV ++   
Sbjct: 173 TVARGLKGPEIIVSRSHPELVRRLFEREVPELASGAVSIMAIAREAGARTKIAVRANTPG 232

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVG 306
           I+P GA +G  GSRV+AV+  L  EKIDI+ WS + A F+  AL PA+V+ V V+ E   
Sbjct: 233 INPKGALIGPGGSRVRAVMENLGSEKIDIIDWSANPAEFIAAALSPAVVSDVQVISEKNQ 292

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
                +  EQLSLAIG+ GQN RLA++LTGW I I +    +   ++   +   
Sbjct: 293 TAIAFINDEQLSLAIGKEGQNARLAAKLTGWKIGIESNSAHAAKLREQAAKAAD 346


>gi|217077786|ref|YP_002335504.1| transcription elongation factor NusA [Thermosipho africanus TCF52B]
 gi|217037641|gb|ACJ76163.1| transcription termination factor NusA [Thermosipho africanus
           TCF52B]
          Length = 344

 Score =  380 bits (977), Expect = e-103,   Method: Composition-based stats.
 Identities = 132/338 (39%), Positives = 212/338 (62%), Gaps = 1/338 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            L+ LQ  + +  EK +  D ++ V+  ++  A +  +G   ++ + IN +TG+I  ++L
Sbjct: 2   NLDFLQALEQLEEEKGVKVDEIIPVIEKALISAYKKDFGGEKNVEIIINRQTGEIEAYQL 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           LEVVE VE    QISL+ A   + S  IG +V   L    FGR+A Q+AKQV+IQK+RE 
Sbjct: 62  LEVVENVEKPNLQISLEEALKINSSAKIGDIVKKRLNIKKFGRIAAQTAKQVLIQKIREI 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E+++Q+ ++ +  G+I +  V RV      + +G  +  + + E I  E ++P   +K Y
Sbjct: 122 EKEKQFEKYSELAGKITTAEVVRVTKDWADIRIGKLETRLPKKEWIPGEEIQPASLIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + DV+++++GP++L++R + +F+  L  +EVPEI + +V+V  + R+PG R K+AV S++
Sbjct: 182 VKDVKKDKKGPKILVTRINEEFIKGLLELEVPEIESKVVEVVKIVREPGIRTKVAVKSNN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGAC+G  G R+ A++ EL  EKIDI+ WS D    + +AL+PA V +V + +  
Sbjct: 242 PKVDPVGACIGEEGIRIAAILKELNGEKIDIIKWSDDPKELIASALQPANVIEVEILDYE 301

Query: 306 GRI-EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
            +   VIV   QLSLAIG+ GQN RLA++LTGW IDI 
Sbjct: 302 NKASRVIVSPNQLSLAIGKGGQNARLAAKLTGWKIDIK 339


>gi|260060676|ref|YP_003193756.1| transcription elongation factor NusA [Robiginitalea biformata
           HTCC2501]
 gi|88784806|gb|EAR15975.1| transcription elongation factor NusA [Robiginitalea biformata
           HTCC2501]
          Length = 410

 Score =  380 bits (977), Expect = e-103,   Method: Composition-based stats.
 Identities = 132/416 (31%), Positives = 230/416 (55%), Gaps = 12/416 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            L L++       +K IDR  +++++ +  + A +  +G+  +  + INP+ GD+ ++R 
Sbjct: 3   NLALIESFSEFKDDKFIDRVTLMAILEEVFRAALKRKFGSDDNFDIIINPDKGDLEIWRN 62

Query: 66  LEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV   EVE    +ISL  AR  +P  ++G  VS+ +  +D GR ++ + +Q +I K+ 
Sbjct: 63  RVVVPDGEVEEPNEEISLSEARKIEPDFEVGEDVSEEVKLIDLGRRSILALRQNLIAKIH 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRV 182
           E +    Y +FKD  GEI +  V  + +  +I +D   ++ ++ +++ I  +  R GD V
Sbjct: 123 EHDNTTIYKQFKDLEGEIYTAEVHHIRHKAIILLDDEGNELIMPKEKQIPSDFFRKGDNV 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  I  V  +   P +++SRT P+F+ +LFH E+PE+++G++ +K   R PG +AK+AV 
Sbjct: 183 RGIIESVELKGNKPLIIMSRTSPKFLEQLFHQEIPEVFDGLITIKKAVRIPGEKAKVAVD 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDPVGACVGM+GSR+  +V EL +E ID++ W+ +    V  +L PA VT+V L+
Sbjct: 243 SYDDRIDPVGACVGMKGSRIHGIVRELGNENIDVINWTNNPQLMVTRSLSPARVTQVKLN 302

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ++    +V +  E++S AIGR G N+RLA QLTG+ ID+  E  +      +F +     
Sbjct: 303 DENMTAQVYLKPEEVSKAIGRGGHNIRLAGQLTGYEIDVYREGVEEDVELTEFRD----- 357

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
                ++E I   L   G      +    + ++      +EET +++    +E  E
Sbjct: 358 ----EIEEWIIMELRKIGLDTARAVLEQDVEDLVKRTDLEEETILDVIRILKEEFE 409


>gi|150021290|ref|YP_001306644.1| transcription elongation factor NusA [Thermosipho melanesiensis
           BI429]
 gi|149793811|gb|ABR31259.1| NusA antitermination factor [Thermosipho melanesiensis BI429]
          Length = 344

 Score =  380 bits (977), Expect = e-103,   Method: Composition-based stats.
 Identities = 128/338 (37%), Positives = 215/338 (63%), Gaps = 1/338 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            L+ LQ  + +  EK I  D ++ ++  ++  A +  +G   ++ + IN +TG+I L++L
Sbjct: 2   NLDFLQALEQLEEEKGIKVDEIIPIIEKALVSAYKKDFGGEKNVEITINRQTGEIELYQL 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           LEVV++VE  T QISL+ A     +  IG  +   +    FGR+A Q+AKQV+IQ++RE 
Sbjct: 62  LEVVDKVEKETTQISLEDALKISSNAKIGDTIRKRINVKKFGRIAAQTAKQVLIQRIREI 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E+++Q+ ++ +  G+I +  V R+      + +G  +  + + E I  E + P   +K Y
Sbjct: 122 EKEKQFEKYSELAGKITTAEVIRITKEWADIRIGKLETRLPKKEWIPGETIEPASLIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + DV+++++GP++L++R + +F+  L  +EVPEI + +V++  + R+PG R K+AV S++
Sbjct: 182 VKDVKKDKKGPKILVTRINEEFIKGLLELEVPEIESKVVEIVKIVREPGIRTKVAVKSNN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
             +DPVGAC+G  G R+ A++ EL+ EK+DI+ WS D    + +AL+PA V +V +LD +
Sbjct: 242 PKVDPVGACIGEEGVRIAAILRELKGEKLDIIKWSDDPKELIASALQPANVVEVEILDPE 301

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
                +IVP  QLSLAIG+ GQN RLA++LTGW IDI 
Sbjct: 302 NKASRIIVPPTQLSLAIGKGGQNARLAAKLTGWKIDIK 339


>gi|149370939|ref|ZP_01890534.1| transcription elongation factor NusA [unidentified eubacterium
           SCB49]
 gi|149355725|gb|EDM44283.1| transcription elongation factor NusA [unidentified eubacterium
           SCB49]
          Length = 410

 Score =  380 bits (977), Expect = e-103,   Method: Composition-based stats.
 Identities = 133/417 (31%), Positives = 227/417 (54%), Gaps = 12/417 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            L L+        +K IDR  +++++ +  + A +  YG+  +  + +NP+ GD+ ++R 
Sbjct: 3   NLALIDSFSEFKDDKQIDRVTLMAILEEVFRNALKKKYGSDDNFDIIVNPDKGDLEIWRN 62

Query: 66  LEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV   +V +   +ISL  AR  +   ++G  VS  +  MD GR ++ + +Q +I K+ 
Sbjct: 63  RVVVADIDVMDPNEEISLTDARKIEDDFEVGEDVSQEVKLMDLGRRSILALRQNLISKIH 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRV 182
           E +    Y +FKD  GEI +  V  + +  VI +D   ++ ++ +D  I  +  R GD V
Sbjct: 123 EHDNTIIYKQFKDMEGEIYTAEVHHIRHRAVILLDDEGNEMIMPKDRQIPSDFFRKGDNV 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  +  V  +   P +++SR  P F+ KLF  E+PE+++G++ VK V R PG +AK+AV 
Sbjct: 183 RGIVESVELKGNKPTIIMSRASPLFLEKLFEQEIPEVFDGLINVKKVVRIPGEKAKVAVD 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           + D  IDPVGACVGM+GSR+  +V EL +E ID++ ++ +   F+  AL PA VT V ++
Sbjct: 243 TYDDRIDPVGACVGMKGSRIHGIVRELGNENIDVINYTENITLFITRALSPAKVTSVKVN 302

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+  R EVI+  E++S AIGR G N+RLA QLTG+ ID++ E  +     K+F++     
Sbjct: 303 EENKRAEVILKPEEVSKAIGRGGHNIRLAGQLTGYEIDVLREGAEEDVELKEFSD----- 357

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
                ++  I       G    + +    + ++ +    +EET   +    +E  E 
Sbjct: 358 ----EIEAWIIEEFHKIGLDTAKSVLEYDVKDLVNRIDLEEETIQHVIDILKEEFEE 410


>gi|126663078|ref|ZP_01734076.1| transcription elongation factor NusA [Flavobacteria bacterium
           BAL38]
 gi|126624736|gb|EAZ95426.1| transcription elongation factor NusA [Flavobacteria bacterium
           BAL38]
          Length = 413

 Score =  380 bits (976), Expect = e-103,   Method: Composition-based stats.
 Identities = 136/416 (32%), Positives = 234/416 (56%), Gaps = 9/416 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            + L++       +K IDR  +++++ D  + A +  YG+  +  + INP+ GD+ ++R 
Sbjct: 3   NIALIESFSEFKDDKLIDRVTLMAILEDVFRNALKKKYGSDDNFDIIINPDKGDMEIWRN 62

Query: 66  LEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVE  EVE+   +ISL  AR  +P  ++G  VS+ +  +  GR A+ S +Q +I K+ 
Sbjct: 63  RVVVEDGEVEDPNSEISLTEARRIEPDFEVGEDVSEEVKLIQLGRRAILSLRQNLISKIH 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRV 182
           E +    Y +FKD +G+I +  V  V    VI+ D   ++ V+ +++ I  +  + GD V
Sbjct: 123 EHDNTNLYKQFKDLIGDIYTAEVHHVRPKAVILMDDEGNEIVLPKEKQIPNDYFKKGDNV 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  I +V  +   PQ+++SRT P+F+ KLF  E+PE+++G++ +K V R PG +AK+AV 
Sbjct: 183 RGVIENVELKGNKPQIIMSRTAPEFLEKLFEQEIPEVFDGLITIKKVVRIPGEKAKVAVD 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDPVGACVGM+GSR+  +V EL +E ID++ ++ ++  ++  AL PA V+ V ++
Sbjct: 243 SYDDRIDPVGACVGMKGSRIHGIVRELGNENIDVINFTTNAQLYITRALSPAKVSTVKIN 302

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+    EV +  E++S AIGR G N++LAS LTG+ ID+I E         +  E +   
Sbjct: 303 EEAKTAEVFLKIEEVSKAIGRGGNNIKLASLLTGYEIDVIREGIAQEEDDVELREFSD-- 360

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
                ++  I       G      +    ++++      +EET +++    +E LE
Sbjct: 361 ----EIEAWIIEEFEKIGLDTARSVLNQDVADLVRRTDLEEETILDVINILKEELE 412


>gi|313836822|gb|EFS74536.1| transcription termination factor NusA [Propionibacterium acnes
           HL037PA2]
 gi|314929769|gb|EFS93600.1| transcription termination factor NusA [Propionibacterium acnes
           HL044PA1]
 gi|314972198|gb|EFT16295.1| transcription termination factor NusA [Propionibacterium acnes
           HL037PA3]
 gi|328907626|gb|EGG27390.1| transcription elongation factor NusA [Propionibacterium sp. P08]
          Length = 323

 Score =  380 bits (976), Expect = e-103,   Method: Composition-based stats.
 Identities = 130/340 (38%), Positives = 197/340 (57%), Gaps = 25/340 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           L     +  +K I  D +L+ + D++  A       +   +V+++  TG++++       
Sbjct: 5   LSTLRMIERDKDIPLDYLLTTLEDALLNAYDKTEAPVRGAKVQLDRTTGNVAVML----- 59

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                           ++D   ++ G       P DFGRVA  +A+QVI Q++REAE ++
Sbjct: 60  ---------------PEKDEEGEVIGWYDG--TPEDFGRVAASTARQVIFQRLREAEDEQ 102

Query: 130 QYLEFKDKVGEIISGTVKRV--EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           +Y  F    G++++G V++   +   V VDLG  +G++   E +  E    G R++ Y+ 
Sbjct: 103 KYGHFAAVEGDVVTGVVQQSYRDTRTVRVDLGTLEGIMPPSEQVPGEKYFHGRRIRVYVV 162

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            VR+E RGPQV++SRTHP  + KLF MEVPEI   +V++KA++R+ G R+K+AV S +S 
Sbjct: 163 AVRKEARGPQVIVSRTHPNLVRKLFAMEVPEIEQEVVEIKALAREAGHRSKIAVVSHNSD 222

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVG 306
           +   GAC+G  G RV+AV+ EL +EKIDI+ WS D A FV  AL P+ V+ V V+D    
Sbjct: 223 VSAKGACIGPMGQRVRAVMHELGEEKIDIIDWSEDPAEFVGAALSPSKVSSVTVIDPKAK 282

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               IVP  QLSLAIGR GQN RLA++LTGW IDI  + +
Sbjct: 283 TARAIVPDYQLSLAIGREGQNARLAARLTGWRIDIRPDNQ 322


>gi|239617901|ref|YP_002941223.1| NusA antitermination factor [Kosmotoga olearia TBF 19.5.1]
 gi|239506732|gb|ACR80219.1| NusA antitermination factor [Kosmotoga olearia TBF 19.5.1]
          Length = 342

 Score =  379 bits (975), Expect = e-103,   Method: Composition-based stats.
 Identities = 129/324 (39%), Positives = 201/324 (62%), Gaps = 1/324 (0%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQI 79
           K+I +D V+S++  ++Q A R  +GT +++ V I+  TGDI+++  L+VV+EVEN   +I
Sbjct: 16  KNIKKDEVISILEKALQSAYRKNFGTENEVEVRIDRLTGDIAIYEKLKVVDEVENPYREI 75

Query: 80  SLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVG 139
           +L  A+  D   +I G V   L    F R+A Q+A+QV+IQK+RE E++  +  +    G
Sbjct: 76  TLSEAKKIDSDAEIDGYVYRKLNIKKFKRIAAQTARQVLIQKIREMEKENLFQTYSALKG 135

Query: 140 EIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVL 199
            + +  + RV      + +G  +  +   E I  E LR G  +K ++ DV R  +GP++L
Sbjct: 136 SVTTAEILRVTENWADIRIGKLESRLPTREMIPGERLRAGSFIKVFVVDVVRTTKGPKIL 195

Query: 200 LSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRG 259
           ++R   +F+V+L  ++VPEI +G V VKAV+R+ G R K+AV S++  +DP+GAC+G  G
Sbjct: 196 VTRKGTEFVVELLKLQVPEIESGDVVVKAVAREEGIRTKVAVASTNPKVDPIGACIGEGG 255

Query: 260 SRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLS 318
            R+  V+ E+R EK+DI+ WS D A FV NA+ PA   +V ++        V V   QLS
Sbjct: 256 VRIAEVLREIRPEKVDILKWSDDPAEFVGNAIAPATAVEVKIVSSANREAVVYVSPTQLS 315

Query: 319 LAIGRRGQNVRLASQLTGWTIDII 342
           LAIG+ GQN RLA++LTGW +DI 
Sbjct: 316 LAIGKGGQNARLAAKLTGWKVDIK 339


>gi|317508529|ref|ZP_07966195.1| transcription termination factor NusA [Segniliparus rugosus ATCC
           BAA-974]
 gi|316253173|gb|EFV12577.1| transcription termination factor NusA [Segniliparus rugosus ATCC
           BAA-974]
          Length = 342

 Score =  379 bits (975), Expect = e-103,   Method: Composition-based stats.
 Identities = 139/357 (38%), Positives = 207/357 (57%), Gaps = 31/357 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +Q   A+  EK +  + ++  +A ++  A +   G  +D RV+I+ + G + +       
Sbjct: 5   VQTLRAIEAEKGLSSEKIIDAIASALLTAYKHTDGHHADARVDIDRKHGAVKVL------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                           +RD   +I G   D   P DFGR+A  +A+QVI+Q++R+AE D+
Sbjct: 59  --------------VAERDEDGNILGEYDD--TPADFGRIATMTARQVILQRLRDAEGDQ 102

Query: 130 QYLEFKDKVGEIISGTVKR----VEYGNVIVDLGNS----DGVIRRDETISRENLRPGDR 181
            + +   K GEI++G V+R     E G  IV LG+     +GV+   E +  E+L  GDR
Sbjct: 103 GFADLPVKEGEIVAGVVQRDARANERGLQIVKLGSELKSYEGVLPVAEQVPGESLVHGDR 162

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           VK Y+  V+  +RGPQ+ LSRTHP  + KLF +EVPEI  G VQ+ AV+R+ G R+K+AV
Sbjct: 163 VKCYVVSVKAGRRGPQITLSRTHPNLVRKLFALEVPEIGEGSVQIVAVAREAGHRSKIAV 222

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            S+   ++  GAC+G  G RV+ V++EL  EKID++ +  D ATFV NAL PA      V
Sbjct: 223 KSTVPGLNAKGACIGQNGQRVRNVMSELAGEKIDLIDFDEDPATFVGNALSPARALATRV 282

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           LD     + V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E++  + R+   + 
Sbjct: 283 LDPVAKAVRVVVPDSQLSLAIGKEGQNARLAARLTGWRIDIRSEQDPEVARRAAADH 339


>gi|256419698|ref|YP_003120351.1| transcription elongation factor NusA [Chitinophaga pinensis DSM
           2588]
 gi|256034606|gb|ACU58150.1| NusA antitermination factor [Chitinophaga pinensis DSM 2588]
          Length = 415

 Score =  379 bits (975), Expect = e-103,   Method: Composition-based stats.
 Identities = 131/423 (30%), Positives = 233/423 (55%), Gaps = 11/423 (2%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M S N +E            +IDR  ++ V+ D  +   R  YG+  +  V +N E GD+
Sbjct: 1   MASINLIESFTEFKEAE---NIDRPTLMKVLEDVFKTLLRKKYGSDENFDVIVNTEKGDL 57

Query: 61  SLFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            + R   +V   EVE+   QI+   A   +P   +G  + + +  +DFGR A+ +AKQ +
Sbjct: 58  EILRRRTIVTDGEVEDDNAQIAYSEAILVEPDYQVGEDLYEEVEILDFGRRAILAAKQTL 117

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLR 177
             ++ + +++    ++ D+VGEI++G V +V    V++ D   ++ ++ + E I  +  +
Sbjct: 118 SARIGDLKKNILVKKYADRVGEIVTGEVYQVWKKEVLLLDDERNELILPKSEQIPTDYFK 177

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+ V++ +  V  +   P ++LSRTHP F+ KL  +EVPEI++G++ +K + R+PG RA
Sbjct: 178 KGENVRAVVKKVEMKNNAPLIILSRTHPTFLAKLLEIEVPEIFDGLIVIKKIVREPGERA 237

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVGM+GSR+  +V ELR+E IDI+ ++ +    +  AL PA ++
Sbjct: 238 KVAVESYDDRIDPVGACVGMKGSRIHGIVRELRNENIDIINYTANIQLLIQRALTPARIS 297

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           ++ +D +     V +  +Q+SLAIG++G N++LA +LTG+ ID+  +EE       +++ 
Sbjct: 298 RMEVDNENKYASVFLKADQVSLAIGKKGVNIKLACELTGYEIDVFRDEEQEQ---AEYDI 354

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F     ++E +   L   G      +  + + E+      +EET  +I+   +E  
Sbjct: 355 DLAEFSD--EIEEWVLDELKRIGCDTARSVLDLTVEELVRRSDLEEETVKDIRRILQEEF 412

Query: 418 EGI 420
           +  
Sbjct: 413 DKE 415


>gi|332878281|ref|ZP_08446007.1| transcription termination factor NusA [Capnocytophaga sp. oral
           taxon 329 str. F0087]
 gi|332683732|gb|EGJ56603.1| transcription termination factor NusA [Capnocytophaga sp. oral
           taxon 329 str. F0087]
          Length = 410

 Score =  379 bits (974), Expect = e-103,   Method: Composition-based stats.
 Identities = 137/417 (32%), Positives = 231/417 (55%), Gaps = 11/417 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N LEL++       +K I+R+ +++++ +  +   +  YG+  +  + INP+ GD+ +FR
Sbjct: 2   NSLELIESFSEFKDDKLINRETLMAILEEVFRNTLKKKYGSDDNFDIIINPDKGDLQIFR 61

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VVE+  V N   +I+L VAR  +P  ++G  VS+ +   D GR A+ + +Q +I K+
Sbjct: 62  NRIVVEDGAVTNDNQEIALSVARKIEPDFEVGEDVSEEIKINDLGRRAILALRQNLISKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDR 181
            E +    Y  FKD +G+I+   +  + +  +I+ D   ++ ++ +++ I  +  + G+ 
Sbjct: 122 HEYDSTTIYRRFKDLIGQIVVAEIHHIRHKAIILLDDEGNEIILPKEKQIPSDFFKKGEH 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+  I  V  +   P +++SRT P F+ +LF  E+PEI +GI+ V  V R PG +AK+AV
Sbjct: 182 VRGIIESVELKSTKPTIIMSRTSPIFLQRLFEQEIPEIADGIITVNKVVRIPGEKAKVAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  ID VGACVG+RG+R+  +V EL +E ID++ ++ + +  +  AL PA VT V L
Sbjct: 242 DSFDERIDAVGACVGVRGARIHGIVRELGNENIDVIPFTNNVSLLITRALAPAHVTSVTL 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           +E+  R +V +P E++S AIG+ G N+RLASQLTG+ ID+  E         D +     
Sbjct: 302 NEEEKRADVFLPNEEVSKAIGKSGYNIRLASQLTGYEIDVYRE------GITDEDIELTE 355

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           F     ++  I   L   G    + +  +   E+ +    +EET  EIQ    E  E
Sbjct: 356 FDD--EIEGWIIEQLHNAGLDTAKSVLELTPEELMTRTDLEEETVKEIQRVLAEEFE 410


>gi|313676538|ref|YP_004054534.1| nusa antitermination factor [Marivirga tractuosa DSM 4126]
 gi|312943236|gb|ADR22426.1| NusA antitermination factor [Marivirga tractuosa DSM 4126]
          Length = 413

 Score =  379 bits (974), Expect = e-103,   Method: Composition-based stats.
 Identities = 134/410 (32%), Positives = 239/410 (58%), Gaps = 12/410 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           + L L++     A +K+IDR  ++ ++ D  +   R  Y T  +  + IN + GD+ ++R
Sbjct: 2   DTLNLIESFADFARQKNIDRPTMIRILEDVFKTMIRKKYETDDNFDIIINADKGDLEIWR 61

Query: 65  LLEVV----EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
             E+V    E++ ++   ISL  AR  +P  +IG  V++ +    FGR AV +A+Q +IQ
Sbjct: 62  FREIVDDNSEDIWDHDK-ISLTEARKIEPDFEIGEEVAEEVELEHFGRRAVTTARQTLIQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPG 179
           KV++ E+D  + ++ + VGEII+G V ++     ++ D   ++ V+ + E I ++  R G
Sbjct: 121 KVKDLEKDILFNKYSELVGEIIAGEVYQILSRETLLTDADGNELVLLKSEQIPKDRFRKG 180

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           D V++ ++ V  +   P+++LSRT P F+ +LF  EVPE+Y+ ++ +K + R+PG RAK+
Sbjct: 181 DSVRAVVHRVEMQNGNPKIILSRTSPVFLERLFEQEVPEVYDELITIKKIVREPGERAKV 240

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           +V S D  IDPVGACVGM+GSR+ ++V EL++E ID++ ++ +   ++  AL PA ++ +
Sbjct: 241 SVESYDDRIDPVGACVGMKGSRIHSIVRELQNENIDVINYTENMELYIQRALSPAKLSSM 300

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
            +D +  R+ V +  +Q+SLAIG+ GQN++LAS+L G  ID+  E  D+     + +   
Sbjct: 301 KIDVENKRVSVYLKPDQVSLAIGKGGQNIKLASKLVGMEIDVFRELTDAE----EEDVLI 356

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEI 409
             F   +   + +   L   G    + +  +   E+  +   +EET  EI
Sbjct: 357 DEFNDVLE--DWVIEELKKVGLDTAKRVLELGREELVRMTDLEEETIDEI 404


>gi|168704029|ref|ZP_02736306.1| transcription elongation factor NusA [Gemmata obscuriglobus UQM
           2246]
          Length = 497

 Score =  379 bits (974), Expect = e-103,   Method: Composition-based stats.
 Identities = 155/433 (35%), Positives = 241/433 (55%), Gaps = 36/433 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +L++ D +  E+ I +DV+   ++ +IQ AA   +     + V I+  TG I        
Sbjct: 13  ILELVDKLHEERKIAKDVIFKGISSAIQVAAERHFQVEEGVFVSIDEATGHI-------- 64

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                         VA+  D            L P+  GR+A QSAKQ+IIQK+REAE D
Sbjct: 65  --------------VAKYGD----------QELDPITLGRIAAQSAKQMIIQKIREAESD 100

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
             + EF  K  E++ GTV RV+ G  IV LG S+ ++ R E I  E    G+RVK+ I +
Sbjct: 101 TVFTEFTGKKYELLVGTVTRVDAGTAIVSLGKSEALLPRSEQIPGETHHVGERVKAIIME 160

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           VR++    +++LSR HP+F+  LF  E+PEI   I+ ++AV+R+ G R+K+AV S D  +
Sbjct: 161 VRKQGNRVKIVLSRAHPEFVKALFEEEIPEIDERIIDIRAVAREAGYRSKVAVTSIDMKV 220

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI 308
           D VGACVG+RGSR++ V+ EL  E+IDIV W+      + NAL+PA ++ V     +GR 
Sbjct: 221 DAVGACVGVRGSRIKNVIEELNGERIDIVRWNDALQVLIPNALQPAQISDVFTYPKLGRA 280

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINV 368
            V+V  +QLSLAIGRRGQNVRLAS+L GW I+I+T +E +           ++F Q  + 
Sbjct: 281 IVLVTDDQLSLAIGRRGQNVRLASKLVGWDIEIMTHDELAEA----LERAERWFGQLPHA 336

Query: 369 DEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKI 428
              + + L+ EGF    ++       +A   G  +E A E+   A EY + ++ +++++ 
Sbjct: 337 SPELTNALIEEGFLSYNDITMTDDEGLAEFTGLTQEAADEVVMYAEEYADVMERSVEEER 396

Query: 429 RELGVSEELCSIP 441
           R+  ++ +   + 
Sbjct: 397 RQAELAAKEARLQ 409


>gi|226355942|ref|YP_002785682.1| transcription elongation factor NusA [Deinococcus deserti VCD115]
 gi|226317932|gb|ACO45928.1| putative Transcription elongation factor NusA [Deinococcus deserti
           VCD115]
          Length = 395

 Score =  379 bits (974), Expect = e-103,   Method: Composition-based stats.
 Identities = 140/394 (35%), Positives = 229/394 (58%), Gaps = 3/394 (0%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           ++   +        VA  ++I+   ++     S+ +A          I V ++P++G++ 
Sbjct: 1   MTQPEINFADALREVAQARNINELQLIEAFEQSLAQAYTRNVEPDKRIEVHLDPQSGELE 60

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +  + EVVE+VE+   QISL  A + DP ++IG  +  P+    F R+A+Q+AKQ + QK
Sbjct: 61  VLVVREVVEKVEDEHLQISLADALELDPGVEIGMEMEFPVDREKFSRIALQAAKQTLTQK 120

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +RE ER+  + E+KD+ G++++  V R +  GN  V+LG  + ++   E I  E L PG+
Sbjct: 121 MRETERNVVFNEYKDREGQVLTAQVVRSDNKGNWFVELGAGEAILPPREQIPGEKLTPGN 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RVK Y+ +VR+  +GP +L SR   + +  L   E+PE+ NGIV+VKA+SR+ G R+K+A
Sbjct: 181 RVKIYLKEVRKTPKGPTILASRADERLLDYLLKQEIPEVANGIVEVKAISREAGQRSKVA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           VFS +S++DP+GAC+G RG+R+QAV  EL  E++D+++W  ++  F+ NAL PA V  + 
Sbjct: 241 VFSHNSNVDPIGACIGHRGNRIQAVTGELGRERVDVILWDANTREFIRNALSPAKVGLIE 300

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +  D     V V  +QLSLAIG+ GQNVRLA++LTG+ ID+   E  +I+      ++  
Sbjct: 301 VQPDRREATVTVTPDQLSLAIGKGGQNVRLAAKLTGFKIDLR--ETAAISDLDAAMQQAL 358

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISE 394
              Q     +  A       F D + +A     +
Sbjct: 359 QDDQDGRDGDDTAKSAFDALFKDSKSVATASPDD 392


>gi|163786551|ref|ZP_02180999.1| transcription elongation factor NusA [Flavobacteriales bacterium
           ALC-1]
 gi|159878411|gb|EDP72467.1| transcription elongation factor NusA [Flavobacteriales bacterium
           ALC-1]
          Length = 410

 Score =  379 bits (974), Expect = e-103,   Method: Composition-based stats.
 Identities = 135/413 (32%), Positives = 228/413 (55%), Gaps = 12/413 (2%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L++       +K IDR  +++++ D ++ A +  YG   +  + INP+ GD+ ++R   V
Sbjct: 6   LIESFSEFKDDKLIDRVTLMAILEDVLRNALKKKYGDDDNFDIIINPDKGDLEIWRNRIV 65

Query: 69  VE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           V   EVE    +I L  A+  +P  ++G  V++ +  +D GR ++ + +Q +I K+ E +
Sbjct: 66  VANGEVEEPNQEIELSEAQKIEPDFEVGEDVAEEVKLIDLGRRSILALRQNLISKIHEHD 125

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRVKSY 185
               Y  FK+  GEI +  V  + +  +I+ D   ++ ++ +D  I  +  R G+ V+  
Sbjct: 126 NTNIYKHFKELEGEIYTAEVHHIRHRAIILLDDDGNEIILPKDRQIPSDFFRKGENVRGI 185

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V  +   P +++SRT P F+ KLF  E+PE+++G++ VK V R PG +AK+AV S D
Sbjct: 186 IESVELKGSKPAIIMSRTSPLFLEKLFEQEIPEVFDGLITVKKVVRIPGEKAKVAVDSYD 245

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDPVGACVGM+GSR+  +V EL +E ID++ ++ +   FV  AL PA VT + LDE+ 
Sbjct: 246 DRIDPVGACVGMKGSRIHGIVRELGNENIDVINYTNNIQLFVTRALSPARVTSLKLDEEN 305

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            R EV++  E++S AIGR G N+RLA QLTG+ ID+  E  +     K+F++        
Sbjct: 306 MRAEVLLKPEEVSKAIGRGGHNIRLAGQLTGYEIDVFREGAEEDVELKEFSD-------- 357

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
             ++  I       G    + +    ++++      +EET  E+    +E  E
Sbjct: 358 -EIEGWIISEFSKAGLDTAKSILEQDVADLVKRTDLEEETIEEVIRILKEEFE 409


>gi|163753871|ref|ZP_02160994.1| transcription elongation factor NusA [Kordia algicida OT-1]
 gi|161326085|gb|EDP97411.1| transcription elongation factor NusA [Kordia algicida OT-1]
          Length = 410

 Score =  379 bits (973), Expect = e-103,   Method: Composition-based stats.
 Identities = 133/416 (31%), Positives = 231/416 (55%), Gaps = 12/416 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            L L++       +K IDR  +++++ D  + A +  +G+  +  + INP+ GD+ ++R 
Sbjct: 3   NLALIESFSEFKDDKLIDRVTLMAILEDVFRNALKKKFGSDDNFDIIINPDKGDLEIWRN 62

Query: 66  LEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV   EVE+   +I L  AR  +P  ++G  VS+ +  +D GR A+ + +Q +I K+ 
Sbjct: 63  RIVVADGEVEDPNQEIELTDARKIEPDFEVGEDVSEEVKLIDLGRRAILALRQNLISKIH 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRV 182
           E +    Y +FKD VG+I +  V  + +  VI +D   ++ V+ ++  I  +  R G+ V
Sbjct: 123 EHDNTTIYKQFKDLVGDIYTAEVHHIRHRAVILLDDEGNEIVLPKENQIPSDFFRKGENV 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  I  V  +   P +++SRT P+F+ KLF  E+PE+++G++ VK V R PG +AK+AV 
Sbjct: 183 RGIIDRVDLKGNKPMIVMSRTAPEFLEKLFEQEIPEVFDGLITVKKVVRIPGEKAKVAVD 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDPVGACVGM+GSR+  +V EL +E ID++ ++ +   ++  AL PA V+ + +D
Sbjct: 243 SYDDRIDPVGACVGMKGSRIHGIVRELGNENIDVINYTTNLQLYITRALSPARVSSLKID 302

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+  R+EV +  E++S AIG+ G N+RLA QLTG+ ID+  E  +      +F++     
Sbjct: 303 EEAKRVEVFLKPEEVSKAIGKGGFNIRLAGQLTGYEIDVYREGVEEDVELTEFSD----- 357

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
                ++  +       G    + +   ++  +      +EET  E+    +E  E
Sbjct: 358 ----EIEAWVIEEFKKIGLDTAKSVLDQELDFLVKQTDLEEETVGEVIRILKEEFE 409


>gi|313140899|ref|ZP_07803092.1| transcription elongation factor NusA [Bifidobacterium bifidum NCIMB
           41171]
 gi|313133409|gb|EFR51026.1| transcription elongation factor NusA [Bifidobacterium bifidum NCIMB
           41171]
          Length = 344

 Score =  378 bits (971), Expect = e-102,   Method: Composition-based stats.
 Identities = 119/344 (34%), Positives = 201/344 (58%), Gaps = 17/344 (4%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV-VEEVE 73
            +A E+ ID + + + + ++++ A           RVE++   G  +++   E+ VE  E
Sbjct: 12  QLAIEQGIDLEQLDAALEEALRLAYLKTPHAAKHARVELDTRAGTFTVWARKEIPVEPTE 71

Query: 74  NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
           +           D  P+ ++G    D   P +FGR+A  +A+QVI Q  R+AE D+ +  
Sbjct: 72  D-----------DPHPAPELGEEYDD--TPRNFGRLAAATARQVIGQLFRKAEDDKVFGA 118

Query: 134 FKDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRR 191
           F  + G++++G V++   +  NV V +G+ + ++ R E +  E  R G+R++ Y+ +V R
Sbjct: 119 FSGQKGKLVTGIVQQDASDPTNVHVAIGDVEAILPRREQVPGERYRHGERLRVYVVNVAR 178

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPV 251
             +GP++++SR+HP+ + +LF  EVPE+ +G V + A++R+ G+R K+AV ++   ++P 
Sbjct: 179 GVKGPEIVVSRSHPELVRRLFEREVPELVSGAVSIMAIAREAGARTKIAVRANTDGVNPK 238

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEV 310
           GA +G  G+RV+AV+  L  EKIDIV WS D A FV +AL PA+ T V V+ E       
Sbjct: 239 GALIGPGGARVRAVMENLGPEKIDIVDWSADPAKFVASALSPAVATGVQVISEKNKTAIA 298

Query: 311 IVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
            +  +QLSLAIG+ GQN RLA++LTGW I I + E  +     +
Sbjct: 299 FIHDDQLSLAIGKEGQNARLAAKLTGWKIGIESTEAHAKKVAAE 342


>gi|298694558|gb|ADI97780.1| N utilization substance protein A, putative [Staphylococcus aureus
           subsp. aureus ED133]
          Length = 340

 Score =  378 bits (971), Expect = e-102,   Method: Composition-based stats.
 Identities = 140/338 (41%), Positives = 208/338 (61%), Gaps = 7/338 (2%)

Query: 56  ETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAK 115
           + G   +    +VVEEV +   ++ L  A  ++P+ +IG +  + + P DFGRV  Q+AK
Sbjct: 2   DQGTFKVIARKDVVEEVFDDRDEVDLSTALVKNPAYEIGDIYEEDVTPKDFGRVGAQAAK 61

Query: 116 QVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISREN 175
           Q ++Q++R+AER+  + EF DK  +I++G + RV++  V V+LG  + V+   E    E 
Sbjct: 62  QAVMQRLRDAEREILFEEFIDKEEDILTGIIDRVDHRYVYVNLGRIEAVLSEAERSPNEK 121

Query: 176 LRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
             P +R+K Y+  V +  +GPQ+ +SR+HP  + +LF  EVPEIY+G V VK+V+R+ G 
Sbjct: 122 YIPNERIKVYVNKVEQTTKGPQIYVSRSHPGLLKRLFEQEVPEIYDGTVIVKSVAREAGD 181

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           R+K++VFS ++ ID VGACVG +G+RV+AVV EL  EKIDIV W+ D   FV NAL P+ 
Sbjct: 182 RSKISVFSENNDIDAVGACVGAKGARVEAVVEELGGEKIDIVQWNEDPKVFVKNALSPSQ 241

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF 355
           V +V++DE      V+VP  QLSLAIG+RGQN RLA++LTGW IDI +E +         
Sbjct: 242 VLEVIVDETNQSTVVVVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSETDAREAGIYPV 301

Query: 356 NERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKIS 393
                  ++A  V E    L  A+     EE+  V + 
Sbjct: 302 -------VEAEKVTEEDVALEDADTTESTEEVTDVSVE 332


>gi|224531576|ref|ZP_03672208.1| transcription elongation protein NusA [Borrelia valaisiana VS116]
 gi|224511041|gb|EEF81447.1| transcription elongation protein NusA [Borrelia valaisiana VS116]
          Length = 482

 Score =  378 bits (971), Expect = e-102,   Method: Composition-based stats.
 Identities = 134/465 (28%), Positives = 255/465 (54%), Gaps = 19/465 (4%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           ++A ++S+  D +   + +S+  A +  +G+  +  V+ + +TGD+ ++   ++VEEV++
Sbjct: 11  SIANDRSMSIDSIRKTIKESVLIAYKKYFGSNENAFVKFDDDTGDLIVYAKKKIVEEVKD 70

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              ++  K     +      G     + P  F R+++Q AKQ     ++  E +    EF
Sbjct: 71  SFLEVLEKDISKEN--FVEDGYAYIEINPKVFDRLSIQVAKQRTKNDLQGIEDNEILSEF 128

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           K K+ +++ G V++   G++ V+LGN+DG+I +     RE     D+++  +Y+V++ + 
Sbjct: 129 KSKLNKVVIGYVQQNRNGDLYVNLGNTDGIIPKKYQSPREVYNLNDKIRVLVYNVKKGKN 188

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           G +V+LSRTHP+F+ +L  +E+PEI  G++++  + RDPG R K+AV+S    IDPVG C
Sbjct: 189 GIEVILSRTHPKFIEELLALEIPEIEEGVIKIHKIVRDPGYRIKVAVYSEKEEIDPVGPC 248

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVP 313
           +G +G R+Q+++ EL  EKIDI+ +S D   F+ ++L P+ +  V +LDED+ +  V+V 
Sbjct: 249 IGQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIKDSLTPSKIEHVYILDEDLHKALVVVS 308

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIA 373
            +QLSLAIG+ GQNVRLA++L  W ID+ T  + +  +     ++    M     D+++ 
Sbjct: 309 DDQLSLAIGKMGQNVRLANRLLDWAIDVKTSSQFAKMKANSEFKQETLEM----FDKVMQ 364

Query: 374 HLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG--RAREYLEGIDITLQKKIREL 431
            ++  E F ++ +++ +K+ + + I    +E   +I    +A E L        +K  E+
Sbjct: 365 DVVEEEQFEEISKISDLKLLDPSVISNLSKEGLNDINNFLQADEGLLFNLGISYEKQEEI 424

Query: 432 G----------VSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
                       ++   SI  ++    +   E G+   E++  C 
Sbjct: 425 NKILKEGMIIIANDNDESIGKVEEDEVLLCPECGVVINENMTSCP 469


>gi|261338246|ref|ZP_05966130.1| transcription termination factor NusA [Bifidobacterium gallicum DSM
           20093]
 gi|270276899|gb|EFA22753.1| transcription termination factor NusA [Bifidobacterium gallicum DSM
           20093]
          Length = 381

 Score =  378 bits (971), Expect = e-102,   Method: Composition-based stats.
 Identities = 121/338 (35%), Positives = 194/338 (57%), Gaps = 19/338 (5%)

Query: 13  ADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV-VE- 70
              +A E+ ID + V   ++++++ A          +RVE++   G  +++   E+ VE 
Sbjct: 8   IHQLAKEQGIDTETVDEALSEALRLAYLKTPNAAKHVRVELDERAGTFTIWARDEIRVEP 67

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
             E+    I            ++G    D   P DFGR+A  +A+QVI Q  R AE DR 
Sbjct: 68  TEEDPHGHI------------ELGEEYDD--TPKDFGRLAAATARQVITQLFRRAEDDRI 113

Query: 131 YLEFKDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
           +  F  + G++++G +++   +  NV V +G+ + ++ R E +  E  R GDR++ Y+ +
Sbjct: 114 FGAFSGQKGKLMTGVIQQDVKDPTNVHVAVGDVEAILPRREQVPGERYRHGDRIRVYVVN 173

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V R  RGP++++SR+HP  + KLF  EVPE+ +G V + A++R+ G+R K+AV ++   +
Sbjct: 174 VNRGLRGPEIIVSRSHPDLVRKLFEREVPELVSGAVSIMAIAREAGARTKIAVRANTDGV 233

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +P GA +G  GSRV+AV+  L +EKIDIV WS D A F+  AL PA    V V+ +    
Sbjct: 234 NPKGALIGPGGSRVRAVMENLGNEKIDIVDWSDDPAKFIGAALSPANAAGVDVISDKNNT 293

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
               +  +QLSLAIG+ GQN RLA++LTGW I I + E
Sbjct: 294 AVAYIHDDQLSLAIGKEGQNARLAAKLTGWKIGIESVE 331


>gi|260905192|ref|ZP_05913514.1| transcription elongation protein NusA [Brevibacterium linens BL2]
          Length = 320

 Score =  377 bits (970), Expect = e-102,   Method: Composition-based stats.
 Identities = 126/338 (37%), Positives = 197/338 (58%), Gaps = 24/338 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           L +   +  E+ I  D ++ ++  ++  A +   G   D R E++  TG++ +  +    
Sbjct: 5   LSVLRIIEREREIPLDTLIELIEQALFLAYQKTEGAWPDSRAELDKSTGEVRILAV---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
            E +N             +P  +          P  FGR+A Q+A+QVI Q++R+ E + 
Sbjct: 61  -EFDNDD-----------NPIGEFDD------TPTGFGRIAAQTARQVIHQRLRDVEDES 102

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
               FK + GEI+SGT+++  +   V VDLG+ + V+   E +  E+ R G R++ YI D
Sbjct: 103 VLGNFKGREGEIVSGTIQQGRDPQMVQVDLGDVEAVLPPHEQVPGESYRHGTRLRVYIAD 162

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +  +G  V +SRTHP  + +LF  E PEI +G V++ +++R+ G R KLAV ++   +
Sbjct: 163 VHKGPKGTSVTVSRTHPNLVRRLFAHEAPEIADGTVEIVSLAREAGHRTKLAVRATKPGV 222

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  G+C+G  GSRV+AV+ EL  EKIDIV +S D A F+ +AL PA  +KV +LD D+  
Sbjct: 223 NAKGSCIGELGSRVRAVMNELGQEKIDIVDYSDDPAKFIGHALSPAKASKVDILDPDLQE 282

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
              IVP++QLSLAIG+ GQN RLA++LTGW IDI+  E
Sbjct: 283 SRAIVPRDQLSLAIGKEGQNARLAAKLTGWKIDIVPGE 320


>gi|256371439|ref|YP_003109263.1| NusA antitermination factor [Acidimicrobium ferrooxidans DSM 10331]
 gi|256008023|gb|ACU53590.1| NusA antitermination factor [Acidimicrobium ferrooxidans DSM 10331]
          Length = 330

 Score =  377 bits (970), Expect = e-102,   Method: Composition-based stats.
 Identities = 134/345 (38%), Positives = 211/345 (61%), Gaps = 24/345 (6%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           ++    E++   + +A EK +  + +L  +A+++  A +   G   +  VEI+P +G I 
Sbjct: 1   MAVENPEVMDALEVIAREKGLSVETLLESLANALAAAYKRRPGAAEEAYVEIDPASGTIR 60

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +                      ++ D +  +     D   P DFGR+A Q+AKQV++QK
Sbjct: 61  VIC--------------------QELDENGTVVREWED--TPRDFGRIAAQAAKQVMLQK 98

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +REAER+++Y E+  + G++++G V +++    ++DLG  + ++   E+ S E      R
Sbjct: 99  IREAEREQKYEEYAGREGDVVTGIVSQIDPRFTLLDLGKIEAIMPHSESPSNERYSVNQR 158

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K+YI +VRR  +GPQ+++SRTHP  + +LF +EVPEI +G+V+VKA++R+PG R K+AV
Sbjct: 159 LKAYIVEVRRSIKGPQIVVSRTHPGLVRRLFEVEVPEIASGVVEVKAIAREPGHRTKIAV 218

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S+D S+DPVGACVG RGSRV  VV EL  EK+DIV +S D A FV  A+ PA      +
Sbjct: 219 WSNDRSVDPVGACVGARGSRVHTVVNELLGEKVDIVPFSEDLAEFVERAIVPAHALSATV 278

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           +       V+VP +QLSLAIGR GQN RLA++LTG  ++I  + E
Sbjct: 279 E--GRDALVVVPDDQLSLAIGREGQNARLAARLTGTHLEIRPQSE 321


>gi|256820092|ref|YP_003141371.1| transcription elongation factor NusA [Capnocytophaga ochracea DSM
           7271]
 gi|256581675|gb|ACU92810.1| NusA antitermination factor [Capnocytophaga ochracea DSM 7271]
          Length = 410

 Score =  377 bits (970), Expect = e-102,   Method: Composition-based stats.
 Identities = 130/417 (31%), Positives = 231/417 (55%), Gaps = 14/417 (3%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N LEL++       +K I+R+ +++++ +  +   +  YG+  +  + INP+ GD+ +FR
Sbjct: 2   NSLELIESFSEFKDDKLINRETLMAILEEVFRNTLKKKYGSDDNFDIIINPDKGDLQIFR 61

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VVE+  V N   QI L VAR  +P  ++G  VS+ +   D GR A+ + +Q +I K+
Sbjct: 62  NRVVVEDGAVTNDNQQIELSVARKIEPDFEVGEDVSEEIKIDDLGRRAILALRQNLISKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDR 181
            E +    Y  FKD +G++    +  + +  +I+ D   ++ ++ +++ I  +  + G+ 
Sbjct: 122 HEYDSMTIYQRFKDLIGQLYVAEIHHIRHKAIILLDDEGNEIILPKEKQIPSDFFKKGEH 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+  I  V  +   P +++SRT P F+ +LF  E+PEI +G++ +  V R PG +AK+AV
Sbjct: 182 VRGIIESVELKSTKPTIIMSRTSPLFLERLFEQEIPEIADGLITINRVVRIPGEKAKVAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  ID VGACVG+RGSR+  +V EL +E ID++ ++ +    +  AL PA V+ VV+
Sbjct: 242 DSFDDRIDAVGACVGVRGSRIHGIVRELGNENIDVLPFTNNPQLLITRALAPARVSSVVI 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKDFNERTQ 360
           +E+  R +V +  E++S AIG+ G N+RLASQL+G+ ID+  E   +      +FN+   
Sbjct: 302 NEEEKRADVYLANEEVSKAIGKSGYNIRLASQLSGYEIDVYREGATEEDIELSEFND--- 358

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVE-IQGRAREY 416
                  ++E +   L   G    + +  +   ++      +EET  E ++  A E+
Sbjct: 359 ------EIEEWVIEELQKAGLDTAKSVLELSAEDLMQRTDLEEETVNEVLRILAEEF 409


>gi|257439271|ref|ZP_05615026.1| transcription termination factor NusA [Faecalibacterium prausnitzii
           A2-165]
 gi|257198146|gb|EEU96430.1| transcription termination factor NusA [Faecalibacterium prausnitzii
           A2-165]
          Length = 358

 Score =  377 bits (970), Expect = e-102,   Method: Composition-based stats.
 Identities = 138/350 (39%), Positives = 207/350 (59%), Gaps = 11/350 (3%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLLEVV--EEV 72
           + +E+ I  + ++  +  +I  A +  Y     ++ VEI+P++G  ++  +  VV  E+ 
Sbjct: 2   LEHERGITAEYLIEKIKAAIVIAVKKNYEVEDDNVLVEIDPDSGKFNVALVQNVVADEDW 61

Query: 73  ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYL 132
            +   +I +  A+    S ++G  V  PL   DFGR+A Q+AK VI Q +REAER +Q  
Sbjct: 62  YDEHAEIGITEAQKIRKSYEVGDRVVTPLKTKDFGRIAAQTAKHVIRQGIREAERSQQLS 121

Query: 133 EFKDKVGEIISGTVKRVEYGNVIVDLG---NSDGVIRRDETISRENLRPGDRVKSYIYDV 189
           E + +  +II  TV RV+    IV L      + ++ R+E +  E    G  ++ Y+ DV
Sbjct: 122 EIQSRAHDIIQATVTRVDNEKGIVALDLGKGGEAILPRNEQVPGETYTEGQTLQVYVVDV 181

Query: 190 RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSID 249
              +RG +V++SRTHP  + +LF +EVPEIY+G V+VKA+SR+ G+R K+AV+S D++++
Sbjct: 182 VSGERGARVMISRTHPGLVKRLFELEVPEIYDGTVEVKAISREAGARTKMAVWSKDANVN 241

Query: 250 PVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV-GRI 308
           PV AC+G  G RV AVV +L  EKIDIV WS D + F+  AL PA V KV L        
Sbjct: 242 PVSACIGPHGDRVAAVVEKLGGEKIDIVKWSEDVSEFISAALSPAKVLKVELLPGETRSC 301

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE----EDSINRQKD 354
            V VP +QLSLAIG +GQN RL ++LTG+ IDI  E     ED   +  +
Sbjct: 302 RVTVPDQQLSLAIGNKGQNARLCARLTGYNIDIRPESGYYGEDEEPKAAE 351


>gi|319953582|ref|YP_004164849.1| nusa antitermination factor [Cellulophaga algicola DSM 14237]
 gi|319422242|gb|ADV49351.1| NusA antitermination factor [Cellulophaga algicola DSM 14237]
          Length = 410

 Score =  377 bits (969), Expect = e-102,   Method: Composition-based stats.
 Identities = 135/415 (32%), Positives = 224/415 (53%), Gaps = 12/415 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            + L++       +K IDR  +++++ D  + A +  +G+  +  + INP+ GD+ ++R 
Sbjct: 3   NIALIESFSEFKDDKFIDRVTLMAILEDVFRNALKKKFGSDDNFDIIINPDKGDLEIWRN 62

Query: 66  LEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVE  EVE    +ISL  AR  +P  ++G  VS+ +  +  GR A+ + +Q +I K+ 
Sbjct: 63  RIVVEDGEVEEPNEEISLSEARKIEPDFEVGEDVSEEVKLIQLGRRAILALRQNLISKIH 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRV 182
           E +    Y  FKD  G + +  V  + +  VI+ D   ++ ++ +D+ I  +  R GD V
Sbjct: 123 EHDNTTIYKHFKDLEGGLYTAEVHHIRHKVVILLDDEGNELILPKDKQIPSDFFRKGDNV 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  I  V  +   P +++SRT P F+  LF  E+PE+++G++ VK V R PG +AK+AV 
Sbjct: 183 RGIIESVELKGNKPVIVMSRTAPAFLEALFFQEIPEVFDGLITVKKVVRIPGEKAKVAVD 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDPVGACVGM+GSR+  +V EL +E ID++ W+ +    V  AL PA V+ V LD
Sbjct: 243 SYDDRIDPVGACVGMKGSRIHGIVRELGNENIDVINWTSNPQLLVTRALSPARVSSVKLD 302

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ++    +V +  E++S AIGR G N+RLA QLTG+ ID+  E  +      +F++     
Sbjct: 303 DEKMTAQVYLRPEEVSKAIGRGGHNIRLAGQLTGYEIDVFREGVEEDVELTEFSD----- 357

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
                ++  I       G      +    + ++      +EET VE+    +E L
Sbjct: 358 ----EIEGWIIEEFKKIGMDTARSVLEQDVDDLVKRTDLEEETIVEVVRILKEEL 408


>gi|224283743|ref|ZP_03647065.1| transcription elongation factor NusA [Bifidobacterium bifidum NCIMB
           41171]
 gi|310287990|ref|YP_003939249.1| transcription elongation factor NusA [Bifidobacterium bifidum S17]
 gi|311064863|ref|YP_003971589.1| n utilization substance protein A NusA [Bifidobacterium bifidum
           PRL2010]
 gi|309251927|gb|ADO53675.1| transcription elongation factor NusA [Bifidobacterium bifidum S17]
 gi|310867183|gb|ADP36552.1| NusA N utilization substance protein A [Bifidobacterium bifidum
           PRL2010]
          Length = 342

 Score =  377 bits (969), Expect = e-102,   Method: Composition-based stats.
 Identities = 119/344 (34%), Positives = 201/344 (58%), Gaps = 17/344 (4%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV-VEEVE 73
            +A E+ ID + + + + ++++ A           RVE++   G  +++   E+ VE  E
Sbjct: 10  QLAIEQGIDLEQLDAALEEALRLAYLKTPHAAKHARVELDTRAGTFTVWARKEIPVEPTE 69

Query: 74  NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
           +           D  P+ ++G    D   P +FGR+A  +A+QVI Q  R+AE D+ +  
Sbjct: 70  D-----------DPHPAPELGEEYDD--TPRNFGRLAAATARQVIGQLFRKAEDDKVFGA 116

Query: 134 FKDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRR 191
           F  + G++++G V++   +  NV V +G+ + ++ R E +  E  R G+R++ Y+ +V R
Sbjct: 117 FSGQKGKLVTGIVQQDASDPTNVHVAIGDVEAILPRREQVPGERYRHGERLRVYVVNVAR 176

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPV 251
             +GP++++SR+HP+ + +LF  EVPE+ +G V + A++R+ G+R K+AV ++   ++P 
Sbjct: 177 GVKGPEIVVSRSHPELVRRLFEREVPELVSGAVSIMAIAREAGARTKIAVRANTDGVNPK 236

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEV 310
           GA +G  G+RV+AV+  L  EKIDIV WS D A FV +AL PA+ T V V+ E       
Sbjct: 237 GALIGPGGARVRAVMENLGPEKIDIVDWSADPAKFVASALSPAVATGVQVISEKNKTAIA 296

Query: 311 IVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
            +  +QLSLAIG+ GQN RLA++LTGW I I + E  +     +
Sbjct: 297 FIHDDQLSLAIGKEGQNARLAAKLTGWKIGIESTEAHAKKVAAE 340


>gi|325067076|ref|ZP_08125749.1| NusA antitermination factor [Actinomyces oris K20]
 gi|326771738|ref|ZP_08231023.1| transcription termination factor NusA [Actinomyces viscosus C505]
 gi|326637871|gb|EGE38772.1| transcription termination factor NusA [Actinomyces viscosus C505]
          Length = 346

 Score =  377 bits (969), Expect = e-102,   Method: Composition-based stats.
 Identities = 139/354 (39%), Positives = 195/354 (55%), Gaps = 28/354 (7%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +  N  EL   AD +     ID D +L  + D+I  A   + G +    VEI+  TG +S
Sbjct: 1   MDINMPELRGAADEL----GIDLDNLLPAIEDAILGAYSKVPGAIRGAHVEIDRRTGHMS 56

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +      V+E +  T +                        P DFGR+A  +A+ VI+Q+
Sbjct: 57  VLAPE--VDEEDQPTGE-------------------YFDDTPDDFGRIAQATARSVIVQR 95

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNS-DGVIRRDETISRENLRPG 179
           +++         FKDK GE+ISGTV++  +   V V L    +G++   E +  E  R G
Sbjct: 96  IQDRRDFEVLGAFKDKTGELISGTVEQGRDPRIVYVRLDEEHEGIMPPHEQVPGERYRHG 155

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DRV++Y+ DV R  RG Q++LSRTHP  + KLF  EVPE+ +G V++ +V+R+ G R K+
Sbjct: 156 DRVRAYVTDVSRGTRGAQIILSRTHPGLVRKLFEREVPELSSGDVEIVSVAREAGHRTKM 215

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S    ++  GAC+G  G RV+AV+TEL  EKIDIV +S D A F+ NAL PA V  V
Sbjct: 216 AVRSKVRGVNAKGACIGPMGQRVRAVMTELGGEKIDIVDYSEDPARFIANALSPARVAAV 275

Query: 300 -VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
            V+D +      IVP  QLSLAIG+ GQN RLA++LTGW IDI  + E      
Sbjct: 276 GVIDAEERTARAIVPDFQLSLAIGKEGQNARLAARLTGWKIDIHADAESGEITP 329


>gi|118587523|ref|ZP_01544947.1| transcription termination protein NusA [Oenococcus oeni ATCC
           BAA-1163]
 gi|118431974|gb|EAV38716.1| transcription termination protein NusA [Oenococcus oeni ATCC
           BAA-1163]
          Length = 473

 Score =  377 bits (969), Expect = e-102,   Method: Composition-based stats.
 Identities = 130/353 (36%), Positives = 207/353 (58%), Gaps = 5/353 (1%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M S  R EL     A+  EK I ++  ++ + D++  A +  +   +++ V+++PE  + 
Sbjct: 1   MASDYRRELFSALQALQAEKGISQEDAITSLKDTLVTAYKKNFEGETNVEVDVDPEKQEF 60

Query: 61  SLFRLLEVVEEVE--NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +L ++ EV+ + +  +   +I LK AR+ + + + G  +   + P DFGR+A QS K   
Sbjct: 61  NLLQIKEVIPDGDMIDPYSEIYLKDAREINSAYEAGDQIKFEINPRDFGRLAAQSGKNKS 120

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLR 177
            Q +RE E++  +  ++    EI+S  V R +   + V +    +  +   + I  E  +
Sbjct: 121 TQTIREKEKEAIHARYEGFEHEIVSARVAREDQRFLWVTMPDGQEAAMGDKDRIPGETYK 180

Query: 178 PGDRVKSYIYDVRRE-QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
            GD +K  I  V     RGPQ+ +SRT P+ + +LF  EVPE+Y+G V +++++R+ G R
Sbjct: 181 TGDPIKVLINRVEDSATRGPQIYVSRTSPELVKRLFEQEVPEVYDGTVVIESIAREAGDR 240

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           +K+AV ++DS++DPVG  VG RGSRVQAVV EL  E +DIV W  D A ++ NAL PA V
Sbjct: 241 SKVAVRTTDSNLDPVGTLVGPRGSRVQAVVNELHGENMDIVEWVEDEAQYIANALNPAEV 300

Query: 297 TKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
             V+   D    + VIVP  QLSLAIG+RGQN RLA++LT + IDI +E +  
Sbjct: 301 VDVIFSPDNDNEVTVIVPDYQLSLAIGKRGQNARLAAKLTKFKIDIKSETQAE 353


>gi|315225519|ref|ZP_07867329.1| transcription termination factor NusA [Capnocytophaga ochracea
           F0287]
 gi|314944463|gb|EFS96502.1| transcription termination factor NusA [Capnocytophaga ochracea
           F0287]
          Length = 410

 Score =  377 bits (969), Expect = e-102,   Method: Composition-based stats.
 Identities = 130/417 (31%), Positives = 231/417 (55%), Gaps = 14/417 (3%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N LEL++       +K I+R+ +++++ +  +   +  YG+  +  + INP+ GD+ +FR
Sbjct: 2   NSLELIESFSEFKDDKLINRETLMAILEEVFRNTLKKKYGSDDNFDIIINPDKGDLQIFR 61

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VVE+  V N   QI L VAR  +P  ++G  VS+ +   D GR A+ + +Q +I K+
Sbjct: 62  NRVVVEDGAVTNDNQQIELSVARKIEPDFEVGEDVSEEIKINDLGRRAILALRQNLISKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDR 181
            E +    Y  FKD +G++    +  + +  +I+ D   ++ ++ +++ I  +  + G+ 
Sbjct: 122 HEYDSMTIYQRFKDLIGQLYVAEIHHIRHKAIILLDDEGNEIILPKEKQIPSDFFKKGEH 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+  I  V  +   P +++SRT P F+ +LF  E+PEI +G++ +  V R PG +AK+AV
Sbjct: 182 VRGIIESVELKSTKPTIIMSRTSPLFLERLFEQEIPEIADGLITINKVVRIPGEKAKVAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  ID VGACVG+RGSR+  +V EL +E ID++ ++ +    +  AL PA V+ V++
Sbjct: 242 DSFDDRIDAVGACVGVRGSRIHGIVRELGNENIDVLPFTNNPQLLITRALAPARVSSVII 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKDFNERTQ 360
           +E+  R +V +  E++S AIG+ G N+RLASQL+G+ ID+  E   +      +FN+   
Sbjct: 302 NEEEKRADVYLANEEVSKAIGKSGYNIRLASQLSGYEIDVYREGATEEDIELSEFND--- 358

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVE-IQGRAREY 416
                  ++E +   L   G    + +  +   E+      +EET  E ++  A E+
Sbjct: 359 ------EIEEWVIEELQKAGLDTAKSVLELSAEELMQRTDLEEETVSEVLRILAEEF 409


>gi|293192171|ref|ZP_06609383.1| transcription termination factor NusA [Actinomyces odontolyticus
           F0309]
 gi|292820367|gb|EFF79359.1| transcription termination factor NusA [Actinomyces odontolyticus
           F0309]
          Length = 342

 Score =  377 bits (969), Expect = e-102,   Method: Composition-based stats.
 Identities = 125/344 (36%), Positives = 203/344 (59%), Gaps = 26/344 (7%)

Query: 7   LEL-LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
           +E+ +     V  EK +  + ++  + +++ KA  +L G +S  R+EI+ +TG +++   
Sbjct: 1   MEIDMTALRMVENEKGVSLETLVDAIEEALLKAYHNLPGAISQARIEIDKKTGRVTV--- 57

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
                        +++    D +P  +          P +FGR+A  +A+ VI+Q++R+A
Sbjct: 58  -------------MAMDEDEDGNPIGEFDD------TPKNFGRIAQSTARSVIMQRLRDA 98

Query: 126 ERDRQYLEFKDKVGEIISGTVK--RVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           +  R + +F  + G+II+GTV+  R     ++    + + V+   E +  E+ R GDR++
Sbjct: 99  DDQRVFGDFAGREGQIITGTVQAPRPGRPTMVQVSDDFEAVLPDGEKVPGESYRHGDRIR 158

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           +Y+  V R +RGP++ LSRTHP  +  LF  EVPEI  G+V++KA++R+ G R K+AV +
Sbjct: 159 AYVVGVERTERGPRITLSRTHPNLVAGLFQREVPEIQQGLVKIKAIAREAGHRTKIAVAA 218

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +   I+  GAC+G  G+RV++V+ EL  EKIDIV +S D A FV N+L PA VT+VV+  
Sbjct: 219 TREGINAKGACIGPMGARVRSVMAELGGEKIDIVDYSDDPARFVANSLSPARVTRVVVHS 278

Query: 304 -DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            D      IVP  QLSLAIG+ GQN RLA++LT + IDI  + E
Sbjct: 279 VDNRTATAIVPDFQLSLAIGKEGQNARLAARLTNYHIDIHADTE 322


>gi|291543557|emb|CBL16666.1| transcription termination factor NusA [Ruminococcus sp. 18P13]
          Length = 353

 Score =  377 bits (969), Expect = e-102,   Method: Composition-based stats.
 Identities = 133/345 (38%), Positives = 196/345 (56%), Gaps = 4/345 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDISLFR 64
             +       +  E S++ D+++  +  ++ KA    Y  +  ++RV+I+P T    L  
Sbjct: 2   NNDFFAALSLLGAENSVETDLLVEKVKSAMTKAIHRAYPDSGDNVRVDIDPVTKTFDLCI 61

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           +  VV++      +I++  AR  DPS  +GG V   L      R A QSAKQ I   +RE
Sbjct: 62  IKTVVDDEPLDDNEINIDQARLIDPSAVVGGTVECKLDTASLSRNAAQSAKQSIRGDLRE 121

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVE--YGNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
             R+    +F+DK  E I+ TV +VE   G V +    ++  + R+E I  E L+ G  V
Sbjct: 122 ISRENLLTKFQDKENECITATVSQVEPGRGTVTLIYDKTELYLFRNEQIPGEVLKEGQSV 181

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           K YI  +  +Q+ P + +SR H   + +LF +EVPEIY+G V+V A+SR+ G+R K+AV 
Sbjct: 182 KVYITGIANKQKKPIIKISRAHRDLVKRLFELEVPEIYDGTVEVMAISREAGARTKIAVQ 241

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL- 301
           S D ++D VGAC+G + SR+ AVV EL  EKIDI+ +S     F+  AL PA V  V + 
Sbjct: 242 SHDPNVDAVGACIGPKRSRITAVVNELNGEKIDIINYSDKPEEFIAKALAPAEVLSVTIT 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           D +     V+VP  QLSLAIG RGQN +LA++LTG+ IDI  E E
Sbjct: 302 DPENRSCTVVVPNNQLSLAIGNRGQNAKLAAKLTGYKIDIKPEFE 346


>gi|295395322|ref|ZP_06805525.1| transcription termination factor NusA [Brevibacterium mcbrellneri
           ATCC 49030]
 gi|294971825|gb|EFG47697.1| transcription termination factor NusA [Brevibacterium mcbrellneri
           ATCC 49030]
          Length = 320

 Score =  377 bits (968), Expect = e-102,   Method: Composition-based stats.
 Identities = 122/334 (36%), Positives = 192/334 (57%), Gaps = 24/334 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           L     +  E+ I   V++ ++  ++  A +   G   D R E++ +TG  +++ +    
Sbjct: 5   LSALRMIEREREIPMKVLVDLIEQALLIAYQRTEGYYPDARAELDTKTGKATIWAV---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
            E ++             +P  +          P  FGR+A Q+A+ VI Q++R+ E + 
Sbjct: 61  -EFDDDD-----------NPIGEFDD------TPEGFGRIAAQTARNVIHQRLRDVEDES 102

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
               FK+  GEI+SG +++ +Y + V V+LG+ + V+   E +  E    G R++ YI D
Sbjct: 103 VLGSFKNHEGEIVSGVIQQGKYEDMVQVNLGDVEAVLPPHEQVPGETYEHGRRIRVYITD 162

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V + Q+GP V +SR+HP  + KLF  EVPEI +G V++ +++R+ G R K+AV +    +
Sbjct: 163 VHKGQKGPSVTVSRSHPNLVRKLFAHEVPEIADGQVELVSLAREAGHRTKIAVAAKVPGL 222

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  G+RV+AV+ EL +EKIDIV ++ + A FV NAL PA   KV V+DE    
Sbjct: 223 NAKGACIGEYGTRVRAVMGELGEEKIDIVDYNENPAKFVANALSPAKAAKVEVIDESAKM 282

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
               VP +QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 283 ARAFVPNDQLSLAIGKEGQNARLAAKLTGWKIDI 316


>gi|91217187|ref|ZP_01254149.1| transcription elongation factor NusA [Psychroflexus torquis ATCC
           700755]
 gi|91184787|gb|EAS71168.1| transcription elongation factor NusA [Psychroflexus torquis ATCC
           700755]
          Length = 411

 Score =  377 bits (968), Expect = e-102,   Method: Composition-based stats.
 Identities = 126/417 (30%), Positives = 226/417 (54%), Gaps = 11/417 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            ++L+        +K IDR  +++++ D  + A +  +G   +  + INP+ GD+ ++R 
Sbjct: 3   NIDLINSFSEFKDDKLIDRVTLMAILEDVFRNALKKKFGQDDNFDIIINPDKGDLEIWRN 62

Query: 66  LEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV   EVE+   +ISLK AR  +P  ++G  VS+ +     GR A+ + +Q +I K+ 
Sbjct: 63  RNVVNDGEVEDENKEISLKDARKIEPDFEVGEDVSEEVKLYQLGRRAILALRQNLISKIH 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRV 182
           E +    +  F+D +GEI +  V  V +  VI+ D   ++ +I ++  I  +  R GD +
Sbjct: 123 EHDSTNTFKYFQDLIGEIYTAEVHHVRHNVVILLDDDGNELIIPKEHQIPSDFYRKGDSI 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  I  V  +   P ++LSRT P+F+ KLF  E+PE+++G++ VK   R PG +AK+AV 
Sbjct: 183 RGVIEKVELKGNKPIIILSRTTPKFLEKLFEQEIPEVFDGLITVKNAVRIPGEKAKVAVD 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           + D  IDPVGACVGM+GSR+  +V EL +E ID++ ++ +   ++  AL PA +  + L+
Sbjct: 243 TYDDRIDPVGACVGMKGSRIHGIVRELGNENIDVINYTNNPQLYIQRALSPAKIVNIKLN 302

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+    EV +  E++S AIGR G N+RLA  LTG+ I++  +        ++ +     F
Sbjct: 303 EEKKYAEVTLKPEEVSKAIGRGGHNIRLAGLLTGYNIEVFRD------GIEEEDVELTEF 356

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
                +++ +       G    + +  + +S++      +EET + +    ++  E 
Sbjct: 357 TD--EIEDWVIKEFGRIGLDTAKSILELDVSDLVRRTDLEEETVLNVVKILKQEFEE 411


>gi|227875842|ref|ZP_03993968.1| transcription elongation factor NusA [Mobiluncus mulieris ATCC
           35243]
 gi|269977478|ref|ZP_06184450.1| transcription termination factor NusA [Mobiluncus mulieris 28-1]
 gi|306819123|ref|ZP_07452837.1| transcription termination factor NusA [Mobiluncus mulieris ATCC
           35239]
 gi|307700036|ref|ZP_07637085.1| transcription termination factor NusA [Mobiluncus mulieris
           FB024-16]
 gi|227843590|gb|EEJ53773.1| transcription elongation factor NusA [Mobiluncus mulieris ATCC
           35243]
 gi|269934394|gb|EEZ90956.1| transcription termination factor NusA [Mobiluncus mulieris 28-1]
 gi|304648099|gb|EFM45410.1| transcription termination factor NusA [Mobiluncus mulieris ATCC
           35239]
 gi|307614797|gb|EFN94017.1| transcription termination factor NusA [Mobiluncus mulieris
           FB024-16]
          Length = 327

 Score =  376 bits (967), Expect = e-102,   Method: Composition-based stats.
 Identities = 132/339 (38%), Positives = 201/339 (59%), Gaps = 24/339 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     V  EK +D + +++ + +++ KA R+  G  +  RVE++ +TG++ ++     V
Sbjct: 5   MTALRLVEAEKGMDFESLVATVEEALLKAYRNQSGVKAPARVEVDRKTGEVKVW-----V 59

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
            E++                   +G V    + P DFGR A  + K VIIQ+ +E E  +
Sbjct: 60  TELDEEGN--------------ALGDV---EVTPEDFGRTAAATVKSVIIQRFQEEEDKQ 102

Query: 130 QYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              +FK+++G+++SG V    +   + VDLG+ +GVI   E    E+ R G+R++ Y+  
Sbjct: 103 VLGDFKERIGQVVSGVVVAARDPKFIAVDLGDIEGVIPPAEQAPGEHFRDGERIRVYVLS 162

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
             R  +GP + LSRTHP  +  LF+ EVPEI  G+V +++V+R+PG R K+AV + +  +
Sbjct: 163 AARGMKGPHIELSRTHPGLVQGLFNREVPEIEKGLVVIESVAREPGHRTKIAVRALEKGM 222

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +P GAC+G  GSRV+AV+ EL  EKIDI+ WS +   F+ NAL PA V  V VLDED   
Sbjct: 223 NPKGACIGPNGSRVRAVMNELNGEKIDIIDWSDNPVEFIANALSPAKVVSVRVLDEDRRL 282

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
             V+VP  Q SLAIG+ GQN RLAS+LTGW IDI ++ E
Sbjct: 283 ARVVVPDFQQSLAIGKEGQNARLASRLTGWGIDIHSDSE 321


>gi|255536444|ref|YP_003096815.1| transcription elongation factor NusA [Flavobacteriaceae bacterium
           3519-10]
 gi|255342640|gb|ACU08753.1| Transcription termination protein NusA [Flavobacteriaceae bacterium
           3519-10]
          Length = 415

 Score =  376 bits (966), Expect = e-102,   Method: Composition-based stats.
 Identities = 128/418 (30%), Positives = 230/418 (55%), Gaps = 9/418 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           + L L++       EKSI +  +++++ DS++   R  + +     V +NP+ GD  +F 
Sbjct: 2   DGLALIEAFGDFKEEKSISKIDLMAIIEDSLKTLLRKRFDSDDHFDVIVNPDKGDFQIFL 61

Query: 65  LLEVVEEV--ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              +VE+   E+   +I +  A+  DP+ ++G   +  +P    GR ++ + KQ++  K+
Sbjct: 62  NKTIVEDDMSEDDDLEIEISEAKKIDPTFEVGEEFTIEIPIEGLGRRSILTLKQILATKL 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDR 181
           +E      Y EF+DK+GEI+ G V  + + +VI+ D  +++ ++ ++  I  +  + G+ 
Sbjct: 122 QEHNNAVLYEEFRDKIGEIVVGEVHHIRHKHVILLDDEDNEFILPKENQIPSDFFKKGEN 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++ +  V  +   PQ+++SRT P+F+ KL  +E+PEI +G + +K V R PG +AK+AV
Sbjct: 182 IRTIVESVDFKGSKPQIIVSRTAPKFLEKLLELEIPEIQDGTIILKKVVRIPGEKAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            + D  IDPVGACVG++GSR+  VV EL++E ID++ WS +    V  AL    V K+ +
Sbjct: 242 DAYDDRIDPVGACVGVKGSRIHGVVRELKNENIDVIQWSKNPEIMVKRALGNVTVNKIEI 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE-EDSINRQKDFNERTQ 360
           +E+     V  P E++S  IG++GQN+RLAS L+G+ ID+  E  ED     K+F     
Sbjct: 302 NEETKYAMVYTPVEEISRVIGKQGQNIRLASWLSGYEIDVHRESAEDDDVELKEFAGS-- 359

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
               A ++++ I       G    + +       +  +   +EET  E++   +E  E
Sbjct: 360 ---DAGDIEQWIIDEFNKVGLTTAKSVLDKDTEALLKMVDLEEETIEEVKQILKEEFE 414


>gi|329947836|ref|ZP_08294768.1| transcription termination factor NusA [Actinomyces sp. oral taxon
           170 str. F0386]
 gi|328523460|gb|EGF50558.1| transcription termination factor NusA [Actinomyces sp. oral taxon
           170 str. F0386]
          Length = 346

 Score =  376 bits (966), Expect = e-102,   Method: Composition-based stats.
 Identities = 140/354 (39%), Positives = 195/354 (55%), Gaps = 28/354 (7%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +  N  EL   AD +     ID D +L  + D+I  A   + G +    VEI+  TG +S
Sbjct: 1   MDINMPELRGAADEL----GIDLDNLLPAIEDAILGAYSKVPGAIRGAHVEIDRRTGHMS 56

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +      V+E +  T +                        P DFGR+A  +A+ VI+Q+
Sbjct: 57  VLAPE--VDEDDQPTGE-------------------YFDDTPDDFGRIAQATARSVIVQR 95

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNS-DGVIRRDETISRENLRPG 179
           +++         FKDK GE+ISGTV++  +   V V L    +G++   E +  E+ R G
Sbjct: 96  IQDRRDFEVLGAFKDKTGELISGTVEQGRDPRIVYVRLDEEHEGIMPPHEQVPGESYRHG 155

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DRV++Y+ DV R  RG Q++LSRTHP  + KLF  EVPEI +G V++ +V+R+ G R K+
Sbjct: 156 DRVRAYVTDVSRGTRGAQIVLSRTHPGLVRKLFEREVPEISSGDVEIVSVAREAGHRTKM 215

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S    ++  GAC+G  G RV+AV+TEL  EKIDIV  S D A F+ NAL PA V  V
Sbjct: 216 AVRSKVRGVNAKGACIGPMGQRVRAVMTELGGEKIDIVDHSEDPARFIANALSPARVAAV 275

Query: 300 -VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
            V+D +      IVP  QLSLAIG+ GQN RLA++LTGW IDI  + E      
Sbjct: 276 GVIDAEERTARAIVPDFQLSLAIGKEGQNARLAARLTGWKIDIHADAESGEITP 329


>gi|225012171|ref|ZP_03702608.1| NusA antitermination factor [Flavobacteria bacterium MS024-2A]
 gi|225003726|gb|EEG41699.1| NusA antitermination factor [Flavobacteria bacterium MS024-2A]
          Length = 410

 Score =  376 bits (966), Expect = e-102,   Method: Composition-based stats.
 Identities = 128/417 (30%), Positives = 229/417 (54%), Gaps = 12/417 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            L L+        +K IDR  ++ ++ D  +   +  +G+  +  + INP+ GD+ ++R 
Sbjct: 3   NLALIDSFSEFKDDKLIDRVTLMVILEDVFKNTLKRKFGSDENFDIIINPDKGDLEIWRN 62

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVE+  VE+   +I+LK AR  +P  ++G  VS+ +  +D GR  +Q  +Q ++ K+ 
Sbjct: 63  RVVVEDGMVEDPNQEIALKEARLIEPDFEVGEDVSEEVKLVDLGRRTIQYLRQNLVAKIF 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRV 182
           E +    + +FKD+ GE+ +  V  +    +I +D   ++ ++ +D  I  +  R GD +
Sbjct: 123 EHDSTTIFKQFKDREGELYTAEVHHIRSREIILLDDDGNEIILPKDRQIPSDFFRKGDNI 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  I  V      P+++LSRT P F+ KLF  E+PE+++G++ +K   R PG +AK+AV 
Sbjct: 183 RGIIETVELRGNKPRIILSRTSPIFLEKLFEQEIPEVFDGLITIKKAVRIPGEKAKVAVD 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDPVGACVGM+GSR+  +V EL +E ID++ ++ +   F+  AL PA V  + ++
Sbjct: 243 SYDDRIDPVGACVGMKGSRIHGIVRELGNENIDVINYTNNLQLFIARALSPAKVNSLKIN 302

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+  R+EV +  E++S AIG+ G N+RLA +LTG+ ID+  E  +     K+F++     
Sbjct: 303 EETKRVEVFLNPEEVSKAIGKGGANIRLAGKLTGYEIDVFREGVEEDIELKEFSD----- 357

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
                ++  I       G    + +  ++ +++      +EET  ++    +E  E 
Sbjct: 358 ----EIEGWIIEEFKKVGLDTAKSILELEKADLIKRTDLEEETVDDVLKILKEEFEE 410


>gi|298206855|ref|YP_003715034.1| transcription elongation factor NusA [Croceibacter atlanticus
           HTCC2559]
 gi|83849489|gb|EAP87357.1| transcription elongation factor NusA [Croceibacter atlanticus
           HTCC2559]
          Length = 410

 Score =  376 bits (966), Expect = e-102,   Method: Composition-based stats.
 Identities = 137/417 (32%), Positives = 231/417 (55%), Gaps = 12/417 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            + L++       +K IDR  +++++ +  + A +  +G   +  + INP+ GD+ ++R 
Sbjct: 3   NIALIESFSEFKDDKLIDRVTLMAILEEVFRSALKRKFGEDDNFDIIINPDKGDLEIWRN 62

Query: 66  LEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VVE+  VE+   +ISL  AR  +P  ++G  VS+ +  +D GR A+ + +Q +I K+ 
Sbjct: 63  RVVVEDGMVEDDNSEISLTQARKIEPDFEVGEDVSEEVKLIDLGRRAILALRQNLIAKIH 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRV 182
           E +    Y +FK+ +GE+ S  V  + +  VI+ D   ++ ++ +D  I  +  R G+ V
Sbjct: 123 EHDNTNIYNQFKELIGEMYSAEVHHIRHRVVILLDDEGNELIMPKDRQIPSDFFRKGESV 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  I  V  +   P ++ SRT P F+ KLF  E+PE+++G++QVK V R PG +AK+AV 
Sbjct: 183 RGVIESVELKGNKPAIIFSRTSPLFLEKLFEQEIPEVFDGLIQVKKVVRIPGEKAKVAVD 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDPVGACVG++GSR+  +V EL +E ID++ ++ +    +  AL PA VT V L+
Sbjct: 243 SYDDRIDPVGACVGVKGSRIHGIVRELGNENIDVINYTSNDQLLINRALSPARVTSVKLN 302

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
            +  R EV++  E++S AIGR G N+RLASQLTG+ ID+  E  +     K+F++     
Sbjct: 303 SETMRAEVMLKPEEVSKAIGRGGHNIRLASQLTGYEIDVFREGVEEDVELKEFSD----- 357

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
                +D  I       G    + +    + ++      +EET  E+    RE  + 
Sbjct: 358 ----EIDAWIIAEFSKIGLDTAKAILEQDLDDLVRRTDLEEETIREVVQILREEFDQ 410


>gi|146299389|ref|YP_001193980.1| transcription elongation factor NusA [Flavobacterium johnsoniae
           UW101]
 gi|146153807|gb|ABQ04661.1| NusA antitermination factor [Flavobacterium johnsoniae UW101]
          Length = 417

 Score =  376 bits (966), Expect = e-102,   Method: Composition-based stats.
 Identities = 134/419 (31%), Positives = 235/419 (56%), Gaps = 8/419 (1%)

Query: 7   LELLQIADAVAYEKS---IDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLF 63
           +E L + D+ +  K    IDR  +++++ D  + A +  YG+  +  + INP+ GD+ ++
Sbjct: 1   MENLALIDSFSEFKDNKLIDRVTLMAILEDVFRNALKKKYGSDDNFDIIINPDKGDMEIW 60

Query: 64  RLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           R   +V  E+++    +I+L  AR  +   +IG  VS+ +  +D GR A+ + +Q +I K
Sbjct: 61  RRRVIVADEDLDFENEEITLTEARMIEADFEIGEEVSEEVKLIDLGRRAILALRQNLISK 120

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGD 180
           + E +    Y +FKD +G+I +  V  V    VI VD   ++ V+ +++ I  +  R GD
Sbjct: 121 IHEHDNTNLYKQFKDIIGDIYTAEVHHVRPRVVILVDDEGNEIVLPKEKQIPSDFFRKGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            V+  I  V  +   PQ+++SRT  +F+ KLF  E+PE+++G++ VK V R PG +AK+A
Sbjct: 181 NVRGIIESVELKGNKPQIIMSRTSEKFLEKLFEQEIPEVFDGLITVKNVVRIPGEKAKVA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S D  IDPVGACVGM+GSR+  +V EL +E ID++ ++ +   F+  AL PA V+ + 
Sbjct: 241 VDSYDDRIDPVGACVGMKGSRIHGIVRELGNENIDVINYTNNIQLFITRALSPAKVSSIK 300

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DE+  R EV +  E++S AIGR G N++LA QLTG+ +D+I E + +     + +    
Sbjct: 301 IDEESKRAEVFLKLEEVSKAIGRGGHNIKLAGQLTGYELDVIREGDVAGTVADEDDVELT 360

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
            F     ++E +       G    + +    + ++      +EET +++    +E  + 
Sbjct: 361 EFSD--EIEEWVIEEFAKIGLDTAKSILKHDVEDLVRRTDLEEETILDVMKILKEEFDS 417


>gi|213962910|ref|ZP_03391170.1| transcription termination factor NusA [Capnocytophaga sputigena
           Capno]
 gi|213954567|gb|EEB65889.1| transcription termination factor NusA [Capnocytophaga sputigena
           Capno]
          Length = 410

 Score =  375 bits (965), Expect = e-102,   Method: Composition-based stats.
 Identities = 127/416 (30%), Positives = 229/416 (55%), Gaps = 12/416 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N LEL++       +K I+R+ +++++ +  +   +  YG+  +  + INP+ GD+ +FR
Sbjct: 2   NSLELIESFSEFKDDKLINRETLMAILEEVFRNTLKKKYGSDDNFDIIINPDKGDLQIFR 61

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VVE+  V N   QI+L  AR  +P  ++G  VS+ +   D GR A+ + +Q +I K+
Sbjct: 62  NRVVVEDDAVTNDNQQIALSAARKIEPDFEVGEDVSEEIKINDLGRRAILALRQNLISKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDR 181
            E +    Y  FKD +G++    +  + +  +I+ D   ++ ++ +++ I  +  + G+ 
Sbjct: 122 HEYDSMTIYQRFKDLIGQLYVAEIHHIRHKAIILLDDEGNEIILPKEKQIPSDFFKKGEH 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+  I  V  +   P +++SRT P F+ +LF  E+PEI +G++ +  V R PG +AK+AV
Sbjct: 182 VRGIIESVELKSTKPTIIMSRTSPVFLERLFEQEIPEIADGLITISKVVRIPGEKAKVAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  ID VGACVG+RG+R+  +V EL +E ID++ ++ +    +  AL PA V+ V++
Sbjct: 242 DSFDERIDAVGACVGVRGARIHGIVRELGNENIDVLPFTNNPQLLITRALAPARVSSVII 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           +E+  R +V +  E++S AIG+ G N+RLASQL+G+ ID+  E         + +     
Sbjct: 302 NEEEKRADVYLANEEVSKAIGKSGYNIRLASQLSGYEIDVYRE------GVTEEDIELTE 355

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVE-IQGRAREY 416
           F     +++ +   L   G    + +  +   E+      +EET  E +Q  A E+
Sbjct: 356 FND--EIEQWVIEELQKAGLDTAKSVLELSAEELMQRTDLEEETVNEVLQVLAAEF 409


>gi|196019394|ref|XP_002118970.1| hypothetical protein TRIADDRAFT_62947 [Trichoplax adhaerens]
 gi|190577493|gb|EDV18544.1| hypothetical protein TRIADDRAFT_62947 [Trichoplax adhaerens]
          Length = 348

 Score =  375 bits (965), Expect = e-102,   Method: Composition-based stats.
 Identities = 150/338 (44%), Positives = 236/338 (69%), Gaps = 11/338 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+L +A+AVA +K I ++ ++  + +++  AA+  YG    ++  IN   G+I L+R + 
Sbjct: 10  EILHVAEAVARDKGISKESIIEALEEAMAIAAKRKYGANIKVKAHINRNLGNIELYREVL 69

Query: 68  VV----------EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQV 117
           VV          +E       I +  A++ DP I+ G V+   LPP++ GR+   SAKQ+
Sbjct: 70  VVKDGFISDNTRDENNEEVKTIEISKAQETDPDINEGDVIKQILPPLEIGRLNAISAKQI 129

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR 177
           II KV+E E+D+ + E+K++VGE+++G V+++E G  IV LG+++ ++++D+T+  +  +
Sbjct: 130 IINKVKELEKDKVFEEYKNRVGEVLNGVVEKIETGGYIVKLGSAEAILKKDQTLKTDFYK 189

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            GDR+++ +  + +E  GP ++LSRTH  F+++LF  EVPEIY+ I++VK ++RDPGSR 
Sbjct: 190 LGDRIRACLAKLDKESNGPILILSRTHKDFVIQLFKQEVPEIYDRIIEVKNIARDPGSRT 249

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINAL-RPAIV 296
           K+AV+SSD SIDPVG+CVGMRG RVQA++ EL+ EKIDIV WS D ATFV+N+L     V
Sbjct: 250 KIAVYSSDPSIDPVGSCVGMRGVRVQAIIKELKGEKIDIVKWSDDPATFVVNSLGSSIRV 309

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQL 334
           +KV++DE+  +IE+IVP+E  S AIGRRGQN++L S+L
Sbjct: 310 SKVIIDEEQNKIEIIVPEEDQSQAIGRRGQNIKLISEL 347


>gi|83815918|ref|YP_445895.1| transcription elongation factor NusA [Salinibacter ruber DSM 13855]
 gi|83757312|gb|ABC45425.1| N utilization substance protein A [Salinibacter ruber DSM 13855]
          Length = 546

 Score =  375 bits (964), Expect = e-101,   Method: Composition-based stats.
 Identities = 144/409 (35%), Positives = 230/409 (56%), Gaps = 12/409 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L+     +A  K +DRD +  ++ D  +   R  YG+     +  NP+ GDI +  + E
Sbjct: 5   DLISSFGEIARSKDMDRDTLQIIVEDVFRAMLRKRYGSDEAFEIIFNPKQGDIQILHIQE 64

Query: 68  VVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV   EVE+   +I    A+  D    +G  V+  L   +FGR AV +A+Q   Q++R+ 
Sbjct: 65  VVGDWEVEDPVTEIKESEAKKIDDGFAVGDEVAGGLDVSEFGRRAVMTARQTFRQRIRDI 124

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E+++ Y E+ + +G+I+ G + +V     ++   +++ V+ RDE I  ++ R G+ +++ 
Sbjct: 125 EKEQVYQEYTELIGDIVVGEIYQVRRHETLLMHEDTELVLPRDEQIPGDHYRKGNMLRTV 184

Query: 186 IYDVRREQRG-PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           + +VRR+    PQV++SRT P FM +LF +EVPE+++GIV++K V+R PG RAK+AV S 
Sbjct: 185 VKEVRRDAGSDPQVVVSRTSPVFMERLFEVEVPEVHDGIVEIKKVARIPGDRAKVAVESH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--D 302
           D  +DPVGACVG++G R+ AVV EL DE ID++ WS D    +  AL PA  T V L  D
Sbjct: 245 DEKVDPVGACVGVKGVRINAVVRELSDENIDVMQWSDDPQELIARALSPAEPTNVSLNQD 304

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED  R  V VP +++S AIG+RG N++LASQLTG+ ID+  E         + +   + F
Sbjct: 305 EDPPRARVEVPADEVSQAIGKRGVNIKLASQLTGYEIDVYRE-----IPADEEDIDIEQF 359

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
              +   E     L   G    + +  +    +A     D +TA ++  
Sbjct: 360 GDEL--TEETIGKLKRIGCDTGKAVLELSADALARRADLDRDTAKQVLE 406


>gi|154509097|ref|ZP_02044739.1| hypothetical protein ACTODO_01614 [Actinomyces odontolyticus ATCC
           17982]
 gi|153798731|gb|EDN81151.1| hypothetical protein ACTODO_01614 [Actinomyces odontolyticus ATCC
           17982]
          Length = 342

 Score =  375 bits (963), Expect = e-101,   Method: Composition-based stats.
 Identities = 124/344 (36%), Positives = 203/344 (59%), Gaps = 26/344 (7%)

Query: 7   LEL-LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
           +E+ +     V  EK +  + ++  + +++ KA  +L G +S  R+EI+ +TG +++   
Sbjct: 1   MEIDMTALRMVENEKGVSLETLVDAIEEALLKAYHNLPGAISQARIEIDKKTGRVTV--- 57

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
                        +++    D +P  +          P +FGR+A  +A+ VI+Q++R+A
Sbjct: 58  -------------MAMDEDEDGNPIGEFDD------TPKNFGRIAQSTARSVIMQRLRDA 98

Query: 126 ERDRQYLEFKDKVGEIISGTVK--RVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           +  R + +F  + G+II+GTV+  R     ++    + + V+   E +  E+ R GDR++
Sbjct: 99  DDQRVFGDFAGREGQIITGTVQAPRPGRPTMVQVSDDFEAVLPDGEKVPGESYRHGDRIR 158

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           +Y+  V R +RGP++ LSRTHP  +  LF  EVPEI  G+V++KA++R+ G R K+AV +
Sbjct: 159 AYVVGVERTERGPRITLSRTHPNLVAGLFQREVPEIQQGLVKIKAIAREAGHRTKIAVAA 218

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +   I+  GAC+G  G+RV++V+ +L  EKIDIV +S D A FV N+L PA VT+VV+  
Sbjct: 219 TREGINAKGACIGPMGARVRSVMADLGGEKIDIVDYSDDPARFVANSLSPARVTRVVVHS 278

Query: 304 -DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            D      IVP  QLSLAIG+ GQN RLA++LT + IDI  + E
Sbjct: 279 VDNRTATAIVPDFQLSLAIGKEGQNARLAARLTNYHIDIHADTE 322


>gi|257452235|ref|ZP_05617534.1| transcription elongation factor NusA [Fusobacterium sp. 3_1_5R]
 gi|317058778|ref|ZP_07923263.1| transcription elongation factor NusA [Fusobacterium sp. 3_1_5R]
 gi|313684454|gb|EFS21289.1| transcription elongation factor NusA [Fusobacterium sp. 3_1_5R]
          Length = 353

 Score =  375 bits (963), Expect = e-101,   Method: Composition-based stats.
 Identities = 129/345 (37%), Positives = 211/345 (61%), Gaps = 3/345 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M + +    L+  D +  EK I+++ +L  +  ++  A +  YG   ++ V I+ E GD+
Sbjct: 1   MTNKDARAFLEALDELEKEKGIEKESLLQAVEQALLTAYKKNYGDEENVEVVIDRENGDV 60

Query: 61  SLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++ + +VV  E++ +   +ISL+ A+       +G  V   +    F R A+Q+ KQ++
Sbjct: 61  KVYEVKKVVTEEDLYDAALEISLEEAKKISRRAKLGEEVRIEVDCESFRRNAIQNGKQIV 120

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLR 177
           IQKVREAER+  Y  FK + GEI++G ++R+ E  NV ++ G  + ++   E    +  +
Sbjct: 121 IQKVREAERENIYDRFKAQEGEILTGIIRRIDERKNVFIEFGGIETILTAGEQCVSDRYK 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+R+K Y+ +V +  + P++++SR H   + KLF +E+PEI +G +++KAV+R+ GSRA
Sbjct: 181 VGNRIKVYLVEVEKTNKFPKIVISRRHEGLLRKLFELEIPEISSGAIEIKAVAREAGSRA 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV+S   +ID VGAC+G + +R++ +V EL  EKIDIV+W  +   FV   L PA V 
Sbjct: 241 KVAVYSELPNIDIVGACIGQKRARIKNIVDELGGEKIDIVIWKENMEEFVSAVLSPAKVN 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
            V L ED     V+V + QLSLAIG+ GQN RLA++LTG  +DI 
Sbjct: 301 SVELLEDGETARVLVDESQLSLAIGKSGQNARLAAKLTGMRVDIK 345


>gi|91200793|emb|CAJ73846.1| strongly similar to transcription elongation protein NusA
           [Candidatus Kuenenia stuttgartiensis]
          Length = 357

 Score =  375 bits (963), Expect = e-101,   Method: Composition-based stats.
 Identities = 139/350 (39%), Positives = 218/350 (62%), Gaps = 32/350 (9%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           ++  LL++ D++  +K I ++VV   +  ++  AA+  + +   + ++I+ +TG+I    
Sbjct: 2   DKENLLRLVDSLHRDKEIAKEVVFQGIEAALITAAKKHFRSQEAVSIQIDRKTGEI---- 57

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
                             VA + D            + P + GR+  Q+AKQVIIQK+RE
Sbjct: 58  ------------------VAMEGDR----------KIDPSELGRITAQTAKQVIIQKIRE 89

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           AERD  + +F  + G I+SG V+R E   +IV+LG ++GV+++ E  + E+   G+RV++
Sbjct: 90  AERDVIFEDFCKRKGVIVSGKVQRFEGATMIVNLGKTEGVLQKSEQTANEHYTIGERVRA 149

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            I DV++     ++ LSRTHP F+ KLF +EVPEI    +++KA++R+ G R+K+AV SS
Sbjct: 150 VILDVKKVGTRVKITLSRTHPDFVRKLFELEVPEIAENTIEIKALAREAGQRSKIAVASS 209

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           D ++D VGACVGMRGSR++ +V EL  EKIDI+ WS +    + NAL+PA V+ ++L  +
Sbjct: 210 DENVDCVGACVGMRGSRIKNIVDELNGEKIDIIRWSEEPELLLPNALKPAEVSGIILSPE 269

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
                ++VP +QLSLAIG+RGQNVRLAS+LT W IDIIT+ E    ++ D
Sbjct: 270 NRTATIVVPNDQLSLAIGKRGQNVRLASRLTEWNIDIITDAEFEKRQKAD 319


>gi|294507805|ref|YP_003571863.1| transcription factor [Salinibacter ruber M8]
 gi|294344133|emb|CBH24911.1| transcription factor [Salinibacter ruber M8]
          Length = 536

 Score =  375 bits (963), Expect = e-101,   Method: Composition-based stats.
 Identities = 145/409 (35%), Positives = 230/409 (56%), Gaps = 12/409 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L+     +A  K +DRD +  ++ D  +   R  YG+     +  NP+ GDI +  + E
Sbjct: 5   DLISSFGEIARSKDMDRDTLQIIVEDVFRAMLRKRYGSDEAFEIIFNPKQGDIQILHIQE 64

Query: 68  VVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           VV   EVE+   +I    A+  D    +G  V+  L   +FGR AV +A+Q   Q++R+ 
Sbjct: 65  VVGDWEVEDPVTEIKESEAKKIDDGFAVGDEVAGGLDVSEFGRRAVMTARQTFRQRIRDI 124

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E+++ Y E+ + +GEI+ G + +V     ++   +++ V+ RDE I  ++ R G+ +++ 
Sbjct: 125 EKEQVYQEYTELIGEIVVGEIYQVRRHETLLMHEDTELVLPRDEQIPGDHYRKGNMLRTV 184

Query: 186 IYDVRREQRG-PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           + +VRR+    PQV++SRT P FM +LF +EVPE+++GIV++K V+R PG RAK+AV S 
Sbjct: 185 VKEVRRDAGSDPQVVVSRTSPVFMERLFEVEVPEVHDGIVEIKKVARIPGDRAKVAVESH 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--D 302
           D  +DPVGACVG++G R+ AVV EL DE ID++ WS D    +  AL PA  T V L  D
Sbjct: 245 DEKVDPVGACVGVKGVRINAVVRELSDENIDVMQWSDDPQELIARALSPAEPTNVSLNQD 304

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ED  R  V VP +++S AIG+RG N++LASQLTG+ ID+  E         + +   + F
Sbjct: 305 EDPPRARVEVPADEVSQAIGKRGVNIKLASQLTGYEIDVYRE-----IPADEEDIDIEQF 359

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
              +   E     L   G    + +  +    +A     D +TA ++  
Sbjct: 360 GDEL--TEETIGKLKRIGCDTGKAVLELSADALARRADLDRDTAKQVLE 406


>gi|229815167|ref|ZP_04445504.1| hypothetical protein COLINT_02213 [Collinsella intestinalis DSM
           13280]
 gi|229809397|gb|EEP45162.1| hypothetical protein COLINT_02213 [Collinsella intestinalis DSM
           13280]
          Length = 426

 Score =  375 bits (963), Expect = e-101,   Method: Composition-based stats.
 Identities = 135/388 (34%), Positives = 211/388 (54%), Gaps = 38/388 (9%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +++    +  EK ID+  +L  +  ++ +    +       +V I+  TG I ++RL   
Sbjct: 8   MMEALMELCQEKHIDQLYLLDRLEAALAETYARVLKLDWGAKVTIDRTTGKIYVYRL--- 64

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
            E +++             D   +        + P D  R+A Q+AK  I   VR A R+
Sbjct: 65  -EPIDDS-----------MDEEGNFTEYEEIDVTPKDVSRLAAQTAKAEINAIVRNAARE 112

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIR----------RDETISRENLR 177
           + Y EF  +VG++I+GTV +      IV +    +  +           R+E  + E   
Sbjct: 113 QIYEEFSGRVGDLINGTVLQSTPDFTIVKIREGVEAELPHFDQRRYPDERNERPAGERYL 172

Query: 178 PGDRVKSYIYDVRREQ------RG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVK 227
               +K+ I DVR         RG    P +++SRTH + M +LF  EVPE+Y G V++K
Sbjct: 173 HNQHLKAVIIDVRDPNSTLPPVRGEHSRPPIVISRTHSELMRRLFEQEVPEVYEGTVELK 232

Query: 228 AVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFV 287
           +++R+PG R+K+AV S D  +DPVGACVG +GSRV+AVV ELR E++D+++W  D A +V
Sbjct: 233 SIAREPGQRSKVAVHSLDDRLDPVGACVGPKGSRVRAVVGELRGERVDVILWDEDPAVYV 292

Query: 288 INALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
            NAL PA VT+V++D +     VIVP +QLSLAIG+ GQN RLA++LTGW IDI +E   
Sbjct: 293 ANALSPAKVTRVLIDPEKNYAGVIVPDDQLSLAIGKEGQNARLAARLTGWHIDIKSET-L 351

Query: 348 SINRQKDFNERTQFFMQAINVDEIIAHL 375
           + +  K+     Q  ++ + +D+  A L
Sbjct: 352 AADILKNVPLAPQPVVEDL-IDDEPADL 378


>gi|320334652|ref|YP_004171363.1| NusA antitermination factor [Deinococcus maricopensis DSM 21211]
 gi|319755941|gb|ADV67698.1| NusA antitermination factor [Deinococcus maricopensis DSM 21211]
          Length = 397

 Score =  374 bits (962), Expect = e-101,   Method: Composition-based stats.
 Identities = 139/381 (36%), Positives = 222/381 (58%), Gaps = 22/381 (5%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M   N  E       VA  ++I+   ++     S+ +A          + V ++P++G+I
Sbjct: 1   MSEFNFAE---ALREVAQSRNINEMQLIEAFEQSLAQAYTRNVDPDKRVEVHLDPKSGEI 57

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            +  + EVVE+VE+   QISL  A + DP  ++G  +  P+    F R+A+Q+AKQ + Q
Sbjct: 58  EVLVVKEVVEKVEDENVQISLADALELDPEAELGEEMVFPVEREKFTRIALQAAKQTLTQ 117

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLRPG 179
           K+RE ER+  + E+KDK G++++  V R++  GN  VDLG  + ++ + E I  E L PG
Sbjct: 118 KMRETERNVVFNEYKDKEGQVLNAVVARLDNKGNYFVDLGAGEAILPQREAIPGERLMPG 177

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           +RVK Y+ +VR+  +GP +L SR   + +  L   E+PE+ NGIV+VKA++R+ G R+K+
Sbjct: 178 NRVKIYLKEVRKTPKGPTILASRADERLLDYLLKQEIPEVANGIVEVKAIAREAGQRSKV 237

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AVFS + ++DP+GAC+G RG+R+QAV  EL  E++D+++W      F+ NAL PA V  +
Sbjct: 238 AVFSHNPNVDPIGACIGHRGNRIQAVTGELGRERVDVILWDATPREFIRNALSPAKVGLI 297

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
            ++ D     V V  +QLSLAIG+ GQNVRLA++LTG+ +D+   +  S           
Sbjct: 298 EVNADTREATVTVTPDQLSLAIGKGGQNVRLAAKLTGYKVDLRETQAVS----------- 346

Query: 360 QFFMQAINVDEIIAHLLVAEG 380
                  ++D  +   L  EG
Sbjct: 347 -------DLDAAMQQALEDEG 360


>gi|298372250|ref|ZP_06982240.1| transcription termination factor NusA [Bacteroidetes oral taxon 274
           str. F0058]
 gi|298275154|gb|EFI16705.1| transcription termination factor NusA [Bacteroidetes oral taxon 274
           str. F0058]
          Length = 417

 Score =  374 bits (962), Expect = e-101,   Method: Composition-based stats.
 Identities = 122/423 (28%), Positives = 224/423 (52%), Gaps = 9/423 (2%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M      +++     +   K+ID   +LS++ ++ +K   ++YG+  +     NP+ GD 
Sbjct: 1   MAKKEHSDIISSFAELKEFKNIDNSTMLSILEEAFRKVISNIYGSDQNYDFIFNPDKGDF 60

Query: 61  SLFRLLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            ++R   VVE+  VE+   +ISL  AR      ++G  V + +    FGR AV +  Q++
Sbjct: 61  EIWRNRIVVEDDKVEDPHLEISLSDARKIADDYEVGEEVQEQVDINSFGRRAVLNLSQIL 120

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLR 177
             K+ + ++D  Y ++   +G+IIS  V +V    +++ D  N++ ++ + + +  +  +
Sbjct: 121 SAKIVDVQKDSLYTKYSQLLGQIISAEVYQVWKKEILLLDDNNNEILLPKADQLPNDFFK 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+ +++ +  V      P++ +SRT P F+ +L   EVPEI +G++ +K + R PG +A
Sbjct: 181 KGEIIRAVVARVDNNNNNPKIYVSRTLPLFLERLLEREVPEIQDGLITIKKIVRLPGEKA 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVG+RG+R+Q ++ EL  E ID++ ++ + + ++  AL PA VT
Sbjct: 241 KIAVESYDDRIDPVGACVGIRGNRIQPIIRELNKESIDVINYTSNPSLYIARALAPAKVT 300

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            +V+D +  R  V +  E +S AIG+ G N++LA QLTG+ I+II           + + 
Sbjct: 301 SIVIDNENKRANVYINPEDISSAIGKNGANIKLAIQLTGYHIEIIR----GDVEIDEEDI 356

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
               F     +DE +  +L   G    +++  +   E+      +EET   +    +   
Sbjct: 357 FLDDFAD--EIDEWVIDILKNIGCDTAKQVLRLTREELIERTDLEEETVDYVIKVLKTEF 414

Query: 418 EGI 420
           E  
Sbjct: 415 EKD 417


>gi|116490510|ref|YP_810054.1| transcription elongation factor [Oenococcus oeni PSU-1]
 gi|290889910|ref|ZP_06552997.1| hypothetical protein AWRIB429_0387 [Oenococcus oeni AWRIB429]
 gi|116091235|gb|ABJ56389.1| Transcription elongation factor [Oenococcus oeni PSU-1]
 gi|290480520|gb|EFD89157.1| hypothetical protein AWRIB429_0387 [Oenococcus oeni AWRIB429]
          Length = 473

 Score =  374 bits (962), Expect = e-101,   Method: Composition-based stats.
 Identities = 129/353 (36%), Positives = 207/353 (58%), Gaps = 5/353 (1%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M S  R EL     A+  EK I ++  ++ + D++  A +  +   +++ V+++PE  + 
Sbjct: 1   MASDYRRELFSALQALQAEKGISQEDAITSLKDTLVTAYKKNFEGETNVEVDVDPEKQEF 60

Query: 61  SLFRLLEVVEEVE--NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
           +L ++ EV+ + +  +   +I LK AR+ + + + G  +   + P DFGR+A QS K   
Sbjct: 61  NLLQIKEVIPDGDMIDPYSEIYLKDAREINSAYEAGDQIKFEINPRDFGRLAAQSGKNKS 120

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLR 177
            Q +RE E++  +  ++    EI+S  V R +   + V +    +  +   + I  E  +
Sbjct: 121 TQTIREKEKEAIHARYEGFEHEIVSARVAREDQRFLWVTMPDGQEAAMGDKDRIPGETYK 180

Query: 178 PGDRVKSYIYDVRRE-QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
            GD +K  I  V     RGPQ+ +SRT P+ + +LF  EVPE+Y+G V +++++R+ G R
Sbjct: 181 TGDPIKVLINRVEDSATRGPQIYVSRTSPELVKRLFEQEVPEVYDGTVVIESIAREAGDR 240

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           +K+AV ++DS++DP+G  VG RGSRVQAVV EL  E +DIV W  D A ++ NAL PA V
Sbjct: 241 SKVAVRTTDSNLDPIGTLVGTRGSRVQAVVNELHGENMDIVEWVEDEAQYIANALNPAEV 300

Query: 297 TKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
             V+   D    + VIVP  QLSLAIG+RGQN RLA++LT + IDI +E +  
Sbjct: 301 VDVIFSPDNDNEVTVIVPDYQLSLAIGKRGQNARLAAKLTKFKIDIKSETQAE 353


>gi|256827233|ref|YP_003151192.1| transcription termination factor NusA [Cryptobacterium curtum DSM
           15641]
 gi|256583376|gb|ACU94510.1| transcription termination factor NusA [Cryptobacterium curtum DSM
           15641]
          Length = 402

 Score =  374 bits (962), Expect = e-101,   Method: Composition-based stats.
 Identities = 136/368 (36%), Positives = 213/368 (57%), Gaps = 36/368 (9%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           EL++   A+A+E+ ID   ++  +  S+ K+ +++     D RV I+  TG I ++   E
Sbjct: 5   ELIEALHALAHERKIDEFYLIERLEASLAKSYQNILDLEWDARVTIDRNTGKIYVY---E 61

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +V + E    +           + +        + P D  R+A Q+AK VI   VREA R
Sbjct: 62  LVPQGE-PDPE-----------TGEYTDFEERDVTPDDVSRIAAQNAKGVINAIVREAGR 109

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIR----------RDETISRENL 176
              Y EF  +VG++++GTV +      I+ +    +  +           R+E  + E  
Sbjct: 110 QSIYEEFSQRVGDLVTGTVLQGTPDFTIIKIRDGVEAELPHYDQKRFPDERNERPANERY 169

Query: 177 RPGDRVKSYIYDVRR----------EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
           R   R+K+ I +VR           EQ  P +++SRTHP  + +LF +EVPEIY+G+V++
Sbjct: 170 RHNQRLKTLIIEVRNPNSEESRQRGEQARPSIVVSRTHPDLIRRLFEIEVPEIYDGVVEI 229

Query: 227 KAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATF 286
           K+++R+PG+R+K+AV S ++ +DPVGACVG +GSRV+ VV ELR+E++D++ WS D+AT+
Sbjct: 230 KSIAREPGARSKVAVVSHENHLDPVGACVGPKGSRVRMVVEELRNERVDVIQWSDDAATY 289

Query: 287 VINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           V NAL PA V+ V +DE+     VIVP +QLSLAIG+ GQN RLA++LTGW IDI +   
Sbjct: 290 VRNALSPARVSHVDIDEETHYATVIVPDDQLSLAIGKEGQNARLAARLTGWHIDIKSSSF 349

Query: 347 DSINRQKD 354
                  +
Sbjct: 350 AGEPVVSE 357


>gi|320531905|ref|ZP_08032815.1| transcription termination factor NusA [Actinomyces sp. oral taxon
           171 str. F0337]
 gi|320135874|gb|EFW27912.1| transcription termination factor NusA [Actinomyces sp. oral taxon
           171 str. F0337]
          Length = 346

 Score =  374 bits (962), Expect = e-101,   Method: Composition-based stats.
 Identities = 141/354 (39%), Positives = 193/354 (54%), Gaps = 28/354 (7%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +  N  EL   AD +     ID D +L  + D+I  A   + G +    VEI+  TG +S
Sbjct: 1   MDINMPELRGAADEL----GIDLDNLLPAIEDAILGAYSKVPGAIRGAHVEIDRRTGHMS 56

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +                     A + D      G   D   P DFGR+A  +A+ VI+Q+
Sbjct: 57  VL--------------------APEVDDDDQPTGEYFDD-TPDDFGRIAQATARSVIVQR 95

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNS-DGVIRRDETISRENLRPG 179
           +++         FKDK GE+ISGTV++  +   V V L    +G++   E +  E  R G
Sbjct: 96  IQDRRDFEVLGAFKDKTGELISGTVEQGRDPRIVYVRLDEEHEGIMPPHEQVPAERYRHG 155

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DRV++Y+ DV R  RG Q++LSRTHP  + KLF  EVPEI +G V++ +V+R+ G R K+
Sbjct: 156 DRVRAYVTDVSRGTRGAQIILSRTHPGLVRKLFEREVPEISSGDVEIVSVAREAGHRTKM 215

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S    ++  GAC+G  G RV+AV+TEL  EKIDIV  S D A F+ NAL PA V  V
Sbjct: 216 AVRSKVRGVNAKGACIGPMGQRVRAVMTELGGEKIDIVDHSEDPARFIANALSPARVAAV 275

Query: 300 -VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
            V+D +      IVP  QLSLAIG+ GQN RLA++LTGW IDI  + E      
Sbjct: 276 GVIDAEERTARAIVPDFQLSLAIGKEGQNARLAARLTGWKIDIHADAESGEITP 329


>gi|239621506|ref|ZP_04664537.1| transcription elongation factor NusA [Bifidobacterium longum subsp.
           infantis CCUG 52486]
 gi|296454835|ref|YP_003661979.1| NusA antitermination factor [Bifidobacterium longum subsp. longum
           JDM301]
 gi|239515381|gb|EEQ55248.1| transcription elongation factor NusA [Bifidobacterium longum subsp.
           infantis CCUG 52486]
 gi|296184267|gb|ADH01149.1| NusA antitermination factor [Bifidobacterium longum subsp. longum
           JDM301]
          Length = 355

 Score =  374 bits (962), Expect = e-101,   Method: Composition-based stats.
 Identities = 119/337 (35%), Positives = 197/337 (58%), Gaps = 17/337 (5%)

Query: 13  ADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV-VEE 71
              +A E+ ID + +   +A++++ A           RVE++  +G+ +++   E+ VE 
Sbjct: 8   IHKLAAEQGIDPETLDDALAEALRLAYLKTPHAAKHARVELDERSGNFTVWAADEIPVEP 67

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
            E+              P+  +G    D   P DFGR+A  +A+QVI Q  R AE ++ +
Sbjct: 68  TEDNPY-----------PAPKLGEEYDD--TPRDFGRLAAATARQVITQLFRRAEDEKVF 114

Query: 132 LEFKDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDV 189
             F  + G++I+G +++   +  NV V +G+ + ++ R E +  E  R G+R++ Y+ +V
Sbjct: 115 GAFSGQKGKLITGIIQQDASDPSNVHVAMGDVEAILPRREQVPGERYRHGERIRVYVVNV 174

Query: 190 RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSID 249
            R  +GP++++SR+HP+ + KLF  EVPE+ +G V + A++R+ G+R K+AV ++   ++
Sbjct: 175 ARGIKGPEIVVSRSHPELVRKLFEREVPELVSGAVSIMAIAREAGARTKIAVKANTDGVN 234

Query: 250 PVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRI 308
           P GA +G  G+RV+AV+  L  EKIDIV +S D A FV  AL PA+ T V V+ E     
Sbjct: 235 PKGALIGPGGARVRAVMENLGPEKIDIVDYSDDPAKFVAAALSPAVATGVQVISEKNKTA 294

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
              +  +QLSLAIG+ GQN RLA++LTGW I I + E
Sbjct: 295 IAFIHDDQLSLAIGKEGQNARLAAKLTGWKIGIESAE 331


>gi|225619365|ref|YP_002720591.1| transcription elongation factor NusA [Brachyspira hyodysenteriae
           WA1]
 gi|225214184|gb|ACN82918.1| putative transcription elongation factor NusA [Brachyspira
           hyodysenteriae WA1]
          Length = 496

 Score =  374 bits (961), Expect = e-101,   Method: Composition-based stats.
 Identities = 129/448 (28%), Positives = 243/448 (54%), Gaps = 35/448 (7%)

Query: 13  ADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEV 72
              ++ EK I  +++  V+A +++ A +  YG      +  + +  + ++++   VVEEV
Sbjct: 9   LQQLSDEKDISVELLKEVIASTMELALKKKYGDDIKFHIHFDNKN-NPTVYKGASVVEEV 67

Query: 73  ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMD-FGRVAVQSAKQVIIQKVREAERDRQY 131
            N   +ISL+ A+  D  I++G  V   +  ++ FGR+    A+    QK+ E E++  Y
Sbjct: 68  RNKNKEISLEEAKKLDQDINLGDEVLILVDQVEAFGRIESTVARTAFFQKISELEKNIIY 127

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVR- 190
            EFK +  ++++G  +R   G + ++LG ++G +++ +   RE+   GDR+++YIY V+ 
Sbjct: 128 NEFKRRENQLVNGYFQREHRGTIYINLGKTEGELQKKDQSPREHYTVGDRIRAYIYKVQG 187

Query: 191 -REQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
            ++++G     ++LL+RT P F+ KLF +E+PEI +G +++K V R PG + K+AV S+ 
Sbjct: 188 GKDEKGKEIHTKILLTRTKPDFIKKLFELEIPEIADGTIEIKNVVRQPGLKIKVAVASNK 247

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DED 304
             +DP+GAC+G +G R+Q+++ E+  EKID+V WS D   ++  A+ PA   ++++ D +
Sbjct: 248 PEVDPIGACIGQKGIRIQSIIKEIEGEKIDVVKWSKDIREYIAEAITPAKPIRIIITDPE 307

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE------------------ 346
                +I+P EQLSLA+G+ G NV+LASQLTG+  DI TE +                  
Sbjct: 308 KKEAMIIIPDEQLSLALGKSGYNVKLASQLTGYYFDIKTETDIKENPELLKDIVPLNQIF 367

Query: 347 ----DSINRQKDFNERTQFFMQAI----NVDEIIAHLLVAEGFADVEELACVKISEIASI 398
               + +    +  E  + F   +     +DE I   L+      +EEL  + + +I   
Sbjct: 368 SDNTEEVQAADEELETAEVFESNLYSLQGIDEAIIKTLIDNNINSIEELYNMSVEDIMEK 427

Query: 399 EGFDEETAVEIQGRAREYLEGIDITLQK 426
              + +    +    ++ +E ++ +  +
Sbjct: 428 TNLERDIVDNLMLVMKDVVEVVEASDDE 455


>gi|120434526|ref|YP_956870.1| transcription elongation factor NusA [Gramella forsetii KT0803]
 gi|117576676|emb|CAL65145.1| transcription elongation protein [Gramella forsetii KT0803]
          Length = 410

 Score =  374 bits (961), Expect = e-101,   Method: Composition-based stats.
 Identities = 133/417 (31%), Positives = 230/417 (55%), Gaps = 12/417 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            + L++       +K IDR  +++++ D  + A +  YG   +  + +NP+ GD+ ++R 
Sbjct: 3   NIALIESFSEFKDDKLIDRVTLMAILEDVFRNALKKKYGEDDNFDIIVNPDKGDLEIWRN 62

Query: 66  LEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV   EVE+   +ISL  AR  +P  ++G  VS+ +  +D GR A+ + +Q +I K+ 
Sbjct: 63  RIVVADGEVEDDNREISLAQARKIEPDFEVGEDVSEEVKLVDLGRRAILALRQNLISKIH 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRV 182
           E +    Y +FKD  GEI +  V  + +  +I+ D   ++ V+ +D  I  +  R G+ V
Sbjct: 123 EHDNTNIYKQFKDLEGEIYTAEVHHIRHRAIILLDDEGNEIVLPKDRQIPSDFFRKGENV 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  I  V  +   P +++SRT P F+ KLF  E+PE+++G++ +K V R PG +AK+AV 
Sbjct: 183 RGIIESVELKGNKPTIIMSRTAPGFLEKLFEQEIPEVFDGLITIKKVVRVPGEKAKVAVD 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDPVGACVGM+GSR+ ++V EL +E ID++ ++ +   F+  AL PA +T + +D
Sbjct: 243 SYDDRIDPVGACVGMKGSRIHSIVRELGNENIDVINFTNNEQLFITRALSPAKITSIKMD 302

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+    EV++  E++S AIGR G N+RLA QLTG+ ID+  E  +     K+F +     
Sbjct: 303 EEARTAEVMLKPEEVSKAIGRGGHNIRLAGQLTGYEIDVYREGVEEDVELKEFTD----- 357

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
                +++ +       G    + +    ++++      +EET  ++    R   E 
Sbjct: 358 ----EIEDWVIAEFSKIGLDTAKAVLEQDVNDLVRRTDLEEETIKDVMAVLRSEFEE 410


>gi|213693052|ref|YP_002323638.1| NusA antitermination factor [Bifidobacterium longum subsp. infantis
           ATCC 15697]
 gi|213524513|gb|ACJ53260.1| NusA antitermination factor [Bifidobacterium longum subsp. infantis
           ATCC 15697]
 gi|320459229|dbj|BAJ69850.1| transcription elongation factor NusA [Bifidobacterium longum subsp.
           infantis ATCC 15697]
          Length = 355

 Score =  374 bits (961), Expect = e-101,   Method: Composition-based stats.
 Identities = 119/337 (35%), Positives = 196/337 (58%), Gaps = 17/337 (5%)

Query: 13  ADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV-VEE 71
              +A E+ ID   +   +A++++ A           RVE++  +G+ +++   E+ VE 
Sbjct: 8   IHKLAAEQGIDPGTLDDALAEALRLAYLKTPHAAKHARVELDERSGNFTVWAADEIPVEP 67

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
            E+              P+  +G    D   P DFGR+A  +A+QVI Q  R AE ++ +
Sbjct: 68  TEDNPH-----------PAPKLGEEYDD--TPRDFGRLAAATARQVITQLFRRAEDEKVF 114

Query: 132 LEFKDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDV 189
             F  + G++I+G +++   +  NV V +G+ + ++ R E +  E  R G+R++ Y+ +V
Sbjct: 115 GAFSGQKGKLITGIIQQDASDPSNVHVAMGDVEAILPRREQVPGERYRHGERIRVYVVNV 174

Query: 190 RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSID 249
            R  +GP++++SR+HP+ + KLF  EVPE+ +G V + A++R+ G+R K+AV ++   ++
Sbjct: 175 ARGIKGPEIVVSRSHPELVRKLFEREVPELVSGAVSIMAIAREAGARTKIAVKANTDGVN 234

Query: 250 PVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRI 308
           P GA +G  G+RV+AV+  L  EKIDIV +S D A FV  AL PA+ T V V+ E     
Sbjct: 235 PKGALIGPGGARVRAVMENLGPEKIDIVDYSDDPAKFVAAALSPAVATGVQVISEKNKTA 294

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
              +  +QLSLAIG+ GQN RLA++LTGW I I + E
Sbjct: 295 IAFIHDDQLSLAIGKEGQNARLAAKLTGWKIGIESAE 331


>gi|24213642|ref|NP_711123.1| transcription elongation factor NusA [Leptospira interrogans
           serovar Lai str. 56601]
 gi|45658541|ref|YP_002627.1| transcription elongation factor NusA [Leptospira interrogans
           serovar Copenhageni str. Fiocruz L1-130]
 gi|24194444|gb|AAN48141.1| transcription elongation factor NusA [Leptospira interrogans
           serovar Lai str. 56601]
 gi|45601784|gb|AAS71264.1| NusA [Leptospira interrogans serovar Copenhageni str. Fiocruz
           L1-130]
          Length = 460

 Score =  374 bits (961), Expect = e-101,   Method: Composition-based stats.
 Identities = 145/447 (32%), Positives = 229/447 (51%), Gaps = 34/447 (7%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD--------IRVEINPETGDI 60
           LL+       +KS+DR+ V+ V+ DS+  A +   G            + VE       +
Sbjct: 12  LLEAIQQFCADKSLDREAVMGVIRDSLITAYKKKSGLEESSELEKPSPVTVEFASGKDSV 71

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            +    +VV    +   +ISL+ A+  D S +IG V+S    P++  R+    AKQ++ Q
Sbjct: 72  VIAIAKKVVSGNPSSALEISLEDAKAIDASAEIGSVISFREKPVELSRIISSQAKQMVFQ 131

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           ++++ E++  + E+K K GE+  G  +R +   + +DLG  +G++ R E    E    GD
Sbjct: 132 RLKDMEKELLFNEYKAKEGELTHGYFQRWKKDAMSIDLGKVEGIMPRREQNPGEKYHSGD 191

Query: 181 RVKSYIYDVRREQRGP--QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+K+ I  V    R P   + LSR    F+ KLF ME+PEIY+G+V++  V+R P  R K
Sbjct: 192 RLKAIIQRVELRPREPIPVITLSRASADFVRKLFEMEIPEIYDGLVEIINVARQPSIRTK 251

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           + V ++   IDPVGACVGM+G R+Q++V EL +E+IDIV  S D++ F+ NA+ PA   +
Sbjct: 252 VVVRATRGDIDPVGACVGMKGVRIQSIVRELGNERIDIVESSDDASEFIANAISPAKPVE 311

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINR--QKDFN 356
           V +D       V+VP +QLSLAIG  G NV+LASQL G+ IDI T  + +      +   
Sbjct: 312 VKVDGSGREAMVVVPDDQLSLAIGINGSNVKLASQLAGYKIDIKTVTQYNAELASPEARE 371

Query: 357 ERTQFFMQ----------------------AINVDEIIAHLLVAEGFADVEELACVKISE 394
              + F                           +   I  +L +EG  D+E L      +
Sbjct: 372 RLERLFYSPVEETKVSMEQEEEEELTPLEDLPGLSARIVGILKSEGIKDLETLIEYSQDD 431

Query: 395 IASIEGFDEETAVEIQGRAREYLEGID 421
           +A ++G    TA +I    RE +E ++
Sbjct: 432 LAKLQGIGHTTAGQILKLLRESVEWVE 458


>gi|332295450|ref|YP_004437373.1| NusA antitermination factor [Thermodesulfobium narugense DSM 14796]
 gi|332178553|gb|AEE14242.1| NusA antitermination factor [Thermodesulfobium narugense DSM 14796]
          Length = 340

 Score =  374 bits (960), Expect = e-101,   Method: Composition-based stats.
 Identities = 132/337 (39%), Positives = 217/337 (64%), Gaps = 2/337 (0%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           L + + +  EK +    ++S +  ++  + +  Y    ++ ++I P+TG + +     VV
Sbjct: 5   LHVLEQLEKEKGVSLPAMISALESALLASYKKYY-PSKNVSLKIIPDTGVLEIVVKKTVV 63

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
           ++V N   +ISL  AR+ DP ++IG  +   + P +FGR+A  +AKQV  QK++EAERD 
Sbjct: 64  DKVNNIFDEISLTQAREIDPKVNIGETIEIQVDPKNFGRIAALTAKQVWQQKIKEAERDA 123

Query: 130 QYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDV 189
            + EFKD+V  +ISG + R E  N IV LG ++G++ + ET+ ++     +R   Y+  V
Sbjct: 124 VFEEFKDRVFGVISGKILRPEGKNWIVQLGRAEGILPQKETVFQDKYNINERYVFYVLSV 183

Query: 190 RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSID 249
           +++++  +++LSR+HP  + ++F +E  EI +GIV++ +++RDPGSR K+AV S D  +D
Sbjct: 184 KKQKKDVEIILSRSHPNLVKRIFELESAEIRSGIVEIVSIARDPGSRTKIAVLSRDPHVD 243

Query: 250 PVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRI 308
           P+G C+G+R SR+Q V  ELR EKID+++++PD   ++ +AL PA + +V +LD+     
Sbjct: 244 PLGVCLGIRNSRIQNVTKELRGEKIDVILYNPDPKIYIASALSPAKIKRVEILDQVKKES 303

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
            V V K QLSLAIG+  QNVRLA +LTG+ IDI  EE
Sbjct: 304 RVYVDKSQLSLAIGKDAQNVRLAHKLTGYKIDIKIEE 340


>gi|189440604|ref|YP_001955685.1| transcription elongation factor NusA [Bifidobacterium longum
           DJO10A]
 gi|189429039|gb|ACD99187.1| Transcription elongation factor [Bifidobacterium longum DJO10A]
          Length = 355

 Score =  373 bits (959), Expect = e-101,   Method: Composition-based stats.
 Identities = 119/337 (35%), Positives = 196/337 (58%), Gaps = 17/337 (5%)

Query: 13  ADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV-VEE 71
              +A E+ ID + +   +A++++ A           RVE++  +G+ +++   E+ VE 
Sbjct: 8   IHKLAAEQGIDPETLDDALAEALRLAYLKTPHAAKHARVELDERSGNFTVWAADEIPVEP 67

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
            E+              P   +G    D   P DFGR+A  +A+QVI Q  R AE ++ +
Sbjct: 68  TEDNPY-----------PVPKLGEEYDD--TPRDFGRLAAATARQVITQLFRRAEDEKVF 114

Query: 132 LEFKDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDV 189
             F  + G++I+G +++   +  NV V +G+ + ++ R E +  E  R G+R++ Y+ +V
Sbjct: 115 GSFSGQKGKLITGIIQQDASDPSNVHVAMGDVEAILPRREQVPGERYRHGERIRVYVVNV 174

Query: 190 RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSID 249
            R  +GP++++SR+HP+ + KLF  EVPE+ +G V + A++R+ G+R K+AV ++   ++
Sbjct: 175 ARGIKGPEIVVSRSHPELVRKLFEREVPELVSGAVSIMAIAREAGARTKIAVKANTDGVN 234

Query: 250 PVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRI 308
           P GA +G  G+RV+AV+  L  EKIDIV +S D A FV  AL PA+ T V V+ E     
Sbjct: 235 PKGALIGPGGARVRAVMENLGPEKIDIVDYSDDPAKFVAAALSPAVATGVQVISEKNKTA 294

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
              +  +QLSLAIG+ GQN RLA++LTGW I I + E
Sbjct: 295 IAFIHDDQLSLAIGKEGQNARLAAKLTGWKIGIESAE 331


>gi|227546511|ref|ZP_03976560.1| transcription elongation factor [Bifidobacterium longum subsp.
           infantis ATCC 55813]
 gi|312133908|ref|YP_004001247.1| nusa [Bifidobacterium longum subsp. longum BBMN68]
 gi|322689895|ref|YP_004209629.1| transcription elongation factor NusA [Bifidobacterium longum subsp.
           infantis 157F]
 gi|322691836|ref|YP_004221406.1| transcription elongation factor NusA [Bifidobacterium longum subsp.
           longum JCM 1217]
 gi|227213060|gb|EEI80939.1| transcription elongation factor [Bifidobacterium longum subsp.
           infantis ATCC 55813]
 gi|291516439|emb|CBK70055.1| transcription termination factor NusA [Bifidobacterium longum
           subsp. longum F8]
 gi|311773202|gb|ADQ02690.1| NusA [Bifidobacterium longum subsp. longum BBMN68]
 gi|320456692|dbj|BAJ67314.1| transcription elongation factor NusA [Bifidobacterium longum subsp.
           longum JCM 1217]
 gi|320461231|dbj|BAJ71851.1| transcription elongation factor NusA [Bifidobacterium longum subsp.
           infantis 157F]
          Length = 355

 Score =  373 bits (959), Expect = e-101,   Method: Composition-based stats.
 Identities = 119/337 (35%), Positives = 196/337 (58%), Gaps = 17/337 (5%)

Query: 13  ADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV-VEE 71
              +A E+ ID + +   +A++++ A           RVE++  +G+ +++   E+ VE 
Sbjct: 8   IHKLAAEQGIDPETLDDALAEALRLAYLKTPHAAKHARVELDERSGNFTVWAADEIPVEP 67

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
            E+              P   +G    D   P DFGR+A  +A+QVI Q  R AE ++ +
Sbjct: 68  TEDNPY-----------PVPKLGEEYDD--TPRDFGRLAAATARQVITQLFRRAEDEKVF 114

Query: 132 LEFKDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDV 189
             F  + G++I+G +++   +  NV V +G+ + ++ R E +  E  R G+R++ Y+ +V
Sbjct: 115 GAFSGQKGKLITGIIQQDASDPSNVHVAMGDVEAILPRREQVPGERYRHGERIRVYVVNV 174

Query: 190 RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSID 249
            R  +GP++++SR+HP+ + KLF  EVPE+ +G V + A++R+ G+R K+AV ++   ++
Sbjct: 175 ARGIKGPEIVVSRSHPELVRKLFEREVPELVSGAVSIMAIAREAGARTKIAVKANTDGVN 234

Query: 250 PVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRI 308
           P GA +G  G+RV+AV+  L  EKIDIV +S D A FV  AL PA+ T V V+ E     
Sbjct: 235 PKGALIGPGGARVRAVMENLGPEKIDIVDYSDDPAKFVAAALSPAVATGVQVISEKNKTA 294

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
              +  +QLSLAIG+ GQN RLA++LTGW I I + E
Sbjct: 295 IAFIHDDQLSLAIGKEGQNARLAAKLTGWKIGIESAE 331


>gi|89889478|ref|ZP_01200989.1| transcription termination factor NusA [Flavobacteria bacterium
           BBFL7]
 gi|89517751|gb|EAS20407.1| transcription termination factor NusA [Flavobacteria bacterium
           BBFL7]
          Length = 412

 Score =  373 bits (959), Expect = e-101,   Method: Composition-based stats.
 Identities = 129/420 (30%), Positives = 232/420 (55%), Gaps = 12/420 (2%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           ++   L L++       +K IDR  +++++ D  + A +  YG   +  + INP+ GD+ 
Sbjct: 1   MNMENLALIESFSEFKDDKMIDRVTLMAILEDVFRSALKRKYGDDDNFDIIINPDKGDLE 60

Query: 62  LFRLLEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           ++R   VV   EVE+   +I L  AR  +P  ++G  V++ +  +  GR A+ + +Q +I
Sbjct: 61  IWRNRVVVADGEVEDDNSEIELTAARKIEPDYEVGEDVAEEVKLIQLGRRAILALRQNLI 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRP 178
            K+ E +    Y +FK+  GE+ S  V  + +  +I+ D   ++ ++ +D  I  +  R 
Sbjct: 121 AKIHEHDNTNIYKQFKELEGELYSAEVHHIRHRAIILLDDEGNEIIMPKDRQIGSDFFRK 180

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           G+ V+  I  V      P ++LSRT P+F+ KLF  E+PE+++G++ VKAV R+PG +AK
Sbjct: 181 GENVRGIIESVELRGNKPNIILSRTSPKFLEKLFEQEIPEVFDGLITVKAVVREPGEKAK 240

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D  IDPVGACVG++GSR+  +V EL +E ID++ ++ ++  ++  AL PA +  
Sbjct: 241 VAVDSYDDRIDPVGACVGVKGSRIHGIVRELGNENIDVINYTSNTQLYIARALSPAKIIS 300

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNER 358
           + ++E+  + EV +  E++S AIGRRG N+RLA +LTG+ ID+I +  +      +F++ 
Sbjct: 301 MEINEETKKAEVRLNPEEVSKAIGRRGHNIRLAGKLTGYDIDVIRDGAEEDVELTEFSD- 359

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
                    ++  I       G    + +    I+++      +EET + +    +   E
Sbjct: 360 --------EIEPWIIEEFSKIGLDTAKSILEQDIADLVKRTDLEEETVIAVVTILKSEFE 411


>gi|169334799|ref|ZP_02861992.1| hypothetical protein ANASTE_01205 [Anaerofustis stercorihominis DSM
           17244]
 gi|169257537|gb|EDS71503.1| hypothetical protein ANASTE_01205 [Anaerofustis stercorihominis DSM
           17244]
          Length = 394

 Score =  373 bits (958), Expect = e-101,   Method: Composition-based stats.
 Identities = 138/365 (37%), Positives = 216/365 (59%), Gaps = 21/365 (5%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
            + ++  D +   K ID++ ++  +  ++  A +    T  D+ V IN  +G I  F   
Sbjct: 14  KDFIEALDEINKTKGIDKEEIIVAVEQALVAAYKKDTRTNVDLVVNINRVSGAIDAFYSK 73

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           ++VEEVE+   +ISL  A   D S  +G  +   + P  FGR+A Q+AKQ+IIQK++E+E
Sbjct: 74  QIVEEVEDEDREISLHEALVLDKSAVLGASMVTHIDPKGFGRIATQNAKQLIIQKLKESE 133

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGN----------------VIVDLGNSDGVIRRDET 170
           R+     F  K  E+++G ++R EY                  + +DLG ++G++     
Sbjct: 134 RNIISNTFMKKKDEMVTGVIQREEYKEMRKMVHGEPIKEQNRIIHIDLGKAEGIMNSQNQ 193

Query: 171 ISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVS 230
           +  E+  PG R+K Y+ DV    +GPQ++LSRTHP  + +LF  EV EI +GIV++K++S
Sbjct: 194 VRSEHYHPGMRLKVYVSDVILTPKGPQIILSRTHPGLIRRLFEEEVAEISDGIVEIKSIS 253

Query: 231 RDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA 290
           R+ GSR+K+AV+++D  IDPVG C+G +G R+Q V+ E+ DEKIDI+ +S D   ++ NA
Sbjct: 254 REAGSRSKMAVYTADDQIDPVGTCIGPKGFRIQNVLNEIGDEKIDIIKYSEDPVEYIKNA 313

Query: 291 LRPAIVTKVVL-----DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           L PA V +V +     ++      V+V   QLSLAIG+ GQNVRLA++LTGW IDI ++ 
Sbjct: 314 LAPADVLRVDILQTEEEDGKNSAAVVVDDSQLSLAIGKDGQNVRLAARLTGWKIDIKSKS 373

Query: 346 EDSIN 350
                
Sbjct: 374 SVQEE 378


>gi|210634027|ref|ZP_03297945.1| hypothetical protein COLSTE_01863 [Collinsella stercoris DSM 13279]
 gi|210158971|gb|EEA89942.1| hypothetical protein COLSTE_01863 [Collinsella stercoris DSM 13279]
          Length = 427

 Score =  372 bits (957), Expect = e-101,   Method: Composition-based stats.
 Identities = 135/395 (34%), Positives = 213/395 (53%), Gaps = 39/395 (9%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M  A+   +++    +  EK ID+  +L  +  ++ +    +       +V I+  +G I
Sbjct: 1   MADADMT-MMEALMLLCQEKHIDQLYLLDRLEAALAETYAKVLKLDWGAKVTIDRASGKI 59

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            ++RL    E +++             D   +        + P D  R+A Q+AK  I  
Sbjct: 60  YVYRL----EPIDDS-----------MDEEGNFTEYEEIDVTPKDVSRLAAQTAKAEINA 104

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIR----------RDE 169
            VR A R++ Y EF  +VG++I+GTV +      IV +    +  +           R+E
Sbjct: 105 IVRNAAREQIYEEFSGRVGDLINGTVLQSTPDFTIVKIRDGVEAELPHFDQRRYPDERNE 164

Query: 170 TISRENLRPGDRVKSYIYDVRREQ------RG----PQVLLSRTHPQFMVKLFHMEVPEI 219
             + E       +K+ I DVR         RG    P +++SRTH + M +LF  EVPE+
Sbjct: 165 RPNGERYLHNQHLKAVIVDVRDPNSTLPPVRGEHSRPPIVISRTHAELMRRLFEQEVPEV 224

Query: 220 YNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVW 279
           Y G V++K+++R+PG R+K+AV S D  +DPVGACVG +GSRV+AVV ELR E++D+++W
Sbjct: 225 YEGTVELKSIAREPGMRSKVAVHSLDDRLDPVGACVGPKGSRVRAVVGELRGERVDVILW 284

Query: 280 SPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
             D A +V NAL PA VT+V++D +     VIVP +QLSLAIG+ GQN RLA++LTGW I
Sbjct: 285 DEDPAVYVANALSPAKVTRVLIDPEKNYAGVIVPDDQLSLAIGKEGQNARLAARLTGWHI 344

Query: 340 DIITEEEDSINRQKDFNERTQFFMQAINVDEIIAH 374
           DI +E   + +  K+     +  ++ + +DE  A 
Sbjct: 345 DIKSET-LAADILKNVPLAPEPAVEDL-LDEDTAD 377


>gi|300774925|ref|ZP_07084788.1| transcription termination factor NusA [Chryseobacterium gleum ATCC
           35910]
 gi|300506740|gb|EFK37875.1| transcription termination factor NusA [Chryseobacterium gleum ATCC
           35910]
          Length = 411

 Score =  372 bits (957), Expect = e-101,   Method: Composition-based stats.
 Identities = 126/418 (30%), Positives = 230/418 (55%), Gaps = 13/418 (3%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           + + L++       EK I +  +++++ DS++   R  + +     V +NP+ GD  +F 
Sbjct: 2   DNIALIESFGDFKDEKGISKIDLMAIIEDSLKTLLRKRFDSDDHFDVIVNPDKGDFQIFL 61

Query: 65  LLEVVEEV--ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              +VE+   E+   +I +  A+  DP+ ++G   +  +P    GR  + + KQ++  K+
Sbjct: 62  NKTIVEDEMSEDDDLEIEISEAKKIDPTFEVGEDFTMEIPVAQLGRRNILTLKQILATKL 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDR 181
           +E      Y +F+DK+GEI+ G +  + + +VI+ D   ++ ++ ++  I  +  + G+ 
Sbjct: 122 QEHNNAMLYEQFRDKIGEIVVGEIHHIRHKHVILLDDEGNEFILPKENQIPSDFFKKGEN 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++ +  V  +   PQ+++SRT P+F+ KL  +E+PEI +G + +K V R PG +AK+AV
Sbjct: 182 IRAIVETVDFKGSKPQIIISRTAPKFLEKLLELEIPEIQDGTIILKKVVRIPGEKAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            + D  IDPVGACVG++GSR+  VV ELR+E ID++ WS +    V  AL    + K+ +
Sbjct: 242 DAYDDRIDPVGACVGVKGSRIHGVVRELRNENIDVIQWSKNPEILVKRALGNVTINKIEI 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE-EEDSINRQKDFNERTQ 360
           +E+     V  P E++S  IG++GQN+RLAS LTG+ ID+  E  ED     K+FN+   
Sbjct: 302 NEETNYALVYTPVEEISKVIGKQGQNIRLASWLTGYEIDVYRESSEDDDVELKEFND--- 358

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
                 ++++ I       G    + +   +   + ++   +EET  E++   RE  E
Sbjct: 359 ------DIEQWILDEFKKVGLTTAKSVLDKETESLLNMVDLEEETIEEVKRILREEFE 410


>gi|42526617|ref|NP_971715.1| transcription elongation factor NusA [Treponema denticola ATCC
           35405]
 gi|41816810|gb|AAS11596.1| N utilization substance protein A, putative [Treponema denticola
           ATCC 35405]
          Length = 495

 Score =  372 bits (957), Expect = e-101,   Method: Composition-based stats.
 Identities = 149/487 (30%), Positives = 244/487 (50%), Gaps = 39/487 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +++     A EK ID D VL ++  +++ + +  +GT ++     N ETG   ++    +
Sbjct: 5   IIEAIREFAQEKGIDDDFVLHIVEQALKASYKKQFGTDANAV--FNEETG--KIYSKKII 60

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
            E+ +N    ISL+ A+   PS + G  +   + P   G  +V+   Q  IQ +RE ++D
Sbjct: 61  TEDAKNPVFDISLEEAKKLAPSCEAGDELLVEVDPKSLGINSVKVGMQRAIQCIREMQKD 120

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPG------DRV 182
             Y E+  KVGEII G   R   GN+ VDLG  +G++ +      ++           R+
Sbjct: 121 TLYAEYSTKVGEIIIGYYHRERNGNIYVDLGKVEGLLPKKYQCPGDHFGRNAAAGEESRI 180

Query: 183 KSYIYDVR--REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           K+ + +V+  R+    Q++LSRT  +F+ ++  +EVPEI +GIV++  + R+PG R K+A
Sbjct: 181 KALVREVKKHRQSNVVQLILSRTDAEFVRQILEVEVPEIESGIVKIHNIVREPGYRTKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
           V +    IDPVGACVG +G+R+QAV+ EL DEKIDI+ +S D   ++ +AL PA V  V 
Sbjct: 241 VSTDRDDIDPVGACVGAKGARIQAVIAELDDEKIDILPYSEDPKAYIKSALSPAEVMDVM 300

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE------------- 346
           +LD +  +   IV   QLSLAIG+ G NVRLA++L  W ID+ TEE+             
Sbjct: 301 ILDAEKRKALAIVSDSQLSLAIGKHGLNVRLANRLVDWNIDVKTEEQFKQMDIYTDARKA 360

Query: 347 ------DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEG 400
                 D  + + +  E      +   + E I  +L      D+++L  ++  EI ++EG
Sbjct: 361 VENLFTDETSDEDEEYEEISNVAELPGITEDILTVLRNNEIEDIQDLINMEDDEIRALEG 420

Query: 401 FDEETAVEIQGRAREYLEGIDITLQKKIRELGV-SEELCSIPGIDSKIKVALGENGIKTM 459
              E A  +       +E ++    +   E    S++   +            E G K  
Sbjct: 421 LTTEMADTLLDIIANAVEVVEDDGDESDEESEPVSDDEGEVEE------FECPECGHKIT 474

Query: 460 EDLAGCS 466
            D+  C 
Sbjct: 475 TDMTKCP 481


>gi|23466164|ref|NP_696767.1| transcription elongation factor NusA [Bifidobacterium longum
           NCC2705]
 gi|317482183|ref|ZP_07941206.1| transcription termination factor NusA [Bifidobacterium sp.
           12_1_47BFAA]
 gi|23326902|gb|AAN25403.1| N utilization substance homolog [Bifidobacterium longum NCC2705]
 gi|316916417|gb|EFV37816.1| transcription termination factor NusA [Bifidobacterium sp.
           12_1_47BFAA]
          Length = 355

 Score =  372 bits (957), Expect = e-101,   Method: Composition-based stats.
 Identities = 119/337 (35%), Positives = 195/337 (57%), Gaps = 17/337 (5%)

Query: 13  ADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV-VEE 71
              +A E+ ID   +   +A++++ A           RVE++  +G+ +++   E+ VE 
Sbjct: 8   IHKLAAEQGIDPGTLDDALAEALRLAYLKTPHAARHARVELDERSGNFTVWAADEIPVEP 67

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
            E+              P   +G    D   P DFGR+A  +A+QVI Q  R AE ++ +
Sbjct: 68  TEDNPY-----------PVPKLGEEYDD--TPRDFGRLAAATARQVITQLFRRAEDEKVF 114

Query: 132 LEFKDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDV 189
             F  + G++I+G +++   +  NV V +G+ + ++ R E +  E  R G+R++ Y+ +V
Sbjct: 115 GAFSGQKGKLITGIIQQDASDPSNVHVAMGDVEAILPRREQVPGERYRHGERIRVYVVNV 174

Query: 190 RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSID 249
            R  +GP++++SR+HP+ + KLF  EVPE+ +G V + A++R+ G+R K+AV ++   ++
Sbjct: 175 ARGIKGPEIVVSRSHPELVRKLFEREVPELVSGAVSIMAIAREAGARTKIAVKANTDGVN 234

Query: 250 PVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRI 308
           P GA +G  G+RV+AV+  L  EKIDIV +S D A FV  AL PA+ T V V+ E     
Sbjct: 235 PKGALIGPGGARVRAVMENLGPEKIDIVDYSDDPAKFVAAALSPAVATGVQVISEKNKTA 294

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
              +  +QLSLAIG+ GQN RLA++LTGW I I + E
Sbjct: 295 IAFIHDDQLSLAIGKEGQNARLAAKLTGWKIGIESAE 331


>gi|86140762|ref|ZP_01059321.1| transcription elongation factor NusA [Leeuwenhoekiella blandensis
           MED217]
 gi|85832704|gb|EAQ51153.1| transcription elongation factor NusA [Leeuwenhoekiella blandensis
           MED217]
          Length = 409

 Score =  372 bits (957), Expect = e-101,   Method: Composition-based stats.
 Identities = 128/416 (30%), Positives = 231/416 (55%), Gaps = 12/416 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            + L++       +K IDR ++++++ +  +   +  +G+  +  + INP+ GD+ ++R 
Sbjct: 3   NIALIESFSEFKDDKLIDRVMLMAILEEVFRSTLKKRFGSDDNFDIIINPDKGDLEIWRN 62

Query: 66  LEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV   EVE+   +ISL  AR  +P  ++G  VS+ +  +D GR ++ + +Q +I K+ 
Sbjct: 63  RVVVADGEVEDENSEISLTEARRIEPDFEVGEDVSEEVKLIDLGRRSILALRQNLISKIH 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRV 182
           E +    Y +FKD  GE+ +  V  + +  +I+ D   ++ ++ +D+ I  +  R G+ V
Sbjct: 123 EHDNTNIYKQFKDLEGELYNAEVHHIRHRAIILLDDEGNEIIMPKDKQIPSDFFRKGENV 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  I  V  +   P +++SRT P F+ KLF  E+PE+++G++ VK V R PG +AK+AV 
Sbjct: 183 RGIIESVELKGNKPAIIMSRTSPLFLEKLFESEIPEVFDGLITVKKVVRIPGEKAKVAVD 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDPVGACVGM+GSR+  +V EL +E ID++ ++ +   ++  AL PA +T + +D
Sbjct: 243 SYDDRIDPVGACVGMKGSRIHGIVRELGNENIDVINFTNNLQLYITRALSPAKITSIKID 302

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           ++    EV++  E++S AIGR G N+RLA QLTG+ ID+  E  +      +F++     
Sbjct: 303 DENKTAEVMLKPEEVSKAIGRGGHNIRLAGQLTGYEIDVYREGVEEDVELTEFSD----- 357

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
                +++ I       G    + +    + ++      +EET  ++    RE  E
Sbjct: 358 ----EIEDWIIAEFSKIGLDTAKSILEQDVEDLVRRTDLEEETIADVMRILREEFE 409


>gi|119025371|ref|YP_909216.1| transcription elongation factor NusA [Bifidobacterium adolescentis
           ATCC 15703]
 gi|154486780|ref|ZP_02028187.1| hypothetical protein BIFADO_00606 [Bifidobacterium adolescentis
           L2-32]
 gi|118764955|dbj|BAF39134.1| N utilization substance homolog [Bifidobacterium adolescentis ATCC
           15703]
 gi|154084643|gb|EDN83688.1| hypothetical protein BIFADO_00606 [Bifidobacterium adolescentis
           L2-32]
          Length = 350

 Score =  372 bits (956), Expect = e-101,   Method: Composition-based stats.
 Identities = 119/346 (34%), Positives = 198/346 (57%), Gaps = 15/346 (4%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
            +A  + ID + + + ++++++ A           RVE++P  G  +++   E+  E   
Sbjct: 10  QLAAGQGIDPETLDAALSEALRLAYLKTPHAAKHARVELDPRAGSFTVWAQDEIPGEPTE 69

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                      D  P+  +G    D   P DFGR+A  +A+QVI Q  R+AE D+ +  F
Sbjct: 70  D----------DPHPAPTLGEEYDD--TPHDFGRLAAATARQVISQLFRKAEDDKVFGAF 117

Query: 135 KDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
             + G++I+G V++   +  NV V +G+ + ++ R E +  E  R G+R++ Y+ +V R 
Sbjct: 118 SGQKGKLITGIVQQDVKDTSNVHVAVGDVEALLPRREQVPGERYRHGERIRVYVVNVARG 177

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            +GP++++SR+HP+ + +LF  EVPE+ +G V + A++R+ G+R K+AV ++   ++P G
Sbjct: 178 LKGPEIVVSRSHPELVRRLFEREVPELVSGAVSIMAIAREAGARTKIAVRANTEGVNPKG 237

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVI 311
           A +G  G+RV+AV+  L  EKIDIV WS D A FV  AL PA+ T V V+ E        
Sbjct: 238 ALIGPGGARVRAVMENLGPEKIDIVDWSADPAKFVAAALSPAVATGVQVISEKNKTAIAF 297

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +  +QLSLAIG+ GQN RLA++LTGW I I + E  +    +  + 
Sbjct: 298 IHDDQLSLAIGKEGQNARLAAKLTGWKIGIESAEAHAKKMAESADH 343


>gi|281414299|ref|ZP_06246041.1| transcription termination factor NusA [Micrococcus luteus NCTC
           2665]
 gi|289705159|ref|ZP_06501562.1| transcription termination factor NusA [Micrococcus luteus SK58]
 gi|289558103|gb|EFD51391.1| transcription termination factor NusA [Micrococcus luteus SK58]
          Length = 328

 Score =  372 bits (956), Expect = e-101,   Method: Composition-based stats.
 Identities = 124/334 (37%), Positives = 188/334 (56%), Gaps = 24/334 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  E+ I  D ++  +  ++  A     G +   RVEI+  TG ++++      
Sbjct: 5   MSALRMLEAEREIPMDRLIPTIEQALLMAYHRTPGALKRARVEIDRATGHVTVW------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A + D      G   D   P  FGRVA  +A+QV+IQ++RE + D+
Sbjct: 59  --------------ATELDEDDTPIGEFDD--TPNGFGRVAASTARQVMIQRMREEDDDK 102

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              EFKDK GE++SG +++ +    V V+LG  + V+   E +  E+   G R+++Y+  
Sbjct: 103 VLGEFKDKEGELVSGVIQQGLNRHMVQVNLGTLEAVLPPPEQVPGEDYAHGRRIRAYVVS 162

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
             R  +GP V +SR+HP  + KLF +EVPEI +G V++ A++R+ G R K+AV ++   +
Sbjct: 163 ATRGAKGPSVTVSRSHPGLVRKLFELEVPEIADGSVEITALAREAGHRTKMAVRATRPGV 222

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GA +G  GSRV+AV+TEL DEKIDI+    D A  + NAL PA    V +LD D   
Sbjct: 223 NAKGASIGEMGSRVRAVMTELNDEKIDIIDHVDDPAAMIANALSPATTVSVEILDADQHS 282

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
              +VP+ QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 283 ARAVVPQYQLSLAIGKEGQNARLAAKLTGWRIDI 316


>gi|325971224|ref|YP_004247415.1| NusA antitermination factor [Spirochaeta sp. Buddy]
 gi|324026462|gb|ADY13221.1| NusA antitermination factor [Spirochaeta sp. Buddy]
          Length = 497

 Score =  372 bits (956), Expect = e-101,   Method: Composition-based stats.
 Identities = 142/500 (28%), Positives = 255/500 (51%), Gaps = 46/500 (9%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+     ++  EK+I  ++V+S + D ++ A +  +GT  +  +E + +   + L    +
Sbjct: 4   EIGDAIRSMVAEKNISEELVISTIEDILRAAYKRKFGTDENAVIEFSEDFLSVELASRRK 63

Query: 68  VVEEV--ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           +V++    N   +I L  A++     +IG  +  P+   DF R++VQSAKQ   Q  R+ 
Sbjct: 64  IVDDDNWYNEVTEIPLSEAKEIHEDCEIGDELLIPVDLKDFDRISVQSAKQRAHQSFRDI 123

Query: 126 ERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           ++D  Y E+K K G++I G  +R    G++ VD+G ++G++ R    SRE+    D++K 
Sbjct: 124 QKDTLYSEYKAKEGQLIIGYYRRQLPNGDIYVDIGTTEGLLPRRNQSSRESYGSNDKIKC 183

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+  V + +RG +V+LSRT P  + KLF +EVPEI    + +  + R+ G R K+AV S 
Sbjct: 184 YVEKVEKAERGLRVVLSRTSPDLIRKLFEVEVPEIAQNQIDIIKIVREAGYRTKVAVASR 243

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DE 303
           +  IDPVGACVG++G+R+Q +++E+  EKIDI+ +  +   ++ NAL PA V  VV+ D+
Sbjct: 244 NDDIDPVGACVGLKGNRIQTIMSEIEGEKIDILRYDTNPVNYIRNALSPAQVKDVVVLDK 303

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE-DSINRQKDFNERTQFF 362
           ++     IV   QLSLAIG++G NVRLA++L  W ID+ T+ + D ++  K+   + + F
Sbjct: 304 NIYHAVAIVEDTQLSLAIGKQGLNVRLANKLVDWMIDVKTQSQFDEMDIAKEARFKAESF 363

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
                             F   E +    + ++                      E  ++
Sbjct: 364 ------------------FGTGEPVFEEALPQL--------------------EFENTEV 385

Query: 423 TLQKKIRELGVSEE--LCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            ++ ++      +E  L  +P +DS +   L  + + ++E+    S +DL G+ +     
Sbjct: 386 AVESEVETFVDEDEIALSELP-LDSMLLKKLQFHDVYSVEEFINLSDEDLTGFGDLSEEE 444

Query: 481 IEKFDGFLSSLGTPKDQVES 500
           I      ++      +  E 
Sbjct: 445 IIAIKDTINEYVDIVEDEED 464


>gi|294786395|ref|ZP_06751649.1| transcription termination factor NusA [Parascardovia denticolens
           F0305]
 gi|294485228|gb|EFG32862.1| transcription termination factor NusA [Parascardovia denticolens
           F0305]
          Length = 372

 Score =  372 bits (956), Expect = e-101,   Method: Composition-based stats.
 Identities = 119/351 (33%), Positives = 196/351 (55%), Gaps = 15/351 (4%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +A E+ ID + + + ++++++ A           RVE++   G  +++   E+ 
Sbjct: 5   IAAMHKLAAEQGIDAERLDAALSEALRLAYLKNPHAAKHARVELDERAGSFTVWAQDEIP 64

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
           +E            A D  P   +G    D   P DFGR A   A+QVI    R+A  D+
Sbjct: 65  QEPT----------AEDPHPRPALGEEYDD--TPEDFGRQAAYIARQVITALFRKAADDK 112

Query: 130 QYLEFKDKVGEIISGTVKRV--EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
            +  F  + G++I+G V++   + GN+ + +G+ + ++ R E +  E  R G R++ Y+ 
Sbjct: 113 IFGAFAGQKGKLITGVVQQDSGDRGNLHIAVGDVEAILPRREQVPGERFRHGQRIRVYVV 172

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V R  +GP++++SR+HP+ + +LF  EVPE+ +G VQ+ +++R+ G R K+AV ++   
Sbjct: 173 SVNRGLKGPEIIVSRSHPELIRRLFEREVPELASGAVQIMSIAREAGERTKIAVRANAQG 232

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVG 306
           ++P GA +G  G RV+AV+  L DEKIDIV WS D A FV  AL PA   KV V+ E   
Sbjct: 233 VNPKGALIGPAGQRVRAVMENLGDEKIDIVDWSEDPAKFVGAALSPAHAVKVTVVSEKNK 292

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
               ++  +Q+SLAIG+ GQN RLA++LTGW I I + E+    + K   E
Sbjct: 293 TTLALIHDDQMSLAIGKEGQNARLAAKLTGWKIAIDSYEKSKAEQAKKAQE 343


>gi|238916823|ref|YP_002930340.1| N utilization substance protein A [Eubacterium eligens ATCC 27750]
 gi|238872183|gb|ACR71893.1| N utilization substance protein A [Eubacterium eligens ATCC 27750]
          Length = 381

 Score =  372 bits (956), Expect = e-101,   Method: Composition-based stats.
 Identities = 138/380 (36%), Positives = 230/380 (60%), Gaps = 14/380 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL+   DA+  E  ID++++ + +  S+    ++ +    + RVE++  TGD  ++  
Sbjct: 2   NKELIMALDALEKENGIDKEIMFAAIEKSLMDEYKAEFDKADNGRVELDRRTGDFHIYSD 61

Query: 66  LEVVEEVENYT------------CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQS 113
             VVEEV                  I+L+ AR   P   +G V++  +   +F R A ++
Sbjct: 62  RTVVEEVIVPENRENKKEKYVSGTDIALEDARKIKPDCQLGDVITVEVKSEEFSRKAAKN 121

Query: 114 AKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETIS 172
           AK  I+Q +RE E++  Y E+  K  E+I+G V+RV + G++ +DLG    V++ D+   
Sbjct: 122 AKNTIVQTIREQEKNALYNEYHSKEKELITGIVQRVADNGDLTIDLGRLQTVLKADDKFK 181

Query: 173 RENLRPGDRVKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSR 231
            +   PGDR+K Y+ DV  RE+ GP V +SR   + + KLF  EV EI +G+V++  ++R
Sbjct: 182 DKKFVPGDRIKLYVVDVINREKGGPVVRVSRKSQELVKKLFEEEVTEIKDGVVEIMGIAR 241

Query: 232 DPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINAL 291
           + GSR K+AV ++ +++DPVGACVG+ G+RV+A+V EL +E+IDI+ W  +SA  ++NAL
Sbjct: 242 EAGSRTKMAVRANVANVDPVGACVGINGARVKAIVNELGNEQIDIIEWDSNSAQLIVNAL 301

Query: 292 RPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINR 351
            PA V   V D++  + +++V ++QLSLAIG++GQNVRLA++LTG+ IDI +E E   + 
Sbjct: 302 SPAKVVSAVADDEEKKAKIVVSEQQLSLAIGKQGQNVRLAAKLTGYGIDIKSEAEPEEHT 361

Query: 352 QKDFNERTQFFMQAINVDEI 371
           +++  E        +++DE 
Sbjct: 362 EEENLEEEYVEPSELSLDEE 381


>gi|228470366|ref|ZP_04055269.1| transcription termination factor NusA [Porphyromonas uenonis 60-3]
 gi|228307948|gb|EEK16831.1| transcription termination factor NusA [Porphyromonas uenonis 60-3]
          Length = 459

 Score =  372 bits (956), Expect = e-101,   Method: Composition-based stats.
 Identities = 136/455 (29%), Positives = 241/455 (52%), Gaps = 28/455 (6%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYTC 77
           K+ID + +L V+ DS +     ++G+  +  V IN ++GD  ++R  EVV +  VE    
Sbjct: 21  KNIDEETMLHVLEDSFRSILAKMFGSDDNFDVIINADSGDFEIWRTREVVADDAVERENE 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           Q++   AR+ DP  +IG  V+D +  + FGR A+ + +Q +  K+ + +++  Y  F ++
Sbjct: 81  QVAYSEAREIDPEAEIGDDVTDSVDFLSFGRRAIVNLRQTLSSKILDLQKEHFYQTFIER 140

Query: 138 VGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VGE+I+  V +V     ++VD   ++ ++ + E I  E  R GD V + I  V  E   P
Sbjct: 141 VGEMITAEVYQVWKRETLLVDEDGNELIMPKSEQIPDEYFRKGDSVHAVIARVDNENNNP 200

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +V LSRT P+F+ +LF + VPEI +G++ +K V+R PG RAK+AV S D  IDPVG+CVG
Sbjct: 201 RVTLSRTSPEFLKRLFEINVPEIADGLITIKRVARIPGVRAKIAVESYDDRIDPVGSCVG 260

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           M GSR++ +V EL  E ID++ ++ + + F+  AL PA V+ + L  +  + EV +  E 
Sbjct: 261 MNGSRIRGIVRELHGENIDVLTYTSNDSLFIQRALSPAKVSSIELYPETAKAEVYLQPED 320

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLL 376
           + LAIG+   N++LAS LTG+ I++  +  D+     + +     F     +++ +  +L
Sbjct: 321 VPLAIGKNASNIKLASVLTGFEIEVFRDAADT----TEEDIYLSEFSD--EIEDWVIKML 374

Query: 377 VAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE 436
           +  G      +     +E+      + ET   +                  +R L    +
Sbjct: 375 LDIGLNTARAVLTTSRTELLQKTDLEIETIDHV------------------LRILSSEFD 416

Query: 437 LCSIPGID-SKIKVALGENGIKTMEDLAGCSVDDL 470
           L  +  +   +  + L ++ + T  ++A   ++DL
Sbjct: 417 LEELEEMGLPQENIDLIKSPVPTQSEIAEAIIEDL 451


>gi|269215361|ref|ZP_06159215.1| transcription termination factor NusA [Slackia exigua ATCC 700122]
 gi|269131217|gb|EEZ62291.1| transcription termination factor NusA [Slackia exigua ATCC 700122]
          Length = 395

 Score =  372 bits (955), Expect = e-101,   Method: Composition-based stats.
 Identities = 133/365 (36%), Positives = 206/365 (56%), Gaps = 36/365 (9%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+A+E+ ID   ++  +  S+ K+ +++     + RV I+  TG I ++ L+ V 
Sbjct: 1   MDALQALAHERKIDEFYLIERLEASLAKSYQNILDLEWEARVTIDRSTGRIYVYELVPVG 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
           E       +           + +        + P +  R A Q+AK VI   VREA R  
Sbjct: 61  E----PDPE-----------TGEYADFEEKDVTPANVSRTAAQNAKSVIAAIVREAGRQS 105

Query: 130 QYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIR-------RDET--IS-RENLRP 178
            Y EF+D+V +I+ GTV +      I+ +    +  +         DE   +   E  R 
Sbjct: 106 IYEEFRDRVDDIVGGTVLQTTPDFTIIKIREGVEAELPHYDLKRFPDEQNEVPAGERYRH 165

Query: 179 GDRVKSYIYDVR------REQRG----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKA 228
             R+K+ I +VR         RG    P +++SRTHP  + +LF +EVPEIY+G+V++K+
Sbjct: 166 NQRIKTVIIEVRDPRSMEPRARGEQTRPSIVVSRTHPSLIRRLFEIEVPEIYDGVVEIKS 225

Query: 229 VSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVI 288
           ++R+ G+R+K+AV S +S++DPVGACVG +GSRV+ VV ELR+E++D++ WS D A +V 
Sbjct: 226 IAREAGARSKVAVASRESNLDPVGACVGPKGSRVRMVVEELRNERVDVIQWSDDPAKYVA 285

Query: 289 NALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           NAL PA VT+V +DED     V+VP +QLSLAIG+ GQN RLA++LTGW IDI +     
Sbjct: 286 NALSPARVTRVTIDEDKQYATVVVPDDQLSLAIGKEGQNARLAARLTGWHIDIKSSSYAG 345

Query: 349 INRQK 353
               +
Sbjct: 346 QMVPE 350


>gi|315604477|ref|ZP_07879542.1| transcription termination factor NusA [Actinomyces sp. oral taxon
           180 str. F0310]
 gi|315313804|gb|EFU61856.1| transcription termination factor NusA [Actinomyces sp. oral taxon
           180 str. F0310]
          Length = 342

 Score =  372 bits (955), Expect = e-100,   Method: Composition-based stats.
 Identities = 126/344 (36%), Positives = 203/344 (59%), Gaps = 26/344 (7%)

Query: 7   LEL-LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
           +E+ +     V  EK +  + ++  + +++ KA  +L G +S  R+EI+ +TG +++   
Sbjct: 1   MEIDMTALRMVENEKGVSLETLVDAIEEALLKAYHNLPGAISQARIEIDKKTGRVTV--- 57

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
                        +++    D +P  +          P +FGR+A  +A+ VI+Q++R+A
Sbjct: 58  -------------MAMDEDEDGNPIGEFDD------TPKNFGRIAQATARSVIMQRLRDA 98

Query: 126 ERDRQYLEFKDKVGEIISGTVK--RVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           +  R + +F  + G++I+GTV+  R     ++    + + V+   E  + E  R GDR++
Sbjct: 99  DDQRVFGDFAGREGQVITGTVQAPRPGRPTMVQVSDDFEAVLPDGEKTAGETYRHGDRIR 158

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           +YI  V R +RGP++ LSRTHP  +  LF  EVPEI  G+V++KA++R+ G R K+AV +
Sbjct: 159 AYIVGVERTERGPRITLSRTHPNLVAGLFQREVPEIQQGLVKIKAIAREAGHRTKIAVVA 218

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           +   I+  GAC+G  G+RV++V+ EL  EKIDIV +S D A FV N+L PA VT+VV+  
Sbjct: 219 TRDGINAKGACIGPMGARVRSVMAELGGEKIDIVDYSDDPARFVANSLSPARVTRVVVHS 278

Query: 304 -DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            D      IVP  QLSLAIG+ GQN RLA++LTG+ IDI  + E
Sbjct: 279 VDNRTATAIVPDFQLSLAIGKEGQNARLAARLTGFHIDIHADTE 322


>gi|183220911|ref|YP_001838907.1| transcription elongation factor NusA [Leptospira biflexa serovar
           Patoc strain 'Patoc 1 (Paris)']
 gi|189911007|ref|YP_001962562.1| transcription elongation factor NusA [Leptospira biflexa serovar
           Patoc strain 'Patoc 1 (Ames)']
 gi|167775683|gb|ABZ93984.1| Transcription elongation factor [Leptospira biflexa serovar Patoc
           strain 'Patoc 1 (Ames)']
 gi|167779333|gb|ABZ97631.1| N utilization substance protein A [Leptospira biflexa serovar Patoc
           strain 'Patoc 1 (Paris)']
          Length = 466

 Score =  372 bits (955), Expect = e-100,   Method: Composition-based stats.
 Identities = 152/454 (33%), Positives = 236/454 (51%), Gaps = 40/454 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD----IRVEI-NPETGDISLF 63
           L +       +KS+DR++VL V+ DS+  A R   G  ++     +VE  +    +I + 
Sbjct: 12  LFEAIQQFCQDKSLDRELVLGVIRDSLLAAYRKKVGLEAETDDRCQVEFGSDNKNEIIIS 71

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
            L +VV E      ++SL+ A+  DP I++G  +     P D  RV    AKQ++ Q++R
Sbjct: 72  VLRDVVAEKTINPLEVSLEDAQKIDPKIEVGSQIRVFEKPQDLSRVLSSQAKQMVFQRLR 131

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           + E++  Y E+K K GE+  G  +R +   + +DLG  +G++ + +    E  R GDR+K
Sbjct: 132 DMEKELLYQEYKSKEGELTHGYFQRWKKDIMSIDLGKVEGIMLKKDQNPGEKYRQGDRLK 191

Query: 184 SYIYDVRREQRGPQ--VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           + I  V    R P   + LSR    F+ KLF ME+PE+Y+GIV+++ V+R P  R K+ V
Sbjct: 192 AIISRVELRPREPMPVITLSRASGDFVKKLFEMEIPEVYDGIVEIRDVARIPSYRTKVVV 251

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            +S S +DPVGACVGM+G R+QA+V EL +E+IDIV+ S + + F+ NA+ PA   +V +
Sbjct: 252 TTSKSDVDPVGACVGMKGVRIQAIVRELGNERIDIVLHSDEPSIFIANAISPAKPVEVHV 311

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI------------ 349
           D   G   VIVP E LSLAIG  G NV+L SQL+G+ IDI T  + +             
Sbjct: 312 DRKRGDALVIVPDESLSLAIGINGSNVKLVSQLSGFKIDIKTVSQYNQELASPEAREKLD 371

Query: 350 ---------------------NRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELA 388
                                  +++ +       +   +   I  LL A G  +VE L 
Sbjct: 372 RLFNAQQEAMEESEDGYNQSGQDEEEEDSGFTPLSEIPGLTPRIVGLLEAGGIKNVETLL 431

Query: 389 CVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
                E++ I G  + TA +I    RE +E ++ 
Sbjct: 432 EFSQEELSKISGIGKTTAEQILRLLRESIEWVEE 465


>gi|320094043|ref|ZP_08025865.1| transcription termination factor NusA [Actinomyces sp. oral taxon
           178 str. F0338]
 gi|319979022|gb|EFW10543.1| transcription termination factor NusA [Actinomyces sp. oral taxon
           178 str. F0338]
          Length = 342

 Score =  372 bits (955), Expect = e-100,   Method: Composition-based stats.
 Identities = 128/340 (37%), Positives = 205/340 (60%), Gaps = 25/340 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     V  EK +  D ++  + +++ KA  ++ G +S+ R+EI+ +TG +++      V
Sbjct: 5   MTALRMVETEKGVSLDTLVDAIEEALLKAYHNIPGAISEARIEIDKKTGRVTVMA----V 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
           +E E+             +P  +          P +FGR+A  +A+ VI+ ++R+A+  R
Sbjct: 61  DEDED------------GNPIGEFDD------TPKNFGRIAQATARSVIMARLRDADDQR 102

Query: 130 QYLEFKDKVGEIISGTVKRVEYGNVI-VDL-GNSDGVIRRDETISRENLRPGDRVKSYIY 187
            + +F  + G+II+GTV++   G++  V +  + + V+   E +  E  R GDR+++++ 
Sbjct: 103 VFGDFAGREGQIITGTVQQSRDGHLTRVQISDDFEAVLPDSEKVPGEAYRHGDRIRAFVV 162

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V R +RGP+V LSRTHP  +  LF  EVPEI  G+V+++A++R+ G R K+AV ++   
Sbjct: 163 GVERTERGPRVTLSRTHPGLVECLFEREVPEIQQGLVRIRAIAREAGHRTKIAVAATREG 222

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE-DVG 306
           I+  GAC+G  G+RV+AV+TEL  EKIDIV +S D A FV NAL PA VT+VV+   D  
Sbjct: 223 INAKGACIGPVGARVRAVMTELGGEKIDIVDYSDDPARFVANALSPARVTRVVVHSVDNR 282

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
               IVP  QLSLAIG+ GQN RLA++LT + IDI ++ E
Sbjct: 283 TATAIVPDFQLSLAIGKEGQNARLAARLTNFHIDIHSDTE 322


>gi|332292194|ref|YP_004430803.1| NusA antitermination factor [Krokinobacter diaphorus 4H-3-7-5]
 gi|332170280|gb|AEE19535.1| NusA antitermination factor [Krokinobacter diaphorus 4H-3-7-5]
          Length = 410

 Score =  371 bits (954), Expect = e-100,   Method: Composition-based stats.
 Identities = 122/417 (29%), Positives = 222/417 (53%), Gaps = 12/417 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            L L+        +K IDR  +++++ +  +   +  +G+  +  + INP+ GD+ ++R 
Sbjct: 3   NLALIDSFSEFKDDKLIDRVTLMAILEEVFRSTLKRRFGSDDNFDIIINPDKGDLEIWRN 62

Query: 66  LEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV   EVE+   +ISL  AR  +   ++G  VS+ +   D GR ++ + +Q +I K+ 
Sbjct: 63  RVVVADGEVEDDNEEISLTDARKIEEDFEVGEDVSEEVKLFDLGRRSILALRQNLISKIH 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRV 182
           E +    Y +FK+  GE+ +  V  + +  +I +D   ++ ++ +D  I  +  R G+ V
Sbjct: 123 EHDNTNIYKQFKELEGELYTAEVHHIRHRAIILLDDDGNEIILPKDRQIPSDFFRKGENV 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  I  V  +   P +++SRT P F+ KLF  E+PE+++G++ VK V R PG +AK+AV 
Sbjct: 183 RGVIESVELKGNKPSIVMSRTSPLFLEKLFESEIPEVFDGLITVKNVVRIPGEKAKVAVD 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDPVGACVGM+GSR+  +V EL +E ID++ ++ +   ++  AL PA +T + ++
Sbjct: 243 SYDDRIDPVGACVGMKGSRIHGIVRELGNENIDVINYTTNLNLYITRALSPARITSIKIN 302

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+    + ++  E++S AIGR G N+RLA QLTG+ ID+  E  +      +F++     
Sbjct: 303 EENKTAQAVLKPEEVSKAIGRGGHNIRLAGQLTGYEIDVYREGVEEDVELTEFSD----- 357

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
                ++  +       G      +      ++      +EET +++    +   E 
Sbjct: 358 ----EIEAWVIEAFAKIGLDTARSVLEQDAEDLVRRTDLEEETVLDVMRILKAEFEE 410


>gi|296394257|ref|YP_003659141.1| transcription termination factor NusA [Segniliparus rotundus DSM
           44985]
 gi|296181404|gb|ADG98310.1| transcription termination factor NusA [Segniliparus rotundus DSM
           44985]
          Length = 342

 Score =  371 bits (954), Expect = e-100,   Method: Composition-based stats.
 Identities = 138/357 (38%), Positives = 209/357 (58%), Gaps = 31/357 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +Q   A+  EK +  + ++  +A ++  A +   G  SD RV+I+ + G + +       
Sbjct: 5   VQTLRAIEAEKGLSSEKIIDAIASALLTAYKHTDGHQSDARVDIDRKHGAVRVL------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                           +RD   ++ G   D   P DFGR+A  +A+QVI+Q++R+AE D+
Sbjct: 59  --------------VAERDEDGNLLGEYDD--TPDDFGRIATMTARQVILQRLRDAEGDQ 102

Query: 130 QYLEFKDKVGEIISGTVKR----VEYGNVIVDLGNS----DGVIRRDETISRENLRPGDR 181
            + +   K G+I++G V+R     E G  IV +G+     +GV+   E +  E+L  GDR
Sbjct: 103 GFADLPVKEGDIVAGVVQRDARANERGLQIVRMGSELKSYEGVLPVAEQVPGESLVHGDR 162

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           VK Y+  V+  +RGPQ+ LSRTHP  + KLF +EVPEI +G VQ+ AV+R+ G R+K+AV
Sbjct: 163 VKCYVVSVKPGRRGPQITLSRTHPNLVRKLFALEVPEIGDGAVQIVAVAREAGHRSKIAV 222

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            S+   ++  GAC+G  G RV+ V++EL  EKID++ +  D ATFV NAL PA      V
Sbjct: 223 KSTVPGLNAKGACIGQNGQRVRNVMSELAGEKIDLIDFDEDPATFVGNALSPARALLTRV 282

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           LD  V  + V+VP  QLSLAIG+ GQN RLA++LTGW IDI +E++  + R+   + 
Sbjct: 283 LDPVVKAVRVVVPDSQLSLAIGKEGQNARLAARLTGWRIDIRSEQDPEVARKAAADR 339


>gi|257068213|ref|YP_003154468.1| transcription termination factor NusA [Brachybacterium faecium DSM
           4810]
 gi|256559031|gb|ACU84878.1| transcription termination factor NusA [Brachybacterium faecium DSM
           4810]
          Length = 328

 Score =  371 bits (953), Expect = e-100,   Method: Composition-based stats.
 Identities = 118/336 (35%), Positives = 195/336 (58%), Gaps = 24/336 (7%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
              A+  E+ I   V+L  +  ++  A       + D  V I+  TG++++         
Sbjct: 7   ALRALERERDIRLPVLLDAIRSALHAAYLHTDHPVRDSEVLIDESTGEVAV--------- 57

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
                      +AR+RD    +     D   P +FGRVA  +A+QVI Q++R+ E +   
Sbjct: 58  -----------IARERDADGVVVEEWDD--TPENFGRVAASTARQVIFQRIRDLEDEAVL 104

Query: 132 LEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVR 190
            E+ D+  +I+SG +++  +   V+VDLG  + V+   E +  E+   G R+++Y+ + R
Sbjct: 105 GEYADRADDIVSGIIQQGRDPRMVLVDLGEVEAVLPPHERVPGEDYSHGRRLRAYVTEAR 164

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDP 250
           R  +GPQ+ LSR+HP  + +LF +EVPE+ +G V++  ++R+ G R K++V ++   ++ 
Sbjct: 165 RGPKGPQITLSRSHPNLVRRLFDLEVPEVADGTVEITGLAREAGHRTKMSVRATVPGVNA 224

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIE 309
            G+C+G  G+RV++V+ EL  EKIDIV +  D AT+V NAL P+ V+ V V+DE    + 
Sbjct: 225 KGSCIGPMGARVRSVMNELGGEKIDIVDFDEDPATYVANALSPSKVSSVTVIDEVGRAVR 284

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
            +VP+ QLSLAIG+ GQN RLA++LTGW IDI  + 
Sbjct: 285 AVVPETQLSLAIGKDGQNARLAAKLTGWKIDIRPDS 320


>gi|212716581|ref|ZP_03324709.1| hypothetical protein BIFCAT_01509 [Bifidobacterium catenulatum DSM
           16992]
 gi|225351012|ref|ZP_03742035.1| hypothetical protein BIFPSEUDO_02593 [Bifidobacterium
           pseudocatenulatum DSM 20438]
 gi|212660285|gb|EEB20860.1| hypothetical protein BIFCAT_01509 [Bifidobacterium catenulatum DSM
           16992]
 gi|225158468|gb|EEG71710.1| hypothetical protein BIFPSEUDO_02593 [Bifidobacterium
           pseudocatenulatum DSM 20438]
          Length = 350

 Score =  371 bits (953), Expect = e-100,   Method: Composition-based stats.
 Identities = 120/354 (33%), Positives = 202/354 (57%), Gaps = 17/354 (4%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV-VEEVE 73
            +A  + ID + + + ++++++ A           RVE++P  G  +++   E+ VE  E
Sbjct: 10  QLAAGQGIDPETLDAALSEALRLAYLKTPHAAKHARVELDPRAGSFTVWAQDEIPVEPTE 69

Query: 74  NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
           +              P+  +G    D   P DFGR+A  +A+QVI Q  R+AE D+ +  
Sbjct: 70  DNPH-----------PAPTLGEEYDD--TPRDFGRLAAATARQVISQLFRKAEDDKVFGA 116

Query: 134 FKDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRR 191
           F  + G++I+G V++   +  NV V +G+ + ++ R E +  E  R G+R++ Y+ +V R
Sbjct: 117 FSGQKGKLITGIVQQDVKDTSNVHVAVGDVEALLPRREQVPGERYRHGERIRVYVVNVAR 176

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPV 251
             +GP++++SR+HP+ + +LF  EVPE+ +G V + A++R+ G+R K+AV ++   ++P 
Sbjct: 177 GLKGPEIVVSRSHPELVRRLFEREVPELVSGAVSIMAIAREAGARTKIAVRANTEGVNPK 236

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEV 310
           GA +G  G+RV+AV+  L  EKIDIV WS D A FV  AL PA+ T V V+ E       
Sbjct: 237 GALIGPGGARVRAVMENLGPEKIDIVDWSADPAKFVAAALSPAVATGVQVISEKNQTAIA 296

Query: 311 IVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
            +  +QLSLAIG+ GQN RLA++LTGW I I + E  +    +     ++   +
Sbjct: 297 FIHDDQLSLAIGKEGQNARLAAKLTGWKIGIESAEAHAKKMAEAQASTSEETAE 350


>gi|269219599|ref|ZP_06163453.1| transcription termination factor NusA [Actinomyces sp. oral taxon
           848 str. F0332]
 gi|269210841|gb|EEZ77181.1| transcription termination factor NusA [Actinomyces sp. oral taxon
           848 str. F0332]
          Length = 330

 Score =  370 bits (952), Expect = e-100,   Method: Composition-based stats.
 Identities = 132/342 (38%), Positives = 199/342 (58%), Gaps = 26/342 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     V  E  I  DV++  + D++  A + + G +   RVE++  TG ++++      
Sbjct: 5   MNELRIVESELGISVDVIVGAIEDALLHAYQRVPGAVRGARVEMDRNTGKVTVY------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A + D   ++ G   D   P DFGR+A  +A+ +I Q++R+AE DR
Sbjct: 59  --------------APEVDEEGEVIGEFDD--TPGDFGRIATSTARSIIAQRLRDAETDR 102

Query: 130 QYLEFKDKVGEIISGTVK---RVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
               FK K GE++SG V+   R +  +++VD+G  + ++R +E +  E  R GD +++ +
Sbjct: 103 VLGSFKGKQGEVVSGVVQQNPRHDSRDLLVDVGEHEAILRVEEQVPTERFRHGDHIRALV 162

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            +V    RG  V LSRTHP F  KLF MEVPEI +G V++ A++R+ G RAK+AV+S   
Sbjct: 163 LEVSVGTRGASVRLSRTHPDFARKLFEMEVPEIQDGTVEIVALAREAGHRAKIAVWSDIP 222

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDV 305
            ++  GAC+G  G RV+AV TEL  EKIDIV +  D   F+  +L PA V +V +LD+  
Sbjct: 223 DVNAKGACIGHNGQRVRAVTTELGGEKIDIVDYDDDPKAFIAASLSPAKVVRVDILDKAE 282

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
            +  VIVP  Q SLAIG+  QNVRLA++LTGW+IDI  E +D
Sbjct: 283 RQARVIVPDGQTSLAIGKEAQNVRLAAKLTGWSIDIRKESDD 324


>gi|325473159|gb|EGC76355.1| N utilization substance protein A [Treponema denticola F0402]
          Length = 495

 Score =  370 bits (952), Expect = e-100,   Method: Composition-based stats.
 Identities = 149/487 (30%), Positives = 243/487 (49%), Gaps = 39/487 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +++     A EK ID D VL ++  +++ + +  +GT ++     N ETG   ++    +
Sbjct: 5   IIEAIREFAQEKGIDDDFVLHIVEQALKASYKKQFGTDANAV--FNEETG--KIYSKKII 60

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
            E+ +N    ISL+ A+   PS + G  +   + P   G  +V+   Q  IQ ++E ++D
Sbjct: 61  TEDAKNPVFDISLEEAKKLAPSCEAGDELLVEVDPKSLGINSVKVGMQRAIQCIKEMQKD 120

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPG------DRV 182
             Y E+  KVGEII G   R   GN+ VDLG  +G++ +      ++           R+
Sbjct: 121 TLYAEYSTKVGEIIIGYYHRERNGNIYVDLGKVEGLLPKKYQCPGDHFGRNAAAGEESRI 180

Query: 183 KSYIYDVR--REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           K+ + +V+  R+    Q++LSRT  +F+ ++  +EVPEI +GIV++  + R+PG R K+A
Sbjct: 181 KALVREVKKHRQSNVVQLILSRTDAEFVRQILEVEVPEIESGIVKIHNIVREPGYRTKIA 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
           V +    IDPVGACVG +G+R+QAV+ EL DEKIDI+ +S D   ++ +AL PA V  V 
Sbjct: 241 VSTDRDDIDPVGACVGAKGARIQAVIAELDDEKIDILPYSEDPKAYIKSALSPAEVMDVM 300

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE------------- 346
           +LD +  +   IV   QLSLAIG+ G NVRLA++L  W ID+ TEE+             
Sbjct: 301 ILDAEKRKALAIVSDSQLSLAIGKHGLNVRLANRLVDWNIDVKTEEQFKQMDIYTDARKA 360

Query: 347 ------DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEG 400
                 D  + + +  E      +   + E I  +L      D+++L  ++ +EI ++EG
Sbjct: 361 VENLFTDETSDEDEEYEEISNVSELPGITEDILAVLRNNEIEDIQDLINMEDNEIRALEG 420

Query: 401 FDEETAVEIQG-RAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTM 459
              E A  +    A       D   +       VS++   +            E G K  
Sbjct: 421 LTTEMADTLLDIIANAVEVVEDDEDESDEESEPVSDDEGEVEE------FECPECGHKIT 474

Query: 460 EDLAGCS 466
            D+  C 
Sbjct: 475 TDMTKCP 481


>gi|116328714|ref|YP_798434.1| transcription elongation factor NusA [Leptospira borgpetersenii
           serovar Hardjo-bovis L550]
 gi|116330628|ref|YP_800346.1| transcription elongation factor NusA [Leptospira borgpetersenii
           serovar Hardjo-bovis JB197]
 gi|116121458|gb|ABJ79501.1| Transcription elongation factor [Leptospira borgpetersenii serovar
           Hardjo-bovis L550]
 gi|116124317|gb|ABJ75588.1| Transcription elongation factor [Leptospira borgpetersenii serovar
           Hardjo-bovis JB197]
          Length = 462

 Score =  370 bits (952), Expect = e-100,   Method: Composition-based stats.
 Identities = 147/449 (32%), Positives = 229/449 (51%), Gaps = 36/449 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD-----------IRVEINPET 57
           LL++      +KS+DR+ V+ V+ DS+  A +   G               + VE     
Sbjct: 12  LLEVIQQFCADKSLDREAVMGVIRDSLITAYKKKSGLEGLEEFEESEKPSPVTVEFASGK 71

Query: 58  GDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQV 117
             + +    +VVE   +   +I L+ A+  D S +IG V+S    P++  R+    AKQ+
Sbjct: 72  DSVVIAIAKKVVEGTPSSALEIGLEDAKAIDASAEIGSVISFREKPVELSRIISSQAKQM 131

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR 177
           + Q++++ E++  Y E+K K GE+  G  +R +   + +DLG  +G++ R E    E   
Sbjct: 132 VFQRLKDMEKELLYNEYKAKEGELTHGYFQRWKKDAMSIDLGKVEGIMPRREQNPGEKYH 191

Query: 178 PGDRVKSYIYDVRREQRGP--QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGS 235
            GDR+K+ I  V    R P   + LSR    F+ KLF ME+PEIY+G+V++  V+R P  
Sbjct: 192 SGDRLKAIIQRVELRPREPIPVITLSRASADFVRKLFEMEIPEIYDGLVEIINVARQPSI 251

Query: 236 RAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI 295
           R K+ V ++   IDPVGACVGM+G R+Q++V EL +E+IDIV  S D++ F+ NA+ PA 
Sbjct: 252 RTKVVVRATRGEIDPVGACVGMKGVRIQSIVRELGNERIDIVEASDDASEFIANAISPAK 311

Query: 296 VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE----------- 344
             +V +D       V+VP +QLSLAIG  G NV+LASQL G+ IDI T            
Sbjct: 312 PVEVKVDGSGREAMVVVPDDQLSLAIGINGSNVKLASQLAGYKIDIKTVAQYNAELASPE 371

Query: 345 ------------EEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKI 392
                        E++        E          +   I  +L +EG  D+E L     
Sbjct: 372 ARERLERLFYSPAEEAKVAAPQEEEELTPLEDLPGLSARIVGILKSEGIKDLETLIEYSQ 431

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGID 421
            ++A ++G    TA +I    RE +E ++
Sbjct: 432 DDLAKLQGIGHTTAGQILKLLRESVEWVE 460


>gi|160943264|ref|ZP_02090500.1| hypothetical protein FAEPRAM212_00750 [Faecalibacterium prausnitzii
           M21/2]
 gi|158445503|gb|EDP22506.1| hypothetical protein FAEPRAM212_00750 [Faecalibacterium prausnitzii
           M21/2]
 gi|295105168|emb|CBL02712.1| transcription termination factor NusA [Faecalibacterium prausnitzii
           SL3/3]
          Length = 368

 Score =  370 bits (951), Expect = e-100,   Method: Composition-based stats.
 Identities = 144/352 (40%), Positives = 216/352 (61%), Gaps = 8/352 (2%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGD 59
           M +AN+ +  +    + +E+ I  + ++  +  +I  A +  Y      IRV+I+P+TG 
Sbjct: 1   MTAANK-DFFEALSMLEHERGITAEYLIEKIKAAIIIAVKKNYEVEEDHIRVDIDPDTGR 59

Query: 60  ISLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQV 117
             +  + ++V  E+  +   +I +  AR    S ++G  +  PL   DFGR+A Q+AK V
Sbjct: 60  FDVALIQDIVADEDWYDEHAEIGVTEARKIRSSYEVGDRIITPLKTRDFGRIAAQTAKHV 119

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRV--EYGNVIVDLGNS-DGVIRRDETISRE 174
           I Q +REAER++Q  E + +  +I+  TV RV  E G V +DLG   + V+ R+E +  E
Sbjct: 120 IRQGIREAERNQQLSEIQSRAHDIVQATVTRVDTEKGIVALDLGKGGEAVLPRNEQVPGE 179

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
               G+ ++ YI DV   +RGP+V++SRTHP  + +LF +EVPEI++G V+VKA+SR+ G
Sbjct: 180 VYTEGETLQVYIVDVVSTERGPRVMISRTHPGLVKRLFELEVPEIFDGTVEVKAISREAG 239

Query: 235 SRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA 294
           +R K+AV+S D +++PV AC+G  G+RV AVV +L  EKIDIV WS D + F+  AL PA
Sbjct: 240 ARTKMAVWSKDPNVNPVSACIGEHGARVAAVVEKLGGEKIDIVKWSEDISEFISAALSPA 299

Query: 295 IVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
            V KV L         V VP +QLSLAIG +GQN RL ++LTG+ IDI  E 
Sbjct: 300 KVVKVELLPGETRSCRVTVPDQQLSLAIGNKGQNARLCARLTGYNIDIRPES 351


>gi|311113215|ref|YP_003984437.1| transcription termination factor NusA [Rothia dentocariosa ATCC
           17931]
 gi|310944709|gb|ADP41003.1| transcription termination factor NusA [Rothia dentocariosa ATCC
           17931]
          Length = 349

 Score =  370 bits (951), Expect = e-100,   Method: Composition-based stats.
 Identities = 130/363 (35%), Positives = 210/363 (57%), Gaps = 26/363 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           L +  A+A ++ +  + + S++ +++  A     G +   R  I+  TGD ++       
Sbjct: 9   LGVLHALAKQRGLVLEELFSLVENALVLAYMKQPGAIKGSRAVIDRTTGDFAIL------ 62

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A + D          D   P +FGR+A  + +QV+ Q++R+AE   
Sbjct: 63  --------------APELDDDNQKIDEFDD--TPNNFGRIAAATVRQVLSQRLRDAEDAS 106

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              EFKD+ G + SG +++      V VDLG  + V+  +E +  E    G R+++Y+ +
Sbjct: 107 VLGEFKDREGTLASGVIQQGNNPRMVQVDLGTIEAVLPANEQVPGEQYPHGTRIRAYLLE 166

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
            RR Q+GP ++LSR+HP  +++LF  EVPEI +G V++ +++R+ G R+K+AV +++ SI
Sbjct: 167 ARRGQKGPSIVLSRSHPNLVLRLFEHEVPEIADGSVKINSIAREAGHRSKIAVSATNPSI 226

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGR 307
           +  GAC+G  G+RV+AV  EL DEKIDIV +S D A F+  AL PA VT+V++ D     
Sbjct: 227 NAKGACIGDMGARVRAVAAELNDEKIDIVDYSTDPAEFITAALSPAKVTEVIIADPREYS 286

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
              IVP EQLSLAIGR GQN RLA++LTGW IDI+ E + +  R ++  E  +   ++++
Sbjct: 287 ARAIVPDEQLSLAIGREGQNARLAAKLTGWRIDILAESKYAQIRAEE--EVAERVARSLD 344

Query: 368 VDE 370
           +DE
Sbjct: 345 LDE 347


>gi|41409007|ref|NP_961843.1| transcription elongation factor NusA [Mycobacterium avium subsp.
           paratuberculosis K-10]
 gi|41397366|gb|AAS05226.1| NusA [Mycobacterium avium subsp. paratuberculosis K-10]
          Length = 351

 Score =  370 bits (951), Expect = e-100,   Method: Composition-based stats.
 Identities = 130/357 (36%), Positives = 198/357 (55%), Gaps = 31/357 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  ++ I  + +L  +  ++  A R   G  +D R+EI+ +TG + +       
Sbjct: 5   MAALHAIEVDRGISVNELLETIKSALLTAYRHTEGHQNDARIEIDRKTGVVKV------- 57

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                        +AR+ D   ++     D   P  FGR+A  +A+QV++Q+ R+AE +R
Sbjct: 58  -------------IARETDEDGNVISEWDD--TPEGFGRIAATTARQVMLQRFRDAENER 102

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDR 181
            Y EF  + GEI++G ++R    N    V+V +G     S+GVI   E +  E+   G+R
Sbjct: 103 TYGEFSTREGEIVAGVIQRDSRANARGLVVVRMGTETKASEGVIPAAEQVPGESYEHGNR 162

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+ Y+  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV
Sbjct: 163 VRCYVIGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAV 222

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            S+   ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V  V +
Sbjct: 223 KSNLPGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDDDPARFVANALSPAKVVSVSI 282

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +D+      V+VP  QLSLAIG+ GQN RLA++LTGW IDI  +         +   
Sbjct: 283 IDQAARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRGDSPGGAGGHSESRP 339


>gi|291457236|ref|ZP_06596626.1| transcription termination factor NusA [Bifidobacterium breve DSM
           20213]
 gi|291381071|gb|EFE88589.1| transcription termination factor NusA [Bifidobacterium breve DSM
           20213]
          Length = 351

 Score =  370 bits (951), Expect = e-100,   Method: Composition-based stats.
 Identities = 118/339 (34%), Positives = 197/339 (58%), Gaps = 17/339 (5%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV-VEEVEN 74
           +A E+ ID + +   +A++++ A           RVE++   G  +++   ++ VE  E+
Sbjct: 11  LAAEQGIDPETLDDALAEALRLAYLKTPHAAKHARVELDERAGSFTVWAADDIPVEPTED 70

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                      D  P+ ++G    D   P DFGR+A  +A+QVI Q  R+ E ++ +  F
Sbjct: 71  -----------DPHPAPELGEEYDD--TPHDFGRLAAATARQVITQLFRKVEDEKVFGAF 117

Query: 135 KDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
             + G++++G +++   +  NV V +G  + ++ R E +  E  R G+R++ Y+ +V R 
Sbjct: 118 SGQKGKLVTGIIQQDASDPTNVHVAMGEVEAILPRREQVPGERYRHGERIRVYVVNVARG 177

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            +GP++++SR+HP+ + KLF  EVPE+ +G V + A++R+ G+R KLAV ++   ++P G
Sbjct: 178 IKGPEIVVSRSHPELVRKLFEREVPELVSGAVSIMAIAREAGARTKLAVKANTDGVNPKG 237

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVI 311
           A +G  G+RV+AV+  L  EKIDIV +S D A FV  AL PA+ T V V+ E        
Sbjct: 238 ALIGPSGARVRAVMENLGPEKIDIVDYSDDPAKFVAAALSPAVATGVQVISEKNKTAIAF 297

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
           +  +QLSLAIG+ GQN RLA++LTGW I I + E  +  
Sbjct: 298 IHDDQLSLAIGKEGQNARLAAKLTGWKIGIESAEAHAKK 336


>gi|171741240|ref|ZP_02917047.1| hypothetical protein BIFDEN_00314 [Bifidobacterium dentium ATCC
           27678]
 gi|283455398|ref|YP_003359962.1| N utilization substance protein A [Bifidobacterium dentium Bd1]
 gi|171276854|gb|EDT44515.1| hypothetical protein BIFDEN_00314 [Bifidobacterium dentium ATCC
           27678]
 gi|283102032|gb|ADB09138.1| nusA N utilization substance protein A [Bifidobacterium dentium
           Bd1]
          Length = 346

 Score =  370 bits (951), Expect = e-100,   Method: Composition-based stats.
 Identities = 120/349 (34%), Positives = 199/349 (57%), Gaps = 15/349 (4%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
            +A  + ID + + + ++++++ A           R+E++P  G  +++   E+  E   
Sbjct: 10  QLAAGQGIDPETLDAALSEALRLAYLKTPHAAKHARIELDPRAGSFTVWAQDEIPGEPTE 69

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                      D  P+  +G    D   P DFGR+A  +A+QVI Q  R+AE D+ +  F
Sbjct: 70  E----------DPHPAPTLGEEYDD--TPHDFGRLAAATARQVISQLFRKAEDDKVFGAF 117

Query: 135 KDKVGEIISGTVKRVEYG--NVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
             + G++I+G V++      NV V +G+ + ++ R E +  E  R G+R++ Y+ +V R 
Sbjct: 118 SGQKGKLITGIVQQDAKDTANVHVAVGDVEALLPRREQVPGERYRHGERIRVYVVNVARG 177

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            +GP++++SR+HP+ + +LF  EVPE+ +G V + A++R+ G+R K+AV ++   ++P G
Sbjct: 178 LKGPEIVVSRSHPELVRRLFEREVPELVSGAVSIMAIAREAGARTKIAVRANTEGVNPKG 237

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVI 311
           A +G  G+RV+AV+  L  EKIDIV WS D A FV  AL PA+ T V V+ E        
Sbjct: 238 ALIGPGGARVRAVMENLGPEKIDIVDWSADPAKFVAAALSPAVATGVQVISEKNNTAIAF 297

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +  +QLSLAIG+ GQN RLA++LTGW I I + E  +   Q+   E  +
Sbjct: 298 IHDDQLSLAIGKEGQNARLAAKLTGWKIGIESAEAHAKKMQESAGESAE 346


>gi|118462823|ref|YP_882872.1| transcription elongation factor NusA [Mycobacterium avium 104]
 gi|118164110|gb|ABK65007.1| transcription termination factor NusA [Mycobacterium avium 104]
          Length = 351

 Score =  370 bits (951), Expect = e-100,   Method: Composition-based stats.
 Identities = 130/357 (36%), Positives = 198/357 (55%), Gaps = 31/357 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  ++ I  + +L  +  ++  A R   G  +D R+EI+ +TG + +       
Sbjct: 5   MAALHAIEVDRGISVNELLETIKSALLTAYRHTEGHQNDARIEIDRKTGVVKV------- 57

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                        +AR+ D   ++     D   P  FGR+A  +A+QV++Q+ R+AE +R
Sbjct: 58  -------------IARETDEDGNVISEWDD--TPEGFGRIAATTARQVMLQRFRDAENER 102

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDR 181
            Y EF  + GEI++G ++R    N    V+V +G     S+GVI   E +  E+   G+R
Sbjct: 103 TYGEFSTREGEIVAGVIQRDSRANARGLVVVRMGTETKASEGVIPAAEQVPGESYEHGNR 162

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V+ Y+  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV
Sbjct: 163 VRCYVIGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAV 222

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            S+   ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V  V +
Sbjct: 223 KSNLPGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDDDPARFVANALSPAKVVSVSI 282

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +D+      V+VP  QLSLAIG+ GQN RLA++LTGW IDI  +         +   
Sbjct: 283 IDQAARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRGDSPGGAGGHSESRP 339


>gi|332300247|ref|YP_004442168.1| NusA antitermination factor [Porphyromonas asaccharolytica DSM
           20707]
 gi|332177310|gb|AEE13000.1| NusA antitermination factor [Porphyromonas asaccharolytica DSM
           20707]
          Length = 469

 Score =  370 bits (950), Expect = e-100,   Method: Composition-based stats.
 Identities = 131/424 (30%), Positives = 233/424 (54%), Gaps = 15/424 (3%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYTC 77
           K+ID + +L V+ DS +     ++G+  +  V IN ++GD  ++R  EVV +  VE    
Sbjct: 21  KNIDEETMLHVLEDSFRSILAKMFGSDDNFDVIINADSGDFEIWRTREVVADDAVERENE 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           Q++   AR+ DP  +IG  V+D +  + FGR A+ + +Q +  K+ + +++  Y  F ++
Sbjct: 81  QVAYTEAREIDPEAEIGDDVTDSVDFLSFGRRAIVNLRQTLSSKILDLQKEHFYQTFIER 140

Query: 138 VGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VGE+I+  V +V     ++VD   ++ ++ + E I  E  R GD V + I  V  E   P
Sbjct: 141 VGELITAEVYQVWKRETLLVDEDGNELIMPKSEQIPDEYFRKGDSVHAVIARVDNENNNP 200

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +V LSRT P+F+ +LF + VPEI +G++ +K V+R PG RAK+AV S D  IDPVG+CVG
Sbjct: 201 RVTLSRTSPEFLKRLFEINVPEIADGLITIKRVARIPGVRAKIAVESYDDRIDPVGSCVG 260

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           M GSR++ +V EL  E ID++ ++ + + F+  AL PA ++ + L  +  + EV +  E 
Sbjct: 261 MNGSRIRGIVRELHGENIDVLTYTANDSLFIQRALSPAKISSIELYPETAKAEVYLRPED 320

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLL 376
           + LAIG+   N++LAS LTG+ I++  +  D+     + +     F     +++ +  +L
Sbjct: 321 VPLAIGKNASNIKLASVLTGFEIEVFRDAADT----TEEDIYLSEFSD--EIEDWVIKML 374

Query: 377 VAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE 436
           +  G      +     +E+      + ET   +       +   +  L++ + E+G+ +E
Sbjct: 375 LDIGLNTARAVLTTSRTELLKKTDLELETIDRVLR-----ILSSEFDLEE-LEEMGLPQE 428

Query: 437 LCSI 440
              +
Sbjct: 429 NIDL 432


>gi|315225958|ref|ZP_07867746.1| transcription termination factor NusA [Parascardovia denticolens
           DSM 10105]
 gi|315120090|gb|EFT83222.1| transcription termination factor NusA [Parascardovia denticolens
           DSM 10105]
          Length = 385

 Score =  370 bits (950), Expect = e-100,   Method: Composition-based stats.
 Identities = 119/351 (33%), Positives = 196/351 (55%), Gaps = 15/351 (4%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +A E+ ID + + + ++++++ A           RVE++   G  +++   E+ 
Sbjct: 18  IAAMHKLAAEQGIDAERLDAALSEALRLAYLKNPHAAKHARVELDERAGSFTVWAQDEIP 77

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
           +E            A D  P   +G    D   P DFGR A   A+QVI    R+A  D+
Sbjct: 78  QEPT----------AEDPHPRPALGEEYDD--TPEDFGRQAAYIARQVITALFRKAADDK 125

Query: 130 QYLEFKDKVGEIISGTVKRV--EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
            +  F  + G++I+G V++   + GN+ + +G+ + ++ R E +  E  R G R++ Y+ 
Sbjct: 126 IFGAFAGQKGKLITGVVQQDSGDRGNLHIAVGDVEAILPRREQVPGERFRHGQRIRVYVV 185

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V R  +GP++++SR+HP+ + +LF  EVPE+ +G VQ+ +++R+ G R K+AV ++   
Sbjct: 186 SVNRGLKGPEIIVSRSHPELIRRLFEREVPELASGAVQIMSIAREAGERTKIAVRANAQG 245

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVG 306
           ++P GA +G  G RV+AV+  L DEKIDIV WS D A FV  AL PA   KV V+ E   
Sbjct: 246 VNPKGALIGPAGQRVRAVMENLGDEKIDIVDWSEDPAKFVGAALSPAHAVKVTVVSEKNK 305

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
               ++  +Q+SLAIG+ GQN RLA++LTGW I I + E+    + K   E
Sbjct: 306 TTLALIHDDQMSLAIGKEGQNARLAAKLTGWKIAIDSYEKSKAEQAKKAQE 356


>gi|239917227|ref|YP_002956785.1| transcription termination factor NusA [Micrococcus luteus NCTC
           2665]
 gi|239838434|gb|ACS30231.1| transcription termination factor NusA [Micrococcus luteus NCTC
           2665]
          Length = 328

 Score =  370 bits (950), Expect = e-100,   Method: Composition-based stats.
 Identities = 124/334 (37%), Positives = 187/334 (55%), Gaps = 24/334 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     +  E+ I  D ++  +  ++  A     G +   RVEI+  TG ++ +      
Sbjct: 5   MSALRMLEAEREIPMDRLIPTIEQALLMAYHRTPGALKRARVEIDRATGHVTAW------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A + D      G   D   P  FGRVA  +A+QV+IQ++RE + D+
Sbjct: 59  --------------ATELDEDDTPIGEFDD--TPNGFGRVAASTARQVMIQRMREEDDDK 102

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              EFKDK GE++SG +++ +    V V+LG  + V+   E +  E+   G R+++Y+  
Sbjct: 103 VLGEFKDKEGELVSGVIQQGLNRHMVQVNLGTLEAVLPPPEQVPGEDYAHGRRIRAYVVS 162

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
             R  +GP V +SR+HP  + KLF +EVPEI +G V++ A++R+ G R K+AV ++   +
Sbjct: 163 ATRGAKGPSVTVSRSHPGLVRKLFELEVPEIADGSVEITALAREAGHRTKMAVRATRPGV 222

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GA +G  GSRV+AV+TEL DEKIDI+    D A  + NAL PA    V +LD D   
Sbjct: 223 NAKGASIGEMGSRVRAVMTELNDEKIDIIDHVDDPAAMIANALSPATTVSVEILDADQHS 282

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
              +VP+ QLSLAIG+ GQN RLA++LTGW IDI
Sbjct: 283 ARAVVPQYQLSLAIGKEGQNARLAAKLTGWRIDI 316


>gi|300743965|ref|ZP_07072985.1| transcription termination factor NusA [Rothia dentocariosa M567]
 gi|300380326|gb|EFJ76889.1| transcription termination factor NusA [Rothia dentocariosa M567]
          Length = 345

 Score =  370 bits (950), Expect = e-100,   Method: Composition-based stats.
 Identities = 130/363 (35%), Positives = 210/363 (57%), Gaps = 26/363 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           L +  A+A ++ +  + + S++ +++  A     G +   R  I+  TGD ++       
Sbjct: 5   LGVLHALAKQRGLVLEELFSLVENALVLAYMKQPGAIKGSRAVIDRTTGDFAIL------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A + D          D   P +FGR+A  + +QV+ Q++R+AE   
Sbjct: 59  --------------APELDDDNQKIDEFDD--TPNNFGRIAAATVRQVLSQRLRDAEDAS 102

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              EFKD+ G + SG +++      V VDLG  + V+  +E +  E    G R+++Y+ +
Sbjct: 103 VLGEFKDREGTLASGVIQQGNNPRMVQVDLGTIEAVLPANEQVPGEQYPHGTRIRAYLLE 162

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
            RR Q+GP ++LSR+HP  +++LF  EVPEI +G V++ +++R+ G R+K+AV +++ SI
Sbjct: 163 ARRGQKGPSIVLSRSHPNLVLRLFEHEVPEIADGSVKINSIAREAGHRSKIAVSATNPSI 222

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGR 307
           +  GAC+G  G+RV+AV  EL DEKIDIV +S D A F+  AL PA VT+V++ D     
Sbjct: 223 NAKGACIGDMGARVRAVAAELNDEKIDIVDYSTDPAEFITAALSPAKVTEVIIADPREYS 282

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
              IVP EQLSLAIGR GQN RLA++LTGW IDI+ E + +  R ++  E  +   ++++
Sbjct: 283 ARAIVPDEQLSLAIGREGQNARLAAKLTGWRIDILAESKYAQIRAEE--EVAERVARSLD 340

Query: 368 VDE 370
           +DE
Sbjct: 341 LDE 343


>gi|86131975|ref|ZP_01050571.1| transcription elongation protein NusA [Dokdonia donghaensis MED134]
 gi|85817309|gb|EAQ38489.1| transcription elongation protein NusA [Dokdonia donghaensis MED134]
          Length = 410

 Score =  370 bits (950), Expect = e-100,   Method: Composition-based stats.
 Identities = 124/417 (29%), Positives = 227/417 (54%), Gaps = 12/417 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            L L+        +K IDR  +++++ +  +   +  +G+  +  + INP+ GD+ ++R 
Sbjct: 3   NLALIDSFSEFKDDKLIDRVTLMAILEEVFRSTLKRRFGSDDNFDIIINPDKGDLEIWRN 62

Query: 66  LEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
             VV   EVE+   +ISL  AR  +   ++G  VS+ +  +D GR ++ + +Q +I K+ 
Sbjct: 63  RVVVADGEVEDDNEEISLTDARKIEEDFEVGEDVSEEVKLIDLGRRSILALRQNLISKIH 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDRV 182
           E +    Y +FK+  G++ +  V  + +  +I +D   ++ ++ +D  I  +  R G+ V
Sbjct: 123 EHDNTNIYKQFKELEGDLYTAEVHHIRHRAIILLDDDGNEIILPKDRQIPSDFFRKGENV 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +  I  V  +   P +++SRT P F+ KLF  E+PE+++G++ VK V R PG +AK+AV 
Sbjct: 183 RGVIESVELKGNKPAIIMSRTSPLFLEKLFESEIPEVFDGLITVKNVVRIPGEKAKVAVD 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S D  IDPVGACVGM+GSR+  +V EL +E ID++ ++ +   ++  AL PA +T + +D
Sbjct: 243 SYDDRIDPVGACVGMKGSRIHGIVRELGNENIDVINYTTNLNLYITRALSPARITSIKID 302

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           E+    + ++  E++S AIGR G N+RLA QLTG+ ID+  E  +      +F++     
Sbjct: 303 EENKTAQAVLKPEEVSKAIGRGGHNIRLAGQLTGYEIDVYREGVEEDVELTEFSD----- 357

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
                ++  +       G      +   ++S++      +EET +++    +E  E 
Sbjct: 358 ----EIEAWVIEAFGKIGLDTARSVLEQEVSDLVRRTDLEEETVLDVMRILKEEFEE 410


>gi|139436991|ref|ZP_01771151.1| Hypothetical protein COLAER_00125 [Collinsella aerofaciens ATCC
           25986]
 gi|133776638|gb|EBA40458.1| Hypothetical protein COLAER_00125 [Collinsella aerofaciens ATCC
           25986]
          Length = 415

 Score =  370 bits (950), Expect = e-100,   Method: Composition-based stats.
 Identities = 131/359 (36%), Positives = 197/359 (54%), Gaps = 36/359 (10%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +++     +  EK ID+  ++  +  S+ K+   +       +V I+  TG I ++RL  
Sbjct: 5   DMMSALMELCQEKHIDQLYLIDRLEQSLAKSYAEILHLEWGAKVTIDRTTGKIYVYRL-- 62

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
             E +++             D   +        + P +  R+A Q AK  I   VR + R
Sbjct: 63  --EPIDDS-----------MDEEGNFTEFEEIDVTPKNTSRIAAQHAKAEINAIVRNSAR 109

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIR----------RDETISRENL 176
           ++ Y EF  ++G++ISGTV +      IV +    +  +           R+E    E  
Sbjct: 110 EQIYEEFSGRIGDLISGTVLQSTPDFTIVKIREGVEAELPHFDQRRYENERNERPMGERY 169

Query: 177 RPGDRVKSYIYDVRREQRG----------PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
                +K+ I DVR               P +++SRTHP+ M +LF  EVPEIY G VQ+
Sbjct: 170 LHNQHIKAVIIDVRDPNSNLQPVRGEHSRPPIVISRTHPELMRRLFEQEVPEIYEGTVQI 229

Query: 227 KAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATF 286
           K+++R+PG R+K+AV S D  +DPVGACVG +GSRV+AVV ELR E++D+++W  D A +
Sbjct: 230 KSIAREPGQRSKVAVHSLDDRLDPVGACVGPKGSRVRAVVGELRGERVDVILWDADPAVY 289

Query: 287 VINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           V NAL PA VT+V++DE+     VIVP +QLSLAIG+ GQN RLA++LTGW IDI +E 
Sbjct: 290 VANALSPAKVTRVLIDEEKAYAGVIVPDDQLSLAIGKEGQNARLAARLTGWHIDIKSET 348


>gi|326335427|ref|ZP_08201614.1| N utilization substance protein A [Capnocytophaga sp. oral taxon
           338 str. F0234]
 gi|325692193|gb|EGD34145.1| N utilization substance protein A [Capnocytophaga sp. oral taxon
           338 str. F0234]
          Length = 411

 Score =  370 bits (950), Expect = e-100,   Method: Composition-based stats.
 Identities = 128/418 (30%), Positives = 229/418 (54%), Gaps = 12/418 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N L+L++       +K IDR+ ++S++ +  + A +  YG+  +  + INP+ GDI ++R
Sbjct: 3   NNLDLIESFSEFRDDKLIDREALMSILDEVFKTALKKKYGSDENFDIIINPDKGDIEIWR 62

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              +V++  VEN   +I L  A   +   ++G  VS+ +     GR A+ + +Q +I KV
Sbjct: 63  NRIIVDDGMVENPNAEIPLSEALKIESDFEVGEEVSEEVKISQLGRRAILALRQNLISKV 122

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDR 181
            E + +  Y +FK+ +G I +  +  ++   VI+ D   ++ ++ RD  I  +  + G+ 
Sbjct: 123 HEYDNNTIYKKFKELIGGIYTAEIHHIKGKTVILLDDDGNEILLPRDRQIPSDFFKKGET 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K  I  V  +   P ++LSRT P F+ +LF  E+PEI +G++ ++ V+R PG +AK+AV
Sbjct: 183 IKGIIESVDFKGNKPAIILSRTSPLFLERLFEQEIPEIADGLITIQKVARIPGEKAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  IDPVGACVG+ G+R++++V EL +E ID++ +S + + F+  AL PA +T + +
Sbjct: 243 DSYDDRIDPVGACVGVNGARIRSIVRELGNENIDVINFSNNISLFISKALAPAKITSITV 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           +E+  R EV++  E++S AIG+ G N+RLAS LTG+ ID+  E  +      +F +    
Sbjct: 303 NEETKRAEVLLASEEVSKAIGKGGSNIRLASMLTGYEIDVFREGAEEDIELSEFED---- 358

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
                 ++  I       G    + +      E+      + ET  ++    +E  E 
Sbjct: 359 -----EIEPWIIEEFRRIGLDTAKSVLEYSAEELEKRVDLELETIQDVLRILKEEFEN 411


>gi|325954923|ref|YP_004238583.1| NusA antitermination factor [Weeksella virosa DSM 16922]
 gi|323437541|gb|ADX68005.1| NusA antitermination factor [Weeksella virosa DSM 16922]
          Length = 411

 Score =  370 bits (950), Expect = e-100,   Method: Composition-based stats.
 Identities = 132/417 (31%), Positives = 237/417 (56%), Gaps = 11/417 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           + L L++       +K+IDR  +++++ +++Q   R  YG+  +  + +NP+ GD+ ++ 
Sbjct: 2   DNLALIESFGDFKDDKNIDRITLMAIIEEALQVVLRKKYGSDDNFDIIVNPDKGDLEIWH 61

Query: 65  LLEVVEEV--ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              VVE+   E+ + +I L  AR  +P  +IG  VS+ +P  + GR A+ + +Q +  K+
Sbjct: 62  NRIVVEDGFSEDDSAEIELSEARKIEPDFEIGEEVSELIPIENLGRRAILTLRQTLSAKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGDR 181
            E +    Y +FK+  GEI+SG V  + + ++I +D   ++ ++ ++  I  +  R G+ 
Sbjct: 122 MEHDNANLYDKFKELEGEIVSGEVHHIRHKHIIIMDDEQNEMILPKENQIPSDFFRKGET 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ + +V      PQ++LSRT P+F+ KLF  E+PEI++G++ +K V R PG +AK+AV
Sbjct: 182 VRAIVDEVVLRGAKPQIVLSRTAPKFLEKLFEQEIPEIFDGLITIKKVVRIPGEKAKVAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S D  IDPVGACVGM+GSR+ ++V ELR+E ID++ ++ +   ++  AL PA ++   +
Sbjct: 242 ESYDDRIDPVGACVGMKGSRIHSIVRELRNENIDVINYTTNLNLYIARALSPAKISSAEI 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           DE+  +I V V  E++S AIG+ G NV+LAS+L    IDI  E        +D +     
Sbjct: 302 DEENHKILVHVKPEEVSKAIGKGGYNVKLASRLLDMEIDIFRE------GIQDEDVELTE 355

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           F     +D+ +     A G    + +    ++++      +EET  ++    +E  E
Sbjct: 356 FSD--EIDQWVIEAFKAIGLDTAKSVLEQDVNDLIKRTDLEEETIEDVIRILKEEFE 410


>gi|228473549|ref|ZP_04058301.1| transcription termination factor NusA [Capnocytophaga gingivalis
           ATCC 33624]
 gi|228274921|gb|EEK13731.1| transcription termination factor NusA [Capnocytophaga gingivalis
           ATCC 33624]
          Length = 411

 Score =  370 bits (950), Expect = e-100,   Method: Composition-based stats.
 Identities = 128/418 (30%), Positives = 230/418 (55%), Gaps = 12/418 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N L+L++       +K IDR+ ++S++ +  + A +  YG+  +  + INP+ GDI ++R
Sbjct: 3   NNLDLIESFSEFRDDKLIDREALMSILDEVFKTALKKKYGSDENFDIIINPDKGDIEIWR 62

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              +V++  VEN   +I L  A   +   ++G  VS+ +     GR A+ + +Q +I KV
Sbjct: 63  NRIIVDDGMVENPNAEIPLSEALKIESDFEVGEEVSEEVKISQLGRRAILALRQNLISKV 122

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDR 181
            E + +  Y +FK+ +G I +  +  ++   VI+ D   ++ ++ RD+ I  +  + G+ 
Sbjct: 123 HEYDNNTVYKKFKELIGTIYTAEIHHIKGKTVILLDDEGNEILLPRDKQIPSDFFKKGET 182

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
            K  I  V  +   P ++LSRT P F+ +LF  E+PEI +G++ ++ V+R PG +AK+AV
Sbjct: 183 TKGIIESVDFKGNKPSIILSRTSPVFLERLFEQEIPEIADGLITIQKVARIPGEKAKIAV 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            + D  IDPVGACVG+ G+R++++V EL +E ID++ +S ++  F+  AL PA +T + +
Sbjct: 243 DTYDDRIDPVGACVGVNGARIRSIVRELGNENIDVISYSSNTNLFISKALAPAKITSITV 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           +E+  R EV++  E++S AIG+ G N+RLAS LTG+ ID+  E  +      +F +    
Sbjct: 303 NEETKRAEVLLASEEVSKAIGKGGSNIRLASLLTGYEIDVFREGAEEDVELSEFED---- 358

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
                +++  +       G    + +      E+      + ET  E+    RE  E 
Sbjct: 359 -----DIEPWVIEEFRRIGLDTAKSVLEYSAEELEKRIDLERETIEEVLRVLREEFEN 411


>gi|306823536|ref|ZP_07456911.1| transcription termination factor NusA [Bifidobacterium dentium ATCC
           27679]
 gi|309802869|ref|ZP_07696970.1| transcription termination factor NusA [Bifidobacterium dentium
           JCVIHMP022]
 gi|304553243|gb|EFM41155.1| transcription termination factor NusA [Bifidobacterium dentium ATCC
           27679]
 gi|308220336|gb|EFO76647.1| transcription termination factor NusA [Bifidobacterium dentium
           JCVIHMP022]
          Length = 346

 Score =  369 bits (949), Expect = e-100,   Method: Composition-based stats.
 Identities = 120/349 (34%), Positives = 199/349 (57%), Gaps = 15/349 (4%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
            +A  + ID + + + ++++++ A           R+E++P  G  +++   E+  E   
Sbjct: 10  QLAAGQGIDPETLDAALSEALRLAYLKTPHAAKHARIELDPRAGSFTVWAQDEIPGEPTE 69

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                      D  P+  +G    D   P DFGR+A  +A+QVI Q  R+AE D+ +  F
Sbjct: 70  E----------DPHPAPTLGEEYDD--TPHDFGRLAAATARQVISQLFRKAEDDKVFGAF 117

Query: 135 KDKVGEIISGTVKRVEYG--NVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
             + G++I+G V++      NV V +G+ + ++ R E +  E  R G+R++ Y+ +V R 
Sbjct: 118 SGQKGKLITGIVQQDAKDTANVHVAVGDVEALLPRREQVPGERYRHGERIRVYVVNVARG 177

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            +GP++++SR+HP+ + +LF  EVPE+ +G V + A++R+ G+R K+AV ++   ++P G
Sbjct: 178 LKGPEIVVSRSHPELVRRLFEREVPELVSGAVSIMAIAREAGARTKIAVRANTEGVNPKG 237

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVI 311
           A +G  G+RV+AV+  L  EKIDIV WS D A FV  AL PA+ T V V+ E        
Sbjct: 238 ALIGPGGARVRAVMENLGPEKIDIVDWSADPAKFVAAALSPAVATGVQVISEKNNTAIAF 297

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +  +QLSLAIG+ GQN RLA++LTGW I I + E  +   Q+   E  +
Sbjct: 298 IHDDQLSLAIGKEGQNARLAAKLTGWKIGIESAEAHARKMQESAGESAE 346


>gi|262037365|ref|ZP_06010830.1| transcription termination factor NusA [Leptotrichia goodfellowii
           F0264]
 gi|261748622|gb|EEY35996.1| transcription termination factor NusA [Leptotrichia goodfellowii
           F0264]
          Length = 365

 Score =  369 bits (948), Expect = e-100,   Method: Composition-based stats.
 Identities = 125/346 (36%), Positives = 199/346 (57%), Gaps = 3/346 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M S ++   L+  D +  EK I ++ +L  +  ++  A +  YG   +  + IN ETG++
Sbjct: 1   MKSKDQRVFLEALDELEKEKGIIKEELLEAVETALLAAYKKNYGDKDNAEISINRETGEV 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            +F    +V+ VE    +ISL+ A        +GG +   +   +F R A+Q+AKQ+I+Q
Sbjct: 61  KVFSRKTIVQTVEKPEEEISLEDAIALKKKSKLGGTIDFEINAENFKRNAIQNAKQIIVQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPG 179
           KVRE E+   +  FK     I+S  V++  E GN+ +D+   + ++   E    +    G
Sbjct: 121 KVRECEKKNIFNRFKQIEKSIVSAVVRKTDEKGNLYIDINGLEAIVPEKELSEADKFIQG 180

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR+K Y+  V    +  +  LSR   + M  L ++E+PEI +G +Q+K ++R+ GSR K+
Sbjct: 181 DRLKVYVGAVEESTKYTKCFLSRKVEELMRGLLNLEIPEIEDGTIQIKQIAREAGSRTKI 240

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV+S D ++D  GAC+G  G R+Q+++ EL+ EK+D+V+W  D   FV NAL PA V  V
Sbjct: 241 AVYSDDPNLDVKGACIGKSGMRIQSIIDELKGEKVDVVLWDEDIRYFVKNALNPAEVISV 300

Query: 300 VLDED--VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
            + E+       V V +EQLSLAIG++GQN RLA++L G  IDI T
Sbjct: 301 EIIEEDGEQIARVEVDEEQLSLAIGKKGQNSRLAARLCGIKIDIHT 346


>gi|294790399|ref|ZP_06755557.1| transcription termination factor NusA [Scardovia inopinata F0304]
 gi|294458296|gb|EFG26649.1| transcription termination factor NusA [Scardovia inopinata F0304]
          Length = 372

 Score =  369 bits (948), Expect = e-100,   Method: Composition-based stats.
 Identities = 112/341 (32%), Positives = 189/341 (55%), Gaps = 15/341 (4%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           +A E+ I+ + + + ++++++ A           RVE++   G  +++   E+ +E    
Sbjct: 11  LAAEQGIEPERLDAALSEALRLAYLKTPHAARHARVELDERAGSFTVWAQKEIPQEPTEE 70

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
                     D  P   +G    D   P  FGR A   A+QVI    R+   D  +  F 
Sbjct: 71  ----------DPHPKPVLGEEYDD--TPEGFGRQAAYIARQVITALFRKVADDNIFGAFA 118

Query: 136 DKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
            + G++I+G V++   + GN+ + +G+ + ++ R E +  E  R G+RV+ Y+  V +  
Sbjct: 119 GQKGKLITGVVQQDSNDRGNLHIAVGDVEALLPRREQVPGERFRHGERVRVYVVSVNKGL 178

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGA 253
           +GP++++SR+HP+ + +LF  EVPE+  G VQ+ +++R+ G R K+AV ++   ++P G+
Sbjct: 179 KGPEIIVSRSHPELIRRLFEREVPELVTGAVQIMSIAREAGERTKIAVRANAQGVNPKGS 238

Query: 254 CVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIV 312
            +G  G RV+AV+  L +EKIDIV WS D A FV  AL PA   KV V+ E       ++
Sbjct: 239 LIGPAGQRVRAVMENLGNEKIDIVDWSEDPAKFVSAALSPAHAVKVSVVSERNKTAVALI 298

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
             +QLSLAIG+ GQN RLA++LTGW I I + E      ++
Sbjct: 299 HDDQLSLAIGKEGQNARLAAKLTGWKIGIESYEASQRKDEQ 339


>gi|167751252|ref|ZP_02423379.1| hypothetical protein EUBSIR_02238 [Eubacterium siraeum DSM 15702]
 gi|167655759|gb|EDR99888.1| hypothetical protein EUBSIR_02238 [Eubacterium siraeum DSM 15702]
 gi|291556761|emb|CBL33878.1| transcription termination factor NusA [Eubacterium siraeum V10Sc8a]
          Length = 370

 Score =  369 bits (948), Expect = e-100,   Method: Composition-based stats.
 Identities = 130/349 (37%), Positives = 202/349 (57%), Gaps = 4/349 (1%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M ++N  EL +    +A EK ID  V++  +  ++  A +  Y    +I+ +I+   G  
Sbjct: 1   MANSNTTELFEALTLLAKEKGIDPAVLIEKIQTALVIAIKKEYPRSENIKFDIDIAKGKF 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDR-DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
            +    EV  EVE+   QIS++ A+      ++ G +V+  L    FGR+A Q+AKQVI 
Sbjct: 61  DVAIQKEVAAEVEDDANQISMEEAKTHTRRKLEYGDIVAIKLDTQHFGRIAAQTAKQVIK 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEY--GNVIVDLGNSDGVIRRDETISRENLR 177
           Q ++E ER++   ++     E ++ TV + E   GN  V+L  ++  + R E I  E LR
Sbjct: 121 QGLKEIEREQLVAQWGGLQDEAVTVTVLKTEPRTGNATVNLNGNEVPLFRSEQIPGEVLR 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
           PGD VK Y+  V      P + +SR + + + +LF  EVPEIY+G V++KA+SR+ GSR+
Sbjct: 181 PGDMVKVYVSGVSATDHRPMLKISRVNKELVKRLFESEVPEIYDGTVEIKAISREAGSRS 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S++  +D +GAC+G    R+  V  EL  EK+D+V +S     F+  AL+P+ V 
Sbjct: 241 KVAVISNNPDVDALGACIGPGRQRISKVCAELGGEKMDVVFYSEKPEEFIAQALKPSDVI 300

Query: 298 KVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +V + D +V     IVP  QLSLAIG +GQN +LA++LTG+ IDI  E 
Sbjct: 301 RVEIPDPEVKACTAIVPDNQLSLAIGNKGQNAKLAAKLTGFKIDIRPES 349


>gi|313886723|ref|ZP_07820432.1| transcription termination factor NusA [Porphyromonas
           asaccharolytica PR426713P-I]
 gi|312923825|gb|EFR34625.1| transcription termination factor NusA [Porphyromonas
           asaccharolytica PR426713P-I]
          Length = 469

 Score =  369 bits (948), Expect = e-100,   Method: Composition-based stats.
 Identities = 131/424 (30%), Positives = 233/424 (54%), Gaps = 15/424 (3%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYTC 77
           K+ID + +L V+ DS +     ++G+  +  V IN ++GD  ++R  EVV +  VE    
Sbjct: 21  KNIDEETMLHVLEDSFRSILAKMFGSDDNFDVIINADSGDFEIWRTREVVADDAVERENE 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           Q++   AR+ DP  +IG  V+D +  + FGR A+ + +Q +  K+ + +++  Y  F ++
Sbjct: 81  QVAYTEAREIDPEAEIGDDVTDSVDFLSFGRRAIVNLRQTLSSKILDLQKEHFYQTFIER 140

Query: 138 VGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VGE+I+  V +V     ++VD   ++ ++ + E I  E  R GD V + I  V  E   P
Sbjct: 141 VGELITAEVYQVWKRETLLVDEDGNELIMPKSEQIPDEYFRKGDSVHAVIARVDNENNNP 200

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           +V LSRT P+F+ +LF + VPEI +G++ +K V+R PG RAK+AV S D  IDPVG+CVG
Sbjct: 201 RVTLSRTSPEFLKRLFEINVPEIADGLITIKRVARIPGVRAKIAVESYDDRIDPVGSCVG 260

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           M GSR++ +V EL  E ID++ ++ + + F+  AL PA ++ + L  +  + EV +  E 
Sbjct: 261 MNGSRIRGIVRELHGENIDVLTYTANDSLFIQRALSPAKISSIELYPETAKAEVYLRPED 320

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLL 376
           + LAIG+   N++LAS LTG+ I++  +  D+     + +     F     +++ +  +L
Sbjct: 321 VPLAIGKNASNIKLASVLTGFEIEVFRDAADT----TEEDIYLSEFSD--EIEDWVIKML 374

Query: 377 VAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE 436
           +  G      +     +E+      + ET   +       +   +  L++ + E+G+ +E
Sbjct: 375 LDIGLNTARAVLTTSRTELLKKTDLEIETIDRVLR-----ILSSEFDLEE-LEEMGLPQE 428

Query: 437 LCSI 440
              +
Sbjct: 429 NIDL 432


>gi|298345265|ref|YP_003717952.1| transcription elongation factor [Mobiluncus curtisii ATCC 43063]
 gi|298235326|gb|ADI66458.1| transcription elongation factor [Mobiluncus curtisii ATCC 43063]
          Length = 328

 Score =  369 bits (947), Expect = e-99,   Method: Composition-based stats.
 Identities = 128/340 (37%), Positives = 188/340 (55%), Gaps = 25/340 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLLEV 68
           +     V  EK +D + ++  +  ++ KA R+  G      RVE++ +TG++ +      
Sbjct: 5   MSALRLVEAEKGMDMNSLIDTVEQALLKAYRNQPGAEKEHSRVEVDRKTGEVRVL----- 59

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           V E++    ++                     + P DFGR A  + K VIIQ+ +E E  
Sbjct: 60  VNELDEDGTELG-----------------ESEITPKDFGRTAAATVKSVIIQRFQEEEDK 102

Query: 129 RQYLEFKDKVGEIISGTVK-RVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
               +FKD+VG+++SG V    +   V V+LG+ +G+I   E +  E  + G R+  Y+ 
Sbjct: 103 AVLGDFKDRVGQVVSGVVTAGRDPKLVTVNLGDVEGIIPPAEQVPGEKYQHGVRLSVYVL 162

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
              R  +GP + LSRTHP  +  LF  EVPEI    V +++V+R+PG R K+AV  ++  
Sbjct: 163 AASRGFKGPHIELSRTHPGLVQGLFKREVPEIDREEVVIESVAREPGHRTKIAVRPTEKG 222

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVG 306
           I+  GAC+G  GSRV+AV+ EL  EKIDIV W+ D   +V NAL PA V  V V+DE   
Sbjct: 223 INAKGACIGPNGSRVRAVMNELNGEKIDIVDWAEDPTVYVANALSPAKVISVRVIDEAKR 282

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
              V+VP  Q SLAIG+ GQN RLAS+LTGW IDI ++ E
Sbjct: 283 LARVVVPDFQQSLAIGKEGQNARLASRLTGWGIDIHSDTE 322


>gi|229496539|ref|ZP_04390253.1| transcription termination factor NusA [Porphyromonas endodontalis
           ATCC 35406]
 gi|229316436|gb|EEN82355.1| transcription termination factor NusA [Porphyromonas endodontalis
           ATCC 35406]
          Length = 455

 Score =  368 bits (946), Expect = 1e-99,   Method: Composition-based stats.
 Identities = 122/407 (29%), Positives = 227/407 (55%), Gaps = 9/407 (2%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYTC 77
           K+ID++ +++V+  +       ++GT  +  + ++PE GD+ ++R   VV +  V+N   
Sbjct: 21  KNIDKETLINVLKSAFMSVLSKMFGTDENFTIIVSPEMGDLEIWRNRMVVADGSVQNPNL 80

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +ISL  A   DP  +IG  V+D +    FGR A+ + +Q +  KV E +++  Y +F+++
Sbjct: 81  EISLSDALPLDPDAEIGSEVTDSINFASFGRRAILNLRQALQGKVLELQKENLYKKFQER 140

Query: 138 VGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG+++S  V +V     ++VD   ++ ++ + E I  +  R G+ V + I  V  E    
Sbjct: 141 VGQMVSAEVYQVWKREALLVDDEGNELLLPKSEQIPGDYFRKGESVHAVIDHVDYENNNI 200

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
           ++ +SRT  +F+ +LF + VPEI +G++ +K V+R PG RAK+AV S D  IDPVGACVG
Sbjct: 201 KIYVSRTSQEFLKRLFELNVPEIGDGLITIKRVARIPGERAKMAVESYDDRIDPVGACVG 260

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           M GSR++ +V EL+ E ID++ ++ +S+ FV  AL PA V+ + +  +  + EV +  E+
Sbjct: 261 MNGSRIRGIVRELKGENIDVMSYTTNSSLFVQRALSPAKVSSIEILPEELKAEVYLSPEE 320

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLL 376
           + +AIG+   N++LAS LTG+ I++  + E++     + +     F     +++ +  +L
Sbjct: 321 VPMAIGKNASNIKLASALTGYKIEVFRDIEEN----DEEDIFLNEFND--EIEDWVLEVL 374

Query: 377 VAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
              G      +  +  +E+ S    +E T   +        +  ++ 
Sbjct: 375 KNIGCNTALSVLRIPRAELISKADLEESTVDHVLEVLSSEFDPEELE 421


>gi|315655685|ref|ZP_07908583.1| transcription termination factor NusA [Mobiluncus curtisii ATCC
           51333]
 gi|315489749|gb|EFU79376.1| transcription termination factor NusA [Mobiluncus curtisii ATCC
           51333]
          Length = 328

 Score =  368 bits (946), Expect = 1e-99,   Method: Composition-based stats.
 Identities = 128/340 (37%), Positives = 189/340 (55%), Gaps = 25/340 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLLEV 68
           +     V  EK +D + ++  +  ++ KA R+  G      RVE++ +TG++ +      
Sbjct: 5   MSALRLVEAEKGMDMNSLIDTVEQALLKAYRNQPGAEKEHSRVEVDRKTGEVRVL----- 59

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           V+E++    ++                     + P DFGR A  + K VIIQ+ +E E  
Sbjct: 60  VKELDEDGTELG-----------------ESEITPKDFGRTAAATVKSVIIQRFQEEEDK 102

Query: 129 RQYLEFKDKVGEIISGTVK-RVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
               +FKD+VG+++SG V    +   V V+LG+ +G+I   E +  E  + G R+  Y+ 
Sbjct: 103 AVLGDFKDRVGQVVSGVVTAGRDPKLVTVNLGDVEGIIPPAEQVPGEKYQHGVRLSVYVL 162

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
              R  +GP + LSRTHP  +  LF  EVPEI    V +++V+R+PG R K+AV  ++  
Sbjct: 163 AASRGFKGPHIELSRTHPGLVQGLFKREVPEIDREEVVIESVAREPGHRTKIAVRPTEKG 222

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVG 306
           I+  GAC+G  GSRV+AV+ EL  EKIDIV W+ D   +V NAL PA V  V V+DE   
Sbjct: 223 INAKGACIGPNGSRVRAVMNELNGEKIDIVDWAEDPTVYVANALSPAKVISVRVIDEAKR 282

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
              V+VP  Q SLAIG+ GQN RLAS+LTGW IDI ++ E
Sbjct: 283 LARVVVPDFQQSLAIGKEGQNARLASRLTGWGIDIHSDTE 322


>gi|308235445|ref|ZP_07666182.1| transcription elongation factor NusA [Gardnerella vaginalis ATCC
           14018]
 gi|311114226|ref|YP_003985447.1| transcription termination factor NusA [Gardnerella vaginalis ATCC
           14019]
 gi|310945720|gb|ADP38424.1| transcription termination factor NusA [Gardnerella vaginalis ATCC
           14019]
          Length = 349

 Score =  368 bits (945), Expect = 1e-99,   Method: Composition-based stats.
 Identities = 120/344 (34%), Positives = 197/344 (57%), Gaps = 19/344 (5%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV--VEEV 72
            +A ++ I+ + +   +A++++ A           RVE++   G  +++   E+  V   
Sbjct: 10  QLAAQQGINAEELDEALAEALRLAYMKTSHPARHARVELDERAGSFTVWAKDEIPGVPTE 69

Query: 73  ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYL 132
           +N              P+  +G    D   P DFGR+A  +A+QVI Q  R+ E DR + 
Sbjct: 70  DNP------------HPAPTLGEEYDD--TPRDFGRLAAATARQVITQLFRKVEDDRVFG 115

Query: 133 EFKDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVR 190
            F  + G++I+G V++   +  N+ V +G+ + ++ R E +  E  R G+R++ Y+ +V 
Sbjct: 116 AFSGQKGKLINGVVQQDSKDPSNIHVAVGDVEAILPRREQVPGERYRHGERIRVYVVNVA 175

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDP 250
           R  RGP++++SR+HP  + +LF  EVPE+ +G V + A++R+ G+R K+AV ++   ++P
Sbjct: 176 RGLRGPEIVVSRSHPDLVRRLFEREVPELVSGAVSIMAIAREAGARTKIAVRANTEGVNP 235

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIE 309
            GA +G  GSRV+AV+  L  EKIDIV WS D A FV  AL PA  T+V V+ E      
Sbjct: 236 KGALIGPGGSRVRAVMENLGPEKIDIVDWSEDPAKFVAAALSPATATQVHVVSEKSQTAV 295

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
             +   QLSLAIG+ GQN RLA++LTGW I I + EE +  +++
Sbjct: 296 AFIHDSQLSLAIGKEGQNARLAAKLTGWKIGIESAEEHAKKQEE 339


>gi|291531685|emb|CBK97270.1| transcription termination factor NusA [Eubacterium siraeum 70/3]
          Length = 370

 Score =  368 bits (945), Expect = 1e-99,   Method: Composition-based stats.
 Identities = 129/349 (36%), Positives = 202/349 (57%), Gaps = 4/349 (1%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M ++N  EL +    +A EK ID  V++  +  ++  A +  Y    +I+ +I+   G  
Sbjct: 1   MANSNTTELFEALTLLAKEKGIDPAVLIEKIQTALVIAIKKEYPRSENIKFDIDIAKGKF 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDR-DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
            +    EV  EVE+   QIS++ A+      ++ G +V+  L    FGR+A Q+AKQVI 
Sbjct: 61  DVAIQKEVAAEVEDDANQISMEEAKTHTRRKLEYGDIVAIKLDTQHFGRIAAQTAKQVIK 120

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEY--GNVIVDLGNSDGVIRRDETISRENLR 177
           Q ++E ER++   ++     E ++ TV + E   GN  V+L  ++  + R E I  E L+
Sbjct: 121 QGLKEIEREQLVAQWGGLQDEAVTVTVLKTEPRTGNATVNLNGNEVPLFRSEQIPGEVLK 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
           PGD VK Y+  V      P + +SR + + + +LF  EVPEIY+G V++KA+SR+ GSR+
Sbjct: 181 PGDMVKVYVSGVSATDHRPMLKISRVNKELVKRLFESEVPEIYDGTVEIKAISREAGSRS 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S++  +D +GAC+G    R+  V  EL  EK+D+V +S     F+  AL+P+ V 
Sbjct: 241 KVAVISNNPDVDALGACIGPGRQRISKVCAELGGEKMDVVFYSEKPEEFIAQALKPSDVI 300

Query: 298 KVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +V + D +V     IVP  QLSLAIG +GQN +LA++LTG+ IDI  E 
Sbjct: 301 RVEIPDPEVKACTAIVPDNQLSLAIGNKGQNAKLAAKLTGFKIDIRPES 349


>gi|205373420|ref|ZP_03226224.1| transcription elongation factor NusA [Bacillus coahuilensis m4-4]
          Length = 286

 Score =  367 bits (944), Expect = 2e-99,   Method: Composition-based stats.
 Identities = 104/266 (39%), Positives = 175/266 (65%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL   D +  EK I RD+++  +  ++  A +  +    ++RV+++ E G I +F   E
Sbjct: 4   ELLDALDYLEKEKGIARDILIDAIEAALVSAYKRNFNQAQNVRVDLHQENGTIRVFARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +V++V +   +IS++ A+   P  ++G +V   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  IVDQVFDPRLEISIEDAKQIHPGYEVGDIVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R++   + V LG  + ++   E +  E+ +P DR+K ++ 
Sbjct: 124 GIIYSEFIDREEDIMTGIVQRLDNRYIYVALGKIEALLPISEQMPNESYKPHDRIKVFLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF +EVPEI++G V++K+VSR+ G R+K++V + +  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEIEVPEIFDGTVEIKSVSREAGDRSKISVHAENPE 243

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEK 273
           +DPVGACVG +G+RVQA+V EL+ EK
Sbjct: 244 VDPVGACVGSKGTRVQAIVNELKGEK 269


>gi|304390822|ref|ZP_07372774.1| transcription termination factor NusA [Mobiluncus curtisii subsp.
           curtisii ATCC 35241]
 gi|304325705|gb|EFL92951.1| transcription termination factor NusA [Mobiluncus curtisii subsp.
           curtisii ATCC 35241]
          Length = 328

 Score =  367 bits (944), Expect = 2e-99,   Method: Composition-based stats.
 Identities = 128/340 (37%), Positives = 190/340 (55%), Gaps = 25/340 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLLEV 68
           +     V  EK +D + +++ +  ++ KA R+  G      RVE++ +TG++ +      
Sbjct: 5   MSALRLVEAEKGMDMNSLINTVEQALLKAYRNQPGAEKEHSRVEVDRKTGEVRVL----- 59

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           V+E++    ++                     + P DFGR A  + K VIIQ+ +E E  
Sbjct: 60  VKELDEDGTELG-----------------ESEITPKDFGRTAAATVKSVIIQRFQEEEDK 102

Query: 129 RQYLEFKDKVGEIISGTVK-RVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
               +FKD+VG+++SG V    +   V V+LG+ +G+I   E +  E  + G R+  Y+ 
Sbjct: 103 AVLGDFKDRVGQVVSGVVTAGRDPKLVTVNLGDVEGIIPPAEQVPGEKYQHGVRLSVYVL 162

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
              R  +GP + LSRTHP  +  LF  EVPEI    V +++V+R+PG R K+AV  ++  
Sbjct: 163 AASRGFKGPHIELSRTHPGLVQGLFKREVPEIDREEVVIESVAREPGHRTKIAVRPTEKG 222

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVG 306
           I+  GAC+G  GSRV+AV+ EL  EKIDIV W+ D   +V NAL PA V  V V+DE   
Sbjct: 223 INAKGACIGPNGSRVRAVMNELNGEKIDIVDWAEDPTVYVANALSPAKVISVRVIDEAKR 282

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
              V+VP  Q SLAIG+ GQN RLAS+LTGW IDI ++ E
Sbjct: 283 LARVVVPDFQQSLAIGKEGQNARLASRLTGWGIDIHSDTE 322


>gi|220907502|ref|YP_002482813.1| transcription elongation factor NusA [Cyanothece sp. PCC 7425]
 gi|219864113|gb|ACL44452.1| NusA antitermination factor [Cyanothece sp. PCC 7425]
          Length = 413

 Score =  367 bits (943), Expect = 3e-99,   Method: Composition-based stats.
 Identities = 128/363 (35%), Positives = 200/363 (55%), Gaps = 29/363 (7%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARS----------LYGTM--SDIRVEINPE 56
           L ++ +A++ E+++ +  V   + +++ K               +      +  VEI+ E
Sbjct: 9   LREMINAISRERNLPKYAVQGALQEALMKGYERYRRTLRLEGGHFDEDYFQNFDVEIDVE 68

Query: 57  TGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQSA 114
                +     +VE+V+N   QISL   ++      +G  V   + P   +FGR+A   A
Sbjct: 69  EEGFRVLATKTIVEQVDNPDHQISLSEVQEVAAEAQLGDTVILDVTPEQQEFGRMAAIQA 128

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIRRD 168
           KQV+ QK+R+ +R     EF+D    ++   V R E  +VI+ + +       +  + + 
Sbjct: 129 KQVLAQKLRDQQRKLVQEEFQDLESTVLQARVLRFERRSVIMAVSSGFGQPEVEAELPKK 188

Query: 169 ETISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVK 227
           E +  +N R     K Y+  V     RGPQ+L+SR     +V LF  EVPEI + +V++ 
Sbjct: 189 EQLPNDNYRANATFKVYLKKVLEGPHRGPQLLVSRADAGLVVYLFANEVPEIEDEVVRIV 248

Query: 228 AVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
           AV+R+        G R K+AV + +  +DPVGAC+G RGSR+QAVV ELR EKID++ WS
Sbjct: 249 AVAREANPPSRQVGPRTKIAVDTLERDVDPVGACIGARGSRIQAVVNELRGEKIDVIRWS 308

Query: 281 PDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
           PD AT++ NAL PA V +V L + +  +  ++V  +QLSLAIG+ GQNVRLA++LTGW I
Sbjct: 309 PDPATYIANALSPARVEEVRLMNPEERQAHILVTDDQLSLAIGKEGQNVRLAARLTGWKI 368

Query: 340 DII 342
           DI 
Sbjct: 369 DIK 371


>gi|37523058|ref|NP_926435.1| transcription elongation factor NusA [Gloeobacter violaceus PCC
           7421]
 gi|35214061|dbj|BAC91430.1| glr3489 [Gloeobacter violaceus PCC 7421]
          Length = 383

 Score =  367 bits (943), Expect = 3e-99,   Method: Composition-based stats.
 Identities = 132/367 (35%), Positives = 201/367 (54%), Gaps = 29/367 (7%)

Query: 13  ADAVAYEKSIDRDVVLSVMADSIQKAA---RSLYG---------TMSDIRVEINPETGDI 60
            + ++ ++++ +  V   + ++++K     R  Y             +  VE++ +    
Sbjct: 13  IETISRQRNLPKHAVKEALIEALKKGYERFRKTYRDPRENSEEMAFDNFIVELDTDREGF 72

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQSAKQVI 118
            +     +VE V +   +I+L   R+  P  + GG V   + P   DFGR+A    KQV+
Sbjct: 73  RVLATKTIVETVSDTDQEIALIEVREVAPDAEPGGTVVVDVTPEKGDFGRMAAIQTKQVL 132

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETIS 172
            QK+R+ +R     EF++  G ++   V R E  +VI  +         +  + ++E + 
Sbjct: 133 SQKLRDQQRKLIQEEFRELEGTVLQARVMRFEGRSVICAVSSGFGQNEVEAELPKNEQLP 192

Query: 173 RENLRPGDRVKSYIYDVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSR 231
            E  R G   K ++  V    R GPQ+L+SR     +V LF  EVPEI + IV++ AV+R
Sbjct: 193 NEPYRIGSAFKVFLRKVWEGSRRGPQLLVSRADAGLVVYLFANEVPEIEDEIVRIVAVAR 252

Query: 232 DP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSA 284
           +        G R K+AV + +  +DPVGAC+G RGSR+QAVV ELR EKID++ WSPD A
Sbjct: 253 EANPPSRTVGPRTKIAVDTLERDVDPVGACIGARGSRIQAVVNELRGEKIDVIRWSPDPA 312

Query: 285 TFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           T++ NAL PA V +V ++D D  +  VIVP +QLSLAIG+ GQNVRLA++LTGW IDI  
Sbjct: 313 TYISNALSPARVIQVRLVDPDARQAHVIVPDDQLSLAIGKEGQNVRLAARLTGWKIDIKK 372

Query: 344 EEEDSIN 350
             E S  
Sbjct: 373 SSEYSAE 379


>gi|119485069|ref|ZP_01619454.1| transcription elongation factor NusA [Lyngbya sp. PCC 8106]
 gi|119457297|gb|EAW38422.1| transcription elongation factor NusA [Lyngbya sp. PCC 8106]
          Length = 409

 Score =  367 bits (942), Expect = 3e-99,   Method: Composition-based stats.
 Identities = 133/378 (35%), Positives = 207/378 (54%), Gaps = 31/378 (8%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARS-----------LYGTMSDI 49
           MVS   L+   +   ++ E+++ +  V   + +++ K                     + 
Sbjct: 3   MVSLPGLK--DMIQNISQERNLPKQAVEEALREALLKGYERYRRTVQINTQFTEDYFDNF 60

Query: 50  RVEINPETGDISLFRL-LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DF 106
            VE++ E     +    L +VEEV N   QISL+  R+  P   +G  V+  + P   DF
Sbjct: 61  DVELDVEEEGFRVLAKNLTIVEEVTNQDHQISLQDVREVAPEAQLGDTVTLDVTPEQSDF 120

Query: 107 GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------ 160
           GR+A    KQV+ QK+R+ +R     EFKD    ++   V R E  +VI+ + +      
Sbjct: 121 GRMAAIQTKQVLAQKLRDQQRKMIQDEFKDLESSVLQARVLRFERQSVIMSVNSGFGHQE 180

Query: 161 SDGVIRRDETISRENLRPGDRVKSYIYDVRRE-QRGPQVLLSRTHPQFMVKLFHMEVPEI 219
            +  + + E +  +N R     + Y+  V +  QRGPQ+++SR     +V LF  EVPEI
Sbjct: 181 VEAELPKREQLPNDNYRANATFRVYLKRVSQGSQRGPQLIVSRADAGLVVYLFANEVPEI 240

Query: 220 YNGIVQVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDE 272
            + +V++ AV+R+        G R K+AV + D  +DPVGAC+G RGSR+Q VV ELR E
Sbjct: 241 EDEVVRIVAVAREANPPSTHVGPRTKIAVDTLDRDVDPVGACIGARGSRIQVVVNELRGE 300

Query: 273 KIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLA 331
           KID++ WSPD +T++ NAL PA V +V +++ +  R  ++VP++QLSLAIG+ GQNVRLA
Sbjct: 301 KIDVIRWSPDPSTYIANALSPARVDEVRLVNPEERRAHILVPEDQLSLAIGKEGQNVRLA 360

Query: 332 SQLTGWTIDIITEEEDSI 349
           ++LTGW IDI    +   
Sbjct: 361 ARLTGWKIDIKDTAKYDA 378


>gi|223984472|ref|ZP_03634605.1| hypothetical protein HOLDEFILI_01899 [Holdemania filiformis DSM
           12042]
 gi|223963543|gb|EEF67922.1| hypothetical protein HOLDEFILI_01899 [Holdemania filiformis DSM
           12042]
          Length = 571

 Score =  367 bits (942), Expect = 4e-99,   Method: Composition-based stats.
 Identities = 141/414 (34%), Positives = 227/414 (54%), Gaps = 6/414 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLF 63
           N  E L+    +  ++ I +++V++ + +++ KA R         +RV+IN   G I ++
Sbjct: 2   NFKEFLKAMQTIEDDRKITKEIVIAALQEALAKAYRKHIDIPDVLVRVDINEANGQIHVY 61

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           +   VVEEVE+   +++L   +  D    +G +V   +     GR A   AK V+ QK+R
Sbjct: 62  QQYTVVEEVEDEELEVALADVK--DKGYQLGDLVDHEVDISQIGRAAALLAKNVMKQKIR 119

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           EAE+   Y E+ D++ E+++G ++ VE   V+V+LG +  ++ R   I  E    G  ++
Sbjct: 120 EAEKQAVYDEYIDQLDEMVTGMIESVEEKFVVVNLGKTMALMPRAAQIPGERYVEGQSIR 179

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
             I +  ++ +G QVL+SR+  + + +LF  EVPEIY G+V++KA++R+ G R K+AV+S
Sbjct: 180 VVITECNKDTKGAQVLVSRSDAKLVKRLFEKEVPEIYQGVVEIKAIAREAGERTKMAVWS 239

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           ++  +D +GAC+G RGSRVQ V+ EL+ EKIDI  WS + +  + NAL PA +  V+  E
Sbjct: 240 NNPDVDAIGACIGPRGSRVQVVIDELKGEKIDIFEWSDNISELIKNALAPAQILAVLPTE 299

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   + V+V   QLSLAIG++G+N RLA +LTG  IDI T  E             QF  
Sbjct: 300 DKRSLLVVVEDNQLSLAIGKKGKNARLAVKLTGMRIDIKTAGEIEEQGIDWKTMMLQFAA 359

Query: 364 QAIN--VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           +      ++ IA  L   G  +VE     +   +       EE A  +Q    E
Sbjct: 360 EEQKRLAEQRIAKQLEEAGVQEVETEPDDEQEAVIETPEVSEE-AETVQEAVVE 412


>gi|315656401|ref|ZP_07909290.1| transcription termination factor NusA [Mobiluncus curtisii subsp.
           holmesii ATCC 35242]
 gi|315492960|gb|EFU82562.1| transcription termination factor NusA [Mobiluncus curtisii subsp.
           holmesii ATCC 35242]
          Length = 328

 Score =  366 bits (941), Expect = 4e-99,   Method: Composition-based stats.
 Identities = 128/340 (37%), Positives = 189/340 (55%), Gaps = 25/340 (7%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLLEV 68
           +     V  EK +D + ++  +  ++ KA R+  G      RVE++ +TG++ +      
Sbjct: 5   MSALRLVEAEKGMDMNSLIDTVEQALLKAYRNQSGAEKEHSRVEVDRKTGEVRVL----- 59

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           V+E++    ++                     + P DFGR A  + K VIIQ+ +E E  
Sbjct: 60  VKELDEDGTELG-----------------ESEITPKDFGRTAAATVKSVIIQRFQEEEDK 102

Query: 129 RQYLEFKDKVGEIISGTVK-RVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
               +FKD+VG+++SG V    +   V V+LG+ +G+I   E +  E  + G R+  Y+ 
Sbjct: 103 AVLGDFKDRVGQVVSGVVTAGRDPKLVTVNLGDVEGIIPPAEQVPGEKYQHGVRLSVYVL 162

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
              R  +GP + LSRTHP  +  LF  EVPEI    V +++V+R+PG R K+AV  ++  
Sbjct: 163 AASRGFKGPHIELSRTHPGLVQGLFKREVPEIDREEVVIESVAREPGHRTKIAVRPTEKG 222

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVG 306
           I+  GAC+G  GSRV+AV+ EL  EKIDIV W+ D   +V NAL PA V  V V+DE   
Sbjct: 223 INAKGACIGPNGSRVRAVMNELNGEKIDIVDWAEDPTVYVANALSPAKVISVRVIDEAKR 282

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
              V+VP  Q SLAIG+ GQN RLAS+LTGW IDI ++ E
Sbjct: 283 LARVVVPDFQQSLAIGKEGQNARLASRLTGWGIDIHSDTE 322


>gi|186685820|ref|YP_001869016.1| transcription elongation factor NusA [Nostoc punctiforme PCC 73102]
 gi|186468272|gb|ACC84073.1| NusA antitermination factor [Nostoc punctiforme PCC 73102]
          Length = 425

 Score =  365 bits (939), Expect = 7e-99,   Method: Composition-based stats.
 Identities = 132/375 (35%), Positives = 207/375 (55%), Gaps = 29/375 (7%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAA----------RSLYGTM--SDIRVEINPE 56
           L ++ ++++ E+++ R  V S + +++ K            R  +      +  VE++ +
Sbjct: 9   LKELIESISRERNLPRLAVQSAIREALLKGYERYRRAQNLERKQFDEDYFENFEVELDID 68

Query: 57  TGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQSA 114
                +     +VEEV N   QISL   +   P   +G  V   + P   +FGR+A    
Sbjct: 69  GEGFRVLSTKTIVEEVNNTDHQISLDEVQQVAPEAQLGDSVVLDVTPDQGEFGRMAAMQT 128

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIRRD 168
           KQV+ QK+R+ +R     EF+D  G ++   V R E  +V++ + +       +  + + 
Sbjct: 129 KQVLAQKLRDQQRQMVQEEFQDLEGTVLQARVLRFERQSVVLAVSSGFGQPEVEAELPKR 188

Query: 169 ETISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVK 227
           E +  +N R     K Y+  V + Q RGPQ+L+SR     +V LF  EVPEI + +V++ 
Sbjct: 189 EQLPNDNYRANATFKVYLKKVSQGQQRGPQLLVSRADAGLVVYLFANEVPEIEDEVVRIV 248

Query: 228 AVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
           AV+R+        G R K+AV + D  +DPVGAC+G RGSR+Q VV ELR EKID++ WS
Sbjct: 249 AVAREANPPSRYVGPRTKIAVDTLDRDVDPVGACIGARGSRIQVVVNELRGEKIDVIRWS 308

Query: 281 PDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
           PD AT++ NAL PA V +V L D +  +  V+V ++QLSLAIG+ GQNVRLA++LTGW I
Sbjct: 309 PDPATYIANALSPARVDEVRLMDPESRQTHVLVAEDQLSLAIGKEGQNVRLAARLTGWKI 368

Query: 340 DIITEEEDSINRQKD 354
           DI  + +     + +
Sbjct: 369 DIKDKAKYDYAGEDE 383


>gi|50954461|ref|YP_061749.1| transcription elongation factor NusA [Leifsonia xyli subsp. xyli
           str. CTCB07]
 gi|50950943|gb|AAT88644.1| transcription termination/antitermination factor [Leifsonia xyli
           subsp. xyli str. CTCB07]
          Length = 332

 Score =  365 bits (938), Expect = 1e-98,   Method: Composition-based stats.
 Identities = 119/345 (34%), Positives = 192/345 (55%), Gaps = 31/345 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD-------IRVEINPETGDISL 62
           L +   +  E+ I  + ++ ++  +I  A                  RV ++ +TG +++
Sbjct: 5   LSVLRLMEREREIPFEELVQIIEQAILTAYLKHTDQADHRHGEPPAARVHLDRKTGHVTV 64

Query: 63  FRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           +                      +RD   ++ G   D   P DFGR+A  +AKQVI Q++
Sbjct: 65  Y--------------------VPERDDDGNVIGEAED--SPSDFGRIAAFAAKQVINQRL 102

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           R+   D    EF+   G+I++G +++      V +DLG+ + ++  +E +  E    G R
Sbjct: 103 RDLADDAVLGEFRGCEGDIVAGVIQQGPNPRMVHIDLGSVEAILPPEEQVHGEEYPHGSR 162

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ Y+  V +  +GP + +SRTHP  + KLF +EVPEI +G+V++ +++R+ G R K+AV
Sbjct: 163 IRVYVTSVAKGPKGPSITVSRTHPTLVRKLFALEVPEIASGVVEIVSIAREAGHRTKIAV 222

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK-VV 300
            +++  ++  GAC+G  G RV+AV  EL  EKIDIV +SPD ATFV +AL PA VT   V
Sbjct: 223 RATEPGVNAKGACIGELGQRVRAVTAELNSEKIDIVDYSPDLATFVSSALSPAKVTSAFV 282

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +DE +  +  +VP  QLSLAIG+ GQN RLA++LTG  IDI  + 
Sbjct: 283 IDESLKAVRALVPDYQLSLAIGKEGQNARLAAKLTGAKIDIQPDS 327


>gi|298490031|ref|YP_003720208.1| NusA antitermination factor ['Nostoc azollae' 0708]
 gi|298231949|gb|ADI63085.1| NusA antitermination factor ['Nostoc azollae' 0708]
          Length = 425

 Score =  365 bits (938), Expect = 1e-98,   Method: Composition-based stats.
 Identities = 131/363 (36%), Positives = 202/363 (55%), Gaps = 29/363 (7%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAA----------RSLYGTM--SDIRVEINPE 56
           L ++ ++++ E+++ R  V S + +++ K            R  +      +  VE++ +
Sbjct: 9   LKELIESISRERNLPRLAVQSSIREALLKGYERYRRAQNLERKQFDEDYFDNFEVELDID 68

Query: 57  TGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQSA 114
                +     +VE+V N   QISL+  +   P    G  V   + P   +FGR+A    
Sbjct: 69  GEGFRVLSTKTIVEQVNNSDHQISLEEVQQVAPEAQSGDSVVLDVTPDQGEFGRMAAMQT 128

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIRRD 168
           KQV+ QK+R+ +R     EF+D    ++   V R E  +VI+ + +       +  + + 
Sbjct: 129 KQVLAQKLRDQQRQMVQEEFQDLESTVLQARVLRFERQSVILAVTSGFGQPEVEAELPKR 188

Query: 169 ETISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVK 227
           E +  +N R     K Y+  V + Q RGPQ+L+SR     +V LF  EVPEI + +V++ 
Sbjct: 189 EQLPNDNYRANATFKVYLKKVSQGQQRGPQLLVSRADAGLVVYLFANEVPEIEDEVVRIV 248

Query: 228 AVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
           AV+R+        G R K+AV + D  +DPVGAC+G RGSR+Q VV ELR EKID++ WS
Sbjct: 249 AVAREANPPSRYVGPRTKIAVDTLDRDVDPVGACIGARGSRIQVVVNELRGEKIDVIRWS 308

Query: 281 PDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
           PD AT++ NAL PA V +V L D +  +  V+V ++QLSLAIG+ GQNVRLA++LTGW I
Sbjct: 309 PDPATYIANALSPARVDEVRLMDPESRQTHVLVAEDQLSLAIGKEGQNVRLAARLTGWKI 368

Query: 340 DII 342
           DI 
Sbjct: 369 DIK 371


>gi|313115476|ref|ZP_07800941.1| transcription termination factor NusA [Faecalibacterium cf.
           prausnitzii KLE1255]
 gi|310622186|gb|EFQ05676.1| transcription termination factor NusA [Faecalibacterium cf.
           prausnitzii KLE1255]
          Length = 368

 Score =  365 bits (938), Expect = 1e-98,   Method: Composition-based stats.
 Identities = 139/352 (39%), Positives = 210/352 (59%), Gaps = 8/352 (2%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGD 59
           M +AN  E  +    + +E+ I  + ++  +  +I  A +  Y      ++V+I+P  G 
Sbjct: 1   MAAANN-EFFEALSMLEHERGITAEYLIEKIKAAIIIAVKKNYEVEEDHVKVDIDPAAGR 59

Query: 60  ISLFRLLEVV--EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQV 117
             +  + +VV  E+  +   +I +  A+    S ++G  +  PL   DFGR+A Q+AK V
Sbjct: 60  FDVALIQDVVADEDWYDEHSEIGITEAQKIRKSYEVGDRIVTPLKTKDFGRIAAQTAKHV 119

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRV--EYGNVIVDLGNS-DGVIRRDETISRE 174
           I Q +REAER +Q  E + +  +I+  TV RV  E G V +DLG   + ++  +E +  E
Sbjct: 120 IRQGIREAERSQQLSEIQSRAHDIVQATVTRVDPEKGIVALDLGKGGEAILPHNEQVPGE 179

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
               G  ++ Y+ DV   +RGP+V++SRTHP  + +LF +EVPEI++G V+VKA+SR+ G
Sbjct: 180 VYTEGQTLQVYVVDVVSTERGPRVMISRTHPGLVKRLFELEVPEIFDGTVEVKAISREAG 239

Query: 235 SRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA 294
           +R K+AV+S D +++PV AC+G  G+RV AVV +L  EKIDIV WS D + F+  AL PA
Sbjct: 240 ARTKMAVWSKDPNVNPVSACIGEHGARVAAVVEKLGGEKIDIVKWSEDISEFISAALSPA 299

Query: 295 IVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
            V KV L         V VP +QLSLAIG +GQN RL ++LTG+ IDI  E 
Sbjct: 300 KVVKVELLPGETRSCRVTVPDQQLSLAIGNKGQNARLCARLTGYNIDIRPES 351


>gi|237736658|ref|ZP_04567139.1| transcription elongation factor NusA [Fusobacterium mortiferum ATCC
           9817]
 gi|229420520|gb|EEO35567.1| transcription elongation factor NusA [Fusobacterium mortiferum ATCC
           9817]
          Length = 354

 Score =  365 bits (937), Expect = 1e-98,   Method: Composition-based stats.
 Identities = 131/334 (39%), Positives = 205/334 (61%), Gaps = 3/334 (0%)

Query: 21  SIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--EEVENYTCQ 78
            I ++ +LS +  ++  A +  YG   D+ VEI+ ETGD+ ++ +  VV  E++ +   +
Sbjct: 21  GISKESLLSTVEQALLAAYKKNYGEEEDVEVEIDRETGDVKIYEVKTVVPTEDLYDAAIE 80

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           IS   A +    + IG V+   +   +F R A+Q+ KQ++IQKVREAER+  Y  FK K 
Sbjct: 81  ISYDDALEIKKRVKIGEVIRIEVNCEEFRRNAIQNGKQIVIQKVREAEREYIYDRFKVKE 140

Query: 139 GEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
            +II+G ++R+ E  NV ++    + ++   E    +  R G+R+K Y+ +V +  + P+
Sbjct: 141 HDIINGIIRRIDERKNVFIEFDGIEAILPPVEQSPADTYRVGERIKVYLAEVEKTNKFPK 200

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           +++SR H   + KLF +E+PEI +G++++KAV+R+ GSRAK+AV+S+D +ID VGAC+G 
Sbjct: 201 IVISRKHEGLLRKLFELEIPEITSGLIEIKAVAREAGSRAKVAVYSADPNIDTVGACIGQ 260

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQL 317
           +G R++ +V EL  EKIDIVVW      FV   L PA V  V + E+     VIV   QL
Sbjct: 261 KGLRIKNIVNELNGEKIDIVVWKESVEEFVSAVLSPAKVVSVEVVEEENTARVIVDNSQL 320

Query: 318 SLAIGRRGQNVRLASQLTGWTIDIITEEEDSINR 351
           SLAIG+ GQN RLA++LTG  +DI T +      
Sbjct: 321 SLAIGKNGQNARLAAKLTGMRVDIKTADRVEEGE 354


>gi|229818209|ref|ZP_04448491.1| hypothetical protein BIFANG_03506 [Bifidobacterium angulatum DSM
           20098]
 gi|229784460|gb|EEP20574.1| hypothetical protein BIFANG_03506 [Bifidobacterium angulatum DSM
           20098]
          Length = 346

 Score =  365 bits (937), Expect = 1e-98,   Method: Composition-based stats.
 Identities = 116/360 (32%), Positives = 200/360 (55%), Gaps = 20/360 (5%)

Query: 7   LEL-LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
           +EL L     +A E+ ID + +   ++++++ A           R+E++   G  +++  
Sbjct: 1   MELDLAGIHKLAAEQGIDAETLDDALSEALRLAYLKTPHAAKHARIELDDRAGTFTVWAA 60

Query: 66  LEV--VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
            E+      EN              P+  +G    D   P DFGR+A  +A+QVI    R
Sbjct: 61  DEIPGTPTEENP------------HPAPTLGEEYDD--TPKDFGRLAAATARQVITLLFR 106

Query: 124 EAERDRQYLEFKDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
            AE ++ +  F  + G++I+G V++   +  NV + +G+ + ++ R E +  E  R G+R
Sbjct: 107 HAEDEKIFGAFSGQKGKLITGIVQQDVKDSSNVHIAMGDVEALLPRREQVPGERYRHGER 166

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ Y+ +V R  +GP++++SR+HP+ +  LF  EVPE+ +G V + A++R+ G+R K+AV
Sbjct: 167 LRVYVVNVGRGLKGPEIIVSRSHPELVRCLFEREVPELVSGAVSIMAIAREAGARTKIAV 226

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            ++   ++P GA +G  G+RV+AV+  L  EKIDIV +S D A FV +AL PA+ T V +
Sbjct: 227 KANTEGVNPKGALIGPGGARVRAVMENLGQEKIDIVDYSDDPAKFVASALSPAVATGVQI 286

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           + E        +  +QLSLAIG+ GQN RLA++LTGW I I + E  +    +   +  +
Sbjct: 287 ISEKNKTAIAFIHDDQLSLAIGKEGQNARLAAKLTGWKIGIESAETHAKKMAEQTEQADE 346


>gi|295098916|emb|CBK88005.1| transcription termination factor NusA [Eubacterium cylindroides
           T2-87]
          Length = 545

 Score =  365 bits (937), Expect = 1e-98,   Method: Composition-based stats.
 Identities = 155/491 (31%), Positives = 256/491 (52%), Gaps = 14/491 (2%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L +    +  ++ +  ++V   + +++ KA R     + D  VE+  E G I ++   +V
Sbjct: 8   LQKALQGIENDRQLSSEIVEDALREALTKAYRKHI-EIPDAYVEVVIEDGIIHIYHQRKV 66

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VE+VE+   +ISL+ AR  + +I +   V++ +    F R AV  AK V+ QK+REAE+ 
Sbjct: 67  VEDVEDDELEISLEDARKVNKNIQLDDFVNEEVDFTTFDRAAVVLAKNVMKQKIREAEKA 126

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
           + Y E+ DK+ E++ G V+ VE   VIV++G +  ++++ + I  E    G ++   I +
Sbjct: 127 QVYEEYCDKLDEMVLGVVETVEEKFVIVNIGKTLAMLKKSQQIPTEKYYEGQKLLVVITE 186

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +E +G QVL+SR  P F+ +LF  EVPEIYNGI+++KA++RDPG R K+AV+S + +I
Sbjct: 187 VNKETKGAQVLVSRATPVFVRRLFEREVPEIYNGIIEIKAIARDPGERCKIAVYSHNENI 246

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR- 307
           DP+GAC+G RGSRVQ ++ EL  EKIDI  WS + +  + NAL P+    V+ +E+V   
Sbjct: 247 DPIGACIGPRGSRVQTIINELNGEKIDIFEWSDNISELIENALSPSEAVAVIPNENVKDG 306

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           + V+VP  QLSLAIG+RG+N RLA +L+   IDI +E E             +   +   
Sbjct: 307 LIVVVPDSQLSLAIGKRGKNARLAVKLSNRKIDIKSESEMQELGIDYMTIAKELQEEYE- 365

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
                A       +   +++  +K SEI  IE  D               E ++  + + 
Sbjct: 366 -----AKKAKERAYKQQQKIEELKHSEI-EIENVDVADFDYDDDIDTTTYEEVEGPIHQN 419

Query: 428 IRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGF 487
              L   E    +  ++   ++A  +   KT  D     + +     EN      K +  
Sbjct: 420 TTTLFEKERETELDEMEEAARIAKEKRKEKTAAD-----IKEYTSKFENFADASNKSEQV 474

Query: 488 LSSLGTPKDQV 498
           +S      ++ 
Sbjct: 475 VSKPKKKVEEA 485


>gi|269120926|ref|YP_003309103.1| NusA antitermination factor [Sebaldella termitidis ATCC 33386]
 gi|268614804|gb|ACZ09172.1| NusA antitermination factor [Sebaldella termitidis ATCC 33386]
          Length = 358

 Score =  365 bits (937), Expect = 1e-98,   Method: Composition-based stats.
 Identities = 136/357 (38%), Positives = 216/357 (60%), Gaps = 3/357 (0%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M + ++   L+  D +  EK I ++ +L  +  ++  A +  YG   +  V+IN +TG++
Sbjct: 1   MKAKDQRIFLEALDELEKEKGIKKEELLEAVETALLAAYKKNYGEKENAEVKINHDTGEV 60

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            +F   E+V+EVEN   +ISL  A++      +GGVV   +   DF R A+Q+AKQ++IQ
Sbjct: 61  KVFSRKEIVDEVENPEYEISLDDAKNFKKRAKVGGVVELEINAEDFKRNAIQNAKQIVIQ 120

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPG 179
           KVRE E+   Y  FK+K   I++G V++V E G++ +D+   + +I   E    +  + G
Sbjct: 121 KVRECEKQNIYNNFKEKENSIVTGIVRKVDEKGSLYIDINGLEAIIPEKELSDTDVFKQG 180

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DRVK YI  V    +  +  +SR   + + KLF +E+PEI +G++ +K+V+R+ GSR K+
Sbjct: 181 DRVKVYIGKVEEGTKFTKTFISRKSEEMIRKLFDLEIPEIEDGVIVIKSVAREAGSRTKV 240

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           A++S D ++D  GAC+G  G R+Q+++ EL+ EKIDIV+W+ D   FV NAL PA V  V
Sbjct: 241 AIYSDDPNLDVKGACIGKGGMRIQSIIDELKGEKIDIVLWNEDIRYFVKNALNPAEVISV 300

Query: 300 VL--DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
            +  D      +V V  +QLSLAIG++GQN RLA++L G  IDI T E    +  ++
Sbjct: 301 EIIEDNGEEVAKVEVASDQLSLAIGKKGQNSRLAAKLCGIKIDIFTSELPDDSEPEE 357


>gi|298253047|ref|ZP_06976839.1| transcription elongation factor NusA [Gardnerella vaginalis 5-1]
 gi|297532442|gb|EFH71328.1| transcription elongation factor NusA [Gardnerella vaginalis 5-1]
          Length = 360

 Score =  364 bits (936), Expect = 2e-98,   Method: Composition-based stats.
 Identities = 119/356 (33%), Positives = 199/356 (55%), Gaps = 15/356 (4%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
            +A ++ I+ + +   +A++++ A          +RVE++   G  +++   E+  +   
Sbjct: 10  QLAAQQGINAEELDEALAEALRLAYMKTAHPAKHVRVELDERAGSFTVWARDEIPGKPTE 69

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                         P+  +G    D   P DFGR+A  +A+QVI Q  R+AE DR +  F
Sbjct: 70  DN----------PYPAPTLGEEYDD--TPHDFGRLAAATARQVISQIFRKAEDDRVFGAF 117

Query: 135 KDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
             + G++I+G +++   +  N+ V +G+ + ++ R E +  E  R G+R++ Y+ +V R 
Sbjct: 118 SGQKGKLINGIIQQDAKDNTNIHVAVGDVEAILPRREQVPGERYRHGERIRVYVVNVARG 177

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            RGP++++SR+HP+ + +LF  EVPE+ +G V + +++R+ G+R K+AV ++   ++P G
Sbjct: 178 LRGPEIVVSRSHPELVRRLFEREVPELVSGAVSIMSIAREAGARTKIAVRANTEGVNPKG 237

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVI 311
           A +G  GSRV+AV+  L  EKIDIV WS D A FV  AL PA  T+V V+ E        
Sbjct: 238 ALIGPGGSRVRAVMENLGQEKIDIVDWSSDPAKFVAAALSPATATQVQVVSEKNQTAVAF 297

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           +   QLSLAIG+ GQN RLA++LTGW I I + EE +        +  Q     +N
Sbjct: 298 IHDAQLSLAIGKEGQNARLAAKLTGWKIGIESAEEHAKKVAAAQAQNAQPASADLN 353


>gi|18158875|pdb|1K0R|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Nusa
 gi|18158876|pdb|1K0R|B Chain B, Crystal Structure Of Mycobacterium Tuberculosis Nusa
          Length = 366

 Score =  364 bits (936), Expect = 2e-98,   Method: Composition-based stats.
 Identities = 130/345 (37%), Positives = 199/345 (57%), Gaps = 31/345 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  ++ I  + +L  +  ++  A R   G  +D R+EI+ +TG + +       
Sbjct: 24  MAALHAIEVDRGISVNELLETIKSALLTAYRHTQGHQTDARIEIDRKTGVVRV------- 76

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                        +AR+ D + ++     D   P  FGR+A  +A+QV++Q+ R+AE +R
Sbjct: 77  -------------IARETDEAGNLISEWDD--TPEGFGRIAATTARQVMLQRFRDAENER 121

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDR 181
            Y EF  + GEI++G ++R    N    V+V +G     S+GVI   E +  E+   G+R
Sbjct: 122 TYGEFSTREGEIVAGVIQRDSRANARGLVVVRIGTETKASEGVIPAAEQVPGESYEHGNR 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ Y+  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV
Sbjct: 182 LRCYVVGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            S+ + ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V  V V
Sbjct: 242 RSNVAGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDDDPARFVANALSPAKVVSVSV 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +D+      V+VP  QLSLAIG+ GQN RLA++LTGW IDI  + 
Sbjct: 302 IDQTARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRGDA 346


>gi|268608287|ref|ZP_06142014.1| NusA antitermination factor [Ruminococcus flavefaciens FD-1]
          Length = 416

 Score =  364 bits (936), Expect = 2e-98,   Method: Composition-based stats.
 Identities = 133/345 (38%), Positives = 207/345 (60%), Gaps = 5/345 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLY-GTMSDIRVEINPETGDI 60
           +S N     +  +++  E S++ D+++  +  ++ KAA+  Y  +   IRVEI+P+T   
Sbjct: 1   MSKNNA-FFKALESLGEENSVETDLLIEKVKSAMLKAAKRAYPHSEDRIRVEIDPKTKKF 59

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            +F + +++++      ++++ VAR  DP+  +GG +   +     GR+A  SAKQ I  
Sbjct: 60  EMFIVQDIIDDYPIDENEVNIDVARTIDPNAIVGGTILKEIDISKLGRMAALSAKQSIKG 119

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVE--YGNVIVDLGNSDGVIRRDETISRENLRP 178
            +RE  R++   +F+ K  E I+  V +VE   G V V    ++  + R+E I  E L  
Sbjct: 120 DLREINREQMLGKFEQKEHECITAKVSQVEPGRGTVTVVYEGTELYLFRNEQIPGETLEE 179

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           G  VK YI  +  + + P V +SRTH   + +LF +EVPEIY+G V+VK++SR+ GSR K
Sbjct: 180 GQSVKVYITGIIGKNKKPVVKISRTHKDLVKRLFELEVPEIYDGTVEVKSISREAGSRTK 239

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV+S D ++D VGAC+G + SR+ A+V EL  EKIDI+ WS  +  F+  AL PA V K
Sbjct: 240 IAVWSKDPNVDAVGACIGAKRSRITAIVNELNGEKIDIIPWSEKTEEFIARALAPAEVLK 299

Query: 299 -VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
            +V  E+     VIVP  QLSLAIG +GQN +LA++LTG+ IDI 
Sbjct: 300 TIVTSEEENTCTVIVPNNQLSLAIGNKGQNAKLAAKLTGFKIDIK 344


>gi|148273335|ref|YP_001222896.1| transcription elongation factor NusA [Clavibacter michiganensis
           subsp. michiganensis NCPPB 382]
 gi|147831265|emb|CAN02221.1| putative transcriptional termination/antitermination factor
           [Clavibacter michiganensis subsp. michiganensis NCPPB
           382]
          Length = 335

 Score =  364 bits (935), Expect = 2e-98,   Method: Composition-based stats.
 Identities = 122/347 (35%), Positives = 187/347 (53%), Gaps = 33/347 (9%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD---------IRVEINPETGDI 60
           L +   +  E+ I  + ++S++  +I  A                    RV ++ +TG +
Sbjct: 5   LSVLRLMEREREIPFEELVSIIEQAILTAYLKHTDQADAKPVADGVPPARVHLDRKTGHV 64

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           S+      V E++     I                       P DFGR+A  +AKQVI Q
Sbjct: 65  SVH-----VPELDEDGLVIG-----------------ESEDSPSDFGRIAAFAAKQVINQ 102

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPG 179
           ++R+   DR   EFK + G+I++G V++      + VDLG  + ++  +E +  E    G
Sbjct: 103 RLRDIGDDRILGEFKGREGDIVAGVVQQGPNPRMIHVDLGTIEAILPPEEQVPGEKYVHG 162

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
            R++ Y+  V R  +GPQ+ +SRTHP  + KLF +EVPEI  G+V++ +++R+ G R K+
Sbjct: 163 SRLRVYVTSVSRGAKGPQITVSRTHPSLVRKLFALEVPEIAQGLVEIVSLAREAGHRTKI 222

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV-TK 298
           AV +++  I+  GAC+G  G RV+AV  EL DEKIDIV +S     FV NAL PA V + 
Sbjct: 223 AVRATEPGINAKGACIGELGQRVRAVTAELNDEKIDIVDYSESLPVFVGNALSPARVTSS 282

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
            V+D+    +  +VP  QLSLAIG+ GQN RLA++LTG  IDI  + 
Sbjct: 283 FVIDQATKAVRALVPDYQLSLAIGKEGQNARLAAKLTGAKIDIQPDS 329


>gi|283782785|ref|YP_003373539.1| transcription termination factor NusA [Gardnerella vaginalis
           409-05]
 gi|283441834|gb|ADB14300.1| transcription termination factor NusA [Gardnerella vaginalis
           409-05]
          Length = 360

 Score =  364 bits (935), Expect = 2e-98,   Method: Composition-based stats.
 Identities = 119/356 (33%), Positives = 199/356 (55%), Gaps = 15/356 (4%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
            +A ++ I+ + +   +A++++ A          +RVE++   G  +++   E+  +   
Sbjct: 10  QLAAQQGINAEELDEALAEALRLAYMKTAHPAKHVRVELDERAGSFTVWARDEIPGKPTE 69

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                         P+  +G    D   P DFGR+A  +A+QVI Q  R+AE DR +  F
Sbjct: 70  DN----------PYPAPTLGEEYDD--TPRDFGRLAAATARQVISQIFRKAEDDRVFGAF 117

Query: 135 KDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
             + G++I+G +++   +  N+ V +G+ + ++ R E +  E  R G+R++ Y+ +V R 
Sbjct: 118 SGQKGKLINGIIQQDAKDNTNIHVAVGDVEAILPRREQVPGERYRHGERIRVYVVNVARG 177

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            RGP++++SR+HP+ + +LF  EVPE+ +G V + +++R+ G+R K+AV ++   ++P G
Sbjct: 178 LRGPEIVVSRSHPELVRRLFEREVPELVSGAVSIMSIAREAGARTKIAVRANTEGVNPKG 237

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVI 311
           A +G  GSRV+AV+  L  EKIDIV WS D A FV  AL PA  T+V V+ E        
Sbjct: 238 ALIGPGGSRVRAVMENLGQEKIDIVDWSSDPAKFVAAALSPATATQVQVVSEKNQTAVAF 297

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           +   QLSLAIG+ GQN RLA++LTGW I I + EE +        +  Q     +N
Sbjct: 298 IHDAQLSLAIGKEGQNARLAAKLTGWKIGIESAEEHAKKVAAAQAQNAQPASADLN 353


>gi|297242938|ref|ZP_06926876.1| transcription elongation factor NusA [Gardnerella vaginalis AMD]
 gi|296889149|gb|EFH27883.1| transcription elongation factor NusA [Gardnerella vaginalis AMD]
          Length = 360

 Score =  364 bits (934), Expect = 3e-98,   Method: Composition-based stats.
 Identities = 117/335 (34%), Positives = 194/335 (57%), Gaps = 15/335 (4%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
            +A ++ I+ + +   +A++++ A          +RVE++   G  +++   E+  +   
Sbjct: 10  QLAAQQGINAEELDEALAEALRLAYMKTAHPAKHVRVELDERAGSFTVWARDEIPGKPTE 69

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                         P+  +G    D   P DFGR+A  +A+QVI Q  R+AE DR +  F
Sbjct: 70  DN----------PYPAPTLGEEYDD--TPRDFGRLAAATARQVISQIFRKAEDDRVFGAF 117

Query: 135 KDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRRE 192
             + G++I+G +++   +  N+ V +G+ + ++ R E +  E  R G+R++ Y+ +V R 
Sbjct: 118 SGQKGKLINGIIQQDAKDNTNIHVAVGDVEAILPRREQVPGERYRHGERIRVYVVNVARG 177

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVG 252
            RGP++++SR+HP+ + +LF  EVPE+ +G V + +++R+ G+R K+AV ++   ++P G
Sbjct: 178 LRGPEIVVSRSHPELVRRLFEREVPELVSGAVSIMSIAREAGARTKIAVRANTEGVNPKG 237

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVI 311
           A +G  GSRV+AV+  L  EKIDIV WS D A FV  AL PA  T+V V+ E        
Sbjct: 238 ALIGPGGSRVRAVMENLGQEKIDIVDWSSDPAKFVAAALSPATATQVQVVSEKNQTAVAF 297

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           +   QLSLAIG+ GQN RLA++LTGW I I + EE
Sbjct: 298 IHDAQLSLAIGKEGQNARLAAKLTGWKIGIESAEE 332


>gi|261883881|ref|ZP_06007920.1| transcription elongation factor NusA [Campylobacter fetus subsp.
           venerealis str. Azul-94]
          Length = 307

 Score =  364 bits (934), Expect = 3e-98,   Method: Composition-based stats.
 Identities = 159/271 (58%), Positives = 205/271 (75%)

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIV 312
           ACVGMRGSRVQAVV EL+ EKIDI+ WSPD+A+F++NAL+PA V KVVLDED  RIEV+V
Sbjct: 1   ACVGMRGSRVQAVVFELQGEKIDIIPWSPDAASFIVNALQPAEVAKVVLDEDAERIEVVV 60

Query: 313 PKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEII 372
           P +QLSLAIGRRGQNVRLASQLTGW IDI+TE+E+S  RQK+F ER+  FM+A+NVDE++
Sbjct: 61  PNDQLSLAIGRRGQNVRLASQLTGWDIDILTEDEESERRQKEFAERSNLFMEALNVDEMV 120

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELG 432
             +L +EGFA VEELA V   EI+SI+GFDE+TA EIQ RAREYLE I+     + +ELG
Sbjct: 121 GQVLASEGFASVEELAYVDAGEISSIDGFDEDTAGEIQDRAREYLERIEAEQDARRKELG 180

Query: 433 VSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLG 492
           V++EL  +PG+ + + VA+GE+G+KTMED AG +VDDL+GW E K G+     G L+   
Sbjct: 181 VADELRELPGMTTAMLVAVGEDGVKTMEDFAGYAVDDLVGWRERKDGDTINHSGVLTPFD 240

Query: 493 TPKDQVESMIIHARYKMGWIEKEKVADEEVQ 523
             +   E M++ AR K  WI ++++A     
Sbjct: 241 LSRVDAEHMVLAARLKACWITEQELAAASGD 271


>gi|319951028|ref|ZP_08024892.1| transcription elongation factor NusA [Dietzia cinnamea P4]
 gi|319435308|gb|EFV90564.1| transcription elongation factor NusA [Dietzia cinnamea P4]
          Length = 328

 Score =  363 bits (933), Expect = 3e-98,   Method: Composition-based stats.
 Identities = 123/346 (35%), Positives = 191/346 (55%), Gaps = 31/346 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +   + ++ E+ I  D ++  + +++  A +   G     R+ ++ + G +++       
Sbjct: 5   MAALNMLSLEREIPLDDLVQTLENALLTAYKRTDGAHRVARIALDRKAGTVAVLA----- 59

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
            EV+    +I                     + P DFGRVA  +A+Q+I+Q++REAE DR
Sbjct: 60  AEVDEDGNRIG-----------------EFDVTPSDFGRVAAATARQIILQRLREAETDR 102

Query: 130 QYLEFKDKVGEIISGTVK---RVEYGNVIV-----DLGNSDGVIRRDETISRENLRPGDR 181
            Y +   + GE++SG ++   R     ++V     + G ++G I   E +  E+ R GDR
Sbjct: 103 IYGDLVTREGEVVSGVIQSDSRANARGIVVVHIGPENGGTEGTIAPAEQVPGESYRHGDR 162

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K ++  V +   G  V LSRTHP  +  LF +EVPEI +G V++ A++R+ G R K+AV
Sbjct: 163 IKCHVVGVHKGPHGASVSLSRTHPDLVRGLFALEVPEIGDGSVRIAAIAREAGHRTKIAV 222

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+ S ++  GAC+G  G+RV+AV+ EL  EKIDIV +  D   FV NAL PA V  V +
Sbjct: 223 ESTVSGLNAKGACIGPNGARVRAVMAELNGEKIDIVDYDDDPTVFVGNALSPAKVISVTV 282

Query: 302 -DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            DE      V+VP  QLSLAIG+ GQN RLA +LT W IDI ++ E
Sbjct: 283 ADEQARAARVVVPDYQLSLAIGKEGQNARLAHRLTQWRIDIHSDAE 328


>gi|227497551|ref|ZP_03927779.1| transcription termination factor NusA [Actinomyces urogenitalis DSM
           15434]
 gi|226833005|gb|EEH65388.1| transcription termination factor NusA [Actinomyces urogenitalis DSM
           15434]
          Length = 348

 Score =  363 bits (933), Expect = 4e-98,   Method: Composition-based stats.
 Identities = 129/351 (36%), Positives = 191/351 (54%), Gaps = 28/351 (7%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +  N  EL       A E  ID + +L  + D+I  A   + G +    VEI+  +G ++
Sbjct: 1   MDINMPELRGA----AQELGIDLEDLLPAIEDAILGAYTKVPGAIRGAHVEIDRRSGHMA 56

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +      V+E +  T +                        P DFGR+A  +A+ VI+Q+
Sbjct: 57  VLAPE--VDEEDQPTGEF-------------------FDDTPDDFGRIAQATARSVIVQR 95

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNS-DGVIRRDETISRENLRPG 179
           +++         FKDK GE+ISGTV++  +   V V L    +G++   E +  E  R G
Sbjct: 96  IQDRRDFEVLGAFKDKAGELISGTVEQGRDPRIVYVRLDEEHEGIMPPHEQVPGERYRHG 155

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR+++Y+ +V R  +G Q++LSRTHP  + KLF  EVPE+ +G V++ AV+R+ G R K+
Sbjct: 156 DRIRAYVTEVSRGPKGAQIILSRTHPGLVRKLFEREVPELVSGDVEIMAVAREAGHRTKM 215

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S    +   GAC+G  G RV+AV+ EL  EKIDIV +S + A F+ NAL PA V+ V
Sbjct: 216 AVRSRQRGLGAKGACIGPMGQRVRAVMAELGGEKIDIVDYSDEPARFIANALSPARVSSV 275

Query: 300 VLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
            +        + +VP  QLSLAIG+ GQN RLA++LTGW IDI  + E   
Sbjct: 276 HIQSMEDQTAKAVVPDFQLSLAIGKEGQNARLAARLTGWKIDIHADAETGE 326


>gi|319790652|ref|YP_004152285.1| NusA antitermination factor [Thermovibrio ammonificans HB-1]
 gi|317115154|gb|ADU97644.1| NusA antitermination factor [Thermovibrio ammonificans HB-1]
          Length = 380

 Score =  363 bits (932), Expect = 5e-98,   Method: Composition-based stats.
 Identities = 148/361 (40%), Positives = 219/361 (60%), Gaps = 25/361 (6%)

Query: 13  ADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEV 72
            + +  EK I ++ V+  +   I  AA+   G   D+ V+I+ +  D  +++  +VVEEV
Sbjct: 8   IELLCKEKGISKEDVIEAVKVGIINAAKKA-GYRGDLVVKIDEDGKDFGIYQRKKVVEEV 66

Query: 73  ENYTCQISLKVARDR-DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
            +   +ISL+ AR+     + +G  V   +   + GR+A ++A QVI  K+ EAER   +
Sbjct: 67  TDPDHEISLEEARELFGDQVKLGDEVLIEIKTEELGRIAAKAAAQVIHDKITEAERRALF 126

Query: 132 LEFKDKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDV- 189
             F+ K+G++ISGTVK ++  G+++VDLG   GV+ ++E I +E  R GDRV++YIYDV 
Sbjct: 127 DYFRQKIGDVISGTVKEIKRNGDIVVDLGRVIGVLPKEEQIPKERYRIGDRVRAYIYDVV 186

Query: 190 ---RREQRG----------PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
              +R  R           P V+LSRTHP+ + +L  +E+PE+  G+V+VKAV+R+PG R
Sbjct: 187 FDYKRYNRKKPSRIDDYPPPYVILSRTHPKLLKRLMEIEIPEVAEGLVEVKAVAREPGVR 246

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           AK+AV S +  IDPVGAC+G++GSR+  +  EL  EKI+I+ WS D A  V  AL PA V
Sbjct: 247 AKVAVDSKEDYIDPVGACIGVKGSRILPISRELSGEKIEIIRWSDDVAELVARALSPAKV 306

Query: 297 TKVVLDEDVG---RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT-----IDIITEEEDS 348
            +    ED     R+EV+VP +QLSLAIG+ G N RLAS+L G       IDII E +  
Sbjct: 307 IQAESYEDENGEFRVEVVVPDDQLSLAIGKHGVNARLASKLAGQAGHVVGIDIIKESDYR 366

Query: 349 I 349
            
Sbjct: 367 K 367


>gi|313206787|ref|YP_004045964.1| nusa antitermination factor [Riemerella anatipestifer DSM 15868]
 gi|312446103|gb|ADQ82458.1| NusA antitermination factor [Riemerella anatipestifer DSM 15868]
 gi|315023860|gb|EFT36862.1| transcription elongation factor NusA [Riemerella anatipestifer
           RA-YM]
 gi|325335773|gb|ADZ12047.1| Transcription elongation factor [Riemerella anatipestifer RA-GD]
          Length = 411

 Score =  362 bits (931), Expect = 6e-98,   Method: Composition-based stats.
 Identities = 120/409 (29%), Positives = 219/409 (53%), Gaps = 11/409 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           + L L++       EK+I +  +++++ DS++   R  Y +     V +NP+ GD  +F 
Sbjct: 2   DNLALIEAFGDFKEEKNISKIDLMAIIEDSLKTLLRKRYDSDDHFDVIVNPDKGDFQIFL 61

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
              +VE+   E+   +I +  AR  DP+ ++G   +  +     GR  + + KQ++  K+
Sbjct: 62  NKTIVEDQMSEDDDLEIEISEARKTDPTFEVGEEFTQEIKVSQLGRRNILTLKQILATKI 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDR 181
           +E      Y +FKD++GEI+ G V  + + +VI+ D   ++ ++ +D+ I  +  R GD 
Sbjct: 122 QEHHNAYLYEQFKDRIGEIMVGEVHHIRFKHVILLDDEGNEYILPKDKQIPSDFFRKGDN 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ I  V  +   PQ+ +SR  P+F+ +L  +E+PEI +G + +K V R PG +AK+AV
Sbjct: 182 VRAVIESVDFKGSKPQITISRISPKFLERLLELEIPEIQDGTIILKKVVRIPGEKAKIAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            + D  IDPVGACVG++GSR+  VV ELR+E ID++ WS +    V  AL    + K+ +
Sbjct: 242 DAYDDRIDPVGACVGVKGSRIHGVVRELRNENIDVIQWSKNPEILVKRALGNVTINKIDI 301

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           + +  +  V  P E+++  IG++GQN++LAS L+ + ID+  E        +D +     
Sbjct: 302 NAEESKALVYTPSEEIAKIIGKQGQNIKLASWLSDYEIDVYREA------HEDDDVELDE 355

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
           F     +++ +       G    + +       +  +   +EET  E++
Sbjct: 356 FSD--EIEDWVIETFKKVGLDTAKSIIDKDTEALVRLTDLEEETIEEVK 402


>gi|255994863|ref|ZP_05427998.1| transcription termination factor NusA [Eubacterium saphenum ATCC
           49989]
 gi|255993576|gb|EEU03665.1| transcription termination factor NusA [Eubacterium saphenum ATCC
           49989]
          Length = 367

 Score =  362 bits (931), Expect = 6e-98,   Method: Composition-based stats.
 Identities = 136/340 (40%), Positives = 212/340 (62%), Gaps = 1/340 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+++    +  E  I +D ++ +M +S+  A    YG  S   V+I+ +TG   +   
Sbjct: 2   NKEIIEALGQIEKETGIAKDELIDMMKESVLHAFHKNYGEDSRAEVQIDEDTGGTYVIVS 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            ++V EVEN   ++SL   +  D   + GGVV   +    FGR+A Q+AKQV +QK++E 
Sbjct: 62  KDIVLEVENPETEVSLDEMKAIDERYEEGGVVQYTVDASKFGRIAAQTAKQVFLQKIKER 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           E+ + + EFK + GEII+G V RV    + V L  +  +I   E I  E    GDR+K+ 
Sbjct: 122 EKQKIFSEFKGREGEIITGKVSRVTMRAIHVALNTTTAIIPLAEQIQGETYEVGDRIKAC 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  V   QRGPQ++LSR  PQF+ +LF  EVPEI NG V++  ++R+ G+R K+AV+S +
Sbjct: 182 IKTVEDRQRGPQIVLSRRSPQFVEELFKREVPEIENGTVKIMGIAREAGNRTKIAVYSDN 241

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +D VGAC+G+RG+R+ A++ +L  EK+D+V+W+ D   FV  A++PA   +++L E+ 
Sbjct: 242 EELDAVGACIGVRGTRIGAILDDLGYEKVDVVLWNEDPVKFVKEAIKPAFPDRIILLEED 301

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
             + VIV  ++LSLAIGR+GQNVRLAS+L   +ID+ T++
Sbjct: 302 K-VIVIVADDELSLAIGRKGQNVRLASKLCKMSIDVKTKD 340


>gi|308176799|ref|YP_003916205.1| transcription elongation protein NusA [Arthrobacter arilaitensis
           Re117]
 gi|307744262|emb|CBT75234.1| transcription elongation protein NusA [Arthrobacter arilaitensis
           Re117]
          Length = 327

 Score =  362 bits (931), Expect = 6e-98,   Method: Composition-based stats.
 Identities = 123/344 (35%), Positives = 191/344 (55%), Gaps = 24/344 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           L     +  ++ I  DV++  +  ++  A     G M   R  I    G +++      V
Sbjct: 5   LNALRILEKDRDIPMDVLIPTIESALLLAYNKTEGAMPGARAHIERSNGHVAIL-----V 59

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
           E+               RD +  + G   D   P  FGR+A  +A+QVI+Q++REAE  +
Sbjct: 60  ED---------------RDNAGVLLGEFDD--TPHGFGRIAASTARQVIMQRLREAEDAQ 102

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              E+  +VG +ISG +++      V V +G+ + ++   E    E  + G+R+++Y+  
Sbjct: 103 VVGEYAARVGTLISGVIQQGYSSHMVQVKIGDLEALLPPVEQSPGEKYQHGNRLRAYVVS 162

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
             R  +GP V LSR+HP  +  LF MEVPEI +G V V+A++R+ G R K+AV ++ + +
Sbjct: 163 AERGNKGPAVTLSRSHPNLVRLLFEMEVPEIADGTVAVEALAREAGHRTKIAVHATKAGV 222

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR 307
           +  GAC+G  G+RV+AV+ EL DEKIDIV ++ D A F+  AL P+ V  V +LD +  R
Sbjct: 223 NAKGACIGEMGTRVRAVMNELNDEKIDIVDYNEDPAKFIAAALSPSKVISVEILDAEERR 282

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINR 351
             V+VP  QLSLAIG+ GQN RLA++LTGW IDI+        +
Sbjct: 283 ARVVVPDSQLSLAIGKEGQNARLAAKLTGWRIDILAASGGKEPQ 326


>gi|15842382|ref|NP_337419.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           CDC1551]
 gi|13882681|gb|AAK47233.1| N utilization substance protein A [Mycobacterium tuberculosis
           CDC1551]
          Length = 343

 Score =  362 bits (931), Expect = 6e-98,   Method: Composition-based stats.
 Identities = 130/345 (37%), Positives = 199/345 (57%), Gaps = 31/345 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  ++ I  + +L  +  ++  A R   G  +D R+EI+ +TG + +       
Sbjct: 1   MAALHAIEVDRGISVNELLETIKSALLTAYRHTQGHQTDARIEIDRKTGVVRV------- 53

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                        +AR+ D + ++     D   P  FGR+A  +A+QV++Q+ R+AE +R
Sbjct: 54  -------------IARETDEAGNLISEWDD--TPEGFGRIAATTARQVMLQRFRDAENER 98

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDR 181
            Y EF  + GEI++G ++R    N    V+V +G     S+GVI   E +  E+   G+R
Sbjct: 99  TYGEFSTREGEIVAGVIQRDSRANARGLVVVRIGTETKASEGVIPAAEQVPGESYEHGNR 158

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ Y+  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV
Sbjct: 159 LRCYVVGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAV 218

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            S+ + ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V  V V
Sbjct: 219 RSNVAGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDDDPARFVANALSPAKVVSVSV 278

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +D+      V+VP  QLSLAIG+ GQN RLA++LTGW IDI  + 
Sbjct: 279 IDQTARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRGDA 323


>gi|260201972|ref|ZP_05769463.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           T46]
 gi|289444392|ref|ZP_06434136.1| transcription termination factor NusA [Mycobacterium tuberculosis
           T46]
 gi|289417311|gb|EFD14551.1| transcription termination factor NusA [Mycobacterium tuberculosis
           T46]
          Length = 347

 Score =  362 bits (931), Expect = 6e-98,   Method: Composition-based stats.
 Identities = 130/345 (37%), Positives = 199/345 (57%), Gaps = 31/345 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  ++ I  + +L  +  ++  A R   G  +D R+EI+ +TG + +       
Sbjct: 5   MAALHAIEVDRGISVNELLETIKSALLTAYRHTQGHQTDARIEIDRKTGVVRV------- 57

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                        +AR+ D + ++     D   P  FGR+A  +A+QV++Q+ R+AE +R
Sbjct: 58  -------------IARETDEAGNLISEWDD--TPEGFGRIAATTARQVMLQRFRDAENER 102

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDR 181
            Y EF  + GEI++G ++R    N    V+V +G     S+GVI   E +  E+   G+R
Sbjct: 103 TYGEFSTREGEIVAGVIQRDSRANARGLVVVRIGTETKASEGVIPATEQVPGESYEHGNR 162

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ Y+  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV
Sbjct: 163 LRCYVVGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAV 222

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            S+ + ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V  V V
Sbjct: 223 RSNVAGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDDDPARFVANALSPAKVVSVSV 282

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +D+      V+VP  QLSLAIG+ GQN RLA++LTGW IDI  + 
Sbjct: 283 IDQTARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRGDA 327


>gi|17231321|ref|NP_487869.1| transcription elongation factor NusA [Nostoc sp. PCC 7120]
 gi|17132963|dbj|BAB75528.1| transcription termination factor [Nostoc sp. PCC 7120]
          Length = 425

 Score =  362 bits (931), Expect = 7e-98,   Method: Composition-based stats.
 Identities = 139/412 (33%), Positives = 215/412 (52%), Gaps = 38/412 (9%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAA----------RSLYGTM--SDIRVEINPE 56
           L  + ++++ E+++ R  V + + +++ K            R  +      +  VE++ +
Sbjct: 9   LKDLIESISRERNLPRLAVQAAIREALLKGYERYRRAQNIERKQFDEDYFDNFEVELDID 68

Query: 57  TGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQSA 114
                +     +VEEV N   QISL   +   P   +G  V   + P   +FGR+A    
Sbjct: 69  EEGFRVLSTKSIVEEVNNSDHQISLDEVQQVAPEAQLGDSVVLDVTPDQGEFGRMAAMQT 128

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS------DGVIRRD 168
           KQV+ QK+R+ +R     EF+D  G ++   V R E  +VI+ + ++      +  + + 
Sbjct: 129 KQVLAQKLRDQQRQMVQEEFQDLEGTVLQARVLRFERQSVILAVSSTFGQPEVEAELPKR 188

Query: 169 ETISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVK 227
           E +  +N R     K Y+  V + Q RGPQ+L+SR     +V LF  EVPEI + +V++ 
Sbjct: 189 EQLPNDNYRANATFKVYLKKVSQGQQRGPQLLVSRADAGLVVYLFANEVPEIEDEVVRIV 248

Query: 228 AVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
           AV+R+        G R K+AV + D  +DPVGAC+G RGSR+Q VV ELR EKID++ WS
Sbjct: 249 AVAREANPPSRYVGPRTKIAVDTLDRDVDPVGACIGARGSRIQVVVNELRGEKIDVIRWS 308

Query: 281 PDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
           PD AT++ NAL PA V +V L D +  +  V+V ++QLSLAIG+ GQNVRLA++LTGW I
Sbjct: 309 PDPATYIANALSPARVDEVRLMDPETRQTHVLVAEDQLSLAIGKEGQNVRLAARLTGWKI 368

Query: 340 DIIT---------EEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFA 382
           DI           + +    R K   E        ++ +E     L  E F 
Sbjct: 369 DIKDKAKYDQVAEDAKFVAARAKYQLEEDDIESDELDYEENQQGELEDESFD 420


>gi|260187857|ref|ZP_05765331.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           CPHL_A]
 gi|289448503|ref|ZP_06438247.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           CPHL_A]
 gi|289421461|gb|EFD18662.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           CPHL_A]
          Length = 347

 Score =  362 bits (931), Expect = 7e-98,   Method: Composition-based stats.
 Identities = 130/345 (37%), Positives = 199/345 (57%), Gaps = 31/345 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  ++ I  + +L  +  ++  A R   G  +D R+EI+ +TG + +       
Sbjct: 5   MAALHAIEVDRGISVNELLETIKSALLTAYRHTQGHQTDARIEIDRKTGVVRV------- 57

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                        +AR+ D + ++     D   P  FGR+A  +A+QV++Q+ R+AE +R
Sbjct: 58  -------------IARETDEAGNLISEWDD--TPEGFGRIAATTARQVMLQRFRDAENER 102

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDR 181
            Y EF  + GEI++G ++R    N    V+V +G     S+GVI   E +  E+   G+R
Sbjct: 103 TYGEFSTREGEIVAGVIQRDSRANARGLVVVRIGTETKASEGVIPAAEQVPGESYEHGNR 162

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ Y+  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV
Sbjct: 163 LRCYVVGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAV 222

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            S+ + ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V  V V
Sbjct: 223 RSNVAGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDDDPARFVANALSPAKVVSVSV 282

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +D+      V+VP  QLSLAIG+ GQN RLA++LTGW IDI  + 
Sbjct: 283 IDQTARAARVVVPDFQLSLAIGKDGQNARLAARLTGWRIDIRGDA 327


>gi|15609978|ref|NP_217357.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           H37Rv]
 gi|31794018|ref|NP_856511.1| transcription elongation factor NusA [Mycobacterium bovis
           AF2122/97]
 gi|121638721|ref|YP_978945.1| transcription elongation factor NusA [Mycobacterium bovis BCG str.
           Pasteur 1173P2]
 gi|148662682|ref|YP_001284205.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           H37Ra]
 gi|148824031|ref|YP_001288785.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           F11]
 gi|167967194|ref|ZP_02549471.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           H37Ra]
 gi|215404813|ref|ZP_03416994.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           02_1987]
 gi|215412673|ref|ZP_03421391.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           94_M4241A]
 gi|215431783|ref|ZP_03429702.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           EAS054]
 gi|215447095|ref|ZP_03433847.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           T85]
 gi|218754589|ref|ZP_03533385.1| transcription elongation factor NusA [Mycobacterium tuberculosis GM
           1503]
 gi|224991213|ref|YP_002645902.1| transcription elongation factor [Mycobacterium bovis BCG str. Tokyo
           172]
 gi|253798073|ref|YP_003031074.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           KZN 1435]
 gi|254232936|ref|ZP_04926263.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           C]
 gi|254365487|ref|ZP_04981532.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           str. Haarlem]
 gi|254551905|ref|ZP_05142352.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           '98-R604 INH-RIF-EM']
 gi|260206152|ref|ZP_05773643.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           K85]
 gi|289553371|ref|ZP_06442581.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           KZN 605]
 gi|289575542|ref|ZP_06455769.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           K85]
 gi|289746639|ref|ZP_06506017.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           02_1987]
 gi|289754949|ref|ZP_06514327.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           EAS054]
 gi|289758961|ref|ZP_06518339.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           T85]
 gi|289763017|ref|ZP_06522395.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           GM 1503]
 gi|294994068|ref|ZP_06799759.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           210]
 gi|297635454|ref|ZP_06953234.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           KZN 4207]
 gi|297732453|ref|ZP_06961571.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           KZN R506]
 gi|298526309|ref|ZP_07013718.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           94_M4241A]
 gi|306777125|ref|ZP_07415462.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu001]
 gi|306781031|ref|ZP_07419368.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu002]
 gi|306785669|ref|ZP_07423991.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu003]
 gi|306789709|ref|ZP_07428031.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu004]
 gi|306794342|ref|ZP_07432644.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu005]
 gi|306798766|ref|ZP_07437068.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu006]
 gi|306804612|ref|ZP_07441280.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu008]
 gi|306807354|ref|ZP_07444022.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu007]
 gi|306968905|ref|ZP_07481566.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu009]
 gi|306973241|ref|ZP_07485902.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu010]
 gi|307080950|ref|ZP_07490120.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu011]
 gi|307085545|ref|ZP_07494658.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu012]
 gi|313659785|ref|ZP_07816665.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           KZN V2475]
 gi|61229169|sp|P0A5M2|NUSA_MYCTU RecName: Full=Transcription elongation protein nusA
 gi|61229170|sp|P0A5M3|NUSA_MYCBO RecName: Full=Transcription elongation protein nusA
 gi|3261746|emb|CAB08449.1| PROBABLE N UTILIZATION SUBSTANCE PROTEIN A NUSA [Mycobacterium
           tuberculosis H37Rv]
 gi|31619612|emb|CAD95051.1| PROBABLE N UTILIZATION SUBSTANCE PROTEIN A NUSA [Mycobacterium
           bovis AF2122/97]
 gi|121494369|emb|CAL72850.1| Probable N utilization substance protein A nusA [Mycobacterium
           bovis BCG str. Pasteur 1173P2]
 gi|124601995|gb|EAY61005.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           C]
 gi|134151000|gb|EBA43045.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           str. Haarlem]
 gi|148506834|gb|ABQ74643.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           H37Ra]
 gi|148722558|gb|ABR07183.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           F11]
 gi|224774328|dbj|BAH27134.1| transcription elongation factor [Mycobacterium bovis BCG str. Tokyo
           172]
 gi|253319576|gb|ACT24179.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           KZN 1435]
 gi|289438003|gb|EFD20496.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           KZN 605]
 gi|289539973|gb|EFD44551.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           K85]
 gi|289687167|gb|EFD54655.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           02_1987]
 gi|289695536|gb|EFD62965.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           EAS054]
 gi|289710523|gb|EFD74539.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           GM 1503]
 gi|289714525|gb|EFD78537.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           T85]
 gi|298496103|gb|EFI31397.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           94_M4241A]
 gi|308214494|gb|EFO73893.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu001]
 gi|308326139|gb|EFP14990.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu002]
 gi|308329669|gb|EFP18520.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu003]
 gi|308333808|gb|EFP22659.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu004]
 gi|308337334|gb|EFP26185.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu005]
 gi|308340977|gb|EFP29828.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu006]
 gi|308346277|gb|EFP35128.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu007]
 gi|308348792|gb|EFP37643.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu008]
 gi|308353518|gb|EFP42369.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu009]
 gi|308357359|gb|EFP46210.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu010]
 gi|308361312|gb|EFP50163.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu011]
 gi|308364913|gb|EFP53764.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           SUMu012]
 gi|323718540|gb|EGB27710.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           CDC1551A]
 gi|326904454|gb|EGE51387.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           W-148]
 gi|328457846|gb|AEB03269.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           KZN 4207]
          Length = 347

 Score =  362 bits (930), Expect = 7e-98,   Method: Composition-based stats.
 Identities = 130/345 (37%), Positives = 199/345 (57%), Gaps = 31/345 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  ++ I  + +L  +  ++  A R   G  +D R+EI+ +TG + +       
Sbjct: 5   MAALHAIEVDRGISVNELLETIKSALLTAYRHTQGHQTDARIEIDRKTGVVRV------- 57

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                        +AR+ D + ++     D   P  FGR+A  +A+QV++Q+ R+AE +R
Sbjct: 58  -------------IARETDEAGNLISEWDD--TPEGFGRIAATTARQVMLQRFRDAENER 102

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDR 181
            Y EF  + GEI++G ++R    N    V+V +G     S+GVI   E +  E+   G+R
Sbjct: 103 TYGEFSTREGEIVAGVIQRDSRANARGLVVVRIGTETKASEGVIPAAEQVPGESYEHGNR 162

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           ++ Y+  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV
Sbjct: 163 LRCYVVGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAV 222

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            S+ + ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V  V V
Sbjct: 223 RSNVAGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDDDPARFVANALSPAKVVSVSV 282

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +D+      V+VP  QLSLAIG+ GQN RLA++LTGW IDI  + 
Sbjct: 283 IDQTARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRGDA 327


>gi|68172039|ref|ZP_00545325.1| Transcription termination factor NusA, C-terminal duplication
           [Ehrlichia chaffeensis str. Sapulpa]
 gi|67998537|gb|EAM85305.1| Transcription termination factor NusA, C-terminal duplication
           [Ehrlichia chaffeensis str. Sapulpa]
          Length = 318

 Score =  362 bits (930), Expect = 8e-98,   Method: Composition-based stats.
 Identities = 148/332 (44%), Positives = 232/332 (69%), Gaps = 14/332 (4%)

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           RVK++I DVR+E  GPQ+ LSR +  FM +LF  E+PEIY+GIV +KA++RDPGSR+K+A
Sbjct: 1   RVKAHIEDVRKENSGPQIFLSRINKGFMEQLFKQEIPEIYDGIVTIKAIARDPGSRSKVA 60

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           VFSSD +IDPVGACVG RG R+Q +++EL  EKID++++SP+ A F++NA+ PA V KV+
Sbjct: 61  VFSSDKNIDPVGACVGARGVRIQGIISELHGEKIDVILYSPELAKFIVNAIAPAEVLKVI 120

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED  ++E+I+P+ QLSLAIGR GQN+RLAS+L GW I++I +E +S  + K+ +  ++
Sbjct: 121 IDEDKEKVELIIPENQLSLAIGRYGQNIRLASELVGWKINVIGDETESSRKAKELSAGSK 180

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F++ ++V+EII  LL  EGF  +E++    +S+I++I+GF+EE A E++ RA +YL   
Sbjct: 181 IFVEGLDVEEIIGQLLFTEGFVSIEDIDQASVSDISAIDGFNEEIAEELKSRAADYLVRK 240

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           D  +++ +  L V +++  +P +     +AL +NGI ++ED+AG   D+           
Sbjct: 241 DAEMKQILDNLSVDKDVTMLPFLRPSDIIALSKNGINSLEDIAGLCTDEFFD-------- 292

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
                  +  +   KDQV+S+I+ +R K+GW+
Sbjct: 293 ------IIPDIALTKDQVDSVILESRKKIGWL 318


>gi|225016950|ref|ZP_03706142.1| hypothetical protein CLOSTMETH_00865 [Clostridium methylpentosum
           DSM 5476]
 gi|224950264|gb|EEG31473.1| hypothetical protein CLOSTMETH_00865 [Clostridium methylpentosum
           DSM 5476]
          Length = 412

 Score =  362 bits (930), Expect = 8e-98,   Method: Composition-based stats.
 Identities = 141/379 (37%), Positives = 227/379 (59%), Gaps = 9/379 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E     + +A EK I  + ++  ++++I  A +  +G + ++ V I+P T    +  +
Sbjct: 2   NNEFFDALEMIAKEKGISMEYLIEKISNAITIAVKKDFGGIENVNVVIDPLTRRYKVSII 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV EVE+   +I +  A        +G  V   L    FGR+A Q+AK VI Q +REA
Sbjct: 62  KTVVREVEDPVNEILIDEALKYSKRAMVGEPVEIKLETKQFGRIAAQTAKHVIRQGIREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVE--YGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           ER++   +  DKVGE+I+ TV +++   GNVIV++  S+ ++ ++E +  ++L PGD+VK
Sbjct: 122 EREQMLAQMGDKVGEVITATVSKIDPTNGNVIVEIDKSEVILFKNEQLPTDHLLPGDKVK 181

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            Y+ DV   ++   + +SRTH   + +LF +EVPEI++G V+VK++SR+ GSR K+AV+S
Sbjct: 182 VYVVDVMASEKRCSLKISRTHKDLVKRLFEIEVPEIFDGTVEVKSISREAGSRTKIAVYS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-D 302
            D ++DP+GAC+G +G RV  ++ EL  EKID+V +S D A F+  AL PA V +V L D
Sbjct: 242 KDENVDPIGACIGPKGMRVGNIIDELGGEKIDVVKYSEDPAKFIAEALSPATVVEVQLSD 301

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI------ITEEEDSINRQKDFN 356
           +      V VP  QLSLAIG +GQN +LA++LTG+ IDI        EE+    +Q+   
Sbjct: 302 DGEKIAFVSVPDHQLSLAIGNKGQNAKLAARLTGYKIDISPESGFYGEEKRLAAKQEPKE 361

Query: 357 ERTQFFMQAINVDEIIAHL 375
           +  +   Q +  DE+++ +
Sbjct: 362 DAEEAEQQELPEDEVVSDV 380


>gi|328955634|ref|YP_004372967.1| NusA antitermination factor [Coriobacterium glomerans PW2]
 gi|328455958|gb|AEB07152.1| NusA antitermination factor [Coriobacterium glomerans PW2]
          Length = 411

 Score =  362 bits (929), Expect = 1e-97,   Method: Composition-based stats.
 Identities = 130/359 (36%), Positives = 197/359 (54%), Gaps = 36/359 (10%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +++     +  EK ID+  ++  +  S+ K+   +        V I+  TG + ++ L+ 
Sbjct: 4   KMMDALMELCQEKHIDQLYLIDCLEQSLSKSYADILHLEYGAEVTIDRATGKVYVYELVP 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
             E  E                + +        + P D  R+A Q AK  I   VR + R
Sbjct: 64  KGEPDEE---------------TGEYTEFDKKDVTPKDTSRIAAQHAKAEINAIVRNSAR 108

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIR----------RDETISRENL 176
           ++ Y EF D++G+II+GTV +      IV +    +  +           R+E  + E  
Sbjct: 109 EQIYEEFSDRIGDIITGTVLQSTPDFTIVKIREGVEAELPHFDLRRFENERNERPAGERY 168

Query: 177 RPGDRVKSYIYDVRR----------EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
               R+K+ I DVR           E+  P +++SRTHP  + +LF +EVPEIY G V+V
Sbjct: 169 MHNQRLKAVIIDVRDPNSTMQPQRGERSRPPIVISRTHPALIKRLFELEVPEIYEGTVEV 228

Query: 227 KAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATF 286
           K+++R+PG R+K+AV S D  +DPVGACVG +GSRV+ VV ELR E++D+++W  D + F
Sbjct: 229 KSIAREPGQRSKVAVHSLDDRLDPVGACVGPKGSRVRTVVGELRGERVDVILWDADPSVF 288

Query: 287 VINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           V NAL PA V++V++DE+     VIVP +QLSLAIG+ GQN RLA++LTGW IDI  E 
Sbjct: 289 VANALSPAKVSRVLIDEEKSYAGVIVPDDQLSLAIGKEGQNARLAARLTGWHIDIKNET 347


>gi|261749099|ref|YP_003256784.1| transcription elongation factor NusA [Blattabacterium sp.
           (Periplaneta americana) str. BPLAN]
 gi|261497191|gb|ACX83641.1| transcription elongation factor NusA [Blattabacterium sp.
           (Periplaneta americana) str. BPLAN]
          Length = 419

 Score =  362 bits (929), Expect = 1e-97,   Method: Composition-based stats.
 Identities = 121/415 (29%), Positives = 225/415 (54%), Gaps = 11/415 (2%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L+        EK+IDR  +++++ +SI+   R  Y +  +  + +NP+ GD+ ++R   V
Sbjct: 6   LIDSFSVFKDEKNIDRASLMAILEESIRCVLRKKYDSSKNYDIIVNPDQGDLEIWRNRIV 65

Query: 69  VEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           V++  V++   +I L  AR  +   +IG  V++ +     GR A+ S +Q ++ K+ E +
Sbjct: 66  VQDGTVKDVNKEIELSTARKIEIDFEIGEEVTEKVELKSLGRRAILSLRQNLLSKINEYD 125

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRVKSY 185
               Y +FK+K+GEII+  V  +    +I+ D   ++ V+ + E I  +  R GD V++ 
Sbjct: 126 NTNIYKKFKNKIGEIINVEVYHILPKQIIMRDEEQNEMVLPKQEQIPNDFFRKGDPVRAL 185

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V  +   P  +L+R    F+ +LF +E+PE+  G++ VK V+R PG +AK++V S D
Sbjct: 186 VKRVDWKDNKPLAILTRKDDSFLEELFKLEIPEVSEGLITVKKVARIPGEKAKVSVDSYD 245

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             IDP+GACVGM+GSR+  +V EL++E ID++ ++ +   ++  AL PA V+ + ++E+ 
Sbjct: 246 DRIDPIGACVGMKGSRIHPIVRELKNENIDVINYTTNIQLYITRALSPAKVSMMEVNEEH 305

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             + V V  E++S AIGR GQN+RLASQLTG+ I I  +         + +     F   
Sbjct: 306 KYVNVYVKLEEISKAIGRGGQNIRLASQLTGYKIHIFRD------FPYEDDVELTEFSD- 358

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
             ++  +       G    + +   + ++++     +E+   ++    ++  E  
Sbjct: 359 -EIEPEVLERFHKVGLTTAKSVLNYRNNDLSKRTNLEEKIINKVVSILKKEFEEE 412


>gi|332665272|ref|YP_004448060.1| NusA antitermination factor [Haliscomenobacter hydrossis DSM 1100]
 gi|332334086|gb|AEE51187.1| NusA antitermination factor [Haliscomenobacter hydrossis DSM 1100]
          Length = 416

 Score =  362 bits (929), Expect = 1e-97,   Method: Composition-based stats.
 Identities = 138/406 (33%), Positives = 222/406 (54%), Gaps = 9/406 (2%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYTC 77
           K+IDR  +  V+ D  +   +  +G+  +  V +N + GD+ L+R+ E+V   EV +   
Sbjct: 14  KNIDRPTMARVLEDVFRTLIKKKFGSDDNFNVIVNTQNGDLELWRVREIVPDGEVTDDRA 73

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           QIS+  A   D   +IG    + L   DFGR A+ +A+Q +I ++ E E+D  Y  + ++
Sbjct: 74  QISISEALAIDEDYEIGEECYERLQLEDFGRRAIMAARQTLISRIMELEKDEVYKSYSER 133

Query: 138 VGEIISGTVKRVEYGNVIV--DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           VGE+I G + ++     +V  D   ++ V+ R ETI  +  R GD VK  I  V      
Sbjct: 134 VGEVIVGEIHQILKKEFLVVDDATGNELVLPRTETIKADFFRKGDMVKGIIRRVELRNNT 193

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P V++SRT   F+ KL   EVPEI +G++ +K + R PG RAK+AV S D  IDPVGACV
Sbjct: 194 PIVVMSRTDNAFLEKLLEAEVPEIEDGLISIKKIVRLPGERAKVAVESYDDRIDPVGACV 253

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           GM+GSR+  +V EL +E IDIV ++ +++ ++  AL PA VT++ L+ +    +V +  E
Sbjct: 254 GMKGSRIHGIVRELNNENIDIVNYTNNASLYIQRALTPAKVTRIELNTETNHADVYLEPE 313

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHL 375
           Q+SLAIG+ G N++LASQLTG+ ID+     ++    +  +     F     +++ I   
Sbjct: 314 QVSLAIGKSGTNIKLASQLTGYEIDVYR---NNTEEYEIDDVDLDEFGD--EIEDWIIDA 368

Query: 376 LVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           L A G      +  +  +E+      +EET  ++        E  +
Sbjct: 369 LQAIGCDTARSVLNLSKAELLRRTDLEEETIDDVLRVLSAEFEEGE 414


>gi|325677914|ref|ZP_08157556.1| transcription termination factor NusA [Ruminococcus albus 8]
 gi|324110468|gb|EGC04642.1| transcription termination factor NusA [Ruminococcus albus 8]
          Length = 372

 Score =  362 bits (929), Expect = 1e-97,   Method: Composition-based stats.
 Identities = 140/354 (39%), Positives = 206/354 (58%), Gaps = 22/354 (6%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
                  +  E  IDR+V++  + D+I KA +   G+  ++RV+I+P TG + ++ L EV
Sbjct: 5   FFNALADLVSENEIDREVLIEKIRDAITKAIKKETGSE-NVRVDIDPATGKLEMYILKEV 63

Query: 69  --VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
             V  V+    +I +  A+  DP I +G  V  P+ P   GRVA Q AKQ I   +++ E
Sbjct: 64  MKVMFVDEPENEIYIGEAQAYDPDIKVGDFVEIPVNPAKIGRVAAQFAKQSIKHDIKDFE 123

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEY--GNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           R++   ++KD+  EI++ TV++VE   GN I+ +  ++    R E I  E L+ GD++K 
Sbjct: 124 RNKLIEQYKDREHEIVTATVQKVEPATGNAIITIDKNEHYFYRSEQIPGEVLKEGDKIKV 183

Query: 185 YIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           YI  +   E+R P V LSRTH   + +LF +EVPEI +G V+VKA+SR  G R+K+AV+S
Sbjct: 184 YIVSLGDSEKRQPVVKLSRTHKDLVKRLFELEVPEIADGTVEVKAISRTEGVRSKIAVWS 243

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D ++D VGAC+G + SR+ AV  EL+ EKID++ W  D   F+  AL PA V KV L E
Sbjct: 244 KDPNVDAVGACIGPKKSRITAVCQELKGEKIDVINWVEDEEQFIAKALAPAEVLKVELLE 303

Query: 304 DV----------------GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
                              +  V+VP  Q SLAIG +GQN +LA+ LTG+ IDI
Sbjct: 304 PEVRIEHKGEEKEFERVIKKCRVVVPNNQFSLAIGNKGQNAKLAAGLTGYKIDI 357


>gi|152991227|ref|YP_001356949.1| transcription elongation factor NusA [Nitratiruptor sp. SB155-2]
 gi|151423088|dbj|BAF70592.1| transcription termination factor NusA [Nitratiruptor sp. SB155-2]
          Length = 371

 Score =  361 bits (928), Expect = 1e-97,   Method: Composition-based stats.
 Identities = 125/345 (36%), Positives = 200/345 (57%), Gaps = 9/345 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +++ I D++A+EK +  + V   +  + +  A+ + G   +   EI+P+T  I +F+ + 
Sbjct: 3   KIVDIIDSIAHEKGLPVEQVKEAIQKAFENTAKKVLGEDLEFEAEIDPDTKSIKVFQKIL 62

Query: 68  VVEEVENYTCQ-----ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           VVE+ +    Q     I+L  A++ DP++++G  +  P+     GR A       I   +
Sbjct: 63  VVEDGDERATQEPERYITLSEAKEIDPNVEVGDELRYPVEFEKLGRTAAMRLHNEIEFHI 122

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +     + + ++K ++G IISGTV RV E  N  V++    G++ +   I  E  +PGD 
Sbjct: 123 QRLMEQQLFEKYKQRIGTIISGTVTRVDEEENTYVEIDEVKGILPKRYRIKGEFFKPGDV 182

Query: 182 VKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           VK+ +  V  ++  G  + LSRT P+F+ +L  +EVPEI +G+V ++ V+R PG RAK+A
Sbjct: 183 VKAILKRVVFDKINGIYLELSRTTPKFLEELLKLEVPEIKDGLVTIEKVARIPGERAKVA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S    IDPVGACVG+RG R+ AV  ELR E ID + +SP    FV  +L PAI+T V 
Sbjct: 243 VNSHSPKIDPVGACVGVRGVRINAVSKELRGENIDCIEYSPIPEIFVARSLSPAIITSVK 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           ++    +  V +P +Q S AIG+ G N+RLAS LTG+ I++I  E
Sbjct: 303 IE--GDKAIVTLPSDQKSKAIGKSGINIRLASMLTGYEIELIETE 345


>gi|255326386|ref|ZP_05367470.1| transcription termination factor NusA [Rothia mucilaginosa ATCC
           25296]
 gi|255296603|gb|EET75936.1| transcription termination factor NusA [Rothia mucilaginosa ATCC
           25296]
          Length = 365

 Score =  361 bits (927), Expect = 2e-97,   Method: Composition-based stats.
 Identities = 129/390 (33%), Positives = 210/390 (53%), Gaps = 38/390 (9%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           L    A+A ++S+  + + +++ +++  A     G +   R  I+  TG+  +       
Sbjct: 9   LGALRALAKQRSLVMEELFTLVENALLLAYMKQPGAIKGSRAVIDHTTGEFVIL------ 62

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A + D          D   P +FGR+A  + +QV+ Q++R+AE   
Sbjct: 63  --------------APELDEDNQKIDEFDD--TPNNFGRIAAATVRQVLSQRLRDAEDAS 106

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              EFKD+ G ++SG +++      V VDLG  + V+  +E +  E    G R+++Y+ +
Sbjct: 107 VLGEFKDREGTLVSGVIQQGNNPRMVQVDLGTVEAVLPSNEQVPGEKYPHGSRLRAYLVE 166

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
            RR  +GP +++SR+HP  +++LF  EVPEI  G+V + +++R+ G R+K+AV + + +I
Sbjct: 167 ARRGPKGPSIVVSRSHPNLVLRLFEHEVPEISEGLVSINSIAREAGHRSKIAVSAKNPTI 226

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGR 307
           +  GAC+G  G+RV+AV  EL DEKIDIV +S D ATF+  AL PA VT+V++ +     
Sbjct: 227 NAKGACIGDMGARVRAVAAELNDEKIDIVDYSTDPATFIAAALSPAKVTEVIIANPREYS 286

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
              +VP +QLSLAIGR GQN RLA++LTGW IDI++E + +  R ++             
Sbjct: 287 ARAVVPDDQLSLAIGREGQNARLAAKLTGWRIDILSESKYAQVRAEE------------E 334

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIAS 397
           V   +A  L  E  A  E+       E A 
Sbjct: 335 VAARVARSLAEE--ASAEKAIEEATEESAQ 362


>gi|88855366|ref|ZP_01130030.1| transcription elongation factor NusA [marine actinobacterium
           PHSC20C1]
 gi|88815273|gb|EAR25131.1| transcription elongation factor NusA [marine actinobacterium
           PHSC20C1]
          Length = 333

 Score =  361 bits (927), Expect = 2e-97,   Method: Composition-based stats.
 Identities = 120/346 (34%), Positives = 192/346 (55%), Gaps = 32/346 (9%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG--------TMSDIRVEINPETGDIS 61
           L +   +  E+ I  + ++ ++  +I  A              T    RV ++ +TG +S
Sbjct: 5   LSVLRMMEREREIPFEELVQIIEQAIMSAYLKHVEAPEGKAAETAPTARVVLDRKTGHVS 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           ++                      + D    I G   D   P DFGR+A  +AKQVI Q+
Sbjct: 65  VW--------------------VPEYDDEGAIVGEAED--SPSDFGRIAAFAAKQVINQR 102

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGD 180
           +R+   D+   EFK + G+I++G +++      + +DLG  + ++  +E +  E  + G 
Sbjct: 103 LRDIGDDKVLGEFKGREGDIVAGVIQQGPNPRMIHIDLGTVEAIMPPEEQVPSEEYKHGS 162

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           R++ Y+  V +  +GPQ+ +SRTHP  + KLF +EVPEI +GIV++ +V+R+ G R K+A
Sbjct: 163 RLRVYVTAVNKGDKGPQITVSRTHPSLVRKLFALEVPEIASGIVEITSVAREAGHRTKMA 222

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV-TKV 299
           V +++  ++  G+C+G  G RV+AV  EL +EKIDIV +S + A FV NAL PA V +  
Sbjct: 223 VRATEPGVNAKGSCIGELGQRVRAVTAELNNEKIDIVDYSENLAVFVANALSPAKVSSSF 282

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           V+DE    +  +VP  QLSLAIG+ GQN RLA++LTG  IDI  + 
Sbjct: 283 VIDETTKAVRALVPDYQLSLAIGKEGQNARLAAKLTGARIDIQPDS 328


>gi|302335788|ref|YP_003800995.1| transcription termination factor NusA [Olsenella uli DSM 7084]
 gi|301319628|gb|ADK68115.1| transcription termination factor NusA [Olsenella uli DSM 7084]
          Length = 414

 Score =  361 bits (927), Expect = 2e-97,   Method: Composition-based stats.
 Identities = 126/359 (35%), Positives = 193/359 (53%), Gaps = 36/359 (10%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+++   A+  EK ID   ++  +  S+ K+   +       RV I+  TG + ++    
Sbjct: 4   EMMEALMALCQEKHIDELYLIDRLEQSLAKSYAEILHLDFGARVTIDRATGRVYVY--KL 61

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V E   N             D + +        + P D  R+A Q AK  I + VR + R
Sbjct: 62  VPEGDIN-------------DETGEFDNFEEVDVTPKDASRIAAQHAKSEIAEIVRNSAR 108

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIR----------RDETISRENL 176
            + + EF  +VG+II+GTV +       + +    +  +           R+E    E  
Sbjct: 109 QQIFEEFSQRVGDIITGTVLQTTPDFAFIKIREGVEAELPYFDQRRYPDERNERPVGERY 168

Query: 177 RPGDRVKSYIYDVRREQRG----------PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
               R+++ I DVR               P +++SRTHP  + +LF +EVPE+Y G+V+V
Sbjct: 169 IHNQRIRAIIVDVRDPNSNQPPIRGERQRPSIVVSRTHPDLIRRLFELEVPEVYEGVVEV 228

Query: 227 KAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATF 286
           ++V+R+ G R+K+AV S D  +DPVGACVG +GSRV+ VV+ELR E++D+V+WS D +  
Sbjct: 229 RSVAREAGVRSKVAVSSLDDRLDPVGACVGPKGSRVRTVVSELRGERVDVVLWSDDPSRC 288

Query: 287 VINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           V NAL PA V++V++D +     VIVP +QLSLAIG+ GQN RLA++LTG  IDI  E 
Sbjct: 289 VANALSPARVSRVIVDPENNYATVIVPDDQLSLAIGKEGQNARLAARLTGMHIDIKNES 347


>gi|262340805|ref|YP_003283660.1| transcription elongation factor NusA [Blattabacterium sp.
           (Blattella germanica) str. Bge]
 gi|262272142|gb|ACY40050.1| transcription elongation factor NusA [Blattabacterium sp.
           (Blattella germanica) str. Bge]
          Length = 417

 Score =  361 bits (927), Expect = 2e-97,   Method: Composition-based stats.
 Identities = 125/405 (30%), Positives = 227/405 (56%), Gaps = 11/405 (2%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE--EVENYT 76
           EK+IDR  +++++ +SI+   R  Y +  +  + +NP+ GD+ ++R   VV+  EV++  
Sbjct: 16  EKNIDRVSLMAILEESIRCVLRKKYDSSKNYDIIVNPDQGDLEIWRNRIVVQDGEVKDIN 75

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +I L +AR  +P  +IG  V++ +     GR A+ S +Q ++ K+ E +    Y +FK+
Sbjct: 76  KEIELSIARKIEPDFEIGEEVTEKVELQSLGRRAILSLRQNLLSKINEYDNTNTYKKFKN 135

Query: 137 KVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           K+GEII+  V  +    +I+ D   ++ V+ + E I  +  R GD V++ +  V  +   
Sbjct: 136 KIGEIINVEVYHILSKQIIMRDEEQNEMVLPKQEQIPSDFFRKGDPVRALVKRVDWKDNK 195

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
           P  +L+R    F+ +LF +E+PE+ +G++ VK V+R PG +AK+AV S D  IDPVGACV
Sbjct: 196 PFAILTRRDEAFLEELFKLEIPEVSDGLITVKKVARIPGEKAKVAVESYDDRIDPVGACV 255

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           GM+GSR+  +V EL++E ID++ ++ ++  ++  AL PA V+ + ++ED   + V V  E
Sbjct: 256 GMKGSRIHPIVRELKNENIDVINYTSNTQLYITRALSPAKVSMMEVNEDHKYVNVYVKLE 315

Query: 316 QLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHL 375
           ++S AIGR GQN+RLASQLTG+ I I  +         + +     F     ++  +   
Sbjct: 316 EISRAIGRGGQNIRLASQLTGYKIHIFRD------FPYEDDVELTEFSD--EIEPEVLER 367

Query: 376 LVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
               G    + +   + ++++     +E+   ++    ++  E  
Sbjct: 368 FHKVGLNTAKSILNYRKNDLSKRTNLEEKIINKVVSILKKEFEEE 412


>gi|218282331|ref|ZP_03488621.1| hypothetical protein EUBIFOR_01203 [Eubacterium biforme DSM 3989]
 gi|218216704|gb|EEC90242.1| hypothetical protein EUBIFOR_01203 [Eubacterium biforme DSM 3989]
          Length = 536

 Score =  360 bits (926), Expect = 2e-97,   Method: Composition-based stats.
 Identities = 137/343 (39%), Positives = 216/343 (62%), Gaps = 2/343 (0%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +L +    +  ++ + +D+V   + +++ KA R       +++V ++   G I ++    
Sbjct: 9   DLAKALQGIESDRQLSKDIVEDALKEALTKAYRRHIDI-PEVQVRVDIVDGTIHIYHERV 67

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+   ++ L   ++ +P+I IG +V + +   DF R AV  AK V+ QK+REAE+
Sbjct: 68  VVEEVEDDELEVQLDEIQNENPNIKIGDIVDEEVDFKDFDRAAVVLAKNVMKQKIREAEK 127

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
            + Y E+ DKV E++ GT++ VE   VIV++G +  V+++   I  E+ + GD +   I 
Sbjct: 128 AQVYEEYCDKVDEMVLGTIETVEEKFVIVNIGKTLAVMKKSAQIPTEHYKEGDNILVVIT 187

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V +E +G QVL+SR  P F+ +LF  EVPEIYNGI+++KA++R+ G R K+AV+S + +
Sbjct: 188 EVNKETKGAQVLVSRATPVFVRRLFEREVPEIYNGIIEIKAIAREAGERCKIAVYSHNEN 247

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG- 306
           IDP+GAC+G RGSRVQ ++ EL  EKIDI  WS + +  + NAL P+    V+ +E V  
Sbjct: 248 IDPIGACIGPRGSRVQTIIEELNGEKIDIFEWSDNISELIANALSPSTGVAVIPNETVKD 307

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
            + V+VP  QLSLAIG+RG+N RLA +LT   IDI +E E   
Sbjct: 308 GLIVVVPDNQLSLAIGKRGKNARLAVKLTNHKIDIKSESEMQE 350


>gi|56752082|ref|YP_172783.1| transcription elongation factor NusA [Synechococcus elongatus PCC
           6301]
 gi|56687041|dbj|BAD80263.1| N utilization substance protein A [Synechococcus elongatus PCC
           6301]
          Length = 441

 Score =  360 bits (926), Expect = 2e-97,   Method: Composition-based stats.
 Identities = 132/370 (35%), Positives = 206/370 (55%), Gaps = 30/370 (8%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL---------YGTM--SDI 49
           MV+   LE  Q+  A++ +K +  +V+   + +++ K              +      +I
Sbjct: 3   MVTLPGLE--QLIYAISEQKKLPANVIEEALKEALLKGYERYRRTQQMGEQFEEDYFDNI 60

Query: 50  RVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFG 107
            VE++ E     +     +V +VEN   QI+L   ++  P    G +V   + P   DFG
Sbjct: 61  DVELDVEQEGFRVLATKTIVNQVENPDHQIALADVQEVAPDAQAGEIVVLDVTPDKDDFG 120

Query: 108 RVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------S 161
           R+A    KQV+ QK+R+ +R     EF+D    ++   V R E  +VI+ + +       
Sbjct: 121 RMAAIQTKQVLSQKLRDHQRKLIQEEFQDLEDPVLMAKVLRFERQSVILGVSSGLGRPEV 180

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIY 220
           +  + R E +  +N R     + ++ +V  E R GPQ+++SR +   +V LF  EVPEI 
Sbjct: 181 EAELPRREQLPNDNYRANATFRVFLKEVSEEPRRGPQLIVSRANAGLVVYLFENEVPEIQ 240

Query: 221 NGIVQVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEK 273
           +G+V++ AV+R+        G R K+AV + +  +DPVGAC+G RGSR+Q VV ELR EK
Sbjct: 241 DGVVRIVAVAREANPPTRHVGPRTKIAVDTLEREVDPVGACIGARGSRIQVVVNELRGEK 300

Query: 274 IDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLAS 332
           ID++ WSPD AT++ NAL PA V +V ++D +     V+V  +QLSLAIG+ GQNVRLA+
Sbjct: 301 IDVIRWSPDPATYIANALSPARVQEVRLVDPEGRIAHVLVNDDQLSLAIGKEGQNVRLAA 360

Query: 333 QLTGWTIDII 342
           +LTGW IDI 
Sbjct: 361 RLTGWKIDIK 370


>gi|283458507|ref|YP_003363135.1| transcription elongation factor [Rothia mucilaginosa DY-18]
 gi|283134550|dbj|BAI65315.1| transcription elongation factor [Rothia mucilaginosa DY-18]
          Length = 365

 Score =  360 bits (926), Expect = 3e-97,   Method: Composition-based stats.
 Identities = 129/390 (33%), Positives = 210/390 (53%), Gaps = 38/390 (9%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           L    A+A ++S+  + + +++ +++  A     G +   R  I+  TG+  +       
Sbjct: 9   LGALRALAKQRSLVMEELFTLVENALLLAYMKQPGAIKGSRAVIDHTTGEFVIL------ 62

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A + D          D   P +FGR+A  + +QV+ Q++R+AE   
Sbjct: 63  --------------APELDEDNQKIDEFDD--TPNNFGRIAAATVRQVLSQRLRDAEDAS 106

Query: 130 QYLEFKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              EFKD+ G ++SG +++      V VDLG  + V+  +E +  E    G R+++Y+ +
Sbjct: 107 VLGEFKDREGTLVSGVIQQGNNPRMVQVDLGTVEAVLPSNEQVPGEKYPHGSRLRAYLVE 166

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
            RR  +GP +++SR+HP  +++LF  EVPEI  G+V + +++R+ G R+K+AV + + +I
Sbjct: 167 ARRGPKGPSIVVSRSHPNLVLRLFEHEVPEISEGLVAINSIAREAGHRSKIAVSAKNPTI 226

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGR 307
           +  GAC+G  G+RV+AV  EL DEKIDIV +S D ATF+  AL PA VT+V++ +     
Sbjct: 227 NAKGACIGDMGARVRAVAAELNDEKIDIVDYSTDPATFIAAALSPAKVTEVIIANPREYS 286

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
              +VP +QLSLAIGR GQN RLA++LTGW IDI++E + +  R ++             
Sbjct: 287 ARAVVPDDQLSLAIGREGQNARLAAKLTGWRIDILSESKYAQVRAEE------------E 334

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIAS 397
           V   +A  L  E  A  E+       E A 
Sbjct: 335 VAARVARSLAEE--ASAEKAIEEATEESAQ 362


>gi|119511041|ref|ZP_01630161.1| transcription elongation factor NusA [Nodularia spumigena CCY9414]
 gi|119464292|gb|EAW45209.1| transcription elongation factor NusA [Nodularia spumigena CCY9414]
          Length = 423

 Score =  360 bits (925), Expect = 4e-97,   Method: Composition-based stats.
 Identities = 133/371 (35%), Positives = 208/371 (56%), Gaps = 31/371 (8%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAA----------RSLYGTM--SD 48
           MVS   L+  ++ ++++ E+++ R  V + + +++ K            +  +      +
Sbjct: 1   MVSLPGLK--ELIESISRERNLPRLAVQTAIREALLKGYERYRRAQNLEKRQFDEEYFDN 58

Query: 49  IRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DF 106
             VE++ E     +     +VE V+N   QISL+  +   P   +G  V   + P   +F
Sbjct: 59  FEVELDIEGEGFRVLSTKSIVEAVDNTDHQISLEEVQQVAPEAQLGDSVVLDVTPDQGEF 118

Query: 107 GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------ 160
           GR+A    KQV+ QK+R+ +R     EF+D  G ++   V R E  +VI+ + +      
Sbjct: 119 GRMAAMQTKQVLAQKLRDQQRQMVQEEFQDLEGTVLQARVLRFERQSVILAVASGFGQPE 178

Query: 161 SDGVIRRDETISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEI 219
            +  + + E +  +N R     K Y+  V + Q RGPQ+L+SR     +V LF  EVPEI
Sbjct: 179 VEAELPKREQLPNDNYRANATFKVYLKKVSQGQQRGPQLLVSRADAGLVVYLFANEVPEI 238

Query: 220 YNGIVQVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDE 272
            + +V++ AV+R+        G R K+AV + D  +DPVGAC+G RGSR+Q VV ELR E
Sbjct: 239 EDEVVRIVAVAREANPPSRYVGPRTKIAVDTLDRDVDPVGACIGARGSRIQVVVNELRGE 298

Query: 273 KIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLA 331
           KID++ WSPD +T++ NAL PA V +V L D +  +  V+V ++QLSLAIG+ GQNVRLA
Sbjct: 299 KIDVIRWSPDPSTYIANALSPARVDEVRLMDPETRQTHVLVAEDQLSLAIGKEGQNVRLA 358

Query: 332 SQLTGWTIDII 342
           ++LTGW IDI 
Sbjct: 359 ARLTGWKIDIK 369


>gi|170782217|ref|YP_001710550.1| transcription elongation factor NusA [Clavibacter michiganensis
           subsp. sepedonicus]
 gi|169156786|emb|CAQ01949.1| transcription elongation protein NusA [Clavibacter michiganensis
           subsp. sepedonicus]
          Length = 335

 Score =  360 bits (925), Expect = 4e-97,   Method: Composition-based stats.
 Identities = 119/347 (34%), Positives = 188/347 (54%), Gaps = 33/347 (9%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD---------IRVEINPETGDI 60
           L +   +  E+ I  + ++S++  +I  A                    RV ++ ++G +
Sbjct: 5   LSVLRLMEREREIPFEELVSIIEQAILTAYLKHTDQADAKPVADGVPPARVHLDRKSGHV 64

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           S+      V E++     I                       P DFGR+A  +A+QVI Q
Sbjct: 65  SVH-----VPELDEDGLVIG-----------------ESEDSPSDFGRIAAFAARQVINQ 102

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPG 179
           ++R+   DR   EFK + G+I++G +++      + VDLG  + ++  +E +  E    G
Sbjct: 103 RLRDIGDDRILGEFKGREGDIVAGVIQQGPNPRMIHVDLGTIEAILPPEEQVPGEKYVHG 162

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
            R++ Y+  V R  +GPQ+ +SRTHP  + KLF +EVPEI +G+V++ +++R+ G R K+
Sbjct: 163 SRLRVYVTSVSRGAKGPQITVSRTHPSLVRKLFALEVPEIASGLVEIVSLAREAGHRTKI 222

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV-TK 298
           AV +++  I+  GAC+G  G RV+AV  EL DEKIDIV +S     FV NAL PA V + 
Sbjct: 223 AVRATEPGINAKGACIGELGQRVRAVTAELNDEKIDIVDYSESLPVFVGNALSPARVTSS 282

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
            V+D+    +  +VP  QLSLAIG+ GQN RLA++LTG  IDI  + 
Sbjct: 283 FVIDQATKAVRALVPDYQLSLAIGKEGQNARLAAKLTGAKIDIQPDS 329


>gi|221195874|ref|ZP_03568927.1| transcription termination factor NusA [Atopobium rimae ATCC 49626]
 gi|221184348|gb|EEE16742.1| transcription termination factor NusA [Atopobium rimae ATCC 49626]
          Length = 415

 Score =  360 bits (924), Expect = 4e-97,   Method: Composition-based stats.
 Identities = 129/359 (35%), Positives = 192/359 (53%), Gaps = 36/359 (10%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+++    +  EK ID   +L  +  S+ K+   +       RV I+  TG + ++   E
Sbjct: 4   EMMEALMTLCQEKHIDELYLLDRLEQSLAKSYADVLHLSYGARVTIDRTTGKVYVY---E 60

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +V + E    +           + +        + P    R A Q AK  I   VR+A R
Sbjct: 61  LVPKGE-PDEE-----------TGEYAEFDEVDVTPEGTSRFAAQHAKNEIRALVRDAAR 108

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIR----------RDETISRENL 176
            + Y EF  ++G+II+GTV +      I+ +    +  +           RDE    E  
Sbjct: 109 QQIYEEFSHRIGDIITGTVLQSTPDFTIIKIREGVEAELPHFDLRRFPEERDERPFGERY 168

Query: 177 RPGDRVKSYIYDVRREQR----------GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
               R+K+ I DVR               P +++SRTHP  + +LF +EVPE+Y GIV +
Sbjct: 169 GHNQRIKAIIIDVRNPNNAQPAVRGERQRPPIVVSRTHPDLIRRLFELEVPEVYEGIVSI 228

Query: 227 KAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATF 286
           ++V+R+PG R+K+AV SSD  +DPVGACVG +GSRV+ VV+ELR E++D+V W  D A  
Sbjct: 229 RSVAREPGIRSKIAVSSSDERLDPVGACVGPKGSRVRTVVSELRGERVDVVPWFDDPARC 288

Query: 287 VINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           V +AL PA V++V++D +     VIVP +QLSLAIG+ GQN RLA++LTG  IDI  E 
Sbjct: 289 VASALSPARVSRVIIDAETRHATVIVPDDQLSLAIGKEGQNARLAARLTGLHIDIKNET 347


>gi|51599052|ref|YP_073240.1| transcription elongation factor NusA [Borrelia garinii PBi]
 gi|51573623|gb|AAU07648.1| N-utilization substance protein A [Borrelia garinii PBi]
          Length = 482

 Score =  360 bits (924), Expect = 4e-97,   Method: Composition-based stats.
 Identities = 137/465 (29%), Positives = 256/465 (55%), Gaps = 19/465 (4%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           ++A ++S+  + +   + +S+  A +  +G+  +  V+ +  TGD+ ++   ++VEEV++
Sbjct: 11  SIANDRSMSIESIRKTIKESVLIAYKKYFGSNENAFVKFDDNTGDLVVYAKKKIVEEVKD 70

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              +I  K     +  I  G      + P  F R+++Q AKQ     ++  E +    EF
Sbjct: 71  SLLEILEKDISKEN--IVEGDYAYIEINPKVFDRLSIQVAKQRTKNDLQGIEDNEILSEF 128

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           K K+ +++ G V++   G++ V+LGN+DG+I +     RE     D+++  +Y+V++ + 
Sbjct: 129 KSKLNKVVIGYVQQNRNGDLYVNLGNTDGIIPKKYQSPREVYSLNDKIRVLVYNVKKGKN 188

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           G +V+LSRTHP+F+ +L  +E+PEI  GI+++  + RDPG R K+AV+S    IDPVG C
Sbjct: 189 GIEVILSRTHPKFIEELLALEIPEIEEGIIKIHKIVRDPGYRIKVAVYSEKEEIDPVGPC 248

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVP 313
           +G +G R+Q+++ EL  EKIDI+ +S D   F+ ++L PA +  V +LDED+ +  V+V 
Sbjct: 249 IGQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIKDSLTPAKIDHVYILDEDLHKALVVVS 308

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIA 373
            +QLSLAIG+ GQNVRLA++L  W ID+ T  + +  +     ++    M     D+++ 
Sbjct: 309 DDQLSLAIGKMGQNVRLANRLLDWAIDVKTSSQFAEMKANSEFKQETLEM----FDKVMQ 364

Query: 374 HLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG--RAREYLEGIDITLQKKIREL 431
            ++  E F D+ +++ +K+ + + I    +E   +I    +A E +        +K  E+
Sbjct: 365 DVVEEEQFEDISKISDLKLLDSSVISNLSKEGLDDINNFLQADEEVLFNLGVSYEKQEEI 424

Query: 432 G----------VSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
                       +E   S+  ++   ++   E G+   E++  C 
Sbjct: 425 NKILKEGMIIIANENDESMEKVEEDQELLCPECGVVINENMTSCP 469


>gi|203288228|ref|YP_002223243.1| N-utilization substance protein A [Borrelia recurrentis A1]
 gi|201085448|gb|ACH95022.1| N-utilization substance protein A [Borrelia recurrentis A1]
          Length = 494

 Score =  359 bits (923), Expect = 5e-97,   Method: Composition-based stats.
 Identities = 136/427 (31%), Positives = 245/427 (57%), Gaps = 15/427 (3%)

Query: 11  QIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE 70
           Q+   +A E+ +  D +   + +S+  A +  +GT  +  ++ +  TGD+ ++    +V+
Sbjct: 20  QMIANIASERGMSIDAIRKTVRESVIIAYKKYFGTSDNALIKFDDNTGDLIVYSKKRIVD 79

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           EV+N   +I +  A+     +     V   + P  F R+++Q AKQ     ++  E +  
Sbjct: 80  EVKNNVMEILVDDAKTF--EVVDNEYVYVEINPKIFDRLSIQVAKQRTKSDLQGIEDNEL 137

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVR 190
           YLEFK K+ +I+ G V++   G++ V+LG++DGVI +     RE     D+V+  +Y V+
Sbjct: 138 YLEFKHKLHKIVIGYVQQNRNGDLYVNLGSTDGVIPKKYQSPREVYSLNDKVRVLVYSVK 197

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDP 250
           + + G +V+LSRTHP+F+ +L  +E+PEI  GI+++  + RDPG R K+AV+S    +D 
Sbjct: 198 KGRNGIEVILSRTHPKFIAELLALEIPEIEEGIIKIHKIVRDPGYRTKVAVYSEKEEVDS 257

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIE 309
           VG C+G +G R+Q+++ EL  EKIDI+ +S D   F+ ++L PA +  V ++DED+ +  
Sbjct: 258 VGPCIGQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIKDSLTPAKIDNVYIIDEDLHKAL 317

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVD 369
           V+V  +QLSLAIG+ GQNVRLA++L  W ID+ T  + +  +     ++  F M     D
Sbjct: 318 VVVSDDQLSLAIGKMGQNVRLANRLLDWAIDVKTNSQFAEMKASGEFKQDTFEM----FD 373

Query: 370 EIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIR 429
           +II          +V+E    +I++I+ ++  D++   ++  R  + ++      + K+ 
Sbjct: 374 KIIQD--------NVQEDEFEEINKISELKVLDDDIVAKLIQRDLDDIDNFLNASEDKLF 425

Query: 430 ELGVSEE 436
           ELG++ E
Sbjct: 426 ELGITYE 432


>gi|203284696|ref|YP_002222436.1| N-utilization substance protein A [Borrelia duttonii Ly]
 gi|201084139|gb|ACH93730.1| N-utilization substance protein A [Borrelia duttonii Ly]
          Length = 494

 Score =  359 bits (923), Expect = 6e-97,   Method: Composition-based stats.
 Identities = 136/427 (31%), Positives = 245/427 (57%), Gaps = 15/427 (3%)

Query: 11  QIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE 70
           Q+   +A E+ +  D +   + +S+  A +  +GT  +  ++ +  TGD+ ++    +V+
Sbjct: 20  QMIANIASERGMSIDAIRKTVRESVIIAYKKYFGTSDNALIKFDDNTGDLIVYSKKRIVD 79

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           EV+N   +I +  A+     +     V   + P  F R+++Q AKQ     ++  E +  
Sbjct: 80  EVKNNVMEILVDDAKTF--EVVDNEYVYVEINPKIFDRLSIQVAKQRTKSDLQGIEDNEL 137

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVR 190
           YLEFK K+ +I+ G V++   G++ V+LG++DGVI +     RE     D+V+  +Y V+
Sbjct: 138 YLEFKHKLHKIVIGYVQQNRNGDLYVNLGSTDGVIPKKYQSPREVYSLNDKVRVLVYSVK 197

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDP 250
           + + G +V+LSRTHP+F+ +L  +E+PEI  GI+++  + RDPG R K+AV+S    +D 
Sbjct: 198 KGRNGIEVILSRTHPKFIEELLALEIPEIEEGIIKIHKIVRDPGYRTKVAVYSEKEEVDS 257

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIE 309
           VG C+G +G R+Q+++ EL  EKIDI+ +S D   F+ ++L PA +  V ++DED+ +  
Sbjct: 258 VGPCIGQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIKDSLTPAKIDNVYIIDEDLHKAL 317

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVD 369
           V+V  +QLSLAIG+ GQNVRLA++L  W ID+ T  + +  +     ++  F M     D
Sbjct: 318 VVVSDDQLSLAIGKMGQNVRLANRLLDWAIDVKTNSQFAEMKASGEFKQDTFEM----FD 373

Query: 370 EIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIR 429
           +II          +V+E    +I++I+ ++  D++   ++  R  + ++      + K+ 
Sbjct: 374 KIIQD--------NVQEDEFEEINKISELKVLDDDIVAKLIQRDLDDIDNFLNASEDKLF 425

Query: 430 ELGVSEE 436
           ELG++ E
Sbjct: 426 ELGITYE 432


>gi|86133947|ref|ZP_01052529.1| transcription elongation protein NusA [Polaribacter sp. MED152]
 gi|85820810|gb|EAQ41957.1| transcription elongation protein NusA [Polaribacter sp. MED152]
          Length = 418

 Score =  359 bits (923), Expect = 6e-97,   Method: Composition-based stats.
 Identities = 132/409 (32%), Positives = 227/409 (55%), Gaps = 18/409 (4%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEV--ENYTC 77
           KSIDR  ++S++ +  + A +  +G+  +  + INP+ GD+ ++R   VV +   E+   
Sbjct: 17  KSIDRVTLMSILEEVFRAALKRKFGSDDNFDIIINPDKGDLEIWRNRVVVADGFSEDDNE 76

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +I L  AR  +P  +IG  VS+ +  +D GR A+ + +Q +I K+ E +    + +FKD 
Sbjct: 77  EIELSEARKIEPDFEIGEDVSEEVKLIDLGRRAILALRQNLISKIYEHDSTNIFKQFKDL 136

Query: 138 VGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
            GE+ S  V  + +  +I+ D   ++ V+ + E I  +  R GD V+  I  V      P
Sbjct: 137 EGELFSAEVHHIRHNAIILLDDEGNEIVLPKSEQIRSDFFRKGDNVRGVIKTVELRGNKP 196

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
            ++LSRT P F+ KLF  E+PE+++G++ V+ V+R PG +AK+AV S D  IDPVGACVG
Sbjct: 197 AIILSRTSPAFLNKLFEQEIPEVFDGLITVEGVARIPGEKAKVAVDSYDDRIDPVGACVG 256

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-------DEDVGRIE 309
           ++GSR+  +V EL +E ID++ ++ +   F+  AL PA VT + +       +   GR+ 
Sbjct: 257 VKGSRIHGIVRELGNENIDVINYTKNEQLFISRALSPAKVTSMEITMYEEEKNGKKGRVS 316

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVD 369
           V++  E++S AIGR G N+RLAS+LTG+ ID+  E        ++ +     F+    ++
Sbjct: 317 VLLKPEEVSKAIGRGGVNIRLASELTGYEIDVQRE------GLEEEDVELTEFID--EIE 368

Query: 370 EIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           + +       G      +    ++E+      +EET +++Q   +E  E
Sbjct: 369 DWVITEFKKIGLDTARSVLETSVAELVKRTDLEEETIIDVQRILKEEFE 417


>gi|81300831|ref|YP_401039.1| transcription elongation factor NusA [Synechococcus elongatus PCC
           7942]
 gi|81169712|gb|ABB58052.1| NusA antitermination factor [Synechococcus elongatus PCC 7942]
          Length = 441

 Score =  359 bits (922), Expect = 7e-97,   Method: Composition-based stats.
 Identities = 131/370 (35%), Positives = 206/370 (55%), Gaps = 30/370 (8%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL---------YGTM--SDI 49
           MV+   LE  Q+  A++ +K +  +V+   + +++ K              +      +I
Sbjct: 3   MVTLPGLE--QLIYAISEQKKLPANVIEEALKEALLKGYERYRRTQQMGEQFEEDYFDNI 60

Query: 50  RVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFG 107
            VE++ E     +     +V +VEN   QI+L   ++  P    G +V   + P   DFG
Sbjct: 61  DVELDVEQEGFRVLATKTIVNQVENPDHQIALADVQEVAPDAQAGEIVVLDVTPDKDDFG 120

Query: 108 RVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------S 161
           R+A    KQV+ QK+R+ +R     EF+D    ++   V R E  +VI+ + +       
Sbjct: 121 RMAAIQTKQVLSQKLRDHQRKLIQEEFQDLEDPVLMAKVLRFERQSVILGVSSGLGRPEV 180

Query: 162 DGVIRRDETISRENLRPGDRVKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIY 220
           +  + R E +  +N R     + ++ +V    +RGPQ+++SR +   +V LF  EVPEI 
Sbjct: 181 EAELPRREQLPNDNYRANATFRVFLKEVSEVPRRGPQLIVSRANAGLVVYLFENEVPEIQ 240

Query: 221 NGIVQVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEK 273
           +G+V++ AV+R+        G R K+AV + +  +DPVGAC+G RGSR+Q VV ELR EK
Sbjct: 241 DGVVRIVAVAREANPPTRHVGPRTKIAVDTLEREVDPVGACIGARGSRIQVVVNELRGEK 300

Query: 274 IDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLAS 332
           ID++ WSPD AT++ NAL PA V +V ++D +     V+V  +QLSLAIG+ GQNVRLA+
Sbjct: 301 IDVIRWSPDPATYIANALSPARVQEVRLVDPEGRIAHVLVNDDQLSLAIGKEGQNVRLAA 360

Query: 333 QLTGWTIDII 342
           +LTGW IDI 
Sbjct: 361 RLTGWKIDIK 370


>gi|75908091|ref|YP_322387.1| transcription elongation factor NusA [Anabaena variabilis ATCC
           29413]
 gi|75701816|gb|ABA21492.1| NusA antitermination factor [Anabaena variabilis ATCC 29413]
          Length = 425

 Score =  359 bits (922), Expect = 7e-97,   Method: Composition-based stats.
 Identities = 138/418 (33%), Positives = 225/418 (53%), Gaps = 34/418 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAA----------RSLYGTM--SDIRVEINPE 56
           L  + ++++ E+++ R  V + + +++ K            R  +      +  VE++ +
Sbjct: 9   LKDLIESISRERNLPRLAVQAAIREALLKGYERYRRAQNIERKQFDEDYFDNFEVELDID 68

Query: 57  TGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQSA 114
                +     +VEEV N   QISL   +   P   +G  V   + P   +FGR+A    
Sbjct: 69  EEGFRVLSTKSIVEEVNNSDHQISLDEVQQVAPEAQLGDSVVLDVTPDQGEFGRMAAMQT 128

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS------DGVIRRD 168
           KQV+ QK+R+ +R     EF+D    ++   V R E  +VI+ + ++      +  + + 
Sbjct: 129 KQVLAQKLRDQQRQMVQEEFQDLESTVLQARVLRFERQSVILAVSSTFGQPEVEAELPKR 188

Query: 169 ETISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVK 227
           E +  +N R     K Y+  V + Q RGPQ+L+SR     +V LF  EVPEI + +V++ 
Sbjct: 189 EQLPNDNYRANATFKVYLKKVSQGQQRGPQLLVSRADAGLVVYLFANEVPEIEDEVVRIV 248

Query: 228 AVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
           AV+R+        G R K+AV + D  +DPVGAC+G RGSR+Q VV ELR EKID++ WS
Sbjct: 249 AVAREANPPSRYVGPRTKIAVDTLDRDVDPVGACIGARGSRIQVVVNELRGEKIDVIRWS 308

Query: 281 PDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
           PD AT++ NAL PA V +V L D +  +  V+V ++QLSLAIG+ GQNVRLA++LTGW I
Sbjct: 309 PDPATYIANALSPARVDEVRLMDPETRQTHVLVAEDQLSLAIGKEGQNVRLAARLTGWKI 368

Query: 340 DIITEE--EDSINRQKDFNERTQFFMQAINVD-EIIAHLLVAEGFADVEELACVKISE 394
           DI  +   + +    K    R ++ ++  +++ E + +    EG  ++E+ +     E
Sbjct: 369 DIKDKAKYDQAAEDAKFVAARAKYQLEEDDIESEELDYEENQEG--ELEDESFDPNDE 424


>gi|261416680|ref|YP_003250363.1| NusA antitermination factor [Fibrobacter succinogenes subsp.
           succinogenes S85]
 gi|261373136|gb|ACX75881.1| NusA antitermination factor [Fibrobacter succinogenes subsp.
           succinogenes S85]
 gi|302327396|gb|ADL26597.1| N utilization substance protein A [Fibrobacter succinogenes subsp.
           succinogenes S85]
          Length = 407

 Score =  359 bits (922), Expect = 7e-97,   Method: Composition-based stats.
 Identities = 145/375 (38%), Positives = 210/375 (56%), Gaps = 16/375 (4%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M +  ++ LL +   V  +KS+D  V+L  +  ++  AAR        I V+I+ ET ++
Sbjct: 1   MKNEPKVNLLDVLKEVVEDKSVDDSVILDALKKALISAARKYLHIEKKINVDIDMETNEV 60

Query: 61  SLFRLLEVVEEVENYTCQIS-------------LKVARDRDPSIDIGGVVSDPLPPMDFG 107
            +F  +EVV++  +Y   ++             +  ARD +     G  +   LP   FG
Sbjct: 61  HVFLNVEVVDDYPDYDPNMTAEEVAEMDEGYMLVDEARDFNEDAQAGDSLYMELPTSSFG 120

Query: 108 RVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIR 166
           R A+Q+AKQ++ Q +R AE  R    ++ ++G II+GTV R+E  NVIVDLG   +  + 
Sbjct: 121 RQAIQTAKQLLTQHIRSAECQRIMDIYRSRIGTIINGTVLRLEQRNVIVDLGNKIEAELP 180

Query: 167 RDETISRENLRPGDRVKSYIYDVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
             E I  E L  G  VK+ I  V    + G QV+LSR++  F+  L   EVPEIY G V+
Sbjct: 181 AREQIPHERLTQGASVKAVIARVEESTKSGAQVILSRSNADFLKALLRQEVPEIYEGTVE 240

Query: 226 VKAVSRDPG-SRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSA 284
           +KAV+RD    RAK+AV+S D  IDPVGACVGM+G+RVQ +V EL +E+IDIV W  +  
Sbjct: 241 IKAVARDSKNRRAKIAVYSRDEKIDPVGACVGMKGARVQTIVRELGNERIDIVHWDENFD 300

Query: 285 TFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            FV  +L PA V K+    D  RI +IV  E L+ AIG+ GQNV LA +L    +D+  E
Sbjct: 301 VFVQRSLAPASVLKMFPVPDTDRIVIIVDDENLAQAIGKGGQNVELAGRLVDRKLDVHGE 360

Query: 345 EEDSINRQKDFNERT 359
           +E S   ++  N   
Sbjct: 361 QEWSQMDEEAKNNIL 375


>gi|213964507|ref|ZP_03392707.1| transcription termination factor NusA [Corynebacterium amycolatum
           SK46]
 gi|213952700|gb|EEB64082.1| transcription termination factor NusA [Corynebacterium amycolatum
           SK46]
          Length = 328

 Score =  359 bits (922), Expect = 8e-97,   Method: Composition-based stats.
 Identities = 130/346 (37%), Positives = 199/346 (57%), Gaps = 31/346 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           L     +  EK I  D +L ++A +++++ R+        RVEI+ ETGD+ +F      
Sbjct: 5   LAALRTLEKEKGIPVDEMLGLVARALRESYRNTTAPAQYARVEIDRETGDVIVF------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A++RD   ++     D   P DF R A  + +Q I+ ++R+AE D+
Sbjct: 59  --------------AQERDDEGNLISEWDD--TPEDFERTAAFAVRQTILSRLRDAESDK 102

Query: 130 QYLEFKDKVGEIISGTVKR----VEYGNVIVDLG----NSDGVIRRDETISRENLRPGDR 181
              E+ D   ++ISG V+R     E G V+V +G      DG++   E +  E L+ GDR
Sbjct: 103 VLDEYADLSNQVISGVVQRDVYANEKGIVVVHIGSEANGRDGILMPAEQLPGEELKHGDR 162

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V +  RG  + LSRTHP+ + KLF +E+PE+ +G V++ +++R+ G R K+AV
Sbjct: 163 IKCYVVGVNKTPRGVAIHLSRTHPELIRKLFELEIPEVADGAVELISIAREAGHRTKVAV 222

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
             +   ++  GAC+G RG RV +++ EL+ EKIDI+ +  D A FV N+L PA V  V +
Sbjct: 223 RPTVKGLNAKGACIGPRGQRVSSIMNELKGEKIDIIDYDEDPAKFVGNSLAPAKVVSVKI 282

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           LD D  R  V+VP  QLSLAIG+ GQN RLA++LTGW IDI ++ E
Sbjct: 283 LDMDERRAHVVVPDYQLSLAIGKEGQNARLAARLTGWRIDIHSDAE 328


>gi|323356820|ref|YP_004223216.1| transcription elongation factor [Microbacterium testaceum StLB037]
 gi|323273191|dbj|BAJ73336.1| transcription elongation factor [Microbacterium testaceum StLB037]
          Length = 329

 Score =  358 bits (921), Expect = 8e-97,   Method: Composition-based stats.
 Identities = 122/342 (35%), Positives = 187/342 (54%), Gaps = 28/342 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI----RVEINPETGDISLFRL 65
           L +   +  EK I  D +  ++  +I  A         +I    R E++ +TG + +F  
Sbjct: 5   LALLKTIEREKEIPFDELARIIEQAILTAYAKHISPSGEIPAGARAELDRKTGHVGIF-- 62

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
              V + E                   IG    +   P DFGR+A  +AKQVI Q++R+ 
Sbjct: 63  -TPVTDEE----------------GAVIG---EEEQAPDDFGRIAAFAAKQVISQRLRDI 102

Query: 126 ERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
             D    EF+ K G+I++G V++      V VDLG  + ++  +E +  E    G R++ 
Sbjct: 103 ADDAVLGEFRGKEGDIVAGVVQQGPNPRMVHVDLGTVEAILPPEEQVPGETYAHGSRLRV 162

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+  V +  +GPQ+ +SRTHP  + KLF +EVPEI  G+V++ +++R+ G R+K+AV ++
Sbjct: 163 YVTSVSKGNKGPQITVSRTHPGLVRKLFALEVPEIAAGLVEIVSLAREAGHRSKIAVKAN 222

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV-TKVVLDE 303
           D +++  GAC+G  G RV+AV  EL  EKIDI+ +  +   FV NAL PA V +  VLD 
Sbjct: 223 DPTVNAKGACIGELGRRVRAVTEELAGEKIDIIDYDAELPRFVANALSPAKVTSSFVLDA 282

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
               +  +VP  QLSLAIG+ GQN RLA++LTG  IDI  + 
Sbjct: 283 STKAVRALVPDYQLSLAIGKEGQNARLAAKLTGAKIDIQPDS 324


>gi|86609687|ref|YP_478449.1| transcription elongation factor NusA [Synechococcus sp.
           JA-2-3B'a(2-13)]
 gi|86558229|gb|ABD03186.1| transcription termination factor NusA [Synechococcus sp.
           JA-2-3B'a(2-13)]
          Length = 457

 Score =  358 bits (920), Expect = 1e-96,   Method: Composition-based stats.
 Identities = 131/373 (35%), Positives = 207/373 (55%), Gaps = 28/373 (7%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL-----------YGTMSDIRVEINPET 57
           L ++ + ++ E+++ R VV   + +++ K                     +  VE++ E 
Sbjct: 9   LAEMVEMISRERNLPRHVVTDALREALLKGYERYRKTIQRDVVFAEDHFRNFDVELDVEA 68

Query: 58  GDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQSAK 115
           G   +     +VE+V+N   +ISL   +   P  ++G  V+D + P   +FGR+A    K
Sbjct: 69  GGFRVLATKAIVEQVQNPDHEISLYDVQQDYPEAEVGWEVTDDVTPQQAEFGRMAAIQTK 128

Query: 116 QVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIRRDE 169
           QV+ QK+R+ +R     EF+D    ++   V R E   VI+ + +       +  + + E
Sbjct: 129 QVLAQKLRDQQRRLIQEEFRDLEKTVLQARVLRTERQTVIMSVSSGFGQPEVEAELPKKE 188

Query: 170 TISRENLRPGDRVKSYIYDVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKA 228
            ++ +   P   +K Y+  V    R GPQ+L+SR     +V LF  EVPEI   IV++ A
Sbjct: 189 QLASDRYTPNAVMKVYLKKVYEGSRRGPQLLVSRADAGLVVNLFANEVPEIEEDIVRIVA 248

Query: 229 VSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           V+R+        G R K+AV + +  +DPVGAC+G RGSR+QAVV ELR+EKID++ WSP
Sbjct: 249 VAREANPPSRNVGPRTKIAVDTVERDVDPVGACIGARGSRIQAVVAELRNEKIDVIRWSP 308

Query: 282 DSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D AT++ NAL PA V +V ++D ++ +  V+V  +QLSLAIG+ GQNVRLA++LTGW ID
Sbjct: 309 DPATYIANALSPAKVVEVRLVDPEIQQAHVLVNSDQLSLAIGKEGQNVRLAARLTGWKID 368

Query: 341 IITEEEDSINRQK 353
           I   E      ++
Sbjct: 369 IKEVESYRAALEE 381


>gi|219685679|ref|ZP_03540493.1| transcription elongation protein NusA [Borrelia garinii Far04]
 gi|219672795|gb|EED29820.1| transcription elongation protein NusA [Borrelia garinii Far04]
          Length = 482

 Score =  358 bits (919), Expect = 1e-96,   Method: Composition-based stats.
 Identities = 137/465 (29%), Positives = 256/465 (55%), Gaps = 19/465 (4%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           ++A ++S+  + +   + +S+  A +  +G+  +  V+ +  TGD+ ++   ++VEEV++
Sbjct: 11  SIANDRSMSIESIRKTIKESVLIAYKKYFGSNENAFVKFDDNTGDLVVYAKKKIVEEVKD 70

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              +I  K     +  I  G      + P  F R+++Q AKQ     ++  E +    EF
Sbjct: 71  SLLEILEKDISKEN--IVEGDYAYIEINPKVFDRLSIQVAKQRTKNDLQGIEDNEILSEF 128

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           K K+ +++ G V++   G++ V+LGN+DG+I +     RE     D+++  +Y+V++ + 
Sbjct: 129 KSKLNKVVIGYVQQNRNGDLYVNLGNTDGIIPKKYQSPREVYSLNDKIRVLVYNVKKGKN 188

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           G +V+LSRTHP+F+ +L  +E+PEI  GI+++  + RDPG R K+AV+S    IDPVG C
Sbjct: 189 GIEVILSRTHPKFIEELLALEIPEIEEGIIKIHKIVRDPGYRIKVAVYSEKEEIDPVGPC 248

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVP 313
           +G +G R+Q+++ EL  EKIDI+ +S D   F+ ++L PA +  V +LDED+ +  V+V 
Sbjct: 249 IGQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIKDSLTPAKIDHVYILDEDLHKALVVVS 308

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIA 373
            +QLSLAIG+ GQNVRLA++L  W ID+ T  + +  +     ++    M     D+++ 
Sbjct: 309 DDQLSLAIGKMGQNVRLANRLLDWAIDVKTSSQFAEMKANSEFKQETLEM----FDKVMQ 364

Query: 374 HLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG--RAREYLEGIDITLQKKIREL 431
            ++  E F D+ +++ +K+ + + I    +E   +I    +A E +        +K  E+
Sbjct: 365 DVVEEEQFEDISKISDLKLLDSSVISNLSKEGLDDINNFLQADEEVLFNLGVSYEKQEEI 424

Query: 432 G----------VSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
                       +E   S+  ++   ++   E G+   E++  C 
Sbjct: 425 NKILKEGMIIIANENDESMEKVEEDEELLCPECGVVINENMTSCP 469


>gi|323342029|ref|ZP_08082262.1| transcription elongation factor NusA [Erysipelothrix rhusiopathiae
           ATCC 19414]
 gi|322464454|gb|EFY09647.1| transcription elongation factor NusA [Erysipelothrix rhusiopathiae
           ATCC 19414]
          Length = 536

 Score =  358 bits (919), Expect = 1e-96,   Method: Composition-based stats.
 Identities = 155/493 (31%), Positives = 245/493 (49%), Gaps = 4/493 (0%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLF 63
           N   ++     +   ++I +++++  + DS+ KA R   G   + + V I+  T ++ LF
Sbjct: 2   NVKNVILAMQEIEDNRNISKEIIIDALQDSLIKAYRKQIGVPDALVDVIIDERTQEMKLF 61

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
               VVEEV +   ++ +    +    + +G       P ++ GR A   AK VI QK+R
Sbjct: 62  HKFLVVEEVMDDELEVGITELPEGAEGLQVGEYYMIEEPIVELGRAAATLAKNVIKQKIR 121

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           EAE+   Y E+ D++GE+I   V+ VE   V+++LG S  V+ R   I  E  R G  +K
Sbjct: 122 EAEKQAVYDEYIDQLGEMIMAMVESVEEKFVVLNLGKSLAVMPRAAQIEGETYREGQTLK 181

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
             I DV R+ +G Q+L+SR     + +LF  EVPEI+ G V++KA++R+ G R K+AV+S
Sbjct: 182 VVITDVNRDTKGAQILVSRADAMLVRRLFENEVPEIFEGQVEIKAIAREAGERTKIAVYS 241

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            DS IDP+GAC+G RGSRVQA++ EL+ EKIDI  WS +    + NAL PA V  V  + 
Sbjct: 242 HDSDIDPIGACIGPRGSRVQAIIEELKGEKIDIFEWSDNMVELINNALAPAEVIAVYPNA 301

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
           D   + VIV   QLSLAIG+RG+N RLA +LT   IDI +  E   +     +    +  
Sbjct: 302 DNKGLVVIVDDNQLSLAIGKRGKNARLAVRLTKQRIDIKSVSEAEADGIDYVSLMAAYEA 361

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
           +     + +   +  E     E  A V   EI  +E    + A  I    +E  +     
Sbjct: 362 EIR--SKQVQEEVNEELVVRTEVEATVDAEEIVEVEE-TADLAESIIEEVQEVEQTEVTD 418

Query: 424 LQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
           +  +   +  +EE      +D K       + +   E LA  S  +       +     +
Sbjct: 419 VVSEEIIIEETEESEEAIKLDRKDVFKPRTDYVSKFEQLADASRKEEQDLRRRRRKPERE 478

Query: 484 FDGFLSSLGTPKD 496
            D  +++    K+
Sbjct: 479 EDKPVNTSELLKE 491


>gi|216264195|ref|ZP_03436187.1| transcription elongation protein NusA [Borrelia burgdorferi 156a]
 gi|221217568|ref|ZP_03589037.1| transcription elongation protein NusA [Borrelia burgdorferi 72a]
 gi|225550297|ref|ZP_03771256.1| transcription elongation protein NusA [Borrelia burgdorferi 118a]
 gi|215980668|gb|EEC21475.1| transcription elongation protein NusA [Borrelia burgdorferi 156a]
 gi|221192514|gb|EEE18732.1| transcription elongation protein NusA [Borrelia burgdorferi 72a]
 gi|225369165|gb|EEG98619.1| transcription elongation protein NusA [Borrelia burgdorferi 118a]
          Length = 482

 Score =  357 bits (918), Expect = 2e-96,   Method: Composition-based stats.
 Identities = 138/476 (28%), Positives = 254/476 (53%), Gaps = 43/476 (9%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           +A ++ +  D +   + +S+  A +  +G+  +  V+ + +TGD+S++   ++V+EV++ 
Sbjct: 12  IANDRGMSIDSIRKTIKESVLIAYKKYFGSNENAFVKFDDDTGDLSVYAKKKIVKEVKDS 71

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
             +I  K     +  I  G      + P  F R+++Q AKQ     ++  E +    EFK
Sbjct: 72  LLEILEKDISKEN--IVEGDYAYIEINPKVFDRLSIQVAKQRTKNDLQGIEDNEILSEFK 129

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
            K+ +++ G V++   G++ V+LGN+DG+I +     RE     D+++  +Y+V++ + G
Sbjct: 130 SKLNKVVIGYVQQNRNGDLYVNLGNTDGIIPKKYQSPREVYNLNDKIRVLVYNVKKGKNG 189

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
            +V+LSRTHP+F+ +L  +E+PEI  GI+++  + RDPG R K+AV+S    IDPVG C+
Sbjct: 190 IEVILSRTHPKFIEELLALEIPEIEEGIIKIHKIVRDPGYRIKVAVYSEKEEIDPVGPCI 249

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPK 314
           G +G R+Q+++ EL  EKIDI+ +S D   F+ ++L P+ +  V +LDED+ +  V+V  
Sbjct: 250 GQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIKDSLTPSKIEHVYILDEDLHKALVVVSD 309

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAH 374
           +QLSLAIG+ GQNVRLA++L  W ID+ T  + +  +     ++    M     D+++  
Sbjct: 310 DQLSLAIGKMGQNVRLANRLLDWAIDVKTSSQFAEMKANSEFKQETLEM----FDKVMQD 365

Query: 375 LLVAEGFADVEELACVKISEIASI-----EGFDE-------------------ETAVEIQ 410
           ++  E F ++ +++ +K+ + + I     EG D+                   E   EI 
Sbjct: 366 VVEEEQFEEISKISDLKLLDPSVISNLSKEGLDDINNFLQADEGALFNLGVSYEKQEEIN 425

Query: 411 GRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
              +E +  I     + + ++   EEL               E G+   E++  C 
Sbjct: 426 KILKEGMIIIANDNDESMEKVEEDEELL------------CPECGVVINENMTSCP 469


>gi|224534126|ref|ZP_03674706.1| transcription elongation protein NusA [Borrelia spielmanii A14S]
 gi|224514551|gb|EEF84865.1| transcription elongation protein NusA [Borrelia spielmanii A14S]
          Length = 482

 Score =  357 bits (918), Expect = 2e-96,   Method: Composition-based stats.
 Identities = 135/465 (29%), Positives = 257/465 (55%), Gaps = 19/465 (4%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           ++A ++S+  + +   + +S+  A +  +G+  +  ++ + +TGD+ ++   ++VEEV++
Sbjct: 11  SIANDRSMSIESIRKTIKESVLIAYKKYFGSNENAFIKFDDDTGDLVVYAKKKIVEEVKD 70

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              +IS K     +  I  G      + P  F R+++Q AKQ     ++  E +    EF
Sbjct: 71  SFFEISEKDISREN--IVEGDYAYIEINPKVFDRLSIQVAKQRTKNDLQGIEDNEILSEF 128

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           K K+ +++ G V++   G++ V+LGN+DG+I +     RE     D+++  +Y+V++ + 
Sbjct: 129 KSKLNKVVIGYVQQNRNGDLYVNLGNTDGIIPKKYQSPREVYSLNDKIRVLVYNVKKGKN 188

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           G +V+LSRTHP+F+ +L  +E+PEI  GI+++  + RDPG R K+AV+S    IDPVG C
Sbjct: 189 GIEVILSRTHPKFIEELLALEIPEIEEGIIKIHKIVRDPGYRIKVAVYSEKEEIDPVGPC 248

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVP 313
           +G +G R+Q+++ EL  EKIDI+ +S D   F+ +AL P+ +  V ++DED+ +  V+V 
Sbjct: 249 IGQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIKDALTPSKIEHVYIIDEDLHKALVVVS 308

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIA 373
            +QLSLAIG+ GQNVRLA++L  W ID+ T  + +  +     ++    M     D+++ 
Sbjct: 309 DDQLSLAIGKMGQNVRLANRLLDWAIDVKTSSQFAEMKANSEFKQETLEM----FDKVMQ 364

Query: 374 HLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG--RAREYLEGIDITLQKKIREL 431
            ++  E F ++ +++ +K+ + + I    +E   +I    +A E L        +K  E+
Sbjct: 365 DVVEEEQFEEISKISDLKLLDSSVISNLSKEGLDDINNFLQADEGLLFNLGVSYEKQEEI 424

Query: 432 G----------VSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
                       ++   S+   +   ++   E G+   E++  C 
Sbjct: 425 NKILKEGMIIIANDSGESMEKAEEDEELLCPECGVVINENMTSCP 469


>gi|327398877|ref|YP_004339746.1| NusA antitermination factor [Hippea maritima DSM 10411]
 gi|327181506|gb|AEA33687.1| NusA antitermination factor [Hippea maritima DSM 10411]
          Length = 360

 Score =  357 bits (918), Expect = 2e-96,   Method: Composition-based stats.
 Identities = 132/344 (38%), Positives = 211/344 (61%), Gaps = 6/344 (1%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+LQIA  ++ E  ID + V+  +A++++ A +  YG  +D+R+E + +     +F +  
Sbjct: 3   EILQIAKKISEEHEIDLERVVEYLAEALKIAIQKKYGDEADVRIETDVDN---EIFDVYV 59

Query: 68  VVEEVENY--TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             + VE      QISL+ A+   P   +G  V + +     GR+AV + K VI + +R+ 
Sbjct: 60  KKKVVEKPMLDSQISLEEAKAIKPDAKVGDYVEEKVDAKSLGRIAVTTIKNVITKLLRDI 119

Query: 126 ERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           E+ + Y E+K+ +G+II G V  +    NVIVD  N+ GV+ + E    +    G+ +K+
Sbjct: 120 EKHKAYEEYKEYIGKIIVGEVWSIGSNNNVIVDFKNAIGVLPKREQGINDKYVVGEHIKA 179

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+ DV  E +  +++LSRTHP F+ +LF  EVPE+  G V++KAV+R+P  R K+AV+S 
Sbjct: 180 YVLDVLEEAKQVRLILSRTHPGFVKELFKKEVPEVREGSVEIKAVAREPSRRTKVAVYSK 239

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           DS IDP+G CVG +G R+ A+V EL DEKID++ WS D + ++ NA+ PA V  V +DED
Sbjct: 240 DSRIDPIGTCVGSKGVRIAAIVRELGDEKIDVIKWSADPSIYIRNAMSPAKVISVEIDED 299

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           + + +V V   + S+AIG+ G N +LA++LTG+ IDI    +  
Sbjct: 300 LKKAKVYVDDAEYSMAIGKGGVNAKLAAKLTGYNIDIAKISDKE 343


>gi|15595145|ref|NP_212934.1| transcription elongation factor NusA [Borrelia burgdorferi B31]
 gi|218249928|ref|YP_002375299.1| transcription elongation protein NusA [Borrelia burgdorferi ZS7]
 gi|223889315|ref|ZP_03623902.1| transcription elongation protein NusA [Borrelia burgdorferi 64b]
 gi|226321265|ref|ZP_03796793.1| transcription elongation protein NusA [Borrelia burgdorferi Bol26]
 gi|3914177|sp|O51740|NUSA_BORBU RecName: Full=Transcription elongation protein nusA
 gi|2688748|gb|AAC67154.1| N-utilization substance protein A (nusA) [Borrelia burgdorferi B31]
 gi|218165116|gb|ACK75177.1| transcription elongation protein NusA [Borrelia burgdorferi ZS7]
 gi|223885236|gb|EEF56339.1| transcription elongation protein NusA [Borrelia burgdorferi 64b]
 gi|226233297|gb|EEH32048.1| transcription elongation protein NusA [Borrelia burgdorferi Bol26]
          Length = 482

 Score =  357 bits (918), Expect = 2e-96,   Method: Composition-based stats.
 Identities = 138/476 (28%), Positives = 255/476 (53%), Gaps = 43/476 (9%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           +A ++ +  D +   + +S+  A +  +G+  +  ++ + +TGD+S++   ++V+EV++ 
Sbjct: 12  IANDRGMSIDSIRKTIKESVLIAYKKYFGSNENAFIKFDDDTGDLSVYAKKKIVKEVKDS 71

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
             +I  K     +  I  G      + P  F R+++Q AKQ     ++  E +    EFK
Sbjct: 72  LLEILEKDISKEN--IVEGDYAYIEINPKVFDRLSIQVAKQRTKNDLQGIEDNEILSEFK 129

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
            K+ +++ G V++   G++ V+LGN+DG+I +     RE     D+++  +Y+V++ + G
Sbjct: 130 SKLNKVVIGYVQQNRNGDLYVNLGNTDGIIPKKYQSPREVYNLNDKIRVLVYNVKKGKNG 189

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
            +V+LSRTHP+F+ +L  +E+PEI  GI+++  + RDPG R K+AV+S    IDPVG C+
Sbjct: 190 IEVILSRTHPKFIEELLALEIPEIEEGIIKIHKIVRDPGYRIKVAVYSEKEEIDPVGPCI 249

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPK 314
           G +G R+Q+++ EL  EKIDI+ +S D   F+ ++L P+ +  V +LDED+ +  V+V  
Sbjct: 250 GQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIKDSLTPSKIEHVYILDEDLHKALVVVSD 309

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAH 374
           +QLSLAIG+ GQNVRLA++L  W ID+ T  + +  +     ++    M     D+++  
Sbjct: 310 DQLSLAIGKMGQNVRLANRLLDWAIDVKTSSQFAEMKANSEFKQETLEM----FDKVMQD 365

Query: 375 LLVAEGFADVEELACVKISEIASI-----EGFDE-------------------ETAVEIQ 410
           ++  E F ++ +++ +K+ + + I     EGFD+                   E   EI 
Sbjct: 366 VVEEEQFEEISKISDLKLLDPSVISNLSKEGFDDINNFLQADEGVLFNLGVSYEKQEEIN 425

Query: 411 GRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
              +E +  I     + + ++   EEL               E G+   E++  C 
Sbjct: 426 KILKEGMIIIANDNDESMEKVEEDEELL------------CPECGVVINENMTSCP 469


>gi|282898605|ref|ZP_06306593.1| NusA antitermination factor [Cylindrospermopsis raciborskii CS-505]
 gi|281196473|gb|EFA71382.1| NusA antitermination factor [Cylindrospermopsis raciborskii CS-505]
          Length = 428

 Score =  357 bits (917), Expect = 3e-96,   Method: Composition-based stats.
 Identities = 137/419 (32%), Positives = 212/419 (50%), Gaps = 48/419 (11%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAA----------RSLYGTM--SDIRVEINPE 56
           L  + + ++ E+++ R  V S + +++ K            R  +      +  VE++ +
Sbjct: 9   LKDLIEKISLERNLPRLAVQSSIREALLKGYERYRRAQNLERRQFDENYFDNFEVELDID 68

Query: 57  TGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQSA 114
                +     +VEEV N   QISL   +   P    G  V   + P   +FGR+A    
Sbjct: 69  GEGFRVLSTKTIVEEVTNGDHQISLDEVQQVAPEAQSGDSVVLDVTPDQGEFGRMAAMQT 128

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIRRD 168
           KQV+ QK+R+ +R     EF+D  G ++   V R E  +VI+ + +       +  + + 
Sbjct: 129 KQVLAQKLRDQQRQMVQEEFQDLEGTVLQARVLRFERQSVILAVSSSFGQPEVEAELPKR 188

Query: 169 ETISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVK 227
           E +  +  R     K Y+  V + Q RGPQ+L+SR     +V LF  EVPEI + +V++ 
Sbjct: 189 EQLPNDTYRSNATFKVYLKKVSQGQQRGPQLLVSRADAGLVVYLFANEVPEIEDEVVRIV 248

Query: 228 AVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
           AV+R+        G R K+AV + D  +DPVGAC+G RGSR+Q VV ELR EKID++ WS
Sbjct: 249 AVAREANPPSRYVGPRTKIAVDTLDRDVDPVGACIGARGSRIQVVVNELRGEKIDVIRWS 308

Query: 281 PDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
           PD AT++ NAL PA V +V L D +  +  V+V ++QLSLAIG+ GQNVRLA++LTGW I
Sbjct: 309 PDPATYIANALSPARVDEVRLMDPESRQTHVLVAEDQLSLAIGKEGQNVRLAARLTGWKI 368

Query: 340 DIITE-------------------EEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAE 379
           DI  +                   +E+S      F    + +    +  E   + +  E
Sbjct: 369 DIKDQAKYDYGAEDAKFAAVRANYQEESNQLDNQFEVIEEEYEDDPDAGEDEFNSMEEE 427


>gi|257784634|ref|YP_003179851.1| NusA antitermination factor [Atopobium parvulum DSM 20469]
 gi|257473141|gb|ACV51260.1| NusA antitermination factor [Atopobium parvulum DSM 20469]
          Length = 413

 Score =  357 bits (917), Expect = 3e-96,   Method: Composition-based stats.
 Identities = 129/359 (35%), Positives = 198/359 (55%), Gaps = 36/359 (10%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E+++    +  EK ID   +L  +  S+ K+   +       RV I+  TG + ++   E
Sbjct: 4   EMMEALMLLCQEKHIDELYLLDRLEQSLAKSYADVLHLDFGARVTIDRATGRVYVY---E 60

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           +V + E    +           + +        + P D  R+A Q AK  I   VR A R
Sbjct: 61  LVPKGE-PDEE-----------TGEYTEFDEVDVTPPDTSRIAAQHAKAEIKTLVRNAAR 108

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIR----------RDETISRENL 176
            + Y EF+ +VG+II+GTV +      I+ +    +  +           RDE  + E  
Sbjct: 109 AQIYDEFRGRVGDIITGTVLQSTPDFTIIKIREGVEAELPHFDQRRFPDERDERPAGERY 168

Query: 177 RPGDRVKSYIYDVRR----------EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
               R+K+ I DVR           E++ P +++SRTHP  + +LF +EVPE+Y+G+V +
Sbjct: 169 LHNQRIKAIIVDVRDPNATQPAVRGERQRPPIVVSRTHPDLIRRLFELEVPEVYDGVVSI 228

Query: 227 KAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATF 286
           ++++R+ G R+K+AV S D  +DPVGACVG +GSRV+ VV+ELR E++D+V W  D+A  
Sbjct: 229 RSIAREAGVRSKIAVSSVDERLDPVGACVGPKGSRVRTVVSELRGERVDVVPWFDDAARC 288

Query: 287 VINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           V +AL PA V++V++D   G   VIVP +QLSLAIG+ GQN RLA++LTG  IDI  E 
Sbjct: 289 VASALSPARVSRVIVDGATGHATVIVPDDQLSLAIGKEGQNARLAARLTGLHIDIKNES 347


>gi|225551696|ref|ZP_03772640.1| transcription elongation protein NusA [Borrelia sp. SV1]
 gi|225371723|gb|EEH01149.1| transcription elongation protein NusA [Borrelia sp. SV1]
          Length = 482

 Score =  357 bits (917), Expect = 3e-96,   Method: Composition-based stats.
 Identities = 135/464 (29%), Positives = 256/464 (55%), Gaps = 19/464 (4%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           +A ++ +  D +   + +S+  A +  +G+  +  ++ + +TGD+S++   ++V+EV++ 
Sbjct: 12  IANDRGMSIDSIRKTIKESVLIAYKKYFGSNENAFIKFDDDTGDLSVYAKKKIVKEVKDS 71

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
             +I  K     +  I  G      + P  F R+++Q AKQ     ++  E +    EFK
Sbjct: 72  FLEILEKDISKEN--IVEGDYAYIEINPKVFDRLSIQVAKQRTKNDLQGIEDNEILSEFK 129

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
            K+ +++ G V++   G++ V+LGN+DG+I +     RE     D+++  +Y+V++ + G
Sbjct: 130 SKLNKVVIGYVQQNRNGDLYVNLGNTDGIIPKKYQSPREVYNLNDKIRVLVYNVKKGKNG 189

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
            +V+LSRTHP+F+ +L  +E+PEI  GI+++  + RDPG R K+AV+S    IDPVG C+
Sbjct: 190 IEVILSRTHPKFIEELLALEIPEIEEGIIKIHKIVRDPGYRIKVAVYSEKEEIDPVGPCI 249

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPK 314
           G +G R+Q+++ EL  EKIDI+ +S D   F+ ++L P+ +  V +LDED+ +  V+V  
Sbjct: 250 GQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIKDSLTPSKIEHVYILDEDLHKALVVVSD 309

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAH 374
           +QLSLAIG+ GQNVRLA++L  W ID+ T  + +  +     ++    M     D+++  
Sbjct: 310 DQLSLAIGKMGQNVRLANRLLDWAIDVKTSSQFAEMKANSEFKQETLEM----FDKVMQD 365

Query: 375 LLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG--RAREYLEGIDITLQKKIRELG 432
           ++  E F ++ +++ +K+ + + I    +E   +I    +A E L        +K  E+ 
Sbjct: 366 VVEEEQFEEISKISDLKLLDPSVISDLSKEGLDDINNFLQADEGLLFNLGVSYEKQEEIN 425

Query: 433 ----------VSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
                      ++   SI  ++   ++   E G+   E++  C 
Sbjct: 426 KILKEGMIIIANDNDESIEKVEEDEELLCPECGVVINENMTSCP 469


>gi|189501596|ref|YP_001957313.1| transcription termination factor NusA [Candidatus Amoebophilus
           asiaticus 5a2]
 gi|189497037|gb|ACE05584.1| transcription termination factor NusA [Candidatus Amoebophilus
           asiaticus 5a2]
          Length = 411

 Score =  356 bits (915), Expect = 4e-96,   Method: Composition-based stats.
 Identities = 127/409 (31%), Positives = 230/409 (56%), Gaps = 15/409 (3%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             +L++     A  K++DR  V+ ++ +  +      +GT  +  + IN + GD+ ++R 
Sbjct: 3   SKKLIETFAEFARSKNVDRPTVIRILEEVFKAMIHKKFGTDDNFDIIINLDQGDLQIWRF 62

Query: 66  LEVV----EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            EVV    E++ ++   ISL  A+  +   +IG  VS+ +    FGR A+ +A+Q +IQK
Sbjct: 63  REVVDDNSEDIWDHDK-ISLSEAKKIEEDFNIGEEVSEEISVDSFGRRAITAARQTLIQK 121

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI-VDLGNSDGVIRRDETISRENLRPGD 180
           V++ E+D  YL++   +GE+I+  V ++    VI VD    +  + + E I ++  + G+
Sbjct: 122 VKDLEKDALYLKYTQLIGEMITVEVHQILPQEVILVDEERKELFLPKSEQIFKDIFKKGE 181

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +++ ++ +  ++  P+V+LSRT P F+ +LF  EVPEI++GI+ +K V R+PG RAK+A
Sbjct: 182 YIRAVVHRIDLQKSTPKVILSRTSPIFLERLFESEVPEIFDGIITIKKVVREPGERAKVA 241

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S D  IDPVGACVG++GSR+ ++V EL++E ID++ ++ +   ++  AL PA ++ + 
Sbjct: 242 VESLDDRIDPVGACVGIKGSRIHSIVRELQNENIDVINYTDNLELYISRALSPAKISSIQ 301

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +     R+ V +  +Q+SLAIG+ GQN++LAS+L    ID+  E +          E   
Sbjct: 302 M--KGDRVAVYLKPDQVSLAIGKGGQNIKLASRLVDREIDVYREVD-------SIGEDVN 352

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEI 409
               A  ++  I   L   G    + +  +   ++      ++ET  E+
Sbjct: 353 LEEFADEIEPWIIDELKKTGLDSAKSVLAIPKEDLERRTDLEKETIDEL 401


>gi|226320845|ref|ZP_03796397.1| transcription elongation protein NusA [Borrelia burgdorferi 29805]
 gi|226233711|gb|EEH32440.1| transcription elongation protein NusA [Borrelia burgdorferi 29805]
 gi|312149161|gb|ADQ29232.1| transcription elongation protein NusA [Borrelia burgdorferi N40]
          Length = 482

 Score =  356 bits (915), Expect = 5e-96,   Method: Composition-based stats.
 Identities = 133/464 (28%), Positives = 256/464 (55%), Gaps = 19/464 (4%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           +A ++ +  D +   + +S+  A +  +G+  +  ++ + +TGD+S++   ++V+EV++ 
Sbjct: 12  IANDRGMSIDSIRKTIKESVLIAYKKYFGSNENAFIKFDDDTGDLSVYAKKKIVKEVKDS 71

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
             +I  K     +  I  G      + P  F R+++Q AKQ     ++  E +    EFK
Sbjct: 72  LLEILEKDISKEN--IVEGDYAYIEINPKVFDRLSIQVAKQRTKNDLQGIEDNEILSEFK 129

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
            K+ +++ G V++   G++ V+LGN+DG+I +     RE     D+++  +Y+V++ + G
Sbjct: 130 SKLNKVVIGYVQQNRNGDLYVNLGNTDGIIPKKYQSPREVYNLNDKIRVLVYNVKKGKNG 189

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
            +V+LSRTHP+F+ +L  +E+PEI  GI+++  + RDPG R K+AV+S    IDPVG C+
Sbjct: 190 IEVILSRTHPKFIEELLALEIPEIEEGIIKIHKIVRDPGYRIKVAVYSEKEEIDPVGPCI 249

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPK 314
           G +G R+Q+++ EL  EKIDI+ +S D   F+ ++L P+ +  V +LDED+ +  V+V  
Sbjct: 250 GQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIKDSLTPSKIEHVYILDEDLHKALVVVSD 309

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAH 374
           +QLSLAIG+ GQNVRLA++L  W ID+ T  + +  +     ++    M     D+++  
Sbjct: 310 DQLSLAIGKMGQNVRLANRLLDWAIDVKTSSQFAEMKANSEFKQETLEM----FDKVMQD 365

Query: 375 LLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG--RAREYLEGIDITLQKKIRELG 432
           ++  E F ++ +++ +K+ + + I    +E   +I    +A E +        +K  E+ 
Sbjct: 366 VVEEEQFEEISKISDLKLLDPSVISNLSKEGLDDINNFLQADEGVLFNLGVSYEKQEEIN 425

Query: 433 ----------VSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
                      ++   S+  ++   ++   E G+   E++  C 
Sbjct: 426 KILKEGMIIIANDNDESMEKVEEDEELLCPECGVVINENMTSCP 469


>gi|227495147|ref|ZP_03925463.1| transcription termination factor NusA [Actinomyces coleocanis DSM
           15436]
 gi|226831599|gb|EEH63982.1| transcription termination factor NusA [Actinomyces coleocanis DSM
           15436]
          Length = 343

 Score =  356 bits (915), Expect = 5e-96,   Method: Composition-based stats.
 Identities = 119/360 (33%), Positives = 198/360 (55%), Gaps = 24/360 (6%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     V     ID   ++  + D++ K    + G++ + R+EI+ +TG +++       
Sbjct: 1   MSALREVESTLEIDGITLVKAIEDALLKVYHKMPGSIKEARIEIDRKTGKVAVM------ 54

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A + D   +  G   D   P +FGR+A  +A+ +I Q++REA+  +
Sbjct: 55  --------------ATEFDDDDNPIGEFDD--TPKEFGRIATATARSIITQRIREADDSK 98

Query: 130 QYLEFKDKVGEIISGTVK-RVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
              EF++K G ++ GTV+        ++ +G  + ++   E +  E    G  +++Y+ +
Sbjct: 99  VLGEFRNKTGTVVVGTVEAHTNPHFTLLRVGEFEAILPESEKVPGETYEHGKVIRAYVLE 158

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V R +RG ++ +SR+HP F+  LF  EVPEI  G+V++K+V+R+ G R+K+AV +++  I
Sbjct: 159 VTRGERGARITVSRSHPNFVEALFAREVPEIAQGLVEIKSVAREAGHRSKIAVAATEEGI 218

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE-DVGR 307
           +  GAC+G  G RV+AV+TEL+ EKIDIV +S D A F+ N+L PA V+ V +D     +
Sbjct: 219 NAKGACIGPMGRRVRAVMTELQGEKIDIVDYSTDPARFIANSLSPARVSTVTIDSLPEKK 278

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
             VIVP  Q SLAIGR GQN RLA++L G+ IDI ++ E           R      ++N
Sbjct: 279 ATVIVPDFQFSLAIGREGQNARLAARLCGFHIDIHSDTESGYGVMASDVSRPDVSNASLN 338


>gi|224533442|ref|ZP_03674035.1| transcription elongation protein NusA [Borrelia burgdorferi
           CA-11.2a]
 gi|225549360|ref|ZP_03770332.1| transcription elongation protein NusA [Borrelia burgdorferi 94a]
 gi|224513404|gb|EEF83762.1| transcription elongation protein NusA [Borrelia burgdorferi
           CA-11.2a]
 gi|225369988|gb|EEG99429.1| transcription elongation protein NusA [Borrelia burgdorferi 94a]
 gi|312148269|gb|ADQ30928.1| transcription elongation protein NusA [Borrelia burgdorferi JD1]
          Length = 482

 Score =  356 bits (914), Expect = 6e-96,   Method: Composition-based stats.
 Identities = 137/476 (28%), Positives = 254/476 (53%), Gaps = 43/476 (9%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           +A ++ +  D +   + +S+  A +  +G+  +  ++ + +TGD+S++   ++V+EV++ 
Sbjct: 12  IANDRGMSIDSIRKTIKESVLIAYKKYFGSNENAFIKFDDDTGDLSVYAKKKIVKEVKDS 71

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
             +I  K     +  I  G      + P  F R+++Q AKQ     ++  E +    EFK
Sbjct: 72  LLEILEKDISKEN--IVEGDYAYIEINPKVFDRLSIQVAKQRTKNDLQGIEDNEILSEFK 129

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
            K+ +++ G V++   G++ V+LGN+DG+I +     RE     D+++  +Y+V++ + G
Sbjct: 130 SKLNKVVIGYVQQNRNGDLYVNLGNTDGIIPKKYQSPREVYNLNDKIRVLVYNVKKGKNG 189

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
            +V+LSRTHP+F+ +L  +E+PEI  GI+++  + RDPG R K+AV+S    IDPVG C+
Sbjct: 190 IEVILSRTHPKFIEELLALEIPEIEEGIIKIHKIVRDPGYRIKVAVYSEKEEIDPVGPCI 249

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPK 314
           G +G R+Q+++ EL  EKIDI+ +S D   F+ ++L P+ +  V +LDED+ +  V+V  
Sbjct: 250 GQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIKDSLTPSKIEHVYILDEDLHKALVVVSD 309

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAH 374
           +QLSLAIG+ GQNVRLA++L  W ID+ T  + +  +     ++    M     D+++  
Sbjct: 310 DQLSLAIGKMGQNVRLANRLLDWAIDVKTSSQFAEMKANSEFKQETLEM----FDKVMQD 365

Query: 375 LLVAEGFADVEELACVKISEIASI-----EGFDE-------------------ETAVEIQ 410
           ++  E F ++ +++ +K+ + + I     EG D+                   E   EI 
Sbjct: 366 VVEEEQFEEISKISDLKLLDPSVISNLSKEGLDDINNFLQADEGALFNLGVSYEKQEEIN 425

Query: 411 GRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
              +E +  I     + + ++   EEL               E G+   E++  C 
Sbjct: 426 KILKEGMIIIANDNDESMEKVEEDEELL------------CPECGVVINENMTSCP 469


>gi|86605175|ref|YP_473938.1| transcription elongation factor NusA [Synechococcus sp. JA-3-3Ab]
 gi|86553717|gb|ABC98675.1| transcription termination factor NusA [Synechococcus sp. JA-3-3Ab]
          Length = 455

 Score =  355 bits (913), Expect = 7e-96,   Method: Composition-based stats.
 Identities = 129/373 (34%), Positives = 206/373 (55%), Gaps = 28/373 (7%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL-----------YGTMSDIRVEINPET 57
           L ++ + ++ E+++ R  V + + +++ K                     +  VE++ E 
Sbjct: 9   LAEMVEMISRERNLPRHAVTNALREALLKGYERYRKTIQRDVVFEEDHFRNFDVELDVEA 68

Query: 58  GDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQSAK 115
           G   +     +VEEV +   +ISL   +   P  ++G  V++ + P   +FGR+A    K
Sbjct: 69  GGFRILATKTIVEEVRDPDHEISLYDVQQDYPEAEVGWEVTNDVTPQQAEFGRMAAIQTK 128

Query: 116 QVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIRRDE 169
           QV+ QK+R+ +R     EF+D    ++   V R E   VI+ + +       +  + + E
Sbjct: 129 QVLAQKLRDQQRRLIQEEFRDLENTVLQARVLRTERQTVIMAVSSGFGQPEVEAELPKKE 188

Query: 170 TISRENLRPGDRVKSYIYDVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKA 228
            ++ +   P   +K Y+  V    R GPQ+L+SR     +V LF  EVPEI   IV++ A
Sbjct: 189 QLASDRYTPNAVMKVYLKKVYEGSRRGPQLLVSRADAGLVVNLFANEVPEIEEDIVRIVA 248

Query: 229 VSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           V+R+        G R K+AV + +  +DPVGAC+G RGSR+QAVV ELR+EKID++ WSP
Sbjct: 249 VAREANPPSRNVGPRTKIAVDTVERDVDPVGACIGARGSRIQAVVAELRNEKIDVIRWSP 308

Query: 282 DSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D AT++ NAL PA V +V ++D ++ +  V+V  +QLSLAIG+ GQNVRLA++LTGW ID
Sbjct: 309 DPATYIANALSPAKVVEVRLVDPEIQQAHVLVTSDQLSLAIGKEGQNVRLAARLTGWKID 368

Query: 341 IITEEEDSINRQK 353
           I   E      ++
Sbjct: 369 IKEVESYRAALEE 381


>gi|283769341|ref|ZP_06342240.1| transcription termination factor NusA [Bulleidia extructa W1219]
 gi|283103998|gb|EFC05382.1| transcription termination factor NusA [Bulleidia extructa W1219]
          Length = 569

 Score =  355 bits (913), Expect = 8e-96,   Method: Composition-based stats.
 Identities = 136/341 (39%), Positives = 204/341 (59%), Gaps = 2/341 (0%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLLEV 68
           L     V  E+SI + V+L  + +++ KA +        D+  EIN +   I LF+   V
Sbjct: 9   LAALTDVEEERSIPQSVILEALKEAMAKAYKKNEELPDIDVVAEINEKKKSIDLFQNYVV 68

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           V EVE+   ++SL+ AR  D +  +G  V  P+      R A   AK V+ QK+REAE++
Sbjct: 69  VTEVEDDELEMSLEQARQLDKNAQVGDTVRRPVEIESMTRAAAMLAKNVMRQKIREAEKE 128

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYD 188
             Y E+  ++ E++ GT++ ++    +V+LG +  ++   E I  E LR   R+K  I +
Sbjct: 129 AVYNEYIGQLNEMVFGTIESIKDKFTLVNLGKTTALMLSGEQIPNERLRENQRIKVVITE 188

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V +E +G QVL+SR     + +LF  EVPEI+ G+V++KA++R+ G R K+AV S    +
Sbjct: 189 VNKEGKGAQVLVSRGTAMLVRRLFEAEVPEIFQGVVEIKAIAREAGERTKMAVLSHHPEV 248

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRI 308
           DP+GAC+G RGSRVQ ++ EL+ EK+DI  WS D  + V NAL PA +  V+ +ED G +
Sbjct: 249 DPIGACIGPRGSRVQEIIKELKGEKVDIFEWSEDITSLVQNALSPAEIETVIPNED-GSL 307

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
            VIV ++QLSLAIG+RG+N RLA +LT   IDI T  E   
Sbjct: 308 MVIVAEDQLSLAIGKRGKNARLAVKLTNRKIDIKTRAELEE 348


>gi|219684959|ref|ZP_03539900.1| transcription elongation protein NusA [Borrelia garinii PBr]
 gi|219671697|gb|EED28753.1| transcription elongation protein NusA [Borrelia garinii PBr]
          Length = 482

 Score =  355 bits (912), Expect = 1e-95,   Method: Composition-based stats.
 Identities = 135/465 (29%), Positives = 256/465 (55%), Gaps = 19/465 (4%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           ++A ++S+  + +   + +S+  A +  +G+  +  V+ +  TGD+ ++   ++VEEV++
Sbjct: 11  SIANDRSMSIESIRKTIKESVLIAYKKYFGSNENAFVKFDDNTGDLVVYAKKKIVEEVKD 70

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              +I  K     +  I  G      + P  F R+++Q AKQ     ++  E +    EF
Sbjct: 71  SLLEILEKDISKEN--IVEGDYAYIEINPKIFDRLSIQVAKQRTKNDLQGIEDNEILSEF 128

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           K K+ +++ G V++   G++ V+LGN+DG+I +     RE     D+++  +Y+V++ + 
Sbjct: 129 KSKLNKVVIGYVQQNRNGDLYVNLGNTDGIIPKKYQSPREVYSLNDKIRVLVYNVKKGKN 188

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           G +V+LSRTHP+F+ +L  +E+PEI  GI+++  + RDPG R K+AV+S    IDP+G C
Sbjct: 189 GIEVILSRTHPKFIEELLALEIPEIEEGIIKIHKIVRDPGYRIKVAVYSEKEEIDPIGPC 248

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVP 313
           +G +G R+Q+++ EL  EKIDI+ +S D   F+ ++L PA +  V +LDED+ +  V+V 
Sbjct: 249 IGQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIKDSLTPAKIDHVYILDEDLHKALVVVS 308

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIA 373
            +QLSLAIG+ GQNVRLA++L  W ID+ T  + +  +     ++    M     ++++ 
Sbjct: 309 DDQLSLAIGKMGQNVRLANRLLDWAIDVKTSSQFAEMKANSEFKQETLEM----FNKVMQ 364

Query: 374 HLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG--RAREYLEGIDITLQKKIREL 431
            ++  E F D+ +++ +K+ + + I    +E   +I    +A E +        +K  E+
Sbjct: 365 DVVEEEQFEDISKISDLKLLDSSVISNLSKEGLDDINNFLQADEEVLFNLGVSYEKQEEI 424

Query: 432 G----------VSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
                       +E   S+  ++   ++   E G+   E++  C 
Sbjct: 425 NKILKEGMIIIANENDESMEKVEEDEELLCPECGVVINENMTSCP 469


>gi|254412331|ref|ZP_05026105.1| transcription termination factor NusA [Microcoleus chthonoplastes
           PCC 7420]
 gi|196180641|gb|EDX75631.1| transcription termination factor NusA [Microcoleus chthonoplastes
           PCC 7420]
          Length = 459

 Score =  355 bits (911), Expect = 1e-95,   Method: Composition-based stats.
 Identities = 125/389 (32%), Positives = 205/389 (52%), Gaps = 29/389 (7%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARS----------LYGTM--SD 48
           M   N   L ++ + ++   ++ +  V   + +++ K               +     ++
Sbjct: 1   MSIVNLPGLKKMIEEISQSHNLPKSAVQQALREALIKGYERYRRAQRMERPHFDDEYFNN 60

Query: 49  IRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DF 106
             V+++ E     +     +VEEV N    ISLK  ++      +G  V   + P   DF
Sbjct: 61  FEVDLDIEEEGFRILCTKTIVEEVGNTDHHISLKEVQEVASEAQLGDSVVLDVTPDQRDF 120

Query: 107 GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------ 160
           GR+A    KQV+ QK+R+ +R     EF++  G ++   V R E  +VI+ + +      
Sbjct: 121 GRMAAIQTKQVLSQKLRDQQRKLIQEEFEELEGTVLQARVLRFERQSVIMAISSGFGQPE 180

Query: 161 SDGVIRRDETISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEI 219
            +  + + E +  +  R G   K ++  VR    RGPQ+++SR     +V LF  EVPEI
Sbjct: 181 VEAELPKREQLPNDTYRIGSTFKVFLKKVREGPHRGPQLVVSRASAGLVVYLFANEVPEI 240

Query: 220 YNGIVQVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDE 272
            + +V++ AV+R+        G R K+AV + +  +DPVGAC+G RGSR+Q VV ELR E
Sbjct: 241 EDEVVRIVAVAREANPPSRHVGPRTKIAVDTLERDVDPVGACIGARGSRIQVVVNELRGE 300

Query: 273 KIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLA 331
           KID++ WSPD AT++ NAL PA V +V +++ +  +  ++V ++QLSLAIG+ GQNVRLA
Sbjct: 301 KIDVIRWSPDPATYIANALSPARVEEVLLVNPEGRQAHILVAEDQLSLAIGKEGQNVRLA 360

Query: 332 SQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           ++LTGW IDI    +     +    +  Q
Sbjct: 361 ARLTGWKIDIKDIAKYDYEAEHQKMQELQ 389


>gi|111115635|ref|YP_710253.1| transcription elongation factor NusA [Borrelia afzelii PKo]
 gi|216263366|ref|ZP_03435361.1| transcription elongation protein NusA [Borrelia afzelii ACA-1]
 gi|110890909|gb|ABH02077.1| N-utilization substance protein A [Borrelia afzelii PKo]
 gi|215980210|gb|EEC21031.1| transcription elongation protein NusA [Borrelia afzelii ACA-1]
          Length = 482

 Score =  355 bits (911), Expect = 1e-95,   Method: Composition-based stats.
 Identities = 134/465 (28%), Positives = 257/465 (55%), Gaps = 19/465 (4%)

Query: 15  AVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVEN 74
           ++A ++S+  + +   + +S+  A +  +G+  +  ++ + +TGD+ ++   ++VEEV++
Sbjct: 11  SIANDRSMSIESIRKTIKESVLIAYKKYFGSNENAFIKFDDDTGDLIVYAKKKIVEEVKD 70

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              +I  K     +  I  G      + P  F R+++Q AKQ     ++  E +    EF
Sbjct: 71  SLLEILEKDISREN--IVEGDYAYIEINPKVFDRLSIQVAKQRTKNDLQGIEDNEILSEF 128

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           K K+ +++ G V++   G++ V+LGN+DG+I +     RE     D+++  +Y+V++ + 
Sbjct: 129 KSKLNKVVIGYVQQNRNGDLYVNLGNTDGIIPKKYQSPREVYSLNDKIRVLVYNVKKGKN 188

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGAC 254
           G +V+LSRTHP+F+ +L  +E+PEI  GI+++  + RDPG R K+AV+S    IDPVG C
Sbjct: 189 GIEVILSRTHPKFIEELLALEIPEIEEGIIKIHKIVRDPGYRIKVAVYSEKEEIDPVGPC 248

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVP 313
           +G +G R+Q+++ EL  EKIDI+ +S D   F+ ++L P+ +  V +LDED+ +  V+V 
Sbjct: 249 IGQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIKDSLTPSKIEHVYILDEDLHKALVVVS 308

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIA 373
            +QLSLAIG+ GQNVRLA++L  W ID+ T  + +  +     ++    M     D+++ 
Sbjct: 309 DDQLSLAIGKMGQNVRLANRLLDWAIDVKTSSQFAEMKANSEFKQETLEM----FDKVMQ 364

Query: 374 HLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG--RAREYLEGIDITLQKKIREL 431
            ++  E F ++ +++ +K+ + + I    +E   +I    +A E L        +K  E+
Sbjct: 365 DVVEEEQFEEISKISDLKLLDSSVISNLSKEGLNDINNFLQADEGLLFNLGVSYEKQEEI 424

Query: 432 G----------VSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS 466
                       ++   S+  ++   ++   E G+   E++  C 
Sbjct: 425 NKILKEGMIIIANDNGESMEKVEEDEELLCPECGVVINENMTSCP 469


>gi|194476586|ref|YP_002048765.1| transcription elongation factor NusA [Paulinella chromatophora]
 gi|171191593|gb|ACB42555.1| transcription elongation factor NusA [Paulinella chromatophora]
          Length = 468

 Score =  354 bits (910), Expect = 2e-95,   Method: Composition-based stats.
 Identities = 131/406 (32%), Positives = 203/406 (50%), Gaps = 32/406 (7%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL------------YGTM--SDIRVEIN 54
           L  + + ++ EK +   VV S + +++ K                 +     ++  V ++
Sbjct: 9   LSHLIEDISEEKKLPPQVVESALREALLKGYERYRRTRYLGLIANPFEQDYFNNFDVALD 68

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPP--MDFGRVAVQ 112
            E     +     +VEEVE+   QI+L   R     +  G  V   + P   DFGR+A  
Sbjct: 69  LEEEGYRVLASKIIVEEVESEDHQIALSDVRQVTEDVHAGDTVVLDVTPAKEDFGRMAAA 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIR 166
             KQV+ +K+RE +R     EF D    +++  V R E  +VI+ + +       +  + 
Sbjct: 129 MTKQVLSRKLREQQRRMIQEEFADLEDPVLTARVIRFERQSVILAVSSGLSRPEVEAELP 188

Query: 167 RDETISRENLRPGDRVKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           R + +  +N R     K ++ ++    +RGPQ+ +SR +   +V LF  EVPEI  G V+
Sbjct: 189 RRDQLPNDNYRANATFKVFLKEISEVPRRGPQLFVSRVNAGLVVYLFENEVPEIQEGSVR 248

Query: 226 VKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           + AV+R+          R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++ 
Sbjct: 249 IVAVAREANPPSRTVSPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEKIDVIR 308

Query: 279 WSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           WSPD A ++ N++ PA V  + ++D       V+V  +QLSLAIGR GQNVRLA++LTGW
Sbjct: 309 WSPDPAQYISNSISPARVHNIRLIDPAGHHAHVLVTPDQLSLAIGREGQNVRLAARLTGW 368

Query: 338 TIDII-TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFA 382
            IDI  +E  DS       +       +   +       LVAE   
Sbjct: 369 KIDIKDSETYDSAYEDATISNLIFKRDKEGTIQSEFESRLVAEQIT 414


>gi|282898464|ref|ZP_06306454.1| NusA antitermination factor [Raphidiopsis brookii D9]
 gi|281196630|gb|EFA71536.1| NusA antitermination factor [Raphidiopsis brookii D9]
          Length = 424

 Score =  354 bits (910), Expect = 2e-95,   Method: Composition-based stats.
 Identities = 132/368 (35%), Positives = 201/368 (54%), Gaps = 29/368 (7%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAA----------RSLYGTM--SDIRVEINPE 56
           L  + + ++ E+++ R  V S + +++ K            R  +      +  VE++ +
Sbjct: 9   LKDLIEKISLERNLPRLAVQSSIREALLKGYERYRRAQNLERRQFDENYFDNFEVELDID 68

Query: 57  TGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQSA 114
                +     +VEEV N   QISL   +   P    G  V   + P   +FGR+A    
Sbjct: 69  GEGFRVLSTKIIVEEVTNSDHQISLDEVQQVAPEAQSGDSVVLDVTPDQGEFGRMAAMQT 128

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIRRD 168
           KQV+ QK+R+ +R     EF+D  G ++   V R E  +VI+ + +       +  + + 
Sbjct: 129 KQVLAQKLRDQQRQMVQEEFQDLEGTVLQARVLRFERQSVILAVSSSFGQPEVEAELPKR 188

Query: 169 ETISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVK 227
           E +  +  R     K Y+  V + Q RGPQ+L+SR     +V LF  EVPEI + +V++ 
Sbjct: 189 EQLPNDTYRSNATFKVYLKKVSQGQQRGPQLLVSRADAGLVVYLFANEVPEIEDEVVRIV 248

Query: 228 AVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
           AV+R+        G R K+AV + D  +DPVGAC+G RGSR+Q VV ELR EKID++ WS
Sbjct: 249 AVAREANPPSRYVGPRTKIAVDTLDRDVDPVGACIGARGSRIQVVVNELRGEKIDVIRWS 308

Query: 281 PDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
           PD AT++ NAL PA V +V L D +  +  V+V ++QLSLAIG+ GQNVRLA++LTGW I
Sbjct: 309 PDPATYIANALSPARVDEVRLMDPESRQTHVLVAEDQLSLAIGKEGQNVRLAARLTGWKI 368

Query: 340 DIITEEED 347
           DI  + + 
Sbjct: 369 DIKDQAKY 376


>gi|124002855|ref|ZP_01687707.1| transcription termination factor NusA [Microscilla marina ATCC
           23134]
 gi|123992083|gb|EAY31470.1| transcription termination factor NusA [Microscilla marina ATCC
           23134]
          Length = 423

 Score =  354 bits (910), Expect = 2e-95,   Method: Composition-based stats.
 Identities = 128/417 (30%), Positives = 228/417 (54%), Gaps = 12/417 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           ++ E++      A  K+ID+ ++  V+ +  +   R  Y +  +  V +N E GD+ ++R
Sbjct: 2   DKQEIISSFAEFARAKNIDKVLMEQVLEEVFRTMIRKKYTSDENFDVIVNIEDGDLEMYR 61

Query: 65  LLEVVEEVENYTCQ---ISLKVARDRDPSI---DIGGVVSDPLPPMDFGRVAVQSAKQVI 118
              +VE+      +   ++L  A+  DP I   DIG      +   DFGR A+ +A+Q +
Sbjct: 62  NRIIVEDDSPEAQELDKVTLSEAKKIDPEIAEEDIGDEFPQTVYLSDFGRRAILTARQTL 121

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLR 177
           IQK+++ E++  YL++KD   EI+   V ++     +++D   ++  + ++E I ++  R
Sbjct: 122 IQKIKDVEKENLYLKYKDMTDEIVVTEVHQILSRELLLLDSEGNELSLPKNELIPKDRYR 181

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            G+  K+ ++ V      P+++LSRT P F+ +LF  E+PE+Y+G++ +K V R PG RA
Sbjct: 182 KGEMSKAVVHRVDMINGNPKIILSRTSPIFLERLFESEIPEVYDGLITIKKVVRQPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV S D  IDPVGACVGM+GSR+ ++V EL +E ID++ ++ +   ++  AL PA +T
Sbjct: 242 KVAVESYDDRIDPVGACVGMKGSRIHSIVRELNNENIDVINYTDNLDLYITRALSPAKIT 301

Query: 298 KVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
            + + ED GR+ V +  +Q+SLAIG+ G N++LAS+L G  ID+     D    + + + 
Sbjct: 302 SIKM-EDDGRVSVFLKPDQVSLAIGKGGHNIKLASKLVGMEIDVYR---DMDEYEIEEDI 357

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
               F     ++  I   L   G    + +  V    + +    +EET   +    +
Sbjct: 358 ELSEF-DDEEIEPWIRDELRRLGMETAKSVLNVGRELLINRSELEEETVDYLLALLK 413


>gi|149197530|ref|ZP_01874581.1| transcription elongation factor NusA [Lentisphaera araneosa
           HTCC2155]
 gi|149139548|gb|EDM27950.1| transcription elongation factor NusA [Lentisphaera araneosa
           HTCC2155]
          Length = 413

 Score =  353 bits (908), Expect = 3e-95,   Method: Composition-based stats.
 Identities = 137/415 (33%), Positives = 235/415 (56%), Gaps = 5/415 (1%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL+ + + +  EK+ID+ ++  ++ D++        G  S+I+VEIN  TGD+++   
Sbjct: 2   NSELVAMVEYLEQEKAIDKAILFDLIEDAMASVYEKEVGEESEIKVEINRRTGDVTIIAD 61

Query: 66  LEVVEEVENYTCQISLKVAR-DRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           + + EEV +   +I L  A+ +    + IG  V   L      R+A Q+ +Q I+Q++R 
Sbjct: 62  VVIAEEVFDKRHEIDLASAQKEYGDEVAIGDTVKWTLQQDQMSRIAAQNTRQAIMQRLRT 121

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
            E++R   E+ D VGE+ISGTV+  E   +IVD G + G + + + + RE    GD + +
Sbjct: 122 FEKERVVEEYSDMVGELISGTVRHFEKNELIVDFGRAQGGLGKMDRVPRERFDNGDHITA 181

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + ++   + GP ++LSRT  + + KLF  EV EI NG+V++KAV+R  G R K+AV S 
Sbjct: 182 LLKEIDERKSGPSIVLSRTDAKLVTKLFEREVTEITNGLVEIKAVARKAGFRTKIAVAS- 240

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
             S+DPVGAC+G+RGSRV+ +  EL +EK+DI+ +S D   +V  A +P  + +V +D+D
Sbjct: 241 -DSLDPVGACIGIRGSRVKTICQELNNEKLDIIGYSEDEEEYVREAFKPNPIEEVEIDQD 299

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD-FNERTQFFM 363
              I+++V +E     +GR G+N+RL  +L  W I++     D+     +   E  Q  M
Sbjct: 300 GRLIKLLVSEESYKSIVGRDGENIRLTEELMDWDIEVEKYVYDTEITFDEHIQEAYQTMM 359

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           +  N+DE  A +++  G+  +E ++     ++    G + + A EI   A+  L+
Sbjct: 360 KLPNMDEGKARMMIDGGYLSLEGVSEASTDDLVEA-GIEADHATEIIEYAKSRLQ 413



 Score = 37.7 bits (87), Expect = 4.8,   Method: Composition-based stats.
 Identities = 33/153 (21%), Positives = 60/153 (39%), Gaps = 10/153 (6%)

Query: 321 IGRRGQNVRLASQ-LTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAE 379
           IG RG  V+   Q L    +DII   ED     ++  +        I+ D  +  LLV+E
Sbjct: 250 IGIRGSRVKTICQELNNEKLDIIGYSEDEEEYVREAFKPNPIEEVEIDQDGRLIKLLVSE 309

Query: 380 GFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCS 439
                + +       I   E   +           +Y+   +IT  + I+E    + +  
Sbjct: 310 --ESYKSIVGRDGENIRLTEELMDWDIE-----VEKYVYDTEITFDEHIQEAY--QTMMK 360

Query: 440 IPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG 472
           +P +D      + + G  ++E ++  S DDL+ 
Sbjct: 361 LPNMDEGKARMMIDGGYLSLEGVSEASTDDLVE 393


>gi|88802100|ref|ZP_01117628.1| transcription elongation factor NusA [Polaribacter irgensii 23-P]
 gi|88782758|gb|EAR13935.1| transcription elongation factor NusA [Polaribacter irgensii 23-P]
          Length = 418

 Score =  353 bits (908), Expect = 3e-95,   Method: Composition-based stats.
 Identities = 131/411 (31%), Positives = 223/411 (54%), Gaps = 20/411 (4%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEV--ENYTC 77
           KSIDR  ++S++ +  +   +  +G+  +  + INP+ GD+ ++R   VV +   E+   
Sbjct: 17  KSIDRVTLMSILEEVFRATLKRKFGSDDNFDIIINPDKGDLEIWRNRVVVADGFSEDDNE 76

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           +I L  AR  +P  +IG  VS+ +  +D GR A+ + +Q +I K+ E +    +  FK+ 
Sbjct: 77  EIELAEARLIEPDFEIGEDVSEEVKLIDLGRRAILALRQNLISKIYEHDSTNIFKHFKEL 136

Query: 138 VGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
            GE+ S  V  + +  +I+ D   ++ V+ + E I  +  R GD V+  I  V      P
Sbjct: 137 EGELYSAEVHHIRHNAIILLDDDGNEIVLPKSEQIRSDFFRKGDSVRGVIKTVELRGNKP 196

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVG 256
            ++LSRT P F+ KLF  E+PE+++G++ V+ V+R PG +AK+AV S D  IDPVGACVG
Sbjct: 197 AIILSRTAPAFLNKLFEQEIPEVFDGLITVERVARIPGEKAKVAVDSYDDRIDPVGACVG 256

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-------DEDVGRIE 309
           ++GSR+  +V EL +E ID++ ++ +   F+  AL PA VT + +       +   GR+ 
Sbjct: 257 VKGSRIHGIVRELGNENIDVINYTKNEQLFISRALSPAKVTSMEIEMYEEERNGKKGRVS 316

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE-EDSINRQKDFNERTQFFMQAINV 368
           V++  E++S AIGR G N+RLAS+LTG+ ID+  E  E+      +F +          +
Sbjct: 317 VLLRPEEVSKAIGRGGVNIRLASELTGYEIDVKREGLEEEDVELTEFGD---------EI 367

Query: 369 DEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           +  +       G      +    + E+      +EET +++Q   +E  E 
Sbjct: 368 EAWVIKEFKNIGLDTARSVLEASVEELVKRTDLEEETILDVQRILKEEFEQ 418


>gi|325294242|ref|YP_004280756.1| NusA antitermination factor [Desulfurobacterium thermolithotrophum
           DSM 11699]
 gi|325064690|gb|ADY72697.1| NusA antitermination factor [Desulfurobacterium thermolithotrophum
           DSM 11699]
          Length = 374

 Score =  353 bits (908), Expect = 3e-95,   Method: Composition-based stats.
 Identities = 149/358 (41%), Positives = 222/358 (62%), Gaps = 22/358 (6%)

Query: 13  ADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEV 72
            + +  EK I ++ V+  +   I  AAR   G    + V+I+ +  D  +F+   VVE+V
Sbjct: 8   VELLCREKGISKEDVVKAVKVGIINAARKA-GYKGHLVVKIDEDGKDFGIFQEKTVVEDV 66

Query: 73  ENYTCQISLKVARDR-DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
           ++   +ISL+ A++    S+ +G  V   +   + GR+A ++A QVI +K+ EAER   Y
Sbjct: 67  KDIDYEISLEEAKELFGDSVKLGDKVLVEIKTEELGRIAAKAAAQVIHEKISEAERKALY 126

Query: 132 LEFKDKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVR 190
             FK+KVG+IISGTVK ++  G+VI+DLG   G++ ++E IS+E  R GDRV++YIYDV 
Sbjct: 127 DYFKEKVGDIISGTVKEIKRNGDVILDLGRIVGILPKEEQISKEKYRIGDRVRAYIYDVV 186

Query: 191 REQRG--------------PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
            + +               P V+LSRTHP+F+ +L  +E+PE+ +G+V++KAV+R+PG R
Sbjct: 187 FDYKRYNRRKPSKIDDYPPPYVILSRTHPKFLKRLMEIEIPEVADGLVEIKAVAREPGIR 246

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           AK+AV S +  IDPVGAC+G++GSR+  +  EL  EKI+I+ W+ D A  V   L PA V
Sbjct: 247 AKVAVDSKEEYIDPVGACIGVKGSRILPISRELSGEKIEIIRWTDDVAELVARVLSPAKV 306

Query: 297 TKVVLDEDVG---RIEVIVPKEQLSLAIGRRGQNVRLASQLTGW--TIDIITEEEDSI 349
            +    ED     R+EV+VP +QLSLAIG+ G N RLAS+L G    IDII E +   
Sbjct: 307 LQSESYEDENGELRVEVVVPDDQLSLAIGKHGVNARLASKLVGQIVGIDIIKESDFRK 364


>gi|209527729|ref|ZP_03276225.1| NusA antitermination factor [Arthrospira maxima CS-328]
 gi|209491850|gb|EDZ92209.1| NusA antitermination factor [Arthrospira maxima CS-328]
          Length = 415

 Score =  353 bits (908), Expect = 3e-95,   Method: Composition-based stats.
 Identities = 126/380 (33%), Positives = 207/380 (54%), Gaps = 29/380 (7%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL-----------YGTMSDIRVEINPET 57
           L  + ++++ E+++ +  V   + +++ K                     +  VE++ E 
Sbjct: 9   LKDMIESISTERNLPKQAVEEALREALLKGYERYRRTVQIDTQFSEDYFDNFDVELDVEE 68

Query: 58  GDISLFRL-LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQSA 114
               +    L +VE+  N   QISLK  ++  P   +G  V+  + P   +FGR+A    
Sbjct: 69  EGFRVLAKNLTIVEQASNQDHQISLKDVQEVAPEAQLGDTVTLDVTPEQNEFGRMAAIQT 128

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS------DGVIRRD 168
           KQV+ QK+R+ +R     EF +  G ++   V R E  +VI+ + +       +  + + 
Sbjct: 129 KQVLAQKLRDKQRKMIQDEFAEHEGTVLQARVLRFERQSVIMAVSSVYGQPEVEAELPKR 188

Query: 169 ETISRENLRPGDRVKSYIYDVRRE-QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVK 227
           E + ++N R     + Y+  V +  QRGPQ+++SR+    +V LF  EVPEI + +V++ 
Sbjct: 189 EQLPKDNYRANATFRVYLKRVSQGSQRGPQLIVSRSDAGLVVYLFANEVPEIEDEVVRIV 248

Query: 228 AVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
           AV+R+        G R K+AV + D  +DPVGAC+G RGSR+Q VV ELR EKID++ WS
Sbjct: 249 AVAREANPPSNHVGPRTKIAVDTLDRDVDPVGACIGARGSRIQVVVNELRGEKIDVIRWS 308

Query: 281 PDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
           PD + ++ NAL PA V +V +++ +  R  V+V ++QLSLAIG+ GQNVRLA++LTGW I
Sbjct: 309 PDPSIYIANALSPARVDEVRLVNPEERRAHVLVAEDQLSLAIGKEGQNVRLAARLTGWKI 368

Query: 340 DIITEEEDSINRQKDFNERT 359
           DI    +     + +   R 
Sbjct: 369 DIKDAAKYDAAAEDEMEARR 388


>gi|187918654|ref|YP_001884220.1| transcription elongation factor NusA [Borrelia hermsii DAH]
 gi|119861502|gb|AAX17297.1| N utilization substance protein A [Borrelia hermsii DAH]
          Length = 496

 Score =  353 bits (907), Expect = 4e-95,   Method: Composition-based stats.
 Identities = 138/427 (32%), Positives = 244/427 (57%), Gaps = 15/427 (3%)

Query: 11  QIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE 70
           Q+   +A E+ +  D +   + +S+  A +  +GT  +  ++ + +TGD+ ++   ++VE
Sbjct: 21  QMISNIASERGMSIDAIRKTVRESVMIAYKKYFGTSENALIKFDEDTGDLVVYSKKKIVE 80

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           EV+N   +I     ++    +   G     + P  F R+++Q AKQ     ++  E +  
Sbjct: 81  EVQNDILEILQDDIQEF--EVVEDGYAYIEIDPKIFDRLSIQVAKQRTKSDLQGIEDNEL 138

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVR 190
           YLEFK K+ +I+ G V++   G++ V+LG++DGVI +    SRE     D+V+  +Y V+
Sbjct: 139 YLEFKHKLHKIVIGYVQQNRNGDLYVNLGSTDGVIPKKYQSSREVYGLNDKVRVLVYSVK 198

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDP 250
           + + G +V+LSRTHP+F+ +L  +E+PEI  GI+++  + RDPG R K+AV+S    IDP
Sbjct: 199 KGKNGIEVVLSRTHPKFIEELLTLEIPEIEEGIIKIHKIVRDPGYRTKVAVYSEKEEIDP 258

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIE 309
           VG C+G +G R+Q+++ EL  EKIDI+ +S D   F+ +AL PA +  V ++DED+ +  
Sbjct: 259 VGPCIGQKGVRIQSIIKELEGEKIDIIPYSRDIKEFIRDALTPAKIDNVYIVDEDLHKAL 318

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVD 369
           V+V  EQLSLAIG+ GQNVRLA++L  W ID+ T  + +  +     ++  F        
Sbjct: 319 VVVSDEQLSLAIGKMGQNVRLANRLLDWAIDVKTNSQFAEMKASGEFKQETF-------- 370

Query: 370 EIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIR 429
           E+   +L      +V+E    +I+ I+ ++  D +   ++     + ++      ++ + 
Sbjct: 371 EMFDKILQD----NVQEDEFEEINRISELKILDSDIVDKLIEAGLDDIDNFLDASEENLF 426

Query: 430 ELGVSEE 436
           ELG+S E
Sbjct: 427 ELGISYE 433


>gi|113477415|ref|YP_723476.1| transcription elongation factor NusA [Trichodesmium erythraeum
           IMS101]
 gi|110168463|gb|ABG53003.1| NusA antitermination factor [Trichodesmium erythraeum IMS101]
          Length = 426

 Score =  352 bits (905), Expect = 7e-95,   Method: Composition-based stats.
 Identities = 128/408 (31%), Positives = 208/408 (50%), Gaps = 34/408 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM------------SDIRVEINPE 56
           L ++   ++ E+++ +  V + + +++ K       T              +  +E++ E
Sbjct: 9   LKELIGNISKERNLPKQAVQTALREALLKGYERYRRTQRVDGVNFTDDYFENFEIELDIE 68

Query: 57  TGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQSA 114
                +     +VEEV N    I+L+   +      +   V   + P   +FGR+A    
Sbjct: 69  EEGYRVLATKTIVEEVTNPDHHIALQEVLEVASEAQLNDTVFLDVTPEKNEFGRMAAIQT 128

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIRRD 168
           KQV+ QK+R+ +R     EF+D  GE++   V R E  +VI+ + +       +  + + 
Sbjct: 129 KQVLAQKLRDQQRKMIQEEFQDLEGEVLQARVLRFEKQSVILAVSSGFGRLEVEAELPKK 188

Query: 169 ETISRENLRPGDRVKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVK 227
           E +  +N R     K Y+  V     RGPQ+L+SR     +V LF  EVPEI + +V++ 
Sbjct: 189 EQLPNDNYRANATFKVYLKRVCEGSTRGPQLLVSRADAGLVVYLFENEVPEIEDEVVRIV 248

Query: 228 AVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
           AV+R+        G R K+AV + +  +DPVGAC+G RGSR+Q VV ELR EKID++ WS
Sbjct: 249 AVAREANPPSRHVGPRTKIAVDTLERDVDPVGACIGARGSRIQVVVNELRGEKIDVIRWS 308

Query: 281 PDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
           PD + ++ N+L PA V +V ++D +  R  ++V ++QLSLAIG+ GQNVRLA++LTGW I
Sbjct: 309 PDPSIYIANSLSPARVDEVRLIDPEERRSHILVSEDQLSLAIGKEGQNVRLAARLTGWKI 368

Query: 340 DIITE-----EEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFA 382
           DI         E+      + + R     Q  N  E     ++   F 
Sbjct: 369 DIKDTNRYDHAEEDSKVAAEVSHRQALAEQEENKIEESELEVIENTFD 416


>gi|317057642|ref|YP_004106109.1| NusA antitermination factor [Ruminococcus albus 7]
 gi|315449911|gb|ADU23475.1| NusA antitermination factor [Ruminococcus albus 7]
          Length = 372

 Score =  351 bits (902), Expect = 1e-94,   Method: Composition-based stats.
 Identities = 140/367 (38%), Positives = 206/367 (56%), Gaps = 21/367 (5%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
                  +  E  ID+DV++  + + I KA +        IRV+I P TG + +  L EV
Sbjct: 5   FFNALADLVSENEIDKDVLIEKIREGIIKAIKKENPESEHIRVDIEPATGKLEMCILKEV 64

Query: 69  --VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
             V  V++   +I +  A+  DP I +G  V  P+ P   GRVA Q AKQ I   +++ E
Sbjct: 65  MKVMFVDDPANEIYIGEAQTYDPDIKVGDWVEIPVNPAKIGRVAAQFAKQSIKHDIKDFE 124

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEY--GNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           R++   ++KDK  EI++ TV++VE   GN ++ +  ++    R E I  E L+ GD++K 
Sbjct: 125 RNKLIEQYKDKEHEIVTATVQKVEPATGNAVITIDKNEHYFYRSEQIPGEVLKEGDKIKV 184

Query: 185 YIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           YI  +   E+R P V LSRTH   + +LF +EVPEI +G V++K++SR  G R+K+AV+S
Sbjct: 185 YIVSLGGGEKRQPVVKLSRTHKDLVKRLFELEVPEIADGTVEIKSISRTEGVRSKIAVWS 244

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
            D ++D VGAC+G + SR+ AVV EL+ EKID++ W  D A F+  AL PA V  V L E
Sbjct: 245 KDKNVDAVGACIGPKKSRISAVVQELKGEKIDVINWVEDEAEFIAKALAPAEVLSVELLE 304

Query: 304 DV----------------GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
                              +  VIVP  Q SLAIG +GQN +LA+ LTG+ IDI+ E   
Sbjct: 305 PEVRIEHKGEEKEFERVIKKCRVIVPNSQFSLAIGNKGQNAKLAAGLTGYKIDIVPENAP 364

Query: 348 SINRQKD 354
                ++
Sbjct: 365 ESAETEE 371


>gi|254431817|ref|ZP_05045520.1| transcription termination factor NusA [Cyanobium sp. PCC 7001]
 gi|197626270|gb|EDY38829.1| transcription termination factor NusA [Cyanobium sp. PCC 7001]
          Length = 476

 Score =  351 bits (902), Expect = 2e-94,   Method: Composition-based stats.
 Identities = 130/372 (34%), Positives = 198/372 (53%), Gaps = 31/372 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL------------YGTM--SDIRVEIN 54
           L  + + ++ EK +   VV + + +++ K                 +     S+  V+++
Sbjct: 9   LNNLIEDISEEKKLPPAVVEAALREALLKGYERYRRTLYLGISEDPFEEDYFSNFDVQLD 68

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQ 112
            +     +     +VEEVE+   QI+L   +       IG  V   + P   DFGR+A  
Sbjct: 69  LDEEGYRVLASKIIVEEVESEDHQIALAEVQQVADDAQIGDTVVLDVTPEKDDFGRMAAA 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIR 166
           + KQV+ QK+R+ +R     EF D    ++S  V R E  +VI+ + +       +  + 
Sbjct: 129 TTKQVLAQKLRDQQRRMIQEEFADLEDPVLSARVVRFERQSVIMAVSSGPGRPEVEAELP 188

Query: 167 RDETISRENLRPGDRVKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           R + +  +N R    +K ++ +V    +RGPQ+ +SR +   +V LF  EVPEI  G V+
Sbjct: 189 RRDQLPNDNYRANTTLKVFLKEVSEVPRRGPQLFVSRANAGLVVYLFENEVPEIQEGSVR 248

Query: 226 VKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           + AV+R+        G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++ 
Sbjct: 249 IVAVAREANPPSRSVGPRTKVAVDSVEREVDPVGACIGARGSRIQQVVNELRGEKIDVIR 308

Query: 279 WSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           WSPD   ++ N+L PA V  V ++D D     V+VP +QLSLAIGR GQNVRLA++LTGW
Sbjct: 309 WSPDPGQYIANSLSPARVEAVRLVDPDGHHAHVLVPPDQLSLAIGREGQNVRLAARLTGW 368

Query: 338 TIDIITEEEDSI 349
            IDI    E   
Sbjct: 369 KIDIKNAVEYDQ 380


>gi|284052678|ref|ZP_06382888.1| transcription elongation factor NusA [Arthrospira platensis str.
           Paraca]
 gi|291568133|dbj|BAI90405.1| transcription termination factor NusA [Arthrospira platensis
           NIES-39]
          Length = 415

 Score =  351 bits (901), Expect = 2e-94,   Method: Composition-based stats.
 Identities = 129/394 (32%), Positives = 212/394 (53%), Gaps = 33/394 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARS-----------LYGTMSDIRVEINPET 57
           L  + ++++ E+++ +  V   + +++ K                     +  VE++ E 
Sbjct: 9   LKDMIESISTERNLPKQAVEEALREALLKGYERYRRTVQIDTQFTEDYFDNFDVELDVEE 68

Query: 58  GDISLFRL-LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQSA 114
               +    L +VE+  N   QISLK  ++  P  ++G  V+  + P   +FGR+A    
Sbjct: 69  EGFRVLAKNLTIVEQASNQDHQISLKDVQEVAPEAELGDTVTLDVTPEQNEFGRMAAIQT 128

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS------DGVIRRD 168
           KQV+ QK+R+ +R     EF +  G ++   V R E  +VI+ + +       +  + + 
Sbjct: 129 KQVLAQKLRDKQRKMIQDEFAEHEGTVLQARVLRFERQSVIMAVSSVYGQPEVEAELPKR 188

Query: 169 ETISRENLRPGDRVKSYIYDVRRE-QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVK 227
           E + ++N R     + Y+  V +  QRGPQ+++SR+    +V LF  EVPEI + +V++ 
Sbjct: 189 EQLPKDNYRANATFRVYLKRVSQGSQRGPQLIVSRSDAGLVVYLFANEVPEIEDEVVRIV 248

Query: 228 AVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
           AV+R+        G R K+AV + D  +DPVGAC+G RGSR+Q VV ELR EKID++ WS
Sbjct: 249 AVAREANPPSNYVGPRTKIAVDTLDRDVDPVGACIGARGSRIQVVVNELRGEKIDVIRWS 308

Query: 281 PDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
           PD + ++ NAL PA V +V +++ +  R  V+V ++QLSLAIG+ GQNVRLA++LTGW I
Sbjct: 309 PDPSIYIANALSPARVDEVRLVNPEERRAHVLVAEDQLSLAIGKEGQNVRLAARLTGWKI 368

Query: 340 DIITEEEDSINRQKDFNERTQFFMQAI--NVDEI 371
           DI    +       +  +  Q F   +   V E 
Sbjct: 369 DIKDVAKYDAA--AEDEKVAQEFQGQLTGEVSEE 400


>gi|300866111|ref|ZP_07110839.1| transcription elongation factor NusA [Oscillatoria sp. PCC 6506]
 gi|300335907|emb|CBN55997.1| transcription elongation factor NusA [Oscillatoria sp. PCC 6506]
          Length = 427

 Score =  350 bits (900), Expect = 2e-94,   Method: Composition-based stats.
 Identities = 133/399 (33%), Positives = 202/399 (50%), Gaps = 33/399 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARS--------LYGTM--SDIRVEINPETG 58
           L  + D ++ E+++ +  V + + +++ K             +      +  VE++ E  
Sbjct: 9   LKDMVDVISKERNLPKHAVQAALREALVKGYERYRRTQRLDHFSEEYFDNFEVELDIEEE 68

Query: 59  DISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQSAKQ 116
              +     +VEEV N   QI+L   ++      +G  V   + P   DFGR+A    KQ
Sbjct: 69  GFRVLATKSIVEEVSNPDHQIALLEVQEVATEAQLGDTVILDVTPDQNDFGRMAAIQTKQ 128

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIRRDET 170
           V+ QK+R+ +R     EFKD    ++   V R E  + I+ + +       +  + + E 
Sbjct: 129 VLAQKLRDQQRKMIQEEFKDLEETVLQARVLRFERQSAILAVSSGFGQPEVEAELPKREQ 188

Query: 171 ISRENLRPGDRVKSYIYDVRRE-QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAV 229
           +  +N R     K Y+  V     RGPQ+++SR     +V LF  EVPEI +G+V++ AV
Sbjct: 189 LPNDNYRANATFKVYLKKVGEGATRGPQLVVSRADAGLVVYLFANEVPEIEDGVVRIVAV 248

Query: 230 SRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPD 282
           +R+        G R K+AV + D  +DPVGAC+G RGSR+Q VV ELR EKID++ WSPD
Sbjct: 249 AREANPPSRHVGPRTKIAVDTLDRDVDPVGACIGARGSRIQVVVNELRGEKIDVIRWSPD 308

Query: 283 SATFVINALRPAIVTKVVLDEDV-GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            AT++ NAL PA V +V L      R  ++V ++QLSLAIG+ GQNVRLA++LTGW IDI
Sbjct: 309 PATYIANALSPARVDEVRLVAPEGRRAHILVAEDQLSLAIGKEGQNVRLAARLTGWKIDI 368

Query: 342 I------TEEEDSINRQKDFNERTQFFMQAINVDEIIAH 374
                     EDS    +             + DE    
Sbjct: 369 KDIAKYDRAAEDSKLAAEASRLALAAEEYESDFDEDSEE 407


>gi|158334115|ref|YP_001515287.1| transcription elongation factor NusA [Acaryochloris marina
           MBIC11017]
 gi|158304356|gb|ABW25973.1| transcription termination factor NusA [Acaryochloris marina
           MBIC11017]
          Length = 452

 Score =  350 bits (898), Expect = 5e-94,   Method: Composition-based stats.
 Identities = 132/393 (33%), Positives = 213/393 (54%), Gaps = 34/393 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL-----------YGTMS--DIRVEINP 55
           L ++ + ++ E+++ +  V + + +++ K                +      +  VE++ 
Sbjct: 9   LAEMINVISRERNLPKPAVQAALQEALLKGYERYRRTLLLDSGAQFDEEYFYNFDVELDV 68

Query: 56  ETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQS 113
           E     +     +V+EVE+   QI+L   R+  P   +G  V   + P   +FGR+A   
Sbjct: 69  EEEGFLVLATKMIVDEVESTDHQIALTEVREVAPEAQLGDTVVLDVTPEQNEFGRMAAIQ 128

Query: 114 AKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS------DGVIRR 167
            KQV+ QK+R+ +R     EF+D    ++   V R E  +VI+ + ++      +  + +
Sbjct: 129 TKQVLSQKLRDQQRKLIQEEFQDLEKTVLQARVLRFERRSVIMAVTSAFGQPEVEAELPK 188

Query: 168 DETISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
            E +  +N R     K ++  V     RGPQ+++SR     +V LF  EVPEI + +V++
Sbjct: 189 REQLPNDNYRANATFKVFLKRVADGPHRGPQLVVSRADAGLVVYLFANEVPEIEDEVVRI 248

Query: 227 KAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVW 279
            AV+R+        G R K+AV + +  +DPVGAC+G RGSR+QAVV ELR EKID++ W
Sbjct: 249 VAVAREANPPSRQVGPRTKIAVDTLERDVDPVGACIGARGSRIQAVVNELRGEKIDVIRW 308

Query: 280 SPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
           SPD AT++ NAL PA V  V ++D +  +  V+V ++QLSLAIG+ GQNVRLA++LTGW 
Sbjct: 309 SPDPATYIANALSPARVDAVRLIDTEERQAHVLVAEDQLSLAIGKEGQNVRLAARLTGWK 368

Query: 339 IDIITEEEDSINRQKDFNERTQFFMQAINVDEI 371
           IDI     D  N  ++  +     +QA  VDE 
Sbjct: 369 IDIK----DIANYDQEAEDLQLSELQAQKVDED 397


>gi|172036756|ref|YP_001803257.1| transcription elongation factor NusA [Cyanothece sp. ATCC 51142]
 gi|171698210|gb|ACB51191.1| transcription termination factor, N utilization substance protein
           [Cyanothece sp. ATCC 51142]
          Length = 428

 Score =  348 bits (893), Expect = 2e-93,   Method: Composition-based stats.
 Identities = 131/363 (36%), Positives = 201/363 (55%), Gaps = 29/363 (7%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL-----------YGTM-SDIRVEINPE 56
           L Q+ + ++   ++ +  V   + +++ K                Y     +  VE++ E
Sbjct: 9   LTQMIEEISQRHNLPKTAVQEALREALLKGYERFRRSQNLDRQQFYDEYFDNFEVELDTE 68

Query: 57  TGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQSA 114
                +     +VEEVEN    ISL+  ++      +G  V   + P   DFGR+A    
Sbjct: 69  EEGFRILSTKRIVEEVENSDHHISLQEVQEVASEAQLGDEVVLDVTPEQKDFGRMAAIQT 128

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS------DGVIRRD 168
           KQV++QK+R+ +R     EF +  G +++  V R E  ++IV + ++      + ++ + 
Sbjct: 129 KQVLLQKLRDQQRKLIQEEFHELEGTVLNARVLRFERQDIIVAVQSAFGQPEVEAILPKR 188

Query: 169 ETISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVK 227
           E +  +N R     K  +  VR    RGPQ+L+SR     +V +F +EVPEI   IV++ 
Sbjct: 189 EQLPNDNYRANASFKVLLKKVREGSHRGPQLLVSRGAAGLVVDMFSVEVPEIEEDIVRIV 248

Query: 228 AVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
           AVSR+        G R K+AV + +  +DPVGAC+G RGSR+QAVV ELR EKID++ WS
Sbjct: 249 AVSREANPPSRYVGPRTKIAVDTLERDVDPVGACIGARGSRIQAVVNELRGEKIDVIRWS 308

Query: 281 PDSATFVINALRPAIVTKVV-LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
           PD AT++ NAL PA V +VV L+ +     V+V ++QLSLAIG+ GQNVRLA++LTGW I
Sbjct: 309 PDPATYIANALSPARVDEVVLLNAEERHALVLVAEDQLSLAIGKEGQNVRLAARLTGWKI 368

Query: 340 DII 342
           DI 
Sbjct: 369 DIK 371


>gi|318042328|ref|ZP_07974284.1| transcription elongation factor NusA [Synechococcus sp. CB0101]
          Length = 477

 Score =  347 bits (892), Expect = 2e-93,   Method: Composition-based stats.
 Identities = 128/377 (33%), Positives = 195/377 (51%), Gaps = 31/377 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL------------YGTM--SDIRVEIN 54
           L  + + ++ EK +   VV S + +++ K                 +     S+  V ++
Sbjct: 9   LSNLIEDISEEKKLPAQVVESALREALLKGYERYRRTLYLGISEDPFEEDYFSNFDVALD 68

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQ 112
            +     +     +VEEVE+   QI+L           IG  V   + P   DFGR+A  
Sbjct: 69  LDEEGYRVLASKIIVEEVESEDHQIALAEVMQVAEDAQIGDTVVLDVTPEKEDFGRMAAA 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIR 166
           + KQV+ QK+R+ +R     EF D    +++  V R E  +VI+ + +       +  + 
Sbjct: 129 TTKQVLAQKLRDHQRRMIQEEFADLEDPVLTARVIRFERQSVIMAVSSGLGRPEVEAELP 188

Query: 167 RDETISRENLRPGDRVKSYIYDVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           R + +  +N R     K ++ +V    R GPQ+ +SR +   +V LF  EVPEI  G V+
Sbjct: 189 RRDQLPNDNYRANATFKVFLKEVSEIPRRGPQLFVSRANAGLVVYLFENEVPEIQEGSVR 248

Query: 226 VKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           + AV+R+        G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++ 
Sbjct: 249 IVAVAREANPPSRSVGPRTKVAVDSVEREVDPVGACIGARGSRIQQVVNELRGEKIDVIR 308

Query: 279 WSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           WS D   ++ N+L PA V  V ++D +     V+VP +QLSLAIGR GQNVRLA++LTGW
Sbjct: 309 WSQDPGQYIANSLSPARVEAVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGW 368

Query: 338 TIDIITEEEDSINRQKD 354
            IDI    E     + +
Sbjct: 369 KIDIKNSTEYDQAAEDE 385


>gi|126657165|ref|ZP_01728331.1| transcription elongation factor NusA [Cyanothece sp. CCY0110]
 gi|126621436|gb|EAZ92147.1| transcription elongation factor NusA [Cyanothece sp. CCY0110]
          Length = 432

 Score =  347 bits (892), Expect = 2e-93,   Method: Composition-based stats.
 Identities = 132/363 (36%), Positives = 201/363 (55%), Gaps = 29/363 (7%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL-----------YGTM-SDIRVEINPE 56
           L Q+ + ++   ++ +  V   + +++ K                Y     +  VE++ E
Sbjct: 9   LTQMIEEISQRHNLPKTAVQEALREALLKGYERFRRSQNLDRQQFYDEYFDNFEVELDTE 68

Query: 57  TGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQSA 114
                +     +VEEVEN    ISL+  ++      +G  V   + P   DFGR+A    
Sbjct: 69  EEGFRILSTKRIVEEVENTDHHISLQEVQEVASEAQLGDEVVLDVTPEQKDFGRMAAIQT 128

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS------DGVIRRD 168
           KQV++QK+R+ +R     EF +  G +++  V R E  ++IV + ++      + ++ R 
Sbjct: 129 KQVLLQKLRDQQRKLIQEEFHELEGTVLNARVLRFERQDIIVAVQSTFGQPEVEAILPRR 188

Query: 169 ETISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVK 227
           E +  +N R     K  +  VR    RGPQ+L+SR     +V +F +EVPEI   IV++ 
Sbjct: 189 EQLPNDNYRANASFKVLLKKVREGSHRGPQLLVSRGAAGLVVDMFSVEVPEIEEDIVRIV 248

Query: 228 AVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
           AVSR+        G R K+AV + +  +DPVGAC+G RGSR+QAVV ELR EKID++ WS
Sbjct: 249 AVSREANPPSRYVGPRTKIAVDTLERDVDPVGACIGARGSRIQAVVNELRGEKIDVIRWS 308

Query: 281 PDSATFVINALRPAIVTKVV-LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
           PD AT++ NAL PA V +VV L+ +     V+V ++QLSLAIG+ GQNVRLA++LTGW I
Sbjct: 309 PDPATYIANALSPARVDEVVLLNAEERHALVLVAEDQLSLAIGKEGQNVRLAARLTGWKI 368

Query: 340 DII 342
           DI 
Sbjct: 369 DIK 371


>gi|67923759|ref|ZP_00517223.1| Transcription termination factor NusA [Crocosphaera watsonii WH
           8501]
 gi|67854386|gb|EAM49681.1| Transcription termination factor NusA [Crocosphaera watsonii WH
           8501]
          Length = 424

 Score =  346 bits (889), Expect = 5e-93,   Method: Composition-based stats.
 Identities = 133/363 (36%), Positives = 205/363 (56%), Gaps = 29/363 (7%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL-----------YGTM-SDIRVEINPE 56
           L Q+ + ++   ++ +  V   + +++ K                Y     +  VE++ +
Sbjct: 9   LSQMIEEISQRHNLPKSSVQEALKEALIKGYERFRRSQSLDRQQFYDEYFDNFEVELDTD 68

Query: 57  TGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPP--MDFGRVAVQSA 114
                +    ++VEEVEN    ISL+  ++  P  ++G  V   + P   DFGR+A    
Sbjct: 69  DEGFRILSTKKIVEEVENIDHHISLEEVQEVAPEAELGDEVVLDVTPNQKDFGRMAAIQT 128

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS------DGVIRRD 168
           KQV++QK+R+ +R     EF +  G +++  V R E  ++IV + ++      D ++ + 
Sbjct: 129 KQVLLQKLRDQQRKLIQEEFNELEGTVLNARVLRFERQDIIVAVQSAFGQPEVDAILPKR 188

Query: 169 ETISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVK 227
           E +  +N R     K  +  VR    RGPQ+L+SR     +V +F +EVPEI   IV++ 
Sbjct: 189 EQLPNDNYRANASFKVLLKKVREGSHRGPQLLVSRGAAGLVVDMFSVEVPEIEEDIVRIV 248

Query: 228 AVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
           AVSR+        G R K+AV + +  +DPVGAC+G RGSR+QAVV ELR EKID++ WS
Sbjct: 249 AVSREANPPSRYVGPRTKIAVDTLERDVDPVGACIGARGSRIQAVVNELRGEKIDVIRWS 308

Query: 281 PDSATFVINALRPAIVTKVV-LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
           PD AT++ NAL PA V +VV L+ +     V+VP++QLSLAIG+ GQNVRLA++LTGW I
Sbjct: 309 PDPATYIANALSPARVDEVVLLNAEERHALVLVPEDQLSLAIGKEGQNVRLAARLTGWKI 368

Query: 340 DII 342
           DI 
Sbjct: 369 DIK 371


>gi|78779969|ref|YP_398081.1| transcription elongation factor NusA [Prochlorococcus marinus str.
           MIT 9312]
 gi|78713468|gb|ABB50645.1| NusA antitermination factor [Prochlorococcus marinus str. MIT 9312]
          Length = 468

 Score =  346 bits (889), Expect = 5e-93,   Method: Composition-based stats.
 Identities = 124/390 (31%), Positives = 205/390 (52%), Gaps = 33/390 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL------------YGTM--SDIRVEIN 54
           L  + + ++ EK +  ++V   + +++ K                 +     ++  V ++
Sbjct: 9   LNNLIEDISEEKKLPPNIVELALREALLKGYEKYRKTFYIGVVEDPFDEEYFNNFDVGLD 68

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQ 112
            +     +     +VEEVE+   QISL   +       IG  V   + P   DFGR+A  
Sbjct: 69  LDEEGYRVLSSKIIVEEVESEDHQISLAEVKQVAEDAQIGDTVVLDVTPEKEDFGRMAAS 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIR 166
           + KQV+ QK+R+ +R     EF D    +++  V R E  +VI+ + +       +  + 
Sbjct: 129 TTKQVLAQKLRDQQRKMIQEEFADLEDPVLTARVIRFERQSVIMGVSSGIGRPEVEAELP 188

Query: 167 RDETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           + + +  +N R     K ++ +V    ++GPQ+ +SR +   +V LF  EVPEI  G V+
Sbjct: 189 KRDQLPNDNYRANATFKVFLKEVSEIARKGPQLFVSRANAGLVVYLFENEVPEIQEGTVK 248

Query: 226 VKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           + AVSR+        G R K+AV S +  +DPVGAC+G RG+R+Q VV ELR EKID++ 
Sbjct: 249 IVAVSREANPPSRGVGPRTKVAVDSVEQEVDPVGACIGARGARIQQVVNELRGEKIDVIK 308

Query: 279 WSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           WS D   +++N+L PA V +V ++D       V+VP +QLSLAIGR GQNVRLA++LTGW
Sbjct: 309 WSSDPIQYILNSLSPAKVDQVRLVDPAGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGW 368

Query: 338 TIDIITEEEDSINRQKDFNERTQFFMQAIN 367
            ID+    E   +++ +    ++  +Q  +
Sbjct: 369 KIDVKNSHEY--DQKAEDAAVSELIIQRED 396


>gi|148243067|ref|YP_001228224.1| transcription elongation factor NusA [Synechococcus sp. RCC307]
 gi|147851377|emb|CAK28871.1| Transcription elongation factor NusA [Synechococcus sp. RCC307]
          Length = 471

 Score =  346 bits (888), Expect = 6e-93,   Method: Composition-based stats.
 Identities = 129/377 (34%), Positives = 199/377 (52%), Gaps = 31/377 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL------------YGTM--SDIRVEIN 54
           L  + + ++ EK +  +VV + + +++ K                 +     S+  V ++
Sbjct: 9   LSALIEDISEEKKLPANVVEAALREALLKGYERYRRTLYIGISEDPFDEEYFSNFDVGLD 68

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQ 112
            +     +     +VEEVE+   QI L   +       +G  V   + P   DFGR+A  
Sbjct: 69  LDEEGYRVLASKIIVEEVESEDHQIGLADVQQVTDDAQLGDTVVLDVTPEKDDFGRMAAA 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIR 166
           + KQV+ QK+RE +R     EF D    +++  V R E  +VI+ + +       +  + 
Sbjct: 129 TTKQVLAQKLREHQRRMIQEEFADLEDPVLTARVIRFERQSVIMAVSSGLGRPEVEAELP 188

Query: 167 RDETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           R + +  +N R     K ++ +V    +RGPQ+ +SR +   +V LF  EVPEI  G V+
Sbjct: 189 RRDQLPNDNYRANATFKVFLKEVSEIARRGPQLFISRANAGLVVYLFENEVPEIQEGSVR 248

Query: 226 VKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           + AV+R+        G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++ 
Sbjct: 249 IVAVAREANPPSRAVGPRTKVAVDSVEREVDPVGACIGARGSRIQQVVNELRGEKIDVIR 308

Query: 279 WSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           WSPD   ++ N+L PA V  V ++D +     V+VP +QLSLAIGR GQNVRLA++LTGW
Sbjct: 309 WSPDPGQYLANSLSPARVDMVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGW 368

Query: 338 TIDIITEEEDSINRQKD 354
            IDI   EE     + +
Sbjct: 369 KIDIKNSEEYDQASEDE 385


>gi|87125354|ref|ZP_01081200.1| NusA antitermination factor [Synechococcus sp. RS9917]
 gi|86167123|gb|EAQ68384.1| NusA antitermination factor [Synechococcus sp. RS9917]
          Length = 463

 Score =  345 bits (887), Expect = 9e-93,   Method: Composition-based stats.
 Identities = 128/373 (34%), Positives = 194/373 (52%), Gaps = 31/373 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL------------YGTM--SDIRVEIN 54
           L  + D ++ EK +   VV + + +++ K                 +     S+  V ++
Sbjct: 9   LSNLIDDISEEKKLPPQVVEAALREALLKGYERYRRTLYLGISDDPFDEEYFSNFDVALD 68

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQ 112
            E     +     +VEEVE+   QI+L           +G  V   + P   DFGR+A  
Sbjct: 69  LEEEGYRVLASKIIVEEVESDDHQIALAEVMQVADDAQVGDTVVLDVTPEKEDFGRMAAA 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIR 166
           + KQV+ QK+R+ +R     EF D    +++  V R E  +VI+ + +       +  + 
Sbjct: 129 TTKQVLAQKLRDQQRRMIQEEFADLEDPVLTARVIRFERQSVIMAVSSGLGRPEVEAELP 188

Query: 167 RDETISRENLRPGDRVKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           R + +  +N R     K ++ +V    +RGPQ+ +SR +   +V LF  EVPEI  G V+
Sbjct: 189 RRDQLPNDNYRANATFKVFLKEVSEVPRRGPQLFVSRANAGLVVYLFENEVPEIQEGSVR 248

Query: 226 VKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           + AV+R+        G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++ 
Sbjct: 249 IVAVAREANPPSRSVGPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEKIDVIR 308

Query: 279 WSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           WS D   ++ N+L PA V  V ++D +     V+VP +QLSLAIGR GQNVRLA++LTGW
Sbjct: 309 WSADPGQYIANSLSPARVDVVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGW 368

Query: 338 TIDIITEEEDSIN 350
            IDI    E    
Sbjct: 369 KIDIKNAAEYDQT 381


>gi|123969228|ref|YP_001010086.1| transcription elongation factor NusA [Prochlorococcus marinus str.
           AS9601]
 gi|123199338|gb|ABM70979.1| N utilization substance protein A [Prochlorococcus marinus str.
           AS9601]
          Length = 467

 Score =  345 bits (885), Expect = 1e-92,   Method: Composition-based stats.
 Identities = 124/390 (31%), Positives = 205/390 (52%), Gaps = 33/390 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL------------YGTM--SDIRVEIN 54
           L  + + ++ EK +  ++V   + +++ K                 +     S+  V ++
Sbjct: 9   LNNLIEDISEEKKLPPNIVELALREALLKGYEKYRKTFYIGVNQDPFDEEYFSNFDVGLD 68

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQ 112
            +     +     +VEEVE+   QISL   +       IG  V   + P   DFGR+A  
Sbjct: 69  LDEEGYRILSSKIIVEEVESEDHQISLVEVKQVADDAQIGDTVVLDVTPEKEDFGRMAAS 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIR 166
           + KQV+ QK+R+ +R     EF D    +++  V R E  +VI+ + +       +  + 
Sbjct: 129 TTKQVLAQKLRDQQRKMIQEEFADLEDPVLTARVIRFERQSVIMGVSSGIGRPEVEAELP 188

Query: 167 RDETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           + + +  +N R     K ++ +V    ++GPQ+ +SR +   +V LF  EVPEI  G V+
Sbjct: 189 KRDQLPNDNYRANATFKVFLKEVSEIARKGPQLFVSRANAGLVVYLFENEVPEIQEGTVK 248

Query: 226 VKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           + AVSR+        G R K+AV S +  +DPVGAC+G RG+R+Q VV ELR EKID++ 
Sbjct: 249 IVAVSREANPPSRAVGPRTKVAVDSVEEEVDPVGACIGARGARIQQVVNELRGEKIDVIK 308

Query: 279 WSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           WS +   +++N+L PA V +V ++D       V+VP +QLSLAIGR GQNVRLA++LTGW
Sbjct: 309 WSSNPIQYILNSLSPAKVDQVRLVDPAGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGW 368

Query: 338 TIDIITEEEDSINRQKDFNERTQFFMQAIN 367
            ID+    E   +++ +    ++  +Q  +
Sbjct: 369 KIDVKNSHEY--DQEAEDAAVSELIIQRED 396


>gi|257126084|ref|YP_003164198.1| transcription elongation factor NusA [Leptotrichia buccalis
           C-1013-b]
 gi|257050023|gb|ACV39207.1| NusA antitermination factor [Leptotrichia buccalis C-1013-b]
          Length = 414

 Score =  345 bits (885), Expect = 1e-92,   Method: Composition-based stats.
 Identities = 127/371 (34%), Positives = 208/371 (56%), Gaps = 9/371 (2%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
            L+  D +  EK I ++ +L  +  ++  A +  YG   +++V IN  +GD+ +F    +
Sbjct: 9   FLEALDELEKEKGILKEELLETIETALLAAYKKNYGEKDNVKVTINRNSGDVKVFSQRLI 68

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           VE VEN   +ISL+ A        +G ++   +    F R A+Q+AKQ+++QKVRE E+ 
Sbjct: 69  VENVENPDEEISLEDAISVKKRAKLGDILDLEINAESFKRNAIQNAKQIVVQKVRECEKR 128

Query: 129 RQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
             + +FK+    I+S  V++  E GN+ +D+   + ++   E    +N    +RVK Y+ 
Sbjct: 129 NIFNKFKEIENSIVSANVRKTDEKGNLYIDINGLEAIVPFKELSPTDNFVQNERVKIYVG 188

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V    +  +  +SR   + +  L  +EVPEI   I+++K ++R+ GSRAK+AV+S D +
Sbjct: 189 NVEESTKFTKTFVSRKSEELLRGLLELEVPEIEEKIIEIKNIAREAGSRAKVAVYSEDEN 248

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL----DE 303
           +D  GAC+G  G R+Q ++ ELR EKIDIV+W+ D   FV NAL PA V  V +    +E
Sbjct: 249 LDVKGACIGRNGMRIQNIIDELRGEKIDIVLWNEDIREFVKNALNPAEVLLVEIVEGEEE 308

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE----EEDSINRQKDFNERT 359
           +    +V+V + QLSLAIG++GQN RLA++L G  IDI TE    E++     ++     
Sbjct: 309 NTKIAKVLVAENQLSLAIGKKGQNSRLAARLCGVKIDIHTEPFEIEQNDEYELEEETAFH 368

Query: 360 QFFMQAINVDE 370
                 +   E
Sbjct: 369 NSVESDLEESE 379


>gi|308233945|ref|ZP_07664682.1| transcription termination factor NusA [Atopobium vaginae DSM 15829]
 gi|328943957|ref|ZP_08241422.1| transcription termination factor NusA [Atopobium vaginae DSM 15829]
 gi|327491926|gb|EGF23700.1| transcription termination factor NusA [Atopobium vaginae DSM 15829]
          Length = 414

 Score =  344 bits (884), Expect = 2e-92,   Method: Composition-based stats.
 Identities = 118/359 (32%), Positives = 197/359 (54%), Gaps = 38/359 (10%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +++    +  +  +D   ++  +  ++ K    +       RV I+  TG + ++ L+  
Sbjct: 5   MVEALIDICQKTHLDELYIVDRLEQTLAKNYADILHLEHGARVTIDRVTGKVYVYELI-- 62

Query: 69  VEEVENYTCQISLKVARDRDPS-IDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
                    +         DP   +        + P +  R+ VQ  KQ + + +R A R
Sbjct: 63  ------PKGE--------PDPETGEYQDFDERDVTPKEASRLVVQHTKQELAEIIRSAGR 108

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIR----------RDETISRENL 176
            + + EF  +VG++I+GTV +      I+ +    +  +           R+E  + E+ 
Sbjct: 109 QQIFEEFSKRVGDLITGTVLQTTSDFAIIKIRDGVEAELPYFDPHRYPDERNERPANEHY 168

Query: 177 RPGDRVKSYIYDVRR----------EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
               R+++ I +VR           E++ P +++SRTHP  + +LF +EVPEI++G+V +
Sbjct: 169 AHNQRLRALIVEVRDPHANQQQIRGERQRPSIVVSRTHPDLISRLFELEVPEIFDGVVSI 228

Query: 227 KAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATF 286
            +V+R+PG R+K+AV S+D  +DPVGACVG +GSRV+ VV+ELR E++D+V+WS D A  
Sbjct: 229 ASVAREPGIRSKIAVSSTDPHLDPVGACVGPKGSRVRTVVSELRGERVDVVMWSDDPAIN 288

Query: 287 VINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           V NAL PA V++V++D++     VIVP +QLSLAIG+ GQN RLA++LTG  IDI  E 
Sbjct: 289 VANALSPAKVSRVLVDKENNYATVIVPDDQLSLAIGKEGQNARLAARLTGMHIDIKNET 347


>gi|22299480|ref|NP_682727.1| transcription elongation factor NusA [Thermosynechococcus elongatus
           BP-1]
 gi|22295663|dbj|BAC09489.1| transcription termination-antitermination factor
           [Thermosynechococcus elongatus BP-1]
          Length = 395

 Score =  344 bits (884), Expect = 2e-92,   Method: Composition-based stats.
 Identities = 118/369 (31%), Positives = 198/369 (53%), Gaps = 29/369 (7%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL------------YGTMSDIRVEINPE 56
           L  + + ++ E+++ +  V   + +++ K                     ++  VE++ E
Sbjct: 9   LRAMINEISQERNLPKHAVHQALKEALLKGYERYRRSLRSDHSHFEEDHFANFEVELDTE 68

Query: 57  TGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQSA 114
                +     + E VEN   +I+L    +      +G  V   + P   +FGR+A    
Sbjct: 69  QEGFRILATKTIKETVENPDREIALADVIEVVQDARVGDTVLLDVTPDHQEFGRMAAMQT 128

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIRRD 168
           KQV+ QK+R+ +R     EFK+  G ++ G V R E  +VI+ + +       +  + + 
Sbjct: 129 KQVLAQKLRDQQRRLIQEEFKELEGTVLLGRVLRFERQSVIMAVRSDASQPEVEAELPKW 188

Query: 169 ETISRENLRPGDRVKSYIYDVRRE-QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVK 227
           E +  +N R     K Y+  V+   QRGPQ+ +SR     +V LF  EVPEI + +V++ 
Sbjct: 189 EQLPNDNYRANSTFKVYLKRVKEGPQRGPQLEVSRADAGLVVYLFANEVPEIEDEVVRIV 248

Query: 228 AVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
           A++R+        G R K+AV + +  +DPVGAC+G RGSR+QAVV ELR EKID++ WS
Sbjct: 249 AIAREANPPNHKVGPRTKIAVDTLERDVDPVGACIGARGSRIQAVVNELRGEKIDVIRWS 308

Query: 281 PDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
           PD AT++ N+L PA V +V +++ +     V+V  +++S AIG+ GQNVRLA++LTGW I
Sbjct: 309 PDPATYIANSLSPAPVEEVRLINPEARIAHVLVAPDKVSQAIGKEGQNVRLATRLTGWKI 368

Query: 340 DIITEEEDS 348
           ++    + +
Sbjct: 369 EVRDSSQYN 377


>gi|126697021|ref|YP_001091907.1| transcription elongation factor NusA [Prochlorococcus marinus str.
           MIT 9301]
 gi|126544064|gb|ABO18306.1| N utilization substance protein A [Prochlorococcus marinus str. MIT
           9301]
          Length = 467

 Score =  344 bits (884), Expect = 2e-92,   Method: Composition-based stats.
 Identities = 125/390 (32%), Positives = 207/390 (53%), Gaps = 33/390 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL------------YGTM--SDIRVEIN 54
           L  + + ++ EK +  ++V + + +++ K                 +     S+  V ++
Sbjct: 9   LNNLIEDISEEKKLPPNIVEAALREALLKGYEKYRRTFYIGVNEDPFDEEYFSNFDVGLD 68

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQ 112
            +     +     +VEEVE+   QISL   +       IG  V   + P   DFGR+A  
Sbjct: 69  LDEEGYRILSSKIIVEEVESEDHQISLIEVKQVADDAQIGDTVVLDVTPEKEDFGRMAAS 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIR 166
           + KQV+ QK+R+ +R     EF D    +++  V R E  +VI+ + +       +  + 
Sbjct: 129 TTKQVLAQKLRDQQRKMIQEEFADLEDPVLTARVIRFERQSVIMGVSSGIGRPEVEAELP 188

Query: 167 RDETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           + + +  +N R     K ++ +V    ++GPQ+ +SR +   +V LF  EVPEI  G V+
Sbjct: 189 KRDQLPNDNYRANATFKVFLKEVSEIARKGPQLFVSRANAGLVVYLFENEVPEIQEGTVK 248

Query: 226 VKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           + AVSR+        G R K+AV S ++ +DPVGAC+G RG+R+Q VV ELR EKID++ 
Sbjct: 249 IVAVSREANPPSRAVGPRTKVAVDSVENEVDPVGACIGARGARIQQVVNELRGEKIDVIK 308

Query: 279 WSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           WS D   +++N+L PA V  V ++D +     V+VP +QLSLAIGR GQNVRLA++LTGW
Sbjct: 309 WSSDPIQYILNSLSPAKVDLVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGW 368

Query: 338 TIDIITEEEDSINRQKDFNERTQFFMQAIN 367
            ID+    E   +++ +    ++  +Q  +
Sbjct: 369 KIDVKNSHEY--DQEAEDAAVSELIIQRED 396


>gi|110005298|emb|CAK99622.1| putative transcription termination factor protein [Spiroplasma
           citri]
          Length = 471

 Score =  344 bits (884), Expect = 2e-92,   Method: Composition-based stats.
 Identities = 118/350 (33%), Positives = 208/350 (59%), Gaps = 1/350 (0%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           +  +LL   + +  EK I RD++L  + + I+KA    +   + + V+I+ +TG I + +
Sbjct: 3   DGTKLLTTINEIVSEKQISRDLILDSIKEGIKKAYEKHFDPEATVFVDIDQKTGQIKVEK 62

Query: 65  LLEVVEEVENYTCQISLKVARD-RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
            L VV++VE+   +I L  A++     I I   V +P+   +F R+A+    Q+I Q+++
Sbjct: 63  ELTVVKKVEDDLLEIGLNEAKEKYGEQITIDDKVYEPVNSEEFSRLAIFQVGQIIKQQIK 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           EAE+D  + E+  + G +++G V   E   ++V++  +   I R   I  ++   G  + 
Sbjct: 123 EAEKDSIFDEYIIQKGHLMTGVVIAAEEKYLLVEVERTFAYIPRKNLIFSDHFEVGQPIT 182

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
               DV + +   Q+  SRT   F+ +L   E+PEI+  +++VKA++RDPG R+K+AV+S
Sbjct: 183 FLAEDVIKSKNAGQITGSRTSNDFLYRLLEREIPEIFEQVIEVKAIARDPGRRSKIAVYS 242

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           ++ +IDP+GACVG +GSR+  V  EL+DEKIDI +++ +S  F+IN+L P  V  +  ++
Sbjct: 243 TNENIDPIGACVGSKGSRINKVTAELQDEKIDICIYNDNSQQFIINSLSPVKVISITTND 302

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
           +    +VIVP EQLSLAIG+ G   +L ++LT W ++I++  E    + +
Sbjct: 303 EGKEADVIVPDEQLSLAIGKGGSAAKLVAKLTKWKLNIMSYSEALTKQVE 352


>gi|76496362|gb|ABA43692.1| NusA [Spiroplasma kunkelii CR2-3x]
          Length = 483

 Score =  344 bits (883), Expect = 2e-92,   Method: Composition-based stats.
 Identities = 136/447 (30%), Positives = 238/447 (53%), Gaps = 18/447 (4%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           +  +LL   D +  EK I RD++L  + + I+KA    +   + I VEI+ +TG I + +
Sbjct: 15  DGAKLLSTIDEIVSEKQISRDLILDSIKEGIRKAYEKHFDPEATIIVEIHQKTGQIKVEK 74

Query: 65  LLEVVEEVENYTCQISLKVARD-RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
            L VV++VE+   +I L  A++     I I   V + +   +F R+A+    Q+I Q+++
Sbjct: 75  ELTVVKKVEDDLLEIGLNEAKEKYGEQITIDDKVYEQVNSEEFSRLAIFQVGQIIKQQIK 134

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           EAE+D  + E+  + G +++G V   E   ++V++  +   I R   I  E+   G  + 
Sbjct: 135 EAEKDSIFDEYIIQKGHLMTGVVIAAEEKYLLVEVERTFAYIPRKNLIFSEHFEVGQPIT 194

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
               DV + +   Q++ SRT   F+  L   E+PEI+  +++VKA++RDPG R+K+AV+S
Sbjct: 195 FLAEDVVKSKNAGQIIGSRTSNDFLYSLLEREIPEIFEQVIEVKAIARDPGRRSKIAVYS 254

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           ++ +IDP+GACVG +GSR+  V  EL+DEKIDI +++ +S  F+IN+L P  V  +  ++
Sbjct: 255 TNENIDPIGACVGSKGSRINKVTAELQDEKIDICIYNDNSQQFIINSLSPVKVISITTND 314

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF--NERTQF 361
           +    +V+VP EQLSLAIG+ G + +L ++LT W ++I++  E    + +       T  
Sbjct: 315 EEKEADVVVPDEQLSLAIGKGGSSAKLVAKLTKWKLNIMSYSEALTKQVEILWNGNLTTD 374

Query: 362 FMQAINV---DEIIAHLLVAEGFADVEELACVKISEIASIEG--------FDEE--TAVE 408
            + A+ V   D+I    +V      V+  A + + E   IE          DEE     +
Sbjct: 375 ELSALKVKLKDKIKPKAIVET--NTVDITAGLPVEEFEIIEEQMAEETMILDEENYHVDD 432

Query: 409 IQGRAREYLEGIDITLQKKIRELGVSE 435
           +     + LE     ++  +      +
Sbjct: 433 LTESTPKVLENEIQEIEDNLSYFESEQ 459


>gi|33241096|ref|NP_876038.1| transcription elongation factor NusA [Prochlorococcus marinus
           subsp. marinus str. CCMP1375]
 gi|33238625|gb|AAQ00691.1| Transcription elongation factor NusA [Prochlorococcus marinus
           subsp. marinus str. CCMP1375]
          Length = 472

 Score =  344 bits (883), Expect = 2e-92,   Method: Composition-based stats.
 Identities = 124/372 (33%), Positives = 194/372 (52%), Gaps = 31/372 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL------------YGTM--SDIRVEIN 54
           L  + + ++ EK +   VV + + +++ K                 +     S+  + ++
Sbjct: 9   LNNLIEDISEEKKLPAQVVETALREALLKGYERYRKTLYLGINENPFEEEYFSNFDIGLD 68

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQ 112
            +     +     +VEEV++   QI+L            G  V   + P   +FGR+A  
Sbjct: 69  LDQEGYRVLASKIIVEEVDSEDHQIALAEVMQVAEDAQAGDTVVLDVTPEKEEFGRMAAS 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIR 166
           + KQV+ QK+R+ +R     EF D    +++  V R E  +VI+ + +       +  + 
Sbjct: 129 TTKQVLSQKLRDQQRRMIQEEFADLEDPVLTARVIRFERQSVIMAVSSGLGRPEVEAELP 188

Query: 167 RDETISRENLRPGDRVKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           R + +  +N R     K ++ +V    +RGPQ+ +SR +   +V LF  EVPEI  G V+
Sbjct: 189 RRDQLPNDNYRANATFKVFLKEVSEVPRRGPQLFVSRANAGLVVYLFENEVPEIQEGSVR 248

Query: 226 VKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           + AV+R+        G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++ 
Sbjct: 249 IVAVAREANPPSRSVGPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEKIDVIR 308

Query: 279 WSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           WS D   ++ N+L PA V  V ++D D     V+VP +QLSLAIGR GQNVRLA++LTGW
Sbjct: 309 WSTDPIQYICNSLSPARVENVRLVDPDGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGW 368

Query: 338 TIDIITEEEDSI 349
            IDI   +E   
Sbjct: 369 KIDIKNSQEYDQ 380


>gi|88807314|ref|ZP_01122826.1| transcription elongation factor NusA [Synechococcus sp. WH 7805]
 gi|88788528|gb|EAR19683.1| transcription elongation factor NusA [Synechococcus sp. WH 7805]
          Length = 470

 Score =  344 bits (883), Expect = 3e-92,   Method: Composition-based stats.
 Identities = 135/459 (29%), Positives = 218/459 (47%), Gaps = 36/459 (7%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL------------YGTM--SDIRVEIN 54
           L  + + ++ EK +   VV + + +++ K                 +     S+  V ++
Sbjct: 9   LSNLIEDISEEKKLPPQVVEAALREALLKGYERYRRTLYLGLGEDPFDEEYFSNFDVALD 68

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQ 112
            +     +     +V+EVE+   QI+L            G  V   + P   DFGR+A  
Sbjct: 69  LDEEGYRVLASKIIVDEVESEDHQIALAEVMQVADDAQAGDTVVLDVTPEKEDFGRMAAA 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIR 166
           + KQV+ QK+R+ +R     EF D    +++  V R E  +VI+ + +       +  + 
Sbjct: 129 TTKQVLAQKLRDQQRRMIQEEFADLEDPVLTARVIRFERQSVIMAVSSGLGRPEVEAELP 188

Query: 167 RDETISRENLRPGDRVKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           R + +  +N R     K ++ +V    +RGPQ+ +SR +   +V LF  EVPEI  G V+
Sbjct: 189 RRDQLPNDNYRANATFKVFLKEVSEVPRRGPQLFVSRANAGLVVYLFENEVPEIQEGSVR 248

Query: 226 VKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           + AV+R+        G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++ 
Sbjct: 249 IVAVAREANPPSRSVGPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEKIDVIR 308

Query: 279 WSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           WS D   ++ N+L PA V  V ++D       V+VP +QLSLAIGR GQNVRLA++LTGW
Sbjct: 309 WSADPGQYIANSLSPARVDVVRLVDPVGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGW 368

Query: 338 TIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIAS 397
            IDI    E   ++  +    ++   Q     E        E  A  +     + + +  
Sbjct: 369 KIDIKNASEY--DQASEDAVVSELISQREQ--EEALQREAEERIAAEQAARAEEDARLRE 424

Query: 398 IEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE 436
           +    E+   E    A + +E  +    +       S+E
Sbjct: 425 LYPLPEDE-EEYGDEAVDDVEMPEGATDEASEPTPESDE 462


>gi|116071183|ref|ZP_01468452.1| transcription elongation factor NusA [Synechococcus sp. BL107]
 gi|116066588|gb|EAU72345.1| transcription elongation factor NusA [Synechococcus sp. BL107]
          Length = 492

 Score =  343 bits (882), Expect = 3e-92,   Method: Composition-based stats.
 Identities = 137/432 (31%), Positives = 213/432 (49%), Gaps = 34/432 (7%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL------------YGTM--SDIRVEIN 54
           L  + D ++ EK +   VV + + +++ K                 +     S+  V ++
Sbjct: 9   LTNLIDDISEEKKLAPQVVEAALREALLKGYERYRRTLYIGISEDPFDEDYFSNFDVGLD 68

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQ 112
            E     +     +V+EVE+   QI+L            G  V   + P   DFGR+A  
Sbjct: 69  LEEEGYRVLASKIIVDEVESEDHQIALAEVMQVAEDAQAGDTVVLDVTPEKEDFGRMAAA 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIR 166
           + KQV+ QK+R+ +R     EF D    +++  V R E  ++I+ + +       +  + 
Sbjct: 129 TTKQVLAQKLRDQQRRMIQEEFADLEDPVLTARVIRFERQSIIMAVSSGLGRPEVEAELP 188

Query: 167 RDETISRENLRPGDRVKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           R + +  +N R     K ++ +V    +RGPQ+ +SR++   +V LF  EVPEI  G V+
Sbjct: 189 RRDQLPNDNYRANATFKVFLKEVSEVPRRGPQLFVSRSNAGLVVYLFENEVPEIQEGSVR 248

Query: 226 VKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           + AV+R+        G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++ 
Sbjct: 249 IVAVAREANPPSRSVGPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEKIDVIR 308

Query: 279 WSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           WS D   ++ N+L PA V  V ++D       V+VP +QLSLAIGR GQNVRLA++LTGW
Sbjct: 309 WSQDPGQYIANSLSPARVEMVRLVDPAGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGW 368

Query: 338 TIDII-TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIA 396
            IDI  + E D         E      +   + +     L  E  A  EE    ++ E+ 
Sbjct: 369 KIDIKNSTEYDQAAEDAVVAELISQREEEEALQQEAEERLAVEQAARAEE--DARLRELY 426

Query: 397 SIEGFDEETAVE 408
            +   DE+   E
Sbjct: 427 PLPEDDEDYVDE 438


>gi|148240413|ref|YP_001225800.1| transcription elongation factor NusA [Synechococcus sp. WH 7803]
 gi|147848952|emb|CAK24503.1| Transcription elongation factor NusA [Synechococcus sp. WH 7803]
          Length = 469

 Score =  343 bits (881), Expect = 4e-92,   Method: Composition-based stats.
 Identities = 125/372 (33%), Positives = 192/372 (51%), Gaps = 31/372 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL------------YGTM--SDIRVEIN 54
           L  + + ++ EK +   VV + + +++ K                 +     S+  V ++
Sbjct: 9   LSNLIEDISEEKKLPPQVVEAALREALLKGYERYRRTLYLGVGEDPFDEEYFSNFDVALD 68

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQ 112
            +     +     +V+EVE+   QI+L            G  V   + P   DFGR+A  
Sbjct: 69  LDEEGYRVLASKIIVDEVESEDHQIALAEVMQVADDAQSGDTVVLDVTPEKEDFGRMAAA 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIR 166
           + KQV+ QK+R+ +R     EF D    +++  V R E  +VI+ + +       +  + 
Sbjct: 129 TTKQVLAQKLRDQQRRMIQEEFADLEDPVLTARVIRFERQSVIMAVSSGLGRPEVEAELP 188

Query: 167 RDETISRENLRPGDRVKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           R + +  +N R     K ++ +V    +RGPQ+ +SR +   +V LF  EVPEI  G V+
Sbjct: 189 RRDQLPNDNYRANATFKVFLKEVSEVPRRGPQLFVSRANAGLVVYLFENEVPEIQEGSVR 248

Query: 226 VKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           + AV+R+        G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++ 
Sbjct: 249 IVAVAREANPPSRSVGPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEKIDVIR 308

Query: 279 WSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           WS D   ++ N+L PA V  V ++D       V+VP +QLSLAIGR GQNVRLA++LTGW
Sbjct: 309 WSSDPGQYIANSLSPARVDVVRLVDPVGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGW 368

Query: 338 TIDIITEEEDSI 349
            IDI    E   
Sbjct: 369 KIDIKNASEYDQ 380


>gi|227488651|ref|ZP_03918967.1| transcription elongation factor NusA [Corynebacterium
           glucuronolyticum ATCC 51867]
 gi|227091545|gb|EEI26857.1| transcription elongation factor NusA [Corynebacterium
           glucuronolyticum ATCC 51867]
          Length = 326

 Score =  343 bits (881), Expect = 4e-92,   Method: Composition-based stats.
 Identities = 126/347 (36%), Positives = 192/347 (55%), Gaps = 33/347 (9%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAAR--SLYGTMSDIRVEINPETGDISLFRLLE 67
           +     +  EK I  + +L+ +A  +  A          S  RVEI+P++G +++F    
Sbjct: 1   MSALRVLEKEKGISVEDLLTTIAQGLHSAYLQAHHLEDESSARVEIDPDSGAVTVF---- 56

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
                           A +RD   +I     +   P DFGR+     +  + +++RE + 
Sbjct: 57  ----------------AIERDEDGEIISEQDE--TPEDFGRLGASVVRDAVYRRLREVKT 98

Query: 128 DRQYLEFKDKVGEIISGTVKR----VEYGNVIVDLG----NSDGVIRRDETISRENLRPG 179
           DR + E+    G+ +SG V+      E G  +V LG      DG++   E I  ENL+ G
Sbjct: 99  DRDFDEYAGLEGKCVSGVVQADARANERGIAVVRLGTELQGQDGILLPGEQIPGENLKHG 158

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DRVK YI  V + +   Q+ LSRTHP+ + +LF +EVPE+ +G V++  ++R+ G R+K+
Sbjct: 159 DRVKCYIVGVGKGRGSLQISLSRTHPELVRRLFELEVPEVESGDVEIVGIAREAGHRSKI 218

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV ++   ++  GAC+G +G RV  V+ ELR EKIDI+ +  + AT+V NAL P+ V  V
Sbjct: 219 AVHATTKGVNAKGACIGPKGQRVNNVMRELRGEKIDIIDYDENPATYVGNALAPSKVVGV 278

Query: 300 -VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
            VLDE+     V VP  QLSLAIG+ GQN RLA++LTGW IDI ++E
Sbjct: 279 EVLDEENQIARVTVPDYQLSLAIGKEGQNARLAARLTGWKIDIRSDE 325


>gi|260434603|ref|ZP_05788573.1| transcription termination factor NusA [Synechococcus sp. WH 8109]
 gi|260412477|gb|EEX05773.1| transcription termination factor NusA [Synechococcus sp. WH 8109]
          Length = 483

 Score =  343 bits (881), Expect = 4e-92,   Method: Composition-based stats.
 Identities = 126/373 (33%), Positives = 194/373 (52%), Gaps = 31/373 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL------------YGTM--SDIRVEIN 54
           L  + D ++ EK +   VV + + +++ K                 +     S+  V ++
Sbjct: 9   LSNLIDDISEEKKLPPQVVEAALREALLKGYERYRRTLYIGISEDPFDEEYFSNFDVGLD 68

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQ 112
            E     +     +V+EVE+   QI++           +G  V   + P   DFGR+A  
Sbjct: 69  LEEEGYRVLASKIIVDEVESEDHQIAIAEVMQVADDAQVGDTVVLDVTPEKEDFGRMAAA 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIR 166
           + KQV+ QK+R+ +R     EF D    +++  V R E  +VI+ + +       +  + 
Sbjct: 129 TTKQVLAQKLRDQQRRMIQEEFADLEDPVLTARVIRFERQSVIMAVSSGLGRPEVEAELP 188

Query: 167 RDETISRENLRPGDRVKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           R + +  +N R     K ++ +V    +RGPQ+ +SR++   +V LF  EVPEI  G V+
Sbjct: 189 RRDQLPNDNYRANATFKVFLKEVSEVPRRGPQLFVSRSNAGLVVYLFENEVPEIQEGSVR 248

Query: 226 VKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           + AV+R+        G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++ 
Sbjct: 249 IVAVAREANPPSRSVGPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEKIDVIR 308

Query: 279 WSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           WS D   ++ N+L PA V  V ++D       V+VP +QLSLAIGR GQNVRLA++LTGW
Sbjct: 309 WSQDPGQYIANSLSPARVEMVRLVDPVGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGW 368

Query: 338 TIDIITEEEDSIN 350
            IDI    E    
Sbjct: 369 KIDIKNSTEYDQE 381


>gi|218960602|ref|YP_001740377.1| transcription elongation factor NusA [Candidatus Cloacamonas
           acidaminovorans]
 gi|167729259|emb|CAO80170.1| transcription elongation factor NusA [Candidatus Cloacamonas
           acidaminovorans]
          Length = 411

 Score =  343 bits (881), Expect = 4e-92,   Method: Composition-based stats.
 Identities = 120/417 (28%), Positives = 232/417 (55%), Gaps = 8/417 (1%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +SAN L+ L    A+   K +++D + +++ +++    +      + ++V I+   G + 
Sbjct: 1   MSANMLDALNKLAAI---KQLNKDTIQTIILEAVTSTLQKRLEPEAGLQVYIDELAGCVK 57

Query: 62  LFRLLEVVEEVENYTCQISLKVAR-DRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           + +   +V E E    QISL  AR D   ++ +G  +   +   +F    V++ +++I  
Sbjct: 58  V-KFKSLVVEREEGLGQISLIDARNDYYHNVQLGEYIEKTMTLSEFEPKIVKTVQKIIQD 116

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLRPG 179
           K+R+ E ++   +F  +   I++G +K ++ YG  I+D G+ D ++  DE I  E  R G
Sbjct: 117 KIRQLEEEKIQNDFNKQKHTIVTGKIKAIDDYGGYIIDTGHVDALLPVDEQIENEFYRVG 176

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           D +K+Y+ ++R ++ G  ++LSRT+P+F+ KLF  E+P I++G ++++ + R+PG R K+
Sbjct: 177 DNIKAYVVNIRTQKDGVVIILSRTNPEFVKKLFEAEIPAIFSGEIKIRKIVREPGIRTKV 236

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
            + + D  +DP+ ACVG +G+R+ ++  EL  E+IDIV+ S D    + NAL    + +V
Sbjct: 237 ELEAEDPKVDPIVACVGPKGTRIDSLRKELHGEQIDIVLHSDDPEKMIENALGVEGIKRV 296

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           ++ E      VI+ +    +AIG++G+NV+LA++L G  IDI T  E      K+    +
Sbjct: 297 II-ERNHSASVILDEADKLMAIGKQGKNVKLAAKLVGMKIDIYTMAEFEEKMAKERRTVS 355

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
               +   V   IA  L   G+  V+++    + E+ ++EG  ++TA  ++  A+ +
Sbjct: 356 HI-TELDGVTPKIAETLKQAGYTSVQDIYTASLEELCNLEGMGQKTAERLKEAAKYF 411


>gi|159904155|ref|YP_001551499.1| transcription elongation factor NusA [Prochlorococcus marinus str.
           MIT 9211]
 gi|159889331|gb|ABX09545.1| N utilization substance protein A [Prochlorococcus marinus str. MIT
           9211]
          Length = 471

 Score =  343 bits (881), Expect = 5e-92,   Method: Composition-based stats.
 Identities = 126/378 (33%), Positives = 196/378 (51%), Gaps = 31/378 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL------------YGTM--SDIRVEIN 54
           L  + D ++ EK +   VV + + +++ K                 +     S+  V ++
Sbjct: 9   LNNLIDDISEEKKLPAQVVETALREALLKGYERYRRTLYLGINENPFEEEYFSNFDVGLD 68

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQ 112
            +     +     +V+EVE+   QI+L           IG  V   + P   +FGR+A  
Sbjct: 69  LDEEGYRVLASKIIVDEVESEDHQIALSEVMQVAEDAQIGDTVVLDVTPEKEEFGRMAAA 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIR 166
           + KQV+ QK+R+ +R     EF D    +++  V R E  +VI+ + +       +  + 
Sbjct: 129 TTKQVLAQKLRDQQRRMIQEEFADLEDPVLTARVIRFERQSVIMAVSSGLGRPEVEAELP 188

Query: 167 RDETISRENLRPGDRVKSYIYDVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           R + +  +N R     K ++ +V    R GPQ+ +SR++   +V LF  EVPEI  G V+
Sbjct: 189 RRDQLPNDNYRANATFKVFLKEVSETPRRGPQLFVSRSNAGLVVYLFENEVPEIQEGSVR 248

Query: 226 VKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           + AV+R+        G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++ 
Sbjct: 249 IVAVAREANPPTRAVGPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEKIDVIR 308

Query: 279 WSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           WS D   ++ N+L PA V  V ++D +     V+VP +QLSLAIGR GQNVRLA++LTGW
Sbjct: 309 WSADPVQYISNSLSPARVEVVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGW 368

Query: 338 TIDIITEEEDSINRQKDF 355
            IDI   +E     +   
Sbjct: 369 KIDIKNSQEYDQESEDSA 386


>gi|78213595|ref|YP_382374.1| transcription elongation factor NusA [Synechococcus sp. CC9605]
 gi|78198054|gb|ABB35819.1| NusA antitermination factor [Synechococcus sp. CC9605]
          Length = 481

 Score =  343 bits (880), Expect = 5e-92,   Method: Composition-based stats.
 Identities = 126/373 (33%), Positives = 194/373 (52%), Gaps = 31/373 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL------------YGTM--SDIRVEIN 54
           L  + D ++ EK +   VV + + +++ K                 +     S+  V ++
Sbjct: 9   LSNLIDDISEEKKLPPQVVEAALREALLKGYERYRRTLYLGISEDPFDEEYFSNFDVGLD 68

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQ 112
            E     +     +V+EVE+   QI++           +G  V   + P   DFGR+A  
Sbjct: 69  LEEEGYRVLASKIIVDEVESEDHQIAIAEVMQVADDAQVGDTVVLDVTPEKEDFGRMAAA 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIR 166
           + KQV+ QK+R+ +R     EF D    +++  V R E  +VI+ + +       +  + 
Sbjct: 129 TTKQVLAQKLRDQQRRMIQEEFADLEDPVLTARVIRFERQSVIMAVSSGLGRPEVEAELP 188

Query: 167 RDETISRENLRPGDRVKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           R + +  +N R     K ++ +V    +RGPQ+ +SR++   +V LF  EVPEI  G V+
Sbjct: 189 RRDQLPNDNYRANATFKVFLKEVSEVPRRGPQLFVSRSNAGLVVYLFENEVPEIQEGSVR 248

Query: 226 VKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           + AV+R+        G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++ 
Sbjct: 249 IVAVAREANPPSRSVGPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEKIDVIR 308

Query: 279 WSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           WS D   ++ N+L PA V  V ++D       V+VP +QLSLAIGR GQNVRLA++LTGW
Sbjct: 309 WSQDPGQYIANSLSPARVEMVRLVDPVGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGW 368

Query: 338 TIDIITEEEDSIN 350
            IDI    E    
Sbjct: 369 KIDIKNSTEYDQE 381


>gi|284929277|ref|YP_003421799.1| transcription termination factor NusA [cyanobacterium UCYN-A]
 gi|284809721|gb|ADB95418.1| transcription termination factor NusA [cyanobacterium UCYN-A]
          Length = 387

 Score =  342 bits (879), Expect = 7e-92,   Method: Composition-based stats.
 Identities = 128/379 (33%), Positives = 203/379 (53%), Gaps = 30/379 (7%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL-----------YGTM-SDIRVEINPE 56
           L  +   ++   ++ +  V   + +++ K                Y     +  VE++ E
Sbjct: 9   LTNMIGEISQRHNLPKPAVQEALREALLKGYERFRRSQNLDRQPFYDEYFDNFEVELDTE 68

Query: 57  TGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQSA 114
                +    +++E VEN    ISL+  ++      +G  V   + P   DFGR+A    
Sbjct: 69  EEGFRILSTKKIMENVENIDHHISLQEVQEVASEAQLGDEVVLDVTPEQKDFGRMAAIQT 128

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS------DGVIRRD 168
           KQV++QK+R+ +R     EF++  G +++  V R E  ++IV + ++      + +I + 
Sbjct: 129 KQVLLQKLRDQQRKLIQEEFQELEGTVLNARVLRFERQDIIVAVQSTFGQPEVEAIIPKQ 188

Query: 169 ETISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVK 227
           E +  +N R     K  +  VR    RGPQ+L+SR     +V +F +EVPEI   IV++ 
Sbjct: 189 EQLPNDNYRANSSFKILLKKVREGSHRGPQLLVSRAAAGLVVDMFSIEVPEIEEDIVRIV 248

Query: 228 AVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
           AVSR+        G R K+AV + +  +DPVGAC+G RGSR+QAVV ELR EKID++ WS
Sbjct: 249 AVSREANPPSRYVGPRTKIAVDTLERDVDPVGACIGARGSRIQAVVNELRGEKIDVIRWS 308

Query: 281 PDSATFVINALRPAIVTKVV-LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
           PD AT++ NAL PA + +V+ +  D     ++V ++QLSLAIG+ GQNVRLA++LTGW I
Sbjct: 309 PDPATYIANALSPARIDEVILISPDERHALILVAEDQLSLAIGKEGQNVRLAARLTGWKI 368

Query: 340 DII-TEEEDSINRQKDFNE 357
           DI  T         + F +
Sbjct: 369 DIKNTIAHREELENQQFED 387


>gi|124022125|ref|YP_001016432.1| transcription elongation factor NusA [Prochlorococcus marinus str.
           MIT 9303]
 gi|123962411|gb|ABM77167.1| N utilization substance protein A [Prochlorococcus marinus str. MIT
           9303]
          Length = 484

 Score =  342 bits (879), Expect = 7e-92,   Method: Composition-based stats.
 Identities = 138/414 (33%), Positives = 212/414 (51%), Gaps = 36/414 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL----------------YGTMSDIRVE 52
           L  + + ++ EK +   VV + + +++ K                     Y +  D+ +E
Sbjct: 9   LNNLIEDISEEKKLPTQVVEAALREALLKGYERYRRTLYLGISEDPFEEEYFSNFDVGLE 68

Query: 53  INPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVA 110
           ++ E     +     +VEEVE+   QI+L+          IG  V   + P   DFGR+A
Sbjct: 69  LDDE--GYRVLASKIIVEEVESEDHQIALQEVMQVAEDAQIGDTVVLDVTPEKEDFGRMA 126

Query: 111 VQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGV 164
             + KQV+ QK+R+ +R     EF D    +++  V R E  +VI+ + +       +  
Sbjct: 127 AATTKQVLAQKLRDQQRRMIQEEFADLEDPVLTARVIRFERHSVIMAVSSGLGRPEVEAE 186

Query: 165 IRRDETISRENLRPGDRVKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGI 223
           + R + +  +N R     K ++ +V    +RGPQ+ +SR++   +V LF  EVPEI  G 
Sbjct: 187 LPRRDQLPNDNYRANATFKVFLKEVSEVPRRGPQLFVSRSNAGLVVYLFENEVPEIQEGS 246

Query: 224 VQVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDI 276
           V++ AV+R+        G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID+
Sbjct: 247 VRIVAVAREANPPSRSVGPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEKIDV 306

Query: 277 VVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLT 335
           + WSPD   ++ N+L PA V  V ++D +     V+VP +QLSLAIGR GQNVRLA++LT
Sbjct: 307 IRWSPDPGQYIANSLSPARVEMVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAARLT 366

Query: 336 GWTIDII-TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELA 388
           GW IDI  ++E D  +      E      +   +       L AE     EE A
Sbjct: 367 GWKIDIKNSQEYDQASEDTTVAELISQREEEEALQRDAESRLAAEQATRAEEDA 420


>gi|297571193|ref|YP_003696967.1| transcription termination factor NusA [Arcanobacterium haemolyticum
           DSM 20595]
 gi|296931540|gb|ADH92348.1| transcription termination factor NusA [Arcanobacterium haemolyticum
           DSM 20595]
          Length = 325

 Score =  342 bits (878), Expect = 8e-92,   Method: Composition-based stats.
 Identities = 124/343 (36%), Positives = 203/343 (59%), Gaps = 28/343 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +     V  E  ID +V+L+ + +++  A   + G +   RVE+N  TG ++++      
Sbjct: 5   MNELRIVESELGIDLNVLLNAIEEALVHAYNRVPGAVRGARVELNRSTGKVTVW------ 58

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                         A + D + ++ G   D   P DFGR+A  +A+ +I Q++R+AE DR
Sbjct: 59  --------------APEVDENNEVIGEFDD--TPNDFGRIATSTARSIIAQRLRDAETDR 102

Query: 130 QYLEFKDKVGEIISGTVKRV-----EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
               F+ K G+++SG V+       E  ++ ++LG + G++R DE ++ E+ + GD +++
Sbjct: 103 VLGSFQGKKGQLVSGVVEGTAGSNPESRDLFIELGENRGLLRSDEQVASEHFKRGDLLRA 162

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + D+    RG  + LSR+HP F+ +LF  EVPEI +G V++ A++R+ G R K+AV+S+
Sbjct: 163 LVLDISVGPRGASIRLSRSHPDFVRQLFETEVPEIADGPVEIVALAREAGHRTKVAVWSN 222

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDE 303
           D ++   G+ +G  G RV+AV  EL  EKID+V +  D A F+  AL PA VT+V +L+ 
Sbjct: 223 DDAVAAKGSLIGHNGQRVRAVTAELNGEKIDVVDYDDDPAKFIAAALSPAKVTEVEILNR 282

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           D+ +   IVP +Q SLAIG+  QNVRLA++LTGW+IDI  E +
Sbjct: 283 DMRQARAIVPDDQASLAIGKEAQNVRLAAKLTGWSIDIRRESD 325


>gi|33865134|ref|NP_896693.1| transcription elongation factor NusA [Synechococcus sp. WH 8102]
 gi|33638818|emb|CAE07115.1| N utilization substance protein A [Synechococcus sp. WH 8102]
          Length = 475

 Score =  342 bits (878), Expect = 8e-92,   Method: Composition-based stats.
 Identities = 127/372 (34%), Positives = 194/372 (52%), Gaps = 31/372 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL------------YGTM--SDIRVEIN 54
           L  + D ++ EK +   VV + + +++ K                 +     S+  V ++
Sbjct: 9   LSNLIDDISEEKKLPPQVVEAALREALLKGYERYRRTMYLGISEDPFDEEYFSNFDVGLD 68

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQ 112
            E     +     +VEEVE+   QI+L+           G  V   + P   DFGR+A  
Sbjct: 69  LEEEGYRVLASKIIVEEVESEDHQIALQEVMQVADDAQEGDTVVLDVTPEKEDFGRMAAA 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIR 166
           + KQV+ QK+R+ +R     EF D    +++  V R E  +VI+ + +       +  + 
Sbjct: 129 TTKQVLAQKLRDQQRRMIQEEFADLEDPVLTARVIRFERQSVIMAVSSGLGRPEVEAELP 188

Query: 167 RDETISRENLRPGDRVKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           R + +  +N R     K ++ +V    +RGPQ+ +SR++   +V LF  EVPEI  G V+
Sbjct: 189 RRDQLPNDNYRANATFKVFLKEVSEVPRRGPQLFVSRSNAGLVVYLFENEVPEIQEGSVR 248

Query: 226 VKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           + AV+R+        G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++ 
Sbjct: 249 IVAVAREANPPSRSVGPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEKIDVIR 308

Query: 279 WSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           WS D   ++ N+L PA V  V ++D       V+VP +QLSLAIGR GQNVRLA++LTGW
Sbjct: 309 WSQDPGQYIANSLSPARVEMVRLVDPVGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGW 368

Query: 338 TIDIITEEEDSI 349
            +DI    E   
Sbjct: 369 KLDIKNSTEYDQ 380


>gi|123966905|ref|YP_001011986.1| transcription elongation factor NusA [Prochlorococcus marinus str.
           MIT 9515]
 gi|123201271|gb|ABM72879.1| N utilization substance protein A [Prochlorococcus marinus str. MIT
           9515]
          Length = 467

 Score =  342 bits (878), Expect = 9e-92,   Method: Composition-based stats.
 Identities = 126/373 (33%), Positives = 196/373 (52%), Gaps = 31/373 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL------------YGTM--SDIRVEIN 54
           L  + + ++ EK +   VV S + +++ K                 +     S+  V  +
Sbjct: 9   LNNLIEDISEEKKLPPHVVESALREALLKGYEKYRRTFYIGVKEDPFDEEYFSNFDVGFD 68

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQ 112
            +     +     +VEEVE+   QISL   +       IG  V   + P   DFGR+A  
Sbjct: 69  LDEEGYRILSSKIIVEEVESEDHQISLNEVKQVADDAQIGDTVVLDVTPEKEDFGRMAAS 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIR 166
           + KQV+ QK+R+ +R     EF D    +++  V R E  +VI+ + +       +  + 
Sbjct: 129 TTKQVLAQKLRDQQRKMIQEEFADLEDPVLTARVIRFERQSVIMGVSSGIGRPEVEAELP 188

Query: 167 RDETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           + + +  +N R     K ++ +V    ++GPQ+ +SR +   +V LF  EVPEI  G V+
Sbjct: 189 KRDQLPNDNYRANATFKVFLKEVSEIARKGPQLFVSRANAGLVVYLFENEVPEIQEGTVK 248

Query: 226 VKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           + AVSR+        G R K+AV S +  +DPVGAC+G RG+R+Q VV ELR EKID++ 
Sbjct: 249 IVAVSREANPPSRAVGPRTKVAVDSIEREVDPVGACIGARGARIQQVVNELRGEKIDVIK 308

Query: 279 WSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           WS D   +++N+L PA V  V ++D +     V+VP +QLSLAIGR GQNVRLA++LTGW
Sbjct: 309 WSADPIEYILNSLSPAKVDLVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGW 368

Query: 338 TIDIITEEEDSIN 350
            ID+    E +  
Sbjct: 369 KIDVKNSHEYNQE 381


>gi|227543254|ref|ZP_03973303.1| transcription elongation factor NusA [Corynebacterium
           glucuronolyticum ATCC 51866]
 gi|227181063|gb|EEI62035.1| transcription elongation factor NusA [Corynebacterium
           glucuronolyticum ATCC 51866]
          Length = 326

 Score =  342 bits (877), Expect = 1e-91,   Method: Composition-based stats.
 Identities = 126/347 (36%), Positives = 193/347 (55%), Gaps = 33/347 (9%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAAR--SLYGTMSDIRVEINPETGDISLFRLLE 67
           +     +  EK I  + +L+ +A  + +A          S  RVEI+P++G +++F    
Sbjct: 1   MSALRVLEKEKGISVEDLLTTIAQGLHRAYLQAHHLEDESSARVEIDPDSGAVTVF---- 56

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
                           A +RD   +I     +   P DFGR+     +  + +++RE + 
Sbjct: 57  ----------------AIERDEDGEIISEQDE--TPEDFGRLGASVVRDAVYRRLREVKT 98

Query: 128 DRQYLEFKDKVGEIISGTVKR----VEYGNVIVDLG----NSDGVIRRDETISRENLRPG 179
           DR + E+    G+ +SG V+      E G  +V LG      DG++   E I  ENL+ G
Sbjct: 99  DRDFDEYAGLEGKCVSGVVQADARANERGIAVVRLGTELQGQDGILLPGEQIPGENLKHG 158

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DRVK YI  V + +   Q+ LSRTHP+ + +LF +EVPE+ +G V++  ++R+ G R+K+
Sbjct: 159 DRVKCYIVGVGKGRGSLQISLSRTHPELVRRLFELEVPEVESGDVEIVGIAREAGHRSKI 218

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV ++   ++  GAC+G +G RV  V+ ELR EKIDI+ +  + AT+V NAL P+ V  V
Sbjct: 219 AVHATTKGVNAKGACIGPKGQRVNNVMRELRGEKIDIIDYDENPATYVGNALAPSKVVGV 278

Query: 300 -VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
            VLDE+     V VP  QLSLAIG+ GQN RLA++LTGW IDI ++E
Sbjct: 279 EVLDEENQIARVTVPDYQLSLAIGKEGQNARLAARLTGWKIDIRSDE 325


>gi|254422159|ref|ZP_05035877.1| transcription termination factor NusA [Synechococcus sp. PCC 7335]
 gi|196189648|gb|EDX84612.1| transcription termination factor NusA [Synechococcus sp. PCC 7335]
          Length = 517

 Score =  341 bits (875), Expect = 2e-91,   Method: Composition-based stats.
 Identities = 130/362 (35%), Positives = 201/362 (55%), Gaps = 28/362 (7%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL---------YGTM--SDIRVEINPET 57
           L  + D ++ E+++ +  V   + +++ K              +      +  VE++ + 
Sbjct: 9   LQAMIDGISQERNLPKSAVEMALQEALLKGYERYRRTQRIDGQFDEEYFDNFYVELDTDD 68

Query: 58  GDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQSAK 115
               +     +VE VEN   QI L   +   P    G  V   + P   DFGR+A    K
Sbjct: 69  EGFRVLANKTIVEAVENSDHQIGLAEVQQVAPEALAGDTVVLDVTPEQNDFGRMAAIQTK 128

Query: 116 QVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG------NSDGVIRRDE 169
           QV+ QK+R+ +R     EF+D  G I++  V R E  +VI+ +       +++  + + +
Sbjct: 129 QVLAQKLRDQQRRLIQEEFQDLEGSILNARVLRFERQSVIMAVSSGIGQPDTEAELLKRD 188

Query: 170 TISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKA 228
            +  +N R     +  +  V     RGPQ+L+SR+    +V+LF  EVPEI + IV++ A
Sbjct: 189 QLPNDNYRANATFRVALKRVSEGSHRGPQLLVSRSDASLVVELFSNEVPEIEDEIVRIVA 248

Query: 229 VSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSP 281
           V+R+        G R K+AV +++S +DPVGAC+G RGSR+Q VV ELR EKID++ WSP
Sbjct: 249 VAREANPPSRSVGPRTKIAVDTAESDVDPVGACIGARGSRIQVVVNELRGEKIDVIRWSP 308

Query: 282 DSATFVINALRPAIVTKVVLDEDVGR-IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           D +T++ NAL PA V +V L +  GR   V+VP++QLSLAIG+ GQNVRLA++LTGW ID
Sbjct: 309 DPSTYISNALSPARVDEVRLMDSEGRQAHVLVPEDQLSLAIGKEGQNVRLAARLTGWKID 368

Query: 341 II 342
           I 
Sbjct: 369 IK 370


>gi|254526931|ref|ZP_05138983.1| transcription termination factor NusA [Prochlorococcus marinus str.
           MIT 9202]
 gi|221538355|gb|EEE40808.1| transcription termination factor NusA [Prochlorococcus marinus str.
           MIT 9202]
          Length = 467

 Score =  341 bits (875), Expect = 2e-91,   Method: Composition-based stats.
 Identities = 125/390 (32%), Positives = 206/390 (52%), Gaps = 33/390 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL------------YGTM--SDIRVEIN 54
           L  + + ++ EK +  ++V + + +++ K                 +     S+  V ++
Sbjct: 9   LNNLIEDISEEKKLPPNIVEAALREALLKGYEKYRRTFYIGVNEDPFDEEYFSNFDVGLD 68

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQ 112
            +     +     +VEEVE+   QISL   +       IG  V   + P   DFGR+A  
Sbjct: 69  LDEEGYRILSSKIIVEEVESEDHQISLLEVKQVADDAQIGDTVVLDVTPEKEDFGRMAAS 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIR 166
           + KQV+ QK+R+ +R     EF D    +++  V R E  +VI+ + +       +  + 
Sbjct: 129 TTKQVLAQKLRDHQRKMIQEEFADLEDPVLTARVIRFERQSVIMGVSSGIGRPEVEAELP 188

Query: 167 RDETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           + + +  +N R     K ++ +V    ++GPQ+ +SR +   +V LF  EVPEI  G V+
Sbjct: 189 KRDQLPNDNYRANATFKVFLKEVSEIARKGPQLFVSRANAGLVVYLFENEVPEIQEGTVK 248

Query: 226 VKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           + AVSR+        G R K+AV S +  +DPVGAC+G RG+R+Q VV ELR EKID++ 
Sbjct: 249 IVAVSREANPPSRAVGPRTKVAVDSVEQEVDPVGACIGARGARIQQVVNELRGEKIDVIK 308

Query: 279 WSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           WS D   +++N+L PA V  V ++D +     V+VP +QLSLAIGR GQNVRLA++LTGW
Sbjct: 309 WSSDPIQYILNSLSPAKVDLVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGW 368

Query: 338 TIDIITEEEDSINRQKDFNERTQFFMQAIN 367
            ID+    E   +++ +    ++  +Q  +
Sbjct: 369 KIDVKNSHEY--DQEAEDAAVSELIIQRED 396


>gi|254226551|ref|ZP_04920134.1| Transcription elongation factor [Vibrio cholerae V51]
 gi|125620955|gb|EAZ49306.1| Transcription elongation factor [Vibrio cholerae V51]
          Length = 271

 Score =  340 bits (874), Expect = 2e-91,   Method: Composition-based stats.
 Identities = 115/288 (39%), Positives = 177/288 (61%), Gaps = 18/288 (6%)

Query: 228 AVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFV 287
           A +RDPGSRAK+AV ++D  IDPVGACVGMRG+RVQAV  EL  E+IDIV+W  + A FV
Sbjct: 1   AAARDPGSRAKIAVKTNDKRIDPVGACVGMRGARVQAVSGELGGERIDIVLWDDNPAQFV 60

Query: 288 INALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
           INA+ PA V  +++DED   +++ V  + L+ AIGR GQNVRLASQLTGW ++++T  + 
Sbjct: 61  INAMAPADVASIIMDEDAHSMDIAVEADNLAQAIGRNGQNVRLASQLTGWELNVMTVADL 120

Query: 348 SINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV 407
               Q++     + FM+ +++++  A LLV EGF+ +EE+A V ++E+  ++G DE+ A 
Sbjct: 121 QKKHQEESMASIENFMKYLDIEQDFAELLVEEGFSTLEEIAYVPMNELLDVDGMDEDLAD 180

Query: 408 EIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSV 467
           E++ RA+E L  I +  ++    L  +E+L ++ G++  +   L   G+ T+EDLA   V
Sbjct: 181 ELRSRAKEALTTIALAKEESFEGLEPAEDLLALAGLERDMAFKLAAKGVATLEDLADQGV 240

Query: 468 DDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
           DDL G                   G  + +   +I+ AR  + W  ++
Sbjct: 241 DDLEGIE-----------------GLTEQRAGELIMAAR-NICWFGED 270


>gi|218247498|ref|YP_002372869.1| transcription elongation factor NusA [Cyanothece sp. PCC 8801]
 gi|257061166|ref|YP_003139054.1| transcription elongation factor NusA [Cyanothece sp. PCC 8802]
 gi|218167976|gb|ACK66713.1| NusA antitermination factor [Cyanothece sp. PCC 8801]
 gi|256591332|gb|ACV02219.1| NusA antitermination factor [Cyanothece sp. PCC 8802]
          Length = 412

 Score =  340 bits (874), Expect = 3e-91,   Method: Composition-based stats.
 Identities = 131/393 (33%), Positives = 209/393 (53%), Gaps = 29/393 (7%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAA----------RSLYGTM--SDIRVEINPE 56
           L  + + ++   ++ +  V   + +++ K            R  +      +  VE++ E
Sbjct: 9   LANMIEEISQLHNLPKSAVQEALREALLKGYERYRRSQNLERQAFHEDYFDNFEVELDTE 68

Query: 57  TGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPP--MDFGRVAVQSA 114
                +    ++VE VEN    ISL+  ++      +G  V   + P   DFGR+A    
Sbjct: 69  EEGFRILSTKKIVEAVENTDHFISLEEVQEVASEAQLGDEVVLDVTPNQKDFGRMAAIQT 128

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS------DGVIRRD 168
           KQV++QK+R+ +R     EF +  G +++  V R E  + IV + ++      + V+ + 
Sbjct: 129 KQVLLQKLRDQQRKLIQEEFNEIEGTVLNARVLRFERQDAIVAVQSTFGQPEVEAVLPKR 188

Query: 169 ETISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVK 227
           E +  +N R     K  +  VR    RGPQ+++SR+    +V LF +EVPEI   IV++ 
Sbjct: 189 EQLPNDNYRANATFKVLLKKVREGSHRGPQLIVSRSAAGLVVDLFTVEVPEIEEEIVRIV 248

Query: 228 AVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWS 280
           AVSR+        G R K+AV + +  +DPVGAC+G RGSR+QAVV ELR EKID++ WS
Sbjct: 249 AVSREANPPSRHVGPRTKIAVDTLERDVDPVGACIGARGSRIQAVVNELRGEKIDVIRWS 308

Query: 281 PDSATFVINALRPAIVTKVV-LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
           PD AT++ NAL PA V  V+ ++ D     V+V ++QLSLAIG+ GQNVRLA++LTGW I
Sbjct: 309 PDPATYIANALSPARVDNVILINPDERHALVLVAEDQLSLAIGKEGQNVRLAARLTGWKI 368

Query: 340 DIITEEEDSINRQKDFNERTQFFMQAINVDEII 372
           DI          ++  + + Q  +  +  D  +
Sbjct: 369 DIKDTATYQAEVEQKKHAQNQTAIDPLEEDPNL 401


>gi|33863793|ref|NP_895353.1| transcription elongation factor NusA [Prochlorococcus marinus str.
           MIT 9313]
 gi|33635376|emb|CAE21701.1| N utilization substance protein A [Prochlorococcus marinus str. MIT
           9313]
          Length = 482

 Score =  340 bits (873), Expect = 3e-91,   Method: Composition-based stats.
 Identities = 137/412 (33%), Positives = 209/412 (50%), Gaps = 32/412 (7%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL------------YGTM--SDIRVEIN 54
           L  + + ++ EK +   VV + + +++ K                 +     S+  V + 
Sbjct: 9   LNNLIEDISEEKKLPTQVVEAALREALLKGYERYRRTLYLGISEDPFEEEYFSNFDVGLE 68

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQ 112
            E     +     +VEEVE+   QI+L+          IG  V   + P   DFGR+A  
Sbjct: 69  LEDEGYRVLASKIIVEEVESEDHQIALQEVMQVAEDAQIGDTVVLDVTPEKEDFGRMAAA 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIR 166
           + KQV+ QK+R+ +R     EF D    +++  V R E  +VI+ + +       +  + 
Sbjct: 129 TTKQVLAQKLRDQQRRMIQEEFADLEDPVLTARVIRFERHSVIMAVSSGLGRPEVEAELP 188

Query: 167 RDETISRENLRPGDRVKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           R + +  +N R     K ++ +V    +RGPQ+ +SR++   +V LF  EVPEI  G V+
Sbjct: 189 RRDQLPNDNYRANATFKVFLKEVSEVPRRGPQLFVSRSNAGLVVYLFENEVPEIQEGSVR 248

Query: 226 VKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           + AV+R+        G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++ 
Sbjct: 249 IVAVAREANPPSRSVGPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEKIDVIR 308

Query: 279 WSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           WSPD   ++ N+L PA V  V ++D +     V+VP +QLSLAIGR GQNVRLA++LTGW
Sbjct: 309 WSPDPGQYIANSLSPARVEMVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGW 368

Query: 338 TIDII-TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELA 388
            IDI  ++E D  +      E      +   +       L AE     EE A
Sbjct: 369 KIDIKNSQEYDQASEDTTVAELISQREEEEALQRDAEARLAAEQATRAEEDA 420


>gi|87301303|ref|ZP_01084144.1| transcription elongation factor NusA [Synechococcus sp. WH 5701]
 gi|87284271|gb|EAQ76224.1| transcription elongation factor NusA [Synechococcus sp. WH 5701]
          Length = 492

 Score =  340 bits (873), Expect = 4e-91,   Method: Composition-based stats.
 Identities = 126/372 (33%), Positives = 196/372 (52%), Gaps = 31/372 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL------------YGTM--SDIRVEIN 54
           L  + + ++ EK +   VV + + +++ K                 +     S+  V ++
Sbjct: 9   LQNLIEDISEEKKLPTQVVEAALREALLKGYERYRRTLYLGISEDPFEEDYFSNFDVALD 68

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQ 112
            +     +     +VEEVE+   QI+L   +       +G  V   + P   DFGR+A  
Sbjct: 69  LDEEGYRVLASKIIVEEVESEDHQIALAEVQQVAEDAQVGDTVVLDVTPEKDDFGRMAAA 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIR 166
           + KQV+ QK+R+ +R     EF D    +++  V R E  +VI+ + +       +  + 
Sbjct: 129 TTKQVLAQKLRDQQRRMIQEEFADLEDPVLTARVIRFERQSVIMAVSSGLGRPEVEAELP 188

Query: 167 RDETISRENLRPGDRVKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           R + +  +N R     K ++ +V    +RGPQ+ +SR +   +V LF  EVPEI  G V+
Sbjct: 189 RRDQLPNDNYRANATFKVFLKEVSEVPRRGPQLFVSRANAGLVVYLFENEVPEIQEGSVR 248

Query: 226 VKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           + AV+R+        G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++ 
Sbjct: 249 IVAVAREANPPSRAVGPRTKVAVDSVEREVDPVGACIGARGSRIQQVVNELRGEKIDVIR 308

Query: 279 WSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           WSPD   ++ N+L PA V  V ++D +     V+VP +QLSLAIGR GQNVRLA++LTGW
Sbjct: 309 WSPDPGQYLANSLSPARVEMVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGW 368

Query: 338 TIDIITEEEDSI 349
            IDI    +   
Sbjct: 369 KIDIKNAADYDQ 380


>gi|260889854|ref|ZP_05901117.1| transcription termination factor NusA [Leptotrichia hofstadii
           F0254]
 gi|260860460|gb|EEX74960.1| transcription termination factor NusA [Leptotrichia hofstadii
           F0254]
          Length = 386

 Score =  340 bits (872), Expect = 4e-91,   Method: Composition-based stats.
 Identities = 126/349 (36%), Positives = 205/349 (58%), Gaps = 5/349 (1%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M   ++   L+  D +  EK I ++ +L  +  ++  A +  YG   +++V IN  +GD+
Sbjct: 2   MKGRDQKIFLEALDELEKEKGILKEELLETIETALLAAYKKNYGEKDNVKVTINRNSGDV 61

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            ++    +VE VEN   +ISL+ A        +G ++   +    F R A+Q+AKQ+++Q
Sbjct: 62  KVYSQRLIVENVENPEEEISLQDAISVKKRAKLGDILDLEINAESFKRNAIQNAKQIVVQ 121

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPG 179
           KVRE E+   + +FK+    I+S  V++  E GN+ VD+   + ++   E    +  R G
Sbjct: 122 KVRECEKRNIFNKFKEIENSIVSANVRKTDEKGNLYVDINGLEAIVPAKELSPVDIFRQG 181

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           DR+K YI  V    +  +  +SR   + +  L  +EVPEIY  I++++ ++R+ GSR+K+
Sbjct: 182 DRIKIYIGAVEESTKFTKTFVSRKSEELLRGLLELEVPEIYEEIIEIRNIAREAGSRSKV 241

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV+S+D ++D  GAC+G  G R+Q ++ EL  EKIDIV+W+ D   FV NAL PA V  V
Sbjct: 242 AVYSNDENLDVKGACIGRNGMRIQNIIDELCGEKIDIVLWNEDITEFVKNALNPAEVLSV 301

Query: 300 VL----DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            +    +E++    V+V + QLSLAIG++GQN RLA++L G  IDI TE
Sbjct: 302 EIIEEGEENMKVARVLVAENQLSLAIGKKGQNSRLAARLCGVKIDIHTE 350


>gi|157414094|ref|YP_001484960.1| transcription elongation factor NusA [Prochlorococcus marinus str.
           MIT 9215]
 gi|157388669|gb|ABV51374.1| N utilization substance protein A [Prochlorococcus marinus str. MIT
           9215]
          Length = 467

 Score =  339 bits (871), Expect = 5e-91,   Method: Composition-based stats.
 Identities = 124/373 (33%), Positives = 197/373 (52%), Gaps = 31/373 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL------------YGTM--SDIRVEIN 54
           L  + + ++ EK +  ++V + + +++ K                 +     S+  V ++
Sbjct: 9   LNNLIEDISEEKKLPPNIVEAALREALLKGYEKYRRTFYIGVNEDPFDEEYFSNFDVGLD 68

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQ 112
            +     +     +VEEVE+   QISL   +       IG  V   + P   DFGR+A  
Sbjct: 69  LDEEGYRILSSKIIVEEVESEDHQISLLEVKQVADDAQIGDTVVLDVTPEKEDFGRMAAS 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIR 166
           + KQV+ QK+R+ +R     EF D    +++  V R E  +VI+ + +       +  + 
Sbjct: 129 TTKQVLAQKLRDQQRKMIQEEFADLEDPVLTARVIRFERQSVIMGVSSGIGRPEVEAELP 188

Query: 167 RDETISRENLRPGDRVKSYIYDVRR-EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           + + +  +N R     K ++ +V    ++GPQ+ +SR +   +V LF  EVPEI  G V+
Sbjct: 189 KRDQLPNDNYRANATFKVFLKEVSEIARKGPQLFVSRANAGLVVYLFENEVPEIQEGTVK 248

Query: 226 VKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           + AVSR+        G R K+AV S +  +DPVGAC+G RG+R+Q VV ELR EKID++ 
Sbjct: 249 IVAVSREANPPSRAVGPRTKVAVDSVEQEVDPVGACIGARGARIQQVVNELRGEKIDVIK 308

Query: 279 WSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           WS D   +++N+L PA V  V ++D +     V+VP +QLSLAIGR GQNVRLA++LTGW
Sbjct: 309 WSSDPIQYILNSLSPAKVDLVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGW 368

Query: 338 TIDIITEEEDSIN 350
            ID+    E    
Sbjct: 369 KIDVKNSHEYDQE 381


>gi|78184171|ref|YP_376606.1| transcription elongation factor NusA [Synechococcus sp. CC9902]
 gi|78168465|gb|ABB25562.1| NusA antitermination factor [Synechococcus sp. CC9902]
          Length = 485

 Score =  339 bits (871), Expect = 6e-91,   Method: Composition-based stats.
 Identities = 136/434 (31%), Positives = 214/434 (49%), Gaps = 38/434 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL------------YGTM--SDIRVEIN 54
           L  + D ++ EK +   VV + + +++ K                 +     S+  V ++
Sbjct: 9   LTNLIDDISEEKKLAPQVVEAALREALLKGYERYRRTLYIGISEDPFDEDYFSNFDVGLD 68

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQ 112
            E     +     +V+EVE+   QI+L            G  V   + P   DFGR+A  
Sbjct: 69  LEEEGYRVLASKIIVDEVESEDHQIALAEVMQVAEDAQSGDTVVLDVTPEKEDFGRMAAA 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIR 166
           + KQV+ QK+R+ +R     EF D    +++  V R E  ++I+ + +       +  + 
Sbjct: 129 TTKQVLAQKLRDQQRRMIQEEFADLEDPVLTARVIRFERQSIIMAVSSGLGRPEVEAELP 188

Query: 167 RDETISRENLRPGDRVKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           R + +  +N R     K ++ +V    +RGPQ+ +SR++   +V LF  EVPEI  G V+
Sbjct: 189 RRDQLPNDNYRANATFKVFLKEVSEVPRRGPQLFVSRSNAGLVVYLFENEVPEIQEGSVR 248

Query: 226 VKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           + AV+R+        G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++ 
Sbjct: 249 IVAVAREANPPSRSVGPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEKIDVIR 308

Query: 279 WSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           WS D   ++ N+L PA V  V ++D       V+VP +QLSLAIGR GQNVRLA++LTGW
Sbjct: 309 WSQDPGQYIANSLSPARVEMVRLVDPAGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGW 368

Query: 338 TIDIITEEEDSINRQKDFNERTQFFMQ---AINVDEIIAHLLVAEGFADVEELACVKISE 394
            IDI    E   ++  +     +   Q      + +     L  E  A  EE    ++ E
Sbjct: 369 KIDIKNSTEY--DQPAEDAVVAELISQREEEEALQQEAEERLAVEQAARAEE--DARLRE 424

Query: 395 IASIEGFDEETAVE 408
           +  +   DE+   E
Sbjct: 425 LYPLPEDDEDYVEE 438


>gi|224532423|ref|ZP_03673051.1| transcription elongation protein NusA [Borrelia burgdorferi
           WI91-23]
 gi|224512646|gb|EEF83019.1| transcription elongation protein NusA [Borrelia burgdorferi
           WI91-23]
          Length = 336

 Score =  339 bits (870), Expect = 7e-91,   Method: Composition-based stats.
 Identities = 115/327 (35%), Positives = 203/327 (62%), Gaps = 3/327 (0%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENY 75
           +A ++ +  D +   + +S+  A +  +G+  +  ++ + +TGD+S++   ++V+EV++ 
Sbjct: 12  IANDRGMSIDSIRKTIKESVLIAYKKYFGSNENAFIKFDDDTGDLSVYAKKKIVKEVKDS 71

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
             +I  K     +  I  G      + P  F R+++Q AKQ     ++  E +    EFK
Sbjct: 72  LLEILEKDISKEN--IVEGDYAYIEINPKVFDRLSIQVAKQRTKNDLQGIEDNEILSEFK 129

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
            K+ +++ G V++   G++ V+LGN+DG+I +     RE     D+++  +Y+V++ + G
Sbjct: 130 SKLNKVVIGYVQQNRNGDLYVNLGNTDGIIPKKYQSPREVYNLNDKIRVLVYNVKKGKNG 189

Query: 196 PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACV 255
            +V+LSRTHP+F+ +L  +E+PEI  GI+++  + RDPG R K+AV+S    IDPVG C+
Sbjct: 190 IEVILSRTHPKFIEELLALEIPEIEEGIIKIHKIVRDPGYRIKVAVYSEKEEIDPVGPCI 249

Query: 256 GMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPK 314
           G +G R+Q+++ EL  EKIDI+ +S D   F+ ++L P+ +  V +LDED+ +  V+V  
Sbjct: 250 GQKGVRIQSIIKELEGEKIDIIPYSKDIKEFIKDSLTPSKIEHVYILDEDLHKALVVVSD 309

Query: 315 EQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +QLSLAIG+ GQNVRLA++L  W ID+
Sbjct: 310 DQLSLAIGKMGQNVRLANRLLDWAIDV 336


>gi|320528334|ref|ZP_08029496.1| transcription termination factor NusA [Solobacterium moorei F0204]
 gi|320131248|gb|EFW23816.1| transcription termination factor NusA [Solobacterium moorei F0204]
          Length = 581

 Score =  338 bits (869), Expect = 9e-91,   Method: Composition-based stats.
 Identities = 134/361 (37%), Positives = 211/361 (58%), Gaps = 3/361 (0%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG-TMSDIRVEINPETGDISLFRLLE 67
           LL     V  +K++  ++VL  + +++ KA +        +++ EIN ++  I +++   
Sbjct: 8   LLNAIRGVEDDKNVPENIVLEALTEAVAKAFKKDSELQDIEVKAEINKKSKTIDIYQYYN 67

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEVE+   +ISL+ A+  D + ++GG V +        R A   AK V  QK+REAE+
Sbjct: 68  VVEEVEDDELEISLEDAKKLDSNAELGGQVREKKEITSMSRAAASLAKNVFRQKIREAEK 127

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y E+ D+  E++ GTV+ V+    ++ LG +  ++ +   I  E L  G  ++  I 
Sbjct: 128 VAVYNEYIDQKDEMVIGTVESVKDKFTLISLGKTVALLSKSAEIPHEKLTEGQSIRVVIT 187

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           DV++E +G QVL+SR     + +LF  EVPEIY G+V++K+++R+ G R K+AV S +  
Sbjct: 188 DVQKETKGSQVLVSRADATLVKRLFEKEVPEIYQGVVEIKSIAREAGERTKMAVLSHNPD 247

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DP+G+C+G RGSRVQ ++ EL  EKIDI  W+ D    V NAL PA +  V+  +D   
Sbjct: 248 VDPIGSCIGPRGSRVQKIIDELHGEKIDIFQWNDDITELVKNALAPAEIISVLPGQDDNS 307

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT--EEEDSINRQKDFNERTQFFMQA 365
           + VIV ++QLSLAIG+RG+N RLA +LTG  IDI T  E ED      +   + +   Q 
Sbjct: 308 LLVIVSEDQLSLAIGKRGKNARLAVKLTGHKIDIKTRQELEDMGKDYDELLAQAEVMKQK 367

Query: 366 I 366
           +
Sbjct: 368 L 368


>gi|227549050|ref|ZP_03979099.1| transcription elongation factor NusA [Corynebacterium
           lipophiloflavum DSM 44291]
 gi|227078904|gb|EEI16867.1| transcription elongation factor NusA [Corynebacterium
           lipophiloflavum DSM 44291]
          Length = 341

 Score =  338 bits (867), Expect = 2e-90,   Method: Composition-based stats.
 Identities = 126/348 (36%), Positives = 195/348 (56%), Gaps = 37/348 (10%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMS-----DIRVEINPETGDISLFR 64
           L    A++ E  ID D +L  +A ++    R  Y           RVEI+ +TGD+S+  
Sbjct: 5   LNALKAISTEHGIDVDDLLETIAGALLSVYR-DYREAPPAEGHRARVEIDADTGDVSVL- 62

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
               V EV++    +S                      P++F R+   +    I ++VRE
Sbjct: 63  ----VSEVDDDGAVVS-----------------EYDDTPVNFSRIGAPTVLDAIKKRVRE 101

Query: 125 AERDRQYLEFKDKVGEIISGTVKR----VEYGNVIVDLGN----SDGVIRRDETISRENL 176
           AE  R + E+ +  G+++SG V+R       G ++V+LG      DG++   E I  E L
Sbjct: 102 AEAGRVFSEYSEFEGQVVSGVVQRDANAEARGLIVVELGTEADPQDGILLPAEQIPGEKL 161

Query: 177 RPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
           + GDR+K+++  V + +R  QV LSRTHP+ +  LF +EVPE+ +G V++ A++R+ G R
Sbjct: 162 KHGDRIKAFVVGVNKGERKVQVNLSRTHPELVRGLFALEVPEVADGTVEIVAIAREAGHR 221

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           +K+AV +    ++  GAC+G RG+RV  ++ +L  EKIDI+ +S D A +V N+L P+ V
Sbjct: 222 SKVAVQAKVKGVNAKGACIGPRGARVTNIMQQLGGEKIDIIEYSADPAKYVGNSLAPSKV 281

Query: 297 TKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
            +V VLD +     V VP  QLSLAIG+ GQN RLA++LTGW IDI +
Sbjct: 282 VRVEVLDLEGQAARVTVPDYQLSLAIGKEGQNARLAARLTGWKIDIHS 329


>gi|33862048|ref|NP_893609.1| transcription elongation factor NusA [Prochlorococcus marinus
           subsp. pastoris str. CCMP1986]
 gi|33634266|emb|CAE19951.1| N utilization substance protein A [Prochlorococcus marinus subsp.
           pastoris str. CCMP1986]
          Length = 467

 Score =  338 bits (867), Expect = 2e-90,   Method: Composition-based stats.
 Identities = 124/378 (32%), Positives = 195/378 (51%), Gaps = 31/378 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL------------YGTM--SDIRVEIN 54
           L  + + ++ EK +   VV   + +++ K                 +     S+  V  +
Sbjct: 9   LNNLIEDISEEKKLPPHVVELALREALLKGYEKYRKTFYIGVKEDPFDEEYFSNFDVGFD 68

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQ 112
            +     +     +VE VE+   QISL+  +       IG  V   + P   DFGR+A  
Sbjct: 69  LDEEGYRILSSKIIVENVESEDHQISLQEVKQVADDAQIGDTVVLDVTPEKEDFGRMAAS 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIR 166
           + KQV+ QK+R+ +R     EF D    +++  V R E  +VI+ + +       +  + 
Sbjct: 129 TTKQVLAQKLRDQQRKMIQEEFADLEDPVLTARVIRFERQSVIMGVSSGIGRPEVEAELP 188

Query: 167 RDETISRENLRPGDRVKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           + + +  +N R     K ++ +V    ++GPQ+ +SR +   +V LF  EVPEI  G V+
Sbjct: 189 KRDQLPNDNYRANATFKVFLKEVSEVARKGPQLFVSRANAGLVVYLFENEVPEIQEGTVK 248

Query: 226 VKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           + AVSR+        G R K+AV S +  +DPVGAC+G RG+R+Q VV ELR EKID++ 
Sbjct: 249 IVAVSREANPPSRAVGPRTKVAVDSIEREVDPVGACIGARGARIQQVVNELRGEKIDVIK 308

Query: 279 WSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           WS D   +++N+L PA V  V ++D +     V+VP +QLSLAIGR GQNVRLA++LTGW
Sbjct: 309 WSSDPIQYILNSLSPAKVDLVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGW 368

Query: 338 TIDIITEEEDSINRQKDF 355
            ID+    E     +   
Sbjct: 369 KIDVKNSYEYDQETEDSA 386


>gi|237785727|ref|YP_002906432.1| transcription elongation factor NusA [Corynebacterium
           kroppenstedtii DSM 44385]
 gi|237758639|gb|ACR17889.1| N utilization substance protein A [Corynebacterium kroppenstedtii
           DSM 44385]
          Length = 328

 Score =  337 bits (864), Expect = 3e-90,   Method: Composition-based stats.
 Identities = 120/346 (34%), Positives = 197/346 (56%), Gaps = 31/346 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           L    A+  E+ +  + + + +A ++ +A     G  S+ RV+++P+ G +++     +V
Sbjct: 5   LSTLRAIERERGVSVEDMTATIAKALLEAWEKSSGGDSEARVDVDPDDGHVAV-----IV 59

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
            E ++    I+                      P DFGR    + ++ ++ +++EAE D+
Sbjct: 60  TERDDEGNVIA-----------------EVDETPSDFGRSFAGTVREAMVARLQEAEADQ 102

Query: 130 QYLEFKDKVGEIISGTVKRVE----YGNVIVDLG----NSDGVIRRDETISRENLRPGDR 181
            Y E+     ++++G V+        G VI  LG     +DG +   E I  E    G R
Sbjct: 103 TYEEYASLTSKVVTGIVEADSFARAKGIVIARLGTEAHGNDGTLLPAEQIPGEKYPHGKR 162

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+ +V R  RG Q+++SRTHP+F+ +LF +EVPE+ +G V+V +++R+ G R+K+AV
Sbjct: 163 LKFYVVNVNRGPRGVQIMISRTHPEFVHRLFELEVPEVADGSVEVVSIAREAGHRSKVAV 222

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            S+   ++  G+C+G RG RV+A++ EL  EKIDI+ +  D ATFV N+L P+ V KV V
Sbjct: 223 RSTIDGVNAKGSCIGPRGQRVRAIMDELGGEKIDIIDFDEDPATFVGNSLAPSKVLKVEV 282

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           +D +     V VP  QLSLAIG+ GQN RLA++LTGW IDI ++ E
Sbjct: 283 VDPEEQVARVTVPDYQLSLAIGKEGQNARLAARLTGWRIDIHSDTE 328


>gi|116073742|ref|ZP_01471004.1| transcription elongation factor NusA [Synechococcus sp. RS9916]
 gi|116069047|gb|EAU74799.1| transcription elongation factor NusA [Synechococcus sp. RS9916]
          Length = 493

 Score =  337 bits (864), Expect = 4e-90,   Method: Composition-based stats.
 Identities = 126/372 (33%), Positives = 194/372 (52%), Gaps = 31/372 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL------------YGTM--SDIRVEIN 54
           L  + + ++ EK +   VV S + +++ K                 +     S+  V ++
Sbjct: 9   LSNLIEDISEEKKLPPQVVESALREALLKGYERYRKTLYLGINDDPFDEEYFSNFDVALD 68

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQ 112
            +     +     +VEEVE+   QI+L           +G  V   + P   +FGR+A  
Sbjct: 69  LDEEGYRVLASKIIVEEVESDDHQIALAEVMQVADDAQVGDTVVLDVTPEKEEFGRMAAA 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIR 166
           + KQV+ QK+R+ +R     EF D    +++  V R E  +VI+ + +       +  + 
Sbjct: 129 TTKQVLAQKLRDQQRRMIQEEFADLEDPVLTARVIRFERQSVIMAVSSGLGRPEVEAELP 188

Query: 167 RDETISRENLRPGDRVKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           R + +  +N R     K ++ +V    +RGPQ+ +SR +   +V LF  EVPEI  G V+
Sbjct: 189 RRDQLPNDNYRANATFKVFLKEVSEVPRRGPQLFVSRANAGLVVYLFENEVPEIQEGSVR 248

Query: 226 VKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           + AV+R+        G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++ 
Sbjct: 249 IVAVAREANPPSRSVGPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEKIDVIR 308

Query: 279 WSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           WS D   ++ N+L PA V  V ++D       V+VP +QLSLAIGR GQNVRLA++LTGW
Sbjct: 309 WSQDPGQYIANSLSPARVEMVRLVDPVGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGW 368

Query: 338 TIDIITEEEDSI 349
            IDI   +E   
Sbjct: 369 KIDIKNSQEYDQ 380


>gi|124026598|ref|YP_001015713.1| transcription elongation factor NusA [Prochlorococcus marinus str.
           NATL1A]
 gi|123961666|gb|ABM76449.1| N utilization substance protein A [Prochlorococcus marinus str.
           NATL1A]
          Length = 497

 Score =  337 bits (864), Expect = 4e-90,   Method: Composition-based stats.
 Identities = 136/432 (31%), Positives = 217/432 (50%), Gaps = 34/432 (7%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL------------YGTM--SDIRVEIN 54
           L  + + ++ EK +   VV + + +++ K                 +     S+  V ++
Sbjct: 9   LNNLIEDISEEKKLPSQVVEAALREALLKGYERYRRTLYLGISEDPFEEDYFSNFDVGLD 68

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQ 112
            E     +     +VEEVE+   QI++           +G  V   + P   DFGR+A  
Sbjct: 69  LEEEGYRVLASKIIVEEVESDDHQIAIAEVMQVADDAQVGDTVVLDVTPEKEDFGRMAAA 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIR 166
           + KQV+ QK+R+ +R     EF D    +++  V R E  +VI+ + +       +  + 
Sbjct: 129 TTKQVLAQKLRDQQRRMIQEEFADLEDPVLTARVIRFERQSVIMAVSSGLGRPEVEAELP 188

Query: 167 RDETISRENLRPGDRVKSYIYDVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           R + +  +N R     K ++ +V    R GPQ+ +SR++   +V LF  EVPEI  G V+
Sbjct: 189 RRDQLPNDNYRANATFKVFLKEVSETPRRGPQLFVSRSNAGLVVYLFENEVPEIQEGSVR 248

Query: 226 VKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           + AV+R+        G R K+AV S +  +DPVGAC+G RG+R+Q VV ELR EKID++ 
Sbjct: 249 IVAVAREANPPSRAVGPRTKVAVDSIEREVDPVGACIGARGARIQQVVNELRGEKIDVIR 308

Query: 279 WSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           WS D   ++ N+L PA V  V ++D +     V+VP +QLSLAIGR GQNVRLA++LTGW
Sbjct: 309 WSSDPVQYICNSLSPARVEVVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGW 368

Query: 338 TIDII-TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIA 396
            IDI  ++E D      +  E      +  ++       L AE  A  EE    ++ E+ 
Sbjct: 369 KIDIKNSQEYDQATEDSEVAELISQREEEESLQREAEKRLEAEQTARAEE--DARLRELY 426

Query: 397 SIEGFDEETAVE 408
            +   +E+   E
Sbjct: 427 PLPEDEEDFQNE 438


>gi|254479107|ref|ZP_05092459.1| transcription termination factor NusA [Carboxydibrachium pacificum
           DSM 12653]
 gi|214034956|gb|EEB75678.1| transcription termination factor NusA [Carboxydibrachium pacificum
           DSM 12653]
          Length = 227

 Score =  336 bits (863), Expect = 5e-90,   Method: Composition-based stats.
 Identities = 113/223 (50%), Positives = 156/223 (69%), Gaps = 1/223 (0%)

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           EAER+  Y EF  K  E+++G V R    NV+++LG  + ++   E I  E   PGDR+K
Sbjct: 1   EAERNVIYEEFLAKETEVVTGIVTRAAKNNVLINLGRVEAILTPSEQIPGETFSPGDRIK 60

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            YI +V++  +GPQ+++SR+HP  + +LF +E PEI  GIV++++++R+PGSR K+AVFS
Sbjct: 61  VYIVEVKKTTKGPQIIISRSHPGLVKRLFELESPEIQQGIVEIRSIAREPGSRTKMAVFS 120

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLD 302
            D ++DP+GACVG +GSRVQAVV EL+ EKIDIV WS     F++NAL PA    V ++D
Sbjct: 121 RDPNVDPIGACVGYKGSRVQAVVNELKGEKIDIVKWSSKPQEFIMNALSPAKAISVEIVD 180

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           E      VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E 
Sbjct: 181 EKEKVARVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSES 223


>gi|72382861|ref|YP_292216.1| transcription elongation factor NusA [Prochlorococcus marinus str.
           NATL2A]
 gi|72002711|gb|AAZ58513.1| transcription termination factor NusA [Prochlorococcus marinus str.
           NATL2A]
          Length = 497

 Score =  336 bits (863), Expect = 5e-90,   Method: Composition-based stats.
 Identities = 135/432 (31%), Positives = 217/432 (50%), Gaps = 34/432 (7%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL------------YGTM--SDIRVEIN 54
           L  + + ++ EK +   VV + + +++ K                 +     S+  V ++
Sbjct: 9   LNNLIEDISEEKKLPSQVVEAALREALLKGYERYRRTLYLGISEDPFEEDYFSNFDVGLD 68

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQ 112
            E     +     +VE+VE+   QI++           +G  V   + P   DFGR+A  
Sbjct: 69  LEEEGYRVLASKIIVEDVESDDHQIAIAEVMQVADDAQVGDTVVLDVTPEKEDFGRMAAA 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIR 166
           + KQV+ QK+R+ +R     EF D    +++  V R E  +VI+ + +       +  + 
Sbjct: 129 TTKQVLAQKLRDQQRRMIQEEFADLEDPVLTARVIRFERQSVIMAVSSGLGRPEVEAELP 188

Query: 167 RDETISRENLRPGDRVKSYIYDVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           R + +  +N R     K ++ +V    R GPQ+ +SR++   +V LF  EVPEI  G V+
Sbjct: 189 RRDQLPNDNYRANATFKVFLKEVSETPRRGPQLFVSRSNAGLVVYLFENEVPEIQEGSVR 248

Query: 226 VKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           + AV+R+        G R K+AV S +  +DPVGAC+G RG+R+Q VV ELR EKID++ 
Sbjct: 249 IVAVAREANPPSRAVGPRTKVAVDSIEREVDPVGACIGARGARIQQVVNELRGEKIDVIR 308

Query: 279 WSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           WS D   ++ N+L PA V  V ++D +     V+VP +QLSLAIGR GQNVRLA++LTGW
Sbjct: 309 WSSDPVQYICNSLSPARVEVVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGW 368

Query: 338 TIDII-TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIA 396
            IDI  ++E D      +  E      +  ++       L AE  A  EE    ++ E+ 
Sbjct: 369 KIDIKNSQEYDQATEDSEVAELISQREEEESLQREAEKRLEAEQTARAEE--DARLRELY 426

Query: 397 SIEGFDEETAVE 408
            +   +E+   E
Sbjct: 427 PLPEDEEDFQNE 438


>gi|23336297|ref|ZP_00121520.1| COG0195: Transcription elongation factor [Bifidobacterium longum
           DJO10A]
          Length = 310

 Score =  335 bits (859), Expect = 1e-89,   Method: Composition-based stats.
 Identities = 111/298 (37%), Positives = 179/298 (60%), Gaps = 17/298 (5%)

Query: 52  EINPETGDISLFRLLEV-VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVA 110
           E++  +G+ +++   E+ VE  E+              P   +G    D   P DFGR+A
Sbjct: 2   ELDERSGNFTVWAADEIPVEPTEDNPY-----------PVPKLGEEYDD--TPRDFGRLA 48

Query: 111 VQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR--VEYGNVIVDLGNSDGVIRRD 168
             +A+QVI Q  R AE ++ +  F  + G++I+G +++   +  NV V +G+ + ++ R 
Sbjct: 49  AATARQVITQLFRRAEDEKVFGSFSGQKGKLITGIIQQDASDPSNVHVAMGDVEAILPRR 108

Query: 169 ETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKA 228
           E +  E  R G+R++ Y+ +V R  +GP++++SR+HP+ + KLF  EVPE+ +G V + A
Sbjct: 109 EQVPGERYRHGERIRVYVVNVARGIKGPEIVVSRSHPELVRKLFEREVPELVSGAVSIMA 168

Query: 229 VSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVI 288
           ++R+ G+R K+AV ++   ++P GA +G  G+RV+AV+  L  EKIDIV +S D A FV 
Sbjct: 169 IAREAGARTKIAVKANTDGVNPKGALIGPGGARVRAVMENLGPEKIDIVDYSDDPAKFVA 228

Query: 289 NALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
            AL PA+ T V V+ E        +  +QLSLAIG+ GQN RLA++LTGW I I + E
Sbjct: 229 AALSPAVATGVQVISEKNKTAIAFIHDDQLSLAIGKEGQNARLAAKLTGWKIGIESAE 286


>gi|170077376|ref|YP_001734014.1| transcription elongation factor NusA [Synechococcus sp. PCC 7002]
 gi|169885045|gb|ACA98758.1| transcription termination factor NusA [Synechococcus sp. PCC 7002]
          Length = 420

 Score =  334 bits (858), Expect = 2e-89,   Method: Composition-based stats.
 Identities = 130/381 (34%), Positives = 203/381 (53%), Gaps = 30/381 (7%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL-------------YGTMSDIRVEINP 55
           L  + + ++   ++ +  V   + +++ K                       +  VE++ 
Sbjct: 9   LSALVEEISDRHNLPQSAVHEALREALLKGYERYRRSLTLNQATPFAEDYFDNFEVELDL 68

Query: 56  ETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQS 113
           E     +     +VEEVEN   QI+L+  ++      +G  V   + P   DFGR+A   
Sbjct: 69  EDEGFRVLATKVIVEEVENSDHQIALQEVQEVANEAQLGDSVILDVTPEQSDFGRMAAIQ 128

Query: 114 AKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIRR 167
            KQV++QK+R+ +R     EF++  GE++   V R E   V++ + +      ++  + R
Sbjct: 129 TKQVLLQKLRDQQRKLVQEEFQELEGEVLQARVLRFERNFVVMAVTSAFGQPETEAELPR 188

Query: 168 DETISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
            E +  +N R     K Y+  V+    RGPQ+++SR     +V LF  EVPEI   IV++
Sbjct: 189 REQLPNDNYRANTTYKVYLKHVKEGSHRGPQLVVSRAAADLVVYLFANEVPEIEEEIVRI 248

Query: 227 KAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVW 279
            AV+R+        G R K+AV + +  +DPVGAC+G RGSR+QAVV ELR EKID++ W
Sbjct: 249 VAVAREANPPGRYVGPRTKIAVDTLERDVDPVGACIGARGSRIQAVVNELRGEKIDVIRW 308

Query: 280 SPDSATFVINALRPAIVTKVV-LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
           SPD AT++ NAL PA V  V+ +D +  +  V+VP+ QLSLAIG+ GQNVRLA++LTGW 
Sbjct: 309 SPDPATYIANALSPARVDGVILVDAEERQATVLVPENQLSLAIGKEGQNVRLAARLTGWK 368

Query: 339 IDIITEEEDSINRQKDFNERT 359
           IDI    +    +     + T
Sbjct: 369 IDIKDSAKYEAEQAALAEQET 389


>gi|113954345|ref|YP_731568.1| transcription elongation factor NusA [Synechococcus sp. CC9311]
 gi|113881696|gb|ABI46654.1| transcription termination factor NusA [Synechococcus sp. CC9311]
          Length = 501

 Score =  333 bits (856), Expect = 3e-89,   Method: Composition-based stats.
 Identities = 124/373 (33%), Positives = 194/373 (52%), Gaps = 31/373 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL------------YGTM--SDIRVEIN 54
           L  + + ++ EK +   VV + + +++ K                 +     S+  V ++
Sbjct: 9   LSNLIEDISEEKKLAPQVVEAALREALLKGYERYRRTLYLGISEDPFDEEYFSNFDVALD 68

Query: 55  PETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQ 112
            +     +     +V+EVE+   QI+L            G  V   + P   DFGR+A  
Sbjct: 69  LDEEGYRVLASKIIVDEVESEDHQIALAEVMQVAEDAQAGDTVVLDVTPEKEDFGRMAAA 128

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIR 166
           + KQV+ QK+R+ +R     EF D    +++  V R E  ++I+ + +       +  + 
Sbjct: 129 TTKQVLAQKLRDQQRRMIQEEFADLEDPVLTARVIRFERQSIIMAVSSGLGRPEVEAELP 188

Query: 167 RDETISRENLRPGDRVKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           R + +  +N R     K ++ +V    +RGPQ+ +SR +   +V LF  EVPEI  G V+
Sbjct: 189 RRDQLPNDNYRANATFKVFLKEVSEVPRRGPQLFVSRANAGLVVYLFENEVPEIQEGSVR 248

Query: 226 VKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVV 278
           + AV+R+        G R K+AV S +  +DPVGAC+G RGSR+Q VV ELR EKID++ 
Sbjct: 249 IVAVAREANPPSRAVGPRTKVAVDSIEREVDPVGACIGARGSRIQQVVNELRGEKIDVIR 308

Query: 279 WSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           WS D + ++ N+L PA V  V ++D +     V+VP +QLSLAIGR GQNVRLA++LTGW
Sbjct: 309 WSQDPSQYIANSLSPARVEVVRLVDPEGQHAHVLVPPDQLSLAIGREGQNVRLAARLTGW 368

Query: 338 TIDIITEEEDSIN 350
            IDI    E    
Sbjct: 369 KIDIKNSTEYDQT 381


>gi|254992770|ref|ZP_05274960.1| transcription elongation factor NusA [Listeria monocytogenes FSL
           J2-064]
          Length = 251

 Score =  333 bits (854), Expect = 5e-89,   Method: Composition-based stats.
 Identities = 106/220 (48%), Positives = 155/220 (70%)

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y
Sbjct: 1   ERGIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVY 60

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           +  V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++++
Sbjct: 61  LTKVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTAN 120

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
             +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V+++E  
Sbjct: 121 EEVDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIVNEAD 180

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
               VIVP  QLSLAIG+RGQN RLA++LTGW IDI +E 
Sbjct: 181 QATTVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSET 220


>gi|218439319|ref|YP_002377648.1| transcription elongation factor NusA [Cyanothece sp. PCC 7424]
 gi|218172047|gb|ACK70780.1| NusA antitermination factor [Cyanothece sp. PCC 7424]
          Length = 405

 Score =  333 bits (854), Expect = 6e-89,   Method: Composition-based stats.
 Identities = 129/371 (34%), Positives = 202/371 (54%), Gaps = 29/371 (7%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAA----------RSLYGTM--SD 48
           M   N   L  + D ++   ++ +  V   + +++ K            ++ +      +
Sbjct: 1   MTIVNLPGLKNMIDEISQRHNLPKSAVHEALREALLKGYERYRRAQSLEKNQFHDDYFEN 60

Query: 49  IRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPP--MDF 106
             VE++ E     +    ++VE V N    ISLK  ++      +G  V   + P   +F
Sbjct: 61  FDVELDTEEEGFRILSTKKIVEAVSNTDHHISLKEVQEVVSEAQLGDEVVLDVTPDQKEF 120

Query: 107 GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS----- 161
           GR+A    KQV++QK+R+ +R     EF+D    +++  V R E   VI+ + ++     
Sbjct: 121 GRMAAIQTKQVLLQKLRDQQRKLIQEEFQDLESTVLTARVLRFERQAVIMAVQSAFGQPE 180

Query: 162 -DGVIRRDETISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEI 219
            +  + + E +  +N R     K  +  VR    RGPQ+++SR     +V LF  EVPEI
Sbjct: 181 VEAELPKREQLPNDNYRANATFKVLLKKVREGSHRGPQLIVSRAAAGLVVYLFANEVPEI 240

Query: 220 YNGIVQVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDE 272
              +V++ AVSR+        GSR K+AV + +  +DPVGAC+G RGSR+QAVV ELR E
Sbjct: 241 EEEVVRIVAVSREANPPSRYVGSRTKIAVDTLERDVDPVGACIGARGSRIQAVVNELRGE 300

Query: 273 KIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLA 331
           KID++ WSPD +T++ NAL PA V +V+L + D  +  V+V ++QLSLAIG+ GQNVRLA
Sbjct: 301 KIDVIRWSPDPSTYIANALSPARVDEVILTNPDERQALVLVAEDQLSLAIGKEGQNVRLA 360

Query: 332 SQLTGWTIDII 342
           ++LTGW IDI 
Sbjct: 361 ARLTGWKIDIK 371


>gi|306836351|ref|ZP_07469329.1| transcription termination factor NusA [Corynebacterium accolens
           ATCC 49726]
 gi|304567711|gb|EFM43298.1| transcription termination factor NusA [Corynebacterium accolens
           ATCC 49726]
          Length = 338

 Score =  332 bits (853), Expect = 8e-89,   Method: Composition-based stats.
 Identities = 121/355 (34%), Positives = 198/355 (55%), Gaps = 37/355 (10%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD-------IRVEINPETGDISL 62
           L+    +  E+ +  + +L  +A ++  +      + ++        RV+I+  TG +S+
Sbjct: 5   LEALRTIESERQVPVNDLLEAIASALLYSYLDYRESTAEGKAEGTKFRVDIDTTTGAVSV 64

Query: 63  FRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
                +V E +  T +++ +                    P +FGRV  ++ ++ I++K+
Sbjct: 65  -----IVTERDPETGEVTSE----------------YDDTPDNFGRVGARAVREAILRKL 103

Query: 123 REAERDRQYLEFKDKVGEIISGTVKR----VEYGNVIVDLGN----SDGVIRRDETISRE 174
           REAE +R +  + +  G ++SG V+R       G V+V LG+     DG++   E I  E
Sbjct: 104 REAEAERTFDSYSELSGRVVSGIVQRDAHANARGIVVVQLGSELESQDGILLPAEQIPGE 163

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
            L+ GDR+K+Y+  V R     Q+ LSRTHP+ +  LF +EVPE+ +G V++ A++R+ G
Sbjct: 164 KLQHGDRIKAYVVGVNRNGANVQINLSRTHPELVRGLFELEVPEVADGSVEMIAIAREAG 223

Query: 235 SRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA 294
            R+K+AV      ++  GAC+G RG RV  ++ +L  EKIDI+ +S D   +V NAL P+
Sbjct: 224 HRSKVAVIGHAKGLNAKGACIGPRGQRVNNIMRQLGGEKIDIIDYSEDPTVYVGNALAPS 283

Query: 295 IVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
            V KV VLD +     VIVP  QLSLAIG+ GQN RLA++LTGW IDI ++ + +
Sbjct: 284 KVIKVTVLDSEEQVARVIVPDYQLSLAIGKEGQNARLAARLTGWKIDIHSDADAN 338


>gi|307155148|ref|YP_003890532.1| NusA antitermination factor [Cyanothece sp. PCC 7822]
 gi|306985376|gb|ADN17257.1| NusA antitermination factor [Cyanothece sp. PCC 7822]
          Length = 396

 Score =  332 bits (852), Expect = 9e-89,   Method: Composition-based stats.
 Identities = 130/398 (32%), Positives = 210/398 (52%), Gaps = 31/398 (7%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAA----------RSLYGTM--SD 48
           M   N   L  + + ++   ++ +  V   + +++ K            ++ +      +
Sbjct: 1   MSIVNLPGLKNMIEEISQRHNLPKSAVNEALREALLKGYERYRRAQSMEKNQFHDDYFEN 60

Query: 49  IRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPP--MDF 106
             VE++ E     +    ++VE V N    ISL+  +       +G  V   + P   +F
Sbjct: 61  FDVELDTEEEGFRILSTKKIVESVTNSDHHISLEEVQAVVSEAQLGDEVVLDVTPDQKEF 120

Query: 107 GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS----- 161
           GR+A    KQV++QK+R+ +R     EF+D  G +++  V R E   VI+ + ++     
Sbjct: 121 GRMAAIQTKQVLLQKLRDQQRKLIQEEFQDVEGTVLNARVLRFERQAVIMAVQSTFGQPE 180

Query: 162 -DGVIRRDETISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEI 219
            +  + + E +  +N R     K  +  VR    RGPQ+++SR     +V LF  EVPEI
Sbjct: 181 VEAELPKREQLPNDNYRANATFKVLLKKVREGSHRGPQLIVSRAAAGLVVYLFANEVPEI 240

Query: 220 YNGIVQVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDE 272
              +V++ AVSR+        GSR K+AV + +  +DPVGAC+G RGSR+QAVV ELR E
Sbjct: 241 EEEVVRIVAVSREANPPSRYVGSRTKIAVDTLERDVDPVGACIGARGSRIQAVVNELRGE 300

Query: 273 KIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLA 331
           KID++ WSPD AT++ NAL PA V +V+L + D  +  ++V ++QLSLAIG+ GQNVRLA
Sbjct: 301 KIDVIRWSPDPATYIANALSPARVDEVILTNPDERQALILVAEDQLSLAIGKEGQNVRLA 360

Query: 332 SQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVD 369
           ++LTGW IDI   +      +K+  +      + + V 
Sbjct: 361 ARLTGWKIDIK--DRALYKAEKEKQQPQDLVQEEVEVT 396


>gi|255325207|ref|ZP_05366313.1| transcription termination factor NusA [Corynebacterium
           tuberculostearicum SK141]
 gi|255297772|gb|EET77083.1| transcription termination factor NusA [Corynebacterium
           tuberculostearicum SK141]
          Length = 338

 Score =  332 bits (852), Expect = 1e-88,   Method: Composition-based stats.
 Identities = 124/357 (34%), Positives = 197/357 (55%), Gaps = 41/357 (11%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAAR---------SLYGTMSDIRVEINPETGDI 60
           LQ    +  E+++    +L  +A ++  +            + G  S  RV+I+  TG +
Sbjct: 5   LQALRTIESERNVPVKDLLEAIAGALLYSYLDYRESNAGGKVEGAKS--RVDIDATTGAV 62

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           S+     +V E +  T +++ +                    P +FGRV  Q+ ++ I++
Sbjct: 63  SV-----IVSERDPETGEVTTE----------------YDDTPENFGRVGAQAVREAILR 101

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETIS 172
           K+REAE +R Y  + +  G ++SG V+R    N    V+V LG+     DG++   E I 
Sbjct: 102 KLREAEAERTYDSYSELTGRVVSGIVQRDARANARGIVVVQLGSELESQDGILLPAEQIP 161

Query: 173 RENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRD 232
            E L  GDR+K+Y+  V R     Q+ LSRTHP+ +  LF +EVPE+ +G V++ A++R+
Sbjct: 162 GEKLEHGDRIKAYVVGVNRNGAQVQINLSRTHPELVRGLFELEVPEVADGSVEMIAIARE 221

Query: 233 PGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALR 292
            G R+K+AV      ++  GAC+G RG RV  ++ +L  EKIDI+ +S D   +V NAL 
Sbjct: 222 AGHRSKVAVVGHAKGLNAKGACIGPRGQRVNNIMRQLGGEKIDIIDFSEDPTVYVGNALA 281

Query: 293 PAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           P+ V KV V+D +     V+VP  QLSLAIG+ GQN RLA++LTGW IDI ++ + +
Sbjct: 282 PSKVVKVTVVDNEAQIARVVVPDYQLSLAIGKEGQNARLAARLTGWKIDIHSDADAN 338


>gi|19553191|ref|NP_601193.1| transcription elongation factor NusA [Corynebacterium glutamicum
           ATCC 13032]
 gi|62390827|ref|YP_226229.1| transcription elongation factor NusA [Corynebacterium glutamicum
           ATCC 13032]
 gi|145295891|ref|YP_001138712.1| transcription elongation factor NusA [Corynebacterium glutamicum R]
 gi|21324757|dbj|BAB99380.1| Transcription terminator [Corynebacterium glutamicum ATCC 13032]
 gi|41326165|emb|CAF20328.1| PUTATIVE TRANSCRIPTIONAL TERMINATION/ANTITERMINATION FACTOR
           [Corynebacterium glutamicum ATCC 13032]
 gi|140845811|dbj|BAF54810.1| hypothetical protein [Corynebacterium glutamicum R]
          Length = 332

 Score =  332 bits (851), Expect = 1e-88,   Method: Composition-based stats.
 Identities = 126/348 (36%), Positives = 194/348 (55%), Gaps = 35/348 (10%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDI----RVEINPETGDISLFRL 65
           +Q   A+  EK I    +L  +A ++  +      T++      RV+I+  TG +++   
Sbjct: 5   VQALKAIESEKGIPVPDLLRTIASALLHSYMDNRETVASANLKPRVDIDSTTGTVNV--- 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +V E                D + ++     D   P +FGRV+ ++ +  I++ +REA
Sbjct: 62  --IVSE---------------FDENGELASEYDD--TPSNFGRVSARAVRDAIVKSLREA 102

Query: 126 ERDRQYLEFKDKVGEIISGTVKRV----EYGNVIVDLG----NSDGVIRRDETISRENLR 177
           E  R +  + D  G ++SG V+      E G +IV LG    N DGV+   E I  E L+
Sbjct: 103 EASRAFDAYADYEGTVVSGIVQADARAAERGIIIVQLGTEADNQDGVLLPAEQIPGEKLK 162

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            GDRVK ++  V +     Q+ LSRTHP+ + +LF +E+PE+ +G V++ A+SR+ G R+
Sbjct: 163 HGDRVKCFVVGVGKGNTDIQINLSRTHPELVRRLFELEIPEVADGSVEIVAISREAGHRS 222

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV +   +++  GAC+G RG RV  ++ EL  EKIDI+ +S D ATFV NAL P+ V 
Sbjct: 223 KVAVQAKVKNLNAKGACIGPRGQRVSNIMRELGGEKIDIIDYSEDPATFVGNALAPSKVV 282

Query: 298 KVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            V + D +     V VP  QLSLAIG+ GQN RLA++LTGW IDI ++
Sbjct: 283 NVEVTDLEAQTARVTVPDYQLSLAIGKEGQNARLAARLTGWKIDIHSD 330


>gi|313665234|ref|YP_004047105.1| transcription termination factor NusA [Mycoplasma leachii PG50]
 gi|312949351|gb|ADR23947.1| transcription termination factor NusA [Mycoplasma leachii PG50]
          Length = 558

 Score =  331 bits (849), Expect = 2e-88,   Method: Composition-based stats.
 Identities = 117/343 (34%), Positives = 208/343 (60%), Gaps = 4/343 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  ELL+    +  EK I ++ +++ + + +QKA    Y T + I+++IN +TG I++ +
Sbjct: 3   NGTELLESIKLIEKEKGISKESIINGLKEGLQKAYERFYDTDAIIKIDINEKTGSITMHQ 62

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLP-PMDFGRVAVQSAKQVIIQKVR 123
            L+VVEE+++   +I+L+ A+ ++P+  IG ++  P+    +F R+ V   +Q+  QK+R
Sbjct: 63  ELKVVEELDDDWLEITLQKAKLQNPNAQIGDIIYKPIEFSEEFSRMVVNQVRQIFQQKIR 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRV 182
           EAER R Y +F    GE++   V  +   N  V D+  +   + +++TI+ E  +  + +
Sbjct: 123 EAERARIYEQFISLEGEVVQAKVVGMNRENNYVLDINGTTAYLWKNKTINNEIFQINEII 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
             YI  V +E +  Q+ +SRT P F+ KL   EVPE+  GIV++KAVSR+PG R+K+AV 
Sbjct: 183 DVYIEVVEKESKLSQIAISRTAPAFLTKLIEREVPEVRMGIVEIKAVSREPGKRSKVAVV 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           + + +++P+GA +G+ G+R+  +   L+ EKID++ WS D  T++INA+ P  V    ++
Sbjct: 243 THNQNVEPIGAIIGVGGNRINRISDILKGEKIDVIRWSDDQITYLINAMTPVKVIS--IN 300

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +     +++VP  QLSLAIG++G   +L + L    I+I +  
Sbjct: 301 KIGDEYDIVVPDSQLSLAIGKQGITAKLIASLLKTKINIFSYS 343


>gi|303233400|ref|ZP_07320069.1| transcription termination factor NusA [Atopobium vaginae
           PB189-T1-4]
 gi|302480529|gb|EFL43620.1| transcription termination factor NusA [Atopobium vaginae
           PB189-T1-4]
          Length = 413

 Score =  331 bits (849), Expect = 2e-88,   Method: Composition-based stats.
 Identities = 116/366 (31%), Positives = 194/366 (53%), Gaps = 36/366 (9%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +++    +  +  +D   ++  +  ++ K    +       RV I+  TG + ++   E+
Sbjct: 5   MVEALIDICKKTHLDELYIIDRLEQTLAKNYADILHLEYGARVTIDRATGKVYVY---EL 61

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           V + E    Q           + +        + P +  R+ VQ  KQ + + +R ++R 
Sbjct: 62  VPKGE-PDEQ-----------TGEYEDFEERDVTPKEASRLVVQHVKQELAEIIRNSQRQ 109

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIR----------RDETISRENLR 177
           + Y EF +++G++I+GTV +      I+ +    +  +           R+E    E   
Sbjct: 110 QIYEEFSNRIGDLITGTVLQTTSDFAIIKIRDGVEAELPYFDPHRYPEERNERPPHEYYV 169

Query: 178 PGDRVKSYIYDVRR----------EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVK 227
              R+ + I DVR           E++ P +++SR   + + +LF +EVPEIY+G+V ++
Sbjct: 170 HNQRLHALIVDVRNPSSTSAPVRGERQRPSIVVSRARRELISRLFELEVPEIYDGVVTIR 229

Query: 228 AVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFV 287
           +V+RD G R+K+AV S D  +DPVGACVG +G+RV+ VV+ELR E++D+V W  D A  V
Sbjct: 230 SVARDAGVRSKIAVSSQDPHLDPVGACVGPKGARVRTVVSELRGERVDVVQWYDDPAQNV 289

Query: 288 INALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
            +AL PA VT+V++DE+     VIVP +QLSLAIG+ GQN RLA+ LTG  IDI  E   
Sbjct: 290 ASALSPATVTRVLVDEEHNHATVIVPDDQLSLAIGKGGQNARLAASLTGMHIDIKNESLA 349

Query: 348 SINRQK 353
           +    +
Sbjct: 350 ADILHE 355


>gi|227503407|ref|ZP_03933456.1| transcription elongation factor NusA [Corynebacterium accolens ATCC
           49725]
 gi|227075910|gb|EEI13873.1| transcription elongation factor NusA [Corynebacterium accolens ATCC
           49725]
          Length = 338

 Score =  331 bits (849), Expect = 2e-88,   Method: Composition-based stats.
 Identities = 124/357 (34%), Positives = 198/357 (55%), Gaps = 41/357 (11%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAAR---------SLYGTMSDIRVEINPETGDI 60
           L+    +  E+ +  + +L  +A ++  +              GT S  RV+I+  TG +
Sbjct: 5   LEALRTIESERQVPVNDLLEAIASALLYSYLDYRESTAEGKAEGTKS--RVDIDTTTGAV 62

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           S+     +V E +  T +++ +                    P +FGRV  ++ ++ I++
Sbjct: 63  SV-----IVTERDPETGEVTSE----------------YDDTPDNFGRVGARAVREAILR 101

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKR----VEYGNVIVDLGN----SDGVIRRDETIS 172
           K+REAE +R +  + +  G ++SG V+R       G V+V LG+     DG++   E I 
Sbjct: 102 KLREAEAERTFDSYSELSGRVVSGIVQRDAHANARGIVVVQLGSELESQDGILLPAEQIP 161

Query: 173 RENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRD 232
            E L+ GDR+K+Y+  V R     Q+ LSRTHP+ +  LF +EVPE+ +G V++ A++R+
Sbjct: 162 GEKLQHGDRIKAYVVGVNRNGANVQINLSRTHPELVRGLFELEVPEVADGSVEMIAIARE 221

Query: 233 PGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALR 292
            G R+K+AV      ++  GAC+G RG RV  ++ +L  EKIDI+ +S D   +V NAL 
Sbjct: 222 AGHRSKVAVIGHAKGLNAKGACIGPRGQRVNNIMRQLGGEKIDIIDYSEDPTVYVGNALA 281

Query: 293 PAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           P+ V KV VLD +     VIVP  QLSLAIG+ GQN RLA++LTGW IDI ++ + +
Sbjct: 282 PSKVIKVTVLDSEEQVARVIVPDYQLSLAIGKEGQNARLAARLTGWKIDIHSDADAN 338


>gi|159027908|emb|CAO89715.1| unnamed protein product [Microcystis aeruginosa PCC 7806]
          Length = 398

 Score =  331 bits (849), Expect = 2e-88,   Method: Composition-based stats.
 Identities = 129/401 (32%), Positives = 213/401 (53%), Gaps = 33/401 (8%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL-----------YGTM--S 47
           M + N   L  + + ++   ++ ++ V   + +++ K                +     +
Sbjct: 1   MATVNLPGLKIMLEEISQRHNLPKNAVQEALREALIKGYERYRRSQSLEKAAQFHEDYFN 60

Query: 48  DIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--D 105
           +  VE++ E     +     +VEEV N    I LK  ++      +G  V   + P   +
Sbjct: 61  NFDVELDVEEEGFRILSTKTIVEEVTNPDHHIGLKEVQEVADEAQLGDEVVLDVTPDQRE 120

Query: 106 FGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS---- 161
           FGR+A    KQV++QK+R+ +R     EF+D  G ++   V R E    IV + ++    
Sbjct: 121 FGRMAAIQTKQVLLQKLRDNQRKLIQEEFQDLEGTVLQARVVRFERQAAIVMVQSTYGQP 180

Query: 162 --DGVIRRDETISRENLRPGDRVKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPE 218
             +  + + E +  +N R     K  +  V    QRGPQ+++SR     +V LF  EVPE
Sbjct: 181 EVEAELPKREQLPNDNYRANATFKVLLKKVLEGSQRGPQLIVSRAAAGLVVYLFANEVPE 240

Query: 219 IYNGIVQVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRD 271
           I   IV++ AV+R+        GSR K+AV + +  +DPVGAC+G RGSR+QAVV ELR 
Sbjct: 241 IEEEIVRIVAVAREANPPSRHVGSRTKIAVDTLERDVDPVGACIGARGSRIQAVVNELRG 300

Query: 272 EKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRL 330
           EKID++ WSPD AT++ NAL PA + +V+  + +  +  V+V ++QLSLAIG+ GQNVRL
Sbjct: 301 EKIDVIRWSPDPATYIANALSPARIDQVLFTNAEERQALVLVAQDQLSLAIGKEGQNVRL 360

Query: 331 ASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEI 371
           A++LTGW IDI    + ++ + +   +  +   +A ++D+ 
Sbjct: 361 AARLTGWKIDIK---DIALYKGEQEVKTDETDPEAQDLDQE 398


>gi|227833356|ref|YP_002835063.1| N utilization substance protein A [Corynebacterium aurimucosum ATCC
           700975]
 gi|262184342|ref|ZP_06043763.1| transcription elongation factor NusA [Corynebacterium aurimucosum
           ATCC 700975]
 gi|227454372|gb|ACP33125.1| N utilization substance protein A [Corynebacterium aurimucosum ATCC
           700975]
          Length = 338

 Score =  330 bits (848), Expect = 3e-88,   Method: Composition-based stats.
 Identities = 120/354 (33%), Positives = 193/354 (54%), Gaps = 41/354 (11%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAAR---------SLYGTMSDIRVEINPETGDI 60
           L+    +  E+ +    +L  +A ++  +              GT S  RV+I+ ++G +
Sbjct: 5   LEALRTIQRERGVPVKDLLEAIAGALLYSYLDHRAESAETKAEGTKS--RVDIDADSGAV 62

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           ++     +V E +  T ++                +      P +FGR+  Q+ +  I++
Sbjct: 63  TV-----IVTESDRETGEV----------------ISEYDDTPDNFGRIGAQAVRDAILR 101

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKR----VEYGNVIVDLG----NSDGVIRRDETIS 172
           K+RE E +R Y  + +  G ++SG V+R       G V+V LG    + D  +   E + 
Sbjct: 102 KLRENEAERTYDSYSELTGTVVSGVVQRDIHANNRGVVVVQLGTEHDSQDAFLLPAEQLP 161

Query: 173 RENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRD 232
            E L  GDRVK+Y+  V R     Q+ LSRTHP+ +  LF +EVPE+ +G V++ A++R+
Sbjct: 162 GEKLEHGDRVKAYVVGVNRNGAKVQITLSRTHPELVRGLFELEVPEVADGAVEIIAIARE 221

Query: 233 PGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALR 292
            G R+K++V      ++  GAC+G +GSRV  V+ EL  EKIDI+ ++ D A +V NAL 
Sbjct: 222 AGHRSKISVRGHAKGLNAKGACIGPKGSRVSNVMRELGGEKIDIIDFNEDPAVYVGNALA 281

Query: 293 PAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           P+ V +V +LDE+    +V VP  QLSLAIG+ GQN RLA++LTGW IDI ++ 
Sbjct: 282 PSKVVRVEILDEEAQVAKVTVPDYQLSLAIGKEGQNARLAARLTGWKIDIHSDA 335


>gi|225021163|ref|ZP_03710355.1| hypothetical protein CORMATOL_01175 [Corynebacterium matruchotii
           ATCC 33806]
 gi|305681535|ref|ZP_07404342.1| transcription termination factor NusA [Corynebacterium matruchotii
           ATCC 14266]
 gi|224946070|gb|EEG27279.1| hypothetical protein CORMATOL_01175 [Corynebacterium matruchotii
           ATCC 33806]
 gi|305659740|gb|EFM49240.1| transcription termination factor NusA [Corynebacterium matruchotii
           ATCC 14266]
          Length = 332

 Score =  330 bits (847), Expect = 3e-88,   Method: Composition-based stats.
 Identities = 117/349 (33%), Positives = 190/349 (54%), Gaps = 35/349 (10%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAAR--SLYGTMSD--IRVEINPETGDISLFRL 65
           +Q   A+  EK I   V+L  +A ++  A R         +   RV+I+  TG +++   
Sbjct: 5   VQALKAIETEKGISVQVLLETIASALMHAYREYKDAPPAPNTQARVDIDIATGAVAV--- 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             ++ E+++        V ++ D              P +F R+   + +  I++++REA
Sbjct: 62  --IISELDDEGN-----VVQEHDD------------TPANFERIGTVAVRDAIVKRLREA 102

Query: 126 ERDRQYLEFKDKVGEIISGTVKR----VEYGNVIVDLG----NSDGVIRRDETISRENLR 177
           E  + Y  + +  G ++SG V+      E G V+V LG      DG++   E I  E L+
Sbjct: 103 ETRQAYDAYSEYEGRVVSGVVQADIHANERGIVVVHLGTEADGQDGILLPAEQIPGEQLK 162

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            GDRVKS++  V        + LSRTHP+ + +LF +E+PE+ +G V++ +++R+ G R+
Sbjct: 163 HGDRVKSFVVGVNHNSHSLSINLSRTHPELVRRLFELEIPEVADGSVEIVSIAREAGHRS 222

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV +    ++  GAC+G RG RV  ++ EL  EKIDI+ +S + A +V NAL P+ V 
Sbjct: 223 KVAVRARVKGLNAKGACIGPRGQRVTNIMKELNGEKIDIIDYSDNPAEYVGNALAPSKVV 282

Query: 298 KV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
            V ++D       V VP  QLSLAIG+ GQN RLA++LTGW IDI ++ 
Sbjct: 283 DVEIIDATAQTARVTVPHYQLSLAIGKEGQNARLAARLTGWKIDIRSDA 331


>gi|166364176|ref|YP_001656449.1| transcription elongation factor NusA [Microcystis aeruginosa
           NIES-843]
 gi|166086549|dbj|BAG01257.1| transcription termination factor [Microcystis aeruginosa NIES-843]
          Length = 398

 Score =  330 bits (847), Expect = 4e-88,   Method: Composition-based stats.
 Identities = 126/372 (33%), Positives = 199/372 (53%), Gaps = 30/372 (8%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL-----------YGTM--S 47
           M + N   L  + + ++   ++ ++ V   + +++ K                +     +
Sbjct: 1   MATVNLPGLKIMLEEISQRHNLPKNAVQEALREALIKGYERYRRAQSLEKAAQFHEDYFN 60

Query: 48  DIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPP--MD 105
           +  VE++ E     +     +VEEV N    I LK  ++      +G  V   + P   +
Sbjct: 61  NFDVELDVEEEGFRILSTKTIVEEVTNPDHHIGLKEVQEVADEAQLGDEVVLDVTPDQKE 120

Query: 106 FGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS---- 161
           FGR+A    KQV++QK+R+ +R     EF+D  G ++   V R E    IV + ++    
Sbjct: 121 FGRMAAIQTKQVLLQKLRDNQRKLIQEEFQDLEGTVLQARVVRFERQAAIVMVQSTYGQP 180

Query: 162 --DGVIRRDETISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPE 218
             +  + + E +  +N R     K  +  V     RGPQ+++SR     +V LF  EVPE
Sbjct: 181 EVEAELPKREQLPNDNYRANATFKVLLKKVLEGSHRGPQLIVSRAAAGLVVYLFANEVPE 240

Query: 219 IYNGIVQVKAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRD 271
           I   IV++ AV+R+        GSR K+AV + +  +DPVGAC+G RGSR+QAVV ELR 
Sbjct: 241 IEEEIVRIVAVAREANPPSRHVGSRTKIAVDTLERDVDPVGACIGARGSRIQAVVNELRG 300

Query: 272 EKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRL 330
           EKID++ WSPD AT++ NAL PA + +V+  + +  +  V+V ++QLSLAIG+ GQNVRL
Sbjct: 301 EKIDVIRWSPDPATYIANALSPARIDQVLFTNAEERQALVLVAQDQLSLAIGKEGQNVRL 360

Query: 331 ASQLTGWTIDII 342
           A++LTGW IDI 
Sbjct: 361 AARLTGWKIDIK 372


>gi|311739681|ref|ZP_07713516.1| transcription termination factor NusA [Corynebacterium
           pseudogenitalium ATCC 33035]
 gi|311305497|gb|EFQ81565.1| transcription termination factor NusA [Corynebacterium
           pseudogenitalium ATCC 33035]
          Length = 338

 Score =  330 bits (847), Expect = 4e-88,   Method: Composition-based stats.
 Identities = 124/357 (34%), Positives = 197/357 (55%), Gaps = 41/357 (11%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAAR---------SLYGTMSDIRVEINPETGDI 60
           LQ    +  E+S+    +L  +A ++  +            + G  S  RV+I+  TG +
Sbjct: 5   LQALRTIESERSVPVKDLLEAIAGALLYSYLDYRESNAGGKVEGAKS--RVDIDATTGAV 62

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           S+     +V E +  T +++ +                    P +FGRV  Q+ ++ I++
Sbjct: 63  SV-----IVSERDPETGEVTTE----------------YDDTPENFGRVGAQAVREAILR 101

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETIS 172
           K+REAE +R +  + +  G ++SG V+R    N    V+V LG+     DG++   E I 
Sbjct: 102 KLREAEAERTFDSYSELTGRVVSGIVQRDARANARGIVVVQLGSELESQDGILLPAEQIP 161

Query: 173 RENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRD 232
            E L  GDR+K+Y+  V R     Q+ LSRTHP+ +  LF +EVPE+ +G V++ A++R+
Sbjct: 162 GEKLEHGDRIKAYVVGVNRNGAQVQINLSRTHPELVRGLFELEVPEVADGSVEMIAIARE 221

Query: 233 PGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALR 292
            G R+K+AV      ++  GAC+G RG RV  ++ +L  EKIDI+ +S D   +V NAL 
Sbjct: 222 AGHRSKVAVVGHAKGLNAKGACIGPRGQRVNNIMRQLGGEKIDIIDFSEDPTVYVGNALA 281

Query: 293 PAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           P+ V KV V+D +     V+VP  QLSLAIG+ GQN RLA++LTGW IDI ++ + +
Sbjct: 282 PSKVVKVTVVDNEAQIARVVVPDYQLSLAIGKEGQNARLAARLTGWKIDIHSDADAN 338


>gi|83319641|ref|YP_424320.1| transcription elongation factor NusA [Mycoplasma capricolum subsp.
           capricolum ATCC 27343]
 gi|83283527|gb|ABC01459.1| transcription elongation protein nusA, putative [Mycoplasma
           capricolum subsp. capricolum ATCC 27343]
          Length = 558

 Score =  330 bits (846), Expect = 5e-88,   Method: Composition-based stats.
 Identities = 116/343 (33%), Positives = 207/343 (60%), Gaps = 4/343 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  ELL+    +  EK I ++ +++ + + +QKA    Y T + I+++IN +TG I++ +
Sbjct: 3   NGTELLESIKLIEKEKGISKESIINGLKEGLQKAYERFYDTDAIIKIDINEKTGSITMHQ 62

Query: 65  LLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLP-PMDFGRVAVQSAKQVIIQKVR 123
            L+VVEE+++   +I+L+ A+ ++P+  IG ++  P+    +F R+ V   +Q+  QK+R
Sbjct: 63  ELKVVEELDDDWLEITLQKAKLQNPNAQIGDIIYKPIEFSEEFSRMVVNQVRQIFQQKIR 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRV 182
           EAER R Y +F    GE++   V  +   N  V D+  +   + +++TI+ E  +  + +
Sbjct: 123 EAERARIYEQFISLEGEVVQAKVVGMNRENNYVLDINGTTAYLWKNKTINNEIFQINEII 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
             YI  V +E +  Q+ +SRT P F+ KL   EVPE+  GIV++K VSR+PG R+K+AV 
Sbjct: 183 DVYIEVVEKESKLSQIAISRTAPAFLTKLIEREVPEVRMGIVEIKGVSREPGKRSKVAVV 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           + + +++P+GA +G+ G+R+  +   L+ EKID++ WS D  T++INA+ P  V    ++
Sbjct: 243 THNQNVEPIGAIIGVGGNRINRISDILKGEKIDVIRWSDDQITYLINAMTPVKVIS--IN 300

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +     +++VP  QLSLAIG++G   +L + L    I+I +  
Sbjct: 301 KIGDEYDIVVPDSQLSLAIGKQGITAKLIASLLKNKINIFSYS 343


>gi|332707468|ref|ZP_08427516.1| NusA antitermination factor [Lyngbya majuscula 3L]
 gi|332353765|gb|EGJ33257.1| NusA antitermination factor [Lyngbya majuscula 3L]
          Length = 369

 Score =  329 bits (844), Expect = 7e-88,   Method: Composition-based stats.
 Identities = 114/349 (32%), Positives = 185/349 (53%), Gaps = 30/349 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARS-----------LYGTM--SDIRVEINP 55
           L  + + ++   ++ R  V   + +++ K                +      +  V+++ 
Sbjct: 9   LKAMIEEISQSHNLPRSAVQQALREALLKGYERYRRSQRLDQRFHFDEEYFDNFEVDLDI 68

Query: 56  ETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQS 113
           E     +     +VEEV+N   QISLK  ++      +G  V   + P   +FGR+A   
Sbjct: 69  EEEGFRVLSTKTIVEEVQNSDHQISLKEVQEVASEAQLGDSVVLDVTPDQGEFGRMAAIQ 128

Query: 114 AKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIRR 167
            KQV+ QK+R+ +R     EF+D  G ++     R E  +VI+ L +       +  + +
Sbjct: 129 TKQVLSQKLRDQQRKLIKEEFQDLEGTVLQSRSLRFEQQSVIMALSSGFGRPEVEAELPK 188

Query: 168 DETISRENLRPGDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
            E +  +N R     K Y+  VR    RGPQ+++SR     +V LF  EVPEI + +V++
Sbjct: 189 REQLPNDNYRINSTFKVYLKKVREGPHRGPQLVVSRAAAGLVVDLFSNEVPEIDDEVVRI 248

Query: 227 KAVSRDP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVW 279
            AV+R+        G R K+AV + +  +DPVGAC+G RGSR+Q VV ELR EKID++ W
Sbjct: 249 VAVAREANPPSRHVGPRTKIAVDTLERDVDPVGACIGARGSRIQVVVNELRGEKIDVIRW 308

Query: 280 SPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQN 327
           SPD +T++ NAL PA V +V +++ +  +  V+V ++QLSLAIG+ GQN
Sbjct: 309 SPDPSTYIANALSPAQVDQVLLVNPEERQAHVLVAEDQLSLAIGKEGQN 357


>gi|255323481|ref|ZP_05364612.1| transcription termination factor NusA [Campylobacter showae RM3277]
 gi|255299518|gb|EET78804.1| transcription termination factor NusA [Campylobacter showae RM3277]
          Length = 366

 Score =  329 bits (844), Expect = 8e-88,   Method: Composition-based stats.
 Identities = 112/362 (30%), Positives = 197/362 (54%), Gaps = 8/362 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  I +++A EK ++ + V   +  +I   A+ +YG   +    I+  T  + L++ + 
Sbjct: 3   KIADIIESIANEKGLEIEDVKERVIRAIINTAKKIYGENYEYDAVIDNATKTLHLYQKIT 62

Query: 68  VVEEV-----ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           VVE+      E+    +S+  A+  D  ++IG  ++  L   + GR A Q+  + +   +
Sbjct: 63  VVEDGDERLAEDNEHFLSISEAKKVDSGVEIGDELTYELSTDNLGRTAAQTLHKELEYHI 122

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +    ++ + +++D VG ++ G+V RV+   N  +++     V+ R   I  E  +PGD 
Sbjct: 123 QRLMEEKIFQKYQDMVGHMVFGSVTRVDSDENTFIEIDELRAVMPRKNRIKGEKFKPGDV 182

Query: 182 VKSYIYDVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           VK+ I  V  ++  G +V LSRT P+F+  L   EVPEI +G+V + A +R PG RAK+A
Sbjct: 183 VKAVIKSVYIDKSMGIKVELSRTSPKFLEALLKAEVPEIKDGLVLIAASARIPGERAKVA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           + ++  ++DPVGA VG +G R+ AV  EL  E ID + +S + A  +  A+ PAI++ V 
Sbjct: 243 LVATSPNVDPVGATVGTKGVRINAVTKELNGENIDAIEYSAEPAILITRAMAPAIISSVK 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           + ED   +  +V  EQ S AIG+ G N+RLAS LTG  I++        ++ ++  +   
Sbjct: 303 IGEDNKAVVSLVT-EQKSKAIGKSGINIRLASMLTGHEIELNELGARGESKDENAKDLKA 361

Query: 361 FF 362
            F
Sbjct: 362 LF 363


>gi|16329287|ref|NP_440015.1| transcription elongation factor NusA [Synechocystis sp. PCC 6803]
 gi|1651767|dbj|BAA16695.1| N utilization substance protein [Synechocystis sp. PCC 6803]
          Length = 458

 Score =  328 bits (842), Expect = 1e-87,   Method: Composition-based stats.
 Identities = 127/369 (34%), Positives = 200/369 (54%), Gaps = 28/369 (7%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-----------SDIRVEINPETGDI 60
           +   ++   ++    V   + +++ K       +            ++  VE++ E    
Sbjct: 12  MISEISKRNNLPTTAVEEALREALLKGYERFRRSQLMGHQFPEEYFNNFEVELDTEEEGF 71

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPM--DFGRVAVQSAKQVI 118
            +     +VEEVEN   QISLK   +      +G  V   + P   DFGR+A    KQV+
Sbjct: 72  RVLSTKRIVEEVENSDQQISLKEVLEVAEEAQLGDEVVLDVTPEQKDFGRMAAIQTKQVL 131

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN------SDGVIRRDETIS 172
           +QK+R+ +R     EF+D  G +++    R E  ++IV + +       +  + + E + 
Sbjct: 132 LQKLRDQQRKIIQEEFQDLEGTVLNARALRFERQSIIVAVQSSFGQPEVEAELPKREQLP 191

Query: 173 RENLRPGDRVKSYIYDVRRE-QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSR 231
            +N R     + Y+  VR   QRGPQ+++SR     +V LF +EVPEI   +V++ AV+R
Sbjct: 192 NDNYRANSTFRVYLKRVREGSQRGPQLVVSRAAAGLVVDLFSVEVPEIEEEVVRIVAVAR 251

Query: 232 DP-------GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSA 284
           +        G R K+AV + +  +DPVGAC+G RGSR+ AVV ELR EKID++ WSPD A
Sbjct: 252 EAKPPSPSVGPRTKIAVDTLERDVDPVGACIGARGSRIHAVVNELRGEKIDVIRWSPDPA 311

Query: 285 TFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           T++  AL PA V +V ++  +     VIV ++QLSLAIG+ GQNVRLA++LTGW IDI  
Sbjct: 312 TYIAQALSPARVDQVYLIHAEERHALVIVAEDQLSLAIGKEGQNVRLAARLTGWKIDIKD 371

Query: 344 EEEDSINRQ 352
            E  + +++
Sbjct: 372 PETYARDKE 380


>gi|300780963|ref|ZP_07090817.1| transcription termination factor NusA [Corynebacterium genitalium
           ATCC 33030]
 gi|300532670|gb|EFK53731.1| transcription termination factor NusA [Corynebacterium genitalium
           ATCC 33030]
          Length = 341

 Score =  327 bits (840), Expect = 2e-87,   Method: Composition-based stats.
 Identities = 126/359 (35%), Positives = 190/359 (52%), Gaps = 39/359 (10%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARS--------LYGTMSDIRVEINPETGDIS 61
           +     +  E  I  D +L  +A ++  A R           G  +  RV+I+ +TG ++
Sbjct: 5   IAALKQIESEAGIPVDDLLGTIASALLFAYREGKDEFGTGAAGEGTKARVDIDTQTGAVA 64

Query: 62  LFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           +      V E+++    IS                      P++F RV  Q+ +  I+++
Sbjct: 65  VM-----VSELDDDGNVIS-----------------EYDDTPVNFSRVGAQAVRDAILKR 102

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKR----VEYGNVIVDLGN----SDGVIRRDETISR 173
           +R A  +R Y  + +  G+++SG V+R     E G V+V LG      DG++   E I  
Sbjct: 103 MRTAADNRAYSAYSELEGQVVSGVVQRDASANERGIVVVQLGTESDPQDGILLPAEQIPG 162

Query: 174 ENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDP 233
           E L  GDRVK Y+  V    R   V LSRTHP+ +  LF +EVPE+ +G V++ A++R+ 
Sbjct: 163 EKLEHGDRVKCYVVGVSGGDRRTTVNLSRTHPELVRGLFALEVPEVADGSVEIVAIAREA 222

Query: 234 GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP 293
           G R+K+AV      I+  GAC+G RG+RV  ++  L  EKIDIV +S D A +V N+L P
Sbjct: 223 GHRSKVAVKGVAKGINAKGACIGPRGARVTNIMESLGGEKIDIVDYSDDPAVYVGNSLAP 282

Query: 294 AI-VTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINR 351
           +  V   V+D D     V+VP  QLSLAIGR GQN RLA++LTGW IDI ++ + S  +
Sbjct: 283 SKVVRVDVVDHDAQTARVVVPDYQLSLAIGREGQNARLAARLTGWKIDIHSDADLSAGQ 341


>gi|268679068|ref|YP_003303499.1| transcription termination factor NusA [Sulfurospirillum deleyianum
           DSM 6946]
 gi|268617099|gb|ACZ11464.1| transcription termination factor NusA [Sulfurospirillum deleyianum
           DSM 6946]
          Length = 374

 Score =  327 bits (838), Expect = 4e-87,   Method: Composition-based stats.
 Identities = 108/341 (31%), Positives = 192/341 (56%), Gaps = 9/341 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +++ I +++A+EK +D + V + +  ++ K A+ +YG   +   EI+  T  + L++ + 
Sbjct: 3   KIVDIIESIAHEKGLDINEVRNTVTMALVKTAKKIYGAEYEYGAEIDSATKTLKLYQKVI 62

Query: 68  VVEEVEN-----YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           VV   +          I++K A++ DP I+IG  ++  LP  + GR A  + ++ +   +
Sbjct: 63  VVSPDDERLLDGNENFIAIKEAKEVDPEIEIGDELTYELPLDNLGRTAAATLQRELEYHI 122

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +       + +++  VG+ + G+V RV+   N  +++     V+ R   I  E  + G+ 
Sbjct: 123 QRLLEHNIFDKYQKMVGKTVFGSVVRVDNDENTYIEIDEIRAVLPRKNRIKGEKFKVGNV 182

Query: 182 VKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           VKS I  V  ++ +G  V LSRT P+F+  L  +EVPEI +G++++   +R PG RAK++
Sbjct: 183 VKSVIRKVLIDKAQGMYVELSRTSPKFLESLLELEVPEIKDGLIKIMGSARIPGERAKIS 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           + S   +ID VGA VG +G+R+ AV  EL +E ID + +S     F+  AL PAI++ V 
Sbjct: 243 LVSFHPNIDAVGATVGTKGARINAVSKELHNENIDCIEFSSVPEIFISRALSPAIISNVK 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +     +  V +P +Q S AIG+ G N+RL S LTG+ I++
Sbjct: 303 I--QNNKAIVTLPSDQKSKAIGKNGINIRLTSMLTGFEIEL 341


>gi|331703354|ref|YP_004400041.1| transcriptional terminator [Mycoplasma mycoides subsp. capri LC
           str. 95010]
 gi|328801909|emb|CBW54062.1| Transcriptional terminator [Mycoplasma mycoides subsp. capri LC
           str. 95010]
          Length = 584

 Score =  327 bits (838), Expect = 4e-87,   Method: Composition-based stats.
 Identities = 116/345 (33%), Positives = 204/345 (59%), Gaps = 6/345 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  ELL+    +  EK I ++ +++ + + +QKA    Y T + I+++IN  TG I++ +
Sbjct: 3   NGTELLESIKLIEKEKGISKESIINGLKEGLQKAYERFYDTDAIIKIDINENTGLITMHQ 62

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLP-PMDFGRVAVQSAKQVIIQK 121
            L+VV++  +++   +I+L  A+ ++P I IG  +  P+    +F R+ V   +Q+  QK
Sbjct: 63  ELKVVDDEQLDDDWLEITLSKAKLKNPDIQIGDTIYKPIEFSEEFSRMVVNQVRQIFQQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGD 180
           +REAER R Y +F    GE++   V  +   N  V D+  +   + + +TI+ E  +  +
Sbjct: 123 IREAERARIYEQFVSLEGEVVQAKVVGMNRENNYVLDINGTTAYLWKSKTINNEIFQINE 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +  YI  V +E +  Q+ +SRT P F+ KL   EVPE+  GIV++KAVSR+PG R+K+A
Sbjct: 183 IIDVYIEVVEKESKLSQISISRTAPNFLTKLIEREVPEVRMGIVEIKAVSREPGKRSKVA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V + +++++P+GA +G+ G+R+  +   L+ EKIDI+ W  D  T++INA+ P  V    
Sbjct: 243 VITHNNNVEPIGAIIGVGGNRINRISDILKGEKIDIIRWDEDQITYLINAMTPVKVIS-- 300

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +++     +++VP  QLSLAIG++G   +L + L    I+I +  
Sbjct: 301 INKIGDEYDIVVPDSQLSLAIGKQGVAAKLIASLLKTKINIFSYS 345


>gi|223040803|ref|ZP_03611069.1| transcription termination factor NusA [Campylobacter rectus RM3267]
 gi|222877902|gb|EEF13017.1| transcription termination factor NusA [Campylobacter rectus RM3267]
          Length = 366

 Score =  326 bits (836), Expect = 7e-87,   Method: Composition-based stats.
 Identities = 107/361 (29%), Positives = 196/361 (54%), Gaps = 8/361 (2%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +  I +++A EK ++ + V   +  +I   A+ +YG   +    I+  T  + L++ + V
Sbjct: 4   IADIIESIANEKGLEIEDVKERVIRAIINTAKKIYGENYEYDAVIDSSTKSLHLYQKITV 63

Query: 69  VEEV-----ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           VE+      E+    + +  A+  D  ++IG  ++  L   + GR A Q+  + +   ++
Sbjct: 64  VEDGDERLAEDNEHFLGVSEAKKVDAGVEIGDELTYELSTDNLGRTAAQTLHKELEYHIQ 123

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRV 182
               ++ + ++++ +G+++ G+V RV+   N  +++     V+ R   I  E  +PGD V
Sbjct: 124 RLMEEKIFQKYQEMIGQMVFGSVTRVDSEENTFIEIDELRAVMSRKNRIKGEKFKPGDVV 183

Query: 183 KSYIYDVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           K+ I  V  ++  G +V LSRT P+F+  L   EVPEI +G+V + A +R PG RAK+A+
Sbjct: 184 KAVIKSVYIDKSMGIKVELSRTSPKFLEALLKAEVPEIKDGLVLIAASARIPGERAKVAL 243

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++  ++DPVGA VG +G R+ AV  EL  E ID + +S + A  +  A+ PAI++ V +
Sbjct: 244 VATSPNVDPVGATVGTKGVRINAVTNELSGENIDAIEYSAEPAILITRAMSPAIISSVKI 303

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
            +   +  V +  EQ S AIG+ G N+RLAS LTG+ I++        ++ ++  +    
Sbjct: 304 TD-ENKAVVSLASEQKSKAIGKSGINIRLASMLTGYEIELNELGTKGESKNENAKDLKAL 362

Query: 362 F 362
           F
Sbjct: 363 F 363


>gi|76496360|gb|ABA43691.1| NusA [Acholeplasma palmae]
          Length = 363

 Score =  325 bits (835), Expect = 8e-87,   Method: Composition-based stats.
 Identities = 108/363 (29%), Positives = 185/363 (50%), Gaps = 17/363 (4%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M+S +        +AVA E+ +++D VL      +    +  +G  S  RVEI  +  +I
Sbjct: 1   MISKD---FFNTIEAVADERGLNKDQVLEAFEKGLIAGCKKAHGVRS-CRVEIKEDKSEI 56

Query: 61  SLFRLLEVVEE---VEN--------YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRV 109
            L++   V++E    E+            I+++ A++    +  G ++   + P DF   
Sbjct: 57  LLYKQYYVLDEDTLEEDMTSNPLNKEYTFITVEDAKEMKTRVKPGQLIEIKVDPKDFNLY 116

Query: 110 AVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-VIRRD 168
           A++  K    +++   +++  Y  FK    E+++  V  V+     ++L      ++ + 
Sbjct: 117 AIKDFKNRFNEELTNKQKETIYNHFKAVEHEMVTARVTDVDDNYYKLELEKEMTTLLPKK 176

Query: 169 ETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKA 228
           E +  +     DR+K YI +V+   + P+V +SR     + +L    VPEI  GI+ +  
Sbjct: 177 EALPNDVFHVNDRIKVYITEVQSTTKWPKVFVSRVQNGLITRLLEELVPEIKEGIISIMG 236

Query: 229 VSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVI 288
           +SRD G R+K+ V S D  +DP+GACVG  G R++ +V  +  EKID+  WS +    + 
Sbjct: 237 ISRDAGDRSKIGVRSEDPKVDPIGACVGEGGQRIREIVKAISGEKIDLFRWSDNEQELIA 296

Query: 289 NALRPAIVTKVV-LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
           NAL+PA V  V  ++        IVP +QLSLAIG+ GQNV+LA Q +GW+IDI +E + 
Sbjct: 297 NALQPAKVVAVTKVNPKEKSALAIVPDDQLSLAIGKLGQNVKLAVQASGWSIDIKSETQA 356

Query: 348 SIN 350
              
Sbjct: 357 QQE 359


>gi|237752704|ref|ZP_04583184.1| transcription elongation factor NusA [Helicobacter winghamensis
           ATCC BAA-430]
 gi|229376193|gb|EEO26284.1| transcription elongation factor NusA [Helicobacter winghamensis
           ATCC BAA-430]
          Length = 371

 Score =  325 bits (834), Expect = 1e-86,   Method: Composition-based stats.
 Identities = 112/366 (30%), Positives = 195/366 (53%), Gaps = 9/366 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L I + +AYEK +  + V   + D++ K A+    +     VEI+ +   + L++++ 
Sbjct: 3   KILDIIEGIAYEKGLPIESVTDAVKDAVIKVAKESLDSTIHYDVEIDKKNKTLHLYQVIS 62

Query: 68  VVEEVE--NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           V E+ +  +    I L  A+  D  I IG  +   L   D  R AV +  + +  K++  
Sbjct: 63  VCEDSDALDGKNMIPLSEAKKHDSEIKIGDELRYELSLEDMSRNAVNALFRELEFKIQRL 122

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
              + + ++K ++G+I+SG V R +  GN  +++     ++ +   I  E    G  V +
Sbjct: 123 IETQLFDKYKSQIGKIVSGNVVRADSLGNTYIEIDEIRAILPKKNRIKGEEFGVGQIVGA 182

Query: 185 YIYDVRRE-QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            +  V  + Q G  + LSRT P+ + +L  +EVPEI +G V++   SR PG RAK+A+ +
Sbjct: 183 VLKHVGIDRQNGIMIELSRTTPKMLEELLKLEVPEIKDGDVEIVNSSRIPGERAKVALKT 242

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
             + IDPVGA VG++G R+ AV  EL++E ID + +S     ++  AL PA+V  V +++
Sbjct: 243 DSAKIDPVGATVGVKGVRINAVSKELKNESIDCIEYSVQPEIYIARALSPALVISVAVED 302

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
              +  V +  EQ   AIG+ G N+RLAS LTG+ I++    E     Q+  +  TQ   
Sbjct: 303 --KKAIVSITSEQKPKAIGKNGINIRLASMLTGYEIELK---EIDSGTQQVSSNSTQETQ 357

Query: 364 QAINVD 369
           ++ N+D
Sbjct: 358 KSSNID 363


>gi|301320952|gb|ADK69595.1| transcription termination factor NusA [Mycoplasma mycoides subsp.
           mycoides SC str. Gladysdale]
          Length = 584

 Score =  325 bits (834), Expect = 1e-86,   Method: Composition-based stats.
 Identities = 115/345 (33%), Positives = 204/345 (59%), Gaps = 6/345 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  ELL+    +  EK I ++ +++ + + +QKA    Y T + I+++IN  TG I++ +
Sbjct: 3   NGTELLESIKLIEKEKGISKESIINGLKEGLQKAYERFYDTDAIIKIDINENTGLITMHQ 62

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLP-PMDFGRVAVQSAKQVIIQK 121
            L+VV++  +++   +I+L  A+ ++P I IG  +  P+    +F R+ V   +Q+  QK
Sbjct: 63  ELKVVDDEQLDDDWLEITLSKAKLKNPDIQIGDTIYKPIEFSEEFSRMVVNQVRQIFQQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGD 180
           +REAER R Y +F    GE++   +  +   N  V D+  +   + + +TI+ E  +  +
Sbjct: 123 IREAERARIYEQFVSLEGEVVQAKIVGMNRENNYVLDINGTTAYLWKSKTINNEIFQINE 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +  YI  V +E +  Q+ +SRT P F+ KL   EVPE+  GIV++KAVSR+PG R+K+A
Sbjct: 183 IIDVYIEVVEKESKLSQISISRTAPNFLTKLIEREVPEVRMGIVEIKAVSREPGKRSKVA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V + +++++P+GA +G+ G+R+  +   L+ EKIDI+ W  D  T++INA+ P  V    
Sbjct: 243 VITHNNNVEPIGAIIGVGGNRINRISDILKGEKIDIIRWDEDQITYLINAMTPVKVIS-- 300

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +++     +++VP  QLSLAIG++G   +L + L    I+I +  
Sbjct: 301 INKIGDEYDIVVPDTQLSLAIGKQGVAAKLIASLLKTKINIFSYS 345


>gi|68536221|ref|YP_250926.1| transcription elongation factor NusA [Corynebacterium jeikeium
           K411]
 gi|68263820|emb|CAI37308.1| N utilization substance protein A [Corynebacterium jeikeium K411]
          Length = 337

 Score =  325 bits (834), Expect = 1e-86,   Method: Composition-based stats.
 Identities = 121/351 (34%), Positives = 192/351 (54%), Gaps = 32/351 (9%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    AV  ++S+D D +L  +   +++A R+       + V+I+P +G+++++++    
Sbjct: 5   MAALRAVEKQESVDFDDLLEGVKRGLREAYRAKSHFTGPVDVDIDPISGEVTIYQV---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                           ++D   ++ G + D   P +FGR    + ++ I  ++  A    
Sbjct: 61  ----------------EKDEEGNVTGRIDD--TPKNFGRDGALAVREAIRFRINSARVQN 102

Query: 130 QYLEFKDKVGEIISGTV----KRVEYGNVIVDLG----NSDGVIRRDETISRENLRPGDR 181
           +Y E+ +    ++SG V    +  E G  IV LG      DG I   E I  E L  G R
Sbjct: 103 RYDEYAELRYRVVSGVVSADARANERGVTIVHLGTEANGQDGQILPAEHIPGEELEHGMR 162

Query: 182 VKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           VK+++ DV     R  Q+ LSRTHP+ +  LF +EVPE+ +G V++ +V+R+ G R K+A
Sbjct: 163 VKAFVTDVINNANRMVQINLSRTHPELVKGLFSLEVPEVADGSVEIVSVAREAGHRTKIA 222

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S+   ++  GAC+G RG RV  ++ EL  EKIDI+ +S D ATFV NAL P+ V  V 
Sbjct: 223 VRSTVKGLNAKGACIGPRGQRVSNIMQELGGEKIDIIDYSDDPATFVGNALSPSKVVSVK 282

Query: 301 L-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
           + D ++     +VP  QLSLAIGR GQN RLA++LTGW IDI +E + +  
Sbjct: 283 VTDPEMQIARAVVPDYQLSLAIGREGQNARLAARLTGWKIDIRSETDAAAE 333


>gi|227504824|ref|ZP_03934873.1| transcription elongation factor NusA [Corynebacterium striatum ATCC
           6940]
 gi|227198674|gb|EEI78722.1| transcription elongation factor NusA [Corynebacterium striatum ATCC
           6940]
          Length = 338

 Score =  325 bits (834), Expect = 1e-86,   Method: Composition-based stats.
 Identities = 124/355 (34%), Positives = 194/355 (54%), Gaps = 43/355 (12%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQ---------KAARSLYGTMSDIRVEINPETGDI 60
           L+    +  E+ I    +L  +A ++           AA    GT S  RV+I+ +TG +
Sbjct: 5   LEALRTIESERGIQVKDLLEAIAGALLYSYLDYREQSAAGKSEGTKS--RVDIDADTGAV 62

Query: 61  SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLP-PMDFGRVAVQSAKQVII 119
           ++     +V E                    + G V+S+    P +F RV  Q+ ++ II
Sbjct: 63  TV-----IVTE-----------------SDPETGEVISEYDDTPENFSRVGAQAVREAII 100

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKR----VEYGNVIVDLG----NSDGVIRRDETI 171
           +K+REAE +  Y  + +  G ++SG V+R     E G V+V LG    + D ++   E +
Sbjct: 101 RKLREAEAEVTYESYSELTGRVVSGIVQRDVRANERGVVVVQLGTELDSQDAILLPAEQL 160

Query: 172 SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSR 231
             E L  GDR+K+Y+  V R     Q+ LSRTHP+ +  LF +E+PE+ +G V++ A++R
Sbjct: 161 PGEKLEHGDRIKAYVVGVTRNGAQVQITLSRTHPELVRGLFELEIPEVGDGAVELVAIAR 220

Query: 232 DPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINAL 291
           + G R+K++V      ++  GAC+G RG RV  ++ EL  EKIDI+ ++ D A +V N+L
Sbjct: 221 EAGHRSKVSVIGHAKGLNAKGACIGPRGERVNNIMRELGGEKIDIIDYNEDPAVYVGNSL 280

Query: 292 RPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
            P+ V +V V+D D     V VP  QLSLAIG+ GQN RLA++LTGW IDI ++ 
Sbjct: 281 APSKVVRVEVVDPDAQVARVTVPDYQLSLAIGKEGQNARLAARLTGWKIDIHSDA 335


>gi|242308920|ref|ZP_04808075.1| transcription elongation factor NusA [Helicobacter pullorum MIT
           98-5489]
 gi|239524584|gb|EEQ64450.1| transcription elongation factor NusA [Helicobacter pullorum MIT
           98-5489]
          Length = 373

 Score =  325 bits (833), Expect = 1e-86,   Method: Composition-based stats.
 Identities = 112/371 (30%), Positives = 196/371 (52%), Gaps = 18/371 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L I + ++YEK +  + V  V+ +S+ K A+           EI+ +   + L++++ 
Sbjct: 3   KILDIIEGISYEKGLPIESVAEVVKESVIKVAKQTLDPNISYDAEIDKKNKTLHLYQVIS 62

Query: 68  VVEEVENYTCQ-----ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V  + +N   +     I L  AR  D  I +G  +   L   +  R AV +  + +  K+
Sbjct: 63  VCADDDNNAKEDKEHFIPLCEARKHDSEIKVGDELRYELSLENMNRSAVNALFRELEFKI 122

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +     + + ++K +VG+I+SG+V R++  GN  V++     ++ +   I  E  R G  
Sbjct: 123 QRLIETQLFDKYKAQVGKIVSGSVVRIDDLGNTFVEIDEVRAILPKKNRIKGEEFRIGQV 182

Query: 182 VKSYIYDVRRE-QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           V + +  V  + Q G  + LSRT P+ + +L  +EVPEI +G V++ + +R PG RAK+A
Sbjct: 183 VGAILKYVGIDKQNGISIELSRTTPKMLEELLRLEVPEIKDGEVEIVSCARIPGERAKVA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           + +  + IDPVGA VG++G R+ AV  EL++E ID + +S     ++  AL PA++  VV
Sbjct: 243 LKTDSAKIDPVGATVGVKGVRINAVSKELKNESIDCIEYSSQPEIYIARALSPALIVSVV 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII---------TEEEDSINR 351
           +++   R  V +  EQ   AIG+ G NVRLAS LTG+ I++          +E     N 
Sbjct: 303 VED--KRAIVTISNEQKPKAIGKNGINVRLASMLTGYEIELKEIGAGNLQNSEHIHQENE 360

Query: 352 QKDFNERTQFF 362
           + D +  +  F
Sbjct: 361 KNDLDILSSLF 371


>gi|193214185|ref|YP_001995384.1| transcription elongation factor NusA [Chloroherpeton thalassium
           ATCC 35110]
 gi|193087662|gb|ACF12937.1| NusA antitermination factor [Chloroherpeton thalassium ATCC 35110]
          Length = 531

 Score =  325 bits (833), Expect = 2e-86,   Method: Composition-based stats.
 Identities = 129/395 (32%), Positives = 215/395 (54%), Gaps = 29/395 (7%)

Query: 27  VLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD 86
           ++ ++ D+IQK  R  Y    + RV INP+ GD  ++ L +VVEE++  + +ISL+ A++
Sbjct: 45  IVDLLRDTIQKQLRKDYDPEVEARVIINPDRGDFEVYILKQVVEEIDLPSIEISLEEAQE 104

Query: 87  RDPSIDIGGVVSD-PLPPMDF-GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
            D S+++G      P+   D+  R ++Q  KQ + +K+R+AER   Y E  +KVGE++S 
Sbjct: 105 IDDSLELGDFYEVGPIHLEDYLTRKSIQIIKQAVQKKMRDAERQAIYEECLEKVGEVVSA 164

Query: 145 TVKRVEYGNVIVDLG-----NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR----- 194
            V +V     I           + ++   E + ++N R   R++ Y+  + RE+      
Sbjct: 165 EVHQVRQKEAIFTYNTTKDHKVELLLPNTEKMPKDNPRKTPRMRLYVKRIEREKIRVKLE 224

Query: 195 -----------GP-QVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
                      GP +V++SRT  +F+ KLF  EVPEIY G++ VK ++R PG RAK++V 
Sbjct: 225 DGTEVEREREDGPMKVIVSRTDDRFLHKLFESEVPEIYEGLIVVKGIARVPGERAKVSVE 284

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT--KVV 300
           S+ S IDPVGACVG RG R+Q +V EL +E ID++ +S +   ++  AL+PA +    V 
Sbjct: 285 STSSRIDPVGACVGHRGKRIQNIVRELNNENIDVICFSDEPQIYIARALQPAKIDPMTVH 344

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +D    +  V++  +Q+  AIGR G N+ LA +LTG+ I+I  +  D      D  +   
Sbjct: 345 VDPKTRKSRVMLKPDQIKYAIGRNGNNIHLAEKLTGYEIEIYRDISDKALEDPDDIDIIS 404

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEI 395
           F        + + + L+  GF   +++    +  I
Sbjct: 405 F---REEFGDDMIYQLLDNGFDTAKKILEAGVDAI 436


>gi|300858700|ref|YP_003783683.1| transcription elongation protein [Corynebacterium
           pseudotuberculosis FRC41]
 gi|300686154|gb|ADK29076.1| transcription elongation protein [Corynebacterium
           pseudotuberculosis FRC41]
 gi|302206410|gb|ADL10752.1| Transcription elongation protein [Corynebacterium
           pseudotuberculosis C231]
 gi|302330966|gb|ADL21160.1| Transcription elongation protein [Corynebacterium
           pseudotuberculosis 1002]
 gi|308276653|gb|ADO26552.1| Transcription elongation protein [Corynebacterium
           pseudotuberculosis I19]
          Length = 332

 Score =  324 bits (832), Expect = 2e-86,   Method: Composition-based stats.
 Identities = 116/349 (33%), Positives = 188/349 (53%), Gaps = 35/349 (10%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAAR----SLYGTMSDIRVEINPETGDISLFRL 65
           +     +  E+ +  + ++  +A ++  + R    +     +  RV+I+  TG +S+   
Sbjct: 5   IHALKLIESERKVPVEELIETIARALLFSYREFKDTNVEENTRARVDISATTGLVSV--- 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +V E++     +S                      P +FGRV  Q+ +  I +++REA
Sbjct: 62  --IVSELDEEGNVLS-----------------EYDDTPANFGRVGAQAVRDAIKKRLREA 102

Query: 126 ERDRQYLEFKDKVGEIISGTVKR----VEYGNVIVDLG----NSDGVIRRDETISRENLR 177
           E  + Y  + +  G ++SG V+      E G  +V LG      DG++   E I  E L 
Sbjct: 103 ETWKAYDAYSEYEGRVVSGIVQADAYANERGITVVHLGTEAEGQDGILIPAEQIPGEKLV 162

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            GDRVK Y+  V R  R  Q+ LSRTHP+ + +LF +E+PE+ +G V++ +++R+ G R+
Sbjct: 163 HGDRVKCYVVGVNRTPRNLQINLSRTHPELVRRLFELEIPEVADGSVEIISIAREAGHRS 222

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV ++   ++  GAC+G RG RV  ++ EL  EKIDI+ +  D A +V NAL P+ V 
Sbjct: 223 KVAVRANIKGLNAKGACIGPRGQRVNNIMNELGGEKIDIIDFDEDPAKYVGNALAPSKVV 282

Query: 298 KVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
            V + D +    +V VP  QLSLAIG+ GQN RLA++LTGW IDI ++ 
Sbjct: 283 HVEITDLEGQAAKVTVPDYQLSLAIGKEGQNARLAARLTGWKIDIRSDA 331


>gi|25028436|ref|NP_738490.1| transcription elongation factor NusA [Corynebacterium efficiens
           YS-314]
 gi|23493721|dbj|BAC18690.1| putative transcriptional termination/antitermination factor
           [Corynebacterium efficiens YS-314]
          Length = 359

 Score =  324 bits (832), Expect = 2e-86,   Method: Composition-based stats.
 Identities = 124/348 (35%), Positives = 201/348 (57%), Gaps = 35/348 (10%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM----SDIRVEINPETGDISLFRL 65
           +Q   A+  EK I  + ++  +A+++  +      +     S  RV+I+  TG +++   
Sbjct: 32  VQALRAIEKEKGIRVEDMIRTIANALLHSYLDNRESDVPESSKARVDIDVSTGAVAV--- 88

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +V E ++     S                      P +FGRV+ ++ +  I++++REA
Sbjct: 89  --IVTEFDDEGTISS-----------------EYDDTPSNFGRVSARAVRDAIVRRLREA 129

Query: 126 ERDRQYLEFKDKVGEIISGTVKRV----EYGNVIVDLG----NSDGVIRRDETISRENLR 177
           E +R +  + +  G ++SG V+      E G V+V LG    + DG++   E I  E L+
Sbjct: 130 EAERAFDAYAEYEGTVMSGLVQADSRAAERGIVVVQLGTETDSQDGILLPAEQIPGEKLK 189

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            GDRVKSY+  V +   G Q+ LSRTHP+ + +LF +E+PE+ +G V++ A+SR+ G R+
Sbjct: 190 HGDRVKSYVVGVGKGPVGIQINLSRTHPELVRRLFELEIPEVADGSVEIVAISREAGHRS 249

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV ++  +++  GAC+G RG RV  ++ EL  EKIDI+ +S D ATFV NAL P+ V 
Sbjct: 250 KVAVRATVKNLNAKGACIGPRGQRVSNIMRELGGEKIDIIDYSDDPATFVGNALAPSKVV 309

Query: 298 KV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            V ++D +    +V+VP  QLSLAIG+ GQN RLA++LTGW IDI ++
Sbjct: 310 SVEIVDAEQQVAKVVVPDYQLSLAIGKEGQNARLAARLTGWKIDIHSD 357


>gi|256384305|gb|ACU78875.1| transcription elongation factor NusA [Mycoplasma mycoides subsp.
           capri str. GM12]
 gi|256385138|gb|ACU79707.1| transcription elongation factor NusA [Mycoplasma mycoides subsp.
           capri str. GM12]
 gi|296455871|gb|ADH22106.1| transcription elongation factor NusA [synthetic Mycoplasma mycoides
           JCVI-syn1.0]
          Length = 584

 Score =  323 bits (830), Expect = 3e-86,   Method: Composition-based stats.
 Identities = 116/345 (33%), Positives = 204/345 (59%), Gaps = 6/345 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  ELL+    +  EK I ++ +++ + + +QKA    Y T + I+++IN  TG I++ +
Sbjct: 3   NGTELLESIKLIEKEKGISKESIINGLKEGLQKAYERFYDTDAIIKIDINENTGLITMHQ 62

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLP-PMDFGRVAVQSAKQVIIQK 121
            L+VV++  +++   +I+L  A+ ++P I IG  +  P+    +F R+ V   +Q+  QK
Sbjct: 63  ELKVVDDEQLDDDWLEITLSKAKLKNPDIQIGDTIYKPIEFSEEFSRMVVNQVRQIFQQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGD 180
           +REAER R Y +F    GE++   V  +   N  V D+  +   + + +TI+ E  +  +
Sbjct: 123 IREAERARIYEQFVSLEGEVVQAKVVGMNRENNYVLDINGTTAYLWKSKTINNEIFQINE 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +  YI  V +E +  Q+ +SRT P F+ KL   EVPE+  GIV++KAVSR+PG R+K+A
Sbjct: 183 IIDVYIEVVEKESKLSQISISRTAPNFLTKLIEREVPEVRMGIVEIKAVSREPGKRSKVA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V + +++++P+GA +G+ G+R+  +   L+ EKIDI+ W  D  T++INA+ P  V    
Sbjct: 243 VITHNNNVEPIGAIIGVGGNRINRISDILKGEKIDIIRWDEDQITYLINAMTPVKVIS-- 300

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +++     +++VP  QLSLAIG++G   +L + L    I+I +  
Sbjct: 301 INKIGDEYDIVVPDTQLSLAIGKQGVAAKLIASLLKTKINIFSYS 345


>gi|322379095|ref|ZP_08053497.1| transcription elongation factor NusA [Helicobacter suis HS1]
 gi|322381039|ref|ZP_08055069.1| transcription elongation factor NusA [Helicobacter suis HS5]
 gi|321146533|gb|EFX41403.1| transcription elongation factor NusA [Helicobacter suis HS5]
 gi|321148467|gb|EFX42965.1| transcription elongation factor NusA [Helicobacter suis HS1]
          Length = 384

 Score =  323 bits (829), Expect = 4e-86,   Method: Composition-based stats.
 Identities = 107/368 (29%), Positives = 197/368 (53%), Gaps = 13/368 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L I + +AYEK +  + +  V+ +SI K A+S   T ++    I+    D++L  ++E
Sbjct: 13  KILDIVELIAYEKGLSLETIKDVVKNSILKVAQSCLDTEANFV--IDDSNKDLALLHVVE 70

Query: 68  VVEEVE-----NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V  + +     +    +SLK A   DPS+    ++   +   D  R AV +  + +   +
Sbjct: 71  VCADGDPKLEQDPKNTLSLKEAHKSDPSLKPNDLLHYEISLKDMKRGAVNTLFKDLEYNI 130

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           + +  D+ + ++K  +  I++G V  ++   N  +++     ++     I  E+ + G+ 
Sbjct: 131 QRSLEDQYFQKYKSMLNTIVTGVVLDIDANQNTYIEIDGLQAILALKNRIKGESFKVGNS 190

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ + +VR  ++G  + LSRT P+F+  L  +EVPEI +  ++V  ++R PG RAKLA+
Sbjct: 191 VRAILKNVRFSKQGLVLELSRTTPKFLEALLRLEVPEIADEEIEVMGIARIPGDRAKLAL 250

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S +S IDP+GA VG++G R+ A+  EL +E ID V ++     ++ N L PA   ++ L
Sbjct: 251 RSHNSQIDPIGATVGVKGVRINAISKELCNESIDCVHYNDIPEIYIANTLSPAQTIRIKL 310

Query: 302 DED--VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID---IITEEEDSINRQKDFN 356
            E+    R  V +  +Q S AIG+ G NVRLA  LTG+ ID   + ++E    +++   +
Sbjct: 311 SEEQGEKRALVTLYGDQKSKAIGKNGVNVRLACMLTGYNIDFEVLESKENMPKDQKVGLS 370

Query: 357 ERTQFFMQ 364
                F +
Sbjct: 371 MLESLFAK 378


>gi|315452942|ref|YP_004073212.1| transcription termination factor NusA [Helicobacter felis ATCC
           49179]
 gi|315131994|emb|CBY82622.1| transcription termination factor NusA [Helicobacter felis ATCC
           49179]
          Length = 376

 Score =  323 bits (829), Expect = 5e-86,   Method: Composition-based stats.
 Identities = 106/367 (28%), Positives = 189/367 (51%), Gaps = 14/367 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L I + +AYEK +  ++V  V+ +SI K A++     ++    I+    D +L  ++E
Sbjct: 3   KILDIVELIAYEKGLSLEMVKEVVKNSILKVAKNTIDPQANF--MIDDSNKDFTLLHVVE 60

Query: 68  VVEE-----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V  +     V + T  ++L      DPS+    ++   +   D  R AV +  + +   +
Sbjct: 61  VCADDDPRLVADPTNTLALTEVLKDDPSLKPNDLLHYEISLKDMKRGAVNALFKDLEFNI 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDR 181
           + +  D+ + ++K  +  I+ G V  ++   N  V++     V+     I  E+ + GD 
Sbjct: 121 QRSLEDQYFQKYKGMLNTIVRGVVLDIDKNQNTFVEIEGVQAVLALRNRIKGESFKVGDT 180

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++ +  V   ++G  + LSRT P+F+  L H+EVPEI +  +++  ++R PG RAKLA+
Sbjct: 181 LRAILKSVHFSKQGLVLELSRTTPKFLEALLHLEVPEIADKEIEIMGIARIPGDRAKLAL 240

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S +  IDP+GA VG++G R+ A+  EL +E ID V ++     ++ NAL PA + K+ L
Sbjct: 241 RSHNVHIDPIGATVGVKGIRINAISKELCNESIDCVHYNEVPEIYIANALSPANIVKIEL 300

Query: 302 ------DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDF 355
                 D+      V +  +Q S AIG+ G NVRLA  LTG+ ID     E+   ++   
Sbjct: 301 SQKTLEDKIQKNALVTLQADQKSKAIGKSGVNVRLACMLTGYEIDFNVLAEEESPKKSGL 360

Query: 356 NERTQFF 362
           +     F
Sbjct: 361 SMLESLF 367


>gi|42560896|ref|NP_975347.1| transcription elongation factor NusA [Mycoplasma mycoides subsp.
           mycoides SC str. PG1]
 gi|42492393|emb|CAE76989.1| transcriptional terminator [Mycoplasma mycoides subsp. mycoides SC
           str. PG1]
          Length = 584

 Score =  323 bits (828), Expect = 5e-86,   Method: Composition-based stats.
 Identities = 114/345 (33%), Positives = 203/345 (58%), Gaps = 6/345 (1%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  ELL+    +  EK I ++ +++ + + +QKA    Y T + I+++IN  TG I++ +
Sbjct: 3   NGTELLESIKLIEKEKGISKESIINGLKEGLQKAYERFYDTDAIIKIDINENTGLITMHQ 62

Query: 65  LLEVVEE--VENYTCQISLKVARDRDPSIDIGGVVSDPLP-PMDFGRVAVQSAKQVIIQK 121
            L+VV++  +++   +I+L  A+ ++P I I   +  P+    +F R+ V   +Q+  QK
Sbjct: 63  ELKVVDDEQLDDDWLEITLSKAKLKNPDIQIDDTIYKPIEFSEEFSRMVVNQVRQIFQQK 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGD 180
           +REAER R Y +F    GE++   +  +   N  V D+  +   + + +TI+ E  +  +
Sbjct: 123 IREAERARIYEQFVSLEGEVVQAKIVGMNRENNYVLDINGTTAYLWKSKTINNEIFQINE 182

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +  YI  V +E +  Q+ +SRT P F+ KL   EVPE+  GIV++KAVSR+PG R+K+A
Sbjct: 183 IIDVYIEVVEKESKLSQISISRTAPNFLTKLIEREVPEVRMGIVEIKAVSREPGKRSKVA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V + +++++P+GA +G+ G+R+  +   L+ EKIDI+ W  D  T++INA+ P  V    
Sbjct: 243 VITHNNNVEPIGAIIGVGGNRINRISDILKGEKIDIIRWDEDQITYLINAMTPVKVIS-- 300

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +++     +++VP  QLSLAIG++G   +L + L    I+I +  
Sbjct: 301 INKIGDEYDIVVPDTQLSLAIGKQGVAAKLIASLLKTKINIFSYS 345


>gi|172040528|ref|YP_001800242.1| transcription elongation factor NusA [Corynebacterium urealyticum
           DSM 7109]
 gi|171851832|emb|CAQ04808.1| N utilization substance protein A [Corynebacterium urealyticum DSM
           7109]
          Length = 332

 Score =  322 bits (827), Expect = 7e-86,   Method: Composition-based stats.
 Identities = 116/350 (33%), Positives = 194/350 (55%), Gaps = 32/350 (9%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           L    A+  ++ +  D ++  +A+ +++A R+      ++ V+I+P +G ++++++    
Sbjct: 5   LATLRAIERQEGVPVDELIHAIANGLKEAYRNQSAFAGEVDVQIDPTSGAVAIYQV---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                           +RD   ++ G + +   P +F R    + ++ I +++  A   +
Sbjct: 61  ----------------ERDEEGNVTGRLDE--TPENFDRTTALAMREAIRRRIGGARVQQ 102

Query: 130 QYLEFKDKVGEIISGTVKR----VEYGNVIVDLG----NSDGVIRRDETISRENLRPGDR 181
           +Y E+      I+SG V R     E G  +V +G      DG I   E I  E L+ G R
Sbjct: 103 RYDEYSSIRHTIVSGVVTRDARANERGITVVHIGTEADGIDGQILPAEHIPGEVLKHGTR 162

Query: 182 VKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           VK+++ DV +   R  Q+ LSRTHP+ +  LF +EVPE+ +G V++ +++R+ G R K+A
Sbjct: 163 VKAFVTDVIKHADRNVQISLSRTHPELVRGLFELEVPEVADGSVEIMSIAREAGHRTKIA 222

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAI-VTKV 299
           V ++   ++  GAC+G RG RV A++ EL  EKIDI+ +S D A +V NAL P+  V+  
Sbjct: 223 VRATIKGLNAKGACIGPRGQRVSAIMAELGGEKIDIIDYSDDPAQYVGNALSPSKYVSST 282

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           V+D +     V+VP  QLSLAIGR GQNVRLA++LT W IDI ++ E   
Sbjct: 283 VIDAEQQIARVVVPDYQLSLAIGREGQNVRLAARLTCWKIDIKSDAEQGE 332


>gi|152993777|ref|YP_001359498.1| transcription elongation factor NusA [Sulfurovum sp. NBC37-1]
 gi|151425638|dbj|BAF73141.1| transcription termination factor NusA [Sulfurovum sp. NBC37-1]
          Length = 387

 Score =  321 bits (823), Expect = 2e-85,   Method: Composition-based stats.
 Identities = 107/367 (29%), Positives = 197/367 (53%), Gaps = 18/367 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L I DA+A+EK+I R+  L    +++   A+ L    S+  V I+ +T   S+ +++ 
Sbjct: 3   KILDIIDAIAHEKNISREHALEAFKEALVNTAKKLTSFTSNFEVTIDNDTKTYSVQKVIT 62

Query: 68  VVEEVEN----------------YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAV 111
           +V + +                     + L  A++ D S++IG  +++     D+GR A 
Sbjct: 63  IVADDDEQLFVEVGKEDNKEMIPSDAVMPLSEAKEFDESLEIGDKLTEEFVLEDYGRTAS 122

Query: 112 QSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDET 170
            +  + +   ++       + ++++KVG ++ GTV R++   N  V++G   G++     
Sbjct: 123 ANLFRELEYHIQRRIEQDLFEKYREKVGTVMLGTVNRIDADDNTHVEIGELKGILTLRNR 182

Query: 171 ISRENLRPGDRVKSYIYDVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAV 229
           I  E  + GD +++ +  V  + + G  + L+RT P+F+  L   EVPEI +G+V++   
Sbjct: 183 IKGEKFKRGDTIRALLRYVSVDPQYGLFLELTRTSPKFLEALMASEVPEIADGVVEIVNA 242

Query: 230 SRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVIN 289
           +R PG RAK+A+ +   ++DP+GA VG++G R+ AV  EL  E ID + +SP    F+  
Sbjct: 243 ARIPGERAKIALKTEQMNVDPIGAAVGVKGVRINAVSEELNGENIDCIEYSPIPEIFITR 302

Query: 290 ALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           AL PAI   + +D+D  +  V +  +Q + AIG+ G N+RLAS LTG+TI++   E  + 
Sbjct: 303 ALSPAITQSIKVDQDEKKAVVNITGDQKAKAIGKSGINIRLASMLTGYTIELNEVEGVTE 362

Query: 350 NRQKDFN 356
            + +   
Sbjct: 363 RQPESAA 369


>gi|118475774|ref|YP_892520.1| transcription elongation factor NusA [Campylobacter fetus subsp.
           fetus 82-40]
 gi|118415000|gb|ABK83420.1| transcription termination factor NusA [Campylobacter fetus subsp.
           fetus 82-40]
          Length = 365

 Score =  321 bits (823), Expect = 2e-85,   Method: Composition-based stats.
 Identities = 115/337 (34%), Positives = 189/337 (56%), Gaps = 7/337 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  I +++A EK ++ + V   +  +   AA+ LYG   +    ++P T  I L++ + 
Sbjct: 3   KISDIIESIANEKGLNFEDVKERIIRAFVNAAKRLYGYECEYEASLDPNTKAIHLYQKIL 62

Query: 68  VVEEVE---NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VVE+ +   +    ISLK A + D +++IG  ++  L   + GR       + I   ++ 
Sbjct: 63  VVEDSDERLDEEHFISLKKAHELDATLEIGDSLNYELNIDELGRTGAGVLSREIEYHIQR 122

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
              ++ Y ++  K+  ++ GTV RV+   N  V++     V+     I  E  + G+ VK
Sbjct: 123 LIEEKIYEKYNSKINTLVFGTVTRVDAEENTFVEIDEIRAVMSMKNRIKNEKFKVGNVVK 182

Query: 184 SYIYDVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           + I  VR +++ G +V LSRT P+F+  L   EVPEI +G V ++  +R PG +AK+A+F
Sbjct: 183 AVIKSVRLDKKDGIKVELSRTSPKFLEALLKAEVPEIKDGGVIIQNSARIPGKKAKIALF 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S+  +ID VGA VG++G R+ AV +EL  E ID + +S + A FV  AL PAIV+ V +D
Sbjct: 243 STTPNIDAVGATVGIKGVRINAVSSELNGENIDAIEYSSEPAIFVARALAPAIVSSVKID 302

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
           +   +  V +  EQ S AIG  G N+RLAS L+G+ I
Sbjct: 303 D--KKAIVSLVPEQKSKAIGVSGINIRLASMLSGFEI 337


>gi|300933074|ref|ZP_07148330.1| transcription elongation factor NusA [Corynebacterium resistens DSM
           45100]
          Length = 331

 Score =  320 bits (822), Expect = 2e-85,   Method: Composition-based stats.
 Identities = 118/349 (33%), Positives = 190/349 (54%), Gaps = 31/349 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  ++ ++   +++ +   + ++ + L      + V+I+  +G+++++++    
Sbjct: 5   MAALRALEAQEGVEFHDLINGIKRGLLESYKELTRYEGWVEVDIDGTSGEVTVYQV---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                           +RD   ++ G   D   P DFGR    + +  I  +++EA   R
Sbjct: 61  ----------------ERDEDGEVTGRFDD--TPSDFGRAGAMAVRDAIRYRIKEARVQR 102

Query: 130 QYLEFKDKVGEIISGTVKRV----EYGNVIVDLG----NSDGVIRRDETISRENLRPGDR 181
            Y E+ D    ++SG V R     E G V+V LG      DG I   E +  E L  G R
Sbjct: 103 DYDEYADLRYRVVSGVVTRNAMANERGVVVVHLGTEAKGKDGEILPAEQLPGEKLEHGMR 162

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           VK+Y+ DV +  R  Q+++SRTHP+ +  LF +EVPE+ +G V++ +V+R+ G R K+AV
Sbjct: 163 VKAYVTDVIKNSRFVQIIMSRTHPELVRGLFALEVPEVADGSVEIVSVAREAGHRTKIAV 222

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+   ++  GAC+G RG RV A+  EL  EKIDI+ +S D A +V NAL P+ V +V +
Sbjct: 223 RSTIKGLNAKGACIGPRGQRVAAIQRELGGEKIDIIDFSEDPAVYVGNALSPSKVVRVDV 282

Query: 302 -DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
            D D      +VP  QLSLAIG+ GQN RLA++LTGW IDI  E + + 
Sbjct: 283 TDPDFQVARAVVPDYQLSLAIGKEGQNARLAARLTGWKIDIRPETDAAQ 331


>gi|313681423|ref|YP_004059161.1| nusa antitermination factor [Sulfuricurvum kujiense DSM 16994]
 gi|313154283|gb|ADR32961.1| NusA antitermination factor [Sulfuricurvum kujiense DSM 16994]
          Length = 377

 Score =  320 bits (821), Expect = 4e-85,   Method: Composition-based stats.
 Identities = 109/344 (31%), Positives = 183/344 (53%), Gaps = 11/344 (3%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +L I +++A EK ++ D V   +  S  + A+ +         +I+  T  + L +++ V
Sbjct: 4   ILDIIESIANEKGLNPDRVQEAIKTSFIQTAKRIINPTFAFEADIDDRTKQVRLRQIITV 63

Query: 69  VE------EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V       E E     + +  A + D   +IG  +        +GR A  +  + I   +
Sbjct: 64  VADDAPELEGEEAGAYMGITAALEIDDEAEIGDQLQMEHDIESYGRSAFATLHREIEFHI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +    +  Y ++K K+ +I+SG V RV+   N  +++     V+     I  E  + GD 
Sbjct: 124 QRLVENELYDKYKSKINQIVSGRVTRVDSDQNTTIEIDEIRAVLPMKSRIKGEKFKVGDV 183

Query: 182 VKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           V + +  V  ++  G  + LSRT P+F+ +L  +EVPEI +GIV ++  +R PG RAK+A
Sbjct: 184 VSAIVRRVHVDKSNGISMELSRTAPKFLEELLALEVPEIKDGIVVIEKCARIPGERAKIA 243

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           ++++   IDP+GA VG+RG R+ AV  EL  E ID V +S     F+  A+ PAI++ VV
Sbjct: 244 LYTNRPQIDPIGATVGVRGVRINAVSEELCGENIDCVEYSSSPELFISRAMSPAIISAVV 303

Query: 301 LDED---VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           + E+     +  V +P +Q S AIG+ G N+RLAS LTG+TI++
Sbjct: 304 VTENEGEEKKAVVTLPSDQKSKAIGKSGINIRLASMLTGYTIEL 347


>gi|157165500|ref|YP_001467013.1| transcription elongation factor NusA [Campylobacter concisus 13826]
 gi|112800050|gb|EAT97394.1| transcription termination factor NusA [Campylobacter concisus
           13826]
          Length = 367

 Score =  320 bits (820), Expect = 4e-85,   Method: Composition-based stats.
 Identities = 106/340 (31%), Positives = 186/340 (54%), Gaps = 10/340 (2%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +  I +++A EK+++ + V   +  ++   A+ +YG   +  V I+    ++ L++ + +
Sbjct: 4   ISDIIESIANEKNLEIEDVKERVIRALINTAKRVYGENYEYDVSIDANK-NLKLYQKISI 62

Query: 69  VEEV-----ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           V        E+    +SLK A+  D  ++IG  ++  L   + GR A Q+  + +   ++
Sbjct: 63  VANDDERLAEDNEHFLSLKEAKKIDSGVEIGDELTYELSLDNLGRTAAQTLHKELEYHIQ 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRV 182
               ++   ++ +  G ++ G V RV+   N  +++     ++ R   I  E  + GD V
Sbjct: 123 RLVEEKILQKYNEMSGHMVFGPVVRVDNDENTFIEIDELRAILPRKNRIKGEKFKVGDVV 182

Query: 183 KSYIYDVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           K+ I  V  ++  G +V LSRT P+F+  L   EVPEI +G + ++  +R PG RAK+A+
Sbjct: 183 KAVIRKVFTDKNLGIKVELSRTSPKFLEALLTSEVPEIKDGGIIIQGSARIPGERAKVAL 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+  +IDPVGA VG +G R+ AV  EL  E ID + ++ + A  V  A+ PAI+T V +
Sbjct: 243 ISTTPNIDPVGATVGTKGVRINAVSKELHGESIDAIEYTTEPAILVARAMAPAIITSVKI 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +E   +  V +  EQ S AIG+ G N+RLAS LTG+ I++
Sbjct: 303 EE--NKAIVTLASEQKSKAIGKNGINIRLASMLTGYEIEL 340


>gi|149194205|ref|ZP_01871303.1| transcription elongation factor NusA [Caminibacter mediatlanticus
           TB-2]
 gi|149136158|gb|EDM24636.1| transcription elongation factor NusA [Caminibacter mediatlanticus
           TB-2]
          Length = 356

 Score =  320 bits (820), Expect = 5e-85,   Method: Composition-based stats.
 Identities = 108/352 (30%), Positives = 180/352 (51%), Gaps = 8/352 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  +   VA EK +D + V      SI K A+ + G   DI V++  E   + +++   
Sbjct: 3   KIQDLLSLVANEKGLDFEEVKEAFKRSIIKTAKKILG---DIDVDVEMEDKKLKIYQNFT 59

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV +   +      + L  ARD D +  IG  +   L     GR    + ++   +++  
Sbjct: 60  VVNDDRALNEPEKYLYLDEARDFDENAQIGDKLRAELDLSKLGRSGAMALQREFEREITR 119

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
              +  Y +   K+  I+SG V +V+   N  V+L    GV+ R   I  E  + GD +K
Sbjct: 120 LLENEIYRKLISKLNTIVSGEVIKVDNDENTYVELDGVRGVLPRRNRIKGEKFKVGDVLK 179

Query: 184 SYIYDVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           + +  V  + + G  + LSRT P+F+ KL    VPE+ +G++++   +R PG R+K+AV 
Sbjct: 180 ALLKYVHFDNKKGITIELSRTSPKFLEKLIENAVPEVRDGLIKIHTSARIPGVRSKVAVS 239

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S +  IDP+G  +G  G R+ A+  EL  E ID++ +SP    FV  AL PAIV  V +D
Sbjct: 240 SLNPKIDPIGTIIGKNGVRINAISNELAGENIDVIEYSPQPEIFVARALSPAIVKSVKID 299

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
           E  G   V V   + + AIG+ G N+ LAS LT + I++ ++E+ +   + +
Sbjct: 300 EKNGIAYVDVDPSEKAKAIGKNGVNITLASMLTKYKIELKSQEKSTDTSKLE 351


>gi|289809601|ref|ZP_06540230.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. AG3]
          Length = 258

 Score =  319 bits (819), Expect = 6e-85,   Method: Composition-based stats.
 Identities = 101/275 (36%), Positives = 157/275 (57%), Gaps = 18/275 (6%)

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           + ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA V  +V
Sbjct: 1   MKTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPADVASIV 60

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DED   +++ V    L+ AIGR GQNV LASQL+GW ++++T ++     Q + +   +
Sbjct: 61  VDEDKHTMDIAVEAGNLAQAIGRNGQNVHLASQLSGWELNVMTVDDLQAKHQAEAHAAIE 120

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F + +++DE  A +LV EGF+ +EELA V + E+  I+G DE T   ++ RA+  L  +
Sbjct: 121 IFTKYLDIDEEFATVLVEEGFSTLEELAYVPMKELLEIDGLDEPTVEALRERAKNALATL 180

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
               +  + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL          
Sbjct: 181 AQDQEASLGDNKPADDLLNLEGLDRDMAFKLAARGVCTLEDLADQGIDDLADIE------ 234

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                      G   ++   +I+ AR  + W   E
Sbjct: 235 -----------GLTDEKAGELIMAAR-NICWFGDE 257


>gi|319441434|ref|ZP_07990590.1| transcription elongation factor NusA [Corynebacterium variabile DSM
           44702]
          Length = 344

 Score =  319 bits (819), Expect = 6e-85,   Method: Composition-based stats.
 Identities = 125/350 (35%), Positives = 185/350 (52%), Gaps = 31/350 (8%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           L    A+   + +  + ++  ++ ++  + R L       RVEI+   G + + R     
Sbjct: 5   LSALKALEDMEHVQEESLIRAISFALLDSYRELTKVEDRARVEIDRVDGTVRVLRS---- 60

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                           + D   ++ G   D   P DFGR A ++ +  I  +V  A  + 
Sbjct: 61  ----------------EIDDDGNVTGEFDD--TPTDFGRDAARAVRDAIRGQVNAARAET 102

Query: 130 QYLEFKDKVGEIISGTVKR----VEYGNVIVDLGNS----DGVIRRDETISRENLRPGDR 181
            Y ++    G ++SG V R     E G  +V LG      DG+I   E I  E L  GDR
Sbjct: 103 SYGKYSALEGTVVSGVVSRDARANERGLTVVHLGTEADGHDGMILTAEHIPGEKLEHGDR 162

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           VK Y+  V R QRG Q+LLSRTHP+ +  LF +EVPE+ +  V++  ++R+ G R+K+AV
Sbjct: 163 VKCYVTAVHRGQRGIQILLSRTHPELVRGLFALEVPEVADEAVEIAGIAREAGHRSKVAV 222

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+ + ++  GAC+G RG RV +++  L  EKIDIV +S D A +V NAL PA V +V +
Sbjct: 223 RSTVNGLNAKGACIGPRGQRVTSIMDALGGEKIDIVDYSEDPAVYVGNALAPAKVVRVDV 282

Query: 302 -DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            D D+     +VP  QLSLAIGR GQN RLA++LTGW IDI  E + +  
Sbjct: 283 TDHDMQVARAVVPDHQLSLAIGREGQNARLAARLTGWKIDIRPESDPAET 332


>gi|34558085|ref|NP_907900.1| transcription elongation factor NusA [Wolinella succinogenes DSM
           1740]
 gi|34483803|emb|CAE10800.1| TRANSCRIPTION ELONGATION FACTOR [Wolinella succinogenes]
          Length = 375

 Score =  319 bits (818), Expect = 7e-85,   Method: Composition-based stats.
 Identities = 108/342 (31%), Positives = 189/342 (55%), Gaps = 9/342 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L I + +AYEK +  D V   + ++I   A+          VEI+ +   + L++ + 
Sbjct: 3   KILDIIELIAYEKGLKIDSVAGAVKEAIIITAKKSLDEHIAYDVEIDKKNKTLKLYQKIL 62

Query: 68  VVEEVE-----NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V    +     +    IS+  A++ D  +++G  +   L   +  R AV +  + +   +
Sbjct: 63  VCPPGDERLSSDPDNHISITEAKEMDEEVEVGDELRYELSLENMSRSAVNTLYKELEFHI 122

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +     + + ++K +VG+I+SG+V RV+  GN  V++      + +   I  E+ + G+ 
Sbjct: 123 QRLIETQLFEKYKSQVGKIVSGSVVRVDDEGNTFVEIDEIRAFLPKKNRIKGESFKVGNV 182

Query: 182 VKSYIYDVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           V + +  V  +++ G Q+ LSRT P+ + +L  +EVPEI +G V ++  +R PG RAK+A
Sbjct: 183 VGAILKHVSIDRKNGIQIELSRTTPKLLEELLRLEVPEIKDGDVTIEKCARIPGERAKVA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           + SS   ID VGA VG++G R+ AV  EL++E ID + +SP    FV  +L PA+++ V 
Sbjct: 243 ISSSSPKIDAVGATVGVKGVRINAVGKELKNENIDCIEYSPIPEMFVARSLSPALISSVK 302

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
           +D    +  V +P EQ   AIG+ G N+RLAS LTG+ I++I
Sbjct: 303 IDGT--KAIVTLPSEQKPKAIGKNGINIRLASMLTGYEIELI 342


>gi|307720459|ref|YP_003891599.1| NusA antitermination factor [Sulfurimonas autotrophica DSM 16294]
 gi|306978552|gb|ADN08587.1| NusA antitermination factor [Sulfurimonas autotrophica DSM 16294]
          Length = 378

 Score =  319 bits (818), Expect = 7e-85,   Method: Composition-based stats.
 Identities = 110/374 (29%), Positives = 193/374 (51%), Gaps = 16/374 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L IA+A+ +EK +  + V+  +  +  + A+ + G       +I+ +T +I + + + 
Sbjct: 3   KILDIAEAIGHEKGLQPEKVMEALKTAFVQTAKRVIGQNFAFEAQIDEDTKNIKIVQTIT 62

Query: 68  VVEEVENYTCQ--------ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           VV + ++   Q        ISL  AR+ D  +++G  +       D+GR A     + I 
Sbjct: 63  VVAD-DDEKLQDEEVAPAYISLTEAREYDDQVELGDQLQIDHDLEDYGRTAASQLHREIE 121

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLRP 178
             ++    D  Y ++K KVG ++SG V RV+   N  +++     V+     I  E    
Sbjct: 122 YHIQRLVEDEIYNKYKSKVGTLVSGRVTRVDAQNNTYIEVDEIRAVLPMKSRIKGEIFDV 181

Query: 179 GDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
           GD +K+ +  V  ++  G Q+ LSRT P+F+  L  +EVPEI  G V ++  +R PG RA
Sbjct: 182 GDHIKAVVRRVNMDKENGMQIELSRTSPKFLEALLELEVPEIAEGSVIIEKAARIPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+A+ S+   +D VGA VG++G R+ AV  EL  E ID + ++     FV   + PAI++
Sbjct: 242 KIALLSTHPQVDAVGATVGVKGVRINAVSQELIGENIDCIEYTTIPELFVSRTMSPAIIS 301

Query: 298 KVVL----DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
            V +    + +  +  + +P +Q S AIG+ G N+RLAS LTG  I+++ E +     + 
Sbjct: 302 HVEIVKNEEGENEKAIITLPADQKSKAIGKSGINIRLASMLTGMQIELL-ENDAVTTNED 360

Query: 354 DFNERTQFFMQAIN 367
              E  +  + A+ 
Sbjct: 361 GTVEEKKENVDALE 374


>gi|47093946|ref|ZP_00231683.1| N utilization substance protein A [Listeria monocytogenes str. 4b
           H7858]
 gi|47017684|gb|EAL08480.1| N utilization substance protein A [Listeria monocytogenes str. 4b
           H7858]
          Length = 248

 Score =  319 bits (818), Expect = 8e-85,   Method: Composition-based stats.
 Identities = 91/245 (37%), Positives = 155/245 (63%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     + ++K I R+V++  +  ++  A +  +    ++RV++N E G I +    E
Sbjct: 4   ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
            VE+V +   +IS++ A   +P    G VV   + P DFGR+A Q+AKQV+ Q+VREAER
Sbjct: 64  AVEQVFDSRLEISMEEAHKLNPVYKPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAER 123

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
              Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR+K Y+ 
Sbjct: 124 GIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLT 183

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V++++  
Sbjct: 184 KVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISVYTANEE 243

Query: 248 IDPVG 252
           +DPVG
Sbjct: 244 VDPVG 248


>gi|224417809|ref|ZP_03655815.1| transcription elongation factor NusA [Helicobacter canadensis MIT
           98-5491]
 gi|253827150|ref|ZP_04870035.1| transcription elongation factor NusA [Helicobacter canadensis MIT
           98-5491]
 gi|313141351|ref|ZP_07803544.1| transcription elongation factor [Helicobacter canadensis MIT
           98-5491]
 gi|253510556|gb|EES89215.1| transcription elongation factor NusA [Helicobacter canadensis MIT
           98-5491]
 gi|313130382|gb|EFR47999.1| transcription elongation factor [Helicobacter canadensis MIT
           98-5491]
          Length = 370

 Score =  319 bits (818), Expect = 8e-85,   Method: Composition-based stats.
 Identities = 103/341 (30%), Positives = 188/341 (55%), Gaps = 8/341 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L I + ++YEK +  + V+ V+ +S+ K A+    +      EI+ +   + L++++ 
Sbjct: 3   KILDIIEGISYEKGLPIESVMEVVKESVIKVAQQTLDSKILYDAEIDKKNKTLHLYQVIS 62

Query: 68  VVEEV----ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           V  +     E+    I L  AR  D  I +G  +   L   +  R AV +  + +  +++
Sbjct: 63  VCSDDYEAKEDKEHFIPLSEARKHDSEIKVGDELRYELSLENMNRSAVNTLFRELEFRIQ 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
                + + ++K ++G+I+SG+V R++  GN  V++     ++ +   I  E  + G  +
Sbjct: 123 RLIETQLFDKYKAQIGKIVSGSVVRIDDLGNTFVEIDEIRAILPKKNRIKGEEFKVGQVI 182

Query: 183 KSYIYDVRRE-QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
            + +  V  + Q G  + LSRT P+ + +L  +EVPEI +G V++ A +R PG RAK+A+
Sbjct: 183 GAVLKYVGIDKQNGISIELSRTTPKMLEELLRLEVPEIKDGEVEIVACARIPGERAKVAL 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            +    +DPVGA VG++G R+ AV  EL++E ID + +S     ++  AL PA++  VV+
Sbjct: 243 KTDSMKVDPVGATVGVKGVRINAVSKELKNESIDCIEFSNQPEIYIARALSPALIVSVVV 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
           ++   +  V +  EQ   AIG+ G NVRLAS LTG+ I++ 
Sbjct: 303 ED--KKAVVSISSEQKPKAIGKNGINVRLASMLTGYEIELK 341


>gi|259507495|ref|ZP_05750395.1| N utilization substance protein A [Corynebacterium efficiens
           YS-314]
 gi|259164880|gb|EEW49434.1| N utilization substance protein A [Corynebacterium efficiens
           YS-314]
          Length = 332

 Score =  318 bits (817), Expect = 1e-84,   Method: Composition-based stats.
 Identities = 124/348 (35%), Positives = 201/348 (57%), Gaps = 35/348 (10%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM----SDIRVEINPETGDISLFRL 65
           +Q   A+  EK I  + ++  +A+++  +      +     S  RV+I+  TG +++   
Sbjct: 5   VQALRAIEKEKGIRVEDMIRTIANALLHSYLDNRESDVPESSKARVDIDVSTGAVAV--- 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +V E ++     S                      P +FGRV+ ++ +  I++++REA
Sbjct: 62  --IVTEFDDEGTISS-----------------EYDDTPSNFGRVSARAVRDAIVRRLREA 102

Query: 126 ERDRQYLEFKDKVGEIISGTVKR----VEYGNVIVDLG----NSDGVIRRDETISRENLR 177
           E +R +  + +  G ++SG V+      E G V+V LG    + DG++   E I  E L+
Sbjct: 103 EAERAFDAYAEYEGTVMSGLVQADSRAAERGIVVVQLGTETDSQDGILLPAEQIPGEKLK 162

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            GDRVKSY+  V +   G Q+ LSRTHP+ + +LF +E+PE+ +G V++ A+SR+ G R+
Sbjct: 163 HGDRVKSYVVGVGKGPVGIQINLSRTHPELVRRLFELEIPEVADGSVEIVAISREAGHRS 222

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV ++  +++  GAC+G RG RV  ++ EL  EKIDI+ +S D ATFV NAL P+ V 
Sbjct: 223 KVAVRATVKNLNAKGACIGPRGQRVSNIMRELGGEKIDIIDYSDDPATFVGNALAPSKVV 282

Query: 298 KV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
            V ++D +    +V+VP  QLSLAIG+ GQN RLA++LTGW IDI ++
Sbjct: 283 SVEIVDAEQQVAKVVVPDYQLSLAIGKEGQNARLAARLTGWKIDIHSD 330


>gi|154175154|ref|YP_001408581.1| transcription elongation factor NusA [Campylobacter curvus 525.92]
 gi|112803976|gb|EAU01320.1| transcription termination factor NusA [Campylobacter curvus 525.92]
          Length = 366

 Score =  318 bits (817), Expect = 1e-84,   Method: Composition-based stats.
 Identities = 107/340 (31%), Positives = 188/340 (55%), Gaps = 10/340 (2%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +  I +++A EK +  D V   +  ++   A+ +Y    +  V I+    ++ L++ + +
Sbjct: 4   ISDIIESIANEKGLQIDDVKERVIRALINTAKRVYSENYEYDVTIDANK-NLKLYQKILI 62

Query: 69  VEEV-----ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           V        E+    ISLK A+  D  +++G  ++  L   + GR A Q+  + +   ++
Sbjct: 63  VANDDERLNEDNEHFISLKEAKKIDSGVEVGDELTYELSLDNLGRTAAQTLHKELEYHIQ 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRV 182
               ++ + ++ + VG+++ G+V RV+   N  +++     ++ R   I  E  + GD V
Sbjct: 123 RLVEEKIFQKYDEMVGQMVFGSVVRVDNDENTYIEIDELRAILPRKNRIKGEKFKIGDVV 182

Query: 183 KSYIYDVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           K+ I  V  ++  G +V LSRT P+F+  L   EVPEI +G + ++  +R PG RAK+A+
Sbjct: 183 KAVIRKVFTDKNLGIRVELSRTSPKFLEALLKAEVPEIKDGGIIIQNSARIPGERAKVAL 242

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            S+  +IDPVGA VG +G R+ AV  EL DE ID + ++ + A F+  A+ PAI++ V +
Sbjct: 243 ISTTPNIDPVGATVGTKGVRINAVSKELHDENIDAIEYASEPAIFISRAMAPAIISSVKI 302

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           D    +  V +  EQ S AIG+ G N+RLAS LTG+ I++
Sbjct: 303 D--GNKAIVSLVGEQKSKAIGKNGINIRLASMLTGFEIEL 340


>gi|296117673|ref|ZP_06836257.1| transcription termination factor NusA [Corynebacterium ammoniagenes
           DSM 20306]
 gi|295969404|gb|EFG82645.1| transcription termination factor NusA [Corynebacterium ammoniagenes
           DSM 20306]
          Length = 340

 Score =  318 bits (816), Expect = 1e-84,   Method: Composition-based stats.
 Identities = 122/358 (34%), Positives = 187/358 (52%), Gaps = 40/358 (11%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARS----LYGTMSDIRVEINPETGDISLFRL 65
           +    A+  E+ +    +L+ +A  +  A               RV+I+ +TG++S+   
Sbjct: 5   IDALRAIETERGVPVTDLLTSVASGLLYAYTEYRDGNIEENHKARVDIDADTGEVSV--- 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV E +     I+                      P +FGRVA  + +  I +++RE 
Sbjct: 62  --VVTESDEDGEIIT-----------------EFDDTPTNFGRVAAPAVRDAIFKRLREV 102

Query: 126 ERDRQYLEFKDKVGEIISGTVKR----VEYGNVIVDLGN---------SDGVIRRDETIS 172
           E DR Y  + +  G ++SG V++       G V+V LG           DG++   E I 
Sbjct: 103 EADRAYDSYAELQGTVVSGVVQQDSHANSRGIVVVQLGTEIDIKEGKTQDGILLPAEQIP 162

Query: 173 RENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRD 232
            E L  G RV++Y+  V++E    QVLLSRTHP+ +  LF +EVPE+ +G V++ A++R+
Sbjct: 163 GERLTHGTRVRAYVVGVQKEGARVQVLLSRTHPELVRGLFELEVPEVLDGAVEIVAIARE 222

Query: 233 PGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALR 292
            G R+K+AV      ++  GAC+G RG RV  V+  L  EKIDI+ ++ D   +V NAL 
Sbjct: 223 AGHRSKVAVTGQVKGLNAKGACIGPRGQRVTNVMQSLGGEKIDIIDFNEDPGVYVGNALA 282

Query: 293 PAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           P+ V +V VLD +     V VP  QLSLAIG+ GQN RLA++LTGW IDI ++ +   
Sbjct: 283 PSKVVRVEVLDPEAQLARVTVPDYQLSLAIGKEGQNARLAARLTGWKIDIHSDADKVE 340


>gi|154148222|ref|YP_001406096.1| transcription elongation factor NusA [Campylobacter hominis ATCC
           BAA-381]
 gi|153804231|gb|ABS51238.1| transcription termination factor NusA [Campylobacter hominis ATCC
           BAA-381]
          Length = 366

 Score =  318 bits (815), Expect = 2e-84,   Method: Composition-based stats.
 Identities = 110/363 (30%), Positives = 183/363 (50%), Gaps = 10/363 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  I +++A EK ++   V   +  +  + A+ ++G       +I+P +  I LF+ + 
Sbjct: 3   KITDIIESIANEKGLEEAEVSEKVKIAFIQTAKKIFGEDFVYESQIDPVSKKIKLFQKVS 62

Query: 68  VVE------EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
           VV       +  N    I+L  A+  DP+I+IG  +S  +     GR A Q     +   
Sbjct: 63  VVANDFVLKDGLNEQNFITLDKAKKIDPTIEIGDEISYDINLEKIGRTASQILFNELNYH 122

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPGD 180
           ++    ++    + +K+GE++ G+V  V+      V++ +    +     I  E    GD
Sbjct: 123 IQRLLEEKILKHYNEKIGELVHGSVTGVDREQTTYVEVDDIKAYLPMKNRIKDEKFEVGD 182

Query: 181 RVKSYIYDVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
            + + I  V  ++  G ++ LSRT P+F+  L   EVPEI +G V +KA +R PG RAK+
Sbjct: 183 IINAVIRHVFIDKNQGIKIELSRTSPKFLEALLKAEVPEIKDGSVILKACARIPGKRAKI 242

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           A+ +   +IDPVGA VG +G R+ AV  EL+ E ID++ WS      V  A+ PAI   V
Sbjct: 243 ALSAISPNIDPVGATVGTKGVRINAVSAELKKENIDVIEWSNQPEILVARAMSPAIANSV 302

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
            + ED  +  V +   Q S AIG+ G N+RLAS LTG  I+++   E     ++   +  
Sbjct: 303 KISED--KAIVYINPAQKSKAIGKSGLNIRLASMLTGLQIELVETGESKKTNEEAMQDLK 360

Query: 360 QFF 362
             F
Sbjct: 361 NLF 363


>gi|224372321|ref|YP_002606693.1| transcription elongation factor NusA [Nautilia profundicola AmH]
 gi|223589774|gb|ACM93510.1| transcription termination factor NusA [Nautilia profundicola AmH]
          Length = 357

 Score =  317 bits (814), Expect = 2e-84,   Method: Composition-based stats.
 Identities = 114/351 (32%), Positives = 182/351 (51%), Gaps = 8/351 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L +   VA EK +D D V      SI K A+ + G   DI VE++ E G++ ++++ E
Sbjct: 3   KVLDLLSLVANEKGLDFDEVKEAFKRSIIKTAKKVLG---DIDVEVDIENGELKIYQIFE 59

Query: 68  VVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           V  +   +E       L  AR+ DP+  IG  +   L     GR    + ++   +++  
Sbjct: 60  VRNDDVALEEPEKYFYLDEAREFDPNAQIGDKLKVELDLGKLGRSGAMALQREFEREITR 119

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
              +  Y +   K+  I+SG V +V+   N  V+L    GV+     I  E    GD +K
Sbjct: 120 LLENEIYRKLISKLNTIVSGEVVKVDSEENTWVELEGVKGVLPMRNRIKGEKFEVGDVMK 179

Query: 184 SYIYDVR-REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           + +  V     RG  + LSRT+P+F+ KL    VPE+ +GI+++   +R PG R+K+AV 
Sbjct: 180 ALLKYVHFDTNRGITIELSRTNPKFLEKLIESAVPEVRDGIIKIHTSARIPGVRSKVAVS 239

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           S +  ++P+G  +G  G R+ +V  EL  E ID++ +SP    F+  AL PAIV  V +D
Sbjct: 240 SLNPKVEPIGTIIGKNGVRINSVSNELNGENIDVIEYSPKPEIFIARALSPAIVKNVQVD 299

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
           ED     V V  +Q + AIG+ G N+ LA  LT + I++   EE S +  K
Sbjct: 300 EDKALAVVEVDPDQKAKAIGKNGINITLAGMLTKYKIELKDAEEKSKDTSK 350


>gi|319955949|ref|YP_004167212.1| nusa antitermination factor [Nitratifractor salsuginis DSM 16511]
 gi|319418353|gb|ADV45463.1| NusA antitermination factor [Nitratifractor salsuginis DSM 16511]
          Length = 375

 Score =  317 bits (813), Expect = 3e-84,   Method: Composition-based stats.
 Identities = 115/371 (30%), Positives = 195/371 (52%), Gaps = 10/371 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L I +++A+EK++  +  L    +++   A+ L G   +  VEI+ +T    ++++L 
Sbjct: 3   KILSIIESMAHEKNLSVESALEAFKEALINTAKRLEGEEGEYEVEIDHDTQSYHIYKVLT 62

Query: 68  VVEEV-----ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           VV        E     I++  A+  D  I+ G  +   +   ++GR A  +  Q +   +
Sbjct: 63  VVNNDDPRAQEEPEKYITVDEAKSYDEEIEPGDKIRSEIHLEEYGRTAAANLFQELEYHI 122

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +       + ++K KVG II GTV RV+  GN  V++G   G++ +   I  E+ + GD 
Sbjct: 123 QRRIEQDLFDKYKAKVGSIIIGTVSRVDDAGNTYVEIGELKGILSQRNRIKGESFKTGDT 182

Query: 182 VKSYIYDVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
           +K+ +  V  + + G  + L+RT P+F+ +L   EVPEI +G V++ + +R PG RAK+A
Sbjct: 183 LKALLRFVSIDPKYGMHLELTRTAPKFLEELMKREVPEIQDGAVEIISSARIPGERAKVA 242

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           + S    IDP+GA VG RG R+ AV  EL  E ID + +SP    +V  AL PAIV  V 
Sbjct: 243 LKSDRPDIDPIGAAVGQRGVRINAVSEELCGENIDCIEYSPIPEIYVTRALSPAIVQNVR 302

Query: 301 LDED---VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           ++ +     +  V +  +Q + AIG+ G N+RLAS LT + I++   E           E
Sbjct: 303 IENNNTAEQKAIVDITSDQKAKAIGKSGINIRLASMLTKYQIELNEVEGIVERAPSGTEE 362

Query: 358 RTQFFMQAINV 368
           +T+      N+
Sbjct: 363 KTKDLSALENL 373


>gi|15605801|ref|NP_213178.1| transcription elongation factor NusA [Aquifex aeolicus VF5]
 gi|2982967|gb|AAC06581.1| transcription termination NusA [Aquifex aeolicus VF5]
          Length = 337

 Score =  316 bits (810), Expect = 6e-84,   Method: Composition-based stats.
 Identities = 129/348 (37%), Positives = 201/348 (57%), Gaps = 25/348 (7%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
           + +L ++ + VA E  +   VV   + ++I  A R       ++ VE   + G I ++ +
Sbjct: 3   KAQLQKLIEQVATEHDLPERVVERALKNAIITAIRKEKKIRDELEVEF-TDEG-IKVYVV 60

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
                              R  +            + P D  R+A  +AK+   +++  A
Sbjct: 61  R------------------RKGNKKFKFP----LDISPEDLNRLAAYAAKEEFYKELERA 98

Query: 126 ERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKS 184
           E++R YLEFK+  GEI+ G V++V E G+VIVDLG  D ++ + E +  +N + GD+VK+
Sbjct: 99  EQERGYLEFKELEGEIVYGIVRKVLENGDVIVDLGRIDAILPKREQLPTDNFKTGDKVKA 158

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
            + +VR+ +  P ++LSRTHP F+ KL   EVPEI  G+V++KAV+R PG RAK+AV + 
Sbjct: 159 LLLEVRKRRGEPVLILSRTHPNFLRKLLEQEVPEIKEGLVEIKAVARIPGERAKVAVEAK 218

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
           +  +DPVG  VG++G R+Q V  EL  EKID++ WS D A  +  AL PA   K+ L   
Sbjct: 219 EMKMDPVGIVVGLKGMRIQKVSEELGGEKIDVIRWSDDIAELIKRALAPAHPEKIKLFPY 278

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
             R EV VP+E+LSLAIG++G NV+LAS+LTGW ID+++ ++     +
Sbjct: 279 EKRAEVAVPEEELSLAIGKKGINVKLASKLTGWHIDVLSTKDFEKLEE 326


>gi|26553563|ref|NP_757497.1| transcription elongation factor NusA [Mycoplasma penetrans HF-2]
 gi|26453569|dbj|BAC43901.1| N-utilization substance protein A [Mycoplasma penetrans HF-2]
          Length = 597

 Score =  316 bits (810), Expect = 7e-84,   Method: Composition-based stats.
 Identities = 108/362 (29%), Positives = 195/362 (53%), Gaps = 11/362 (3%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
            L+  D +A EK   ++ +++++  +++K+         DI V ++     I LF    V
Sbjct: 6   FLENLDKIAKEKDTSKENIVNILKTALEKSYLKE-NPDLDIEVVVDLNKESIKLFEKRVV 64

Query: 69  VEEVENY---TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           V++ E+      +I++  A++   S  +G  VS  +    F R       Q++   + + 
Sbjct: 65  VDKSEDEIDDDKEINISEAQELKKSYKLGDTVSTEVNIDKFERRITSHFAQILTHNLNDI 124

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
              + Y E+KDKVG II   V++V+   V V+LG++ GV+ R E I  E L+PG      
Sbjct: 125 SNSKVYEEWKDKVGNIIRAEVEKVDNRLVEVNLGSTKGVVLRSEQIPGEELQPGQSYLFL 184

Query: 186 IYDVR-REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           I +V+ ++ +G  ++LSR     +  L   E+ EI +GI+++K +SR  G + K+A+ S 
Sbjct: 185 IKEVKSQQTKGWPIILSRADEGLLRYLLKTEISEISDGIIEIKRISRIVGYKTKVAILSR 244

Query: 245 DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED 304
              +D VG  VG +G R++ + + L +E+ID++++  D   F++NA  P  +  V + +D
Sbjct: 245 VPGVDAVGTAVGPKGERIKKISSTLNNERIDVILYDEDPKQFLVNACHPEKIVGVEITDD 304

Query: 305 V-----GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
                   + ++ P+E L   IG+ G NVRL S+LTGW+IDII+E+  +I  + +F + +
Sbjct: 305 EDIPGSKIVTIVCPEESLIKLIGKNGINVRLLSKLTGWSIDIISEK-LAIEDKIEFEDVS 363

Query: 360 QF 361
           Q 
Sbjct: 364 QL 365


>gi|163782301|ref|ZP_02177299.1| transcription elongation factor NusA [Hydrogenivirga sp.
           128-5-R1-1]
 gi|159882334|gb|EDP75840.1| transcription elongation factor NusA [Hydrogenivirga sp.
           128-5-R1-1]
          Length = 333

 Score =  316 bits (810), Expect = 7e-84,   Method: Composition-based stats.
 Identities = 120/342 (35%), Positives = 198/342 (57%), Gaps = 25/342 (7%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           + ++ + VA EK +   VV   + ++I  A +       ++ +E   + G I ++ +   
Sbjct: 5   IRKLIEQVAKEKDLPERVVEYALKNAIAIAIKKDKRIRENLDIEF-TDEG-IKVYVVK-- 60

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                                       +   +   D  R+A  +AK+  + ++  AER+
Sbjct: 61  --------------------GKGREKERLPLDISTEDVNRIAAFAAKEEFLNELERAERE 100

Query: 129 RQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           R +LE+K+  GE+++G V+++ + G+++VDLG  + V+ R E I  E    GD+VK+ + 
Sbjct: 101 RGFLEYKELEGEVVTGIVRKIYDNGDILVDLGKVEAVLPRREQIPGETYHVGDKVKALLL 160

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +V++    P+++LSRTHP F+ +L   E+PE+ +  ++VK+V+R PG RAK+AV++ D  
Sbjct: 161 EVKKMHGEPRLILSRTHPLFLKRLLETEIPEVADKEIEVKSVARIPGERAKVAVYAKDMK 220

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG  VG+RGSR+Q +  EL  EKID+V W+ D   F+  AL PA  T + L  +  R
Sbjct: 221 MDPVGIVVGLRGSRIQPISDELHGEKIDVVRWTDDEEEFIRRALSPAQPTAIRLIPEEER 280

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
            EV VP++QLSLAIGRRG NV+LA +LTGW ID+++EE+   
Sbjct: 281 AEVAVPQDQLSLAIGRRGTNVKLAHRLTGWHIDVMSEEDFEK 322


>gi|332203719|gb|EGJ17786.1| transcription termination factor NusA [Streptococcus pneumoniae
           GA47368]
          Length = 302

 Score =  315 bits (808), Expect = 1e-83,   Method: Composition-based stats.
 Identities = 107/305 (35%), Positives = 175/305 (57%), Gaps = 18/305 (5%)

Query: 81  LKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGE 140
           +K A   + + ++G  +     P +FGRVA QSAKQ I++K+R+  R   Y  +K+   E
Sbjct: 1   MKDALAINSAYELGDKIKFEEAPAEFGRVAAQSAKQTIMEKMRKQTRAITYNTYKEHEQE 60

Query: 141 IISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLL 200
           I+SGTV+R +   + V+LG+ +  + + + I  E     DR++ Y+Y V    RG  V +
Sbjct: 61  IMSGTVERFDNRFIYVNLGSIEAQLSKQDQIPGEVFASHDRIEVYVYKVEDNPRGVNVFV 120

Query: 201 SRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGS 260
           SR+HP+ + +L   E+PE+Y+G V++ +V+R+ G R K+AV S + ++D +G  VG  G+
Sbjct: 121 SRSHPEMIKRLMEQEIPEVYDGTVEIMSVAREAGDRTKVAVRSHNPNVDAIGTIVGRGGA 180

Query: 261 RVQAVVTELR--------------DEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV- 305
            ++ + ++                +E ID++ W  D A F+ NA+ PA V +V+ DE+  
Sbjct: 181 NIKKITSKFHPARYDAKNDRMVPIEENIDVIEWVADPAEFIYNAIAPAEVDQVIFDENDS 240

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
            R  V+VP  +LSLAIGRRGQNVRLA+ LTG+ IDI +  E       +     +  ++ 
Sbjct: 241 KRALVVVPDNKLSLAIGRRGQNVRLAAHLTGYRIDIKSASEFEAM---EDAASVELEVEN 297

Query: 366 INVDE 370
             V+E
Sbjct: 298 DTVEE 302


>gi|157736507|ref|YP_001489190.1| transcription elongation factor NusA [Arcobacter butzleri RM4018]
 gi|315635666|ref|ZP_07890929.1| transcription termination factor NusA [Arcobacter butzleri JV22]
 gi|157698361|gb|ABV66521.1| transcription termination factor NusA [Arcobacter butzleri RM4018]
 gi|315479963|gb|EFU70633.1| transcription termination factor NusA [Arcobacter butzleri JV22]
          Length = 391

 Score =  314 bits (805), Expect = 2e-83,   Method: Composition-based stats.
 Identities = 112/375 (29%), Positives = 198/375 (52%), Gaps = 22/375 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +++ I D++AYEK +  D V + + +++ K A+ +  T       I+     + LF+ +E
Sbjct: 3   KIIDILDSIAYEKGLKIDDVENSLKEALIKTAQRMVDTTLIFDANIDRANKKLELFQKIE 62

Query: 68  VVEEVEN---------------YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQ 112
           VV + ++                   ISL+ A++ +  +DIG  +S  L   + GR A  
Sbjct: 63  VVSKDDDRLKEGSLTKEGTPINPENYISLEEAKEINSDLDIGDFMSYELEFENMGRNAAT 122

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETI 171
                   +++    +    ++K+KVG+ +SGTV R++   N  +++G   G+++R   I
Sbjct: 123 ILLSNFEFRLQRFVEENIVGKYKEKVGKTVSGTVTRIDKSDNTYIEIGEIKGILQRKSRI 182

Query: 172 SRENLRPGDRVKSYIYDVRRE-QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVS 230
             E  + GD VK+ +  V  +   G  V +SRT P+F+  L  +EVPE+ +  + ++A +
Sbjct: 183 KGEFFKVGDVVKAVVKSVNIDKTNGLLVEISRTSPKFLENLLVLEVPELKDKKIAIEASA 242

Query: 231 RDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA 290
           R PG+R+K+A+ + D+ IDP+GA VG++G R+ +V  +L  E ID V +S     F+  A
Sbjct: 243 RIPGTRSKIALSTIDAQIDPIGAVVGVKGVRIGSVSKQLNGENIDCVEYSEIPEIFISRA 302

Query: 291 LRPAIVTKVVL-----DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           L PAIV  V +     + + G+  V +P +Q S AIG+ G N+RLAS LT + I++I   
Sbjct: 303 LSPAIVHSVKIEKNPENGEKGKAVVTIPSDQKSKAIGKAGLNIRLASMLTKYDIELIEIG 362

Query: 346 EDSINRQKDFNERTQ 360
             +     + N +  
Sbjct: 363 SKTPTLNNETNVQVD 377


>gi|50365108|ref|YP_053533.1| transcription elongation factor NusA [Mesoplasma florum L1]
 gi|50363664|gb|AAT75649.1| transcription terminator [Mesoplasma florum L1]
          Length = 471

 Score =  313 bits (804), Expect = 3e-83,   Method: Composition-based stats.
 Identities = 123/347 (35%), Positives = 198/347 (57%), Gaps = 8/347 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  ++L+   ++  EKSI ++V +  + +  QKA    + T + ++ EIN +TG I+LF+
Sbjct: 3   NGAQILEALASLESEKSISKEVAIEGIKEGFQKAYERFFDTEAVVKTEINEQTGSINLFQ 62

Query: 65  LLEVV---EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPP-MDFGRVAVQSAKQVIIQ 120
            L VV   +E+E+   +I L+ A   +    +G  V  P+    +F RVAV   +Q+  Q
Sbjct: 63  ELMVVATDDEIEDDWLEIVLEDALKINKEAKVGDKVYKPIDFDEEFSRVAVGQVRQIFQQ 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYG--NVIVDLGNSDGVIRRDETISRENLRP 178
           K+R  ER   Y +F    GEI+ G +  +     + I+D+      +   +TI+RE    
Sbjct: 123 KIRATERAMIYEKFIQLEGEIVRGKIVGMNDQGTSYILDIDGVHTSLWNQKTINREEFVV 182

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            + V   + +V RE +  Q+++SR  P+F+ KL   EV E+  G+V+V +VSR+PG RAK
Sbjct: 183 NELVDVLLEEVARENKYSQLVVSRVAPKFLAKLVEKEVSEVAQGLVEVMSVSREPGKRAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV S D  ++P+GA VG++GSR+  +  ELR EKID+V W  +   F+INA+ P  V  
Sbjct: 243 IAVLSHDEDVEPIGAIVGVKGSRINNISKELRGEKIDVVKWDDEIIPFIINAMAPVKVIS 302

Query: 299 VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           V  +E  G  +++VP +QLSLAIG+ G   +L + L    I+I + E
Sbjct: 303 V--NEVEGEFDIVVPNQQLSLAIGKGGMAAKLVANLLKRRINIYSLE 347


>gi|194246707|ref|YP_002004346.1| transcription elongation factor NusA [Candidatus Phytoplasma mali]
 gi|193807064|emb|CAP18500.1| Transcription termination factor [Candidatus Phytoplasma mali]
          Length = 358

 Score =  313 bits (804), Expect = 4e-83,   Method: Composition-based stats.
 Identities = 97/357 (27%), Positives = 193/357 (54%), Gaps = 9/357 (2%)

Query: 5   NRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFR 64
           N  +   I    A E  + ++ +      ++    R  +   S  +V+I  +  +I+L++
Sbjct: 2   NSKDFFNIISEFAEENELTKEQIKDAFTKALIYGCRKAHKIKS-CKVDIKEDRNEINLYK 60

Query: 65  LLEVVEEVENY------TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
              +++  E Y         I L+ A+     + +G +++    P DF   AV+  K   
Sbjct: 61  QYYIIDPEEQYLNNYKDYTHIDLEEAKKIKKRVKVGQIINIKTNPKDFNLYAVKDFKNKF 120

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-VIRRDETISRENLR 177
            +++ + +R+  Y  FK   G++I+  V         ++L      ++ + ET+++E   
Sbjct: 121 KEELTKQKRENIYDYFKSYEGKLINAKVIGSNSKFYYLELEKEMTTLLPKKETLNKEIFA 180

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            GDR++ YI +V++  + P++ +S+TH   + K+F   +PEI +G +++  ++R PG R 
Sbjct: 181 EGDRIRVYIVEVQKTTKLPRIFVSQTHIGLVTKIFEDWIPEINDGTLKIMMIARIPGERT 240

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+ +FS++  +DP+G+C+G  G+R+++++  L+ EKID+ +WS  +   + N+L+PA + 
Sbjct: 241 KIGLFSNNPQVDPIGSCIGKNGNRIKSIIKLLQGEKIDLFLWSEKNEELISNSLQPAKIF 300

Query: 298 KVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
           +V + + +  +  VIV  +QLSLAIG+ G+NV+LA+Q T W IDI T  +    +  
Sbjct: 301 QVNIKNLENKKALVIVEDDQLSLAIGKLGKNVKLAAQATKWNIDIKTLSQLKKIKTM 357


>gi|78189424|ref|YP_379762.1| transcription elongation factor NusA [Chlorobium chlorochromatii
           CaD3]
 gi|78171623|gb|ABB28719.1| NusA antitermination factor [Chlorobium chlorochromatii CaD3]
          Length = 527

 Score =  313 bits (804), Expect = 4e-83,   Method: Composition-based stats.
 Identities = 125/395 (31%), Positives = 212/395 (53%), Gaps = 29/395 (7%)

Query: 27  VLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD 86
           +  ++ D IQK  R  Y    +  + INPE GD  ++ L ++VE+V+  T +ISL+  R 
Sbjct: 44  IADLLKDIIQKQLRKDYDPEVEANIFINPERGDFEVYILRKIVEDVDIPTIEISLEDIRK 103

Query: 87  RDPSIDIGGVVSD-PLPPMDF-GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
            D S+++G    + P+   D+  R ++Q  KQ + +KVR+ ER   Y E  +KVGE+I+G
Sbjct: 104 IDDSLEVGDYYEEGPIKLDDYLSRKSIQIIKQSVQKKVRDLERLIVYEECLEKVGEVIAG 163

Query: 145 TVKRVEYGNVIVDLG-----NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR----- 194
            V +V    VI           + V+ + E + ++N R   R+K Y+  + RE+      
Sbjct: 164 EVYQVRSNEVIFTYNTSKDHRVELVLPKSEMMKKDNPRRMPRMKLYVKRIEREKNKIRMD 223

Query: 195 ------------GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
                       G +V++SR   +F+ KLF  EVPEI +G++ +KAV+R PG RAK+AV 
Sbjct: 224 DGTVVEREKPDGGMKVIVSRVDDRFLYKLFEHEVPEILDGLIIIKAVARVPGERAKVAVE 283

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT--KVV 300
           S+ + IDPVGA VG RG R+Q++V EL +E ID++ ++ +   ++  A++PA +    V 
Sbjct: 284 STSARIDPVGATVGYRGKRIQSIVKELNNENIDVIYYADEPQIYISRAMQPAKIDPMTVH 343

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +D    +  V++  +Q+  AIG+ G N+ LA +LTG+ ID+  +  D         +  +
Sbjct: 344 VDIKTRKARVMLKPDQIKYAIGKNGNNIHLAEKLTGYEIDVYRDVMDKTTEDPTDIDIIE 403

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEI 395
           F        + + + L+  G    +++    + EI
Sbjct: 404 F---REEFGDDMIYQLLDAGLDTAKKVLRAGLEEI 435


>gi|78777942|ref|YP_394257.1| transcription elongation factor NusA [Sulfurimonas denitrificans
           DSM 1251]
 gi|78498482|gb|ABB45022.1| NusA antitermination factor [Sulfurimonas denitrificans DSM 1251]
          Length = 380

 Score =  313 bits (803), Expect = 4e-83,   Method: Composition-based stats.
 Identities = 107/377 (28%), Positives = 194/377 (51%), Gaps = 22/377 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L I +A+A EK +  D V   +  +  + A+ +  +       IN +T  I + + + 
Sbjct: 3   KILDIVEAIANEKGLKSDKVKEALKAAFIQTAKRIINSKFAFEAVINTQTKTIDIIQTIT 62

Query: 68  VVEE-------VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
           VV +        E     IS+  AR+ D  +++   +  P    ++GR A     + I  
Sbjct: 63  VVSDSDERLKDEEIAPAYISITEAREYDDQVELDDQLQIPHDLEEYGRTAASQLHREIEY 122

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLRPG 179
            ++    D  + ++K K+G +++G V RV+  N   +++     V+     I  E  + G
Sbjct: 123 HIQRVVEDEIFNKYKSKIGSLVNGRVTRVDNQNSTYIEIDEIRAVLPIKNRIKGEIFKVG 182

Query: 180 DRVKSYIYDVR-REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           D +K+ +  V   ++ G Q+ LSRT P+F+ +L  +EVPEI +G V V+  +R PG RAK
Sbjct: 183 DHLKAVVRRVDMNKENGIQIELSRTSPKFLEELLALEVPEISDGTVIVERSARIPGERAK 242

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +A+FS+   +D VGA VG++G R+ AV  EL  E ID + ++     F+   + PAI++ 
Sbjct: 243 VALFSTHPQVDAVGATVGVKGVRINAVSQELIGENIDCIEYTTIPELFISRIMSPAIISN 302

Query: 299 VVL--DED--VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI---------ITEE 345
           V +  DE+    +  + +P +Q S AIG+ G N+RLAS L+G  I++         +++ 
Sbjct: 303 VEILKDENGEAQKAIITLPTDQKSKAIGKNGINIRLASMLSGLNIELVESDVKVAQMSDM 362

Query: 346 EDSINRQKDFNERTQFF 362
           +D+  +++  +     F
Sbjct: 363 QDNKEQKEGVDALKALF 379


>gi|86151767|ref|ZP_01069981.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni 260.94]
 gi|315124006|ref|YP_004066010.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni ICDCCJ07001]
 gi|85841396|gb|EAQ58644.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni 260.94]
 gi|315017728|gb|ADT65821.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni ICDCCJ07001]
          Length = 362

 Score =  313 bits (803), Expect = 4e-83,   Method: Composition-based stats.
 Identities = 104/340 (30%), Positives = 191/340 (56%), Gaps = 13/340 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  I +++A EK+++ + V   +A ++   A+ +YG   +  V  +P+   ++L++ + 
Sbjct: 3   KIADIIESIANEKNLNLENVREKVATALINTAKRIYGQEYEFFV--DPKN--LNLYQKIT 58

Query: 68  VVEEVEN-----YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           +V + +          I+L  A+   P ++IG  ++      + GR AV +  + +   +
Sbjct: 59  IVADNDERLQNKSESFIALSKAKSEAPDVEIGDELTYECSLENLGRTAVNTLHKELEYHI 118

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++      + ++K+KVG+++ GTV RV+   N  +++      + R   I  E  + GD 
Sbjct: 119 QKLLEQTIFEKYKNKVGQMVFGTVVRVDNEENTFIEIDELRAFLPRKNRIKGEKFKIGDV 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           VK+ I  V  + +G ++ LSRT P+F+  L   EVPEI +G V +   +R PG RAK+ +
Sbjct: 179 VKAVIRRVYTD-KGIKIELSRTSPKFLECLLEAEVPEIKDGYVNIIGCARIPGERAKIIL 237

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++ ++IDPVGA VG++G R+ AV  EL +E ID + ++ +S   +  AL PAIV  V +
Sbjct: 238 QANGANIDPVGATVGVKGVRINAVSKELHNENIDCIEFTNESEILISRALAPAIVNSVKI 297

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           ++   +  V +  EQ S AIG+ G N+RLAS L+G+ I++
Sbjct: 298 ED--KKAIVSLNSEQKSKAIGKNGINIRLASMLSGYEIEL 335


>gi|86149201|ref|ZP_01067433.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni CF93-6]
 gi|88596851|ref|ZP_01100087.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni 84-25]
 gi|121612185|ref|YP_001000167.1| transcription elongation factor NusA [Campylobacter jejuni subsp.
           jejuni 81-176]
 gi|167005125|ref|ZP_02270883.1| transcription elongation factor NusA [Campylobacter jejuni subsp.
           jejuni 81-176]
 gi|218562115|ref|YP_002343894.1| transcription elongation factor NusA [Campylobacter jejuni subsp.
           jejuni NCTC 11168]
 gi|85840559|gb|EAQ57816.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni CF93-6]
 gi|87250165|gb|EAQ73123.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni 81-176]
 gi|88190540|gb|EAQ94513.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni 84-25]
 gi|112359821|emb|CAL34608.1| transcription termination factor [Campylobacter jejuni subsp.
           jejuni NCTC 11168]
 gi|284925727|gb|ADC28079.1| transcription elongation factor NusA [Campylobacter jejuni subsp.
           jejuni IA3902]
 gi|315928212|gb|EFV07529.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni DFVF1099]
 gi|315930003|gb|EFV09146.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni 305]
          Length = 362

 Score =  313 bits (802), Expect = 6e-83,   Method: Composition-based stats.
 Identities = 104/340 (30%), Positives = 191/340 (56%), Gaps = 13/340 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  I +++A EK+++ + V   +A ++   A+ +YG   +  V  +P+   ++L++ + 
Sbjct: 3   KIADIIESIANEKNLNLENVREKVATALINTAKRIYGQEYEFFV--DPKN--LNLYQKIT 58

Query: 68  VVEEVEN-----YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           +V + +          I+L  A+   P ++IG  ++      + GR AV +  + +   +
Sbjct: 59  IVADNDERLQNKSESFIALSKAKSEAPDVEIGDELTYECSLENLGRTAVNTLHKELEYHI 118

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++      + ++K+KVG+++ GTV RV+   N  +++      + R   I  E  + GD 
Sbjct: 119 QKLLEQTIFEKYKNKVGQMVFGTVVRVDNEENTFIEIDELRAFLPRKNRIKGEKFKIGDV 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           VK+ I  V  + +G ++ LSRT P+F+  L   EVPEI +G V +   +R PG RAK+ +
Sbjct: 179 VKAVIRRVYTD-KGIKIELSRTSPKFLECLLEAEVPEIKDGYVNIIGCARIPGERAKIIL 237

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++ ++IDPVGA VG++G R+ AV  EL +E ID + ++ +S   +  AL PAIV  V +
Sbjct: 238 QANGTNIDPVGATVGVKGVRINAVSKELHNENIDCIEFTNESEILISRALAPAIVNSVKI 297

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           ++   +  V +  EQ S AIG+ G N+RLAS L+G+ I++
Sbjct: 298 ED--KKAIVSLNSEQKSKAIGKNGINIRLASMLSGYEIEL 335


>gi|57237514|ref|YP_178528.1| transcription elongation factor NusA [Campylobacter jejuni RM1221]
 gi|205355336|ref|ZP_03222107.1| transcription termination factor [Campylobacter jejuni subsp.
           jejuni CG8421]
 gi|283955882|ref|ZP_06373372.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni 1336]
 gi|57166318|gb|AAW35097.1| transcription termination factor NusA [Campylobacter jejuni RM1221]
 gi|205346570|gb|EDZ33202.1| transcription termination factor [Campylobacter jejuni subsp.
           jejuni CG8421]
 gi|283792542|gb|EFC31321.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni 1336]
 gi|315057880|gb|ADT72209.1| Transcription termination protein NusA [Campylobacter jejuni subsp.
           jejuni S3]
          Length = 362

 Score =  312 bits (801), Expect = 7e-83,   Method: Composition-based stats.
 Identities = 104/340 (30%), Positives = 191/340 (56%), Gaps = 13/340 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  I +++A EK+++ + V   +A ++   A+ +YG   +  V  +P+   ++L++ + 
Sbjct: 3   KIADIIESIANEKNLNLENVREKVATALINTAKRIYGQEYEFFV--DPKN--LNLYQKIT 58

Query: 68  VVEEVEN-----YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           +V + +          I+L  A+   P ++IG  ++      + GR AV +  + +   +
Sbjct: 59  IVADNDERLQNKSESFIALSKAKSEAPDVEIGDELTYECSLENLGRTAVNTLHKELEYHI 118

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++      + ++K+KVG+++ GTV RV+   N  +++      + R   I  E  + GD 
Sbjct: 119 QKLLEQTIFEKYKNKVGQMVFGTVVRVDNEENTFIEIDELRAFLPRKNRIKGEKFKIGDV 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           VK+ I  V  + +G ++ LSRT P+F+  L   EVPEI +G V +   +R PG RAK+ +
Sbjct: 179 VKAVIRRVYTD-KGIKIELSRTSPKFLECLLEAEVPEIKDGYVNIIGCARIPGERAKIIL 237

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++ ++IDPVGA VG++G R+ AV  EL +E ID + ++ +S   +  AL PAIV  V +
Sbjct: 238 QANGANIDPVGATVGVKGVRINAVSKELHNENIDCIEFTNESEILISRALAPAIVNSVKI 297

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           ++   +  V +  EQ S AIG+ G N+RLAS L+G+ I++
Sbjct: 298 ED--KKAIVSLNSEQKSKAIGKNGINIRLASMLSGYEIEL 335


>gi|257459336|ref|ZP_05624449.1| transcription termination factor NusA [Campylobacter gracilis
           RM3268]
 gi|257443265|gb|EEV18395.1| transcription termination factor NusA [Campylobacter gracilis
           RM3268]
          Length = 375

 Score =  312 bits (801), Expect = 8e-83,   Method: Composition-based stats.
 Identities = 104/373 (27%), Positives = 188/373 (50%), Gaps = 17/373 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  I +++A EK ++   V   +  +  + A+ L+G       E++P+T  + L++ + 
Sbjct: 3   KITDIIESIANEKGLEPADVKERVKTAFIQTAKRLFGEEYLYDSEVDPQTKRVKLYQKVH 62

Query: 68  VVEEVEN---YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
           VV + +        I+L  A+    + +IG  +S  +   + GR A     + +   ++ 
Sbjct: 63  VVADDDERLGDHNFIALSEAKKIGENAEIGDELSYEINIENLGRTASGVLARELNFHIQR 122

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
              ++ +  +K KVG +  GTV ++++ G   V++ ++   +     I  EN + GD ++
Sbjct: 123 LLEEKIFENYKSKVGTLTHGTVTKIDHDGTTYVEIEDTKAFMPLKNRIKGENFKVGDVLQ 182

Query: 184 SYIYDVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           + I +V  ++  G ++ LSRT P+F+  L   EVPEI +G V ++A +R PG RAK+A+ 
Sbjct: 183 AVIKNVAIDKSHGIRLELSRTSPKFLEALLAAEVPEIKDGSVIIQACARIPGRRAKIALS 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTEL--------RDEKIDIVVWSPDSATFVINALRPA 294
               ++DPVGA VG  G+R+ AV   L          E ID   +S      +  A+ PA
Sbjct: 243 VVSPNVDPVGATVGKGGARIDAVSKFLSKNLQDGSGGESIDAFEYSASPEILITRAMAPA 302

Query: 295 IVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII---TEEEDSINR 351
           IV  V +    G+  V V  +Q S AIG+ G N+RLAS L G  I++I   +  E  +++
Sbjct: 303 IVNSVKIT-QDGKAIVYVNPDQKSKAIGKNGLNIRLASMLCGCEIELIETGSASEKKVSK 361

Query: 352 QKDFNERTQFFMQ 364
           ++        F +
Sbjct: 362 EEGLKNLEALFGE 374


>gi|153951003|ref|YP_001398503.1| transcription elongation factor NusA [Campylobacter jejuni subsp.
           doylei 269.97]
 gi|152938449|gb|ABS43190.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           doylei 269.97]
          Length = 362

 Score =  312 bits (801), Expect = 9e-83,   Method: Composition-based stats.
 Identities = 104/340 (30%), Positives = 191/340 (56%), Gaps = 13/340 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  I +++A EK+++ + V   +A ++   A+ +YG   +  V  +P+   ++L++ + 
Sbjct: 3   KIADIIESIANEKNLNLENVREKVATALINTAKRIYGQEYEFFV--DPKN--LNLYQKIT 58

Query: 68  VVEEVEN-----YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           +V + +          I+L  A+   P ++IG  ++      + GR AV +  + +   +
Sbjct: 59  IVADNDERLQNKSESFIALSKAKVEAPDVEIGDELTYECSLENLGRTAVNTLHKELEYHI 118

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++      + ++K+KVG+++ GTV RV+   N  +++      + R   I  E  + GD 
Sbjct: 119 QKLLEQTIFEKYKNKVGQMVFGTVVRVDNEENTFIEIDELRAFLPRKNRIKGEKFKIGDV 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           VK+ I  V  + +G ++ LSRT P+F+  L   EVPEI +G V +   +R PG RAK+ +
Sbjct: 179 VKAVIRRVYTD-KGIKIELSRTSPKFLECLLEAEVPEIKDGYVNIIGCARIPGERAKIIL 237

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++ ++IDPVGA VG++G R+ AV  EL +E ID + ++ +S   +  AL PAIV  V +
Sbjct: 238 QANGANIDPVGATVGVKGVRINAVSKELHNENIDCIEFTNESEILISRALAPAIVNSVKI 297

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           ++   +  V +  EQ S AIG+ G N+RLAS L+G+ I++
Sbjct: 298 ED--KKAIVNLNSEQKSKAIGKNGINIRLASMLSGYEIEL 335


>gi|38234060|ref|NP_939827.1| transcription elongation factor NusA [Corynebacterium diphtheriae
           NCTC 13129]
 gi|38200322|emb|CAE50007.1| Putative N utilization related protein [Corynebacterium
           diphtheriae]
          Length = 332

 Score =  311 bits (799), Expect = 1e-82,   Method: Composition-based stats.
 Identities = 123/349 (35%), Positives = 193/349 (55%), Gaps = 35/349 (10%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYG----TMSDIRVEINPETGDISLFRL 65
           +Q   A+  +++I  D +L  +A ++  A +          S  RV+IN  TG +S+   
Sbjct: 5   VQALKAIEADRNIAVDELLETIARALLFAYQEYKDTNTVENSRARVDINSVTGHVSV--- 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +V E+               D    +     D   P +FGRV  Q+ +  I++++REA
Sbjct: 62  --IVSEL---------------DEDGVVTTEYDD--TPENFGRVGAQAVRDAIVRRLREA 102

Query: 126 ERDRQYLEFKDKVGEIISGTVKR----VEYGNVIVDLG----NSDGVIRRDETISRENLR 177
           E  + Y  + +  G ++SG V+      E G V++ LG      DG++   E I  E+ +
Sbjct: 103 ETLKAYDAYSEYEGRVVSGIVQADIFANEKGIVVIHLGTEVDGQDGILIPAEQIPGESFK 162

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            GDRVK+Y+  + R  R  Q+ LSRTHP+ + +LF +EVPE+ +G V++  ++R+ G R+
Sbjct: 163 HGDRVKAYVVGINRTPRDLQINLSRTHPELVRRLFELEVPEVADGSVEIIGIAREAGHRS 222

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+AV ++   ++  GAC+G RG RV  ++ EL  EKIDI+ +  D A FV NAL P+ V 
Sbjct: 223 KVAVKATVKGLNAKGACIGPRGQRVNNIMNELGGEKIDIIDFDDDPAKFVGNALAPSKVV 282

Query: 298 KVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
            V + D +    +V VP  QLSLAIG+ GQN RLA++LTGW IDI ++ 
Sbjct: 283 HVEITDAEAQTAQVTVPDYQLSLAIGKEGQNARLAARLTGWKIDIRSDA 331


>gi|269123542|ref|YP_003306119.1| NusA antitermination factor [Streptobacillus moniliformis DSM
           12112]
 gi|268314868|gb|ACZ01242.1| NusA antitermination factor [Streptobacillus moniliformis DSM
           12112]
          Length = 362

 Score =  311 bits (799), Expect = 1e-82,   Method: Composition-based stats.
 Identities = 111/347 (31%), Positives = 193/347 (55%), Gaps = 6/347 (1%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M S ++   L   + +  EK I +  +L  +   +  A +  +    ++ +EI+  TGD+
Sbjct: 1   MKSKDKATFLDAIEELEKEKGIQKGDLLERLKTGLLAAYKKDFNDQENLEIEIDQITGDV 60

Query: 61  SLFRLLEVVEE---VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQV 117
            +F    ++++   V N T +I    A++    I +G  +   L   +F R A+Q AK +
Sbjct: 61  KMFCEKLIIDDEVKVYNETTEIPFSKAKNHRKRIKVGDYLKIELNADEFNRNAIQRAKSI 120

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENL 176
           IIQ +RE E++    +      +I++  V+R+E  G++ V +   D +I + E  S + +
Sbjct: 121 IIQYIREQEKELICKQLTAIEHQIVNVIVRRIEENGSLYVGMNGLDLIIPQRELSSLDKV 180

Query: 177 RPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
           + GDR+ +YI  V    R P+V ++R   + + KLF  EVPEI +GI+ +K ++R+ G +
Sbjct: 181 QVGDRLVAYIRSVDTNGRFPKVDITRIDDKLIHKLFEREVPEIASGIIVIKNIAREVGVK 240

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           AK+A++S D +ID  G+C+G  G R+  ++ EL  EKI++V W+ D   FV NAL PA +
Sbjct: 241 AKVAIYSEDPNIDLKGSCIGKDGVRINNIINELNGEKIELVEWNADQRIFVKNALYPAEI 300

Query: 297 TKVVL--DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             V +  +ED    +V V   QL+LAIG++G N +LA +L    ++I
Sbjct: 301 FSVEIVRNEDEIVAKVEVDPSQLTLAIGKKGVNSKLAGKLCKLRVNI 347


>gi|57168596|ref|ZP_00367729.1| transcription termination factor NusA [Campylobacter coli RM2228]
 gi|305433015|ref|ZP_07402171.1| transcription termination factor NusA [Campylobacter coli JV20]
 gi|57020101|gb|EAL56778.1| transcription termination factor NusA [Campylobacter coli RM2228]
 gi|304443716|gb|EFM36373.1| transcription termination factor NusA [Campylobacter coli JV20]
          Length = 362

 Score =  311 bits (799), Expect = 1e-82,   Method: Composition-based stats.
 Identities = 104/339 (30%), Positives = 183/339 (53%), Gaps = 13/339 (3%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           +  I +++A EK++D + V   +  ++   A+ +YG   D  V  + +   ++L++ + V
Sbjct: 4   IADIIESIANEKNLDIESVKEKVIIALINTAKRIYGQEYDFFV--DRKN--LNLYQKITV 59

Query: 69  VEEV-----ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           V +      EN    I    A+   P ++IG  ++      + GR AV    + +   ++
Sbjct: 60  VADNDERLNENKESYIEFSKAKKEAPDVEIGDELTYECSLENLGRTAVNILHKELEYHIQ 119

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           +      + ++K+KVG+++ G V R++   N  +++      + R   I  E  + GD V
Sbjct: 120 KLLEQTIFEKYKNKVGQMVFGNVVRIDNEENTYIEIDELRAFLPRKNRIKGEKFKVGDVV 179

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           K+ I  V  + +G ++ LSRT P+F+  L   EVPEI +G V V   +R PG RAK+ + 
Sbjct: 180 KAVIRRVYTD-KGIKMELSRTSPKFLECLLEAEVPEIKDGYVSVVKCARIPGERAKIILQ 238

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           ++ ++IDPVGA VG++G R+ AV  EL +E ID + +S +    +  AL PAIV+ V ++
Sbjct: 239 ANGANIDPVGATVGVKGVRINAVSKELHNENIDCIEFSNEPEILIARALAPAIVSSVKIE 298

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
               +  V +  EQ S AIG+ G N+RLA  L+G+ I++
Sbjct: 299 --NEKAIVTLNSEQKSKAIGKSGINIRLAGMLSGYEIEL 335


>gi|86153795|ref|ZP_01071998.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni HB93-13]
 gi|85842756|gb|EAQ59968.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni HB93-13]
          Length = 362

 Score =  311 bits (798), Expect = 2e-82,   Method: Composition-based stats.
 Identities = 103/340 (30%), Positives = 191/340 (56%), Gaps = 13/340 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  I +++A EK+++ + V   +A ++   A+ +YG   +  V  +P+   ++L++ + 
Sbjct: 3   KIADIIESIANEKNLNLENVREKVATALINTAKRIYGQEYEFFV--DPKN--LNLYQKIT 58

Query: 68  VVEEVEN-----YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           +V + +          I+L  A+   P ++IG  ++      + GR AV +  + +   +
Sbjct: 59  IVADNDERLQNKSESFIALSKAKSEAPDVEIGDELTYECSLENLGRTAVNTLHKELEYHI 118

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++      + ++K+KVG+++ GTV RV+   N  +++      + R   I  E  + GD 
Sbjct: 119 QKLLEQTIFEKYKNKVGQMVFGTVVRVDNEENTFIEIDELRAFLPRKNRIKGEKFKIGDV 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           VK+ I  V  + +G ++ LSRT P+F+  L   EVPEI +G V +   +R PG RAK+ +
Sbjct: 179 VKAVIRRVYTD-KGIKIELSRTSPKFLECLLEAEVPEIKDGYVNIIGCARIPGERAKIIL 237

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++ ++IDPVGA VG++G R+ AV  EL +E ID + ++ +S   +  AL P+IV  V +
Sbjct: 238 QANGANIDPVGATVGVKGVRINAVSKELHNENIDCIEFTNESEILISRALAPSIVNSVKI 297

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           ++   +  V +  EQ S AIG+ G N+RLAS L+G+ I++
Sbjct: 298 ED--KKAIVSLNSEQKSKAIGKNGINIRLASMLSGYEIEL 335


>gi|296274352|ref|YP_003656983.1| transcription termination factor NusA [Arcobacter nitrofigilis DSM
           7299]
 gi|296098526|gb|ADG94476.1| transcription termination factor NusA [Arcobacter nitrofigilis DSM
           7299]
          Length = 391

 Score =  310 bits (796), Expect = 3e-82,   Method: Composition-based stats.
 Identities = 111/356 (31%), Positives = 186/356 (52%), Gaps = 22/356 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           +++ I D++AYEK I  + V + + +++ K    +         EI+ +   + LF+ +E
Sbjct: 3   KIIDILDSIAYEKGIKSEHVETALKEALIKTGEKMVDHTLIFDAEIDRKNKRLKLFQKIE 62

Query: 68  VV---------EEVE------NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQ 112
           V+         EEV+      N    I+L  A++ D  +DIG  +   L   + GR A  
Sbjct: 63  VIKDDDKRLQGEEVDQYNNIINPENFIALSEAKEIDADLDIGDFLDYDLEFENMGRNAAT 122

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETI 171
                   +++    +    ++K K+G+II+G+V RV+   N  V++G   G++ R   I
Sbjct: 123 ILHNNFEYRLQRYIEENLVSKYKSKIGKIINGSVTRVDRAENTFVEIGEVKGMLTRKSRI 182

Query: 172 SRENLRPGDRVKSYIYDVRRE-QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVS 230
             E  + GD +K+ +  V  +   G  + LSRT P+F+  L  +EVPE+ +  + ++A +
Sbjct: 183 KGETFKVGDNLKAVVKAVTIDKTNGLIIELSRTSPKFLEALLALEVPELKDERITIEASA 242

Query: 231 RDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA 290
           R PGSRAK+A+ + D  IDP+G+ VG++G R+ AV  +L  E ID V +S     FV  A
Sbjct: 243 RIPGSRAKIALSTMDPQIDPIGSVVGVKGVRITAVSQQLHGENIDCVEYSTIPEMFVARA 302

Query: 291 LRPAIVTKVVLDEDVG-----RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           L PAI+  V + +        +  V +  +Q S AIG+ G N+RLAS LT   I++
Sbjct: 303 LSPAIIKSVQIIKSEKYDEKDKAIVTILSDQKSKAIGKSGLNIRLASMLTKCEIEL 358


>gi|194333210|ref|YP_002015070.1| transcription elongation factor NusA [Prosthecochloris aestuarii
           DSM 271]
 gi|194311028|gb|ACF45423.1| NusA antitermination factor [Prosthecochloris aestuarii DSM 271]
          Length = 517

 Score =  310 bits (796), Expect = 3e-82,   Method: Composition-based stats.
 Identities = 124/397 (31%), Positives = 210/397 (52%), Gaps = 29/397 (7%)

Query: 27  VLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD 86
           +  ++ D IQK  R  Y    +  + INPE GD  ++ L ++V+E++  + +IS+   R 
Sbjct: 44  IADLLKDIIQKQLRKDYDPEVEANIFINPERGDFEVYILKKIVDEIDIPSIEISIDEVRQ 103

Query: 87  RDPSIDIGGVVSD-PLPPMDF-GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
            D S+++G    + P+   ++  R ++Q  KQ + +KVR+ ER   Y E  +KVGE+I+G
Sbjct: 104 IDDSLEVGDYYEEGPINLEEYLTRKSIQIIKQSVQKKVRDLERQVVYEECLEKVGEVIAG 163

Query: 145 TVKRVEYGNVIVDLG-----NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ------ 193
            V ++    VI           + V+ + E I ++N R   R+K Y+  + RE+      
Sbjct: 164 EVYQIRPHEVIFSYNTSKDHRVELVLPKSEMIKKDNPRRTPRMKLYVKRIERERVKVKQD 223

Query: 194 -----------RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
                       G +V++SRT  +F+ KLF  EVPEI +G++ +K ++R PG RAK+AV 
Sbjct: 224 DGSIVEKEKPDGGMKVIVSRTDDRFLYKLFESEVPEILDGLIVIKGIARVPGERAKVAVE 283

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT--KVV 300
           S+ S IDPVGA VG RG R+Q++V EL +E ID++ ++ +   F+  AL+PA +    V 
Sbjct: 284 STSSRIDPVGASVGYRGKRIQSIVKELNNENIDVIYYTDEPQIFIARALQPAKIDPMTVH 343

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
            D       V++  +Q+  AIG+ G N+ LA +LTG+ ID+  +  D      +  +  +
Sbjct: 344 ADMKTRMARVMLKPDQIKYAIGKNGNNIHLAERLTGYEIDVYRDVIDKTLEDPNDIDIIE 403

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIAS 397
           F        + + + L+  G    +++    I EI  
Sbjct: 404 F---REEFGDDMIYQLLDSGLDTAKKVLQAGIEEIEQ 437


>gi|189499377|ref|YP_001958847.1| transcription elongation factor NusA [Chlorobium phaeobacteroides
           BS1]
 gi|189494818|gb|ACE03366.1| NusA antitermination factor [Chlorobium phaeobacteroides BS1]
          Length = 521

 Score =  310 bits (794), Expect = 5e-82,   Method: Composition-based stats.
 Identities = 121/397 (30%), Positives = 211/397 (53%), Gaps = 29/397 (7%)

Query: 27  VLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD 86
           +  ++ D IQK  R  Y    +  + INPE GD  ++ L  VV+EV+  + +I L+    
Sbjct: 44  IADLLKDIIQKQLRKDYDPEVEANIFINPERGDFEVYILKTVVDEVDLPSIEIGLEEVSR 103

Query: 87  RDPSIDIGGVVSD-PLPPMDF-GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
            D S+++G +  + P+   D+  R ++Q  KQ + +KVR+ E+   Y +  +KVGE+++G
Sbjct: 104 IDESLELGDMYEEGPVNLEDYLTRKSIQIIKQSVQKKVRDMEKQVVYEDCLEKVGEVVAG 163

Query: 145 TVKRVEYGNVIVDLG-----NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ------ 193
            V +V    VI           + V+ + E + ++N R   R+K Y+  + RE+      
Sbjct: 164 EVYQVRQNEVIFSYNTSKDHRVELVLPKSEMMKKDNPRRTPRMKLYVKRIEREKVKVRQD 223

Query: 194 -----------RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
                       G +V++SR   +F+ KLF  EVPEI +G++ +K ++R PG RAK+AV 
Sbjct: 224 DGSIVEKEKPDGGMKVIVSRIDDRFLYKLFESEVPEILDGLIVIKGIARVPGERAKVAVE 283

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT--KVV 300
           S+ S IDPVGA VG RG R+Q++V EL +E ID++ ++ D   ++  AL+PA +    V 
Sbjct: 284 STSSRIDPVGASVGYRGKRIQSIVKELNNENIDVINFTDDPQIYIARALQPAKIDPMTVH 343

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
            D    +  V++  EQ+  AIG+ G N+ LA +LTG+ +D+  +  D      +  +  +
Sbjct: 344 ADMKTHKARVMLKPEQIKYAIGKNGNNIHLAERLTGYDVDVYRDVIDKSMEDPNDIDIIE 403

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIAS 397
           F        + + + L+  G    +++   +I +I +
Sbjct: 404 F---REEFGDDMIYQLLDSGLDTAKKVLKAEIEDIEA 437


>gi|157414753|ref|YP_001482009.1| transcription elongation factor NusA [Campylobacter jejuni subsp.
           jejuni 81116]
 gi|157385717|gb|ABV52032.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni 81116]
 gi|307747392|gb|ADN90662.1| Transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni M1]
 gi|315931099|gb|EFV10073.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni 327]
          Length = 362

 Score =  310 bits (794), Expect = 5e-82,   Method: Composition-based stats.
 Identities = 103/340 (30%), Positives = 190/340 (55%), Gaps = 13/340 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  I +++A EK+++ + V   +A ++   A+ +YG   +  V  +P+   ++L++ + 
Sbjct: 3   KIADIIESIANEKNLNLENVREKVATALINTAKRIYGQEYEFFV--DPKN--LNLYQKIT 58

Query: 68  VVEEVEN-----YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           +V + +          I+L  A+   P ++IG  ++      + GR AV +  + +   +
Sbjct: 59  IVADNDERLQNKSESFIALSKAKSEAPDVEIGDELTYECSLENLGRTAVNTLHKELEYHI 118

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++      + ++K+KVG+++ GTV RV+   N  +++      + R   I  E  + GD 
Sbjct: 119 QKLLEQTIFEKYKNKVGQMVFGTVVRVDNEENTFIEIDELRAFLPRKNRIKGEKFKIGDV 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
            K+ I  V  + +G ++ LSRT P+F+  L   EVPEI +G V +   +R PG RAK+ +
Sbjct: 179 AKAVIRRVYTD-KGIKIELSRTSPKFLECLLEAEVPEIKDGYVNIIGCARIPGERAKIIL 237

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++ ++IDPVGA VG++G R+ AV  EL +E ID + ++ +S   +  AL PAIV  V +
Sbjct: 238 QANGANIDPVGATVGVKGVRINAVSKELHNENIDCIEFTNESEILISRALAPAIVNSVKI 297

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           ++   +  V +  EQ S AIG+ G N+RLAS L+G+ I++
Sbjct: 298 ED--KKAIVSLNSEQKSKAIGKNGINIRLASMLSGYEIEL 335


>gi|119356207|ref|YP_910851.1| transcription elongation factor NusA [Chlorobium phaeobacteroides
           DSM 266]
 gi|119353556|gb|ABL64427.1| NusA antitermination factor [Chlorobium phaeobacteroides DSM 266]
          Length = 518

 Score =  310 bits (794), Expect = 5e-82,   Method: Composition-based stats.
 Identities = 123/398 (30%), Positives = 208/398 (52%), Gaps = 29/398 (7%)

Query: 27  VLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD 86
           +  ++ D IQK  R  Y    +  + INPE GD  ++ L +VV EV+  + +IS+   R 
Sbjct: 44  IADLLKDIIQKQLRKDYDPEVEANIFINPERGDFEVYILKKVVSEVDLESIEISIDEVRK 103

Query: 87  RDPSIDIGGVVSD-PLPPMDF-GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
            D S+++G    + P+   D+  R ++Q  KQ + +KVR+ ER   Y E  +KVGE+++G
Sbjct: 104 IDDSLELGDYYEEGPIKLEDYLSRKSIQIIKQSVQKKVRDLERLVVYEECLEKVGEVVAG 163

Query: 145 TVKRVEYGNVIVDLG-----NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ------ 193
            V +V    VI           + V+ R E I ++N R   R+K Y+  + RE+      
Sbjct: 164 EVYQVRSNEVIFTYNTSKDHRVELVLPRAEMIKKDNPRRNPRMKLYVKRIEREKVKVRLD 223

Query: 194 -----------RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
                       G +V++SR   +F+ KLF  EVPEI +G++ +K ++R PG RAK+AV 
Sbjct: 224 DGGVVERDKPDGGMKVIVSRIDDRFLYKLFEHEVPEILDGLIVIKGIARVPGERAKVAVE 283

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT--KVV 300
           S+ + IDPVGA VG RG R+Q++V EL +E ID++ ++ +   ++  AL+PA +    V 
Sbjct: 284 STSARIDPVGASVGYRGKRIQSIVKELNNENIDVIYYTDEPQIYIARALQPAKIDPLTVH 343

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
            D    +  V++  +Q+  AIG+ G N+ LA +LTG+ ID+  +  D         +  +
Sbjct: 344 ADIKTRKARVMLKPDQIKYAIGKNGNNIHLAEKLTGYEIDVYRDVMDKSMEDPTDIDIIE 403

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASI 398
           F        + + + L+  G    +++    +  I  +
Sbjct: 404 F---REEFGDDMIYQLLDGGLDTAKKVLKAGVERIEEV 438


>gi|309804431|ref|ZP_07698499.1| transcription termination factor NusA [Lactobacillus iners LactinV
           09V1-c]
 gi|308166244|gb|EFO68459.1| transcription termination factor NusA [Lactobacillus iners LactinV
           09V1-c]
          Length = 248

 Score =  309 bits (793), Expect = 6e-82,   Method: Composition-based stats.
 Identities = 101/230 (43%), Positives = 147/230 (63%), Gaps = 2/230 (0%)

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP 178
           +Q++REAER     E+     E+I+GTV+RV+   V + +GN + V+  ++ +  E  +P
Sbjct: 1   MQRLREAERAHIIEEYSQYQNELITGTVERVDNRFVYIKIGNVEAVMPHNDQMPGEVYKP 60

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            DR+K  +  V  + +G Q+ +SRT P  + +LF  EVPE+YNG V++ +++R+ G R K
Sbjct: 61  QDRIKVLVTKVGSDAKGTQITVSRTAPGLVKRLFEQEVPEVYNGTVEIISIAREAGDRTK 120

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           +AV SSD +IDPVG  VG +GSRVQ +V EL  E ID+V +  D + ++ NAL PA V  
Sbjct: 121 IAVKSSDPNIDPVGTLVGPKGSRVQNIVNELSGENIDVVKYEEDPSDYIANALNPAEVIA 180

Query: 299 VVLDEDV--GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           V   E        VIVP  QLSLAIG++GQNVRLA++LT + IDI  E +
Sbjct: 181 VQFGEANDDKSALVIVPDYQLSLAIGKKGQNVRLAARLTEYKIDIKPESQ 230


>gi|193213433|ref|YP_001999386.1| transcription elongation factor NusA [Chlorobaculum parvum NCIB
           8327]
 gi|193086910|gb|ACF12186.1| NusA antitermination factor [Chlorobaculum parvum NCIB 8327]
          Length = 521

 Score =  309 bits (792), Expect = 8e-82,   Method: Composition-based stats.
 Identities = 122/397 (30%), Positives = 208/397 (52%), Gaps = 29/397 (7%)

Query: 27  VLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD 86
           +  ++ + IQK  R  Y    +  + INPE GD  ++ L ++VEEV+  T +I L   R 
Sbjct: 44  IADLLKEIIQKQLRKDYDPEVEANIFINPERGDFEVYILKKIVEEVDLPTIEIGLDEVRQ 103

Query: 87  RDPSIDIGGVVSD-PLPPMDF-GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
            D S+++G    + P+   DF  R ++Q  KQ + +KVR+ ER   Y +  +KVGE+++G
Sbjct: 104 IDDSLELGDYYEEGPIKLDDFLTRKSIQIIKQSVQKKVRDLERMAVYEDCLEKVGEVVAG 163

Query: 145 TVKRVEYGNVIVDLG-----NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ------ 193
            V +V    VI           + V+ + E + ++N R    +K Y+  + RE+      
Sbjct: 164 EVYQVRSNEVIFTYNTSKDHRVELVLPKSEMMKKDNPRRTPHMKLYVKRIERERVKVRND 223

Query: 194 -----------RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
                       G +V++SR   +F+ KLF  EVPEI +G++ +K ++R PG RAK+AV 
Sbjct: 224 DGTVEEREKPDGGMKVIVSRVDDRFLYKLFESEVPEILDGLIVIKGIARVPGERAKVAVE 283

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT--KVV 300
           S+ S IDPVGA VG RG R+Q++V EL +E ID++ ++ +   F+  AL+PA +    V 
Sbjct: 284 STSSRIDPVGATVGYRGKRIQSIVKELNNENIDVIYYTDEPQVFIARALQPAKIDPMTVH 343

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
            D    +  V++  +Q+  AIG+ G N+ LA +LTG+ ID+  +  D      +  +  +
Sbjct: 344 ADMKTRKARVMLKPDQIKYAIGKNGNNIHLAEKLTGYEIDVYRDVIDKSLEDPNDIDIIE 403

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIAS 397
           F        + + + L+  G    +++    + +I  
Sbjct: 404 F---REEFGDDMIYQLLDGGLDTAKKILKGGVEKIEE 437


>gi|110597607|ref|ZP_01385892.1| transcription termination factor NusA [Chlorobium ferrooxidans DSM
           13031]
 gi|110340727|gb|EAT59204.1| transcription termination factor NusA [Chlorobium ferrooxidans DSM
           13031]
          Length = 516

 Score =  308 bits (789), Expect = 2e-81,   Method: Composition-based stats.
 Identities = 124/395 (31%), Positives = 210/395 (53%), Gaps = 29/395 (7%)

Query: 27  VLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD 86
           +  ++ D IQK  R  Y    +  + INPE GD  ++ L ++V+EV+  + +ISL   R 
Sbjct: 44  IADLLKDIIQKQLRKDYDPEVESNIFINPERGDFEVYILKKIVKEVDIESIEISLDEVRK 103

Query: 87  RDPSIDIGGVVSD-PLPPMDF-GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
            D S+DIG    + P+   D+  R ++Q  KQ + +KVR+ ER   Y E  +KVGE+++G
Sbjct: 104 IDDSLDIGDYYEEGPIKLDDYLSRKSIQIIKQSVQKKVRDLERLVVYEECLEKVGEVVAG 163

Query: 145 TVKRVEYGNVIVDLG-----NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ------ 193
            V ++    VI           + V+ + E + ++N R   R+K YI  + RE+      
Sbjct: 164 EVYQIRSNEVIFTYNTSKDHRVELVLPKSEMMKKDNPRRTPRMKLYIKRIEREKVKTKLD 223

Query: 194 -----------RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
                       G +V++SR   +F+ KLF  EVPEI +G++ +KA++R PG RAK+AV 
Sbjct: 224 DGNVVEREKADGGMKVIVSRVDDRFLYKLFEHEVPEILDGLIVIKAIARVPGERAKVAVE 283

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT--KVV 300
           S+ + IDPVGA VG RG R+Q++V EL +E ID++ ++ +   ++  A++PA +    V 
Sbjct: 284 STSARIDPVGATVGYRGKRIQSIVKELNNENIDVIYYTDEPQIYISRAMQPAKIDPLTVH 343

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
            D    +  V++  +Q+  AIG+ G N+ LA +LTG+ ID+     D I++  +      
Sbjct: 344 ADPKTRKARVMLKPDQIKYAIGKNGNNIHLAEKLTGYEIDVYR---DVIDKSMEDPTDID 400

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEI 395
                    + + + L+  G    +++    + EI
Sbjct: 401 IIEFREEFGDDMIYQLLDGGLDTAKKVLKAGVEEI 435


>gi|254457123|ref|ZP_05070551.1| transcription termination factor NusA [Campylobacterales bacterium
           GD 1]
 gi|207085915|gb|EDZ63199.1| transcription termination factor NusA [Campylobacterales bacterium
           GD 1]
          Length = 377

 Score =  306 bits (786), Expect = 4e-81,   Method: Composition-based stats.
 Identities = 104/375 (27%), Positives = 189/375 (50%), Gaps = 21/375 (5%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L I DA+A+EK +  + VL  +  +  + A+ +          I+  T  I + + + 
Sbjct: 3   KILDIVDAIAHEKGLQPEKVLEALKTAFVQTAKRVIDRNFAFEASIDESTKSIEIVQTIT 62

Query: 68  VVEEVENYTCQ--------ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           V+ + ++   Q        IS+  AR+ D  +++   +  P    ++GR       + I 
Sbjct: 63  VLAD-DDQRLQDEEVAPAYISITDAREYDDQVELEDQLQVPHDLEEYGRTGASQLHREIE 121

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN-VIVDLGNSDGVIRRDETISRENLRP 178
             ++    D  + ++K K+G +++G V  V+  N   +++     ++     I  E  + 
Sbjct: 122 YHIQRLVEDELFNKYKSKIGSLVTGRVTSVDSHNATYIEVDEVRAILPMKSRIKGEVFKK 181

Query: 179 GDRVKSYIYDVRREQ-RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
           GD +K+ +  V  ++  G Q+ LSRT P+F+ +L  +EVPEI +G+V V+  +R PG RA
Sbjct: 182 GDHLKAVVRRVNLDKENGIQIELSRTSPKFLEELLALEVPEIADGVVIVERSARIPGERA 241

Query: 238 KLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT 297
           K+A+ S+   +D VGA VG++G R+ AV  EL  E ID V ++     F+   + PAI++
Sbjct: 242 KIALLSTHPQVDAVGATVGVKGVRINAVSQELIGENIDCVEYTTIPELFISRVMSPAIIS 301

Query: 298 KVVL----DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID------IITEEED 347
            V +    D +  +  + +P +Q S AIG+ G N+RLAS LTG  I+      + TE+ +
Sbjct: 302 HVEIIRNEDGEAEKAIITLPADQKSKAIGKSGINIRLASMLTGLNIELVENNTVTTEDGE 361

Query: 348 SINRQKDFNERTQFF 362
               +   +     F
Sbjct: 362 IEEAKDGVDALEALF 376


>gi|28493123|ref|NP_787284.1| transcription elongation factor NusA [Tropheryma whipplei str.
           Twist]
 gi|28572761|ref|NP_789541.1| transcription elongation factor NusA [Tropheryma whipplei TW08/27]
 gi|28410894|emb|CAD67279.1| N utilization transcriptional termination/antitermination factor
           [Tropheryma whipplei TW08/27]
 gi|28476163|gb|AAO44253.1| N utilization substance protein A [Tropheryma whipplei str. Twist]
          Length = 319

 Score =  306 bits (785), Expect = 5e-81,   Method: Composition-based stats.
 Identities = 120/341 (35%), Positives = 177/341 (51%), Gaps = 33/341 (9%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD--IRVEINPETGDISLFRLLE 67
           L +  AV  E+ +  D ++ +   ++  A     G      ++ ++N +TG+I L R+  
Sbjct: 7   LSVLRAVEREQRVAFDDLVRIAEQAVVMAYLRHTGLEDADLVKAKLNRKTGEIDL-RVKH 65

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
                                     G  +  P     F R+A  +AK+VI  K+R    
Sbjct: 66  -------------------------DGDFI--PYKSDAFSRMAATAAKRVITSKMRTLSD 98

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNV-IVDLGN-SDGVIRRDETISRENLRPGDRVKSY 185
           D  +  +K K+G ++SG + +    N  +V L   ++ ++R +E I  E    G  VK Y
Sbjct: 99  DSTFARYKTKIGTVLSGVISQSTSQNFRMVSLDRRTEAILRPEEQIPGEEYPHGKMVKVY 158

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           + DV    RG  V +SRTHP  +  LF  EVPEI +G V++ AVSR+ G R K++V S+ 
Sbjct: 159 VTDVTLGPRGSNVYVSRTHPGLINGLFLQEVPEIASGTVEIVAVSREAGHRTKVSVRSNS 218

Query: 246 SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDED 304
            S   VGACVG  G RV+AV +E+ +EKIDI+ +S D   +V NA+ PA    V VLD  
Sbjct: 219 KSTSAVGACVGEYGCRVRAVTSEICNEKIDIISYSDDLGQYVANAISPATAADVFVLDSR 278

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
              + V V KE+ SLAIG+ GQN RLA++LTG  IDI  +E
Sbjct: 279 QKVVRVYVSKEEYSLAIGKEGQNARLAARLTGAKIDIRIDE 319


>gi|189345843|ref|YP_001942372.1| transcription elongation factor NusA [Chlorobium limicola DSM 245]
 gi|189339990|gb|ACD89393.1| NusA antitermination factor [Chlorobium limicola DSM 245]
          Length = 513

 Score =  306 bits (784), Expect = 6e-81,   Method: Composition-based stats.
 Identities = 123/397 (30%), Positives = 209/397 (52%), Gaps = 29/397 (7%)

Query: 27  VLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD 86
           +  ++ D IQK  R  Y    +  + INPE GD  ++ L ++V+EV+    +ISL   R 
Sbjct: 44  IADLLKDIIQKQLRKDYDPEVESNIFINPERGDFEVYILRKIVQEVDIPAIEISLDEVRK 103

Query: 87  RDPSIDIGGVVSD-PLPPMDF-GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
            D S+D+G    + P+   D+  R ++Q  KQ + +KVR+ ER   Y E  +KVGE+++G
Sbjct: 104 IDESLDLGDFYEEGPIRLEDYLTRKSIQIIKQSVQKKVRDLERLVVYEECLEKVGEVVAG 163

Query: 145 TVKRVEYGNVIVDLG-----NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ------ 193
            V ++    VI           + V+ + E + ++N R   R+K Y+  + RE+      
Sbjct: 164 EVYQIRSNEVIFTYNTSKDHRVELVLPKSEMMKKDNPRRTPRMKLYVKRIEREKAKVRLD 223

Query: 194 -----------RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
                       G +V++SR   +F+ KLF  EVPEI +G++ +K ++R PG RAK++V 
Sbjct: 224 DGGVVEKEKPDGGMKVIVSRVDDRFLYKLFEHEVPEILDGLIVIKGIARVPGERAKVSVE 283

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT--KVV 300
           S+ + IDPVGA VG RG R+Q++V EL +E ID++ ++ +   ++  AL+PA +    V 
Sbjct: 284 STSARIDPVGASVGYRGKRIQSIVKELNNENIDVIYYTDEPQIYIARALQPAKIDPLTVH 343

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
            D    +  V++  +Q+  AIG+ G N+ LA +LTG+ ID+     D I++  +      
Sbjct: 344 ADIKTRKARVMLKPDQIKYAIGKNGNNIHLAEKLTGYEIDVYR---DVIDKSLEDPTDID 400

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIAS 397
                    + + + L+  GF   +++    I EI  
Sbjct: 401 IIEFREEFGDDMLYQLLDAGFDTAKKVLKAGIEEIEQ 437


>gi|283954248|ref|ZP_06371772.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni 414]
 gi|283794266|gb|EFC33011.1| transcription termination factor NusA [Campylobacter jejuni subsp.
           jejuni 414]
          Length = 362

 Score =  306 bits (784), Expect = 7e-81,   Method: Composition-based stats.
 Identities = 102/340 (30%), Positives = 189/340 (55%), Gaps = 13/340 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  I +++A EK+++ + V   +A ++   A+ +YG   +  V  +P+   ++L++ + 
Sbjct: 3   KIADIIESIASEKNLNLENVRERVATALINTAKRIYGQEYEFFV--DPKN--LNLYQKIT 58

Query: 68  VVEEVEN-----YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           +V + +          I+L  A+   P ++IG  ++      + GR AV +  + +   +
Sbjct: 59  IVTDNDERLQNKSESFIALSKAKSEAPDVEIGDELTYECSLENLGRTAVNTLHKELEYHI 118

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++      + ++K+KVG+++ G+V RV+   N  +++      + R   I  E  + GD 
Sbjct: 119 QKLLEQTIFEKYKNKVGQMVFGSVVRVDNEENTYIEIDELRAFLPRKNRIKGEKFKIGDV 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           VK+ I  V  + +G ++ LSRT P+F+  L   EVPEI +G V +   +R PG RAK+ +
Sbjct: 179 VKAVIRRVYTD-KGIKIELSRTSPKFLECLLEAEVPEIKDGYVNIVGCARIPGERAKIIL 237

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++  +IDPVGA VG++G R+ AV  EL +E ID +  + +S   +  AL PAI+  V +
Sbjct: 238 QANGVNIDPVGATVGVKGVRINAVSKELHNENIDCIESTNESEILISRALAPAIINSVKI 297

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           ++   +  V +  EQ S AIG+ G N+RLAS L+G+ I++
Sbjct: 298 ED--KKAIVSLNSEQKSKAIGKNGINIRLASMLSGYEIEL 335


>gi|315638400|ref|ZP_07893578.1| transcription termination factor NusA [Campylobacter upsaliensis
           JV21]
 gi|315481528|gb|EFU72154.1| transcription termination factor NusA [Campylobacter upsaliensis
           JV21]
          Length = 358

 Score =  306 bits (784), Expect = 7e-81,   Method: Composition-based stats.
 Identities = 104/361 (28%), Positives = 195/361 (54%), Gaps = 13/361 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  I +++A EK+++ + V   +  ++   A+ +YG   +  V  + +T  +SL++ + 
Sbjct: 3   KIADIIESIANEKNLELESVKDKVITALINTAKKIYGEEYEFFV--DKKT--LSLYQKIL 58

Query: 68  VVEEV-----ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           +V +      EN    I++  A+     ++IG  ++      + GR AV +  + +   +
Sbjct: 59  IVADDDERLDENKESFIAISKAKKEAKDVEIGDELTYECSLENLGRTAVNTLHKELEYHI 118

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++      + ++K+KVG+++ G+V RV+   N  +++      + R   I  E  + GD 
Sbjct: 119 QKLLEQTIFDKYKNKVGQMVFGSVVRVDSEENTYIEIDELRAFLPRKNRIKGEKFKVGDV 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           VK+ I  V  + +G ++ LSRT P+F+  L   EVPEI +G+V V   +R PG RAK+ +
Sbjct: 179 VKAVIRRVYTD-KGIKMELSRTSPKFLECLLEAEVPEIKDGLVSVVKCARIPGERAKIIL 237

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++ S+IDPVGA VG++G R+ AV  E+ +E ID + +S ++   +  AL PAI+  V +
Sbjct: 238 QANSSNIDPVGATVGVKGVRINAVSKEIHNENIDCIEYSSENEILIARALAPAIINSVKI 297

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           ++      V +  EQ S AIG+ G N+RL S L+G+ I++      +I+ ++        
Sbjct: 298 ED--KTAIVSLNSEQKSKAIGKNGINIRLTSMLSGFEIELKELGAKTISNEEAMKNLQDL 355

Query: 362 F 362
           F
Sbjct: 356 F 356


>gi|21673079|ref|NP_661144.1| transcription elongation factor NusA [Chlorobium tepidum TLS]
 gi|21646150|gb|AAM71486.1| N utilization substance protein A, putative [Chlorobium tepidum
           TLS]
          Length = 521

 Score =  305 bits (782), Expect = 1e-80,   Method: Composition-based stats.
 Identities = 122/397 (30%), Positives = 209/397 (52%), Gaps = 29/397 (7%)

Query: 27  VLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD 86
           +  ++ + IQK  R  Y    +  + INPE GD  ++ L ++V+EV+  T +I L   R 
Sbjct: 44  IADLLKEIIQKQLRKDYDPEVESNIFINPERGDFEVYILKKIVKEVDLPTIEIGLDEVRQ 103

Query: 87  RDPSIDIGGVVSD-PLPPMDF-GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
            D S+++G    + P+   D+  R ++Q  KQ + +KVR+ ER   Y E  +KVGE+++G
Sbjct: 104 IDDSLELGDYYEEGPIKLDDYLTRKSIQIIKQSVQKKVRDLERLAVYEECLEKVGEVVAG 163

Query: 145 TVKRVEYGNVIVDLG-----NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ------ 193
            V +V    VI           + V+ + E + ++N R   R+K Y+  + RE+      
Sbjct: 164 EVYQVRPNEVIFTYNTSKDHRVELVLPKSEMMKKDNPRRTPRMKLYVKRIEREKVKVRND 223

Query: 194 -----------RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
                       G +V++SR   +F+ KLF  EVPEI +G++ +K ++R PG RAK+AV 
Sbjct: 224 DGTVEEREKPDGGMKVIVSRVDDRFLYKLFESEVPEILDGLIVIKGIARVPGERAKVAVE 283

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT--KVV 300
           S+ S IDPVGA VG RG R+Q++V EL +E ID++ ++ +   F+  AL+PA +    V 
Sbjct: 284 STSSRIDPVGATVGYRGKRIQSIVKELNNENIDVIYYTDEPQVFIARALQPAKIDPMTVH 343

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
            D    +  V++  +Q+  AIG+ G N+ LA +LTG+ ID+  +  D      +  +  +
Sbjct: 344 ADMKTRKARVMLKPDQIKYAIGKNGNNIHLAEKLTGYEIDVYRDVIDKSLEDPNDIDIIE 403

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIAS 397
           F        + + + L+  G    +++    + +I  
Sbjct: 404 F---REEFGDDMIYQLLDGGLDTAKKILKGGVEKIEE 437


>gi|57242307|ref|ZP_00370246.1| transcription termination factor NusA [Campylobacter upsaliensis
           RM3195]
 gi|57016987|gb|EAL53769.1| transcription termination factor NusA [Campylobacter upsaliensis
           RM3195]
          Length = 358

 Score =  305 bits (782), Expect = 1e-80,   Method: Composition-based stats.
 Identities = 104/361 (28%), Positives = 194/361 (53%), Gaps = 13/361 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  I +++A EK+++ + V   +  ++   A+ +YG   +  V  + +T  +SL++ + 
Sbjct: 3   KIADIIESIANEKNLELESVKDKVITALINTAKKIYGEEYEFFV--DKKT--LSLYQKIL 58

Query: 68  VVEEV-----ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           +V +      EN    I++  A+     ++IG  ++      + GR AV +  + +   +
Sbjct: 59  IVADDDERLDENKESFIAISKAKKEAKDVEIGDELTYECSLENLGRTAVNTLHKELEYHI 118

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDR 181
           ++      + ++K+KVG+++ G+V RV+   N  +++      + R   I  E  + GD 
Sbjct: 119 QKLLEQTIFDKYKNKVGQMVFGSVVRVDSEENTYIEIDELRAFLPRKNRIKGEKFKVGDV 178

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           VK+ I  V  + +G ++ LSRT P+F+  L   EVPEI +G V V   +R PG RAK+ +
Sbjct: 179 VKAVIRRVYTD-KGIKMELSRTSPKFLECLLEAEVPEIKDGFVSVVKCARIPGERAKIIL 237

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
            ++ S+IDPVGA VG++G R+ AV  E+ +E ID + +S ++   +  AL PAI+  V +
Sbjct: 238 QANSSNIDPVGATVGVKGVRINAVSKEIHNENIDCIEYSSENEILIARALAPAIINSVKI 297

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQF 361
           ++      V +  EQ S AIG+ G N+RL S L+G+ I++      +I+ ++        
Sbjct: 298 ED--KTAIVSLNSEQKSKAIGKNGINIRLTSMLSGFEIELKELGAKTISNEEAMKNLQDL 355

Query: 362 F 362
           F
Sbjct: 356 F 356


>gi|78187634|ref|YP_375677.1| transcription elongation factor NusA [Chlorobium luteolum DSM 273]
 gi|78167536|gb|ABB24634.1| NusA antitermination factor [Chlorobium luteolum DSM 273]
          Length = 553

 Score =  304 bits (779), Expect = 3e-80,   Method: Composition-based stats.
 Identities = 125/397 (31%), Positives = 208/397 (52%), Gaps = 29/397 (7%)

Query: 27  VLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD 86
           +  ++ D IQK  R  Y    +  + INPE GD  ++ L ++VEEV+    +ISL+  R 
Sbjct: 44  IADLLKDIIQKQLRKDYDPEVEANIFINPERGDFEVYILKKIVEEVDIAPIEISLEEIRR 103

Query: 87  RDPSIDIGGVVSD-PLPPMDF-GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
            D S+++G    + P+   D+  R ++Q  KQ + +KVR+ ER   Y E  +KVGE+I+ 
Sbjct: 104 IDESLEVGDYYEEGPIKLDDYLTRKSIQIIKQSVQKKVRDLERMVVYEECLEKVGEVIAA 163

Query: 145 TVKRVEYGNVIVDLG-----NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ------ 193
            V +V    VI           + V+ + E + ++N R   R+K Y+ ++ RE+      
Sbjct: 164 EVYQVRSNEVIFTYNTSKDHRVELVLPKSEMMKKDNPRRTPRMKLYVKNIERERVKVRLD 223

Query: 194 -----------RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
                       G +V++SR   +F+ KLF  EVPEI +G++ +K ++R PG RAK+AV 
Sbjct: 224 DGTMEEKEKADGGMKVIVSRVDDRFLYKLFEQEVPEILDGLIVIKGIARVPGERAKVAVE 283

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT--KVV 300
           S+ + IDPVGA VG RG R+Q++V EL +E ID++ +S +   ++  AL+PA +    V 
Sbjct: 284 STSARIDPVGATVGYRGKRIQSIVKELNNENIDVIYYSDEPQVYISRALQPAKIDPLTVH 343

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
            D    +  V++  +Q+  AIG+ G N+ LA +LTG+ ID+     D I+R  +      
Sbjct: 344 ADMKTRKARVMLKPDQIKYAIGKNGNNIHLAEKLTGYEIDVYR---DVIDRSMEDPTDID 400

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIAS 397
                    + + + L+  G    ++     + EI  
Sbjct: 401 IIEFREEFGDDMIYQLLDAGLDTAKKALKAGVEEIEQ 437


>gi|222823361|ref|YP_002574935.1| transcription elongation factor NusA [Campylobacter lari RM2100]
 gi|222538583|gb|ACM63684.1| transcription elongation factor NusA [Campylobacter lari RM2100]
          Length = 363

 Score =  303 bits (778), Expect = 4e-80,   Method: Composition-based stats.
 Identities = 105/367 (28%), Positives = 199/367 (54%), Gaps = 17/367 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETG-DISLFRLL 66
           ++  I +++A EK++  + V   +  ++   A+ +YG   +  V    ++G ++ L++ +
Sbjct: 3   KITDIIESIANEKNLQIEDVRERVKKALINTAKKIYGDKYEFFV----DSGKNLQLYQKI 58

Query: 67  EVVEEVENYTCQ------ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ 120
            VV + ++   +      I+L  AR     ++IG  ++      + GR AV    + +  
Sbjct: 59  VVVSD-DDERLESENEHFIALSKARAEAKDVEIGDELTYECSLENLGRTAVNILHKELEY 117

Query: 121 KVREAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPG 179
            +++   ++ Y +++  VG ++ G+V RV+   N  V++      + R   I  E  + G
Sbjct: 118 NIQKLLEEKIYEKYQKMVGHMVFGSVVRVDSEENTYVEIDEFRAYLPRKNRIKGEKFKVG 177

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           D +K+ I  V  ++ G ++ LSRT P+F+  L   EVPEI +G++ + A +R PG RAK+
Sbjct: 178 DVIKAVIRHVYIDKSGMRMELSRTSPKFLEALLKAEVPEIKDGLINIYASARIPGERAKI 237

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
            + ++  S+D VGA VG++G R+ AV  EL++E ID + +S + A  +  +L PAI+  V
Sbjct: 238 ILQANSPSVDAVGATVGIKGVRINAVSKELKNENIDCIEYSNEMAILITRSLAPAIINSV 297

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI--ITEEEDSINRQKDFNE 357
            +++   +  V +  EQ S AIG+ G N+RLAS L G+ I++  I  E+ + N+++ F  
Sbjct: 298 SIED--KKAIVTLNSEQKSKAIGKSGINIRLASMLLGYEIELNEINNEDKTNNQEEAFKN 355

Query: 358 RTQFFMQ 364
               F +
Sbjct: 356 LKALFGE 362


>gi|288817343|ref|YP_003431690.1| transcription elongation factor [Hydrogenobacter thermophilus TK-6]
 gi|288786742|dbj|BAI68489.1| transcription elongation factor [Hydrogenobacter thermophilus TK-6]
 gi|308750950|gb|ADO44433.1| transcription termination factor NusA [Hydrogenobacter thermophilus
           TK-6]
          Length = 327

 Score =  303 bits (778), Expect = 4e-80,   Method: Composition-based stats.
 Identities = 128/342 (37%), Positives = 205/342 (59%), Gaps = 25/342 (7%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L ++ + VA EK++   +V   + ++I  A +        ++VE+  E   I ++ +   
Sbjct: 5   LKKLIEQVAKEKNLPEWIVEGALKNAIALAVKKDRKLKEHLQVELLEE--GIKVYIVKRN 62

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
             E   +  +IS +                      D  R+A  +AK+  ++++ +AE +
Sbjct: 63  NSETVRFPLEISTE----------------------DVNRIAAYAAKEEFLKELEKAEEE 100

Query: 129 RQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           R YLEF ++ GEI  G V+RV E G+V+VDLG   GV+ + E I +E+ R G+R+K+ + 
Sbjct: 101 RGYLEFVEQEGEITVGIVRRVLENGDVLVDLGRVMGVLPKREQIPKESYRQGERIKALVL 160

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +VR+ +   +++LSRTHP+F+ KL   EVPEI +G +++KA++R+PG RAK+ V + D  
Sbjct: 161 EVRKHRGRYEIILSRTHPKFLRKLLEAEVPEIKSGEIEIKAITREPGERAKVLVHAKDMK 220

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG  VG+RGSR+  V  EL  EKID++ W+ +    +  +L PA VTKV L     R
Sbjct: 221 MDPVGVIVGLRGSRINPVSKELSGEKIDVIRWTENVEELIKKSLSPAPVTKVRLIPKDKR 280

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
            EV VPKE+LSLAIG+ G NV+LA+++TGW ID+++EE+   
Sbjct: 281 AEVAVPKEKLSLAIGKHGVNVKLANRITGWYIDVLSEEDFEK 322


>gi|85057852|ref|YP_456768.1| transcription elongation factor NusA [Aster yellows witches'-broom
           phytoplasma AYWB]
 gi|84789957|gb|ABC65689.1| N utilization substance protein A [Aster yellows witches'-broom
           phytoplasma AYWB]
          Length = 357

 Score =  303 bits (778), Expect = 4e-80,   Method: Composition-based stats.
 Identities = 107/358 (29%), Positives = 192/358 (53%), Gaps = 12/358 (3%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M+S N  +LL   D +A E  +D+D V+   A  +    +  +   S  ++ +  +  +I
Sbjct: 1   MISKNFFKLL---DKIAQESGLDKDQVIDAFAKGLISGCKKNHKVKS-CKIHLKEDKSEI 56

Query: 61  SLFRLLEVVEEVE------NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSA 114
            L++   V +E          +  I+L+ A+   P   IG V+   + P DF   AV+  
Sbjct: 57  ILYKQFLVADEATISTINLKESTPITLEEAQQIKPHAKIGQVIDIKVDPKDFNLYAVKEF 116

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISR 173
           K    +++ + +R+  Y  FK + G++IS  +         ++L      ++ + E  S 
Sbjct: 117 KNQFNEELTKKKRENIYNFFKQQEGKLISAKIISENDKFYNLELEKEITTLLPKKEIASN 176

Query: 174 ENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDP 233
             ++ G+R++ ++ +V++  + P++ +S  H   +VK+    +PEI  GIV++  V+R  
Sbjct: 177 NEMQVGERIQVFLSEVKKTTKWPKIFVSCNHVGLVVKVLEENIPEIQEGIVKIAGVARIS 236

Query: 234 GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP 293
           G R K+ +FS D+ ID +G+C+G R +R++ V+  L+ EKID+ +WS D    + NAL+P
Sbjct: 237 GERTKIGLFSCDAQIDAIGSCIGERSNRIKNVIKILKGEKIDLFIWSDDPQELIANALKP 296

Query: 294 AIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
           A   +VV+ D+       IVP +Q SLAIG+ G+NV+LA ++T W IDI T ++  I 
Sbjct: 297 ASCLQVVIKDDINKCALAIVPDDQFSLAIGKLGKNVKLAVEVTKWNIDIKTLDQAQIE 354


>gi|260578921|ref|ZP_05846824.1| N utilization substance protein A [Corynebacterium jeikeium ATCC
           43734]
 gi|258602895|gb|EEW16169.1| N utilization substance protein A [Corynebacterium jeikeium ATCC
           43734]
          Length = 292

 Score =  303 bits (777), Expect = 5e-80,   Method: Composition-based stats.
 Identities = 112/309 (36%), Positives = 173/309 (55%), Gaps = 32/309 (10%)

Query: 52  EINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAV 111
           +I+P +G+++++++                    ++D   ++ G + D   P +FGR   
Sbjct: 2   DIDPISGEVTIYQV--------------------EKDEEGNVTGRIDD--TPKNFGRDGA 39

Query: 112 QSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV----KRVEYGNVIVDLG----NSDG 163
            + ++ I  +++ A    +Y E+ +    ++SG V    +  E G  IV LG      DG
Sbjct: 40  LAVREAIRFRIKSARVQNRYDEYAELRYRVVSGVVSADARANERGVTIVHLGTEANGQDG 99

Query: 164 VIRRDETISRENLRPGDRVKSYIYDV-RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNG 222
            I   E I  E L  G RVK+++ DV     R  Q+ LSRTHP+ +  LF +EVPE+ +G
Sbjct: 100 QILPAEHIPGEELEHGMRVKAFVTDVINNANRMVQINLSRTHPELVKGLFALEVPEVADG 159

Query: 223 IVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPD 282
            V++ +V+R+ G R K+AV S+   ++  GAC+G RG RV  ++ EL  EKIDI+ +S D
Sbjct: 160 SVEIVSVAREAGHRTKIAVRSTVKGLNAKGACIGPRGQRVSNIMQELGGEKIDIIDYSDD 219

Query: 283 SATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            ATFV NAL P+ V  V + D ++     +VP  QLSLAIGR GQN RLA++LTGW IDI
Sbjct: 220 PATFVGNALSPSKVVSVKVTDPEMQIARAVVPDYQLSLAIGREGQNARLAARLTGWKIDI 279

Query: 342 ITEEEDSIN 350
            +E + +  
Sbjct: 280 RSETDAAAE 288


>gi|291276369|ref|YP_003516141.1| transcription termination factor [Helicobacter mustelae 12198]
 gi|290963563|emb|CBG39395.1| transcription termination factor [Helicobacter mustelae 12198]
          Length = 369

 Score =  302 bits (774), Expect = 9e-80,   Method: Composition-based stats.
 Identities = 103/335 (30%), Positives = 180/335 (53%), Gaps = 6/335 (1%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           + I + +AYEK I  D+VL ++ + I K A+          VE +P+   + L   L V 
Sbjct: 1   MDIIEIIAYEKGIPYDMVLDIVKNLIIKTAKQEINEEIQYSVEESPKEKTLKLIHNLTVC 60

Query: 70  EEVE-----NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVRE 124
            + +     +    I+LK A++ D S+ IG ++   L   +  R  V    Q +  +++ 
Sbjct: 61  SDEDEKAENDKHHFIALKDAKNIDASLSIGDIIKSELTLENMSRGTVNKIFQDLEYQLQR 120

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLRPGDRVK 183
           +  ++ +  FK+K+G+I+SG V  V+   N  +++ +   ++     I  E  + GD + 
Sbjct: 121 SMEEQLFKSFKEKIGKIVSGVVLEVDAQENTFIEIHDIRAILPLKNRIKGERFQNGDTIS 180

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
           + +  V+ ++ G  + LSRT P+ + +L  +EVPEI +G V ++  +R PG RAK+AVFS
Sbjct: 181 AILKFVKMDKNGIYLELSRTTPKMLEELLMLEVPEIKDGEVIIQKTARIPGDRAKVAVFS 240

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE 303
           ++  ID +G+ VG++G R+ AV  +L  E ID + +S     F+  AL PA +  V + +
Sbjct: 241 TNPKIDAIGSTVGVKGVRINAVGRQLNGENIDCIEYSDVPEIFITRALAPANIINVQIKQ 300

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
           +    +V +   Q S AIG+ G N+RL S LTG+ 
Sbjct: 301 EELIAKVKLMASQKSKAIGKNGVNIRLVSMLTGYN 335


>gi|224438382|ref|ZP_03659309.1| transcription elongation factor NusA [Helicobacter cinaedi CCUG
           18818]
 gi|313144824|ref|ZP_07807017.1| transcription elongation factor NusA [Helicobacter cinaedi CCUG
           18818]
 gi|313129855|gb|EFR47472.1| transcription elongation factor NusA [Helicobacter cinaedi CCUG
           18818]
          Length = 398

 Score =  302 bits (774), Expect = 1e-79,   Method: Composition-based stats.
 Identities = 104/358 (29%), Positives = 180/358 (50%), Gaps = 25/358 (6%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L I D +AY+K +D  VVL ++ + + K A+     +    VE + +   + LF   +
Sbjct: 3   KILDIIDLIAYDKGLDNGVVLEIVKNGLIKIAQEEINPLYHYIVEPDVKERILKLFYRKK 62

Query: 68  VVEE-----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V  +      E+    I L  A++    + +G  +   L   +  R A+      +   +
Sbjct: 63  VCADDVKLTEEDLATSIPLSQAKEFG-DVSVGDELDCELQLDEMSRGAINKLFLNLEYNL 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           + +  D+    F+ ++G+I++G V  V E GN  V++ +   ++ +   I  E+ + GD 
Sbjct: 122 QRSIEDQILQGFRAQLGKIVNGQVVGVDERGNTFVEIDSIRALLPQKNRIKGESFKVGDT 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +++ +  V   + G QV LSRT P+F+ +L  +EVPEI +  V +   +R PG RAK+AV
Sbjct: 182 IRAVLKFVGINKNGLQVELSRTTPKFLEELLALEVPEIKDNEVMIFKSARIPGDRAKVAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S++  IDP+G CVG++G R+ AV  EL +E ID V +      F+  AL PA +  V +
Sbjct: 242 YSNNPRIDPIGCCVGVKGVRINAVSKELANENIDCVEYHSTLEIFIAKALTPAQILSVKI 301

Query: 302 DEDV------------------GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            E                     +  V++  +Q S AIG+ G N+RLAS L    I++
Sbjct: 302 QEQNIEQSERENMEGEKEKNERKKAIVLIKSDQKSKAIGKGGVNIRLASMLCDCDIEL 359


>gi|254373566|ref|ZP_04989053.1| hypothetical protein FTCG_01522 [Francisella tularensis subsp.
           novicida GA99-3549]
 gi|151571291|gb|EDN36945.1| hypothetical protein FTCG_01522 [Francisella novicida GA99-3549]
          Length = 344

 Score =  301 bits (772), Expect = 2e-79,   Method: Composition-based stats.
 Identities = 105/314 (33%), Positives = 176/314 (56%), Gaps = 32/314 (10%)

Query: 203 THPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRV 262
           +    +  LF +EVPE+   ++ +  V R+PG R+K+ V S+D  IDP GACVG+RGSR+
Sbjct: 60  SSNTMLKALFKLEVPEVEEELINIVNVVREPGFRSKVTVKSNDQRIDPCGACVGVRGSRI 119

Query: 263 QAVVTELRDEKIDIVVWSPDSATFVINALRP---AIVTKVVLDEDVGRIEVIVPKEQLSL 319
            ++++EL  EK+D+++W+ D   + IN+L P   A + +V +DE+   ++++V +E LS 
Sbjct: 120 HSIMSELNGEKVDVILWNEDMVQYAINSLSPVDAADILEVNVDEETNSMDIVVKQESLSK 179

Query: 320 AIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAE 379
           AIG+ G NVRLAS L GW I+++++ E    +        + F++A+++D   A +L+ E
Sbjct: 180 AIGKNGVNVRLASSLIGWKINVLSDAEQEEKQM----SIVEKFVEALDIDHDFALVLIEE 235

Query: 380 GFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCS 439
           G   +E+LA +  +E+  IEGFDEE   E+Q RA+  +          +     +++L  
Sbjct: 236 GIETLEDLAYLDRAELLEIEGFDEEIVDELQERAKAVILSQA------LGGKKPAQDLLD 289

Query: 440 IPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVE 499
           + G+   +   L +N I TMEDLA  SVD+L                 L  +   ++Q  
Sbjct: 290 MQGMSLDLAEQLAQNNIVTMEDLAELSVDEL-----------------LDIVDMDEEQAT 332

Query: 500 SMIIHARYKMGWIE 513
           ++I+ AR    W E
Sbjct: 333 NLIMQARAP--WFE 344


>gi|42565347|gb|AAS20956.1| NusA [Clover phyllody phytoplasma]
          Length = 357

 Score =  300 bits (769), Expect = 4e-79,   Method: Composition-based stats.
 Identities = 107/358 (29%), Positives = 193/358 (53%), Gaps = 12/358 (3%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M+S N  +LL   D +A E+ +D+D V+   A  +    +  +   S  ++++  +  +I
Sbjct: 1   MISKNFFKLL---DKIAQERDLDKDQVIGAFAKGLISGCKKNHKVKS-CKIQLKEDKSEI 56

Query: 61  SLFRLLEVVEEVENYT------CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSA 114
            L++   V +E    T        I+L+ A+   P   IG V+   + P DF   AV+  
Sbjct: 57  ILYKQFLVADEATMSTINLKESTPITLEEAQQIKPHAKIGQVIDIKVDPKDFNLYAVKEF 116

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISR 173
           K    +++ + +R+  Y  FK + G++IS  +         ++L      ++ + E  S 
Sbjct: 117 KNQFNEELTKKKRENIYNFFKQQEGKLISAKIISENDKFYNLELEKEITTLLPKKEIASN 176

Query: 174 ENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDP 233
             ++ G+R++ ++ +VR+  + P++ +S  H   +VK+    +PEI  GIV++  V+R  
Sbjct: 177 NEMQVGERIQVFLSEVRKTTKWPKIFVSCNHVGLVVKVLEENIPEIQEGIVKIAGVARIS 236

Query: 234 GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP 293
           G R K+ + S D+ +D +G+C+G R +R++ V+  L+ EK+D+ VWS D    + NAL+P
Sbjct: 237 GERTKIGLLSCDAQVDAIGSCIGERSNRIKNVIKILKGEKVDLFVWSDDPQELIANALKP 296

Query: 294 AIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
           A   +VV+ D+       IVP +Q SLAIG+ G+NV+LA ++T W IDI T ++  I 
Sbjct: 297 ASCLQVVIKDDINKYALAIVPDDQFSLAIGKLGKNVKLAVEVTKWNIDIKTLDQAQIE 354


>gi|39938634|ref|NP_950400.1| transcription elongation factor NusA [Onion yellows phytoplasma
           OY-M]
 gi|39721743|dbj|BAD04233.1| transcription terminator [Onion yellows phytoplasma OY-M]
          Length = 357

 Score =  299 bits (766), Expect = 1e-78,   Method: Composition-based stats.
 Identities = 108/356 (30%), Positives = 193/356 (54%), Gaps = 12/356 (3%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M+S N  +LL   D +A E+ +D+D V+   A  +    +  +   S  ++E+  +  +I
Sbjct: 1   MISKNFFKLL---DKIAQERDLDKDQVIDAFAKGLISGCKKNHKVKS-CKIELKEDKSEI 56

Query: 61  SLFRLLEVVEEVENYT------CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSA 114
            L++   V +E    T        I+L+ A+   P   IG V+   + P DF   AV+  
Sbjct: 57  ILYKQFLVADEATMSTINLKESTPITLEEAQQIKPHAKIGQVIDIKVDPKDFNLYAVKEL 116

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISR 173
           K    +++ + +R+  Y  FK + G++IS  +         ++L      ++ + E  S 
Sbjct: 117 KNQFNEELTKKKRESIYNFFKQQEGKLISAKIISENDKFYNLELEKEITTLLPKKEIASN 176

Query: 174 ENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDP 233
             ++ G+R++ ++ +VR+  + P++ +S  H   +VK+    +PEI  GIV++  V+R  
Sbjct: 177 NEMQVGERIQVFLSEVRKTTKWPKIFVSCNHVGLVVKVLEENIPEIQEGIVKIAGVARIS 236

Query: 234 GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP 293
           G R K+ + S D+ +D +G+C+G R +R++ V+  L+DEK+D+ VWS D    + NAL+P
Sbjct: 237 GERTKIGLLSCDAQVDAIGSCIGERSNRIKNVIKILKDEKVDLFVWSDDPQELIANALKP 296

Query: 294 AIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           A   +VV+ D+       IVP +Q SLAIG+ G+NV+LA ++T W IDI T ++  
Sbjct: 297 ASCLQVVIKDDINKYALAIVPDDQFSLAIGKLGKNVKLAVEVTKWNIDIKTLDQAQ 352


>gi|32266771|ref|NP_860803.1| transcription elongation factor NusA [Helicobacter hepaticus ATCC
           51449]
 gi|32262823|gb|AAP77869.1| transcription termination factor NusA [Helicobacter hepaticus ATCC
           51449]
          Length = 375

 Score =  298 bits (764), Expect = 2e-78,   Method: Composition-based stats.
 Identities = 107/356 (30%), Positives = 181/356 (50%), Gaps = 11/356 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L I D +AY+K ++   VL ++ + + K A+       D  VE + +   + LF  ++
Sbjct: 3   KILDIIDLIAYDKGLESQAVLEIVKEGLIKIAQEEINPHYDYFVEQDAKERTLKLFYRMK 62

Query: 68  VVEEVENYTCQ-----ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V  + ++ + +     + L  A+     + IG  V   L      R A+      +   +
Sbjct: 63  VCADEQDLSEENLGTFLPLSQAKGLG-DVSIGDEVDCELQLDAMSRGAINKLFLNLEYNL 121

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           + +  ++    F+  VG+I++G V  ++  GN  +++ +   ++ +   I  EN + GD 
Sbjct: 122 QRSIENQILQNFRAMVGKIVNGQVVGIDDSGNTFIEIESIRAILPQKNRIKGENFKVGDC 181

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           V++ +  V   + G QV LSRT P+F+ +L  MEVPEI +  V +   +R PG RAK+AV
Sbjct: 182 VRAILKFVGINRNGLQVELSRTTPKFLEELLAMEVPEIKDNEVIIHKSARIPGDRAKVAV 241

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           +S+ + IDP+G CVG++G R+ AV  EL +E ID V +      FV  AL PA V  V +
Sbjct: 242 YSNSARIDPIGCCVGVKGVRINAVSKELANENIDCVEYHSTLEIFVAKALTPAQVVSVKI 301

Query: 302 DEDV----GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
           +E       +  V +  EQ S AIG+ G N+RLAS L    I++    E      +
Sbjct: 302 EEAQEGERKKAIVQIKSEQKSKAIGKNGVNIRLASMLCECDIELQEITESKPLENE 357


>gi|162447183|ref|YP_001620315.1| transcription elongation factor NusA [Acholeplasma laidlawii PG-8A]
 gi|161985290|gb|ABX80939.1| transcription termination factor [Acholeplasma laidlawii PG-8A]
          Length = 358

 Score =  296 bits (760), Expect = 4e-78,   Method: Composition-based stats.
 Identities = 98/350 (28%), Positives = 175/350 (50%), Gaps = 9/350 (2%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
             Q  + VA +  ++++ V       +  A +   G  +  RVE   E  ++ ++    V
Sbjct: 6   FFQNIEEVAEDNDLNKEQVFHAFEQGLIAACKKQLGVQT-CRVEFKEEKHELLIYGQYYV 64

Query: 69  VEEVEN------YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           + E E           + L+ A+    S   G ++   + P +F   A +  K    + +
Sbjct: 65  LPEGELNLELDKKYTFLKLEDAKALKKSAKAGEILEVKIEPSEFSYNASRDLKHRFNEVL 124

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDR 181
            + +++  Y   KD   E+++  V   E     +++      ++ + E +  +    GDR
Sbjct: 125 NQIKKENIYQGLKDLQYEMVTARVLEEEKDFYRIEINKDVITMLPKKEALPTDKFHVGDR 184

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+ DV  + +GP++ +SRTH   + +L    VPEI +G ++V  ++RDPG R+K+ +
Sbjct: 185 IKVYVTDVEMKTKGPKIYVSRTHVALVTRLLEEYVPEIKDGTIEVLGIARDPGDRSKVGL 244

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-V 300
            S++ ++D +GA VG  G R++ +   L  EKID+  WS +    + N+L+PA V  V  
Sbjct: 245 KSNNENVDVIGATVGEGGVRIKEISKFLSGEKIDLFRWSDNEQELIGNSLQPAPVVAVTR 304

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
           ++        IVP  QLSLAIG+ GQNV+LA Q +GW+IDI +E   +  
Sbjct: 305 VNPKEKSALAIVPDAQLSLAIGKLGQNVKLAVQASGWSIDIKSETTAAEE 354


>gi|325138660|gb|EGC61216.1| Transcription elongation protein nusA [Neisseria meningitidis
           ES14902]
          Length = 277

 Score =  296 bits (759), Expect = 5e-78,   Method: Composition-based stats.
 Identities = 115/274 (41%), Positives = 173/274 (63%), Gaps = 9/274 (3%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
           E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 4   EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 63

Query: 67  EVV--EEVENYTCQISLKVARDRDP--SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +V  E+      + +++  ++  P  +I IG    + LP   FGR A Q+AKQ+I+Q++
Sbjct: 64  LIVADEDYTYPDVEKTIEEIQEEIPGTTIQIGEYYEEQLPNEGFGRQAAQTAKQIILQRI 123

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETISRENLRPGD 180
           R+AER++   EF     +I+SGTVKRVE   +IV++  G  D +I RD+ I REN R GD
Sbjct: 124 RDAEREQNLNEFLAVKEDIVSGTVKRVERHGIIVEVVAGKLDALIPRDQMIPRENFRSGD 183

Query: 181 RVKSYIYDVRR--EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
           R+++    V         QV+LSRT   F+VKL+  EVPEI +G+++++AV+RDPG RAK
Sbjct: 184 RIRALFLRVEEIGNTGRKQVILSRTSGDFLVKLYANEVPEIADGMLEIRAVARDPGQRAK 243

Query: 239 LAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDE 272
           +AV ++D  IDP G C+G+RGSRV AV  EL  E
Sbjct: 244 VAVKANDQRIDPQGTCIGVRGSRVNAVSNELSGE 277


>gi|145220365|ref|YP_001131074.1| transcription elongation factor NusA [Prosthecochloris vibrioformis
           DSM 265]
 gi|145206529|gb|ABP37572.1| NusA antitermination factor [Chlorobium phaeovibrioides DSM 265]
          Length = 551

 Score =  295 bits (757), Expect = 9e-78,   Method: Composition-based stats.
 Identities = 120/395 (30%), Positives = 208/395 (52%), Gaps = 29/395 (7%)

Query: 27  VLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD 86
           +  ++ D IQK  R  Y    +  + INPE GD  ++ L ++VEEV+    +ISL+  R 
Sbjct: 44  IADLLKDIIQKQLRKDYDPEVEANIFINPERGDFEVYILKKIVEEVDIAPIEISLEEIRK 103

Query: 87  RDPSIDIGGVVSD-PLPPMDF-GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
            D S+++G    + P+   ++  R ++Q  KQ + +KVR+ ER   Y E  +KVGE+++ 
Sbjct: 104 IDESLEVGDFYEEGPIKLDEYLTRKSIQIIKQSVQKKVRDLERMVVYEECLEKVGEVVAA 163

Query: 145 TVKRVEYGNVIVDLG-----NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ------ 193
            V +V    VI           + V+ + E + ++N R   R+K Y+ ++ RE+      
Sbjct: 164 EVYQVRSNEVIFTYNTTKDHRVELVLPKSEMMKKDNPRRTPRMKLYVKNIERERVKIRLE 223

Query: 194 -----------RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
                       G +V++SR   +F+ KLF  EVPEI +G++ +K ++R PG RAK+AV 
Sbjct: 224 DGTIEEKEKADGGMKVIVSRVDDRFLYKLFEQEVPEILDGLIVIKGIARVPGERAKVAVE 283

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT--KVV 300
           S+ + IDPVGA VG RG R+Q++V EL +E ID++ ++ +   ++  AL+PA +    V 
Sbjct: 284 STSARIDPVGATVGYRGKRIQSIVKELNNENIDVIYYNDEPQVYISRALQPAKIDPLTVH 343

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
            D    +  V++  +Q+  AIG+ G N+ LA +LTG+ I++     D I++  +      
Sbjct: 344 ADMKTRKARVMLKPDQIKYAIGKNGNNIHLAEKLTGYEIEVYR---DVIDKSMEDPTDID 400

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEI 395
                    + + + L+  G    + +    + EI
Sbjct: 401 IIEFREEFGDDMIYQLLDAGLDTAKRVLKAGVDEI 435


>gi|197294650|ref|YP_001799191.1| transcription elongation factor NusA [Candidatus Phytoplasma
           australiense]
 gi|171853977|emb|CAM11940.1| Transcription elongation factor [Candidatus Phytoplasma
           australiense]
          Length = 357

 Score =  293 bits (751), Expect = 5e-77,   Method: Composition-based stats.
 Identities = 96/351 (27%), Positives = 178/351 (50%), Gaps = 12/351 (3%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           M+S    + L   D ++ E+ + ++ V+      +    +     +   RV +     ++
Sbjct: 1   MISKGFFKFL---DKISQERDLPKEEVVEAFTKGLIAGCKKN-NRVKSCRVHLKENKNEV 56

Query: 61  SLFRLLEVVEEVEN------YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSA 114
            L++   VV+E             ISL+ A+       +G V+   + P DF   A++  
Sbjct: 57  LLYKQFIVVDETNANTINLKEWTPISLEEAQKIKLHAKVGQVLEIKVNPKDFNLYAIKEF 116

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG-VIRRDETISR 173
           K    +++ + +R+  Y  FK + G++IS  V         ++L      ++ + ET   
Sbjct: 117 KNQFNEELTKRKRESVYQFFKQQEGKLISAKVISENEKFYNLELEKEIATLLLKKETSGN 176

Query: 174 ENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDP 233
                G+R++ ++ +VR+  + P++ +S  H   +VK+F   +PEI  GIV++  ++R  
Sbjct: 177 NLPHIGERIQVFLLEVRKTSKWPKIFVSHNHVGLVVKVFEENIPEIQEGIVKIMTIARIS 236

Query: 234 GSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP 293
           G R K+ + S D  +DP+G+C+G    R++ ++  L+ EKID+  WS D    + NALRP
Sbjct: 237 GERTKIGLVSYDPQVDPIGSCIGENSDRIRNIIKILKGEKIDLFRWSEDEKELISNALRP 296

Query: 294 AIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           A    V++ ++       I+P +Q SLAIG+ G+NV+LA+++T W IDI T
Sbjct: 297 AQCIDVIIKNDRNKHALAIIPDDQFSLAIGKLGKNVKLAAEVTKWNIDIKT 347


>gi|237751824|ref|ZP_04582304.1| transcription termination factor NusA [Helicobacter bilis ATCC
           43879]
 gi|229373190|gb|EEO23581.1| transcription termination factor NusA [Helicobacter bilis ATCC
           43879]
          Length = 384

 Score =  292 bits (748), Expect = 1e-76,   Method: Composition-based stats.
 Identities = 103/375 (27%), Positives = 188/375 (50%), Gaps = 15/375 (4%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++L I + +A E  + +D V+  + DS+ K A+      ++  V  +    ++ L + + 
Sbjct: 3   KILDIVEMIASENGLPQDQVVLAIKDSMVKMAKKEINENANFVVIEDWSAKELRLVQKMI 62

Query: 68  VVEEV----ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           V ++     +  +  I L  AR    +++ G  +   +      R AV +    I  +++
Sbjct: 63  VCDDSSFSKDLESTHIPLNEARSLVENVNTGDELEYQINLEGMNRNAVNNIFHDITYQIQ 122

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEY-GNVIVDLGNSDGVIRRDETISRENLRPGDRV 182
           +         F+  +G I+ G V  V+  GN  +++G +  ++     I  E  + G  V
Sbjct: 123 KLNEQEILKAFEKDIGHIVIGQVVHVDDEGNTSIEIGETRAILSLKNRIKGEKFKVGQPV 182

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
           +S +  VR  + G ++ LSRT P+ + +L  +EVPEI +G V +  ++R PG +AK+A++
Sbjct: 183 RSILKSVRITKNGVKIELSRTTPKLLEELLMLEVPEIKDGEVSIYKIARIPGEKAKVALY 242

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL- 301
           +++  IDP+G+ VG RG R+ AV  EL  E ID + +S     FV  +L PA V  V L 
Sbjct: 243 TNNPKIDPIGSAVGARGVRINAVSKELHGENIDCIEYSSVPEIFVAKSLSPAQVISVKLQ 302

Query: 302 ----DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI-----ITEEEDSINRQ 352
               +E+  +  V + K Q S AIG+ G N+RLAS LTG+  ++        E+ +    
Sbjct: 303 KADTEEEKPKAIVQIAKSQKSKAIGKAGVNIRLASMLTGYDFELQEVADKPSEQITTKDS 362

Query: 353 KDFNERTQFFMQAIN 367
            + +E  +  ++A+ 
Sbjct: 363 TEKDEDKKLGLEALE 377


>gi|258615949|ref|ZP_05713719.1| transcription elongation factor NusA [Enterococcus faecium DO]
          Length = 222

 Score =  290 bits (744), Expect = 3e-76,   Method: Composition-based stats.
 Identities = 82/221 (37%), Positives = 134/221 (60%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L   DA+  EK I +++V+  +  ++  A +  YG   ++ VE + + G I ++ +
Sbjct: 2   SKEMLNALDALEAEKGISKEIVIDALEAALVSAYKRHYGQAQNVEVEFDQKKGKIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV EEV +   ++SLK A   +P+ +IG  +   + P DFGR+A Q+AKQVI+Q+VREA
Sbjct: 62  KEVTEEVMDSQLEVSLKDALLINPAYEIGDTIRFEVTPKDFGRIAAQTAKQVILQRVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER   Y EF     +I+ G V+R +   + V+LG  + V+ + + +  E  +P DR+K Y
Sbjct: 122 ERTIIYNEFSAYEKDIMQGIVERQDKRYIYVNLGKIEAVLSKQDQMPNEFYQPHDRIKVY 181

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
           +  V    +GPQV +SR+HP  + +LF  EVPE+Y+GIV++
Sbjct: 182 VSRVENTSKGPQVFVSRSHPDLLRRLFEQEVPEVYDGIVEI 222


>gi|194335549|ref|YP_002017343.1| NusA antitermination factor [Pelodictyon phaeoclathratiforme BU-1]
 gi|194308026|gb|ACF42726.1| NusA antitermination factor [Pelodictyon phaeoclathratiforme BU-1]
          Length = 514

 Score =  289 bits (741), Expect = 7e-76,   Method: Composition-based stats.
 Identities = 124/395 (31%), Positives = 211/395 (53%), Gaps = 29/395 (7%)

Query: 27  VLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD 86
           +  ++ D IQK  R  Y    +  + INPE GD  ++ L ++VEE++  + +I+LK  R 
Sbjct: 44  IADLLKDIIQKQLRKDYDPEVESNIFINPERGDFEVYILKKIVEEIDIESIEITLKEVRK 103

Query: 87  RDPSIDIGGVVSD-PLPPMDF-GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
            D S++IG    + P+   D+  R ++Q  KQ + +KVR+ ER   Y E  +KVGEI++G
Sbjct: 104 IDDSLEIGDYYEEGPIRLEDYLSRKSIQIIKQSVQKKVRDLERLVVYEECLEKVGEIVAG 163

Query: 145 TVKRVEYGNVIVDLG-----NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ------ 193
            V +V    VI           + V+ + E + ++N R   R+K Y+  + RE+      
Sbjct: 164 EVYQVRANEVIFTYNTSKDHRVELVLPKSEMMKKDNPRRTPRMKLYVKRIEREKAKVRLD 223

Query: 194 -----------RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVF 242
                       G +V++SR   +F+ KLF  EVPEI +G++ +KA++R PG RAK+AV 
Sbjct: 224 DGSMVEREKADGGMKVIVSRVDDRFLYKLFEHEVPEILDGLIVIKAIARVPGERAKVAVE 283

Query: 243 SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVT--KVV 300
           S+ + IDPVGA VG RG R+Q++V EL +E ID++ ++ +   ++  A++PA +    V 
Sbjct: 284 STSARIDPVGATVGYRGKRIQSIVKELNNENIDVIYYADEPQIYISRAMQPAKIDPLTVH 343

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
            D    +  V++  +Q+  AIG+ G N+ LA +LTG+ ID+     D I++  +      
Sbjct: 344 ADVKTRKARVMLKPDQIKYAIGKNGNNIHLAEKLTGYEIDVYR---DVIDKSTEDPTDID 400

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEI 395
                    + + + L+  G    +++    + EI
Sbjct: 401 IIEFREEFGDDMIYQLLDGGLDTAKKVLKAGVDEI 435


>gi|218661268|ref|ZP_03517198.1| transcription elongation factor NusA [Rhizobium etli IE4771]
          Length = 189

 Score =  288 bits (737), Expect = 2e-75,   Method: Composition-based stats.
 Identities = 140/189 (74%), Positives = 163/189 (86%)

Query: 208 MVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVT 267
           MVKLF MEVPEIY+GI+QVK+V+RDPGSRAK+AV S+DSSIDPVGACVGMRGSRVQAVV 
Sbjct: 1   MVKLFTMEVPEIYDGIIQVKSVARDPGSRAKIAVISNDSSIDPVGACVGMRGSRVQAVVG 60

Query: 268 ELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQN 327
           EL+ EKIDI+ WS D ATFV+NAL+PA V KVVLDED  RIEV+VP EQLSLAIGRRGQN
Sbjct: 61  ELQGEKIDIIPWSQDPATFVVNALQPAEVAKVVLDEDAERIEVVVPDEQLSLAIGRRGQN 120

Query: 328 VRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEEL 387
           VRLASQLTGW IDI+TE E+S  RQK+FNERT  FM +++VDE++  +L +EGFA VEEL
Sbjct: 121 VRLASQLTGWDIDIMTEAEESERRQKEFNERTNLFMDSLDVDEMVGQVLASEGFAAVEEL 180

Query: 388 ACVKISEIA 396
           A V + EI+
Sbjct: 181 AYVDLDEIS 189


>gi|289548941|ref|YP_003473929.1| NusA antitermination factor [Thermocrinis albus DSM 14484]
 gi|289182558|gb|ADC89802.1| NusA antitermination factor [Thermocrinis albus DSM 14484]
          Length = 327

 Score =  286 bits (734), Expect = 5e-75,   Method: Composition-based stats.
 Identities = 125/342 (36%), Positives = 203/342 (59%), Gaps = 25/342 (7%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           L ++ + VA EK++   +V   + +SI  A +       D+ V++  +   I  + +   
Sbjct: 5   LRRLIEQVAKEKNLPEWLVERALRNSIALAVKKSQKIREDVEVQLEDD--HIKAYLVR-- 60

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                           R +D +I +       + P D  R+A  +AK+  ++++  AE +
Sbjct: 61  ----------------RSKDQTIKLP----IDIEPADMDRIAAYAAKEEFLKELERAEEE 100

Query: 129 RQYLEFKDKVGEIISGTVKRV-EYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           R YLEF +  GEI+ G V++V E G+++VDLG   GV+ + E I +E+ + GDR+++ + 
Sbjct: 101 RSYLEFVELEGEIVVGIVRKVQEDGDLLVDLGKVMGVLPKKEQIPKEHYKVGDRLRALLL 160

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
           +VR+ +   +++LSRTHP+F+ KL   EVPEI  G ++V+A++R+PG RAK+ V S+DS 
Sbjct: 161 EVRKRRGKYEIILSRTHPRFLKKLLEAEVPEIKEGYIKVEAIAREPGERAKVLVSSTDSR 220

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           +DPVG  VG+RGS++  +  EL  E+ID++  S      +  +L PA V+ V L  +  R
Sbjct: 221 MDPVGVVVGVRGSKIAPITEELSGERIDVIKKSDSVEELIKRSLAPAPVSAVRLFPEEKR 280

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
            EV VPKE+LSLAIG+ G NVRLAS++TGW ID+ +EE+   
Sbjct: 281 AEVAVPKEKLSLAIGKGGVNVRLASKITGWRIDVYSEEDFEK 322


>gi|13507893|ref|NP_109842.1| transcription elongation factor NusA [Mycoplasma pneumoniae M129]
 gi|2499338|sp|P75591|NUSA_MYCPN RecName: Full=Transcription elongation protein nusA
 gi|1674384|gb|AAB96325.1| N-utilization substance protein A-like protein [Mycoplasma
           pneumoniae M129]
          Length = 540

 Score =  286 bits (732), Expect = 7e-75,   Method: Composition-based stats.
 Identities = 98/358 (27%), Positives = 186/358 (51%), Gaps = 14/358 (3%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           LLQ+   VA  K++  D V+  +  ++ +  +       ++ V I+   G + + +L +V
Sbjct: 12  LLQLIKNVAETKNLAIDDVVLCLKTALAQTYKKHLN-YVNVEVNIDFNKGLMQIEQLFDV 70

Query: 69  VE---EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           V+   E  +   ++ L  A+  +P++++GGV+  P+   D     +     +  QK+ E 
Sbjct: 71  VDDNNEDYDDFLEMPLSEAKKLNPNLEVGGVLRKPVSLKDIKGDLISKMVLLFNQKINET 130

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYG------NVIVDLGNSDGVIRRDETISRENLRPG 179
                  +F ++VG++I   V+ ++          IV+L  + G + + E    E L  G
Sbjct: 131 AFKTVMSDFINEVGQVIEARVEDIDTNKDGGLKGYIVNLETTKGYMPKRELSKGEKLDIG 190

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
            +    I +++++     + LSR+  + +  L +   PEI NG +++K + R PG+++K+
Sbjct: 191 KKYLFVIKEIQKQSSMWPITLSRSDSRLLEFLLNSNTPEIANGTIEIKKMERSPGTKSKV 250

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S D  +DP+ A +G +G R++ +  E   E IDIV+W+ D   F++NA+ PA V   
Sbjct: 251 AVISKDPVVDPIAAILGPKGERIRGISEEFNGEIIDIVIWNEDKLKFLVNAVLPAEVVGY 310

Query: 300 VL---DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW-TIDIITEEEDSINRQK 353
            +   DE    IE++VP  Q++   G +G N+RL S LTGW ++D+ TE++ +    +
Sbjct: 311 NILQDDERDTSIEIVVPANQIANVFGFKGINIRLISNLTGWSSVDVYTEKDAAEQGIE 368


>gi|12044993|ref|NP_072803.1| transcription elongation factor NusA [Mycoplasma genitalium G37]
 gi|255660291|ref|ZP_05405700.1| transcription elongation factor NusA [Mycoplasma genitalium G37]
 gi|1352607|sp|P47387|NUSA_MYCGE RecName: Full=Transcription elongation protein nusA
 gi|3844734|gb|AAC71359.1| transcription termination factor NusA [Mycoplasma genitalium G37]
 gi|166078938|gb|ABY79556.1| transcription termination factor NusA [synthetic Mycoplasma
           genitalium JCVI-1.0]
          Length = 531

 Score =  286 bits (732), Expect = 8e-75,   Method: Composition-based stats.
 Identities = 108/358 (30%), Positives = 184/358 (51%), Gaps = 14/358 (3%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           LL I   VA  K++  + V+  +  ++++A +       ++ V IN + G I++ +L  V
Sbjct: 33  LLAIIKNVAKTKNLSIEEVVFCLKTALEQAYKKHLNF-VNVEVNINFDKGIINVEQLFNV 91

Query: 69  V-EEVENYT--CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           V +E E+Y    +I L+ A   + S+ +G V+  P+P  +     +     +  QK+ E 
Sbjct: 92  VSDENEDYDDFLEIPLQAANKINSSLQLGDVLRKPIPLKNISSDLINKMIAIFNQKISET 151

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYG------NVIVDLGNSDGVIRRDETISRENLRPG 179
                  EF  +VGE+I   V+ ++          I++L  + G I + E    E L  G
Sbjct: 152 NFKAVMSEFSSEVGEVIEAKVEDIDTNKEGGLKGYIINLETTKGYISKRELSKGERLEIG 211

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
            +    I +++R+     + LSR+  + +  L     PEI NG + +K + R PG ++K+
Sbjct: 212 KKYLFVIKEIQRQASLWPITLSRSDTRLLQFLLTSNTPEIENGTIVIKKIERSPGVKSKI 271

Query: 240 AVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           AV S+D ++DPV A +G +G +++ +  E   E IDIV W+ D   F+INA+ PA V   
Sbjct: 272 AVISNDPAVDPVAAILGPKGEKIRGISEEFNGEIIDIVFWNEDKLKFLINAILPAEVIGY 331

Query: 300 VL---DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT-IDIITEEEDSINRQK 353
            +   DE    IEV+VP  Q++   G +G N+RL S LTGW  +D+ +E++ S    K
Sbjct: 332 NILQDDERDTSIEVVVPANQIANVFGFKGVNIRLISNLTGWNSVDVYSEKDASEANIK 389


>gi|114777564|ref|ZP_01452545.1| transcription elongation factor NusA [Mariprofundus ferrooxydans
           PV-1]
 gi|114552035|gb|EAU54552.1| transcription elongation factor NusA [Mariprofundus ferrooxydans
           PV-1]
          Length = 254

 Score =  286 bits (732), Expect = 9e-75,   Method: Composition-based stats.
 Identities = 111/273 (40%), Positives = 159/273 (58%), Gaps = 19/273 (6%)

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           + S+D S+DPVGACVGMRG+RVQAVV EL  EKIDI+ W+ D A FV+NAL PA + +V+
Sbjct: 1   MISTDPSVDPVGACVGMRGARVQAVVNELHGEKIDIIEWTDDPAAFVVNALAPAEIERVM 60

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DE    IE  V +E L++AIGRRGQNVRLAS L+GW I++++  E+   R ++  +   
Sbjct: 61  VDEATNTIEAAVSEENLAIAIGRRGQNVRLASDLSGWHIELMSTGEEKERRHEEVVKART 120

Query: 361 FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            F + ++VDE  A +LV EGF  +EELA     +IA+IEG D E A E+Q RAR  L   
Sbjct: 121 VFQEGLDVDEAFATVLVDEGFFSLEELAYCAAEDIAAIEGLDAEIAQELQKRARNVLLDQ 180

Query: 421 DITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
            +       E G +  L  +PG+  +I   L    + T+E LA  + D++          
Sbjct: 181 ALKQ--GSEEAGSAVTLLDLPGMTREIAEQLAAREMTTVESLADAAGDEIEDIE------ 232

Query: 481 IEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE 513
                      G  +++ +++II AR   GW +
Sbjct: 233 -----------GLSREEADALIIAAREACGWFD 254


>gi|284992351|ref|YP_003410905.1| NusA domain-containing protein [Geodermatophilus obscurus DSM
           43160]
 gi|284065596|gb|ADB76534.1| NusA domain protein [Geodermatophilus obscurus DSM 43160]
          Length = 524

 Score =  284 bits (728), Expect = 2e-74,   Method: Composition-based stats.
 Identities = 82/240 (34%), Positives = 132/240 (55%), Gaps = 26/240 (10%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE 71
              AV  EK I  D V+  +  ++  A R   G    +RV ++ +TG++++         
Sbjct: 7   ALKAVEREKGIPADTVIEAIETALVTAYRHADGASKHVRVHVDRKTGEVAVL-------- 58

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
                       A++  P  ++     D   P DFGR+A  +AKQVI+Q++R+AE ++ +
Sbjct: 59  ------------AQELGPDGEVVREWDD--TPSDFGRIAASTAKQVIVQRLRDAEHEQTF 104

Query: 132 LEFKDKVGEIISGTVK----RVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
            E+  K G+I+SG V+    R   G V+VD+G  + V+   E +  E+   G R+++Y+ 
Sbjct: 105 GEYAGKEGDIVSGIVQADQRRNASGTVLVDIGKVEAVLPAAEQVPGESYPHGSRLRAYVV 164

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V R  RGPQV +SRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV +S   
Sbjct: 165 SVARTYRGPQVTVSRTHPNLVRKLFALEVPEIADGSVEIVAVAREAGHRSKIAVRTSVPR 224


>gi|148925839|ref|ZP_01809526.1| transcription termination factor [Campylobacter jejuni subsp.
           jejuni CG8486]
 gi|145844825|gb|EDK21929.1| transcription termination factor [Campylobacter jejuni subsp.
           jejuni CG8486]
          Length = 300

 Score =  279 bits (714), Expect = 9e-73,   Method: Composition-based stats.
 Identities = 91/264 (34%), Positives = 153/264 (57%), Gaps = 4/264 (1%)

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           I+L  A+   P ++IG  ++      + GR AV +  + +   +++      + ++K+KV
Sbjct: 13  IALSKAKSEAPDVEIGDELTYECSLENLGRTAVNTLHKELEYHIQKLLEQTIFEKYKNKV 72

Query: 139 GEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
           G+++ GTV RV+   N  +++      + R   I  E  + GD VK+ I  V  + +G +
Sbjct: 73  GQMVFGTVVRVDNEENTFIEIDELRAFLPRKNRIKGEKFKIGDVVKAVIRRVYTD-KGIK 131

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGM 257
           + LSRT P+F+  L   EVPEI +G V +   +R PG RAK+ + ++ ++IDPVGA VG+
Sbjct: 132 IELSRTSPKFLECLLEAEVPEIKDGYVNIIGCARIPGERAKIILQANGANIDPVGATVGV 191

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQL 317
           +G R+ AV  EL +E ID + ++ +S   +  AL PAIV  V +++   +  V +  EQ 
Sbjct: 192 KGVRINAVSKELHNENIDCIEFTNESEILISRALAPAIVNSVKIED--KKAIVSLNSEQK 249

Query: 318 SLAIGRRGQNVRLASQLTGWTIDI 341
           S AIG+ G N+RLAS L+G+ I++
Sbjct: 250 SKAIGKNGINIRLASMLSGYEIEL 273


>gi|82407871|pdb|2ASB|A Chain A, Structure Of A Mycobacterium Tuberculosis Nusa-Rna Complex
 gi|82407889|pdb|2ATW|A Chain A, Structure Of A Mycobacterium Tuberculosis Nusa-Rna Complex
 gi|82407891|pdb|2ATW|C Chain C, Structure Of A Mycobacterium Tuberculosis Nusa-Rna Complex
          Length = 251

 Score =  276 bits (708), Expect = 5e-72,   Method: Composition-based stats.
 Identities = 100/223 (44%), Positives = 141/223 (63%), Gaps = 9/223 (4%)

Query: 132 LEFKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRPGDRVK 183
            EF  + GEI++G ++R    N    V+V +G     S+GVI   E +  E+   G+R++
Sbjct: 1   GEFSTREGEIVAGVIQRDSRANARGLVVVRIGTETKASEGVIPAAEQVPGESYEHGNRLR 60

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS 243
            Y+  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+ G R+K+AV S
Sbjct: 61  CYVVGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAVRS 120

Query: 244 SDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLD 302
           + + ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL PA V  V V+D
Sbjct: 121 NVAGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDDDPARFVANALSPAKVVSVSVID 180

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           +      V+VP  QLSLAIG+ GQN RLA++LTGW IDI  + 
Sbjct: 181 QTARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRGDA 223


>gi|87042915|gb|ABD16467.1| NusA [Tomato big bud phytoplasma]
          Length = 319

 Score =  275 bits (704), Expect = 1e-71,   Method: Composition-based stats.
 Identities = 92/316 (29%), Positives = 169/316 (53%), Gaps = 9/316 (2%)

Query: 35  IQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVE------NYTCQISLKVARDRD 88
           +    +  +   S  ++ +  +  +I L++   V +E          +  I+L+ A+   
Sbjct: 5   LISGCKKNHKVKS-CKIHLKEDKSEIILYKQFLVADEATISTINLKESTPITLEEAQQIK 63

Query: 89  PSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR 148
           P   IG V+   + P DF   AV+  K    +++ + +R+  Y  FK + G++IS  +  
Sbjct: 64  PHAKIGQVIDIKVDPKDFNLYAVKEFKNQFNEELTKKKRENIYNFFKQQEGKLISAKIIS 123

Query: 149 VEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQF 207
                  ++L      ++ + E  S   ++ G+R++ ++ +V++  + P++ +S  H   
Sbjct: 124 ENDKFYNLELEKEITTLLPKKEIASNNEMQVGERIQVFLSEVKKTTKWPKIFVSCNHVGL 183

Query: 208 MVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVT 267
           +VK+    +PEI  GIV++  V+R  G R K+ +FS D+ ID +G+C+G R +R++ V+ 
Sbjct: 184 VVKVLEENIPEIQEGIVKIAGVARISGERTKIGLFSCDAQIDAIGSCIGERSNRIKNVIK 243

Query: 268 ELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQ 326
            L+ EKID+ +WS D    + NAL+PA   +VV+ D+       IVP +Q SLAIG+ G+
Sbjct: 244 ILKGEKIDLFIWSDDPQELIANALKPASCLQVVIKDDINKCALAIVPDDQFSLAIGKLGK 303

Query: 327 NVRLASQLTGWTIDII 342
           N +LA ++T W IDI 
Sbjct: 304 NAKLAVEVTKWNIDIK 319


>gi|317014930|gb|ADU82366.1| transcription elongation factor NusA [Helicobacter pylori
           Gambia94/24]
          Length = 395

 Score =  275 bits (703), Expect = 2e-71,   Method: Composition-based stats.
 Identities = 102/381 (26%), Positives = 194/381 (50%), Gaps = 31/381 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLARYSVI--EENKQLQLIQLVE 60

Query: 68  VVEE-----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+     V + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++
Sbjct: 61  VLEDDDERLVNDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V++  N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDHNQNTFIEIEQQFQGVLSMRHRIKGESFKIGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++
Sbjct: 181 SIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS +S IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V 
Sbjct: 241 FFSHNSRIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                +++  + + +V +   + S AIG+ G NV LAS LTG+ 
Sbjct: 301 VKKIPIEELSAEEKESVQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYH 360

Query: 339 IDIITEEEDSINRQKDFNERT 359
           I+  T      N + +  + T
Sbjct: 361 IEFETIPSVKENAENESEKET 381


>gi|261840189|gb|ACX99954.1| transcription elongation factor NusA [Helicobacter pylori 52]
          Length = 395

 Score =  274 bits (702), Expect = 2e-71,   Method: Composition-based stats.
 Identities = 101/382 (26%), Positives = 194/382 (50%), Gaps = 31/382 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLAHYLVI--EENKQLQLIQLVE 60

Query: 68  VVEE-----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+     V + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++
Sbjct: 61  VLEDGDERLVNDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDNNQNTFIEIEQQFQGVLSMRHRIKGESFKVGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  ++R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++
Sbjct: 181 SIKAVLTQIKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V 
Sbjct: 241 FFSHNARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                +++  + + +V +   + S AIG+ G NV LAS LTG+ 
Sbjct: 301 IKKIPIEELNTEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYH 360

Query: 339 IDIITEEEDSINRQKDFNERTQ 360
           I+  T      N + +  + TQ
Sbjct: 361 IEFETIPSVKENAENESEKETQ 382


>gi|15612472|ref|NP_224125.1| transcription elongation factor NusA [Helicobacter pylori J99]
 gi|11387009|sp|Q9ZJA6|NUSA_HELPJ RecName: Full=Transcription elongation protein nusA
 gi|4156020|gb|AAD06980.1| N-UTILIZATION SUBSTANCE PROTEIN A [Helicobacter pylori J99]
          Length = 395

 Score =  274 bits (702), Expect = 2e-71,   Method: Composition-based stats.
 Identities = 100/365 (27%), Positives = 189/365 (51%), Gaps = 31/365 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLARYLVV--EENKQLQLIQLVE 60

Query: 68  VVEE-----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+     V + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++
Sbjct: 61  VLEDDDERLVNDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V++  N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDHNQNTFIEIEQQFQGVLSMRHRIKGESFKIGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++
Sbjct: 181 SIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS +S IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V 
Sbjct: 241 FFSHNSRIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                +++  + + +V +   + S AIG+ G NV LAS LTG+ 
Sbjct: 301 IKKIPIEELSAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYH 360

Query: 339 IDIIT 343
           I+  T
Sbjct: 361 IEFET 365


>gi|317011648|gb|ADU85395.1| transcription elongation factor NusA [Helicobacter pylori
           SouthAfrica7]
          Length = 395

 Score =  274 bits (702), Expect = 2e-71,   Method: Composition-based stats.
 Identities = 99/365 (27%), Positives = 189/365 (51%), Gaps = 31/365 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLARYLVI--EENKQLQLIQLVE 60

Query: 68  VVEE-----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+     V + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++
Sbjct: 61  VLEDDDERLVNDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDNHQNTFIEIEQQFQGVLSMRHRIKGESFKIGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++
Sbjct: 181 SIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS+++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V 
Sbjct: 241 FFSNNARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                +++  + + +V +   + S AIG+ G NV LAS LTG+ 
Sbjct: 301 IKKIPIEELSTEEKESIQERFIVNNHLQKAKVRLLDTEKSKAIGKGGVNVCLASMLTGYH 360

Query: 339 IDIIT 343
           I+  T
Sbjct: 361 IEFET 365


>gi|307638171|gb|ADN80621.1| Transcription termination protein [Helicobacter pylori 908]
          Length = 395

 Score =  274 bits (702), Expect = 3e-71,   Method: Composition-based stats.
 Identities = 102/381 (26%), Positives = 193/381 (50%), Gaps = 31/381 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLARYSVV--EENKQLQLIQLVE 60

Query: 68  VVEE-----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+     V + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++
Sbjct: 61  VLEDDDERLVNDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDKNQNTFIEIEQQFQGVLSMRHRIKGESFKIGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++
Sbjct: 181 SIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS +S IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V 
Sbjct: 241 FFSHNSRIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                +++  + + +V +   + S AIG+ G NV LAS LTG+ 
Sbjct: 301 VKKIPIEELNAEEKESVQERFIVNNHLQKAKVRLLDVEKSKAIGKGGVNVCLASMLTGYH 360

Query: 339 IDIITEEEDSINRQKDFNERT 359
           I+  T      N + +  + T
Sbjct: 361 IEFETIPSVKENAENESEKET 381


>gi|261838788|gb|ACX98554.1| transcription termination factor A [Helicobacter pylori 51]
          Length = 395

 Score =  274 bits (701), Expect = 3e-71,   Method: Composition-based stats.
 Identities = 101/382 (26%), Positives = 194/382 (50%), Gaps = 31/382 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLAHYLVI--EENKQLQLIQLVE 60

Query: 68  VVEEVE-----NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+ +     + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++
Sbjct: 61  VLEDGDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDNNQNTFIEIEQQFQGVLSMRHRIKGESFKVGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++
Sbjct: 181 SIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V 
Sbjct: 241 FFSHNARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                +++  + + +V +   + S AIG+ G NV LAS LTG+ 
Sbjct: 301 IKKILIEELSAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYH 360

Query: 339 IDIITEEEDSINRQKDFNERTQ 360
           I+  T      N + +  + TQ
Sbjct: 361 IEFETIPSVKENAENESEKETQ 382


>gi|87042921|gb|ABD16470.1| NusA [Tomato yellows phytoplasma]
          Length = 319

 Score =  273 bits (700), Expect = 4e-71,   Method: Composition-based stats.
 Identities = 93/316 (29%), Positives = 170/316 (53%), Gaps = 9/316 (2%)

Query: 35  IQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYT------CQISLKVARDRD 88
           +    +  +   S  ++++  +  +I L++   V +E    T        I+L+ A+   
Sbjct: 5   LISGCKKNHKVKS-CKIQLKEDKSEIILYKQFLVADEATMSTINLKESTPITLEEAQQIK 63

Query: 89  PSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR 148
           P   IG V+   + P DF   AV+  K    +++ + +R+  Y  FK + G++IS  +  
Sbjct: 64  PHAKIGQVIDIKVDPKDFNLYAVKEFKNQFNEELTKKKRENIYNFFKQQEGKLISAKIIS 123

Query: 149 VEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQF 207
                  ++L      ++ + E  S   ++ G+R++ ++ +VR+  + P++ +S  H   
Sbjct: 124 ENDKFYNLELEKEITTLLPKKEIASNNEMQVGERIQVFLSEVRKTTKWPKIFVSCNHVGL 183

Query: 208 MVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVT 267
           +VK+    +PEI  GIV++  V+R  G R K+ + S D+ +D +G+C+G R +R++ V+ 
Sbjct: 184 VVKVLEENIPEIQEGIVKIAGVARISGERTKIGLLSCDAQVDAIGSCIGERSNRIKNVIK 243

Query: 268 ELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQ 326
            L+ EK+D+ VWS D    + NAL+PA   +VV+ D+       IVP +Q SLAIG+ G+
Sbjct: 244 ILKGEKVDLFVWSDDPQELIANALKPASCLQVVIKDDINKYALAIVPDDQFSLAIGKLGK 303

Query: 327 NVRLASQLTGWTIDII 342
           NV+LA ++T W IDI 
Sbjct: 304 NVKLAVEVTKWNIDIK 319


>gi|188528283|ref|YP_001910970.1| transcription elongation factor NusA [Helicobacter pylori Shi470]
 gi|188144523|gb|ACD48940.1| transcription elongation factor NusA [Helicobacter pylori Shi470]
          Length = 395

 Score =  273 bits (700), Expect = 4e-71,   Method: Composition-based stats.
 Identities = 101/382 (26%), Positives = 195/382 (51%), Gaps = 31/382 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLARYLVV--EENKQLQLIQLVE 60

Query: 68  VVEEVE-----NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+ +     + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++
Sbjct: 61  VLEDGDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V++  N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDHNQNTFIEIEQQFQGVLSMRHRIKGESFKVGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++
Sbjct: 181 SIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V 
Sbjct: 241 FFSHNARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                +++  + + +V +   + S AIG+ G NV LAS LTG+ 
Sbjct: 301 IKKIPIGELSAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYH 360

Query: 339 IDIITEEEDSINRQKDFNERTQ 360
           I+  T      N + +  + TQ
Sbjct: 361 IEFETIPSVKENAENESEKETQ 382


>gi|325996770|gb|ADZ52175.1| Transcription termination protein [Helicobacter pylori 2018]
 gi|325998365|gb|ADZ50573.1| Transcription termination protein [Helicobacter pylori 2017]
          Length = 395

 Score =  273 bits (699), Expect = 5e-71,   Method: Composition-based stats.
 Identities = 101/381 (26%), Positives = 192/381 (50%), Gaps = 31/381 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLARYSVV--EENKQLQLIQLVE 60

Query: 68  VVEE-----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+     V + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++
Sbjct: 61  VLEDDDERLVNDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDKNQNTFIEIEQQFQGVLSMRHRIKGESFKIGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++
Sbjct: 181 SIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS +S IDP+G  VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V 
Sbjct: 241 FFSHNSRIDPIGTAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                +++  + + +V +   + S AIG+ G NV LAS LTG+ 
Sbjct: 301 VKKIPIEELNAEEKESVQERFIVNNHLQKAKVRLLDVEKSKAIGKGGVNVCLASMLTGYH 360

Query: 339 IDIITEEEDSINRQKDFNERT 359
           I+  T      N + +  + T
Sbjct: 361 IEFETIPSVKENAENESEKET 381


>gi|217031863|ref|ZP_03437366.1| hypothetical protein HPB128_199g71 [Helicobacter pylori B128]
 gi|298735514|ref|YP_003728035.1| N utilization substance protein A [Helicobacter pylori B8]
 gi|216946515|gb|EEC25117.1| hypothetical protein HPB128_199g71 [Helicobacter pylori B128]
 gi|298354699|emb|CBI65571.1| N utilization substance protein A [Helicobacter pylori B8]
          Length = 395

 Score =  273 bits (699), Expect = 5e-71,   Method: Composition-based stats.
 Identities = 98/365 (26%), Positives = 189/365 (51%), Gaps = 31/365 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLARYLVV--EENKQLQLIQLVE 60

Query: 68  VVEEVE-----NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+ +     + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++
Sbjct: 61  VLEDGDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V++  N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDHNQNTFIEIEQQFQGVLSMRHRIKGESFKVGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++
Sbjct: 181 SIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V 
Sbjct: 241 FFSHNARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                +++  + + +V +   + S AIG+ G NV LAS LTG+ 
Sbjct: 301 VKKIPIEELSAEEKESVQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYH 360

Query: 339 IDIIT 343
           I+  T
Sbjct: 361 IEFET 365


>gi|87042911|gb|ABD16465.1| NusA [Blueberry stunt phytoplasma]
          Length = 319

 Score =  273 bits (699), Expect = 5e-71,   Method: Composition-based stats.
 Identities = 94/316 (29%), Positives = 170/316 (53%), Gaps = 9/316 (2%)

Query: 35  IQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYT------CQISLKVARDRD 88
           +    +  +   S  ++++  +  +I L++   V +E    T        I+L+ A+   
Sbjct: 5   LISGCKKNHKVKS-CKIQLKEDKSEIILYKQFLVADEATMSTINLKESTPITLEEAKQIK 63

Query: 89  PSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR 148
           P   IG V+   + P DF   AV+  K    +++ + +R+  Y  FK + G++IS  +  
Sbjct: 64  PHAKIGQVIDIKVDPKDFNLYAVKEFKNQFNEELTKKKRENIYNFFKQQEGKLISAKIIS 123

Query: 149 VEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQF 207
                  ++L      ++ + E  S   ++ G+R++ ++ +VR+  + P++ +S  H   
Sbjct: 124 ENDKFYNLELEKEITTLLPKKEIASNNEMQVGERIQVFLSEVRKTTKWPKIFVSCNHVGL 183

Query: 208 MVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVT 267
           +VK+    +PEI  GIV++  V+R  G R K+ + S D+ +D +G+CVG R +R++ V+ 
Sbjct: 184 VVKVLEENIPEIQEGIVKIAGVARISGERTKIGLLSCDAQVDAIGSCVGERSNRIKNVIK 243

Query: 268 ELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQ 326
            L+ EK+D+ VWS D    + NAL+PA   +VV+ D+       IVP +Q SLAIG+ G+
Sbjct: 244 ILKGEKVDLFVWSEDPQELIANALKPASCLQVVIKDDINKYALAIVPDDQFSLAIGKLGK 303

Query: 327 NVRLASQLTGWTIDII 342
           NV+LA ++T W IDI 
Sbjct: 304 NVKLAVEVTKWNIDIK 319


>gi|15646123|ref|NP_208305.1| transcription elongation factor NusA [Helicobacter pylori 26695]
 gi|2499337|sp|P55977|NUSA_HELPY RecName: Full=Transcription elongation protein nusA
 gi|2314694|gb|AAD08555.1| transcription termination factor NusA (nusA) [Helicobacter pylori
           26695]
          Length = 395

 Score =  273 bits (699), Expect = 6e-71,   Method: Composition-based stats.
 Identities = 101/381 (26%), Positives = 194/381 (50%), Gaps = 31/381 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLARYLVV--EENKQLQLIQLVE 60

Query: 68  VVEE-----VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+     V + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++
Sbjct: 61  VLEDGDERLVNDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V++  N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDHNQNTFIEIEQQFQGVLSMRHRIKGESFKVGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++
Sbjct: 181 SIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V 
Sbjct: 241 FFSHNARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                +++  + + +V +   + S AIG+ G NV LAS LTG+ 
Sbjct: 301 IKKIPIEELNAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYH 360

Query: 339 IDIITEEEDSINRQKDFNERT 359
           I+  T      N + +  + T
Sbjct: 361 IEFETIPSVKENAENESEKET 381


>gi|317178222|dbj|BAJ56011.1| transcription elongation factor NusA [Helicobacter pylori F16]
          Length = 395

 Score =  273 bits (698), Expect = 6e-71,   Method: Composition-based stats.
 Identities = 102/382 (26%), Positives = 194/382 (50%), Gaps = 31/382 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYEK++ +++V  V+   + K A++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYEKNLPKEMVSKVIQGCLLKMAQNELDPLARYLVI--EENKQLQLIQLVE 60

Query: 68  VVEEVE-----NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+ +     + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++
Sbjct: 61  VLEDDDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDNHQNTFIEIEQQFQGVLSMRHRIKGESFKVGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++
Sbjct: 181 SIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V 
Sbjct: 241 FFSHNTRIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                +++  + + +V +   + S AIG+ G NV LAS LTG+ 
Sbjct: 301 IKKIPIEELSAKEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYH 360

Query: 339 IDIITEEEDSINRQKDFNERTQ 360
           I+  T      N + +  + TQ
Sbjct: 361 IEFETIPSVKENAENESEKETQ 382


>gi|317179693|dbj|BAJ57481.1| transcription elongation factor NusA [Helicobacter pylori F30]
          Length = 395

 Score =  273 bits (698), Expect = 7e-71,   Method: Composition-based stats.
 Identities = 101/382 (26%), Positives = 194/382 (50%), Gaps = 31/382 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLAHYLVV--EENKQLQLIQLVE 60

Query: 68  VVEEVE-----NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+ +     + +  ISL  A++ DPS+ I   +S  L   +  + A+    + +  ++
Sbjct: 61  VLEDGDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLENMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDNHQNTFIEIEQQFQGVLSMRHRIKGESFKVGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++    R PG+RAK++
Sbjct: 181 SIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCVRIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V 
Sbjct: 241 FFSHNARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                +++  + + +V +   + S AIG+ G NV LAS LTG+ 
Sbjct: 301 IKKIPIEELNAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYH 360

Query: 339 IDIITEEEDSINRQKDFNERTQ 360
           I+  T      N + +  + TQ
Sbjct: 361 IEFETIPSVKENAENESEKETQ 382


>gi|317013286|gb|ADU83894.1| transcription elongation factor NusA [Helicobacter pylori
           Lithuania75]
          Length = 395

 Score =  272 bits (697), Expect = 9e-71,   Method: Composition-based stats.
 Identities = 101/382 (26%), Positives = 194/382 (50%), Gaps = 31/382 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLARYLVV--EENKQLQLIQLVE 60

Query: 68  VVEEVE-----NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+ +     + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++
Sbjct: 61  VLEDGDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDSNQNTFIEIEQQFQGVLSMRHRIKGESFKVGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++
Sbjct: 181 SIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V 
Sbjct: 241 FFSHNARIDPIGATVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                +++  + + +V +   + S AIG+ G NV LAS LTG+ 
Sbjct: 301 IKKIPIEELNAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYH 360

Query: 339 IDIITEEEDSINRQKDFNERTQ 360
           I+  T      N + +  + TQ
Sbjct: 361 IEFETIPSVKENAENESEKETQ 382


>gi|87042919|gb|ABD16469.1| NusA [Strawberry phytoplasma FL4]
          Length = 319

 Score =  272 bits (697), Expect = 9e-71,   Method: Composition-based stats.
 Identities = 90/316 (28%), Positives = 169/316 (53%), Gaps = 9/316 (2%)

Query: 35  IQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYT------CQISLKVARDRD 88
           +    +  +   S  ++++  +  ++ L++   V +E    T        I+L+ A+   
Sbjct: 5   LISGCKKNHKVKS-CKIQLKEDKSEMILYKQFLVADEATMSTINLKESTPITLEEAQQIK 63

Query: 89  PSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR 148
           P    G V+   + P DF   AV+  K    +++ + +R+  Y  FK + G++IS  +  
Sbjct: 64  PHAKTGQVIDIKVDPKDFNLYAVKEFKNQFNEELTKKKRENIYNFFKQQEGKLISAKIIS 123

Query: 149 VEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQF 207
                  ++L      ++ + E  S   ++ G+R++ ++ +VR+  + P++ +S  H   
Sbjct: 124 ENDKFYNLELEKEITTLLPKKEIASNNEMQVGERIQVFLSEVRKTTKWPKIFVSCNHVGL 183

Query: 208 MVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVT 267
           ++K+    +PEI  GIV++  V+R  G R K+ + S D+ +D +G+C+G R +R++ V+ 
Sbjct: 184 VIKVLEENIPEIQEGIVKIAGVARISGERTKIGLLSCDAQVDAIGSCIGERSNRIKNVIK 243

Query: 268 ELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQ 326
            L+ EK+D+ VWS D    + NAL+PA   +VV+ D+       IVP +Q SLAIG+ G+
Sbjct: 244 ILKGEKVDLFVWSNDPQELIANALKPASCLQVVIKDDINKCALAIVPDDQFSLAIGKLGK 303

Query: 327 NVRLASQLTGWTIDII 342
           NV+LA ++T W IDI 
Sbjct: 304 NVKLAVEVTKWNIDIK 319


>gi|108563823|ref|YP_628139.1| transcription elongation factor NusA [Helicobacter pylori HPAG1]
 gi|107837596|gb|ABF85465.1| transcription termination factor [Helicobacter pylori HPAG1]
          Length = 395

 Score =  272 bits (696), Expect = 1e-70,   Method: Composition-based stats.
 Identities = 101/382 (26%), Positives = 195/382 (51%), Gaps = 31/382 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLARYLVV--EENKQLQLIQLVE 60

Query: 68  VVEEVE-----NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+ +     + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++
Sbjct: 61  VLEDNDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V++  N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDHNQNTFIEIEQQFQGVLSMRHRIKGESFKVGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++
Sbjct: 181 SIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V 
Sbjct: 241 FFSHNARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                +++  + + +V +   + S AIG+ G NV LAS LTG+ 
Sbjct: 301 VKKIPIEELNAEEKESVQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYH 360

Query: 339 IDIITEEEDSINRQKDFNERTQ 360
           I+  T      N + +  + TQ
Sbjct: 361 IEFETIPSVKENAENESEKETQ 382


>gi|308062778|gb|ADO04666.1| transcription elongation factor NusA [Helicobacter pylori Cuz20]
          Length = 395

 Score =  272 bits (696), Expect = 1e-70,   Method: Composition-based stats.
 Identities = 101/382 (26%), Positives = 194/382 (50%), Gaps = 31/382 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLARYLVV--EENKQLQLIQLVE 60

Query: 68  VVEEVE-----NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+ +     + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++
Sbjct: 61  VLEDGDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDNNQNTFIEIEQQFQGVLSMRHRIKGESFKVGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++
Sbjct: 181 SIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V 
Sbjct: 241 FFSHNARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                +++  + + +V +   + S AIG+ G NV LAS LTG+ 
Sbjct: 301 IKKIPIEELSAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYH 360

Query: 339 IDIITEEEDSINRQKDFNERTQ 360
           I+  T      N + +  + TQ
Sbjct: 361 IEFETIPSVKENAENESEKETQ 382


>gi|332674287|gb|AEE71104.1| transcription termination factor NusA [Helicobacter pylori 83]
          Length = 395

 Score =  272 bits (696), Expect = 1e-70,   Method: Composition-based stats.
 Identities = 101/382 (26%), Positives = 194/382 (50%), Gaps = 31/382 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLARYLVI--EENKQLQLIQLVE 60

Query: 68  VVEEVE-----NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+ +     + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++
Sbjct: 61  VLEDDDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDNNQNTFIEIEQQFQGVLSMRHRIKGESFKVGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++
Sbjct: 181 SIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V 
Sbjct: 241 FFSHNARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                +++  + + +V +   + S AIG+ G NV LAS LTG+ 
Sbjct: 301 IKKIPIEELSAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYH 360

Query: 339 IDIITEEEDSINRQKDFNERTQ 360
           I+  T      N + +  + TQ
Sbjct: 361 IEFETIPSVKENAENESEKETQ 382


>gi|315585900|gb|ADU40281.1| transcription termination factor NusA [Helicobacter pylori 35A]
          Length = 395

 Score =  272 bits (696), Expect = 1e-70,   Method: Composition-based stats.
 Identities = 101/382 (26%), Positives = 194/382 (50%), Gaps = 31/382 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLARYLVI--EENKQLQLIQLVE 60

Query: 68  VVEEVE-----NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+ +     + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++
Sbjct: 61  VLEDDDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDNHQNTFIEIEQQFQGVLSMRHRIKGESFKVGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++
Sbjct: 181 SIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V 
Sbjct: 241 FFSHNARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                +++  + + +V +   + S AIG+ G NV LAS LTG+ 
Sbjct: 301 IKKIPIEELSAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYH 360

Query: 339 IDIITEEEDSINRQKDFNERTQ 360
           I+  T      N + +  + TQ
Sbjct: 361 IEFETIPSVKENAENESEKETQ 382


>gi|87042917|gb|ABD16468.1| NusA [Paulownia witches'-broom phytoplasma]
          Length = 319

 Score =  272 bits (696), Expect = 1e-70,   Method: Composition-based stats.
 Identities = 95/316 (30%), Positives = 171/316 (54%), Gaps = 9/316 (2%)

Query: 35  IQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYT------CQISLKVARDRD 88
           +    +  +   S  ++E+  +  +I L++   V +E    T        I+L+ A+   
Sbjct: 5   LISGCKKNHKVKS-CKIELKEDKSEIILYKQFLVADEATMSTINLKESTPITLEEAQQIK 63

Query: 89  PSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR 148
           P   IG V+   + P DF   AV+  K    +++ + +R+  Y  FK + G++IS  +  
Sbjct: 64  PHAKIGQVIDIKVDPKDFNLYAVKELKNQFNEELTKKKRENIYNFFKQQEGKLISAKIIS 123

Query: 149 VEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQF 207
                  ++L      ++ + E  S   ++ G+R++ ++ +VR+  + P++ +S  H   
Sbjct: 124 ENDKFYNLELEKEITTLLPKKEIASNNEMQVGERIQVFLSEVRKTTKWPKIFVSCNHVGL 183

Query: 208 MVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVT 267
           +VK+    +PEI  GIV++  V+R  G R K+ + S D+ +D +G+C+G R +R++ V+ 
Sbjct: 184 VVKVLEENIPEIQEGIVKIAGVARISGERTKIGLLSCDAQVDAIGSCIGERSNRIKNVIK 243

Query: 268 ELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQ 326
            L+DEK+D+ VWS D    + NAL+PA   +VV+ D+       IVP +Q SLAIG+ G+
Sbjct: 244 ILKDEKVDLFVWSDDPQELIANALKPASCLQVVIKDDINKYALAIVPDDQFSLAIGKLGK 303

Query: 327 NVRLASQLTGWTIDII 342
           NV+LA ++T W IDI 
Sbjct: 304 NVKLAVEVTKWNIDIK 319


>gi|297380632|gb|ADI35519.1| transcription termination factor NusA [Helicobacter pylori v225d]
          Length = 395

 Score =  271 bits (695), Expect = 1e-70,   Method: Composition-based stats.
 Identities = 101/382 (26%), Positives = 194/382 (50%), Gaps = 31/382 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLARYLVV--EENKQLQLIQLVE 60

Query: 68  VVEEVE-----NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+ +     + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++
Sbjct: 61  VLEDNDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDNNQNTFIEIEQQFQGVLSMRHRIKGESFKVGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++
Sbjct: 181 SIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V 
Sbjct: 241 FFSHNARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                +++  + + +V +   + S AIG+ G NV LAS LTG+ 
Sbjct: 301 IKKIPIEELSAEEKESVQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYH 360

Query: 339 IDIITEEEDSINRQKDFNERTQ 360
           I+  T      N + +  + TQ
Sbjct: 361 IEFETIPSIKENAENESEKETQ 382


>gi|308185285|ref|YP_003929418.1| transcription elongation factor NusA [Helicobacter pylori SJM180]
 gi|308061205|gb|ADO03101.1| transcription elongation factor NusA [Helicobacter pylori SJM180]
          Length = 395

 Score =  271 bits (695), Expect = 1e-70,   Method: Composition-based stats.
 Identities = 101/382 (26%), Positives = 194/382 (50%), Gaps = 31/382 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLARYLVV--EENKQLQLIQLVE 60

Query: 68  VVEEVE-----NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+ +     + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++
Sbjct: 61  VLEDNDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDNNQNTFIEIEQQFQGVLSMRHRIKGESFKVGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++
Sbjct: 181 SIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V 
Sbjct: 241 FFSHNARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                +++  + + +V +   + S AIG+ G NV LAS LTG+ 
Sbjct: 301 IKKIPIEELSAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYH 360

Query: 339 IDIITEEEDSINRQKDFNERTQ 360
           I+  T      N + +  + TQ
Sbjct: 361 IEFETIPSVKENAENESEKETQ 382


>gi|317181199|dbj|BAJ58985.1| transcription elongation factor NusA [Helicobacter pylori F32]
          Length = 395

 Score =  271 bits (695), Expect = 2e-70,   Method: Composition-based stats.
 Identities = 101/382 (26%), Positives = 194/382 (50%), Gaps = 31/382 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLARYLVI--EENKQLQLIQLVE 60

Query: 68  VVEEVE-----NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+ +     + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++
Sbjct: 61  VLEDDDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDNNQNTFIEIEQQFQGVLSMRHRIKGESFKIGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++
Sbjct: 181 SIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V 
Sbjct: 241 FFSHNARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                +++  + + +V +   + S AIG+ G NV LAS LTG+ 
Sbjct: 301 IKKIPIEELSAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYH 360

Query: 339 IDIITEEEDSINRQKDFNERTQ 360
           I+  T      N + +  + TQ
Sbjct: 361 IEFETIPSVKENAENESEKETQ 382


>gi|255024911|ref|ZP_05296897.1| transcription elongation factor NusA [Listeria monocytogenes FSL
           J1-208]
          Length = 180

 Score =  271 bits (695), Expect = 2e-70,   Method: Composition-based stats.
 Identities = 83/180 (46%), Positives = 127/180 (70%)

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           VREAER   Y EF D+  +I++G V+R +   + V+LG  + ++ ++E +  E     DR
Sbjct: 1   VREAERGIIYDEFIDREDDIMTGIVERQDSRFIYVNLGKIEAILSQNEQMPNETYHAHDR 60

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAV 241
           +K Y+  V +  +GPQ+ +SRTHP  + +LF MEVPEIY+G+V++K+V+R+ G R+K++V
Sbjct: 61  IKVYLTKVEKTTKGPQIFVSRTHPGLLKRLFEMEVPEIYDGVVEIKSVAREAGDRSKISV 120

Query: 242 FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL 301
           ++++  +DPVGACVG +G+RVQ +V EL+ EKIDIV WS D  TFV NAL P+ V  V++
Sbjct: 121 YTANEEVDPVGACVGPKGARVQTIVNELKGEKIDIVEWSEDPFTFVANALSPSKVLDVIV 180


>gi|254780024|ref|YP_003058131.1| transcription elongation factor NusA [Helicobacter pylori B38]
 gi|254001937|emb|CAX30190.1| Transcription elongation protein NusA [Helicobacter pylori B38]
          Length = 395

 Score =  271 bits (694), Expect = 2e-70,   Method: Composition-based stats.
 Identities = 99/365 (27%), Positives = 188/365 (51%), Gaps = 31/365 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLARYLVV--EENKQLQLIQLVE 60

Query: 68  VVEEVE-----NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+ +     + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++
Sbjct: 61  VLEDDDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDSNQNTFIEIEQQFQGVLSMRHRIKGESFKVGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++
Sbjct: 181 SIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V 
Sbjct: 241 FFSHNARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                V++  + + +V +   + S AIG+ G NV LAS LTG+ 
Sbjct: 301 IKKIPIEELSAEEKESIQERFVVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYH 360

Query: 339 IDIIT 343
           I+  T
Sbjct: 361 IEFET 365


>gi|308064276|gb|ADO06163.1| transcription elongation factor NusA [Helicobacter pylori Sat464]
          Length = 395

 Score =  271 bits (694), Expect = 2e-70,   Method: Composition-based stats.
 Identities = 101/382 (26%), Positives = 193/382 (50%), Gaps = 31/382 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLARYLVV--EENKQLQLIQLVE 60

Query: 68  VVEEVE-----NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+ +     + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++
Sbjct: 61  VLEDNDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDNNQNTFIEIEQQFQGVLSMRHRIKGESFKVGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++    R PG+RAK++
Sbjct: 181 SIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCVRIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V 
Sbjct: 241 FFSHNARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                +++  + + +V +   + S AIG+ G NV LAS LTG+ 
Sbjct: 301 IKKIPIGELNAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYH 360

Query: 339 IDIITEEEDSINRQKDFNERTQ 360
           I+  T      N + +  + TQ
Sbjct: 361 IEFETIPSVKENAENESEKETQ 382


>gi|289810678|ref|ZP_06541307.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. AG3]
          Length = 236

 Score =  271 bits (694), Expect = 2e-70,   Method: Composition-based stats.
 Identities = 93/235 (39%), Positives = 153/235 (65%), Gaps = 6/235 (2%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLIVEEVTMPTKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL------GNSDGVIRRDETISRENLRPG 179
           ER     +F+D+ GEI++G VK+V   N+ +++      GN++ VI R++ + REN RPG
Sbjct: 122 ERAMVVDQFRDQEGEIVTGVVKKVNRDNISLEIKSEGMAGNAEAVILREDMLPRENFRPG 181

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
           DR++  +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPG
Sbjct: 182 DRIRGVLYAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPG 236


>gi|317010112|gb|ADU80692.1| transcription elongation factor NusA [Helicobacter pylori India7]
          Length = 395

 Score =  271 bits (694), Expect = 2e-70,   Method: Composition-based stats.
 Identities = 101/382 (26%), Positives = 194/382 (50%), Gaps = 31/382 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLARYLVV--EENKQLQLIQLVE 60

Query: 68  VVEEVE-----NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+ +     + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++
Sbjct: 61  VLEDNDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V++  N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDHNQNTFIEIEQQFQGVLSMRHRIKGESFKVGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++    R PG+RAK++
Sbjct: 181 SIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCVRIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V 
Sbjct: 241 FFSHNARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                +++  + + +V +   + S AIG+ G NV LAS LTG+ 
Sbjct: 301 IKKIPLEELNAEEKESVQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYH 360

Query: 339 IDIITEEEDSINRQKDFNERTQ 360
           I+  T      N + +  + TQ
Sbjct: 361 IEFETIPSVKENAENESEKETQ 382


>gi|208435381|ref|YP_002267047.1| transcription termination factor [Helicobacter pylori G27]
 gi|208433310|gb|ACI28181.1| transcription termination factor [Helicobacter pylori G27]
          Length = 395

 Score =  271 bits (694), Expect = 2e-70,   Method: Composition-based stats.
 Identities = 100/381 (26%), Positives = 194/381 (50%), Gaps = 31/381 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLARYLVV--EENKQLQLIQLVE 60

Query: 68  VVEEVE-----NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+ +     + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++
Sbjct: 61  VLEDDDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V++  N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDHNQNTFIEIEQQFQGVLSMRHRIKGESFKVGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++
Sbjct: 181 SIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V 
Sbjct: 241 FFSHNARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                +++  + + +V +   + S AIG+ G NV LAS LTG+ 
Sbjct: 301 IKKIPIEELNAEEKESVQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYH 360

Query: 339 IDIITEEEDSINRQKDFNERT 359
           I+  T      N + +  + T
Sbjct: 361 IEFETIPSVKENAENESEKET 381


>gi|207092969|ref|ZP_03240756.1| transcription elongation factor NusA [Helicobacter pylori
           HPKX_438_AG0C1]
          Length = 387

 Score =  271 bits (693), Expect = 2e-70,   Method: Composition-based stats.
 Identities = 101/382 (26%), Positives = 195/382 (51%), Gaps = 31/382 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLARYLVV--EENKQLQLIQLVE 60

Query: 68  VVEEVE-----NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+ +     + +  ISL  A++ DPS+ I   +S  L   +  + A+    + +  ++
Sbjct: 61  VLEDNDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLENMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDSNQNTFIEIEQQFQGVLSMRHRIKGESFKVGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++
Sbjct: 181 SIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V 
Sbjct: 241 FFSHNARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                +++  + + +V +   + S AIG+ G NV LAS LTG+ 
Sbjct: 301 IKKIPIEELNAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYH 360

Query: 339 IDIITEEEDSINRQKDFNERTQ 360
           I+  T      N + +  + TQ
Sbjct: 361 IEFETIPSVKENAENESEKETQ 382


>gi|308183617|ref|YP_003927744.1| transcription elongation factor NusA [Helicobacter pylori PeCan4]
 gi|308065802|gb|ADO07694.1| transcription elongation factor NusA [Helicobacter pylori PeCan4]
          Length = 395

 Score =  270 bits (692), Expect = 3e-70,   Method: Composition-based stats.
 Identities = 100/381 (26%), Positives = 194/381 (50%), Gaps = 31/381 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLARYLVV--EENKQLQLIQLVE 60

Query: 68  VVEEVE-----NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+ +     + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++
Sbjct: 61  VLEDSDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V++  N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDHNQNTFIEIEQQFQGVLSMRHRIKGESFKVGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++
Sbjct: 181 SIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V 
Sbjct: 241 FFSHNARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                +++  + + +V +   + S AIG+ G NV LAS LTG+ 
Sbjct: 301 IKKIPIEELSAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYH 360

Query: 339 IDIITEEEDSINRQKDFNERT 359
           I+  T      N + +  + T
Sbjct: 361 IEFETILSVKENAENESEKET 381


>gi|217034292|ref|ZP_03439709.1| hypothetical protein HP9810_885g23 [Helicobacter pylori 98-10]
 gi|216943264|gb|EEC22729.1| hypothetical protein HP9810_885g23 [Helicobacter pylori 98-10]
          Length = 395

 Score =  269 bits (689), Expect = 8e-70,   Method: Composition-based stats.
 Identities = 100/382 (26%), Positives = 194/382 (50%), Gaps = 31/382 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYEK++ ++++  ++   + K A++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYEKNLPKEMISKMIQGCLLKMAQNELDPLARYLVI--EENKQLQLIQLVE 60

Query: 68  VVEEVE-----NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+ +     + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++
Sbjct: 61  VLEDDDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDNHQNTFIEIEQQFQGVLSMRHRIKGESFKVGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++
Sbjct: 181 SIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCTRIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V 
Sbjct: 241 FFSHNARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                +++  + + +V +   + S AIG+ G NV LAS LTG+ 
Sbjct: 301 IKKIPIEELSAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYH 360

Query: 339 IDIITEEEDSINRQKDFNERTQ 360
           I+  T      N + +  + TQ
Sbjct: 361 IEFETIPSVKENAENESEKETQ 382


>gi|317182719|dbj|BAJ60503.1| transcription elongation factor NusA [Helicobacter pylori F57]
          Length = 395

 Score =  268 bits (687), Expect = 1e-69,   Method: Composition-based stats.
 Identities = 99/382 (25%), Positives = 194/382 (50%), Gaps = 31/382 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYE+++ ++++  V+   + K  ++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYERNLPKEMISKVIQGCLLKMVQNELDPLARYLVV--EENKQLQLIQLVE 60

Query: 68  VVEEVE-----NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+ +     + +  ISL  A++ DPS+ I   +S  L   +  + A+    + +  ++
Sbjct: 61  VLEDNDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLENMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDNHQNTFIEIEQQFQGVLSMRHRIKGESFKVGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++
Sbjct: 181 SIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V 
Sbjct: 241 FFSHNARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                +++  + + +V +   + S AIG+ G NV LAS LTG+ 
Sbjct: 301 IKKIPIEELSAEEKESIQERFIVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYH 360

Query: 339 IDIITEEEDSINRQKDFNERTQ 360
           I+  T      N + +  + TQ
Sbjct: 361 IEFETIPSVKENAENESEKETQ 382


>gi|87042913|gb|ABD16466.1| NusA [Maize bushy stunt phytoplasma]
          Length = 319

 Score =  268 bits (686), Expect = 2e-69,   Method: Composition-based stats.
 Identities = 91/316 (28%), Positives = 171/316 (54%), Gaps = 9/316 (2%)

Query: 35  IQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYT------CQISLKVARDRD 88
           +    +  +   S  ++++  +  +I L++   V +E    T        I+L+ A+   
Sbjct: 5   LISGCKKNHKVKS-CKIQLKEDKSEIILYKQFLVADEATMSTINLKESTPITLEEAQQIK 63

Query: 89  PSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR 148
           P   IG V+   + P DF   AV+  K    +++ + +R+  Y  F+ + G++IS  +  
Sbjct: 64  PHAKIGQVIDIKVDPKDFNLYAVKELKNQFNEELTKKKRENIYNFFEQQEGKLISAKIIS 123

Query: 149 VEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQF 207
                  ++L      ++ + E  S   ++ G+R++ ++ +VR+  + P++ +S  H   
Sbjct: 124 ENDKFYNLELEKEITTLLPKKEIASNNEMQVGERIQVFLSEVRKTTKWPKIFVSCNHVGL 183

Query: 208 MVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVT 267
           +VK+    +PEI  GIV++  ++R  G R K+ + S D+ +D +G+C+G R +R++ ++ 
Sbjct: 184 VVKVLEENIPEIQEGIVKIAGIARISGERTKIGLLSCDAQVDAIGSCIGERSNRIKNIIK 243

Query: 268 ELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQ 326
            L+DEK+D+ VWS D    + NAL+PA   +VV+ D+       IVP +Q SLAIG+ G+
Sbjct: 244 ILKDEKVDLFVWSDDPQELISNALKPASCIQVVIKDDINKYALAIVPDDQFSLAIGKLGK 303

Query: 327 NVRLASQLTGWTIDII 342
           NV+LA ++T W IDI 
Sbjct: 304 NVKLAVEVTKWNIDIK 319


>gi|109946702|ref|YP_663930.1| transcription elongation factor NusA [Helicobacter acinonychis str.
           Sheeba]
 gi|109713923|emb|CAJ98931.1| N utilization substance protein A [Helicobacter acinonychis str.
           Sheeba]
          Length = 395

 Score =  268 bits (685), Expect = 2e-69,   Method: Composition-based stats.
 Identities = 100/381 (26%), Positives = 192/381 (50%), Gaps = 31/381 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYEKNLPKEMISKVVQGCLLKMAQNELDPLARYLVI--EENKQLQLIQLVE 60

Query: 68  VVEEVE-----NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+ +     + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++
Sbjct: 61  VLEDDDEGLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDNNQNTFIEIEQQFQGVLSMRHRIKGESFKIGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++    R PG+RAK++
Sbjct: 181 SIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCVRIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS++S IDP+GA VG++G R+ A+  EL  E ID + +S     ++  AL PA +  V 
Sbjct: 241 FFSNNSRIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLALAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                +++  + + +V +   + S AIG+ G NV LAS LT + 
Sbjct: 301 IKKIPIEELSAQEKELIQERFIVNNHLQKAKVRLLDTEKSKAIGKGGVNVCLASMLTSYH 360

Query: 339 IDIITEEEDSINRQKDFNERT 359
           I+  T      N + +  + T
Sbjct: 361 IEFETIPSVKENTENEDEKET 381


>gi|210135681|ref|YP_002302120.1| transcription elongation factor NusA [Helicobacter pylori P12]
 gi|210133649|gb|ACJ08640.1| transcription termination factor A [Helicobacter pylori P12]
          Length = 395

 Score =  267 bits (684), Expect = 3e-69,   Method: Composition-based stats.
 Identities = 100/381 (26%), Positives = 192/381 (50%), Gaps = 31/381 (8%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  + + +AYEK++ ++++  V+   + K A++    ++   V    E   + L +L+E
Sbjct: 3   KISDLIECIAYEKNLPKEMISKVIQGCLLKMAQNELDPLARYLVV--EENKQLQLIQLVE 60

Query: 68  VVEEVE-----NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           V+E+ +     + +  ISL  A++ DPS+ I   +S  L      + A+    + +  ++
Sbjct: 61  VLEDDDERLINDPSKYISLSKAKEMDPSVKIKDELSYSLSLESMKQGAINRLFKDLQYQL 120

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVE-YGNVIVDLGNSD-GVIRRDETISRENLRPGD 180
            +A  D  +  F+ ++  ++ G V  V+   N  +++     GV+     I  E+ + GD
Sbjct: 121 EKALEDSHFEAFQKRLNSVLMGQVILVDSNQNTFIEIEQQFQGVLSMRHRIKGESFKVGD 180

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA 240
            +K+ +  V+R ++G  + LSRT P+ +  L  +EVPEI +  +++   +R PG+RAK++
Sbjct: 181 SIKAVLTQVKRTKKGLLLELSRTTPKMLEALLELEVPEIKDKEIEIIHCARIPGNRAKVS 240

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV- 299
            FS ++ IDP+GA VG++G R+ A+  EL  E ID + +S     ++   L PA +  V 
Sbjct: 241 FFSHNARIDPIGAAVGVKGVRINAISNELNKENIDCIEYSNVPEIYITLVLAPAKILSVE 300

Query: 300 ---------------------VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
                                V++  + + +V +   + S AIG+ G NV LAS LTG+ 
Sbjct: 301 IKKIPIEELSAEEKESIQERFVVNNHLQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYH 360

Query: 339 IDIITEEEDSINRQKDFNERT 359
           I+  T      N + +  + T
Sbjct: 361 IEFETIPSVKENAENESEKET 381


>gi|166012287|gb|ABY77760.1| transcription factor NusA [Paulownia witches'-broom phytoplasma]
          Length = 315

 Score =  266 bits (682), Expect = 5e-69,   Method: Composition-based stats.
 Identities = 92/313 (29%), Positives = 169/313 (53%), Gaps = 9/313 (2%)

Query: 35  IQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYT------CQISLKVARDRD 88
           +    +  +   S  ++E+  +  +I L++   V +E    T        I+L+ A+   
Sbjct: 4   LISGCKKNHKVKS-CKIELKEDKSEIILYKQFLVADEATMSTINLKESTPITLEEAQQIK 62

Query: 89  PSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR 148
           P   IG V+   + P DF   A++  K    +++ + +R+  Y  FK + G++IS  +  
Sbjct: 63  PHAKIGQVIDIKVDPKDFNLYAIKELKNQFNEELTKKKRENIYNFFKQQEGKLISAKIIS 122

Query: 149 VEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQF 207
                  ++L      ++ + E  S   ++ G+R++ ++ +VR+  + P++ +S  H   
Sbjct: 123 ENDKFYNLELEKEITTLLPKKEIASNNEMQVGERIQVFLSEVRKTTKWPKIFVSCNHVGL 182

Query: 208 MVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVT 267
           +VK+    +PEI  GIV++  V+R  G R K+ + S D+ +D +G+C+G R +R++ V+ 
Sbjct: 183 VVKVLEENIPEIQEGIVKIAGVARISGERTKIGLLSCDAQVDAIGSCIGERSNRIKNVIK 242

Query: 268 ELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQ 326
            L+DEK+D+ VWS D    + NAL+PA   +VV+ D+       IVP +Q SLAIG+ G+
Sbjct: 243 ILKDEKVDLFVWSDDPQELIANALKPASCLQVVIKDDINKYALAIVPDDQFSLAIGKLGK 302

Query: 327 NVRLASQLTGWTI 339
           NV+LA ++T W I
Sbjct: 303 NVKLAVEVTKWNI 315


>gi|213022790|ref|ZP_03337237.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. 404ty]
          Length = 177

 Score =  265 bits (677), Expect = 2e-68,   Method: Composition-based stats.
 Identities = 91/172 (52%), Positives = 129/172 (75%)

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
             RPGDR++  +Y VR E RG Q+ ++R+ P+ +++LF +EVPEI   ++++KA +RDPG
Sbjct: 5   TYRPGDRIRGVLYAVRPEARGAQLFVTRSKPEMLIELFRIEVPEIGEEVIEIKAAARDPG 64

Query: 235 SRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA 294
           SRAK+AV ++D  IDPVGACVGMRG+RVQAV TEL  E+IDIV+W  + A FVINA+ PA
Sbjct: 65  SRAKIAVKTNDKRIDPVGACVGMRGARVQAVSTELGGERIDIVLWDDNPAQFVINAMAPA 124

Query: 295 IVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            V  +V+DED   +++ V    L+ AIGR GQNV LASQL+GW ++++T ++
Sbjct: 125 DVASIVVDEDKHTMDIAVEAGNLAQAIGRNGQNVHLASQLSGWELNVMTVDD 176


>gi|206896456|ref|YP_002247276.1| transcription termination factor NusA [Coprothermobacter
           proteolyticus DSM 5265]
 gi|206739073|gb|ACI18151.1| transcription termination factor NusA [Coprothermobacter
           proteolyticus DSM 5265]
          Length = 343

 Score =  264 bits (675), Expect = 3e-68,   Method: Composition-based stats.
 Identities = 94/353 (26%), Positives = 165/353 (46%), Gaps = 29/353 (8%)

Query: 2   VSANRLE-----LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIR---VEI 53
           +  N+ E     L +    +A +  +    ++  + D++  A R       +     ++I
Sbjct: 1   MEKNKSEAIEKALNEYIRQIASDLDLTPQEIIEALKDALVSAIRKELDIPKEAVGSAIKI 60

Query: 54  NPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQS 113
                 +             ++   I    A        +   +  PL   +  RV++Q+
Sbjct: 61  EENGSSLKFLVNK-------DFVKTIPEDEA--------VSDWIEFPLS--NLSRVSIQT 103

Query: 114 AKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN--VIVDLGNSDGVIRRDETI 171
           A+  +  ++ E  +++         GE+++  V R +     + +D+   + V+   E +
Sbjct: 104 AENTLKNRMNEKSKEKAIKRIAQFSGEVVTARVIRRDPKTKLIYMDVDGVECVLEPSEQL 163

Query: 172 SRENLRPGDRVKSYIYDVRREQRGPQ-VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVS 230
             +   PGD ++  +   +      Q V LSR+ P  +  LF +EVPE+ +G+V++  ++
Sbjct: 164 PTDRYAPGDSLRCLVLGAKNIPMYGQGVALSRSSPDLLKLLFTLEVPEVADGVVRIMGIA 223

Query: 231 RDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA 290
           R PG R+K+AV S D  +DP GAC+G +G R+QA+   L +EKID+V W  D A  + N 
Sbjct: 224 RKPGRRSKVAVMSIDPRLDPQGACIGYKGQRIQAISRSLANEKIDVVRWDTDPAKLIANV 283

Query: 291 LRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
           L P  V KV VLD    R  V    + + + +G  G+NV LA QLTGWTID+ 
Sbjct: 284 LSPGKVDKVEVLDPKNKRALVYTTPDNIKVVVGEDGENVELAEQLTGWTIDVR 336


>gi|169302736|gb|ACA53041.1| NusA [Wheat blue dwarf phytoplasma]
          Length = 317

 Score =  263 bits (674), Expect = 4e-68,   Method: Composition-based stats.
 Identities = 90/314 (28%), Positives = 168/314 (53%), Gaps = 9/314 (2%)

Query: 35  IQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYT------CQISLKVARDRD 88
           +    +  +   S  ++++  +  +I L++   V +E    T        I+L+ A+   
Sbjct: 4   LISGCKKNHKVKS-CKIQLKEDKSEIILYKQFLVADEATMSTINLKESTPITLEEAQQIK 62

Query: 89  PSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR 148
           P   IG V+   + P DF   AV+  K    +++ + +R+  Y   K + G++IS  +  
Sbjct: 63  PHAKIGQVIDIKVDPKDFNLYAVKEFKNQFNEELTKKKRENIYNFSKQQEGKLISAKIIS 122

Query: 149 VEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQF 207
                  ++L      ++ + E  S   ++ G+R++ ++ +VR+  + P++ +S  H   
Sbjct: 123 ENDKFYNLELEKEITTLLPKKEIASNNEMQVGERIQVFLSEVRKTTKWPKIFVSCNHVGL 182

Query: 208 MVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVT 267
           +VK+    +PEI  GIV++  V+R  G R K+ + S D+ +D +G+C+G R +R++ V+ 
Sbjct: 183 VVKVLEENIPEIQEGIVKIAGVARISGERTKIGLLSCDAQVDAIGSCIGERSNRIKNVIK 242

Query: 268 ELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQ 326
            L+ EK+D+ VWS D    + NAL+PA   +VV+ D+       IVP +Q SLAIG+ G+
Sbjct: 243 ILKGEKVDLFVWSDDPQELIANALKPASCPQVVIKDDINKYALAIVPDDQFSLAIGKLGK 302

Query: 327 NVRLASQLTGWTID 340
           NV+LA ++T W I+
Sbjct: 303 NVKLAVEVTKWNIE 316


>gi|47458985|ref|YP_015847.1| transcription elongation factor NusA [Mycoplasma mobile 163K]
 gi|47458313|gb|AAT27636.1| N-utilization substance protein a [Mycoplasma mobile 163K]
          Length = 514

 Score =  263 bits (674), Expect = 4e-68,   Method: Composition-based stats.
 Identities = 96/358 (26%), Positives = 178/358 (49%), Gaps = 22/358 (6%)

Query: 21  SIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINP-ETGD--ISLFRL-LEV----VEEV 72
            + +  V+  + ++I     + +   + + + I   ETG+  I L+ L   V    VEE 
Sbjct: 26  DLSQKEVMDTLLNAITLIFNNDFDPNAKLDLVIEKSETGESKIKLYILNKLVTDYDVEEE 85

Query: 73  ENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYL 132
           E Y   ++++ A+  +PS+++     D +P   F     +    V  Q ++E  ++    
Sbjct: 86  EKYYS-MNVENAKKINPSLEVNMTFKDEIPFESFSPSIFKKIYNVFTQSMKEFSKEYLIS 144

Query: 133 EFKDKVGEIISGTVKRVE----YGNVIVDL----GNSDGVIRRDETISRENLRPGDRVKS 184
           ++ +  G+II   ++ +        V + L    G+ +  +          +  GD V+ 
Sbjct: 145 KYGNLKGQIIRMKIEGINITNNRRMVSLKLENENGSIEAFMPDKLQNPNIEMVIGDYVEV 204

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSS 244
           Y+ DV+ + RG +V++S T  + + KL  +E+PEI +G + + A+ R PG R+K+AV  +
Sbjct: 205 YVEDVKPDSRGLRVIVSNTSNEILKKLLELEIPEIASGNIVINAIKRIPGIRSKIAVSKT 264

Query: 245 D---SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-- 299
                 IDP+GA VG +GSR+  +   L  EKID++++  +   F+IN++ PA V  +  
Sbjct: 265 SFAPDGIDPMGAIVGQKGSRINKISDRLGGEKIDVILFDTNLEKFIINSISPASVAHISK 324

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           + DE      V+VP    + AIG+ GQNV+LA+ LT   +DI++  +      +  N 
Sbjct: 325 INDEANNHFLVVVPDLDNTKAIGKAGQNVKLAAGLTETRLDILSVTQAKEKGIELLNN 382


>gi|294660246|ref|NP_852895.2| transcription elongation factor NusA [Mycoplasma gallisepticum str.
           R(low)]
 gi|284811901|gb|AAP56463.2| transcription elongation factor NusA [Mycoplasma gallisepticum str.
           R(low)]
 gi|284930355|gb|ADC30294.1| transcription elongation factor NusA [Mycoplasma gallisepticum str.
           R(high)]
          Length = 624

 Score =  263 bits (672), Expect = 7e-68,   Method: Composition-based stats.
 Identities = 97/363 (26%), Positives = 175/363 (48%), Gaps = 20/363 (5%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +S +    L+    VA  K+I +  + +++ D+I +A          I V I+ + G + 
Sbjct: 1   MSVDNKSFLEAIQTVAETKNISKKEISTILKDAIIRACAKE-DPDQRIDVMIDFDMGLLK 59

Query: 62  LFRLLEVV-----EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQ 116
           +F+L +V+     EE  +   +I LK A   +P+I +G      L   DF RV   +  Q
Sbjct: 60  IFKLYKVIDDSVSEEEFDEINEIHLKDALATNPTIKVGDDFLKSLSIGDFSRVVATNISQ 119

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG--NVIVDLGNSDGVIRRDETISRE 174
              QK+ E    +   E+  K+ +I+ GTV++ E     ++V+LG       + + +  E
Sbjct: 120 YFRQKLSELVNKQAVSEWTPKLNKIVRGTVEKDENNPNVLLVNLGGIYAYYYKRDWVPNE 179

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
            L+        +  ++ + +   +++SR+   ++  +    +PEI  GIV++KA+ R  G
Sbjct: 180 ELQNDVEYDFVLTQIKEQSKSWPLIVSRSDALYVKHVLTENIPEIKEGIVEIKAIQRVAG 239

Query: 235 SRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTEL---------RDEKIDIVVWSPDSAT 285
            + K+AV S++  IDPV   +G  G R++++   L          +E ID+  W+ D   
Sbjct: 240 QKTKVAVLSNNPDIDPVTLILGDGGIRIKSIAANLIEHSSGVKVSNEVIDVFHWNDDVFK 299

Query: 286 FVINALRPAIVTKVVL---DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
            + NA  P  +  V +    E    +++IV  + L   IGR G NVRL S +TGW+ID  
Sbjct: 300 LIANACYPVDIIGVDVLEDSERDKSVDIIVEDQYLPFLIGRAGINVRLLSYMTGWSIDFK 359

Query: 343 TEE 345
           ++ 
Sbjct: 360 SQS 362


>gi|114777565|ref|ZP_01452546.1| transcription elongation factor NusA [Mariprofundus ferrooxydans
           PV-1]
 gi|114552036|gb|EAU54553.1| transcription elongation factor NusA [Mariprofundus ferrooxydans
           PV-1]
          Length = 235

 Score =  263 bits (672), Expect = 7e-68,   Method: Composition-based stats.
 Identities = 100/234 (42%), Positives = 155/234 (66%), Gaps = 1/234 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            +E+LQ+ADAVA EKS+DR++VL  M  +++ AAR  Y    ++  EI+ +TG+I LF +
Sbjct: 2   NVEMLQVADAVAREKSVDRELVLEAMEQALKTAARRTY-PGLNVEAEIDRDTGEIRLFHV 60

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
              VEEVE+   +++++ A+       +G      L P++ GR+A Q+AKQVI QK+REA
Sbjct: 61  RVAVEEVEDQDNELTVEEAQALRDDAVLGSEFRTALAPIELGRIAAQTAKQVINQKIREA 120

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY 185
           ER+R   E++ +VGE+I+G VKRVE GNV VDLG  + V+ R++ + RE  R GDRV++Y
Sbjct: 121 ERERVIAEYEPRVGELITGIVKRVERGNVYVDLGRGEAVMYREDLLPRETFRQGDRVRAY 180

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           + +VR + +GP V +SR+    +++LF  EVPEI +G V ++ +   P   A+L
Sbjct: 181 LREVRNQPKGPVVFVSRSDAGMVLRLFEQEVPEIEDGTVTIQRLPVIPARAARL 234


>gi|195953996|ref|YP_002122286.1| transcription elongation factor NusA [Hydrogenobaculum sp. Y04AAS1]
 gi|195933608|gb|ACG58308.1| NusA antitermination factor [Hydrogenobaculum sp. Y04AAS1]
          Length = 322

 Score =  261 bits (668), Expect = 2e-67,   Method: Composition-based stats.
 Identities = 112/345 (32%), Positives = 189/345 (54%), Gaps = 30/345 (8%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           + ++ + VA EK I   +V   + ++I    R        IR       G I +    + 
Sbjct: 5   IKKLIENVAKEKDIPAKIVEIALKNAIAYGIRK----EKHIR-------GKIYI----DF 49

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
            ++       IS +     D            +   D  R+A  +AK+  ++++  AER+
Sbjct: 50  ADDDTITAYIISGREKTKLD------------ISTEDLNRIAAYAAKEEFLKELENAERE 97

Query: 129 RQYLEFKDKVGEIISGTVKRVEYG-NVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIY 187
           R +LE+  + G I+ G V+ +      IVDLG  D  + R E IS+E+ +  DRVK+ ++
Sbjct: 98  RGFLEYVSQEGNIVHGIVREITKDQTAIVDLGPIDAELPRREQISKESFKKNDRVKALLF 157

Query: 188 DVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
            V++E+  P +LLSRTHP+F+ +L   E+PE+  G+V++ +V+R+PG +AK+ V + D  
Sbjct: 158 SVQKERGRPVLLLSRTHPKFLRRLLEAEIPEVATGLVKIISVAREPGEKAKVVVDTEDKK 217

Query: 248 IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           IDPVG  +G++GS++  +  EL  E ID+V +S D   F+ N   PA +  V   E   +
Sbjct: 218 IDPVGVVIGIKGSKINPISKELAGEHIDVVRYSKDKKKFLENLFFPAKILDVR--ESDNQ 275

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQ 352
           IEV V K+Q+SLAIG+RG N +LA ++ G  ID++++E+    ++
Sbjct: 276 IEVAVDKDQISLAIGKRGINTKLAYKILGKHIDVMSKEDFDKLKK 320


>gi|218459797|ref|ZP_03499888.1| transcription elongation factor NusA [Rhizobium etli Kim 5]
          Length = 262

 Score =  258 bits (661), Expect = 1e-66,   Method: Composition-based stats.
 Identities = 113/217 (52%), Positives = 151/217 (69%), Gaps = 1/217 (0%)

Query: 304 DVGRIEVIVP-KEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           D  RIEV V    Q  L      QNVRLASQLTGW IDI+TE E+S  RQK+FNERT  F
Sbjct: 33  DARRIEVFVSRTRQRRLRSVAAAQNVRLASQLTGWDIDIMTEAEESERRQKEFNERTNLF 92

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M +++VDE++  +L +EGFA VEELA V + EI+SI+GFDE+TA EIQ RARE+LE ++ 
Sbjct: 93  MDSLDVDEMVGQVLASEGFAAVEELAYVDLDEISSIDGFDEDTAQEIQTRAREFLERLEA 152

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
            + +K + LGV +EL  I G+ +++ VALGE+GIK++ED AGC+ DDL+GW+E K G  +
Sbjct: 153 EMDEKRKALGVQDELREIDGMTAQMMVALGEDGIKSIEDFAGCAADDLVGWTERKNGETK 212

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVAD 519
           KF+G  S     + + E MI+ AR   GWI +E +A 
Sbjct: 213 KFEGLFSKFDVSRVEAEQMIVQARLAAGWITEEDLAK 249


>gi|284931121|gb|ADC31059.1| transcription elongation factor NusA [Mycoplasma gallisepticum str.
           F]
          Length = 622

 Score =  257 bits (658), Expect = 3e-66,   Method: Composition-based stats.
 Identities = 96/363 (26%), Positives = 175/363 (48%), Gaps = 20/363 (5%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +S +    L+    VA  K+I +  + +++ D+I +A          I V I+ + G + 
Sbjct: 1   MSVDNKSFLEAIQTVAETKNISKKEISTILKDAIIRACAKE-DPDQRIDVMIDFDMGLLK 59

Query: 62  LFRLLEVV-----EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQ 116
           +F+L +V+     EE  +   +I L+ A   +P+I +G      L   DF RV   +  Q
Sbjct: 60  IFKLYKVIDDSVGEEEFDEINEIHLRDALATNPTIKVGDDFLKSLSIGDFSRVVATNISQ 119

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG--NVIVDLGNSDGVIRRDETISRE 174
              QK+ E    +   E+  K+ +I+ GTV++ E     ++V+LG       + + +  E
Sbjct: 120 YFRQKLSELVNKQAVSEWTPKLNKIVRGTVEKDENNPNVLLVNLGGIYAYYYKRDWVPNE 179

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
            L+        +  ++ + +   +++SR+   ++  +    +PEI  GIV++KA+ R  G
Sbjct: 180 ELQNDVEYDFVLTQIKEQSKSWPLVVSRSDALYVKHVLTENIPEIKEGIVEIKAIQRVAG 239

Query: 235 SRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTEL---------RDEKIDIVVWSPDSAT 285
            + K+AV S++  IDPV   +G  G R++++   L          +E ID+  W+ D   
Sbjct: 240 QKTKVAVLSNNPDIDPVTLILGDGGIRIKSIAANLIEHSSGVKVSNEVIDVFHWNDDVFK 299

Query: 286 FVINALRPAIVTKVVL---DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
            + NA  P  +  V +    E    +++IV  + L   IGR G NVRL S +TGW+ID  
Sbjct: 300 LIANACYPVDIIGVDVLEDSERDKSVDIIVEDQYLPFLIGRAGINVRLLSYMTGWSIDFK 359

Query: 343 TEE 345
           ++ 
Sbjct: 360 SQS 362


>gi|13357878|ref|NP_078152.1| transcription elongation factor NusA [Ureaplasma parvum serovar 3
           str. ATCC 700970]
 gi|170762445|ref|YP_001752400.1| transcription elongation factor NusA [Ureaplasma parvum serovar 3
           str. ATCC 27815]
 gi|11356991|pir||H82905 N-utilization substance protein a UU318 [imported] - Ureaplasma
           urealyticum
 gi|6899295|gb|AAF30727.1|AE002129_3 N-utilization substance protein a [Ureaplasma parvum serovar 3 str.
           ATCC 700970]
 gi|168828022|gb|ACA33284.1| transcription termination factor NusA [Ureaplasma parvum serovar 3
           str. ATCC 27815]
          Length = 458

 Score =  256 bits (656), Expect = 5e-66,   Method: Composition-based stats.
 Identities = 109/468 (23%), Positives = 211/468 (45%), Gaps = 41/468 (8%)

Query: 3   SANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISL 62
           S    E ++     A +  I+ +V+ S++ ++ +KA    +    +    I+ + G I+ 
Sbjct: 4   SFKSKEFIEYFKDTAKQNEIEFEVLSSIIKEAFEKAYLRTHPGE-NFETNIDLKQGTINC 62

Query: 63  FRLLEVVE-------EVE---NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQ 112
           FR L VVE       ++E   +   +I L  AR  + +  IG ++   +   +F  + V 
Sbjct: 63  FRNLVVVENEKVHNEDLETCLDDAVEILLDDARKINANAQIGDLIKQHISIDNFKSIEVG 122

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV-------KRVEYGNVIVDLG---NSD 162
               ++ QK+ E    R    +K  + ++I   V       +R E   V V+L     + 
Sbjct: 123 QIGSLLRQKITEIHNKRVADFWKPSLMKMIRAKVAEVNYNKQRNEITGVKVELDDQWKTL 182

Query: 163 GVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNG 222
           G + R + I  E  + G+     I +V+ + R   +LLSRT P+ + ++   EV +I NG
Sbjct: 183 GYLSRKDRIGDEKFKVGETYDFLIKEVKEQSRLWPILLSRTEPELVEEILKREVVDIKNG 242

Query: 223 IVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPD 282
            +++K ++R  G + K+AV ++  +I+PV   VG +G  + ++  +L +E+IDI+ ++ D
Sbjct: 243 NIEIKKIARIAGFKTKVAVSTNLLNIEPVAVVVGNKGLTITSISKQLNNERIDIIRYADD 302

Query: 283 SATFVINALRPAIVTKVVLDEDV---GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
              F+ NA+    +  +++ E+         IV K+ L   IGR G N+RL +++T W I
Sbjct: 303 KRIFIANAIGLDKLKGLLVQENESGQRSAIAIVSKDDLPSVIGRGGANIRLIAKITEWNI 362

Query: 340 DIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIE 399
           D+ T E+       + N   + F      DE I           + +        +A I+
Sbjct: 363 DVKTIEQAF-----EENILYEKF------DEKIYRSWN---IESINKKNVTNDEMLALID 408

Query: 400 GFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE--LCSIPGIDS 445
             +++   +        L+  +  +     E G ++E  L  + G + 
Sbjct: 409 SIEDDKIEQDVQL-NHPLKQQEKKVVSSNDEDGENDETQLEYLEGFED 455


>gi|171920241|ref|ZP_02931610.1| transcription termination factor NusA [Ureaplasma parvum serovar 1
           str. ATCC 27813]
 gi|183508804|ref|ZP_02958262.1| transcription termination factor NusA [Ureaplasma parvum serovar 14
           str. ATCC 33697]
 gi|186701622|ref|ZP_02971327.1| transcription termination factor NusA [Ureaplasma parvum serovar 6
           str. ATCC 27818]
 gi|171902640|gb|EDT48929.1| transcription termination factor NusA [Ureaplasma parvum serovar 1
           str. ATCC 27813]
 gi|182675756|gb|EDT87661.1| transcription termination factor NusA [Ureaplasma parvum serovar 14
           str. ATCC 33697]
 gi|186700854|gb|EDU19136.1| transcription termination factor NusA [Ureaplasma parvum serovar 6
           str. ATCC 27818]
          Length = 458

 Score =  256 bits (655), Expect = 6e-66,   Method: Composition-based stats.
 Identities = 109/468 (23%), Positives = 211/468 (45%), Gaps = 41/468 (8%)

Query: 3   SANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISL 62
           S    E ++     A +  I+ +V+ S++ ++ +KA    +    +    I+ + G I+ 
Sbjct: 4   SFKSKEFIEYFKDTAKQNEIEFEVLSSIIKEAFEKAYSRTHPGE-NFETNIDLKQGTINC 62

Query: 63  FRLLEVVE-------EVE---NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQ 112
           FR L VVE       ++E   +   +I L  AR  + +  IG ++   +   +F  + V 
Sbjct: 63  FRNLVVVENEKVHNEDLETCLDDAVEILLDDARKINANAQIGDLIKQHISIDNFKSIEVG 122

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV-------KRVEYGNVIVDLG---NSD 162
               ++ QK+ E    R    +K  + ++I   V       +R E   V V+L     + 
Sbjct: 123 QIGSLLRQKITEIHNKRVADFWKPSLMKMIRAKVAEVNYNKQRNEITGVKVELDDQWKTL 182

Query: 163 GVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNG 222
           G + R + I  E  + G+     I +V+ + R   +LLSRT P+ + ++   EV +I NG
Sbjct: 183 GYLSRKDRIGDEKFKVGETYDFLIKEVKEQSRLWPILLSRTEPELVEEILKREVVDIKNG 242

Query: 223 IVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPD 282
            +++K ++R  G + K+AV ++  +I+PV   VG +G  + ++  +L +E+IDI+ ++ D
Sbjct: 243 NIEIKKIARIAGFKTKVAVSTNLLNIEPVAVVVGNKGLTITSISKQLNNERIDIIRYADD 302

Query: 283 SATFVINALRPAIVTKVVLDEDV---GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
              F+ NA+    +  +++ E+         IV K+ L   IGR G N+RL +++T W I
Sbjct: 303 KRIFIANAIGLDKLKGLLVQENESGQRSAIAIVSKDDLPSVIGRGGANIRLIAKITEWNI 362

Query: 340 DIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIE 399
           D+ T E+       + N   + F      DE I           + +        +A I+
Sbjct: 363 DVKTIEQAF-----EENILYEKF------DEKIYRSWN---IESINKKNVTNDEMLALID 408

Query: 400 GFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE--LCSIPGIDS 445
             +++   +        L+  +  +     E G ++E  L  + G + 
Sbjct: 409 SIEDDKIEQDVQL-NHPLKQQEKKVVSSNDEDGENDETQLEYLEGFED 455


>gi|209554499|ref|YP_002284717.1| transcription elongation factor NusA [Ureaplasma urealyticum
           serovar 10 str. ATCC 33699]
 gi|209542000|gb|ACI60229.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 10 str. ATCC 33699]
          Length = 458

 Score =  253 bits (648), Expect = 4e-65,   Method: Composition-based stats.
 Identities = 109/468 (23%), Positives = 209/468 (44%), Gaps = 41/468 (8%)

Query: 3   SANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISL 62
           S    E ++     A +  I+ +V+ S++ ++ +K     +    +    IN + G I+ 
Sbjct: 4   SFKSKEFIEYFKDTAKQNEIELEVLSSIIKEAFEKTYLRTHPGE-NFETNINLKEGTINC 62

Query: 63  FRLLEVVE-------EVE---NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQ 112
           FR L VVE       ++E   +   +I L  AR  + +  IG  +   +   DF  + V 
Sbjct: 63  FRNLVVVENEKAHNEDLETCLDDAVEILLDDARKINANAQIGDTIKQYISIDDFKSIEVG 122

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV-------KRVEYGNVIVDLG---NSD 162
               ++ QK+ E    R    +K  + ++I   V       +R E   V V+L     + 
Sbjct: 123 QIGSLLRQKITEIHNKRVADFWKPSLMKMIRAKVAEINYNKQRNEITGVKVELDDQWKTL 182

Query: 163 GVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNG 222
           G + R + I  E  + G+     I +V+ + R   VLLSRT P+ + ++   EV +I NG
Sbjct: 183 GYLSRKDRIGDEKFKVGETYDFIIKEVKEQSRLWPVLLSRTEPELVEEILKREVVDIKNG 242

Query: 223 IVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPD 282
            +++K ++R  G + K+AV ++  +I+PV   VG +G  + ++  +L +E+ID++ ++ D
Sbjct: 243 NIEIKKIARIAGFKTKVAVSTNLLNIEPVAVVVGNKGLTITSISKQLNNERIDVIRYADD 302

Query: 283 SATFVINALRPAIVTKVVLDEDV---GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
              F+ NA+    +  +++ E+         IV KE L   IGR G N+RL +++T W I
Sbjct: 303 KRIFIANAIGLDKLKGLLVQENESDQRSAIAIVSKEDLPSVIGRGGANIRLIAKITEWNI 362

Query: 340 DIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIE 399
           D+ T E+       + N   + F      DE I           + +        +A I+
Sbjct: 363 DVKTIEQAF-----EENVVYEKF------DEKIYRSWN---IESINKKNVTNDEMLALID 408

Query: 400 GFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE--LCSIPGIDS 445
              +E   +   + ++ L+  +        +   +++  L  + G + 
Sbjct: 409 NMQDEKVEKT-EQVKDQLKQQEKQTIVSNNDDSENDDEQLEYLEGFED 455


>gi|195867649|ref|ZP_03079651.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 9 str. ATCC 33175]
 gi|195660706|gb|EDX53961.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 9 str. ATCC 33175]
          Length = 460

 Score =  253 bits (647), Expect = 6e-65,   Method: Composition-based stats.
 Identities = 109/468 (23%), Positives = 209/468 (44%), Gaps = 41/468 (8%)

Query: 3   SANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISL 62
           S    E ++     A +  I+ +V+ S++ ++ +K     +    +    IN + G I+ 
Sbjct: 6   SFKSKEFIEYFKDTAKQNEIELEVLSSIIKEAFEKTYLRTHPGE-NFETNINLKEGTINC 64

Query: 63  FRLLEVVE-------EVE---NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQ 112
           FR L VVE       ++E   +   +I L  AR  + +  IG  +   +   DF  + V 
Sbjct: 65  FRNLVVVENEKAHNEDLETCLDDAVEILLDDARKINANAQIGDTIKQYILIDDFKSIEVG 124

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV-------KRVEYGNVIVDLG---NSD 162
               ++ QK+ E    R    +K  + ++I   V       +R E   V V+L     + 
Sbjct: 125 QIGSLLRQKITEIHNKRVADFWKPSLMKMIRAKVAEINYNKQRNEITGVKVELDDQWKTL 184

Query: 163 GVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNG 222
           G + R + I  E  + G+     I +V+ + R   VLLSRT P+ + ++   EV +I NG
Sbjct: 185 GYLSRKDRIGDEKFKVGETYDFIIKEVKEQSRLWPVLLSRTEPELVEEILKREVVDIKNG 244

Query: 223 IVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPD 282
            +++K ++R  G + K+AV ++  +I+PV   VG +G  + ++  +L +E+ID++ ++ D
Sbjct: 245 NIEIKKIARIAGFKTKVAVSTNLLNIEPVAVVVGNKGLTITSISKQLNNERIDVIRYADD 304

Query: 283 SATFVINALRPAIVTKVVLDEDV---GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
              F+ NA+    +  +++ E+         IV KE L   IGR G N+RL +++T W I
Sbjct: 305 KRIFIANAIGLDKLKGLLVQENESGQRSAIAIVSKEDLPSVIGRGGANIRLIAKITEWNI 364

Query: 340 DIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIE 399
           D+ T E+       + N   + F      DE I           + +        +A I+
Sbjct: 365 DVKTIEQAF-----EENVVYEKF------DEKIYRSWN---IESINKKNVTNDEMLALID 410

Query: 400 GFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE--LCSIPGIDS 445
              +E   +   + ++ L+  +        +   +++  L  + G + 
Sbjct: 411 NMQDEKVEKT-EQVKDQLKQQEKQTIVSNNDDSENDDEQLEYLEGFED 457


>gi|171920965|ref|ZP_02696343.2| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 13 str. ATCC 33698]
 gi|185179145|ref|ZP_02964862.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 5 str. ATCC 27817]
 gi|188024249|ref|ZP_02996946.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 7 str. ATCC 27819]
 gi|188518622|ref|ZP_03004069.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 11 str. ATCC 33695]
 gi|188524495|ref|ZP_03004495.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 12 str. ATCC 33696]
 gi|198273614|ref|ZP_03206149.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 4 str. ATCC 27816]
 gi|225551589|ref|ZP_03772535.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 8 str. ATCC 27618]
 gi|171902989|gb|EDT49278.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 13 str. ATCC 33698]
 gi|184208924|gb|EDU05967.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 5 str. ATCC 27817]
 gi|188018911|gb|EDU56951.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 7 str. ATCC 27819]
 gi|188997862|gb|EDU66959.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 11 str. ATCC 33695]
 gi|195659708|gb|EDX53088.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 12 str. ATCC 33696]
 gi|198249642|gb|EDY74423.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 4 str. ATCC 27816]
 gi|225379404|gb|EEH01769.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 8 str. ATCC 27618]
          Length = 458

 Score =  253 bits (646), Expect = 7e-65,   Method: Composition-based stats.
 Identities = 109/468 (23%), Positives = 209/468 (44%), Gaps = 41/468 (8%)

Query: 3   SANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISL 62
           S    E ++     A +  I+ +V+ S++ ++ +K     +    +    IN + G I+ 
Sbjct: 4   SFKSKEFIEYFKDTAKQNEIELEVLSSIIKEAFEKTYLRTHPGE-NFETNINLKEGTINC 62

Query: 63  FRLLEVVE-------EVE---NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQ 112
           FR L VVE       ++E   +   +I L  AR  + +  IG  +   +   DF  + V 
Sbjct: 63  FRNLVVVENEKAHNEDLETCLDDAVEILLDDARKINANAQIGDTIKQYILIDDFKSIEVG 122

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV-------KRVEYGNVIVDLG---NSD 162
               ++ QK+ E    R    +K  + ++I   V       +R E   V V+L     + 
Sbjct: 123 QIGSLLRQKITEIHNKRVADFWKPSLMKMIRAKVAEINYNKQRNEITGVKVELDDQWKTL 182

Query: 163 GVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNG 222
           G + R + I  E  + G+     I +V+ + R   VLLSRT P+ + ++   EV +I NG
Sbjct: 183 GYLSRKDRIGDEKFKVGETYDFIIKEVKEQSRLWPVLLSRTEPELVEEILKREVVDIKNG 242

Query: 223 IVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPD 282
            +++K ++R  G + K+AV ++  +I+PV   VG +G  + ++  +L +E+ID++ ++ D
Sbjct: 243 NIEIKKIARIAGFKTKVAVSTNLLNIEPVAVVVGNKGLTITSISKQLNNERIDVIRYADD 302

Query: 283 SATFVINALRPAIVTKVVLDEDV---GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
              F+ NA+    +  +++ E+         IV KE L   IGR G N+RL +++T W I
Sbjct: 303 KRIFIANAIGLDKLKGLLVQENESGQRSAIAIVSKEDLPSVIGRGGANIRLIAKITEWNI 362

Query: 340 DIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIE 399
           D+ T E+       + N   + F      DE I           + +        +A I+
Sbjct: 363 DVKTIEQAF-----EENVVYEKF------DEKIYRSWN---IESINKKNVTNDEMLALID 408

Query: 400 GFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE--LCSIPGIDS 445
              +E   +   + ++ L+  +        +   +++  L  + G + 
Sbjct: 409 NMQDEKVEKT-EQVKDQLKQQEKQTIVSNNDDSENDDEQLEYLEGFED 455


>gi|256370754|ref|YP_003108579.1| transcription elongation factor NusA [Candidatus Sulcia muelleri
           SMDSEM]
 gi|256009546|gb|ACU52906.1| transcription elongation factor NusA [Candidatus Sulcia muelleri
           SMDSEM]
          Length = 342

 Score =  252 bits (645), Expect = 1e-64,   Method: Composition-based stats.
 Identities = 90/318 (28%), Positives = 174/318 (54%), Gaps = 3/318 (0%)

Query: 28  LSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEE--VENYTCQISLKVAR 85
           +S++  S     +  YG + + ++  N + G+I ++R L++V +  ++N+  QI +  A 
Sbjct: 19  MSIIKKSFIFFLKKKYGKLKNYKIFFNYKNGEIEIWRDLKIVSDEIIKNFNKQIEISKAI 78

Query: 86  DRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGT 145
               ++ IG  + + +     G+  + S K+ +  K ++ +R  Q    K K+GEII   
Sbjct: 79  KIKKNLKIGDSLKEKIEYQQLGKKFLFSLKKDLFYKFKKFDRKNQLQILKKKIGEIIYAK 138

Query: 146 VKRVEYGNVIV-DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTH 204
           V  +   N+   +  N+  ++ ++E I  E  + G+     I  V+  +    + LSR  
Sbjct: 139 VDYIINDNIFFKNNENNKMILLKEEQIPNEKFKKGNSFFLLIKKVKFIKNKIYLFLSRKD 198

Query: 205 PQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQA 264
             F+ KL  +E+PEI NG++ +K + R  G R+K+A+ S + +IDP+G CVG++GS+++ 
Sbjct: 199 KNFLKKLLELEIPEISNGLIIIKKIVRIAGERSKIAIKSKNKTIDPIGTCVGLKGSKLKN 258

Query: 265 VVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRR 324
           ++ E+ +E IDI+ +S +   ++  ++ PA V  + +D       + V  E++  AIG +
Sbjct: 259 IIKEINNEIIDIINYSSNIELYLTRSISPAKVAMIKIDRKKKLAFISVNSEEIKKAIGNK 318

Query: 325 GQNVRLASQLTGWTIDII 342
             N+RLAS+LTG+ I I+
Sbjct: 319 KTNLRLASKLTGYKIYIL 336


>gi|325973212|ref|YP_004250276.1| transcription termination factor NusA [Mycoplasma suis str.
           Illinois]
 gi|325989656|ref|YP_004249355.1| antitermination factor NusA [Mycoplasma suis KI3806]
 gi|323574741|emb|CBZ40397.1| antitermination factor NusA [Mycoplasma suis]
 gi|323651814|gb|ADX97896.1| transcription termination factor NusA [Mycoplasma suis str.
           Illinois]
          Length = 421

 Score =  251 bits (643), Expect = 2e-64,   Method: Composition-based stats.
 Identities = 98/383 (25%), Positives = 186/383 (48%), Gaps = 32/383 (8%)

Query: 2   VSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDIS 61
           +  N  + L+    ++ E S+++  +   + +S +      Y + S +++EI+ E   I 
Sbjct: 1   MHINHKQFLEAITKISKEYSLEKSTISDFLKESFKYVFEREY-SDSLVKLEIDLENCKIE 59

Query: 62  LFRLLEVVEE-------VENYTCQISLKV-ARDRDPSIDIGGVVSDPLPPMDFGRVAVQS 113
           L++ L+VV E       +E+  C I +    +     + +G   S+P+   D     V++
Sbjct: 60  LWKELKVVTEEYFYGEGMEDSECLIPVSKLPQRYQKKLKVGQYYSEPVNLEDLSTKIVKN 119

Query: 114 AKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV------EYGNVIVDL-------GN 160
                 +   E    + + ++  + GE+  G V+++          +IV L         
Sbjct: 120 ILFHFQKLTLETVNQKIHEKWISRKGEVFEGMVEKIFETKEKLPKEIIVSLIDPENEAHT 179

Query: 161 SDGVIRRDETISR---------ENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKL 211
           + G++ R + I           ENL PG      I +V     G  ++LSRT P  +  L
Sbjct: 180 TKGIVYRSDLIQALSNDGYRLYENLVPGKIYNFEIKEVLENSAGCPIILSRTSPAIVKYL 239

Query: 212 FHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRD 271
               + E+++G+V + A++R  G R+K+ V + +++IDPVG C+G +G+R++ + ++L +
Sbjct: 240 MKKHISEVHDGLVTINAIARISGMRSKVLVSTKNNNIDPVGCCIGPKGNRLKVISSQLLN 299

Query: 272 EKIDIVVWSPDSATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRL 330
           E+ID+++W+ D    +INA     +    + +E+   I +I   + L LAIG+RG NV+L
Sbjct: 300 ERIDVILWNSDPIKNIINAFSGTRILGYKISEEEENSITLITTIDNLLLAIGKRGTNVKL 359

Query: 331 ASQLTGWTIDIITEEEDSINRQK 353
            S LTGW I + T +E    R  
Sbjct: 360 VSLLTGWKIFLKTIQEAKAERIN 382


>gi|225550916|ref|ZP_03771865.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 2 str. ATCC 27814]
 gi|225380070|gb|EEH02432.1| transcription termination factor NusA [Ureaplasma urealyticum
           serovar 2 str. ATCC 27814]
          Length = 458

 Score =  251 bits (642), Expect = 2e-64,   Method: Composition-based stats.
 Identities = 109/468 (23%), Positives = 206/468 (44%), Gaps = 41/468 (8%)

Query: 3   SANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISL 62
           S    E ++     A +  I+ +V+ S++ ++ +K     +    +    IN + G I+ 
Sbjct: 4   SFKSKEFIEYFKDTAKQNEIELEVLSSIIKEAFEKTYLRTHPGE-NFETNINLKEGTINC 62

Query: 63  FRLLEVVE-------EVE---NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQ 112
           FR L VVE       ++E   +   +I L  AR  + +  IG  +   +   DF  + V 
Sbjct: 63  FRNLVVVENEKAHNEDLETCLDDAVEILLDDARKINANAQIGDTIKQRISIDDFKSIEVG 122

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV-------KRVEYGNVIVDLG---NSD 162
               ++ QK+ E    R    +K  + ++I   V       +R E   V V+L     + 
Sbjct: 123 QIGSLLRQKITEIHNKRVADFWKPSLMKMIRAKVAEINYNKQRNEITGVKVELDDQWKTL 182

Query: 163 GVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNG 222
           G +   + I  E  + G+     I +V+ + R   VLLSRT P+ + ++   EV +I NG
Sbjct: 183 GYLSCKDRIGDEKFKVGETYDFIIKEVKEQSRLWPVLLSRTEPELVEEILKREVVDIKNG 242

Query: 223 IVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPD 282
            +++K ++R  G + K+AV ++  +I+PV   VG +G  + ++  +L +E+ID++ ++ D
Sbjct: 243 NIEIKKIARIAGFKTKVAVSTNLLNIEPVAVVVGNKGLTITSISKQLNNERIDVIRYADD 302

Query: 283 SATFVINALRPAIVTKVVLDEDV---GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
              F+ NA+    +  +++ E+         IV KE L   IGR G N+RL +++T W I
Sbjct: 303 KRIFIANAIGLDKLKGLLVQENESGQRSAIAIVSKEDLPSVIGRGGANIRLIAKITEWNI 362

Query: 340 DIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIE 399
           D+ T E+       + N   + F      DE I           + +        +A I+
Sbjct: 363 DVKTIEQAF-----EENVVYEKF------DEKIYRSWN---IESINKKNVTNDEMLALID 408

Query: 400 GFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE--LCSIPGIDS 445
              +E   E   +    L+  +        +   +++  L  + G + 
Sbjct: 409 NMQDEKVDE-NEQVNHQLKQQEKQTIDSNNDDSENDDEQLEYLEGFED 455


>gi|269115299|ref|YP_003303062.1| transcription elongation protein NusA [Mycoplasma hominis]
 gi|268322924|emb|CAX37659.1| Transcription elongation protein NusA [Mycoplasma hominis ATCC
           23114]
          Length = 546

 Score =  251 bits (641), Expect = 2e-64,   Method: Composition-based stats.
 Identities = 113/516 (21%), Positives = 228/516 (44%), Gaps = 53/516 (10%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL 66
            E+ +    ++  K ID+  V+    +++ K     Y   +D+    + E  + ++    
Sbjct: 23  KEIYKQIYNLSQIKKIDQAEVVEAFKNTVTKLITETYDEEADLEFIFDQENDNFAIINHN 82

Query: 67  EVVEEVENYTC-----------QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAK 115
           +VV  V +              +I L  A+  DP+++IG  +S  +    F +       
Sbjct: 83  KVV--VGDPITSEEKDRLTRCIEIPLSDAKKIDPNVEIGDSLSQEINFEYFSKKDYNKIL 140

Query: 116 QVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISR- 173
               Q ++  ER     ++  +VG      +  V  G V ++L   +   +  +    R 
Sbjct: 141 ANFSQDIKNLERKMTCEKYASEVGNSTKAKIVSVNKGKVNLELRDGTLAFMPSNFVNQRI 200

Query: 174 -ENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRD 232
              L PGD +   I +V+ E    Q+++S    + + KLF +E+PEI  G++ +  ++R 
Sbjct: 201 ISKLNPGDWIDVVIEEVKEENSNAQIIVSSVESRLLQKLFEIEIPEISQGLISIVNIARI 260

Query: 233 PGSRAKLAVFSSD---SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVIN 289
           PG RAK+++  S+    +++ +GA +G    R+  +  +L  EKID+V++S D   ++ N
Sbjct: 261 PGERAKVSIKKSNDAPETMEEIGAIMGRDSERISTISRKLNGEKIDVVLYSDDIKEYIKN 320

Query: 290 ALRPAIVTKVVLDEDVGRI---EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
           AL PA V  ++            VIVP  Q +LAIG++GQNV LAS+L    +DI+++E+
Sbjct: 321 ALSPAKVIDLIEVPSKNSYPSFNVIVPTIQHTLAIGKKGQNVSLASELVKAKLDILSQEQ 380

Query: 347 DSINRQK---DFNERTQFFMQAINV----------DEIIAHLLVAEGFADVEELACVKIS 393
                 +   +    T+  ++ +             + I +      F   E        
Sbjct: 381 ADERGIEYNFENGNITKEEIELLESGKKLHHSFKHPKTIGNKNATNKFNTFE-------- 432

Query: 394 EIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEEL-CSIPGIDSKIKVALG 452
              +I+ FDE+ A E++ +A    +  D   ++++    + E+L  ++  ++   +  + 
Sbjct: 433 NSFNIDEFDEDLA-EMRRKA----QQNDNIFERQMFSNSLDEDLERTLSELNDDKENNVD 487

Query: 453 ENGI----KTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           EN +    K+ ++L     D+   + +     ++ F
Sbjct: 488 ENDLDPYSKSFDELNEQKNDEEEDYEKITATKMKDF 523


>gi|219558857|ref|ZP_03537933.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           T17]
          Length = 194

 Score =  246 bits (629), Expect = 7e-63,   Method: Composition-based stats.
 Identities = 84/174 (48%), Positives = 116/174 (66%), Gaps = 1/174 (0%)

Query: 173 RENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRD 232
            E+   G+R++ Y+  V R  R P + LSRTHP  + KLF +EVPEI +G V++ AV+R+
Sbjct: 1   GESYEHGNRLRCYVVGVTRGAREPLITLSRTHPNLVRKLFSLEVPEIADGSVEIVAVARE 60

Query: 233 PGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALR 292
            G R+K+AV S+ + ++  GAC+G  G RV+ V++EL  EKIDI+ +  D A FV NAL 
Sbjct: 61  AGHRSKIAVRSNVAGLNAKGACIGPMGQRVRNVMSELSGEKIDIIDYDDDPARFVANALS 120

Query: 293 PAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
           PA V  V V+D+      V+VP  QLSLAIG+ GQN RLA++LTGW IDI  + 
Sbjct: 121 PAKVVSVSVIDQTARAARVVVPDFQLSLAIGKEGQNARLAARLTGWRIDIRGDA 174


>gi|218513202|ref|ZP_03510042.1| transcription elongation factor NusA [Rhizobium etli 8C-3]
          Length = 213

 Score =  243 bits (621), Expect = 6e-62,   Method: Composition-based stats.
 Identities = 127/180 (70%), Positives = 158/180 (87%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQI 79
           K IDR++VL+ MAD+IQKAARS YGT S+IR +INP+TG+I L RLLEVV++ E+Y+ QI
Sbjct: 21  KVIDREIVLAAMADAIQKAARSRYGTESNIRADINPKTGEIRLQRLLEVVDKAEDYSTQI 80

Query: 80  SLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVG 139
            L++ARDR+P   +G  ++DPLPPMDFGR+A QSAKQVI+QKVREAERDRQ+ EFKD+VG
Sbjct: 81  PLELARDRNPDAALGDFIADPLPPMDFGRIAAQSAKQVIVQKVREAERDRQFDEFKDRVG 140

Query: 140 EIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVL 199
           EI++GTVKRVEYGNVIVDLG  +G+IRRDE I REN+R GDRV++Y+YDVRREQRGPQ+L
Sbjct: 141 EIVNGTVKRVEYGNVIVDLGRGEGIIRRDEMIPRENVRYGDRVRAYVYDVRREQRGPQIL 200


>gi|193216986|ref|YP_002000228.1| transcription elongation factor NusA [Mycoplasma arthritidis
           158L3-1]
 gi|193002309|gb|ACF07524.1| transcription elongation factor NusA [Mycoplasma arthritidis
           158L3-1]
          Length = 524

 Score =  239 bits (612), Expect = 6e-61,   Method: Composition-based stats.
 Identities = 109/464 (23%), Positives = 219/464 (47%), Gaps = 36/464 (7%)

Query: 7   LELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLF-RL 65
            E+ +  + ++  K+++ + V+ +  D+++K   S Y   +++    + E  +  +    
Sbjct: 13  KEIFKAINDLSKLKNLNTNEVIELFKDAVKKVIMS-YDEDAELEFVFDEENNEFIVINHT 71

Query: 66  LEVVEEV---ENYTC-----QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQV 117
             VV++    E+        ++ L +A++   +   G V+S+ +    F +       Q 
Sbjct: 72  KYVVQDPITAEDKDMLCRCIEVPLSIAKELKSTAKEGDVISETINFETFQKKDYIRILQS 131

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRE--- 174
             Q +RE E+      +  K+G+I+   V       +  +L +           +R+   
Sbjct: 132 FNQSIRELEKKVIVGVYSLKIGQIVRAKVATPTTRGIFFELEDGTPAYMPSNANNRKLTA 191

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
           NL+PGD +  YI +V    +  QVL+S    + + KL + EVPEI NG++ +  ++R PG
Sbjct: 192 NLQPGDSIDVYIDNVGDADKNVQVLVSTVESKLIDKLLYKEVPEIANGLIDIVKIARIPG 251

Query: 235 SRAKLAVFSSDS---SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINAL 291
            RAK+A+ +++     ++ VG+ +G  GSR+  V+ +L+ E++D++ +S D  TF+ NA+
Sbjct: 252 ERAKIAISANEKTPIGVEVVGSVLGENGSRINNVIQQLKGERLDVIEYSADIKTFIKNAI 311

Query: 292 RPAIVTKVVLDEDVGRI-----EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEE 346
            PA V  +V +++  +       V+VP +  +LAIG+RGQNV LAS L    +DI ++++
Sbjct: 312 SPAKVIDIVENKEKWQANYPAYIVVVPNQHNTLAIGKRGQNVVLASDLVRAKLDIFSQDQ 371

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGF--ADVEELACVKISEIASIEGFDEE 404
             + + +   +     +    +DE+     +   F     ++ A     ++A      E+
Sbjct: 372 ADLAKIE--YDINNGNITQAELDELAQGKRLQSQFRRRTRQDTASRDTIDMADF----EK 425

Query: 405 TAVEIQGRAREY------LEGIDITLQK-KIRELGVSEELCSIP 441
              EI+ R   Y      L   D++ +   +       EL S+ 
Sbjct: 426 EMEEIKARMTSYESFERQLFNQDVSNEDISLAFEKAQAELASLE 469


>gi|312601531|gb|ADQ90786.1| Transcription termination-antitermination factor nusA [Mycoplasma
           hyopneumoniae 168]
          Length = 614

 Score =  234 bits (597), Expect = 3e-59,   Method: Composition-based stats.
 Identities = 86/365 (23%), Positives = 167/365 (45%), Gaps = 22/365 (6%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           ++Q    VA    ++ + V+ +  ++I+          + I++E + E     +F    +
Sbjct: 20  IIQAIQDVAKNSELNLEAVIDIFQEAIEFVITKKIDPDAQIKIEADLEQLSFKVFNTNGI 79

Query: 69  V------------EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQ 116
           V            E+V +    I L  A++ DP I +  + S  +    F      +   
Sbjct: 80  VVEENYFDDLTDEEKVNDLVSFILLSKAKETDPEIQVDDIFSIEINLESFEHWLFMAIMH 139

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTV-KRVEYGNVI-VDLGNSDGVIRRDETISRE 174
              QK+ E  R+  Y ++      ++  TV  ++  G +  +D       +      S +
Sbjct: 140 AFKQKISEIVRNNVYNKYLSLKNNVVLATVTNKIAAGYIFEIDDDKVSAFMP-SHYASGQ 198

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
           NL+ G + +  I +V +  +  QV++S    Q + K     +PE+ +  +++ +++R PG
Sbjct: 199 NLKIGTKHEVVIENVSKNTKQSQVVISSKSVQLVKKKIIDAIPELQSKFLEITSIARIPG 258

Query: 235 SRAKLAVFSSD----SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA 290
            R K+A+  ++     +I  +G+ VG  GSRV A+  EL+ EKI+++ +  +   F++NA
Sbjct: 259 ERCKVAIRRTEGAEADNISEIGSIVGATGSRVLAISQELQGEKIEVIKYDDNIVKFIVNA 318

Query: 291 LRPAIVTKV---VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
           + P+ V  V    +   + R  V+VP  Q SLAIG+ G NV+L + LT   + II     
Sbjct: 319 MSPSKVICVKEFKIGHKLRRFIVVVPDFQHSLAIGKNGSNVKLVADLTRCQVQIIPYSSA 378

Query: 348 SINRQ 352
             ++ 
Sbjct: 379 LKDQN 383


>gi|71893935|ref|YP_279381.1| transcription elongation factor NusA [Mycoplasma hyopneumoniae J]
          Length = 617

 Score =  234 bits (597), Expect = 4e-59,   Method: Composition-based stats.
 Identities = 86/365 (23%), Positives = 167/365 (45%), Gaps = 22/365 (6%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           ++Q    VA    ++ + V+ +  ++I+          + I++E + E     +F    +
Sbjct: 23  IIQAIQDVAKNSELNLEAVIDIFQEAIEFVITKKIDPDAQIKIEADLEQLSFKVFNTNGI 82

Query: 69  V------------EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQ 116
           V            E+V +    I L  A++ DP I +  + S  +    F      +   
Sbjct: 83  VVEENYFDDLTDEEKVNDLVSFILLSKAKETDPEIQVDDIFSIEINLESFEHWLFMAIMH 142

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTV-KRVEYGNVI-VDLGNSDGVIRRDETISRE 174
              QK+ E  R+  Y ++      ++  TV  ++  G +  +D       +      S +
Sbjct: 143 AFKQKISEIVRNNVYNKYLSLKNNVVLATVTNKIAAGYIFEIDDDKVSAFMP-SHYASGQ 201

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
           NL+ G + +  I +V +  +  QV++S    Q + K     +PE+ +  +++ +++R PG
Sbjct: 202 NLKIGTKHEVVIENVSKNTKQSQVVISSKSVQLVKKKIIDAIPELQSKFLEITSIARIPG 261

Query: 235 SRAKLAVFSSDS----SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA 290
            R K+A+  ++     +I  +G+ VG  GSRV A+  EL+ EKI+++ +  +   F++NA
Sbjct: 262 ERCKVAIRRNEDAEADNISEIGSIVGATGSRVLAISQELQGEKIEVIKYDDNIVKFIVNA 321

Query: 291 LRPAIVTKV---VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
           + P+ V  V    +   + R  V+VP  Q SLAIG+ G NV+L + LT   + II     
Sbjct: 322 MSPSKVICVKEFKIGHKLRRFIVVVPDFQHSLAIGKNGSNVKLVADLTRCQVQIIPYSSA 381

Query: 348 SINRQ 352
             ++ 
Sbjct: 382 LKDQN 386


>gi|144227706|gb|AAZ44670.2| N-utilization substance protein A [Mycoplasma hyopneumoniae J]
          Length = 614

 Score =  233 bits (596), Expect = 5e-59,   Method: Composition-based stats.
 Identities = 86/365 (23%), Positives = 167/365 (45%), Gaps = 22/365 (6%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           ++Q    VA    ++ + V+ +  ++I+          + I++E + E     +F    +
Sbjct: 20  IIQAIQDVAKNSELNLEAVIDIFQEAIEFVITKKIDPDAQIKIEADLEQLSFKVFNTNGI 79

Query: 69  V------------EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQ 116
           V            E+V +    I L  A++ DP I +  + S  +    F      +   
Sbjct: 80  VVEENYFDDLTDEEKVNDLVSFILLSKAKETDPEIQVDDIFSIEINLESFEHWLFMAIMH 139

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTV-KRVEYGNVI-VDLGNSDGVIRRDETISRE 174
              QK+ E  R+  Y ++      ++  TV  ++  G +  +D       +      S +
Sbjct: 140 AFKQKISEIVRNNVYNKYLSLKNNVVLATVTNKIAAGYIFEIDDDKVSAFMP-SHYASGQ 198

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
           NL+ G + +  I +V +  +  QV++S    Q + K     +PE+ +  +++ +++R PG
Sbjct: 199 NLKIGTKHEVVIENVSKNTKQSQVVISSKSVQLVKKKIIDAIPELQSKFLEITSIARIPG 258

Query: 235 SRAKLAVFSSDS----SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA 290
            R K+A+  ++     +I  +G+ VG  GSRV A+  EL+ EKI+++ +  +   F++NA
Sbjct: 259 ERCKVAIRRNEDAEADNISEIGSIVGATGSRVLAISQELQGEKIEVIKYDDNIVKFIVNA 318

Query: 291 LRPAIVTKV---VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
           + P+ V  V    +   + R  V+VP  Q SLAIG+ G NV+L + LT   + II     
Sbjct: 319 MSPSKVICVKEFKIGHKLRRFIVVVPDFQHSLAIGKNGSNVKLVADLTRCQVQIIPYSSA 378

Query: 348 SINRQ 352
             ++ 
Sbjct: 379 LKDQN 383


>gi|72080914|ref|YP_287972.1| transcription elongation factor NusA [Mycoplasma hyopneumoniae
           7448]
          Length = 617

 Score =  233 bits (595), Expect = 6e-59,   Method: Composition-based stats.
 Identities = 85/365 (23%), Positives = 167/365 (45%), Gaps = 22/365 (6%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           ++Q    VA    ++ + V+ +  ++I+          + I++E + E     +F    +
Sbjct: 23  IIQAIQDVAKNSELNLEAVIDIFQEAIEFVITKKIDPDAQIKIEADLEQLSFKVFNTNGI 82

Query: 69  V------------EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQ 116
           V            E+V +    I L  A++ DP I +  + S  +    F      +   
Sbjct: 83  VVEENYFDDLTDEEKVNDLVSFILLSKAKETDPEIQVDDIFSIEINLESFEHWLFMAIMH 142

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTV-KRVEYGNVI-VDLGNSDGVIRRDETISRE 174
              QK+ E  R+  Y ++      ++  TV  ++  G +  +D       +      S +
Sbjct: 143 AFKQKISEIVRNNVYNKYLSLKNNVVLATVTNKIAAGYIFEIDDDKVSAFMP-SHYASGQ 201

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
           NL+ G + +  I +V +  +  QV++S    Q + K     +PE+ +  +++ +++R PG
Sbjct: 202 NLKIGTKHEVVIENVSKNTKQSQVVISSKSVQLVKKKIIDAIPELQSKFLEITSIARIPG 261

Query: 235 SRAKLAVFSSDS----SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA 290
            R K+A+  ++     +I  +G+ VG  GSRV A+  EL+ EKI+++ +  +   F++NA
Sbjct: 262 ERCKVAIRRTEDAEADNISEIGSIVGATGSRVLAISQELQGEKIEVIKYDDNIVKFIVNA 321

Query: 291 LRPAIVTKV---VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
           + P+ V  V    +   + R  ++VP  Q SLAIG+ G NV+L + LT   + II     
Sbjct: 322 MSPSKVICVKEFKIGHKLRRFIIVVPDFQHSLAIGKNGSNVKLVADLTRCQVQIIPYSSA 381

Query: 348 SINRQ 352
             ++ 
Sbjct: 382 LKDQN 386


>gi|144575534|gb|AAZ53949.2| N-utilization substance protein A [Mycoplasma hyopneumoniae 7448]
          Length = 614

 Score =  233 bits (594), Expect = 7e-59,   Method: Composition-based stats.
 Identities = 85/365 (23%), Positives = 167/365 (45%), Gaps = 22/365 (6%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           ++Q    VA    ++ + V+ +  ++I+          + I++E + E     +F    +
Sbjct: 20  IIQAIQDVAKNSELNLEAVIDIFQEAIEFVITKKIDPDAQIKIEADLEQLSFKVFNTNGI 79

Query: 69  V------------EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQ 116
           V            E+V +    I L  A++ DP I +  + S  +    F      +   
Sbjct: 80  VVEENYFDDLTDEEKVNDLVSFILLSKAKETDPEIQVDDIFSIEINLESFEHWLFMAIMH 139

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTV-KRVEYGNVI-VDLGNSDGVIRRDETISRE 174
              QK+ E  R+  Y ++      ++  TV  ++  G +  +D       +      S +
Sbjct: 140 AFKQKISEIVRNNVYNKYLSLKNNVVLATVTNKIAAGYIFEIDDDKVSAFMP-SHYASGQ 198

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
           NL+ G + +  I +V +  +  QV++S    Q + K     +PE+ +  +++ +++R PG
Sbjct: 199 NLKIGTKHEVVIENVSKNTKQSQVVISSKSVQLVKKKIIDAIPELQSKFLEITSIARIPG 258

Query: 235 SRAKLAVFSSDS----SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA 290
            R K+A+  ++     +I  +G+ VG  GSRV A+  EL+ EKI+++ +  +   F++NA
Sbjct: 259 ERCKVAIRRTEDAEADNISEIGSIVGATGSRVLAISQELQGEKIEVIKYDDNIVKFIVNA 318

Query: 291 LRPAIVTKV---VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
           + P+ V  V    +   + R  ++VP  Q SLAIG+ G NV+L + LT   + II     
Sbjct: 319 MSPSKVICVKEFKIGHKLRRFIIVVPDFQHSLAIGKNGSNVKLVADLTRCQVQIIPYSSA 378

Query: 348 SINRQ 352
             ++ 
Sbjct: 379 LKDQN 383


>gi|54020616|ref|YP_116111.1| transcription elongation factor NusA [Mycoplasma hyopneumoniae 232]
 gi|53987789|gb|AAV27990.1| transcription termination-antitermination factor nusA [Mycoplasma
           hyopneumoniae 232]
          Length = 614

 Score =  232 bits (593), Expect = 9e-59,   Method: Composition-based stats.
 Identities = 85/365 (23%), Positives = 166/365 (45%), Gaps = 22/365 (6%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           ++Q    VA    ++ + V+ +  ++I+          + I++E + E     +F    +
Sbjct: 20  IIQAIQDVAKNSELNLEAVIDIFQEAIEFVITKKIDPDAQIKIEADLEQLSFKVFNTNGI 79

Query: 69  V------------EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQ 116
           V            E+V +    I L  A++ DP I +  + S  +    F      +   
Sbjct: 80  VVEENYFDDLTDEEKVNDLVSFILLSKAKETDPEIQVDDIFSIEINLESFEHWLFMAIMH 139

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTV-KRVEYGNVI-VDLGNSDGVIRRDETISRE 174
              QK+ E  R+  Y ++      ++  TV  ++  G +  +D       +      S +
Sbjct: 140 AFKQKISEIVRNNVYNKYLSLKNNVVLATVTNKIAAGYIFEIDDDKVSAFMP-SHYASGQ 198

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
           NL+ G + +  I +V +  +  QV++S    Q + K     +PE+ +  +++ +++R PG
Sbjct: 199 NLKIGTKHEVVIENVSKNTKQSQVVISSKSVQLVKKKIIDAIPELQSKFLEITSIARIPG 258

Query: 235 SRAKLAVFSSD----SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA 290
            R K+A+  ++     +I  +G+ VG  GSRV A+  EL+ EKI+++ +  +   F++NA
Sbjct: 259 ERCKVAIRRTEGAEADNISEIGSIVGATGSRVLAISQELQGEKIEVIKYDDNIVKFIVNA 318

Query: 291 LRPAIVTKV---VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
           + P+ V  V    +   + R  V+V   Q SLAIG+ G NV+L + LT   + II     
Sbjct: 319 MSPSKVICVKEFKIGHKLRRFIVVVTDFQHSLAIGKNGSNVKLVADLTRCQVQIIPYSSA 378

Query: 348 SINRQ 352
             ++ 
Sbjct: 379 LKDQN 383


>gi|297250843|ref|ZP_06865170.2| transcription termination/antitermination protein NusA [Neisseria
           polysaccharea ATCC 43768]
 gi|296837867|gb|EFH21805.1| transcription termination/antitermination protein NusA [Neisseria
           polysaccharea ATCC 43768]
          Length = 208

 Score =  230 bits (587), Expect = 6e-58,   Method: Composition-based stats.
 Identities = 86/227 (37%), Positives = 138/227 (60%), Gaps = 21/227 (9%)

Query: 290 ALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           AL PA V+++V+DED   ++VIV ++QL+LAIGR GQNVRLAS+LTGW ++I+T  E   
Sbjct: 3   ALSPAEVSRIVIDEDKHAVDVIVAEDQLALAIGRGGQNVRLASELTGWQLNIMTSAEADE 62

Query: 350 NRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEI 409
               +     + FM  +NVDE  A +LV EGFA +EE+A V  +E+ +IEGFDEE    +
Sbjct: 63  RNAAEDAAIRRLFMDHLNVDEETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDML 122

Query: 410 QGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDD 469
           + RAR+ +  + I  ++K+ E  VS+++ ++ G+D+ +  +L E GI T +DLA  +VD+
Sbjct: 123 RNRARDAILTMAIAAEEKLGE--VSDDMRNLEGVDADMLRSLAEAGITTRDDLAELAVDE 180

Query: 470 LLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEK 516
           L+  +                 G  ++  +++I+ AR    W  ++K
Sbjct: 181 LIEIT-----------------GVNEETAKAVILTAREH--WFTEDK 208


>gi|71894695|ref|YP_278803.1| transcription elongation factor NusA [Mycoplasma synoviae 53]
          Length = 561

 Score =  229 bits (584), Expect = 1e-57,   Method: Composition-based stats.
 Identities = 85/371 (22%), Positives = 173/371 (46%), Gaps = 17/371 (4%)

Query: 3   SANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISL 62
           ++N  +   + ++ +  K I  D  +++  + I           +++   ++ E  +I L
Sbjct: 14  ASNSKKWFLLLNSFSKNKEISNDEFIAMSQEVINHIINRKLDPEAEVVFSVDNEKEEILL 73

Query: 63  F-RLLEVVEEVE----NYTCQIS---LKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSA 114
             +  EVVE+ E    +    IS   L  A++ + +  +G ++S P+    F +  + + 
Sbjct: 74  LNKNTEVVEDSEAAMYDELLGISYIGLSKAKEVNKNAKVGDLISYPIEFNSFDQKNLVAM 133

Query: 115 KQVIIQKVREAERDRQYLEFKDKVG-EIISGTVKRVEYGNVIVDL-GNSDGVIRRDETIS 172
           +      + E  ++R + ++   +G +++     + E G   + L   +   + ++  I 
Sbjct: 134 RNGFSAAIAEKAKNRLFAKYHPLIGSKLMVQIASKHENGGFFLKLEDGTSAYLPKNSIIK 193

Query: 173 RENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRD 232
              L PG +   ++  V  + +G  + ++ T P+ +  +   E+PEI NG + ++ + R 
Sbjct: 194 SVELNPGQKFDVFLNSVNIDAKGLYLEVTMTSPEQVRDVLFREIPEIANGDLIIRNIQRI 253

Query: 233 PGSRAKLAVF-----SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFV 287
           PG R+K+ V       S  + D +GA  G +  R+  V   L +EKID++ ++ +   F+
Sbjct: 254 PGERSKVVVSLNPEKQSAHTHDLLGAMFGNKAQRINDVSKSLNNEKIDVIRFAENPKDFI 313

Query: 288 INALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
            NA+ P  V  VV  +      VIV  E +SLAIG  G NV LAS++T   ID+++ E+ 
Sbjct: 314 RNAMSPCPVVDVV--KSKKGFYVIVRPEDVSLAIGSNGVNVSLASKVTNNKIDVLSTEQA 371

Query: 348 SINRQKDFNER 358
              +    +  
Sbjct: 372 FQEKIYFQDNY 382


>gi|144575229|gb|AAZ44092.2| N-utilization substance protein A [Mycoplasma synoviae 53]
          Length = 560

 Score =  228 bits (583), Expect = 1e-57,   Method: Composition-based stats.
 Identities = 85/371 (22%), Positives = 173/371 (46%), Gaps = 17/371 (4%)

Query: 3   SANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISL 62
           ++N  +   + ++ +  K I  D  +++  + I           +++   ++ E  +I L
Sbjct: 13  ASNSKKWFLLLNSFSKNKEISNDEFIAMSQEVINHIINRKLDPEAEVVFSVDNEKEEILL 72

Query: 63  F-RLLEVVEEVE----NYTCQIS---LKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSA 114
             +  EVVE+ E    +    IS   L  A++ + +  +G ++S P+    F +  + + 
Sbjct: 73  LNKNTEVVEDSEAAMYDELLGISYIGLSKAKEVNKNAKVGDLISYPIEFNSFDQKNLVAM 132

Query: 115 KQVIIQKVREAERDRQYLEFKDKVG-EIISGTVKRVEYGNVIVDL-GNSDGVIRRDETIS 172
           +      + E  ++R + ++   +G +++     + E G   + L   +   + ++  I 
Sbjct: 133 RNGFSAAIAEKAKNRLFAKYHPLIGSKLMVQIASKHENGGFFLKLEDGTSAYLPKNSIIK 192

Query: 173 RENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRD 232
              L PG +   ++  V  + +G  + ++ T P+ +  +   E+PEI NG + ++ + R 
Sbjct: 193 SVELNPGQKFDVFLNSVNIDAKGLYLEVTMTSPEQVRDVLFREIPEIANGDLIIRNIQRI 252

Query: 233 PGSRAKLAVF-----SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFV 287
           PG R+K+ V       S  + D +GA  G +  R+  V   L +EKID++ ++ +   F+
Sbjct: 253 PGERSKVVVSLNPEKQSAHTHDLLGAMFGNKAQRINDVSKSLNNEKIDVIRFAENPKDFI 312

Query: 288 INALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
            NA+ P  V  VV  +      VIV  E +SLAIG  G NV LAS++T   ID+++ E+ 
Sbjct: 313 RNAMSPCPVVDVV--KSKKGFYVIVRPEDVSLAIGSNGVNVSLASKVTNNKIDVLSTEQA 370

Query: 348 SINRQKDFNER 358
              +    +  
Sbjct: 371 FQEKIYFQDNY 381


>gi|255030994|ref|ZP_05302945.1| transcription elongation factor NusA [Listeria monocytogenes LO28]
          Length = 179

 Score =  226 bits (578), Expect = 6e-57,   Method: Composition-based stats.
 Identities = 62/179 (34%), Positives = 104/179 (58%)

Query: 32  ADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSI 91
             ++  A +  +    ++RV++N E G I +    E VE+V +   +IS++ A   +P  
Sbjct: 1   EAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKEAVEQVFDSRLEISMEEAHKLNPVY 60

Query: 92  DIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEY 151
             G VV   + P DFGR+A Q+AKQV+ Q+VREAER   Y EF D+  +I++G V+R + 
Sbjct: 61  QPGDVVELEVTPKDFGRIAAQTAKQVVTQRVREAERGIIYDEFIDREDDIMTGIVERQDS 120

Query: 152 GNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVK 210
             + V+LG  + ++ ++E +  E     DR+K Y+  V +  +GPQ+ +SRTHP  + +
Sbjct: 121 RFIYVNLGKIEAILSQNEQMPNETYHAHDRIKVYLTKVEKTTKGPQIFVSRTHPGLLKR 179


>gi|304373277|ref|YP_003856486.1| Transcription termination-antitermination factor nusA [Mycoplasma
           hyorhinis HUB-1]
 gi|304309468|gb|ADM21948.1| Transcription termination-antitermination factor nusA [Mycoplasma
           hyorhinis HUB-1]
          Length = 557

 Score =  226 bits (576), Expect = 9e-57,   Method: Composition-based stats.
 Identities = 95/384 (24%), Positives = 172/384 (44%), Gaps = 43/384 (11%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINP----- 55
           +   N  E+LQ    ++  + ID + +  ++ DSI +   S   + ++I + I+      
Sbjct: 14  IKKFNFQEILQ---DISEFRKIDLNNIKDILQDSISRQIVSKLDSEAEIELVIDEQNPQE 70

Query: 56  -----ETGDISLFRL----LEVVEEVENYT-------------CQISLKVARDRDPSIDI 93
                + G +   +     L V  E  +                 I L  A++ +P+  +
Sbjct: 71  FIVINKNGTVVTDQEFSDMLTVAPEFTHTDMSDKQTSFQSEKITFIPLSTAKEINPNAKV 130

Query: 94  GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGT-VKRVEYG 152
                 P+   +F +       Q   QK+ E  R   Y ++      II  T +K+ + G
Sbjct: 131 DDTFDIPIDISEFDKHIFVPIIQTFKQKIHEFTRKLIYQKYFPLKNSIIKATLIKKSQNG 190

Query: 153 NVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLF 212
              +  G     + +   IS  N+    + + +I DV   Q+  Q++LS      + +  
Sbjct: 191 FNYLLEGEIPAYMPKPN-ISNFNIALNTKEEVFIEDVLDNQKDSQIILSSKEGMILKEKL 249

Query: 213 HMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS-----SDSSIDPVGACVGMRGSRVQAVVT 267
             E+PE+  GI+++  V+R+ G R+K++V       +   +D VG+ +G  GSR+  +  
Sbjct: 250 KREIPEVEAGILEIVNVAREAGLRSKVSVKKVHEDENSQGVDEVGSLIGKNGSRIATINK 309

Query: 268 ELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG----RIEVIVPKEQLSLAIGR 323
           E+  EKIDIV + P+   ++INAL PA V  V ++E       +  V+VP    + AIG+
Sbjct: 310 EILGEKIDIVRYDPNITKYIINALSPARV--VYIEEVKKSKGQKFLVVVPTSHQAKAIGK 367

Query: 324 RGQNVRLASQLTGWTIDIITEEED 347
              NVRLA++LT   IDI + ++ 
Sbjct: 368 NAINVRLANELTRTKIDIKSYKDY 391


>gi|330723850|gb|AEC46220.1| transcription elongation factor NusA [Mycoplasma hyorhinis MCLD]
          Length = 538

 Score =  224 bits (571), Expect = 4e-56,   Method: Composition-based stats.
 Identities = 95/384 (24%), Positives = 170/384 (44%), Gaps = 43/384 (11%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINP----- 55
           +   N  E+LQ    ++  + ID + +  ++ DSI +   S   + ++I + I+      
Sbjct: 14  IKKFNFQEILQ---DISEFRKIDLNNIKDILQDSISRQIVSKLDSEAEIELVIDEQNPQE 70

Query: 56  -----ETGDISLFRL----LEVVEEVE-------------NYTCQISLKVARDRDPSIDI 93
                + G +   +     L V  E                    I L  A++ +P+  +
Sbjct: 71  FIVINKNGTVVTDQEFSDMLTVAPEFTHTDMSDKQTSFQSEKITFIPLSTAKEINPNAKV 130

Query: 94  GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGT-VKRVEYG 152
                 P+   +F +       Q   QK+ E  R   Y ++      II  T +K+ + G
Sbjct: 131 DDTFDIPIDISEFDKHIFVPIIQTFKQKIHEFTRKLIYQKYFPLKNSIIKATLIKKSQNG 190

Query: 153 NVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLF 212
              +  G     + +   IS  N+      + +I DV   Q+  Q++LS      + +  
Sbjct: 191 FNYLLEGEIPAYMPKPN-ISNFNIALNTEEEVFIEDVLDNQKDSQIILSSKEGMILKEKL 249

Query: 213 HMEVPEIYNGIVQVKAVSRDPGSRAKLAVFS-----SDSSIDPVGACVGMRGSRVQAVVT 267
             E+PE+  GI+++  V+R+ G R+K++V       +   +D VG+ +G  GSR+  +  
Sbjct: 250 KREIPEVEAGILEIVNVAREAGLRSKVSVKKVHEDENSQGVDEVGSLIGKNGSRIATINK 309

Query: 268 ELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG----RIEVIVPKEQLSLAIGR 323
           E+  EKIDIV + P+   ++INAL PA V  V ++E       +  V+VP    + AIG+
Sbjct: 310 EILGEKIDIVRYDPNITKYIINALSPARV--VYIEEVKKSKGQKFLVVVPTSHQAKAIGK 367

Query: 324 RGQNVRLASQLTGWTIDIITEEED 347
              NVRLA++LT   IDI + ++ 
Sbjct: 368 NAINVRLANELTRTKIDIKSYKDY 391


>gi|321310946|ref|YP_004193275.1| transcription termination factor N-utilization substance protein A
           [Mycoplasma haemofelis str. Langford 1]
 gi|319802790|emb|CBY93436.1| transcription termination factor N-utilization substance protein A
           [Mycoplasma haemofelis str. Langford 1]
          Length = 432

 Score =  220 bits (562), Expect = 4e-55,   Method: Composition-based stats.
 Identities = 97/399 (24%), Positives = 171/399 (42%), Gaps = 38/399 (9%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEV 68
           LL +  AV  +  +  + V  ++ D+ +      Y     I V+++ +   I ++R L V
Sbjct: 11  LLSLVSAVGEKYDLSPETVARLLEDTFRSVFLKEYPDNI-IDVDVDLKKAKIEIWRHLRV 69

Query: 69  VEEV-------ENYTCQI------SLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAK 115
           V +        E+    I      SL        S  +G  V   +    F      +  
Sbjct: 70  VTDDYYNGEGNEDDETLIPVSKLASLPNTSKNPSSPKVGDTVFQEVDIESFDDKIANNI- 128

Query: 116 QVIIQKVREAERDR-QYLEFKDKVGEIISGTVK-----RVEY--GNVIVDLGN-----SD 162
           Q   +K+ E+E  R    ++    G+++ G ++     R +     +IV L       + 
Sbjct: 129 QFYFKKLTESEVSRSICQKWTPFHGKVVEGVIEEIIENRDDRTIKKIIVSLEAPDKTIAK 188

Query: 163 GVIRRDETI----SR-----ENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFH 213
           GVI R + +           ENL  G+    Y+ ++        + LSRT  +    +  
Sbjct: 189 GVIFRSDLVWIDGPNGTRIYENLVLGNTYLFYVKEISEVNVHLPIFLSRTDSEITKHVMA 248

Query: 214 MEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEK 273
             + EI  G V++KA++R  G ++K+ V S+D +ID VG C+G +G R++ +  EL +EK
Sbjct: 249 KHISEISEGKVEIKAIARIAGFKSKVLVHSNDPNIDAVGCCIGPKGERLKVISRELLNEK 308

Query: 274 IDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQ 333
           ID+++W+ D    VIN+     +    L ED   I ++   + L   IG+RG N +L   
Sbjct: 309 IDVILWNEDPVQNVINSFVTGKILGYRL-EDENEITLVATLDNLLSCIGKRGSNTKLVYM 367

Query: 334 LTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEII 372
           LTGW I++ T +E               F  +  + + I
Sbjct: 368 LTGWKINLKTIQEAKDEGIDYVAIDDDKFTNSNKISDRI 406


>gi|319776808|ref|YP_004136459.1| n-utilization substance protein a [Mycoplasma fermentans M64]
 gi|318037883|gb|ADV34082.1| N-utilization substance protein A [Mycoplasma fermentans M64]
          Length = 538

 Score =  220 bits (562), Expect = 4e-55,   Method: Composition-based stats.
 Identities = 81/360 (22%), Positives = 156/360 (43%), Gaps = 22/360 (6%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE- 70
           +      EK +  + V+ + ++   +    +    ++I  E++ E  ++ +F     V  
Sbjct: 23  LIGYFEKEK-LPIEEVIKIFSEETTRIINKILDPNAEIVFELDKEKQEVHIFNNKTCVTK 81

Query: 71  ------EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGR-------VAVQSAKQV 117
                 ++EN    +  K A+ R P +     +   +      +        +++     
Sbjct: 82  DEELLLDLENQISFVGYKEAKVRMPKVKEDDEIKWEIDLGVLDKSKNPEAKKSLKIINSS 141

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG---NVIVDLGNSDGVIRRDETISRE 174
           I Q ++  ++   + ++  K+G+ +   +         NV +   N +  +      ++ 
Sbjct: 142 IAQAIKTLQKKMVFEQYSSKIGQTVKVVLNSKNSNGSWNVQIVNSNVNAYLPAGLISTKR 201

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
              PG      I  V  E +  Q+ +S   P+ +  +    +PEI  G+++V  V R PG
Sbjct: 202 KANPGQYFDVVIEKVSEETKLSQIEVSLDSPKIVWNILQNNIPEIAEGLIEVVDVVRQPG 261

Query: 235 SRAKLAVF---SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINAL 291
            R K+AV     ++  ID  G+ +G  GSR+  +  +L  EKID++++  D   +V N++
Sbjct: 262 ERVKVAVKLAEGANPDIDVRGSIIGENGSRIDLLSQKLDGEKIDVILYDEDIKKYVANSI 321

Query: 292 RPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            P     V+L DE   +  VIV  E L+ AIG+RG N  LAS LT   +DII+  +    
Sbjct: 322 SPIPAVDVILKDERENKYLVIVVPEHLTPAIGKRGVNAYLASSLTKVKLDIISITDAKAQ 381


>gi|293363915|ref|ZP_06610651.1| putative transcription termination factor NusA [Mycoplasma
           alligatoris A21JP2]
 gi|292552405|gb|EFF41179.1| putative transcription termination factor NusA [Mycoplasma
           alligatoris A21JP2]
          Length = 564

 Score =  218 bits (556), Expect = 2e-54,   Method: Composition-based stats.
 Identities = 81/365 (22%), Positives = 164/365 (44%), Gaps = 30/365 (8%)

Query: 4   ANRLELLQIADAVAYE------KSIDRDVVLS-VMADSIQKAARSLYGTMSDIRVEINPE 56
            N L   Q+AD +A E      + ID + +++  + +S +            + VE + E
Sbjct: 28  KNNLTAQQVADMIADETTKAINRDIDPEAIITFTVDESSESVFIKNTNA---VVVEDDFE 84

Query: 57  -TGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAK 115
            +G+  +            +   +    A+  +  + +  ++   +           + +
Sbjct: 85  FSGETDV-----------QHISFVPYSKAKKVNKEVHVDDIIEWEIDFEIVTEKCKTAIR 133

Query: 116 QVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG---NVIVDLGNSDGVIRRDETIS 172
              IQ+++  E+   + ++   +G  I   +         N+  + G +   +      +
Sbjct: 134 NGFIQQLKANEKAEIFKKYHQLIGTKIKAKILSRNKDGSYNLAFEDGVT-AFLPFSNINT 192

Query: 173 RENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRD 232
           R  L+ G  +  YI  V  E +  QV +S   PQ +  L   EVPEI  G+V++  + R 
Sbjct: 193 RIELKHGVLIDVYIETVSEENKLSQVQVSTDSPQMVYDLLKNEVPEIAQGLVEIMNIQRA 252

Query: 233 PGSRAKLAVF--SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINA 290
           PG R+K+AV   S +S +DP+ + +G+ GSR+  +  +L  EKID++++S +   ++ NA
Sbjct: 253 PGIRSKIAVRKTSVESEVDPISSVIGVNGSRINEISRKLGGEKIDVILYSEEITEYIKNA 312

Query: 291 LRPAIVTKVVLDE--DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           L PA +  VV ++  D     ++  +  + +A+G+   NV LA +++G  I++I   E  
Sbjct: 313 LSPARIVDVVKNKAMDNYYYAIVNSETDMYVAMGKGVVNVNLAKKISGCRIELIKAAEAV 372

Query: 349 INRQK 353
               +
Sbjct: 373 EKGLE 377


>gi|308189651|ref|YP_003922582.1| N utilization substance protein A [Mycoplasma fermentans JER]
 gi|307624393|gb|ADN68698.1| N utilization substance protein A [Mycoplasma fermentans JER]
          Length = 538

 Score =  218 bits (555), Expect = 2e-54,   Method: Composition-based stats.
 Identities = 80/360 (22%), Positives = 155/360 (43%), Gaps = 22/360 (6%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE- 70
           +      EK +  + V+ + ++   +    +    ++I  E++ E  ++ +F     V  
Sbjct: 23  LIGYFEKEK-LPIEEVIKIFSEETTRIINKILDPNAEIVFELDKEKQEVHIFNNKTCVTK 81

Query: 71  ------EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGR-------VAVQSAKQV 117
                 ++EN    +  K A+ R   +     +   +      +        +++     
Sbjct: 82  DEELLLDLENQISFVGYKEAKVRMSKVKEDDEIKWEIDLGVLDKSKNPEAKKSLKIINSS 141

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG---NVIVDLGNSDGVIRRDETISRE 174
           I Q ++  ++   + ++  K+G+ +   +         NV +   N +  +      ++ 
Sbjct: 142 IAQAIKTLQKKMVFEQYSSKIGQTVKVVLNSKNSNGSWNVQIVNSNVNAYLPAGLISTKR 201

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
              PG      I  V  E +  Q+ +S   P+ +  +    +PEI  G+++V  V R PG
Sbjct: 202 KANPGQYFDVVIEKVSEETKLSQIEVSLDSPKIVWNILQNNIPEIAEGLIEVVDVVRQPG 261

Query: 235 SRAKLAVF---SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINAL 291
            R K+AV     ++  ID  G+ +G  GSR+  +  +L  EKID++++  D   +V N++
Sbjct: 262 ERVKVAVKLAEGANPDIDVRGSIIGENGSRIDLLSQKLDGEKIDVILYDEDIKKYVANSI 321

Query: 292 RPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            P     V+L DE   +  VIV  E L+ AIG+RG N  LAS LT   +DII+  +    
Sbjct: 322 SPIPAVDVILKDERENKYLVIVVPEHLTPAIGKRGVNAYLASSLTKVKLDIISITDAKAQ 381


>gi|238809615|dbj|BAH69405.1| hypothetical protein [Mycoplasma fermentans PG18]
          Length = 538

 Score =  217 bits (554), Expect = 3e-54,   Method: Composition-based stats.
 Identities = 81/360 (22%), Positives = 156/360 (43%), Gaps = 22/360 (6%)

Query: 12  IADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVE- 70
           +      EK +  + V+ + ++   +    +    ++I  E++ E  ++ +F     V  
Sbjct: 23  LIGYFEKEK-LHIEEVIKIFSEETTRIINKILDPNAEIVFELDKEKQEVHIFNNKTCVTK 81

Query: 71  ------EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGR-------VAVQSAKQV 117
                 ++EN    +  K A+ R P +     +   +      +        +++     
Sbjct: 82  DEELLLDLENQISFVGYKEAKVRMPKVKEDDEIKWEIDLGVLDKSKNPEAKKSLKIINSS 141

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG---NVIVDLGNSDGVIRRDETISRE 174
           I Q ++  ++   + ++  K+G+ +   +         NV +   N +  +      ++ 
Sbjct: 142 IAQAIKTLQKKMVFEQYSSKIGQTVKVVLNSKNSNGSWNVQIVNSNVNAYLPAGLISTKR 201

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
              PG      I  V  E +  Q+ +S   P+ +  +    +PEI  G+++V  V R PG
Sbjct: 202 KANPGQYFDVVIEKVSEETKLSQIEVSLDSPKIVWNILQNNIPEIAEGLIEVVDVVRQPG 261

Query: 235 SRAKLAVF---SSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINAL 291
            R K+AV     ++  ID  G+ +G  GSR+  +  +L  EKID++++  D   +V N++
Sbjct: 262 ERVKVAVKLAEGANPDIDVRGSIIGENGSRIDLLSQKLDGEKIDVILYDEDIKKYVANSI 321

Query: 292 RPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
            P     V+L DE   +  VIV  E L+ AIG+RG N  LAS LT   +DII+  +    
Sbjct: 322 SPIQAVDVILKDERENKYLVIVVPEHLTPAIGKRGVNAYLASSLTKVKLDIISITDAKAQ 381


>gi|240047659|ref|YP_002961047.1| transcription elongation factor NusA [Mycoplasma conjunctivae
           HRC/581]
 gi|239985231|emb|CAT05244.1| N-utilization substance protein A [Mycoplasma conjunctivae]
          Length = 623

 Score =  216 bits (550), Expect = 9e-54,   Method: Composition-based stats.
 Identities = 84/373 (22%), Positives = 164/373 (43%), Gaps = 25/373 (6%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLF-RLLE 67
           +L+    +A +     D+VL   + SI+K         +++ +E + +     ++    E
Sbjct: 20  ILESLKEIAQQNQTTIDIVLETFSKSIEKVINKKIDPEAELELETDFDKFIFKVYNINGE 79

Query: 68  VVEE-----------VENYTCQISLKVARDRD----PSIDIGGVVSDPLPPMDFGRVAVQ 112
           +VE+            E     IS+  A  +       + +G  V   +    F +   Q
Sbjct: 80  IVEDTYFDNLDDLAKHEASFSFISISDAIAKKIAKPEDLQVGNRVKIEIDITTFDKSIFQ 139

Query: 113 SAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV-KRVEYGNVIVDLGNSDGVIRRDETI 171
           SA Q   Q   E  R R Y ++      +I   +  ++  G +   + +           
Sbjct: 140 SAIQNFKQTNSEINRQRIYDKYLPLKNTVILAKITNKIHSGYIFELVEDKVAAFMPSHYS 199

Query: 172 SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSR 231
             + L+ GD ++  I DV +  +  Q+++S    Q +       +PE+    +++ +++R
Sbjct: 200 IGQKLKVGDILEVVIEDVNKSSKQSQIIVSSKSIQLVKNKIINAIPELQTNNLEIVSIAR 259

Query: 232 DPGSRAKLAVFSSD----SSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFV 287
            PG + K+AV  ++      I  +GA +G +G R++++  +L  E+I+IV +  +  TFV
Sbjct: 260 IPGEKCKVAVKKTNLPGSDHISELGAIIGEKGVRIESISQDLDGEQIEIVKYDENILTFV 319

Query: 288 INALRPAIVTKV---VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW-TIDIIT 343
            NA+ PA V  V    ++       V+VP  Q +LAIG++G NV+LA+ LT    ++II 
Sbjct: 320 ANAIAPARVVCVKEFKINNKNKHYTVVVPDFQHTLAIGKKGSNVQLATDLTRIKKLEIIP 379

Query: 344 EEEDSINRQKDFN 356
                 + + +  
Sbjct: 380 YSRALKDDKFEIE 392


>gi|261886077|ref|ZP_06010116.1| transcription elongation factor NusA [Campylobacter fetus subsp.
           venerealis str. Azul-94]
          Length = 200

 Score =  215 bits (548), Expect = 2e-53,   Method: Composition-based stats.
 Identities = 76/173 (43%), Positives = 109/173 (63%), Gaps = 3/173 (1%)

Query: 168 DETISRENLRPGDRVKSYIYDVRREQR-GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
              I  E  + G+ VK+ I  VR +++ G +V LSRT P+F+  L   EVPEI +G V +
Sbjct: 2   KNRIKNEKFKVGNVVKAVIKSVRLDKKDGIKVELSRTSPKFLEALLKAEVPEIKDGGVII 61

Query: 227 KAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATF 286
           +  +R PG +AK+A+FS+  +ID VGA VG++G R+ AV +EL  E ID + +S + A F
Sbjct: 62  QNSARIPGKKAKIALFSTTPNIDAVGATVGIKGVRINAVSSELNGENIDAIEYSSEPAIF 121

Query: 287 VINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
           V  AL PAIV+ V +D+   +  V +  EQ S AIG  G N+RLAS L+G+ I
Sbjct: 122 VARALAPAIVSSVKIDD--KKAIVSLVPEQKSKAIGVSGINIRLASMLSGFEI 172


>gi|294155314|ref|YP_003559698.1| transcription termination factor NusA [Mycoplasma crocodyli MP145]
 gi|291600250|gb|ADE19746.1| transcription termination factor NusA [Mycoplasma crocodyli MP145]
          Length = 566

 Score =  212 bits (540), Expect = 1e-52,   Method: Composition-based stats.
 Identities = 95/372 (25%), Positives = 166/372 (44%), Gaps = 34/372 (9%)

Query: 5   NRLELLQIADAVAYE--KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISL 62
           N L   QIAD +A E  K+I+RD+    + + +            ++   IN        
Sbjct: 30  NNLSTQQIADIIADETTKAINRDIDPEAIINFVV-------DEEREVVSIINTNA----- 77

Query: 63  FRLLEVVEEVENYTCQ--------ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSA 114
                VVE+   +           + +  A+    S++I   +   +    F      + 
Sbjct: 78  ----TVVEDEFEFNGDQDVQKISFVPISKAKKVKKSVEIDDAIDWEIDFEIFNEKTKTAI 133

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV---IRRDETI 171
           K   IQ+++  E+   Y ++   +GE +   +          +LG  DGV   +      
Sbjct: 134 KNGFIQQLKANEKAAIYNKYSKLIGEKLKAKILSKNKDGSY-NLGLEDGVTAFLPYANIN 192

Query: 172 SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSR 231
            + NL PG  +  Y+ +V  E +  QV +S   PQ +  L + EVPEI  G++ V ++ R
Sbjct: 193 QKLNLNPGLFIDVYVDNVSEENKLSQVQVSTDSPQAIYDLLNKEVPEIAQGLIDVVSIQR 252

Query: 232 DPGSRAKLAVFSSDS--SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVIN 289
            PG R+K+AV  S+   S+DP+ + +G  GSR+  +   L  EK+D++++S     FV N
Sbjct: 253 VPGMRSKIAVKKSNPADSLDPISSIIGYNGSRINEISNALGGEKVDVILYSDVKEEFVKN 312

Query: 290 ALRPAIVTKVVLDE--DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED 347
           AL PA +  VV +   D     ++     + +A+GR   NV LA +LTG  I+++   E 
Sbjct: 313 ALLPAKIIDVVKNNGADNYYFAIVASDSDMYVAMGRGVVNVNLAKKLTGTRIELLKVSEA 372

Query: 348 SINRQKDFNERT 359
                +   +++
Sbjct: 373 IAKGIEFKKQQS 384


>gi|313678838|ref|YP_004056578.1| transcription termination factor nusA [Mycoplasma bovis PG45]
 gi|312950148|gb|ADR24743.1| putative transcription termination factor nusA [Mycoplasma bovis
           PG45]
          Length = 544

 Score =  210 bits (536), Expect = 4e-52,   Method: Composition-based stats.
 Identities = 84/386 (21%), Positives = 170/386 (44%), Gaps = 39/386 (10%)

Query: 17  AYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYT 76
             EK ID  ++ S+ ++ + +  +      ++I  EI+ +  ++ ++    +V  VE+  
Sbjct: 25  EKEK-IDLSILASIFSEEVTRIVQKNIDPEANIVFEIDEDNKEVHVYNTEAIV--VEDSE 81

Query: 77  CQ--------------ISLKVARDRDPSIDIGGVVSDPLPPMDFGR-------VAVQSAK 115
            +              + L  A+       I  ++   +  +   +          +  +
Sbjct: 82  FESVSDAEKVSLMLYNVPLSDAKKVKSDAQIDDLIKIEVDLLALSKSSNPVVQKTPKIIE 141

Query: 116 QVIIQKVREAERDRQYLEFKDKVGEIISGT-VKRVEYG--NVIVDLGNSDGVIRRDETIS 172
             I+Q +++ ++   Y ++ +K+GE +    + +   G  NV +        +  +   +
Sbjct: 142 SSILQAIKKLQKSIVYTKYLEKIGETVKVMFISKNTKGSWNVQIVDDGVMAHLPANYVSA 201

Query: 173 RENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRD 232
           +  + PG      I  V +E +  Q+ +S   P+ + K+ +  +PEI +G++++  V R 
Sbjct: 202 KRVINPGSYGDVVIERVEKETKLSQITVSLDSPKLIEKILYNNIPEINSGLIEIVNVQRI 261

Query: 233 PGSRAKLAVFSS---DSSIDPVGACVGMRGSRVQAVVTELRD-------EKIDIVVWSPD 282
           PG R K AVF +   +  +D  GA +G   SR+  +++EL         EK D++V + D
Sbjct: 262 PGERTK-AVFRATPGNEHLDVYGAIIGHDSSRINLIISELNFGVNQADMEKFDVIVHTND 320

Query: 283 SATFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
              F+   + P  V  +V  +E      VI  K  LS AIG++G N  LAS+++   +DI
Sbjct: 321 KKEFIRRCMLPGQVLDIVPKNESQNTFYVITIKAALSAAIGKKGANTMLASKVSHCNLDI 380

Query: 342 ITEEEDSINRQKDFNERTQFFMQAIN 367
           IT EE         + R     +++N
Sbjct: 381 ITVEEAMQKNISFDDSRIAEVEESLN 406


>gi|297519524|ref|ZP_06937910.1| transcription elongation factor NusA [Escherichia coli OP50]
          Length = 178

 Score =  207 bits (529), Expect = 3e-51,   Method: Composition-based stats.
 Identities = 72/177 (40%), Positives = 113/177 (63%), Gaps = 1/177 (0%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVDEVTQPTKEITLEAARYEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
           ER     +F++  GEII+G VK+V   N+ +DLG N++ VI R++ + REN RPGDR
Sbjct: 122 ERAMVVDQFREHEGEIITGVVKKVNRDNISLDLGNNAEAVILREDMLPRENFRPGDR 178


>gi|15828674|ref|NP_326034.1| transcription elongation factor NusA [Mycoplasma pulmonis UAB CTIP]
 gi|14089616|emb|CAC13376.1| N-UTILIZATION SUBSTANCE PROTEIN A [Mycoplasma pulmonis]
          Length = 550

 Score =  205 bits (522), Expect = 2e-50,   Method: Composition-based stats.
 Identities = 72/374 (19%), Positives = 162/374 (43%), Gaps = 24/374 (6%)

Query: 1   MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
           + S   ++     + ++ +K +    V  +  ++  +  ++ +   +D+ +  + E  ++
Sbjct: 22  LKSNKTIDFFLSLENLSRDKKLKISTVKQIFQEAFFQVIKNDFDPDADLEIVYDDEKKEV 81

Query: 61  SLFRLLEVV------EEVENYTCQ------ISLKVARDRDPSIDIGGVVSDPLPPMDFGR 108
           + +    +V      E  ++Y+ +      + L  AR     + IG +V   +   +   
Sbjct: 82  TFYNNNAIVIEDALEEADDDYSAEEMLVSFVRLSDARKEKSDVQIGDIVKKQIKHDELKL 141

Query: 109 VAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNV---IVDLGNSDGVI 165
             V+    +  Q + +  +      +  K+G+ I   ++  +       +V    +   +
Sbjct: 142 NEVKKIFSIFQQNLAKEAKQSVLDFYSSKIGQKIQVKIEEFKNRGFFGSVVGDMETKVFL 201

Query: 166 RRDETISRENLRPGDRVKSYIYDVRREQRGPQ---VLLSRTHPQFMVKLFHMEVPEIYNG 222
              E      +  G ++  Y  +  +E +      +++S   P  ++ +      EI NG
Sbjct: 202 PNKEINKNSKIALGKKIDVYFIEFAKEFQNKSETLLIVSLNSPLEVINVLKETFEEIANG 261

Query: 223 IVQVKAVSRDPGSRAKLAVFSS---DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVW 279
            + +K ++R  G R K+AV  S      ++ +G  +G  G R + +  +L +EKID V++
Sbjct: 262 SIIIKKIARKAGIRTKIAVEKSHLASEGLNIIGTLIGQSGDRNKIISEKLNNEKIDFVIY 321

Query: 280 SPDSATFVINALRPAIVTK---VVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTG 336
             D   F++ +L+PA V     VV +  +    V+VP  Q+S+AIG+ G N  L+S+L+ 
Sbjct: 322 KEDLQEFIVESLKPANVISIERVVPETHIPAFNVVVPNSQMSVAIGKAGMNTILSSELSQ 381

Query: 337 WTIDIITEEEDSIN 350
             I+I T ++    
Sbjct: 382 SRINIETLDKAKEK 395


>gi|254671946|emb|CBA04328.1| N utilization substance protein A [Neisseria meningitidis alpha275]
          Length = 186

 Score =  203 bits (518), Expect = 5e-50,   Method: Composition-based stats.
 Identities = 77/207 (37%), Positives = 121/207 (58%), Gaps = 21/207 (10%)

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVD 369
           +IV + QL+LAIGR GQNVRLAS LTGW ++I+T  E       +     + FM  +NVD
Sbjct: 1   MIVDENQLALAIGRGGQNVRLASDLTGWQLNIMTSAEADERNAAEDAAIRRLFMDHLNVD 60

Query: 370 EIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIR 429
           E  A +LV EGFA +EE+A V  +E+ +IEGFDEE    ++ RAR+ +  + I  ++K+ 
Sbjct: 61  EETADVLVQEGFATLEEVAYVPAAELLAIEGFDEEIVDMLRNRARDAILTMAIAAEEKLG 120

Query: 430 ELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLS 489
           E  VS+++ ++ GID+ +  +L E GI T +DLA  +VD+L+  +               
Sbjct: 121 E--VSDDMRNLEGIDADMLRSLAEAGITTRDDLAELAVDELIEIT--------------- 163

Query: 490 SLGTPKDQVESMIIHARYKMGWIEKEK 516
             G  ++  +++I+ AR    W  ++K
Sbjct: 164 --GVNEETAKAVILTAREH--WFTEDK 186


>gi|13937007|gb|AAK50007.1|AF363237_1 transcription termination-antitermination factor [Homo sapiens]
          Length = 172

 Score =  202 bits (515), Expect = 1e-49,   Method: Composition-based stats.
 Identities = 63/167 (37%), Positives = 103/167 (61%), Gaps = 1/167 (0%)

Query: 149 VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFM 208
            +   ++VD  N++ ++ + E I  +  R G+ +++ I  V  E   P+++LSRT P F+
Sbjct: 4   WKREVLLVDDDNNELILPKSEQIPADQYRKGETIRAVIERVDNENNNPKIILSRTSPTFL 63

Query: 209 VKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTE 268
            +L   EVPEI +G++ +K V+R PG RAK+AV S D  IDPVGACVG+RGSRV  +V E
Sbjct: 64  ERLLEQEVPEIADGLIAIKKVARMPGERAKIAVESFDERIDPVGACVGVRGSRVHGIVRE 123

Query: 269 LRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKE 315
           L +E ID+V W+ ++   + + L+   ++ +  DE+      ++PK 
Sbjct: 124 LCNENIDVVHWTANT-KLLSSVLKSCPISSIAPDEETECDVYMLPKS 169


>gi|148377961|ref|YP_001256837.1| transcription elongation factor NusA [Mycoplasma agalactiae PG2]
 gi|148292007|emb|CAL59399.1| Transcription elongation protein NusA [Mycoplasma agalactiae PG2]
          Length = 544

 Score =  201 bits (511), Expect = 3e-49,   Method: Composition-based stats.
 Identities = 80/384 (20%), Positives = 170/384 (44%), Gaps = 35/384 (9%)

Query: 17  AYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL-EVVEEVE-N 74
             EK ++  V+  + ++ + +  +      ++I  EI+ E  ++ ++     VV++ E +
Sbjct: 25  EKEK-LELSVLADIFSEEVTRIVQKNIDPEANIVFEIDEENKEVHVYNTEAIVVDDSEFD 83

Query: 75  YTCQ----------ISLKVARDRDPSIDIGGVVSDPLPPMDFGR-------VAVQSAKQV 117
              +          + L VA+      ++   +   +  +   +          +  +  
Sbjct: 84  DLSEADKVSLMLYNVPLSVAKKVKNDANVDDTIKIEIDLLALSKSTNPVVQKTPKIIESS 143

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG---NVIVDLGNSDGVIRRDETISRE 174
           I+Q +++ ++   Y ++ +K+GE +  T   +      NV +        +  +   ++ 
Sbjct: 144 ILQAIKKLQKSIVYTKYLEKIGETVKVTFISMNSKGSWNVQIVDDGVIAHLPANYVSAKR 203

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
            + PG      I  V ++ +  Q+ +S   P+ + K+ +  +PEI +G++++  V R PG
Sbjct: 204 VINPGSYGDVVIERVEKDTKLSQITVSLDSPKLIEKILYNNIPEISSGLIEIVNVQRIPG 263

Query: 235 SRAKLAVFSS---DSSIDPVGACVGMRGSRVQAVVTELRD-------EKIDIVVWSPDSA 284
            R K AVF +   +  +D  GA +G   SR+  +++E+         EK D++V++ D  
Sbjct: 264 ERTK-AVFKASAGNEHLDVYGAIIGQDSSRINLIISEMNQGVNQADKEKFDVIVYTSDKK 322

Query: 285 TFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
            F+   + P  V  +V  +E      VI  K  LS AIG++G N  LAS+++   +DIIT
Sbjct: 323 EFIRRCMLPGQVVDIVPKNESQNSFYVITIKAGLSAAIGKKGANTMLASKVSHSNLDIIT 382

Query: 344 EEEDSINRQKDFNERTQFFMQAIN 367
            EE           +     +++N
Sbjct: 383 VEEAKQKNIPFDESKIAEVEESLN 406


>gi|291320687|ref|YP_003515952.1| transcription elongation protein NusA [Mycoplasma agalactiae]
 gi|290753023|emb|CBH40999.1| Transcription elongation protein NusA [Mycoplasma agalactiae]
          Length = 544

 Score =  200 bits (509), Expect = 5e-49,   Method: Composition-based stats.
 Identities = 81/384 (21%), Positives = 170/384 (44%), Gaps = 35/384 (9%)

Query: 17  AYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL-EVVEEVENY 75
             EK ++  V+  + ++ + +  +      ++I  EI+ E  ++ ++     VV++ E  
Sbjct: 25  EKEK-LELSVLADIFSEEVTRIVQKNIDPEANIVFEIDEENKEVHVYNTEAIVVDDSEFD 83

Query: 76  TCQIS-----------LKVARDRDPSIDIGGVVSDPLPPMDFGR-------VAVQSAKQV 117
               S           L VA+     +++   +   +  +   +          +  +  
Sbjct: 84  DLSESDKVSLMLYNVPLSVAKKVKSDVNVDDTIKIEIDLLALSKSTNPVVQKTPKIIESS 143

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG---NVIVDLGNSDGVIRRDETISRE 174
           I+Q +++ ++   Y ++ +K+GE +  T          NV +        +  +   ++ 
Sbjct: 144 ILQAIKKLQKSIVYTKYLEKIGETVKVTFISKNSKGSWNVQIVDDGVIAHLPANYVSAKR 203

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
            + PG      I  V ++ +  Q+ +S   P+ + K+ +  +PEI +G++++  V R PG
Sbjct: 204 VINPGSYGDVVIERVEKDTKLSQITVSLDSPKLIEKILYNNIPEISSGLIEIVNVQRIPG 263

Query: 235 SRAKLAVFSS---DSSIDPVGACVGMRGSRVQAVVTELRD-------EKIDIVVWSPDSA 284
            R K AVF++   +  +D  GA +G   SR+  +++E+         EK D++V++ D  
Sbjct: 264 ERTK-AVFNASAGNEHLDVYGAIIGQDSSRINLIISEMNQGVNQADMEKFDVIVYTSDKK 322

Query: 285 TFVINALRPAIVTKVVL-DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
            F+   + P  V  +V  +E      VI  K  LS AIG++G N  LAS+++   +DIIT
Sbjct: 323 EFIRRCMLPGQVVDIVPKNESQNSFYVITIKAGLSAAIGKKGANTMLASKVSHSNLDIIT 382

Query: 344 EEEDSINRQKDFNERTQFFMQAIN 367
            EE  +        +     +++N
Sbjct: 383 VEEAKLKNILFDESKIAEVEESLN 406


>gi|254700793|ref|ZP_05162621.1| transcription elongation factor NusA [Brucella suis bv. 5 str. 513]
          Length = 181

 Score =  197 bits (503), Expect = 3e-48,   Method: Composition-based stats.
 Identities = 82/168 (48%), Positives = 114/168 (67%)

Query: 356 NERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
            ER+  FM+A+NVDE++  +L +EGFA VEELA V   EI+SI+GFDE+TA EIQ RARE
Sbjct: 1   AERSNLFMEALNVDEMVGQVLASEGFASVEELAYVDAGEISSIDGFDEDTAGEIQDRARE 60

Query: 416 YLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSE 475
           YLE I+     + +ELGV++EL  +PG+ + + VA+GE+G+KTMED AG +VDDL+GW E
Sbjct: 61  YLERIEAEQDARRKELGVADELRELPGMTTAMLVAVGEDGVKTMEDFAGYAVDDLVGWRE 120

Query: 476 NKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQ 523
            K G+     G L+     +   E M++ AR K GWI +E++A     
Sbjct: 121 RKDGDTINHSGVLTPFDLSRVDAEQMVLAARLKAGWITEEELAAASED 168


>gi|222871752|gb|EEF08883.1| predicted protein [Populus trichocarpa]
          Length = 274

 Score =  196 bits (499), Expect = 8e-48,   Method: Composition-based stats.
 Identities = 69/164 (42%), Positives = 113/164 (68%), Gaps = 2/164 (1%)

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           ++V+V +E L+++IGR GQNVRLAS+LTGW I+I+T+EE +  + ++     + FM  ++
Sbjct: 1   MDVVVDEENLAVSIGRSGQNVRLASELTGWQINIMTQEESAQKQAEESEVVRKLFMAKLD 60

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           VDE +A +L+ EGF+ +EE+A V ISE+  IE FDE+T  E++ RAR+ L  +++  ++K
Sbjct: 61  VDEEVADILIEEGFSSLEEVAYVPISEMMEIEAFDEDTVNELRNRARDALLTMELAREEK 120

Query: 428 IRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           + E  VS++L S+ G+  ++   L E  I T +DLA  +VD+L 
Sbjct: 121 VEE--VSQDLRSLDGLTPELIGKLAEGNIHTRDDLAELAVDELA 162


>gi|215428279|ref|ZP_03426198.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           T92]
 gi|289571028|ref|ZP_06451255.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           T17]
 gi|289544782|gb|EFD48430.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           T17]
          Length = 159

 Score =  196 bits (499), Expect = 8e-48,   Method: Composition-based stats.
 Identities = 71/139 (51%), Positives = 96/139 (69%), Gaps = 1/139 (0%)

Query: 208 MVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVT 267
           M KLF +EVPEI +G V++ AV+R+ G R+K+AV S+ + ++  GAC+G  G RV+ V++
Sbjct: 1   MRKLFSLEVPEIADGSVEIVAVAREAGHRSKIAVRSNVAGLNAKGACIGPMGQRVRNVMS 60

Query: 268 ELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGRIEVIVPKEQLSLAIGRRGQ 326
           EL  EKIDI+ +  D A FV NAL PA V  V V+D+      V+VP  QLSLAIG+ GQ
Sbjct: 61  ELSGEKIDIIDYDDDPARFVANALSPAKVVSVSVIDQTARAARVVVPDFQLSLAIGKEGQ 120

Query: 327 NVRLASQLTGWTIDIITEE 345
           N RLA++LTGW IDI  + 
Sbjct: 121 NARLAARLTGWRIDIRGDA 139


>gi|261751302|ref|ZP_05995011.1| transcription elongation factor NusA [Brucella suis bv. 5 str. 513]
 gi|261741055|gb|EEY28981.1| transcription elongation factor NusA [Brucella suis bv. 5 str. 513]
          Length = 174

 Score =  191 bits (486), Expect = 2e-46,   Method: Composition-based stats.
 Identities = 79/161 (49%), Positives = 110/161 (68%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           M+A+NVDE++  +L +EGFA VEELA V   EI+SI+GFDE+TA EIQ RAREYLE I+ 
Sbjct: 1   MEALNVDEMVGQVLASEGFASVEELAYVDAGEISSIDGFDEDTAGEIQDRAREYLERIEA 60

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
               + +ELGV++EL  +PG+ + + VA+GE+G+KTMED AG +VDDL+GW E K G+  
Sbjct: 61  EQDARRKELGVADELRELPGMTTAMLVAVGEDGVKTMEDFAGYAVDDLVGWRERKDGDTI 120

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQ 523
              G L+     +   E M++ AR K GWI +E++A     
Sbjct: 121 NHSGVLTPFDLSRVDAEQMVLAARLKAGWITEEELAAASED 161


>gi|258615950|ref|ZP_05713720.1| transcription elongation factor NusA [Enterococcus faecium DO]
          Length = 171

 Score =  188 bits (478), Expect = 2e-45,   Method: Composition-based stats.
 Identities = 65/161 (40%), Positives = 101/161 (62%), Gaps = 4/161 (2%)

Query: 225 QVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSA 284
           ++ +++R+ G R+K+AV S+D +ID VG CVG +G RVQA+V EL+ E +DIV W+ D A
Sbjct: 1   EIVSIAREAGDRSKVAVRSNDPNIDAVGTCVGPKGQRVQAIVNELKGENMDIVEWNEDPA 60

Query: 285 TFVINALRPAIVTKVVLDEDVGRI-EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
            F+ NAL PA V  V+ DE   +   V+VP  QLSLAIG+RGQN RLA++LT   IDI +
Sbjct: 61  VFIANALNPAQVMDVIFDETNPKACTVVVPDYQLSLAIGKRGQNARLAAKLTNHKIDIKS 120

Query: 344 EEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADV 384
           E + +   +    ++     + ++ + I+   L  + +  +
Sbjct: 121 ESDMTEFYENQEQQKE---TEELHDEAIVQSDLTDDEYETI 158


>gi|254434624|ref|ZP_05048132.1| transcription termination factor NusA, C-terminal duplication
           domain protein [Nitrosococcus oceani AFC27]
 gi|207090957|gb|EDZ68228.1| transcription termination factor NusA, C-terminal duplication
           domain protein [Nitrosococcus oceani AFC27]
          Length = 199

 Score =  187 bits (475), Expect = 5e-45,   Method: Composition-based stats.
 Identities = 75/216 (34%), Positives = 117/216 (54%), Gaps = 19/216 (8%)

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           ++V V +  LS AIGR GQN+RLASQLTGW ++++TE+E     + +     Q FM+ ++
Sbjct: 1   MDVAVAEGNLSQAIGRGGQNIRLASQLTGWELNVMTEQEAEEKGESEAKSLQQMFMEQLD 60

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           VDE +A +LV EGF+ +EE+A V   EI +IE FD +   E++ RAR+ L    I  ++ 
Sbjct: 61  VDEEVAAILVHEGFSSIEEMAYVPEQEILAIEEFDSQIVQELRNRARDVLLTRAIANEET 120

Query: 428 IRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGF 487
           I  + + +EL  +  ID  +  AL   GI T E+LA  +VD+L+                
Sbjct: 121 IETVQLDQELLDMEEIDHGLASALASKGIVTKENLAEQAVDELMEIE------------- 167

Query: 488 LSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQ 523
               G  +++   +I+ AR    W   EK  +E  +
Sbjct: 168 ----GMNREKAARLIMAARES--WFVSEKQDEETEE 197


>gi|255077143|ref|XP_002502222.1| predicted protein [Micromonas sp. RCC299]
 gi|226517487|gb|ACO63480.1| predicted protein [Micromonas sp. RCC299]
          Length = 897

 Score =  186 bits (472), Expect = 1e-44,   Method: Composition-based stats.
 Identities = 89/363 (24%), Positives = 147/363 (40%), Gaps = 54/363 (14%)

Query: 28  LSVMADSIQKAARS-LYGT--MSDIR-----VEINPETGDISLFRLLEVVEEVENYTCQI 79
           L  ++ +I +A R   Y      D R     V+IN   G +++                 
Sbjct: 329 LEAVSRAIDRAYRKLRYSAFAEMDPRGRDVCVDINVAEGTVAVLAQR------------- 375

Query: 80  SLKVARDRDPSIDIGGVVSDPLPPMDF------GRVAVQSAKQVIIQKVREAERDRQYLE 133
                      I  GG V       D        R  ++    +  +++ E         
Sbjct: 376 -----------IGRGGTVEWETDDTDAFLEAYGKRHMIRKIAHMYTEELNEQVSAVAADS 424

Query: 134 FKDKVGEIISGTVKRV-EYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYIYDVRR 191
           ++ K G+++  TV      G  ++ L + +   +  +E+I  +    G+RV + + +V  
Sbjct: 425 YRAKRGQMVECTVVAEGRRGEYLLRLDDGAMACLPEEESIPGKKYSQGERVCALVMEVED 484

Query: 192 EQ----RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS 247
                 R   V++S      + ++   EVPE+  G V +K+V+R  G  +K+AV   + +
Sbjct: 485 RTWAADRRAPVIVSTAIAGLLAEVLAAEVPEVARGDVVIKSVARVSGKMSKVAVARQEGA 544

Query: 248 ---IDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--- 301
               DPV ACVG+  SR++A+   L  E   I+ WS +    V  AL PA V +VV    
Sbjct: 545 EKVFDPVLACVGVENSRLRAIRERLGGEVCQILTWSDNREDMVAEALFPAAVHRVVKAEE 604

Query: 302 DEDVGRI----EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           D+  GR        V +   + AIG  G NV+LA+ LTG  I I   EE         ++
Sbjct: 605 DDMDGRALDKFIAYVSRFDEAKAIGAGGVNVKLAAALTGCFILIERHEEGGGAGGGWGDQ 664

Query: 358 RTQ 360
           R  
Sbjct: 665 RAN 667


>gi|213022854|ref|ZP_03337301.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. 404ty]
          Length = 165

 Score =  185 bits (470), Expect = 2e-44,   Method: Composition-based stats.
 Identities = 58/153 (37%), Positives = 96/153 (62%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLIVEEVTMPTKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
           ER     +F+D+ GEI++G VK+V   N+ +++
Sbjct: 122 ERAMVVDQFRDQEGEIVTGVVKKVNRDNISLEI 154


>gi|213421302|ref|ZP_03354368.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. E01-6750]
          Length = 150

 Score =  179 bits (456), Expect = 7e-43,   Method: Composition-based stats.
 Identities = 58/149 (38%), Positives = 93/149 (62%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +VEEV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLIVEEVTMPTKEITLEAARFEDESLNVGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNV 154
           ER     +F+D+ GEI++G VK+V   N+
Sbjct: 122 ERAMVVDQFRDQEGEIVTGVVKKVNRDNI 150


>gi|153812998|ref|ZP_01965666.1| hypothetical protein RUMOBE_03405 [Ruminococcus obeum ATCC 29174]
 gi|149830945|gb|EDM86035.1| hypothetical protein RUMOBE_03405 [Ruminococcus obeum ATCC 29174]
          Length = 162

 Score =  172 bits (437), Expect = 1e-40,   Method: Composition-based stats.
 Identities = 49/144 (34%), Positives = 87/144 (60%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             EL++  D +  EK+I +D +L  +  S+ +A ++ +G   ++ V INPET D S++  
Sbjct: 2   NKELMEALDILEKEKNISKDTLLGAIEQSLIQACKNHFGKADNVHVTINPETCDFSVYAE 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EV E V++   +ISL  A+  + + ++G ++   +   +FGR+A Q+AK VI+QK+RE 
Sbjct: 62  REVKEFVDDPALEISLVDAQKINTNAELGDMIKVEIHSKEFGRIATQNAKNVILQKIREE 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRV 149
           ER   Y ++     E+++G V+RV
Sbjct: 122 ERKVLYDQYYGMEKEVVTGIVQRV 145


>gi|303279869|ref|XP_003059227.1| predicted protein [Micromonas pusilla CCMP1545]
 gi|226459063|gb|EEH56359.1| predicted protein [Micromonas pusilla CCMP1545]
          Length = 511

 Score =  169 bits (429), Expect = 1e-39,   Method: Composition-based stats.
 Identities = 68/234 (29%), Positives = 106/234 (45%), Gaps = 20/234 (8%)

Query: 132 LEFKDKVGEIISGTVKRV-EYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYIYDV 189
             ++ + GE++  TV      G  ++ L + +   +  +E I  +    GDRV + +  V
Sbjct: 23  NSYRVRTGEMVEATVVSEGRRGEYLLKLDDGAFACLPAEEGIPEKRYGQGDRVSALVLGV 82

Query: 190 RREQ----RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
             +     R   V++S      + ++   EVPE+  G V +++V+R  G  +K+AV   D
Sbjct: 83  EDQTWAADRRAPVVVSTAIAGLLAEVLKKEVPEVATGDVVIRSVARVSGKMSKVAVSRRD 142

Query: 246 SSI---DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV--- 299
            ++   DPV ACVG   SR+ A+   L  E   I+ WS      V  AL PA V +V   
Sbjct: 143 GAVGTWDPVLACVGENNSRMLAIRERLGGETCQILTWSDVQEEMVAEALFPAQVVRVDKA 202

Query: 300 --VLDEDVG------RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
               DE  G      +    V +   + AIG  G NV+LA+ L G  I I   E
Sbjct: 203 LEEADEHGGKEFAMDKYVAYVNQFDEAKAIGAGGINVKLAAALCGCFILIERYE 256


>gi|145346768|ref|XP_001417855.1| predicted protein [Ostreococcus lucimarinus CCE9901]
 gi|144578083|gb|ABO96148.1| predicted protein [Ostreococcus lucimarinus CCE9901]
          Length = 710

 Score =  168 bits (426), Expect = 2e-39,   Method: Composition-based stats.
 Identities = 86/367 (23%), Positives = 154/367 (41%), Gaps = 56/367 (15%)

Query: 13  ADAVAYEK-SIDRDV--VLSVMADSI-----------QKAARSLYGTMSDIRVEINPETG 58
             A+A EK   + DV   L  +A +I               +       D+ V+I+ + G
Sbjct: 216 LRALAKEKEGYEADVGLHLEAIARAIDRGYRDMRGSALTVLQKEVRARIDVSVDIDVQRG 275

Query: 59  DISLFRLLE----VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSA 114
             ++   +      VE   + T   +  V R ++    +   +S+ +      R+A    
Sbjct: 276 RFAVLVQVVGRGGTVEREYDDTKFFTFNV-RRQNRMRTLIRYMSEEIKT-GVARLAT--- 330

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVK-RVEYGNVIVDL-GNSDGVIRRDETIS 172
                             +F  ++G ++ GT++ R E G+ ++D+ G + GVI  +E + 
Sbjct: 331 -----------------EDFVGQIGNVVDGTLRFRTETGSWMMDIKGGAAGVIPPEEQLL 373

Query: 173 REN---LRPGDRVKSYIYDVRRE----QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
             N   L+ GD +  ++ DV +     +    V+LS T P  +  +   EVPE+  G ++
Sbjct: 374 TYNDLPLKQGDELSCFVLDVDQNLFTGREQTPVVLSMTIPALVGAIIREEVPEVARGEIE 433

Query: 226 VKAVSRDPGSRAKLAV---FSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPD 282
           +K+++R  G   K+AV     S S  + V  C+G   S ++ +      E +  + WS D
Sbjct: 434 IKSIARMAGKVTKVAVALREGSTSWSNAVETCLGEDQSILRRIRERCGGEVVHFLPWSDD 493

Query: 283 SATFVINALRPAIVTKVVLD----EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
            A  + ++L PA V +V           +    V +  L  AIG  G NV+L + LT   
Sbjct: 494 PAELIKSSLFPAEVLRVEESFPDGTQKRKFTAYVKEVDLRRAIGAGGNNVKLCASLTNAF 553

Query: 339 IDIITEE 345
           I I  +E
Sbjct: 554 IVIEVDE 560


>gi|308804463|ref|XP_003079544.1| putative transcriptional termination/an (ISS) [Ostreococcus tauri]
 gi|116057999|emb|CAL54202.1| putative transcriptional termination/an (ISS) [Ostreococcus tauri]
          Length = 615

 Score =  166 bits (422), Expect = 8e-39,   Method: Composition-based stats.
 Identities = 88/357 (24%), Positives = 148/357 (41%), Gaps = 56/357 (15%)

Query: 13  ADAVAYEKS---IDRDVVLSVMADSIQKAARSLYGTMS------------DIRVEINPET 57
             A+A +KS    D  + L  +A +I    + + G+              D+ V+I+ E 
Sbjct: 216 LRALAKDKSGYEADTGMHLEAIARAITTMYKEIPGSALRLIQRERRDARLDVSVDIDVER 275

Query: 58  GDI----SLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQS 113
           G       +F     VE   + T   +  + R ++    +   +S+ +      R+A   
Sbjct: 276 GRFAVLVQVFGRSGTVEREYDDTKFFTFNI-RRQNRMRTLIRYMSEEMKS-GVARMAT-- 331

Query: 114 AKQVIIQKVREAERDRQYLEFKDKVGEIISGTVK-RVEYGNVIVDL-GNSDGVIRRDETI 171
                               + +++G +  GT + R E G+ +VD+   + GVI  +E +
Sbjct: 332 ------------------ENYVEQIGSLCVGTTRFRSEDGSWMVDIADGAAGVIPPEEQL 373

Query: 172 SREN---LRPGDRVKSYIYDVRRE----QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
              N   L+ GD V  Y+ DV +     +    V+LS T P  +  +   EVPEI  G V
Sbjct: 374 QLFNDRQLKQGDEVSCYVLDVDQNLFTGREQTPVVLSMTIPAVVAAIIRDEVPEIAKGDV 433

Query: 225 QVKAVSRDPGSRAKLAVFSS--DSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPD 282
           ++KA++R  G   K+AV      S  + +  CVG+   R++ +      E +  + WS D
Sbjct: 434 EIKAIARIAGKITKVAVAPVPGSSIWNTIDVCVGVDQVRLKRIRERAGGEVVHFINWSDD 493

Query: 283 SATFVINALRPAIVTKVVLDEDVG----RIEVIVPKEQLSLAIGRRGQNVRLASQLT 335
            +  V  AL PA V  V      G    +    V +  +  AIG  G NV+L + LT
Sbjct: 494 PSEVVKAALFPADVKSVEKSFPDGSQRPKFTAYVSEFDVKRAIGTNGNNVKLCAALT 550


>gi|118795363|ref|XP_561027.4| Anopheles gambiae str. PEST AGAP012738-PA [Anopheles gambiae str.
           PEST]
 gi|116133283|gb|EAL42227.2| AGAP012738-PA [Anopheles gambiae str. PEST]
          Length = 129

 Score =  160 bits (406), Expect = 5e-37,   Method: Composition-based stats.
 Identities = 50/122 (40%), Positives = 81/122 (66%), Gaps = 1/122 (0%)

Query: 151 YGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVK 210
              +++D   ++ ++ ++  I  +  R GD V++ I  V +  + PQ+++SRT P+F+ K
Sbjct: 6   KHVILLDDEGNEFILPKENQIPSDFFRKGDSVRAVIESVDKGSK-PQIIVSRTAPKFLEK 64

Query: 211 LFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELR 270
           L  +E+PEI +G + +K V R PG +AK+AV + D  IDPVGACVG++GSR+  VV ELR
Sbjct: 65  LLELEIPEIQDGTIILKKVVRIPGEKAKIAVDAYDDRIDPVGACVGVKGSRIHGVVRELR 124

Query: 271 DE 272
           +E
Sbjct: 125 NE 126


>gi|169245954|gb|ACA50975.1| nucleic acid binding protein [Mycobacterium marinum DL240490]
          Length = 182

 Score =  157 bits (398), Expect = 5e-36,   Method: Composition-based stats.
 Identities = 56/145 (38%), Positives = 78/145 (53%), Gaps = 3/145 (2%)

Query: 204 HPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQ 263
            P  +       VPE+   +V + A++R PG RAK+AV S  + I+PV  C+G  G R+ 
Sbjct: 30  SPNPIPAALSARVPELAQQLVDIVAIARIPGVRAKVAVRSCVAGINPVSVCIGWGGLRIA 89

Query: 264 AVVTELRDEKIDIVVWSPDSATFVINALR-P--AIVTKVVLDEDVGRIEVIVPKEQLSLA 320
            V   L  E+I +V +  D AT+VINAL  P          +E   RI V V        
Sbjct: 90  DVEKGLGGERIHVVAYHVDPATYVINALGCPGTGTGAAAAAEERSRRIRVRVEAHDYPRT 149

Query: 321 IGRRGQNVRLASQLTGWTIDIITEE 345
           +G+ GQNVRLAS+LTG  I+I+ E+
Sbjct: 150 VGKAGQNVRLASKLTGQKIEILVEK 174


>gi|213021473|ref|ZP_03335920.1| transcription elongation factor NusA [Salmonella enterica subsp.
           enterica serovar Typhi str. 404ty]
          Length = 156

 Score =  156 bits (396), Expect = 7e-36,   Method: Composition-based stats.
 Identities = 44/173 (25%), Positives = 81/173 (46%), Gaps = 18/173 (10%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
           T ++     Q + +   + F + +++DE  A +LV EGF+ +EELA V + E+  I+G D
Sbjct: 1   TVDDLQAKHQAEAHAAIEIFTKYLDIDEEFATVLVEEGFSTLEELAYVPMKELLEIDGLD 60

Query: 403 EETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDL 462
           E T   ++ RA+  L  +    +  + +   +++L ++ G+D  +   L   G+ T+EDL
Sbjct: 61  EPTVEALRERAKNALATLAQDQEASLGDNKPADDLLNLEGLDRDMAFKLAARGVCTLEDL 120

Query: 463 AGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKE 515
           A   +DDL                     G   ++   +I+ AR  + W   E
Sbjct: 121 ADQGIDDLADIE-----------------GLTDEKAGELIMAAR-NICWFGDE 155


>gi|56807387|ref|ZP_00365366.1| COG0195: Transcription elongation factor [Streptococcus pyogenes
           M49 591]
          Length = 154

 Score =  156 bits (395), Expect = 8e-36,   Method: Composition-based stats.
 Identities = 52/153 (33%), Positives = 87/153 (56%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L+    +  EK ID+  ++  + +S++ A +  YG      +E N +T D  +F +
Sbjct: 2   SKEMLEAFRILEEEKHIDKADIIDAVTESLKSAYKRRYGQSESCVIEFNEKTADFQVFTV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
            EVVEEV +   +ISLK A     + ++G  +       +FGRVA QSAKQ I++K+R  
Sbjct: 62  REVVEEVFDSRLEISLKDALAISSAYELGDKIRFEESVNEFGRVAAQSAKQTIMEKMRRQ 121

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
            R+  + E+K+  GEI++GTV+R +   + V+L
Sbjct: 122 MREVMFNEYKEHEGEIMTGTVERFDQRFIYVNL 154


>gi|56808097|ref|ZP_00365889.1| COG0195: Transcription elongation factor [Streptococcus pyogenes
           M49 591]
          Length = 164

 Score =  155 bits (394), Expect = 1e-35,   Method: Composition-based stats.
 Identities = 58/143 (40%), Positives = 84/143 (58%), Gaps = 15/143 (10%)

Query: 226 VKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELR--------------D 271
           + +VSR+ G R K+AV S + ++D +G  VG  GS ++ V+++                +
Sbjct: 1   MMSVSREAGDRTKVAVRSHNPNVDAIGTMVGRGGSNIKKVISKFHPKRVDAKTGLEIPVE 60

Query: 272 EKIDIVVWSPDSATFVINALRPAIVTKVVLD-EDVGRIEVIVPKEQLSLAIGRRGQNVRL 330
           E ID++ W  D A F+ NA+ PA V  V+ D ED+ R  V+VP  +LSLAIGRRGQNVRL
Sbjct: 61  ENIDVIQWVDDPAEFIYNAIAPAEVDMVLFDDEDLKRATVVVPDSKLSLAIGRRGQNVRL 120

Query: 331 ASQLTGWTIDIITEEEDSINRQK 353
           A+ LTG+ IDI +  E      +
Sbjct: 121 AAHLTGYRIDIKSASEYDRLEAE 143


>gi|209418048|ref|YP_002274077.1| nucleic acid binding protein [Mycobacterium liflandii 128FXT]
 gi|169409180|gb|ACA57586.1| nucleic acid binding protein [Mycobacterium liflandii 128FXT]
          Length = 184

 Score =  155 bits (392), Expect = 2e-35,   Method: Composition-based stats.
 Identities = 56/147 (38%), Positives = 78/147 (53%), Gaps = 5/147 (3%)

Query: 204 HPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQ 263
            P  +       VPE+   +V + A++R PG RAK+AV S  + I+PV  C+G  G R+ 
Sbjct: 30  SPNPIPAALSARVPELAQQLVDIVAIARIPGVRAKVAVRSRVAGINPVSVCIGWGGLRIA 89

Query: 264 AVVTELRDEKIDIVVWSPDSATFVINALR-P----AIVTKVVLDEDVGRIEVIVPKEQLS 318
            V   L  E+I +V +  D AT+VINAL  P            +E   RI V V      
Sbjct: 90  DVEKGLGGERIHVVAYHVDPATYVINALGCPGTGTGTGAAAAAEERSRRIRVRVEAHDYP 149

Query: 319 LAIGRRGQNVRLASQLTGWTIDIITEE 345
             +G+ GQNVRLAS+LTG  I+I+ E+
Sbjct: 150 RTVGKAGQNVRLASKLTGQKIEILVEK 176


>gi|300508327|pdb|2KWP|A Chain A, Solution Structure Of The Aminoterminal Domain Of E. Coli
           Nusa
          Length = 129

 Score =  154 bits (389), Expect = 5e-35,   Method: Composition-based stats.
 Identities = 47/126 (37%), Positives = 76/126 (60%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RV+I+ ++GD   FR 
Sbjct: 2   NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVQIDRKSGDFDTFRR 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             VV+EV   T +I+L+ AR  D S+++G  V D +  + F R+  Q+AKQVI+QKVREA
Sbjct: 62  WLVVDEVTQPTKEITLEAARYEDESLNLGDYVEDQIESVTFDRITTQTAKQVIVQKVREA 121

Query: 126 ERDRQY 131
           ER    
Sbjct: 122 ERAMLV 127


>gi|12240026|gb|AAG49545.1|AF261103_1 NusA protein [Myxococcus xanthus DK 1622]
          Length = 254

 Score =  153 bits (387), Expect = 7e-35,   Method: Composition-based stats.
 Identities = 67/197 (34%), Positives = 100/197 (50%), Gaps = 19/197 (9%)

Query: 282 DSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           D A FV +AL PA V++V++DE    +E+IVP +QLSLAIGRRGQNVRLA+QLTGW +DI
Sbjct: 1   DPARFVCSALAPAEVSRVIIDEANHAMELIVPDDQLSLAIGRRGQNVRLAAQLTGWKLDI 60

Query: 342 ITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
            +E    +   ++F  R+        V+E++   L A GF    ++A      +A + G 
Sbjct: 61  NSES--RVRELREFANRS--LGSLPGVNEMLVETLYAHGFRQARDIAEANAELLAQLPGI 116

Query: 402 DEETAVEIQGRAR-------EYLEGIDITLQKKI--------RELGVSEELCSIPGIDSK 446
           D      +Q  AR         L  +D   ++           EL   E +  + G+  K
Sbjct: 117 DPARIPSMQEAARTRMVEDQAELSRMDYEREQARIAEARRHPDELSQPERMARVRGVGEK 176

Query: 447 IKVALGENGIKTMEDLA 463
               L   G +++ED+A
Sbjct: 177 TIEQLILAGYRSVEDIA 193



 Score = 38.9 bits (90), Expect = 2.3,   Method: Composition-based stats.
 Identities = 16/87 (18%), Positives = 33/87 (37%), Gaps = 1/87 (1%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELA-CVKISEIASIEGFDEET 405
               R  D   + +   +   V E     L+  G+  VE++A    ++++  + G   + 
Sbjct: 152 AEARRHPDELSQPERMARVRGVGEKTIEQLILAGYRSVEDIANEKDLAKLGDVPGVGIKK 211

Query: 406 AVEIQGRAREYLEGIDITLQKKIRELG 432
           A +++  A  YL        +   E G
Sbjct: 212 ARQLKSAAENYLVEEAKLRAELNAERG 238


>gi|49146092|ref|YP_025530.1| nucleic acid binding protein [Mycobacterium ulcerans Agy99]
 gi|42414726|emb|CAE46819.1| possible nucleic acid binding protein [Mycobacterium ulcerans
           Agy99]
          Length = 182

 Score =  152 bits (386), Expect = 1e-34,   Method: Composition-based stats.
 Identities = 55/145 (37%), Positives = 77/145 (53%), Gaps = 3/145 (2%)

Query: 204 HPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQ 263
            P  +       VPE+   +V + A++R PG RAK+AV S  + I+PV  C+G  G R+ 
Sbjct: 30  SPNPIPAALSARVPELAQQLVDIVAIARIPGVRAKVAVRSRVAGINPVSVCIGWGGLRIA 89

Query: 264 AVVTELRDEKIDIVVWSPDSATFVINALR-P--AIVTKVVLDEDVGRIEVIVPKEQLSLA 320
            V   L  E+I +V +  D AT+VIN L  P          +E   RI V V        
Sbjct: 90  DVEKGLGGERIHVVAYHVDPATYVINVLGCPGTGTGAAAAAEERSRRIRVRVEAHDYPRT 149

Query: 321 IGRRGQNVRLASQLTGWTIDIITEE 345
           +G+ GQNVRLAS+LTG  I+I+ E+
Sbjct: 150 VGKAGQNVRLASKLTGQKIEILVEK 174


>gi|331006261|ref|ZP_08329581.1| Transcription termination protein NusA [gamma proteobacterium
           IMCC1989]
 gi|330419950|gb|EGG94296.1| Transcription termination protein NusA [gamma proteobacterium
           IMCC1989]
          Length = 159

 Score =  152 bits (385), Expect = 1e-34,   Method: Composition-based stats.
 Identities = 50/178 (28%), Positives = 97/178 (54%), Gaps = 19/178 (10%)

Query: 342 ITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
           ++ E+    ++++   + + FM+A++VDE +A +LV EGF  +EE+A V + E+  IEGF
Sbjct: 1   MSVEQWEDKQEQEAGGQVELFMEALDVDEDVAAVLVEEGFTSLEEVAYVPLEEMLGIEGF 60

Query: 402 DEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMED 461
           DE+ A E++ RA++ L    +  ++K+     +E+L ++ G+D+ +   L + G+  MED
Sbjct: 61  DEDIANELRSRAKDTLLTKALASEEKLEGAEPAEDLVAMEGMDNALAAVLAKRGVVCMED 120

Query: 462 LAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVAD 519
           LA  +VD+LL                    G  +++  ++I+ AR    W    + ++
Sbjct: 121 LAEQAVDELLDID-----------------GMTEERAAALIMKAREP--WFASSETSE 159


>gi|409843|gb|AAD10598.1| Significant homology to E.coli protein NusA X00513 [Mycoplasma
           genitalium]
          Length = 217

 Score =  151 bits (383), Expect = 2e-34,   Method: Composition-based stats.
 Identities = 62/216 (28%), Positives = 107/216 (49%), Gaps = 10/216 (4%)

Query: 53  INPETGDISLFRLLEVV-EEVENYT--CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRV 109
           IN + G I++ +L  VV +E E+Y    +I L+ A   + S+ +G V+  P+P  +    
Sbjct: 2   INFDKGIINVEQLFNVVSDENEDYDDFLEIPLQAANKINSSLQLGDVLRKPIPLKNISSD 61

Query: 110 AVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG------NVIVDLGNSDG 163
            +     +  QK+ E        EF  +VGE+I   V+ ++          I++L  + G
Sbjct: 62  LINKMIAIFNQKISETNFKAVMSEFSSEVGEVIEAKVEDIDTNKEGGLKGYIINLETTKG 121

Query: 164 VIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGI 223
            I + E    E L  G +    I +++R+     + LSR+  + +  L     PEI NG 
Sbjct: 122 YISKRELSKGERLEIGKKYLFVIKEIQRQASLWPITLSRSDTRLLQFLLTSNTPEIENGT 181

Query: 224 VQVKAVSRDPGSRAKLAVFSSDS-SIDPVGACVGMR 258
           + +K + R PG ++K+AV S+D+ S DPV A +G +
Sbjct: 182 IVIKKIERSPGVKSKIAVISNDACSWDPVAAILGPK 217


>gi|296163996|ref|ZP_06846621.1| transcription elongation factor NusA [Mycobacterium
           parascrofulaceum ATCC BAA-614]
 gi|295900648|gb|EFG80029.1| transcription elongation factor NusA [Mycobacterium
           parascrofulaceum ATCC BAA-614]
          Length = 148

 Score =  146 bits (369), Expect = 9e-33,   Method: Composition-based stats.
 Identities = 49/129 (37%), Positives = 72/129 (55%)

Query: 217 PEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDI 276
           PE+ NG V++ AV+R+PG  AK+AV S    I+ V  C+G  G R+  V   L  E + I
Sbjct: 2   PELANGSVEIIAVAREPGLLAKVAVRSRVRGINAVAVCIGWGGLRIADVEKRLCGEHVSI 61

Query: 277 VVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTG 336
           + +  D+A +VINAL        V++ +  RI V V  +  + A+G+ G N+RL  QLT 
Sbjct: 62  IAYDSDTARYVINALGIKSAIAEVINPEQRRIRVYVNPDDYARALGKVGHNLRLVRQLTS 121

Query: 337 WTIDIITEE 345
            +I I T  
Sbjct: 122 CSIHIRTAT 130


>gi|328479976|gb|EGF49013.1| transcription elongation factor NusA [Lactobacillus rhamnosus MTCC
           5462]
          Length = 117

 Score =  143 bits (362), Expect = 5e-32,   Method: Composition-based stats.
 Identities = 39/116 (33%), Positives = 70/116 (60%)

Query: 6   RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
             E++Q  DA+  EK + ++VV+  +  ++  A +  Y    ++ VE +P+ GDI ++ +
Sbjct: 2   SKEMIQALDALEQEKGVKKEVVIEALEAALVSAYKRNYNQAQNVDVEFDPKQGDIHVYAV 61

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK 121
            EV +EV +   ++SLK A   + + +IG  +   + P DFGR+A Q+AKQVI+Q+
Sbjct: 62  KEVTDEVFDSRLEVSLKDALAINKAYEIGDQIKFEVTPKDFGRIAAQTAKQVIMQR 117


>gi|153812997|ref|ZP_01965665.1| hypothetical protein RUMOBE_03404 [Ruminococcus obeum ATCC 29174]
 gi|149830944|gb|EDM86034.1| hypothetical protein RUMOBE_03404 [Ruminococcus obeum ATCC 29174]
          Length = 139

 Score =  142 bits (360), Expect = 1e-31,   Method: Composition-based stats.
 Identities = 47/93 (50%), Positives = 61/93 (65%)

Query: 257 MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQ 316
           M G+RV ++V ELR EKIDI+ W  + A  + NAL PA V  V+ D D     V+VP  Q
Sbjct: 1   MNGARVNSIVEELRGEKIDIINWDENPAILIENALSPAKVIAVMADPDEKTALVVVPDYQ 60

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           LSLAIG+ GQN RLA++LTG+ IDI +E +   
Sbjct: 61  LSLAIGKEGQNARLAARLTGFKIDIKSETQARE 93


>gi|207109944|ref|ZP_03244106.1| transcription elongation factor NusA [Helicobacter pylori
           HPKX_438_CA4C1]
          Length = 127

 Score =  140 bits (354), Expect = 5e-31,   Method: Composition-based stats.
 Identities = 42/120 (35%), Positives = 73/120 (60%), Gaps = 1/120 (0%)

Query: 152 GNVIVDLGNSD-GVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVK 210
            N  +++     GV+     I  E+ + GD +K+ +  V+R ++G  + LSRT P+ +  
Sbjct: 1   QNTFIEIEQQFQGVLSMRHRIKGESFKVGDSIKAVLTQVKRTKKGLLLELSRTTPKMLEA 60

Query: 211 LFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELR 270
           L  +EVPEI +  +++   +R PG+RAK++ FS ++ IDP+GA VG++G R+ A+  EL 
Sbjct: 61  LLELEVPEIKDKEIEIIHCARIPGNRAKVSFFSHNARIDPIGAAVGVKGVRINAISNELN 120


>gi|33322909|gb|AAQ07191.1|AF496499_1 transcription termination/antitermination factor [Lactobacillus
           delbrueckii subsp. lactis]
          Length = 95

 Score =  130 bits (327), Expect = 7e-28,   Method: Composition-based stats.
 Identities = 45/95 (47%), Positives = 63/95 (66%), Gaps = 2/95 (2%)

Query: 220 YNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVW 279
           ++G V++ +++R+ G R K+AV S+D +IDPVG CVG RGSRVQ VV EL  E IDIV +
Sbjct: 1   FDGTVEIISIAREAGERTKIAVKSNDPNIDPVGTCVGPRGSRVQNVVNELGGENIDIVQY 60

Query: 280 SPDSATFVINALRPAIVTKVVL--DEDVGRIEVIV 312
             D + ++ NAL PA V  V    ++D  +  VIV
Sbjct: 61  EEDPSDYIANALNPAEVIAVQFEDEDDERKAFVIV 95


>gi|215428280|ref|ZP_03426199.1| transcription elongation factor NusA [Mycobacterium tuberculosis
           T92]
 gi|289751502|ref|ZP_06510880.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           T92]
 gi|289692089|gb|EFD59518.1| N utilization substance protein A nusA [Mycobacterium tuberculosis
           T92]
          Length = 166

 Score =  125 bits (314), Expect = 2e-26,   Method: Composition-based stats.
 Identities = 46/177 (25%), Positives = 84/177 (47%), Gaps = 30/177 (16%)

Query: 10  LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV 69
           +    A+  ++ I  + +L  +  ++  A R   G  +D R+EI+ +TG + +       
Sbjct: 5   MAALHAIEVDRGISVNELLETIKSALLTAYRHTQGHQTDARIEIDRKTGVVRV------- 57

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
                        +AR+ D + ++     D   P  FGR+A  +A+QV++Q+ R+AE +R
Sbjct: 58  -------------IARETDEAGNLISEWDD--TPEGFGRIAATTARQVMLQRFRDAENER 102

Query: 130 QYLEFKDKVGEIISGTVKRVEYGN----VIVDLGN----SDGVIRRDETISRENLRP 178
            Y EF  + GEI++G ++R    N    V+V +G     S+GVI   E +    +  
Sbjct: 103 TYGEFSTREGEIVAGVIQRDSRANARGLVVVRIGTETKASEGVIPPPEPVPGRAMNM 159


>gi|254993851|ref|ZP_05276041.1| transcription elongation factor NusA [Listeria monocytogenes FSL
           J2-064]
          Length = 104

 Score =  119 bits (299), Expect = 1e-24,   Method: Composition-based stats.
 Identities = 30/101 (29%), Positives = 53/101 (52%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ELL     + ++K I R+V++  +  ++  A +  +    ++RV++N E G I +    E
Sbjct: 4   ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENGSIRVLARKE 63

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGR 108
            VE+V +   +IS++ A   +P    G VV   + P DFGR
Sbjct: 64  AVEQVFDSRLEISMEEAHKLNPVYKPGDVVELEVTPKDFGR 104


>gi|153873980|ref|ZP_02002373.1| transcription elongation factor NusA [Beggiatoa sp. PS]
 gi|152069557|gb|EDN67628.1| transcription elongation factor NusA [Beggiatoa sp. PS]
          Length = 99

 Score =  107 bits (269), Expect = 4e-21,   Method: Composition-based stats.
 Identities = 29/96 (30%), Positives = 49/96 (51%), Gaps = 3/96 (3%)

Query: 6  RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            ++L + D V+ EK + ++V+ + +  +I  A +  Y    D+RV I+  TGD   FR 
Sbjct: 2  NKDILLVVDVVSNEKGVSKEVIFNALECAIASATKKRYEGEVDVRVHIDRRTGDYKAFRR 61

Query: 66 LEVVEEVEN---YTCQISLKVARDRDPSIDIGGVVS 98
           + VEE E       Q++L  A+  +P+I IG    
Sbjct: 62 WQAVEEEEELDSPHTQMNLTEAQIHNPNIAIGEWFE 97


>gi|254669624|emb|CBA03668.1| N utilization substance protein A [Neisseria meningitidis
          alpha153]
          Length = 136

 Score = 94.0 bits (233), Expect = 6e-17,   Method: Composition-based stats.
 Identities = 26/70 (37%), Positives = 44/70 (62%), Gaps = 2/70 (2%)

Query: 8  ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTM-SDIRVEINPETGDISLFRLL 66
          E+LQ+A+A+A EK++D +VV   +  ++  AA+        D+RV+IN +TG+   FR  
Sbjct: 9  EMLQLAEALASEKNVDAEVVFQALEFALSTAAKKKADREHMDVRVQINRDTGEYQTFRRW 68

Query: 67 EVVEEVENYT 76
           +V + E+YT
Sbjct: 69 LIVAD-EDYT 77


>gi|253734580|ref|ZP_04868745.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus
           TCH130]
 gi|253727445|gb|EES96174.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus
           TCH130]
          Length = 73

 Score = 89.0 bits (220), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 21/72 (29%), Positives = 38/72 (52%)

Query: 394 EIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGE 453
           E+  IEG DE T   ++ RA+  L  I    ++ + +   +++L ++ G+D  +   L  
Sbjct: 2   ELLEIEGLDEPTVEALRERAKNALATIAQAQEESLGDNKPADDLLNLEGVDRDLAFKLAA 61

Query: 454 NGIKTMEDLAGC 465
            G+ T+EDLA  
Sbjct: 62  RGVCTLEDLAEQ 73


>gi|218678853|ref|ZP_03526750.1| transcription elongation factor NusA [Rhizobium etli CIAT 894]
          Length = 82

 Score = 85.9 bits (212), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 33/74 (44%), Positives = 48/74 (64%)

Query: 453 ENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
           E+GIKT+ED AGC+ DDL+GW+E K G  +KF+G  S     + + E MI+ AR   GWI
Sbjct: 1   EDGIKTIEDFAGCAADDLVGWTERKNGETKKFEGLFSKFDVSRVEAEQMIVQARLSAGWI 60

Query: 513 EKEKVADEEVQDAS 526
            +E +A E  ++ +
Sbjct: 61  TQEDLAKEAEEEVT 74


>gi|159163264|pdb|1WCL|A Chain A, Nmr Structure Of The Carboxyterminal Domains Of
           Escherichia Coli Nusa
          Length = 76

 Score = 85.1 bits (210), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 25/75 (33%), Positives = 41/75 (54%)

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
            +     F + +++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+
Sbjct: 2   AHAAIDTFTKYLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAK 61

Query: 415 EYLEGIDITLQKKIR 429
             L  I    ++ + 
Sbjct: 62  NALATIAQAQEESLG 76


>gi|213425432|ref|ZP_03358182.1| transcription elongation factor NusA [Salmonella enterica subsp.
          enterica serovar Typhi str. E02-1180]
          Length = 62

 Score = 82.8 bits (204), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 18/60 (30%), Positives = 35/60 (58%)

Query: 6  RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRL 65
            E+L + +AV+ EK++ R+ +   +  ++  A +  Y    D+RVEI+ ++GD   FR+
Sbjct: 2  NKEILAVVEAVSNEKALPREKIFEALESALATATKKKYEQEIDVRVEIDRKSGDFDTFRV 61


>gi|52696033|pdb|1U9L|A Chain A, Structural Basis For A Nusa- Protein N Interaction
 gi|52696034|pdb|1U9L|B Chain B, Structural Basis For A Nusa- Protein N Interaction
          Length = 70

 Score = 81.3 bits (200), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 25/70 (35%), Positives = 38/70 (54%)

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
            +     F + +++DE  A +LV EGF+ +EELA V + E+  IEG DE T   ++ RA+
Sbjct: 1   AHAAIDTFTKYLDIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRERAK 60

Query: 415 EYLEGIDITL 424
             L  I    
Sbjct: 61  NALATIAQAQ 70


>gi|207109128|ref|ZP_03243290.1| transcription elongation factor NusA [Helicobacter pylori
           HPKX_438_CA4C1]
          Length = 129

 Score = 80.1 bits (197), Expect = 7e-13,   Method: Composition-based stats.
 Identities = 30/116 (25%), Positives = 49/116 (42%), Gaps = 22/116 (18%)

Query: 267 TELRDEKIDIVVWSPDSATFVINALRPAIVTKV----------------------VLDED 304
            EL  E ID + +S     ++  AL PA +  V                      +++  
Sbjct: 1   NELNKENIDCIEYSNVPEIYITLALAPAKILSVEIKKIPIEELNAEEKESIQERFIVNNH 60

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           + + +V +   + S AIG+ G NV LAS LTG+ I+  T      N + +  + TQ
Sbjct: 61  LQKAKVRLLDIEKSKAIGKGGVNVCLASMLTGYHIEFETIPSVKENAENESEKETQ 116


>gi|76664821|emb|CAJ17848.1| transcription terminator nusA [Candidatus Phytoplasma solani]
          Length = 162

 Score = 79.7 bits (196), Expect = 9e-13,   Method: Composition-based stats.
 Identities = 27/162 (16%), Positives = 64/162 (39%), Gaps = 8/162 (4%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVE----- 73
           E+ + R  V+      +    +  +  +   RV++     +I L++   V ++       
Sbjct: 1   ERDLPRKEVIEAFGKGLIAGCKKNH-QVKSCRVQMRENKSEILLYKQFIVADKTNIGMIN 59

Query: 74  -NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYL 132
                 I L  A+   P   +G ++   + P +F   A++  K    +++ + +R+  Y 
Sbjct: 60  LKELTPIDLSEAQTIKPQAKVGQIIEIKVDPKEFNLYAIKEFKNQFNEELTKRKRENIYH 119

Query: 133 EFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISR 173
            FK++ G++IS  V         ++L      ++ + E    
Sbjct: 120 FFKEQEGKLISAKVISENERFYNLELEKEITTLLPKKEISDN 161


>gi|291532986|emb|CBL06099.1| NusA N-terminal domain [Megamonas hypermegale ART12/1]
          Length = 67

 Score = 77.4 bits (190), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 14/67 (20%), Positives = 31/67 (46%), Gaps = 1/67 (1%)

Query: 1  MVSANRLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI 60
          M + ++   L     V  EK I  +V+   +  ++  A +  + T S++RV +   TG+ 
Sbjct: 1  MATKDKG-FLDALKEVGQEKGIAPEVLFEAVEAALVSAYKRNFNTASNVRVYLERATGEF 59

Query: 61 SLFRLLE 67
           ++   +
Sbjct: 60 HVYAQKK 66


>gi|228311785|pdb|2JZB|B Chain B, Solution Structure Of The Complex Between E.Coli Nusa-Ar2
           And Rnap-Actd
          Length = 74

 Score = 75.9 bits (186), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 19/89 (21%), Positives = 37/89 (41%), Gaps = 18/89 (20%)

Query: 427 KIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDG 486
            + +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL                
Sbjct: 3   SLGDNKPADDLLNLEGVDRDLAFKLAARGVCTLEDLAEQGIDDLADIE------------ 50

Query: 487 FLSSLGTPKDQVESMIIHARYKMGWIEKE 515
                G   ++  ++I+ AR  + W   E
Sbjct: 51  -----GLTDEKAGALIMAAR-NICWFGDE 73



 Score = 45.4 bits (107), Expect = 0.023,   Method: Composition-based stats.
 Identities = 18/54 (33%), Positives = 26/54 (48%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
            +    VD  +A  L A G   +E+LA   I ++A IEG  +E A  +   AR 
Sbjct: 13  LLNLEGVDRDLAFKLAARGVCTLEDLAEQGIDDLADIEGLTDEKAGALIMAARN 66


>gi|291532985|emb|CBL06098.1| hypothetical protein MHY_11450 [Megamonas hypermegale ART12/1]
          Length = 65

 Score = 73.9 bits (181), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 29/63 (46%), Positives = 38/63 (60%), Gaps = 2/63 (3%)

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI--NRQKDFNERTQFFMQAI 366
            VIVP  QLSLAIG+ GQN RLA++LTGW IDI +E + +       D N       ++ 
Sbjct: 3   RVIVPDYQLSLAIGKEGQNARLAAKLTGWKIDIKSETQAAEEGFDSDDMNMVNVVSEESF 62

Query: 367 NVD 369
           +VD
Sbjct: 63  SVD 65


>gi|59041351|gb|AAW83814.1| putative transcription elongation factor [Legionella pneumophila]
          Length = 99

 Score = 73.9 bits (181), Expect = 7e-11,   Method: Composition-based stats.
 Identities = 30/118 (25%), Positives = 53/118 (44%), Gaps = 20/118 (16%)

Query: 395 IASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGEN 454
           + +IE FDEE   E++ +A + L  + ++  K +      + L ++ G+   +   L   
Sbjct: 1   LPAIEEFDEEIVEELRNKANDKLLEMALSSGKGLSG-TPDDSLINMEGMTEDLANKLASK 59

Query: 455 GIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWI 512
           GI TMEDLA  SVD+L+                    G  +++  ++I+ AR    W 
Sbjct: 60  GIATMEDLAEQSVDELMEIE-----------------GISEEKAGALIMKAREP--WF 98



 Score = 53.9 bits (129), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 18/56 (32%), Positives = 30/56 (53%)

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
              +    + E +A+ L ++G A +E+LA   + E+  IEG  EE A  +  +ARE
Sbjct: 40  DSLINMEGMTEDLANKLASKGIATMEDLAEQSVDELMEIEGISEEKAGALIMKARE 95


>gi|261886075|ref|ZP_06010114.1| transcription elongation factor NusA [Campylobacter fetus subsp.
           venerealis str. Azul-94]
          Length = 124

 Score = 72.8 bits (178), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 27/107 (25%), Positives = 54/107 (50%), Gaps = 3/107 (2%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           ++  I +++A E  ++ + V   +  +   AA+ LYG   +    ++P T  I L++ + 
Sbjct: 3   KISDIIESIANEICLNFEDVKERIIRAFVNAAKRLYGYECEYEASLDPNTKAIHLYQKIL 62

Query: 68  VVEEVE---NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAV 111
           VVE+ +   +    ISLK A + D +++IG  ++  L   + GR   
Sbjct: 63  VVEDSDERLDEEHFISLKKAHELDATLEIGDSLNYELNIDELGRTGA 109


>gi|159163265|pdb|1WCN|A Chain A, Nmr Structure Of The Carboxyterminal Domains Of
           Escherichia Coli Nusa
          Length = 70

 Score = 72.4 bits (177), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 36/86 (41%), Gaps = 18/86 (20%)

Query: 430 ELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLS 489
           +   +++L ++ G+D  +   L   G+ T+EDLA   +DDL                   
Sbjct: 2   DNKPADDLLNLEGVDRDLAFKLAARGVCTLEDLAEQGIDDLADIE--------------- 46

Query: 490 SLGTPKDQVESMIIHARYKMGWIEKE 515
             G   ++  ++I+ AR  + W   E
Sbjct: 47  --GLTDEKAGALIMAAR-NICWFGDE 69



 Score = 44.3 bits (104), Expect = 0.051,   Method: Composition-based stats.
 Identities = 18/54 (33%), Positives = 26/54 (48%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
            +    VD  +A  L A G   +E+LA   I ++A IEG  +E A  +   AR 
Sbjct: 9   LLNLEGVDRDLAFKLAARGVCTLEDLAEQGIDDLADIEGLTDEKAGALIMAARN 62


>gi|20094120|ref|NP_613967.1| transcription elongation factor NusA-like protein [Methanopyrus
           kandleri AV19]
 gi|19887121|gb|AAM01897.1| Transcription elongation factor NusA [Methanopyrus kandleri AV19]
          Length = 142

 Score = 71.2 bits (174), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 27/86 (31%), Positives = 44/86 (51%), Gaps = 3/86 (3%)

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE--DVGRI 308
           +G  +G +G  V+ V  +L    +++V  S D   F+ NAL PA V  V + E  +    
Sbjct: 45  IGLAIGKKGQNVRRVQEQL-GMDVEVVEHSEDPEKFIRNALFPARVKSVRVTERGNKKVA 103

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQL 334
            V VP+ +    IG+ G+N++ A  L
Sbjct: 104 IVDVPESERGRVIGKGGRNIKKARIL 129



 Score = 48.5 bits (115), Expect = 0.002,   Method: Composition-based stats.
 Identities = 20/64 (31%), Positives = 35/64 (54%)

Query: 290 ALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           +L  A V   V+D++  R   +V + Q+ LAIG++GQNVR   +  G  ++++   ED  
Sbjct: 18  SLTGAHVLDCVIDDEHNRAIFVVKEGQIGLAIGKKGQNVRRVQEQLGMDVEVVEHSEDPE 77

Query: 350 NRQK 353
              +
Sbjct: 78  KFIR 81


>gi|315302976|ref|ZP_07873696.1| transcription termination factor NusA [Listeria ivanovii FSL
          F6-596]
 gi|313628656|gb|EFR97069.1| transcription termination factor NusA [Listeria ivanovii FSL
          F6-596]
          Length = 55

 Score = 69.7 bits (170), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 13/51 (25%), Positives = 28/51 (54%)

Query: 8  ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETG 58
          ELL     + ++K I R+V++  +  ++  A +  +    ++RV++N E G
Sbjct: 4  ELLDALHVLEHDKGISREVLVEAIEAALTSAYKRNFKDAQNVRVDLNMENG 54


>gi|15621245|dbj|BAB65240.1| 130aa long conserved hypothetical protein [Sulfolobus tokodaii str.
           7]
          Length = 130

 Score = 68.6 bits (167), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 28/100 (28%), Positives = 49/100 (49%), Gaps = 5/100 (5%)

Query: 248 IDP--VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DE 303
           ++P  +G  +G  GS V+ +  +L  + I+IV +S +    V N + PA V  V +    
Sbjct: 28  VNPENMGTAIGKNGSNVKRL-EKLIGKSIEIVGYSDNLEDLVRNLMAPAKVRSVKVVQSN 86

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
               + + V  +   LAIG+ G+NV  A  +    +DI +
Sbjct: 87  SKKTVYINVDPQDKGLAIGKNGRNVTRAKLILKRYMDIDS 126



 Score = 44.7 bits (105), Expect = 0.037,   Method: Composition-based stats.
 Identities = 16/54 (29%), Positives = 31/54 (57%)

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
           ++DE+  RI  +V  E +  AIG+ G NV+   +L G +I+I+   ++  +  +
Sbjct: 16  IVDEENNRIIFLVNPENMGTAIGKNGSNVKRLEKLIGKSIEIVGYSDNLEDLVR 69


>gi|327401229|ref|YP_004342068.1| NusA family KH domain-containing protein [Archaeoglobus veneficus
           SNP6]
 gi|327316737|gb|AEA47353.1| NusA family KH domain protein [Archaeoglobus veneficus SNP6]
          Length = 139

 Score = 68.2 bits (166), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 28/85 (32%), Positives = 45/85 (52%), Gaps = 4/85 (4%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED--VGRIE 309
           GA +G  G  ++    EL  ++I+++  S D A F++N  +P  V KV L E       +
Sbjct: 44  GAAIGKGGINIER-ARELMGKRIEVIEHSDDPAEFIVNIFKPIKV-KVKLIEKGGKKIAQ 101

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQL 334
           V V  +   LAIG+ G+N+  A +L
Sbjct: 102 VGVDPQYKGLAIGKGGKNINKAKEL 126


>gi|161751102|ref|NP_376131.2| transcription elongation factor NusA-like protein [Sulfolobus
           tokodaii str. 7]
          Length = 143

 Score = 68.2 bits (166), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 28/100 (28%), Positives = 49/100 (49%), Gaps = 5/100 (5%)

Query: 248 IDP--VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DE 303
           ++P  +G  +G  GS V+ +  +L  + I+IV +S +    V N + PA V  V +    
Sbjct: 41  VNPENMGTAIGKNGSNVKRL-EKLIGKSIEIVGYSDNLEDLVRNLMAPAKVRSVKVVQSN 99

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
               + + V  +   LAIG+ G+NV  A  +    +DI +
Sbjct: 100 SKKTVYINVDPQDKGLAIGKNGRNVTRAKLILKRYMDIDS 139



 Score = 44.3 bits (104), Expect = 0.045,   Method: Composition-based stats.
 Identities = 16/54 (29%), Positives = 31/54 (57%)

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
           ++DE+  RI  +V  E +  AIG+ G NV+   +L G +I+I+   ++  +  +
Sbjct: 29  IVDEENNRIIFLVNPENMGTAIGKNGSNVKRLEKLIGKSIEIVGYSDNLEDLVR 82


>gi|15679067|ref|NP_276184.1| transcription elongation factor NusA-like protein
           [Methanothermobacter thermautotrophicus str. Delta H]
 gi|2622153|gb|AAB85545.1| transcription termination factor NusA [Methanothermobacter
           thermautotrophicus str. Delta H]
          Length = 143

 Score = 67.0 bits (163), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 24/89 (26%), Positives = 41/89 (46%), Gaps = 9/89 (10%)

Query: 252 GACVGMRGSRVQAVVTEL-RDEKIDIVVWSPDSATFVINALRPAIVTKVVL---DEDVGR 307
           G  +G +GS V  V   L +   ++++  S D   F+ N + PA V  + +   +     
Sbjct: 46  GLAIGKKGSTVAKVQKALDKG--VEVIEHSNDPVEFIKNLMAPAKVRSIRILQKENGEKI 103

Query: 308 IEVIVPKEQLSLAIGRRGQNV---RLASQ 333
             V    +   +AIGR GQN+   RL ++
Sbjct: 104 ATVETDPKNKRIAIGRGGQNIERARLLAR 132


>gi|23008735|ref|ZP_00050053.1| hypothetical protein Magn03003752 [Magnetospirillum magnetotacticum
           MS-1]
          Length = 97

 Score = 67.0 bits (163), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 23/65 (35%), Positives = 36/65 (55%), Gaps = 2/65 (3%)

Query: 464 GCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIE--KEKVADEE 521
           GC+ DDL+G++E +G    +  GFL      + + E++I+ AR   GWIE   E  A+  
Sbjct: 3   GCANDDLVGYTEGRGPEAVRHAGFLDGFELSRAEAEALIMAARVHAGWIEAPPEPEAESV 62

Query: 522 VQDAS 526
             +AS
Sbjct: 63  EGEAS 67


>gi|126465706|ref|YP_001040815.1| NusA family protein [Staphylothermus marinus F1]
 gi|126014529|gb|ABN69907.1| NusA family KH domain protein [Staphylothermus marinus F1]
          Length = 150

 Score = 66.6 bits (162), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 30/83 (36%), Positives = 40/83 (48%), Gaps = 4/83 (4%)

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED---V 305
           D VG  VG RG  VQ +   L  + I+IV +S D    V  AL PA + +V +       
Sbjct: 50  DEVGKAVGPRGLYVQKLRK-LLGKNIEIVGYSDDLEEQVRYALAPARIREVRITNRPGGK 108

Query: 306 GRIEVIVPKEQLSLAIGRRGQNV 328
             + V V      +AIGR G+NV
Sbjct: 109 KVVYVSVEPNDKGMAIGRGGKNV 131


>gi|304315189|ref|YP_003850336.1| transcription termination factor [Methanothermobacter marburgensis
           str. Marburg]
 gi|302588648|gb|ADL59023.1| transcription termination factor [Methanothermobacter marburgensis
           str. Marburg]
          Length = 143

 Score = 66.6 bits (162), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 23/89 (25%), Positives = 41/89 (46%), Gaps = 9/89 (10%)

Query: 252 GACVGMRGSRVQAVVTEL-RDEKIDIVVWSPDSATFVINALRPAIVTKVVL---DEDVGR 307
           G  +G +GS V  V   L +   ++++  S D   F+ N + PA +  + +   +     
Sbjct: 46  GLAIGKKGSTVAKVQKALDKG--VEVIEHSSDPVEFIKNLMAPAKIRSIRILQKENGEKI 103

Query: 308 IEVIVPKEQLSLAIGRRGQNV---RLASQ 333
             V    +   +AIGR GQN+   RL ++
Sbjct: 104 ATVETDPKNKRIAIGRGGQNIERARLLAR 132


>gi|297527621|ref|YP_003669645.1| NusA family KH domain protein [Staphylothermus hellenicus DSM
           12710]
 gi|297256537|gb|ADI32746.1| NusA family KH domain protein [Staphylothermus hellenicus DSM
           12710]
          Length = 150

 Score = 66.2 bits (161), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 30/83 (36%), Positives = 40/83 (48%), Gaps = 4/83 (4%)

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED---V 305
           D VG  VG RG  VQ +   L  + I+IV +S D    V  AL PA + +V +       
Sbjct: 50  DEVGKAVGPRGLYVQKLRK-LLGKNIEIVGYSDDLEEQVRYALAPARIREVRITNRPGGK 108

Query: 306 GRIEVIVPKEQLSLAIGRRGQNV 328
             + V V      +AIGR G+NV
Sbjct: 109 KVVYVSVEPNDKGMAIGRGGKNV 131


>gi|307353872|ref|YP_003894923.1| NusA family KH domain-containing protein [Methanoplanus
           petrolearius DSM 11571]
 gi|307157105|gb|ADN36485.1| NusA family KH domain protein [Methanoplanus petrolearius DSM
           11571]
          Length = 156

 Score = 65.5 bits (159), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 31/115 (26%), Positives = 56/115 (48%), Gaps = 6/115 (5%)

Query: 248 IDP--VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           I+P  +G  +G  G  ++    EL  +KI++V +S D   F+ N   PA V  V + E+ 
Sbjct: 41  INPGDMGRAIGKSGVSIKKASDEL-GKKIEVVEFSNDPVQFIKNCFLPARVISVDIRENA 99

Query: 306 G---RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
                  V V +E + +AIG+ G+N+  A++L     DI   +  +    ++  +
Sbjct: 100 EGEFEAFVDVEEEDMGIAIGKGGKNIFKANKLAERQHDIANVQIITNAEDEEAGD 154


>gi|312136872|ref|YP_004004209.1| nusa family kh domain protein [Methanothermus fervidus DSM 2088]
 gi|311224591|gb|ADP77447.1| NusA family KH domain protein [Methanothermus fervidus DSM 2088]
          Length = 143

 Score = 65.5 bits (159), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 22/87 (25%), Positives = 38/87 (43%), Gaps = 6/87 (6%)

Query: 252 GACVGMRGSRVQAVVTEL-RDEKIDIVVWSPDSATFVINALRPAIVTKVVL---DEDVGR 307
           G  +G RGS +  V   L +   ++++  S D   F+ N L PA +  + +   +     
Sbjct: 46  GLAIGRRGSTIAKVRKTLDKG--VEVLEHSDDPVEFISNILSPAKLKSIRILQKENGEKI 103

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQL 334
             V        + IG+ GQN++ A  L
Sbjct: 104 ATVKADARNKRIIIGKGGQNIKRAKIL 130



 Score = 37.4 bits (86), Expect = 5.7,   Method: Composition-based stats.
 Identities = 16/51 (31%), Positives = 28/51 (54%), Gaps = 2/51 (3%)

Query: 277 VVWSPDSATFVI--NALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRG 325
           + ++ D   ++    +L  A V   ++DE  G++  +V K  + LAIGRRG
Sbjct: 3   IKFTTDEIRYIALFESLTGAAVKDCIIDEKRGKVTFLVKKGDMGLAIGRRG 53


>gi|116753357|ref|YP_842475.1| NusA family protein [Methanosaeta thermophila PT]
 gi|116664808|gb|ABK13835.1| NusA family KH domain protein [Methanosaeta thermophila PT]
          Length = 143

 Score = 65.1 bits (158), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 28/85 (32%), Positives = 47/85 (55%), Gaps = 3/85 (3%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR-IE 309
           GA +G +GS +  V   +  ++I+IV +S D   F+ N  +PA V  + V++++  R   
Sbjct: 47  GAAIGRKGSNINRVKKSI-GKQIEIVEYSDDVKEFLQNLFQPADVKNIMVVNKNNKRLAY 105

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQL 334
           V V  +   +AIGR G+N+  A  L
Sbjct: 106 VEVANKDKGIAIGRDGRNILKAKML 130


>gi|126178254|ref|YP_001046219.1| NusA family protein [Methanoculleus marisnigri JR1]
 gi|126178267|ref|YP_001046232.1| NusA family protein [Methanoculleus marisnigri JR1]
 gi|125861048|gb|ABN56237.1| NusA family KH domain protein [Methanoculleus marisnigri JR1]
 gi|125861061|gb|ABN56250.1| NusA family KH domain protein [Methanoculleus marisnigri JR1]
          Length = 149

 Score = 65.1 bits (158), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 27/86 (31%), Positives = 45/86 (52%), Gaps = 6/86 (6%)

Query: 248 IDP--VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD--- 302
           I+P  +G  +G  GS ++     +  ++I++V +S D + F+ N   PA VT +  D   
Sbjct: 41  INPGDMGLAIGKSGSSIKKASD-VMGKRIEVVEYSADPSQFLRNCFLPAQVTGIDFDTDE 99

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNV 328
           ED     + V  E   LAIG+ G+N+
Sbjct: 100 EDQQIALIDVRDEDRGLAIGKAGKNI 125



 Score = 38.5 bits (89), Expect = 2.9,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 33/76 (43%)

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           ++D    RI  ++    + LAIG+ G +++ AS + G  I+++    D     ++     
Sbjct: 29  IVDNRNERIIFVINPGDMGLAIGKSGSSIKKASDVMGKRIEVVEYSADPSQFLRNCFLPA 88

Query: 360 QFFMQAINVDEIIAHL 375
           Q      + DE    +
Sbjct: 89  QVTGIDFDTDEEDQQI 104


>gi|88601374|ref|YP_501552.1| NusA family protein [Methanospirillum hungatei JF-1]
 gi|88186836|gb|ABD39833.1| NusA family KH domain protein [Methanospirillum hungatei JF-1]
          Length = 142

 Score = 65.1 bits (158), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 22/84 (26%), Positives = 40/84 (47%), Gaps = 5/84 (5%)

Query: 248 IDP--VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED- 304
           ++P  +G  +G +G  ++        ++I+ V +S D A F+ N   PA V +V   +  
Sbjct: 40  VNPGDMGYAIGKKGVNIKKASESF-GKRIEAVEYSDDPAQFIRNCFHPAQVKEVQFSDYH 98

Query: 305 -VGRIEVIVPKEQLSLAIGRRGQN 327
                 V++  E    AIG+ G+N
Sbjct: 99  GEQIAHVVIRDEDRGRAIGKAGKN 122


>gi|282163891|ref|YP_003356276.1| NusA protein homolog [Methanocella paludicola SANAE]
 gi|282156205|dbj|BAI61293.1| NusA protein homolog [Methanocella paludicola SANAE]
          Length = 147

 Score = 64.7 bits (157), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 26/98 (26%), Positives = 47/98 (47%), Gaps = 11/98 (11%)

Query: 241 VFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVV 300
           V S D     +G  +G  G+ +  V  ++    ++++ ++ D   F+ N  +PA V  +V
Sbjct: 42  VKSGD-----MGLAIGKNGNNINRVKKQI-GRHVEVIEYNEDPKEFIKNLFQPATVKNIV 95

Query: 301 LDEDVGR--IEVIVPKEQLSLAIGRRGQN---VRLASQ 333
           +     R    V V  +   LAIG+ G+N   V+L +Q
Sbjct: 96  ISTKGERTLAIVDVATKDKGLAIGKNGRNINKVKLLAQ 133


>gi|11499475|ref|NP_070716.1| transcription elongation factor NusA-like protein [Archaeoglobus
           fulgidus DSM 4304]
 gi|2648654|gb|AAB89363.1| transcription termination-antitermination factor NusA, putative
           [Archaeoglobus fulgidus DSM 4304]
          Length = 139

 Score = 64.3 bits (156), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 27/91 (29%), Positives = 43/91 (47%), Gaps = 2/91 (2%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV-TKVVLDEDVGRIEV 310
           G  +G  G  V+    EL  ++I+I+  S D A F+ N  +P  V  K++  E      V
Sbjct: 44  GVAIGKGGINVER-ARELIGKRIEIIEHSEDPAEFIANIFKPIKVNVKLMEKEGSKIAVV 102

Query: 311 IVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            V  +   + IG+ G+N+  A +L     DI
Sbjct: 103 SVSPDLKGIVIGKGGKNINKAKELAKRHHDI 133


>gi|154151469|ref|YP_001405087.1| NusA family protein [Candidatus Methanoregula boonei 6A8]
 gi|154000021|gb|ABS56444.1| NusA family KH domain protein [Methanoregula boonei 6A8]
          Length = 154

 Score = 64.3 bits (156), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 27/91 (29%), Positives = 50/91 (54%), Gaps = 5/91 (5%)

Query: 248 IDP--VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DE 303
           ++P  +G  +G +G+ ++   +E   +KI++V ++ +S  F+ N   PA VT +V   + 
Sbjct: 41  VNPGDMGLAIGKKGASIKK-ASEAMGKKIEVVEYNSNSEQFLKNCFLPAQVTSIVFSGEP 99

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQL 334
           D     V V  E   +AIG+ G+N+  A +L
Sbjct: 100 DAQSATVEVRDEDRGIAIGKDGKNIFKAKKL 130



 Score = 38.1 bits (88), Expect = 4.1,   Method: Composition-based stats.
 Identities = 15/54 (27%), Positives = 30/54 (55%)

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
           V+D+   R+  +V    + LAIG++G +++ AS+  G  I+++    +S    K
Sbjct: 29  VIDDRNERLIFVVNPGDMGLAIGKKGASIKKASEAMGKKIEVVEYNSNSEQFLK 82


>gi|156937041|ref|YP_001434837.1| NusA family protein [Ignicoccus hospitalis KIN4/I]
 gi|156566025|gb|ABU81430.1| NusA family KH domain protein [Ignicoccus hospitalis KIN4/I]
          Length = 143

 Score = 63.9 bits (155), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 27/80 (33%), Positives = 42/80 (52%), Gaps = 3/80 (3%)

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEV 310
           VG  +G RG  V+ +  E+  ++I+IV +S +    V NAL PA V  V + +      V
Sbjct: 46  VGRAIGKRGFMVRKL-KEILKKQIEIVPYSDNIEEMVKNALAPARVIGVRVSKTPKGKVV 104

Query: 311 I--VPKEQLSLAIGRRGQNV 328
              V  +   +AIG+ G+NV
Sbjct: 105 YARVNPKDKGVAIGKEGRNV 124


>gi|21228370|ref|NP_634292.1| transcription elongation factor NusA-like protein [Methanosarcina
           mazei Go1]
 gi|20906840|gb|AAM31964.1| NusA protein homolog [Methanosarcina mazei Go1]
          Length = 141

 Score = 63.9 bits (155), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 30/85 (35%), Positives = 43/85 (50%), Gaps = 3/85 (3%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR--IE 309
           G  +G  G  +  V   L D+ I++V +S D  TF+ NA  P  V+ V L    G+    
Sbjct: 45  GLAIGKNGENINRVKKAL-DKPIELVEYSEDPVTFIKNAFGPVSVSSVNLTNKNGKRLAY 103

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQL 334
           V VP ++  LAIGR G+N+     L
Sbjct: 104 VEVPNKEKGLAIGRNGKNIEKVKML 128


>gi|296243128|ref|YP_003650615.1| NusA family KH domain-containing protein [Thermosphaera aggregans
           DSM 11486]
 gi|296095712|gb|ADG91663.1| NusA family KH domain protein [Thermosphaera aggregans DSM 11486]
          Length = 148

 Score = 63.5 bits (154), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 28/101 (27%), Positives = 47/101 (46%), Gaps = 6/101 (5%)

Query: 248 IDP--VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED- 304
           ++P  VG  +G +G  VQ +   L    I+IV +S +    V  AL PA + ++ +    
Sbjct: 45  VNPEDVGKAIGPKGFFVQKLRKILNK-NIEIVGYSDNLEEQVKYALAPARIKEIKVTSKP 103

Query: 305 --VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
                + V V      LAIG+ G+NV+ A  +     +I +
Sbjct: 104 GGEKVVYVAVDPSDKGLAIGKNGRNVQKAKIILKRHFNIDS 144


>gi|147921531|ref|YP_684653.1| transcription termination factor NusA [uncultured methanogenic
           archaeon RC-I]
 gi|110620049|emb|CAJ35327.1| transcription termination factor NusA [uncultured methanogenic
           archaeon RC-I]
          Length = 146

 Score = 63.2 bits (153), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 24/87 (27%), Positives = 42/87 (48%), Gaps = 6/87 (6%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR--IE 309
           G  +G  G+ +  V  ++    I+++ +S D   F+ N  +PA V  V +     R    
Sbjct: 47  GLAIGKNGNNINRVKKQI-GRLIEVIEYSEDPKEFIRNLFQPAAVKNVTISTRGDRSIAI 105

Query: 310 VIVPKEQLSLAIGRRGQN---VRLASQ 333
           V +  +   LAIG+ G+N   V+L +Q
Sbjct: 106 VDIATKDKGLAIGKNGRNINKVKLLAQ 132


>gi|19915104|gb|AAM04679.1| transcription termination factor NusA [Methanosarcina acetivorans
           C2A]
          Length = 149

 Score = 63.2 bits (153), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 29/85 (34%), Positives = 41/85 (48%), Gaps = 3/85 (3%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DEDVGRIE 309
           G  +G  G  +  V   L D+ I++V +S D  TF+ NA  P  V+ V L          
Sbjct: 53  GLAIGKNGENINRVKKAL-DKPIELVEYSEDPVTFIKNAFGPVSVSSVNLTTKNGKRLAY 111

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQL 334
           V VP ++  LAIGR G+N+     L
Sbjct: 112 VEVPNKEKGLAIGRNGKNIEKVKML 136


>gi|161484938|ref|NP_616199.2| transcription elongation factor NusA-like protein [Methanosarcina
           acetivorans C2A]
          Length = 141

 Score = 62.8 bits (152), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 29/85 (34%), Positives = 41/85 (48%), Gaps = 3/85 (3%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DEDVGRIE 309
           G  +G  G  +  V   L D+ I++V +S D  TF+ NA  P  V+ V L          
Sbjct: 45  GLAIGKNGENINRVKKAL-DKPIELVEYSEDPVTFIKNAFGPVSVSSVNLTTKNGKRLAY 103

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQL 334
           V VP ++  LAIGR G+N+     L
Sbjct: 104 VEVPNKEKGLAIGRNGKNIEKVKML 128


>gi|288561065|ref|YP_003424551.1| transcription elongation factor NusA-like protein
           [Methanobrevibacter ruminantium M1]
 gi|288543775|gb|ADC47659.1| transcription elongation factor NusA-like protein
           [Methanobrevibacter ruminantium M1]
          Length = 134

 Score = 62.4 bits (151), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/101 (20%), Positives = 41/101 (40%), Gaps = 7/101 (6%)

Query: 237 AKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV 296
           +K+     +  +   G  +   G+ V  V  +     ++I+ ++ D   F+ N L PA +
Sbjct: 25  SKVTFVVKNGDM---GLAIAKGGTTVTKV-KKAVGRGVEIIEYNEDPEQFIKNILSPAEL 80

Query: 297 TKVVL---DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQL 334
             + +   + D     V        +AIG+ G N+  A  L
Sbjct: 81  KSIKIVTKNNDEKIAFVNTDSSNKRIAIGKGGINIERAKLL 121


>gi|219558858|ref|ZP_03537934.1| transcription elongation factor NusA [Mycobacterium tuberculosis
          T17]
 gi|289571029|ref|ZP_06451256.1| N utilization substance protein A [Mycobacterium tuberculosis
          T17]
 gi|289544783|gb|EFD48431.1| N utilization substance protein A [Mycobacterium tuberculosis
          T17]
          Length = 78

 Score = 62.0 bits (150), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 12/58 (20%), Positives = 27/58 (46%)

Query: 10 LQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
          +    A+  ++ I  + +L  +  ++  A R   G  +D R+EI+ +TG + +     
Sbjct: 5  MAALHAIEVDRGISVNELLETIKSALLTAYRHTQGHQTDARIEIDRKTGVVRVIARET 62


>gi|222445203|ref|ZP_03607718.1| hypothetical protein METSMIALI_00826 [Methanobrevibacter smithii
           DSM 2375]
 gi|261350235|ref|ZP_05975652.1| transcription termination factor NusA [Methanobrevibacter smithii
           DSM 2374]
 gi|222434768|gb|EEE41933.1| hypothetical protein METSMIALI_00826 [Methanobrevibacter smithii
           DSM 2375]
 gi|288861021|gb|EFC93319.1| transcription termination factor NusA [Methanobrevibacter smithii
           DSM 2374]
          Length = 143

 Score = 61.6 bits (149), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 26/88 (29%), Positives = 38/88 (43%), Gaps = 7/88 (7%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED---VGRI 308
           G  +G  GS V  V     D+ I+IV  S D   F+ N L PA V  V + +        
Sbjct: 46  GLAIGKGGSTVSKV-QRAVDKGIEIVELSDDPIQFIKNLLSPAEVQGVKVLQKESGEKIA 104

Query: 309 EVIVPKEQLSLAIGRRGQNV---RLASQ 333
            V        +AIG+ G N+   +L ++
Sbjct: 105 TVTADNTNKRIAIGKNGVNIERAKLIAK 132


>gi|325960112|ref|YP_004291578.1| NusA family KH domain-containing protein [Methanobacterium sp.
           AL-21]
 gi|325331544|gb|ADZ10606.1| NusA family KH domain protein [Methanobacterium sp. AL-21]
          Length = 143

 Score = 61.6 bits (149), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 21/89 (23%), Positives = 39/89 (43%), Gaps = 9/89 (10%)

Query: 252 GACVGMRGSRVQAVVTEL-RDEKIDIVVWSPDSATFVINALRPAIVTKVVL---DEDVGR 307
           G  +G RGS V  V   + +   ++++  S D   F+ N + PA +  + +   +     
Sbjct: 46  GLAIGKRGSTVTKVQKTVDKG--VEVIEHSDDPVEFITNLMAPAKLRSIRILQKENGEKI 103

Query: 308 IEVIVPKEQLSLAIGRRGQNV---RLASQ 333
             +         AIG+ GQN+   RL ++
Sbjct: 104 ATIEADSRNKRTAIGKAGQNIERARLLAK 132


>gi|330507368|ref|YP_004383796.1| NusA protein-like protein [Methanosaeta concilii GP-6]
 gi|328928176|gb|AEB67978.1| NusA protein-like protein [Methanosaeta concilii GP-6]
          Length = 143

 Score = 61.6 bits (149), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 28/85 (32%), Positives = 47/85 (55%), Gaps = 3/85 (3%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV-VLDEDVGR-IE 309
           GA +G +GS +  V   +  ++I+IV +S D   F+ N  +PA +  V V++++  R   
Sbjct: 47  GAAIGRKGSNINRVKKSV-GKQIEIVEYSEDVKEFLENLFQPAAIKNVMVVNKNSKRLAY 105

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQL 334
           V V  +   +AIGR G+N+  A  L
Sbjct: 106 VEVANKDKGIAIGRDGRNILKAKML 130


>gi|218884682|ref|YP_002429064.1| NusA family KH domain protein [Desulfurococcus kamchatkensis 1221n]
 gi|218766298|gb|ACL11697.1| NusA family KH domain protein [Desulfurococcus kamchatkensis 1221n]
          Length = 148

 Score = 61.6 bits (149), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 28/101 (27%), Positives = 48/101 (47%), Gaps = 6/101 (5%)

Query: 248 IDP--VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD--- 302
           ++P  VG  +G +G  VQ +   L    I+IV +S +    V  AL PA + ++ L    
Sbjct: 45  VNPEDVGKAIGPKGFFVQRLRKILNK-NIEIVGYSNNLEEQVRYALSPARIKEIKLSTRP 103

Query: 303 EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
           +    + V V      +AIG+ G+NV+ A  +     +I +
Sbjct: 104 DGSKILYVAVDPSDKGIAIGKNGKNVQRAKLILKRHFNIDS 144


>gi|307595334|ref|YP_003901651.1| NusA family KH domain-containing protein [Vulcanisaeta distributa
           DSM 14429]
 gi|307550535|gb|ADN50600.1| NusA family KH domain protein [Vulcanisaeta distributa DSM 14429]
          Length = 150

 Score = 61.2 bits (148), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 25/90 (27%), Positives = 44/90 (48%), Gaps = 4/90 (4%)

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DEDVGRIEVI- 311
           VG  G  ++ +  EL  + +++V +       + N+L PA V  V +    + G I +  
Sbjct: 50  VGKNGINIRKL-KELTGKDVEVVEYGETPEELIKNSLYPARVISVKITKLPNNGSIAIAT 108

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           V  E  ++AIG++G+N+  A  L     DI
Sbjct: 109 VHNEDKAIAIGKQGRNINRAKLLAKRYFDI 138



 Score = 37.7 bits (87), Expect = 4.3,   Method: Composition-based stats.
 Identities = 18/54 (33%), Positives = 27/54 (50%)

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
           V+D    RI  IV K    LA+G+ G N+R   +LTG  ++++   E      K
Sbjct: 29  VIDPQYNRIIFIVDKNFAPLAVGKNGINIRKLKELTGKDVEVVEYGETPEELIK 82


>gi|84490157|ref|YP_448389.1| transcription elongation factor NusA-like protein [Methanosphaera
           stadtmanae DSM 3091]
 gi|84373476|gb|ABC57746.1| NusA [Methanosphaera stadtmanae DSM 3091]
          Length = 143

 Score = 60.8 bits (147), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 26/93 (27%), Positives = 41/93 (44%), Gaps = 4/93 (4%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD---EDVGRI 308
           G  +G RGS +  +  ++ D+ I+I+  S D   F+ N L  A V  +      +     
Sbjct: 46  GLAIGKRGSTIAKMQNKV-DKSIEIIEHSDDPGEFIKNLLSVAKVNSIEFSTNAKGNKIA 104

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            + V  +     IG+ GQN+R A Q      DI
Sbjct: 105 TLDVDSKTKRSTIGKNGQNIRRARQFAKRQFDI 137


>gi|325969569|ref|YP_004245761.1| NusA family KH domain protein [Vulcanisaeta moutnovskia 768-28]
 gi|323708772|gb|ADY02259.1| NusA family KH domain protein [Vulcanisaeta moutnovskia 768-28]
          Length = 150

 Score = 60.5 bits (146), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 24/90 (26%), Positives = 44/90 (48%), Gaps = 4/90 (4%)

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL--DEDVGRIEVI- 311
           VG  G  ++ +  EL  + +++V +       + N+L PA V  + +    + G I +  
Sbjct: 50  VGKNGINIRKL-KELTGKDVEVVEYGETPEELIKNSLYPARVLSIKITKLPNNGSIAIAT 108

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           V  E  ++AIG++G+N+  A  L     DI
Sbjct: 109 VHNEDKAIAIGKQGRNINRAKLLAKRYFDI 138


>gi|73671117|ref|YP_307132.1| transcription elongation factor NusA-like protein [Methanosarcina
           barkeri str. Fusaro]
 gi|72398279|gb|AAZ72552.1| transcription termination factor NusA [Methanosarcina barkeri str.
           Fusaro]
          Length = 141

 Score = 60.1 bits (145), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 28/85 (32%), Positives = 43/85 (50%), Gaps = 3/85 (3%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR--IE 309
           G  +G  G  +  V   L D+ I++V +S +  TF+ NA  P  V+ V +    G+    
Sbjct: 45  GLAIGRNGENINRVKKAL-DKPIELVEYSDEPVTFLKNAFGPVSVSSVNIINKNGKRLAY 103

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQL 334
           V VP ++  LAIGR G+N+     L
Sbjct: 104 VEVPNKEKGLAIGRNGKNIEKVKML 128


>gi|212223367|ref|YP_002306603.1| transcription elongation factor NusA-like protein [Thermococcus
           onnurineus NA1]
 gi|212008324|gb|ACJ15706.1| transcription termination-antitermination factor [Thermococcus
           onnurineus NA1]
          Length = 145

 Score = 59.7 bits (144), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 25/89 (28%), Positives = 41/89 (46%), Gaps = 8/89 (8%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVIN---ALRPAIVTKVVLDED---V 305
           G  +G +G+ V+ V   L  E I+++  S +   F+ N   +L    V KV + E     
Sbjct: 46  GLALGKKGANVKRVQNMLGKE-IELIEHSENPEEFLRNIYKSLG-VKVKKVHITEKRDGK 103

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQL 334
               + +   +   AIGR GQN+ L  +L
Sbjct: 104 KVALLDIGPREKPRAIGRGGQNINLVKEL 132



 Score = 41.6 bits (97), Expect = 0.30,   Method: Composition-based stats.
 Identities = 16/93 (17%), Positives = 46/93 (49%), Gaps = 2/93 (2%)

Query: 280 SPDSATFVI--NALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           + D   ++    ++  A V   ++D +  R+  ++ + ++ LA+G++G NV+    + G 
Sbjct: 6   NTDQIKYIALFESMTGATVLDCLIDSNRNRLIYVIKRGEMGLALGKKGANVKRVQNMLGK 65

Query: 338 TIDIITEEEDSINRQKDFNERTQFFMQAINVDE 370
            I++I   E+     ++  +     ++ +++ E
Sbjct: 66  EIELIEHSENPEEFLRNIYKSLGVKVKKVHITE 98


>gi|57641014|ref|YP_183492.1| transcription elongation factor NusA-like protein [Thermococcus
           kodakarensis KOD1]
 gi|57159338|dbj|BAD85268.1| transcription termination-antitermination factor, NusA homolog
           [Thermococcus kodakarensis KOD1]
          Length = 145

 Score = 59.7 bits (144), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 26/89 (29%), Positives = 40/89 (44%), Gaps = 8/89 (8%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVIN---ALRPAIVTKVVLDED---V 305
           G  +G +G+ V+ V   L  E I+++  S +   F+ N   +L    V KV + E     
Sbjct: 46  GLALGKKGANVKRVQGMLGKE-IELIEHSENPEEFLRNIYKSLG-VKVKKVHITEKRDGK 103

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQL 334
               + V       AIGR GQN+ L  +L
Sbjct: 104 KVALLDVGPRDKPRAIGRGGQNINLVKEL 132



 Score = 40.8 bits (95), Expect = 0.50,   Method: Composition-based stats.
 Identities = 17/93 (18%), Positives = 46/93 (49%), Gaps = 2/93 (2%)

Query: 280 SPDSATFVI--NALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           + D   ++    ++  A V   ++D +  R+  ++ K ++ LA+G++G NV+    + G 
Sbjct: 6   NTDQIKYIALFESMTGATVLDCLIDTNRNRLIYVIKKGEMGLALGKKGANVKRVQGMLGK 65

Query: 338 TIDIITEEEDSINRQKDFNERTQFFMQAINVDE 370
            I++I   E+     ++  +     ++ +++ E
Sbjct: 66  EIELIEHSENPEEFLRNIYKSLGVKVKKVHITE 98


>gi|254172398|ref|ZP_04879073.1| NusA family KH domain protein, archaeal [Thermococcus sp. AM4]
 gi|214033327|gb|EEB74154.1| NusA family KH domain protein, archaeal [Thermococcus sp. AM4]
          Length = 145

 Score = 59.3 bits (143), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 24/89 (26%), Positives = 41/89 (46%), Gaps = 8/89 (8%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVIN---ALRPAIVTKVVLDED---V 305
           G  +G +G+ V+ V   +  E I+++  S +   F+ N   +L    V K+ + E     
Sbjct: 46  GLALGKKGANVKRVQNMIGKE-IELIEHSENPEEFLRNIYKSLG-VKVKKIHITEKRDGK 103

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQL 334
               + +   +   AIGR GQN+ L  QL
Sbjct: 104 KVALLDISPREKPRAIGRGGQNINLVKQL 132



 Score = 41.6 bits (97), Expect = 0.37,   Method: Composition-based stats.
 Identities = 18/93 (19%), Positives = 46/93 (49%), Gaps = 2/93 (2%)

Query: 280 SPDSATFVI--NALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           + D   ++    ++  A V   ++D +  R+  ++ K ++ LA+G++G NV+    + G 
Sbjct: 6   NTDQIKYIALFESMTGATVLDCLIDTNRNRLIFVIKKGEMGLALGKKGANVKRVQNMIGK 65

Query: 338 TIDIITEEEDSINRQKDFNERTQFFMQAINVDE 370
            I++I   E+     ++  +     ++ I++ E
Sbjct: 66  EIELIEHSENPEEFLRNIYKSLGVKVKKIHITE 98


>gi|14520834|ref|NP_126309.1| transcription elongation factor NusA-like protein [Pyrococcus
           abyssi GE5]
 gi|5458050|emb|CAB49540.1| nusA transcription termination-antitermination factor nusA,
           putative [Pyrococcus abyssi GE5]
          Length = 145

 Score = 59.3 bits (143), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 26/88 (29%), Positives = 37/88 (42%), Gaps = 6/88 (6%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP--AIVTKVVLDED---VG 306
           G  +G RG  V+ V   L  E ID+V  S +   F+ N  +     V +V + E      
Sbjct: 46  GLALGKRGINVRRVENLLGKE-IDLVEHSENPEEFIKNIYKTMGVKVKRVHITEKKDGKK 104

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQL 334
              + V       AIGR G N+ +  QL
Sbjct: 105 VALLDVNPRDKPKAIGRGGHNINIVRQL 132



 Score = 47.4 bits (112), Expect = 0.006,   Method: Composition-based stats.
 Identities = 21/93 (22%), Positives = 46/93 (49%), Gaps = 2/93 (2%)

Query: 280 SPDSATFVI--NALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           + D   ++    +   A V   ++D++  R+  ++ K ++ LA+G+RG NVR    L G 
Sbjct: 6   NTDQIKYIALFESFTGATVLDCLIDQERNRLIYVIKKGEMGLALGKRGINVRRVENLLGK 65

Query: 338 TIDIITEEEDSINRQKDFNERTQFFMQAINVDE 370
            ID++   E+     K+  +     ++ +++ E
Sbjct: 66  EIDLVEHSENPEEFIKNIYKTMGVKVKRVHITE 98


>gi|315230009|ref|YP_004070445.1| NusA-like protein [Thermococcus barophilus MP]
 gi|315183037|gb|ADT83222.1| NusA-like protein [Thermococcus barophilus MP]
          Length = 145

 Score = 59.3 bits (143), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 25/88 (28%), Positives = 39/88 (44%), Gaps = 6/88 (6%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP--AIVTKVVLDEDV---G 306
           G  +G RG  V+ + + L  E ID++  S +   F+ N  +     V KV + E      
Sbjct: 46  GLALGKRGMNVRRIQSMLGKE-IDLIEHSENPEEFLRNIYKTMGVRVKKVHITEKKNGKK 104

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQL 334
              + V +     AIGR G N+ L  +L
Sbjct: 105 VALLDVNQRDKPRAIGRGGHNINLVKEL 132



 Score = 45.8 bits (108), Expect = 0.016,   Method: Composition-based stats.
 Identities = 21/93 (22%), Positives = 46/93 (49%), Gaps = 2/93 (2%)

Query: 280 SPDSATFVI--NALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           + D   ++    +   A V   ++D+D  R+  ++ K ++ LA+G+RG NVR    + G 
Sbjct: 6   NTDQIKYIALFESFTGATVLDCIIDQDRNRLIYVIKKGEMGLALGKRGMNVRRIQSMLGK 65

Query: 338 TIDIITEEEDSINRQKDFNERTQFFMQAINVDE 370
            ID+I   E+     ++  +     ++ +++ E
Sbjct: 66  EIDLIEHSENPEEFLRNIYKTMGVRVKKVHITE 98


>gi|298674724|ref|YP_003726474.1| NusA family KH domain-containing protein [Methanohalobium
           evestigatum Z-7303]
 gi|298287712|gb|ADI73678.1| NusA family KH domain protein [Methanohalobium evestigatum Z-7303]
          Length = 141

 Score = 59.3 bits (143), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 26/83 (31%), Positives = 37/83 (44%), Gaps = 11/83 (13%)

Query: 252 GACVGMRGSRVQAVVTELRDEKID----IVVWSPDSATFVINALRPAIVTKVVL--DEDV 305
           GA +G  G  +  V      E +D    +V +S D + F+ NA  P  V+ V L   +D 
Sbjct: 45  GAAIGKNGEHINKVK-----ENVDKHVELVEYSEDPSEFIKNAFGPVAVSSVNLVNKDDK 99

Query: 306 GRIEVIVPKEQLSLAIGRRGQNV 328
               V V      LAIG  G+N+
Sbjct: 100 QYAYVQVSNNSKGLAIGSNGKNI 122


>gi|68567140|gb|AAY80069.1| NusA [Sulfolobus acidocaldarius DSM 639]
          Length = 130

 Score = 59.3 bits (143), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 27/100 (27%), Positives = 49/100 (49%), Gaps = 5/100 (5%)

Query: 248 IDP--VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV--TKVVLDE 303
           I+P  +G  +G  G  V+ +  +L ++ ++IV +  +    V N + PA V   KVV   
Sbjct: 28  INPESMGVAIGKNGLNVRKL-EKLINKSVEIVGYQENLEDLVKNLMSPARVKTIKVVQSN 86

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
               + + V  +   +AIG+ G+NV  A  +    +DI +
Sbjct: 87  SKKTVYITVEPQDKGIAIGKNGRNVERAKLILKRYLDIDS 126



 Score = 38.5 bits (89), Expect = 3.1,   Method: Composition-based stats.
 Identities = 15/54 (27%), Positives = 32/54 (59%)

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
           ++D+   RI +++  E + +AIG+ G NVR   +L   +++I+  +E+  +  K
Sbjct: 16  IIDDRNNRIILLINPESMGVAIGKNGLNVRKLEKLINKSVEIVGYQENLEDLVK 69


>gi|46673|emb|CAA32928.1| unnamed protein product [Sulfolobus acidocaldarius]
          Length = 130

 Score = 58.9 bits (142), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 27/100 (27%), Positives = 49/100 (49%), Gaps = 5/100 (5%)

Query: 248 IDP--VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV--TKVVLDE 303
           I+P  +G  +G  G  V+ +  +L ++ ++IV +  +    V N + PA V   KVV   
Sbjct: 28  INPESMGVAIGKNGLNVRKL-EKLINKSVEIVGYQENLEDLVKNLMSPARVKTIKVVQSN 86

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
               + + V  +   +AIG+ G+NV  A  +    +DI +
Sbjct: 87  SKKTVYITVEPQDKGIAIGKNGRNVERAKLILKRYLDIDS 126



 Score = 39.3 bits (91), Expect = 1.8,   Method: Composition-based stats.
 Identities = 15/54 (27%), Positives = 32/54 (59%)

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
           ++D+   RI +++  E + +AIG+ G NVR   +L   +++I+  +E+  +  K
Sbjct: 16  IIDDRNKRIILLINPESMGVAIGKNGLNVRKLEKLINKSVEIVGYQENLEDLVK 69


>gi|162139950|ref|YP_255362.2| transcription elongation factor NusA-like protein [Sulfolobus
           acidocaldarius DSM 639]
 gi|73920241|sp|P11523|NUSA_SULAC RecName: Full=NusA protein homolog
          Length = 143

 Score = 58.9 bits (142), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 27/100 (27%), Positives = 49/100 (49%), Gaps = 5/100 (5%)

Query: 248 IDP--VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIV--TKVVLDE 303
           I+P  +G  +G  G  V+ +  +L ++ ++IV +  +    V N + PA V   KVV   
Sbjct: 41  INPESMGVAIGKNGLNVRKL-EKLINKSVEIVGYQENLEDLVKNLMSPARVKTIKVVQSN 99

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
               + + V  +   +AIG+ G+NV  A  +    +DI +
Sbjct: 100 SKKTVYITVEPQDKGIAIGKNGRNVERAKLILKRYLDIDS 139



 Score = 38.1 bits (88), Expect = 3.5,   Method: Composition-based stats.
 Identities = 15/54 (27%), Positives = 32/54 (59%)

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
           ++D+   RI +++  E + +AIG+ G NVR   +L   +++I+  +E+  +  K
Sbjct: 29  IIDDRNNRIILLINPESMGVAIGKNGLNVRKLEKLINKSVEIVGYQENLEDLVK 82


>gi|294495213|ref|YP_003541706.1| NusA family KH domain protein [Methanohalophilus mahii DSM 5219]
 gi|292666212|gb|ADE36061.1| NusA family KH domain protein [Methanohalophilus mahii DSM 5219]
          Length = 141

 Score = 58.9 bits (142), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 22/79 (27%), Positives = 37/79 (46%), Gaps = 3/79 (3%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR--IE 309
           GA +G  G  +     +  D+ +D++ +S D  TF+ NA        V + +  G+    
Sbjct: 45  GAAIGKHGDNINR-FKKAVDKHVDLIEYSDDPITFIKNAFGTIPTKSVEISDKNGKKVAY 103

Query: 310 VIVPKEQLSLAIGRRGQNV 328
           V V      LAIG+ G+N+
Sbjct: 104 VEVSSMNKGLAIGKSGRNI 122


>gi|320101546|ref|YP_004177138.1| NusA family KH domain-containing protein [Desulfurococcus mucosus
           DSM 2162]
 gi|319753898|gb|ADV65656.1| NusA family KH domain protein [Desulfurococcus mucosus DSM 2162]
          Length = 148

 Score = 58.5 bits (141), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 27/104 (25%), Positives = 50/104 (48%), Gaps = 12/104 (11%)

Query: 248 IDP--VGACVGMRG---SRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD 302
           ++P  VG  +G +G    R++ ++ +     I+IV +S +    V  AL PA + ++ L 
Sbjct: 45  VNPEDVGRAIGPKGFFVQRLKKILNK----NIEIVGYSSNLEEQVKYALAPARIKEIKLS 100

Query: 303 ---EDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
              +    + V V      +AIG+ G+NV+ A  +     DI +
Sbjct: 101 TKPDGSKVLYVAVDPADKGIAIGKNGRNVQRARLILKRHFDIDS 144


>gi|305663639|ref|YP_003859927.1| NusA family KH domain protein [Ignisphaera aggregans DSM 17230]
 gi|304378208|gb|ADM28047.1| NusA family KH domain protein [Ignisphaera aggregans DSM 17230]
          Length = 146

 Score = 58.5 bits (141), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 26/82 (31%), Positives = 41/82 (50%), Gaps = 3/82 (3%)

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE--DVG 306
           D +G  +G +G  V+ +   L  + ++IV W  +   FV N   PA V ++ L E  D  
Sbjct: 47  DKLGQAIGRKGINVKYLSK-LIGKDVEIVGWGNNLEDFVKNIFMPARVQRIQLVEGRDKK 105

Query: 307 RIEVIVPKEQLSLAIGRRGQNV 328
            + V V      +AIG+ G+NV
Sbjct: 106 IVYVYVDPRDKGIAIGKNGRNV 127



 Score = 43.1 bits (101), Expect = 0.11,   Method: Composition-based stats.
 Identities = 15/42 (35%), Positives = 29/42 (69%)

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +++E++G +  +V  ++L  AIGR+G NV+  S+L G  ++I
Sbjct: 32  IINEELGTVFFVVESDKLGQAIGRKGINVKYLSKLIGKDVEI 73


>gi|229579770|ref|YP_002838169.1| KH type 2 domain protein [Sulfolobus islandicus Y.G.57.14]
 gi|229581561|ref|YP_002839960.1| NusA family KH domain protein [Sulfolobus islandicus Y.N.15.51]
 gi|238620367|ref|YP_002915193.1| KH type 2 domain protein [Sulfolobus islandicus M.16.4]
 gi|284998391|ref|YP_003420159.1| KH, type 2 domain protein [Sulfolobus islandicus L.D.8.5]
 gi|228010485|gb|ACP46247.1| KH type 2 domain protein [Sulfolobus islandicus Y.G.57.14]
 gi|228012277|gb|ACP48038.1| NusA family KH domain protein [Sulfolobus islandicus Y.N.15.51]
 gi|238381437|gb|ACR42525.1| KH type 2 domain protein [Sulfolobus islandicus M.16.4]
 gi|284446287|gb|ADB87789.1| KH, type 2 domain protein [Sulfolobus islandicus L.D.8.5]
          Length = 98

 Score = 58.5 bits (141), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/79 (25%), Positives = 37/79 (46%), Gaps = 3/79 (3%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED--VGRIE 309
           G  +G  G  V+ +   +  + I++V +S +    V N + PA V  V +        + 
Sbjct: 2   GVAIGKSGINVKKLRKII-GKDIELVAYSDNLEELVKNLMSPARVRSVKVVNTSSKKSVY 60

Query: 310 VIVPKEQLSLAIGRRGQNV 328
           + +  +   LAIG+ G+NV
Sbjct: 61  ISIDPQDKGLAIGKNGRNV 79


>gi|323475230|gb|ADX85836.1| KH type 2 domain protein [Sulfolobus islandicus REY15A]
 gi|323477962|gb|ADX83200.1| KH type 2 domain protein [Sulfolobus islandicus HVE10/4]
          Length = 98

 Score = 58.2 bits (140), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/79 (25%), Positives = 37/79 (46%), Gaps = 3/79 (3%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED--VGRIE 309
           G  +G  G  V+ +   +  + I++V +S +    V N + PA V  V +        + 
Sbjct: 2   GVAIGKSGINVKKLRKII-GKDIELVAYSDNLEELVKNLMSPARVRSVKVVNTSSKKSVY 60

Query: 310 VIVPKEQLSLAIGRRGQNV 328
           + +  +   LAIG+ G+NV
Sbjct: 61  INIDPQDKGLAIGKNGRNV 79


>gi|148642966|ref|YP_001273479.1| transcription elongation factor NusA-like protein
           [Methanobrevibacter smithii ATCC 35061]
 gi|148551983|gb|ABQ87111.1| transcription termination factor, NusA [Methanobrevibacter smithii
           ATCC 35061]
          Length = 143

 Score = 58.2 bits (140), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 27/88 (30%), Positives = 39/88 (44%), Gaps = 7/88 (7%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED---VGRI 308
           G  +G  GS V  V     D+ I+IV  S DS  F+ N L PA V  V + +        
Sbjct: 46  GLAIGKGGSTVSKV-QRAVDKGIEIVELSDDSIQFIKNLLSPAEVQGVKVLQKESGEKIA 104

Query: 309 EVIVPKEQLSLAIGRRGQNV---RLASQ 333
            V        +AIG+ G N+   +L ++
Sbjct: 105 TVTADNTNKRIAIGKNGVNIERAKLIAK 132


>gi|14591325|ref|NP_143403.1| transcription elongation factor NusA-like protein [Pyrococcus
           horikoshii OT3]
 gi|3257970|dbj|BAA30653.1| 145aa long hypothetical transcription termination-antitermination
           factor nusA [Pyrococcus horikoshii OT3]
          Length = 145

 Score = 58.2 bits (140), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 25/89 (28%), Positives = 38/89 (42%), Gaps = 8/89 (8%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVIN---ALRPAIVTKVVLDED---V 305
           G  +G RG  V+ V + L  E ID++  S +   F+ N    +    V +V + E     
Sbjct: 46  GLALGKRGINVRRVESLLGKE-IDLIEHSENPEEFIKNIYRTMG-VKVKRVHITEKKDGK 103

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQL 334
               + V       AIGR G N+ +  QL
Sbjct: 104 KVALLDVNPRDKPRAIGRGGHNINIVRQL 132



 Score = 48.1 bits (114), Expect = 0.003,   Method: Composition-based stats.
 Identities = 22/93 (23%), Positives = 45/93 (48%), Gaps = 2/93 (2%)

Query: 280 SPDSATFVI--NALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           + D   ++    +   A V   ++D++  R+  ++ K ++ LA+G+RG NVR    L G 
Sbjct: 6   NTDQIKYIALFESFTGATVLDCLIDQERNRLIYVIKKGEMGLALGKRGINVRRVESLLGK 65

Query: 338 TIDIITEEEDSINRQKDFNERTQFFMQAINVDE 370
            ID+I   E+     K+        ++ +++ E
Sbjct: 66  EIDLIEHSENPEEFIKNIYRTMGVKVKRVHITE 98


>gi|141393|sp|P29157|NUSA_THECE RecName: Full=NusA protein homolog
 gi|48144|emb|CAA47726.1| ORF-X [Thermococcus celer]
 gi|58411|emb|CAA42848.1| unnamed protein product [Thermococcus celer]
          Length = 145

 Score = 57.8 bits (139), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 23/89 (25%), Positives = 41/89 (46%), Gaps = 8/89 (8%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVIN---ALRPAIVTKVVLDED---V 305
           G  +G +G+ V+ V   +  E I+++  S +   F+ N   +L    V +V + E     
Sbjct: 46  GLALGKKGANVKRVQNMIGKE-IEVIEHSENPEEFLRNIYKSLG-VKVKRVHITEKRDGK 103

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQL 334
               + +   +   AIGR GQN+ L  +L
Sbjct: 104 RVALLDIGPREKPRAIGRGGQNINLVKEL 132



 Score = 43.5 bits (102), Expect = 0.086,   Method: Composition-based stats.
 Identities = 18/93 (19%), Positives = 46/93 (49%), Gaps = 2/93 (2%)

Query: 280 SPDSATFVI--NALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           + D   F+    ++  A V   ++D+   R+  ++ K ++ LA+G++G NV+    + G 
Sbjct: 6   NTDQIKFIALFESMTGATVLDCLIDDRRNRLIFVIKKGEMGLALGKKGANVKRVQNMIGK 65

Query: 338 TIDIITEEEDSINRQKDFNERTQFFMQAINVDE 370
            I++I   E+     ++  +     ++ +++ E
Sbjct: 66  EIEVIEHSENPEEFLRNIYKSLGVKVKRVHITE 98


>gi|303244441|ref|ZP_07330776.1| NusA family KH domain protein [Methanothermococcus okinawensis IH1]
 gi|302485139|gb|EFL48068.1| NusA family KH domain protein [Methanothermococcus okinawensis IH1]
          Length = 188

 Score = 57.8 bits (139), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 29/116 (25%), Positives = 51/116 (43%), Gaps = 3/116 (2%)

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEV 310
           +GA +G  G  V+  + +   +KID++ +S D   FV N   P  +  V + +    + V
Sbjct: 43  IGAAIGKGGENVKNAMEKF-GKKIDVIEYSSDLKKFVRNVFAPLKLEDVWIKKFGDDVVV 101

Query: 311 I--VPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQ 364
              V  +     IG RG+N+  A  + G   DI   +  S  R+    +  + F +
Sbjct: 102 YIRVHPKLRRTIIGNRGKNIDRAVNIVGRLSDIKNIKVVSEPRKNPKGKYHKKFEK 157


>gi|219852753|ref|YP_002467185.1| NusA family KH domain protein [Methanosphaerula palustris E1-9c]
 gi|219547012|gb|ACL17462.1| NusA family KH domain protein [Methanosphaerula palustris E1-9c]
          Length = 148

 Score = 57.8 bits (139), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 28/98 (28%), Positives = 50/98 (51%), Gaps = 5/98 (5%)

Query: 248 IDP--VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           I+P  +G  +G +G+ ++     +  ++I++V +S D   F+ N   PA V  V  +E  
Sbjct: 41  INPGEMGLAIGKKGASIKKASD-VMGKRIEVVEYSDDPEQFIKNCFLPAQVVSVEFEESE 99

Query: 306 G--RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
                 V V +E   +AIG+ G+N+  A +L+    DI
Sbjct: 100 EGPVAHVEVREEDRGIAIGKEGKNIFKAKRLSQRQHDI 137



 Score = 38.9 bits (90), Expect = 2.1,   Method: Composition-based stats.
 Identities = 15/54 (27%), Positives = 31/54 (57%)

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
           V+D+   RI  ++   ++ LAIG++G +++ AS + G  I+++   +D     K
Sbjct: 29  VIDDRNERIIYVINPGEMGLAIGKKGASIKKASDVMGKRIEVVEYSDDPEQFIK 82


>gi|332157771|ref|YP_004423050.1| transcription elongation factor NusA-like protein [Pyrococcus sp.
           NA2]
 gi|331033234|gb|AEC51046.1| transcription elongation factor NusA-like protein [Pyrococcus sp.
           NA2]
          Length = 145

 Score = 57.8 bits (139), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 25/88 (28%), Positives = 37/88 (42%), Gaps = 6/88 (6%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP--AIVTKVVLDED---VG 306
           G  +G RG  V+ V   +  E ID+V  S +   F+ N  +     V +V + E      
Sbjct: 46  GLALGKRGINVRRVENLIGKE-IDLVEHSDNPEEFIKNIYKTMGVKVKRVHITEKKDGKK 104

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQL 334
              + V       AIGR G N+ +  QL
Sbjct: 105 VALLDVNPRDKPRAIGRGGHNINIVKQL 132



 Score = 45.8 bits (108), Expect = 0.016,   Method: Composition-based stats.
 Identities = 20/93 (21%), Positives = 46/93 (49%), Gaps = 2/93 (2%)

Query: 280 SPDSATFVI--NALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           + D   ++    +   A V   ++D++  R+  ++ K ++ LA+G+RG NVR    L G 
Sbjct: 6   NTDQIKYIALFESFTGATVLDCLIDQERNRLIYVIKKGEMGLALGKRGINVRRVENLIGK 65

Query: 338 TIDIITEEEDSINRQKDFNERTQFFMQAINVDE 370
            ID++   ++     K+  +     ++ +++ E
Sbjct: 66  EIDLVEHSDNPEEFIKNIYKTMGVKVKRVHITE 98


>gi|315425376|dbj|BAJ47042.1| N utilization substance protein A [Candidatus Caldiarchaeum
           subterraneum]
 gi|315426557|dbj|BAJ48187.1| N utilization substance protein A [Candidatus Caldiarchaeum
           subterraneum]
 gi|315426615|dbj|BAJ48243.1| N utilization substance protein A [Candidatus Caldiarchaeum
           subterraneum]
          Length = 144

 Score = 57.4 bits (138), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 29/97 (29%), Positives = 49/97 (50%), Gaps = 6/97 (6%)

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK-VVLDED--- 304
           D   A +G  G++++ +V   R  +I +V +S D++ F+ N L PA V + V + E    
Sbjct: 44  DLKKALMGH-GAKIKELVRIFRK-RIKVVEYSTDASVFIKNLLYPAEVIEPVRVAEKPDG 101

Query: 305 VGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
              + V V      +AIG+ G+N+ LA  L     +I
Sbjct: 102 KKIMVVNVNPRDKGVAIGKDGKNINLARLLVKRHFNI 138


>gi|15897168|ref|NP_341773.1| transcription elongation factor NusA [Sulfolobus solfataricus P2]
 gi|13813357|gb|AAK40563.1| Transcription termination factor nusA homolog, putative (nusA)
           [Sulfolobus solfataricus P2]
          Length = 124

 Score = 57.4 bits (138), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 20/79 (25%), Positives = 38/79 (48%), Gaps = 3/79 (3%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED--VGRIE 309
           G  +G  G  V+ +  ++  + I++V +S +    V N + PA V  V +        + 
Sbjct: 28  GVAIGKSGINVKKL-KKIIGKDIELVAYSDNLEELVKNLMSPARVRSVKVVNTSSKKSVY 86

Query: 310 VIVPKEQLSLAIGRRGQNV 328
           + +  +   LAIG+ G+NV
Sbjct: 87  INIDPQDKGLAIGKNGRNV 105



 Score = 40.0 bits (93), Expect = 0.83,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 31/60 (51%)

Query: 294 AIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
           A V   ++D +  RI  +V  + + +AIG+ G NV+   ++ G  I+++   ++     K
Sbjct: 4   ANVRDCIIDNENNRIIFLVDSKDMGVAIGKSGINVKKLKKIIGKDIELVAYSDNLEELVK 63


>gi|119719200|ref|YP_919695.1| NusA family protein [Thermofilum pendens Hrk 5]
 gi|119524320|gb|ABL77692.1| NusA family KH domain protein [Thermofilum pendens Hrk 5]
          Length = 149

 Score = 57.4 bits (138), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 30/82 (36%), Positives = 46/82 (56%), Gaps = 3/82 (3%)

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEV--IV 312
           VG  GS+++ +  EL  + +++V        FV +   PA V +V + E+  R  V  +V
Sbjct: 53  VGKNGSKIRMI-KELLRKDVEVVEDGSSLEDFVKSVFFPARVVEVKVREENNRKVVIAVV 111

Query: 313 PKEQLSLAIGRRGQNVRLASQL 334
           P +QL LAIGR G+NV+ A  L
Sbjct: 112 PPDQLGLAIGRNGRNVQRAKIL 133


>gi|288931143|ref|YP_003435203.1| NusA family KH domain protein [Ferroglobus placidus DSM 10642]
 gi|288893391|gb|ADC64928.1| NusA family KH domain protein [Ferroglobus placidus DSM 10642]
          Length = 139

 Score = 57.4 bits (138), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 25/91 (27%), Positives = 41/91 (45%), Gaps = 2/91 (2%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE-DVGRIEV 310
           G  +G  G  V+    E+  +KI+IV  S D   F+ N  +P  V   ++++       V
Sbjct: 44  GLAIGKGGINVEK-AKEIIGKKIEIVEHSEDPEEFIKNIFKPINVRVKIINKGGKKVAHV 102

Query: 311 IVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             P +     IG+ G+N+  A +L     DI
Sbjct: 103 YAPLQYKGFVIGKGGKNINKAKELVRRHHDI 133



 Score = 38.9 bits (90), Expect = 2.4,   Method: Composition-based stats.
 Identities = 21/78 (26%), Positives = 38/78 (48%), Gaps = 2/78 (2%)

Query: 290 ALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           +L  A V   ++     ++ ++V K  + LAIG+ G NV  A ++ G  I+I+   ED  
Sbjct: 18  SLTGANVKDCLI--YDDKVVLVVRKGDMGLAIGKGGINVEKAKEIIGKKIEIVEHSEDPE 75

Query: 350 NRQKDFNERTQFFMQAIN 367
              K+  +     ++ IN
Sbjct: 76  EFIKNIFKPINVRVKIIN 93


>gi|284174414|ref|ZP_06388383.1| transcription elongation factor NusA [Sulfolobus solfataricus 98/2]
          Length = 119

 Score = 57.4 bits (138), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 20/79 (25%), Positives = 38/79 (48%), Gaps = 3/79 (3%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED--VGRIE 309
           G  +G  G  V+ +  ++  + I++V +S +    V N + PA V  V +        + 
Sbjct: 23  GVAIGKSGINVKKL-KKIIGKDIELVAYSDNLEELVKNLMSPARVRSVKVVNTSSKKSVY 81

Query: 310 VIVPKEQLSLAIGRRGQNV 328
           + +  +   LAIG+ G+NV
Sbjct: 82  INIDPQDKGLAIGKNGRNV 100



 Score = 37.4 bits (86), Expect = 5.7,   Method: Composition-based stats.
 Identities = 13/54 (24%), Positives = 29/54 (53%)

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
           ++D +  RI  +V  + + +AIG+ G NV+   ++ G  I+++   ++     K
Sbjct: 5   IIDNENNRIIFLVDSKDMGVAIGKSGINVKKLKKIIGKDIELVAYSDNLEELVK 58


>gi|170291133|ref|YP_001737949.1| NusA family protein [Candidatus Korarchaeum cryptofilum OPF8]
 gi|170175213|gb|ACB08266.1| NusA family KH domain protein [Candidatus Korarchaeum cryptofilum
           OPF8]
          Length = 158

 Score = 57.0 bits (137), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 29/98 (29%), Positives = 45/98 (45%), Gaps = 11/98 (11%)

Query: 252 GACVGMRGSRVQAVVTELRDE---KIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG-- 306
           G  VG  G +++A+   L+ +    I++V +      F+ N L PA V KV +       
Sbjct: 50  GRAVGRGGRKLKAMKRFLKGDLDYDIEVVEFDDSPEGFIANLLSPARVQKVKIVHQDDGI 109

Query: 307 RIEVIVPKEQLSLAIGRRGQNVR----LASQLTGWTID 340
                V  E  SLAIGR G+ ++    LA +   + ID
Sbjct: 110 TAIAYVLDEDKSLAIGRNGRRIKRTRLLAKRW--YDID 145


>gi|261601835|gb|ACX91438.1| NusA family KH domain protein [Sulfolobus solfataricus 98/2]
          Length = 143

 Score = 57.0 bits (137), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 20/79 (25%), Positives = 38/79 (48%), Gaps = 3/79 (3%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED--VGRIE 309
           G  +G  G  V+ +  ++  + I++V +S +    V N + PA V  V +        + 
Sbjct: 47  GVAIGKSGINVKKL-KKIIGKDIELVAYSDNLEELVKNLMSPARVRSVKVVNTSSKKSVY 105

Query: 310 VIVPKEQLSLAIGRRGQNV 328
           + +  +   LAIG+ G+NV
Sbjct: 106 INIDPQDKGLAIGKNGRNV 124



 Score = 40.0 bits (93), Expect = 1.0,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 31/60 (51%)

Query: 294 AIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
           A V   ++D +  RI  +V  + + +AIG+ G NV+   ++ G  I+++   ++     K
Sbjct: 23  ANVRDCIIDNENNRIIFLVDSKDMGVAIGKSGINVKKLKKIIGKDIELVAYSDNLEELVK 82


>gi|332796428|ref|YP_004457928.1| transcription elongation factor NusA-like protein [Acidianus
           hospitalis W1]
 gi|332694163|gb|AEE93630.1| transcription elongation factor NusA-like protein [Acidianus
           hospitalis W1]
          Length = 130

 Score = 57.0 bits (137), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 30/57 (52%), Gaps = 2/57 (3%)

Query: 274 IDIVVWSPDSATFVINALRPAIVTKVVL--DEDVGRIEVIVPKEQLSLAIGRRGQNV 328
           I+IV +S +    V N + PA V  V +  ++    + + V  +   +AIG+ G+NV
Sbjct: 55  IEIVAYSDNLEDMVKNLMSPARVRSVKVIDNDSKKTVYITVDPQDKGIAIGKSGKNV 111


>gi|300712254|ref|YP_003738068.1| transcription elongation factor NusA-like protein [Halalkalicoccus
           jeotgali B3]
 gi|299125937|gb|ADJ16276.1| transcription elongation factor NusA-like protein [Halalkalicoccus
           jeotgali B3]
          Length = 139

 Score = 56.6 bits (136), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 27/96 (28%), Positives = 43/96 (44%), Gaps = 2/96 (2%)

Query: 247 SIDPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG 306
           S+  +G  +G  G  V  +   L    +D+V  +     FV NAL PA V  V + E+  
Sbjct: 39  SVGEMGQAIGPGGKTVSRLEERLNA-TVDLVEDADTPEAFVANALSPAAVYHVTISENDT 97

Query: 307 RIEVI-VPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            +    V ++   +AIG  G+N+  A  L     D+
Sbjct: 98  LVAYAEVAEDDRGVAIGTGGKNIETARTLAKRHFDL 133


>gi|240103979|ref|YP_002960288.1| transcription elongation factor NusA-like protein [Thermococcus
           gammatolerans EJ3]
 gi|239911533|gb|ACS34424.1| Transcription termination-antitermination factor, NusA-like protein
           (nusA) [Thermococcus gammatolerans EJ3]
          Length = 145

 Score = 56.6 bits (136), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 23/89 (25%), Positives = 41/89 (46%), Gaps = 8/89 (8%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVIN---ALRPAIVTKVVLDED---V 305
           G  +G +G+ V+ V   +  + I+++  S +   F+ N   +L    V K+ + E     
Sbjct: 46  GLALGKKGANVKRVQN-MIGKDIELIEHSENPEEFLRNIYKSLG-VKVKKIHITEKRDGK 103

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQL 334
               + +   +   AIGR GQN+ L  QL
Sbjct: 104 KVALLDISPREKPRAIGRGGQNINLVKQL 132



 Score = 42.0 bits (98), Expect = 0.26,   Method: Composition-based stats.
 Identities = 18/93 (19%), Positives = 46/93 (49%), Gaps = 2/93 (2%)

Query: 280 SPDSATFVI--NALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           + D   ++    ++  A V   ++D +  R+  ++ K ++ LA+G++G NV+    + G 
Sbjct: 6   NTDQIKYIALFESMTGATVLDCLIDANRNRLIFVIKKGEMGLALGKKGANVKRVQNMIGK 65

Query: 338 TIDIITEEEDSINRQKDFNERTQFFMQAINVDE 370
            I++I   E+     ++  +     ++ I++ E
Sbjct: 66  DIELIEHSENPEEFLRNIYKSLGVKVKKIHITE 98


>gi|34558836|gb|AAQ75180.1| 30S ribosomal protein S1 [Alvinella pompejana epibiont 7G3]
          Length = 556

 Score = 56.2 bits (135), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 45/218 (20%), Positives = 91/218 (41%), Gaps = 29/218 (13%)

Query: 21  SIDRDVV-LSVMADSIQKAARSLYGTMSDIR---VEINPETGDISLFRLLEVVEEVENYT 76
            I+ + V    M   ++++ +        +    V+IN     +       VV+      
Sbjct: 7   DIEVEDVDFEAM---LEESFKKRDTNNDLVEGTIVKINEAENQV-------VVDIGRKNE 56

Query: 77  CQISLKVARDRDPSI--DIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
             +SL   RD D +I  +IG  +   +   +  RV++      + +K R A  +    E+
Sbjct: 57  AIMSLDQIRDEDGNIMFNIGDTIPVVITKRNGERVSISY---ELAEK-RIALSEFI-DEY 111

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRR--DETISRENLRPGDRVKSYIYDVRRE 192
            D+   I+ G + R   G  +VD+   +  + +       + N   G RVK+ I  V ++
Sbjct: 112 DDEEEYIVEGVIVRKNRGGFVVDVSGLEFFMPKTLSYISPKINP-IGKRVKALIVKVDKD 170

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVS 230
           ++   V++SR     +++    E+ EI + ++  KAV 
Sbjct: 171 KQ--SVIVSRKD---LIEREKKEIQEIVDKLLTDKAVV 203


>gi|121535824|ref|ZP_01667624.1| hydroxymethylbutenyl pyrophosphate reductase [Thermosinus
           carboxydivorans Nor1]
 gi|121305596|gb|EAX46538.1| hydroxymethylbutenyl pyrophosphate reductase [Thermosinus
           carboxydivorans Nor1]
          Length = 655

 Score = 55.8 bits (134), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 31/105 (29%), Positives = 51/105 (48%), Gaps = 11/105 (10%)

Query: 109 VAVQSAKQVII---QKVREAERDRQYLEFKDK--VGEIISGTVKRVEYGNVIVDLGNSDG 163
           + +  AKQ I+   +KV E E+ R+  E   +   G+I++GTV R+    V VDLG  DG
Sbjct: 428 IEIDQAKQKIVLSRRKVLEQEQQRRAEELFSRLAEGQIVTGTVSRIADFGVFVDLGGVDG 487

Query: 164 VIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
           +I   +          E +  GD V+ ++  V  + +   + L R
Sbjct: 488 LIHISDLSWHRVKNPTEVVNIGDEVQVFVQKVDPKAKRISLSLKR 532


>gi|159040907|ref|YP_001540159.1| transcription elongation factor NusA-like protein [Caldivirga
           maquilingensis IC-167]
 gi|157919742|gb|ABW01169.1| NusA family KH domain protein [Caldivirga maquilingensis IC-167]
          Length = 148

 Score = 55.8 bits (134), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 22/90 (24%), Positives = 43/90 (47%), Gaps = 4/90 (4%)

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD---EDVGRIEVI 311
           VG  G  V+ +   L  + ++IV +  D    + NAL PA V  + ++    +     + 
Sbjct: 54  VGKGGINVKKL-KNLLGKDVEIVEYGDDPEELLRNALYPAKVVNITINKLPNNGKVAIIR 112

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           V + +  +A+G+  +N++ A+ L     DI
Sbjct: 113 VEEGEKGIALGKYHRNLKRAALLAKRYFDI 142


>gi|124485200|ref|YP_001029816.1| aminotransferase, class I and II [Methanocorpusculum labreanum Z]
 gi|124362741|gb|ABN06549.1| NusA family KH domain protein [Methanocorpusculum labreanum Z]
          Length = 157

 Score = 55.8 bits (134), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 28/104 (26%), Positives = 48/104 (46%), Gaps = 7/104 (6%)

Query: 248 IDP--VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV 305
           I+P  +G  +G +G+ ++        +K+++V ++PD   F+ N   P  V  V  +ED 
Sbjct: 41  INPGEMGLAIGKKGASIKKASDAF-GKKVEVVEYNPDKVQFIRNCFLPVHVQTVTFEEDE 99

Query: 306 GR----IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEE 345
                   + V      LAIG+ G+N+  A +L     DI   E
Sbjct: 100 EENTEVAYIEVADTDRGLAIGKEGRNIIKAKKLAFRQFDIANVE 143


>gi|294670566|ref|ZP_06735445.1| hypothetical protein NEIELOOT_02288 [Neisseria elongata subsp.
          glycolytica ATCC 29315]
 gi|291307691|gb|EFE48934.1| hypothetical protein NEIELOOT_02288 [Neisseria elongata subsp.
          glycolytica ATCC 29315]
          Length = 63

 Score = 55.8 bits (134), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/35 (40%), Positives = 24/35 (68%)

Query: 8  ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL 42
          E+LQ+A+A+A EK++D DVV   +  ++  AA+  
Sbjct: 4  EMLQLAEALASEKNVDTDVVFDALEFALSTAAKKK 38


>gi|242398383|ref|YP_002993807.1| NusA like protein [Thermococcus sibiricus MM 739]
 gi|242264776|gb|ACS89458.1| NusA like protein [Thermococcus sibiricus MM 739]
          Length = 145

 Score = 55.5 bits (133), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 24/88 (27%), Positives = 40/88 (45%), Gaps = 6/88 (6%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRP--AIVTKVVLDEDV---G 306
           G  +G RGS V+ V   +  + I+++  S +   F+ N  +     V KV + E      
Sbjct: 46  GLALGKRGSNVKRV-QSMIGKDIELIEHSENPEEFIKNIYKTMGVRVKKVHITEKKNGKK 104

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQL 334
              + V +     AIG+ GQN+ L  +L
Sbjct: 105 VALLDVNQRDKPRAIGKGGQNINLVKEL 132



 Score = 44.3 bits (104), Expect = 0.056,   Method: Composition-based stats.
 Identities = 20/93 (21%), Positives = 45/93 (48%), Gaps = 2/93 (2%)

Query: 280 SPDSATFVI--NALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           + D   ++    +L  A V   ++D    R+ ++V   ++ LA+G+RG NV+    + G 
Sbjct: 6   NTDQIKYIALFESLTGATVLDCLIDTIKNRLVIVVKNGEMGLALGKRGSNVKRVQSMIGK 65

Query: 338 TIDIITEEEDSINRQKDFNERTQFFMQAINVDE 370
            I++I   E+     K+  +     ++ +++ E
Sbjct: 66  DIELIEHSENPEEFIKNIYKTMGVRVKKVHITE 98


>gi|332203718|gb|EGJ17785.1| nusA N-terminal domain protein [Streptococcus pneumoniae GA47368]
          Length = 76

 Score = 55.1 bits (132), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 10/51 (19%), Positives = 26/51 (50%)

Query: 6  RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPE 56
            E+L+    +  +K I ++ ++  + +S++ A R  YG    + ++ N +
Sbjct: 2  SKEMLEAFRILEEDKGIKKEDIIDAVVESLRSAYRRRYGQSDSVAIDFNEK 52


>gi|312972558|ref|ZP_07786731.1| transcription elongation nusA domain protein [Escherichia coli
          1827-70]
 gi|310332500|gb|EFP99713.1| transcription elongation nusA domain protein [Escherichia coli
          1827-70]
 gi|323173570|gb|EFZ59199.1| transcription elongation protein nusA domain protein [Escherichia
          coli LT-68]
          Length = 62

 Score = 54.7 bits (131), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 8/37 (21%), Positives = 20/37 (54%)

Query: 6  RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL 42
            E+L + +AV+ EK++ R+ +   +  ++  A +  
Sbjct: 2  NKEILAVVEAVSNEKALPREKIFEALESALATATKKN 38


>gi|333000299|gb|EGK19882.1| transcription elongation protein nusA domain protein [Shigella
          flexneri K-218]
          Length = 62

 Score = 54.7 bits (131), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 8/37 (21%), Positives = 20/37 (54%)

Query: 6  RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL 42
            E+L + +AV+ EK++ R+ +   +  ++  A +  
Sbjct: 2  NKEILAVVEAVSNEKALPREKIFEALESALATATKKN 38


>gi|88602084|ref|YP_502262.1| NusA family protein [Methanospirillum hungatei JF-1]
 gi|88187546|gb|ABD40543.1| NusA family KH domain protein [Methanospirillum hungatei JF-1]
          Length = 147

 Score = 54.7 bits (131), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 23/103 (22%), Positives = 49/103 (47%), Gaps = 7/103 (6%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI 311
           G  +G +G  ++ +   +   K+++V ++ D   F+ N  +PA V +   D+   ++ + 
Sbjct: 46  GYAIGKKGDNIRRL-QGVTGRKVEMVEYAEDLQEFLSNIFKPAQVIRFACDDQTKKMNIY 104

Query: 312 VPK-EQLSLAIGRRGQNVRLASQLT----GWTI-DIITEEEDS 348
           V     + +AIG+ G  +  A  L     G+ I ++  EE  +
Sbjct: 105 VSDKNDVGIAIGKGGCTIEKARILIRRFHGYEIGEVFPEESAA 147


>gi|76800714|ref|YP_325722.1| transcription elongation factor NusA-like protein [Natronomonas
           pharaonis DSM 2160]
 gi|76556579|emb|CAI48150.1| transcription elongation factor nusA [Natronomonas pharaonis DSM
           2160]
          Length = 141

 Score = 54.7 bits (131), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 27/91 (29%), Positives = 44/91 (48%), Gaps = 2/91 (2%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI 311
           G  +G  G  V  V +++    + ++  +  +A FV NAL PA V  V + E+   +   
Sbjct: 46  GQAIGPGGDHVATVESKV-GRDVTVIEGAETAADFVANALAPAAVYNVTISENDTTVAYA 104

Query: 312 -VPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            V +    +AIG  G+N+ LA +L     DI
Sbjct: 105 EVDENDRGVAIGADGRNIDLARRLADRHFDI 135


>gi|126179721|ref|YP_001047686.1| NusA family protein [Methanoculleus marisnigri JR1]
 gi|125862515|gb|ABN57704.1| NusA family KH domain protein [Methanoculleus marisnigri JR1]
          Length = 146

 Score = 54.3 bits (130), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 22/74 (29%), Positives = 40/74 (54%), Gaps = 2/74 (2%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI 311
           G  +G +GS ++  +  +  ++I++V +SP    F  N  +PA V  V    D G++ V 
Sbjct: 46  GLAIGRKGSNIRK-MQRVLGKRIEMVEYSPQIEQFAKNVFKPADVVGVA-KGDNGKLAVY 103

Query: 312 VPKEQLSLAIGRRG 325
           + +  L +AIG+ G
Sbjct: 104 INQNDLGIAIGKGG 117



 Score = 37.0 bits (85), Expect = 9.1,   Method: Composition-based stats.
 Identities = 15/48 (31%), Positives = 27/48 (56%)

Query: 294 AIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           A     ++DE   RI  ++ +  + LAIGR+G N+R   ++ G  I++
Sbjct: 22  ATALDCIIDERFDRIVYLIKEGDMGLAIGRKGSNIRKMQRVLGKRIEM 69


>gi|124028423|ref|YP_001013743.1| putative transcription elongation factor [Hyperthermus butylicus
           DSM 5456]
 gi|123979117|gb|ABM81398.1| putative transcription elongation factor [Hyperthermus butylicus
           DSM 5456]
          Length = 143

 Score = 54.3 bits (130), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 24/82 (29%), Positives = 38/82 (46%), Gaps = 3/82 (3%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR--IE 309
           G  +G RG+ +  +   L  E I+++  + D    V N   PA V  + L +  GR  + 
Sbjct: 47  GKAIGRRGANINKLRRLLGKE-IEVIEHADDLEAMVKNIFAPARVLGIRLAQRNGRKILY 105

Query: 310 VIVPKEQLSLAIGRRGQNVRLA 331
           V V       AIG+ G+ V +A
Sbjct: 106 VTVDPNDKGRAIGKGGRKVNIA 127



 Score = 39.7 bits (92), Expect = 1.3,   Method: Composition-based stats.
 Identities = 20/65 (30%), Positives = 30/65 (46%)

Query: 291 LRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
           L  A+    ++D +  RI  IV       AIGRRG N+    +L G  I++I   +D   
Sbjct: 20  LTGAVARDCIIDNENNRIIFIVRPGDAGKAIGRRGANINKLRRLLGKEIEVIEHADDLEA 79

Query: 351 RQKDF 355
             K+ 
Sbjct: 80  MVKNI 84


>gi|18977932|ref|NP_579289.1| transcription elongation factor NusA-like protein [Pyrococcus
           furiosus DSM 3638]
 gi|18893702|gb|AAL81684.1| transcription termination-antitermination factor nusa [Pyrococcus
           furiosus DSM 3638]
          Length = 145

 Score = 54.3 bits (130), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 24/89 (26%), Positives = 38/89 (42%), Gaps = 8/89 (8%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVIN---ALRPAIVTKVVLDED---V 305
           G  +G  G  V+ +   L  ++ID+V  S +   F+ N    +    V KV + E     
Sbjct: 46  GLALGRGGINVRRI-EGLIGKEIDLVEHSENPEEFIKNIYRTMG-VKVKKVHITEKRDGK 103

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQL 334
               + V       AIGR G+N+ +  QL
Sbjct: 104 KVALLDVNPRDKPRAIGRGGRNINIVKQL 132



 Score = 45.4 bits (107), Expect = 0.022,   Method: Composition-based stats.
 Identities = 20/93 (21%), Positives = 44/93 (47%), Gaps = 2/93 (2%)

Query: 280 SPDSATFVI--NALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
           + D   ++    +   A V   ++D++  ++  ++ K ++ LA+GR G NVR    L G 
Sbjct: 6   TTDQIKYIALFESFTGATVLDCLIDQERNKLIYVIKKGEMGLALGRGGINVRRIEGLIGK 65

Query: 338 TIDIITEEEDSINRQKDFNERTQFFMQAINVDE 370
            ID++   E+     K+        ++ +++ E
Sbjct: 66  EIDLVEHSENPEEFIKNIYRTMGVKVKKVHITE 98


>gi|15791386|ref|NP_281210.1| transcription elongation factor NusA-like protein [Halobacterium
           sp. NRC-1]
 gi|169237147|ref|YP_001690347.1| transcription elongation factor NusA-like protein [Halobacterium
           salinarum R1]
 gi|139955|sp|P15739|NUSA_HALSA RecName: Full=NusA protein homolog
 gi|43544|emb|CAA40428.1| ORF 139 [Halobacterium salinarum]
 gi|10582041|gb|AAG20690.1| transcription termination-antitermination factor [Halobacterium sp.
           NRC-1]
 gi|167728213|emb|CAP15001.1| putative transcription termination factor nusA [Halobacterium
           salinarum R1]
          Length = 139

 Score = 54.3 bits (130), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 32/91 (35%), Positives = 44/91 (48%), Gaps = 2/91 (2%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI 311
           GA +G  GSRV A+   L    + +V  +P +  FV NAL PA V  V + E+   +   
Sbjct: 44  GAAIGDGGSRVDALEATLGRSVV-LVEDAPTAEGFVANALSPAAVYNVTVSENDTTVAYA 102

Query: 312 -VPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            V  E   +AIG  G N+  A +L     DI
Sbjct: 103 EVAHEDKGVAIGADGTNIETAKELAARHFDI 133


>gi|146302822|ref|YP_001190138.1| transcription elongation factor NusA-like protein [Metallosphaera
           sedula DSM 5348]
 gi|145701072|gb|ABP94214.1| NusA family KH domain protein [Metallosphaera sedula DSM 5348]
          Length = 143

 Score = 53.9 bits (129), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 33/70 (47%), Gaps = 2/70 (2%)

Query: 276 IVVWSPDSATFVINALRPAIVTKVVLDEDV--GRIEVIVPKEQLSLAIGRRGQNVRLASQ 333
           +V +S +    + N + PA V  V   +      + V V  +  ++AIG+ G+NV  A  
Sbjct: 70  VVAYSENLEDLIKNLMSPARVKSVKTIDSNSRKTVHVTVDPQDKAIAIGKAGRNVSRAKI 129

Query: 334 LTGWTIDIIT 343
           +    +DI +
Sbjct: 130 ILKRYMDIDS 139


>gi|313888064|ref|ZP_07821742.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Peptoniphilus
           harei ACS-146-V-Sch2b]
 gi|312846019|gb|EFR33402.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Peptoniphilus
           harei ACS-146-V-Sch2b]
          Length = 696

 Score = 53.9 bits (129), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 30/108 (27%), Positives = 51/108 (47%), Gaps = 8/108 (7%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG 152
           IG      +   D  +  +  +++ ++QK  +  RD  Y + K   G+II GTV+R+   
Sbjct: 421 IGEEFETEIIDFDKRKRRIVLSRKNVLQKELDKVRDEVYDKLK--EGDIIEGTVQRLTNF 478

Query: 153 NVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
              VD+G  DG+I   E          + + PGD VK  + +V +E+ 
Sbjct: 479 GAFVDVGGVDGLIHISELSWNRVKHPSDVVAPGDVVKVQVLNVDKEKN 526



 Score = 38.9 bits (90), Expect = 2.4,   Method: Composition-based stats.
 Identities = 22/82 (26%), Positives = 37/82 (45%), Gaps = 10/82 (12%)

Query: 128 DRQYLEFKD-KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDET------ISRENLRPG 179
           +     FK  + GE+++G V  +    V+V+LG  SDG+I RDE         ++    G
Sbjct: 279 EAIENSFKRIRRGEVVTGEVLYITDSEVMVNLGYRSDGIISRDELAGGPDVNPQDLYEQG 338

Query: 180 DRVKSYIYDVRREQRGPQVLLS 201
             +  Y+  +        V+LS
Sbjct: 339 QEIDVYVLKMDDGDGN--VVLS 358


>gi|110669266|ref|YP_659077.1| transcription elongation factor NusA-like protein [Haloquadratum
           walsbyi DSM 16790]
 gi|109627013|emb|CAJ53489.1| transcription elongation factor nusA [Haloquadratum walsbyi DSM
           16790]
          Length = 140

 Score = 53.9 bits (129), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 28/93 (30%), Positives = 44/93 (47%), Gaps = 5/93 (5%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED--VGRIE 309
           G  +G  G  V+AV  ++    +++V  +  +  FV NAL PA V  V + E        
Sbjct: 44  GTAIGPGGKHVRAVEDDI-GTTVELVEDAETARAFVENALAPAAVRHVTISEQGGECVAY 102

Query: 310 VIVPKEQLSLAIGRRGQNVRLASQLT--GWTID 340
           V +P     +AIG  G+N+  A +L    + ID
Sbjct: 103 VEIPDPDRGIAIGADGKNIHTARKLVRRHYEID 135


>gi|154151612|ref|YP_001405230.1| NusA family protein [Candidatus Methanoregula boonei 6A8]
 gi|154000164|gb|ABS56587.1| NusA family KH domain protein [Methanoregula boonei 6A8]
          Length = 147

 Score = 53.5 bits (128), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 2/78 (2%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI 311
           G  +G +G  ++ +   L   +I++V ++ D   F+ N  +PA V  +    + G + V+
Sbjct: 46  GLAIGKKGENIKRLQNVL-GRRIEMVEYAEDPVLFITNIFKPAEVIGIERGAEEGPVNVL 104

Query: 312 V-PKEQLSLAIGRRGQNV 328
           V  K  L +AIG+ G N+
Sbjct: 105 VNKKSDLGIAIGKAGCNI 122


>gi|322369997|ref|ZP_08044559.1| transcription elongation factor NusA-like protein [Haladaptatus
           paucihalophilus DX253]
 gi|320550333|gb|EFW91985.1| transcription elongation factor NusA-like protein [Haladaptatus
           paucihalophilus DX253]
          Length = 142

 Score = 53.5 bits (128), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 26/91 (28%), Positives = 46/91 (50%), Gaps = 2/91 (2%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI 311
           G  +G  G  V++V  +L  + +++V  + +   FV+NAL PA V  V + E+   +   
Sbjct: 47  GQAIGPGGKHVRSVEEQLGAD-VELVEDADEPDRFVVNALAPAEVRHVTISENDDTVAYA 105

Query: 312 -VPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
            V ++   +AIG  G+N+  A  L     D+
Sbjct: 106 EVAQQDTGVAIGTDGRNIEAAKLLVSRHFDV 136


>gi|55379093|ref|YP_136943.1| transcription elongation factor NusA-like protein [Haloarcula
           marismortui ATCC 43049]
 gi|55231818|gb|AAV47237.1| transcription termination factor NusA [Haloarcula marismortui ATCC
           43049]
          Length = 141

 Score = 53.5 bits (128), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 30/88 (34%), Positives = 42/88 (47%), Gaps = 2/88 (2%)

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR-IEVIVP 313
           +G  G  V+ V   L  E + +V  +  +  FV NAL PA V  V + E+      V V 
Sbjct: 49  IGPGGQTVERVEERLGRE-VKLVEAAETAEDFVANALAPAAVYNVTVSENDDTVAYVEVA 107

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +E    AIGR G+N+  A QL     +I
Sbjct: 108 QEDRGAAIGREGRNIDAARQLAKRHFEI 135


>gi|327311712|ref|YP_004338609.1| transcription elongation factor NusA-like protein [Thermoproteus
           uzoniensis 768-20]
 gi|326948191|gb|AEA13297.1| transcription elongation factor NusA-like protein [Thermoproteus
           uzoniensis 768-20]
          Length = 144

 Score = 53.1 bits (127), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/77 (24%), Positives = 35/77 (45%), Gaps = 4/77 (5%)

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED---VGRIEVI 311
           VG  G+ V+ +   +    +++V ++      + N+L PA V  V + +           
Sbjct: 50  VGKGGNNVRMLRQII-GRDVEVVEYAETPEELIKNSLYPARVIAVKVTKSPSGNLVAITT 108

Query: 312 VPKEQLSLAIGRRGQNV 328
           V  E   LAIG+ G+N+
Sbjct: 109 VVPEDKGLAIGKNGRNI 125



 Score = 41.6 bits (97), Expect = 0.34,   Method: Composition-based stats.
 Identities = 20/64 (31%), Positives = 33/64 (51%)

Query: 290 ALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSI 349
           ++       VV+D D  RI  +V K Q +LA+G+ G NVR+  Q+ G  ++++   E   
Sbjct: 19  SMTGVTPLDVVVDSDYNRIIFVVGKNQAALAVGKGGNNVRMLRQIIGRDVEVVEYAETPE 78

Query: 350 NRQK 353
              K
Sbjct: 79  ELIK 82


>gi|229829150|ref|ZP_04455219.1| hypothetical protein GCWU000342_01235 [Shuttleworthia satelles DSM
           14600]
 gi|229792313|gb|EEP28427.1| hypothetical protein GCWU000342_01235 [Shuttleworthia satelles DSM
           14600]
          Length = 368

 Score = 52.8 bits (126), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 28/123 (22%), Positives = 56/123 (45%), Gaps = 12/123 (9%)

Query: 86  DRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGT 145
           +RD +  +G  +   +   +  R  +   +++I+ + +   +     + K  VG+II GT
Sbjct: 140 ERDLNKYLGQEIEFKITEFNPRRRRIIGNRKMILVERKSEIQKDLLEKLK--VGDIIEGT 197

Query: 146 VKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVL 199
           +K +      VDLG  DG++   E         R+     D+V+ +I ++     G ++ 
Sbjct: 198 IKNITDFGAFVDLGGIDGLLHISEMSWGRVENPRKVFNVDDKVRVFIKEI----NGTKIA 253

Query: 200 LSR 202
           LSR
Sbjct: 254 LSR 256


>gi|330833904|ref|YP_004408632.1| transcription elongation factor NusA-like protein [Metallosphaera
           cuprina Ar-4]
 gi|329566043|gb|AEB94148.1| transcription elongation factor NusA-like protein [Metallosphaera
           cuprina Ar-4]
          Length = 143

 Score = 52.8 bits (126), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 33/70 (47%), Gaps = 2/70 (2%)

Query: 276 IVVWSPDSATFVINALRPAIVTKVVLDEDV--GRIEVIVPKEQLSLAIGRRGQNVRLASQ 333
           +V +S +    V N + PA V  V   +      + V V  +  ++AIG+ G+NV  A  
Sbjct: 70  VVAYSDNLEDLVKNLMSPARVRSVKTIDSNSRKTVHVSVDPQDKAIAIGKAGRNVSRAKI 129

Query: 334 LTGWTIDIIT 343
           +    +DI +
Sbjct: 130 ILKRYMDIDS 139


>gi|58584320|ref|YP_197893.1| 30S ribosomal protein S1 [Wolbachia endosymbiont strain TRS of
           Brugia malayi]
 gi|58418636|gb|AAW70651.1| Ribosomal protein S1 [Wolbachia endosymbiont strain TRS of Brugia
           malayi]
          Length = 550

 Score = 52.8 bits (126), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 23/104 (22%), Positives = 49/104 (47%), Gaps = 6/104 (5%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLE-FKDK--VGEIISGTVKRVEYGNVIVDLG 159
           P+   +++     + I Q   E + +  + + F +K   G+++ G + RV   +++V +G
Sbjct: 11  PISIRKLSSNKFIEEICQDQFEDQDNALFEDSFINKIKEGDVVEGIITRVNPNDIVVHIG 70

Query: 160 -NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
             SDG I   E    + +  G +++ Y+  +        V+LSR
Sbjct: 71  LKSDGRIPIKELGCNDKIVVGSKIRVYVERIEDYHGN--VVLSR 112


>gi|297181780|gb|ADI17960.1| ribosomal protein s1 [uncultured Chloroflexi bacterium
           HF0200_09I09]
          Length = 677

 Score = 52.8 bits (126), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 34/154 (22%), Positives = 62/154 (40%), Gaps = 13/154 (8%)

Query: 92  DIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEY 151
            +G  +   +  ++  R     +++  +Q+ R  +++R   E     GE+  GTV  +  
Sbjct: 238 QVGRELRMKVIEINRRRNRAILSERAAMQEWRAEQKERLLGELA--EGEVRKGTVTSIRN 295

Query: 152 GNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHP 205
             V VDLG +DG+    E          +  + G  +  YI  + R+ +   + + R  P
Sbjct: 296 FGVFVDLGGADGLAHLSELSWDRNADPEQLFQVGQDIDVYIMRIDRDSKKIALSVRRAAP 355

Query: 206 QFMVKLFHME-----VPEIYNGIVQVKAVSRDPG 234
           +    L         VP I   +V   A +R PG
Sbjct: 356 EQWQDLISQYEVGDVVPGIVTKVVAFGAFTRLPG 389


>gi|150401215|ref|YP_001324981.1| transcription elongation factor NusA-like protein [Methanococcus
           aeolicus Nankai-3]
 gi|150013918|gb|ABR56369.1| NusA family KH domain protein [Methanococcus aeolicus Nankai-3]
          Length = 184

 Score = 52.4 bits (125), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 24/80 (30%), Positives = 40/80 (50%), Gaps = 3/80 (3%)

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEV 310
           +GA +G  G  V+    +   ++ID+V +S D   FV N L P  +  V + +    + V
Sbjct: 43  IGAAIGKGGENVRNATEKF-GKRIDVVEYSTDLKQFVRNLLAPLKLDDVWVKKYNDDLVV 101

Query: 311 IVPKE-QLSLAI-GRRGQNV 328
            V    +L  +I G RG+N+
Sbjct: 102 YVRVHPKLRKSIVGDRGKNI 121



 Score = 37.0 bits (85), Expect = 8.5,   Method: Composition-based stats.
 Identities = 19/60 (31%), Positives = 30/60 (50%), Gaps = 2/60 (3%)

Query: 294 AIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
           A V   + D+   RI  IV +  +  AIG+ G+NVR A++  G  ID++    D     +
Sbjct: 22  AEVMDCISDD--ERIIFIVKEGDIGAAIGKGGENVRNATEKFGKRIDVVEYSTDLKQFVR 79


>gi|330508608|ref|YP_004385036.1| DNA repair and recombination protein RadA [Methanosaeta concilii
           GP-6]
 gi|328929416|gb|AEB69218.1| DNA repair and recombination protein RadA [Methanosaeta concilii
           GP-6]
          Length = 325

 Score = 52.4 bits (125), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 25/104 (24%), Positives = 40/104 (38%), Gaps = 12/104 (11%)

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY-- 416
            +       V    A  L   GF  +E +A     E+ S     E TA +I   ARE   
Sbjct: 3   IKLLEDLPGVGPATAEKLREAGFNSIEAIAVASPGELVSAAEVGEATAAKIIAGAREAAD 62

Query: 417 ---LEGIDITLQKKIRELGVS------EELCSIPGIDSKIKVAL 451
               E  D  L+++ +   V+      +EL    G++++  V L
Sbjct: 63  VGGFETGDRILERRKQVGKVTTSCKSFDELLG-GGMETQAIVEL 105


>gi|145592519|ref|YP_001154521.1| transcription elongation factor NusA-like protein [Pyrobaculum
           arsenaticum DSM 13514]
 gi|145284287|gb|ABP51869.1| NusA family KH domain protein [Pyrobaculum arsenaticum DSM 13514]
          Length = 144

 Score = 52.4 bits (125), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 24/91 (26%), Positives = 39/91 (42%), Gaps = 6/91 (6%)

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED---VGRIEVI 311
           VG  GS V+ +   +  + ++IV         + N+L PA V  V + +           
Sbjct: 50  VGKGGSNVKMLRQ-IVGKDVEIVEAGDTPEELIKNSLYPAKVIMVKVTKAPSGAKVAITT 108

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTG--WTID 340
           V  E   +AIG+ G+N+  A  L    + ID
Sbjct: 109 VAPEDKGIAIGKNGKNIARAKLLAKRYYDID 139



 Score = 38.5 bits (89), Expect = 2.6,   Method: Composition-based stats.
 Identities = 16/45 (35%), Positives = 27/45 (60%)

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             VV+D    R+  +V K Q +LA+G+ G NV++  Q+ G  ++I
Sbjct: 26  IDVVIDNAYSRVIYVVQKNQAALAVGKGGSNVKMLRQIVGKDVEI 70


>gi|257077010|ref|ZP_05571371.1| DNA repair and recombination protein RadA [Ferroplasma acidarmanus
           fer1]
          Length = 335

 Score = 52.4 bits (125), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/91 (21%), Positives = 36/91 (39%)

Query: 338 TIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIAS 397
            I +  E++       +   +         V E  A  L   G+ D+  +A     ++A 
Sbjct: 2   NIKMAKEKKIDDELDSELENKKLTIEDLPGVGEATAEKLRENGYDDIMAIAVASPKDLAD 61

Query: 398 IEGFDEETAVEIQGRAREYLEGIDITLQKKI 428
           I G  E  AV+I   AR+Y +  +    ++I
Sbjct: 62  ISGIAEGAAVKIINAARKYADVGNFETGEEI 92


>gi|161527861|ref|YP_001581687.1| NusA family protein [Nitrosopumilus maritimus SCM1]
 gi|160339162|gb|ABX12249.1| NusA family KH domain protein [Nitrosopumilus maritimus SCM1]
          Length = 154

 Score = 52.4 bits (125), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 23/98 (23%), Positives = 44/98 (44%), Gaps = 10/98 (10%)

Query: 252 GACVGMRGSRV---QAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD---EDV 305
           G  +G  G  +   Q +V       +++V +  D A F+ N L   +V++V ++   +  
Sbjct: 48  GLAIGKGGMHIKSLQNIVKR----NVELVEFDEDPAKFLSNLLNSKLVSEVKINTRADGT 103

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
            +  V+V   +  + +GR G+N   A  L     DI +
Sbjct: 104 KQAIVMVDPRKKGIVVGREGRNAEKARMLAKRYFDITS 141


>gi|268323375|emb|CBH36963.1| putative NusA protein homolog [uncultured archaeon]
          Length = 139

 Score = 52.0 bits (124), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 25/81 (30%), Positives = 40/81 (49%), Gaps = 4/81 (4%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVL---DEDVGRI 308
           G  +G  GS +  V   +R + I++V  S D+  F+ N  RPA +  V L   D      
Sbjct: 42  GLAIGKGGSNITKVKNMVRKD-IEVVEHSTDAKEFIENLFRPAEIKSVELLTDDNGKSCA 100

Query: 309 EVIVPKEQLSLAIGRRGQNVR 329
            V V  +Q  +AIG+ G+ ++
Sbjct: 101 YVAVLTKQKGIAIGKNGERIK 121


>gi|291276334|ref|YP_003516106.1| 30S ribosomal protein S1 [Helicobacter mustelae 12198]
 gi|290963528|emb|CBG39359.1| 30S ribosomal protein S1 [Helicobacter mustelae 12198]
          Length = 529

 Score = 52.0 bits (124), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 29/143 (20%), Positives = 62/143 (43%), Gaps = 19/143 (13%)

Query: 91  IDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVE 150
              G  ++  +      R +V   K +  QK++E +      ++KDK   +I   + R  
Sbjct: 53  FQEGDKITVYVSRGGHDRFSVSHKKVLRHQKIQE-KIQSLGEDYKDK---VIEAKIIRKN 108

Query: 151 YGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRT------- 203
            G VI++    +  + +    ++E+   G RV+  I +V+ E+    +++SR        
Sbjct: 109 KGGVILEADGVEYFMPKFHASAKED--KGKRVEVCIINVKPEEN--SIIVSRKRFFDLVN 164

Query: 204 --HPQFMVKLFHMEVPEIYNGIV 224
             H +   K+  ++ P   +G+V
Sbjct: 165 RNHSESAKKIMEIQSP--LDGVV 185


>gi|21226559|ref|NP_632481.1| DNA repair and recombination protein RadA [Methanosarcina mazei
           Go1]
 gi|20904832|gb|AAM30153.1| recombination/repair protein RadA [Methanosarcina mazei Go1]
          Length = 367

 Score = 51.6 bits (123), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 26/65 (40%)

Query: 354 DFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           +F        +   V    A  L   GF  +E +A    SE+A+     E TA +I   A
Sbjct: 40  EFVMSEIALEELPGVGPATAEKLKEAGFNTIEAVAVASPSELATTAEIGESTAAKIINAA 99

Query: 414 REYLE 418
           R+  +
Sbjct: 100 RQAAD 104


>gi|327280164|ref|XP_003224823.1| PREDICTED: DNA repair protein RAD51 homolog 1-like [Anolis
           carolinensis]
          Length = 339

 Score = 51.6 bits (123), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 22/79 (27%), Positives = 34/79 (43%), Gaps = 7/79 (8%)

Query: 335 TGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISE 394
           +  +ID+ TEEE      +  +   Q  + A +V       L   GF  VE +A     E
Sbjct: 7   SDTSIDVSTEEES--FGPQQISRLEQCGINANDV-----KKLEEAGFHTVEAVAYAPKKE 59

Query: 395 IASIEGFDEETAVEIQGRA 413
           + +I+G  E  A +I   A
Sbjct: 60  LLNIKGISEAKADKILAEA 78


>gi|88604173|ref|YP_504351.1| DNA repair and recombination protein RadA [Methanospirillum
           hungatei JF-1]
 gi|88189635|gb|ABD42632.1| DNA repair and recombination protein RadA [Methanospirillum
           hungatei JF-1]
          Length = 407

 Score = 51.6 bits (123), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 22/117 (18%), Positives = 37/117 (31%), Gaps = 8/117 (6%)

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG--- 411
               T        V    A  L   G+  VE++A    +E+       E TA ++     
Sbjct: 1   MAAETYKLEDIPGVGPTTAEKLREAGYESVEKIAQATATELYDTAEIGEATARKMIKWCT 60

Query: 412 -----RAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLA 463
                 A    +      +          ++  IPG+   I   L + G  T+E +A
Sbjct: 61  SQINPGAEGSTDASSAQKEDSTHMQQRRLDIEDIPGVGPAIAEKLRDAGFLTVESIA 117



 Score = 38.1 bits (88), Expect = 3.6,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 22/71 (30%)

Query: 345 EEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEE 404
                       +R         V   IA  L   GF  VE +A    + +A      E 
Sbjct: 74  SSAQKEDSTHMQQRRLDIEDIPGVGPAIAEKLRDAGFLTVESIATSLPATLAEAAELGEA 133

Query: 405 TAVEIQGRARE 415
           TA ++    R+
Sbjct: 134 TAKKMIKWCRD 144


>gi|311977685|ref|YP_003986805.1| DNA ligase [Acanthamoeba polyphaga mimivirus]
 gi|82000023|sp|Q5UPZ0|DNLJ_MIMIV RecName: Full=DNA ligase; AltName: Full=NAD-dependent DNA ligase;
           AltName: Full=Polydeoxyribonucleotide synthase [NAD+]
 gi|55416925|gb|AAV50575.1| NAD-dependent DNA ligase [Acanthamoeba polyphaga mimivirus]
 gi|308204745|gb|ADO18546.1| DNA ligase [Acanthamoeba polyphaga mimivirus]
          Length = 636

 Score = 51.6 bits (123), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 27/100 (27%), Positives = 41/100 (41%), Gaps = 12/100 (12%)

Query: 323 RRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFA 382
           + G N+ LA        DI   E   I R   F         A N+ E I   LV  GF 
Sbjct: 386 KNGVNIILA--------DINDNETVIIKRLTKFMRNIG----AENISEGITTRLVEAGFD 433

Query: 383 DVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
            + ++  +   +  +I+GF E  A +I    +  L+ +DI
Sbjct: 434 TIPKIINMTEEDFLTIDGFQERLAEKIYNNLQNSLDNLDI 473


>gi|91773155|ref|YP_565847.1| transcription elongation factor NusA-like protein [Methanococcoides
           burtonii DSM 6242]
 gi|91712170|gb|ABE52097.1| Transcription termination factor NusA [Methanococcoides burtonii
           DSM 6242]
          Length = 141

 Score = 51.2 bits (122), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 25/80 (31%), Positives = 38/80 (47%), Gaps = 5/80 (6%)

Query: 252 GACVGMRGSRVQAVVTELRDEK-IDIVVWSPDSATFVINALRPAIVTKVVLDE--DVGRI 308
           GA +G  G  +  V  +L  +K I+++ +S +  TF+ NA     V  V +    D    
Sbjct: 45  GAAIGKCGDNLNRV--KLSVDKHIELIEYSAEPVTFIKNAFGTVSVRSVRISSKGDKNIA 102

Query: 309 EVIVPKEQLSLAIGRRGQNV 328
            V V   +  LAIGR G N+
Sbjct: 103 YVDVAANEKGLAIGRNGSNI 122


>gi|52550007|gb|AAU83856.1| recombinase [uncultured archaeon GZfos34G5]
          Length = 315

 Score = 51.2 bits (122), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 16/55 (29%), Positives = 24/55 (43%)

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           +   V   IA  L   GF  +E +A    +E+ +     E T+ +I   ARE  E
Sbjct: 5   ELPGVGPAIAEKLREAGFNSLEAIAVASPAELVAAAEIGEATSAKIINAAREAAE 59


>gi|14601671|ref|NP_148212.1| transcription elongation factor NusA-like protein [Aeropyrum pernix
           K1]
 gi|85544478|pdb|2CXC|A Chain A, Crystal Structure Of Archaeal Transcription Termination
           Factor Nusa
 gi|88192683|pdb|2CY1|A Chain A, Crystal Structure Of Ape1850
 gi|5105541|dbj|BAA80854.1| NusA protein homolog [Aeropyrum pernix K1]
          Length = 144

 Score = 50.8 bits (121), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 21/82 (25%), Positives = 40/82 (48%), Gaps = 3/82 (3%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV--GRIE 309
           G  +G RG R+  ++ E   + I++V +S D    V N      +  + + E     ++ 
Sbjct: 48  GRAIG-RGGRLIKLLREALGKNIEVVEYSSDLERIVKNLFPGVKIESINVRERNGVKQVV 106

Query: 310 VIVPKEQLSLAIGRRGQNVRLA 331
           + V ++    AIG+ G+NV+ A
Sbjct: 107 IKVSEDDKGAAIGKGGKNVKRA 128


>gi|119872213|ref|YP_930220.1| transcription elongation factor NusA-like protein [Pyrobaculum
           islandicum DSM 4184]
 gi|119673621|gb|ABL87877.1| NusA family KH domain protein [Pyrobaculum islandicum DSM 4184]
          Length = 144

 Score = 50.8 bits (121), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 25/91 (27%), Positives = 39/91 (42%), Gaps = 6/91 (6%)

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED---VGRIEVI 311
           VG  GS V+ +   L  + ++IV         + N+L PA V  V + +           
Sbjct: 50  VGRGGSNVKMLKQIL-GKDVEIVEGGDTPEELIKNSLYPAKVIMVKVTKSPSGSKVAITT 108

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTG--WTID 340
           V  E   +AIG+ G+N+  A  L    + ID
Sbjct: 109 VAPEDKGIAIGKNGRNIARARILAKRYYDID 139



 Score = 37.7 bits (87), Expect = 4.1,   Method: Composition-based stats.
 Identities = 19/45 (42%), Positives = 28/45 (62%)

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             VVLD +  RI  +V K Q +LA+GR G NV++  Q+ G  ++I
Sbjct: 26  IDVVLDNEYSRIIFVVQKNQAALAVGRGGSNVKMLKQILGKDVEI 70


>gi|254169028|ref|ZP_04875866.1| NusA family KH domain protein, archaeal [Aciduliprofundum boonei
           T469]
 gi|254169225|ref|ZP_04876059.1| NusA family KH domain protein, archaeal [Aciduliprofundum boonei
           T469]
 gi|289596762|ref|YP_003483458.1| NusA family KH domain protein [Aciduliprofundum boonei T469]
 gi|197621821|gb|EDY34402.1| NusA family KH domain protein, archaeal [Aciduliprofundum boonei
           T469]
 gi|197621998|gb|EDY34575.1| NusA family KH domain protein, archaeal [Aciduliprofundum boonei
           T469]
 gi|289534549|gb|ADD08896.1| NusA family KH domain protein [Aciduliprofundum boonei T469]
          Length = 141

 Score = 50.8 bits (121), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 22/79 (27%), Positives = 38/79 (48%), Gaps = 3/79 (3%)

Query: 258 RGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG--RIEVIVPKE 315
            GS++Q V   L  + + +V +SPD   F  N      V  + ++       I V V   
Sbjct: 51  NGSKIQTVRN-LIKKNVMVVEYSPDIVVFTKNIFHRFHVKNIKVENVDNQFSITVFVDPR 109

Query: 316 QLSLAIGRRGQNVRLASQL 334
             + AIG+ G+N++LA ++
Sbjct: 110 DKARAIGKEGRNLKLAKEI 128


>gi|307256659|ref|ZP_07538438.1| hypothetical protein appser10_6620 [Actinobacillus
          pleuropneumoniae serovar 10 str. D13039]
 gi|306864707|gb|EFM96611.1| hypothetical protein appser10_6620 [Actinobacillus
          pleuropneumoniae serovar 10 str. D13039]
          Length = 47

 Score = 50.8 bits (121), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 7/37 (18%), Positives = 19/37 (51%)

Query: 6  RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL 42
            E+L  A+AV+ EK + ++ +   +  ++  + +  
Sbjct: 2  SKEILLAAEAVSNEKLLPKEAIFEALETALAISTKKK 38


>gi|167042228|gb|ABZ06960.1| putative KH domain protein [uncultured marine crenarchaeote
           HF4000_ANIW93I24]
          Length = 154

 Score = 50.4 bits (120), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 24/88 (27%), Positives = 44/88 (50%), Gaps = 7/88 (7%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD---EDVGRI 308
           G  +G  GS ++++   L+   +++V +  D   F+ N L P  V +V LD   +   + 
Sbjct: 48  GLAIGKGGSNIKSLQNILKR-NVELVEYFDDPIKFLKNILNPKFVNEVKLDTKPDGSSQA 106

Query: 309 EVIVPKEQLSLAIGRRGQN---VRLASQ 333
            +IV   +  L +GR G+N    RL ++
Sbjct: 107 TIIVDHGKKGLVVGRDGRNAEKARLFAK 134


>gi|124515665|gb|EAY57174.1| ribosomal protein S1 [Leptospirillum rubarum]
          Length = 475

 Score = 50.4 bits (120), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 29/125 (23%), Positives = 54/125 (43%), Gaps = 10/125 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              QI L+  RD D    IG  +   +  M+  R  +  +++V++++ R+  +       
Sbjct: 40  PGSQIDLRPVRDMDRL--IGQTIQVRIIKMNKKRGNIIVSRRVLLEEWRDRRKKVTMDAL 97

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           K   GEI+ G VK +      +DLG  DG++   +         +E +  GD+V   +  
Sbjct: 98  K--EGEILEGIVKNITDYGAFIDLGGIDGLLHITDMSWGRVTNPQEFMNVGDKVNVVVLK 155

Query: 189 VRREQ 193
             +E 
Sbjct: 156 HDKET 160


>gi|227828152|ref|YP_002829932.1| DNA repair and recombination protein RadA [Sulfolobus islandicus
           M.14.25]
 gi|227830859|ref|YP_002832639.1| DNA repair and recombination protein RadA [Sulfolobus islandicus
           L.S.2.15]
 gi|229579745|ref|YP_002838144.1| DNA repair and recombination protein RadA [Sulfolobus islandicus
           Y.G.57.14]
 gi|229581586|ref|YP_002839985.1| DNA repair and recombination protein RadA [Sulfolobus islandicus
           Y.N.15.51]
 gi|229585381|ref|YP_002843883.1| DNA repair and recombination protein RadA [Sulfolobus islandicus
           M.16.27]
 gi|238620342|ref|YP_002915168.1| DNA repair and recombination protein RadA [Sulfolobus islandicus
           M.16.4]
 gi|284998366|ref|YP_003420134.1| DNA repair or recombination protein RadA [Sulfolobus islandicus
           L.D.8.5]
 gi|259551812|sp|C3MZK6|RADA_SULIA RecName: Full=DNA repair and recombination protein radA
 gi|259551815|sp|C4KIT6|RADA_SULIK RecName: Full=DNA repair and recombination protein radA
 gi|259551818|sp|C3MRI1|RADA_SULIL RecName: Full=DNA repair and recombination protein radA
 gi|259551822|sp|C3MY77|RADA_SULIM RecName: Full=DNA repair and recombination protein radA
 gi|259551825|sp|C3NFU5|RADA_SULIN RecName: Full=DNA repair and recombination protein radA
 gi|259551829|sp|C3N7M8|RADA_SULIY RecName: Full=DNA repair and recombination protein radA
 gi|227457307|gb|ACP35994.1| DNA repair and recombination protein RadA [Sulfolobus islandicus
           L.S.2.15]
 gi|227459948|gb|ACP38634.1| DNA repair and recombination protein RadA [Sulfolobus islandicus
           M.14.25]
 gi|228010460|gb|ACP46222.1| DNA repair and recombination protein RadA [Sulfolobus islandicus
           Y.G.57.14]
 gi|228012302|gb|ACP48063.1| DNA repair and recombination protein RadA [Sulfolobus islandicus
           Y.N.15.51]
 gi|228020431|gb|ACP55838.1| DNA repair and recombination protein RadA [Sulfolobus islandicus
           M.16.27]
 gi|238381412|gb|ACR42500.1| DNA repair and recombination protein RadA [Sulfolobus islandicus
           M.16.4]
 gi|284446262|gb|ADB87764.1| DNA repair or recombination protein RadA [Sulfolobus islandicus
           L.D.8.5]
 gi|323475205|gb|ADX85811.1| DNA repair and recombination protein RadA [Sulfolobus islandicus
           REY15A]
 gi|323477937|gb|ADX83175.1| DNA repair and recombination protein RadA [Sulfolobus islandicus
           HVE10/4]
          Length = 324

 Score = 50.4 bits (120), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 14/77 (18%), Positives = 33/77 (42%)

Query: 354 DFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           +  +  +       + + + + L+  G++ +E LA     +++   G    TA +I   A
Sbjct: 6   EQKKSIKTINDLPGISQTVINKLIEAGYSSLETLAVASPQDLSVAAGIPLSTAQKIIKEA 65

Query: 414 REYLEGIDITLQKKIRE 430
           R+ L+    T  +  +E
Sbjct: 66  RDALDIRFKTALEVKKE 82


>gi|82617212|emb|CAI64118.1| DNA repair and recombination protein [uncultured archaeon]
 gi|268322944|emb|CBH36532.1| DNA repair and recombination protein radA [uncultured archaeon]
          Length = 315

 Score = 50.4 bits (120), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 19/67 (28%), Positives = 26/67 (38%)

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
           +   V   IA  L   GF  +E +A     E+ +     E TA +I   ARE  +     
Sbjct: 5   ELPGVGPAIAEKLREAGFNSLEAIAVASPMELVATTEIGEATASKIITAAREAADIGGFE 64

Query: 424 LQKKIRE 430
              KI E
Sbjct: 65  TGDKILE 71


>gi|15897194|ref|NP_341799.1| DNA repair and recombination protein RadA [Sulfolobus solfataricus
           P2]
 gi|284174439|ref|ZP_06388408.1| DNA repair and recombination protein RadA [Sulfolobus solfataricus
           98/2]
 gi|14286170|sp|Q55075|RADA_SULSO RecName: Full=DNA repair and recombination protein radA
 gi|126030236|pdb|2DFL|A Chain A, Crystal Structure Of Left-Handed Rada Filament
 gi|160286393|pdb|2Z43|A Chain A, Structure Of A Twinned Crystal Of Rada
 gi|160286394|pdb|2Z43|B Chain B, Structure Of A Twinned Crystal Of Rada
 gi|160286395|pdb|2Z43|C Chain C, Structure Of A Twinned Crystal Of Rada
 gi|226438154|pdb|2ZUB|A Chain A, Left Handed Rada
 gi|226438155|pdb|2ZUB|B Chain B, Left Handed Rada
 gi|226438156|pdb|2ZUC|A Chain A, Crystal Structure Of Left-Handed Rada Filament
 gi|226438157|pdb|2ZUC|B Chain B, Crystal Structure Of Left-Handed Rada Filament
 gi|226438158|pdb|2ZUD|A Chain A, Crystal Structure Of Left-Handed Rada Filament
 gi|226438159|pdb|2ZUD|B Chain B, Crystal Structure Of Left-Handed Rada Filament
 gi|13813387|gb|AAK40589.1| DNA repair protein radA (radA) [Sulfolobus solfataricus P2]
 gi|261601861|gb|ACX91464.1| DNA repair and recombination protein RadA [Sulfolobus solfataricus
           98/2]
          Length = 324

 Score = 50.4 bits (120), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 14/77 (18%), Positives = 33/77 (42%)

Query: 354 DFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           +  +  +       + + + + L+  G++ +E LA     +++   G    TA +I   A
Sbjct: 6   EQKKNIKTINDLPGISQTVINKLIEAGYSSLETLAVASPQDLSVAAGIPLSTAQKIIKEA 65

Query: 414 REYLEGIDITLQKKIRE 430
           R+ L+    T  +  +E
Sbjct: 66  RDALDIRFKTALEVKKE 82


>gi|206602279|gb|EDZ38761.1| Ribosomal protein S1 [Leptospirillum sp. Group II '5-way CG']
          Length = 591

 Score = 50.4 bits (120), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 38/185 (20%), Positives = 75/185 (40%), Gaps = 24/185 (12%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRV-EINPETGDISLFRLLEVVEEVEN 74
           ++ EK+ DR  V   + +         +     I    I+   G +++    +V  +   
Sbjct: 109 LSKEKA-DRMKVWDAIEE--------QFNRSDVIEGRIISRIKGGMTV----DVGLKAFL 155

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              QI L+  RD D    IG  +   +  M+  R  +  +++V++++ R+  +       
Sbjct: 156 PGSQIDLRPVRDMDRL--IGQTIQVRIIKMNKKRGNIIVSRRVLLEEWRDRRKKVTMDAL 213

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           K   GEI+ G VK +      +DLG  DG++   +         +E +  GD+V   +  
Sbjct: 214 K--EGEILEGIVKNITDYGAFIDLGGIDGLLHITDMSWGRVTNPQEFMNVGDKVNVVVLK 271

Query: 189 VRREQ 193
             +E 
Sbjct: 272 HDKET 276


>gi|1378036|gb|AAC44123.1| RadA [Sulfolobus solfataricus]
          Length = 324

 Score = 50.4 bits (120), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 14/77 (18%), Positives = 33/77 (42%)

Query: 354 DFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           +  +  +       + + + + L+  G++ +E LA     +++   G    TA +I   A
Sbjct: 6   EQKKNIKTINDLPGISQTVINKLIEAGYSSLETLAVASPQDLSVAAGIPLSTAQKIIKEA 65

Query: 414 REYLEGIDITLQKKIRE 430
           R+ L+    T  +  +E
Sbjct: 66  RDALDIRFKTALEVKKE 82


>gi|62738997|pdb|2BKE|A Chain A, Conformational Flexibility Revealed By The Crystal
           Structure Of A Crenarchaeal Rada
          Length = 324

 Score = 50.4 bits (120), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 14/77 (18%), Positives = 33/77 (42%)

Query: 354 DFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           +  +  +       + + + + L+  G++ +E LA     +++   G    TA +I   A
Sbjct: 6   EQKKNIKTINDLPGISQTVINKLIEAGYSSLETLAVASPQDLSVAAGIPLSTAQKIIKEA 65

Query: 414 REYLEGIDITLQKKIRE 430
           R+ L+    T  +  +E
Sbjct: 66  RDALDIRFKTALEVKKE 82


>gi|57641834|ref|YP_184312.1| DNA repair and recombination protein RadA [Thermococcus
           kodakarensis KOD1]
 gi|73913728|sp|Q5JET4|RADA_PYRKO RecName: Full=DNA repair and recombination protein radA; Contains:
           RecName: Full=Pko radA intein
 gi|57160158|dbj|BAD86088.1| RadA/Rad51 recombinase [Thermococcus kodakarensis KOD1]
          Length = 836

 Score = 50.4 bits (120), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 23/61 (37%)

Query: 356 NERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
            ++         V    A  L   G+  +E +A     E+  I G  E  A++I   ARE
Sbjct: 36  EKKISALEDLPGVGPATAEKLREAGYDTIEAIAVASPLELKEIAGISEGAALKIIQAARE 95

Query: 416 Y 416
            
Sbjct: 96  A 96


>gi|302348977|ref|YP_003816615.1| transcription elongation factor NusA-like protein [Acidilobus
           saccharovorans 345-15]
 gi|302329389|gb|ADL19584.1| transcription elongation factor NusA-like protein [Acidilobus
           saccharovorans 345-15]
          Length = 150

 Score = 50.4 bits (120), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 23/83 (27%), Positives = 39/83 (46%), Gaps = 3/83 (3%)

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDV--GRI 308
           +G  +G  G  V+ +   L    +++V +S D  + V N      V KV + +      +
Sbjct: 53  IGKAIGKDGRNVKTLSRILNK-NVEVVEYSADLESMVRNLFPGVTVLKVDVVDKNDGKVV 111

Query: 309 EVIVPKEQLSLAIGRRGQNVRLA 331
            V V  ++   AIGR G+NV+ A
Sbjct: 112 YVKVKDDEKGKAIGRDGRNVKRA 134


>gi|73669826|ref|YP_305841.1| DNA repair and recombination protein RadA [Methanosarcina barkeri
           str. Fusaro]
 gi|121695787|sp|Q46A31|RADA_METBF RecName: Full=DNA repair and recombination protein radA
 gi|72396988|gb|AAZ71261.1| DNA repair protein [Methanosarcina barkeri str. Fusaro]
          Length = 325

 Score = 50.4 bits (120), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 20/71 (28%), Positives = 30/71 (42%), Gaps = 5/71 (7%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY----- 416
             +   V    A  L   GF  +E +A    SE+A+     E TA +I   AR+      
Sbjct: 6   LEELPGVGPATAEKLKEAGFNTIEAVAVASPSELATTAEIGESTAAKIINAARQAADIGG 65

Query: 417 LEGIDITLQKK 427
            E  DI L+++
Sbjct: 66  FETGDIVLERR 76


>gi|269926456|ref|YP_003323079.1| RNA binding S1 domain protein [Thermobaculum terrenum ATCC BAA-798]
 gi|269790116|gb|ACZ42257.1| RNA binding S1 domain protein [Thermobaculum terrenum ATCC BAA-798]
          Length = 431

 Score = 50.1 bits (119), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 30/116 (25%), Positives = 52/116 (44%), Gaps = 9/116 (7%)

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI----- 171
           +  Q+ +E  ++R   E   + G+I+ G V  +      VD+G +DG+I   E       
Sbjct: 240 IATQERKETSKERLIEEL--REGQIVKGRVTSLADFGAFVDIGGADGLIHLSEISWGRIN 297

Query: 172 -SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHM-EVPEIYNGIVQ 225
              E L+PGD V   + ++ RE +   + + RT P+         +V +I  G V 
Sbjct: 298 HPSEVLKPGDEVDVMVLNIDREHKKIALSMKRTQPEPWATAMERYDVGQIVEGEVT 353


>gi|307267235|ref|ZP_07548738.1| RNA binding S1 domain protein [Thermoanaerobacter wiegelii Rt8.B1]
 gi|306917730|gb|EFN48001.1| RNA binding S1 domain protein [Thermoanaerobacter wiegelii Rt8.B1]
          Length = 283

 Score = 50.1 bits (119), Expect = 9e-04,   Method: Composition-based stats.
 Identities = 26/85 (30%), Positives = 40/85 (47%), Gaps = 8/85 (9%)

Query: 119 IQKVREAERDRQYLEFKD--KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI----- 171
            ++V + ER++         K G+I+ G VK +    V VD+G  DG I   E       
Sbjct: 169 QKEVLKLEREKVKKALLSNLKEGDIVEGKVKNIIDKGVFVDIGGFDGFIPLSEISWERIK 228

Query: 172 -SRENLRPGDRVKSYIYDVRREQRG 195
             RE L  GD+V  YI +V  +++ 
Sbjct: 229 NPREVLGIGDKVSVYILNVDEKKKN 253


>gi|241007827|ref|XP_002405184.1| DNA repair protein RAD51/RHP55, putative [Ixodes scapularis]
 gi|215491711|gb|EEC01352.1| DNA repair protein RAD51/RHP55, putative [Ixodes scapularis]
          Length = 352

 Score = 50.1 bits (119), Expect = 9e-04,   Method: Composition-based stats.
 Identities = 13/72 (18%), Positives = 27/72 (37%)

Query: 342 ITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
           +TE        +++       ++   +       L   GF  VE +A     ++ +I+G 
Sbjct: 20  MTEVAQEEVLDENYGPVRIQKLEGNGIGAADIKKLEEAGFHTVEAVAYAPKKQLLTIKGI 79

Query: 402 DEETAVEIQGRA 413
            E  A ++   A
Sbjct: 80  SEAKADKLLAEA 91


>gi|154151638|ref|YP_001405256.1| DNA repair and recombination protein RadA [Candidatus Methanoregula
           boonei 6A8]
 gi|154000190|gb|ABS56613.1| DNA repair and recombination protein RadA [Methanoregula boonei
           6A8]
          Length = 325

 Score = 50.1 bits (119), Expect = 9e-04,   Method: Composition-based stats.
 Identities = 16/52 (30%), Positives = 22/52 (42%)

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
               V    A  L   G+  VE +A    +E++ I    E TA +I   ARE
Sbjct: 10  DLPGVGPSTADKLREAGYLSVESIATASPAELSEITEISESTAKKIIKAARE 61


>gi|150399427|ref|YP_001323194.1| transcription elongation factor NusA-like protein [Methanococcus
           vannielii SB]
 gi|141390|sp|P14026|NUSA_METVS RecName: Full=NusA protein homolog
 gi|44783|emb|CAA34088.1| unnamed protein product [Methanococcus vannielii]
 gi|150012130|gb|ABR54582.1| NusA family KH domain protein [Methanococcus vannielii SB]
          Length = 173

 Score = 50.1 bits (119), Expect = 0.001,   Method: Composition-based stats.
 Identities = 20/80 (25%), Positives = 36/80 (45%), Gaps = 3/80 (3%)

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG--RI 308
           +GA +G  G  V+    +   +KID++ +S D   F+ N   P  +  V + +      +
Sbjct: 43  IGAAIGKGGENVKNATDKF-GKKIDLIEYSEDLKQFIKNIFAPIELEDVWVKKFGNDLVV 101

Query: 309 EVIVPKEQLSLAIGRRGQNV 328
            V V        IG +G+N+
Sbjct: 102 YVRVHPRLRRAIIGDKGKNI 121


>gi|171186409|ref|YP_001795328.1| transcription elongation factor NusA-like protein [Thermoproteus
           neutrophilus V24Sta]
 gi|170935621|gb|ACB40882.1| NusA family KH domain protein [Thermoproteus neutrophilus V24Sta]
          Length = 144

 Score = 50.1 bits (119), Expect = 0.001,   Method: Composition-based stats.
 Identities = 23/90 (25%), Positives = 39/90 (43%), Gaps = 4/90 (4%)

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED---VGRIEVI 311
           VG  G+ V+ +  ++  + ++IV         + N+L PA V  V + +           
Sbjct: 50  VGRGGANVKML-KQIVGKDVEIVETGDTPEELIKNSLYPAKVIMVKVTKAPSGAKVAITT 108

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           V  E   +AIG+ G+N+  A  L     DI
Sbjct: 109 VAPEDKGIAIGKNGRNIARAKILAKRYFDI 138


>gi|91773967|ref|YP_566659.1| DNA repair and recombination protein RadA [Methanococcoides
           burtonii DSM 6242]
 gi|121691598|sp|Q12UG7|RADA_METBU RecName: Full=DNA repair and recombination protein radA
 gi|91712982|gb|ABE52909.1| DNA repair and recombination protein RadA [Methanococcoides
           burtonii DSM 6242]
          Length = 325

 Score = 50.1 bits (119), Expect = 0.001,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 27/58 (46%), Gaps = 1/58 (1%)

Query: 358 RTQFFMQAIN-VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
            T+  ++ ++ V    A  L   GF  +E +A    +E+A+     E TA +I   AR
Sbjct: 1   MTEVLLEDLDHVGPATAQKLKDAGFTTIEAIAVASPAELANSAEIGESTAAKIINAAR 58


>gi|302348270|ref|YP_003815908.1| DNA repair and recombination protein radA [Acidilobus
           saccharovorans 345-15]
 gi|302328682|gb|ADL18877.1| DNA repair and recombination protein radA [Acidilobus
           saccharovorans 345-15]
          Length = 326

 Score = 50.1 bits (119), Expect = 0.001,   Method: Composition-based stats.
 Identities = 22/77 (28%), Positives = 33/77 (42%), Gaps = 5/77 (6%)

Query: 342 ITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
           ++E   S   +K  +       +   V    A  LV  G+A +E +A     EIA   G 
Sbjct: 1   MSEANASQAVKKPKDI-----TELPGVGPTTAEKLVESGYATIEAIAVATPQEIAQATGI 55

Query: 402 DEETAVEIQGRAREYLE 418
             +TA +I   AR+ LE
Sbjct: 56  PLQTAQKIVDSARQALE 72


>gi|15920489|ref|NP_376158.1| DNA repair and recombination protein RadA [Sulfolobus tokodaii str.
           7]
 gi|20139589|sp|Q975Y1|RADA_SULTO RecName: Full=DNA repair and recombination protein radA
 gi|15621272|dbj|BAB65267.1| 324aa long hypothetical DNA repair protein radA [Sulfolobus
           tokodaii str. 7]
          Length = 324

 Score = 50.1 bits (119), Expect = 0.001,   Method: Composition-based stats.
 Identities = 19/109 (17%), Positives = 42/109 (38%), Gaps = 10/109 (9%)

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
           ++ +       V + I + L+  G++ +E +A     +++   G    TA  I   ARE 
Sbjct: 9   KKVKSLSDLPGVGQSILNKLIEAGYSSLEAVAVASPQDLSVAAGIPLTTAQRIIKEAREA 68

Query: 417 LE----GIDITLQKKIRELGVSEELCSIPGI------DSKIKVALGENG 455
           L+          +++I    ++    ++ G+         +    GE G
Sbjct: 69  LDIRFKTALEVKKERINTKKITTGSQALDGLLGGGIETRTMTELFGEFG 117


>gi|34395788|sp|Q8PZN5|RADA_METMA RecName: Full=DNA repair and recombination protein radA
          Length = 325

 Score = 50.1 bits (119), Expect = 0.001,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 24/57 (42%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
             +   V    A  L   GF  +E +A    SE+A+     E TA +I   AR+  +
Sbjct: 6   LEELPGVGPATAEKLKEAGFNTIEAVAVASPSELATTAEIGESTAAKIINAARQAAD 62


>gi|167044064|gb|ABZ08749.1| putative KH domain protein [uncultured marine crenarchaeote
           HF4000_APKG4H17]
          Length = 154

 Score = 49.7 bits (118), Expect = 0.001,   Method: Composition-based stats.
 Identities = 23/91 (25%), Positives = 41/91 (45%), Gaps = 13/91 (14%)

Query: 252 GACVGMRGSRVQ---AVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD---EDV 305
           G  +G  GS ++    ++       I+++ +  D   F+ N L P  V +V LD   +  
Sbjct: 48  GLAIGKGGSNIKSLKNIIKR----NIELIEYFDDPIKFLKNILNPKFVNEVKLDTKPDGS 103

Query: 306 GRIEVIVPKEQLSLAIGRRGQN---VRLASQ 333
            +  +IV   +  L +GR G N    RL ++
Sbjct: 104 SQATIIVDHGKKGLVVGRAGCNAEKARLFAK 134


>gi|327400087|ref|YP_004340926.1| DNA repair and recombination protein radA [Archaeoglobus veneficus
           SNP6]
 gi|327315595|gb|AEA46211.1| DNA repair and recombination protein radA [Archaeoglobus veneficus
           SNP6]
          Length = 328

 Score = 49.7 bits (118), Expect = 0.001,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 25/54 (46%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
                NV   IA  L   GF+ +E +A    SE+++     E TA +I   AR+
Sbjct: 15  LEDLPNVGPAIAEKLREAGFSTIEAIAVASPSELSAAAEIGESTAAKIISAARK 68


>gi|45358929|ref|NP_988486.1| transcription elongation factor NusA [Methanococcus maripaludis S2]
 gi|45047795|emb|CAF30922.1| KH domain:KH domain, type 1 [Methanococcus maripaludis S2]
          Length = 173

 Score = 49.7 bits (118), Expect = 0.001,   Method: Composition-based stats.
 Identities = 21/80 (26%), Positives = 36/80 (45%), Gaps = 3/80 (3%)

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDE--DVGRI 308
           +GA +G  G  V+    +   +KID++ +S D   F+ N   P  V  V   +  D   +
Sbjct: 43  IGAAIGKGGENVRNATEKF-GKKIDLIEYSEDVKQFIKNIFAPIEVEDVWTKKFGDDLVV 101

Query: 309 EVIVPKEQLSLAIGRRGQNV 328
            + V        IG +G+N+
Sbjct: 102 YIRVHPRFRRAIIGDKGKNI 121



 Score = 37.0 bits (85), Expect = 8.1,   Method: Composition-based stats.
 Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 2/65 (3%)

Query: 291 LRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
           +  A V     D++  +I  +V +  +  AIG+ G+NVR A++  G  ID+I   ED   
Sbjct: 19  MTGADVIDSTSDDE--KIVFVVKEGDIGAAIGKGGENVRNATEKFGKKIDLIEYSEDVKQ 76

Query: 351 RQKDF 355
             K+ 
Sbjct: 77  FIKNI 81


>gi|18312089|ref|NP_558756.1| transcription elongation factor NusA-like protein [Pyrobaculum
           aerophilum str. IM2]
 gi|18159519|gb|AAL62938.1| transcription termination factor NusA, putative [Pyrobaculum
           aerophilum str. IM2]
          Length = 144

 Score = 49.7 bits (118), Expect = 0.001,   Method: Composition-based stats.
 Identities = 19/77 (24%), Positives = 34/77 (44%), Gaps = 4/77 (5%)

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED---VGRIEVI 311
           VG  GS V+ +   +  + +++V         + N+L PA V  V + +           
Sbjct: 50  VGKGGSNVKMLRQ-IVGKDVEVVEAGDTPEELIKNSLYPAKVIMVKVTKAPSGAKVAITT 108

Query: 312 VPKEQLSLAIGRRGQNV 328
           V  E   +AIG+ G+N+
Sbjct: 109 VAPEDKGVAIGKNGRNI 125



 Score = 37.4 bits (86), Expect = 6.4,   Method: Composition-based stats.
 Identities = 15/45 (33%), Positives = 28/45 (62%)

Query: 297 TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
             VV+D +  RI  +V K Q ++A+G+ G NV++  Q+ G  +++
Sbjct: 26  IDVVIDPEYSRIIYVVQKNQAAIAVGKGGSNVKMLRQIVGKDVEV 70


>gi|147900484|ref|NP_001081236.1| DNA repair protein RAD51 homolog A [Xenopus laevis]
 gi|2500105|sp|Q91918|RA51A_XENLA RecName: Full=DNA repair protein RAD51 homolog A; Short=xRAD51.1
 gi|1054624|dbj|BAA07501.1| XRad51.1 [Xenopus laevis]
 gi|57033002|gb|AAH88930.1| LOC397726 protein [Xenopus laevis]
          Length = 336

 Score = 49.7 bits (118), Expect = 0.001,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 27/68 (39%)

Query: 346 EDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEET 405
           E     ++ F  +    ++   ++      L   GF  VE +A     E+ +I+G  E  
Sbjct: 8   EAEATEEEHFGPQAISRLEQCGINANDVKKLEEAGFHTVEAVAYAPKKELLNIKGISEAK 67

Query: 406 AVEIQGRA 413
           A +I   A
Sbjct: 68  AEKILAEA 75


>gi|242399963|ref|YP_002995388.1| DNA repair and recombination protein radA [Thermococcus sibiricus
           MM 739]
 gi|242266357|gb|ACS91039.1| DNA repair and recombination protein radA [Thermococcus sibiricus
           MM 739]
          Length = 526

 Score = 49.7 bits (118), Expect = 0.001,   Method: Composition-based stats.
 Identities = 16/79 (20%), Positives = 28/79 (35%)

Query: 338 TIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIAS 397
            +D + E       +    +  +       V    A  L   G+  +E +A     E+  
Sbjct: 22  ELDALDELSVEEPTKGSNKKEIKSIEDLPGVGPATAEKLREAGYDSLEAIAVASPLELKE 81

Query: 398 IEGFDEETAVEIQGRAREY 416
           + G  E  A++I   ARE 
Sbjct: 82  LAGVSEGAALKIIQAAREA 100


>gi|52548595|gb|AAU82444.1| recombinase [uncultured archaeon GZfos17F1]
          Length = 324

 Score = 49.7 bits (118), Expect = 0.001,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 4/73 (5%)

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE----G 419
           +   V    A  L   GF  VE +A    SE+A+     E TAV+I   AR   +     
Sbjct: 8   ELPGVGPATAEKLKDAGFNSVEAIAVASPSELAATAEIGESTAVKIIAAARTSADVGGFE 67

Query: 420 IDITLQKKIRELG 432
               + ++ +E+G
Sbjct: 68  TGDAILERRKEIG 80


>gi|70606517|ref|YP_255387.1| DNA repair and recombination protein RadA [Sulfolobus
           acidocaldarius DSM 639]
 gi|76363310|sp|Q4JAT5|RADA_SULAC RecName: Full=DNA repair and recombination protein radA
 gi|68567165|gb|AAY80094.1| DNA recombination protein RadA [Sulfolobus acidocaldarius DSM 639]
          Length = 321

 Score = 49.7 bits (118), Expect = 0.001,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 33/74 (44%)

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
           ++ +       V + I + LV  G++ +E +A     +++   G  + TA  I   ARE 
Sbjct: 6   KKVKSLSDLSGVGQNILNKLVEAGYSSLEAVAVATPQDLSVAAGIPQTTAQRIIKEAREA 65

Query: 417 LEGIDITLQKKIRE 430
           L+    T  +  +E
Sbjct: 66  LDIRFKTALEVKKE 79


>gi|20092352|ref|NP_618427.1| DNA repair and recombination protein RadA [Methanosarcina
           acetivorans C2A]
 gi|34395790|sp|Q8TK71|RADA_METAC RecName: Full=DNA repair and recombination protein radA
 gi|19917601|gb|AAM06907.1| DNA repair protein [Methanosarcina acetivorans C2A]
          Length = 325

 Score = 49.3 bits (117), Expect = 0.001,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 24/57 (42%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
             +   V    A  L   GF  VE +A    SE+A+     E TA +I   AR+  +
Sbjct: 6   LEELPGVGPATAEKLKEAGFNTVEAVAVASPSELATTAEIGESTAAKIINSARQAAD 62


>gi|218961954|ref|YP_001741729.1| putative Ribosomal protein S1 [Candidatus Cloacamonas
           acidaminovorans]
 gi|167730611|emb|CAO81523.1| putative Ribosomal protein S1 [Candidatus Cloacamonas
           acidaminovorans]
          Length = 503

 Score = 49.3 bits (117), Expect = 0.001,   Method: Composition-based stats.
 Identities = 33/130 (25%), Positives = 62/130 (47%), Gaps = 15/130 (11%)

Query: 101 LPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN 160
           +   +  R  V S +Q  ++++RE ER    L  K KVG+I+ G V R+      +DLG 
Sbjct: 172 IECSENCRRIVVSHRQ--LEEMREQERKETALA-KLKVGDIVKGKVLRMTTFGAFIDLGG 228

Query: 161 SDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHM 214
            +G++   E         ++ L+ G  ++  I D+    +G ++ LSR     +   F +
Sbjct: 229 IEGLMHVSEISWQHIVRPQDELKKGQEIEVKILDI----KGEKIALSRK--VLLEDPFEV 282

Query: 215 EVPEIYNGIV 224
            + E++ G +
Sbjct: 283 AMKELHEGDI 292



 Score = 36.6 bits (84), Expect = 9.3,   Method: Composition-based stats.
 Identities = 28/168 (16%), Positives = 62/168 (36%), Gaps = 25/168 (14%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E   +  +IS +        +  G  +   +  +   ++A+        + + E   +  
Sbjct: 230 EGLMHVSEISWQHIVRPQDELKKGQEIEVKILDIKGEKIALS------RKVLLEDPFEVA 283

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI-------SRENLRPGDRV 182
             E     G+II+  V R+       +L    +G+I   E          R+ ++ GD V
Sbjct: 284 MKEL--HEGDIINCRVLRLHNFGAFAELKPGVEGLIPISEMSRNRNISHPRDIVKEGDWV 341

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQF-----MVKLFHMEVPEIYNGIVQ 225
           +  I  +  +    ++ LS    +      + ++  +E P  + GIV+
Sbjct: 342 QVQILRIDEDTH--KISLSLKALEADPWDKIDEIIQLETP--FEGIVE 385


>gi|82617156|emb|CAI64063.1| DNA repair and recombination protein [uncultured archaeon]
 gi|82617268|emb|CAI64174.1| DNA repair and recombination protein [uncultured archaeon]
 gi|268323001|emb|CBH36589.1| DNA repair and recombination protein radA [uncultured archaeon]
          Length = 315

 Score = 49.3 bits (117), Expect = 0.001,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 24/55 (43%)

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           +   V   IA  L   G+  +E +A    +E+ +     E T+ +I   ARE  E
Sbjct: 5   ELPGVGPAIAEKLREAGYNSLEAIAVASPAELVAAAEIGEATSAKIINSAREAAE 59


>gi|170290825|ref|YP_001737641.1| DNA repair and recombination protein RadA [Candidatus Korarchaeum
           cryptofilum OPF8]
 gi|170174905|gb|ACB07958.1| DNA repair and recombination protein RadA [Candidatus Korarchaeum
           cryptofilum OPF8]
          Length = 336

 Score = 49.3 bits (117), Expect = 0.001,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 22/56 (39%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
             +   V    A  L   GF  +E +A    SE+A   G  E  A +I   AR  L
Sbjct: 29  LTELEGVGPATAKRLAEAGFTSLESIAMSTPSELAVYAGISEAVAQKIIQAARSKL 84



 Score = 38.5 bits (89), Expect = 2.8,   Method: Composition-based stats.
 Identities = 13/76 (17%), Positives = 27/76 (35%), Gaps = 17/76 (22%)

Query: 434 SEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGT 493
             +L  + G+       L E G  ++E +A  +  +L  ++                 G 
Sbjct: 26  DYDLTELEGVGPATAKRLAEAGFTSLESIAMSTPSELAVYA-----------------GI 68

Query: 494 PKDQVESMIIHARYKM 509
            +   + +I  AR K+
Sbjct: 69  SEAVAQKIIQAARSKL 84


>gi|124486202|ref|YP_001030818.1| hypothetical protein Mlab_1385 [Methanocorpusculum labreanum Z]
 gi|124363743|gb|ABN07551.1| NusA family KH domain protein [Methanocorpusculum labreanum Z]
          Length = 151

 Score = 49.3 bits (117), Expect = 0.001,   Method: Composition-based stats.
 Identities = 20/75 (26%), Positives = 35/75 (46%), Gaps = 2/75 (2%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI 311
           G  +G  G  ++ +   L  ++I++V +  D   F+ N  +PA V  V        + + 
Sbjct: 49  GIAIGKGGDNIKKMSRVL-GKRIEMVEFDEDREVFIANMFKPAEVASVSYGGRDEPVMIT 107

Query: 312 VPKE-QLSLAIGRRG 325
           VP+     LAIG+ G
Sbjct: 108 VPERGDFGLAIGKGG 122


>gi|260437065|ref|ZP_05790881.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Butyrivibrio
           crossotus DSM 2876]
 gi|292810374|gb|EFF69579.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Butyrivibrio
           crossotus DSM 2876]
          Length = 367

 Score = 49.3 bits (117), Expect = 0.002,   Method: Composition-based stats.
 Identities = 31/133 (23%), Positives = 63/133 (47%), Gaps = 10/133 (7%)

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMD-FGRVAVQSAKQVIIQKVREAE 126
           V++E + +     +    ++D S   G  +   +   +   R  +   KQ+++ K +   
Sbjct: 129 VIDETKVFIPASLVSDTYEKDLSKYAGQEIEFVITEFNPRKRRIIGDRKQLLVAK-KAKM 187

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGD 180
           R+    +    VG++++GTVK V    V +D+G  DG++   E         ++  +PGD
Sbjct: 188 REEVMSKIA--VGQVVTGTVKNVTDFGVFIDIGGVDGLLHVSEISWGRIENPKKKFKPGD 245

Query: 181 RVKSYIYDVRREQ 193
            VK+YI D+  ++
Sbjct: 246 EVKAYIKDINNDK 258


>gi|240102188|ref|YP_002958496.1| DNA repair and recombination protein RadA [Thermococcus
           gammatolerans EJ3]
 gi|239909741|gb|ACS32632.1| DNA repair and recombination protein RadA (radA) [Thermococcus
           gammatolerans EJ3]
          Length = 355

 Score = 49.3 bits (117), Expect = 0.002,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 21/55 (38%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
                 V    A  L   G+  +E +A     E+  I G  E  A++I   ARE 
Sbjct: 43  LEDLPGVGPATAEKLREAGYDSIEAIAVASPLELKEIAGISEGAALKIIQAAREA 97


>gi|254173225|ref|ZP_04879898.1| DNA repair and recombination protein RadA [Thermococcus sp. AM4]
 gi|214032634|gb|EEB73463.1| DNA repair and recombination protein RadA [Thermococcus sp. AM4]
          Length = 352

 Score = 49.3 bits (117), Expect = 0.002,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 21/55 (38%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
                 V    A  L   G+  +E +A     E+  I G  E  A++I   ARE 
Sbjct: 40  LEDLPGVGPATAEKLREAGYDSIEAIAVASPLELKEIAGISEGAALKIIQAAREA 94


>gi|154248881|ref|YP_001409706.1| DNA ligase, NAD-dependent [Fervidobacterium nodosum Rt17-B1]
 gi|190359256|sp|A7HJG6|DNLJ_FERNB RecName: Full=DNA ligase; AltName: Full=Polydeoxyribonucleotide
           synthase [NAD+]
 gi|154152817|gb|ABS60049.1| DNA ligase, NAD-dependent [Fervidobacterium nodosum Rt17-B1]
          Length = 681

 Score = 49.3 bits (117), Expect = 0.002,   Method: Composition-based stats.
 Identities = 31/133 (23%), Positives = 54/133 (40%), Gaps = 9/133 (6%)

Query: 340 DIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIE 399
           +I++E E S     +        +    V E IA +L  + +  +EEL+   I E++ IE
Sbjct: 490 NILSEIEKSKQNPIEKLLVG---LGIPGVGEKIAKVLAKK-YKSMEELSKADIKELSEIE 545

Query: 400 GFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTM 459
           G  E+ A  I      +       + +K+R+ GV   L S     S I   L      T+
Sbjct: 546 GIGEDIAKNIVEY---FNSPKTKEILEKLRKAGV--NLESAETTTSNILDGLTFCVTGTL 600

Query: 460 EDLAGCSVDDLLG 472
           E+ +   +   + 
Sbjct: 601 ENFSREEIKRFIE 613



 Score = 38.1 bits (88), Expect = 3.3,   Method: Composition-based stats.
 Identities = 32/126 (25%), Positives = 53/126 (42%), Gaps = 15/126 (11%)

Query: 363 MQAINVDEIIAHLLVAEGF-ADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           M    +   I   +V  G   D+ +L  + I ++A I G   +    I       L  I+
Sbjct: 444 MDIQGLGPKIISKIVDAGLVKDIADLYYLNIFDLAQISGLGPKMISNI-------LSEIE 496

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKG 478
            + Q  I +L V      IPG+  KI   L +   K+ME+L+   + +L    G  E+  
Sbjct: 497 KSKQNPIEKLLVG---LGIPGVGEKIAKVLAKK-YKSMEELSKADIKELSEIEGIGEDIA 552

Query: 479 GNIEKF 484
            NI ++
Sbjct: 553 KNIVEY 558


>gi|315231638|ref|YP_004072074.1| DNA repair and recombination RadA-like protein [Thermococcus
           barophilus MP]
 gi|315184666|gb|ADT84851.1| DNA repair and recombination RadA-like protein [Thermococcus
           barophilus MP]
          Length = 355

 Score = 49.3 bits (117), Expect = 0.002,   Method: Composition-based stats.
 Identities = 16/75 (21%), Positives = 28/75 (37%)

Query: 342 ITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
           ++ + +     K   +  +       V    A  L   G+  +E +A     E+  I G 
Sbjct: 23  LSIDAEVAKTSKKKKKEIKTLEDLPGVGPATAEKLREAGYDSLEAIAVASPIELKEIAGI 82

Query: 402 DEETAVEIQGRAREY 416
            E  A++I   ARE 
Sbjct: 83  SEGAALKIIQAAREA 97


>gi|291460381|ref|ZP_06599771.1| ribosomal protein S1 [Oribacterium sp. oral taxon 078 str. F0262]
 gi|291416948|gb|EFE90667.1| ribosomal protein S1 [Oribacterium sp. oral taxon 078 str. F0262]
          Length = 374

 Score = 49.3 bits (117), Expect = 0.002,   Method: Composition-based stats.
 Identities = 25/132 (18%), Positives = 60/132 (45%), Gaps = 12/132 (9%)

Query: 81  LKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGE 140
           +  + +RD +   G  +   +   +  +  V   ++ I+  +++ + D+ + E   + G+
Sbjct: 135 VSDSFERDLNKYQGQDIQFVITEFNPQKRRVIGDRKQIMLALKKEQHDKLFAEL--REGD 192

Query: 141 IISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           + +G VK +      +DLG +DG++   E         ++  +PG  VK  + ++     
Sbjct: 193 VRTGVVKNLTDFGAFIDLGGADGLLHISEMSWGRIENPKKLFKPGQEVKVLVKEI----N 248

Query: 195 GPQVLLSRTHPQ 206
           G ++ L+R  P 
Sbjct: 249 GERIALTRKFPD 260


>gi|124027840|ref|YP_001013160.1| DNA repair and recombination protein RadA [Hyperthermus butylicus
           DSM 5456]
 gi|123978534|gb|ABM80815.1| DNA repair and recombination protein [Hyperthermus butylicus DSM
           5456]
          Length = 323

 Score = 49.3 bits (117), Expect = 0.002,   Method: Composition-based stats.
 Identities = 17/76 (22%), Positives = 30/76 (39%)

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
             +  +       V    A+ L+  G+A +E +A     E+++  G     A  I   AR
Sbjct: 2   AKQEIKSITDLPGVGPATANKLIEAGYATIEAIAVATPQELSAAAGIPLTAAQRIIKAAR 61

Query: 415 EYLEGIDITLQKKIRE 430
           E L+    T  +  +E
Sbjct: 62  EALDIRFKTALEVKKE 77


>gi|134045257|ref|YP_001096743.1| transcription elongation factor NusA-like protein [Methanococcus
           maripaludis C5]
 gi|132662882|gb|ABO34528.1| NusA family KH domain protein [Methanococcus maripaludis C5]
          Length = 173

 Score = 48.9 bits (116), Expect = 0.002,   Method: Composition-based stats.
 Identities = 21/80 (26%), Positives = 36/80 (45%), Gaps = 3/80 (3%)

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV--VLDEDVGRI 308
           +GA +G  G  V+    +   +KID++ +S D+  F+ N   P  +  V      D   +
Sbjct: 43  IGAAIGKGGENVRNATEKF-GKKIDLIEYSEDAKQFIKNIFAPIELEDVWTKKFSDDLVV 101

Query: 309 EVIVPKEQLSLAIGRRGQNV 328
            V V        IG +G+N+
Sbjct: 102 YVRVHPRLRRAVIGDKGKNI 121



 Score = 38.1 bits (88), Expect = 4.0,   Method: Composition-based stats.
 Identities = 20/71 (28%), Positives = 35/71 (49%), Gaps = 2/71 (2%)

Query: 291 LRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
           +  A V     D++  +I  +V +  +  AIG+ G+NVR A++  G  ID+I   ED+  
Sbjct: 19  MTGANVIDSTSDDE--KIVFVVKEGDIGAAIGKGGENVRNATEKFGKKIDLIEYSEDAKQ 76

Query: 351 RQKDFNERTQF 361
             K+     + 
Sbjct: 77  FIKNIFAPIEL 87


>gi|167044139|gb|ABZ08822.1| putative KH domain protein [uncultured marine crenarchaeote
           HF4000_APKG5C13]
          Length = 154

 Score = 48.9 bits (116), Expect = 0.002,   Method: Composition-based stats.
 Identities = 24/88 (27%), Positives = 45/88 (51%), Gaps = 7/88 (7%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD---EDVGRI 308
           G  +G  GS ++++   L+   +++V +  D   F+ N L P  V +V LD   +   ++
Sbjct: 48  GLAIGKGGSNIKSLQNILKR-NVELVEYFDDPIKFLKNILNPKFVNEVKLDTKPDGSSQV 106

Query: 309 EVIVPKEQLSLAIGRRGQN---VRLASQ 333
            +IV   +  L +GR G+N    RL ++
Sbjct: 107 TIIVDHGKKGLVVGRDGRNAEKARLFAK 134


>gi|88603707|ref|YP_503885.1| ski2-like helicase [Methanospirillum hungatei JF-1]
 gi|88189169|gb|ABD42166.1| DEAD/DEAH box helicase-like protein [Methanospirillum hungatei
           JF-1]
          Length = 799

 Score = 48.9 bits (116), Expect = 0.002,   Method: Composition-based stats.
 Identities = 36/107 (33%), Positives = 49/107 (45%), Gaps = 9/107 (8%)

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASI--EGFDEETAVEIQGRAREYLEGIDITL 424
           N+  + A  L   G+ D E +A   +S IA I  EG   +   EI G  R  +   D   
Sbjct: 650 NIGRVRARTLYNAGYPDPEAVARAGLSTIARIIGEGIARQVIDEITGVKRSGIHSSDDDY 709

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
           Q+K  EL     L  IPGI  K+   L   GI T+ DL   + D++L
Sbjct: 710 QQKTPEL-----LTDIPGIGKKMAEKLQNAGIITVSDL--LTADEVL 749


>gi|163782100|ref|ZP_02177099.1| ribosomal protein S01 [Hydrogenivirga sp. 128-5-R1-1]
 gi|159882632|gb|EDP76137.1| ribosomal protein S01 [Hydrogenivirga sp. 128-5-R1-1]
          Length = 535

 Score = 48.9 bits (116), Expect = 0.002,   Method: Composition-based stats.
 Identities = 19/63 (30%), Positives = 37/63 (58%), Gaps = 3/63 (4%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           K G+I++G V +++   V VD+G   +GVI R+E    E+++ GD +++ I  +      
Sbjct: 19  KKGKIVTGRVIKIDDRYVYVDIGYKVEGVIPREEV--GEDIKEGDEIQAVIVKISPRLDY 76

Query: 196 PQV 198
           P++
Sbjct: 77  PRL 79



 Score = 40.4 bits (94), Expect = 0.81,   Method: Composition-based stats.
 Identities = 15/64 (23%), Positives = 31/64 (48%), Gaps = 2/64 (3%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
            G  + GTV++   G  IVD+      +   E  + + L  G  V+  + ++  ++  P+
Sbjct: 99  EGRDVVGTVEKKTKGGFIVDIEGVKAFLPASE--AGKKLSVGKPVRVKVIEISLQKDRPR 156

Query: 198 VLLS 201
           V++S
Sbjct: 157 VIVS 160


>gi|150402535|ref|YP_001329829.1| transcription elongation factor NusA-like protein [Methanococcus
           maripaludis C7]
 gi|150033565|gb|ABR65678.1| NusA family KH domain protein [Methanococcus maripaludis C7]
          Length = 173

 Score = 48.9 bits (116), Expect = 0.002,   Method: Composition-based stats.
 Identities = 21/80 (26%), Positives = 36/80 (45%), Gaps = 3/80 (3%)

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV--VLDEDVGRI 308
           +GA +G  G  V++   +   +KID++ +S D   F+ N   P  +  V      D   +
Sbjct: 43  IGAAIGKGGENVKSATEKF-GKKIDLIEYSEDVKQFIKNIFAPVELEDVWTKKFSDDLVV 101

Query: 309 EVIVPKEQLSLAIGRRGQNV 328
            V V        IG +G+N+
Sbjct: 102 YVRVHPRLRRAVIGDKGKNI 121



 Score = 37.4 bits (86), Expect = 6.9,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 34/71 (47%), Gaps = 2/71 (2%)

Query: 291 LRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
           +  A V     D++  +I  +V +  +  AIG+ G+NV+ A++  G  ID+I   ED   
Sbjct: 19  MTGANVIDSTSDDE--KIVFVVKEGDIGAAIGKGGENVKSATEKFGKKIDLIEYSEDVKQ 76

Query: 351 RQKDFNERTQF 361
             K+     + 
Sbjct: 77  FIKNIFAPVEL 87


>gi|212224798|ref|YP_002308034.1| DNA repair and recombination protein RadA [Thermococcus onnurineus
           NA1]
 gi|212009755|gb|ACJ17137.1| radA DNA repair protein rad51 [Thermococcus onnurineus NA1]
          Length = 353

 Score = 48.9 bits (116), Expect = 0.002,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 22/58 (37%)

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
            +       V    A  L   G+  +E +A     E+  I G  E  A++I   ARE 
Sbjct: 38  IKTLEDLPGVGPATAEKLREAGYDSIEAIAVASPMELKEIAGISEGAALKIIQAAREA 95


>gi|323356451|ref|YP_004222847.1| 30S ribosomal protein S1 [Microbacterium testaceum StLB037]
 gi|323272822|dbj|BAJ72967.1| 30S ribosomal protein S1 [Microbacterium testaceum StLB037]
          Length = 484

 Score = 48.9 bits (116), Expect = 0.002,   Method: Composition-based stats.
 Identities = 27/103 (26%), Positives = 51/103 (49%), Gaps = 16/103 (15%)

Query: 111 VQSAKQVIIQKVREAER-----DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGV 164
             + KQV I  +  AE      ++    F D  G++I GTV +++   V++D+G  ++GV
Sbjct: 7   APAIKQVAINDIGSAEDFLAAVEKTLKFFND--GDLIEGTVVKIDRDEVLLDVGYKTEGV 64

Query: 165 IRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           I   E          E +  GD V++ +   ++E +  +++LS
Sbjct: 65  IPSRELSIKHDVDPNEVVNVGDHVEALVL--QKEDKEGRLILS 105


>gi|300727965|ref|ZP_07061343.1| hemin-binding protein [Prevotella bryantii B14]
 gi|299774807|gb|EFI71421.1| hemin-binding protein [Prevotella bryantii B14]
          Length = 593

 Score = 48.9 bits (116), Expect = 0.002,   Method: Composition-based stats.
 Identities = 32/112 (28%), Positives = 57/112 (50%), Gaps = 13/112 (11%)

Query: 122 VREAERDRQYLEFKDK--VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           V +A+ ++ Y E  +K    E++ GTV  ++   VIV++G  SDG+I   E      L+ 
Sbjct: 26  VSKADLEKAYDETLNKIQEHEVVEGTVIALDKKEVIVNIGYKSDGIIPASEFRYNPELKI 85

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMV------KLFHMEVPEIYNGIV 224
           GD+V+ Y+ D + +++G Q++LS    +         +    E  EI  G +
Sbjct: 86  GDKVEVYVED-QEDKKG-QLVLSHKKARLAKSWDKINEALENE--EIIQGYI 133



 Score = 39.3 bits (91), Expect = 1.6,   Method: Composition-based stats.
 Identities = 31/130 (23%), Positives = 55/130 (42%), Gaps = 10/130 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +   RD D  + +G  +   +  ++     V  + + +I+   EA+R   
Sbjct: 149 EAFLPGSQIDVHPIRDYD--VFVGKTMEFKVVKINQEFRNVVVSHKALIEAELEAQRKEI 206

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
             + +   G+I+ GTVK +    V VDLG  DG+I   +          E +    ++K 
Sbjct: 207 IGKLE--KGQILEGTVKNITSYGVFVDLGGVDGLIHITDLSWGRVSDPHEVVALDQKIKV 264

Query: 185 YIYDVRREQR 194
            I D   E++
Sbjct: 265 VILDFDEEKK 274


>gi|206901601|ref|YP_002251093.1| ribosomal protein S1, putative [Dictyoglomus thermophilum H-6-12]
 gi|206740704|gb|ACI19762.1| ribosomal protein S1, putative [Dictyoglomus thermophilum H-6-12]
          Length = 552

 Score = 48.9 bits (116), Expect = 0.002,   Method: Composition-based stats.
 Identities = 35/148 (23%), Positives = 66/148 (44%), Gaps = 22/148 (14%)

Query: 68  VVEEVEN-----YTCQISLKVARDRDPSIDIGGVVSDPL-PPMDFGRVAVQSAKQVIIQK 121
           +V +V+N        +IS    +D   S+ +G  V   +    D  +    S KQV    
Sbjct: 293 IVVKVDNLIGYVPMSEISWGRPQDVKNSLKVGDKVKAKVLSVDDLNQKIFLSIKQVEPN- 351

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRD----ETISR--E 174
                 +     +K  +GEI+SG V  +    + +++    +G+I R     E IS   +
Sbjct: 352 ----PWEVIDQNYK--IGEIVSGKVTNITDFGIFIEIKPGLEGLIPRKLISWERISNISD 405

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSR 202
             +PGD +++ I ++ +E +  ++ LSR
Sbjct: 406 IFKPGDFIEAKIIEIDKENK--KLTLSR 431


>gi|20807800|ref|NP_622971.1| ribosomal protein S1 [Thermoanaerobacter tengcongensis MB4]
 gi|20516357|gb|AAM24575.1| Ribosomal protein S1 [Thermoanaerobacter tengcongensis MB4]
          Length = 367

 Score = 48.9 bits (116), Expect = 0.002,   Method: Composition-based stats.
 Identities = 30/129 (23%), Positives = 56/129 (43%), Gaps = 15/129 (11%)

Query: 81  LKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK--V 138
           L   R  +    +G ++   +     G+  + S K+VI       E ++   E  ++   
Sbjct: 136 LSTKRVENLEEYLGKILELLIIEYVPGKKIIASRKEVIK-----LEEEKMKAELLERLEE 190

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDET------ISRENLRPGDRVKSYIYDVRRE 192
           G++I G V R+      V+LG  DG I   E          E ++PG +V +Y+  V ++
Sbjct: 191 GDVIEGKVSRIIPKGAFVNLGGMDGFIPISELGHGRIKSPEEVIKPGHKVSAYVLKVDKK 250

Query: 193 QRGPQVLLS 201
           +   ++ LS
Sbjct: 251 EG--KITLS 257


>gi|237757008|ref|ZP_04585463.1| putative N utilization substance protein A [Sulfurihydrogenibium
          yellowstonense SS-5]
 gi|237690826|gb|EEP59979.1| putative N utilization substance protein A [Sulfurihydrogenibium
          yellowstonense SS-5]
          Length = 75

 Score = 48.9 bits (116), Expect = 0.002,   Method: Composition-based stats.
 Identities = 13/74 (17%), Positives = 34/74 (45%), Gaps = 2/74 (2%)

Query: 6  RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSD--IRVEINPETGDISLF 63
           ++L  + + ++ E++I  DV+   + D I  A +  +       +++  + E  ++ + 
Sbjct: 2  SVKLKNVIETISRERNIPEDVIEKALKDGILTAVKKEFKLREKGAVKIIFDKEKDELKVL 61

Query: 64 RLLEVVEEVENYTC 77
             +V   VE+ T 
Sbjct: 62 IKKKVTPFVEDETK 75


>gi|229825037|ref|ZP_04451106.1| hypothetical protein GCWU000182_00387 [Abiotrophia defectiva ATCC
           49176]
 gi|229790784|gb|EEP26898.1| hypothetical protein GCWU000182_00387 [Abiotrophia defectiva ATCC
           49176]
          Length = 647

 Score = 48.9 bits (116), Expect = 0.002,   Method: Composition-based stats.
 Identities = 30/141 (21%), Positives = 61/141 (43%), Gaps = 14/141 (9%)

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPL-PPMDFGRVAVQSAKQVIIQKVREAE 126
           VV+E   +     +    +++     G  +   +       R  +   KQ++  K  E  
Sbjct: 403 VVDEARVFIPASLVSDTYEKNLDKYAGEEIEFVISEFNPKKRRVIGDRKQILTAKKNEL- 461

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGD 180
           +   + +    VG+++ GTVK V      +DLG +DG++   E         ++  + GD
Sbjct: 462 KKALFEKLA--VGQVVDGTVKNVTDFGAFIDLGGADGLLHISEMSWGHIENPKKVFKVGD 519

Query: 181 RVKSYIYDVRREQRGPQVLLS 201
            VK+++ D++    G ++ LS
Sbjct: 520 MVKTFVKDIQ----GEKIALS 536


>gi|154483595|ref|ZP_02026043.1| hypothetical protein EUBVEN_01299 [Eubacterium ventriosum ATCC
           27560]
 gi|149735505|gb|EDM51391.1| hypothetical protein EUBVEN_01299 [Eubacterium ventriosum ATCC
           27560]
          Length = 365

 Score = 48.5 bits (115), Expect = 0.002,   Method: Composition-based stats.
 Identities = 29/128 (22%), Positives = 60/128 (46%), Gaps = 14/128 (10%)

Query: 81  LKVARDRDPSIDIGGVVSDPLPPMD-FGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVG 139
           +  A +RD    +   +   +   +   R  +   KQ+I+ + +EA +   + + +  VG
Sbjct: 137 VSDAFERDLDKYLNQEIEFVVTEFNPKKRRIIGDRKQLIVAE-KEAAKKALFEKIE--VG 193

Query: 140 EIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           + ++G VK V      +D+G +DG++   E         R+  +PGD V ++I ++    
Sbjct: 194 QTVTGVVKSVVDFGAFIDIGGADGLLHISEMSWGRVGNPRKLFKPGDEVTAFIKEI---- 249

Query: 194 RGPQVLLS 201
            G ++ LS
Sbjct: 250 NGDKIALS 257


>gi|284162092|ref|YP_003400715.1| NusA family KH domain protein [Archaeoglobus profundus DSM 5631]
 gi|284012089|gb|ADB58042.1| NusA family KH domain protein [Archaeoglobus profundus DSM 5631]
          Length = 139

 Score = 48.5 bits (115), Expect = 0.002,   Method: Composition-based stats.
 Identities = 17/64 (26%), Positives = 27/64 (42%), Gaps = 1/64 (1%)

Query: 279 WSPDSATFVINALRPAIV-TKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
            S +   F+ N  +P  V  K++         V V  +   L IG+ G+N+  A +L   
Sbjct: 70  HSDNPEEFIANIFKPIKVNVKIIEKGGKKIAIVSVNPQYKGLVIGKGGKNINKAKELAKR 129

Query: 338 TIDI 341
             DI
Sbjct: 130 HHDI 133


>gi|13878668|sp|O73948|RADA_METVO RecName: Full=DNA repair and recombination protein radA
 gi|3219351|gb|AAC23499.1| RadA [Methanococcus voltae PS]
          Length = 322

 Score = 48.5 bits (115), Expect = 0.002,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 25/58 (43%)

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
            +        V    A  LV  G+ D  ++A   + E+  IEG  E+ A ++   AR+
Sbjct: 1   MSDNLTDLPGVGPSTAEKLVEAGYIDFMKIATATVGELTDIEGISEKAAAKMIMGARD 58



 Score = 38.5 bits (89), Expect = 2.8,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 24/74 (32%), Gaps = 17/74 (22%)

Query: 433 VSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLG 492
           +S+ L  +PG+       L E G             D +  +    G +   +G      
Sbjct: 1   MSDNLTDLPGVGPSTAEKLVEAGYI-----------DFMKIATATVGELTDIEGI----- 44

Query: 493 TPKDQVESMIIHAR 506
             +     MI+ AR
Sbjct: 45  -SEKAAAKMIMGAR 57


>gi|18181993|dbj|BAB83904.1| homologue of the bacterial recA and yeast RAD51/DMC1 [Aeropyrum
           pernix]
          Length = 319

 Score = 48.5 bits (115), Expect = 0.003,   Method: Composition-based stats.
 Identities = 16/66 (24%), Positives = 25/66 (37%)

Query: 352 QKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
             + N   +       V    A  L+  G+  +E +A     E++   G    TA +I  
Sbjct: 1   MGEDNREIKDITDLPGVGPTTAQKLMEAGYTTLEAIAAATPQEVSQATGIPILTAQKIVD 60

Query: 412 RAREYL 417
            ARE L
Sbjct: 61  AAREAL 66


>gi|159905690|ref|YP_001549352.1| transcription elongation factor NusA-like protein [Methanococcus
           maripaludis C6]
 gi|159887183|gb|ABX02120.1| NusA family KH domain protein [Methanococcus maripaludis C6]
          Length = 173

 Score = 48.5 bits (115), Expect = 0.003,   Method: Composition-based stats.
 Identities = 21/80 (26%), Positives = 36/80 (45%), Gaps = 3/80 (3%)

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV--VLDEDVGRI 308
           +GA +G  G  V++   +   +KID++ +S D   F+ N   P  +  V      D   +
Sbjct: 43  IGAAIGKGGENVKSATEKF-GKKIDLIEYSEDVKQFIKNIFAPIELEDVWTKKFSDDLVV 101

Query: 309 EVIVPKEQLSLAIGRRGQNV 328
            V V        IG +G+N+
Sbjct: 102 YVRVHPRLRRAVIGDKGKNI 121



 Score = 37.0 bits (85), Expect = 7.1,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 34/71 (47%), Gaps = 2/71 (2%)

Query: 291 LRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
           +  A V     D++  +I  +V +  +  AIG+ G+NV+ A++  G  ID+I   ED   
Sbjct: 19  MTGANVIDSTSDDE--KIVFVVKEGDIGAAIGKGGENVKSATEKFGKKIDLIEYSEDVKQ 76

Query: 351 RQKDFNERTQF 361
             K+     + 
Sbjct: 77  FIKNIFAPIEL 87


>gi|261880726|ref|ZP_06007153.1| 30S ribosomal protein S1 [Prevotella bergensis DSM 17361]
 gi|270332500|gb|EFA43286.1| 30S ribosomal protein S1 [Prevotella bergensis DSM 17361]
          Length = 590

 Score = 48.5 bits (115), Expect = 0.003,   Method: Composition-based stats.
 Identities = 27/94 (28%), Positives = 47/94 (50%), Gaps = 5/94 (5%)

Query: 119 IQKVREAERDRQYLEFKDK--VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISREN 175
            Q       +  Y E  +K    E++ GTV  V+   V+V++G  SDG+I   E      
Sbjct: 23  SQSASREALENAYDETLNKIQEHEVVEGTVISVDKKEVVVNIGYKSDGIIPASEFRYNPE 82

Query: 176 LRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMV 209
           L+ GD+V+ Y+ D + +++G Q++LS    +   
Sbjct: 83  LKVGDKVEVYVED-QEDKKG-QLVLSHKKARLTK 114



 Score = 36.6 bits (84), Expect = 9.6,   Method: Composition-based stats.
 Identities = 30/131 (22%), Positives = 50/131 (38%), Gaps = 12/131 (9%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +   RD D  +             +F R  V S K +I  ++   +R+  
Sbjct: 149 EAFLPGSQIDVHPIRDYDVFVGKTMEFKVVKINQEF-RNVVVSHKALIEAELEAQKREII 207

Query: 131 YLEFKDKV-GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVK 183
                    G+++ GTVK +    V VDLG  DG++   +          E +    ++K
Sbjct: 208 ----SHLEKGQVLEGTVKNITSYGVFVDLGGVDGLVHITDLSWGRVSDPHEVVELDQKIK 263

Query: 184 SYIYDVRREQR 194
             I D   E++
Sbjct: 264 VVILDFDEERK 274


>gi|148223319|ref|NP_001080559.1| DNA repair protein RAD51 homolog B [Xenopus laevis]
 gi|2500106|sp|Q91917|RA51B_XENLA RecName: Full=DNA repair protein RAD51 homolog B; Short=xRAD51.2
 gi|1054622|dbj|BAA07500.1| XRad51.2 [Xenopus laevis]
 gi|28302165|gb|AAH46650.1| Rad51 protein [Xenopus laevis]
 gi|80477159|gb|AAI08487.1| Rad51 protein [Xenopus laevis]
          Length = 336

 Score = 48.5 bits (115), Expect = 0.003,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 28/68 (41%)

Query: 346 EDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEET 405
           +     +++F  +    ++   ++      L   GF  VE +A     E+ +I+G  E  
Sbjct: 8   QAEATEEENFGPQAITRLEQCGINANDVKKLEDAGFHTVEAVAYAPKKELLNIKGISEAK 67

Query: 406 AVEIQGRA 413
           A +I   A
Sbjct: 68  AEKILAEA 75


>gi|225174807|ref|ZP_03728804.1| hydroxymethylbutenyl pyrophosphate reductase [Dethiobacter
           alkaliphilus AHT 1]
 gi|225169447|gb|EEG78244.1| hydroxymethylbutenyl pyrophosphate reductase [Dethiobacter
           alkaliphilus AHT 1]
          Length = 678

 Score = 48.5 bits (115), Expect = 0.003,   Method: Composition-based stats.
 Identities = 26/99 (26%), Positives = 49/99 (49%), Gaps = 11/99 (11%)

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDE------TISRENL 176
           E   D++  EF    G++++GTV +V    V+VD+G  S+GV+ R E       +  + +
Sbjct: 293 EVSLDQEIKEFSA--GDVVTGTVVQVSDDEVLVDIGYKSEGVLPRQEVILEGDQMLADVM 350

Query: 177 RPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHME 215
             G  V+  +  V  ++   +++LSR   +   K   +E
Sbjct: 351 ENGQEVEVAVKKVDDQEG--RIILSRKAIERKQKWAELE 387



 Score = 38.5 bits (89), Expect = 2.6,   Method: Composition-based stats.
 Identities = 29/146 (19%), Positives = 60/146 (41%), Gaps = 18/146 (12%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              ++ L+  +     ++ G  V   +  +D     +  +++ I +K + AE ++ + E 
Sbjct: 334 PRQEVILEGDQMLADVMENGQEVEVAVKKVDDQEGRIILSRKAIERKQKWAELEKAFEE- 392

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNS-DGVIRRD----ETISRENLRPGDRVKSYIYDV 189
               G I+SG VK      ++V+LG   D  +         I   N   G  +   I ++
Sbjct: 393 ----GTILSGKVKEAVPAGLVVELGGGYDAFMPGSLVDVRYIPDFNEFQGQEISFKIIEM 448

Query: 190 RREQRGPQVLLSRTHPQFMVKLFHME 215
           R E+   +++LSR       ++   E
Sbjct: 449 RPEKE--KLILSR------KQVLEEE 466



 Score = 37.4 bits (86), Expect = 5.9,   Method: Composition-based stats.
 Identities = 36/137 (26%), Positives = 58/137 (42%), Gaps = 13/137 (9%)

Query: 67  EVVEEVENYTCQI--SLKVARDR-DPSIDIGGVVSDPL-PPMDFGRVAVQSAKQVIIQKV 122
            VVE    Y   +  SL   R   D +   G  +S  +          + S KQV+ ++ 
Sbjct: 408 LVVELGGGYDAFMPGSLVDVRYIPDFNEFQGQEISFKIIEMRPEKEKLILSRKQVLEEEA 467

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENL 176
              ++D+   E +   G+II GTVKR+      VD+G  DG++   E          E L
Sbjct: 468 -AVQKDKVLAELEP--GQIIKGTVKRLTNFGAFVDVGGIDGLVHISEISWHRIDNPGEVL 524

Query: 177 RPGDRVKSYIYDVRREQ 193
             GD ++  + +V  E+
Sbjct: 525 SVGDEIEVKVIEVIPER 541


>gi|39996302|ref|NP_952253.1| 30S ribosomal protein S1 [Geobacter sulfurreducens PCA]
 gi|39983182|gb|AAR34576.1| ribosomal protein S1 [Geobacter sulfurreducens PCA]
 gi|298505312|gb|ADI84035.1| RNA-binding S1 domain protein [Geobacter sulfurreducens KN400]
          Length = 402

 Score = 48.5 bits (115), Expect = 0.003,   Method: Composition-based stats.
 Identities = 38/177 (21%), Positives = 70/177 (39%), Gaps = 21/177 (11%)

Query: 33  DSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSID 92
            +++ A R+      ++  EI    G   +     V         QISL+ A   +P+  
Sbjct: 107 SALEDAYRAGIPVEGNVEKEI---KGGFEIKVGGTVRA--FCPYSQISLRRA--ANPAEF 159

Query: 93  IGGVVSDPL-PPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD--KVGEIISGTVKRV 149
           +G  +   +    + GR  V S      + + E E  ++    KD  K G  ++GTV R+
Sbjct: 160 VGRQLLFKVVEFAERGRNIVLS-----HRAILEEEERQKREALKDTLKEGTTLTGTVTRL 214

Query: 150 EYGNVIVDLGNSDGVIRRDE----TIS--RENLRPGDRVKSYIYDVRREQRGPQVLL 200
                 VD+G  +G+I   E     +    + L  G++V + +  +  E     + L
Sbjct: 215 MPFGAFVDIGGVEGLIPISEAGWSRVKEIGDVLSVGEQVTALVKRIDWENNKISLSL 271


>gi|329116849|ref|ZP_08245566.1| hypothetical protein SPB_1053 [Streptococcus parauberis NCFD 2020]
 gi|326907254|gb|EGE54168.1| hypothetical protein SPB_1053 [Streptococcus parauberis NCFD 2020]
          Length = 182

 Score = 48.5 bits (115), Expect = 0.003,   Method: Composition-based stats.
 Identities = 28/135 (20%), Positives = 48/135 (35%), Gaps = 14/135 (10%)

Query: 340 DIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIE 399
           D  T E       ++F +  +   + ++ D++    L  +G    EE+   K  E+  I+
Sbjct: 43  DAETVEIVEKPSFEEFAKNPEL--EGLSADKV--KSLYDQGITSPEEIKNFKEEELLDIK 98

Query: 400 GFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTM 459
           G    T  ++           +         L    EL  +  I S +   L   GI T 
Sbjct: 99  GVGPATVEKL----------SETVGVDGKGSLNEFSELKEVADIRSDLVEMLYHEGITTA 148

Query: 460 EDLAGCSVDDLLGWS 474
            D    S DDL+  +
Sbjct: 149 ADFKKWSKDDLIAIN 163


>gi|62858453|ref|NP_001016393.1| RAD51 homolog (RecA homolog) [Xenopus (Silurana) tropicalis]
 gi|134254224|gb|AAI35426.1| hypothetical protein LOC549147 [Xenopus (Silurana) tropicalis]
          Length = 336

 Score = 48.1 bits (114), Expect = 0.003,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 28/68 (41%)

Query: 346 EDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEET 405
           E     +++F  +    ++   ++      L   GF  VE +A     E+ +I+G  E  
Sbjct: 8   EAEATEEENFGPQAISRLEQCGINANDVKKLEEAGFHTVEAVAYAPKKELINIKGISEAK 67

Query: 406 AVEIQGRA 413
           A +I   A
Sbjct: 68  AEKILAEA 75


>gi|307354072|ref|YP_003895123.1| DNA topoisomerase I [Methanoplanus petrolearius DSM 11571]
 gi|307157305|gb|ADN36685.1| DNA topoisomerase I [Methanoplanus petrolearius DSM 11571]
          Length = 932

 Score = 48.1 bits (114), Expect = 0.003,   Method: Composition-based stats.
 Identities = 24/130 (18%), Positives = 49/130 (37%), Gaps = 8/130 (6%)

Query: 342 ITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
           ++ EE      +      +  ++   V  +        GF   E+   +  + +++  G 
Sbjct: 785 LSAEEAESLSHEARLVYNKALLKEYGVPAVSLKKYFDAGFVTPEDFCYIHPAYLSAKTGL 844

Query: 402 DEETAVEIQGRAREYLEGIDITLQKKIRELGVSE---ELCSIPGIDSKIKVALGENGIKT 458
           + +T  +    A    E   + L +K+ +  +     EL SI G+   +   L   GI +
Sbjct: 845 NIDTVYK---HAAIVCEATGVRLPEKVSKKELESGRIELLSIEGLGEAMLEKLYMAGIVS 901

Query: 459 MEDLAGCSVD 468
            + L  CS D
Sbjct: 902 RKKL--CSAD 909



 Score = 42.4 bits (99), Expect = 0.21,   Method: Composition-based stats.
 Identities = 25/145 (17%), Positives = 52/145 (35%), Gaps = 24/145 (16%)

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
             ++ + +   L +     V E+A     +++ + G  +E + ++   A E LE +    
Sbjct: 677 IPSISKDLISNLHSHNIYTVYEIANENPEKLSKVTGISKEDSEKLIREADEVLELLRKRS 736

Query: 425 QKK--IRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
           + K  +R++   +   S     +K+     + GI  ME LA                   
Sbjct: 737 ELKKFVRKIIPPKRGRSH----AKVLNMFFDAGIVDMESLAR------------------ 774

Query: 483 KFDGFLSSLGTPKDQVESMIIHARY 507
                L  +    ++ ES+   AR 
Sbjct: 775 ADKKTLEKMKLSAEEAESLSHEARL 799


>gi|325971203|ref|YP_004247394.1| RNA binding S1 domain protein [Spirochaeta sp. Buddy]
 gi|324026441|gb|ADY13200.1| RNA binding S1 domain protein [Spirochaeta sp. Buddy]
          Length = 571

 Score = 48.1 bits (114), Expect = 0.003,   Method: Composition-based stats.
 Identities = 27/93 (29%), Positives = 47/93 (50%), Gaps = 14/93 (15%)

Query: 126 ERDRQYLEFKDKV-----GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDE--TISRENLR 177
            +D    E+   +     G++++GTV +V    V VD+G  S+G I RDE  +I      
Sbjct: 14  MQDMLQEEYLKSLDGIEDGQLVAGTVVQVNNEYVFVDVGYKSEGRISRDEFASIP----E 69

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVK 210
            G+ VK  I  + +E +G Q+++S+    F  +
Sbjct: 70  VGEEVKVVI--INKEGKGGQIVVSKKRADFKER 100


>gi|257051865|ref|YP_003129698.1| transcription elongation factor NusA-like protein [Halorhabdus
           utahensis DSM 12940]
 gi|256690628|gb|ACV10965.1| NusA family KH domain protein [Halorhabdus utahensis DSM 12940]
          Length = 142

 Score = 48.1 bits (114), Expect = 0.003,   Method: Composition-based stats.
 Identities = 28/93 (30%), Positives = 40/93 (43%), Gaps = 3/93 (3%)

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED--VGRI 308
           VG  +G  G  V  +   L    + +V  +P    FV NAL PA V  V ++E       
Sbjct: 45  VGKAIGRDGETVARIEDRL-GRDVTLVEDAPTPEGFVANALAPAAVYDVTIEERDGERVA 103

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
              V +     AIG  G+ + LA +L G   +I
Sbjct: 104 FADVDEADTGAAIGTEGRTIELARRLAGRHFEI 136


>gi|47222497|emb|CAG13017.1| unnamed protein product [Tetraodon nigroviridis]
          Length = 351

 Score = 48.1 bits (114), Expect = 0.003,   Method: Composition-based stats.
 Identities = 13/68 (19%), Positives = 28/68 (41%)

Query: 346 EDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEET 405
           +  +  +++F  +    ++   +       L   GF  +E +A     E+ +I+G  E  
Sbjct: 10  QAEVEEEENFGPQPLCRLEQCGISASDIKKLEDAGFHTIEAVAYAPKKELLNIKGISEAK 69

Query: 406 AVEIQGRA 413
           A +I   A
Sbjct: 70  ADKILTEA 77


>gi|109157521|pdb|2F1H|A Chain A, Recombinase In Complex With Amp-Pnp And Potassium
 gi|109157522|pdb|2F1I|A Chain A, Recombinase In Complex With Amp-Pnp
 gi|109157523|pdb|2F1J|A Chain A, Recombinase In Complex With Adp
          Length = 322

 Score = 48.1 bits (114), Expect = 0.004,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 24/56 (42%)

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
                   V    A  LV  G+ D  ++A   + E+  IEG  E+ A ++   AR+
Sbjct: 3   DNLTDLPGVGPSTAEKLVEAGYIDFMKIATATVGELTDIEGISEKAAAKMIMGARD 58



 Score = 37.4 bits (86), Expect = 5.6,   Method: Composition-based stats.
 Identities = 13/72 (18%), Positives = 22/72 (30%), Gaps = 17/72 (23%)

Query: 435 EELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTP 494
           + L  +PG+       L E G             D +  +    G +   +G        
Sbjct: 3   DNLTDLPGVGPSTAEKLVEAGYI-----------DFMKIATATVGELTDIEGI------S 45

Query: 495 KDQVESMIIHAR 506
           +     MI+ AR
Sbjct: 46  EKAAAKMIMGAR 57


>gi|18181991|dbj|BAB83903.1| homologue of the bacterial recA and yeast RAD51/DMC1 [Aeropyrum
           pernix]
          Length = 319

 Score = 48.1 bits (114), Expect = 0.004,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 24/66 (36%)

Query: 352 QKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
             +     +       V    A  L+  G+  +E +A     E++   G    TA +I  
Sbjct: 1   MGEDQREIKDITDLPGVGPTTAQKLMEAGYTTLEAIAAATPQEVSQATGIPILTAQKIVD 60

Query: 412 RAREYL 417
            ARE L
Sbjct: 61  AAREAL 66


>gi|52695616|pdb|1T4G|A Chain A, Atpase In Complex With Amp-Pnp
 gi|56967254|pdb|1XU4|A Chain A, Atpase In Complex With Amp-Pnp, Magnesium And Potassium
           Co-F
 gi|88193103|pdb|2FPK|A Chain A, Rada Recombinase In Complex With Adp
 gi|88193104|pdb|2FPL|A Chain A, Rada Recombinase In Complex With Amp-Pnp And Low
           Concentration Of K+
 gi|88193105|pdb|2FPM|A Chain A, Rada Recombinase In Complex With Amp-Pnp And High
           Concentration Of K+
 gi|114793501|pdb|2B21|A Chain A, Rada Recombinase In Complex With Amppnp At Ph 6.0
 gi|118138042|pdb|2I1Q|A Chain A, Rada Recombinase In Complex With Calcium
 gi|257097225|pdb|3FYH|A Chain A, Recombinase In Complex With Adp And Metatungstate
          Length = 322

 Score = 48.1 bits (114), Expect = 0.004,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 24/56 (42%)

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
                   V    A  LV  G+ D  ++A   + E+  IEG  E+ A ++   AR+
Sbjct: 3   DNLTDLPGVGPSTAEKLVEAGYIDFMKIATATVGELTDIEGISEKAAAKMIMGARD 58



 Score = 37.4 bits (86), Expect = 5.9,   Method: Composition-based stats.
 Identities = 13/72 (18%), Positives = 22/72 (30%), Gaps = 17/72 (23%)

Query: 435 EELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTP 494
           + L  +PG+       L E G             D +  +    G +   +G        
Sbjct: 3   DNLTDLPGVGPSTAEKLVEAGYI-----------DFMKIATATVGELTDIEGI------S 45

Query: 495 KDQVESMIIHAR 506
           +     MI+ AR
Sbjct: 46  EKAAAKMIMGAR 57


>gi|41615212|ref|NP_963710.1| DNA repair and recombination protein RadA [Nanoarchaeum equitans
           Kin4-M]
 gi|73913726|sp|Q74MX9|RADA_NANEQ RecName: Full=DNA repair and recombination protein radA
 gi|40068936|gb|AAR39271.1| NEQ426 [Nanoarchaeum equitans Kin4-M]
          Length = 325

 Score = 48.1 bits (114), Expect = 0.004,   Method: Composition-based stats.
 Identities = 14/65 (21%), Positives = 28/65 (43%)

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ 425
             V    A  L++ G+  + ++A   + E+       E TA +I   A E L  ++    
Sbjct: 17  PGVGPKTAEKLISAGYDSLIKIASASVEELMEAADIGEATARKIIEAAMERLGLLEFKTA 76

Query: 426 KKIRE 430
           +++ E
Sbjct: 77  EEVLE 81


>gi|300708611|ref|XP_002996481.1| hypothetical protein NCER_100414 [Nosema ceranae BRL01]
 gi|239605787|gb|EEQ82810.1| hypothetical protein NCER_100414 [Nosema ceranae BRL01]
          Length = 332

 Score = 48.1 bits (114), Expect = 0.004,   Method: Composition-based stats.
 Identities = 15/89 (16%), Positives = 36/89 (40%), Gaps = 5/89 (5%)

Query: 348 SINRQKDFNERTQFFMQ--AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEET 405
            +  + ++   T  F +     +     + LV  G+  VE LA     ++ +I+GF +  
Sbjct: 3   ELIEETEYKSETTSFEELKKAGISLADINKLVEAGYNTVEALAYAPKKQLLTIKGFSDIK 62

Query: 406 AVEIQGRAREYLE---GIDITLQKKIREL 431
             ++   A +++           +K ++L
Sbjct: 63  VDKLIKEAAKFVPMGFTTASAYHEKRKDL 91


>gi|48477813|ref|YP_023519.1| DNA repair and recombination protein RadA [Picrophilus torridus DSM
           9790]
 gi|73913727|sp|Q6L126|RADA_PICTO RecName: Full=DNA repair and recombination protein radA
 gi|48430461|gb|AAT43326.1| DNA repair and recombination protein radA [Picrophilus torridus DSM
           9790]
          Length = 323

 Score = 48.1 bits (114), Expect = 0.004,   Method: Composition-based stats.
 Identities = 18/79 (22%), Positives = 33/79 (41%)

Query: 350 NRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEI 409
             + D  +R         V +  A  L   G+ D+  +A     ++A I G  E  A++I
Sbjct: 1   MEKNDKEKRELTIEDLPGVGDATAEKLRESGYDDIMTIAVASPKDLAEISGIAEGAAIKI 60

Query: 410 QGRAREYLEGIDITLQKKI 428
              AR+Y +  +    ++I
Sbjct: 61  INAARKYADVGNFETGEEI 79


>gi|292654529|ref|YP_003534426.1| NusA family KH domain-containing protein, archaeal [Haloferax
           volcanii DS2]
 gi|291372738|gb|ADE04965.1| NusA family KH domain protein, archaeal [Haloferax volcanii DS2]
          Length = 139

 Score = 48.1 bits (114), Expect = 0.004,   Method: Composition-based stats.
 Identities = 26/89 (29%), Positives = 40/89 (44%), Gaps = 4/89 (4%)

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR-IEVIVP 313
           +G  G  VQ+V  +L    +++V  +     FV +AL PA V  V L         V V 
Sbjct: 47  IGPGGRTVQSVERQL-GRTVELVEDADTPEAFVASALAPAAVRHVTLSRQNDTVAYVEVA 105

Query: 314 KEQLSLAIGRRGQNVRLASQLT--GWTID 340
           +    +AIG  G+ +  A +L    + ID
Sbjct: 106 EADRGVAIGASGKTIDTARELARRHYDID 134


>gi|315427207|dbj|BAJ48820.1| DNA repair protein RadA [Candidatus Caldiarchaeum subterraneum]
 gi|315427272|dbj|BAJ48884.1| DNA repair protein RadA [Candidatus Caldiarchaeum subterraneum]
          Length = 320

 Score = 48.1 bits (114), Expect = 0.004,   Method: Composition-based stats.
 Identities = 21/72 (29%), Positives = 35/72 (48%), Gaps = 1/72 (1%)

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
            ++R     +   V   +A  L   G++ VE +A   +SE+ +  G DEE A  I   AR
Sbjct: 1   MSQRYNDIEELPGVSAKLAEKLRELGYSTVESIATATVSELVAA-GVDEEHASRIISAAR 59

Query: 415 EYLEGIDITLQK 426
           E +E   +T ++
Sbjct: 60  EGIEIAWVTAKE 71



 Score = 41.2 bits (96), Expect = 0.43,   Method: Composition-based stats.
 Identities = 17/86 (19%), Positives = 38/86 (44%), Gaps = 20/86 (23%)

Query: 436 ELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPK 495
           ++  +PG+ +K+   L E G  T+E +A  +V +L+                    G  +
Sbjct: 7   DIEELPGVSAKLAEKLRELGYSTVESIATATVSELVA------------------AGVDE 48

Query: 496 DQVESMIIHAR--YKMGWIEKEKVAD 519
           +    +I  AR   ++ W+  +++A+
Sbjct: 49  EHASRIISAAREGIEIAWVTAKELAE 74


>gi|139956|sp|P15738|NUSA_HALMO RecName: Full=NusA protein homolog
 gi|43623|emb|CAA40433.1| ORF 139 [Halococcus morrhuae]
          Length = 139

 Score = 48.1 bits (114), Expect = 0.004,   Method: Composition-based stats.
 Identities = 27/88 (30%), Positives = 45/88 (51%), Gaps = 2/88 (2%)

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI-VP 313
           +G  G+ V+ V   L D+++ +V  +  +  FV NAL PA+V  V + E+   +    V 
Sbjct: 47  IGPDGTTVEQVEERL-DKRVSLVENADTAELFVANALAPAVVHNVTISENASTVAYAEVD 105

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +    +AIGR G+ +  A +L     DI
Sbjct: 106 RADTGVAIGRDGETIETARRLAERQFDI 133


>gi|326391105|ref|ZP_08212652.1| RNA binding S1 domain protein [Thermoanaerobacter ethanolicus JW
           200]
 gi|325992890|gb|EGD51335.1| RNA binding S1 domain protein [Thermoanaerobacter ethanolicus JW
           200]
          Length = 367

 Score = 47.8 bits (113), Expect = 0.004,   Method: Composition-based stats.
 Identities = 27/91 (29%), Positives = 41/91 (45%), Gaps = 10/91 (10%)

Query: 119 IQKVREAERDRQYLEFKD--KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI----- 171
            ++V + ER++         K G+I+ G VK +      VD+G  DG I   E       
Sbjct: 169 QKEVLKLEREKVKKALLSNLKEGDIVEGKVKNIIDKGAFVDIGGFDGFIPLSEISWERIK 228

Query: 172 -SRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
             RE L  GD+V  YI +V    +  ++ LS
Sbjct: 229 NPREVLGIGDKVSVYILNVDE--KKEKITLS 257


>gi|224050703|ref|XP_002196004.1| PREDICTED: RAD51 homolog (RecA homolog, E. coli) [Taeniopygia
           guttata]
          Length = 339

 Score = 47.8 bits (113), Expect = 0.004,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 28/67 (41%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
           DS   ++ F  +    ++   ++      L   GF  VE +A     E+ +I+G  E  A
Sbjct: 12  DSSAEEESFGPQLISRLEQCGINANDVKKLEEAGFHTVEAVAYAPKKELLNIKGISEAKA 71

Query: 407 VEIQGRA 413
            +I   A
Sbjct: 72  DKILAEA 78


>gi|167043882|gb|ABZ08571.1| putative KH domain protein [uncultured marine crenarchaeote
           HF4000_APKG3E18]
          Length = 154

 Score = 47.8 bits (113), Expect = 0.004,   Method: Composition-based stats.
 Identities = 26/90 (28%), Positives = 43/90 (47%), Gaps = 11/90 (12%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDI--VVWSPDSATFVINALRPAIVTKVVLD---EDVG 306
           G  +G  GS ++++   L   K D+  V +  D   F+ N L P  V +V LD   +   
Sbjct: 48  GLAIGKGGSTIKSLQNIL---KRDVELVEYFDDPIKFLKNILNPKFVNEVKLDTKPDGSS 104

Query: 307 RIEVIVPKEQLSLAIGRRGQN---VRLASQ 333
           +  +IV   +  L +GR G+N    RL ++
Sbjct: 105 QATIIVDHGKKGLVVGRDGRNAEKARLFAK 134


>gi|118575641|ref|YP_875384.1| transcription elongation factor [Cenarchaeum symbiosum A]
 gi|118194162|gb|ABK77080.1| transcription elongation factor [Cenarchaeum symbiosum A]
          Length = 154

 Score = 47.8 bits (113), Expect = 0.004,   Method: Composition-based stats.
 Identities = 25/98 (25%), Positives = 48/98 (48%), Gaps = 10/98 (10%)

Query: 252 GACVGMRGSRV---QAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD---EDV 305
           G  +G  GS +   Q ++ +     +++V +  D A F+ + L   +V++V L+   +  
Sbjct: 48  GLAIGRGGSNIKSLQNIIKK----NVELVEYHEDPAEFLKHMLDSKLVSEVKLNKRSDGT 103

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
            +  VIV  ++  + IGR G+NV  A  L     +I +
Sbjct: 104 TQAIVIVDPQKKGIVIGRDGRNVEKARMLAKRYFEISS 141


>gi|295109915|emb|CBL23868.1| Ribosomal protein S1 [Ruminococcus obeum A2-162]
          Length = 358

 Score = 47.8 bits (113), Expect = 0.004,   Method: Composition-based stats.
 Identities = 34/159 (21%), Positives = 65/159 (40%), Gaps = 30/159 (18%)

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPL-------------PPMDFGRVAVQSAK 115
           V +V +    ++++ AR   P+  +       L                   R  + + K
Sbjct: 114 VTQVLDGGLCVNVEEARVFIPASLVSDTYEKDLSKYADKEIEFVITEFNPRRRRIIGNRK 173

Query: 116 QVIIQKVREAERDRQYLEFKDK--VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI-- 171
           Q+++     AE+  +  E  ++  VG+ ++GTVK V      +DLG +DG++   E    
Sbjct: 174 QLLL-----AEKAEKQKELMERIHVGDTVTGTVKNVTDFGAFIDLGGADGLLHISEMSWG 228

Query: 172 ----SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQ 206
                ++    GD VK  I ++     G ++ LS   P+
Sbjct: 229 RVENPKKVFNVGDEVKVLIKEI----NGDKIALSMKFPE 263


>gi|52549421|gb|AAU83270.1| recombinase [uncultured archaeon GZfos27B6]
          Length = 315

 Score = 47.8 bits (113), Expect = 0.004,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 26/69 (37%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
             +   V   IA  L   G   +E +A    +E+ +     E TA +I   AR   +   
Sbjct: 3   LEELPGVGPAIAEKLREAGLNSLEAIAVASPAELVATAEIGESTAAKIINAARAAADIGG 62

Query: 422 ITLQKKIRE 430
               +KI E
Sbjct: 63  FVTGEKILE 71


>gi|320115997|ref|YP_004186156.1| RNA-binding S1 domain-containing protein [Thermoanaerobacter
           brockii subsp. finnii Ako-1]
 gi|319929088|gb|ADV79773.1| RNA binding S1 domain protein [Thermoanaerobacter brockii subsp.
           finnii Ako-1]
          Length = 367

 Score = 47.8 bits (113), Expect = 0.005,   Method: Composition-based stats.
 Identities = 27/91 (29%), Positives = 41/91 (45%), Gaps = 10/91 (10%)

Query: 119 IQKVREAERDRQYLEFKD--KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI----- 171
            ++V + ER++         K G+I+ G VK +      VD+G  DG I   E       
Sbjct: 169 QKEVLKLEREKVKKALLSNLKEGDIVEGKVKNIIDKGAFVDIGGFDGFIPLSEISWERIK 228

Query: 172 -SRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
             RE L  GD+V  YI +V    +  ++ LS
Sbjct: 229 NPREVLGIGDKVSVYILNVDE--KKEKITLS 257


>gi|294494932|ref|YP_003541425.1| DNA repair and recombination protein RadA [Methanohalophilus mahii
           DSM 5219]
 gi|292665931|gb|ADE35780.1| DNA repair and recombination protein RadA [Methanohalophilus mahii
           DSM 5219]
          Length = 325

 Score = 47.8 bits (113), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/62 (24%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 358 RTQFFMQAIN-VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
            ++  ++ ++ V    A  L   G+  VE +A    SE+ +     E TA +I   AR  
Sbjct: 1   MSEILLEELDHVGPATAQKLNDAGYNSVEAVAVASPSELVATAEIGESTAAKIISAARSA 60

Query: 417 LE 418
            +
Sbjct: 61  AD 62


>gi|218133764|ref|ZP_03462568.1| hypothetical protein BACPEC_01633 [Bacteroides pectinophilus ATCC
           43243]
 gi|217991139|gb|EEC57145.1| hypothetical protein BACPEC_01633 [Bacteroides pectinophilus ATCC
           43243]
          Length = 365

 Score = 47.8 bits (113), Expect = 0.005,   Method: Composition-based stats.
 Identities = 32/133 (24%), Positives = 56/133 (42%), Gaps = 14/133 (10%)

Query: 81  LKVARDRDPSIDIGGVVSDPLPPMD-FGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVG 139
           +    ++D +   G  VS  +   +   R  +   KQ+I+ K  E            K G
Sbjct: 138 ISDTYEKDLTKFEGQEVSFVITEYNPKKRRIIGDCKQLILAKKAEQAEKLLA---SIKEG 194

Query: 140 EIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           + I GTVK V      +DLG  DG++   E         ++  + GD VK+++ ++    
Sbjct: 195 DTIEGTVKNVTDFGAFIDLGGVDGLLHISEMSWGRTENPKKVFKVGDSVKAFVKEI---- 250

Query: 194 RGPQVLLSRTHPQ 206
            G ++ LS  +P 
Sbjct: 251 NGSKIALSLKYPD 263


>gi|15895122|ref|NP_348471.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding
           domain protein [Clostridium acetobutylicum ATCC 824]
 gi|50401136|sp|Q97I09|ISPH_CLOAB RecName: Full=4-hydroxy-3-methylbut-2-enyl diphosphate reductase
 gi|15024823|gb|AAK79811.1|AE007693_9 penicillin tolerance LytB domain/S1 ribosomal protein fusion
           [Clostridium acetobutylicum ATCC 824]
          Length = 642

 Score = 47.8 bits (113), Expect = 0.005,   Method: Composition-based stats.
 Identities = 18/96 (18%), Positives = 47/96 (48%), Gaps = 8/96 (8%)

Query: 111 VQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDET 170
           + ++++ ++ K +E   +  + + +   G+++ G VKR+      V++   DG++   E 
Sbjct: 458 IVASRRALLSKEKEKVEETVWNKLE--EGQVVEGEVKRLTDFGAFVEIEGVDGLLHVSEI 515

Query: 171 I------SRENLRPGDRVKSYIYDVRREQRGPQVLL 200
                    + L+ GD++K Y+  V +E +   + +
Sbjct: 516 SWGRVEKPADVLKIGDKIKVYVLSVDKENKKLSLSV 551


>gi|323705353|ref|ZP_08116928.1| RNA binding S1 domain protein [Thermoanaerobacterium xylanolyticum
           LX-11]
 gi|323535255|gb|EGB25031.1| RNA binding S1 domain protein [Thermoanaerobacterium xylanolyticum
           LX-11]
          Length = 365

 Score = 47.8 bits (113), Expect = 0.005,   Method: Composition-based stats.
 Identities = 26/82 (31%), Positives = 39/82 (47%), Gaps = 16/82 (19%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
           + G++I+G VK +    V VDLG  DG+I   E          + L  GDRV  Y+  + 
Sbjct: 187 REGQVINGVVKSITKFGVFVDLGGIDGLIPLREISWSKNVNINDVLHIGDRVDVYVDKID 246

Query: 191 REQRGPQVLLSRTHPQFMVKLF 212
           +E    ++ LS      + KLF
Sbjct: 247 QE----KITLS------LKKLF 258


>gi|303391399|ref|XP_003073929.1| DNA repair protein Rad51 [Encephalitozoon intestinalis ATCC 50506]
 gi|303303078|gb|ADM12569.1| DNA repair protein Rad51 [Encephalitozoon intestinalis ATCC 50506]
          Length = 334

 Score = 47.8 bits (113), Expect = 0.005,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 30/72 (41%)

Query: 342 ITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
           ++EE    + +      +   ++   +  +    L+  GF  VE LA     ++ SI+GF
Sbjct: 1   MSEEYQYQDAEYHSESISISELKNGGILAVDIAKLIEAGFTTVESLAFAPKRQLLSIKGF 60

Query: 402 DEETAVEIQGRA 413
            +    ++   A
Sbjct: 61  SDVKVDKLIKEA 72


>gi|19074882|ref|NP_586388.1| DNA REPAIR PROTEIN RAD51 HOMOLOG [Encephalitozoon cuniculi GB-M1]
 gi|19069607|emb|CAD25992.1| DNA REPAIR PROTEIN RAD51 HOMOLOG [Encephalitozoon cuniculi GB-M1]
          Length = 334

 Score = 47.8 bits (113), Expect = 0.005,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 30/72 (41%)

Query: 342 ITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
           ++EE    + +      +   ++   +  +    L+  GF  VE LA     ++ SI+GF
Sbjct: 1   MSEEYQYQDTEYHSESISISELKNGGILAVDIAKLIEAGFTTVESLAFAPKRQLLSIKGF 60

Query: 402 DEETAVEIQGRA 413
            +    ++   A
Sbjct: 61  SDIKVDKLIKEA 72


>gi|325509261|gb|ADZ20897.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding
           domain protein [Clostridium acetobutylicum EA 2018]
          Length = 642

 Score = 47.8 bits (113), Expect = 0.005,   Method: Composition-based stats.
 Identities = 18/96 (18%), Positives = 47/96 (48%), Gaps = 8/96 (8%)

Query: 111 VQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDET 170
           + ++++ ++ K +E   +  + + +   G+++ G VKR+      V++   DG++   E 
Sbjct: 458 IVASRRALLSKEKEKVEETVWNKLE--EGQVVEGEVKRLTDFGAFVEIEGVDGLLHVSEI 515

Query: 171 I------SRENLRPGDRVKSYIYDVRREQRGPQVLL 200
                    + L+ GD++K Y+  V +E +   + +
Sbjct: 516 SWGRVEKPADVLKIGDKIKVYVLSVDKENKKLSLSV 551


>gi|284163650|ref|YP_003401929.1| NusA family KH domain protein [Haloterrigena turkmenica DSM 5511]
 gi|284013305|gb|ADB59256.1| NusA family KH domain protein [Haloterrigena turkmenica DSM 5511]
          Length = 146

 Score = 47.8 bits (113), Expect = 0.005,   Method: Composition-based stats.
 Identities = 24/81 (29%), Positives = 36/81 (44%), Gaps = 2/81 (2%)

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR-IEVIVP 313
           +G  G  V+     +  + + +V  + D   FV NAL PA V  V + E+      V V 
Sbjct: 54  IGPEGRTVRQYEERV-GKPVRLVEDADDPEAFVANALSPAAVYNVTISENDDTVAYVEVA 112

Query: 314 KEQLSLAIGRRGQNVRLASQL 334
            E   +AIG  G+ +  A  L
Sbjct: 113 DEDRGVAIGSNGRTIEAARTL 133


>gi|167037582|ref|YP_001665160.1| RNA-binding S1 domain-containing protein [Thermoanaerobacter
           pseudethanolicus ATCC 33223]
 gi|166856416|gb|ABY94824.1| RNA binding S1 domain protein [Thermoanaerobacter pseudethanolicus
           ATCC 33223]
          Length = 365

 Score = 47.8 bits (113), Expect = 0.005,   Method: Composition-based stats.
 Identities = 27/91 (29%), Positives = 41/91 (45%), Gaps = 10/91 (10%)

Query: 119 IQKVREAERDRQYLEFKD--KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI----- 171
            ++V + ER++         K G+I+ G VK +      VD+G  DG I   E       
Sbjct: 167 QKEVLKLEREKVKKALLSNLKEGDIVEGKVKNIIDKGAFVDIGGFDGFIPLSEISWERIK 226

Query: 172 -SRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
             RE L  GD+V  YI +V    +  ++ LS
Sbjct: 227 NPREVLGIGDKVSVYILNVDE--KKEKITLS 255


>gi|153810812|ref|ZP_01963480.1| hypothetical protein RUMOBE_01196 [Ruminococcus obeum ATCC 29174]
 gi|149833208|gb|EDM88290.1| hypothetical protein RUMOBE_01196 [Ruminococcus obeum ATCC 29174]
          Length = 359

 Score = 47.8 bits (113), Expect = 0.005,   Method: Composition-based stats.
 Identities = 34/159 (21%), Positives = 65/159 (40%), Gaps = 30/159 (18%)

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPL-------------PPMDFGRVAVQSAK 115
           V +V +    ++++ AR   P+  +       L                   R  + + K
Sbjct: 114 VTQVLDGGLCVNVEEARVFIPASLVSDTYEKDLSKYADKEIEFVITEFNPRRRRIIGNRK 173

Query: 116 QVIIQKVREAERDRQYLEFKDK--VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI-- 171
           Q+++     AE+  +  E  +K  VG+ ++GTVK V      +DLG +DG++   E    
Sbjct: 174 QLLL-----AEKAEKQKELMEKIHVGDTVTGTVKNVTDFGAFIDLGGADGLLHISEMSWG 228

Query: 172 ----SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQ 206
                ++    GD V+  I ++     G ++ LS   P+
Sbjct: 229 RVENPKKVFNVGDEVRVLIKEI----NGDKIALSMKFPE 263


>gi|109689248|dbj|BAE96778.1| homologue of the bacterial recA and yeast RAD51/DMC1 [Aeropyrum
           pernix]
 gi|109689250|dbj|BAE96779.1| homologue of the bacterial recA and yeast RAD51/DMC1 [Aeropyrum
           pernix]
 gi|109689252|dbj|BAE96780.1| homologue of the bacterial recA and yeast RAD51/DMC1 [Aeropyrum
           pernix]
 gi|109689254|dbj|BAE96781.1| homologue of the bacterial recA and yeast RAD51/DMC1 [Aeropyrum
           pernix]
          Length = 319

 Score = 47.8 bits (113), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 24/66 (36%)

Query: 352 QKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
             +     +       V    A  L+  G+  +E +A     E++   G    TA +I  
Sbjct: 1   MGEDKREIKDITDLPGVGPTTAQKLMEAGYTTLEAIAAATPQEVSQATGIPILTAQKIVD 60

Query: 412 RAREYL 417
            ARE L
Sbjct: 61  AAREAL 66


>gi|14600463|ref|NP_146978.1| DNA repair and recombination protein RadA [Aeropyrum pernix K1]
 gi|13878703|sp|Q9YFY1|RADA_AERPE RecName: Full=DNA repair and recombination protein radA
 gi|5103509|dbj|BAA79030.1| DNA repair and recombination protein RadA [Aeropyrum pernix K1]
          Length = 319

 Score = 47.8 bits (113), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 24/66 (36%)

Query: 352 QKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
             +     +       V    A  L+  G+  +E +A     E++   G    TA +I  
Sbjct: 1   MGEDKREIKDITDLPGVGPTTAQKLMEAGYTTLEAIAAATPQEVSQATGIPILTAQKIVD 60

Query: 412 RAREYL 417
            ARE L
Sbjct: 61  AAREAL 66


>gi|109689236|dbj|BAE96772.1| homologue of the bacterial recA and yeast RAD51/DMC1 [Aeropyrum
           pernix]
          Length = 319

 Score = 47.8 bits (113), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 24/66 (36%)

Query: 352 QKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
             +     +       V    A  L+  G+  +E +A     E++   G    TA +I  
Sbjct: 1   MGEDKREIKDITDLPGVGPTTAQKLMEAGYTTLEAIAAATPQEVSQATGIPILTAQKIVD 60

Query: 412 RAREYL 417
            ARE L
Sbjct: 61  AAREAL 66


>gi|18181987|dbj|BAB83901.1| homologue of the bacterial recA and yeast RAD51/DMC1 [Aeropyrum
           pernix]
          Length = 319

 Score = 47.8 bits (113), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 24/66 (36%)

Query: 352 QKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
             +     +       V    A  L+  G+  +E +A     E++   G    TA +I  
Sbjct: 1   MGEDKREIKDITDLPGVGPTTAQKLMEAGYTTLEAIAAATPQEVSQATGIPILTAQKIVD 60

Query: 412 RAREYL 417
            ARE L
Sbjct: 61  AAREAL 66


>gi|18181985|dbj|BAB83900.1| homologue of the bacterial recA and yeast RAD51/DMC1 [Aeropyrum
           pernix]
 gi|18181995|dbj|BAB83905.1| homologue of the bacterial recA and yeast RAD51/DMC1 [Aeropyrum
           pernix]
 gi|18181997|dbj|BAB83906.1| homologue of the bacterial recA and yeast RAD51/DMC1 [Aeropyrum
           pernix]
 gi|18181999|dbj|BAB83907.1| homologue of the bacterial recA and yeast RAD51/DMC1 [Aeropyrum
           pernix]
 gi|18182003|dbj|BAB83909.1| homologue of the bacterial recA and yeast RAD51/DMC1 [Aeropyrum
           pernix]
 gi|18182005|dbj|BAB83910.1| homologue of the bacterial recA and yeast RAD51/DMC1 [Aeropyrum
           pernix]
 gi|109689234|dbj|BAE96771.1| homologue of the bacterial recA and yeast RAD51/DMC1 [Aeropyrum
           pernix]
 gi|109689238|dbj|BAE96773.1| homologue of the bacterial recA and yeast RAD51/DMC1 [Aeropyrum
           pernix]
 gi|109689240|dbj|BAE96774.1| homologue of the bacterial recA and yeast RAD51/DMC1 [Aeropyrum
           pernix]
 gi|109689242|dbj|BAE96775.1| homologue of the bacterial recA and yeast RAD51/DMC1 [Aeropyrum
           pernix]
 gi|109689244|dbj|BAE96776.1| homologue of the bacterial recA and yeast RAD51/DMC1 [Aeropyrum
           pernix]
 gi|109689246|dbj|BAE96777.1| homologue of the bacterial recA and yeast RAD51/DMC1 [Aeropyrum
           pernix]
          Length = 319

 Score = 47.8 bits (113), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 24/66 (36%)

Query: 352 QKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
             +     +       V    A  L+  G+  +E +A     E++   G    TA +I  
Sbjct: 1   MGEDKREIKDITDLPGVGPTTAQKLMEAGYTTLEAIAAATPQEVSQATGIPILTAQKIVD 60

Query: 412 RAREYL 417
            ARE L
Sbjct: 61  AAREAL 66


>gi|256379526|ref|YP_003103186.1| 30S ribosomal protein S1 [Actinosynnema mirum DSM 43827]
 gi|255923829|gb|ACU39340.1| RNA binding S1 domain protein [Actinosynnema mirum DSM 43827]
          Length = 495

 Score = 47.4 bits (112), Expect = 0.005,   Method: Composition-based stats.
 Identities = 28/104 (26%), Positives = 52/104 (50%), Gaps = 16/104 (15%)

Query: 110 AVQSAKQVIIQKVREAER-----DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDG 163
           A  + KQV I  +   E      D+    F D  G+I+ GT+ +V+   V++D+G  ++G
Sbjct: 10  AAVAPKQVAINDIGTEEDFLAAIDKTIKYFND--GDIVEGTIVKVDRDEVLLDIGYKTEG 67

Query: 164 VIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           VI   E          E ++ GD V++ +   ++E +  +++LS
Sbjct: 68  VIPSRELSIKHDVDPNEVVKVGDEVEALVL--QKEDKEGRLILS 109


>gi|330833876|ref|YP_004408604.1| DNA repair and recombination protein RadA [Metallosphaera cuprina
           Ar-4]
 gi|329566015|gb|AEB94120.1| DNA repair and recombination protein RadA [Metallosphaera cuprina
           Ar-4]
          Length = 324

 Score = 47.4 bits (112), Expect = 0.005,   Method: Composition-based stats.
 Identities = 13/82 (15%), Positives = 36/82 (43%), Gaps = 3/82 (3%)

Query: 354 DFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           +  +R +       V + + + L   G++ +E +A     +++++ G    TA  I   A
Sbjct: 6   EEKKRIKSVKDLSGVGQAVLNKLNESGYSSLESIAVASPQDLSTVAGIPLATAQRIIKEA 65

Query: 414 REYLEGI---DITLQKKIRELG 432
           R+ L+      + ++++   + 
Sbjct: 66  RDALDIRFKTALEIEQERASVK 87


>gi|18182001|dbj|BAB83908.1| homologue of the bacterial recA and yeast RAD51/DMC1 [Aeropyrum
           pernix]
          Length = 319

 Score = 47.4 bits (112), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/66 (22%), Positives = 24/66 (36%)

Query: 352 QKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
             +     +       V    A  L+  G+  +E +A     E++   G    TA +I  
Sbjct: 1   MGEDKREIKDITDLPGVGPTTAQKLMEAGYTTLEAIAAATPQEVSQATGIPILTAQKIVD 60

Query: 412 RAREYL 417
            ARE L
Sbjct: 61  AAREAL 66


>gi|229496499|ref|ZP_04390213.1| DNA ligase, NAD-dependent [Porphyromonas endodontalis ATCC 35406]
 gi|229316396|gb|EEN82315.1| DNA ligase, NAD-dependent [Porphyromonas endodontalis ATCC 35406]
          Length = 671

 Score = 47.4 bits (112), Expect = 0.006,   Method: Composition-based stats.
 Identities = 26/130 (20%), Positives = 44/130 (33%), Gaps = 4/130 (3%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           V E +A +L    F  +E L      E+ +I+G  E  A  I      + +  +  +   
Sbjct: 514 VGENVAKILTRT-FNSIETLMEASQEELQTIDGIGERIAESIVS---FFADERNQKIIAA 569

Query: 428 IRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGF 487
           ++E GV+       GI   I   L    I      +  + D+     E  GG        
Sbjct: 570 LKEFGVTLSNPVEEGISEAISRPLEGKSIVISGTFSQHTRDEYTQIIEQLGGKKVSSISQ 629

Query: 488 LSSLGTPKDQ 497
            +S     + 
Sbjct: 630 KTSFILAGED 639


>gi|225631240|ref|ZP_03787929.1| ribosomal protein S1 [Wolbachia endosymbiont of Muscidifurax
           uniraptor]
 gi|225591065|gb|EEH12258.1| ribosomal protein S1 [Wolbachia endosymbiont of Muscidifurax
           uniraptor]
          Length = 530

 Score = 47.4 bits (112), Expect = 0.006,   Method: Composition-based stats.
 Identities = 23/102 (22%), Positives = 48/102 (47%), Gaps = 6/102 (5%)

Query: 105 DFGRVAVQSAKQVIIQKVREAERDRQYLE-FKDK--VGEIISGTVKRVEYGNVIVDLG-N 160
              +++     + I Q   E + +  + + F +K   G+++ G + R+   +V+VD+G  
Sbjct: 13  TIRKLSSNKFIEEICQGQFEDQDNTLFEDSFVNKIKEGDVVEGVITRINPNDVVVDIGLK 72

Query: 161 SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
           SDG I   E    + +  G +++ Y+  +        V+LSR
Sbjct: 73  SDGRILIKELGCNDEVIIGSKIRVYVERIEDYHGN--VVLSR 112


>gi|303237351|ref|ZP_07323921.1| 30S ribosomal protein S1 [Prevotella disiens FB035-09AN]
 gi|302482738|gb|EFL45763.1| 30S ribosomal protein S1 [Prevotella disiens FB035-09AN]
          Length = 591

 Score = 47.4 bits (112), Expect = 0.006,   Method: Composition-based stats.
 Identities = 23/66 (34%), Positives = 37/66 (56%), Gaps = 3/66 (4%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
              E++ G V  ++   VIV++G  SDG+I   E      L+ GD+V+ Y+    +E RG
Sbjct: 43  HEHEVVEGEVISIDKKEVIVNIGYKSDGIIPASEFRYNPELKVGDKVEVYVE--NQEDRG 100

Query: 196 PQVLLS 201
            Q++LS
Sbjct: 101 GQLVLS 106



 Score = 36.6 bits (84), Expect = 9.9,   Method: Composition-based stats.
 Identities = 29/130 (22%), Positives = 52/130 (40%), Gaps = 10/130 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +   RD D  + +G  +   +  ++     V  + + +I+   EA+R   
Sbjct: 149 EAFLPGSQIDVHPIRDYD--VFVGKTMEFKVVKINQEFRNVVVSHKALIEAELEAQRKEI 206

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
               +   G+I+ G VK +    V VDLG  DG+I   +          E +    ++  
Sbjct: 207 ISHLE--KGQILEGVVKNITSYGVFVDLGGVDGLIHITDLSWGRINDPHEVVELDQKINV 264

Query: 185 YIYDVRREQR 194
            I D   E++
Sbjct: 265 VILDFDEEKK 274


>gi|63852088|dbj|BAD98461.1| RecA homolog Rad51 [Oreochromis niloticus]
          Length = 336

 Score = 47.4 bits (112), Expect = 0.006,   Method: Composition-based stats.
 Identities = 13/73 (17%), Positives = 30/73 (41%)

Query: 341 IITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEG 400
           + +E    +  ++++  +    ++   +       L   GF  +E +A     E+ +I+G
Sbjct: 3   MRSEARVEVEEEENYGPQPLCRLEQCGISASDIKKLEDAGFHTIEAVAYAPKKELLNIKG 62

Query: 401 FDEETAVEIQGRA 413
             E  A +I   A
Sbjct: 63  ISEAKADKILTEA 75


>gi|187779599|ref|ZP_02996072.1| hypothetical protein CLOSPO_03195 [Clostridium sporogenes ATCC
           15579]
 gi|187773224|gb|EDU37026.1| hypothetical protein CLOSPO_03195 [Clostridium sporogenes ATCC
           15579]
          Length = 638

 Score = 47.4 bits (112), Expect = 0.006,   Method: Composition-based stats.
 Identities = 23/106 (21%), Positives = 47/106 (44%), Gaps = 18/106 (16%)

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGE-IISGTVKRVEYGNVIVDLGNSDGVIRRDETI-- 171
           ++ I++ +R+   +     +     + I+ G VKR       V++   DG++   E    
Sbjct: 457 RREILKTIRDEHIE---ETWASLEKDTIVEGEVKRFTNFGAFVEINGVDGLLHVSEISWG 513

Query: 172 ----SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFH 213
                 + L+ GD++K YI D+ +E +  ++ LS      + KL  
Sbjct: 514 RVERPEDALKVGDKIKVYILDIDKENK--KLALS------IKKLIE 551



 Score = 43.9 bits (103), Expect = 0.067,   Method: Composition-based stats.
 Identities = 25/113 (22%), Positives = 56/113 (49%), Gaps = 16/113 (14%)

Query: 96  VVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI 155
           ++ + +  M+     ++ +K  +++ + E E+          VG+++ GT+  +    + 
Sbjct: 267 IIKEAVNKMNNNDNIIEVSKNEMLEYMNEKEQQIV-------VGKVVKGTIVSLNENELF 319

Query: 156 VDLG-NSDGVIRRDE------TISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           VDL   S+G+I ++E      +I +E  + GD +++ I  +R E     V+LS
Sbjct: 320 VDLNYKSEGIIPKEEVTLNEESILKEAFKVGDEIEAKIVRIRNEDG--YVVLS 370


>gi|222478542|ref|YP_002564779.1| NusA family KH domain protein [Halorubrum lacusprofundi ATCC 49239]
 gi|222451444|gb|ACM55709.1| NusA family KH domain protein [Halorubrum lacusprofundi ATCC 49239]
          Length = 139

 Score = 47.4 bits (112), Expect = 0.006,   Method: Composition-based stats.
 Identities = 29/90 (32%), Positives = 39/90 (43%), Gaps = 2/90 (2%)

Query: 253 ACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR-IEVI 311
           A +G  G  V+     L    I++V  +     FV +AL PA V  V + E   R   V 
Sbjct: 45  AAIGQAGETVEEAERRLAK-SIELVEDADTPEAFVASALAPAAVNAVTISEQNDRVAYVE 103

Query: 312 VPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           VP+    +AIG  G N+  A  L     DI
Sbjct: 104 VPEPDRGVAIGADGANIETARTLAKRHYDI 133


>gi|11498598|ref|NP_069826.1| DNA repair and recombination protein RadA [Archaeoglobus fulgidus
           DSM 4304]
 gi|3914552|sp|O29269|RADA_ARCFU RecName: Full=DNA repair and recombination protein radA
 gi|2649602|gb|AAB90248.1| DNA repair protein RAD51 (radA) [Archaeoglobus fulgidus DSM 4304]
          Length = 337

 Score = 47.4 bits (112), Expect = 0.006,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 32/74 (43%), Gaps = 7/74 (9%)

Query: 342 ITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
           ++EE +   +  +             V    A  L   G++ +E +A    SE+A++ G 
Sbjct: 1   MSEESNEETKIIELE-------DIPGVGPETARKLREAGYSTIEAVAVASPSELANVGGI 53

Query: 402 DEETAVEIQGRARE 415
            E  AV+I   AR+
Sbjct: 54  TEGNAVKIIQAARK 67


>gi|14590190|ref|NP_142255.1| DNA repair and recombination protein RadA [Pyrococcus horikoshii
           OT3]
 gi|13878667|sp|O58001|RADA_PYRHO RecName: Full=DNA repair and recombination protein radA; Contains:
           RecName: Full=Pho radA intein
 gi|3256652|dbj|BAA29335.1| 529aa long hypothetical DNA repair protein [Pyrococcus horikoshii
           OT3]
          Length = 529

 Score = 47.4 bits (112), Expect = 0.007,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 21/53 (39%)

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
               V    A  L   GF  +E +A     E+  + G  E  A++I   AR+ 
Sbjct: 47  DLPGVGPATAEKLREAGFDTLEAIAVASPIELKEVAGISEGAALKIIQAARKA 99


>gi|148272934|ref|YP_001222495.1| 30S ribosomal protein S1 [Clavibacter michiganensis subsp.
           michiganensis NCPPB 382]
 gi|170782356|ref|YP_001710689.1| 30S ribosomal protein S1 [Clavibacter michiganensis subsp.
           sepedonicus]
 gi|147830864|emb|CAN01808.1| 30S ribosomal protein S1 [Clavibacter michiganensis subsp.
           michiganensis NCPPB 382]
 gi|169156925|emb|CAQ02093.1| 30S ribosomal protein S1 [Clavibacter michiganensis subsp.
           sepedonicus]
          Length = 484

 Score = 47.4 bits (112), Expect = 0.007,   Method: Composition-based stats.
 Identities = 27/99 (27%), Positives = 51/99 (51%), Gaps = 16/99 (16%)

Query: 115 KQVIIQKVREAER-----DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRD 168
           KQV I  +  AE      ++    F D  G++I GTV +++   V++D+G  ++GVI   
Sbjct: 11  KQVAINDIGSAEDFLAAVEKTLKFFND--GDLIEGTVVKIDRDEVLIDVGYKTEGVIPSR 68

Query: 169 ETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           E          E ++ GD V++ +   ++E +  +++LS
Sbjct: 69  ELSIKHDVDPTEVVKVGDTVEALVL--QKEDKEGRLILS 105


>gi|260893017|ref|YP_003239114.1| hydroxymethylbutenyl pyrophosphate reductase [Ammonifex degensii
           KC4]
 gi|260865158|gb|ACX52264.1| hydroxymethylbutenyl pyrophosphate reductase [Ammonifex degensii
           KC4]
          Length = 654

 Score = 47.0 bits (111), Expect = 0.007,   Method: Composition-based stats.
 Identities = 22/72 (30%), Positives = 38/72 (52%), Gaps = 9/72 (12%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDV 189
           + GEI+ GTV  +  G V+VD+G  ++GVI   E          E ++ GD +  ++  V
Sbjct: 295 RGGEIVRGTVVEINQGEVLVDIGAKTEGVIPLRELCCCEVSSPHEVVKVGDEIDVFV--V 352

Query: 190 RREQRGPQVLLS 201
           + E    +++LS
Sbjct: 353 KAEDAEGRIILS 364



 Score = 40.8 bits (95), Expect = 0.61,   Method: Composition-based stats.
 Identities = 25/90 (27%), Positives = 38/90 (42%), Gaps = 15/90 (16%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDET------ISRENLRPGDRVKSYIYDVR 190
           + G ++ G V+R+      +DLG  DG++   E          E L+ G  ++  +  V 
Sbjct: 468 QEGAVVKGVVRRIVPFGAFIDLGGVDGLLHVSEIAWHRVNSPDEVLKEGQEIEVKVIKVD 527

Query: 191 REQRGPQVLLSRTH--PQFMVKLFHMEVPE 218
           RE    +V LSR    P    K     VPE
Sbjct: 528 RENE--KVSLSRKALLPDPWEK-----VPE 550


>gi|303244732|ref|ZP_07331062.1| DNA repair and recombination protein RadA [Methanothermococcus
           okinawensis IH1]
 gi|302484866|gb|EFL47800.1| DNA repair and recombination protein RadA [Methanothermococcus
           okinawensis IH1]
          Length = 322

 Score = 47.0 bits (111), Expect = 0.007,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 24/58 (41%)

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
                     V    A  L+  G+ D  ++A   I E+  IEG  E+ A ++   ARE
Sbjct: 1   MADNLTDLPGVGPSTAEKLIEAGYIDFMKIATATIGELTDIEGISEKAAAKMIMGARE 58



 Score = 38.5 bits (89), Expect = 2.7,   Method: Composition-based stats.
 Identities = 13/75 (17%), Positives = 24/75 (32%), Gaps = 17/75 (22%)

Query: 433 VSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLG 492
           +++ L  +PG+       L E G             D +  +    G +   +G      
Sbjct: 1   MADNLTDLPGVGPSTAEKLIEAGYI-----------DFMKIATATIGELTDIEGI----- 44

Query: 493 TPKDQVESMIIHARY 507
             +     MI+ AR 
Sbjct: 45  -SEKAAAKMIMGARE 58


>gi|126460698|ref|YP_001056976.1| transcription elongation factor NusA-like protein [Pyrobaculum
           calidifontis JCM 11548]
 gi|126250419|gb|ABO09510.1| NusA family KH domain protein [Pyrobaculum calidifontis JCM 11548]
          Length = 144

 Score = 47.0 bits (111), Expect = 0.007,   Method: Composition-based stats.
 Identities = 18/77 (23%), Positives = 34/77 (44%), Gaps = 4/77 (5%)

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDED---VGRIEVI 311
           VG  G+ V+ +   +  + +++V         + N+L PA V  V + +           
Sbjct: 50  VGKGGANVKMLRQII-GKDVEVVEAGDTPEELIKNSLYPARVIVVKITKAPSGAKVAITT 108

Query: 312 VPKEQLSLAIGRRGQNV 328
           V  E   +AIG+ G+N+
Sbjct: 109 VVPEDKGIAIGKNGRNI 125


>gi|256752965|ref|ZP_05493790.1| RNA binding S1 domain protein [Thermoanaerobacter ethanolicus
           CCSD1]
 gi|256748148|gb|EEU61227.1| RNA binding S1 domain protein [Thermoanaerobacter ethanolicus
           CCSD1]
          Length = 364

 Score = 47.0 bits (111), Expect = 0.007,   Method: Composition-based stats.
 Identities = 24/71 (33%), Positives = 32/71 (45%), Gaps = 8/71 (11%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
           K G+I+ G VK +      VD+G  DG I   E         RE L  GD+V  YI  V 
Sbjct: 189 KEGDIVEGRVKNIIDKGAFVDIGGFDGFIPLSEISWERIKNPREVLGMGDKVSIYILKVD 248

Query: 191 REQRGPQVLLS 201
            +    ++ LS
Sbjct: 249 EKNE--KITLS 257


>gi|189237154|ref|XP_973939.2| PREDICTED: similar to igf2 mRNA binding protein, putative
           [Tribolium castaneum]
          Length = 1116

 Score = 47.0 bits (111), Expect = 0.007,   Method: Composition-based stats.
 Identities = 28/122 (22%), Positives = 48/122 (39%), Gaps = 42/122 (34%)

Query: 249 DPVGACVGMRGSRVQAVV-----------------TELRDEK-IDIV-----VWS----- 280
           + VGA +G +GS ++ ++                  E ++E+ + IV      W      
Sbjct: 359 NAVGAIIGTKGSHIRNIIRFSGASVKIAPIDETKPQETQNERRVTIVGSPEAQWKAQYLI 418

Query: 281 -PDSAT--FVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
                   FV  +           D+    +E++VP  Q+   IG+ GQNVR   ++TG 
Sbjct: 419 FEKMREEGFVAGS-----------DDVRLTVEIMVPSSQVGRIIGKGGQNVRELQRVTGS 467

Query: 338 TI 339
            I
Sbjct: 468 VI 469


>gi|307167464|gb|EFN61037.1| DNA repair protein RAD51-like protein 1 [Camponotus floridanus]
          Length = 340

 Score = 47.0 bits (111), Expect = 0.008,   Method: Composition-based stats.
 Identities = 16/81 (19%), Positives = 32/81 (39%), Gaps = 4/81 (4%)

Query: 335 TGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISE 394
           T  T+++ TEEE          +     ++   +       L   G+  VE +A     +
Sbjct: 4   TASTVNVQTEEELDEYTPAKLIKA----LEKNGITAGDIKKLQDAGYYTVESVAYAPRKD 59

Query: 395 IASIEGFDEETAVEIQGRARE 415
           + +I+G  E  A ++   A +
Sbjct: 60  LITIKGISEAKADKLLQEASK 80


>gi|223985743|ref|ZP_03635787.1| hypothetical protein HOLDEFILI_03093 [Holdemania filiformis DSM
           12042]
 gi|223962253|gb|EEF66721.1| hypothetical protein HOLDEFILI_03093 [Holdemania filiformis DSM
           12042]
          Length = 731

 Score = 47.0 bits (111), Expect = 0.008,   Method: Composition-based stats.
 Identities = 41/209 (19%), Positives = 86/209 (41%), Gaps = 44/209 (21%)

Query: 21  SIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDI-----SLFRLLEVVEEVENY 75
            I+R    +++ +++ +A +     M+++   I+    ++      ++R++  V+++   
Sbjct: 518 GINR----AILEEALAQAKKGRAEIMANMMAAISEPRPEVSPYAPKMYRMMIPVDKI--- 570

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPM------DFGRVAVQSAKQVIIQKVREAERDR 129
             ++     +  +  I     V   +            + A+  A + I Q +REA    
Sbjct: 571 -REVIGTGGKMINQIIADCDNVKIDIEDDGSVVIYHSDKNAIMKAAETINQILREA---- 625

Query: 130 QYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVI-------RRDETISRENLRPGDR 181
                  KVGEI  G V R+E     V+L   +DG++       +R E    + L+ GD 
Sbjct: 626 -------KVGEIYDGKVVRLEKFGAFVELFPGTDGLLHVSKIDYKRVEK-PEDVLKLGDV 677

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVK 210
           +K  + ++  + R   V +S  H   M K
Sbjct: 678 IKVIVTEIDEKGR---VNVS--HRDLMEK 701


>gi|300914328|ref|ZP_07131644.1| RNA binding S1 domain protein [Thermoanaerobacter sp. X561]
 gi|307724436|ref|YP_003904187.1| RNA-binding S1 domain-containing protein [Thermoanaerobacter sp.
           X513]
 gi|300889263|gb|EFK84409.1| RNA binding S1 domain protein [Thermoanaerobacter sp. X561]
 gi|307581497|gb|ADN54896.1| RNA binding S1 domain protein [Thermoanaerobacter sp. X513]
          Length = 367

 Score = 47.0 bits (111), Expect = 0.008,   Method: Composition-based stats.
 Identities = 24/71 (33%), Positives = 32/71 (45%), Gaps = 8/71 (11%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
           K G+I+ G VK +      VD+G  DG I   E         RE L  GD+V  YI  V 
Sbjct: 189 KEGDIVEGRVKNIIDKGAFVDIGGFDGFIPLSEISWERIKNPREVLGMGDKVSIYILKVD 248

Query: 191 REQRGPQVLLS 201
            +    ++ LS
Sbjct: 249 EKNE--KITLS 257


>gi|4996226|dbj|BAA78377.1| Rad51 [Cynops pyrrhogaster]
          Length = 337

 Score = 47.0 bits (111), Expect = 0.008,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 27/71 (38%), Gaps = 5/71 (7%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
           +  E+     +      Q  + A +V       L   GF  VE +A     E+ +I+G  
Sbjct: 11  SATEEESLGPQPIARLEQCGINANDV-----KKLEEAGFHTVEAVAYAPKKELLNIKGIS 65

Query: 403 EETAVEIQGRA 413
           E  A +I   A
Sbjct: 66  EAKADKILAEA 76


>gi|213581727|ref|ZP_03363553.1| transcription elongation factor NusA [Salmonella enterica subsp.
          enterica serovar Typhi str. E98-0664]
          Length = 36

 Score = 47.0 bits (111), Expect = 0.008,   Method: Composition-based stats.
 Identities = 8/35 (22%), Positives = 20/35 (57%)

Query: 6  RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAAR 40
            E+L + +AV+ EK++ R+ +   +  ++  A +
Sbjct: 2  NKEILAVVEAVSNEKALPREKIFEALESALATATK 36


>gi|225630820|ref|YP_002727611.1| ribosomal protein S1 [Wolbachia sp. wRi]
 gi|225592801|gb|ACN95820.1| ribosomal protein S1 [Wolbachia sp. wRi]
          Length = 550

 Score = 47.0 bits (111), Expect = 0.008,   Method: Composition-based stats.
 Identities = 23/102 (22%), Positives = 47/102 (46%), Gaps = 6/102 (5%)

Query: 105 DFGRVAVQSAKQVIIQKVREAERDRQYLEF---KDKVGEIISGTVKRVEYGNVIVDLG-N 160
              +++     + I Q   E + +  + +    K K G+++ G + R+   +V+VD+G  
Sbjct: 13  TIRKLSSNKFIEEICQGQFEDQDNTLFEDSFVNKIKEGDVVEGVITRINPNDVVVDIGLK 72

Query: 161 SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
           SDG I   E    + +  G +++ Y+  +        V+LSR
Sbjct: 73  SDGRILIKELGCNDEVIIGSKIRVYVERIEDYHGN--VVLSR 112


>gi|167040244|ref|YP_001663229.1| RNA-binding S1 domain-containing protein [Thermoanaerobacter sp.
           X514]
 gi|166854484|gb|ABY92893.1| RNA binding S1 domain protein [Thermoanaerobacter sp. X514]
          Length = 365

 Score = 47.0 bits (111), Expect = 0.008,   Method: Composition-based stats.
 Identities = 24/71 (33%), Positives = 32/71 (45%), Gaps = 8/71 (11%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
           K G+I+ G VK +      VD+G  DG I   E         RE L  GD+V  YI  V 
Sbjct: 187 KEGDIVEGRVKNIIDKGAFVDIGGFDGFIPLSEISWERIKNPREVLGMGDKVSIYILKVD 246

Query: 191 REQRGPQVLLS 201
            +    ++ LS
Sbjct: 247 EKNE--KITLS 255


>gi|14520459|ref|NP_125934.1| DNA repair and recombination protein RadA [Pyrococcus abyssi GE5]
 gi|13878699|sp|Q9V233|RADA_PYRAB RecName: Full=DNA repair and recombination protein radA
 gi|5457674|emb|CAB49165.1| radA DNA repair protein rad51 : DNA repair and recombination
           protein radA [Pyrococcus abyssi GE5]
          Length = 356

 Score = 47.0 bits (111), Expect = 0.008,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 21/53 (39%)

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
               V    A  L   GF  +E +A     E+  + G  E  A++I   AR+ 
Sbjct: 46  DLPGVGPATAEKLREAGFDTLEAIAVASPIELKEVAGISEGAALKIIQAARKA 98


>gi|42520896|ref|NP_966811.1| 30S ribosomal protein S1 [Wolbachia endosymbiont of Drosophila
           melanogaster]
 gi|42410637|gb|AAS14745.1| ribosomal protein S1, putative [Wolbachia endosymbiont of
           Drosophila melanogaster]
          Length = 550

 Score = 47.0 bits (111), Expect = 0.008,   Method: Composition-based stats.
 Identities = 23/102 (22%), Positives = 47/102 (46%), Gaps = 6/102 (5%)

Query: 105 DFGRVAVQSAKQVIIQKVREAERDRQYLEF---KDKVGEIISGTVKRVEYGNVIVDLG-N 160
              +++     + I Q   E + +  + +    K K G+++ G + R+   +V+VD+G  
Sbjct: 13  TIRKLSSNKFIEEICQGQFEDQDNTLFEDSFVNKIKEGDVVEGVITRINPNDVVVDIGLK 72

Query: 161 SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
           SDG I   E    + +  G +++ Y+  +        V+LSR
Sbjct: 73  SDGRILIKELGCNDEVIIGSKIRVYVERIEDYHGN--VVLSR 112


>gi|254430923|ref|ZP_05044626.1| hypothetical protein CPCC7001_814 [Cyanobium sp. PCC 7001]
 gi|197625376|gb|EDY37935.1| hypothetical protein CPCC7001_814 [Cyanobium sp. PCC 7001]
          Length = 422

 Score = 47.0 bits (111), Expect = 0.009,   Method: Composition-based stats.
 Identities = 22/91 (24%), Positives = 37/91 (40%), Gaps = 4/91 (4%)

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR--PGDRVKSYIYDVRREQ 193
           +K G+++   V     G V  DL    G I R +    EN     G  +     +V  E 
Sbjct: 234 EKEGKVVQVKVNGFNRGGVTCDLEGLRGFIPRSQLQEGENHEALVGKTLGVTFLEVNPET 293

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           R  +++LS        +   +EV ++  G+V
Sbjct: 294 R--KLVLSEKRAATAARFAELEVGQLVEGVV 322



 Score = 37.0 bits (85), Expect = 9.0,   Method: Composition-based stats.
 Identities = 15/64 (23%), Positives = 28/64 (43%), Gaps = 7/64 (10%)

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDE------TISRENLRPGDRVKS 184
            +F    G +++G V  +E   V VD+ G + G + + E      T  +E    G +V+ 
Sbjct: 143 QDFVGSTGGVVTGEVIGLESDGVYVDIGGKAPGFMPKKEAGLGVITNLKERFPKGTQVEV 202

Query: 185 YIYD 188
            +  
Sbjct: 203 LVTR 206


>gi|325298110|ref|YP_004258027.1| RNA binding S1 domain-containing protein [Bacteroides salanitronis
           DSM 18170]
 gi|324317663|gb|ADY35554.1| RNA binding S1 domain protein [Bacteroides salanitronis DSM 18170]
          Length = 596

 Score = 47.0 bits (111), Expect = 0.009,   Method: Composition-based stats.
 Identities = 33/108 (30%), Positives = 55/108 (50%), Gaps = 7/108 (6%)

Query: 97  VSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVG--EIISGTVKRVEYGNV 154
           + D  P  DF   A +S        + + E+++ Y    +KVG  E++ GTV  +    V
Sbjct: 4   LKDVKPIEDFNWDAYESG--ESASSISKEEQEKAYDNTLNKVGDHEVVDGTVIAMNKREV 61

Query: 155 IVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           +V++G  SDG+I   E     +L+ GD V+ YI    +E +  Q++LS
Sbjct: 62  VVNIGYKSDGIIPLSEFRYNPDLKVGDTVEVYIE--NQEDKKGQLILS 107


>gi|56750057|ref|YP_170758.1| nucleic acid-binding protein [Synechococcus elongatus PCC 6301]
 gi|81300400|ref|YP_400608.1| RNA binding S1 [Synechococcus elongatus PCC 7942]
 gi|3122813|sp|O33698|RS1_SYNE7 RecName: Full=30S ribosomal protein S1
 gi|2570205|gb|AAB82045.1| ribosomal protein S1 of 30S ribosome [Synechococcus elongatus PCC
           7942]
 gi|7328457|dbj|BAA92864.1| nucleic acid-binding protein [Synechococcus elongatus PCC 6301]
 gi|22002498|gb|AAM82650.1| ribosomal protein S1 [Synechococcus elongatus PCC 7942]
 gi|56685016|dbj|BAD78238.1| nucleic acid binding protein [Synechococcus elongatus PCC 6301]
 gi|81169281|gb|ABB57621.1| RNA binding S1 [Synechococcus elongatus PCC 7942]
          Length = 295

 Score = 47.0 bits (111), Expect = 0.009,   Method: Composition-based stats.
 Identities = 21/107 (19%), Positives = 48/107 (44%), Gaps = 15/107 (14%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISREN------LRPGDRVKSYIYDVRR 191
           VG++I+G V  ++   V VDLG +  ++  ++   +         + GD +++ +  +  
Sbjct: 192 VGQLINGKVTGLKPFGVFVDLGGATALLPINQISQKFVADVGAIFKIGDPIQALVVAIDN 251

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAK 238
            +   ++ LS        K+      EI   + +++A + D   RA+
Sbjct: 252 TKG--RISLS-------TKVLENHPGEILENVAELQASAADRAERAR 289


>gi|288927739|ref|ZP_06421586.1| ribosomal protein S1 [Prevotella sp. oral taxon 317 str. F0108]
 gi|288330573|gb|EFC69157.1| ribosomal protein S1 [Prevotella sp. oral taxon 317 str. F0108]
          Length = 591

 Score = 46.6 bits (110), Expect = 0.009,   Method: Composition-based stats.
 Identities = 26/85 (30%), Positives = 44/85 (51%), Gaps = 5/85 (5%)

Query: 128 DRQYLEFKDK--VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ++ Y E  +K    +++ GTV  ++   VIV++G  SDGVI   E     +L+ GD V+ 
Sbjct: 32  EKAYDETLNKVSEHQVVDGTVISIDKKEVIVNIGYKSDGVIPASEFRYNPDLKVGDTVEV 91

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMV 209
           YI    +E +  Q++LS    +   
Sbjct: 92  YIE--NQEDKKGQLILSHKKARLSK 114


>gi|116072199|ref|ZP_01469466.1| RNA binding S1 [Synechococcus sp. BL107]
 gi|116064721|gb|EAU70480.1| RNA binding S1 [Synechococcus sp. BL107]
          Length = 412

 Score = 46.6 bits (110), Expect = 0.009,   Method: Composition-based stats.
 Identities = 21/91 (23%), Positives = 38/91 (41%), Gaps = 4/91 (4%)

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR--PGDRVKSYIYDVRREQ 193
           +K G+++   V     G V  DL    G I R +    EN +   G  +     +V    
Sbjct: 224 EKEGKVVQVIVSGFNRGGVTCDLEGLRGFIPRSQLQDGENHQELVGKTLGVAFLEVNSGT 283

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           R  +++LS        +   +EV ++ +G+V
Sbjct: 284 R--KLVLSEKRASVAARFQELEVGQLVDGLV 312


>gi|18978298|ref|NP_579655.1| DNA repair and recombination protein RadA [Pyrococcus furiosus DSM
           3638]
 gi|13878669|sp|O74036|RADA_PYRFU RecName: Full=DNA repair and recombination protein radA
 gi|3560537|gb|AAC34998.1| recombinase [Pyrococcus furiosus DSM 3638]
 gi|18894122|gb|AAL82050.1| recombinase, radA [Pyrococcus furiosus DSM 3638]
          Length = 349

 Score = 46.6 bits (110), Expect = 0.009,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 23/59 (38%)

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
             +       V    A  L   G+  +E +A     E+  + G  E TA++I   AR+ 
Sbjct: 33  IIRSIEDLPGVGPATAEKLREAGYDTLEAIAVASPIELKEVAGISEGTALKIIQAARKA 91


>gi|219850727|ref|YP_002465159.1| DNA repair and recombination protein RadA [Methanosphaerula
           palustris E1-9c]
 gi|219544986|gb|ACL15436.1| DNA repair and recombination protein RadA [Methanosphaerula
           palustris E1-9c]
          Length = 327

 Score = 46.6 bits (110), Expect = 0.009,   Method: Composition-based stats.
 Identities = 16/52 (30%), Positives = 21/52 (40%)

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
               V    A  L   GF  VE +A    +E+A      E +A +I   ARE
Sbjct: 10  DLPGVGPTTAEKLRDAGFLTVESIATASPTELAEAAEIGEASAKKIIKAARE 61


>gi|262199755|ref|YP_003270964.1| DNA-directed DNA polymerase [Haliangium ochraceum DSM 14365]
 gi|262083102|gb|ACY19071.1| DNA-directed DNA polymerase [Haliangium ochraceum DSM 14365]
          Length = 586

 Score = 46.6 bits (110), Expect = 0.010,   Method: Composition-based stats.
 Identities = 34/149 (22%), Positives = 58/149 (38%), Gaps = 17/149 (11%)

Query: 370 EIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIR 429
           E     L + G    +E+A + + E+ +I+G    TA +I    RE L+   I   +K+R
Sbjct: 41  ESAIQGLSSHG----DEIAQMSVRELKAIDGVGASTAAKI----RELLDTGAIDKLEKLR 92

Query: 430 ELGVSE--ELCSIPGIDSKIKVAL-GENGIKTMEDL-AGCSVDDLLGWSENKGGNIEKFD 485
                   EL  IPG+  K  + L GE  + +++DL        L   S     + +   
Sbjct: 93  AKYPPAFVELSRIPGLGPKTLMRLRGELDVHSVDDLRKALEAKKLRTLSGFGAKSEDNLR 152

Query: 486 GFLSSLGTPKDQ-----VESMIIHARYKM 509
             +  LG           +++ I  R   
Sbjct: 153 RAIERLGMSGKDRRTPIADALPIAQRITA 181


>gi|34809805|pdb|1PZN|A Chain A, Rad51 (Rada)
 gi|34809806|pdb|1PZN|B Chain B, Rad51 (Rada)
 gi|34809807|pdb|1PZN|C Chain C, Rad51 (Rada)
 gi|34809808|pdb|1PZN|D Chain D, Rad51 (Rada)
 gi|34809809|pdb|1PZN|E Chain E, Rad51 (Rada)
 gi|34809810|pdb|1PZN|F Chain F, Rad51 (Rada)
 gi|34809811|pdb|1PZN|G Chain G, Rad51 (Rada)
          Length = 349

 Score = 46.6 bits (110), Expect = 0.010,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 23/59 (38%)

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
             +       V    A  L   G+  +E +A     E+  + G  E TA++I   AR+ 
Sbjct: 33  IIRSIEDLPGVGPATAEKLREAGYDTLEAIAVASPIELKEVAGISEGTALKIIQAARKA 91


>gi|291280464|ref|YP_003497299.1| 30S ribosomal protein S1 [Deferribacter desulfuricans SSM1]
 gi|290755166|dbj|BAI81543.1| 30S ribosomal protein S1 [Deferribacter desulfuricans SSM1]
          Length = 566

 Score = 46.6 bits (110), Expect = 0.010,   Method: Composition-based stats.
 Identities = 27/120 (22%), Positives = 58/120 (48%), Gaps = 8/120 (6%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           + RD    IG V +  +  ++    +  +++++ +Q+V E E+   +     KVG+++ G
Sbjct: 149 KQRDDEYYIGKVFNVKILRINKRDKSFLASRKIYMQEVAEEEKKHFFE--TAKVGDLVKG 206

Query: 145 TVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQV 198
            VK ++   V VDLG  D  ++R+           + L   D+V+  I ++  E +  ++
Sbjct: 207 RVKSIKNYGVFVDLGPVDAFLKRENISWGRVRHPNQFLEIDDKVEGVIINLDPENQKVEI 266


>gi|147920562|ref|YP_685641.1| DNA repair and recombination protein RadA [uncultured methanogenic
           archaeon RC-I]
 gi|110621037|emb|CAJ36315.1| DNA repair/recombination protein A [uncultured methanogenic
           archaeon RC-I]
          Length = 323

 Score = 46.6 bits (110), Expect = 0.011,   Method: Composition-based stats.
 Identities = 14/52 (26%), Positives = 22/52 (42%)

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
               V    A  L   G+  +E +A    SE+A+     E TA +I   A++
Sbjct: 9   DLPGVGPATAEKLKEAGYTSIEAIAVASPSELAAAAEVGENTASKIVAAAKK 60


>gi|328479980|gb|EGF49016.1| transcription elongation factor NusA [Lactobacillus rhamnosus MTCC
           5462]
          Length = 69

 Score = 46.6 bits (110), Expect = 0.011,   Method: Composition-based stats.
 Identities = 15/34 (44%), Positives = 21/34 (61%)

Query: 324 RGQNVRLASQLTGWTIDIITEEEDSINRQKDFNE 357
           +GQN RLA++LTG+ IDI  E E       + +E
Sbjct: 26  KGQNARLAAKLTGYKIDIKPESEVEFVDDDELSE 59


>gi|83814780|ref|YP_445904.1| ribosomal protein S1, putative [Salinibacter ruber DSM 13855]
 gi|83756174|gb|ABC44287.1| ribosomal protein S1, putative [Salinibacter ruber DSM 13855]
          Length = 871

 Score = 46.6 bits (110), Expect = 0.011,   Method: Composition-based stats.
 Identities = 40/170 (23%), Positives = 70/170 (41%), Gaps = 12/170 (7%)

Query: 69  VEEVENYTCQISLKV-ARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V E +  T  +S     R  +     G    + +   +        A   +  + R+   
Sbjct: 128 VSEFDEPTETVSPDELERTEEAQGFTGETYGETVSLDELETEEQAPADTSVYDQFRDVVD 187

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
           +        +  +I+ G V RV    V++D+G  SDG++ RDE    E + PGD V+ Y+
Sbjct: 188 ETSID---VREQDIVEGRVLRVNEDYVVIDIGYKSDGIVSRDE-FGEEEIHPGDTVEVYL 243

Query: 187 YDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKA--VSRDPG 234
              R+E R  Q++LS+     + +     V EIY     ++   + R  G
Sbjct: 244 E--RKEDRDGQLVLSKEQADKVRRW--QRVEEIYENEEVIEGTIIRRIKG 289


>gi|156742613|ref|YP_001432742.1| hypothetical protein Rcas_2652 [Roseiflexus castenholzii DSM 13941]
 gi|156233941|gb|ABU58724.1| conserved hypothetical protein [Roseiflexus castenholzii DSM 13941]
          Length = 437

 Score = 46.6 bits (110), Expect = 0.011,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 24/62 (38%)

Query: 433 VSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLG 492
            +++L  IPGI   I   L   GI T   LA CS  DL  W+      I +      +  
Sbjct: 106 PADDLQQIPGIGPAIARRLRTAGITTFAALAACSPSDLAAWTGRSAEQIVRMGWIERARD 165

Query: 493 TP 494
             
Sbjct: 166 LT 167


>gi|322806046|emb|CBZ03613.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Clostridium
           botulinum H04402 065]
          Length = 638

 Score = 46.6 bits (110), Expect = 0.011,   Method: Composition-based stats.
 Identities = 28/148 (18%), Positives = 58/148 (39%), Gaps = 16/148 (10%)

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
           V      I L    D +    +   V+      D  R  +  +++ I++ +R    +  +
Sbjct: 414 VFIPASHIELSHVDDLEAYKGLELEVNIIEFIKDRYRTKIVGSRRNILKIIRNKHIEETW 473

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSY 185
              +     ++ G VKR       +++   DG++   E          + L+ GD++K Y
Sbjct: 474 NSLE--KDTVVEGEVKRFTDFGAFIEINGVDGLLHVSEISWGRVEKPEDALKIGDKIKVY 531

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFH 213
           I D+ +E +  ++ LS      + KL  
Sbjct: 532 ILDIDKENK--KLALS------IKKLIE 551



 Score = 44.3 bits (104), Expect = 0.056,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 57/113 (50%), Gaps = 16/113 (14%)

Query: 96  VVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI 155
           ++ + +  M+     ++ +K  ++  + E E+          VG+++ GT+  +    + 
Sbjct: 267 IIKEAINKMNNNDSIIEVSKNEMLNYMNEKEQQIV-------VGKVVKGTIVSLNENELF 319

Query: 156 VDLG-NSDGVIRRDE------TISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           VDL   S+G+I ++E      +I +E+ + GD++++ I  ++ E     V+LS
Sbjct: 320 VDLNYKSEGIIPKEEVTLDEESILKESFKVGDKIEAKIVRIKNEDG--YVVLS 370


>gi|90655539|gb|ABD96378.1| 30S ribosomal protein S1 homolog B [uncultured marine type-A
           Synechococcus GOM 3O12]
          Length = 408

 Score = 46.6 bits (110), Expect = 0.011,   Method: Composition-based stats.
 Identities = 24/96 (25%), Positives = 41/96 (42%), Gaps = 5/96 (5%)

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR--PGDRVKSYIYD 188
             EF +K G+++   V     G V  DL    G I R +    EN +   G  +     +
Sbjct: 216 VKEF-EKEGKVVQVVVNGFNRGGVTCDLEGLRGFIPRSQLEDGENHQELVGKTLGVAFIE 274

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           V  E R  +++LS+       +   +EV ++  G+V
Sbjct: 275 VNSETR--KLVLSQKRAAVAARFQELEVGQLVEGVV 308


>gi|170758634|ref|YP_001787128.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding
           domain protein [Clostridium botulinum A3 str. Loch
           Maree]
 gi|169405623|gb|ACA54034.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase / ribosomal
           protein S1 homolog [Clostridium botulinum A3 str. Loch
           Maree]
          Length = 638

 Score = 46.6 bits (110), Expect = 0.012,   Method: Composition-based stats.
 Identities = 28/148 (18%), Positives = 58/148 (39%), Gaps = 16/148 (10%)

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
           V      I L    D +    +   V+      D  R  +  +++ I++ +R    +  +
Sbjct: 414 VFIPASHIELSHVDDLEAYKGLELEVNIIEFIKDRYRTKIVGSRRNILKTIRNEHIEETW 473

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSY 185
              +     ++ G VKR       +++   DG++   E          + L+ GD++K Y
Sbjct: 474 NSLE--KDTVVEGEVKRFTDFGAFIEINGVDGLLHVSEISWGRVEKPEDALKIGDKIKVY 531

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFH 213
           I D+ +E +  ++ LS      + KL  
Sbjct: 532 ILDIDKENK--KLALS------IKKLIE 551



 Score = 43.9 bits (103), Expect = 0.068,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 56/113 (49%), Gaps = 16/113 (14%)

Query: 96  VVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI 155
           ++ + +  M+     ++ +K  ++  + E E+          VG+++ GT+  +    + 
Sbjct: 267 IIKEAINKMNNNDSIIEVSKNEMLNYMNEKEQQIV-------VGKVVKGTIVSLNENELF 319

Query: 156 VDLG-NSDGVIRRDE------TISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           VDL   S+G+I ++E      +I +E+ + GD +++ I  ++ E     V+LS
Sbjct: 320 VDLNYKSEGIIPKEEVTLNEESILKESFKVGDEIEAKIVRIKNEDG--YVVLS 370


>gi|68263494|emb|CAI36982.1| 30S ribosomal protein S1 [Corynebacterium jeikeium K411]
          Length = 516

 Score = 46.6 bits (110), Expect = 0.012,   Method: Composition-based stats.
 Identities = 28/111 (25%), Positives = 50/111 (45%), Gaps = 16/111 (14%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAER-----DRQYLEFKDKVGEIISGTVKRVEYGNVIVD 157
             D   +   +  QV I  +  AE      D     F D  G+I+ GTV +V++  V++D
Sbjct: 23  SKDIQHMPTNNVPQVAINDIGSAEDFLAAVDSTIKYFND--GDIVEGTVVKVDHDEVLLD 80

Query: 158 LG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           +G  ++GVI   E          E +  GD + + +    +E +  +++LS
Sbjct: 81  IGYKTEGVIPSRELSIKHDVDPGEVVEVGDEIDALVL--TKEDKEGRLILS 129


>gi|261403642|ref|YP_003247866.1| NusA family KH domain protein [Methanocaldococcus vulcanius M7]
 gi|261370635|gb|ACX73384.1| NusA family KH domain protein [Methanocaldococcus vulcanius M7]
          Length = 174

 Score = 46.2 bits (109), Expect = 0.012,   Method: Composition-based stats.
 Identities = 19/79 (24%), Positives = 32/79 (40%), Gaps = 3/79 (3%)

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG--RI 308
           VGA +G  G  V+    +   +K+DI+ +S D   F+ N   P  +  V +         
Sbjct: 44  VGAAIGKGGENVKTAEEKF-GKKVDIIEYSDDWRKFIRNIFAPIHLEDVWVKRVGKDVVA 102

Query: 309 EVIVPKEQLSLAIGRRGQN 327
            + V         G +G+N
Sbjct: 103 FIKVSPRSRKAIFGEKGKN 121


>gi|145590377|ref|YP_001152379.1| DEAD/DEAH box helicase domain-containing protein [Pyrobaculum
           arsenaticum DSM 13514]
 gi|145282145|gb|ABP49727.1| DEAD/DEAH box helicase domain protein [Pyrobaculum arsenaticum DSM
           13514]
          Length = 710

 Score = 46.2 bits (109), Expect = 0.012,   Method: Composition-based stats.
 Identities = 19/55 (34%), Positives = 30/55 (54%)

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
            V  + A +L   GF  + ++A   + EIAS+ GF E+ A  I  +AR+ +EG  
Sbjct: 656 GVGRVRARVLYNFGFRTLRDIARASVREIASLPGFGEKLAESIIEQARQLVEGNA 710


>gi|269795322|ref|YP_003314777.1| 30S ribosomal protein S1P [Sanguibacter keddieii DSM 10542]
 gi|269097507|gb|ACZ21943.1| SSU ribosomal protein S1P [Sanguibacter keddieii DSM 10542]
          Length = 496

 Score = 46.2 bits (109), Expect = 0.012,   Method: Composition-based stats.
 Identities = 29/103 (28%), Positives = 52/103 (50%), Gaps = 16/103 (15%)

Query: 111 VQSAKQVIIQKVREAER-----DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGV 164
            +SA QV I  +  AE      D     F D  G+I+ GT+ +V+   V++D+G  ++GV
Sbjct: 7   AKSAPQVAINDIGTAEDFLAAIDATIKYFND--GDIVEGTIVKVDRDEVLLDIGYKTEGV 64

Query: 165 IRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           I   E          E ++ GD V++ +   ++E +  +++LS
Sbjct: 65  IPSRELSIKHDVDPGEVVKVGDAVEALVL--QKEDKEGRLILS 105


>gi|47086005|ref|NP_998371.1| DNA repair protein RAD51 homolog 1 [Danio rerio]
 gi|38571810|gb|AAH62849.1| RAD51 homolog (RecA homolog, E. coli) (S. cerevisiae) [Danio rerio]
          Length = 338

 Score = 46.2 bits (109), Expect = 0.012,   Method: Composition-based stats.
 Identities = 13/51 (25%), Positives = 21/51 (41%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           ++   +       L   GF  VE +A     E+ +I+G  E  A +I   A
Sbjct: 27  LEQSGISSSDIKKLEDGGFHTVEAVAYAPKKELLNIKGISEAKADKILTEA 77


>gi|283779540|ref|YP_003370295.1| hypothetical protein Psta_1760 [Pirellula staleyi DSM 6068]
 gi|283437993|gb|ADB16435.1| hypothetical protein Psta_1760 [Pirellula staleyi DSM 6068]
          Length = 775

 Score = 46.2 bits (109), Expect = 0.012,   Method: Composition-based stats.
 Identities = 35/156 (22%), Positives = 53/156 (33%), Gaps = 18/156 (11%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
           +E   S    K    R      A ++ E  +  L   G   V +L      ++AS     
Sbjct: 622 SERPASSGSDKFKLHRKDAVKDAPSIGEKTSQRLHVVGVRTVGDLLETNPVQLASKLKMS 681

Query: 403 EETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDL 462
             TA  I+   +E                      C +PGI       L  +GI+T EDL
Sbjct: 682 HITADTIRQWQKESTLC------------------CRMPGIAGHDAQILVASGIETPEDL 723

Query: 463 AGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQV 498
           A    D++L   E    + E      SS    +++V
Sbjct: 724 AELPADEVLQLIEPLIESSEGKRILRSSAPPDREEV 759


>gi|282165652|ref|YP_003358037.1| DNA repair and recombination protein RadA [Methanocella paludicola
           SANAE]
 gi|282157966|dbj|BAI63054.1| DNA repair and recombination protein RadA [Methanocella paludicola
           SANAE]
          Length = 323

 Score = 46.2 bits (109), Expect = 0.012,   Method: Composition-based stats.
 Identities = 14/52 (26%), Positives = 22/52 (42%)

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
               V    A  L   G+  +E +A    SE+A+     E TA +I   A++
Sbjct: 9   DLPGVGPATADKLKEAGYTSIEAIAVASPSELAAAAEVGENTASKIVAAAKK 60


>gi|55251281|emb|CAH69022.1| novel protein (zgc:77754) [Danio rerio]
          Length = 340

 Score = 46.2 bits (109), Expect = 0.012,   Method: Composition-based stats.
 Identities = 13/51 (25%), Positives = 21/51 (41%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           ++   +       L   GF  VE +A     E+ +I+G  E  A +I   A
Sbjct: 29  LEQSGISSSDIKKLEDGGFHTVEAVAYAPKKELLNIKGISEAKADKILTEA 79


>gi|270007202|gb|EFA03650.1| hypothetical protein TcasGA2_TC013744 [Tribolium castaneum]
          Length = 710

 Score = 46.2 bits (109), Expect = 0.012,   Method: Composition-based stats.
 Identities = 28/122 (22%), Positives = 48/122 (39%), Gaps = 42/122 (34%)

Query: 249 DPVGACVGMRGSRVQAVV-----------------TELRDEK-IDIV-----VWS----- 280
           + VGA +G +GS ++ ++                  E ++E+ + IV      W      
Sbjct: 510 NAVGAIIGTKGSHIRNIIRFSGASVKIAPIDETKPQETQNERRVTIVGSPEAQWKAQYLI 569

Query: 281 -PDSAT--FVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGW 337
                   FV  +           D+    +E++VP  Q+   IG+ GQNVR   ++TG 
Sbjct: 570 FEKMREEGFVAGS-----------DDVRLTVEIMVPSSQVGRIIGKGGQNVRELQRVTGS 618

Query: 338 TI 339
            I
Sbjct: 619 VI 620


>gi|302769123|ref|XP_002967981.1| hypothetical protein SELMODRAFT_408953 [Selaginella moellendorffii]
 gi|300164719|gb|EFJ31328.1| hypothetical protein SELMODRAFT_408953 [Selaginella moellendorffii]
          Length = 453

 Score = 46.2 bits (109), Expect = 0.013,   Method: Composition-based stats.
 Identities = 13/51 (25%), Positives = 20/51 (39%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           +Q   +  +    L   GF  VE +A     E+  I+G  E    +I   A
Sbjct: 29  LQHCGISAVDVKKLREAGFCTVEAVAYSPKKELLKIKGISEAKVDKITEAA 79


>gi|168184863|ref|ZP_02619527.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/ribosomal
           protein S1 homolog [Clostridium botulinum Bf]
 gi|237795216|ref|YP_002862768.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding
           domain-containing protein [Clostridium botulinum Ba4
           str. 657]
 gi|182672058|gb|EDT84019.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/ribosomal
           protein S1 homolog [Clostridium botulinum Bf]
 gi|229260583|gb|ACQ51616.1| putative 4-hydroxy-3-methylbut-2-enyl diphosphate
           reductase/ribosomal protein S1 [Clostridium botulinum
           Ba4 str. 657]
          Length = 644

 Score = 46.2 bits (109), Expect = 0.013,   Method: Composition-based stats.
 Identities = 27/148 (18%), Positives = 59/148 (39%), Gaps = 16/148 (10%)

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
           V      I L    D +    +   V+      D  +  +  +++ I++ +R+   +  +
Sbjct: 420 VFIPASHIELSHVDDLERYKGLELEVNIIEFIKDRYKTKIVGSRRNILKTIRDEHIEETW 479

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSY 185
              +     ++ G VKR       +++   DG++   E          + L+ GD++K Y
Sbjct: 480 NSLE--KDTVVEGEVKRFTNFGAFIEINGVDGLLHVSEISWGRVEKPEDALKIGDKIKVY 537

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFH 213
           I D+ +E +  ++ LS      + KL  
Sbjct: 538 ILDIDKENK--KLALS------IKKLIE 557



 Score = 40.4 bits (94), Expect = 0.68,   Method: Composition-based stats.
 Identities = 23/94 (24%), Positives = 47/94 (50%), Gaps = 16/94 (17%)

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDE---- 169
           K  ++  + E E+          VG+++ GT+  +    + VDL   S+G+I ++E    
Sbjct: 292 KNEMLNYMNEKEQQIV-------VGKVVKGTIVSLNENELFVDLNYKSEGIIPKEEVTLD 344

Query: 170 --TISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
             +I +E+ + GD +++ I  ++ E     V+LS
Sbjct: 345 EESILKESFKVGDEIEAKIVRIKNEDG--YVVLS 376


>gi|332983086|ref|YP_004464527.1| ribosomal protein S1 [Mahella australiensis 50-1 BON]
 gi|332700764|gb|AEE97705.1| ribosomal protein S1 [Mahella australiensis 50-1 BON]
          Length = 271

 Score = 46.2 bits (109), Expect = 0.013,   Method: Composition-based stats.
 Identities = 25/73 (34%), Positives = 37/73 (50%), Gaps = 6/73 (8%)

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDET------ISRENLRPGDRVKSYIYD 188
           K K G+IIS  V  V   +VIVD    +  I R+E        + + ++ GDRVK+ I +
Sbjct: 112 KHKAGDIISARVVGVGRNSVIVDCYGLEVRIARNEIDYGYVGNAGDYVQIGDRVKAVIKE 171

Query: 189 VRREQRGPQVLLS 201
           +      P+V LS
Sbjct: 172 IDLTGDEPKVKLS 184


>gi|316978565|gb|EFV61540.1| DNA repair and recombination protein RadA [Trichinella spiralis]
          Length = 364

 Score = 46.2 bits (109), Expect = 0.013,   Method: Composition-based stats.
 Identities = 20/75 (26%), Positives = 29/75 (38%), Gaps = 4/75 (5%)

Query: 341 IITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEG 400
           I+ +EE   N       R + F    NVD      L   GF  +E +A      +  I+G
Sbjct: 34  IMPQEEMEENFGPQPISRLEQF-GIPNVD---IKKLEEAGFYTIESVAFTPKKVLIDIKG 89

Query: 401 FDEETAVEIQGRARE 415
             E  A +I   A +
Sbjct: 90  ISEAKADKILSEASK 104


>gi|294507814|ref|YP_003571872.1| 30S ribosomal protein S1 [Salinibacter ruber M8]
 gi|294344142|emb|CBH24920.1| 30S ribosomal protein S1 [Salinibacter ruber M8]
          Length = 876

 Score = 46.2 bits (109), Expect = 0.013,   Method: Composition-based stats.
 Identities = 35/117 (29%), Positives = 57/117 (48%), Gaps = 17/117 (14%)

Query: 130 QYLEFKD---------KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPG 179
            Y +F+D         +  +I+ G V RV    V++D+G  SDG++ RDE    E + PG
Sbjct: 178 VYDQFRDVVDETSIDVREQDIVEGRVLRVNEDYVVIDIGYKSDGIVSRDE-FGEEEIHPG 236

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKA--VSRDPG 234
           D V+ Y+   R+E R  Q++LS+     + +     V EIY     ++   + R  G
Sbjct: 237 DTVEVYLE--RKEDRDGQLVLSKEQADKVRRW--QRVEEIYENEEVIEGTIIRRIKG 289


>gi|320120527|gb|ADW16175.1| hypothetical protein HMPREF0389_01731 [Filifactor alocis ATCC
           35896]
          Length = 394

 Score = 46.2 bits (109), Expect = 0.013,   Method: Composition-based stats.
 Identities = 22/78 (28%), Positives = 38/78 (48%), Gaps = 5/78 (6%)

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVK 183
            E ++ Y E     G I+ G V+RV+  +  + L   +DGV+ R E    E L+ GD V 
Sbjct: 10  QEEEQNYEEV--YRGSIVKGYVERVKPDSYYITLNYKTDGVLPRSEMSGDEELQVGDEVS 67

Query: 184 SYIYDVRREQRGPQVLLS 201
             +  + +     +++LS
Sbjct: 68  LEVIKIDKNTG--EIILS 83


>gi|146302794|ref|YP_001190110.1| DNA repair and recombination protein RadA [Metallosphaera sedula
           DSM 5348]
 gi|226736609|sp|A4YCN4|RADA_METS5 RecName: Full=DNA repair and recombination protein radA
 gi|145701044|gb|ABP94186.1| DNA repair and recombination protein RadA [Metallosphaera sedula
           DSM 5348]
          Length = 324

 Score = 46.2 bits (109), Expect = 0.014,   Method: Composition-based stats.
 Identities = 13/82 (15%), Positives = 35/82 (42%), Gaps = 3/82 (3%)

Query: 354 DFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           +  +R +       V + + + L   G++ +E +A     ++++  G    TA  I   A
Sbjct: 6   EEKKRIKTVKDLSGVGQAVLNKLTEAGYSTLESIAVASPQDLSTAAGIPITTAQRIIKEA 65

Query: 414 REYLEGI---DITLQKKIRELG 432
           R+ L+      + ++++   + 
Sbjct: 66  RDALDIRFKTALEIEQERASVK 87


>gi|332670357|ref|YP_004453365.1| RNA binding S1 domain-containing protein [Cellulomonas fimi ATCC
           484]
 gi|332339395|gb|AEE45978.1| RNA binding S1 domain protein [Cellulomonas fimi ATCC 484]
          Length = 510

 Score = 46.2 bits (109), Expect = 0.014,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 40/70 (57%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E ++ GD V++ +   ++
Sbjct: 59  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPGEVVKVGDEVEALVL--QK 116

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 117 EDKEGRLILS 126


>gi|160880581|ref|YP_001559549.1| hydroxymethylbutenyl pyrophosphate reductase [Clostridium
           phytofermentans ISDg]
 gi|160429247|gb|ABX42810.1| hydroxymethylbutenyl pyrophosphate reductase [Clostridium
           phytofermentans ISDg]
          Length = 643

 Score = 46.2 bits (109), Expect = 0.014,   Method: Composition-based stats.
 Identities = 39/169 (23%), Positives = 66/169 (39%), Gaps = 30/169 (17%)

Query: 61  SLFRLLEV----VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLP-------------P 103
             F   EV    V  V +    + +  AR   P+          L               
Sbjct: 385 EAFNNKEVLKAKVAAVLDGGLSVIVDEARIFIPASLASDTYEKNLDKFKDQEIEFVISEF 444

Query: 104 MDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG 163
               R  +   KQ+++ K +E      +   K KVG+++ GTVK V      +DLG +DG
Sbjct: 445 NPKRRRIIGDRKQLLVAKKQEL-SKALFA--KIKVGDVVEGTVKNVTDFGAFIDLGGADG 501

Query: 164 VIRRDET------ISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQ 206
           ++   E         ++  + GD VK++I D++    G ++ LS   P+
Sbjct: 502 LLHISEMSWGRIESPKKVFKVGDTVKAFIKDIQ----GEKIALSLKFPE 546


>gi|153941510|ref|YP_001391062.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding
           domain protein [Clostridium botulinum F str. Langeland]
 gi|152937406|gb|ABS42904.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase / ribosomal
           protein S1 homolog [Clostridium botulinum F str.
           Langeland]
 gi|295319111|gb|ADF99488.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase / ribosomal
           protein S1-like protein [Clostridium botulinum F str.
           230613]
          Length = 638

 Score = 46.2 bits (109), Expect = 0.014,   Method: Composition-based stats.
 Identities = 28/148 (18%), Positives = 58/148 (39%), Gaps = 16/148 (10%)

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
           V      I L    D +    +   V+      D  R  +  +++ I++ +R    +  +
Sbjct: 414 VFIPASHIELSHVDDLEAYKGLELEVNIIEFIKDRYRTKIVGSRRNILKTIRNKHIEETW 473

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSY 185
              +     ++ G VKR       +++   DG++   E          + L+ GD++K Y
Sbjct: 474 NSLE--KDTVVEGEVKRFTDFGAFIEINGVDGLLHVSEISWGRVEKPEDALKIGDKIKVY 531

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFH 213
           I D+ +E +  ++ LS      + KL  
Sbjct: 532 ILDIDKENK--KLALS------IKKLIE 551



 Score = 43.9 bits (103), Expect = 0.061,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 57/113 (50%), Gaps = 16/113 (14%)

Query: 96  VVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI 155
           ++ + +  M+     ++ +K  ++  + E E+          VG+++ GT+  +    + 
Sbjct: 267 IIKEAINKMNNNDSIIEVSKNEMLNYMNEKEQQIV-------VGKVVKGTIVSLNENELF 319

Query: 156 VDLG-NSDGVIRRDE------TISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           VDL   S+G+I ++E      +I +E+ + GD++++ I  ++ E     V+LS
Sbjct: 320 VDLNYKSEGIIPKEEVTLDEESILKESFKVGDKIEAKIVRIKNEDG--YVVLS 370


>gi|302338566|ref|YP_003803772.1| ribosomal protein S1 [Spirochaeta smaragdinae DSM 11293]
 gi|301635751|gb|ADK81178.1| ribosomal protein S1 [Spirochaeta smaragdinae DSM 11293]
          Length = 571

 Score = 46.2 bits (109), Expect = 0.014,   Method: Composition-based stats.
 Identities = 29/86 (33%), Positives = 45/86 (52%), Gaps = 7/86 (8%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
            G+++ G+V +V   NV VD+G  S+G I   E         GD V   +  VR+E +G 
Sbjct: 32  EGQLVEGSVIQVGPENVFVDVGYKSEGKIPLSE--FETTPEIGDIVNVVL--VRKEGKGG 87

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNG 222
           QV++S+      VKLF  E+ E ++ 
Sbjct: 88  QVVVSKNKAD--VKLFWKELREAFDN 111


>gi|284162501|ref|YP_003401124.1| DNA repair and recombination protein RadA [Archaeoglobus profundus
           DSM 5631]
 gi|284012498|gb|ADB58451.1| DNA repair and recombination protein RadA [Archaeoglobus profundus
           DSM 5631]
          Length = 805

 Score = 46.2 bits (109), Expect = 0.014,   Method: Composition-based stats.
 Identities = 14/54 (25%), Positives = 25/54 (46%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
                 V   IA  L   G+  +E +A    +E++++    E TA++I   AR+
Sbjct: 12  LEDLPGVGSAIAEKLREAGYDSIELIAVSSPAELSAVADIGEATALKIITAARK 65


>gi|168180380|ref|ZP_02615044.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase / ribosomal
           protein S1 homolog [Clostridium botulinum NCTC 2916]
 gi|226949048|ref|YP_002804139.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding
           domain-containing protein [Clostridium botulinum A2 str.
           Kyoto]
 gi|182668877|gb|EDT80855.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase / ribosomal
           protein S1 homolog [Clostridium botulinum NCTC 2916]
 gi|226843882|gb|ACO86548.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase / ribosomal
           protein S1 homolog [Clostridium botulinum A2 str. Kyoto]
          Length = 638

 Score = 46.2 bits (109), Expect = 0.014,   Method: Composition-based stats.
 Identities = 28/148 (18%), Positives = 58/148 (39%), Gaps = 16/148 (10%)

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
           V      I L    D +    +   V+      D  R  +  +++ I++ +R    +  +
Sbjct: 414 VFIPASHIELSHVDDLEAYKGLELEVNIIEFIKDRYRTKIVGSRRNILKTIRNKHIEETW 473

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSY 185
              +     ++ G VKR       +++   DG++   E          + L+ GD++K Y
Sbjct: 474 NSLE--KDTVVEGEVKRFTDFGAFIEINGVDGLLHVSEISWGRVEKPEDALKIGDKIKVY 531

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFH 213
           I D+ +E +  ++ LS      + KL  
Sbjct: 532 ILDIDKENK--KLALS------IKKLIE 551



 Score = 43.5 bits (102), Expect = 0.082,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 56/113 (49%), Gaps = 16/113 (14%)

Query: 96  VVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI 155
           ++ + +  M+     ++ +K  ++  + E E+          VG+++ GT+  +    + 
Sbjct: 267 IIKEAINKMNNNDSIIEVSKNEMLNYMNEKEQQIV-------VGKVVKGTIVSLNENELF 319

Query: 156 VDLG-NSDGVIRRDE------TISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           VDL   S+G+I ++E      +I +E+ + GD +++ I  ++ E     V+LS
Sbjct: 320 VDLSYKSEGIIPKEEVTLDEESILKESFKVGDEIEAKIVRIKNEDG--YVVLS 370


>gi|153937572|ref|YP_001387604.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding
           domain protein [Clostridium botulinum A str. Hall]
 gi|152933486|gb|ABS38985.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase / ribosomal
           protein S1 homolog [Clostridium botulinum A str. Hall]
          Length = 638

 Score = 46.2 bits (109), Expect = 0.014,   Method: Composition-based stats.
 Identities = 32/184 (17%), Positives = 71/184 (38%), Gaps = 22/184 (11%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINP--ETGDISLFRLLEVVEEVENYTC 77
           K + R+ VL  + ++        +     I+V +    + G I ++  + V         
Sbjct: 372 KELHREKVLKNLKEA--------FENKQTIKVIVKDAVDAGLICIYNGVRV----FIPAS 419

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
            I L    D +    +   V+      D  R  +  +++ I++ +R    +  +   +  
Sbjct: 420 HIELSHVDDLEAYKGLELEVNIIEFIKDRYRTKIVGSRRNILKTIRNKHIEETWNSLE-- 477

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
              ++ G VKR       +++   DG++   E          + L+ GD++K YI D+ +
Sbjct: 478 KDTVVEGEVKRFTDFGAFIEINGVDGLLHVSEISWGRVEKPEDALKIGDKIKVYILDIDK 537

Query: 192 EQRG 195
           E + 
Sbjct: 538 ENKK 541



 Score = 43.5 bits (102), Expect = 0.077,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 56/113 (49%), Gaps = 16/113 (14%)

Query: 96  VVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI 155
           ++ + +  M+     ++ +K  ++  + E E+          VG+++ GT+  +    + 
Sbjct: 267 IIKEAINKMNNNDSIIEVSKNEMLNYMNEKEQQIV-------VGKVVKGTIVSLNENELF 319

Query: 156 VDLG-NSDGVIRRDE------TISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           VDL   S+G+I ++E      +I +E+ + GD +++ I  ++ E     V+LS
Sbjct: 320 VDLSYKSEGIIPKEEVTLDEESILKESFKVGDEIEAKIVRIKNEDG--YVVLS 370


>gi|227872165|ref|ZP_03990534.1| possible ribosomal protein S1 [Oribacterium sinus F0268]
 gi|227841994|gb|EEJ52255.1| possible ribosomal protein S1 [Oribacterium sinus F0268]
          Length = 367

 Score = 46.2 bits (109), Expect = 0.015,   Method: Composition-based stats.
 Identities = 25/132 (18%), Positives = 60/132 (45%), Gaps = 12/132 (9%)

Query: 81  LKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGE 140
           +  + +RD +   G  +   +   +  +  +   ++ I+  +++ + D+ + E K   G+
Sbjct: 138 VSDSFERDLNKYQGQDIQFVITEFNPAKRRIIGDRKQIMSAMKKEQHDKLFSELK--EGD 195

Query: 141 IISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           I +G VK +      +DLG +DG++   E         ++  +PG  V+  + ++     
Sbjct: 196 IRTGVVKNLTDFGAFIDLGGADGLLHISEMSWGRIENPKKLFKPGQEVEVLVKEIS---- 251

Query: 195 GPQVLLSRTHPQ 206
           G ++ L+R  P 
Sbjct: 252 GERIALTRKFPN 263


>gi|150401406|ref|YP_001325172.1| DNA repair and recombination protein RadA [Methanococcus aeolicus
           Nankai-3]
 gi|150014109|gb|ABR56560.1| DNA repair and recombination protein RadA [Methanococcus aeolicus
           Nankai-3]
          Length = 322

 Score = 46.2 bits (109), Expect = 0.015,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 25/58 (43%)

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
            T        V    A  L+  G+ D  ++A   I E+  IEG  E+ A ++   AR+
Sbjct: 1   MTDNLTDLPGVGPSTAEKLIEGGYIDFMKIATATIGELVDIEGISEKAAAKMIMGARD 58



 Score = 37.7 bits (87), Expect = 5.4,   Method: Composition-based stats.
 Identities = 13/74 (17%), Positives = 24/74 (32%), Gaps = 17/74 (22%)

Query: 433 VSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLG 492
           +++ L  +PG+       L E G             D +  +    G +   +G      
Sbjct: 1   MTDNLTDLPGVGPSTAEKLIEGGYI-----------DFMKIATATIGELVDIEGI----- 44

Query: 493 TPKDQVESMIIHAR 506
             +     MI+ AR
Sbjct: 45  -SEKAAAKMIMGAR 57


>gi|118430925|ref|NP_147034.2| holliday junction migration helicase [Aeropyrum pernix K1]
 gi|150421571|sp|Q9YFQ8|HELS_AERPE RecName: Full=Putative ski2-type helicase
 gi|116062250|dbj|BAA79103.2| holliday junction migration helicase [Aeropyrum pernix K1]
          Length = 735

 Score = 46.2 bits (109), Expect = 0.015,   Method: Composition-based stats.
 Identities = 18/82 (21%), Positives = 37/82 (45%), Gaps = 5/82 (6%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
            ++   V  + A +L   G+  +E+LA  +  ++  +      TA +I     E+L  +D
Sbjct: 649 LVEIPGVGRVRARILFEAGYRSIEDLATARAEDLMRLPLIGPSTARQIL----EFLGRVD 704

Query: 422 ITLQKKIRELGVSEELCS-IPG 442
              + + RE+   + L S + G
Sbjct: 705 EAREAEAREMLARKGLLSYLEG 726



 Score = 38.9 bits (90), Expect = 2.1,   Method: Composition-based stats.
 Identities = 25/106 (23%), Positives = 48/106 (45%), Gaps = 5/106 (4%)

Query: 422 ITLQKKIRELGVSEELCSI---PGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
           +++  +  + GV  EL  +   PG+       L E G +++EDLA    +DL+       
Sbjct: 631 LSVIARRIKHGVKPELLQLVEIPGVGRVRARILFEAGYRSIEDLATARAEDLMRLPLIGP 690

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARY-KMGWIEKEKVADEEVQ 523
               +   FL  +   ++  E+  + AR   + ++E + VA EE +
Sbjct: 691 STARQILEFLGRVDEARE-AEAREMLARKGLLSYLEGDAVAGEEGE 735


>gi|148379766|ref|YP_001254307.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Clostridium
           botulinum A str. ATCC 3502]
 gi|153931983|ref|YP_001384064.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding
           domain protein [Clostridium botulinum A str. ATCC 19397]
 gi|148289250|emb|CAL83346.1| Composite protein include: 4-hydroxy-3-methylbut-2-enyl diphosphate
           reductase (N-terminus) and an RNA-associated domain
           (C-terminus) [Clostridium botulinum A str. ATCC 3502]
 gi|152928027|gb|ABS33527.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase / ribosomal
           protein S1 homolog [Clostridium botulinum A str. ATCC
           19397]
          Length = 638

 Score = 46.2 bits (109), Expect = 0.015,   Method: Composition-based stats.
 Identities = 24/130 (18%), Positives = 51/130 (39%), Gaps = 8/130 (6%)

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
           V      I L    D +    +   V+      D  R  +  +++ I++ +R    +  +
Sbjct: 414 VFIPASHIELSHVDDLEAYKGLELEVNIIEFIKDRYRTKIVGSRRNILKTIRNKHIEETW 473

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSY 185
              +     ++ G VKR       +++   DG++   E          + L+ GD++K Y
Sbjct: 474 NSLE--KDTVVEGEVKRFTDFGAFIEINGVDGLLHVSEISWGRVEKPEDALKIGDKIKVY 531

Query: 186 IYDVRREQRG 195
           I D+ +E + 
Sbjct: 532 ILDIDKENKK 541



 Score = 43.5 bits (102), Expect = 0.077,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 56/113 (49%), Gaps = 16/113 (14%)

Query: 96  VVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI 155
           ++ + +  M+     ++ +K  ++  + E E+          VG+++ GT+  +    + 
Sbjct: 267 IIKEAINKMNNNDSIIEVSKNEMLNYMNEKEQQIV-------VGKVVKGTIVSLNENELF 319

Query: 156 VDLG-NSDGVIRRDE------TISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           VDL   S+G+I ++E      +I +E+ + GD +++ I  ++ E     V+LS
Sbjct: 320 VDLSYKSEGIIPKEEVTLDEESILKESFKVGDEIEAKIVRIKNEDG--YVVLS 370


>gi|213515370|ref|NP_001134027.1| DNA repair protein RAD51 homolog A [Salmo salar]
 gi|209156210|gb|ACI34337.1| DNA repair protein RAD51 homolog A [Salmo salar]
          Length = 338

 Score = 45.8 bits (108), Expect = 0.015,   Method: Composition-based stats.
 Identities = 11/51 (21%), Positives = 21/51 (41%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           ++   +       L   GF  +E +A     E+ +I+G  E  A ++   A
Sbjct: 27  LEQCGISASDIKKLEDAGFHTIEAVAYAPKKELLNIKGISEAKADKVLAEA 77


>gi|221633021|ref|YP_002522246.1| 30S ribosomal protein S1 [Thermomicrobium roseum DSM 5159]
 gi|221156851|gb|ACM05978.1| 30S ribosomal protein S1 [Thermomicrobium roseum DSM 5159]
          Length = 443

 Score = 45.8 bits (108), Expect = 0.015,   Method: Composition-based stats.
 Identities = 27/94 (28%), Positives = 42/94 (44%), Gaps = 8/94 (8%)

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------S 172
           +Q+ R+A + +       + GE   G V  +    V VD+G +DG++   E         
Sbjct: 207 VQEQRDAMKAQLIETL--REGETRRGRVTSIADFGVFVDIGGADGLVHLSEISWTRVKHP 264

Query: 173 RENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQ 206
            E LR GD V   +  V  EQR   + + RT P+
Sbjct: 265 SEVLRVGDEVDVMVLSVNPEQRKIALSIRRTQPE 298



 Score = 38.1 bits (88), Expect = 3.6,   Method: Composition-based stats.
 Identities = 21/71 (29%), Positives = 35/71 (49%), Gaps = 8/71 (11%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDE---TISRE--NLRPGDRVKSYIYDVR 190
           + G+++ G V  V+   ++VD+ G  +GV+   E       E   LRPGDRV  ++    
Sbjct: 43  RYGDVVEGEVMHVDREKILVDIGGKCEGVVPSREFQTLSPEELGRLRPGDRVLVFVLQPE 102

Query: 191 REQRGPQVLLS 201
            +    Q +LS
Sbjct: 103 DQAG--QAILS 111


>gi|291235734|ref|XP_002737805.1| PREDICTED: RAD51 homolog protein-like [Saccoglossus kowalevskii]
          Length = 287

 Score = 45.8 bits (108), Expect = 0.016,   Method: Composition-based stats.
 Identities = 13/70 (18%), Positives = 27/70 (38%)

Query: 342 ITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
           +  E+    +++DF       +++  +       L   G+  VE +A     E+  I G 
Sbjct: 5   MQVEQQQGTQEEDFGPIPIHKLESHGISANDVKKLEDAGYHTVEAIAYAPKKELIGIRGI 64

Query: 402 DEETAVEIQG 411
            +  A +I  
Sbjct: 65  SDAKADKILN 74


>gi|302671391|ref|YP_003831351.1| ribosomal protein S1 RpsA [Butyrivibrio proteoclasticus B316]
 gi|302395864|gb|ADL34769.1| ribosomal protein S1 RpsA [Butyrivibrio proteoclasticus B316]
          Length = 379

 Score = 45.8 bits (108), Expect = 0.016,   Method: Composition-based stats.
 Identities = 27/141 (19%), Positives = 58/141 (41%), Gaps = 12/141 (8%)

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+EV  +     +  + ++D S      +   +   +  R      +++++   +    
Sbjct: 125 VVDEVRIFIPASLVSDSYEKDLSKYQDQEIQFVVTEYNPKRRRYIGNRKMLVSAEKAEAA 184

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDET------ISRENLRPGDR 181
            + +   K   G+++ G VK V      +DLG +DG++   E         ++  + GD 
Sbjct: 185 KKLFDTIKA--GDVVDGVVKNVTDFGAFIDLGGADGLLHISEMSWGRVESPKKVFKIGDT 242

Query: 182 VKSYIYDVRREQRGPQVLLSR 202
           VK  +  +     G ++ LSR
Sbjct: 243 VKVLVKSID----GSKIALSR 259


>gi|117928296|ref|YP_872847.1| 30S ribosomal protein S1 [Acidothermus cellulolyticus 11B]
 gi|117648759|gb|ABK52861.1| SSU ribosomal protein S1P [Acidothermus cellulolyticus 11B]
          Length = 515

 Score = 45.8 bits (108), Expect = 0.016,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 41/70 (58%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V+   V++D+G  ++GVI   E          E ++ GDR+++ +   ++
Sbjct: 45  GDIVEGTVVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPHEVVKVGDRIEALVL--QK 102

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 103 EDKDGRLILS 112


>gi|50978688|ref|NP_001003043.1| DNA repair protein RAD51 homolog 1 [Canis lupus familiaris]
 gi|75047603|sp|Q8MKI8|RAD51_CANFA RecName: Full=DNA repair protein RAD51 homolog 1; AltName:
           Full=cRad51
 gi|20387091|dbj|BAB91246.1| Rad51 [Canis lupus familiaris]
          Length = 339

 Score = 45.8 bits (108), Expect = 0.017,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 28/67 (41%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
           D+   ++ F  +    ++   ++      L   GF  VE +A     E+ SI+G  E  A
Sbjct: 12  DTSVEEESFGPQPISRLEQCGINANDVKKLEEAGFHTVEAVAYAPKKELISIKGISEAKA 71

Query: 407 VEIQGRA 413
            +I   A
Sbjct: 72  DKILTEA 78


>gi|2500103|sp|P70099|RAD51_CRIGR RecName: Full=DNA repair protein RAD51 homolog 1
 gi|1552258|emb|CAA69384.1| rad51 [Cricetulus griseus]
          Length = 339

 Score = 45.8 bits (108), Expect = 0.017,   Method: Composition-based stats.
 Identities = 15/67 (22%), Positives = 27/67 (40%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
           D+   ++ F  +    ++   +       L   GF  VE +A     E+ +I+G  E  A
Sbjct: 12  DTSVEEESFGPQPISRLEQCGISANDVKKLEEAGFHTVEAVAYAPKKELINIKGISEAKA 71

Query: 407 VEIQGRA 413
            +I   A
Sbjct: 72  DKILAEA 78


>gi|237752568|ref|ZP_04583048.1| 30s ribosomal protein s1 [Helicobacter winghamensis ATCC BAA-430]
 gi|229376057|gb|EEO26148.1| 30s ribosomal protein s1 [Helicobacter winghamensis ATCC BAA-430]
          Length = 560

 Score = 45.8 bits (108), Expect = 0.017,   Method: Composition-based stats.
 Identities = 36/162 (22%), Positives = 69/162 (42%), Gaps = 15/162 (9%)

Query: 58  GDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSA--- 114
           G+I      +VV  V     +  + +    D   ++   V D LP +  GR   Q     
Sbjct: 40  GNIVAIENNQVVIAVPGEKKEGIVALDEILDAQGNLLFKVGDTLPIVITGRRNEQPIVSY 99

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRE 174
           K+ I ++           ++KDK   I+ G V R   G  +V+ G+ +  + +     +E
Sbjct: 100 KKAIRKEKVRQYIQSLGDDYKDK---IVEGVVVRRNKGGYVVESGDIEFFMPKFTAAFKE 156

Query: 175 NLRP-GDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHME 215
             +  G ++K+ I +V+ E+    +++SR       +LF +E
Sbjct: 157 GSKIEGKKIKACIINVKPEED--SIVISR------KRLFELE 190


>gi|289825802|ref|ZP_06544970.1| transcription elongation factor NusA [Salmonella enterica subsp.
          enterica serovar Typhi str. E98-3139]
          Length = 39

 Score = 45.8 bits (108), Expect = 0.017,   Method: Composition-based stats.
 Identities = 8/37 (21%), Positives = 20/37 (54%)

Query: 6  RLELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSL 42
            E+L + +AV+ EK++ R+ +   +  ++  A +  
Sbjct: 2  NKEILAVVEAVSNEKALPREKIFEALESALATATKEK 38


>gi|332158421|ref|YP_004423700.1| DNA repair and recombination protein RadA [Pyrococcus sp. NA2]
 gi|331033884|gb|AEC51696.1| DNA repair and recombination protein RadA [Pyrococcus sp. NA2]
          Length = 354

 Score = 45.8 bits (108), Expect = 0.018,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 21/53 (39%)

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
               V    A  L   G+  +E +A     E+  + G  E  A++I   AR+ 
Sbjct: 44  DLPGVGPATAEKLREAGYDSLEAIAVASPIELKEVAGISEGAALKIIQAARKA 96


>gi|190571429|ref|YP_001975787.1| ribosomal protein S1 [Wolbachia endosymbiont of Culex
           quinquefasciatus Pel]
 gi|213018827|ref|ZP_03334635.1| ribosomal protein S1 [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
 gi|190357701|emb|CAQ55150.1| ribosomal protein S1 [Wolbachia endosymbiont of Culex
           quinquefasciatus Pel]
 gi|212995778|gb|EEB56418.1| ribosomal protein S1 [Wolbachia endosymbiont of Culex
           quinquefasciatus JHB]
          Length = 550

 Score = 45.8 bits (108), Expect = 0.018,   Method: Composition-based stats.
 Identities = 18/67 (26%), Positives = 35/67 (52%), Gaps = 3/67 (4%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           K G+++ G + R    +++VD+G  SDG I   E    +++  G +++ Y+  +      
Sbjct: 48  KEGDVVEGIITRRNSNDIVVDVGLKSDGRILIKELSCNDDITVGSKIRVYVERIEDYHGN 107

Query: 196 PQVLLSR 202
             V+LSR
Sbjct: 108 --VVLSR 112



 Score = 39.3 bits (91), Expect = 1.8,   Method: Composition-based stats.
 Identities = 25/144 (17%), Positives = 57/144 (39%), Gaps = 14/144 (9%)

Query: 62  LFRLLEVVEEVENYTCQISLKVAR---DRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI 118
            F   E+ E+VE      +L  ++   D     ++G  +   +   +  R  +    + I
Sbjct: 415 TFDNSEISEDVEGTIYMQNLSWSKNNSDEIKKYNVGDEIEAKVIRANVDRTRIYLGVKQI 474

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETIS-RENLR 177
                E   ++       KVG+ I  TV + E   +IV++ N+  ++   E +   +   
Sbjct: 475 EYDPLEELIEKV------KVGDKIQVTVSKREENGLIVEIENNVTLLVDQEHLPENKKFS 528

Query: 178 PGDRVKSYIYDVRREQRGPQVLLS 201
             ++++  +  V +      ++LS
Sbjct: 529 ISEKIQVEVVGVEKYN----IILS 548


>gi|123966450|ref|YP_001011531.1| hypothetical protein P9515_12171 [Prochlorococcus marinus str. MIT
           9515]
 gi|123200816|gb|ABM72424.1| Hypothetical protein P9515_12171 [Prochlorococcus marinus str. MIT
           9515]
          Length = 248

 Score = 45.8 bits (108), Expect = 0.018,   Method: Composition-based stats.
 Identities = 10/53 (18%), Positives = 22/53 (41%)

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           T    +   V    A LL   G+  +E +      E+ +I+G  ++   +++ 
Sbjct: 196 TDLLCELDGVGGKTAGLLWDAGYLSIEAVKNAPQEELLNIKGIGKKLVEKLKS 248


>gi|313127538|ref|YP_004037808.1| nusa family kh domain protein [Halogeometricum borinquense DSM
           11551]
 gi|312293903|gb|ADQ68363.1| NusA family KH domain protein [Halogeometricum borinquense DSM
           11551]
          Length = 139

 Score = 45.8 bits (108), Expect = 0.018,   Method: Composition-based stats.
 Identities = 26/84 (30%), Positives = 40/84 (47%), Gaps = 2/84 (2%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR-IEV 310
           G  +G RG  V AV  ++    +++V  +  +  FV + L PA V  V + E   R   V
Sbjct: 44  GQAIGPRGQHVHAVEEKI-GRSVELVEDADTTEAFVESMLAPAAVRHVTISEQDDRVAYV 102

Query: 311 IVPKEQLSLAIGRRGQNVRLASQL 334
            V      +AIG+ G+N+  A  L
Sbjct: 103 EVENADRGVAIGKEGRNIETARTL 126


>gi|126458706|ref|YP_001054984.1| DEAD/DEAH box helicase domain-containing protein [Pyrobaculum
           calidifontis JCM 11548]
 gi|226740608|sp|A3MSA1|HELS_PYRCJ RecName: Full=Putative ski2-type helicase
 gi|126248427|gb|ABO07518.1| DEAD/DEAH box helicase domain protein [Pyrobaculum calidifontis JCM
           11548]
          Length = 708

 Score = 45.8 bits (108), Expect = 0.018,   Method: Composition-based stats.
 Identities = 23/93 (24%), Positives = 40/93 (43%), Gaps = 2/93 (2%)

Query: 328 VRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI-NVDEIIAHLLVAEGFADVEE 386
            +LA +L G        E  +        E     + ++  V  + A  L   G+  +E+
Sbjct: 611 AKLA-RLVGREEHGKRLEVVTARVVYGVREELLGLVTSLRGVGRVRARTLYNFGYRTLED 669

Query: 387 LACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
           +A   + EIAS+ GF E+ A  +  +AR+ L  
Sbjct: 670 IARATVREIASLPGFGEKLAESVIEQARQMLAE 702


>gi|288818328|ref|YP_003432676.1| ribosomal protein S1 [Hydrogenobacter thermophilus TK-6]
 gi|288787728|dbj|BAI69475.1| ribosomal protein S1 [Hydrogenobacter thermophilus TK-6]
 gi|308751925|gb|ADO45408.1| RNA binding S1 domain protein [Hydrogenobacter thermophilus TK-6]
          Length = 528

 Score = 45.8 bits (108), Expect = 0.019,   Method: Composition-based stats.
 Identities = 19/58 (32%), Positives = 33/58 (56%), Gaps = 4/58 (6%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
           + GEII   V +V+  N+ VD+G   +G+I R+E I   + + GD +K+ +  + R  
Sbjct: 19  RRGEIIRCKVIKVDERNIYVDVGYKVEGIIPREE-IP--DAKEGDEIKAVVTKISRGG 73


>gi|297619372|ref|YP_003707477.1| DNA repair and recombination protein RadA [Methanococcus voltae A3]
 gi|297378349|gb|ADI36504.1| DNA repair and recombination protein RadA [Methanococcus voltae A3]
          Length = 322

 Score = 45.8 bits (108), Expect = 0.019,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 24/58 (41%)

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
            +        V    A  L   G+ D  ++A   + E+  IEG  E+ A ++   AR+
Sbjct: 1   MSDNLTDLPGVGPSTAEKLAEGGYIDFMKIATATVGELTDIEGISEKAAAKMIMGARD 58



 Score = 39.7 bits (92), Expect = 1.1,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 24/74 (32%), Gaps = 17/74 (22%)

Query: 433 VSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLG 492
           +S+ L  +PG+       L E G             D +  +    G +   +G      
Sbjct: 1   MSDNLTDLPGVGPSTAEKLAEGGYI-----------DFMKIATATVGELTDIEGI----- 44

Query: 493 TPKDQVESMIIHAR 506
             +     MI+ AR
Sbjct: 45  -SEKAAAKMIMGAR 57


>gi|297619549|ref|YP_003707654.1| NusA family KH domain-containing protein [Methanococcus voltae A3]
 gi|297378526|gb|ADI36681.1| NusA family KH domain protein [Methanococcus voltae A3]
          Length = 189

 Score = 45.8 bits (108), Expect = 0.019,   Method: Composition-based stats.
 Identities = 14/49 (28%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKV 299
           +GA +G  G  V+    +    KID++ +S D   F+ N   P  +  V
Sbjct: 43  IGAAIGKGGENVRNATEKF-GRKIDLIEYSDDVKQFIRNIFAPVELEDV 90



 Score = 37.7 bits (87), Expect = 4.4,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 35/71 (49%), Gaps = 2/71 (2%)

Query: 291 LRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSIN 350
           +  A V   V DE+  +I  ++ +  +  AIG+ G+NVR A++  G  ID+I   +D   
Sbjct: 19  MTGADVIDSVADEE--KITFVIKEGDIGAAIGKGGENVRNATEKFGRKIDLIEYSDDVKQ 76

Query: 351 RQKDFNERTQF 361
             ++     + 
Sbjct: 77  FIRNIFAPVEL 87


>gi|168186332|ref|ZP_02620967.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Clostridium
           botulinum C str. Eklund]
 gi|169295859|gb|EDS77992.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Clostridium
           botulinum C str. Eklund]
          Length = 634

 Score = 45.8 bits (108), Expect = 0.019,   Method: Composition-based stats.
 Identities = 35/192 (18%), Positives = 70/192 (36%), Gaps = 42/192 (21%)

Query: 22  IDRDVVLSVMADS-----IQKAARSL------YGTMSDIRVEINPETGDISLFRLLEVVE 70
           I+R+     + ++     +              G    +R+ + P +  + LF     VE
Sbjct: 372 IEREEAFKEIEEAFNNKTLLTIYIKESVKGGIIGRYKGVRIFV-PAS-HVELFH----VE 425

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQ-SAKQVIIQKVREAERDR 129
           ++       S+ + ++ + +     ++   +       VA +    Q    K  EA  + 
Sbjct: 426 DL-------SVYIGQEMNVN-----IIEFKVNRKGTKIVASRREFLQKEQTKKEEASWEI 473

Query: 130 QYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVK 183
                  K   I+ G VKR+      VD+   DG++   E          + L  G++VK
Sbjct: 474 L------KKDSIVEGEVKRLTKFGAFVDVNGIDGLLHVSEISWGRVEKPEDVLSVGEKVK 527

Query: 184 SYIYDVRREQRG 195
            YI +V +E + 
Sbjct: 528 VYILNVDKENKK 539


>gi|329765749|ref|ZP_08257318.1| NusA family protein [Candidatus Nitrosoarchaeum limnia SFB1]
 gi|329137815|gb|EGG42082.1| NusA family protein [Candidatus Nitrosoarchaeum limnia SFB1]
          Length = 154

 Score = 45.4 bits (107), Expect = 0.021,   Method: Composition-based stats.
 Identities = 24/98 (24%), Positives = 46/98 (46%), Gaps = 10/98 (10%)

Query: 252 GACVGMRGSRV---QAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLD---EDV 305
           G  +G  G  +   Q +V +     +++V +  D A F++N L   +V++V L+   +  
Sbjct: 48  GLAIGKGGIHIKSLQNIVKK----TVELVEFDEDPAKFLMNLLNSKLVSEVKLNTRADGS 103

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIIT 343
            +  V+V   +  + +GR G+N   A  L     DI +
Sbjct: 104 KQAIVMVDPRKKGIVVGREGRNAEKARLLAKRYFDITS 141


>gi|54696276|gb|AAV38510.1| RAD51 homolog (RecA homolog, E. coli) (S. cerevisiae) [synthetic
           construct]
          Length = 340

 Score = 45.4 bits (107), Expect = 0.021,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 28/71 (39%), Gaps = 5/71 (7%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
           T  E+     +  +   Q  + A +V       L   GF  VE +A     E+ +I+G  
Sbjct: 13  TSVEEESFGPQPISRLEQCGINANDV-----KKLEEAGFHTVEAVAYAPKKELINIKGIS 67

Query: 403 EETAVEIQGRA 413
           E  A +I   A
Sbjct: 68  EAKADKILAEA 78


>gi|149612219|ref|XP_001512135.1| PREDICTED: similar to RAD51 homolog (RecA homolog, E. coli) (S.
           cerevisiae), partial [Ornithorhynchus anatinus]
          Length = 97

 Score = 45.4 bits (107), Expect = 0.021,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 29/74 (39%), Gaps = 8/74 (10%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           ++   +       L   GF  VE +A     E+ +I+G  E  A +I   AR        
Sbjct: 28  LEQCGISANDVKKLEEAGFHTVEAVAYAPKKELINIKGISEAKADKILAPARSAHL---- 83

Query: 423 TLQKKIRELGVSEE 436
               +  +LG ++E
Sbjct: 84  ----EPGDLGPADE 93


>gi|60829742|gb|AAX36891.1| RAD51-like [synthetic construct]
 gi|61369103|gb|AAX43285.1| RAD51-like [synthetic construct]
          Length = 340

 Score = 45.4 bits (107), Expect = 0.021,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 28/71 (39%), Gaps = 5/71 (7%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
           T  E+     +  +   Q  + A +V       L   GF  VE +A     E+ +I+G  
Sbjct: 13  TSVEEESFGPQPISRLEQCGINANDV-----KKLEEAGFHTVEAVAYAPKKELINIKGIS 67

Query: 403 EETAVEIQGRA 413
           E  A +I   A
Sbjct: 68  EAKADKILAEA 78


>gi|47220309|emb|CAG03343.1| unnamed protein product [Tetraodon nigroviridis]
          Length = 2384

 Score = 45.4 bits (107), Expect = 0.021,   Method: Composition-based stats.
 Identities = 22/69 (31%), Positives = 37/69 (53%), Gaps = 3/69 (4%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG--NSDGVIRRDETISR-ENLRPGDRVKSYIYDVRREQ 193
           K G ++SG V  VE    IVD+G   ++  + R E  +  E L+ G  V S + +V+ + 
Sbjct: 108 KAGMVLSGCVDSVEDHGYIVDIGIKGTNAFLPRKERANSQEELKVGQYVTSALEEVKNDG 167

Query: 194 RGPQVLLSR 202
           R  ++ +SR
Sbjct: 168 RVVRLSVSR 176


>gi|397827|dbj|BAA02962.1| HsRad51 [Homo sapiens]
          Length = 339

 Score = 45.4 bits (107), Expect = 0.021,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 28/71 (39%), Gaps = 5/71 (7%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
           T  E+     +  +   Q  + A +V       L   GF  VE +A     E+ +I+G  
Sbjct: 13  TSVEEESFGPQPISRLEQCGINANDV-----KKLEEAGFHTVEAVAYAPKKELINIKGIS 67

Query: 403 EETAVEIQGRA 413
           E  A +I   A
Sbjct: 68  EAKADKILAEA 78


>gi|19924133|ref|NP_002866.2| DNA repair protein RAD51 homolog 1 isoform 1 [Homo sapiens]
 gi|55641879|ref|XP_510313.1| PREDICTED: RAD51 homolog protein isoform 5 [Pan troglodytes]
 gi|114656377|ref|XP_001144621.1| PREDICTED: DNA repair protein RAD51 homolog 1 isoform 3 [Pan
           troglodytes]
 gi|114656380|ref|XP_001144693.1| PREDICTED: RAD51 homolog protein isoform 4 [Pan troglodytes]
 gi|297696332|ref|XP_002825350.1| PREDICTED: DNA repair protein RAD51 homolog 1-like isoform 1 [Pongo
           abelii]
 gi|332235183|ref|XP_003266786.1| PREDICTED: DNA repair protein RAD51 homolog 1 isoform 1 [Nomascus
           leucogenys]
 gi|548663|sp|Q06609|RAD51_HUMAN RecName: Full=DNA repair protein RAD51 homolog 1; Short=HsRAD51;
           Short=hRAD51; AltName: Full=RAD51 homolog A
 gi|285977|dbj|BAA03189.1| RAD51 [Homo sapiens]
 gi|5733658|gb|AAD49705.1| Rad51 [Homo sapiens]
 gi|7767554|gb|AAF69145.1| RAD51 [Homo sapiens]
 gi|27368250|gb|AAN87149.1| RAD51 homolog (RecA homolog, E. coli) (S. cerevisiae) [Homo
           sapiens]
 gi|49168602|emb|CAG38796.1| RAD51 [Homo sapiens]
 gi|60817856|gb|AAX36441.1| RAD51-like [synthetic construct]
 gi|61358913|gb|AAX41640.1| RAD51-like [synthetic construct]
 gi|119612840|gb|EAW92434.1| RAD51 homolog (RecA homolog, E. coli) (S. cerevisiae), isoform
           CRA_d [Homo sapiens]
 gi|189069251|dbj|BAG36283.1| unnamed protein product [Homo sapiens]
 gi|261860564|dbj|BAI46804.1| RAD51 homolog [synthetic construct]
          Length = 339

 Score = 45.4 bits (107), Expect = 0.021,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 28/71 (39%), Gaps = 5/71 (7%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
           T  E+     +  +   Q  + A +V       L   GF  VE +A     E+ +I+G  
Sbjct: 13  TSVEEESFGPQPISRLEQCGINANDV-----KKLEEAGFHTVEAVAYAPKKELINIKGIS 67

Query: 403 EETAVEIQGRA 413
           E  A +I   A
Sbjct: 68  EAKADKILAEA 78


>gi|256830726|ref|YP_003159454.1| 30S riboosomal protein S1 [Desulfomicrobium baculatum DSM 4028]
 gi|256579902|gb|ACU91038.1| ribosomal protein S1 [Desulfomicrobium baculatum DSM 4028]
          Length = 593

 Score = 45.4 bits (107), Expect = 0.022,   Method: Composition-based stats.
 Identities = 31/118 (26%), Positives = 57/118 (48%), Gaps = 12/118 (10%)

Query: 123 REAERDRQYLEFKD------KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISR-- 173
            E + + Q   + +      + G I+SG V +++   ++VD+   S+G I  DE +    
Sbjct: 16  MEMDFESQLENYLNSDFGDIEEGVIVSGEVVKIDDSYILVDVNFKSEGQIPLDEFMENGQ 75

Query: 174 ENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSR 231
             ++ GD V  Y+  VR+ +R   ++LSR   + M  L  +E   + +G V V  + R
Sbjct: 76  VTVKVGDTVDVYV--VRKNEREGSIVLSREKAKRMQVLDELE-KLLDSGDVVVGRIVR 130


>gi|149692472|ref|XP_001503572.1| PREDICTED: similar to DNA repair protein RAD51 homolog 1 [Equus
           caballus]
          Length = 339

 Score = 45.4 bits (107), Expect = 0.022,   Method: Composition-based stats.
 Identities = 15/67 (22%), Positives = 28/67 (41%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
           D+   ++ F  +    ++   ++      L   GF  VE +A     E+ +I+G  E  A
Sbjct: 12  DTSVEEESFGPQPVSRLEQCGINANDVKKLEEAGFHTVEAVAYAPKKELINIKGISEAKA 71

Query: 407 VEIQGRA 413
            +I   A
Sbjct: 72  DKILTEA 78


>gi|88856205|ref|ZP_01130865.1| 30S ribosomal protein S1 [marine actinobacterium PHSC20C1]
 gi|88814524|gb|EAR24386.1| 30S ribosomal protein S1 [marine actinobacterium PHSC20C1]
          Length = 488

 Score = 45.4 bits (107), Expect = 0.022,   Method: Composition-based stats.
 Identities = 27/99 (27%), Positives = 50/99 (50%), Gaps = 16/99 (16%)

Query: 115 KQVIIQKVREAER-----DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRD 168
           KQV I  +  AE      ++    F D  G++I GTV +++   V++D+G  ++GVI   
Sbjct: 11  KQVAINDIGSAEDFLAAVEKTLKFFND--GDLIEGTVVKIDRDEVLLDVGYKTEGVIPSR 68

Query: 169 ETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           E          E +  GD V++ +   ++E +  +++LS
Sbjct: 69  ELSIKHDVDPTEVVNVGDTVEALVL--QKEDKEGRLILS 105


>gi|296129804|ref|YP_003637054.1| RNA binding S1 domain protein [Cellulomonas flavigena DSM 20109]
 gi|296021619|gb|ADG74855.1| RNA binding S1 domain protein [Cellulomonas flavigena DSM 20109]
          Length = 492

 Score = 45.4 bits (107), Expect = 0.022,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 40/70 (57%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E ++ GD V++ +   ++
Sbjct: 39  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPGEVVKVGDAVEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|256811207|ref|YP_003128576.1| NusA family KH domain protein [Methanocaldococcus fervens AG86]
 gi|256794407|gb|ACV25076.1| NusA family KH domain protein [Methanocaldococcus fervens AG86]
          Length = 174

 Score = 45.4 bits (107), Expect = 0.023,   Method: Composition-based stats.
 Identities = 18/79 (22%), Positives = 32/79 (40%), Gaps = 3/79 (3%)

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG--RI 308
           VGA +G  G  V+    +   +K+DI+ +S D   F+ N   P  +  V +         
Sbjct: 44  VGAAIGKGGENVKKAEEKF-GKKVDIIEYSDDWRKFIRNIFAPIQLEDVWVKRVGKDVVA 102

Query: 309 EVIVPKEQLSLAIGRRGQN 327
            + +         G +G+N
Sbjct: 103 FIRINPRVRRAVFGEKGKN 121


>gi|281420270|ref|ZP_06251269.1| ribosomal protein S1 [Prevotella copri DSM 18205]
 gi|281405765|gb|EFB36445.1| ribosomal protein S1 [Prevotella copri DSM 18205]
          Length = 594

 Score = 45.4 bits (107), Expect = 0.023,   Method: Composition-based stats.
 Identities = 29/106 (27%), Positives = 52/106 (49%), Gaps = 13/106 (12%)

Query: 128 DRQYLEFKDK--VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
           ++ Y E  +K    +++ GTV  V+   VIV++G  SDG+I   E     +L+ GD+V+ 
Sbjct: 32  EKAYDETLNKVTEHQVVEGTVISVDKKEVIVNIGYKSDGIIPASEFRYNPDLKVGDKVEV 91

Query: 185 YIYDVRREQRGPQVLLSRTHPQFMV------KLFHMEVPEIYNGIV 224
           Y+ + + + +G Q++LS    +              E  EI  G +
Sbjct: 92  YVEN-QEDVKG-QLVLSHKKARLSKSWERVNAALENE--EIIQGYI 133



 Score = 38.9 bits (90), Expect = 2.0,   Method: Composition-based stats.
 Identities = 33/130 (25%), Positives = 52/130 (40%), Gaps = 10/130 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +   RD D  +             +F R  V S K +I Q++ E +R   
Sbjct: 149 EAFLPGSQIDVHPIRDYDVFVGKTMEFKVVKINQEF-RNVVVSHKALIEQEL-EQQRKEI 206

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
             + +   G+I+ GTVK +    V VDLG  DG+I   +          E +    ++  
Sbjct: 207 IGKLE--KGQILEGTVKNITTYGVFVDLGGVDGLIHITDLSWGRVSDPHEVVSLDQKINV 264

Query: 185 YIYDVRREQR 194
            I D   E++
Sbjct: 265 VILDFDEEKK 274


>gi|290562245|gb|ADD38519.1| 28S ribosomal protein S28, mitochondrial [Lepeophtheirus salmonis]
          Length = 147

 Score = 45.4 bits (107), Expect = 0.023,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 28/57 (49%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
            G+++ G V  V   ++ +D+G+    + R    + EN R G +V+  I  +   Q+
Sbjct: 65  KGKVVVGEVYHVIEDDLYIDIGHKFPCVCRKPRNNSENFRRGVKVRVLIKSLELSQK 121


>gi|311244990|ref|XP_003121661.1| PREDICTED: DNA repair protein RAD51 homolog 1-like [Sus scrofa]
          Length = 293

 Score = 45.4 bits (107), Expect = 0.024,   Method: Composition-based stats.
 Identities = 14/54 (25%), Positives = 22/54 (40%)

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           Q   +   ++      L   GF  VE +A     E+ +I+G  E  A +I   A
Sbjct: 8   QVLAKQCGINANDVKKLEEAGFHTVEAVAYAPKKELINIKGISEAKADKILTEA 61


>gi|256017145|ref|NP_001157742.1| DNA repair protein RAD51 homolog 1 isoform 3 [Homo sapiens]
 gi|297696338|ref|XP_002825353.1| PREDICTED: DNA repair protein RAD51 homolog 1-like isoform 4 [Pongo
           abelii]
 gi|332235185|ref|XP_003266787.1| PREDICTED: DNA repair protein RAD51 homolog 1 isoform 2 [Nomascus
           leucogenys]
 gi|332843551|ref|XP_003314669.1| PREDICTED: DNA repair protein RAD51 homolog 1 [Pan troglodytes]
 gi|119612838|gb|EAW92432.1| RAD51 homolog (RecA homolog, E. coli) (S. cerevisiae), isoform
           CRA_b [Homo sapiens]
 gi|164506989|gb|ABY59731.1| Rad51 variant [Homo sapiens]
          Length = 280

 Score = 45.4 bits (107), Expect = 0.024,   Method: Composition-based stats.
 Identities = 15/67 (22%), Positives = 28/67 (41%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
           D+   ++ F  +    ++   ++      L   GF  VE +A     E+ +I+G  E  A
Sbjct: 12  DTSVEEESFGPQPISRLEQCGINANDVKKLEEAGFHTVEAVAYAPKKELINIKGISEAKA 71

Query: 407 VEIQGRA 413
            +I   A
Sbjct: 72  DKILAEA 78


>gi|110669303|ref|YP_659114.1| DNA repair and recombination protein RadA [Haloquadratum walsbyi
           DSM 16790]
 gi|121692072|sp|Q18EU1|RADA_HALWD RecName: Full=DNA repair and recombination protein radA
 gi|109627050|emb|CAJ53526.1| DNA repair and recombination protein RadA [Haloquadratum walsbyi
           DSM 16790]
          Length = 343

 Score = 45.4 bits (107), Expect = 0.024,   Method: Composition-based stats.
 Identities = 15/77 (19%), Positives = 29/77 (37%), Gaps = 4/77 (5%)

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE- 418
                   V    +  LV  GF   + +A    +E+++     E TA +I   AR+  + 
Sbjct: 4   DELEDLPGVGPATSDKLVDAGFESYQAIAVASPAEMSNTADVGESTASDIINAARDAADV 63

Query: 419 ---GIDITLQKKIRELG 432
                   + ++  E+G
Sbjct: 64  GGFETGAAVLQRREEIG 80


>gi|54696278|gb|AAV38511.1| RAD51 homolog (RecA homolog, E. coli) (S. cerevisiae) [Homo
           sapiens]
          Length = 339

 Score = 45.4 bits (107), Expect = 0.024,   Method: Composition-based stats.
 Identities = 15/67 (22%), Positives = 28/67 (41%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
           D+   ++ F  +    ++   ++      L   GF  VE +A     E+ +I+G  E  A
Sbjct: 12  DTSVEEESFGPQPISRLEQCGINANDVKKLEEAGFHTVEAVAYAPKKELINIKGISEAKA 71

Query: 407 VEIQGRA 413
            +I   A
Sbjct: 72  DKILAEA 78


>gi|45185912|ref|NP_983628.1| ACR226Wp [Ashbya gossypii ATCC 10895]
 gi|44981702|gb|AAS51452.1| ACR226Wp [Ashbya gossypii ATCC 10895]
          Length = 381

 Score = 45.4 bits (107), Expect = 0.024,   Method: Composition-based stats.
 Identities = 15/78 (19%), Positives = 29/78 (37%), Gaps = 3/78 (3%)

Query: 339 IDIITEEEDSINRQKDFNERTQFFMQAINVDEII---AHLLVAEGFADVEELACVKISEI 395
           I++  E       ++D        ++ + V+ I       L   G   VE +A     ++
Sbjct: 39  IEVHAESGRGQGYEEDVALAAFVPLERLQVNGITNNDLKKLRENGLHTVEAVAYAPRKDL 98

Query: 396 ASIEGFDEETAVEIQGRA 413
             I+G  E  A ++   A
Sbjct: 99  LEIKGISEAKADKLLAEA 116


>gi|225164097|ref|ZP_03726379.1| ribosomal protein S1 [Opitutaceae bacterium TAV2]
 gi|224801303|gb|EEG19617.1| ribosomal protein S1 [Opitutaceae bacterium TAV2]
          Length = 555

 Score = 45.4 bits (107), Expect = 0.025,   Method: Composition-based stats.
 Identities = 21/66 (31%), Positives = 36/66 (54%), Gaps = 3/66 (4%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           K G+I+SG +  +    V+VD+ G S+GVI  +E I    L+ G  ++ Y+  +  +   
Sbjct: 16  KEGQIVSGVITEIRQNEVVVDIGGKSEGVIPANEFIDIGELQIGSTIEVYVEKLEDKNGL 75

Query: 196 PQVLLS 201
           P  +LS
Sbjct: 76  P--VLS 79



 Score = 38.9 bits (90), Expect = 2.3,   Method: Composition-based stats.
 Identities = 21/129 (16%), Positives = 53/129 (41%), Gaps = 10/129 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           +       I ++  ++ D  +  G      +  ++  R  +  +++ +I++ R  +R   
Sbjct: 121 DAFMPASHIDIQPPKNLDQYV--GQTYDFKVLKINQERKNIVLSRRELIEQQRSEKRRNL 178

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
               +   G++  G VK +      +DL   DG++   +          E L+ G+ ++ 
Sbjct: 179 LESIQP--GQVRKGVVKNITDFGAFIDLDGMDGLLHITDMSWGRIAHPSEMLKQGEEIQV 236

Query: 185 YIYDVRREQ 193
            I +V R++
Sbjct: 237 MIIEVNRDK 245


>gi|156937796|ref|YP_001435592.1| DNA repair and recombination protein RadA [Ignicoccus hospitalis
           KIN4/I]
 gi|166218760|sp|A8AB83|RADA_IGNH4 RecName: Full=DNA repair and recombination protein radA
 gi|156566780|gb|ABU82185.1| DNA repair and recombination protein RadA [Ignicoccus hospitalis
           KIN4/I]
          Length = 327

 Score = 45.4 bits (107), Expect = 0.025,   Method: Composition-based stats.
 Identities = 18/75 (24%), Positives = 30/75 (40%), Gaps = 2/75 (2%)

Query: 356 NERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
            +R     +   V    A  L+  G+  +E LA     E+ +I G    TA +I   AR+
Sbjct: 8   EKRPTSVAELPGVGPSTAAKLIDAGYGTIEALAVATPEELVAI-GIPLTTAQKIIRAARQ 66

Query: 416 YLE-GIDITLQKKIR 429
            L+       + K+ 
Sbjct: 67  MLDIRFRTAKEVKLE 81


>gi|50290117|ref|XP_447490.1| hypothetical protein [Candida glabrata CBS 138]
 gi|49526800|emb|CAG60427.1| unnamed protein product [Candida glabrata]
          Length = 383

 Score = 45.4 bits (107), Expect = 0.025,   Method: Composition-based stats.
 Identities = 14/73 (19%), Positives = 28/73 (38%), Gaps = 3/73 (4%)

Query: 344 EEEDSINRQKDFNERTQFFMQAINVDEII---AHLLVAEGFADVEELACVKISEIASIEG 400
           +E+     ++D    +   ++ + V+ I       L   G   VE +A     ++  I+G
Sbjct: 47  QEQYEEGMEEDAALASFVPLEKLQVNGITSTDIKKLRESGLHTVEAVAYAPKKDLLEIKG 106

Query: 401 FDEETAVEIQGRA 413
             E  A  +   A
Sbjct: 107 ISETKADRLLNEA 119


>gi|242085564|ref|XP_002443207.1| hypothetical protein SORBIDRAFT_08g015360 [Sorghum bicolor]
 gi|241943900|gb|EES17045.1| hypothetical protein SORBIDRAFT_08g015360 [Sorghum bicolor]
          Length = 342

 Score = 45.4 bits (107), Expect = 0.025,   Method: Composition-based stats.
 Identities = 16/73 (21%), Positives = 27/73 (36%), Gaps = 5/73 (6%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
           TEEE   +      +     + A++V       L   G   VE +A     ++  I+G  
Sbjct: 16  TEEEAPEHGPFPIEQLQASGIAALDV-----KKLKDAGLCTVESVAYSPRKDLLQIKGIS 70

Query: 403 EETAVEIQGRARE 415
           E    +I   A +
Sbjct: 71  EAKVDKIIEAASK 83


>gi|296133096|ref|YP_003640343.1| hydroxymethylbutenyl pyrophosphate reductase [Thermincola sp. JR]
 gi|296031674|gb|ADG82442.1| hydroxymethylbutenyl pyrophosphate reductase [Thermincola potens
           JR]
          Length = 674

 Score = 45.4 bits (107), Expect = 0.025,   Method: Composition-based stats.
 Identities = 24/86 (27%), Positives = 44/86 (51%), Gaps = 11/86 (12%)

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETI------SREN 175
              E+  Q+  F    G++++GTV +V    V+VD+ G S+GVI   E+        +E 
Sbjct: 284 MNMEKALQFKAFHP--GDMVTGTVVQVNDDEVMVDVGGKSEGVIPLRESSCCNHNNLKEL 341

Query: 176 LRPGDRVKSYIYDVRREQRGPQVLLS 201
              GD+VK  +   + ++   +++LS
Sbjct: 342 FTVGDQVKVVVLKAQDDEG--KIILS 365



 Score = 43.5 bits (102), Expect = 0.081,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 32/61 (52%), Gaps = 6/61 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRRE 192
           G+++ GTVKR+      VD+G  DG++   E          E ++ GD+++ +I DV + 
Sbjct: 471 GQVVKGTVKRLTDFGAFVDIGGIDGLLHVSEMAWYRVGHPSEVVKEGDQIEVFILDVDKN 530

Query: 193 Q 193
            
Sbjct: 531 T 531


>gi|61371803|gb|AAX43734.1| RAD51-like [synthetic construct]
          Length = 243

 Score = 45.4 bits (107), Expect = 0.025,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 29/70 (41%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
           D+   ++ F  +    ++   ++      L   GF  VE +A     E+ +I+G  E  A
Sbjct: 12  DTSVEEESFGPQPISRLEQCGINANDVKKLEEAGFHTVEAVAYAPKKELINIKGISEAKA 71

Query: 407 VEIQGRAREY 416
            +I   A  Y
Sbjct: 72  DKILAVAERY 81


>gi|18181989|dbj|BAB83902.1| homologue of the bacterial recA and yeast RAD51/DMC1 [Aeropyrum
           pernix]
          Length = 319

 Score = 45.1 bits (106), Expect = 0.026,   Method: Composition-based stats.
 Identities = 14/66 (21%), Positives = 23/66 (34%)

Query: 352 QKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
             +     +       V    A  L+  G+  +E +A     E++   G    TA +   
Sbjct: 1   MGEDKREIKDITDLPGVGPTTAQKLMEAGYTTLEAIAAATPQEVSQATGIPILTAQKTVD 60

Query: 412 RAREYL 417
            ARE L
Sbjct: 61  AAREAL 66


>gi|12655203|gb|AAH01459.1| RAD51 homolog (RecA homolog, E. coli) (S. cerevisiae) [Homo
           sapiens]
 gi|60655093|gb|AAX32110.1| RAD51-like [synthetic construct]
          Length = 242

 Score = 45.1 bits (106), Expect = 0.026,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 29/70 (41%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
           D+   ++ F  +    ++   ++      L   GF  VE +A     E+ +I+G  E  A
Sbjct: 12  DTSVEEESFGPQPISRLEQCGINANDVKKLEEAGFHTVEAVAYAPKKELINIKGISEAKA 71

Query: 407 VEIQGRAREY 416
            +I   A  Y
Sbjct: 72  DKILAVAERY 81


>gi|218290944|ref|ZP_03495001.1| RNA binding S1 domain protein [Alicyclobacillus acidocaldarius
           LAA1]
 gi|218239109|gb|EED06312.1| RNA binding S1 domain protein [Alicyclobacillus acidocaldarius
           LAA1]
          Length = 385

 Score = 45.1 bits (106), Expect = 0.027,   Method: Composition-based stats.
 Identities = 27/84 (32%), Positives = 41/84 (48%), Gaps = 10/84 (11%)

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLR 177
           EA   + + E K   G++I GTV+R+      VD+G +DG++   E          E +R
Sbjct: 177 EARARKLFEELKP--GDVIEGTVQRLTDFGAFVDVGGADGLVHISELSFSHVNHPSEVVR 234

Query: 178 PGDRVKSYIYDVRREQRGPQVLLS 201
            GDRVK  +  V  E    ++ LS
Sbjct: 235 EGDRVKVRVLRVDPEAG--RISLS 256


>gi|114051383|ref|NP_001039644.1| DNA repair protein RAD51 homolog 1 [Bos taurus]
 gi|301754892|ref|XP_002913265.1| PREDICTED: DNA repair protein RAD51 homolog 1-like [Ailuropoda
           melanoleuca]
 gi|116255982|sp|Q2KJ94|RAD51_BOVIN RecName: Full=DNA repair protein RAD51 homolog 1
 gi|86821651|gb|AAI05459.1| RAD51 homolog (RecA homolog, E. coli) (S. cerevisiae) [Bos taurus]
 gi|296483320|gb|DAA25435.1| DNA repair protein RAD51 homolog 1 [Bos taurus]
          Length = 339

 Score = 45.1 bits (106), Expect = 0.027,   Method: Composition-based stats.
 Identities = 15/67 (22%), Positives = 28/67 (41%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
           D+   ++ F  +    ++   ++      L   GF  VE +A     E+ +I+G  E  A
Sbjct: 12  DTSVEEESFGPQPISRLEQCGINANDVKKLEEAGFHTVEAVAYAPKKELINIKGISEAKA 71

Query: 407 VEIQGRA 413
            +I   A
Sbjct: 72  DKILTEA 78


>gi|124022484|ref|YP_001016791.1| 30S ribosomal protein S1 protein B, Nbp1 [Prochlorococcus marinus
           str. MIT 9303]
 gi|123962770|gb|ABM77526.1| 30S ribosomal protein S1 protein B, putative Nbp1 [Prochlorococcus
           marinus str. MIT 9303]
          Length = 481

 Score = 45.1 bits (106), Expect = 0.027,   Method: Composition-based stats.
 Identities = 22/92 (23%), Positives = 36/92 (39%), Gaps = 4/92 (4%)

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR--PGDRVKSYIYDVRRE 192
            +K G++    V     G V  DL    G I R +  + EN     G  +     +V  E
Sbjct: 292 MEKEGKVAQVKVNGFNRGGVTCDLEGLRGFIPRSQLQNGENHEALVGKTLGVAFLEVNPE 351

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
            R  +++LS        +   +EV ++  G V
Sbjct: 352 TR--KLVLSEKRAATAARFSELEVGQLVEGQV 381



 Score = 37.4 bits (86), Expect = 6.6,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 30/68 (44%), Gaps = 9/68 (13%)

Query: 134 FKDKV-GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISR-------ENLRPGDRVKSY 185
           F +   G+++ G V  V+     +DLG   G++     I+        E    GDRVK+ 
Sbjct: 368 FSELEVGQLVEGQVVAVKPYGFFIDLGGVSGLL-HQSMITGGSLRSLREVFNQGDRVKAL 426

Query: 186 IYDVRREQ 193
           I ++   +
Sbjct: 427 ITEMDPGR 434


>gi|18312257|ref|NP_558924.1| ATP-dependent, DNA binding helicase [Pyrobaculum aerophilum str.
           IM2]
 gi|18159700|gb|AAL63106.1| ATP-dependent, DNA binding helicase [Pyrobaculum aerophilum str.
           IM2]
          Length = 704

 Score = 45.1 bits (106), Expect = 0.027,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 28/59 (47%)

Query: 356 NERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
            E  +       V  + A +L   GF  + ++A   + EIAS+ GF E+ A  I  +AR
Sbjct: 641 EELLELVTALRGVGRVRARILYNFGFRTLRDIARASVREIASLPGFGEKLAESIIEQAR 699


>gi|289549356|ref|YP_003474344.1| DNA-directed DNA polymerase [Thermocrinis albus DSM 14484]
 gi|289182973|gb|ADC90217.1| DNA-directed DNA polymerase [Thermocrinis albus DSM 14484]
          Length = 574

 Score = 45.1 bits (106), Expect = 0.027,   Method: Composition-based stats.
 Identities = 29/95 (30%), Positives = 46/95 (48%), Gaps = 12/95 (12%)

Query: 372 IAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIREL 431
           +A++L   G  DVEEL  VK  +I  I G    +  +I     EYL    I+  ++++E 
Sbjct: 34  VANILSELG-TDVEEL--VKTGKIYHIPGIGPSSVEKIL----EYLRTGKISKYEELKEK 86

Query: 432 GVSE--ELCSIPGIDSKIKVALGEN--GIKTMEDL 462
              +  EL  +PGI  K    L  +  GI++ +D 
Sbjct: 87  VPEDLLELLDVPGIGPKTL-KLAYDKLGIRSKDDF 120


>gi|256371862|ref|YP_003109686.1| RNA binding S1 domain protein [Acidimicrobium ferrooxidans DSM
           10331]
 gi|256008446|gb|ACU54013.1| RNA binding S1 domain protein [Acidimicrobium ferrooxidans DSM
           10331]
          Length = 427

 Score = 45.1 bits (106), Expect = 0.027,   Method: Composition-based stats.
 Identities = 26/94 (27%), Positives = 50/94 (53%), Gaps = 9/94 (9%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIR------RDETISRENLRPGDRVKSYIYDVR 190
            G+I+SG V +V+   V++D+G  S+GVI       R +    + +  GDR+ + +   +
Sbjct: 51  EGDIVSGLVVKVDKDEVLLDIGYKSEGVIPLRELSIRKDVSPADVVSVGDRIDALVL--Q 108

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           +E R  +++LS+   QF      +E  +  +G+V
Sbjct: 109 KEDREGRLVLSKKRAQFEKAWKEIEAIKARDGVV 142


>gi|258511670|ref|YP_003185104.1| RNA binding S1 domain-containing protein [Alicyclobacillus
           acidocaldarius subsp. acidocaldarius DSM 446]
 gi|257478396|gb|ACV58715.1| RNA binding S1 domain protein [Alicyclobacillus acidocaldarius
           subsp. acidocaldarius DSM 446]
          Length = 385

 Score = 45.1 bits (106), Expect = 0.028,   Method: Composition-based stats.
 Identities = 27/84 (32%), Positives = 41/84 (48%), Gaps = 10/84 (11%)

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLR 177
           EA   + + E K   G++I GTV+R+      VD+G +DG++   E          E +R
Sbjct: 177 EARARKLFEELKP--GDVIEGTVQRLTDFGAFVDVGGADGLVHISELSFSHVNHPSEVVR 234

Query: 178 PGDRVKSYIYDVRREQRGPQVLLS 201
            GDRVK  +  V  E    ++ LS
Sbjct: 235 EGDRVKVRVLRVDPEAG--RISLS 256


>gi|178056768|ref|NP_001116653.1| DNA repair protein RAD51 homolog 1 [Sus scrofa]
 gi|167600352|gb|ABZ89107.1| Rad51 [Sus scrofa]
 gi|168085455|dbj|BAG09486.1| DNA repair protein RAD51 [Sus scrofa]
          Length = 339

 Score = 45.1 bits (106), Expect = 0.028,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 28/71 (39%), Gaps = 5/71 (7%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
           T  E+     +  +   Q  + A +V       L   GF  VE +A     E+ +I+G  
Sbjct: 13  TSVEEESFGPQPISRLEQCGINANDV-----KKLEEAGFHTVEAVAYAPKKELINIKGIS 67

Query: 403 EETAVEIQGRA 413
           E  A +I   A
Sbjct: 68  EAKADKILTEA 78


>gi|296136322|ref|YP_003643564.1| ribosomal protein S1 [Thiomonas intermedia K12]
 gi|295796444|gb|ADG31234.1| ribosomal protein S1 [Thiomonas intermedia K12]
          Length = 567

 Score = 45.1 bits (106), Expect = 0.028,   Method: Composition-based stats.
 Identities = 24/71 (33%), Positives = 40/71 (56%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISREN-------LRPGDRVKSYIYDV 189
            G+I+ GTVK V+     +DLG + +G +R  E ISRE        L+ GD+V + + ++
Sbjct: 459 KGKIVEGTVKAVDPKGATIDLGSDIEGYLRASE-ISRERVEDARNVLKEGDQVSAVVVNI 517

Query: 190 RREQRGPQVLL 200
            R+ R  Q+ +
Sbjct: 518 DRKTRNIQLSV 528


>gi|114656384|ref|XP_001144234.1| PREDICTED: RAD51 homolog protein isoform 1 [Pan troglodytes]
 gi|119612839|gb|EAW92433.1| RAD51 homolog (RecA homolog, E. coli) (S. cerevisiae), isoform
           CRA_c [Homo sapiens]
          Length = 242

 Score = 45.1 bits (106), Expect = 0.029,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 29/70 (41%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
           D+   ++ F  +    ++   ++      L   GF  VE +A     E+ +I+G  E  A
Sbjct: 12  DTSVEEESFGPQPISRLEQCGINANDVKKLEEAGFHTVEAVAYAPKKELINIKGISEAKA 71

Query: 407 VEIQGRAREY 416
            +I   A  Y
Sbjct: 72  DKILVMAERY 81


>gi|189219063|ref|YP_001939704.1| ribosomal protein S1 [Methylacidiphilum infernorum V4]
 gi|189185921|gb|ACD83106.1| Ribosomal protein S1 [Methylacidiphilum infernorum V4]
          Length = 449

 Score = 45.1 bits (106), Expect = 0.029,   Method: Composition-based stats.
 Identities = 33/139 (23%), Positives = 60/139 (43%), Gaps = 13/139 (9%)

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+        I L    + D SI IG  V   +  ++     V  ++Q   QK      
Sbjct: 31  VVDIGYKSEGIIPLSEFEEPD-SIQIGQEVEVLVESLENEEGMVVLSRQKAAQK---QNW 86

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRD--ETISRENLR--PGDRVK 183
           D+    F+   G  I+G VK+V  G +++++G  +  +     + +  +NL+   G  + 
Sbjct: 87  DKILKTFE--EGGTITGKVKQVVKGGLMLNIG-VEAFLPASQIDIVPPKNLKEYEGATLT 143

Query: 184 SYIYDVRREQRGPQVLLSR 202
             I  +  E++   V+LSR
Sbjct: 144 CKIVKISEERKN--VVLSR 160



 Score = 43.9 bits (103), Expect = 0.063,   Method: Composition-based stats.
 Identities = 27/89 (30%), Positives = 47/89 (52%), Gaps = 10/89 (11%)

Query: 115 KQVIIQK--VREAERDRQYLEFKDKV--GEIISGTVKRVEYGNVIVDLGNSDGVIRRDET 170
           K V++ +  + EAER+++ L+F +KV  G+++ G VK V      +DL   DG+I   + 
Sbjct: 154 KNVVLSRREIVEAERNQKRLQFLEKVHVGDLVKGVVKNVTDFGAFIDLDGIDGLIHITDM 213

Query: 171 I------SRENLRPGDRVKSYIYDVRREQ 193
                    E L+ G  ++  + DV RE+
Sbjct: 214 SWGRINHPSEILKVGQEIEVVVIDVDREK 242



 Score = 37.0 bits (85), Expect = 8.6,   Method: Composition-based stats.
 Identities = 19/66 (28%), Positives = 33/66 (50%), Gaps = 3/66 (4%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
            G I+ G V       V+VD+G  S+G+I   E    ++++ G  V+  +  +  E+   
Sbjct: 14  EGNIVKGIVVDKTPKEVVVDIGYKSEGIIPLSEFEEPDSIQIGQEVEVLVESLENEEG-- 71

Query: 197 QVLLSR 202
            V+LSR
Sbjct: 72  MVVLSR 77


>gi|78185204|ref|YP_377639.1| RNA binding S1 [Synechococcus sp. CC9902]
 gi|78169498|gb|ABB26595.1| SSU ribosomal protein S1P [Synechococcus sp. CC9902]
          Length = 412

 Score = 45.1 bits (106), Expect = 0.029,   Method: Composition-based stats.
 Identities = 21/91 (23%), Positives = 37/91 (40%), Gaps = 4/91 (4%)

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR--PGDRVKSYIYDVRREQ 193
           +K G+++   V     G V  DL    G I R +    EN +   G  +     +V    
Sbjct: 224 EKEGKVVQVIVSGFNRGGVTCDLEGLRGFIPRSQLQDGENHQELVGKTLGVAFLEVNSGT 283

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           R  +++LS        +   +EV ++  G+V
Sbjct: 284 R--KLVLSEKRAATAARFQELEVGQLVEGLV 312


>gi|294340558|emb|CAZ88943.1| 30S ribosomal protein S1 [Thiomonas sp. 3As]
          Length = 567

 Score = 45.1 bits (106), Expect = 0.030,   Method: Composition-based stats.
 Identities = 24/71 (33%), Positives = 40/71 (56%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISREN-------LRPGDRVKSYIYDV 189
            G+I+ GTVK V+     +DLG + +G +R  E ISRE        L+ GD+V + + ++
Sbjct: 459 KGKIVEGTVKAVDPKGATIDLGSDIEGYLRASE-ISRERVEDARNVLKEGDQVSAVVVNI 517

Query: 190 RREQRGPQVLL 200
            R+ R  Q+ +
Sbjct: 518 DRKTRNIQLSV 528


>gi|55980131|ref|YP_143428.1| 30S ribosomal protein S1 [Thermus thermophilus HB8]
 gi|55771544|dbj|BAD69985.1| 30S ribosomal protein S1 [Thermus thermophilus HB8]
          Length = 536

 Score = 45.1 bits (106), Expect = 0.030,   Method: Composition-based stats.
 Identities = 32/111 (28%), Positives = 53/111 (47%), Gaps = 12/111 (10%)

Query: 109 VAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRR 167
            A Q+ +Q    +    E + +  + + + G+I++G V  V    V VD+G  ++G+I  
Sbjct: 4   KATQTPEQTFSMEAALQETEARLEK-RVRPGQILTGKVVLVGSEGVAVDIGAKTEGIIPF 62

Query: 168 DET----ISRENLR----PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVK 210
           ++     +S E LR    PGD VK  +  V  E    Q+LLSR   +   K
Sbjct: 63  NQLTTKPLSEEELRNLLSPGDEVKVQVLRVDPETG--QILLSRKKIEAQEK 111


>gi|46200126|ref|YP_005793.1| 30S ribosomal protein S1 [Thermus thermophilus HB27]
 gi|46197754|gb|AAS82166.1| SSU ribosomal protein S1P [Thermus thermophilus HB27]
          Length = 536

 Score = 45.1 bits (106), Expect = 0.030,   Method: Composition-based stats.
 Identities = 32/111 (28%), Positives = 53/111 (47%), Gaps = 12/111 (10%)

Query: 109 VAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRR 167
            A Q+ +Q    +    E + +  + + + G+I++G V  V    V VD+G  ++G+I  
Sbjct: 4   KATQTPEQTFSMEAALQETEARLEK-RVRPGQILTGKVVLVGSEGVAVDIGAKTEGIIPF 62

Query: 168 DET----ISRENLR----PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVK 210
           ++     +S E LR    PGD VK  +  V  E    Q+LLSR   +   K
Sbjct: 63  NQLTTKPLSEEELRNLLSPGDEVKVQVLRVDPETG--QILLSRKKIEAQEK 111


>gi|30141902|emb|CAD30282.1| 30S ribosomal protein S1 [Thermus thermophilus HB27]
          Length = 536

 Score = 45.1 bits (106), Expect = 0.031,   Method: Composition-based stats.
 Identities = 32/111 (28%), Positives = 53/111 (47%), Gaps = 12/111 (10%)

Query: 109 VAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRR 167
            A Q+ +Q    +    E + +  + + + G+I++G V  V    V VD+G  ++G+I  
Sbjct: 4   KATQTPEQTFSMEAALQETEARLEK-RVRPGQILTGKVVLVGSEGVAVDIGAKTEGIIPF 62

Query: 168 DET----ISRENLR----PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVK 210
           ++     +S E LR    PGD VK  +  V  E    Q+LLSR   +   K
Sbjct: 63  NQLTTKPLSEEELRNLLSPGDEVKVQVLRVDPETG--QILLSRKKIEAQEK 111


>gi|225374882|ref|ZP_03752103.1| hypothetical protein ROSEINA2194_00505 [Roseburia inulinivorans DSM
           16841]
 gi|225213265|gb|EEG95619.1| hypothetical protein ROSEINA2194_00505 [Roseburia inulinivorans DSM
           16841]
          Length = 365

 Score = 45.1 bits (106), Expect = 0.031,   Method: Composition-based stats.
 Identities = 34/145 (23%), Positives = 63/145 (43%), Gaps = 14/145 (9%)

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPL-PPMDFGRVAVQSAKQVIIQKVREAE 126
           VV+E   +     +  + ++D S      +   +       R  +   KQ++++K  E +
Sbjct: 125 VVDETRVFIPASLVSDSYEKDLSKYKDQEIQFVISEFNPKRRRIIGDRKQLLVEKKLEQQ 184

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDET------ISRENLRPGD 180
           ++      K KVG+++ GTVK V      +DLG +DG++   E         ++    GD
Sbjct: 185 KELFA---KIKVGDVMEGTVKNVTDFGAFIDLGGADGLLHISEMSWGRVESPKKVFNVGD 241

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHP 205
            VK +I D+       ++ LS   P
Sbjct: 242 TVKVFIKDINDT----KIALSMKFP 262


>gi|161899443|ref|XP_001712948.1| DNA recombination and repair protein [Bigelowiella natans]
 gi|75756442|gb|ABA27336.1| DNA recombination and repair protein [Bigelowiella natans]
          Length = 331

 Score = 45.1 bits (106), Expect = 0.031,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 26/53 (49%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           +Q + + ++    L+  G   +  LA     E+ SI+G ++  A +I   A++
Sbjct: 19  LQKLGISDLDIQKLIDNGIFTINSLAKASKKELYSIKGLNDRKAEKILSLAKK 71


>gi|255284500|ref|ZP_05349055.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Bryantella
           formatexigens DSM 14469]
 gi|255264957|gb|EET58162.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Bryantella
           formatexigens DSM 14469]
          Length = 361

 Score = 45.1 bits (106), Expect = 0.031,   Method: Composition-based stats.
 Identities = 27/141 (19%), Positives = 59/141 (41%), Gaps = 14/141 (9%)

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMD-FGRVAVQSAKQVIIQKVREAE 126
           VV+E   +     +    +++        +   +   +   R  +   KQ+++ + +E  
Sbjct: 122 VVDEARVFIPASLVSDTYEKNLEKFADQEIEFVITEFNPRRRRIIGDRKQLLVAR-KEEM 180

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGD 180
           +   +   +  VG+++ G VK +      VDLG +DG++   E         R+    GD
Sbjct: 181 QKALFE--RIHVGDVVEGVVKNITDFGAFVDLGGADGLLHISEMSWGRVDNPRKLFNVGD 238

Query: 181 RVKSYIYDVRREQRGPQVLLS 201
           ++K  + D+     G ++ LS
Sbjct: 239 KLKVLLKDI----NGNKIALS 255


>gi|320451423|ref|YP_004203519.1| 30S ribosomal protein S1 [Thermus scotoductus SA-01]
 gi|320151592|gb|ADW22970.1| 30S ribosomal protein S1 [Thermus scotoductus SA-01]
          Length = 539

 Score = 45.1 bits (106), Expect = 0.032,   Method: Composition-based stats.
 Identities = 28/92 (30%), Positives = 44/92 (47%), Gaps = 17/92 (18%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDET----ISREN----LRPGDRVKSYIY 187
           + G+I++G V  V    V VD+G  ++G+I  +E     +  E     L+PGD V+  + 
Sbjct: 37  RPGQILTGKVVLVGSEGVAVDIGAKTEGIIPFNELTEKSLPEEELKALLKPGDLVRVQVI 96

Query: 188 DVRREQRGPQVLLSRT------HPQFMVKLFH 213
            V  E    QVLLSR       H   + +L+ 
Sbjct: 97  KVDPETG--QVLLSRKRVEATEHWDRIRELYE 126



 Score = 41.2 bits (96), Expect = 0.46,   Method: Composition-based stats.
 Identities = 42/213 (19%), Positives = 81/213 (38%), Gaps = 48/213 (22%)

Query: 19  EKSIDRDVVLSVMADSIQKAARSLYGTMSDIRV-EINPETGDISLFRLLEVVEEVENYTC 77
           EKS+  + +      ++ K      G +  ++V +++PETG + L R      E  +   
Sbjct: 73  EKSLPEEEL-----KALLK-----PGDLVRVQVIKVDPETGQVLLSRKRVEATEHWDRIR 122

Query: 78  QISLK------VARDRDPSIDIGGVVS----DPLPPMDFGRVAVQSAK--QVIIQKVREA 125
           ++  K        +++     +  +       P   +D  R+    A   Q I+ K+ E 
Sbjct: 123 ELYEKGEPVTVTVKEKVKGGVVADLDGVSAFIPASQLDLKRIPNLDAYVGQQILVKIIEF 182

Query: 126 ERDR---------QYLE---------FKDKV-GEIISGTVKRVEYGNVIVDLGNSDGVIR 166
            R +            E         F+    G+++ GTV  V      V+LG  DG++ 
Sbjct: 183 NRKKGRVLLSRRAVLEEEQKRAKEAFFQSLQPGQVVEGTVVDVTDFGAFVNLGPVDGLVH 242

Query: 167 RDETI------SRENLRPGDRVKSYIYDVRREQ 193
           R E         +E +  G +V++ +  V  E+
Sbjct: 243 RSEITWGRFNHPKEVIHKGQKVRAQVVSVDPEK 275


>gi|210615657|ref|ZP_03290703.1| hypothetical protein CLONEX_02921 [Clostridium nexile DSM 1787]
 gi|210150200|gb|EEA81209.1| hypothetical protein CLONEX_02921 [Clostridium nexile DSM 1787]
          Length = 361

 Score = 45.1 bits (106), Expect = 0.032,   Method: Composition-based stats.
 Identities = 27/132 (20%), Positives = 55/132 (41%), Gaps = 8/132 (6%)

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+E   +     +    ++D S   G  +   +   +  R  V   ++ ++   +   +
Sbjct: 125 VVDEARVFIPASLVSDTYEKDLSKYQGQEIEFVISEFNPRRNRVIGDRRQLLVAEKAELQ 184

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDR 181
              + + K  VG+++ GTVK V      +DLG  DG++   E         ++  + GD 
Sbjct: 185 KELFAKLK--VGDVVEGTVKNVTDFGAFIDLGGVDGLLHISEMSWGRVENPKKVFQVGDT 242

Query: 182 VKSYIYDVRREQ 193
           VK  + D+   +
Sbjct: 243 VKVLVKDINDTK 254


>gi|15839029|ref|NP_299717.1| 30S ribosomal protein S1 [Xylella fastidiosa 9a5c]
 gi|9107629|gb|AAF85237.1|AE004052_12 30S ribosomal protein S1 [Xylella fastidiosa 9a5c]
          Length = 569

 Score = 45.1 bits (106), Expect = 0.032,   Method: Composition-based stats.
 Identities = 39/189 (20%), Positives = 80/189 (42%), Gaps = 29/189 (15%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPE-TGDISLFRLLEVVEEVEN 74
           ++ EK+  R +V   + ++++K           I   IN +  G  ++        ++++
Sbjct: 96  LSREKA-KRSMVWDELEEALEK--------NETISGRINGKVKGGFTV--------DIKD 138

Query: 75  YTCQI--SLKVAR-DRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
               +  SL   R  RDP+   G  +   L  +D  R  V  +++ +++     ER++  
Sbjct: 139 VRAFLPASLVDVRPVRDPAYLEGKELEFKLIKLDRKRNNVVVSRRAVVESEHSEEREQLL 198

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSY 185
            +   + G +++GTVK +      VDLG  DG++   +          E +  GD V+  
Sbjct: 199 DKL--QEGAVLTGTVKNMTDYGAFVDLGGVDGLLHITDMAWKRVRHPCEVVNIGDEVEVR 256

Query: 186 IYDVRREQR 194
           +    RE+ 
Sbjct: 257 VLKFDRERN 265


>gi|119717213|ref|YP_924178.1| 30S ribosomal protein S1 [Nocardioides sp. JS614]
 gi|119537874|gb|ABL82491.1| SSU ribosomal protein S1P [Nocardioides sp. JS614]
          Length = 490

 Score = 45.1 bits (106), Expect = 0.032,   Method: Composition-based stats.
 Identities = 23/94 (24%), Positives = 51/94 (54%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I++GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +   ++
Sbjct: 41  GDIVAGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPSEVVAVGDEVEALVL--QK 98

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  +++LS+   Q+      +E  +  +G+V+
Sbjct: 99  EDKEGRLILSKKRAQYERAWGTIEQVKEEDGVVE 132


>gi|186684029|ref|YP_001867225.1| RNA-binding S1 domain-containing protein [Nostoc punctiforme PCC
           73102]
 gi|186466481|gb|ACC82282.1| RNA binding S1 domain protein [Nostoc punctiforme PCC 73102]
          Length = 312

 Score = 45.1 bits (106), Expect = 0.032,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 35/70 (50%), Gaps = 8/70 (11%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDET------ISRENLRPGDRVKSYIYDVR 190
           +VG+++SGT++ ++   V VD+G+   ++   +          +  +  D +K+ I  + 
Sbjct: 238 QVGQVVSGTIRGIKDYGVFVDIGDFYALLPTSKMFHPSVDNPNQFFKINDHLKATIVKLD 297

Query: 191 REQRGPQVLL 200
            E    QV+L
Sbjct: 298 PENG--QVVL 305


>gi|242019042|ref|XP_002429975.1| DNA repair protein rad51, putative [Pediculus humanus corporis]
 gi|212515030|gb|EEB17237.1| DNA repair protein rad51, putative [Pediculus humanus corporis]
          Length = 339

 Score = 45.1 bits (106), Expect = 0.032,   Method: Composition-based stats.
 Identities = 12/73 (16%), Positives = 26/73 (35%)

Query: 341 IITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEG 400
           + +  +      +D+   +   ++   +       L   G+  VE +A      +A I+G
Sbjct: 6   VTSPAQCVEEESEDYGPSSIKKLEGQGITSGDIKKLEEAGYYTVEAVAFAPKKSLAQIKG 65

Query: 401 FDEETAVEIQGRA 413
             E    +I   A
Sbjct: 66  ISEAKVEKIISEA 78


>gi|116075332|ref|ZP_01472592.1| hypothetical protein RS9916_27269 [Synechococcus sp. RS9916]
 gi|116067529|gb|EAU73283.1| hypothetical protein RS9916_27269 [Synechococcus sp. RS9916]
          Length = 439

 Score = 45.1 bits (106), Expect = 0.032,   Method: Composition-based stats.
 Identities = 22/91 (24%), Positives = 36/91 (39%), Gaps = 4/91 (4%)

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR--PGDRVKSYIYDVRREQ 193
           +K G+++   V     G V  DL    G I R +    EN     G  +     +V  E 
Sbjct: 251 EKEGKVVQVKVSGFNRGGVTCDLEGLRGFIPRSQLQDGENHESLVGKTLGVAFLEVNSET 310

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           R  +++LS        +   +EV ++  G V
Sbjct: 311 R--KLVLSEKRAATAARFSELEVGQLVEGHV 339



 Score = 36.6 bits (84), Expect = 9.8,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 25/57 (43%), Gaps = 7/57 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDL-GNSDGVIRRDE------TISRENLRPGDRVKSYIYD 188
           G+++ GTV  +E   V VD+ G + G + + E      T  +E    G  +   +  
Sbjct: 167 GDVVHGTVIGLESDGVYVDIGGKAPGFMPKSECGLGVITNLKERFPKGLEIDVLVTR 223


>gi|152966892|ref|YP_001362676.1| 30S ribosomal protein S1 [Kineococcus radiotolerans SRS30216]
 gi|151361409|gb|ABS04412.1| RNA binding S1 domain protein [Kineococcus radiotolerans SRS30216]
          Length = 505

 Score = 45.1 bits (106), Expect = 0.032,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 40/70 (57%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+SGT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +   ++
Sbjct: 40  GDIVSGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVGVGDEVEALVL--QK 97

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 98  EDKEGRLILS 107


>gi|284031037|ref|YP_003380968.1| RNA binding S1 domain-containing protein [Kribbella flavida DSM
           17836]
 gi|283810330|gb|ADB32169.1| RNA binding S1 domain protein [Kribbella flavida DSM 17836]
          Length = 492

 Score = 45.1 bits (106), Expect = 0.033,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +   ++
Sbjct: 44  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVNVGDHVEALVL--QK 101

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 102 EDKEGRLILS 111


>gi|320160398|ref|YP_004173622.1| putative 30S ribosomal protein S1 [Anaerolinea thermophila UNI-1]
 gi|319994251|dbj|BAJ63022.1| putative 30S ribosomal protein S1 [Anaerolinea thermophila UNI-1]
          Length = 332

 Score = 45.1 bits (106), Expect = 0.033,   Method: Composition-based stats.
 Identities = 26/90 (28%), Positives = 38/90 (42%), Gaps = 11/90 (12%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDE------TISRENLRPGDRVKSYIYDVR 190
           + GEI++GTV  V      VDLG  +G+I   E          + L+ G  V++ +  V 
Sbjct: 172 RPGEIVNGTVTNVTDFGAFVDLGGLEGLIHVSELSWGRVQHPTDILQVGVPVRALVLSVS 231

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPEIY 220
            E     + L R  P     L     P+IY
Sbjct: 232 AENGRVALSLKRLCPNPWETL-----PQIY 256


>gi|312383584|gb|EFR28621.1| hypothetical protein AND_03252 [Anopheles darlingi]
          Length = 338

 Score = 45.1 bits (106), Expect = 0.033,   Method: Composition-based stats.
 Identities = 12/51 (23%), Positives = 21/51 (41%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           +Q   +       L   GF  +E +A     ++ +I+G  E  A +I   A
Sbjct: 27  LQGNGITSGDIKKLAEAGFHTIESVAFAPKKQLLTIKGISEAKADKILQEA 77


>gi|82799326|gb|ABB92252.1| 30S ribosomal protein S1-like protein B [uncultured marine type-A
           Synechococcus 5B2]
          Length = 411

 Score = 45.1 bits (106), Expect = 0.033,   Method: Composition-based stats.
 Identities = 21/91 (23%), Positives = 38/91 (41%), Gaps = 4/91 (4%)

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR--PGDRVKSYIYDVRREQ 193
           +K G+++   V     G V  DL    G I R +    EN +   G  +     +V  E 
Sbjct: 223 EKQGKVVQVIVNGFNRGGVTCDLEGLRGFIPRSQLQDGENHQELVGKTLGVAFIEVNSET 282

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           R  +++LS        +   +E+ ++  G+V
Sbjct: 283 R--KLVLSEKRAAIAARFQELEIGQLVEGLV 311


>gi|291522293|emb|CBK80586.1| (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and
           DMAPP forming) [Coprococcus catus GD/7]
          Length = 637

 Score = 45.1 bits (106), Expect = 0.034,   Method: Composition-based stats.
 Identities = 40/197 (20%), Positives = 74/197 (37%), Gaps = 42/197 (21%)

Query: 35  IQKAARSLYGTMSDIRVEINPETGDISLFRLLEV----VEEVENYTCQISLKVARDRDPS 90
           +    + L     + R+E          +   EV    V  V +    + ++ AR   P+
Sbjct: 365 VLLTYKRLLAERGNKRIE--------EAYNNKEVLTAKVANVLDGGLSVVVEEARVFIPA 416

Query: 91  IDIGGVVSDPL-------------PPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
             +       L                   R  +   KQ+I+     AE+ ++  E  +K
Sbjct: 417 SLVSDTYEKNLSKYQDQEISFVITEFNPRKRRIIGDRKQLIL-----AEKAQKQKELFEK 471

Query: 138 V--GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDV 189
           +  G+ + G VK V      +DLG +DG++   E         ++ L+ GD +K  I D+
Sbjct: 472 INIGDTVEGRVKNVTDFGAFIDLGGADGLLHISEMSWGRVENPKKVLKVGDTLKVLIKDI 531

Query: 190 RREQRGPQVLLSRTHPQ 206
           +    G ++ LS   P+
Sbjct: 532 Q----GEKIALSLKFPE 544



 Score = 38.1 bits (88), Expect = 3.7,   Method: Composition-based stats.
 Identities = 23/103 (22%), Positives = 50/103 (48%), Gaps = 15/103 (14%)

Query: 112 QSAKQVIIQKVREAERDRQYLEFKD------KVGEIISGTVKRVEYGNVIVDLG-NSDGV 164
            +  + +   + E   ++ + +  +      + GE++ GTV  V+   +I+++G  +DG+
Sbjct: 268 NNIIEEVHTNMSEMGNEQSFEQMLEASLKTIRTGEVVEGTVIDVKEDEIILNIGYKADGI 327

Query: 165 IRRDETISRENL------RPGDRVKSYIYDVRREQRGPQVLLS 201
           I R+E  +  NL        GD +++ +  V   +   QVLL+
Sbjct: 328 ITRNEYSNTSNLDLRTVVNVGDTMQAKVLKVNDGEG--QVLLT 368


>gi|294673321|ref|YP_003573937.1| DNA ligase (NAD(+)) [Prevotella ruminicola 23]
 gi|294473291|gb|ADE82680.1| DNA ligase (NAD(+)) [Prevotella ruminicola 23]
          Length = 674

 Score = 44.7 bits (105), Expect = 0.034,   Method: Composition-based stats.
 Identities = 28/113 (24%), Positives = 42/113 (37%), Gaps = 6/113 (5%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           V E  A LL    F +++ L    I E+  IEG  E  A  I      +    ++ + ++
Sbjct: 524 VGETSAKLLARH-FKNIDALMNAGIEELQEIEGIGEVMAKSIITY---FHTEENLKIIER 579

Query: 428 IRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +R  G+  EL       + I   L    I      A  S D+     E  GG 
Sbjct: 580 LRNYGLQMELSEAQ--TANISDKLAGQSIVISGVFAHHSRDEYKAIIEQNGGK 630


>gi|197303562|ref|ZP_03168601.1| hypothetical protein RUMLAC_02284 [Ruminococcus lactaris ATCC
           29176]
 gi|197297560|gb|EDY32121.1| hypothetical protein RUMLAC_02284 [Ruminococcus lactaris ATCC
           29176]
          Length = 362

 Score = 44.7 bits (105), Expect = 0.034,   Method: Composition-based stats.
 Identities = 31/146 (21%), Positives = 60/146 (41%), Gaps = 12/146 (8%)

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
             V+EV  +     +  + ++D S   G  +   +   +  R  V   ++ ++   R  +
Sbjct: 124 TTVDEVRVFIPASLVSDSYEKDLSKYEGQEIEFVISEFNPRRNRVIGDRRQLLVAERAEK 183

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGD 180
           +   + +    VG+ + GTVK V      VDLG  DG++   E         ++    GD
Sbjct: 184 QKELFAKL--HVGDTVEGTVKNVTDFGAFVDLGGVDGLLHISEMSWGRVDNPKKVFHVGD 241

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQ 206
            +K  + D+R      ++ LS   P+
Sbjct: 242 ELKVLVKDIRDT----KIALSLKFPE 263


>gi|299144362|ref|ZP_07037442.1| ribosomal protein S1 [Peptoniphilus sp. oral taxon 386 str. F0131]
 gi|298518847|gb|EFI42586.1| ribosomal protein S1 [Peptoniphilus sp. oral taxon 386 str. F0131]
          Length = 680

 Score = 44.7 bits (105), Expect = 0.034,   Method: Composition-based stats.
 Identities = 29/106 (27%), Positives = 47/106 (44%), Gaps = 9/106 (8%)

Query: 95  GVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNV 154
             V D +      R  V S K V  +++ EA+R   Y     + G++I GTV+R+     
Sbjct: 428 EFVCDIIDFDKSKRKVVLSRKNVEAEEL-EAKRKSVYESL--QEGDVIEGTVQRLTNFGA 484

Query: 155 IVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
            +DLG  DG+I   E          + + PG +V+  +  V  E+ 
Sbjct: 485 FIDLGGVDGLIHISELSWNRVKHPADVVAPGQKVEVQVLTVDEEKN 530



 Score = 42.4 bits (99), Expect = 0.20,   Method: Composition-based stats.
 Identities = 23/82 (28%), Positives = 40/82 (48%), Gaps = 10/82 (12%)

Query: 128 DRQYLEFKD-KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPG 179
           +     FK  + GE++ G V  V    V+V++G  SDG+I R+E          +  +PG
Sbjct: 283 EAIENSFKKIRRGEVVEGEVLFVNENEVMVNIGYRSDGIISREELSNDPEVKPSDLFKPG 342

Query: 180 DRVKSYIYDVRREQRGPQVLLS 201
           D+++ Y+  +        V+LS
Sbjct: 343 DKIQVYVLKIDDGDGN--VVLS 362


>gi|269127063|ref|YP_003300433.1| RNA binding S1 domain-containing protein [Thermomonospora curvata
           DSM 43183]
 gi|268312021|gb|ACY98395.1| RNA binding S1 domain protein [Thermomonospora curvata DSM 43183]
          Length = 487

 Score = 44.7 bits (105), Expect = 0.034,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 40/70 (57%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V+   V++D+G  ++GVI   E          E ++ GD V++ +   ++
Sbjct: 39  GDIVEGTVVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPHEVVKVGDHVEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|158320593|ref|YP_001513100.1| RNA-binding S1 domain-containing protein [Alkaliphilus oremlandii
           OhILAs]
 gi|158140792|gb|ABW19104.1| RNA binding S1 domain protein [Alkaliphilus oremlandii OhILAs]
          Length = 378

 Score = 44.7 bits (105), Expect = 0.034,   Method: Composition-based stats.
 Identities = 24/99 (24%), Positives = 43/99 (43%), Gaps = 9/99 (9%)

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI----- 171
           +   ++    + +    + + GEI+SG V  V    + V++G  SDG+I +DE       
Sbjct: 1   MSNDMQNLMEEIEKSMVRLRRGEIVSGKVINVTNNEIFVNVGYKSDGIIPKDEISNDITV 60

Query: 172 -SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMV 209
              E ++ GD +K Y+  +        VLLS+       
Sbjct: 61  QPSELVKEGDEIKVYVLSLDDGDGN--VLLSKKRVDLTK 97


>gi|28199337|ref|NP_779651.1| 30S ribosomal protein S1 [Xylella fastidiosa Temecula1]
 gi|71276211|ref|ZP_00652490.1| Ribosomal protein S1 [Xylella fastidiosa Dixon]
 gi|71898750|ref|ZP_00680919.1| Ribosomal protein S1 [Xylella fastidiosa Ann-1]
 gi|71900470|ref|ZP_00682601.1| Ribosomal protein S1 [Xylella fastidiosa Ann-1]
 gi|170730703|ref|YP_001776136.1| 30S ribosomal protein S1 [Xylella fastidiosa M12]
 gi|182682062|ref|YP_001830222.1| 30S ribosomal protein S1 [Xylella fastidiosa M23]
 gi|28057443|gb|AAO29300.1| 30S ribosomal protein S1 [Xylella fastidiosa Temecula1]
 gi|71162972|gb|EAO12695.1| Ribosomal protein S1 [Xylella fastidiosa Dixon]
 gi|71729776|gb|EAO31876.1| Ribosomal protein S1 [Xylella fastidiosa Ann-1]
 gi|71731515|gb|EAO33577.1| Ribosomal protein S1 [Xylella fastidiosa Ann-1]
 gi|167965496|gb|ACA12506.1| 30S ribosomal protein S1 [Xylella fastidiosa M12]
 gi|182632172|gb|ACB92948.1| ribosomal protein S1 [Xylella fastidiosa M23]
 gi|307578330|gb|ADN62299.1| 30S ribosomal protein S1 [Xylella fastidiosa subsp. fastidiosa
           GB514]
          Length = 558

 Score = 44.7 bits (105), Expect = 0.034,   Method: Composition-based stats.
 Identities = 39/189 (20%), Positives = 80/189 (42%), Gaps = 29/189 (15%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPE-TGDISLFRLLEVVEEVEN 74
           ++ EK+  R +V   + ++++K           I   IN +  G  ++        ++++
Sbjct: 85  LSREKA-KRSMVWDELEEALEK--------NETISGRINGKVKGGFTV--------DIKD 127

Query: 75  YTCQI--SLKVAR-DRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
               +  SL   R  RDP+   G  +   L  +D  R  V  +++ +++     ER++  
Sbjct: 128 VRAFLPASLVDVRPVRDPAYLEGKELEFKLIKLDRKRNNVVVSRRAVVESEHSEEREQLL 187

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSY 185
            +   + G +++GTVK +      VDLG  DG++   +          E +  GD V+  
Sbjct: 188 DKL--QEGAVLTGTVKNMTDYGAFVDLGGVDGLLHITDMAWKRVRHPCEVVNIGDEVEVR 245

Query: 186 IYDVRREQR 194
           +    RE+ 
Sbjct: 246 VLKFDRERN 254


>gi|170584581|ref|XP_001897076.1| DNA repair protein RAD51 homolog 1 [Brugia malayi]
 gi|158595535|gb|EDP34081.1| DNA repair protein RAD51 homolog 1, putative [Brugia malayi]
          Length = 363

 Score = 44.7 bits (105), Expect = 0.034,   Method: Composition-based stats.
 Identities = 12/51 (23%), Positives = 21/51 (41%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           ++   +       L   GF   E +A     E+ +I+G  E+ A +I   A
Sbjct: 48  LEQFGISAADIRKLKEAGFCTFEAIAYAPRKELYAIKGISEQKAEKIFAEA 98


>gi|328951770|ref|YP_004369104.1| ribosomal protein S1 [Desulfobacca acetoxidans DSM 11109]
 gi|328452094|gb|AEB07923.1| ribosomal protein S1 [Desulfobacca acetoxidans DSM 11109]
          Length = 615

 Score = 44.7 bits (105), Expect = 0.035,   Method: Composition-based stats.
 Identities = 28/125 (22%), Positives = 53/125 (42%), Gaps = 10/125 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ L+  R+ D    IG      +   +  R  V  ++++I++K R  ++       
Sbjct: 181 PGSQVDLQPVRNIDSL--IGQTFKFKILKYNKKRRNVVLSRRIIMEKERAEQKSATLAML 238

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           +   G++++G VK +    V VDLG  DG++   +          E    GD ++  I +
Sbjct: 239 EG--GKVVNGVVKNITDYGVFVDLGGIDGLLHVTDMSWGRIGHPSEVFHVGDPIEVKILN 296

Query: 189 VRREQ 193
             RE 
Sbjct: 297 FDREN 301


>gi|14595977|gb|AAK68858.1| DNA repair protein [Nosema bombycis]
          Length = 333

 Score = 44.7 bits (105), Expect = 0.035,   Method: Composition-based stats.
 Identities = 13/70 (18%), Positives = 27/70 (38%), Gaps = 5/70 (7%)

Query: 344 EEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
           EEE+  +            ++   +     + L+  G+  VE LA     ++ +I+GF +
Sbjct: 7   EEEEFKSETTSLEV-----LKNQGIGPADINKLIEAGYNSVEALAYAPKKQLLTIKGFSD 61

Query: 404 ETAVEIQGRA 413
                +   A
Sbjct: 62  VKVDRLIKEA 71


>gi|15669234|ref|NP_248039.1| transcription elongation factor NusA [Methanocaldococcus jannaschii
           DSM 2661]
 gi|2499339|sp|Q58447|NUSA_METJA RecName: Full=NusA protein homolog
 gi|1591699|gb|AAB99049.1| putative transcription termination-antitermination factor (NusA)
           [Methanocaldococcus jannaschii DSM 2661]
          Length = 183

 Score = 44.7 bits (105), Expect = 0.035,   Method: Composition-based stats.
 Identities = 18/79 (22%), Positives = 33/79 (41%), Gaps = 3/79 (3%)

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG--RI 308
           VGA +G  G  V+    +   +K+DI+ +S D   F+ N   P  +  V +         
Sbjct: 44  VGAAIGKGGENVKTAEEKF-GKKVDIIEYSDDWRKFIRNIFAPIQLDDVWVKRVGKDVVA 102

Query: 309 EVIVPKEQLSLAIGRRGQN 327
            + +  +      G +G+N
Sbjct: 103 FIKINPKVRRAVFGEKGKN 121


>gi|84496588|ref|ZP_00995442.1| 30S ribosomal protein S1 [Janibacter sp. HTCC2649]
 gi|84383356|gb|EAP99237.1| 30S ribosomal protein S1 [Janibacter sp. HTCC2649]
          Length = 502

 Score = 44.7 bits (105), Expect = 0.035,   Method: Composition-based stats.
 Identities = 29/125 (23%), Positives = 59/125 (47%), Gaps = 16/125 (12%)

Query: 113 SAKQVIIQKVREAER-----DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIR 166
           +A Q+ I  +   E      D     F D  G+I+ G + +V+   V++D+G  ++GVI 
Sbjct: 9   TAPQIAINDIGSEEDLLAAIDATIKHFND--GDIVEGIIVKVDRDEVLLDIGYKTEGVIP 66

Query: 167 RDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIY 220
             E          E ++ GD V++ +   ++E +  +++LS+   Q+      +E  +  
Sbjct: 67  SRELSIKHDIDPNEVVKVGDEVEALVL--QKEDKEGRLILSKKRAQYERAWGTIEKVKEE 124

Query: 221 NGIVQ 225
           +G+V 
Sbjct: 125 DGVVT 129


>gi|289548470|ref|YP_003473458.1| RNA binding S1 domain protein [Thermocrinis albus DSM 14484]
 gi|289182087|gb|ADC89331.1| RNA binding S1 domain protein [Thermocrinis albus DSM 14484]
          Length = 523

 Score = 44.7 bits (105), Expect = 0.036,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 36/64 (56%), Gaps = 5/64 (7%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           + G+++ G V +++  N  VD+G   +G++ R+E    E ++ GD +K+    VR  + G
Sbjct: 18  RRGDVVKGRVVKLDERNAYVDIGFKVEGIVPREELP--ETIKEGDEIKAVF--VRFTKAG 73

Query: 196 PQVL 199
             +L
Sbjct: 74  SPIL 77


>gi|222481028|ref|YP_002567265.1| DNA repair and recombination protein RadA [Halorubrum lacusprofundi
           ATCC 49239]
 gi|222453930|gb|ACM58195.1| DNA repair and recombination protein RadA [Halorubrum lacusprofundi
           ATCC 49239]
          Length = 343

 Score = 44.7 bits (105), Expect = 0.036,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 22/59 (37%)

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
                   V    A  LV  GF   + +A     E+++     E +A +I   AR+  +
Sbjct: 4   DELEDLPGVGPATADKLVENGFESYQSIAVASPGEMSNTADIGESSASDIINAARDAAD 62


>gi|311746070|ref|ZP_07719855.1| ribosomal protein S1 [Algoriphagus sp. PR1]
 gi|126576287|gb|EAZ80565.1| ribosomal protein S1 [Algoriphagus sp. PR1]
          Length = 590

 Score = 44.7 bits (105), Expect = 0.036,   Method: Composition-based stats.
 Identities = 24/74 (32%), Positives = 43/74 (58%), Gaps = 3/74 (4%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
             E+I GTV  V   +VI+++G  SDG++  +E    E+++PGD V+ +I +  +E    
Sbjct: 42  EKEVIKGTVVGVNDKDVIINIGFKSDGLVPLNEFRDLESIKPGDEVEVFIEE--QENALG 99

Query: 197 QVLLSRTHPQFMVK 210
           Q++LSR   + +  
Sbjct: 100 QLILSRKKAKIVRA 113


>gi|116749549|ref|YP_846236.1| 30S ribosomal protein S1 [Syntrophobacter fumaroxidans MPOB]
 gi|116698613|gb|ABK17801.1| SSU ribosomal protein S1P [Syntrophobacter fumaroxidans MPOB]
          Length = 596

 Score = 44.7 bits (105), Expect = 0.037,   Method: Composition-based stats.
 Identities = 28/124 (22%), Positives = 53/124 (42%), Gaps = 10/124 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ L+  R  +    IG      +   +  R  V  +++ +++K RE  + +     
Sbjct: 161 PGSQVDLRPVR--NLEFLIGQTFPFKVLKYNKKRRNVVLSRRALLEKEREQMKSQTLANL 218

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           +D  G+++ G VK +    V VDLG  DG++   +          E  + GDR+K  +  
Sbjct: 219 ED--GKVVEGIVKNITDYGVFVDLGGIDGLLHITDMSWGRVGHPSELFQIGDRIKVMVLS 276

Query: 189 VRRE 192
             R+
Sbjct: 277 FDRD 280


>gi|256832461|ref|YP_003161188.1| RNA binding S1 domain-containing protein [Jonesia denitrificans DSM
           20603]
 gi|256685992|gb|ACV08885.1| RNA binding S1 domain protein [Jonesia denitrificans DSM 20603]
          Length = 488

 Score = 44.7 bits (105), Expect = 0.039,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +   ++
Sbjct: 33  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPGEVVNVGDSVEALVL--QK 90

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 91  EDKEGRLILS 100


>gi|226596530|ref|YP_002791886.1| hypothetical protein HRPV-1_gp1 [Halorubrum pleomorphic virus 1]
 gi|226427412|gb|ACO54896.1| ORF1 [Halorubrum pleomorphic virus 1]
          Length = 500

 Score = 44.7 bits (105), Expect = 0.039,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 28/69 (40%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
            S +  KD +       +   + E     L A G   + ++    + EIASI+G  E  A
Sbjct: 396 ASSHDLKDDSRNFDTLQEVPGLGETKLDRLEAHGIQTLSDVRLASVDEIASIDGISESFA 455

Query: 407 VEIQGRARE 415
            +++    E
Sbjct: 456 EKLKDLVGE 464


>gi|302348720|ref|YP_003816358.1| Putative ski2-type helicase [Acidilobus saccharovorans 345-15]
 gi|302329132|gb|ADL19327.1| Putative ski2-type helicase [Acidilobus saccharovorans 345-15]
          Length = 724

 Score = 44.7 bits (105), Expect = 0.039,   Method: Composition-based stats.
 Identities = 14/64 (21%), Positives = 21/64 (32%)

Query: 348 SINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV 407
           S   ++         ++   V  + A  L   GF  +E LA     E+  I G    T  
Sbjct: 635 SKRIEEGVKPELLQLVEIPGVGRVRARRLYNAGFKTLESLATASPQELLRIPGIGPATVA 694

Query: 408 EIQG 411
            I  
Sbjct: 695 SILE 698


>gi|297195006|ref|ZP_06912404.1| 30S ribosomal protein S1 [Streptomyces pristinaespiralis ATCC
           25486]
 gi|197721927|gb|EDY65835.1| 30S ribosomal protein S1 [Streptomyces pristinaespiralis ATCC
           25486]
          Length = 500

 Score = 44.7 bits (105), Expect = 0.039,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E ++ GD +++ +   ++
Sbjct: 39  GDIVDGVIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVKVGDEIEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|313791764|gb|EFS39875.1| 30S ribosomal protein S1 [Propionibacterium acnes HL110PA1]
 gi|315077524|gb|EFT49582.1| 30S ribosomal protein S1 [Propionibacterium acnes HL053PA2]
 gi|327452888|gb|EGE99542.1| 30S ribosomal protein S1 [Propionibacterium acnes HL092PA1]
          Length = 498

 Score = 44.7 bits (105), Expect = 0.040,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 40/70 (57%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+SGTV +V+   V++D+G  ++GVI   E          E +  GD +++ +   ++
Sbjct: 53  GDIVSGTVVKVDRDEVLLDIGYKTEGVIPSKELSIKHDVDPFEVVNVGDEIEALVQ--QK 110

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 111 EDKEGRLILS 120


>gi|290961257|ref|YP_003492439.1| 30S ribosomal protein S1 [Streptomyces scabiei 87.22]
 gi|260650783|emb|CBG73900.1| 30S ribosomal protein S1 [Streptomyces scabiei 87.22]
          Length = 498

 Score = 44.7 bits (105), Expect = 0.040,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E ++ GD +++ +   ++
Sbjct: 39  GDIVDGVIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVKVGDEIEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|302533839|ref|ZP_07286181.1| ribosomal protein S1 [Streptomyces sp. C]
 gi|302442734|gb|EFL14550.1| ribosomal protein S1 [Streptomyces sp. C]
          Length = 504

 Score = 44.7 bits (105), Expect = 0.040,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E ++ GD +++ +   ++
Sbjct: 40  GDIVDGVIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVKVGDEIEALVL--QK 97

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 98  EDKEGRLILS 107


>gi|323345184|ref|ZP_08085408.1| 30S ribosomal protein S1 [Prevotella oralis ATCC 33269]
 gi|323094454|gb|EFZ37031.1| 30S ribosomal protein S1 [Prevotella oralis ATCC 33269]
          Length = 590

 Score = 44.7 bits (105), Expect = 0.040,   Method: Composition-based stats.
 Identities = 28/91 (30%), Positives = 47/91 (51%), Gaps = 5/91 (5%)

Query: 122 VREAERDRQYLEFKDKVGE--IISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           V + +  + Y E  +KV E  ++ GTV  ++   VIV++G  SDGVI   E     +L+ 
Sbjct: 26  VSKEDLQKAYDETLNKVNEHQVVDGTVISIDKKEVIVNIGYKSDGVIPASEFRYNPDLKV 85

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMV 209
           GD V+ Y+    +E +  Q++LS    +   
Sbjct: 86  GDVVEVYVE--NQEDKKGQLVLSHKKARLSK 114


>gi|148655865|ref|YP_001276070.1| RNA-binding S1 domain-containing protein [Roseiflexus sp. RS-1]
 gi|148567975|gb|ABQ90120.1| SSU ribosomal protein S1P [Roseiflexus sp. RS-1]
          Length = 403

 Score = 44.7 bits (105), Expect = 0.040,   Method: Composition-based stats.
 Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 6/73 (8%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
           K G++  G V  V      VD+G +DG++   E          E L+PGD+V+ Y+  + 
Sbjct: 235 KEGDVREGIVTSVCDFGAFVDIGGADGLVHLSEISWSRIKHPGEVLKPGDKVQVYVLSID 294

Query: 191 REQRGPQVLLSRT 203
            E++   + L RT
Sbjct: 295 NERKRIALSLKRT 307



 Score = 36.6 bits (84), Expect = 9.2,   Method: Composition-based stats.
 Identities = 25/107 (23%), Positives = 48/107 (44%), Gaps = 9/107 (8%)

Query: 102 PPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV-GEIISGTVKRVEYGNVIVDLG- 159
            P D      Q A Q   +++ E        ++++   G+ + G + RV    ++VD+G 
Sbjct: 19  SPGDADYANGQGADQRSDRELMEQFLANPAHDYRNLQYGDTVDGIIMRVSRDEILVDIGA 78

Query: 160 NSDGVIRRDE-TISREN----LRPGDRVKSYIYDVRREQRGPQVLLS 201
            ++GV+   E     E     L+PGD +  ++  V+ E +  +  LS
Sbjct: 79  KAEGVVPAKEMQSLSEEDRAALKPGDSLLVFV--VQSEDKEGRATLS 123


>gi|332796456|ref|YP_004457956.1| DNA repair and recombination protein RadA [Acidianus hospitalis W1]
 gi|332694191|gb|AEE93658.1| DNA repair and recombination protein RadA [Acidianus hospitalis W1]
          Length = 305

 Score = 44.7 bits (105), Expect = 0.041,   Method: Composition-based stats.
 Identities = 13/63 (20%), Positives = 29/63 (46%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           + + + + L+  G++ +E +A     +++   G    TA  I   AR+ L+    T  + 
Sbjct: 1   MGQAVLNKLIDAGYSSLEAIAVASPQDLSVAAGIPLTTAQRIIKEARDALDIRFKTALEV 60

Query: 428 IRE 430
            +E
Sbjct: 61  KKE 63


>gi|313772539|gb|EFS38505.1| 30S ribosomal protein S1 [Propionibacterium acnes HL074PA1]
          Length = 498

 Score = 44.7 bits (105), Expect = 0.041,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 40/70 (57%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+SGTV +V+   V++D+G  ++GVI   E          E +  GD +++ +   ++
Sbjct: 53  GDIVSGTVVKVDRDEVLLDIGYKTEGVIPSKELSIKHDVDPFEVVNVGDEIEALVQ--QK 110

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 111 EDKEGRLILS 120


>gi|315108213|gb|EFT80189.1| 30S ribosomal protein S1 [Propionibacterium acnes HL030PA2]
          Length = 498

 Score = 44.7 bits (105), Expect = 0.041,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 40/70 (57%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+SGTV +V+   V++D+G  ++GVI   E          E +  GD +++ +   ++
Sbjct: 53  GDIVSGTVVKVDRDEVLLDIGYKTEGVIPSKELSIKHDVDPFEVVNVGDEIEALVQ--QK 110

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 111 EDKEGRLILS 120


>gi|282854237|ref|ZP_06263574.1| 30S ribosomal protein S1 [Propionibacterium acnes J139]
 gi|282583690|gb|EFB89070.1| 30S ribosomal protein S1 [Propionibacterium acnes J139]
 gi|314923224|gb|EFS87055.1| 30S ribosomal protein S1 [Propionibacterium acnes HL001PA1]
 gi|314966991|gb|EFT11090.1| 30S ribosomal protein S1 [Propionibacterium acnes HL082PA2]
 gi|314980945|gb|EFT25039.1| 30S ribosomal protein S1 [Propionibacterium acnes HL110PA3]
 gi|315091676|gb|EFT63652.1| 30S ribosomal protein S1 [Propionibacterium acnes HL110PA4]
 gi|315093089|gb|EFT65065.1| 30S ribosomal protein S1 [Propionibacterium acnes HL060PA1]
 gi|315103138|gb|EFT75114.1| 30S ribosomal protein S1 [Propionibacterium acnes HL050PA2]
 gi|327327811|gb|EGE69587.1| ribosomal protein S1 [Propionibacterium acnes HL103PA1]
          Length = 498

 Score = 44.7 bits (105), Expect = 0.041,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 40/70 (57%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+SGTV +V+   V++D+G  ++GVI   E          E +  GD +++ +   ++
Sbjct: 53  GDIVSGTVVKVDRDEVLLDIGYKTEGVIPSKELSIKHDVDPFEVVNVGDEIEALVQ--QK 110

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 111 EDKEGRLILS 120


>gi|294677715|ref|YP_003578330.1| DNA-3-methyladenine glycosylase II [Rhodobacter capsulatus SB 1003]
 gi|294476535|gb|ADE85923.1| DNA-3-methyladenine glycosylase II [Rhodobacter capsulatus SB 1003]
          Length = 210

 Score = 44.7 bits (105), Expect = 0.041,   Method: Composition-based stats.
 Identities = 22/97 (22%), Positives = 38/97 (39%), Gaps = 9/97 (9%)

Query: 372 IAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIREL 431
           I   L+  GF     LA     ++    G   +    +Q  AR  ++   +    ++ + 
Sbjct: 65  IRGRLIDAGFGAAPALAEASEEDLRGC-GLSRQKVRYLQALARSGIDFDALR---RLPDA 120

Query: 432 GVSEELCSIPGIDS-----KIKVALGENGIKTMEDLA 463
            V E L  +PGI        +  ALG   +  ++DLA
Sbjct: 121 QVIETLLPLPGIGRWTVEMYLIFALGRADVFAVDDLA 157


>gi|254391555|ref|ZP_05006755.1| 30S ribosomal protein S1 [Streptomyces clavuligerus ATCC 27064]
 gi|294812024|ref|ZP_06770667.1| 30S ribosomal protein S1 [Streptomyces clavuligerus ATCC 27064]
 gi|326440254|ref|ZP_08214988.1| 30S ribosomal protein S1 [Streptomyces clavuligerus ATCC 27064]
 gi|197705242|gb|EDY51054.1| 30S ribosomal protein S1 [Streptomyces clavuligerus ATCC 27064]
 gi|294324623|gb|EFG06266.1| 30S ribosomal protein S1 [Streptomyces clavuligerus ATCC 27064]
          Length = 496

 Score = 44.7 bits (105), Expect = 0.041,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E ++ GD +++ +   ++
Sbjct: 38  GDIVDGVIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVKVGDEIEALVL--QK 95

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 96  EDKEGRLILS 105


>gi|188589736|ref|YP_001919939.1| 30S ribosomal protein S1 [Clostridium botulinum E3 str. Alaska E43]
 gi|188500017|gb|ACD53153.1| putative 30S ribosomal protein S1 homolog [Clostridium botulinum E3
           str. Alaska E43]
          Length = 378

 Score = 44.7 bits (105), Expect = 0.041,   Method: Composition-based stats.
 Identities = 40/216 (18%), Positives = 80/216 (37%), Gaps = 41/216 (18%)

Query: 31  MADSIQKAA--------RSLYGTMSDIRVEINPE--------TGDISLFRLLEVVEEVEN 74
           +  S+ KA         +  +    +++V +  E         G+I +F           
Sbjct: 84  VELSLIKALVIKEKEQLQKDFKEEKNVKVYVKDEIKGGLISYYGNIRVF----------- 132

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                SL      D S      +   +  +DF    + ++++ I  +  E  R   +   
Sbjct: 133 --IPASLASRNMIDLSTLKNTELEVRIIELDFRNNKIVASRKAIENEEYEKNRKVIWDSL 190

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           K   GE  +G VK++      VD+G  +G+I   +          E ++  D+V+ YI  
Sbjct: 191 K--EGEKRTGVVKKLVKYGAFVDIGGVEGLIHISDLSWNRVNRPEEIVKENDKVEVYIGS 248

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           V RE +   ++L         + + +   EI +G++
Sbjct: 249 VDRENQKLSLVL----KDINKEPWTLHTNEIKSGMI 280


>gi|148695988|gb|EDL27935.1| RAD51 homolog (S. cerevisiae), isoform CRA_a [Mus musculus]
          Length = 265

 Score = 44.7 bits (105), Expect = 0.041,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 28/71 (39%), Gaps = 5/71 (7%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
           T  E+     +  +   Q  + A +V       L   G+  VE +A     E+ +I+G  
Sbjct: 48  TSVEEESFGPQPISRLEQCGINANDV-----KKLEEAGYHTVEAVAYAPKKELINIKGIS 102

Query: 403 EETAVEIQGRA 413
           E  A +I   A
Sbjct: 103 EAKADKILTEA 113


>gi|94985677|ref|YP_605041.1| 30S ribosomal protein S1 [Deinococcus geothermalis DSM 11300]
 gi|94555958|gb|ABF45872.1| RNA binding S1 [Deinococcus geothermalis DSM 11300]
          Length = 587

 Score = 44.7 bits (105), Expect = 0.041,   Method: Composition-based stats.
 Identities = 21/88 (23%), Positives = 39/88 (44%), Gaps = 15/88 (17%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRE---------NLRPGDRVKSYIYD 188
           G+I+ GTV  +    + VD+G   +G+I  +  I  E           +PGD++++Y+  
Sbjct: 72  GDIVDGTVVFIGQEGIAVDVGAKVEGIIPLN-QIGDEPVTLEQAQQMYKPGDQIEAYVVR 130

Query: 189 VRREQRGPQVLLS--RTHPQFMVKLFHM 214
           V       Q++LS  R       ++   
Sbjct: 131 VDLANN--QIVLSKKRADQDKGWRVLER 156


>gi|28572628|ref|NP_789408.1| 30S ribosomal protein S1 [Tropheryma whipplei TW08/27]
 gi|28410760|emb|CAD67146.1| 30s ribosomal protein S1 [Tropheryma whipplei TW08/27]
          Length = 473

 Score = 44.7 bits (105), Expect = 0.041,   Method: Composition-based stats.
 Identities = 26/83 (31%), Positives = 43/83 (51%), Gaps = 11/83 (13%)

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRP 178
           E D+    F D  G+I+ GTV RV    V+VD+G  ++GVI   E          E L  
Sbjct: 18  EIDKTVKSFSD--GDIVVGTVVRVYRDEVLVDVGYKTEGVIPVKELSLRADVDPNELLEV 75

Query: 179 GDRVKSYIYDVRREQRGPQVLLS 201
           G  V++ ++  + + +G +++LS
Sbjct: 76  GSTVEALVFQ-KEDSQG-RLILS 96



 Score = 37.4 bits (86), Expect = 5.9,   Method: Composition-based stats.
 Identities = 35/145 (24%), Positives = 60/145 (41%), Gaps = 10/145 (6%)

Query: 57  TGD-ISLFRLLEVVEEVENYTCQISLKVARD-RDPSIDIGGVVSDPLPPMDFGRVAVQSA 114
           TG  I + R   +V+         SL   R  RD S  +G  +   +  +D  R  V  +
Sbjct: 120 TGKVIEIVRGGLIVDIGLRGFLPASLIDIRRVRDLSSYLGMEIEAKVLELDRQRNNVVLS 179

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI--- 171
           ++V++++ +   R   +       G++  GTV  +      VDLG  DG++   E     
Sbjct: 180 RRVLLEQNQSEARTSLFGNL--HKGQVRKGTVSSIVSFGAFVDLGGIDGLVHISEISWKH 237

Query: 172 ---SRENLRPGDRVKSYIYDVRREQ 193
                E L+ G+ V   I +V  E+
Sbjct: 238 VTQPSEVLKVGEEVTVEILEVDSER 262


>gi|326332716|ref|ZP_08198978.1| ribosomal protein S1 [Nocardioidaceae bacterium Broad-1]
 gi|325949497|gb|EGD41575.1| ribosomal protein S1 [Nocardioidaceae bacterium Broad-1]
          Length = 493

 Score = 44.7 bits (105), Expect = 0.042,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 50/94 (53%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E +  GD+V++ +   ++
Sbjct: 42  GDIVDGVIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPSEVVEVGDKVEALVL--QK 99

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  +++LS+   Q+      +E  +  +G+V+
Sbjct: 100 EDKEGRLILSKKRAQYERAWGTIEQVKEEDGVVE 133


>gi|239940449|ref|ZP_04692386.1| 30S ribosomal protein S1 [Streptomyces roseosporus NRRL 15998]
 gi|239986932|ref|ZP_04707596.1| 30S ribosomal protein S1 [Streptomyces roseosporus NRRL 11379]
 gi|291443880|ref|ZP_06583270.1| 30S ribosomal protein S1 [Streptomyces roseosporus NRRL 15998]
 gi|291346827|gb|EFE73731.1| 30S ribosomal protein S1 [Streptomyces roseosporus NRRL 15998]
          Length = 504

 Score = 44.7 bits (105), Expect = 0.042,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E ++ GD +++ +   ++
Sbjct: 39  GDIVDGVIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVKVGDEIEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|182439327|ref|YP_001827046.1| 30S ribosomal protein S1 [Streptomyces griseus subsp. griseus NBRC
           13350]
 gi|326779979|ref|ZP_08239244.1| RNA binding S1 domain protein [Streptomyces cf. griseus XylebKG-1]
 gi|178467843|dbj|BAG22363.1| putative 30S ribosomal protein S1 [Streptomyces griseus subsp.
           griseus NBRC 13350]
 gi|326660312|gb|EGE45158.1| RNA binding S1 domain protein [Streptomyces cf. griseus XylebKG-1]
          Length = 505

 Score = 44.7 bits (105), Expect = 0.042,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E ++ GD +++ +   ++
Sbjct: 39  GDIVDGVIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVKVGDEIEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|50842265|ref|YP_055492.1| 30S ribosomal protein S1 [Propionibacterium acnes KPA171202]
 gi|289426251|ref|ZP_06427997.1| 30S ribosomal protein S1 [Propionibacterium acnes SK187]
 gi|289427839|ref|ZP_06429545.1| 30S ribosomal protein S1 [Propionibacterium acnes J165]
 gi|295130353|ref|YP_003581016.1| 30S ribosomal protein S1 [Propionibacterium acnes SK137]
 gi|50839867|gb|AAT82534.1| 30S ribosomal protein S1 [Propionibacterium acnes KPA171202]
 gi|289153416|gb|EFD02131.1| 30S ribosomal protein S1 [Propionibacterium acnes SK187]
 gi|289158971|gb|EFD07169.1| 30S ribosomal protein S1 [Propionibacterium acnes J165]
 gi|291375457|gb|ADD99311.1| 30S ribosomal protein S1 [Propionibacterium acnes SK137]
 gi|313764712|gb|EFS36076.1| 30S ribosomal protein S1 [Propionibacterium acnes HL013PA1]
 gi|313802151|gb|EFS43383.1| 30S ribosomal protein S1 [Propionibacterium acnes HL110PA2]
 gi|313807266|gb|EFS45753.1| 30S ribosomal protein S1 [Propionibacterium acnes HL087PA2]
 gi|313809772|gb|EFS47493.1| 30S ribosomal protein S1 [Propionibacterium acnes HL083PA1]
 gi|313813186|gb|EFS50900.1| 30S ribosomal protein S1 [Propionibacterium acnes HL025PA1]
 gi|313815779|gb|EFS53493.1| 30S ribosomal protein S1 [Propionibacterium acnes HL059PA1]
 gi|313818313|gb|EFS56027.1| 30S ribosomal protein S1 [Propionibacterium acnes HL046PA2]
 gi|313820074|gb|EFS57788.1| 30S ribosomal protein S1 [Propionibacterium acnes HL036PA1]
 gi|313823117|gb|EFS60831.1| 30S ribosomal protein S1 [Propionibacterium acnes HL036PA2]
 gi|313825606|gb|EFS63320.1| 30S ribosomal protein S1 [Propionibacterium acnes HL063PA1]
 gi|313827848|gb|EFS65562.1| 30S ribosomal protein S1 [Propionibacterium acnes HL063PA2]
 gi|313830682|gb|EFS68396.1| 30S ribosomal protein S1 [Propionibacterium acnes HL007PA1]
 gi|313833902|gb|EFS71616.1| 30S ribosomal protein S1 [Propionibacterium acnes HL056PA1]
 gi|313838482|gb|EFS76196.1| 30S ribosomal protein S1 [Propionibacterium acnes HL086PA1]
 gi|314915204|gb|EFS79035.1| 30S ribosomal protein S1 [Propionibacterium acnes HL005PA4]
 gi|314918567|gb|EFS82398.1| 30S ribosomal protein S1 [Propionibacterium acnes HL050PA1]
 gi|314919829|gb|EFS83660.1| 30S ribosomal protein S1 [Propionibacterium acnes HL050PA3]
 gi|314925498|gb|EFS89329.1| 30S ribosomal protein S1 [Propionibacterium acnes HL036PA3]
 gi|314931844|gb|EFS95675.1| 30S ribosomal protein S1 [Propionibacterium acnes HL067PA1]
 gi|314956000|gb|EFT00398.1| 30S ribosomal protein S1 [Propionibacterium acnes HL027PA1]
 gi|314958395|gb|EFT02498.1| 30S ribosomal protein S1 [Propionibacterium acnes HL002PA1]
 gi|314960251|gb|EFT04353.1| 30S ribosomal protein S1 [Propionibacterium acnes HL002PA2]
 gi|314963061|gb|EFT07161.1| 30S ribosomal protein S1 [Propionibacterium acnes HL082PA1]
 gi|314968106|gb|EFT12205.1| 30S ribosomal protein S1 [Propionibacterium acnes HL037PA1]
 gi|314973683|gb|EFT17779.1| 30S ribosomal protein S1 [Propionibacterium acnes HL053PA1]
 gi|314976278|gb|EFT20373.1| 30S ribosomal protein S1 [Propionibacterium acnes HL045PA1]
 gi|314978238|gb|EFT22332.1| 30S ribosomal protein S1 [Propionibacterium acnes HL072PA2]
 gi|314983513|gb|EFT27605.1| 30S ribosomal protein S1 [Propionibacterium acnes HL005PA1]
 gi|314990181|gb|EFT34272.1| 30S ribosomal protein S1 [Propionibacterium acnes HL005PA3]
 gi|315080309|gb|EFT52285.1| 30S ribosomal protein S1 [Propionibacterium acnes HL078PA1]
 gi|315084567|gb|EFT56543.1| 30S ribosomal protein S1 [Propionibacterium acnes HL027PA2]
 gi|315085905|gb|EFT57881.1| 30S ribosomal protein S1 [Propionibacterium acnes HL002PA3]
 gi|315088677|gb|EFT60653.1| 30S ribosomal protein S1 [Propionibacterium acnes HL072PA1]
 gi|315096304|gb|EFT68280.1| 30S ribosomal protein S1 [Propionibacterium acnes HL038PA1]
 gi|315098286|gb|EFT70262.1| 30S ribosomal protein S1 [Propionibacterium acnes HL059PA2]
 gi|315101023|gb|EFT72999.1| 30S ribosomal protein S1 [Propionibacterium acnes HL046PA1]
 gi|327325939|gb|EGE67729.1| ribosomal protein S1 [Propionibacterium acnes HL096PA2]
 gi|327330637|gb|EGE72383.1| ribosomal protein S1 [Propionibacterium acnes HL097PA1]
 gi|327332188|gb|EGE73925.1| ribosomal protein S1 [Propionibacterium acnes HL096PA3]
 gi|327442810|gb|EGE89464.1| 30S ribosomal protein S1 [Propionibacterium acnes HL013PA2]
 gi|327446180|gb|EGE92834.1| 30S ribosomal protein S1 [Propionibacterium acnes HL043PA2]
 gi|327447838|gb|EGE94492.1| 30S ribosomal protein S1 [Propionibacterium acnes HL043PA1]
 gi|327451032|gb|EGE97686.1| 30S ribosomal protein S1 [Propionibacterium acnes HL087PA3]
 gi|327453616|gb|EGF00271.1| 30S ribosomal protein S1 [Propionibacterium acnes HL083PA2]
 gi|328753065|gb|EGF66681.1| 30S ribosomal protein S1 [Propionibacterium acnes HL087PA1]
 gi|328753719|gb|EGF67335.1| 30S ribosomal protein S1 [Propionibacterium acnes HL020PA1]
 gi|328759190|gb|EGF72806.1| 30S ribosomal protein S1 [Propionibacterium acnes HL025PA2]
 gi|328760564|gb|EGF74132.1| ribosomal protein S1 [Propionibacterium acnes HL099PA1]
 gi|332675193|gb|AEE72009.1| 30S ribosomal protein S1 [Propionibacterium acnes 266]
          Length = 498

 Score = 44.7 bits (105), Expect = 0.042,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 40/70 (57%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+SGTV +V+   V++D+G  ++GVI   E          E +  GD +++ +   ++
Sbjct: 53  GDIVSGTVVKVDRDEVLLDIGYKTEGVIPSKELSIKHDVDPFEVVNVGDEIEALVQ--QK 110

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 111 EDKEGRLILS 120


>gi|328881671|emb|CCA54910.1| SSU ribosomal protein S1p [Streptomyces venezuelae ATCC 10712]
          Length = 503

 Score = 44.7 bits (105), Expect = 0.042,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E ++ GD +++ +   ++
Sbjct: 41  GDIVDGVIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVKVGDEIEALVL--QK 98

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 99  EDKEGRLILS 108


>gi|327310021|ref|YP_004336918.1| ATP-dependent, DNA binding helicase [Thermoproteus uzoniensis
           768-20]
 gi|326946500|gb|AEA11606.1| ATP-dependent, DNA binding helicase [Thermoproteus uzoniensis
           768-20]
          Length = 716

 Score = 44.7 bits (105), Expect = 0.042,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 30/68 (44%)

Query: 356 NERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
            E  +  +    V  + A  L   G+  + ++A  K ++IA + GF E  A  +  +AR 
Sbjct: 645 EELLELVVNLRGVGRVRARTLYQAGYRTLADVARAKPADIARLPGFGERLAASVVEQARA 704

Query: 416 YLEGIDIT 423
            L+   I 
Sbjct: 705 ALDQKGIA 712


>gi|320011384|gb|ADW06234.1| RNA binding S1 domain protein [Streptomyces flavogriseus ATCC
           33331]
          Length = 503

 Score = 44.7 bits (105), Expect = 0.042,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E ++ GD +++ +   ++
Sbjct: 39  GDIVDGVIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVKVGDEIEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|254166602|ref|ZP_04873456.1| DNA repair and recombination protein RadA [Aciduliprofundum boonei
           T469]
 gi|254168555|ref|ZP_04875399.1| DNA repair and recombination protein RadA [Aciduliprofundum boonei
           T469]
 gi|289596107|ref|YP_003482803.1| DNA repair and recombination protein RadA [Aciduliprofundum boonei
           T469]
 gi|197622610|gb|EDY35181.1| DNA repair and recombination protein RadA [Aciduliprofundum boonei
           T469]
 gi|197624212|gb|EDY36773.1| DNA repair and recombination protein RadA [Aciduliprofundum boonei
           T469]
 gi|289533894|gb|ADD08241.1| DNA repair and recombination protein RadA [Aciduliprofundum boonei
           T469]
          Length = 324

 Score = 44.7 bits (105), Expect = 0.042,   Method: Composition-based stats.
 Identities = 16/55 (29%), Positives = 22/55 (40%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
                 V    A  L   G+ D+ ELA     ++A   G  E  A +I   AR+Y
Sbjct: 16  LEDLPGVGPTTAEKLREAGYTDLIELAVASPKDLADTVGIGEGVAQKIILAARKY 70


>gi|254384227|ref|ZP_04999571.1| 30S ribosomal protein S1 [Streptomyces sp. Mg1]
 gi|194343116|gb|EDX24082.1| 30S ribosomal protein S1 [Streptomyces sp. Mg1]
          Length = 503

 Score = 44.7 bits (105), Expect = 0.042,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E ++ GD +++ +   ++
Sbjct: 39  GDIVDGVIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVKVGDEIEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|312113691|ref|YP_004011287.1| ribosomal protein S1 [Rhodomicrobium vannielii ATCC 17100]
 gi|311218820|gb|ADP70188.1| ribosomal protein S1 [Rhodomicrobium vannielii ATCC 17100]
          Length = 576

 Score = 44.7 bits (105), Expect = 0.043,   Method: Composition-based stats.
 Identities = 33/191 (17%), Positives = 72/191 (37%), Gaps = 29/191 (15%)

Query: 25  DVVLSVMADSIQKA------ARS---------LYGTMSDIR-VEINPETGDISLFRLLEV 68
           +V +  + +++ +A      AR           +     +  V  N   G  ++     V
Sbjct: 85  EVYVERIENAMGEAVLSREKARREDSWTKLEQKFNAGEKVEGVIFNRVKGGFTVDLDGAV 144

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                    Q+ ++  +D  P +++       +  MD  R  +  +++ ++++ R  +R 
Sbjct: 145 A---FLPGSQVDIRPIKDVTPLMNVPQP--FQILKMDRRRGNIVVSRRSVLEETRAEQRS 199

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRV 182
               + +   G+++ G VK +      +DLG  DG++   +          E L  GD V
Sbjct: 200 EIVAKLE--EGQVVDGVVKNITDYGAFIDLGGIDGLLHVTDMAWKRVNHPTEILNVGDTV 257

Query: 183 KSYIYDVRREQ 193
           K  I  +  E 
Sbjct: 258 KVQIVRINPET 268


>gi|320102727|ref|YP_004178318.1| 30S ribosomal protein S1P [Isosphaera pallida ATCC 43644]
 gi|319750009|gb|ADV61769.1| SSU ribosomal protein S1P [Isosphaera pallida ATCC 43644]
          Length = 594

 Score = 44.7 bits (105), Expect = 0.043,   Method: Composition-based stats.
 Identities = 24/112 (21%), Positives = 48/112 (42%), Gaps = 12/112 (10%)

Query: 92  DIGGVVSDPLPPM----DFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVK 147
           DIG  +   +  +    D  R  +  +++ +I+  RE ++     E +   G+I  G VK
Sbjct: 161 DIGDYIDQEIECVILKIDEARRNIVVSRRKLIEMTRELQKKTLLAEIEP--GQIRKGVVK 218

Query: 148 RVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
            +      VDLG  DG++   +          + +   D ++ Y+  V +E+
Sbjct: 219 NIADFGAFVDLGGIDGLLHITDMSWGRINNPTDMVAINDEIEVYVIHVDKEK 270



 Score = 38.1 bits (88), Expect = 3.2,   Method: Composition-based stats.
 Identities = 29/151 (19%), Positives = 61/151 (40%), Gaps = 17/151 (11%)

Query: 89  PSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR 148
           P   IG  V   L  M+     +  + +   +++R    +R   ++K    +++ G V R
Sbjct: 79  PPPQIGDTVEFLLEDMNDQTGEIVLSYRK-AERIR--AWERVIAKYK--ENDVVKGKVTR 133

Query: 149 VEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVK----SYIYDVRREQRGPQVLLSRTH 204
              G ++VD+G  +  +   +   R     GD +       I  +   +R   +++SR  
Sbjct: 134 KIKGGLLVDIG-VNVFLPASQVDIRRPPDIGDYIDQEIECVILKIDEARRN--IVVSRRK 190

Query: 205 -PQFMVKLFHME-VPEIYNGIVQ---VKAVS 230
             +   +L     + EI  G ++   VK ++
Sbjct: 191 LIEMTRELQKKTLLAEIEPGQIRKGVVKNIA 221


>gi|28493260|ref|NP_787421.1| 30S ribosomal protein S1 [Tropheryma whipplei str. Twist]
 gi|28476301|gb|AAO44390.1| 30S ribosomal protein S1 [Tropheryma whipplei str. Twist]
          Length = 473

 Score = 44.7 bits (105), Expect = 0.043,   Method: Composition-based stats.
 Identities = 26/83 (31%), Positives = 43/83 (51%), Gaps = 11/83 (13%)

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRP 178
           E D+    F D  G+I+ GTV RV    V+VD+G  ++GVI   E          E L  
Sbjct: 18  EIDKTVKSFSD--GDIVVGTVVRVYRDEVLVDVGYKTEGVIPVKELSLRADVDPNELLEV 75

Query: 179 GDRVKSYIYDVRREQRGPQVLLS 201
           G  V++ ++  + + +G +++LS
Sbjct: 76  GSTVEALVFQ-KEDSQG-RLILS 96



 Score = 37.4 bits (86), Expect = 6.4,   Method: Composition-based stats.
 Identities = 28/115 (24%), Positives = 50/115 (43%), Gaps = 8/115 (6%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           R RD S  +G  +   +  +D  R  V  +++V++++ +   R   +       G++  G
Sbjct: 150 RVRDLSSYLGMEIEAKVLELDRQRNNVVLSRRVLLEQNQSEARTSLFGNL--HKGQVRKG 207

Query: 145 TVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           TV  +      VDLG  DG++   E          E L+ G+ V   I +V  E+
Sbjct: 208 TVSSIVSFGAFVDLGGIDGLVHISEISWKHVTQPSEVLKVGEEVTVEILEVDSER 262


>gi|313837427|gb|EFS75141.1| 30S ribosomal protein S1 [Propionibacterium acnes HL037PA2]
 gi|314929361|gb|EFS93192.1| 30S ribosomal protein S1 [Propionibacterium acnes HL044PA1]
 gi|314971634|gb|EFT15732.1| 30S ribosomal protein S1 [Propionibacterium acnes HL037PA3]
 gi|328907023|gb|EGG26789.1| 30S ribosomal protein S1 [Propionibacterium sp. P08]
          Length = 498

 Score = 44.7 bits (105), Expect = 0.044,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 40/70 (57%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+SGTV +V+   V++D+G  ++GVI   E          E +  GD +++ +   ++
Sbjct: 53  GDIVSGTVVKVDRDEVLLDIGYKTEGVIPSKELSIKHDVDPFEVVNVGDEIEALVQ--QK 110

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 111 EDKEGRLILS 120


>gi|251779026|ref|ZP_04821946.1| putative 30S ribosomal protein S1 homolog [Clostridium botulinum E1
           str. 'BoNT E Beluga']
 gi|243083341|gb|EES49231.1| putative 30S ribosomal protein S1 [Clostridium botulinum E1 str.
           'BoNT E Beluga']
          Length = 378

 Score = 44.3 bits (104), Expect = 0.044,   Method: Composition-based stats.
 Identities = 40/216 (18%), Positives = 80/216 (37%), Gaps = 41/216 (18%)

Query: 31  MADSIQKAA--------RSLYGTMSDIRVEINPE--------TGDISLFRLLEVVEEVEN 74
           +  S+ KA         +  +    +++V +  E         G+I +F           
Sbjct: 84  VELSLIKALVIKEKEQLQKDFKEEKNVKVYVKDEIKGGLISYYGNIRVF----------- 132

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                SL      D S      +   +  +DF    + ++++ I  +  E  R   +   
Sbjct: 133 --IPASLASRNMIDLSTLKNTELEVRIIELDFRNNKIVASRKAIENEEYEKNRKVIWDSL 190

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           K   GE  +G VK++      VD+G  +G+I   +          E ++  D+V+ YI  
Sbjct: 191 K--EGEKRTGIVKKLVKYGAFVDIGGVEGLIHISDLSWNRVNRPEEIVKENDKVEVYIGS 248

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           V RE +   ++L         + + +   EI +G++
Sbjct: 249 VDRENQKLSLVL----KDINKEPWTLHTNEIKSGMI 280


>gi|240146046|ref|ZP_04744647.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Roseburia
           intestinalis L1-82]
 gi|257201862|gb|EEV00147.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Roseburia
           intestinalis L1-82]
 gi|291539046|emb|CBL12157.1| Ribosomal protein S1 [Roseburia intestinalis XB6B4]
          Length = 374

 Score = 44.3 bits (104), Expect = 0.045,   Method: Composition-based stats.
 Identities = 32/145 (22%), Positives = 62/145 (42%), Gaps = 14/145 (9%)

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPL-PPMDFGRVAVQSAKQVIIQKVREAE 126
           +V+E   +     +  + ++D S      +   +       R  +   KQ+++ K  E +
Sbjct: 125 IVDETRVFIPASLVSDSYEKDLSKYKDQDIEFVISEFNPKRRRIIGDRKQLLVAKKLEQQ 184

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDET------ISRENLRPGD 180
           ++      K KVG+++ GTVK V      +DLG +DG++   E         ++    GD
Sbjct: 185 KELFA---KIKVGDVMEGTVKNVTDFGAFIDLGGADGLLHISEMSWGRVESPKKVFNVGD 241

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHP 205
            V+ +I D+       ++ LS   P
Sbjct: 242 HVRVFIKDINDT----KIALSMKFP 262


>gi|162457934|ref|NP_001104919.1| DNA repair protein RAD51 homolog B [Zea mays]
 gi|55976630|sp|Q9XED7|R51A2_MAIZE RecName: Full=DNA repair protein RAD51 homolog B; AltName:
           Full=Rad51-like protein B; Short=RAD51B; AltName:
           Full=ZmRAD51b
 gi|4886754|gb|AAD32030.1|AF079429_1 RAD51 homolog RAD51B [Zea mays]
 gi|223945143|gb|ACN26655.1| unknown [Zea mays]
          Length = 340

 Score = 44.3 bits (104), Expect = 0.045,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 27/72 (37%), Gaps = 5/72 (6%)

Query: 344 EEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
           EEE + +      +     + A++V       L   G   VE +A     ++  I+G  E
Sbjct: 15  EEEATEHGPFPIEQLQASGIAALDV-----KKLKDAGLCTVESVAYSPRKDLLQIKGISE 69

Query: 404 ETAVEIQGRARE 415
               +I   A +
Sbjct: 70  AKVDKIIEAASK 81


>gi|282862064|ref|ZP_06271127.1| RNA binding S1 domain protein [Streptomyces sp. ACTE]
 gi|282563089|gb|EFB68628.1| RNA binding S1 domain protein [Streptomyces sp. ACTE]
          Length = 504

 Score = 44.3 bits (104), Expect = 0.045,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E ++ GD +++ +   ++
Sbjct: 39  GDIVDGVIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVKVGDEIEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|114656382|ref|XP_001144544.1| PREDICTED: DNA repair protein RAD51 homolog 1 isoform 2 [Pan
           troglodytes]
 gi|332843553|ref|XP_003314670.1| PREDICTED: DNA repair protein RAD51 homolog 1 [Pan troglodytes]
          Length = 340

 Score = 44.3 bits (104), Expect = 0.045,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 29/72 (40%), Gaps = 5/72 (6%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
           T  E+     +  +   Q  + A +V       L   GF  VE +A     E+ +I+G  
Sbjct: 13  TSVEEESFGPQPISRLEQCGINANDV-----KKLEEAGFHTVEAVAYAPKKELINIKGIS 67

Query: 403 EETAVEIQGRAR 414
           E  A +I   +R
Sbjct: 68  EAKADKILTESR 79


>gi|29832775|ref|NP_827409.1| 30S ribosomal protein S1 [Streptomyces avermitilis MA-4680]
 gi|29609895|dbj|BAC73944.1| putative ribosomal protein S1 [Streptomyces avermitilis MA-4680]
          Length = 501

 Score = 44.3 bits (104), Expect = 0.046,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E ++ GD +++ +   ++
Sbjct: 39  GDIVDGVIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVKVGDEIEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|324512204|gb|ADY45060.1| DNA repair protein RAD51 A [Ascaris suum]
          Length = 346

 Score = 44.3 bits (104), Expect = 0.046,   Method: Composition-based stats.
 Identities = 16/73 (21%), Positives = 31/73 (42%), Gaps = 6/73 (8%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
           T EE+ +      ++  +  + A ++       L   GF   E +A     E+ +I+G  
Sbjct: 21  TNEEEEMGPYTVIDKLERSGISAADI-----RKLKEAGFNTFEAVAYAPRKELIAIKGIS 75

Query: 403 EETAVEI-QGRAR 414
           E+ A +I    A+
Sbjct: 76  EQKAEKIYLEAAK 88


>gi|294673916|ref|YP_003574532.1| 30S ribosomal protein S1 [Prevotella ruminicola 23]
 gi|294472255|gb|ADE81644.1| ribosomal protein S1 [Prevotella ruminicola 23]
          Length = 592

 Score = 44.3 bits (104), Expect = 0.046,   Method: Composition-based stats.
 Identities = 27/83 (32%), Positives = 49/83 (59%), Gaps = 5/83 (6%)

Query: 122 VREAERDRQYLEFKDKV--GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           V + E D+ Y E  +KV   +++ GTV  ++   V+V++G  SDG+I   E     +L+ 
Sbjct: 27  VSKEELDKAYDETLNKVADHQVVEGTVISIDKKEVVVNIGYKSDGIIPASEFRYNPDLKI 86

Query: 179 GDRVKSYIYDVRREQRGPQVLLS 201
           GD+V+ Y+     +++G Q++LS
Sbjct: 87  GDKVEVYVES-AEDKKG-QLILS 107


>gi|260578011|ref|ZP_05845934.1| 30S ribosomal protein S1 [Corynebacterium jeikeium ATCC 43734]
 gi|258603838|gb|EEW17092.1| 30S ribosomal protein S1 [Corynebacterium jeikeium ATCC 43734]
          Length = 488

 Score = 44.3 bits (104), Expect = 0.047,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V++  V++D+G  ++GVI   E          E +  GD + + +    +
Sbjct: 34  GDIVEGTVVKVDHDEVLLDIGYKTEGVIPSRELSIKHDVDPGEVVEVGDEIDALVL--TK 91

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 92  EDKEGRLILS 101


>gi|296269456|ref|YP_003652088.1| RNA binding S1 domain-containing protein [Thermobispora bispora DSM
           43833]
 gi|296092243|gb|ADG88195.1| RNA binding S1 domain protein [Thermobispora bispora DSM 43833]
          Length = 480

 Score = 44.3 bits (104), Expect = 0.048,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 40/70 (57%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V+   V++D+G  ++GVI   E          E ++ GD V++ +   ++
Sbjct: 39  GDIVEGTVVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPAEVVKVGDHVEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|281425226|ref|ZP_06256139.1| ribosomal protein S1 [Prevotella oris F0302]
 gi|281400692|gb|EFB31523.1| ribosomal protein S1 [Prevotella oris F0302]
          Length = 593

 Score = 44.3 bits (104), Expect = 0.048,   Method: Composition-based stats.
 Identities = 28/112 (25%), Positives = 54/112 (48%), Gaps = 13/112 (11%)

Query: 122 VREAERDRQYLEFKDK--VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           V + + ++ Y E  +K    +++ GTV  ++   V+V++G  SDG+I   E     +L+ 
Sbjct: 26  VSKQDLEKAYDETLNKIQEHQVVEGTVISLDKKEVVVNIGYKSDGIIPASEFRYNPDLKV 85

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQFMV------KLFHMEVPEIYNGIV 224
           GD+V+ Y+    +E +  Q++LS    +         +    E  EI  G +
Sbjct: 86  GDKVEVYVE--NQEDKKGQLVLSHRKARLNKSWDKVNEALENE--EIIQGYI 133


>gi|161986623|ref|YP_250600.2| 30S ribosomal protein S1 [Corynebacterium jeikeium K411]
          Length = 488

 Score = 44.3 bits (104), Expect = 0.048,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V++  V++D+G  ++GVI   E          E +  GD + + +    +
Sbjct: 34  GDIVEGTVVKVDHDEVLLDIGYKTEGVIPSRELSIKHDVDPGEVVEVGDEIDALVL--TK 91

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 92  EDKEGRLILS 101


>gi|90655436|gb|ABD96277.1| 30S ribosomal protein S1 homolog B [uncultured marine type-A
           Synechococcus GOM 3M9]
          Length = 423

 Score = 44.3 bits (104), Expect = 0.048,   Method: Composition-based stats.
 Identities = 22/92 (23%), Positives = 37/92 (40%), Gaps = 4/92 (4%)

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR--PGDRVKSYIYDVRRE 192
            +K G+++   V     G V  DL    G I R +    EN +   G  +     +V  E
Sbjct: 234 MEKQGKVVQVIVNGFNRGGVTCDLEGLRGFIPRSQLQDGENHQELVGKTLGVAFLEVNSE 293

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
            R  +++LS        +   +EV ++  G V
Sbjct: 294 TR--KLVLSEKRAAVAARFSELEVGQLVEGQV 323


>gi|109080686|ref|XP_001096945.1| PREDICTED: DNA repair protein RAD51 homolog 1-like, partial [Macaca
           mulatta]
          Length = 145

 Score = 44.3 bits (104), Expect = 0.048,   Method: Composition-based stats.
 Identities = 15/67 (22%), Positives = 28/67 (41%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
           D+   ++ F  +    ++   ++      L   GF  VE +A     E+ +I+G  E  A
Sbjct: 12  DTSVEEESFGPQPISRLEQCGINANDVKKLEEAGFHTVEAVAYAPKKELINIKGISEAKA 71

Query: 407 VEIQGRA 413
            +I   A
Sbjct: 72  DKILAEA 78


>gi|292654904|ref|YP_003534801.1| DNA polymerase X [Haloferax volcanii DS2]
 gi|291371449|gb|ADE03676.1| DNA polymerase X [Haloferax volcanii DS2]
          Length = 582

 Score = 44.3 bits (104), Expect = 0.048,   Method: Composition-based stats.
 Identities = 35/168 (20%), Positives = 60/168 (35%), Gaps = 18/168 (10%)

Query: 351 RQKDFNERTQFFMQAINVDEII--------AHLLVAEGFADVEELACVKISEIASIEGFD 402
           R  +     + F   +   ++         A   V E    VEELA      +  I+   
Sbjct: 3   RNDEIATLLEEFADLLEAKDVAYKPSSYRRAAENVREHPTPVEELAEAGEDAVQEIDRVG 62

Query: 403 EETAVEIQGRAREYLEGIDITLQKKIRELGVSE--ELCSIPGIDSKIKVALGEN-GIKTM 459
           +  A +I     EY+E   I   + +RE    +   L S+ G+  K    L E  G+  +
Sbjct: 63  DAIAAKIV----EYVETGRIEELEDLREDLPVDMAGLTSVEGVGPKTVGKLYEALGVSDL 118

Query: 460 EDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQ-VESMIIHAR 506
           +DL   + D      E KG   +     L  +   ++     ++  AR
Sbjct: 119 DDLEAAARD--GEIQEVKGFGAKTETNILDGIEFAREATGRELLGRAR 164


>gi|256017141|ref|NP_597994.3| DNA repair protein RAD51 homolog 1 isoform 2 [Homo sapiens]
 gi|256017143|ref|NP_001157741.1| DNA repair protein RAD51 homolog 1 isoform 2 [Homo sapiens]
 gi|47077076|dbj|BAD18467.1| unnamed protein product [Homo sapiens]
 gi|119612841|gb|EAW92435.1| RAD51 homolog (RecA homolog, E. coli) (S. cerevisiae), isoform
           CRA_e [Homo sapiens]
 gi|158257370|dbj|BAF84658.1| unnamed protein product [Homo sapiens]
          Length = 340

 Score = 44.3 bits (104), Expect = 0.049,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 29/72 (40%), Gaps = 5/72 (6%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
           T  E+     +  +   Q  + A +V       L   GF  VE +A     E+ +I+G  
Sbjct: 13  TSVEEESFGPQPISRLEQCGINANDV-----KKLEEAGFHTVEAVAYAPKKELINIKGIS 67

Query: 403 EETAVEIQGRAR 414
           E  A +I   +R
Sbjct: 68  EAKADKILTESR 79


>gi|312090474|ref|XP_003146628.1| rad51 [Loa loa]
 gi|307758208|gb|EFO17442.1| rad51 [Loa loa]
          Length = 360

 Score = 44.3 bits (104), Expect = 0.050,   Method: Composition-based stats.
 Identities = 18/74 (24%), Positives = 32/74 (43%), Gaps = 5/74 (6%)

Query: 340 DIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIE 399
           +I   EE+ +N     ++  QF + A ++       L   GF   E +      E+ +I+
Sbjct: 30  NIALVEEEDVNSFTVVDKLEQFGISAADI-----RKLKEAGFCTFEAIVYAPRKELYAIK 84

Query: 400 GFDEETAVEIQGRA 413
           G  E+ A +I   A
Sbjct: 85  GISEQKAEKIFAEA 98


>gi|119872658|ref|YP_930665.1| DEAD/DEAH box helicase domain-containing protein [Pyrobaculum
           islandicum DSM 4184]
 gi|119674066|gb|ABL88322.1| DEAD/DEAH box helicase domain protein [Pyrobaculum islandicum DSM
           4184]
          Length = 706

 Score = 44.3 bits (104), Expect = 0.050,   Method: Composition-based stats.
 Identities = 27/97 (27%), Positives = 41/97 (42%), Gaps = 12/97 (12%)

Query: 331 ASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI--------NVDEIIAHLLVAEGFA 382
           A++L G    II EEE     +           + +         V  + A  L   G+ 
Sbjct: 613 AAKLAG----IIGEEEHRRRLEVVTARVIYGVREELLELVTTLRGVGRVRARTLYNFGYR 668

Query: 383 DVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
            V ++A   I EIAS+ GF E+ A  I  +AR+ +E 
Sbjct: 669 TVRDIARASIREIASLPGFGEKLAKSIIEQARQLVET 705


>gi|256394808|ref|YP_003116372.1| 30S ribosomal protein S1 [Catenulispora acidiphila DSM 44928]
 gi|256361034|gb|ACU74531.1| RNA binding S1 domain protein [Catenulispora acidiphila DSM 44928]
          Length = 493

 Score = 44.3 bits (104), Expect = 0.050,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E +  GD +++ +   ++
Sbjct: 38  GDIVEGVIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVAVGDHIEALVL--QK 95

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 96  EDKEGRLILS 105


>gi|159040904|ref|YP_001540156.1| DEAD/DEAH box helicase domain-containing protein [Caldivirga
           maquilingensis IC-167]
 gi|226740604|sp|A8MB76|HELS_CALMQ RecName: Full=Putative ski2-type helicase
 gi|157919739|gb|ABW01166.1| DEAD/DEAH box helicase domain protein [Caldivirga maquilingensis
           IC-167]
          Length = 756

 Score = 44.3 bits (104), Expect = 0.050,   Method: Composition-based stats.
 Identities = 15/58 (25%), Positives = 28/58 (48%)

Query: 356 NERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           +E  +  +    V  + A  L A G+  +E+LA   +S++  I G  ++ A  I  +A
Sbjct: 666 DELLELVVNLEGVGRVRARALYAAGYRSIEDLAKANVSDLTRIRGIGDKIAGSIIEQA 723



 Score = 39.7 bits (92), Expect = 1.3,   Method: Composition-based stats.
 Identities = 31/161 (19%), Positives = 65/161 (40%), Gaps = 15/161 (9%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
           ++ ++ +N  +D+ +    F  A+ + E I      +    + +   V+  ++  +    
Sbjct: 574 SDVDELVNYPEDYEDFLSEFKTAMALLEWINESNEDQ----IMKTYDVQPGDLRVLSDQA 629

Query: 403 EETAVEIQGRAREYLEGID----ITLQKKIRELGVSEELC----SIPGIDSKIKVALGEN 454
           E     +Q  AR      +    +   +   + GV++EL     ++ G+      AL   
Sbjct: 630 EWLIGALQELARTLGLSGNVVNGLRALRYRVKYGVNDELLELVVNLEGVGRVRARALYAA 689

Query: 455 GIKTMEDLAGCSVDDLL---GWSENKGGNIEKFDGFLSSLG 492
           G +++EDLA  +V DL    G  +   G+I +    L   G
Sbjct: 690 GYRSIEDLAKANVSDLTRIRGIGDKIAGSIIEQAHQLVKDG 730


>gi|300933407|ref|ZP_07148663.1| 30S ribosomal protein S1 [Corynebacterium resistens DSM 45100]
          Length = 488

 Score = 44.3 bits (104), Expect = 0.051,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V++  V++D+G  ++GVI   E          E +  GD + + +    +
Sbjct: 34  GDIVEGTVVKVDHDEVLLDIGYKTEGVIPSRELSIKHDVDPGEVVEVGDEIDALVL--TK 91

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 92  EDKEGRLILS 101


>gi|322780402|gb|EFZ09890.1| hypothetical protein SINV_00924 [Solenopsis invicta]
          Length = 310

 Score = 44.3 bits (104), Expect = 0.052,   Method: Composition-based stats.
 Identities = 12/43 (27%), Positives = 20/43 (46%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
              L   G+  VE +A     E+ +I+G  E  A ++Q  A +
Sbjct: 8   IKKLQDSGYHTVESVAYATKKELIAIKGISEAKAEKLQQEASK 50


>gi|289193128|ref|YP_003459069.1| NusA family KH domain protein [Methanocaldococcus sp. FS406-22]
 gi|288939578|gb|ADC70333.1| NusA family KH domain protein [Methanocaldococcus sp. FS406-22]
          Length = 187

 Score = 44.3 bits (104), Expect = 0.054,   Method: Composition-based stats.
 Identities = 18/79 (22%), Positives = 33/79 (41%), Gaps = 3/79 (3%)

Query: 251 VGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVG--RI 308
           VGA +G  G  V+    +   +K+DI+ +S D   F+ N   P  +  V +         
Sbjct: 44  VGAAIGKGGENVKTAEEKF-GKKVDIIEYSDDWRKFIRNIFAPIQLEDVWVKRVGKDVVA 102

Query: 309 EVIVPKEQLSLAIGRRGQN 327
            + +  +      G +G+N
Sbjct: 103 FIKINPKVRRAVFGEKGKN 121


>gi|225848130|ref|YP_002728293.1| ribosomal protein S01 [Sulfurihydrogenibium azorense Az-Fu1]
 gi|225644676|gb|ACN99726.1| ribosomal protein S01 [Sulfurihydrogenibium azorense Az-Fu1]
          Length = 573

 Score = 44.3 bits (104), Expect = 0.054,   Method: Composition-based stats.
 Identities = 26/130 (20%), Positives = 58/130 (44%), Gaps = 16/130 (12%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              +IS   +R  +  + +G  V   +         ++  K ++  K+ E      + +F
Sbjct: 213 PKSEISWDKSRKVEEVLKVGDEVEVVVKE-------IKDKKPILSLKLLEGNP---WDKF 262

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRE------NLRPGDRVKSYIYD 188
              +G+++   +K +  G ++VDLG  +G I   E    +      NL+ GD V + I++
Sbjct: 263 DKNIGDVVEVKIKDINKGGLVVDLGLLEGFIPNSEISHFDYVKAKKNLKVGDTVVAKIFE 322

Query: 189 VRREQRGPQV 198
           + +E+   ++
Sbjct: 323 IDKEKGKVKL 332



 Score = 36.6 bits (84), Expect = 9.8,   Method: Composition-based stats.
 Identities = 19/80 (23%), Positives = 36/80 (45%), Gaps = 11/80 (13%)

Query: 131 YLEF--KDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDET------ISRENLRPGDR 181
           + +F  K KVG+++ G VK+ +E G  +      +G I   E       I  + L     
Sbjct: 426 FNDFVSKHKVGDVVKGKVKKLIEKGAFVDITDEIEGFIPVSEISKERIKIPSDKLSLHQE 485

Query: 182 VKSYIYDVRREQRGPQVLLS 201
           V++ I  +  + +  ++ LS
Sbjct: 486 VEAKIIKIDTQNK--KITLS 503


>gi|227548120|ref|ZP_03978169.1| 30S ribosomal protein S1 [Corynebacterium lipophiloflavum DSM
           44291]
 gi|227079782|gb|EEI17745.1| 30S ribosomal protein S1 [Corynebacterium lipophiloflavum DSM
           44291]
          Length = 489

 Score = 44.3 bits (104), Expect = 0.055,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I++GTV +V++  V++D+G  ++GVI   E          E +  GD V + +    +
Sbjct: 34  GDIVTGTVVKVDHDEVLLDIGYKTEGVIPTRELSIKHDIDPDEVVEVGDEVDALVL--TK 91

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 92  EDKEGRLILS 101


>gi|83590176|ref|YP_430185.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding
           domain protein [Moorella thermoacetica ATCC 39073]
 gi|83573090|gb|ABC19642.1| hydroxymethylbutenyl pyrophosphate reductase [Moorella
           thermoacetica ATCC 39073]
          Length = 736

 Score = 44.3 bits (104), Expect = 0.055,   Method: Composition-based stats.
 Identities = 24/104 (23%), Positives = 45/104 (43%), Gaps = 14/104 (13%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETI------SRENLRPGDRVKSYIYDV 189
           + G +++GTV ++    V+VD+ G S+GVI  +E          E +  GD +   +   
Sbjct: 363 RRGNVVAGTVVQITDNEVMVDVGGKSEGVIPLNELSHRNVTDPHEVVAVGDTINVMVLRP 422

Query: 190 RREQRGPQVLLS--RTHPQFMVKLFHMEV---PEIYNGIVQVKA 228
             E+  P  +LS  R   +   +     +    EI   +++V  
Sbjct: 423 ENEEGHP--VLSKRRADRRVAWEKLEEHLASGEEIQGEVIEVVK 464


>gi|257386579|ref|YP_003176352.1| transcription elongation factor NusA-like protein [Halomicrobium
           mukohataei DSM 12286]
 gi|257168886|gb|ACV46645.1| NusA family KH domain protein [Halomicrobium mukohataei DSM 12286]
          Length = 141

 Score = 44.3 bits (104), Expect = 0.057,   Method: Composition-based stats.
 Identities = 25/88 (28%), Positives = 42/88 (47%), Gaps = 2/88 (2%)

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGR-IEVIVP 313
           +G  G  V  + ++L    + ++  +  +A FV N L PA V  V + E+      V V 
Sbjct: 49  IGPGGVVVDRIESKLDR-AVKLIEDADTAANFVANTLAPAAVYNVTISENDDTIAYVEVA 107

Query: 314 KEQLSLAIGRRGQNVRLASQLTGWTIDI 341
           +E   +AIG  G+N+  A +L     D+
Sbjct: 108 QEDRGVAIGADGKNIDAARRLAKRHFDV 135


>gi|297696334|ref|XP_002825351.1| PREDICTED: DNA repair protein RAD51 homolog 1-like isoform 2 [Pongo
           abelii]
 gi|297696336|ref|XP_002825352.1| PREDICTED: DNA repair protein RAD51 homolog 1-like isoform 3 [Pongo
           abelii]
          Length = 340

 Score = 44.3 bits (104), Expect = 0.057,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 27/69 (39%), Gaps = 5/69 (7%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
           T  E+     +  +   Q  + A +V       L   GF  VE +A     E+ +I+G  
Sbjct: 13  TSVEEESFGPQPISRLEQCGINANDV-----KKLEEAGFHTVEAVAYAPKKELINIKGIS 67

Query: 403 EETAVEIQG 411
           E  A +I  
Sbjct: 68  EAKADKILT 76


>gi|262202770|ref|YP_003273978.1| RNA-binding S1 domain-containing protein [Gordonia bronchialis DSM
           43247]
 gi|262086117|gb|ACY22085.1| RNA binding S1 domain protein [Gordonia bronchialis DSM 43247]
          Length = 487

 Score = 43.9 bits (103), Expect = 0.058,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 36  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVNVGDEVEALVL--TK 93

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 94  EDKEGRLILS 103


>gi|331091238|ref|ZP_08340079.1| hypothetical protein HMPREF9477_00722 [Lachnospiraceae bacterium
           2_1_46FAA]
 gi|330404685|gb|EGG84224.1| hypothetical protein HMPREF9477_00722 [Lachnospiraceae bacterium
           2_1_46FAA]
          Length = 363

 Score = 43.9 bits (103), Expect = 0.059,   Method: Composition-based stats.
 Identities = 29/134 (21%), Positives = 58/134 (43%), Gaps = 12/134 (8%)

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+E   +     +    ++D S   G  +   +   +  R  V   ++    ++  AE+
Sbjct: 125 VVDEARVFIPASLVSDTYEKDLSKYQGQEIEFVISEFNPRRNRVIGDRR----QLLVAEK 180

Query: 128 DRQYLE-FKD-KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPG 179
            +   E F + KVG+++ GTVK V      +DLG  DG++   E         ++  + G
Sbjct: 181 AKLQEELFANLKVGDVVEGTVKNVTDFGAFIDLGGVDGLLHISEMSWGRVENPKKVFQVG 240

Query: 180 DRVKSYIYDVRREQ 193
           + +K  + D+   +
Sbjct: 241 ETIKVLVKDINDTK 254


>gi|302518440|ref|ZP_07270782.1| ribosomal protein S1 [Streptomyces sp. SPB78]
 gi|318056317|ref|ZP_07975040.1| 30S ribosomal protein S1 [Streptomyces sp. SA3_actG]
 gi|318076495|ref|ZP_07983827.1| 30S ribosomal protein S1 [Streptomyces sp. SA3_actF]
 gi|302427335|gb|EFK99150.1| ribosomal protein S1 [Streptomyces sp. SPB78]
          Length = 504

 Score = 43.9 bits (103), Expect = 0.059,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E ++ GD +++ +   ++
Sbjct: 39  GDIVDGVIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVKVGDEIEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|332878224|ref|ZP_08445952.1| 30S ribosomal protein S1 [Capnocytophaga sp. oral taxon 329 str.
           F0087]
 gi|332683836|gb|EGJ56705.1| 30S ribosomal protein S1 [Capnocytophaga sp. oral taxon 329 str.
           F0087]
          Length = 586

 Score = 43.9 bits (103), Expect = 0.060,   Method: Composition-based stats.
 Identities = 27/101 (26%), Positives = 48/101 (47%), Gaps = 4/101 (3%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD-KVGEIISGTVKRVEYGNVIVDLG-N 160
             +F     Q     + +   +   +     F D +  E++ G V R+     I+D+   
Sbjct: 12  LENFDWNKYQEGIDSVQEDQLKNFEELVKNNFVDTQDNEVVEGVVTRITDREAIIDINAK 71

Query: 161 SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           S+GVI  +E     NL+ GD+V+  I D+R ++ G Q++LS
Sbjct: 72  SEGVISLNEFRYNPNLKVGDKVEVLI-DIREDKNG-QLVLS 110


>gi|295839505|ref|ZP_06826438.1| ribosomal protein S1 [Streptomyces sp. SPB74]
 gi|197699395|gb|EDY46328.1| ribosomal protein S1 [Streptomyces sp. SPB74]
          Length = 504

 Score = 43.9 bits (103), Expect = 0.060,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E ++ GD +++ +   ++
Sbjct: 39  GDIVDGVIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVKVGDEIEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|197092361|gb|ACH42253.1| RAD51A recombination protein [Triticum aestivum]
          Length = 316

 Score = 43.9 bits (103), Expect = 0.060,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 21/53 (39%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           +QA  +  +    L   G   VE +A     ++  I+G  E    +I   A +
Sbjct: 32  LQASGIAAVDVKKLKDAGLCTVESVAYSPRKDLLQIKGISEAKVDKIIEAASK 84


>gi|160934311|ref|ZP_02081698.1| hypothetical protein CLOLEP_03182 [Clostridium leptum DSM 753]
 gi|156866984|gb|EDO60356.1| hypothetical protein CLOLEP_03182 [Clostridium leptum DSM 753]
          Length = 686

 Score = 43.9 bits (103), Expect = 0.060,   Method: Composition-based stats.
 Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 12/117 (10%)

Query: 94  GGVVSDPLPPM-DFGRVAVQSAKQVIIQKVREA---ERDRQYLEFKD--KVGEIISGTVK 147
           G  + D L     F  + V   ++  +  +R     ER +   +F +  ++G++ +GTVK
Sbjct: 436 GDSLEDLLKQEVKFRIIEVNRGRRRAVGSIRSVLKDERKKLAEKFWETAEIGKVYTGTVK 495

Query: 148 RVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQV 198
            +      VDLG  DG++   E          E +  GD V+ YI D+  E+    +
Sbjct: 496 SLTSYGAFVDLGGIDGMVHISELSWSRIKHPSEIVNVGDTVEVYIKDLDPEKGKISL 552


>gi|288799972|ref|ZP_06405431.1| ribosomal protein S1 [Prevotella sp. oral taxon 299 str. F0039]
 gi|288333220|gb|EFC71699.1| ribosomal protein S1 [Prevotella sp. oral taxon 299 str. F0039]
          Length = 591

 Score = 43.9 bits (103), Expect = 0.060,   Method: Composition-based stats.
 Identities = 25/74 (33%), Positives = 45/74 (60%), Gaps = 5/74 (6%)

Query: 131 YLEFKDK--VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIY 187
           Y E  +K    +++ GTV  V+   VIV++G  SDG+I   E     +L+ GD+V+ Y+ 
Sbjct: 35  YDETLNKIAEHQVVEGTVTHVDKKEVIVNIGYKSDGIIPASEFRYNPDLKVGDKVEVYV- 93

Query: 188 DVRREQRGPQVLLS 201
           +++ +++G Q+ LS
Sbjct: 94  EMQEDKKG-QLELS 106


>gi|90655490|gb|ABD96330.1| 30S ribosomal protein S1 homolog B [uncultured marine type-A
           Synechococcus GOM 3O6]
          Length = 408

 Score = 43.9 bits (103), Expect = 0.060,   Method: Composition-based stats.
 Identities = 21/91 (23%), Positives = 39/91 (42%), Gaps = 4/91 (4%)

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR--PGDRVKSYIYDVRREQ 193
           +K G+++   V     G V  DL    G I R +    +N +   G  +     +V  E 
Sbjct: 220 EKQGKVVQVIVNGFNRGGVTCDLEGLRGFIPRSQLQEGDNHQELVGKTLGVAFIEVNSET 279

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           R  +++LS+       +   +EV ++  G+V
Sbjct: 280 R--KLVLSQKRAAVAARFQELEVGQLVEGVV 308


>gi|229816274|ref|ZP_04446583.1| hypothetical protein COLINT_03326 [Collinsella intestinalis DSM
            13280]
 gi|229808125|gb|EEP43918.1| hypothetical protein COLINT_03326 [Collinsella intestinalis DSM
            13280]
          Length = 2133

 Score = 43.9 bits (103), Expect = 0.062,   Method: Composition-based stats.
 Identities = 23/96 (23%), Positives = 35/96 (36%), Gaps = 12/96 (12%)

Query: 368  VDEIIAHLLVAEGFA--DVEELACV--KISEIASIEGFDEETAVEIQGR---AREYLEGI 420
            V +I A  LVAE +     E  A       E+    G D++   E+  R   AR+ L   
Sbjct: 1915 VADIDAEKLVAEDYTQTTWEPFANALHDAKELLKNPGDDQKVVDELTERLGNARKALVKS 1974

Query: 421  DITLQKK-----IRELGVSEELCSIPGIDSKIKVAL 451
            D+  Q+K     +  L     +    G    +   L
Sbjct: 1975 DVAPQEKPDKSALEALVAEARMLDTEGKTPALVERL 2010


>gi|23336678|ref|ZP_00121881.1| COG0539: Ribosomal protein S1 [Bifidobacterium longum DJO10A]
          Length = 484

 Score = 43.9 bits (103), Expect = 0.062,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 51/94 (54%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++ GTV ++++  V++D+G  ++GVI   E          E +  GD +++ +  V +
Sbjct: 36  GDLVEGTVVKIDHDEVLLDIGYKTEGVIPSRELSIKKDVDPDEVVEVGDTIEALV--VTK 93

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  +++LS+   Q+      +E  +  +G+V+
Sbjct: 94  EDKEGRLILSKKRAQYERAWGDIEKIKEADGVVE 127


>gi|206890956|ref|YP_002249561.1| 30S ribosomal protein S1 [Thermodesulfovibrio yellowstonii DSM
           11347]
 gi|206742894|gb|ACI21951.1| 30S ribosomal protein S1 [Thermodesulfovibrio yellowstonii DSM
           11347]
          Length = 534

 Score = 43.9 bits (103), Expect = 0.062,   Method: Composition-based stats.
 Identities = 18/66 (27%), Positives = 34/66 (51%), Gaps = 3/66 (4%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           K+GEI +  V +     + VD+ G  +G++   E      ++ GD +K  +  V +E+R 
Sbjct: 462 KIGEIYNAKVIKKTEHGLFVDIEGIVEGLVYNSEIDKNRTVKEGDEIKVIVVKVDKEKR- 520

Query: 196 PQVLLS 201
            ++ LS
Sbjct: 521 -KIGLS 525


>gi|157822405|ref|NP_001102674.1| DNA repair protein RAD51 homolog 1 [Rattus norvegicus]
 gi|149022997|gb|EDL79891.1| similar to DNA repair protein RAD51 homolog 1 (predicted) [Rattus
           norvegicus]
 gi|197246432|gb|AAI68875.1| RAD51 homolog (RecA homolog, E. coli) (S. cerevisiae) [Rattus
           norvegicus]
          Length = 339

 Score = 43.9 bits (103), Expect = 0.063,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 28/71 (39%), Gaps = 5/71 (7%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
           T  E+     +  +   Q  + A +V       L   G+  VE +A     E+ +I+G  
Sbjct: 13  TSVEEESFGPQPISRLEQCGINANDV-----KKLEEAGYHTVEAVAYAPKKELINIKGIS 67

Query: 403 EETAVEIQGRA 413
           E  A +I   A
Sbjct: 68  EAKADKILAEA 78


>gi|167630001|ref|YP_001680500.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Heliobacterium
           modesticaldum Ice1]
 gi|167592741|gb|ABZ84489.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Heliobacterium
           modesticaldum Ice1]
          Length = 665

 Score = 43.9 bits (103), Expect = 0.063,   Method: Composition-based stats.
 Identities = 31/117 (26%), Positives = 48/117 (41%), Gaps = 10/117 (8%)

Query: 138 VGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDE---TISR---ENLRPGDRVKSYIYDVR 190
            G++I+G V +V +  V+VD+ G S+GVI   E    +     + ++ GD VK  I    
Sbjct: 318 EGQLITGIVVKVTHDEVLVDVAGKSEGVIPIRELATRMPNSASDIVKVGDEVKVVILKAE 377

Query: 191 REQRGPQVLLSRTHPQFMVKLFH-MEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDS 246
            E     ++LSR       K+ H  E  E  + I          G R  + V     
Sbjct: 378 SEDG--TLVLSRRRAIEREKILHLQEAKERGDIITGEVIAVVKGGLRVDVGVIGFVP 432



 Score = 43.5 bits (102), Expect = 0.089,   Method: Composition-based stats.
 Identities = 26/107 (24%), Positives = 50/107 (46%), Gaps = 8/107 (7%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG 152
           IG  +   +  +D  R     +++V++++  +  R + + E +   G+   GTV+R+   
Sbjct: 448 IGQTLRMRIMEIDTRRNNAVLSQKVVLEEEYKEARAKTWEEIE--EGQTRRGTVRRLTDF 505

Query: 153 NVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
              VDLG  DG++   E          E ++ GD +  Y+  V RE+
Sbjct: 506 GAFVDLGGVDGLLHVSEMSWGRIKHPSEVVKEGDVIDVYVLKVDREK 552


>gi|50954808|ref|YP_062096.1| 30S ribosomal protein S1 [Leifsonia xyli subsp. xyli str. CTCB07]
 gi|50951290|gb|AAT88991.1| 30S ribosomal protein S1 [Leifsonia xyli subsp. xyli str. CTCB07]
          Length = 480

 Score = 43.9 bits (103), Expect = 0.063,   Method: Composition-based stats.
 Identities = 26/99 (26%), Positives = 50/99 (50%), Gaps = 16/99 (16%)

Query: 115 KQVIIQKVREAER-----DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRD 168
           KQV +  +  AE      ++    F D  G++I GTV +++   V++D+G  ++GVI   
Sbjct: 11  KQVAVNDIGSAEDFLAAVEKTLKFFND--GDLIEGTVVKIDRDEVLLDVGYKTEGVIPSR 68

Query: 169 ETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           E          E +  GD V++ +   ++E +  +++LS
Sbjct: 69  ELSIKHDIDPSEVVDVGDTVEALVL--QKEDKEGRLILS 105


>gi|332799296|ref|YP_004460795.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase
           [Tepidanaerobacter sp. Re1]
 gi|332697031|gb|AEE91488.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase
           [Tepidanaerobacter sp. Re1]
          Length = 668

 Score = 43.9 bits (103), Expect = 0.064,   Method: Composition-based stats.
 Identities = 27/95 (28%), Positives = 47/95 (49%), Gaps = 11/95 (11%)

Query: 123 REAERDRQYLE-FKD-KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDET------ISR 173
           +E E +  Y   F D K   I+ GTV +V+   V+V++G  SDG+I  +E          
Sbjct: 287 KEEEGELNYENTFTDLKEDTIVEGTVVKVDNNEVLVNIGYKSDGIIPINELSDIAFESPE 346

Query: 174 ENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFM 208
           + ++ GD+++ YI  +  E     V+LS+     +
Sbjct: 347 DIIKVGDKIQVYIMKLEDEDGN--VVLSKKKADII 379


>gi|319440326|ref|ZP_07989482.1| 30S ribosomal protein S1 [Corynebacterium variabile DSM 44702]
          Length = 486

 Score = 43.9 bits (103), Expect = 0.064,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V++  V++D+G  ++GVI   E          E +  GD V + +    +
Sbjct: 34  GDIVEGTVVKVDHDEVLLDIGYKTEGVIPSRELSIKHDVDPGEVVEIGDEVDALVL--TK 91

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 92  EDKDGRLILS 101


>gi|312131252|ref|YP_003998592.1| ssu ribosomal protein s1p [Leadbetterella byssophila DSM 17132]
 gi|311907798|gb|ADQ18239.1| SSU ribosomal protein S1P [Leadbetterella byssophila DSM 17132]
          Length = 604

 Score = 43.9 bits (103), Expect = 0.064,   Method: Composition-based stats.
 Identities = 30/134 (22%), Positives = 59/134 (44%), Gaps = 10/134 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +K  RD D  + +G  +   +  ++     V  + +V+I+K  E++R + 
Sbjct: 149 EAFLPGSQIDVKPIRDFD--VFVGKRMEVKVVKINHTNDNVVVSHKVLIEKDLESQRQQI 206

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
               +   G+++ G VK +    V +DLG  DG++   +          E L   D++K 
Sbjct: 207 LTNLE--KGQVLEGVVKNITNFGVFIDLGGVDGLLHITDISWGRVNHPNEVLNLDDKIKV 264

Query: 185 YIYDVRREQRGPQV 198
            + D   E++   +
Sbjct: 265 VVLDFDDEKKRISL 278


>gi|307594663|ref|YP_003900980.1| DEAD/DEAH box helicase domain-containing protein [Vulcanisaeta
           distributa DSM 14429]
 gi|307549864|gb|ADN49929.1| DEAD/DEAH box helicase domain protein [Vulcanisaeta distributa DSM
           14429]
          Length = 763

 Score = 43.9 bits (103), Expect = 0.064,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 26/59 (44%)

Query: 356 NERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
           +E  +  +    V    A  L   GF  VE++A      I+ I GF ++ A  I  +AR
Sbjct: 668 DELIELVVNLEGVGRARARALYNAGFKSVEDIANADPRVISMIRGFGDKLARSIIEQAR 726


>gi|242309366|ref|ZP_04808521.1| 30S ribosomal protein S1 [Helicobacter pullorum MIT 98-5489]
 gi|239523937|gb|EEQ63803.1| 30S ribosomal protein S1 [Helicobacter pullorum MIT 98-5489]
          Length = 551

 Score = 43.9 bits (103), Expect = 0.064,   Method: Composition-based stats.
 Identities = 26/102 (25%), Positives = 48/102 (47%), Gaps = 13/102 (12%)

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRE 174
           K +  +K+RE        ++KDK   I+ G V +   G  IV+    +  + +     +E
Sbjct: 92  KAIRREKIREYI-KSLGEDYKDK---IVEGVVVKKNKGGYIVESDAVEFFMPKFAAAFKE 147

Query: 175 -NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHME 215
            N   G R+K+ I +V+ E+    +++SR       +LF +E
Sbjct: 148 GNKNEGKRIKACIINVKPEED--SIVISR------KRLFEIE 181



 Score = 37.4 bits (86), Expect = 6.0,   Method: Composition-based stats.
 Identities = 45/191 (23%), Positives = 77/191 (40%), Gaps = 29/191 (15%)

Query: 32  ADSIQKAARSLYGTMSDIRVE-IN---PETGD-------ISLFRLLEVVEEVEN--YTCQ 78
            DSI  + + L+   ++I+ + I+    + G+       I+ F +   VE VE   +  +
Sbjct: 167 EDSIVISRKRLFEIENNIKKDVIDNLLKQEGNLKGRIKKITSFGMFVDVEGVEGLVHYTE 226

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDF-GRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           IS K   +       G +VS  +   D   R    S K  I    +E E + +       
Sbjct: 227 ISHKGPVNPSKLYKEGDIVSLKVLSYDKEKRRLALSIKDTIEDPWKEVENELE------- 279

Query: 138 VGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDE-------TISRENLRPGDRVKSYIYDV 189
           VG+ I   V  +E   V VDLGN  +G +   E           E L+ G  +   + ++
Sbjct: 280 VGDAIKVVVSNIEPYGVFVDLGNDIEGFLHISEISWNKNIQNPEEFLKTGQEIDVEVIEI 339

Query: 190 RREQRGPQVLL 200
             ++R  +V L
Sbjct: 340 DTKERRLRVSL 350


>gi|170754879|ref|YP_001781355.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding
           domain protein [Clostridium botulinum B1 str. Okra]
 gi|169120091|gb|ACA43927.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase / ribosomal
           protein S1 homolog [Clostridium botulinum B1 str. Okra]
          Length = 638

 Score = 43.9 bits (103), Expect = 0.065,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 56/113 (49%), Gaps = 16/113 (14%)

Query: 96  VVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI 155
           ++ + +  M+     ++ +K  ++  + E E+          VG+++ GT+  +    + 
Sbjct: 267 IIKEAINKMNNNDSIIEVSKNEMLNYMNEKEQQIV-------VGKVVKGTIVSLNENELF 319

Query: 156 VDLG-NSDGVIRRDE------TISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           VDL   S+G+I ++E      +I +E+ + GD +++ I  ++ E     V+LS
Sbjct: 320 VDLNYKSEGIIPKEEVTLDEESILKESFKVGDEIEAKIVRIKNEDG--YVVLS 370



 Score = 43.1 bits (101), Expect = 0.10,   Method: Composition-based stats.
 Identities = 28/148 (18%), Positives = 58/148 (39%), Gaps = 16/148 (10%)

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
           V      I L    D +    +   V+      D  R  +  +++ I++ VR    +  +
Sbjct: 414 VFIPASHIELSHVDDLEAYKGLELEVNIIEFIKDRYRTKIVGSRRNILKTVRNKHIEETW 473

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSY 185
              +     ++ G VKR       +++   DG++   E          + L+ G+++K Y
Sbjct: 474 NSLE--KDTVVEGEVKRFTDFGAFIEINGVDGLLHVSEISWGRVEKPEDALKIGNKIKVY 531

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFH 213
           I D+ +E +  ++ LS      + KL  
Sbjct: 532 ILDIDKENK--KLALS------IKKLIE 551


>gi|108763761|ref|YP_631975.1| 30S ribosomal protein S1 [Myxococcus xanthus DK 1622]
 gi|108467641|gb|ABF92826.1| ribosomal protein S1 [Myxococcus xanthus DK 1622]
          Length = 570

 Score = 43.9 bits (103), Expect = 0.065,   Method: Composition-based stats.
 Identities = 24/125 (19%), Positives = 47/125 (37%), Gaps = 10/125 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ ++  R+ D  I         +   +  R  +  +++V+++K RE  +       
Sbjct: 148 PGSQVDIRPVRNLDQYISK--EFEFKVIKFNKKRGNIVLSRRVLLEKQREEMKKETLKNL 205

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           K   G ++ G VK +      +DLG  DG++   +          E    GD V+  +  
Sbjct: 206 K--EGAVLKGVVKNLTDYGAFIDLGGIDGLLHITDMSWGRIGHPSEMFNVGDEVRVVVLK 263

Query: 189 VRREQ 193
               Q
Sbjct: 264 FDPTQ 268


>gi|313141474|ref|ZP_07803667.1| 30s ribosomal protein s1 [Helicobacter canadensis MIT 98-5491]
 gi|313130505|gb|EFR48122.1| 30s ribosomal protein s1 [Helicobacter canadensis MIT 98-5491]
          Length = 453

 Score = 43.9 bits (103), Expect = 0.066,   Method: Composition-based stats.
 Identities = 26/106 (24%), Positives = 47/106 (44%), Gaps = 21/106 (19%)

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRR-----DE 169
           K +  +K+RE        ++KDK   ++ G V +   G  IV+    +  + +      E
Sbjct: 101 KAIRREKIREYI-KNLGEDYKDK---VVEGVVIKKNKGGYIVEGEGIEFFMPKFAAAFKE 156

Query: 170 TISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHME 215
               E    G R+K+ I +V+ E+    V++SR       +LF +E
Sbjct: 157 GSKNE----GRRIKACIINVKPEED--SVVISR------KRLFEIE 190



 Score = 37.0 bits (85), Expect = 9.1,   Method: Composition-based stats.
 Identities = 35/143 (24%), Positives = 55/143 (38%), Gaps = 18/143 (12%)

Query: 69  VEEVEN--YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRV-AVQSAKQVIIQKVREA 125
           VE VE   +  +IS K   +       G  VS  +   D  +     S K  I    +E 
Sbjct: 224 VEGVEGLVHYTEISHKGPVNPSKLYKEGDKVSVKILSYDKDKKRLALSIKDTIEDPWKEV 283

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDE-------TISRENLR 177
           E + +       VG+ I   V  +E   V VDLGN  +G +   E           E L+
Sbjct: 284 ENELE-------VGDAIKVIVSNIEPYGVFVDLGNDIEGFLHISEISWNKNIQNPEEFLK 336

Query: 178 PGDRVKSYIYDVRREQRGPQVLL 200
            G  +   + ++  ++R  +V L
Sbjct: 337 TGQEIDVEVIEIDTKERRLRVSL 359


>gi|330469194|ref|YP_004406937.1| 30S ribosomal protein S1 [Verrucosispora maris AB-18-032]
 gi|328812165|gb|AEB46337.1| 30S ribosomal protein S1 [Verrucosispora maris AB-18-032]
          Length = 495

 Score = 43.9 bits (103), Expect = 0.066,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V+   V++D+G  ++GVI   E          E +  GD +++ +   ++
Sbjct: 39  GDIVEGTVVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPAEVVSVGDHIEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|291401472|ref|XP_002717082.1| PREDICTED: DNA helicase HEL308 [Oryctolagus cuniculus]
          Length = 1054

 Score = 43.9 bits (103), Expect = 0.066,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 29/71 (40%), Gaps = 1/71 (1%)

Query: 362  FMQAINVDEIIAHLLVAEGFADVEELACVKISEIA-SIEGFDEETAVEIQGRAREYLEGI 420
             M+   V E  A  L   G+  +  LA      +  +I+      A +I   A+  L+  
Sbjct: 966  LMEVTGVQEGRAKQLYNAGYKSLTHLANADPEVLIRTIDHLSRRQAKQIVSSAKMLLQEK 1025

Query: 421  DITLQKKIREL 431
               LQ+++ EL
Sbjct: 1026 AEALQEEVEEL 1036


>gi|32265636|ref|NP_859668.1| 30S ribosomal protein S1 [Helicobacter hepaticus ATCC 51449]
 gi|32261684|gb|AAP76734.1| ribosomal protein S1 [Helicobacter hepaticus ATCC 51449]
          Length = 552

 Score = 43.9 bits (103), Expect = 0.066,   Method: Composition-based stats.
 Identities = 23/113 (20%), Positives = 48/113 (42%), Gaps = 7/113 (6%)

Query: 91  IDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVE 150
            +I   +   + P   GR      K +  +++ E +  +    ++DK   II   V +  
Sbjct: 73  FNINDKIEVFVTPGRGGRPNASYKKALKSKRIVE-KIAQIADNYQDK---IIEAKVIKKN 128

Query: 151 YGNVIVDLGNSDGVIRRDETISRENLR-PGDRVKSYIYDVRREQRGPQVLLSR 202
            G  I++    D  + R ++  RE+ +  G   K  I ++ +E     +++SR
Sbjct: 129 KGGFILEYDGIDVFMPRRDSAIREDDKAIGKIYKVAIVNINKESN--SIIVSR 179


>gi|189502053|ref|YP_001957770.1| 30S ribosomal protein S1 [Candidatus Amoebophilus asiaticus 5a2]
 gi|189497494|gb|ACE06041.1| hypothetical protein Aasi_0644 [Candidatus Amoebophilus asiaticus
           5a2]
          Length = 611

 Score = 43.9 bits (103), Expect = 0.067,   Method: Composition-based stats.
 Identities = 23/73 (31%), Positives = 39/73 (53%), Gaps = 3/73 (4%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
             E+  GTV  +   +VIV++G  SDG+I   E     +++ GD V  Y+ + +   +G 
Sbjct: 42  ESEVAKGTVVGINNRDVIVNIGIKSDGLIPLSEFRDTPDIKVGDEVDVYVEE-QENSKG- 99

Query: 197 QVLLSRTHPQFMV 209
           Q++LSR   + M 
Sbjct: 100 QLVLSRKKAKLMK 112



 Score = 39.3 bits (91), Expect = 1.4,   Method: Composition-based stats.
 Identities = 30/135 (22%), Positives = 55/135 (40%), Gaps = 12/135 (8%)

Query: 71  EVENYTCQISLKVARDRDPSID-IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDR 129
           E      QI +K  RD D  +D +  VV   +  +    +    A   +I++  E ++  
Sbjct: 147 EAFLPGSQIDVKPVRDFDIFLDKVIDVVVIKINHLTDNVIVSHKA---VIERSLENQKTN 203

Query: 130 QYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVK 183
              + +   G+I+ G VK +    V V LG  DG++   +          E L  G ++K
Sbjct: 204 ILSKLE--KGQILEGIVKNMTSFGVFVGLGGIDGLLHITDIAWRRITHPEEVLELGQKIK 261

Query: 184 SYIYDVRREQRGPQV 198
             + D   E++   +
Sbjct: 262 VVVTDFDEERKRISL 276


>gi|225572241|ref|ZP_03781105.1| hypothetical protein RUMHYD_00535 [Blautia hydrogenotrophica DSM
           10507]
 gi|225040303|gb|EEG50549.1| hypothetical protein RUMHYD_00535 [Blautia hydrogenotrophica DSM
           10507]
          Length = 368

 Score = 43.9 bits (103), Expect = 0.069,   Method: Composition-based stats.
 Identities = 33/148 (22%), Positives = 62/148 (41%), Gaps = 18/148 (12%)

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMD-FGRVAVQSAKQVIIQKVREAE 126
           VV+E   +     +    ++D S      +   +   +   R  + + KQ+++     AE
Sbjct: 125 VVDEARVFIPASLVSDTYEKDLSKYADQEIEFLITEFNPKRRRIIGNRKQLLL-----AE 179

Query: 127 RDRQYLEFKDK--VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRP 178
           +  +  E   +  VG+ + G VK V      +DLG +DG++   E         ++  + 
Sbjct: 180 KAEKQKELMARISVGDTVEGVVKNVTDFGAFIDLGGADGLLHISEMSWGRVENPKKVFKV 239

Query: 179 GDRVKSYIYDVRREQRGPQVLLSRTHPQ 206
           GD VK  I D+     G ++ LS   P+
Sbjct: 240 GDTVKVLIKDI----NGDKIALSLKFPE 263


>gi|302868826|ref|YP_003837463.1| RNA binding S1 domain-containing protein [Micromonospora aurantiaca
           ATCC 27029]
 gi|315504704|ref|YP_004083591.1| RNA binding s1 domain protein [Micromonospora sp. L5]
 gi|302571685|gb|ADL47887.1| RNA binding S1 domain protein [Micromonospora aurantiaca ATCC
           27029]
 gi|315411323|gb|ADU09440.1| RNA binding S1 domain protein [Micromonospora sp. L5]
          Length = 494

 Score = 43.9 bits (103), Expect = 0.070,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V+   V++D+G  ++GVI   E          E +  GD +++ +   ++
Sbjct: 39  GDIVEGTVVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPAEVVSVGDHIEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|224417933|ref|ZP_03655939.1| 30S ribosomal protein S1 [Helicobacter canadensis MIT 98-5491]
          Length = 451

 Score = 43.9 bits (103), Expect = 0.070,   Method: Composition-based stats.
 Identities = 26/106 (24%), Positives = 47/106 (44%), Gaps = 21/106 (19%)

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRR-----DE 169
           K +  +K+RE        ++KDK   ++ G V +   G  IV+    +  + +      E
Sbjct: 99  KAIRREKIREYI-KNLGEDYKDK---VVEGVVIKKNKGGYIVEGEGIEFFMPKFAAAFKE 154

Query: 170 TISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHME 215
               E    G R+K+ I +V+ E+    V++SR       +LF +E
Sbjct: 155 GSKNE----GRRIKACIINVKPEED--SVVISR------KRLFEIE 188



 Score = 36.6 bits (84), Expect = 9.2,   Method: Composition-based stats.
 Identities = 35/143 (24%), Positives = 55/143 (38%), Gaps = 18/143 (12%)

Query: 69  VEEVEN--YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRV-AVQSAKQVIIQKVREA 125
           VE VE   +  +IS K   +       G  VS  +   D  +     S K  I    +E 
Sbjct: 222 VEGVEGLVHYTEISHKGPVNPSKLYKEGDKVSVKILSYDKDKKRLALSIKDTIEDPWKEV 281

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDE-------TISRENLR 177
           E + +       VG+ I   V  +E   V VDLGN  +G +   E           E L+
Sbjct: 282 ENELE-------VGDAIKVIVSNIEPYGVFVDLGNDIEGFLHISEISWNKNIQNPEEFLK 334

Query: 178 PGDRVKSYIYDVRREQRGPQVLL 200
            G  +   + ++  ++R  +V L
Sbjct: 335 TGQEIDVEVIEIDTKERRLRVSL 357


>gi|330685657|gb|EGG97298.1| polyribonucleotide nucleotidyltransferase [Staphylococcus
           epidermidis VCU121]
          Length = 699

 Score = 43.9 bits (103), Expect = 0.071,   Method: Composition-based stats.
 Identities = 33/178 (18%), Positives = 69/178 (38%), Gaps = 22/178 (12%)

Query: 29  SVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD-R 87
            V+ +++++A +     M  +   I+    ++S +    V       T  I  +  RD  
Sbjct: 521 EVIEEALEQARQGRLAIMDHMLQTIDQPRNELSAYAPKVV-------TMNIKPEKIRDVI 573

Query: 88  DPSI----DIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIIS 143
            P      +I       L     G++ + +  Q +I + RE   +        +VG++ +
Sbjct: 574 GPGGKKINEIIDETGVKLDIEQDGQIFIGAVDQEMIDRAREIIEEITRE---AEVGQVYN 630

Query: 144 GTVKRVEYGNVIVDLGNSDGVIRRDETISREN-------LRPGDRVKSYIYDVRREQR 194
             VKR+E     V+L      +     IS E        L+ GD ++  + ++ ++ R
Sbjct: 631 AKVKRIEKYGAFVELFPGKDALLHISQISTERINKVEDVLKLGDSIEVKVTEIDKQGR 688


>gi|238060171|ref|ZP_04604880.1| 30S ribosomal protein S1 [Micromonospora sp. ATCC 39149]
 gi|237881982|gb|EEP70810.1| 30S ribosomal protein S1 [Micromonospora sp. ATCC 39149]
          Length = 497

 Score = 43.9 bits (103), Expect = 0.072,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V+   V++D+G  ++GVI   E          E +  GD +++ +   ++
Sbjct: 39  GDIVEGTVVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPAEVVSVGDHIEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|303241879|ref|ZP_07328373.1| hydroxymethylbutenyl pyrophosphate reductase [Acetivibrio
           cellulolyticus CD2]
 gi|302590553|gb|EFL60307.1| hydroxymethylbutenyl pyrophosphate reductase [Acetivibrio
           cellulolyticus CD2]
          Length = 685

 Score = 43.9 bits (103), Expect = 0.073,   Method: Composition-based stats.
 Identities = 41/195 (21%), Positives = 76/195 (38%), Gaps = 54/195 (27%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDET-------ISRENLRPGDRVKSYIYD 188
           + G++++G V       + VDLG  SDG+I  +E        I  E ++ GD+++ Y+  
Sbjct: 307 RDGDVVTGKVIGFNSNEIFVDLGYKSDGIIPIEEYTDEPDFKIESE-IKVGDKIEVYVKR 365

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           V   +    VLLS+ H   +      E+ + Y     ++A+                  +
Sbjct: 366 VNDGEGN--VLLSKKHLDSLKSW--DEIIKAYEDKTPIRAIV-----------------V 404

Query: 249 DPV--GACVGMRGSRV--------QAVVTELRDE------KIDIVVWSPDSATFVINALR 292
           D V  G     +G R+           V EL  E       + I+ ++      V +A  
Sbjct: 405 DVVNGGVIASAKGVRIFVPASQISDKFVKELN-EFLKKPINVRIIEYNDKKRKLVGSA-- 461

Query: 293 PAIVTKVVLDEDVGR 307
                +V+L+E+  +
Sbjct: 462 -----RVLLEEEKAK 471



 Score = 39.3 bits (91), Expect = 1.5,   Method: Composition-based stats.
 Identities = 35/132 (26%), Positives = 59/132 (44%), Gaps = 14/132 (10%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              QIS K  ++ +  +     V   +   D  R  V SA+      + E E+ ++   F
Sbjct: 423 PASQISDKFVKELNEFLKKPINVRI-IEYNDKKRKLVGSAR-----VLLEEEKAKKSKAF 476

Query: 135 KDKV--GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYI 186
            D+V  G+I SG VK +    V VD+G  DG+I   E          E ++ GD+V+  I
Sbjct: 477 WDEVEVGKIYSGVVKSLTDFGVFVDIGGVDGLIHISELSWSRIKHPSEVVKVGDKVQVSI 536

Query: 187 YDVRREQRGPQV 198
            + ++E+    +
Sbjct: 537 LEFKKEKGKISL 548


>gi|330813567|ref|YP_004357806.1| SSU ribosomal protein S1p [Candidatus Pelagibacter sp. IMCC9063]
 gi|327486662|gb|AEA81067.1| SSU ribosomal protein S1p [Candidatus Pelagibacter sp. IMCC9063]
          Length = 565

 Score = 43.9 bits (103), Expect = 0.075,   Method: Composition-based stats.
 Identities = 30/127 (23%), Positives = 58/127 (45%), Gaps = 10/127 (7%)

Query: 81  LKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGE 140
           L     + PS  I   +   +  +D  R+ V S+++ I+++V+   +D+   ++K  + +
Sbjct: 146 LSDRPIKSPSEFINKPLEFYIIKIDNVRMNVISSRRAILEEVKNQNKDQVISKYK--LND 203

Query: 141 IISGTVKRVEYGNVIVDLGNSDGVIRRDETIS------RENLRPGDRVKSYIYDVRREQR 194
           I+ G VK +    + V + N D ++   E          E    GD VK  I D+  E +
Sbjct: 204 IVEGNVKAITSYGLFVSIENLDCLLHSSEVSHLKISNLNEMFSVGDTVKVQIIDIDLETK 263

Query: 195 GPQVLLS 201
             ++ LS
Sbjct: 264 --RISLS 268


>gi|317505519|ref|ZP_07963437.1| 30S ribosomal protein S1 [Prevotella salivae DSM 15606]
 gi|315663432|gb|EFV03181.1| 30S ribosomal protein S1 [Prevotella salivae DSM 15606]
          Length = 593

 Score = 43.9 bits (103), Expect = 0.075,   Method: Composition-based stats.
 Identities = 24/83 (28%), Positives = 47/83 (56%), Gaps = 5/83 (6%)

Query: 122 VREAERDRQYLEFKDK--VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           V + + ++ Y E  +K    +++ GTV  ++   V+V++G  SDG+I   E     +L+ 
Sbjct: 26  VSKQDLEKAYDETLNKIQEHQVVEGTVIALDKKEVVVNIGYKSDGIIPASEFRYNPDLKV 85

Query: 179 GDRVKSYIYDVRREQRGPQVLLS 201
           GD+V+ Y+    +E +  Q++LS
Sbjct: 86  GDKVEVYVE--NQEDKKGQLVLS 106


>gi|225444585|ref|XP_002273803.1| PREDICTED: hypothetical protein [Vitis vinifera]
 gi|297738498|emb|CBI27743.3| unnamed protein product [Vitis vinifera]
          Length = 337

 Score = 43.9 bits (103), Expect = 0.075,   Method: Composition-based stats.
 Identities = 13/77 (16%), Positives = 27/77 (35%), Gaps = 5/77 (6%)

Query: 344 EEEDSINRQKDFNERTQ-----FFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASI 398
           E++      ++  +          +QA  +  +    L   G   VE +A     ++  I
Sbjct: 2   EQQKMAQAHEEVEDMQHGPFPVEHLQASGIASLDIKKLKDAGLCTVESVAYSPRKDLLQI 61

Query: 399 EGFDEETAVEIQGRARE 415
           +G  E    +I   A +
Sbjct: 62  KGISEAKVDKIVEAASK 78


>gi|289581819|ref|YP_003480285.1| NusA family KH domain protein [Natrialba magadii ATCC 43099]
 gi|289531372|gb|ADD05723.1| NusA family KH domain protein [Natrialba magadii ATCC 43099]
          Length = 166

 Score = 43.5 bits (102), Expect = 0.075,   Method: Composition-based stats.
 Identities = 25/95 (26%), Positives = 38/95 (40%), Gaps = 10/95 (10%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDI----VVWSPDSATFVINALRPAIVTKVVLDEDVGR 307
           G  +G  G  ++         ++D+    V  + D  TFV N L PA V  V + E+   
Sbjct: 71  GEAIGPEGRTIKRFED-----RVDLPVRLVENAADPETFVANTLAPAAVYNVTISENNDT 125

Query: 308 -IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI 341
              V V      +AIG  G+ +  A  L     +I
Sbjct: 126 VAYVEVADADRGIAIGSNGRTIEAARTLAQRHFEI 160


>gi|124485461|ref|YP_001030077.1| DNA repair and recombination protein RadA [Methanocorpusculum
           labreanum Z]
 gi|226736607|sp|A2SR54|RADA_METLZ RecName: Full=DNA repair and recombination protein radA
 gi|124363002|gb|ABN06810.1| DNA repair and recombination protein RadA [Methanocorpusculum
           labreanum Z]
          Length = 329

 Score = 43.5 bits (102), Expect = 0.075,   Method: Composition-based stats.
 Identities = 17/59 (28%), Positives = 26/59 (44%), Gaps = 6/59 (10%)

Query: 363 MQAINVDEI------IAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           M A++++EI       A  L   G+  VE +A     ++A      E T  +I   ARE
Sbjct: 1   MTALDIEEIPGVGPATADRLRDAGYITVESIATATPVDLAEAAELGESTTKKIIKAARE 59


>gi|296214172|ref|XP_002807247.1| PREDICTED: LOW QUALITY PROTEIN: DNA repair protein RAD51 homolog
           1-like [Callithrix jacchus]
          Length = 339

 Score = 43.5 bits (102), Expect = 0.076,   Method: Composition-based stats.
 Identities = 14/64 (21%), Positives = 27/64 (42%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
           D+   ++ F  +    ++   ++      L   GF  VE +A     E+ +I+G  E  A
Sbjct: 12  DTSVEEESFGPQPVSRLEQCGINANDVKKLEEAGFHTVEAVAYAPKKELINIKGISEAKA 71

Query: 407 VEIQ 410
            +I 
Sbjct: 72  DKIL 75


>gi|167769904|ref|ZP_02441957.1| hypothetical protein ANACOL_01245 [Anaerotruncus colihominis DSM
           17241]
 gi|167667895|gb|EDS12025.1| hypothetical protein ANACOL_01245 [Anaerotruncus colihominis DSM
           17241]
          Length = 310

 Score = 43.5 bits (102), Expect = 0.076,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 39/101 (38%), Gaps = 14/101 (13%)

Query: 117 VIIQKVREAERDRQYLEFKDKV--GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI--- 171
           VI Q  R A +      +  K+  G++I   V  +E     VD+G     +   + I   
Sbjct: 102 VIPQLSRRAVQQECQDTYISKLVPGDVIDAKVTHLESFGCFVDIGCGLPSLIPIDAISVS 161

Query: 172 ----SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFM 208
                R+   P   +K+ +  V  + R     +S TH + +
Sbjct: 162 RIAHPRDRFTPAQDIKAVVKAVEPDGR-----VSLTHKELL 197


>gi|219848025|ref|YP_002462458.1| RNA binding S1 domain-containing protein [Chloroflexus aggregans
           DSM 9485]
 gi|219542284|gb|ACL24022.1| RNA binding S1 domain protein [Chloroflexus aggregans DSM 9485]
          Length = 397

 Score = 43.5 bits (102), Expect = 0.077,   Method: Composition-based stats.
 Identities = 27/120 (22%), Positives = 53/120 (44%), Gaps = 8/120 (6%)

Query: 80  SLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVG 139
           +    R       I   +   +  +D  R  +  +++   Q+ R+A++ R   E +   G
Sbjct: 157 TAADERQYALQKMINQEIPLKVIEVDRERNRLVLSERAATQEWRKAQKHRLLTELQP--G 214

Query: 140 EIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           +++ G V ++      +DLG +DG+    E         RE L+PG  VK  + ++ RE+
Sbjct: 215 DVLVGKVNQLTNFGAFIDLGGADGLAHISELSWQRVNHPREVLQPGQEVKVVVVEIDRER 274


>gi|559914|emb|CAA86365.1| 30S ribosomal protein S1 [Mycobacterium leprae]
          Length = 482

 Score = 43.5 bits (102), Expect = 0.077,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 36  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPARELSIKHDVDPNEVVSVGDEVEALVL--TK 93

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 94  EDKEGRLILS 103


>gi|325674222|ref|ZP_08153911.1| 30S ribosomal protein S1 [Rhodococcus equi ATCC 33707]
 gi|325554902|gb|EGD24575.1| 30S ribosomal protein S1 [Rhodococcus equi ATCC 33707]
          Length = 528

 Score = 43.5 bits (102), Expect = 0.077,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 74  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVSVGDEVEALVL--TK 131

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 132 EDKEGRLILS 141


>gi|134299017|ref|YP_001112513.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding
           domain-containing protein [Desulfotomaculum reducens
           MI-1]
 gi|134051717|gb|ABO49688.1| hydroxymethylbutenyl pyrophosphate reductase [Desulfotomaculum
           reducens MI-1]
          Length = 672

 Score = 43.5 bits (102), Expect = 0.079,   Method: Composition-based stats.
 Identities = 20/107 (18%), Positives = 46/107 (42%), Gaps = 8/107 (7%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG 152
           +       +  M+  R  V  +++ ++++    +R+        + G+I+ G V+R+   
Sbjct: 427 LNQEFEVRVIEMNKQRKKVVVSRKAVLEEQNARKREELLASL--QEGQIVKGIVRRITNF 484

Query: 153 NVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
              VDLG  DG++   E         +E ++ GD ++  +  V  + 
Sbjct: 485 GAFVDLGGLDGLLHISEMSWHRINHPQEVVKVGDELEVMVLKVDTQN 531



 Score = 40.4 bits (94), Expect = 0.69,   Method: Composition-based stats.
 Identities = 24/103 (23%), Positives = 45/103 (43%), Gaps = 15/103 (14%)

Query: 139 GEIISGTVKRVEYGNVIVDL-GNSDGVIRRDET------ISRENLRPGDRVKSYIYDVRR 191
           GE++ G V +V    V+VD+   S+GVI R E         +E ++ GD ++  +     
Sbjct: 298 GELVKGIVVQVGMDEVLVDIRAKSEGVIPRKEMAFYGVDNLQEIVKVGDEIECVVIKAED 357

Query: 192 EQRGPQVLLS--RTHPQFMVKLFHMEVPEIYNGIVQVKAVSRD 232
            +   +++LS  R   +            +  G + +K V R+
Sbjct: 358 NEG--KIILSKERADAEKAWDGLEE---AMEQGTI-IKGVVRE 394


>gi|311895436|dbj|BAJ27844.1| putative ribosomal protein S1 [Kitasatospora setae KM-6054]
          Length = 496

 Score = 43.5 bits (102), Expect = 0.080,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E ++ GD +++ +   ++
Sbjct: 40  GDIVEGIIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPHEVVKVGDEIEALVL--QK 97

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 98  EDKEGRLILS 107


>gi|281357105|ref|ZP_06243595.1| ribosomal protein S1 [Victivallis vadensis ATCC BAA-548]
 gi|281316663|gb|EFB00687.1| ribosomal protein S1 [Victivallis vadensis ATCC BAA-548]
          Length = 607

 Score = 43.5 bits (102), Expect = 0.081,   Method: Composition-based stats.
 Identities = 13/64 (20%), Positives = 30/64 (46%), Gaps = 1/64 (1%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
            G+I+ G +        +VD+G  ++G +   E +  +    GD++  Y+ ++      P
Sbjct: 64  KGKIVEGKIVAKRPDGALVDIGYKAEGFVPASEFLKFDEANIGDKIDVYLEEIENRNNMP 123

Query: 197 QVLL 200
           ++ L
Sbjct: 124 EISL 127



 Score = 40.4 bits (94), Expect = 0.67,   Method: Composition-based stats.
 Identities = 21/118 (17%), Positives = 49/118 (41%), Gaps = 12/118 (10%)

Query: 86  DRDPSIDIGGVVSDPLPPM----DFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEI 141
           D  P  ++   +           +  R  +  +++ ++++  + +R +   E K  V E+
Sbjct: 178 DVGPVHNMDDYIGKEFDVKIIKINLDRRNIVVSRRELLEETLKDQRSKLLGEMK--VDEL 235

Query: 142 ISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
             G VK +      +DLG  DG++   +          E L+ G+ ++  I  + +E+
Sbjct: 236 RKGVVKNITDFGAFIDLGGVDGLLHITDISWGRISHPSEVLKVGEEIEVVIIGIDKEK 293


>gi|238916861|ref|YP_002930378.1| small subunit ribosomal protein S1 [Eubacterium eligens ATCC 27750]
 gi|238872221|gb|ACR71931.1| small subunit ribosomal protein S1 [Eubacterium eligens ATCC 27750]
          Length = 355

 Score = 43.5 bits (102), Expect = 0.081,   Method: Composition-based stats.
 Identities = 23/77 (29%), Positives = 36/77 (46%), Gaps = 10/77 (12%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
           K G+ I GTVK V      +DLG  DG++   E         ++  + GD VK +I ++ 
Sbjct: 184 KEGDTIEGTVKNVTDFGAFIDLGGVDGLLHISEMSWGRTENPKKVYKIGDSVKCFIKEI- 242

Query: 191 REQRGPQVLLSRTHPQF 207
               G ++ LS  +P  
Sbjct: 243 ---NGDKIALSVKYPDL 256


>gi|237785408|ref|YP_002906113.1| 30S ribosomal protein S1 [Corynebacterium kroppenstedtii DSM 44385]
 gi|237758320|gb|ACR17570.1| 30S ribosomal protein S1 [Corynebacterium kroppenstedtii DSM 44385]
          Length = 488

 Score = 43.5 bits (102), Expect = 0.081,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV ++++  V++D+G  ++GVI   E          E +  GD + + +    +
Sbjct: 34  GDIVEGTVVKIDHDEVLLDIGYKTEGVIPSRELSIKHEIDPNEVVEVGDEIDALVL--TK 91

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 92  EDKEGRLILS 101


>gi|45384012|ref|NP_990504.1| DNA repair protein RAD51 homolog 1 [Gallus gallus]
 gi|585770|sp|P37383|RAD51_CHICK RecName: Full=DNA repair protein RAD51 homolog 1
 gi|299819|gb|AAB26354.1| homolog to S.cerevisiae [Gallus gallus]
          Length = 339

 Score = 43.5 bits (102), Expect = 0.081,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 28/71 (39%), Gaps = 5/71 (7%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
           T  E+     +  +   Q  + A +V       L   G+  VE +A     E+ +I+G  
Sbjct: 13  TSAEEESFGPEPISRLEQCGINANDV-----KKLEEAGYHTVESVAHAPKKELLNIKGIS 67

Query: 403 EETAVEIQGRA 413
           E  A +I   A
Sbjct: 68  EAKADKILAEA 78


>gi|148263726|ref|YP_001230432.1| phosphotransferase domain-containing protein [Geobacter
           uraniireducens Rf4]
 gi|146397226|gb|ABQ25859.1| PHP C-terminal domain protein [Geobacter uraniireducens Rf4]
          Length = 577

 Score = 43.5 bits (102), Expect = 0.081,   Method: Composition-based stats.
 Identities = 30/126 (23%), Positives = 49/126 (38%), Gaps = 22/126 (17%)

Query: 356 NERTQFFMQAINVDEIIAH-----------LLVAEGFA-DVEELACVKISEIASIEGFDE 403
            E  + F +  ++ EI               L  EG +  VE+L      E+  I G  E
Sbjct: 4   QEIARIFSEMADILEIKGDNPFKIRAYRRAALNIEGLSRSVEDL---SRDELLEIPGIGE 60

Query: 404 ETAVEIQGRAREYLEGIDITLQKKIRELGVSE--ELCSIPGIDSKIKVALGE-NGIKTME 460
           E A +I     EY+    I    K++    S    L ++PG+  K    + E   I +++
Sbjct: 61  ELAAKI----EEYIGTGAIHAHDKLKGEIPSGLLSLLAVPGLGPKTARQIFEQRHIASID 116

Query: 461 DLAGCS 466
           DL   +
Sbjct: 117 DLERAA 122


>gi|159038909|ref|YP_001538162.1| 30S ribosomal protein S1 [Salinispora arenicola CNS-205]
 gi|157917744|gb|ABV99171.1| RNA binding S1 domain protein [Salinispora arenicola CNS-205]
          Length = 493

 Score = 43.5 bits (102), Expect = 0.081,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V+   V++D+G  ++GVI   E          E +  GD +++ +   ++
Sbjct: 39  GDIVEGTVVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPAEVVSVGDHIEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|6755276|ref|NP_035364.1| DNA repair protein RAD51 homolog 1 [Mus musculus]
 gi|585772|sp|Q08297|RAD51_MOUSE RecName: Full=DNA repair protein RAD51 homolog 1; AltName:
           Full=RAD51 homolog A
 gi|397831|dbj|BAA02961.1| MmRad51 [Mus musculus]
 gi|407349|dbj|BAA02718.1| Rad51 protein [Mus musculus]
 gi|12847236|dbj|BAB27489.1| unnamed protein product [Mus musculus]
 gi|20073272|gb|AAH27384.1| RAD51 homolog (S. cerevisiae) [Mus musculus]
 gi|26345412|dbj|BAC36357.1| unnamed protein product [Mus musculus]
 gi|74185375|dbj|BAE30162.1| unnamed protein product [Mus musculus]
 gi|74185412|dbj|BAE30179.1| unnamed protein product [Mus musculus]
 gi|126540733|emb|CAM45951.1| RAD51 homolog (S. cerevisiae) [Mus musculus]
 gi|148695989|gb|EDL27936.1| RAD51 homolog (S. cerevisiae), isoform CRA_b [Mus musculus]
 gi|1093114|prf||2102359A RAD51-like protein
          Length = 339

 Score = 43.5 bits (102), Expect = 0.081,   Method: Composition-based stats.
 Identities = 14/67 (20%), Positives = 28/67 (41%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
           D+   ++ F  +    ++   ++      L   G+  VE +A     E+ +I+G  E  A
Sbjct: 12  DTSVEEESFGPQPISRLEQCGINANDVKKLEEAGYHTVEAVAYAPKKELINIKGISEAKA 71

Query: 407 VEIQGRA 413
            +I   A
Sbjct: 72  DKILTEA 78


>gi|269836527|ref|YP_003318755.1| RNA binding S1 domain-containing protein [Sphaerobacter
           thermophilus DSM 20745]
 gi|269785790|gb|ACZ37933.1| RNA binding S1 domain protein [Sphaerobacter thermophilus DSM
           20745]
          Length = 459

 Score = 43.5 bits (102), Expect = 0.082,   Method: Composition-based stats.
 Identities = 29/132 (21%), Positives = 55/132 (41%), Gaps = 10/132 (7%)

Query: 101 LPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN 160
           +         + S +Q I ++ R+  ++R   E     GE   G V  +      VD+G 
Sbjct: 193 IEINRHRNRLILSERQAIQER-RDVMKERLIEELT--EGETRRGRVTSITDFGAFVDIGG 249

Query: 161 SDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKL-FH 213
           +DG++   E          E L+ G+ V  Y+  +  E++   + + RT P+   ++   
Sbjct: 250 ADGLVHLSELSWSRVKHPSEVLKVGEEVDVYVLGINAEEKKIALSIKRTQPEPWSRVAMK 309

Query: 214 MEVPEIYNGIVQ 225
            EV ++  G V 
Sbjct: 310 YEVGQLVLGTVT 321


>gi|83590843|ref|YP_430852.1| DNA ligase, NAD-dependent [Moorella thermoacetica ATCC 39073]
 gi|123739230|sp|Q2RGY0|DNLJ_MOOTA RecName: Full=DNA ligase; AltName: Full=Polydeoxyribonucleotide
           synthase [NAD+]
 gi|83573757|gb|ABC20309.1| DNA ligase, NAD-dependent [Moorella thermoacetica ATCC 39073]
          Length = 666

 Score = 43.5 bits (102), Expect = 0.082,   Method: Composition-based stats.
 Identities = 18/106 (16%), Positives = 39/106 (36%), Gaps = 22/106 (20%)

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           NV +  A +L    F  +++LA   + E+ ++       A  I+     + E  +  + +
Sbjct: 517 NVGQRAARVLADH-FGSLDKLAAATVEELTALPDIGPRIAENIRE---FFGEPRNRAVLE 572

Query: 427 KIRELGVSEELCS------------------IPGIDSKIKVALGEN 454
           K+++ GV  E  +                  +PG+  +    L   
Sbjct: 573 KLKKAGVRLEALNAAAPAGPLTGKVFVLTGTLPGMTRQEAEELITR 618


>gi|297559937|ref|YP_003678911.1| RNA binding S1 domain protein [Nocardiopsis dassonvillei subsp.
           dassonvillei DSM 43111]
 gi|296844385|gb|ADH66405.1| RNA binding S1 domain protein [Nocardiopsis dassonvillei subsp.
           dassonvillei DSM 43111]
          Length = 496

 Score = 43.5 bits (102), Expect = 0.083,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 40/70 (57%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD+V++ +   ++
Sbjct: 38  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPGEVVAVGDQVEALVL--QK 95

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 96  EDKEGRLILS 105


>gi|289581501|ref|YP_003479967.1| DNA repair and recombination protein RadA [Natrialba magadii ATCC
           43099]
 gi|289531054|gb|ADD05405.1| DNA repair and recombination protein RadA [Natrialba magadii ATCC
           43099]
          Length = 343

 Score = 43.5 bits (102), Expect = 0.083,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 22/57 (38%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
                 V    A  L   GF   + LA    SE+++     E TA +I   AR+  +
Sbjct: 6   LETLPGVGPATADKLHDAGFDSFQSLAVASPSELSNTADVGESTAADIVNAARDAAD 62


>gi|219851102|ref|YP_002465534.1| NusA family KH domain protein [Methanosphaerula palustris E1-9c]
 gi|219545361|gb|ACL15811.1| NusA family KH domain protein [Methanosphaerula palustris E1-9c]
          Length = 147

 Score = 43.5 bits (102), Expect = 0.083,   Method: Composition-based stats.
 Identities = 21/78 (26%), Positives = 44/78 (56%), Gaps = 2/78 (2%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI 311
           G  +G +G  ++ +   L   ++++V +     TF+ N +RPA + ++  D + G++ ++
Sbjct: 46  GLAIGKKGENIRRLQKVL-GRRLEMVEYDEAPFTFLSNIVRPAEIARLDEDGEGGQVNLL 104

Query: 312 VPKE-QLSLAIGRRGQNV 328
           V +   L +AIG+ G NV
Sbjct: 105 VRRRSDLGIAIGKGGCNV 122


>gi|307596612|ref|YP_003902929.1| DNA repair and recombination protein RadA [Vulcanisaeta distributa
           DSM 14429]
 gi|307551813|gb|ADN51878.1| DNA repair and recombination protein RadA [Vulcanisaeta distributa
           DSM 14429]
          Length = 388

 Score = 43.5 bits (102), Expect = 0.085,   Method: Composition-based stats.
 Identities = 13/54 (24%), Positives = 25/54 (46%), Gaps = 1/54 (1%)

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
           +   V  + A  L   G+    ++A   + E+A I G  E+ A +I   A++ +
Sbjct: 84  EIEGVGRVTAQKLREAGYNTARDVAFASVKELAEILG-SEDRAKQIIAAAQKLI 136


>gi|239636247|ref|ZP_04677249.1| polyribonucleotide nucleotidyltransferase [Staphylococcus warneri
           L37603]
 gi|239597602|gb|EEQ80097.1| polyribonucleotide nucleotidyltransferase [Staphylococcus warneri
           L37603]
          Length = 598

 Score = 43.5 bits (102), Expect = 0.085,   Method: Composition-based stats.
 Identities = 33/178 (18%), Positives = 69/178 (38%), Gaps = 22/178 (12%)

Query: 29  SVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD-R 87
            V+ +++++A +     M  +   I+    ++S +    V       T  I  +  RD  
Sbjct: 420 EVIEEALEQARQGRLAIMDHMLQTIDQPRNELSAYAPKVV-------TMNIKPEKIRDVI 472

Query: 88  DPSI----DIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIIS 143
            P      +I       L     G++ + +  Q +I + RE   +        +VG++ +
Sbjct: 473 GPGGKKINEIIDETGVKLDIEQDGQIFIGAVDQEMINRAREIIEEITRE---AEVGQVYN 529

Query: 144 GTVKRVEYGNVIVDLGNSDGVIRRDETISREN-------LRPGDRVKSYIYDVRREQR 194
             VKR+E     V+L      +     IS E        L+ GD ++  + ++ ++ R
Sbjct: 530 AKVKRIEKYGAFVELFPGKDALLHISQISTERINKVEDVLKLGDSIEVKVTEIDKQGR 587


>gi|87123920|ref|ZP_01079770.1| 30S ribosomal protein S1-like B, putative [Synechococcus sp.
           RS9917]
 gi|86168489|gb|EAQ69746.1| 30S ribosomal protein S1-like B, putative [Synechococcus sp.
           RS9917]
          Length = 432

 Score = 43.5 bits (102), Expect = 0.085,   Method: Composition-based stats.
 Identities = 22/91 (24%), Positives = 36/91 (39%), Gaps = 4/91 (4%)

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR--PGDRVKSYIYDVRREQ 193
           +K G+++  T+     G V  DL    G I R      EN     G  +     +V  E 
Sbjct: 244 EKQGKVVQVTISGFNRGGVTCDLEGLRGFIPRSHLQDGENHEALVGKTLGVAFLEVNAET 303

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           R  +++LS        +   +EV ++  G V
Sbjct: 304 R--KLVLSEKRAATAARFAELEVGQLVEGTV 332



 Score = 37.0 bits (85), Expect = 7.9,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 27/57 (47%), Gaps = 7/57 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDL-GNSDGVIRRDE------TISRENLRPGDRVKSYIYD 188
           GE+++GTV  +E   V VD+ G + G + + E      T  +E    G  V+  +  
Sbjct: 160 GEVVTGTVIGLESDGVYVDIGGKAPGFMPKSECGLGVITNLKERFPKGLEVEVLVTR 216


>gi|326918720|ref|XP_003205636.1| PREDICTED: helicase POLQ-like [Meleagris gallopavo]
          Length = 1028

 Score = 43.5 bits (102), Expect = 0.085,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 27/71 (38%), Gaps = 1/71 (1%)

Query: 362  FMQAINVDEIIAHLLVAEGFADVEELACVKISEIAS-IEGFDEETAVEIQGRAREYLEGI 420
             M+   V E  A  L   G+  +  LA      +   IE      A ++   A+  L   
Sbjct: 950  LMEVAGVLEARAKQLYNAGYKTLAHLANANPETLVKTIEHLSRRQAKQMVSSAKMLLTEK 1009

Query: 421  DITLQKKIREL 431
               LQ+++ EL
Sbjct: 1010 AEALQEEVEEL 1020


>gi|253827272|ref|ZP_04870157.1| 30S ribosomal protein S1 [Helicobacter canadensis MIT 98-5491]
 gi|253510678|gb|EES89337.1| 30S ribosomal protein S1 [Helicobacter canadensis MIT 98-5491]
          Length = 558

 Score = 43.5 bits (102), Expect = 0.085,   Method: Composition-based stats.
 Identities = 26/106 (24%), Positives = 47/106 (44%), Gaps = 21/106 (19%)

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRR-----DE 169
           K +  +K+RE        ++KDK   ++ G V +   G  IV+    +  + +      E
Sbjct: 99  KAIRREKIREYI-KNLGEDYKDK---VVEGVVIKKNKGGYIVEGEGIEFFMPKFAAAFKE 154

Query: 170 TISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHME 215
               E    G R+K+ I +V+ E+    V++SR       +LF +E
Sbjct: 155 GSKNE----GRRIKACIINVKPEED--SVVISR------KRLFEIE 188


>gi|288924793|ref|ZP_06418730.1| ribosomal protein S1 [Prevotella buccae D17]
 gi|315607811|ref|ZP_07882804.1| 30S ribosomal protein S1 [Prevotella buccae ATCC 33574]
 gi|288338580|gb|EFC76929.1| ribosomal protein S1 [Prevotella buccae D17]
 gi|315250280|gb|EFU30276.1| 30S ribosomal protein S1 [Prevotella buccae ATCC 33574]
          Length = 592

 Score = 43.5 bits (102), Expect = 0.086,   Method: Composition-based stats.
 Identities = 24/82 (29%), Positives = 42/82 (51%), Gaps = 5/82 (6%)

Query: 131 YLEFKDK--VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIY 187
           Y E  +K    +++ GTV  V+   V+V++G  SDG+I   E      L+ GD+V+ Y+ 
Sbjct: 35  YDETLNKISENQVVEGTVISVDKKEVVVNIGYKSDGIIPASEFRYNPELKVGDKVEVYVE 94

Query: 188 DVRREQRGPQVLLSRTHPQFMV 209
              +E +  Q++LS    +   
Sbjct: 95  --NQEDKKGQLVLSHKKARLSK 114



 Score = 37.0 bits (85), Expect = 7.8,   Method: Composition-based stats.
 Identities = 30/130 (23%), Positives = 54/130 (41%), Gaps = 10/130 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +   RD D  + +G  +   +  ++     V  + + +I+   EA+R   
Sbjct: 149 EAFLPGSQIDVHPIRDYD--VFVGKTMEFKVVKINQEFRNVVVSHKALIEAELEAQRKEI 206

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
             + +   G+I+ GTVK +    V VDLG  DG+I   +          E +    ++  
Sbjct: 207 ISKLE--KGQILEGTVKNITSYGVFVDLGGVDGLIHITDLSWGRVSDPHEVVALDQKINV 264

Query: 185 YIYDVRREQR 194
            I D   E++
Sbjct: 265 VILDFDEEKK 274


>gi|282859452|ref|ZP_06268557.1| 30S ribosomal protein S1 [Prevotella bivia JCVIHMP010]
 gi|282587680|gb|EFB92880.1| 30S ribosomal protein S1 [Prevotella bivia JCVIHMP010]
          Length = 589

 Score = 43.5 bits (102), Expect = 0.086,   Method: Composition-based stats.
 Identities = 23/66 (34%), Positives = 40/66 (60%), Gaps = 3/66 (4%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           +  +++ GTV  V+   VIV++G  SDG+I   E      L+ GD+V+ Y+   + ++RG
Sbjct: 43  QENQVVEGTVISVDKKEVIVNIGYKSDGIIPASEFRYNPELKAGDKVEVYVES-QEDKRG 101

Query: 196 PQVLLS 201
            Q++LS
Sbjct: 102 -QLVLS 106



 Score = 38.1 bits (88), Expect = 3.6,   Method: Composition-based stats.
 Identities = 30/130 (23%), Positives = 55/130 (42%), Gaps = 10/130 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +   RD D  + +G  +   +  ++     V  + + +I+   EA+R   
Sbjct: 149 EAFLPGSQIDVHPIRDYD--VFVGKTMEFKVVKINQEFRNVVVSHKALIEAELEAQRKEI 206

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
               +   G+I+ GTVK +    V +DLG  DG+I   +          E +   +++K 
Sbjct: 207 ISHLE--KGQILEGTVKNITTYGVFIDLGGVDGLIHITDLSWGRVSDPHEVVTLDEKIKV 264

Query: 185 YIYDVRREQR 194
            I D   E++
Sbjct: 265 VILDFDEEKK 274


>gi|326919838|ref|XP_003206184.1| PREDICTED: DNA repair protein RAD51 homolog 1-like [Meleagris
           gallopavo]
          Length = 339

 Score = 43.5 bits (102), Expect = 0.087,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 28/71 (39%), Gaps = 5/71 (7%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
           T  E+     +  +   Q  + A +V       L   G+  VE +A     E+ +I+G  
Sbjct: 13  TSAEEESFGPEPISRLEQCGINANDV-----KKLEEAGYHTVESVAHAPKKELLNIKGIS 67

Query: 403 EETAVEIQGRA 413
           E  A +I   A
Sbjct: 68  EAKADKILAEA 78


>gi|309810340|ref|ZP_07704176.1| putative ribosomal protein S1 [Dermacoccus sp. Ellin185]
 gi|308435705|gb|EFP59501.1| putative ribosomal protein S1 [Dermacoccus sp. Ellin185]
          Length = 499

 Score = 43.5 bits (102), Expect = 0.087,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E ++ GD V++ +   ++
Sbjct: 34  GDIVEGVIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPGEVVKVGDDVEALVL--QK 91

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 92  EDKEGRLILS 101


>gi|37931470|gb|AAP13463.1| Rad51p [Kluyveromyces lactis]
          Length = 369

 Score = 43.5 bits (102), Expect = 0.087,   Method: Composition-based stats.
 Identities = 12/79 (15%), Positives = 27/79 (34%), Gaps = 5/79 (6%)

Query: 340 DIITEEEDSINRQKDFNERTQFFM-----QAINVDEIIAHLLVAEGFADVEELACVKISE 394
           D+    +++    ++ +     F+     Q   +       L   G    E +A     +
Sbjct: 27  DVQQRIQETDFMAEEDDVALAAFVPIEKLQVNGITSGDIKKLRESGLHTAEAVAYAPRKD 86

Query: 395 IASIEGFDEETAVEIQGRA 413
           +  I+G  E  A ++   A
Sbjct: 87  LMEIKGISEAKADKLLAEA 105


>gi|304314701|ref|YP_003849848.1| DNA polymerase IV [Methanothermobacter marburgensis str. Marburg]
 gi|302588160|gb|ADL58535.1| predicted DNA polymerase IV [Methanothermobacter marburgensis str.
           Marburg]
          Length = 557

 Score = 43.5 bits (102), Expect = 0.088,   Method: Composition-based stats.
 Identities = 22/88 (25%), Positives = 39/88 (44%), Gaps = 9/88 (10%)

Query: 382 ADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSE--ELCS 439
            D+E++A      +  + G  E  A +I     E L    ++L +++      +   L S
Sbjct: 48  EDIEDVA--AQGRLRELPGIGENIAAKI----EEILSTGSLSLLERLAGEYPVDLDSLLS 101

Query: 440 IPGIDSKIKVALGEN-GIKTMEDLAGCS 466
           + G+  K    L E  GIKT++DL   +
Sbjct: 102 VEGVGPKTVKLLYEELGIKTLDDLEEQA 129


>gi|302035807|ref|YP_003796129.1| 30S ribosomal protein S1 [Candidatus Nitrospira defluvii]
 gi|300603871|emb|CBK40203.1| 30S ribosomal protein S1 [Candidatus Nitrospira defluvii]
          Length = 571

 Score = 43.5 bits (102), Expect = 0.088,   Method: Composition-based stats.
 Identities = 29/130 (22%), Positives = 53/130 (40%), Gaps = 10/130 (7%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              QI L   RD D    +G      +  ++  R  V  +++V++++ R+  R       
Sbjct: 140 PGSQIDLHPVRDLD--GLVGKTFPLKIIKINHRRGNVVVSRRVLLEETRDRRRQTTLSTL 197

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           K   G++I GTVK +      +DLG  DG++   +          E  +  D+V+  +  
Sbjct: 198 K--EGQLIQGTVKNITDYGAFIDLGGIDGLLHITDMSWGRVGHPSELFQVSDKVEVTVLK 255

Query: 189 VRREQRGPQV 198
             RE     +
Sbjct: 256 YDRETGRISL 265



 Score = 39.3 bits (91), Expect = 1.6,   Method: Composition-based stats.
 Identities = 25/95 (26%), Positives = 48/95 (50%), Gaps = 14/95 (14%)

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDE-------T 170
            Q  R+   ++   ++  +VG+ I+G V ++    + ++L G+ +G+I   E        
Sbjct: 442 KQLSRDPWEEQIPNKY--RVGDSITGKVSKIADFGLFIELDGDVEGLIHISEVGLDANVR 499

Query: 171 ISRENLRPGDRVKSYIYDVRREQRGPQVLLS-RTH 204
           +  E  +PGD V + I  V R++R  ++ LS R H
Sbjct: 500 M-EEKFKPGDDVTAKIIKVDRDER--KIALSLRDH 531



 Score = 37.0 bits (85), Expect = 8.7,   Method: Composition-based stats.
 Identities = 26/100 (26%), Positives = 44/100 (44%), Gaps = 5/100 (5%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRE--NLRPGDRVKSYIYDVRREQR 194
            G I  G V  +    V+VD+G  S+G+I  D+    E   L+ GDR++ Y+ +      
Sbjct: 30  EGTITEGMVVAIGKDKVVVDIGYKSEGMIPADQFSHEELAQLKVGDRLQVYLEECEDADG 89

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPG 234
              ++LS+     M     +E        ++ K +SR  G
Sbjct: 90  N--LVLSKEKADKMKIWEELETLHKEEKSIEGKIISRIKG 127


>gi|297564598|ref|YP_003683570.1| RNA binding S1 domain-containing protein [Meiothermus silvanus DSM
           9946]
 gi|296849047|gb|ADH62062.1| RNA binding S1 domain protein [Meiothermus silvanus DSM 9946]
          Length = 598

 Score = 43.5 bits (102), Expect = 0.088,   Method: Composition-based stats.
 Identities = 34/147 (23%), Positives = 63/147 (42%), Gaps = 18/147 (12%)

Query: 66  LEVVE--EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
           +++VE  +      ++S   A           + ++  P       A  S   ++ Q ++
Sbjct: 10  VQIVETTDGTPPKPEVSASEAPK--AEAPTPHMATETAPVQANAPEAAPSGGNLMEQALQ 67

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIR----RDETISREN--- 175
           +AE      +   + G+I+ GTV  V +  V VD+G  ++G+I      +E +  E    
Sbjct: 68  DAEAR--LEKTVQR-GQILQGTVVFVGHEGVAVDIGARTEGIIPFNQLSEENLPEEELKK 124

Query: 176 -LRPGDRVKSYIYDVRREQRGPQVLLS 201
            L+PGD V  Y+     E    Q++LS
Sbjct: 125 LLKPGDTVTVYVVRADLENG--QIILS 149



 Score = 37.4 bits (86), Expect = 6.9,   Method: Composition-based stats.
 Identities = 25/127 (19%), Positives = 55/127 (43%), Gaps = 14/127 (11%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSA--KQVIIQKVREAERDRQYL 132
              Q+ LK   + D  +      S P+  ++  R   +    ++ ++++ +++ R +   
Sbjct: 196 PASQVDLKRTPELDEYVGQ----SFPVKIIELNRKKGRVILSRRAVVEEEQKSLRAKLLS 251

Query: 133 EFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYI 186
           + K    +++ G V  V    V V LG  DG++ R E         +E ++ G  V++ +
Sbjct: 252 QLKP--DDVVEGQVVEVTEFGVFVALGGVDGLVHRSEITWGRFTHPKEVIQKGQTVRAKV 309

Query: 187 YDVRREQ 193
             V  E+
Sbjct: 310 LSVDPER 316


>gi|257053376|ref|YP_003131209.1| 50S ribosomal protein L32e [Halorhabdus utahensis DSM 12940]
 gi|256692139|gb|ACV12476.1| Ribosomal protein L32e [Halorhabdus utahensis DSM 12940]
          Length = 335

 Score = 43.5 bits (102), Expect = 0.088,   Method: Composition-based stats.
 Identities = 22/159 (13%), Positives = 42/159 (26%), Gaps = 26/159 (16%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY----- 416
                 + E  A  L   GF  +++L       +  + G     A  I+    +      
Sbjct: 9   LTDVSGIGEETAGALRESGFETIDDLREADEDALTEVTGIGNALAARIKADVGDVEVDED 68

Query: 417 ---------------------LEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENG 455
                                    +   + +  +    ++L  I G+       L E G
Sbjct: 69  AEAEIEESEESTADSDADASDDAADEADAEPEEDDAAAYDDLTDISGVGEGTAENLREAG 128

Query: 456 IKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTP 494
            +T+ED+A     DL            +    +  L   
Sbjct: 129 FETVEDVARAEQSDLTEVEGIGNALAARIQADVGELDVS 167


>gi|222154117|gb|ACM47238.1| RAD51 recombination protein [Triticum aestivum]
          Length = 343

 Score = 43.5 bits (102), Expect = 0.088,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 21/53 (39%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           +QA  +  +    L   G   VE +A     ++  I+G  E    +I   A +
Sbjct: 32  LQASGIAAVDVKKLKDAGLCTVESVAYSPRKDLLQIKGISEAKVDKIIEAASK 84


>gi|18026317|gb|AAL55473.1|AF016851_1 hemin-binding protein [Prevotella intermedia]
          Length = 591

 Score = 43.5 bits (102), Expect = 0.089,   Method: Composition-based stats.
 Identities = 19/66 (28%), Positives = 37/66 (56%), Gaps = 3/66 (4%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           +  +++ G V  ++   V+V++G  SDG+I   E      L+ GD+V+ Y+    +E + 
Sbjct: 43  QEHQVVEGEVISIDKKEVVVNIGYKSDGIIPASEFRYNPELKVGDKVEVYVE--NQEDKS 100

Query: 196 PQVLLS 201
            Q++LS
Sbjct: 101 GQLILS 106



 Score = 37.0 bits (85), Expect = 8.8,   Method: Composition-based stats.
 Identities = 29/130 (22%), Positives = 52/130 (40%), Gaps = 10/130 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +   RD D  + +G  +   +  ++     V  + + +I+   EA+R   
Sbjct: 149 EAFLPGSQIDVHPIRDYD--VFVGKTMEFKVVKINQEFRNVVVSHKALIEAELEAQRKEI 206

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
               +   G+I+ G VK +    V VDLG  DG+I   +          E +    ++  
Sbjct: 207 ISHLE--KGQILEGVVKNITSYGVFVDLGGVDGLIHITDLSWGRINDPHEVVELDQKINV 264

Query: 185 YIYDVRREQR 194
            I D   E++
Sbjct: 265 VILDFDEEKK 274


>gi|91080301|ref|XP_974146.1| PREDICTED: similar to RAD51 homolog protein [Tribolium castaneum]
 gi|270006417|gb|EFA02865.1| spindle A-like protein [Tribolium castaneum]
          Length = 338

 Score = 43.5 bits (102), Expect = 0.090,   Method: Composition-based stats.
 Identities = 19/88 (21%), Positives = 34/88 (38%), Gaps = 11/88 (12%)

Query: 330 LASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELAC 389
           LAS  T   ID    EE      +  ++     +Q   +       L   GF  +E +A 
Sbjct: 5   LAS--TDTVID----EEAKAGGPQPLSK-----LQVNGITAGDLKKLEDAGFHSIESIAY 53

Query: 390 VKISEIASIEGFDEETAVEIQGRAREYL 417
                +A+I+G  E    ++   A +++
Sbjct: 54  TPKKVLAAIKGISEAKVNKLLAEAAKFV 81


>gi|33863501|ref|NP_895061.1| 30S ribosomal protein S1 homolog B, putative Nbp1 [Prochlorococcus
           marinus str. MIT 9313]
 gi|33640950|emb|CAE21408.1| 30S ribosomal protein S1 homolog B, putative Nbp1 [Prochlorococcus
           marinus str. MIT 9313]
          Length = 421

 Score = 43.5 bits (102), Expect = 0.090,   Method: Composition-based stats.
 Identities = 22/92 (23%), Positives = 36/92 (39%), Gaps = 4/92 (4%)

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR--PGDRVKSYIYDVRRE 192
            +K G++    V     G V  DL    G I R +  + EN     G  +     +V  E
Sbjct: 232 MEKEGKVAQVKVNGFNRGGVTCDLEGLRGFIPRSQLQNGENHEALIGKTLGVAFLEVNPE 291

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
            R  +++LS        +   +EV ++  G V
Sbjct: 292 TR--KLVLSEKRAATAARFSELEVGQLVEGQV 321


>gi|225568091|ref|ZP_03777116.1| hypothetical protein CLOHYLEM_04164 [Clostridium hylemonae DSM
           15053]
 gi|225163044|gb|EEG75663.1| hypothetical protein CLOHYLEM_04164 [Clostridium hylemonae DSM
           15053]
          Length = 376

 Score = 43.5 bits (102), Expect = 0.091,   Method: Composition-based stats.
 Identities = 26/132 (19%), Positives = 54/132 (40%), Gaps = 12/132 (9%)

Query: 81  LKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGE 140
           +    ++D S      +   +   +  R  V   ++ ++   R  ++   + +   ++G+
Sbjct: 138 VSDTYEKDLSKYQDQEIEFVISEFNPRRNRVIGDRRQLLVAARAEKQKELFEKL--QIGD 195

Query: 141 IISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
            + GTVK V      +DLG  DG++   E         ++  + GD VK  I D+     
Sbjct: 196 TVEGTVKNVTDFGAFIDLGGVDGLLHISEMSWGRVENPKKVFQVGDIVKVLIKDINDT-- 253

Query: 195 GPQVLLSRTHPQ 206
             ++ LS   P+
Sbjct: 254 --KIALSLKFPE 263


>gi|156740937|ref|YP_001431066.1| RNA-binding S1 domain-containing protein [Roseiflexus castenholzii
           DSM 13941]
 gi|156232265|gb|ABU57048.1| RNA binding S1 domain protein [Roseiflexus castenholzii DSM 13941]
          Length = 388

 Score = 43.5 bits (102), Expect = 0.092,   Method: Composition-based stats.
 Identities = 25/107 (23%), Positives = 51/107 (47%), Gaps = 8/107 (7%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG 152
           +G  +   +  +D  R  +  +++   Q+ R+A++ R   E +   G+I++G V ++   
Sbjct: 169 VGQTIPLKVIEVDRDRNRLVLSERSATQEWRKAQKQRLLTELQP--GDILTGRVNQLTNF 226

Query: 153 NVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
              +DLG +DG+    E         RE L PG  V+  + ++  E+
Sbjct: 227 GAFIDLGGADGLAHISELSWQRVNHPREVLSPGQEVRVMVVEIDAER 273



 Score = 38.9 bits (90), Expect = 2.3,   Method: Composition-based stats.
 Identities = 25/94 (26%), Positives = 49/94 (52%), Gaps = 11/94 (11%)

Query: 119 IQKVREAERDRQYLEF---KDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDET--IS 172
           +Q+  + +  +   ++   + + GE+  G V ++E G ++V +G   +G+I   +   I 
Sbjct: 9   VQETEDFDWTQMLDDYDYARPQRGEVREGVVMKIEDGGILVSIGTKREGIIPIADVRAIG 68

Query: 173 RE---NLRPGDRVKSYIYDVRREQRGPQVLLSRT 203
            E   NL+ GDR++ Y+ D   E R   ++LS T
Sbjct: 69  DEVLNNLKVGDRIQVYVQD--PENRQGDLVLSLT 100


>gi|221118522|ref|XP_002162778.1| PREDICTED: similar to High density lipoprotein binding protein
           (vigilin) [Hydra magnipapillata]
          Length = 1284

 Score = 43.5 bits (102), Expect = 0.093,   Method: Composition-based stats.
 Identities = 37/176 (21%), Positives = 61/176 (34%), Gaps = 40/176 (22%)

Query: 253 ACVGMRGSRVQAVVTELRDEKI---------DIVV---WSPDSATFVINALRPAIVTKVV 300
           A +G  G  +Q+++ E  D  I         DI+V      D           A +    
Sbjct: 691 AMIGPGGKLIQSIMNECGDVNIRFPSEDAKSDIIVIRGAKEDVEK--------AEIQLKK 742

Query: 301 L----DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN 356
           L     E+    EV    E     IG+ G N+R   + TG  I   T+ +++        
Sbjct: 743 LAEERQENNYTAEVTAKAEHHRFLIGKGGVNIRKVREKTGARIIFPTKNDENKELITIIG 802

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGR 412
                     +V+E  A LL       +++L  +  SE+      D +   E+  R
Sbjct: 803 T-------KESVEEAKADLLNK-----IKDLNNIVESEVL----IDPKHHRELVAR 842


>gi|145595655|ref|YP_001159952.1| 30S ribosomal protein S1 [Salinispora tropica CNB-440]
 gi|145304992|gb|ABP55574.1| SSU ribosomal protein S1P [Salinispora tropica CNB-440]
          Length = 493

 Score = 43.5 bits (102), Expect = 0.093,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V+   V++D+G  ++GVI   E          E +  GD +++ +   ++
Sbjct: 39  GDIVEGTVVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPAEVVSVGDHIEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|50309711|ref|XP_454867.1| hypothetical protein [Kluyveromyces lactis NRRL Y-1140]
 gi|49644002|emb|CAG99954.1| KLLA0E20241p [Kluyveromyces lactis]
          Length = 369

 Score = 43.5 bits (102), Expect = 0.093,   Method: Composition-based stats.
 Identities = 12/79 (15%), Positives = 27/79 (34%), Gaps = 5/79 (6%)

Query: 340 DIITEEEDSINRQKDFNERTQFFM-----QAINVDEIIAHLLVAEGFADVEELACVKISE 394
           D+    +++    ++ +     F+     Q   +       L   G    E +A     +
Sbjct: 27  DVQQRIQETDFMAEEDDVALAAFVPIEKLQVNGITSGDIKKLRESGLHTAEAVAYAPRKD 86

Query: 395 IASIEGFDEETAVEIQGRA 413
           +  I+G  E  A ++   A
Sbjct: 87  LMEIKGISEAKADKLLAEA 105


>gi|291294513|ref|YP_003505911.1| RNA binding S1 domain-containing protein [Meiothermus ruber DSM
           1279]
 gi|290469472|gb|ADD26891.1| RNA binding S1 domain protein [Meiothermus ruber DSM 1279]
          Length = 558

 Score = 43.5 bits (102), Expect = 0.094,   Method: Composition-based stats.
 Identities = 25/73 (34%), Positives = 39/73 (53%), Gaps = 13/73 (17%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISREN---------LRPGDRVKSYIYD 188
           G+I++GTV  V    V+VD+G  ++ VI  +  ++ EN         L+PGD V +Y+  
Sbjct: 39  GQIVTGTVVLVTNDGVMVDIGARTEAVIPFN-QLTEENLSEEELKNLLKPGDTVTAYVVR 97

Query: 189 VRREQRGPQVLLS 201
              E    QV+LS
Sbjct: 98  ADLENG--QVVLS 108


>gi|328944315|ref|ZP_08241779.1| 30S ribosomal protein S1 [Atopobium vaginae DSM 15829]
 gi|327491234|gb|EGF23009.1| 30S ribosomal protein S1 [Atopobium vaginae DSM 15829]
          Length = 409

 Score = 43.5 bits (102), Expect = 0.094,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 41/71 (57%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDET------ISRENLRPGDRVKSYIYDVR 190
            G++++GTV ++E+  V++D+G  S+GVI   E          E +  GD +++ +   +
Sbjct: 45  EGDLVTGTVVKIEHDEVLLDIGFKSEGVIPARELSIRKDASPEELVHMGDTIEALVL--Q 102

Query: 191 REQRGPQVLLS 201
           +E +  +++LS
Sbjct: 103 KEDKEGRLILS 113


>gi|222154119|gb|ACM47239.1| RAD51 recombination protein [Triticum aestivum]
          Length = 343

 Score = 43.5 bits (102), Expect = 0.094,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 21/53 (39%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           +QA  +  +    L   G   VE +A     ++  I+G  E    +I   A +
Sbjct: 32  LQASGIAAVDVKKLKDAGLCTVESVAYSPRKDLLQIKGISEAKVDKIIEAASK 84


>gi|114797862|ref|YP_758926.1| 30S ribosomal protein S1 [Hyphomonas neptunium ATCC 15444]
 gi|114738036|gb|ABI76161.1| ribosomal protein S1 [Hyphomonas neptunium ATCC 15444]
          Length = 659

 Score = 43.5 bits (102), Expect = 0.095,   Method: Composition-based stats.
 Identities = 20/81 (24%), Positives = 38/81 (46%), Gaps = 4/81 (4%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDE-TISRENLRPGDRVKSYIYDVRREQR 194
           + G++I  TV R++   V+VD+G  ++G I   E  +  +   PGD +  Y+  +     
Sbjct: 26  QEGQVIPATVLRIDNDAVVVDIGLKTEGRIPTKEFMLEDKQPAPGDLIDVYLDRIENALG 85

Query: 195 GPQVLLSRTHPQFMVKLFHME 215
               +LSR   +   +   +E
Sbjct: 86  EA--VLSRDKARREERWIKLE 104


>gi|317506138|ref|ZP_07963961.1| S1 RNA binding domain-containing protein [Segniliparus rugosus ATCC
           BAA-974]
 gi|316255560|gb|EFV14807.1| S1 RNA binding domain-containing protein [Segniliparus rugosus ATCC
           BAA-974]
          Length = 482

 Score = 43.5 bits (102), Expect = 0.096,   Method: Composition-based stats.
 Identities = 21/70 (30%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+SGT+ +VE   V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 36  GDIVSGTIVKVERDEVLLDIGYKTEGVIPSRELSIKHDVDPSEVVSVGDTVEALVL--TK 93

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 94  EDKEGRLILS 103


>gi|16081891|ref|NP_394295.1| ski2-like helicase [Thermoplasma acidophilum DSM 1728]
 gi|18202974|sp|Q9HJX7|HELS_THEAC RecName: Full=Putative ski2-type helicase
 gi|10640112|emb|CAC11964.1| DNA helicase related protein [Thermoplasma acidophilum]
          Length = 674

 Score = 43.5 bits (102), Expect = 0.096,   Method: Composition-based stats.
 Identities = 19/79 (24%), Positives = 30/79 (37%), Gaps = 1/79 (1%)

Query: 337 WTIDIITEEEDSINRQKD-FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEI 395
           +  ++    E    R K+   E     +    V  + A  L   G   +E++A      I
Sbjct: 588 YKPEVRRMLEILNLRIKEGIREDILQLVLIPGVGRVRARRLYDAGLRSIEDVASASPDRI 647

Query: 396 ASIEGFDEETAVEIQGRAR 414
            +I GF +  A  I  RAR
Sbjct: 648 KAIYGFSDTLANAIIRRAR 666


>gi|323703064|ref|ZP_08114719.1| hydroxymethylbutenyl pyrophosphate reductase [Desulfotomaculum
           nigrificans DSM 574]
 gi|323531958|gb|EGB21842.1| hydroxymethylbutenyl pyrophosphate reductase [Desulfotomaculum
           nigrificans DSM 574]
          Length = 667

 Score = 43.5 bits (102), Expect = 0.098,   Method: Composition-based stats.
 Identities = 28/103 (27%), Positives = 49/103 (47%), Gaps = 15/103 (14%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDET------ISRENLRPGDRVKSYIYDVRR 191
           GE+I G V +V    V+VD+G  S+GV+ R E         ++ ++ GD ++  +  V+ 
Sbjct: 294 GELIKGVVVQVGPDEVMVDVGAKSEGVVPRKELACYEVDNPQDVVKVGDEIECMV--VKA 351

Query: 192 EQRGPQVLLS--RTHPQFMVKLFHMEVPEIYNGIVQVKAVSRD 232
           E    +++LS  R   +            + NG V +K V R+
Sbjct: 352 EDNEGKLILSKVRADAEKAWGSLEQ---AMENGTV-IKGVVRE 390



 Score = 42.7 bits (100), Expect = 0.14,   Method: Composition-based stats.
 Identities = 22/107 (20%), Positives = 44/107 (41%), Gaps = 8/107 (7%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG 152
           +   V   +  M+  R  V  +++ ++++    +R         + G+ + G V+R+   
Sbjct: 423 LNQEVEVRVIEMNKQRKKVVVSRKAVLEEQYARKRAELLA--SIQEGQTVKGIVRRLTNF 480

Query: 153 NVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
              VDLG  DG++   E          E +  GD ++  +  V RE 
Sbjct: 481 GAFVDLGGLDGLLHISEMSWYRINHPSEVVNVGDEIEVMVLKVDREN 527


>gi|159900230|ref|YP_001546477.1| RNA-binding S1 domain-containing protein [Herpetosiphon aurantiacus
           ATCC 23779]
 gi|159893269|gb|ABX06349.1| RNA binding S1 domain protein [Herpetosiphon aurantiacus ATCC
           23779]
          Length = 397

 Score = 43.5 bits (102), Expect = 0.098,   Method: Composition-based stats.
 Identities = 21/81 (25%), Positives = 43/81 (53%), Gaps = 8/81 (9%)

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------S 172
           +Q+ R+++++R     +   G +++G V ++      +DLG +DG+    E         
Sbjct: 192 MQRWRQSQKERLLETLEP--GAVVTGRVNQLTPFGAFIDLGGADGLAHISELSWQRVNHP 249

Query: 173 RENLRPGDRVKSYIYDVRREQ 193
           RE L+PG  V+ Y+ +V R++
Sbjct: 250 REVLQPGQEVQVYVLEVDRDR 270


>gi|126460684|ref|YP_001056962.1| DNA repair and recombination protein RadA [Pyrobaculum calidifontis
           JCM 11548]
 gi|166218766|sp|A3MXX9|RADA_PYRCJ RecName: Full=DNA repair and recombination protein radA
 gi|126250405|gb|ABO09496.1| DNA repair and recombination protein RadA [Pyrobaculum calidifontis
           JCM 11548]
          Length = 332

 Score = 43.1 bits (101), Expect = 0.098,   Method: Composition-based stats.
 Identities = 15/54 (27%), Positives = 26/54 (48%), Gaps = 1/54 (1%)

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
           +   +  +    L  +G+  V ++A   + E+A I G  EE A +I   AR+ L
Sbjct: 28  ELEGIGRVTGAKLKEKGYYTVRDVAYASVKELAEIVG-SEERAQQIVEAARKML 80


>gi|224539983|ref|ZP_03680522.1| hypothetical protein BACCELL_04895 [Bacteroides cellulosilyticus
           DSM 14838]
 gi|224518409|gb|EEF87514.1| hypothetical protein BACCELL_04895 [Bacteroides cellulosilyticus
           DSM 14838]
          Length = 694

 Score = 43.1 bits (101), Expect = 0.099,   Method: Composition-based stats.
 Identities = 26/113 (23%), Positives = 41/113 (36%), Gaps = 6/113 (5%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           V E +A   +A+ F D+EEL    +  + +I+   E+ A  I       L   ++  + K
Sbjct: 544 VGETVAKK-IAKSFTDIEELENADLERLINIDEIGEKIAQSIISYFANPL-NRELIERLK 601

Query: 428 IRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           I  L  S +   + G        L    I         S D+     E  GG 
Sbjct: 602 IAGLQFSRKEEDLSGYTD----KLAGQSIVISGVFTHHSRDEYKDLIEKNGGK 650


>gi|197092359|gb|ACH42252.1| RAD51A recombination protein [Triticum aestivum]
 gi|222154121|gb|ACM47240.1| RAD51 recombination protein [Triticum aestivum]
          Length = 342

 Score = 43.1 bits (101), Expect = 0.099,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 21/53 (39%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           +QA  +  +    L   G   VE +A     ++  I+G  E    +I   A +
Sbjct: 31  LQASGIAAVDVKKLKDAGLCTVESVAYSPRKDLLQIKGISEAKVDKIIEAASK 83


>gi|288802929|ref|ZP_06408366.1| ribosomal protein S1 [Prevotella melaninogenica D18]
 gi|288334746|gb|EFC73184.1| ribosomal protein S1 [Prevotella melaninogenica D18]
          Length = 594

 Score = 43.1 bits (101), Expect = 0.10,   Method: Composition-based stats.
 Identities = 22/66 (33%), Positives = 41/66 (62%), Gaps = 3/66 (4%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           +  +++ GTV  V+   V+V++G  SDG+I   E      L+ GD+V+ Y+ + + ++RG
Sbjct: 46  QEHQVVEGTVISVDKKEVVVNIGYKSDGIIPASEFRYNPELKAGDKVEVYVEN-QEDKRG 104

Query: 196 PQVLLS 201
            Q++LS
Sbjct: 105 -QLVLS 109


>gi|167041245|gb|ABZ06001.1| putative S1 RNA binding domain protein [uncultured marine
           microorganism HF4000_005D21]
 gi|167045749|gb|ABZ10395.1| putative S1 RNA binding domain protein [uncultured marine bacterium
           HF4000_APKG3108]
          Length = 571

 Score = 43.1 bits (101), Expect = 0.10,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 37/70 (52%), Gaps = 6/70 (8%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDE-TISRE--NLRPGDRVKSYIYDVRRE 192
           K GEI +G V +V    + VDLG  S+G I  +E  +++E   +  G +++  +  +  +
Sbjct: 30  KEGEITTGVVSKVGKNFIFVDLGLKSEGAIPVEEFKLTKEIDKIEIGSKIEVLLEKIENK 89

Query: 193 QRGPQVLLSR 202
                V++SR
Sbjct: 90  TGN--VVISR 97



 Score = 42.7 bits (100), Expect = 0.15,   Method: Composition-based stats.
 Identities = 26/130 (20%), Positives = 54/130 (41%), Gaps = 10/130 (7%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              QI LK  ++ D  + +          +D  R  +  +++ I++K+   +RD+   + 
Sbjct: 143 PGSQIDLKPLKNFDHLMKVPQT--FECVKLDKRRGNIVLSRRAILEKILVRDRDKIISKL 200

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           K   G+I+SGT+K +      VDL   D ++   +          + L  G  +K+ I  
Sbjct: 201 K--EGDIVSGTIKNLTEWGAFVDLNGVDALLHITDISWRRINKPADLLSIGQSIKAKIIK 258

Query: 189 VRREQRGPQV 198
           +    +   +
Sbjct: 259 IEEGTKKISL 268



 Score = 38.9 bits (90), Expect = 1.9,   Method: Composition-based stats.
 Identities = 32/152 (21%), Positives = 59/152 (38%), Gaps = 21/152 (13%)

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI------IQK 121
           VV+ + +Y   IS+K + + D  I    +               Q  K  I       +K
Sbjct: 381 VVKNITDYGLFISVKDS-ELDGMIHYKDLNWSEKESELEKYKKNQLIKFKILEINQEKEK 439

Query: 122 VREAERDRQYLEFK----DKVGEIISGTVKRVEYGNVIVDLGNSDGVIR-RDETISRE-- 174
           +R   +      FK     K+ ++++  V       + V  GN D ++  +   +++E  
Sbjct: 440 IRLGIKQLTQDPFKFFMNKKISDVVTAIVVSSSNDGIHVYAGNKDLLLLIKRSQLAKEPE 499

Query: 175 -----NLRPGDRVKSYIYDVRREQRGPQVLLS 201
                    GDRV   I ++ +E R  +V+LS
Sbjct: 500 NQRPSRWARGDRVDCMIIELDKENR--KVVLS 529


>gi|148658373|ref|YP_001278578.1| RNA-binding S1 domain-containing protein [Roseiflexus sp. RS-1]
 gi|148570483|gb|ABQ92628.1| RNA binding S1 domain protein [Roseiflexus sp. RS-1]
          Length = 393

 Score = 43.1 bits (101), Expect = 0.10,   Method: Composition-based stats.
 Identities = 25/107 (23%), Positives = 51/107 (47%), Gaps = 8/107 (7%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG 152
           +G  +   +  +D  R  +  +++   Q+ R+A++ R   E +   G+I++G V ++   
Sbjct: 169 VGQTIPLKVIEVDRDRNRLVLSERSATQEWRKAQKQRLLTELQP--GDILTGRVNQLTNF 226

Query: 153 NVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
              +DLG +DG+    E         RE L PG  V+  + ++  E+
Sbjct: 227 GAFIDLGGADGLAHISELSWQRVNHPREVLSPGQEVRVMVVEIDAER 273


>gi|257068664|ref|YP_003154919.1| 30S ribosomal protein S1 [Brachybacterium faecium DSM 4810]
 gi|256559482|gb|ACU85329.1| SSU ribosomal protein S1P [Brachybacterium faecium DSM 4810]
          Length = 493

 Score = 43.1 bits (101), Expect = 0.10,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 40/70 (57%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V++  V++D+G  ++GVI   E          E +  GD +++ +   ++
Sbjct: 34  GDIVEGTVVKVDHDEVLLDIGYKTEGVIPSRELSIKHDVDPGEIVEVGDEIEALVL--QK 91

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 92  EDKEGRLILS 101


>gi|33866272|ref|NP_897831.1| 30S ribosomal protein S1 homolog B, putative Nbp1 [Synechococcus
           sp. WH 8102]
 gi|33639247|emb|CAE08255.1| 30S ribosomal protein S1 homolog B, putative Nbp1 [Synechococcus
           sp. WH 8102]
          Length = 406

 Score = 43.1 bits (101), Expect = 0.10,   Method: Composition-based stats.
 Identities = 21/91 (23%), Positives = 39/91 (42%), Gaps = 4/91 (4%)

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR--PGDRVKSYIYDVRREQ 193
           +K G+++   V     G V  DL    G I R +    +N +   G  +     +V  E 
Sbjct: 218 EKHGKVVQVIVNGFNRGGVTCDLEGLRGFIPRSQLQEGDNHQELVGKTLGVAFIEVNSET 277

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           R  +++LS+       +   +EV ++  G+V
Sbjct: 278 R--KLVLSQKRAAVAARFQELEVGQLVEGVV 306


>gi|302346248|ref|YP_003814546.1| 30S ribosomal protein S1 [Prevotella melaninogenica ATCC 25845]
 gi|302151016|gb|ADK97277.1| 30S ribosomal protein S1 [Prevotella melaninogenica ATCC 25845]
          Length = 594

 Score = 43.1 bits (101), Expect = 0.10,   Method: Composition-based stats.
 Identities = 22/66 (33%), Positives = 41/66 (62%), Gaps = 3/66 (4%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           +  +++ GTV  V+   V+V++G  SDG+I   E      L+ GD+V+ Y+ + + ++RG
Sbjct: 46  QEHQVVEGTVISVDKKEVVVNIGYKSDGIIPASEFRYNPELKAGDKVEVYVEN-QEDKRG 104

Query: 196 PQVLLS 201
            Q++LS
Sbjct: 105 -QLVLS 109


>gi|145592504|ref|YP_001154506.1| DNA repair and recombination protein RadA [Pyrobaculum arsenaticum
           DSM 13514]
 gi|166218765|sp|A4WN87|RADA_PYRAR RecName: Full=DNA repair and recombination protein radA
 gi|145284272|gb|ABP51854.1| DNA repair and recombination protein RadA [Pyrobaculum arsenaticum
           DSM 13514]
          Length = 333

 Score = 43.1 bits (101), Expect = 0.10,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 30/54 (55%), Gaps = 1/54 (1%)

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
           +   V ++    L  +GF  V+++A   + E+A I G +EE A++I   AR+ L
Sbjct: 29  ELEGVGKVTGAKLKEKGFYTVKDVAFASVKELAEIIG-NEERALQIIESARKML 81


>gi|239623627|ref|ZP_04666658.1| hydroxymethylbutenyl pyrophosphate reductase [Clostridiales
           bacterium 1_7_47_FAA]
 gi|239521658|gb|EEQ61524.1| hydroxymethylbutenyl pyrophosphate reductase [Clostridiales
           bacterium 1_7_47FAA]
          Length = 665

 Score = 43.1 bits (101), Expect = 0.10,   Method: Composition-based stats.
 Identities = 33/159 (20%), Positives = 66/159 (41%), Gaps = 30/159 (18%)

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ-------- 120
           V +V +    + ++ AR   P+  +           D  + A Q  + VI +        
Sbjct: 410 VAQVLDGGLSVEVEGARVFIPASLVSDSYE-----KDLSKYAGQDIEFVITEFNPKRRRI 464

Query: 121 -----KVREAERDRQYLEFKDKV--GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI-- 171
                ++  A++ +   E   ++  G+ + GTVK V      +DLG +DG++   E    
Sbjct: 465 IGDRKQLLVAQKAQLKEELFSRIQIGDAVEGTVKNVTDFGAFIDLGGADGLLHISEMSWG 524

Query: 172 ----SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQ 206
                ++  + GD+V+  I D++    G ++ LS   P+
Sbjct: 525 RVENPKKVFKAGDQVRVLIKDIQ----GEKIALSLKFPE 559


>gi|70726640|ref|YP_253554.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus
           haemolyticus JCSC1435]
 gi|117940134|sp|Q4L5X7|PNP_STAHJ RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|68447364|dbj|BAE04948.1| polyribonucleotide nucleotidyltransferase [Staphylococcus
           haemolyticus JCSC1435]
          Length = 700

 Score = 43.1 bits (101), Expect = 0.10,   Method: Composition-based stats.
 Identities = 32/178 (17%), Positives = 65/178 (36%), Gaps = 22/178 (12%)

Query: 29  SVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD-R 87
            V+ +++++A +     M  +   I+    ++S +               I  +  RD  
Sbjct: 521 EVIEEALEQARQGRLAIMDHMLQTIDQPRKELSAYAPKV-------EIMHIKPEKIRDVI 573

Query: 88  DPSI----DIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIIS 143
            P      +I       L     G + + +  Q +I + RE   D        +VG++ +
Sbjct: 574 GPGGKKINEIIDETGVKLDIEQDGTIFIGAIDQDMINRAREIIEDITRE---AEVGQVYN 630

Query: 144 GTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR-------PGDRVKSYIYDVRREQR 194
             VKR+E     V+L      +     IS+E +         GD +   I ++ ++ R
Sbjct: 631 AKVKRIEKYGAFVELFAGKDALLHISQISKERINKVEDVLSIGDSIDVKITEIDKQGR 688


>gi|71395846|ref|XP_802340.1| hypothetical protein [Trypanosoma cruzi strain CL Brener]
 gi|70862017|gb|EAN80894.1| hypothetical protein, conserved [Trypanosoma cruzi]
          Length = 500

 Score = 43.1 bits (101), Expect = 0.10,   Method: Composition-based stats.
 Identities = 42/204 (20%), Positives = 77/204 (37%), Gaps = 14/204 (6%)

Query: 323 RRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFA 382
           R   N +LA  L     DI    ED   R+ D  +  +   Q    +E +A  L     A
Sbjct: 259 READNEKLAEDLAQREADIEKLAEDLAQREADNEKLAEDLAQREADNEKLAEDLAQRE-A 317

Query: 383 DVEELACVKISEIASIEGFDEETAVEIQGR-AREYLEGIDITLQKKIRELGVSEELCSIP 441
           D+E+LA     ++A  E  +E+   E+  R A       ++  ++   E  ++E+L    
Sbjct: 318 DIEKLA----EDLAQREADNEKLVEELAQREADNEKLTDELAQREADNE-KLAEDLAQRE 372

Query: 442 GIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESM 501
             + K+   L +      E LA     +L        G        +  + +   ++E +
Sbjct: 373 ADNEKLAEDLAQREADN-EKLAE----ELAQREAVIEGAEADASKTIEGVYSRCRELEEL 427

Query: 502 IIHARYKMGWIEKEKVADEEVQDA 525
              AR ++       + + E+ DA
Sbjct: 428 --AARRELAATGDVDILERELADA 449


>gi|322790963|gb|EFZ15611.1| hypothetical protein SINV_02512 [Solenopsis invicta]
          Length = 341

 Score = 43.1 bits (101), Expect = 0.11,   Method: Composition-based stats.
 Identities = 22/70 (31%), Positives = 32/70 (45%), Gaps = 5/70 (7%)

Query: 394 EIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCS-IPGIDSKIKVALG 452
           E   + G  E+ A +I     E+L+   +   +   E  VS  L + + GI       L 
Sbjct: 60  EAKKLPGIGEKIAKKI----DEFLQTGKLQKLEDKDETNVSISLLARVSGIGPAKAKELV 115

Query: 453 ENGIKTMEDL 462
           E GIKT+EDL
Sbjct: 116 EAGIKTLEDL 125


>gi|157364502|ref|YP_001471269.1| RNA-binding S1 domain-containing protein [Thermotoga lettingae TMO]
 gi|157315106|gb|ABV34205.1| RNA binding S1 domain protein [Thermotoga lettingae TMO]
          Length = 539

 Score = 43.1 bits (101), Expect = 0.11,   Method: Composition-based stats.
 Identities = 21/87 (24%), Positives = 39/87 (44%), Gaps = 10/87 (11%)

Query: 123 REAERDRQYLEFKD--KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDET------ISRE 174
           R+A  +R   EF +  KVG+ I GTV+ +   + I+D       + R E          +
Sbjct: 171 RKALLERLKKEFFNTHKVGDEIEGTVESIRMNHAIIDFDGIKAFLPRSEMSHDPSVSPDD 230

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLS 201
            L+  D++K  I ++   +    + +S
Sbjct: 231 ILKKNDQIKVKIIEINPARS--SITVS 255



 Score = 37.0 bits (85), Expect = 7.8,   Method: Composition-based stats.
 Identities = 20/77 (25%), Positives = 37/77 (48%), Gaps = 7/77 (9%)

Query: 124 EAERDRQYLEFKDKV----GEIISGTVKRVEY-GNVIVDLG-NSDGVIRRDETISR-ENL 176
           E E+   + E+ D V    G ++   V R+     + VD G   +G+I+++E I   E  
Sbjct: 4   EHEKMENFQEYLDFVETNPGSVVEAVVTRINPAEGISVDFGGKGEGIIQQNELIHSIEKY 63

Query: 177 RPGDRVKSYIYDVRREQ 193
             G ++K+ I  +  E+
Sbjct: 64  SVGQKIKAQILKINDEE 80


>gi|311742677|ref|ZP_07716486.1| 30S ribosomal protein S1 [Aeromicrobium marinum DSM 15272]
 gi|311314305|gb|EFQ84213.1| 30S ribosomal protein S1 [Aeromicrobium marinum DSM 15272]
          Length = 489

 Score = 43.1 bits (101), Expect = 0.11,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 50/94 (53%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +++   V++D+G  ++GVI   E          E +  GD V++ +   ++
Sbjct: 39  GDIVDGTIVKIDRDEVLLDIGYKTEGVIPSRELSIKHDIDPNEVVALGDTVEALVL--QK 96

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  +++LS+   Q+      +E  +  +G+V+
Sbjct: 97  EDKEGRLILSKKRAQYERAWGDIEKIKAEDGVVE 130



 Score = 38.5 bits (89), Expect = 2.9,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 48/115 (41%), Gaps = 8/115 (6%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           R RD    IG  +   +  +D  R  V  +++  +++ + A R     E K   G++  G
Sbjct: 160 RVRDLDPYIGQKIEAKIIELDKNRNNVVLSRRAWLEQTQSAVRQNFLTELK--KGQVRKG 217

Query: 145 TVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
            +  +      VDLG  DG++   E          E ++ GD V   + DV  ++
Sbjct: 218 VISSIVNFGAFVDLGGVDGLVHVSELSWKHIDHPNEVVQVGDEVTVEVLDVDMDR 272


>gi|163848394|ref|YP_001636438.1| RNA-binding S1 domain-containing protein [Chloroflexus aurantiacus
           J-10-fl]
 gi|222526319|ref|YP_002570790.1| RNA binding S1 domain-containing protein [Chloroflexus sp.
           Y-400-fl]
 gi|163669683|gb|ABY36049.1| RNA binding S1 domain protein [Chloroflexus aurantiacus J-10-fl]
 gi|222450198|gb|ACM54464.1| RNA binding S1 domain protein [Chloroflexus sp. Y-400-fl]
          Length = 391

 Score = 43.1 bits (101), Expect = 0.11,   Method: Composition-based stats.
 Identities = 25/107 (23%), Positives = 51/107 (47%), Gaps = 8/107 (7%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG 152
           +   +   +  +D  R  +  +++   Q+ R+A++ R   E +   G+++ G V ++   
Sbjct: 170 VNQEIPLKVIEVDRERNRLVLSERAATQEWRKAQKHRLLTELQP--GDVLVGRVNQLTNF 227

Query: 153 NVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
              +DLG +DG+    E         RE L+PG  VK  + ++ RE+
Sbjct: 228 GAFIDLGGADGLAHISELSWQRVNHPREVLQPGQEVKVVVVEIDRER 274


>gi|307177534|gb|EFN66645.1| Protein RRP5-like protein [Camponotus floridanus]
          Length = 1398

 Score = 43.1 bits (101), Expect = 0.11,   Method: Composition-based stats.
 Identities = 25/136 (18%), Positives = 49/136 (36%), Gaps = 36/136 (26%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
            + + +  IG  ++  +  ++         K  I  K+   ++ +Q   F   +GE+I G
Sbjct: 544 HNMNWNYSIGQTITVCIESIE---------KYEIKLKIVTEKQKQQTENFS--IGEMIEG 592

Query: 145 TVK---------RVEYGNVIVDLGNSDGVIRRDETIS--------RENLRPGDRVKSYIY 187
           TV          R+  GN   D   +   +                    PGD + + ++
Sbjct: 593 TVIESSIKGVYLRIHRGN---DENVTTAFLPAGHIAPCIEIGSLLASKYNPGDVISALVF 649

Query: 188 DVRREQRGPQVLLSRT 203
             +     P ++LSRT
Sbjct: 650 ATK-----PSIILSRT 660


>gi|307326059|ref|ZP_07605257.1| RNA binding S1 domain protein [Streptomyces violaceusniger Tu 4113]
 gi|306888281|gb|EFN19269.1| RNA binding S1 domain protein [Streptomyces violaceusniger Tu 4113]
          Length = 504

 Score = 43.1 bits (101), Expect = 0.11,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E +  GD +++ +   ++
Sbjct: 39  GDIVDGVIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVAVGDEIEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|2500107|sp|Q40134|RAD51_SOLLC RecName: Full=DNA repair protein RAD51 homolog
 gi|1143810|gb|AAC23700.1| LeRAD51 [Solanum lycopersicum]
          Length = 342

 Score = 43.1 bits (101), Expect = 0.11,   Method: Composition-based stats.
 Identities = 12/72 (16%), Positives = 24/72 (33%)

Query: 344 EEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
           ++++               +QA  +  +    L   G   VE +      E+  I+G  E
Sbjct: 12  QDQNDEIEDVQHGPFPVEQLQASGIAALDVKKLKDAGLCTVESVVYAPRKELLQIKGISE 71

Query: 404 ETAVEIQGRARE 415
               +I   A +
Sbjct: 72  AKVDKIIEAASK 83


>gi|309790392|ref|ZP_07684957.1| RNA-binding S1 domain-containing protein [Oscillochloris trichoides
           DG6]
 gi|308227584|gb|EFO81247.1| RNA-binding S1 domain-containing protein [Oscillochloris trichoides
           DG6]
          Length = 381

 Score = 43.1 bits (101), Expect = 0.11,   Method: Composition-based stats.
 Identities = 25/107 (23%), Positives = 51/107 (47%), Gaps = 8/107 (7%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG 152
           +   +   +  +D  R  +  +++   Q+ R+A++ R   E +   G+++SG V ++   
Sbjct: 162 VNQEIPLKVIEVDRERNRLVLSERSATQEWRKAQKQRLLTELQP--GDVLSGRVNQLTNF 219

Query: 153 NVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
              +DLG +DG+    E         RE L PG  VK  + ++ R++
Sbjct: 220 GAFIDLGGADGLAHISELSWQRVNHPREVLSPGQEVKVVVVEIDRDR 266



 Score = 40.4 bits (94), Expect = 0.67,   Method: Composition-based stats.
 Identities = 22/95 (23%), Positives = 47/95 (49%), Gaps = 11/95 (11%)

Query: 118 IIQKVREAERDRQYLEF---KDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDE--TI 171
           + +++ E +  +   E+   + + GE+  G + ++E   V+V +G   +GVI   +   +
Sbjct: 1   MFEELEELDWIKLLDEYDYARPQRGELREGMIMQIEDNGVLVSIGTKREGVIPSQDLRQM 60

Query: 172 SRE---NLRPGDRVKSYIYDVRREQRGPQVLLSRT 203
             E    LR G+ ++ Y+ +   E R   ++LS T
Sbjct: 61  GDEFLGTLRIGEMIQVYVQE--PENREGDLILSLT 93


>gi|221195607|ref|ZP_03568661.1| 30S ribosomal protein S1 [Atopobium rimae ATCC 49626]
 gi|221184373|gb|EEE16766.1| 30S ribosomal protein S1 [Atopobium rimae ATCC 49626]
          Length = 441

 Score = 43.1 bits (101), Expect = 0.11,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 40/71 (56%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
            G++++GTV ++E   V++D+G  S+GVI   E          E +  GD +++ +   +
Sbjct: 33  EGDLVTGTVVKIERDEVLLDIGYKSEGVIPARELSIRKDVEPSELVHMGDEIEALVL--Q 90

Query: 191 REQRGPQVLLS 201
           +E +  +++LS
Sbjct: 91  KEDKEGRLVLS 101


>gi|189533893|ref|XP_691411.3| PREDICTED: helicase, POLQ-like [Danio rerio]
          Length = 1010

 Score = 43.1 bits (101), Expect = 0.11,   Method: Composition-based stats.
 Identities = 16/68 (23%), Positives = 28/68 (41%), Gaps = 1/68 (1%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIAS-IEGFDEETAVEIQGRAREYLEGI 420
            M+   V E  A  L + G+  +  LA      +   IE   ++ A +I   A+  L   
Sbjct: 930 LMEVSGVLEHRAKQLYSAGYKTLSHLANADPQTLVQTIENLFKKQAYQIIASAKMLLTEK 989

Query: 421 DITLQKKI 428
              LQ+++
Sbjct: 990 AEALQEEV 997


>gi|213965205|ref|ZP_03393402.1| 30S ribosomal protein S1 [Corynebacterium amycolatum SK46]
 gi|213952057|gb|EEB63442.1| 30S ribosomal protein S1 [Corynebacterium amycolatum SK46]
          Length = 487

 Score = 43.1 bits (101), Expect = 0.11,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 37/70 (52%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V+   V++D+G  ++GVI   E          E +  GD + + +    +
Sbjct: 34  GDIVEGTVVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPDEVVEVGDEIDALVL--TK 91

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 92  EDKEGRLILS 101


>gi|226306799|ref|YP_002766759.1| 30S ribosomal protein S1 [Rhodococcus erythropolis PR4]
 gi|226185916|dbj|BAH34020.1| probable 30S ribosomal protein S1 [Rhodococcus erythropolis PR4]
          Length = 495

 Score = 43.1 bits (101), Expect = 0.11,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 36  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVSVGDAVEALVL--TK 93

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 94  EDKEGRLILS 103


>gi|156394395|ref|XP_001636811.1| predicted protein [Nematostella vectensis]
 gi|156223918|gb|EDO44748.1| predicted protein [Nematostella vectensis]
          Length = 771

 Score = 43.1 bits (101), Expect = 0.11,   Method: Composition-based stats.
 Identities = 20/98 (20%), Positives = 44/98 (44%), Gaps = 6/98 (6%)

Query: 337 WTIDIITEEEDSINRQKDFNERTQF--FMQAINVDEIIAHLLVAEGFADVEELACVKISE 394
           WTI ++ E   ++ R+  +    +    M+   V +  A  L   G+ ++ +LA  + + 
Sbjct: 670 WTIKLLLE---AMVRKLSYTTHLELIPLMEVAGVKQARARQLYKAGYRNLSDLAWAEPAV 726

Query: 395 IA-SIEGFDEETAVEIQGRAREYLEGIDITLQKKIREL 431
           +   IE   ++ A +I   A+  L      L+++  +L
Sbjct: 727 LVQQIEHLPKKHAQQIVSAAKMLLNEKADALREEAEDL 764


>gi|119872227|ref|YP_930234.1| DNA repair and recombination protein RadA [Pyrobaculum islandicum
           DSM 4184]
 gi|143811446|sp|Q9UWR5|RADA_PYRIL RecName: Full=DNA repair and recombination protein radA
 gi|119673635|gb|ABL87891.1| DNA repair and recombination protein RadA [Pyrobaculum islandicum
           DSM 4184]
          Length = 330

 Score = 43.1 bits (101), Expect = 0.11,   Method: Composition-based stats.
 Identities = 18/77 (23%), Positives = 32/77 (41%), Gaps = 7/77 (9%)

Query: 347 DSINRQKDFNERTQFFMQAINVDE------IIAHLLVAEGFADVEELACVKISEIASIEG 400
               +  +  +        ++V+E      +    L   GF  V ++A   + E+A I G
Sbjct: 3   SKKRKDAEVAQARVEITPDLDVEELEGVGRVTGAKLKERGFFTVRDVAFASVKELAEIVG 62

Query: 401 FDEETAVEIQGRAREYL 417
            +EE A +I   AR+ L
Sbjct: 63  -NEERAQQIVEAARKML 78



 Score = 38.1 bits (88), Expect = 3.2,   Method: Composition-based stats.
 Identities = 16/92 (17%), Positives = 33/92 (35%), Gaps = 18/92 (19%)

Query: 419 GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
             D  + +   E+    ++  + G+       L E G  T+ D+A  SV +L     N  
Sbjct: 6   RKDAEVAQARVEITPDLDVEELEGVGRVTGAKLKERGFFTVRDVAFASVKELAEIVGN-- 63

Query: 479 GNIEKFDGFLSSLGTPKDQVESMIIHARYKMG 510
                           +++ + ++  AR  +G
Sbjct: 64  ----------------EERAQQIVEAARKMLG 79


>gi|325661147|ref|ZP_08149774.1| hypothetical protein HMPREF0490_00507 [Lachnospiraceae bacterium
           4_1_37FAA]
 gi|331085098|ref|ZP_08334184.1| hypothetical protein HMPREF0987_00487 [Lachnospiraceae bacterium
           9_1_43BFAA]
 gi|325472654|gb|EGC75865.1| hypothetical protein HMPREF0490_00507 [Lachnospiraceae bacterium
           4_1_37FAA]
 gi|330407881|gb|EGG87371.1| hypothetical protein HMPREF0987_00487 [Lachnospiraceae bacterium
           9_1_43BFAA]
          Length = 360

 Score = 43.1 bits (101), Expect = 0.11,   Method: Composition-based stats.
 Identities = 30/145 (20%), Positives = 61/145 (42%), Gaps = 12/145 (8%)

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+E   +     +  + ++D S   G  +   +   +  R  V   ++ ++   +   +
Sbjct: 125 VVDEARVFIPASLVSDSYEKDLSKYEGQEIEFVISEFNPRRNRVIGDRRQLLVAEKAELQ 184

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDR 181
              + + K  VG+ + GTVK V      +DLG  DG++   E         ++  + GD+
Sbjct: 185 KELFAKLK--VGDTVEGTVKNVTDFGAFIDLGGVDGLLHISEMSWGRVENPKKVFQVGDQ 242

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQ 206
           VK  + D+       ++ LS   P+
Sbjct: 243 VKVLVKDINDT----KIALSLKFPE 263


>gi|297161396|gb|ADI11108.1| 30S ribosomal protein S1 [Streptomyces bingchenggensis BCW-1]
          Length = 500

 Score = 43.1 bits (101), Expect = 0.11,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E +  GD +++ +   ++
Sbjct: 39  GDIVDGVIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVAVGDEIEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|291456496|ref|ZP_06595886.1| ribosomal protein S1 [Bifidobacterium breve DSM 20213]
 gi|291381773|gb|EFE89291.1| ribosomal protein S1 [Bifidobacterium breve DSM 20213]
          Length = 491

 Score = 43.1 bits (101), Expect = 0.11,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 51/94 (54%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++ GTV ++++  V++D+G  ++GVI   E          E +  GD +++ +  V +
Sbjct: 36  GDLVEGTVVKIDHDEVLLDIGYKTEGVIPSRELSIKKDVDPDEVVEVGDTIEALV--VTK 93

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  +++LS+   Q+      +E  +  +G+V+
Sbjct: 94  EDKEGRLILSKKRAQYERAWGDIEKIKEADGVVE 127


>gi|213692621|ref|YP_002323207.1| RNA binding S1 domain protein [Bifidobacterium longum subsp.
           infantis ATCC 15697]
 gi|213524082|gb|ACJ52829.1| RNA binding S1 domain protein [Bifidobacterium longum subsp.
           infantis ATCC 15697]
          Length = 491

 Score = 43.1 bits (101), Expect = 0.11,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 51/94 (54%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++ GTV ++++  V++D+G  ++GVI   E          E +  GD +++ +  V +
Sbjct: 36  GDLVEGTVVKIDHDEVLLDIGYKTEGVIPSRELSIKKDVDPDEVVEVGDTIEALV--VTK 93

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  +++LS+   Q+      +E  +  +G+V+
Sbjct: 94  EDKEGRLILSKKRAQYERAWGDIEKIKEADGVVE 127


>gi|297198957|ref|ZP_06916354.1| ribosomal protein S1 [Streptomyces sviceus ATCC 29083]
 gi|197711117|gb|EDY55151.1| ribosomal protein S1 [Streptomyces sviceus ATCC 29083]
          Length = 503

 Score = 43.1 bits (101), Expect = 0.11,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E +  GD +++ +   ++
Sbjct: 39  GDIVDGVIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVAVGDEIEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|184155356|ref|YP_001843696.1| 30S ribosomal protein S1 [Lactobacillus fermentum IFO 3956]
 gi|227515174|ref|ZP_03945223.1| ribosomal protein S1 [Lactobacillus fermentum ATCC 14931]
 gi|260662131|ref|ZP_05863027.1| 30S ribosomal protein S1 [Lactobacillus fermentum 28-3-CHN]
 gi|183226700|dbj|BAG27216.1| 30S ribosomal protein S1 [Lactobacillus fermentum IFO 3956]
 gi|227086506|gb|EEI21818.1| ribosomal protein S1 [Lactobacillus fermentum ATCC 14931]
 gi|260553514|gb|EEX26406.1| 30S ribosomal protein S1 [Lactobacillus fermentum 28-3-CHN]
          Length = 410

 Score = 43.1 bits (101), Expect = 0.11,   Method: Composition-based stats.
 Identities = 21/106 (19%), Positives = 42/106 (39%), Gaps = 8/106 (7%)

Query: 94  GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN 153
           G  +   +  ++     +  + + I+Q   E    + + E     G+++ G V R+    
Sbjct: 158 GEELEFKIIEIEPSENRLILSHKEIVQAQHEEAAKKIFSELAA--GDVVEGKVARMTNFG 215

Query: 154 VIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
             +DLG  DG++   E          + L  G  VK  + +V  E+
Sbjct: 216 AFIDLGGVDGLVHVSEISYDHVDKPADVLEVGQEVKVKVLNVDPER 261


>gi|23465561|ref|NP_696164.1| 30S ribosomal protein S1 [Bifidobacterium longum NCC2705]
 gi|189439608|ref|YP_001954689.1| 30S ribosomal protein S1 [Bifidobacterium longum DJO10A]
 gi|23326226|gb|AAN24800.1| 30S ribosomal protein S1 [Bifidobacterium longum NCC2705]
 gi|189428043|gb|ACD98191.1| Ribosomal protein S1 [Bifidobacterium longum DJO10A]
          Length = 491

 Score = 43.1 bits (101), Expect = 0.11,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 51/94 (54%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++ GTV ++++  V++D+G  ++GVI   E          E +  GD +++ +  V +
Sbjct: 36  GDLVEGTVVKIDHDEVLLDIGYKTEGVIPSRELSIKKDVDPDEVVEVGDTIEALV--VTK 93

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  +++LS+   Q+      +E  +  +G+V+
Sbjct: 94  EDKEGRLILSKKRAQYERAWGDIEKIKEADGVVE 127


>gi|317124795|ref|YP_004098907.1| 30S ribosomal protein S1P [Intrasporangium calvum DSM 43043]
 gi|315588883|gb|ADU48180.1| SSU ribosomal protein S1P [Intrasporangium calvum DSM 43043]
          Length = 493

 Score = 43.1 bits (101), Expect = 0.11,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E ++ GD V++ +   ++
Sbjct: 38  GDIVEGRIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPGEIVKVGDEVEALVL--QK 95

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 96  EDKEGRLILS 105


>gi|111221225|ref|YP_712019.1| 30S ribosomal protein S1 [Frankia alni ACN14a]
 gi|111148757|emb|CAJ60433.1| 30S ribosomal protein S1 [Frankia alni ACN14a]
          Length = 518

 Score = 43.1 bits (101), Expect = 0.11,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E +  GD V++ +   ++
Sbjct: 74  GDIVDGIIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPHEVVSVGDHVEALVL--QK 131

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 132 EDKEGRLILS 141


>gi|229492760|ref|ZP_04386561.1| 30S ribosomal protein S1 [Rhodococcus erythropolis SK121]
 gi|229320419|gb|EEN86239.1| 30S ribosomal protein S1 [Rhodococcus erythropolis SK121]
          Length = 495

 Score = 43.1 bits (101), Expect = 0.12,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 36  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVSVGDAVEALVL--TK 93

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 94  EDKEGRLILS 103


>gi|223044246|ref|ZP_03614283.1| polyribonucleotide nucleotidyltransferase [Staphylococcus capitis
           SK14]
 gi|222442396|gb|EEE48504.1| polyribonucleotide nucleotidyltransferase [Staphylococcus capitis
           SK14]
          Length = 699

 Score = 43.1 bits (101), Expect = 0.12,   Method: Composition-based stats.
 Identities = 34/178 (19%), Positives = 68/178 (38%), Gaps = 22/178 (12%)

Query: 29  SVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD-R 87
            V+ +++++A +     M  +   I+    ++S +    V       T  I+    RD  
Sbjct: 521 EVIEEALEQARQGRLAIMDHMLQTIDHPRKELSAYAPKVV-------TMHINPDKIRDVI 573

Query: 88  DPSI----DIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIIS 143
            P      +I       L     G + + +  Q +I + +E   D        +VG++ +
Sbjct: 574 GPGGKKINEIIDETGVKLDIEQDGTIFIGAVDQAMIDRAKEIIEDITRE---AEVGQVYN 630

Query: 144 GTVKRVEYGNVIVDLGNSDGVIRRDETISREN-------LRPGDRVKSYIYDVRREQR 194
             VKR+E     V+L      +     IS+E        L  GD ++  I ++ ++ R
Sbjct: 631 AKVKRIEKYGAFVELFPGKDALLHISQISKERINKVEDVLNIGDSIEVKITEIDKQGR 688


>gi|38018106|gb|AAR08149.1| RAD51A [Zea mays]
          Length = 198

 Score = 43.1 bits (101), Expect = 0.12,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 22/53 (41%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           +QA  +  +    L   G   VE +A     ++  I+G  E  A +I   A +
Sbjct: 29  LQASGIAALDVKKLKDSGLHTVEAVAYTPRKDLLQIKGISEAKADKIIEAASK 81


>gi|15806981|ref|NP_295706.1| 30S ribosomal protein S1 [Deinococcus radiodurans R1]
 gi|6459772|gb|AAF11535.1|AE002036_6 ribosomal protein S1, putative [Deinococcus radiodurans R1]
          Length = 629

 Score = 43.1 bits (101), Expect = 0.12,   Method: Composition-based stats.
 Identities = 30/121 (24%), Positives = 51/121 (42%), Gaps = 29/121 (23%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRD---------ETISRENLRPGDRVKSYIYD 188
           G+I+ GTV  +    + VD+G   +GVI  +         E    E  +PGD +++Y+  
Sbjct: 122 GDIVDGTVVFIGQEGIAVDIGAKVEGVIPLNQLGEEPVTLEQAQ-EMYKPGDAIEAYVVR 180

Query: 189 VRREQRGPQVLLSRTHPQFMV------------KLFHMEVPEIYNGIVQVKAVSRDPGSR 236
           V       Q++LS+   +               + F +EV E   G +    V++  G R
Sbjct: 181 VDLPNS--QIVLSKKRAEQDKGWRVLERMQEADEAFEVEVLEKVRGGL----VAQVEGIR 234

Query: 237 A 237
           A
Sbjct: 235 A 235


>gi|325104633|ref|YP_004274287.1| SSU ribosomal protein S1P [Pedobacter saltans DSM 12145]
 gi|324973481|gb|ADY52465.1| SSU ribosomal protein S1P [Pedobacter saltans DSM 12145]
          Length = 637

 Score = 43.1 bits (101), Expect = 0.12,   Method: Composition-based stats.
 Identities = 31/103 (30%), Positives = 47/103 (45%), Gaps = 4/103 (3%)

Query: 102 PPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV-GEIISGTVKRVEYGNVIVDLG- 159
            P DF   A         Q  RE         F     GEII+GTV  +   +V++++G 
Sbjct: 49  DPADFDWDADDKVFGNYSQSEREKLEQLYAGTFNSVEKGEIIAGTVVTINNKDVVLNIGF 108

Query: 160 NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            SDG++  +E      L+ GD V  ++   R +  G Q++LSR
Sbjct: 109 KSDGLVPLNEFRDMPELKVGDVVDVFVEQ-REDANG-QLVLSR 149



 Score = 37.0 bits (85), Expect = 7.7,   Method: Composition-based stats.
 Identities = 29/130 (22%), Positives = 58/130 (44%), Gaps = 10/130 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +K  RD D  I +G  +   +  ++     V  + +V+I+   E+++   
Sbjct: 191 EAFLPGSQIDIKPIRDYD--IYVGKTMEFKVVKINHEFKNVVVSHKVLIEDDLESQKVEI 248

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
             + +   G+++ GTVK +    V +DLG  DG++   +         +E L   ++V  
Sbjct: 249 VSKLE--KGQVLEGTVKNITDFGVFIDLGGVDGLLHITDISWGRIEHPKEVLSLDEKVNV 306

Query: 185 YIYDVRREQR 194
            + D   E++
Sbjct: 307 VVLDFDDEKK 316


>gi|312133007|ref|YP_004000346.1| rpsa [Bifidobacterium longum subsp. longum BBMN68]
 gi|311773993|gb|ADQ03481.1| RpsA [Bifidobacterium longum subsp. longum BBMN68]
          Length = 491

 Score = 43.1 bits (101), Expect = 0.12,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 51/94 (54%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++ GTV ++++  V++D+G  ++GVI   E          E +  GD +++ +  V +
Sbjct: 36  GDLVEGTVVKIDHDEVLLDIGYKTEGVIPSRELSIKKDVDPDEVVEVGDTIEALV--VTK 93

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  +++LS+   Q+      +E  +  +G+V+
Sbjct: 94  EDKEGRLILSKKRAQYERAWGDIEKIKEADGVVE 127


>gi|50746585|ref|XP_420565.1| PREDICTED: similar to DNA helicase HEL308 [Gallus gallus]
          Length = 1048

 Score = 43.1 bits (101), Expect = 0.12,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 27/71 (38%), Gaps = 1/71 (1%)

Query: 362  FMQAINVDEIIAHLLVAEGFADVEELACVKISEIAS-IEGFDEETAVEIQGRAREYLEGI 420
             M+   V E  A  L   G+  +  LA      +   IE      A ++   A+  L   
Sbjct: 970  LMEVAGVLEARAKQLYNAGYKTLAHLANANPETLVKTIEHLSRRQAKQMVSSAKMLLSEK 1029

Query: 421  DITLQKKIREL 431
               LQ+++ EL
Sbjct: 1030 AEALQEEVEEL 1040


>gi|162457755|ref|NP_001104918.1| DNA repair protein RAD51 homolog A [Zea mays]
 gi|55976364|sp|Q67EU8|R51A1_MAIZE RecName: Full=DNA repair protein RAD51 homolog A; AltName:
           Full=Rad51-like protein A; Short=RAD51A; AltName:
           Full=ZmRAD51a
 gi|4886752|gb|AAD32029.1|AF079428_1 RAD51 homolog RAD51A [Zea mays]
          Length = 340

 Score = 43.1 bits (101), Expect = 0.12,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 22/53 (41%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           +QA  +  +    L   G   VE +A     ++  I+G  E  A +I   A +
Sbjct: 29  LQASGIAALDVKKLKDSGLHTVEAVAYTPRKDLLQIKGISEAKADKIIEAASK 81


>gi|258653204|ref|YP_003202360.1| 30S ribosomal protein S1 [Nakamurella multipartita DSM 44233]
 gi|258556429|gb|ACV79371.1| RNA binding S1 domain protein [Nakamurella multipartita DSM 44233]
          Length = 485

 Score = 43.1 bits (101), Expect = 0.12,   Method: Composition-based stats.
 Identities = 27/105 (25%), Positives = 52/105 (49%), Gaps = 16/105 (15%)

Query: 109 VAVQSAKQVIIQKVREAER-----DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSD 162
           ++  +A QV I  +  AE      D     F D  G+I+ GT+ +V+   V++D+G  ++
Sbjct: 3   ISTVAAPQVAINDIGSAEDFLAAIDSTIKYFND--GDIVEGTIVKVDRDEVLLDIGYKTE 60

Query: 163 GVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           GVI   E          E +  G+ V++ +   ++E +  +++LS
Sbjct: 61  GVIPSRELSIKHDVDPSEVVEIGEHVEALVL--QKEDKEGRLILS 103


>gi|317481889|ref|ZP_07940916.1| S1 RNA binding domain-containing protein [Bifidobacterium sp.
           12_1_47BFAA]
 gi|316916680|gb|EFV38075.1| S1 RNA binding domain-containing protein [Bifidobacterium sp.
           12_1_47BFAA]
          Length = 491

 Score = 43.1 bits (101), Expect = 0.12,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 51/94 (54%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++ GTV ++++  V++D+G  ++GVI   E          E +  GD +++ +  V +
Sbjct: 36  GDLVEGTVVKIDHDEVLLDIGYKTEGVIPSRELSIKKDVDPDEVVEVGDTIEALV--VTK 93

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  +++LS+   Q+      +E  +  +G+V+
Sbjct: 94  EDKEGRLILSKKRAQYERAWGDIEKIKEADGVVE 127


>gi|314987702|gb|EFT31793.1| 30S ribosomal protein S1 [Propionibacterium acnes HL005PA2]
          Length = 498

 Score = 43.1 bits (101), Expect = 0.12,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+SGTV +V+   V++D+G  ++ VI   E          E +  GD +++ +   ++
Sbjct: 53  GDIVSGTVVKVDRDEVLLDIGYKTESVIPSKELSIKHDVDPFEVVNVGDEIEALVQ--QK 110

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 111 EDKEGRLILS 120


>gi|304440262|ref|ZP_07400152.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Peptoniphilus
           duerdenii ATCC BAA-1640]
 gi|304371311|gb|EFM24927.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Peptoniphilus
           duerdenii ATCC BAA-1640]
          Length = 671

 Score = 43.1 bits (101), Expect = 0.12,   Method: Composition-based stats.
 Identities = 27/115 (23%), Positives = 51/115 (44%), Gaps = 8/115 (6%)

Query: 86  DRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGT 145
            RD +  +G  +   +   D  +  +  +++ I +K  E  R   + +     G++I GT
Sbjct: 413 QRDLNKFVGQDLECEIIDFDKAKRRIVLSRKNIEEKQFEDTRKEVFSKL--HEGDVIEGT 470

Query: 146 VKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           V+R+      VD+G  DG+I   E          E + PG+ V+  I ++  E+ 
Sbjct: 471 VQRLTDFGAFVDVGGVDGLIHISEMSWNRIKHPSEVVAPGENVEVQILNLDEEKN 525



 Score = 41.6 bits (97), Expect = 0.37,   Method: Composition-based stats.
 Identities = 22/82 (26%), Positives = 39/82 (47%), Gaps = 10/82 (12%)

Query: 128 DRQYLEFKD-KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPG 179
           +     FK  + GEI+ G V  V    ++V++G  SDG++ R+E          +  +PG
Sbjct: 278 EAIENSFKRVRRGEIVEGEVLYVTDNEIMVNIGYRSDGIVSREELSSNPDVKPSDLFKPG 337

Query: 180 DRVKSYIYDVRREQRGPQVLLS 201
           D ++ Y+  +        V+LS
Sbjct: 338 DTIQVYVIKIDDGDGN--VVLS 357


>gi|227546158|ref|ZP_03976207.1| 30S ribosomal protein S1 [Bifidobacterium longum subsp. infantis
           ATCC 55813]
 gi|239621800|ref|ZP_04664831.1| 30S ribosomal protein S1 [Bifidobacterium longum subsp. infantis
           CCUG 52486]
 gi|322688831|ref|YP_004208565.1| 30S ribosomal protein S1 [Bifidobacterium longum subsp. infantis
           157F]
 gi|322690819|ref|YP_004220389.1| 30S ribosomal protein S1 [Bifidobacterium longum subsp. longum JCM
           1217]
 gi|227213139|gb|EEI81011.1| 30S ribosomal protein S1 [Bifidobacterium longum subsp. infantis
           ATCC 55813]
 gi|239514991|gb|EEQ54858.1| 30S ribosomal protein S1 [Bifidobacterium longum subsp. infantis
           CCUG 52486]
 gi|291517108|emb|CBK70724.1| SSU ribosomal protein S1P [Bifidobacterium longum subsp. longum F8]
 gi|320455675|dbj|BAJ66297.1| 30S ribosomal protein S1 [Bifidobacterium longum subsp. longum JCM
           1217]
 gi|320460167|dbj|BAJ70787.1| 30S ribosomal protein S1 [Bifidobacterium longum subsp. infantis
           157F]
          Length = 491

 Score = 43.1 bits (101), Expect = 0.12,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 51/94 (54%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++ GTV ++++  V++D+G  ++GVI   E          E +  GD +++ +  V +
Sbjct: 36  GDLVEGTVVKIDHDEVLLDIGYKTEGVIPSRELSIKKDVDPDEVVEVGDTIEALV--VTK 93

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  +++LS+   Q+      +E  +  +G+V+
Sbjct: 94  EDKEGRLILSKKRAQYERAWGDIEKIKEADGVVE 127


>gi|254820984|ref|ZP_05225985.1| 30S ribosomal protein S1 [Mycobacterium intracellulare ATCC 13950]
          Length = 479

 Score = 43.1 bits (101), Expect = 0.12,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 36  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPARELSIKHDVDPNEVVSVGDEVEALVL--TK 93

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 94  EDKEGRLILS 103


>gi|118617252|ref|YP_905584.1| 30S ribosomal protein S1 [Mycobacterium ulcerans Agy99]
 gi|183982447|ref|YP_001850738.1| ribosomal protein S1 RpsA [Mycobacterium marinum M]
 gi|118569362|gb|ABL04113.1| ribosomal protein S1 RpsA [Mycobacterium ulcerans Agy99]
 gi|183175773|gb|ACC40883.1| ribosomal protein S1 RpsA [Mycobacterium marinum M]
          Length = 481

 Score = 43.1 bits (101), Expect = 0.12,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 36  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPARELSIKHDVDPNEVVTVGDEVEALVL--TK 93

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 94  EDKEGRLILS 103


>gi|15827720|ref|NP_301983.1| 30S ribosomal protein S1 [Mycobacterium leprae TN]
 gi|221230197|ref|YP_002503613.1| 30S ribosomal protein S1 [Mycobacterium leprae Br4923]
 gi|13432211|sp|P46836|RS1_MYCLE RecName: Full=30S ribosomal protein S1
 gi|13093271|emb|CAC31763.1| 30S ribosomal protein S1 [Mycobacterium leprae]
 gi|219933304|emb|CAR71477.1| 30S ribosomal protein S1 [Mycobacterium leprae Br4923]
          Length = 481

 Score = 43.1 bits (101), Expect = 0.12,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 36  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPARELSIKHDVDPNEVVSVGDEVEALVL--TK 93

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 94  EDKEGRLILS 103


>gi|20093551|ref|NP_613398.1| superfamily II helicase [Methanopyrus kandleri AV19]
 gi|19886395|gb|AAM01328.1| Predicted Superfamily II helicase [Methanopyrus kandleri AV19]
          Length = 711

 Score = 43.1 bits (101), Expect = 0.12,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 23/53 (43%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
             +   V   +A  L   G+  V +LA   + E+  + G  E+ A +I   AR
Sbjct: 654 LTEVEGVGRTLAMRLYRAGYHSVRDLAEATVPELTRVRGIGEQLARKILESAR 706


>gi|296453875|ref|YP_003661018.1| RNA-binding S1 domain-containing protein [Bifidobacterium longum
           subsp. longum JDM301]
 gi|296183306|gb|ADH00188.1| RNA binding S1 domain protein [Bifidobacterium longum subsp. longum
           JDM301]
 gi|320458772|dbj|BAJ69393.1| 30S ribosomal protein S1 [Bifidobacterium longum subsp. infantis
           ATCC 15697]
          Length = 491

 Score = 43.1 bits (101), Expect = 0.12,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 51/94 (54%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++ GTV ++++  V++D+G  ++GVI   E          E +  GD +++ +  V +
Sbjct: 36  GDLVEGTVVKIDHDEVLLDIGYKTEGVIPSRELSIKKDVDPDEVVEVGDTIEALV--VTK 93

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  +++LS+   Q+      +E  +  +G+V+
Sbjct: 94  EDKEGRLILSKKRAQYERAWGDIEKIKEADGVVE 127


>gi|15678578|ref|NP_275693.1| DNA-dependent DNA polymerase family X protein [Methanothermobacter
           thermautotrophicus str. Delta H]
 gi|2621626|gb|AAB85056.1| DNA-dependent DNA polymerase family X [Methanothermobacter
           thermautotrophicus str. Delta H]
          Length = 550

 Score = 43.1 bits (101), Expect = 0.12,   Method: Composition-based stats.
 Identities = 33/149 (22%), Positives = 58/149 (38%), Gaps = 13/149 (8%)

Query: 382 ADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSE--ELCS 439
            D+EE+A      +  + G     A +I     E L    + L +++ E    +   L S
Sbjct: 41  EDIEEVA--ARGRLQELPGIGRNIAGKI----EEILSTGSLQLLERLSEEYPVDLDSLLS 94

Query: 440 IPGIDSKIKVALGEN-GIKTMEDLAGCSVDDLLGWSENKGGNIEKF---DGFLSSLGTPK 495
           + G+  +    L E  GIKT+ DL   +    +      G   E     +  L+     +
Sbjct: 95  VEGVGPRTVKLLYEELGIKTLADLEEQARRHRIRRLRGMGEKREAMILRNIELARSRISR 154

Query: 496 DQVESMI-IHARYKMGWIEKEKVADEEVQ 523
             +  ++ + +R K G +E E V   EV 
Sbjct: 155 RPLAYVVPLASRIKAGLLELEGVQRVEVA 183


>gi|88807700|ref|ZP_01123212.1| hypothetical protein WH7805_14153 [Synechococcus sp. WH 7805]
 gi|88788914|gb|EAR20069.1| hypothetical protein WH7805_14153 [Synechococcus sp. WH 7805]
          Length = 430

 Score = 43.1 bits (101), Expect = 0.12,   Method: Composition-based stats.
 Identities = 21/91 (23%), Positives = 35/91 (38%), Gaps = 4/91 (4%)

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR--PGDRVKSYIYDVRREQ 193
           +K G++    V     G V  DL    G I R +    EN     G  +     +V  + 
Sbjct: 242 EKEGKVAQVKVSGFNRGGVTCDLEGLRGFIPRSQLQDGENHEALVGKTLGVAFLEVNPDT 301

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           R  +++LS        +   +EV ++  G V
Sbjct: 302 R--KLVLSEKKAATAARFAELEVGQLVEGHV 330



 Score = 39.3 bits (91), Expect = 1.7,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 27/57 (47%), Gaps = 7/57 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDL-GNSDGVIRRDE------TISRENLRPGDRVKSYIYD 188
           GE+++GTV  +E   V VD+ G + G + + E      T  +E    G  ++  +  
Sbjct: 158 GEVVTGTVIGMESDGVYVDIGGKAPGFMPKSECGLGVITNLKERFPKGLEIQVLVTR 214


>gi|302550706|ref|ZP_07303048.1| ribosomal protein S1 [Streptomyces viridochromogenes DSM 40736]
 gi|302468324|gb|EFL31417.1| ribosomal protein S1 [Streptomyces viridochromogenes DSM 40736]
          Length = 497

 Score = 43.1 bits (101), Expect = 0.12,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E +  GD +++ +   ++
Sbjct: 39  GDIVDGVIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVAVGDEIEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|291515307|emb|CBK64517.1| SSU ribosomal protein S1P [Alistipes shahii WAL 8301]
          Length = 611

 Score = 43.1 bits (101), Expect = 0.13,   Method: Composition-based stats.
 Identities = 22/65 (33%), Positives = 36/65 (55%), Gaps = 3/65 (4%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VGE++ GTV  V    VIV++G  S+G+I   E     +L+ GD+++ Y+     +    
Sbjct: 45  VGEVVEGTVTGVNKREVIVNVGYKSEGIIPVSEFRYNPDLKVGDKIEVYVESAEDKNG-- 102

Query: 197 QVLLS 201
           Q+ LS
Sbjct: 103 QLALS 107


>gi|119719931|ref|YP_920426.1| Rad51-like [Thermofilum pendens Hrk 5]
 gi|119525051|gb|ABL78423.1| Rad51-like protein [Thermofilum pendens Hrk 5]
          Length = 315

 Score = 43.1 bits (101), Expect = 0.13,   Method: Composition-based stats.
 Identities = 22/105 (20%), Positives = 39/105 (37%), Gaps = 8/105 (7%)

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL- 417
            +   +   +  +    L + G   VE+L      E+  + G D E A+ +   AR    
Sbjct: 5   IEELGKEEGIGRVTISRLKSAGIETVEDLVLYNPEELEELAGIDFERALRLVRTARRLAG 64

Query: 418 -EGIDITLQKKIRELGVSEELCS-IPGIDSKIKVALGENGIKTME 460
            E   +   +   +L   E L + +  +D      L E G+ T E
Sbjct: 65  WEVRAVRGDEYASQLSQRESLTTGVKALDE-----LLEGGLVTQE 104


>gi|78222320|ref|YP_384067.1| 30S ribosomal protein S1 [Geobacter metallireducens GS-15]
 gi|78193575|gb|ABB31342.1| SSU ribosomal protein S1P [Geobacter metallireducens GS-15]
          Length = 401

 Score = 43.1 bits (101), Expect = 0.13,   Method: Composition-based stats.
 Identities = 34/135 (25%), Positives = 56/135 (41%), Gaps = 16/135 (11%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPP-MDFGRVAVQSAKQVII--QKVREAERDRQY 131
              QISL+ A   +P+  +G  +   +    + GR  V S +Q++   Q+V+        
Sbjct: 143 PFSQISLRRAE--NPAEFVGKHLLFKVTEYSERGRNIVLSHRQILEEEQRVKREALKEVL 200

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDE----TIS--RENLRPGDRVKSY 185
                  G  ++GTV R+      VDLG  DG+I   E     +   R+ L  G++V   
Sbjct: 201 -----LEGMTVTGTVTRLADFGAFVDLGGVDGLIPVSEVGWTRVKHVRDVLSVGEQVSVV 255

Query: 186 IYDVRREQRGPQVLL 200
           I  +  E     + L
Sbjct: 256 IKKIDWEAGKISLSL 270


>gi|282882121|ref|ZP_06290762.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Peptoniphilus
           lacrimalis 315-B]
 gi|281298151|gb|EFA90606.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Peptoniphilus
           lacrimalis 315-B]
          Length = 725

 Score = 43.1 bits (101), Expect = 0.13,   Method: Composition-based stats.
 Identities = 25/106 (23%), Positives = 48/106 (45%), Gaps = 9/106 (8%)

Query: 94  GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN 153
                + +      R  V S K V+++++ E +R + +      +G++I GTV+R+    
Sbjct: 423 DDFQCEIIDFDKRKRRIVLSRKNVLMREL-EEKRSQIFESL--HIGDVIEGTVQRLTNFG 479

Query: 154 VIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
             VD+G  DG++   E          E +  GD+VK  +  +  E+
Sbjct: 480 AFVDIGGIDGLVHISELSWNRVKHPSEVVSAGDKVKVQVLSLDEEK 525



 Score = 40.4 bits (94), Expect = 0.77,   Method: Composition-based stats.
 Identities = 21/72 (29%), Positives = 36/72 (50%), Gaps = 9/72 (12%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDV 189
           K GEI++G V  V    V+V+LG  SDG+I ++E          +  + GD ++ ++  +
Sbjct: 289 KKGEIVTGEVLYVTDNEVMVNLGYRSDGIISKEELSKNTDAKPSDLYKQGDEIEVFVLKM 348

Query: 190 RREQRGPQVLLS 201
                   V+LS
Sbjct: 349 DDGDGN--VVLS 358


>gi|312198706|ref|YP_004018767.1| RNA binding S1 domain protein [Frankia sp. EuI1c]
 gi|311230042|gb|ADP82897.1| RNA binding S1 domain protein [Frankia sp. EuI1c]
          Length = 493

 Score = 43.1 bits (101), Expect = 0.13,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +   ++
Sbjct: 49  GDIVDGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPHEVVAVGDHVEALVL--QK 106

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 107 EDKEGRLILS 116


>gi|260436360|ref|ZP_05790330.1| SSU ribosomal protein S1P [Synechococcus sp. WH 8109]
 gi|260414234|gb|EEX07530.1| SSU ribosomal protein S1P [Synechococcus sp. WH 8109]
          Length = 390

 Score = 43.1 bits (101), Expect = 0.13,   Method: Composition-based stats.
 Identities = 23/91 (25%), Positives = 38/91 (41%), Gaps = 4/91 (4%)

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR--PGDRVKSYIYDVRREQ 193
           DK G+++   V     G V  DL    G I R +  + EN +   G  +     +V  E 
Sbjct: 202 DKQGKVVQVIVNGFNRGGVTCDLEGLRGFIPRSQLQNGENHQEFVGKTLGVAFIEVNSET 261

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           R  +++LS        +   +EV ++  G V
Sbjct: 262 R--KLVLSEKRAAVAERFQDLEVGQLVEGQV 290



 Score = 37.4 bits (86), Expect = 6.9,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 26/57 (45%), Gaps = 7/57 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDL-GNSDGVIRRDE------TISRENLRPGDRVKSYIYD 188
           GE+I GTV  +E   V VD+ G + G + + E      T  RE    G  V+  +  
Sbjct: 118 GEVIKGTVIGIESDGVYVDIGGKAPGYMPKSEAGLGVVTNFRERFPKGLEVEVLVTR 174


>gi|240168008|ref|ZP_04746667.1| 30S ribosomal protein S1 [Mycobacterium kansasii ATCC 12478]
          Length = 481

 Score = 43.1 bits (101), Expect = 0.13,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 36  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPARELSIKHDVDPNEVVSVGDEVEALVL--TK 93

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 94  EDKEGRLILS 103


>gi|226360123|ref|YP_002777901.1| 30S ribosomal protein S1 [Rhodococcus opacus B4]
 gi|226238608|dbj|BAH48956.1| 30S ribosomal protein S1 [Rhodococcus opacus B4]
          Length = 494

 Score = 43.1 bits (101), Expect = 0.13,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 36  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVSVGDEVEALVL--TK 93

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 94  EDKEGRLILS 103


>gi|302385380|ref|YP_003821202.1| RNA binding S1 domain protein [Clostridium saccharolyticum WM1]
 gi|302196008|gb|ADL03579.1| RNA binding S1 domain protein [Clostridium saccharolyticum WM1]
          Length = 366

 Score = 43.1 bits (101), Expect = 0.13,   Method: Composition-based stats.
 Identities = 31/154 (20%), Positives = 67/154 (43%), Gaps = 20/154 (12%)

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPL-----PPMDFGRVAVQSAKQVII---Q 120
           V +V +    + ++ AR   P+  +       L       ++F        ++ II   +
Sbjct: 114 VAQVLDGGLSVVVEGARVFIPASLVSDTYEKDLSKYADKEIEFIITEFNPKRRRIIGDRK 173

Query: 121 KVREAERDRQYLEFKDKV--GEIISGTVKRVEYGNVIVDLGNSDGVIRRDET------IS 172
           ++  A+R     E  D++  G+++ GT+K V      +DLG +DG++   E         
Sbjct: 174 QIMVAKRAELQKELFDRIHTGDVVEGTIKNVTDFGAFIDLGGADGLLHISEMSWGRVESP 233

Query: 173 RENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQ 206
           ++  + G+++K  + D+     G ++ LS   P+
Sbjct: 234 KKAFKAGEKIKVLVKDI----NGDKIALSLKFPE 263


>gi|194691108|gb|ACF79638.1| unknown [Zea mays]
 gi|195620070|gb|ACG31865.1| DNA repair protein RAD51 [Zea mays]
          Length = 340

 Score = 43.1 bits (101), Expect = 0.13,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 22/53 (41%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           +QA  +  +    L   G   VE +A     ++  I+G  E  A +I   A +
Sbjct: 29  LQASGIAALDVKKLKDSGLHTVEAVAYTPRKDLLQIKGISEAKADKIIEAASK 81


>gi|169831339|ref|YP_001717321.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding
           domain-containing protein [Candidatus Desulforudis
           audaxviator MP104C]
 gi|169638183|gb|ACA59689.1| hydroxymethylbutenyl pyrophosphate reductase [Candidatus
           Desulforudis audaxviator MP104C]
          Length = 677

 Score = 43.1 bits (101), Expect = 0.13,   Method: Composition-based stats.
 Identities = 19/72 (26%), Positives = 37/72 (51%), Gaps = 9/72 (12%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDET------ISRENLRPGDRVKSYIYDV 189
           + G+I+ G + +V    V+VD+G  S+GV+   E          E ++ GD +  ++  V
Sbjct: 319 RSGDIVRGVIVQVGQDEVLVDVGAKSEGVVPLRELSCYDVSSPDEVVQVGDEIDVWV--V 376

Query: 190 RREQRGPQVLLS 201
           + E    +++LS
Sbjct: 377 KAEDNEGRIILS 388



 Score = 40.0 bits (93), Expect = 0.88,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 30/63 (47%), Gaps = 6/63 (9%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
           + G+++ G V+R+      VD+G  DG++   E          E L+ GD ++  +  + 
Sbjct: 492 QEGDVVKGVVRRLTQFGAFVDIGGLDGLLHISEISWHRINHPSEVLKVGDELEVQVLRID 551

Query: 191 REQ 193
           RE 
Sbjct: 552 REN 554


>gi|111017993|ref|YP_700965.1| 30S ribosomal protein S1 [Rhodococcus jostii RHA1]
 gi|110817523|gb|ABG92807.1| 30S ribosomal protein S1 [Rhodococcus jostii RHA1]
          Length = 494

 Score = 43.1 bits (101), Expect = 0.13,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 36  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVSVGDEVEALVL--TK 93

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 94  EDKEGRLILS 103


>gi|296140136|ref|YP_003647379.1| RNA binding S1 domain protein [Tsukamurella paurometabola DSM
           20162]
 gi|296028270|gb|ADG79040.1| RNA binding S1 domain protein [Tsukamurella paurometabola DSM
           20162]
          Length = 499

 Score = 42.7 bits (100), Expect = 0.13,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 37/71 (52%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
            G I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +    
Sbjct: 40  EGTIVEGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPSEVVNVGDAVEALVL--T 97

Query: 191 REQRGPQVLLS 201
           +E +  +++LS
Sbjct: 98  KEDKEGRLILS 108


>gi|224282840|ref|ZP_03646162.1| 30S ribosomal protein S1 [Bifidobacterium bifidum NCIMB 41171]
 gi|311064142|ref|YP_003970867.1| 30S ribosomal protein S1P RpsA [Bifidobacterium bifidum PRL2010]
 gi|313139998|ref|ZP_07802191.1| 30S ribosomal protein S1 [Bifidobacterium bifidum NCIMB 41171]
 gi|310866461|gb|ADP35830.1| RpsA SSU ribosomal protein S1P [Bifidobacterium bifidum PRL2010]
 gi|313132508|gb|EFR50125.1| 30S ribosomal protein S1 [Bifidobacterium bifidum NCIMB 41171]
          Length = 490

 Score = 42.7 bits (100), Expect = 0.13,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 51/94 (54%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++ GTV ++++  V++D+G  ++GVI   E          E +  GD +++ +  V +
Sbjct: 36  GDLVEGTVVKIDHDEVLLDIGYKTEGVIPSRELSIKKDVDPDEVVEVGDTIEALV--VTK 93

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  +++LS+   Q+      +E  +  +G+V+
Sbjct: 94  EDKEGRLILSKKRAQYERAWGDIEKIKEADGVVE 127


>gi|41407423|ref|NP_960259.1| 30S ribosomal protein S1 [Mycobacterium avium subsp.
           paratuberculosis K-10]
 gi|118464486|ref|YP_882336.1| 30S ribosomal protein S1 [Mycobacterium avium 104]
 gi|254775602|ref|ZP_05217118.1| 30S ribosomal protein S1 [Mycobacterium avium subsp. avium ATCC
           25291]
 gi|41395775|gb|AAS03642.1| RpsA [Mycobacterium avium subsp. paratuberculosis K-10]
 gi|118165773|gb|ABK66670.1| 30S ribosomal protein S1 [Mycobacterium avium 104]
          Length = 480

 Score = 42.7 bits (100), Expect = 0.13,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 36  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPARELSIKHDVDPNEVVSVGDEVEALVL--TK 93

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 94  EDKEGRLILS 103


>gi|284991621|ref|YP_003410175.1| RNA binding S1 domain-containing protein [Geodermatophilus obscurus
           DSM 43160]
 gi|284064866|gb|ADB75804.1| RNA binding S1 domain protein [Geodermatophilus obscurus DSM 43160]
          Length = 488

 Score = 42.7 bits (100), Expect = 0.13,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E +  GD V++ +   ++
Sbjct: 39  GDIVEGVIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVSVGDEVEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|54024876|ref|YP_119118.1| putative DNA ligase [Nocardia farcinica IFM 10152]
 gi|81374723|sp|Q5YVN7|DNLJ1_NOCFA RecName: Full=DNA ligase 1; AltName: Full=Polydeoxyribonucleotide
           synthase [NAD+] 1
 gi|54016384|dbj|BAD57754.1| putative DNA ligase [Nocardia farcinica IFM 10152]
          Length = 663

 Score = 42.7 bits (100), Expect = 0.13,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 33/71 (46%), Gaps = 5/71 (7%)

Query: 369 DEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKI 428
            E  A  L   GFA +EE+A      + ++E    + A  +     E+L  +   L +++
Sbjct: 501 SEGTAARLARAGFASLEEVADAGEERLVAVEDIGPKVAASLV----EHLTRLRPEL-ERL 555

Query: 429 RELGVSEELCS 439
           RE GVS ++  
Sbjct: 556 RERGVSLDVRE 566


>gi|302561209|ref|ZP_07313551.1| ribosomal protein S1 [Streptomyces griseoflavus Tu4000]
 gi|302478827|gb|EFL41920.1| ribosomal protein S1 [Streptomyces griseoflavus Tu4000]
          Length = 497

 Score = 42.7 bits (100), Expect = 0.13,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E +  GD +++ +   ++
Sbjct: 39  GDIVDGVIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVAVGDEIEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|31792816|ref|NP_855309.1| 30S ribosomal protein S1 [Mycobacterium bovis AF2122/97]
 gi|121637537|ref|YP_977760.1| 30S ribosomal protein S1 [Mycobacterium bovis BCG str. Pasteur
           1173P2]
 gi|224990012|ref|YP_002644699.1| 30S ribosomal protein S1 [Mycobacterium bovis BCG str. Tokyo 172]
 gi|31618406|emb|CAD96324.1| PROBABLE RIBOSOMAL PROTEIN S1 RPSA [Mycobacterium bovis AF2122/97]
 gi|121493184|emb|CAL71655.1| Probable ribosomal protein S1 rpsA [Mycobacterium bovis BCG str.
           Pasteur 1173P2]
 gi|224773125|dbj|BAH25931.1| 30S ribosomal protein S1 [Mycobacterium bovis BCG str. Tokyo 172]
          Length = 481

 Score = 42.7 bits (100), Expect = 0.13,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 36  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPARELSIKHDVDPNEVVSVGDEVEALVL--TK 93

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 94  EDKEGRLILS 103


>gi|15608768|ref|NP_216146.1| 30S ribosomal protein S1 [Mycobacterium tuberculosis H37Rv]
 gi|15841085|ref|NP_336122.1| 30S ribosomal protein S1 [Mycobacterium tuberculosis CDC1551]
 gi|148661425|ref|YP_001282948.1| 30S ribosomal protein S1 [Mycobacterium tuberculosis H37Ra]
 gi|148822837|ref|YP_001287591.1| 30S ribosomal protein S1 [Mycobacterium tuberculosis F11]
 gi|167968417|ref|ZP_02550694.1| 30S ribosomal protein S1 [Mycobacterium tuberculosis H37Ra]
 gi|215404070|ref|ZP_03416251.1| 30S ribosomal protein S1 [Mycobacterium tuberculosis 02_1987]
 gi|215411275|ref|ZP_03420083.1| 30S ribosomal protein S1 [Mycobacterium tuberculosis 94_M4241A]
 gi|215426948|ref|ZP_03424867.1| 30S ribosomal protein S1 [Mycobacterium tuberculosis T92]
 gi|215430522|ref|ZP_03428441.1| 30S ribosomal protein S1 [Mycobacterium tuberculosis EAS054]
 gi|215445812|ref|ZP_03432564.1| 30S ribosomal protein S1 [Mycobacterium tuberculosis T85]
 gi|218753336|ref|ZP_03532132.1| 30S ribosomal protein S1 [Mycobacterium tuberculosis GM 1503]
 gi|219557550|ref|ZP_03536626.1| 30S ribosomal protein S1 [Mycobacterium tuberculosis T17]
 gi|253799332|ref|YP_003032333.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis KZN 1435]
 gi|254231831|ref|ZP_04925158.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis C]
 gi|254364480|ref|ZP_04980526.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis str.
           Haarlem]
 gi|254550636|ref|ZP_05141083.1| 30S ribosomal protein S1 [Mycobacterium tuberculosis '98-R604
           INH-RIF-EM']
 gi|260186578|ref|ZP_05764052.1| 30S ribosomal protein S1 [Mycobacterium tuberculosis CPHL_A]
 gi|260200691|ref|ZP_05768182.1| 30S ribosomal protein S1 [Mycobacterium tuberculosis T46]
 gi|260204899|ref|ZP_05772390.1| 30S ribosomal protein S1 [Mycobacterium tuberculosis K85]
 gi|289443082|ref|ZP_06432826.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis T46]
 gi|289447238|ref|ZP_06436982.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis CPHL_A]
 gi|289554596|ref|ZP_06443806.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis KZN 605]
 gi|289569675|ref|ZP_06449902.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis T17]
 gi|289574297|ref|ZP_06454524.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis K85]
 gi|289745933|ref|ZP_06505311.1| ribosomal protein S1 [Mycobacterium tuberculosis 02_1987]
 gi|289750175|ref|ZP_06509553.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis T92]
 gi|289753717|ref|ZP_06513095.1| 30S ribosomal protein S1 [Mycobacterium tuberculosis EAS054]
 gi|289757732|ref|ZP_06517110.1| ribosomal protein S1 [Mycobacterium tuberculosis T85]
 gi|289761778|ref|ZP_06521156.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis GM 1503]
 gi|294996579|ref|ZP_06802270.1| 30S ribosomal protein S1 [Mycobacterium tuberculosis 210]
 gi|297634183|ref|ZP_06951963.1| 30S ribosomal protein S1 [Mycobacterium tuberculosis KZN 4207]
 gi|297731170|ref|ZP_06960288.1| 30S ribosomal protein S1 [Mycobacterium tuberculosis KZN R506]
 gi|298525126|ref|ZP_07012535.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis
           94_M4241A]
 gi|306784360|ref|ZP_07422682.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis SUMu003]
 gi|306788728|ref|ZP_07427050.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis SUMu004]
 gi|306793065|ref|ZP_07431367.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis SUMu005]
 gi|306797447|ref|ZP_07435749.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis SUMu006]
 gi|307084210|ref|ZP_07493323.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis SUMu012]
 gi|313658502|ref|ZP_07815382.1| 30S ribosomal protein S1 [Mycobacterium tuberculosis KZN V2475]
 gi|6226090|sp|O06147|RS1_MYCTU RecName: Full=30S ribosomal protein S1
 gi|2113914|emb|CAB08883.1| PROBABLE RIBOSOMAL PROTEIN S1 RPSA [Mycobacterium tuberculosis
           H37Rv]
 gi|13881299|gb|AAK45936.1| ribosomal protein S1 [Mycobacterium tuberculosis CDC1551]
 gi|124600890|gb|EAY59900.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis C]
 gi|134149994|gb|EBA42039.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis str.
           Haarlem]
 gi|148505577|gb|ABQ73386.1| 30S ribosomal protein S1 [Mycobacterium tuberculosis H37Ra]
 gi|148721364|gb|ABR05989.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis F11]
 gi|253320835|gb|ACT25438.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis KZN 1435]
 gi|289416001|gb|EFD13241.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis T46]
 gi|289420196|gb|EFD17397.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis CPHL_A]
 gi|289439228|gb|EFD21721.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis KZN 605]
 gi|289538728|gb|EFD43306.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis K85]
 gi|289543429|gb|EFD47077.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis T17]
 gi|289686461|gb|EFD53949.1| ribosomal protein S1 [Mycobacterium tuberculosis 02_1987]
 gi|289690762|gb|EFD58191.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis T92]
 gi|289694304|gb|EFD61733.1| 30S ribosomal protein S1 [Mycobacterium tuberculosis EAS054]
 gi|289709284|gb|EFD73300.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis GM 1503]
 gi|289713296|gb|EFD77308.1| ribosomal protein S1 [Mycobacterium tuberculosis T85]
 gi|298494920|gb|EFI30214.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis
           94_M4241A]
 gi|308330908|gb|EFP19759.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis SUMu003]
 gi|308334743|gb|EFP23594.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis SUMu004]
 gi|308338520|gb|EFP27371.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis SUMu005]
 gi|308342191|gb|EFP31042.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis SUMu006]
 gi|308366155|gb|EFP55006.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis SUMu012]
 gi|323719890|gb|EGB29003.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis CDC1551A]
 gi|326903243|gb|EGE50176.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis W-148]
 gi|328459082|gb|AEB04505.1| 30S ribosomal protein S1 rpsA [Mycobacterium tuberculosis KZN 4207]
          Length = 481

 Score = 42.7 bits (100), Expect = 0.13,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 36  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPARELSIKHDVDPNEVVSVGDEVEALVL--TK 93

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 94  EDKEGRLILS 103


>gi|310287294|ref|YP_003938552.1| SSU ribosomal protein S1P [Bifidobacterium bifidum S17]
 gi|309251230|gb|ADO52978.1| SSU ribosomal protein S1P [Bifidobacterium bifidum S17]
          Length = 490

 Score = 42.7 bits (100), Expect = 0.13,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 51/94 (54%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++ GTV ++++  V++D+G  ++GVI   E          E +  GD +++ +  V +
Sbjct: 36  GDLVEGTVVKIDHDEVLLDIGYKTEGVIPSRELSIKKDVDPDEVVEVGDTIEALV--VTK 93

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  +++LS+   Q+      +E  +  +G+V+
Sbjct: 94  EDKEGRLILSKKRAQYERAWGDIEKIKEADGVVE 127


>gi|302546255|ref|ZP_07298597.1| ribosomal protein S1 [Streptomyces hygroscopicus ATCC 53653]
 gi|302463873|gb|EFL26966.1| ribosomal protein S1 [Streptomyces himastatinicus ATCC 53653]
          Length = 502

 Score = 42.7 bits (100), Expect = 0.13,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E +  GD +++ +   ++
Sbjct: 39  GDIVDGVIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVAVGDEIEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|395377|emb|CAA80878.1| RecA-like protein [Schizosaccharomyces pombe]
          Length = 358

 Score = 42.7 bits (100), Expect = 0.13,   Method: Composition-based stats.
 Identities = 12/79 (15%), Positives = 31/79 (39%), Gaps = 5/79 (6%)

Query: 337 WTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIA 396
           + +++  EE+++              ++   +       +   G+  VE +A     ++ 
Sbjct: 22  YDVNVQDEEDEAAAGPMPLQ-----MLEGNGITASDIKKIHEAGYYTVESIAYTPKRQLL 76

Query: 397 SIEGFDEETAVEIQGRARE 415
            I+G  E  A ++ G A +
Sbjct: 77  LIKGISEAKADKLLGEASK 95


>gi|25028013|ref|NP_738067.1| 30S ribosomal protein S1 [Corynebacterium efficiens YS-314]
 gi|259506404|ref|ZP_05749306.1| 30S ribosomal protein S1 [Corynebacterium efficiens YS-314]
 gi|23493296|dbj|BAC18267.1| putative 30S ribosomal protein S1 [Corynebacterium efficiens
           YS-314]
 gi|259166011|gb|EEW50565.1| 30S ribosomal protein S1 [Corynebacterium efficiens YS-314]
          Length = 485

 Score = 42.7 bits (100), Expect = 0.13,   Method: Composition-based stats.
 Identities = 28/103 (27%), Positives = 51/103 (49%), Gaps = 16/103 (15%)

Query: 111 VQSAKQVIIQKVREAER-----DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGV 164
             +A QV I  +  AE      D     F D  G+I+ GTV +V++  V++D+G  ++GV
Sbjct: 3   TNNAPQVAINDIGSAEDFLAAIDATIKYFND--GDIVEGTVVKVDHDEVLLDIGYKTEGV 60

Query: 165 IRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           I   E          E ++ GD++ + +    +E +  +++LS
Sbjct: 61  IPSRELSIKHDVDPDEVVQVGDQIDALVL--TKEDKEGRLILS 101


>gi|261749410|ref|YP_003257095.1| 30S ribosomal protein S1 [Blattabacterium sp. (Periplaneta
           americana) str. BPLAN]
 gi|261497502|gb|ACX83952.1| 30S ribosomal protein S1 [Blattabacterium sp. (Periplaneta
           americana) str. BPLAN]
          Length = 606

 Score = 42.7 bits (100), Expect = 0.13,   Method: Composition-based stats.
 Identities = 26/124 (20%), Positives = 53/124 (42%), Gaps = 8/124 (6%)

Query: 82  KVARDRDPSIDIGGV-VSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGE 140
           +  +   P        +        F     ++      Q+ R+ + ++ Y E   K+ E
Sbjct: 6   EEIKKDTPHSSGNNENIGLKDQRKSFDWTKYETHLNSEQQEERK-KFEKIYAETLPKIQE 64

Query: 141 --IISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
             I  GT+  +   N+IVD+G  ++G I   E     N + G++++  +  V+ + +G Q
Sbjct: 65  LEIYQGTITHITEKNLIVDIGFKAEGAIPISEFRENFNFKVGEKMEVMV--VKMDYKG-Q 121

Query: 198 VLLS 201
            +LS
Sbjct: 122 CILS 125



 Score = 40.0 bits (93), Expect = 1.1,   Method: Composition-based stats.
 Identities = 25/134 (18%), Positives = 51/134 (38%), Gaps = 10/134 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E       I++K  RD D  +     V   +      +  V S K +I + + E  ++  
Sbjct: 168 ECFLPGSHINVKPVRDYDTYVGKTMEVKV-VKINQKTKNVVVSHKILIERDIEEQRKEMI 226

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
               K   G+++ G +K +      VDLG  D ++   +          E ++    +K 
Sbjct: 227 ---SKLDKGQVLEGKIKNILPYGAFVDLGGVDALLHITDMSWPHINHPTEVVQLEQELKF 283

Query: 185 YIYDVRREQRGPQV 198
            +  V +++   Q+
Sbjct: 284 VVLGVDKDKNRVQL 297


>gi|54023865|ref|YP_118107.1| 30S ribosomal protein S1 [Nocardia farcinica IFM 10152]
 gi|54015373|dbj|BAD56743.1| putative ribosomal protein S1 [Nocardia farcinica IFM 10152]
          Length = 487

 Score = 42.7 bits (100), Expect = 0.13,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 35  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVSVGDEVEALVL--TK 92

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 93  EDKEGRLILS 102


>gi|6683006|dbj|BAA88984.1| RadA [Pyrobaculum islandicum]
          Length = 315

 Score = 42.7 bits (100), Expect = 0.13,   Method: Composition-based stats.
 Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 1/54 (1%)

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
           +   V  +    L   GF  V ++A   + E+A I G +EE A +I   AR+ L
Sbjct: 11  ELEGVGRVTGAKLKERGFFTVRDVAFASVKELAEIVG-NEERAQQIVEAARKML 63


>gi|114228441|gb|ABI58231.1| Rad51 protein [Oryza sativa Indica Group]
          Length = 332

 Score = 42.7 bits (100), Expect = 0.14,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 20/53 (37%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           +QA  +  +    L   G   VE +      ++  I+G  E    +I   A +
Sbjct: 22  LQAPGIAAVDVKKLKDAGLCTVESVVYSPRKDLLQIKGISEAKVDKIIEAASK 74


>gi|330836582|ref|YP_004411223.1| RNA binding S1 domain-containing protein [Spirochaeta coccoides DSM
           17374]
 gi|329748485|gb|AEC01841.1| RNA binding S1 domain protein [Spirochaeta coccoides DSM 17374]
          Length = 571

 Score = 42.7 bits (100), Expect = 0.14,   Method: Composition-based stats.
 Identities = 22/66 (33%), Positives = 38/66 (57%), Gaps = 9/66 (13%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDE--TISRENLRPGDRVKSYIYDVRREQRG 195
           G +++GTV +V    V VD+G  S+G I  DE   I  +    G++VK +I  + ++ +G
Sbjct: 34  GTLVTGTVIQVNNEYVFVDVGYKSEGRIPLDEFDVIPED----GEKVKVFI--ITKDGKG 87

Query: 196 PQVLLS 201
            Q+ +S
Sbjct: 88  GQIQIS 93


>gi|310821587|ref|YP_003953945.1| 30S ribosomal protein S1 [Stigmatella aurantiaca DW4/3-1]
 gi|309394659|gb|ADO72118.1| 30S ribosomal protein S1 [Stigmatella aurantiaca DW4/3-1]
          Length = 571

 Score = 42.7 bits (100), Expect = 0.14,   Method: Composition-based stats.
 Identities = 23/120 (19%), Positives = 46/120 (38%), Gaps = 10/120 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ ++  R+ D  I         +   +  R  +  +++V+++K RE  +       
Sbjct: 148 PGSQVDIRPVRNLDQYISK--EFEFKVIKFNKKRGNIVLSRRVLLEKQREEMKKETLKNL 205

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           K   G ++ G VK +      +DLG  DG++   +          E    GD V+  +  
Sbjct: 206 K--EGAVLKGVVKNLTDYGAFIDLGGIDGLLHITDMSWGRIGHPSEMFNVGDEVRVVVLK 263


>gi|115380643|ref|ZP_01467579.1| ribosomal protein S1 [Stigmatella aurantiaca DW4/3-1]
 gi|115362348|gb|EAU61647.1| ribosomal protein S1 [Stigmatella aurantiaca DW4/3-1]
          Length = 571

 Score = 42.7 bits (100), Expect = 0.14,   Method: Composition-based stats.
 Identities = 23/120 (19%), Positives = 46/120 (38%), Gaps = 10/120 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ ++  R+ D  I         +   +  R  +  +++V+++K RE  +       
Sbjct: 148 PGSQVDIRPVRNLDQYISK--EFEFKVIKFNKKRGNIVLSRRVLLEKQREEMKKETLKNL 205

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           K   G ++ G VK +      +DLG  DG++   +          E    GD V+  +  
Sbjct: 206 K--EGAVLKGVVKNLTDYGAFIDLGGIDGLLHITDMSWGRIGHPSEMFNVGDEVRVVVLK 263


>gi|58579307|ref|YP_197519.1| 30S ribosomal protein S1 [Ehrlichia ruminantium str. Welgevonden]
 gi|58617361|ref|YP_196560.1| 30S ribosomal protein S1 [Ehrlichia ruminantium str. Gardel]
 gi|58416973|emb|CAI28086.1| 30S ribosomal protein S1 [Ehrlichia ruminantium str. Gardel]
 gi|58417933|emb|CAI27137.1| 30S ribosomal protein S1 [Ehrlichia ruminantium str. Welgevonden]
          Length = 567

 Score = 42.7 bits (100), Expect = 0.14,   Method: Composition-based stats.
 Identities = 27/86 (31%), Positives = 42/86 (48%), Gaps = 9/86 (10%)

Query: 124 EAERDRQYLEFKD---KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLR-- 177
           + E      EF D   K G+II GT+  ++ G V +D G  S+ +I   E    ++ +  
Sbjct: 43  DTEFQHALKEFMDSSVKEGQIIEGTIICIDKGYVTIDSGLKSESIISLKEFELGDDYQNI 102

Query: 178 -PGDRVKSYIYDVRREQRGPQVLLSR 202
             G +VK Y+   + E R   V+LSR
Sbjct: 103 GVGSKVKLYLE--KMEGRNGSVVLSR 126


>gi|296164500|ref|ZP_06847071.1| 30S ribosomal protein S1 [Mycobacterium parascrofulaceum ATCC
           BAA-614]
 gi|295900100|gb|EFG79535.1| 30S ribosomal protein S1 [Mycobacterium parascrofulaceum ATCC
           BAA-614]
          Length = 480

 Score = 42.7 bits (100), Expect = 0.14,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 36  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPARELSIKHDVDPNEVVSVGDEVEALVL--TK 93

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 94  EDKEGRLILS 103


>gi|284044326|ref|YP_003394666.1| RNA binding S1 domain protein [Conexibacter woesei DSM 14684]
 gi|283948547|gb|ADB51291.1| RNA binding S1 domain protein [Conexibacter woesei DSM 14684]
          Length = 529

 Score = 42.7 bits (100), Expect = 0.14,   Method: Composition-based stats.
 Identities = 20/80 (25%), Positives = 43/80 (53%), Gaps = 9/80 (11%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
            G++++G V R++   V+VD+G  S+GVI  +E         ++ +  G+ V + +   +
Sbjct: 40  EGDVVTGHVVRIDKDEVLVDIGYKSEGVIPSNELSIRKSVDPKDEVEMGEEVDALVLT-K 98

Query: 191 REQRGPQVLLSRTHPQFMVK 210
            +Q G +++LS+   +F   
Sbjct: 99  EDQDG-RLILSKKRARFEKA 117


>gi|239978882|ref|ZP_04701406.1| 30S ribosomal protein S1 [Streptomyces albus J1074]
 gi|291450767|ref|ZP_06590157.1| 30S ribosomal protein S1 [Streptomyces albus J1074]
 gi|291353716|gb|EFE80618.1| 30S ribosomal protein S1 [Streptomyces albus J1074]
          Length = 504

 Score = 42.7 bits (100), Expect = 0.14,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E +  GD +++ +   ++
Sbjct: 39  GDIVDGVIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVAVGDEIEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|301620543|ref|XP_002939628.1| PREDICTED: LOW QUALITY PROTEIN: helicase POLQ-like [Xenopus
           (Silurana) tropicalis]
          Length = 1005

 Score = 42.7 bits (100), Expect = 0.14,   Method: Composition-based stats.
 Identities = 17/72 (23%), Positives = 27/72 (37%), Gaps = 1/72 (1%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIA-SIEGFDEETAVEIQGRAREYLEGI 420
            M+   V E  A  L   G+  +  LA      +   IE      A +I   A+  +   
Sbjct: 927 LMEVAGVMEARAKQLYNAGYTSLAHLANADPEVMVKKIEHLSRHQAKQIVFSAKMLVNEK 986

Query: 421 DITLQKKIRELG 432
              LQ+++ EL 
Sbjct: 987 AEALQEEVDELS 998


>gi|296109632|ref|YP_003616581.1| NusA family KH domain protein [Methanocaldococcus infernus ME]
 gi|295434446|gb|ADG13617.1| NusA family KH domain protein [Methanocaldococcus infernus ME]
          Length = 158

 Score = 42.7 bits (100), Expect = 0.14,   Method: Composition-based stats.
 Identities = 19/78 (24%), Positives = 35/78 (44%), Gaps = 3/78 (3%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEVI 311
           GA +G  G  V+    +   +K+DI+ +S D   F+ N   P  +  V +      +   
Sbjct: 45  GAAIGKGGEHVKTAEEKF-GKKVDIIEYSDDWRKFIRNIFAPLQLEDVWIKRAGKDVIAY 103

Query: 312 VPKE-QLSLAI-GRRGQN 327
           +    ++  AI G +G+N
Sbjct: 104 IRINPKIRRAIYGEKGKN 121


>gi|222612339|gb|EEE50471.1| hypothetical protein OsJ_30517 [Oryza sativa Japonica Group]
          Length = 341

 Score = 42.7 bits (100), Expect = 0.14,   Method: Composition-based stats.
 Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RDP+   G  +   L  +D  R  V  +++ +++     ER++   +   + G I+ G V
Sbjct: 143 RDPAYLEGKELEFKLIKLDRKRNNVVVSRRAVVESEHSEEREQLMDKL--QEGAILKGVV 200

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++   +          E +  GD +   +    RE+ 
Sbjct: 201 KNLTDYGAFVDLGGIDGLLHITDMAWKRVRHPSEVVNVGDELDVRVLKFDRERN 254


>gi|148238988|ref|YP_001224375.1| 30S ribosomal protein S1 [Synechococcus sp. WH 7803]
 gi|147847527|emb|CAK23078.1| 30S ribosomal protein S1 [Synechococcus sp. WH 7803]
          Length = 403

 Score = 42.7 bits (100), Expect = 0.14,   Method: Composition-based stats.
 Identities = 22/91 (24%), Positives = 35/91 (38%), Gaps = 4/91 (4%)

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR--PGDRVKSYIYDVRREQ 193
           +K G++    V     G V  DL    G I R +    EN     G  +     +V  E 
Sbjct: 215 EKEGKVAQVKVSGFNRGGVTCDLEGLRGFIPRSQLQEGENHEALVGKTLGVAFLEVNPET 274

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           R  +++LS        +   +EV ++  G V
Sbjct: 275 R--KLVLSEKKAATAARFAELEVGQLVEGHV 303



 Score = 37.7 bits (87), Expect = 5.0,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 27/57 (47%), Gaps = 7/57 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDL-GNSDGVIRRDE------TISRENLRPGDRVKSYIYD 188
           G++++GTV  +E   V VD+ G + G + + E      T  +E    G  ++  +  
Sbjct: 131 GDVVTGTVIGMESDGVYVDIGGKAPGFMPKSECGLGVITNLKERFPKGLEIEVLVTR 187


>gi|94733801|emb|CAK05013.1| novel protein similar to vertebrate DNA helicase HEL308 (HEL308)
           [Danio rerio]
          Length = 710

 Score = 42.7 bits (100), Expect = 0.14,   Method: Composition-based stats.
 Identities = 16/68 (23%), Positives = 28/68 (41%), Gaps = 1/68 (1%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIAS-IEGFDEETAVEIQGRAREYLEGI 420
            M+   V E  A  L + G+  +  LA      +   IE   ++ A +I   A+  L   
Sbjct: 630 LMEVSGVLEHRAKQLYSAGYKTLSHLANADPQTLVQTIENLFKKQAYQIIASAKMLLTEK 689

Query: 421 DITLQKKI 428
              LQ+++
Sbjct: 690 AEALQEEV 697


>gi|253578799|ref|ZP_04856070.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA]
 gi|251849742|gb|EES77701.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA]
          Length = 358

 Score = 42.7 bits (100), Expect = 0.14,   Method: Composition-based stats.
 Identities = 36/159 (22%), Positives = 65/159 (40%), Gaps = 30/159 (18%)

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ-------- 120
           V +V +    +++  AR   P+  +           D  + A Q  + VI +        
Sbjct: 114 VTQVLDGGLCVNVDEARVFIPASLVSDTYE-----KDLSKYADQEIEFVITEFNPRRRRI 168

Query: 121 -----KVREAERDRQYLEFKDK--VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI-- 171
                ++  AE+  +  E  +K  VG+ + GTVK V      +DLG +DG++   E    
Sbjct: 169 IGNRKQLLLAEKAEKQKELMEKIHVGDTVEGTVKNVTDFGAFIDLGGADGLLHISEMSWG 228

Query: 172 ----SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQ 206
                ++    GD+VK  I ++     G ++ LS   P+
Sbjct: 229 RVENPKKVFTVGDKVKVLIKEI----NGEKIALSLKFPE 263


>gi|6730074|pdb|1B22|A Chain A, Rad51 (N-Terminal Domain)
          Length = 114

 Score = 42.7 bits (100), Expect = 0.14,   Method: Composition-based stats.
 Identities = 15/67 (22%), Positives = 28/67 (41%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
           D+   ++ F  +    ++   ++      L   GF  VE +A     E+ +I+G  E  A
Sbjct: 12  DTSVEEESFGPQPISRLEQCGINANDVKKLEEAGFHTVEAVAYAPKKELINIKGISEAKA 71

Query: 407 VEIQGRA 413
            +I   A
Sbjct: 72  DKILAEA 78


>gi|19552573|ref|NP_600575.1| 30S ribosomal protein S1 [Corynebacterium glutamicum ATCC 13032]
 gi|62390242|ref|YP_225644.1| 30S ribosomal protein S1 [Corynebacterium glutamicum ATCC 13032]
 gi|21324127|dbj|BAB98752.1| Ribosomal protein S1 [Corynebacterium glutamicum ATCC 13032]
 gi|41325579|emb|CAF21368.1| 30S RIBOSOMAL PROTEIN S1 [Corynebacterium glutamicum ATCC 13032]
          Length = 486

 Score = 42.7 bits (100), Expect = 0.14,   Method: Composition-based stats.
 Identities = 28/103 (27%), Positives = 49/103 (47%), Gaps = 16/103 (15%)

Query: 111 VQSAKQVIIQKVREAER-----DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGV 164
             +A QV I  +  AE      D     F D  G+I+ GTV +V+   V++D+G  ++GV
Sbjct: 3   TNNAPQVAINDIGSAEDFLAAIDATIKYFND--GDIVEGTVVKVDRDEVLLDIGYKTEGV 60

Query: 165 IRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           I   E          E +  GD++ + +    +E +  +++LS
Sbjct: 61  IPSRELSIKHDVDPDEVVEVGDQIDALVL--TKEDKEGRLILS 101


>gi|326382653|ref|ZP_08204344.1| 30S ribosomal protein S1 [Gordonia neofelifaecis NRRL B-59395]
 gi|326198772|gb|EGD55955.1| 30S ribosomal protein S1 [Gordonia neofelifaecis NRRL B-59395]
          Length = 490

 Score = 42.7 bits (100), Expect = 0.14,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 36  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVTVGDEVEALVL--TK 93

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 94  EDKEGRLILS 103


>gi|57239341|ref|YP_180477.1| 30S ribosomal protein S1 [Ehrlichia ruminantium str. Welgevonden]
 gi|57161420|emb|CAH58344.1| 30S ribosomal protein S1 [Ehrlichia ruminantium str. Welgevonden]
          Length = 565

 Score = 42.7 bits (100), Expect = 0.14,   Method: Composition-based stats.
 Identities = 27/86 (31%), Positives = 42/86 (48%), Gaps = 9/86 (10%)

Query: 124 EAERDRQYLEFKD---KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLR-- 177
           + E      EF D   K G+II GT+  ++ G V +D G  S+ +I   E    ++ +  
Sbjct: 41  DTEFQHALKEFMDSSVKEGQIIEGTIICIDKGYVTIDSGLKSESIISLKEFELGDDYQNI 100

Query: 178 -PGDRVKSYIYDVRREQRGPQVLLSR 202
             G +VK Y+   + E R   V+LSR
Sbjct: 101 GVGSKVKLYLE--KMEGRNGSVVLSR 124


>gi|21220480|ref|NP_626259.1| 30S ribosomal protein S1 [Streptomyces coelicolor A3(2)]
 gi|256788388|ref|ZP_05526819.1| 30S ribosomal protein S1 [Streptomyces lividans TK24]
 gi|289772280|ref|ZP_06531658.1| 30S ribosomal protein S1 [Streptomyces lividans TK24]
 gi|5689891|emb|CAB52054.1| 30S ribosomal protein S1 [Streptomyces coelicolor A3(2)]
 gi|289702479|gb|EFD69908.1| 30S ribosomal protein S1 [Streptomyces lividans TK24]
          Length = 502

 Score = 42.7 bits (100), Expect = 0.14,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E +  GD +++ +   ++
Sbjct: 39  GDIVDGVIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVAVGDEIEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|294628772|ref|ZP_06707332.1| ribosomal protein S1 [Streptomyces sp. e14]
 gi|292832105|gb|EFF90454.1| ribosomal protein S1 [Streptomyces sp. e14]
          Length = 496

 Score = 42.7 bits (100), Expect = 0.15,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E +  GD +++ +   ++
Sbjct: 39  GDIVDGVIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVAVGDEIEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|294012140|ref|YP_003545600.1| ribosomal protein S1 [Sphingobium japonicum UT26S]
 gi|292675470|dbj|BAI96988.1| ribosomal protein S1 [Sphingobium japonicum UT26S]
          Length = 570

 Score = 42.7 bits (100), Expect = 0.15,   Method: Composition-based stats.
 Identities = 35/156 (22%), Positives = 60/156 (38%), Gaps = 16/156 (10%)

Query: 47  SDIRVE---INPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPP 103
            + RVE        G  ++     V         Q+ ++  RD  P +DI       +  
Sbjct: 112 ENARVEGVIFGRVKGGFTVDLDGAVA---FLPGSQVDIRPVRDVTPLMDIPQP--FQILK 166

Query: 104 MDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG 163
           MD  R  +  +++ I+++ R  +R           G+II G VK +      VDLG  DG
Sbjct: 167 MDRRRGNIVVSRRAILEETRAEQRSGLIQTLA--EGQIIEGVVKNITDYGAFVDLGGIDG 224

Query: 164 VIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           ++   +          E +  GD V+  I  + R+ 
Sbjct: 225 LLHVTDLSYKRINHPNEMINIGDTVRVQIIRINRDT 260



 Score = 37.7 bits (87), Expect = 5.3,   Method: Composition-based stats.
 Identities = 21/87 (24%), Positives = 35/87 (40%), Gaps = 8/87 (9%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDE-TISRE--NLRPGDRVKSYIYDVRREQ 193
            G ++ GTV  +E    ++D+G  S+G +   E     +   L+ GD V+ Y+  V    
Sbjct: 28  EGRVVKGTVTGIENDMALIDVGLKSEGRVPLREFAAPGQKAELKVGDEVEVYVDRVENAH 87

Query: 194 RGPQVLLS--RTHPQFMVKLFHMEVPE 218
                +LS  R   +        E  E
Sbjct: 88  GEA--MLSRDRARREAAWDKLESEFTE 112


>gi|147677954|ref|YP_001212169.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding
           domain protein [Pelotomaculum thermopropionicum SI]
 gi|146274051|dbj|BAF59800.1| hypothetical protein [Pelotomaculum thermopropionicum SI]
          Length = 667

 Score = 42.7 bits (100), Expect = 0.15,   Method: Composition-based stats.
 Identities = 21/72 (29%), Positives = 37/72 (51%), Gaps = 9/72 (12%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDET------ISRENLRPGDRVKSYIYDV 189
           + G+I+ GTV  V    V+VD+G  S+GVI   E         +E ++ GD ++ Y+   
Sbjct: 297 RHGQIVKGTVVHVGPDEVMVDIGAKSEGVIPLRELSCCEIASPQEIVKVGDEIEVYVLKA 356

Query: 190 RREQRGPQVLLS 201
              +   +++LS
Sbjct: 357 EDNEG--KLILS 366



 Score = 37.7 bits (87), Expect = 4.4,   Method: Composition-based stats.
 Identities = 16/63 (25%), Positives = 31/63 (49%), Gaps = 6/63 (9%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
           + G+++ GTV+R+      VD+G  DG++   E          E ++ GD ++  +  + 
Sbjct: 470 QEGQVVKGTVRRLTQFGAFVDIGGVDGLLHISEMSWHRINHPSEVVKVGDELEIMVLKLD 529

Query: 191 REQ 193
           RE 
Sbjct: 530 REN 532


>gi|296393091|ref|YP_003657975.1| RNA binding S1 domain-containing protein [Segniliparus rotundus DSM
           44985]
 gi|296180238|gb|ADG97144.1| RNA binding S1 domain protein [Segniliparus rotundus DSM 44985]
          Length = 482

 Score = 42.7 bits (100), Expect = 0.15,   Method: Composition-based stats.
 Identities = 21/70 (30%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+SGT+ +VE   V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 36  GDIVSGTIVKVERDEVLLDIGYKTEGVIPSRELSIKHDVDPSEVVSVGDVVEALVL--TK 93

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 94  EDKEGRLILS 103


>gi|160892582|ref|ZP_02073372.1| hypothetical protein CLOL250_00111 [Clostridium sp. L2-50]
 gi|156865623|gb|EDO59054.1| hypothetical protein CLOL250_00111 [Clostridium sp. L2-50]
          Length = 650

 Score = 42.7 bits (100), Expect = 0.15,   Method: Composition-based stats.
 Identities = 34/182 (18%), Positives = 78/182 (42%), Gaps = 22/182 (12%)

Query: 35  IQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQIS--------LKVARD 86
           +  + + +     + ++E     GDI   ++++VV    N   + +        +    +
Sbjct: 369 VALSYKRVAAEKVNEKLEEAFNNGDILTGKVVQVVNGGLNVLYEETRIFIPASLVSDLYE 428

Query: 87  RDPSIDIGGVVSDPLPPMD-FGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGT 145
           ++    +   +   L   +   R  + + K++I+++ + A     + + +  VG  + GT
Sbjct: 429 KNLDKYLDQDIEFQLTEFNPKKRRIIGNRKKLIVER-KAAAAKELFEKIE--VGMTVEGT 485

Query: 146 VKRVEYGNVIVDLGNSDGVIRRDET------ISRENLRPGDRVKSYIYDVRREQRGPQVL 199
           VK V      +DLG +DG++   E         ++  + GD VK++I D+     G ++ 
Sbjct: 486 VKNVTDFGAFIDLGGADGLLHISEMSWGRVESPKKMFKVGDTVKAFIKDI----NGDKIA 541

Query: 200 LS 201
           LS
Sbjct: 542 LS 543


>gi|227505035|ref|ZP_03935084.1| 30S ribosomal protein S1 [Corynebacterium striatum ATCC 6940]
 gi|227198399|gb|EEI78447.1| 30S ribosomal protein S1 [Corynebacterium striatum ATCC 6940]
          Length = 486

 Score = 42.7 bits (100), Expect = 0.15,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V++  V++D+G  ++GVI   E          E +  GD++ + +    +
Sbjct: 34  GDIVEGTVVKVDHDEVLLDIGYKTEGVIPSRELSIKHDVDPDEVVEVGDQIDALVL--TK 91

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 92  EDKEGRLILS 101


>gi|312139898|ref|YP_004007234.1| 30S ribosomal protein s1 rpsa [Rhodococcus equi 103S]
 gi|311889237|emb|CBH48551.1| 30S ribosomal protein S1 RpsA [Rhodococcus equi 103S]
          Length = 490

 Score = 42.7 bits (100), Expect = 0.15,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 36  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVSVGDEVEALVL--TK 93

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 94  EDKEGRLILS 103


>gi|329940857|ref|ZP_08290137.1| 30S ribosomal protein S1 [Streptomyces griseoaurantiacus M045]
 gi|329300151|gb|EGG44049.1| 30S ribosomal protein S1 [Streptomyces griseoaurantiacus M045]
          Length = 499

 Score = 42.7 bits (100), Expect = 0.15,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E +  GD +++ +   ++
Sbjct: 39  GDIVDGVIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVAVGDEIEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|212716121|ref|ZP_03324249.1| hypothetical protein BIFCAT_01036 [Bifidobacterium catenulatum DSM
           16992]
 gi|212661488|gb|EEB22063.1| hypothetical protein BIFCAT_01036 [Bifidobacterium catenulatum DSM
           16992]
          Length = 491

 Score = 42.7 bits (100), Expect = 0.15,   Method: Composition-based stats.
 Identities = 23/94 (24%), Positives = 51/94 (54%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++ GTV +V++  V++D+G  ++GVI   E          E +  GD +++ +  V +
Sbjct: 36  GDLVEGTVVKVDHDEVLLDIGYKTEGVIPSRELSIKKDVDPDEVVEVGDTIEALV--VTK 93

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  +++LS+   Q+      +E  +  +G+V+
Sbjct: 94  EDKEGRLILSKKRAQYERAWGDIEKIKEADGVVE 127


>gi|126723348|ref|NP_001075493.1| DNA repair protein RAD51 homolog 1 [Oryctolagus cuniculus]
 gi|6225914|sp|O77507|RAD51_RABIT RecName: Full=DNA repair protein RAD51 homolog 1
 gi|3387769|gb|AAC28561.1| Rad51 [Oryctolagus cuniculus]
          Length = 339

 Score = 42.7 bits (100), Expect = 0.15,   Method: Composition-based stats.
 Identities = 14/67 (20%), Positives = 27/67 (40%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
           D+   ++ F  +    ++   ++      L   GF   E +A     E+ +I+G  E  A
Sbjct: 12  DTSVEEESFGPQPVSRLEQCGINANDVKKLEEAGFHTEEAVAYAPKKELINIKGISEAKA 71

Query: 407 VEIQGRA 413
            +I   A
Sbjct: 72  DKILTEA 78


>gi|315224362|ref|ZP_07866196.1| 30S ribosomal protein S1 [Capnocytophaga ochracea F0287]
 gi|314945752|gb|EFS97767.1| 30S ribosomal protein S1 [Capnocytophaga ochracea F0287]
          Length = 586

 Score = 42.7 bits (100), Expect = 0.16,   Method: Composition-based stats.
 Identities = 27/101 (26%), Positives = 48/101 (47%), Gaps = 4/101 (3%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD-KVGEIISGTVKRVEYGNVIVDLG-N 160
             +F     Q     + +   +   +     F D +  E++ G V R+     I+D+   
Sbjct: 12  LQNFDWDKYQEGIDSVQEDQLKNFEELVKNNFVDTQDNEVVEGVVTRITDREAIIDINAK 71

Query: 161 SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           S+GVI  +E     NL+ GD+V+  I D+R ++ G Q++LS
Sbjct: 72  SEGVISLNEFRYNPNLKVGDKVEVLI-DIREDKNG-QLVLS 110



 Score = 36.6 bits (84), Expect = 9.3,   Method: Composition-based stats.
 Identities = 28/135 (20%), Positives = 49/135 (36%), Gaps = 12/135 (8%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +K  RD +  ++            +F  V V   K +I   + E +++  
Sbjct: 153 EAFLPGSQIDVKPIRDYEQFVNKTMEFKIVKVNHEFKNVVVSH-KALIEADIEEQKKEII 211

Query: 131 YLEFKDKV-GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVK 183
                    G+++ G VK +    V VDLG  DG+I   +          E +    ++ 
Sbjct: 212 ----SQLEKGQVLEGVVKNITSYGVFVDLGGVDGLIHITDLSWARINHPSEVVSVDQKLN 267

Query: 184 SYIYDVRREQRGPQV 198
             I D    +   Q+
Sbjct: 268 VVILDFDDNKSRIQL 282


>gi|119025692|ref|YP_909537.1| 30S ribosomal protein S1 [Bifidobacterium adolescentis ATCC 15703]
 gi|154487492|ref|ZP_02028899.1| hypothetical protein BIFADO_01347 [Bifidobacterium adolescentis
           L2-32]
 gi|118765276|dbj|BAF39455.1| 30S ribosomal protein S1 [Bifidobacterium adolescentis ATCC 15703]
 gi|154084010|gb|EDN83055.1| hypothetical protein BIFADO_01347 [Bifidobacterium adolescentis
           L2-32]
          Length = 490

 Score = 42.7 bits (100), Expect = 0.16,   Method: Composition-based stats.
 Identities = 23/94 (24%), Positives = 51/94 (54%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++ GTV +V++  V++D+G  ++GVI   E          E +  GD +++ +  V +
Sbjct: 36  GDLVEGTVVKVDHDEVLLDIGYKTEGVIPSRELSIKKDVDPDEVVEVGDTIEALV--VTK 93

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  +++LS+   Q+      +E  +  +G+V+
Sbjct: 94  EDKEGRLILSKKRAQYERAWGDIEKIKEADGVVE 127


>gi|326427949|gb|EGD73519.1| rad51 protein [Salpingoeca sp. ATCC 50818]
          Length = 332

 Score = 42.7 bits (100), Expect = 0.16,   Method: Composition-based stats.
 Identities = 12/42 (28%), Positives = 20/42 (47%)

Query: 376 LVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
           L   G+  VE +A V   ++  ++G  E  A +I   A + L
Sbjct: 34  LTDAGYHTVESVAYVPKKQLLGVKGISEAKADKIINEASKLL 75


>gi|332020430|gb|EGI60850.1| DNA repair protein RAD51-like protein 1 [Acromyrmex echinatior]
          Length = 340

 Score = 42.7 bits (100), Expect = 0.16,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 22/53 (41%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           ++   +       L   G+  VE +A     ++  I+G  E  A ++Q  A +
Sbjct: 28  LEKNGITAGDIKKLQDAGYYTVEAVAYATKKDLLVIKGISEAKADKLQLEASK 80


>gi|225351875|ref|ZP_03742898.1| hypothetical protein BIFPSEUDO_03477 [Bifidobacterium
           pseudocatenulatum DSM 20438]
 gi|225157122|gb|EEG70461.1| hypothetical protein BIFPSEUDO_03477 [Bifidobacterium
           pseudocatenulatum DSM 20438]
          Length = 491

 Score = 42.7 bits (100), Expect = 0.16,   Method: Composition-based stats.
 Identities = 23/94 (24%), Positives = 51/94 (54%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++ GTV +V++  V++D+G  ++GVI   E          E +  GD +++ +  V +
Sbjct: 36  GDLVEGTVVKVDHDEVLLDIGYKTEGVIPSRELSIKKDVDPDEVVEVGDTIEALV--VTK 93

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  +++LS+   Q+      +E  +  +G+V+
Sbjct: 94  EDKEGRLILSKKRAQYERAWGDIEKIKEADGVVE 127


>gi|171743205|ref|ZP_02919012.1| hypothetical protein BIFDEN_02333 [Bifidobacterium dentium ATCC
           27678]
 gi|283455814|ref|YP_003360378.1| 30S ribosomal protein S1 [Bifidobacterium dentium Bd1]
 gi|306823050|ref|ZP_07456426.1| 30S ribosomal protein S1 [Bifidobacterium dentium ATCC 27679]
 gi|309801254|ref|ZP_07695383.1| putative ribosomal protein S1 [Bifidobacterium dentium JCVIHMP022]
 gi|171278819|gb|EDT46480.1| hypothetical protein BIFDEN_02333 [Bifidobacterium dentium ATCC
           27678]
 gi|283102448|gb|ADB09554.1| 30S ribosomal protein S1 [Bifidobacterium dentium Bd1]
 gi|304553682|gb|EFM41593.1| 30S ribosomal protein S1 [Bifidobacterium dentium ATCC 27679]
 gi|308222143|gb|EFO78426.1| putative ribosomal protein S1 [Bifidobacterium dentium JCVIHMP022]
          Length = 490

 Score = 42.7 bits (100), Expect = 0.16,   Method: Composition-based stats.
 Identities = 23/94 (24%), Positives = 51/94 (54%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++ GTV +V++  V++D+G  ++GVI   E          E +  GD +++ +  V +
Sbjct: 36  GDLVEGTVVKVDHDEVLLDIGYKTEGVIPSRELSIKKDVDPDEVVEVGDTIEALV--VTK 93

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  +++LS+   Q+      +E  +  +G+V+
Sbjct: 94  EDKEGRLILSKKRAQYERAWGDIEKIKEADGVVE 127


>gi|72161595|ref|YP_289252.1| 30S ribosomal protein S1 [Thermobifida fusca YX]
 gi|71915327|gb|AAZ55229.1| SSU ribosomal protein S1P [Thermobifida fusca YX]
          Length = 485

 Score = 42.7 bits (100), Expect = 0.16,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +   ++
Sbjct: 38  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPHEVVAVGDHVEALVL--QK 95

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 96  EDKEGRLILS 105


>gi|158317247|ref|YP_001509755.1| 30S ribosomal protein S1 [Frankia sp. EAN1pec]
 gi|158112652|gb|ABW14849.1| RNA binding S1 domain protein [Frankia sp. EAN1pec]
          Length = 493

 Score = 42.7 bits (100), Expect = 0.16,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E +  GD V++ +   ++
Sbjct: 49  GDIVDGIIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPHEVVTVGDHVEALVL--QK 106

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 107 EDKEGRLILS 116


>gi|330752286|emb|CBL87241.1| ribosomal protein S1 [uncultured Sphingobacteria bacterium]
          Length = 740

 Score = 42.7 bits (100), Expect = 0.16,   Method: Composition-based stats.
 Identities = 39/162 (24%), Positives = 67/162 (41%), Gaps = 19/162 (11%)

Query: 53  INPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQ 112
           +N E  ++   +   V  EV +              P    G  + D  P   F      
Sbjct: 1   MNTEDKNLESTQEETVATEVVDTPT-----------PEAHEGPDLLDQTPYDQFDWSVGN 49

Query: 113 SAKQVIIQKVREAERD-RQYLEFKDKVG--EIISGTVKRVEYGNVIVDLG-NSDGVIRRD 168
             K  +    +E E    QY +    +G  EI+ G V  +  G+V++D+   SDG++   
Sbjct: 50  --KHTLSYSEQEIEDYLNQYEQSLSTIGQNEIVLGKVTAIHDGDVVLDVNYKSDGLVSLS 107

Query: 169 ETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVK 210
           E     +L+ GD V+ Y+ D + + RG Q++LSR   + +  
Sbjct: 108 EFRDMPDLKIGDEVQVYVED-KEDLRG-QLVLSRKKAKLLKA 147


>gi|299783190|gb|ADJ41188.1| 30S ribosomal protein S1 [Lactobacillus fermentum CECT 5716]
          Length = 410

 Score = 42.7 bits (100), Expect = 0.16,   Method: Composition-based stats.
 Identities = 21/106 (19%), Positives = 42/106 (39%), Gaps = 8/106 (7%)

Query: 94  GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN 153
           G  +   +  ++     +  + + I+Q   E    + + E     G+++ G V R+    
Sbjct: 158 GEELEFKIIEIEPSENRLILSHKEIVQAQHEEAAKKIFSELVA--GDVVEGKVARMTNFG 215

Query: 154 VIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
             +DLG  DG++   E          + L  G  VK  + +V  E+
Sbjct: 216 AFIDLGGVDGLVHVSEISYDHVDKPADVLEVGQEVKVKVLNVDPER 261


>gi|300779764|ref|ZP_07089620.1| chaperonin GroEL [Corynebacterium genitalium ATCC 33030]
 gi|300533874|gb|EFK54933.1| chaperonin GroEL [Corynebacterium genitalium ATCC 33030]
          Length = 535

 Score = 42.7 bits (100), Expect = 0.16,   Method: Composition-based stats.
 Identities = 26/135 (19%), Positives = 50/135 (37%), Gaps = 14/135 (10%)

Query: 371 IIAHLLVAEGFADVEELACVKISEIAS-IEGFDEETAVEIQGRAREYLEGIDITLQKKIR 429
           ++A  LV EG  +V   A     E+   I    E+   E++ RA +     +I     + 
Sbjct: 93  LLAQALVNEGLRNVA--AGANPIELNKGISAATEKVVEELKARATDVSSSEEIANVATVS 150

Query: 430 ELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLS 489
                     +  + S     +G++G+ T+E+    S+D  +  +E          GFLS
Sbjct: 151 SRDPE-----VGEMVSGAMDKVGKDGVLTVEE--SQSIDSYVDVTEGISFEK----GFLS 199

Query: 490 SLGTPKDQVESMIIH 504
                  +    ++ 
Sbjct: 200 PYFMTDPEAGQAVLE 214


>gi|239931899|ref|ZP_04688852.1| 30S ribosomal protein S1 [Streptomyces ghanaensis ATCC 14672]
 gi|291440269|ref|ZP_06579659.1| 30S ribosomal protein S1 [Streptomyces ghanaensis ATCC 14672]
 gi|291343164|gb|EFE70120.1| 30S ribosomal protein S1 [Streptomyces ghanaensis ATCC 14672]
          Length = 497

 Score = 42.7 bits (100), Expect = 0.16,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E +  GD +++ +   ++
Sbjct: 39  GDIVDGVIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVAVGDEIEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|256818976|ref|YP_003140255.1| 30S ribosomal protein S1 [Capnocytophaga ochracea DSM 7271]
 gi|256580559|gb|ACU91694.1| RNA binding S1 domain protein [Capnocytophaga ochracea DSM 7271]
          Length = 586

 Score = 42.7 bits (100), Expect = 0.16,   Method: Composition-based stats.
 Identities = 27/101 (26%), Positives = 48/101 (47%), Gaps = 4/101 (3%)

Query: 103 PMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD-KVGEIISGTVKRVEYGNVIVDLG-N 160
             +F     Q     + +   +   +     F D +  E++ G V R+     I+D+   
Sbjct: 12  LQNFDWDKYQEGIDSVQEDQLKNFEELVKNNFVDTQDNEVVEGVVTRITDREAIIDINAK 71

Query: 161 SDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           S+GVI  +E     NL+ GD+V+  I D+R ++ G Q++LS
Sbjct: 72  SEGVISLNEFRYNPNLKVGDKVEVLI-DIREDKNG-QLVLS 110



 Score = 36.6 bits (84), Expect = 9.5,   Method: Composition-based stats.
 Identities = 28/135 (20%), Positives = 49/135 (36%), Gaps = 12/135 (8%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +K  RD +  ++            +F  V V   K +I   + E +++  
Sbjct: 153 EAFLPGSQIDVKPIRDYEQFVNKTMEFKIVKVNHEFKNVVVSH-KALIEADIEEQKKEII 211

Query: 131 YLEFKDKV-GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVK 183
                    G+++ G VK +    V VDLG  DG+I   +          E +    ++ 
Sbjct: 212 ----SQLEKGQVLEGVVKNITSYGVFVDLGGVDGLIHITDLSWARINHPSEVVSVDQKLN 267

Query: 184 SYIYDVRREQRGPQV 198
             I D    +   Q+
Sbjct: 268 VVILDFDDNKSRIQL 282


>gi|38233738|ref|NP_939505.1| 30S ribosomal protein S1 [Corynebacterium diphtheriae NCTC 13129]
 gi|38199999|emb|CAE49668.1| 30S ribosomal protein S1 [Corynebacterium diphtheriae]
          Length = 486

 Score = 42.7 bits (100), Expect = 0.16,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V++  V++D+G  ++GVI   E          E +  GD++ + +    +
Sbjct: 34  GDIVEGTVVKVDHDEVLLDIGYKTEGVIPSRELSIKHDVDPDEVVEVGDQIDALVL--TK 91

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 92  EDKEGRLILS 101


>gi|548664|sp|P36601|RAD51_SCHPO RecName: Full=DNA repair protein rhp51; AltName: Full=RAD51 homolog
 gi|297522|emb|CAA80399.1| Rec A-like Protein [Schizosaccharomyces pombe]
 gi|395378|emb|CAA80879.1| Rad51-like protein [Schizosaccharomyces pombe]
          Length = 365

 Score = 42.7 bits (100), Expect = 0.16,   Method: Composition-based stats.
 Identities = 12/79 (15%), Positives = 31/79 (39%), Gaps = 5/79 (6%)

Query: 337 WTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIA 396
           + +++  EE+++              ++   +       +   G+  VE +A     ++ 
Sbjct: 29  YDVNVQDEEDEAAAGPMPLQ-----MLEGNGITASDIKKIHEAGYYTVESIAYTPKRQLL 83

Query: 397 SIEGFDEETAVEIQGRARE 415
            I+G  E  A ++ G A +
Sbjct: 84  LIKGISEAKADKLLGEASK 102


>gi|120404330|ref|YP_954159.1| 30S ribosomal protein S1 [Mycobacterium vanbaalenii PYR-1]
 gi|119957148|gb|ABM14153.1| SSU ribosomal protein S1P [Mycobacterium vanbaalenii PYR-1]
          Length = 481

 Score = 42.7 bits (100), Expect = 0.16,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 36  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVSVGDEVEALVL--TK 93

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 94  EDKEGRLILS 103


>gi|109947059|ref|YP_664287.1| 30S ribosomal protein S1 [Helicobacter acinonychis str. Sheeba]
 gi|109714280|emb|CAJ99288.1| 30S ribosomal protein S1 [Helicobacter acinonychis str. Sheeba]
          Length = 552

 Score = 42.7 bits (100), Expect = 0.16,   Method: Composition-based stats.
 Identities = 30/174 (17%), Positives = 62/174 (35%), Gaps = 22/174 (12%)

Query: 32  ADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPS- 90
            ++++K           + V IN   G    + ++ V  + E    +++L   +D     
Sbjct: 24  EEALEKGTIK-----EGLIVSINENDG----YAMVSVGGKTE---GRLALSEIKDEKGQL 71

Query: 91  -IDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV 149
                  +   +      R +V   K +  QKV+    +    E  +    II G +   
Sbjct: 72  LYQKNDPIVVHV-SERGERPSVSYKKAISQQKVQAKIEE--LGE--NYENAIIEGKIVGK 126

Query: 150 EYGNVIVDLGNSDGVIRRDET-ISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
             G  IV+    +  + R  + +  +    G  +K+ I  V +E     + +SR
Sbjct: 127 NKGGYIVESQGVEYFLSRSHSSLKNDANHIGKCIKACIIRVDKENH--SINISR 178


>gi|19114794|ref|NP_593882.1| recombinase Rhp51 [Schizosaccharomyces pombe 972h-]
 gi|397843|dbj|BAA02963.1| SpRad51 [Schizosaccharomyces pombe]
 gi|7708593|emb|CAB90141.1| recombinase Rhp51 [Schizosaccharomyces pombe]
          Length = 365

 Score = 42.7 bits (100), Expect = 0.17,   Method: Composition-based stats.
 Identities = 12/79 (15%), Positives = 31/79 (39%), Gaps = 5/79 (6%)

Query: 337 WTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIA 396
           + +++  EE+++              ++   +       +   G+  VE +A     ++ 
Sbjct: 29  YDVNVQDEEDEAAAGPMPLQ-----MLEGNGITASDIKKIHEAGYYTVESIAYTPKRQLL 83

Query: 397 SIEGFDEETAVEIQGRARE 415
            I+G  E  A ++ G A +
Sbjct: 84  LIKGISEAKADKLLGEASK 102


>gi|315107101|gb|EFT79077.1| 30S ribosomal protein S1 [Propionibacterium acnes HL030PA1]
          Length = 498

 Score = 42.7 bits (100), Expect = 0.17,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+SGTV +V+   V++D+G  ++GVI   E          E +  GD  ++ +   ++
Sbjct: 53  GDIVSGTVVKVDRDEVLLDIGYKTEGVIPSKELSIKHDVDPFEVVNVGDEFEALVQ--QK 110

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 111 EDKEGRLILS 120


>gi|145295496|ref|YP_001138317.1| 30S ribosomal protein S1 [Corynebacterium glutamicum R]
 gi|140845416|dbj|BAF54415.1| hypothetical protein [Corynebacterium glutamicum R]
          Length = 486

 Score = 42.7 bits (100), Expect = 0.17,   Method: Composition-based stats.
 Identities = 27/103 (26%), Positives = 48/103 (46%), Gaps = 16/103 (15%)

Query: 111 VQSAKQVIIQKVREAER-----DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGV 164
             +A QV I  +  AE      D     F D  G+I+ G V +V+   V++D+G  ++GV
Sbjct: 3   TNNAPQVAINDIGSAEDFLAAIDATIKYFND--GDIVEGIVVKVDRDEVLLDIGYKTEGV 60

Query: 165 IRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           I   E          E +  GD++ + +    +E +  +++LS
Sbjct: 61  IPSRELSIKHDVDPDEVVEVGDQIDALVL--TKEDKEGRLILS 101


>gi|58581803|ref|YP_200819.1| 30S ribosomal protein S1 [Xanthomonas oryzae pv. oryzae KACC10331]
 gi|84623707|ref|YP_451079.1| 30S ribosomal protein S1 [Xanthomonas oryzae pv. oryzae MAFF
           311018]
 gi|188576640|ref|YP_001913569.1| 30S ribosomal protein S1 [Xanthomonas oryzae pv. oryzae PXO99A]
 gi|58426397|gb|AAW75434.1| 30S ribosomal protein S1 [Xanthomonas oryzae pv. oryzae KACC10331]
 gi|84367647|dbj|BAE68805.1| 30S ribosomal protein S1 [Xanthomonas oryzae pv. oryzae MAFF
           311018]
 gi|188521092|gb|ACD59037.1| ribosomal protein S1 [Xanthomonas oryzae pv. oryzae PXO99A]
          Length = 561

 Score = 42.7 bits (100), Expect = 0.17,   Method: Composition-based stats.
 Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RDP+   G  +   L  +D  R  V  +++ +++     ER++   +   + G I+ G V
Sbjct: 143 RDPAYLEGKELEFKLIKLDRKRNNVVVSRRAVVESEHSEEREQLMDKL--QEGAILKGVV 200

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++   +          E +  GD +   +    RE+ 
Sbjct: 201 KNLTDYGAFVDLGGIDGLLHITDMAWKRVRHPSEVVNVGDELDVRVLKFDRERN 254


>gi|330996791|ref|ZP_08320663.1| 30S ribosomal protein S1 [Paraprevotella xylaniphila YIT 11841]
 gi|329572513|gb|EGG54164.1| 30S ribosomal protein S1 [Paraprevotella xylaniphila YIT 11841]
          Length = 597

 Score = 42.4 bits (99), Expect = 0.17,   Method: Composition-based stats.
 Identities = 33/103 (32%), Positives = 54/103 (52%), Gaps = 7/103 (6%)

Query: 102 PPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV--GEIISGTVKRVEYGNVIVDLG 159
           P  DF   A +S    ++ + REA+    Y    +KV   E++ GTV  +    V+V++G
Sbjct: 9   PLADFDWNAYESG-DTLVNESREAQEKA-YEGSLNKVNDHEVVDGTVIAMNKREVVVNIG 66

Query: 160 -NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
             SDG+I   E     +L+ GD+V+ YI    +E +  Q++LS
Sbjct: 67  FKSDGIIPMSEFRYNPDLKVGDKVEVYIE--NQEDKKGQLILS 107



 Score = 37.7 bits (87), Expect = 5.3,   Method: Composition-based stats.
 Identities = 33/134 (24%), Positives = 59/134 (44%), Gaps = 18/134 (13%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK--VREAERD 128
           E      QI +K  RD D  + +G  +   +  ++      Q  K V++    + EAE +
Sbjct: 150 EAFLPGSQIDVKPIRDYD--VFVGKTMEFKVVKIN------QEFKNVVVSHKALIEAELE 201

Query: 129 RQYLEFKDK--VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGD 180
           +Q  E   K   G+++ GTVK +    V +DLG  DG+I   +         +E ++   
Sbjct: 202 QQKKEIISKLEKGQVLEGTVKNITSYGVFIDLGGVDGLIHITDLSWGRVSDPKEVVQLDQ 261

Query: 181 RVKSYIYDVRREQR 194
           ++   I D   E++
Sbjct: 262 KINVVILDFDDEKK 275


>gi|320170723|gb|EFW47622.1| Rad51 protein [Capsaspora owczarzaki ATCC 30864]
          Length = 337

 Score = 42.4 bits (99), Expect = 0.17,   Method: Composition-based stats.
 Identities = 12/73 (16%), Positives = 32/73 (43%)

Query: 341 IITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEG 400
           ++++EE++ + ++         ++   +       L+  G+  VE +       + +++G
Sbjct: 4   MVSQEEEAYSGEEAMGPMLVSRLEQHGISAADTKKLMEAGYNTVESVVYTPRKTLLTVKG 63

Query: 401 FDEETAVEIQGRA 413
             E  A +I G A
Sbjct: 64  ISEAKADKIIGEA 76


>gi|182419749|ref|ZP_02950989.1| putative 30S ribosomal protein [Clostridium butyricum 5521]
 gi|237666935|ref|ZP_04526920.1| ribosomal protein S1 [Clostridium butyricum E4 str. BoNT E BL5262]
 gi|182376297|gb|EDT73879.1| putative 30S ribosomal protein [Clostridium butyricum 5521]
 gi|237658134|gb|EEP55689.1| ribosomal protein S1 [Clostridium butyricum E4 str. BoNT E BL5262]
          Length = 383

 Score = 42.4 bits (99), Expect = 0.17,   Method: Composition-based stats.
 Identities = 28/145 (19%), Positives = 61/145 (42%), Gaps = 12/145 (8%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG 152
           +G  +   +  +D     + ++++VI ++     +   +     + GE  +G VK++   
Sbjct: 153 VGKEIDVKITELDLNNNKIVASRRVIEEEEYNKNKKVIWNSL--QEGEKRTGVVKKLVKF 210

Query: 153 NVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQ 206
              VD+G  +G+I   +          E ++ GD+V+ +I  V +E+    ++L      
Sbjct: 211 GAFVDIGGVEGLIHLSDLSWERVNKPEEIVKEGDKVEVFIGSVDKEKERLSLIL----KD 266

Query: 207 FMVKLFHMEVPEIYNGIVQVKAVSR 231
              + + +   EI  G V    V R
Sbjct: 267 IAKEPWSVHSGEINEGDVIEGKVVR 291


>gi|305663856|ref|YP_003860144.1| DNA repair and recombination protein RadA [Ignisphaera aggregans
           DSM 17230]
 gi|304378425|gb|ADM28264.1| DNA repair and recombination protein RadA [Ignisphaera aggregans
           DSM 17230]
          Length = 316

 Score = 42.4 bits (99), Expect = 0.17,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 27/72 (37%), Gaps = 3/72 (4%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL---EG 419
           ++ + +   I   L   G   VE LA     E++       +T   +  +AR  L     
Sbjct: 9   LEELGISSTILKKLQEMGITTVEALAAANAQELSQNLAIPLQTVQRLISQARNALGLGLK 68

Query: 420 IDITLQKKIREL 431
             + ++K+   L
Sbjct: 69  TALEIKKERMSL 80


>gi|254172045|ref|ZP_04878721.1| DEAD/DEAH box helicase domain protein [Thermococcus sp. AM4]
 gi|214033941|gb|EEB74767.1| DEAD/DEAH box helicase domain protein [Thermococcus sp. AM4]
          Length = 720

 Score = 42.4 bits (99), Expect = 0.17,   Method: Composition-based stats.
 Identities = 18/77 (23%), Positives = 31/77 (40%), Gaps = 4/77 (5%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
            ++  N+    A  L   GF +VE +A  K +E+  +EG   +    I      YL    
Sbjct: 647 LVKLPNIGRKRARALYNAGFKNVEAIANAKPAELLEVEGIGAKILDGIYR----YLGIEK 702

Query: 422 ITLQKKIRELGVSEELC 438
              ++K +  G  E+  
Sbjct: 703 RVAEEKPKRKGTLEDFL 719


>gi|190347494|gb|EDK39771.2| conserved hypothetical protein [Meyerozyma guilliermondii ATCC
           6260]
          Length = 333

 Score = 42.4 bits (99), Expect = 0.17,   Method: Composition-based stats.
 Identities = 14/76 (18%), Positives = 32/76 (42%), Gaps = 5/76 (6%)

Query: 342 ITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
           +T+E D+ +     ++     ++   +     + L +EGF  +E +A      +  ++G 
Sbjct: 1   MTQEADNDSGPLSIDQ-----LEGNGITMSDINKLKSEGFHTIESIAYTPKKALLQVKGI 55

Query: 402 DEETAVEIQGRAREYL 417
            E  A  I   A + +
Sbjct: 56  SETKADRISAEAAKVV 71


>gi|172040820|ref|YP_001800534.1| 30S ribosomal protein S1 [Corynebacterium urealyticum DSM 7109]
 gi|171852124|emb|CAQ05100.1| 30S ribosomal protein S1 [Corynebacterium urealyticum DSM 7109]
          Length = 486

 Score = 42.4 bits (99), Expect = 0.17,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V++  V++D+G  ++GVI   E          E +  GD + + +    +
Sbjct: 34  GDIVEGTIVKVDHDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVEVGDEIDALVL--TK 91

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 92  EDKEGRLILS 101


>gi|108799971|ref|YP_640168.1| 30S ribosomal protein S1 [Mycobacterium sp. MCS]
 gi|119869083|ref|YP_939035.1| 30S ribosomal protein S1 [Mycobacterium sp. KMS]
 gi|126435599|ref|YP_001071290.1| 30S ribosomal protein S1 [Mycobacterium sp. JLS]
 gi|108770390|gb|ABG09112.1| SSU ribosomal protein S1P [Mycobacterium sp. MCS]
 gi|119695172|gb|ABL92245.1| SSU ribosomal protein S1P [Mycobacterium sp. KMS]
 gi|126235399|gb|ABN98799.1| SSU ribosomal protein S1P [Mycobacterium sp. JLS]
          Length = 479

 Score = 42.4 bits (99), Expect = 0.17,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 36  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVSVGDEVEALVL--TK 93

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 94  EDKEGRLILS 103


>gi|304393050|ref|ZP_07374979.1| ribosomal protein S1 [Ahrensia sp. R2A130]
 gi|303294815|gb|EFL89186.1| ribosomal protein S1 [Ahrensia sp. R2A130]
          Length = 567

 Score = 42.4 bits (99), Expect = 0.17,   Method: Composition-based stats.
 Identities = 32/160 (20%), Positives = 61/160 (38%), Gaps = 14/160 (8%)

Query: 41  SLYGTMSDIRVEI-NPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSD 99
             +     +  +I N   G  ++               Q+ ++  RD  P ++       
Sbjct: 106 KKFEAEEKVEGQIFNQVKGGFTV---DLDGATAFLPRSQVDIRPVRDVTPLMNTPQP--F 160

Query: 100 PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG 159
            +  MD  R  +  +++ I+++ R  +R       +   G+I+ G VK +      VDLG
Sbjct: 161 QILKMDRRRGNIVVSRRAILEETRAEQRSEIVQNLE--EGQIVEGVVKNITDYGAFVDLG 218

Query: 160 NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
             DG++   +          E L+ G+ VK  I  V +E 
Sbjct: 219 GIDGLLHVTDMAWRRVNHPTEILQIGETVKVQIIRVNQET 258


>gi|294790747|ref|ZP_06755905.1| ribosomal protein S1 [Scardovia inopinata F0304]
 gi|294458644|gb|EFG26997.1| ribosomal protein S1 [Scardovia inopinata F0304]
          Length = 494

 Score = 42.4 bits (99), Expect = 0.17,   Method: Composition-based stats.
 Identities = 21/94 (22%), Positives = 51/94 (54%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++ GTV +++   V++D+G  ++GVI   E          + ++ GD +++ +  V +
Sbjct: 36  GDLVEGTVVKIDRDEVLLDIGYKTEGVIPSKELSIKKDVDPEDVVQVGDTIEALV--VTK 93

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  +++LS+   Q+      +E  +  +G+V+
Sbjct: 94  EDKDGRLILSKKRAQYERAWGDVEKIKEADGVVE 127


>gi|146417037|ref|XP_001484488.1| conserved hypothetical protein [Meyerozyma guilliermondii ATCC
           6260]
          Length = 333

 Score = 42.4 bits (99), Expect = 0.17,   Method: Composition-based stats.
 Identities = 14/76 (18%), Positives = 32/76 (42%), Gaps = 5/76 (6%)

Query: 342 ITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
           +T+E D+ +     ++     ++   +     + L +EGF  +E +A      +  ++G 
Sbjct: 1   MTQEADNDSGPLSIDQ-----LEGNGITMSDINKLKSEGFHTIESIAYTPKKALLQVKGI 55

Query: 402 DEETAVEIQGRAREYL 417
            E  A  I   A + +
Sbjct: 56  SETKADRISAEAAKVV 71


>gi|296426052|ref|XP_002842550.1| hypothetical protein [Tuber melanosporum Mel28]
 gi|295638822|emb|CAZ80285.1| unnamed protein product [Tuber melanosporum]
          Length = 265

 Score = 42.4 bits (99), Expect = 0.17,   Method: Composition-based stats.
 Identities = 13/83 (15%), Positives = 30/83 (36%), Gaps = 11/83 (13%)

Query: 342 ITEEEDSINRQKDFNERTQ-----------FFMQAINVDEIIAHLLVAEGFADVEELACV 390
           ++ EE +      F++++              ++   +       +V  G+  VE +A  
Sbjct: 1   MSAEEVAQEGGSQFDDQSTQIGGPGAPTPLSALEGNGISARDIKAVVEAGYNTVEAVAYT 60

Query: 391 KISEIASIEGFDEETAVEIQGRA 413
               +  I+G  E  A ++   A
Sbjct: 61  PKRALLVIKGISEAKADKLIAEA 83


>gi|78048052|ref|YP_364227.1| 30S ribosomal protein S1 [Xanthomonas campestris pv. vesicatoria
           str. 85-10]
 gi|78036482|emb|CAJ24173.1| 30S ribosomal protein S1 [Xanthomonas campestris pv. vesicatoria
           str. 85-10]
          Length = 561

 Score = 42.4 bits (99), Expect = 0.17,   Method: Composition-based stats.
 Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RDP+   G  +   L  +D  R  V  +++ +++     ER++   +   + G I+ G V
Sbjct: 143 RDPAYLEGKELEFKLIKLDRKRNNVVVSRRAVVESEHSEEREQLMDKL--QEGAILKGVV 200

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++   +          E +  GD +   +    RE+ 
Sbjct: 201 KNLTDYGAFVDLGGIDGLLHITDMAWKRVRHPSEVVNVGDELDVRVLKFDRERN 254


>gi|1352292|sp|P49421|DNLJ_RHOMR RecName: Full=DNA ligase; AltName: Full=Polydeoxyribonucleotide
           synthase [NAD+]
 gi|607820|gb|AAA93198.1| DNA ligase [Rhodothermus marinus]
          Length = 712

 Score = 42.4 bits (99), Expect = 0.17,   Method: Composition-based stats.
 Identities = 24/66 (36%), Positives = 36/66 (54%), Gaps = 4/66 (6%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           V +  A LLV   FA ++ELA   I E+A++EG    TA  I   A  +    +  L ++
Sbjct: 561 VGKTTAELLVQR-FASIDELAAATIDELAALEGVGPITAESI---ANWFRVEDNRRLIEE 616

Query: 428 IRELGV 433
           ++ELGV
Sbjct: 617 LKELGV 622


>gi|323309417|gb|EGA62634.1| Rad51p [Saccharomyces cerevisiae FostersO]
          Length = 400

 Score = 42.4 bits (99), Expect = 0.18,   Method: Composition-based stats.
 Identities = 13/71 (18%), Positives = 27/71 (38%), Gaps = 3/71 (4%)

Query: 346 EDSINRQKDFNERTQFFMQAINVDEI-IAHL--LVAEGFADVEELACVKISEIASIEGFD 402
           E       +    +   ++ + V+ I +A +  L   G    E +A     ++  I+G  
Sbjct: 66  EMEDEAYDEAALGSFVPIEKLQVNGITMADVKKLRESGLHTAEAVAYAPRKDLLEIKGIS 125

Query: 403 EETAVEIQGRA 413
           E  A ++   A
Sbjct: 126 EAKADKLLNEA 136


>gi|321471848|gb|EFX82820.1| hypothetical protein DAPPUDRAFT_299714 [Daphnia pulex]
          Length = 341

 Score = 42.4 bits (99), Expect = 0.18,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 23/53 (43%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           ++   +       L   G+  VE +A V    + +I+G  E  A +I   A++
Sbjct: 30  LEGNGISGADIKKLQEAGYHTVESVAYVPKKTLITIKGVSEAKADKIIAEAQK 82


>gi|307292731|ref|ZP_07572577.1| ribosomal protein S1 [Sphingobium chlorophenolicum L-1]
 gi|306880797|gb|EFN12013.1| ribosomal protein S1 [Sphingobium chlorophenolicum L-1]
          Length = 570

 Score = 42.4 bits (99), Expect = 0.18,   Method: Composition-based stats.
 Identities = 35/156 (22%), Positives = 60/156 (38%), Gaps = 16/156 (10%)

Query: 47  SDIRVE---INPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPP 103
            + RVE        G  ++     V         Q+ ++  RD  P +DI       +  
Sbjct: 112 ENARVEGVIFGRVKGGFTVDLDGAVA---FLPGSQVDIRPVRDVTPLMDIPQP--FQILK 166

Query: 104 MDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG 163
           MD  R  +  +++ I+++ R  +R           G+II G VK +      VDLG  DG
Sbjct: 167 MDRRRGNIVVSRRAILEETRAEQRSGLIQTLA--EGQIIEGVVKNITDYGAFVDLGGIDG 224

Query: 164 VIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           ++   +          E +  GD V+  I  + R+ 
Sbjct: 225 LLHVTDLSYKRINHPNEMINIGDTVRVQIIRINRDT 260



 Score = 37.4 bits (86), Expect = 6.2,   Method: Composition-based stats.
 Identities = 21/87 (24%), Positives = 35/87 (40%), Gaps = 8/87 (9%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDE-TISREN--LRPGDRVKSYIYDVRREQ 193
            G ++ GTV  +E    ++D+G  S+G +   E     +   L+ GD V+ Y+  V    
Sbjct: 28  EGRVVKGTVTGIENDMALIDVGLKSEGRVPLREFAAPGQKADLKVGDEVEVYVDRVENAH 87

Query: 194 RGPQVLLS--RTHPQFMVKLFHMEVPE 218
                +LS  R   +        E  E
Sbjct: 88  GEA--MLSRDRARREAAWDKLESEFTE 112


>gi|268316781|ref|YP_003290500.1| DNA ligase, NAD-dependent [Rhodothermus marinus DSM 4252]
 gi|262334315|gb|ACY48112.1| DNA ligase, NAD-dependent [Rhodothermus marinus DSM 4252]
          Length = 712

 Score = 42.4 bits (99), Expect = 0.18,   Method: Composition-based stats.
 Identities = 24/66 (36%), Positives = 36/66 (54%), Gaps = 4/66 (6%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           V +  A LLV   FA ++ELA   I E+A++EG    TA  I   A  +    +  L ++
Sbjct: 561 VGKTTAELLVQR-FASIDELAAATIDELAALEGVGPITAESI---ANWFRVEDNRRLIEE 616

Query: 428 IRELGV 433
           ++ELGV
Sbjct: 617 LKELGV 622


>gi|166712378|ref|ZP_02243585.1| 30S ribosomal protein S1 [Xanthomonas oryzae pv. oryzicola BLS256]
          Length = 561

 Score = 42.4 bits (99), Expect = 0.18,   Method: Composition-based stats.
 Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RDP+   G  +   L  +D  R  V  +++ +++     ER++   +   + G I+ G V
Sbjct: 143 RDPAYLEGKELEFKLIKLDRKRNNVVVSRRAVVESEHSEEREQLMDKL--QEGAILKGVV 200

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++   +          E +  GD +   +    RE+ 
Sbjct: 201 KNLTDYGAFVDLGGIDGLLHITDMAWKRVRHPSEVVNVGDELDVRVLKFDRERN 254


>gi|154502539|ref|ZP_02039599.1| hypothetical protein RUMGNA_00352 [Ruminococcus gnavus ATCC 29149]
 gi|153796935|gb|EDN79355.1| hypothetical protein RUMGNA_00352 [Ruminococcus gnavus ATCC 29149]
          Length = 358

 Score = 42.4 bits (99), Expect = 0.18,   Method: Composition-based stats.
 Identities = 27/132 (20%), Positives = 57/132 (43%), Gaps = 12/132 (9%)

Query: 81  LKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGE 140
           +  + ++D S   G  +   +   +  R  V   ++ ++   R  ++   + +   +VG+
Sbjct: 138 VSDSYEKDLSKYEGQEIEFVISEFNPRRNRVIGDRRQLLVAERAEKQKELFAKL--QVGD 195

Query: 141 IISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
            + GTVK V      +DLG  DG++   E         ++  + GD+VK  + D+     
Sbjct: 196 TVEGTVKNVTDFGAFIDLGGVDGLLHISEMSWGRVENPKKVFQVGDQVKVLVKDINDT-- 253

Query: 195 GPQVLLSRTHPQ 206
             ++ LS   P+
Sbjct: 254 --KIALSLKFPE 263


>gi|325915995|ref|ZP_08178288.1| SSU ribosomal protein S1P [Xanthomonas vesicatoria ATCC 35937]
 gi|325537805|gb|EGD09508.1| SSU ribosomal protein S1P [Xanthomonas vesicatoria ATCC 35937]
          Length = 562

 Score = 42.4 bits (99), Expect = 0.18,   Method: Composition-based stats.
 Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RDP+   G  +   L  +D  R  V  +++ +++     ER++   +   + G I+ G V
Sbjct: 143 RDPAYLEGKELEFKLIKLDRKRNNVVVSRRAVVESEHSEEREQLMDKL--QEGAILKGVV 200

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++   +          E +  GD +   +    RE+ 
Sbjct: 201 KNLTDYGAFVDLGGIDGLLHITDMAWKRVRHPSEVVNVGDELDVRVLKFDRERN 254


>gi|170289126|ref|YP_001739364.1| RNA-binding S1 domain-containing protein [Thermotoga sp. RQ2]
 gi|170176629|gb|ACB09681.1| RNA binding S1 domain protein [Thermotoga sp. RQ2]
          Length = 543

 Score = 42.4 bits (99), Expect = 0.18,   Method: Composition-based stats.
 Identities = 21/106 (19%), Positives = 41/106 (38%), Gaps = 10/106 (9%)

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPG 179
            +     +   V  +++G V  +      V+L    +G +   E          E L+ G
Sbjct: 349 WENIEDRYN--VNNVVTGKVTGIIKQGAFVELEEGVEGFVPVSEISWKRIDEPGEILKIG 406

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVK-LFHMEVPEIYNGIV 224
           ++VK  I  + +E R   + + RT      + L  +E   I +G +
Sbjct: 407 EKVKVKILKIDKENRKITLSIKRTQENPWERALKELETDSIVSGTI 452


>gi|311262877|ref|XP_003129397.1| PREDICTED: helicase POLQ-like [Sus scrofa]
          Length = 1119

 Score = 42.4 bits (99), Expect = 0.18,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 28/71 (39%), Gaps = 1/71 (1%)

Query: 362  FMQAINVDEIIAHLLVAEGFADVEELACVKISEIA-SIEGFDEETAVEIQGRAREYLEGI 420
             M+   V E  A  L   G+  +  LA      +  +I+      A +I   A+  L   
Sbjct: 1031 LMEVAGVLEGRAKQLYNAGYKSLAHLANADPEVLIRTIDHLSRRQAKQIVSSAKMLLHEK 1090

Query: 421  DITLQKKIREL 431
               LQ+++ EL
Sbjct: 1091 AEALQEEVEEL 1101


>gi|293374966|ref|ZP_06621261.1| putative ribosomal protein S1 [Turicibacter sanguinis PC909]
 gi|325843363|ref|ZP_08167946.1| putative ribosomal protein S1 [Turicibacter sp. HGF1]
 gi|292646376|gb|EFF64391.1| putative ribosomal protein S1 [Turicibacter sanguinis PC909]
 gi|325489392|gb|EGC91765.1| putative ribosomal protein S1 [Turicibacter sp. HGF1]
          Length = 559

 Score = 42.4 bits (99), Expect = 0.18,   Method: Composition-based stats.
 Identities = 23/72 (31%), Positives = 37/72 (51%), Gaps = 11/72 (15%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDET------ISRENLRPGDRVKSYIYDVR 190
           V +I+ G V RV    V VD+G  ++G I  +E        +++ ++ GD +K+    V 
Sbjct: 28  VNDIVEGVVVRVSNQEVTVDIGGATEGTIYLNELTLDKVESAKDVVKVGDTIKAMAKKVD 87

Query: 191 REQRGPQVLLSR 202
            E    Q+LLSR
Sbjct: 88  DE----QILLSR 95


>gi|282880197|ref|ZP_06288916.1| 30S ribosomal protein S1 [Prevotella timonensis CRIS 5C-B1]
 gi|281305917|gb|EFA97958.1| 30S ribosomal protein S1 [Prevotella timonensis CRIS 5C-B1]
          Length = 591

 Score = 42.4 bits (99), Expect = 0.18,   Method: Composition-based stats.
 Identities = 25/77 (32%), Positives = 42/77 (54%), Gaps = 5/77 (6%)

Query: 128 DRQYLEFKDK--VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
            + Y E  +K    ++  GTV  ++   VIV++G  SDG+I   E     +L+ GD+V+ 
Sbjct: 32  AKMYDETLNKVSEHQVTEGTVISIDKKEVIVNIGYKSDGIIPASEFRYNPDLKIGDKVEV 91

Query: 185 YIYDVRREQRGPQVLLS 201
           Y+    +E R  Q++LS
Sbjct: 92  YVE--NQEDRKGQLVLS 106


>gi|227833197|ref|YP_002834904.1| 30S ribosomal protein S1 [Corynebacterium aurimucosum ATCC 700975]
 gi|262184183|ref|ZP_06043604.1| 30S ribosomal protein S1 [Corynebacterium aurimucosum ATCC 700975]
 gi|227454213|gb|ACP32966.1| 30S ribosomal protein S1 [Corynebacterium aurimucosum ATCC 700975]
          Length = 486

 Score = 42.4 bits (99), Expect = 0.18,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V++  V++D+G  ++GVI   E          E +  GD + + +    +
Sbjct: 34  GDIVEGTVVKVDHDEVLLDIGYKTEGVIPSRELSIKHDVNPDEVVEVGDEIDALVL--TK 91

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 92  EDKEGRLILS 101


>gi|332702711|ref|ZP_08422799.1| ribosomal protein S1 [Desulfovibrio africanus str. Walvis Bay]
 gi|332552860|gb|EGJ49904.1| ribosomal protein S1 [Desulfovibrio africanus str. Walvis Bay]
          Length = 590

 Score = 42.4 bits (99), Expect = 0.18,   Method: Composition-based stats.
 Identities = 22/117 (18%), Positives = 50/117 (42%), Gaps = 8/117 (6%)

Query: 88  DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVK 147
           D    +G      +  ++  R  V  +++V++++ RE  R           G++++G VK
Sbjct: 166 DMDALVGKDYEFRVLKINRRRSNVIVSRRVLLEEQREHMRKELLETLS--EGQVVTGKVK 223

Query: 148 RVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQV 198
            +    V VDLG  DG++   +         +E +  GD ++  +    ++ +   +
Sbjct: 224 NITEYGVFVDLGGLDGLLHITDMSWRRIRHPKEMVGLGDELELKVLSFDKDNKKVSL 280



 Score = 38.5 bits (89), Expect = 2.8,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 39/68 (57%), Gaps = 6/68 (8%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDE---TISRENLRPGDRVKSYIYDVRREQR 194
           G I+SG V +++  +V+VD+   S+G +   E   +     ++ GD+V  ++  VR+++ 
Sbjct: 44  GNIVSGEVVKIDTDHVLVDVNFKSEGQLPIGEFTDSNGNVTVKVGDKVDVFV--VRKDEV 101

Query: 195 GPQVLLSR 202
              ++LSR
Sbjct: 102 EGTIVLSR 109


>gi|21243033|ref|NP_642615.1| 30S ribosomal protein S1 [Xanthomonas axonopodis pv. citri str.
           306]
 gi|289665787|ref|ZP_06487368.1| 30S ribosomal protein S1 [Xanthomonas campestris pv. vasculorum
           NCPPB702]
 gi|289671206|ref|ZP_06492281.1| 30S ribosomal protein S1 [Xanthomonas campestris pv. musacearum
           NCPPB4381]
 gi|294624737|ref|ZP_06703403.1| 30S ribosomal protein S1 [Xanthomonas fuscans subsp. aurantifolii
           str. ICPB 11122]
 gi|294664331|ref|ZP_06729696.1| 30S ribosomal protein S1 [Xanthomonas fuscans subsp. aurantifolii
           str. ICPB 10535]
 gi|325925941|ref|ZP_08187309.1| SSU ribosomal protein S1P [Xanthomonas perforans 91-118]
 gi|21108543|gb|AAM37151.1| 30S ribosomal protein S1 [Xanthomonas axonopodis pv. citri str.
           306]
 gi|292600971|gb|EFF45042.1| 30S ribosomal protein S1 [Xanthomonas fuscans subsp. aurantifolii
           str. ICPB 11122]
 gi|292605897|gb|EFF49183.1| 30S ribosomal protein S1 [Xanthomonas fuscans subsp. aurantifolii
           str. ICPB 10535]
 gi|325543664|gb|EGD15079.1| SSU ribosomal protein S1P [Xanthomonas perforans 91-118]
          Length = 561

 Score = 42.4 bits (99), Expect = 0.18,   Method: Composition-based stats.
 Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RDP+   G  +   L  +D  R  V  +++ +++     ER++   +   + G I+ G V
Sbjct: 143 RDPAYLEGKELEFKLIKLDRKRNNVVVSRRAVVESEHSEEREQLMDKL--QEGAILKGVV 200

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++   +          E +  GD +   +    RE+ 
Sbjct: 201 KNLTDYGAFVDLGGIDGLLHITDMAWKRVRHPSEVVNVGDELDVRVLKFDRERN 254


>gi|300858350|ref|YP_003783333.1| 30S ribosomal protein S1 [Corynebacterium pseudotuberculosis FRC41]
 gi|300685804|gb|ADK28726.1| 30S ribosomal protein S1 [Corynebacterium pseudotuberculosis FRC41]
 gi|302206068|gb|ADL10410.1| 30S ribosomal protein S1 [Corynebacterium pseudotuberculosis C231]
 gi|302330619|gb|ADL20813.1| 30S ribosomal protein S1 [Corynebacterium pseudotuberculosis 1002]
 gi|308276305|gb|ADO26204.1| 30S ribosomal protein S1 [Corynebacterium pseudotuberculosis I19]
          Length = 487

 Score = 42.4 bits (99), Expect = 0.18,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V++  V++D+G  ++GVI   E          E +  GD++ + +    +
Sbjct: 34  GDIVEGTVVKVDHDEVLLDIGYKTEGVIPSRELSIKHDVDPDEVVEVGDQIDALVL--TK 91

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 92  EDKEGRLILS 101


>gi|294979775|pdb|3LDA|A Chain A, Yeast Rad51 H352y Filament Interface Mutant
          Length = 400

 Score = 42.4 bits (99), Expect = 0.18,   Method: Composition-based stats.
 Identities = 13/71 (18%), Positives = 27/71 (38%), Gaps = 3/71 (4%)

Query: 346 EDSINRQKDFNERTQFFMQAINVDEI-IAHL--LVAEGFADVEELACVKISEIASIEGFD 402
           E       +    +   ++ + V+ I +A +  L   G    E +A     ++  I+G  
Sbjct: 66  EMEDEAYDEAALGSFVPIEKLQVNGITMADVKKLRESGLHTAEAVAYAPRKDLLEIKGIS 125

Query: 403 EETAVEIQGRA 413
           E  A ++   A
Sbjct: 126 EAKADKLLNEA 136


>gi|291550296|emb|CBL26558.1| Ribosomal protein S1 [Ruminococcus torques L2-14]
          Length = 358

 Score = 42.4 bits (99), Expect = 0.18,   Method: Composition-based stats.
 Identities = 30/146 (20%), Positives = 59/146 (40%), Gaps = 12/146 (8%)

Query: 67  EVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
             V+EV  +     +  + ++D S   G  +   +   +  R  V   ++ ++   R  +
Sbjct: 124 TTVDEVRVFIPASLVSDSYEKDLSKYEGQEIEFVISEFNPRRNRVIGDRRQLLVAERAEK 183

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGD 180
           +   + +    VG+ + GTVK V      VDLG  DG++   E         ++    GD
Sbjct: 184 QKELFAKLN--VGDTVEGTVKNVTDFGAFVDLGGVDGLLHISEMSWGRVDNPKKVFHVGD 241

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQ 206
            +K  + D+       ++ LS   P+
Sbjct: 242 TLKVLVKDIHDT----KIALSLKFPE 263


>gi|257053513|ref|YP_003131346.1| PHP domain protein [Halorhabdus utahensis DSM 12940]
 gi|256692276|gb|ACV12613.1| PHP domain protein [Halorhabdus utahensis DSM 12940]
          Length = 580

 Score = 42.4 bits (99), Expect = 0.18,   Method: Composition-based stats.
 Identities = 41/185 (22%), Positives = 73/185 (39%), Gaps = 18/185 (9%)

Query: 352 QKDFNERTQFFMQAINVDEII--------AHLLVAEGFADVEELACVKISEIASIEGFDE 403
             +   R + F   ++  ++         A   VAE   DV +LA   +  +  I+   E
Sbjct: 4   NAELAARLEEFADLLDAKDVEYKPRAYRRAAENVAEYPGDVVDLAEDGVEAVQEIDRVGE 63

Query: 404 ETAVEIQGRAREYLEGIDITLQKKIR-ELGVS-EELCSIPGIDSKIKVALGEN-GIKTME 460
             A ++     EY+E   I   + +R EL V  + L S+ G+  K    L E  GI+T++
Sbjct: 64  AIADKLV----EYVETGAIEELEDLRAELPVEMDALTSVEGVGPKTVGTLYEALGIQTLD 119

Query: 461 DLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVE-SMIIHARYKMGWIEKEKVAD 519
           DL   +  +        G   +     L  +   ++  E  ++  AR +   + +   A 
Sbjct: 120 DLE--AAAEAGEIQNVSGFGAKTEQNILDGIDFAREAHERQLLGEARPRGERVREYLRAV 177

Query: 520 EEVQD 524
           E VQ 
Sbjct: 178 EAVQQ 182


>gi|151944813|gb|EDN63072.1| radiation sensitive protein [Saccharomyces cerevisiae YJM789]
 gi|256271447|gb|EEU06501.1| Rad51p [Saccharomyces cerevisiae JAY291]
 gi|323305264|gb|EGA59011.1| Rad51p [Saccharomyces cerevisiae FostersB]
          Length = 400

 Score = 42.4 bits (99), Expect = 0.18,   Method: Composition-based stats.
 Identities = 13/71 (18%), Positives = 27/71 (38%), Gaps = 3/71 (4%)

Query: 346 EDSINRQKDFNERTQFFMQAINVDEI-IAHL--LVAEGFADVEELACVKISEIASIEGFD 402
           E       +    +   ++ + V+ I +A +  L   G    E +A     ++  I+G  
Sbjct: 66  EMEDEAYDEAALGSFVPIEKLQVNGITMADVKKLRESGLHTAEAVAYAPRKDLLEIKGIS 125

Query: 403 EETAVEIQGRA 413
           E  A ++   A
Sbjct: 126 EAKADKLLNEA 136


>gi|148270479|ref|YP_001244939.1| RNA-binding S1 domain-containing protein [Thermotoga petrophila
           RKU-1]
 gi|147736023|gb|ABQ47363.1| RNA binding S1 domain protein [Thermotoga petrophila RKU-1]
          Length = 543

 Score = 42.4 bits (99), Expect = 0.18,   Method: Composition-based stats.
 Identities = 32/115 (27%), Positives = 55/115 (47%), Gaps = 14/115 (12%)

Query: 99  DPLPPMDFGRVA---VQSAKQVIIQKVREAERDRQYLEF--KDKVGEIISGTVKRVEYGN 153
           DP+P  +   +    VQ+ +   I   R A +DR+  EF  + KVG+II GTVK +    
Sbjct: 141 DPIPEKEIEVIILEMVQTKRGSRIVVSRRALQDRKIEEFFSEKKVGDIIEGTVKGISNAG 200

Query: 154 VIVDL-GNSDGVIRRDE------TISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           V V++     G I + E          + ++PG  + + I ++   ++   V+LS
Sbjct: 201 VEVEISEGIRGFIPKSELSYDNRISPEDVVKPGQNITAKIIELDERKKN--VILS 253



 Score = 41.6 bits (97), Expect = 0.31,   Method: Composition-based stats.
 Identities = 20/107 (18%), Positives = 40/107 (37%), Gaps = 10/107 (9%)

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPG 179
            +     +   V  +++G V  +      V+L    +G +   E          E L+ G
Sbjct: 349 WENIEDRYN--VNNVVTGKVTGIIKQGAFVELEEGVEGFVPVSEISWKRIDEPGEILKIG 406

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPE-IYNGIVQ 225
           ++VK  I  + +E R   + + RT      +      P+ I  G ++
Sbjct: 407 EKVKVKILKIDKENRKITLSIRRTQENPWERALKELKPDSIVRGTIE 453



 Score = 39.3 bits (91), Expect = 1.8,   Method: Composition-based stats.
 Identities = 23/93 (24%), Positives = 43/93 (46%), Gaps = 8/93 (8%)

Query: 127 RDRQYLEFKD---KVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISR-ENLRPGDR 181
            D    +++    + G+I++G V   E G V+VD  G S+G +  +E I   +  + G+ 
Sbjct: 7   NDEILSQYEPEEFRRGQIVTGVVIGKEDGGVVVDFGGKSEGFVPENELIKSLDEYKVGEN 66

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHM 214
           +   I ++  E+R    +LS   P     L  +
Sbjct: 67  LTLQILNLNYEERS---ILSERRPVLRKTLEEL 96


>gi|118472813|ref|YP_888124.1| 30S ribosomal protein S1 [Mycobacterium smegmatis str. MC2 155]
 gi|118174100|gb|ABK74996.1| 30S ribosomal protein S1 [Mycobacterium smegmatis str. MC2 155]
          Length = 479

 Score = 42.4 bits (99), Expect = 0.18,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 36  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVSVGDEVEALVL--TK 93

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 94  EDKEGRLILS 103


>gi|6320942|ref|NP_011021.1| Rad51p [Saccharomyces cerevisiae S288c]
 gi|131783|sp|P25454|RAD51_YEAST RecName: Full=DNA repair protein RAD51
 gi|4275|emb|CAA45563.1| RAD51 [Saccharomyces cerevisiae]
 gi|172339|gb|AAA34948.1| RAD51 protein [Saccharomyces cerevisiae]
 gi|218469|dbj|BAA00913.1| Rad51 protein [Saccharomyces cerevisiae]
 gi|603333|gb|AAB64650.1| Rad51p: RecA-like protein [Saccharomyces cerevisiae]
 gi|190405660|gb|EDV08927.1| DNA repair protein RAD51 [Saccharomyces cerevisiae RM11-1a]
 gi|207345902|gb|EDZ72571.1| YER095Wp-like protein [Saccharomyces cerevisiae AWRI1631]
 gi|259146020|emb|CAY79280.1| Rad51p [Saccharomyces cerevisiae EC1118]
 gi|285811729|tpg|DAA07757.1| TPA: Rad51p [Saccharomyces cerevisiae S288c]
 gi|323333774|gb|EGA75165.1| Rad51p [Saccharomyces cerevisiae AWRI796]
 gi|323355292|gb|EGA87117.1| Rad51p [Saccharomyces cerevisiae VL3]
          Length = 400

 Score = 42.4 bits (99), Expect = 0.18,   Method: Composition-based stats.
 Identities = 13/71 (18%), Positives = 27/71 (38%), Gaps = 3/71 (4%)

Query: 346 EDSINRQKDFNERTQFFMQAINVDEI-IAHL--LVAEGFADVEELACVKISEIASIEGFD 402
           E       +    +   ++ + V+ I +A +  L   G    E +A     ++  I+G  
Sbjct: 66  EMEDEAYDEAALGSFVPIEKLQVNGITMADVKKLRESGLHTAEAVAYAPRKDLLEIKGIS 125

Query: 403 EETAVEIQGRA 413
           E  A ++   A
Sbjct: 126 EAKADKLLNEA 136


>gi|284163506|ref|YP_003401785.1| DNA repair and recombination protein RadA [Haloterrigena turkmenica
           DSM 5511]
 gi|284013161|gb|ADB59112.1| DNA repair and recombination protein RadA [Haloterrigena turkmenica
           DSM 5511]
          Length = 343

 Score = 42.4 bits (99), Expect = 0.18,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 22/57 (38%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
                 V    A  L   GF   + LA    SE+++     E TA +I   AR+  +
Sbjct: 6   LETLPGVGPATADKLHDAGFDSYQSLAVASPSELSNTADVGESTASDIVRAARDAAD 62


>gi|160936405|ref|ZP_02083774.1| hypothetical protein CLOBOL_01297 [Clostridium bolteae ATCC
           BAA-613]
 gi|158440688|gb|EDP18426.1| hypothetical protein CLOBOL_01297 [Clostridium bolteae ATCC
           BAA-613]
          Length = 663

 Score = 42.4 bits (99), Expect = 0.18,   Method: Composition-based stats.
 Identities = 33/159 (20%), Positives = 65/159 (40%), Gaps = 30/159 (18%)

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ-------- 120
           V +V +    + ++ AR   P+  +           D  + A Q    VI +        
Sbjct: 405 VAQVLDGGLSVEVEGARVFIPASLVSDSYE-----KDLSKYAGQDIDFVITEFNPKRRRI 459

Query: 121 -----KVREAERDRQYLEFKDKV--GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI-- 171
                ++  A++ +   E   ++  G+ + GTVK V      +DLG +DG++   E    
Sbjct: 460 IGDRKQLLVAQKAKLKEELFARIQPGDTVDGTVKNVTDFGAFIDLGGADGLLHISEMSWG 519

Query: 172 ----SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQ 206
                ++  + GD+V+  I D++    G ++ LS   P+
Sbjct: 520 RVENPKKVFKAGDQVRVLIKDIQ----GEKIALSLKFPE 554


>gi|307189125|gb|EFN73581.1| Insulin-like growth factor 2 mRNA-binding protein 1 [Camponotus
           floridanus]
          Length = 587

 Score = 42.4 bits (99), Expect = 0.19,   Method: Composition-based stats.
 Identities = 32/134 (23%), Positives = 58/134 (43%), Gaps = 37/134 (27%)

Query: 249 DPVGACVGMRGSRVQAVVT-----------------ELRDE-KIDIV-----VWSPDSAT 285
           + VGA +G +GS ++ ++                  E + E K+ I+      W    A 
Sbjct: 374 NSVGAIIGTKGSHIRNIIRFSGASVKIAPLEQDKPAEQQTERKVTIIGSPESQW---KAQ 430

Query: 286 FVI-NAL----RPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
           ++I   +      A    V L      IE++VP  Q+   IG+ GQNVR   ++TG  I 
Sbjct: 431 YLIFEKMREEGYVAGTEDVRL-----TIEILVPSTQVGRIIGKGGQNVRELQRVTGSVIK 485

Query: 341 IITEEEDSINRQKD 354
           + +E++ +    ++
Sbjct: 486 L-SEQQATPPSAEE 498


>gi|256071033|ref|XP_002571846.1| DNA repair protein RAD51 [Schistosoma mansoni]
 gi|238656994|emb|CAZ28076.1| DNA repair protein RAD51, putative [Schistosoma mansoni]
          Length = 338

 Score = 42.4 bits (99), Expect = 0.19,   Method: Composition-based stats.
 Identities = 16/75 (21%), Positives = 30/75 (40%), Gaps = 3/75 (4%)

Query: 344 EEEDSINRQKDFNERTQFFMQAINVDEIIA---HLLVAEGFADVEELACVKISEIASIEG 400
           E   +++ + D        +Q +    I A     L   GF  VE +  V    + +++G
Sbjct: 5   ESNCAVDDRVDDENCGPLLIQKLESAGIAAADVKKLREAGFHTVESIQFVPKKTLLAVKG 64

Query: 401 FDEETAVEIQGRARE 415
             E  A +I   A++
Sbjct: 65  ISEAKADKIIEAAQK 79


>gi|145224145|ref|YP_001134823.1| 30S ribosomal protein S1 [Mycobacterium gilvum PYR-GCK]
 gi|315444481|ref|YP_004077360.1| 30S ribosomal protein S1P [Mycobacterium sp. Spyr1]
 gi|145216631|gb|ABP46035.1| SSU ribosomal protein S1P [Mycobacterium gilvum PYR-GCK]
 gi|315262784|gb|ADT99525.1| SSU ribosomal protein S1P [Mycobacterium sp. Spyr1]
          Length = 481

 Score = 42.4 bits (99), Expect = 0.19,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 36  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVSVGDEVEALVL--TK 93

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 94  EDKEGRLILS 103


>gi|296119662|ref|ZP_06838220.1| ribosomal protein S1 [Corynebacterium ammoniagenes DSM 20306]
 gi|295967545|gb|EFG80812.1| ribosomal protein S1 [Corynebacterium ammoniagenes DSM 20306]
          Length = 489

 Score = 42.4 bits (99), Expect = 0.19,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V++  V++D+G  ++GVI   E          E +  GD++ + +    +
Sbjct: 34  GDIVEGTVVKVDHDEVLLDIGYKTEGVIPSRELSIKHDVDPDEVVEVGDQIDALVL--TK 91

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 92  EDKEGRLILS 101


>gi|283778801|ref|YP_003369556.1| PHP domain-containing protein [Pirellula staleyi DSM 6068]
 gi|283437254|gb|ADB15696.1| PHP domain protein [Pirellula staleyi DSM 6068]
          Length = 578

 Score = 42.4 bits (99), Expect = 0.19,   Method: Composition-based stats.
 Identities = 22/83 (26%), Positives = 39/83 (46%), Gaps = 7/83 (8%)

Query: 383 DVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSE--ELCSI 440
            + ELA   ++ +  IEG  ++ A +I       +E   + +  ++R         L  I
Sbjct: 43  SLAELAQQGVAALKEIEGIGDDLAAKIIAM----VETGKLAMLDELRSQVPESVLALLRI 98

Query: 441 PGIDSKIKVAL-GENGIKTMEDL 462
           PG+  K   AL  E G+K++E+L
Sbjct: 99  PGVGPKKAAALYKELGVKSLEEL 121


>gi|198420226|ref|XP_002126959.1| PREDICTED: similar to RAD51 homolog isoform 2 [Ciona intestinalis]
          Length = 250

 Score = 42.4 bits (99), Expect = 0.19,   Method: Composition-based stats.
 Identities = 13/62 (20%), Positives = 23/62 (37%), Gaps = 1/62 (1%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVE-IQGRAREYLEGID 421
           ++   +       L   G+  VE LA     E+  ++G  E  A + I   A+  L  + 
Sbjct: 27  LEQSGISAGDIKKLKEHGYHTVEALAYAPKKELIGVKGISEAKADKIIIEAAKLRLLAVA 86

Query: 422 IT 423
             
Sbjct: 87  ER 88


>gi|7579906|gb|AAF64246.1| 30S ribosomal protein S1 [Corynebacterium stationis]
          Length = 489

 Score = 42.4 bits (99), Expect = 0.19,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V++  V++D+G  ++GVI   E          E +  GD++ + +    +
Sbjct: 34  GDIVEGTVVKVDHDEVLLDIGYKTEGVIPSRELSIKHDVDPDEVVEVGDQIDALVL--TK 91

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 92  EDKEGRLILS 101


>gi|302336104|ref|YP_003801311.1| SSU ribosomal protein S1P [Olsenella uli DSM 7084]
 gi|301319944|gb|ADK68431.1| SSU ribosomal protein S1P [Olsenella uli DSM 7084]
          Length = 392

 Score = 42.4 bits (99), Expect = 0.19,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 41/71 (57%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
            G++++GTV ++E+  V++D+G  S+GVI   E          E +  GD +++ +   +
Sbjct: 33  EGDLVTGTVVKIEHDEVLLDIGFKSEGVIPSRELSIRKDVNPEEVVALGDTIEALVL--Q 90

Query: 191 REQRGPQVLLS 201
           +E +  +++LS
Sbjct: 91  KEDKEGRLILS 101


>gi|296196119|ref|XP_002745688.1| PREDICTED: helicase POLQ-like [Callithrix jacchus]
          Length = 1101

 Score = 42.4 bits (99), Expect = 0.19,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 29/71 (40%), Gaps = 1/71 (1%)

Query: 362  FMQAINVDEIIAHLLVAEGFADVEELACVKISEIA-SIEGFDEETAVEIQGRAREYLEGI 420
             M+   V E  A  L + G+  +  LA      +  +I+      A +I   A+  L   
Sbjct: 1013 LMEVTGVLEGRAKQLYSAGYKSLTHLANANPEVLIRTIDHLSRRQAKQIVSSAKMLLHEK 1072

Query: 421  DITLQKKIREL 431
               LQ+++ EL
Sbjct: 1073 AEALQEEVEEL 1083


>gi|323340744|ref|ZP_08080996.1| 30S ribosomal protein S1 [Lactobacillus ruminis ATCC 25644]
 gi|323091867|gb|EFZ34487.1| 30S ribosomal protein S1 [Lactobacillus ruminis ATCC 25644]
          Length = 395

 Score = 42.4 bits (99), Expect = 0.19,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 47/113 (41%), Gaps = 8/113 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
            D +   G  +   +  ++     +  + + I+Q+ REA +     +    VG+++ G V
Sbjct: 147 EDLNQYKGQELELKIVELEPSENRLILSHKEIVQQEREANKKAVLDKLV--VGDVVEGKV 204

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
            R+      +DLG  DG++   E          + L+ G  VK  +  V  E+
Sbjct: 205 ARLTNFGAFIDLGGVDGLVHVSEISFERVGKPSDVLKVGQDVKVKVLAVDPEK 257


>gi|21231633|ref|NP_637550.1| 30S ribosomal protein S1 [Xanthomonas campestris pv. campestris
           str. ATCC 33913]
 gi|66768245|ref|YP_243007.1| 30S ribosomal protein S1 [Xanthomonas campestris pv. campestris
           str. 8004]
 gi|188991381|ref|YP_001903391.1| 30S ribosomal protein S1 [Xanthomonas campestris pv. campestris
           str. B100]
 gi|21113326|gb|AAM41474.1| 30S ribosomal protein S1 [Xanthomonas campestris pv. campestris
           str. ATCC 33913]
 gi|66573577|gb|AAY48987.1| 30S ribosomal protein S1 [Xanthomonas campestris pv. campestris
           str. 8004]
 gi|167733141|emb|CAP51339.1| 30S ribosomal protein S1 [Xanthomonas campestris pv. campestris]
          Length = 559

 Score = 42.4 bits (99), Expect = 0.19,   Method: Composition-based stats.
 Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RDP+   G  +   L  +D  R  V  +++ +++     ER++   +   + G I+ G V
Sbjct: 143 RDPAYLEGKELEFKLIKLDRKRNNVVVSRRAVVESEHSEEREQLMDKL--QEGAILKGVV 200

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++   +          E +  GD +   +    RE+ 
Sbjct: 201 KNLTDYGAFVDLGGIDGLLHITDMAWKRVRHPSEVVNVGDELDVRVLKFDRERN 254


>gi|146297643|ref|YP_001181414.1| RNA-binding S1 domain-containing protein [Caldicellulosiruptor
           saccharolyticus DSM 8903]
 gi|145411219|gb|ABP68223.1| RNA binding S1 domain protein [Caldicellulosiruptor saccharolyticus
           DSM 8903]
          Length = 258

 Score = 42.4 bits (99), Expect = 0.19,   Method: Composition-based stats.
 Identities = 28/132 (21%), Positives = 50/132 (37%), Gaps = 19/132 (14%)

Query: 74  NYTCQISLKVARDRDP-SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYL 132
               ++ L      DP    +G  +   +  +    V +    + I +++R  E +    
Sbjct: 50  MPPEEVDLSTESINDPIGALLGATIEFVVTDIQKDNVFIS---RKIAKQLRRIEFENNV- 105

Query: 133 EFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDE----TIS--RENLRPGDRVKSYI 186
               K G+II+G V  V   NV VD    +  +   +     I   RE  + GD VK+ +
Sbjct: 106 ----KEGQIINGRVIGVSPKNVYVDAFGYEFGLTAKDVDYKWIHDMRERFKVGDSVKAKV 161

Query: 187 YDVRREQRGPQV 198
                 +  PQ+
Sbjct: 162 I----SKNPPQI 169


>gi|169629382|ref|YP_001703031.1| 30S ribosomal protein S1 [Mycobacterium abscessus ATCC 19977]
 gi|169241349|emb|CAM62377.1| 30S ribosomal protein S1 [Mycobacterium abscessus]
          Length = 481

 Score = 42.4 bits (99), Expect = 0.19,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 36  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVSVGDEVEALVL--TK 93

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 94  EDKEGRLILS 103


>gi|18403570|ref|NP_566719.1| NRPD7; DNA-directed RNA polymerase [Arabidopsis thaliana]
 gi|21553765|gb|AAM62858.1| RNA polymerase II fifth largest subunit-like protein [Arabidopsis
           thaliana]
 gi|332643168|gb|AEE76689.1| DNA-directed RNA polymerase II subunit G [Arabidopsis thaliana]
          Length = 174

 Score = 42.4 bits (99), Expect = 0.19,   Method: Composition-based stats.
 Identities = 30/152 (19%), Positives = 53/152 (34%), Gaps = 27/152 (17%)

Query: 60  ISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI- 118
           I +    +V    E+    + L+ A        +    S      D G +   +  + I 
Sbjct: 3   IKVKLPWDVTIPAEDMDTGLMLQRAIVI----RLLEAFSKEKATKDLGYLITPTILENIG 58

Query: 119 IQKVREAERDRQYLE------FKDKVGEIISGTVKRVEYGNVIVDLGNSDGV------IR 166
             K++E   + Q+        FK   GEI+ G V +V    V +  G  + +      + 
Sbjct: 59  EGKIKEQTGEIQFPVVFNGICFKMFKGEIVHGVVHKVHKTGVFLKSGPYEIIYLSHMKMP 118

Query: 167 RDETISREN----------LRPGDRVKSYIYD 188
             E I  EN          ++ G RV+  + D
Sbjct: 119 GYEFIPGENPFFMNQYMSRIQIGARVRFVVLD 150


>gi|312621755|ref|YP_004023368.1| RNA-binding s1 domain-containing protein [Caldicellulosiruptor
           kronotskyensis 2002]
 gi|312202222|gb|ADQ45549.1| RNA-binding S1 domain-containing protein [Caldicellulosiruptor
           kronotskyensis 2002]
          Length = 258

 Score = 42.4 bits (99), Expect = 0.19,   Method: Composition-based stats.
 Identities = 29/131 (22%), Positives = 52/131 (39%), Gaps = 19/131 (14%)

Query: 75  YTCQISLKVARDRDP-SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
              ++ L      DP    +G  +   +   D  +  V  +++V  Q +R  E +     
Sbjct: 51  PAEEVDLSTQTVNDPIGALLGATIEFVVT--DIQKDNVFISRKVAKQ-LRRIEFENNV-- 105

Query: 134 FKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDE----TIS--RENLRPGDRVKSYIY 187
              K G+II+G V  V   NV +D    +  +   +     I   RE  + GD VK+ + 
Sbjct: 106 ---KEGQIINGRVIGVSPKNVYIDAFGYEFGLTAKDVDYKWIHDMRERFKVGDSVKAKVI 162

Query: 188 DVRREQRGPQV 198
                ++ PQ+
Sbjct: 163 ----SKKPPQI 169


>gi|57640090|ref|YP_182568.1| RecJ-like exonuclease [Thermococcus kodakarensis KOD1]
 gi|57158414|dbj|BAD84344.1| RecJ-like exonuclease, containing OB-fold nucleic acid-binding
           domains [Thermococcus kodakarensis KOD1]
          Length = 741

 Score = 42.4 bits (99), Expect = 0.20,   Method: Composition-based stats.
 Identities = 20/58 (34%), Positives = 32/58 (55%), Gaps = 1/58 (1%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           VG +  GT+ RVE   V V L  +  G+I+R + +     +PGD +   + DVR ++R
Sbjct: 132 VGSLYKGTIDRVERFGVFVKLNPHVTGLIKRKDLLGGREYKPGDEIVVQVLDVRPDKR 189


>gi|307212541|gb|EFN88264.1| DNA repair protein RAD51-like protein 1 [Harpegnathos saltator]
          Length = 340

 Score = 42.4 bits (99), Expect = 0.20,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 21/53 (39%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           ++   +       L   GF  VE +A      + +I+G  E  A ++   A +
Sbjct: 28  LERNGITAGDIKKLQEAGFYTVESVAYAPKKHLVTIKGISEAKADKLLQEASK 80


>gi|168704591|ref|ZP_02736868.1| 30S ribosomal protein S1 [Gemmata obscuriglobus UQM 2246]
          Length = 618

 Score = 42.4 bits (99), Expect = 0.20,   Method: Composition-based stats.
 Identities = 30/139 (21%), Positives = 64/139 (46%), Gaps = 12/139 (8%)

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
           V     Q+ ++  +  D  I+    +   +  +D  R  +  +++ +I+  R+ ++D+  
Sbjct: 150 VFLPASQVDIRRPQSIDEYIER--TIECVILKIDEQRRNIVVSRRKLIEDRRKIQKDKLL 207

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDET------ISRENLRPGDRVKSY 185
            E +  VG+I +G VK +      VDLG  DG++   +         R+ ++    ++ Y
Sbjct: 208 GELE--VGQIRTGVVKNIAEFGAFVDLGGIDGLLHITDMGWHRVTNPRDVVQIDQTLEVY 265

Query: 186 IYDVRREQRGPQVLLSRTH 204
           I  + RE+   ++ LS  H
Sbjct: 266 ILHIDREKE--KIALSLKH 282



 Score = 38.1 bits (88), Expect = 3.4,   Method: Composition-based stats.
 Identities = 27/155 (17%), Positives = 60/155 (38%), Gaps = 25/155 (16%)

Query: 89  PSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR 148
           P    G  V   L   +     +Q + +      R+ E +      K K G++++G V +
Sbjct: 82  PPPKPGDTVEVLLETAESEDGTIQLSYRKAK---RQKEWNAVLA--KHKEGDVVAGKVLK 136

Query: 149 VEYGNVIVDLGNSDGVIRRDE------TISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
              G ++V++G  +  +   +          E +     ++  I  +  ++R   +++SR
Sbjct: 137 KIKGGLLVNIG-VNVFLPASQVDIRRPQSIDEYIER--TIECVILKIDEQRRN--IVVSR 191

Query: 203 THPQFMVK-------LFHMEVPEIYNGIVQVKAVS 230
                  +       L  +EV +I  G+V  K ++
Sbjct: 192 RKLIEDRRKIQKDKLLGELEVGQIRTGVV--KNIA 224


>gi|240103517|ref|YP_002959826.1| recJ-like phosphoesterase, containing RNA binding S1 and OB-fold
           nucleic acid binding domain [Thermococcus gammatolerans
           EJ3]
 gi|239911071|gb|ACS33962.1| recJ-like phosphoesterase, containing RNA binding S1 and OB-fold
           nucleic acid binding domain [Thermococcus gammatolerans
           EJ3]
          Length = 804

 Score = 42.4 bits (99), Expect = 0.20,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 35/65 (53%), Gaps = 1/65 (1%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           +G +  GT+ RVE   V V L  +  G+I+R + +     +PG+ +   + DVR ++R  
Sbjct: 195 IGNVYKGTIDRVERFGVFVKLNPHVVGLIKRKDLLGGREYKPGEEILVQVLDVRPDKREI 254

Query: 197 QVLLS 201
            ++ S
Sbjct: 255 DLIES 259


>gi|220912560|ref|YP_002487869.1| 30S ribosomal protein S1 [Arthrobacter chlorophenolicus A6]
 gi|219859438|gb|ACL39780.1| RNA binding S1 domain protein [Arthrobacter chlorophenolicus A6]
          Length = 491

 Score = 42.4 bits (99), Expect = 0.20,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 49/94 (52%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++ GTV +V+   V++D+G  ++GVI   E          + +  GD+V++ +    +
Sbjct: 39  GDLVEGTVVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPGDVVSVGDQVEALVL--TK 96

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  +++LS+   Q+      +E  +  +G+V 
Sbjct: 97  EDKEGRLILSKKRAQYERAWGDIEKVKEEDGVVT 130


>gi|295426289|ref|ZP_06818949.1| 30S ribosomal protein S1 [Lactobacillus amylolyticus DSM 11664]
 gi|295064028|gb|EFG54976.1| 30S ribosomal protein S1 [Lactobacillus amylolyticus DSM 11664]
          Length = 401

 Score = 42.4 bits (99), Expect = 0.20,   Method: Composition-based stats.
 Identities = 34/167 (20%), Positives = 63/167 (37%), Gaps = 35/167 (20%)

Query: 119 IQKVREAERDRQYLEFKDK--VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI----- 171
            + + E ER+  + +   +  VG++I G V R+      +D+G  DG++   E       
Sbjct: 176 HKDLIEEEREEAFDKVASQLVVGDVIEGKVSRLTNFGAFIDVGGVDGLVHISEISYKHVD 235

Query: 172 -SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVK---------LFHMEV----- 216
              + L+ G  VK  +  +  ++    + + +T P    +         +F  EV     
Sbjct: 236 KPSDVLKVGQDVKVKVIGIDNDRNRISLSIKQTEPSPFEQATANLHDGDIFEGEVKSLTN 295

Query: 217 ----PEIYNGIVQVKAVSRD-------PGSRAKLA--VFSSDSSIDP 250
                E+ +GI  +  VS         P    K+   V     +IDP
Sbjct: 296 FGAFVEVADGIQGLVHVSEISNKHVDKPSDVLKVGQTVKVKVLNIDP 342


>gi|183427450|gb|ACC62511.1| S1 ribosomal protein [Mycobacterium abscessus]
          Length = 481

 Score = 42.4 bits (99), Expect = 0.20,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 36  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVSVGDEVEALVL--TK 93

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 94  EDKEGRLILS 103


>gi|157112162|ref|XP_001657421.1| DNA repair protein rad51 [Aedes aegypti]
 gi|108878168|gb|EAT42393.1| DNA repair protein rad51 [Aedes aegypti]
          Length = 341

 Score = 42.4 bits (99), Expect = 0.21,   Method: Composition-based stats.
 Identities = 13/51 (25%), Positives = 21/51 (41%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           ++   +       L   GF  VE +A   I  + +I+G  E  A +I   A
Sbjct: 30  LEGNGITSGDLKKLAEAGFHTVEAVAFAPIKHLVAIKGISEAKAEKILLEA 80


>gi|157114471|ref|XP_001652287.1| igf2 mRNA binding protein, putative [Aedes aegypti]
 gi|108877277|gb|EAT41502.1| igf2 mRNA binding protein, putative [Aedes aegypti]
          Length = 541

 Score = 42.4 bits (99), Expect = 0.21,   Method: Composition-based stats.
 Identities = 30/121 (24%), Positives = 50/121 (41%), Gaps = 40/121 (33%)

Query: 249 DPVGACVGMRGSRVQAVVT-----------------ELRDE-KIDIV-----VWSPDSAT 285
           + VGA +G +GS ++ ++                  E + E K+ IV      W    A 
Sbjct: 354 NAVGAIIGTKGSHIRNIIRFSGASVKIAPLEADKPLEQQTERKVTIVGTPEAQW---KAQ 410

Query: 286 FVINALRPAIVTKVV-------LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
           ++I         K+         D+    +E++VP  Q+   IG+ GQNVR   ++TG  
Sbjct: 411 YLI-------FEKMREEGFVSGTDDVRLTVEILVPSAQVGRIIGKGGQNVRELQRVTGSI 463

Query: 339 I 339
           I
Sbjct: 464 I 464


>gi|56311965|emb|CAI06610.1| 30S ribosomal protein S1 [Aromatoleum aromaticum EbN1]
          Length = 591

 Score = 42.4 bits (99), Expect = 0.21,   Method: Composition-based stats.
 Identities = 26/114 (22%), Positives = 47/114 (41%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +D S   G      +  +D  R  V  +++ ++++    ER++     K   G +I G V
Sbjct: 173 KDTSPYEGKEFEFKVIKLDRKRNNVVVSRRAVLEETMGEEREKLLANLK--EGTVIKGIV 230

Query: 147 KRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++       R      E L  GD + + +    +E+ 
Sbjct: 231 KNITDYGAFVDLGGIDGLLHITDLAWRRVRHPSEVLNVGDEIDAKVLKFDQEKN 284


>gi|229817852|ref|ZP_04448134.1| hypothetical protein BIFANG_03138 [Bifidobacterium angulatum DSM
           20098]
 gi|229784752|gb|EEP20866.1| hypothetical protein BIFANG_03138 [Bifidobacterium angulatum DSM
           20098]
          Length = 490

 Score = 42.4 bits (99), Expect = 0.21,   Method: Composition-based stats.
 Identities = 23/94 (24%), Positives = 51/94 (54%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++ GTV ++++  V++D+G  ++GVI   E          E +  GD V++ +  V +
Sbjct: 36  GDLVEGTVVKIDHDEVLLDIGYKTEGVIPSRELSIKKDVDPDEVVEVGDTVEALV--VTK 93

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  +++LS+   Q+      +E  +  +G+V+
Sbjct: 94  EDKEGRLILSKKRAQYERAWGDIEKIKEADGVVE 127


>gi|302413964|ref|XP_003004814.1| DNA repair protein RAD51 [Verticillium albo-atrum VaMs.102]
 gi|261355883|gb|EEY18311.1| DNA repair protein RAD51 [Verticillium albo-atrum VaMs.102]
          Length = 355

 Score = 42.4 bits (99), Expect = 0.21,   Method: Composition-based stats.
 Identities = 12/43 (27%), Positives = 20/43 (46%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
             L+V  GF  +E +A      +  I+G  E+ A +I   A +
Sbjct: 45  IQLIVDGGFNTIESVAYTPQRTLEQIKGISEQKAAKILAEASK 87


>gi|76801091|ref|YP_326099.1| DNA repair and recombination protein RadA [Natronomonas pharaonis
           DSM 2160]
 gi|76556956|emb|CAI48530.1| DNA repair and recombination protein [Natronomonas pharaonis DSM
           2160]
          Length = 345

 Score = 42.4 bits (99), Expect = 0.21,   Method: Composition-based stats.
 Identities = 13/64 (20%), Positives = 23/64 (35%)

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
               T    +   V    A  L   G+   + +A    +E+++     E  A +I   AR
Sbjct: 1   MAATTADLEELPGVGPATADKLRENGYDSYQSIAVASPAELSNTADIGESNANDIIQAAR 60

Query: 415 EYLE 418
           E  +
Sbjct: 61  EAAD 64


>gi|325968380|ref|YP_004244572.1| DNA repair and recombination protein RadA [Vulcanisaeta moutnovskia
           768-28]
 gi|323707583|gb|ADY01070.1| DNA repair and recombination protein RadA [Vulcanisaeta moutnovskia
           768-28]
          Length = 358

 Score = 42.4 bits (99), Expect = 0.21,   Method: Composition-based stats.
 Identities = 13/54 (24%), Positives = 25/54 (46%), Gaps = 1/54 (1%)

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
           +   V  + A  L   G+    ++A   + E+A I G  E+ A +I   A++ +
Sbjct: 54  EIEGVGRVTAQKLREAGYNTARDVAFASVKELADILG-SEDRAKQIIAAAQKLI 106


>gi|217077883|ref|YP_002335601.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding
           domain protein [Thermosipho africanus TCF52B]
 gi|217037738|gb|ACJ76260.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Thermosipho
           africanus TCF52B]
          Length = 811

 Score = 42.4 bits (99), Expect = 0.21,   Method: Composition-based stats.
 Identities = 24/85 (28%), Positives = 40/85 (47%), Gaps = 11/85 (12%)

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETIS------RENL 176
             ++++ + E   K G+II G VK++E     V +    DG++   E          + L
Sbjct: 440 NEQKEKFFNE--RKEGDIIEGIVKKIEKFGAFVRIFEGIDGLLPNSEVSYDTSLKVEDVL 497

Query: 177 RPGDRVKSYIYDVRREQRGPQVLLS 201
             G  VK YI  + +E R  ++LLS
Sbjct: 498 SEGQSVKLYIKKIDKENR--KILLS 520



 Score = 38.9 bits (90), Expect = 1.9,   Method: Composition-based stats.
 Identities = 20/114 (17%), Positives = 44/114 (38%), Gaps = 5/114 (4%)

Query: 80  SLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK---D 136
           ++   ++    +D  G++S    P +         K++      E   ++    +     
Sbjct: 227 TIDEIKEIPKGVDSVGIISGTSTPKEIVEEIAAGLKKLGGMLQMENNFEKLLDSYLFDNV 286

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISREN-LRPGDRVKSYIYD 188
           + GEI+   V R     + VD G  S+GV+  DE +      + G+++   +  
Sbjct: 287 RKGEIVEAVVLRKGESEIFVDFGWKSEGVVTSDELVKDVKDYKIGEKLSLILLR 340


>gi|86739768|ref|YP_480168.1| 30S ribosomal protein S1 [Frankia sp. CcI3]
 gi|86566630|gb|ABD10439.1| SSU ribosomal protein S1P [Frankia sp. CcI3]
          Length = 492

 Score = 42.4 bits (99), Expect = 0.21,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E +  GD V++ +   ++
Sbjct: 49  GDIVDGIIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPHEVVSVGDHVEALVL--QK 106

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 107 EDKEGRLILS 116


>gi|325963167|ref|YP_004241073.1| 30S ribosomal protein S1P [Arthrobacter phenanthrenivorans Sphe3]
 gi|323469254|gb|ADX72939.1| SSU ribosomal protein S1P [Arthrobacter phenanthrenivorans Sphe3]
          Length = 492

 Score = 42.4 bits (99), Expect = 0.21,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 49/94 (52%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++ GTV +V+   V++D+G  ++GVI   E          + +  GD+V++ +    +
Sbjct: 39  GDLVEGTVVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPGDVVSVGDQVEALVL--TK 96

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  +++LS+   Q+      +E  +  +G+V 
Sbjct: 97  EDKEGRLILSKKRAQYERAWGDIEKVKEEDGVVT 130


>gi|255550293|ref|XP_002516197.1| DNA repair protein rad51, putative [Ricinus communis]
 gi|223544683|gb|EEF46199.1| DNA repair protein rad51, putative [Ricinus communis]
          Length = 294

 Score = 42.4 bits (99), Expect = 0.22,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 20/53 (37%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           +Q   +  +    L   G   VE +A     E+  I+G  E    +I   A +
Sbjct: 30  LQESGIAALDVKKLKDAGLCTVESVAYSPRKELLQIKGISEAKVDKIIEAASK 82


>gi|237833229|ref|XP_002365912.1| DNA repair protein, putative [Toxoplasma gondii ME49]
 gi|211963576|gb|EEA98771.1| DNA repair protein, putative [Toxoplasma gondii ME49]
 gi|221488373|gb|EEE26587.1| DNA repair protein, putative [Toxoplasma gondii GT1]
 gi|221508875|gb|EEE34444.1| DNA repair protein, putative [Toxoplasma gondii VEG]
          Length = 354

 Score = 42.4 bits (99), Expect = 0.22,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 26/59 (44%), Gaps = 11/59 (18%)

Query: 374 HLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGR-----------AREYLEGID 421
            LL   G+  VE +A   +  + +++G  E+   +++             A+EYLE  +
Sbjct: 52  ELLKDAGYQTVECIAFAPVKNLVAVKGLSEQKVEKLKKASKELCNLGFCSAQEYLEARE 110


>gi|116670612|ref|YP_831545.1| 30S ribosomal protein S1 [Arthrobacter sp. FB24]
 gi|116610721|gb|ABK03445.1| SSU ribosomal protein S1P [Arthrobacter sp. FB24]
          Length = 491

 Score = 42.4 bits (99), Expect = 0.22,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 49/94 (52%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++ GTV +V+   V++D+G  ++GVI   E          + +  GD+V++ +    +
Sbjct: 39  GDLVEGTVVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPGDVVSVGDQVEALVL--TK 96

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  +++LS+   Q+      +E  +  +G+V 
Sbjct: 97  EDKEGRLILSKKRAQYERAWGDIEKVKEEDGVVT 130


>gi|68485285|ref|XP_713476.1| hypothetical protein CaO19.11236 [Candida albicans SC5314]
 gi|68485358|ref|XP_713440.1| hypothetical protein CaO19.3752 [Candida albicans SC5314]
 gi|46434928|gb|EAK94324.1| hypothetical protein CaO19.3752 [Candida albicans SC5314]
 gi|46434968|gb|EAK94361.1| hypothetical protein CaO19.11236 [Candida albicans SC5314]
 gi|238879694|gb|EEQ43332.1| DNA repair protein RAD51 [Candida albicans WO-1]
          Length = 361

 Score = 42.4 bits (99), Expect = 0.22,   Method: Composition-based stats.
 Identities = 12/51 (23%), Positives = 23/51 (45%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           ++   ++      L AEGF  +E +A      + +++G  E  A +I   A
Sbjct: 45  LEGNGINASDIKKLKAEGFHTIESIAYTPKRHLMTVKGISENKAEKISAEA 95


>gi|241958150|ref|XP_002421794.1| DNA repair protein rad51 homologue, putative [Candida dubliniensis
           CD36]
 gi|223645139|emb|CAX39736.1| DNA repair protein rad51 homologue, putative [Candida dubliniensis
           CD36]
          Length = 361

 Score = 42.4 bits (99), Expect = 0.22,   Method: Composition-based stats.
 Identities = 12/51 (23%), Positives = 23/51 (45%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           ++   ++      L AEGF  +E +A      + +++G  E  A +I   A
Sbjct: 45  LEGNGINASDIKKLKAEGFHTIESIAYTPKRHLMTVKGISENKAEKISAEA 95


>gi|254524507|ref|ZP_05136562.1| ribosomal protein S1 [Stenotrophomonas sp. SKA14]
 gi|219722098|gb|EED40623.1| ribosomal protein S1 [Stenotrophomonas sp. SKA14]
          Length = 561

 Score = 42.4 bits (99), Expect = 0.22,   Method: Composition-based stats.
 Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RDP+   G  +   L  +D  R  V  +++ +++     ER++   +   + G I+ G V
Sbjct: 143 RDPAYLEGKELEFKLIKLDRKRNNVVVSRRAVVESEHSEEREQLMDKL--QEGAILKGVV 200

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++   +          E +  GD +   +    RE+ 
Sbjct: 201 KNLTDYGAFVDLGGIDGLLHITDMAWKRVRHPSEVVNVGDELDVRVLKFDRERN 254


>gi|260817896|ref|XP_002603821.1| hypothetical protein BRAFLDRAFT_124688 [Branchiostoma floridae]
 gi|229289144|gb|EEN59832.1| hypothetical protein BRAFLDRAFT_124688 [Branchiostoma floridae]
          Length = 1215

 Score = 42.4 bits (99), Expect = 0.22,   Method: Composition-based stats.
 Identities = 15/81 (18%), Positives = 35/81 (43%), Gaps = 7/81 (8%)

Query: 362  FMQAINVDEIIAHLLVAEGFADVEELACVKISEIAS-IEGFDEETAVEIQGRAREYLEGI 420
             M+   V +  A  L   G+  +++LA  +   +   I+    + A +I   A+  +   
Sbjct: 1101 LMEVPGVKQGRARQLYKAGYKTLQDLAHAETESLVQNIQHMPRKVAYQIIAAAKVLISEK 1160

Query: 421  DITLQKKIRELGVSEELCSIP 441
              +L ++      +E+L ++P
Sbjct: 1161 AESLLEE------AEDLVAMP 1175


>gi|190574008|ref|YP_001971853.1| 30S ribosomal protein S1 [Stenotrophomonas maltophilia K279a]
 gi|190011930|emb|CAQ45551.1| putative 30S ribosomal protein S1 [Stenotrophomonas maltophilia
           K279a]
          Length = 561

 Score = 42.4 bits (99), Expect = 0.22,   Method: Composition-based stats.
 Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RDP+   G  +   L  +D  R  V  +++ +++     ER++   +   + G I+ G V
Sbjct: 143 RDPAYLEGKELEFKLIKLDRKRNNVVVSRRAVVESEHSEEREQLMDKL--QEGAILKGVV 200

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++   +          E +  GD +   +    RE+ 
Sbjct: 201 KNLTDYGAFVDLGGIDGLLHITDMAWKRVRHPSEVVNVGDELDVRVLKFDRERN 254


>gi|76157801|gb|AAX28612.2| SJCHGC08668 protein [Schistosoma japonicum]
          Length = 226

 Score = 42.4 bits (99), Expect = 0.22,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 23/53 (43%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           +++  +       L   GF  VE +  V    + +++G  E  A +I   A++
Sbjct: 20  LESAGIAAADVKKLREAGFHTVESIQFVPKKTLLAVKGISEAKADKIIEAAQK 72


>gi|258515332|ref|YP_003191554.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding
           domain-containing protein [Desulfotomaculum acetoxidans
           DSM 771]
 gi|257779037|gb|ACV62931.1| hydroxymethylbutenyl pyrophosphate reductase [Desulfotomaculum
           acetoxidans DSM 771]
          Length = 676

 Score = 42.0 bits (98), Expect = 0.22,   Method: Composition-based stats.
 Identities = 21/101 (20%), Positives = 39/101 (38%), Gaps = 16/101 (15%)

Query: 109 VAVQSA-KQVIIQKVREAERDRQYLEFKDK---------VGEIISGTVKRVEYGNVIVDL 158
           +  Q      I +KV  + +     E+ ++          G+ +SG V+R+      VD+
Sbjct: 445 ITAQVIEINRIRRKVVLSRKAILEEEYANRKEELLNSLQEGQTVSGIVRRITNFGAFVDI 504

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   E          E ++ GD V   +  + R  
Sbjct: 505 GGVDGLLHISEMAWYRVTHPSEIVQVGDEVTVMVLKIDRNA 545



 Score = 39.3 bits (91), Expect = 1.4,   Method: Composition-based stats.
 Identities = 20/95 (21%), Positives = 38/95 (40%), Gaps = 9/95 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDET------ISRENLRPGDRVKSYIYDVRR 191
           G+I+ G V ++    V+VD+G  S+G I   E          E ++ GD +  ++     
Sbjct: 312 GDIVKGVVVQIGQDEVLVDVGSKSEGFISAKELSSFNINSPDEVVKIGDEIDVFVISAED 371

Query: 192 EQRGPQVLLSRTHPQFMVKLFH--MEVPEIYNGIV 224
            +   ++  +R   +         +E  E   G V
Sbjct: 372 NEGRIKLSKTRADAENAWAKLESLLESSEKIEGTV 406


>gi|226324699|ref|ZP_03800217.1| hypothetical protein COPCOM_02485 [Coprococcus comes ATCC 27758]
 gi|225207147|gb|EEG89501.1| hypothetical protein COPCOM_02485 [Coprococcus comes ATCC 27758]
          Length = 359

 Score = 42.0 bits (98), Expect = 0.22,   Method: Composition-based stats.
 Identities = 25/132 (18%), Positives = 54/132 (40%), Gaps = 8/132 (6%)

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+E   +     +    ++D S      +   +   +  R  +   ++ ++   R  ++
Sbjct: 125 VVDEARVFIPASLVSDTYEKDLSKYKDQEIEFVISEFNPRRNRIIGDRRQLLVAERAEKQ 184

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDR 181
              + + K  VG++I GTVK V      +DLG  DG++   E         ++    G+ 
Sbjct: 185 KELFAKLK--VGDVIEGTVKNVTDFGAFIDLGGVDGLLHISEMSWGRVDNPKKVFTVGET 242

Query: 182 VKSYIYDVRREQ 193
           +K  + D+   +
Sbjct: 243 LKVLVKDIHDTK 254


>gi|149246169|ref|XP_001527554.1| DNA repair protein RAD51 [Lodderomyces elongisporus NRRL YB-4239]
 gi|146447508|gb|EDK41896.1| DNA repair protein RAD51 [Lodderomyces elongisporus NRRL YB-4239]
          Length = 362

 Score = 42.0 bits (98), Expect = 0.22,   Method: Composition-based stats.
 Identities = 17/88 (19%), Positives = 32/88 (36%), Gaps = 6/88 (6%)

Query: 333 QLTGWTI-----DIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEEL 387
           +L G  I     DI  +       ++         ++   V       L +EGF  +E +
Sbjct: 12  RLEGTNINSTEADIHLDGGAGEEEEELNGPLLIEQLEGNGVTASDIKKLKSEGFHTIESI 71

Query: 388 ACVKISEIASIEGFDEETAVEI-QGRAR 414
           A      + +++G  E  A +I    A+
Sbjct: 72  AYTPRRHLMTVKGISEAKAEKISLEAAK 99


>gi|118577398|ref|YP_899638.1| hypothetical protein Ppro_3797 [Pelobacter propionicus DSM 2379]
 gi|118504903|gb|ABL01385.1| hypothetical protein Ppro_3797 [Pelobacter propionicus DSM 2379]
          Length = 242

 Score = 42.0 bits (98), Expect = 0.22,   Method: Composition-based stats.
 Identities = 36/179 (20%), Positives = 62/179 (34%), Gaps = 28/179 (15%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE--FKDKVGEIISGTVKRVE 150
           IG  V   +     G+   +     I  +++   R   Y     +   G++++G    ++
Sbjct: 57  IGDPV--EITHDRIGKKLRRHLLYAIEHELQ--TRQTVYEAERLRQLQGKVLTGFPSGLD 112

Query: 151 Y-GNVIVDLGNSD--------GVIRRDETI--SRENLRPGDRVKSYIYDVRREQRGPQ-- 197
             G+V V++  S         G   R       R+    G     Y+  V       Q  
Sbjct: 113 PDGSVRVEMDLSSQFRRYILLGTCPRRYQPLHERDTYLRGKEYSWYVCSVLPVTNHRQTK 172

Query: 198 --VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSS--IDPVG 252
             ++LSRT  Q    L         +GI ++  +SR PG  A +          I+ VG
Sbjct: 173 VRIVLSRTSKQLPAILLRQ-----RSGIERIICLSRIPGGPADIVTAQKIPKDIINSVG 226


>gi|304383005|ref|ZP_07365484.1| 30S ribosomal protein S1 [Prevotella marshii DSM 16973]
 gi|304335858|gb|EFM02109.1| 30S ribosomal protein S1 [Prevotella marshii DSM 16973]
          Length = 591

 Score = 42.0 bits (98), Expect = 0.22,   Method: Composition-based stats.
 Identities = 29/103 (28%), Positives = 55/103 (53%), Gaps = 8/103 (7%)

Query: 102 PPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK--VGEIISGTVKRVEYGNVIVDLG 159
           P  DF     ++  +V    V + E ++ Y E  +     +++ GTV  ++   V+V++G
Sbjct: 9   PLEDFNWDEFENGSKV---NVSKEELEKSYDETLNNVSEHQVVEGTVISMDKKEVVVNIG 65

Query: 160 -NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
             SDGVI   E     +L+ GD+V+ Y+   + +++G Q++LS
Sbjct: 66  YKSDGVIPASEFRYDPDLKVGDKVEVYVES-QEDKKG-QLILS 106



 Score = 37.0 bits (85), Expect = 7.3,   Method: Composition-based stats.
 Identities = 28/130 (21%), Positives = 54/130 (41%), Gaps = 10/130 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +   RD D  + +G  +   +  ++     +  + + +I+   EA++   
Sbjct: 149 EAFLPGSQIDVHPIRDYD--VFVGKTMEFKVVKINQEFRNIVVSHKALIEAEMEAQKKEI 206

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
             + +   G+I+ GTVK +    V VDLG  DG+I   +          E +    ++  
Sbjct: 207 ISKLE--KGQILEGTVKNITSYGVFVDLGGVDGLIHITDLSWGRVSDPHEVVELDQKINV 264

Query: 185 YIYDVRREQR 194
            I D   E++
Sbjct: 265 VILDFDDEKK 274


>gi|289644109|ref|ZP_06476204.1| RNA binding S1 domain protein [Frankia symbiont of Datisca
           glomerata]
 gi|289506078|gb|EFD27082.1| RNA binding S1 domain protein [Frankia symbiont of Datisca
           glomerata]
          Length = 484

 Score = 42.0 bits (98), Expect = 0.22,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +   ++
Sbjct: 40  GDIVDGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPHEVVTVGDHVEALVL--QK 97

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 98  EDKEGRLILS 107


>gi|91080339|ref|XP_974640.1| PREDICTED: similar to RAD51 homolog protein [Tribolium castaneum]
 gi|270006418|gb|EFA02866.1| spindle A-like protein [Tribolium castaneum]
          Length = 338

 Score = 42.0 bits (98), Expect = 0.22,   Method: Composition-based stats.
 Identities = 9/42 (21%), Positives = 19/42 (45%)

Query: 376 LVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
           L   GF  +E +A      + +I+G  E    ++   A +++
Sbjct: 40  LEDAGFHSIESIAYTPKKVLGAIKGISEAKVDKLLAEAAKFV 81


>gi|170290966|ref|YP_001737782.1| DEAD/DEAH box helicase domain-containing protein [Candidatus
           Korarchaeum cryptofilum OPF8]
 gi|170175046|gb|ACB08099.1| DEAD/DEAH box helicase domain protein [Candidatus Korarchaeum
           cryptofilum OPF8]
          Length = 695

 Score = 42.0 bits (98), Expect = 0.22,   Method: Composition-based stats.
 Identities = 12/48 (25%), Positives = 24/48 (50%)

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
            V  + A LL   G+  V ++A  +  ++  I G  ++ + E+  +AR
Sbjct: 638 GVGRVRAKLLYEAGYRTVRDIAEAEPEQLERIVGIGKQLSRELVDQAR 685


>gi|326387158|ref|ZP_08208768.1| 30S ribosomal protein S1 [Novosphingobium nitrogenifigens DSM
           19370]
 gi|326208339|gb|EGD59146.1| 30S ribosomal protein S1 [Novosphingobium nitrogenifigens DSM
           19370]
          Length = 566

 Score = 42.0 bits (98), Expect = 0.23,   Method: Composition-based stats.
 Identities = 33/158 (20%), Positives = 61/158 (38%), Gaps = 14/158 (8%)

Query: 43  YGTMSDIR-VEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPL 101
           +G    +  V      G  ++     V         Q+ ++  RD  P +DI       +
Sbjct: 109 FGEGKRVEGVIFGRVKGGFTVDLDGAVA---FLPGSQVDIRPVRDVQPLMDIPQP--FQI 163

Query: 102 PPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNS 161
             MD  R  +  +++ ++++ R  +R       K   G+II G VK +      VDLG  
Sbjct: 164 LKMDRRRGNIVVSRRAVLEETRAEQRSGLIQNLK--EGQIIDGVVKNITDYGAFVDLGGI 221

Query: 162 DGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           DG++   +          E +  GD V+  I  + ++ 
Sbjct: 222 DGLLHVTDMSYKRVNHPSEVIAIGDTVRVQIIRINQDT 259



 Score = 37.0 bits (85), Expect = 7.9,   Method: Composition-based stats.
 Identities = 19/69 (27%), Positives = 31/69 (44%), Gaps = 6/69 (8%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISREN---LRPGDRVKSYIYDVRREQ 193
            G ++ GTV  +E    ++D+G  S+G +   E         L+ GD V+ Y+  V    
Sbjct: 27  EGRVVKGTVTAIENDKAVIDVGLKSEGRVPLREFAPPGQPHGLKVGDEVEVYVDRVENAD 86

Query: 194 RGPQVLLSR 202
                +LSR
Sbjct: 87  GEA--MLSR 93


>gi|268610021|ref|ZP_06143748.1| 30S ribosomal protein S1 [Ruminococcus flavefaciens FD-1]
          Length = 307

 Score = 42.0 bits (98), Expect = 0.23,   Method: Composition-based stats.
 Identities = 27/118 (22%), Positives = 53/118 (44%), Gaps = 20/118 (16%)

Query: 99  DPLPPMDFGRVA----VQSAKQVIIQKVREAERDRQY----------LEFKDK--VGEII 142
            P+  +   R++      +  Q+I   V+  ERDR +           E  D+  +GE +
Sbjct: 152 IPIDSISVSRISDPSDRFTVGQMIKAAVKRCERDRVFLTHKELLGTWEENADRFCIGETV 211

Query: 143 SGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLL 200
           SG V+ +E   + V+L  +   +       +E +  G+RV  YI  + RE+   ++++
Sbjct: 212 SGIVRSIEDYGIFVELAPNLAGLAE----PKEGVSAGERVSVYIKSIIREKMKVKLII 265


>gi|149923649|ref|ZP_01912045.1| ribosomal protein S1 [Plesiocystis pacifica SIR-1]
 gi|149815464|gb|EDM75001.1| ribosomal protein S1 [Plesiocystis pacifica SIR-1]
          Length = 391

 Score = 42.0 bits (98), Expect = 0.23,   Method: Composition-based stats.
 Identities = 26/129 (20%), Positives = 56/129 (43%), Gaps = 10/129 (7%)

Query: 81  LKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGE 140
           + VA   D SI  G  ++  +  +     +V  +++ ++Q+ RE +      +     G+
Sbjct: 141 VHVAYTPDISIYEGQSLAFKVLEIRDKGRSVVVSRKALLQEEREQKGKALLEQLA--EGQ 198

Query: 141 IISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR------PGDRVKSYIYDVRREQR 194
           I++GTV+ ++     VDLG  +G+I   E       R       G++++  +  +     
Sbjct: 199 IVTGTVQTIQPYGAFVDLGGVEGLIHISELGHGRVERVEDVVSVGEQIRVKVLTIEPGDG 258

Query: 195 G--PQVLLS 201
               ++ LS
Sbjct: 259 KVATRISLS 267


>gi|119962586|ref|YP_947812.1| 30S ribosomal protein S1 [Arthrobacter aurescens TC1]
 gi|119949445|gb|ABM08356.1| ribosomal protein S1 [Arthrobacter aurescens TC1]
          Length = 491

 Score = 42.0 bits (98), Expect = 0.23,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 49/94 (52%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++ GTV +V+   V++D+G  ++GVI   E          + +  GD+V++ +    +
Sbjct: 39  GDLVEGTVVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPGDVVAVGDQVEALVL--TK 96

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  +++LS+   Q+      +E  +  +G+V 
Sbjct: 97  EDKEGRLILSKKRAQYERAWGDIEKVKEEDGVVT 130


>gi|300741419|ref|ZP_07071440.1| ribosomal protein S1 [Rothia dentocariosa M567]
 gi|311113502|ref|YP_003984724.1| 30S ribosomal protein S1 [Rothia dentocariosa ATCC 17931]
 gi|300380604|gb|EFJ77166.1| ribosomal protein S1 [Rothia dentocariosa M567]
 gi|310944996|gb|ADP41290.1| 30S ribosomal protein S1 [Rothia dentocariosa ATCC 17931]
          Length = 486

 Score = 42.0 bits (98), Expect = 0.23,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++SG V +V++  V++D+G  ++GVI   E          E +  GD +++ +    +
Sbjct: 33  GDLVSGQVVKVDHDEVLLDIGYKTEGVIPSRELSIKHDVDPGEVVAVGDEIEALVL--TK 90

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 91  EDKEGRLILS 100


>gi|163783568|ref|ZP_02178558.1| polyribonucleotide nucleotidyltransferase [Hydrogenivirga sp.
           128-5-R1-1]
 gi|159881188|gb|EDP74702.1| polyribonucleotide nucleotidyltransferase [Hydrogenivirga sp.
           128-5-R1-1]
          Length = 773

 Score = 42.0 bits (98), Expect = 0.23,   Method: Composition-based stats.
 Identities = 40/226 (17%), Positives = 77/226 (34%), Gaps = 44/226 (19%)

Query: 20  KSIDRDVVLSVMADS---IQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYT 76
           K I ++++   +  +          +Y  + + + E++P    I ++   +V EE     
Sbjct: 511 KGITKEIMTEALKQAKEGRLYILEKMYEAIPEPKKELSPYAPRIVIY---KVPEEKAALV 567

Query: 77  CQISLKVARDRDPSIDIGGVVSDP--LPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                   +      ++   V +   +    +   A+Q A ++I   V++ E  + Y   
Sbjct: 568 IGPGGSNVKKIYEETEVKIWVGEEGKVFLTGYSDEAIQKAIEMIENLVKDVEVGQVYE-- 625

Query: 135 KDKVGEIISGTVKRVEYGNVIVD-LGNSDGVIRRDETIS-----RENLRPGDRVKSYIYD 188
                    G V RVE   V V+ L    G++   +         +    GD VK  + +
Sbjct: 626 ---------GKVTRVEPYGVFVEILPGKVGLLHVSKMAQPIKHAGDKYSVGDTVKVKVLE 676

Query: 189 VRREQRGPQVLLSRTHPQFMVKLF---------HMEVPEIYNGIVQ 225
           V    R          P+F               +EV E+Y G V 
Sbjct: 677 VDDMGR----------PKFTTMGLDGSSSPPEKKIEVGEVYEGKVT 712


>gi|73669152|ref|YP_305167.1| bifunctional DNA polymerase X family protein/ histidinol
           phosphatase [Methanosarcina barkeri str. Fusaro]
 gi|72396314|gb|AAZ70587.1| DNA polymerase X family / putative histidinol phosphatase
           [Methanosarcina barkeri str. Fusaro]
          Length = 584

 Score = 42.0 bits (98), Expect = 0.23,   Method: Composition-based stats.
 Identities = 30/121 (24%), Positives = 51/121 (42%), Gaps = 19/121 (15%)

Query: 357 ERTQFFMQAINVDE-----------IIAHLLVAEGFADVEEL-ACVKISEIASIEGFDEE 404
           E  + F +A ++ E             A  ++     D+E++ A    + +  I G  E 
Sbjct: 5   EIAELFYEAADILEYQQVEWKPRAYRKAAQMIENLGEDIEKIYAREGKAGLTKIPGIGES 64

Query: 405 TAVEIQGRAREYLEGIDITLQKKIRELGVS--EELCSIPGIDSKIKVALGEN-GIKTMED 461
            A  I     EYLE   +   +K++E   S   EL  I G+ +K    L +  G++T+ D
Sbjct: 65  IADHI----SEYLETNKVEKFEKLKEKAPSGTAELMEIRGLGAKKIKKLSDTLGVRTLSD 120

Query: 462 L 462
           L
Sbjct: 121 L 121


>gi|308177716|ref|YP_003917122.1| 30S ribosomal protein S1 [Arthrobacter arilaitensis Re117]
 gi|307745179|emb|CBT76151.1| 30S ribosomal protein S1 [Arthrobacter arilaitensis Re117]
          Length = 491

 Score = 42.0 bits (98), Expect = 0.23,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++ GTV +V++  V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 39  GDLVEGTVVKVDHDEVLLDIGYKTEGVIPSRELSIKHDVDPGEVVTVGDSVEALVL--TK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|332673856|gb|AEE70673.1| 30S ribosomal protein S1 [Helicobacter pylori 83]
          Length = 552

 Score = 42.0 bits (98), Expect = 0.24,   Method: Composition-based stats.
 Identities = 21/89 (23%), Positives = 37/89 (41%), Gaps = 7/89 (7%)

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDE-TISR 173
           K +  QK++E   +    E  D    II G +     G  IV+    +  + R   ++  
Sbjct: 96  KAISQQKIQEKIEE--LGE--DYENAIIEGKIVGKNKGGYIVESQGVEYFLSRSHSSLKN 151

Query: 174 ENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
           +    G R+K+ I  V +E     + +SR
Sbjct: 152 DANHIGKRIKACIIRVDKENH--SINISR 178


>gi|325294239|ref|YP_004280753.1| RNA binding S1 domain protein [Desulfurobacterium
           thermolithotrophum DSM 11699]
 gi|325064687|gb|ADY72694.1| RNA binding S1 domain protein [Desulfurobacterium
           thermolithotrophum DSM 11699]
          Length = 338

 Score = 42.0 bits (98), Expect = 0.24,   Method: Composition-based stats.
 Identities = 22/111 (19%), Positives = 49/111 (44%), Gaps = 8/111 (7%)

Query: 89  PSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR 148
           P   +   +   +  +D  R ++  +++ ++++ R   R     + K   G+++ G VK 
Sbjct: 137 PDDWLDREIEAKVLSVDRKRRSIVISRRKLLEEKRAKMRKETLEKLK--EGDVVEGIVKN 194

Query: 149 VEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           V    + VD+   DG++ + +          +    GDR+K  I  + RE+
Sbjct: 195 VVDFGIFVDVQGVDGLVHKSDISWSGLKTPFDTAEIGDRIKVKIKKIDREK 245



 Score = 37.7 bits (87), Expect = 5.3,   Method: Composition-based stats.
 Identities = 19/73 (26%), Positives = 32/73 (43%), Gaps = 4/73 (5%)

Query: 123 REAERDRQYLE-FKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGD 180
            E E  R   + FK    EII+GTV +V      +D G  S+G++   E       + G+
Sbjct: 1   MEGEFARLLEKSFKRLNNEIITGTVVKVTDREAFIDFGWKSEGIVPLKEL--GYKPKIGE 58

Query: 181 RVKSYIYDVRREQ 193
            +   + +   E+
Sbjct: 59  EIDVCVVEPETEE 71


>gi|304316816|ref|YP_003851961.1| RNA binding S1 domain protein [Thermoanaerobacterium
           thermosaccharolyticum DSM 571]
 gi|302778318|gb|ADL68877.1| RNA binding S1 domain protein [Thermoanaerobacterium
           thermosaccharolyticum DSM 571]
          Length = 362

 Score = 42.0 bits (98), Expect = 0.24,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 34/71 (47%), Gaps = 10/71 (14%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
           + G++I G VK +      +D+G  DG+I   E          + L  G++V +Y+  + 
Sbjct: 187 QEGQVIQGVVKSITKFGAFIDIGGIDGLIPLSEISWVRNKNINDILHIGEKVDAYVERID 246

Query: 191 REQRGPQVLLS 201
           +E    +V LS
Sbjct: 247 KE----KVTLS 253


>gi|322420780|ref|YP_004200003.1| 30S ribosomal protein S1 [Geobacter sp. M18]
 gi|320127167|gb|ADW14727.1| ribosomal protein S1 [Geobacter sp. M18]
          Length = 584

 Score = 42.0 bits (98), Expect = 0.24,   Method: Composition-based stats.
 Identities = 21/76 (27%), Positives = 34/76 (44%), Gaps = 6/76 (7%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
           K G+I+SG VK +      VDLG  DG++   +          E ++ GD +   +    
Sbjct: 215 KEGDIVSGVVKNIAEYGAFVDLGGVDGLLHVTDMSWGRLGHPSEMVKVGDTLNVIVLKYD 274

Query: 191 REQRGPQVLLSRTHPQ 206
           RE+    + L +T P 
Sbjct: 275 REKGKISLGLKQTVPD 290


>gi|90192351|gb|ABD91838.1| rad51 [Physarum polycephalum]
          Length = 198

 Score = 42.0 bits (98), Expect = 0.24,   Method: Composition-based stats.
 Identities = 10/69 (14%), Positives = 30/69 (43%)

Query: 345 EEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEE 404
           +++++  +++        ++   +       L+  GF  VE +A      +++++G  E 
Sbjct: 2   QDNAVEAEEESGPIPIAKLEGSGISAADIKKLMESGFHTVESVAYATKKSLSAVKGISEA 61

Query: 405 TAVEIQGRA 413
            A ++   A
Sbjct: 62  KADKLVESA 70


>gi|157695034|gb|ABV66106.1| 30S ribosomal protein S1 [Rickettsiella melolonthae]
          Length = 298

 Score = 42.0 bits (98), Expect = 0.24,   Method: Composition-based stats.
 Identities = 26/113 (23%), Positives = 52/113 (46%), Gaps = 8/113 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RD SI  G  +   +  +D  R  +  +++ I++   +A R++   E +   G++I G V
Sbjct: 19  RDSSIIEGKDLEFKVIKLDPKRNNIVLSRRAILESEGQAGREQLLTELE--EGQVIKGIV 76

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           K +      +DLG  DG++   +          E L  GD ++  +  + R++
Sbjct: 77  KNLADYGAFIDLGGIDGLLHVTDISWKRVKQPSEVLTIGDEIEVVVLKIERDR 129


>gi|194365424|ref|YP_002028034.1| 30S ribosomal protein S1 [Stenotrophomonas maltophilia R551-3]
 gi|194348228|gb|ACF51351.1| ribosomal protein S1 [Stenotrophomonas maltophilia R551-3]
          Length = 561

 Score = 42.0 bits (98), Expect = 0.24,   Method: Composition-based stats.
 Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RDP+   G  +   L  +D  R  V  +++ +++     ER++   +   + G I+ G V
Sbjct: 143 RDPAYLEGKELEFKLIKLDRKRNNVVVSRRAVVESEHSEEREQLMDKL--QEGAILKGVV 200

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++   +          E +  GD +   +    RE+ 
Sbjct: 201 KNLTDYGAFVDLGGIDGLLHITDMAWKRVRHPSEVVNVGDELDVRVLKFDRERN 254


>gi|312212267|emb|CBX92350.1| similar to DNA repair protein RAD51 homolog 1 [Leptosphaeria
           maculans]
          Length = 348

 Score = 42.0 bits (98), Expect = 0.24,   Method: Composition-based stats.
 Identities = 17/78 (21%), Positives = 32/78 (41%), Gaps = 4/78 (5%)

Query: 342 ITEEEDSINRQKDFNERTQFFMQAI-NVDEIIA---HLLVAEGFADVEELACVKISEIAS 397
           ++ EE+               + A+  V+ + A    L+V  GF  VE +A      +  
Sbjct: 1   MSNEEEQYEESTMGGPGAPTPVSALEGVNGLTARDIKLVVEGGFNTVESIAYTPRRALEQ 60

Query: 398 IEGFDEETAVEIQGRARE 415
           I+G  E+ A ++   A +
Sbjct: 61  IKGISEQKASKLLAEASK 78


>gi|310793292|gb|EFQ28753.1| hypothetical protein GLRG_03897 [Glomerella graminicola M1.001]
          Length = 350

 Score = 42.0 bits (98), Expect = 0.24,   Method: Composition-based stats.
 Identities = 13/43 (30%), Positives = 20/43 (46%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
             L+V  GF  VE +A      +  I+G  E+ A +I   A +
Sbjct: 41  IQLVVDGGFNTVESVAYTPRRTLEQIKGISEQKATKILAEASK 83


>gi|313124902|ref|YP_004035166.1| DNA repair and recombination protein rada [Halogeometricum
           borinquense DSM 11551]
 gi|312291267|gb|ADQ65727.1| DNA repair and recombination protein RadA [Halogeometricum
           borinquense DSM 11551]
          Length = 343

 Score = 42.0 bits (98), Expect = 0.24,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 22/57 (38%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
                 V    A  L   GF   + +A    SE+++     E T+ +I   ARE  +
Sbjct: 6   LESLPGVGPATADKLTDAGFESYQAIAVASPSELSNTADVGESTSSDIINAAREAAD 62


>gi|288559373|ref|YP_003422859.1| DNA repair and recombination protein RadA [Methanobrevibacter
           ruminantium M1]
 gi|288542083|gb|ADC45967.1| DNA repair and recombination protein RadA [Methanobrevibacter
           ruminantium M1]
          Length = 311

 Score = 42.0 bits (98), Expect = 0.24,   Method: Composition-based stats.
 Identities = 27/168 (16%), Positives = 52/168 (30%), Gaps = 22/168 (13%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY----L 417
                NV E  A  L   GFAD+  LA     E++      E  A ++   AR+      
Sbjct: 4   LEDLPNVGEKTAEKLREAGFADMMRLATATAKELSVKAEIGEGVAEKVIEAARKAEKIDF 63

Query: 418 EGIDITLQKKIRELGVSEELCSIPGI------DSKIKVALGENGIKTMEDLAGCSV---- 467
           E     ++++     ++    ++  +         I    GE G    +     +V    
Sbjct: 64  ETAFDVMERRRDVGRITTGSKNVDELIGGGIETQSITEVFGEFGSGKSQISHELAVTVQL 123

Query: 468 --------DDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARY 507
                    + +          E+ +    + G  +++    I  AR 
Sbjct: 124 PKERGGLEGECVFIDTENTFRPERIEQIADACGIDREEALQRIHIARA 171


>gi|292654282|ref|YP_003534179.1| DNA repair and recombination protein RadA [Haloferax volcanii DS2]
 gi|2500108|sp|Q48328|RADA_HALVO RecName: Full=DNA repair and recombination protein radA
 gi|1378032|gb|AAC44121.1| RadA [Haloferax volcanii]
 gi|291370076|gb|ADE02303.1| DNA repair and recombination protein RadA [Haloferax volcanii DS2]
          Length = 343

 Score = 42.0 bits (98), Expect = 0.24,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 21/57 (36%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
                 V    A  LV  G+   + +A     E+++       TA +I   AR+  +
Sbjct: 6   LESLPGVGPATADKLVESGYDSYQSIAVASPGELSNKADIGSSTASDIINAARDAAD 62


>gi|317011250|gb|ADU84997.1| 30S ribosomal protein S1 [Helicobacter pylori SouthAfrica7]
          Length = 553

 Score = 42.0 bits (98), Expect = 0.25,   Method: Composition-based stats.
 Identities = 29/155 (18%), Positives = 58/155 (37%), Gaps = 17/155 (10%)

Query: 51  VEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPS--IDIGGVVSDPLPPMDFGR 108
           V IN + G    + ++ V  + E    +++L   +D            +   +      R
Sbjct: 39  VSINEDEG----YAMVSVGGKTE---GRLALSEIKDEKGQLLYHKNDFIKVHV-SEKGER 90

Query: 109 VAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRD 168
            +V   K +  QK++    +    E  +    II G +     G  IV+    +  + R 
Sbjct: 91  PSVSYKKAISQQKIQAKIEE--LGE--NYENAIIEGKIVGKNKGGYIVESQGVEYFLSRS 146

Query: 169 ET-ISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            + +  +    G R+K+ I  V +E     + +SR
Sbjct: 147 HSSLKNDANHIGKRIKACIIRVDKENH--SINISR 179


>gi|124005220|ref|ZP_01690062.1| 30S ribosomal protein S1 [Microscilla marina ATCC 23134]
 gi|123989472|gb|EAY29033.1| 30S ribosomal protein S1 [Microscilla marina ATCC 23134]
          Length = 596

 Score = 42.0 bits (98), Expect = 0.25,   Method: Composition-based stats.
 Identities = 25/89 (28%), Positives = 50/89 (56%), Gaps = 5/89 (5%)

Query: 123 REAERDRQYLEFKDK--VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPG 179
           + AE ++ Y E   +    E+++GTV ++    VI+++G  SDG++   E     +L+ G
Sbjct: 26  KRAELEKMYDETLTQVQEKEVVTGTVVKIVDREVILNIGFKSDGLVPLSEFRDMPDLKSG 85

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFM 208
           D V+ +I + + +  G Q++LSR   + +
Sbjct: 86  DEVEVFIEN-QEDANG-QLILSRKKAKIL 112



 Score = 38.1 bits (88), Expect = 4.1,   Method: Composition-based stats.
 Identities = 29/134 (21%), Positives = 57/134 (42%), Gaps = 10/134 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +K  RD D  I +G  +   +  +++    V  + +V+I+K  E ++ R 
Sbjct: 148 EAFLPGSQIDVKPIRDFD--IYVGKKMEVKVVKINYANDNVVVSHKVLIEKDLEEQKARI 205

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
               +   G+++ G +K +    V +DLG  DG++   +          E L    +V  
Sbjct: 206 LNNLE--KGQVLEGVIKNMTNFGVFIDLGGVDGLLHITDISWGRISHPEEVLNLDQKVNV 263

Query: 185 YIYDVRREQRGPQV 198
            + D   E++   +
Sbjct: 264 VVLDFDDEKKRISL 277


>gi|331002422|ref|ZP_08325940.1| hypothetical protein HMPREF0491_00802 [Lachnospiraceae oral taxon
           107 str. F0167]
 gi|330410238|gb|EGG89672.1| hypothetical protein HMPREF0491_00802 [Lachnospiraceae oral taxon
           107 str. F0167]
          Length = 368

 Score = 42.0 bits (98), Expect = 0.25,   Method: Composition-based stats.
 Identities = 33/146 (22%), Positives = 63/146 (43%), Gaps = 14/146 (9%)

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMD-FGRVAVQSAKQVIIQKVREAE 126
           VVE+   +     +    +RD S      +   +   +   R  +   KQ+++ K +E +
Sbjct: 125 VVEDARVFIPASLVSDTFERDLSKYKDTEIEFVITEFNPKRRRIIGDRKQLLVAK-KEEQ 183

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGD 180
           +   + +     G++I GTVK V      VDLG +DG++   E         ++  + G+
Sbjct: 184 KKALFEKITP--GDVIEGTVKNVTDFGAFVDLGGADGLLHISEMSWGRVENPKKVFKSGE 241

Query: 181 RVKSYIYDVRREQRGPQVLLSRTHPQ 206
            V ++I D+     G ++ LS   P 
Sbjct: 242 TVTAFIKDIS----GEKIALSMKFPD 263


>gi|225022623|ref|ZP_03711815.1| hypothetical protein CORMATOL_02665 [Corynebacterium matruchotii
           ATCC 33806]
 gi|305682064|ref|ZP_07404868.1| 30S ribosomal protein S1 [Corynebacterium matruchotii ATCC 14266]
 gi|224944531|gb|EEG25740.1| hypothetical protein CORMATOL_02665 [Corynebacterium matruchotii
           ATCC 33806]
 gi|305658537|gb|EFM48040.1| 30S ribosomal protein S1 [Corynebacterium matruchotii ATCC 14266]
          Length = 493

 Score = 42.0 bits (98), Expect = 0.25,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V++  V++D+G  ++GVI   E          E +  GD++ + +    +
Sbjct: 34  GDIVEGTVVKVDHDEVLLDIGYKTEGVIPVRELSIKHDVDPDEVVEVGDQIDALVL--TK 91

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 92  EDKEGRLILS 101


>gi|78212274|ref|YP_381053.1| SSU ribosomal protein S1P [Synechococcus sp. CC9605]
 gi|78196733|gb|ABB34498.1| RNA binding S1 [Synechococcus sp. CC9605]
          Length = 424

 Score = 42.0 bits (98), Expect = 0.25,   Method: Composition-based stats.
 Identities = 22/91 (24%), Positives = 38/91 (41%), Gaps = 4/91 (4%)

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR--PGDRVKSYIYDVRREQ 193
           +K G+++   V     G V  DL    G I R +  + EN +   G  +     +V  E 
Sbjct: 236 EKQGKVVQVIVNNFNRGGVTCDLQGLRGFIPRSQLQNGENHQELVGKTLGVAFIEVNSET 295

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           R  +++LS        +   +EV ++  G V
Sbjct: 296 R--KLVLSEKRAAVAERFQDLEVGQLVEGQV 324



 Score = 37.7 bits (87), Expect = 4.6,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 26/57 (45%), Gaps = 7/57 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDL-GNSDGVIRRDE------TISRENLRPGDRVKSYIYD 188
           GE+I GTV  +E   V VD+ G + G + + E      T  RE    G  V+  +  
Sbjct: 152 GEVIKGTVIGIESDGVYVDIGGKAPGYMPKSEAGLGVVTNFRERFPKGLEVEVLVTR 208


>gi|71411957|ref|XP_808187.1| myosin heavy chain [Trypanosoma cruzi strain CL Brener]
 gi|70872338|gb|EAN86336.1| myosin heavy chain, putative [Trypanosoma cruzi]
          Length = 3543

 Score = 42.0 bits (98), Expect = 0.25,   Method: Composition-based stats.
 Identities = 34/142 (23%), Positives = 59/142 (41%), Gaps = 6/142 (4%)

Query: 323  RRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFA 382
            R   N +LA  L     DI    ED   R+ D  +  +   Q    +E +A  L     A
Sbjct: 2800 READNEKLAEDLAQREADIEKLAEDLAQREADNEKLAEDLAQREADNEKLAEELAQRE-A 2858

Query: 383  DVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPG 442
            D+E+LA     ++A  E  +E+ A E+  R  +  +  +   Q++     ++E+L     
Sbjct: 2859 DIEKLA----EDLAQREADNEKLAEELAQREADNEKLAEDLAQREADNEKLAEDLAQREA 2914

Query: 443  IDSKIKVALGENGIKTMEDLAG 464
             + K+   L +     +E LA 
Sbjct: 2915 DNEKLAEELAQREA-DIEKLAE 2935



 Score = 40.8 bits (95), Expect = 0.53,   Method: Composition-based stats.
 Identities = 39/181 (21%), Positives = 65/181 (35%), Gaps = 7/181 (3%)

Query: 323  RRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFA 382
            R   N +LA +L     DI    ED   R+ D  + T    Q    +E +A  L     A
Sbjct: 2604 READNEKLAEELAQREADIEKLAEDLAQREADIEKLTDELAQREADNEKLAEDLAQRE-A 2662

Query: 383  DVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPG 442
            D E+LA     ++A  E  +E+   E+  R  +  +  D   Q++     ++E+L     
Sbjct: 2663 DNEKLA----EDLAQREADNEKLVEELAQREADIEKLTDELAQREADNEKLAEDLAQREA 2718

Query: 443  IDSKIKVALG--ENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVES 500
             + K+   L   E  I+ + D       D     E         +     L   +   E 
Sbjct: 2719 DNEKLAEDLAQREADIEKLTDELAQREADNEKLVEELAQREADIEKLTDELAQREADNEK 2778

Query: 501  M 501
            +
Sbjct: 2779 L 2779



 Score = 40.4 bits (94), Expect = 0.81,   Method: Composition-based stats.
 Identities = 35/159 (22%), Positives = 64/159 (40%), Gaps = 9/159 (5%)

Query: 298  KVVLDEDVGRIEVIVPKEQLSLAIG-RRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN 356
             V +DE      +    EQL+ A+  R   N +LA  L     DI    ++   R+ D  
Sbjct: 1163 SVTIDELNKTTTL---NEQLTRALAQREADNEKLAEDLAQREADIEKLTDELAQREADIE 1219

Query: 357  ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
            + T    Q    +E +   L     AD E+LA     ++A  E  +E+ A ++  R  + 
Sbjct: 1220 KLTDELAQREADNEKLTDELAQRE-ADNEKLA----EDLAQREADNEKLAEDLAQREADN 1274

Query: 417  LEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENG 455
             +  +   Q++     ++E+L      + K+   L +  
Sbjct: 1275 EKLAEDLAQREADNEKLAEDLAQREADNEKLAEELAQRE 1313



 Score = 37.7 bits (87), Expect = 4.1,   Method: Composition-based stats.
 Identities = 31/142 (21%), Positives = 52/142 (36%), Gaps = 6/142 (4%)

Query: 323  RRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFA 382
            R   N +LA +L     DI    ED   R+ D  + T    Q    +E +A  L      
Sbjct: 2982 READNEKLAEELAQREADIEKLAEDLAQREADIEKLTDELAQREADNEKLAEDLAQR--- 3038

Query: 383  DVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPG 442
              E        ++A  E  +E+   E+  R  +  +  D   Q++     ++E+L     
Sbjct: 3039 --EADNEKLTDDLAQREADNEKLVEELAQREADIEKLTDELAQREADNEKLAEDLAQREA 3096

Query: 443  IDSKIKVALGENGIKTMEDLAG 464
             + K+   L +      E LA 
Sbjct: 3097 DNEKLVEELAQREADN-EKLAE 3117



 Score = 37.7 bits (87), Expect = 5.1,   Method: Composition-based stats.
 Identities = 35/149 (23%), Positives = 60/149 (40%), Gaps = 8/149 (5%)

Query: 323 RRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFA 382
           R   N +LA +L     DI    ++   R+ D  +  +   Q    +E +   L     A
Sbjct: 743 READNEKLAEELAQREADIEKLTDELAQREADNEKLAEDLAQREADNEKLVEELAQRE-A 801

Query: 383 DVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPG 442
           D+E+L      E+A  E  +E+ A E+  R  +  +  D   Q++     ++E+L     
Sbjct: 802 DIEKLT----DELAQREADNEKLAEELAQREADIEKLTDELAQREADNEKLAEDLAQREA 857

Query: 443 IDSKIKVALGENGI---KTMEDLAGCSVD 468
            + K+   L +      K  EDLA    D
Sbjct: 858 DNEKLAEDLAQREADNEKLAEDLAQREAD 886



 Score = 36.6 bits (84), Expect = 9.5,   Method: Composition-based stats.
 Identities = 40/203 (19%), Positives = 73/203 (35%), Gaps = 12/203 (5%)

Query: 323  RRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFA 382
            R   N +LA  L     D     E+   R+ D  + T    Q    +E +A  L     A
Sbjct: 2077 READNEKLAEDLAQREADNEKLAENLAQREADIEKLTDELAQREADNEKLAEDLAQRE-A 2135

Query: 383  DVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPG 442
            D E+LA     ++A  E  +E+   E+  R  +  +  D   Q++     ++E+L     
Sbjct: 2136 DNEKLA----EDLAQREADNEKLVEELAQREADNEKLTDELAQREADNEKLAEDLAQREA 2191

Query: 443  IDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMI 502
             + K+   L +      E LA             +    +  +G  S     ++      
Sbjct: 2192 DNEKLAEDLAQREADN-EKLAEELAQREAVIEGAEADASKTIEGVYSRCRELEE------ 2244

Query: 503  IHARYKMGWIEKEKVADEEVQDA 525
            + AR ++       + + E+ DA
Sbjct: 2245 LAARRELAATGDVDILERELADA 2267



 Score = 36.6 bits (84), Expect = 9.6,   Method: Composition-based stats.
 Identities = 35/182 (19%), Positives = 67/182 (36%), Gaps = 9/182 (4%)

Query: 323  RRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFA 382
            R   N +LA  L     D     ED   R+ D  +  +   Q    +E +A  L     A
Sbjct: 2492 READNEKLAEDLAQREADNEKLAEDLAQREADNEKLAEDLAQREADNEKLAEDLAQRE-A 2550

Query: 383  DVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPG 442
            D+E+LA     ++A  E  +E+ A ++  R  +  +  +   Q++     ++E+L     
Sbjct: 2551 DIEKLA----EDLAQREADNEKLAEDLAQREADNEKLAEELAQREADIEKLAEDLAQREA 2606

Query: 443  IDSKIKVALGENGIKTMEDLAG---CSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVE 499
             + K+   L +     +E LA        D+   ++         +     L   +   E
Sbjct: 2607 DNEKLAEELAQREA-DIEKLAEDLAQREADIEKLTDELAQREADNEKLAEDLAQREADNE 2665

Query: 500  SM 501
             +
Sbjct: 2666 KL 2667


>gi|332816911|ref|XP_003309859.1| PREDICTED: LOW QUALITY PROTEIN: laminin subunit beta-2-like [Pan
            troglodytes]
          Length = 1792

 Score = 42.0 bits (98), Expect = 0.25,   Method: Composition-based stats.
 Identities = 25/128 (19%), Positives = 46/128 (35%), Gaps = 9/128 (7%)

Query: 406  AVEIQGRAREYLE-------GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGI-K 457
            A E Q RA+  L+        ++   Q+    +   ++  +  G D      +    +  
Sbjct: 1478 ASEAQQRAQAALDKANASRGQVEQANQELRELIQSVKDFLNQEGADPDSIEMVATRVLEL 1537

Query: 458  TMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
            ++   A   +  L G    +  ++   D  L+       + E ++  AR    W E EK 
Sbjct: 1538 SIPASAEQ-IQHLAGAIAERVRSLADVDAILARTVGDVRRAEQLLQDARRARSWAEDEKQ 1596

Query: 518  ADEEVQDA 525
              E VQ A
Sbjct: 1597 KAETVQAA 1604


>gi|284040497|ref|YP_003390427.1| RNA binding S1 domain protein [Spirosoma linguale DSM 74]
 gi|283819790|gb|ADB41628.1| RNA binding S1 domain protein [Spirosoma linguale DSM 74]
          Length = 595

 Score = 42.0 bits (98), Expect = 0.26,   Method: Composition-based stats.
 Identities = 20/67 (29%), Positives = 39/67 (58%), Gaps = 3/67 (4%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           K  E++ GTV  +    V++++G  SDG++   E     +L+ GD ++ Y+ + + +  G
Sbjct: 46  KEKEVVMGTVVGITDREVLLNIGFKSDGLVPASEFRDMPDLKMGDEIEVYVEN-QEDPNG 104

Query: 196 PQVLLSR 202
            Q++LSR
Sbjct: 105 -QLVLSR 110



 Score = 41.2 bits (96), Expect = 0.41,   Method: Composition-based stats.
 Identities = 29/134 (21%), Positives = 58/134 (43%), Gaps = 10/134 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +K  RD D  I +G  +   +  +++    V  + +V+I+K  EA+R + 
Sbjct: 152 EAFLPGSQIDVKPIRDFD--IFVGKKMEVKVVKINYANDNVVVSHKVLIEKDLEAQRAQI 209

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
               +   G+++ G +K +    V +DLG  DG++   +          E L    +V  
Sbjct: 210 LNNLE--KGQVLEGVIKNMTNFGVFIDLGGVDGLLHITDISWGRISHPSEVLHLDQKVNV 267

Query: 185 YIYDVRREQRGPQV 198
            + D   +++   +
Sbjct: 268 VVLDFDEDKKRISL 281


>gi|296121473|ref|YP_003629251.1| type I site-specific deoxyribonuclease, HsdR family [Planctomyces
           limnophilus DSM 3776]
 gi|296013813|gb|ADG67052.1| type I site-specific deoxyribonuclease, HsdR family [Planctomyces
           limnophilus DSM 3776]
          Length = 1065

 Score = 42.0 bits (98), Expect = 0.26,   Method: Composition-based stats.
 Identities = 38/205 (18%), Positives = 72/205 (35%), Gaps = 27/205 (13%)

Query: 8   ELLQIADAVAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLE 67
           E +  A A    + +  + V+    +S  KAA       + + VE              E
Sbjct: 730 EAIAEARAFCDSRGVSLERVIDANPESFHKAA--ELAQAAHLLVE-------------AE 774

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPL----PPMDFGRVAVQSAKQVIIQKVR 123
           VVE V++   +I L     +     +  VV         P      A+++   V+ +K+R
Sbjct: 775 VVEAVDDAVEKIILNDDLKKQFLFHVAQVVKLYKAILPDPRANEFAAIKTCLVVLAEKIR 834

Query: 124 EAERDRQYLEFKDKVGEII------SGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR 177
                    +  D+VGE++       G V        ++DL   D    +          
Sbjct: 835 NLTDKANIDDLLDQVGELLDESISTVGYVIHATEETSLIDLSEVDFEALKAHFSKGRKHT 894

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSR 202
             +++K+ +   ++  R  Q+  SR
Sbjct: 895 EAEKLKALVS--QKLTRMVQLNKSR 917


>gi|213962551|ref|ZP_03390813.1| 30S ribosomal protein S1 [Capnocytophaga sputigena Capno]
 gi|213954877|gb|EEB66197.1| 30S ribosomal protein S1 [Capnocytophaga sputigena Capno]
          Length = 584

 Score = 42.0 bits (98), Expect = 0.26,   Method: Composition-based stats.
 Identities = 25/77 (32%), Positives = 42/77 (54%), Gaps = 4/77 (5%)

Query: 127 RDRQYLEFKD-KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKS 184
            +     F D +  E++ G V R+     I+D+   S+GVI  +E     NL+ GD+V+ 
Sbjct: 36  EELVKNNFVDTQDNEVVEGVVTRITDREAIIDINAKSEGVISLNEFRYNPNLKVGDKVEV 95

Query: 185 YIYDVRREQRGPQVLLS 201
            I D+R ++ G Q++LS
Sbjct: 96  LI-DIREDKNG-QLVLS 110



 Score = 37.0 bits (85), Expect = 9.1,   Method: Composition-based stats.
 Identities = 28/135 (20%), Positives = 49/135 (36%), Gaps = 12/135 (8%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +K  RD +  ++            +F  V V   K +I   + E +++  
Sbjct: 153 EAFLPGSQIDVKPIRDYEQFVNKTMEFKIVKVNHEFKNVVVSH-KALIEADIEEQKKEII 211

Query: 131 YLEFKDKV-GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVK 183
                    G+++ G VK +    V VDLG  DG+I   +          E +    ++ 
Sbjct: 212 ----SQLEKGQVLEGVVKNITSYGVFVDLGGVDGLIHITDLSWARINHPSEVVSVDQKLN 267

Query: 184 SYIYDVRREQRGPQV 198
             I D    +   Q+
Sbjct: 268 VVILDFDDNKSRIQL 282


>gi|163841039|ref|YP_001625444.1| 30S ribosomal protein S1 [Renibacterium salmoninarum ATCC 33209]
 gi|162954515|gb|ABY24030.1| SSU ribosomal protein S1P [Renibacterium salmoninarum ATCC 33209]
          Length = 504

 Score = 42.0 bits (98), Expect = 0.26,   Method: Composition-based stats.
 Identities = 22/94 (23%), Positives = 47/94 (50%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++ G V +V+   V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 54  GDLVEGIVVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPSEVVSVGDEVEALVL--TK 111

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  +++LS+   Q+      +E  +  +G+V 
Sbjct: 112 EDKEGRLILSKKRAQYERAWGDIEKVQEEDGVVT 145


>gi|323337982|gb|EGA79221.1| Rad51p [Saccharomyces cerevisiae Vin13]
          Length = 334

 Score = 42.0 bits (98), Expect = 0.26,   Method: Composition-based stats.
 Identities = 12/72 (16%), Positives = 25/72 (34%), Gaps = 2/72 (2%)

Query: 342 ITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
           + +E         F    +  +  I + ++    L   G    E +A     ++  I+G 
Sbjct: 1   MEDEAYDEAALGSFVPIEKLQVNGITMADV--KKLRESGLHTAEAVAYAPRKDLLEIKGI 58

Query: 402 DEETAVEIQGRA 413
            E  A ++   A
Sbjct: 59  SEAKADKLLNEA 70


>gi|292655597|ref|YP_003535494.1| hypothetical protein HVO_1445 [Haloferax volcanii DS2]
 gi|291371009|gb|ADE03236.1| conserved hypothetical protein [Haloferax volcanii DS2]
          Length = 320

 Score = 42.0 bits (98), Expect = 0.26,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 22/59 (37%)

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           +       VDE  A LL   G   V  LA      +A     D       +G+AR+ +E
Sbjct: 262 EPLTTLAGVDEADAELLAEAGVRSVRRLATADPEHVADALQIDPTVVSAWKGQARDAME 320


>gi|312135143|ref|YP_004002481.1| hydroxymethylbutenyl pyrophosphate reductase [Caldicellulosiruptor
           owensensis OL]
 gi|311775194|gb|ADQ04681.1| hydroxymethylbutenyl pyrophosphate reductase [Caldicellulosiruptor
           owensensis OL]
          Length = 663

 Score = 42.0 bits (98), Expect = 0.26,   Method: Composition-based stats.
 Identities = 16/57 (28%), Positives = 31/57 (54%), Gaps = 7/57 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISR------ENLRPGDRVKSYIYD 188
           GE++ G + +VE   V+VD+G  ++G+I ++E I        E    GD +++ +  
Sbjct: 305 GEVVKGRIIKVEEDYVLVDIGYKAEGIIYKNEIIKNGNVILKEMFEIGDTIEAVVVK 361


>gi|256826974|ref|YP_003150933.1| 30S ribosomal protein S1P [Cryptobacterium curtum DSM 15641]
 gi|256583117|gb|ACU94251.1| SSU ribosomal protein S1P [Cryptobacterium curtum DSM 15641]
          Length = 403

 Score = 42.0 bits (98), Expect = 0.26,   Method: Composition-based stats.
 Identities = 20/85 (23%), Positives = 44/85 (51%), Gaps = 9/85 (10%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
            G+++ GTV ++E   V+VD+G  S+GVI   E          + +  GD +++ +   +
Sbjct: 33  EGDLVDGTVVKIERDEVLVDIGFKSEGVIPARELSIRKDADPSDIVNLGDSIEALVL--Q 90

Query: 191 REQRGPQVLLSRTHPQFMVKLFHME 215
           +E +  +++LS+   ++      +E
Sbjct: 91  KEDKDGRLILSKKRAEYERAWISVE 115


>gi|156741992|ref|YP_001432121.1| RNA-binding S1 domain-containing protein [Roseiflexus castenholzii
           DSM 13941]
 gi|156233320|gb|ABU58103.1| RNA binding S1 domain protein [Roseiflexus castenholzii DSM 13941]
          Length = 411

 Score = 42.0 bits (98), Expect = 0.26,   Method: Composition-based stats.
 Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 6/73 (8%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
           K G++  G V  V      VD+G +DG++   E          E L+PGD+V+ Y+  + 
Sbjct: 233 KEGDVREGVVTSVCDFGAFVDIGGADGLVHLSELSWSRVKHPSEILKPGDKVQVYVLSID 292

Query: 191 REQRGPQVLLSRT 203
            E++   + L RT
Sbjct: 293 NERKRIALSLKRT 305


>gi|227501804|ref|ZP_03931853.1| 30S ribosomal protein S1 [Corynebacterium accolens ATCC 49725]
 gi|306835982|ref|ZP_07468974.1| 30S ribosomal protein S1 [Corynebacterium accolens ATCC 49726]
 gi|227077829|gb|EEI15792.1| 30S ribosomal protein S1 [Corynebacterium accolens ATCC 49725]
 gi|304568148|gb|EFM43721.1| 30S ribosomal protein S1 [Corynebacterium accolens ATCC 49726]
          Length = 487

 Score = 42.0 bits (98), Expect = 0.26,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V++  V++D+G  ++GVI   E          E +  GD V + +    +
Sbjct: 34  GDIVGGTVVKVDHDEVLLDIGYKTEGVIPSRELSIKHDVNPDEVVEVGDEVDALVL--TK 91

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 92  EDKEGRLILS 101


>gi|118443423|ref|YP_878169.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding
           domain protein [Clostridium novyi NT]
 gi|118133879|gb|ABK60923.1| rpsA [Clostridium novyi NT]
          Length = 634

 Score = 42.0 bits (98), Expect = 0.26,   Method: Composition-based stats.
 Identities = 30/180 (16%), Positives = 73/180 (40%), Gaps = 18/180 (10%)

Query: 22  IDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISL 81
           I+R+     + ++          T  +I ++ + + G I  +R + +          + L
Sbjct: 372 IEREEAFKEIEEAF------NNKTTLNISIKESVKGGIIGRYRGVRI----FVPASHVEL 421

Query: 82  KVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEI 141
               D    I+    VS     ++     + ++++ ++QK +  + +  +  FK    ++
Sbjct: 422 FHVEDLSVYIEQEMTVSIIEFRVNRKGTKIVASRRNVLQKEQAKQEEEAWETFK--KDDV 479

Query: 142 ISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRG 195
           + G +KR+      VD+   DG++   E          + L  G++VK  I ++ +E + 
Sbjct: 480 VEGEIKRLTNFGAFVDINGIDGLLHVSEISWGRVEKPEDILSVGEKVKVCILNIDKEHKK 539


>gi|322792902|gb|EFZ16735.1| hypothetical protein SINV_14612 [Solenopsis invicta]
          Length = 555

 Score = 42.0 bits (98), Expect = 0.27,   Method: Composition-based stats.
 Identities = 29/136 (21%), Positives = 52/136 (38%), Gaps = 41/136 (30%)

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA------IVTKVVLD 302
           + VGA +G +GS ++ ++       + I     D         +PA       VT V   
Sbjct: 339 NSVGAIIGTKGSHIRNII-RFSGASVKIAPLEQD---------KPAEQQTERKVTIVGSP 388

Query: 303 EDVGRI------------------------EVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
           E   +                         E++VP  Q+   IG+ GQNVR   ++TG  
Sbjct: 389 ESQWKAQYLIFEKMREEGYVAGTEDVRLTIEILVPSTQVGRIIGKGGQNVRELQRVTGSV 448

Query: 339 IDIITEEEDSINRQKD 354
           I + +E++ +    ++
Sbjct: 449 IKL-SEQQATPPSAEE 463


>gi|320451273|ref|YP_004203369.1| DNA-directed RNA polymerase subunit alpha [Thermus scotoductus
           SA-01]
 gi|320151442|gb|ADW22820.1| DNA-directed RNA polymerase, subunit alpha [Thermus scotoductus
           SA-01]
          Length = 313

 Score = 42.0 bits (98), Expect = 0.27,   Method: Composition-based stats.
 Identities = 13/67 (19%), Positives = 28/67 (41%)

Query: 346 EDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEET 405
           E +   + +  E     ++ + +   + H L  EG   V  L  + + ++ +I G  E +
Sbjct: 237 EPASVERAEGEEDLDLPLEELGLSTRVLHSLKEEGIESVRALLALNLKDLKNIPGIGERS 296

Query: 406 AVEIQGR 412
             EI+  
Sbjct: 297 LEEIREA 303


>gi|242050664|ref|XP_002463076.1| hypothetical protein SORBIDRAFT_02g037320 [Sorghum bicolor]
 gi|241926453|gb|EER99597.1| hypothetical protein SORBIDRAFT_02g037320 [Sorghum bicolor]
          Length = 344

 Score = 42.0 bits (98), Expect = 0.27,   Method: Composition-based stats.
 Identities = 14/72 (19%), Positives = 27/72 (37%), Gaps = 5/72 (6%)

Query: 344 EEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
           E+E+  +      +     + A++V       L   G   VE +A     ++  I+G  E
Sbjct: 19  EQEEVEHGPFPIEQLQASGIAALDV-----KKLKDSGLHTVEAVAYTPRKDLVQIKGISE 73

Query: 404 ETAVEIQGRARE 415
               +I   A +
Sbjct: 74  AKVDKIIEAASK 85


>gi|116331858|ref|YP_801576.1| 30S ribosomal protein S1 [Leptospira borgpetersenii serovar
           Hardjo-bovis JB197]
 gi|116125547|gb|ABJ76818.1| 30S Ribosomal protein S1 [Leptospira borgpetersenii serovar
           Hardjo-bovis JB197]
          Length = 381

 Score = 42.0 bits (98), Expect = 0.27,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 37/72 (51%), Gaps = 9/72 (12%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSD-GVIRRDET-ISRE-----NLRPGDRVKSYIYDV 189
           K G+I+ GT+  ++   + V L +   G++   ET I        + +PG+ +  ++ +V
Sbjct: 270 KEGDIVKGTIDSLKPFGLFVKLDDHFNGLVPARETGIPNRVPLTQSFKPGEVIDVFVMEV 329

Query: 190 RREQRGPQVLLS 201
             E++  Q+ LS
Sbjct: 330 NPEKK--QISLS 339


>gi|325118121|emb|CBZ53672.1| putative DNA repair protein [Neospora caninum Liverpool]
          Length = 353

 Score = 42.0 bits (98), Expect = 0.27,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 26/59 (44%), Gaps = 11/59 (18%)

Query: 374 HLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGR-----------AREYLEGID 421
            LL   G+  VE +A   +  + +I+G  E+   +++             A+EYLE  +
Sbjct: 50  ELLKDGGYQTVECVAFAPVKNLVAIKGLSEQKVEKLKKASKELCNLGFCSAQEYLEARE 108


>gi|126729556|ref|ZP_01745369.1| hypothetical protein SSE37_03760 [Sagittula stellata E-37]
 gi|126709675|gb|EBA08728.1| hypothetical protein SSE37_03760 [Sagittula stellata E-37]
          Length = 234

 Score = 42.0 bits (98), Expect = 0.27,   Method: Composition-based stats.
 Identities = 23/102 (22%), Positives = 41/102 (40%), Gaps = 10/102 (9%)

Query: 382 ADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIP 441
             VE++A       A      ++ A EI G A  +L   +          G +++L ++ 
Sbjct: 128 ESVEDVAADAAETTAETVEAADDMAEEIVGVAPAFLSAPE----------GEADDLTTLM 177

Query: 442 GIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEK 483
           G+  K+ V L E GI     +A  + D++     N  G   +
Sbjct: 178 GVGPKLAVTLNEAGIYHFSQIAEWTEDNVAWVDANIAGVRGR 219


>gi|328955788|ref|YP_004373121.1| SSU ribosomal protein S1P [Coriobacterium glomerans PW2]
 gi|328456112|gb|AEB07306.1| SSU ribosomal protein S1P [Coriobacterium glomerans PW2]
          Length = 422

 Score = 42.0 bits (98), Expect = 0.27,   Method: Composition-based stats.
 Identities = 21/71 (29%), Positives = 41/71 (57%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
            G+++SGTV ++E+  V+VD+G  S+GVI   E          E +  GD +++ +   +
Sbjct: 33  EGDLVSGTVVKIEHDEVLVDIGFKSEGVIPVRELSIRKDADPSELVSVGDPIEALVL--Q 90

Query: 191 REQRGPQVLLS 201
           +E +  +++LS
Sbjct: 91  KEDKDGRLVLS 101


>gi|302697701|ref|XP_003038529.1| hypothetical protein SCHCODRAFT_103780 [Schizophyllum commune H4-8]
 gi|300112226|gb|EFJ03627.1| hypothetical protein SCHCODRAFT_103780 [Schizophyllum commune H4-8]
          Length = 339

 Score = 42.0 bits (98), Expect = 0.27,   Method: Composition-based stats.
 Identities = 13/73 (17%), Positives = 29/73 (39%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
           ++EE++    +         +Q   +       L   G   VE +A      + +I+G  
Sbjct: 5   SQEEEAGEDYQLAGPLLVSKLQEAGIHANDIKKLAEAGLNTVEAVAFTPKKNLVTIKGIS 64

Query: 403 EETAVEIQGRARE 415
           ++ A +I   A++
Sbjct: 65  DQKADKILAEAQK 77


>gi|291301239|ref|YP_003512517.1| RNA binding S1 domain-containing protein [Stackebrandtia
           nassauensis DSM 44728]
 gi|290570459|gb|ADD43424.1| RNA binding S1 domain protein [Stackebrandtia nassauensis DSM
           44728]
          Length = 507

 Score = 42.0 bits (98), Expect = 0.27,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 40/70 (57%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V+   V++D+G  ++GVI   E          E +  GD+V++ +   ++
Sbjct: 44  GDIVEGTVVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPAEVVSTGDQVEALVL--QK 101

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 102 EDKEGRLILS 111


>gi|126179861|ref|YP_001047826.1| DNA repair and recombination protein RadA [Methanoculleus
           marisnigri JR1]
 gi|166218763|sp|A3CWU4|RADA_METMJ RecName: Full=DNA repair and recombination protein radA
 gi|125862655|gb|ABN57844.1| DNA repair and recombination protein RadA [Methanoculleus
           marisnigri JR1]
          Length = 324

 Score = 42.0 bits (98), Expect = 0.27,   Method: Composition-based stats.
 Identities = 14/54 (25%), Positives = 21/54 (38%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
                 V    A  L   G+  VE +A    S++A      E TA ++   AR+
Sbjct: 6   LEDLPGVGATTAEKLREAGYGTVESVATATTSDLAEAAEIGEATAKKVILAARK 59



 Score = 37.7 bits (87), Expect = 5.3,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 26/74 (35%), Gaps = 17/74 (22%)

Query: 436 ELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPK 495
           +L  +PG+ +     L E G  T+E +A  +  DL                   +    +
Sbjct: 5   DLEDLPGVGATTAEKLREAGYGTVESVATATTSDLA-----------------EAAEIGE 47

Query: 496 DQVESMIIHARYKM 509
              + +I+ AR   
Sbjct: 48  ATAKKVILAARKMA 61


>gi|260892973|ref|YP_003239070.1| DNA ligase, NAD-dependent [Ammonifex degensii KC4]
 gi|260865114|gb|ACX52220.1| DNA ligase, NAD-dependent [Ammonifex degensii KC4]
          Length = 672

 Score = 42.0 bits (98), Expect = 0.27,   Method: Composition-based stats.
 Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 3/61 (4%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELG 432
           A  L+AE F  ++ LA     E+  I     + A  ++     + E  ++ + +++RE G
Sbjct: 526 AAKLLAEHFGSIDRLAQATEEELTEIPEIGPKIAASVRA---FFAEPRNLEVIERLREAG 582

Query: 433 V 433
           V
Sbjct: 583 V 583


>gi|149928276|ref|ZP_01916519.1| 30S ribosomal protein S1 [Limnobacter sp. MED105]
 gi|149823005|gb|EDM82247.1| 30S ribosomal protein S1 [Limnobacter sp. MED105]
          Length = 567

 Score = 42.0 bits (98), Expect = 0.27,   Method: Composition-based stats.
 Identities = 29/121 (23%), Positives = 55/121 (45%), Gaps = 19/121 (15%)

Query: 90  SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD--RQYLEFKDKVGEIISGTVK 147
               G  V   +       +A+ + ++ I   +++   D    +    D+ G +++GTVK
Sbjct: 416 RFKKGDEVEALV-------LAIDTERERISLGIKQLSGDPFTVFASTNDR-GSMVNGTVK 467

Query: 148 RVEYGNVIVDLG-NSDGVIRRDETIS------RENLRPGDRVKSYIYDVRREQRGPQVLL 200
            V+   V+VDLG + +G +R  E  +      R   + GD V + + +V R+ R   + L
Sbjct: 468 SVDAKGVVVDLGDDIEGYLRASEISNDRVEDARNAYKEGDAVTAMVINVDRKAR--SIAL 525

Query: 201 S 201
           S
Sbjct: 526 S 526


>gi|112419535|dbj|BAF02935.1| RAD51 homolog [Populus nigra]
          Length = 342

 Score = 42.0 bits (98), Expect = 0.27,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 21/53 (39%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           +QA  +  +    L   G   VE +A     E+  I+G  E    +I   A +
Sbjct: 31  LQASGIASLDVKKLKDAGLCTVESVAFSPRKELLQIKGISEAKVDKIIEAASK 83


>gi|323348906|gb|EGA83143.1| Rad51p [Saccharomyces cerevisiae Lalvin QA23]
          Length = 296

 Score = 42.0 bits (98), Expect = 0.28,   Method: Composition-based stats.
 Identities = 13/71 (18%), Positives = 27/71 (38%), Gaps = 3/71 (4%)

Query: 346 EDSINRQKDFNERTQFFMQAINVDEI-IAHL--LVAEGFADVEELACVKISEIASIEGFD 402
           E       +    +   ++ + V+ I +A +  L   G    E +A     ++  I+G  
Sbjct: 66  EMEDEAYDEAALGSFVPIEKLQVNGITMADVKKLRESGLHTAEAVAYAPRKDLLEIKGIS 125

Query: 403 EETAVEIQGRA 413
           E  A ++   A
Sbjct: 126 EAKADKLLNEA 136


>gi|313679748|ref|YP_004057487.1| hypothetical protein Ocepr_0857 [Oceanithermus profundus DSM 14977]
 gi|313152463|gb|ADR36314.1| hypothetical protein Ocepr_0857 [Oceanithermus profundus DSM 14977]
          Length = 192

 Score = 42.0 bits (98), Expect = 0.28,   Method: Composition-based stats.
 Identities = 31/144 (21%), Positives = 54/144 (37%), Gaps = 2/144 (1%)

Query: 330 LASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELAC 389
           L   L GW ++ + +      R +      +   Q ++ DE     L+      +EE A 
Sbjct: 7   LIGFLIGWVVEWLIDVAYWRPRLRSARAELETCRQQLD-DERERAKLLQAKIEALEEEAK 65

Query: 390 VKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKV 449
              + +  +EG  +    E +  A   L        +    +   ++L  I GI  KI+ 
Sbjct: 66  GLRARLQRLEGERDRYRNE-RDAALAELRSFATEADRPGEAVSPGDDLKRIEGIGPKIER 124

Query: 450 ALGENGIKTMEDLAGCSVDDLLGW 473
            L   G++T E+LA   V  L   
Sbjct: 125 LLQRAGVRTFEELAATPVARLKEL 148


>gi|262195603|ref|YP_003266812.1| ribosomal protein S1 [Haliangium ochraceum DSM 14365]
 gi|262078950|gb|ACY14919.1| ribosomal protein S1 [Haliangium ochraceum DSM 14365]
          Length = 608

 Score = 42.0 bits (98), Expect = 0.28,   Method: Composition-based stats.
 Identities = 25/120 (20%), Positives = 49/120 (40%), Gaps = 10/120 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ L+  R+ D    IG      +   +  R  +  +++V+++K R A ++      
Sbjct: 143 PGSQVDLRPVRNLD--AFIGQSYKFKVIKFNKKRGNIVLSRRVLLEKERAALKESTLERL 200

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           K   G+ + G VK +      +DLG  DG++   +          E  + GD V+  +  
Sbjct: 201 K--EGQEVEGIVKNLTEYGAFIDLGGIDGLLHITDMSWGRVNHPSELFQVGDHVRVKVLK 258


>gi|255324624|ref|ZP_05365741.1| 30S ribosomal protein S1 [Corynebacterium tuberculostearicum SK141]
 gi|311740509|ref|ZP_07714336.1| 30S ribosomal protein S1 [Corynebacterium pseudogenitalium ATCC
           33035]
 gi|255298530|gb|EET77830.1| 30S ribosomal protein S1 [Corynebacterium tuberculostearicum SK141]
 gi|311304029|gb|EFQ80105.1| 30S ribosomal protein S1 [Corynebacterium pseudogenitalium ATCC
           33035]
          Length = 486

 Score = 42.0 bits (98), Expect = 0.28,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V++  V++D+G  ++GVI   E          E +  GD V + +    +
Sbjct: 34  GDIVEGTVVKVDHDEVLLDIGYKTEGVIPSRELSIKHDVNPDEVVEVGDEVDALVL--TK 91

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 92  EDKEGRLILS 101


>gi|219669404|ref|YP_002459839.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding
           domain protein [Desulfitobacterium hafniense DCB-2]
 gi|219539664|gb|ACL21403.1| hydroxymethylbutenyl pyrophosphate reductase [Desulfitobacterium
           hafniense DCB-2]
          Length = 661

 Score = 42.0 bits (98), Expect = 0.28,   Method: Composition-based stats.
 Identities = 26/104 (25%), Positives = 46/104 (44%), Gaps = 9/104 (8%)

Query: 101 LPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN 160
           +      R  V S K  I+Q+ + A+++        + G+++SG VKR+      VD+G 
Sbjct: 436 IEFDPAKRRVVLSQK-EILQEEQAAKKEHLLATL--QEGDVVSGVVKRLAQFGAFVDIGG 492

Query: 161 SDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQV 198
            DG++   +          E +  GD V+  I  V +EQ    +
Sbjct: 493 VDGLLHVSDIAYTRIKHPSEYVNVGDEVEVQILKVDKEQGKISL 536



 Score = 38.5 bits (89), Expect = 2.8,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 34/65 (52%), Gaps = 7/65 (10%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G +++GTV ++ +  V VDLG  S+GVI   E        + + +  GD++ + +  V  
Sbjct: 298 GALVTGTVVKINHDEVFVDLGWKSEGVIALKELTVASDLQTSDIVAIGDQISAVVLRVEN 357

Query: 192 EQRGP 196
           E+  P
Sbjct: 358 EEGNP 362


>gi|315453859|ref|YP_004074129.1| 30S ribosomal protein S1 [Helicobacter felis ATCC 49179]
 gi|315132911|emb|CBY83539.1| 30S ribosomal protein S1 [Helicobacter felis ATCC 49179]
          Length = 556

 Score = 42.0 bits (98), Expect = 0.28,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 37/70 (52%), Gaps = 4/70 (5%)

Query: 135 KDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDETISRENLRP-GDRVKSYIYDVRRE 192
           +D   ++I G V R   GN I+ D   ++ ++ + ++  R + +P G  +++ + +V  E
Sbjct: 115 QDYKDKVIEGKVVRENRGNYILADKEGAEYILPKSQSSLRRDSKPIGKHIRTCVTNVDPE 174

Query: 193 QRGPQVLLSR 202
                +++SR
Sbjct: 175 VG--SIVVSR 182


>gi|156370197|ref|XP_001628358.1| predicted protein [Nematostella vectensis]
 gi|156215332|gb|EDO36295.1| predicted protein [Nematostella vectensis]
          Length = 336

 Score = 42.0 bits (98), Expect = 0.28,   Method: Composition-based stats.
 Identities = 17/75 (22%), Positives = 36/75 (48%), Gaps = 7/75 (9%)

Query: 391 KISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELG---VSEELCSIPGIDSKI 447
             +E   + G  ++   +I     E+++   +   +KIR+     +++EL  + GI    
Sbjct: 55  DGAEARKLPGIGDKIGKKI----DEFIKTGKLEKLEKIRKDEGTSITKELTRVSGIGPAA 110

Query: 448 KVALGENGIKTMEDL 462
              L E+G+ ++EDL
Sbjct: 111 AKKLIEDGVSSLEDL 125


>gi|260903786|ref|ZP_05912108.1| 30S ribosomal protein S1 [Brevibacterium linens BL2]
          Length = 495

 Score = 41.6 bits (97), Expect = 0.29,   Method: Composition-based stats.
 Identities = 27/99 (27%), Positives = 49/99 (49%), Gaps = 16/99 (16%)

Query: 115 KQVIIQKVREAER-----DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRD 168
           KQV +  +  AE      D     F D  G+I+ GTV +V+   V+VD+G  ++GV+   
Sbjct: 12  KQVAVNDIGTAEDFLAAVDETIKYFND--GDIVEGTVVKVDRDEVLVDIGYKTEGVVLSR 69

Query: 169 ETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           E          E +  GD +++ +   ++E +  +++LS
Sbjct: 70  ELSIKHDVDPGEVVEVGDEIEALVL--QKEDKEGRLMLS 106


>gi|84490269|ref|YP_448501.1| DNA repair and recombination protein RadA [Methanosphaera
           stadtmanae DSM 3091]
 gi|121731077|sp|Q2NE95|RADA_METST RecName: Full=DNA repair and recombination protein radA
 gi|84373588|gb|ABC57858.1| RadA [Methanosphaera stadtmanae DSM 3091]
          Length = 311

 Score = 41.6 bits (97), Expect = 0.29,   Method: Composition-based stats.
 Identities = 32/171 (18%), Positives = 54/171 (31%), Gaps = 28/171 (16%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
                +V E  A  L   GFAD+  LA     E++      E  A ++   AR+      
Sbjct: 4   LEDLPSVGEKTAQKLRDAGFADMMRLATATPKELSVKVEIGEGVAAKVIEAARKA---EK 60

Query: 422 ITLQKKIRELGVSEELCSI----PGIDS---------KIKVALGENG-----------IK 457
           I  +     +   E++  I     G+D           I    GE G           + 
Sbjct: 61  IDFETAFEVMERREDVGRITTGSKGLDELIGGGIETQSITEVYGEFGSGKSQISHELSVT 120

Query: 458 TMEDLAGCSVD-DLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARY 507
           T   +    +D +++          E+ +      G   ++V   I  AR 
Sbjct: 121 TQLPVEEGGLDGEVVFIDTENTFRPERIEQIAEGFGLNIEEVLKKIHVARA 171


>gi|170036665|ref|XP_001846183.1| igf2 mRNA binding protein [Culex quinquefasciatus]
 gi|167879496|gb|EDS42879.1| igf2 mRNA binding protein [Culex quinquefasciatus]
          Length = 520

 Score = 41.6 bits (97), Expect = 0.29,   Method: Composition-based stats.
 Identities = 30/121 (24%), Positives = 50/121 (41%), Gaps = 40/121 (33%)

Query: 249 DPVGACVGMRGSRVQAVVT-----------------ELRDE-KIDIV-----VWSPDSAT 285
           + VGA +G +GS ++ ++                  E + E K+ IV      W    A 
Sbjct: 353 NAVGAIIGTKGSHIRNIIRFSGASVKIAPLEADKPLEQQTERKVTIVGTPEAQW---KAQ 409

Query: 286 FVINALRPAIVTKVV-------LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
           ++I         K+         D+    +E++VP  Q+   IG+ GQNVR   ++TG  
Sbjct: 410 YLI-------FEKMREEGFVSGTDDVRLTVEILVPSAQVGRIIGKGGQNVRELQRVTGSI 462

Query: 339 I 339
           I
Sbjct: 463 I 463


>gi|71024351|ref|XP_762405.1| hypothetical protein UM06258.1 [Ustilago maydis 521]
 gi|46101905|gb|EAK87138.1| hypothetical protein UM06258.1 [Ustilago maydis 521]
          Length = 950

 Score = 41.6 bits (97), Expect = 0.29,   Method: Composition-based stats.
 Identities = 12/52 (23%), Positives = 24/52 (46%), Gaps = 3/52 (5%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAA--RSLYGTMSDIRVEINPETGDISLFRL 65
           +  EKS++ + +L+ +  ++   A   +  G +  IRV I    G I +   
Sbjct: 610 LEQEKSLEPESILAAIETALASGAPLENTEGQVKGIRVAI-RRDGLIRVTER 660


>gi|254172528|ref|ZP_04879203.1| DHH family protein [Thermococcus sp. AM4]
 gi|214033457|gb|EEB74284.1| DHH family protein [Thermococcus sp. AM4]
          Length = 741

 Score = 41.6 bits (97), Expect = 0.29,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 35/65 (53%), Gaps = 1/65 (1%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           +G +  GT+ RVE   V V L  +  G+I+R + +     +PG+ +   + DVR ++R  
Sbjct: 132 IGNVYKGTIDRVERFGVFVRLNPHVVGLIKRKDLLGGREYKPGEEILVQVLDVRPDKREI 191

Query: 197 QVLLS 201
            ++ S
Sbjct: 192 DLIES 196


>gi|116327529|ref|YP_797249.1| 30S ribosomal protein S1 [Leptospira borgpetersenii serovar
           Hardjo-bovis L550]
 gi|116120273|gb|ABJ78316.1| 30S Ribosomal protein S1 [Leptospira borgpetersenii serovar
           Hardjo-bovis L550]
          Length = 381

 Score = 41.6 bits (97), Expect = 0.29,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 37/72 (51%), Gaps = 9/72 (12%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSD-GVIRRDET-ISRE-----NLRPGDRVKSYIYDV 189
           K G+I+ GT+  ++   + V L +   G++   ET I        + +PG+ +  ++ +V
Sbjct: 270 KEGDIVKGTIDSLKPFGLFVKLDDHFNGLVPARETGIPNRVPLTQSFKPGEVIDVFVMEV 329

Query: 190 RREQRGPQVLLS 201
             E++  Q+ LS
Sbjct: 330 NPEKK--QISLS 339


>gi|31747721|gb|AAO38350.1| Lfe154p1 [Leptospirillum ferrooxidans]
          Length = 369

 Score = 41.6 bits (97), Expect = 0.30,   Method: Composition-based stats.
 Identities = 22/113 (19%), Positives = 49/113 (43%), Gaps = 8/113 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RD    IG  +   +  M+  R  +  +++V++++ R+  +       K   GE++ G V
Sbjct: 3   RDMDRLIGQTIQVRIIKMNKKRGNIIVSRRVLLEEWRDRRKKVTMDALK--EGEVLEGIV 60

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           K +      +DLG  DG++   +         ++ +  GD++   +    R+ 
Sbjct: 61  KNITDYGAFIDLGGIDGLLHITDMSWGRVSNPQDLMNVGDKLNVVVLKHDRDT 113


>gi|118355624|ref|XP_001011071.1| DNA repair protein RAD51 containing protein [Tetrahymena
           thermophila]
 gi|3237383|gb|AAC39117.1| Rad51 [Tetrahymena thermophila]
 gi|89292838|gb|EAR90826.1| DNA repair protein RAD51 containing protein [Tetrahymena
           thermophila SB210]
          Length = 331

 Score = 41.6 bits (97), Expect = 0.30,   Method: Composition-based stats.
 Identities = 11/69 (15%), Positives = 25/69 (36%)

Query: 345 EEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEE 404
            E + + ++         ++   ++      L+  GF  VE ++      +  I+G  E 
Sbjct: 2   AEYAEDVEQSDGPMLIAKLEEHGINNADVKKLIDAGFQTVESISYTAKKNLLQIKGMTEA 61

Query: 405 TAVEIQGRA 413
              +I   A
Sbjct: 62  KIDKILDVA 70


>gi|288920743|ref|ZP_06415044.1| RNA binding S1 domain protein [Frankia sp. EUN1f]
 gi|288347871|gb|EFC82147.1| RNA binding S1 domain protein [Frankia sp. EUN1f]
          Length = 492

 Score = 41.6 bits (97), Expect = 0.30,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ G + +V+   V++D+G  ++GVI   E          E +  GD V++ +   ++
Sbjct: 49  GDIVEGVIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPHEVVSVGDEVEALVL--QK 106

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 107 EDKEGRLILS 116


>gi|253681777|ref|ZP_04862574.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Clostridium
           botulinum D str. 1873]
 gi|253561489|gb|EES90941.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Clostridium
           botulinum D str. 1873]
          Length = 633

 Score = 41.6 bits (97), Expect = 0.30,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 32/65 (49%), Gaps = 6/65 (9%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
           K  E+I G ++R+      VD+   DG++   E          + L+ G++VK +I D+ 
Sbjct: 474 KKDEVIEGEIRRLTSFGAFVDVNGIDGLLHVSEISWGRVEKPEDVLKVGEKVKVFILDID 533

Query: 191 REQRG 195
           +E + 
Sbjct: 534 KENKK 538


>gi|269218432|ref|ZP_06162286.1| ribosomal protein S1 [Actinomyces sp. oral taxon 848 str. F0332]
 gi|269211543|gb|EEZ77883.1| ribosomal protein S1 [Actinomyces sp. oral taxon 848 str. F0332]
          Length = 486

 Score = 41.6 bits (97), Expect = 0.30,   Method: Composition-based stats.
 Identities = 26/94 (27%), Positives = 51/94 (54%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+II GTV +V++  V++D+G  ++GVI   E          E +  GD+V++ +   ++
Sbjct: 37  GDIIEGTVVKVDHDEVLLDVGYKTEGVIPSKELSIKHDINPDEVVEVGDQVEALVL--QK 94

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  ++LLS+   Q+      +E  +  +G+V 
Sbjct: 95  EDKEGRLLLSKKRAQYERAWSQIEEVKEADGVVT 128


>gi|284031885|ref|YP_003381816.1| DNA ligase, NAD-dependent [Kribbella flavida DSM 17836]
 gi|283811178|gb|ADB33017.1| DNA ligase, NAD-dependent [Kribbella flavida DSM 17836]
          Length = 671

 Score = 41.6 bits (97), Expect = 0.30,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 31/71 (43%), Gaps = 5/71 (7%)

Query: 369 DEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKI 428
            E  A  L   GF  +EE+A      + ++E    + A  +     E+L  +   L +++
Sbjct: 508 SEGTAARLCRAGFGSLEEVADAGEEGLVAVEDIGPKVAASLV----EHLSRLRPEL-ERL 562

Query: 429 RELGVSEELCS 439
           R  GVS ++  
Sbjct: 563 RAAGVSLDVLE 573


>gi|161350051|ref|YP_157511.2| 30S ribosomal protein S1 [Aromatoleum aromaticum EbN1]
          Length = 569

 Score = 41.6 bits (97), Expect = 0.30,   Method: Composition-based stats.
 Identities = 26/114 (22%), Positives = 47/114 (41%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +D S   G      +  +D  R  V  +++ ++++    ER++     K   G +I G V
Sbjct: 151 KDTSPYEGKEFEFKVIKLDRKRNNVVVSRRAVLEETMGEEREKLLANLK--EGTVIKGIV 208

Query: 147 KRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++       R      E L  GD + + +    +E+ 
Sbjct: 209 KNITDYGAFVDLGGIDGLLHITDLAWRRVRHPSEVLNVGDEIDAKVLKFDQEKN 262


>gi|325957924|ref|YP_004289390.1| DNA repair and recombination protein radA [Methanobacterium sp.
           AL-21]
 gi|325329356|gb|ADZ08418.1| DNA repair and recombination protein radA [Methanobacterium sp.
           AL-21]
          Length = 311

 Score = 41.6 bits (97), Expect = 0.30,   Method: Composition-based stats.
 Identities = 17/74 (22%), Positives = 32/74 (43%), Gaps = 3/74 (4%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE--- 418
             +  NV E  A  L   GFAD+  LA     E++      E  A ++   AR+  +   
Sbjct: 4   LEELPNVGEKTAQKLRDAGFADMMRLATATAKELSVKAEIGEGVAEKVIEAARKSEQIDF 63

Query: 419 GIDITLQKKIRELG 432
              + + ++ +++G
Sbjct: 64  ETAMDVMERRKDVG 77


>gi|332025247|gb|EGI65421.1| Insulin-like growth factor 2 mRNA-binding protein 1 [Acromyrmex
           echinatior]
          Length = 568

 Score = 41.6 bits (97), Expect = 0.31,   Method: Composition-based stats.
 Identities = 29/136 (21%), Positives = 52/136 (38%), Gaps = 41/136 (30%)

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA------IVTKVVLD 302
           + VGA +G +GS ++ ++       + I     D         +PA       VT V   
Sbjct: 348 NSVGAIIGTKGSHIRNII-RFSGASVKIAPLEQD---------KPAEQQTERKVTIVGSP 397

Query: 303 EDVGRI------------------------EVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
           E   +                         E++VP  Q+   IG+ GQNVR   ++TG  
Sbjct: 398 ESQWKAQYLIFEKMREEGYVAGTEDVRLTIEILVPSTQVGRIIGKGGQNVRELQRVTGSV 457

Query: 339 IDIITEEEDSINRQKD 354
           I + +E++ +    ++
Sbjct: 458 IKL-SEQQATPPSAEE 472


>gi|221107270|ref|XP_002166164.1| PREDICTED: similar to high density lipoprotein-binding protein
           vigilin, partial [Hydra magnipapillata]
          Length = 680

 Score = 41.6 bits (97), Expect = 0.31,   Method: Composition-based stats.
 Identities = 31/140 (22%), Positives = 48/140 (34%), Gaps = 31/140 (22%)

Query: 253 ACVGMRGSRVQAVVTELRDEKI---------DIVV---WSPDSATFVINALRPAIVTKVV 300
           A +G  G  +Q+++ E  D  I         DI+V      D           A +    
Sbjct: 449 AMIGPGGKLIQSIMNECGDVNIRFPSEDAKSDIIVIRGAKEDVEK--------AEIQLKK 500

Query: 301 L----DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFN 356
           L     E+    EV    E     IG+ G N+R   + TG  I   T+ +++        
Sbjct: 501 LAEERQENNYTAEVTAKAEHHRFLIGKGGVNIRKVREKTGARIIFPTKNDENKELITIIG 560

Query: 357 ERTQFFMQAINVDEIIAHLL 376
                     +V+E  A LL
Sbjct: 561 T-------KESVEEAKADLL 573


>gi|115486271|ref|NP_001068279.1| Os11g0615800 [Oryza sativa Japonica Group]
 gi|18874069|dbj|BAB85490.1| Rad51 [Oryza sativa Japonica Group]
 gi|77551901|gb|ABA94698.1| DNA repair protein RAD51, putative, expressed [Oryza sativa
           Japonica Group]
 gi|113645501|dbj|BAF28642.1| Os11g0615800 [Oryza sativa Japonica Group]
 gi|218193367|gb|EEC75794.1| hypothetical protein OsI_12723 [Oryza sativa Indica Group]
 gi|222616333|gb|EEE52465.1| hypothetical protein OsJ_34631 [Oryza sativa Japonica Group]
          Length = 339

 Score = 41.6 bits (97), Expect = 0.31,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 21/53 (39%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           +QA  +  +    L   G   VE +A     ++  I+G  E    +I   A +
Sbjct: 28  LQASGIAALDVKKLKDSGLYTVESVAYTPRKDLLQIKGISEAKVDKIVEAASK 80


>gi|18874071|dbj|BAB85491.1| Rad51 [Oryza sativa Japonica Group]
 gi|218186098|gb|EEC68525.1| hypothetical protein OsI_36814 [Oryza sativa Indica Group]
          Length = 339

 Score = 41.6 bits (97), Expect = 0.31,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 21/53 (39%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           +QA  +  +    L   G   VE +A     ++  I+G  E    +I   A +
Sbjct: 28  LQASGIAALDVKKLKDSGLYTVESVAYTPRKDLLQIKGISEAKVDKIVEAASK 80


>gi|326336535|ref|ZP_08202705.1| 30S ribosomal protein S1 [Capnocytophaga sp. oral taxon 338 str.
           F0234]
 gi|325691408|gb|EGD33377.1| 30S ribosomal protein S1 [Capnocytophaga sp. oral taxon 338 str.
           F0234]
          Length = 585

 Score = 41.6 bits (97), Expect = 0.31,   Method: Composition-based stats.
 Identities = 31/134 (23%), Positives = 51/134 (38%), Gaps = 10/134 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +K  RD D  ++            +F  V V   K +I   + E +R+  
Sbjct: 153 EAFLPGSQIDVKPIRDYDQFVNKTMEFKVVKINHEFKNVVVSH-KALIEADIEEQKREII 211

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
             + +   G+++ G VK +    V VDLG  DG+I   +          E L    ++  
Sbjct: 212 -GQLE--KGQVLEGVVKNITSYGVFVDLGGVDGLIHITDLSWSRINHPTEVLELDQKINV 268

Query: 185 YIYDVRREQRGPQV 198
            I D    +   Q+
Sbjct: 269 VILDFDDNKSRIQL 282



 Score = 38.9 bits (90), Expect = 2.2,   Method: Composition-based stats.
 Identities = 31/92 (33%), Positives = 49/92 (53%), Gaps = 5/92 (5%)

Query: 112 QSAKQVIIQKVREAERDRQYLEFKD-KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDE 169
           Q   QV   K+ E ER      F D +  E++ GTV  +     I+D+   S+GVI  +E
Sbjct: 22  QGIDQVDQDKLDEFER-LVKDNFVDTQTDELVMGTVTHLTDREAIIDINAKSEGVISLNE 80

Query: 170 TISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
                +L+ GD+V+  + DVR ++ G Q++LS
Sbjct: 81  FRYNPSLKVGDKVEVLV-DVREDKTG-QLVLS 110


>gi|94497990|ref|ZP_01304554.1| ribosomal protein S1 [Sphingomonas sp. SKA58]
 gi|94422573|gb|EAT07610.1| ribosomal protein S1 [Sphingomonas sp. SKA58]
          Length = 570

 Score = 41.6 bits (97), Expect = 0.31,   Method: Composition-based stats.
 Identities = 31/125 (24%), Positives = 52/125 (41%), Gaps = 10/125 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ ++  RD  P +DI       +  MD  R  +  +++ I+++ R  +R       
Sbjct: 140 PGSQVDIRPVRDVTPLMDIPQP--FQILKMDRRRGNIVVSRRAILEETRAEQRSGLIQTL 197

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
               G+II G VK +      VDLG  DG++   +          E +  GD VK  I  
Sbjct: 198 A--EGQIIEGVVKNITDYGAFVDLGGIDGLLHVTDLSYKRINHPNEMINIGDTVKVQIIR 255

Query: 189 VRREQ 193
           + R+ 
Sbjct: 256 INRDT 260



 Score = 39.7 bits (92), Expect = 1.4,   Method: Composition-based stats.
 Identities = 21/87 (24%), Positives = 36/87 (41%), Gaps = 8/87 (9%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDE-TISREN--LRPGDRVKSYIYDVRREQ 193
            G ++ GTV  +E    ++D+G  S+G +   E  +  +   L+ GD V+ Y+  V    
Sbjct: 28  EGRVVKGTVTGIENDLAVIDVGLKSEGRVPLREFAMPGQKADLKVGDEVEVYVDRVENAH 87

Query: 194 RGPQVLLS--RTHPQFMVKLFHMEVPE 218
                +LS  R   +        E  E
Sbjct: 88  GEA--MLSRDRARREAAWDKLEAEFTE 112


>gi|18312075|ref|NP_558742.1| DNA repair and recombination protein RadA [Pyrobaculum aerophilum
           str. IM2]
 gi|20139514|sp|Q8ZYR9|RADA_PYRAE RecName: Full=DNA repair and recombination protein radA
 gi|18159503|gb|AAL62924.1| DNA repair protein radA [Pyrobaculum aerophilum str. IM2]
 gi|18478907|gb|AAL73354.1| DNA repair protein RadA [Pyrobaculum aerophilum]
          Length = 333

 Score = 41.6 bits (97), Expect = 0.31,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 30/76 (39%), Gaps = 1/76 (1%)

Query: 342 ITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
             + E S  +            +   +  +    L   G+  V ++A   + E+A I G 
Sbjct: 7   KADAEVSQTQATVEVRADVDVEELEGIGRVTGAKLKERGYYTVRDIAFASVKELAEIIG- 65

Query: 402 DEETAVEIQGRAREYL 417
           +E+ A +I   AR+ L
Sbjct: 66  NEDRAQQIIEAARKML 81



 Score = 37.7 bits (87), Expect = 4.9,   Method: Composition-based stats.
 Identities = 18/91 (19%), Positives = 34/91 (37%), Gaps = 18/91 (19%)

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGG 479
            +++  +   E+    ++  + GI       L E G  T+ D+A  SV +L     N   
Sbjct: 10  AEVSQTQATVEVRADVDVEELEGIGRVTGAKLKERGYYTVRDIAFASVKELAEIIGN--- 66

Query: 480 NIEKFDGFLSSLGTPKDQVESMIIHARYKMG 510
                          +D+ + +I  AR  +G
Sbjct: 67  ---------------EDRAQQIIEAARKMLG 82


>gi|51247475|pdb|1SZP|A Chain A, A Crystal Structure Of The Rad51 Filament
 gi|51247476|pdb|1SZP|B Chain B, A Crystal Structure Of The Rad51 Filament
 gi|51247477|pdb|1SZP|C Chain C, A Crystal Structure Of The Rad51 Filament
 gi|51247478|pdb|1SZP|D Chain D, A Crystal Structure Of The Rad51 Filament
 gi|51247479|pdb|1SZP|E Chain E, A Crystal Structure Of The Rad51 Filament
 gi|51247480|pdb|1SZP|F Chain F, A Crystal Structure Of The Rad51 Filament
          Length = 321

 Score = 41.6 bits (97), Expect = 0.31,   Method: Composition-based stats.
 Identities = 12/54 (22%), Positives = 24/54 (44%), Gaps = 3/54 (5%)

Query: 363 MQAINVDEI-IAHL--LVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           ++ + V+ I +A +  L   G    E +A     ++  I+G  E  A ++   A
Sbjct: 4   IEKLQVNGITMADVKKLRESGLHTAEAVAYAPRKDLLEIKGISEAKADKLLNEA 57


>gi|330792068|ref|XP_003284112.1| hypothetical protein DICPUDRAFT_27081 [Dictyostelium purpureum]
 gi|325085926|gb|EGC39324.1| hypothetical protein DICPUDRAFT_27081 [Dictyostelium purpureum]
          Length = 1172

 Score = 41.6 bits (97), Expect = 0.32,   Method: Composition-based stats.
 Identities = 24/109 (22%), Positives = 39/109 (35%), Gaps = 5/109 (4%)

Query: 328  VRLASQLTGWTIDI-ITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEE 386
            V L  +  GW I++       +    K         ++   V +  A  L   GF  V+ 
Sbjct: 1059 VSLFCKKLGW-IELEHLVNLYTQRLDKGVKSEIIPLVEINGVKQARARALWNAGFKTVKS 1117

Query: 387  LACVKISEIA---SIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELG 432
            +A     E+A   ++  F E  A  I   A + LE      + K +E  
Sbjct: 1118 IAVCPPDELARKVNLGKFGEGQARNIIREAGKLLEKKAEEFRAKAKEFE 1166


>gi|297476040|ref|XP_002688448.1| PREDICTED: helicase, POLQ-like [Bos taurus]
 gi|296486374|gb|DAA28487.1| helicase, POLQ-like [Bos taurus]
          Length = 1137

 Score = 41.6 bits (97), Expect = 0.32,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 28/71 (39%), Gaps = 1/71 (1%)

Query: 362  FMQAINVDEIIAHLLVAEGFADVEELACVKISEIA-SIEGFDEETAVEIQGRAREYLEGI 420
             M+   V E  A  L   G+  +  LA      +  +I+      A +I   A+  L   
Sbjct: 1049 LMEVTGVLEGRARQLYNAGYKSLTHLANANPEVLIRTIDHLSRRQAKQIVSSAKMLLHEK 1108

Query: 421  DITLQKKIREL 431
               LQ+++ EL
Sbjct: 1109 AEALQEEVEEL 1119


>gi|193603671|ref|XP_001948893.1| PREDICTED: DNA repair protein RAD51 homolog 1-like [Acyrthosiphon
           pisum]
          Length = 340

 Score = 41.6 bits (97), Expect = 0.32,   Method: Composition-based stats.
 Identities = 13/72 (18%), Positives = 27/72 (37%)

Query: 344 EEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
           EE    + ++D        ++   +       L   G+  +E +A      + +I+G  E
Sbjct: 10  EESVVEDHEEDDGPLLIAKLEGQGITSGDIKKLQEAGYHTIESIAFATKKHLITIKGISE 69

Query: 404 ETAVEIQGRARE 415
             A +I   A +
Sbjct: 70  AKADKILAEASK 81


>gi|89895001|ref|YP_518488.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase
           [Desulfitobacterium hafniense Y51]
 gi|89334449|dbj|BAE84044.1| hypothetical protein [Desulfitobacterium hafniense Y51]
          Length = 661

 Score = 41.6 bits (97), Expect = 0.32,   Method: Composition-based stats.
 Identities = 26/104 (25%), Positives = 46/104 (44%), Gaps = 9/104 (8%)

Query: 101 LPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN 160
           +      R  V S K  I+Q+ + A+++        + G+++SG VKR+      VD+G 
Sbjct: 436 IEFDPAKRRVVLSQK-EILQEEQAAKKEHLLATL--QEGDVVSGVVKRLAQFGAFVDIGG 492

Query: 161 SDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQV 198
            DG++   +          E +  GD V+  I  V +EQ    +
Sbjct: 493 VDGLLHVSDIAYTRIKHPSEYVNVGDEVEVQILKVDKEQGKISL 536



 Score = 38.1 bits (88), Expect = 3.5,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 34/65 (52%), Gaps = 7/65 (10%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G +++GTV ++ +  V VDLG  S+GVI   E        + + +  GD++ + +  V  
Sbjct: 298 GALVTGTVVKINHDEVFVDLGWKSEGVIALKELTVASDLQTSDIVAIGDKISAVVLRVEN 357

Query: 192 EQRGP 196
           E+  P
Sbjct: 358 EEGNP 362


>gi|322704015|gb|EFY95615.1| rRNA biogenesis protein RRP5, putative [Metarhizium anisopliae
           ARSEF 23]
          Length = 1795

 Score = 41.6 bits (97), Expect = 0.32,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 29/72 (40%), Gaps = 9/72 (12%)

Query: 142 ISGTVKRVEYGNVIVD-LGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           + GT+ +++     +   G   G +   E          E+ R G  V  +I  V  EQR
Sbjct: 639 VPGTIIKLQPNGAHIQFYGRLKGFLPVSEMSEAYIRDPNEHFRIGQVVSVHILHVDPEQR 698

Query: 195 GPQVLLSRTHPQ 206
             ++++S   P 
Sbjct: 699 --RLIVSCKDPG 708



 Score = 36.6 bits (84), Expect = 9.4,   Method: Composition-based stats.
 Identities = 15/67 (22%), Positives = 32/67 (47%), Gaps = 9/67 (13%)

Query: 137  KVGEIISGTVKRVE--YGNVIVDLGNSDGVIRRDETISREN-------LRPGDRVKSYIY 187
            K G +++G V++VE     ++VD  ++   +     ++ E         + GD VK+ + 
Sbjct: 1290 KKGSVVTGKVRKVEEFGAFILVDKSSNVSGLCHRSQMADEAVKDATKLYKEGDAVKALVL 1349

Query: 188  DVRREQR 194
            +V   +R
Sbjct: 1350 EVDAVKR 1356


>gi|156541968|ref|XP_001599286.1| PREDICTED: similar to igf2 mRNA binding protein, putative [Nasonia
           vitripennis]
          Length = 598

 Score = 41.6 bits (97), Expect = 0.33,   Method: Composition-based stats.
 Identities = 29/136 (21%), Positives = 51/136 (37%), Gaps = 41/136 (30%)

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA------IVTKVVLD 302
           + VGA +G +GS ++ ++       + I     D         +PA       VT V   
Sbjct: 370 NSVGAIIGTKGSHIRNII-RFSGASVKIAPLESD---------KPAEQQTERKVTIVGSP 419

Query: 303 EDVGRI------------------------EVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
           E   +                         E++VP  Q+   IG+ GQNVR   ++TG  
Sbjct: 420 ESQWKAQYLIFEKMREEGFVSGTEDVRLTVEILVPSAQVGRIIGKGGQNVRELQRVTGSV 479

Query: 339 IDIITEEEDSINRQKD 354
           I + +E++ +     +
Sbjct: 480 IKL-SEQQATPPTADE 494


>gi|73669895|ref|YP_305910.1| DNA topoisomerase I [Methanosarcina barkeri str. Fusaro]
 gi|72397057|gb|AAZ71330.1| DNA topoisomerase I [Methanosarcina barkeri str. Fusaro]
          Length = 771

 Score = 41.6 bits (97), Expect = 0.33,   Method: Composition-based stats.
 Identities = 13/94 (13%), Positives = 36/94 (38%), Gaps = 6/94 (6%)

Query: 415 EYLEGIDITLQKKIRELGVSE--ELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG 472
            ++E      +++ ++    +   +  + G+       L E GI ++E LA     +L  
Sbjct: 669 NFIEWQKTQQEEQAQQPKKEKPKSIKDLEGVGKATAGKLEEAGITSVEALAEADPVELAK 728

Query: 473 WSENKGGNIEKF----DGFLSSLGTPKDQVESMI 502
             +     ++ +    +G ++  G    +  S +
Sbjct: 729 AIKTSVKRVKSWQVSCNGIVTVEGNSTAEGNSTV 762


>gi|134101930|ref|YP_001107591.1| 30S ribosomal protein S1 [Saccharopolyspora erythraea NRRL 2338]
 gi|291007060|ref|ZP_06565033.1| 30S ribosomal protein S1 [Saccharopolyspora erythraea NRRL 2338]
 gi|133914553|emb|CAM04666.1| 30S ribosomal protein S1 [Saccharopolyspora erythraea NRRL 2338]
          Length = 501

 Score = 41.6 bits (97), Expect = 0.33,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +   ++
Sbjct: 43  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPAEVVTVGDFVEALVL--QK 100

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 101 EDKEGRLILS 110


>gi|119897363|ref|YP_932576.1| 30S ribosomal protein S1 [Azoarcus sp. BH72]
 gi|119669776|emb|CAL93689.1| 30S ribosomal protein S1 [Azoarcus sp. BH72]
          Length = 568

 Score = 41.6 bits (97), Expect = 0.33,   Method: Composition-based stats.
 Identities = 25/114 (21%), Positives = 47/114 (41%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +D S   G      +  +D  R  V  +++ ++++    ER +     K   G ++ G V
Sbjct: 150 KDTSPYEGKEYEFKVIKLDRKRNNVVVSRRAVLEESMGEERQKLLENLK--EGTVVKGVV 207

Query: 147 KRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++       R      E L  GD +++ +    +E+ 
Sbjct: 208 KNITDYGAFVDLGGIDGLLHITDLAWRRVRHPSEVLNVGDEIEAKVLKFDQEKN 261


>gi|297617653|ref|YP_003702812.1| hydroxymethylbutenyl pyrophosphate reductase [Syntrophothermus
           lipocalidus DSM 12680]
 gi|297145490|gb|ADI02247.1| hydroxymethylbutenyl pyrophosphate reductase [Syntrophothermus
           lipocalidus DSM 12680]
          Length = 646

 Score = 41.6 bits (97), Expect = 0.33,   Method: Composition-based stats.
 Identities = 29/110 (26%), Positives = 43/110 (39%), Gaps = 12/110 (10%)

Query: 101 LPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK--VGEIISGTVKRVEYGNVIVDL 158
           +      R   Q         + E ER R   EF D    G+I  G VKR+      +DL
Sbjct: 434 IEFNRNKRRGSQVVVSRKEVLIEEKERKR--KEFWDNIEEGQIRQGVVKRLTDYGAFIDL 491

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
              +G++   E          + L  G  ++ Y+  V RE+   +V LSR
Sbjct: 492 DGYEGLLHISEMAHSRVEHPSQVLTEGSVIEVYVLGVDREKE--RVSLSR 539



 Score = 40.0 bits (93), Expect = 0.95,   Method: Composition-based stats.
 Identities = 24/97 (24%), Positives = 44/97 (45%), Gaps = 14/97 (14%)

Query: 139 GEIISGTVKRVEYGNVIVDL-GNSDGVIRRDET------ISRENLRPGDRVKSYIYDVRR 191
           G +++G V +V    V+VD+ G S+GVI   E        ++E ++ GD ++ Y+     
Sbjct: 297 GSVVTGVVIQVTDDEVMVDVGGKSEGVIPLRELSVRDVSSAKEVVKEGDTIEVYVLRWDD 356

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVP----EIYNGIV 224
           +     +LLS+        +  +E      E+  G V
Sbjct: 357 DG---TILLSKKRVDMKKAMDRLEEAFRNGEVIEGTV 390



 Score = 38.1 bits (88), Expect = 3.3,   Method: Composition-based stats.
 Identities = 26/134 (19%), Positives = 53/134 (39%), Gaps = 14/134 (10%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              ++S++        +  G  +   +   D     + S K+V ++K  +   +      
Sbjct: 325 PLRELSVRDVSSAKEVVKEGDTIEVYVLRWDDDGTILLSKKRVDMKKAMDRLEEAF---- 380

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISR-----ENLRPGDRVKSYIYDV 189
             + GE+I GTV +   G ++VD+G     +             E    G  +   + + 
Sbjct: 381 --RNGEVIEGTVLKSVKGGLLVDVGVV-AFLPASHVDQGFARNLEEY-VGQTLPVKVIEF 436

Query: 190 -RREQRGPQVLLSR 202
            R ++RG QV++SR
Sbjct: 437 NRNKRRGSQVVVSR 450


>gi|20094872|ref|NP_614719.1| topoisomerase V [Methanopyrus kandleri AV19]
 gi|14325803|gb|AAK60014.1| topoisomerase V [Methanopyrus kandleri]
 gi|19888102|gb|AAM02649.1| Topoisomerase V [Methanopyrus kandleri AV19]
          Length = 984

 Score = 41.6 bits (97), Expect = 0.33,   Method: Composition-based stats.
 Identities = 30/147 (20%), Positives = 57/147 (38%), Gaps = 5/147 (3%)

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIAS-IEGFDEETAVEIQGRAREYLE 418
           +F +    V   +A  ++     D+E LA +   E+A  +EG  EE A  +   ARE +E
Sbjct: 622 KFLLNIEGVGPKLAERILEAVDYDLERLASLNPEELAEKVEGLGEELAERVVYAARERVE 681

Query: 419 GIDITLQKKIRELGVSEELCSI--PGIDSKIKVALGENG-IKTMEDLAGCS-VDDLLGWS 474
               + +++  E    E L      G   ++    G  G +  + + A  S + ++ G  
Sbjct: 682 SRRKSGRQERSEEEWKEWLERKVGEGRARRLIEYFGSAGEVGKLVENAEVSKLLEVPGIG 741

Query: 475 ENKGGNIEKFDGFLSSLGTPKDQVESM 501
           +     +      L   G    + E +
Sbjct: 742 DEAVARLVPGYKTLRDAGLTPAEAERV 768


>gi|148242687|ref|YP_001227844.1| 30S ribosomal protein S1 [Synechococcus sp. RCC307]
 gi|147850997|emb|CAK28491.1| 30S ribosomal protein S1 [Synechococcus sp. RCC307]
          Length = 397

 Score = 41.6 bits (97), Expect = 0.34,   Method: Composition-based stats.
 Identities = 16/68 (23%), Positives = 27/68 (39%), Gaps = 4/68 (5%)

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR--PGDRVKSYIYDVRREQ 193
           +K G+++   +     G    DL    G I R +    EN     G  V     +V  + 
Sbjct: 209 EKEGKVVQVKITGFNRGGCTCDLEGLRGFIPRSQLNEGENHEALVGKTVGVAFLEVNPDT 268

Query: 194 RGPQVLLS 201
           R  +++LS
Sbjct: 269 R--KLVLS 274


>gi|126277684|ref|XP_001370830.1| PREDICTED: similar to RAD51 homolog (RecA homolog, E. coli) (S.
           cerevisiae), isoform 1 [Monodelphis domestica]
          Length = 339

 Score = 41.6 bits (97), Expect = 0.34,   Method: Composition-based stats.
 Identities = 11/38 (28%), Positives = 18/38 (47%)

Query: 376 LVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           L   G+  VE +A     E+ +++G  E  A +I   A
Sbjct: 41  LEEAGYHTVEAVAYAPKKELINVKGISEAKADKILAEA 78


>gi|289620542|emb|CBI52903.1| putative RAD51 protein [Sordaria macrospora]
          Length = 353

 Score = 41.6 bits (97), Expect = 0.34,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 26/71 (36%)

Query: 345 EEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEE 404
           E+DS                   + +    L+V  GF  VE +A      +  I+G  E+
Sbjct: 14  EDDSGMPNPGAPTPLSALEGVAGLTKRDIQLIVDGGFNTVESVAYTPRRVLEQIKGISEQ 73

Query: 405 TAVEIQGRARE 415
            A +I   A +
Sbjct: 74  KAGKILAEASK 84


>gi|255722349|ref|XP_002546109.1| DNA repair protein RAD51 [Candida tropicalis MYA-3404]
 gi|240136598|gb|EER36151.1| DNA repair protein RAD51 [Candida tropicalis MYA-3404]
          Length = 364

 Score = 41.6 bits (97), Expect = 0.34,   Method: Composition-based stats.
 Identities = 11/51 (21%), Positives = 21/51 (41%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           ++   +       L  EGF  +E +A      + +++G  E  A +I   A
Sbjct: 48  LEGNGISASDIRKLKQEGFHTIESIAYTPKRHLMTVKGISENKAEKISAEA 98


>gi|110742988|dbj|BAE99388.1| RAD51 homolog [Arabidopsis thaliana]
          Length = 342

 Score = 41.6 bits (97), Expect = 0.34,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 30/74 (40%), Gaps = 4/74 (5%)

Query: 346 EDSINRQKDFNERTQFF----MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
           ++++ +Q D   +   F    +QA  +  +    L   G   VE +A     ++  I+G 
Sbjct: 10  QNAVQQQDDEETQHGPFPVEQLQAAGIASVDVKKLRDAGLCTVEGVAYTPRKDLLQIKGI 69

Query: 402 DEETAVEIQGRARE 415
            +    +I   A +
Sbjct: 70  SDAKVDKIVEAASK 83


>gi|300785073|ref|YP_003765364.1| DNA ligase (NAD+) [Amycolatopsis mediterranei U32]
 gi|299794587|gb|ADJ44962.1| DNA ligase (NAD+) [Amycolatopsis mediterranei U32]
          Length = 663

 Score = 41.6 bits (97), Expect = 0.34,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 33/71 (46%), Gaps = 5/71 (7%)

Query: 369 DEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKI 428
            E  A  L   GF  +E++A   +  + ++E    + A  +     E+L  +   L +++
Sbjct: 501 SEGTAARLCRAGFGSLEDVAEAGVDGLVAVEDIGPKVAASLI----EHLTRLRPEL-ERL 555

Query: 429 RELGVSEELCS 439
           R+ GVS ++  
Sbjct: 556 RKAGVSLDVRE 566


>gi|18977049|ref|NP_578406.1| ski2-like helicase [Pyrococcus furiosus DSM 3638]
 gi|18202135|sp|O73946|HELS_PYRFU RecName: Full=Putative ski2-type helicase
 gi|223365750|pdb|2ZJ2|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 1
 gi|223365751|pdb|2ZJ5|A Chain A, Archaeal Dna Helicase Hjm Complexed With Adp In Form 1
 gi|223365752|pdb|2ZJ8|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 2
 gi|223365753|pdb|2ZJA|A Chain A, Archaeal Dna Helicase Hjm Complexed With Amppcp In Form 2
 gi|3374506|dbj|BAA32016.1| helicase [Pyrococcus furiosus]
 gi|18892686|gb|AAL80801.1| helicase [Pyrococcus furiosus DSM 3638]
          Length = 720

 Score = 41.6 bits (97), Expect = 0.34,   Method: Composition-based stats.
 Identities = 14/48 (29%), Positives = 21/48 (43%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEI 409
            MQ   V    A  L   GF  +E+++  +  E+  IEG   +T   I
Sbjct: 648 LMQLPLVGRRRARALYNSGFRSIEDISQARPEELLKIEGIGVKTVEAI 695


>gi|152980697|ref|YP_001354358.1| 30S ribosomal protein S1 [Janthinobacterium sp. Marseille]
 gi|151280774|gb|ABR89184.1| small subunit ribosomal protein S1 [Janthinobacterium sp.
           Marseille]
          Length = 571

 Score = 41.6 bits (97), Expect = 0.35,   Method: Composition-based stats.
 Identities = 23/69 (33%), Positives = 38/69 (55%), Gaps = 9/69 (13%)

Query: 138 VGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISREN-------LRPGDRVKSYIYDV 189
            G +++GTVK VE    ++ L    +G +R  E ISR+        L+ GD V++ + +V
Sbjct: 462 KGALVTGTVKSVEPKGAVIQLSDEVEGYLRASE-ISRDRVEDAGTHLKVGDTVEAMVINV 520

Query: 190 RREQRGPQV 198
            R+ RG Q+
Sbjct: 521 DRKARGIQL 529



 Score = 38.9 bits (90), Expect = 2.4,   Method: Composition-based stats.
 Identities = 24/107 (22%), Positives = 43/107 (40%), Gaps = 8/107 (7%)

Query: 94  GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN 153
           G  +   +  +D  R  V  +++ +I+     ER +     K   G I++G VK +    
Sbjct: 161 GKTLEFKVIKLDRKRNNVVLSRRAVIEASMGEERQKLMETLK--EGTIVTGVVKNITDYG 218

Query: 154 VIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
             VDLG  DG++       R      E L  G  + + +    +E+ 
Sbjct: 219 AFVDLGGIDGLLHITDLAWRRVRHPSEVLTVGQEITAKVLKYDQEKN 265


>gi|110667807|ref|YP_657618.1| DNA repair and recombination protein radA [Haloquadratum walsbyi
           DSM 16790]
 gi|109625554|emb|CAJ51980.1| probable DNA repair and recombination protein radA [Haloquadratum
           walsbyi DSM 16790]
          Length = 520

 Score = 41.6 bits (97), Expect = 0.35,   Method: Composition-based stats.
 Identities = 14/54 (25%), Positives = 21/54 (38%)

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
            V E  A+ L   GF     +A     E+ ++      TA +I   AR   + I
Sbjct: 237 GVSETRANHLRTAGFETRSAVATASPHELTAVPSIGTNTAQQIHASARAVADEI 290


>gi|285018380|ref|YP_003376091.1| 30s ribosomal protein s1 [Xanthomonas albilineans GPE PC73]
 gi|283473598|emb|CBA16101.1| 30s ribosomal protein s1 [Xanthomonas albilineans]
          Length = 559

 Score = 41.6 bits (97), Expect = 0.35,   Method: Composition-based stats.
 Identities = 27/114 (23%), Positives = 47/114 (41%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RDPS   G  +   L  +D  R  V  +++ +++     ER++   +     G I+ G V
Sbjct: 143 RDPSCLDGKELEFKLIKLDRKRNNVVVSRRAVVESEHSEEREQLMDKLN--EGTILKGVV 200

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++   +          E +  GD +   +    RE+ 
Sbjct: 201 KNLTDYGAFVDLGGIDGLLHITDMAWKRVRHPSEVVNVGDELDVRVLKFDRERN 254


>gi|255712479|ref|XP_002552522.1| KLTH0C06842p [Lachancea thermotolerans]
 gi|238933901|emb|CAR22084.1| KLTH0C06842p [Lachancea thermotolerans]
          Length = 381

 Score = 41.6 bits (97), Expect = 0.35,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 26/74 (35%), Gaps = 5/74 (6%)

Query: 345 EEDSINRQKDFNERTQFFM--QAINVDEIIA---HLLVAEGFADVEELACVKISEIASIE 399
           E+D        +     F+  + + V+ I A     L   G    + +A     ++  I+
Sbjct: 44  EQDREMAGDGEDVALVSFVPLERLQVNGITALDIKKLRENGLHTADAVAYAPRKDLLEIK 103

Query: 400 GFDEETAVEIQGRA 413
           G  E  A  +   A
Sbjct: 104 GISEAKADRLLNEA 117


>gi|307196422|gb|EFN78011.1| Insulin-like growth factor 2 mRNA-binding protein 1 [Harpegnathos
           saltator]
          Length = 647

 Score = 41.6 bits (97), Expect = 0.35,   Method: Composition-based stats.
 Identities = 29/136 (21%), Positives = 51/136 (37%), Gaps = 41/136 (30%)

Query: 249 DPVGACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPA------IVTKVVLD 302
           + VGA +G +GS ++ ++       + I     D         +PA       VT V   
Sbjct: 386 NSVGAIIGTKGSHIRNII-RFSGASVKIAPLEQD---------KPAEQQTERKVTIVGSP 435

Query: 303 EDVGRI------------------------EVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
           E   +                         E++VP  Q+   IG+ GQNVR   ++TG  
Sbjct: 436 ESQWKAQYLIFEKMREEGYVSGTEDVRLTIEILVPSAQVGRIIGKGGQNVRELQRVTGSV 495

Query: 339 IDIITEEEDSINRQKD 354
           I + +E++ +     +
Sbjct: 496 IKL-SEQQATPPSADE 510


>gi|39939960|ref|XP_359517.1| hypothetical protein MGG_05260 [Magnaporthe oryzae 70-15]
 gi|145010459|gb|EDJ95115.1| hypothetical protein MGG_05260 [Magnaporthe oryzae 70-15]
          Length = 1808

 Score = 41.6 bits (97), Expect = 0.35,   Method: Composition-based stats.
 Identities = 22/135 (16%), Positives = 47/135 (34%), Gaps = 10/135 (7%)

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           ++ L   R + P       +      +     A    +    + +  +E        +  
Sbjct: 590 EMHLADIRLQHPEKKFREGLKVKARVLSVDP-AKNQLRLTFKKTLVNSEAAPIKDFGEAS 648

Query: 138 VGEIISGTVKRVEYGNVIVD-LGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
           VG+ + GT+ +++     V   G   G +   E          E+ R G  V  ++  V 
Sbjct: 649 VGQQVQGTIVKIKPIGAFVQFYGTLRGFLPIGEMSESFIRDPNEHFRTGQVVNVHVISVD 708

Query: 191 REQRGPQVLLSRTHP 205
            E+R  ++++S   P
Sbjct: 709 PERR--RLVVSCKDP 721


>gi|328951208|ref|YP_004368543.1| DNA-directed RNA polymerase subunit alpha [Marinithermus
           hydrothermalis DSM 14884]
 gi|328451532|gb|AEB12433.1| DNA-directed RNA polymerase subunit alpha [Marinithermus
           hydrothermalis DSM 14884]
          Length = 317

 Score = 41.6 bits (97), Expect = 0.36,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 24/58 (41%)

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           R    +  + +   + H L  EG   +E L  +   E+  + G  E +  EI+ R  E
Sbjct: 253 RPALTLDDLGLSTRVLHNLKEEGIDSIENLLALTERELKKVPGIGERSVEEIKERLAE 310


>gi|325336774|gb|ADZ13048.1| Ribosomal protein S1 [Riemerella anatipestifer RA-GD]
          Length = 603

 Score = 41.6 bits (97), Expect = 0.36,   Method: Composition-based stats.
 Identities = 31/134 (23%), Positives = 53/134 (39%), Gaps = 10/134 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +K  +D D  +             +F  V V   K +I   + + +++  
Sbjct: 170 EAFLPGSQIDVKPIKDYDQYVGKTMEFKVVKINPEFKNVVVSH-KALIEADIEDQKKEII 228

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
                +K G+++ GTVK +    V +DLG  DG++   +          E L  G  VK 
Sbjct: 229 AQ--LEK-GQVLEGTVKNITSYGVFIDLGGVDGLVHITDLSWSRVNHPTEILEDGQTVKV 285

Query: 185 YIYDVRREQRGPQV 198
            I D   ++   Q+
Sbjct: 286 VILDFDEDKTRIQL 299



 Score = 38.9 bits (90), Expect = 2.1,   Method: Composition-based stats.
 Identities = 21/107 (19%), Positives = 45/107 (42%), Gaps = 6/107 (5%)

Query: 60  ISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           + L     +V+        ISL   R  +P++ +G  V   +   +     +    Q+  
Sbjct: 74  VRLTDKEAIVDIDFKSEGVISLNEFR-YNPNLKVGDEVEVMVDRREDKTGQL----QLSH 128

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIR 166
           +K R  +   +  ++ +  GE+++G VK    G +IVD+   +  + 
Sbjct: 129 KKARTLKAWDKVNQYHE-SGEVVNGFVKSRTKGGMIVDVFGIEAFLP 174


>gi|317495376|ref|ZP_07953745.1| S1 RNA binding domain-containing protein [Gemella moribillum M424]
 gi|316914435|gb|EFV35912.1| S1 RNA binding domain-containing protein [Gemella moribillum M424]
          Length = 404

 Score = 41.6 bits (97), Expect = 0.36,   Method: Composition-based stats.
 Identities = 23/107 (21%), Positives = 45/107 (42%), Gaps = 8/107 (7%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG 152
           +G   +  +  +D  +  +   ++VI+++ R  +    Y       G++I G V R+   
Sbjct: 164 VGQEYTFKIEEVDKDKNKIILNRRVILEEERAKKLAEVYGNIN--EGDVIEGKVSRITDF 221

Query: 153 NVIVDLGNSDGVIRRDETIS------RENLRPGDRVKSYIYDVRREQ 193
              ++LG  DG++   E          + L  GD VK  +  V +E 
Sbjct: 222 GAFINLGEVDGLLHISEISHARVSKVSDVLAVGDVVKVAVISVDKEN 268


>gi|189465636|ref|ZP_03014421.1| hypothetical protein BACINT_01996 [Bacteroides intestinalis DSM
           17393]
 gi|189437910|gb|EDV06895.1| hypothetical protein BACINT_01996 [Bacteroides intestinalis DSM
           17393]
          Length = 665

 Score = 41.6 bits (97), Expect = 0.36,   Method: Composition-based stats.
 Identities = 26/113 (23%), Positives = 41/113 (36%), Gaps = 6/113 (5%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           V E +A   +A+ F D+EEL    +  + +I+   E+ A  I       L   ++  + K
Sbjct: 515 VGETVAKK-IAKSFTDIEELENADLERLINIDEIGEKIAQSIISYFANPL-NRELIERLK 572

Query: 428 IRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           I  L  S +   + G        L    I         S D+     E  GG 
Sbjct: 573 IAGLQFSRKEEDLSGYTD----KLVGQSIVISGVFTHHSRDEYKDLIEKNGGK 621


>gi|78222087|ref|YP_383834.1| 30S ribosomal protein S1 [Geobacter metallireducens GS-15]
 gi|78193342|gb|ABB31109.1| SSU ribosomal protein S1P [Geobacter metallireducens GS-15]
          Length = 586

 Score = 41.6 bits (97), Expect = 0.36,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 39/70 (55%), Gaps = 6/70 (8%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRE---NLRPGDRVKSYIYDVRRE 192
           +VGE+++G V  +    V+VD+G  S+G I  DE +  +    ++ GD VK+     +  
Sbjct: 45  RVGEVVTGKVVHISNEFVLVDIGYKSEGCIAIDEFLDEDGNLTVKVGDEVKALFER-KEN 103

Query: 193 QRGPQVLLSR 202
           Q+G   +LSR
Sbjct: 104 QKG-YAVLSR 112


>gi|300787975|ref|YP_003768266.1| 30S ribosomal protein S1 [Amycolatopsis mediterranei U32]
 gi|299797489|gb|ADJ47864.1| small subunit ribosomal protein S1 [Amycolatopsis mediterranei U32]
          Length = 499

 Score = 41.6 bits (97), Expect = 0.36,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +   ++
Sbjct: 43  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPAEVVTVGDEVEALVL--QK 100

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 101 EDKEGRLILS 110


>gi|167751224|ref|ZP_02423351.1| hypothetical protein EUBSIR_02210 [Eubacterium siraeum DSM 15702]
 gi|167655731|gb|EDR99860.1| hypothetical protein EUBSIR_02210 [Eubacterium siraeum DSM 15702]
          Length = 658

 Score = 41.6 bits (97), Expect = 0.36,   Method: Composition-based stats.
 Identities = 28/117 (23%), Positives = 53/117 (45%), Gaps = 14/117 (11%)

Query: 89  PSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE---RDRQYLEFKDK--VGEIIS 143
               +  ++   +P   F  + V  A+  ++  +R+A+    D    +F +   VG+  +
Sbjct: 434 KDGKLEELLKKTVP---FKVIEVTEARGRVVGSIRQAKKEANDAAKAKFWENIEVGQKFT 490

Query: 144 GTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           G VK +E   V VDLG  DG++   E         RE ++ GD++  Y+     E++
Sbjct: 491 GEVKSIESYGVFVDLGGVDGMVHSSELTWNRIKHPREIVKIGDKLDVYVKSFDPEKK 547


>gi|171184588|ref|YP_001793507.1| DEAD/DEAH box helicase domain-containing protein [Thermoproteus
           neutrophilus V24Sta]
 gi|170933800|gb|ACB39061.1| DEAD/DEAH box helicase domain protein [Thermoproteus neutrophilus
           V24Sta]
          Length = 729

 Score = 41.6 bits (97), Expect = 0.36,   Method: Composition-based stats.
 Identities = 25/88 (28%), Positives = 36/88 (40%), Gaps = 2/88 (2%)

Query: 328 VRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAI-NVDEIIAHLLVAEGFADVEE 386
            +LA  L G        E  +        E     + A+  V  + A  L   G+  V++
Sbjct: 637 AKLAGML-GLEEHRRGLEVVTARVIYGVREELLELVTALRGVGRVRARALYNFGYRTVKD 695

Query: 387 LACVKISEIASIEGFDEETAVEIQGRAR 414
           LA   + EIAS+ GF E  A  I  +AR
Sbjct: 696 LAKASVREIASLPGFGERLAESIIEQAR 723


>gi|228473973|ref|ZP_04058714.1| 30S ribosomal protein S1 [Capnocytophaga gingivalis ATCC 33624]
 gi|228274487|gb|EEK13328.1| 30S ribosomal protein S1 [Capnocytophaga gingivalis ATCC 33624]
          Length = 585

 Score = 41.6 bits (97), Expect = 0.37,   Method: Composition-based stats.
 Identities = 31/134 (23%), Positives = 51/134 (38%), Gaps = 10/134 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +K  RD D  ++            +F  V V   K +I   + E +R+  
Sbjct: 153 EAFLPGSQIDVKPIRDYDQFVNKTMEFKVVKINHEFKNVVVSH-KALIEADIEEQKREII 211

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
             + +   G+++ G VK +    V VDLG  DG+I   +          E L    ++  
Sbjct: 212 -GQLE--KGQVLEGIVKNITSYGVFVDLGGVDGLIHITDLSWSRINHPTEVLELDQKINV 268

Query: 185 YIYDVRREQRGPQV 198
            I D    +   Q+
Sbjct: 269 VILDFDDNKSRIQL 282



 Score = 39.3 bits (91), Expect = 1.8,   Method: Composition-based stats.
 Identities = 31/92 (33%), Positives = 49/92 (53%), Gaps = 5/92 (5%)

Query: 112 QSAKQVIIQKVREAERDRQYLEFKD-KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDE 169
           Q   QV   K+ E ER      F D +  E++ GTV  +     I+D+   S+GVI  +E
Sbjct: 22  QGIDQVDKDKLNEFER-LVKDNFVDTQADELVIGTVTHLTDREAIIDINAKSEGVISLNE 80

Query: 170 TISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
                NL+ GD+V+  + D+R ++ G Q++LS
Sbjct: 81  FRYNPNLKVGDKVEVLV-DIREDKTG-QLVLS 110


>gi|291286532|ref|YP_003503348.1| hypothetical protein Dacet_0596 [Denitrovibrio acetiphilus DSM
           12809]
 gi|290883692|gb|ADD67392.1| hypothetical protein Dacet_0596 [Denitrovibrio acetiphilus DSM
           12809]
          Length = 227

 Score = 41.6 bits (97), Expect = 0.37,   Method: Composition-based stats.
 Identities = 35/191 (18%), Positives = 65/191 (34%), Gaps = 31/191 (16%)

Query: 95  GVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNV 154
             +   +         + S             ++     F +    ++ G V+ V   NV
Sbjct: 58  DGIEREIVLKKHDVTTLASILNTEYFNFGNHRKEIYLKSFMN---SLVKGEVREVSAENV 114

Query: 155 I--VDLG---NSDGVIRRDETIS--RENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQF 207
           +  V LG      GV+ +       R   + G  ++S +    +        LS T  + 
Sbjct: 115 LLNVYLGVNYRVTGVLHKMHITPKMRGTFQIGQEIRSLVIGTEKLADDVVFTLSLTSRKL 174

Query: 208 MVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVT 267
           + KLF             V+ V R  G R+   +  S + I         RG+ ++++  
Sbjct: 175 VEKLFE-------EQGYSVRCVHRIVGGRS---IIQSTNHI--------PRGT-IKSLSD 215

Query: 268 ELRDEKIDIVV 278
           EL  E+I I+ 
Sbjct: 216 ELS-ERI-IIE 224


>gi|18420327|ref|NP_568402.1| ATRAD51; ATP binding / DNA binding / DNA-dependent ATPase/ damaged
           DNA binding / nucleoside-triphosphatase/ nucleotide
           binding / protein binding / sequence-specific DNA
           binding [Arabidopsis thaliana]
 gi|55976288|sp|P94102|RAD51_ARATH RecName: Full=DNA repair protein RAD51 homolog 1; AltName:
           Full=Rad51-like protein 1; Short=AtRAD51
 gi|1706947|gb|AAB37762.1| RAD51 homolog [Arabidopsis thaliana]
 gi|1706949|gb|AAC49555.1| AtRAD51 [Arabidopsis thaliana]
 gi|2388778|emb|CAA04529.1| Rad51-like protein [Arabidopsis thaliana]
 gi|332005514|gb|AED92897.1| DNA repair protein RAD51-like 1 [Arabidopsis thaliana]
          Length = 342

 Score = 41.6 bits (97), Expect = 0.37,   Method: Composition-based stats.
 Identities = 14/74 (18%), Positives = 30/74 (40%), Gaps = 4/74 (5%)

Query: 346 EDSINRQKDFNERTQFF----MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
           ++++ +Q D   +   F    +QA  +  +    L   G   VE +A     ++  I+G 
Sbjct: 10  QNAVQQQDDEETQHGPFPVEQLQAAGIASVDVKKLRDAGLCTVEGVAYTPRKDLLQIKGI 69

Query: 402 DEETAVEIQGRARE 415
            +    +I   A +
Sbjct: 70  SDAKVDKIVEAASK 83


>gi|322698144|gb|EFY89917.1| rRNA biogenesis protein RRP5, putative [Metarhizium acridum CQMa
           102]
          Length = 1796

 Score = 41.2 bits (96), Expect = 0.37,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 29/72 (40%), Gaps = 9/72 (12%)

Query: 142 ISGTVKRVEYGNVIVD-LGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           + GT+ +++     +   G   G +   E          E+ R G  V  +I  V  EQR
Sbjct: 641 VPGTIIKLQPNGAHIQFYGRLKGFLPVSEMSEAYIRDPNEHFRIGQVVSVHILHVDPEQR 700

Query: 195 GPQVLLSRTHPQ 206
             ++++S   P 
Sbjct: 701 --RLIVSCKDPG 710



 Score = 36.6 bits (84), Expect = 9.8,   Method: Composition-based stats.
 Identities = 18/67 (26%), Positives = 33/67 (49%), Gaps = 9/67 (13%)

Query: 137  KVGEIISGTVKRVE--YGNVIVDL-GNSDGVIRRDETI------SRENLRPGDRVKSYIY 187
            K G +++G V++VE     ++VD   N  G+  R E        + +  + GD VK+ + 
Sbjct: 1293 KEGSVVTGKVRKVEEFGAFILVDNSNNVSGLCHRSEMADEAVKDATKLYKEGDAVKALVL 1352

Query: 188  DVRREQR 194
            +V   +R
Sbjct: 1353 EVDAVKR 1359


>gi|15644630|ref|NP_229244.1| ribosomal protein S1 [Thermotoga maritima MSB8]
          Length = 543

 Score = 41.2 bits (96), Expect = 0.37,   Method: Composition-based stats.
 Identities = 20/106 (18%), Positives = 40/106 (37%), Gaps = 10/106 (9%)

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPG 179
            +     +   V  +++G V  +      V+L    +G +   E          E L+ G
Sbjct: 349 WENIEDRYN--VNNVVTGKVTGIIKQGAFVELEEGVEGFVPVSEISWKRIDEPGEILKIG 406

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPE-IYNGIV 224
           ++VK  I  + +E R   + + RT      +      P+ I +G +
Sbjct: 407 EKVKVKILKIDKENRKITLSIKRTQENPWERALKELKPDSIVSGTI 452



 Score = 41.2 bits (96), Expect = 0.42,   Method: Composition-based stats.
 Identities = 29/115 (25%), Positives = 57/115 (49%), Gaps = 14/115 (12%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKV---REAERDRQYLEF--KDKVGEIISGTVKRVEYGN 153
           DP+P  +   + ++ A+     ++   R A +D++  EF  + KVG+I+ GTVK +    
Sbjct: 141 DPMPEKEIEVIILEMAQTRRGPRIVVSRRALQDKKIEEFFSEKKVGDIVEGTVKGISNAG 200

Query: 154 VIVDL-GNSDGVIRRDE------TISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           V V++     G I R E          + ++PG  + + I ++ + ++   V+LS
Sbjct: 201 VEVEISEGVRGFIPRSELSYDTRISPEDIVKPGQNITAKIIELDKVKKN--VILS 253



 Score = 37.0 bits (85), Expect = 8.3,   Method: Composition-based stats.
 Identities = 22/93 (23%), Positives = 41/93 (44%), Gaps = 8/93 (8%)

Query: 127 RDRQYLEFKD---KVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISR-ENLRPGDR 181
            D    +++    + G+I+ G V   E   V+VD  G S+G +  +E I   +  + G+ 
Sbjct: 7   NDEILSQYEPEEFRRGQIVKGVVIGKEDDGVVVDFGGKSEGFVPENELIKSLDEYKVGEN 66

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHM 214
           +   I ++  E+R    +LS   P     L  +
Sbjct: 67  LTLQILNLNYEERS---ILSERRPVLRKTLEEL 96


>gi|319792457|ref|YP_004154097.1| ribosomal protein s1 [Variovorax paradoxus EPS]
 gi|315594920|gb|ADU35986.1| ribosomal protein S1 [Variovorax paradoxus EPS]
          Length = 562

 Score = 41.2 bits (96), Expect = 0.38,   Method: Composition-based stats.
 Identities = 21/68 (30%), Positives = 34/68 (50%), Gaps = 7/68 (10%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G+I++G VK V+     +DLG +  G +R  E         R  L+ GD V + + +V 
Sbjct: 450 KGQIVTGKVKTVDARGAEIDLGEDILGYLRASEISRDRVEDARNVLKEGDEVTAIVVNVD 509

Query: 191 REQRGPQV 198
           R+ R  Q+
Sbjct: 510 RKTRNIQL 517


>gi|163814142|ref|ZP_02205534.1| hypothetical protein COPEUT_00296 [Coprococcus eutactus ATCC 27759]
 gi|158450591|gb|EDP27586.1| hypothetical protein COPEUT_00296 [Coprococcus eutactus ATCC 27759]
          Length = 649

 Score = 41.2 bits (96), Expect = 0.38,   Method: Composition-based stats.
 Identities = 37/185 (20%), Positives = 82/185 (44%), Gaps = 22/185 (11%)

Query: 32  ADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--------EEVENYTCQISLKV 83
             S+  + + +    ++ ++E   E+G+I   ++++VV        +E   +     +  
Sbjct: 365 EGSVLLSYKRVAAEKANEKLEAALESGEILTGKVVQVVSGGLNVMYDETRVFIPASLVSD 424

Query: 84  ARDRDPSIDIGGVVSDPLPP-MDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEII 142
             +++    +   V   L       R  + + KQ+I+ +  EA ++  +   + +VG  +
Sbjct: 425 TYEKNLDKYLDQDVEFILTEYQPKKRRIIGNRKQIIVARKAEAAKE-LFD--RIEVGMTV 481

Query: 143 SGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGP 196
            G VK V      +DLG +DG++   E         +  L+ GD+VK++I ++     G 
Sbjct: 482 EGVVKNVTSFGAFIDLGGADGLLHISEMSWGRVEDPKSVLKVGDKVKAFIKNID----GE 537

Query: 197 QVLLS 201
           ++ LS
Sbjct: 538 KIALS 542


>gi|313205786|ref|YP_004044963.1| SSU ribosomal protein s1p [Riemerella anatipestifer DSM 15868]
 gi|312445102|gb|ADQ81457.1| SSU ribosomal protein S1P [Riemerella anatipestifer DSM 15868]
 gi|315022816|gb|EFT35840.1| 30S ribosomal protein S1 [Riemerella anatipestifer RA-YM]
          Length = 593

 Score = 41.2 bits (96), Expect = 0.38,   Method: Composition-based stats.
 Identities = 31/134 (23%), Positives = 53/134 (39%), Gaps = 10/134 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +K  +D D  +             +F  V V   K +I   + + +++  
Sbjct: 160 EAFLPGSQIDVKPIKDYDQYVGKTMEFKVVKINPEFKNVVVSH-KALIEADIEDQKKEII 218

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
                +K G+++ GTVK +    V +DLG  DG++   +          E L  G  VK 
Sbjct: 219 AQ--LEK-GQVLEGTVKNITSYGVFIDLGGVDGLVHITDLSWSRVNHPTEILEDGQTVKV 275

Query: 185 YIYDVRREQRGPQV 198
            I D   ++   Q+
Sbjct: 276 VILDFDEDKTRIQL 289



 Score = 38.9 bits (90), Expect = 2.2,   Method: Composition-based stats.
 Identities = 21/107 (19%), Positives = 45/107 (42%), Gaps = 6/107 (5%)

Query: 60  ISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII 119
           + L     +V+        ISL   R  +P++ +G  V   +   +     +    Q+  
Sbjct: 64  VRLTDKEAIVDIDFKSEGVISLNEFR-YNPNLKVGDEVEVMVDRREDKTGQL----QLSH 118

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIR 166
           +K R  +   +  ++ +  GE+++G VK    G +IVD+   +  + 
Sbjct: 119 KKARTLKAWDKVNQYHE-SGEVVNGFVKSRTKGGMIVDVFGIEAFLP 164


>gi|242069171|ref|XP_002449862.1| hypothetical protein SORBIDRAFT_05g024565 [Sorghum bicolor]
 gi|241935705|gb|EES08850.1| hypothetical protein SORBIDRAFT_05g024565 [Sorghum bicolor]
          Length = 340

 Score = 41.2 bits (96), Expect = 0.38,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 21/53 (39%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           +QA  +  +    L   G   VE +A     ++  I+G  E    +I   A +
Sbjct: 26  LQASGIAALDVKKLKDSGLHTVEAVAYTPRKDLVQIKGISEAKVDKIIEAASK 78


>gi|296434521|sp|Q8TDG4|HELQ_HUMAN RecName: Full=Helicase POLQ-like; AltName: Full=Mus308-like helicase;
            AltName: Full=POLQ-like helicase
          Length = 1101

 Score = 41.2 bits (96), Expect = 0.38,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 29/71 (40%), Gaps = 1/71 (1%)

Query: 362  FMQAINVDEIIAHLLVAEGFADVEELACVKISEIA-SIEGFDEETAVEIQGRAREYLEGI 420
             M+   V E  A  L + G+  +  LA      +  +I+      A +I   A+  L   
Sbjct: 1013 LMEVTGVLEGRAKQLYSAGYKSLMHLANANPEVLVRTIDHLSRRQAKQIVSSAKMLLHEK 1072

Query: 421  DITLQKKIREL 431
               LQ+++ EL
Sbjct: 1073 AEALQEEVEEL 1083


>gi|228475082|ref|ZP_04059810.1| polyribonucleotide nucleotidyltransferase [Staphylococcus hominis
           SK119]
 gi|228271067|gb|EEK12455.1| polyribonucleotide nucleotidyltransferase [Staphylococcus hominis
           SK119]
          Length = 698

 Score = 41.2 bits (96), Expect = 0.38,   Method: Composition-based stats.
 Identities = 31/178 (17%), Positives = 66/178 (37%), Gaps = 22/178 (12%)

Query: 29  SVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD-R 87
            V+ +++++A +     M  +   I+    ++S +               I  +  RD  
Sbjct: 521 EVIEEALEQARQGRLAIMDHMLQTIDQPRSELSAYAPKV-------EIMHIKPEKIRDVI 573

Query: 88  DPSI----DIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIIS 143
            P      +I       L     G + + +  Q +I + RE   +        +VG++  
Sbjct: 574 GPGGKKINEIIDETGVKLDIEQDGTIFIGAVDQEMINRAREIINEITRE---AEVGQVYH 630

Query: 144 GTVKRVEYGNVIVDLGNSDGVIRRDETISREN-------LRPGDRVKSYIYDVRREQR 194
             VKR+E     V+L      +     IS++        L+ GD ++  I ++ ++ R
Sbjct: 631 AKVKRIEKYGAFVELFPGKDALLHISQISKDRINKVEDVLKIGDTIEVKITEIDKQGR 688


>gi|222100022|ref|YP_002534590.1| RNA binding S1 domain protein [Thermotoga neapolitana DSM 4359]
 gi|221572412|gb|ACM23224.1| RNA binding S1 domain protein [Thermotoga neapolitana DSM 4359]
          Length = 539

 Score = 41.2 bits (96), Expect = 0.38,   Method: Composition-based stats.
 Identities = 24/116 (20%), Positives = 49/116 (42%), Gaps = 8/116 (6%)

Query: 89  PSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG-TVK 147
               IG  ++  +  +++   +  S K+ I +K  E  R   Y E     G+ +    V 
Sbjct: 56  DDYKIGEELTLQILNLNYEERSTLSEKRPIFRKTMEELRK-LYEE-----GKPVKARIVS 109

Query: 148 RVEYGNVIVDLGNSDGVIRRDE-TISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
           + + G  +V  G     +      + RE   P + ++  I D+   +RG ++++SR
Sbjct: 110 QAKGGYNVVLKGVVPAFLPGSHSLLKREEPFPREEIEVLILDMAHTRRGTRIVVSR 165


>gi|195978853|ref|YP_002124097.1| polynucleotide phosphorylase/polyadenylase [Streptococcus equi
           subsp. zooepidemicus MGCS10565]
 gi|226702690|sp|B4U573|PNP_STREM RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|195975558|gb|ACG63084.1| polyribonucleotide nucleotidyltransferase PnpA [Streptococcus equi
           subsp. zooepidemicus MGCS10565]
          Length = 714

 Score = 41.2 bits (96), Expect = 0.38,   Method: Composition-based stats.
 Identities = 32/185 (17%), Positives = 66/185 (35%), Gaps = 36/185 (19%)

Query: 29  SVMADSIQKAARSLYGTMSDIRVEINP------------ETGDISLFRLLEVVEEVENYT 76
            ++ +++ +A ++ +  +  I   I              +T  I + ++  V+ +     
Sbjct: 520 QILEEALAQAKKARFEILDLIEATIAEPRPELAPTAPKIDTIKIDVDKIKVVIGKGGETI 579

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +I  +     D   +        +      + A+  AK++I   VREA           
Sbjct: 580 DKIIAETGVKIDIDEEGN------VSIYSSDQDAINRAKEIIASLVREA----------- 622

Query: 137 KVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDET------ISRENLRPGDRVKSYIYDV 189
           KVGE+    V R+E     V+L   +D ++   E          + L  G+ V   +  V
Sbjct: 623 KVGEVYHAKVVRIEKFGAFVNLFDKTDALVHISEIAWSRTANVSDVLEIGEEVDVKVIKV 682

Query: 190 RREQR 194
             + R
Sbjct: 683 DDKGR 687


>gi|53757751|gb|AAU92042.1| polyphosphate kinase [Methylococcus capsulatus str. Bath]
          Length = 785

 Score = 41.2 bits (96), Expect = 0.39,   Method: Composition-based stats.
 Identities = 14/90 (15%), Positives = 31/90 (34%)

Query: 346 EDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEET 405
           E     + +         +   + +    +L   G   VEELA   +  +  I G   + 
Sbjct: 2   ETVEGNRTEKEGGRLVISKVKGISKSTRIMLAEHGIFSVEELADADVGRLTKIPGLSRQK 61

Query: 406 AVEIQGRAREYLEGIDITLQKKIRELGVSE 435
           A+ +   A+  +  ++    +     G +E
Sbjct: 62  ALRMVRAAKFMVGDMEKGRDEVSAGTGSAE 91


>gi|332819388|ref|XP_003310356.1| PREDICTED: LOW QUALITY PROTEIN: helicase POLQ-like [Pan troglodytes]
          Length = 1101

 Score = 41.2 bits (96), Expect = 0.39,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 29/71 (40%), Gaps = 1/71 (1%)

Query: 362  FMQAINVDEIIAHLLVAEGFADVEELACVKISEIA-SIEGFDEETAVEIQGRAREYLEGI 420
             M+   V E  A  L + G+  +  LA      +  +I+      A +I   A+  L   
Sbjct: 1013 LMEVTGVLEGRAKQLYSAGYKSLMHLANANPEVLVRTIDHLSRRQAKQIVSSAKMLLHEK 1072

Query: 421  DITLQKKIREL 431
               LQ+++ EL
Sbjct: 1073 AEALQEEVEEL 1083


>gi|119626340|gb|EAX05935.1| DNA helicase HEL308, isoform CRA_b [Homo sapiens]
          Length = 1144

 Score = 41.2 bits (96), Expect = 0.39,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 29/71 (40%), Gaps = 1/71 (1%)

Query: 362  FMQAINVDEIIAHLLVAEGFADVEELACVKISEIA-SIEGFDEETAVEIQGRAREYLEGI 420
             M+   V E  A  L + G+  +  LA      +  +I+      A +I   A+  L   
Sbjct: 1056 LMEVTGVLEGRAKQLYSAGYKSLMHLANANPEVLVRTIDHLSRRQAKQIVSSAKMLLHEK 1115

Query: 421  DITLQKKIREL 431
               LQ+++ EL
Sbjct: 1116 AEALQEEVEEL 1126


>gi|226355432|ref|YP_002785172.1| 30S ribosomal protein S1 [Deinococcus deserti VCD115]
 gi|226317422|gb|ACO45418.1| putative ribosomal protein S1 [Deinococcus deserti VCD115]
          Length = 576

 Score = 41.2 bits (96), Expect = 0.39,   Method: Composition-based stats.
 Identities = 20/87 (22%), Positives = 37/87 (42%), Gaps = 15/87 (17%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRD---------ETISRENLRPGDRVKSYIYD 188
           G+I+ GT+  +    + VD+G   +GVI  +         E    E  + GD +++Y+  
Sbjct: 61  GDIVDGTIVFIGQDGIAVDIGAKVEGVIPLNQIGDEPVTLEQAQ-EMYKAGDTIEAYVVR 119

Query: 189 VRREQRGPQVLLS--RTHPQFMVKLFH 213
           V       Q++LS  R       ++  
Sbjct: 120 VDLPNS--QIVLSKKRADQDKGWRVLE 144


>gi|314936565|ref|ZP_07843912.1| polyribonucleotide nucleotidyltransferase [Staphylococcus hominis
           subsp. hominis C80]
 gi|313655184|gb|EFS18929.1| polyribonucleotide nucleotidyltransferase [Staphylococcus hominis
           subsp. hominis C80]
          Length = 698

 Score = 41.2 bits (96), Expect = 0.40,   Method: Composition-based stats.
 Identities = 31/178 (17%), Positives = 66/178 (37%), Gaps = 22/178 (12%)

Query: 29  SVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD-R 87
            V+ +++++A +     M  +   I+    ++S +               I  +  RD  
Sbjct: 521 EVIEEALEQARQGRLAIMDHMLQTIDQPRSELSAYAPKV-------EIMHIKPEKIRDVI 573

Query: 88  DPSI----DIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIIS 143
            P      +I       L     G + + +  Q +I + RE   +        +VG++  
Sbjct: 574 GPGGKKINEIIDETGVKLDIEQDGTIFIGAVDQEMINRAREIINEITRE---AEVGQVYH 630

Query: 144 GTVKRVEYGNVIVDLGNSDGVIRRDETISREN-------LRPGDRVKSYIYDVRREQR 194
             VKR+E     V+L      +     IS++        L+ GD ++  I ++ ++ R
Sbjct: 631 AKVKRIEKYGAFVELFPGKDALLHISQISKDRINKVEDVLKIGDTIEVKITEIDKQGR 688


>gi|251778389|ref|ZP_04821309.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Clostridium
           botulinum E1 str. 'BoNT E Beluga']
 gi|243082704|gb|EES48594.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Clostridium
           botulinum E1 str. 'BoNT E Beluga']
          Length = 635

 Score = 41.2 bits (96), Expect = 0.40,   Method: Composition-based stats.
 Identities = 33/165 (20%), Positives = 72/165 (43%), Gaps = 15/165 (9%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              QI +K  +D+   I+    V   +         V ++++V+++ ++E E ++ +   
Sbjct: 418 PASQIDVKFTKDKSKYINQVLEVKL-IDYSTEEHKKVIASRRVLLEVIKETEEEKIWESL 476

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISR------ENLRPGDRVKSYIYD 188
              +G++I   VKR       +D+   DG++   +          + L+ G+ ++  I  
Sbjct: 477 N--IGDVIKAEVKRFTKFGAFLDVNGIDGLLHLSQISWNHVKNIEDILKKGEMIEVKIIA 534

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIY-NGIVQVKAVSRD 232
           + +E +  ++ LSR   + + K +   V E Y  G V +  V R 
Sbjct: 535 LDKENK--KLSLSRK--ELLPKPWEN-VKEKYPEGSVVLGKVVRI 574


>gi|110556640|ref|NP_598375.2| helicase POLQ-like [Homo sapiens]
 gi|119626339|gb|EAX05934.1| DNA helicase HEL308, isoform CRA_a [Homo sapiens]
 gi|146327581|gb|AAI41525.1| Helicase, POLQ-like [synthetic construct]
          Length = 1101

 Score = 41.2 bits (96), Expect = 0.40,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 29/71 (40%), Gaps = 1/71 (1%)

Query: 362  FMQAINVDEIIAHLLVAEGFADVEELACVKISEIA-SIEGFDEETAVEIQGRAREYLEGI 420
             M+   V E  A  L + G+  +  LA      +  +I+      A +I   A+  L   
Sbjct: 1013 LMEVTGVLEGRAKQLYSAGYKSLMHLANANPEVLVRTIDHLSRRQAKQIVSSAKMLLHEK 1072

Query: 421  DITLQKKIREL 431
               LQ+++ EL
Sbjct: 1073 AEALQEEVEEL 1083


>gi|19110782|gb|AAL85274.1|AF436845_1 DNA helicase HEL308 [Homo sapiens]
          Length = 1101

 Score = 41.2 bits (96), Expect = 0.40,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 29/71 (40%), Gaps = 1/71 (1%)

Query: 362  FMQAINVDEIIAHLLVAEGFADVEELACVKISEIA-SIEGFDEETAVEIQGRAREYLEGI 420
             M+   V E  A  L + G+  +  LA      +  +I+      A +I   A+  L   
Sbjct: 1013 LMEVTGVLEGRAKQLYSAGYKSLMHLANANPEVLVRTIDHLSRRQAKQIVSSAKMLLHEK 1072

Query: 421  DITLQKKIREL 431
               LQ+++ EL
Sbjct: 1073 AEALQEEVEEL 1083


>gi|86605910|ref|YP_474673.1| ribosomal protein S1 [Synechococcus sp. JA-3-3Ab]
 gi|86554452|gb|ABC99410.1| putative ribosomal protein S1 [Synechococcus sp. JA-3-3Ab]
          Length = 304

 Score = 41.2 bits (96), Expect = 0.40,   Method: Composition-based stats.
 Identities = 21/83 (25%), Positives = 35/83 (42%), Gaps = 6/83 (7%)

Query: 123 REAERDRQYLEFKDKV--GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR--P 178
           R     R + E  +K   G+ ++  V     G V+VD+    G I R     RENL    
Sbjct: 101 RRLRLKRLWEELAEKQTNGQTVTALVIGTNKGGVLVDVQGLRGFIPRSHLNQRENLEELV 160

Query: 179 GDRVKSYIYDVRREQRGPQVLLS 201
           G  + + + +V       +++LS
Sbjct: 161 GQSLTASLLEVNPAAN--KLVLS 181


>gi|242373566|ref|ZP_04819140.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus
           epidermidis M23864:W1]
 gi|242348929|gb|EES40531.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus
           epidermidis M23864:W1]
          Length = 699

 Score = 41.2 bits (96), Expect = 0.40,   Method: Composition-based stats.
 Identities = 32/178 (17%), Positives = 66/178 (37%), Gaps = 22/178 (12%)

Query: 29  SVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARD-R 87
            V+ +++++A +     M  +   I+    ++S +    V       T  I     RD  
Sbjct: 521 EVIEEALEQARQGRLAIMDHMLQTIDAPRKELSAYAPKVV-------TMHIKPDKIRDVI 573

Query: 88  DPSI----DIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIIS 143
            P      +I       L     G + + +  Q +I + +E   +        +VG++  
Sbjct: 574 GPGGKKINEIIDETGVKLDIEQDGTIFIGAVDQEMIDRAKEIIEEITRE---AEVGQVYH 630

Query: 144 GTVKRVEYGNVIVDLGNSDGVIRRDETISREN-------LRPGDRVKSYIYDVRREQR 194
             VKR+E     V+L      +     IS++        L  GD ++  I ++ ++ R
Sbjct: 631 AKVKRIEKYGAFVELFPGKDALLHISQISKDRINKVEDVLNIGDTIEVKITEIDKQGR 688


>gi|227875377|ref|ZP_03993518.1| 30S ribosomal protein S1 [Mobiluncus mulieris ATCC 35243]
 gi|269977367|ref|ZP_06184340.1| 30S ribosomal protein S1 [Mobiluncus mulieris 28-1]
 gi|306818692|ref|ZP_07452414.1| 30S ribosomal protein S1 [Mobiluncus mulieris ATCC 35239]
 gi|307700853|ref|ZP_07637878.1| 30S ribosomal protein S1 [Mobiluncus mulieris FB024-16]
 gi|227843931|gb|EEJ54099.1| 30S ribosomal protein S1 [Mobiluncus mulieris ATCC 35243]
 gi|269934670|gb|EEZ91231.1| 30S ribosomal protein S1 [Mobiluncus mulieris 28-1]
 gi|304648378|gb|EFM45681.1| 30S ribosomal protein S1 [Mobiluncus mulieris ATCC 35239]
 gi|307613848|gb|EFN93092.1| 30S ribosomal protein S1 [Mobiluncus mulieris FB024-16]
          Length = 489

 Score = 41.2 bits (96), Expect = 0.40,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 41/70 (58%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G++++GTV +V+   V++D+G  ++GVI   E          E ++ GD +++ +   ++
Sbjct: 37  GDLVTGTVVKVDRDEVLLDIGYKTEGVILSRELSIKHDVDPDEEVKVGDEIEALVL--QK 94

Query: 192 EQRGPQVLLS 201
           E +  ++LLS
Sbjct: 95  EDKEGRLLLS 104


>gi|225871265|ref|YP_002747212.1| polyribonucleotide nucleotidyltransferase [Streptococcus equi
           subsp. equi 4047]
 gi|254782736|sp|C0M913|PNP_STRE4 RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|225700669|emb|CAW95251.1| polyribonucleotide nucleotidyltransferase [Streptococcus equi
           subsp. equi 4047]
          Length = 714

 Score = 41.2 bits (96), Expect = 0.40,   Method: Composition-based stats.
 Identities = 32/185 (17%), Positives = 66/185 (35%), Gaps = 36/185 (19%)

Query: 29  SVMADSIQKAARSLYGTMSDIRVEINP------------ETGDISLFRLLEVVEEVENYT 76
            ++ +++ +A ++ +  +  I   I              +T  I + ++  V+ +     
Sbjct: 520 QILEEALAQAKKARFEILDLIEATIAEPRPELAPTAPKIDTIKIDVDKIKVVIGKGGETI 579

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +I  +     D   +        +      + A+  AK++I   VREA           
Sbjct: 580 DKIIAETGVKIDIDEEGN------VSIYSSDQDAINRAKEIIASLVREA----------- 622

Query: 137 KVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDET------ISRENLRPGDRVKSYIYDV 189
           KVGE+    V R+E     V+L   +D ++   E          + L  G+ V   +  V
Sbjct: 623 KVGEVYHAKVVRIEKFGAFVNLFDKTDALVHISEIAWSRTTNVSDVLEIGEEVDVKVIKV 682

Query: 190 RREQR 194
             + R
Sbjct: 683 DDKGR 687


>gi|198420224|ref|XP_002126934.1| PREDICTED: similar to RAD51 homolog isoform 1 [Ciona intestinalis]
          Length = 338

 Score = 41.2 bits (96), Expect = 0.40,   Method: Composition-based stats.
 Identities = 12/51 (23%), Positives = 20/51 (39%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           ++   +       L   G+  VE LA     E+  ++G  E  A +I   A
Sbjct: 27  LEQSGISAGDIKKLKEHGYHTVEALAYAPKKELIGVKGISEAKADKIIIEA 77


>gi|109074228|ref|XP_001104832.1| PREDICTED: helicase, POLQ-like [Macaca mulatta]
          Length = 1101

 Score = 41.2 bits (96), Expect = 0.41,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 28/71 (39%), Gaps = 1/71 (1%)

Query: 362  FMQAINVDEIIAHLLVAEGFADVEELACVKISEIAS-IEGFDEETAVEIQGRAREYLEGI 420
             M+   V E  A  L + G+  +  LA      +   I+      A +I   A+  L   
Sbjct: 1013 LMEVTGVLEGRARQLYSAGYKSLMHLANANPEVLIKTIDHLSRRQAKQIIASAKMLLHEK 1072

Query: 421  DITLQKKIREL 431
               LQ+++ EL
Sbjct: 1073 AEALQEEVEEL 1083


>gi|225867825|ref|YP_002743773.1| polyribonucleotide nucleotidyltransferase [Streptococcus equi
           subsp. zooepidemicus]
 gi|259534159|sp|C0MFB1|PNP_STRS7 RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|225701101|emb|CAW97943.1| polyribonucleotide nucleotidyltransferase [Streptococcus equi
           subsp. zooepidemicus]
          Length = 714

 Score = 41.2 bits (96), Expect = 0.41,   Method: Composition-based stats.
 Identities = 32/185 (17%), Positives = 66/185 (35%), Gaps = 36/185 (19%)

Query: 29  SVMADSIQKAARSLYGTMSDIRVEINP------------ETGDISLFRLLEVVEEVENYT 76
            ++ +++ +A ++ +  +  I   I              +T  I + ++  V+ +     
Sbjct: 520 QILEEALAQAKKARFEILDLIEATIAEPRPELAPTAPKIDTIKIDVDKIKVVIGKGGETI 579

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +I  +     D   +        +      + A+  AK++I   VREA           
Sbjct: 580 DKIIAETGVKIDIDEEGN------VSIYSSDQDAINRAKEIIASLVREA----------- 622

Query: 137 KVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDET------ISRENLRPGDRVKSYIYDV 189
           KVGE+    V R+E     V+L   +D ++   E          + L  G+ V   +  V
Sbjct: 623 KVGEVYHAKVVRIEKFGAFVNLFDKTDALVHISEIAWSRTANVSDVLEIGEEVDVKVIKV 682

Query: 190 RREQR 194
             + R
Sbjct: 683 DDKGR 687


>gi|294656166|ref|XP_458414.2| DEHA2C16698p [Debaryomyces hansenii CBS767]
 gi|199430910|emb|CAG86496.2| DEHA2C16698p [Debaryomyces hansenii]
          Length = 350

 Score = 41.2 bits (96), Expect = 0.41,   Method: Composition-based stats.
 Identities = 13/76 (17%), Positives = 29/76 (38%), Gaps = 4/76 (5%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAI---NVDEIIAHLLVAEGFADVEELACVKISEIASIE 399
           T E ++    ++        ++ +    +       L AEG+  +E +A      +  ++
Sbjct: 10  TNEHEASMGDEEDGLSGPLLIEQLEGNGITSGDIRKLKAEGYHTIESIAYTPKKALLLVK 69

Query: 400 GFDEETAVEI-QGRAR 414
           G  E  A +I    A+
Sbjct: 70  GISEAKADKISLEAAK 85


>gi|22298400|ref|NP_681647.1| NAD-dependent DNA ligase LigA [Thermosynechococcus elongatus BP-1]
 gi|81743454|sp|Q8DKK2|DNLJ_THEEB RecName: Full=DNA ligase; AltName: Full=Polydeoxyribonucleotide
           synthase [NAD+]
 gi|22294579|dbj|BAC08409.1| DNA ligase [Thermosynechococcus elongatus BP-1]
          Length = 689

 Score = 41.2 bits (96), Expect = 0.41,   Method: Composition-based stats.
 Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 1/44 (2%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           V  + A LL    F  VEELA   ++++  ++G  EE A  +Q 
Sbjct: 537 VGSVNAQLLADR-FKSVEELATATVADLCGVDGIGEEIAQAVQE 579


>gi|11994719|dbj|BAB03035.1| RNA polymerase II fifth largest subunit-like protein [Arabidopsis
           thaliana]
          Length = 157

 Score = 41.2 bits (96), Expect = 0.41,   Method: Composition-based stats.
 Identities = 25/117 (21%), Positives = 42/117 (35%), Gaps = 23/117 (19%)

Query: 95  GVVSDPLPPMDFGRVAVQSAKQVI-IQKVREAERDRQYLE------FKDKVGEIISGTVK 147
              S      D G +   +  + I   K++E   + Q+        FK   GEI+ G V 
Sbjct: 17  EAFSKEKATKDLGYLITPTILENIGEGKIKEQTGEIQFPVVFNGICFKMFKGEIVHGVVH 76

Query: 148 RVEYGNVIVDLGNSDGV------IRRDETISREN----------LRPGDRVKSYIYD 188
           +V    V +  G  + +      +   E I  EN          ++ G RV+  + D
Sbjct: 77  KVHKTGVFLKSGPYEIIYLSHMKMPGYEFIPGENPFFMNQYMSRIQIGARVRFVVLD 133


>gi|310779520|ref|YP_003967853.1| RNA binding S1 domain protein [Ilyobacter polytropus DSM 2926]
 gi|309748843|gb|ADO83505.1| RNA binding S1 domain protein [Ilyobacter polytropus DSM 2926]
          Length = 536

 Score = 41.2 bits (96), Expect = 0.41,   Method: Composition-based stats.
 Identities = 20/120 (16%), Positives = 47/120 (39%), Gaps = 10/120 (8%)

Query: 86  DRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGT 145
           +     + G  V   L         +  +++ I     E   ++    F++K  +I+ G 
Sbjct: 57  EELEGYEEGDEVEILLMGETKDGDFLIGSRRKID---MEENWEKLVKAFENK--DIVKGK 111

Query: 146 VKRVEYGNVIVDLGNSDGVIRRD-ETIS---RENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           + +   G  +V++      +      I     +    G  ++  I DV+ ++RG ++L+S
Sbjct: 112 IAKRVKGGYVVNILFQQAFLPNSLSEIPMKDGDKF-VGSDIEVMIKDVKEDRRGKKILVS 170


>gi|300864909|ref|ZP_07109753.1| hypothetical protein OSCI_1150003 [Oscillatoria sp. PCC 6506]
 gi|300337080|emb|CBN54903.1| hypothetical protein OSCI_1150003 [Oscillatoria sp. PCC 6506]
          Length = 374

 Score = 41.2 bits (96), Expect = 0.41,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 28/57 (49%), Gaps = 6/57 (10%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRD--ETISREN----LRPGDRVKSYIY 187
           +VG+I+ GTV+ ++   + VD+G    ++       +  E      + GD +++ I 
Sbjct: 266 RVGQIVDGTVRGIKTYGLFVDIGGYHALLHISAISQMPVEQLDRIFKHGDWIRAMIV 322


>gi|218294782|ref|ZP_03495636.1| DNA-directed RNA polymerase, alpha subunit [Thermus aquaticus
           Y51MC23]
 gi|218244690|gb|EED11214.1| DNA-directed RNA polymerase, alpha subunit [Thermus aquaticus
           Y51MC23]
          Length = 314

 Score = 41.2 bits (96), Expect = 0.41,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 33/80 (41%), Gaps = 1/80 (1%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
           T E     +++   E     ++ + +   + H L  EG   V  L  + + ++ +I G  
Sbjct: 235 TPEVSKGEKRESAEEDLDLPLEELGLSTRVLHSLKEEGIESVRALLALNLKDLRNIPGIG 294

Query: 403 EETAVEI-QGRAREYLEGID 421
           E +  EI Q  A++     +
Sbjct: 295 ERSLEEIRQALAKKGFTLKE 314


>gi|12230594|sp|Q9KWU8|RPOA_THEAQ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP
           subunit alpha; AltName: Full=RNA polymerase subunit
           alpha; AltName: Full=Transcriptase subunit alpha
 gi|21466003|pdb|1L9U|A Chain A, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
           Resolution
 gi|21466004|pdb|1L9U|B Chain B, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
           Resolution
 gi|21466009|pdb|1L9U|J Chain J, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
           Resolution
 gi|21466010|pdb|1L9U|K Chain K, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
           Resolution
 gi|21466016|pdb|1L9Z|A Chain A, Thermus Aquaticus Rna Polymerase HoloenzymeFORK-Junction
           Promoter Dna Complex At 6.5 A Resolution
 gi|21466017|pdb|1L9Z|B Chain B, Thermus Aquaticus Rna Polymerase HoloenzymeFORK-Junction
           Promoter Dna Complex At 6.5 A Resolution
 gi|62738680|pdb|1YNJ|A Chain A, Taq Rna Polymerase-Sorangicin Complex
 gi|62738681|pdb|1YNJ|B Chain B, Taq Rna Polymerase-Sorangicin Complex
 gi|62738686|pdb|1YNN|A Chain A, Taq Rna Polymerase-Rifampicin Complex
 gi|62738687|pdb|1YNN|B Chain B, Taq Rna Polymerase-Rifampicin Complex
 gi|109157854|pdb|2GHO|A Chain A, Recombinant Thermus Aquaticus Rna Polymerase For
           Structural Studies
 gi|109157855|pdb|2GHO|B Chain B, Recombinant Thermus Aquaticus Rna Polymerase For
           Structural Studies
 gi|7573271|emb|CAB65464.2| RNA polymerase, alpha subunit [Thermus aquaticus]
          Length = 314

 Score = 41.2 bits (96), Expect = 0.41,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 33/80 (41%), Gaps = 1/80 (1%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
           T E     +++   E     ++ + +   + H L  EG   V  L  + + ++ +I G  
Sbjct: 235 TPEVSKGEKRESAEEDLDLPLEELGLSTRVLHSLKEEGIESVRALLALNLKDLRNIPGIG 294

Query: 403 EETAVEI-QGRAREYLEGID 421
           E +  EI Q  A++     +
Sbjct: 295 ERSLEEIRQALAKKGFTLKE 314


>gi|1526547|dbj|BAA13425.1| DNA polymerase family X [Thermus aquaticus]
          Length = 320

 Score = 41.2 bits (96), Expect = 0.42,   Method: Composition-based stats.
 Identities = 18/84 (21%), Positives = 34/84 (40%), Gaps = 7/84 (8%)

Query: 384 VEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSE--ELCSIP 441
           +EE+A      +  + G   + A +I     E+L    +   +++         E+  +P
Sbjct: 44  IEEIAKKGKEALLELPGIGPDLADKIL----EFLATGRVKKDEELSGKVPRGVLEVMEVP 99

Query: 442 GIDSKIKVALGEN-GIKTMEDLAG 464
           G+  K    L E  GI ++E L  
Sbjct: 100 GVGPKTARGLYEALGIDSLEKLKE 123


>gi|13096176|pdb|1HQM|A Chain A, Crystal Structure Of Thermus Aquaticus Core Rna
           Polymerase- Includes Complete Structure With Side-Chains
           (Except For Disordered Regions)-Further Refined From
           Original Deposition-Contains Additional Sequence
           Information
 gi|13096177|pdb|1HQM|B Chain B, Crystal Structure Of Thermus Aquaticus Core Rna
           Polymerase- Includes Complete Structure With Side-Chains
           (Except For Disordered Regions)-Further Refined From
           Original Deposition-Contains Additional Sequence
           Information
          Length = 313

 Score = 41.2 bits (96), Expect = 0.42,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 33/80 (41%), Gaps = 1/80 (1%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
           T E     +++   E     ++ + +   + H L  EG   V  L  + + ++ +I G  
Sbjct: 234 TPEVSKGEKRESAEEDLDLPLEELGLSTRVLHSLKEEGIESVRALLALNLKDLRNIPGIG 293

Query: 403 EETAVEI-QGRAREYLEGID 421
           E +  EI Q  A++     +
Sbjct: 294 ERSLEEIRQALAKKGFTLKE 313


>gi|321466793|gb|EFX77786.1| hypothetical protein DAPPUDRAFT_320958 [Daphnia pulex]
          Length = 968

 Score = 41.2 bits (96), Expect = 0.42,   Method: Composition-based stats.
 Identities = 13/80 (16%), Positives = 36/80 (45%), Gaps = 7/80 (8%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIAS-IEGFDEETAVEIQGRAREYLEGI 420
            M+  +V +  A +L   GF  + ++A     E+ S ++   + +A+++   A+  +   
Sbjct: 869 LMELPSVGKGRARMLFKAGFRTLTDVAKTNPEELVSRVDHLPKRSALQMIAAAKVLVYEK 928

Query: 421 DITLQKKIRELGVSEELCSI 440
              L+++      ++ L  +
Sbjct: 929 ADALREE------ADSLLEL 942


>gi|319956399|ref|YP_004167662.1| DNA ligase, nad-dependent [Nitratifractor salsuginis DSM 16511]
 gi|319418803|gb|ADV45913.1| DNA ligase, NAD-dependent [Nitratifractor salsuginis DSM 16511]
          Length = 657

 Score = 41.2 bits (96), Expect = 0.42,   Method: Composition-based stats.
 Identities = 26/113 (23%), Positives = 44/113 (38%), Gaps = 23/113 (20%)

Query: 363 MQAINVDEIIAHLLVAEGF-ADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI- 420
           M    + E I   L   G   DVE+L  +K  ++  +EGF E+ A ++   A E  +G  
Sbjct: 438 MNIDGLGEKIVQQLYDAGLVKDVEDLYHLKKEDLLKLEGFGEKKAEKLLE-AIEASKGRE 496

Query: 421 --------------DITLQKKIRELGVS------EELCSIPGIDSKIKVALGE 453
                         ++  +K   + G+       E L SI G   ++  +  E
Sbjct: 497 CWRFVNALGIEHIGEVASKKICEKFGLDFIHADKEALLSIEGFGEEMANSFLE 549


>gi|315658436|ref|ZP_07911308.1| polyribonucleotide nucleotidyltransferase [Staphylococcus
           lugdunensis M23590]
 gi|315496765|gb|EFU85088.1| polyribonucleotide nucleotidyltransferase [Staphylococcus
           lugdunensis M23590]
          Length = 698

 Score = 41.2 bits (96), Expect = 0.42,   Method: Composition-based stats.
 Identities = 28/174 (16%), Positives = 68/174 (39%), Gaps = 14/174 (8%)

Query: 29  SVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL-EVVEEVENYTCQISLKVARDR 87
            V+ +++++A +     M  +   I+    ++S +    E++    +    +     +  
Sbjct: 521 EVIEEALEQARKGRLAIMDHMLQTIDHPRAELSAYAPKVEIMHINPDKIRDVIGPGGKKI 580

Query: 88  DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVK 147
           +   +I       L     G + + +  Q +I + +E            +VG+I    VK
Sbjct: 581 N---EIIDETGVKLDIEQDGTIYIGAVDQAMINRSKEIIEAITRE---AEVGQIYDAKVK 634

Query: 148 RVEYGNVIVDLGNSDGVIRRDETISREN-------LRPGDRVKSYIYDVRREQR 194
           R+E     V++ +    +     IS++        L+ GD +K  I ++ ++ R
Sbjct: 635 RIEKYGAFVEIFSGKDALLHISQISKDRINKVEDVLKIGDTIKVKITEIDKQGR 688


>gi|307565521|ref|ZP_07628002.1| 30S ribosomal protein S1 [Prevotella amnii CRIS 21A-A]
 gi|307345775|gb|EFN91131.1| 30S ribosomal protein S1 [Prevotella amnii CRIS 21A-A]
          Length = 593

 Score = 41.2 bits (96), Expect = 0.42,   Method: Composition-based stats.
 Identities = 23/76 (30%), Positives = 44/76 (57%), Gaps = 5/76 (6%)

Query: 129 RQYLEFKDK--VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSY 185
           + Y +  +K    +++ GTV  V+   V+V++G  SDG+I   E      L+ GD+V+ +
Sbjct: 33  KVYDDTLNKIQENQVVEGTVISVDKKEVVVNIGYKSDGIIPASEFRYNPELKAGDKVEVF 92

Query: 186 IYDVRREQRGPQVLLS 201
           +   + ++RG Q++LS
Sbjct: 93  VES-QEDKRG-QLVLS 106



 Score = 38.5 bits (89), Expect = 3.0,   Method: Composition-based stats.
 Identities = 30/130 (23%), Positives = 55/130 (42%), Gaps = 10/130 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +   RD D  + +G  +   +  ++     V  + + +I+   EA+R   
Sbjct: 149 EAFLPGSQIDVHPIRDYD--VFVGKTMEFKVVKINQEFRNVVVSHKALIEAELEAQRKEI 206

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
               +   G+I+ GTVK +    V +DLG  DG+I   +          E +   +++K 
Sbjct: 207 ISHLE--KGQILEGTVKNITTYGVFIDLGGVDGLIHITDLSWGRVSDPHEVVTLDEKIKV 264

Query: 185 YIYDVRREQR 194
            I D   E++
Sbjct: 265 VILDFDEEKK 274


>gi|261338679|ref|ZP_05966563.1| ribosomal protein S1 [Bifidobacterium gallicum DSM 20093]
 gi|270276304|gb|EFA22158.1| ribosomal protein S1 [Bifidobacterium gallicum DSM 20093]
          Length = 495

 Score = 41.2 bits (96), Expect = 0.42,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++ G V +V++  V++D+G  ++GVI   E          E +  GD +++ +  V +
Sbjct: 36  GDLVEGQVVKVDHDEVLLDIGYKTEGVIPSRELSIKKDVDPDEVVEVGDTIEALV--VTK 93

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 94  EDKEGRLILS 103


>gi|227879095|ref|ZP_03996984.1| 30S ribosomal protein S1 [Lactobacillus crispatus JV-V01]
 gi|256843084|ref|ZP_05548572.1| 30S ribosomal protein S1 [Lactobacillus crispatus 125-2-CHN]
 gi|256850264|ref|ZP_05555693.1| 30S ribosomal protein S1 [Lactobacillus crispatus MV-1A-US]
 gi|262046344|ref|ZP_06019306.1| 30S ribosomal protein S1 [Lactobacillus crispatus MV-3A-US]
 gi|293379767|ref|ZP_06625899.1| 30S ribosomal protein S1 [Lactobacillus crispatus 214-1]
 gi|295692880|ref|YP_003601490.1| 30S ribosomal protein s1 [Lactobacillus crispatus ST1]
 gi|227861336|gb|EEJ68966.1| 30S ribosomal protein S1 [Lactobacillus crispatus JV-V01]
 gi|256614504|gb|EEU19705.1| 30S ribosomal protein S1 [Lactobacillus crispatus 125-2-CHN]
 gi|256712901|gb|EEU27893.1| 30S ribosomal protein S1 [Lactobacillus crispatus MV-1A-US]
 gi|260573215|gb|EEX29773.1| 30S ribosomal protein S1 [Lactobacillus crispatus MV-3A-US]
 gi|290923676|gb|EFE00547.1| 30S ribosomal protein S1 [Lactobacillus crispatus 214-1]
 gi|295030986|emb|CBL50465.1| 30S Ribosomal protein S1 [Lactobacillus crispatus ST1]
          Length = 402

 Score = 41.2 bits (96), Expect = 0.43,   Method: Composition-based stats.
 Identities = 33/167 (19%), Positives = 64/167 (38%), Gaps = 35/167 (20%)

Query: 119 IQKVREAERDRQYLEFKDK--VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI----- 171
            + + E ER+  + +   +  VG+++ G V R+      +D+G  DG++   E       
Sbjct: 176 HKDLVEEEREEAFDKVASQLVVGDVVEGKVSRLTNFGAFIDVGGVDGLVHISEISYKHVD 235

Query: 172 -SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVK---------LFHMEV----- 216
              + L+ G  VK  +  +  ++    + + +T P    +         +F  EV     
Sbjct: 236 KPSDVLKVGQDVKVKVIGIDNDRHRISLSIKQTEPSPFEQATADLNEGDIFEGEVKSLTN 295

Query: 217 ----PEIYNGIVQVKAVSRD-------PGSRAKL--AVFSSDSSIDP 250
                E+ +GI  +  VS         P    K+  +V     +IDP
Sbjct: 296 FGAFVEVADGIQGLVHVSEISNKHVDKPSDVLKVGQSVKVKVLNIDP 342


>gi|289550934|ref|YP_003471838.1| Polyribonucleotide nucleotidyltransferase [Staphylococcus
           lugdunensis HKU09-01]
 gi|289180466|gb|ADC87711.1| Polyribonucleotide nucleotidyltransferase [Staphylococcus
           lugdunensis HKU09-01]
          Length = 698

 Score = 41.2 bits (96), Expect = 0.43,   Method: Composition-based stats.
 Identities = 28/174 (16%), Positives = 68/174 (39%), Gaps = 14/174 (8%)

Query: 29  SVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL-EVVEEVENYTCQISLKVARDR 87
            V+ +++++A +     M  +   I+    ++S +    E++    +    +     +  
Sbjct: 521 EVIEEALEQARKGRLAIMDHMLQTIDHPRAELSAYAPKVEIMHINPDKIRDVIGPGGKKI 580

Query: 88  DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVK 147
           +   +I       L     G + + +  Q +I + +E            +VG+I    VK
Sbjct: 581 N---EIIDETGVKLDIEQDGTIYIGAVDQAMINRSKEIIEAITRE---AEVGQIYDAKVK 634

Query: 148 RVEYGNVIVDLGNSDGVIRRDETISREN-------LRPGDRVKSYIYDVRREQR 194
           R+E     V++ +    +     IS++        L+ GD +K  I ++ ++ R
Sbjct: 635 RIEKYGAFVEIFSGKDALLHISQISKDRINKVEDVLKIGDTIKVKITEIDKQGR 688


>gi|282878652|ref|ZP_06287421.1| 30S ribosomal protein S1 [Prevotella buccalis ATCC 35310]
 gi|281299197|gb|EFA91597.1| 30S ribosomal protein S1 [Prevotella buccalis ATCC 35310]
          Length = 591

 Score = 41.2 bits (96), Expect = 0.43,   Method: Composition-based stats.
 Identities = 27/82 (32%), Positives = 43/82 (52%), Gaps = 5/82 (6%)

Query: 131 YLEFKDKVGE--IISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIY 187
           Y E  +KV E  +  GTV  ++   VIVD+G  SDG+I   E     +L+ GD+V+ Y+ 
Sbjct: 35  YDETLNKVSERQVTEGTVIALDKKEVIVDIGYKSDGIIPASEFRYNPDLKIGDKVEVYVE 94

Query: 188 DVRREQRGPQVLLSRTHPQFMV 209
              +E +  Q++LS    +   
Sbjct: 95  --NQEDKKGQLVLSHKKARLTK 114


>gi|219851924|ref|YP_002466356.1| DNA topoisomerase type IA central domain protein [Methanosphaerula
           palustris E1-9c]
 gi|219546183|gb|ACL16633.1| DNA topoisomerase type IA central domain protein [Methanosphaerula
           palustris E1-9c]
          Length = 938

 Score = 41.2 bits (96), Expect = 0.43,   Method: Composition-based stats.
 Identities = 36/190 (18%), Positives = 60/190 (31%), Gaps = 47/190 (24%)

Query: 328 VRLASQLTG-WTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEE 386
           VRL ++ +  W I                    +  +   ++ E I   L       V E
Sbjct: 647 VRLIAKGSRPWDI--------GCPLCHHIESNQETMVLIPSMTEEILGRLQQHHIYTVHE 698

Query: 387 LACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSI------ 440
           +A      +AS        A EI   A E+L+      +  +  L +  EL         
Sbjct: 699 VADAPPEALAS--------AAEISSTAAEHLKS---EGEAVLGLLRLRSELRKFVRKQVP 747

Query: 441 --PGIDSKIKVA-LGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQ 497
              G      +  L  NGI T+ DLA                  +     L + G  + +
Sbjct: 748 PRRGRSHAKIMKHLHANGINTIADLA------------------KADPTLLRTAGVGEKE 789

Query: 498 VESMIIHARY 507
           V S+++ A+ 
Sbjct: 790 VTSLLMQAKE 799


>gi|134095742|ref|YP_001100817.1| 30S ribosomal protein S1 [Herminiimonas arsenicoxydans]
 gi|133739645|emb|CAL62696.1| 30S ribosomal subunit protein S1 [Herminiimonas arsenicoxydans]
          Length = 559

 Score = 41.2 bits (96), Expect = 0.43,   Method: Composition-based stats.
 Identities = 23/69 (33%), Positives = 38/69 (55%), Gaps = 9/69 (13%)

Query: 138 VGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISREN-------LRPGDRVKSYIYDV 189
            G +++GTVK VE    ++ L    +G +R  E ISR+        L+ GD V++ + +V
Sbjct: 449 KGALVTGTVKSVEPKGAVIQLSEEVEGYLRASE-ISRDRVEDAGTHLKVGDTVEAMVINV 507

Query: 190 RREQRGPQV 198
            R+ RG Q+
Sbjct: 508 DRKARGIQL 516



 Score = 37.7 bits (87), Expect = 4.5,   Method: Composition-based stats.
 Identities = 23/107 (21%), Positives = 43/107 (40%), Gaps = 8/107 (7%)

Query: 94  GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN 153
           G  +   +  +D  R  V  +++ +I+     ER +     K   G +++G VK +    
Sbjct: 148 GKTLEFKVIKLDRKRNNVVLSRRAVIEASMGEERQKLMETLK--EGTVVTGIVKNITDYG 205

Query: 154 VIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
             VDLG  DG++       R      E L  G  + + +    +E+ 
Sbjct: 206 AFVDLGGIDGLLHITDLAWRRVRHPSEVLTVGQEITAKVLKYDQEKN 252


>gi|221102981|ref|XP_002169171.1| PREDICTED: similar to DNA repair protein RAD51 homolog A [Hydra
           magnipapillata]
          Length = 336

 Score = 41.2 bits (96), Expect = 0.43,   Method: Composition-based stats.
 Identities = 12/66 (18%), Positives = 21/66 (31%)

Query: 346 EDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEET 405
           +       D        ++   +       L   GF  VE LA      + +++G  E  
Sbjct: 8   QHEEEDTDDGGPILVSKLEQHGISASDIKKLSEAGFYTVESLAYTPKKTLLAVKGISEAK 67

Query: 406 AVEIQG 411
           A +I  
Sbjct: 68  ADKILS 73


>gi|217032275|ref|ZP_03437772.1| hypothetical protein HPB128_142g23 [Helicobacter pylori B128]
 gi|216946041|gb|EEC24654.1| hypothetical protein HPB128_142g23 [Helicobacter pylori B128]
          Length = 551

 Score = 41.2 bits (96), Expect = 0.43,   Method: Composition-based stats.
 Identities = 23/119 (19%), Positives = 42/119 (35%), Gaps = 15/119 (12%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           +  DP +          P + + +   Q   Q I  K+ E   +            II G
Sbjct: 73  QKNDPIVVHVSE-KGEHPSVSYKKAISQ---QKIQAKIEELGEN--------YENAIIEG 120

Query: 145 TVKRVEYGNVIVDLGNSDGVIRRDET-ISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            +     G  IV+    +  + R  + +  +    G R+K+ I  V +E     + +SR
Sbjct: 121 KIVGKNKGGYIVESQGVEYFLSRSHSSLKNDANHIGKRIKACIIRVDKENH--SINISR 177


>gi|217967761|ref|YP_002353267.1| RNA binding S1 domain protein [Dictyoglomus turgidum DSM 6724]
 gi|217336860|gb|ACK42653.1| RNA binding S1 domain protein [Dictyoglomus turgidum DSM 6724]
          Length = 552

 Score = 41.2 bits (96), Expect = 0.43,   Method: Composition-based stats.
 Identities = 33/162 (20%), Positives = 71/162 (43%), Gaps = 20/162 (12%)

Query: 84  ARDRD------PSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK 137
           A++ D      P   I   V   +  ++  +  +  + + I++K +E ER   + + K+ 
Sbjct: 134 AKEIDIPPINSPKYYINRRVEGKIKKINPEKKQLIISVREILEKKQEEERANLWEKIKN- 192

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
             +I+ G + +++   + VDLG    G + +DE         R     GD VK+ I  + 
Sbjct: 193 -SQIVRGKIIKIDDEKITVDLGLGITGEVEKDEISWFPIRNIRRYYSVGDIVKAKILSLN 251

Query: 191 REQRGPQVLLSRTHPQFMVKLFHMEVPE--IYNGIVQVKAVS 230
            + +  ++ + +T P     +F  + PE  I  G  ++  ++
Sbjct: 252 EDSKTAKLSIKQTQPNP-WSVFKEKYPEGSIVEG--EIIKIA 290



 Score = 37.0 bits (85), Expect = 7.2,   Method: Composition-based stats.
 Identities = 27/136 (19%), Positives = 55/136 (40%), Gaps = 17/136 (12%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPL-PPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
              +IS     +    + IG  V   +    +  +    S KQV          D     
Sbjct: 305 PVSEISWGRPSNIKNELKIGDKVRLKVLNIDEINKKIFLSMKQVEPN-----PWDVIDKN 359

Query: 134 FKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRD----ETISR--ENLRPGDRVKSYI 186
           +K  +G+I+SG +  +    + +++    +G+I +     E  +   E  + GD ++  I
Sbjct: 360 YK--IGDIVSGKITNITEFGIFIEIKPGLEGLIPKKFLSWERTNDLFEKFKIGDTLEVKI 417

Query: 187 YDVRREQRGPQVLLSR 202
            D+ +E +  ++ LSR
Sbjct: 418 IDLDKENK--KLTLSR 431


>gi|308162262|gb|EFO64669.1| Hypothetical protein GLP15_1509 [Giardia lamblia P15]
          Length = 195

 Score = 41.2 bits (96), Expect = 0.44,   Method: Composition-based stats.
 Identities = 22/104 (21%), Positives = 44/104 (42%), Gaps = 24/104 (23%)

Query: 330 LASQLTGWTIDIIT--EEEDSINRQKDFNERTQFFMQAINVD-------EIIAHLLVAEG 380
           LA++L+    ++    + E +    ++    +     ++N+        E + H+L+A G
Sbjct: 89  LAAKLS---FNVFPYWDHEQAAYAIQELQRFSHGSECSLNITSRTCQGPERVLHILLAAG 145

Query: 381 ------------FADVEELACVKISEIASIEGFDEETAVEIQGR 412
                       F  + ++    + EIAS+ GF EETA  +  R
Sbjct: 146 LSKPKIRSLCEHFKTLRDICTSSVKEIASLPGFSEETAATLLRR 189


>gi|115610811|ref|XP_788683.2| PREDICTED: similar to rad51 [Strongylocentrotus purpuratus]
 gi|115941481|ref|XP_001181485.1| PREDICTED: similar to rad51 [Strongylocentrotus purpuratus]
          Length = 335

 Score = 41.2 bits (96), Expect = 0.44,   Method: Composition-based stats.
 Identities = 13/69 (18%), Positives = 26/69 (37%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
                 ++F       ++A  +       L   G   VE +A     E+ +++G  E  A
Sbjct: 8   AEQEVSEEFGPLGISRLEASGISSNDVKKLEEAGMHTVESVAYSTKKELCAVKGISEAKA 67

Query: 407 VEIQGRARE 415
            +I   A++
Sbjct: 68  DKILTEAQK 76


>gi|14278481|pdb|1I6V|A Chain A, Thermus Aquaticus Core Rna Polymerase-Rifampicin Complex
 gi|14278482|pdb|1I6V|B Chain B, Thermus Aquaticus Core Rna Polymerase-Rifampicin Complex
          Length = 314

 Score = 41.2 bits (96), Expect = 0.44,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 33/80 (41%), Gaps = 1/80 (1%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
           T E     +++   E     ++ + +   + H L  EG   V  L  + + ++ +I G  
Sbjct: 235 TPEVSKGEKRESAEEDLDLPLEELGLSTRVLHSLKEEGIESVRALLALNLKDLRNIPGIG 294

Query: 403 EETAVEI-QGRAREYLEGID 421
           E +  EI Q  A++     +
Sbjct: 295 ERSLEEIRQALAKKGFTLKE 314


>gi|260587822|ref|ZP_05853735.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Blautia
           hansenii DSM 20583]
 gi|331083824|ref|ZP_08332933.1| hypothetical protein HMPREF0992_01857 [Lachnospiraceae bacterium
           6_1_63FAA]
 gi|260542087|gb|EEX22656.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Blautia
           hansenii DSM 20583]
 gi|330403249|gb|EGG82809.1| hypothetical protein HMPREF0992_01857 [Lachnospiraceae bacterium
           6_1_63FAA]
          Length = 361

 Score = 41.2 bits (96), Expect = 0.44,   Method: Composition-based stats.
 Identities = 30/164 (18%), Positives = 63/164 (38%), Gaps = 30/164 (18%)

Query: 61  SLFRLLEV----VEEVENYTCQISLKVARDRDPSIDIGGVVSDPL-------------PP 103
             F   EV    V +V +    + ++ AR   P+  +       L               
Sbjct: 102 EAFENKEVLTAKVNQVLDGGLSVIVEEARVFIPASLVSDTYEKDLTKYQDQEIEFVITEF 161

Query: 104 MDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDG 163
               R  +   KQ+++ K +E  +   +   +   G+++ GT+K V      +DLG +DG
Sbjct: 162 NPRRRRVIGDRKQLLVAK-KEEMKKELFE--RIHAGDVVEGTIKNVTDFGAFIDLGGADG 218

Query: 164 VIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           ++   E         ++  + G+++   I ++     G ++ LS
Sbjct: 219 LLHISEMSWGRVENPKKVFKAGEKITVLIKEI----NGDKIALS 258


>gi|219854068|ref|YP_002471190.1| hypothetical protein CKR_0725 [Clostridium kluyveri NBRC 12016]
 gi|219567792|dbj|BAH05776.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 317

 Score = 41.2 bits (96), Expect = 0.44,   Method: Composition-based stats.
 Identities = 19/72 (26%), Positives = 35/72 (48%), Gaps = 6/72 (8%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
            G+ I G V R+    V VDLG  +G++   E          E +  GD++K Y+ ++ +
Sbjct: 122 KGDKIEGRVSRITNFGVFVDLGGVEGLVHISELSWKKIKDPSEVVSVGDKLKVYVLNLNQ 181

Query: 192 EQRGPQVLLSRT 203
           ++    + + RT
Sbjct: 182 DRNRISLSIKRT 193


>gi|148543994|ref|YP_001271364.1| 30S ribosomal protein S1 [Lactobacillus reuteri DSM 20016]
 gi|184153388|ref|YP_001841729.1| 30S ribosomal protein S1 [Lactobacillus reuteri JCM 1112]
 gi|194467922|ref|ZP_03073908.1| RNA binding S1 domain protein [Lactobacillus reuteri 100-23]
 gi|227364907|ref|ZP_03848952.1| 30S ribosomal protein S1 [Lactobacillus reuteri MM2-3]
 gi|227543421|ref|ZP_03973470.1| 30S ribosomal protein S1 [Lactobacillus reuteri CF48-3A]
 gi|300910087|ref|ZP_07127547.1| 40S ribosomal protein S1 [Lactobacillus reuteri SD2112]
 gi|325682468|ref|ZP_08161985.1| 30S ribosomal protein S1 [Lactobacillus reuteri MM4-1A]
 gi|148531028|gb|ABQ83027.1| SSU ribosomal protein S1P [Lactobacillus reuteri DSM 20016]
 gi|183224732|dbj|BAG25249.1| 30S ribosomal protein S1 [Lactobacillus reuteri JCM 1112]
 gi|194452775|gb|EDX41673.1| RNA binding S1 domain protein [Lactobacillus reuteri 100-23]
 gi|227070054|gb|EEI08432.1| 30S ribosomal protein S1 [Lactobacillus reuteri MM2-3]
 gi|227186600|gb|EEI66671.1| 30S ribosomal protein S1 [Lactobacillus reuteri CF48-3A]
 gi|300892735|gb|EFK86095.1| 40S ribosomal protein S1 [Lactobacillus reuteri SD2112]
 gi|324978307|gb|EGC15257.1| 30S ribosomal protein S1 [Lactobacillus reuteri MM4-1A]
          Length = 416

 Score = 41.2 bits (96), Expect = 0.44,   Method: Composition-based stats.
 Identities = 22/106 (20%), Positives = 43/106 (40%), Gaps = 8/106 (7%)

Query: 94  GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN 153
           G  +   +  ++     +  + + IIQ   E   ++ + E +   G+++ G V R+    
Sbjct: 159 GQELEFKIVEIEPSENRLILSHKEIIQAQHEKAAEKVFAELQP--GDVVEGKVARMTNFG 216

Query: 154 VIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
             +DLG  DG++   E          + L  G  VK  +  V  E+
Sbjct: 217 AFIDLGGVDGLVHVSEISYDHVDKPSDVLTAGQDVKVKVLSVDPER 262


>gi|297626694|ref|YP_003688457.1| 30S ribosomal protein S1 [Propionibacterium freudenreichii subsp.
           shermanii CIRM-BIA1]
 gi|296922459|emb|CBL57032.1| 30S ribosomal protein S1 [Propionibacterium freudenreichii subsp.
           shermanii CIRM-BIA1]
          Length = 484

 Score = 41.2 bits (96), Expect = 0.45,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V+   V++D+G  ++GVI   E          E +  GD +++ +   ++
Sbjct: 36  GDIVKGTVVKVDRDEVLLDIGYKTEGVIPSKELSIKHDVDPFEVVSVGDEIEALVQ--QK 93

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 94  EDKEGRLILS 103


>gi|291563829|emb|CBL42645.1| Ribosomal protein S1 [butyrate-producing bacterium SS3/4]
          Length = 359

 Score = 41.2 bits (96), Expect = 0.45,   Method: Composition-based stats.
 Identities = 35/157 (22%), Positives = 62/157 (39%), Gaps = 26/157 (16%)

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPL-------------PPMDFGRVAVQSAK 115
           V +V +    + +  AR   P+  +  V    L                   R  +   K
Sbjct: 114 VSQVLDGGLSVIVDEARIFIPASLVSDVYEKDLSKYADKEIEFVITEFNPRRRRVIGDRK 173

Query: 116 QVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI---- 171
           Q+I+ K +   +   +   K  VG+ + GTVK V      +DLG +DG++   E      
Sbjct: 174 QLIVAK-KAEMQKALFE--KIHVGDKVEGTVKNVTDFGAFIDLGGADGLLHISEMSWGRI 230

Query: 172 --SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQ 206
              ++  + GD+V + I D+     G ++ LS   P+
Sbjct: 231 ENPKKVFKVGDKVTALIKDI----NGEKIALSMKFPE 263


>gi|257056579|ref|YP_003134411.1| 30S ribosomal protein S1 [Saccharomonospora viridis DSM 43017]
 gi|256586451|gb|ACU97584.1| SSU ribosomal protein S1P [Saccharomonospora viridis DSM 43017]
          Length = 495

 Score = 41.2 bits (96), Expect = 0.45,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +   ++
Sbjct: 42  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPAEVVAVGDEVEALVL--QK 99

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 100 EDKEGRLILS 109


>gi|160872757|ref|ZP_02062889.1| ribosomal protein S1 [Rickettsiella grylli]
 gi|159121556|gb|EDP46894.1| ribosomal protein S1 [Rickettsiella grylli]
          Length = 522

 Score = 41.2 bits (96), Expect = 0.45,   Method: Composition-based stats.
 Identities = 26/113 (23%), Positives = 52/113 (46%), Gaps = 8/113 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RD SI  G  +   +  +D  R  +  +++ +++   +A R++   E +   G++I G V
Sbjct: 142 RDSSIIEGKDLEFKVIKLDPKRNNIVLSRRAVLESEGQAGREQLLTELE--EGQVIKGIV 199

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           K +      +DLG  DG++   +          E L  GD ++  +  + RE+
Sbjct: 200 KNLADYGAFIDLGGIDGLLHVTDISWKRVKQPSEVLNIGDEIEVVVLKIERER 252


>gi|88657606|ref|YP_507222.1| 30S ribosomal protein S1 [Ehrlichia chaffeensis str. Arkansas]
 gi|88599063|gb|ABD44532.1| putative ribosomal protein S1 [Ehrlichia chaffeensis str. Arkansas]
          Length = 567

 Score = 41.2 bits (96), Expect = 0.45,   Method: Composition-based stats.
 Identities = 26/84 (30%), Positives = 41/84 (48%), Gaps = 9/84 (10%)

Query: 126 ERDRQYLEFKD---KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLR---P 178
           E      EF D   K G+II GT+  ++ G V +D G  S+ ++   E    ++ +    
Sbjct: 44  EFQHALKEFIDDSVKEGQIIEGTIICIDKGYVTIDSGLKSESIVSLKEFELGDDYQNISI 103

Query: 179 GDRVKSYIYDVRREQRGPQVLLSR 202
           G +VK Y+  +  E R   V+LSR
Sbjct: 104 GSKVKLYLEKI--EGRNGSVVLSR 125


>gi|68171776|ref|ZP_00545121.1| RNA binding S1 [Ehrlichia chaffeensis str. Sapulpa]
 gi|67998801|gb|EAM85508.1| RNA binding S1 [Ehrlichia chaffeensis str. Sapulpa]
          Length = 567

 Score = 41.2 bits (96), Expect = 0.45,   Method: Composition-based stats.
 Identities = 26/84 (30%), Positives = 41/84 (48%), Gaps = 9/84 (10%)

Query: 126 ERDRQYLEFKD---KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLR---P 178
           E      EF D   K G+II GT+  ++ G V +D G  S+ ++   E    ++ +    
Sbjct: 44  EFQHALKEFIDDSVKEGQIIEGTIICIDKGYVTIDSGLKSESIVSLKEFELGDDYQNISI 103

Query: 179 GDRVKSYIYDVRREQRGPQVLLSR 202
           G +VK Y+  +  E R   V+LSR
Sbjct: 104 GSKVKLYLEKI--EGRNGSVVLSR 125


>gi|325857413|ref|ZP_08172468.1| 30S ribosomal protein S1 [Prevotella denticola CRIS 18C-A]
 gi|327314246|ref|YP_004329683.1| 30S ribosomal protein S1 [Prevotella denticola F0289]
 gi|325483123|gb|EGC86103.1| 30S ribosomal protein S1 [Prevotella denticola CRIS 18C-A]
 gi|326945157|gb|AEA21042.1| 30S ribosomal protein S1 [Prevotella denticola F0289]
          Length = 593

 Score = 41.2 bits (96), Expect = 0.46,   Method: Composition-based stats.
 Identities = 20/66 (30%), Positives = 39/66 (59%), Gaps = 3/66 (4%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           +  +++ GTV  ++   V+V++G  SDG+I   E     +L+ GD+V+ Y+    +E + 
Sbjct: 46  QEHQVVEGTVISIDKKEVVVNIGYKSDGIIPASEFRYNPDLKVGDKVEVYVE--NQEDKC 103

Query: 196 PQVLLS 201
            Q++LS
Sbjct: 104 GQLVLS 109


>gi|297569509|ref|YP_003690853.1| ribosomal protein S1 [Desulfurivibrio alkaliphilus AHT2]
 gi|296925424|gb|ADH86234.1| ribosomal protein S1 [Desulfurivibrio alkaliphilus AHT2]
          Length = 568

 Score = 41.2 bits (96), Expect = 0.46,   Method: Composition-based stats.
 Identities = 30/129 (23%), Positives = 52/129 (40%), Gaps = 18/129 (13%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII----QKVREAERDRQ 130
              QI L+  RD D    IG      +   +  R  V  +++ I+    QK+RE  R   
Sbjct: 139 PYSQIDLRPVRDLD--AMIGESYDFKILKYNRRRNNVVISRRAIMEEERQKLREEMRTSL 196

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
                 + G++++G+V  +    V VDLG  DG+    +          +  + GD ++ 
Sbjct: 197 ------EEGQVLTGSVTNITDYGVFVDLGGMDGLCHITDLSWGRVSHPSKMYKVGDEIQV 250

Query: 185 YIYDVRREQ 193
            I    +E 
Sbjct: 251 KILKYDKEN 259


>gi|238924000|ref|YP_002937516.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding
           domain protein [Eubacterium rectale ATCC 33656]
 gi|238875675|gb|ACR75382.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding
           domain protein [Eubacterium rectale ATCC 33656]
 gi|291524741|emb|CBK90328.1| Ribosomal protein S1 [Eubacterium rectale DSM 17629]
 gi|291528938|emb|CBK94524.1| Ribosomal protein S1 [Eubacterium rectale M104/1]
          Length = 371

 Score = 41.2 bits (96), Expect = 0.46,   Method: Composition-based stats.
 Identities = 22/127 (17%), Positives = 53/127 (41%), Gaps = 12/127 (9%)

Query: 81  LKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGE 140
           +    ++D +      +   +   D  +  +   ++V++ + +  +++         VG+
Sbjct: 138 VSDTYEKDLNKFKDQEIEFIITEFDPRKRRIIGNRKVLLVEQKAKQQEELLANL--HVGD 195

Query: 141 IISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           +I GTVK V      +DLG  DG++   E         ++    G  V+ ++ ++     
Sbjct: 196 VIEGTVKNVTDFGAFIDLGGVDGLLHISEMSWGRVENPKKVFTVGQTVRVFVKNI----N 251

Query: 195 GPQVLLS 201
           G ++ LS
Sbjct: 252 GSKIALS 258


>gi|85116816|ref|XP_965126.1| DNA repair protein RAD51 [Neurospora crassa OR74A]
 gi|2182133|dbj|BAA20366.1| MEI3 [Neurospora crassa]
 gi|28926929|gb|EAA35890.1| DNA repair protein RAD51 [Neurospora crassa OR74A]
          Length = 353

 Score = 41.2 bits (96), Expect = 0.47,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 26/71 (36%)

Query: 345 EEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEE 404
           E+DS                   + +    L+V  GF  VE +A      +  I+G  E+
Sbjct: 14  EDDSGIPNPGAPTPLSALEGVAGLTKRDIQLIVDGGFNTVESVAYTPRRVLEQIKGISEQ 73

Query: 405 TAVEIQGRARE 415
            A +I   A +
Sbjct: 74  KAGKILAEASK 84


>gi|313159195|gb|EFR58568.1| ribosomal protein S1 [Alistipes sp. HGB5]
          Length = 630

 Score = 41.2 bits (96), Expect = 0.47,   Method: Composition-based stats.
 Identities = 21/65 (32%), Positives = 35/65 (53%), Gaps = 3/65 (4%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VGE++ GTV  +    V+V++G  S+GVI   E     +L  GD+++ Y+     +    
Sbjct: 64  VGEVVEGTVTGITKREVLVNIGYKSEGVIPVSEFRYNPDLAVGDKIEVYVESAEDKNG-- 121

Query: 197 QVLLS 201
           Q+ LS
Sbjct: 122 QLALS 126


>gi|256825135|ref|YP_003149095.1| 30S ribosomal protein S1 [Kytococcus sedentarius DSM 20547]
 gi|256688528|gb|ACV06330.1| SSU ribosomal protein S1P [Kytococcus sedentarius DSM 20547]
          Length = 492

 Score = 41.2 bits (96), Expect = 0.47,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +   ++
Sbjct: 33  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDIDPDEVVVVGDTVEALVL--QK 90

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 91  EDKEGRLILS 100


>gi|169350006|ref|ZP_02866944.1| hypothetical protein CLOSPI_00746 [Clostridium spiroforme DSM 1552]
 gi|169293219|gb|EDS75352.1| hypothetical protein CLOSPI_00746 [Clostridium spiroforme DSM 1552]
          Length = 710

 Score = 41.2 bits (96), Expect = 0.47,   Method: Composition-based stats.
 Identities = 43/208 (20%), Positives = 83/208 (39%), Gaps = 38/208 (18%)

Query: 21  SIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQIS 80
            I ++++   +A +  K AR     M+++   IN    ++S +     V+ ++  T QI 
Sbjct: 517 GITKEILQEALAQA--KVARR--EIMANMMAVINEPRKELSPYAPK--VQMIKIGTDQIK 570

Query: 81  ---LKVARDRDPSIDIGGVVSDPLPPM------DFGRVAVQSAKQVIIQKVREAERDRQY 131
               +  +  +  I+    V   +            + A+  A  +I + V+        
Sbjct: 571 SVIGQGGKTINEIIEQSDGVKIDIEQDGTVIVYHHDQEAINKAIALIEKIVK-------- 622

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVI----RRDETISR--ENLRPGDRVKS 184
              K KVGE+  G V RVE     V+L   +D  +       E I +  + ++ GD +K 
Sbjct: 623 ---KAKVGEVYDGKVVRVEDNYAFVNLFEGTDAFLHISDYNHERIKKMSDVVKLGDILKV 679

Query: 185 YIYDVRREQRGPQVLLSRTH--PQFMVK 210
            +  V  + +   V +SR    P+ + K
Sbjct: 680 KVTKVDDKGK---VNVSRKALLPKPVKK 704


>gi|90961864|ref|YP_535780.1| 30S ribosomal protein S1 [Lactobacillus salivarius UCC118]
 gi|90821058|gb|ABD99697.1| SSU ribosomal protein S1P [Lactobacillus salivarius UCC118]
          Length = 399

 Score = 41.2 bits (96), Expect = 0.47,   Method: Composition-based stats.
 Identities = 30/133 (22%), Positives = 55/133 (41%), Gaps = 17/133 (12%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             + P D   +     ++ ++Q  REA+R     +     G+++ G V R+      +DL
Sbjct: 166 VEIEPSDNRLILS---RKELVQAEREAKRQAVMEKLVA--GDVVEGKVARLTNFGAFIDL 220

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLF 212
           G  DG++   E          + L+ G  VK  +  V  E+    + + +T P+   +  
Sbjct: 221 GGVDGLVHVSEISYERVNKPADALKVGQEVKVKVLSVDAEKGRISLSIKQTLPEPWEQ-- 278

Query: 213 HMEVPE-IYNGIV 224
              VPE +  G V
Sbjct: 279 ---VPEQVAEGDV 288


>gi|39997656|ref|NP_953607.1| hypothetical protein GSU2561 [Geobacter sulfurreducens PCA]
 gi|39984548|gb|AAR35934.1| conserved domain protein [Geobacter sulfurreducens PCA]
 gi|298506597|gb|ADI85320.1| conserved hypothetical protein [Geobacter sulfurreducens KN400]
          Length = 174

 Score = 41.2 bits (96), Expect = 0.47,   Method: Composition-based stats.
 Identities = 15/80 (18%), Positives = 34/80 (42%)

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
             +  +   +   + E++A  L   G    E++A      + +I+G +  + V I  +A 
Sbjct: 1   MTDVQKELQKIRGIGEVLAKRLAEAGHDTFEKIAAAGEEGLRAIKGMNPRSVVSIVAQAA 60

Query: 415 EYLEGIDITLQKKIRELGVS 434
           E  +G      +++ EL  +
Sbjct: 61  ELAKGKAEDRARRVEELKAA 80


>gi|15791243|ref|NP_281067.1| DNA repair and recombination protein RadA [Halobacterium sp. NRC-1]
 gi|10581871|gb|AAG20547.1| DNA repair protein [Halobacterium sp. NRC-1]
          Length = 386

 Score = 41.2 bits (96), Expect = 0.47,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 23/57 (40%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
             +   V    A  L   GF   + LA    +E+++     E TA ++   ARE  +
Sbjct: 49  LEELPGVGPATAEKLRDNGFDAFQSLAVANSAELSNTADIGESTAADVIQAAREAAD 105


>gi|257784913|ref|YP_003180130.1| DNA ligase, NAD-dependent [Atopobium parvulum DSM 20469]
 gi|257473420|gb|ACV51539.1| DNA ligase, NAD-dependent [Atopobium parvulum DSM 20469]
          Length = 705

 Score = 41.2 bits (96), Expect = 0.48,   Method: Composition-based stats.
 Identities = 27/143 (18%), Positives = 57/143 (39%), Gaps = 18/143 (12%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           V   +A LL  E F  ++ LA   + +IA I G   + A  +      +    ++ + ++
Sbjct: 551 VGANVAELLAQE-FGSIQALATAPVEKIAEIPGIGPKIAESVHE---FFSIPENVAVIER 606

Query: 428 IRELGVSEELCSIPGIDSKIKVALGENGIK-----TMEDLA-GCSVDDLLGWSENKGGNI 481
           +R+ GV   +      ++++   L   G+      T+E      +   L        G++
Sbjct: 607 LRQAGV---VLEEEKTENELPQTLA--GLTFVLTGTLEHFTRDEAGAQLKAMGAKVSGSV 661

Query: 482 EKFDGFL---SSLGTPKDQVESM 501
            K   F+    + G+   + ES+
Sbjct: 662 SKKTSFVVAGEAAGSKLTKAESL 684


>gi|254447274|ref|ZP_05060741.1| ribosomal protein S1 [gamma proteobacterium HTCC5015]
 gi|198263413|gb|EDY87691.1| ribosomal protein S1 [gamma proteobacterium HTCC5015]
          Length = 557

 Score = 41.2 bits (96), Expect = 0.48,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 47/113 (41%), Gaps = 8/113 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RD +   G  +   +  MD  R  V  +++ +++ +   ER+          G I++G V
Sbjct: 142 RDTAYLEGKTLEFKVIKMDRKRNNVVVSRRAVVETMYSEEREELLNNLT--EGAIVTGVV 199

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           K +      +DLG  DG++   +          E +  GD ++  +    RE+
Sbjct: 200 KNLTDYGAFLDLGGIDGLLHITDMAWKRVHHPSEVVAVGDEIQVVVLKFDREK 252


>gi|256847157|ref|ZP_05552603.1| ribosomal protein S1 [Lactobacillus coleohominis 101-4-CHN]
 gi|256715821|gb|EEU30796.1| ribosomal protein S1 [Lactobacillus coleohominis 101-4-CHN]
          Length = 409

 Score = 41.2 bits (96), Expect = 0.48,   Method: Composition-based stats.
 Identities = 21/106 (19%), Positives = 43/106 (40%), Gaps = 8/106 (7%)

Query: 94  GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN 153
           G  +   +  ++     +  + + I++K  E    + + E     G+++ G V R+    
Sbjct: 158 GQELEFKIIEIEPSENRLILSHKEIVKKEHEEAAKKIFSELAA--GDVVEGKVARMTNFG 215

Query: 154 VIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
             +DLG  DG++   E          + L  G  VK  + +V  E+
Sbjct: 216 AFIDLGGVDGLVHVSEISYDHVDKPSDVLEVGQDVKVKVLNVDPER 261


>gi|47210458|emb|CAF94327.1| unnamed protein product [Tetraodon nigroviridis]
          Length = 969

 Score = 41.2 bits (96), Expect = 0.48,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 30/71 (42%), Gaps = 1/71 (1%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIAS-IEGFDEETAVEIQGRAREYLEGI 420
            M+   V E  A  L   G+     LA    + ++  IE   ++ A +I   AR  +   
Sbjct: 891 LMEVAGVLESRAKQLYNAGYKTPSHLASADPAVLSKTIENLYKKQAHQIVASARMLVNEK 950

Query: 421 DITLQKKIREL 431
              LQ+++ +L
Sbjct: 951 AAALQEEVDDL 961


>gi|239814621|ref|YP_002943531.1| 30S ribosomal protein S1 [Variovorax paradoxus S110]
 gi|239801198|gb|ACS18265.1| ribosomal protein S1 [Variovorax paradoxus S110]
          Length = 562

 Score = 41.2 bits (96), Expect = 0.48,   Method: Composition-based stats.
 Identities = 21/68 (30%), Positives = 34/68 (50%), Gaps = 7/68 (10%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G+I++G VK V+     +DLG +  G +R  E         R  L+ GD V + + +V 
Sbjct: 450 KGQIVTGKVKTVDARGAEIDLGEDIIGYLRASEISRDRVEDARNVLKEGDEVTAIVVNVD 509

Query: 191 REQRGPQV 198
           R+ R  Q+
Sbjct: 510 RKTRNIQL 517


>gi|55379507|ref|YP_137357.1| DNA repair and recombination protein RadA [Haloarcula marismortui
           ATCC 43049]
 gi|55232232|gb|AAV47651.1| DNA repair and recombination protein RadA [Haloarcula marismortui
           ATCC 43049]
          Length = 351

 Score = 41.2 bits (96), Expect = 0.48,   Method: Composition-based stats.
 Identities = 12/62 (19%), Positives = 24/62 (38%)

Query: 357 ERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
             ++   +   V    A  L   G+   + +A     E+++     E +A +I   ARE 
Sbjct: 4   SASEDLEELPGVGPATAEKLEDNGYDSYQGIAVASPGELSNTADIGESSAADIIQAAREA 63

Query: 417 LE 418
            +
Sbjct: 64  AD 65


>gi|328874880|gb|EGG23245.1| hypothetical protein DFA_05377 [Dictyostelium fasciculatum]
          Length = 822

 Score = 40.8 bits (95), Expect = 0.49,   Method: Composition-based stats.
 Identities = 35/171 (20%), Positives = 59/171 (34%), Gaps = 22/171 (12%)

Query: 90  SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV 149
             ++G  +  P        +        +  K +E      Y  +  + G+I+ GT+K V
Sbjct: 533 KFNVGSELHVPCRVKHVDYLDAMV---TLTTKKKEIG-KTIYSYYDLQPGQILDGTIKFV 588

Query: 150 EYGNVIVDL-GNSDGVIRRDE----TI--SRENLRPGDRVKSYIYDVRREQRGPQVLL-- 200
              ++ + +  N  GV+         I   RE    G  ++  I  V  E++   + L  
Sbjct: 589 RDDSIEIKITDNIFGVVPMHNLGETMILKPRERFNAGQSLRFRILKVVPEKKRLVLTLKP 648

Query: 201 SRTH---PQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSI 248
           S  H   P    K    +V EI  G +     SR    R  +  F     I
Sbjct: 649 SLVHSTLPILSSKA-ACKVGEIAQGFI-----SRIEDERIHVTFFGDVHGI 693


>gi|281412160|ref|YP_003346239.1| DNA ligase, NAD-dependent [Thermotoga naphthophila RKU-10]
 gi|281373263|gb|ADA66825.1| DNA ligase, NAD-dependent [Thermotoga naphthophila RKU-10]
          Length = 688

 Score = 40.8 bits (95), Expect = 0.49,   Method: Composition-based stats.
 Identities = 20/89 (22%), Positives = 34/89 (38%), Gaps = 9/89 (10%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           V +  A +L AE F  +E +A      +  I G   E A  I    R         + +K
Sbjct: 522 VGQKTAKIL-AEHFKSLEAIADASYETLKDIPGIGPEIAKSIVEYFRN---PKTREIIEK 577

Query: 428 IRELGV--SEELCSIP---GIDSKIKVAL 451
           +++ GV   E +  +    G+   +   L
Sbjct: 578 LKKAGVKLEERVMKLDILKGLTFAVTGTL 606


>gi|302528116|ref|ZP_07280458.1| ribosomal protein S1 [Streptomyces sp. AA4]
 gi|302437011|gb|EFL08827.1| ribosomal protein S1 [Streptomyces sp. AA4]
          Length = 497

 Score = 40.8 bits (95), Expect = 0.49,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +   ++
Sbjct: 43  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPAEVVAVGDEVEALVL--QK 100

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 101 EDKEGRLILS 110


>gi|225019196|ref|ZP_03708388.1| hypothetical protein CLOSTMETH_03149 [Clostridium methylpentosum
           DSM 5476]
 gi|224948048|gb|EEG29257.1| hypothetical protein CLOSTMETH_03149 [Clostridium methylpentosum
           DSM 5476]
          Length = 663

 Score = 40.8 bits (95), Expect = 0.49,   Method: Composition-based stats.
 Identities = 38/206 (18%), Positives = 82/206 (39%), Gaps = 46/206 (22%)

Query: 81  LKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF--KDKV 138
           L   R  +    +   V   +  ++  R    ++ + ++ + ++A+ +    EF    ++
Sbjct: 423 LSDRRVENAEEFLKKEVEFKIIEVNPSRKRAVASVRALLNEAKKAKAE----EFWASVEI 478

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRRE 192
           G+  +GTVK +      VDLG  DG+I   E          + ++ GD V+ Y+ D+ +E
Sbjct: 479 GKTYTGTVKSLTDYGAFVDLGGVDGMIHITELSWTKIKHPSDIVKVGDVVEVYVKDIDQE 538

Query: 193 QRGPQV--------------------------LLSRTHPQFMVKLFHMEVPEIYNGIVQV 226
           ++   +                          ++S T  QF    F   +P + +G++ +
Sbjct: 539 KKKISLGYRKSEDNPWEIFKKDYAVDQVVNVTIVSLT--QFGA--FAEIIPGV-DGLIHI 593

Query: 227 KAVSRDPGSRAKLA-VFSSDSSIDPV 251
             ++      AK++ V S    +D  
Sbjct: 594 SQIANQ--HIAKVSDVLSVGQKVDAK 617


>gi|153953445|ref|YP_001394210.1| 30S ribosomal protein S1 [Clostridium kluyveri DSM 555]
 gi|146346326|gb|EDK32862.1| 30S ribosomal protein S1 [Clostridium kluyveri DSM 555]
          Length = 314

 Score = 40.8 bits (95), Expect = 0.49,   Method: Composition-based stats.
 Identities = 19/72 (26%), Positives = 35/72 (48%), Gaps = 6/72 (8%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
            G+ I G V R+    V VDLG  +G++   E          E +  GD++K Y+ ++ +
Sbjct: 119 KGDKIEGRVSRITNFGVFVDLGGVEGLVHISELSWKKIKDPSEVVSVGDKLKVYVLNLNQ 178

Query: 192 EQRGPQVLLSRT 203
           ++    + + RT
Sbjct: 179 DRNRISLSIKRT 190


>gi|123968121|ref|YP_001008979.1| 30S ribosomal protein S1 protein B, putative Nbp1 [Prochlorococcus
           marinus str. AS9601]
 gi|123198231|gb|ABM69872.1| 30S ribosomal protein S1 protein B, putative Nbp1 [Prochlorococcus
           marinus str. AS9601]
          Length = 401

 Score = 40.8 bits (95), Expect = 0.49,   Method: Composition-based stats.
 Identities = 21/105 (20%), Positives = 43/105 (40%), Gaps = 6/105 (5%)

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR--PG 179
           +     ++       K GE+I+  +     G +  D+    G I R +    ++ +   G
Sbjct: 202 ILRQSWEKVSN--SAKNGELINVLINGFNRGGLTCDVDGLRGFIPRSQLEDGQDYQSFVG 259

Query: 180 DRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
             +K    +V  E R  +++LS      + KL  +E+ ++  G V
Sbjct: 260 KNLKVAFLEVNPESR--KLVLSEKKASLVSKLTSLELGQLIEGEV 302


>gi|227890890|ref|ZP_04008695.1| 30S ribosomal protein S1 [Lactobacillus salivarius ATCC 11741]
 gi|227867299|gb|EEJ74720.1| 30S ribosomal protein S1 [Lactobacillus salivarius ATCC 11741]
 gi|300214594|gb|ADJ79010.1| SSU ribosomal protein S1P [Lactobacillus salivarius CECT 5713]
          Length = 397

 Score = 40.8 bits (95), Expect = 0.50,   Method: Composition-based stats.
 Identities = 30/133 (22%), Positives = 55/133 (41%), Gaps = 17/133 (12%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             + P D   +     ++ ++Q  REA+R     +     G+++ G V R+      +DL
Sbjct: 164 VEIEPSDNRLILS---RKELVQAEREAKRQAVMEKLVA--GDVVEGKVARLTNFGAFIDL 218

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLF 212
           G  DG++   E          + L+ G  VK  +  V  E+    + + +T P+   +  
Sbjct: 219 GGVDGLVHVSEISYERVNKPADALKVGQEVKVKVLSVDAEKGRISLSIKQTLPEPWEQ-- 276

Query: 213 HMEVPE-IYNGIV 224
              VPE +  G V
Sbjct: 277 ---VPEQVAEGDV 286


>gi|51860136|gb|AAU11318.1| DNA polymerase beta [Xiphophorus maculatus]
 gi|51860138|gb|AAU11319.1| DNA polymerase beta [Xiphophorus maculatus]
          Length = 337

 Score = 40.8 bits (95), Expect = 0.50,   Method: Composition-based stats.
 Identities = 19/73 (26%), Positives = 31/73 (42%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
            E   ++G   + A +I     E+L+   +   +KIR    S     L  + GI      
Sbjct: 57  EEAKKLDGVGAKIAEKI----DEFLQTGKLRKLEKIRNDDTSSSINFLTRVTGIGPAAAR 112

Query: 450 ALGENGIKTMEDL 462
              E G+KT++DL
Sbjct: 113 KFVEEGVKTLDDL 125


>gi|253699629|ref|YP_003020818.1| 30S ribosomal protein S1 [Geobacter sp. M21]
 gi|251774479|gb|ACT17060.1| ribosomal protein S1 [Geobacter sp. M21]
          Length = 584

 Score = 40.8 bits (95), Expect = 0.50,   Method: Composition-based stats.
 Identities = 20/76 (26%), Positives = 34/76 (44%), Gaps = 6/76 (7%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
           K G+I++G VK +      VDLG  DG++   +          E ++ GD +   +    
Sbjct: 215 KEGDIVNGVVKNIAEYGAFVDLGGVDGLLHVTDMSWGRLGHPSEMVKVGDTLNVMVLKYD 274

Query: 191 REQRGPQVLLSRTHPQ 206
           RE+    + L +T P 
Sbjct: 275 REKGKISLGLKQTVPD 290


>gi|197119621|ref|YP_002140048.1| 30S ribosomal protein S1 [Geobacter bemidjiensis Bem]
 gi|197088981|gb|ACH40252.1| ribosomal protein S1 [Geobacter bemidjiensis Bem]
          Length = 584

 Score = 40.8 bits (95), Expect = 0.51,   Method: Composition-based stats.
 Identities = 20/76 (26%), Positives = 34/76 (44%), Gaps = 6/76 (7%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
           K G+I++G VK +      VDLG  DG++   +          E ++ GD +   +    
Sbjct: 215 KEGDIVNGVVKNIAEYGAFVDLGGVDGLLHVTDMSWGRLGHPSEMVKVGDTLNVMVLKYD 274

Query: 191 REQRGPQVLLSRTHPQ 206
           RE+    + L +T P 
Sbjct: 275 REKGKISLGLKQTVPD 290


>gi|313672062|ref|YP_004050173.1| RNA binding s1 domain protein [Calditerrivibrio nitroreducens DSM
           19672]
 gi|312938818|gb|ADR18010.1| RNA binding S1 domain protein [Calditerrivibrio nitroreducens DSM
           19672]
          Length = 572

 Score = 40.8 bits (95), Expect = 0.51,   Method: Composition-based stats.
 Identities = 26/127 (20%), Positives = 48/127 (37%), Gaps = 16/127 (12%)

Query: 82  KVARDRDPSIDIGGVVSDPL-PPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGE 140
           +   D +    +G  V   +              KQ+     +E   D+ Y      VG+
Sbjct: 412 EEVSDLNERFKVGDEVEAKILTIDPEKERIALGIKQLEKNPWKEI--DKLYP-----VGK 464

Query: 141 IISGTVKRVEYGNVIVDLGN-SDGVIRRDE-----TISRENLRPGDRVKSYIYDVRREQR 194
           ++   V  VE   ++V+L     G+I   E     +   E  + GD VK+ +     + +
Sbjct: 465 VVEAVVDSVEKDQLVVNLTKGIKGIIPIKEVDEGKSNLSEQFKHGDVVKATVIKTDVKTK 524

Query: 195 GPQVLLS 201
             ++LLS
Sbjct: 525 --KILLS 529


>gi|294786795|ref|ZP_06752049.1| ribosomal protein S1 [Parascardovia denticolens F0305]
 gi|315226424|ref|ZP_07868212.1| 30S ribosomal protein S1 [Parascardovia denticolens DSM 10105]
 gi|294485628|gb|EFG33262.1| ribosomal protein S1 [Parascardovia denticolens F0305]
 gi|315120556|gb|EFT83688.1| 30S ribosomal protein S1 [Parascardovia denticolens DSM 10105]
          Length = 493

 Score = 40.8 bits (95), Expect = 0.51,   Method: Composition-based stats.
 Identities = 21/94 (22%), Positives = 51/94 (54%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++ GTV ++++  V++D+G  ++GVI   E          + +  GD +++ +  V +
Sbjct: 36  GDLVEGTVVKIDHDEVLLDIGYKTEGVIPSKELSIKKDVTPEDVVEVGDTIEALV--VTK 93

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  +++LS+   Q+      +E  +  +G+V+
Sbjct: 94  EDKEGRLILSKKRAQYERAWGDVEKIKEADGVVE 127


>gi|148269959|ref|YP_001244419.1| DNA ligase, NAD-dependent [Thermotoga petrophila RKU-1]
 gi|170288644|ref|YP_001738882.1| DNA ligase, NAD-dependent [Thermotoga sp. RQ2]
 gi|190359298|sp|A5IKX0|DNLJ_THEP1 RecName: Full=DNA ligase; AltName: Full=Polydeoxyribonucleotide
           synthase [NAD+]
 gi|254781442|sp|B1LA51|DNLJ_THESQ RecName: Full=DNA ligase; AltName: Full=Polydeoxyribonucleotide
           synthase [NAD+]
 gi|147735503|gb|ABQ46843.1| DNA ligase, NAD-dependent [Thermotoga petrophila RKU-1]
 gi|170176147|gb|ACB09199.1| DNA ligase, NAD-dependent [Thermotoga sp. RQ2]
          Length = 688

 Score = 40.8 bits (95), Expect = 0.51,   Method: Composition-based stats.
 Identities = 20/89 (22%), Positives = 34/89 (38%), Gaps = 9/89 (10%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           V +  A +L AE F  +E +A      +  I G   E A  I    R         + +K
Sbjct: 522 VGQKTAKIL-AEHFKSLEAIADASYETLKDIPGIGPEIAKSIVEYFRN---PKTREIIEK 577

Query: 428 IRELGV--SEELCSIP---GIDSKIKVAL 451
           +++ GV   E +  +    G+   +   L
Sbjct: 578 LKKAGVKLEERVMKLDILKGLTFAVTGTL 606


>gi|301165923|emb|CBW25496.1| 30s ribosomal protein S1 [Bacteriovorax marinus SJ]
          Length = 592

 Score = 40.8 bits (95), Expect = 0.51,   Method: Composition-based stats.
 Identities = 36/202 (17%), Positives = 72/202 (35%), Gaps = 42/202 (20%)

Query: 1   MVSANRLELLQIADAVAY--EKSIDRD-VVLSVMADSIQKAARSLYGTMSDIRVEINPET 57
           ++S ++ E+L+  D ++   EK    +  V++ +   +               V+I    
Sbjct: 121 VLSKDKAEILKAWDKISEACEKGTPLEGTVIAKVKGGLS--------------VDI---- 162

Query: 58  GDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQV 117
             +  F              QI L+  R  D    IG  +   +   +  R  +  +++ 
Sbjct: 163 -GVKAF----------LPGSQIDLRPTRYLDKY--IGKKMEFKVIKFNKKRGNIVLSRRA 209

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------ 171
           I+Q+ R   R     +   + G I+ G VK +      +DLG  DG++   +        
Sbjct: 210 ILQEERGKMRQEILDQI--QEGMIVKGIVKNITDYGAFIDLGGIDGLLHITDMSWGRVKH 267

Query: 172 SRENLRPGDRVKSYIYDVRREQ 193
               L  GD +   I     ++
Sbjct: 268 PSNLLNMGDEIDVKILKFDSDK 289


>gi|261406030|ref|YP_003242271.1| RNA-binding S1 domain-containing protein [Paenibacillus sp.
           Y412MC10]
 gi|261282493|gb|ACX64464.1| RNA binding S1 domain protein [Paenibacillus sp. Y412MC10]
          Length = 405

 Score = 40.8 bits (95), Expect = 0.51,   Method: Composition-based stats.
 Identities = 23/84 (27%), Positives = 41/84 (48%), Gaps = 10/84 (11%)

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLR 177
           EA + +   E +D  G+++ GTV+R+      VD+G  DG++   E          + L 
Sbjct: 186 EANKQKVMSELQD--GQVLEGTVQRLTQFGAFVDVGGVDGLVHVSEIAWSHVDKPSDVLS 243

Query: 178 PGDRVKSYIYDVRREQRGPQVLLS 201
            GD+V+  +  V  E+   ++ LS
Sbjct: 244 EGDQVRVKVLKVDPEKG--KISLS 265


>gi|73667233|ref|YP_303249.1| 30S ribosomal protein S1 [Ehrlichia canis str. Jake]
 gi|72394374|gb|AAZ68651.1| SSU ribosomal protein S1P [Ehrlichia canis str. Jake]
          Length = 567

 Score = 40.8 bits (95), Expect = 0.51,   Method: Composition-based stats.
 Identities = 26/84 (30%), Positives = 41/84 (48%), Gaps = 9/84 (10%)

Query: 126 ERDRQYLEFKD---KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLR---P 178
           E      EF D   K G+II GT+  ++ G V +D G  S+ ++   E    ++ +    
Sbjct: 44  EFQNALKEFIDDSVKEGQIIEGTIVCIDKGYVTIDSGLKSESIVSLKEFELGDDYQNIGI 103

Query: 179 GDRVKSYIYDVRREQRGPQVLLSR 202
           G +VK Y+  +  E R   V+LSR
Sbjct: 104 GSKVKLYLEKI--EGRNGSVVLSR 125


>gi|325968722|ref|YP_004244914.1| DEAD/DEAH box helicase [Vulcanisaeta moutnovskia 768-28]
 gi|323707925|gb|ADY01412.1| DEAD/DEAH box helicase domain protein [Vulcanisaeta moutnovskia
           768-28]
          Length = 768

 Score = 40.8 bits (95), Expect = 0.52,   Method: Composition-based stats.
 Identities = 16/59 (27%), Positives = 24/59 (40%)

Query: 356 NERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
            E  +  +    V    A  L   GF D+ ++A      I+ I GF +  A  I  +AR
Sbjct: 674 EELIELVINLEGVGRTRARALYDAGFKDIADIANADPKAISIIRGFGDRLAHSIIEQAR 732


>gi|271964470|ref|YP_003338666.1| 30S ribosomal protein S1-like protein [Streptosporangium roseum DSM
           43021]
 gi|270507645|gb|ACZ85923.1| Ribosomal protein S1-like protein [Streptosporangium roseum DSM
           43021]
          Length = 500

 Score = 40.8 bits (95), Expect = 0.52,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V+   V++D+G  ++GVI   E          + +  G+ V++ +   ++
Sbjct: 39  GDIVEGTVVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPADVVEVGEHVEALVL--QK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKEGRLILS 106


>gi|302878374|ref|YP_003846938.1| 30S ribosomal protein S1 [Gallionella capsiferriformans ES-2]
 gi|302581163|gb|ADL55174.1| ribosomal protein S1 [Gallionella capsiferriformans ES-2]
          Length = 570

 Score = 40.8 bits (95), Expect = 0.52,   Method: Composition-based stats.
 Identities = 28/125 (22%), Positives = 55/125 (44%), Gaps = 17/125 (13%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK--DKVGEII 142
            +   +   G  V   +       +A+   ++ I   +++ E D  +  F   ++ G I+
Sbjct: 412 EEMVRNFKKGDEVEAVV-------LAIDVERERISLGIKQMEGDP-FGGFAATNEKGAIV 463

Query: 143 SGTVKRVEYGNVIVDL-GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRG 195
           +G VK V+    +V L G+ +  ++  E         R +L+ GD VK+ I  V R+ RG
Sbjct: 464 NGVVKSVDAKGAVVTLPGDVEAYLKASEVSVDRVEDIRTHLKEGDTVKAMIISVDRKNRG 523

Query: 196 PQVLL 200
             + +
Sbjct: 524 ISLSV 528



 Score = 38.5 bits (89), Expect = 3.0,   Method: Composition-based stats.
 Identities = 23/105 (21%), Positives = 44/105 (41%), Gaps = 8/105 (7%)

Query: 96  VVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI 155
            +   +  +D  R  V  +++ +++    A+R+      K   G I+ G VK +      
Sbjct: 160 TMEFKVIKLDRRRNNVVVSRRAVLEATMGADRESVMENLK--EGAIVKGVVKNITDYGAF 217

Query: 156 VDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           VDLG  DG++   +          E L  GD +++ I    +E+ 
Sbjct: 218 VDLGGIDGLLHITDLAWRRVKHPSEVLTVGDEIEAKILKFDQEKN 262


>gi|330752238|emb|CBL87195.1| ribosomal protein S1 [uncultured Sphingobacteria bacterium]
 gi|330752261|emb|CBL87217.1| ribosomal protein S1 [uncultured Sphingobacteria bacterium]
          Length = 740

 Score = 40.8 bits (95), Expect = 0.54,   Method: Composition-based stats.
 Identities = 34/148 (22%), Positives = 65/148 (43%), Gaps = 14/148 (9%)

Query: 73  ENYTCQISLKVARDRD----PSIDIGG--VVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           E+   + + +     +    P+++      + D  P   F        K  +    +E E
Sbjct: 4   EDKNLESTQEETVAIEVVDTPTLEAHEGPDLLDQTPYDQFDWSVGN--KHTLSYSEQEIE 61

Query: 127 RD-RQYLEFKDKVG--EIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
               QY +    +G  EI+ G V  +  G+V++D+   SDG++   E     +L+ GD V
Sbjct: 62  DYLNQYEQSLSTIGQNEIVLGKVTAIHDGDVVLDVNYKSDGLVSLSEFRDMPDLKIGDEV 121

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVK 210
           + Y+ D + + RG Q++LSR   + +  
Sbjct: 122 QVYVED-KEDLRG-QLVLSRKKAKLLKA 147


>gi|227510313|ref|ZP_03940362.1| 30S ribosomal protein S1 [Lactobacillus brevis subsp. gravesensis
           ATCC 27305]
 gi|227189965|gb|EEI70032.1| 30S ribosomal protein S1 [Lactobacillus brevis subsp. gravesensis
           ATCC 27305]
          Length = 413

 Score = 40.8 bits (95), Expect = 0.54,   Method: Composition-based stats.
 Identities = 28/133 (21%), Positives = 52/133 (39%), Gaps = 23/133 (17%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             + P+    +    A   I+Q  +  ER++         G+I+ G V R+      VDL
Sbjct: 165 IEIDPVANRLILSHKA---ILQAQKAEEREKLMDTL--HEGDIVEGKVARLTNFGAFVDL 219

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLF 212
           G  DG++   +          + L+ G  VK  +  V  ++   ++ LS           
Sbjct: 220 GGMDGLVHVSQIAYERVEKPSDVLKVGQEVKVKVLSVDFDRN--RISLS----------I 267

Query: 213 HMEVPEIYNGIVQ 225
              +PE ++GI +
Sbjct: 268 KQTLPEPWDGIEE 280



 Score = 37.4 bits (86), Expect = 5.5,   Method: Composition-based stats.
 Identities = 26/128 (20%), Positives = 53/128 (41%), Gaps = 15/128 (11%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGR-VAVQSAKQVIIQKVREAERDRQYLE 133
           +  QI+ +        + +G  V   +  +DF R     S KQ + +     E       
Sbjct: 227 HVSQIAYERVEKPSDVLKVGQEVKVKVLSVDFDRNRISLSIKQTLPEPWDGIEE------ 280

Query: 134 FKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYI 186
            K   G ++ GTVKR V++G  +      +G++   +          + L+ G+++K  +
Sbjct: 281 -KAPAGSVLEGTVKRLVDFGAFVEVFPGVEGLVHISQIAHEHIATPGDVLKVGEKIKVKV 339

Query: 187 YDVRREQR 194
            DV  +++
Sbjct: 340 LDVDPDRK 347


>gi|329929826|ref|ZP_08283502.1| putative ribosomal protein S1 [Paenibacillus sp. HGF5]
 gi|328935804|gb|EGG32265.1| putative ribosomal protein S1 [Paenibacillus sp. HGF5]
          Length = 405

 Score = 40.8 bits (95), Expect = 0.54,   Method: Composition-based stats.
 Identities = 23/84 (27%), Positives = 41/84 (48%), Gaps = 10/84 (11%)

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLR 177
           EA + +   E +D  G+++ GTV+R+      VD+G  DG++   E          + L 
Sbjct: 186 EANKQKVMSELQD--GQVLEGTVQRLTQFGAFVDVGGVDGLVHVSEIAWSHVDKPSDVLS 243

Query: 178 PGDRVKSYIYDVRREQRGPQVLLS 201
            GD+V+  +  V  E+   ++ LS
Sbjct: 244 EGDQVRVKVLKVDPEKG--KISLS 265


>gi|315652055|ref|ZP_07905056.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Eubacterium
           saburreum DSM 3986]
 gi|315485702|gb|EFU76083.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Eubacterium
           saburreum DSM 3986]
          Length = 368

 Score = 40.8 bits (95), Expect = 0.54,   Method: Composition-based stats.
 Identities = 36/167 (21%), Positives = 66/167 (39%), Gaps = 30/167 (17%)

Query: 63  FRLLEV----VEEVENYTCQISLKVARDRDPSIDIGGVVSDPL-------------PPMD 105
           F   EV    V +V +    + +  AR   P+  +       L                 
Sbjct: 104 FNNKEVLTGKVVQVVDGGLSVVVDDARVFIPASLVSDTFERDLSKYKDTDIEFVITEFNP 163

Query: 106 FGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVI 165
             R  +   KQ+++ K +E ++   + +     G++I GTVK V      VDLG +DG++
Sbjct: 164 RRRRIIGDRKQLLLAK-KEEQKKALFDKITP--GDVIEGTVKNVTDFGAFVDLGGADGLL 220

Query: 166 RRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQ 206
              E         ++  + G++V ++I D+     G ++ LS   P 
Sbjct: 221 HISEMSWGRVENPKKVFKSGEKVTAFIKDIS----GEKIALSMKFPD 263


>gi|222054249|ref|YP_002536611.1| PHP domain protein [Geobacter sp. FRC-32]
 gi|221563538|gb|ACM19510.1| PHP domain protein [Geobacter sp. FRC-32]
          Length = 579

 Score = 40.8 bits (95), Expect = 0.54,   Method: Composition-based stats.
 Identities = 25/97 (25%), Positives = 42/97 (43%), Gaps = 9/97 (9%)

Query: 375 LLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVS 434
            L  EG +  + +  +   E+  I G  ++ A +I     EYL    I   +K++E    
Sbjct: 34  ALNLEGLS--QAIDNLSHKELLKIPGIGKDFAAKI----EEYLATGKIEAHEKLKEEVPL 87

Query: 435 E--ELCSIPGIDSKIKVALGEN-GIKTMEDLAGCSVD 468
              EL  IPG+       L +  G+K M+DL   + +
Sbjct: 88  GMLELLVIPGLGPAKAKLLYDKLGVKGMDDLERAAAE 124


>gi|239917616|ref|YP_002957174.1| SSU ribosomal protein S1P [Micrococcus luteus NCTC 2665]
 gi|239838823|gb|ACS30620.1| SSU ribosomal protein S1P [Micrococcus luteus NCTC 2665]
          Length = 485

 Score = 40.8 bits (95), Expect = 0.54,   Method: Composition-based stats.
 Identities = 23/94 (24%), Positives = 49/94 (52%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++ GTV +V+   V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 35  GDLVEGTVVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPDEVVAVGDTVEALVL--TK 92

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  +++LS+   Q+      +E  +  +G+V+
Sbjct: 93  EDKEGRLILSKKRAQYERAWGDIEKIKEEDGVVE 126


>gi|269956314|ref|YP_003326103.1| RNA binding S1 domain-containing protein [Xylanimonas
           cellulosilytica DSM 15894]
 gi|269304995|gb|ACZ30545.1| RNA binding S1 domain protein [Xylanimonas cellulosilytica DSM
           15894]
          Length = 490

 Score = 40.8 bits (95), Expect = 0.55,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V++D+G  ++GVI   E          E +  GD V++ +   ++
Sbjct: 37  GDIVEGTIVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPSEVVSLGDVVEALVL--QK 94

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 95  EDKEGRLILS 104


>gi|171186395|ref|YP_001795314.1| DNA repair and recombination protein RadA [Thermoproteus
           neutrophilus V24Sta]
 gi|226736610|sp|B1YC14|RADA_THENV RecName: Full=DNA repair and recombination protein radA
 gi|170935607|gb|ACB40868.1| DNA repair and recombination protein RadA [Thermoproteus
           neutrophilus V24Sta]
          Length = 330

 Score = 40.8 bits (95), Expect = 0.55,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 32/72 (44%), Gaps = 2/72 (2%)

Query: 347 DSINRQKDFNERTQFFMQAI-NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEET 405
           D+   Q          ++ +  V  +    L   GF  V ++A   + E+A + G +EE 
Sbjct: 8   DAEVAQASVEVNPDLDVEELEGVGRVTGAKLKERGFFTVRDVAFASVKELAEVVG-NEER 66

Query: 406 AVEIQGRAREYL 417
           A++I   AR+ L
Sbjct: 67  ALQIVEAARKML 78


>gi|146329586|ref|YP_001209043.1| ribosomal protein S1 [Dichelobacter nodosus VCS1703A]
 gi|146233056|gb|ABQ14034.1| ribosomal protein S1 [Dichelobacter nodosus VCS1703A]
          Length = 558

 Score = 40.8 bits (95), Expect = 0.55,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 50/113 (44%), Gaps = 8/113 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +DP+I  G  +   +  +D  R  +  +++ +I+   +AER+        + G+++   V
Sbjct: 143 KDPAIVEGKEIEFKIIKLDQKRNNIVVSRRAVIEHEYKAEREEVLQNL--QEGDVVKAVV 200

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           K +      +DLG  DG++   +          E +  GD V+  +    RE+
Sbjct: 201 KNLTDYGAFLDLGGVDGLLHITDMAWKRIKYPSEVVNIGDEVEVKVLKFDRER 253


>gi|110667271|ref|YP_657082.1| hypothetical protein HQ1304A [Haloquadratum walsbyi DSM 16790]
 gi|109625018|emb|CAJ51433.1| conserved hypothetical protein [Haloquadratum walsbyi DSM 16790]
          Length = 214

 Score = 40.8 bits (95), Expect = 0.55,   Method: Composition-based stats.
 Identities = 28/100 (28%), Positives = 42/100 (42%), Gaps = 5/100 (5%)

Query: 336 GWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEI 395
           G+  DI +E   S     D N     F     V E     L  E    + ++    I+EI
Sbjct: 96  GFEDDIPSENIFSSGATLDANA--DMFT---GVGEKRLRKLEMERLVTLNDILDASINEI 150

Query: 396 ASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSE 435
           A ++GF E+TA  ++    E         ++ +REL VSE
Sbjct: 151 AEVDGFGEQTAKTLKITTIEAAINKLDMSEEDLRELSVSE 190


>gi|167044412|gb|ABZ09089.1| hypothetical protein ALOHA_HF4000APKG6D3ctg6g6 [uncultured marine
           crenarchaeote HF4000_APKG6D3]
          Length = 484

 Score = 40.8 bits (95), Expect = 0.56,   Method: Composition-based stats.
 Identities = 21/89 (23%), Positives = 37/89 (41%), Gaps = 6/89 (6%)

Query: 374 HLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGV 433
           ++LV      VE+LA   I ++  I+G   +TA +    A+       I + K + +   
Sbjct: 235 NMLVDNKLNTVEDLAKANIQDLTEIKGIGNKTAKKYVTTAKAIQTKTHIIIDKDMIDFPE 294

Query: 434 S--EELCSIPGIDSKIKVALGENGIKTME 460
              E    + GID +      E GI  ++
Sbjct: 295 RKVEIFLDLEGIDPQS----AEGGIPQID 319


>gi|58259207|ref|XP_567016.1| recombinase [Cryptococcus neoformans var. neoformans JEC21]
 gi|134107347|ref|XP_777558.1| hypothetical protein CNBA6800 [Cryptococcus neoformans var.
           neoformans B-3501A]
 gi|50260252|gb|EAL22911.1| hypothetical protein CNBA6800 [Cryptococcus neoformans var.
           neoformans B-3501A]
 gi|57223153|gb|AAW41197.1| recombinase, putative [Cryptococcus neoformans var. neoformans
           JEC21]
          Length = 365

 Score = 40.8 bits (95), Expect = 0.56,   Method: Composition-based stats.
 Identities = 13/51 (25%), Positives = 21/51 (41%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           +Q   +       L   GF  VE +A      + +I+G  E+ A +I   A
Sbjct: 34  LQEAGISAQDTKKLADAGFHTVEAVAFTPKKTLCTIKGISEQKADKILAEA 84


>gi|227513320|ref|ZP_03943369.1| 30S ribosomal protein S1 [Lactobacillus buchneri ATCC 11577]
 gi|227524464|ref|ZP_03954513.1| 30S ribosomal protein S1 [Lactobacillus hilgardii ATCC 8290]
 gi|227083193|gb|EEI18505.1| 30S ribosomal protein S1 [Lactobacillus buchneri ATCC 11577]
 gi|227088334|gb|EEI23646.1| 30S ribosomal protein S1 [Lactobacillus hilgardii ATCC 8290]
          Length = 413

 Score = 40.8 bits (95), Expect = 0.57,   Method: Composition-based stats.
 Identities = 28/133 (21%), Positives = 52/133 (39%), Gaps = 23/133 (17%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             + P+    +    A   I+Q  +  ER++         G+I+ G V R+      VDL
Sbjct: 165 IEIDPVANRLILSHKA---ILQAQKAEEREKLMDTL--HEGDIVEGKVARLTNFGAFVDL 219

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLF 212
           G  DG++   +          + L+ G  VK  +  V  ++   ++ LS           
Sbjct: 220 GGMDGLVHVSQIAYERVEKPSDVLKVGQEVKVKVLSVDFDRN--RISLS----------I 267

Query: 213 HMEVPEIYNGIVQ 225
              +PE ++GI +
Sbjct: 268 KQTLPEPWDGIEE 280



 Score = 37.4 bits (86), Expect = 5.8,   Method: Composition-based stats.
 Identities = 26/128 (20%), Positives = 53/128 (41%), Gaps = 15/128 (11%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGR-VAVQSAKQVIIQKVREAERDRQYLE 133
           +  QI+ +        + +G  V   +  +DF R     S KQ + +     E       
Sbjct: 227 HVSQIAYERVEKPSDVLKVGQEVKVKVLSVDFDRNRISLSIKQTLPEPWDGIEE------ 280

Query: 134 FKDKVGEIISGTVKR-VEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYI 186
            K   G ++ GTVKR V++G  +      +G++   +          + L+ G+++K  +
Sbjct: 281 -KAPAGSVLEGTVKRLVDFGAFVEVFPGVEGLVHISQIAHEHIATPGDVLKVGEKIKVKV 339

Query: 187 YDVRREQR 194
            DV  +++
Sbjct: 340 LDVDPDRK 347


>gi|159897034|ref|YP_001543281.1| RNA-binding S1 domain-containing protein [Herpetosiphon aurantiacus
           ATCC 23779]
 gi|159890073|gb|ABX03153.1| RNA binding S1 domain protein [Herpetosiphon aurantiacus ATCC
           23779]
          Length = 415

 Score = 40.8 bits (95), Expect = 0.57,   Method: Composition-based stats.
 Identities = 23/91 (25%), Positives = 44/91 (48%), Gaps = 8/91 (8%)

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------S 172
           +Q+VR++ +D+   + +   G + +G V  +      VD+G +DG++   E         
Sbjct: 216 VQEVRDSRKDQLLEKLEP--GAVRTGRVTSLCDFGAFVDIGGADGLVHLSELSWSRVKHP 273

Query: 173 RENLRPGDRVKSYIYDVRREQRGPQVLLSRT 203
            E L+ GD V  YI  V  +++   + + RT
Sbjct: 274 EEVLKVGDAVSVYILSVDEDKKRIALSIKRT 304


>gi|297466747|ref|XP_002704678.1| PREDICTED: helicase, POLQ-like [Bos taurus]
          Length = 1075

 Score = 40.8 bits (95), Expect = 0.57,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 28/71 (39%), Gaps = 1/71 (1%)

Query: 362  FMQAINVDEIIAHLLVAEGFADVEELACVKISEIA-SIEGFDEETAVEIQGRAREYLEGI 420
             M+   V E  A  L   G+  +  LA      +  +I+      A +I   A+  L   
Sbjct: 987  LMEVTGVLEGRARQLYNAGYKSLTHLANANPEVLIRTIDHLSRRQAKQIVSSAKMLLHEK 1046

Query: 421  DITLQKKIREL 431
               LQ+++ EL
Sbjct: 1047 AEALQEEVEEL 1057


>gi|325290134|ref|YP_004266315.1| RNA binding S1 domain protein [Syntrophobotulus glycolicus DSM
           8271]
 gi|324965535|gb|ADY56314.1| RNA binding S1 domain protein [Syntrophobotulus glycolicus DSM
           8271]
          Length = 281

 Score = 40.8 bits (95), Expect = 0.58,   Method: Composition-based stats.
 Identities = 16/60 (26%), Positives = 35/60 (58%), Gaps = 4/60 (6%)

Query: 137 KVGEIISGTVKRVEYG-NVIVDLGNS-DGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           + G++++GTV ++       V + ++  G+I R E    +NLR GD++++ +  VR + +
Sbjct: 148 QKGDMVAGTVYQIRREIGAFVAVDHTYKGLIPRSEL--YQNLRNGDQIRARVLRVREDGK 205


>gi|307352867|ref|YP_003893918.1| DNA repair and recombination protein RadA [Methanoplanus
           petrolearius DSM 11571]
 gi|307156100|gb|ADN35480.1| DNA repair and recombination protein RadA [Methanoplanus
           petrolearius DSM 11571]
          Length = 323

 Score = 40.8 bits (95), Expect = 0.58,   Method: Composition-based stats.
 Identities = 12/52 (23%), Positives = 22/52 (42%)

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
               V    A  L   G++ +E +A    +++A      E TA ++   AR+
Sbjct: 8   DLPGVGPTTADKLREAGYSTIEGIATASYADLAEAAEIGESTAKKMIREARK 59


>gi|283780187|ref|YP_003370942.1| 30S ribosomal protein S1 [Pirellula staleyi DSM 6068]
 gi|283438640|gb|ADB17082.1| ribosomal protein S1 [Pirellula staleyi DSM 6068]
          Length = 600

 Score = 40.8 bits (95), Expect = 0.58,   Method: Composition-based stats.
 Identities = 23/61 (37%), Positives = 31/61 (50%), Gaps = 2/61 (3%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISREN-LRPGDRVKSYIYDVRREQRG 195
           V +I+ G V RV  G V+VD+G  S+G I  DE    E   + G  V+  I D+  E   
Sbjct: 43  VNKIVEGRVLRVADGMVLVDIGFKSEGSIPLDEWEEGEEPPQVGQLVRVLIEDLEDETAA 102

Query: 196 P 196
           P
Sbjct: 103 P 103



 Score = 40.4 bits (94), Expect = 0.65,   Method: Composition-based stats.
 Identities = 24/121 (19%), Positives = 50/121 (41%), Gaps = 12/121 (9%)

Query: 86  DRDPSIDIGGVVSDPLPPM----DFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEI 141
           D     DIG  +   +       D  R  +  +++ +I++ RE +R+    E +  +G++
Sbjct: 164 DIRRPADIGDYIGRTVQCEVLKIDEARRNIVVSRRSLIERQREEDREALLKELE--IGQV 221

Query: 142 ISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRG 195
             G VK +      VDLG  DG++   +          E +     ++  +  + RE++ 
Sbjct: 222 RKGVVKNIAEFGAFVDLGGIDGLLHITDMSWERIGHPSEMVAIDQEIEVMVLHIDREKKK 281

Query: 196 P 196
            
Sbjct: 282 I 282



 Score = 38.1 bits (88), Expect = 4.0,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 33/72 (45%), Gaps = 6/72 (8%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRV----KSYIYDVRRE 192
           K G++++GTV R   G ++VD+   +  +   +   R     GD +    +  +  +   
Sbjct: 130 KEGQVVTGTVSRKIKGGLLVDIEGVNVFLPASQVDIRRPADIGDYIGRTVQCEVLKIDEA 189

Query: 193 QRGPQVLLSRTH 204
           +R   +++SR  
Sbjct: 190 RRN--IVVSRRS 199


>gi|110635932|ref|YP_676140.1| 30S ribosomal protein S1 [Mesorhizobium sp. BNC1]
 gi|110286916|gb|ABG64975.1| SSU ribosomal protein S1P [Chelativorans sp. BNC1]
          Length = 569

 Score = 40.8 bits (95), Expect = 0.58,   Method: Composition-based stats.
 Identities = 34/191 (17%), Positives = 69/191 (36%), Gaps = 29/191 (15%)

Query: 25  DVVLSVMADSIQKA------ARS---------LYGTMSDIR-VEINPETGDISLFRLLEV 68
           +V +  + +++ +A      AR           +     +  V  N   G  ++     V
Sbjct: 75  EVYVERIENALGEAMLSREKARREESWTKLEEKFNKGERVEGVIFNQVKGGFTVDLDGAV 134

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                    Q+ ++  RD  P +         +  MD  R  +  +++ ++++ R  +R 
Sbjct: 135 A---FLPRSQVDIRPIRDVSPLMHTPQP--FEILKMDKRRGNIVVSRRTVLEESRAEQRS 189

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRV 182
                 +   G+++ G VK +      VDLG  DG++   +          E L  G  V
Sbjct: 190 EIVQNLE--EGQVVEGVVKNITDYGAFVDLGGIDGLLHVTDMAWRRVNHPTEILNIGQTV 247

Query: 183 KSYIYDVRREQ 193
           K  I  + +E 
Sbjct: 248 KVQIIRINQET 258


>gi|332880545|ref|ZP_08448219.1| 30S ribosomal protein S1 [Capnocytophaga sp. oral taxon 329 str.
           F0087]
 gi|332681533|gb|EGJ54456.1| 30S ribosomal protein S1 [Capnocytophaga sp. oral taxon 329 str.
           F0087]
          Length = 597

 Score = 40.8 bits (95), Expect = 0.58,   Method: Composition-based stats.
 Identities = 28/82 (34%), Positives = 45/82 (54%), Gaps = 6/82 (7%)

Query: 123 REAERDRQYLEFKDKV--GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPG 179
           REA+    Y    +KV   E++ GTV  +    V+V++G  SDG+I   E     +L+ G
Sbjct: 29  REAQEKA-YEGSLNKVNDHEVVDGTVIAMNKREVVVNIGFKSDGIIPMSEFRYNPDLKVG 87

Query: 180 DRVKSYIYDVRREQRGPQVLLS 201
           D+V+ YI    +E +  Q++LS
Sbjct: 88  DKVEVYIE--NQEDKKGQLILS 107



 Score = 37.4 bits (86), Expect = 5.7,   Method: Composition-based stats.
 Identities = 33/134 (24%), Positives = 59/134 (44%), Gaps = 18/134 (13%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK--VREAERD 128
           E      QI +K  RD D  + +G  +   +  ++      Q  K V++    + EAE +
Sbjct: 150 EAFLPGSQIDVKPIRDYD--VFVGKTMEFKVVKIN------QEFKNVVVSHKALIEAELE 201

Query: 129 RQYLEFKDK--VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGD 180
           +Q  E   K   G+++ GTVK +    V +DLG  DG+I   +         +E ++   
Sbjct: 202 QQKKEIISKLEKGQVLEGTVKNITSYGVFIDLGGVDGLIHITDLSWGRVSDPKEVVQLDQ 261

Query: 181 RVKSYIYDVRREQR 194
           ++   I D   E++
Sbjct: 262 KINVVILDFDDEKK 275


>gi|254466274|ref|ZP_05079685.1| hypothetical protein RBY4I_2882 [Rhodobacterales bacterium Y4I]
 gi|206687182|gb|EDZ47664.1| hypothetical protein RBY4I_2882 [Rhodobacterales bacterium Y4I]
          Length = 187

 Score = 40.8 bits (95), Expect = 0.58,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 22/53 (41%)

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG 419
            V  ++A LL   G   VE+LA +  + +  I G     A  +   A E  + 
Sbjct: 9   GVGPVLAKLLKDHGVRSVEDLAGMDDAGLRGIPGIGASRAAALTALAGEAADT 61


>gi|89053212|ref|YP_508663.1| 30S ribosomal protein S1 [Jannaschia sp. CCS1]
 gi|88862761|gb|ABD53638.1| SSU ribosomal protein S1P [Jannaschia sp. CCS1]
          Length = 558

 Score = 40.8 bits (95), Expect = 0.58,   Method: Composition-based stats.
 Identities = 23/101 (22%), Positives = 44/101 (43%), Gaps = 8/101 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD  R  +  +++ I+++ R  +R     +     G+++ G VK +      VDL
Sbjct: 158 FQILKMDRRRGNIVVSRRAILEESRAEQRAEVIGKLN--EGDVVDGVVKNITEYGAFVDL 215

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   +         +E L  G+ VK  +  V +E 
Sbjct: 216 GGVDGLLHVTDMAWRRVNDPKEILTIGETVKVQVIKVNKET 256


>gi|314933453|ref|ZP_07840818.1| polyribonucleotide nucleotidyltransferase [Staphylococcus caprae
           C87]
 gi|313653603|gb|EFS17360.1| polyribonucleotide nucleotidyltransferase [Staphylococcus caprae
           C87]
          Length = 699

 Score = 40.8 bits (95), Expect = 0.59,   Method: Composition-based stats.
 Identities = 23/110 (20%), Positives = 44/110 (40%), Gaps = 10/110 (9%)

Query: 92  DIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEY 151
           +I       L     G + + +  Q +I + +E   D        +VG++ +  VKR+E 
Sbjct: 582 EIIDETGVKLDIEQDGTIFIGAVDQAMINRAKEIIEDITRE---AEVGQVYNAKVKRIEK 638

Query: 152 GNVIVDLGNSDGVIRRDETISREN-------LRPGDRVKSYIYDVRREQR 194
               V+L      +     IS+E        L  GD ++  I ++ ++ R
Sbjct: 639 YGAFVELFPGKDALLHISQISKERINKVEDVLNIGDSIEVKITEIDKQGR 688


>gi|313127204|ref|YP_004037474.1| DNA polymerase iv (family x) [Halogeometricum borinquense DSM
           11551]
 gi|312293569|gb|ADQ68029.1| DNA polymerase IV (family X) [Halogeometricum borinquense DSM
           11551]
          Length = 582

 Score = 40.8 bits (95), Expect = 0.59,   Method: Composition-based stats.
 Identities = 22/89 (24%), Positives = 40/89 (44%), Gaps = 7/89 (7%)

Query: 384 VEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSE--ELCSIP 441
           +EELA      +  I+G  +  + +I     EY E  +I   + +R     E   L S+ 
Sbjct: 44  IEELAADGADAVGEIQGVGDAISAKII----EYFETGEIEELEALRAELPVEMATLTSVE 99

Query: 442 GIDSKIKVALGEN-GIKTMEDLAGCSVDD 469
           G+  K    L +  GI T+++L   + ++
Sbjct: 100 GVGPKTVGKLYDALGITTLDELERAAEEE 128


>gi|306820879|ref|ZP_07454499.1| possible ribosomal protein S1 [Eubacterium yurii subsp. margaretiae
           ATCC 43715]
 gi|304550993|gb|EFM38964.1| possible ribosomal protein S1 [Eubacterium yurii subsp. margaretiae
           ATCC 43715]
          Length = 372

 Score = 40.8 bits (95), Expect = 0.59,   Method: Composition-based stats.
 Identities = 21/78 (26%), Positives = 38/78 (48%), Gaps = 5/78 (6%)

Query: 125 AERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVK 183
           AE+D  Y E     G ++ GTV   +     +DL   +DG + + E    E++  GD+V+
Sbjct: 11  AEQDNNYQEI--YKGTVVEGTVILEKDDAFYIDLQYKTDGYLPKSEVFEDEDIHVGDKVR 68

Query: 184 SYIYDVRREQRGPQVLLS 201
            ++  V +      ++LS
Sbjct: 69  LFVIKVDKNNGD--IVLS 84


>gi|15806371|ref|NP_295077.1| excinuclease ABC subunit C [Deinococcus radiodurans R1]
 gi|81551289|sp|Q9RUN0|UVRC_DEIRA RecName: Full=UvrABC system protein C; Short=Protein uvrC; AltName:
           Full=Excinuclease ABC subunit C
 gi|6459106|gb|AAF10924.1|AE001981_9 excinuclease ABC, subunit C [Deinococcus radiodurans R1]
          Length = 617

 Score = 40.8 bits (95), Expect = 0.59,   Method: Composition-based stats.
 Identities = 15/92 (16%), Positives = 32/92 (34%), Gaps = 5/92 (5%)

Query: 333 QLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKI 392
            L G   ++         + +        F     + +     L+   F  +E+LA   +
Sbjct: 526 MLIGVRDEVHNYAVSYHRKLRGEGMLRSVFDDLPGIGQKRRDALLEH-FTSLEDLAAAPV 584

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
             IA++ G     A  +    +E+L+  +  L
Sbjct: 585 EHIAAVPGMTLRAAQSV----KEFLQAREAQL 612


>gi|320101396|ref|YP_004176988.1| DNA repair and recombination protein RadA [Desulfurococcus mucosus
           DSM 2162]
 gi|319753748|gb|ADV65506.1| DNA repair and recombination protein RadA [Desulfurococcus mucosus
           DSM 2162]
          Length = 329

 Score = 40.8 bits (95), Expect = 0.60,   Method: Composition-based stats.
 Identities = 19/103 (18%), Positives = 38/103 (36%), Gaps = 8/103 (7%)

Query: 345 EEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEE 404
           EE +  +Q++F            V   IA  L A G+     +   +  E+A   G    
Sbjct: 6   EEKNSRQQQEFITVRSL----PGVGSAIADKLEAAGYVSAWSIVVARPEELAEKTGLPVL 61

Query: 405 TAVEIQGRAREYL----EGIDITLQKKIRELGVSEELCSIPGI 443
           T  ++   AR+ L    +      Q+++    ++    S+  +
Sbjct: 62  TVQKVIEAARKALGITFKTAREVKQERLNIRKITTGSRSLDEL 104


>gi|291060005|gb|ADD72740.1| DNA ligase, NAD-dependent [Treponema pallidum subsp. pallidum str.
           Chicago]
          Length = 840

 Score = 40.8 bits (95), Expect = 0.60,   Method: Composition-based stats.
 Identities = 14/81 (17%), Positives = 29/81 (35%), Gaps = 6/81 (7%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAINVD---EIIAHLLVAEGFADVEELACVKISEIASIE 399
           T ++             Q F+    ++   E +   L+  GF  +E++       + SI 
Sbjct: 483 TAKKILEAIHHKKEIALQTFIAGFGIEGIGETMGEKLICAGFDTLEKVLHATTETLESIY 542

Query: 400 GFDEETAVEI---QGRAREYL 417
            F  E A  +     R ++ +
Sbjct: 543 QFGTELAKSVVTGIARVKDDM 563


>gi|15639622|ref|NP_219072.1| DNA ligase (lig) [Treponema pallidum subsp. pallidum str. Nichols]
 gi|189025860|ref|YP_001933632.1| DNA ligase [Treponema pallidum subsp. pallidum SS14]
 gi|6014987|sp|O83642|DNLJ_TREPA RecName: Full=DNA ligase; AltName: Full=Polydeoxyribonucleotide
           synthase [NAD+]
 gi|254781445|sp|B2S3M4|DNLJ_TREPS RecName: Full=DNA ligase; AltName: Full=Polydeoxyribonucleotide
           synthase [NAD+]
 gi|3322933|gb|AAC65609.1| DNA ligase (lig) [Treponema pallidum subsp. pallidum str. Nichols]
 gi|189018435|gb|ACD71053.1| DNA ligase [Treponema pallidum subsp. pallidum SS14]
          Length = 823

 Score = 40.8 bits (95), Expect = 0.60,   Method: Composition-based stats.
 Identities = 14/81 (17%), Positives = 29/81 (35%), Gaps = 6/81 (7%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAINVD---EIIAHLLVAEGFADVEELACVKISEIASIE 399
           T ++             Q F+    ++   E +   L+  GF  +E++       + SI 
Sbjct: 466 TAKKILEAIHHKKEIALQTFIAGFGIEGIGETMGEKLICAGFDTLEKVLHATTETLESIY 525

Query: 400 GFDEETAVEI---QGRAREYL 417
            F  E A  +     R ++ +
Sbjct: 526 QFGTELAKSVVTGIARVKDDM 546


>gi|317177805|dbj|BAJ55594.1| 30S ribosomal protein S1 [Helicobacter pylori F16]
          Length = 552

 Score = 40.8 bits (95), Expect = 0.60,   Method: Composition-based stats.
 Identities = 24/119 (20%), Positives = 42/119 (35%), Gaps = 15/119 (12%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           +  DP I          P + + +   Q   Q I  K+ E   +            II G
Sbjct: 74  QKNDPIIVHVSE-KGEHPSVSYKKAISQ---QKIQAKIEELGEN--------YENAIIEG 121

Query: 145 TVKRVEYGNVIVDLGNSDGVIRRDET-ISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            +     G  IV+    +  + R  + +  +    G R+K+ I  V +E     + +SR
Sbjct: 122 KIVGKNKGGYIVESQGVEYFLSRSHSSLKNDTNHIGKRIKACIIRVDKENH--SINISR 178


>gi|297673894|ref|XP_002814981.1| PREDICTED: LOW QUALITY PROTEIN: helicase POLQ-like [Pongo abelii]
          Length = 1100

 Score = 40.8 bits (95), Expect = 0.61,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 28/71 (39%), Gaps = 1/71 (1%)

Query: 362  FMQAINVDEIIAHLLVAEGFADVEELACVKISEIA-SIEGFDEETAVEIQGRAREYLEGI 420
             M+   V E  A  L + G+  +  LA      +  +I+      A  I   A+  L   
Sbjct: 1012 LMEVTGVLEGRAKQLYSAGYKSLMHLANANPEVLVRTIDHLSRRQAKRIVSSAKMLLHEK 1071

Query: 421  DITLQKKIREL 431
               LQ+++ EL
Sbjct: 1072 AEALQEEVEEL 1082


>gi|269115047|ref|YP_003302810.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma hominis]
 gi|268322672|emb|CAX37407.1| DNA-directed RNA polymerase alpha chain [Mycoplasma hominis ATCC
           23114]
          Length = 344

 Score = 40.8 bits (95), Expect = 0.61,   Method: Composition-based stats.
 Identities = 17/90 (18%), Positives = 42/90 (46%), Gaps = 1/90 (1%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
           D    + +   +    +  +N+     + L   GF +V+E+  +   E+++I+   +++ 
Sbjct: 254 DDQKEKHEKTPKVSVSIDKLNLTIRSLNALRRAGFNNVDEIMKLSDEELSNIKNLGKKSV 313

Query: 407 VEIQGRAREYLEGIDITLQKKIRELGVSEE 436
            +I  R RE+L+   +  +   +E   +EE
Sbjct: 314 QDIIDRRREWLDSQ-LNNEDSNKEYAANEE 342


>gi|322419070|ref|YP_004198293.1| hypothetical protein GM18_1551 [Geobacter sp. M18]
 gi|320125457|gb|ADW13017.1| hypothetical protein GM18_1551 [Geobacter sp. M18]
          Length = 173

 Score = 40.8 bits (95), Expect = 0.61,   Method: Composition-based stats.
 Identities = 11/78 (14%), Positives = 27/78 (34%)

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              R     Q   +  +++  L   G    +++A      +A I G        I  +A+
Sbjct: 1   METRPSNLQQIKGIGRVLSMRLHEAGLDSFKKIAEADQEVLAKIRGITHRNLNPILEQAK 60

Query: 415 EYLEGIDITLQKKIRELG 432
           E+        ++++  + 
Sbjct: 61  EFASAAPEAGKERLEAMK 78


>gi|296124359|ref|YP_003632137.1| hypothetical protein Plim_4127 [Planctomyces limnophilus DSM 3776]
 gi|296016699|gb|ADG69938.1| hypothetical protein Plim_4127 [Planctomyces limnophilus DSM 3776]
          Length = 1053

 Score = 40.8 bits (95), Expect = 0.61,   Method: Composition-based stats.
 Identities = 23/126 (18%), Positives = 40/126 (31%), Gaps = 18/126 (14%)

Query: 340 DIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIE 399
           D+  E+  +     +     +   Q   V E +   L  EGF          + E+ + +
Sbjct: 375 DMTPEDMQAALDNLEVQLPPEAASQLGAVPEGLLQTLKIEGF---------PLDELLAAQ 425

Query: 400 G---FDEE---TAVEIQGRAREYLEGIDITLQKKIRELGVS---EELCSIPGIDSKIKVA 450
           G      E       +    RE LE   +     + EL      ++L  I G+   +  A
Sbjct: 426 GALGITPEQLGEIEALLTSYREELEREGLLDFASLGELADEALLKDLAEIEGMSEYLAFA 485

Query: 451 LGENGI 456
                I
Sbjct: 486 AACRSI 491


>gi|119173930|ref|XP_001239326.1| hypothetical protein CIMG_08947 [Coccidioides immitis RS]
          Length = 366

 Score = 40.8 bits (95), Expect = 0.61,   Method: Composition-based stats.
 Identities = 12/41 (29%), Positives = 19/41 (46%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
             LL+  G+  VE +A      +  I+G  E+ A +I   A
Sbjct: 56  IKLLIDGGYHTVEAVAYTPKRMLEQIKGISEQKAAKILAEA 96


>gi|157820041|ref|NP_001100437.1| hypothetical protein LOC302773 [Rattus norvegicus]
 gi|149055472|gb|EDM07056.1| similar to Vigilin (High density lipoprotein-binding protein)
           (predicted) [Rattus norvegicus]
          Length = 1250

 Score = 40.8 bits (95), Expect = 0.61,   Method: Composition-based stats.
 Identities = 31/144 (21%), Positives = 56/144 (38%), Gaps = 28/144 (19%)

Query: 255 VGMRGSRVQAVVTELRD---------EKIDIV-----VW-SPDSATFVINALRPAIVTKV 299
           +G +G RV+ +  +  D         EK DIV      + S   A ++ N L        
Sbjct: 510 IGQKGERVREICKKFPDVILNFPHPAEKSDIVQLIGPRYESEKCAQYLENMLT------- 562

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE----EEDSINRQKDF 355
            + E+   I + + K+     IG+   N++  S+ T   I    E    EE  I    + 
Sbjct: 563 DIKENNYSISISIIKKLHKRLIGKGASNIKKISETTNTKISFPPENCNSEEFIITGYPEN 622

Query: 356 NERTQFFMQAINVDEIIAHLLVAE 379
            E  + ++  +++ + IA     E
Sbjct: 623 CEIARNWI--LSIQQEIADTAEEE 644


>gi|6116772|dbj|BAA85760.1| UVR-C protein [Deinococcus radiodurans]
          Length = 610

 Score = 40.8 bits (95), Expect = 0.61,   Method: Composition-based stats.
 Identities = 15/92 (16%), Positives = 32/92 (34%), Gaps = 5/92 (5%)

Query: 333 QLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKI 392
            L G   ++         + +        F     + +     L+   F  +E+LA   +
Sbjct: 519 MLIGVRDEVHNYAVSYHRKLRGEGMLRSVFDDLPGIGQKRRDALLEH-FTSLEDLAAAPV 577

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
             IA++ G     A  +    +E+L+  +  L
Sbjct: 578 EHIAAVPGMTLRAAQSV----KEFLQAREAQL 605


>gi|125987739|sp|Q1XDE2|RR1_PORYE RecName: Full=30S ribosomal protein S1, chloroplastic
          Length = 263

 Score = 40.8 bits (95), Expect = 0.61,   Method: Composition-based stats.
 Identities = 20/74 (27%), Positives = 35/74 (47%), Gaps = 10/74 (13%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDE-------TISRENLRPGDRVKSYIYDVR 190
           VG II G + ++    + + +GN  G++   E        IS    + GD +K+ I  V 
Sbjct: 191 VGNIIEGIINQITPYGLFIKVGNLKGLVHISEINIKNLEQISS-QFKIGDTIKAVIIHVD 249

Query: 191 REQRGPQVLLSRTH 204
           ++Q   ++ LS  H
Sbjct: 250 KKQG--RLSLSMKH 261


>gi|15790649|ref|NP_280473.1| 50S ribosomal protein L32e [Halobacterium sp. NRC-1]
 gi|169236388|ref|YP_001689588.1| 50S ribosomal protein L32e [Halobacterium salinarum R1]
 gi|13431823|sp|Q9HPB7|RL32_HALSA RecName: Full=50S ribosomal protein L32e; AltName: Full=HL5
 gi|10581176|gb|AAG19953.1| 50S ribosomal protein L32E [Halobacterium sp. NRC-1]
 gi|167727454|emb|CAP14242.1| ribosomal protein L32.eR [Halobacterium salinarum R1]
          Length = 239

 Score = 40.8 bits (95), Expect = 0.61,   Method: Composition-based stats.
 Identities = 18/85 (21%), Positives = 31/85 (36%), Gaps = 2/85 (2%)

Query: 352 QKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
             D N+  +       V    A  L   GF  V ++     SE+A  +G     A  I  
Sbjct: 1   MSDENDTPEELADISGVGPSKAEALAEAGFESVADVQAADQSELAEADGIGNALAARI-- 58

Query: 412 RAREYLEGIDITLQKKIRELGVSEE 436
           +A      ++     ++ E+G  +E
Sbjct: 59  KADVGGLEVEADTDAEVEEVGGDDE 83


>gi|283798175|ref|ZP_06347328.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Clostridium sp.
           M62/1]
 gi|291074158|gb|EFE11522.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Clostridium sp.
           M62/1]
 gi|295091663|emb|CBK77770.1| Ribosomal protein S1 [Clostridium cf. saccharolyticum K10]
          Length = 375

 Score = 40.8 bits (95), Expect = 0.62,   Method: Composition-based stats.
 Identities = 34/150 (22%), Positives = 63/150 (42%), Gaps = 19/150 (12%)

Query: 69  VEEVENYTCQIS---LKVARDRDPSIDIGGVVSD---PLPPMDFGRVAVQSAKQVIIQKV 122
           V EVE     I    +    D+D S   G  +        P       +   +Q++++K 
Sbjct: 125 VVEVEGTRVFIPASMVSDTYDKDLSKYAGQEIEFVITEFNPSGRRSRIIGDRRQLLMEK- 183

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENL 176
           + A +   +   + +VG+ + G VK V      +DLG +DG++   E         ++  
Sbjct: 184 KAAMQKELFE--RIEVGQTVEGVVKNVTDFGAFIDLGGADGLLHISEMSWGRVENPKKVF 241

Query: 177 RPGDRVKSYIYDVRREQRGPQVLLSRTHPQ 206
           + G+ VK+ I D+     G ++ LS   P+
Sbjct: 242 KVGETVKALIKDI----NGEKIALSLKFPE 267


>gi|254419951|ref|ZP_05033675.1| ribosomal protein S1 [Brevundimonas sp. BAL3]
 gi|196186128|gb|EDX81104.1| ribosomal protein S1 [Brevundimonas sp. BAL3]
          Length = 567

 Score = 40.8 bits (95), Expect = 0.62,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 29/58 (50%), Gaps = 4/58 (6%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISREN---LRPGDRVKSYIYDVRR 191
            G+++ G V  +E   VI+D+G  ++G I   E    E+    + GD V+ Y+  V  
Sbjct: 27  EGQVVHGRVVGIEKDIVIIDVGLKTEGRISMREFGQGEDAKLPKVGDNVEVYLERVEN 84



 Score = 38.9 bits (90), Expect = 2.3,   Method: Composition-based stats.
 Identities = 28/125 (22%), Positives = 51/125 (40%), Gaps = 10/125 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ ++  RD  P   +G      +  MD  R  +  +++ I+++ R  +R     + 
Sbjct: 139 PGSQVDIRPVRDVGPL--MGKEQPFQILKMDRPRGNIVVSRRAILEEARAEQRTELVGQL 196

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
             + GE+  G VK +      VDLG  DG++   +          + L  GD VK  I  
Sbjct: 197 --QEGEVREGVVKNITDYGAFVDLGGIDGLLHVTDMSWKRVSHPSQVLAVGDTVKVQIVK 254

Query: 189 VRREQ 193
           +  + 
Sbjct: 255 INPDT 259


>gi|194209009|ref|XP_001494572.2| PREDICTED: similar to DNA helicase HEL308 [Equus caballus]
          Length = 1122

 Score = 40.8 bits (95), Expect = 0.62,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 29/71 (40%), Gaps = 1/71 (1%)

Query: 362  FMQAINVDEIIAHLLVAEGFADVEELACVKISEIA-SIEGFDEETAVEIQGRAREYLEGI 420
             M+   V E  A  L + G+  +  LA      +  +I+      A +I   A+  L   
Sbjct: 1031 LMEVTGVLEARAKQLYSAGYKSLMHLANANPEVLIRTIDHLSRRQAKQIVSSAKMLLHEK 1090

Query: 421  DITLQKKIREL 431
               L++++ EL
Sbjct: 1091 AEALREEVEEL 1101


>gi|261403651|ref|YP_003247875.1| phosphoesterase RecJ domain protein [Methanocaldococcus vulcanius
           M7]
 gi|261370644|gb|ACX73393.1| phosphoesterase RecJ domain protein [Methanocaldococcus vulcanius
           M7]
          Length = 763

 Score = 40.8 bits (95), Expect = 0.62,   Method: Composition-based stats.
 Identities = 28/100 (28%), Positives = 46/100 (46%), Gaps = 15/100 (15%)

Query: 139 GEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISR--ENLRPGDRVKSYIYDVRREQRG 195
           G+   GTV R+E     ++L +   G++R  + IS   ENL  GD +     DVR E+R 
Sbjct: 135 GKFYKGTVTRIEKYGAFINLNDQVRGLLRPRDMISLRLENLNVGDEIIVQAMDVRPEKRE 194

Query: 196 P---QVLLSRTHPQFMVKLFHMEVP-----EIYNGIVQVK 227
                + LS      +   F  EVP     +I   +++++
Sbjct: 195 IDFKYIPLS--TYDLVE--FEKEVPLTTIKDISQNLIEMR 230


>gi|254526566|ref|ZP_05138618.1| RNA binding S1 [Prochlorococcus marinus str. MIT 9202]
 gi|221537990|gb|EEE40443.1| RNA binding S1 [Prochlorococcus marinus str. MIT 9202]
          Length = 401

 Score = 40.8 bits (95), Expect = 0.62,   Method: Composition-based stats.
 Identities = 21/92 (22%), Positives = 40/92 (43%), Gaps = 4/92 (4%)

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR--PGDRVKSYIYDVRRE 192
             K GE+I+  +     G +  D+    G I R +    ++ +   G  +K    +V  E
Sbjct: 213 SAKNGELINVLINGFNRGGLTCDVDGLRGFIPRSQLEDGQDYQSFVGKTLKVAFLEVNPE 272

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
            R  +++LS      + KL  +E+ ++  G V
Sbjct: 273 SR--KLVLSEKKASLVSKLTSLELGQLIEGEV 302


>gi|187933110|ref|YP_001884760.1| 30S ribosomal protein S1 [Clostridium botulinum B str. Eklund 17B]
 gi|187721263|gb|ACD22484.1| putative 30S ribosomal protein S1 homolog [Clostridium botulinum B
           str. Eklund 17B]
          Length = 378

 Score = 40.8 bits (95), Expect = 0.62,   Method: Composition-based stats.
 Identities = 30/151 (19%), Positives = 62/151 (41%), Gaps = 12/151 (7%)

Query: 80  SLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVG 139
           SL      D S      +   +  +DF    V ++++ I  +  E  R   +   K   G
Sbjct: 136 SLASRNMIDLSALKNTELEVRIIELDFRNNKVVASRKAIENEEYEKNRKVIWNSLK--EG 193

Query: 140 EIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           E  +G VK++      VD+G  +G++   +          E ++  D+V+ YI  +  E+
Sbjct: 194 EKRTGVVKKLVKYGAFVDIGGVEGLVHISDLSWNRVNRPEEVVKENDKVEVYIGSIDVEK 253

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           +   ++L         + + +   EI +G++
Sbjct: 254 QKLSLVL----KDINKEPWTLHTNEIKSGMI 280


>gi|74002142|ref|XP_544959.2| PREDICTED: similar to DNA helicase HEL308 [Canis familiaris]
          Length = 1072

 Score = 40.8 bits (95), Expect = 0.62,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 28/71 (39%), Gaps = 1/71 (1%)

Query: 362  FMQAINVDEIIAHLLVAEGFADVEELACVKISEIA-SIEGFDEETAVEIQGRAREYLEGI 420
             M+   V E  A  L   G+  +  LA      +  +I+      A ++   A+  L   
Sbjct: 985  LMEVTGVLEGRAKQLYNAGYKSLTHLANANPEVLIRTIDHLSRHQAKQMVSSAKMLLHEK 1044

Query: 421  DITLQKKIREL 431
               LQ+++ EL
Sbjct: 1045 AEALQEEVEEL 1055


>gi|15669060|ref|NP_247864.1| DNA repair and recombination protein RadA [Methanocaldococcus
           jannaschii DSM 2661]
 gi|2500109|sp|Q49593|RADA_METJA RecName: Full=DNA repair and recombination protein radA
 gi|1378034|gb|AAC44122.1| RadA [Methanocaldococcus jannaschii]
 gi|1591553|gb|AAB98875.1| DNA repair protein RAD51 (radA) [Methanocaldococcus jannaschii DSM
           2661]
          Length = 352

 Score = 40.8 bits (95), Expect = 0.63,   Method: Composition-based stats.
 Identities = 12/50 (24%), Positives = 18/50 (36%)

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEE 404
                    Q   V    A  L   G+ D  ++A   I E+  I+G  E+
Sbjct: 29  MVIIMDDLTQLPGVGPTTAEKLKEAGYTDFMKIATASIGELTEIDGISEK 78


>gi|331268721|ref|YP_004395213.1| rpsA [Clostridium botulinum BKT015925]
 gi|329125271|gb|AEB75216.1| rpsA [Clostridium botulinum BKT015925]
          Length = 387

 Score = 40.8 bits (95), Expect = 0.63,   Method: Composition-based stats.
 Identities = 30/133 (22%), Positives = 60/133 (45%), Gaps = 12/133 (9%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              QIS+   +D    ++   V+   +   D  +  V  + + +  K R+ ++++     
Sbjct: 141 PASQISISFVKDLTSFVEK--VLKVKVIEFDEKKNKVVLSGKEVELKERQNKKEKVLDSL 198

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           K+  GE  +G V+R+      VDLG  DG+I   +          E ++ GD+V+ Y+  
Sbjct: 199 KN--GEKRTGIVRRLAKFGAFVDLGGVDGLIHNSDLSWKRVNDPSEVVKVGDKVEVYVLK 256

Query: 189 VRREQRGPQVLLS 201
             +E+   ++ LS
Sbjct: 257 FDKEKG--KIALS 267


>gi|149198742|ref|ZP_01875785.1| 30S ribosomal protein S1 [Lentisphaera araneosa HTCC2155]
 gi|149138178|gb|EDM26588.1| 30S ribosomal protein S1 [Lentisphaera araneosa HTCC2155]
          Length = 463

 Score = 40.4 bits (94), Expect = 0.64,   Method: Composition-based stats.
 Identities = 34/128 (26%), Positives = 59/128 (46%), Gaps = 12/128 (9%)

Query: 80  SLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVG 139
           S   +R  D S+ +G   S  +  +D  R AV S ++  ++ + E +R++   E     G
Sbjct: 142 SQMDSRPGDASLYLGQTFSFLITKID-DRGAVVS-RRDYLKILAEKQREKLQEELV--EG 197

Query: 140 EIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           + I G ++R+E     VDLG  DG++   E          E +  GD+V   I  +  E+
Sbjct: 198 DEIEGVIRRIERFGFFVDLGGVDGLVPASEVSWKRNVDLNEFVSVGDQVSCKILALDWEK 257

Query: 194 RGPQVLLS 201
              ++ LS
Sbjct: 258 G--RITLS 263


>gi|126540735|emb|CAM45953.1| RAD51 homolog (S. cerevisiae) [Mus musculus]
          Length = 178

 Score = 40.4 bits (94), Expect = 0.64,   Method: Composition-based stats.
 Identities = 13/64 (20%), Positives = 27/64 (42%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
           D+   ++ F  +    ++   ++      L   G+  VE +A     E+ +I+G  E  A
Sbjct: 12  DTSVEEESFGPQPISRLEQCGINANDVKKLEEAGYHTVEAVAYAPKKELINIKGISEAKA 71

Query: 407 VEIQ 410
            +I 
Sbjct: 72  DKIL 75


>gi|307718783|ref|YP_003874315.1| 30S ribosomal protein S1 [Spirochaeta thermophila DSM 6192]
 gi|306532508|gb|ADN02042.1| 30S ribosomal protein S1 [Spirochaeta thermophila DSM 6192]
          Length = 800

 Score = 40.4 bits (94), Expect = 0.64,   Method: Composition-based stats.
 Identities = 23/121 (19%), Positives = 49/121 (40%), Gaps = 18/121 (14%)

Query: 91  IDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVE 150
              G  +   +  +D  R  +Q      I+++ E         F    G  I   V R E
Sbjct: 647 FQPGQEIEFCITRIDKRRRRIQIG----IKQLSEDPWKALAKAFP--EGSEIETKVLRKE 700

Query: 151 YGNVIVDL-GNSDGVIRRDETIS---------RENLRPGDRVKSYIYDVRREQRGPQVLL 200
              ++V++ G  +G I   +            R+ L+ GD +++ + +++  +R  +++L
Sbjct: 701 PQGIVVEVQGGIEGFIPNRQLCDPAVESPETVRDRLKEGDTIRALVLELKPSKR--RLIL 758

Query: 201 S 201
           S
Sbjct: 759 S 759



 Score = 37.7 bits (87), Expect = 4.5,   Method: Composition-based stats.
 Identities = 20/71 (28%), Positives = 36/71 (50%), Gaps = 8/71 (11%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
           K G+I+ G VK        +DLG  DG++   +         ++ ++ G++V+  I  + 
Sbjct: 428 KEGDIVEGVVKSFAPFGAFIDLGGFDGLLHLQDMSWGRAVRPKDYVKKGEKVRVKIIKMD 487

Query: 191 REQRGPQVLLS 201
           REQ+  +V LS
Sbjct: 488 REQQ--KVNLS 496


>gi|170580792|ref|XP_001895410.1| KH domain containing protein [Brugia malayi]
 gi|158597654|gb|EDP35742.1| KH domain containing protein [Brugia malayi]
          Length = 439

 Score = 40.4 bits (94), Expect = 0.64,   Method: Composition-based stats.
 Identities = 37/217 (17%), Positives = 72/217 (33%), Gaps = 56/217 (25%)

Query: 213 HMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELR-- 270
              V E  + +VQVK +   P +               VGA +G  G  ++ + +E    
Sbjct: 23  KAHVSETEDNMVQVKVL--IPSA--------------AVGALIGKGGETMRNLKSESGCR 66

Query: 271 -------------DEKI--------------DIVVWSPDSATFVINALRPAIVTKVVLDE 303
                        +E+I              D+++        V N   P+ +      E
Sbjct: 67  LQMSKNQEVYPGTNERICLVKGKIASVLKVSDVIL--EKIREKVDNN-TPSDIFDHKGME 123

Query: 304 DVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFM 363
               ++++VP     + IG+ G  ++   + TG  I +  +      +       T    
Sbjct: 124 RKNEMKLVVPNTSAGMVIGKSGARIKEIREQTGANIQVYPKAGSQEAKVSQERIITIAAE 183

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEG 400
           Q    DE++   L       +E++A      +A+I  
Sbjct: 184 Q----DEVLMDALQRV----LEKVAADPQHAMATIPD 212


>gi|126695894|ref|YP_001090780.1| 30S ribosomal protein S1-like protein B, putative Nbp1
           [Prochlorococcus marinus str. MIT 9301]
 gi|126542937|gb|ABO17179.1| 30S ribosomal protein S1-like protein B, putative Nbp1
           [Prochlorococcus marinus str. MIT 9301]
          Length = 401

 Score = 40.4 bits (94), Expect = 0.64,   Method: Composition-based stats.
 Identities = 21/92 (22%), Positives = 40/92 (43%), Gaps = 4/92 (4%)

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR--PGDRVKSYIYDVRRE 192
             K GE+I+  +     G +  D+    G I R +    ++ +   G  +K    +V  E
Sbjct: 213 SAKNGELINVLINGFNRGGLTCDVDGLRGFIPRSQLEDGQDYQSFVGKTLKVAFLEVNPE 272

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
            R  +++LS      + KL  +E+ ++  G V
Sbjct: 273 SR--KLVLSEKKASLVSKLTSLELGQLIEGEV 302


>gi|227498498|ref|ZP_03928644.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Acidaminococcus
           sp. D21]
 gi|226903956|gb|EEH89874.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Acidaminococcus
           sp. D21]
          Length = 680

 Score = 40.4 bits (94), Expect = 0.65,   Method: Composition-based stats.
 Identities = 27/134 (20%), Positives = 51/134 (38%), Gaps = 15/134 (11%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
           +  +IS   +        +G  V   +  +D  +  +  + + + +   +A         
Sbjct: 516 HISEISWDRSVKPADLYKVGDKVEVYIKGLDAEKGRISLSVKALQEDPWQAAAKNI---- 571

Query: 135 KDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETI------SRENLRPGDRVKSYIY 187
              VG+I++GTV R      IV L   ++G+I   E          + L  G  VK  + 
Sbjct: 572 --HVGDIVTGTVLRFLPFGAIVKLNDKNEGMIHISEISEQRIEKPEDVLEVGQEVKVKVL 629

Query: 188 DVRREQRGPQVLLS 201
            V  E +  ++ LS
Sbjct: 630 RVDTEHK--KIALS 641


>gi|254780456|ref|YP_003064869.1| 30S ribosomal protein S1 [Candidatus Liberibacter asiaticus str.
           psy62]
 gi|254040133|gb|ACT56929.1| 30S ribosomal protein S1 [Candidatus Liberibacter asiaticus str.
           psy62]
          Length = 576

 Score = 40.4 bits (94), Expect = 0.65,   Method: Composition-based stats.
 Identities = 37/185 (20%), Positives = 73/185 (39%), Gaps = 23/185 (12%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIR-VEINPETGDISLFRLLEVVEEVEN 74
            + +K++ R+ V   +           +     I  V  N   G +++    EV      
Sbjct: 90  FSRDKAL-REGVWEKIEA--------KFRAGERIEGVIFNQVKGGMTVDLNGEVA---FL 137

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              QI ++  RD  P +    +    +  MD  R  +  +++ ++++ R  +R     + 
Sbjct: 138 PRSQIDIRPVRDVTPLMHEPQL--FEILKMDKRRGNIVVSRRAVLEESRAEQRSEIVQKL 195

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           +   G++I GTVK +    V VDL   DG++   +          + L  G +VK  I  
Sbjct: 196 E--EGQVIEGTVKNITDYGVFVDLSGVDGLLHVTDIAWHRILHPSKVLSIGQQVKVKIIR 253

Query: 189 VRREQ 193
           + +E 
Sbjct: 254 INQET 258


>gi|303318132|ref|XP_003069067.1| DNA repair protein rhp51, putative [Coccidioides posadasii C735
           delta SOWgp]
 gi|240108750|gb|EER26922.1| DNA repair protein rhp51, putative [Coccidioides posadasii C735
           delta SOWgp]
 gi|320037268|gb|EFW19206.1| DNA repair protein RAD51 [Coccidioides posadasii str. Silveira]
          Length = 348

 Score = 40.4 bits (94), Expect = 0.66,   Method: Composition-based stats.
 Identities = 12/41 (29%), Positives = 19/41 (46%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
             LL+  G+  VE +A      +  I+G  E+ A +I   A
Sbjct: 38  IKLLIDGGYHTVEAVAYTPKRMLEQIKGISEQKAAKILAEA 78


>gi|149410744|ref|XP_001509890.1| PREDICTED: similar to DNA polymerase beta [Ornithorhynchus
           anatinus]
          Length = 347

 Score = 40.4 bits (94), Expect = 0.66,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   ++G   + A +I     E+L    +   +KIR+         L  + GI      
Sbjct: 154 AEAKKLDGVGAKIAEKI----DEFLSTGKLRKLEKIRQDDTGSSINFLTRVSGIGPSAAR 209

Query: 450 ALGENGIKTMEDL 462
            L + GIKT+EDL
Sbjct: 210 KLVDEGIKTLEDL 222


>gi|301098091|ref|XP_002898139.1| DNA repair protein RAD51 [Phytophthora infestans T30-4]
 gi|262105500|gb|EEY63552.1| DNA repair protein RAD51 [Phytophthora infestans T30-4]
          Length = 338

 Score = 40.4 bits (94), Expect = 0.67,   Method: Composition-based stats.
 Identities = 14/91 (15%), Positives = 34/91 (37%), Gaps = 3/91 (3%)

Query: 344 EEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
           E +  +   +    R    ++   ++    + L   G   V+ +A     ++  I+G  E
Sbjct: 9   EMDMGVEEHEMQGPRLVNILEQAGINATDVNKLKDAGMHTVDAVAMATKKQLVGIKGISE 68

Query: 404 ETAVEIQGRAREYLE---GIDITLQKKIREL 431
             A ++   ARE +         + +  ++L
Sbjct: 69  VKAEKMLKAAREMVNVGFTTAADVLESRKDL 99


>gi|291614518|ref|YP_003524675.1| ribosomal protein S1 [Sideroxydans lithotrophicus ES-1]
 gi|291584630|gb|ADE12288.1| ribosomal protein S1 [Sideroxydans lithotrophicus ES-1]
          Length = 568

 Score = 40.4 bits (94), Expect = 0.67,   Method: Composition-based stats.
 Identities = 22/71 (30%), Positives = 38/71 (53%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G +++G VK ++  G VI   G+ +  ++  E  +      R +L+ GD VK+ I +V 
Sbjct: 455 KGAVVTGVVKSLDAKGAVIGLDGDVEAYLKASEVSADRVEDIRNHLKEGDTVKAVIINVD 514

Query: 191 REQRGPQVLLS 201
           R+ RG  + LS
Sbjct: 515 RKNRG--INLS 523



 Score = 37.4 bits (86), Expect = 6.8,   Method: Composition-based stats.
 Identities = 24/105 (22%), Positives = 45/105 (42%), Gaps = 8/105 (7%)

Query: 96  VVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI 155
            +   +  +D  R  V  +++ +++  + A+R+      K   G I+ G VK +      
Sbjct: 156 TMELKVIKLDRKRNNVVVSRRAVLEASQGADRESLLENLK--EGAIVKGIVKNITDYGAF 213

Query: 156 VDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           VDLG  DG++   +          E L  GD V++ I    +E+ 
Sbjct: 214 VDLGGIDGLLHITDLAWRRVKHPSEVLTVGDEVEAKILKFDQEKN 258


>gi|218295448|ref|ZP_03496261.1| PHP domain protein [Thermus aquaticus Y51MC23]
 gi|218244080|gb|EED10606.1| PHP domain protein [Thermus aquaticus Y51MC23]
          Length = 575

 Score = 40.4 bits (94), Expect = 0.67,   Method: Composition-based stats.
 Identities = 25/117 (21%), Positives = 44/117 (37%), Gaps = 9/117 (7%)

Query: 384 VEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSE--ELCSIP 441
           +EE+A      +  + G   + A +I     E+L    +   +++         E+  +P
Sbjct: 44  IEEIAKKGKEALLELPGIGPDLADKIL----EFLATGRVKKHEELSGKVPRGVLEVMEVP 99

Query: 442 GIDSKIKVALGEN-GIKTMEDLAG-CSVDDLLGWSENKGGNIEKF-DGFLSSLGTPK 495
           G+  K    L E  GI ++E L       DLL          E+  +G L +    K
Sbjct: 100 GVGPKTARGLYEALGIDSLEKLKEALERGDLLRLKGFGAKKAERIKEGLLLAQAASK 156


>gi|166031925|ref|ZP_02234754.1| hypothetical protein DORFOR_01626 [Dorea formicigenerans ATCC
           27755]
 gi|166028378|gb|EDR47135.1| hypothetical protein DORFOR_01626 [Dorea formicigenerans ATCC
           27755]
          Length = 359

 Score = 40.4 bits (94), Expect = 0.67,   Method: Composition-based stats.
 Identities = 26/145 (17%), Positives = 57/145 (39%), Gaps = 12/145 (8%)

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+E   +     +    ++D S      +   +   +  R  V   ++ ++   +  ++
Sbjct: 125 VVDEARVFIPASLVSDTYEKDLSKYQDQEIEFVISEFNPRRNRVIGDRRQLLVAEKAEKQ 184

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDR 181
              + +    VG+ + G VK V      +DLG  DG++   E         ++  + GD 
Sbjct: 185 KELFEKL--HVGDTVEGVVKNVTDFGAFIDLGGVDGLLHISEMSWGRVENPKKVFKVGDE 242

Query: 182 VKSYIYDVRREQRGPQVLLSRTHPQ 206
           +K  + D+       ++ LS   P+
Sbjct: 243 LKVLVKDIHDT----KIALSLKFPE 263


>gi|326693831|ref|ZP_08230836.1| DNA ligase, NAD-dependent [Leuconostoc argentinum KCTC 3773]
          Length = 681

 Score = 40.4 bits (94), Expect = 0.67,   Method: Composition-based stats.
 Identities = 20/65 (30%), Positives = 29/65 (44%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
            +I + K+ +     F   I +    A  LVAE F  +  +A   + EIASI+G  E  A
Sbjct: 504 AAITQSKENSLERLLFGLGIRLVGAKAARLVAEKFKTLSAIAEATVPEIASIDGIGEAIA 563

Query: 407 VEIQG 411
             I  
Sbjct: 564 QSIVQ 568


>gi|332233399|ref|XP_003265889.1| PREDICTED: helicase POLQ [Nomascus leucogenys]
          Length = 1101

 Score = 40.4 bits (94), Expect = 0.68,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 29/71 (40%), Gaps = 1/71 (1%)

Query: 362  FMQAINVDEIIAHLLVAEGFADVEELACVKISEIA-SIEGFDEETAVEIQGRAREYLEGI 420
             M+   V E  A  L + G+  +  LA      +  +I+      A +I   A+  L   
Sbjct: 1013 LMEVTGVLEGRAKQLHSAGYKSLMHLANANPEVLVRTIDHLSRRQAKQIVSSAKMLLHEK 1072

Query: 421  DITLQKKIREL 431
               LQ+++ EL
Sbjct: 1073 AEALQEEVEEL 1083


>gi|317969606|ref|ZP_07970996.1| small subunit ribosomal protein S1 [Synechococcus sp. CB0205]
          Length = 448

 Score = 40.4 bits (94), Expect = 0.68,   Method: Composition-based stats.
 Identities = 22/96 (22%), Positives = 41/96 (42%), Gaps = 7/96 (7%)

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR--PGDRVKSYIYDVRREQ 193
           +K G++I   V    +G +  D+    G + R +    EN     G  +     +V  + 
Sbjct: 260 EKEGKVIQVKVNGFNHGGITCDVEGLRGFVPRSQLQEGENHEALVGKTLGVAFLEVNPDT 319

Query: 194 RGPQVLLSRTHPQFMVKLFH-MEVPEIYNG-IVQVK 227
           R  +++LS         LF  +EV ++  G +V +K
Sbjct: 320 R--KLVLSEKKAA-TAALFQNLEVGQLVEGQVVAIK 352



 Score = 40.4 bits (94), Expect = 0.73,   Method: Composition-based stats.
 Identities = 17/64 (26%), Positives = 29/64 (45%), Gaps = 7/64 (10%)

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDE------TISRENLRPGDRVKS 184
            +F    GE+++GTV  +E   V VD+ G + G + + E      T  +E    G  V+ 
Sbjct: 169 QDFVGTTGEVVTGTVIGMESDGVYVDIGGKAPGFMPKKECALGVITNLKERFPKGLTVEV 228

Query: 185 YIYD 188
            +  
Sbjct: 229 LVTR 232


>gi|319790655|ref|YP_004152288.1| RNA binding S1 domain protein [Thermovibrio ammonificans HB-1]
 gi|317115157|gb|ADU97647.1| RNA binding S1 domain protein [Thermovibrio ammonificans HB-1]
          Length = 339

 Score = 40.4 bits (94), Expect = 0.68,   Method: Composition-based stats.
 Identities = 22/73 (30%), Positives = 34/73 (46%), Gaps = 4/73 (5%)

Query: 123 REAERDRQYLE-FKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGD 180
            E E  +   E FK    E+I+GTV +V    V VD G  S+GV+   E       + GD
Sbjct: 1   MEGEFAKLLEESFKKLNQEVITGTVVKVTDREVFVDFGWKSEGVVPVKEL--GYKPKVGD 58

Query: 181 RVKSYIYDVRREQ 193
           ++   + +   E+
Sbjct: 59  KIDVCVVEPETEE 71


>gi|298735946|ref|YP_003728471.1| 30S ribosomal protein S1 [Helicobacter pylori B8]
 gi|298355135|emb|CBI66007.1| small subunit ribosomal protein S1 [Helicobacter pylori B8]
          Length = 556

 Score = 40.4 bits (94), Expect = 0.68,   Method: Composition-based stats.
 Identities = 23/119 (19%), Positives = 42/119 (35%), Gaps = 15/119 (12%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           +  DP +          P + + +   Q   Q I  K+ E   +            II G
Sbjct: 78  QKNDPIVVHVSE-KGEHPSVSYKKAISQ---QKIQAKIEELGEN--------YENAIIEG 125

Query: 145 TVKRVEYGNVIVDLGNSDGVIRRDET-ISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            +     G  IV+    +  + R  + +  +    G R+K+ I  V +E     + +SR
Sbjct: 126 KIVGKNKGGYIVESQGVEYFLSRSHSSLKNDANHIGKRIKACIIRVDKENH--SINISR 182


>gi|289705499|ref|ZP_06501891.1| 30S ribosomal protein S1 [Micrococcus luteus SK58]
 gi|289557728|gb|EFD51027.1| 30S ribosomal protein S1 [Micrococcus luteus SK58]
          Length = 485

 Score = 40.4 bits (94), Expect = 0.68,   Method: Composition-based stats.
 Identities = 23/94 (24%), Positives = 49/94 (52%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++ GTV +V+   V++D+G  ++GVI   E          E +  GD V++ +    +
Sbjct: 35  GDLVEGTVVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPDEVVAVGDTVEALVL--TK 92

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  +++LS+   Q+      +E  +  +G+V+
Sbjct: 93  EDKEGRLILSKKRAQYERAWGDIEKIKEEDGVVE 126


>gi|258597225|ref|XP_001347762.2| Rad51 homolog [Plasmodium falciparum 3D7]
 gi|25991345|gb|AAN76809.1|AF452489_1 recombinase Rad51 [Plasmodium falciparum]
 gi|254832605|gb|AAN35675.2| Rad51 homolog [Plasmodium falciparum 3D7]
          Length = 350

 Score = 40.4 bits (94), Expect = 0.68,   Method: Composition-based stats.
 Identities = 19/78 (24%), Positives = 33/78 (42%), Gaps = 6/78 (7%)

Query: 338 TIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIAS 397
           TID I EE+      K      + F++          LL   G   VE +A   +  + +
Sbjct: 19  TIDEIEEEQLYTGPLKIEQLLAKGFVKRD------LELLKEGGLQTVECVAYAPMRTLCA 72

Query: 398 IEGFDEETAVEIQGRARE 415
           I+G  E+ A +++   +E
Sbjct: 73  IKGISEQKAEKLKKACKE 90


>gi|126179709|ref|YP_001047674.1| phosphotransferase domain-containing protein [Methanoculleus
           marisnigri JR1]
 gi|125862503|gb|ABN57692.1| PHP C-terminal domain protein [Methanoculleus marisnigri JR1]
          Length = 576

 Score = 40.4 bits (94), Expect = 0.69,   Method: Composition-based stats.
 Identities = 31/105 (29%), Positives = 47/105 (44%), Gaps = 12/105 (11%)

Query: 385 EELACVKIS-EIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVS--EELCSIP 441
           E +A V    ++  I G  +  A +I    RE LE   +     +RE      + L  + 
Sbjct: 47  ENVADVAREGDLDEIPGVGKGIAKKI----REILETGSLGYLSSLREELPEGVQHLTRLE 102

Query: 442 GIDSKIKVALG-ENGIKTMEDLAGCS----VDDLLGWSENKGGNI 481
           GI  K  +AL  E GI+T++DL   +    + DL G+ E    NI
Sbjct: 103 GIGPKKAIALSRELGIRTVDDLEAKALAGRIRDLPGFGEKTEANI 147


>gi|262341079|ref|YP_003283934.1| 30S ribosomal protein S1 [Blattabacterium sp. (Blattella germanica)
           str. Bge]
 gi|262272416|gb|ACY40324.1| 30S ribosomal protein S1 [Blattabacterium sp. (Blattella germanica)
           str. Bge]
          Length = 605

 Score = 40.4 bits (94), Expect = 0.69,   Method: Composition-based stats.
 Identities = 27/142 (19%), Positives = 54/142 (38%), Gaps = 14/142 (9%)

Query: 67  EVVE----EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
            +VE    E       I++K  RD D  +     V   +      +  V S K +I + +
Sbjct: 161 LIVEIFDIECFLPGSHINVKPVRDYDTYVGKTMEVKV-VKINQKTKNVVVSHKVLIERDI 219

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENL 176
            E  ++      K   G+++ G +K +      VDLG  D ++   +          E +
Sbjct: 220 EEQRKEMI---SKLDKGQVLEGKIKNILPYGAFVDLGGVDALLHITDMSWPHINHPTEVV 276

Query: 177 RPGDRVKSYIYDVRREQRGPQV 198
           +    +K  +  V +++   Q+
Sbjct: 277 QLEQELKFVVLGVDKDKNRVQL 298


>gi|242024497|ref|XP_002432664.1| mitochondrial 28S ribosomal protein S28, putative [Pediculus
           humanus corporis]
 gi|212518134|gb|EEB19926.1| mitochondrial 28S ribosomal protein S28, putative [Pediculus
           humanus corporis]
          Length = 183

 Score = 40.4 bits (94), Expect = 0.69,   Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 32/68 (47%)

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYI 186
           R+ ++++  D  G+I+ GT+  V   ++ +D G     + +      E   PG +V+  I
Sbjct: 80  RNSKFMQLGDPEGKIVIGTIYHVMDNDLYIDFGWKFPTVCQKPQKFSEQYYPGVKVRLLI 139

Query: 187 YDVRREQR 194
            D+    +
Sbjct: 140 KDLELSTK 147


>gi|207109156|ref|ZP_03243318.1| transcription elongation factor NusA [Helicobacter pylori
           HPKX_438_CA4C1]
          Length = 93

 Score = 40.4 bits (94), Expect = 0.69,   Method: Composition-based stats.
 Identities = 21/94 (22%), Positives = 46/94 (48%), Gaps = 7/94 (7%)

Query: 23  DRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVE-----NYTC 77
            ++++  V+   + K A++    ++   V    E   + L +L+EV+E+ +     + + 
Sbjct: 2   PKEMISKVIQGCLLKMAQNELDPLARYLVV--EENKQLQLIQLVEVLEDNDERLINDPSK 59

Query: 78  QISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAV 111
            ISL  A++ DPS+ I   +S  L   +  + A+
Sbjct: 60  YISLSKAKEMDPSVKIKDELSYSLSLENMKQGAI 93


>gi|103486980|ref|YP_616541.1| 30S ribosomal protein S1 [Sphingopyxis alaskensis RB2256]
 gi|98977057|gb|ABF53208.1| SSU ribosomal protein S1P [Sphingopyxis alaskensis RB2256]
          Length = 570

 Score = 40.4 bits (94), Expect = 0.69,   Method: Composition-based stats.
 Identities = 30/125 (24%), Positives = 53/125 (42%), Gaps = 10/125 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ ++  RD  P +D+       +  MD  R  +  +++ I+++ R  +R       
Sbjct: 140 PGSQVDIRPVRDVGPLMDLPQP--FQILKMDRRRGNIVVSRRAILEETRAEQRSGLIQNL 197

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           +   G+II G VK +      VDLG  DG++   +          E +  GD VK  I  
Sbjct: 198 E--EGQIIEGAVKNITDYGAFVDLGGIDGLLHVTDMSYKRVNHPSEIINIGDTVKVQIIR 255

Query: 189 VRREQ 193
           + R+ 
Sbjct: 256 INRDT 260



 Score = 40.0 bits (93), Expect = 1.0,   Method: Composition-based stats.
 Identities = 19/69 (27%), Positives = 34/69 (49%), Gaps = 6/69 (8%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDE-TISREN--LRPGDRVKSYIYDVRREQ 193
            G ++ GTV  +E    ++D+G  S+G +   E  +  +   L+ GD V+ Y+  V    
Sbjct: 28  EGRVVKGTVTAIENDLAVIDIGLKSEGRVPLREFAMPGQKADLKVGDEVEVYVDRVENAN 87

Query: 194 RGPQVLLSR 202
              + +LSR
Sbjct: 88  G--ETMLSR 94


>gi|260891275|ref|ZP_05902538.1| ribosomal protein S1 [Leptotrichia hofstadii F0254]
 gi|260858951|gb|EEX73451.1| ribosomal protein S1 [Leptotrichia hofstadii F0254]
          Length = 600

 Score = 40.4 bits (94), Expect = 0.70,   Method: Composition-based stats.
 Identities = 31/151 (20%), Positives = 60/151 (39%), Gaps = 19/151 (12%)

Query: 59  DISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMD-FGRVAVQSAKQV 117
           D  +F  LE   EV  +  + S    R       +G  V   +  +D   +    S KQ 
Sbjct: 439 DYGIFVELEKGIEVFIHKNEFSWD--RKEHKEYKVGDEVEFKIIVVDKLAKKLSGSIKQ- 495

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETIS---- 172
               + ++       ++K   G I++  +  ++   V+V L    +G+I + E       
Sbjct: 496 ----LEKSPWKEVTEQYK--KGNIVNTEIVEIQENFVLVKLTDRFNGIIPKRELAEEFLK 549

Query: 173 --RENLRPGDRVKSYIYDVRREQRGPQVLLS 201
              E    GD+V++ I D+  +++   + LS
Sbjct: 550 DISEKFSVGDKVEAVITDINDKRK--SIALS 578


>gi|258592125|emb|CBE68430.1| 30S ribosomal subunit protein S1 [NC10 bacterium 'Dutch sediment']
          Length = 577

 Score = 40.4 bits (94), Expect = 0.71,   Method: Composition-based stats.
 Identities = 22/69 (31%), Positives = 34/69 (49%), Gaps = 6/69 (8%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDE-TISRENL--RPGDRVKSYIYDVRREQ 193
            GEI+ GTV  +    V++D+G  S+G I   E       L  + GD V  Y+   + + 
Sbjct: 44  EGEIVRGTVLEIRNDMVLIDIGYKSEGAIPIKEFQAPSGELTVKVGDTVDVYLEQ-KEDS 102

Query: 194 RGPQVLLSR 202
            G  ++LSR
Sbjct: 103 DGL-IVLSR 110



 Score = 37.0 bits (85), Expect = 9.1,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 24/60 (40%), Gaps = 6/60 (10%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
            G+II G VK +      +DLG  DG++   +          E    GD ++  +    R
Sbjct: 214 EGKIIRGKVKNITEYGAFIDLGGLDGLLHITDMSWGRVGHPSELFTVGDEIEVVVLKFDR 273


>gi|258648127|ref|ZP_05735596.1| ribosomal protein S1 [Prevotella tannerae ATCC 51259]
 gi|260852006|gb|EEX71875.1| ribosomal protein S1 [Prevotella tannerae ATCC 51259]
          Length = 590

 Score = 40.4 bits (94), Expect = 0.71,   Method: Composition-based stats.
 Identities = 20/74 (27%), Positives = 36/74 (48%), Gaps = 3/74 (4%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
             +++ GTV  +    V+V +G  SDG++   E      L+ GD+V+ YI    +E +  
Sbjct: 45  ENDVVEGTVISINKREVVVSIGFKSDGIVPVSEFRYNPELQVGDKVEVYIE--NQEDKKG 102

Query: 197 QVLLSRTHPQFMVK 210
           Q++LS    +    
Sbjct: 103 QLVLSHKKARLSKA 116


>gi|118792630|ref|XP_320427.3| AGAP012103-PA [Anopheles gambiae str. PEST]
 gi|116116989|gb|EAA00333.3| AGAP012103-PA [Anopheles gambiae str. PEST]
          Length = 494

 Score = 40.4 bits (94), Expect = 0.71,   Method: Composition-based stats.
 Identities = 28/121 (23%), Positives = 48/121 (39%), Gaps = 40/121 (33%)

Query: 249 DPVGACVGMRGSRVQAVV-----------------TELRDE-KIDIV-----VWSPDSAT 285
           + VGA +G +G  ++ ++                  E + E K+ I+      W    A 
Sbjct: 291 NAVGAIIGTKGLHIRNIIRFSGASVKIAPLEADKPQEQQTERKVTIIGTPEAQW---KAQ 347

Query: 286 FVINALRPAIVTKVV-------LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWT 338
           ++I         K+         D+    +E+ VP  Q+   IG+ GQNVR   ++TG  
Sbjct: 348 YLI-------FEKMREEGFVSGTDDVRLTVEIFVPSAQVGRIIGKGGQNVRELQRVTGSI 400

Query: 339 I 339
           I
Sbjct: 401 I 401


>gi|112984536|ref|NP_001037484.1| Rad51 homolog [Bombyx mori]
 gi|2058709|gb|AAB53330.1| Rad51 homolog [Bombyx mori]
          Length = 338

 Score = 40.4 bits (94), Expect = 0.71,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 21/53 (39%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           ++   +       L   G+  VE +A      + +I+G  E  A +I   A +
Sbjct: 27  LEGNGITSGDIKKLEEAGYHTVESVAYAPKKWLITIKGISEAKADKILAEASK 79


>gi|320166818|gb|EFW43717.1| hypothetical protein CAOG_01761 [Capsaspora owczarzaki ATCC 30864]
          Length = 1852

 Score = 40.4 bits (94), Expect = 0.71,   Method: Composition-based stats.
 Identities = 22/127 (17%), Positives = 47/127 (37%), Gaps = 23/127 (18%)

Query: 344 EEEDSINRQKDFNERTQFFMQAIN---VDEIIAHLLVAEGFADVE--------------- 385
           EE        + +   Q  M+  +   VDE  A    + GF  ++               
Sbjct: 255 EESHGHQDTAEADGAAQMEMEREDAMAVDEETAGSAASGGFLSLQQLVNLRGEVARIRKA 314

Query: 386 ----ELACVKISEIASIEGFDEETAVEI-QGRAREYLEGIDITLQKKIRELGVSEELCSI 440
               E+    I  + +I G   E A+E+      + +E +  T+ + +    ++ ++ + 
Sbjct: 315 DRLAEVQQADILRLMAILGKHTELALELDLNEEDDDVEQLADTVIQSLTAAAITMDILTT 374

Query: 441 PGIDSKI 447
           PG+  +I
Sbjct: 375 PGMPRQI 381


>gi|328699990|ref|XP_001949079.2| PREDICTED: vigilin-like [Acyrthosiphon pisum]
          Length = 1414

 Score = 40.4 bits (94), Expect = 0.72,   Method: Composition-based stats.
 Identities = 35/165 (21%), Positives = 65/165 (39%), Gaps = 20/165 (12%)

Query: 255 VGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIE----- 309
           +G  GS ++ ++    +EK+  V +S D+   V     P  +   V+D     IE     
Sbjct: 380 IGKNGSNLRELIE--DNEKVH-VEFSDDNKIIVE---GPTNMIPKVIDSLKKAIECYVST 433

Query: 310 -VIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI-ITEEEDSINRQKDFNERTQFFMQAIN 367
            ++V  +     IG+ G N+      TG  I+I  ++   +I R +   +  +     + 
Sbjct: 434 ELVVDPKFFKHIIGKNGSNINRVKNDTGVIINISESDNNSNIIRIEGRKDGVELAKSEL- 492

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGR 412
             E + + L  E    VE+   +      +I G   E   E+Q  
Sbjct: 493 --EEMIYKLENE----VEKEISIDQRHHRAIIGVKGEKVRELQEA 531


>gi|297588239|ref|ZP_06946882.1| DNA ligase (NAD(+)) [Finegoldia magna ATCC 53516]
 gi|297573612|gb|EFH92333.1| DNA ligase (NAD(+)) [Finegoldia magna ATCC 53516]
          Length = 662

 Score = 40.4 bits (94), Expect = 0.73,   Method: Composition-based stats.
 Identities = 26/133 (19%), Positives = 49/133 (36%), Gaps = 12/133 (9%)

Query: 363 MQAINVDEIIAHLLVAE-GFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           M    + E    +L+ +     +EE+  VK  ++  +EGF E+ +  +     +     +
Sbjct: 444 MNIDGLSEKTLKVLLEKLNITSIEEIYDVKKEQLMQLEGFKEKKSQNLINAIEK---SKN 500

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           + L   I  LG       IP I  K    L +   K+ ++L     D+L+   +      
Sbjct: 501 VDLANFIFALG-------IPEIGEKTSFELAQK-YKSFDNLREAKFDELIQIEDIGNVIA 552

Query: 482 EKFDGFLSSLGTP 494
           E+   F       
Sbjct: 553 EEIVEFFHDETIS 565


>gi|169843884|ref|XP_001828666.1| Rah1 [Coprinopsis cinerea okayama7#130]
 gi|3237296|gb|AAC23703.1| Rah1 [Coprinopsis cinerea]
 gi|116510275|gb|EAU93170.1| Rah1 [Coprinopsis cinerea okayama7#130]
          Length = 343

 Score = 40.4 bits (94), Expect = 0.73,   Method: Composition-based stats.
 Identities = 13/70 (18%), Positives = 23/70 (32%)

Query: 346 EDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEET 405
           E      +         +Q   +       L   G   VE +A      + +I G  E+ 
Sbjct: 12  EGDEEDYQFSGPLLVNKLQEAGIHANDIKKLADAGLNTVEAVAFTPKKNLLAIRGISEQK 71

Query: 406 AVEIQGRARE 415
           A +I   A++
Sbjct: 72  ADKILAEAQK 81


>gi|328859161|gb|EGG08271.1| hypothetical protein MELLADRAFT_105250 [Melampsora larici-populina
           98AG31]
          Length = 122

 Score = 40.4 bits (94), Expect = 0.74,   Method: Composition-based stats.
 Identities = 15/69 (21%), Positives = 26/69 (37%)

Query: 344 EEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
           EEE+  N+ +         +            L+  G   VE +A      + +I+G  E
Sbjct: 17  EEEEDQNQAQASGPIPIAALAEHGFSSSDIQKLITAGNDTVEAIAYQPRKSLIAIKGISE 76

Query: 404 ETAVEIQGR 412
             A ++Q R
Sbjct: 77  AKADKLQFR 85


>gi|251772978|gb|EES53535.1| ribosomal protein S1 [Leptospirillum ferrodiazotrophum]
          Length = 505

 Score = 40.4 bits (94), Expect = 0.74,   Method: Composition-based stats.
 Identities = 25/125 (20%), Positives = 53/125 (42%), Gaps = 10/125 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              QI L+  RD D  +  G  +   +  M+  R  +  +++V++++ R+  +       
Sbjct: 110 PGSQIDLRPVRDMDRLV--GQPIQVRIIKMNKKRGNIIVSRRVLLEEWRDRRKKLTMESL 167

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDET------ISRENLRPGDRVKSYIYD 188
           K   GE++ G VK +      +DLG  DG++   +         +  +  GD++   +  
Sbjct: 168 K--EGEVLEGIVKNITDYGAFIDLGGVDGLLHITDMSWGRVSSPQNLMAVGDKINVMVLK 225

Query: 189 VRREQ 193
             +E 
Sbjct: 226 HDKET 230


>gi|225559662|gb|EEH07944.1| conserved hypothetical protein [Ajellomyces capsulatus G186AR]
 gi|325089671|gb|EGC42981.1| uvsC [Ajellomyces capsulatus H88]
          Length = 348

 Score = 40.4 bits (94), Expect = 0.74,   Method: Composition-based stats.
 Identities = 16/81 (19%), Positives = 33/81 (40%), Gaps = 7/81 (8%)

Query: 342 ITEEEDSINRQKDFN----ERTQFFMQAINVDEIIA---HLLVAEGFADVEELACVKISE 394
           +T E++S N  ++                 V+ + A    L++  G+  +E +A      
Sbjct: 1   MTVEDESQNEYEENGLAGPGAPTPLTALEGVNGLTARDIKLVIDGGYHTIESVAYTPKRM 60

Query: 395 IASIEGFDEETAVEIQGRARE 415
           +  I+G  E+ A +I   A +
Sbjct: 61  LEQIKGISEQKATKILAEASK 81


>gi|312126567|ref|YP_003991441.1| RNA binding S1 domain-containing protein [Caldicellulosiruptor
           hydrothermalis 108]
 gi|311776586|gb|ADQ06072.1| RNA binding S1 domain protein [Caldicellulosiruptor hydrothermalis
           108]
          Length = 255

 Score = 40.4 bits (94), Expect = 0.74,   Method: Composition-based stats.
 Identities = 20/115 (17%), Positives = 47/115 (40%), Gaps = 14/115 (12%)

Query: 76  TCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
             ++ L+          +G ++   +   + GR  +   K   ++K R+  +++      
Sbjct: 54  EAELGLQEQVKNKADALLGALIEFVVVAQENGRFYISRVK--AMEKRRKIWQEKI----- 106

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
            K G+I+ G V  V   N  +++   +  +  +E +       R + +  DRVK+
Sbjct: 107 -KEGDIVEGRVTGVTPRNAFIEVLGYEFALPAEEMLWNYTNDLRRHFKIADRVKA 160


>gi|87199343|ref|YP_496600.1| 30S ribosomal protein S1 [Novosphingobium aromaticivorans DSM
           12444]
 gi|87135024|gb|ABD25766.1| SSU ribosomal protein S1P [Novosphingobium aromaticivorans DSM
           12444]
          Length = 566

 Score = 40.4 bits (94), Expect = 0.74,   Method: Composition-based stats.
 Identities = 18/63 (28%), Positives = 28/63 (44%), Gaps = 6/63 (9%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
           K G+II G VK +      VDLG  DG++   +          E +  GD V+  I  + 
Sbjct: 197 KEGQIIDGVVKNITDYGAFVDLGGIDGLLHVTDMSYKRVNHPSEVIAIGDTVRVQIIRIN 256

Query: 191 REQ 193
           ++ 
Sbjct: 257 QDT 259


>gi|237743636|ref|ZP_04574117.1| LytB protein [Fusobacterium sp. 7_1]
 gi|229432667|gb|EEO42879.1| LytB protein [Fusobacterium sp. 7_1]
          Length = 827

 Score = 40.4 bits (94), Expect = 0.75,   Method: Composition-based stats.
 Identities = 25/120 (20%), Positives = 53/120 (44%), Gaps = 13/120 (10%)

Query: 86  DRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGT 145
           +  P  +IG  V   +  +D     ++ + +     +R++  +    E+K  VG  +   
Sbjct: 686 EETPKFEIGNEVELKITELDLNNKKIKGSLKA----LRKSPWEHVLEEYK--VGTTVEKK 739

Query: 146 VKRV-EYGNVIVDLGNSDGVIR----RDETIS--RENLRPGDRVKSYIYDVRREQRGPQV 198
           +K V ++G  I  +   DG I       E I   R+  + GD VK+ + +V ++ +  ++
Sbjct: 740 IKTVADFGLFIELIKGIDGFIPTQFASKEFIKNIRDKFKEGDIVKAQVVEVNKDTQKIKL 799


>gi|269925713|ref|YP_003322336.1| sigma-70 region 4 domain protein [Thermobaculum terrenum ATCC
           BAA-798]
 gi|269789373|gb|ACZ41514.1| sigma-70 region 4 domain protein [Thermobaculum terrenum ATCC
           BAA-798]
          Length = 785

 Score = 40.4 bits (94), Expect = 0.75,   Method: Composition-based stats.
 Identities = 27/147 (18%), Positives = 55/147 (37%), Gaps = 5/147 (3%)

Query: 354 DFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           +  + +Q  + +I +       L + G   V++LA      I +I G+        Q   
Sbjct: 83  EGIDLSQTSLSSIGLPSWAQTPLASAGITTVQDLASASTFYIRAILGY----VGRSQALV 138

Query: 414 REYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGW 473
           ++Y E   + L +  +   V   L ++  +  +I+  L   GI T + L   + ++LL  
Sbjct: 139 KQYTEEYLMKLLRLSKSHEVDNSLENLQ-LSPRIRGILRRAGIFTADQLYRLTDEELLKL 197

Query: 474 SENKGGNIEKFDGFLSSLGTPKDQVES 500
                  +E+           K  +E 
Sbjct: 198 KGIGKAALEEIKAVKLGDADNKRSIEE 224



 Score = 39.7 bits (92), Expect = 1.3,   Method: Composition-based stats.
 Identities = 25/161 (15%), Positives = 56/161 (34%), Gaps = 14/161 (8%)

Query: 342 ITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
            TEE      +   +      ++ + +   I  +L   G    ++L  +   E+  ++G 
Sbjct: 141 YTEEYLMKLLRLSKSHEVDNSLENLQLSPRIRGILRRAGIFTADQLYRLTDEELLKLKGI 200

Query: 402 DEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPG-----------IDSKIKVA 450
            +    EI  +A +  +  +    ++ ++  + +    IPG           +   I   
Sbjct: 201 GKAALEEI--KAVKLGDADNKRSIEEEKQR-LDDAGIKIPGGISEHPISKLPLSMSIIHR 257

Query: 451 LGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSL 491
           L   GIKT+ D+ G +   L           ++    + S 
Sbjct: 258 LELAGIKTIGDITGENFSRLQEIPRIGKVTAKRILEAIQSY 298


>gi|326932793|ref|XP_003212497.1| PREDICTED: DNA polymerase beta-like [Meleagris gallopavo]
          Length = 298

 Score = 40.4 bits (94), Expect = 0.76,   Method: Composition-based stats.
 Identities = 20/68 (29%), Positives = 29/68 (42%), Gaps = 3/68 (4%)

Query: 398 IEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKVALGEN 454
           IE   +    +I  +  E+L    +   +KIR+   S     L  + GI         E 
Sbjct: 21  IEEIQDGVGAKIAEKIDEFLSTGKLRKLEKIRQDDTSASINFLTRVTGIGPAAARKFVEE 80

Query: 455 GIKTMEDL 462
           GIKT+EDL
Sbjct: 81  GIKTLEDL 88


>gi|312891743|ref|ZP_07751251.1| SSU ribosomal protein S1P [Mucilaginibacter paludis DSM 18603]
 gi|311295774|gb|EFQ72935.1| SSU ribosomal protein S1P [Mucilaginibacter paludis DSM 18603]
          Length = 677

 Score = 40.4 bits (94), Expect = 0.76,   Method: Composition-based stats.
 Identities = 31/105 (29%), Positives = 48/105 (45%), Gaps = 4/105 (3%)

Query: 100 PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD-KVGEIISGTVKRVEYGNVIVDL 158
           P+ P DF   A            REA        F     GEIISG V  +   +V++++
Sbjct: 62  PVKPEDFDWDADDKKFGNYSDSDREALEKMYDGTFSSINKGEIISGVVVNINNKDVVLNI 121

Query: 159 G-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
           G  SDG++   E     +L+ GD V  ++   + +  G Q++LSR
Sbjct: 122 GFKSDGLVSLSEFRDTPDLKVGDEVDVFVES-QEDANG-QLVLSR 164



 Score = 38.1 bits (88), Expect = 3.6,   Method: Composition-based stats.
 Identities = 27/130 (20%), Positives = 56/130 (43%), Gaps = 10/130 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +K  RD D  + +G  +   +  ++     V  + +V+I+   E ++   
Sbjct: 206 EAFLPGSQIDIKPIRDYD--VYVGKTMEFKVVKINHEFKNVVVSHKVLIEDDLENQKTEI 263

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
             + +   G+++ GTVK +    V +DLG  DG++   +         +E L    ++  
Sbjct: 264 VAKLE--KGQVLEGTVKNITDFGVFIDLGGVDGLLHITDISWGRIEHPKEVLSLDQKINV 321

Query: 185 YIYDVRREQR 194
            + D   E++
Sbjct: 322 VVLDFDDEKK 331


>gi|218295918|ref|ZP_03496698.1| RNA binding S1 domain protein [Thermus aquaticus Y51MC23]
 gi|218243656|gb|EED10184.1| RNA binding S1 domain protein [Thermus aquaticus Y51MC23]
          Length = 530

 Score = 40.4 bits (94), Expect = 0.76,   Method: Composition-based stats.
 Identities = 38/193 (19%), Positives = 72/193 (37%), Gaps = 44/193 (22%)

Query: 42  LYGTMSDIRV-EINPETGDISLFRLLE------------------------------VVE 70
             G    ++V +++PETG I L R                                 VV 
Sbjct: 80  KPGDEVRVQVLKVDPETGQILLSRKKVEATEHWDRIQELYEKGEPVTVTVKEKVKGGVVA 139

Query: 71  EVENYTCQIS---LKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           E+++    I    L + R  +    +G  +   +      +  V  +++ +   + E ++
Sbjct: 140 ELDSVRAFIPASQLDLRRIPNLDAYVGQQLLVKIIEFHRKKGRVLLSRRAV---LEEEQK 196

Query: 128 DRQYLEFKDKV-GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGD 180
             +   F+    G+++ GTV  V      V+LG  DG++ R E         RE L  G 
Sbjct: 197 KAKEAFFQSLEPGQVVEGTVVDVTDFGAFVNLGPVDGLVHRSEITWGRFNHPREVLHKGQ 256

Query: 181 RVKSYIYDVRREQ 193
           +V++ +  V  E+
Sbjct: 257 KVRAQVVSVDPEK 269



 Score = 40.0 bits (93), Expect = 0.91,   Method: Composition-based stats.
 Identities = 24/82 (29%), Positives = 41/82 (50%), Gaps = 11/82 (13%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDET----ISRENLR----PGDRVKSYIY 187
           + G++++G V  V    V VD+G  ++G+I  ++     +S E L+    PGD V+  + 
Sbjct: 31  RPGQVLTGKVVFVGSEGVAVDIGAKTEGIIPFNQLTEKPLSDEELKGLLKPGDEVRVQVL 90

Query: 188 DVRREQRGPQVLLSRTHPQFMV 209
            V  E    Q+LLSR   +   
Sbjct: 91  KVDPETG--QILLSRKKVEATE 110


>gi|238814375|ref|NP_001154949.1| RecA homolog RAD51 [Nasonia vitripennis]
          Length = 340

 Score = 40.4 bits (94), Expect = 0.76,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 26/72 (36%), Gaps = 2/72 (2%)

Query: 344 EEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
           EEED  + Q           +   +       L   G+  VE +A      + +I+G  E
Sbjct: 11  EEEDYGDCQGQAKLIKTL--EGNGITAGDIKKLEEAGYFTVESVAYTPKKVLMAIKGISE 68

Query: 404 ETAVEIQGRARE 415
             A +I   A +
Sbjct: 69  GKADKILQEASK 80


>gi|330752193|emb|CBL87151.1| ribosomal protein S1 [uncultured Sphingobacteria bacterium]
          Length = 740

 Score = 40.4 bits (94), Expect = 0.77,   Method: Composition-based stats.
 Identities = 29/100 (29%), Positives = 51/100 (51%), Gaps = 6/100 (6%)

Query: 115 KQVIIQKVREAERD-RQYLEFKDKVG--EIISGTVKRVEYGNVIVDLG-NSDGVIRRDET 170
           K  +    +E E    QY +    +G  EI+ G V  +  G+V++D+   SDG++   E 
Sbjct: 50  KHTLSYSEQEIEDYLNQYEQSLSTIGQNEIVLGKVTAIHDGDVVLDVNYKSDGLVSLSEF 109

Query: 171 ISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVK 210
               +L+ GD V+ Y+ D + + RG Q++LSR   + +  
Sbjct: 110 RDMPDLKIGDEVQVYVED-KEDLRG-QLVLSRKKAKLLKA 147


>gi|254779609|ref|YP_003057715.1| 30S ribosomal protein S1 [Helicobacter pylori B38]
 gi|254001521|emb|CAX29539.1| 30S ribosomal protein S1 [Helicobacter pylori B38]
          Length = 556

 Score = 40.4 bits (94), Expect = 0.77,   Method: Composition-based stats.
 Identities = 24/119 (20%), Positives = 42/119 (35%), Gaps = 15/119 (12%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           +  DP I          P + + +   Q   Q I  K+ E   +            II G
Sbjct: 78  QKNDPIIVHVSE-KGEHPSVSYKKAISQ---QKIQAKIEELGEN--------YENAIIEG 125

Query: 145 TVKRVEYGNVIVDLGNSDGVIRRDET-ISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            +     G  IV+    +  + R  + +  +    G R+K+ I  V +E     + +SR
Sbjct: 126 KIVGKNKGGYIVESQGVEYFLSRSHSSLKNDANHIGKRIKACIIRVDKENH--SINISR 182


>gi|168021243|ref|XP_001763151.1| predicted protein [Physcomitrella patens subsp. patens]
 gi|162685634|gb|EDQ72028.1| predicted protein [Physcomitrella patens subsp. patens]
          Length = 306

 Score = 40.4 bits (94), Expect = 0.77,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 29/64 (45%), Gaps = 6/64 (9%)

Query: 318 SLA---IGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAH 374
           SLA   IG+ G N +   +LTG  + I   E D+  R  +       F Q     +++ H
Sbjct: 195 SLAGAIIGKGGINAKQICRLTGAKLSIKEHETDAGLRNVEMEGS---FEQIKQASQMVRH 251

Query: 375 LLVA 378
           +L+ 
Sbjct: 252 VLIH 255


>gi|126465874|ref|YP_001040983.1| DNA repair and recombination protein RadA [Staphylothermus marinus
           F1]
 gi|126014697|gb|ABN70075.1| DNA repair and recombination protein RadA [Staphylothermus marinus
           F1]
          Length = 319

 Score = 40.4 bits (94), Expect = 0.77,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 25/71 (35%), Gaps = 1/71 (1%)

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL-EGIDI 422
               V   IA  L A GF     +   +  E+A   G    TA  I   AR+ L      
Sbjct: 12  DIPGVGPSIADKLEAAGFTTPWAIVVSRAEELAEKVGIPLHTAERIIANARKLLGIRFKT 71

Query: 423 TLQKKIRELGV 433
             + K+  L V
Sbjct: 72  AKEVKLERLSV 82


>gi|302755562|ref|XP_002961205.1| hypothetical protein SELMODRAFT_75886 [Selaginella moellendorffii]
 gi|302766770|ref|XP_002966805.1| hypothetical protein SELMODRAFT_86553 [Selaginella moellendorffii]
 gi|300164796|gb|EFJ31404.1| hypothetical protein SELMODRAFT_86553 [Selaginella moellendorffii]
 gi|300172144|gb|EFJ38744.1| hypothetical protein SELMODRAFT_75886 [Selaginella moellendorffii]
          Length = 213

 Score = 40.4 bits (94), Expect = 0.77,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 26/56 (46%), Gaps = 3/56 (5%)

Query: 321 IGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLL 376
           IG+ G NV+  S++TG  + I   E D   R  +     +   Q  +  E++  LL
Sbjct: 110 IGKAGANVKQISKVTGCKVSIRDHETDPNMRNVEMEGSLE---QIESASEMVRQLL 162


>gi|315231394|ref|YP_004071830.1| hypothetical protein TERMP_01632 [Thermococcus barophilus MP]
 gi|315184422|gb|ADT84607.1| hypothetical protein TERMP_01632 [Thermococcus barophilus MP]
          Length = 742

 Score = 40.4 bits (94), Expect = 0.77,   Method: Composition-based stats.
 Identities = 19/58 (32%), Positives = 31/58 (53%), Gaps = 1/58 (1%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           +G I  G + RVE   V V L  +  G+I+R + +  +  +PG  +   + DVR E+R
Sbjct: 132 IGRIYKGVIDRVERFGVFVKLNPHVVGLIKRKDLLGGKEYKPGMEILVQVLDVRPEKR 189


>gi|83591633|ref|YP_425385.1| 30S ribosomal protein S1 [Rhodospirillum rubrum ATCC 11170]
 gi|83574547|gb|ABC21098.1| SSU ribosomal protein S1P [Rhodospirillum rubrum ATCC 11170]
          Length = 573

 Score = 40.4 bits (94), Expect = 0.77,   Method: Composition-based stats.
 Identities = 29/125 (23%), Positives = 50/125 (40%), Gaps = 10/125 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ ++  RD  P +    V    +  MD  R  +  +++ ++++ R  ER +     
Sbjct: 142 PGSQVDIRPVRDIGPLLGQPQV--FQILKMDRARGNIVVSRRAVLEETRAEERSKLMETL 199

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
             + GEI+ G VK +      VDLG  DG++   +          E L  G  VK  +  
Sbjct: 200 --REGEILEGVVKNITDYGAFVDLGGVDGLLHVTDISWKRINHPTEALSIGQTVKVQVIR 257

Query: 189 VRREQ 193
              E 
Sbjct: 258 FNAET 262


>gi|14600457|ref|NP_146972.1| DNA double-strand break repair rad50 ATPase [Aeropyrum pernix K1]
 gi|18203646|sp|Q9YFZ1|RAD50_AERPE RecName: Full=DNA double-strand break repair rad50 ATPase
 gi|5103499|dbj|BAA79020.1| DNA double-strand break repair rad50 ATPase [Aeropyrum pernix K1]
          Length = 919

 Score = 40.4 bits (94), Expect = 0.77,   Method: Composition-based stats.
 Identities = 30/175 (17%), Positives = 62/175 (35%), Gaps = 31/175 (17%)

Query: 351 RQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVK---------ISEIASIEGF 401
           R +D   R +  +  +N    +   L   GF   E+LA  +         + E+  +E  
Sbjct: 510 RLQDKRRRIELLLSRLN---QLEEGLRELGFQTPEDLAKAEQKLRMLRERLEELRKLENS 566

Query: 402 DEETAVEI----------QGRAREYLEGIDITLQKKIRELG-VSEELCSIPGI----DSK 446
            EE    +          + RA E L+ + I  ++   +L  +S E   +  +       
Sbjct: 567 LEEKVRNLSREEVALREAKTRALEVLQRLGIKEEEAREKLKTLSSESKKLERMLVSKAED 626

Query: 447 IKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESM 501
           +   LG    ++++DL   + + L G        +   +  L      K++   +
Sbjct: 627 LATRLGITAYRSLDDLLEKAREALEGV----DKELSAIERRLEEARRLKEEAAKL 677


>gi|15924466|ref|NP_372000.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus Mu50]
 gi|15927057|ref|NP_374590.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus N315]
 gi|148267960|ref|YP_001246903.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus JH9]
 gi|150394024|ref|YP_001316699.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus JH1]
 gi|156979795|ref|YP_001442054.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus Mu3]
 gi|253315983|ref|ZP_04839196.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus str.
           CF-Marseille]
 gi|255006262|ref|ZP_05144863.2| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           Mu50-omega]
 gi|257795469|ref|ZP_05644448.1| 30S ribosomal protein S1 [Staphylococcus aureus A9781]
 gi|258413277|ref|ZP_05681553.1| 30S ribosomal protein S1 [Staphylococcus aureus A9763]
 gi|258420616|ref|ZP_05683558.1| RNA binding S1 domain-containing protein [Staphylococcus aureus
           A9719]
 gi|258426811|ref|ZP_05688031.1| SSU ribosomal protein S1P [Staphylococcus aureus A9299]
 gi|258447357|ref|ZP_05695501.1| 30S ribosomal protein S1 [Staphylococcus aureus A6300]
 gi|258449758|ref|ZP_05697859.1| SSU ribosomal protein S1P [Staphylococcus aureus A6224]
 gi|258454572|ref|ZP_05702536.1| RNA binding S1 domain-containing protein [Staphylococcus aureus
           A5937]
 gi|269203101|ref|YP_003282370.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus ED98]
 gi|282928004|ref|ZP_06335613.1| 30S ribosomal protein S1 [Staphylococcus aureus A10102]
 gi|295407225|ref|ZP_06817025.1| 30S ribosomal protein S1 [Staphylococcus aureus A8819]
 gi|296275327|ref|ZP_06857834.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus MR1]
 gi|297244649|ref|ZP_06928532.1| 30S ribosomal protein S1 [Staphylococcus aureus A8796]
 gi|81705665|sp|Q7A5J0|RS1_STAAN RecName: Full=30S ribosomal protein S1
 gi|81781569|sp|Q99U14|RS1_STAAM RecName: Full=30S ribosomal protein S1
 gi|13701275|dbj|BAB42569.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus N315]
 gi|14247247|dbj|BAB57638.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus Mu50]
 gi|147741029|gb|ABQ49327.1| SSU ribosomal protein S1P [Staphylococcus aureus subsp. aureus JH9]
 gi|149946476|gb|ABR52412.1| RNA binding S1 domain protein [Staphylococcus aureus subsp. aureus
           JH1]
 gi|156721930|dbj|BAF78347.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus Mu3]
 gi|257789441|gb|EEV27781.1| 30S ribosomal protein S1 [Staphylococcus aureus A9781]
 gi|257839841|gb|EEV64309.1| 30S ribosomal protein S1 [Staphylococcus aureus A9763]
 gi|257843564|gb|EEV67971.1| RNA binding S1 domain-containing protein [Staphylococcus aureus
           A9719]
 gi|257849972|gb|EEV73930.1| SSU ribosomal protein S1P [Staphylococcus aureus A9299]
 gi|257853548|gb|EEV76507.1| 30S ribosomal protein S1 [Staphylococcus aureus A6300]
 gi|257857006|gb|EEV79906.1| SSU ribosomal protein S1P [Staphylococcus aureus A6224]
 gi|257862955|gb|EEV85719.1| RNA binding S1 domain-containing protein [Staphylococcus aureus
           A5937]
 gi|262075391|gb|ACY11364.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus ED98]
 gi|282590301|gb|EFB95381.1| 30S ribosomal protein S1 [Staphylococcus aureus A10102]
 gi|285817156|gb|ADC37643.1| SSU ribosomal protein S1p [Staphylococcus aureus 04-02981]
 gi|294967938|gb|EFG43967.1| 30S ribosomal protein S1 [Staphylococcus aureus A8819]
 gi|297178679|gb|EFH37925.1| 30S ribosomal protein S1 [Staphylococcus aureus A8796]
 gi|312829866|emb|CBX34708.1| 30S ribosomal protein S1 homolog [Staphylococcus aureus subsp.
           aureus ECT-R 2]
 gi|315129192|gb|EFT85187.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           CGS03]
 gi|329727548|gb|EGG64004.1| putative ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           21172]
          Length = 391

 Score = 40.4 bits (94), Expect = 0.77,   Method: Composition-based stats.
 Identities = 21/77 (27%), Positives = 38/77 (49%), Gaps = 12/77 (15%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDET------ISRENLRPGDRVKSYIYD 188
           K G+ ++G V++VE   V+V +  G  +G+I   +          E ++ GD V++Y+  
Sbjct: 14  KEGDKVTGEVQQVEDKQVVVHINGGKFNGIIPISQLSTHHIDSPSEVVKEGDEVEAYVTK 73

Query: 189 V---RREQRGPQVLLSR 202
           V      + G  + LSR
Sbjct: 74  VEFDEENETGAYI-LSR 89



 Score = 38.9 bits (90), Expect = 2.1,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 47/113 (41%), Gaps = 8/113 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
            D S+  G  +   +  +D     V  +++ + Q+  +A++D+         G++I G V
Sbjct: 144 EDFSVFDGQTIRIKVEELDPENNRVILSRKAVEQEENDAKKDQLLQSLN--EGDVIHGKV 201

Query: 147 KRVEYGNVIVDLGNSDGVIRRDE------TISRENLRPGDRVKSYIYDVRREQ 193
            R+      +D+G  DG++   E          E +  G  VK  I  + R+ 
Sbjct: 202 ARLTQFGAFIDIGGVDGLVHVSELSHEHVQTPEEVVSIGQDVKVKIKSIDRDT 254


>gi|302308948|ref|NP_986113.2| AFR566Cp [Ashbya gossypii ATCC 10895]
 gi|299790870|gb|AAS53937.2| AFR566Cp [Ashbya gossypii ATCC 10895]
          Length = 1715

 Score = 40.4 bits (94), Expect = 0.78,   Method: Composition-based stats.
 Identities = 21/70 (30%), Positives = 36/70 (51%), Gaps = 2/70 (2%)

Query: 134  FKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQ 193
            ++DK+G +I  +V  V+  N  ++L            +S ++L+ GD V+ +I  V    
Sbjct: 1115 YEDKIGSMILASVVGVDVENKKINLSLRTEDATDRYILSHKDLKQGDVVRGFIKSV--TD 1172

Query: 194  RGPQVLLSRT 203
            +G  V LSRT
Sbjct: 1173 KGIFVYLSRT 1182


>gi|169623440|ref|XP_001805127.1| hypothetical protein SNOG_14961 [Phaeosphaeria nodorum SN15]
 gi|160704983|gb|EAT77504.2| hypothetical protein SNOG_14961 [Phaeosphaeria nodorum SN15]
          Length = 1641

 Score = 40.4 bits (94), Expect = 0.78,   Method: Composition-based stats.
 Identities = 11/43 (25%), Positives = 20/43 (46%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
             L+V  G+  VE +A      +  I+G  E+ A ++   A +
Sbjct: 46  IKLVVEGGYNTVESIAYTPRKALEQIKGISEQKASKLLAEASK 88


>gi|74001296|ref|XP_850102.1| PREDICTED: similar to SAM-domain protein SAMSN-1 (SAM domain, SH3
           domain and nuclear localisation signals protein 1)
           (SH3-SAM adaptor protein) (Hematopoietic adaptor
           containing SH3 and SAM domains 1) [Canis familiaris]
          Length = 524

 Score = 40.4 bits (94), Expect = 0.78,   Method: Composition-based stats.
 Identities = 22/96 (22%), Positives = 46/96 (47%), Gaps = 8/96 (8%)

Query: 339 IDIITEEEDSINRQK-------DFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVK 391
           +D+I+EEE +  + K       +  +  Q F++ I++ E  + LL+  G+  +E+L  +K
Sbjct: 370 VDVISEEEAAPKKIKAHRKSGKEKPKTLQEFLERIHLQEYTSTLLL-NGYETLEDLKDIK 428

Query: 392 ISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
            S +  +   + E  + +   A   L+   I  Q+ 
Sbjct: 429 ESHLIELNIKNPEDRMRLLSAAENLLDEETIQEQEN 464


>gi|325297787|ref|YP_004257704.1| DNA ligase [Bacteroides salanitronis DSM 18170]
 gi|324317340|gb|ADY35231.1| DNA ligase [Bacteroides salanitronis DSM 18170]
          Length = 667

 Score = 40.4 bits (94), Expect = 0.79,   Method: Composition-based stats.
 Identities = 23/115 (20%), Positives = 42/115 (36%), Gaps = 10/115 (8%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           V E +A  +    F  +E LA   + ++  ++   E+ A  I    R + +  +  L ++
Sbjct: 515 VGETVAKKVARA-FRSIEALATATLDDLIHVDEIGEKIAGSIL---RYFADEKNRNLIER 570

Query: 428 IR--ELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +R   L +  +   + G        L    I      A  S D+     E  GG 
Sbjct: 571 LRTAGLKLEADEEDLAGHTD----KLQGKSIVISGVFARHSRDEYKEMIEKHGGK 621


>gi|258444809|ref|ZP_05693138.1| RNA binding S1 domain-containing protein [Staphylococcus aureus
           A8115]
 gi|282892973|ref|ZP_06301208.1| 30S ribosomal protein S1 [Staphylococcus aureus A8117]
 gi|257850302|gb|EEV74255.1| RNA binding S1 domain-containing protein [Staphylococcus aureus
           A8115]
 gi|282764970|gb|EFC05095.1| 30S ribosomal protein S1 [Staphylococcus aureus A8117]
          Length = 391

 Score = 40.4 bits (94), Expect = 0.79,   Method: Composition-based stats.
 Identities = 21/77 (27%), Positives = 38/77 (49%), Gaps = 12/77 (15%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDET------ISRENLRPGDRVKSYIYD 188
           K G+ ++G V++VE   V+V +  G  +G+I   +          E ++ GD V++Y+  
Sbjct: 14  KEGDKVTGEVQQVEDKQVVVHINGGKFNGIIPISQLSTHHIDSPSEVVKEGDEVEAYVTK 73

Query: 189 V---RREQRGPQVLLSR 202
           V      + G  + LSR
Sbjct: 74  VEFDEENETGAYI-LSR 89



 Score = 40.0 bits (93), Expect = 0.84,   Method: Composition-based stats.
 Identities = 25/113 (22%), Positives = 48/113 (42%), Gaps = 8/113 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
            D S+  G  +   +  +D     V  +++ + Q+  +A++D+         G++I G V
Sbjct: 144 EDFSVFDGQTIRIKVEELDPENNRVILSRKAVEQEENDAKKDQLLQSLN--EGDVIHGKV 201

Query: 147 KRVEYGNVIVDLGNSDGVIRRDE------TISRENLRPGDRVKSYIYDVRREQ 193
            R+    V +D+G  DG++   E          E +  G  VK  I  + R+ 
Sbjct: 202 ARLTQFGVFIDIGGVDGLVHVSELSHEHVQTPEEVVSIGQDVKVKIKSIDRDT 254


>gi|302526819|ref|ZP_07279161.1| DNA ligase, NAD-dependent [Streptomyces sp. AA4]
 gi|302435714|gb|EFL07530.1| DNA ligase, NAD-dependent [Streptomyces sp. AA4]
          Length = 663

 Score = 40.4 bits (94), Expect = 0.79,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 31/71 (43%), Gaps = 5/71 (7%)

Query: 369 DEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKI 428
            E  A  L   GFA +E +    +  +  +E    + A  +     E+L  +   L +++
Sbjct: 501 SEGTAARLCRAGFASLEAVLDAGVDGLVEVEDIGPKVAASLV----EHLTRLRPEL-ERL 555

Query: 429 RELGVSEELCS 439
           RE GVS ++  
Sbjct: 556 RERGVSLDVLE 566


>gi|225717836|gb|ACO14764.1| DNA repair protein RAD51 homolog 1 [Caligus clemensi]
          Length = 346

 Score = 40.4 bits (94), Expect = 0.79,   Method: Composition-based stats.
 Identities = 9/57 (15%), Positives = 19/57 (33%)

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           F       ++   +       L   G+  VE +       + +I+G  E  A ++  
Sbjct: 27  FGPMPLSVLEQHGISAGDMKKLSEAGYHTVESIVYAPKKNLLAIKGISEAKADKLLA 83


>gi|218961511|ref|YP_001741286.1| 30S ribosomal subunit protein S1 (modular protein) [Candidatus
           Cloacamonas acidaminovorans]
 gi|167730168|emb|CAO81080.1| 30S ribosomal subunit protein S1 (modular protein) [Candidatus
           Cloacamonas acidaminovorans]
          Length = 932

 Score = 40.4 bits (94), Expect = 0.79,   Method: Composition-based stats.
 Identities = 29/101 (28%), Positives = 49/101 (48%), Gaps = 6/101 (5%)

Query: 115 KQVIIQKVREAERD-RQYLE-FKD-KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDET 170
           K+ + Q+ +E +     Y E F   K GEII GTV  +   +V VD+G  S+G+I   E 
Sbjct: 89  KKELTQEEKEHQEMLSMYEESFSSFKKGEIIEGTVVDITDKDVRVDIGFKSEGIIPISEF 148

Query: 171 ISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKL 211
                      +K YI ++   +   ++LLS+    +M+ +
Sbjct: 149 AYTGIPELNSVIKVYINEIENGEG--KLLLSKKKADYMINI 187


>gi|157412946|ref|YP_001483812.1| ribosomal protein S1 [Prochlorococcus marinus str. MIT 9215]
 gi|157387521|gb|ABV50226.1| Ribosomal protein S1 [Prochlorococcus marinus str. MIT 9215]
          Length = 400

 Score = 40.4 bits (94), Expect = 0.79,   Method: Composition-based stats.
 Identities = 21/92 (22%), Positives = 41/92 (44%), Gaps = 4/92 (4%)

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR--PGDRVKSYIYDVRRE 192
             K GE+I+  +     G +  D+    G I R +    ++ +   G  +K    +V  E
Sbjct: 212 SAKNGELINVLINGFNRGGLTCDVDGLRGFIPRSQLEDGQDYQSFVGKTLKVAFLEVNPE 271

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
            R  +++LS      + KL ++E+ ++  G V
Sbjct: 272 SR--KLVLSEKKASLVSKLTNLELGQLIEGEV 301


>gi|18977765|ref|NP_579122.1| hypothetical protein PF1393 [Pyrococcus furiosus DSM 3638]
 gi|18893506|gb|AAL81517.1| hypothetical protein PF1393 [Pyrococcus furiosus DSM 3638]
          Length = 632

 Score = 40.4 bits (94), Expect = 0.79,   Method: Composition-based stats.
 Identities = 22/93 (23%), Positives = 35/93 (37%), Gaps = 11/93 (11%)

Query: 403 EETAVEIQGRAREYLEGIDITLQKKIRELG-----------VSEELCSIPGIDSKIKVAL 451
           E    E+     EY+E   I  +++ +E G             E L SI GI  K    L
Sbjct: 532 EPYVSEVPPEVPEYIEPPQIPKEEEDKERGKFSSGQSMGRDFEEFLLSIKGIGPKTIEKL 591

Query: 452 GENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
            + GI   ED     +++L   +      +E+ 
Sbjct: 592 KKVGITKPEDFLNWKIEELAKKARVPKKRLERI 624


>gi|208434951|ref|YP_002266617.1| ribosomal protein S1 [Helicobacter pylori G27]
 gi|208432880|gb|ACI27751.1| ribosomal protein S1 [Helicobacter pylori G27]
          Length = 556

 Score = 40.4 bits (94), Expect = 0.79,   Method: Composition-based stats.
 Identities = 23/119 (19%), Positives = 42/119 (35%), Gaps = 15/119 (12%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           +  DP +          P + + +   Q   Q I  K+ E   +            II G
Sbjct: 78  QKNDPIVVHVSE-KGEHPSVSYKKAISQ---QKIQAKIEELGEN--------YENAIIEG 125

Query: 145 TVKRVEYGNVIVDLGNSDGVIRRDET-ISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            +     G  IV+    +  + R  + +  +    G R+K+ I  V +E     + +SR
Sbjct: 126 KIVGKNKGGYIVESQGVEYFLSRSHSSLKNDANHIGKRIKACIIRVDKENH--SINISR 182


>gi|156849069|ref|XP_001647415.1| hypothetical protein Kpol_1018p90 [Vanderwaltozyma polyspora DSM
           70294]
 gi|156118101|gb|EDO19557.1| hypothetical protein Kpol_1018p90 [Vanderwaltozyma polyspora DSM
           70294]
          Length = 385

 Score = 40.4 bits (94), Expect = 0.79,   Method: Composition-based stats.
 Identities = 9/38 (23%), Positives = 16/38 (42%)

Query: 376 LVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           L   G    E +A     ++ +I+G  E  A ++   A
Sbjct: 83  LRENGLHTAEAVAYAPRKDLLNIKGISEAKADKLLNEA 120


>gi|148263533|ref|YP_001230239.1| 30S ribosomal protein S1 [Geobacter uraniireducens Rf4]
 gi|146397033|gb|ABQ25666.1| SSU ribosomal protein S1P [Geobacter uraniireducens Rf4]
          Length = 584

 Score = 40.4 bits (94), Expect = 0.79,   Method: Composition-based stats.
 Identities = 23/112 (20%), Positives = 47/112 (41%), Gaps = 8/112 (7%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG 152
           IG      +  M+  R  +  +++V++++ R+  R           G+++ G VK +   
Sbjct: 173 IGETCKFKVLKMNRKRGNIVLSRRVLLEEERDKARTTTLATLS--EGDVVDGIVKNIADY 230

Query: 153 NVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQV 198
              VDLG  DG++   +          E ++ GD +K  +    RE+    +
Sbjct: 231 GAFVDLGGVDGLLHVTDMSWGRLNHPSEAVKVGDTIKVKVLKYDREKGKISL 282


>gi|308233483|ref|ZP_07664220.1| DNA-directed RNA polymerase subunit beta' [Atopobium vaginae DSM
            15829]
 gi|328943547|ref|ZP_08241012.1| DNA-directed RNA polymerase subunit beta' [Atopobium vaginae DSM
            15829]
 gi|327491516|gb|EGF23290.1| DNA-directed RNA polymerase subunit beta' [Atopobium vaginae DSM
            15829]
          Length = 1485

 Score = 40.4 bits (94), Expect = 0.80,   Method: Composition-based stats.
 Identities = 19/149 (12%), Positives = 49/149 (32%), Gaps = 19/149 (12%)

Query: 364  QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG--RAREYLEGID 421
              + V +   +     G   V +L      E+  I+G   +   E++    AR  L  ++
Sbjct: 1337 DDLGVSQRWTNKFSEVGIETVGDLIGKTEDELLRIDGIGAKAIEELREGLEARNLLYILE 1396

Query: 422  ITLQKKIRELGVSEELCSIPGI------DSKIKVALGENGIKTMEDLAGCSVDDLLGWSE 475
                +       SE+L  +  +      D+ I +           +      D+ +G ++
Sbjct: 1397 PDEDEA-----DSEDLSQLLNMVFSPDPDNDIMLGTAAPATHHFTE------DEFIGGAD 1445

Query: 476  NKGGNIEKFDGFLSSLGTPKDQVESMIIH 504
            +   +  +    ++        + S ++ 
Sbjct: 1446 SDEHDNSEDSDIINEDLDSLGDLLSSVMK 1474


>gi|210135214|ref|YP_002301653.1| 30S ribosomal protein S1 [Helicobacter pylori P12]
 gi|210133182|gb|ACJ08173.1| 30S ribosomal protein S1 [Helicobacter pylori P12]
          Length = 556

 Score = 40.4 bits (94), Expect = 0.80,   Method: Composition-based stats.
 Identities = 21/104 (20%), Positives = 38/104 (36%), Gaps = 14/104 (13%)

Query: 100 PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG 159
             P + + +   Q   Q I  K+ E   +            II G +     G  IV+  
Sbjct: 92  EHPSVSYKKAISQ---QKIQAKIEELGEN--------YENAIIEGKIVGKNKGGYIVESQ 140

Query: 160 NSDGVIRRDET-ISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
             +  + R  + +  +    G R+K+ I  V +E     + +SR
Sbjct: 141 GVEYFLSRSHSSLKNDANHIGKRIKACIIRVDKENH--SINISR 182


>gi|300176345|emb|CBK23656.2| unnamed protein product [Blastocystis hominis]
          Length = 316

 Score = 40.4 bits (94), Expect = 0.81,   Method: Composition-based stats.
 Identities = 10/55 (18%), Positives = 26/55 (47%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
           +++  ++      L   G+  VE +A   + ++  ++G  E  A ++Q  A + +
Sbjct: 6   LESQGINAATVKKLQEAGYHTVESVAFETMKKLVEVKGISEVNAQKLQAAASKLI 60


>gi|289449430|ref|YP_003475339.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Clostridiales
           genomosp. BVAB3 str. UPII9-5]
 gi|289183977|gb|ADC90402.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Clostridiales
           genomosp. BVAB3 str. UPII9-5]
          Length = 704

 Score = 40.4 bits (94), Expect = 0.81,   Method: Composition-based stats.
 Identities = 23/118 (19%), Positives = 49/118 (41%), Gaps = 9/118 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
            D       ++     P    R+ V  +++V++ + R A+    +      VG+I  G V
Sbjct: 468 EDYKGKTIEILVTQFDPEK-KRMRVAGSRRVLLNRERAAKAAEVWNTLA--VGDIREGVV 524

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQV 198
           + +      VD+G  DG++   E          E ++ GD ++ Y+ +   E++   +
Sbjct: 525 RSLTDFGAFVDIGGVDGLVHVSELSWNRIKHPSEVIKVGDHIQVYVKEFDPERKRISL 582


>gi|266623563|ref|ZP_06116498.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Clostridium
           hathewayi DSM 13479]
 gi|288864643|gb|EFC96941.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Clostridium
           hathewayi DSM 13479]
          Length = 367

 Score = 40.4 bits (94), Expect = 0.81,   Method: Composition-based stats.
 Identities = 31/159 (19%), Positives = 64/159 (40%), Gaps = 30/159 (18%)

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ-------- 120
           V  V +    + ++ AR   P+  +           D  + A Q  + VI +        
Sbjct: 114 VAAVLDGGLSVVVEGARVFIPASLVSDTYE-----KDLSKYADQEIEFVITEFNPKRRRI 168

Query: 121 -----KVREAERDRQYLEFKDKV--GEIISGTVKRVEYGNVIVDLGNSDGVIRRDET--- 170
                ++  A R     E  +++  G+++ GT+K V      +DLG +DG++   E    
Sbjct: 169 IGDRKQLMVARRAEMQKELFERIHPGDVVEGTIKNVTDFGAFIDLGGADGLLHISEMSWG 228

Query: 171 ---ISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQ 206
                ++  + G++++  I D+     G ++ LS   P+
Sbjct: 229 RVESPKKVFKAGEKMRVLIKDI----NGDKIALSLKFPE 263


>gi|171686100|ref|XP_001907991.1| hypothetical protein [Podospora anserina S mat+]
 gi|170943011|emb|CAP68664.1| unnamed protein product [Podospora anserina S mat+]
          Length = 1779

 Score = 40.4 bits (94), Expect = 0.81,   Method: Composition-based stats.
 Identities = 21/71 (29%), Positives = 34/71 (47%), Gaps = 10/71 (14%)

Query: 134  FKD-KVGEIISGTVKRVEYGNVIVDLGNSD---GVIRRDETISREN------LRPGDRVK 183
            F D K G+I++G V++VE     +D+  SD   G+  R E   R           GD+VK
Sbjct: 1289 FSDLKEGQIVTGKVRKVEDFGAFIDIDGSDRLSGLCHRSEMADRAIKDAKALYSEGDKVK 1348

Query: 184  SYIYDVRREQR 194
            + +  V  + +
Sbjct: 1349 ARVLKVEEKTK 1359



 Score = 38.5 bits (89), Expect = 2.5,   Method: Composition-based stats.
 Identities = 13/67 (19%), Positives = 28/67 (41%), Gaps = 8/67 (11%)

Query: 145 TVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQV 198
            VK ++ G ++   G   G +   E         +E+ R G  +  Y+     E++  ++
Sbjct: 637 IVKLLDRGAIVQFYGQLRGFLPVSEMSEAYIQDPKEHFREGQTISVYVLSFDPEEK--RM 694

Query: 199 LLSRTHP 205
           ++S   P
Sbjct: 695 IVSCKDP 701


>gi|322708659|gb|EFZ00236.1| DNA repair protein RAD51 [Metarhizium anisopliae ARSEF 23]
          Length = 1532

 Score = 40.4 bits (94), Expect = 0.81,   Method: Composition-based stats.
 Identities = 13/43 (30%), Positives = 21/43 (48%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
             L++  GF  VE +A      +  I+G  E+ A +I G A +
Sbjct: 39  IQLVMDGGFNTVESVAYTPRRMLEQIKGISEQKAQKILGEASK 81


>gi|257064689|ref|YP_003144361.1| SSU ribosomal protein S1P [Slackia heliotrinireducens DSM 20476]
 gi|256792342|gb|ACV23012.1| SSU ribosomal protein S1P [Slackia heliotrinireducens DSM 20476]
          Length = 407

 Score = 40.4 bits (94), Expect = 0.81,   Method: Composition-based stats.
 Identities = 20/85 (23%), Positives = 45/85 (52%), Gaps = 9/85 (10%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
            G+++ GTV ++E+  V++D+G  S+GVI   E          E +  GD +++ +   +
Sbjct: 33  EGDLVKGTVVKIEHDEVLLDIGFKSEGVIPSRELSIRKDADPSEIVAEGDEIEALVL--Q 90

Query: 191 REQRGPQVLLSRTHPQFMVKLFHME 215
           +E +  +++LS+   ++      +E
Sbjct: 91  KEDKDGRLILSKKRAEYERAWISVE 115


>gi|311274309|ref|XP_003134280.1| PREDICTED: hypothetical protein LOC100526021 [Sus scrofa]
          Length = 567

 Score = 40.4 bits (94), Expect = 0.82,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVSGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
              + GIKT+EDL
Sbjct: 113 KFVDEGIKTLEDL 125


>gi|108563418|ref|YP_627734.1| 30S ribosomal protein S1 [Helicobacter pylori HPAG1]
 gi|107837191|gb|ABF85060.1| ribosomal protein S1 [Helicobacter pylori HPAG1]
          Length = 556

 Score = 40.4 bits (94), Expect = 0.83,   Method: Composition-based stats.
 Identities = 23/119 (19%), Positives = 42/119 (35%), Gaps = 15/119 (12%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           +  DP +          P + + +   Q   Q I  K+ E   +            II G
Sbjct: 78  QKNDPIVVHVSE-KGEHPSVSYKKAISQ---QKIQAKIEELGEN--------YENAIIEG 125

Query: 145 TVKRVEYGNVIVDLGNSDGVIRRDET-ISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            +     G  IV+    +  + R  + +  +    G R+K+ I  V +E     + +SR
Sbjct: 126 KIVGKNKGGYIVESQGVEYFLSRSHSSLKNDANHIGKRIKACIIRVDKENH--SINISR 182


>gi|82751072|ref|YP_416813.1| 30S ribosomal protein S1 [Staphylococcus aureus RF122]
 gi|82656603|emb|CAI81027.1| 30S ribosomal protein S1 [Staphylococcus aureus RF122]
          Length = 391

 Score = 40.4 bits (94), Expect = 0.83,   Method: Composition-based stats.
 Identities = 21/77 (27%), Positives = 38/77 (49%), Gaps = 12/77 (15%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDET------ISRENLRPGDRVKSYIYD 188
           K G+ ++G V++VE   V+V +  G  +G+I   +          E ++ GD V++Y+  
Sbjct: 14  KEGDKVTGEVQQVEDKQVVVHINGGKFNGIIPISQLSTRHIDSPSEVVKEGDEVEAYVTK 73

Query: 189 V---RREQRGPQVLLSR 202
           V      + G  + LSR
Sbjct: 74  VEFDEENETGAYI-LSR 89


>gi|254572065|ref|XP_002493142.1| Strand exchange protein, forms a helical filament with DNA that
           searches for homology [Pichia pastoris GS115]
 gi|238032940|emb|CAY70963.1| Strand exchange protein, forms a helical filament with DNA that
           searches for homology [Pichia pastoris GS115]
 gi|328352840|emb|CCA39238.1| DNA repair protein rhp51 [Pichia pastoris CBS 7435]
          Length = 362

 Score = 40.0 bits (93), Expect = 0.83,   Method: Composition-based stats.
 Identities = 9/55 (16%), Positives = 24/55 (43%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
           ++   +       L+  G+  VE +A      + +++G  E  A ++   A +++
Sbjct: 48  LEGNGISPGDIRKLMEAGYNTVEAIAYTPKRALLTVKGISEIKADKLLAEASKFV 102


>gi|229918700|ref|YP_002887346.1| RNA binding S1 domain protein [Exiguobacterium sp. AT1b]
 gi|229470129|gb|ACQ71901.1| RNA binding S1 domain protein [Exiguobacterium sp. AT1b]
          Length = 382

 Score = 40.0 bits (93), Expect = 0.83,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 37/70 (52%), Gaps = 11/70 (15%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETIS------RENLRPGDRVKSYIYDVRR 191
           G+I++GTV ++E    ++D+G  ++ ++   E  S       E+L+  D ++  +  V  
Sbjct: 16  GQIVTGTVVKIEDKQALIDIGYKTEAILPISEVSSMHLDDLNESLQVNDEIRVKVKKVTD 75

Query: 192 EQRGPQVLLS 201
           E+    V++S
Sbjct: 76  EE----VVVS 81


>gi|118101412|ref|XP_424407.2| PREDICTED: similar to DNA polymerase beta [Gallus gallus]
          Length = 335

 Score = 40.0 bits (93), Expect = 0.83,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   ++G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLDGVGAKIAEKI----DEFLSTGKLRKLEKIRQDDTSASINFLTRVTGIGPAAAR 112

Query: 450 ALGENGIKTMEDL 462
              E GIKT+EDL
Sbjct: 113 KFVEEGIKTLEDL 125


>gi|261838388|gb|ACX98154.1| 30S ribosomal protein S1 [Helicobacter pylori 51]
          Length = 552

 Score = 40.0 bits (93), Expect = 0.84,   Method: Composition-based stats.
 Identities = 21/113 (18%), Positives = 41/113 (36%), Gaps = 8/113 (7%)

Query: 91  IDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVE 150
                 +   +      R +V   K +  QK++    +    E  +    II G +    
Sbjct: 73  YQKNDPIIVHV-SEKGERPSVSYKKAISQQKIQAKIEE--LGE--NYENAIIEGKIVGKN 127

Query: 151 YGNVIVDLGNSDGVIRRDET-ISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            G  IV+    +  + R  + +  +    G R+K+ I  V +E     + +SR
Sbjct: 128 KGGYIVESQGVEYFLSRSHSSLKNDANHIGKRIKACIIRVDKENH--SINISR 178


>gi|240102927|ref|YP_002959236.1| ski2-like helicase [Thermococcus gammatolerans EJ3]
 gi|239910481|gb|ACS33372.1| ski2-type helicase, putative [Thermococcus gammatolerans EJ3]
          Length = 720

 Score = 40.0 bits (93), Expect = 0.84,   Method: Composition-based stats.
 Identities = 17/77 (22%), Positives = 31/77 (40%), Gaps = 4/77 (5%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
            ++  N+    A  L   GF  VE +A  K +E+ ++EG   +    I      +L    
Sbjct: 647 LVRLPNIGRKRARALYNAGFRSVEAIANAKPAELLAVEGIGAKILDGIYR----HLGIEK 702

Query: 422 ITLQKKIRELGVSEELC 438
              ++K +  G  E+  
Sbjct: 703 RVTEEKPKRKGTLEDFL 719


>gi|115394436|gb|ABI97150.1| Rad51 [Pneumocystis carinii]
 gi|115394438|gb|ABI97151.1| Rad51 [Pneumocystis carinii]
          Length = 343

 Score = 40.0 bits (93), Expect = 0.84,   Method: Composition-based stats.
 Identities = 13/80 (16%), Positives = 29/80 (36%), Gaps = 3/80 (3%)

Query: 339 IDIITEEEDSINRQKDFNERTQFFMQAI---NVDEIIAHLLVAEGFADVEELACVKISEI 395
           +D    EE + +  ++        +  +    +       ++  G+  VE +A      I
Sbjct: 3   LDEEPAEESTQDMNEEDIICGPTPLSKLEGNGISASDIKKIIEAGYNTVEAIAYTPKRAI 62

Query: 396 ASIEGFDEETAVEIQGRARE 415
             I+G  E  A ++   A +
Sbjct: 63  LLIKGISEAKADKLISEASK 82


>gi|260495755|ref|ZP_05815877.1| ribosomal protein S1 [Fusobacterium sp. 3_1_33]
 gi|260196713|gb|EEW94238.1| ribosomal protein S1 [Fusobacterium sp. 3_1_33]
          Length = 827

 Score = 40.0 bits (93), Expect = 0.85,   Method: Composition-based stats.
 Identities = 25/120 (20%), Positives = 53/120 (44%), Gaps = 13/120 (10%)

Query: 86  DRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGT 145
           +  P  +IG  V   +  +D     ++ + +     +R++  +    E+K  VG  +   
Sbjct: 686 EETPKFEIGNEVELKITELDLNNKKIKGSLKA----LRKSPWEHVLEEYK--VGTTVEKK 739

Query: 146 VKRV-EYGNVIVDLGNSDGVIR----RDETIS--RENLRPGDRVKSYIYDVRREQRGPQV 198
           +K V ++G  I  +   DG I       E I   R+  + GD VK+ + +V ++ +  ++
Sbjct: 740 IKTVADFGLFIELIKGIDGFIPTQFASKEFIKNIRDKFKEGDIVKAQVVEVNKDTQKIKL 799


>gi|11465811|ref|NP_053955.1| ribosomal protein S1 [Porphyra purpurea]
 gi|1710701|sp|P51345|RR1_PORPU RecName: Full=30S ribosomal protein S1, chloroplastic
 gi|1276811|gb|AAC08231.1| 30S ribosomal protein S1 [Porphyra purpurea]
          Length = 263

 Score = 40.0 bits (93), Expect = 0.85,   Method: Composition-based stats.
 Identities = 19/74 (25%), Positives = 33/74 (44%), Gaps = 10/74 (13%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDE-------TISRENLRPGDRVKSYIYDVR 190
           VG II G + ++    + +  GN  G++   E        I     + GD +K+ I  V 
Sbjct: 191 VGNIIEGVINQITPYGLFIKAGNLKGLVHISEINVKQVERIPS-QFKIGDTIKAVIIHVD 249

Query: 191 REQRGPQVLLSRTH 204
           ++Q   ++ LS  H
Sbjct: 250 KKQG--RLSLSMKH 261


>gi|300781295|ref|ZP_07091149.1| 30S ribosomal protein S1 [Corynebacterium genitalium ATCC 33030]
 gi|300533002|gb|EFK54063.1| 30S ribosomal protein S1 [Corynebacterium genitalium ATCC 33030]
          Length = 491

 Score = 40.0 bits (93), Expect = 0.85,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 40/70 (57%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I++GTV +V++  V++D+G  ++GVI   E          E ++ GD + + +    +
Sbjct: 34  GDIVTGTVVKVDHDEVLLDIGYKTEGVILSRELSIKHDIDPDEVVQIGDEIDALVL--TK 91

Query: 192 EQRGPQVLLS 201
           E +  ++LLS
Sbjct: 92  EDKEGRLLLS 101


>gi|88602302|ref|YP_502480.1| DNA topoisomerase [Methanospirillum hungatei JF-1]
 gi|88187764|gb|ABD40761.1| DNA topoisomerase I [Methanospirillum hungatei JF-1]
          Length = 931

 Score = 40.0 bits (93), Expect = 0.85,   Method: Composition-based stats.
 Identities = 24/121 (19%), Positives = 43/121 (35%)

Query: 342 ITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
           ++EEE    + +  +   +  ++ I +  +        GF   E++A    + +A   G 
Sbjct: 783 LSEEEAKTLKSEAISLIAKNQLKDIGIPAVSLKRYQEAGFLTPEDIASAHPAYLAFKTGI 842

Query: 402 DEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMED 461
             ET  +      + L   D     K        EL S+PG+       L   GI   + 
Sbjct: 843 SIETVGKHATLITQSLGKPDPVKISKKAFESGKIELTSLPGVGESTLEHLYRAGIFDKKS 902

Query: 462 L 462
           L
Sbjct: 903 L 903



 Score = 37.7 bits (87), Expect = 4.9,   Method: Composition-based stats.
 Identities = 30/174 (17%), Positives = 71/174 (40%), Gaps = 9/174 (5%)

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
             ++ + + +   + E +   L+      + EL+ ++ + +A   G  ++ A  +   A 
Sbjct: 665 IEQQKEHYAKMPAMTEALQQKLLDAKIFSLYELSKLEPAVLAKKLGITKKQAETLIHEAN 724

Query: 415 EYLEGIDITLQ--KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL-- 470
           + L+ I    +  K +++    +   S     +K+     E+GI  + D+A  +++ L  
Sbjct: 725 DVLDLIRRRSECKKFMKQFVPPKRGRSH----TKVMNGFTESGINCIGDIASATIESLKK 780

Query: 471 LGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYK-MGWIEKEKVADEEVQ 523
            G SE +   ++     L +    KD     +   RY+  G++  E +A     
Sbjct: 781 TGLSEEEAKTLKSEAISLIAKNQLKDIGIPAVSLKRYQEAGFLTPEDIASAHPA 834


>gi|15612047|ref|NP_223699.1| 30S ribosomal protein S1 [Helicobacter pylori J99]
 gi|12230557|sp|Q9ZKF6|RS1_HELPJ RecName: Full=30S ribosomal protein S1
 gi|4155561|gb|AAD06555.1| 30S RIBOSOMAL PROTEIN S1 [Helicobacter pylori J99]
          Length = 552

 Score = 40.0 bits (93), Expect = 0.85,   Method: Composition-based stats.
 Identities = 23/119 (19%), Positives = 42/119 (35%), Gaps = 15/119 (12%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           +  DP +          P + + +   Q   Q I  K+ E   +            II G
Sbjct: 74  QKNDPIVVHVSE-KGEHPSVSYKKAISQ---QKIQAKIEELGEN--------YENAIIEG 121

Query: 145 TVKRVEYGNVIVDLGNSDGVIRRDET-ISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            +     G  IV+    +  + R  + +  +    G R+K+ I  V +E     + +SR
Sbjct: 122 KIVGKNKGGYIVESQGVEYFLSRSHSSLKNDANHIGKRIKACIIRVDKENH--SINISR 178


>gi|253732118|ref|ZP_04866283.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           USA300_TCH959]
 gi|253724165|gb|EES92894.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           USA300_TCH959]
          Length = 398

 Score = 40.0 bits (93), Expect = 0.86,   Method: Composition-based stats.
 Identities = 21/77 (27%), Positives = 38/77 (49%), Gaps = 12/77 (15%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDET------ISRENLRPGDRVKSYIYD 188
           K G+ ++G V++VE   V+V +  G  +G+I   +          E ++ GD V++Y+  
Sbjct: 21  KEGDKVTGEVQQVEDKQVVVHINGGKFNGIIPISQLSTHHIDSPSEVVKEGDEVEAYVTK 80

Query: 189 V---RREQRGPQVLLSR 202
           V      + G  + LSR
Sbjct: 81  VEFDEENETGAYI-LSR 96



 Score = 37.7 bits (87), Expect = 4.6,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 47/113 (41%), Gaps = 8/113 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
            D S+  G  +   +  +D     V  +++ + Q+  +A++D+         G++I G V
Sbjct: 151 EDFSVFDGQTIRIKVEELDPENNRVILSRKAVEQEENDAKKDQLLQSLN--EGDVIDGKV 208

Query: 147 KRVEYGNVIVDLGNSDGVIRRDE------TISRENLRPGDRVKSYIYDVRREQ 193
            R+      +D+G  DG++   E          E +  G  VK  I  + R+ 
Sbjct: 209 ARLTQFGAFIDIGGVDGLVHVSELSHEHVQTPEEVVSIGQDVKVKIKSIDRDT 261


>gi|332982232|ref|YP_004463673.1| hydroxymethylbutenyl pyrophosphate reductase [Mahella australiensis
           50-1 BON]
 gi|332699910|gb|AEE96851.1| hydroxymethylbutenyl pyrophosphate reductase [Mahella australiensis
           50-1 BON]
          Length = 718

 Score = 40.0 bits (93), Expect = 0.87,   Method: Composition-based stats.
 Identities = 25/83 (30%), Positives = 39/83 (46%), Gaps = 13/83 (15%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDET------ISRENLRPGDRVKSYIYDV 189
            VG+++SG V  V    +IV L G  DGVI R+E          E     D +++    V
Sbjct: 336 HVGQMVSGKVASVSDSEIIVSLGGKQDGVIPREEMGLDEGVSPSEVFHIDDDIEA---QV 392

Query: 190 RREQRGPQ--VLLSRTHPQFMVK 210
           ++  R  +  ++LSR  P  + K
Sbjct: 393 KKTARNEEDNLILSR-KPLLLRK 414


>gi|320142721|gb|EFW34524.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           MRSA177]
          Length = 398

 Score = 40.0 bits (93), Expect = 0.87,   Method: Composition-based stats.
 Identities = 21/77 (27%), Positives = 38/77 (49%), Gaps = 12/77 (15%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDET------ISRENLRPGDRVKSYIYD 188
           K G+ ++G V++VE   V+V +  G  +G+I   +          E ++ GD V++Y+  
Sbjct: 21  KEGDKVTGEVQQVEDKQVVVHINGGKFNGIIPISQLSTHHIDSPSEVVKEGDEVEAYVTK 80

Query: 189 V---RREQRGPQVLLSR 202
           V      + G  + LSR
Sbjct: 81  VEFDEENETGAYI-LSR 96



 Score = 37.7 bits (87), Expect = 4.6,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 47/113 (41%), Gaps = 8/113 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
            D S+  G  +   +  +D     V  +++ + Q+  +A++D+         G++I G V
Sbjct: 151 EDFSVFDGQTIRIKVEELDPENNRVILSRKAVEQEENDAKKDQLLQSLN--EGDVIDGKV 208

Query: 147 KRVEYGNVIVDLGNSDGVIRRDE------TISRENLRPGDRVKSYIYDVRREQ 193
            R+      +D+G  DG++   E          E +  G  VK  I  + R+ 
Sbjct: 209 ARLTQFGAFIDIGGVDGLVHVSELSHEHVQTPEEVVSIGQDVKVKIKSIDRDT 261


>gi|242399653|ref|YP_002995078.1| RecJ-like exonuclease, containing OB-fold nucleic acid-binding
           domains [Thermococcus sibiricus MM 739]
 gi|242266047|gb|ACS90729.1| RecJ-like exonuclease, containing OB-fold nucleic acid-binding
           domains [Thermococcus sibiricus MM 739]
          Length = 740

 Score = 40.0 bits (93), Expect = 0.87,   Method: Composition-based stats.
 Identities = 27/106 (25%), Positives = 52/106 (49%), Gaps = 8/106 (7%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
           VG++  G + RVE   V V L  +  G+I++ + + R   +PG+ +   + DVR E++  
Sbjct: 132 VGKVYKGAIDRVERFGVFVSLNPHVTGLIKKKDLLGRREYKPGEEILVQVLDVRPEKKEV 191

Query: 197 QVLLSRTHPQFMVKLF---HMEVPEIYNGIVQVKAVSRDPGSRAKL 239
            ++ S    +   ++F    + V EI  G++  +   R    R K+
Sbjct: 192 DLIES--ALRHYKEVFVKKELPVTEI--GVLTKEMAGRTIRIRGKI 233


>gi|150402395|ref|YP_001329689.1| DNA repair and recombination protein RadA [Methanococcus
           maripaludis C7]
 gi|166218762|sp|A6VGG2|RADA_METM7 RecName: Full=DNA repair and recombination protein radA
 gi|150033425|gb|ABR65538.1| DNA repair and recombination protein RadA [Methanococcus
           maripaludis C7]
          Length = 322

 Score = 40.0 bits (93), Expect = 0.87,   Method: Composition-based stats.
 Identities = 12/46 (26%), Positives = 18/46 (39%)

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
                 +   V    A  L+  G+ D  ++A   I E+  IEG  E
Sbjct: 1   MADVLTELPGVGPSTAEKLIEAGYLDFMKIATATIGELTDIEGISE 46


>gi|51892808|ref|YP_075499.1| 30S ribosomal protein S1 [Symbiobacterium thermophilum IAM 14863]
 gi|51856497|dbj|BAD40655.1| 30S ribosomal protein S1 [Symbiobacterium thermophilum IAM 14863]
          Length = 441

 Score = 40.0 bits (93), Expect = 0.87,   Method: Composition-based stats.
 Identities = 30/118 (25%), Positives = 49/118 (41%), Gaps = 24/118 (20%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRE-------NLRPGDRVKSYIYDVR 190
           G+I+ G V RV   +++VD+G  S+G+I  +E   R         L+ GD V+  +  V 
Sbjct: 56  GDIVRGQVVRVSDDSIMVDVGYKSEGIIPLNELSHRPLRSAHDAGLKVGDEVQVVVLSVD 115

Query: 191 -REQRGPQVLLSRTHPQFMV----------KLFHMEVPEIYNGIVQVKAVSRDPGSRA 237
            + + G ++   R   Q             ++   EV E   G      +  D G RA
Sbjct: 116 TKGEGGLRISKRRADEQLAWAEVERKFEAGEVIEAEVTEAVKG-----GLVVDLGLRA 168


>gi|115488638|ref|NP_001066806.1| Os12g0497300 [Oryza sativa Japonica Group]
 gi|18874073|dbj|BAB85492.1| Rad51 [Oryza sativa Japonica Group]
 gi|18874075|dbj|BAB85493.1| Rad51 [Oryza sativa Japonica Group]
 gi|108862704|gb|ABA98592.2| DNA repair protein RAD51, putative, expressed [Oryza sativa
           Japonica Group]
 gi|113649313|dbj|BAF29825.1| Os12g0497300 [Oryza sativa Japonica Group]
          Length = 341

 Score = 40.0 bits (93), Expect = 0.87,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 20/53 (37%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           +QA  +  +    L   G   VE +      ++  I+G  E    +I   A +
Sbjct: 31  LQASGIAALDVKKLKDAGLCTVESVVYSPRKDLLQIKGISEAKVDKIIEGASK 83


>gi|332977860|gb|EGK14610.1| hypothetical protein HMPREF9373_0701 [Psychrobacter sp. 1501(2011)]
          Length = 110

 Score = 40.0 bits (93), Expect = 0.88,   Method: Composition-based stats.
 Identities = 25/99 (25%), Positives = 39/99 (39%), Gaps = 10/99 (10%)

Query: 45  TMSDIRVEINPETGDISL-----FRLLEVVEEVENYTCQISL---KVARDRDPSIDIGGV 96
              +I VEI+ +TG+ +      F    ++E VEN   QI L     A +   +I     
Sbjct: 6   EKDNIDVEIDADTGERTTRKGRGFAQETILELVENDKGQIVLRDSSDAENPLVTIAFSDK 65

Query: 97  VSDPL--PPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
           + D L       G   + +A Q ++QK         Y E
Sbjct: 66  IKDMLGREAHIIGHKMIHAAVQEMMQKQVSQWHANVYDE 104


>gi|315185614|gb|EFU19382.1| cytidylate kinase [Spirochaeta thermophila DSM 6578]
          Length = 800

 Score = 40.0 bits (93), Expect = 0.88,   Method: Composition-based stats.
 Identities = 22/121 (18%), Positives = 49/121 (40%), Gaps = 18/121 (14%)

Query: 91  IDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVE 150
              G  +   +  +D  R  +Q      I+++ E         F    G  I   + R E
Sbjct: 647 FQPGQEIEFCITRIDKKRRRIQIG----IKQLSEDPWKALAKAFP--EGSEIETKILRKE 700

Query: 151 YGNVIVDL-GNSDGVIRRDETIS---------RENLRPGDRVKSYIYDVRREQRGPQVLL 200
              ++V++ G  +G I   +            R+ L+ GD +++ + +++  +R  +++L
Sbjct: 701 PQGIVVEVQGGIEGFIPNRQLCDPAVETPENVRDRLKEGDTIRALVLELKPSKR--RLIL 758

Query: 201 S 201
           S
Sbjct: 759 S 759



 Score = 37.7 bits (87), Expect = 4.5,   Method: Composition-based stats.
 Identities = 20/71 (28%), Positives = 36/71 (50%), Gaps = 8/71 (11%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
           K G+I+ G VK        +DLG  DG++   +         ++ ++ G++V+  I  + 
Sbjct: 428 KEGDIVEGVVKSFAPFGAFIDLGGFDGLLHLQDMSWGRAVRPKDYVKKGEKVRVKIIKMD 487

Query: 191 REQRGPQVLLS 201
           REQ+  +V LS
Sbjct: 488 REQQ--KVNLS 496


>gi|119485419|ref|ZP_01619747.1| RNA binding S1 [Lyngbya sp. PCC 8106]
 gi|119457175|gb|EAW38301.1| RNA binding S1 [Lyngbya sp. PCC 8106]
          Length = 295

 Score = 40.0 bits (93), Expect = 0.88,   Method: Composition-based stats.
 Identities = 35/141 (24%), Positives = 53/141 (37%), Gaps = 27/141 (19%)

Query: 116 QVIIQKVREAERDRQYLEFKDK------------VGEIISGTVKRVEYGNVIVDLGNSDG 163
           Q++   + E +RDR  L F  +            VG++I G V  V+   V VDL    G
Sbjct: 158 QLLTVHILELDRDRNKLVFSQRLASESVSFGQLEVGQLIEGKVSSVKPFGVFVDLDGVTG 217

Query: 164 VIRRDETISREN------LRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVP 217
           +I   E   +           G  VK+ + D+   +R  +V LS        +L      
Sbjct: 218 LIHIKEVSQKYIESLPTLFPVGQAVKALVIDLEEGRR--RVSLS-------TRLLENYPG 268

Query: 218 EIYNGIVQVKAVSRDPGSRAK 238
           EI     +V   +     RAK
Sbjct: 269 EIVEKFPEVMDSAEARAERAK 289


>gi|328788487|ref|XP_624827.3| PREDICTED: DNA repair protein RAD51 homolog 1 [Apis mellifera]
          Length = 341

 Score = 40.0 bits (93), Expect = 0.88,   Method: Composition-based stats.
 Identities = 13/75 (17%), Positives = 28/75 (37%), Gaps = 2/75 (2%)

Query: 343 TEEEDSINRQKDFNERTQFF--MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEG 400
           T         +++N + +    ++   +       L   G+  VE +A      + +I+G
Sbjct: 7   TASLQGDEEFEEYNPQAKLIKTLEGNGITAGDVKKLEEAGYYTVEAVAYAPKKCLIAIKG 66

Query: 401 FDEETAVEIQGRARE 415
             E  A +I   A +
Sbjct: 67  ISEAKADKILQEASK 81


>gi|46199091|ref|YP_004758.1| DNA-dependent DNA polymerase beta chain [Thermus thermophilus HB27]
 gi|46196715|gb|AAS81131.1| DNA-dependent DNA polymerase beta chain [Thermus thermophilus HB27]
          Length = 575

 Score = 40.0 bits (93), Expect = 0.88,   Method: Composition-based stats.
 Identities = 22/116 (18%), Positives = 45/116 (38%), Gaps = 9/116 (7%)

Query: 384 VEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSE--ELCSIP 441
           +EE+A      +  + G   + A +I     E+L    +   +++ +       E+  +P
Sbjct: 44  IEEIAEKGKEALMELPGVGPDLAEKIL----EFLRTGKVRKHEELSQKVPRGVLEVMEVP 99

Query: 442 GIDSKIKVALGEN-GIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKD 496
           G+  K    L E  GI ++E L   +  D    +  KG   ++ +     L   + 
Sbjct: 100 GVGPKTARLLYEGLGIDSLEKL--KAALDRGDLTRLKGFGPKRAERIREGLALAQA 153


>gi|317009664|gb|ADU80244.1| 30S ribosomal protein S1 [Helicobacter pylori India7]
          Length = 556

 Score = 40.0 bits (93), Expect = 0.88,   Method: Composition-based stats.
 Identities = 24/119 (20%), Positives = 42/119 (35%), Gaps = 15/119 (12%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           +  DP I          P + + +   Q   Q I  K+ E   +            II G
Sbjct: 78  QKNDPIIVHVSE-KGEHPSVSYKKAISQ---QKIQAKIEELGEN--------YENAIIEG 125

Query: 145 TVKRVEYGNVIVDLGNSDGVIRRDET-ISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            +     G  IV+    +  + R  + +  +    G R+K+ I  V +E     + +SR
Sbjct: 126 KIVGKNKGGYIVESQGVEYFLSRSHSSLKNDANHIGKRIKACIIRVDKENH--SINISR 182


>gi|108742058|gb|AAI17595.1| Pdcd11 protein [Danio rerio]
          Length = 1431

 Score = 40.0 bits (93), Expect = 0.88,   Method: Composition-based stats.
 Identities = 29/142 (20%), Positives = 57/142 (40%), Gaps = 30/142 (21%)

Query: 97  VSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE-----------FKD---KVGEII 142
           + +P   +D   +  Q+  Q I++ +  +  ++ Y             F     KVG+I+
Sbjct: 388 LKEPKEELDTNHLMSQT--QHILRIINYSPIEQIYQATLRWSSIETPFFSCQDIKVGQIV 445

Query: 143 SGTVKRVEYGNVIVDLG-NSDGVIRRDET------ISRENLRPGDRVKSYIYDVRREQRG 195
            GTV  ++   V V +G +  G+I R            +   PG +VK  +  V  +++ 
Sbjct: 446 EGTVTDLQKHGVYVRIGEHIRGMIPRIHLADVTLKNPEKKFYPGLKVKCRVLSVEAQKK- 504

Query: 196 PQVLLSRTHPQFMVKLFHMEVP 217
             ++L+R        L    +P
Sbjct: 505 -LLILTRK-----KALVESTLP 520


>gi|320100660|ref|YP_004176252.1| DEAD/DEAH box helicase domain-containing protein [Desulfurococcus
           mucosus DSM 2162]
 gi|319753012|gb|ADV64770.1| DEAD/DEAH box helicase domain protein [Desulfurococcus mucosus DSM
           2162]
          Length = 714

 Score = 40.0 bits (93), Expect = 0.89,   Method: Composition-based stats.
 Identities = 15/43 (34%), Positives = 25/43 (58%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           A +L+  GF  + +LA   +S IAS+  F +  A E++ + RE
Sbjct: 666 ARILIEHGFKTLRDLAEAPVSSIASLPRFGQRVAEEVERQLRE 708


>gi|325107428|ref|YP_004268496.1| 30S ribosomal protein S1P [Planctomyces brasiliensis DSM 5305]
 gi|324967696|gb|ADY58474.1| SSU ribosomal protein S1P [Planctomyces brasiliensis DSM 5305]
          Length = 608

 Score = 40.0 bits (93), Expect = 0.89,   Method: Composition-based stats.
 Identities = 23/125 (18%), Positives = 54/125 (43%), Gaps = 12/125 (9%)

Query: 82  KVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEI 141
           +   + +P  +IG  +   L  ++     +  +K+    ++RE   +R     +   G+I
Sbjct: 79  EEWEEGEPDPEIGQTIEVLLEDIEDIHGVILLSKRK-ADRIRE--WERIIA--RCDEGDI 133

Query: 142 ISGTVKRVEYGNVIVDLGNSDGVIRRDE---TISRENLR-PGDRVKSYIYDVRREQRGPQ 197
           I+GTV R   G ++V++G  +  +   +       +     G  ++  I  +   +R   
Sbjct: 134 ITGTVVRKIKGGLLVNIG-VNVFLPASQVDIRRPNDIADFIGQEIECIILKIDEPRRN-- 190

Query: 198 VLLSR 202
           +++SR
Sbjct: 191 IVVSR 195


>gi|282916743|ref|ZP_06324501.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus D139]
 gi|283770548|ref|ZP_06343440.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus H19]
 gi|282319230|gb|EFB49582.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus D139]
 gi|283460695|gb|EFC07785.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus H19]
 gi|298694765|gb|ADI97987.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           ED133]
 gi|302333086|gb|ADL23279.1| putative 30S ribosomal protein S1 [Staphylococcus aureus subsp.
           aureus JKD6159]
 gi|329731355|gb|EGG67721.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           21193]
          Length = 391

 Score = 40.0 bits (93), Expect = 0.89,   Method: Composition-based stats.
 Identities = 21/77 (27%), Positives = 38/77 (49%), Gaps = 12/77 (15%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDET------ISRENLRPGDRVKSYIYD 188
           K G+ ++G V++VE   V+V +  G  +G+I   +          E ++ GD V++Y+  
Sbjct: 14  KEGDKVTGEVQQVEDKQVVVHINGGKFNGIIPISQLSTHHIDSPSEVVKEGDEVEAYVTK 73

Query: 189 V---RREQRGPQVLLSR 202
           V      + G  + LSR
Sbjct: 74  VEFDEENETGAYI-LSR 89



 Score = 37.7 bits (87), Expect = 4.6,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 47/113 (41%), Gaps = 8/113 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
            D S+  G  +   +  +D     V  +++ + Q+  +A++D+         G++I G V
Sbjct: 144 EDFSVFDGQTIRIKVEELDPENNRVILSRKAVEQEENDAKKDQLLQSLN--EGDVIDGKV 201

Query: 147 KRVEYGNVIVDLGNSDGVIRRDE------TISRENLRPGDRVKSYIYDVRREQ 193
            R+      +D+G  DG++   E          E +  G  VK  I  + R+ 
Sbjct: 202 ARLTQFGAFIDIGGVDGLVHVSELSHEHVQTPEEVVSIGQDVKVKIKSIDRDT 254


>gi|170035198|ref|XP_001845458.1| DNA repair protein RAD51 [Culex quinquefasciatus]
 gi|167877010|gb|EDS40393.1| DNA repair protein RAD51 [Culex quinquefasciatus]
          Length = 349

 Score = 40.0 bits (93), Expect = 0.89,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 22/53 (41%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           ++   +       L   GF  VE +A     ++ +I+G  E  A +I   A +
Sbjct: 38  LEGNGITSGDLKKLGEAGFHTVESVAFAPKKQLIAIKGISEAKADKIILEASK 90


>gi|141795595|gb|AAI39595.1| Pdcd11 protein [Danio rerio]
          Length = 932

 Score = 40.0 bits (93), Expect = 0.89,   Method: Composition-based stats.
 Identities = 30/142 (21%), Positives = 57/142 (40%), Gaps = 30/142 (21%)

Query: 97  VSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE-----------FKD---KVGEII 142
           + +P   +D   +  QS  Q I++ +  +  ++ Y             F     KVG+I+
Sbjct: 388 LKEPKEELDTNHLMSQS--QHILRIINYSPIEQIYQATLRWSSIETPFFSCQDIKVGQIV 445

Query: 143 SGTVKRVEYGNVIVDLG-NSDGVIRRDET------ISRENLRPGDRVKSYIYDVRREQRG 195
            GTV  ++   V V +G +  G+I R            +   PG +VK  +  V  +++ 
Sbjct: 446 EGTVIDLQKHGVYVRIGEHIRGMIPRIHLADVTLKNPEKKFYPGLKVKCRVLSVEAQKK- 504

Query: 196 PQVLLSRTHPQFMVKLFHMEVP 217
             ++L+R        L    +P
Sbjct: 505 -LLILTRK-----KALVESTLP 520


>gi|89900358|ref|YP_522829.1| 30S ribosomal protein S1 [Rhodoferax ferrireducens T118]
 gi|89345095|gb|ABD69298.1| SSU ribosomal protein S1P [Rhodoferax ferrireducens T118]
          Length = 566

 Score = 40.0 bits (93), Expect = 0.89,   Method: Composition-based stats.
 Identities = 20/68 (29%), Positives = 34/68 (50%), Gaps = 7/68 (10%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G++++G VK V+     +DLG+   G +R  E         R  L+ GD V + + +V 
Sbjct: 455 KGQVVTGKVKTVDAKGAEIDLGDDIIGYLRASEISRDRVEDARNVLKEGDEVTAVVVNVD 514

Query: 191 REQRGPQV 198
           R+ R  Q+
Sbjct: 515 RKTRNIQL 522


>gi|323439521|gb|EGA97242.1| 30S ribosomal protein S1 [Staphylococcus aureus O11]
 gi|323442240|gb|EGA99871.1| 30S ribosomal protein S1 [Staphylococcus aureus O46]
          Length = 391

 Score = 40.0 bits (93), Expect = 0.90,   Method: Composition-based stats.
 Identities = 21/77 (27%), Positives = 38/77 (49%), Gaps = 12/77 (15%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDET------ISRENLRPGDRVKSYIYD 188
           K G+ ++G V++VE   V+V +  G  +G+I   +          E ++ GD V++Y+  
Sbjct: 14  KEGDKVTGEVQQVEDKQVVVHINGGKFNGIIPISQLSTHHIDSPSEVVKEGDEVEAYVTK 73

Query: 189 V---RREQRGPQVLLSR 202
           V      + G  + LSR
Sbjct: 74  VEFDEENETGAYI-LSR 89



 Score = 37.7 bits (87), Expect = 4.6,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 47/113 (41%), Gaps = 8/113 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
            D S+  G  +   +  +D     V  +++ + Q+  +A++D+         G++I G V
Sbjct: 144 EDFSVFDGQTIRIKVEELDPENNRVILSRKAVEQEENDAKKDQLLQSLN--EGDVIDGKV 201

Query: 147 KRVEYGNVIVDLGNSDGVIRRDE------TISRENLRPGDRVKSYIYDVRREQ 193
            R+      +D+G  DG++   E          E +  G  VK  I  + R+ 
Sbjct: 202 ARLTQFGAFIDIGGVDGLVHVSELSHEHVQTPEEVVSIGQDVKVKIKSIDRDT 254


>gi|304384418|ref|ZP_07366824.1| NAD-dependent DNA ligase LigA [Prevotella marshii DSM 16973]
 gi|304334516|gb|EFM00803.1| NAD-dependent DNA ligase LigA [Prevotella marshii DSM 16973]
          Length = 680

 Score = 40.0 bits (93), Expect = 0.90,   Method: Composition-based stats.
 Identities = 24/135 (17%), Positives = 45/135 (33%), Gaps = 34/135 (25%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           V E  A LL    F +++ L      E+  IEG     A  + G  R     ++  + ++
Sbjct: 530 VGETSARLLARR-FKNIDALMEASPDELMQIEGVGMSIANSVVGYFRN---PVNREIVER 585

Query: 428 IRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGF 487
           +R            G   ++                  S D++ G ++   G      G 
Sbjct: 586 LR------------GYGLQMA----------------LSADEMTGMTDRLAGKTVVISGV 617

Query: 488 LSSLGTPKDQVESMI 502
            S     +++ + MI
Sbjct: 618 FSHH--SREEYKRMI 630


>gi|325954411|ref|YP_004238071.1| RNA binding S1 domain protein [Weeksella virosa DSM 16922]
 gi|323437029|gb|ADX67493.1| RNA binding S1 domain protein [Weeksella virosa DSM 16922]
          Length = 604

 Score = 40.0 bits (93), Expect = 0.91,   Method: Composition-based stats.
 Identities = 32/134 (23%), Positives = 52/134 (38%), Gaps = 10/134 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +K  RD D  +             +F  V V   K +I   + E +++  
Sbjct: 171 EAFLPGSQIDVKPIRDYDQYVGKTMEFKVVKINPEFKNVVVSH-KALIEADIEEQKKEIV 229

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
                +K G+++ G VK +    V VDLG  DG+I   +          E L  G ++  
Sbjct: 230 AQ--LEK-GQVLEGEVKNITSYGVFVDLGGVDGLIHITDLSWSRINHPSEILEDGQKINV 286

Query: 185 YIYDVRREQRGPQV 198
            I D   ++   Q+
Sbjct: 287 VILDFDEDKSRIQL 300


>gi|217034328|ref|ZP_03439744.1| hypothetical protein HP9810_491g21 [Helicobacter pylori 98-10]
 gi|216943213|gb|EEC22680.1| hypothetical protein HP9810_491g21 [Helicobacter pylori 98-10]
          Length = 552

 Score = 40.0 bits (93), Expect = 0.91,   Method: Composition-based stats.
 Identities = 23/119 (19%), Positives = 42/119 (35%), Gaps = 15/119 (12%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           +  DP +          P + + +   Q   Q I  K+ E   +            II G
Sbjct: 74  QKNDPIVVHVSE-KGEHPSVSYKKAISQ---QKIQAKIEELGEN--------YENAIIEG 121

Query: 145 TVKRVEYGNVIVDLGNSDGVIRRDET-ISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            +     G  IV+    +  + R  + +  +    G R+K+ I  V +E     + +SR
Sbjct: 122 KIVGKNKGGYIVESQGVEYFLSRSHSSLKNDANHIGKRIKACIIRVDKENH--SINISR 178


>gi|49483663|ref|YP_040887.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           MRSA252]
 gi|257425540|ref|ZP_05601965.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           55/2053]
 gi|257428199|ref|ZP_05604597.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           65-1322]
 gi|257430829|ref|ZP_05607211.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           68-397]
 gi|257433588|ref|ZP_05609946.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           E1410]
 gi|257436429|ref|ZP_05612476.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus M876]
 gi|282904058|ref|ZP_06311946.1| ribosomal protein S1 [Staphylococcus aureus subsp. aureus C160]
 gi|282905822|ref|ZP_06313677.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           Btn1260]
 gi|282908793|ref|ZP_06316611.1| ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           WW2703/97]
 gi|282911053|ref|ZP_06318855.1| ribosomal protein S1 [Staphylococcus aureus subsp. aureus WBG10049]
 gi|282914266|ref|ZP_06322053.1| ribosomal protein S1 [Staphylococcus aureus subsp. aureus M899]
 gi|282919189|ref|ZP_06326924.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus C427]
 gi|282924373|ref|ZP_06332047.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus C101]
 gi|283958240|ref|ZP_06375691.1| ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           A017934/97]
 gi|293501291|ref|ZP_06667142.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           58-424]
 gi|293510253|ref|ZP_06668961.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus M809]
 gi|293526848|ref|ZP_06671532.1| ribosomal protein S1 [Staphylococcus aureus subsp. aureus M1015]
 gi|295427984|ref|ZP_06820616.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           EMRSA16]
 gi|297591046|ref|ZP_06949684.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus MN8]
 gi|81651112|sp|Q6GGT5|RS1_STAAR RecName: Full=30S ribosomal protein S1
 gi|49241792|emb|CAG40483.1| putative 30S ribosomal protein S1 [Staphylococcus aureus subsp.
           aureus MRSA252]
 gi|257271997|gb|EEV04135.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           55/2053]
 gi|257275040|gb|EEV06527.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           65-1322]
 gi|257278957|gb|EEV09576.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           68-397]
 gi|257281681|gb|EEV11818.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           E1410]
 gi|257284711|gb|EEV14831.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus M876]
 gi|282313760|gb|EFB44153.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus C101]
 gi|282316999|gb|EFB47373.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus C427]
 gi|282322334|gb|EFB52658.1| ribosomal protein S1 [Staphylococcus aureus subsp. aureus M899]
 gi|282324748|gb|EFB55058.1| ribosomal protein S1 [Staphylococcus aureus subsp. aureus WBG10049]
 gi|282327057|gb|EFB57352.1| ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           WW2703/97]
 gi|282331114|gb|EFB60628.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           Btn1260]
 gi|282595676|gb|EFC00640.1| ribosomal protein S1 [Staphylococcus aureus subsp. aureus C160]
 gi|283790389|gb|EFC29206.1| ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           A017934/97]
 gi|290920406|gb|EFD97470.1| ribosomal protein S1 [Staphylococcus aureus subsp. aureus M1015]
 gi|291096296|gb|EFE26557.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           58-424]
 gi|291467197|gb|EFF09715.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus M809]
 gi|295128342|gb|EFG57976.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           EMRSA16]
 gi|297575932|gb|EFH94648.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus MN8]
 gi|312438121|gb|ADQ77192.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           TCH60]
          Length = 391

 Score = 40.0 bits (93), Expect = 0.91,   Method: Composition-based stats.
 Identities = 21/77 (27%), Positives = 38/77 (49%), Gaps = 12/77 (15%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDET------ISRENLRPGDRVKSYIYD 188
           K G+ ++G V++VE   V+V +  G  +G+I   +          E ++ GD V++Y+  
Sbjct: 14  KEGDKVTGEVQQVEDKQVVVHINGGKFNGIIPISQLSTHHIDSPSEVVKEGDEVEAYVTK 73

Query: 189 V---RREQRGPQVLLSR 202
           V      + G  + LSR
Sbjct: 74  VEFDEENETGAYI-LSR 89



 Score = 37.7 bits (87), Expect = 4.6,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 47/113 (41%), Gaps = 8/113 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
            D S+  G  +   +  +D     V  +++ + Q+  +A++D+         G++I G V
Sbjct: 144 EDFSVFDGQTIRIKVEELDPENNRVILSRKAVEQEENDAKKDQLLQSLN--EGDVIDGKV 201

Query: 147 KRVEYGNVIVDLGNSDGVIRRDE------TISRENLRPGDRVKSYIYDVRREQ 193
            R+      +D+G  DG++   E          E +  G  VK  I  + R+ 
Sbjct: 202 ARLTQFGAFIDIGGVDGLVHVSELSHEHVQTPEEVVSIGQDVKVKIKSIDRDT 254


>gi|169236999|ref|YP_001690199.1| DNA repair and recombination protein RadA [Halobacterium salinarum
           R1]
 gi|13878695|sp|Q9HMM4|RADA_HALSA RecName: Full=DNA repair and recombination protein radA
 gi|226736606|sp|B0R7Y4|RADA_HALS3 RecName: Full=DNA repair and recombination protein radA
 gi|167728065|emb|CAP14853.1| DNA repair protein [Halobacterium salinarum R1]
          Length = 343

 Score = 40.0 bits (93), Expect = 0.91,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 23/57 (40%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
             +   V    A  L   GF   + LA    +E+++     E TA ++   ARE  +
Sbjct: 6   LEELPGVGPATAEKLRDNGFDAFQSLAVANSAELSNTADIGESTAADVIQAAREAAD 62


>gi|21283094|ref|NP_646182.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus MW2]
 gi|49486315|ref|YP_043536.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           MSSA476]
 gi|57650431|ref|YP_186360.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus COL]
 gi|87162219|ref|YP_494062.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           USA300_FPR3757]
 gi|88195210|ref|YP_500011.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus NCTC
           8325]
 gi|151221597|ref|YP_001332419.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus str.
           Newman]
 gi|161509643|ref|YP_001575302.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           USA300_TCH1516]
 gi|221140957|ref|ZP_03565450.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus str.
           JKD6009]
 gi|253733277|ref|ZP_04867442.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           TCH130]
 gi|258451134|ref|ZP_05699169.1| ribosomal protein S1 [Staphylococcus aureus A5948]
 gi|262048998|ref|ZP_06021877.1| 30S ribosomal protein S1 [Staphylococcus aureus D30]
 gi|262051645|ref|ZP_06023865.1| 30S ribosomal protein S1 [Staphylococcus aureus 930918-3]
 gi|282921723|ref|ZP_06329440.1| 30S ribosomal protein S1 [Staphylococcus aureus A9765]
 gi|284024474|ref|ZP_06378872.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus 132]
 gi|294848439|ref|ZP_06789185.1| 30S ribosomal protein S1 [Staphylococcus aureus A9754]
 gi|300911950|ref|ZP_07129393.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           TCH70]
 gi|304380941|ref|ZP_07363600.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus ATCC
           BAA-39]
 gi|81649285|sp|Q6G987|RS1_STAAS RecName: Full=30S ribosomal protein S1
 gi|81694467|sp|Q5HFU7|RS1_STAAC RecName: Full=30S ribosomal protein S1
 gi|81762485|sp|Q8NWM8|RS1_STAAW RecName: Full=30S ribosomal protein S1
 gi|21204534|dbj|BAB95230.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus MW2]
 gi|49244758|emb|CAG43194.1| putative 30S ribosomal protein S1 [Staphylococcus aureus subsp.
           aureus MSSA476]
 gi|57284617|gb|AAW36711.1| ribosomal protein S1 [Staphylococcus aureus subsp. aureus COL]
 gi|87128193|gb|ABD22707.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           USA300_FPR3757]
 gi|87202768|gb|ABD30578.1| 30S ribosomal protein S1, putative [Staphylococcus aureus subsp.
           aureus NCTC 8325]
 gi|150374397|dbj|BAF67657.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus str.
           Newman]
 gi|160368452|gb|ABX29423.1| ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           USA300_TCH1516]
 gi|253728817|gb|EES97546.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           TCH130]
 gi|257861189|gb|EEV84002.1| ribosomal protein S1 [Staphylococcus aureus A5948]
 gi|259160486|gb|EEW45510.1| 30S ribosomal protein S1 [Staphylococcus aureus 930918-3]
 gi|259162930|gb|EEW47493.1| 30S ribosomal protein S1 [Staphylococcus aureus D30]
 gi|269940967|emb|CBI49351.1| putative 30S ribosomal protein S1 [Staphylococcus aureus subsp.
           aureus TW20]
 gi|282593985|gb|EFB98974.1| 30S ribosomal protein S1 [Staphylococcus aureus A9765]
 gi|294824465|gb|EFG40888.1| 30S ribosomal protein S1 [Staphylococcus aureus A9754]
 gi|300886196|gb|EFK81398.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           TCH70]
 gi|302751306|gb|ADL65483.1| putative 30S ribosomal protein S1 [Staphylococcus aureus subsp.
           aureus str. JKD6008]
 gi|304340527|gb|EFM06462.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus ATCC
           BAA-39]
 gi|315197777|gb|EFU28111.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           CGS01]
 gi|320140352|gb|EFW32208.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           MRSA131]
 gi|329314152|gb|AEB88565.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           T0131]
 gi|329723178|gb|EGG59709.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           21189]
          Length = 391

 Score = 40.0 bits (93), Expect = 0.91,   Method: Composition-based stats.
 Identities = 21/77 (27%), Positives = 38/77 (49%), Gaps = 12/77 (15%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDET------ISRENLRPGDRVKSYIYD 188
           K G+ ++G V++VE   V+V +  G  +G+I   +          E ++ GD V++Y+  
Sbjct: 14  KEGDKVTGEVQQVEDKQVVVHINGGKFNGIIPISQLSTHHIDSPSEVVKEGDEVEAYVTK 73

Query: 189 V---RREQRGPQVLLSR 202
           V      + G  + LSR
Sbjct: 74  VEFDEENETGAYI-LSR 89



 Score = 37.7 bits (87), Expect = 4.6,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 47/113 (41%), Gaps = 8/113 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
            D S+  G  +   +  +D     V  +++ + Q+  +A++D+         G++I G V
Sbjct: 144 EDFSVFDGQTIRIKVEELDPENNRVILSRKAVEQEENDAKKDQLLQSLN--EGDVIDGKV 201

Query: 147 KRVEYGNVIVDLGNSDGVIRRDE------TISRENLRPGDRVKSYIYDVRREQ 193
            R+      +D+G  DG++   E          E +  G  VK  I  + R+ 
Sbjct: 202 ARLTQFGAFIDIGGVDGLVHVSELSHEHVQTPEEVVSIGQDVKVKIKSIDRDT 254


>gi|317012828|gb|ADU83436.1| 30S ribosomal protein S1 [Helicobacter pylori Lithuania75]
          Length = 556

 Score = 40.0 bits (93), Expect = 0.91,   Method: Composition-based stats.
 Identities = 24/119 (20%), Positives = 42/119 (35%), Gaps = 15/119 (12%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           +  DP I          P + + +   Q   Q I  K+ E   +            II G
Sbjct: 78  QKNDPIIVHVSE-KGEHPSVSYKKAISQ---QKIQAKIEELGEN--------YENAIIEG 125

Query: 145 TVKRVEYGNVIVDLGNSDGVIRRDET-ISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            +     G  IV+    +  + R  + +  +    G R+K+ I  V +E     + +SR
Sbjct: 126 KIVGKNKGGYIVESQGVEYFLSRSHSSLKNDANHIGKRIKACIIRVDKENH--SINISR 182


>gi|313202750|ref|YP_004041407.1| SSU ribosomal protein s1p [Paludibacter propionicigenes WB4]
 gi|312442066|gb|ADQ78422.1| SSU ribosomal protein S1P [Paludibacter propionicigenes WB4]
          Length = 682

 Score = 40.0 bits (93), Expect = 0.91,   Method: Composition-based stats.
 Identities = 36/150 (24%), Positives = 67/150 (44%), Gaps = 19/150 (12%)

Query: 67  EVVEEVENYTCQISLKVAR--DRDPSIDIGGVVSD----------PLPPMDFGRVAVQSA 114
           EV+  VE    + +  V           +  V+ +          P+P  DF   A +  
Sbjct: 10  EVIPTVEETVIEETQAVVETPAAAEEAPVVEVIEEAPTAKVKAPAPVPAGDFDWDAYE-- 67

Query: 115 KQVIIQKVREAERDRQYLEFKD--KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI 171
           K + +    + + ++ Y    +  K  E++ GTV  +    V+V++G  SDGV+   E  
Sbjct: 68  KGITLTDSAKEDLEKIYDNTLNAIKDKEVVEGTVILINKREVVVNVGYKSDGVVPMSEFR 127

Query: 172 SRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
              +L  GD+V+ YI   + +++G Q++LS
Sbjct: 128 YNPDLAVGDKVEVYIES-QEDKKG-QLILS 155


>gi|189423321|ref|YP_001950498.1| hypothetical protein Glov_0249 [Geobacter lovleyi SZ]
 gi|189419580|gb|ACD93978.1| conserved hypothetical protein [Geobacter lovleyi SZ]
          Length = 236

 Score = 40.0 bits (93), Expect = 0.91,   Method: Composition-based stats.
 Identities = 39/250 (15%), Positives = 76/250 (30%), Gaps = 55/250 (22%)

Query: 21  SIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQIS 80
            +  D ++  +  ++ K   + +     +R E     G++ +                  
Sbjct: 11  GLPEDEIVDAVECAVAKTLTAAFQRTVTVRAE-----GELEIIAY--------------- 50

Query: 81  LKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGE 140
                   P +     +     P    R  + S +  + ++    E  +     ++  G 
Sbjct: 51  --------PKLGHPVEMQLKDIPKKLRRHIIHSVEAELQKRQILLEAKKL----QELQGR 98

Query: 141 IISGTVKRV-EYGNVIVDLGNSD--------GVIRRDETISRE--NLRPGDRVKSYIYDV 189
           +  G V R+   G + V L   D        G          E    R G++    +  V
Sbjct: 99  VFCGAVGRIGSRGTLHVTLEIDDLLKPLILFGECPLRYQPPHERSRYRIGEQRSFLVTSV 158

Query: 190 RREQRG-----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA--VF 242
           R    G      +++L+RT       L          GI  +K   R  G  +++   V 
Sbjct: 159 RPVMVGGDIAKVRLILNRTSRVLPALLLQD-----LTGIAGIKCRRRIAGGFSEVVTPVR 213

Query: 243 SSDSSIDPVG 252
               SI+ VG
Sbjct: 214 IPKKSINTVG 223


>gi|297207865|ref|ZP_06924298.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus ATCC
           51811]
 gi|296887439|gb|EFH26339.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus ATCC
           51811]
          Length = 391

 Score = 40.0 bits (93), Expect = 0.92,   Method: Composition-based stats.
 Identities = 21/77 (27%), Positives = 38/77 (49%), Gaps = 12/77 (15%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDET------ISRENLRPGDRVKSYIYD 188
           K G+ ++G V++VE   V+V +  G  +G+I   +          E ++ GD V++Y+  
Sbjct: 14  KEGDKVTGEVQQVEDKQVVVHINGGKFNGIIPISQLSTHHIDSPSEVVKEGDEVEAYVTK 73

Query: 189 V---RREQRGPQVLLSR 202
           V      + G  + LSR
Sbjct: 74  VEFDEENETGAYI-LSR 89



 Score = 37.4 bits (86), Expect = 6.6,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 47/113 (41%), Gaps = 8/113 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
            D S+  G  +   +  +D     V  +++ + Q+  +A++D+         G++I G V
Sbjct: 144 EDFSVFDGQTIRIKVEELDPENNRVILSRKAVEQEENDAKKDQLLQSLN--EGDVIDGKV 201

Query: 147 KRVEYGNVIVDLGNSDGVIRRDE------TISRENLRPGDRVKSYIYDVRREQ 193
            R+      +D+G  DG++   E          E +  G  VK  I  + R+ 
Sbjct: 202 ARLTQFGAFIDIGGVDGLVHVSELSHEHVQTPEEIVSIGQDVKVKIKSIDRDT 254


>gi|160900156|ref|YP_001565738.1| 30S ribosomal protein S1 [Delftia acidovorans SPH-1]
 gi|160365740|gb|ABX37353.1| ribosomal protein S1 [Delftia acidovorans SPH-1]
          Length = 561

 Score = 40.0 bits (93), Expect = 0.92,   Method: Composition-based stats.
 Identities = 21/68 (30%), Positives = 35/68 (51%), Gaps = 7/68 (10%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
            G+I+SG VK V+     +DLG +  G +R  E        +R  L+ GD + + + +V 
Sbjct: 450 KGQIVSGKVKTVDARGAEIDLGEDIIGYLRASEIAVDRVEDARSVLKEGDEITAVVVNVD 509

Query: 191 REQRGPQV 198
           R+ R  Q+
Sbjct: 510 RKTRNIQL 517


>gi|258422493|ref|ZP_05685401.1| ribosomal protein S1 [Staphylococcus aureus A9635]
 gi|257847250|gb|EEV71256.1| ribosomal protein S1 [Staphylococcus aureus A9635]
          Length = 391

 Score = 40.0 bits (93), Expect = 0.94,   Method: Composition-based stats.
 Identities = 21/77 (27%), Positives = 38/77 (49%), Gaps = 12/77 (15%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDET------ISRENLRPGDRVKSYIYD 188
           K G+ ++G V++VE   V+V +  G  +G+I   +          E ++ GD V++Y+  
Sbjct: 14  KEGDKVTGEVQQVEDKQVVVHINGGKFNGIIPISQLSTHHIDSPSEVVKEGDEVEAYVTK 73

Query: 189 V---RREQRGPQVLLSR 202
           V      + G  + LSR
Sbjct: 74  VEFDEENETGAYI-LSR 89



 Score = 37.7 bits (87), Expect = 4.7,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 47/113 (41%), Gaps = 8/113 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
            D S+  G  +   +  +D     V  +++ + Q+  +A++D+         G++I G V
Sbjct: 144 EDFSVFDGQTIRIKVEELDPENNRVILSRKAVEQEENDAKKDQLLQSLN--EGDVIDGKV 201

Query: 147 KRVEYGNVIVDLGNSDGVIRRDE------TISRENLRPGDRVKSYIYDVRREQ 193
            R+      +D+G  DG++   E          E +  G  VK  I  + R+ 
Sbjct: 202 ARLTQFGAFIDIGGVDGLVHVSELSHEHVQTPEEVVSIGQDVKVKIKSIDRDT 254


>gi|126277687|ref|XP_001370867.1| PREDICTED: similar to RAD51 homolog (RecA homolog, E. coli) (S.
           cerevisiae), isoform 2 [Monodelphis domestica]
          Length = 242

 Score = 40.0 bits (93), Expect = 0.94,   Method: Composition-based stats.
 Identities = 12/41 (29%), Positives = 19/41 (46%)

Query: 376 LVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
           L   G+  VE +A     E+ +++G  E  A +I   A  Y
Sbjct: 41  LEEAGYHTVEAVAYAPKKELINVKGISEAKADKILVIAERY 81


>gi|110667057|ref|YP_656868.1| halomucin [Haloquadratum walsbyi DSM 16790]
 gi|118573792|sp|Q18DN4|HMU_HALWD RecName: Full=Halomucin; Flags: Precursor
 gi|109624804|emb|CAJ51211.1| halomucin [Haloquadratum walsbyi DSM 16790]
          Length = 9159

 Score = 40.0 bits (93), Expect = 0.94,   Method: Composition-based stats.
 Identities = 20/86 (23%), Positives = 30/86 (34%), Gaps = 4/86 (4%)

Query: 328  VRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEEL 387
             +LA Q + W    IT  E  + +     +          +    A  L   G   V++L
Sbjct: 8819 AKLAIQSSAW----ITTVETRLWQLLSGEDSPSSSRSLAAIAGESASELNEVGVDSVDQL 8874

Query: 388  ACVKISEIASIEGFDEETAVEIQGRA 413
            A     ++AS    DE    E   RA
Sbjct: 8875 ASADPEQLASALEIDESAVAEWVNRA 8900


>gi|308184793|ref|YP_003928926.1| 30S ribosomal protein S1 [Helicobacter pylori SJM180]
 gi|308060713|gb|ADO02609.1| 30S ribosomal protein S1 [Helicobacter pylori SJM180]
          Length = 556

 Score = 40.0 bits (93), Expect = 0.95,   Method: Composition-based stats.
 Identities = 24/119 (20%), Positives = 42/119 (35%), Gaps = 15/119 (12%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           +  DP I          P + + +   Q   Q I  K+ E   +            II G
Sbjct: 78  QKNDPIIVHVSE-KGEHPSVSYKKAISQ---QKIQAKIEELGEN--------YENAIIEG 125

Query: 145 TVKRVEYGNVIVDLGNSDGVIRRDET-ISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            +     G  IV+    +  + R  + +  +    G R+K+ I  V +E     + +SR
Sbjct: 126 KIVGKNKGGYIVESQGVEYFLSRSHSSLKNDANHIGKRIKACIIRVDKENH--SINISR 182


>gi|315195373|gb|EFU25760.1| 30S ribosomal protein S1 [Staphylococcus aureus subsp. aureus
           CGS00]
          Length = 391

 Score = 40.0 bits (93), Expect = 0.96,   Method: Composition-based stats.
 Identities = 21/77 (27%), Positives = 38/77 (49%), Gaps = 12/77 (15%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDET------ISRENLRPGDRVKSYIYD 188
           K G+ ++G V++VE   V+V +  G  +G+I   +          E ++ GD V++Y+  
Sbjct: 14  KEGDKVTGEVQQVEDKQVVVHINGGKFNGIIPISQLSTHHIDSPSEVVKEGDEVEAYVTK 73

Query: 189 V---RREQRGPQVLLSR 202
           V      + G  + LSR
Sbjct: 74  VEFDEENETGAYI-LSR 89



 Score = 37.0 bits (85), Expect = 9.1,   Method: Composition-based stats.
 Identities = 23/113 (20%), Positives = 47/113 (41%), Gaps = 8/113 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
            D S+  G  +   +  ++     V  +++ + Q+  +A++D+         G++I G V
Sbjct: 144 EDFSVFDGQTIRIKVEELEPENNRVILSRKAVEQEENDAKKDQLLQSLN--EGDVIDGKV 201

Query: 147 KRVEYGNVIVDLGNSDGVIRRDE------TISRENLRPGDRVKSYIYDVRREQ 193
            R+      +D+G  DG++   E          E +  G  VK  I  + R+ 
Sbjct: 202 ARLTQFGAFIDIGGVDGLVHVSELSHEHVQTPEEVVSIGQDVKVKIKSIDRDT 254


>gi|291234615|ref|XP_002737239.1| PREDICTED: insulin-like growth factor 2 mRNA binding protein 1-like
           [Saccoglossus kowalevskii]
          Length = 655

 Score = 40.0 bits (93), Expect = 0.96,   Method: Composition-based stats.
 Identities = 21/72 (29%), Positives = 37/72 (51%), Gaps = 1/72 (1%)

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           + ++VP   +   IG++G N+RL +Q T   +DI+  +E++   +K  N      +Q  N
Sbjct: 230 VRLLVPSSMVGAIIGKKGANIRLITQQTKAKVDILRSKENASALEKAINIY-GTPLQCSN 288

Query: 368 VDEIIAHLLVAE 379
             E I   +V E
Sbjct: 289 TVEQIMETMVKE 300


>gi|283470687|emb|CAQ49898.1| putative 30S ribosomal protein S1 homolog [Staphylococcus aureus
           subsp. aureus ST398]
          Length = 391

 Score = 40.0 bits (93), Expect = 0.96,   Method: Composition-based stats.
 Identities = 21/77 (27%), Positives = 38/77 (49%), Gaps = 12/77 (15%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDET------ISRENLRPGDRVKSYIYD 188
           K G+ ++G V++VE   V+V +  G  +G+I   +          E ++ GD V++Y+  
Sbjct: 14  KEGDKVTGEVQQVEDKQVVVHINGGKFNGIIPISQLSTHHIDSPSEVVKEGDEVEAYVTK 73

Query: 189 V---RREQRGPQVLLSR 202
           V      + G  + LSR
Sbjct: 74  VEFDEENETGAYI-LSR 89



 Score = 37.7 bits (87), Expect = 5.1,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 47/113 (41%), Gaps = 8/113 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
            D S+  G  +   +  +D     V  +++ + Q+  +A++D+         G++I G V
Sbjct: 144 EDFSVFDGQTIRIKVEELDPENNRVILSRKAVEQEENDAKKDQLLQSLN--EGDVIDGKV 201

Query: 147 KRVEYGNVIVDLGNSDGVIRRDE------TISRENLRPGDRVKSYIYDVRREQ 193
            R+      +D+G  DG++   E          E +  G  VK  I  + R+ 
Sbjct: 202 ARLTQFGAFIDIGGVDGLVHVSELSHEHVQTPEEVVSIGQDVKVKIKSIDRDT 254


>gi|323466657|gb|ADX70344.1| 30S ribosomal protein S1 [Lactobacillus helveticus H10]
          Length = 403

 Score = 40.0 bits (93), Expect = 0.97,   Method: Composition-based stats.
 Identities = 34/167 (20%), Positives = 64/167 (38%), Gaps = 35/167 (20%)

Query: 119 IQKVREAERDRQYLEFKDK--VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI----- 171
            + + E ER++ + +   +  VG++I G V R+      +D+G  DG++   E       
Sbjct: 176 HKDLVEEEREKAFDKVASQLVVGDVIEGKVSRLTNFGGFIDVGGVDGLVHISEISYKHVD 235

Query: 172 -SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVK---------LFHMEV----- 216
              + L+ G  VK  +  +  ++    + + +T P    +         +F  EV     
Sbjct: 236 KPSDVLKAGQDVKVKVIGIDNDRHRISLSIKQTEPSPFEQATADLNEGDVFEGEVKSLTN 295

Query: 217 ----PEIYNGIVQVKAVSRD-------PGSRAKLA--VFSSDSSIDP 250
                E+ +GI  +  VS         P    K+   V     +IDP
Sbjct: 296 FGAFVEVADGIQGLVHVSEISNKHVDKPSDVLKVGQTVKVKVLNIDP 342


>gi|313674969|ref|YP_004052965.1| SSU ribosomal protein s1p [Marivirga tractuosa DSM 4126]
 gi|312941667|gb|ADR20857.1| SSU ribosomal protein S1P [Marivirga tractuosa DSM 4126]
          Length = 660

 Score = 40.0 bits (93), Expect = 0.97,   Method: Composition-based stats.
 Identities = 27/134 (20%), Positives = 58/134 (43%), Gaps = 10/134 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +K  RD D  + +G  +   +  +++    V  + +V+I+K  E ++   
Sbjct: 153 EAFLPGSQIDVKPIRDFD--VFVGKKMEVKVVKINYSNDNVVVSHKVLIEKDLEKQKAEI 210

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
               +   G+++ G +K +    V +DLG  DG++   +          E L+  ++VK 
Sbjct: 211 LNNLE--KGQVLEGVIKNMTNFGVFIDLGGVDGLLHITDISWGRINHPEEVLKLDEKVKV 268

Query: 185 YIYDVRREQRGPQV 198
            + D    ++   +
Sbjct: 269 VVLDFDEGKKRISL 282


>gi|301757282|ref|XP_002914489.1| PREDICTED: SAM domain-containing protein SAMSN-1-like [Ailuropoda
           melanoleuca]
          Length = 440

 Score = 40.0 bits (93), Expect = 0.97,   Method: Composition-based stats.
 Identities = 22/96 (22%), Positives = 46/96 (47%), Gaps = 8/96 (8%)

Query: 339 IDIITEEEDSINRQK-------DFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVK 391
           +D+I+EEE +  + K       +  +  Q F++ I++ E  + LL+  G+  +E+L  +K
Sbjct: 286 VDVISEEEAAPKKIKAHRKSGKEKPKTLQEFLERIHLQEYTSTLLL-NGYETLEDLKDIK 344

Query: 392 ISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
            S +  +   + E  + +   A   L+   I  Q+ 
Sbjct: 345 ESHLIELNIKNPEDRMRLLSAAENLLDEETIQEQEN 380


>gi|261855929|ref|YP_003263212.1| ribosomal protein S1 [Halothiobacillus neapolitanus c2]
 gi|261836398|gb|ACX96165.1| ribosomal protein S1 [Halothiobacillus neapolitanus c2]
          Length = 560

 Score = 40.0 bits (93), Expect = 0.97,   Method: Composition-based stats.
 Identities = 27/123 (21%), Positives = 56/123 (45%), Gaps = 22/123 (17%)

Query: 82  KVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK--DKVG 139
           + A  +    +    V   + P           ++ I   +++ E D    ++   ++ G
Sbjct: 406 EEAVRQFKKGEEIEAVVIAIDPE----------RERISLGLKQLESDPI-GDYAADNQKG 454

Query: 140 EIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISREN-------LRPGDRVKSYIYDVRR 191
           +I++GTV+ V+    ++DLG   +G +R  + ISR+        L+ GD V++ +  V R
Sbjct: 455 KIVNGTVREVDARGAVIDLGEGVEGYLRASD-ISRDRIDDARTVLKEGDAVEAKVMGVDR 513

Query: 192 EQR 194
           + R
Sbjct: 514 KNR 516



 Score = 37.4 bits (86), Expect = 6.9,   Method: Composition-based stats.
 Identities = 25/114 (21%), Positives = 48/114 (42%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RD +   G  V   +  +D  R  V  +++ ++++   AERD    +   + G ++ G V
Sbjct: 145 RDTTYLEGKDVEFKIIKLDQKRNNVVVSRRAVVEQEYSAERDALLDQL--QEGMVLRGVV 202

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           K +      +DLG  DG++   +          E +  GD V   +    R++ 
Sbjct: 203 KNLTDYGAFLDLGGIDGLLHITDMAWKRVKHPSEVVNIGDEVDVKVLKFDRDRN 256


>gi|289581364|ref|YP_003479830.1| hypothetical protein Nmag_1692 [Natrialba magadii ATCC 43099]
 gi|289530917|gb|ADD05268.1| conserved hypothetical protein [Natrialba magadii ATCC 43099]
          Length = 652

 Score = 40.0 bits (93), Expect = 0.97,   Method: Composition-based stats.
 Identities = 10/45 (22%), Positives = 20/45 (44%)

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEI 409
              V+      L + GF  + ++     +E+A ++G D ET   +
Sbjct: 583 MPGVNHEEVRALRSAGFETIGDVQTATRAELADVDGLDGETVEAL 627


>gi|325289809|ref|YP_004265990.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase
           [Syntrophobotulus glycolicus DSM 8271]
 gi|324965210|gb|ADY55989.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase
           [Syntrophobotulus glycolicus DSM 8271]
          Length = 662

 Score = 40.0 bits (93), Expect = 0.98,   Method: Composition-based stats.
 Identities = 22/112 (19%), Positives = 51/112 (45%), Gaps = 8/112 (7%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG 152
           +G  +   +   D G+  +  +++ I+ + RE E+++ +   K   G+++ G V+R+   
Sbjct: 426 VGQTLRLRIIEFDEGKKKLVLSQKAILAEEREQEKEKLFATIK--EGDVVQGVVRRLTDF 483

Query: 153 NVIVDLGNSDGVIRRDET------ISRENLRPGDRVKSYIYDVRREQRGPQV 198
              +DLG  DG++   +          + +  GD V+  I  V + +    +
Sbjct: 484 GAFIDLGGVDGLLHVSDMAFSRVSNPSDIVNIGDEVEVQIISVDQSKGRISL 535


>gi|317489959|ref|ZP_07948451.1| DNA ligase [Eggerthella sp. 1_3_56FAA]
 gi|316910957|gb|EFV32574.1| DNA ligase [Eggerthella sp. 1_3_56FAA]
          Length = 708

 Score = 40.0 bits (93), Expect = 0.98,   Method: Composition-based stats.
 Identities = 25/139 (17%), Positives = 47/139 (33%), Gaps = 32/139 (23%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           V + IA LL A  +  +E L      ++A+I+G   + A   +          +  + ++
Sbjct: 550 VGKTIAELLAAA-YPSIEALMEASEEDLAAIDGVGPKIA---RSAYLFLRTPDNAAVIER 605

Query: 428 IRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGF 487
           +R  GV+                           LA  + D+     +   G      G 
Sbjct: 606 LRSHGVA---------------------------LADKAADEGEQLPQTLAGLTFVLTGS 638

Query: 488 LSSLGTPKDQVESMIIHAR 506
           L   G  +D+  +  + AR
Sbjct: 639 LVESGMTRDEAGAA-LKAR 656


>gi|227529193|ref|ZP_03959242.1| 30S ribosomal protein S1 [Lactobacillus vaginalis ATCC 49540]
 gi|227350918|gb|EEJ41209.1| 30S ribosomal protein S1 [Lactobacillus vaginalis ATCC 49540]
          Length = 410

 Score = 40.0 bits (93), Expect = 0.98,   Method: Composition-based stats.
 Identities = 20/106 (18%), Positives = 42/106 (39%), Gaps = 8/106 (7%)

Query: 94  GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN 153
           G  +   +  ++     +  + + I+Q   E      + + +   G+++ G V R+    
Sbjct: 159 GQELEFKIIEIEPSENRLILSHKEIVQAQHEEAAKEIFAKLQP--GDVVEGKVARMTNFG 216

Query: 154 VIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
             +DLG  DG++   E          + L  G  VK  + +V  E+
Sbjct: 217 AFIDLGGVDGLVHVSEISYDHVDKPSDVLEAGQEVKVKVLNVDPER 262


>gi|119703755|ref|NP_002283.3| laminin subunit beta-2 precursor [Homo sapiens]
 gi|156630892|sp|P55268|LAMB2_HUMAN RecName: Full=Laminin subunit beta-2; AltName: Full=Laminin B1s
            chain; AltName: Full=Laminin-11 subunit beta; AltName:
            Full=Laminin-14 subunit beta; AltName: Full=Laminin-15
            subunit beta; AltName: Full=Laminin-3 subunit beta;
            AltName: Full=Laminin-4 subunit beta; AltName:
            Full=Laminin-7 subunit beta; AltName: Full=Laminin-9
            subunit beta; AltName: Full=S-laminin subunit beta;
            Short=S-LAM beta; Flags: Precursor
 gi|119585362|gb|EAW64958.1| laminin, beta 2 (laminin S), isoform CRA_a [Homo sapiens]
 gi|119585363|gb|EAW64959.1| laminin, beta 2 (laminin S), isoform CRA_a [Homo sapiens]
 gi|225000494|gb|AAI72384.1| Laminin, beta 2 (laminin S) [synthetic construct]
          Length = 1798

 Score = 40.0 bits (93), Expect = 0.98,   Method: Composition-based stats.
 Identities = 25/128 (19%), Positives = 46/128 (35%), Gaps = 9/128 (7%)

Query: 406  AVEIQGRAREYLE-------GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGI-K 457
            A E Q RA+  L+        ++   Q+    +   ++  +  G D      +    +  
Sbjct: 1484 ASEAQQRAQAALDKANASRGQVEQANQELQELIQSVKDFLNQEGADPDSIEMVATRVLEL 1543

Query: 458  TMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
            ++   A   +  L G    +  ++   D  L+       + E ++  AR    W E EK 
Sbjct: 1544 SIPASAEQ-IQHLAGAIAERVRSLADVDAILARTVGDVRRAEQLLQDARRARSWAEDEKQ 1602

Query: 518  ADEEVQDA 525
              E VQ A
Sbjct: 1603 KAETVQAA 1610


>gi|8170714|gb|AAB34682.2| laminin beta 2 chain [Homo sapiens]
          Length = 1798

 Score = 40.0 bits (93), Expect = 0.98,   Method: Composition-based stats.
 Identities = 25/128 (19%), Positives = 46/128 (35%), Gaps = 9/128 (7%)

Query: 406  AVEIQGRAREYLE-------GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGI-K 457
            A E Q RA+  L+        ++   Q+    +   ++  +  G D      +    +  
Sbjct: 1484 ASEAQQRAQAALDKANASRGQVEQANQELQELIQSVKDFLNQEGADPDSIEMVATRVLEL 1543

Query: 458  TMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
            ++   A   +  L G    +  ++   D  L+       + E ++  AR    W E EK 
Sbjct: 1544 SIPASAEQ-IQHLAGAIAERVRSLADVDAILARTVGDVRRAEQLLQDARRARSWAEDEKQ 1602

Query: 518  ADEEVQDA 525
              E VQ A
Sbjct: 1603 KAETVQAA 1610


>gi|1335202|emb|CAA56130.1| beta2/S laminin chain [Homo sapiens]
          Length = 1798

 Score = 40.0 bits (93), Expect = 0.98,   Method: Composition-based stats.
 Identities = 25/128 (19%), Positives = 46/128 (35%), Gaps = 9/128 (7%)

Query: 406  AVEIQGRAREYLE-------GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGI-K 457
            A E Q RA+  L+        ++   Q+    +   ++  +  G D      +    +  
Sbjct: 1484 ASEAQQRAQAALDKANASRGQVEQANQELQELIQSVKDFLNQEGADPDSIEMVATRVLEL 1543

Query: 458  TMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
            ++   A   +  L G    +  ++   D  L+       + E ++  AR    W E EK 
Sbjct: 1544 SIPASAEQ-IQHLAGAIAERVRSLADVDAILARTVGDVRRAEQLLQDARRARSWAEDEKQ 1602

Query: 518  ADEEVQDA 525
              E VQ A
Sbjct: 1603 KAETVQAA 1610


>gi|1103585|emb|CAA92279.1| laminin beta 2 chain [Homo sapiens]
          Length = 1798

 Score = 40.0 bits (93), Expect = 0.98,   Method: Composition-based stats.
 Identities = 25/128 (19%), Positives = 46/128 (35%), Gaps = 9/128 (7%)

Query: 406  AVEIQGRAREYLE-------GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGI-K 457
            A E Q RA+  L+        ++   Q+    +   ++  +  G D      +    +  
Sbjct: 1484 ASEAQQRAQAALDKANASRGQVEQANQELQELIQSVKDFLNQEGADPDSIEMVATRVLEL 1543

Query: 458  TMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
            ++   A   +  L G    +  ++   D  L+       + E ++  AR    W E EK 
Sbjct: 1544 SIPASAEQ-IQHLAGAIAERVRSLADVDAILARTVGDVRRAEQLLQDARRARSWAEDEKQ 1602

Query: 518  ADEEVQDA 525
              E VQ A
Sbjct: 1603 KAETVQAA 1610


>gi|257387245|ref|YP_003177018.1| DNA repair and recombination protein RadA [Halomicrobium mukohataei
           DSM 12286]
 gi|257169552|gb|ACV47311.1| DNA repair and recombination protein RadA [Halomicrobium mukohataei
           DSM 12286]
          Length = 349

 Score = 40.0 bits (93), Expect = 0.98,   Method: Composition-based stats.
 Identities = 13/60 (21%), Positives = 24/60 (40%)

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           ++   +   V    A  L   GF   + +A     E+++     E +A +I   ARE  +
Sbjct: 4   SEDLEELPGVGPATAEKLKDNGFDGYQGIAVASPGELSNTADIGESSAADIIQAAREAAD 63


>gi|296121873|ref|YP_003629651.1| ribosomal protein S1 [Planctomyces limnophilus DSM 3776]
 gi|296014213|gb|ADG67452.1| ribosomal protein S1 [Planctomyces limnophilus DSM 3776]
          Length = 597

 Score = 40.0 bits (93), Expect = 0.99,   Method: Composition-based stats.
 Identities = 21/57 (36%), Positives = 32/57 (56%), Gaps = 2/57 (3%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISR-ENLRPGDRVKSYIYDVRRE 192
           V  II GTV R+E   V++D+G  S+G++ RDE     E   PG R+   + ++  E
Sbjct: 50  VNSIIEGTVIRIEGDEVLIDIGYKSEGIVPRDEWSDEDEQPIPGMRIAVLLEEIEDE 106



 Score = 39.7 bits (92), Expect = 1.3,   Method: Composition-based stats.
 Identities = 29/128 (22%), Positives = 54/128 (42%), Gaps = 10/128 (7%)

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
           V     Q+ ++  R  D     G  +   +  +D  R  +  +++ +I++ RE  +    
Sbjct: 156 VFLPASQVDIR--RPHDLDSYKGRSIECLILKIDEQRRNIVVSRRRLIEEQREKMKKTLL 213

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSY 185
            + K   GEI  GTVK +      VDLG  DG++   +          E ++  D V+  
Sbjct: 214 ADLK--EGEIRKGTVKNIADFGAFVDLGGIDGLLHITDMSWGRIGHPSEMVKIDDEVEVM 271

Query: 186 IYDVRREQ 193
           I  + R++
Sbjct: 272 ILHIDRDR 279



 Score = 37.0 bits (85), Expect = 7.9,   Method: Composition-based stats.
 Identities = 18/117 (15%), Positives = 46/117 (39%), Gaps = 21/117 (17%)

Query: 91  IDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVE 150
             +   + D    +   +      +    + +RE            K G+++ G V R  
Sbjct: 97  AVLLEEIEDEFGLIMLSKKKADRIR-EWEKVIREH-----------KEGDVVKGEVVRKI 144

Query: 151 YGNVIVDLGNSDGVIRRDET-ISR----ENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            G ++V++G  +  +   +  I R    ++ + G  ++  I  +  ++R   +++SR
Sbjct: 145 KGGLLVNIG-VNVFLPASQVDIRRPHDLDSYK-GRSIECLILKIDEQRRN--IVVSR 197


>gi|325969248|ref|YP_004245440.1| DNA repair and recombination protein RadA [Vulcanisaeta moutnovskia
           768-28]
 gi|323708451|gb|ADY01938.1| DNA repair and recombination protein RadA [Vulcanisaeta moutnovskia
           768-28]
          Length = 318

 Score = 40.0 bits (93), Expect = 1.0,   Method: Composition-based stats.
 Identities = 11/54 (20%), Positives = 19/54 (35%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
                 +    A LL ++G   V  LA     E+  +     +   +I   AR+
Sbjct: 8   LEDLEGIGPKTAQLLKSKGILSVRHLALFNPEELIELTDMTPDRVEKILRSARD 61


>gi|253569882|ref|ZP_04847291.1| 30S ribosomal protein S1 [Bacteroides sp. 1_1_6]
 gi|251840263|gb|EES68345.1| 30S ribosomal protein S1 [Bacteroides sp. 1_1_6]
          Length = 599

 Score = 40.0 bits (93), Expect = 1.0,   Method: Composition-based stats.
 Identities = 31/103 (30%), Positives = 52/103 (50%), Gaps = 7/103 (6%)

Query: 102 PPMDFGRVAVQSAKQVIIQKVREAER--DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG 159
           P  DF   A ++ + V      E E+  D    +  D+  E++ GTV  +    V+V++G
Sbjct: 9   PIEDFNWDAYENGEAVTSASHEELEKAYDGTLNKVNDR--EVVDGTVIAMNKREVVVNIG 66

Query: 160 -NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
             SDG+I  +E     +L+ GD V+ YI    +E +  Q++LS
Sbjct: 67  YKSDGIIPLNEFRYNPDLKVGDTVEVYIE--NQEDKKGQLVLS 107


>gi|257784765|ref|YP_003179982.1| RNA binding S1 domain-containing protein [Atopobium parvulum DSM
           20469]
 gi|257473272|gb|ACV51391.1| RNA binding S1 domain protein [Atopobium parvulum DSM 20469]
          Length = 418

 Score = 40.0 bits (93), Expect = 1.0,   Method: Composition-based stats.
 Identities = 20/71 (28%), Positives = 40/71 (56%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
            G++++GTV ++E   V+VD+G  S+GVI   E          E +  G+ V++ +   +
Sbjct: 33  EGDLVNGTVVKIERDEVLVDIGYKSEGVIPARELSIRKDVNPAEIISLGEDVEALVL--Q 90

Query: 191 REQRGPQVLLS 201
           +E +  +++LS
Sbjct: 91  KEDKEGRLVLS 101


>gi|150021498|ref|YP_001306852.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding
           domain protein [Thermosipho melanesiensis BI429]
 gi|149794019|gb|ABR31467.1| hydroxymethylbutenyl pyrophosphate reductase [Thermosipho
           melanesiensis BI429]
          Length = 810

 Score = 40.0 bits (93), Expect = 1.0,   Method: Composition-based stats.
 Identities = 17/77 (22%), Positives = 35/77 (45%), Gaps = 8/77 (10%)

Query: 127 RDRQYLEFKDKV-GEIISGTVKRVEYGNVIVDL-GNSDGVIRRD------ETISRENLRP 178
           +++    FK++  G+I+ G VKR+E     V +    +G++         E  + + L  
Sbjct: 439 KEQVERFFKERKKGDIVEGIVKRIEDFGAFVRVAEGIEGLLPNSEVSYDYEISAMDVLGE 498

Query: 179 GDRVKSYIYDVRREQRG 195
           G  VK Y+ ++    + 
Sbjct: 499 GQSVKLYLKEIDPTNKK 515



 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 17/84 (20%), Positives = 38/84 (45%), Gaps = 9/84 (10%)

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPG 179
            +    ++   +G +++G V+ V    VI+D+     G     E          + +  G
Sbjct: 614 WENIEEKYP--LGNVVTGIVRVVFDKGVIIDIEEGISGYCPISEISWNYISHPTDVIGEG 671

Query: 180 DRVKSYIYDVRREQRGPQVLLSRT 203
           ++VK+ + D+ +E R  ++ + RT
Sbjct: 672 NKVKAVVLDLDKENRKIRLSIKRT 695


>gi|2108337|emb|CAA73605.1| Rad51 homologue [Trypanosoma brucei]
          Length = 313

 Score = 40.0 bits (93), Expect = 1.0,   Method: Composition-based stats.
 Identities = 13/49 (26%), Positives = 20/49 (40%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           M+   V       L+  GF  VE +A      I +++G  E  A +I  
Sbjct: 1   MENYGVASADIKKLMECGFLTVESVAYAPKKSILAVKGISEAKAEKIMA 49


>gi|20067705|emb|CAD29094.1| chimeric DNA-directed DNA polymerase bf4-3a [synthetic construct]
          Length = 335

 Score = 40.0 bits (93), Expect = 1.0,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
            L + GIKT+EDL
Sbjct: 113 KLVDEGIKTLEDL 125


>gi|319942540|ref|ZP_08016850.1| 30S ribosomal protein S1 [Sutterella wadsworthensis 3_1_45B]
 gi|319803943|gb|EFW00861.1| 30S ribosomal protein S1 [Sutterella wadsworthensis 3_1_45B]
          Length = 574

 Score = 40.0 bits (93), Expect = 1.0,   Method: Composition-based stats.
 Identities = 22/70 (31%), Positives = 34/70 (48%), Gaps = 6/70 (8%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI--SRE-NLRPGDRVKSYIYDVRRE 192
           + GE+I+  V RV+Y  V+V+ G  S+  +  +E      E  ++PGD V   I  V   
Sbjct: 34  RQGEVITAEVVRVDYNFVVVNAGLKSEAYVPIEEFKDDKGEVTVQPGDFVSVAIESVENG 93

Query: 193 QRGPQVLLSR 202
                 +LSR
Sbjct: 94  YGDT--ILSR 101


>gi|307595014|ref|YP_003901331.1| Rad51 domain-containing protein [Vulcanisaeta distributa DSM 14429]
 gi|307550215|gb|ADN50280.1| Rad51 domain protein [Vulcanisaeta distributa DSM 14429]
          Length = 318

 Score = 40.0 bits (93), Expect = 1.0,   Method: Composition-based stats.
 Identities = 11/54 (20%), Positives = 19/54 (35%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
                 +    A LL ++G   V  LA     E+  +     +   +I   AR+
Sbjct: 8   LEDLEGIGPKTAQLLKSKGILSVRHLALFNPEELIELTDMTPDRVEKILRSARD 61


>gi|166363378|ref|YP_001655651.1| nucleic acid-binding protein [Microcystis aeruginosa NIES-843]
 gi|166085751|dbj|BAG00459.1| nucleic acid-binding protein [Microcystis aeruginosa NIES-843]
          Length = 293

 Score = 40.0 bits (93), Expect = 1.0,   Method: Composition-based stats.
 Identities = 28/132 (21%), Positives = 50/132 (37%), Gaps = 22/132 (16%)

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDET---- 170
           K V+ Q  RE  R     +    VG+++SGTV +++   V VD G   G++   +     
Sbjct: 171 KLVLSQ--REIARANAISQLA--VGKLLSGTVVKLQPYGVFVDCGGVTGLLHAKQVTGAS 226

Query: 171 --ISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKA 228
                   + G  +K  + ++   +   ++ LS        K+      EI     +V  
Sbjct: 227 FNSPMTFFKVGQAIKVVVAEIDEYKN--RISLS-------TKILEAHPGEILENFAEVME 277

Query: 229 VSRDPGSRAKLA 240
            +     R K A
Sbjct: 278 TA---AERLKQA 286


>gi|168023386|ref|XP_001764219.1| predicted protein [Physcomitrella patens subsp. patens]
 gi|162684659|gb|EDQ71060.1| predicted protein [Physcomitrella patens subsp. patens]
          Length = 288

 Score = 40.0 bits (93), Expect = 1.0,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 3/56 (5%)

Query: 321 IGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLL 376
           IG+ G NV+  S+LTG  + I   E ++  R  +     +   Q     E++   L
Sbjct: 184 IGKAGANVKQISRLTGCKLTIRDHESNASMRNVEMEGTYE---QIERASEMVRQFL 236


>gi|78222685|ref|YP_384432.1| hypothetical protein Gmet_1473 [Geobacter metallireducens GS-15]
 gi|78193940|gb|ABB31707.1| conserved hypothetical protein [Geobacter metallireducens GS-15]
          Length = 174

 Score = 40.0 bits (93), Expect = 1.0,   Method: Composition-based stats.
 Identities = 17/95 (17%), Positives = 38/95 (40%), Gaps = 2/95 (2%)

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
             +  Q   +   + E++A  LV  G    E+L  +    + +++G +      I  +A 
Sbjct: 1   MKKSLQDLQKIRGIGEVLAKRLVEAGHDTYEKLQALGEDGLRAVKGINPRAIGSILSQAA 60

Query: 415 EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKV 449
           E +E       +++ EL  +    ++ G   +I  
Sbjct: 61  ELVESKGKERARRVEELRSAA--LTLRGQVEEIAR 93


>gi|116621034|ref|YP_823190.1| 30S ribosomal protein S1P [Candidatus Solibacter usitatus
           Ellin6076]
 gi|116224196|gb|ABJ82905.1| SSU ribosomal protein S1P [Candidatus Solibacter usitatus
           Ellin6076]
          Length = 572

 Score = 40.0 bits (93), Expect = 1.0,   Method: Composition-based stats.
 Identities = 19/84 (22%), Positives = 37/84 (44%), Gaps = 7/84 (8%)

Query: 122 VREAERDRQYLEFKD-KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRE 174
           + E ER  +   +   K GEI+ GT++ +      VD+G  D ++   +          +
Sbjct: 196 LEEEERASKEQRYSQVKEGEIVHGTIRSLTDYGAFVDIGGVDALLHVADISWGRVNKPAD 255

Query: 175 NLRPGDRVKSYIYDVRREQRGPQV 198
            L  GD+V++ I  V   ++   +
Sbjct: 256 VLNVGDKVEAKILKVDPAKKRISL 279


>gi|317178641|dbj|BAJ56429.1| 30S ribosomal protein S1 [Helicobacter pylori F30]
          Length = 552

 Score = 40.0 bits (93), Expect = 1.0,   Method: Composition-based stats.
 Identities = 24/119 (20%), Positives = 42/119 (35%), Gaps = 15/119 (12%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           +  DP I          P + + +   Q   Q I  K+ E   +            II G
Sbjct: 74  QKNDPIIVHVSE-KGEHPSVSYKKAISQ---QKIQAKIEELGEN--------YENAIIEG 121

Query: 145 TVKRVEYGNVIVDLGNSDGVIRRDET-ISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            +     G  IV+    +  + R  + +  +    G R+K+ I  V +E     + +SR
Sbjct: 122 KIVGKNKGGYIVESQGVEYFLSRSHSSLKNDANHIGKRIKACIIRVDKENH--SINISR 178


>gi|303232665|ref|ZP_07319350.1| 30S ribosomal protein S1 [Atopobium vaginae PB189-T1-4]
 gi|302481151|gb|EFL44226.1| 30S ribosomal protein S1 [Atopobium vaginae PB189-T1-4]
          Length = 391

 Score = 40.0 bits (93), Expect = 1.0,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 41/71 (57%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDET------ISRENLRPGDRVKSYIYDVR 190
            G++++GTV ++E+  V++D+G  S+GVI   E          + +  GD +++ +   +
Sbjct: 33  EGDLVTGTVVKIEHDEVLLDIGFKSEGVIPARELTIRKDVNPEDLVSLGDTIEALVL--Q 90

Query: 191 REQRGPQVLLS 201
           +E +  +++LS
Sbjct: 91  KEDKEGRLILS 101



 Score = 37.4 bits (86), Expect = 6.4,   Method: Composition-based stats.
 Identities = 34/135 (25%), Positives = 56/135 (41%), Gaps = 8/135 (5%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           R +D S  +G  +   +  MD  R  V  +++V+++  R+AER     + K   G  + G
Sbjct: 155 RVKDLSAFMGERIESRVIEMDRNRNNVVLSRRVVLEAARKAERSEILDKLKP--GMKLKG 212

Query: 145 TVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQV 198
           TV  +      VDLG  DG+I   E          E ++ G  V+  + DV   +    +
Sbjct: 213 TVSSIVDFGAFVDLGGIDGLIHISELSWNHVNQPSEVVKVGQEVEVQVLDVDLNRERISL 272

Query: 199 LLSRTHPQFMVKLFH 213
            L +T       L  
Sbjct: 273 GLKQTTEDPWRALIK 287


>gi|254578216|ref|XP_002495094.1| ZYRO0B03190p [Zygosaccharomyces rouxii]
 gi|238937984|emb|CAR26161.1| ZYRO0B03190p [Zygosaccharomyces rouxii]
          Length = 432

 Score = 40.0 bits (93), Expect = 1.0,   Method: Composition-based stats.
 Identities = 13/72 (18%), Positives = 26/72 (36%), Gaps = 3/72 (4%)

Query: 345 EEDSINRQKDFNERTQFFMQAINVDEIIA---HLLVAEGFADVEELACVKISEIASIEGF 401
            +D  + + D    +   ++ + V+ I       L   G    E +A     ++  I+G 
Sbjct: 97  AQDEQDMEDDMALASFVPLEKLQVNGITTSDLKKLREFGLHTAEAVAYAPRKQLMEIKGI 156

Query: 402 DEETAVEIQGRA 413
            E  A  +   A
Sbjct: 157 SEAKADRLLNEA 168


>gi|239826663|ref|YP_002949287.1| polynucleotide phosphorylase/polyadenylase [Geobacillus sp. WCH70]
 gi|259534128|sp|C5D9D5|PNP_GEOSW RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|239806956|gb|ACS24021.1| 3' exoribonuclease [Geobacillus sp. WCH70]
          Length = 712

 Score = 40.0 bits (93), Expect = 1.0,   Method: Composition-based stats.
 Identities = 43/203 (21%), Positives = 77/203 (37%), Gaps = 45/203 (22%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQI 79
           K + R++    + +++Q+A +     +  +   I     ++S +            T QI
Sbjct: 513 KGLSREI----LEEALQQAKKGRMEILEHMMQTIREPRKELSKYAPKI-------LTMQI 561

Query: 80  SLKVARD-RDPSID----IGGVVSDPLPPMDFGRVAV--------QSAKQVIIQKVREAE 126
           + +  R+   PS      I       +     G + +        Q AKQ+I   VRE E
Sbjct: 562 NPEKIREVIGPSGKQINKIIDETGVKIDIEQDGTIFISSVNEAMNQKAKQIIEDIVREVE 621

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-----GNSDGVIRRDETISR--ENLRPG 179
                      VG+I  G VKR+E     V+L     G        +E + R  + +  G
Sbjct: 622 -----------VGQIYLGKVKRIEKFGAFVELFNGKDGLVHISELAEERVGRVEDVVSIG 670

Query: 180 DRVKSYIYDVRREQRGPQVLLSR 202
           D +   + ++ ++ R   V LSR
Sbjct: 671 DEILVKVMEIDKQGR---VNLSR 690


>gi|148594030|emb|CAL63584.1| ribosomal protein S1 [Sinorhizobium medicae]
 gi|148594058|emb|CAL63598.1| ribosomal protein S1 [Sinorhizobium medicae]
 gi|148594076|emb|CAL63607.1| ribosomal protein S1 [Sinorhizobium medicae]
          Length = 403

 Score = 40.0 bits (93), Expect = 1.0,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 43/101 (42%), Gaps = 8/101 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD  R  +  +++ ++++ R  +R       +   G+++ G VK +      VDL
Sbjct: 36  FEILKMDKRRGNIVVSRRTVLEESRAEQRSEIVQNLE--EGQVVEGVVKNITDYGAFVDL 93

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   +          E L  G +VK  I  + +E 
Sbjct: 94  GGIDGLLHVTDMAWRRVNHPSEILNIGQQVKVQIIRINQET 134


>gi|325106907|ref|YP_004267975.1| RNA polymerase subunit alpha domain protein [Planctomyces
           brasiliensis DSM 5305]
 gi|324967175|gb|ADY57953.1| RNA polymerase alpha subunit domain protein [Planctomyces
           brasiliensis DSM 5305]
          Length = 436

 Score = 40.0 bits (93), Expect = 1.0,   Method: Composition-based stats.
 Identities = 28/147 (19%), Positives = 55/147 (37%), Gaps = 20/147 (13%)

Query: 342 ITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
           +  +E++  R K   +     M    +     + L   G   +E+L  +   ++ + + F
Sbjct: 268 MFYDEEAARRDKQLEQILSIPMSDFELSARSRNCLERAGIDRLEDLTKMSEEQLLAGKNF 327

Query: 402 DEETAVEIQGRAREYLEGIDITLQKKIRELGVS-----EELCSIPGIDSKIKVA------ 450
            E +  EI    +  LE   + L + + +         EEL     +  ++ V+      
Sbjct: 328 GETSLKEI----KAILEMHGLKLGQNVHKKQPEPLYKPEELTPEERMIHEMTVSDLELSV 383

Query: 451 -----LGENGIKTMEDLAGCSVDDLLG 472
                L   GI T+ +L   S D+LL 
Sbjct: 384 RARKCLARLGINTVGELVSRSADELLS 410


>gi|300778889|ref|ZP_07088747.1| 30S ribosomal protein S1 [Chryseobacterium gleum ATCC 35910]
 gi|300504399|gb|EFK35539.1| 30S ribosomal protein S1 [Chryseobacterium gleum ATCC 35910]
          Length = 596

 Score = 40.0 bits (93), Expect = 1.0,   Method: Composition-based stats.
 Identities = 33/134 (24%), Positives = 52/134 (38%), Gaps = 10/134 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +K  +D D  +             +F  V V   K +I   +   +++  
Sbjct: 159 EAFLPGSQIDVKPIKDYDQFVGKTMEFKVVKINPEFKNVVVSH-KALIEADIEGQKKEII 217

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
                +K G+++ GTVK +    V +DLG  DG+I   +          E L  G  VK 
Sbjct: 218 AQ--LEK-GQVLEGTVKNITSYGVFIDLGGVDGLIHITDLSWSRVNHPSEILEDGQTVKV 274

Query: 185 YIYDVRREQRGPQV 198
            I D   E+   Q+
Sbjct: 275 VILDFDDEKTRIQL 288


>gi|139437094|ref|ZP_01771254.1| Hypothetical protein COLAER_00232 [Collinsella aerofaciens ATCC
           25986]
 gi|133776741|gb|EBA40561.1| Hypothetical protein COLAER_00232 [Collinsella aerofaciens ATCC
           25986]
          Length = 369

 Score = 40.0 bits (93), Expect = 1.0,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 42/71 (59%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIR------RDETISRENLRPGDRVKSYIYDVR 190
            G++++GTV ++E+  V+VD+G  S+GVI       R +    + +  GD +++ +   +
Sbjct: 14  EGDLVNGTVVKIEHDEVLVDIGFKSEGVIPVRELSIRKDANPADIVALGDPIEALVL--Q 71

Query: 191 REQRGPQVLLS 201
           +E +  +++LS
Sbjct: 72  KEDKDGRLVLS 82


>gi|114683626|ref|XP_001154786.1| PREDICTED: SAM domain-containing protein SAMSN-1 isoform 4 [Pan
           troglodytes]
          Length = 441

 Score = 40.0 bits (93), Expect = 1.0,   Method: Composition-based stats.
 Identities = 24/109 (22%), Positives = 52/109 (47%), Gaps = 14/109 (12%)

Query: 339 IDIITEEEDSINRQK-------DFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVK 391
           +D+I+EEE +  + K       + ++  Q F++ I++ E  + LL+  G+  +E+L  +K
Sbjct: 287 VDVISEEEAAPKKIKANRRSNSEKSKTLQEFLERIHLQEYTSTLLL-NGYETLEDLKDIK 345

Query: 392 ISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSI 440
            S +  +   + +    +   A  +LE      ++  +E G   E  S+
Sbjct: 346 ESHLIELNIENPDDRRRLLSAAENFLE------EEITQEQGNEPEPLSL 388


>gi|82703189|ref|YP_412755.1| 30S ribosomal protein S1 [Nitrosospira multiformis ATCC 25196]
 gi|82411254|gb|ABB75363.1| SSU ribosomal protein S1P [Nitrosospira multiformis ATCC 25196]
          Length = 571

 Score = 40.0 bits (93), Expect = 1.0,   Method: Composition-based stats.
 Identities = 31/130 (23%), Positives = 54/130 (41%), Gaps = 19/130 (14%)

Query: 90  SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGE--IISGTVK 147
           +   G  V   +  +D  R       + I   +++ E D  +  F     +  I+ GTVK
Sbjct: 417 NYKKGDEVEAVVLSIDVER-------ERISLGIKQLEGDP-FNSFVSVHDKNSIVKGTVK 468

Query: 148 RVE-YGNVIVDLGNSDGVIRRDETIS------RENLRPGDRVKSYIYDVRREQRGPQVLL 200
            ++  G VI    + +G +R  E         R +L+ GD V++ I +V R+ RG  + L
Sbjct: 469 SIDAKGAVISLENDVEGYLRASEVSRDRVEDIRSHLKEGDVVEAMIINVDRKNRG--INL 526

Query: 201 SRTHPQFMVK 210
           S        +
Sbjct: 527 SIKAKDMAEE 536


>gi|307637717|gb|ADN80167.1| SSU ribosomal protein S1p [Helicobacter pylori 908]
 gi|325996320|gb|ADZ51725.1| 30S ribosomal protein S1 [Helicobacter pylori 2018]
 gi|325997909|gb|ADZ50117.1| 30S ribosomal protein S1 [Helicobacter pylori 2017]
          Length = 552

 Score = 40.0 bits (93), Expect = 1.0,   Method: Composition-based stats.
 Identities = 23/119 (19%), Positives = 42/119 (35%), Gaps = 15/119 (12%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           +  DP +          P + + +   Q   Q I  K+ E   +            II G
Sbjct: 74  QKNDPIVVHVSE-KGEHPSVSYKKAISQ---QKIQAKIEELGEN--------YENAIIEG 121

Query: 145 TVKRVEYGNVIVDLGNSDGVIRRDET-ISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            +     G  IV+    +  + R  + +  +    G R+K+ I  V +E     + +SR
Sbjct: 122 KIVGKNKGGYIVESQGVEYFLSRSHSSLKNDANHIGKRIKACIIRVDKENH--SINISR 178


>gi|153807671|ref|ZP_01960339.1| hypothetical protein BACCAC_01953 [Bacteroides caccae ATCC 43185]
 gi|149130033|gb|EDM21245.1| hypothetical protein BACCAC_01953 [Bacteroides caccae ATCC 43185]
          Length = 598

 Score = 40.0 bits (93), Expect = 1.0,   Method: Composition-based stats.
 Identities = 31/103 (30%), Positives = 52/103 (50%), Gaps = 7/103 (6%)

Query: 102 PPMDFGRVAVQSAKQVIIQKVREAER--DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG 159
           P  DF   A ++ + V      E E+  D    +  D+  E++ GTV  +    V+V++G
Sbjct: 9   PIEDFNWDAYENGEAVTNASHEELEKAYDGTLNKVNDR--EVVDGTVIAMNKREVVVNIG 66

Query: 160 -NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
             SDG+I  +E     +L+ GD V+ YI    +E +  Q++LS
Sbjct: 67  YKSDGIIPLNEFRYNPDLKVGDTVEVYIE--NQEDKKGQLVLS 107


>gi|317182308|dbj|BAJ60092.1| 30S ribosomal protein S1 [Helicobacter pylori F57]
          Length = 552

 Score = 40.0 bits (93), Expect = 1.1,   Method: Composition-based stats.
 Identities = 24/119 (20%), Positives = 42/119 (35%), Gaps = 15/119 (12%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           +  DP I          P + + +   Q   Q I  K+ E   +            II G
Sbjct: 74  QKNDPIIVHVSE-KGEHPSVSYKKAISQ---QKIQAKIEELGEN--------YENAIIEG 121

Query: 145 TVKRVEYGNVIVDLGNSDGVIRRDET-ISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            +     G  IV+    +  + R  + +  +    G R+K+ I  V +E     + +SR
Sbjct: 122 KIVGKNKGGYIVESQGVEYFLSRSHSSLKNDANHIGKRIKACIIRVDKENH--SINISR 178


>gi|224080955|ref|XP_002186553.1| PREDICTED: polymerase (DNA directed), beta [Taeniopygia guttata]
          Length = 335

 Score = 40.0 bits (93), Expect = 1.1,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   ++G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLDGVGAKIAEKI----DEFLSTGKLRKLEKIRQDDTSASINFLTRVTGIGPAAAR 112

Query: 450 ALGENGIKTMEDL 462
              E GIKT+EDL
Sbjct: 113 KFVEEGIKTLEDL 125


>gi|322698012|gb|EFY89786.1| DNA repair protein RAD51 [Metarhizium acridum CQMa 102]
          Length = 348

 Score = 40.0 bits (93), Expect = 1.1,   Method: Composition-based stats.
 Identities = 13/43 (30%), Positives = 21/43 (48%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
             L++  GF  VE +A      +  I+G  E+ A +I G A +
Sbjct: 39  IQLVMDGGFNTVESVAYTPRRMLEQIKGISEQKAQKILGEASK 81


>gi|317014439|gb|ADU81875.1| 30S ribosomal protein S1 [Helicobacter pylori Gambia94/24]
          Length = 552

 Score = 40.0 bits (93), Expect = 1.1,   Method: Composition-based stats.
 Identities = 23/119 (19%), Positives = 42/119 (35%), Gaps = 15/119 (12%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           +  DP +          P + + +   Q   Q I  K+ E   +            II G
Sbjct: 74  QKNDPIVVHVSE-KGEHPSVSYKKAISQ---QKIQAKIEELGEN--------YENAIIEG 121

Query: 145 TVKRVEYGNVIVDLGNSDGVIRRDET-ISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            +     G  IV+    +  + R  + +  +    G R+K+ I  V +E     + +SR
Sbjct: 122 KIVGKNKGGYIVESQGVEYFLSRSHSSLKNDANHIGKRIKACIIRVDKENH--SINISR 178


>gi|148594040|emb|CAL63589.1| ribosomal protein S1 [Sinorhizobium meliloti]
 gi|148594042|emb|CAL63590.1| ribosomal protein S1 [Sinorhizobium meliloti]
 gi|148594070|emb|CAL63604.1| ribosomal protein S1 [Sinorhizobium meliloti]
          Length = 403

 Score = 40.0 bits (93), Expect = 1.1,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 43/101 (42%), Gaps = 8/101 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD  R  +  +++ ++++ R  +R       +   G+++ G VK +      VDL
Sbjct: 36  FEILKMDKRRGNIVVSRRTVLEESRAEQRSEIVQNLE--EGQVVEGVVKNITDYGAFVDL 93

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   +          E L  G +VK  I  + +E 
Sbjct: 94  GGIDGLLHVTDMAWRRVNHPSEILNIGQQVKVQIIRINQET 134


>gi|148594034|emb|CAL63586.1| ribosomal protein S1 [Sinorhizobium saheli]
          Length = 403

 Score = 40.0 bits (93), Expect = 1.1,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 43/101 (42%), Gaps = 8/101 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD  R  +  +++ ++++ R  +R       +   G+++ G VK +      VDL
Sbjct: 36  FEILKMDKRRGNIVVSRRTVLEESRAEQRSEIVQNLE--EGQVVEGVVKNITDYGAFVDL 93

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   +          E L  G +VK  I  + +E 
Sbjct: 94  GGIDGLLHVTDMAWRRVNHPSEILNIGQQVKVQIIRINQET 134


>gi|324504988|gb|ADY42150.1| Apoptosis-linked gene 2-interacting protein X 1 [Ascaris suum]
          Length = 878

 Score = 40.0 bits (93), Expect = 1.1,   Method: Composition-based stats.
 Identities = 24/154 (15%), Positives = 60/154 (38%), Gaps = 3/154 (1%)

Query: 342 ITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
           +T ++ +    ++  +       A N D+I+   +  E    ++ L+  +    A+I G 
Sbjct: 483 MTSDKLTAPLHQEVGKYRGILQAATNADQIVKQKM-DENREAIKLLSLPEPELRAAIPGL 541

Query: 402 DEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIP-GIDSKIKVALGENGIKTME 460
           D   A       ++    +D   + KI    +  E   +   + +    A+ ++ I   E
Sbjct: 542 DPANANRNSEAVKKLRSLMDTVQEIKIEREQLEREFADVHCDMTTVFLKAMADSQILNEE 601

Query: 461 DLAGCSVDDLLG-WSENKGGNIEKFDGFLSSLGT 493
            L+   ++++ G   +     I+K +  L+ +  
Sbjct: 602 QLSTAKINEIYGPLKDKVSETIKKQESCLAEVEM 635


>gi|313904089|ref|ZP_07837469.1| RNA binding S1 domain protein [Eubacterium cellulosolvens 6]
 gi|313471238|gb|EFR66560.1| RNA binding S1 domain protein [Eubacterium cellulosolvens 6]
          Length = 362

 Score = 40.0 bits (93), Expect = 1.1,   Method: Composition-based stats.
 Identities = 33/162 (20%), Positives = 70/162 (43%), Gaps = 24/162 (14%)

Query: 56  ETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLP-----PMDFGRVA 110
           E G++   +++ V+    N    +++  AR   P+  +       L       ++F  + 
Sbjct: 105 ENGEVLTAKVVRVL----NGGLSVNVDGARVFIPASLVSDTFEKDLTKYMDQEIEFKIIE 160

Query: 111 VQSAKQVII---QKVREAERDRQYLEFKDK--VGEIISGTVKRVEYGNVIVDLGNSDGVI 165
               ++ II   +++  AE+ +   E      VG+++ G VK +      +DLG +DG++
Sbjct: 161 FNPKRRRIIGDRKQLVAAEKKKAQEELFSHITVGDVVEGVVKNITDFGAFIDLGGADGLL 220

Query: 166 RRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
              E         +  +  GD++K  I D+    +G ++ LS
Sbjct: 221 HISEMSWGRVDNPKSIVAVGDKIKVLIKDI----KGDRIALS 258


>gi|298708904|emb|CBJ30860.1| rRNA biogenesis protein rrp5 [Ectocarpus siliculosus]
          Length = 2344

 Score = 40.0 bits (93), Expect = 1.1,   Method: Composition-based stats.
 Identities = 19/72 (26%), Positives = 28/72 (38%), Gaps = 7/72 (9%)

Query: 139 GEIISGTVKRVEYGNVIVD-LGNSDGVIRRD---ETI---SRENLRPGDRVKSYIYDVRR 191
           G++I+G V RVE   V V  LG    +  R    + +          GD  +  +  V  
Sbjct: 896 GDLIAGYVCRVESFGVFVRFLGRFTALCPRSMAADRMVEDPSGMFEEGDSARCVVQRVDE 955

Query: 192 EQRGPQVLLSRT 203
           +     V L RT
Sbjct: 956 DTGRVVVTLDRT 967



 Score = 38.5 bits (89), Expect = 2.6,   Method: Composition-based stats.
 Identities = 20/102 (19%), Positives = 36/102 (35%), Gaps = 9/102 (8%)

Query: 107 GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVD-LGNSDGVI 165
              +  + K+ +++  RE      Y E K++ G   +G V +V    + V   GN  G++
Sbjct: 633 SSKSTLTLKRSMVKDKREVI--STYTEAKEREGTACTGFVTKVAPFGLHVSFYGNVFGLL 690

Query: 166 RRDE------TISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
                         E    G  V   +         P++ LS
Sbjct: 691 PSKALTKHGIQDPSEAFAVGQVVGCVVRSCDVTTYPPKLALS 732


>gi|220934863|ref|YP_002513762.1| RNA 3'-phosphate cyclase [Thioalkalivibrio sp. HL-EbGR7]
 gi|219996173|gb|ACL72775.1| RNA 3'-phosphate cyclase [Thioalkalivibrio sp. HL-EbGR7]
          Length = 348

 Score = 40.0 bits (93), Expect = 1.1,   Method: Composition-based stats.
 Identities = 23/89 (25%), Positives = 40/89 (44%), Gaps = 6/89 (6%)

Query: 390 VKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ---KKIRELGVSEELCSIPGIDSK 446
           + I  ++++    EE A   +GRA   L+ ++  +    + +        L  +   +  
Sbjct: 189 LSIQGLSAVANLPEEIAERQRGRALRRLQTLNSDVDIAIEHLPACSPGTVLALLARFEQG 248

Query: 447 IK--VALGENGIKTMEDLAGCSVDDLLGW 473
                ALGE G K  E +A  +VDDLLG+
Sbjct: 249 QACFFALGERG-KRAERVADEAVDDLLGF 276


>gi|307209304|gb|EFN86389.1| DNA polymerase beta [Harpegnathos saltator]
          Length = 333

 Score = 39.7 bits (92), Expect = 1.1,   Method: Composition-based stats.
 Identities = 19/72 (26%), Positives = 31/72 (43%), Gaps = 7/72 (9%)

Query: 394 EIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKVA 450
           E   + G  ++ A  I     E+LE       +++++    +    L  IPGI       
Sbjct: 61  EAMKLPGIGKKIADHI----NEFLETGTHKELQQVKKDDKQDAIILLMKIPGIGPAKAEQ 116

Query: 451 LGENGIKTMEDL 462
           L   GI+T+EDL
Sbjct: 117 LISAGIETLEDL 128


>gi|261839788|gb|ACX99553.1| 30S ribosomal protein S1 [Helicobacter pylori 52]
          Length = 552

 Score = 39.7 bits (92), Expect = 1.1,   Method: Composition-based stats.
 Identities = 24/119 (20%), Positives = 42/119 (35%), Gaps = 15/119 (12%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           +  DP I          P + + +   Q   Q I  K+ E   +            II G
Sbjct: 74  QKNDPIIVHVSE-KGEHPSVSYKKAISQ---QKIQAKIEELGEN--------YENAIIEG 121

Query: 145 TVKRVEYGNVIVDLGNSDGVIRRDET-ISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            +     G  IV+    +  + R  + +  +    G R+K+ I  V +E     + +SR
Sbjct: 122 KIVGKNKGGYIVESQGVEYFLSRSHSSLKNDANHIGKRIKACIIRVDKENH--SINISR 178


>gi|328787572|ref|XP_393878.3| PREDICTED: IGF-II mRNA-binding protein [Apis mellifera]
          Length = 626

 Score = 39.7 bits (92), Expect = 1.1,   Method: Composition-based stats.
 Identities = 33/132 (25%), Positives = 55/132 (41%), Gaps = 37/132 (28%)

Query: 251 VGACVGMRGSRVQAV------------------VTELRDEKIDIV-----VWSPDSATFV 287
           VGA +G +GS ++ +                  V +  D K+ IV      W    A ++
Sbjct: 416 VGAIIGSKGSHIRNIIRFSGASVKIAPIEQDKPVDQQNDRKVTIVGSPESQW---KAQYL 472

Query: 288 I-NAL----RPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII 342
           I   +      A    V L      IE++VP  Q+   IG+ GQNVR   ++TG  I + 
Sbjct: 473 IFEKMREEGFVAGTEDVRL-----TIEILVPSTQVGRIIGKGGQNVRELQRVTGSIIKL- 526

Query: 343 TEEEDSINRQKD 354
           +E++ +     +
Sbjct: 527 SEQQSTSPSADE 538


>gi|325971694|ref|YP_004247885.1| hypothetical protein SpiBuddy_1867 [Spirochaeta sp. Buddy]
 gi|324026932|gb|ADY13691.1| hypothetical protein SpiBuddy_1867 [Spirochaeta sp. Buddy]
          Length = 1983

 Score = 39.7 bits (92), Expect = 1.1,   Method: Composition-based stats.
 Identities = 30/150 (20%), Positives = 59/150 (39%), Gaps = 21/150 (14%)

Query: 328  VRLASQLTGWTI-DIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEE 386
            VR  S+++G+ I +  TE    + + + F      + Q ++ ++ +   ++ +G  DVE 
Sbjct: 1019 VRDESKMSGYKIRNAKTELLSDVRKYRRFYYTALGYTQQLSYEDTVEGTVLDDG-NDVEA 1077

Query: 387  LACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSK 446
                +I ++   +  D      I+                  + L   + L ++    SK
Sbjct: 1078 FGNEEIKKLLESDDTDPVLKELIR------------------KNLATGDVLQTLVDETSK 1119

Query: 447  IKVALGENGIKTMEDLAGCSVDDLLGWSEN 476
                L E  +   E LA  SVD+L   +E 
Sbjct: 1120 QIEQL-EMEVMDAEALAESSVDELTEKTEQ 1148


>gi|182414675|ref|YP_001819741.1| ribosomal protein S1 [Opitutus terrae PB90-1]
 gi|177841889|gb|ACB76141.1| ribosomal protein S1 [Opitutus terrae PB90-1]
          Length = 557

 Score = 39.7 bits (92), Expect = 1.1,   Method: Composition-based stats.
 Identities = 24/129 (18%), Positives = 53/129 (41%), Gaps = 10/129 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           +       I ++  ++ D  +  G      +  ++  R  +  +++ +I++ R  +R   
Sbjct: 123 DAFMPASHIDVQPPKNLDQYV--GQTYDFKVLKINLERKNIVLSRRELIEEQRTNKRRAL 180

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
               +   G+I  G VK +      +DL   DG++   +          E L+ G+ V+ 
Sbjct: 181 LDSIQP--GQIRRGVVKNITDFGAFIDLDGMDGLLHITDMSWGRISHPSEMLKQGEEVQV 238

Query: 185 YIYDVRREQ 193
            I +V RE+
Sbjct: 239 MIIEVNREK 247



 Score = 38.1 bits (88), Expect = 3.7,   Method: Composition-based stats.
 Identities = 17/66 (25%), Positives = 33/66 (50%), Gaps = 3/66 (4%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           K G I+ G +  +    V+VD+ G S+G++  +E I    L+ G  ++  +  +  +   
Sbjct: 18  KEGSIVPGVITEIRQNEVVVDIGGKSEGLVPANEFIDIGELQVGSTIEVLVQKLEGKDGA 77

Query: 196 PQVLLS 201
           P  +LS
Sbjct: 78  P--ILS 81


>gi|167771538|ref|ZP_02443591.1| hypothetical protein ANACOL_02908 [Anaerotruncus colihominis DSM
           17241]
 gi|167666178|gb|EDS10308.1| hypothetical protein ANACOL_02908 [Anaerotruncus colihominis DSM
           17241]
          Length = 662

 Score = 39.7 bits (92), Expect = 1.1,   Method: Composition-based stats.
 Identities = 24/117 (20%), Positives = 45/117 (38%), Gaps = 14/117 (11%)

Query: 93  IGGVVSDPLPPMDFG-----RVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVK 147
           +  ++   +           + AV S + V+ ++ +E E          ++G   +G VK
Sbjct: 429 LDDLLKQKVNFKILEVNRQRKRAVGSIRAVLREQRKELEDKFWQE---VEIGRHYTGVVK 485

Query: 148 RVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQV 198
            +      V+LG  DG++   E          E +  GD V  YI D+  E +   +
Sbjct: 486 SLTSYGAFVNLGGVDGMVHISELSWHRIKHPSEVVNVGDTVDVYIKDIDAENKKISL 542


>gi|14600570|ref|NP_147087.1| DNA-directed RNA polymerase subunit E' [Aeropyrum pernix K1]
 gi|5103650|dbj|BAA79171.1| DNA-directed RNA polymerase subunit E [Aeropyrum pernix K1]
          Length = 186

 Score = 39.7 bits (92), Expect = 1.1,   Method: Composition-based stats.
 Identities = 22/83 (26%), Positives = 38/83 (45%), Gaps = 17/83 (20%)

Query: 134 FKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI-----------------SRENL 176
           FK    EI+ G V R +   ++V+LG  DG + R++ +                 S+  +
Sbjct: 80  FKPVQLEIVRGVVTRADDFGLVVNLGPLDGKVHRNQIMDEGVELLPDRSGFVGLASKREI 139

Query: 177 RPGDRVKSYIYDVRREQRGPQVL 199
           R GD V++ +  V R  R  Q++
Sbjct: 140 RVGDVVRARVVHVSRPSRTAQII 162


>gi|315586944|gb|ADU41325.1| 30S ribosomal protein S1 [Helicobacter pylori 35A]
          Length = 552

 Score = 39.7 bits (92), Expect = 1.1,   Method: Composition-based stats.
 Identities = 24/119 (20%), Positives = 43/119 (36%), Gaps = 15/119 (12%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           +  DP I          P + + +V  Q   Q I  K+ E   +            II G
Sbjct: 74  QKNDPIIVHVSE-KGEHPSVSYKKVISQ---QKIQAKIEELGEN--------YENAIIEG 121

Query: 145 TVKRVEYGNVIVDLGNSDGVIRRDET-ISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            +     G  I++    +  + R  + +  +    G R+K+ I  V +E     + +SR
Sbjct: 122 KIVGKNKGGYIMESQGVEYFLSRSHSSLKNDANHIGKRIKACIIRVDKENH--SINISR 178


>gi|260577534|ref|ZP_05845474.1| DNA ligase [Corynebacterium jeikeium ATCC 43734]
 gi|258604338|gb|EEW17575.1| DNA ligase [Corynebacterium jeikeium ATCC 43734]
          Length = 688

 Score = 39.7 bits (92), Expect = 1.1,   Method: Composition-based stats.
 Identities = 29/146 (19%), Positives = 52/146 (35%), Gaps = 18/146 (12%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG--------RAREYLEG 419
           V    A  L    F  VE++A   + E+A I+G  E  A  I          R  +    
Sbjct: 522 VGPTAAKALAKH-FESVEDIASASVEEMAGIDGVAETIAESISDWFTVDWHRRIVDRWAA 580

Query: 420 IDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK-G 478
             + + ++  E     +     G+DS +   L      ++ED    +  + +     K  
Sbjct: 581 AGVRMHQEAGEASGEAD-----GVDSALLEGLTIVVTGSLEDFDRTAAKEAIEARGGKAA 635

Query: 479 GNIEKFDGFL---SSLGTPKDQVESM 501
           G++ K   FL      G+   + E +
Sbjct: 636 GSVSKKTDFLVAGEKAGSKLKKAEDL 661


>gi|148555371|ref|YP_001262953.1| 30S ribosomal protein S1 [Sphingomonas wittichii RW1]
 gi|148500561|gb|ABQ68815.1| SSU ribosomal protein S1P [Sphingomonas wittichii RW1]
          Length = 569

 Score = 39.7 bits (92), Expect = 1.1,   Method: Composition-based stats.
 Identities = 28/125 (22%), Positives = 52/125 (41%), Gaps = 10/125 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ ++  RD  P +DI       +  MD  R  +  +++ ++++ R  +R       
Sbjct: 141 PGSQVDIRPVRDVTPLMDIPQP--FQILKMDRRRGNIVVSRRAVLEETRAEQRSGLIQSL 198

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
               G++I G VK +      VDLG  DG++   +          E +  GD VK  I  
Sbjct: 199 --HEGQVIEGVVKNITDYGAFVDLGGIDGLLHVTDLSYKRVGHPNEMINIGDVVKVQIIR 256

Query: 189 VRREQ 193
           + ++ 
Sbjct: 257 INKDT 261


>gi|20067677|emb|CAD29080.1| chimeric DNA-directed DNA polymerase bf4-2 [synthetic construct]
          Length = 340

 Score = 39.7 bits (92), Expect = 1.1,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
            L + GIKT+EDL
Sbjct: 113 KLVDEGIKTLEDL 125


>gi|289609530|emb|CBI60430.1| unnamed protein product [Sordaria macrospora]
          Length = 150

 Score = 39.7 bits (92), Expect = 1.1,   Method: Composition-based stats.
 Identities = 19/69 (27%), Positives = 32/69 (46%), Gaps = 6/69 (8%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDE-TISREN--LRPGDRVKSYIYDVRREQ 193
            G ++ GTV  +E    ++D+G  S+G +   E     +   L+ GD V+ Y+  V    
Sbjct: 24  EGRVVIGTVTGIENDLAVIDVGLKSEGRVPLREFAAPGQKADLKVGDEVEVYVDRVENAN 83

Query: 194 RGPQVLLSR 202
                +LSR
Sbjct: 84  GEA--MLSR 90


>gi|70939108|ref|XP_740140.1| Rad51 [Plasmodium chabaudi chabaudi]
 gi|56517647|emb|CAH76360.1| Rad51 homolog, putative [Plasmodium chabaudi chabaudi]
          Length = 324

 Score = 39.7 bits (92), Expect = 1.1,   Method: Composition-based stats.
 Identities = 12/42 (28%), Positives = 21/42 (50%)

Query: 374 HLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
            LL   G   VE +A   +  + SI+G  E+ A +++   +E
Sbjct: 48  ELLKEGGLQTVECVAYAPMRTLCSIKGISEQKAEKLKKACKE 89


>gi|300855310|ref|YP_003780294.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Clostridium
           ljungdahlii DSM 13528]
 gi|300435425|gb|ADK15192.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Clostridium
           ljungdahlii DSM 13528]
          Length = 637

 Score = 39.7 bits (92), Expect = 1.1,   Method: Composition-based stats.
 Identities = 23/104 (22%), Positives = 43/104 (41%), Gaps = 9/104 (8%)

Query: 95  GVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNV 154
            V          G   V S + ++  + RE   ++ +   +     ++ G V+R+     
Sbjct: 437 DVTIIEFKEEKKGTRIVASRRDLLRME-REKMEEQTWNVLE--KDTVVDGEVRRLTDFGA 493

Query: 155 IVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRRE 192
            VD+   DG++   E          + L+ GD++K YI D+ RE
Sbjct: 494 FVDVQGVDGLLHVSELSWGRVGKPSDVLKIGDKIKVYILDIDRE 537


>gi|221068235|ref|ZP_03544340.1| ribosomal protein S1 [Comamonas testosteroni KF-1]
 gi|264677562|ref|YP_003277468.1| ribosomal protein S1 [Comamonas testosteroni CNB-2]
 gi|299532470|ref|ZP_07045861.1| 30S ribosomal protein S1 [Comamonas testosteroni S44]
 gi|220713258|gb|EED68626.1| ribosomal protein S1 [Comamonas testosteroni KF-1]
 gi|262208074|gb|ACY32172.1| ribosomal protein S1 [Comamonas testosteroni CNB-2]
 gi|298719555|gb|EFI60521.1| 30S ribosomal protein S1 [Comamonas testosteroni S44]
          Length = 560

 Score = 39.7 bits (92), Expect = 1.1,   Method: Composition-based stats.
 Identities = 20/68 (29%), Positives = 34/68 (50%), Gaps = 7/68 (10%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G++++G VK V+     +DLG +  G +R  E         R  L+ GD V + + +V 
Sbjct: 450 KGQVVTGKVKTVDAKGAEIDLGEDIIGYLRASEISQDRVEDARSVLKEGDEVTAVVVNVD 509

Query: 191 REQRGPQV 198
           R+ R  Q+
Sbjct: 510 RKSRNIQL 517


>gi|84996361|ref|XP_952902.1| DNA repair (Rad51 homologue) protein [Theileria annulata strain
           Ankara]
 gi|65303899|emb|CAI76278.1| DNA repair (Rad51 homologue) protein, putative [Theileria annulata]
          Length = 369

 Score = 39.7 bits (92), Expect = 1.1,   Method: Composition-based stats.
 Identities = 9/38 (23%), Positives = 19/38 (50%)

Query: 378 AEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
             G++ +E +A      +  I+G  E+  ++I+   RE
Sbjct: 46  EAGYSTLECVAYAPQKNLLVIKGLSEQKVLKIKAACRE 83


>gi|270296700|ref|ZP_06202899.1| DNA ligase, NAD-dependent [Bacteroides sp. D20]
 gi|270272687|gb|EFA18550.1| DNA ligase, NAD-dependent [Bacteroides sp. D20]
          Length = 665

 Score = 39.7 bits (92), Expect = 1.1,   Method: Composition-based stats.
 Identities = 23/113 (20%), Positives = 40/113 (35%), Gaps = 6/113 (5%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           V E +A   +A+ F D+EEL    + ++ +I+   E+ A  I       +   ++  + K
Sbjct: 515 VGETVAKK-IAKSFTDIEELENADLEKLKNIDEIGEKIAQSIITYFSNPV-NRELVERLK 572

Query: 428 IRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
              L +      + G        L    I         S D+     E  GG 
Sbjct: 573 SNGLQLHRTEEDLSGYTD----KLAGQSIVISGVFTHHSRDEYKEMIEKNGGK 621


>gi|148594064|emb|CAL63601.1| ribosomal protein S1 [Ensifer adhaerens]
          Length = 403

 Score = 39.7 bits (92), Expect = 1.1,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 43/101 (42%), Gaps = 8/101 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD  R  +  +++ ++++ R  +R       +   G+++ G VK +      VDL
Sbjct: 36  FEILKMDKRRGNIVVSRRTVLEESRAEQRSEIVQNLE--EGQVVEGVVKNITDYGAFVDL 93

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   +          E L  G +VK  I  + +E 
Sbjct: 94  GGIDGLLHVTDMAWRRVNHPSEILNIGQQVKVQIIRINQET 134


>gi|148594032|emb|CAL63585.1| ribosomal protein S1 [Ensifer adhaerens]
          Length = 403

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 43/101 (42%), Gaps = 8/101 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD  R  +  +++ ++++ R  +R       +   G+++ G VK +      VDL
Sbjct: 36  FEILKMDKRRGNIVVSRRTVLEESRAEQRSEIVQNLE--EGQVVEGVVKNITDYGAFVDL 93

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   +          E L  G +VK  I  + +E 
Sbjct: 94  GGIDGLLHVTDMAWRRVNHPSEILNIGQQVKVQIIRINQET 134


>gi|148594036|emb|CAL63587.1| ribosomal protein S1 [Sinorhizobium arboris]
 gi|148594056|emb|CAL63597.1| ribosomal protein S1 [Sinorhizobium arboris LMG 14919]
 gi|148594072|emb|CAL63605.1| ribosomal protein S1 [Sinorhizobium arboris]
          Length = 403

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 43/101 (42%), Gaps = 8/101 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD  R  +  +++ ++++ R  +R       +   G+++ G VK +      VDL
Sbjct: 36  FEILKMDKRRGNIVVSRRTVLEESRAEQRSEIVQNLE--EGQVVEGVVKNITDYGAFVDL 93

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   +          E L  G +VK  I  + +E 
Sbjct: 94  GGIDGLLHVTDMAWRRVNHPSEILNIGQQVKVQIIRINQET 134


>gi|148594022|emb|CAL63580.1| ribosomal protein S1 [Ensifer adhaerens]
 gi|148594024|emb|CAL63581.1| ribosomal protein S1 [Ensifer adhaerens]
 gi|148594026|emb|CAL63582.1| ribosomal protein S1 [Ensifer adhaerens]
          Length = 403

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 43/101 (42%), Gaps = 8/101 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD  R  +  +++ ++++ R  +R       +   G+++ G VK +      VDL
Sbjct: 36  FEILKMDKRRGNIVVSRRTVLEESRAEQRSEIVQNLE--EGQVVEGVVKNITDYGAFVDL 93

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   +          E L  G +VK  I  + +E 
Sbjct: 94  GGIDGLLHVTDMAWRRVNHPSEILNIGQQVKVQIIRINQET 134


>gi|148594052|emb|CAL63595.1| ribosomal protein S1 [Sinorhizobium saheli]
 gi|148594074|emb|CAL63606.1| ribosomal protein S1 [Sinorhizobium saheli]
          Length = 403

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 43/101 (42%), Gaps = 8/101 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD  R  +  +++ ++++ R  +R       +   G+++ G VK +      VDL
Sbjct: 36  FEILKMDKRRGNIVVSRRTVLEESRAEQRSEIVQNLE--EGQVVEGVVKNITDYGAFVDL 93

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   +          E L  G +VK  I  + +E 
Sbjct: 94  GGIDGLLHVTDMAWRRVNHPSEILNIGQQVKVQIIRINQET 134


>gi|163848026|ref|YP_001636070.1| RNA-binding S1 domain-containing protein [Chloroflexus aurantiacus
           J-10-fl]
 gi|222525913|ref|YP_002570384.1| RNA binding S1 domain-containing protein [Chloroflexus sp.
           Y-400-fl]
 gi|163669315|gb|ABY35681.1| RNA binding S1 domain protein [Chloroflexus aurantiacus J-10-fl]
 gi|222449792|gb|ACM54058.1| RNA binding S1 domain protein [Chloroflexus sp. Y-400-fl]
          Length = 399

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 23/96 (23%), Positives = 45/96 (46%), Gaps = 7/96 (7%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
           + G++  G V  V    V VD+G +DG++   E          E L+ GD+VK  I ++ 
Sbjct: 227 REGDVRDGVVSSVCDFGVFVDIGGADGLVHLSEISWSRVKHPGEVLKVGDKVKVAILNID 286

Query: 191 REQRGPQVLLSRTHPQFMVKLFHM-EVPEIYNGIVQ 225
            E++   + + RT  +   ++    ++ +I  G + 
Sbjct: 287 HERKRIALSIKRTQSEPWTRVAERYQLGQIVEGTIT 322


>gi|320354711|ref|YP_004196050.1| NAD-dependent DNA ligase [Desulfobulbus propionicus DSM 2032]
 gi|320123213|gb|ADW18759.1| DNA ligase, NAD-dependent [Desulfobulbus propionicus DSM 2032]
          Length = 670

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 26/108 (24%), Positives = 48/108 (44%), Gaps = 10/108 (9%)

Query: 329 RLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN---VDEIIAHLLVAEGFADVE 385
           +LAS L GW     +        ++  +     F+ A+    V E+ A +L AE F ++ 
Sbjct: 484 KLAS-LDGWGE--KSARNILEAIEQRRSLPLAQFIAALGIRHVGEVTASVL-AEHFRELR 539

Query: 386 ELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGV 433
           EL   K   +  +EG  E+TA  +    ++ L    + + +++   GV
Sbjct: 540 ELMAAKKEALLRVEGIGEQTADSVIEYFQDPLT---VAMVEQLNRAGV 584


>gi|319780059|ref|YP_004139535.1| ribosomal protein S1 [Mesorhizobium ciceri biovar biserrulae
           WSM1271]
 gi|317165947|gb|ADV09485.1| ribosomal protein S1 [Mesorhizobium ciceri biovar biserrulae
           WSM1271]
          Length = 565

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 34/191 (17%), Positives = 69/191 (36%), Gaps = 29/191 (15%)

Query: 25  DVVLSVMADSIQKAARSLYGTMSD---IR-------------VEINPETGDISLFRLLEV 68
           +V +  + +++ +A  S      +   +R             V  N   G  ++     V
Sbjct: 75  EVYVERIENALGEAMLSREKARREESWVRLEEKFTKGERVEGVIFNQVKGGFTVDLDGAV 134

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                    Q+ ++  RD  P +         +  MD  R  +  +++ ++++ R  +R 
Sbjct: 135 A---FLPRSQVDIRPIRDVSPLMHNPQP--FEILKMDRRRGNIVVSRRTVLEESRAEQRS 189

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRV 182
                 +   G+++ G VK +      VDLG  DG++   +          E L  G  V
Sbjct: 190 EIVQNLE--EGQVVEGVVKNITDYGAFVDLGGIDGLLHVTDMAWRRVNHPTEILNIGQTV 247

Query: 183 KSYIYDVRREQ 193
           K  I  + +E 
Sbjct: 248 KVQIIRINQET 258


>gi|48478452|ref|YP_024158.1| ski2-like helicase [Picrophilus torridus DSM 9790]
 gi|48431100|gb|AAT43965.1| helicase involved in UV-protection [Picrophilus torridus DSM 9790]
          Length = 674

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 15/52 (28%), Positives = 22/52 (42%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
            ++   V  + A  L   GF  V+++A      I  I GF +  A EI   A
Sbjct: 612 LIKIPKVGRVRARRLYDNGFKTVDDIARSSPENIEKIFGFSKNLAAEIVNSA 663


>gi|15645027|ref|NP_207197.1| 30S ribosomal protein S1 [Helicobacter pylori 26695]
 gi|2500384|sp|P56008|RS1_HELPY RecName: Full=30S ribosomal protein S1
 gi|2313498|gb|AAD07462.1| ribosomal protein S1 (rps1) [Helicobacter pylori 26695]
          Length = 556

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 25/119 (21%), Positives = 42/119 (35%), Gaps = 15/119 (12%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           +  DP I          P + + +   Q   Q I  K+ E   +            II G
Sbjct: 78  QKNDPIIVHVSE-KGEHPSVSYKKAISQ---QKIQAKIEELGEN--------YENAIIEG 125

Query: 145 TVKRVEYGNVIVDLGNSDGVIRRDET-ISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            +     G  IV+    +  + R  + +  +    G RVK+ I  V +E     + +SR
Sbjct: 126 KIVGKNKGGYIVESQGVEYFLSRSHSSLKNDANHIGKRVKACIIRVDKENH--SINISR 182


>gi|317180145|dbj|BAJ57931.1| 30S ribosomal protein S1 [Helicobacter pylori F32]
          Length = 552

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 24/119 (20%), Positives = 42/119 (35%), Gaps = 15/119 (12%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           +  DP I          P + + +   Q   Q I  K+ E   +            II G
Sbjct: 74  QKNDPIIVHVSE-KGEHPSVSYKKAISQ---QKIQAKIEELGEN--------YENAIIEG 121

Query: 145 TVKRVEYGNVIVDLGNSDGVIRRDET-ISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            +     G  IV+    +  + R  + +  +    G R+K+ I  V +E     + +SR
Sbjct: 122 KIVGKNKGGYIVESQGVEYFLSRSHSSLKNDANHIGKRIKACIIRVDKENH--SINISR 178


>gi|148594020|emb|CAL63579.1| ribosomal protein S1 [Ensifer adhaerens]
          Length = 403

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 43/101 (42%), Gaps = 8/101 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD  R  +  +++ ++++ R  +R       +   G+++ G VK +      VDL
Sbjct: 36  FEILKMDKRRGNIVVSRRTVLEESRAEQRSEIVQNLE--EGQVVEGVVKNITDYGAFVDL 93

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   +          E L  G +VK  I  + +E 
Sbjct: 94  GGIDGLLHVTDMAWRRVNHPSEILNIGQQVKVQIIRINQET 134


>gi|154250605|ref|YP_001411429.1| 30S ribosomal protein S1 [Parvibaculum lavamentivorans DS-1]
 gi|154154555|gb|ABS61772.1| ribosomal protein S1 [Parvibaculum lavamentivorans DS-1]
          Length = 569

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 28/125 (22%), Positives = 51/125 (40%), Gaps = 10/125 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ ++  RD  P ++I       +  MD  R  +  +++ ++++ R  +R       
Sbjct: 142 PGSQVDIRPVRDVTPLMNIPQP--FQILKMDKRRGNIVVSRRAVLEETRAEQRQELVENL 199

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           K   G+++ G VK +      VDLG  DG++   +          E L  G  VK  +  
Sbjct: 200 K--EGQVLEGVVKNITDYGAFVDLGGVDGLLHVTDIAWRRVNHPTEVLSIGQTVKVQVIK 257

Query: 189 VRREQ 193
           V  E 
Sbjct: 258 VNHET 262


>gi|7407071|gb|AAF61901.1| RAD51 [Homo sapiens]
          Length = 75

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 14/64 (21%), Positives = 27/64 (42%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
           D+   ++ F  +    ++   ++      L   GF  VE +A     E+ +I+G  E  A
Sbjct: 12  DTSVEEESFGPQPISRLEQCGINANDVKKLEEAGFHTVEAVAYAPKKELINIKGISEAKA 71

Query: 407 VEIQ 410
            +I 
Sbjct: 72  DKIL 75


>gi|207092930|ref|ZP_03240717.1| 30S ribosomal protein S1 [Helicobacter pylori HPKX_438_AG0C1]
          Length = 186

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 24/119 (20%), Positives = 42/119 (35%), Gaps = 15/119 (12%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           +  DP I          P + + +   Q   Q I  K+ E   +            II G
Sbjct: 78  QKNDPIIVHVSE-KGEHPSVSYKKAISQ---QKIQAKIEELGEN--------YENAIIEG 125

Query: 145 TVKRVEYGNVIVDLGNSDGVIRRDET-ISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            +     G  IV+    +  + R  + +  +    G R+K+ I  V +E     + +SR
Sbjct: 126 KIVGKNKGGYIVESQGVEYFLSRSHSSLKNDANHIGKRIKACIIRVDKENH--SINISR 182


>gi|148594048|emb|CAL63593.1| ribosomal protein S1 [Sinorhizobium terangae]
 gi|148594050|emb|CAL63594.1| ribosomal protein S1 [Sinorhizobium terangae]
 gi|148594054|emb|CAL63596.1| ribosomal protein S1 [Sinorhizobium terangae]
          Length = 403

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 43/101 (42%), Gaps = 8/101 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD  R  +  +++ ++++ R  +R       +   G+++ G VK +      VDL
Sbjct: 36  FEILKMDKRRGNIVVSRRTVLEESRAEQRSEIVQNLE--EGQVVEGVVKNITDYGAFVDL 93

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   +          E L  G +VK  I  + +E 
Sbjct: 94  GGIDGLLHVTDMAWRRVNHPSEILNIGQQVKVQIIRINQET 134


>gi|321250076|ref|XP_003191680.1| recombinase [Cryptococcus gattii WM276]
 gi|317458147|gb|ADV19893.1| Recombinase, putative [Cryptococcus gattii WM276]
          Length = 353

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 13/51 (25%), Positives = 21/51 (41%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           +Q   +       L   GF  VE +A      + +I+G  E+ A +I   A
Sbjct: 34  LQEAGISAQDTKKLSDAGFHTVEAVAFTPKKTLCTIKGISEQKADKILAEA 84


>gi|294807103|ref|ZP_06765921.1| 30S ribosomal protein S1 [Bacteroides xylanisolvens SD CC 1b]
 gi|294445669|gb|EFG14318.1| 30S ribosomal protein S1 [Bacteroides xylanisolvens SD CC 1b]
          Length = 565

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 31/103 (30%), Positives = 52/103 (50%), Gaps = 7/103 (6%)

Query: 102 PPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVG--EIISGTVKRVEYGNVIVDLG 159
           P  DF   A ++     +  V   E ++ Y    +KV   E++ GTV  +    V+V++G
Sbjct: 9   PIEDFNWDAYENG--ETVTNVSHDELEKAYDGTLNKVNDREVVDGTVIAMNKREVVVNIG 66

Query: 160 -NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
             SDG+I  +E     +L+ GD V+ YI    +E +  Q++LS
Sbjct: 67  YKSDGIIPLNEFRYNPDLKVGDTVEVYIE--NQEDKKGQLVLS 107


>gi|94263173|ref|ZP_01286991.1| RNA binding S1 [delta proteobacterium MLMS-1]
 gi|93456544|gb|EAT06658.1| RNA binding S1 [delta proteobacterium MLMS-1]
          Length = 410

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 30/128 (23%), Positives = 56/128 (43%), Gaps = 16/128 (12%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPL-PPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
              Q+ L+ A   +P   +G   S  +    + G+  + S +Q++ Q     ER     +
Sbjct: 130 PYSQMDLRRA--ANPEEYLGQSFSFLIMEFREGGKNILLSRRQLLEQ-----ERQELKEQ 182

Query: 134 FKD--KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRE------NLRPGDRVKSY 185
            +   KVG++++GTV  V      VD+G  +G+I   E           +L PG +V+  
Sbjct: 183 LRQSLKVGDLVTGTVTSVRDFGAFVDIGGIEGLIPISEIGWGRVEDIHSHLEPGRQVEVA 242

Query: 186 IYDVRREQ 193
           +  +  E+
Sbjct: 243 VKSLDWEK 250


>gi|159186030|ref|NP_356542.2| 30S ribosomal protein S1 [Agrobacterium tumefaciens str. C58]
 gi|159141164|gb|AAK89327.2| 30S ribosomal protein S1 [Agrobacterium tumefaciens str. C58]
          Length = 566

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 34/191 (17%), Positives = 70/191 (36%), Gaps = 29/191 (15%)

Query: 25  DVVLSVMADSIQKA------ARS---------LYGTMSDIR-VEINPETGDISLFRLLEV 68
           +V +  + +++ +A      AR           +     +  V  N   G  ++     V
Sbjct: 75  EVYVERIENALGEAVLSREKARREESWVKLEAKFEAGERVEGVIFNQVKGGFTVDLDGAV 134

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                    Q+ ++  RD  P +         +  MD  R  +  +++ ++++ R  +R 
Sbjct: 135 A---FLPRSQVDIRPIRDVTPLMHNPQP--FEILKMDKRRGNIVVSRRTVLEESRAEQRS 189

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRV 182
                 +   G+++ G VK +      VDLG  DG++   +          E L  G +V
Sbjct: 190 EIVQNLE--EGQVVDGVVKNITDYGAFVDLGGIDGLLHVTDMAWRRVNHPSEILNIGQQV 247

Query: 183 KSYIYDVRREQ 193
           K  I  + +E 
Sbjct: 248 KVQIIRINQET 258


>gi|106880497|ref|NP_001006894.2| DNA-directed DNA polymerase beta [Xenopus (Silurana) tropicalis]
 gi|89272500|emb|CAJ82346.1| polymerase (DNA directed), beta [Xenopus (Silurana) tropicalis]
          Length = 334

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 20/72 (27%), Positives = 32/72 (44%), Gaps = 7/72 (9%)

Query: 394 EIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKVA 450
           E   ++G   + A +I     E+L    +   +KIR+   S     L  + GI       
Sbjct: 58  EAKKLDGVGAKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPAAARK 113

Query: 451 LGENGIKTMEDL 462
           L + GIKT++DL
Sbjct: 114 LVDEGIKTLDDL 125


>gi|78043962|ref|YP_360744.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding
           domain protein [Carboxydothermus hydrogenoformans
           Z-2901]
 gi|77996077|gb|ABB14976.1| hydroxymethylbutenyl pyrophosphate reductase/ribosomal protein S1
           [Carboxydothermus hydrogenoformans Z-2901]
          Length = 653

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 10/73 (13%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDV 189
           K GEI+ G V +V    V+VD+G   +GVI  +E        +R+ ++ GD     +   
Sbjct: 290 KEGEIVRGKVVKVLEKEVLVDIGTKGEGVIPLEEITWYRIERARDAVKEGDEFPVLVLKE 349

Query: 190 RREQRGPQVLLSR 202
             E +   ++LSR
Sbjct: 350 DEEGK---IILSR 359



 Score = 37.7 bits (87), Expect = 4.7,   Method: Composition-based stats.
 Identities = 15/63 (23%), Positives = 28/63 (44%), Gaps = 6/63 (9%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
           K G  + G V ++      VDLG  +G++R  +          E+L+ G  ++  + +V 
Sbjct: 462 KEGSKVKGKVTKIMPFGAFVDLGGFEGLLRAQDISWQRNVRPEEHLQVGQELEVVVLEVD 521

Query: 191 REQ 193
           R  
Sbjct: 522 RHN 524


>gi|150015374|ref|YP_001307628.1| 30S ribosomal protein S1 [Clostridium beijerinckii NCIMB 8052]
 gi|149901839|gb|ABR32672.1| RNA binding S1 domain protein [Clostridium beijerinckii NCIMB 8052]
          Length = 384

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 32/172 (18%), Positives = 69/172 (40%), Gaps = 29/172 (16%)

Query: 43  YGTMSDIRVEINPET--------GDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIG 94
           +    +I+V +  ET        G++ +F                SL      + S  +G
Sbjct: 108 FKEKKNIKVHVKEETKGGVIAYYGNVRVF-------------IPGSLASRERIELSSLVG 154

Query: 95  GVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNV 154
             +   +  +DF    V +++++I ++     +   +   K   GE  +G VK++     
Sbjct: 155 RDLDVRITELDFKNKKVIASRRIIEEEEYNKNKKNIWDNLK--EGEKRNGVVKKIVKFGA 212

Query: 155 IVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLL 200
            VD+G  +G+I   +          + ++ GD V+ +I +V R+     ++L
Sbjct: 213 FVDIGGVEGLIHLSDLSWERVNKPEDIVKEGDNVEVFIGNVDRKNERLSLIL 264


>gi|320450381|ref|YP_004202477.1| DNA-dependent DNA polymerase subunit beta [Thermus scotoductus
           SA-01]
 gi|320150550|gb|ADW21928.1| DNA-dependent DNA polymerase beta chain [Thermus scotoductus SA-01]
          Length = 575

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 25/108 (23%), Positives = 47/108 (43%), Gaps = 13/108 (12%)

Query: 384 VEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEEL--CSIP 441
           +EE+A      + ++ G   + A +I     E+L+  +I   +++ E      L    +P
Sbjct: 44  IEEVAKGGREALLALPGIGPDLAEKIL----EFLKTGEIKKHRELAERVPKGVLAVMEVP 99

Query: 442 GIDSKIKVAL-GENGIKTMEDLAGCSVD-----DLLGWSENKGGNIEK 483
           G+  K    L  E GI ++E L   ++D      L G+ + K   I +
Sbjct: 100 GVGPKTARQLYDELGIDSLEKLRE-ALDRGDLLRLKGFGQKKAERIRE 146


>gi|319789848|ref|YP_004151481.1| DNA ligase, NAD-dependent [Thermovibrio ammonificans HB-1]
 gi|317114350|gb|ADU96840.1| DNA ligase, NAD-dependent [Thermovibrio ammonificans HB-1]
          Length = 723

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 27/104 (25%), Positives = 45/104 (43%), Gaps = 9/104 (8%)

Query: 333 QLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN---VDEIIAHLLVAEGFADVEELAC 389
           +L+GW +   +E   +   +       +    A+    V E  A LL    F ++EEL  
Sbjct: 517 KLSGWGLK-KSENLLNQIEKSKSAPFWKKLT-ALGIRHVGEKTAQLLAKR-FKNIEELMN 573

Query: 390 VKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGV 433
              +E+ASI G    TA  IQ   +      ++ + KK++E G 
Sbjct: 574 ADFTELASIPGIGPITATSIQNFFKA---EQNVEMIKKLQEAGF 614


>gi|227893491|ref|ZP_04011296.1| 30S ribosomal protein S1 [Lactobacillus ultunensis DSM 16047]
 gi|227864716|gb|EEJ72137.1| 30S ribosomal protein S1 [Lactobacillus ultunensis DSM 16047]
          Length = 402

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 34/167 (20%), Positives = 63/167 (37%), Gaps = 35/167 (20%)

Query: 119 IQKVREAERDRQYLEFKDK--VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI----- 171
            + + E ER+  + +   +  VG++I G V R+      +D+G  DG++   E       
Sbjct: 176 HKDLVEEEREEAFDKVASQLVVGDVIEGKVSRLTNFGAFIDVGGVDGLVHISEISYKHVD 235

Query: 172 -SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVK---------LFHMEV----- 216
              + L+ G  VK  +  +  ++    + + +T P    +         +F  EV     
Sbjct: 236 KPSDVLKAGQDVKVKVIGIDNDRHRISLSIKQTEPSPFEQATANLSEGDVFEGEVKSLTN 295

Query: 217 ----PEIYNGIVQVKAVSRD-------PGSRAKLA--VFSSDSSIDP 250
                E+ +GI  +  VS         P    K+   V     +IDP
Sbjct: 296 FGAFVEVADGIQGLVHVSEISNKHVDKPSDVLKVGQTVKVKVLNIDP 342


>gi|222530476|ref|YP_002574358.1| RNA binding S1 domain-containing protein [Caldicellulosiruptor
           bescii DSM 6725]
 gi|222457323|gb|ACM61585.1| RNA binding S1 domain protein [Caldicellulosiruptor bescii DSM
           6725]
          Length = 254

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 18/116 (15%), Positives = 43/116 (37%), Gaps = 15/116 (12%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              ++ L+          +G ++   +   + GR  +   K +     R    ++     
Sbjct: 53  DEAELGLQEQVKNKADALLGALIEFVVIAQENGRFYISRVKAMEK---RRKIWEKV---- 105

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
             K G+I+ G +  V   N  +++   +  +  +E +       R + +  DRVK+
Sbjct: 106 --KEGDIVEGRITGVTPRNAFIEVLGYEFALPAEEMLWNYTNDLRRHFKIADRVKA 159


>gi|146296423|ref|YP_001180194.1| RNA-binding S1 domain-containing protein [Caldicellulosiruptor
           saccharolyticus DSM 8903]
 gi|145409999|gb|ABP67003.1| RNA binding S1 domain protein [Caldicellulosiruptor saccharolyticus
           DSM 8903]
          Length = 258

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 27/112 (24%), Positives = 46/112 (41%), Gaps = 18/112 (16%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG 152
           +G  +   +   D  +  V  +++V  Q +R  E +        K G+II+G V  V   
Sbjct: 70  LGATIEFVVT--DIQKDNVFISRKVAKQ-LRRIEFENNV-----KEGQIINGRVIGVSPK 121

Query: 153 NVIVDLGNSDGVIRRDE----TIS--RENLRPGDRVKSYIYDVRREQRGPQV 198
           NV VD    +  +   +     I   RE  + GD VK+ +      +  PQ+
Sbjct: 122 NVYVDAFGYEFGLTAKDVDYKWIHDMRERFKVGDSVKAKVI----SKNPPQI 169


>gi|160889578|ref|ZP_02070581.1| hypothetical protein BACUNI_02004 [Bacteroides uniformis ATCC 8492]
 gi|317480069|ref|ZP_07939180.1| DNA ligase [Bacteroides sp. 4_1_36]
 gi|156861095|gb|EDO54526.1| hypothetical protein BACUNI_02004 [Bacteroides uniformis ATCC 8492]
 gi|316903746|gb|EFV25589.1| DNA ligase [Bacteroides sp. 4_1_36]
          Length = 665

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 25/118 (21%), Positives = 43/118 (36%), Gaps = 16/118 (13%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           V E +A   +A+ F D+EEL    + ++ +I+   E+ A  I           +  L ++
Sbjct: 515 VGETVAKK-IAKSFTDIEELENADLEKLKNIDEIGEKIAQSIITYFSN---PANRELVER 570

Query: 428 IRELGV-----SEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           ++  G+      E+L    G        L    I         S D+     E  GG 
Sbjct: 571 LKSNGLQLHRTEEDL---SGYTD----KLAGQSIVISGVFTHHSRDEYKEMIEKNGGK 621


>gi|148594012|emb|CAL63575.1| ribosomal protein S1 [Ensifer adhaerens]
 gi|148594014|emb|CAL63576.1| ribosomal protein S1 [Ensifer adhaerens]
 gi|148594018|emb|CAL63578.1| ribosomal protein S1 [Ensifer adhaerens]
          Length = 403

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 43/101 (42%), Gaps = 8/101 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD  R  +  +++ ++++ R  +R       +   G+++ G VK +      VDL
Sbjct: 36  FEILKMDKRRGNIVVSRRTVLEESRAEQRSEIVQNLE--EGQVVEGVVKNITDYGAFVDL 93

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   +          E L  G +VK  I  + +E 
Sbjct: 94  GGIDGLLHVTDMAWRRVNHPSEILNIGQQVKVQIIRINQET 134


>gi|49257724|gb|AAH74537.1| polymerase (DNA directed), beta [Xenopus (Silurana) tropicalis]
          Length = 334

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 20/72 (27%), Positives = 32/72 (44%), Gaps = 7/72 (9%)

Query: 394 EIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKVA 450
           E   ++G   + A +I     E+L    +   +KIR+   S     L  + GI       
Sbjct: 58  EAKKLDGVGAKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPAAARK 113

Query: 451 LGENGIKTMEDL 462
           L + GIKT++DL
Sbjct: 114 LVDEGIKTLDDL 125


>gi|241889493|ref|ZP_04776792.1| 30S ribosomal protein S1 [Gemella haemolysans ATCC 10379]
 gi|241863800|gb|EER68183.1| 30S ribosomal protein S1 [Gemella haemolysans ATCC 10379]
          Length = 402

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 21/108 (19%), Positives = 45/108 (41%), Gaps = 10/108 (9%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD-KVGEIISGTVKRVEY 151
           +G   +  +  +D  +  +   ++VI   + E +  +    + +   G++I G V R+  
Sbjct: 164 VGNEYTFKIEEVDKSKNKIILNRRVI---LEEEKAKKLAEVYGNINEGDVIEGKVSRITD 220

Query: 152 GNVIVDLGNSDGVIRRDETIS------RENLRPGDRVKSYIYDVRREQ 193
               V++G  DG++   E          + L  GD +K  +  V +E 
Sbjct: 221 FGAFVNIGEVDGLLHISEISHARVEKVADVLSVGDTIKVAVIAVDKEN 268


>gi|237653696|ref|YP_002890010.1| 30S ribosomal protein S1 [Thauera sp. MZ1T]
 gi|237624943|gb|ACR01633.1| ribosomal protein S1 [Thauera sp. MZ1T]
          Length = 567

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 25/114 (21%), Positives = 48/114 (42%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +D +   G      +  +D  R  V  +++ ++++    ER++     K   G +I G V
Sbjct: 149 KDTTPYEGKEYEFKVIKLDRKRNNVVVSRRAVLEESMGEEREKLLANLK--EGTVIKGVV 206

Query: 147 KRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++       R      E L  GD +++ +    +E+ 
Sbjct: 207 KNITDYGAFVDLGGIDGLLHITDLAWRRVRHPSEVLSVGDEIEAKVLKFDQEKN 260



 Score = 36.6 bits (84), Expect = 9.3,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 33/71 (46%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISREN------LRPGDRVKSYIYDVR 190
              ++ GTVK VE    ++ LG+  +G +R  E             + GD V++ + +V 
Sbjct: 457 KNSLVRGTVKSVEARGAVISLGDDVEGYLRASEAAPHRVDDLTTMFKEGDEVEALVINVD 516

Query: 191 REQRGPQVLLS 201
           R+ R   + LS
Sbjct: 517 RKTR--SISLS 525


>gi|221124380|ref|XP_002163382.1| PREDICTED: hypothetical protein [Hydra magnipapillata]
          Length = 874

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 20/68 (29%), Positives = 33/68 (48%), Gaps = 7/68 (10%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G+ ++G VK V+     +DLG+   G +R  E         R  L+ GD V + + +V 
Sbjct: 766 KGQTVTGKVKTVDAKGAEIDLGDDILGYLRASEISRDRVEDARNVLKEGDEVTAVVVNVD 825

Query: 191 REQRGPQV 198
           R+ R  Q+
Sbjct: 826 RKTRNIQL 833



 Score = 38.9 bits (90), Expect = 2.2,   Method: Composition-based stats.
 Identities = 22/90 (24%), Positives = 38/90 (42%), Gaps = 10/90 (11%)

Query: 121 KVREAERDRQYLEFKDK----VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDE--TISR 173
           K+        + E   +     GE+I+  V R+E+  V+V+ G  S+  +  +E  +   
Sbjct: 315 KLMSESFAALFEESLQRSEMRTGEVITAEVVRIEHSFVVVNAGLKSEAYVPIEEFKSDKG 374

Query: 174 E-NLRPGDRVKSYIYDVRREQRGPQVLLSR 202
           E  ++ GD V   I  V         +LSR
Sbjct: 375 EIEVQVGDFVSVAIDSVENGYGDT--ILSR 402


>gi|149177996|ref|ZP_01856593.1| 30S ribosomal protein S1 [Planctomyces maris DSM 8797]
 gi|148843189|gb|EDL57555.1| 30S ribosomal protein S1 [Planctomyces maris DSM 8797]
          Length = 641

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 23/110 (20%), Positives = 45/110 (40%), Gaps = 8/110 (7%)

Query: 92  DIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK--VGEIISGTVKRV 149
           DI   +   +  +       +    V  +K+ E +R++   +   K   G+I+ G VK +
Sbjct: 174 DIANYIGRTIECVILKIDEARRNIVVSRRKLIEEKREKLKQDLLSKIEEGQIVKGIVKNI 233

Query: 150 EYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
                 VDLG  DG++   +          E ++  D ++  I  V R++
Sbjct: 234 ADFGAFVDLGGIDGLLHITDMSWGRINHPTEIVKIDDEIEVMILSVDRDK 283


>gi|71028444|ref|XP_763865.1| DNA repair protein Rad51 [Theileria parva strain Muguga]
 gi|68350819|gb|EAN31582.1| DNA repair protein rad51, putative [Theileria parva]
          Length = 343

 Score = 39.7 bits (92), Expect = 1.2,   Method: Composition-based stats.
 Identities = 9/38 (23%), Positives = 19/38 (50%)

Query: 378 AEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
             G++ +E +A      +  I+G  E+  ++I+   RE
Sbjct: 46  EAGYSTLECVAYAPQKNLLVIKGLSEQKVLKIKAACRE 83


>gi|332716826|ref|YP_004444292.1| 30S ribosomal protein S1 [Agrobacterium sp. H13-3]
 gi|325063511|gb|ADY67201.1| 30S ribosomal protein S1 [Agrobacterium sp. H13-3]
          Length = 566

 Score = 39.7 bits (92), Expect = 1.3,   Method: Composition-based stats.
 Identities = 34/191 (17%), Positives = 70/191 (36%), Gaps = 29/191 (15%)

Query: 25  DVVLSVMADSIQKA------ARS---------LYGTMSDIR-VEINPETGDISLFRLLEV 68
           +V +  + +++ +A      AR           +     +  V  N   G  ++     V
Sbjct: 75  EVYVERIENALGEAVLSREKARREESWVKLEAKFEAGERVEGVIFNQVKGGFTVDLDGAV 134

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                    Q+ ++  RD  P +         +  MD  R  +  +++ ++++ R  +R 
Sbjct: 135 A---FLPRSQVDIRPIRDVTPLMHNPQP--FEILKMDKRRGNIVVSRRTVLEESRAEQRS 189

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRV 182
                 +   G+++ G VK +      VDLG  DG++   +          E L  G +V
Sbjct: 190 EIVQNLE--EGQVVDGVVKNITDYGAFVDLGGIDGLLHVTDMAWRRVNHPSEILNIGQQV 247

Query: 183 KSYIYDVRREQ 193
           K  I  + +E 
Sbjct: 248 KVQIIRINQET 258


>gi|170591398|ref|XP_001900457.1| KH domain containing protein [Brugia malayi]
 gi|158592069|gb|EDP30671.1| KH domain containing protein [Brugia malayi]
          Length = 634

 Score = 39.7 bits (92), Expect = 1.3,   Method: Composition-based stats.
 Identities = 19/63 (30%), Positives = 28/63 (44%)

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DE     E+ VP   +   IG+ GQNVR   +LTG  + I  +  D  N++        
Sbjct: 525 MDEVRLCTEIAVPSRLVGRIIGKGGQNVRELQRLTGAQVKIPDDAGDDENQKATIVRVLG 584

Query: 361 FFM 363
            F 
Sbjct: 585 NFQ 587



 Score = 38.9 bits (90), Expect = 2.4,   Method: Composition-based stats.
 Identities = 37/169 (21%), Positives = 69/169 (40%), Gaps = 24/169 (14%)

Query: 284 ATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDII- 342
           A +V N +  A    +   + V  + + VP   +   IG +G ++R A +LTG  + I  
Sbjct: 355 AQYVRNTVGTA--VAITGQQQVRTVHMWVPNNMVGALIGAKGAHIRSAIRLTGAQLRIEG 412

Query: 343 --TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIE- 399
             T ++   +R +  NE++    +   V E++   LV       E +  +  +E  S E 
Sbjct: 413 GGTNKDKKESRGEGNNEKSD---KDNAVTELVKKELVEAD----ERVNELDKNENNSDEK 465

Query: 400 --GFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSK 446
             G  EE   ++               + K +++   E L +I G D +
Sbjct: 466 QNGKKEENVEKV---------ASPKLSKDKDKDVHAEERLVTITGNDPQ 505


>gi|260462840|ref|ZP_05811045.1| ribosomal protein S1 [Mesorhizobium opportunistum WSM2075]
 gi|259031484|gb|EEW32755.1| ribosomal protein S1 [Mesorhizobium opportunistum WSM2075]
          Length = 565

 Score = 39.7 bits (92), Expect = 1.3,   Method: Composition-based stats.
 Identities = 34/191 (17%), Positives = 69/191 (36%), Gaps = 29/191 (15%)

Query: 25  DVVLSVMADSIQKAARSLYGTMSD---IR-------------VEINPETGDISLFRLLEV 68
           +V +  + +++ +A  S      +   +R             V  N   G  ++     V
Sbjct: 75  EVYVERIENALGEAMLSREKARREESWVRLEEKFTKGERVEGVIFNQVKGGFTVDLDGAV 134

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                    Q+ ++  RD  P +         +  MD  R  +  +++ ++++ R  +R 
Sbjct: 135 A---FLPRSQVDIRPIRDVSPLMHNPQP--FEILKMDRRRGNIVVSRRTVLEESRAEQRS 189

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRV 182
                 +   G+++ G VK +      VDLG  DG++   +          E L  G  V
Sbjct: 190 EIVQNLE--EGQVVEGVVKNITDYGAFVDLGGIDGLLHVTDMAWRRVNHPTEILNIGQTV 247

Query: 183 KSYIYDVRREQ 193
           K  I  + +E 
Sbjct: 248 KVQIIRINQET 258


>gi|18313927|ref|NP_560594.1| DNA repair protein radA [Pyrobaculum aerophilum str. IM2]
 gi|18161497|gb|AAL64776.1| DNA repair protein radA [Pyrobaculum aerophilum str. IM2]
          Length = 311

 Score = 39.7 bits (92), Expect = 1.3,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 29/61 (47%)

Query: 435 EELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTP 494
           E+L SI G+  K    L E G+ ++E LA  +V++L+         ++     L  +G  
Sbjct: 6   EDLQSIEGVGPKTLEKLRELGVTSVEHLAEFTVEELVEAGIEYDRAVKLLQQALQRVGAA 65

Query: 495 K 495
           +
Sbjct: 66  R 66


>gi|329770414|ref|ZP_08261796.1| hypothetical protein HMPREF0433_01560 [Gemella sanguinis M325]
 gi|328836537|gb|EGF86197.1| hypothetical protein HMPREF0433_01560 [Gemella sanguinis M325]
          Length = 402

 Score = 39.7 bits (92), Expect = 1.3,   Method: Composition-based stats.
 Identities = 22/108 (20%), Positives = 45/108 (41%), Gaps = 10/108 (9%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD-KVGEIISGTVKRVEY 151
           +G   +  +  +D  +  +   ++VI   + E +  +    + +   G++I G V R+  
Sbjct: 164 VGNEYTFKIEEVDKAKNKIILNRRVI---LEEEKAKKLAEVYGNINEGDVIEGKVSRITN 220

Query: 152 GNVIVDLGNSDGVIRRDETISR------ENLRPGDRVKSYIYDVRREQ 193
               V++G  DG++   E          + L  GD VK  +  V +E 
Sbjct: 221 FGAFVNIGEVDGLLHISEISHSRLEKVEDALSVGDTVKVAVIAVDKEN 268


>gi|238926860|ref|ZP_04658620.1| possible 30S ribosomal protein S1 [Selenomonas flueggei ATCC 43531]
 gi|238885392|gb|EEQ49030.1| possible 30S ribosomal protein S1 [Selenomonas flueggei ATCC 43531]
          Length = 370

 Score = 39.7 bits (92), Expect = 1.3,   Method: Composition-based stats.
 Identities = 23/132 (17%), Positives = 55/132 (41%), Gaps = 10/132 (7%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ L   +D   S+ +   V   +  +D  +  +  +++ ++++ R  + +  +   
Sbjct: 129 PASQMELHFVKDL--SVYVDQTVEAEIIEIDVQKRRLVLSRRKLLERDRAEKEEAVFSAI 186

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           +    +I+ GTVKR+      +D+G  DG+    +          E L  G  +  Y+  
Sbjct: 187 EP--EQIVRGTVKRLVDYGAFIDIGGVDGLAHISDLAWHRVKHPSEVLEVGQELDVYVKS 244

Query: 189 VRREQRGPQVLL 200
           V R+ +   + +
Sbjct: 245 VDRDTKRISLSV 256


>gi|260944444|ref|XP_002616520.1| conserved hypothetical protein [Clavispora lusitaniae ATCC 42720]
 gi|238850169|gb|EEQ39633.1| conserved hypothetical protein [Clavispora lusitaniae ATCC 42720]
          Length = 339

 Score = 39.7 bits (92), Expect = 1.3,   Method: Composition-based stats.
 Identities = 13/74 (17%), Positives = 27/74 (36%)

Query: 342 ITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
           ++E+    + +          ++   +       L  EG+  VE LA      + +++G 
Sbjct: 1   MSEQHIEDDDEGFAGPLLIERLEGNGISAGDIKKLKMEGYHTVESLAYAPKKALLTVKGI 60

Query: 402 DEETAVEIQGRARE 415
            E  A  I   A +
Sbjct: 61  SEAKADRISQEASK 74


>gi|87302523|ref|ZP_01085340.1| 30S ribosomal protein S1-like B, putative [Synechococcus sp. WH
           5701]
 gi|87282867|gb|EAQ74824.1| 30S ribosomal protein S1-like B, putative [Synechococcus sp. WH
           5701]
          Length = 403

 Score = 39.7 bits (92), Expect = 1.3,   Method: Composition-based stats.
 Identities = 21/88 (23%), Positives = 35/88 (39%), Gaps = 4/88 (4%)

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR--PGDRVKSYIYDVRREQRGP 196
           G+++   V     G V  DL    G I R +  + EN     G        +V  + R  
Sbjct: 218 GKVVQVKVSGFNRGGVTCDLEGLRGFIPRSQLQNGENHEQLVGTSFAVAFLEVNADTR-- 275

Query: 197 QVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           +++LS         L  +EV ++ +G V
Sbjct: 276 KLVLSEKRAASASLLAELEVGQLVDGQV 303


>gi|108804846|ref|YP_644783.1| 30S ribosomal protein S1P [Rubrobacter xylanophilus DSM 9941]
 gi|108766089|gb|ABG04971.1| SSU ribosomal protein S1P [Rubrobacter xylanophilus DSM 9941]
          Length = 411

 Score = 39.7 bits (92), Expect = 1.3,   Method: Composition-based stats.
 Identities = 20/82 (24%), Positives = 45/82 (54%), Gaps = 11/82 (13%)

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPG 179
            +   ++F+D  G+I+ G V R++   V+VD+G  S+G+I  +E         ++ +  G
Sbjct: 29  DESVLIDFQD--GDIVEGEVVRIDKDEVLVDIGYKSEGLIPANELTIRKGADPKDVVELG 86

Query: 180 DRVKSYIYDVRREQRGPQVLLS 201
            R+++ +   ++E    +++LS
Sbjct: 87  QRIEALVL--QKEDADGRLILS 106


>gi|20067699|emb|CAD29091.1| chimeric DNA-directed DNA polymerase bf4-18 [synthetic construct]
          Length = 338

 Score = 39.7 bits (92), Expect = 1.3,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
            L + GIKT+EDL
Sbjct: 113 KLVDEGIKTLEDL 125


>gi|332187529|ref|ZP_08389266.1| ribosomal protein S1 [Sphingomonas sp. S17]
 gi|332012458|gb|EGI54526.1| ribosomal protein S1 [Sphingomonas sp. S17]
          Length = 569

 Score = 39.7 bits (92), Expect = 1.3,   Method: Composition-based stats.
 Identities = 28/125 (22%), Positives = 52/125 (41%), Gaps = 10/125 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ ++  RD  P +DI       +  MD  R  +  +++ ++++ R  +R       
Sbjct: 139 PGSQVDIRPVRDVTPLMDIPQP--FQILKMDRKRGNIVVSRRAVLEETRAEQRSGLIQSL 196

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
               G+II G VK +      VDLG  DG++   +          E +  GD V+  I  
Sbjct: 197 A--EGQIIDGVVKNITDYGAFVDLGGIDGLLHVTDLSYKRVNHPSEMIAIGDTVRVQIIR 254

Query: 189 VRREQ 193
           + ++ 
Sbjct: 255 INKDT 259



 Score = 38.5 bits (89), Expect = 3.1,   Method: Composition-based stats.
 Identities = 19/69 (27%), Positives = 32/69 (46%), Gaps = 6/69 (8%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDE-TISREN--LRPGDRVKSYIYDVRREQ 193
            G ++ GTV  +E    ++D+G  S+G +   E     +   L+ GD V+ Y+  V    
Sbjct: 27  EGRVVHGTVTAIENDMAVIDVGLKSEGRVPLREFAAPGQKADLKVGDEVEVYVDRVENMH 86

Query: 194 RGPQVLLSR 202
                +LSR
Sbjct: 87  GEA--MLSR 93


>gi|325680686|ref|ZP_08160224.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Ruminococcus
           albus 8]
 gi|324107466|gb|EGC01744.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Ruminococcus
           albus 8]
          Length = 628

 Score = 39.7 bits (92), Expect = 1.3,   Method: Composition-based stats.
 Identities = 28/121 (23%), Positives = 47/121 (38%), Gaps = 14/121 (11%)

Query: 90  SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR---EAERDRQYLEFKDKV--GEIISG 144
             D+  ++   +         V  AKQ  +  VR     E+     +F +    G  + G
Sbjct: 412 DYDLNELLKQTVKFKILE---VNDAKQRAVGSVRAVAREEKAAAQSKFFETAVPGTEMEG 468

Query: 145 TVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQV 198
            VK +    V VDLG  DG++RR +          + +  GD+V   I D+  E +   +
Sbjct: 469 VVKSITDYGVFVDLGGVDGLVRRADLSWNRIKHPSDVVSIGDKVTVTIKDIDPETKKVSL 528

Query: 199 L 199
            
Sbjct: 529 T 529


>gi|255535011|ref|YP_003095382.1| 30S ribosomal protein S1 [Flavobacteriaceae bacterium 3519-10]
 gi|255341207|gb|ACU07320.1| SSU ribosomal protein S1p [Flavobacteriaceae bacterium 3519-10]
          Length = 597

 Score = 39.7 bits (92), Expect = 1.3,   Method: Composition-based stats.
 Identities = 34/134 (25%), Positives = 53/134 (39%), Gaps = 10/134 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +K  +D D  +             +F  V V   K +I   +   +R+  
Sbjct: 159 EAFLPGSQIDVKPIKDYDQFVGKTMEFKVVKINPEFKNVVVSH-KALIEADLEGQKREII 217

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
             + +   G+++ GTVK +    V VDLG  DG+I   +          E L  G+ VK 
Sbjct: 218 -GQLE--KGQVLEGTVKNITSYGVFVDLGGVDGLIHITDLSWSRVNHPSEILSDGETVKV 274

Query: 185 YIYDVRREQRGPQV 198
            I D   E+   Q+
Sbjct: 275 VILDFDDEKTRIQL 288


>gi|257125163|ref|YP_003163277.1| RNA binding S1 domain protein [Leptotrichia buccalis C-1013-b]
 gi|257049102|gb|ACV38286.1| RNA binding S1 domain protein [Leptotrichia buccalis C-1013-b]
          Length = 600

 Score = 39.7 bits (92), Expect = 1.3,   Method: Composition-based stats.
 Identities = 31/151 (20%), Positives = 59/151 (39%), Gaps = 19/151 (12%)

Query: 59  DISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMD-FGRVAVQSAKQV 117
           D  +F  LE   EV  +  + S    +       +G  V   +  +D   +    S KQ+
Sbjct: 439 DYGIFVELEKGIEVFIHRNEFSWD--KREHKKYKVGDEVEFKVIIVDKLDKKLSGSIKQL 496

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETIS---- 172
                +EA           K G +I+  +  ++   V+V L    +G++ + E       
Sbjct: 497 EKSPWKEATEQ-------CKKGNVINTEIVEIQENFVLVKLTDRFNGIVPKRELSEEFLK 549

Query: 173 --RENLRPGDRVKSYIYDVRREQRGPQVLLS 201
              E    GD+V++ I D+  +++   + LS
Sbjct: 550 DISEKFSIGDKVQAVITDINEKRK--SIALS 578



 Score = 37.4 bits (86), Expect = 5.5,   Method: Composition-based stats.
 Identities = 19/116 (16%), Positives = 42/116 (36%), Gaps = 16/116 (13%)

Query: 90  SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV 149
             +IG  +   +   D   + V              ++ ++   F   V +I++G + R 
Sbjct: 55  DFEIGDKIEVKVLREDDDNIIVSKFM---------LDKAKELASFN--VDDIVTGEISRK 103

Query: 150 EYGNVIVDLGNSDGVIRRD-ETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTH 204
             G   V +G ++  +        ++    G + K  I    RE+    + +SR+ 
Sbjct: 104 IKGGYTVKIGKNEAFLPFSLARFEKDKDYTGQKFKFLI----REKNKSNITISRSD 155


>gi|162452733|ref|YP_001615100.1| DNA ligase [Sorangium cellulosum 'So ce 56']
 gi|190359289|sp|A9F3W3|DNLJ_SORC5 RecName: Full=DNA ligase; AltName: Full=Polydeoxyribonucleotide
           synthase [NAD+]
 gi|161163315|emb|CAN94620.1| DNA ligase [Sorangium cellulosum 'So ce 56']
          Length = 676

 Score = 39.7 bits (92), Expect = 1.3,   Method: Composition-based stats.
 Identities = 19/94 (20%), Positives = 36/94 (38%), Gaps = 16/94 (17%)

Query: 337 WTIDIITEEEDSINRQKDFNERTQ-----------FFMQAINVDE---IIAHLLVAEGFA 382
           + + + +  +     +K   +  +            F+ A+ ++      A LLV+ G+ 
Sbjct: 482 YKLTVKSIADLDRRGEKSATKCLEQLKSRLPLALPVFLAALGIEGFAIQTARLLVSAGYT 541

Query: 383 DVEELACVKISEIASIEGFDEETAVEIQG--RAR 414
            +E+L      E+A I G     A  I    RAR
Sbjct: 542 TIEKLLAAGEDELAGIPGLGAIKAASIVRGLRAR 575


>gi|296269520|ref|YP_003652152.1| serine/threonine protein kinase [Thermobispora bispora DSM 43833]
 gi|296092307|gb|ADG88259.1| serine/threonine protein kinase [Thermobispora bispora DSM 43833]
          Length = 1387

 Score = 39.7 bits (92), Expect = 1.3,   Method: Composition-based stats.
 Identities = 28/161 (17%), Positives = 58/161 (36%), Gaps = 7/161 (4%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           + A  +       L       V +L      E++ + G  + T  EI+ RA+++   +  
Sbjct: 806 IAAAGLTPRAVDALHRIDVRTVRDLLARSPFELSRLSGVADPTKREIRRRAKQWRARLQP 865

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
              + I     +++L    G+D  +  +L   G+K   D A   V       E       
Sbjct: 866 ATPEPIGTGEPADDLG--RGVD-AVLRSLLPKGVK--PDTAEAQVLRCYLGLEETESAWP 920

Query: 483 KFDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQ 523
                  + G    +V  ++  AR +  W + + +A+   +
Sbjct: 921 TNAELGEAAGVTAGRVSQILPKARKR--WRQSKALAEVRDE 959


>gi|325679748|ref|ZP_08159322.1| excinuclease ABC, C subunit [Ruminococcus albus 8]
 gi|324108563|gb|EGC02805.1| excinuclease ABC, C subunit [Ruminococcus albus 8]
          Length = 614

 Score = 39.7 bits (92), Expect = 1.3,   Method: Composition-based stats.
 Identities = 21/112 (18%), Positives = 42/112 (37%), Gaps = 6/112 (5%)

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERT 359
           V D+      +     ++SL   R   N  L +Q+     ++          ++  +  +
Sbjct: 503 VKDDHHRTRAIATGDGEISLLKSRAAFN--LVTQIQD---EVHRVAITYQKAKRKRSTFS 557

Query: 360 QFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
               +   V E  A  L+   F   E L    + E+ ++ G  E+TA E++ 
Sbjct: 558 LELTKVRGVGEKKAQKLITA-FKTKEALKKASVEELRAVAGISEDTAKELKN 608


>gi|58337265|ref|YP_193850.1| 30S ribosomal protein S1 [Lactobacillus acidophilus NCFM]
 gi|227903850|ref|ZP_04021655.1| 30S ribosomal protein S1 [Lactobacillus acidophilus ATCC 4796]
 gi|58254582|gb|AAV42819.1| 30S Ribosomal protein S1 [Lactobacillus acidophilus NCFM]
 gi|227868737|gb|EEJ76158.1| 30S ribosomal protein S1 [Lactobacillus acidophilus ATCC 4796]
          Length = 403

 Score = 39.7 bits (92), Expect = 1.3,   Method: Composition-based stats.
 Identities = 33/167 (19%), Positives = 63/167 (37%), Gaps = 35/167 (20%)

Query: 119 IQKVREAERDRQYLEFKDK--VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI----- 171
            + + E ER+  + +   +  VG+++ G V R+      +D+G  DG++   E       
Sbjct: 176 HKDLVEEEREEAFDKVASQLVVGDVVEGKVSRLTNFGSFIDVGGVDGLVHISEISYKHVD 235

Query: 172 -SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVK---------LFHMEV----- 216
              + L+ G  VK  +  +  ++    + + +T P    +         +F  EV     
Sbjct: 236 KPSDVLKVGQDVKVKVIGIDNDRHRISLSIKQTEPSPFEQATADLNEGDIFEGEVKSLTN 295

Query: 217 ----PEIYNGIVQVKAVSRD-------PGSRAKLA--VFSSDSSIDP 250
                E+ +GI  +  VS         P    K+   V     +IDP
Sbjct: 296 FGAFVEVADGIQGLVHVSEISNKHVDKPSDVLKVGQTVKVKVLNIDP 342


>gi|46199080|ref|YP_004747.1| polynucleotide phosphorylase/polyadenylase [Thermus thermophilus
           HB27]
 gi|75424073|sp|Q9ZAE1|PNP_THETH RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|81405907|sp|Q72JJ8|PNP_THET2 RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|4138650|emb|CAB06341.1| polynucleotide phosphorylase [Thermus thermophilus]
 gi|46196704|gb|AAS81120.1| polynucleotide phosphorylase [Thermus thermophilus HB27]
          Length = 713

 Score = 39.7 bits (92), Expect = 1.3,   Method: Composition-based stats.
 Identities = 25/114 (21%), Positives = 43/114 (37%), Gaps = 22/114 (19%)

Query: 92  DIGGVVSDP----LPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVK 147
           ++G  V       +        A   AK+ I    REA           KVGEI  GTV 
Sbjct: 593 ELGVEVDIEEDGTVRIYSSDLNAALEAKKRIEDLTREA-----------KVGEIYEGTVT 641

Query: 148 RVEY-GNVIVDLGNSDGVIRRDETISR------ENLRPGDRVKSYIYDVRREQR 194
           R+   G  I     ++G++   +          ++L+ GD +K  ++ +    +
Sbjct: 642 RITPFGAFISLFPGTEGLLHISQIAPGRVERVEDHLKVGDVIKVKVHRIDERGK 695


>gi|188997064|ref|YP_001931315.1| RNA binding S1 domain protein [Sulfurihydrogenibium sp. YO3AOP1]
 gi|188932131|gb|ACD66761.1| RNA binding S1 domain protein [Sulfurihydrogenibium sp. YO3AOP1]
          Length = 565

 Score = 39.7 bits (92), Expect = 1.3,   Method: Composition-based stats.
 Identities = 25/79 (31%), Positives = 38/79 (48%), Gaps = 11/79 (13%)

Query: 132 LEF--KDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDET------ISRENLRPGDRV 182
            EF  K KVG+++ G VK++     IVDLG N +G I   E       I  + L     V
Sbjct: 427 NEFISKYKVGDVVKGKVKKLIEKGAIVDLGENIEGFIPVSEIALERINIPSDKLELHQEV 486

Query: 183 KSYIYDVRREQRGPQVLLS 201
           ++ I  +  E +  ++ LS
Sbjct: 487 EAKIIKIDPENK--KITLS 503


>gi|74215638|dbj|BAE21429.1| unnamed protein product [Mus musculus]
          Length = 1250

 Score = 39.7 bits (92), Expect = 1.3,   Method: Composition-based stats.
 Identities = 32/144 (22%), Positives = 56/144 (38%), Gaps = 28/144 (19%)

Query: 255 VGMRGSRVQAVVTELRD---------EKIDIV-----VW-SPDSATFVINALRPAIVTKV 299
           +G +G RV+ +  +  D         EK DIV      + S   A ++ N L        
Sbjct: 510 IGQKGERVREICKKFPDVILNFPHPAEKSDIVQLIGPRYESEKCAQYLENMLT------- 562

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE----EEDSINRQKDF 355
            + E+   I V + K+     IG+   N+R  S+ T   I    E    EE  I    + 
Sbjct: 563 DIKENNYSISVPIIKKLHKRIIGKGVSNIRKISEATNTKITFPPESCNSEEFIITGYPEN 622

Query: 356 NERTQFFMQAINVDEIIAHLLVAE 379
            E  + ++  +++ + +A     E
Sbjct: 623 CEIARNWI--LSLQQELADTAEEE 644


>gi|15642875|ref|NP_227916.1| DNA ligase [Thermotoga maritima MSB8]
 gi|7674016|sp|Q9WXV5|DNLJ_THEMA RecName: Full=DNA ligase; AltName: Full=Polydeoxyribonucleotide
           synthase [NAD+]
 gi|4980590|gb|AAD35194.1|AE001696_8 DNA ligase [Thermotoga maritima MSB8]
          Length = 688

 Score = 39.7 bits (92), Expect = 1.3,   Method: Composition-based stats.
 Identities = 20/89 (22%), Positives = 35/89 (39%), Gaps = 9/89 (10%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           V +  A +L AE F  +E +A      +  I G   E A  I    R         + +K
Sbjct: 522 VGQKTAKIL-AEHFKSLEAIADASYETLKDIPGIGPEIAKSIVEYFRN---PKTREIIEK 577

Query: 428 IRELGV--SEELCSIP---GIDSKIKVAL 451
           +++ GV   E++  +    G+   +   L
Sbjct: 578 LKKAGVKLEEKVVKLDILRGLTFAVTGTL 606


>gi|46108550|ref|XP_381333.1| hypothetical protein FG01157.1 [Gibberella zeae PH-1]
          Length = 348

 Score = 39.7 bits (92), Expect = 1.3,   Method: Composition-based stats.
 Identities = 12/43 (27%), Positives = 20/43 (46%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
             L+V  G+  VE +A      +  I+G  E+ A +I   A +
Sbjct: 39  IQLVVDGGYNTVESVAYTPRRVLEQIKGISEQKATKILAEASK 81


>gi|324504210|gb|ADY41818.1| Apoptosis-linked gene 2-interacting protein X 1 [Ascaris suum]
          Length = 889

 Score = 39.7 bits (92), Expect = 1.4,   Method: Composition-based stats.
 Identities = 24/154 (15%), Positives = 60/154 (38%), Gaps = 3/154 (1%)

Query: 342 ITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
           +T ++ +    ++  +       A N D+I+   +  E    ++ L+  +    A+I G 
Sbjct: 483 MTSDKLTAPLHQEVGKYRGILQAATNADQIVKQKM-DENREAIKLLSLPEPELRAAIPGL 541

Query: 402 DEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIP-GIDSKIKVALGENGIKTME 460
           D   A       ++    +D   + KI    +  E   +   + +    A+ ++ I   E
Sbjct: 542 DPANANRNSEAVKKLRSLMDTVQEIKIEREQLEREFADVHCDMTTVFLKAMADSQILNEE 601

Query: 461 DLAGCSVDDLLG-WSENKGGNIEKFDGFLSSLGT 493
            L+   ++++ G   +     I+K +  L+ +  
Sbjct: 602 QLSTAKINEIYGPLKDKVSETIKKQESCLAEVEM 635


>gi|229814996|ref|ZP_04445334.1| hypothetical protein COLINT_02039 [Collinsella intestinalis DSM
           13280]
 gi|229809483|gb|EEP45247.1| hypothetical protein COLINT_02039 [Collinsella intestinalis DSM
           13280]
          Length = 386

 Score = 39.7 bits (92), Expect = 1.4,   Method: Composition-based stats.
 Identities = 21/71 (29%), Positives = 42/71 (59%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP------GDRVKSYIYDVR 190
            G++++GTV ++E   V+VD+G  S+GVI   E   R++  P      GD +++ +   +
Sbjct: 33  EGDLVNGTVVKIERDEVLVDIGFKSEGVIPVRELSIRKDANPADLVALGDSIEALVL--Q 90

Query: 191 REQRGPQVLLS 201
           +E +  +++LS
Sbjct: 91  KEDKDGRLVLS 101


>gi|269784766|ref|NP_001028413.2| hypothetical protein LOC211208 [Mus musculus]
 gi|123230276|emb|CAM26825.1| novel gene coding for a KH domain containing protein [Mus musculus]
 gi|148688495|gb|EDL20442.1| mCG56945 [Mus musculus]
          Length = 1250

 Score = 39.7 bits (92), Expect = 1.4,   Method: Composition-based stats.
 Identities = 32/144 (22%), Positives = 56/144 (38%), Gaps = 28/144 (19%)

Query: 255 VGMRGSRVQAVVTELRD---------EKIDIV-----VW-SPDSATFVINALRPAIVTKV 299
           +G +G RV+ +  +  D         EK DIV      + S   A ++ N L        
Sbjct: 510 IGQKGERVREICKKFPDVILNFPHPAEKSDIVQLIGPRYESEKCAQYLENMLT------- 562

Query: 300 VLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE----EEDSINRQKDF 355
            + E+   I V + K+     IG+   N+R  S+ T   I    E    EE  I    + 
Sbjct: 563 DIKENNYSISVPIIKKLHKRIIGKGVSNIRKISEATNTKITFPPESCNSEEFIITGYPEN 622

Query: 356 NERTQFFMQAINVDEIIAHLLVAE 379
            E  + ++  +++ + +A     E
Sbjct: 623 CEIARNWI--LSLQQELADTAEEE 644


>gi|13474344|ref|NP_105912.1| 30S ribosomal protein S1 [Mesorhizobium loti MAFF303099]
 gi|14025097|dbj|BAB51698.1| ribosomal protein S1 [Mesorhizobium loti MAFF303099]
          Length = 565

 Score = 39.7 bits (92), Expect = 1.4,   Method: Composition-based stats.
 Identities = 34/191 (17%), Positives = 69/191 (36%), Gaps = 29/191 (15%)

Query: 25  DVVLSVMADSIQKAARSLYGTMSD---IR-------------VEINPETGDISLFRLLEV 68
           +V +  + +++ +A  S      +   +R             V  N   G  ++     V
Sbjct: 75  EVYVERIENALGEAMLSREKARREESWVRLEEKFTKGERVEGVIFNQVKGGFTVDLDGAV 134

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                    Q+ ++  RD  P +         +  MD  R  +  +++ ++++ R  +R 
Sbjct: 135 A---FLPRSQVDIRPIRDVSPLMHNPQP--FEILKMDRRRGNIVVSRRTVLEESRAEQRS 189

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRV 182
                 +   G+++ G VK +      VDLG  DG++   +          E L  G  V
Sbjct: 190 EIVQNLE--EGQVVEGVVKNITDYGAFVDLGGIDGLLHVTDMAWRRVNHPTEILNIGQTV 247

Query: 183 KSYIYDVRREQ 193
           K  I  + +E 
Sbjct: 248 KVQIIRINQET 258


>gi|327287112|ref|XP_003228273.1| PREDICTED: DNA polymerase beta-like [Anolis carolinensis]
          Length = 335

 Score = 39.7 bits (92), Expect = 1.4,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   ++G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLDGVGAKIAEKI----DEFLSTGKLRKLEKIRQDDTSSSINFLTRVSGIGPAAAR 112

Query: 450 ALGENGIKTMEDL 462
              + GIKT+EDL
Sbjct: 113 KFVDEGIKTLEDL 125


>gi|325283658|ref|YP_004256199.1| RNA binding S1 domain-containing protein [Deinococcus proteolyticus
           MRP]
 gi|324315467|gb|ADY26582.1| RNA binding S1 domain protein [Deinococcus proteolyticus MRP]
          Length = 610

 Score = 39.7 bits (92), Expect = 1.4,   Method: Composition-based stats.
 Identities = 30/120 (25%), Positives = 52/120 (43%), Gaps = 27/120 (22%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRR----DETISREN----LRPGDRVKSYIYDV 189
           G+I+ GTV  +    + VD+G   +G++      DE ++ E      +PGD + +Y+  V
Sbjct: 71  GDIVDGTVVFIGSEGIAVDIGAKVEGIVPLTQLGDEPMTAEEAQAQYKPGDSITTYVVRV 130

Query: 190 RREQRGPQVLLS--RTHPQFMVKL----------FHMEVPEIYNGIVQVKAVSRDPGSRA 237
                  Q++LS  R       ++          F +EV E   G +    V++  G RA
Sbjct: 131 DTNTG--QIVLSKKRADQNKGWRVLEKMQEEGQTFEVEVLEKVRGGL----VAQVEGIRA 184


>gi|320334056|ref|YP_004170767.1| RNA-binding S1 domain-containing protein [Deinococcus maricopensis
           DSM 21211]
 gi|319755345|gb|ADV67102.1| RNA binding S1 domain protein [Deinococcus maricopensis DSM 21211]
          Length = 557

 Score = 39.7 bits (92), Expect = 1.4,   Method: Composition-based stats.
 Identities = 19/73 (26%), Positives = 40/73 (54%), Gaps = 13/73 (17%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRD---------ETISRENLRPGDRVKSYIYD 188
           G++++GT+  +    ++VD+G   +G+I  +         E    E  +PGD++++Y+  
Sbjct: 49  GDVLTGTIVFIGNEGLMVDVGAKVEGLIPFNQLADEPLTQEQAQ-EQYKPGDQIEAYV-- 105

Query: 189 VRREQRGPQVLLS 201
           VR +    Q++LS
Sbjct: 106 VRSDLANGQIVLS 118


>gi|257792261|ref|YP_003182867.1| RNA binding S1 domain-containing protein [Eggerthella lenta DSM
           2243]
 gi|317490189|ref|ZP_07948677.1| S1 RNA binding domain-containing protein [Eggerthella sp.
           1_3_56FAA]
 gi|325833424|ref|ZP_08165873.1| 30S ribosomal protein S1 [Eggerthella sp. HGA1]
 gi|257476158|gb|ACV56478.1| RNA binding S1 domain protein [Eggerthella lenta DSM 2243]
 gi|316910683|gb|EFV32304.1| S1 RNA binding domain-containing protein [Eggerthella sp.
           1_3_56FAA]
 gi|325485348|gb|EGC87817.1| 30S ribosomal protein S1 [Eggerthella sp. HGA1]
          Length = 405

 Score = 39.7 bits (92), Expect = 1.4,   Method: Composition-based stats.
 Identities = 19/85 (22%), Positives = 46/85 (54%), Gaps = 9/85 (10%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
            G+++ GTV ++E+  V+VD+G  S+GVI   E          + +  G+++++ +   +
Sbjct: 33  EGDLVDGTVVKIEHDEVLVDIGFKSEGVIPSRELSIRKDADPSDIVELGEKIEALVL--Q 90

Query: 191 REQRGPQVLLSRTHPQFMVKLFHME 215
           +E +  +++LS+   ++      +E
Sbjct: 91  KEDKDGRLILSKKRAEYERAWIRVE 115


>gi|156845672|ref|XP_001645726.1| hypothetical protein Kpol_1043p58 [Vanderwaltozyma polyspora DSM
            70294]
 gi|156116393|gb|EDO17868.1| hypothetical protein Kpol_1043p58 [Vanderwaltozyma polyspora DSM
            70294]
          Length = 1725

 Score = 39.7 bits (92), Expect = 1.4,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 35/70 (50%), Gaps = 2/70 (2%)

Query: 132  LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRR 191
             E+ DK+ E++S  V  ++     ++L   +      +  S E+L+  D VK+ I +V  
Sbjct: 1134 DEYDDKLNEMVSAKVISIDRETKKINLSLQNEKASNMKLKSHEDLKQKDVVKAIIKNV-- 1191

Query: 192  EQRGPQVLLS 201
             ++G  V LS
Sbjct: 1192 TEKGIFVYLS 1201


>gi|115491377|ref|XP_001210316.1| DNA repair protein RAD51 [Aspergillus terreus NIH2624]
 gi|114197176|gb|EAU38876.1| DNA repair protein RAD51 [Aspergillus terreus NIH2624]
          Length = 348

 Score = 39.7 bits (92), Expect = 1.4,   Method: Composition-based stats.
 Identities = 11/43 (25%), Positives = 20/43 (46%), Gaps = 1/43 (2%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVE-IQGRAR 414
             L V  G+  VE +A     ++  I+G  E+ A + +   A+
Sbjct: 39  IKLFVEAGYYTVESVAYTPKRQLEQIKGISEQKATKVLVEAAK 81


>gi|148652399|ref|YP_001279492.1| hypothetical protein PsycPRwf_0587 [Psychrobacter sp. PRwf-1]
 gi|148571483|gb|ABQ93542.1| hypothetical protein PsycPRwf_0587 [Psychrobacter sp. PRwf-1]
          Length = 108

 Score = 39.7 bits (92), Expect = 1.4,   Method: Composition-based stats.
 Identities = 28/97 (28%), Positives = 40/97 (41%), Gaps = 8/97 (8%)

Query: 45  TMSDIRVEINPETGDISL---FRLLEVVEEVENYTCQISLKV-ARDRDP--SIDIGGVVS 98
              ++ VEI+ ETG  S    F    ++E VEN   QI L+  A   DP  +I     V 
Sbjct: 6   EKDNLEVEIDAETGKRSTRRGFAQETILELVENEKGQIVLRDSANAEDPLVTIAFSDKVK 65

Query: 99  DPLPPMD--FGRVAVQSAKQVIIQKVREAERDRQYLE 133
           + L       G   + +A Q ++QK         Y E
Sbjct: 66  EMLEGEAQFIGHKMIHAAIQAVMQKQVSQWHANVYDE 102


>gi|21229178|ref|NP_635100.1| DNA topoisomerase I [Methanosarcina mazei Go1]
 gi|20907743|gb|AAM32772.1| DNA topoisomerase I [Methanosarcina mazei Go1]
          Length = 752

 Score = 39.7 bits (92), Expect = 1.4,   Method: Composition-based stats.
 Identities = 10/59 (16%), Positives = 24/59 (40%), Gaps = 2/59 (3%)

Query: 415 EYLEGIDITLQKKIRELGVSE--ELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
            ++E      +++ ++    +   +  + G+       L E GI ++E LA     +L 
Sbjct: 669 NFIEWQKTQKEEQAQQPKKEKPKSIKDLEGVGKATAGKLEEAGITSVEALAEADPVELA 727


>gi|330686048|gb|EGG97671.1| 30S ribosomal protein S1 [Staphylococcus epidermidis VCU121]
          Length = 392

 Score = 39.7 bits (92), Expect = 1.4,   Method: Composition-based stats.
 Identities = 34/177 (19%), Positives = 68/177 (38%), Gaps = 25/177 (14%)

Query: 54  NPETGDISLFRLLEVVEEVEN-------YTCQISLKVARDRDPSIDIGGVVSDPLPPMDF 106
           +  TG++      +VV  +            Q+S       +  +  G  +   +  ++F
Sbjct: 17  DKVTGEVQQVEDKQVVVHINGGKYNGIIPISQLSTHHIEKPNEVVKEGDEIEAYVTKIEF 76

Query: 107 GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVG--EIISGTVKRVEYGNVIVDLGNSDGV 164
                  +   I+ K R+ E ++ Y   ++K+   E+I   V  V  G ++VD+G   G 
Sbjct: 77  DEE--NDSGAYILSK-RQLETEQSYDYLQEKLDNNEVIEAKVTEVVKGGLVVDVGQR-GF 132

Query: 165 IRRDETISRENLR-----PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEV 216
           +     IS + +       G  +K  + ++  E    +V+LSR   +        EV
Sbjct: 133 VPAS-LISTDFIEDFSDFEGQTIKIKVEELDPENN--RVILSRKAVEQA----ENEV 182



 Score = 39.3 bits (91), Expect = 1.4,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 34/65 (52%), Gaps = 8/65 (12%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           K G+ ++G V++VE   V+V +  G  +G+I   +          E ++ GD +++Y+  
Sbjct: 14  KEGDKVTGEVQQVEDKQVVVHINGGKYNGIIPISQLSTHHIEKPNEVVKEGDEIEAYVTK 73

Query: 189 VRREQ 193
           +  ++
Sbjct: 74  IEFDE 78



 Score = 37.7 bits (87), Expect = 4.6,   Method: Composition-based stats.
 Identities = 22/106 (20%), Positives = 42/106 (39%), Gaps = 8/106 (7%)

Query: 94  GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN 153
           G  +   +  +D     V  +++ + Q   E ++           G++I GTV R+    
Sbjct: 151 GQTIKIKVEELDPENNRVILSRKAVEQAENEVKKASLLDSLNA--GDVIEGTVARLTNFG 208

Query: 154 VIVDLGNSDGVIRRDE------TISRENLRPGDRVKSYIYDVRREQ 193
             VD+G  DG++   E          E +  GD+V   +  V ++ 
Sbjct: 209 AFVDIGGVDGLVHVSELSHQHVQSPEEVVSVGDKVNVKVKSVEKDT 254


>gi|16082126|ref|NP_394563.1| DNA repair and recombination protein RadA [Thermoplasma acidophilum
           DSM 1728]
 gi|13878691|sp|Q9HJ68|RADA_THEAC RecName: Full=DNA repair and recombination protein radA
 gi|10640417|emb|CAC12231.1| probable DNA repair protein Rad51 (RadA) [Thermoplasma acidophilum]
          Length = 323

 Score = 39.7 bits (92), Expect = 1.4,   Method: Composition-based stats.
 Identities = 16/81 (19%), Positives = 32/81 (39%)

Query: 350 NRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEI 409
               + N   +       V E  A  L   G+ D+  +A     +++ + G  E  A +I
Sbjct: 2   MESNEENREKKTIEDLPGVGEATAEKLRENGYDDIMAIAVASPKDLSDVTGIGEGAAAKI 61

Query: 410 QGRAREYLEGIDITLQKKIRE 430
              AR++ +  +    ++I E
Sbjct: 62  IAAARKFADIGNFETGEEILE 82


>gi|301753319|ref|XP_002912509.1| PREDICTED: LOW QUALITY PROTEIN: helicase POLQ-like [Ailuropoda
            melanoleuca]
          Length = 1105

 Score = 39.7 bits (92), Expect = 1.4,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 28/71 (39%), Gaps = 1/71 (1%)

Query: 362  FMQAINVDEIIAHLLVAEGFADVEELACVKISEIA-SIEGFDEETAVEIQGRAREYLEGI 420
             M+   V E  A  L   G+  +  LA      +  +I+      A +I   A+  L   
Sbjct: 1017 LMEVTGVLEGRARQLYNAGYKSLMHLANANPEVLIRTIDHLSRRQAKQIVSSAKMLLHEK 1076

Query: 421  DITLQKKIREL 431
               LQ+++ EL
Sbjct: 1077 AEALQEEVEEL 1087


>gi|224069256|ref|XP_002326313.1| predicted protein [Populus trichocarpa]
 gi|222833506|gb|EEE71983.1| predicted protein [Populus trichocarpa]
          Length = 348

 Score = 39.7 bits (92), Expect = 1.4,   Method: Composition-based stats.
 Identities = 12/50 (24%), Positives = 19/50 (38%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGR 412
           +QA  +  +    L   G   VE +A     E+  I+G  E    +I   
Sbjct: 31  LQASGIASLDVKKLKDAGLCTVESVAFSPRKELLQIKGISEAKVDKIIEA 80


>gi|224476595|ref|YP_002634201.1| 30S ribosomal protein S1 [Staphylococcus carnosus subsp. carnosus
           TM300]
 gi|222421202|emb|CAL28016.1| putative 30S ribosomal protein S1 [Staphylococcus carnosus subsp.
           carnosus TM300]
          Length = 392

 Score = 39.7 bits (92), Expect = 1.4,   Method: Composition-based stats.
 Identities = 20/65 (30%), Positives = 34/65 (52%), Gaps = 8/65 (12%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDET------ISRENLRPGDRVKSYIYD 188
           K G+ ISG V++VE   VIVD+  G   G++   +          E ++ GD V++Y+  
Sbjct: 14  KEGDKISGQVQKVEDKQVIVDVDGGKFSGIVPISQLSTHHIDSPNEVVKEGDAVEAYVTK 73

Query: 189 VRREQ 193
           V  ++
Sbjct: 74  VEVDE 78


>gi|27467869|ref|NP_764506.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus
           epidermidis ATCC 12228]
 gi|57866764|ref|YP_188423.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus
           epidermidis RP62A]
 gi|251810705|ref|ZP_04825178.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus
           epidermidis BCM-HMP0060]
 gi|282876294|ref|ZP_06285161.1| polyribonucleotide nucleotidyltransferase [Staphylococcus
           epidermidis SK135]
 gi|293366762|ref|ZP_06613438.1| polyribonucleotide nucleotidyltransferase [Staphylococcus
           epidermidis M23864:W2(grey)]
 gi|81674891|sp|Q5HPR7|PNP_STAEQ RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|81843823|sp|Q8CST1|PNP_STAES RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|27315414|gb|AAO04548.1|AE016747_45 polyribonucleotide nucleotidyltransferase [Staphylococcus
           epidermidis ATCC 12228]
 gi|57637422|gb|AAW54210.1| polyribonucleotide nucleotidyltransferase [Staphylococcus
           epidermidis RP62A]
 gi|251805865|gb|EES58522.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus
           epidermidis BCM-HMP0060]
 gi|281295319|gb|EFA87846.1| polyribonucleotide nucleotidyltransferase [Staphylococcus
           epidermidis SK135]
 gi|291319063|gb|EFE59433.1| polyribonucleotide nucleotidyltransferase [Staphylococcus
           epidermidis M23864:W2(grey)]
 gi|329736337|gb|EGG72609.1| polyribonucleotide nucleotidyltransferase [Staphylococcus
           epidermidis VCU028]
 gi|329736660|gb|EGG72926.1| polyribonucleotide nucleotidyltransferase [Staphylococcus
           epidermidis VCU045]
          Length = 701

 Score = 39.7 bits (92), Expect = 1.4,   Method: Composition-based stats.
 Identities = 23/110 (20%), Positives = 44/110 (40%), Gaps = 10/110 (9%)

Query: 92  DIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEY 151
           +I       L     G + + +  Q +I + +E   D        +VG++    VKR+E 
Sbjct: 582 EIIDETGVKLDIEQDGTIFIGAVDQAMINRAKEIIEDITRE---AEVGQVYHAKVKRIEK 638

Query: 152 GNVIVDLGNSDGVIRRDETISREN-------LRPGDRVKSYIYDVRREQR 194
               V+L      +     IS+E        L+ GD ++  I ++ ++ R
Sbjct: 639 YGAFVELFPGKDALLHISQISQERINKVEDVLKIGDTIEVKITEIDKQGR 688


>gi|91069936|gb|ABE10864.1| hypothetical protein ASNC2259_0017 [uncultured Prochlorococcus
           marinus clone ASNC2259]
          Length = 236

 Score = 39.7 bits (92), Expect = 1.4,   Method: Composition-based stats.
 Identities = 14/80 (17%), Positives = 30/80 (37%), Gaps = 6/80 (7%)

Query: 338 TIDIITEEEDSINRQKDFNER------TQFFMQAINVDEIIAHLLVAEGFADVEELACVK 391
            + I +E    I ++    +R           +   V +  A +L   G+   E++    
Sbjct: 157 ELSIKSEAYKDIYKKLVLEKRFPDSFFRDILCELNGVSKNTASILWESGYLTKEQILNAP 216

Query: 392 ISEIASIEGFDEETAVEIQG 411
            SE+  I+G  +    +I+ 
Sbjct: 217 CSELIEIKGLGKNMISKIKN 236


>gi|311270149|ref|XP_001925270.2| PREDICTED: LOW QUALITY PROTEIN: SAM domain-containing protein
           SAMSN-1 [Sus scrofa]
          Length = 374

 Score = 39.3 bits (91), Expect = 1.4,   Method: Composition-based stats.
 Identities = 21/97 (21%), Positives = 49/97 (50%), Gaps = 9/97 (9%)

Query: 339 IDIITEEEDSINRQKDFNERT--------QFFMQAINVDEIIAHLLVAEGFADVEELACV 390
           +D+I+EEE++  ++   ++R+        Q F++ I++ E  + LL+  G+  +E+L  +
Sbjct: 219 VDVISEEEEAAPKKIKAHKRSGKXKPQTLQEFLERIHLQEYTSTLLL-NGYESLEDLKDI 277

Query: 391 KISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           K S +  +   + E  + +   A   L+   +  Q+ 
Sbjct: 278 KESHLIELNIKNPEDRMRLLSAAENLLDEETVQEQEN 314


>gi|301064798|ref|ZP_07205172.1| putative ribosomal protein S1 [delta proteobacterium NaphS2]
 gi|300441092|gb|EFK05483.1| putative ribosomal protein S1 [delta proteobacterium NaphS2]
          Length = 493

 Score = 39.3 bits (91), Expect = 1.4,   Method: Composition-based stats.
 Identities = 25/123 (20%), Positives = 44/123 (35%), Gaps = 19/123 (15%)

Query: 86  DRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE---RDRQYLEFKDKVGEII 142
             +  +  G ++   +  +D  R       Q I   +R+ E         ++    G+ +
Sbjct: 339 KAEDVVSPGDLIQVLIKEIDSSR-------QRISLSMRDVEGDPWAGIAGKYG--KGQPV 389

Query: 143 SGTVKRVEYGNVIVDLGNSDGVIRRDETI-----SR--ENLRPGDRVKSYIYDVRREQRG 195
            GTV++ E   + V L      +     I         E  RPGD +   I +V  E+R 
Sbjct: 390 EGTVEKHENFGIFVSLEPGVSALLPKSRIRESSSPGRIEKARPGDTIPVVIENVNVEERK 449

Query: 196 PQV 198
             V
Sbjct: 450 ISV 452


>gi|253581079|ref|ZP_04858339.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA]
 gi|251847615|gb|EES75585.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA]
          Length = 302

 Score = 39.3 bits (91), Expect = 1.4,   Method: Composition-based stats.
 Identities = 23/73 (31%), Positives = 40/73 (54%), Gaps = 9/73 (12%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G+I++GTV  V+   V+VDL   ++G+I  ++         +E +  GD V + +  VR
Sbjct: 21  EGDILTGTVISVDEKEVVVDLKYYAEGIIPAEDYSREPGFSLKEQVNVGDEVSATV--VR 78

Query: 191 REQRGPQVLLSRT 203
           ++     +LLSRT
Sbjct: 79  KDDGNGNILLSRT 91


>gi|118578638|ref|YP_899888.1| hypothetical protein Ppro_0194 [Pelobacter propionicus DSM 2379]
 gi|118501348|gb|ABK97830.1| hypothetical protein Ppro_0194 [Pelobacter propionicus DSM 2379]
          Length = 236

 Score = 39.3 bits (91), Expect = 1.4,   Method: Composition-based stats.
 Identities = 40/252 (15%), Positives = 80/252 (31%), Gaps = 59/252 (23%)

Query: 21  SIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQIS 80
            +  D ++  +  ++ +   + +     +R E     G++ +                  
Sbjct: 11  GLPEDEIVDAVECAVARTLMAAFKRTVTVRAE-----GELEIIAY--------------- 50

Query: 81  LKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVII--QKVREAERDRQYLEFKDKV 138
                   P +     +     P    R  + S +  +   Q + EA+      + ++  
Sbjct: 51  --------PKLGHPVEMQLKDIPKKLRRHIIHSVEAELQTRQILLEAK------KLQELQ 96

Query: 139 GEIISGTVKRV-EYGNVIVDLGNSD--------GVIRRDETISRE--NLRPGDRVKSYIY 187
           G +  G+V R+   G + V L   D        G          E    R G++    + 
Sbjct: 97  GRVFCGSVGRIGSRGTLHVTLEIDDLLKPLILFGECPLRYQPPHERSRYRIGEQRSFLVT 156

Query: 188 DVRREQRG-----PQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLA-- 240
            VR    G      +++L+RT       L          GI  +K   R  G  +++   
Sbjct: 157 SVRPVMVGGDIAKVRLILNRTSRALPALLLQD-----LTGITGIKCRRRIAGGFSEVVTP 211

Query: 241 VFSSDSSIDPVG 252
           V    +SI+ VG
Sbjct: 212 VRIPKTSINTVG 223


>gi|291519327|emb|CBK74548.1| Ribosomal protein S1 [Butyrivibrio fibrisolvens 16/4]
          Length = 374

 Score = 39.3 bits (91), Expect = 1.4,   Method: Composition-based stats.
 Identities = 31/142 (21%), Positives = 60/142 (42%), Gaps = 16/142 (11%)

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VV+E   +     +    ++D     G  +S  +   D  R  +   ++ ++     A+R
Sbjct: 125 VVDEARVFIPASFVSDVYEKDLGKYQGQEISFVITEFDPKRRRIIGNRKTLLV----ADR 180

Query: 128 DRQYLEFKDK--VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPG 179
            +   E   K  VG+   GTVK V+     +DLG +DG++   E          + L  G
Sbjct: 181 AKAQEELMSKIAVGQEFEGTVKNVKDFGAFIDLGGADGLLHISEMSWGRVENPTKTLNVG 240

Query: 180 DRVKSYIYDVRREQRGPQVLLS 201
           D +K ++ +++      ++ LS
Sbjct: 241 DTIKVFVKEIKDG----KIALS 258


>gi|284164857|ref|YP_003403136.1| hypothetical protein Htur_1577 [Haloterrigena turkmenica DSM 5511]
 gi|284014512|gb|ADB60463.1| hypothetical protein Htur_1577 [Haloterrigena turkmenica DSM 5511]
          Length = 335

 Score = 39.3 bits (91), Expect = 1.4,   Method: Composition-based stats.
 Identities = 25/127 (19%), Positives = 43/127 (33%), Gaps = 14/127 (11%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
           TE++     ++          Q  +V + +            E +A        SI    
Sbjct: 188 TEQQTVEGVRRAEEAAETVQQQTEDVADTVQQ--------STEAVAQTAQESTESIAETS 239

Query: 403 EETAVEIQGRAREYLE------GIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGI 456
           +  A ++ G A E  E         I    +  +    + L S+ G+       L E GI
Sbjct: 240 QRNAQDLVGEAAEATEDLAVETTDAIETATERGDNAEEQNLQSLEGVGQTYTDRLAEAGI 299

Query: 457 KTMEDLA 463
           +T+ DLA
Sbjct: 300 ETIADLA 306


>gi|269216208|ref|ZP_06160062.1| 30s ribosomal protein s1 [Slackia exigua ATCC 700122]
 gi|269130467|gb|EEZ61545.1| 30s ribosomal protein s1 [Slackia exigua ATCC 700122]
          Length = 399

 Score = 39.3 bits (91), Expect = 1.4,   Method: Composition-based stats.
 Identities = 20/85 (23%), Positives = 45/85 (52%), Gaps = 9/85 (10%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
            G+++ GTV ++E+  V++D+G  S+GVI   E          E +  GD +++ +   +
Sbjct: 33  EGDLVKGTVVQIEHDEVLLDIGFKSEGVIPSRELSIRKDADPSEIVALGDEIEALVL--Q 90

Query: 191 REQRGPQVLLSRTHPQFMVKLFHME 215
           +E +  +++LS+   ++      +E
Sbjct: 91  KEDKEGRLILSKKRAEYERAWISVE 115


>gi|213403772|ref|XP_002172658.1| DNA repair protein RAD51 [Schizosaccharomyces japonicus yFS275]
 gi|212000705|gb|EEB06365.1| DNA repair protein RAD51 [Schizosaccharomyces japonicus yFS275]
          Length = 370

 Score = 39.3 bits (91), Expect = 1.4,   Method: Composition-based stats.
 Identities = 9/38 (23%), Positives = 18/38 (47%)

Query: 378 AEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
             G+  VE +A     ++ +I+G  E  A ++   A +
Sbjct: 69  EAGYYTVESIAYTPKRQLLNIKGISEAKADKLLSEASK 106


>gi|87306426|ref|ZP_01088573.1| 30S ribosomal protein S1 [Blastopirellula marina DSM 3645]
 gi|87290605|gb|EAQ82492.1| 30S ribosomal protein S1 [Blastopirellula marina DSM 3645]
          Length = 636

 Score = 39.3 bits (91), Expect = 1.4,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 38/73 (52%), Gaps = 7/73 (9%)

Query: 127 RDRQYLEFKDKV----GEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISREN--LRPG 179
               + EF+ +      +I+ GT+ RV+   V++D+ G S+G I RDE    +    + G
Sbjct: 28  EANVFDEFEHEESVELNKIVDGTILRVDDEFVLIDVGGKSEGSIPRDEWDEEDEDPPKIG 87

Query: 180 DRVKSYIYDVRRE 192
           D++K  + D+  E
Sbjct: 88  DKIKVLVEDIEDE 100


>gi|329724343|gb|EGG60855.1| polyribonucleotide nucleotidyltransferase [Staphylococcus
           epidermidis VCU144]
          Length = 701

 Score = 39.3 bits (91), Expect = 1.4,   Method: Composition-based stats.
 Identities = 23/110 (20%), Positives = 44/110 (40%), Gaps = 10/110 (9%)

Query: 92  DIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEY 151
           +I       L     G + + +  Q +I + +E   D        +VG++    VKR+E 
Sbjct: 582 EIIDETGVKLDIEQDGTIFIGAVDQAMINRAKEIIEDITRE---AEVGQVYHAKVKRIEK 638

Query: 152 GNVIVDLGNSDGVIRRDETISREN-------LRPGDRVKSYIYDVRREQR 194
               V+L      +     IS+E        L+ GD ++  I ++ ++ R
Sbjct: 639 YGAFVELFPGKDALLHISQISQERINKVEDVLKIGDTIEVKITEIDKQGR 688


>gi|222099565|ref|YP_002534133.1| DNA ligase [Thermotoga neapolitana DSM 4359]
 gi|254781438|sp|B9K734|DNLJ_THENN RecName: Full=DNA ligase; AltName: Full=Polydeoxyribonucleotide
           synthase [NAD+]
 gi|221571955|gb|ACM22767.1| DNA ligase [Thermotoga neapolitana DSM 4359]
          Length = 693

 Score = 39.3 bits (91), Expect = 1.4,   Method: Composition-based stats.
 Identities = 17/66 (25%), Positives = 27/66 (40%), Gaps = 4/66 (6%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           V +  A +L AE F  +E +A      +  I G   E A  I    R         + +K
Sbjct: 527 VGQKTAKIL-AEHFKSLEAIAEASYETLKDIPGIGPEIARSIVEYFRN---PKTREIIEK 582

Query: 428 IRELGV 433
           +++ GV
Sbjct: 583 LKKAGV 588


>gi|189210816|ref|XP_001941739.1| DNA repair protein RAD51 [Pyrenophora tritici-repentis Pt-1C-BFP]
 gi|330918612|ref|XP_003298289.1| hypothetical protein PTT_08944 [Pyrenophora teres f. teres 0-1]
 gi|187977832|gb|EDU44458.1| DNA repair protein RAD51 [Pyrenophora tritici-repentis Pt-1C-BFP]
 gi|311328605|gb|EFQ93618.1| hypothetical protein PTT_08944 [Pyrenophora teres f. teres 0-1]
          Length = 348

 Score = 39.3 bits (91), Expect = 1.4,   Method: Composition-based stats.
 Identities = 15/78 (19%), Positives = 32/78 (41%), Gaps = 4/78 (5%)

Query: 342 ITEEEDSINRQKDFNERTQFFMQAI-NVDEIIA---HLLVAEGFADVEELACVKISEIAS 397
           ++ EE+               + A+  V+ + A    L++  G+  VE +A      +  
Sbjct: 1   MSNEEEQYEDSTMGGPGAPTPVSALEGVNGLTARDIKLVIEGGYNTVESIAYTPRRALEQ 60

Query: 398 IEGFDEETAVEIQGRARE 415
           I+G  E+ A ++   A +
Sbjct: 61  IKGISEQKASKLLAEASK 78


>gi|29349753|ref|NP_813256.1| 30S ribosomal protein S1 [Bacteroides thetaiotaomicron VPI-5482]
 gi|29341663|gb|AAO79450.1| 30S ribosomal protein S1 [Bacteroides thetaiotaomicron VPI-5482]
          Length = 599

 Score = 39.3 bits (91), Expect = 1.4,   Method: Composition-based stats.
 Identities = 30/103 (29%), Positives = 52/103 (50%), Gaps = 7/103 (6%)

Query: 102 PPMDFGRVAVQSAKQVIIQKVREAER--DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG 159
           P  DF   A ++ + V      + E+  D    +  D+  E++ GTV  +    V+V++G
Sbjct: 9   PIEDFNWDAYENGEAVTSASHEDLEKAYDGTLNKVNDR--EVVDGTVIAMNKREVVVNIG 66

Query: 160 -NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
             SDG+I  +E     +L+ GD V+ YI    +E +  Q++LS
Sbjct: 67  YKSDGIIPLNEFRYNPDLKVGDTVEVYIE--NQEDKKGQLVLS 107


>gi|329766865|ref|ZP_08258393.1| hypothetical protein HMPREF0428_00090 [Gemella haemolysans M341]
 gi|328837590|gb|EGF87215.1| hypothetical protein HMPREF0428_00090 [Gemella haemolysans M341]
          Length = 419

 Score = 39.3 bits (91), Expect = 1.5,   Method: Composition-based stats.
 Identities = 21/108 (19%), Positives = 45/108 (41%), Gaps = 10/108 (9%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD-KVGEIISGTVKRVEY 151
           +G   +  +  +D  +  +   ++VI   + E +  +    + +   G++I G V R+  
Sbjct: 181 VGNEYTFKIEEVDKSKNKIILNRRVI---LEEEKAKKLAEVYGNINEGDVIEGKVSRITD 237

Query: 152 GNVIVDLGNSDGVIRRDETIS------RENLRPGDRVKSYIYDVRREQ 193
               V++G  DG++   E          + +  GD VK  +  V +E 
Sbjct: 238 FGAFVNIGEVDGLLHISEISHARVEKVSDVISVGDTVKVAVIAVDKEN 285


>gi|313896281|ref|ZP_07829834.1| putative ribosomal protein S1 [Selenomonas sp. oral taxon 137 str.
           F0430]
 gi|312975080|gb|EFR40542.1| putative ribosomal protein S1 [Selenomonas sp. oral taxon 137 str.
           F0430]
          Length = 389

 Score = 39.3 bits (91), Expect = 1.5,   Method: Composition-based stats.
 Identities = 23/132 (17%), Positives = 55/132 (41%), Gaps = 10/132 (7%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ L   +D   S+ +   V   +  +D  +  +  +++ ++++ R  + +  +   
Sbjct: 134 PASQMELHFVKDL--SVYVDQTVEAEIIEVDVQKRRLVLSRRKLLERDRAEKEEAVFSAI 191

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           +    +I+ GTVKR+      +D+G  DG+    +          E L  G  +  Y+  
Sbjct: 192 EP--EQIVRGTVKRLVDYGAFIDIGGVDGLAHISDLAWHRVKHPSEVLEVGQELDVYVKS 249

Query: 189 VRREQRGPQVLL 200
           V R+ +   + +
Sbjct: 250 VDRDAKRISLSV 261


>gi|242242557|ref|ZP_04797002.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus
           epidermidis W23144]
 gi|242233984|gb|EES36296.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus
           epidermidis W23144]
 gi|319401436|gb|EFV89646.1| polyribonucleotide nucleotidyltransferase [Staphylococcus
           epidermidis FRI909]
          Length = 701

 Score = 39.3 bits (91), Expect = 1.5,   Method: Composition-based stats.
 Identities = 23/110 (20%), Positives = 44/110 (40%), Gaps = 10/110 (9%)

Query: 92  DIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEY 151
           +I       L     G + + +  Q +I + +E   D        +VG++    VKR+E 
Sbjct: 582 EIIDETGVKLDIEQDGTIFIGAVDQAMINRAKEIIEDITRE---AEVGQVYHAKVKRIEK 638

Query: 152 GNVIVDLGNSDGVIRRDETISREN-------LRPGDRVKSYIYDVRREQR 194
               V+L      +     IS+E        L+ GD ++  I ++ ++ R
Sbjct: 639 YGAFVELFPGKDALLHISQISQERINKVEDVLKIGDTIEVKITEIDKQGR 688


>gi|55981119|ref|YP_144416.1| DNA polymerase beta family protein [Thermus thermophilus HB8]
 gi|55772532|dbj|BAD70973.1| DNA polymerase beta family (X family) [Thermus thermophilus HB8]
          Length = 575

 Score = 39.3 bits (91), Expect = 1.5,   Method: Composition-based stats.
 Identities = 22/116 (18%), Positives = 44/116 (37%), Gaps = 9/116 (7%)

Query: 384 VEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSE--ELCSIP 441
           +EE+A      +  + G   + A +I     E+L    +   +++         E+  +P
Sbjct: 44  IEEIAEKGKEALMELPGVGPDLAEKIL----EFLRTGKVRKHEELSRKVPRGVLEVMEVP 99

Query: 442 GIDSKIKVALGEN-GIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKD 496
           G+  K    L E  GI ++E L   +  D    +  KG   ++ +     L   + 
Sbjct: 100 GVGPKTARLLYEGLGIDSLEKL--KAALDRGDLTRLKGFGPKRAERIREGLALAQA 153


>gi|302389719|ref|YP_003825540.1| hydroxymethylbutenyl pyrophosphate reductase [Thermosediminibacter
           oceani DSM 16646]
 gi|302200347|gb|ADL07917.1| hydroxymethylbutenyl pyrophosphate reductase [Thermosediminibacter
           oceani DSM 16646]
          Length = 672

 Score = 39.3 bits (91), Expect = 1.5,   Method: Composition-based stats.
 Identities = 24/96 (25%), Positives = 47/96 (48%), Gaps = 11/96 (11%)

Query: 115 KQVIIQKVREAERDRQYLEFKDK--VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDET- 170
            + I +++   + +  Y +   +   G+I+ GTV +V    V+V++G  SDG+I  +E  
Sbjct: 272 MEEISREMENQQGEVAYEDGISELAEGKIVEGTVVKVSDKEVLVNVGHKSDGIIPLNELS 331

Query: 171 -----ISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
                   E ++ GDR+K  I  +   +    ++LS
Sbjct: 332 NLPFSSPSEIVKTGDRIKVQILKLEDNEGN--LILS 365


>gi|281346799|gb|EFB22383.1| hypothetical protein PANDA_000253 [Ailuropoda melanoleuca]
          Length = 1004

 Score = 39.3 bits (91), Expect = 1.5,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 28/71 (39%), Gaps = 1/71 (1%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIA-SIEGFDEETAVEIQGRAREYLEGI 420
            M+   V E  A  L   G+  +  LA      +  +I+      A +I   A+  L   
Sbjct: 916 LMEVTGVLEGRARQLYNAGYKSLMHLANANPEVLIRTIDHLSRRQAKQIVSSAKMLLHEK 975

Query: 421 DITLQKKIREL 431
              LQ+++ EL
Sbjct: 976 AEALQEEVEEL 986


>gi|239636851|ref|ZP_04677850.1| 30S ribosomal protein S1 homolog [Staphylococcus warneri L37603]
 gi|239597525|gb|EEQ80023.1| 30S ribosomal protein S1 homolog [Staphylococcus warneri L37603]
          Length = 392

 Score = 39.3 bits (91), Expect = 1.5,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 34/65 (52%), Gaps = 8/65 (12%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           K G+ ++G V++VE   V+V +  G  +G+I   +          E ++ GD +++Y+  
Sbjct: 14  KEGDKVTGEVQQVEDKQVVVHINGGKYNGIIPISQLSTHHIEKPNEVVKEGDEIEAYVTK 73

Query: 189 VRREQ 193
           +  ++
Sbjct: 74  IEFDE 78



 Score = 39.3 bits (91), Expect = 1.5,   Method: Composition-based stats.
 Identities = 34/177 (19%), Positives = 68/177 (38%), Gaps = 25/177 (14%)

Query: 54  NPETGDISLFRLLEVVEEVEN-------YTCQISLKVARDRDPSIDIGGVVSDPLPPMDF 106
           +  TG++      +VV  +            Q+S       +  +  G  +   +  ++F
Sbjct: 17  DKVTGEVQQVEDKQVVVHINGGKYNGIIPISQLSTHHIEKPNEVVKEGDEIEAYVTKIEF 76

Query: 107 GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVG--EIISGTVKRVEYGNVIVDLGNSDGV 164
                  +   I+ K R+ E ++ Y   ++K+   E+I   V  V  G ++VD+G   G 
Sbjct: 77  DEE--NDSGAYILSK-RQLETEQSYDYLQEKLDNNEVIEAKVTEVVKGGLVVDVGQR-GF 132

Query: 165 IRRDETISRENLR-----PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEV 216
           +     IS + +       G  +K  + ++  E    +V+LSR   +        EV
Sbjct: 133 VPAS-LISTDFIEDFSDFEGQTIKIKVEELDPENN--RVILSRKAVEQA----ENEV 182


>gi|257052349|ref|YP_003130182.1| DNA repair and recombination protein RadA [Halorhabdus utahensis
           DSM 12940]
 gi|256691112|gb|ACV11449.1| DNA repair and recombination protein RadA [Halorhabdus utahensis
           DSM 12940]
          Length = 348

 Score = 39.3 bits (91), Expect = 1.5,   Method: Composition-based stats.
 Identities = 13/60 (21%), Positives = 23/60 (38%)

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           T+       V    A  L   G+   + +A     E+++     E +A +I   ARE  +
Sbjct: 4   TEDLEDLPGVGPATAEKLTENGYDSYQGIAVASPGELSNTADVGESSAADIIQAAREAAD 63


>gi|242767957|ref|XP_002341472.1| DNA repair protein RAD51, putative [Talaromyces stipitatus ATCC
           10500]
 gi|218724668|gb|EED24085.1| DNA repair protein RAD51, putative [Talaromyces stipitatus ATCC
           10500]
          Length = 349

 Score = 39.3 bits (91), Expect = 1.5,   Method: Composition-based stats.
 Identities = 13/43 (30%), Positives = 20/43 (46%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
             L+V  GF  VE +A      +  I+G  E+ A +I   A +
Sbjct: 40  IKLIVDGGFHTVESVAYTPKRVLEQIKGISEQKATKILAEASK 82


>gi|237715632|ref|ZP_04546113.1| 30S ribosomal protein S1 [Bacteroides sp. D1]
 gi|262408641|ref|ZP_06085187.1| ribosomal protein S1 [Bacteroides sp. 2_1_22]
 gi|294646672|ref|ZP_06724297.1| 30S ribosomal protein S1 [Bacteroides ovatus SD CC 2a]
 gi|229444341|gb|EEO50132.1| 30S ribosomal protein S1 [Bacteroides sp. D1]
 gi|262353506|gb|EEZ02600.1| ribosomal protein S1 [Bacteroides sp. 2_1_22]
 gi|292637960|gb|EFF56353.1| 30S ribosomal protein S1 [Bacteroides ovatus SD CC 2a]
          Length = 599

 Score = 39.3 bits (91), Expect = 1.5,   Method: Composition-based stats.
 Identities = 31/103 (30%), Positives = 52/103 (50%), Gaps = 7/103 (6%)

Query: 102 PPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVG--EIISGTVKRVEYGNVIVDLG 159
           P  DF   A ++     +  V   E ++ Y    +KV   E++ GTV  +    V+V++G
Sbjct: 9   PIEDFNWDAYENG--ETVTNVSHDELEKAYDGTLNKVNDREVVDGTVIAMNKREVVVNIG 66

Query: 160 -NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
             SDG+I  +E     +L+ GD V+ YI    +E +  Q++LS
Sbjct: 67  YKSDGIIPLNEFRYNPDLKVGDTVEVYIE--NQEDKKGQLVLS 107


>gi|210631374|ref|ZP_03296877.1| hypothetical protein COLSTE_00762 [Collinsella stercoris DSM 13279]
 gi|210160057|gb|EEA91028.1| hypothetical protein COLSTE_00762 [Collinsella stercoris DSM 13279]
          Length = 386

 Score = 39.3 bits (91), Expect = 1.5,   Method: Composition-based stats.
 Identities = 21/71 (29%), Positives = 42/71 (59%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP------GDRVKSYIYDVR 190
            G++++GTV ++E   V+VD+G  S+GVI   E   R++  P      GD +++ +   +
Sbjct: 33  EGDLVNGTVVKIERDEVLVDIGFKSEGVIPVRELSIRKDANPADLVALGDSIEALVL--Q 90

Query: 191 REQRGPQVLLS 201
           +E +  +++LS
Sbjct: 91  KEDKDGRLVLS 101


>gi|212542819|ref|XP_002151564.1| DNA repair protein RAD51, putative [Penicillium marneffei ATCC
           18224]
 gi|111380646|gb|ABH09700.1| RAD51-like protein [Penicillium marneffei]
 gi|210066471|gb|EEA20564.1| DNA repair protein RAD51, putative [Penicillium marneffei ATCC
           18224]
          Length = 349

 Score = 39.3 bits (91), Expect = 1.5,   Method: Composition-based stats.
 Identities = 13/43 (30%), Positives = 20/43 (46%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
             L+V  GF  VE +A      +  I+G  E+ A +I   A +
Sbjct: 40  IKLIVDGGFHTVESVAYTPKRVLEQIKGISEQKATKILAEASK 82


>gi|315499365|ref|YP_004088169.1| ribosomal protein s1 [Asticcacaulis excentricus CB 48]
 gi|315417377|gb|ADU14018.1| ribosomal protein S1 [Asticcacaulis excentricus CB 48]
          Length = 562

 Score = 39.3 bits (91), Expect = 1.5,   Method: Composition-based stats.
 Identities = 28/125 (22%), Positives = 50/125 (40%), Gaps = 10/125 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ ++  RD  P   +G      +  MD  R  +  +++ I+++ R  +R     + 
Sbjct: 136 PGSQVDIRPVRDIAPL--MGKEQPFAILKMDRPRGNIVVSRRAILEEARAEQRTELVGQL 193

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
               GEI  G VK +      VDLG  DG++   +          + L  GD V+  I  
Sbjct: 194 A--EGEIRDGVVKNITDYGAFVDLGGIDGLLHVTDMSWKRVSHPSQVLNVGDSVRVQIIK 251

Query: 189 VRREQ 193
           +  + 
Sbjct: 252 INPDT 256


>gi|158521992|ref|YP_001529862.1| ribosomal protein S1 [Desulfococcus oleovorans Hxd3]
 gi|158510818|gb|ABW67785.1| ribosomal protein S1 [Desulfococcus oleovorans Hxd3]
          Length = 604

 Score = 39.3 bits (91), Expect = 1.5,   Method: Composition-based stats.
 Identities = 33/190 (17%), Positives = 72/190 (37%), Gaps = 24/190 (12%)

Query: 16  VAYEKSIDRDVVLSVMADSIQKAARSLYGTMSDIR-VEINPETGDISLFRLLEVVEEVEN 74
           ++ +K+ ++D +   + D         +     +  V IN   G  S+    +V  +   
Sbjct: 103 LSKDKA-EKDKIWETIKD--------TFDNDGVVSGVIINRVKGGFSV----DVGLQAFL 149

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q  L+  R+ D    +G      +   +  R  +  +++V++++    +R       
Sbjct: 150 PGSQADLRPIRNFDE--MVGQTYDFKVLKYNRRRNNIVLSRRVLLEETLATKRAELMETL 207

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
            D  G+++ G VK +    V VDLG  DG++   +          E    GD V   +  
Sbjct: 208 AD--GQVVEGIVKNITEYGVFVDLGGIDGLLHITDISWGRVRHPSELFTVGDNVTLKVLS 265

Query: 189 VRREQRGPQV 198
              +++   +
Sbjct: 266 FDLDKKKISL 275


>gi|149920266|ref|ZP_01908737.1| 30S ribosomal protein S1 [Plesiocystis pacifica SIR-1]
 gi|149818853|gb|EDM78293.1| 30S ribosomal protein S1 [Plesiocystis pacifica SIR-1]
          Length = 567

 Score = 39.3 bits (91), Expect = 1.5,   Method: Composition-based stats.
 Identities = 23/125 (18%), Positives = 48/125 (38%), Gaps = 10/125 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ L+  R+ D    +       +   +  R  +  +++V+++  R   +     + 
Sbjct: 143 PGSQVDLRPVRNLD--AFLNEEFDFKIIKFNKRRGNIVLSRRVLLEAERAELKHDTLNKL 200

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
               G+I+ G VK +      +DLG  DG++   +          E  + GD+VK  +  
Sbjct: 201 A--EGQIVEGVVKNLTDYGAFIDLGGIDGLLHITDMSWGRINHPSELFQVGDKVKVKVLK 258

Query: 189 VRREQ 193
              E 
Sbjct: 259 FNSES 263


>gi|16605548|emb|CAC86604.1| Rad51B protein [Physcomitrella patens]
 gi|16605579|emb|CAC82997.1| Rad51B protein [Physcomitrella patens]
          Length = 342

 Score = 39.3 bits (91), Expect = 1.5,   Method: Composition-based stats.
 Identities = 11/74 (14%), Positives = 28/74 (37%), Gaps = 3/74 (4%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAI---NVDEIIAHLLVAEGFADVEELACVKISEIASIE 399
           TE   +    ++      + ++ +    +  +    L   G+  VE +A     ++ +I+
Sbjct: 8   TEGATTSAATEEEIHHGPYLVEHLQSCGISALDLKKLKDAGYCTVEAVAYSAKKDLVNIK 67

Query: 400 GFDEETAVEIQGRA 413
           G  +    +I   A
Sbjct: 68  GLSDAKVDKIIEAA 81


>gi|154800462|ref|NP_001082837.2| protein RRP5 homolog [Danio rerio]
          Length = 1816

 Score = 39.3 bits (91), Expect = 1.5,   Method: Composition-based stats.
 Identities = 29/142 (20%), Positives = 57/142 (40%), Gaps = 30/142 (21%)

Query: 97  VSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE-----------FKD---KVGEII 142
           + +P   +D   +  Q+  Q I++ +  +  ++ Y             F     KVG+I+
Sbjct: 391 LKEPKEELDTNHLMSQT--QHILRIINYSPIEQIYQATLRWSSIETPFFSCQDIKVGQIV 448

Query: 143 SGTVKRVEYGNVIVDLG-NSDGVIRRDET------ISRENLRPGDRVKSYIYDVRREQRG 195
            GTV  ++   V V +G +  G+I R            +   PG +VK  +  V  +++ 
Sbjct: 449 EGTVTDLQKHGVYVRIGEHIRGMIPRIHLADVTLKNPEKKFYPGLKVKCRVLSVEAQKK- 507

Query: 196 PQVLLSRTHPQFMVKLFHMEVP 217
             ++L+R        L    +P
Sbjct: 508 -LLILTRK-----KALVESTLP 523


>gi|91787671|ref|YP_548623.1| 30S ribosomal protein S1 [Polaromonas sp. JS666]
 gi|91696896|gb|ABE43725.1| SSU ribosomal protein S1P [Polaromonas sp. JS666]
          Length = 561

 Score = 39.3 bits (91), Expect = 1.5,   Method: Composition-based stats.
 Identities = 21/70 (30%), Positives = 34/70 (48%), Gaps = 7/70 (10%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G I++G VK V+     +DLG +  G +R  E         R  L+ GD V + + +V 
Sbjct: 450 KGAIVTGKVKTVDAKGAEIDLGEDIIGYLRASEISRDRVEDARNVLKEGDEVSAVVVNVD 509

Query: 191 REQRGPQVLL 200
           R+ R  Q+ +
Sbjct: 510 RKTRNIQLSV 519


>gi|288818483|ref|YP_003432831.1| polyribonucleotide nucleotidyltransferase [Hydrogenobacter
           thermophilus TK-6]
 gi|288787883|dbj|BAI69630.1| polyribonucleotide nucleotidyltransferase [Hydrogenobacter
           thermophilus TK-6]
 gi|308752073|gb|ADO45556.1| polyribonucleotide nucleotidyltransferase [Hydrogenobacter
           thermophilus TK-6]
          Length = 705

 Score = 39.3 bits (91), Expect = 1.5,   Method: Composition-based stats.
 Identities = 30/195 (15%), Positives = 65/195 (33%), Gaps = 43/195 (22%)

Query: 20  KSIDRDVVLSVMADS-------IQKAARSLYGTMSDI-----RVEINPETGDISLFRLLE 67
           K + +++++  +  +       ++K   ++     ++     R+EI            + 
Sbjct: 510 KGLKKEIMIESLMQAKRGRLYILEKMYEAIPEPRKELSPYAPRIEI------------IT 557

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSD--PLPPMDFGRVAVQSAKQVIIQKVREA 125
           V EE          K  +D          V +   +      + A+ +AK++I   +R+ 
Sbjct: 558 VPEEKAMLIIGPGGKTVKDIKEKTGTTVWVLEGGKVSLTAPSKSAIDAAKEIIENLIRDV 617

Query: 126 ERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRE------NLRPG 179
           E  + Y            G V RVE   V V++      +     +             G
Sbjct: 618 EVGKVYE-----------GKVTRVEPYGVFVEILPGKVGLLHVSKMEGYVKDVRAVFSVG 666

Query: 180 DRVKSYIYDVRREQR 194
           D +K  + +V  + R
Sbjct: 667 DTLKVKVLEVDEQGR 681


>gi|71904766|gb|AAZ52664.1| DNA-dependent RNA polymerase alpha chain [Mycoplasma hominis ATCC
           23114]
          Length = 180

 Score = 39.3 bits (91), Expect = 1.5,   Method: Composition-based stats.
 Identities = 17/90 (18%), Positives = 42/90 (46%), Gaps = 1/90 (1%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
           D    + +   +    +  +N+     + L   GF +V+E+  +   E+++I+   +++ 
Sbjct: 90  DDQKEKHEKTPKVSVSIDKLNLTIRSLNALRRAGFNNVDEIMKLSDEELSNIKNLGKKSV 149

Query: 407 VEIQGRAREYLEGIDITLQKKIRELGVSEE 436
            +I  R RE+L+   +  +   +E   +EE
Sbjct: 150 QDIIDRRREWLDSQ-LNNEDSNKEYAANEE 178


>gi|82539154|ref|XP_723988.1| hypothetical protein [Plasmodium yoelii yoelii str. 17XNL]
 gi|23478474|gb|EAA15553.1| Rad51 homolog [Plasmodium yoelii yoelii]
          Length = 352

 Score = 39.3 bits (91), Expect = 1.6,   Method: Composition-based stats.
 Identities = 12/42 (28%), Positives = 21/42 (50%)

Query: 374 HLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
            LL   G   VE +A   +  + SI+G  E+ A +++   +E
Sbjct: 51  ELLKEGGLQTVECVAYAPMRTLCSIKGISEQKAEKLKKACKE 92


>gi|255693432|ref|ZP_05417107.1| ribosomal protein S1 [Bacteroides finegoldii DSM 17565]
 gi|260620818|gb|EEX43689.1| ribosomal protein S1 [Bacteroides finegoldii DSM 17565]
          Length = 600

 Score = 39.3 bits (91), Expect = 1.6,   Method: Composition-based stats.
 Identities = 31/103 (30%), Positives = 52/103 (50%), Gaps = 7/103 (6%)

Query: 102 PPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVG--EIISGTVKRVEYGNVIVDLG 159
           P  DF   A ++     +  V   E ++ Y    +KV   E++ GTV  +    V+V++G
Sbjct: 9   PIEDFNWDAYENG--ETVTNVSHDELEKAYDGTLNKVNDREVVDGTVIAMNKREVVVNIG 66

Query: 160 -NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
             SDG+I  +E     +L+ GD V+ YI    +E +  Q++LS
Sbjct: 67  YKSDGIIPLNEFRYNPDLKVGDTVEVYIE--NQEDKKGQLVLS 107


>gi|94268201|ref|ZP_01291117.1| RNA binding S1 [delta proteobacterium MLMS-1]
 gi|93451696|gb|EAT02473.1| RNA binding S1 [delta proteobacterium MLMS-1]
          Length = 410

 Score = 39.3 bits (91), Expect = 1.6,   Method: Composition-based stats.
 Identities = 25/99 (25%), Positives = 45/99 (45%), Gaps = 10/99 (10%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPL-PPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
              Q+ L+ A   +P   +G   S  +    + G+  + S +Q++ Q     ER     +
Sbjct: 130 PYSQMDLRRA--ANPEEYLGQSFSFLIMEFREGGKNILLSRRQLLEQ-----ERQELKEQ 182

Query: 134 FKD--KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDET 170
            +   KVG++++GTV  V      VD+G  +G+I   E 
Sbjct: 183 LRQSLKVGDLVTGTVTSVRDFGAFVDIGGIEGLIPISEI 221


>gi|331701405|ref|YP_004398364.1| RNA binding S1 domain-containing protein [Lactobacillus buchneri
           NRRL B-30929]
 gi|329128748|gb|AEB73301.1| RNA binding S1 domain protein [Lactobacillus buchneri NRRL B-30929]
          Length = 416

 Score = 39.3 bits (91), Expect = 1.6,   Method: Composition-based stats.
 Identities = 28/133 (21%), Positives = 54/133 (40%), Gaps = 23/133 (17%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             + P++   +    A   I+Q  +  ER++         G+++ GTV R+      VDL
Sbjct: 165 IEIDPVENRLILSHKA---IVQAEKAEEREKLMQTL--HEGDVVEGTVARLTNFGAFVDL 219

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLF 212
           G  DG++   +          + L+ G  VK  +  V  ++   ++ LS           
Sbjct: 220 GGMDGLVHVSQIAYERVDKPSDVLKVGQTVKVKVLSVDFDRN--RISLS----------I 267

Query: 213 HMEVPEIYNGIVQ 225
              +PE ++GI +
Sbjct: 268 KQTLPEPWDGIEE 280


>gi|115394440|gb|ABI97152.1| Rad51 [Pneumocystis murina]
 gi|115394442|gb|ABI97153.1| Rad51 [Pneumocystis murina]
          Length = 343

 Score = 39.3 bits (91), Expect = 1.6,   Method: Composition-based stats.
 Identities = 13/80 (16%), Positives = 29/80 (36%), Gaps = 3/80 (3%)

Query: 339 IDIITEEEDSINRQKDFNERTQFFMQAI---NVDEIIAHLLVAEGFADVEELACVKISEI 395
           +D    EE + +  ++        +  +    +       ++  G+  VE +A      I
Sbjct: 3   LDEELAEETAQDMNEEDIICGPTPLSKLEGNGISASDIKKIIEAGYNTVEAIAYTPKRAI 62

Query: 396 ASIEGFDEETAVEIQGRARE 415
             I+G  E  A ++   A +
Sbjct: 63  LLIKGISEAKADKLISEASK 82


>gi|5802566|gb|AAD51713.1|AF174136_1 RAD51 [Trypanosoma brucei]
          Length = 373

 Score = 39.3 bits (91), Expect = 1.6,   Method: Composition-based stats.
 Identities = 13/49 (26%), Positives = 20/49 (40%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           M+   V       L+  GF  VE +A      I +++G  E  A +I  
Sbjct: 61  MENYGVASADIKKLMECGFLTVESVAYAPKKSILAVKGISEAKAEKIMA 109


>gi|298481477|ref|ZP_06999669.1| ribosomal protein S1 [Bacteroides sp. D22]
 gi|295086940|emb|CBK68463.1| SSU ribosomal protein S1P [Bacteroides xylanisolvens XB1A]
 gi|298272341|gb|EFI13910.1| ribosomal protein S1 [Bacteroides sp. D22]
          Length = 599

 Score = 39.3 bits (91), Expect = 1.6,   Method: Composition-based stats.
 Identities = 31/103 (30%), Positives = 52/103 (50%), Gaps = 7/103 (6%)

Query: 102 PPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVG--EIISGTVKRVEYGNVIVDLG 159
           P  DF   A ++     +  V   E ++ Y    +KV   E++ GTV  +    V+V++G
Sbjct: 9   PIEDFNWDAYENG--ETVTNVSHDELEKAYDGTLNKVNDREVVDGTVIAMNKREVVVNIG 66

Query: 160 -NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
             SDG+I  +E     +L+ GD V+ YI    +E +  Q++LS
Sbjct: 67  YKSDGIIPLNEFRYNPDLKVGDTVEVYIE--NQEDKKGQLVLS 107


>gi|240279406|gb|EER42911.1| DNA repair protein RAD51 [Ajellomyces capsulatus H143]
          Length = 249

 Score = 39.3 bits (91), Expect = 1.6,   Method: Composition-based stats.
 Identities = 16/81 (19%), Positives = 33/81 (40%), Gaps = 7/81 (8%)

Query: 342 ITEEEDSINRQKDFN----ERTQFFMQAINVDEIIA---HLLVAEGFADVEELACVKISE 394
           +T E++S N  ++                 V+ + A    L++  G+  +E +A      
Sbjct: 1   MTVEDESQNEYEENGLAGPGAPTPLTALEGVNGLTARDIKLVIDGGYHTIESVAYTPKRM 60

Query: 395 IASIEGFDEETAVEIQGRARE 415
           +  I+G  E+ A +I   A +
Sbjct: 61  LEQIKGISEQKATKILAEASK 81


>gi|72119667|gb|AAZ61930.1| SSU ribosomal protein S1P [Ralstonia eutropha JMP134]
          Length = 592

 Score = 39.3 bits (91), Expect = 1.6,   Method: Composition-based stats.
 Identities = 27/137 (19%), Positives = 58/137 (42%), Gaps = 22/137 (16%)

Query: 74  NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
           + + Q + + A         G  V   +  +D         K+ I   +++   D  +  
Sbjct: 428 DLSWQETGEEAVR---KYKKGDEVEAVVLGIDVD-------KERISLGIKQLSGDP-FNN 476

Query: 134 FK--DKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETIS------RENLRPGDRVKS 184
           F   +  G +++GT+K V+    +V L  + +G +R  E  +      R  L+ G+++ +
Sbjct: 477 FISANDKGSLVTGTIKAVDPKGAVVQLADDVEGYLRASEISADRVEDARNVLKEGEQITA 536

Query: 185 YIYDVRREQRGPQVLLS 201
            + +V R+ R   + LS
Sbjct: 537 LVVNVDRKSRN--INLS 551



 Score = 38.1 bits (88), Expect = 3.8,   Method: Composition-based stats.
 Identities = 28/122 (22%), Positives = 48/122 (39%), Gaps = 9/122 (7%)

Query: 80  SLKVARDR-DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           SL   R   D +   G  +   +  +D  R  V  +++ +++     ER +     K   
Sbjct: 167 SLVDVRPIKDTTPYEGKTLEFKVIKLDRKRNNVVLSRRAVVEATLGEERQKLMETLK--E 224

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRRE 192
           G I++G VK +      VDLG  DG++       R      E L  G  + + I    +E
Sbjct: 225 GAIVNGIVKNITDYGAFVDLGGIDGLLHITDLAWRRVRHPSEVLSVGQEITAKILKFDQE 284

Query: 193 QR 194
           + 
Sbjct: 285 KN 286


>gi|114566869|ref|YP_754023.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding
           domain protein [Syntrophomonas wolfei subsp. wolfei str.
           Goettingen]
 gi|114337804|gb|ABI68652.1| hydroxymethylbutenyl pyrophosphate reductase [Syntrophomonas wolfei
           subsp. wolfei str. Goettingen]
          Length = 687

 Score = 39.3 bits (91), Expect = 1.6,   Method: Composition-based stats.
 Identities = 33/170 (19%), Positives = 64/170 (37%), Gaps = 26/170 (15%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              ++SL+        +++G  +   +   D     + S K+V  + + +   +      
Sbjct: 364 PLREMSLQDIDSAKELVEVGDEIEVMVLKWDDDGTILLSKKKVDAKILLDELEESF---- 419

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDE----TISRENLRPGDRVKSYIYDV- 189
             K G++I+GTV     G ++VD+G     +         +   +      +   I +  
Sbjct: 420 --KEGKVITGTVTGSVKGGLLVDVG-IVAFLPASHVEDGYVKNLDEYINRELSFKIIEFN 476

Query: 190 RREQRGPQVLLSRTHPQFMVKLFHMEV--------PEIYNGIVQVKAVSR 231
           R ++RG QV+LSR       +L   E          EI  G V+   + R
Sbjct: 477 RNKRRGSQVVLSR------KELVAEEKAKQKKQFWEEIEEGQVRKGRIKR 520


>gi|71755957|ref|XP_828893.1| RAD51 protein [Trypanosoma brucei TREU927]
 gi|70834279|gb|EAN79781.1| RAD51 protein [Trypanosoma brucei]
          Length = 373

 Score = 39.3 bits (91), Expect = 1.6,   Method: Composition-based stats.
 Identities = 13/49 (26%), Positives = 20/49 (40%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           M+   V       L+  GF  VE +A      I +++G  E  A +I  
Sbjct: 61  MENYGVASADIKKLMECGFLTVESVAYAPKKSILAVKGISEAKAEKIMA 109


>gi|68071341|ref|XP_677584.1| Rad51 [Plasmodium berghei strain ANKA]
 gi|56497754|emb|CAH95058.1| Rad51 homolog, putative [Plasmodium berghei]
          Length = 349

 Score = 39.3 bits (91), Expect = 1.6,   Method: Composition-based stats.
 Identities = 12/42 (28%), Positives = 21/42 (50%)

Query: 374 HLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
            LL   G   VE +A   +  + SI+G  E+ A +++   +E
Sbjct: 48  ELLKEGGLQTVECVAYAPMRTLCSIKGISEQKAEKLKKACKE 89


>gi|189500922|ref|YP_001960392.1| 30S ribosomal protein S1 [Chlorobium phaeobacteroides BS1]
 gi|189496363|gb|ACE04911.1| RNA binding S1 domain protein [Chlorobium phaeobacteroides BS1]
          Length = 591

 Score = 39.3 bits (91), Expect = 1.6,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 37/65 (56%), Gaps = 3/65 (4%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
             EI+ GT+  +   +V +D+G  S+G++ + E    E L+ GD V+ Y+ ++  +    
Sbjct: 49  EEEIVKGTIVAISNKDVTIDVGFKSEGIVSKLEFKDEEELQVGDEVEVYLENIEDKMG-- 106

Query: 197 QVLLS 201
           Q++LS
Sbjct: 107 QLILS 111


>gi|24213346|ref|NP_710827.1| 30S ribosomal protein S1 [Leptospira interrogans serovar Lai str.
           56601]
 gi|45658772|ref|YP_002858.1| 30S ribosomal protein S1 [Leptospira interrogans serovar
           Copenhageni str. Fiocruz L1-130]
 gi|24194094|gb|AAN47845.1| 30S ribosomal protein S1 [Leptospira interrogans serovar Lai str.
           56601]
 gi|45602016|gb|AAS71495.1| 30S ribosomal protein S1 [Leptospira interrogans serovar
           Copenhageni str. Fiocruz L1-130]
          Length = 384

 Score = 39.3 bits (91), Expect = 1.6,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 37/72 (51%), Gaps = 9/72 (12%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSD-GVIRRDE-----TIS-RENLRPGDRVKSYIYDV 189
           K G+I+ GT+  ++   V V L +   G++   E      +   ++ +PG+ V  ++ +V
Sbjct: 273 KEGDIVKGTIDSLKPFGVFVKLDDHFNGLVPGRETGISNRVPLSQSFKPGEVVDVFVMEV 332

Query: 190 RREQRGPQVLLS 201
             E++  Q+ LS
Sbjct: 333 NPEKK--QISLS 342


>gi|56963987|ref|YP_175718.1| polynucleotide phosphorylase/polyadenylase [Bacillus clausii
           KSM-K16]
 gi|81366005|sp|Q5WFU8|PNP_BACSK RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|56910230|dbj|BAD64757.1| polyribonucleotide nucleotidyltransferase [Bacillus clausii
           KSM-K16]
          Length = 710

 Score = 39.3 bits (91), Expect = 1.6,   Method: Composition-based stats.
 Identities = 28/98 (28%), Positives = 39/98 (39%), Gaps = 21/98 (21%)

Query: 112 QSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI 171
           Q AKQ+I   VRE            +VGE   G VKR+E     V+L      +     I
Sbjct: 605 QKAKQIIEDLVREV-----------QVGETYHGKVKRIEKFGAFVELFKGKDGLLHISQI 653

Query: 172 SREN-------LRPGDRVKSYIYDVRREQRGPQVLLSR 202
           + E         + GD V   + ++  + R   V LSR
Sbjct: 654 AEERINKVEDVFKLGDEVDVRVTEIDNQGR---VNLSR 688


>gi|332299900|ref|YP_004441821.1| RNA binding S1 domain protein [Porphyromonas asaccharolytica DSM
           20707]
 gi|332176963|gb|AEE12653.1| RNA binding S1 domain protein [Porphyromonas asaccharolytica DSM
           20707]
          Length = 598

 Score = 39.3 bits (91), Expect = 1.7,   Method: Composition-based stats.
 Identities = 23/82 (28%), Positives = 40/82 (48%), Gaps = 5/82 (6%)

Query: 123 REAERDRQYLEFKD--KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPG 179
              ER+  Y +     K  E++ G V  +    V+V++G  S G+I  +E    ++L+ G
Sbjct: 30  MRKEREAIYDKTLTTIKENEVVMGKVMSISKREVLVNIGYKSAGIISANEFNYNKDLKVG 89

Query: 180 DRVKSYIYDVRREQRGPQVLLS 201
           D V+  +    +E R  Q+ LS
Sbjct: 90  DEVEVLVES--KEDRFGQLQLS 109


>gi|301299466|ref|ZP_07205741.1| 30S ribosomal protein S1 [Lactobacillus salivarius ACS-116-V-Col5a]
 gi|300852929|gb|EFK80538.1| 30S ribosomal protein S1 [Lactobacillus salivarius ACS-116-V-Col5a]
          Length = 397

 Score = 39.3 bits (91), Expect = 1.7,   Method: Composition-based stats.
 Identities = 29/133 (21%), Positives = 55/133 (41%), Gaps = 17/133 (12%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             + P D   +     ++ ++Q  REA+R     +     G+++ G V R+      ++L
Sbjct: 164 VEIEPSDNRLILS---RKELVQAEREAKRQAVMEKLVA--GDVVEGKVARLTNFGAFINL 218

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLF 212
           G  DG++   E          + L+ G  VK  +  V  E+    + + +T P+   +  
Sbjct: 219 GGFDGLVHVSEISYERVNKPADALKVGQEVKVKVLSVDAEKGRISLSIKQTLPEPWEQ-- 276

Query: 213 HMEVPE-IYNGIV 224
              VPE +  G V
Sbjct: 277 ---VPEQVAEGDV 286


>gi|323341663|ref|ZP_08081896.1| polyribonucleotide nucleotidyltransferase [Erysipelothrix
           rhusiopathiae ATCC 19414]
 gi|322464088|gb|EFY09281.1| polyribonucleotide nucleotidyltransferase [Erysipelothrix
           rhusiopathiae ATCC 19414]
          Length = 712

 Score = 39.3 bits (91), Expect = 1.7,   Method: Composition-based stats.
 Identities = 38/206 (18%), Positives = 71/206 (34%), Gaps = 50/206 (24%)

Query: 20  KSIDRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLL-EVVEEVENYTCQ 78
           K +  D++   +A +                     +TG   +   + EV+ E  N+  +
Sbjct: 516 KGLSEDILREALAQA---------------------KTGRAEMMAAMDEVISEPRNFVGE 554

Query: 79  ISLKVARDRDPSIDIGGVV---------------SDPLPPMDFGRVAVQSAKQVIIQKVR 123
            + K+A+       I  V+                  +   D GRV +    Q  I K +
Sbjct: 555 YAPKIAQMNIKPDKIRDVIGAGGKIINQIIEDCNDVKIDIEDDGRVVIYHTDQASIDKAK 614

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDET------ISRENL 176
               +         VGEI    V R+E     V+L   +D ++   +          + +
Sbjct: 615 AMIENIVR---VAAVGEIYDAKVVRIEKFGAFVNLFQGTDALLHVSKMDHNRVEKPEDIV 671

Query: 177 RPGDRVKSYIYDVRREQRGPQVLLSR 202
           + GD VK  + ++  + R   V +SR
Sbjct: 672 KLGDIVKVKVMEIDEKGR---VNVSR 694


>gi|221055874|ref|XP_002259075.1| recombinase rad51 [Plasmodium knowlesi strain H]
 gi|193809146|emb|CAQ39848.1| recombinase rad51, putative [Plasmodium knowlesi strain H]
          Length = 350

 Score = 39.3 bits (91), Expect = 1.7,   Method: Composition-based stats.
 Identities = 11/42 (26%), Positives = 21/42 (50%)

Query: 374 HLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
            LL   G   VE +A   +  + +I+G  E+ A +++   +E
Sbjct: 49  ELLKEGGLQTVECVAYAPMRTLCAIKGISEQKAEKLKKACKE 90


>gi|154280987|ref|XP_001541306.1| DNA repair protein RAD51 [Ajellomyces capsulatus NAm1]
 gi|150411485|gb|EDN06873.1| DNA repair protein RAD51 [Ajellomyces capsulatus NAm1]
          Length = 297

 Score = 39.3 bits (91), Expect = 1.7,   Method: Composition-based stats.
 Identities = 16/86 (18%), Positives = 35/86 (40%), Gaps = 7/86 (8%)

Query: 342 ITEEEDSINRQKDFN----ERTQFFMQAINVDEIIA---HLLVAEGFADVEELACVKISE 394
           +T E++S N  ++                 V+ + A    L++  G+  +E +A      
Sbjct: 1   MTVEDESQNEYEENGLAGPGAPTPLTALEGVNGLTARDIKLVIDGGYHTIESVAYTPKRM 60

Query: 395 IASIEGFDEETAVEIQGRAREYLEGI 420
           +  I+G  E+ A +I     + L+ +
Sbjct: 61  LEQIKGISEQKATKILAEGSKQLDTL 86


>gi|315639994|ref|ZP_07895121.1| polyribonucleotide nucleotidyltransferase [Enterococcus italicus
           DSM 15952]
 gi|315484256|gb|EFU74725.1| polyribonucleotide nucleotidyltransferase [Enterococcus italicus
           DSM 15952]
          Length = 707

 Score = 39.3 bits (91), Expect = 1.7,   Method: Composition-based stats.
 Identities = 34/188 (18%), Positives = 72/188 (38%), Gaps = 29/188 (15%)

Query: 29  SVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRD 88
            ++ +++ +A ++    + ++   I+    ++S +               I +  A+ +D
Sbjct: 522 QILREALAQAKKARMEILEELTATIDQPRAELSQYAPK---------IEMIQIDPAKIKD 572

Query: 89  PSIDIGGVV-------SDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEI 141
                G  +          +     G+V++ SA   +I+K  +   D        KVGE+
Sbjct: 573 VIGKGGDTINGIIEETGVKIDIDQDGKVSIASADAEMIKKAIKIIEDLTKE---VKVGEV 629

Query: 142 ISGTVKRVEYGNVIVDLGNSDGVIRRDETISREN-------LRPGDRVKSYIYDVRREQR 194
             G V RVE     V+L      +     ++ E        ++ GD V   + ++ ++ R
Sbjct: 630 YLGKVVRVEKFGAFVNLIKGKDGLVHISQLANERVANVEDVVKLGDEVLVKVTEIDKQGR 689

Query: 195 GPQVLLSR 202
              V LSR
Sbjct: 690 ---VNLSR 694


>gi|309790847|ref|ZP_07685391.1| RNA binding S1 domain protein [Oscillochloris trichoides DG6]
 gi|308227134|gb|EFO80818.1| RNA binding S1 domain protein [Oscillochloris trichoides DG6]
          Length = 402

 Score = 39.3 bits (91), Expect = 1.7,   Method: Composition-based stats.
 Identities = 30/135 (22%), Positives = 56/135 (41%), Gaps = 14/135 (10%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q    +AR  +  + +       +         + S +Q + Q+ RE ++D      
Sbjct: 173 PETQKQSDMARMVNTDLQL-----KVIEINRNRNRLILSERQAV-QEARETKKDELLSRL 226

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           K   G++ +GT+  V      VD+G +DG++   E          E L PGD+V+  I  
Sbjct: 227 K--EGDVRTGTISSVCDFGAFVDIGGADGLVHLSEISWSRVKHPSEVLHPGDKVQVSILS 284

Query: 189 VRREQRGPQVLLSRT 203
           V  +++   + + RT
Sbjct: 285 VDHDRKRIALSIKRT 299



 Score = 37.0 bits (85), Expect = 7.5,   Method: Composition-based stats.
 Identities = 21/94 (22%), Positives = 45/94 (47%), Gaps = 17/94 (18%)

Query: 123 REAERDRQYLEFKD---------KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDET-- 170
            +AE      +F +         K G+ + GT+ R++   ++VD+G  ++G++   E   
Sbjct: 24  MDAEDMALMEQFLNDPAHDYRNLKYGDTVDGTIMRIDKDEILVDIGAKAEGIVPSREMQS 83

Query: 171 ISREN---LRPGDRVKSYIYDVRREQRGPQVLLS 201
           +  E+   LR G  +  ++  V+ E +  + +LS
Sbjct: 84  LPAEDRAALRIGSELLVFV--VQSEDKEGRAILS 115


>gi|163736769|ref|ZP_02144188.1| Helix-hairpin-helix DNA-binding, class 1 [Phaeobacter gallaeciensis
           BS107]
 gi|161390639|gb|EDQ14989.1| Helix-hairpin-helix DNA-binding, class 1 [Phaeobacter gallaeciensis
           BS107]
          Length = 240

 Score = 39.3 bits (91), Expect = 1.7,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 23/53 (43%)

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
           +   V   +A +L   G A +E +A     E++ I    +  A ++   A++ 
Sbjct: 6   KLPGVGPALARILSENGCATIEAVAGKSPEELSKIPRIGKLRAAKLSAEAQKA 58


>gi|121605690|ref|YP_983019.1| 30S ribosomal protein S1 [Polaromonas naphthalenivorans CJ2]
 gi|120594659|gb|ABM38098.1| SSU ribosomal protein S1P [Polaromonas naphthalenivorans CJ2]
          Length = 561

 Score = 39.3 bits (91), Expect = 1.7,   Method: Composition-based stats.
 Identities = 21/70 (30%), Positives = 34/70 (48%), Gaps = 7/70 (10%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G I++G VK V+     +DLG +  G +R  E         R  L+ GD V + + +V 
Sbjct: 450 KGAIVTGKVKTVDAKGAEIDLGEDIIGYLRASEISRDRVEDARNVLKEGDEVSAVVVNVD 509

Query: 191 REQRGPQVLL 200
           R+ R  Q+ +
Sbjct: 510 RKTRNIQLSV 519


>gi|121594810|ref|YP_986706.1| 30S ribosomal protein S1 [Acidovorax sp. JS42]
 gi|120606890|gb|ABM42630.1| SSU ribosomal protein S1P [Acidovorax sp. JS42]
          Length = 561

 Score = 39.3 bits (91), Expect = 1.7,   Method: Composition-based stats.
 Identities = 20/68 (29%), Positives = 33/68 (48%), Gaps = 7/68 (10%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G+ ++G VK V+     +DLG +  G +R  E         R  L+ GD V + + +V 
Sbjct: 450 KGQTVTGKVKTVDARGAEIDLGEDIVGYLRASEISRDRVEDARNVLKEGDEVTAVVVNVD 509

Query: 191 REQRGPQV 198
           R+ R  Q+
Sbjct: 510 RKTRNIQL 517


>gi|303256837|ref|ZP_07342851.1| ribosomal protein S1 [Burkholderiales bacterium 1_1_47]
 gi|330998916|ref|ZP_08322643.1| ribosomal protein S1 [Parasutterella excrementihominis YIT 11859]
 gi|302860328|gb|EFL83405.1| ribosomal protein S1 [Burkholderiales bacterium 1_1_47]
 gi|329576130|gb|EGG57649.1| ribosomal protein S1 [Parasutterella excrementihominis YIT 11859]
          Length = 564

 Score = 39.3 bits (91), Expect = 1.7,   Method: Composition-based stats.
 Identities = 22/68 (32%), Positives = 36/68 (52%), Gaps = 7/68 (10%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G +++G VK VE    ++DLGN ++G +R  E         R  L+ GD V + I ++ 
Sbjct: 457 KGSVVTGKVKSVEAKGAVIDLGNDTEGYLRASEIGPDRVEDARNVLKEGDEVTAAITNID 516

Query: 191 REQRGPQV 198
           R+ R  Q+
Sbjct: 517 RKARSIQL 524


>gi|229822530|ref|YP_002884056.1| HhH-GPD family protein [Beutenbergia cavernae DSM 12333]
 gi|229568443|gb|ACQ82294.1| HhH-GPD family protein [Beutenbergia cavernae DSM 12333]
          Length = 330

 Score = 39.3 bits (91), Expect = 1.7,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 26/71 (36%), Gaps = 5/71 (7%)

Query: 381 FADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSI 440
           F   E +A     E+ ++ G     A  +   A  + +G+ +         G  E L ++
Sbjct: 198 FPTPEAIARADPDELRAVVGLTRARASSLTSLAAAFADGLALDT-----GPGSRERLLAL 252

Query: 441 PGIDSKIKVAL 451
           PGI       L
Sbjct: 253 PGIGPWTADYL 263


>gi|20067695|emb|CAD29089.1| chimeric DNA-directed DNA polymerase bf4-16 [synthetic construct]
          Length = 334

 Score = 39.3 bits (91), Expect = 1.7,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
            L + GIKT+EDL
Sbjct: 113 KLVDEGIKTLEDL 125


>gi|300312983|ref|YP_003777075.1| 30s ribosomal protein S1 [Herbaspirillum seropedicae SmR1]
 gi|124483424|emb|CAM32585.1| 30s ribosomal subunit protein S1 [Herbaspirillum seropedicae]
 gi|300075768|gb|ADJ65167.1| 30s ribosomal subunit S1 protein [Herbaspirillum seropedicae SmR1]
          Length = 585

 Score = 39.3 bits (91), Expect = 1.7,   Method: Composition-based stats.
 Identities = 22/69 (31%), Positives = 37/69 (53%), Gaps = 9/69 (13%)

Query: 138 VGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISREN-------LRPGDRVKSYIYDV 189
            G I++GTVK VE    ++ L    +G +R  E ISR+        L+ GD V++ + ++
Sbjct: 476 KGAIVTGTVKSVEPKGAVIQLTDEVEGYLRASE-ISRDRVEDAGTHLKVGDSVEALVINI 534

Query: 190 RREQRGPQV 198
            R+ R  Q+
Sbjct: 535 DRKARSIQL 543



 Score = 37.7 bits (87), Expect = 4.5,   Method: Composition-based stats.
 Identities = 23/107 (21%), Positives = 43/107 (40%), Gaps = 8/107 (7%)

Query: 94  GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN 153
           G  +   +  +D  R  V  +++ +I+     ER +     K   G +++G VK +    
Sbjct: 175 GKTLEFKVIKLDRKRNNVVLSRRAVIEASMGEERAKLMETLK--EGTVVTGIVKNITDYG 232

Query: 154 VIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
             VDLG  DG++       R      E L  G  + + +    +E+ 
Sbjct: 233 AFVDLGGIDGLLHITDLAWRRVRHPSEVLSVGQEITAKVLKYDQEKN 279



 Score = 37.4 bits (86), Expect = 6.7,   Method: Composition-based stats.
 Identities = 28/112 (25%), Positives = 44/112 (39%), Gaps = 16/112 (14%)

Query: 126 ERDRQYLEFKDKV----GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISREN----L 176
           E    + E   +     GE+IS  V R+++  VIV+ G  S+  I  +E    +N    +
Sbjct: 30  EFAALFEESLSRQDMRSGEVISAEVVRLDHNFVIVNAGLKSEAFIPVEE-FKNDNGEVEV 88

Query: 177 RPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLF----HMEVPEIYNGIV 224
             GD +   I  +         +LSR   + +         ME  EI  G V
Sbjct: 89  NVGDFISVAIESLENGFGDT--ILSRDKAKRLASWLSLEKAMESGEIVTGTV 138


>gi|89890788|ref|ZP_01202297.1| 30S ribosomal protein [Flavobacteria bacterium BBFL7]
 gi|89516933|gb|EAS19591.1| 30S ribosomal protein [Flavobacteria bacterium BBFL7]
          Length = 619

 Score = 39.3 bits (91), Expect = 1.7,   Method: Composition-based stats.
 Identities = 32/147 (21%), Positives = 58/147 (39%), Gaps = 17/147 (11%)

Query: 69  VEEVENYTCQI---SLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
           V EV     Q        A+  +P+ +               +V     K         A
Sbjct: 8   VAEVSTEETQAHTAPTATAQQTNPT-EFLDTFDWERYSEGIEKVDEDQLK---------A 57

Query: 126 ERDRQYLEFKDKVG-EIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVK 183
                   F D +  ++++G V ++   + I+D+   S+GVI  +E     NL+ GD+V+
Sbjct: 58  FEKLVEDNFVDTIDNDVMTGVVIKITDRDAIIDINAKSEGVISLNEFRYNPNLKEGDKVE 117

Query: 184 SYIYDVRREQRGPQVLLSRTHPQFMVK 210
             + DVR +  G Q++LS    + +  
Sbjct: 118 VLV-DVREDATG-QLVLSHRKARLIKA 142



 Score = 39.3 bits (91), Expect = 1.8,   Method: Composition-based stats.
 Identities = 29/134 (21%), Positives = 51/134 (38%), Gaps = 10/134 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +K  RD D  +D            +F  V V   K +I   + E +++  
Sbjct: 176 EAFLPGSQIDVKPIRDYDAYVDKTMEFKVVKINHEFKNVVVSH-KALIEADIEEQKKEII 234

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
               + + G+++ G VK +    V VDLG  DG++   +          E +     +  
Sbjct: 235 ---SRLEKGQVLEGVVKNITSYGVFVDLGGVDGLVHITDLSWSRINHPNEVVELDQTLNV 291

Query: 185 YIYDVRREQRGPQV 198
            I D   ++   Q+
Sbjct: 292 VILDFDEDKSRIQL 305


>gi|329890647|ref|ZP_08268990.1| ribosomal protein S1 [Brevundimonas diminuta ATCC 11568]
 gi|328845948|gb|EGF95512.1| ribosomal protein S1 [Brevundimonas diminuta ATCC 11568]
          Length = 565

 Score = 39.3 bits (91), Expect = 1.8,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 4/58 (6%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISREN---LRPGDRVKSYIYDVRR 191
            G+++ G V  +E   VI+D+G  ++G I   E    E     + GD V+ Y+  V  
Sbjct: 27  EGQVVHGRVVGIEKDIVIIDVGLKTEGRIAMREFGQGEGAVLPKVGDNVEVYLERVEN 84



 Score = 38.5 bits (89), Expect = 3.0,   Method: Composition-based stats.
 Identities = 22/92 (23%), Positives = 39/92 (42%), Gaps = 8/92 (8%)

Query: 108 RVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRR 167
           R  +  +++ I+++ R  +R     +   + GEI  G VK +      VDLG  DG++  
Sbjct: 170 RGNIVVSRRAILEEARAEQRTELVGQL--QEGEIREGVVKNITDYGAFVDLGGIDGLLHV 227

Query: 168 DETI------SRENLRPGDRVKSYIYDVRREQ 193
            +          + L  GD VK  I  +  + 
Sbjct: 228 TDMSWKRVSHPSQVLAVGDTVKVQIVKINPDT 259


>gi|116513917|ref|YP_812823.1| 30S ribosomal protein S1 [Lactobacillus delbrueckii subsp.
           bulgaricus ATCC BAA-365]
 gi|116093232|gb|ABJ58385.1| SSU ribosomal protein S1P [Lactobacillus delbrueckii subsp.
           bulgaricus ATCC BAA-365]
 gi|325125584|gb|ADY84914.1| 30S Ribosomal protein S1 [Lactobacillus delbrueckii subsp.
           bulgaricus 2038]
          Length = 401

 Score = 39.3 bits (91), Expect = 1.8,   Method: Composition-based stats.
 Identities = 35/192 (18%), Positives = 71/192 (36%), Gaps = 39/192 (20%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG 152
           IG  +   +  +D  +  +  + + +I++ RE   +    +    VG+++ G V R+   
Sbjct: 153 IGKTIKVKITEIDPAKNRLILSHKELIEEEREQAFENVASQLV--VGDVVEGRVSRLTNF 210

Query: 153 NVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQ 206
              VD+G  DG++   E          + L+ G  VK  +  +  ++    + + +T P 
Sbjct: 211 GSFVDIGGVDGLVHISEISYKHVDKPSDVLKVGQDVKVKVIGIDNDRHRISLSIKQTEPS 270

Query: 207 FMVK---------LFHMEV---------PEIYNGIVQVKAVSRDP-------------GS 235
              +         +   EV          E+ +GI  +  VS                G 
Sbjct: 271 PFEQATSSLNEGDVIEGEVKSLTNFGAFVEVADGIQGLVHVSEIAYKHVDKPSDVLTVGP 330

Query: 236 RAKLAVFSSDSS 247
           + K+ V + D S
Sbjct: 331 KVKVKVLNIDPS 342


>gi|222110591|ref|YP_002552855.1| 30S ribosomal protein s1 [Acidovorax ebreus TPSY]
 gi|221730035|gb|ACM32855.1| ribosomal protein S1 [Acidovorax ebreus TPSY]
          Length = 561

 Score = 39.3 bits (91), Expect = 1.8,   Method: Composition-based stats.
 Identities = 20/68 (29%), Positives = 33/68 (48%), Gaps = 7/68 (10%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G+ ++G VK V+     +DLG +  G +R  E         R  L+ GD V + + +V 
Sbjct: 450 KGQTVTGKVKTVDARGAEIDLGEDIVGYLRASEISRDRVEDARNVLKEGDEVTAVVVNVD 509

Query: 191 REQRGPQV 198
           R+ R  Q+
Sbjct: 510 RKTRNIQL 517


>gi|120611941|ref|YP_971619.1| 30S ribosomal protein S1 [Acidovorax citrulli AAC00-1]
 gi|120590405|gb|ABM33845.1| SSU ribosomal protein S1P [Acidovorax citrulli AAC00-1]
          Length = 561

 Score = 39.3 bits (91), Expect = 1.8,   Method: Composition-based stats.
 Identities = 20/68 (29%), Positives = 33/68 (48%), Gaps = 7/68 (10%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G+ ++G VK V+     +DLG +  G +R  E         R  L+ GD V + + +V 
Sbjct: 450 KGQTVTGKVKTVDARGAEIDLGEDIVGYLRASEISRDRVEDARNVLKEGDEVTAVVVNVD 509

Query: 191 REQRGPQV 198
           R+ R  Q+
Sbjct: 510 RKTRNIQL 517


>gi|297831004|ref|XP_002883384.1| RNA polymerase Rpb7 N-terminal domain-containing protein
           [Arabidopsis lyrata subsp. lyrata]
 gi|297329224|gb|EFH59643.1| RNA polymerase Rpb7 N-terminal domain-containing protein
           [Arabidopsis lyrata subsp. lyrata]
          Length = 174

 Score = 39.3 bits (91), Expect = 1.8,   Method: Composition-based stats.
 Identities = 22/108 (20%), Positives = 41/108 (37%), Gaps = 23/108 (21%)

Query: 104 MDFGRVAVQSAKQVI-IQKVREAERDRQYLE------FKDKVGEIISGTVKRVEYGNVIV 156
            D G +   +  + I   K++E   + Q+        FK   GE++ G V++V    V +
Sbjct: 43  KDLGYLITPTILENIGEGKIKEQTGEIQFPVVFNGICFKMFKGEVVHGVVQKVHKSGVFL 102

Query: 157 DLGNSDGV------IRRDETISREN----------LRPGDRVKSYIYD 188
             G  + +      +   E I  E           ++ G RV+  + D
Sbjct: 103 RSGPYEIIYLSHVKMPGYEFIPGEKPIFMNQNMSRIQIGARVRFIVLD 150


>gi|290968708|ref|ZP_06560246.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Megasphaera
           genomosp. type_1 str. 28L]
 gi|290781361|gb|EFD93951.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Megasphaera
           genomosp. type_1 str. 28L]
          Length = 635

 Score = 39.3 bits (91), Expect = 1.8,   Method: Composition-based stats.
 Identities = 28/155 (18%), Positives = 59/155 (38%), Gaps = 24/155 (15%)

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGG-VVSDPLPPMDFGRVAVQSAKQVIIQKV 122
           RL +V  E +  T  +  + AR+ +PS   G   +           +  +  K  I++ +
Sbjct: 219 RLAQVCREQDCPTYHV--ETAREINPSWFHGMSYIGITAGASTPDWIIQEVVK--IMENL 274

Query: 123 REAERDRQYLEFKD--------KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDET-IS 172
           +    +    E  D        K G+++ G V  V      V +G  ++ ++ + E  + 
Sbjct: 275 QAEGTEVMSEELLDQYDYEENLKKGDVVEGKVVSVTDDAAFVSIGTKAEAILPKKEIAVP 334

Query: 173 -----RENLRPGDRVKSYIYD-VRREQRGPQVLLS 201
                 + +  GD  K  I   V+ +     +++S
Sbjct: 335 APEKAGDVVHVGDEFKVVIASTVKEDS---TIVVS 366


>gi|302392792|ref|YP_003828612.1| DNA ligase, NAD-dependent [Acetohalobium arabaticum DSM 5501]
 gi|302204869|gb|ADL13547.1| DNA ligase, NAD-dependent [Acetohalobium arabaticum DSM 5501]
          Length = 671

 Score = 39.3 bits (91), Expect = 1.8,   Method: Composition-based stats.
 Identities = 20/99 (20%), Positives = 37/99 (37%), Gaps = 9/99 (9%)

Query: 352 QKDFNERTQFFMQAINVDEI---IAHLLVAEGFADVEELACVKISEIASIEGFDEETAVE 408
           ++  +     F+  + V  +    A LL  + F  +E L      E+  I G  E  A E
Sbjct: 503 EESKDVELSSFIYGLGVPNVGTRTAELLADK-FKSLERLMEADKEELVEINGIGEVVAEE 561

Query: 409 IQGRAREYLEGIDIT-LQKKIRELGVSEELCSIPGIDSK 446
           I     ++    +I    +++ E GV     +I  +   
Sbjct: 562 IV----DFFADENIQGSIQRMLEAGVEPNYEAIEEVQED 596


>gi|326316779|ref|YP_004234451.1| 30S ribosomal protein S1 [Acidovorax avenae subsp. avenae ATCC
           19860]
 gi|323373615|gb|ADX45884.1| ribosomal protein S1 [Acidovorax avenae subsp. avenae ATCC 19860]
          Length = 561

 Score = 39.3 bits (91), Expect = 1.8,   Method: Composition-based stats.
 Identities = 20/68 (29%), Positives = 33/68 (48%), Gaps = 7/68 (10%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G+ ++G VK V+     +DLG +  G +R  E         R  L+ GD V + + +V 
Sbjct: 450 KGQTVTGKVKTVDARGAEIDLGEDIVGYLRASEISRDRVEDARNVLKEGDEVTAVVVNVD 509

Query: 191 REQRGPQV 198
           R+ R  Q+
Sbjct: 510 RKTRNIQL 517


>gi|229815888|ref|ZP_04446212.1| hypothetical protein COLINT_02944 [Collinsella intestinalis DSM
           13280]
 gi|229808583|gb|EEP44361.1| hypothetical protein COLINT_02944 [Collinsella intestinalis DSM
           13280]
          Length = 752

 Score = 39.3 bits (91), Expect = 1.8,   Method: Composition-based stats.
 Identities = 31/153 (20%), Positives = 57/153 (37%), Gaps = 24/153 (15%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV------------EIQGRARE 415
           V + +A +L    F  ++ LA     +IA+ EG   + A             E+  R RE
Sbjct: 583 VGKSVAEVLAQR-FLTIDALAAASEEDIAACEGIGPKIAASVREFLSVSENLEVLQRLRE 641

Query: 416 YLEGID----ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
               ++      + +  +E GV  +L +   +D  +   L    +    D AG +   L 
Sbjct: 642 AGLALEENLGAAVAQAAQETGVDADLAAGQPLD-GLAFVLTGTLVNRTRDEAGAA---LK 697

Query: 472 GWSENKGGNIEKFDGFL---SSLGTPKDQVESM 501
                  G++ K   +L      G+   + ES+
Sbjct: 698 LLGAKVSGSVSKKTSYLVAGPKAGSKLTKAESL 730


>gi|260220854|emb|CBA28836.1| 30S ribosomal protein S1 [Curvibacter putative symbiont of Hydra
           magnipapillata]
          Length = 587

 Score = 39.3 bits (91), Expect = 1.8,   Method: Composition-based stats.
 Identities = 20/68 (29%), Positives = 33/68 (48%), Gaps = 7/68 (10%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G+ ++G VK V+     +DLG+   G +R  E         R  L+ GD V + + +V 
Sbjct: 479 KGQTVTGKVKTVDAKGAEIDLGDDILGYLRASEISRDRVEDARNVLKEGDEVTAVVVNVD 538

Query: 191 REQRGPQV 198
           R+ R  Q+
Sbjct: 539 RKTRNIQL 546



 Score = 38.1 bits (88), Expect = 3.4,   Method: Composition-based stats.
 Identities = 22/90 (24%), Positives = 38/90 (42%), Gaps = 10/90 (11%)

Query: 121 KVREAERDRQYLEFKDK----VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDE--TISR 173
           K+        + E   +     GE+I+  V R+E+  V+V+ G  S+  +  +E  +   
Sbjct: 28  KLMSESFAALFEESLQRSEMRTGEVITAEVVRIEHSFVVVNAGLKSEAYVPIEEFKSDKG 87

Query: 174 E-NLRPGDRVKSYIYDVRREQRGPQVLLSR 202
           E  ++ GD V   I  V         +LSR
Sbjct: 88  EIEVQVGDFVSVAIDSVENGYGDT--ILSR 115


>gi|300023832|ref|YP_003756443.1| ribosomal protein S1 [Hyphomicrobium denitrificans ATCC 51888]
 gi|299525653|gb|ADJ24122.1| ribosomal protein S1 [Hyphomicrobium denitrificans ATCC 51888]
          Length = 572

 Score = 39.3 bits (91), Expect = 1.8,   Method: Composition-based stats.
 Identities = 32/149 (21%), Positives = 55/149 (36%), Gaps = 13/149 (8%)

Query: 51  VEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVA 110
           V  N   G  ++     V         Q+ ++  RD  P   +       +  MD  R  
Sbjct: 122 VIFNKVKGGFTVDLDGAVA---FLPGSQVDIRPVRDIGPL--MHQQQPFQILKMDRRRGN 176

Query: 111 VQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDET 170
           +  +++ ++++ R  +R           G+II G VK +      +DLG  DG++   + 
Sbjct: 177 IVVSRRSVLEESRAEQRTEIVARLA--EGQIIDGLVKNITDYGAFIDLGGIDGLLHVTDM 234

Query: 171 I------SRENLRPGDRVKSYIYDVRREQ 193
                    E L  GD VK  I  +  E 
Sbjct: 235 AWRRVNHPSEILNVGDTVKVQIIRINPET 263


>gi|209875975|ref|XP_002139430.1| Rad51 protein [Cryptosporidium muris RN66]
 gi|209555036|gb|EEA05081.1| Rad51 protein, putative [Cryptosporidium muris RN66]
          Length = 351

 Score = 39.3 bits (91), Expect = 1.8,   Method: Composition-based stats.
 Identities = 19/93 (20%), Positives = 38/93 (40%), Gaps = 10/93 (10%)

Query: 326 QNVRLASQLTGW---TIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFA 382
            NV  +S +T +    ID  TE+  +   + +    +    + ++       LL   G+ 
Sbjct: 4   INVNSSSDVTEFISANIDENTEKNSNGPLKLEHLLSSGLTKRDLD-------LLRENGYH 56

Query: 383 DVEELACVKISEIASIEGFDEETAVEIQGRARE 415
            VE LA      +  I+G  E+   +I+   ++
Sbjct: 57  TVECLAYAPKRSLLCIKGISEQKCEKIKTACKD 89


>gi|325279173|ref|YP_004251715.1| RNA binding S1 domain-containing protein [Odoribacter splanchnicus
           DSM 20712]
 gi|324310982|gb|ADY31535.1| RNA binding S1 domain protein [Odoribacter splanchnicus DSM 20712]
          Length = 621

 Score = 39.3 bits (91), Expect = 1.8,   Method: Composition-based stats.
 Identities = 26/76 (34%), Positives = 46/76 (60%), Gaps = 5/76 (6%)

Query: 129 RQYLEFKDKVGE--IISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSY 185
           ++Y E   KVGE  ++ GTV  +    V+V++G  SDG+I  +E      L+ GD+V+ Y
Sbjct: 53  QKYAETLSKVGEKEVVEGTVISMNKREVVVNIGYKSDGIISLNEFRYNPELKVGDKVEVY 112

Query: 186 IYDVRREQRGPQVLLS 201
           + + + +++G Q+ LS
Sbjct: 113 V-ETQEDKKG-QLTLS 126


>gi|241764520|ref|ZP_04762540.1| ribosomal protein S1 [Acidovorax delafieldii 2AN]
 gi|241366056|gb|EER60660.1| ribosomal protein S1 [Acidovorax delafieldii 2AN]
          Length = 561

 Score = 39.3 bits (91), Expect = 1.8,   Method: Composition-based stats.
 Identities = 20/68 (29%), Positives = 33/68 (48%), Gaps = 7/68 (10%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G+ ++G VK V+     +DLG +  G +R  E         R  L+ GD V + + +V 
Sbjct: 450 KGQTVTGKVKTVDARGAEIDLGEDIVGYLRASEISRDRVEDARNVLKEGDEVTAVVVNVD 509

Query: 191 REQRGPQV 198
           R+ R  Q+
Sbjct: 510 RKTRNIQL 517


>gi|227499452|ref|ZP_03929563.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Anaerococcus
           tetradius ATCC 35098]
 gi|227218514|gb|EEI83757.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Anaerococcus
           tetradius ATCC 35098]
          Length = 687

 Score = 39.3 bits (91), Expect = 1.8,   Method: Composition-based stats.
 Identities = 32/214 (14%), Positives = 79/214 (36%), Gaps = 23/214 (10%)

Query: 24  RDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKV 83
           ++  ++ + DS++K         + I V+ +       +F  ++   +      +++ + 
Sbjct: 279 KEEFMNSLEDSLKKIYPKEIVKGTVIDVKDD------EVFVDIQFRADGIIKLDEMTEEE 332

Query: 84  ARDRDPSIDIGGVVS-DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEII 142
           A+D   S ++G  +    +   D       S ++V   KV +          K +  E++
Sbjct: 333 AKDPKNSFNVGDEIDVFVIKLDDGEGNVALSTRRVEGMKVWQELAQ------KAENDELV 386

Query: 143 SGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY-----IYDVRREQRGPQ 197
            G V     G + V++   +G +   +          +  K       +  +  ++R  +
Sbjct: 387 HGEVVSFNKGGLTVNVNGVNGFVPASQIA---TYFVKNFKKFVGEQWDLKIISIDERKNR 443

Query: 198 VLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSR 231
           ++LSR     + +       E+  G V    V+R
Sbjct: 444 LVLSRK--DVVEEELDNLWDELEEGQVVKGKVAR 475


>gi|219854800|ref|YP_002471922.1| hypothetical protein CKR_1457 [Clostridium kluyveri NBRC 12016]
 gi|219568524|dbj|BAH06508.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 640

 Score = 39.3 bits (91), Expect = 1.8,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 29/58 (50%), Gaps = 6/58 (10%)

Query: 141 IISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRRE 192
           ++ G V+R+      VD+   DG++   E          + L+ GD+++ YI DV RE
Sbjct: 483 VVEGEVRRLTDFGAFVDVQGVDGLLHVSELSWGRVNKPGDVLKIGDKIQVYILDVNRE 540


>gi|295395316|ref|ZP_06805520.1| 30S ribosomal protein S1 [Brevibacterium mcbrellneri ATCC 49030]
 gi|294971867|gb|EFG47738.1| 30S ribosomal protein S1 [Brevibacterium mcbrellneri ATCC 49030]
          Length = 488

 Score = 39.3 bits (91), Expect = 1.8,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GT+ +V+   V+VD+G  ++GVI   E          E +  GD +++ +    +
Sbjct: 39  GDIVEGTIVKVDRDEVLVDIGYKTEGVILSRELSIKHDVDPAEVVEVGDPIEALVL--TK 96

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 97  EDKDGRLMLS 106


>gi|284165727|ref|YP_003404006.1| poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit
           [Haloterrigena turkmenica DSM 5511]
 gi|284015382|gb|ADB61333.1| poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit
           [Haloterrigena turkmenica DSM 5511]
          Length = 530

 Score = 39.3 bits (91), Expect = 1.8,   Method: Composition-based stats.
 Identities = 11/73 (15%), Positives = 24/73 (32%)

Query: 341 IITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEG 400
           +    ++ ++        T        V +  A  L   G    E+L    ++E+A+  G
Sbjct: 455 VEEVTDEDVDAGSAIESETDDLTDLDGVGQAYADTLAEAGIETFEQLVDADVAELAAETG 514

Query: 401 FDEETAVEIQGRA 413
                  +   +A
Sbjct: 515 ISPSRIEDWIEQA 527



 Score = 38.5 bits (89), Expect = 2.8,   Method: Composition-based stats.
 Identities = 25/116 (21%), Positives = 42/116 (36%), Gaps = 19/116 (16%)

Query: 369 DEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKI 428
           DE I    V  G  DV+E    + +E   +   D +   E+     +    I+       
Sbjct: 427 DEEI----VERGEDDVQE----EPAEPGEM-NVDADVVEEVTDEDVDAGSAIESE----- 472

Query: 429 RELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
                +++L  + G+       L E GI+T E L    V +L   +      IE +
Sbjct: 473 -----TDDLTDLDGVGQAYADTLAEAGIETFEQLVDADVAELAAETGISPSRIEDW 523


>gi|226356064|ref|YP_002785804.1| excinuclease ABC subunit C [Deinococcus deserti VCD115]
 gi|226318054|gb|ACO46050.1| putative UvrABC system protein C (Excinuclease ABC, subunit C)
           [Deinococcus deserti VCD115]
          Length = 617

 Score = 39.3 bits (91), Expect = 1.8,   Method: Composition-based stats.
 Identities = 12/79 (15%), Positives = 28/79 (35%), Gaps = 1/79 (1%)

Query: 333 QLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKI 392
            L G   ++         + +  +     F     + +     L+   F  +E+LA   +
Sbjct: 526 MLIGVRDEVHNYAVTYHRKLRGQDMLRSVFDDLPGIGQKRRDALLEH-FTSLEDLAAAPV 584

Query: 393 SEIASIEGFDEETAVEIQG 411
            +IA++ G     A  ++ 
Sbjct: 585 EQIAAVPGMTTRAAQSVKT 603


>gi|148747154|ref|NP_058837.2| DNA polymerase beta [Rattus norvegicus]
 gi|585064|sp|P06766|DPOLB_RAT RecName: Full=DNA polymerase beta
 gi|640121|pdb|2BPF|A Chain A, Structures Of Ternary Complexes Of Rat Dna Polymerase
           Beta, A Dna Template-Primer, And Ddctp
 gi|640124|pdb|2BPG|A Chain A, Structures Of Ternary Complexes Of Rat Dna Polymerase
           Beta, A Dna Template-Primer, And Ddctp
 gi|640127|pdb|2BPG|B Chain B, Structures Of Ternary Complexes Of Rat Dna Polymerase
           Beta, A Dna Template-Primer, And Ddctp
 gi|14277831|pdb|1HUO|A Chain A, Crystal Structure Of Dna Polymerase Beta Complexed With
           Dna And Cr-Tmppcp
 gi|14277832|pdb|1HUO|B Chain B, Crystal Structure Of Dna Polymerase Beta Complexed With
           Dna And Cr-Tmppcp
 gi|14277837|pdb|1HUZ|A Chain A, Crystal Structure Of Dna Polymerase Complexed With Dna And
           Cr-Pcp
 gi|14277838|pdb|1HUZ|B Chain B, Crystal Structure Of Dna Polymerase Complexed With Dna And
           Cr-Pcp
 gi|157830424|pdb|1BPD|A Chain A, Crystal Structure Of Rat Dna Polymerase Beta: Evidence For
           A Common Polymerase Mechanism
 gi|71051051|gb|AAH98668.1| Polymerase (DNA directed), beta [Rattus norvegicus]
 gi|149057766|gb|EDM09009.1| rCG43201 [Rattus norvegicus]
          Length = 335

 Score = 39.3 bits (91), Expect = 1.8,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
            L + GIKT+EDL
Sbjct: 113 KLVDEGIKTLEDL 125


>gi|13541288|ref|NP_110976.1| DNA repair and recombination protein RadA [Thermoplasma volcanium
           GSS1]
 gi|20139594|sp|Q97BJ9|RADA_THEVO RecName: Full=DNA repair and recombination protein radA
 gi|14324671|dbj|BAB59598.1| cell cycle progression protein DMC1 [Thermoplasma volcanium GSS1]
          Length = 323

 Score = 39.3 bits (91), Expect = 1.8,   Method: Composition-based stats.
 Identities = 16/79 (20%), Positives = 33/79 (41%)

Query: 352 QKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
            ++  E+         V E  A  L   G+ D+  +A     +++ + G  E  A +I  
Sbjct: 4   NEENKEKKTTLEDLPGVGEATAEKLRENGYDDIMAIAVASPKDLSDVTGIGEGAAAKIIA 63

Query: 412 RAREYLEGIDITLQKKIRE 430
            AR++ +  +    ++I E
Sbjct: 64  AARKFADIGNFETGEEILE 82


>gi|14591093|ref|NP_143168.1| ski2-like helicase [Pyrococcus horikoshii OT3]
 gi|18202084|sp|O59025|HELS_PYRHO RecName: Full=Putative ski2-type helicase
 gi|3257700|dbj|BAA30383.1| 715aa long hypothetical protein [Pyrococcus horikoshii OT3]
          Length = 715

 Score = 39.3 bits (91), Expect = 1.8,   Method: Composition-based stats.
 Identities = 11/50 (22%), Positives = 20/50 (40%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
            M+   +    A  L   GF D+E +   + +E+  +EG   +    I  
Sbjct: 643 LMELPMIGRKRARALYNAGFRDLESIKNARPAELLEVEGIGAKIVEAILK 692


>gi|42566796|ref|NP_193202.2| NRPE7; DNA-directed RNA polymerase [Arabidopsis thaliana]
 gi|149944323|gb|ABR46204.1| At4g14660 [Arabidopsis thaliana]
 gi|332658072|gb|AEE83472.1| DNA-directed RNA polymerase II subunit G [Arabidopsis thaliana]
          Length = 178

 Score = 38.9 bits (90), Expect = 1.9,   Method: Composition-based stats.
 Identities = 25/112 (22%), Positives = 42/112 (37%), Gaps = 27/112 (24%)

Query: 108 RVAVQSAKQVIIQKVREAERDRQY------LEFKDKVGEIISGTVKRVEYGNVIVDLGNS 161
            VAV +  ++   K+RE   +  +      + FK   GEII G V +V    V +  G  
Sbjct: 49  YVAVTTLDKIGEGKIREHTGEVLFPVMFSGMTFKIFKGEIIHGVVHKVLKHGVFMRCGPI 108

Query: 162 DGV------IRRDETISREN----------LRPGDRVKSYI-----YDVRRE 192
           + V      +   + I  EN          ++    V+  +      +V RE
Sbjct: 109 ENVYLSYTKMPDYKYIPGENPIFMNEKTSRIQVETTVRVVVIGIKWMEVERE 160


>gi|206278|gb|AAA41901.1| DNA polymerase beta [Rattus norvegicus]
 gi|1055330|gb|AAB00389.1| high molecular weight DNA polymerase beta [Rattus norvegicus]
          Length = 335

 Score = 38.9 bits (90), Expect = 1.9,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
            L + GIKT+EDL
Sbjct: 113 KLVDEGIKTLEDL 125


>gi|320580957|gb|EFW95179.1| DNA repair protein Rad51 [Pichia angusta DL-1]
          Length = 369

 Score = 38.9 bits (90), Expect = 1.9,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 20/49 (40%)

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
            +       L   GF  VE +A      I +++G  E+ A ++   A +
Sbjct: 54  GITPQDIKKLKEAGFHTVESIAYTPKRHIVTVKGISEQKADKLLMEASK 102


>gi|153954192|ref|YP_001394957.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding
           domain protein [Clostridium kluyveri DSM 555]
 gi|146347073|gb|EDK33609.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase-related protein
           [Clostridium kluyveri DSM 555]
          Length = 637

 Score = 38.9 bits (90), Expect = 1.9,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 29/58 (50%), Gaps = 6/58 (10%)

Query: 141 IISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRRE 192
           ++ G V+R+      VD+   DG++   E          + L+ GD+++ YI DV RE
Sbjct: 480 VVEGEVRRLTDFGAFVDVQGVDGLLHVSELSWGRVNKPGDVLKIGDKIQVYILDVNRE 537


>gi|32250967|gb|AAP74362.1| DNA repair protein Rad51 [Pichia angusta]
          Length = 369

 Score = 38.9 bits (90), Expect = 1.9,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 20/49 (40%)

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
            +       L   GF  VE +A      I +++G  E+ A ++   A +
Sbjct: 54  GITPQDIKKLKEAGFHTVESIAYTPKRHIVTVKGISEQKADKLLMEASK 102


>gi|16605546|emb|CAC86603.1| Rad51A protein [Physcomitrella patens]
 gi|16605577|emb|CAC82996.1| Rad51A protein [Physcomitrella patens]
          Length = 342

 Score = 38.9 bits (90), Expect = 1.9,   Method: Composition-based stats.
 Identities = 14/95 (14%), Positives = 34/95 (35%), Gaps = 6/95 (6%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAI---NVDEIIAHLLVAEGFADVEELACVKISEIASIE 399
           TE   +    ++      + ++ +    +  +    L   GF  VE +A     ++  I+
Sbjct: 8   TEGVTTSAATEEEVHHGPYLVEQLQNCGISSLDLKKLKDAGFCTVESVAYSAKKDLVLIK 67

Query: 400 GFDEETAVEIQGRAREYLE---GIDITLQKKIREL 431
           G  +    +I   A + +         + ++  EL
Sbjct: 68  GLSDAKVDKIIEAATKLVPMGFTSAKQMHEQRAEL 102


>gi|148688331|gb|EDL20278.1| mCG128467, isoform CRA_b [Mus musculus]
          Length = 1066

 Score = 38.9 bits (90), Expect = 1.9,   Method: Composition-based stats.
 Identities = 20/81 (24%), Positives = 29/81 (35%), Gaps = 7/81 (8%)

Query: 362  FMQAINVDEIIAHLLVAEGFADVEELACVKISEIAS-IEGFDEETAVEIQGRAREYLEGI 420
             M+   V E  A  L   G+  +  LA      +   I+      A +I   A+  L   
Sbjct: 968  LMEVTGVLEGRAKQLYNAGYRSIMHLANANPEVLVKTIDHLSRRQARQIVSSAKMLLHEK 1027

Query: 421  DITLQKKIRELGVSEELCSIP 441
               LQ      G +EEL  +P
Sbjct: 1028 AEALQ------GEAEELLRLP 1042


>gi|52139047|gb|AAH82601.1| Helicase, mus308-like (Drosophila) [Mus musculus]
          Length = 1069

 Score = 38.9 bits (90), Expect = 1.9,   Method: Composition-based stats.
 Identities = 20/81 (24%), Positives = 29/81 (35%), Gaps = 7/81 (8%)

Query: 362  FMQAINVDEIIAHLLVAEGFADVEELACVKISEIAS-IEGFDEETAVEIQGRAREYLEGI 420
             M+   V E  A  L   G+  +  LA      +   I+      A +I   A+  L   
Sbjct: 971  LMEVTGVLEGRAKQLYNAGYRSIMHLANANPEVLVKTIDHLSRRQARQIVSSAKMLLHEK 1030

Query: 421  DITLQKKIRELGVSEELCSIP 441
               LQ      G +EEL  +P
Sbjct: 1031 AEALQ------GEAEELLRLP 1045


>gi|313227586|emb|CBY22733.1| unnamed protein product [Oikopleura dioica]
          Length = 6995

 Score = 38.9 bits (90), Expect = 1.9,   Method: Composition-based stats.
 Identities = 32/200 (16%), Positives = 65/200 (32%), Gaps = 25/200 (12%)

Query: 340  DIITEEEDSINRQKDFNERTQFFM-QAINVDEIIAHLLVAEGF----ADVE---ELACVK 391
            D++       ++ K   +       +  ++ + IA +   E F      VE   +L+  +
Sbjct: 6177 DLMASANLEASQIKLATDSIDIHQSEITDLAQNIAEI---EMFKQMQQSVENNDDLSRAE 6233

Query: 392  ISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVAL 451
              ++        E A   + RARE  +      + ++R+           G+       +
Sbjct: 6234 KDKLLR------ELAEA-RQRARENADAARQRQKDRLRDRLAQRRGLVERGMSISEADKI 6286

Query: 452  -----GENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMIIH-A 505
                   NG    EDLA    ++ L  +  K    E     L          + +I    
Sbjct: 6287 LDDIHESNGTSEEEDLAILPDNEELKDNMLKSAEEEARRQALEE-NLDPSDADKLIQEHL 6345

Query: 506  RYKMGWIEKEKVADEEVQDA 525
            R      + E +  ++ +DA
Sbjct: 6346 RKAQDLYDSEALKKQQERDA 6365


>gi|187734759|ref|YP_001876871.1| ribosomal protein S1 [Akkermansia muciniphila ATCC BAA-835]
 gi|187424811|gb|ACD04090.1| ribosomal protein S1 [Akkermansia muciniphila ATCC BAA-835]
          Length = 562

 Score = 38.9 bits (90), Expect = 1.9,   Method: Composition-based stats.
 Identities = 32/134 (23%), Positives = 55/134 (41%), Gaps = 14/134 (10%)

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           V  E      Q+ +   RD +  +  G V    +  ++  R  +  +++ +I    EAER
Sbjct: 119 VGVEAFLPGSQVDIIPPRDLNEYV--GKVYEFKIVKVNDDRKNIVLSRREVI----EAER 172

Query: 128 DRQYLEFKD--KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPG 179
             Q   F +  K G+ + G VK +      VDL   DG++   +          E L  G
Sbjct: 173 ADQRQRFLETVKEGDKVEGIVKNITDFGAFVDLRGMDGLLHITDMSWGRVNHPSEMLHIG 232

Query: 180 DRVKSYIYDVRREQ 193
             ++  I +V RE+
Sbjct: 233 QSLEVVILEVDREK 246



 Score = 37.7 bits (87), Expect = 4.8,   Method: Composition-based stats.
 Identities = 16/68 (23%), Positives = 37/68 (54%), Gaps = 3/68 (4%)

Query: 128 DRQYLEFKD-KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSY 185
           +    +F++ + G I++GT++ +    V+VD+G  S+G I   E    E +  GD+++  
Sbjct: 8   ELIDSKFRELREGSIVTGTIQEIRPQVVLVDIGYKSEGAISISE-FEDEEIEVGDQIEVL 66

Query: 186 IYDVRREQ 193
           +  +  ++
Sbjct: 67  LERLENDE 74


>gi|156098342|ref|XP_001615203.1| DNA repair protein RAD51 [Plasmodium vivax SaI-1]
 gi|148804077|gb|EDL45476.1| DNA repair protein RAD51, putative [Plasmodium vivax]
          Length = 350

 Score = 38.9 bits (90), Expect = 1.9,   Method: Composition-based stats.
 Identities = 11/42 (26%), Positives = 21/42 (50%)

Query: 374 HLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
            LL   G   VE +A   +  + +I+G  E+ A +++   +E
Sbjct: 49  ELLKEGGLQTVECVAYAPMRTLCAIKGISEQKAEKLKKACKE 90


>gi|315038198|ref|YP_004031766.1| 30S ribosomal protein S1 [Lactobacillus amylovorus GRL 1112]
 gi|325956650|ref|YP_004292062.1| 30S ribosomal protein S1 [Lactobacillus acidophilus 30SC]
 gi|312276331|gb|ADQ58971.1| 30S ribosomal protein S1 [Lactobacillus amylovorus GRL 1112]
 gi|325333215|gb|ADZ07123.1| 30S ribosomal protein S1 [Lactobacillus acidophilus 30SC]
 gi|327183475|gb|AEA31922.1| 30S ribosomal protein S1 [Lactobacillus amylovorus GRL 1118]
          Length = 403

 Score = 38.9 bits (90), Expect = 1.9,   Method: Composition-based stats.
 Identities = 34/167 (20%), Positives = 63/167 (37%), Gaps = 35/167 (20%)

Query: 119 IQKVREAERDRQYLEFKDK--VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI----- 171
            + + E ER+  + +   +  VG++I G V R+      +D+G  DG++   E       
Sbjct: 176 HKDLVEEEREEAFDKVASQLVVGDVIEGKVSRLTNFGAFIDVGGVDGLVHISEISYKHVD 235

Query: 172 -SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVK---------LFHMEV----- 216
              + L+ G  VK  +  +  ++    + + +T P    +         +F  EV     
Sbjct: 236 KPSDALKAGQDVKVKVIGIDNDRHRISLSIKQTEPSPFEQATANLNEGDVFEGEVKSLTN 295

Query: 217 ----PEIYNGIVQVKAVSRD-------PGSRAKLA--VFSSDSSIDP 250
                E+ +GI  +  VS         P    K+   V     +IDP
Sbjct: 296 FGAFVEVADGIQGLVHVSEISNKHVDKPSDVLKVGQTVKVKVLNIDP 342


>gi|312079928|ref|XP_003142383.1| hypothetical protein LOAG_06799 [Loa loa]
 gi|307762450|gb|EFO21684.1| hypothetical protein LOAG_06799 [Loa loa]
          Length = 440

 Score = 38.9 bits (90), Expect = 1.9,   Method: Composition-based stats.
 Identities = 30/180 (16%), Positives = 61/180 (33%), Gaps = 40/180 (22%)

Query: 250 PVGACVGMRGSRVQAVVTELR---------------DEKI--------------DIVVWS 280
            VGA +G  G  ++ + +E                 +E+I              D+++  
Sbjct: 44  AVGALIGKGGETMRNLKSESGCRLQMSKNQEVYPGTNERICLVKGKIASVLKVSDVIL-- 101

Query: 281 PDSATFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID 340
                 V N   P+ +      E    ++++VP     + IG+ G  ++   + TG  I 
Sbjct: 102 EKIREKVDNN-TPSDIFDHKGMERKNEMKLVVPNTSAGMVIGKSGARIKEIREQTGANIQ 160

Query: 341 IITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEG 400
           +  +      +       T    Q    DE++   L       +E++A      +A+I  
Sbjct: 161 VYPKAGSQEAKVSQERIITIAAEQ----DEVLMDALQRV----LEKVAADPQHAMATIPD 212


>gi|225873902|ref|YP_002755361.1| ribosomal protein S1 [Acidobacterium capsulatum ATCC 51196]
 gi|225793852|gb|ACO33942.1| ribosomal protein S1 [Acidobacterium capsulatum ATCC 51196]
          Length = 637

 Score = 38.9 bits (90), Expect = 1.9,   Method: Composition-based stats.
 Identities = 23/113 (20%), Positives = 51/113 (45%), Gaps = 8/113 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           R+    IG  +   +  ++  R  V  +++ I+++ + A+R       +   G I++GTV
Sbjct: 225 RNLDAYIGQPIEVRVIKLNKKRGNVVVSRKEILEEEQTAKRSETLEHLE--EGSILTGTV 282

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           K +      VD+G  DG++   +         R+ +  GD ++  +    R++
Sbjct: 283 KNLTDYGAFVDMGGIDGLLHITDMSWGRLTHPRDLVNVGDEIQVKVLKFDRDK 335


>gi|124487403|ref|NP_001074576.1| helicase POLQ-like [Mus musculus]
 gi|123792912|sp|Q2VPA6|HELQ_MOUSE RecName: Full=Helicase POLQ-like; AltName: Full=Mus308-like helicase;
            AltName: Full=POLQ-like helicase
 gi|115344367|gb|AAI09171.2| Helicase, mus308-like (Drosophila) [Mus musculus]
          Length = 1069

 Score = 38.9 bits (90), Expect = 1.9,   Method: Composition-based stats.
 Identities = 20/81 (24%), Positives = 29/81 (35%), Gaps = 7/81 (8%)

Query: 362  FMQAINVDEIIAHLLVAEGFADVEELACVKISEIAS-IEGFDEETAVEIQGRAREYLEGI 420
             M+   V E  A  L   G+  +  LA      +   I+      A +I   A+  L   
Sbjct: 971  LMEVTGVLEGRAKQLYNAGYRSIMHLANANPEVLVKTIDHLSRRQARQIVSSAKMLLHEK 1030

Query: 421  DITLQKKIRELGVSEELCSIP 441
               LQ      G +EEL  +P
Sbjct: 1031 AEALQ------GEAEELLRLP 1045


>gi|218778787|ref|YP_002430105.1| ribosomal protein S1 [Desulfatibacillum alkenivorans AK-01]
 gi|218760171|gb|ACL02637.1| ribosomal protein S1 [Desulfatibacillum alkenivorans AK-01]
          Length = 616

 Score = 38.9 bits (90), Expect = 1.9,   Method: Composition-based stats.
 Identities = 21/78 (26%), Positives = 39/78 (50%), Gaps = 8/78 (10%)

Query: 130 QYLEFKDK--VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRE---NLRPGDRVK 183
            Y E   +   GE+++G + +++   V+VD+G  S+G+I   E I  +       GD V+
Sbjct: 60  LYEESFKRFEEGEVVTGKIIQIDKDYVLVDIGYKSEGLIPIREFIEPDGTVAAEIGDEVE 119

Query: 184 SYIYDVRREQRGPQVLLS 201
             +  +  E  G  V++S
Sbjct: 120 VMVERLDSEDEG--VMVS 135



 Score = 38.9 bits (90), Expect = 2.4,   Method: Composition-based stats.
 Identities = 29/125 (23%), Positives = 53/125 (42%), Gaps = 10/125 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ L+  RD D    +G V +  +   +  R  +  +++VI++K RE +R       
Sbjct: 181 PGSQVDLRPVRDLDS--MVGKVFTFKVLKYNRKRSNIVLSRRVILEKEREEQRSSTLQNI 238

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
               G+++ G VK +    V VDLG  DG++   +          E    G  +   + D
Sbjct: 239 --HEGKVVEGVVKNITEYGVFVDLGGIDGLLHITDISWGRVKHPSELFGVGQTITVKVLD 296

Query: 189 VRREQ 193
           +  E+
Sbjct: 297 LDLER 301


>gi|114328686|ref|YP_745843.1| 30S ribosomal protein S1 [Granulibacter bethesdensis CGDNIH1]
 gi|114316860|gb|ABI62920.1| SSU ribosomal protein S1P [Granulibacter bethesdensis CGDNIH1]
          Length = 571

 Score = 38.9 bits (90), Expect = 1.9,   Method: Composition-based stats.
 Identities = 24/68 (35%), Positives = 39/68 (57%), Gaps = 6/68 (8%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETIS---RENLRPGDRVKSYIYDVRREQR 194
           G ++SG V R++   VIVD+G  S+G +   E      + +++PGD V+ Y+   R E R
Sbjct: 32  GSVVSGRVLRIDPEFVIVDVGLKSEGRVALKEFGPPGQKPDVKPGDVVELYVE--RYEDR 89

Query: 195 GPQVLLSR 202
              ++LSR
Sbjct: 90  DGSIVLSR 97


>gi|317470865|ref|ZP_07930246.1| hypothetical protein HMPREF1011_00593 [Anaerostipes sp. 3_2_56FAA]
 gi|316901692|gb|EFV23625.1| hypothetical protein HMPREF1011_00593 [Anaerostipes sp. 3_2_56FAA]
          Length = 189

 Score = 38.9 bits (90), Expect = 2.0,   Method: Composition-based stats.
 Identities = 19/98 (19%), Positives = 39/98 (39%), Gaps = 4/98 (4%)

Query: 336 GWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEI 395
           G  + I   +E    ++++ +  +Q       + + IA  L A G   V++L      E+
Sbjct: 84  GLRVQINNLKEYGKRQKQENSSGSQDLQTVPGIGKRIAQHLNAIGIYCVDDLKGRDPEEL 143

Query: 396 ASIE----GFDEETAVEIQGRAREYLEGIDITLQKKIR 429
            S++    GF E+       R   Y    +    +K++
Sbjct: 144 YSMDCIQKGFTEDRCELYVFRCAVYYAEHEEHDPEKLK 181



 Score = 38.5 bits (89), Expect = 3.1,   Method: Composition-based stats.
 Identities = 20/85 (23%), Positives = 34/85 (40%), Gaps = 3/85 (3%)

Query: 403 EETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDL 462
           EE A  ++ +     E      Q+       S++L ++PGI  +I   L   GI  ++DL
Sbjct: 79  EENAAGLRVQINNLKEYGKRQKQENSSG---SQDLQTVPGIGKRIAQHLNAIGIYCVDDL 135

Query: 463 AGCSVDDLLGWSENKGGNIEKFDGF 487
            G   ++L      + G  E     
Sbjct: 136 KGRDPEELYSMDCIQKGFTEDRCEL 160


>gi|312136410|ref|YP_004003747.1| DNA repair and recombination protein rada [Methanothermus fervidus
           DSM 2088]
 gi|311224129|gb|ADP76985.1| DNA repair and recombination protein RadA [Methanothermus fervidus
           DSM 2088]
          Length = 311

 Score = 38.9 bits (90), Expect = 2.0,   Method: Composition-based stats.
 Identities = 15/54 (27%), Positives = 21/54 (38%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
                NV +  A  L   GF D+  +A     E+A      E  A +I   AR+
Sbjct: 4   LENLPNVGQKTAKKLRDAGFGDIMRIATATPKELAVKAEIGEGIAEKIIAAARK 57


>gi|329847165|ref|ZP_08262193.1| ribosomal protein S1 [Asticcacaulis biprosthecum C19]
 gi|328842228|gb|EGF91797.1| ribosomal protein S1 [Asticcacaulis biprosthecum C19]
          Length = 562

 Score = 38.9 bits (90), Expect = 2.0,   Method: Composition-based stats.
 Identities = 21/92 (22%), Positives = 38/92 (41%), Gaps = 8/92 (8%)

Query: 108 RVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRR 167
           R  +  +++ I+++ R  +R     +     GEI  G VK +      VDLG  DG++  
Sbjct: 167 RGNIVVSRRAILEEARAEQRTELVGQLA--EGEIRDGVVKNITDYGAFVDLGGIDGLLHV 224

Query: 168 DETI------SRENLRPGDRVKSYIYDVRREQ 193
            +          + L  GD V+  I  +  + 
Sbjct: 225 TDMSWKRVSHPSQVLNVGDAVRVQIIKINPDT 256


>gi|313901827|ref|ZP_07835249.1| RNA binding S1 domain protein [Thermaerobacter subterraneus DSM
           13965]
 gi|313467909|gb|EFR63401.1| RNA binding S1 domain protein [Thermaerobacter subterraneus DSM
           13965]
          Length = 558

 Score = 38.9 bits (90), Expect = 2.0,   Method: Composition-based stats.
 Identities = 21/70 (30%), Positives = 35/70 (50%), Gaps = 8/70 (11%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
            G++ +G VK +      +DLG  DG++   E         R+ L+ GD ++  +  V R
Sbjct: 345 EGQVRTGVVKGLTDFGAFIDLGGVDGLLHVSEMHWGRIDHPRDLLKEGDTIQVKVLKVDR 404

Query: 192 EQRGPQVLLS 201
           E RG ++ LS
Sbjct: 405 E-RG-RISLS 412


>gi|312869066|ref|ZP_07729240.1| putative ribosomal protein S1 [Lactobacillus oris PB013-T2-3]
 gi|311095312|gb|EFQ53582.1| putative ribosomal protein S1 [Lactobacillus oris PB013-T2-3]
          Length = 413

 Score = 38.9 bits (90), Expect = 2.0,   Method: Composition-based stats.
 Identities = 20/106 (18%), Positives = 43/106 (40%), Gaps = 8/106 (7%)

Query: 94  GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN 153
           G  +   +  ++     +  + + I++   E   ++ + E +   G+++ G V R+    
Sbjct: 159 GQELEFKIIEIEPSENRLILSHKEIVKAEHEQAAEKIFAELQP--GDVVEGKVARMTNFG 216

Query: 154 VIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
             VDLG  DG++   E          + L  G  VK  +  V  ++
Sbjct: 217 AFVDLGGVDGLVHVSEISYDHVDKPSDVLSAGQDVKVKVLSVDPDR 262


>gi|217967981|ref|YP_002353487.1| PHP domain protein [Dictyoglomus turgidum DSM 6724]
 gi|217337080|gb|ACK42873.1| PHP domain protein [Dictyoglomus turgidum DSM 6724]
          Length = 580

 Score = 38.9 bits (90), Expect = 2.0,   Method: Composition-based stats.
 Identities = 31/127 (24%), Positives = 53/127 (41%), Gaps = 27/127 (21%)

Query: 339 IDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASI 398
           ++I  E +  I   ++   R +      N+ E I   L  +G             ++  I
Sbjct: 17  LEIKGENKYKIAAYQEAARRIE------NLPEDI-ERLFKQG-------------KLYQI 56

Query: 399 EGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSE--ELCSIPGIDSKIKVAL-GENG 455
           +G  E    +I    +EYL    ++  +++R+    E  EL  IPGI  K+   L  E G
Sbjct: 57  KGIGESIGQKI----KEYLTTGKVSYLEELRKEIPPEILELLKIPGIGPKLAYRLYAELG 112

Query: 456 IKTMEDL 462
           IK ++ L
Sbjct: 113 IKDIDSL 119


>gi|291545887|emb|CBL18995.1| Ribosomal protein S1 [Ruminococcus sp. SR1/5]
          Length = 358

 Score = 38.9 bits (90), Expect = 2.0,   Method: Composition-based stats.
 Identities = 33/159 (20%), Positives = 61/159 (38%), Gaps = 30/159 (18%)

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ------KV 122
           V +V +    ++++ AR   P+  +           D  + A Q  + VI +      ++
Sbjct: 114 VTQVLDGGLCVNVEEARVFIPASLVSDTYE-----KDLSKYADQEIEFVITEFNPRRRRI 168

Query: 123 REAERDRQYLEFKDK---------VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI-- 171
               +     E  +K         VG+ + G VK V      +DLG +DG++   E    
Sbjct: 169 IGNRKQLLLAEKAEKQKELLAKINVGDKVEGVVKNVTDFGAFIDLGGADGLLHISEMSWG 228

Query: 172 ----SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQ 206
                ++    GD+V   I D+     G ++ LS   P+
Sbjct: 229 RVENPKKVFNVGDKVTVLIKDI----NGDKIALSLKFPE 263


>gi|207108733|ref|ZP_03242895.1| 30S ribosomal protein S1 [Helicobacter pylori HPKX_438_CA4C1]
          Length = 283

 Score = 38.9 bits (90), Expect = 2.0,   Method: Composition-based stats.
 Identities = 21/104 (20%), Positives = 38/104 (36%), Gaps = 14/104 (13%)

Query: 100 PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG 159
             P + + +   Q   Q I  K+ E   +            II G +     G  IV+  
Sbjct: 92  EHPSVSYKKAISQ---QKIQAKIEELGEN--------YENAIIEGKIVGKNKGGYIVESQ 140

Query: 160 NSDGVIRRDET-ISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
             +  + R  + +  +    G R+K+ I  V +E     + +SR
Sbjct: 141 GVEYFLSRSHSSLKNDANHIGKRIKACIIRVDKENH--SINISR 182


>gi|119719925|ref|YP_920420.1| DNA repair and recombination protein RadA [Thermofilum pendens Hrk
           5]
 gi|119525045|gb|ABL78417.1| DNA repair and recombination protein RadA [Thermofilum pendens Hrk
           5]
          Length = 358

 Score = 38.9 bits (90), Expect = 2.0,   Method: Composition-based stats.
 Identities = 25/103 (24%), Positives = 42/103 (40%), Gaps = 14/103 (13%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
                 V  I A  L A GF  V +LA     E+A + G  EE A+ I   A    + + 
Sbjct: 50  LEDLEGVGRITAQKLRAAGFYTVRDLAFASAHELALVLG-SEERAMAIIRSA----QRLV 104

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAG 464
              ++ I    + E+  +I  I +         G+++++DL  
Sbjct: 105 NRGEEFITAKTLFEKRKNIEYIST---------GVRSLDDLLE 138


>gi|86606941|ref|YP_475704.1| hypothetical protein CYA_2313 [Synechococcus sp. JA-3-3Ab]
 gi|86555483|gb|ABD00441.1| conserved hypothetical protein [Synechococcus sp. JA-3-3Ab]
          Length = 527

 Score = 38.9 bits (90), Expect = 2.0,   Method: Composition-based stats.
 Identities = 12/46 (26%), Positives = 21/46 (45%)

Query: 375 LLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
           LL   G   +E LA  ++  + +I       A+++Q +AR  L   
Sbjct: 272 LLQEAGIHSIEALANARLEMLQAIPKLGAGVALQLQLQARATLSRK 317


>gi|254573234|ref|XP_002493726.1| Transcription elongation factor [Pichia pastoris GS115]
 gi|238033525|emb|CAY71547.1| Transcription elongation factor [Pichia pastoris GS115]
 gi|328354449|emb|CCA40846.1| Transcription elongation factor SPT6 [Pichia pastoris CBS 7435]
          Length = 1500

 Score = 38.9 bits (90), Expect = 2.0,   Method: Composition-based stats.
 Identities = 27/126 (21%), Positives = 43/126 (34%), Gaps = 21/126 (16%)

Query: 98   SDPLPPMDFGRVAVQSAKQVIIQKVREAERD-RQYLE---FKD---------KVGEIISG 144
                      R  +Q  K+ +  + RE  RD     E   F+          + G +I  
Sbjct: 1111 ELERKHQLKKRSTLQIIKEELQSRYREIRRDFHILNEAEIFQLLTRETVDSFRKGMVIPV 1170

Query: 145  TVKRVEYGNVIV--------DLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
             V++VE   + V        ++   D +   D    RE    G  V++ I DV       
Sbjct: 1171 YVRKVESSYMSVSTQSLIAGNIQRQDILEPNDRRDPREVYSVGQTVRACILDVDYYNFKC 1230

Query: 197  QVLLSR 202
            Q+ L R
Sbjct: 1231 QLSLLR 1236


>gi|206276|gb|AAA41900.1| polymerase beta [Rattus norvegicus]
          Length = 318

 Score = 38.9 bits (90), Expect = 2.0,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 40  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAAR 95

Query: 450 ALGENGIKTMEDL 462
            L + GIKT+EDL
Sbjct: 96  KLVDEGIKTLEDL 108


>gi|319956088|ref|YP_004167351.1| SSU ribosomal protein s1p [Nitratifractor salsuginis DSM 16511]
 gi|319418492|gb|ADV45602.1| SSU ribosomal protein S1P [Nitratifractor salsuginis DSM 16511]
          Length = 556

 Score = 38.9 bits (90), Expect = 2.0,   Method: Composition-based stats.
 Identities = 19/75 (25%), Positives = 36/75 (48%), Gaps = 10/75 (13%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI-------SRENLRPGDRVKSYIYDV 189
           VG+ ++ TV  +E   V VDLG + +  +   E          ++ L  GD +   + ++
Sbjct: 283 VGDTVTATVSNIEPYGVFVDLGEDLEAFLHVSEISWDKNVKHPKDFLNVGDEIDVEVIEI 342

Query: 190 RREQRGPQVLLSRTH 204
            RE+R  ++ +SR  
Sbjct: 343 DREKR--RLRVSRKS 355



 Score = 38.5 bits (89), Expect = 2.5,   Method: Composition-based stats.
 Identities = 35/198 (17%), Positives = 69/198 (34%), Gaps = 45/198 (22%)

Query: 42  LYGTMSDIRV-EINPETGDISL------------FRLLEVVEE--------VEN------ 74
             G   D+ V EI+ E   + +            F     V +        V +      
Sbjct: 330 NVGDEIDVEVIEIDREKRRLRVSRKSLLPKPMEEFAQKHRVGDIVTGTVSSVTDFGAFVR 389

Query: 75  ---------YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
                    +  + S   ++      ++G  V   +  +D       + K  + +K  E 
Sbjct: 390 LDGGVEGLLHNQEASWDKSKRAKDLFNVGDEVEVKIIKIDTD-----AGKISLSKKALEK 444

Query: 126 ERDRQYLEFKDKVGEIISGTVK-RVEYGNVIVDLGNSDGVIRRDETISR--ENLRPGDRV 182
                + E + KVG+I++GTVK + ++G  I    N D +IR ++      + +  G  +
Sbjct: 445 SPVETFAE-EHKVGDIVTGTVKDKKDFGVFIALDDNVDALIRTEDLAPLNFDEIERGQEI 503

Query: 183 KSYIYDVRREQRGPQVLL 200
           K  I  +       +V +
Sbjct: 504 KGVITHIDPRNDRIRVSV 521


>gi|319762547|ref|YP_004126484.1| ribosomal protein s1 [Alicycliphilus denitrificans BC]
 gi|330824564|ref|YP_004387867.1| 50S ribosomal protein S1 [Alicycliphilus denitrificans K601]
 gi|317117108|gb|ADU99596.1| ribosomal protein S1 [Alicycliphilus denitrificans BC]
 gi|329309936|gb|AEB84351.1| ribosomal protein S1 [Alicycliphilus denitrificans K601]
          Length = 561

 Score = 38.9 bits (90), Expect = 2.0,   Method: Composition-based stats.
 Identities = 22/68 (32%), Positives = 33/68 (48%), Gaps = 7/68 (10%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G+ +SG VK V+     +DLGN   G +R  E         R  L+ GD V + + +V 
Sbjct: 450 KGQTVSGKVKTVDARGAEIDLGNDIVGYLRASEISRDRVEDARNVLKEGDEVTAVVVNVD 509

Query: 191 REQRGPQV 198
           R+ R  Q+
Sbjct: 510 RKTRNIQL 517


>gi|241651548|ref|XP_002411283.1| conserved hypothetical protein [Ixodes scapularis]
 gi|215503913|gb|EEC13407.1| conserved hypothetical protein [Ixodes scapularis]
          Length = 610

 Score = 38.9 bits (90), Expect = 2.0,   Method: Composition-based stats.
 Identities = 17/56 (30%), Positives = 30/56 (53%)

Query: 307 RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFF 362
           R+E+ VP  Q+   IG+ GQ VR   +LT   I +  E +++ + +   +   +FF
Sbjct: 521 RVEIFVPSNQVGRIIGKGGQTVRELQRLTRALIKLPDESQNANSEETPVHILGEFF 576


>gi|148643393|ref|YP_001273906.1| DNA repair and recombination protein RadA [Methanobrevibacter
           smithii ATCC 35061]
 gi|222445636|ref|ZP_03608151.1| hypothetical protein METSMIALI_01276 [Methanobrevibacter smithii
           DSM 2375]
 gi|166218764|sp|A5UMW0|RADA_METS3 RecName: Full=DNA repair and recombination protein radA
 gi|148552410|gb|ABQ87538.1| DNA repair protein RadA, RadA [Methanobrevibacter smithii ATCC
           35061]
 gi|222435201|gb|EEE42366.1| hypothetical protein METSMIALI_01276 [Methanobrevibacter smithii
           DSM 2375]
          Length = 311

 Score = 38.9 bits (90), Expect = 2.0,   Method: Composition-based stats.
 Identities = 15/54 (27%), Positives = 22/54 (40%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
                +V E  A  L   GFAD+  LA     E++      E  A ++   AR+
Sbjct: 4   LEDLPSVGEKTAEKLRDAGFADMMRLATATPKELSVKAEIGEGVAEKVIEAARK 57


>gi|169844731|ref|XP_001829086.1| U3 snoRNP-associated protein Rrp5 [Coprinopsis cinerea
           okayama7#130]
 gi|116509826|gb|EAU92721.1| U3 snoRNP-associated protein Rrp5 [Coprinopsis cinerea
           okayama7#130]
          Length = 1462

 Score = 38.9 bits (90), Expect = 2.0,   Method: Composition-based stats.
 Identities = 30/117 (25%), Positives = 48/117 (41%), Gaps = 17/117 (14%)

Query: 130 QYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDE------TISRENLRPGDRV 182
           Q  +FK   GEI+ GT+K V    + V L GN DGVI  +              +PG+ +
Sbjct: 513 QLEDFKP--GEIVKGTIKSVSDSAIFVSLSGNIDGVIWPNHFADIRLKHPTRRFKPGNPI 570

Query: 183 KSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           K  +  V  +++       R        L   ++P I + +  VK  +   G   K+
Sbjct: 571 KCKVLVVDSDRK-------RISLTAKKTLLESDLP-IVSNVGDVKVGTVTHGVIFKV 619


>gi|227495256|ref|ZP_03925572.1| 30S ribosomal protein S1 [Actinomyces coleocanis DSM 15436]
 gi|226831708|gb|EEH64091.1| 30S ribosomal protein S1 [Actinomyces coleocanis DSM 15436]
          Length = 481

 Score = 38.9 bits (90), Expect = 2.0,   Method: Composition-based stats.
 Identities = 25/96 (26%), Positives = 52/96 (54%), Gaps = 9/96 (9%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDV 189
           K G+I+ GTV +V++  V++D+G  ++GVI   E          + ++ GD+V++ +   
Sbjct: 33  KEGDIVEGTVVKVDHDEVLLDIGYKTEGVILSRELSIKHDIAPEDIVKIGDKVEALVL-- 90

Query: 190 RREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           + E +  ++LLS+   Q+      +E  +  +G+V 
Sbjct: 91  QMEDKEGRLLLSKKRAQYERAWGTIEKVKEEDGVVT 126


>gi|254168995|ref|ZP_04875834.1| Anticodon-binding domain family [Aciduliprofundum boonei T469]
 gi|197622101|gb|EDY34677.1| Anticodon-binding domain family [Aciduliprofundum boonei T469]
          Length = 1007

 Score = 38.9 bits (90), Expect = 2.0,   Method: Composition-based stats.
 Identities = 13/54 (24%), Positives = 21/54 (38%)

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
               F     +D+  A LL   G+  + EL   +  +IA   G   + A E+  
Sbjct: 762 VINAFKSIPGIDDYRAELLFKMGYGSIYELMEAEPEQIAEATGMPLKLANELID 815


>gi|262276736|ref|ZP_06054529.1| 30S ribosomal protein S1 [alpha proteobacterium HIMB114]
 gi|262223839|gb|EEY74298.1| 30S ribosomal protein S1 [alpha proteobacterium HIMB114]
          Length = 570

 Score = 38.9 bits (90), Expect = 2.1,   Method: Composition-based stats.
 Identities = 19/125 (15%), Positives = 53/125 (42%), Gaps = 10/125 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q++ +  ++ +  ++        +   +     + S +QVI Q+ +   +++    +
Sbjct: 145 PNSQVADRPIKNMNEYMNKPMEFQI-IKIDNVRMNVIASRRQVIEQE-KNKNKEKVIKNY 202

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETIS------RENLRPGDRVKSYIYD 188
           K  VG+++ GT+K V+     V + + D ++   E          +    G+++K  + +
Sbjct: 203 K--VGDVVEGTIKAVQSYGCFVSIESLDCLLHSSEVSHLKISNLNDMFTVGEKIKVKVLE 260

Query: 189 VRREQ 193
           +  E 
Sbjct: 261 IDNEN 265


>gi|199598703|ref|ZP_03212117.1| 30S ribosomal protein S1 [Lactobacillus rhamnosus HN001]
 gi|229552180|ref|ZP_04440905.1| ribosomal protein S1 [Lactobacillus rhamnosus LMS2-1]
 gi|258508384|ref|YP_003171135.1| 30S ribosomal protein S1 [Lactobacillus rhamnosus GG]
 gi|258539595|ref|YP_003174094.1| 30S ribosomal protein S1 [Lactobacillus rhamnosus Lc 705]
 gi|199590391|gb|EDY98483.1| 30S ribosomal protein S1 [Lactobacillus rhamnosus HN001]
 gi|229314482|gb|EEN80455.1| ribosomal protein S1 [Lactobacillus rhamnosus LMS2-1]
 gi|257148311|emb|CAR87284.1| SSU/30S ribosomal protein S1P [Lactobacillus rhamnosus GG]
 gi|257151271|emb|CAR90243.1| SSU/30S ribosomal protein S1P [Lactobacillus rhamnosus Lc 705]
 gi|259649698|dbj|BAI41860.1| 30S ribosomal protein S1 [Lactobacillus rhamnosus GG]
          Length = 436

 Score = 38.9 bits (90), Expect = 2.1,   Method: Composition-based stats.
 Identities = 21/121 (17%), Positives = 50/121 (41%), Gaps = 10/121 (8%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
            D +   G  +   +  ++     +  + + I++  +   R   + + +   G+++ G V
Sbjct: 153 EDLNQYKGKELEFKIIEIEPSENRLILSHRAIVEASKAEARKEIFAKIQP--GDVVEGKV 210

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLL 200
            R+      VDLG  DG++   E          + L+ G  +K  + +V  ++   ++ L
Sbjct: 211 ARLTNFGAFVDLGGVDGLVHVSEISFDHVDKPSDVLKVGQEIKVKVLNVDPDRN--RISL 268

Query: 201 S 201
           S
Sbjct: 269 S 269


>gi|169237523|ref|YP_001690727.1| hypothetical protein OE5289R [Halobacterium salinarum R1]
 gi|167728750|emb|CAP15609.1| hypothetical protein OE5289R [Halobacterium salinarum R1]
          Length = 478

 Score = 38.9 bits (90), Expect = 2.1,   Method: Composition-based stats.
 Identities = 25/135 (18%), Positives = 48/135 (35%), Gaps = 15/135 (11%)

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID--ITL 424
            V    A LL         +LA  ++ EIA ++G  ++TA  I   A E +E  +  +  
Sbjct: 204 GVGHRRAELLNNAEIRSRADLAQAEVYEIAQLDGIGKKTARTIVESA-EVVEQREARVAP 262

Query: 425 QKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK----GGN 480
            + +             G++  +   +   G+ T       S D  + + E         
Sbjct: 263 DESLPSREPIFIDIETDGLNPTMVWLI---GVVTR-----ASGDRFIPFIETDPEKPAAA 314

Query: 481 IEKFDGFLSSLGTPK 495
           +  F  +L+  G  +
Sbjct: 315 LRAFMDWLAEFGRNR 329


>gi|67521554|ref|XP_658841.1| hypothetical protein AN1237.2 [Aspergillus nidulans FGSC A4]
 gi|9904315|gb|AAB39323.2| ARECA [Emericella nidulans]
 gi|40746674|gb|EAA65830.1| hypothetical protein AN1237.2 [Aspergillus nidulans FGSC A4]
          Length = 344

 Score = 38.9 bits (90), Expect = 2.1,   Method: Composition-based stats.
 Identities = 12/41 (29%), Positives = 18/41 (43%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
             L V  G+  VE +A      +  I+G  E+ A +I   A
Sbjct: 35  IKLFVDAGYHTVESIAYTPKRLLEQIKGISEQKATKILVEA 75


>gi|297380231|gb|ADI35118.1| ribosomal protein S1 [Helicobacter pylori v225d]
          Length = 552

 Score = 38.9 bits (90), Expect = 2.1,   Method: Composition-based stats.
 Identities = 19/89 (21%), Positives = 37/89 (41%), Gaps = 7/89 (7%)

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRR-DETISR 173
           K +  QK+++   +    E  +    II G +     G  IV+    +  + R   ++  
Sbjct: 96  KAISQQKIQDKIEE--LGE--NYENAIIEGKIVGKNKGGYIVESQGVEYFLSRSRSSLKN 151

Query: 174 ENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
           +    G R+K+ I  V +E     + +SR
Sbjct: 152 DANHIGKRIKACIIHVDKENH--SINISR 178


>gi|304436633|ref|ZP_07396602.1| possible ribosomal protein S1 [Selenomonas sp. oral taxon 149 str.
           67H29BP]
 gi|304370329|gb|EFM23985.1| possible ribosomal protein S1 [Selenomonas sp. oral taxon 149 str.
           67H29BP]
          Length = 376

 Score = 38.9 bits (90), Expect = 2.1,   Method: Composition-based stats.
 Identities = 23/132 (17%), Positives = 55/132 (41%), Gaps = 10/132 (7%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ L   +D   S+ +   V   +  +D  +  +  +++ ++++ R  + +  +   
Sbjct: 134 PASQMELHFVKDL--SVYVDQTVEAEIIEIDVQKRRLVLSRRKLLERDRAEKEEAVFSAI 191

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           +    +I+ GTVKR+      +D+G  DG+    +          E L  G  +  Y+  
Sbjct: 192 EP--EQIVRGTVKRLVDYGAFIDIGGVDGLAHISDLAWHRVKHPSEVLEVGQELDVYVKS 249

Query: 189 VRREQRGPQVLL 200
           V R+ +   + +
Sbjct: 250 VDRDAKRISLSV 261


>gi|162605684|ref|XP_001713357.1| DNA repair protein Rad51 homolog [Guillardia theta]
 gi|13794289|gb|AAK39666.1|AF083031_23 DNA repair protein Rad51 homolog [Guillardia theta]
          Length = 331

 Score = 38.9 bits (90), Expect = 2.1,   Method: Composition-based stats.
 Identities = 14/69 (20%), Positives = 27/69 (39%), Gaps = 2/69 (2%)

Query: 342 ITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
           +   E      + +   +    + I++ +I    L   GF  +E LA +   ++  I G 
Sbjct: 1   MNNIEMPSTSNEQWKHISILESKGISLTDI--KKLQDSGFHTIESLAYIPKKKLIEIRGI 58

Query: 402 DEETAVEIQ 410
            E  A +I 
Sbjct: 59  SELKAEKIL 67


>gi|325103294|ref|YP_004272948.1| RNA binding S1 domain protein [Pedobacter saltans DSM 12145]
 gi|324972142|gb|ADY51126.1| RNA binding S1 domain protein [Pedobacter saltans DSM 12145]
          Length = 1008

 Score = 38.9 bits (90), Expect = 2.1,   Method: Composition-based stats.
 Identities = 26/129 (20%), Positives = 47/129 (36%), Gaps = 8/129 (6%)

Query: 86  DRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK--VGEIIS 143
           D  P ID    +   L               V  + + E+  + Q  E   K   G+I+ 
Sbjct: 610 DVKPVIDYDSYIGKTLDFKIVKISEANQNTVVSRRLIIESVIEMQREEISKKLEKGQILE 669

Query: 144 GTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQ 197
           GT+K + Y    +DLG  DG++   +          + L    ++   + D    ++   
Sbjct: 670 GTIKNITYFGAFIDLGGIDGLLYITDISWGRINHPSDLLELNQKIHVVVLDYEDNKKRIS 729

Query: 198 VLLSRTHPQ 206
           + L + HP 
Sbjct: 730 LGLKQLHPN 738


>gi|161507459|ref|YP_001577413.1| 30S ribosomal protein S1 [Lactobacillus helveticus DPC 4571]
 gi|160348448|gb|ABX27122.1| 30S ribosomal protein S1 [Lactobacillus helveticus DPC 4571]
          Length = 403

 Score = 38.9 bits (90), Expect = 2.1,   Method: Composition-based stats.
 Identities = 34/167 (20%), Positives = 63/167 (37%), Gaps = 35/167 (20%)

Query: 119 IQKVREAERDRQYLEFKDK--VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI----- 171
            + + E ER+  + +   +  VG++I G V R+      +D+G  DG++   E       
Sbjct: 176 HKDLIEEEREEAFDKVASQLVVGDVIEGKVSRLTNFGAFIDVGGVDGLVHISEISYKHVD 235

Query: 172 -SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVK---------LFHMEV----- 216
              + L+ G  VK  +  +  ++    + + +T P    +         +F  EV     
Sbjct: 236 KPSDVLKAGQDVKVKVIGIDDDRHRISLSIKQTEPSPFEQATADLNEGDVFEGEVKSLTN 295

Query: 217 ----PEIYNGIVQVKAVSRD-------PGSRAKL--AVFSSDSSIDP 250
                E+ +GI  +  VS         P    K+   V     +IDP
Sbjct: 296 FGAFVEVADGIQGLVHVSEISNKHVDKPSDVLKVDQTVKVKVLNIDP 342


>gi|149907677|ref|ZP_01896424.1| hypothetical protein PE36_07307 [Moritella sp. PE36]
 gi|149809347|gb|EDM69276.1| hypothetical protein PE36_07307 [Moritella sp. PE36]
          Length = 252

 Score = 38.9 bits (90), Expect = 2.1,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 31/57 (54%), Gaps = 3/57 (5%)

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
            V++ +A  L   GF  ++++A +K+ E+  ++G  + +A +I   A + L   ++ 
Sbjct: 199 GVNKKVAESLENNGFTTMQKIAELKVEELVILDGIGKVSAKKI---AEDCLNIKELR 252


>gi|1816461|emb|CAB02454.1| uvsC [Emericella nidulans]
 gi|259488442|tpe|CBF87878.1| TPA: UvsC protein [Source:UniProtKB/TrEMBL;Acc:P78579] [Aspergillus
           nidulans FGSC A4]
          Length = 348

 Score = 38.9 bits (90), Expect = 2.1,   Method: Composition-based stats.
 Identities = 12/41 (29%), Positives = 18/41 (43%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
             L V  G+  VE +A      +  I+G  E+ A +I   A
Sbjct: 39  IKLFVDAGYHTVESIAYTPKRLLEQIKGISEQKATKILVEA 79


>gi|295293739|gb|ADF88266.1| RNA-binding S1 domain-containing protein [Aphanizomenon sp. 10E6]
          Length = 300

 Score = 38.9 bits (90), Expect = 2.1,   Method: Composition-based stats.
 Identities = 21/102 (20%), Positives = 49/102 (48%), Gaps = 18/102 (17%)

Query: 133 EFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISR------ENLRPGDRVKSY 185
           +++ + G+++ G V +V++    VD+ G S   + ++E   R      E L   + ++  
Sbjct: 28  DYQFQKGQVVRGKVFQVDHDGAYVDIGGKSSAFLPQEEASLRAVADLSEVLPMNEELEFL 87

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVK 227
           I    ++  G QV +SR           +EV +I+  +++++
Sbjct: 88  IIR-DQDAEG-QVTISRK---------QLEVKQIWEKLLEMQ 118


>gi|332319827|sp|P0CW58|RADA_METMI RecName: Full=DNA repair and recombination protein radA
 gi|16588837|gb|AAL26913.1|AF322003_1 RadA [Methanococcus maripaludis]
          Length = 322

 Score = 38.9 bits (90), Expect = 2.1,   Method: Composition-based stats.
 Identities = 12/46 (26%), Positives = 18/46 (39%)

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
                 +   V    A  L+  G+ D  ++A   I E+  IEG  E
Sbjct: 1   MADVLTELPGVGPSTADKLIEGGYLDFMKIATATIGELTDIEGISE 46


>gi|55981108|ref|YP_144405.1| polynucleotide phosphorylase/polyadenylase [Thermus thermophilus
           HB8]
 gi|81364132|sp|Q5SJ75|PNP_THET8 RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|55772521|dbj|BAD70962.1| polynucleotide phosphorylase [Thermus thermophilus HB8]
          Length = 713

 Score = 38.9 bits (90), Expect = 2.1,   Method: Composition-based stats.
 Identities = 25/114 (21%), Positives = 43/114 (37%), Gaps = 22/114 (19%)

Query: 92  DIGGVVSDP----LPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVK 147
           ++G  V       +        A   AK+ I    REA           KVGEI  GTV 
Sbjct: 593 ELGVEVDIEEDGTVRIYSSDLQAALEAKKRIEDLTREA-----------KVGEIYEGTVT 641

Query: 148 RVEY-GNVIVDLGNSDGVIRRDETISR------ENLRPGDRVKSYIYDVRREQR 194
           R+   G  I     ++G++   +          ++L+ GD +K  ++ +    +
Sbjct: 642 RITPFGAFISLFPGTEGLLHISQIAPGRVARVEDHLKVGDVIKVKVHRIDERGK 695


>gi|315646408|ref|ZP_07899526.1| RNA binding S1 domain protein [Paenibacillus vortex V453]
 gi|315278051|gb|EFU41371.1| RNA binding S1 domain protein [Paenibacillus vortex V453]
          Length = 405

 Score = 38.9 bits (90), Expect = 2.1,   Method: Composition-based stats.
 Identities = 22/84 (26%), Positives = 41/84 (48%), Gaps = 10/84 (11%)

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLR 177
           E+ + +   E +D  G+++ GTV+R+      VD+G  DG++   E          + L 
Sbjct: 186 ESNKQKVMSELQD--GQVLEGTVQRLTQFGAFVDVGGVDGLVHVSEIAWSHVEKPADVLS 243

Query: 178 PGDRVKSYIYDVRREQRGPQVLLS 201
            GD+V+  +  V  E+   ++ LS
Sbjct: 244 EGDQVRVKVLKVDPEKG--KISLS 265


>gi|284165509|ref|YP_003403788.1| ribosomal protein L32e [Haloterrigena turkmenica DSM 5511]
 gi|284015164|gb|ADB61115.1| Ribosomal protein L32e [Haloterrigena turkmenica DSM 5511]
          Length = 236

 Score = 38.9 bits (90), Expect = 2.1,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 20/57 (35%)

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
            +E  Q       V    A  L   GF  +E++      ++A  EG     A  I+ 
Sbjct: 2   ADEEPQELEDISGVGASKADALRDAGFESIEDIKEADQDDLAEAEGIGNALAARIKA 58


>gi|288869613|ref|ZP_05975231.2| DNA repair and recombination protein RadA [Methanobrevibacter
           smithii DSM 2374]
 gi|288860598|gb|EFC92896.1| DNA repair and recombination protein RadA [Methanobrevibacter
           smithii DSM 2374]
          Length = 314

 Score = 38.9 bits (90), Expect = 2.1,   Method: Composition-based stats.
 Identities = 15/54 (27%), Positives = 22/54 (40%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
                +V E  A  L   GFAD+  LA     E++      E  A ++   AR+
Sbjct: 7   LEDLPSVGEKTAEKLRDAGFADMMRLATATPKELSVKAEIGEGVAEKVIEAARK 60


>gi|45187548|ref|NP_983771.1| ADL325Cp [Ashbya gossypii ATCC 10895]
 gi|74694654|sp|Q75B95|BRR1_ASHGO RecName: Full=Pre-mRNA-splicing factor BRR1
 gi|44982286|gb|AAS51595.1| ADL325Cp [Ashbya gossypii ATCC 10895]
          Length = 322

 Score = 38.9 bits (90), Expect = 2.2,   Method: Composition-based stats.
 Identities = 31/142 (21%), Positives = 60/142 (42%), Gaps = 23/142 (16%)

Query: 331 ASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACV 390
           AS L    I+I  ++E+ + R  +  +  +      ++DE+I+       F  V+E A  
Sbjct: 50  ASNLRKRKIEISYDDEEVVKRPSEGEKAIEL---PFDMDEVISW------FDQVKEDA-- 98

Query: 391 KISEIASIEGFDEETAVEIQGRAREYLEGIDITLQ------KKIRELGVSEELCSIPGID 444
            +SE  + EG+DEET   +    R+Y+  +    +      K +  +       ++  +D
Sbjct: 99  -LSEREAFEGYDEETLNTLLVGIRDYISRMSSRDESTNNLIKLLEGVQPVVTNEALE-LD 156

Query: 445 SKIKVA----LGENGIKTMEDL 462
            K        LG     T+++L
Sbjct: 157 EKWAAKLVARLGRRKFTTLDNL 178


>gi|332374336|gb|AEE62309.1| unknown [Dendroctonus ponderosae]
          Length = 338

 Score = 38.9 bits (90), Expect = 2.2,   Method: Composition-based stats.
 Identities = 11/62 (17%), Positives = 25/62 (40%)

Query: 348 SINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV 407
             +  ++   +    ++   ++      L   G+  VE +A      + SI+G  E+ A 
Sbjct: 12  KEDDMEECGPQPIARLEGNGINAGDIKKLEEAGYHTVESVAFAPKKYLLSIKGISEQKAD 71

Query: 408 EI 409
           +I
Sbjct: 72  KI 73


>gi|323484701|ref|ZP_08090060.1| hypothetical protein HMPREF9474_01811 [Clostridium symbiosum
           WAL-14163]
 gi|323691768|ref|ZP_08106025.1| hypothetical protein HMPREF9475_00887 [Clostridium symbiosum
           WAL-14673]
 gi|323401938|gb|EGA94277.1| hypothetical protein HMPREF9474_01811 [Clostridium symbiosum
           WAL-14163]
 gi|323504134|gb|EGB19939.1| hypothetical protein HMPREF9475_00887 [Clostridium symbiosum
           WAL-14673]
          Length = 379

 Score = 38.9 bits (90), Expect = 2.2,   Method: Composition-based stats.
 Identities = 36/150 (24%), Positives = 61/150 (40%), Gaps = 19/150 (12%)

Query: 69  VEEVENYTCQIS---LKVARDRDPSIDIGGVVSD---PLPPMDFGRVAVQSAKQVIIQKV 122
           V EVE     I    +    D+D S   G  +        P       +   KQ+++ K 
Sbjct: 125 VVEVEGTRVFIPASMVSDTYDKDLSKYAGQEIEFVVTEFNPNGRRSRIIGDRKQLLVAK- 183

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENL 176
           + A +   + +    VG+ + G VK V      +DLG +DG++   E         ++  
Sbjct: 184 KAAMQKELFEKIA--VGQTVEGVVKNVTDFGAFIDLGGADGLLHISEMSWGRVENPKKVF 241

Query: 177 RPGDRVKSYIYDVRREQRGPQVLLSRTHPQ 206
           + GD+V + I D+     G +V LS   P+
Sbjct: 242 KVGDKVTALIKDI----NGEKVALSLKFPE 267


>gi|297800772|ref|XP_002868270.1| RNA polymerase Rpb7 N-terminal domain-containing protein
           [Arabidopsis lyrata subsp. lyrata]
 gi|297314106|gb|EFH44529.1| RNA polymerase Rpb7 N-terminal domain-containing protein
           [Arabidopsis lyrata subsp. lyrata]
          Length = 178

 Score = 38.9 bits (90), Expect = 2.2,   Method: Composition-based stats.
 Identities = 20/80 (25%), Positives = 32/80 (40%), Gaps = 6/80 (7%)

Query: 108 RVAVQSAKQVIIQKVREAERDRQY------LEFKDKVGEIISGTVKRVEYGNVIVDLGNS 161
            VAV +  ++   K+RE   +  +      + FK   GEII G V +V    V +  G  
Sbjct: 49  YVAVTTLDKIGEGKIREHTGEVLFPVMFSGMTFKIFKGEIIHGVVHKVLKHGVFMRCGPI 108

Query: 162 DGVIRRDETISRENLRPGDR 181
           + V      +      PG+ 
Sbjct: 109 ENVYLSYTKMPDYKYVPGEN 128


>gi|228470785|ref|ZP_04055633.1| 30S ribosomal protein S1 [Porphyromonas uenonis 60-3]
 gi|228307458|gb|EEK16463.1| 30S ribosomal protein S1 [Porphyromonas uenonis 60-3]
          Length = 598

 Score = 38.9 bits (90), Expect = 2.2,   Method: Composition-based stats.
 Identities = 23/82 (28%), Positives = 40/82 (48%), Gaps = 5/82 (6%)

Query: 123 REAERDRQYLEFKD--KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPG 179
              ER+  Y +     K  E++ G V  +    V+V++G  S G+I  +E    ++L+ G
Sbjct: 30  MRKEREAIYDKTLTTIKENEVVMGKVMSISKREVLVNIGYKSAGIISANEFNYNKDLKVG 89

Query: 180 DRVKSYIYDVRREQRGPQVLLS 201
           D V+  +    +E R  Q+ LS
Sbjct: 90  DEVEVLVES--KEDRHGQLQLS 109


>gi|145591606|ref|YP_001153608.1| Fis family transcriptional regulator [Pyrobaculum arsenaticum DSM
           13514]
 gi|145283374|gb|ABP50956.1| transcriptional regulator, Fis family [Pyrobaculum arsenaticum DSM
           13514]
          Length = 312

 Score = 38.9 bits (90), Expect = 2.2,   Method: Composition-based stats.
 Identities = 14/58 (24%), Positives = 28/58 (48%)

Query: 435 EELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLG 492
           ++L S+ G+  K    L E G+ ++E LA  +V++L+         ++     L+  G
Sbjct: 9   DDLSSLEGVGPKTLERLRELGVVSVEHLAEFTVEELVEAGVEYDRAVKIIQQALAKAG 66


>gi|121701915|ref|XP_001269222.1| DNA repair protein RAD51, putative [Aspergillus clavatus NRRL 1]
 gi|119397365|gb|EAW07796.1| DNA repair protein RAD51, putative [Aspergillus clavatus NRRL 1]
          Length = 347

 Score = 38.9 bits (90), Expect = 2.2,   Method: Composition-based stats.
 Identities = 12/41 (29%), Positives = 18/41 (43%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
             L V  G+  VE +A      +  I+G  E+ A +I   A
Sbjct: 38  IKLFVDAGYHTVESIAYTPRRLLEQIKGISEQKATKILVEA 78


>gi|310789617|gb|EFQ25150.1| S1 RNA binding domain-containing protein [Glomerella graminicola
            M1.001]
          Length = 1772

 Score = 38.9 bits (90), Expect = 2.2,   Method: Composition-based stats.
 Identities = 23/71 (32%), Positives = 36/71 (50%), Gaps = 10/71 (14%)

Query: 134  FKD-KVGEIISGTVKRVE--YGNVIVDLG-NSDGVIRRDETI--SREN----LRPGDRVK 183
            +KD K G+I++G V++VE     ++VD   N  G+  R E      E+       GD VK
Sbjct: 1282 YKDMKEGQIVTGKVRKVEEFGAFIVVDNSLNVSGLCHRSEMAEKPVEDARRLYSEGDVVK 1341

Query: 184  SYIYDVRREQR 194
            + +  V  E+R
Sbjct: 1342 AKVLSVDDEKR 1352


>gi|292670964|ref|ZP_06604390.1| 30S ribosomal protein S1 [Selenomonas noxia ATCC 43541]
 gi|292647585|gb|EFF65557.1| 30S ribosomal protein S1 [Selenomonas noxia ATCC 43541]
          Length = 384

 Score = 38.9 bits (90), Expect = 2.2,   Method: Composition-based stats.
 Identities = 23/132 (17%), Positives = 55/132 (41%), Gaps = 10/132 (7%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ L   +D   S+ +   V   +  +D  +  +  +++ ++++ R  + +  +   
Sbjct: 129 PASQMELHFVKDL--SVYVDQTVEAEIIEVDVQKRRLVLSRRKLLERDRAEKEEAVFSAI 186

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           +    +++ GTVKR+      +D+G  DG+    +          E L  G  +  Y+  
Sbjct: 187 EP--EQVVRGTVKRLVDYGAFIDIGGVDGLAHISDLAWHRVKHPSEVLEVGQELDVYVKS 244

Query: 189 VRREQRGPQVLL 200
           V RE +   + +
Sbjct: 245 VDREAKRISLSV 256


>gi|319946257|ref|ZP_08020497.1| polyribonucleotide nucleotidyltransferase [Streptococcus australis
           ATCC 700641]
 gi|319747639|gb|EFV99892.1| polyribonucleotide nucleotidyltransferase [Streptococcus australis
           ATCC 700641]
          Length = 783

 Score = 38.9 bits (90), Expect = 2.2,   Method: Composition-based stats.
 Identities = 32/185 (17%), Positives = 65/185 (35%), Gaps = 36/185 (19%)

Query: 29  SVMADSIQKAARSLYGTMSDIRVEINP------------ETGDISLFRLLEVVEEVENYT 76
            ++ +++ +A ++ +  +  I V I              +T  I + ++  V+ +     
Sbjct: 565 EILTEALAQAKKARFEILDVIEVTIPEVRPELAPTAPKIDTIKIDVDKIKIVIGKGGETI 624

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +I  +     D   +        +      + A+  AK++I   VREA           
Sbjct: 625 DKIIAETGVKIDIDEEGN------VSIYSSDQDAINRAKEIIAGLVREA----------- 667

Query: 137 KVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRP------GDRVKSYIYDV 189
           KV E+    V R+E     V+L   +D ++   E       R       GD V   +  +
Sbjct: 668 KVDEVYHAKVVRIEKFGAFVNLFDKTDALVHISEMAWTRTNRVEDLVEIGDEVDVKVIKI 727

Query: 190 RREQR 194
             + R
Sbjct: 728 DEKGR 732


>gi|261415158|ref|YP_003248841.1| ribosomal protein S1 [Fibrobacter succinogenes subsp. succinogenes
           S85]
 gi|261371614|gb|ACX74359.1| ribosomal protein S1 [Fibrobacter succinogenes subsp. succinogenes
           S85]
          Length = 590

 Score = 38.9 bits (90), Expect = 2.2,   Method: Composition-based stats.
 Identities = 34/153 (22%), Positives = 65/153 (42%), Gaps = 17/153 (11%)

Query: 57  TGDISLFRLLEVVEEVENYTCQISLKVARDRDPS-IDIGGVVSDPLP--PMDFGRVAVQS 113
           TG IS     EV+ +V NY  +  +  A  +D   +++G  +   +     + GR+ +  
Sbjct: 48  TGKISQVNDQEVLVDV-NYKSEGVIDRAEFKDTDSLELGSEIEVFVEKLEDEDGRLILSK 106

Query: 114 AKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDE---- 169
            K   ++       DR +  F++   E++ GT+ +   G V+VDL   D  +   +    
Sbjct: 107 QKADFVR-----VWDRIHAAFEN--NEVVRGTLTKRIKGGVVVDLFGIDAFLPGSQIDLR 159

Query: 170 TISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            I   N   G      +  V + +R   +++SR
Sbjct: 160 QIPDINALIGQEFDLKVIKVNKARRN--IVVSR 190


>gi|227487607|ref|ZP_03917923.1| oxidoreductase [Corynebacterium glucuronolyticum ATCC 51867]
 gi|227092425|gb|EEI27737.1| oxidoreductase [Corynebacterium glucuronolyticum ATCC 51867]
          Length = 964

 Score = 38.9 bits (90), Expect = 2.2,   Method: Composition-based stats.
 Identities = 27/135 (20%), Positives = 42/135 (31%), Gaps = 20/135 (14%)

Query: 319 LAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVA 378
           L IG  G             +  I E E +          T   M  +++       LV 
Sbjct: 273 LMIGAEGI------------LGFIAEAEIATVAHPKMAAVTWVMMPKMDLAANYVDRLVK 320

Query: 379 EGFADVEELACVKISE-IASIEG-------FDEETAVEIQGRAREYLEGIDITLQKKIRE 430
            G   VE LA   + E + S  G         EE A  +   A +  E +   +Q     
Sbjct: 321 AGAESVELLASPAMREAVGSFPGAHEDWLNLPEEMAALLLEVAADDEESLQAKMQAARDA 380

Query: 431 LGVSEELCSIPGIDS 445
           L  ++ L  +  +  
Sbjct: 381 LQDADLLQPLDFMRE 395


>gi|212223151|ref|YP_002306387.1| RecJ-like exonuclease [Thermococcus onnurineus NA1]
 gi|212008108|gb|ACJ15490.1| RecJ-like exonuclease [Thermococcus onnurineus NA1]
          Length = 741

 Score = 38.9 bits (90), Expect = 2.2,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 31/58 (53%), Gaps = 1/58 (1%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           +G +  GT+ RVE   V V L  +  G+I+R + +   +  PG  +   + DVR ++R
Sbjct: 132 IGNVYKGTIDRVERFGVFVKLNPHVTGLIKRKDLLGGRDYVPGQEILVQVLDVRPDKR 189


>gi|189485112|ref|YP_001956053.1| DNA-directed RNA polymerase alpha chain [uncultured Termite group 1
           bacterium phylotype Rs-D17]
 gi|170287071|dbj|BAG13592.1| DNA-directed RNA polymerase alpha chain [uncultured Termite group 1
           bacterium phylotype Rs-D17]
          Length = 323

 Score = 38.9 bits (90), Expect = 2.2,   Method: Composition-based stats.
 Identities = 11/82 (13%), Positives = 34/82 (41%)

Query: 345 EEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEE 404
            E+    +++ +      +  +++       L + G   VE+L  +K  ++ +     + 
Sbjct: 234 TEEVSADKEEQDGILGKPVSIMDISVKTLKSLKSAGIETVEDLVKIKEEDLLNFNNLSKR 293

Query: 405 TAVEIQGRAREYLEGIDITLQK 426
           +  EI+ R +E    + + ++ 
Sbjct: 294 SCEEIKNRVKELGLSLGMKIED 315


>gi|113954120|ref|YP_731196.1| ribosomal protein S1 [Synechococcus sp. CC9311]
 gi|113881471|gb|ABI46429.1| Ribosomal protein S1 [Synechococcus sp. CC9311]
          Length = 401

 Score = 38.9 bits (90), Expect = 2.2,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 28/57 (49%), Gaps = 7/57 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDL-GNSDGVIRRDE------TISRENLRPGDRVKSYIYD 188
           GE+++GTV  +E   V VD+ G + G + ++E      T  +E    G  ++  +  
Sbjct: 129 GEVVTGTVIGMESDGVYVDIGGKAPGFMPKNECGLGVITNLKERFPKGLEIEVLVTR 185


>gi|145614388|ref|XP_362387.2| hypothetical protein MGG_11350 [Magnaporthe oryzae 70-15]
 gi|145021318|gb|EDK05447.1| hypothetical protein MGG_11350 [Magnaporthe oryzae 70-15]
          Length = 780

 Score = 38.9 bits (90), Expect = 2.2,   Method: Composition-based stats.
 Identities = 11/43 (25%), Positives = 20/43 (46%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
             L++  G+  VE +A      +  I+G  E+ A +I   A +
Sbjct: 469 IQLVMEGGYNTVESVAYTPRRMLEQIKGISEQKAGKILAEASK 511


>gi|68536402|ref|YP_251107.1| NAD-dependent DNA ligase LigA [Corynebacterium jeikeium K411]
 gi|123748223|sp|Q4JUL8|DNLJ_CORJK RecName: Full=DNA ligase; AltName: Full=Polydeoxyribonucleotide
           synthase [NAD+]
 gi|68264001|emb|CAI37489.1| DNA ligase [Corynebacterium jeikeium K411]
          Length = 695

 Score = 38.9 bits (90), Expect = 2.2,   Method: Composition-based stats.
 Identities = 31/143 (21%), Positives = 51/143 (35%), Gaps = 12/143 (8%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEI-----QGRAREYLEGIDI 422
           V    A  L    F  VE++A     E+A I+G  E  A  I         R  ++    
Sbjct: 522 VGPTAAKALAKH-FESVEDIASASAEEMAGIDGVAETIAESISDWFTVDWHRRIVDRWAA 580

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK-GGNI 481
              +  RE G      +  G+DS +   L      ++ED    +  + +     K  G++
Sbjct: 581 AGVRMRREAGNVPG--AADGVDSALLEGLTIVVTGSLEDFDRTAAKEAIEARGGKAAGSV 638

Query: 482 EKFDGFL---SSLGTPKDQVESM 501
            K   FL      G+   + E +
Sbjct: 639 SKKTDFLVAGEKAGSKLKKAEDL 661


>gi|302328188|gb|ADL27389.1| ribosomal protein S1 [Fibrobacter succinogenes subsp. succinogenes
           S85]
          Length = 590

 Score = 38.9 bits (90), Expect = 2.2,   Method: Composition-based stats.
 Identities = 34/153 (22%), Positives = 65/153 (42%), Gaps = 17/153 (11%)

Query: 57  TGDISLFRLLEVVEEVENYTCQISLKVARDRDPS-IDIGGVVSDPLP--PMDFGRVAVQS 113
           TG IS     EV+ +V NY  +  +  A  +D   +++G  +   +     + GR+ +  
Sbjct: 48  TGKISQVNDQEVLVDV-NYKSEGVIDRAEFKDTDSLELGSEIEVFVEKLEDEDGRLILSK 106

Query: 114 AKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDE---- 169
            K   ++       DR +  F++   E++ GT+ +   G V+VDL   D  +   +    
Sbjct: 107 QKADFVR-----VWDRIHAAFEN--NEVVRGTLTKRIKGGVVVDLFGIDAFLPGSQIDLR 159

Query: 170 TISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            I   N   G      +  V + +R   +++SR
Sbjct: 160 QIPDINALIGQEFDLKVIKVNKARRN--IVVSR 190


>gi|256028050|ref|ZP_05441884.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding
           domain protein [Fusobacterium sp. D11]
 gi|289765993|ref|ZP_06525371.1| LytB protein [Fusobacterium sp. D11]
 gi|289717548|gb|EFD81560.1| LytB protein [Fusobacterium sp. D11]
          Length = 827

 Score = 38.9 bits (90), Expect = 2.2,   Method: Composition-based stats.
 Identities = 25/120 (20%), Positives = 53/120 (44%), Gaps = 13/120 (10%)

Query: 86  DRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGT 145
           +  P  +IG  V   +  +D     ++ + +     +R++  +    E+K  VG  +   
Sbjct: 686 EETPKFEIGNEVELKIIELDLNNKKIKGSLKA----LRKSPWEHVLEEYK--VGTTVEKK 739

Query: 146 VKRV-EYGNVIVDLGNSDGVIR----RDETIS--RENLRPGDRVKSYIYDVRREQRGPQV 198
           +K V ++G  I  +   DG I       E I   R+  + GD VK+ + +V ++ +  ++
Sbjct: 740 IKTVADFGLFIELIKGIDGFIPTQFASKEFIKNIRDKFKEGDIVKAQVVEVNKDTQKIKL 799


>gi|329906685|ref|ZP_08274481.1| SSU ribosomal protein S1p [Oxalobacteraceae bacterium IMCC9480]
 gi|327547180|gb|EGF32041.1| SSU ribosomal protein S1p [Oxalobacteraceae bacterium IMCC9480]
          Length = 560

 Score = 38.9 bits (90), Expect = 2.3,   Method: Composition-based stats.
 Identities = 21/69 (30%), Positives = 37/69 (53%), Gaps = 9/69 (13%)

Query: 138 VGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISREN-------LRPGDRVKSYIYDV 189
            G +++G VK VE    ++ L    +G +R  E ISR+        L+ GD V++ + ++
Sbjct: 449 KGSLVTGVVKMVEPKGAVIQLSEEVEGYLRASE-ISRDRVEDAGTHLKVGDTVEAMVLNI 507

Query: 190 RREQRGPQV 198
            R+ RG Q+
Sbjct: 508 DRKARGIQL 516



 Score = 37.7 bits (87), Expect = 4.8,   Method: Composition-based stats.
 Identities = 23/107 (21%), Positives = 43/107 (40%), Gaps = 8/107 (7%)

Query: 94  GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN 153
           G  +   +  +D  R  V  +++ +I+     ER +     K   G +++G VK +    
Sbjct: 148 GKTLEFKVIKLDRKRNNVVLSRRAVIEASMGEERQKLMETLK--EGTVVTGIVKNITDYG 205

Query: 154 VIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
             VDLG  DG++       R      E L  G  + + +    +E+ 
Sbjct: 206 AFVDLGGIDGLLHITDLAWRRVRHPSEVLTVGQEITAKVLKYDQEKN 252


>gi|302874418|ref|YP_003843051.1| RNA binding S1 domain-containing protein [Clostridium cellulovorans
           743B]
 gi|307690976|ref|ZP_07633422.1| RNA binding S1 domain-containing protein [Clostridium cellulovorans
           743B]
 gi|302577275|gb|ADL51287.1| RNA binding S1 domain protein [Clostridium cellulovorans 743B]
          Length = 308

 Score = 38.9 bits (90), Expect = 2.3,   Method: Composition-based stats.
 Identities = 20/71 (28%), Positives = 39/71 (54%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGN-SDGVIRRD----ETIS--RENLRPGDRVKSYIYDVR 190
            G+++ G V  V   +V+V +G+  DG+I ++    +     +E    GD +K+Y+ +V 
Sbjct: 23  KGQMVEGEVVSVTEEDVLVSIGHMKDGIIPKEKATFDMSKSLKEQFNLGDIIKAYV-EVE 81

Query: 191 REQRGPQVLLS 201
            +  G ++LLS
Sbjct: 82  DDGEG-KILLS 91


>gi|224543223|ref|ZP_03683762.1| hypothetical protein CATMIT_02423 [Catenibacterium mitsuokai DSM
           15897]
 gi|224523856|gb|EEF92961.1| hypothetical protein CATMIT_02423 [Catenibacterium mitsuokai DSM
           15897]
          Length = 664

 Score = 38.9 bits (90), Expect = 2.3,   Method: Composition-based stats.
 Identities = 25/112 (22%), Positives = 45/112 (40%), Gaps = 13/112 (11%)

Query: 344 EEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFAD-VEEL--ACVKISEIASIEG 400
           EE DS   +K  +  ++  M    + + I       GF   +E++    V   EI  IEG
Sbjct: 423 EECDSKKIEKLIHFASREAMNIDGLGDKIIEQFYNLGFVTCIEDIYHLGVHEKEIMDIEG 482

Query: 401 FDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALG 452
           F +++  ++     E +E   +   +K+           I GI +K+   L 
Sbjct: 483 FGKKSMDKLL----EAIENSKVNSLEKLLFG------LGIKGIGAKMADTLA 524


>gi|254166887|ref|ZP_04873741.1| Anticodon-binding domain family [Aciduliprofundum boonei T469]
 gi|289596522|ref|YP_003483218.1| Protein of unknown function DUF835 [Aciduliprofundum boonei T469]
 gi|197624497|gb|EDY37058.1| Anticodon-binding domain family [Aciduliprofundum boonei T469]
 gi|289534309|gb|ADD08656.1| Protein of unknown function DUF835 [Aciduliprofundum boonei T469]
          Length = 1007

 Score = 38.9 bits (90), Expect = 2.3,   Method: Composition-based stats.
 Identities = 12/54 (22%), Positives = 21/54 (38%)

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
             + F     +D+  A LL   G+  + EL   +  +IA   G   +   E+  
Sbjct: 762 VIKAFKSIPGIDDYRAELLFKMGYGSIYELMEAEPEQIAEATGMPLKLVNELID 815


>gi|171680227|ref|XP_001905059.1| hypothetical protein [Podospora anserina S mat+]
 gi|170939740|emb|CAP64966.1| unnamed protein product [Podospora anserina S mat+]
          Length = 348

 Score = 38.9 bits (90), Expect = 2.3,   Method: Composition-based stats.
 Identities = 10/43 (23%), Positives = 20/43 (46%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
             +++  G+  VE +A      +  I+G  E+ A +I   A +
Sbjct: 39  IQMIIEGGYNTVESVAYTPRRVLEQIKGISEQKAQKILTEASK 81


>gi|325479579|gb|EGC82675.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Anaerococcus
           prevotii ACS-065-V-Col13]
          Length = 687

 Score = 38.9 bits (90), Expect = 2.3,   Method: Composition-based stats.
 Identities = 34/217 (15%), Positives = 81/217 (37%), Gaps = 29/217 (13%)

Query: 24  RDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKV 83
           ++  ++ + DS++K         + I V+ +       +F  ++   +      +++ + 
Sbjct: 279 KEEFMNSLEDSLKKVYPKEIVKGTVIDVKDD------EIFVDIQFRADGIIKLDEMTEEE 332

Query: 84  ARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV--GEI 141
            +D   S +IG  +   +  +D G          +    R  E  R + +  +K    E+
Sbjct: 333 RKDPKSSFNIGDEIDVYVIKLDDGEG-------NVALSTRRVEGMRVWKDLAEKAENDEL 385

Query: 142 ISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY-----IYDVRREQRGP 196
           + G V     G + V++   +G +   +          +  K       +  V  ++R  
Sbjct: 386 VHGEVTGFNKGGLTVNVDGVNGFVPASQIA---TYFVKNFKKFVGEDWDLKIVSIDERKN 442

Query: 197 QVLLSRTH--PQFMVKLFHMEVPEIYNGIVQVKAVSR 231
           +++LSR       + +L+     E+  G V    V+R
Sbjct: 443 RLVLSRKDVVEGQLDELWD----ELEEGQVVTGKVAR 475


>gi|229597842|pdb|3ETL|A Chain A, Rada Recombinase From Methanococcus Maripaludis In Complex
           With Amppnp
 gi|229597843|pdb|3EW9|A Chain A, Rada Recombinase From Methanococcus Maripaludis In Complex
           With Amppnp And Potassium Ions
 gi|229597844|pdb|3EWA|A Chain A, Rada Recombinase From Methanococcus Maripaludis In Complex
           With Amppnp And Ammonium Ions
          Length = 322

 Score = 38.9 bits (90), Expect = 2.3,   Method: Composition-based stats.
 Identities = 12/46 (26%), Positives = 18/46 (39%)

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
                 +   V    A  L+  G+ D  ++A   I E+  IEG  E
Sbjct: 1   MADVLTELPGVGPSTADKLIEGGYLDFMKIATATIGELTDIEGISE 46


>gi|119495909|ref|XP_001264730.1| DNA repair protein RAD51, putative [Neosartorya fischeri NRRL 181]
 gi|119412892|gb|EAW22833.1| DNA repair protein RAD51, putative [Neosartorya fischeri NRRL 181]
          Length = 348

 Score = 38.9 bits (90), Expect = 2.3,   Method: Composition-based stats.
 Identities = 12/41 (29%), Positives = 18/41 (43%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
             L V  G+  VE +A      +  I+G  E+ A +I   A
Sbjct: 39  IKLFVDAGYHTVESIAYTPKRLLEQIKGISEQKATKILVEA 79


>gi|70995295|ref|XP_752407.1| DNA repair protein RAD51 [Aspergillus fumigatus Af293]
 gi|66850042|gb|EAL90369.1| DNA repair protein RAD51, putative [Aspergillus fumigatus Af293]
 gi|159131162|gb|EDP56275.1| DNA repair protein RAD51, putative [Aspergillus fumigatus A1163]
          Length = 348

 Score = 38.9 bits (90), Expect = 2.3,   Method: Composition-based stats.
 Identities = 12/41 (29%), Positives = 18/41 (43%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
             L V  G+  VE +A      +  I+G  E+ A +I   A
Sbjct: 39  IKLFVDAGYHTVESIAYTPKRLLEQIKGISEQKATKILVEA 79


>gi|187932428|ref|YP_001885998.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding
           domain protein [Clostridium botulinum B str. Eklund 17B]
 gi|187720581|gb|ACD21802.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Clostridium
           botulinum B str. Eklund 17B]
          Length = 635

 Score = 38.9 bits (90), Expect = 2.3,   Method: Composition-based stats.
 Identities = 32/165 (19%), Positives = 72/165 (43%), Gaps = 15/165 (9%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              QI +K  +D+   I+    V   +         V ++++V+++ ++E E ++ +   
Sbjct: 418 PASQIDIKFTKDKSKYINQILEVKL-INYSAEEHKKVIASRRVLLEVLKETEEEKIWESL 476

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISR------ENLRPGDRVKSYIYD 188
              VG+++   VKR       +D+   DG++   +          + L+ G+ ++  I  
Sbjct: 477 N--VGDVLEAEVKRFTNFGAFLDVNGIDGLLHLSQISWNHVKNIEDILKKGEMIEVKIIA 534

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIY-NGIVQVKAVSRD 232
           + +E +  ++ LSR   + + K +   V E Y  G + +  V R 
Sbjct: 535 LDKENK--KLSLSRK--ELLPKPWEN-VKEKYPEGSIVLGKVVRI 574


>gi|33152424|ref|NP_873777.1| 30S ribosomal protein S1 [Haemophilus ducreyi 35000HP]
 gi|33148647|gb|AAP96166.1| 30S ribosomal protein S1 [Haemophilus ducreyi 35000HP]
          Length = 555

 Score = 38.9 bits (90), Expect = 2.3,   Method: Composition-based stats.
 Identities = 21/70 (30%), Positives = 37/70 (52%), Gaps = 6/70 (8%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI--SRE-NLRPGDRVKSYIYDVRRE 192
           ++G+++ GTV  ++ G VIVD G  S+  I  +E I    E  ++ GD+V   +  V   
Sbjct: 19  RLGDVVKGTVVAIQKGYVIVDTGFKSESSIPAEEFINAQGELEVQIGDQVDVVLKAVEDG 78

Query: 193 QRGPQVLLSR 202
               + ++SR
Sbjct: 79  FG--ETVVSR 86


>gi|257066512|ref|YP_003152768.1| hydroxymethylbutenyl pyrophosphate reductase [Anaerococcus prevotii
           DSM 20548]
 gi|256798392|gb|ACV29047.1| hydroxymethylbutenyl pyrophosphate reductase [Anaerococcus prevotii
           DSM 20548]
          Length = 686

 Score = 38.9 bits (90), Expect = 2.3,   Method: Composition-based stats.
 Identities = 32/219 (14%), Positives = 82/219 (37%), Gaps = 33/219 (15%)

Query: 24  RDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKV 83
           ++  ++ + DS++K         + I V+ +       +F  ++   +      +++ + 
Sbjct: 279 KEEFMNSLEDSLKKIYPKEIVKGTVIDVKDD------EVFVDIQFRADGIIKLDEMTEEE 332

Query: 84  ARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV--GEI 141
           A+D   S ++G  +   +  +D G          +    R  E  + + +  +K    E+
Sbjct: 333 AKDPKNSFNVGDEIDVFVIKLDDGEG-------NVSLSTRRVEGMKVWKDLAEKAENDEL 385

Query: 142 ISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSY-----IYDVRREQRGP 196
           + G V     G + V++   +G +   +          +  K       +  +  ++R  
Sbjct: 386 VHGVVSGFNKGGLTVNVEGINGFVPASQIA---TYFVKNFKKFVGEEWDLKIISIDERKN 442

Query: 197 QVLLSRTHPQFMVKLFHMEV----PEIYNGIVQVKAVSR 231
           +++LSR       ++   E+     E+  G V    V+R
Sbjct: 443 RLVLSR------KEVVEDELDGLWEELEEGQVVTGKVAR 475


>gi|225453436|ref|XP_002272998.1| PREDICTED: hypothetical protein [Vitis vinifera]
          Length = 239

 Score = 38.9 bits (90), Expect = 2.3,   Method: Composition-based stats.
 Identities = 35/147 (23%), Positives = 54/147 (36%), Gaps = 45/147 (30%)

Query: 219 IYNGIVQVKAVSRDPGSRAK-------LAVFSSDSSIDPVGACVGMRGSRVQAVVTEL-- 269
           I +   +V    R P  RAK       + V S       +G  +G  GSR+Q +  E   
Sbjct: 37  IASATGEVADDHRSPKRRAKNQDVLFRIVVPSRQ-----IGKVIGKEGSRIQKIREETKA 91

Query: 270 ----------RDEKIDIVVWSPDSATFVI---NALRPAIVTKVVLDED------------ 304
                      +E++ I++ S DS   +    NAL    V  ++L ED            
Sbjct: 92  TIKIADAIARHEERV-IIISSKDSENVISDAENALL--QVASLILKEDDSNTDALKVGVG 148

Query: 305 ---VGRIEVIVPKEQLSLAIGRRGQNV 328
                 I +++   Q    IG  GQN+
Sbjct: 149 HVVANAIRLLIAGSQAGCLIGMSGQNI 175


>gi|289579915|ref|YP_003478381.1| ribosomal protein L32e [Natrialba magadii ATCC 43099]
 gi|289529468|gb|ADD03819.1| Ribosomal protein L32e [Natrialba magadii ATCC 43099]
          Length = 240

 Score = 38.9 bits (90), Expect = 2.3,   Method: Composition-based stats.
 Identities = 13/60 (21%), Positives = 21/60 (35%)

Query: 352 QKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
             D ++  Q       V    A  L   GF  +E++      E+A  +G     A  I+ 
Sbjct: 1   MADEDDSPQELEDISGVGASKADALREAGFESIEDVKEADQDELAEADGVGNALAARIKA 60


>gi|317154744|ref|YP_004122792.1| 30S ribosomal protein S1 [Desulfovibrio aespoeensis Aspo-2]
 gi|316944995|gb|ADU64046.1| ribosomal protein S1 [Desulfovibrio aespoeensis Aspo-2]
          Length = 623

 Score = 38.9 bits (90), Expect = 2.3,   Method: Composition-based stats.
 Identities = 23/91 (25%), Positives = 43/91 (47%), Gaps = 7/91 (7%)

Query: 117 VIIQKVREAERDRQYLEFKDK-VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRE 174
            +     +A  +    +F D   G I+SG + +++   V+VD+   S+G I   E    +
Sbjct: 12  EMEMNFADALDEYLNSDFGDLDEGTIVSGEIVKIDKDYVLVDVNFKSEGQIPASEFTDSD 71

Query: 175 ---NLRPGDRVKSYIYDVRREQRGPQVLLSR 202
              N++ G+RV  ++   + E  G  + LSR
Sbjct: 72  GTVNVQIGERVDVFVAR-KNEAEGT-IYLSR 100


>gi|237756866|ref|ZP_04585345.1| ribosomal protein S01 [Sulfurihydrogenibium yellowstonense SS-5]
 gi|237690975|gb|EEP60104.1| ribosomal protein S01 [Sulfurihydrogenibium yellowstonense SS-5]
          Length = 566

 Score = 38.9 bits (90), Expect = 2.3,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 37/73 (50%), Gaps = 6/73 (8%)

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRE------NLRPGDRVKSY 185
            +F   VG+++   VK +    VIVD+   +G I   E    +      NL+ GD+VK+ 
Sbjct: 260 DKFDKDVGDVVEAAVKEINKFGVIVDVDGVEGFIYNREISHFDYMKAKKNLKAGDKVKAK 319

Query: 186 IYDVRREQRGPQV 198
           I ++ +E R  ++
Sbjct: 320 IIELDKENRKLKL 332



 Score = 38.5 bits (89), Expect = 2.4,   Method: Composition-based stats.
 Identities = 22/90 (24%), Positives = 44/90 (48%), Gaps = 11/90 (12%)

Query: 119 IQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDET------I 171
           ++++ E E +    ++K  VG+++ G +K++     IVDL  N +G I   E       I
Sbjct: 418 MKQLLEEEWNEFISKYK--VGDVVKGKIKKLIEKGAIVDLRENIEGFIPVSEIALERINI 475

Query: 172 SRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
             + L+    V++ I  +  E +  ++ LS
Sbjct: 476 PSDKLKLHQEVEAKIIKIDSENK--KITLS 503


>gi|237734516|ref|ZP_04564997.1| 3' exoribonuclease [Mollicutes bacterium D7]
 gi|229382336|gb|EEO32427.1| 3' exoribonuclease [Coprobacillus sp. D7]
          Length = 714

 Score = 38.9 bits (90), Expect = 2.3,   Method: Composition-based stats.
 Identities = 27/125 (21%), Positives = 46/125 (36%), Gaps = 15/125 (12%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           +  +  I+        +     G V +    Q  I K  E          K +VGE+  G
Sbjct: 578 KTINEIIEQSD--GVKIDIEQDGTVVIYHYDQAAINKAVELIEKIVK---KAQVGEVYDG 632

Query: 145 TVKRVEYGNVIVDL-GNSDGVIRRDETIS------RENLRPGDRVKSYIYDVRREQRGPQ 197
            V RVE     ++L   +DG +   +          E ++ GD +K  +  V  + +   
Sbjct: 633 KVVRVEDNYAFINLFDGTDGFLHISDYAYERTKKMGEVIKLGDIIKVKVTKVDDKGK--- 689

Query: 198 VLLSR 202
           V +SR
Sbjct: 690 VNVSR 694


>gi|227496060|ref|ZP_03926369.1| 30S ribosomal protein S1 [Actinomyces urogenitalis DSM 15434]
 gi|226834388|gb|EEH66771.1| 30S ribosomal protein S1 [Actinomyces urogenitalis DSM 15434]
          Length = 483

 Score = 38.9 bits (90), Expect = 2.3,   Method: Composition-based stats.
 Identities = 24/94 (25%), Positives = 49/94 (52%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V+   V++D+G  ++GVI   E          E +  GD +++ +   ++
Sbjct: 36  GDIVEGTVVKVDRDEVLLDIGYKTEGVILARELSIKHDVDPDEIVSVGDEIEALVL--QK 93

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  ++LLS+   Q+      +E  +  +G+V 
Sbjct: 94  EDKEGRLLLSKKRAQYERAWGTIERVKEEDGVVT 127


>gi|126731017|ref|ZP_01746825.1| 30S ribosomal protein S1 [Sagittula stellata E-37]
 gi|126708319|gb|EBA07377.1| 30S ribosomal protein S1 [Sagittula stellata E-37]
          Length = 554

 Score = 38.9 bits (90), Expect = 2.3,   Method: Composition-based stats.
 Identities = 39/197 (19%), Positives = 76/197 (38%), Gaps = 27/197 (13%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADS---IQKAARSLYGTMSDIRVE---INPETGDISL 62
            L+ A+    E  I R+  ++   ++   ++KA         D RVE        G  ++
Sbjct: 70  FLRAAENARGEAVISRE--MARREEAWDRLEKAY------ADDARVEGAIFGRVKGGFTV 121

Query: 63  FRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
                V         Q+ ++  RD  P + +       +  MD  R  +  +++ I+++ 
Sbjct: 122 DLGGAVA---FLPGSQVDVRPVRDAGPLMGLKQP--FQILKMDRRRGNIVVSRRAILEES 176

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENL 176
           R  +R     +   + G+ + G VK +      VDLG  DG++   +          E L
Sbjct: 177 RAEQRAEVIGKL--QEGDSVDGVVKNITEYGAFVDLGGVDGLLHVTDMAWRRVNHPSEIL 234

Query: 177 RPGDRVKSYIYDVRREQ 193
             G+ VK  +  + +E 
Sbjct: 235 SIGETVKVQVIKINKET 251


>gi|328948657|ref|YP_004365994.1| Cytidylate kinase [Treponema succinifaciens DSM 2489]
 gi|328448981|gb|AEB14697.1| Cytidylate kinase [Treponema succinifaciens DSM 2489]
          Length = 781

 Score = 38.9 bits (90), Expect = 2.4,   Method: Composition-based stats.
 Identities = 26/135 (19%), Positives = 58/135 (42%), Gaps = 14/135 (10%)

Query: 79  ISLKVARDRDPSIDIGGV---VSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK 135
           IS   A+  +    + GV           +  R  V + ++ + +++ E  RD+ +    
Sbjct: 355 ISQADAQKVEKEDKLIGVKSKFYVERLYSNGKRNVVVNRRKYLEEQINE-NRDKFFE--T 411

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDV 189
            K+G+ + G VK        +DLG  DG++  ++         ++ ++ G  ++  +  +
Sbjct: 412 VKIGDTVKGVVKSFTSFGAFIDLGGFDGLLHINDMSWGHVTRPKDFVKKGQEIE--LKVI 469

Query: 190 RREQRGPQVLLSRTH 204
           R +  G ++ LS  H
Sbjct: 470 RLDPEGKRINLSLKH 484


>gi|299823025|ref|ZP_07054911.1| polyribonucleotide nucleotidyltransferase [Listeria grayi DSM
           20601]
 gi|299816554|gb|EFI83792.1| polyribonucleotide nucleotidyltransferase [Listeria grayi DSM
           20601]
          Length = 722

 Score = 38.9 bits (90), Expect = 2.4,   Method: Composition-based stats.
 Identities = 33/120 (27%), Positives = 49/120 (40%), Gaps = 25/120 (20%)

Query: 90  SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV 149
            I+  G V       +  + A+    Q+I   VRE E           VGEI +G V+R+
Sbjct: 591 DIEQDGTVYVASQDEEMNKKAI----QIIEDIVREVE-----------VGEIYTGKVRRI 635

Query: 150 EYGNVIVDL-----GNSDGVIRRDETISR--ENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
           E     V+L     G         E + +  + L+ GD VK  + +V  + R   V LSR
Sbjct: 636 EKFGAFVELFKGTDGLVHISELAHERVGKVEDILKLGDEVKVKVIEVDHQGR---VNLSR 692


>gi|298713772|emb|CBJ27144.1| DNA repair and recombination protein Rad51A [Ectocarpus
           siliculosus]
          Length = 343

 Score = 38.9 bits (90), Expect = 2.4,   Method: Composition-based stats.
 Identities = 20/113 (17%), Positives = 47/113 (41%), Gaps = 6/113 (5%)

Query: 346 EDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEET 405
           E +      F+  T+   +A  ++      L   G+  VE ++   I ++  ++G  E+ 
Sbjct: 18  EAAEEVVASFHHITEL--EAHGINRNDVQRLSEAGYCTVESISHCTIRKLVEVKGISEQK 75

Query: 406 AVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKT 458
           A +++       + + I      + L   ++L ++     ++   L E GI+T
Sbjct: 76  AAKLKETV---YKLVPIGFTTASQHLLQRQDLITLTTGSKEL-DKLLEGGIET 124


>gi|258573391|ref|XP_002540877.1| conserved hypothetical protein [Uncinocarpus reesii 1704]
 gi|237901143|gb|EEP75544.1| conserved hypothetical protein [Uncinocarpus reesii 1704]
          Length = 1819

 Score = 38.9 bits (90), Expect = 2.4,   Method: Composition-based stats.
 Identities = 32/136 (23%), Positives = 54/136 (39%), Gaps = 26/136 (19%)

Query: 81   LKVA--RDRDPSIDIGGVVSDPLPPMDFGRVAVQ-SAKQVIIQKVREAERDRQYL---EF 134
            L  A  ++      +  +V   +  +D     VQ + KQ  +        D  Y    + 
Sbjct: 1262 LSDAYLKEWQDEFQVDQIVRGRITLVDTEAGKVQMTLKQSAL--------DPNYKPPLQL 1313

Query: 135  KD-KVGEIISGTVKRVEYGNVIVDLGNS---DGVIRRDETI------SRENLRPGDRVKS 184
             D K G+I++G V++VE     V +  +    G+  R E        +R+    GD VK+
Sbjct: 1314 SDLKQGQIVTGKVRKVEEFGAFVTIDGTANLSGLCHRSEMAEQKVADARKLYEQGDLVKA 1373

Query: 185  YIYDVRREQRGPQVLL 200
             I  V  E+   Q+ L
Sbjct: 1374 KILKVDTEK--AQISL 1387


>gi|299133337|ref|ZP_07026532.1| ribosomal protein S1 [Afipia sp. 1NLS2]
 gi|298593474|gb|EFI53674.1| ribosomal protein S1 [Afipia sp. 1NLS2]
          Length = 566

 Score = 38.9 bits (90), Expect = 2.4,   Method: Composition-based stats.
 Identities = 34/191 (17%), Positives = 67/191 (35%), Gaps = 29/191 (15%)

Query: 25  DVVLSVMADSIQKA---------------ARSLYGTMSDIR-VEINPETGDISLFRLLEV 68
           +V L  + +++ +A                   +     +  V  N   G  ++     V
Sbjct: 79  EVFLDRIENALGEAVLSRDKARREESWGKLEKAFNANEKVHGVIFNQVKGGFTVDLDGAV 138

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                    Q+ ++  RD  P ++        +  MD  R  +  +++ ++++ R  +R 
Sbjct: 139 A---FLPRSQVDIRPIRDVAPLMNNPQP--FQILKMDRRRGNIVVSRRTVLEETRAEQRQ 193

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRV 182
                 +   G++I G VK +      VDLG  DG++   +          E L  G  V
Sbjct: 194 ELVQNLE--EGQVIDGVVKNITDYGAFVDLGGIDGLLHVTDIAWRRVNHPTEVLTIGQTV 251

Query: 183 KSYIYDVRREQ 193
           K  I  +  E 
Sbjct: 252 KVKIIKINHET 262


>gi|221236638|ref|YP_002519075.1| 30S ribosomal protein S1 [Caulobacter crescentus NA1000]
 gi|220965811|gb|ACL97167.1| SSU ribosomal protein S1P [Caulobacter crescentus NA1000]
          Length = 569

 Score = 38.9 bits (90), Expect = 2.4,   Method: Composition-based stats.
 Identities = 22/92 (23%), Positives = 39/92 (42%), Gaps = 8/92 (8%)

Query: 108 RVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRR 167
           R  +  +++ I+++ R  +R     +   + GEI  G VK +      VDLG  DG++  
Sbjct: 173 RGNIVVSRRAILEEARAEQRTELVSQL--QEGEIREGVVKNITDYGAFVDLGGIDGLLHV 230

Query: 168 DETI------SRENLRPGDRVKSYIYDVRREQ 193
            +          + L  GD VK  I  +  + 
Sbjct: 231 TDMSWKRVNHPSQVLAVGDTVKVQIVKINPDT 262


>gi|242280849|ref|YP_002992978.1| 30S ribosomal protein S1 [Desulfovibrio salexigens DSM 2638]
 gi|242123743|gb|ACS81439.1| ribosomal protein S1 [Desulfovibrio salexigens DSM 2638]
          Length = 581

 Score = 38.9 bits (90), Expect = 2.4,   Method: Composition-based stats.
 Identities = 30/103 (29%), Positives = 52/103 (50%), Gaps = 10/103 (9%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRE---NLRPGDRVKSYIYDVRREQ 193
            G I+SG V +V+   V++D+   S+G I   E +  +    +  GD+V  ++ + + E 
Sbjct: 32  EGSIVSGEVVKVDKDFVLIDVNFKSEGQIAVSEFLDADGNMTVAVGDKVDVFVAN-KNEN 90

Query: 194 RGPQVLLSRTHPQFMVKLFH--MEVPEIYNGIVQVKAVSRDPG 234
            G  + LSR   + M +LF    EV E   G+V+ + + R  G
Sbjct: 91  EGT-IHLSRDKAKRM-QLFDKLEEVQE-KEGVVEGRIIRRIKG 130


>gi|169346867|ref|ZP_02865815.1| alpha-N-acetylglucosaminidase family protein [Clostridium perfringens
            C str. JGS1495]
 gi|169296926|gb|EDS79050.1| alpha-N-acetylglucosaminidase family protein [Clostridium perfringens
            C str. JGS1495]
          Length = 2104

 Score = 38.9 bits (90), Expect = 2.4,   Method: Composition-based stats.
 Identities = 30/154 (19%), Positives = 56/154 (36%), Gaps = 26/154 (16%)

Query: 377  VAEGF---ADVEELACVKISEIASIEGF-------DEETAVEIQGRAREYLEGID----- 421
              EGF     +EE+  +  +   +I+ F       D+    EI       LE  +     
Sbjct: 1833 AEEGFESSTSLEEIRNITKTLKEAIDTFVESVNVIDKAQLEEIISSIESKLENAEGVYIP 1892

Query: 422  ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSV----DDLLGWSENK 477
              +++  + L  ++E+ +  G + +       + +   E     S     D+L    E  
Sbjct: 1893 NAIEELKKALDKAKEVLNNEGANEEDINK-AISDLTEAEANFELSKVPNKDELNSEIERA 1951

Query: 478  GGNIEKFDGF--LSSLGTPKDQVESMIIHA-RYK 508
             G +EK  GF  L  +    ++    I+ A R K
Sbjct: 1952 YGVLEKLKGFDHLEGIKIKLEEA---ILEAERVK 1982


>gi|120436200|ref|YP_861886.1| 30S ribosomal protein S1 [Gramella forsetii KT0803]
 gi|117578350|emb|CAL66819.1| 30S ribosomal protein S1 [Gramella forsetii KT0803]
          Length = 620

 Score = 38.9 bits (90), Expect = 2.4,   Method: Composition-based stats.
 Identities = 33/136 (24%), Positives = 55/136 (40%), Gaps = 7/136 (5%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLP---PMDFGRVAVQSAKQVIIQKVREAER 127
           EV++ T  + ++     D             P     +F     +     I  K  E   
Sbjct: 9   EVQDNTENVEVQDVAGMDSQSQPEQEKQQENPEKFLKEFNWHNYEEGIDPIDDKKLEEFE 68

Query: 128 DRQYLEFKD-KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSY 185
                 F D    E+++G V  +   + I+D+   S+GVI  +E     +L+ GD V+  
Sbjct: 69  KLVAANFVDTLDDEVVTGKVINITDRDAIIDINAKSEGVISLNEFRYNPDLKEGDDVEVL 128

Query: 186 IYDVRREQRGPQVLLS 201
           I DVR +  G Q++LS
Sbjct: 129 I-DVREDSTG-QLILS 142


>gi|16127817|ref|NP_422381.1| 30S ribosomal protein S1 [Caulobacter crescentus CB15]
 gi|13425331|gb|AAK25549.1| ribosomal protein S1 [Caulobacter crescentus CB15]
          Length = 565

 Score = 38.9 bits (90), Expect = 2.4,   Method: Composition-based stats.
 Identities = 22/92 (23%), Positives = 39/92 (42%), Gaps = 8/92 (8%)

Query: 108 RVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRR 167
           R  +  +++ I+++ R  +R     +   + GEI  G VK +      VDLG  DG++  
Sbjct: 169 RGNIVVSRRAILEEARAEQRTELVSQL--QEGEIREGVVKNITDYGAFVDLGGIDGLLHV 226

Query: 168 DETI------SRENLRPGDRVKSYIYDVRREQ 193
            +          + L  GD VK  I  +  + 
Sbjct: 227 TDMSWKRVNHPSQVLAVGDTVKVQIVKINPDT 258


>gi|45358785|ref|NP_988342.1| DNA repair and recombination protein RadA [Methanococcus
           maripaludis S2]
 gi|332319828|sp|P0CW59|RADA_METMP RecName: Full=DNA repair and recombination protein radA
 gi|45047651|emb|CAF30778.1| DNA repair and recombination protein radA [Methanococcus
           maripaludis S2]
          Length = 322

 Score = 38.9 bits (90), Expect = 2.4,   Method: Composition-based stats.
 Identities = 12/46 (26%), Positives = 18/46 (39%)

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
                 +   V    A  L+  G+ D  ++A   I E+  IEG  E
Sbjct: 1   MADVLTELPGVGPSTADKLIEGGYLDFMKIATATIGELTDIEGISE 46


>gi|313123536|ref|YP_004033795.1| ssu ribosomal protein s1p [Lactobacillus delbrueckii subsp.
           bulgaricus ND02]
 gi|312280099|gb|ADQ60818.1| SSU ribosomal protein S1P [Lactobacillus delbrueckii subsp.
           bulgaricus ND02]
 gi|325684297|gb|EGD26470.1| 30S ribosomal protein S1 [Lactobacillus delbrueckii subsp. lactis
           DSM 20072]
          Length = 401

 Score = 38.9 bits (90), Expect = 2.4,   Method: Composition-based stats.
 Identities = 35/192 (18%), Positives = 71/192 (36%), Gaps = 39/192 (20%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG 152
           IG  +   +  +D  +  +  + + +I++ RE   +    +    VG+++ G V R+   
Sbjct: 153 IGKTIKVKITEIDPAKNRLILSHKELIEEEREQAFENVASQLV--VGDVVEGRVSRLTNF 210

Query: 153 NVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQ 206
              VD+G  DG++   E          + L+ G  VK  +  +  ++    + + +T P 
Sbjct: 211 GSFVDIGGVDGLVHISEISYKHVDKPSDVLKVGQDVKVKVIGIDNDRHRISLSIKQTEPS 270

Query: 207 FMVK---------LFHMEV---------PEIYNGIVQVKAVSRDP-------------GS 235
              +         +   EV          E+ +GI  +  VS                G 
Sbjct: 271 PFEQATSSLNEGDVIEGEVKSLTNFGAFVEVADGIQGLVHVSEISYKHVDKPSDVLTVGQ 330

Query: 236 RAKLAVFSSDSS 247
           + K+ V + D S
Sbjct: 331 KVKVKVLNIDPS 342


>gi|317056439|ref|YP_004104906.1| hydroxymethylbutenyl pyrophosphate reductase [Ruminococcus albus 7]
 gi|315448708|gb|ADU22272.1| hydroxymethylbutenyl pyrophosphate reductase [Ruminococcus albus 7]
          Length = 656

 Score = 38.9 bits (90), Expect = 2.4,   Method: Composition-based stats.
 Identities = 29/121 (23%), Positives = 47/121 (38%), Gaps = 14/121 (11%)

Query: 90  SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR---EAERDRQYLEFKDK--VGEIISG 144
             D+  ++   +         V   KQ  +  VR     E+     +F D   VG  + G
Sbjct: 437 DFDLNDLLKQTVKFKILE---VNDVKQRAVGSVRAVAREEKAAAQSKFFDTASVGAEMEG 493

Query: 145 TVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQV 198
            VK +    V VDLG  DG++RR +          + +  GD+V   I D+  E +   +
Sbjct: 494 VVKSITDYGVFVDLGGVDGLVRRADLSWNRIKHPSDVVSIGDKVTVKIKDIDPETKKVSL 553

Query: 199 L 199
            
Sbjct: 554 T 554


>gi|265763497|ref|ZP_06092065.1| NAD-dependent DNA ligase [Bacteroides sp. 2_1_16]
 gi|263256105|gb|EEZ27451.1| NAD-dependent DNA ligase [Bacteroides sp. 2_1_16]
          Length = 652

 Score = 38.9 bits (90), Expect = 2.4,   Method: Composition-based stats.
 Identities = 14/59 (23%), Positives = 28/59 (47%)

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
           A N+ E     +   GF  +  +  V  +++  IEGF +  +  I    R+ ++G+D+ 
Sbjct: 433 AENMGEETLSKIFNAGFTSIPAILNVTFNDLIKIEGFGDSISNIILENNRKIMQGVDLA 491


>gi|148594010|emb|CAL63574.1| ribosomal protein S1 [Sinorhizobium americanum]
          Length = 403

 Score = 38.9 bits (90), Expect = 2.4,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 43/101 (42%), Gaps = 8/101 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD  R  +  +++ ++++ R  +R       +   G+++ G VK +      VDL
Sbjct: 36  FEILKMDKRRGNIVVSRRTVLEESRAEQRSEIVQNLE--EGQVVEGVVKNITDYGAFVDL 93

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   +          E L  G +VK  I  + +E 
Sbjct: 94  GGIDGLLHVTDMAWRRVNHPSEILSIGQQVKVQIIRINQET 134


>gi|167644076|ref|YP_001681739.1| 30S ribosomal protein S1 [Caulobacter sp. K31]
 gi|167346506|gb|ABZ69241.1| ribosomal protein S1 [Caulobacter sp. K31]
          Length = 569

 Score = 38.9 bits (90), Expect = 2.4,   Method: Composition-based stats.
 Identities = 22/92 (23%), Positives = 39/92 (42%), Gaps = 8/92 (8%)

Query: 108 RVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRR 167
           R  +  +++ I+++ R  +R     +   + GEI  G VK +      VDLG  DG++  
Sbjct: 173 RGNIVVSRRAILEEARAEQRTELVSQL--QEGEIREGVVKNITDYGAFVDLGGIDGLLHV 230

Query: 168 DETI------SRENLRPGDRVKSYIYDVRREQ 193
            +          + L  GD VK  I  +  + 
Sbjct: 231 TDMSWKRVNHPSQVLAVGDTVKVQIVKINPDT 262


>gi|150398644|ref|YP_001329111.1| 30S ribosomal protein S1 [Sinorhizobium medicae WSM419]
 gi|150030159|gb|ABR62276.1| ribosomal protein S1 [Sinorhizobium medicae WSM419]
          Length = 568

 Score = 38.9 bits (90), Expect = 2.4,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 43/101 (42%), Gaps = 8/101 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD  R  +  +++ ++++ R  +R       +   G+++ G VK +      VDL
Sbjct: 160 FEILKMDKRRGNIVVSRRTVLEESRAEQRSEIVQNLE--EGQVVEGVVKNITDYGAFVDL 217

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   +          E L  G +VK  I  + +E 
Sbjct: 218 GGIDGLLHVTDMAWRRVNHPSEILNIGQQVKVQIIRINQET 258


>gi|53712335|ref|YP_098327.1| 30S ribosomal protein S1 [Bacteroides fragilis YCH46]
 gi|60680506|ref|YP_210650.1| 30S ribosomal protein S1 [Bacteroides fragilis NCTC 9343]
 gi|253563628|ref|ZP_04841085.1| 30S ribosomal protein S1 [Bacteroides sp. 3_2_5]
 gi|255007845|ref|ZP_05279971.1| 30S ribosomal protein S1 [Bacteroides fragilis 3_1_12]
 gi|265762527|ref|ZP_06091095.1| ribosomal protein S1 [Bacteroides sp. 2_1_16]
 gi|313145551|ref|ZP_07807744.1| 30S ribosomal protein S1 [Bacteroides fragilis 3_1_12]
 gi|52215200|dbj|BAD47793.1| 30S ribosomal protein S1 [Bacteroides fragilis YCH46]
 gi|60491940|emb|CAH06700.1| putative 30S ribosomal protein S1 [Bacteroides fragilis NCTC 9343]
 gi|251947404|gb|EES87686.1| 30S ribosomal protein S1 [Bacteroides sp. 3_2_5]
 gi|263255135|gb|EEZ26481.1| ribosomal protein S1 [Bacteroides sp. 2_1_16]
 gi|301162043|emb|CBW21587.1| putative 30S ribosomal protein S1 [Bacteroides fragilis 638R]
 gi|313134318|gb|EFR51678.1| 30S ribosomal protein S1 [Bacteroides fragilis 3_1_12]
          Length = 597

 Score = 38.9 bits (90), Expect = 2.4,   Method: Composition-based stats.
 Identities = 26/80 (32%), Positives = 44/80 (55%), Gaps = 5/80 (6%)

Query: 125 AERDRQYLEFKDKVG--EIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
            E ++ Y    +KV   E++ GTV  +    V+V++G  SDG+I  +E     +L+ GD 
Sbjct: 30  EELEKAYDGTLNKVNDREVVDGTVIAMNKREVVVNIGYKSDGIIPLNEFRYNPDLKVGDT 89

Query: 182 VKSYIYDVRREQRGPQVLLS 201
           V+ YI    +E +  Q++LS
Sbjct: 90  VEVYIE--NQEDKKGQLVLS 107


>gi|167756799|ref|ZP_02428926.1| hypothetical protein CLORAM_02348 [Clostridium ramosum DSM 1402]
 gi|167702974|gb|EDS17553.1| hypothetical protein CLORAM_02348 [Clostridium ramosum DSM 1402]
          Length = 718

 Score = 38.5 bits (89), Expect = 2.4,   Method: Composition-based stats.
 Identities = 27/125 (21%), Positives = 46/125 (36%), Gaps = 15/125 (12%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           +  +  I+        +     G V +    Q  I K  E          K +VGE+  G
Sbjct: 578 KTINEIIEQSD--GVKIDIEQDGTVVIYHYDQAAINKAVELIEKIVK---KAQVGEVYDG 632

Query: 145 TVKRVEYGNVIVDL-GNSDGVIRRDETIS------RENLRPGDRVKSYIYDVRREQRGPQ 197
            V RVE     ++L   +DG +   +          E ++ GD +K  +  V  + +   
Sbjct: 633 KVVRVEDNYAFINLFDGTDGFLHISDYAYERTKKMGEVIKLGDIIKVKVTKVDDKGK--- 689

Query: 198 VLLSR 202
           V +SR
Sbjct: 690 VNVSR 694


>gi|10800126|gb|AAG23356.1|AF222928_1 SAMSN1 [Mus musculus]
          Length = 364

 Score = 38.5 bits (89), Expect = 2.4,   Method: Composition-based stats.
 Identities = 24/109 (22%), Positives = 54/109 (49%), Gaps = 9/109 (8%)

Query: 339 IDIITEEEDS-------INRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVK 391
           +D+I+EEE +        +R+++ ++  Q F++ I++ E  + LL+  G+  +++L  +K
Sbjct: 211 VDVISEEEAAPKKIKVPRSRRRENHQTIQEFLERIHLQEYTSTLLL-NGYETLDDLKDIK 269

Query: 392 ISEIASIEGFDEETAVEIQGRAREYL-EGIDITLQKKIRELGVSEELCS 439
            S +  +   D E    +   A   L E   +  +K+   L  + ++ S
Sbjct: 270 ESHLIELNIADPEDRARLLSAAESLLDEETTVEHEKESVPLSSNPDILS 318


>gi|14521089|ref|NP_126564.1| ski2-like helicase [Pyrococcus abyssi GE5]
 gi|18203529|sp|Q9V0A9|HELS_PYRAB RecName: Full=Putative ski2-type helicase
 gi|5458306|emb|CAB49795.1| DNA helicase [Pyrococcus abyssi GE5]
          Length = 715

 Score = 38.5 bits (89), Expect = 2.4,   Method: Composition-based stats.
 Identities = 15/48 (31%), Positives = 20/48 (41%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEI 409
            M+   V    A  L   GF D+E +   K SE+  IEG   +    I
Sbjct: 643 LMELPMVGRKRARALYNAGFKDLESIRNAKPSELLRIEGIGAKIVEGI 690


>gi|284031350|ref|YP_003381281.1| DNA-directed DNA polymerase [Kribbella flavida DSM 17836]
 gi|283810643|gb|ADB32482.1| DNA-directed DNA polymerase [Kribbella flavida DSM 17836]
          Length = 483

 Score = 38.5 bits (89), Expect = 2.4,   Method: Composition-based stats.
 Identities = 29/153 (18%), Positives = 55/153 (35%), Gaps = 17/153 (11%)

Query: 331 ASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFA--DVEELA 388
           A+ L G   ++  E   ++  Q          ++ +++DE     L A G     VE++ 
Sbjct: 71  AAYL-GTRFEVYRETSQAVMAQM---RALSPLVEPLSLDEAFVD-LAASGLRDLTVEDVE 125

Query: 389 CVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK----KIRELGVSEELCS----- 439
            +     A+I          +     + +  I   L K     +   G   E  +     
Sbjct: 126 AIAADLKAAIRSATGGLTASVGAGTSKLIAKIASDLDKPDGVVVVPPGTEAEFLAPMQVT 185

Query: 440 -IPGIDSKIKVALGENGIKTMEDLAGCSVDDLL 471
            IPG+       L   G++T+ DL   + D+L+
Sbjct: 186 VIPGVGPATAQRLSMAGVRTVADLQQLAEDELI 218


>gi|20067707|emb|CAD29095.1| chimeric DNA-directed DNA polymerase bf2-2 [synthetic construct]
          Length = 327

 Score = 38.5 bits (89), Expect = 2.4,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
            L + GIKT+EDL
Sbjct: 113 KLVDEGIKTLEDL 125


>gi|320531284|ref|ZP_08032260.1| 30S ribosomal protein S1 [Actinomyces sp. oral taxon 171 str.
           F0337]
 gi|320136487|gb|EFW28459.1| 30S ribosomal protein S1 [Actinomyces sp. oral taxon 171 str.
           F0337]
          Length = 484

 Score = 38.5 bits (89), Expect = 2.5,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V+   V++D+G  ++GVI   E          E +  GD +++ +   ++
Sbjct: 36  GDIVEGTVVKVDRDEVLLDIGYKTEGVILARELSIKHDVDPDEIVSVGDEIEALVL--QK 93

Query: 192 EQRGPQVLLS 201
           E +  ++LLS
Sbjct: 94  EDKEGRLLLS 103


>gi|295691411|ref|YP_003595104.1| 30S ribosomal protein S1 [Caulobacter segnis ATCC 21756]
 gi|295433314|gb|ADG12486.1| ribosomal protein S1 [Caulobacter segnis ATCC 21756]
          Length = 569

 Score = 38.5 bits (89), Expect = 2.5,   Method: Composition-based stats.
 Identities = 22/92 (23%), Positives = 39/92 (42%), Gaps = 8/92 (8%)

Query: 108 RVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRR 167
           R  +  +++ I+++ R  +R     +   + GEI  G VK +      VDLG  DG++  
Sbjct: 173 RGNIVVSRRAILEEARAEQRTELVSQL--QEGEIREGVVKNITDYGAFVDLGGIDGLLHV 230

Query: 168 DETI------SRENLRPGDRVKSYIYDVRREQ 193
            +          + L  GD VK  I  +  + 
Sbjct: 231 TDMSWKRVNHPSQVLAVGDTVKVQIVKINPDT 262


>gi|222529318|ref|YP_002573200.1| hydroxymethylbutenyl pyrophosphate reductase [Caldicellulosiruptor
           bescii DSM 6725]
 gi|222456165|gb|ACM60427.1| hydroxymethylbutenyl pyrophosphate reductase [Caldicellulosiruptor
           bescii DSM 6725]
          Length = 663

 Score = 38.5 bits (89), Expect = 2.5,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 33/57 (57%), Gaps = 7/57 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISR------ENLRPGDRVKSYIYD 188
           GE+++G + +VE   ++VD+G  ++G+I +DE I        +  + G+ +++ +  
Sbjct: 305 GEVVNGRIIKVEEDYLLVDIGYKAEGIIYKDEVIKNGNVNLKDLFKIGEVIEAVVIK 361


>gi|37778910|gb|AAO72729.1| Rad51 [Trypanosoma cruzi]
          Length = 371

 Score = 38.5 bits (89), Expect = 2.5,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 21/49 (42%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           +++  +       L+  GF  VE +A      I +++G  E  A +I  
Sbjct: 59  LESYGIASADIKKLMESGFYTVESVAYAPKKNILAVKGISETKADKIMA 107


>gi|15964008|ref|NP_384361.1| 30S ribosomal protein S1 [Sinorhizobium meliloti 1021]
 gi|307319307|ref|ZP_07598736.1| ribosomal protein S1 [Sinorhizobium meliloti AK83]
 gi|7404449|sp|P14129|RS1_RHIME RecName: Full=30S ribosomal protein S1
 gi|15073184|emb|CAC41692.1| 30S ribosomal protein S1 [Sinorhizobium meliloti 1021]
 gi|306895143|gb|EFN25900.1| ribosomal protein S1 [Sinorhizobium meliloti AK83]
          Length = 568

 Score = 38.5 bits (89), Expect = 2.5,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 43/101 (42%), Gaps = 8/101 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD  R  +  +++ ++++ R  +R       +   G+++ G VK +      VDL
Sbjct: 160 FEILKMDKRRGNIVVSRRTVLEESRAEQRSEIVQNLE--EGQVVEGVVKNITDYGAFVDL 217

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   +          E L  G +VK  I  + +E 
Sbjct: 218 GGIDGLLHVTDMAWRRVNHPSEILNIGQQVKVQIIRINQET 258


>gi|71409616|ref|XP_807143.1| DNA repair protein RAD51 [Trypanosoma cruzi strain CL Brener]
 gi|71652370|ref|XP_814843.1| DNA repair protein RAD51 [Trypanosoma cruzi strain CL Brener]
 gi|70871080|gb|EAN85292.1| DNA repair protein RAD51, putative [Trypanosoma cruzi]
 gi|70879851|gb|EAN92992.1| DNA repair protein RAD51, putative [Trypanosoma cruzi]
 gi|322824450|gb|EFZ29854.1| DNA repair protein RAD51, putative [Trypanosoma cruzi]
          Length = 371

 Score = 38.5 bits (89), Expect = 2.5,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 21/49 (42%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           +++  +       L+  GF  VE +A      I +++G  E  A +I  
Sbjct: 59  LESYGIASADIKKLMESGFYTVESVAYAPKKNILAVKGISETKADKIMA 107


>gi|291545113|emb|CBL18222.1| (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and
           DMAPP forming) [Ruminococcus sp. 18P13]
          Length = 661

 Score = 38.5 bits (89), Expect = 2.5,   Method: Composition-based stats.
 Identities = 26/104 (25%), Positives = 46/104 (44%), Gaps = 9/104 (8%)

Query: 101 LPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGN 160
           +   +  R AV S K V   + ++A R + +     +VG++ +G VK +      VDLG 
Sbjct: 447 IEVNEQRRRAVGSIKAVAKAQ-KDAARAKFWE--TAEVGQVFTGEVKSLTSYGAFVDLGG 503

Query: 161 SDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQV 198
            DG++   E          E ++ GD ++ YI  +  E     +
Sbjct: 504 IDGMVHISELSWKRIKHPSEVVKVGDMLEVYIKALDPEANRISL 547


>gi|20067713|emb|CAD29142.1| chimeric DNA-directed DNA polymerase bf2-7 [synthetic construct]
          Length = 329

 Score = 38.5 bits (89), Expect = 2.5,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
            L + GIKT+EDL
Sbjct: 113 KLVDEGIKTLEDL 125


>gi|320162442|ref|YP_004175667.1| putative 30S ribosomal protein S1 [Anaerolinea thermophila UNI-1]
 gi|319996296|dbj|BAJ65067.1| putative 30S ribosomal protein S1 [Anaerolinea thermophila UNI-1]
          Length = 408

 Score = 38.5 bits (89), Expect = 2.5,   Method: Composition-based stats.
 Identities = 30/134 (22%), Positives = 54/134 (40%), Gaps = 16/134 (11%)

Query: 75  YTCQISLK--------VARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
              QISL          + ++  S  +G  +   +  +D  R  +  +++V   + RE  
Sbjct: 156 PASQISLSRRASMGSGESPEQRWSKMVGEEIDVCVIEVDRERRRLILSERVATPETRETL 215

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGD 180
           ++R         GEI +G V  +      V++  +DG++   E          E L+ G 
Sbjct: 216 KERVIETLA--EGEIRTGRVTSLADFGAFVNISGADGLVHLSEISWDRIKHPSEVLQVGQ 273

Query: 181 RVKSYIYDVRREQR 194
            VK  +  V RE+R
Sbjct: 274 EVKVKVISVDREKR 287


>gi|255531084|ref|YP_003091456.1| RNA binding S1 domain-containing protein [Pedobacter heparinus DSM
           2366]
 gi|255344068|gb|ACU03394.1| RNA binding S1 domain protein [Pedobacter heparinus DSM 2366]
          Length = 644

 Score = 38.5 bits (89), Expect = 2.5,   Method: Composition-based stats.
 Identities = 22/66 (33%), Positives = 37/66 (56%), Gaps = 3/66 (4%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
            GEIISGTV  +   +V++++G  SDG++   E     +L+ GD+V  ++          
Sbjct: 87  QGEIISGTVVSINNKDVVLNVGFKSDGLVSTSEFRDTPDLKVGDKVDVFVEAPEDANG-- 144

Query: 197 QVLLSR 202
           Q++LSR
Sbjct: 145 QLILSR 150



 Score = 37.4 bits (86), Expect = 6.2,   Method: Composition-based stats.
 Identities = 26/130 (20%), Positives = 58/130 (44%), Gaps = 10/130 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +K  RD D  + +G  +   +  ++     V  + +++I+   E+++   
Sbjct: 192 EAFLPGSQIDIKPIRDYD--VYVGKTMEFKVVKINHEFKNVVVSHKILIEDDLESQKVEI 249

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
             + +   G+++ GTVK +    V +DLG  DG++   +         +E L   +++  
Sbjct: 250 VSKLE--KGQVLEGTVKNITDFGVFIDLGGVDGLLHITDISWGRIEHPKEVLSLDEKINV 307

Query: 185 YIYDVRREQR 194
            + D   E++
Sbjct: 308 VVLDFDDEKK 317


>gi|126303417|ref|XP_001373104.1| PREDICTED: similar to beta-polymerase [Monodelphis domestica]
          Length = 335

 Score = 38.5 bits (89), Expect = 2.5,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   ++G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLDGVGAKIAEKI----DEFLSTGKLRKLEKIRQDDTSSSINFLTRVSGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
              + GIKT+EDL
Sbjct: 113 KFVDEGIKTLEDL 125


>gi|27468083|ref|NP_764720.1| 30S ribosomal protein S1 [Staphylococcus epidermidis ATCC 12228]
 gi|27315628|gb|AAO04762.1|AE016747_259 30S ribosomal protein S1 [Staphylococcus epidermidis ATCC 12228]
          Length = 240

 Score = 38.5 bits (89), Expect = 2.5,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 34/65 (52%), Gaps = 8/65 (12%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           K G+ ++G V++VE   V+V +  G  +G+I   +          E ++ GD V++Y+  
Sbjct: 14  KEGDKVTGEVQQVEDKQVVVHINGGKFNGIIPISQLSTHHIENPSEVVKVGDEVEAYVTK 73

Query: 189 VRREQ 193
           +  ++
Sbjct: 74  IEFDE 78


>gi|329934767|ref|ZP_08284808.1| branched-chain amino acid aminotransferase [Streptomyces
           griseoaurantiacus M045]
 gi|329305589|gb|EGG49445.1| branched-chain amino acid aminotransferase [Streptomyces
           griseoaurantiacus M045]
          Length = 333

 Score = 38.5 bits (89), Expect = 2.5,   Method: Composition-based stats.
 Identities = 12/44 (27%), Positives = 19/44 (43%), Gaps = 2/44 (4%)

Query: 433 VSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN 476
           V+ +L  + GI     V L  + + T  D      D+L+G  E 
Sbjct: 236 VTADL--LEGITRDTAVTLAADLLDTPTDFRDLGRDELMGADEV 277


>gi|320161288|ref|YP_004174512.1| hypothetical protein ANT_18860 [Anaerolinea thermophila UNI-1]
 gi|319995141|dbj|BAJ63912.1| hypothetical protein ANT_18860 [Anaerolinea thermophila UNI-1]
          Length = 134

 Score = 38.5 bits (89), Expect = 2.5,   Method: Composition-based stats.
 Identities = 23/126 (18%), Positives = 43/126 (34%), Gaps = 27/126 (21%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKI-----SEIASIEGFDEETAVEIQGRAREY 416
            +    + E+ A  L A G + VE+L           ++A   G  ++  ++   RA   
Sbjct: 4   LVDIEGIGEVYAEKLKAAGISSVEKLLEAGSTPKGREDLAKQTGISKDLILKWVNRA--- 60

Query: 417 LEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN 476
                              +L  + GI S+    L   G+ T+ +LA  + + L    E 
Sbjct: 61  -------------------DLYRVKGIGSEYSDLLEAAGVDTVVELAQRNPEALYKKLEE 101

Query: 477 KGGNIE 482
                +
Sbjct: 102 VNAEKK 107


>gi|148594060|emb|CAL63599.1| ribosomal protein S1 [Sinorhizobium kostiense]
 gi|148594062|emb|CAL63600.1| ribosomal protein S1 [Sinorhizobium kostiense]
 gi|148594068|emb|CAL63603.1| ribosomal protein S1 [Sinorhizobium kostiense]
          Length = 403

 Score = 38.5 bits (89), Expect = 2.5,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 43/101 (42%), Gaps = 8/101 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD  R  +  +++ ++++ R  +R       +   G+++ G VK +      VDL
Sbjct: 36  FEILKMDKRRGNIVVSRRTVLEESRAEQRSEIVQNLE--EGQVVEGVVKNITDYGAFVDL 93

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   +          E L  G +VK  I  + +E 
Sbjct: 94  GGIDGLLHVTDMAWRRVNHPSEILSIGQQVKVQIIRINQET 134


>gi|74027055|gb|AAZ94621.1| Rad51 [Trypanosoma cruzi]
          Length = 371

 Score = 38.5 bits (89), Expect = 2.5,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 21/49 (42%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           +++  +       L+  GF  VE +A      I +++G  E  A +I  
Sbjct: 59  LESYGIASADIKKLMESGFYTVESVAYAPKKNILAVKGISETKADKIMA 107


>gi|49483437|ref|YP_040661.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           subsp. aureus MRSA252]
 gi|257425328|ref|ZP_05601753.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus 55/2053]
 gi|257427989|ref|ZP_05604387.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus 65-1322]
 gi|257430622|ref|ZP_05607004.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus 68-397]
 gi|257433382|ref|ZP_05609740.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus E1410]
 gi|257436224|ref|ZP_05612271.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus M876]
 gi|282903829|ref|ZP_06311717.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus C160]
 gi|282905592|ref|ZP_06313447.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus Btn1260]
 gi|282908567|ref|ZP_06316397.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus WW2703/97]
 gi|282910846|ref|ZP_06318649.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus WBG10049]
 gi|282914051|ref|ZP_06321838.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus M899]
 gi|282916534|ref|ZP_06324292.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus D139]
 gi|282918973|ref|ZP_06326708.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus C427]
 gi|282924096|ref|ZP_06331772.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus C101]
 gi|283770338|ref|ZP_06343230.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus H19]
 gi|283958017|ref|ZP_06375468.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus A017934/97]
 gi|293501083|ref|ZP_06666934.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus 58-424]
 gi|293526631|ref|ZP_06671316.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus M1015]
 gi|297591281|ref|ZP_06949919.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus MN8]
 gi|81651256|sp|Q6GHG1|PNP_STAAR RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|49241566|emb|CAG40252.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus MRSA252]
 gi|257271785|gb|EEV03923.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus 55/2053]
 gi|257274830|gb|EEV06317.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus 65-1322]
 gi|257278750|gb|EEV09369.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus 68-397]
 gi|257281475|gb|EEV11612.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus E1410]
 gi|257284506|gb|EEV14626.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus M876]
 gi|282314068|gb|EFB44460.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus C101]
 gi|282316783|gb|EFB47157.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus C427]
 gi|282319021|gb|EFB49373.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus D139]
 gi|282322119|gb|EFB52443.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus M899]
 gi|282325451|gb|EFB55760.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus WBG10049]
 gi|282327629|gb|EFB57912.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus WW2703/97]
 gi|282330884|gb|EFB60398.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus Btn1260]
 gi|282595447|gb|EFC00411.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus C160]
 gi|283460485|gb|EFC07575.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus H19]
 gi|283790166|gb|EFC28983.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus A017934/97]
 gi|290920703|gb|EFD97766.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus M1015]
 gi|291096088|gb|EFE26349.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus 58-424]
 gi|297576167|gb|EFH94883.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus MN8]
 gi|312438346|gb|ADQ77417.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus TCH60]
 gi|315194162|gb|EFU24555.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           subsp. aureus CGS00]
          Length = 698

 Score = 38.5 bits (89), Expect = 2.5,   Method: Composition-based stats.
 Identities = 29/183 (15%), Positives = 67/183 (36%), Gaps = 20/183 (10%)

Query: 21  SIDRDVVLSVMADSIQKAARS-LYGTMSDIRVEINPETGDISLFRLLEVVEEVE-NYTCQ 78
            + R+++   +  +     R      M+ +   I+    ++S +    V   ++ +    
Sbjct: 517 GLTREIIEEALEQA-----RRGRLEIMNHMLQTIDQPRTELSAYAPKVVTMTIKPDKIRD 571

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           +     +  +   +I       L     G + + +  Q +I + RE   +        +V
Sbjct: 572 VIGPGGKKIN---EIIDETGVKLDIEQDGTIFIGAVDQAMINRAREIIEEITRE---AEV 625

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISR-------ENLRPGDRVKSYIYDVRR 191
           G+    TVKR+E     V L      +     IS+       + L+ GD ++  I ++ +
Sbjct: 626 GQTYQATVKRIEKYGAFVGLFPGKDALLHISQISKNRIEKVEDVLKIGDTIEVKITEIDK 685

Query: 192 EQR 194
           + R
Sbjct: 686 QGR 688


>gi|322372151|ref|ZP_08046692.1| 50S ribosomal protein L32e [Haladaptatus paucihalophilus DX253]
 gi|320548160|gb|EFW89833.1| 50S ribosomal protein L32e [Haladaptatus paucihalophilus DX253]
          Length = 234

 Score = 38.5 bits (89), Expect = 2.5,   Method: Composition-based stats.
 Identities = 10/57 (17%), Positives = 21/57 (36%)

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
             +  +       V E  A  L   G+  VE++      +++ ++G     A  I+ 
Sbjct: 1   MADEPEGIEDISGVGESKAESLREAGYESVEDIKAASQDDLSEVDGIGNALAARIKA 57


>gi|307306420|ref|ZP_07586164.1| ribosomal protein S1 [Sinorhizobium meliloti BL225C]
 gi|306902262|gb|EFN32859.1| ribosomal protein S1 [Sinorhizobium meliloti BL225C]
          Length = 568

 Score = 38.5 bits (89), Expect = 2.5,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 43/101 (42%), Gaps = 8/101 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD  R  +  +++ ++++ R  +R       +   G+++ G VK +      VDL
Sbjct: 160 FEILKMDKRRGNIVVSRRTVLEESRAEQRSEIVQNLE--EGQVVEGVVKNITDYGAFVDL 217

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   +          E L  G +VK  I  + +E 
Sbjct: 218 GGIDGLLHVTDMAWRRVNHPSEILNIGQQVKVQIIRINQET 258


>gi|297584436|ref|YP_003700216.1| RNA-binding S1 domain-containing protein [Bacillus selenitireducens
           MLS10]
 gi|297142893|gb|ADH99650.1| RNA binding S1 domain protein [Bacillus selenitireducens MLS10]
          Length = 388

 Score = 38.5 bits (89), Expect = 2.5,   Method: Composition-based stats.
 Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 6/61 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRRE 192
           GE++SGTV+R+    V VD+G  DG++   +          E +  GD VK  +  V  +
Sbjct: 189 GEVVSGTVQRITSFGVFVDIGGVDGLVHISQLSHEHIETPSEVVSEGDEVKVKVLSVDPD 248

Query: 193 Q 193
            
Sbjct: 249 N 249


>gi|257065343|ref|YP_003145015.1| DNA ligase, NAD-dependent [Slackia heliotrinireducens DSM 20476]
 gi|256792996|gb|ACV23666.1| DNA ligase, NAD-dependent [Slackia heliotrinireducens DSM 20476]
          Length = 708

 Score = 38.5 bits (89), Expect = 2.5,   Method: Composition-based stats.
 Identities = 22/117 (18%), Positives = 45/117 (38%), Gaps = 10/117 (8%)

Query: 377 VAEGFADVEELACVKISEIASIEGFDEETAVEIQ-----GRAREYLEGIDITLQKKIREL 431
           +A  +  +E+L       +A ++G     A  I         RE +  ++        E+
Sbjct: 556 IAAAYPSMEKLMNATEEGLAQVDGIGAVIAKSIVTFLATEDNREVIHRLERAGVTMADEV 615

Query: 432 GVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFL 488
             S+   ++ GI   +  +L E+G+   E     + D L        G++ K  G++
Sbjct: 616 KESDIPQTLAGITFVLTGSLTESGMTRTE-----AGDRLKAMGAKVSGSVSKKTGYV 667


>gi|184200835|ref|YP_001855042.1| 30S ribosomal protein S1 [Kocuria rhizophila DC2201]
 gi|183581065|dbj|BAG29536.1| 30S ribosomal protein S1 [Kocuria rhizophila DC2201]
          Length = 493

 Score = 38.5 bits (89), Expect = 2.5,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++ GTV +V+   V++D+G  ++GVI   E          + +  GD V++ +    +
Sbjct: 33  GDLVEGTVVKVDRDEVLLDIGYKTEGVIPSRELSIKHDINPDDVVAVGDEVEALVL--PK 90

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 91  EDKEGRLILS 100


>gi|148594016|emb|CAL63577.1| ribosomal protein S1 [Sinorhizobium xinjiangense]
 gi|148594028|emb|CAL63583.1| ribosomal protein S1 [Sinorhizobium xinjiangense]
 gi|148594038|emb|CAL63588.1| ribosomal protein S1 [Sinorhizobium fredii]
 gi|148594044|emb|CAL63591.1| ribosomal protein S1 [Sinorhizobium fredii]
 gi|148594046|emb|CAL63592.1| ribosomal protein S1 [Sinorhizobium fredii]
 gi|148594066|emb|CAL63602.1| ribosomal protein S1 [Sinorhizobium fredii]
          Length = 403

 Score = 38.5 bits (89), Expect = 2.5,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 43/101 (42%), Gaps = 8/101 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD  R  +  +++ ++++ R  +R       +   G+++ G VK +      VDL
Sbjct: 36  FEILKMDKRRGNIVVSRRTVLEESRAEQRSEIVQNLE--EGQVVEGVVKNITDYGAFVDL 93

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   +          E L  G +VK  I  + +E 
Sbjct: 94  GGIDGLLHVTDMAWRRVNHPSEILSIGQQVKVQIIRINQET 134


>gi|57505916|ref|ZP_00371840.1| hypothetical protein CUPA0052 [Campylobacter upsaliensis RM3195]
 gi|57015716|gb|EAL52506.1| hypothetical protein CUPA0052 [Campylobacter upsaliensis RM3195]
          Length = 221

 Score = 38.5 bits (89), Expect = 2.5,   Method: Composition-based stats.
 Identities = 29/168 (17%), Positives = 55/168 (32%), Gaps = 22/168 (13%)

Query: 86  DRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE-----FKDKV-- 138
           + +       ++       D G+V  +  K  +  K +   R   Y E     FK++V  
Sbjct: 35  ELNFEFQDKNLIIYENFINDLGQVRKRVVK--LSSKNKNKLRIYLYEEIIALLFKERVRK 92

Query: 139 ---GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISREN----LRPGDRVKSYIYDVRR 191
               +II G +       + +              +  E           ++ +IY V  
Sbjct: 93  IKKQKIILGKIIDKSSFGLTLQTEYGKAYAPYKLLLKHEQKAGFYALNQMLEFHIYKVSV 152

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
           + +G  ++L RT     + L       I N    +  + R  G R K+
Sbjct: 153 KNKGLNLILDRTSKALALHLCRQ----ILNS--HIFDIKRAFGVRTKI 194


>gi|70726436|ref|YP_253350.1| 30S ribosomal protein S1 [Staphylococcus haemolyticus JCSC1435]
 gi|84029458|sp|Q4L6I1|RS1_STAHJ RecName: Full=30S ribosomal protein S1
 gi|68447160|dbj|BAE04744.1| 30S ribosomal protein S1 [Staphylococcus haemolyticus JCSC1435]
          Length = 392

 Score = 38.5 bits (89), Expect = 2.6,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 34/65 (52%), Gaps = 8/65 (12%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           K G+ ++G V++VE   V+V +  G  +G+I   +          E ++ GD +++Y+  
Sbjct: 14  KEGDKVTGEVQQVEDKQVVVHINGGKFNGIIPISQLSTHHIENPSEVVKQGDEIEAYVTK 73

Query: 189 VRREQ 193
           +  ++
Sbjct: 74  IEVDE 78


>gi|126459376|ref|YP_001055654.1| Fis family transcriptional regulator [Pyrobaculum calidifontis JCM
           11548]
 gi|126249097|gb|ABO08188.1| transcriptional regulator, Fis family [Pyrobaculum calidifontis JCM
           11548]
          Length = 312

 Score = 38.5 bits (89), Expect = 2.6,   Method: Composition-based stats.
 Identities = 15/73 (20%), Positives = 31/73 (42%), Gaps = 6/73 (8%)

Query: 435 EELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTP 494
           + L  + G+  K    L E G+ ++E LA  +V++L+         ++     +  +GT 
Sbjct: 8   DPLEGLEGVGPKTLERLRELGVTSVEHLAEFTVEELVEAGVEYDRAVKILQQAIQRVGTT 67

Query: 495 KDQVESMIIHARY 507
           +       + AR 
Sbjct: 68  RP------MTARE 74


>gi|2244822|emb|CAB10245.1| RNA polymerase II fifth largest subunit like protein [Arabidopsis
           thaliana]
 gi|7268172|emb|CAB78508.1| RNA polymerase II fifth largest subunit like protein [Arabidopsis
           thaliana]
          Length = 161

 Score = 38.5 bits (89), Expect = 2.6,   Method: Composition-based stats.
 Identities = 25/112 (22%), Positives = 42/112 (37%), Gaps = 27/112 (24%)

Query: 108 RVAVQSAKQVIIQKVREAERDRQY------LEFKDKVGEIISGTVKRVEYGNVIVDLGNS 161
            VAV +  ++   K+RE   +  +      + FK   GEII G V +V    V +  G  
Sbjct: 32  YVAVTTLDKIGEGKIREHTGEVLFPVMFSGMTFKIFKGEIIHGVVHKVLKHGVFMRCGPI 91

Query: 162 DGV------IRRDETISREN----------LRPGDRVKSYI-----YDVRRE 192
           + V      +   + I  EN          ++    V+  +      +V RE
Sbjct: 92  ENVYLSYTKMPDYKYIPGENPIFMNEKTSRIQVETTVRVVVIGIKWMEVERE 143


>gi|88810653|ref|ZP_01125910.1| 30S ribosomal protein S1 [Nitrococcus mobilis Nb-231]
 gi|88792283|gb|EAR23393.1| 30S ribosomal protein S1 [Nitrococcus mobilis Nb-231]
          Length = 563

 Score = 38.5 bits (89), Expect = 2.6,   Method: Composition-based stats.
 Identities = 25/114 (21%), Positives = 49/114 (42%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RD +   G  +   +  +D  R  V  +++ ++++   AER+    +   + G+++ G V
Sbjct: 142 RDTTYLEGKDLEFKVIKLDPRRNNVVVSRRAVVEEEYSAEREALLEKL--QEGQVLKGIV 199

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++   +          E +  GD V   +    RE+ 
Sbjct: 200 KNLTDYGAFVDLGGIDGLLHITDMAWRRVKHPSEVVNVGDEVDVKVLKFDRERN 253


>gi|88703478|ref|ZP_01101194.1| DNA ligase [Congregibacter litoralis KT71]
 gi|88702192|gb|EAQ99295.1| DNA ligase [Congregibacter litoralis KT71]
          Length = 674

 Score = 38.5 bits (89), Expect = 2.6,   Method: Composition-based stats.
 Identities = 35/149 (23%), Positives = 58/149 (38%), Gaps = 18/149 (12%)

Query: 363 MQAINVDEIIAHLLVAEGF-ADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           M    + E I   LV  G   DV +L  ++   + S+E   E++A ++   A +      
Sbjct: 451 MDIDGLGEKIVEQLVDRGLVRDVADLFKLEQGALLSLERMGEKSAAKLLA-AIDA--SRQ 507

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
            TL + I  LGV E       +     +AL  +   T+E L+G  +DDLL   +      
Sbjct: 508 TTLPRFIFALGVRE-------VGEATALALANH-FGTLEALSGADLDDLLEVPDVGPVVA 559

Query: 482 EKFDGFLSSLGTPKDQVESMIIHARYKMG 510
           E   GF       +      ++    + G
Sbjct: 560 EHVHGFF------RADANLGVLRRLLEAG 582


>gi|86609476|ref|YP_478238.1| hypothetical protein CYB_2028 [Synechococcus sp. JA-2-3B'a(2-13)]
 gi|86558018|gb|ABD02975.1| conserved hypothetical protein [Synechococcus sp. JA-2-3B'a(2-13)]
          Length = 515

 Score = 38.5 bits (89), Expect = 2.6,   Method: Composition-based stats.
 Identities = 12/46 (26%), Positives = 21/46 (45%)

Query: 375 LLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
           LL   G   +E LA  ++  + +I       A+++Q +AR  L   
Sbjct: 272 LLQEAGIHSIEALANAQLDRLQAIPKLGSGVALQLQLQARATLSRQ 317


>gi|307211856|gb|EFN87803.1| Vigilin [Harpegnathos saltator]
          Length = 1243

 Score = 38.5 bits (89), Expect = 2.7,   Method: Composition-based stats.
 Identities = 30/143 (20%), Positives = 56/143 (39%), Gaps = 27/143 (18%)

Query: 254 CVGMRGSRVQAVVTELR---------DEKIDIVVW---SPDSATFVINALRPAIVTKVVL 301
            +G +G  ++ +  +            EK DIV       D      + ++        L
Sbjct: 497 IIGNKGDNIKEIRDKFNQVQITIPGPGEKGDIVKIRGPKEDVDKCHKHLMKLVK----EL 552

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTID-----------IITEEEDSIN 350
           +E    +EV + K+     IG+ G N+R   + T   ID           IIT +++++ 
Sbjct: 553 NESNHVLEVPIFKQFHKFVIGKGGVNIRKIREETQTKIDLPAEGDKSDVIIITGKKENVE 612

Query: 351 RQKDFNERTQFFMQAINVDEIIA 373
           + K+  ++ Q  +  I  DEI  
Sbjct: 613 KAKEMIQKIQNELANIVTDEITI 635


>gi|261194837|ref|XP_002623823.1| DNA repair protein RAD51 [Ajellomyces dermatitidis SLH14081]
 gi|239588361|gb|EEQ71004.1| DNA repair protein RAD51 [Ajellomyces dermatitidis SLH14081]
 gi|239613363|gb|EEQ90350.1| DNA repair protein RAD51 [Ajellomyces dermatitidis ER-3]
 gi|327351860|gb|EGE80717.1| DNA repair protein RAD51 [Ajellomyces dermatitidis ATCC 18188]
          Length = 348

 Score = 38.5 bits (89), Expect = 2.7,   Method: Composition-based stats.
 Identities = 10/41 (24%), Positives = 19/41 (46%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
             L++  G+  +E +A      +  I+G  E+ A +I   A
Sbjct: 39  IKLVIEGGYHTIESVAYTPKRALEQIKGISEQKAAKILAEA 79


>gi|332023809|gb|EGI64033.1| Vigilin [Acromyrmex echinatior]
          Length = 1224

 Score = 38.5 bits (89), Expect = 2.7,   Method: Composition-based stats.
 Identities = 24/107 (22%), Positives = 41/107 (38%), Gaps = 16/107 (14%)

Query: 254 CVGMRGSRVQAVVTELR---------DEKIDIVVW---SPDSATFVINALRPAIVTKVVL 301
            +G +G  ++ +  +            EK DIV       D      + ++        L
Sbjct: 482 IIGNKGDNIKEIRDKFNQVQIVIPGPGEKGDIVKIRGPKEDVDKCHKHLMKLVK----EL 537

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDS 348
           +E    +EV + K+     IG+ G N+R   + T   ID+  E E S
Sbjct: 538 NESNHVLEVPIFKQFHKFVIGKGGVNIRKIREETQTKIDLPAEGEKS 584


>gi|325068715|ref|ZP_08127388.1| 30S ribosomal protein S1 [Actinomyces oris K20]
 gi|326773413|ref|ZP_08232696.1| ribosomal protein S1 [Actinomyces viscosus C505]
 gi|326636643|gb|EGE37546.1| ribosomal protein S1 [Actinomyces viscosus C505]
          Length = 484

 Score = 38.5 bits (89), Expect = 2.7,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V+   V++D+G  ++GVI   E          E +  GD +++ +   ++
Sbjct: 36  GDIVEGTVVKVDRDEVLLDIGYKTEGVILARELSIKHDVDPDEIVSVGDEIEALVL--QK 93

Query: 192 EQRGPQVLLS 201
           E +  ++LLS
Sbjct: 94  EDKEGRLLLS 103


>gi|260619563|gb|ACX47468.1| DNA polymerase beta [Pongo pygmaeus]
          Length = 296

 Score = 38.5 bits (89), Expect = 2.7,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 36  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVSGIGPSAAR 91

Query: 450 ALGENGIKTMEDL 462
              + GIKT+EDL
Sbjct: 92  KFVDEGIKTLEDL 104


>gi|160902460|ref|YP_001568041.1| DNA ligase, NAD-dependent [Petrotoga mobilis SJ95]
 gi|190359269|sp|A9BJX5|DNLJ_PETMO RecName: Full=DNA ligase; AltName: Full=Polydeoxyribonucleotide
           synthase [NAD+]
 gi|160360104|gb|ABX31718.1| DNA ligase, NAD-dependent [Petrotoga mobilis SJ95]
          Length = 668

 Score = 38.5 bits (89), Expect = 2.7,   Method: Composition-based stats.
 Identities = 34/143 (23%), Positives = 60/143 (41%), Gaps = 17/143 (11%)

Query: 340 DIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIE 399
           +I+T+ E S NR+ D   R    +   NV    A  L    F +++ L   K  E+  IE
Sbjct: 494 NILTQIEQSKNRELD---RLINALGIPNVGSKTAKDLANH-FKNLDSLIDAKFDELVEIE 549

Query: 400 GFDEETAVEIQGRAREYLEGIDITLQKKIRELGVS---EELCSIPGIDSKIKVALGENGI 456
           G  E+ A  I    + + +     + KK+++ GV+   +E   + G    +        I
Sbjct: 550 GIGEDIANAII---KFFSQEEVKKIVKKLKDAGVNMGKKEEEKLEGPLKGLV-------I 599

Query: 457 KTMEDLAGCSVDDLLGWSENKGG 479
                L+  +  +   + E+KGG
Sbjct: 600 CQTGALSKMTRQEFAEYVESKGG 622


>gi|300856020|ref|YP_003781004.1| putative 30S ribosomal protein S1 [Clostridium ljungdahlii DSM
           13528]
 gi|300436135|gb|ADK15902.1| predicted 30S ribosomal protein S1 [Clostridium ljungdahlii DSM
           13528]
          Length = 392

 Score = 38.5 bits (89), Expect = 2.7,   Method: Composition-based stats.
 Identities = 22/72 (30%), Positives = 33/72 (45%), Gaps = 9/72 (12%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNS-DGVIRRDETISREN------LRPGDRVKSYIYDV 189
           + GE++ G V  V     +V++G   DGV+ + E    EN      L+ GD +  Y+   
Sbjct: 25  RSGEVVKGKVISVTDEQAMVNIGYIVDGVLPKSELCKDENVNVDEVLKVGDEIYVYVIKT 84

Query: 190 RREQRGPQVLLS 201
             E     VLLS
Sbjct: 85  NDEDGN--VLLS 94


>gi|167752365|ref|ZP_02424492.1| hypothetical protein ALIPUT_00609 [Alistipes putredinis DSM 17216]
 gi|167660606|gb|EDS04736.1| hypothetical protein ALIPUT_00609 [Alistipes putredinis DSM 17216]
          Length = 647

 Score = 38.5 bits (89), Expect = 2.7,   Method: Composition-based stats.
 Identities = 33/130 (25%), Positives = 55/130 (42%), Gaps = 10/130 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +K  RD D  +D            +F R  V S K +I  ++ EA++   
Sbjct: 197 EAFLPGSQIDVKPIRDYDVYVDKTMEFKVVKINQEF-RNVVVSHKALIEAEL-EAQKQVI 254

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
             + +   G+I+ GTVK +    V VDLG  DG+I   +          E +   ++++ 
Sbjct: 255 MSKLE--KGQILEGTVKNITSYGVFVDLGGVDGLIHITDLSWGRVNHPEEIVSLDEKIRV 312

Query: 185 YIYDVRREQR 194
            I D    ++
Sbjct: 313 VILDFDDAKK 322



 Score = 38.1 bits (88), Expect = 3.9,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 3/64 (4%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQ 197
            E+  GTV  +    V+V++G  S+G+I   E     +L+ GD+++ Y+     +    Q
Sbjct: 93  NEVTEGTVIGINKREVVVNIGYKSEGIIPISEFRYNPDLKVGDKIEVYVESAEDKNG--Q 150

Query: 198 VLLS 201
           + LS
Sbjct: 151 LALS 154


>gi|66807509|ref|XP_637477.1| hypothetical protein DDB_G0286941 [Dictyostelium discoideum AX4]
 gi|60465898|gb|EAL63968.1| hypothetical protein DDB_G0286941 [Dictyostelium discoideum AX4]
          Length = 804

 Score = 38.5 bits (89), Expect = 2.7,   Method: Composition-based stats.
 Identities = 23/112 (20%), Positives = 46/112 (41%), Gaps = 15/112 (13%)

Query: 118 IIQKVREAERDRQYLEFKDKV-GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI---- 171
           +    R  E ++++  + D   G ++ G ++ V   ++ V+L  +  GV+ R        
Sbjct: 538 VTYTARTRELEKKFYSYNDLSCGMVVQGVIRYVRADSLEVELATSIHGVVARHHMADTNI 597

Query: 172 --SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYN 221
               E  + G  VK  I +V  +++  Q+ L          L + E P I +
Sbjct: 598 TDPLEFFKVGATVKVRIINVEPDKKRLQLTL-------KKSLIYSEYPIITD 642


>gi|320160951|ref|YP_004174175.1| DNA ligase [Anaerolinea thermophila UNI-1]
 gi|319994804|dbj|BAJ63575.1| DNA ligase [Anaerolinea thermophila UNI-1]
          Length = 674

 Score = 38.5 bits (89), Expect = 2.7,   Method: Composition-based stats.
 Identities = 20/112 (17%), Positives = 42/112 (37%), Gaps = 12/112 (10%)

Query: 363 MQAINVDEIIAHLLVAEGF-ADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           M  + +   I   LV +GF     +L  +   ++ ++EGF ++ A  I    +       
Sbjct: 453 MDIVGLGIKIVEQLVEKGFVQSPADLYFLSKEDLLTLEGFADKKAENILQAIQNSRSRPL 512

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGW 473
             L   +           I G+   +   L ++  K ++ L+  +V  L+  
Sbjct: 513 SRLITALG----------IRGVGEVMAGELAKH-FKNLDALSKATVQQLMEI 553


>gi|308063837|gb|ADO05724.1| 30S ribosomal protein S1 [Helicobacter pylori Sat464]
          Length = 552

 Score = 38.5 bits (89), Expect = 2.7,   Method: Composition-based stats.
 Identities = 23/119 (19%), Positives = 42/119 (35%), Gaps = 15/119 (12%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           +  DP I          P + + +   Q   Q I  K+ E   +            I+ G
Sbjct: 74  QKNDPIIVHVSE-KGEHPSVSYKKAISQ---QKIQAKIEELGEN--------YENAIVEG 121

Query: 145 TVKRVEYGNVIVDLGNSDGVIRR-DETISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            +     G  IV+    +  + R   ++  +    G R+K+ I  V +E     + +SR
Sbjct: 122 KIVGKNKGGYIVESQGVEYFLSRSRSSLKNDANHIGKRIKACIIHVDKENH--SINISR 178


>gi|283458186|ref|YP_003362803.1| 30S ribosomal protein S1 [Rothia mucilaginosa DY-18]
 gi|283134218|dbj|BAI64983.1| ribosomal protein S1 [Rothia mucilaginosa DY-18]
          Length = 484

 Score = 38.5 bits (89), Expect = 2.7,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++SG V ++++  V++D+G  ++GVI   E          E +  G  V++ +    +
Sbjct: 33  GDLVSGQVVKIDHDEVLLDIGYKTEGVIPSRELSIKHDIDPSEVVELGSEVEALVL--TK 90

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 91  EDKEGRLILS 100


>gi|255327556|ref|ZP_05368623.1| SSU ribosomal protein S1P [Rothia mucilaginosa ATCC 25296]
 gi|255295450|gb|EET74800.1| SSU ribosomal protein S1P [Rothia mucilaginosa ATCC 25296]
          Length = 484

 Score = 38.5 bits (89), Expect = 2.7,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 38/70 (54%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+++SG V ++++  V++D+G  ++GVI   E          E +  G  V++ +    +
Sbjct: 33  GDLVSGQVVKIDHDEVLLDIGYKTEGVIPSRELSIKHDIDPSEVVELGSEVEALVL--TK 90

Query: 192 EQRGPQVLLS 201
           E +  +++LS
Sbjct: 91  EDKEGRLILS 100


>gi|222147164|ref|YP_002548121.1| 30S ribosomal protein S1 [Agrobacterium vitis S4]
 gi|221734154|gb|ACM35117.1| 30S ribosomal protein S1 [Agrobacterium vitis S4]
          Length = 573

 Score = 38.5 bits (89), Expect = 2.7,   Method: Composition-based stats.
 Identities = 34/191 (17%), Positives = 69/191 (36%), Gaps = 29/191 (15%)

Query: 25  DVVLSVMADSIQKA------ARS---------LYGTMSDIR-VEINPETGDISLFRLLEV 68
           +V +  + +++ +A      AR           +     +  V  N   G  ++     V
Sbjct: 81  EVYVERIENALGEAVLSREKARREESWIKLEAKFEAGERVEGVIFNQVKGGFTVDLDGAV 140

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                    Q+ ++  RD  P +         +  MD  R  +  +++ ++++ R  +R 
Sbjct: 141 A---FLPRSQVDIRPIRDVTPLMHNPQP--FEILKMDKRRGNIVVSRRTVLEESRAEQRS 195

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRV 182
                 +   G+++ G VK +      VDLG  DG++   +          E L  G  V
Sbjct: 196 EIVQNLE--EGQVVEGVVKNITDYGAFVDLGGIDGLLHVTDMAWRRVNHPSEILSIGQSV 253

Query: 183 KSYIYDVRREQ 193
           K  I  + +E 
Sbjct: 254 KVQIIRINQET 264


>gi|21282886|ref|NP_645974.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           subsp. aureus MW2]
 gi|49486113|ref|YP_043334.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           subsp. aureus MSSA476]
 gi|253731893|ref|ZP_04866058.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           subsp. aureus USA300_TCH959]
 gi|297208080|ref|ZP_06924511.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus ATCC 51811]
 gi|300912161|ref|ZP_07129604.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus TCH70]
 gi|81649409|sp|Q6G9T9|PNP_STAAS RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|81762564|sp|Q8NWY9|PNP_STAAW RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|21204325|dbj|BAB95022.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus MW2]
 gi|49244556|emb|CAG42985.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus MSSA476]
 gi|253724303|gb|EES93032.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           subsp. aureus USA300_TCH959]
 gi|296887323|gb|EFH26225.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus ATCC 51811]
 gi|300886407|gb|EFK81609.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus TCH70]
 gi|329733632|gb|EGG69960.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus 21193]
          Length = 698

 Score = 38.5 bits (89), Expect = 2.7,   Method: Composition-based stats.
 Identities = 29/183 (15%), Positives = 67/183 (36%), Gaps = 20/183 (10%)

Query: 21  SIDRDVVLSVMADSIQKAARS-LYGTMSDIRVEINPETGDISLFRLLEVVEEVE-NYTCQ 78
            + R+++   +  +     R      M+ +   I+    ++S +    V   ++ +    
Sbjct: 517 GLTREIIEEALEQA-----RRGRLEIMNHMLQTIDQPRTELSAYAPKVVTMTIKPDKIRD 571

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           +     +  +   +I       L     G + + +  Q +I + RE   +        +V
Sbjct: 572 VIGPGGKKIN---EIIDETGVKLDIEQDGTIFIGAVDQAMINRAREIIEEITRE---AEV 625

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISR-------ENLRPGDRVKSYIYDVRR 191
           G+    TVKR+E     V L      +     IS+       + L+ GD ++  I ++ +
Sbjct: 626 GQTYQATVKRIEKYGAFVGLFPGKDALLHISQISKNRIEKVEDVLKIGDTIEVKITEIDK 685

Query: 192 EQR 194
           + R
Sbjct: 686 QGR 688


>gi|324508089|gb|ADY43419.1| Insulin-like growth factor 2 mRNA-binding protein 1 [Ascaris suum]
          Length = 678

 Score = 38.5 bits (89), Expect = 2.7,   Method: Composition-based stats.
 Identities = 20/78 (25%), Positives = 34/78 (43%)

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           LDE     E+ VP + +   IG+ GQNVR   ++TG  + I  +  +   ++        
Sbjct: 559 LDEVRLCTEISVPSKLVGRIIGKGGQNVRELQRVTGAQVKIPDDAGEDETQESTTVRVLG 618

Query: 361 FFMQAINVDEIIAHLLVA 378
            F  +  V   +A L+  
Sbjct: 619 NFQASQAVQARLAQLMQE 636


>gi|298694566|gb|ADI97788.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus ED133]
          Length = 698

 Score = 38.5 bits (89), Expect = 2.7,   Method: Composition-based stats.
 Identities = 29/183 (15%), Positives = 67/183 (36%), Gaps = 20/183 (10%)

Query: 21  SIDRDVVLSVMADSIQKAARS-LYGTMSDIRVEINPETGDISLFRLLEVVEEVE-NYTCQ 78
            + R+++   +  +     R      M+ +   I+    ++S +    V   ++ +    
Sbjct: 517 GLTREIIEEALEQA-----RRGRLEIMNHMLQTIDQPRTELSAYAPKVVTMTIKPDKIRD 571

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           +     +  +   +I       L     G + + +  Q +I + RE   +        +V
Sbjct: 572 VIGPGGKKIN---EIIDETGVKLDIEQDGTIFIGAVDQAMINRAREIIEEITRE---AEV 625

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISR-------ENLRPGDRVKSYIYDVRR 191
           G+    TVKR+E     V L      +     IS+       + L+ GD ++  I ++ +
Sbjct: 626 GQTYQATVKRIEKYGAFVGLFPGKDALLHISQISKNRIEKVEDVLKIGDTIEVKITEIDK 685

Query: 192 EQR 194
           + R
Sbjct: 686 QGR 688


>gi|289550745|ref|YP_003471649.1| SSU ribosomal protein S1p [Staphylococcus lugdunensis HKU09-01]
 gi|315658241|ref|ZP_07911113.1| 30S ribosomal protein S1 [Staphylococcus lugdunensis M23590]
 gi|289180277|gb|ADC87522.1| SSU ribosomal protein S1p [Staphylococcus lugdunensis HKU09-01]
 gi|315496570|gb|EFU84893.1| 30S ribosomal protein S1 [Staphylococcus lugdunensis M23590]
          Length = 392

 Score = 38.5 bits (89), Expect = 2.7,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 33/65 (50%), Gaps = 8/65 (12%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           K G+ I+G V++VE   V+V +  G  +G+I   +          E +  GD +++Y+  
Sbjct: 14  KEGDKITGEVQQVEDKQVVVHINGGKYNGIIPISQLSTHHIDNPNEVVSVGDSIEAYVTK 73

Query: 189 VRREQ 193
           +  ++
Sbjct: 74  IEVDE 78


>gi|269940765|emb|CBI49147.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus TW20]
          Length = 698

 Score = 38.5 bits (89), Expect = 2.7,   Method: Composition-based stats.
 Identities = 29/183 (15%), Positives = 67/183 (36%), Gaps = 20/183 (10%)

Query: 21  SIDRDVVLSVMADSIQKAARS-LYGTMSDIRVEINPETGDISLFRLLEVVEEVE-NYTCQ 78
            + R+++   +  +     R      M+ +   I+    ++S +    V   ++ +    
Sbjct: 517 GLTREIIEEALEQA-----RRGRLEIMNHMLQTIDQPRTELSAYAPKVVTMTIKPDKIRD 571

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           +     +  +   +I       L     G + + +  Q +I + RE   +        +V
Sbjct: 572 VIGPGGKKIN---EIIDETGVKLDIEQDGTIFIGAVDQAMINRAREIIEEITRE---AEV 625

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISR-------ENLRPGDRVKSYIYDVRR 191
           G+    TVKR+E     V L      +     IS+       + L+ GD ++  I ++ +
Sbjct: 626 GQTYQATVKRIEKYGAFVGLFPGKDALLHISQISKNRIEKVEDVLKIGDTIEVKITEIDK 685

Query: 192 EQR 194
           + R
Sbjct: 686 QGR 688


>gi|145492218|ref|XP_001432107.1| hypothetical protein [Paramecium tetraurelia strain d4-2]
 gi|124399216|emb|CAK64710.1| unnamed protein product [Paramecium tetraurelia]
          Length = 340

 Score = 38.5 bits (89), Expect = 2.7,   Method: Composition-based stats.
 Identities = 7/41 (17%), Positives = 14/41 (34%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
              L   GF   E +A      + +I+G  +    ++    
Sbjct: 36  IQRLKDAGFTTCESIAYTAKKNLMNIKGMTDAKIEKLVEAV 76


>gi|90420974|ref|ZP_01228878.1| 30S ribosomal subunit protein S1 [Aurantimonas manganoxydans
           SI85-9A1]
 gi|90334752|gb|EAS48528.1| 30S ribosomal subunit protein S1 [Aurantimonas manganoxydans
           SI85-9A1]
          Length = 566

 Score = 38.5 bits (89), Expect = 2.7,   Method: Composition-based stats.
 Identities = 26/125 (20%), Positives = 52/125 (41%), Gaps = 10/125 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ ++  RD  P ++        +  MD  R  +  +++ ++++ R  +R       
Sbjct: 137 PRSQVDIRPIRDVGPLMNTPQP--FQILKMDKRRGNIVVSRRTVLEESRAEQRSEIVQNL 194

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           +   G+++ G VK +      VDLG  DG++   +          E L+ G  VK  I  
Sbjct: 195 E--EGQVVDGIVKNITDYGAFVDLGGIDGLLHVTDMAWRRVNHPTEILQIGQTVKVQIIR 252

Query: 189 VRREQ 193
           + +E 
Sbjct: 253 INQET 257


>gi|1279214|emb|CAA65788.1| putative ribosomal protein [Bacteroides fragilis]
          Length = 160

 Score = 38.5 bits (89), Expect = 2.7,   Method: Composition-based stats.
 Identities = 26/80 (32%), Positives = 44/80 (55%), Gaps = 5/80 (6%)

Query: 125 AERDRQYLEFKDKVG--EIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
            E ++ Y    +KV   E++ GTV  +    V+V++G  SDG+I  +E     +L+ GD 
Sbjct: 30  EELEKAYDGTLNKVNDREVVDGTVIAMNKREVVVNIGYKSDGIIPLNEFRYNPDLKVGDT 89

Query: 182 VKSYIYDVRREQRGPQVLLS 201
           V+ YI    +E +  Q++LS
Sbjct: 90  VEVYIE--NQEDKKGQLVLS 107


>gi|15924264|ref|NP_371798.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           subsp. aureus Mu50]
 gi|15926857|ref|NP_374390.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           subsp. aureus N315]
 gi|57651844|ref|YP_186150.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           subsp. aureus COL]
 gi|87160870|ref|YP_493864.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           subsp. aureus USA300_FPR3757]
 gi|88194984|ref|YP_499784.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           subsp. aureus NCTC 8325]
 gi|148267764|ref|YP_001246707.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           subsp. aureus JH9]
 gi|150393823|ref|YP_001316498.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           subsp. aureus JH1]
 gi|151221395|ref|YP_001332217.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           subsp. aureus str. Newman]
 gi|156979595|ref|YP_001441854.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           subsp. aureus Mu3]
 gi|161509440|ref|YP_001575099.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           subsp. aureus USA300_TCH1516]
 gi|221142508|ref|ZP_03567001.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           subsp. aureus str. JKD6009]
 gi|253316410|ref|ZP_04839623.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           subsp. aureus str. CF-Marseille]
 gi|253733488|ref|ZP_04867653.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           subsp. aureus TCH130]
 gi|255006061|ref|ZP_05144662.2| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           subsp. aureus Mu50-omega]
 gi|257795670|ref|ZP_05644649.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           A9781]
 gi|258416073|ref|ZP_05682341.1| polyribopolyribonucleotide nucleotidyltransferase [Staphylococcus
           aureus A9763]
 gi|258421656|ref|ZP_05684580.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           A9719]
 gi|258423885|ref|ZP_05686770.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           A9635]
 gi|258434812|ref|ZP_05688886.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           A9299]
 gi|258444612|ref|ZP_05692941.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           A8115]
 gi|258447555|ref|ZP_05695699.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           A6300]
 gi|258449397|ref|ZP_05697500.1| polyribopolyribonucleotide nucleotidyltransferase [Staphylococcus
           aureus A6224]
 gi|258452573|ref|ZP_05700579.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           A5948]
 gi|258454776|ref|ZP_05702740.1| polyribopolyribonucleotide nucleotidyltransferase [Staphylococcus
           aureus A5937]
 gi|262048163|ref|ZP_06021050.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           D30]
 gi|262051336|ref|ZP_06023559.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           930918-3]
 gi|269202891|ref|YP_003282160.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           subsp. aureus ED98]
 gi|282892762|ref|ZP_06300997.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           A8117]
 gi|282920518|ref|ZP_06328239.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           A9765]
 gi|282927616|ref|ZP_06335232.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           A10102]
 gi|284024267|ref|ZP_06378665.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           subsp. aureus 132]
 gi|294848270|ref|ZP_06789017.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           A9754]
 gi|295406211|ref|ZP_06816018.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           A8819]
 gi|296274832|ref|ZP_06857339.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           subsp. aureus MR1]
 gi|297244439|ref|ZP_06928322.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           A8796]
 gi|304381162|ref|ZP_07363815.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus ATCC BAA-39]
 gi|81694630|sp|Q5HGF7|PNP_STAAC RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|81705784|sp|Q7A5X7|PNP_STAAN RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|81781693|sp|Q99UJ8|PNP_STAAM RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|117940100|sp|Q2FHG4|PNP_STAA3 RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|117940102|sp|Q2FZ20|PNP_STAA8 RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|187611294|sp|A7X1Q8|PNP_STAA1 RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|187611295|sp|A6QGH3|PNP_STAAE RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|189037316|sp|A6U193|PNP_STAA2 RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|189037317|sp|A5ISF8|PNP_STAA9 RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|189037318|sp|A8Z3V4|PNP_STAAT RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|13701074|dbj|BAB42369.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus N315]
 gi|14247044|dbj|BAB57436.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus Mu50]
 gi|57286030|gb|AAW38124.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus COL]
 gi|87126844|gb|ABD21358.1| polyribopolyribonucleotide nucleotidyltransferase [Staphylococcus
           aureus subsp. aureus USA300_FPR3757]
 gi|87202542|gb|ABD30352.1| polyribonucleotide nucleotidyltransferase, putative [Staphylococcus
           aureus subsp. aureus NCTC 8325]
 gi|147740833|gb|ABQ49131.1| Polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus JH9]
 gi|149946275|gb|ABR52211.1| Polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus JH1]
 gi|150374195|dbj|BAF67455.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus str. Newman]
 gi|156721730|dbj|BAF78147.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus Mu3]
 gi|160368249|gb|ABX29220.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus USA300_TCH1516]
 gi|253728542|gb|EES97271.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           subsp. aureus TCH130]
 gi|257789642|gb|EEV27982.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           A9781]
 gi|257839221|gb|EEV63697.1| polyribopolyribonucleotide nucleotidyltransferase [Staphylococcus
           aureus A9763]
 gi|257842342|gb|EEV66767.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           A9719]
 gi|257845914|gb|EEV69943.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           A9635]
 gi|257849173|gb|EEV73155.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           A9299]
 gi|257850105|gb|EEV74058.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           A8115]
 gi|257853746|gb|EEV76705.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           A6300]
 gi|257857385|gb|EEV80283.1| polyribopolyribonucleotide nucleotidyltransferase [Staphylococcus
           aureus A6224]
 gi|257859791|gb|EEV82633.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           A5948]
 gi|257863159|gb|EEV85923.1| polyribopolyribonucleotide nucleotidyltransferase [Staphylococcus
           aureus A5937]
 gi|259160711|gb|EEW45732.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           930918-3]
 gi|259163729|gb|EEW48284.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           D30]
 gi|262075181|gb|ACY11154.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           subsp. aureus ED98]
 gi|282590619|gb|EFB95696.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           A10102]
 gi|282594180|gb|EFB99167.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           A9765]
 gi|282764759|gb|EFC04884.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           A8117]
 gi|283470489|emb|CAQ49700.1| polyribonucleotide nucleotidyltransferase
           (Polynucleotidephosphorylase) (PNPase) (Vegetative
           protein 15) (VEG15) [Staphylococcus aureus subsp. aureus
           ST398]
 gi|285816956|gb|ADC37443.1| Polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           04-02981]
 gi|294825070|gb|EFG41492.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           A9754]
 gi|294968799|gb|EFG44821.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           A8819]
 gi|297178469|gb|EFH37715.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           A8796]
 gi|302751097|gb|ADL65274.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           subsp. aureus str. JKD6008]
 gi|304340145|gb|EFM06086.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus ATCC BAA-39]
 gi|312829668|emb|CBX34510.1| polyribonucleotide nucleotidyltransferase
           (Polynucleotidephosphorylase) (PNPase) (Vegetative
           protein 15) (VEG15) [Staphylococcus aureus subsp. aureus
           ECT-R 2]
 gi|315131068|gb|EFT87052.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           subsp. aureus CGS03]
 gi|315198516|gb|EFU28845.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           subsp. aureus CGS01]
 gi|320140909|gb|EFW32756.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus MRSA131]
 gi|320144375|gb|EFW36141.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus MRSA177]
 gi|323441055|gb|EGA98762.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           O11]
 gi|323443924|gb|EGB01535.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           O46]
 gi|329313944|gb|AEB88357.1| Polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus T0131]
 gi|329727448|gb|EGG63904.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus 21172]
 gi|329727820|gb|EGG64271.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus 21189]
          Length = 698

 Score = 38.5 bits (89), Expect = 2.7,   Method: Composition-based stats.
 Identities = 29/183 (15%), Positives = 67/183 (36%), Gaps = 20/183 (10%)

Query: 21  SIDRDVVLSVMADSIQKAARS-LYGTMSDIRVEINPETGDISLFRLLEVVEEVE-NYTCQ 78
            + R+++   +  +     R      M+ +   I+    ++S +    V   ++ +    
Sbjct: 517 GLTREIIEEALEQA-----RRGRLEIMNHMLQTIDQPRTELSAYAPKVVTMTIKPDKIRD 571

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           +     +  +   +I       L     G + + +  Q +I + RE   +        +V
Sbjct: 572 VIGPGGKKIN---EIIDETGVKLDIEQDGTIFIGAVDQAMINRAREIIEEITRE---AEV 625

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISR-------ENLRPGDRVKSYIYDVRR 191
           G+    TVKR+E     V L      +     IS+       + L+ GD ++  I ++ +
Sbjct: 626 GQTYQATVKRIEKYGAFVGLFPGKDALLHISQISKNRIEKVEDVLKIGDTIEVKITEIDK 685

Query: 192 EQR 194
           + R
Sbjct: 686 QGR 688


>gi|320529136|ref|ZP_08030228.1| putative ribosomal protein S1 [Selenomonas artemidis F0399]
 gi|320138766|gb|EFW30656.1| putative ribosomal protein S1 [Selenomonas artemidis F0399]
          Length = 384

 Score = 38.5 bits (89), Expect = 2.8,   Method: Composition-based stats.
 Identities = 22/132 (16%), Positives = 55/132 (41%), Gaps = 10/132 (7%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ L   +D   S+ +   V   +  +D  +  +  +++ ++++ R  + +  +   
Sbjct: 129 PASQMELHFVKDL--SVYVDQTVEAEIIEVDVQKRRLVLSRRKLLERDRAEKEEAVFSAI 186

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           +    +++ GTVKR+      +D+G  DG+    +          E L  G  +  Y+  
Sbjct: 187 EP--EQVVRGTVKRLVDYGAFIDIGGVDGLAHISDLAWHRVKHPSEVLEVGQELDVYVKS 244

Query: 189 VRREQRGPQVLL 200
           V R+ +   + +
Sbjct: 245 VDRDAKRISLSV 256


>gi|308062330|gb|ADO04218.1| 30S ribosomal protein S1 [Helicobacter pylori Cuz20]
          Length = 552

 Score = 38.5 bits (89), Expect = 2.8,   Method: Composition-based stats.
 Identities = 24/119 (20%), Positives = 42/119 (35%), Gaps = 15/119 (12%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           +  DP I          P + + +   Q   Q I  K+ E   +            II G
Sbjct: 74  QKNDPIIVHVSE-KGEHPSVSYKKAISQ---QKIQAKIEELGEN--------YENAIIEG 121

Query: 145 TVKRVEYGNVIVDLGNSDGVIRR-DETISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            +     G  IV+    +  + R   ++  +    G R+K+ I  V +E     + +SR
Sbjct: 122 KIVGKNKGGYIVESQGVEYFLSRSRSSLKNDANHIGKRIKACIIHVDKENH--SINISR 178


>gi|302332880|gb|ADL23073.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           subsp. aureus JKD6159]
          Length = 698

 Score = 38.5 bits (89), Expect = 2.8,   Method: Composition-based stats.
 Identities = 29/183 (15%), Positives = 68/183 (37%), Gaps = 20/183 (10%)

Query: 21  SIDRDVVLSVMADSIQKAARS-LYGTMSDIRVEINPETGDISLFRLLEVVEEVE-NYTCQ 78
            + R+++   +  +     R      M+ +   I+    ++S +    V   ++ +    
Sbjct: 517 GLTREIIEEALEQA-----RRGRLEIMNHMLQTIDQPRTELSAYAPKVVTMTIKPDKIRD 571

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           +     +  +   +I       L     G + + +  Q +I + RE   +        +V
Sbjct: 572 VIGPGGKKIN---EIIDETGVKLDIEQDGTIFIGAVDQAMINRAREIIEEITRE---AEV 625

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISR-------ENLRPGDRVKSYIYDVRR 191
           G+    TVKR+E     V L      +     IS+       + L+ GD+++  I ++ +
Sbjct: 626 GQTYQATVKRIEKYGAFVGLFPGKDALLHISQISKNRIEKVEDVLKIGDKIEVKITEIDK 685

Query: 192 EQR 194
           + R
Sbjct: 686 QGR 688


>gi|185535745|gb|ACC77873.1| polyribonucleotide nucleotidyltransferase [Staphylococcus xylosus]
          Length = 697

 Score = 38.5 bits (89), Expect = 2.8,   Method: Composition-based stats.
 Identities = 35/205 (17%), Positives = 63/205 (30%), Gaps = 64/205 (31%)

Query: 21  SIDRDVVLSVMADSIQKAARSLYGTMSDIRV-----------EINPETGDISLFRLLEVV 69
            + ++++   +  +               RV            I+    ++S F    V 
Sbjct: 517 GLTKEIIKEALEQA---------------RVGRLAILDHMLQTIDTPRNELSAFAPKVV- 560

Query: 70  EEVENYTCQISLKVARD-RDPSI----DIGGVVSDPLPPMD--------FGRVAVQSAKQ 116
                 T  I  +  RD   P      +I       L              + A+  A++
Sbjct: 561 ------TMTIKPEKIRDVIGPGGKKINEIIDETGVKLDIEQDGTIFIGAVDKNAIDQARK 614

Query: 117 VIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISREN- 175
           +I    REAE  + Y            G VKR+E     V+L      +     I+ E  
Sbjct: 615 IIEDITREAEVGQVYE-----------GKVKRIEKYGAFVELFPGKDALVHISQIANERI 663

Query: 176 ------LRPGDRVKSYIYDVRREQR 194
                 L+ GD  K  + ++ ++ R
Sbjct: 664 EKVEDVLKVGDTFKIKVTEIDKQGR 688


>gi|166364069|ref|YP_001656342.1| DNA ligase [Microcystis aeruginosa NIES-843]
 gi|254781371|sp|B0JTW2|DNLJ_MICAN RecName: Full=DNA ligase; AltName: Full=Polydeoxyribonucleotide
           synthase [NAD+]
 gi|166086442|dbj|BAG01150.1| DNA ligase [Microcystis aeruginosa NIES-843]
          Length = 669

 Score = 38.5 bits (89), Expect = 2.8,   Method: Composition-based stats.
 Identities = 18/42 (42%), Positives = 25/42 (59%), Gaps = 1/42 (2%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEI 409
           V  + A +L AE F  VEELA   ++++ASI G  EE A  +
Sbjct: 520 VGSVNAKIL-AESFRTVEELANASVTDLASIYGIGEEIAQSV 560


>gi|159905833|ref|YP_001549495.1| DNA repair and recombination protein RadA [Methanococcus
           maripaludis C6]
 gi|226736608|sp|A9AA90|RADA_METM6 RecName: Full=DNA repair and recombination protein radA
 gi|159887326|gb|ABX02263.1| DNA repair and recombination protein RadA [Methanococcus
           maripaludis C6]
          Length = 322

 Score = 38.5 bits (89), Expect = 2.8,   Method: Composition-based stats.
 Identities = 12/46 (26%), Positives = 18/46 (39%)

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
                 +   V    A  L+  G+ D  ++A   I E+  IEG  E
Sbjct: 1   MADVLTELPGVGPSTAEKLIEAGYLDFMKIATSTIGELTDIEGISE 46


>gi|290462499|gb|ADD24297.1| DNA repair protein RAD51 homolog 1 [Lepeophtheirus salmonis]
          Length = 350

 Score = 38.5 bits (89), Expect = 2.8,   Method: Composition-based stats.
 Identities = 9/57 (15%), Positives = 19/57 (33%)

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           F       ++   +       L   G+  VE +       + +I+G  E  A ++  
Sbjct: 31  FGPMPISVLEQHGISASDVKKLSEVGYHTVESIVYAPKKSLLAIKGISEAKADKLLA 87


>gi|227541318|ref|ZP_03971367.1| FAD linked oxidase family protein [Corynebacterium glucuronolyticum
           ATCC 51866]
 gi|227182869|gb|EEI63841.1| FAD linked oxidase family protein [Corynebacterium glucuronolyticum
           ATCC 51866]
          Length = 964

 Score = 38.5 bits (89), Expect = 2.8,   Method: Composition-based stats.
 Identities = 26/135 (19%), Positives = 42/135 (31%), Gaps = 20/135 (14%)

Query: 319 LAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVA 378
           L IG  G             +  I E E +          T   M  +++       LV 
Sbjct: 273 LMIGAEGI------------LGFIAEAEIATVAHPKMAAVTWVMMPKMDLAANYVDRLVK 320

Query: 379 EGFADVEELACVKISE-IASIEG-------FDEETAVEIQGRAREYLEGIDITLQKKIRE 430
            G   VE LA   + E + S  G         E+ A  +   A +  E +   +Q     
Sbjct: 321 AGAESVELLASPAMREAVGSFPGAHEEWLNLPEDMAALLLEVAADDEESLQAKMQAARDA 380

Query: 431 LGVSEELCSIPGIDS 445
           L  ++ L  +  +  
Sbjct: 381 LQDADLLQPLDFMRE 395


>gi|196231335|ref|ZP_03130194.1| ribosomal protein S1 [Chthoniobacter flavus Ellin428]
 gi|196224671|gb|EDY19182.1| ribosomal protein S1 [Chthoniobacter flavus Ellin428]
          Length = 566

 Score = 38.5 bits (89), Expect = 2.8,   Method: Composition-based stats.
 Identities = 22/79 (27%), Positives = 40/79 (50%), Gaps = 4/79 (5%)

Query: 125 AERDRQYLEFKD-KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRV 182
             +D     F++ K G+I+ G +  V    V+VD+G  S+G +   E    ++++ GD V
Sbjct: 7   EMKDLIAKSFREFKEGQIVKGRIIEVRPREVLVDIGYKSEGAVSLSEFDDADDIQIGDEV 66

Query: 183 KSYIYDVRREQRGPQVLLS 201
           +  I  +  E+    V+LS
Sbjct: 67  EVLILRLENEEG--SVILS 83


>gi|114568652|ref|YP_755332.1| 30S ribosomal protein S1 [Maricaulis maris MCS10]
 gi|114339114|gb|ABI64394.1| SSU ribosomal protein S1P [Maricaulis maris MCS10]
          Length = 566

 Score = 38.5 bits (89), Expect = 2.8,   Method: Composition-based stats.
 Identities = 21/68 (30%), Positives = 36/68 (52%), Gaps = 5/68 (7%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDE-TISR-ENLRPGDRVKSYIYDVRREQR 194
            G++I G+V  +E G+V+VD+G  ++G I   E T    +  + GD V+ Y+  +     
Sbjct: 28  EGQVIKGSVTAIENGDVVVDVGLKTEGRIPLREFTGPGSDAPKVGDDVEVYLERIENALG 87

Query: 195 GPQVLLSR 202
               +LSR
Sbjct: 88  DA--ILSR 93


>gi|257790478|ref|YP_003181084.1| DNA-directed RNA polymerase, beta' subunit [Eggerthella lenta DSM
            2243]
 gi|317490022|ref|ZP_07948513.1| DNA-directed RNA polymerase [Eggerthella sp. 1_3_56FAA]
 gi|257474375|gb|ACV54695.1| DNA-directed RNA polymerase, beta' subunit [Eggerthella lenta DSM
            2243]
 gi|316910863|gb|EFV32481.1| DNA-directed RNA polymerase [Eggerthella sp. 1_3_56FAA]
          Length = 1470

 Score = 38.5 bits (89), Expect = 2.8,   Method: Composition-based stats.
 Identities = 15/80 (18%), Positives = 31/80 (38%), Gaps = 4/80 (5%)

Query: 364  QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
              + V +  A+     G   V +L      ++  IEG   +   E+    +E LE  D+T
Sbjct: 1322 DDLGVSQRWANKFSEAGIETVADLVGHTEEDLLRIEGIGVKAIEEL----KEGLEAHDLT 1377

Query: 424  LQKKIRELGVSEELCSIPGI 443
               +      S+++  +  +
Sbjct: 1378 HVIEDDLAATSDDMSQLLDM 1397


>gi|255940094|ref|XP_002560816.1| Pc16g04650 [Penicillium chrysogenum Wisconsin 54-1255]
 gi|211585439|emb|CAP93135.1| Pc16g04650 [Penicillium chrysogenum Wisconsin 54-1255]
          Length = 344

 Score = 38.5 bits (89), Expect = 2.8,   Method: Composition-based stats.
 Identities = 12/43 (27%), Positives = 19/43 (44%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
             L V  G+  VE +A      +  I+G  E+ A +I   A +
Sbjct: 35  IKLFVDAGYHTVESVAYTPKRLLEQIKGISEQKATKILVEASK 77


>gi|325829977|ref|ZP_08163435.1| DNA-directed RNA polymerase, beta' subunit [Eggerthella sp. HGA1]
 gi|325488144|gb|EGC90581.1| DNA-directed RNA polymerase, beta' subunit [Eggerthella sp. HGA1]
          Length = 1470

 Score = 38.5 bits (89), Expect = 2.8,   Method: Composition-based stats.
 Identities = 15/80 (18%), Positives = 31/80 (38%), Gaps = 4/80 (5%)

Query: 364  QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
              + V +  A+     G   V +L      ++  IEG   +   E+    +E LE  D+T
Sbjct: 1322 DDLGVSQRWANKFSEAGIETVADLVGHTEEDLLRIEGIGVKAIEEL----KEGLEAHDLT 1377

Query: 424  LQKKIRELGVSEELCSIPGI 443
               +      S+++  +  +
Sbjct: 1378 HVIEDDLAATSDDMSQLLDM 1397


>gi|258570189|ref|XP_002543898.1| DNA repair protein RAD51 [Uncinocarpus reesii 1704]
 gi|237904168|gb|EEP78569.1| DNA repair protein RAD51 [Uncinocarpus reesii 1704]
          Length = 348

 Score = 38.5 bits (89), Expect = 2.8,   Method: Composition-based stats.
 Identities = 11/41 (26%), Positives = 18/41 (43%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
             LL+  G+  VE +A      +  I+G  E+ A  +   A
Sbjct: 38  IKLLIDGGYHTVEAVAYTPKKVLEQIKGISEQKAARVLAEA 78


>gi|238026536|ref|YP_002910767.1| 30S ribosomal protein S1 [Burkholderia glumae BGR1]
 gi|237875730|gb|ACR28063.1| Ribosomal protein S1 [Burkholderia glumae BGR1]
          Length = 576

 Score = 38.5 bits (89), Expect = 2.8,   Method: Composition-based stats.
 Identities = 22/71 (30%), Positives = 36/71 (50%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G I+ G VK V+    +V L G+ +G +R  E         R  L+ GD+V + + ++ 
Sbjct: 465 KGSIVDGVVKSVDAKGAVVTLTGDVEGYLRASEISQDRVEDARNVLKEGDKVNAMVINID 524

Query: 191 REQRGPQVLLS 201
           R+ RG  + LS
Sbjct: 525 RKSRG--INLS 533



 Score = 37.4 bits (86), Expect = 5.6,   Method: Composition-based stats.
 Identities = 27/114 (23%), Positives = 47/114 (41%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +D +   G  +   +  +D  R  V  +++ +I+  +  ER +     K   G I++G V
Sbjct: 157 KDTTPYEGKTLEFRVIKLDRKRNNVVLSRRAVIEATQGEERAKLLETLK--EGAIVNGVV 214

Query: 147 KRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++       R      E L  G  V + I    +E+ 
Sbjct: 215 KNITDYGAFVDLGGIDGLLHITDIAWRRVRHPSEVLSVGQEVTAKILKFDQEKN 268


>gi|163784880|ref|ZP_02179650.1| ribosomal protein S01 [Hydrogenivirga sp. 128-5-R1-1]
 gi|159879849|gb|EDP73583.1| ribosomal protein S01 [Hydrogenivirga sp. 128-5-R1-1]
          Length = 368

 Score = 38.5 bits (89), Expect = 2.8,   Method: Composition-based stats.
 Identities = 12/81 (14%), Positives = 36/81 (44%), Gaps = 2/81 (2%)

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR 181
           +     ++    +K++    +   +K+      +VDLG     +   E+  ++  +  + 
Sbjct: 87  IFREALEKVENAYKNQEK--VPAKLKKQLEKGFLVDLGGIQAFLPYSESGLKKEEKLPEE 144

Query: 182 VKSYIYDVRREQRGPQVLLSR 202
            + YI  + + ++ P +++SR
Sbjct: 145 FEVYILKLDKNRKIPNIVVSR 165


>gi|108762762|ref|YP_631752.1| 30S ribosomal protein S1 family protein [Myxococcus xanthus DK
           1622]
 gi|108466642|gb|ABF91827.1| ribosomal protein S1 family protein [Myxococcus xanthus DK 1622]
          Length = 548

 Score = 38.5 bits (89), Expect = 2.8,   Method: Composition-based stats.
 Identities = 24/99 (24%), Positives = 39/99 (39%), Gaps = 16/99 (16%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVR- 190
            G+I+ G V  V    V VDLG  +G+I   E          + ++ GD V+  I  +  
Sbjct: 243 QGKIVKGKVTGVRDFGVFVDLGGVEGMIPVSELSYTRVGHPSDVVKVGDDVEVEILRMEA 302

Query: 191 -------REQRGPQVLLSRTHPQFMVKLFHMEVPEIYNG 222
                  + ++  ++ LS    Q     F   + EI  G
Sbjct: 303 GQPNSPDKSKQKERITLSMRSRQ--EDPFQKALSEIKEG 339


>gi|82750875|ref|YP_416616.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus aureus
           RF122]
 gi|117940113|sp|Q2YXP2|PNP_STAAB RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|82656406|emb|CAI80825.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           RF122]
          Length = 698

 Score = 38.5 bits (89), Expect = 2.8,   Method: Composition-based stats.
 Identities = 29/183 (15%), Positives = 67/183 (36%), Gaps = 20/183 (10%)

Query: 21  SIDRDVVLSVMADSIQKAARS-LYGTMSDIRVEINPETGDISLFRLLEVVEEVE-NYTCQ 78
            + R+++   +  +     R      M+ +   I+    ++S +    V   ++ +    
Sbjct: 517 GLTREIIEEALEQA-----RRGRLEIMNHMLQTIDQPRTELSAYAPKVVTMTIKPDKIRD 571

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           +     +  +   +I       L     G + + +  Q +I + RE   +        +V
Sbjct: 572 VIGPGGKKIN---EIIDETGVKLDIEQDGTIFIGAVDQAMINRAREIIEEITRE---AEV 625

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISR-------ENLRPGDRVKSYIYDVRR 191
           G+    TVKR+E     V L      +     IS+       + L+ GD ++  I ++ +
Sbjct: 626 GQTYQATVKRIEKYGAFVGLFPGKDALLHISQISKNRIEKVEDVLKIGDTIEVKITEIDK 685

Query: 192 EQR 194
           + R
Sbjct: 686 QGR 688


>gi|95928238|ref|ZP_01310986.1| hypothetical protein Dace_3026 [Desulfuromonas acetoxidans DSM 684]
 gi|95135509|gb|EAT17160.1| hypothetical protein Dace_3026 [Desulfuromonas acetoxidans DSM 684]
          Length = 138

 Score = 38.5 bits (89), Expect = 2.8,   Method: Composition-based stats.
 Identities = 14/69 (20%), Positives = 29/69 (42%)

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
            +    A LL   G    E+LA  K+  +A+++GF E  +  +   A+     +    + 
Sbjct: 27  GIGPATAALLAENGITSAEQLAAQKVGSLAAVKGFSEARSRRVIADAQALFAAVSTETET 86

Query: 427 KIRELGVSE 435
           K  ++   +
Sbjct: 87  KTSDVPDQD 95


>gi|256393553|ref|YP_003115117.1| PHP domain-containing protein [Catenulispora acidiphila DSM 44928]
 gi|256359779|gb|ACU73276.1| PHP domain protein [Catenulispora acidiphila DSM 44928]
          Length = 579

 Score = 38.5 bits (89), Expect = 2.9,   Method: Composition-based stats.
 Identities = 22/80 (27%), Positives = 38/80 (47%), Gaps = 7/80 (8%)

Query: 386 ELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGV--SEELCSIPGI 443
           +LA +  + + +I G  + TA +I     EYL    +   + +R        E+  IPG+
Sbjct: 45  DLAHLDEAGLRAIPGVGDSTAEKI----SEYLASGRMEALESLRAKIPPGVREVTQIPGV 100

Query: 444 DSKIKVALGEN-GIKTMEDL 462
             K  V L    GIK++++L
Sbjct: 101 GPKTAVLLYRKLGIKSVDEL 120


>gi|225714670|gb|ACO13181.1| DNA repair protein RAD51 homolog 1 [Lepeophtheirus salmonis]
          Length = 350

 Score = 38.5 bits (89), Expect = 2.9,   Method: Composition-based stats.
 Identities = 9/57 (15%), Positives = 19/57 (33%)

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           F       ++   +       L   G+  VE +       + +I+G  E  A ++  
Sbjct: 31  FGPMPISVLEQHGISASDVKKLSEVGYHTVESIVYAPKKSLLAIKGISEAKADKLLA 87


>gi|149198973|ref|ZP_01876014.1| NAD-dependent DNA ligase [Lentisphaera araneosa HTCC2155]
 gi|149137968|gb|EDM26380.1| NAD-dependent DNA ligase [Lentisphaera araneosa HTCC2155]
          Length = 647

 Score = 38.5 bits (89), Expect = 2.9,   Method: Composition-based stats.
 Identities = 24/129 (18%), Positives = 46/129 (35%), Gaps = 21/129 (16%)

Query: 338 TIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIAS 397
            +DI+ E +      K         ++A  V E I   L   G+  V+ L  + + ++  
Sbjct: 383 RVDIVCENKLCPATNKAALIDFFSTLKADEVGEGIITSLWDAGYQSVKNLLNLTMEDLLK 442

Query: 398 IEGFDEETAVEIQGRAR------------------EYLEGIDITLQKKIRELGVS---EE 436
           +EGF +  A ++    +                  + L    + L +K  + G+    EE
Sbjct: 443 LEGFKQRKAKKVLDSIKISVVDVPLPRLQHASNLFKGLGEKKLELLQKYDQAGIKPSFEE 502

Query: 437 LCSIPGIDS 445
           L  + G   
Sbjct: 503 LLEVDGYSE 511


>gi|88607931|ref|YP_504887.1| 30S ribosomal protein S1 [Anaplasma phagocytophilum HZ]
 gi|88598994|gb|ABD44464.1| ribosomal protein S1 [Anaplasma phagocytophilum HZ]
          Length = 542

 Score = 38.5 bits (89), Expect = 2.9,   Method: Composition-based stats.
 Identities = 25/70 (35%), Positives = 37/70 (52%), Gaps = 6/70 (8%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRE---NLRPGDRVKSYIYDVRRE 192
           + GEII GTV   + G + VD G  S+GV+   E    E   ++  G +VK Y+   + E
Sbjct: 34  REGEIIEGTVICKDSGYITVDAGLKSEGVVSLREFELGEGKQDIEVGSKVKLYLE--KTE 91

Query: 193 QRGPQVLLSR 202
            +   V+LSR
Sbjct: 92  GKSGSVVLSR 101


>gi|150390386|ref|YP_001320435.1| RNA-binding S1 domain-containing protein [Alkaliphilus
           metalliredigens QYMF]
 gi|149950248|gb|ABR48776.1| RNA binding S1 domain protein [Alkaliphilus metalliredigens QYMF]
          Length = 383

 Score = 38.5 bits (89), Expect = 2.9,   Method: Composition-based stats.
 Identities = 21/91 (23%), Positives = 41/91 (45%), Gaps = 9/91 (9%)

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI----- 171
           +   + E   + +    + K GE+++G V +V    + V++G  +DG++ RDE       
Sbjct: 1   MSHDMEELMEEIEKSLIRPKRGEVVTGKVIQVSDKGITVNIGYKADGIVPRDEISNDPTI 60

Query: 172 -SRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
             ++  +  D +  YI      +    VLLS
Sbjct: 61  TPQDVAKADDEISVYIIKTDDGEGN--VLLS 89


>gi|300172736|ref|YP_003771901.1| cell division protease [Leuconostoc gasicomitatum LMG 18811]
 gi|299887114|emb|CBL91082.1| Cell division protease ftsH homolog [Leuconostoc gasicomitatum LMG
           18811]
          Length = 695

 Score = 38.5 bits (89), Expect = 2.9,   Method: Composition-based stats.
 Identities = 30/129 (23%), Positives = 53/129 (41%), Gaps = 10/129 (7%)

Query: 380 GFADVEELACVKISEIASIEGFDEETA----VEIQGRAREYLE-GIDITLQKKIRELGVS 434
           G   +E  A V  +E A   G+ EETA     E++  ++E  E    I  + K + + ++
Sbjct: 547 GMVQLEGNASVGYAEQAGNRGYSEETARLIDEEVRRLSKEAFEDATKIISEHKDKLIAIA 606

Query: 435 EELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLL---GWSENKGGNIEKFDGFLSSL 491
           E L  +  +D K    + E G  T +D+     D+L     + E K     K     +  
Sbjct: 607 EALLEVETLDEKQIKDIYETGKFTRKDI--QDNDELATAKSFDEAKAAVDAKDSEAEARF 664

Query: 492 GTPKDQVES 500
               ++ E+
Sbjct: 665 ENHDEEPEN 673


>gi|268316851|ref|YP_003290570.1| 30S ribosomal protein S1 [Rhodothermus marinus DSM 4252]
 gi|262334385|gb|ACY48182.1| ribosomal protein S1 [Rhodothermus marinus DSM 4252]
          Length = 720

 Score = 38.5 bits (89), Expect = 2.9,   Method: Composition-based stats.
 Identities = 35/136 (25%), Positives = 61/136 (44%), Gaps = 10/136 (7%)

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPL-PPMDFGRVAVQSAKQVIIQKVREAER 127
           V E E     ++   A+   P +   G ++ P+    D  +   Q A++V      E   
Sbjct: 56  VAEAEAEPEPVAEAPAQKTRPVLGFKGEITGPVVKLEDLEKQ--QEAREV--DPFHEQLL 111

Query: 128 DRQYLEFKD-KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSY 185
            +    F     GEI+ G +  V    VI+D+G  S G++ R+E    E ++PGD V+ +
Sbjct: 112 RQIEESFTTVNEGEIVKGRILAVGEKEVIIDIGFKSTGIVSRNEFGDAE-IKPGDEVEVF 170

Query: 186 IYDVRREQRGPQVLLS 201
           +  +   Q   Q++LS
Sbjct: 171 VERLEDAQG--QLVLS 184


>gi|194381662|dbj|BAG64200.1| unnamed protein product [Homo sapiens]
          Length = 140

 Score = 38.5 bits (89), Expect = 2.9,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 26/62 (41%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
           D+   ++ F  +    ++   ++      L   GF  VE +A     E+ +I+G  E   
Sbjct: 12  DTSVEEESFGPQPISRLEQCGINANDVKKLEEAGFHTVEAVAYAPKKELINIKGISEAMM 71

Query: 407 VE 408
           VE
Sbjct: 72  VE 73


>gi|188588993|ref|YP_001921151.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding
           domain protein [Clostridium botulinum E3 str. Alaska
           E43]
 gi|188499274|gb|ACD52410.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Clostridium
           botulinum E3 str. Alaska E43]
          Length = 635

 Score = 38.5 bits (89), Expect = 2.9,   Method: Composition-based stats.
 Identities = 32/165 (19%), Positives = 71/165 (43%), Gaps = 15/165 (9%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              QI +K  +D+   I+    V   +         V ++++V+++ ++E E ++ +   
Sbjct: 418 PASQIDVKFTKDKSKYINQVLEVKL-IDYSTEEHKKVIASRRVLLEVIKETEEEKIWESL 476

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISR------ENLRPGDRVKSYIYD 188
              VG++I   VKR       +D+   DG++   +          + L+  + ++  I  
Sbjct: 477 N--VGDVIKAEVKRFTKFGAFLDVNGIDGLLHLSQISWNHVKNIEDILKKDEMIEVKIIA 534

Query: 189 VRREQRGPQVLLSRTHPQFMVKLFHMEVPEIY-NGIVQVKAVSRD 232
           + +E +  ++ LSR   + + K +   V E Y  G + +  V R 
Sbjct: 535 LDKENK--KLSLSRK--ELLPKPWEN-VKEKYPEGSIVLGKVVRI 574


>gi|114704383|ref|ZP_01437291.1| 30S ribosomal protein S1 [Fulvimarina pelagi HTCC2506]
 gi|114539168|gb|EAU42288.1| 30S ribosomal protein S1 [Fulvimarina pelagi HTCC2506]
          Length = 569

 Score = 38.5 bits (89), Expect = 2.9,   Method: Composition-based stats.
 Identities = 34/191 (17%), Positives = 72/191 (37%), Gaps = 29/191 (15%)

Query: 25  DVVLSVMADSIQKA------ARS---------LYGTMSDIRVEI-NPETGDISLFRLLEV 68
           +V +  + +++ +A      AR           +     +  +I N   G  ++     V
Sbjct: 75  EVYVERIENALGEAVLSRDKARREESWIRLEAKFNENEKVEGQIFNQVKGGFTVDLDGAV 134

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                    Q+ ++  RD  P ++        +  MD  R  +  +++ ++++ R  +R 
Sbjct: 135 A---FLPRSQVDIRPIRDVTPLMNTPQP--FQILKMDKRRGNIVVSRRTVLEESRAEQRS 189

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRV 182
                 +   G+++ G VK +      VDLG  DG++   +          E L+ G  V
Sbjct: 190 EIVQNLE--EGQVVDGIVKNITDYGAFVDLGGIDGLLHVTDMAWRRVNHPTEILQIGQTV 247

Query: 183 KSYIYDVRREQ 193
           K  I  + +E 
Sbjct: 248 KVQIIRINQET 258


>gi|258545130|ref|ZP_05705364.1| 30S ribosomal protein S1 [Cardiobacterium hominis ATCC 15826]
 gi|258519649|gb|EEV88508.1| 30S ribosomal protein S1 [Cardiobacterium hominis ATCC 15826]
          Length = 556

 Score = 38.5 bits (89), Expect = 2.9,   Method: Composition-based stats.
 Identities = 22/113 (19%), Positives = 50/113 (44%), Gaps = 8/113 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +DP++  G  +   +  +D  R  +  +++ +++   +AERD        + G+++   V
Sbjct: 141 KDPALSEGKEIDFKIIKLDQKRNNIVISRRAVLENEYKAERDEVLKNL--QEGDVVKAVV 198

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           K +      +D+G  DG++   +          E +  GD V+  +    RE+
Sbjct: 199 KNLTDYGAFLDIGGVDGLLHITDMAWKRIKYPSEVVNIGDEVEVKVLKFDRER 251


>gi|239830871|ref|ZP_04679200.1| ribosomal protein S1 [Ochrobactrum intermedium LMG 3301]
 gi|239823138|gb|EEQ94706.1| ribosomal protein S1 [Ochrobactrum intermedium LMG 3301]
          Length = 576

 Score = 38.5 bits (89), Expect = 2.9,   Method: Composition-based stats.
 Identities = 34/191 (17%), Positives = 70/191 (36%), Gaps = 29/191 (15%)

Query: 25  DVVLSVMADSIQKA------ARS---------LYGTMSDIR-VEINPETGDISLFRLLEV 68
           +V +  + +++ +A      AR           +     +  V  N   G  ++     V
Sbjct: 85  EVYVERIENALGEAVLSREKARREESWVKLEQKFANGERVDGVIFNQVKGGFTVDLDGAV 144

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                    Q+ ++  RD  P + +       +  MD  R  +  +++ ++++ R  +R 
Sbjct: 145 A---FLPRSQVDIRPIRDVTPLMHVPQP--FEILKMDKRRGNIVVSRRTVLEESRAEQRS 199

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRV 182
                 +   G+++ G VK +      VDLG  DG++   +          E L  G  V
Sbjct: 200 EIVQNLE--EGQVVEGVVKNITDYGAFVDLGGIDGLLHVTDMAWRRVNHPSEILTIGQTV 257

Query: 183 KSYIYDVRREQ 193
           K  I  + +E 
Sbjct: 258 KVQIIRINQET 268


>gi|114770170|ref|ZP_01447708.1| 30S ribosomal protein S1 [alpha proteobacterium HTCC2255]
 gi|114549007|gb|EAU51890.1| 30S ribosomal protein S1 [alpha proteobacterium HTCC2255]
          Length = 559

 Score = 38.5 bits (89), Expect = 2.9,   Method: Composition-based stats.
 Identities = 19/95 (20%), Positives = 40/95 (42%), Gaps = 8/95 (8%)

Query: 105 DFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV 164
           D  R  +  +++ I+++ R  +R     +     G+ + G VK +      VDLG  DG+
Sbjct: 165 DRRRGNIVVSRRAILEESRAEQRAEIVGKLA--EGDAVDGVVKNITDYGAFVDLGGVDGL 222

Query: 165 IRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           +   +          E L  G+ +K  +  + ++ 
Sbjct: 223 LHVTDMAWSRVNHPSEVLTIGETIKVQVIKINKDT 257


>gi|12854668|dbj|BAB30101.1| unnamed protein product [Mus musculus]
 gi|148665857|gb|EDK98273.1| SAM domain, SH3 domain and nuclear localization signals, 1, isoform
           CRA_b [Mus musculus]
          Length = 540

 Score = 38.5 bits (89), Expect = 2.9,   Method: Composition-based stats.
 Identities = 24/109 (22%), Positives = 53/109 (48%), Gaps = 9/109 (8%)

Query: 339 IDIITEEEDS-------INRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVK 391
           +D+I EEE +        +R+++ ++  Q F++ I++ E  + LL+  G+  +++L  +K
Sbjct: 387 VDVILEEEAAPKKIKVPRSRRRENHQTIQEFLERIHLQEYTSTLLL-NGYETLDDLKDIK 445

Query: 392 ISEIASIEGFDEETAVEIQGRAREYL-EGIDITLQKKIRELGVSEELCS 439
            S +  +   D E    +   A   L E   +  +K+   L  + ++ S
Sbjct: 446 ESHLIELNIADPEDRARLLSAAESLLDEETTVEHEKESVPLSSNPDILS 494


>gi|312794314|ref|YP_004027237.1| RNA binding S1 domain-containing protein [Caldicellulosiruptor
           kristjanssonii 177R1B]
 gi|312181454|gb|ADQ41624.1| RNA binding S1 domain protein [Caldicellulosiruptor kristjanssonii
           177R1B]
          Length = 256

 Score = 38.5 bits (89), Expect = 3.0,   Method: Composition-based stats.
 Identities = 20/116 (17%), Positives = 46/116 (39%), Gaps = 14/116 (12%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              ++ L+          +G ++   +       VA Q  K  I +     +R + + E 
Sbjct: 54  DEAELGLQEQVKNKADALLGALIEFVV-------VAQQHGKFYISRVKAMEKRRKIWQE- 105

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
           K + G+++ G +  V   N  +++   +  +  +E +       R + +  DRVK+
Sbjct: 106 KVREGDVVEGRITGVTPKNAFIEVLGYELALPAEEMLWNYTNDLRRHFKIADRVKA 161


>gi|312127611|ref|YP_003992485.1| hydroxymethylbutenyl pyrophosphate reductase [Caldicellulosiruptor
           hydrothermalis 108]
 gi|311777630|gb|ADQ07116.1| hydroxymethylbutenyl pyrophosphate reductase [Caldicellulosiruptor
           hydrothermalis 108]
          Length = 663

 Score = 38.5 bits (89), Expect = 3.0,   Method: Composition-based stats.
 Identities = 21/120 (17%), Positives = 49/120 (40%), Gaps = 20/120 (16%)

Query: 89  PSIDIGGVVSDPLPPMDFGRVA-VQSAKQVIIQKVREAERD------RQYLEFKDK---- 137
             ++    +         G  A   ++ + I + V+  E        + +  F  +    
Sbjct: 242 DKVEDLDSIKLDSHIKSIGVTAGASTSPEQIEEVVKHLEEKFNEMSLKDFERFIGRNFLT 301

Query: 138 --VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISR------ENLRPGDRVKSYIYD 188
              GE++ G + +VE   V+VD+G  ++G+I +DE I        +  + G+ +++ +  
Sbjct: 302 VQRGEVVKGRIIKVEEDYVLVDIGYKAEGIIYKDEVIKNGNVNLKDLFKIGETIEAVVIK 361


>gi|223043234|ref|ZP_03613281.1| putative 30S ribosomal protein S1 homolog [Staphylococcus capitis
           SK14]
 gi|222443445|gb|EEE49543.1| putative 30S ribosomal protein S1 homolog [Staphylococcus capitis
           SK14]
          Length = 392

 Score = 38.5 bits (89), Expect = 3.0,   Method: Composition-based stats.
 Identities = 26/117 (22%), Positives = 49/117 (41%), Gaps = 22/117 (18%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           K G+ ++G V++VE   V+V +  G  +G+I   +          E ++ GD V++Y+  
Sbjct: 14  KEGDKVTGEVQQVEDKQVVVHINGGKFNGIIPISQLSTHHIENPSEVVKVGDEVEAYVTK 73

Query: 189 V---RREQRGPQVLLSR-----THPQFMV------KLFHMEVPEIYNGIVQVKAVSR 231
           +        G  +L  R        +F+       ++   EV E+  G + V    R
Sbjct: 74  IEFDEENDSGAYILSKRQLETEKSYEFLQEKLDNDEVIEAEVTEVVKGGLVVDVGQR 130


>gi|20067709|emb|CAD29096.1| chimeric DNA-directed DNA polymerase bf2-8 [synthetic construct]
          Length = 335

 Score = 38.5 bits (89), Expect = 3.0,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
            L + GIKT+EDL
Sbjct: 113 KLVDEGIKTLEDL 125


>gi|296242500|ref|YP_003649987.1| DNA repair and recombination protein RadA [Thermosphaera aggregans
           DSM 11486]
 gi|296095084|gb|ADG91035.1| DNA repair and recombination protein RadA [Thermosphaera aggregans
           DSM 11486]
          Length = 326

 Score = 38.5 bits (89), Expect = 3.0,   Method: Composition-based stats.
 Identities = 14/71 (19%), Positives = 26/71 (36%), Gaps = 1/71 (1%)

Query: 364 QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL-EGIDI 422
               V+  IA  L A G++    +   ++ E+A   G       ++   AR  L      
Sbjct: 18  DIPGVNPAIADKLEAAGYSSAWTVVVARVDELAEKTGIPPTALQKVIENARRALGITFKT 77

Query: 423 TLQKKIRELGV 433
             + K+  L +
Sbjct: 78  AREVKLERLNI 88


>gi|195387273|ref|XP_002052320.1| GJ17491 [Drosophila virilis]
 gi|194148777|gb|EDW64475.1| GJ17491 [Drosophila virilis]
          Length = 579

 Score = 38.5 bits (89), Expect = 3.0,   Method: Composition-based stats.
 Identities = 18/104 (17%), Positives = 45/104 (43%), Gaps = 17/104 (16%)

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTI------------DII----TEEEDSINRQ 352
           +++V  + + L IGR G N++L  + TG  I            DI       +   +   
Sbjct: 72  KIVVDNDHVPLIIGRGGANIKLIEEKTGAKIRLRDKDNSHKFCDINGLPDAVKAARVMLI 131

Query: 353 KDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIA 396
           K+        M+ + V + +A+ +   G   +++++   +++++
Sbjct: 132 KEIERAPIVKME-LQVPQRLANKINGRGGEIIQDISRASLAKLS 174


>gi|170078958|ref|YP_001735596.1| 30S ribosomal protein S1 like protein [Synechococcus sp. PCC 7002]
 gi|169886627|gb|ACB00341.1| 30S ribosomal protein S1 like protein [Synechococcus sp. PCC 7002]
          Length = 296

 Score = 38.5 bits (89), Expect = 3.0,   Method: Composition-based stats.
 Identities = 28/108 (25%), Positives = 46/108 (42%), Gaps = 13/108 (12%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI--SREN----LRPGDRVKSYIYDVRR 191
           +G ++SGTV  ++   V V+L    G++ R +      E        G  V+  I D+  
Sbjct: 193 IGALVSGTVVNIKPYGVFVELDGMTGLLHRSQISAKPVEQIEALFSIGQTVRVLITDIEE 252

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKL 239
                ++ LS       ++ F  EV E ++  VQ  A  R   +R KL
Sbjct: 253 SNN--RISLS----LQALEKFPGEVIEQFD-AVQTNAEERVEAARKKL 293


>gi|161611256|ref|YP_296774.2| 30S ribosomal protein S1 [Ralstonia eutropha JMP134]
          Length = 564

 Score = 38.5 bits (89), Expect = 3.0,   Method: Composition-based stats.
 Identities = 27/137 (19%), Positives = 58/137 (42%), Gaps = 22/137 (16%)

Query: 74  NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
           + + Q + + A         G  V   +  +D         K+ I   +++   D  +  
Sbjct: 400 DLSWQETGEEAVR---KYKKGDEVEAVVLGIDVD-------KERISLGIKQLSGDP-FNN 448

Query: 134 FK--DKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETIS------RENLRPGDRVKS 184
           F   +  G +++GT+K V+    +V L  + +G +R  E  +      R  L+ G+++ +
Sbjct: 449 FISANDKGSLVTGTIKAVDPKGAVVQLADDVEGYLRASEISADRVEDARNVLKEGEQITA 508

Query: 185 YIYDVRREQRGPQVLLS 201
            + +V R+ R   + LS
Sbjct: 509 LVVNVDRKSRN--INLS 523



 Score = 37.4 bits (86), Expect = 5.9,   Method: Composition-based stats.
 Identities = 28/122 (22%), Positives = 48/122 (39%), Gaps = 9/122 (7%)

Query: 80  SLKVARDR-DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           SL   R   D +   G  +   +  +D  R  V  +++ +++     ER +     K   
Sbjct: 139 SLVDVRPIKDTTPYEGKTLEFKVIKLDRKRNNVVLSRRAVVEATLGEERQKLMETLK--E 196

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRRE 192
           G I++G VK +      VDLG  DG++       R      E L  G  + + I    +E
Sbjct: 197 GAIVNGIVKNITDYGAFVDLGGIDGLLHITDLAWRRVRHPSEVLSVGQEITAKILKFDQE 256

Query: 193 QR 194
           + 
Sbjct: 257 KN 258


>gi|5002354|gb|AAD37433.1|AF150881_1 ferulate-5-hydroxylase [Solanum lycopersicum x Solanum peruvianum]
          Length = 521

 Score = 38.5 bits (89), Expect = 3.0,   Method: Composition-based stats.
 Identities = 33/139 (23%), Positives = 57/139 (41%), Gaps = 24/139 (17%)

Query: 321 IGRRGQNVRLA---SQLTGWTIDIITEEEDSINRQKDFNERT-QFFMQAINVDEIIAHLL 376
           IG++G NVRLA   + L G+   I T  +D I R+K  +      + ++  VDE++A   
Sbjct: 231 IGKQGLNVRLAKARASLDGF---IDTIIDDHIERKKAIHVINDDGYRESDMVDELLA--- 284

Query: 377 VAEGFADVEELACVKISEIASIEGFDEETAVEIQ--------GRAREYLEGIDITLQKKI 428
               F   EE    +  ++ +      +    I               +E     L K  
Sbjct: 285 ----FYS-EETKVNESEDLQNAIRLTRDNIKAIIMDVMFGGTETVASAIEWAMAELMKSP 339

Query: 429 REL-GVSEELCSIPGIDSK 446
            +L  V +EL ++ G++ K
Sbjct: 340 EDLKKVQQELANVVGLNRK 358


>gi|320108571|ref|YP_004184161.1| 30S ribosomal protein S1 [Terriglobus saanensis SP1PR4]
 gi|319927092|gb|ADV84167.1| ribosomal protein S1 [Terriglobus saanensis SP1PR4]
          Length = 636

 Score = 38.5 bits (89), Expect = 3.0,   Method: Composition-based stats.
 Identities = 22/112 (19%), Positives = 44/112 (39%), Gaps = 17/112 (15%)

Query: 91  IDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR-V 149
            D    +   + P D  R      KQ     +++   ++   ++   +GEI+ G V+   
Sbjct: 395 GDEADTIILAVNPTD--RRISLGMKQ-----LQDNPWEQLENKYP--IGEIVEGRVRNLT 445

Query: 150 EYGNVIVDLGNSDGVIRRDETI-------SRENLRPGDRVKSYIYDVRREQR 194
           ++G  I      DG++               E L+ G++V++ +  V  E R
Sbjct: 446 DFGAFIEIEDGIDGLVHVSNLSWTKRIKHPSEVLKKGEKVRAVVLGVEPENR 497


>gi|159469155|ref|XP_001692733.1| DNA recombination protein [Chlamydomonas reinhardtii]
 gi|45685351|gb|AAS75433.1| putative DNA repair protein RAD51 [Chlamydomonas reinhardtii]
 gi|158277986|gb|EDP03752.1| DNA recombination protein [Chlamydomonas reinhardtii]
          Length = 343

 Score = 38.5 bits (89), Expect = 3.0,   Method: Composition-based stats.
 Identities = 15/71 (21%), Positives = 29/71 (40%), Gaps = 3/71 (4%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE---G 419
           +QA  V       L   G   VE LA +   +++ I+G  E    ++Q  A + +     
Sbjct: 31  LQAHGVAAADIKKLKEGGIHTVEALAFMPKKQLSEIKGLSEAKIDKMQLVAFKMVPMGFT 90

Query: 420 IDITLQKKIRE 430
               + ++ +E
Sbjct: 91  TAAAVAEQRKE 101


>gi|329116899|ref|ZP_08245616.1| polyribonucleotide nucleotidyltransferase [Streptococcus parauberis
           NCFD 2020]
 gi|326907304|gb|EGE54218.1| polyribonucleotide nucleotidyltransferase [Streptococcus parauberis
           NCFD 2020]
          Length = 748

 Score = 38.5 bits (89), Expect = 3.0,   Method: Composition-based stats.
 Identities = 34/185 (18%), Positives = 69/185 (37%), Gaps = 36/185 (19%)

Query: 29  SVMADSIQKAARSLYGTMSDIRVEINP------------ETGDISLFRLLEVVEEVENYT 76
            ++ +++ +A ++ +  +  I+  I              +T  I + ++  V+ +     
Sbjct: 520 QILEEALAQAKKARFEILDLIQATIAEPRPELAPTAPKIDTIKIDVDKIKIVIGKGGETI 579

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +I  +     D    I    +  +   D  +VA+   K++I   VREA           
Sbjct: 580 DKIIAETGVKID----IDDEGTVQIFSSD--QVAINRTKEIIAGLVREA----------- 622

Query: 137 KVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDET------ISRENLRPGDRVKSYIYDV 189
           KVGE+    V R+E     V+L   +D ++   E          + L  G+ V   +  V
Sbjct: 623 KVGEVYHAKVVRIEKFGAFVNLFDKTDALVHISEIAWTRTANVSDVLELGEEVDVKVIKV 682

Query: 190 RREQR 194
             + R
Sbjct: 683 DEKGR 687


>gi|170050565|ref|XP_001861368.1| igf2 mRNA binding protein [Culex quinquefasciatus]
 gi|167872165|gb|EDS35548.1| igf2 mRNA binding protein [Culex quinquefasciatus]
          Length = 992

 Score = 38.5 bits (89), Expect = 3.0,   Method: Composition-based stats.
 Identities = 15/38 (39%), Positives = 23/38 (60%)

Query: 302 DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
           D+    +E++VP  Q+   IG+ GQNVR   ++TG  I
Sbjct: 927 DDVRLTMEILVPSAQVRRIIGKGGQNVRELQRVTGSII 964


>gi|329946785|ref|ZP_08294197.1| 30S ribosomal protein S1 [Actinomyces sp. oral taxon 170 str.
           F0386]
 gi|328526596|gb|EGF53609.1| 30S ribosomal protein S1 [Actinomyces sp. oral taxon 170 str.
           F0386]
          Length = 484

 Score = 38.5 bits (89), Expect = 3.1,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 39/70 (55%), Gaps = 9/70 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V+   V++D+G  ++GVI   E          E +  GD +++ +   ++
Sbjct: 36  GDIVEGTVVKVDRDEVLLDIGYKTEGVILARELSIKHDVDPDEIVSVGDEIEALVL--QK 93

Query: 192 EQRGPQVLLS 201
           E +  ++LLS
Sbjct: 94  EDKEGRLLLS 103


>gi|284034556|ref|YP_003384487.1| SNF2-like protein [Kribbella flavida DSM 17836]
 gi|283813849|gb|ADB35688.1| SNF2-related protein [Kribbella flavida DSM 17836]
          Length = 742

 Score = 38.5 bits (89), Expect = 3.1,   Method: Composition-based stats.
 Identities = 13/74 (17%), Positives = 29/74 (39%)

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
            V      +L   G+  +  LA V  +E+ ++ G   +TA +I    R  +  +  + Q 
Sbjct: 75  EVTGTRVGMLEKAGYRTIGRLAGVSSAELVALPGIGPKTADKITEAVRAVVGDVARSAQF 134

Query: 427 KIRELGVSEELCSI 440
           + +     +    +
Sbjct: 135 RFQPDRPDDAQRDL 148


>gi|75674405|ref|YP_316826.1| 30S ribosomal protein S1 [Nitrobacter winogradskyi Nb-255]
 gi|74419275|gb|ABA03474.1| SSU ribosomal protein S1P [Nitrobacter winogradskyi Nb-255]
          Length = 567

 Score = 38.5 bits (89), Expect = 3.1,   Method: Composition-based stats.
 Identities = 34/191 (17%), Positives = 67/191 (35%), Gaps = 29/191 (15%)

Query: 25  DVVLSVMADSIQKA---------------ARSLYGTMSDIR-VEINPETGDISLFRLLEV 68
           +V L  + +++ +A                   +     +  V  N   G  ++     V
Sbjct: 78  EVFLDRIENALGEAVLSRDKARREESWGKLEKAFNNNEKVHGVIFNQVKGGFTVDLDGAV 137

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                    Q+ ++  RD  P ++        +  MD  R  +  +++ ++++ R  +R 
Sbjct: 138 A---FLPRSQVDIRPIRDVGPLMNNTQP--FQILKMDRRRGNIVVSRRTVLEETRAEQRQ 192

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRV 182
                 +   G++I G VK +      VDLG  DG++   +          E L  G  V
Sbjct: 193 ELVQNLE--EGQVIDGVVKNITDYGAFVDLGGIDGLLHVTDIAWRRVNHPTEVLAIGQTV 250

Query: 183 KSYIYDVRREQ 193
           K  I  +  E 
Sbjct: 251 KVKIIKINHET 261


>gi|20067687|emb|CAD29085.1| chimeric DNA-directed DNA polymerase bf4-11 [synthetic construct]
          Length = 324

 Score = 38.5 bits (89), Expect = 3.1,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
            L + GIKT+EDL
Sbjct: 113 KLVDEGIKTLEDL 125


>gi|269124830|ref|YP_003298200.1| RNA binding S1 domain-containing protein [Thermomonospora curvata
           DSM 43183]
 gi|268309788|gb|ACY96162.1| RNA binding S1 domain protein [Thermomonospora curvata DSM 43183]
          Length = 162

 Score = 38.5 bits (89), Expect = 3.1,   Method: Composition-based stats.
 Identities = 22/71 (30%), Positives = 33/71 (46%), Gaps = 8/71 (11%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
           + G I++G V+ +E     VDLG  +G+++             + L  G  V   I DV 
Sbjct: 11  RAGMIVTGRVRSLERFGAFVDLGGVEGLLKTHNISWRPIEYPSDVLSVGKEVTVKILDVD 70

Query: 191 REQRGPQVLLS 201
             QRG Q+ LS
Sbjct: 71  L-QRG-QISLS 79


>gi|312283561|dbj|BAJ34646.1| DNA recombinational repair protein [Magnaporthe oryzae]
          Length = 353

 Score = 38.5 bits (89), Expect = 3.1,   Method: Composition-based stats.
 Identities = 11/43 (25%), Positives = 20/43 (46%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
             L++  G+  VE +A      +  I+G  E+ A +I   A +
Sbjct: 42  IQLVMEGGYNTVESVAYTPRRMLEQIKGISEQKAGKILAEASK 84


>gi|15639271|ref|NP_218720.1| bifunctional cytidylate kinase/ribosomal protein S1 [Treponema
           pallidum subsp. pallidum str. Nichols]
 gi|189025513|ref|YP_001933285.1| bifunctional cytidylate kinase/ribosomal protein S1 [Treponema
           pallidum subsp. pallidum SS14]
 gi|3322552|gb|AAC65266.1| ribosomal protein S1 (rpsA) [Treponema pallidum subsp. pallidum
           str. Nichols]
 gi|189018088|gb|ACD70706.1| ribosomal protein S1 [Treponema pallidum subsp. pallidum SS14]
          Length = 863

 Score = 38.5 bits (89), Expect = 3.1,   Method: Composition-based stats.
 Identities = 23/73 (31%), Positives = 32/73 (43%), Gaps = 15/73 (20%)

Query: 139 GEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENL----RPGDRVKSYIYDVRREQ 193
           G +  GTV +V  G V VD+ G S+G       +  E      + GD V+ Y+  V    
Sbjct: 322 GSVRMGTVVQVNAGTVFVDIGGKSEG------RVPVEEFEAPPKAGDGVRVYVERV--TP 373

Query: 194 RGPQVLLSRTHPQ 206
            GP   LS+T   
Sbjct: 374 YGP--ELSKTKAD 384


>gi|256043981|ref|ZP_05446896.1| 30S ribosomal protein S1 [Brucella melitensis bv. 1 str. Rev.1]
          Length = 503

 Score = 38.5 bits (89), Expect = 3.1,   Method: Composition-based stats.
 Identities = 34/191 (17%), Positives = 70/191 (36%), Gaps = 29/191 (15%)

Query: 25  DVVLSVMADSIQKA------ARS---------LYGTMSDIR-VEINPETGDISLFRLLEV 68
           +V +  + +++ +A      AR           +     +  V  N   G  ++     V
Sbjct: 12  EVYVERIENALGEAVLSREKARREESWVKLEQKFANGERVDGVIFNQVKGGFTVDLDGAV 71

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                    Q+ ++  RD  P + +       +  MD  R  +  +++ ++++ R  +R 
Sbjct: 72  A---FLPRSQVDIRPIRDVTPLMHVPQP--FEILKMDKRRGNIVVSRRTVLEESRAEQRS 126

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRV 182
                 +   G+++ G VK +      VDLG  DG++   +          E L  G  V
Sbjct: 127 EIVQNLE--EGQVVEGVVKNITDYGAFVDLGGIDGLLHVTDMAWRRVNHPSEILTIGQTV 184

Query: 183 KSYIYDVRREQ 193
           K  I  + +E 
Sbjct: 185 KVQIIRINQET 195


>gi|255525217|ref|ZP_05392159.1| hydroxymethylbutenyl pyrophosphate reductase [Clostridium
           carboxidivorans P7]
 gi|296188737|ref|ZP_06857124.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Clostridium
           carboxidivorans P7]
 gi|255511080|gb|EET87378.1| hydroxymethylbutenyl pyrophosphate reductase [Clostridium
           carboxidivorans P7]
 gi|296046664|gb|EFG86111.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Clostridium
           carboxidivorans P7]
          Length = 641

 Score = 38.5 bits (89), Expect = 3.1,   Method: Composition-based stats.
 Identities = 17/61 (27%), Positives = 29/61 (47%), Gaps = 6/61 (9%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
              ++ G VKR+      VD+   DG++   E          ++L+ G +VK YI D+ +
Sbjct: 476 KDTVVEGEVKRLTNFGAFVDVQGVDGLLHVSEISWGRVEKPEDSLKIGKKVKVYILDIDK 535

Query: 192 E 192
           E
Sbjct: 536 E 536


>gi|242242755|ref|ZP_04797200.1| 30S ribosomal protein S1 [Staphylococcus epidermidis W23144]
 gi|242233891|gb|EES36203.1| 30S ribosomal protein S1 [Staphylococcus epidermidis W23144]
 gi|319400825|gb|EFV89044.1| putative ribosomal protein S1 [Staphylococcus epidermidis FRI909]
          Length = 392

 Score = 38.5 bits (89), Expect = 3.1,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 34/65 (52%), Gaps = 8/65 (12%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           K G+ ++G V++VE   V+V +  G  +G+I   +          E ++ GD V++Y+  
Sbjct: 14  KEGDKVTGEVQQVEDKQVVVHINGGKFNGIIPISQLSTHHIENPSEVVKVGDEVEAYVTK 73

Query: 189 VRREQ 193
           +  ++
Sbjct: 74  IEFDE 78


>gi|209364104|ref|YP_001424879.2| 30S ribosomal protein S1 [Coxiella burnetii Dugway 5J108-111]
 gi|215918988|ref|NP_819560.2| 30S ribosomal protein S1 [Coxiella burnetii RSA 493]
 gi|206583873|gb|AAO90074.2| SSU ribosomal protein S1P [Coxiella burnetii RSA 493]
 gi|207082037|gb|ABS77449.2| SSU ribosomal protein S1P [Coxiella burnetii Dugway 5J108-111]
          Length = 555

 Score = 38.5 bits (89), Expect = 3.1,   Method: Composition-based stats.
 Identities = 26/114 (22%), Positives = 47/114 (41%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RDP       +   +  MD  R  V  +++ +++    AER  +  E   + G+ I G +
Sbjct: 142 RDPGYLEDKEIDFKIIKMDQRRNNVVVSRRAVMEAETSAERQARLEEL--QEGQEIKGVI 199

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++   +          + L  GD V   +    R+++
Sbjct: 200 KNITDYGAFVDLGGVDGLLHITDMAWGRVKHPSDLLNVGDEVHVKVLKFDRDKK 253


>gi|213972612|ref|NP_001123249.1| Rad51 homolog c [Rattus norvegicus]
 gi|149053773|gb|EDM05590.1| similar to RAD51L2/RAD51C protein (predicted) [Rattus norvegicus]
          Length = 366

 Score = 38.5 bits (89), Expect = 3.1,   Method: Composition-based stats.
 Identities = 18/46 (39%), Positives = 25/46 (54%), Gaps = 1/46 (2%)

Query: 376 LVAEGFADVEELACVKISEIASIEGFDEETAVE-IQGRAREYLEGI 420
           LVA GF   E++  VK SE++   G  +E A+E +Q   RE L   
Sbjct: 18  LVAAGFQTAEDVLEVKPSELSKEVGISKEEALETLQILRRECLTNK 63


>gi|312597477|pdb|3OGU|A Chain A, Dna Polymerase Beta Mutant 5p20 Complexed With 6bp Of Dna
          Length = 335

 Score = 38.5 bits (89), Expect = 3.1,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINLLTRVSGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
              + GIKT+EDL
Sbjct: 113 KFVDEGIKTLEDL 125


>gi|221632243|ref|YP_002521464.1| DNA ligase, NAD-dependent [Thermomicrobium roseum DSM 5159]
 gi|254781441|sp|B9KXM2|DNLJ_THERP RecName: Full=DNA ligase; AltName: Full=Polydeoxyribonucleotide
           synthase [NAD+]
 gi|221155911|gb|ACM05038.1| DNA ligase, NAD-dependent [Thermomicrobium roseum DSM 5159]
          Length = 695

 Score = 38.5 bits (89), Expect = 3.1,   Method: Composition-based stats.
 Identities = 23/95 (24%), Positives = 34/95 (35%), Gaps = 7/95 (7%)

Query: 342 ITEEEDSINRQKDFNERTQFFMQAIN---VDEIIAHLLVAEGFADVEELACVKISEIASI 398
              E      +   N     F+ A+    V E  A LL    F  ++ L    I E+  I
Sbjct: 504 KKVENLRKAIEASKNRPFARFLFALGIRHVGERNAQLLADH-FRSIDRLMEATIDELLQI 562

Query: 399 EGFDEETAVEIQGRAREYLEGIDITLQKKIRELGV 433
            GF    A  +    R   E  +  + ++ R LGV
Sbjct: 563 PGFGPAVAQSVFEFFR---EPKNREMIERFRRLGV 594


>gi|212212974|ref|YP_002303910.1| 30S ribosomal protein S1 [Coxiella burnetii CbuG_Q212]
 gi|212011384|gb|ACJ18765.1| SSU ribosomal protein S1P [Coxiella burnetii CbuG_Q212]
          Length = 555

 Score = 38.5 bits (89), Expect = 3.1,   Method: Composition-based stats.
 Identities = 26/114 (22%), Positives = 47/114 (41%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RDP       +   +  MD  R  V  +++ +++    AER  +  E   + G+ I G +
Sbjct: 142 RDPGYLEDKEIDFKIIKMDQRRNNVVVSRRAVMEAETSAERQARLEEL--QEGQEIKGVI 199

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++   +          + L  GD V   +    R+++
Sbjct: 200 KNITDYGAFVDLGGVDGLLHITDMAWGRVKHPSDLLNVGDEVHVKVLKFDRDKK 253


>gi|187465986|emb|CAQ51530.1| Rad51 homolog c (S. cerevisiae) [Mus musculus]
 gi|187465991|emb|CAQ52015.1| Rad51 homolog c (S. cerevisiae) [Mus musculus]
 gi|187954697|gb|AAI41035.1| RAD51 homolog c (S. cerevisiae) [Mus musculus]
          Length = 366

 Score = 38.5 bits (89), Expect = 3.1,   Method: Composition-based stats.
 Identities = 18/46 (39%), Positives = 25/46 (54%), Gaps = 1/46 (2%)

Query: 376 LVAEGFADVEELACVKISEIASIEGFDEETAVE-IQGRAREYLEGI 420
           LVA GF   E++  VK SE++   G  +E A+E +Q   RE L   
Sbjct: 18  LVAAGFQTAEDVLEVKPSELSKEVGISKEEALETLQILRRECLTNK 63


>gi|145499122|ref|XP_001435547.1| hypothetical protein [Paramecium tetraurelia strain d4-2]
 gi|124402680|emb|CAK68150.1| unnamed protein product [Paramecium tetraurelia]
          Length = 337

 Score = 38.5 bits (89), Expect = 3.1,   Method: Composition-based stats.
 Identities = 7/41 (17%), Positives = 14/41 (34%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
              L   GF   E +A      + +I+G  +    ++    
Sbjct: 36  IQRLKDAGFTTCESIAYTAKKNLMNIKGMTDAKIEKLVEAV 76


>gi|294948800|ref|XP_002785901.1| dna polymerase theta, putative [Perkinsus marinus ATCC 50983]
 gi|239900009|gb|EER17697.1| dna polymerase theta, putative [Perkinsus marinus ATCC 50983]
          Length = 1712

 Score = 38.1 bits (88), Expect = 3.2,   Method: Composition-based stats.
 Identities = 17/110 (15%), Positives = 30/110 (27%), Gaps = 15/110 (13%)

Query: 337 WTIDIITEEEDSINRQKDFNERTQFFMQAINVDEII---AHLLVAEGFADVEELACVKIS 393
           W I + +  +    R      R    +    + ++    A  L   GF   + +A     
Sbjct: 697 WRI-LESVFDTFAGRLSSMCHRRPELLALSEIPKLSPAWARQLYDAGFVSPKMVAGATPQ 755

Query: 394 EI---------ASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVS 434
           E+           I    E+    +   A   L   +   QK      V 
Sbjct: 756 ELQAVLRRVLPRQIPDVPEDALERLINDA--ALTAREQRKQKLREAREVQ 803


>gi|237814503|ref|ZP_04593501.1| ribosomal protein S1 [Brucella abortus str. 2308 A]
 gi|237789340|gb|EEP63550.1| ribosomal protein S1 [Brucella abortus str. 2308 A]
          Length = 576

 Score = 38.1 bits (88), Expect = 3.2,   Method: Composition-based stats.
 Identities = 34/191 (17%), Positives = 70/191 (36%), Gaps = 29/191 (15%)

Query: 25  DVVLSVMADSIQKA------ARS---------LYGTMSDIR-VEINPETGDISLFRLLEV 68
           +V +  + +++ +A      AR           +     +  V  N   G  ++     V
Sbjct: 85  EVYVERIENALGEAVLSREKARREESWVKLEQKFANGERVDGVIFNQVKGGFTVDLDGAV 144

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                    Q+ ++  RD  P + +       +  MD  R  +  +++ ++++ R  +R 
Sbjct: 145 A---FLPRSQVDIRPIRDVTPLMHVPQP--FEILKMDKRRGNIVVSRRTVLEESRAEQRS 199

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRV 182
                 +   G+++ G VK +      VDLG  DG++   +          E L  G  V
Sbjct: 200 EIVQNLE--EGQVVEGVVKNITDYGAFVDLGGIDGLLHVTDMAWRRVNHPSEILTIGQTV 257

Query: 183 KSYIYDVRREQ 193
           K  I  + +E 
Sbjct: 258 KVQIIRINQET 268


>gi|20067691|emb|CAD29087.1| chimeric DNA-directed DNA polymerase bf4-13 [synthetic construct]
          Length = 326

 Score = 38.1 bits (88), Expect = 3.2,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
            L + GIKT+EDL
Sbjct: 113 KLVDEGIKTLEDL 125


>gi|16716605|ref|NP_444499.1| DNA repair protein RAD51 homolog 3 [Mus musculus]
 gi|81902682|sp|Q924H5|RA51C_MOUSE RecName: Full=DNA repair protein RAD51 homolog 3; Short=R51H3;
           AltName: Full=RAD51 homolog C; AltName: Full=RAD51-like
           protein 2
 gi|14276845|gb|AAK58420.1|AF324883_1 RAD51L2/RAD51C protein [Mus musculus]
 gi|56205736|emb|CAI24486.1| Rad51 homolog c (S. cerevisiae) [Mus musculus]
 gi|56800429|emb|CAI35963.1| Rad51 homolog c (S. cerevisiae) [Mus musculus]
 gi|60422796|gb|AAH90648.1| RAD51 homolog c (S. cerevisiae) [Mus musculus]
 gi|148683867|gb|EDL15814.1| Rad51 homolog c (S. cerevisiae), isoform CRA_b [Mus musculus]
          Length = 366

 Score = 38.1 bits (88), Expect = 3.2,   Method: Composition-based stats.
 Identities = 18/46 (39%), Positives = 25/46 (54%), Gaps = 1/46 (2%)

Query: 376 LVAEGFADVEELACVKISEIASIEGFDEETAVE-IQGRAREYLEGI 420
           LVA GF   E++  VK SE++   G  +E A+E +Q   RE L   
Sbjct: 18  LVAAGFQTAEDVLEVKPSELSKEVGISKEEALETLQILRRECLTNK 63


>gi|89076629|ref|ZP_01162932.1| D-alanylalanine synthetase [Photobacterium sp. SKA34]
 gi|89047711|gb|EAR53313.1| D-alanylalanine synthetase [Photobacterium sp. SKA34]
          Length = 331

 Score = 38.1 bits (88), Expect = 3.2,   Method: Composition-based stats.
 Identities = 23/153 (15%), Positives = 51/153 (33%), Gaps = 26/153 (16%)

Query: 341 IITEEEDSINRQKDFNERTQFFMQA------INV------DEIIAHLLVA-----EGFAD 383
           +++E+E +      F    Q  ++       + +      DE++           + F  
Sbjct: 174 VMSEQELTEAVNNAFGYSDQVLIEKAIRPRELEIAAYQYGDELVITKPGEVSCPTDKFYS 233

Query: 384 VEE--LACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE--LCS 439
            EE   A    + +   E   EE    I+  AR+    + +    +I      +   L +
Sbjct: 234 YEEKYSADSVSTTMVEAENLTEEQVEAIRTYARKAFVQMKLKDLSRIDFFLSEDNEILLN 293

Query: 440 ----IPGIDS-KIKVALGENGIKTMEDLAGCSV 467
                PG+    +   + E+  +T  D    ++
Sbjct: 294 EINTFPGMTPISMFPKMLEHNGQTFADFIEQAI 326


>gi|302381901|ref|YP_003817724.1| ribosomal protein S1 [Brevundimonas subvibrioides ATCC 15264]
 gi|302192529|gb|ADL00101.1| ribosomal protein S1 [Brevundimonas subvibrioides ATCC 15264]
          Length = 567

 Score = 38.1 bits (88), Expect = 3.2,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 28/58 (48%), Gaps = 4/58 (6%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRE---NLRPGDRVKSYIYDVRR 191
            G+++ G V  +E   +I+D+G  ++G I   E    E     + GD V+ Y+  V  
Sbjct: 27  EGQVVHGRVVGIEKDILIIDVGLKTEGRISIREFAVGEGSVVPKVGDNVEVYLERVEN 84


>gi|242373783|ref|ZP_04819357.1| 30S ribosomal protein S1 [Staphylococcus epidermidis M23864:W1]
 gi|242348520|gb|EES40122.1| 30S ribosomal protein S1 [Staphylococcus epidermidis M23864:W1]
          Length = 399

 Score = 38.1 bits (88), Expect = 3.2,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 34/65 (52%), Gaps = 8/65 (12%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDET------ISRENLRPGDRVKSYIYD 188
           K G+ ++G V++VE   V+V +  G  +G+I   +          E ++ GD V++Y+  
Sbjct: 21  KEGDKVTGEVQQVEDKQVVVHINGGKFNGIIPISQLSTHHIESPSEVVKVGDEVEAYVTK 80

Query: 189 VRREQ 193
           +  ++
Sbjct: 81  IEFDE 85


>gi|195435520|ref|XP_002065728.1| GK20010 [Drosophila willistoni]
 gi|194161813|gb|EDW76714.1| GK20010 [Drosophila willistoni]
          Length = 1063

 Score = 38.1 bits (88), Expect = 3.2,   Method: Composition-based stats.
 Identities = 18/62 (29%), Positives = 29/62 (46%), Gaps = 1/62 (1%)

Query: 373  AHLLVAEGFADVEELACV-KISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIREL 431
            A  L A GF  +E++A    I+ + S+E    + A EI   A+  L      L+++   L
Sbjct: 995  AKQLFAAGFKSIEDIAKTHPINLVKSVEHMPLKVATEIISAAKIILMKKLDHLEEETENL 1054

Query: 432  GV 433
             V
Sbjct: 1055 KV 1056


>gi|209551601|ref|YP_002283518.1| 30S ribosomal protein S1 [Rhizobium leguminosarum bv. trifolii
           WSM2304]
 gi|209537357|gb|ACI57292.1| ribosomal protein S1 [Rhizobium leguminosarum bv. trifolii WSM2304]
          Length = 567

 Score = 38.1 bits (88), Expect = 3.2,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 43/101 (42%), Gaps = 8/101 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD  R  +  +++ ++++ R  +R       +   G+++ G VK +      VDL
Sbjct: 160 FEILKMDKRRGNIVVSRRTVLEESRAEQRSEIVQNLE--EGQVVDGVVKNITDYGAFVDL 217

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   +          E L  G +VK  I  + +E 
Sbjct: 218 GGIDGLLHVTDMAWRRVNHPSEILNIGQQVKVQIIRINQET 258


>gi|116249872|ref|YP_765710.1| 30S ribosomal protein S1 [Rhizobium leguminosarum bv. viciae 3841]
 gi|241207043|ref|YP_002978139.1| 30S ribosomal protein S1 [Rhizobium leguminosarum bv. trifolii
           WSM1325]
 gi|115254520|emb|CAK05594.1| putative 30S ribosomal protein S1 [Rhizobium leguminosarum bv.
           viciae 3841]
 gi|240860933|gb|ACS58600.1| ribosomal protein S1 [Rhizobium leguminosarum bv. trifolii WSM1325]
          Length = 567

 Score = 38.1 bits (88), Expect = 3.2,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 43/101 (42%), Gaps = 8/101 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD  R  +  +++ ++++ R  +R       +   G+++ G VK +      VDL
Sbjct: 160 FEILKMDKRRGNIVVSRRTVLEESRAEQRSEIVQNLE--EGQVVDGVVKNITDYGAFVDL 217

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   +          E L  G +VK  I  + +E 
Sbjct: 218 GGIDGLLHVTDMAWRRVNHPSEILNIGQQVKVQIIRINQET 258


>gi|190156|gb|AAA60133.1| beta-polymerase [Homo sapiens]
          Length = 335

 Score = 38.1 bits (88), Expect = 3.2,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVSGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
              + GIKT+EDL
Sbjct: 113 KFVDEGIKTLEDL 125


>gi|78212108|ref|YP_380887.1| hypothetical protein Syncc9605_0558 [Synechococcus sp. CC9605]
 gi|78196567|gb|ABB34332.1| hypothetical protein Syncc9605_0558 [Synechococcus sp. CC9605]
          Length = 266

 Score = 38.1 bits (88), Expect = 3.2,   Method: Composition-based stats.
 Identities = 8/40 (20%), Positives = 18/40 (45%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGR 412
           A  L+  G+   +++     +E+  ++G    T   I+ R
Sbjct: 216 ARCLIDAGYTSPQKVRDASDAELLQVKGIGSITVKRIRER 255


>gi|314932539|gb|ADT64454.1| DNA polymerase beta [Ailurus fulgens]
          Length = 313

 Score = 38.1 bits (88), Expect = 3.2,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 47  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVSGIGPSAAR 102

Query: 450 ALGENGIKTMEDL 462
              + GIKT+EDL
Sbjct: 103 KFVDEGIKTLEDL 115


>gi|212218847|ref|YP_002305634.1| 30S ribosomal protein S1 [Coxiella burnetii CbuK_Q154]
 gi|212013109|gb|ACJ20489.1| SSU ribosomal protein S1P [Coxiella burnetii CbuK_Q154]
          Length = 555

 Score = 38.1 bits (88), Expect = 3.2,   Method: Composition-based stats.
 Identities = 26/114 (22%), Positives = 47/114 (41%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RDP       +   +  MD  R  V  +++ +++    AER  +  E   + G+ I G +
Sbjct: 142 RDPGYLEDKEIDFKIIKMDQRRNNVVVSRRAVMEAETSAERQARLEEL--QEGQEIKGVI 199

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++   +          + L  GD V   +    R+++
Sbjct: 200 KNITDYGAFVDLGGVDGLLHITDMAWGRVKHPSDLLNVGDEVHVKVLKFDRDKK 253


>gi|125536708|gb|EAY83196.1| hypothetical protein OsI_38408 [Oryza sativa Indica Group]
          Length = 294

 Score = 38.1 bits (88), Expect = 3.2,   Method: Composition-based stats.
 Identities = 10/50 (20%), Positives = 18/50 (36%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGR 412
           +QA  +  +    L   G   VE +      ++  I+G  E    +I   
Sbjct: 31  LQASGIAALDVKKLKDAGLCTVESVVYSPRKDLLQIKGISEAKVDKIIEA 80


>gi|157827436|ref|YP_001496500.1| 30S ribosomal protein S1 [Rickettsia bellii OSU 85-389]
 gi|157802740|gb|ABV79463.1| 30S ribosomal protein S1 [Rickettsia bellii OSU 85-389]
          Length = 572

 Score = 38.1 bits (88), Expect = 3.2,   Method: Composition-based stats.
 Identities = 24/106 (22%), Positives = 43/106 (40%), Gaps = 8/106 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD     +  +++ I+++ R   RD      K K G I+ GTVK +      +DL
Sbjct: 170 FKILSMDKKLGNIVVSRRAILEESRSEARDEMLS--KIKEGMILEGTVKNITDYGAFIDL 227

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQV 198
           G+ DG++   +          E L    +VK  +     E +   +
Sbjct: 228 GSVDGLLHLTDISWARVNHPSEVLEFNQKVKVMVIKFNEETKRISL 273


>gi|297682785|ref|XP_002819090.1| PREDICTED: DNA polymerase beta-like [Pongo abelii]
          Length = 335

 Score = 38.1 bits (88), Expect = 3.2,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVSGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
              + GIKT+EDL
Sbjct: 113 KFVDEGIKTLEDL 125


>gi|197103656|ref|YP_002129033.1| 30S ribosomal protein S1 [Phenylobacterium zucineum HLK1]
 gi|196477076|gb|ACG76604.1| 30S ribosomal protein S1 [Phenylobacterium zucineum HLK1]
          Length = 569

 Score = 38.1 bits (88), Expect = 3.2,   Method: Composition-based stats.
 Identities = 19/71 (26%), Positives = 35/71 (49%), Gaps = 7/71 (9%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDG-VIRRDETISREN---LRPGDRVKSYIYDVRR 191
             G+++ G V  +E    IVD+G  ++G V+ ++ T   E+   L+ GD V+ ++  V  
Sbjct: 28  MEGQVVHGKVVAIEKDFAIVDVGLKTEGRVLLKEFTQPGEDKPPLKAGDTVEVFLERVEN 87

Query: 192 EQRGPQVLLSR 202
                 +  SR
Sbjct: 88  AMGEAVI--SR 96



 Score = 38.1 bits (88), Expect = 3.5,   Method: Composition-based stats.
 Identities = 22/92 (23%), Positives = 39/92 (42%), Gaps = 8/92 (8%)

Query: 108 RVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRR 167
           R  +  +++ I+++ R  +R     +   + GE+  G VK +      VDLG  DG++  
Sbjct: 173 RGNIVVSRRAILEEARAEQRTELVSQL--QEGEVREGVVKNITDYGAFVDLGGIDGLLHV 230

Query: 168 DETI------SRENLRPGDRVKSYIYDVRREQ 193
            +          + L  GD VK  I  +  E 
Sbjct: 231 TDMSWKRVNHPSQVLAVGDTVKVQIVKINPET 262


>gi|62898806|dbj|BAD97257.1| polymerase (DNA directed), beta variant [Homo sapiens]
          Length = 335

 Score = 38.1 bits (88), Expect = 3.2,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVSGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
              + GIKT+EDL
Sbjct: 113 KFVDEGIKTLEDL 125


>gi|225626575|ref|ZP_03784614.1| ribosomal protein S1 [Brucella ceti str. Cudo]
 gi|294851434|ref|ZP_06792107.1| 30S ribosomal protein S1 [Brucella sp. NVSL 07-0026]
 gi|17983961|gb|AAL53096.1| ssu ribosomal protein s1p [Brucella melitensis bv. 1 str. 16M]
 gi|225618232|gb|EEH15275.1| ribosomal protein S1 [Brucella ceti str. Cudo]
 gi|294820023|gb|EFG37022.1| 30S ribosomal protein S1 [Brucella sp. NVSL 07-0026]
          Length = 576

 Score = 38.1 bits (88), Expect = 3.2,   Method: Composition-based stats.
 Identities = 34/191 (17%), Positives = 70/191 (36%), Gaps = 29/191 (15%)

Query: 25  DVVLSVMADSIQKA------ARS---------LYGTMSDIR-VEINPETGDISLFRLLEV 68
           +V +  + +++ +A      AR           +     +  V  N   G  ++     V
Sbjct: 85  EVYVERIENALGEAVLSREKARREESWVKLEQKFANGERVDGVIFNQVKGGFTVDLDGAV 144

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                    Q+ ++  RD  P + +       +  MD  R  +  +++ ++++ R  +R 
Sbjct: 145 A---FLPRSQVDIRPIRDVTPLMHVPQP--FEILKMDKRRGNIVVSRRTVLEESRAEQRS 199

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRV 182
                 +   G+++ G VK +      VDLG  DG++   +          E L  G  V
Sbjct: 200 EIVQNLE--EGQVVEGVVKNITDYGAFVDLGGIDGLLHVTDMAWRRVNHPSEILTIGQTV 257

Query: 183 KSYIYDVRREQ 193
           K  I  + +E 
Sbjct: 258 KVQIIRINQET 268


>gi|67594825|ref|XP_665902.1| Rad51 [Cryptosporidium hominis TU502]
 gi|54656768|gb|EAL35671.1| Rad51 [Cryptosporidium hominis]
          Length = 347

 Score = 38.1 bits (88), Expect = 3.2,   Method: Composition-based stats.
 Identities = 10/42 (23%), Positives = 20/42 (47%)

Query: 374 HLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
            +L   G+  +E LA      + S++G  E+   +I+   +E
Sbjct: 45  EILRENGYHTIECLAYAPKKALLSVKGISEQKCDKIKSACKE 86


>gi|66357650|ref|XP_626003.1| Rad51 [Cryptosporidium parvum Iowa II]
 gi|46227223|gb|EAK88173.1| Rad51 [Cryptosporidium parvum Iowa II]
          Length = 347

 Score = 38.1 bits (88), Expect = 3.2,   Method: Composition-based stats.
 Identities = 10/42 (23%), Positives = 20/42 (47%)

Query: 374 HLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
            +L   G+  +E LA      + S++G  E+   +I+   +E
Sbjct: 45  EILRENGYHTIECLAYAPKKALLSVKGISEQKCDKIKSACKE 86


>gi|320334469|ref|YP_004171180.1| UvrABC system protein C [Deinococcus maricopensis DSM 21211]
 gi|319755758|gb|ADV67515.1| UvrABC system protein C [Deinococcus maricopensis DSM 21211]
          Length = 633

 Score = 38.1 bits (88), Expect = 3.3,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 26/59 (44%), Gaps = 3/59 (5%)

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG--RARE 415
              F     + +     L+   F+ +E+LA   + +IA + G +   A  ++   +ARE
Sbjct: 570 RSVFDDLPGIGQKRQDALLEH-FSSLEDLASASVEDIARVPGMNARAAQAVKAFLQARE 627


>gi|265990396|ref|ZP_06102953.1| ribosomal protein S1 [Brucella melitensis bv. 1 str. Rev.1]
 gi|263001105|gb|EEZ13755.1| ribosomal protein S1 [Brucella melitensis bv. 1 str. Rev.1]
          Length = 499

 Score = 38.1 bits (88), Expect = 3.3,   Method: Composition-based stats.
 Identities = 34/191 (17%), Positives = 70/191 (36%), Gaps = 29/191 (15%)

Query: 25  DVVLSVMADSIQKA------ARS---------LYGTMSDIR-VEINPETGDISLFRLLEV 68
           +V +  + +++ +A      AR           +     +  V  N   G  ++     V
Sbjct: 8   EVYVERIENALGEAVLSREKARREESWVKLEQKFANGERVDGVIFNQVKGGFTVDLDGAV 67

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                    Q+ ++  RD  P + +       +  MD  R  +  +++ ++++ R  +R 
Sbjct: 68  A---FLPRSQVDIRPIRDVTPLMHVPQP--FEILKMDKRRGNIVVSRRTVLEESRAEQRS 122

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRV 182
                 +   G+++ G VK +      VDLG  DG++   +          E L  G  V
Sbjct: 123 EIVQNLE--EGQVVEGVVKNITDYGAFVDLGGIDGLLHVTDMAWRRVNHPSEILTIGQTV 180

Query: 183 KSYIYDVRREQ 193
           K  I  + +E 
Sbjct: 181 KVQIIRINQET 191


>gi|255526510|ref|ZP_05393420.1| RNA binding S1 domain protein [Clostridium carboxidivorans P7]
 gi|296185879|ref|ZP_06854285.1| 30S ribosomal protein S1 [Clostridium carboxidivorans P7]
 gi|255509829|gb|EET86159.1| RNA binding S1 domain protein [Clostridium carboxidivorans P7]
 gi|296049547|gb|EFG88975.1| 30S ribosomal protein S1 [Clostridium carboxidivorans P7]
          Length = 388

 Score = 38.1 bits (88), Expect = 3.3,   Method: Composition-based stats.
 Identities = 34/132 (25%), Positives = 53/132 (40%), Gaps = 10/132 (7%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+SL    D      IG  ++  +   D  +  V  +++VI +   E ++       
Sbjct: 142 PASQLSLSYVEDLKSF--IGKTLTVKVIEFDKDKEKVVLSRKVIEKAEAEEKKQHLLNSI 199

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           K   GE  SG V R+      VDLG  DG+I   E          + +  GD+V+ YI  
Sbjct: 200 KP--GEKRSGVVSRLAKFGAFVDLGGVDGLIHVSELSWKRVNNPADVVSVGDKVEVYILS 257

Query: 189 VRREQRGPQVLL 200
           V +E     + L
Sbjct: 258 VDKENNKIALAL 269


>gi|229597882|pdb|3GDX|A Chain A, Dna Polymerase Beta With A Gapped Dnd Substrate And
           Dtmp(Cf2)pp
          Length = 326

 Score = 38.1 bits (88), Expect = 3.3,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 48  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVSGIGPSAAR 103

Query: 450 ALGENGIKTMEDL 462
              + GIKT+EDL
Sbjct: 104 KFVDEGIKTLEDL 116


>gi|195118310|ref|XP_002003683.1| GI21571 [Drosophila mojavensis]
 gi|193914258|gb|EDW13125.1| GI21571 [Drosophila mojavensis]
          Length = 575

 Score = 38.1 bits (88), Expect = 3.3,   Method: Composition-based stats.
 Identities = 11/31 (35%), Positives = 19/31 (61%)

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
           +++V  + + L IGR G N++L  + TG  I
Sbjct: 69  KIVVDNDHVPLIIGRGGANIKLIEEKTGAKI 99


>gi|156053229|ref|XP_001592541.1| DNA repair protein rhp51 [Sclerotinia sclerotiorum 1980]
 gi|154704560|gb|EDO04299.1| DNA repair protein rhp51 [Sclerotinia sclerotiorum 1980 UF-70]
          Length = 349

 Score = 38.1 bits (88), Expect = 3.3,   Method: Composition-based stats.
 Identities = 11/43 (25%), Positives = 20/43 (46%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
             ++V  G+  VE +A      +  I+G  E+ A +I   A +
Sbjct: 40  IQMIVDGGYNTVESVAYTPRRILEQIKGISEQKATKILTEASK 82


>gi|84579323|dbj|BAE73095.1| hypothetical protein [Macaca fascicularis]
          Length = 335

 Score = 38.1 bits (88), Expect = 3.3,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVSGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
              + GIKT+EDL
Sbjct: 113 KFVDEGIKTLEDL 125


>gi|4505931|ref|NP_002681.1| DNA polymerase beta [Homo sapiens]
 gi|114619950|ref|XP_001143904.1| PREDICTED: DNA polymerase beta isoform 3 [Pan troglodytes]
 gi|332241022|ref|XP_003269687.1| PREDICTED: DNA polymerase beta [Nomascus leucogenys]
 gi|544186|sp|P06746|DPOLB_HUMAN RecName: Full=DNA polymerase beta
 gi|1943095|pdb|9ICG|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Dctp
           (1 Millimolar) And Zncl2 (1 Millimolar)
 gi|1943098|pdb|9ICH|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Dgtp
           (1 Millimolar) And Zncl2 (1 Millimolar)
 gi|1943101|pdb|9ICI|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Dttp
           (1 Millimolar) And Zncl2 (1 Millimolar)
 gi|1943104|pdb|9ICJ|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna
 gi|1943107|pdb|9ICK|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX, SOAKED IN
           The Presence Of Artificial Mother Liquor
 gi|1943110|pdb|9ICL|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX, SOAKED IN
           The Presence Of Pyrophosphate And Mncl2
 gi|1943113|pdb|9ICM|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Six Base Pairs Of Double Stranded Dna (No 5'-Phosphate)
 gi|1943116|pdb|9ICN|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX + 2',3'-
           Dideoxycytidine-5'-Triphosphate, Soaked In The Presence
           Of Ddctp And Mgcl2
 gi|1943119|pdb|9ICO|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX, SOAKED IN
           The Presence Of Dttp And Mgcl2
 gi|1943122|pdb|9ICP|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Six Base Pairs Of Dna; Soaked In The Presence Of
           Pyrophosphate (1 Millimolar) And Mgcl2 (5 Millimolar)
 gi|1943125|pdb|9ICQ|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Six Base Pairs Of Dna; Soaked In The Presence Of Datp (1
           Millimolar) And Mncl2 (5 Millimolar)
 gi|1943128|pdb|9ICR|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX + 2'-
           Deoxycytidine-5'-Triphosphate, Soaked In The Presence Of
           Dctp And Mncl2
 gi|1943131|pdb|9ICS|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX + 2',3'-
           Dideoxycytidine-5'-Triphosphate, Soaked In The Presence
           Of Ddctp And Mncl2
 gi|1943134|pdb|9ICT|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX + 2'-
           Deoxyguanosine-5'-Triphosphate, Soaked In The Presence
           Of Dgtp And Mncl2
 gi|1943137|pdb|9ICU|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Six Base Pairs Of Dna; Soaked In The Presence Of Dttp (1
           Millimolar) And Mncl2 (5 Millimolar)
 gi|1943140|pdb|9ICV|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX + 2'-
           Deoxyadenosine-5'-Triphosphate, Soaked In The Presence
           Of Datp And Zncl2
 gi|1943143|pdb|9ICW|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Six Base Pairs Of Dna; Native Structure
 gi|1943146|pdb|9ICX|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Six Base Pairs Of Dna (Non Gapped Dna Only)
 gi|1943149|pdb|9ICY|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7) Complexed With Seven
           Base Pairs Of Dna (Non Gapped Dna Only)
 gi|1943152|pdb|8ICB|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of
           Artificial Mother Liquor
 gi|1943155|pdb|8ICC|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna (No 5'-Phosphate)
 gi|1943158|pdb|8ICE|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Datp
           (1 Millimolar) And Cdcl2 (1 Millimolar)
 gi|1943161|pdb|8ICF|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Datp
           (10 Millimolar) And Mgcl2 (50 Millimolar)
 gi|1943164|pdb|8ICG|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Datp
           (1 Millimolar) And Mgcl2 (5 Millimolar)
 gi|1943167|pdb|8ICH|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Dctp
           (1 Millimolar) And Mgcl2 (5 Millimolar)
 gi|1943170|pdb|8ICI|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Dgtp
           (1 Millimolar) And Mgcl2 (5 Millimolar)
 gi|1943173|pdb|8ICJ|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX + THYMIDINE-
           5'-Triphosphate, Soaked In The Presence Of Dttp And
           Mgcl2
 gi|1943176|pdb|8ICK|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Datp
           (1 Millimolar), Mgcl2 (5 Millimolar), And Mncl2 (5
           Millimolar)
 gi|1943179|pdb|8ICL|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Datp
           (1 Millimolar) And Nicl2 (5 Millimolar)
 gi|1943182|pdb|8ICM|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Datp
           (1 Millimolar), Mncl2 (5 Millimolar), And Ammonium
           Sulfate (75 Millimolar)
 gi|1943185|pdb|8ICN|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Atp
           (1 Millimolar) And Mncl2 (5 Millimolar)
 gi|1943188|pdb|8ICO|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of
           Azt-Tp (1 Millimolar) And Mncl2 (5 Millimolar)
 gi|1943191|pdb|8ICP|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Datp
           (1 Millimolar) And Mncl2 (5 Millimolar)
 gi|1943194|pdb|8ICQ|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Of
           Datp (0.1 Millimolar) And Mncl2 (0.5 Millimolar)
 gi|1943197|pdb|8ICR|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Datp
           (1 Millimolar) And Mncl2 (5 Millimolar)
 gi|1943200|pdb|8ICS|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Dctp
           (1 Millimolar) And Mncl2 (5 Millimolar)
 gi|1943203|pdb|8ICT|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Dctp
           (1 Millimolar) And Mncl2 (5 Millimolar)
 gi|1943206|pdb|8ICU|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Ddatp
           (1 Millimolar) And Mncl2 (5 Millimolar)
 gi|1943209|pdb|8ICV|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Dgtp
           (1 Millimolar) And Mncl2 (5 Millimolar)
 gi|1943212|pdb|8ICW|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Dttp
           (1 Millimolar) And Mncl2 (5 Millimolar)
 gi|1943215|pdb|8ICX|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Dttp
           (1 Millimolar) And Mncl2 (5 Millimolar)
 gi|1943218|pdb|8ICY|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX + THYMIDINE-
           5'-Triphosphate, Soaked In The Presence Of Dttp And
           Mncl2
 gi|1943221|pdb|8ICZ|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Of
           Datp (1 Millimolar), Mncl2 (5 Millimolar), And Lithium
           Sulfate (75 Millimolar)
 gi|1943224|pdb|9ICA|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX + 2'-
           Deoxyadenosine-5'-O-(1-Thiotriphosphate), Soaked In The
           Presence Of Datp(Alpha)s And Mncl2
 gi|1943227|pdb|9ICB|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX + 2'-
           Deoxyadenosine-5'-Triphosphate, Soaked In The Presence
           Of Datp And Cocl2
 gi|1943230|pdb|9ICC|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX + 2'-
           Deoxyadenosine-5'-Triphosphate, Soaked In The Presence
           Of Datp And Crcl3
 gi|1943233|pdb|9ICE|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Datp
           (1 Millimolar) And Cucl2 (0.1 Millimolar)
 gi|1943236|pdb|9ICF|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX + 2'-
           Deoxyadenosine-5'-Triphosphate, Soaked In The Presence
           Of Datp And Zncl2
 gi|1943239|pdb|1ZQQ|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Mncl2
           (15 Millimolar) And Nacl (15 Millimolar)
 gi|1943242|pdb|1ZQR|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX, SOAKED IN
           The Presence Of Nicl2
 gi|1943245|pdb|1ZQS|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Tlcl
           (0.5 Millimolar)
 gi|1943248|pdb|1ZQT|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Datp
           (0.01 Millimolar) And Zncl2 (0.02 Millimolar)
 gi|1943257|pdb|7ICE|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX, SOAKED IN
           The Presence Of Cacl2
 gi|1943260|pdb|7ICF|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Six Base Pairs Of Dna; Soaked In The Presence Of Cdcl2
           (0.1 Millimolar) (Four-Day Soak)
 gi|1943263|pdb|7ICG|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX, SOAKED IN
           The Presence Of Cdcl2
 gi|1943266|pdb|7ICH|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX, SOAKED IN
           The Presence Of Cocl2
 gi|1943269|pdb|7ICI|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Six Base Pairs Of Dna; Soaked In The Presence Of Crcl3
           (0.1 Millimolar)
 gi|1943272|pdb|7ICJ|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Six Base Pairs Of Dna; Soaked In The Presence Of Cucl2
           (0.1 Millimolar)
 gi|1943275|pdb|7ICK|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX, SOAKED IN
           The Presence Of Mgcl2
 gi|1943278|pdb|7ICL|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Six Base Pairs Of Dna; Soaked In The Presence Of Mncl2
           (0.1 Millimolar)
 gi|1943281|pdb|7ICM|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Six Base Pairs Of Dna; Soaked In The Presence Of Mncl2
           (1.0 Millimolar)
 gi|1943284|pdb|7ICN|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX, SOAKED IN
           The Presence Of Nicl2
 gi|1943287|pdb|7ICO|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX, SOAKED IN
           The Presence Of Zncl2
 gi|1943290|pdb|7ICP|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Six Base Pairs Of Dna; Soaked In The Presence Of Zncl2
           (0.01 Millimolar)
 gi|1943293|pdb|7ICQ|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX, SOAKED IN
           The Presence Of Zncl2
 gi|1943296|pdb|7ICR|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX, SOAKED IN
           The Presence Of Zncl2
 gi|1943299|pdb|7ICS|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX, SOAKED IN
           The Presence Of Zncl2
 gi|1943302|pdb|7ICT|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX, SOAKED IN
           The Presence Of Zncl2 And Mgcl2
 gi|1943305|pdb|7ICU|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Six Base Pairs Of Dna; Soaked In The Presence Of Cdcl2
           (0.1 Millimolar)
 gi|1943308|pdb|7ICV|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Six Base Pairs Of Dna; Soaked In The Presence Of Mncl2
           (0.1 Millimolar) And In The Absence Of Nacl
 gi|1943311|pdb|8ICA|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Datp
           (1 Millimolar) And Cacl2 (5 Millimolar)
 gi|1943315|pdb|1ZQA|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Kcl
           (150 Millimolar) At Ph 7.5
 gi|1943318|pdb|1ZQB|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Bacl2
           (150 Millimolar)
 gi|1943321|pdb|1ZQC|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Cacl2
           (15 Millimolar)
 gi|1943324|pdb|1ZQD|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Cacl2
           (150 Millimolar)
 gi|1943327|pdb|1ZQE|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Crcl3
           (Saturated Solution)
 gi|1943330|pdb|1ZQF|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Cscl
           (150 Millimolar)
 gi|1943333|pdb|1ZQG|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of A
           Sodium-Free Artificial Mother Liquor At Ph 6.5
 gi|1943336|pdb|1ZQH|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of A
           Sodium-Free Artificial Mother Liquor At Ph 7.5
 gi|1943339|pdb|1ZQI|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Kcl
           (150 Millimolar)
 gi|1943342|pdb|1ZQJ|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Cacl2
           (15 Millimolar) And Mgcl2 (15 Millimolar)
 gi|1943345|pdb|1ZQK|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Kcl
           (75 Millimolar) And Mgcl2 (75 Millimolar)
 gi|1943348|pdb|1ZQL|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Mncl2
           (15 Millimolar) And Mgcl2 (15 Millimolar)
 gi|1943351|pdb|1ZQM|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Mncl2
           (15 Millimolar)
 gi|1943354|pdb|1ZQN|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Bacl2
           (15 Millimolar) And Nacl (15 Millimolar)
 gi|1943357|pdb|1ZQO|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Cacl2
           (15 Millimolar) And Nacl (15 Millimolar)
 gi|1943360|pdb|1ZQP|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
           Seven Base Pairs Of Dna; Soaked In The Presence Of Kcl
           (75 Millimolar) And Nacl (75 Millimolar)
 gi|2392196|pdb|1BPX|A Chain A, Dna Polymerase BetaDNA COMPLEX
 gi|2392200|pdb|1BPY|A Chain A, Human Dna Polymerase Beta Complexed With Gapped Dna And
           Ddctp
 gi|2392204|pdb|1BPZ|A Chain A, Human Dna Polymerase Beta Complexed With Nicked Dna
 gi|28373759|pdb|1MQ2|A Chain A, Human Dna Polymerase Beta Complexed With Gapped Dna
           Containing An 8-Oxo-7,8-Dihydro-Guanine And Damp
 gi|28373763|pdb|1MQ3|A Chain A, Human Dna Polymerase Beta Complexed With Gapped Dna
           Containing An 8-Oxo-7,8-Dihydro-Guanine Template Paired
           With Dctp
 gi|56966095|pdb|1TV9|A Chain A, Human Dna Polymerase Beta Complexed With Nicked Dna
           Containing A Mismatched Template Adenine And Incoming
           Cytidine
 gi|56966099|pdb|1TVA|A Chain A, Human Dna Polymerase Beta Complexed With Nicked Dna
           Containing A Mismatched Template Thymidine And Incoming
           Cytidine
 gi|75765763|pdb|1ZJM|A Chain A, Human Dna Polymerase Beta Complexed With Dna Containing An
           A-A Mismatched Primer Terminus
 gi|75765767|pdb|1ZJN|A Chain A, Human Dna Polymerase Beta Complexed With Dna Containing An
           A-A Mismatched Primer Terminus With Dgtp
 gi|99032272|pdb|2FMP|A Chain A, Dna Polymerase Beta With A Terminated Gapped Dna Substrate
           And Ddctp With Sodium In The Catalytic Site
 gi|99032273|pdb|2FMQ|A Chain A, Sodium In Active Site Of Dna Polymerase Beta
 gi|99032277|pdb|2FMS|A Chain A, Dna Polymerase Beta With A Gapped Dna Substrate And
           Dumpnpp With Magnesium In The Catalytic Site
 gi|118138264|pdb|2I9G|A Chain A, Dna Polymerase Beta With A Benzo[c]phenanthrene Diol
           Epoxide Adducted Guanine Base
 gi|126030823|pdb|2ISO|A Chain A, Ternary Complex Of Dna Polymerase Beta With A Dideoxy
           Terminated Primer And 2'-Deoxyguanosine 5'-Beta, Gamma-
           Difluoromethylene Triphosphate
 gi|126030827|pdb|2ISP|A Chain A, Ternary Complex Of Dna Polymerase Beta With A Dideoxy
           Terminated Primer And 2'-Deoxyguanosine 5'-Beta, Gamma-
           Methylene Triphosphate
 gi|146387680|pdb|2P66|A Chain A, Human Dna Polymerase Beta Complexed With Tetrahydrofuran
           (Abasic Site) Containing Dna
 gi|164519479|pdb|2PXI|A Chain A, Ternary Complex Of Dna Polymerase Beta With A Dideoxy
           Terminated Primer And 2'-Deoxyguanosine 5'-Beta, Gamma-
           Monofluoromethylene Triphosphate
 gi|188595971|pdb|3C2K|A Chain A, Dna Polymerase Beta With A Gapped Dna Substrate And
           Dumpnpp With Manganese In The Active Site
 gi|188595975|pdb|3C2L|A Chain A, Ternary Complex Of Dna Polymerase Beta With A C:dapcpp
           Mismatch In The Active Site
 gi|188595979|pdb|3C2M|A Chain A, Ternary Complex Of Dna Polymerase Beta With A G:dapcpp
           Mismatch In The Active Site
 gi|258588692|pdb|3ISB|A Chain A, Binary Complex Of Human Dna Polymerase Beta With A Gapped
           Dna
 gi|258588696|pdb|3ISC|A Chain A, Binary Complex Of Human Dna Polymerase Beta With An Abasic
           Site (Thf) In The Gapped Dna
 gi|258588700|pdb|3ISD|A Chain A, Ternary Complex Of Human Dna Polymerase Beta With An
           Abasic Site (Thf): Dapcpp Mismatch
 gi|297342962|pdb|3JPN|A Chain A, Ternary Complex Of Dna Polymerase Beta With A Dideoxy
           Termin Primer And 2'-Deoxyguanosine 5'-Beta,
           Gamma-Dichloro Methyl Triphosphate
 gi|297342966|pdb|3JPO|A Chain A, Ternary Complex Of Dna Polymerase Beta With A Dideoxy
           Termin Primer And 2'-Deoxyguanosine 5'-Beta,
           Gamma-Monochloromethy Triphosphate
 gi|297342970|pdb|3JPP|A Chain A, Ternary Complex Of Dna Polymerase Beta With A Dideoxy
           Termin Primer And 2'-Deoxyguanosine 5'-Beta,
           Gamma-Monomethyl Meth Triphosphate
 gi|297342974|pdb|3JPQ|A Chain A, Ternary Complex Of Dna Polymerase Beta With A Dideoxy
           Termin Primer And 2'-Deoxyguanosine 5'-Beta,
           Gamma-Monobromo Methy Triphosphate
 gi|297342978|pdb|3JPR|A Chain A, Ternary Complex Of Dna Polymerase Beta With A Dideoxy
           Termin Primer And 2'-Deoxyguanosine 5'-Beta,
           Gamma-Dimethyl Methyl Triphosphate
 gi|297342982|pdb|3JPS|A Chain A, Ternary Complex Of Dna Polymerase Beta With A Dideoxy
           Termin Primer And 2'-Deoxyguanosine 5'-Beta,
           Gamma-Fluoro Methyl M Triphosphate
 gi|297342986|pdb|3JPT|A Chain A, Ternary Complex Of Dna Polymerase Beta With A Dideoxy
           Termin Primer And 2'-Deoxyguanosine 5'-Beta,
           Gamma-Fluoro Chloro M Triphosphate
 gi|297787720|pdb|3MBY|A Chain A, Ternary Complex Of Dna Polymerase Beta With Template Base
           A And 8oxodgtp In The Active Site With A Dideoxy
           Terminated Primer
 gi|317455186|pdb|3LK9|A Chain A, Dna Polymerase Beta With A Gapped Dna Substrate And
           Dtmp(Cf2)p(Cf2)p
 gi|19550959|gb|AAL91594.1|AF491812_1 DNA polymerase beta [Homo sapiens]
 gi|292397|gb|AAB59441.1| beta-polymerase [Homo sapiens]
 gi|1060896|dbj|BAA06099.1| DNA polymerase beta [Homo sapiens]
 gi|49168492|emb|CAG38741.1| POLB [Homo sapiens]
 gi|49456561|emb|CAG46601.1| POLB [Homo sapiens]
 gi|71682446|gb|AAI00289.1| Polymerase (DNA directed), beta [Homo sapiens]
 gi|76827621|gb|AAI06910.1| Polymerase (DNA directed), beta [Homo sapiens]
 gi|119583625|gb|EAW63221.1| polymerase (DNA directed), beta [Homo sapiens]
 gi|189054625|dbj|BAG37475.1| unnamed protein product [Homo sapiens]
 gi|208967076|dbj|BAG73552.1| polymerase (DNA directed) beta [synthetic construct]
          Length = 335

 Score = 38.1 bits (88), Expect = 3.3,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVSGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
              + GIKT+EDL
Sbjct: 113 KFVDEGIKTLEDL 125


>gi|269101014|ref|YP_003289162.1| 30S ribosomal protein S1 [Ectocarpus siliculosus]
 gi|266631522|emb|CAV31193.1| Chloroplast 30S ribosomal protein S1 [Ectocarpus siliculosus]
 gi|270118652|emb|CAT18703.1| Chloroplast 30S ribosomal protein S1 [Ectocarpus siliculosus]
          Length = 265

 Score = 38.1 bits (88), Expect = 3.3,   Method: Composition-based stats.
 Identities = 17/75 (22%), Positives = 32/75 (42%), Gaps = 9/75 (12%)

Query: 134 FKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYI 186
           +K K  +I++G +  VE   V+VDLG      +   E          E L      +  I
Sbjct: 24  YKVKTNDILAGIIIGVESNYVLVDLGLEQVCFLPLKEISRFPIYNPTELLNVNYVGEFLI 83

Query: 187 YDVRREQRGPQVLLS 201
            D+ ++    ++++S
Sbjct: 84  LDINKKSN--RIIIS 96


>gi|90020613|ref|YP_526440.1| 30S ribosomal protein S3 [Saccharophagus degradans 2-40]
 gi|123396486|sp|Q21M51|RS3_SACD2 RecName: Full=30S ribosomal protein S3
 gi|89950213|gb|ABD80228.1| SSU ribosomal protein S3P [Saccharophagus degradans 2-40]
          Length = 224

 Score = 38.1 bits (88), Expect = 3.3,   Method: Composition-based stats.
 Identities = 13/52 (25%), Positives = 30/52 (57%), Gaps = 1/52 (1%)

Query: 285 TFVINALRPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNV-RLASQLT 335
            ++ NAL  A V+++ ++       V +   +  + IG++G++V +L ++LT
Sbjct: 41  KYIQNALAHASVSRIDIERPANTARVTIHTARPGIVIGKKGEDVEKLRTELT 92


>gi|169781702|ref|XP_001825314.1| DNA repair protein rhp51 [Aspergillus oryzae RIB40]
 gi|238498508|ref|XP_002380489.1| DNA repair protein RAD51, putative [Aspergillus flavus NRRL3357]
 gi|83774056|dbj|BAE64181.1| unnamed protein product [Aspergillus oryzae]
 gi|220693763|gb|EED50108.1| DNA repair protein RAD51, putative [Aspergillus flavus NRRL3357]
          Length = 348

 Score = 38.1 bits (88), Expect = 3.3,   Method: Composition-based stats.
 Identities = 11/43 (25%), Positives = 19/43 (44%), Gaps = 1/43 (2%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVE-IQGRAR 414
             L V  G+  VE +A      +  I+G  E+ A + +   A+
Sbjct: 39  IKLFVDAGYHTVESIAYTPKRLLEQIKGISEQKATKVLVEAAK 81


>gi|20067703|emb|CAD29093.1| chimeric DNA-directed DNA polymerase bf4-20 [synthetic construct]
          Length = 331

 Score = 38.1 bits (88), Expect = 3.3,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
            L + GIKT+EDL
Sbjct: 113 KLVDEGIKTLEDL 125


>gi|157830425|pdb|1BPE|A Chain A, Crystal Structure Of Rat Dna Polymerase Beta; Evidence For
           A Common Polymerase Mechanism
          Length = 335

 Score = 38.1 bits (88), Expect = 3.3,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 31/73 (42%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR    S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRRDDTSSSINFLTRVTGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
            L + GIKT+EDL
Sbjct: 113 KLVDEGIKTLEDL 125


>gi|308183158|ref|YP_003927285.1| 30S ribosomal protein S1 [Helicobacter pylori PeCan4]
 gi|308065343|gb|ADO07235.1| 30S ribosomal protein S1 [Helicobacter pylori PeCan4]
          Length = 552

 Score = 38.1 bits (88), Expect = 3.3,   Method: Composition-based stats.
 Identities = 24/119 (20%), Positives = 42/119 (35%), Gaps = 15/119 (12%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           +  DP I          P + + +   Q   Q I  K+ E   +            II G
Sbjct: 74  QKNDPIIVHVSE-KGEHPSVSYKKAISQ---QKIQAKIEELGEN--------YENAIIEG 121

Query: 145 TVKRVEYGNVIVDLGNSDGVIRR-DETISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
            +     G  IV+    +  + R   ++  +    G R+K+ I  V +E     + +SR
Sbjct: 122 KIVGKNKGGYIVESQGVEYFLSRSRSSLKNDANHIGKRIKACIIHVDKENH--SINISR 178


>gi|217077826|ref|YP_002335544.1| DNA ligase, NAD-dependent [Thermosipho africanus TCF52B]
 gi|254781437|sp|B7IDX6|DNLJ_THEAB RecName: Full=DNA ligase; AltName: Full=Polydeoxyribonucleotide
           synthase [NAD+]
 gi|217037681|gb|ACJ76203.1| DNA ligase, NAD-dependent [Thermosipho africanus TCF52B]
          Length = 665

 Score = 38.1 bits (88), Expect = 3.3,   Method: Composition-based stats.
 Identities = 17/70 (24%), Positives = 27/70 (38%), Gaps = 2/70 (2%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           V E  A +L  + F  ++ L+     E+ SIEG   E A  I    +       I   + 
Sbjct: 517 VGEKTAKILADK-FKSIKALSQASYDELTSIEGIGPEVAKNIIEYFKNEKTKEIIRKLEN 575

Query: 428 IR-ELGVSEE 436
              +L   E+
Sbjct: 576 AGVKLEQEED 585


>gi|183220249|ref|YP_001838245.1| 30S ribosomal protein S1 [Leptospira biflexa serovar Patoc strain
           'Patoc 1 (Paris)']
 gi|189910367|ref|YP_001961922.1| 30S ribosomal protein S1 [Leptospira biflexa serovar Patoc strain
           'Patoc 1 (Ames)']
 gi|167775043|gb|ABZ93344.1| 30S Ribosomal protein S1 [Leptospira biflexa serovar Patoc strain
           'Patoc 1 (Ames)']
 gi|167778671|gb|ABZ96969.1| 30S ribosomal protein S1 [Leptospira biflexa serovar Patoc strain
           'Patoc 1 (Paris)']
          Length = 385

 Score = 38.1 bits (88), Expect = 3.3,   Method: Composition-based stats.
 Identities = 18/72 (25%), Positives = 38/72 (52%), Gaps = 9/72 (12%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSD-GVIRRDET-IS-----RENLRPGDRVKSYIYDV 189
           K  +I+SGTV+ ++   + V LG    G++   E+ +          +PG +++ ++ ++
Sbjct: 272 KESDIVSGTVESIKPFGLFVRLGEDFSGLVPNKESGVPQRTPLNTVFQPGQKLEVFVLEI 331

Query: 190 RREQRGPQVLLS 201
             E+R  Q+ LS
Sbjct: 332 NPEKR--QIALS 341


>gi|126727656|ref|ZP_01743488.1| ribosomal protein S1 [Rhodobacterales bacterium HTCC2150]
 gi|126703072|gb|EBA02173.1| ribosomal protein S1 [Rhodobacterales bacterium HTCC2150]
          Length = 552

 Score = 38.1 bits (88), Expect = 3.3,   Method: Composition-based stats.
 Identities = 21/95 (22%), Positives = 40/95 (42%), Gaps = 8/95 (8%)

Query: 105 DFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV 164
           D  R  +  +++ I+++ R  +R     +     G+ + G VK +      VDLG  DG+
Sbjct: 159 DRRRGNIVVSRRAILEESRAEQRAEVIGKLA--EGDAVDGVVKNITEYGAFVDLGGVDGL 216

Query: 165 IRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           +   +          E L  G+ VK  +  + +E 
Sbjct: 217 LHVTDMAWRRVNHPNEILNIGETVKVQVIKINKET 251


>gi|20067675|emb|CAD29079.1| chimeric DNA-directed DNA polymerase bf4-1 [synthetic construct]
          Length = 325

 Score = 38.1 bits (88), Expect = 3.3,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
            L + GIKT+EDL
Sbjct: 113 KLVDEGIKTLEDL 125


>gi|20067711|emb|CAD29097.1| chimeric DNA-directed DNA polymerase bf2-7a [synthetic construct]
          Length = 320

 Score = 38.1 bits (88), Expect = 3.3,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
            L + GIKT+EDL
Sbjct: 113 KLVDEGIKTLEDL 125


>gi|302871872|ref|YP_003840508.1| hydroxymethylbutenyl pyrophosphate reductase [Caldicellulosiruptor
           obsidiansis OB47]
 gi|302574731|gb|ADL42522.1| hydroxymethylbutenyl pyrophosphate reductase [Caldicellulosiruptor
           obsidiansis OB47]
          Length = 663

 Score = 38.1 bits (88), Expect = 3.4,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 32/57 (56%), Gaps = 7/57 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISR------ENLRPGDRVKSYIYD 188
           GE++ G + +VE   V+VD+G  ++G+I +DE I        +  + G+ +++ +  
Sbjct: 305 GEVVKGRIIKVEEDYVLVDIGYKAEGIIYKDEVIKNGNVNLKDLFKIGETIEAVVIK 361


>gi|262066813|ref|ZP_06026425.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Fusobacterium
           periodonticum ATCC 33693]
 gi|291379479|gb|EFE86997.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Fusobacterium
           periodonticum ATCC 33693]
          Length = 827

 Score = 38.1 bits (88), Expect = 3.4,   Method: Composition-based stats.
 Identities = 29/121 (23%), Positives = 50/121 (41%), Gaps = 15/121 (12%)

Query: 86  DRDPSIDIGGVVSDPLPPMDF-GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           +  P  +IG  V   +  +D   R    S K      +R++  +    E+K  VG  +  
Sbjct: 686 EETPKFEIGNEVELKITELDLNDRKIKGSLKA-----LRKSPWEHAMEEYK--VGTTVEK 738

Query: 145 TVKRVEYGNVIVDLGN-SDGVIR----RDETIS--RENLRPGDRVKSYIYDVRREQRGPQ 197
            +K V    + V+L    DG I       E I   R+    GD VK+ + +V +E +  +
Sbjct: 739 KIKTVADFGLFVELTKGIDGFIPTQFASKEFIKNIRDKFNEGDVVKAQVVEVNKETQKIK 798

Query: 198 V 198
           +
Sbjct: 799 L 799


>gi|194334594|ref|YP_002016454.1| 30S ribosomal protein S1 [Prosthecochloris aestuarii DSM 271]
 gi|194312412|gb|ACF46807.1| RNA binding S1 domain protein [Prosthecochloris aestuarii DSM 271]
          Length = 588

 Score = 38.1 bits (88), Expect = 3.4,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 36/65 (55%), Gaps = 3/65 (4%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
             EI+ G +  +   +V +D+G  S+G++ + E    + L+ GD V+ Y+ ++  +    
Sbjct: 49  EEEIVKGRIVGISNKDVTIDVGYKSEGIVSKLEFRDEDELKVGDEVEVYLENIEDKMG-- 106

Query: 197 QVLLS 201
           Q++LS
Sbjct: 107 QLILS 111


>gi|194750315|ref|XP_001957573.1| GF23962 [Drosophila ananassae]
 gi|190624855|gb|EDV40379.1| GF23962 [Drosophila ananassae]
          Length = 1049

 Score = 38.1 bits (88), Expect = 3.4,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 373  AHLLVAEGFADVEELACVKISEIA-SIEGFDEETAVEIQGRAREYLEGIDITLQKKIREL 431
            A  L A GF  +E++A +    +  S+E      A EI   A+  L      L+++   L
Sbjct: 983  AKQLYAAGFRTIEDIARIPAMTLVQSVEHMPLRVATEIVSAAKIILMKKLDHLEEETENL 1042

Query: 432  GV 433
             V
Sbjct: 1043 KV 1044


>gi|161831346|ref|YP_001596460.1| 30S ribosomal protein S1 [Coxiella burnetii RSA 331]
 gi|81629367|sp|Q83E09|RS1_COXBU RecName: Full=30S ribosomal protein S1
 gi|161763213|gb|ABX78855.1| ribosomal protein S1 [Coxiella burnetii RSA 331]
          Length = 551

 Score = 38.1 bits (88), Expect = 3.4,   Method: Composition-based stats.
 Identities = 26/114 (22%), Positives = 47/114 (41%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RDP       +   +  MD  R  V  +++ +++    AER  +  E   + G+ I G +
Sbjct: 138 RDPGYLEDKEIDFKIIKMDQRRNNVVVSRRAVMEAETSAERQARLEEL--QEGQEIKGVI 195

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++   +          + L  GD V   +    R+++
Sbjct: 196 KNITDYGAFVDLGGVDGLLHITDMAWGRVKHPSDLLNVGDEVHVKVLKFDRDKK 249


>gi|57867003|ref|YP_188621.1| 30S ribosomal protein S1 [Staphylococcus epidermidis RP62A]
 gi|251810898|ref|ZP_04825371.1| 30S ribosomal protein S1 [Staphylococcus epidermidis BCM-HMP0060]
 gi|282876092|ref|ZP_06284959.1| 30S ribosomal protein S1 [Staphylococcus epidermidis SK135]
 gi|293366557|ref|ZP_06613234.1| 30S ribosomal protein S1 [Staphylococcus epidermidis
           M23864:W2(grey)]
 gi|81674533|sp|Q5HP69|RS1_STAEQ RecName: Full=30S ribosomal protein S1
 gi|57637661|gb|AAW54449.1| ribosomal protein S1 [Staphylococcus epidermidis RP62A]
 gi|251805578|gb|EES58235.1| 30S ribosomal protein S1 [Staphylococcus epidermidis BCM-HMP0060]
 gi|281295117|gb|EFA87644.1| 30S ribosomal protein S1 [Staphylococcus epidermidis SK135]
 gi|291319326|gb|EFE59695.1| 30S ribosomal protein S1 [Staphylococcus epidermidis
           M23864:W2(grey)]
 gi|329737469|gb|EGG73723.1| putative ribosomal protein S1 [Staphylococcus epidermidis VCU028]
          Length = 392

 Score = 38.1 bits (88), Expect = 3.4,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 34/65 (52%), Gaps = 8/65 (12%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           K G+ ++G V++VE   V+V +  G  +G+I   +          E ++ GD V++Y+  
Sbjct: 14  KEGDKVTGEVQQVEDKQVVVHINGGKFNGIIPISQLSTHHIENPSEVVKVGDEVEAYVTK 73

Query: 189 VRREQ 193
           +  ++
Sbjct: 74  IEFDE 78


>gi|148264610|ref|YP_001231316.1| hypothetical protein Gura_2565 [Geobacter uraniireducens Rf4]
 gi|146398110|gb|ABQ26743.1| hypothetical protein Gura_2565 [Geobacter uraniireducens Rf4]
          Length = 174

 Score = 38.1 bits (88), Expect = 3.4,   Method: Composition-based stats.
 Identities = 14/78 (17%), Positives = 29/78 (37%)

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
             +  +   +   V  I+A   +  G+    ++A      + +I+G +      I  +A 
Sbjct: 1   MKQAMKELQKLKGVGNILAQRFIEAGYDTFAKIAAAGEEGLRNIQGLNPRMVPSILTQAV 60

Query: 415 EYLEGIDITLQKKIRELG 432
           E       T  +K+ EL 
Sbjct: 61  ELAGEAGKTRAEKVEELK 78


>gi|322367962|ref|ZP_08042531.1| Sec-independent periplasmic protein translocase [Haladaptatus
           paucihalophilus DX253]
 gi|320551978|gb|EFW93623.1| Sec-independent periplasmic protein translocase [Haladaptatus
           paucihalophilus DX253]
          Length = 602

 Score = 38.1 bits (88), Expect = 3.4,   Method: Composition-based stats.
 Identities = 26/116 (22%), Positives = 44/116 (37%), Gaps = 14/116 (12%)

Query: 366 INVD---EIIAHLLVAEGFADV-----EELACVKISEIA--SIEGFDEETAVEIQGRARE 415
           I VD   EI    L A G         + LA  +  E+A  +++  D E A  I  R   
Sbjct: 242 IGVDRPGEIDLSSLDASGIRSAPPETFDSLAEHEALELADTALDSGDHERAAAILDRFDA 301

Query: 416 YLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKVALGENGIKTMEDLAGCSVD 468
             +  D   +++  E    +      ++ G  +++     E   KT +D+ G   D
Sbjct: 302 ANDNGDDEAEERTSESEADDGNGLTTAVEGTTARMASVFTEEE-KTEDDIGGYYYD 356


>gi|314933658|ref|ZP_07841023.1| ribosomal protein S1 [Staphylococcus caprae C87]
 gi|313653808|gb|EFS17565.1| ribosomal protein S1 [Staphylococcus caprae C87]
          Length = 392

 Score = 38.1 bits (88), Expect = 3.4,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 34/65 (52%), Gaps = 8/65 (12%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           K G+ ++G V++VE   V+V +  G  +G+I   +          E ++ GD V++Y+  
Sbjct: 14  KEGDKVTGEVQQVEDKQVVVHINGGKFNGIIPISQLSTHHIENPSEVVKVGDEVEAYVTK 73

Query: 189 VRREQ 193
           +  ++
Sbjct: 74  IEFDE 78


>gi|237738428|ref|ZP_04568909.1| S1 RNA-binding domain-containing protein [Fusobacterium mortiferum
           ATCC 9817]
 gi|229420308|gb|EEO35355.1| S1 RNA-binding domain-containing protein [Fusobacterium mortiferum
           ATCC 9817]
          Length = 284

 Score = 38.1 bits (88), Expect = 3.4,   Method: Composition-based stats.
 Identities = 17/60 (28%), Positives = 32/60 (53%), Gaps = 4/60 (6%)

Query: 137 KVGEIISGTVKRVEYG-NVIVDLGNS-DGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           K  +I+SGTV R+     V V + +   G+I ++E     N + GD +++ +  VR + +
Sbjct: 147 KKNDIVSGTVYRLNDEIGVFVAVEDRYFGLIPKNEYFK--NYKIGDEIEARVIRVREDGK 204


>gi|260797338|ref|XP_002593660.1| hypothetical protein BRAFLDRAFT_131952 [Branchiostoma floridae]
 gi|229278887|gb|EEN49671.1| hypothetical protein BRAFLDRAFT_131952 [Branchiostoma floridae]
          Length = 3505

 Score = 38.1 bits (88), Expect = 3.4,   Method: Composition-based stats.
 Identities = 30/176 (17%), Positives = 64/176 (36%), Gaps = 19/176 (10%)

Query: 340  DIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIE 399
            D+    +D  +R     +  Q  +    VD  IA   +A G+    ELA ++   + ++ 
Sbjct: 2182 DLKKAVQDLKDRMDRLPDEMQGDLNVYRVDIPIAQERMARGYT---ELAVMEAR-MDALP 2237

Query: 400  GFDEETAVEIQGRAREYLEGIDITLQKKIRELGVS-EELCSIPGI------DSKIKVALG 452
            G   + A ++Q RA E  + +   +  ++  L    + L +  G       D+   +   
Sbjct: 2238 GNLGDAAKDVQDRAIEA-DNVAQGVIDEVDGLEPDVDALVNQVGGAGSASGDTNAAIRAA 2296

Query: 453  ENGIKT-------MEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESM 501
            E  ++T       ++DLA    D+                  +  +   + Q  ++
Sbjct: 2297 ERDLRTVSRNLGDLKDLADDLNDEARNVRALNDQFSRNLTDLMEKIKQARQQANTI 2352


>gi|194217198|ref|XP_001500693.2| PREDICTED: similar to RAD51 homolog C [Equus caballus]
          Length = 419

 Score = 38.1 bits (88), Expect = 3.4,   Method: Composition-based stats.
 Identities = 19/46 (41%), Positives = 25/46 (54%), Gaps = 1/46 (2%)

Query: 376 LVAEGFADVEELACVKISEIASIEGFDEETAVE-IQGRAREYLEGI 420
           LV+ GF   EEL  VK SE++   G  +E A+E +Q   RE L   
Sbjct: 66  LVSAGFQTAEELLEVKPSELSKEVGISKEEALETLQIVRRECLTNK 111


>gi|167748600|ref|ZP_02420727.1| hypothetical protein ANACAC_03373 [Anaerostipes caccae DSM 14662]
 gi|167651914|gb|EDR96043.1| hypothetical protein ANACAC_03373 [Anaerostipes caccae DSM 14662]
          Length = 140

 Score = 38.1 bits (88), Expect = 3.4,   Method: Composition-based stats.
 Identities = 19/85 (22%), Positives = 35/85 (41%), Gaps = 3/85 (3%)

Query: 403 EETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDL 462
           EE A  ++ +        +   ++K      S++L ++PGI  +I   L   GI  ++DL
Sbjct: 30  EENAAGLRVQINN---LKEFEKRQKQENSSGSQDLQTVPGIGKRIAQHLNAIGIYCVDDL 86

Query: 463 AGCSVDDLLGWSENKGGNIEKFDGF 487
            G   ++L      + G  E     
Sbjct: 87  KGRDPEELYRMDCIQKGFTEDRCEL 111


>gi|551677|gb|AAB60688.1| DNA polymerase beta [Homo sapiens]
          Length = 335

 Score = 38.1 bits (88), Expect = 3.4,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVSGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
              + GIKT+EDL
Sbjct: 113 KFVDEGIKTLEDL 125


>gi|86355758|ref|YP_467650.1| 30S ribosomal protein S1 [Rhizobium etli CFN 42]
 gi|86279860|gb|ABC88923.1| 30S ribosomal protein S1 [Rhizobium etli CFN 42]
          Length = 567

 Score = 38.1 bits (88), Expect = 3.4,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 43/101 (42%), Gaps = 8/101 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD  R  +  +++ ++++ R  +R       +   G+++ G VK +      VDL
Sbjct: 160 FEILKMDKRRGNIVVSRRTVLEESRAEQRSEIVQNLE--EGQVVDGVVKNITDYGAFVDL 217

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   +          E L  G +VK  I  + +E 
Sbjct: 218 GGIDGLLHVTDMAWRRVNHPSEILNIGQQVKVQIIRINQET 258


>gi|260824523|ref|XP_002607217.1| hypothetical protein BRAFLDRAFT_67985 [Branchiostoma floridae]
 gi|229292563|gb|EEN63227.1| hypothetical protein BRAFLDRAFT_67985 [Branchiostoma floridae]
          Length = 1764

 Score = 38.1 bits (88), Expect = 3.4,   Method: Composition-based stats.
 Identities = 41/229 (17%), Positives = 80/229 (34%), Gaps = 43/229 (18%)

Query: 302  DEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTG----WTIDIITEEED-----SINRQ 352
            +E    + +++ K    L      Q++R    LT     W I   ++  D      I   
Sbjct: 1350 EEATKEVSLVLNKIDRRL------QDIR---DLTDIRDPWDIRDPSDTRDLSNIRDIPEP 1400

Query: 353  KDFNERTQFFMQAINVDEIIAHLLVAEGFADVEEL----ACV-KISEIASIEGFDEETAV 407
              F E +       +  E I ++L       +EE+    A V + +E   ++G +E   +
Sbjct: 1401 DRFEETSDLHDPQPDRMEEIRNVL-EADLDMLEEIRNFQADVLEENEGLELDGLEEGEGL 1459

Query: 408  EI------------QGRAREYLEGIDITLQKKIRELGVSEEL-CSIPGIDSKI---KVAL 451
            ++            + +  E LE     + + +   G  E+    + G++         L
Sbjct: 1460 DLDGLEEDEGLKHDRFQEDESLEFDGQEIDEGLELDGQEEDENRELNGLEEDKSPNLNGL 1519

Query: 452  GENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVES 500
             E+    ++ L      +L G  E+ G  +   DG     G   D +E 
Sbjct: 1520 EEDEGFELDGLEEDEGFELDGLEEDGGLEL---DGLEEDGGLELDGLEE 1565


>gi|329765876|ref|ZP_08257442.1| DEAD/DEAH box helicase domain-containing protein [Candidatus
           Nitrosoarchaeum limnia SFB1]
 gi|329137719|gb|EGG41989.1| DEAD/DEAH box helicase domain-containing protein [Candidatus
           Nitrosoarchaeum limnia SFB1]
          Length = 709

 Score = 38.1 bits (88), Expect = 3.4,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 35/80 (43%), Gaps = 1/80 (1%)

Query: 338 TIDIITEEEDSINR-QKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIA 396
            ID++ E ++   R      E     ++   +  I A +L   G   +++LA + ++++A
Sbjct: 628 RIDLLDELDNLRRRITYGIREELLDLVKVKGIGRIRARMLYKHGIKTLDDLANIPVNKLA 687

Query: 397 SIEGFDEETAVEIQGRAREY 416
            I+      A  I+   R+ 
Sbjct: 688 EIDKIGSTIADNIKSELRKV 707


>gi|313115242|ref|ZP_07800722.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase
           [Faecalibacterium cf. prausnitzii KLE1255]
 gi|310622435|gb|EFQ05910.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase
           [Faecalibacterium cf. prausnitzii KLE1255]
          Length = 636

 Score = 38.1 bits (88), Expect = 3.4,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 6/62 (9%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           VG+  +G VK +      VD+G  DG+    E          E +  GD ++ Y+ D+  
Sbjct: 473 VGKTYTGVVKSLTSYGAFVDIGGVDGLCHISELSWNRIKHPSEVVSVGDTIEVYVKDIDT 532

Query: 192 EQ 193
           E 
Sbjct: 533 EN 534


>gi|292656668|ref|YP_003536565.1| 50S ribosomal protein L32.eR [Haloferax volcanii DS2]
 gi|291371315|gb|ADE03542.1| ribosomal protein L32.eR [Haloferax volcanii DS2]
          Length = 235

 Score = 38.1 bits (88), Expect = 3.4,   Method: Composition-based stats.
 Identities = 13/57 (22%), Positives = 21/57 (36%)

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
            +E          V    A  L   GF  V+++     SE+A ++G     A  I+ 
Sbjct: 1   MSEEITELEDISGVGPSKADALREAGFESVDDVQAASQSELAEVDGIGNALAARIKA 57


>gi|222617117|gb|EEE53249.1| hypothetical protein OsJ_36165 [Oryza sativa Japonica Group]
          Length = 292

 Score = 38.1 bits (88), Expect = 3.4,   Method: Composition-based stats.
 Identities = 10/49 (20%), Positives = 18/49 (36%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           +QA  +  +    L   G   VE +      ++  I+G  E    +I  
Sbjct: 31  LQASGIAALDVKKLKDAGLCTVESVVYSPRKDLLQIKGISEAKVDKIIE 79


>gi|134295079|ref|YP_001118814.1| 30S ribosomal protein S1 [Burkholderia vietnamiensis G4]
 gi|134138236|gb|ABO53979.1| SSU ribosomal protein S1P [Burkholderia vietnamiensis G4]
          Length = 576

 Score = 38.1 bits (88), Expect = 3.4,   Method: Composition-based stats.
 Identities = 23/71 (32%), Positives = 36/71 (50%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G I+ G VK V+  G VI   G+ +G +R  E         R  L+ GD+V + + ++ 
Sbjct: 465 KGSIVDGVVKSVDAKGAVITLTGDIEGYLRASEISQDRVEDARNVLKEGDKVNAMVINID 524

Query: 191 REQRGPQVLLS 201
           R+ RG  + LS
Sbjct: 525 RKSRG--INLS 533



 Score = 37.4 bits (86), Expect = 6.2,   Method: Composition-based stats.
 Identities = 27/114 (23%), Positives = 47/114 (41%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +D +   G  +   +  +D  R  V  +++ +I+  +  ER +     K   G I++G V
Sbjct: 157 KDTTPYEGKTLEFRVIKLDRKRNNVVLSRRAVIEATQGEERAKLLETLK--EGAIVNGVV 214

Query: 147 KRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++       R      E L  G  V + I    +E+ 
Sbjct: 215 KNITDYGAFVDLGGIDGLLHITDIAWRRVRHPSEVLSVGQEVTAKILKFDQEKN 268


>gi|254245991|ref|ZP_04939312.1| Ribosomal protein S1 [Burkholderia cenocepacia PC184]
 gi|124870767|gb|EAY62483.1| Ribosomal protein S1 [Burkholderia cenocepacia PC184]
          Length = 596

 Score = 38.1 bits (88), Expect = 3.4,   Method: Composition-based stats.
 Identities = 22/71 (30%), Positives = 36/71 (50%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G I+ G VK V+    +V L G+ +G +R  E         R  L+ GD+V + + ++ 
Sbjct: 485 KGSIVDGVVKTVDAKGAVVTLTGDIEGYLRASEISQDRVEDARNVLKEGDKVNAMVINID 544

Query: 191 REQRGPQVLLS 201
           R+ RG  + LS
Sbjct: 545 RKSRG--INLS 553



 Score = 37.7 bits (87), Expect = 4.8,   Method: Composition-based stats.
 Identities = 27/114 (23%), Positives = 47/114 (41%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +D +   G  +   +  +D  R  V  +++ +I+  +  ER +     K   G I++G V
Sbjct: 177 KDTTPYEGKTLEFRVIKLDRKRNNVVLSRRAVIEATQGEERAKLLETLK--EGAIVNGVV 234

Query: 147 KRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++       R      E L  G  V + I    +E+ 
Sbjct: 235 KNITDYGAFVDLGGIDGLLHITDIAWRRVRHPSEVLSVGQEVTAKILKFDQEKN 288


>gi|190889734|ref|YP_001976276.1| 30S ribosomal protein S1 [Rhizobium etli CIAT 652]
 gi|190695013|gb|ACE89098.1| 30S ribosomal protein S1 [Rhizobium etli CIAT 652]
          Length = 567

 Score = 38.1 bits (88), Expect = 3.5,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 43/101 (42%), Gaps = 8/101 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD  R  +  +++ ++++ R  +R       +   G+++ G VK +      VDL
Sbjct: 160 FEILKMDKRRGNIVVSRRTVLEESRAEQRSEIVQNLE--EGQVVDGVVKNITDYGAFVDL 217

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   +          E L  G +VK  I  + +E 
Sbjct: 218 GGIDGLLHVTDMAWRRVNHPSEILNIGQQVKVQIIRINQET 258


>gi|60827766|gb|AAX36812.1| polymerase beta [synthetic construct]
          Length = 336

 Score = 38.1 bits (88), Expect = 3.5,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVSGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
              + GIKT+EDL
Sbjct: 113 KFVDEGIKTLEDL 125


>gi|15672820|ref|NP_266994.1| 30S ribosomal protein S1 [Lactococcus lactis subsp. lactis Il1403]
 gi|116511651|ref|YP_808867.1| 30S ribosomal protein S1 [Lactococcus lactis subsp. cremoris SK11]
 gi|125624515|ref|YP_001032998.1| 30S ribosomal protein S1 [Lactococcus lactis subsp. cremoris
           MG1363]
 gi|281491326|ref|YP_003353306.1| 50S ribosomal protein S1P [Lactococcus lactis subsp. lactis KF147]
 gi|12723763|gb|AAK04936.1|AE006317_5 30S ribosomal protein S1 [Lactococcus lactis subsp. lactis Il1403]
 gi|116107305|gb|ABJ72445.1| SSU ribosomal protein S1P [Lactococcus lactis subsp. cremoris SK11]
 gi|124493323|emb|CAL98296.1| 30S ribosomal protein S1 [Lactococcus lactis subsp. cremoris
           MG1363]
 gi|281375067|gb|ADA64585.1| SSU ribosomal protein S1P [Lactococcus lactis subsp. lactis KF147]
 gi|300071309|gb|ADJ60709.1| 30S ribosomal protein S1 [Lactococcus lactis subsp. cremoris
           NZ9000]
 gi|326406383|gb|ADZ63454.1| 30S ribosomal protein S1 [Lactococcus lactis subsp. lactis CV56]
          Length = 408

 Score = 38.1 bits (88), Expect = 3.5,   Method: Composition-based stats.
 Identities = 30/152 (19%), Positives = 61/152 (40%), Gaps = 11/152 (7%)

Query: 56  ETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAK 115
           E G  ++  +   VE V     +I+     D +  +  G V+   +     G+ A     
Sbjct: 28  ENGQATVAIVGTGVEGV-LTLREITNDKDADINTFVKPGDVLDLLVIKQIVGKEA--EGA 84

Query: 116 QVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISREN 175
            V +  ++  E  + + + + K GEI++  V +   G + VD     G I     I    
Sbjct: 85  NVYLLSLKRLEARKAWTQLEGKEGEIVTVKVTKDVKGGLSVDYNGVRGFIPAS-MIDTYF 143

Query: 176 LR-----PGDRVKSYIYDVRREQRGPQVLLSR 202
           ++      G+ +++ I +V   +   + +LSR
Sbjct: 144 VKDTKKFVGEEIEAKIIEVNASEN--RFILSR 173



 Score = 37.0 bits (85), Expect = 7.8,   Method: Composition-based stats.
 Identities = 20/63 (31%), Positives = 29/63 (46%), Gaps = 6/63 (9%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
           + G+I+ GTV RV      VDLG  DG++   E          + ++PGD V   I  + 
Sbjct: 193 QEGDIVEGTVSRVTNFGAFVDLGGIDGLVHVSELSHSRIKRPSDAVKPGDVVNVKILKLD 252

Query: 191 REQ 193
            E 
Sbjct: 253 PEA 255


>gi|270291294|ref|ZP_06197516.1| small subunit ribosomal protein S1 [Pediococcus acidilactici 7_4]
 gi|270280140|gb|EFA25976.1| small subunit ribosomal protein S1 [Pediococcus acidilactici 7_4]
          Length = 403

 Score = 38.1 bits (88), Expect = 3.5,   Method: Composition-based stats.
 Identities = 18/63 (28%), Positives = 31/63 (49%), Gaps = 6/63 (9%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
           + GE+++G V R+      VDLG  DG++   E          + L+PG+ V+  +  V 
Sbjct: 201 QEGEVVTGKVARLTNFGAFVDLGGIDGLVHISEISYERVEKPSDVLKPGEEVQVKVLSVD 260

Query: 191 REQ 193
            E+
Sbjct: 261 PER 263


>gi|254713388|ref|ZP_05175199.1| 30S ribosomal protein S1 [Brucella ceti M644/93/1]
 gi|254716254|ref|ZP_05178065.1| 30S ribosomal protein S1 [Brucella ceti M13/05/1]
 gi|261218030|ref|ZP_05932311.1| ribosomal protein S1 [Brucella ceti M13/05/1]
 gi|261321120|ref|ZP_05960317.1| ribosomal protein S1 [Brucella ceti M644/93/1]
 gi|260923119|gb|EEX89687.1| ribosomal protein S1 [Brucella ceti M13/05/1]
 gi|261293810|gb|EEX97306.1| ribosomal protein S1 [Brucella ceti M644/93/1]
          Length = 566

 Score = 38.1 bits (88), Expect = 3.5,   Method: Composition-based stats.
 Identities = 34/191 (17%), Positives = 70/191 (36%), Gaps = 29/191 (15%)

Query: 25  DVVLSVMADSIQKA------ARS---------LYGTMSDIR-VEINPETGDISLFRLLEV 68
           +V +  + +++ +A      AR           +     +  V  N   G  ++     V
Sbjct: 75  EVYVERIENALGEAVLSREKARREESWVKLEQKFANGERVDGVIFNQVKGGFTVDLDGAV 134

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                    Q+ ++  RD  P + +       +  MD  R  +  +++ ++++ R  +R 
Sbjct: 135 A---FLPRSQVDIRPIRDVTPLMHLPQP--FEILKMDKRRGNIVVSRRTVLEESRAEQRS 189

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRV 182
                 +   G+++ G VK +      VDLG  DG++   +          E L  G  V
Sbjct: 190 EIVQNLE--EGQVVEGVVKNITDYGAFVDLGGIDGLLHVTDMAWRRVNHPSEILTIGQTV 247

Query: 183 KSYIYDVRREQ 193
           K  I  + +E 
Sbjct: 248 KVQIIRINQET 258


>gi|153007374|ref|YP_001368589.1| 30S ribosomal protein S1 [Ochrobactrum anthropi ATCC 49188]
 gi|151559262|gb|ABS12760.1| ribosomal protein S1 [Ochrobactrum anthropi ATCC 49188]
          Length = 566

 Score = 38.1 bits (88), Expect = 3.5,   Method: Composition-based stats.
 Identities = 34/191 (17%), Positives = 70/191 (36%), Gaps = 29/191 (15%)

Query: 25  DVVLSVMADSIQKA------ARS---------LYGTMSDIR-VEINPETGDISLFRLLEV 68
           +V +  + +++ +A      AR           +     +  V  N   G  ++     V
Sbjct: 75  EVYVERIENALGEAVLSREKARREESWVKLEQKFANGERVDGVIFNQVKGGFTVDLDGAV 134

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                    Q+ ++  RD  P + +       +  MD  R  +  +++ ++++ R  +R 
Sbjct: 135 A---FLPRSQVDIRPIRDVTPLMHVPQP--FEILKMDKRRGNIVVSRRTVLEESRAEQRS 189

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRV 182
                 +   G+++ G VK +      VDLG  DG++   +          E L  G  V
Sbjct: 190 EIVQNLE--EGQVVEGVVKNITDYGAFVDLGGIDGLLHVTDMAWRRVNHPSEILTIGQTV 247

Query: 183 KSYIYDVRREQ 193
           K  I  + +E 
Sbjct: 248 KVQIIRINQET 258


>gi|295103120|emb|CBL00664.1| (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and
           DMAPP forming) [Faecalibacterium prausnitzii SL3/3]
          Length = 636

 Score = 38.1 bits (88), Expect = 3.5,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 6/62 (9%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           VG+  +G VK +      VD+G  DG+    E          E +  GD ++ Y+ D+  
Sbjct: 473 VGKTYTGVVKSLTSYGAFVDIGGVDGLCHISELSWNRIKHPSEVVSVGDTIEVYVKDIDT 532

Query: 192 EQ 193
           E 
Sbjct: 533 EN 534


>gi|257094467|ref|YP_003168108.1| 30S ribosomal protein S1 [Candidatus Accumulibacter phosphatis
           clade IIA str. UW-1]
 gi|257046991|gb|ACV36179.1| ribosomal protein S1 [Candidatus Accumulibacter phosphatis clade
           IIA str. UW-1]
          Length = 566

 Score = 38.1 bits (88), Expect = 3.5,   Method: Composition-based stats.
 Identities = 28/114 (24%), Positives = 46/114 (40%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +D +   G      +  +D  R  V  +++ +++     ERD      K   G I+ G V
Sbjct: 148 KDTTPYEGKTYEFKVIKLDRKRNNVVVSRRAVLEASVGEERDALLAALK--EGSIVKGVV 205

Query: 147 KRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++       R      E L  GD V++ I    +E+ 
Sbjct: 206 KNITDYGAFVDLGGIDGLLHITDLAWRRVRHPSEVLAVGDEVQAKILKFDQEKN 259


>gi|154314604|ref|XP_001556626.1| hypothetical protein BC1G_04011 [Botryotinia fuckeliana B05.10]
 gi|150848633|gb|EDN23826.1| hypothetical protein BC1G_04011 [Botryotinia fuckeliana B05.10]
          Length = 349

 Score = 38.1 bits (88), Expect = 3.5,   Method: Composition-based stats.
 Identities = 11/43 (25%), Positives = 20/43 (46%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
             ++V  G+  VE +A      +  I+G  E+ A +I   A +
Sbjct: 40  IQMIVDGGYNTVESVAYTPRRILEQIKGISEQKATKILTEASK 82


>gi|110668724|ref|YP_658535.1| 50S ribosomal protein L32e [Haloquadratum walsbyi DSM 16790]
 gi|109626471|emb|CAJ52932.1| ribosomal protein L32.eR [Haloquadratum walsbyi DSM 16790]
          Length = 317

 Score = 38.1 bits (88), Expect = 3.5,   Method: Composition-based stats.
 Identities = 11/69 (15%), Positives = 25/69 (36%)

Query: 343 TEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
           T+ +   + + +  +  + F     V    A  L   G+   E++     S +A ++   
Sbjct: 58  TDTDADTDSESEVTDDAEAFEDISGVGSDRAESLREAGYDSFEDIRAASQSALADVDDIG 117

Query: 403 EETAVEIQG 411
              A  I+ 
Sbjct: 118 NALAARIKA 126


>gi|91205227|ref|YP_537582.1| 30S ribosomal protein S1 [Rickettsia bellii RML369-C]
 gi|123388135|sp|Q1RJH1|RS1_RICBR RecName: Full=30S ribosomal protein S1
 gi|91068771|gb|ABE04493.1| 30S ribosomal protein S1 [Rickettsia bellii RML369-C]
          Length = 572

 Score = 38.1 bits (88), Expect = 3.5,   Method: Composition-based stats.
 Identities = 24/106 (22%), Positives = 43/106 (40%), Gaps = 8/106 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD     +  +++ I+++ R   RD      K K G I+ GTVK +      +DL
Sbjct: 170 FKILSMDKKLGNIVVSRRAILEESRSEARDEMLS--KIKEGMILEGTVKNITDYGAFIDL 227

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQV 198
           G+ DG++   +          E L    +VK  +     E +   +
Sbjct: 228 GSVDGLLHLTDISWARVNHPSEVLEFNQKVKVMVIKFNEETKRISL 273


>gi|551770|gb|AAA23167.1| 70 kDa ribosomal protein S1 [Chlamydia muridarum]
          Length = 180

 Score = 38.1 bits (88), Expect = 3.5,   Method: Composition-based stats.
 Identities = 26/66 (39%), Positives = 36/66 (54%), Gaps = 4/66 (6%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI-SRENLRPGDRVKSYIYDVRREQRGP 196
           G I+ GTV  +    V+VD+G  S+GVI   E I S E L  G  V+ Y+     E+   
Sbjct: 52  GAILKGTVVDISKDFVVVDVGLKSEGVIPMSEFIDSSEGLSVGAEVEVYLDQTEDEEG-- 109

Query: 197 QVLLSR 202
           +V+LSR
Sbjct: 110 KVVLSR 115


>gi|81428628|ref|YP_395628.1| 30S ribosomal protein S1 [Lactobacillus sakei subsp. sakei 23K]
 gi|78610270|emb|CAI55319.1| 30S Ribosomal protein S1 [Lactobacillus sakei subsp. sakei 23K]
          Length = 403

 Score = 38.1 bits (88), Expect = 3.5,   Method: Composition-based stats.
 Identities = 23/114 (20%), Positives = 50/114 (43%), Gaps = 10/114 (8%)

Query: 94  GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN 153
           G  +   +  ++     +  +++ ++++ R+A+    + +     G+I+ G V R+    
Sbjct: 162 GQELELQIIEIEPSENRLILSRKALVEQERQAQLKAVFEKLLP--GDIVEGEVARLTNFG 219

Query: 154 VIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
             VDLG  DG++   E          + L  G  VK  I  + +E+   ++ LS
Sbjct: 220 AFVDLGGVDGLVHVSEISYDHINQPSDVLEVGQNVKVKILSLDQEKG--RISLS 271


>gi|20067701|emb|CAD29092.1| chimeric DNA-directed DNA polymerase bf4-19 [synthetic construct]
          Length = 329

 Score = 38.1 bits (88), Expect = 3.5,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
            L + GIKT+EDL
Sbjct: 113 KLVDEGIKTLEDL 125


>gi|304385043|ref|ZP_07367389.1| 30S ribosomal protein S1 [Pediococcus acidilactici DSM 20284]
 gi|304329237|gb|EFL96457.1| 30S ribosomal protein S1 [Pediococcus acidilactici DSM 20284]
          Length = 403

 Score = 38.1 bits (88), Expect = 3.6,   Method: Composition-based stats.
 Identities = 18/63 (28%), Positives = 31/63 (49%), Gaps = 6/63 (9%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
           + GE+++G V R+      VDLG  DG++   E          + L+PG+ V+  +  V 
Sbjct: 201 QEGEVVTGKVARLTNFGAFVDLGGIDGLVHISEISYERVEKPSDVLKPGEEVQVKVLSVD 260

Query: 191 REQ 193
            E+
Sbjct: 261 PER 263


>gi|331269557|ref|YP_004396049.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase / ribosomal
           protein S1-like protein [Clostridium botulinum
           BKT015925]
 gi|329126107|gb|AEB76052.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase / ribosomal
           protein S1-like protein [Clostridium botulinum
           BKT015925]
          Length = 634

 Score = 38.1 bits (88), Expect = 3.6,   Method: Composition-based stats.
 Identities = 14/64 (21%), Positives = 30/64 (46%), Gaps = 6/64 (9%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
             +++ G ++R+      VD+   DG++   E          + L+ G++VK  I D+ +
Sbjct: 476 KDQVVEGEIRRLTSFGAFVDVNGIDGLLHVSEISWGRVEKPEDVLKIGEKVKVCILDIDK 535

Query: 192 EQRG 195
           E + 
Sbjct: 536 ENKK 539


>gi|297734587|emb|CBI16638.3| unnamed protein product [Vitis vinifera]
          Length = 346

 Score = 38.1 bits (88), Expect = 3.6,   Method: Composition-based stats.
 Identities = 35/147 (23%), Positives = 54/147 (36%), Gaps = 45/147 (30%)

Query: 219 IYNGIVQVKAVSRDPGSRAK-------LAVFSSDSSIDPVGACVGMRGSRVQAVVTEL-- 269
           I +   +V    R P  RAK       + V S       +G  +G  GSR+Q +  E   
Sbjct: 37  IASATGEVADDHRSPKRRAKNQDVLFRIVVPSRQ-----IGKVIGKEGSRIQKIREETKA 91

Query: 270 ----------RDEKIDIVVWSPDSATFVI---NALRPAIVTKVVLDED------------ 304
                      +E++ I++ S DS   +    NAL    V  ++L ED            
Sbjct: 92  TIKIADAIARHEERV-IIISSKDSENVISDAENALL--QVASLILKEDDSNTDALKVGVG 148

Query: 305 ---VGRIEVIVPKEQLSLAIGRRGQNV 328
                 I +++   Q    IG  GQN+
Sbjct: 149 HVVANAIRLLIAGSQAGCLIGMSGQNI 175


>gi|257437823|ref|ZP_05613578.1| hydroxymethylbutenyl pyrophosphate reductase [Faecalibacterium
           prausnitzii A2-165]
 gi|257199746|gb|EEU98030.1| hydroxymethylbutenyl pyrophosphate reductase [Faecalibacterium
           prausnitzii A2-165]
          Length = 636

 Score = 38.1 bits (88), Expect = 3.6,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 6/62 (9%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           VG+  +G VK +      VD+G  DG+    E          E +  GD ++ Y+ D+  
Sbjct: 473 VGKTYTGVVKSLTSYGAFVDIGGVDGLCHISELSWNRIKHPSEVVSVGDTIEVYVKDIDT 532

Query: 192 EQ 193
           E 
Sbjct: 533 EN 534


>gi|225011942|ref|ZP_03702380.1| RNA binding S1 domain protein [Flavobacteria bacterium MS024-2A]
 gi|225004445|gb|EEG42417.1| RNA binding S1 domain protein [Flavobacteria bacterium MS024-2A]
          Length = 668

 Score = 38.1 bits (88), Expect = 3.6,   Method: Composition-based stats.
 Identities = 35/136 (25%), Positives = 54/136 (39%), Gaps = 20/136 (14%)

Query: 68  VVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAER 127
           VVEEV+     +    A   D                 F     Q    +I  K  +   
Sbjct: 75  VVEEVKEPKVDVKAAQAEFLD----------------SFNWHNYQEGIDLIEDKQLDEFE 118

Query: 128 DRQYLEFKDKVGE-IISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSY 185
                 F D   E +I G V  +     I+D+   S+GVI  +E     +L+ GD+V+  
Sbjct: 119 KLVKENFVDTSDEDVIEGEVVYMTEREAIIDINAKSEGVISLNEFRYNPDLKVGDKVEV- 177

Query: 186 IYDVRREQRGPQVLLS 201
           I D+R ++ G Q++LS
Sbjct: 178 IVDIREDRTG-QLVLS 192


>gi|188527836|ref|YP_001910523.1| 30S ribosomal protein S1 [Helicobacter pylori Shi470]
 gi|188144076|gb|ACD48493.1| 30S ribosomal protein S1 [Helicobacter pylori Shi470]
          Length = 552

 Score = 38.1 bits (88), Expect = 3.6,   Method: Composition-based stats.
 Identities = 21/116 (18%), Positives = 41/116 (35%), Gaps = 14/116 (12%)

Query: 91  IDIGGVVSDPLPPM-DFGRVAVQSA--KQVIIQKVREAERDRQYLEFKDKVGEIISGTVK 147
                 +   +    +   V+ + A  +Q I  K+ E   +            II G + 
Sbjct: 73  YQKNDPIIVHVSEKGEHSSVSYKKAISQQKIQAKIEELGEN--------YENAIIEGKIV 124

Query: 148 RVEYGNVIVDLGNSDGVIRR-DETISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
               G  IV+    +  + R   ++  +    G R+K+ I  V +E     + +SR
Sbjct: 125 GKNKGGYIVESQGVEYFLSRSRSSLKNDANHIGKRIKACIIHVDKENH--SINISR 178


>gi|114683628|ref|XP_514833.2| PREDICTED: SAM domain-containing protein SAMSN-1 isoform 5 [Pan
           troglodytes]
          Length = 373

 Score = 38.1 bits (88), Expect = 3.6,   Method: Composition-based stats.
 Identities = 24/109 (22%), Positives = 52/109 (47%), Gaps = 14/109 (12%)

Query: 339 IDIITEEEDSINRQK-------DFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVK 391
           +D+I+EEE +  + K       + ++  Q F++ I++ E  + LL+  G+  +E+L  +K
Sbjct: 219 VDVISEEEAAPKKIKANRRSNSEKSKTLQEFLERIHLQEYTSTLLL-NGYETLEDLKDIK 277

Query: 392 ISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSI 440
            S +  +   + +    +   A  +LE      ++  +E G   E  S+
Sbjct: 278 ESHLIELNIENPDDRRRLLSAAENFLE------EEITQEQGNEPEPLSL 320


>gi|329725334|gb|EGG61817.1| 30S ribosomal protein S1 [Staphylococcus epidermidis VCU144]
          Length = 392

 Score = 38.1 bits (88), Expect = 3.6,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 34/65 (52%), Gaps = 8/65 (12%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           K G+ ++G V++VE   V+V +  G  +G+I   +          E ++ GD V++Y+  
Sbjct: 14  KEGDKVTGEVQQVEDKQVVVHINGGKFNGIIPISQLSTHHIENPSEVVKVGDEVEAYVTK 73

Query: 189 VRREQ 193
           +  ++
Sbjct: 74  IEFDE 78


>gi|303232376|ref|ZP_07319068.1| DNA-directed RNA polymerase, beta' subunit [Atopobium vaginae
            PB189-T1-4]
 gi|302481460|gb|EFL44528.1| DNA-directed RNA polymerase, beta' subunit [Atopobium vaginae
            PB189-T1-4]
          Length = 1484

 Score = 38.1 bits (88), Expect = 3.6,   Method: Composition-based stats.
 Identities = 14/82 (17%), Positives = 29/82 (35%), Gaps = 7/82 (8%)

Query: 364  QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG--RAREYLEGID 421
              + V +   +     G   V +L      E+  I+G   +   E++    AR  L  ++
Sbjct: 1336 DDLGVSQRWTNKFSEVGIETVGDLIGKTEDELLRIDGIGAKAIEELREGLEARNLLYLLE 1395

Query: 422  ITLQKKIRELGVSEELCSIPGI 443
                +       SE+L  +  +
Sbjct: 1396 PDEDEA-----DSEDLSQLLNM 1412


>gi|296222127|ref|XP_002757050.1| PREDICTED: DNA polymerase beta [Callithrix jacchus]
          Length = 335

 Score = 38.1 bits (88), Expect = 3.6,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVSGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
              + GIKT+EDL
Sbjct: 113 KFVDEGIKTLEDL 125


>gi|256377071|ref|YP_003100731.1| DNA ligase, NAD-dependent [Actinosynnema mirum DSM 43827]
 gi|255921374|gb|ACU36885.1| DNA ligase, NAD-dependent [Actinosynnema mirum DSM 43827]
          Length = 674

 Score = 38.1 bits (88), Expect = 3.6,   Method: Composition-based stats.
 Identities = 17/71 (23%), Positives = 30/71 (42%), Gaps = 5/71 (7%)

Query: 369 DEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKI 428
            E  A  L   GF  +EE+A      +  +E    + A  +     E+L  +   L  ++
Sbjct: 512 SEGTATRLCRAGFGSLEEVADAGEERLVEVEDIGPKVAASL----TEHLARLRPELT-RL 566

Query: 429 RELGVSEELCS 439
           R+ GVS ++  
Sbjct: 567 RQRGVSLDVRD 577


>gi|109086253|ref|XP_001097548.1| PREDICTED: DNA polymerase beta isoform 2 [Macaca mulatta]
          Length = 335

 Score = 38.1 bits (88), Expect = 3.6,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVSGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
              + GIKT+EDL
Sbjct: 113 KFVDEGIKTLEDL 125


>gi|47226550|emb|CAG08566.1| unnamed protein product [Tetraodon nigroviridis]
          Length = 311

 Score = 38.1 bits (88), Expect = 3.6,   Method: Composition-based stats.
 Identities = 19/73 (26%), Positives = 31/73 (42%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
            E   ++G   + A +I     E+L+   +   +KIR    S     L  + GI      
Sbjct: 57  EEAKKLDGVGAKIAEKI----DEFLQTGKLRKLEKIRNDDTSTSINLLTRVTGIGPAAAR 112

Query: 450 ALGENGIKTMEDL 462
              + G+KT+EDL
Sbjct: 113 KFFDEGVKTLEDL 125


>gi|115350977|ref|YP_772816.1| 30S ribosomal protein S1 [Burkholderia ambifaria AMMD]
 gi|171316178|ref|ZP_02905402.1| ribosomal protein S1 [Burkholderia ambifaria MEX-5]
 gi|115280965|gb|ABI86482.1| SSU ribosomal protein S1P [Burkholderia ambifaria AMMD]
 gi|171098687|gb|EDT43482.1| ribosomal protein S1 [Burkholderia ambifaria MEX-5]
          Length = 576

 Score = 38.1 bits (88), Expect = 3.6,   Method: Composition-based stats.
 Identities = 23/71 (32%), Positives = 36/71 (50%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G I+ G VK V+  G VI   G+ +G +R  E         R  L+ GD+V + + ++ 
Sbjct: 465 KGSIVDGVVKSVDAKGAVITLTGDIEGYLRASEISQDRVEDARNVLKEGDKVNAMVINID 524

Query: 191 REQRGPQVLLS 201
           R+ RG  + LS
Sbjct: 525 RKSRG--INLS 533



 Score = 37.4 bits (86), Expect = 6.3,   Method: Composition-based stats.
 Identities = 27/114 (23%), Positives = 47/114 (41%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +D +   G  +   +  +D  R  V  +++ +I+  +  ER +     K   G I++G V
Sbjct: 157 KDTTPYEGKTLEFRVIKLDRKRNNVVLSRRAVIEATQGEERAKLLETLK--EGAIVNGVV 214

Query: 147 KRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++       R      E L  G  V + I    +E+ 
Sbjct: 215 KNITDYGAFVDLGGIDGLLHITDIAWRRVRHPSEVLSVGQEVTAKILKFDQEKN 268


>gi|329735185|gb|EGG71477.1| putative ribosomal protein S1 [Staphylococcus epidermidis VCU045]
          Length = 392

 Score = 38.1 bits (88), Expect = 3.6,   Method: Composition-based stats.
 Identities = 16/65 (24%), Positives = 34/65 (52%), Gaps = 8/65 (12%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           K G+ ++G V++VE   V+V +  G  +G+I   +          E ++ GD V++Y+  
Sbjct: 14  KEGDKVTGEVQQVEDKQVVVHINGGKFNGIIPISQLSTHHIENPSEVVKVGDEVEAYVTK 73

Query: 189 VRREQ 193
           +  ++
Sbjct: 74  IEFDE 78


>gi|307128513|ref|YP_003880543.1| putative 30S ribosomal protein S1 [Candidatus Sulcia muelleri CARI]
 gi|306482975|gb|ADM89845.1| putative 30S ribosomal protein S1 [Candidatus Sulcia muelleri CARI]
          Length = 574

 Score = 38.1 bits (88), Expect = 3.6,   Method: Composition-based stats.
 Identities = 19/130 (14%), Positives = 47/130 (36%), Gaps = 18/130 (13%)

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFG---RVAVQSAKQVIIQKVREAERDRQYLEFK 135
           ISL   R+      +  ++   +  +D+     ++   AK++I         +     F 
Sbjct: 89  ISLNEFREYKKKTKVNDIIEVIVEKIDYKGQCLISYNKAKKIIY-------WESIQKSFI 141

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDET----ISRENLRPGDRVKSYIYDVRR 191
               +II   + R   G +IV L   +  +   +     +   +   G  ++  +  +  
Sbjct: 142 KNE-KIIFLVIAR-TKGGLIVILFGIECFLPGSQIDIKPVKDFDYFVGKIIEGKVVKINN 199

Query: 192 EQRGPQVLLS 201
           + +   V++S
Sbjct: 200 KTKN--VVVS 207


>gi|315231921|ref|YP_004072357.1| glycogen branching enzyme [Thermococcus barophilus MP]
 gi|315184949|gb|ADT85134.1| glycogen branching enzyme [Thermococcus barophilus MP]
          Length = 666

 Score = 38.1 bits (88), Expect = 3.6,   Method: Composition-based stats.
 Identities = 39/167 (23%), Positives = 65/167 (38%), Gaps = 9/167 (5%)

Query: 327 NV--RLASQLTGW-------TIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLV 377
           NV  RLA+ L  +        ++ + E E   N     N       +  +V E +    +
Sbjct: 495 NVFHRLANALEEYFKSGEFREVEFLEEIEKKDNPFHPINIEVYVSEEPPSVPEYVEPPEI 554

Query: 378 AEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEEL 437
            +     EE   V    + S        A+E   R R   E   +  +K  ++  +  EL
Sbjct: 555 PKEKESSEEKTKVANEVVYSYTVIQRAYAMEKIKRKRIPKELPKLKRRKSKKKRNIQSEL 614

Query: 438 CSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
             I GI SK    L + GI+T+ DL    ++DL   ++     ++KF
Sbjct: 615 LKIKGIGSKTLKKLEKAGIRTLNDLKSADLEDLARRTKISVKRLKKF 661


>gi|153207789|ref|ZP_01946389.1| ribosomal protein S1 [Coxiella burnetii 'MSU Goat Q177']
 gi|165924110|ref|ZP_02219942.1| ribosomal protein S1 [Coxiella burnetii RSA 334]
 gi|120576341|gb|EAX32965.1| ribosomal protein S1 [Coxiella burnetii 'MSU Goat Q177']
 gi|165916449|gb|EDR35053.1| ribosomal protein S1 [Coxiella burnetii RSA 334]
          Length = 551

 Score = 38.1 bits (88), Expect = 3.6,   Method: Composition-based stats.
 Identities = 26/114 (22%), Positives = 47/114 (41%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RDP       +   +  MD  R  V  +++ +++    AER  +  E   + G+ I G +
Sbjct: 138 RDPGYLEDKEIDFKIIKMDQRRNNVVVSRRAVMEAETSAERQARLEEL--QEGQEIKGVI 195

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++   +          + L  GD V   +    R+++
Sbjct: 196 KNITDYGAFVDLGGVDGLLHITDMAWGRVKHPSDLLNVGDEVHVKVLKFDRDKK 249


>gi|62289016|ref|YP_220809.1| 30S ribosomal protein S1 [Brucella abortus bv. 1 str. 9-941]
 gi|82698954|ref|YP_413528.1| 30S ribosomal protein S1 [Brucella melitensis biovar Abortus 2308]
 gi|189023292|ref|YP_001934060.1| 30S ribosomal protein S1 [Brucella abortus S19]
 gi|254696460|ref|ZP_05158288.1| 30S ribosomal protein S1 [Brucella abortus bv. 2 str. 86/8/59]
 gi|254731372|ref|ZP_05189950.1| 30S ribosomal protein S1 [Brucella abortus bv. 4 str. 292]
 gi|260546309|ref|ZP_05822049.1| ribosomal protein S1 [Brucella abortus NCTC 8038]
 gi|260759107|ref|ZP_05871455.1| ribosomal protein S1 [Brucella abortus bv. 4 str. 292]
 gi|260760832|ref|ZP_05873175.1| ribosomal protein S1 [Brucella abortus bv. 2 str. 86/8/59]
 gi|62195148|gb|AAX73448.1| RpsA, ribosomal protein S1 [Brucella abortus bv. 1 str. 9-941]
 gi|82615055|emb|CAJ09981.1| Ribosomal protein S1:RNA binding S1 [Brucella melitensis biovar
           Abortus 2308]
 gi|189018864|gb|ACD71586.1| Ribosomal protein S1 [Brucella abortus S19]
 gi|260096416|gb|EEW80292.1| ribosomal protein S1 [Brucella abortus NCTC 8038]
 gi|260669425|gb|EEX56365.1| ribosomal protein S1 [Brucella abortus bv. 4 str. 292]
 gi|260671264|gb|EEX58085.1| ribosomal protein S1 [Brucella abortus bv. 2 str. 86/8/59]
          Length = 566

 Score = 38.1 bits (88), Expect = 3.6,   Method: Composition-based stats.
 Identities = 34/191 (17%), Positives = 70/191 (36%), Gaps = 29/191 (15%)

Query: 25  DVVLSVMADSIQKA------ARS---------LYGTMSDIR-VEINPETGDISLFRLLEV 68
           +V +  + +++ +A      AR           +     +  V  N   G  ++     V
Sbjct: 75  EVYVERIENALGEAVLSREKARREESWVKLEQKFANGERVDGVIFNQVKGGFTVDLDGAV 134

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                    Q+ ++  RD  P + +       +  MD  R  +  +++ ++++ R  +R 
Sbjct: 135 A---FLPRSQVDIRPIRDVTPLMHVPQP--FEILKMDKRRGNIVVSRRTVLEESRAEQRS 189

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRV 182
                 +   G+++ G VK +      VDLG  DG++   +          E L  G  V
Sbjct: 190 EIVQNLE--EGQVVEGVVKNITDYGAFVDLGGIDGLLHVTDMAWRRVNHPSEILTIGQTV 247

Query: 183 KSYIYDVRREQ 193
           K  I  + +E 
Sbjct: 248 KVQIIRINQET 258


>gi|257791950|ref|YP_003182556.1| DNA ligase, NAD-dependent [Eggerthella lenta DSM 2243]
 gi|325829905|ref|ZP_08163363.1| DNA ligase (NAD+) [Eggerthella sp. HGA1]
 gi|257475847|gb|ACV56167.1| DNA ligase, NAD-dependent [Eggerthella lenta DSM 2243]
 gi|325488072|gb|EGC90509.1| DNA ligase (NAD+) [Eggerthella sp. HGA1]
          Length = 708

 Score = 38.1 bits (88), Expect = 3.7,   Method: Composition-based stats.
 Identities = 25/139 (17%), Positives = 46/139 (33%), Gaps = 32/139 (23%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           V + IA LL A  +  +E L      ++A I+G   + A   +          +  + ++
Sbjct: 550 VGKTIAELLAAA-YPSIEALMEASEEDLAVIDGVGPKIA---RSAYLFLRTPDNAAVIER 605

Query: 428 IRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGF 487
           +R  GV+                           LA  + D      +   G      G 
Sbjct: 606 LRSHGVA---------------------------LADEAADAGEQLPQTLAGLTFVLTGS 638

Query: 488 LSSLGTPKDQVESMIIHAR 506
           L   G  +D+  + ++ AR
Sbjct: 639 LVESGMTRDEAGA-VLKAR 656


>gi|150399289|ref|YP_001323056.1| DNA repair and recombination protein RadA [Methanococcus vannielii
           SB]
 gi|150011992|gb|ABR54444.1| DNA repair and recombination protein RadA [Methanococcus vannielii
           SB]
          Length = 322

 Score = 38.1 bits (88), Expect = 3.7,   Method: Composition-based stats.
 Identities = 12/46 (26%), Positives = 18/46 (39%)

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
                 +   V    A  L+  G+ D  ++A   I E+  IEG  E
Sbjct: 1   MADVLTELPGVGPSTAEKLIEAGYLDFMKIATSTIGELTDIEGISE 46


>gi|50556100|ref|XP_505458.1| YALI0F15477p [Yarrowia lipolytica]
 gi|49651328|emb|CAG78267.1| YALI0F15477p [Yarrowia lipolytica]
          Length = 329

 Score = 38.1 bits (88), Expect = 3.7,   Method: Composition-based stats.
 Identities = 10/69 (14%), Positives = 25/69 (36%), Gaps = 3/69 (4%)

Query: 350 NRQKDFNERTQFFMQAI---NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
              ++        ++ +    + +   + L   G   VE +A      + +I+G  E  A
Sbjct: 1   MADEEIERAGAIPIERLAVNGITQTDINRLGEFGLYTVESVAYTPKKHLLTIKGISEAKA 60

Query: 407 VEIQGRARE 415
            ++   A +
Sbjct: 61  DKLLSEASK 69


>gi|46117014|ref|XP_384525.1| hypothetical protein FG04349.1 [Gibberella zeae PH-1]
          Length = 564

 Score = 38.1 bits (88), Expect = 3.7,   Method: Composition-based stats.
 Identities = 19/85 (22%), Positives = 39/85 (45%), Gaps = 8/85 (9%)

Query: 293 PAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEED----- 347
           P       L E    ++++VP   + L IGR G+ +R   + +G  I+I+ E +      
Sbjct: 284 PNKGGATALREGEDHMQIMVPDRTVGLIIGRGGETIRDLQERSGCHINIVGESKSVNGLR 343

Query: 348 --SINRQKDFNERTQFF-MQAINVD 369
             ++   ++   R + F M+ ++ D
Sbjct: 344 PVNLIGTREAAARAKDFIMEIVDSD 368


>gi|332522644|ref|ZP_08398896.1| polyribonucleotide nucleotidyltransferase [Streptococcus porcinus
           str. Jelinkova 176]
 gi|332313908|gb|EGJ26893.1| polyribonucleotide nucleotidyltransferase [Streptococcus porcinus
           str. Jelinkova 176]
          Length = 742

 Score = 38.1 bits (88), Expect = 3.7,   Method: Composition-based stats.
 Identities = 33/185 (17%), Positives = 66/185 (35%), Gaps = 36/185 (19%)

Query: 29  SVMADSIQKAARSLYGTMSDIRVEINP------------ETGDISLFRLLEVVEEVENYT 76
            ++ +++ +A ++ +  +  I   I              +T  I + ++  V+ +     
Sbjct: 531 QILEEALAQAKKARFEILDVIEATIATPRLELAPTAPKIDTIKIDVDKIKVVIGKGGETI 590

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +I  +     D    I       +   D  + A+   K++I   VREA           
Sbjct: 591 DKIIAETGVKID----IDDEGMVQIFSSD--QAAINRTKEIIAGLVREA----------- 633

Query: 137 KVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDET------ISRENLRPGDRVKSYIYDV 189
           KVGE+    V R+E     V+L   +D ++   E          + L  G+ V   +  V
Sbjct: 634 KVGEVYHAKVVRIEKFGAFVNLFDKTDALVHISEIAWTRTANVSDVLEIGEEVDVKVIKV 693

Query: 190 RREQR 194
             + R
Sbjct: 694 DEKGR 698


>gi|301765968|ref|XP_002918406.1| PREDICTED: DNA polymerase beta-like [Ailuropoda melanoleuca]
          Length = 335

 Score = 38.1 bits (88), Expect = 3.7,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVSGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
              + GIKT+EDL
Sbjct: 113 KFVDEGIKTLEDL 125


>gi|301629530|ref|XP_002943891.1| PREDICTED: 30S ribosomal protein S1-like [Xenopus (Silurana)
           tropicalis]
          Length = 390

 Score = 38.1 bits (88), Expect = 3.7,   Method: Composition-based stats.
 Identities = 21/68 (30%), Positives = 33/68 (48%), Gaps = 7/68 (10%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G+ +SG VK V+     +DLG +  G +R  E         R  L+ GD V + + +V 
Sbjct: 278 KGQTVSGKVKSVDARGAEIDLGEDIVGYLRASEISRDRVEDARNVLKEGDEVTAVVVNVD 337

Query: 191 REQRGPQV 198
           R+ R  Q+
Sbjct: 338 RKTRNIQL 345


>gi|325520510|gb|EGC99606.1| 30S ribosomal protein S1 [Burkholderia sp. TJI49]
          Length = 570

 Score = 38.1 bits (88), Expect = 3.7,   Method: Composition-based stats.
 Identities = 23/71 (32%), Positives = 36/71 (50%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G I+ G VK V+  G VI   G+ +G +R  E         R  L+ GD+V + + ++ 
Sbjct: 459 KGSIVDGVVKSVDAKGAVITLTGDIEGYLRASEISQDRVEDARNVLKEGDKVNAMVINID 518

Query: 191 REQRGPQVLLS 201
           R+ RG  + LS
Sbjct: 519 RKSRG--INLS 527



 Score = 37.4 bits (86), Expect = 6.7,   Method: Composition-based stats.
 Identities = 27/114 (23%), Positives = 47/114 (41%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +D +   G  +   +  +D  R  V  +++ +I+  +  ER +     K   G I++G V
Sbjct: 151 KDTTPYEGKTLEFRVIKLDRKRNNVVLSRRAVIEATQGEERAKLLETLK--EGAIVNGVV 208

Query: 147 KRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++       R      E L  G  V + I    +E+ 
Sbjct: 209 KNITDYGAFVDLGGIDGLLHITDIAWRRVRHPSEVLSVGQEVTAKILKFDQEKN 262


>gi|294102013|ref|YP_003553871.1| RNA binding S1 domain protein [Aminobacterium colombiense DSM
           12261]
 gi|293616993|gb|ADE57147.1| RNA binding S1 domain protein [Aminobacterium colombiense DSM
           12261]
          Length = 503

 Score = 38.1 bits (88), Expect = 3.7,   Method: Composition-based stats.
 Identities = 18/98 (18%), Positives = 43/98 (43%), Gaps = 11/98 (11%)

Query: 128 DRQYLEFKDKV---GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISR------ENLR 177
           +    ++  +    G++++GT+        +VD+G   +G + R E   +      E   
Sbjct: 21  ESMLEKYAGEEIHKGKVVTGTIVGANEDGWLVDVGYKCEGFLPRREWTHKILVEEEEEPS 80

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHME 215
             D ++  + ++R  +   Q+L+SR   +F  +   +E
Sbjct: 81  INDEIQVQVINIRHGE-DAQLLVSRWRCEFDRRWAELE 117



 Score = 38.1 bits (88), Expect = 4.0,   Method: Composition-based stats.
 Identities = 25/131 (19%), Positives = 58/131 (44%), Gaps = 8/131 (6%)

Query: 82  KVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEI 141
           +  R  +P   +G V    L   D  +  +  ++++++++  E +R++ Y       G+I
Sbjct: 156 EEGRGVNPGKFVGEVFDVKLLEKDRRKRRLVLSRRMLVEEAVEEQRNKFYTTVS--EGDI 213

Query: 142 ISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRG 195
           + G V  +      ++LG  DG++   E         +E ++ G+ VK  +  + +E   
Sbjct: 214 LEGRVSSITSFGAFINLGPIDGLVHISELSWKRNVKPKEVVKKGETVKVKVIGIEQENNR 273

Query: 196 PQVLLSRTHPQ 206
             + + +T P 
Sbjct: 274 VSLSIKQTQPD 284


>gi|225389317|ref|ZP_03759041.1| hypothetical protein CLOSTASPAR_03064 [Clostridium asparagiforme
           DSM 15981]
 gi|225044618|gb|EEG54864.1| hypothetical protein CLOSTASPAR_03064 [Clostridium asparagiforme
           DSM 15981]
          Length = 660

 Score = 38.1 bits (88), Expect = 3.7,   Method: Composition-based stats.
 Identities = 30/159 (18%), Positives = 64/159 (40%), Gaps = 30/159 (18%)

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQ-------- 120
           V +V +    + ++ AR   P+  +           D  + A Q  + +I +        
Sbjct: 405 VTQVLDGGLSVEVEGARVFIPASLVSDSYE-----KDLSKYAGQDIEFIITEFNPKRRRI 459

Query: 121 -----KVREAERDRQYLEFKDKV--GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI-- 171
                 +  A++ +   E   ++  G++  G VK V      +DLG +DG++   E    
Sbjct: 460 IGDRKALLVAQKAKMKEELFSRIQPGDVTDGVVKNVTDFGAFIDLGGADGLLHISEMSWG 519

Query: 172 ----SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQ 206
                ++  + G++V+  I D++    G ++ LS   P+
Sbjct: 520 RVENPKKVFKTGEQVRVLIKDIQ----GEKIALSLKFPE 554


>gi|163788766|ref|ZP_02183211.1| putative 30S ribosomal protein S1 [Flavobacteriales bacterium
           ALC-1]
 gi|159876003|gb|EDP70062.1| putative 30S ribosomal protein S1 [Flavobacteriales bacterium
           ALC-1]
          Length = 613

 Score = 38.1 bits (88), Expect = 3.7,   Method: Composition-based stats.
 Identities = 29/88 (32%), Positives = 46/88 (52%), Gaps = 5/88 (5%)

Query: 116 QVIIQKVREAERDRQYLEFKD-KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISR 173
           QV  +K+ E E       F D    E++ G V  +   + I+D+   S+GVI  +E    
Sbjct: 51  QVADKKLEEFE-KLVSENFVDTLDDEVVEGEVIHITDRDAIIDINAKSEGVISLNEFRYN 109

Query: 174 ENLRPGDRVKSYIYDVRREQRGPQVLLS 201
            +L+ GD+V+  I DVR +  G Q++LS
Sbjct: 110 PDLKVGDKVEVLI-DVREDATG-QLVLS 135



 Score = 37.0 bits (85), Expect = 8.2,   Method: Composition-based stats.
 Identities = 26/134 (19%), Positives = 51/134 (38%), Gaps = 10/134 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +K  RD D  ++            +F  + V   K +I   + E +++  
Sbjct: 178 EAFLPGSQIDVKPIRDYDQYVNKTMEFKVVKINHEFKNIVVSH-KALIEADIEEQKKEII 236

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
             + +   G+++ G VK +    V +DLG  DG++   +          E +    ++  
Sbjct: 237 -GQLE--KGQVLEGIVKNITSYGVFIDLGGVDGLVHITDLSWSRINHPNEIVELDQKLNV 293

Query: 185 YIYDVRREQRGPQV 198
            I D    +   Q+
Sbjct: 294 VILDFDENKSRIQL 307


>gi|23500942|ref|NP_697069.1| 30S ribosomal protein S1 [Brucella suis 1330]
 gi|148560426|ref|YP_001258073.1| 30S ribosomal protein S1 [Brucella ovis ATCC 25840]
 gi|161511120|ref|NP_540832.2| 30S ribosomal protein S1 [Brucella melitensis bv. 1 str. 16M]
 gi|161618017|ref|YP_001591904.1| 30S ribosomal protein S1 [Brucella canis ATCC 23365]
 gi|163842303|ref|YP_001626707.1| 30S ribosomal protein S1 [Brucella suis ATCC 23445]
 gi|225851571|ref|YP_002731804.1| 30S ribosomal protein S1 [Brucella melitensis ATCC 23457]
 gi|254690342|ref|ZP_05153596.1| 30S ribosomal protein S1 [Brucella abortus bv. 6 str. 870]
 gi|254694831|ref|ZP_05156659.1| 30S ribosomal protein S1 [Brucella abortus bv. 3 str. Tulya]
 gi|254700843|ref|ZP_05162671.1| 30S ribosomal protein S1 [Brucella suis bv. 5 str. 513]
 gi|254705209|ref|ZP_05167037.1| 30S ribosomal protein S1 [Brucella suis bv. 3 str. 686]
 gi|254707271|ref|ZP_05169099.1| 30S ribosomal protein S1 [Brucella pinnipedialis M163/99/10]
 gi|254709187|ref|ZP_05170998.1| 30S ribosomal protein S1 [Brucella pinnipedialis B2/94]
 gi|254718248|ref|ZP_05180059.1| 30S ribosomal protein S1 [Brucella sp. 83/13]
 gi|256030711|ref|ZP_05444325.1| 30S ribosomal protein S1 [Brucella pinnipedialis M292/94/1]
 gi|256060170|ref|ZP_05450352.1| 30S ribosomal protein S1 [Brucella neotomae 5K33]
 gi|256112535|ref|ZP_05453456.1| 30S ribosomal protein S1 [Brucella melitensis bv. 3 str. Ether]
 gi|256158714|ref|ZP_05456593.1| 30S ribosomal protein S1 [Brucella ceti M490/95/1]
 gi|256254116|ref|ZP_05459652.1| 30S ribosomal protein S1 [Brucella ceti B1/94]
 gi|256258596|ref|ZP_05464132.1| 30S ribosomal protein S1 [Brucella abortus bv. 9 str. C68]
 gi|256264918|ref|ZP_05467450.1| 30S ribosomal protein S1 [Brucella melitensis bv. 2 str. 63/9]
 gi|256368492|ref|YP_003105998.1| 30S ribosomal protein S1 [Brucella microti CCM 4915]
 gi|260169614|ref|ZP_05756425.1| 30S ribosomal protein S1 [Brucella sp. F5/99]
 gi|260563108|ref|ZP_05833594.1| ribosomal protein S1 [Brucella melitensis bv. 1 str. 16M]
 gi|260567325|ref|ZP_05837795.1| ribosomal protein S1 [Brucella suis bv. 4 str. 40]
 gi|260755883|ref|ZP_05868231.1| ribosomal protein S1 [Brucella abortus bv. 6 str. 870]
 gi|260884907|ref|ZP_05896521.1| ribosomal protein S1 [Brucella abortus bv. 9 str. C68]
 gi|261215158|ref|ZP_05929439.1| ribosomal protein S1 [Brucella abortus bv. 3 str. Tulya]
 gi|261221257|ref|ZP_05935538.1| ribosomal protein S1 [Brucella ceti B1/94]
 gi|261314754|ref|ZP_05953951.1| ribosomal protein S1 [Brucella pinnipedialis M163/99/10]
 gi|261316687|ref|ZP_05955884.1| ribosomal protein S1 [Brucella pinnipedialis B2/94]
 gi|261324148|ref|ZP_05963345.1| ribosomal protein S1 [Brucella neotomae 5K33]
 gi|261751352|ref|ZP_05995061.1| ribosomal protein S1 [Brucella suis bv. 5 str. 513]
 gi|261755917|ref|ZP_05999626.1| ribosomal protein S1 [Brucella suis bv. 3 str. 686]
 gi|261759142|ref|ZP_06002851.1| ribosomal protein S1 [Brucella sp. F5/99]
 gi|265983208|ref|ZP_06095943.1| ribosomal protein S1 [Brucella sp. 83/13]
 gi|265987757|ref|ZP_06100314.1| ribosomal protein S1 [Brucella pinnipedialis M292/94/1]
 gi|265993974|ref|ZP_06106531.1| ribosomal protein S1 [Brucella melitensis bv. 3 str. Ether]
 gi|265997218|ref|ZP_06109775.1| ribosomal protein S1 [Brucella ceti M490/95/1]
 gi|297247435|ref|ZP_06931153.1| 30S ribosomal protein S1 [Brucella abortus bv. 5 str. B3196]
 gi|306839990|ref|ZP_07472784.1| ribosomal protein S1 [Brucella sp. NF 2653]
 gi|306842680|ref|ZP_07475323.1| ribosomal protein S1 [Brucella sp. BO2]
 gi|306843627|ref|ZP_07476228.1| ribosomal protein S1 [Brucella sp. BO1]
 gi|23346797|gb|AAN28984.1| ribosomal protein S1 [Brucella suis 1330]
 gi|148371683|gb|ABQ61662.1| ribosomal protein S1 [Brucella ovis ATCC 25840]
 gi|161334828|gb|ABX61133.1| ribosomal protein S1 [Brucella canis ATCC 23365]
 gi|163673026|gb|ABY37137.1| ribosomal protein S1 [Brucella suis ATCC 23445]
 gi|225639936|gb|ACN99849.1| ribosomal protein S1 [Brucella melitensis ATCC 23457]
 gi|255998650|gb|ACU47049.1| 30S ribosomal protein S1 [Brucella microti CCM 4915]
 gi|260153124|gb|EEW88216.1| ribosomal protein S1 [Brucella melitensis bv. 1 str. 16M]
 gi|260156843|gb|EEW91923.1| ribosomal protein S1 [Brucella suis bv. 4 str. 40]
 gi|260675991|gb|EEX62812.1| ribosomal protein S1 [Brucella abortus bv. 6 str. 870]
 gi|260874435|gb|EEX81504.1| ribosomal protein S1 [Brucella abortus bv. 9 str. C68]
 gi|260916765|gb|EEX83626.1| ribosomal protein S1 [Brucella abortus bv. 3 str. Tulya]
 gi|260919841|gb|EEX86494.1| ribosomal protein S1 [Brucella ceti B1/94]
 gi|261295910|gb|EEX99406.1| ribosomal protein S1 [Brucella pinnipedialis B2/94]
 gi|261300128|gb|EEY03625.1| ribosomal protein S1 [Brucella neotomae 5K33]
 gi|261303780|gb|EEY07277.1| ribosomal protein S1 [Brucella pinnipedialis M163/99/10]
 gi|261739126|gb|EEY27122.1| ribosomal protein S1 [Brucella sp. F5/99]
 gi|261741105|gb|EEY29031.1| ribosomal protein S1 [Brucella suis bv. 5 str. 513]
 gi|261745670|gb|EEY33596.1| ribosomal protein S1 [Brucella suis bv. 3 str. 686]
 gi|262551686|gb|EEZ07676.1| ribosomal protein S1 [Brucella ceti M490/95/1]
 gi|262764955|gb|EEZ10876.1| ribosomal protein S1 [Brucella melitensis bv. 3 str. Ether]
 gi|263095403|gb|EEZ19004.1| 30S ribosomal protein S1 [Brucella melitensis bv. 2 str. 63/9]
 gi|264659954|gb|EEZ30215.1| ribosomal protein S1 [Brucella pinnipedialis M292/94/1]
 gi|264661800|gb|EEZ32061.1| ribosomal protein S1 [Brucella sp. 83/13]
 gi|297174604|gb|EFH33951.1| 30S ribosomal protein S1 [Brucella abortus bv. 5 str. B3196]
 gi|306276318|gb|EFM58018.1| ribosomal protein S1 [Brucella sp. BO1]
 gi|306287126|gb|EFM58628.1| ribosomal protein S1 [Brucella sp. BO2]
 gi|306404954|gb|EFM61239.1| ribosomal protein S1 [Brucella sp. NF 2653]
 gi|326408040|gb|ADZ65105.1| 30S ribosomal protein S1 [Brucella melitensis M28]
 gi|326537757|gb|ADZ85972.1| ribosomal protein S1 [Brucella melitensis M5-90]
          Length = 566

 Score = 38.1 bits (88), Expect = 3.7,   Method: Composition-based stats.
 Identities = 34/191 (17%), Positives = 70/191 (36%), Gaps = 29/191 (15%)

Query: 25  DVVLSVMADSIQKA------ARS---------LYGTMSDIR-VEINPETGDISLFRLLEV 68
           +V +  + +++ +A      AR           +     +  V  N   G  ++     V
Sbjct: 75  EVYVERIENALGEAVLSREKARREESWVKLEQKFANGERVDGVIFNQVKGGFTVDLDGAV 134

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                    Q+ ++  RD  P + +       +  MD  R  +  +++ ++++ R  +R 
Sbjct: 135 A---FLPRSQVDIRPIRDVTPLMHVPQP--FEILKMDKRRGNIVVSRRTVLEESRAEQRS 189

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRV 182
                 +   G+++ G VK +      VDLG  DG++   +          E L  G  V
Sbjct: 190 EIVQNLE--EGQVVEGVVKNITDYGAFVDLGGIDGLLHVTDMAWRRVNHPSEILTIGQTV 247

Query: 183 KSYIYDVRREQ 193
           K  I  + +E 
Sbjct: 248 KVQIIRINQET 258


>gi|20067683|emb|CAD29083.1| chimeric DNA-directed DNA polymerase bf4-8 [synthetic construct]
 gi|20067685|emb|CAD29084.1| chimeric DNA-directed DNA polymerase bf4-10 [synthetic construct]
          Length = 322

 Score = 38.1 bits (88), Expect = 3.7,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
            L + GIKT+EDL
Sbjct: 113 KLVDEGIKTLEDL 125


>gi|291059681|gb|ADD72416.1| bifunctional cytidylate kinase/ribosomal protein S1 [Treponema
           pallidum subsp. pallidum str. Chicago]
          Length = 829

 Score = 38.1 bits (88), Expect = 3.8,   Method: Composition-based stats.
 Identities = 23/73 (31%), Positives = 32/73 (43%), Gaps = 15/73 (20%)

Query: 139 GEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENL----RPGDRVKSYIYDVRREQ 193
           G +  GTV +V  G V VD+ G S+G       +  E      + GD V+ Y+  V    
Sbjct: 288 GSVRMGTVVQVNAGTVFVDIGGKSEG------RVPVEEFEAPPKAGDGVRVYVERV--TP 339

Query: 194 RGPQVLLSRTHPQ 206
            GP   LS+T   
Sbjct: 340 YGP--ELSKTKAD 350


>gi|291288842|ref|YP_003505658.1| hydroxymethylbutenyl pyrophosphate reductase [Denitrovibrio
           acetiphilus DSM 12809]
 gi|290886002|gb|ADD69702.1| hydroxymethylbutenyl pyrophosphate reductase [Denitrovibrio
           acetiphilus DSM 12809]
          Length = 843

 Score = 38.1 bits (88), Expect = 3.8,   Method: Composition-based stats.
 Identities = 24/93 (25%), Positives = 40/93 (43%), Gaps = 12/93 (12%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETIS-RE-NLRPGDRVKSYIYDVRREQR 194
              I+ GTV ++   +V+V++G  ++GV+   E +   E  ++ GD V      +     
Sbjct: 308 KNSIVQGTVAQINENDVLVNIGFKTEGVVPSAEFMKDGEITIKVGDEVDVLFLGIA--GG 365

Query: 195 GPQVLLSRTHPQ------FMVKLFHMEVP-EIY 220
           G  V LSR   +       + K    E P EI 
Sbjct: 366 GGYVKLSRKAIEKEADWIEVEKALEEETPVEIK 398


>gi|254586193|ref|XP_002498664.1| ZYRO0G15730p [Zygosaccharomyces rouxii]
 gi|238941558|emb|CAR29731.1| ZYRO0G15730p [Zygosaccharomyces rouxii]
          Length = 1717

 Score = 38.1 bits (88), Expect = 3.8,   Method: Composition-based stats.
 Identities = 32/107 (29%), Positives = 49/107 (45%), Gaps = 15/107 (14%)

Query: 117  VIIQKVREAERD---RQYLEFKD-KVGEIISGTVKRVEYGNVIVDLGNS---DGVIRRDE 169
             I+  +RE+E +   +    + D KVG+I +G VK V    V V L ++    G+  R E
Sbjct: 1234 RILLTLRESEVNGDLKILKGYDDIKVGDIFNGHVKNVTDFGVFVKLDDTVNLTGLAHRTE 1293

Query: 170  ------TISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVK 210
                           GDRVK+YI  V  E+R  ++ LS    +F  +
Sbjct: 1294 IADEAPQDLNSLFGVGDRVKAYITKVNAEKR--KISLSLKASRFSKE 1338


>gi|311064086|ref|YP_003970811.1| NAD-dependent DNA ligase [Bifidobacterium bifidum PRL2010]
 gi|310866405|gb|ADP35774.1| LigA NAD-dependent DNA ligase [Bifidobacterium bifidum PRL2010]
          Length = 896

 Score = 38.1 bits (88), Expect = 3.8,   Method: Composition-based stats.
 Identities = 12/43 (27%), Positives = 21/43 (48%), Gaps = 3/43 (6%)

Query: 376 LVAEGFADVEELACVKISEIASIEGFDEETAVEIQG---RARE 415
           L+A  F  +E +    + E+++I+G   E A  +      ARE
Sbjct: 746 LIASAFGSLEAIEQAGVDELSAIDGIGPEIAESVVNWFAAARE 788


>gi|268324987|emb|CBH38575.1| putative ski2-type helicase [uncultured archaeon]
          Length = 672

 Score = 38.1 bits (88), Expect = 3.8,   Method: Composition-based stats.
 Identities = 14/47 (29%), Positives = 23/47 (48%)

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
            V  IIA  L + GF + EE+A   +  +  + G   + A +I+  A
Sbjct: 621 GVGRIIARRLYSAGFRNEEEVANADLERLGGVHGVGAKRAAKIKEEA 667


>gi|224282769|ref|ZP_03646091.1| LigA [Bifidobacterium bifidum NCIMB 41171]
 gi|313139930|ref|ZP_07802123.1| LigA [Bifidobacterium bifidum NCIMB 41171]
 gi|313132440|gb|EFR50057.1| LigA [Bifidobacterium bifidum NCIMB 41171]
          Length = 900

 Score = 38.1 bits (88), Expect = 3.8,   Method: Composition-based stats.
 Identities = 12/43 (27%), Positives = 21/43 (48%), Gaps = 3/43 (6%)

Query: 376 LVAEGFADVEELACVKISEIASIEGFDEETAVEIQG---RARE 415
           L+A  F  +E +    + E+++I+G   E A  +      ARE
Sbjct: 750 LIASAFGSLEAIEQAGVDELSAIDGIGPEIAESVVNWFAAARE 792


>gi|157412745|ref|YP_001483611.1| hypothetical protein P9215_04091 [Prochlorococcus marinus str. MIT
           9215]
 gi|157387320|gb|ABV50025.1| Hypothetical protein P9215_04091 [Prochlorococcus marinus str. MIT
           9215]
          Length = 236

 Score = 38.1 bits (88), Expect = 3.8,   Method: Composition-based stats.
 Identities = 13/81 (16%), Positives = 32/81 (39%), Gaps = 6/81 (7%)

Query: 337 WTIDIITEEEDSINRQKDFNER------TQFFMQAINVDEIIAHLLVAEGFADVEELACV 390
           + +   +E    I ++    +R           +   V++  A +L   G+   E++   
Sbjct: 156 YELSTKSEAYKDIYKKLVLEKRFPDSFFRNILCELNGVNKNTASILWESGYLTKEQVLNA 215

Query: 391 KISEIASIEGFDEETAVEIQG 411
             SE+  I+G  +   ++I+ 
Sbjct: 216 PYSELIEIKGLGKSLILKIKN 236


>gi|149278739|ref|ZP_01884874.1| 30S ribosomal protein S1 [Pedobacter sp. BAL39]
 gi|149230358|gb|EDM35742.1| 30S ribosomal protein S1 [Pedobacter sp. BAL39]
          Length = 644

 Score = 38.1 bits (88), Expect = 3.8,   Method: Composition-based stats.
 Identities = 21/66 (31%), Positives = 35/66 (53%), Gaps = 3/66 (4%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
            GEIISG V  +   +V++++G  SDG++   E     +L+ GD V  ++          
Sbjct: 87  QGEIISGIVVSINNKDVVLNVGFKSDGLVSTSEFRDTPDLKIGDTVDVFVEAPEDANG-- 144

Query: 197 QVLLSR 202
           Q++LSR
Sbjct: 145 QLILSR 150



 Score = 37.4 bits (86), Expect = 6.7,   Method: Composition-based stats.
 Identities = 26/130 (20%), Positives = 58/130 (44%), Gaps = 10/130 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +K  RD D  + +G  +   +  ++     V  + +++I+   E+++   
Sbjct: 192 EAFLPGSQIDIKPIRDYD--VYVGKTMEFKVVKINHEFKNVVVSHKILIEDDLESQKVEI 249

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
             + +   G+++ GTVK +    V +DLG  DG++   +         +E L   +++  
Sbjct: 250 VSKLE--KGQVLEGTVKNITDFGVFIDLGGVDGLLHITDISWGRIEHPKEVLSLDEKINV 307

Query: 185 YIYDVRREQR 194
            + D   E++
Sbjct: 308 VVLDFDDEKK 317


>gi|85708921|ref|ZP_01039987.1| 30S ribosomal protein S1 [Erythrobacter sp. NAP1]
 gi|85690455|gb|EAQ30458.1| 30S ribosomal protein S1 [Erythrobacter sp. NAP1]
          Length = 569

 Score = 38.1 bits (88), Expect = 3.8,   Method: Composition-based stats.
 Identities = 26/125 (20%), Positives = 51/125 (40%), Gaps = 10/125 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ ++  RD  P +++       +  MD  R  +  +++ ++++ R  +R     + 
Sbjct: 141 PGSQVDIRPVRDVTPLMEVPQP--FQILKMDRRRGNIVVSRRAVLEETRAEQRSELIDKL 198

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
               G++I G VK +      VDLG  DG++   +          E +  GD V   I  
Sbjct: 199 A--EGQVIDGVVKNITDYGAFVDLGGIDGLLHVTDMSYKRVNHPSEVIAIGDTVTVQIVR 256

Query: 189 VRREQ 193
           +  E 
Sbjct: 257 INAET 261


>gi|254525398|ref|ZP_05137450.1| conserved hypothetical protein [Prochlorococcus marinus str. MIT
           9202]
 gi|221536822|gb|EEE39275.1| conserved hypothetical protein [Prochlorococcus marinus str. MIT
           9202]
          Length = 236

 Score = 38.1 bits (88), Expect = 3.8,   Method: Composition-based stats.
 Identities = 13/81 (16%), Positives = 32/81 (39%), Gaps = 6/81 (7%)

Query: 337 WTIDIITEEEDSINRQKDFNER------TQFFMQAINVDEIIAHLLVAEGFADVEELACV 390
           + +   +E    I ++    +R           +   V++  A +L   G+   E++   
Sbjct: 156 YELGTKSEAYKDIYKKLVLEKRFPDSFFRNILCELNGVNKNTASILWESGYLTKEQVLNA 215

Query: 391 KISEIASIEGFDEETAVEIQG 411
             SE+  I+G  +   ++I+ 
Sbjct: 216 PYSELIEIKGLGKSLILKIKN 236


>gi|114619952|ref|XP_001143667.1| PREDICTED: polymerase (DNA directed), beta isoform 1 [Pan
           troglodytes]
          Length = 306

 Score = 38.1 bits (88), Expect = 3.8,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVSGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
              + GIKT+EDL
Sbjct: 113 KFVDEGIKTLEDL 125


>gi|83859038|ref|ZP_00952559.1| Glycosyl hydrolase, BNR repeat [Oceanicaulis alexandrii HTCC2633]
 gi|83852485|gb|EAP90338.1| Glycosyl hydrolase, BNR repeat [Oceanicaulis alexandrii HTCC2633]
          Length = 1403

 Score = 38.1 bits (88), Expect = 3.8,   Method: Composition-based stats.
 Identities = 37/215 (17%), Positives = 75/215 (34%), Gaps = 44/215 (20%)

Query: 336  GWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEI 395
            GW +     E  S     D   +       I +D      LV   F +V + A V+++  
Sbjct: 1002 GWRV-----ESISCAGDLDGGSQVDLATGTIQIDLDPEENLVCT-FENVRDEAAVQLATQ 1055

Query: 396  ASIEGFDEETAVEIQGRAREYLEGI-----------DITLQKKIRELGVSEELC------ 438
             +I  F    A  +   A +    +              + +    + ++  L       
Sbjct: 1056 RAIRNFMLRRADRLIDAAPDLSTRLSARESMGAGQYAANVDQGRYTMSLTASLAGARNQA 1115

Query: 439  -----SIPGIDSKIKVALGENGIKTMEDLAGCSVD---DLLGWSENKGGNIEKFDGFLSS 490
                   PG+ S +            +D+    V    +L G S+N+ G   + D  ++ 
Sbjct: 1116 KARHSDAPGMPSSM-----------RDDVGRLDVWLSAELSGVSDNRAGERAESDFGVAQ 1164

Query: 491  LGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
            LG      +++++ A  +M W+++   A E  ++A
Sbjct: 1165 LGLDWAVSDALLVGAMVQMDWMDET--AQEVFEEA 1197


>gi|300871842|ref|YP_003786715.1| 30S ribosomal protein S1 [Brachyspira pilosicoli 95/1000]
 gi|300689543|gb|ADK32214.1| 30S ribosomal protein S1 [Brachyspira pilosicoli 95/1000]
          Length = 556

 Score = 38.1 bits (88), Expect = 3.9,   Method: Composition-based stats.
 Identities = 21/119 (17%), Positives = 41/119 (34%), Gaps = 10/119 (8%)

Query: 86  DRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD--KVGEIIS 143
           D    I     +          R   +    V  + ++E  +++   E+    K G+I+ 
Sbjct: 140 DISRGIKEADYIGKEFQFKIIDRKGNKDIV-VSRRVLQEETQNKVIEEYLSNLKEGDIVE 198

Query: 144 GTVKRVEYGNVIVDL-GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRG 195
           G VK +E     + L    DG +             +  +  G+  K  +  V +E+R 
Sbjct: 199 GKVKNIEKFGAFIQLTEGLDGFLAIPNMSWAKIINPKNIITKGEERKFQVLSVDKEKRK 257


>gi|296815918|ref|XP_002848296.1| DNA repair protein RAD51 [Arthroderma otae CBS 113480]
 gi|238841321|gb|EEQ30983.1| DNA repair protein RAD51 [Arthroderma otae CBS 113480]
          Length = 350

 Score = 38.1 bits (88), Expect = 3.9,   Method: Composition-based stats.
 Identities = 19/80 (23%), Positives = 29/80 (36%), Gaps = 8/80 (10%)

Query: 342 ITEEEDSINRQKDFNERT-----QFFMQAINVDEIIA---HLLVAEGFADVEELACVKIS 393
           +T EE S    ++ N                V  + A    L+   GF  VE +A     
Sbjct: 1   MTAEEASQAELEEENGLPGPGAPTPLSALEGVGGLTARDIKLITDGGFHTVEAVAYTPKR 60

Query: 394 EIASIEGFDEETAVEIQGRA 413
            +  I+G  E+ A +I   A
Sbjct: 61  VLEQIKGISEQKATKILTEA 80


>gi|254475708|ref|ZP_05089094.1| hypothetical protein RR11_1546 [Ruegeria sp. R11]
 gi|214029951|gb|EEB70786.1| hypothetical protein RR11_1546 [Ruegeria sp. R11]
          Length = 194

 Score = 38.1 bits (88), Expect = 3.9,   Method: Composition-based stats.
 Identities = 13/50 (26%), Positives = 20/50 (40%)

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
            V   +A +L A G   VE +A  K   +  I       A ++   AR+ 
Sbjct: 9   GVGPSLAEVLQANGLPSVEAVAAAKPDTLMQIPRIGRLRATKLIAEARKV 58


>gi|220908724|ref|YP_002484035.1| hypothetical protein Cyan7425_3349 [Cyanothece sp. PCC 7425]
 gi|219865335|gb|ACL45674.1| conserved hypothetical protein [Cyanothece sp. PCC 7425]
          Length = 512

 Score = 38.1 bits (88), Expect = 3.9,   Method: Composition-based stats.
 Identities = 12/48 (25%), Positives = 22/48 (45%)

Query: 375 LLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           +L       VE LA +   ++ ++ GF  + A ++  +AR  L    I
Sbjct: 235 VLQQHRLTTVEALASIAPQQLEALPGFGRDVAEKLVRQARSTLHNHAI 282


>gi|167586532|ref|ZP_02378920.1| 30S ribosomal protein S1 [Burkholderia ubonensis Bu]
          Length = 570

 Score = 38.1 bits (88), Expect = 3.9,   Method: Composition-based stats.
 Identities = 23/71 (32%), Positives = 36/71 (50%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G I+ G VK V+  G VI   G+ +G +R  E         R  L+ GD+V + + ++ 
Sbjct: 459 KGSIVDGVVKSVDAKGAVITLTGDIEGYLRASEISQDRVEDARNVLKEGDKVNAMVINID 518

Query: 191 REQRGPQVLLS 201
           R+ RG  + LS
Sbjct: 519 RKSRG--INLS 527



 Score = 37.4 bits (86), Expect = 6.8,   Method: Composition-based stats.
 Identities = 27/114 (23%), Positives = 47/114 (41%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +D +   G  +   +  +D  R  V  +++ +I+  +  ER +     K   G I++G V
Sbjct: 151 KDTTPYEGKTLEFRVIKLDRKRNNVVLSRRAVIEATQGEERAKLLETLK--EGAIVNGVV 208

Query: 147 KRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++       R      E L  G  V + I    +E+ 
Sbjct: 209 KNITDYGAFVDLGGIDGLLHITDIAWRRVRHPSEVLSVGQEVTAKILKFDQEKN 262


>gi|74316974|ref|YP_314714.1| 30S ribosomal protein S1 [Thiobacillus denitrificans ATCC 25259]
 gi|74056469|gb|AAZ96909.1| ribosomal protein S1 [Thiobacillus denitrificans ATCC 25259]
          Length = 573

 Score = 38.1 bits (88), Expect = 3.9,   Method: Composition-based stats.
 Identities = 21/105 (20%), Positives = 43/105 (40%), Gaps = 8/105 (7%)

Query: 96  VVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI 155
            +   +  +D  R  V  +++ ++++   A+R+      K   G I+ G VK +      
Sbjct: 162 EMEFKVIKLDRKRNNVVVSRRAVLEETMGADREALMESLK--EGSIVKGVVKNITDYGAF 219

Query: 156 VDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           VDLG  DG++   +          E +  G  +++ I     E+ 
Sbjct: 220 VDLGGIDGLLHITDMAWRRVKHPTEVVHVGQELEAKILRYDTEKN 264


>gi|86138472|ref|ZP_01057046.1| hypothetical protein MED193_05191 [Roseobacter sp. MED193]
 gi|85824997|gb|EAQ45198.1| hypothetical protein MED193_05191 [Roseobacter sp. MED193]
          Length = 240

 Score = 38.1 bits (88), Expect = 3.9,   Method: Composition-based stats.
 Identities = 11/47 (23%), Positives = 20/47 (42%)

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
            V   +A  L   G   VE +A   + ++ +I G     A+ ++  A
Sbjct: 9   GVGPALAKTLKDHGLLTVEAVAAAPLEDLKAIPGIGAARAMRLKQAA 55


>gi|289192763|ref|YP_003458704.1| DNA repair and recombination protein RadA [Methanocaldococcus sp.
           FS406-22]
 gi|288939213|gb|ADC69968.1| DNA repair and recombination protein RadA [Methanocaldococcus sp.
           FS406-22]
          Length = 324

 Score = 38.1 bits (88), Expect = 3.9,   Method: Composition-based stats.
 Identities = 11/48 (22%), Positives = 16/48 (33%)

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
                    Q   V    A  L   G+ D  ++A   I E+  I+G  
Sbjct: 1   MVIIMDDLTQLPGVGPTTAEKLKEAGYTDFMKIATASIGELTEIDGIS 48


>gi|218884526|ref|YP_002428908.1| DNA repair and recombination protein RadA [Desulfurococcus
           kamchatkensis 1221n]
 gi|254764424|sp|B8D610|RADA_DESK1 RecName: Full=DNA repair and recombination protein radA
 gi|218766142|gb|ACL11541.1| DNA repair and recombination protein radA [Desulfurococcus
           kamchatkensis 1221n]
          Length = 328

 Score = 38.1 bits (88), Expect = 3.9,   Method: Composition-based stats.
 Identities = 17/76 (22%), Positives = 30/76 (39%), Gaps = 3/76 (3%)

Query: 342 ITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
           ++EE+++I  +       +       V   IA  L A G+     +   +  E+A   G 
Sbjct: 1   MSEEKETIKERSSGFISVR---DIPGVGSSIADKLEAAGYLSAWSIVVARAEELAERTGL 57

Query: 402 DEETAVEIQGRAREYL 417
              T  +I   AR+ L
Sbjct: 58  PVLTVQKIIENARKML 73


>gi|160945617|ref|ZP_02092843.1| hypothetical protein FAEPRAM212_03146 [Faecalibacterium prausnitzii
           M21/2]
 gi|158443348|gb|EDP20353.1| hypothetical protein FAEPRAM212_03146 [Faecalibacterium prausnitzii
           M21/2]
          Length = 636

 Score = 38.1 bits (88), Expect = 3.9,   Method: Composition-based stats.
 Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 6/62 (9%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           VG+  +G VK +      VD+G  DG+    E          E +  GD ++ Y+ D+  
Sbjct: 473 VGKTYTGVVKSLTSYGAFVDIGGVDGLCHISELSWNRIKHPSEVVSVGDTIEVYVKDIDT 532

Query: 192 EQ 193
           E 
Sbjct: 533 EN 534


>gi|13878702|sp|Q9Y8J4|RADA_DESAM RecName: Full=DNA repair and recombination protein radA
 gi|4929344|gb|AAD33955.1|AF145465_1 recombination/repair protein RadA [Desulfurococcus amylolyticus]
          Length = 328

 Score = 38.1 bits (88), Expect = 3.9,   Method: Composition-based stats.
 Identities = 17/76 (22%), Positives = 30/76 (39%), Gaps = 3/76 (3%)

Query: 342 ITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGF 401
           ++EE+++I  +       +       V   IA  L A G+     +   +  E+A   G 
Sbjct: 1   MSEEKETIKERSSGFISVR---DIPGVGSSIADKLEAAGYLSAWSIVVARAEELAERTGL 57

Query: 402 DEETAVEIQGRAREYL 417
              T  +I   AR+ L
Sbjct: 58  PVLTVQKIIENARKML 73


>gi|295427761|ref|ZP_06820393.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus EMRSA16]
 gi|295128119|gb|EFG57753.1| polyribonucleotide nucleotidyltransferase [Staphylococcus aureus
           subsp. aureus EMRSA16]
          Length = 638

 Score = 38.1 bits (88), Expect = 3.9,   Method: Composition-based stats.
 Identities = 29/183 (15%), Positives = 67/183 (36%), Gaps = 20/183 (10%)

Query: 21  SIDRDVVLSVMADSIQKAARS-LYGTMSDIRVEINPETGDISLFRLLEVVEEVE-NYTCQ 78
            + R+++   +  +     R      M+ +   I+    ++S +    V   ++ +    
Sbjct: 457 GLTREIIEEALEQA-----RRGRLEIMNHMLQTIDQPRTELSAYAPKVVTMTIKPDKIRD 511

Query: 79  ISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           +     +  +   +I       L     G + + +  Q +I + RE   +        +V
Sbjct: 512 VIGPGGKKIN---EIIDETGVKLDIEQDGTIFIGAVDQAMINRAREIIEEITRE---AEV 565

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISR-------ENLRPGDRVKSYIYDVRR 191
           G+    TVKR+E     V L      +     IS+       + L+ GD ++  I ++ +
Sbjct: 566 GQTYQATVKRIEKYGAFVGLFPGKDALLHISQISKNRIEKVEDVLKIGDTIEVKITEIDK 625

Query: 192 EQR 194
           + R
Sbjct: 626 QGR 628


>gi|322417835|ref|YP_004197058.1| PHP domain-containing protein [Geobacter sp. M18]
 gi|320124222|gb|ADW11782.1| PHP domain protein [Geobacter sp. M18]
          Length = 576

 Score = 38.1 bits (88), Expect = 3.9,   Method: Composition-based stats.
 Identities = 22/104 (21%), Positives = 45/104 (43%), Gaps = 8/104 (7%)

Query: 385 EELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSE--ELCSIPG 442
            +LA +   E+  I G   + A     R  EYL+   +   +++++   +    L S+P 
Sbjct: 42  RDLAQMSHKELLEIPGVGADLA----ARIEEYLQTGTMAYYEQLKQEVPAGVFALLSVPD 97

Query: 443 IDSKIKVALGEN-GIKTMEDLAGCSVD-DLLGWSENKGGNIEKF 484
           +  K   A+ E   + ++E+L   +++  L+G    K    E  
Sbjct: 98  LGPKTAKAIYEALQVTSLEELEKAALEHRLIGIKGIKEKTEENI 141


>gi|153854638|ref|ZP_01995888.1| hypothetical protein DORLON_01883 [Dorea longicatena DSM 13814]
 gi|149752742|gb|EDM62673.1| hypothetical protein DORLON_01883 [Dorea longicatena DSM 13814]
          Length = 269

 Score = 38.1 bits (88), Expect = 3.9,   Method: Composition-based stats.
 Identities = 24/120 (20%), Positives = 48/120 (40%), Gaps = 14/120 (11%)

Query: 89  PSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKR 148
            +  +  +    +   +     V SA++++ +K R+    +       KVG I++GTV+ 
Sbjct: 119 ETYLLKDIEVKVIDVDEANNRLVLSAREILQEKARKEREAKIA---AVKVGSIVTGTVES 175

Query: 149 VEYGNVIVDLGNSDGVIRRDETI-------SRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           ++     VDLG+    +     I         + L  GD V   I  ++      ++ LS
Sbjct: 176 LQNYGAFVDLGDGLSGLVHISQISLKRIKSPADVLNVGDEVTVKIIGIKDG----KISLS 231


>gi|85860568|ref|YP_462770.1| DNA polymerase IV [Syntrophus aciditrophicus SB]
 gi|85723659|gb|ABC78602.1| DNA polymerase IV [Syntrophus aciditrophicus SB]
          Length = 584

 Score = 38.1 bits (88), Expect = 3.9,   Method: Composition-based stats.
 Identities = 16/83 (19%), Positives = 34/83 (40%), Gaps = 8/83 (9%)

Query: 390 VKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVS--EELCSIPGIDSKI 447
            +  ++ ++ G  E  A ++    R       +   + +R+        L  IPGI  K 
Sbjct: 53  AEGEDLKALPGIGEAIASKMAELVR----TGHLVAWETLRDSLPEGLSTLLEIPGIGPKT 108

Query: 448 KVALG-ENGIKTMEDLAGCSVDD 469
              L  E GI ++++L   ++ +
Sbjct: 109 AYRLATELGISSVDEL-EQAILE 130


>gi|20067679|emb|CAD29081.1| chimeric DNA-directed DNA polymerase bf4-4 [synthetic construct]
          Length = 324

 Score = 38.1 bits (88), Expect = 3.9,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
            L + GIKT+EDL
Sbjct: 113 KLVDEGIKTLEDL 125


>gi|20067689|emb|CAD29086.1| chimeric DNA-directed DNA polymerase bf4-12 [synthetic construct]
          Length = 318

 Score = 38.1 bits (88), Expect = 3.9,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
            L + GIKT+EDL
Sbjct: 113 KLVDEGIKTLEDL 125


>gi|270290149|ref|ZP_06196375.1| DNA ligase, NAD-dependent [Pediococcus acidilactici 7_4]
 gi|270281686|gb|EFA27518.1| DNA ligase, NAD-dependent [Pediococcus acidilactici 7_4]
          Length = 675

 Score = 38.1 bits (88), Expect = 4.0,   Method: Composition-based stats.
 Identities = 19/109 (17%), Positives = 44/109 (40%), Gaps = 12/109 (11%)

Query: 363 MQAINVDEIIAHLLVAEGF-ADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           M  + +       L A+GF    ++L  +   +++ ++GF E+    +     E ++   
Sbjct: 453 MNIMGLGPKQIQQLYAKGFIHHFDDLYKLTADQLSQLDGFKEKRVNNLL----EAIDRSR 508

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
               +++           I G+ +K+   L E    +M+ L   SV++ 
Sbjct: 509 QNSLERLVNG------LGIQGVGTKMARTLAEA-FGSMDRLMEASVEEF 550


>gi|73979125|ref|XP_532790.2| PREDICTED: similar to polymerase (DNA directed), beta isoform 1
           [Canis familiaris]
          Length = 335

 Score = 38.1 bits (88), Expect = 4.0,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVSGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
              + GIKT+EDL
Sbjct: 113 KFVDEGIKTLEDL 125


>gi|71894584|ref|YP_278692.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma synoviae 53]
 gi|123747931|sp|Q4A5J0|RPOA_MYCS5 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP
           subunit alpha; AltName: Full=RNA polymerase subunit
           alpha; AltName: Full=Transcriptase subunit alpha
 gi|71851372|gb|AAZ43981.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma synoviae 53]
          Length = 333

 Score = 38.1 bits (88), Expect = 4.0,   Method: Composition-based stats.
 Identities = 20/100 (20%), Positives = 39/100 (39%), Gaps = 15/100 (15%)

Query: 328 VRLASQ-----------LTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLL 376
           ++LA +           LT    D I + E     +++ +   +     +N+     + L
Sbjct: 233 IKLACKILVAHFQTIGDLTDLDSDEIFQSEKQSLEKEEDDMEIRL----LNLSMRSQNAL 288

Query: 377 VAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREY 416
              G   + ELA   I ++  I+   E++  EI  +  EY
Sbjct: 289 AKSGIKTLNELASYPIEKLKEIKNLGEKSREEIIRKLNEY 328


>gi|302336390|ref|YP_003801597.1| DNA-directed RNA polymerase subunit beta' [Olsenella uli DSM 7084]
 gi|301320230|gb|ADK68717.1| DNA-directed RNA polymerase subunit beta' [Olsenella uli DSM 7084]
          Length = 1476

 Score = 38.1 bits (88), Expect = 4.0,   Method: Composition-based stats.
 Identities = 27/144 (18%), Positives = 49/144 (34%), Gaps = 20/144 (13%)

Query: 364  QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG--RAREYLEGID 421
              + V +   +     G   V +L      ++  I+G   +   E++    AR  L  ++
Sbjct: 1335 DDLGVSQRWTNKFSEVGIETVGDLIGKTEDDLLRIDGIGAKAIEELRDGLEARNLLYILE 1394

Query: 422  ITLQKKIRELGVSEELCSIPGI------DSKIKVALGENGIKTMEDLAGCSVDDLLGWSE 475
                +       SE+L  +  +      DS I +          +D       +L+G S 
Sbjct: 1395 PDDDEA-----DSEDLSQLLNMVFSPDADSDIMLGTAAPAKHNFDD-------ELIGGSS 1442

Query: 476  NKGGNIEKFDGFLSSLGTPKDQVE 499
               G+    +  L SL     QVE
Sbjct: 1443 EGDGDSSVINEDLGSLHDLLSQVE 1466


>gi|330815897|ref|YP_004359602.1| 30S ribosomal protein S1 [Burkholderia gladioli BSR3]
 gi|327368290|gb|AEA59646.1| 30S ribosomal protein S1 [Burkholderia gladioli BSR3]
          Length = 576

 Score = 38.1 bits (88), Expect = 4.0,   Method: Composition-based stats.
 Identities = 22/71 (30%), Positives = 36/71 (50%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G I+ G VK V+    +V L G+ +G +R  E         R  L+ GD+V + + ++ 
Sbjct: 465 KGSIVDGVVKTVDAKGAVVTLTGDVEGYLRASEISQDRVEDARNVLKEGDKVNAMVINID 524

Query: 191 REQRGPQVLLS 201
           R+ RG  + LS
Sbjct: 525 RKSRG--INLS 533



 Score = 37.4 bits (86), Expect = 5.6,   Method: Composition-based stats.
 Identities = 27/114 (23%), Positives = 47/114 (41%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +D +   G  +   +  +D  R  V  +++ +I+  +  ER +     K   G I++G V
Sbjct: 157 KDTTPYEGKTLEFRVIKLDRKRNNVVLSRRAVIEATQGEERAKLLETLK--EGAIVNGVV 214

Query: 147 KRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++       R      E L  G  V + I    +E+ 
Sbjct: 215 KNITDYGAFVDLGGIDGLLHITDIAWRRVRHPSEVLSVGQEVTAKILKFDQEKN 268


>gi|257387054|ref|YP_003176827.1| poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit
           [Halomicrobium mukohataei DSM 12286]
 gi|257169361|gb|ACV47120.1| poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit
           [Halomicrobium mukohataei DSM 12286]
          Length = 464

 Score = 38.1 bits (88), Expect = 4.0,   Method: Composition-based stats.
 Identities = 19/83 (22%), Positives = 36/83 (43%), Gaps = 2/83 (2%)

Query: 402 DEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMED 461
           DE   ++++  A +  E  D   +        + ++ S+ GI       L E GI+T++D
Sbjct: 380 DEAVPIDVESPADDAAESDD--GEAAHESAADAPDVASVDGIGPTYADRLREAGIETVDD 437

Query: 462 LAGCSVDDLLGWSENKGGNIEKF 484
           LAG    +L   +E     +  +
Sbjct: 438 LAGHDAAELAEIAETTESRVRDW 460


>gi|188585101|ref|YP_001916646.1| DNA ligase, NAD-dependent [Natranaerobius thermophilus JW/NM-WN-LF]
 gi|254781378|sp|B2A5W5|DNLJ_NATTJ RecName: Full=DNA ligase; AltName: Full=Polydeoxyribonucleotide
           synthase [NAD+]
 gi|179349788|gb|ACB84058.1| DNA ligase, NAD-dependent [Natranaerobius thermophilus JW/NM-WN-LF]
          Length = 663

 Score = 38.1 bits (88), Expect = 4.1,   Method: Composition-based stats.
 Identities = 12/54 (22%), Positives = 27/54 (50%), Gaps = 1/54 (1%)

Query: 363 MQAINVDEIIAHLLVAEG-FADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           M    + E +   L + G   DV ++  +  +E++++EGF +++A  +     E
Sbjct: 444 MDIEGLGEKVVEKLYSHGLIKDVADIYYLAKNELSNLEGFGDKSAENLLQAIEE 497


>gi|149072030|ref|YP_001293601.1| RNA polymerase alpha subunit [Rhodomonas salina]
 gi|172048721|sp|A6MW22|RPOA_RHDSA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP;
           AltName: Full=Plastid-encoded RNA polymerase subunit
           alpha; Short=RNA polymerase subunit alpha
 gi|134302981|gb|ABO70785.1| RNA polymerase alpha subunit [Rhodomonas salina]
          Length = 314

 Score = 38.1 bits (88), Expect = 4.1,   Method: Composition-based stats.
 Identities = 13/80 (16%), Positives = 36/80 (45%), Gaps = 3/80 (3%)

Query: 338 TIDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIAS 397
            I+  ++EED++    + ++  Q  ++ + +     + L       V +L      ++  
Sbjct: 225 EINFKSDEEDTV---AEDSKINQILIEELQLSVRAYNCLKRAQIHSVADLLDYSQEDLIE 281

Query: 398 IEGFDEETAVEIQGRAREYL 417
           I+ F +++A E+    ++ L
Sbjct: 282 IKNFGQKSAEEVIDALQKRL 301


>gi|57641267|ref|YP_183745.1| RNA helicase Ski2-like protein [Thermococcus kodakarensis KOD1]
 gi|68052052|sp|Q5JGV6|HELS_PYRKO RecName: Full=Putative ski2-type helicase; Contains: RecName:
            Full=Endonuclease PI-PkoHel; AltName: Full=Pko Hel intein
 gi|57159591|dbj|BAD85521.1| RNA helicase Ski2 homolog [Thermococcus kodakarensis KOD1]
          Length = 1125

 Score = 38.1 bits (88), Expect = 4.1,   Method: Composition-based stats.
 Identities = 11/48 (22%), Positives = 20/48 (41%)

Query: 362  FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEI 409
             ++  N+    A  L   GF  VE++   K  ++  +EG   +    I
Sbjct: 1050 LVKLPNIGRRRARALYNAGFRSVEDILRAKPKDLLQVEGIGLKIIEGI 1097


>gi|332828388|gb|EGK01097.1| hypothetical protein HMPREF9455_02619 [Dysgonomonas gadei ATCC
           BAA-286]
          Length = 601

 Score = 38.1 bits (88), Expect = 4.1,   Method: Composition-based stats.
 Identities = 24/74 (32%), Positives = 43/74 (58%), Gaps = 5/74 (6%)

Query: 131 YLEFKDKVG--EIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIY 187
           Y +  +KV   E++ G V  +    V+V++G  SDGV+  +E     +L+ GD V+ YI 
Sbjct: 37  YDQSLNKVNDKEVVMGKVTAMNKREVVVNIGYKSDGVVSMNEFRYNPDLKIGDEVEVYIE 96

Query: 188 DVRREQRGPQVLLS 201
             + +++G Q++LS
Sbjct: 97  S-QEDKKG-QLILS 108


>gi|328462395|gb|EGF34445.1| 30S ribosomal protein S1 [Lactobacillus rhamnosus MTCC 5462]
          Length = 121

 Score = 38.1 bits (88), Expect = 4.1,   Method: Composition-based stats.
 Identities = 17/69 (24%), Positives = 32/69 (46%), Gaps = 8/69 (11%)

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRRE 192
           G+++ G V R+      VDLG  DG++   E          + L+ G  +K  + +V  +
Sbjct: 30  GDVVEGKVARLTNFGAFVDLGGVDGLVHVSEISFDHVDKPSDVLKVGQEIKVKVLNVDPD 89

Query: 193 QRGPQVLLS 201
           +   ++ LS
Sbjct: 90  RN--RISLS 96


>gi|251795508|ref|YP_003010239.1| hypothetical protein Pjdr2_1478 [Paenibacillus sp. JDR-2]
 gi|247543134|gb|ACT00153.1| hypothetical protein Pjdr2_1478 [Paenibacillus sp. JDR-2]
          Length = 736

 Score = 38.1 bits (88), Expect = 4.1,   Method: Composition-based stats.
 Identities = 32/167 (19%), Positives = 70/167 (41%), Gaps = 19/167 (11%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIA----HLLVAEGFAD------VEELACVKISEI- 395
           +S +   + N+  Q F Q   ++E +       L    + +      VE+   + ++ + 
Sbjct: 449 ESRSELNELNDSKQKFSQ---IEEDLIYDCVQRLEDATYRERHAKEAVEKELHIHLNGLF 505

Query: 396 ASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENG 455
                 D E   E+ G+   +       L+++I +  +S+E   IP ID ++K  L  NG
Sbjct: 506 GERRNIDHEEKTELSGKLASF---QKTWLEEQIIKHKISQE--KIPEIDDEMKRLLRTNG 560

Query: 456 IKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVESMI 502
           I+T  D    +++   G  +     +   +G    +G  + Q ++++
Sbjct: 561 IRTPADFMDITINQSYGRKQIDRAYLILKNGGSVHVGMSRSQAKALV 607


>gi|114799965|ref|YP_759538.1| hypothetical protein HNE_0811 [Hyphomonas neptunium ATCC 15444]
 gi|114740139|gb|ABI78264.1| hypothetical protein HNE_0811 [Hyphomonas neptunium ATCC 15444]
          Length = 652

 Score = 38.1 bits (88), Expect = 4.1,   Method: Composition-based stats.
 Identities = 25/128 (19%), Positives = 43/128 (33%), Gaps = 22/128 (17%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDI 422
           + A ++    A  L   G   V +L      E A + G    T         + +E   +
Sbjct: 524 VDAPSIGPKTAAHLARAGIETVGDLIICDPDETAELLGVRHITV--------DAVETWQM 575

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCS---VDDL-LGWSENKG 478
                      +  +  +PG+       L   GI + EDLA  S   V +L + + +   
Sbjct: 576 Q----------ATLMIEVPGLRVHDAQLLVGAGISSREDLASASAATVFELAMEFLQTSA 625

Query: 479 GNIEKFDG 486
           G+     G
Sbjct: 626 GSRVLRPG 633


>gi|85859093|ref|YP_461295.1| 30S ribosomal protein S1P [Syntrophus aciditrophicus SB]
 gi|85722184|gb|ABC77127.1| SSU ribosomal protein S1P [Syntrophus aciditrophicus SB]
          Length = 586

 Score = 38.1 bits (88), Expect = 4.1,   Method: Composition-based stats.
 Identities = 20/94 (21%), Positives = 44/94 (46%), Gaps = 13/94 (13%)

Query: 119 IQKVREAERDRQYLEFKDK------VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI 171
            Q+ + +E    + E  ++      +GE+++G + ++    V+VD+G  ++G I   E  
Sbjct: 21  NQQNQNSEDMMGFKELYEQSLQSVHLGELVTGKIVQINSDMVMVDVGWKTEGYIPAKELR 80

Query: 172 SRE---NLRPGDRVKSYIYDVRREQRGPQVLLSR 202
             E    +  GD ++  +    +E     ++LSR
Sbjct: 81  DEEGNIAVNVGDEIEVMVERRDQEGN---LVLSR 111



 Score = 37.0 bits (85), Expect = 7.8,   Method: Composition-based stats.
 Identities = 25/125 (20%), Positives = 51/125 (40%), Gaps = 10/125 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ ++  RD D  +  G  +   +   D  R  V  +++ I+++ RE E+       
Sbjct: 156 PGSQVDIRPVRDLDKYV--GQTLMFDVLKYDRKRNNVVLSRRSILEQEREVEKQETLANI 213

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
               G ++ G +K +    + +DLG  DG++   +          E    GD++   +  
Sbjct: 214 S--EGVVVEGIIKNITDYGLFIDLGGIDGLLHVTDISWGRITKPSEAFNRGDKITVKVLS 271

Query: 189 VRREQ 193
             RE+
Sbjct: 272 FDREK 276


>gi|300709641|ref|YP_003735455.1| DNA repair and recombination protein RadA [Halalkalicoccus jeotgali
           B3]
 gi|299123324|gb|ADJ13663.1| DNA repair and recombination protein RadA [Halalkalicoccus jeotgali
           B3]
          Length = 344

 Score = 37.7 bits (87), Expect = 4.1,   Method: Composition-based stats.
 Identities = 12/57 (21%), Positives = 21/57 (36%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
                 V    A  L+  G+     LA    +E+++     E +A +I   AR   +
Sbjct: 7   LEDLPGVGPATAEKLLDNGYDTYTSLAVASPAELSNTADVGESSAGDIIRAARNAAD 63


>gi|315426193|dbj|BAJ47837.1| DNA repair protein RadA [Candidatus Caldiarchaeum subterraneum]
          Length = 316

 Score = 37.7 bits (87), Expect = 4.2,   Method: Composition-based stats.
 Identities = 25/136 (18%), Positives = 49/136 (36%), Gaps = 11/136 (8%)

Query: 365 AINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL 424
              V +     L + G   V +LA     E+  + G   E A E+  +AR  L       
Sbjct: 2   IEGVGKATEEKLNSAGITSVLDLAAATPRELVEL-GISAEKAEELCLKARLLLIESGFLD 60

Query: 425 QKKIRELGVSEELCSIPGIDSK--IKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIE 482
           ++ +    V E   ++  + +      A+   G++T       ++ +L+G  E   G  +
Sbjct: 61  KEFVPATEVLERRKAMQRLTTGSRALDAMLGGGVET------QAITELIG--EFGSGKTQ 112

Query: 483 KFDGFLSSLGTPKDQV 498
                      P++Q 
Sbjct: 113 VCHTLCVMAQLPREQG 128


>gi|294676675|ref|YP_003577290.1| 30S ribosomal protein S1 [Rhodobacter capsulatus SB 1003]
 gi|294475495|gb|ADE84883.1| 30S ribosomal protein S1 [Rhodobacter capsulatus SB 1003]
          Length = 559

 Score = 37.7 bits (87), Expect = 4.2,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 42/101 (41%), Gaps = 8/101 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD  R  +  +++ I+++ R  +R           G+I+ G VK +      VDL
Sbjct: 159 FQILKMDRRRGNIVVSRRAILEESRAEQRAEVIGNLT--EGQIVDGVVKNITEYGAFVDL 216

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   +          E L  G+ VK  +  + ++ 
Sbjct: 217 GGVDGLLHVTDMAWRRVNHPSEILTIGETVKVQVVKINKDT 257


>gi|260584718|ref|ZP_05852464.1| polyribonucleotide nucleotidyltransferase [Granulicatella elegans
           ATCC 700633]
 gi|260157741|gb|EEW92811.1| polyribonucleotide nucleotidyltransferase [Granulicatella elegans
           ATCC 700633]
          Length = 701

 Score = 37.7 bits (87), Expect = 4.2,   Method: Composition-based stats.
 Identities = 27/137 (19%), Positives = 50/137 (36%), Gaps = 28/137 (20%)

Query: 87  RDPSIDIGGVVSD-PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGT 145
            D +     +  +  +         +Q AK++I    RE E  + Y            GT
Sbjct: 584 IDETGVKIDIDQEGHVSIASTDAAMIQRAKEIIEDLTREIEVGQVYE-----------GT 632

Query: 146 VKRVEYGNVIVDLGNSDGVI-----RRDETISR--ENLRPGDRVKSYIYDVRREQRGPQV 198
           V+R+E     V++      +        E +++  + L  GD+VK  + ++  + R   +
Sbjct: 633 VRRIEKFGAFVEIAKGKDGLVHISELAHERVAKVEDVLAIGDKVKVKVTEIDGQGR---I 689

Query: 199 LLSRTHPQFMVKLFHME 215
            LSR        L   E
Sbjct: 690 NLSR------KALIEKE 700


>gi|318041061|ref|ZP_07973017.1| small subunit ribosomal protein S1 [Synechococcus sp. CB0101]
          Length = 424

 Score = 37.7 bits (87), Expect = 4.2,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 28/68 (41%), Gaps = 4/68 (5%)

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR--PGDRVKSYIYDVRREQ 193
           +K G+++   V     G V  D+    G I R +    EN     G  +     +V  E 
Sbjct: 236 EKEGKVLQVKVNGFNRGGVTADVEGLRGFIPRSQLQEGENHEALVGKTLGVAFLEVNPET 295

Query: 194 RGPQVLLS 201
           R  +++LS
Sbjct: 296 R--KLVLS 301


>gi|307069532|ref|YP_003878009.1| putative 30S ribosomal subunit protein S1 [Candidatus Zinderia
           insecticola CARI]
 gi|306482792|gb|ADM89663.1| putative 30S ribosomal subunit protein S1 [Candidatus Zinderia
           insecticola CARI]
          Length = 454

 Score = 37.7 bits (87), Expect = 4.2,   Method: Composition-based stats.
 Identities = 18/76 (23%), Positives = 39/76 (51%), Gaps = 11/76 (14%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISREN---LRPGDRVKSYIYDVRRE 192
           K G+I+ G + +++   V +D G  S+ ++  +E  + EN   ++ GD+V  Y+  + + 
Sbjct: 32  KYGDILLGKIVKIDKKFVFIDSGLKSESLVPIEEFKNFENTLKVKLGDKVFLYLEVIEKN 91

Query: 193 -------QRGPQVLLS 201
                   +  Q++LS
Sbjct: 92  IGNIKLSYKKAQIILS 107


>gi|154492286|ref|ZP_02031912.1| hypothetical protein PARMER_01920 [Parabacteroides merdae ATCC
           43184]
 gi|154087511|gb|EDN86556.1| hypothetical protein PARMER_01920 [Parabacteroides merdae ATCC
           43184]
          Length = 666

 Score = 37.7 bits (87), Expect = 4.2,   Method: Composition-based stats.
 Identities = 19/96 (19%), Positives = 40/96 (41%), Gaps = 13/96 (13%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           V E +A  LV+  F  +E+L      ++ +++   E  A  I      + +  + TL  +
Sbjct: 515 VGETVAKRLVSA-FHSMEQLEQASFEDLTAVDEIGERIARSIIAY---FADERNRTLVNR 570

Query: 428 IRELG-----VSEELCS----IPGIDSKIKVALGEN 454
           ++E G       E+L +    + G+   I     ++
Sbjct: 571 LKEYGLQMSVPEEKLANRSEKLKGLSIVISGTFAKH 606


>gi|134045413|ref|YP_001096899.1| DNA repair and recombination protein RadA [Methanococcus
           maripaludis C5]
 gi|166218761|sp|A4FWV5|RADA_METM5 RecName: Full=DNA repair and recombination protein radA
 gi|132663038|gb|ABO34684.1| DNA repair and recombination protein RadA [Methanococcus
           maripaludis C5]
          Length = 322

 Score = 37.7 bits (87), Expect = 4.2,   Method: Composition-based stats.
 Identities = 12/46 (26%), Positives = 18/46 (39%)

Query: 358 RTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
                 +   V    A  L+  G+ D  ++A   I E+  IEG  E
Sbjct: 1   MADVLTELPGVGPSTAEKLIEAGYLDFMKIATSTIGELTDIEGISE 46


>gi|51473703|ref|YP_067460.1| 30S ribosomal protein S1 [Rickettsia typhi str. Wilmington]
 gi|81390060|sp|Q68WL4|RS1_RICTY RecName: Full=30S ribosomal protein S1
 gi|51460015|gb|AAU03978.1| 30S ribosomal protein S1 [Rickettsia typhi str. Wilmington]
          Length = 568

 Score = 37.7 bits (87), Expect = 4.2,   Method: Composition-based stats.
 Identities = 23/106 (21%), Positives = 43/106 (40%), Gaps = 8/106 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD     +  +++VI+++ R   RD      K K G I+ G VK +      +DL
Sbjct: 167 FKILSMDKKLGNIVVSRRVILEESRSEARDEMLS--KIKEGMILEGVVKNITDYGAFIDL 224

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQV 198
           G+ DG++   +          E L    +VK  +     + +   +
Sbjct: 225 GSVDGLLHLTDISWGRVNHPSEVLEFNQKVKVMVIKFDEKTKRISL 270



 Score = 37.4 bits (86), Expect = 6.6,   Method: Composition-based stats.
 Identities = 20/67 (29%), Positives = 35/67 (52%), Gaps = 5/67 (7%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           K   ++ G V  ++   +IVD+G  ++G I + E +S      GD V+ +I  +  E R 
Sbjct: 37  KEKTVVKGQVIEIKNDMIIVDVGLKNEGRIPKSEFLS--LPEVGDVVEVFIEKI--EGRN 92

Query: 196 PQVLLSR 202
            + +LSR
Sbjct: 93  GRTILSR 99


>gi|77966377|gb|ABB07757.1| SSU ribosomal protein S1P [Burkholderia sp. 383]
          Length = 576

 Score = 37.7 bits (87), Expect = 4.2,   Method: Composition-based stats.
 Identities = 22/71 (30%), Positives = 36/71 (50%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G I+ G VK V+    +V L G+ +G +R  E         R  L+ GD+V + + ++ 
Sbjct: 465 KGSIVDGVVKTVDAKGAVVTLTGDIEGYLRASEISQDRVEDARNVLKEGDKVNAMVINID 524

Query: 191 REQRGPQVLLS 201
           R+ RG  + LS
Sbjct: 525 RKSRG--INLS 533



 Score = 37.4 bits (86), Expect = 6.0,   Method: Composition-based stats.
 Identities = 27/114 (23%), Positives = 47/114 (41%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +D +   G  +   +  +D  R  V  +++ +I+  +  ER +     K   G I++G V
Sbjct: 157 KDTTPYEGKTLEFRVIKLDRKRNNVVLSRRAVIEATQGEERAKLLETLK--EGAIVNGVV 214

Query: 147 KRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++       R      E L  G  V + I    +E+ 
Sbjct: 215 KNITDYGAFVDLGGIDGLLHITDIAWRRVRHPSEVLSVGQEVTAKILKFDQEKN 268


>gi|71906915|ref|YP_284502.1| 30S ribosomal protein S1 [Dechloromonas aromatica RCB]
 gi|71846536|gb|AAZ46032.1| SSU ribosomal protein S1P [Dechloromonas aromatica RCB]
          Length = 559

 Score = 37.7 bits (87), Expect = 4.2,   Method: Composition-based stats.
 Identities = 25/114 (21%), Positives = 46/114 (40%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +D +   G  +   +  +D  R  V  +++ +++   + +R++     K   G  + G V
Sbjct: 141 KDTTPYEGKTLEFKVIKLDRKRNNVVMSRRAVLEATADKDREKLLENLK--EGTTVKGIV 198

Query: 147 KRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++       R      E L  GD V + I     E+ 
Sbjct: 199 KNITDYGAFVDLGGIDGLLHITDLAWRRVRHPSEVLNVGDEVTAKILKFDAEKN 252


>gi|332667455|ref|YP_004450243.1| polyribonucleotide nucleotidyltransferase [Haliscomenobacter
           hydrossis DSM 1100]
 gi|332336269|gb|AEE53370.1| Polyribonucleotide nucleotidyltransferase [Haliscomenobacter
           hydrossis DSM 1100]
          Length = 777

 Score = 37.7 bits (87), Expect = 4.2,   Method: Composition-based stats.
 Identities = 20/77 (25%), Positives = 32/77 (41%), Gaps = 8/77 (10%)

Query: 134 FKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISR------ENLRPGDRVKSYIY 187
           F   VG++  G VK V    V VD     G++   E          + L+ GD +K  + 
Sbjct: 628 FNPTVGDVFRGVVKSVMPYGVFVDFNGKSGLLHVSEISHTRIDNVEDVLKEGDEIKVQLV 687

Query: 188 DVRREQRGPQVLLSRTH 204
           +V ++    +  LSR  
Sbjct: 688 EVDKKTGKMR--LSRKS 702


>gi|302698227|ref|XP_003038792.1| hypothetical protein SCHCODRAFT_64843 [Schizophyllum commune H4-8]
 gi|300112489|gb|EFJ03890.1| hypothetical protein SCHCODRAFT_64843 [Schizophyllum commune H4-8]
          Length = 1461

 Score = 37.7 bits (87), Expect = 4.2,   Method: Composition-based stats.
 Identities = 23/96 (23%), Positives = 40/96 (41%), Gaps = 14/96 (14%)

Query: 138 VGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDR-------VKSYIYDV 189
           VG++++G V R      +V +     G++   +     N   G         VK+ I  +
Sbjct: 795 VGQVVTGRVTRHVQKGALVKVTAKVRGILHPSDVADDFNHVKGQPLPAVDAVVKAAIVGI 854

Query: 190 RREQRGPQVLL----SRTHPQFMVKLFHMEVPEIYN 221
            RE +  Q++L    SR  PQ    +   E+ EI +
Sbjct: 855 DRENK--QLILSTRPSRVSPQPDRSVRDKEIGEISD 888


>gi|291543017|emb|CBL16127.1| Ribosomal protein S1 [Ruminococcus bromii L2-63]
          Length = 308

 Score = 37.7 bits (87), Expect = 4.2,   Method: Composition-based stats.
 Identities = 17/100 (17%), Positives = 37/100 (37%), Gaps = 15/100 (15%)

Query: 118 IIQKVREAERDRQYLEFKDKV--GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI---- 171
           I+   RE  + +    +  ++  G+I+   +  +E      D+G     +   +TI    
Sbjct: 103 IVMLSREKAQRKCLDAYISRLRCGDIVPARITHLENFGAFADIGCGIVALMPIDTISVSR 162

Query: 172 ---SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFM 208
                E    G  +K+ I  V   +      +S +H + +
Sbjct: 163 IEHPAERFTVGMDIKAVIKSVENGR------ISLSHKELL 196


>gi|288818571|ref|YP_003432919.1| DNA polymerase beta family protein [Hydrogenobacter thermophilus
           TK-6]
 gi|288787971|dbj|BAI69718.1| DNA polymerase beta family protein [Hydrogenobacter thermophilus
           TK-6]
 gi|308752162|gb|ADO45645.1| PHP domain protein [Hydrogenobacter thermophilus TK-6]
          Length = 580

 Score = 37.7 bits (87), Expect = 4.2,   Method: Composition-based stats.
 Identities = 23/120 (19%), Positives = 44/120 (36%), Gaps = 26/120 (21%)

Query: 364 QAINVDEIIAHLLVAEG-----FADVEELAC------VKISEIAS------IEGFDEETA 406
           +   + E +A +L   G      +    +A       V + ++        I G    + 
Sbjct: 6   EIAEIFERMADILEFLGDNPYRISTYRRVANILSELNVDVEDLVKSGKIHHIPGIGASSV 65

Query: 407 VEIQGRAREYLEGIDITLQKKIRELGVSE--ELCSIPGIDSKIKVALGEN--GIKTMEDL 462
            +I     EYL    I+  ++++     +  EL ++P I  K    L     GI+T +D 
Sbjct: 66  EKIL----EYLRTGKISKYEELKGKVPEDLLELMNVPSIGPKTL-KLAYERLGIRTKDDF 120


>gi|255021289|ref|ZP_05293338.1| SSU ribosomal protein S1p [Acidithiobacillus caldus ATCC 51756]
 gi|254969300|gb|EET26813.1| SSU ribosomal protein S1p [Acidithiobacillus caldus ATCC 51756]
          Length = 573

 Score = 37.7 bits (87), Expect = 4.2,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 37/68 (54%), Gaps = 6/68 (8%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRE---NLRPGDRVKSYIYDVRREQR 194
           G++++G V RV+   V++D+G  S+G +  ++  + E    ++ GDRV+  +  V     
Sbjct: 30  GDLLTGVVTRVDNDFVVIDVGLKSEGPVPAEQFRNSEGELEVKVGDRVEVCLESVEDGMG 89

Query: 195 GPQVLLSR 202
             +  LSR
Sbjct: 90  ETK--LSR 95


>gi|160934075|ref|ZP_02081462.1| hypothetical protein CLOLEP_02938 [Clostridium leptum DSM 753]
 gi|156866748|gb|EDO60120.1| hypothetical protein CLOLEP_02938 [Clostridium leptum DSM 753]
          Length = 313

 Score = 37.7 bits (87), Expect = 4.2,   Method: Composition-based stats.
 Identities = 16/95 (16%), Positives = 35/95 (36%), Gaps = 15/95 (15%)

Query: 123 REAERDRQYLEFKDKV--GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI-------SR 173
           R A ++    E+   +  G+I++  +  +E      D+G     +   + I        R
Sbjct: 112 RRAAQELCMKEYVSTLVPGDIVNARITHLETFGAFADIGCGIVSLLPIDMISVSRIDHPR 171

Query: 174 ENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFM 208
           E    G  + + I  +   +      +S TH + +
Sbjct: 172 ERFSVGMDITAVIKAIDNGR------ISLTHKELL 200


>gi|149637077|ref|XP_001512497.1| PREDICTED: similar to protein with homology to KIAA0790
           [Ornithorhynchus anatinus]
          Length = 372

 Score = 37.7 bits (87), Expect = 4.2,   Method: Composition-based stats.
 Identities = 20/96 (20%), Positives = 41/96 (42%), Gaps = 8/96 (8%)

Query: 339 IDIITEEEDSINRQKDFNER-------TQFFMQAINVDEIIAHLLVAEGFADVEELACVK 391
           +DII EEE +  + +             Q F++ I++ E  A  L+  G+  +E+L  + 
Sbjct: 218 VDIILEEEATPRKIRPHRRSKRAKPKTLQEFLERIHLQE-YASTLLLNGYESLEDLKYIT 276

Query: 392 ISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
            S +  +   + E  + +   A   L+  +   Q+ 
Sbjct: 277 ESHLVELNIVNPEDRMRLLSAAENLLDDENGQEQEN 312


>gi|77736473|ref|NP_001029936.1| DNA polymerase beta [Bos taurus]
 gi|109893767|sp|Q27958|DPOLB_BOVIN RecName: Full=DNA polymerase beta
 gi|73587414|gb|AAI03230.1| Polymerase (DNA directed), beta [Bos taurus]
 gi|296472338|gb|DAA14453.1| DNA polymerase beta [Bos taurus]
          Length = 335

 Score = 37.7 bits (87), Expect = 4.2,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVSGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
              + GIKT+EDL
Sbjct: 113 KFVDEGIKTLEDL 125


>gi|55845900|gb|AAV66968.1| DNA polymerase beta [Canis lupus familiaris]
          Length = 318

 Score = 37.7 bits (87), Expect = 4.2,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 40  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVSGIGPSAAR 95

Query: 450 ALGENGIKTMEDL 462
              + GIKT+EDL
Sbjct: 96  KFVDEGIKTLEDL 108


>gi|323464611|gb|ADX76764.1| polyribonucleotide nucleotidyltransferase [Staphylococcus
           pseudintermedius ED99]
          Length = 697

 Score = 37.7 bits (87), Expect = 4.3,   Method: Composition-based stats.
 Identities = 33/195 (16%), Positives = 60/195 (30%), Gaps = 44/195 (22%)

Query: 21  SIDRDVVLSVMADSIQKAARS-LYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQI 79
            + ++V+   +  +     R      +  +   I+    ++S +              QI
Sbjct: 517 GLTKEVIEEALEQA-----RKGRLAILEHMMQTIDQPRKELSAYAPKV-------EIMQI 564

Query: 80  SLKVARD-RDPSI----DIGGVVSDPLPPM--------DFGRVAVQSAKQVIIQKVREAE 126
             +  RD   P      +I       L              +  +  A+  I   VREAE
Sbjct: 565 KPEKIRDVIGPGGKQINEIIDATGVKLDIEQDGTVFIGSTEQDMINQARAWIESIVREAE 624

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISREN-------LRPG 179
             + Y              VKR+E     V+L      +     IS E        L  G
Sbjct: 625 VGQVYD-----------AKVKRIEKFGAFVELFPGKDALVHISQISNERINKVEDVLNMG 673

Query: 180 DRVKSYIYDVRREQR 194
           D +K  + ++ ++ R
Sbjct: 674 DTLKVKVTEIDKQGR 688


>gi|319892292|ref|YP_004149167.1| Polyribonucleotide nucleotidyltransferase [Staphylococcus
           pseudintermedius HKU10-03]
 gi|317161988|gb|ADV05531.1| Polyribonucleotide nucleotidyltransferase [Staphylococcus
           pseudintermedius HKU10-03]
          Length = 697

 Score = 37.7 bits (87), Expect = 4.3,   Method: Composition-based stats.
 Identities = 33/195 (16%), Positives = 60/195 (30%), Gaps = 44/195 (22%)

Query: 21  SIDRDVVLSVMADSIQKAARS-LYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQI 79
            + ++V+   +  +     R      +  +   I+    ++S +              QI
Sbjct: 517 GLTKEVIEEALEQA-----RKGRLAILEHMMQTIDQPRKELSAYAPKV-------EIMQI 564

Query: 80  SLKVARD-RDPSI----DIGGVVSDPLPPM--------DFGRVAVQSAKQVIIQKVREAE 126
             +  RD   P      +I       L              +  +  A+  I   VREAE
Sbjct: 565 KPEKIRDVIGPGGKQINEIIDATGVKLDIEQDGTVFIGSTEQDMINQARAWIESIVREAE 624

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISREN-------LRPG 179
             + Y              VKR+E     V+L      +     IS E        L  G
Sbjct: 625 VGQVYD-----------AKVKRIEKFGAFVELFPGKDALVHISQISNERINKVEDVLNMG 673

Query: 180 DRVKSYIYDVRREQR 194
           D +K  + ++ ++ R
Sbjct: 674 DTLKVKVTEIDKQGR 688


>gi|315604243|ref|ZP_07879309.1| 30S ribosomal protein S1 [Actinomyces sp. oral taxon 180 str.
           F0310]
 gi|315313949|gb|EFU62000.1| 30S ribosomal protein S1 [Actinomyces sp. oral taxon 180 str.
           F0310]
          Length = 478

 Score = 37.7 bits (87), Expect = 4.3,   Method: Composition-based stats.
 Identities = 23/94 (24%), Positives = 51/94 (54%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V++  V++D+G  ++GVI   E          + +  GD++++ +   ++
Sbjct: 33  GDIVEGTVVKVDHDEVLLDIGYKTEGVILSRELSIKHDVNPEDVVAVGDQIEALVL--QK 90

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  ++LLS+   Q+      +E  +  +G+V 
Sbjct: 91  EDKEGRLLLSKKRAQYERAWGKIEKVKEEDGVVT 124


>gi|186681819|ref|YP_001865015.1| hypothetical protein Npun_R1363 [Nostoc punctiforme PCC 73102]
 gi|186464271|gb|ACC80072.1| conserved hypothetical protein [Nostoc punctiforme PCC 73102]
          Length = 486

 Score = 37.7 bits (87), Expect = 4.3,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 23/55 (41%)

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGI 420
             V  +    L       +E LA    S + ++ GFD + A ++  +A+  LE  
Sbjct: 228 PGVTPLRYTQLQDVAITTLESLANTSPSTLENLVGFDPKVAPKLVVQAQSALEKR 282


>gi|327475235|gb|AEA77212.1| DNA ligase [Exiguobacterium sp. EPVM]
          Length = 664

 Score = 37.7 bits (87), Expect = 4.3,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 29/63 (46%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
            +I++ K  +     F   I +    A +L+AE F  +E +    I E+ SI+G   + A
Sbjct: 489 AAIDQSKQNSLERVLFALGIRLVGQKAAVLIAERFETMEAVMEASIDELTSIDGIGTKMA 548

Query: 407 VEI 409
             I
Sbjct: 549 ESI 551


>gi|126654692|ref|ZP_01726226.1| 30S ribosomal protein S1 [Cyanothece sp. CCY0110]
 gi|126623427|gb|EAZ94131.1| 30S ribosomal protein S1 [Cyanothece sp. CCY0110]
          Length = 304

 Score = 37.7 bits (87), Expect = 4.3,   Method: Composition-based stats.
 Identities = 44/219 (20%), Positives = 83/219 (37%), Gaps = 38/219 (17%)

Query: 100 PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEI------ISGTVKRVEYGN 153
            + P+D  R  + +++Q    +V+ + R  Q  E  + VGEI      +   V R   G 
Sbjct: 76  EILPLDEEREFLVTSEQNADGQVKLSRRQLQLKEAWENVGEIAEMGHSVQMRVTRTNKGG 135

Query: 154 VIVDLGNSDGVIRRDETISRENLR--PGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKL 211
           V+ ++    G I R   + +E+L    G  + +   +V       +++LS+       ++
Sbjct: 136 VVGEVEGLQGFIPRSHLLEKEDLNALVGQMLTATFLEVNPSTN--KLVLSQRKAIAAARM 193

Query: 212 FHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPVGACVGMRGSRVQAVVTELRD 271
             +E  ++ +G      VSR         VF     +  +     + GSRV     +L  
Sbjct: 194 DKLEAGQLVSG-----KVSRIQPY----GVFVDFEGVSGLLHITQVSGSRV----DDLN- 239

Query: 272 EKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEV 310
               I  ++ D    +   L         +DE   RI +
Sbjct: 240 ---HIFKYNQDIKVMI---LS--------IDEYKNRIAL 264


>gi|91078992|ref|XP_974639.1| PREDICTED: similar to mitochondrial 28S ribosomal protein S28
           [Tribolium castaneum]
 gi|270003680|gb|EFA00128.1| hypothetical protein TcasGA2_TC002944 [Tribolium castaneum]
          Length = 166

 Score = 37.7 bits (87), Expect = 4.3,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 33/76 (43%), Gaps = 2/76 (2%)

Query: 120 QKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           Q      R+ ++++  D  G++++G V  V   ++ +D G     V  R    + E    
Sbjct: 63  QTFASLLRNSKFIDLGDPEGKVVTGRVFHVVDDDLYIDFGWKFHCVCPRPRRNASE-YVR 121

Query: 179 GDRVKSYIYDVRREQR 194
           G +V+  I ++    +
Sbjct: 122 GSKVRILIKELELSSK 137


>gi|73979121|ref|XP_856344.1| PREDICTED: similar to polymerase (DNA directed), beta isoform 2
           [Canis familiaris]
          Length = 267

 Score = 37.7 bits (87), Expect = 4.3,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVSGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
              + GIKT+EDL
Sbjct: 113 KFVDEGIKTLEDL 125


>gi|303326814|ref|ZP_07357256.1| putative ribosomal protein S1 [Desulfovibrio sp. 3_1_syn3]
 gi|302862802|gb|EFL85734.1| putative ribosomal protein S1 [Desulfovibrio sp. 3_1_syn3]
          Length = 488

 Score = 37.7 bits (87), Expect = 4.3,   Method: Composition-based stats.
 Identities = 21/69 (30%), Positives = 40/69 (57%), Gaps = 8/69 (11%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI---SRENLRPGDRVKSYIYDVRREQR 194
           G+ +SGTV  +   +V VD+G   DG++ R + +    +E+  PGD V++++  V  ++ 
Sbjct: 35  GQKVSGTVIAITGDSVFVDMGIKVDGIMERKDILDAEGKESAGPGDSVEAWVIAVSPQE- 93

Query: 195 GPQVLLSRT 203
              + LSR+
Sbjct: 94  ---IRLSRS 99


>gi|300812171|ref|ZP_07092615.1| 30S ribosomal protein S1 [Lactobacillus delbrueckii subsp.
           bulgaricus PB2003/044-T3-4]
 gi|300496856|gb|EFK31934.1| 30S ribosomal protein S1 [Lactobacillus delbrueckii subsp.
           bulgaricus PB2003/044-T3-4]
          Length = 401

 Score = 37.7 bits (87), Expect = 4.3,   Method: Composition-based stats.
 Identities = 35/192 (18%), Positives = 71/192 (36%), Gaps = 39/192 (20%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG 152
           IG  +   +  +D  +  +  + + +I++ RE   +    +    VG+++ G V R+   
Sbjct: 153 IGKAIKVKITEIDPAKNRLILSHKELIEEEREQAFENVASQLV--VGDVVEGRVSRLTNF 210

Query: 153 NVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQ 206
              VD+G  DG++   E          + L+ G  VK  +  +  ++    + + +T P 
Sbjct: 211 GSFVDIGGVDGLVHISEISYKHVDKPSDVLKVGQDVKVKVIGIDNDRHRISLSIKQTEPS 270

Query: 207 FMVK---------LFHMEV---------PEIYNGIVQVKAVSRDP-------------GS 235
              +         +   EV          E+ +GI  +  VS                G 
Sbjct: 271 PFEQATSSLNEGDVIEGEVKSLTNFGAFVEVADGIQGLVHVSEISYKHVDKPSDVLTVGQ 330

Query: 236 RAKLAVFSSDSS 247
           + K+ V + D S
Sbjct: 331 KVKVKVLNIDPS 342


>gi|222476129|ref|YP_002564650.1| helix-hairpin-helix motif protein [Halorubrum lacusprofundi ATCC
           49239]
 gi|222454500|gb|ACM58764.1| helix-hairpin-helix motif protein [Halorubrum lacusprofundi ATCC
           49239]
          Length = 485

 Score = 37.7 bits (87), Expect = 4.3,   Method: Composition-based stats.
 Identities = 19/85 (22%), Positives = 32/85 (37%), Gaps = 3/85 (3%)

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITL-Q 425
            V +  A  L   G+   +++A     E+  ++G  E  A  I+  A    EG  I L  
Sbjct: 210 GVGKGTAPKLARNGYETRDDVAAATEQELREVQGIGESKAQSIRQSAHALSEGCVIRLTD 269

Query: 426 KKIRELGVSEELCSIP--GIDSKIK 448
           + +     S     I   G++  I 
Sbjct: 270 ETVPAAEYSPLFIDIETDGLNPSII 294


>gi|94987197|ref|YP_595130.1| 30S ribosomal protein S1 [Lawsonia intracellularis PHE/MN1-00]
 gi|94731446|emb|CAJ54809.1| ribosomal protein S1 [Lawsonia intracellularis PHE/MN1-00]
          Length = 574

 Score = 37.7 bits (87), Expect = 4.3,   Method: Composition-based stats.
 Identities = 18/68 (26%), Positives = 37/68 (54%), Gaps = 6/68 (8%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRE---NLRPGDRVKSYIYDVRREQ 193
            G I+ G + R++  NV+VD+   S+G I   E  + +     + GD++  ++  VR+ +
Sbjct: 35  EGTIVKGEIVRIDDDNVLVDVNFKSEGQIPTIEFQNTDGNITAKVGDKIDVFV--VRKNE 92

Query: 194 RGPQVLLS 201
           +   ++LS
Sbjct: 93  QEGTIILS 100


>gi|116689070|ref|YP_834693.1| 30S ribosomal protein S1 [Burkholderia cenocepacia HI2424]
 gi|170732358|ref|YP_001764305.1| 30S ribosomal protein S1 [Burkholderia cenocepacia MC0-3]
 gi|105892314|gb|ABF75479.1| SSU ribosomal protein S1P [Burkholderia cenocepacia AU 1054]
 gi|116647159|gb|ABK07800.1| SSU ribosomal protein S1P [Burkholderia cenocepacia HI2424]
 gi|169815600|gb|ACA90183.1| ribosomal protein S1 [Burkholderia cenocepacia MC0-3]
          Length = 576

 Score = 37.7 bits (87), Expect = 4.4,   Method: Composition-based stats.
 Identities = 22/71 (30%), Positives = 36/71 (50%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G I+ G VK V+    +V L G+ +G +R  E         R  L+ GD+V + + ++ 
Sbjct: 465 KGSIVDGVVKTVDAKGAVVTLTGDIEGYLRASEISQDRVEDARNVLKEGDKVNAMVINID 524

Query: 191 REQRGPQVLLS 201
           R+ RG  + LS
Sbjct: 525 RKSRG--INLS 533



 Score = 37.4 bits (86), Expect = 6.3,   Method: Composition-based stats.
 Identities = 27/114 (23%), Positives = 47/114 (41%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +D +   G  +   +  +D  R  V  +++ +I+  +  ER +     K   G I++G V
Sbjct: 157 KDTTPYEGKTLEFRVIKLDRKRNNVVLSRRAVIEATQGEERAKLLETLK--EGAIVNGVV 214

Query: 147 KRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++       R      E L  G  V + I    +E+ 
Sbjct: 215 KNITDYGAFVDLGGIDGLLHITDIAWRRVRHPSEVLSVGQEVTAKILKFDQEKN 268


>gi|95929492|ref|ZP_01312235.1| ribosomal protein S1 [Desulfuromonas acetoxidans DSM 684]
 gi|95134608|gb|EAT16264.1| ribosomal protein S1 [Desulfuromonas acetoxidans DSM 684]
          Length = 582

 Score = 37.7 bits (87), Expect = 4.4,   Method: Composition-based stats.
 Identities = 26/125 (20%), Positives = 53/125 (42%), Gaps = 10/125 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ L+  R+ D    IG      +  ++  R  +  +++V+++  RE++R       
Sbjct: 154 PGSQVDLRPVRNLDKL--IGETFEFKIIKLNKRRGNIVLSRRVLLETERESQRSDTLKTL 211

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           +   G+I+ G VK +      +DLG  DG++   +          + L  GD +   +  
Sbjct: 212 E--EGQIVEGVVKNLTDYGAFIDLGGIDGLLHITDMSWGRVSHPSDILAVGDSINVKVLK 269

Query: 189 VRREQ 193
             RE+
Sbjct: 270 FDREK 274


>gi|294781761|ref|ZP_06747094.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Fusobacterium
           sp. 1_1_41FAA]
 gi|294481871|gb|EFG29639.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Fusobacterium
           sp. 1_1_41FAA]
          Length = 827

 Score = 37.7 bits (87), Expect = 4.4,   Method: Composition-based stats.
 Identities = 28/121 (23%), Positives = 50/121 (41%), Gaps = 15/121 (12%)

Query: 86  DRDPSIDIGGVVSDPLPPMDF-GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           +  P  +IG  V   +  +D   R    S K      +R++  +    E+K  VG  +  
Sbjct: 686 EETPKFEIGNEVELKITELDLNDRKIKGSLKA-----LRKSPWEHAMEEYK--VGTTVEK 738

Query: 145 TVKRVEYGNVIVDLGN-SDGVIR----RDETIS--RENLRPGDRVKSYIYDVRREQRGPQ 197
            +K V    + V+L    DG I       E I   R+    GD VK+ + +V ++ +  +
Sbjct: 739 KIKTVADFGLFVELTKGIDGFIPTQFASKEFIKNIRDKFNEGDIVKARVVEVNKDTQKIK 798

Query: 198 V 198
           +
Sbjct: 799 L 799


>gi|257784971|ref|YP_003180188.1| DNA-directed RNA polymerase, beta' subunit [Atopobium parvulum DSM
            20469]
 gi|257473478|gb|ACV51597.1| DNA-directed RNA polymerase, beta' subunit [Atopobium parvulum DSM
            20469]
          Length = 1475

 Score = 37.7 bits (87), Expect = 4.4,   Method: Composition-based stats.
 Identities = 13/82 (15%), Positives = 29/82 (35%), Gaps = 7/82 (8%)

Query: 364  QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG--RAREYLEGID 421
              + V +   +     G   V +L      ++  I+G   +   E++    AR  L  ++
Sbjct: 1334 DDLGVSQRWTNKFSEVGIETVGDLIGKTEEDLLRIDGIGAKAIEELRDGLEARNLLYILE 1393

Query: 422  ITLQKKIRELGVSEELCSIPGI 443
                +       SE+L  +  +
Sbjct: 1394 PEEDEA-----DSEDLSQLLNM 1410


>gi|322371738|ref|ZP_08046281.1| hypothetical protein ZOD2009_19593 [Haladaptatus paucihalophilus
           DX253]
 gi|320548623|gb|EFW90294.1| hypothetical protein ZOD2009_19593 [Haladaptatus paucihalophilus
           DX253]
          Length = 189

 Score = 37.7 bits (87), Expect = 4.5,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 19/55 (34%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
                +D+ +A  L   G   V  LA      +A    FD     + +  A E L
Sbjct: 135 TDVPEIDDRLADELAEAGITSVRSLAIANPERVADSLSFDRNRVTKWRDSAHELL 189


>gi|320450042|ref|YP_004202138.1| polyribonucleotide nucleotidyltransferase [Thermus scotoductus
           SA-01]
 gi|320150211|gb|ADW21589.1| polyribonucleotide nucleotidyltransferase [Thermus scotoductus
           SA-01]
          Length = 714

 Score = 37.7 bits (87), Expect = 4.5,   Method: Composition-based stats.
 Identities = 24/121 (19%), Positives = 46/121 (38%), Gaps = 26/121 (21%)

Query: 89  PSIDIGGVVSDPLPPMDFGRV--------AVQSAKQVIIQKVREAERDRQYLEFKDKVGE 140
            ++     +   +   + G V        A Q AK+ I +   EA           KVGE
Sbjct: 587 KNVRALEELGVEVDIEEDGTVRIYSSDMEAAQKAKKRIEELTLEA-----------KVGE 635

Query: 141 IISGTVKRVEYGNVIVDL-GNSDGVIRRDETISR------ENLRPGDRVKSYIYDVRREQ 193
           I  GTV ++      V L   ++G++   +          ++L+ GD +K  ++ +    
Sbjct: 636 IYEGTVTKITPFGAFVSLFPGTEGLLHISQIAPGRVERVEDHLKVGDVIKVKVHRIDERG 695

Query: 194 R 194
           +
Sbjct: 696 K 696


>gi|319411653|emb|CBQ73697.1| DNA repair protein RAD51 [Sporisorium reilianum]
          Length = 354

 Score = 37.7 bits (87), Expect = 4.5,   Method: Composition-based stats.
 Identities = 11/66 (16%), Positives = 22/66 (33%)

Query: 348 SINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV 407
             +  + F       ++   +       L   G+  VE +A      +  ++G  E  A 
Sbjct: 13  EEDMGEAFGPLPVSKLEDFGISSSDCKKLAEAGYNTVESIAFTPKKSLLLVKGISEAKAD 72

Query: 408 EIQGRA 413
           +I   A
Sbjct: 73  KILAEA 78


>gi|295133734|ref|YP_003584410.1| 30S ribosomal protein S1 [Zunongwangia profunda SM-A87]
 gi|294981749|gb|ADF52214.1| 30S ribosomal protein S1 [Zunongwangia profunda SM-A87]
          Length = 609

 Score = 37.7 bits (87), Expect = 4.5,   Method: Composition-based stats.
 Identities = 26/80 (32%), Positives = 43/80 (53%), Gaps = 5/80 (6%)

Query: 125 AERDRQYLE-FKD-KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDR 181
            E ++   E F D    E+++G V  +   + I+D+   S+GVI  +E     +L+ GD 
Sbjct: 56  EEFEKLVEENFVDTLDDEVVTGKVINITDRDAIIDINAKSEGVISLNEFRYNPDLKVGDE 115

Query: 182 VKSYIYDVRREQRGPQVLLS 201
           V+  I DVR +  G Q++LS
Sbjct: 116 VEVLI-DVREDATG-QLVLS 133


>gi|224476402|ref|YP_002634008.1| polynucleotide phosphorylase/polyadenylase [Staphylococcus carnosus
           subsp. carnosus TM300]
 gi|254782735|sp|B9DPE0|PNP_STACT RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|222421009|emb|CAL27823.1| polyribonucleotide nucleotidyltransferase [Staphylococcus carnosus
           subsp. carnosus TM300]
          Length = 701

 Score = 37.7 bits (87), Expect = 4.5,   Method: Composition-based stats.
 Identities = 20/110 (18%), Positives = 43/110 (39%), Gaps = 10/110 (9%)

Query: 92  DIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEY 151
           +I       L     G + + +  Q +I + RE   D        +VG++ +  V+R+E 
Sbjct: 582 EIIDETGVKLDIEQDGTIFIGAVDQDMINRAREIIEDITRE---AEVGQVYNAKVRRIEK 638

Query: 152 GNVIVDLGNSDGVIRRDETISR-------ENLRPGDRVKSYIYDVRREQR 194
               V+L      +     I+        + L+ GD ++  + ++  + R
Sbjct: 639 YGTFVELFPGKDALLHISQIANQRINKVEDVLKLGDTIEVKVTEIDDKGR 688


>gi|167647599|ref|YP_001685262.1| hypothetical protein Caul_3637 [Caulobacter sp. K31]
 gi|167350029|gb|ABZ72764.1| conserved hypothetical protein [Caulobacter sp. K31]
          Length = 234

 Score = 37.7 bits (87), Expect = 4.5,   Method: Composition-based stats.
 Identities = 14/75 (18%), Positives = 32/75 (42%), Gaps = 2/75 (2%)

Query: 404 ETAVEIQGRAREYLEGIDITLQKKIRELG--VSEELCSIPGIDSKIKVALGENGIKTMED 461
           +TA  +     + ++     + + + E     +++L  + GI  K+  +L E G+    +
Sbjct: 137 DTAETMVAETLKAVDATTEEVAEAVVETSEAAADDLTLLVGIGPKLAASLAELGVTRFAE 196

Query: 462 LAGCSVDDLLGWSEN 476
           LA     +L  + E 
Sbjct: 197 LAAWGPKELADFDEK 211


>gi|77919478|ref|YP_357293.1| 30S ribosomal protein S1 [Pelobacter carbinolicus DSM 2380]
 gi|77545561|gb|ABA89123.1| SSU ribosomal protein S1P [Pelobacter carbinolicus DSM 2380]
          Length = 573

 Score = 37.7 bits (87), Expect = 4.5,   Method: Composition-based stats.
 Identities = 24/125 (19%), Positives = 52/125 (41%), Gaps = 10/125 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ L+  R+ D    +G      +  ++  R  +  +++V++++ RE+ R       
Sbjct: 145 PGSQVDLRPVRNLDKL--LGETFEFKIIKLNKRRGNIVLSRRVLLEEQRESLRQDTLETL 202

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
                + + G VK +      +DLG  DG++   +          + L  GD++K  +  
Sbjct: 203 A--EDQEVVGVVKNLTDYGAFIDLGGIDGLLHITDMSWGRVAHPSDVLAVGDKIKVKVLK 260

Query: 189 VRREQ 193
             RE+
Sbjct: 261 FDREK 265


>gi|312795455|ref|YP_004028377.1| SSU ribosomal protein S1P [Burkholderia rhizoxinica HKI 454]
 gi|312167230|emb|CBW74233.1| SSU ribosomal protein S1P [Burkholderia rhizoxinica HKI 454]
          Length = 598

 Score = 37.7 bits (87), Expect = 4.5,   Method: Composition-based stats.
 Identities = 20/68 (29%), Positives = 33/68 (48%), Gaps = 7/68 (10%)

Query: 138 VGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G I+ GTVK V+    ++ L    +G +R  E         R  L+ GD+V   + ++ 
Sbjct: 486 KGSIVDGTVKAVDPKGAVIQLSVEVEGYLRASEIAQDRVEDARNVLKEGDKVNVMVINID 545

Query: 191 REQRGPQV 198
           R+ RG Q+
Sbjct: 546 RKSRGIQL 553



 Score = 37.7 bits (87), Expect = 4.9,   Method: Composition-based stats.
 Identities = 27/114 (23%), Positives = 47/114 (41%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +D +   G  +   +  +D  R  V  +++ +I+  +  ER +     K   G I++G V
Sbjct: 178 KDTTPYEGKTLEFRVIKLDRKRNNVVLSRRAVIEATQGEERAKLLETLK--EGAIVNGVV 235

Query: 147 KRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++       R      E L  G  V + I    +E+ 
Sbjct: 236 KNITDYGAFVDLGGIDGLLHITDIAWRRVRHPSEVLSVGQEVTAKILKFDQEKN 289


>gi|182623946|ref|ZP_02951734.1| ribosomal protein S1 family [Clostridium perfringens D str.
           JGS1721]
 gi|177910839|gb|EDT73193.1| ribosomal protein S1 family [Clostridium perfringens D str.
           JGS1721]
          Length = 378

 Score = 37.7 bits (87), Expect = 4.5,   Method: Composition-based stats.
 Identities = 21/107 (19%), Positives = 46/107 (42%), Gaps = 8/107 (7%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG 152
           +G  +   +   +     V  +++VI +++R  E+   +     K GE   G V R+   
Sbjct: 151 VGKTLEVRVIEFNKENRKVVVSRRVIDEEIRNNEKKALWS--SIKEGEKRKGKVTRLAKF 208

Query: 153 NVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
              VD+G  +G++   +          E +  GD V+ ++ +V  ++
Sbjct: 209 GAFVDIGGVEGLVHLSDMSWSRVHKPEEVVSVGDEVEVFVSEVDMDR 255


>gi|161525427|ref|YP_001580439.1| 30S ribosomal protein S1 [Burkholderia multivorans ATCC 17616]
 gi|189349836|ref|YP_001945464.1| 30S ribosomal protein S1 [Burkholderia multivorans ATCC 17616]
 gi|221201261|ref|ZP_03574301.1| 30S ribosomal protein S1 [Burkholderia multivorans CGD2M]
 gi|221206285|ref|ZP_03579298.1| 30S ribosomal protein S1 [Burkholderia multivorans CGD2]
 gi|221213566|ref|ZP_03586540.1| 30S ribosomal protein S1 [Burkholderia multivorans CGD1]
 gi|160342856|gb|ABX15942.1| ribosomal protein S1 [Burkholderia multivorans ATCC 17616]
 gi|189333858|dbj|BAG42928.1| small subunit ribosomal protein S1 [Burkholderia multivorans ATCC
           17616]
 gi|221166355|gb|EED98827.1| 30S ribosomal protein S1 [Burkholderia multivorans CGD1]
 gi|221173594|gb|EEE06028.1| 30S ribosomal protein S1 [Burkholderia multivorans CGD2]
 gi|221179111|gb|EEE11518.1| 30S ribosomal protein S1 [Burkholderia multivorans CGD2M]
          Length = 570

 Score = 37.7 bits (87), Expect = 4.5,   Method: Composition-based stats.
 Identities = 23/71 (32%), Positives = 36/71 (50%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G I+ G VK V+  G VI   G+ +G +R  E         R  L+ GD+V + + ++ 
Sbjct: 459 KGSIVDGVVKSVDAKGAVIALTGDIEGYLRASEISQDRVEDARNVLKEGDKVNAMVINID 518

Query: 191 REQRGPQVLLS 201
           R+ RG  + LS
Sbjct: 519 RKSRG--INLS 527



 Score = 37.0 bits (85), Expect = 7.1,   Method: Composition-based stats.
 Identities = 27/114 (23%), Positives = 47/114 (41%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +D +   G  +   +  +D  R  V  +++ +I+  +  ER +     K   G I++G V
Sbjct: 151 KDTTPYEGKTLEFRVIKLDRKRNNVVLSRRAVIEATQGEERAKLLETLK--EGAIVNGVV 208

Query: 147 KRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++       R      E L  G  V + I    +E+ 
Sbjct: 209 KNITDYGAFVDLGGIDGLLHITDIAWRRVRHPSEVLSVGQEVTAKILKFDQEKN 262


>gi|116333424|ref|YP_794951.1| 30S ribosomal protein S1 [Lactobacillus brevis ATCC 367]
 gi|116098771|gb|ABJ63920.1| SSU ribosomal protein S1P [Lactobacillus brevis ATCC 367]
          Length = 434

 Score = 37.7 bits (87), Expect = 4.5,   Method: Composition-based stats.
 Identities = 21/106 (19%), Positives = 45/106 (42%), Gaps = 8/106 (7%)

Query: 94  GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN 153
           G  +   +  ++     +  + + I++K R A+++    +     G+++ G V R+    
Sbjct: 163 GQTLEFKIVEIEPSENRLILSHRAIVEKQRAAQKEEIMAKLTA--GDVVDGKVARLTNFG 220

Query: 154 VIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
             VDLG  DG++   E          + L+ G  VK  +  V  ++
Sbjct: 221 AFVDLGGVDGLVHVSEIAFERVEKPSDVLKVGQDVKVKVLSVDADR 266


>gi|32472024|ref|NP_865018.1| 30S ribosomal protein S1 [Rhodopirellula baltica SH 1]
 gi|32397396|emb|CAD72702.1| 30S ribosomal protein S1 [Rhodopirellula baltica SH 1]
          Length = 691

 Score = 37.7 bits (87), Expect = 4.5,   Method: Composition-based stats.
 Identities = 37/183 (20%), Positives = 73/183 (39%), Gaps = 28/183 (15%)

Query: 66  LEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREA 125
             +V+        + L      +    IG  V   +  M+    A      +I    R+A
Sbjct: 153 WALVDVGFKSEGTVGLDEWGPEEDQPKIGDTVKVLIEEMEDELGAADDPYGMISLSKRKA 212

Query: 126 ERDRQYLEFKDK--VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDR-- 181
           E+  ++    +    G++++GTV R   G ++VD+G +  V      +  +  RPGD   
Sbjct: 213 EKIIEWEAMMETVAEGQVVTGTVIRKIKGGLLVDIGVN--VFLPGSQV--DIRRPGDIGD 268

Query: 182 -----VKSYIYDVRREQRGPQVLLSRTHPQFMVK--------LF-HMEVPEIYNGIVQVK 227
                V++ +  +   +R   +++SR     + +        L   +EV +I  GIV  K
Sbjct: 269 FIGRVVQAEVLKIDDTRRN--IVISRRS--LIERQREEDRAYLMQELEVGQIRKGIV--K 322

Query: 228 AVS 230
            ++
Sbjct: 323 NIA 325



 Score = 36.6 bits (84), Expect = 9.7,   Method: Composition-based stats.
 Identities = 29/107 (27%), Positives = 49/107 (45%), Gaps = 8/107 (7%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG 152
           IG VV   +  +D  R  +  +++ +I++ RE +R     E +  VG+I  G VK +   
Sbjct: 270 IGRVVQAEVLKIDDTRRNIVISRRSLIERQREEDRAYLMQELE--VGQIRKGIVKNIADF 327

Query: 153 NVIVDLGNSDGVI----RRDETI--SRENLRPGDRVKSYIYDVRREQ 193
              VDLG  DG++       E I    E L     ++  +  + RE+
Sbjct: 328 GAFVDLGGIDGLLHITDMAWERIGHPTEMLSIDQEIEVKVLHIDREK 374


>gi|90421921|ref|YP_530291.1| 30S ribosomal protein S1 [Rhodopseudomonas palustris BisB18]
 gi|90103935|gb|ABD85972.1| SSU ribosomal protein S1P [Rhodopseudomonas palustris BisB18]
          Length = 565

 Score = 37.7 bits (87), Expect = 4.5,   Method: Composition-based stats.
 Identities = 34/191 (17%), Positives = 67/191 (35%), Gaps = 29/191 (15%)

Query: 25  DVVLSVMADSIQKA---------------ARSLYGTMSDIR-VEINPETGDISLFRLLEV 68
           +V L  + +++ +A                   +     +  V  N   G  ++     V
Sbjct: 78  EVFLDRIENALGEAVLSRDKARREESWGKLEKAFNNNEKVHGVIFNQVKGGFTVDLDGAV 137

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                    Q+ ++  RD  P ++        +  MD  R  +  +++ ++++ R  +R 
Sbjct: 138 A---FLPRSQVDIRPIRDVAPLMNNSQP--FQILKMDRRRGNIVVSRRTVLEETRAEQRQ 192

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRV 182
                 +   G++I G VK +      VDLG  DG++   +          E L  G  V
Sbjct: 193 ELVQNLE--EGQVIDGVVKNITDYGAFVDLGGIDGLLHVTDIAWRRVNHPTEVLTIGQTV 250

Query: 183 KSYIYDVRREQ 193
           K  I  +  E 
Sbjct: 251 KVKIIKINHET 261


>gi|255037232|ref|YP_003087853.1| 30S ribosomal protein S1 [Dyadobacter fermentans DSM 18053]
 gi|254949988|gb|ACT94688.1| RNA binding S1 domain protein [Dyadobacter fermentans DSM 18053]
          Length = 598

 Score = 37.7 bits (87), Expect = 4.5,   Method: Composition-based stats.
 Identities = 29/168 (17%), Positives = 67/168 (39%), Gaps = 18/168 (10%)

Query: 40  RSLYGTMSDIRVEINPETGD---ISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGV 96
           +  +     I   +   T     + +F +     E      QI +K  RD D  + +G  
Sbjct: 124 QKSFDEDVVIDANVKRRTKGGLIVDIFGI-----EAFLPGSQIDVKPIRDFD--VFVGKR 176

Query: 97  VSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV 156
           +   +  +++    V  + +++I+K  EA+R +     +   G+++ G +K +    V +
Sbjct: 177 MEVKVVKINYANDNVVVSHKILIEKDLEAQRQQILNNLE--KGQVLEGVIKNMTNFGVFI 234

Query: 157 DLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQV 198
           DLG  DG++   +          + L    ++   + D   E++   +
Sbjct: 235 DLGGVDGLLHITDISWGRINHPSDLLSLDQKLNVVVLDFDEEKKRISL 282


>gi|20067681|emb|CAD29082.1| chimeric DNA-directed DNA polymerase bf4-7 [synthetic construct]
          Length = 325

 Score = 37.7 bits (87), Expect = 4.5,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
            L + GIKT+EDL
Sbjct: 113 KLVDEGIKTLEDL 125


>gi|18311132|ref|NP_563066.1| 30S ribosomal protein S1 [Clostridium perfringens str. 13]
 gi|18145815|dbj|BAB81856.1| 30S ribosomal protein S1 [Clostridium perfringens str. 13]
          Length = 378

 Score = 37.7 bits (87), Expect = 4.5,   Method: Composition-based stats.
 Identities = 21/107 (19%), Positives = 46/107 (42%), Gaps = 8/107 (7%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG 152
           +G  +   +   +     V  +++VI +++R  E+   +     K GE   G V R+   
Sbjct: 151 VGKTLEVRVIEFNKENRKVVVSRRVIDEEIRNNEKKALWS--SIKEGEKRKGKVTRLAKF 208

Query: 153 NVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
              VD+G  +G++   +          E +  GD V+ ++ +V  ++
Sbjct: 209 GAFVDIGGVEGLVHLSDMSWSRVHKPEEVVSVGDEVEVFVSEVDMDR 255


>gi|222823679|ref|YP_002575253.1| DNA ligase, NAD-dependent [Campylobacter lari RM2100]
 gi|254781279|sp|B9KG17|DNLJ_CAMLR RecName: Full=DNA ligase; AltName: Full=Polydeoxyribonucleotide
           synthase [NAD+]
 gi|222538901|gb|ACM64002.1| DNA ligase, NAD-dependent [Campylobacter lari RM2100]
          Length = 651

 Score = 37.7 bits (87), Expect = 4.5,   Method: Composition-based stats.
 Identities = 18/112 (16%), Positives = 41/112 (36%), Gaps = 24/112 (21%)

Query: 366 INVD---EIIAHLLVAEG-FADVEELACVKISEIASIEGFDEETAVEIQGRAREY----- 416
           +N+D   E I  LL  EG   ++E +  +K  +  ++EGF E+    +            
Sbjct: 433 LNIDGLGENIVELLFKEGKITNIESIFFLKYDDFLNLEGFKEKKINNLLNAIENAKKCSL 492

Query: 417 ---LEGIDITLQKKIRELGVSEEL------------CSIPGIDSKIKVALGE 453
              +  + I    ++    +++               ++ G   ++  +L E
Sbjct: 493 SRFITALGIEHIGEVAAKKLAQSFGFDWFLQSYEAYVNLEGFGEQMAKSLQE 544


>gi|303325404|ref|ZP_07355847.1| excinuclease ABC subunit C [Desulfovibrio sp. 3_1_syn3]
 gi|302863320|gb|EFL86251.1| excinuclease ABC subunit C [Desulfovibrio sp. 3_1_syn3]
          Length = 661

 Score = 37.7 bits (87), Expect = 4.6,   Method: Composition-based stats.
 Identities = 13/66 (19%), Positives = 25/66 (37%), Gaps = 1/66 (1%)

Query: 350 NRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEI 409
            R +     +   M+   +    A LL  E F  VE +    + E+ ++ G     A  +
Sbjct: 584 RRARQGAALSGELMRLPGIGPATARLLW-ETFGSVEAMRAASLEELRALPGIGPAKAALL 642

Query: 410 QGRARE 415
           Q + + 
Sbjct: 643 QEKLKN 648


>gi|269216200|ref|ZP_06160054.1| DNA-directed RNA polymerase, beta subunit [Slackia exigua ATCC
            700122]
 gi|269130459|gb|EEZ61537.1| DNA-directed RNA polymerase, beta subunit [Slackia exigua ATCC
            700122]
          Length = 1458

 Score = 37.7 bits (87), Expect = 4.6,   Method: Composition-based stats.
 Identities = 13/88 (14%), Positives = 31/88 (35%), Gaps = 4/88 (4%)

Query: 356  NERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
             +   +    + V +  A+     G   V +L      E+  IEG   +   E+    + 
Sbjct: 1302 EDARLYLYDDLGVSQRWANKFSEAGIDTVGDLVGYTEDELLRIEGIGAKALEEL----KA 1357

Query: 416  YLEGIDITLQKKIRELGVSEELCSIPGI 443
             LE  +++          ++E+  +  +
Sbjct: 1358 GLEEHELSHLLDDELAATNDEMSQLLDM 1385


>gi|20067693|emb|CAD29088.1| chimeric DNA-directed DNA polymerase bf4-15 [synthetic construct]
          Length = 319

 Score = 37.7 bits (87), Expect = 4.6,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
            L + GIKT+EDL
Sbjct: 113 KLVDEGIKTLEDL 125


>gi|313886404|ref|ZP_07820126.1| putative ribosomal protein S1 [Porphyromonas asaccharolytica
           PR426713P-I]
 gi|312924150|gb|EFR34937.1| putative ribosomal protein S1 [Porphyromonas asaccharolytica
           PR426713P-I]
          Length = 598

 Score = 37.7 bits (87), Expect = 4.6,   Method: Composition-based stats.
 Identities = 22/82 (26%), Positives = 39/82 (47%), Gaps = 5/82 (6%)

Query: 123 REAERDRQYLEFKD--KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPG 179
              ER+  Y +     K  E++ G V  +    V+V++   S G+I  +E    ++L+ G
Sbjct: 30  MRKEREAIYDKTLTTIKENEVVMGKVMSISKREVLVNIDYKSAGIISANEFNYNKDLKVG 89

Query: 180 DRVKSYIYDVRREQRGPQVLLS 201
           D V+  +    +E R  Q+ LS
Sbjct: 90  DEVEVLVES--KEDRFGQLQLS 109


>gi|289192308|ref|YP_003458249.1| phosphoesterase RecJ domain protein [Methanocaldococcus sp.
           FS406-22]
 gi|288938758|gb|ADC69513.1| phosphoesterase RecJ domain protein [Methanocaldococcus sp.
           FS406-22]
          Length = 760

 Score = 37.7 bits (87), Expect = 4.6,   Method: Composition-based stats.
 Identities = 29/113 (25%), Positives = 47/113 (41%), Gaps = 19/113 (16%)

Query: 130 QYLE---FKDKV-GEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETI--SRENLRPGDRV 182
            + E   F D   G+   G V R+E     ++L     G++R  + I    ENL  GD +
Sbjct: 122 VFDELATFYDVEPGKFYKGVVTRIEKYGAFINLNEQVRGLLRPRDMISLKLENLNIGDEI 181

Query: 183 KSYIYDVRREQRGP---QVLLSRTHPQFMVKLFHMEVP-----EIYNGIVQVK 227
                DVR E+R      + L  T    +   +  EVP     +I   +V+++
Sbjct: 182 IVQAIDVRPEKREIDFKYIPL--TTYDLVK--YEKEVPLTQIKDISQNLVEMR 230


>gi|225680123|gb|EEH18407.1| rRNA biogenesis protein RRP5 [Paracoccidioides brasiliensis Pb03]
          Length = 1175

 Score = 37.7 bits (87), Expect = 4.6,   Method: Composition-based stats.
 Identities = 27/103 (26%), Positives = 41/103 (39%), Gaps = 15/103 (14%)

Query: 127 RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-----GNSDGVIRRDET---ISRENLRP 178
             R   +F    GEI+ G V +V    V+V L     G  + +   D+    I   N   
Sbjct: 538 NKRTISDFS--KGEILLGRVTKVSDRQVLVQLSDTTVGAINLIDMADDYTKVIPA-NFHK 594

Query: 179 GDRVKSYIYDVRREQRGPQVLLS-RTHPQFMVKLFHMEVPEIY 220
            + ++  I DV    +  ++LLS R        L  +E PEI 
Sbjct: 595 NEVLRVCILDVDVPNK--KILLSVRPSRVLSSSL-PIEDPEIK 634


>gi|215273536|dbj|BAG85031.1| putative polyketide synthase [Streptomyces lasaliensis]
          Length = 1904

 Score = 37.7 bits (87), Expect = 4.6,   Method: Composition-based stats.
 Identities = 22/80 (27%), Positives = 35/80 (43%), Gaps = 9/80 (11%)

Query: 394  EIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGE 453
            EI ++   D E A       RE L  + +     +RE G+ + L S+ G D  +     E
Sbjct: 1823 EIGAVPHVDPEEAA-----VREALASLSLQQ---LREAGLVDVLLSLAGGDDAMAGTGSE 1874

Query: 454  NGIKTMEDLAGCSVDDLLGW 473
               +T+  +A   VDDL+  
Sbjct: 1875 AEEETL-SIATMDVDDLVQL 1893


>gi|197244386|emb|CAQ64691.1| lasalocid modular polyketide synthase [Streptomyces lasaliensis]
          Length = 1877

 Score = 37.7 bits (87), Expect = 4.6,   Method: Composition-based stats.
 Identities = 22/80 (27%), Positives = 35/80 (43%), Gaps = 9/80 (11%)

Query: 394  EIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGE 453
            EI ++   D E A       RE L  + +     +RE G+ + L S+ G D  +     E
Sbjct: 1796 EIGAVPHVDPEEAA-----VREALASLSLQQ---LREAGLVDVLLSLAGGDDAMAGTGSE 1847

Query: 454  NGIKTMEDLAGCSVDDLLGW 473
               +T+  +A   VDDL+  
Sbjct: 1848 AEEETL-SIATMDVDDLVQL 1866


>gi|254252927|ref|ZP_04946245.1| Ribosomal protein S1 [Burkholderia dolosa AUO158]
 gi|124895536|gb|EAY69416.1| Ribosomal protein S1 [Burkholderia dolosa AUO158]
          Length = 596

 Score = 37.7 bits (87), Expect = 4.6,   Method: Composition-based stats.
 Identities = 27/114 (23%), Positives = 47/114 (41%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +D +   G  +   +  +D  R  V  +++ +I+  +  ER +     K   G I++G V
Sbjct: 177 KDTTPYEGKTLEFRVIKLDRKRNNVVLSRRAVIEATQGEERAKLLETLK--EGAIVNGVV 234

Query: 147 KRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++       R      E L  G  V + I    +E+ 
Sbjct: 235 KNITDYGAFVDLGGIDGLLHITDIAWRRVRHPSEVLSVGQEVTAKILKFDQEKN 288



 Score = 37.7 bits (87), Expect = 4.8,   Method: Composition-based stats.
 Identities = 29/121 (23%), Positives = 51/121 (42%), Gaps = 19/121 (15%)

Query: 90  SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK--VGEIISGTVK 147
               G  V   +  +D         K+ I   +++ E D  +  +      G ++ G VK
Sbjct: 443 KYKKGDEVEAVVLGIDVE-------KERISLGIKQLEGDP-FSNYVAMNDKGSLVDGVVK 494

Query: 148 RVE-YGNVIVDLGNSDGVIRRDETIS------RENLRPGDRVKSYIYDVRREQRGPQVLL 200
            V+  G VI   G+ +G +R  E         R  L+ GD+V + + ++ R+ RG  + L
Sbjct: 495 SVDAKGAVITLTGDVEGYLRASEISQDRVEDARNVLKEGDKVNAMVINIDRKSRG--INL 552

Query: 201 S 201
           S
Sbjct: 553 S 553


>gi|86157945|ref|YP_464730.1| 30S ribosomal protein S1 [Anaeromyxobacter dehalogenans 2CP-C]
 gi|197122752|ref|YP_002134703.1| 30S ribosomal protein S1 [Anaeromyxobacter sp. K]
 gi|220917535|ref|YP_002492839.1| ribosomal protein S1 [Anaeromyxobacter dehalogenans 2CP-1]
 gi|85774456|gb|ABC81293.1| SSU ribosomal protein S1P [Anaeromyxobacter dehalogenans 2CP-C]
 gi|196172601|gb|ACG73574.1| ribosomal protein S1 [Anaeromyxobacter sp. K]
 gi|219955389|gb|ACL65773.1| ribosomal protein S1 [Anaeromyxobacter dehalogenans 2CP-1]
          Length = 568

 Score = 37.7 bits (87), Expect = 4.6,   Method: Composition-based stats.
 Identities = 14/63 (22%), Positives = 22/63 (34%), Gaps = 6/63 (9%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVR 190
           K G I+ G VK +      +DLG  DG++   +          E    G  V+  +    
Sbjct: 202 KEGAILKGVVKNLTDYGAFIDLGGIDGLLHVTDMSWGRIGHPSEMFEVGQEVRVVVLKFD 261

Query: 191 REQ 193
              
Sbjct: 262 PTS 264


>gi|322379236|ref|ZP_08053627.1| 30S ribosomal protein S1 [Helicobacter suis HS1]
 gi|322379691|ref|ZP_08054004.1| 30S ribosomal protein S1 [Helicobacter suis HS5]
 gi|321147840|gb|EFX42427.1| 30S ribosomal protein S1 [Helicobacter suis HS5]
 gi|321148376|gb|EFX42885.1| 30S ribosomal protein S1 [Helicobacter suis HS1]
          Length = 563

 Score = 37.7 bits (87), Expect = 4.6,   Method: Composition-based stats.
 Identities = 18/83 (21%), Positives = 37/83 (44%), Gaps = 6/83 (7%)

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV-DLGNSDGVIRRDE-TISRENLRPG 179
           ++  E+ +   E  D   +II G + R   G  I+ D    +  + + + ++ RE+   G
Sbjct: 112 IKNQEKIQALGE--DYKDKIIEGKITRENKGGYIITDAEGVEYFLSKSQSSLKRESKHCG 169

Query: 180 DRVKSYIYDVRREQRGPQVLLSR 202
             +K+ I  +  E     + +SR
Sbjct: 170 KHIKACIIAINPENG--SISVSR 190


>gi|291409035|ref|XP_002720811.1| PREDICTED: DNA-directed DNA polymerase beta [Oryctolagus cuniculus]
          Length = 335

 Score = 37.7 bits (87), Expect = 4.6,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVSGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
              + GIKT+EDL
Sbjct: 113 KFVDEGIKTLEDL 125


>gi|293400548|ref|ZP_06644693.1| polyribonucleotide nucleotidyltransferase [Erysipelotrichaceae
           bacterium 5_2_54FAA]
 gi|291305574|gb|EFE46818.1| polyribonucleotide nucleotidyltransferase [Erysipelotrichaceae
           bacterium 5_2_54FAA]
          Length = 738

 Score = 37.7 bits (87), Expect = 4.6,   Method: Composition-based stats.
 Identities = 26/123 (21%), Positives = 44/123 (35%), Gaps = 24/123 (19%)

Query: 85  RDRDPSIDIGGVVSDPLPPM------DFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           +  +  I+    V   +            R A+  A  +I   VR A           KV
Sbjct: 584 KMINKIIEACDEVKIDIEDDGHVVIYHMNREAITKAANMIRDIVRVA-----------KV 632

Query: 139 GEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETIS------RENLRPGDRVKSYIYDVRR 191
           G+I  G V R+E     V+L   +DG++   +          + L  GD +K  + ++  
Sbjct: 633 GDIYEGKVVRIEKFGAFVNLFPGTDGLLHISKICHERVEKVEDKLNIGDTIKVKVMEIDD 692

Query: 192 EQR 194
             R
Sbjct: 693 RGR 695


>gi|256811040|ref|YP_003128409.1| phosphoesterase RecJ domain protein [Methanocaldococcus fervens
           AG86]
 gi|256794240|gb|ACV24909.1| phosphoesterase RecJ domain protein [Methanocaldococcus fervens
           AG86]
          Length = 760

 Score = 37.7 bits (87), Expect = 4.6,   Method: Composition-based stats.
 Identities = 29/113 (25%), Positives = 47/113 (41%), Gaps = 19/113 (16%)

Query: 130 QYLE---FKDKV-GEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETI--SRENLRPGDRV 182
            + E   F D   G+   G V R+E     ++L     G++R  + I    ENL  GD +
Sbjct: 122 VFDELATFHDVEPGKFYKGVVTRIEKYGAFINLNEQVRGLLRPRDMISLKLENLNIGDEI 181

Query: 183 KSYIYDVRREQRGP---QVLLSRTHPQFMVKLFHMEVP-----EIYNGIVQVK 227
                DVR E+R      + L  T    +   +  E+P     +I   +V++K
Sbjct: 182 IVQAIDVRPEKREIDFKYIPL--TTYDLVK--YEKEIPLTNIKDISQNLVEMK 230


>gi|162218058|ref|YP_620452.2| 30S ribosomal protein S1 [Burkholderia cenocepacia AU 1054]
          Length = 570

 Score = 37.7 bits (87), Expect = 4.6,   Method: Composition-based stats.
 Identities = 22/71 (30%), Positives = 36/71 (50%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G I+ G VK V+    +V L G+ +G +R  E         R  L+ GD+V + + ++ 
Sbjct: 459 KGSIVDGVVKTVDAKGAVVTLTGDIEGYLRASEISQDRVEDARNVLKEGDKVNAMVINID 518

Query: 191 REQRGPQVLLS 201
           R+ RG  + LS
Sbjct: 519 RKSRG--INLS 527



 Score = 37.4 bits (86), Expect = 6.6,   Method: Composition-based stats.
 Identities = 27/114 (23%), Positives = 47/114 (41%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +D +   G  +   +  +D  R  V  +++ +I+  +  ER +     K   G I++G V
Sbjct: 151 KDTTPYEGKTLEFRVIKLDRKRNNVVLSRRAVIEATQGEERAKLLETLK--EGAIVNGVV 208

Query: 147 KRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++       R      E L  G  V + I    +E+ 
Sbjct: 209 KNITDYGAFVDLGGIDGLLHITDIAWRRVRHPSEVLSVGQEVTAKILKFDQEKN 262


>gi|148232172|ref|NP_001081643.1| DNA polymerase beta [Xenopus laevis]
 gi|6015014|sp|O57383|DPOLB_XENLA RecName: Full=DNA polymerase beta
 gi|2661842|emb|CAA75741.1| DNA polymerase beta [Xenopus laevis]
 gi|76780321|gb|AAI06330.1| PolB protein [Xenopus laevis]
          Length = 334

 Score = 37.7 bits (87), Expect = 4.6,   Method: Composition-based stats.
 Identities = 19/72 (26%), Positives = 31/72 (43%), Gaps = 7/72 (9%)

Query: 394 EIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKVA 450
           E   ++G   + A +I     E+L    +   +KIR+   S     L  + GI       
Sbjct: 58  EAKKLDGVGAKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPAAARK 113

Query: 451 LGENGIKTMEDL 462
             + GIKT++DL
Sbjct: 114 FFDEGIKTLDDL 125


>gi|257064681|ref|YP_003144353.1| DNA-directed RNA polymerase subunit beta' [Slackia heliotrinireducens
            DSM 20476]
 gi|256792334|gb|ACV23004.1| DNA-directed RNA polymerase subunit beta' [Slackia heliotrinireducens
            DSM 20476]
          Length = 1463

 Score = 37.7 bits (87), Expect = 4.7,   Method: Composition-based stats.
 Identities = 12/85 (14%), Positives = 29/85 (34%), Gaps = 1/85 (1%)

Query: 356  NERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
             +   +    + V +  A+     G   V +L      E+  IEG   +   E++   ++
Sbjct: 1303 EDARLYLYDDLGVSQRWANKFSEAGIETVGDLVGYTEDELLRIEGIGAKALEELKAGLQD 1362

Query: 416  YLEGIDITLQKKIRELGVSEELCSI 440
            +     +          +S+ L  +
Sbjct: 1363 HGLESLLEDDLTATNDEMSQ-LLDM 1386


>gi|161702964|ref|YP_368401.2| 30S ribosomal protein S1 [Burkholderia sp. 383]
          Length = 570

 Score = 37.7 bits (87), Expect = 4.7,   Method: Composition-based stats.
 Identities = 22/71 (30%), Positives = 36/71 (50%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G I+ G VK V+    +V L G+ +G +R  E         R  L+ GD+V + + ++ 
Sbjct: 459 KGSIVDGVVKTVDAKGAVVTLTGDIEGYLRASEISQDRVEDARNVLKEGDKVNAMVINID 518

Query: 191 REQRGPQVLLS 201
           R+ RG  + LS
Sbjct: 519 RKSRG--INLS 527



 Score = 37.4 bits (86), Expect = 6.5,   Method: Composition-based stats.
 Identities = 27/114 (23%), Positives = 47/114 (41%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +D +   G  +   +  +D  R  V  +++ +I+  +  ER +     K   G I++G V
Sbjct: 151 KDTTPYEGKTLEFRVIKLDRKRNNVVLSRRAVIEATQGEERAKLLETLK--EGAIVNGVV 208

Query: 147 KRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++       R      E L  G  V + I    +E+ 
Sbjct: 209 KNITDYGAFVDLGGIDGLLHITDIAWRRVRHPSEVLSVGQEVTAKILKFDQEKN 262


>gi|94266546|ref|ZP_01290232.1| Ribosomal protein S1 [delta proteobacterium MLMS-1]
 gi|93452821|gb|EAT03347.1| Ribosomal protein S1 [delta proteobacterium MLMS-1]
          Length = 570

 Score = 37.7 bits (87), Expect = 4.7,   Method: Composition-based stats.
 Identities = 28/127 (22%), Positives = 51/127 (40%), Gaps = 14/127 (11%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              QI L+  RD D    IG      +   +  R  V  +++ I+    E  R +   E 
Sbjct: 141 PYSQIDLRPVRDLD--ALIGESFDFKILKFNRRRNNVVISRRAIM----EEARQQLRNEM 194

Query: 135 KD--KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYI 186
           +   + G++++GTV  +    V VDLG  DG+    +          +  + GD ++  +
Sbjct: 195 RGTLEEGQVLTGTVTNITDYGVFVDLGGMDGLCHITDLSWGRVSHPSKMFKVGDEIQVKV 254

Query: 187 YDVRREQ 193
               +E 
Sbjct: 255 LKYDQEN 261


>gi|118579778|ref|YP_901028.1| ribosomal protein S1 [Pelobacter propionicus DSM 2379]
 gi|118502488|gb|ABK98970.1| SSU ribosomal protein S1P [Pelobacter propionicus DSM 2379]
          Length = 579

 Score = 37.7 bits (87), Expect = 4.7,   Method: Composition-based stats.
 Identities = 28/125 (22%), Positives = 52/125 (41%), Gaps = 8/125 (6%)

Query: 88  DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVK 147
           D    IG      +  ++  R  +  +++ I+ + R A RD    + +   G+I+ G VK
Sbjct: 163 DSDSYIGLTSKFKVIKLNQRRDNIVLSRRAILDEERAASRDVTLAKLE--EGQIVEGVVK 220

Query: 148 RVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
            V      VDLG  DG++   +          + L+PG  V + +    R +    + + 
Sbjct: 221 NVTEYGAFVDLGGVDGLLHVSDLSWGRVGKPADVLKPGQTVTAKVLKFDRTKGKISLGVK 280

Query: 202 RTHPQ 206
           +T P 
Sbjct: 281 QTLPD 285


>gi|332027963|gb|EGI68014.1| DNA polymerase beta [Acromyrmex echinatior]
          Length = 337

 Score = 37.7 bits (87), Expect = 4.7,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 34/73 (46%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIR--ELGVSEELCS-IPGIDSKIKV 449
            E   + G   + A +I     E+L+   +   + I+  +  V+  L + + GI      
Sbjct: 59  EEAKKLPGIGVKIAKKI----DEFLQTGKLQKLEDIKKDDTNVAISLLARVSGIGPAKAK 114

Query: 450 ALGENGIKTMEDL 462
            L E+GIKT+EDL
Sbjct: 115 ELVESGIKTLEDL 127


>gi|296238083|ref|XP_002764014.1| PREDICTED: DNA repair protein RAD51 homolog 3-like [Callithrix
           jacchus]
          Length = 201

 Score = 37.7 bits (87), Expect = 4.7,   Method: Composition-based stats.
 Identities = 19/46 (41%), Positives = 25/46 (54%), Gaps = 1/46 (2%)

Query: 376 LVAEGFADVEELACVKISEIASIEGFDEETAVE-IQGRAREYLEGI 420
           LV+ GF   EEL  VK SE++   G  +E A+E +Q   RE L   
Sbjct: 93  LVSAGFQTAEELLEVKPSELSKEVGISKEEALETLQIIRRECLTNK 138


>gi|316931461|ref|YP_004106443.1| 30S ribosomal protein S1 [Rhodopseudomonas palustris DX-1]
 gi|315599175|gb|ADU41710.1| ribosomal protein S1 [Rhodopseudomonas palustris DX-1]
          Length = 565

 Score = 37.7 bits (87), Expect = 4.7,   Method: Composition-based stats.
 Identities = 34/191 (17%), Positives = 67/191 (35%), Gaps = 29/191 (15%)

Query: 25  DVVLSVMADSIQKA---------------ARSLYGTMSDIR-VEINPETGDISLFRLLEV 68
           +V L  + +++ +A                   +     +  V  N   G  ++     V
Sbjct: 78  EVFLDRIENALGEAVLSRDKARREESWGKLEKAFNNNEKVFGVIFNQVKGGFTVDLDGAV 137

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                    Q+ ++  RD  P ++        +  MD  R  +  +++ ++++ R  +R 
Sbjct: 138 A---FLPRSQVDIRPIRDVAPLMNNSQP--FQILKMDRRRGNIVVSRRTVLEETRAEQRQ 192

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRV 182
                 +   G++I G VK +      VDLG  DG++   +          E L  G  V
Sbjct: 193 ELVQNLE--EGQVIDGVVKNITDYGAFVDLGGIDGLLHVTDIAWRRVNHPTEVLTIGQTV 250

Query: 183 KSYIYDVRREQ 193
           K  I  +  E 
Sbjct: 251 KVKIIKINHET 261


>gi|20067697|emb|CAD29090.1| chimeric DNA-directed DNA polymerase bf4-17 [synthetic construct]
          Length = 319

 Score = 37.7 bits (87), Expect = 4.7,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
            L + GIKT+EDL
Sbjct: 113 KLVDEGIKTLEDL 125


>gi|289522353|ref|ZP_06439207.1| DNA ligase, NAD-dependent [Anaerobaculum hydrogeniformans ATCC
           BAA-1850]
 gi|289504189|gb|EFD25353.1| DNA ligase, NAD-dependent [Anaerobaculum hydrogeniformans ATCC
           BAA-1850]
          Length = 674

 Score = 37.7 bits (87), Expect = 4.8,   Method: Composition-based stats.
 Identities = 33/176 (18%), Positives = 65/176 (36%), Gaps = 42/176 (23%)

Query: 363 MQAINVDEIIAHLLVAE----GFADVEELACVKISEIASIEGFDEETAVEIQGRAR---- 414
           M    + E I   LV +    GFAD+ +L   K  ++ S++    ++A ++         
Sbjct: 448 MDIKGLGEKIIEQLVDKKMIGGFADLYKL---KKEDLISLDRMGPKSAEKLINAINSSKN 504

Query: 415 -------------------EYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALG--- 452
                                +          + +  + ++L  IPGI  +I  ++    
Sbjct: 505 RPLSRLIYALGIRYVGSRTAEILAERFKSMDNLAKADI-QDLSDIPGIGPQIASSIVAFF 563

Query: 453 --ENGIKTMEDLAGCSVDDLLGWSENKGGNIEK----FDGFLSSLGTPKDQVESMI 502
             E  + T++DLA C +      SE + G  E     F G L      +++ E+++
Sbjct: 564 RDEKNLATIKDLARCGIKMAEEESERQEGPWEGWKIVFTGELEKA--TRNEAENIV 617


>gi|254796773|ref|YP_003081609.1| ribosomal protein S1 [Neorickettsia risticii str. Illinois]
 gi|254590014|gb|ACT69376.1| ribosomal protein S1 [Neorickettsia risticii str. Illinois]
          Length = 553

 Score = 37.7 bits (87), Expect = 4.8,   Method: Composition-based stats.
 Identities = 21/83 (25%), Positives = 35/83 (42%), Gaps = 7/83 (8%)

Query: 124 EAERDRQYLE-FKD---KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           E +      E F D   K G+++ G VK +    V+V+LG  S+G I   +      L  
Sbjct: 27  EEDFTTILEERFSDSLIKEGDMVEGVVKSISPHFVLVNLGLKSEGKIPVQQFHDLGTLEV 86

Query: 179 GDRVKSYIYDVRREQRGPQVLLS 201
           G ++  Y+           ++LS
Sbjct: 87  GSKIVVYVEKTETGSGN--LVLS 107


>gi|190574938|ref|YP_001972783.1| putative UV protection and mutation protein [Stenotrophomonas
           maltophilia K279a]
 gi|190012860|emb|CAQ46489.1| putative UV protection and mutation protein [Stenotrophomonas
           maltophilia K279a]
          Length = 429

 Score = 37.7 bits (87), Expect = 4.8,   Method: Composition-based stats.
 Identities = 38/197 (19%), Positives = 67/197 (34%), Gaps = 31/197 (15%)

Query: 327 NVRLASQLTGWTIDIITE--EEDSINRQKDFNERTQFF--MQAINVDEIIAHLLVAEGFA 382
           NVR       W I   +           +  +     F  ++  ++DE    L    G  
Sbjct: 70  NVR-------WQITFRSANFALYGDISTRIASILRDLFPAIEQYSIDENFIDL---AGIP 119

Query: 383 DV--EELACVKISEIASIEGFDE-------ETAVEIQG-RAREYLEGIDITLQK--KIRE 430
               E LA    + I    G          +T  ++   RA+  +EG+  T+     +  
Sbjct: 120 SKDHERLAAEARARILKWTGIPSCVGIGPTKTLAKLSNKRAKSTVEGVVTTMPDDPALLT 179

Query: 431 LGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSS 490
             V ++     G+  K+   LG +GI T  DLA   VD L           ++    +S 
Sbjct: 180 YPVEDDW----GVGRKLTARLGADGILTAGDLAAADVDTLRSRYGVVMARTQRELQGISC 235

Query: 491 LGTPKDQVE-SMIIHAR 506
               + + +   I+ +R
Sbjct: 236 ADLEEHEAQRKEIMVSR 252


>gi|73979123|ref|XP_856384.1| PREDICTED: similar to polymerase (DNA directed), beta isoform 3
           [Canis familiaris]
          Length = 306

 Score = 37.7 bits (87), Expect = 4.8,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVSGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
              + GIKT+EDL
Sbjct: 113 KFVDEGIKTLEDL 125


>gi|313229517|emb|CBY18332.1| unnamed protein product [Oikopleura dioica]
          Length = 488

 Score = 37.7 bits (87), Expect = 4.8,   Method: Composition-based stats.
 Identities = 28/119 (23%), Positives = 44/119 (36%), Gaps = 33/119 (27%)

Query: 251 VGACVGMRGSRVQAVVTEL-------RDEKIDIVVWSPDSATFVINALRPAIVTK----- 298
           VG  +G +GS++  +  E         +EK        D    V  +  PA VT+     
Sbjct: 34  VGTLIGRKGSKIMQIREESGCEVKIKGNEK--------DIERIVSVSGSPAGVTRAIGKV 85

Query: 299 ---VVLDEDVG----------RIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITE 344
              V  D + G           + +IVP  Q    IG+ G  ++   + TG  + I  E
Sbjct: 86  GEFVEADLNDGLTGRTTKIPVTLHMIVPTGQCGSIIGKGGFRIKEIREKTGCNVKIANE 144


>gi|298373340|ref|ZP_06983329.1| ribosomal protein S1 [Bacteroidetes oral taxon 274 str. F0058]
 gi|298274392|gb|EFI15944.1| ribosomal protein S1 [Bacteroidetes oral taxon 274 str. F0058]
          Length = 606

 Score = 37.7 bits (87), Expect = 4.8,   Method: Composition-based stats.
 Identities = 23/63 (36%), Positives = 37/63 (58%), Gaps = 3/63 (4%)

Query: 140 EIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQV 198
           E++ GTV  +    V+V++G  SDGVI   E     +L+ GD+V+ +I    +E +  Q+
Sbjct: 57  EVVEGTVVSINKREVVVNIGYKSDGVIPYAEFRYNPDLKVGDKVEVFIE--NQEDKKGQL 114

Query: 199 LLS 201
           LLS
Sbjct: 115 LLS 117


>gi|163756082|ref|ZP_02163198.1| 30S ribosomal protein S1 [Kordia algicida OT-1]
 gi|161323956|gb|EDP95289.1| 30S ribosomal protein S1 [Kordia algicida OT-1]
          Length = 591

 Score = 37.7 bits (87), Expect = 4.8,   Method: Composition-based stats.
 Identities = 28/134 (20%), Positives = 51/134 (38%), Gaps = 10/134 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +K  RD D  ++            +F  V V   K +I   + E +++  
Sbjct: 161 EAFLPGSQIDVKPIRDYDQYVNKTMEFKVVKINHEFKNVVVSH-KALIEADIEEQKKEII 219

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
             + +   G+++ G VK +    V +DLG  DG+I   +          E +    ++  
Sbjct: 220 -GQLE--KGQVLEGVVKNITSYGVFIDLGGVDGLIHITDLSWSRINHPNEVVELDQKLNV 276

Query: 185 YIYDVRREQRGPQV 198
            I D    +   Q+
Sbjct: 277 VILDFDDNKSRIQL 290


>gi|254520236|ref|ZP_05132292.1| RNA binding S1 domain-containing protein [Clostridium sp.
           7_2_43FAA]
 gi|226913985|gb|EEH99186.1| RNA binding S1 domain-containing protein [Clostridium sp.
           7_2_43FAA]
          Length = 382

 Score = 37.7 bits (87), Expect = 4.8,   Method: Composition-based stats.
 Identities = 25/114 (21%), Positives = 55/114 (48%), Gaps = 8/114 (7%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG 152
           +G  +   +  +DF    + ++++V+   + E ++   +   K   GE  +G VK++   
Sbjct: 153 VGKEIEVRIIELDFKSRKIVASRRVLEDVIYENKKKELWKSVKS--GEKRNGVVKKIIKA 210

Query: 153 NVIVDLGNSDGVIRRDE----TISR--ENLRPGDRVKSYIYDVRREQRGPQVLL 200
             IVD+G   G+I  ++     I R  + +  GD+V+ +I +V  +     ++L
Sbjct: 211 GAIVDIGGITGLIHLNDLSWSRIHRAEDVVNIGDKVEVFIGEVDVKNERVSLIL 264


>gi|159026257|emb|CAO86406.1| unnamed protein product [Microcystis aeruginosa PCC 7806]
          Length = 293

 Score = 37.7 bits (87), Expect = 4.8,   Method: Composition-based stats.
 Identities = 27/132 (20%), Positives = 50/132 (37%), Gaps = 22/132 (16%)

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDET---- 170
           K V+ Q  RE  R     +    VG+++SGTV +++   V VD G   G++   +     
Sbjct: 171 KLVLSQ--REIARANAISQLA--VGKLLSGTVVKLQPYGVFVDCGGVTGLLHAKQVTGAS 226

Query: 171 --ISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKA 228
                   + G  ++  + ++   +   ++ LS        K+      EI     +V  
Sbjct: 227 FNSPMTFFKVGQAIQVVVAEIDEYKN--RISLS-------TKILEAHPGEILENFAEVME 277

Query: 229 VSRDPGSRAKLA 240
            +     R K A
Sbjct: 278 TA---AERLKQA 286


>gi|332665281|ref|YP_004448069.1| RNA binding S1 domain-containing protein [Haliscomenobacter
           hydrossis DSM 1100]
 gi|332334095|gb|AEE51196.1| RNA binding S1 domain protein [Haliscomenobacter hydrossis DSM
           1100]
          Length = 778

 Score = 37.7 bits (87), Expect = 4.9,   Method: Composition-based stats.
 Identities = 26/129 (20%), Positives = 48/129 (37%), Gaps = 7/129 (5%)

Query: 39  ARSLYGTMSDIRVEINPETGDISLFRLLEVVEEV-ENYTCQISLKVARDRDPSIDIGGVV 97
             + Y +  +  VE     G ++     +VV ++       + L   RD  P + IG +V
Sbjct: 176 YLTQYESTMNAVVESEIVKGRVTSVNGGDVVLDINYKSDGLVPLSEFRDT-PDLQIGDLV 234

Query: 98  SDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVD 157
              +   +  R   Q        K+  A  +     +++  G +I GTV     G +IVD
Sbjct: 235 EVYVEQQEDLRG--QLVLSRRKAKLLRA-WESIVDSYEN--GTVIKGTVISKTKGGLIVD 289

Query: 158 LGNSDGVIR 166
               +  + 
Sbjct: 290 CSGLETFLP 298


>gi|322368119|ref|ZP_08042688.1| DNA repair and recombination protein RadA [Haladaptatus
           paucihalophilus DX253]
 gi|320552135|gb|EFW93780.1| DNA repair and recombination protein RadA [Haladaptatus
           paucihalophilus DX253]
          Length = 343

 Score = 37.7 bits (87), Expect = 4.9,   Method: Composition-based stats.
 Identities = 13/50 (26%), Positives = 20/50 (40%)

Query: 366 INVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
             V    A  L   GF   + LA     E+++     E T+ +I   AR+
Sbjct: 10  PGVGPATAEKLRDAGFDSYQSLAVASPGELSNTADVGESTSADIIQAARK 59


>gi|291166519|gb|EFE28565.1| DNA ligase, NAD-dependent [Filifactor alocis ATCC 35896]
          Length = 668

 Score = 37.7 bits (87), Expect = 4.9,   Method: Composition-based stats.
 Identities = 17/95 (17%), Positives = 36/95 (37%), Gaps = 7/95 (7%)

Query: 342 ITEEEDSINRQKDFNERTQFFMQAINVD---EIIAHLLVAEGFADVEELACVKISEIASI 398
            +      +     +      + A+ +D   E  A +L    F+ +EEL    + ++  I
Sbjct: 489 KSASNLISSINHSKSRNLNQLLVALGIDFVGEKAAKVLSKN-FSSLEELEKANLDDLMRI 547

Query: 399 EGFDEETAVEIQGRAREYLEGIDITLQKKIRELGV 433
           E    +TA  I      +    +  + +++ E GV
Sbjct: 548 EEIGLKTAQSILNY---FQLEENRAVLERLVEYGV 579


>gi|237742908|ref|ZP_04573389.1| LytB protein [Fusobacterium sp. 4_1_13]
 gi|229430556|gb|EEO40768.1| LytB protein [Fusobacterium sp. 4_1_13]
          Length = 827

 Score = 37.7 bits (87), Expect = 4.9,   Method: Composition-based stats.
 Identities = 24/120 (20%), Positives = 51/120 (42%), Gaps = 13/120 (10%)

Query: 86  DRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGT 145
           +  P  +IG  V   +  +D     ++ + +     +R++  +    E+K  VG  +   
Sbjct: 686 EETPKFEIGNEVELKITELDLNDKKIKGSLKA----LRKSPWEHAMEEYK--VGTTVEKK 739

Query: 146 VKRVEYGNVIVDLGN-SDGVIR----RDETIS--RENLRPGDRVKSYIYDVRREQRGPQV 198
           +K V    + ++L    DG I       E I   R+    GD VK+ + +V ++ +  ++
Sbjct: 740 IKTVADFGLFIELTKGIDGFIPTQFASKEFIKNIRDKFNEGDIVKAQVVEVNKDTQKIKL 799


>gi|298346799|ref|YP_003719486.1| 30S ribosomal protein S1 [Mobiluncus curtisii ATCC 43063]
 gi|304389496|ref|ZP_07371459.1| 30S ribosomal protein S1 [Mobiluncus curtisii subsp. curtisii ATCC
           35241]
 gi|298236860|gb|ADI67992.1| 30S ribosomal protein S1 [Mobiluncus curtisii ATCC 43063]
 gi|304327306|gb|EFL94541.1| 30S ribosomal protein S1 [Mobiluncus curtisii subsp. curtisii ATCC
           35241]
          Length = 489

 Score = 37.7 bits (87), Expect = 4.9,   Method: Composition-based stats.
 Identities = 27/111 (24%), Positives = 59/111 (53%), Gaps = 13/111 (11%)

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRE 174
           ++E ++  +Y  F D  G+++SGTV +V+   V++D+G  ++GVI   E           
Sbjct: 25  IKEIDKTIKY--FND--GDLVSGTVVKVDRDEVLLDIGYKTEGVILSRELSIKHDVDPDA 80

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
            ++ GD +++ +   ++E +  ++LLS+   Q+      +E  +  +G+V 
Sbjct: 81  EVKVGDEIEALVL--QKEDKEGRLLLSKKRAQYERAWGDIEKVKQEDGVVT 129


>gi|218884027|ref|YP_002428409.1| DEAD/DEAH box helicase domain protein [Desulfurococcus
           kamchatkensis 1221n]
 gi|218765643|gb|ACL11042.1| DEAD/DEAH box helicase domain protein [Desulfurococcus
           kamchatkensis 1221n]
          Length = 717

 Score = 37.7 bits (87), Expect = 4.9,   Method: Composition-based stats.
 Identities = 14/43 (32%), Positives = 23/43 (53%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
           A +L+  G   + +LA   +S+IAS+  F    A EI  + R+
Sbjct: 669 ARILIQHGIKSLRDLAETPLSKIASLPKFGPRIAEEIDRQLRD 711


>gi|110799693|ref|YP_696828.1| 30S ribosomal protein S1 [Clostridium perfringens ATCC 13124]
 gi|168208852|ref|ZP_02634477.1| ribosomal protein S1 family [Clostridium perfringens B str. ATCC
           3626]
 gi|168215777|ref|ZP_02641402.1| ribosomal protein S1 family [Clostridium perfringens NCTC 8239]
 gi|110674340|gb|ABG83327.1| ribosomal protein S1 family [Clostridium perfringens ATCC 13124]
 gi|170713092|gb|EDT25274.1| ribosomal protein S1 family [Clostridium perfringens B str. ATCC
           3626]
 gi|182382017|gb|EDT79496.1| ribosomal protein S1 family [Clostridium perfringens NCTC 8239]
          Length = 378

 Score = 37.7 bits (87), Expect = 4.9,   Method: Composition-based stats.
 Identities = 21/107 (19%), Positives = 46/107 (42%), Gaps = 8/107 (7%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG 152
           +G  +   +   +     V  +++VI +++R  E+   +     K GE   G V R+   
Sbjct: 151 VGKTLEVRVIEFNKENRKVVVSRRVIDEEIRNNEKKALWS--SIKEGEKRKGKVTRLAKF 208

Query: 153 NVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
              VD+G  +G++   +          E +  GD V+ ++ +V  ++
Sbjct: 209 GAFVDIGGVEGLVHLSDMSWSRVHKPEEVVSVGDEVEVFVSEVDMDR 255


>gi|294784220|ref|ZP_06749515.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Fusobacterium
           sp. 3_1_27]
 gi|294488086|gb|EFG35437.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Fusobacterium
           sp. 3_1_27]
          Length = 827

 Score = 37.7 bits (87), Expect = 4.9,   Method: Composition-based stats.
 Identities = 24/120 (20%), Positives = 51/120 (42%), Gaps = 13/120 (10%)

Query: 86  DRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGT 145
           +  P  +IG  V   +  +D     ++ + +     +R++  +    E+K  VG  +   
Sbjct: 686 EETPKFEIGNEVELKITELDLNDKKIKGSLKA----LRKSPWEHAMEEYK--VGTTVEKK 739

Query: 146 VKRVEYGNVIVDLGN-SDGVIR----RDETIS--RENLRPGDRVKSYIYDVRREQRGPQV 198
           +K V    + ++L    DG I       E I   R+    GD VK+ + +V ++ +  ++
Sbjct: 740 IKTVADFGLFIELTKGIDGFIPTQFASKEFIKNIRDKFNEGDIVKAQVVEVNKDTQKIKL 799


>gi|259503206|ref|ZP_05746108.1| 30S ribosomal protein S1 [Lactobacillus antri DSM 16041]
 gi|259168863|gb|EEW53358.1| 30S ribosomal protein S1 [Lactobacillus antri DSM 16041]
          Length = 413

 Score = 37.7 bits (87), Expect = 4.9,   Method: Composition-based stats.
 Identities = 20/106 (18%), Positives = 43/106 (40%), Gaps = 8/106 (7%)

Query: 94  GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN 153
           G  +   +  ++     +  + + I++   E   ++ + E +   G+++ G V R+    
Sbjct: 159 GQKLEFKIIEIEPSENRLILSHKEIVKAEHEQAAEKIFAELQA--GDVVEGKVARMTNFG 216

Query: 154 VIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
             VDLG  DG++   E          + L  G  VK  +  V  ++
Sbjct: 217 AFVDLGGVDGLVHVSEISYDHVDKPSDVLSAGQDVKVKVLSVDPDR 262


>gi|256425571|ref|YP_003126224.1| RNA binding S1 domain protein [Chitinophaga pinensis DSM 2588]
 gi|256040479|gb|ACU64023.1| RNA binding S1 domain protein [Chitinophaga pinensis DSM 2588]
          Length = 630

 Score = 37.7 bits (87), Expect = 4.9,   Method: Composition-based stats.
 Identities = 27/134 (20%), Positives = 51/134 (38%), Gaps = 10/134 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +K   D D  +         +   +  R AV S K +I   + +   D  
Sbjct: 177 ETFLPGSQIDVKPVTDYDQFVSKTMEFKV-VKVNEAIRNAVVSHKALIESDIEQQRVDII 235

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
               K + G+++ GT+K +      +DLG  DG++   +          E L+   ++  
Sbjct: 236 ---SKLEKGQVLEGTIKNITDFGAFIDLGGLDGLLYITDISWGRISHPSEVLQMDQKINV 292

Query: 185 YIYDVRREQRGPQV 198
            + D   E++   +
Sbjct: 293 VVLDFDDEKKRISL 306


>gi|226939798|ref|YP_002794871.1| 30S ribosomal protein S1 [Laribacter hongkongensis HLHK9]
 gi|226714724|gb|ACO73862.1| RpsA [Laribacter hongkongensis HLHK9]
          Length = 559

 Score = 37.7 bits (87), Expect = 4.9,   Method: Composition-based stats.
 Identities = 24/107 (22%), Positives = 44/107 (41%), Gaps = 8/107 (7%)

Query: 94  GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN 153
           G  +   +  +D  R  V  +++ ++++    ER       K   G I+ G VK +    
Sbjct: 148 GKQIEFKVIKLDRKRNNVVVSRRAVLEETLGEERKALLESLK--EGAIVKGIVKNITDYG 205

Query: 154 VIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
             VDLG  DG++   +          E L  GD V++ +    +E+ 
Sbjct: 206 AFVDLGGIDGLLHITDLAWRRVKHPSEVLAVGDEVEAKVLKFDQEKN 252


>gi|206561285|ref|YP_002232050.1| 30S ribosomal protein S1 [Burkholderia cenocepacia J2315]
 gi|198037327|emb|CAR53252.1| 30S ribosomal protein S1 [Burkholderia cenocepacia J2315]
          Length = 570

 Score = 37.7 bits (87), Expect = 4.9,   Method: Composition-based stats.
 Identities = 22/71 (30%), Positives = 36/71 (50%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G I+ G VK V+    +V L G+ +G +R  E         R  L+ GD+V + + ++ 
Sbjct: 459 KGSIVDGVVKTVDAKGAVVTLTGDVEGYLRASEISQDRVEDARNVLKEGDKVNAMVINID 518

Query: 191 REQRGPQVLLS 201
           R+ RG  + LS
Sbjct: 519 RKSRG--INLS 527



 Score = 37.4 bits (86), Expect = 6.5,   Method: Composition-based stats.
 Identities = 27/114 (23%), Positives = 47/114 (41%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +D +   G  +   +  +D  R  V  +++ +I+  +  ER +     K   G I++G V
Sbjct: 151 KDTTPYEGKTLEFRVIKLDRKRNNVVLSRRAVIEATQGEERAKLLETLK--EGAIVNGVV 208

Query: 147 KRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++       R      E L  G  V + I    +E+ 
Sbjct: 209 KNITDYGAFVDLGGIDGLLHITDIAWRRVRHPSEVLSVGQEVTAKILKFDQEKN 262


>gi|195492753|ref|XP_002094126.1| GE21661 [Drosophila yakuba]
 gi|194180227|gb|EDW93838.1| GE21661 [Drosophila yakuba]
          Length = 1052

 Score = 37.7 bits (87), Expect = 4.9,   Method: Composition-based stats.
 Identities = 20/75 (26%), Positives = 32/75 (42%), Gaps = 1/75 (1%)

Query: 359  TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIA-SIEGFDEETAVEIQGRAREYL 417
             +  M+   V    A  L A GF  +E++A VK + +  S+E      A EI   A+  L
Sbjct: 969  LEPLMELPAVKINRARQLYAAGFQTIEDIARVKPTHLVQSLEHMPLRVATEIVSAAKIIL 1028

Query: 418  EGIDITLQKKIRELG 432
                  L+++   L 
Sbjct: 1029 MKKLDHLEEETENLK 1043


>gi|169836494|ref|ZP_02869682.1| LytB protein [candidate division TM7 single-cell isolate TM7a]
          Length = 413

 Score = 37.7 bits (87), Expect = 4.9,   Method: Composition-based stats.
 Identities = 28/151 (18%), Positives = 59/151 (39%), Gaps = 19/151 (12%)

Query: 59  DISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMD-FGRVAVQSAKQV 117
           D  +F  LE   EV  +  + S    +       +G  V   +  +D   +    S KQ 
Sbjct: 252 DYGIFVELEKGIEVFIHKNEFSWD--KREHKEYKVGDEVEFKVIVIDKIEKKLSGSIKQ- 308

Query: 118 IIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETIS---- 172
               + ++       ++K   G I++  +  ++    +V L    +G++ + E       
Sbjct: 309 ----LEKSPWKEVTEKYK--KGNIVNTEIVEIQENFALVKLTDRFNGIVPKRELTEDFLK 362

Query: 173 --RENLRPGDRVKSYIYDVRREQRGPQVLLS 201
              E    GD+V++ I D+  +++   + LS
Sbjct: 363 DISEKFSVGDKVEAVITDINEKRK--SIALS 391


>gi|34762725|ref|ZP_00143715.1| LytB protein; SSU ribosomal protein S1P [Fusobacterium nucleatum
           subsp. vincentii ATCC 49256]
 gi|27887624|gb|EAA24703.1| LytB protein; SSU ribosomal protein S1P [Fusobacterium nucleatum
           subsp. vincentii ATCC 49256]
          Length = 827

 Score = 37.7 bits (87), Expect = 4.9,   Method: Composition-based stats.
 Identities = 24/120 (20%), Positives = 51/120 (42%), Gaps = 13/120 (10%)

Query: 86  DRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGT 145
           +  P  +IG  V   +  +D     ++ + +     +R++  +    E+K  VG  +   
Sbjct: 686 EETPKFEIGNEVELKITELDLNDKKIKGSLKA----LRKSPWEHAMEEYK--VGTTVEKK 739

Query: 146 VKRVEYGNVIVDLGN-SDGVIR----RDETIS--RENLRPGDRVKSYIYDVRREQRGPQV 198
           +K V    + ++L    DG I       E I   R+    GD VK+ + +V ++ +  ++
Sbjct: 740 IKTVADFGLFIELTKGIDGFIPTQFASKEFIKNIRDKFNEGDIVKAQVVEVNKDTQKIKL 799


>gi|322374786|ref|ZP_08049300.1| polyribonucleotide nucleotidyltransferase [Streptococcus sp. C300]
 gi|321280286|gb|EFX57325.1| polyribonucleotide nucleotidyltransferase [Streptococcus sp. C300]
          Length = 737

 Score = 37.7 bits (87), Expect = 5.0,   Method: Composition-based stats.
 Identities = 33/185 (17%), Positives = 71/185 (38%), Gaps = 36/185 (19%)

Query: 29  SVMADSIQKAARSLYG-------TMSDIRVEINP-----ETGDISLFRLLEVVEEVENYT 76
            ++ +++ +A ++ +        T+ ++R E+ P     +T  I + ++  V+ +     
Sbjct: 520 EILTEALAQAKKARFEILDVIEETIPEVRPELAPTAPKIDTIKIDVDKIKIVIGKGGETI 579

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +I  + A   D   +        +      + A+  AK++I   VREA           
Sbjct: 580 DKIIAETAVKIDIDEEGN------VSIYSSDQDAINRAKEIIAGLVREA----------- 622

Query: 137 KVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDET------ISRENLRPGDRVKSYIYDV 189
           KV E+    V R+E     V+L   +D ++   E          + +  GD V   +  +
Sbjct: 623 KVDEVYHAKVVRIEKFGAFVNLFDKTDALVHISEMAWTRTNNVEDLVAIGDEVDVKVIKI 682

Query: 190 RREQR 194
             + R
Sbjct: 683 DEKGR 687


>gi|300122361|emb|CBK22933.2| unnamed protein product [Blastocystis hominis]
 gi|300122364|emb|CBK22936.2| unnamed protein product [Blastocystis hominis]
 gi|300122845|emb|CBK23852.2| unnamed protein product [Blastocystis hominis]
          Length = 333

 Score = 37.7 bits (87), Expect = 5.0,   Method: Composition-based stats.
 Identities = 11/51 (21%), Positives = 24/51 (47%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           ++   ++      L   G+  VE +A   + ++  ++G  E  A++IQ  A
Sbjct: 23  LEGAGINASDIKKLQEGGYYTVESVAMTTMKKLIEVKGISEAKAIKIQQAA 73


>gi|256846880|ref|ZP_05552334.1| ribosomal protein S1 [Fusobacterium sp. 3_1_36A2]
 gi|256717678|gb|EEU31237.1| ribosomal protein S1 [Fusobacterium sp. 3_1_36A2]
          Length = 827

 Score = 37.7 bits (87), Expect = 5.0,   Method: Composition-based stats.
 Identities = 24/120 (20%), Positives = 51/120 (42%), Gaps = 13/120 (10%)

Query: 86  DRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGT 145
           +  P  +IG  V   +  +D     ++ + +     +R++  +    E+K  VG  +   
Sbjct: 686 EETPKFEIGNEVELKITELDLNDKKIKGSLKA----LRKSPWEHAMEEYK--VGTTVEKK 739

Query: 146 VKRVEYGNVIVDLGN-SDGVIR----RDETIS--RENLRPGDRVKSYIYDVRREQRGPQV 198
           +K V    + ++L    DG I       E I   R+    GD VK+ + +V ++ +  ++
Sbjct: 740 IKTVADFGLFIELTKGIDGFIPTQFASKEFIKNIRDKFNEGDIVKAQVVEVNKDTQKIKL 799


>gi|254481764|ref|ZP_05095007.1| ribosomal protein S1 [marine gamma proteobacterium HTCC2148]
 gi|214037893|gb|EEB78557.1| ribosomal protein S1 [marine gamma proteobacterium HTCC2148]
          Length = 558

 Score = 37.7 bits (87), Expect = 5.0,   Method: Composition-based stats.
 Identities = 26/115 (22%), Positives = 49/115 (42%), Gaps = 17/115 (14%)

Query: 90  SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDK--VGEIISGTVK 147
           +   G  +   +  +D  R       + I   V++ E D  +  +  +   G I++G V 
Sbjct: 408 NYKKGDEIETVILSIDPER-------ERISLGVKQLEDDP-FGNYISENDRGSIVTGEVI 459

Query: 148 RVEYGNVIVDL-GNSDGVIRRDETIS------RENLRPGDRVKSYIYDVRREQRG 195
            V+   VI+ L    +GV++  +         R + + GD V++ I  V R+ RG
Sbjct: 460 EVDAKEVIIKLADEVEGVLKASDISRDRVEDARNSFKVGDSVEAKITSVDRKNRG 514


>gi|164686703|ref|ZP_02210731.1| hypothetical protein CLOBAR_00298 [Clostridium bartlettii DSM
           16795]
 gi|164604093|gb|EDQ97558.1| hypothetical protein CLOBAR_00298 [Clostridium bartlettii DSM
           16795]
          Length = 674

 Score = 37.7 bits (87), Expect = 5.0,   Method: Composition-based stats.
 Identities = 28/133 (21%), Positives = 54/133 (40%), Gaps = 6/133 (4%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELG 432
           A +L +E F D+++L      E+ ++E F +  A  +    +   E  +I++ +K++E G
Sbjct: 517 AKILASE-FKDLDKLMSATEQELINLEEFGQTMADSVVEFFK---EEKNISVIEKLKEAG 572

Query: 433 VSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLG 492
           V+ +L      D  I     +  I     L     +D     E +GG         +S  
Sbjct: 573 VNTKLIESD--DEDIPKIFEKMKIVLTGTLPTLKRNDAKEMIEKRGGKATSSVSKSTSFV 630

Query: 493 TPKDQVESMIIHA 505
              ++  S +  A
Sbjct: 631 LAGEEAGSKLTKA 643


>gi|300362224|ref|ZP_07058400.1| S1 RNA binding domain protein [Lactobacillus gasseri JV-V03]
 gi|300353215|gb|EFJ69087.1| S1 RNA binding domain protein [Lactobacillus gasseri JV-V03]
          Length = 121

 Score = 37.7 bits (87), Expect = 5.0,   Method: Composition-based stats.
 Identities = 19/74 (25%), Positives = 34/74 (45%), Gaps = 11/74 (14%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDET-------ISRENLRPGDRVKSYIYD 188
           K+G+I+ G +  ++   + V L    +G+I   E        I RE  + G+ +K  + D
Sbjct: 4   KIGDIVHGKISGIQQYGIFVRLDSKVEGLIHISEIHGGYVKDIGRE-YQVGETIKVQVID 62

Query: 189 VRREQRGPQVLLSR 202
           +       Q+ LSR
Sbjct: 63  IDPYSN--QISLSR 74


>gi|222481049|ref|YP_002567286.1| DNA ligase, NAD-dependent [Halorubrum lacusprofundi ATCC 49239]
 gi|254781342|sp|B9LU22|DNLJ_HALLT RecName: Full=DNA ligase; AltName: Full=Polydeoxyribonucleotide
           synthase [NAD+]
 gi|222453951|gb|ACM58216.1| DNA ligase, NAD-dependent [Halorubrum lacusprofundi ATCC 49239]
          Length = 710

 Score = 37.7 bits (87), Expect = 5.0,   Method: Composition-based stats.
 Identities = 26/116 (22%), Positives = 40/116 (34%), Gaps = 17/116 (14%)

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENG-IKTMEDLAGCSVDDLL---GWSENKG 478
              ++  E     +   I G+  +    L E G ++++ DL   +VDDL    GW E   
Sbjct: 468 AQLERAVEHWARRDALDIEGLGPERVQQLREAGLVESLPDLYDLAVDDLAALEGWGETSA 527

Query: 479 GNIEK---------FDGFLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDA 525
            N+            D FL+ LG P          AR             +  +DA
Sbjct: 528 ENLIAELAATRDPPLDDFLAGLGIPDVGAT----TARALAAHFGDLDAILDADEDA 579


>gi|104782121|ref|YP_608619.1| hypothetical protein PSEEN3059 [Pseudomonas entomophila L48]
 gi|95111108|emb|CAK15828.1| conserved hypothetical protein; putative CBS domain; putative
           membrane protein, TerC/CorC family [Pseudomonas
           entomophila L48]
          Length = 523

 Score = 37.7 bits (87), Expect = 5.0,   Method: Composition-based stats.
 Identities = 29/138 (21%), Positives = 55/138 (39%), Gaps = 10/138 (7%)

Query: 370 EIIAHLLVAEGFADVEELACVKISEIASIEGF--DEETAVEIQGRAREYLEGIDITLQKK 427
           E I  +LV   ++ +  +   ++ E     GF   +E   E+    +  LE +       
Sbjct: 323 EAITQVLVNSSYSRLPLIRDGRVEEPL---GFVHKKELLRELLAGNQPDLESLARAPLNL 379

Query: 428 IRELGVSEELCSIPGIDSKIKVALGE----NGIKTMEDLAGCSVDDLLGWSENKG-GNIE 482
           +    +   L  + G  + I   + E     G+ TM D+      +L   SE +G G +E
Sbjct: 380 LESFSILNALEQMRGQSTHIAFVVNEFGDFTGVLTMTDILESIAGELPDASEVEGPGVVE 439

Query: 483 KFDGFLSSLGTPKDQVES 500
           +  GF+ S      Q+++
Sbjct: 440 EDGGFVVSGALNLAQIQA 457


>gi|116629119|ref|YP_814291.1| RNA-binding protein [Lactobacillus gasseri ATCC 33323]
 gi|238853861|ref|ZP_04644226.1| RNA binding protein [Lactobacillus gasseri 202-4]
 gi|282852164|ref|ZP_06261521.1| S1 RNA binding domain protein [Lactobacillus gasseri 224-1]
 gi|116094701|gb|ABJ59853.1| RNA binding protein (S1 domain) [Lactobacillus gasseri ATCC 33323]
 gi|238833556|gb|EEQ25828.1| RNA binding protein [Lactobacillus gasseri 202-4]
 gi|282556728|gb|EFB62333.1| S1 RNA binding domain protein [Lactobacillus gasseri 224-1]
          Length = 121

 Score = 37.7 bits (87), Expect = 5.0,   Method: Composition-based stats.
 Identities = 19/74 (25%), Positives = 34/74 (45%), Gaps = 11/74 (14%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDET-------ISRENLRPGDRVKSYIYD 188
           K+G+I+ G +  ++   + V L    +G+I   E        I RE  + G+ +K  + D
Sbjct: 4   KIGDIVHGKISGIQQYGIFVRLDSKVEGLIHISEIHGGYVKDIGRE-YQVGETIKVQVID 62

Query: 189 VRREQRGPQVLLSR 202
           +       Q+ LSR
Sbjct: 63  IDPYSN--QISLSR 74


>gi|317121948|ref|YP_004101951.1| RNA binding S1 domain protein [Thermaerobacter marianensis DSM
           12885]
 gi|315591928|gb|ADU51224.1| RNA binding S1 domain protein [Thermaerobacter marianensis DSM
           12885]
          Length = 598

 Score = 37.7 bits (87), Expect = 5.1,   Method: Composition-based stats.
 Identities = 18/69 (26%), Positives = 32/69 (46%), Gaps = 6/69 (8%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
            G++ +G VK +      +DLG  DG++   E         R+ L+ GD ++  +  V R
Sbjct: 381 EGQVRTGVVKGLTDFGAFIDLGGVDGLLHVSEMHWGRIDHPRDLLKEGDTIQVKVLRVDR 440

Query: 192 EQRGPQVLL 200
           E+    + L
Sbjct: 441 ERGRISLSL 449


>gi|313245804|emb|CBY34797.1| unnamed protein product [Oikopleura dioica]
          Length = 708

 Score = 37.7 bits (87), Expect = 5.1,   Method: Composition-based stats.
 Identities = 23/135 (17%), Positives = 47/135 (34%), Gaps = 22/135 (16%)

Query: 317 LSLAIGRRGQNVRLASQLTGWTIDIITEEE------DSINRQKDFNERTQFFMQAI---- 366
           ++  IGR G NV     +TG  IDI   ++       +I    +     +  M  +    
Sbjct: 119 IARVIGRSGCNVNAIRDVTGTHIDIEKPKKGGGDRTITIRGTPEQTTLAKKLMDELIKNP 178

Query: 367 --NVDEIIAHLLVAEGFADVEELACVKISE----IASIEGFDEETAVEIQGRAREYLEGI 420
              +D+II   +        E ++ V+  E      +I    E+    +Q   ++  +  
Sbjct: 179 DMEIDDIIQKYIPNAKTRSRERVSEVEEDEPEPKSLNI----EKILAAVQQSEKD--QRE 232

Query: 421 DITLQKKIRELGVSE 435
                +  ++    E
Sbjct: 233 KEKKIEARKKKQAEE 247


>gi|157373515|ref|YP_001472115.1| ERCC4 domain-containing protein [Shewanella sediminis HAW-EB3]
 gi|157315889|gb|ABV34987.1| ERCC4 domain protein [Shewanella sediminis HAW-EB3]
          Length = 212

 Score = 37.7 bits (87), Expect = 5.1,   Method: Composition-based stats.
 Identities = 19/84 (22%), Positives = 33/84 (39%), Gaps = 12/84 (14%)

Query: 330 LASQLTGWTIDIITEEEDSINRQKDFNERTQFFM--QAINVDEIIAHLLVAEGFADVEEL 387
           L S+ TG  ++          R+    +  Q F+      V   +A  L+   F  VE +
Sbjct: 135 LNSRETGLKLN---------GRKPKRRKNRQLFILQSLPEVGPRLARRLLKH-FDSVEAV 184

Query: 388 ACVKISEIASIEGFDEETAVEIQG 411
                 E+  +EG  +E A +I+ 
Sbjct: 185 ITASTDELIKVEGIGQERARKIRE 208


>gi|315655345|ref|ZP_07908245.1| 30S ribosomal protein S1 [Mobiluncus curtisii ATCC 51333]
 gi|315656742|ref|ZP_07909629.1| 30S ribosomal protein S1 [Mobiluncus curtisii subsp. holmesii ATCC
           35242]
 gi|315490285|gb|EFU79910.1| 30S ribosomal protein S1 [Mobiluncus curtisii ATCC 51333]
 gi|315492697|gb|EFU82301.1| 30S ribosomal protein S1 [Mobiluncus curtisii subsp. holmesii ATCC
           35242]
          Length = 489

 Score = 37.7 bits (87), Expect = 5.1,   Method: Composition-based stats.
 Identities = 27/111 (24%), Positives = 59/111 (53%), Gaps = 13/111 (11%)

Query: 122 VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRE 174
           ++E ++  +Y  F D  G+++SGTV +V+   V++D+G  ++GVI   E           
Sbjct: 25  IKEIDKTIKY--FND--GDLVSGTVVKVDRDEVLLDIGYKTEGVILSRELSIKHDVDPDA 80

Query: 175 NLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
            ++ GD +++ +   ++E +  ++LLS+   Q+      +E  +  +G+V 
Sbjct: 81  EVKVGDEIEALVL--QKEDKEGRLLLSKKRAQYERAWGDIEKVKQEDGVVT 129


>gi|269986455|gb|EEZ92741.1| NusA family KH domain protein [Candidatus Parvarchaeum acidiphilum
           ARMAN-4]
          Length = 136

 Score = 37.7 bits (87), Expect = 5.1,   Method: Composition-based stats.
 Identities = 19/98 (19%), Positives = 42/98 (42%), Gaps = 15/98 (15%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK--VVLD---EDVG 306
           G  +G  G +++ +   L+ E I ++ +S D      N +RP  +    + ++   +D  
Sbjct: 44  GLSIGKNGMKIKMLQEMLKKEVI-VIEYSDDPVKLFENIIRPNKLISGYITINGKEDDNK 102

Query: 307 RIEVIVPKEQLSLAIGRRGQN-VRLASQLTGWTIDIIT 343
           ++E  V         G+   N ++L   L     +I++
Sbjct: 103 KVEASVD--------GKISSNKIKLIKMLMQRYFNIVS 132


>gi|296110031|ref|YP_003616980.1| phosphoesterase RecJ domain protein [Methanocaldococcus infernus
           ME]
 gi|295434845|gb|ADG14016.1| phosphoesterase RecJ domain protein [Methanocaldococcus infernus
           ME]
          Length = 760

 Score = 37.7 bits (87), Expect = 5.1,   Method: Composition-based stats.
 Identities = 26/113 (23%), Positives = 48/113 (42%), Gaps = 19/113 (16%)

Query: 130 QYLE---FKDKV-GEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETI--SRENLRPGDRV 182
            + E   + D   G+   G V R+E     ++L     G++R  + +    ++L+ GD +
Sbjct: 122 VFDEVATYYDVEPGKFYKGVVTRIEKYGAFINLNEKIRGLLRPRDMVSLKLDDLKVGDEI 181

Query: 183 KSYIYDVRREQRGP---QVLLSRTHPQFMVKLFHMEVP-----EIYNGIVQVK 227
                DVR E+R      + LS      +   F  EVP     +I   +V+++
Sbjct: 182 IVQAVDVRPEKREIDFRYIPLS--TYDLIQ--FEKEVPVSKIKDITENLVEMR 230


>gi|254479234|ref|ZP_05092579.1| adenylosuccinate lyase [Carboxydibrachium pacificum DSM 12653]
 gi|214034835|gb|EEB75564.1| adenylosuccinate lyase [Carboxydibrachium pacificum DSM 12653]
          Length = 472

 Score = 37.7 bits (87), Expect = 5.1,   Method: Composition-based stats.
 Identities = 26/141 (18%), Positives = 44/141 (31%), Gaps = 29/141 (20%)

Query: 3   SANR----LELLQIADAVAY----------------EKSIDRDVVLSVMADSIQKAARSL 42
           SANR     E+    DA+                  EK++ R++        +  A +  
Sbjct: 326 SANRRIVIPEMFLATDAILNLYINIASGLKVNEKVIEKNVKRELPFMATEKILMAAVKKG 385

Query: 43  YGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLP 102
            G   ++   I        ++ L    EEV+N      L+  +           + D   
Sbjct: 386 -GDRQELHEAI-------RVYSLKAA-EEVKNGEDNRLLEYIKQDKRFGLSHEEILDLTD 436

Query: 103 PMDFGRVAVQSAKQVIIQKVR 123
           P  F   +    K+ I   VR
Sbjct: 437 PRKFTGRSANQVKEFIEDHVR 457


>gi|20807814|ref|NP_622985.1| adenylosuccinate lyase [Thermoanaerobacter tengcongensis MB4]
 gi|20516373|gb|AAM24589.1| Adenylosuccinate lyase [Thermoanaerobacter tengcongensis MB4]
          Length = 472

 Score = 37.7 bits (87), Expect = 5.1,   Method: Composition-based stats.
 Identities = 26/141 (18%), Positives = 44/141 (31%), Gaps = 29/141 (20%)

Query: 3   SANR----LELLQIADAVAY----------------EKSIDRDVVLSVMADSIQKAARSL 42
           SANR     E+    DA+                  EK++ R++        +  A +  
Sbjct: 326 SANRRIVIPEMFLATDAILNLYINIASGLKVNEKVIEKNVKRELPFMATEKILMAAVKKG 385

Query: 43  YGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLP 102
            G   ++   I        ++ L    EEV+N      L+  +           + D   
Sbjct: 386 -GDRQELHEAI-------RVYSLKAA-EEVKNGEDNRLLEYIKQDKRFGLSHEEILDLTD 436

Query: 103 PMDFGRVAVQSAKQVIIQKVR 123
           P  F   +    K+ I   VR
Sbjct: 437 PRKFTGRSANQVKEFIEDHVR 457


>gi|15618073|ref|NP_224357.1| NAD-dependent DNA ligase LigA [Chlamydophila pneumoniae CWL029]
 gi|15835684|ref|NP_300208.1| NAD-dependent DNA ligase LigA [Chlamydophila pneumoniae J138]
 gi|16752895|ref|NP_445166.1| NAD-dependent DNA ligase LigA [Chlamydophila pneumoniae AR39]
 gi|33241485|ref|NP_876426.1| NAD-dependent DNA ligase LigA [Chlamydophila pneumoniae TW-183]
 gi|7674003|sp|Q9Z934|DNLJ_CHLPN RecName: Full=DNA ligase; AltName: Full=Polydeoxyribonucleotide
           synthase [NAD+]
 gi|4376415|gb|AAD18302.1| DNA Ligase [Chlamydophila pneumoniae CWL029]
 gi|7189537|gb|AAF38439.1| DNA ligase [Chlamydophila pneumoniae AR39]
 gi|8978522|dbj|BAA98359.1| DNA ligase [Chlamydophila pneumoniae J138]
 gi|33235993|gb|AAP98083.1| DNA ligase (NAD+) [Chlamydophila pneumoniae TW-183]
          Length = 662

 Score = 37.7 bits (87), Expect = 5.1,   Method: Composition-based stats.
 Identities = 39/186 (20%), Positives = 64/186 (34%), Gaps = 36/186 (19%)

Query: 348 SINRQKDFNERTQFFMQAINVDEIIAHLLVAEGF-ADVEELACVKISEIASIEGFDEETA 406
           +I + + F  R    +  + V   +   L   G      +L  +   ++  I G  E +A
Sbjct: 431 AIEKIRFFVGRGALNIDHLGV--KVITKLFELGLVHTCADLFQLTTEDLMQIPGIRERSA 488

Query: 407 VEI---QGRAREY-LEGIDITLQKKIRELGVS------------------EELCSIPGID 444
             I     +A+   L+   + L   +  +GV+                  EEL S+ GI 
Sbjct: 489 RNILESIEQAKHVDLDRFLVALGIPLIGIGVATVLAGHFETLDRVISATFEELLSLEGIG 548

Query: 445 SKIKVALGE--------NGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKD 496
            K+  A+ E        N IK M+DL G  +           G      G L   G  + 
Sbjct: 549 EKVAHAIAEYFSDSTHLNEIKKMQDL-GVCISPYHKSGSTCFGKAFVITGTLE--GMSRL 605

Query: 497 QVESMI 502
             E+ I
Sbjct: 606 DAETAI 611


>gi|116754195|ref|YP_843313.1| DNA repair and recombination protein RadA [Methanosaeta thermophila
           PT]
 gi|116665646|gb|ABK14673.1| DNA repair and recombination protein RadA [Methanosaeta thermophila
           PT]
          Length = 322

 Score = 37.7 bits (87), Expect = 5.1,   Method: Composition-based stats.
 Identities = 9/45 (20%), Positives = 14/45 (31%)

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
            +       V    A  L   GF  +E +A     E+ +     E
Sbjct: 1   MKLLEDLPGVGPATAEKLREAGFTTIEAVAVASPGELVAAAEVGE 45


>gi|261403509|ref|YP_003247733.1| DNA repair and recombination protein RadA [Methanocaldococcus
           vulcanius M7]
 gi|261370502|gb|ACX73251.1| DNA repair and recombination protein RadA [Methanocaldococcus
           vulcanius M7]
          Length = 320

 Score = 37.7 bits (87), Expect = 5.1,   Method: Composition-based stats.
 Identities = 12/41 (29%), Positives = 16/41 (39%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
             Q   V    A  L   G+ D  ++A   I E+  IEG  
Sbjct: 4   LTQLPGVGPTTAEKLKEAGYTDFMKIATASIGELTDIEGIS 44


>gi|157164612|ref|YP_001467146.1| NAD-dependent DNA ligase LigA [Campylobacter concisus 13826]
 gi|190359238|sp|A7ZED8|DNLJ_CAMC1 RecName: Full=DNA ligase; AltName: Full=Polydeoxyribonucleotide
           synthase [NAD+]
 gi|112801346|gb|EAT98690.1| DNA ligase, NAD-dependent [Campylobacter concisus 13826]
          Length = 647

 Score = 37.7 bits (87), Expect = 5.1,   Method: Composition-based stats.
 Identities = 28/147 (19%), Positives = 61/147 (41%), Gaps = 34/147 (23%)

Query: 366 INVD---EIIAHLLVAEG-FADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           +N+D   + I +LL  +G  A ++++  +K  ++ S+EGF E+    +   A E  +G +
Sbjct: 433 LNIDGLGDAIVNLLFDKGLIACIKDIYGLKFDDLMSLEGFKEKKVNNLLN-AIEASKGAE 491

Query: 422 ITLQ------KKIRELGVS---------------EELCSIPGIDSKIKVALGENGIKTME 460
           ++        + I E+                  EEL ++ G   ++  +L         
Sbjct: 492 LSRFITGLGCEHIGEVAAKKLASSFGLDWLDASFEELTALEGFGVEMANSLI-------- 543

Query: 461 DLAGCSVDDLLGWSENKGGNIEKFDGF 487
           D A  + D++L  S+    ++ +    
Sbjct: 544 DFAEVNRDEILALSQIVQPSVTQVQSI 570


>gi|124512918|ref|XP_001349815.1| conserved Plasmodium protein, unknown function [Plasmodium
           falciparum 3D7]
 gi|23615232|emb|CAD52222.1| conserved Plasmodium protein, unknown function [Plasmodium
           falciparum 3D7]
          Length = 607

 Score = 37.7 bits (87), Expect = 5.1,   Method: Composition-based stats.
 Identities = 22/123 (17%), Positives = 50/123 (40%), Gaps = 10/123 (8%)

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVV--SDPLPPMDFGRVAVQSAKQVIIQK------ 121
           EE++N   +I+ +  +  D  I    +    + +   +  +      K+ I  K      
Sbjct: 475 EEIKNKDEEITKEEIKKEDKDIIKEEIKNKDEEITKEEIKKEDKDIIKEEIKNKDEEITK 534

Query: 122 --VREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPG 179
             +++ ++D    E K+K  EI    +K+ +   +  ++ N D  I ++E    +N    
Sbjct: 535 EEIKKEDKDIIKEEIKNKDEEITKEEIKKEDKDIIKEEIKNKDEEITKEEIKKEDNNITN 594

Query: 180 DRV 182
           D +
Sbjct: 595 DEI 597


>gi|7328532|dbj|BAA92869.1| Pprad51 [Penicillium paxilli]
          Length = 347

 Score = 37.7 bits (87), Expect = 5.1,   Method: Composition-based stats.
 Identities = 12/43 (27%), Positives = 19/43 (44%), Gaps = 1/43 (2%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVE-IQGRAR 414
             L V  G+  VE +A      +  I+G  E+ A + +   AR
Sbjct: 39  IKLFVDAGYYTVESVAYTPKRVLEQIKGISEQKATKVLVEAAR 81


>gi|319786987|ref|YP_004146462.1| ribosomal protein S1 [Pseudoxanthomonas suwonensis 11-1]
 gi|317465499|gb|ADV27231.1| ribosomal protein S1 [Pseudoxanthomonas suwonensis 11-1]
          Length = 562

 Score = 37.7 bits (87), Expect = 5.2,   Method: Composition-based stats.
 Identities = 25/114 (21%), Positives = 47/114 (41%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RDP+   G  +   L  +D  R  V  +++ +++     ER++   +     G  + G V
Sbjct: 143 RDPAYLEGKELEFKLIKLDRKRNNVVVSRRAVVESEHSEEREQLMEKLV--EGAKLKGVV 200

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++   +          E +  GD ++  +    RE+ 
Sbjct: 201 KNLTDYGAFVDLGGIDGLLHITDMAWKRVRHPSEVVNVGDELEVRVLKFDRERN 254


>gi|295669710|ref|XP_002795403.1| DNA repair protein RAD51 [Paracoccidioides brasiliensis Pb01]
 gi|226285337|gb|EEH40903.1| DNA repair protein RAD51 [Paracoccidioides brasiliensis Pb01]
          Length = 348

 Score = 37.7 bits (87), Expect = 5.2,   Method: Composition-based stats.
 Identities = 10/43 (23%), Positives = 20/43 (46%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
             L++  G+  +E +A      +  I+G  E+ A +I   A +
Sbjct: 39  IKLVIEGGYHTIESVAYTPKRLLEQIKGISEQKATKILAEASK 81


>gi|218131107|ref|ZP_03459911.1| hypothetical protein BACEGG_02712 [Bacteroides eggerthii DSM 20697]
 gi|217986811|gb|EEC53144.1| hypothetical protein BACEGG_02712 [Bacteroides eggerthii DSM 20697]
          Length = 666

 Score = 37.7 bits (87), Expect = 5.2,   Method: Composition-based stats.
 Identities = 24/118 (20%), Positives = 48/118 (40%), Gaps = 16/118 (13%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           V E +A   +A+ F ++EEL    + ++ SI+   E+ A  I      +   ++++L ++
Sbjct: 516 VGETVAKK-IAKSFNNIEELENADLEKLTSIDEIGEKIAQSIL---IYFSSPLNVSLIER 571

Query: 428 IRELGV-----SEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           ++  G+      E+L       ++    L    I         S D+     E  GG 
Sbjct: 572 LKSAGLQLYRKEEDL-------NEYTDKLAGQSIVISGVFTHHSRDEYKDLIEKNGGK 622


>gi|304385588|ref|ZP_07367932.1| NAD-dependent DNA ligase LigA [Pediococcus acidilactici DSM 20284]
 gi|304328092|gb|EFL95314.1| NAD-dependent DNA ligase LigA [Pediococcus acidilactici DSM 20284]
          Length = 675

 Score = 37.7 bits (87), Expect = 5.2,   Method: Composition-based stats.
 Identities = 19/109 (17%), Positives = 44/109 (40%), Gaps = 12/109 (11%)

Query: 363 MQAINVDEIIAHLLVAEGF-ADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           M  + +       L A+GF    ++L  +   +++ ++GF E+    +     E ++   
Sbjct: 453 MNIMGLGPKQIQQLYAKGFIHHFDDLYKLTADQLSQLDGFKEKRVNNLL----EAIDSSR 508

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDL 470
               +++           I G+ +K+   L E    +M+ L   SV++ 
Sbjct: 509 QNSLERLVNG------LGIQGVGTKMARTLAEA-FGSMDRLMEASVEEF 550


>gi|114777721|ref|ZP_01452681.1| ribosomal protein S1 [Mariprofundus ferrooxydans PV-1]
 gi|114551937|gb|EAU54471.1| ribosomal protein S1 [Mariprofundus ferrooxydans PV-1]
          Length = 621

 Score = 37.7 bits (87), Expect = 5.2,   Method: Composition-based stats.
 Identities = 31/135 (22%), Positives = 54/135 (40%), Gaps = 19/135 (14%)

Query: 72  VENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
           +EN + + S   A +          V   +             KQ I   +++   D  +
Sbjct: 460 MENLSWEKSGAAAMEPYSKGQEVEAVVLGVDVE----------KQRIALGIKQLSADP-F 508

Query: 132 LEFKD--KVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRE--NLRPGDRVKSYI 186
             F    K G  ++GTV  V+   V+V+L       +   E + R+   L+ G  V++ I
Sbjct: 509 ELFLAGVKRGNSVNGTVVDVKPAGVVVELADGVQAFMPMRE-VPRDHGELKVGSEVEAKI 567

Query: 187 YDVRREQRGPQVLLS 201
            +V  ++R  QV LS
Sbjct: 568 VEVNNKRR--QVTLS 580


>gi|332884599|gb|EGK04856.1| hypothetical protein HMPREF9456_00609 [Dysgonomonas mossii DSM
           22836]
          Length = 598

 Score = 37.7 bits (87), Expect = 5.3,   Method: Composition-based stats.
 Identities = 23/74 (31%), Positives = 43/74 (58%), Gaps = 5/74 (6%)

Query: 131 YLEFKDKVG--EIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIY 187
           Y +  +KV   E++ G V  +    V+V++G  SDG++  +E     +L+ GD V+ YI 
Sbjct: 37  YDQSLNKVNDKEVVMGKVTAMNKREVVVNIGYKSDGIVSMNEFRYNPDLKIGDEVEVYIE 96

Query: 188 DVRREQRGPQVLLS 201
             + +++G Q++LS
Sbjct: 97  S-QEDKKG-QLILS 108


>gi|325294733|ref|YP_004281247.1| PHP domain protein [Desulfurobacterium thermolithotrophum DSM
           11699]
 gi|325065181|gb|ADY73188.1| PHP domain protein [Desulfurobacterium thermolithotrophum DSM
           11699]
          Length = 574

 Score = 37.7 bits (87), Expect = 5.3,   Method: Composition-based stats.
 Identities = 27/126 (21%), Positives = 52/126 (41%), Gaps = 24/126 (19%)

Query: 340 DIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIE 399
           DI+  +ED+    + +    +      ++ E I  +L  EG             ++  + 
Sbjct: 15  DILEFKEDNPYHIRAYRNAARL---IRDLSEDI-EILAREG-------------KLLELP 57

Query: 400 GFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSE--ELCSIPGIDSKIKVALGEN-GI 456
           G       ++Q +  E+L+   I   +K+++        L  IPG+  K    L E  GI
Sbjct: 58  GIG----QKLQAKIIEFLKTGKIEEFEKLKQQVPDTIFSLLDIPGVGPKTVKLLYETLGI 113

Query: 457 KTMEDL 462
           +++EDL
Sbjct: 114 RSVEDL 119


>gi|224024480|ref|ZP_03642846.1| hypothetical protein BACCOPRO_01205 [Bacteroides coprophilus DSM
           18228]
 gi|224017702|gb|EEF75714.1| hypothetical protein BACCOPRO_01205 [Bacteroides coprophilus DSM
           18228]
          Length = 595

 Score = 37.7 bits (87), Expect = 5.3,   Method: Composition-based stats.
 Identities = 34/134 (25%), Positives = 59/134 (44%), Gaps = 18/134 (13%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQK--VREAERD 128
           E      QI +K  RD D  + +G  +   +  ++      Q  K V++    + EAE +
Sbjct: 150 EAFLPGSQIDVKPIRDYD--VFVGKTMEFKVVKIN------QEFKNVVVSHKALIEAELE 201

Query: 129 RQYLEFKDK--VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGD 180
           +Q  E   K   G+++ GTVK +    V +DLG  DG+I   +         RE ++   
Sbjct: 202 QQKKEIIGKLEKGQVLEGTVKNITSYGVFIDLGGVDGLIHITDLSWGRVSDPREVVQLDQ 261

Query: 181 RVKSYIYDVRREQR 194
           ++   I D   E++
Sbjct: 262 KLNVVILDFDDEKK 275


>gi|170698415|ref|ZP_02889488.1| ribosomal protein S1 [Burkholderia ambifaria IOP40-10]
 gi|172059982|ref|YP_001807634.1| 30S ribosomal protein S1 [Burkholderia ambifaria MC40-6]
 gi|170136668|gb|EDT04923.1| ribosomal protein S1 [Burkholderia ambifaria IOP40-10]
 gi|171992499|gb|ACB63418.1| ribosomal protein S1 [Burkholderia ambifaria MC40-6]
          Length = 576

 Score = 37.7 bits (87), Expect = 5.3,   Method: Composition-based stats.
 Identities = 23/71 (32%), Positives = 36/71 (50%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVE-YGNVIVDLGNSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G I+ G VK V+  G VI   G+ +G +R  E         R  L+ GD+V + + ++ 
Sbjct: 465 KGSIVDGVVKTVDAKGAVITLTGDIEGYLRASEISQDRVEDARNVLKEGDKVNAMVINID 524

Query: 191 REQRGPQVLLS 201
           R+ RG  + LS
Sbjct: 525 RKSRG--INLS 533



 Score = 37.4 bits (86), Expect = 6.3,   Method: Composition-based stats.
 Identities = 27/114 (23%), Positives = 47/114 (41%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +D +   G  +   +  +D  R  V  +++ +I+  +  ER +     K   G I++G V
Sbjct: 157 KDTTPYEGKTLEFRVIKLDRKRNNVVLSRRAVIEATQGEERAKLLETLK--EGAIVNGVV 214

Query: 147 KRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++       R      E L  G  V + I    +E+ 
Sbjct: 215 KNITDYGAFVDLGGIDGLLHITDIAWRRVRHPSEVLSVGQEVTAKILKFDQEKN 268


>gi|237738612|ref|ZP_04569093.1| LytB protein [Fusobacterium sp. 2_1_31]
 gi|229424095|gb|EEO39142.1| LytB protein [Fusobacterium sp. 2_1_31]
          Length = 827

 Score = 37.7 bits (87), Expect = 5.3,   Method: Composition-based stats.
 Identities = 28/121 (23%), Positives = 50/121 (41%), Gaps = 15/121 (12%)

Query: 86  DRDPSIDIGGVVSDPLPPMDF-GRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
           +  P  +IG  V   +  +D   R    S K      +R++  +    E+K  VG  +  
Sbjct: 686 EETPKFEIGNEVELKITELDLNDRKIKGSLKA-----LRKSPWEHAMEEYK--VGTTVEK 738

Query: 145 TVKRVEYGNVIVDLGN-SDGVIR----RDETIS--RENLRPGDRVKSYIYDVRREQRGPQ 197
            +K V    + V+L    DG I       E I   R+    GD VK+ + +V ++ +  +
Sbjct: 739 KIKTVADFGLFVELTKGIDGFIPTQYASKEFIKNIRDKFNEGDVVKARVVEVNKDTQKIK 798

Query: 198 V 198
           +
Sbjct: 799 L 799


>gi|15606647|ref|NP_214027.1| ribosomal protein S01 [Aquifex aeolicus VF5]
 gi|2983866|gb|AAC07419.1| ribosomal protein S01 [Aquifex aeolicus VF5]
          Length = 535

 Score = 37.7 bits (87), Expect = 5.3,   Method: Composition-based stats.
 Identities = 11/60 (18%), Positives = 28/60 (46%), Gaps = 2/60 (3%)

Query: 142 ISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           + G +++   G  IVD       +   +  + + L+ G  +   + D + + + PQ+++S
Sbjct: 102 VVGKIEKKVKGGFIVDFEGVKAFLPMSQ--AGKKLKEGQVLTFKVLDFKLDSKRPQIIVS 159


>gi|198274661|ref|ZP_03207193.1| hypothetical protein BACPLE_00817 [Bacteroides plebeius DSM 17135]
 gi|198272108|gb|EDY96377.1| hypothetical protein BACPLE_00817 [Bacteroides plebeius DSM 17135]
          Length = 666

 Score = 37.7 bits (87), Expect = 5.4,   Method: Composition-based stats.
 Identities = 22/113 (19%), Positives = 42/113 (37%), Gaps = 6/113 (5%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           V E +A  +    F  +++L    + ++  ++   E+ A  I    R +    ++ L ++
Sbjct: 515 VGETVAKKVARA-FRSIDDLKSATLDDLIHVDEIGEKIAQSIL---RYFHSEKNLQLIER 570

Query: 428 IRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +RE GV   +       +     L    I      A  S D+     E  GG 
Sbjct: 571 LREAGVQ--MAISEEETAGQTDKLQGQSIVISGVFAHHSRDEYKALIEKHGGK 621


>gi|156084788|ref|XP_001609877.1| Rad51 protein [Babesia bovis T2Bo]
 gi|154797129|gb|EDO06309.1| Rad51 protein, putative [Babesia bovis]
          Length = 346

 Score = 37.7 bits (87), Expect = 5.4,   Method: Composition-based stats.
 Identities = 9/43 (20%), Positives = 21/43 (48%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
             +L A G+  ++ +A V    +  ++G  E+   +I+   +E
Sbjct: 41  IDVLKAAGYVTLDSIAQVASKTLLEVKGLSEQKVAKIKEIVKE 83


>gi|161579046|ref|NP_296751.2| 30S ribosomal protein S1 [Chlamydia muridarum Nigg]
 gi|270285161|ref|ZP_06194555.1| 30S ribosomal protein S1 [Chlamydia muridarum Nigg]
 gi|270289180|ref|ZP_06195482.1| 30S ribosomal protein S1 [Chlamydia muridarum Weiss]
 gi|301336556|ref|ZP_07224758.1| 30S ribosomal protein S1 [Chlamydia muridarum MopnTet14]
 gi|7404452|sp|P38016|RS1_CHLMU RecName: Full=30S ribosomal protein S1; AltName: Full=70 kDa
           antigen
          Length = 570

 Score = 37.4 bits (86), Expect = 5.4,   Method: Composition-based stats.
 Identities = 26/66 (39%), Positives = 36/66 (54%), Gaps = 4/66 (6%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI-SRENLRPGDRVKSYIYDVRREQRGP 196
           G I+ GTV  +    V+VD+G  S+GVI   E I S E L  G  V+ Y+     E+   
Sbjct: 52  GAILKGTVVDISKDFVVVDVGLKSEGVIPMSEFIDSSEGLSVGAEVEVYLDQTEDEEG-- 109

Query: 197 QVLLSR 202
           +V+LSR
Sbjct: 110 KVVLSR 115


>gi|114320092|ref|YP_741775.1| 30S ribosomal protein S1 [Alkalilimnicola ehrlichii MLHE-1]
 gi|114226486|gb|ABI56285.1| SSU ribosomal protein S1P [Alkalilimnicola ehrlichii MLHE-1]
          Length = 561

 Score = 37.4 bits (86), Expect = 5.4,   Method: Composition-based stats.
 Identities = 23/114 (20%), Positives = 50/114 (43%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RD +   G  +   +  +D  R  V  +++ ++++   AER++   +   + G+++ G V
Sbjct: 142 RDTTYLEGRDLEFKVIKLDPRRNNVVVSRRAVVEEEYSAEREQLLEKL--QEGQVLKGIV 199

Query: 147 KRVEYGNVIVDLGNSDGVIRRDET------ISRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++   +          E +  G  ++  +    RE+ 
Sbjct: 200 KNLTDYGAFVDLGGMDGLLHITDMAWRRVKNPSEVVEVGQEIEVKVLKFDRERN 253


>gi|317132412|ref|YP_004091726.1| hydroxymethylbutenyl pyrophosphate reductase [Ethanoligenens
           harbinense YUAN-3]
 gi|315470391|gb|ADU26995.1| hydroxymethylbutenyl pyrophosphate reductase [Ethanoligenens
           harbinense YUAN-3]
          Length = 666

 Score = 37.4 bits (86), Expect = 5.4,   Method: Composition-based stats.
 Identities = 28/119 (23%), Positives = 51/119 (42%), Gaps = 13/119 (10%)

Query: 94  GGVVSDPLPPMDFGRVAVQSAKQVIIQKVR---EAERDRQYLEF--KDKVGEIISGTVKR 148
           G + +    P+    + + + ++  +  +R   + ER     +F  + ++G+  +G VK 
Sbjct: 441 GDLSTLLHQPVRMKIIEINTGRKRAVGSIRAVLKDERKELAEKFWEEAEIGKQYTGKVKS 500

Query: 149 VEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           +      VDLG  DG+I   E          E +  GD V   I D+  E +  +V LS
Sbjct: 501 LTSYGAFVDLGGVDGMIHVSELSWSRIRHPSEVVNVGDTVNVTIKDLNPETK--KVSLS 557


>gi|225682824|gb|EEH21108.1| DNA repair protein RAD51 [Paracoccidioides brasiliensis Pb03]
 gi|226290270|gb|EEH45754.1| DNA repair protein RAD51 [Paracoccidioides brasiliensis Pb18]
          Length = 348

 Score = 37.4 bits (86), Expect = 5.4,   Method: Composition-based stats.
 Identities = 10/43 (23%), Positives = 20/43 (46%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
             L++  G+  +E +A      +  I+G  E+ A +I   A +
Sbjct: 39  IKLVIEGGYHTIESVAYTPKRLLEQIKGISEQKATKILAEASK 81


>gi|49473769|ref|YP_031811.1| 30S ribosomal protein S1 [Bartonella quintana str. Toulouse]
 gi|49239272|emb|CAF25593.1| 30s ribosomal protein s1 [Bartonella quintana str. Toulouse]
          Length = 566

 Score = 37.4 bits (86), Expect = 5.4,   Method: Composition-based stats.
 Identities = 25/125 (20%), Positives = 50/125 (40%), Gaps = 10/125 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ ++  RD  P +      S  +  MD  R  +  +++ ++++ R  +R       
Sbjct: 138 PRSQVDIRPIRDVSPLMHNSQ--SFEILKMDRRRGNIVVSRRTVLEESRAEQRSEIVQNL 195

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           +    +I+ G VK +      VDLG  DG++   +          E L  G  +K  I  
Sbjct: 196 E--ENQIVEGVVKNITDYGAFVDLGGIDGLLHVTDMAWRRVNHPSEILNIGQTIKVQIIR 253

Query: 189 VRREQ 193
           + ++ 
Sbjct: 254 INQDT 258


>gi|86133043|ref|ZP_01051625.1| 30S ribosomal protein S1 [Polaribacter sp. MED152]
 gi|85819906|gb|EAQ41053.1| 30S ribosomal protein S1 [Polaribacter sp. MED152]
          Length = 609

 Score = 37.4 bits (86), Expect = 5.4,   Method: Composition-based stats.
 Identities = 28/134 (20%), Positives = 50/134 (37%), Gaps = 10/134 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +K  RD D  ++            +F  V V   K +I   + E ++   
Sbjct: 175 EAFLPGSQIDVKPIRDYDQYVEKTMEFKVVKINHEFKNVVVSH-KALIEADI-ELQKKEI 232

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
             + +   G+++ G VK +    V VDLG  DG++   +          E +    ++  
Sbjct: 233 IGQLE--KGQVLEGVVKNITSYGVFVDLGGVDGLVHITDLSWSRINHPNEVVELDQKLNV 290

Query: 185 YIYDVRREQRGPQV 198
            I D    +   Q+
Sbjct: 291 VILDFDDNKSRIQL 304



 Score = 37.4 bits (86), Expect = 6.2,   Method: Composition-based stats.
 Identities = 26/88 (29%), Positives = 44/88 (50%), Gaps = 12/88 (13%)

Query: 124 EAERDRQYLEFKD---------KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISR 173
           EA  + +  EF++            ++I GTV R+   + I+D+   S+GVI  +E    
Sbjct: 47  EAVDEEKLKEFEEALKGTIGFVNESDVIEGTVVRITDRDAIIDINSKSEGVISLNEFRYN 106

Query: 174 ENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           +NL  GD V+  +   R +  G Q++LS
Sbjct: 107 QNLAEGDTVEVLVDK-REDSSG-QLVLS 132


>gi|220679188|emb|CAX13319.1| programmed cell death 11 [Danio rerio]
          Length = 1816

 Score = 37.4 bits (86), Expect = 5.5,   Method: Composition-based stats.
 Identities = 29/142 (20%), Positives = 57/142 (40%), Gaps = 30/142 (21%)

Query: 97  VSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE-----------FKD---KVGEII 142
           + +P   +D   +  Q+  Q I++ +  +  ++ Y             F     KVG+I+
Sbjct: 391 LKEPKEELDTNHLMSQT--QHILRIINYSPIEQIYQATLRWSSIETPFFSCQDIKVGQIV 448

Query: 143 SGTVKRVEYGNVIVDLG-NSDGVIRRDET------ISRENLRPGDRVKSYIYDVRREQRG 195
            GTV  ++   V V +G +  G+I R            +   PG +VK  +  V  +++ 
Sbjct: 449 EGTVTDLQKHGVYVRIGEHIRGMIPRIHLADVTLKNPEKKFYPGLKVKCRVLLVEAQKK- 507

Query: 196 PQVLLSRTHPQFMVKLFHMEVP 217
             ++L+R        L    +P
Sbjct: 508 -LLILTRK-----KALVESTLP 523


>gi|254446646|ref|ZP_05060122.1| ribosomal protein S1 [Verrucomicrobiae bacterium DG1235]
 gi|198260954|gb|EDY85262.1| ribosomal protein S1 [Verrucomicrobiae bacterium DG1235]
          Length = 549

 Score = 37.4 bits (86), Expect = 5.5,   Method: Composition-based stats.
 Identities = 22/125 (17%), Positives = 52/125 (41%), Gaps = 10/125 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
               I ++  ++ D    IG      +  ++  R  +  +++ +I++ R ++R       
Sbjct: 123 PASHIDIQPPKNLDQY--IGQTYDYKVLKINLERKNIVLSRRELIEEQRASKRRDLLERV 180

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
               G+++ G VK +      +DL   DG++   +          E L+ G+ +   I +
Sbjct: 181 NP--GDVVKGVVKNITDFGAFIDLDGMDGLLHITDMSWGRISHPSEMLKQGEEIDVMIIE 238

Query: 189 VRREQ 193
           + RE+
Sbjct: 239 INREK 243


>gi|218296616|ref|ZP_03497334.1| Polyribonucleotide nucleotidyltransferase [Thermus aquaticus
           Y51MC23]
 gi|218242929|gb|EED09462.1| Polyribonucleotide nucleotidyltransferase [Thermus aquaticus
           Y51MC23]
          Length = 713

 Score = 37.4 bits (86), Expect = 5.5,   Method: Composition-based stats.
 Identities = 25/117 (21%), Positives = 47/117 (40%), Gaps = 20/117 (17%)

Query: 85  RDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISG 144
            +    +DI    +  +   D  +   + AK  I +  REA           KVGEI  G
Sbjct: 593 EELGVEVDIEEDGTIRIYSSDMEK--AEKAKARIEELTREA-----------KVGEIYEG 639

Query: 145 TVKRVEY-GNVIVDLGNSDGVIRRDETISR------ENLRPGDRVKSYIYDVRREQR 194
           TV R+   G  I     ++G++   +          ++L+ GD +K  ++ +  + +
Sbjct: 640 TVTRITPFGAFISLFPGTEGLLHISQIAPGRVKRVEDHLKVGDVIKVKVHRIDEKGK 696


>gi|86131923|ref|ZP_01050520.1| 30S ribosomal protein S1 [Dokdonia donghaensis MED134]
 gi|85817745|gb|EAQ38919.1| 30S ribosomal protein S1 [Dokdonia donghaensis MED134]
          Length = 610

 Score = 37.4 bits (86), Expect = 5.5,   Method: Composition-based stats.
 Identities = 35/135 (25%), Positives = 59/135 (43%), Gaps = 8/135 (5%)

Query: 70  EEVENYTCQISLKVARDRDPSIDIGGVVSDPLPP-MDFGRVAVQSAKQVIIQKVREAERD 128
           EE +N   Q   + A    P +++     +P     DF     +     +  K  E    
Sbjct: 3   EETKNPEVQ---EEAAVAAPKVELSPAQENPEQFLKDFNWEKYEEGIDTVDDKQLEEFEA 59

Query: 129 RQYLEFKD-KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYI 186
                F D    +++ GTV  +   + I+D+   S+GVI  +E     +L+ GD+V+  I
Sbjct: 60  LVENNFVDTLDDDVVEGTVITITDRDAIIDINAKSEGVISLNEFRYNPDLKVGDKVEVLI 119

Query: 187 YDVRREQRGPQVLLS 201
            DVR +  G Q++LS
Sbjct: 120 -DVREDATG-QLILS 132


>gi|163757676|ref|ZP_02164765.1| 30S ribosomal protein S1 [Hoeflea phototrophica DFL-43]
 gi|162285178|gb|EDQ35460.1| 30S ribosomal protein S1 [Hoeflea phototrophica DFL-43]
          Length = 568

 Score = 37.4 bits (86), Expect = 5.5,   Method: Composition-based stats.
 Identities = 34/191 (17%), Positives = 69/191 (36%), Gaps = 29/191 (15%)

Query: 25  DVVLSVMADSIQKA------ARS---------LYGTMSDIR-VEINPETGDISLFRLLEV 68
           +V +  + +++ +A      AR           +     +  V  N   G  ++     V
Sbjct: 75  EVYVERIENALGEAMLSREKARREESWVRLEEKFTAQERVEGVIFNQVKGGFTVDLDGAV 134

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                    Q+ ++  RD  P + I       +  MD  R  +  +++ ++++ R  +R 
Sbjct: 135 A---FLPRSQVDIRPIRDVSPLMHIPQP--FEILKMDKRRGNIVVSRRTVLEESRAEQRS 189

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRV 182
                 +   G+ + G VK +      VDLG  DG++   +          E L  G  V
Sbjct: 190 EIVQNLE--EGQTVEGMVKNITDYGAFVDLGGIDGLLHVTDMAWRRVNHPSEILSIGQTV 247

Query: 183 KSYIYDVRREQ 193
           K  I  + ++ 
Sbjct: 248 KVQIIRINQDT 258


>gi|282856368|ref|ZP_06265647.1| 30S ribosomal protein S1 [Pyramidobacter piscolens W5455]
 gi|282585739|gb|EFB91028.1| 30S ribosomal protein S1 [Pyramidobacter piscolens W5455]
          Length = 518

 Score = 37.4 bits (86), Expect = 5.6,   Method: Composition-based stats.
 Identities = 31/126 (24%), Positives = 58/126 (46%), Gaps = 10/126 (7%)

Query: 82  KVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEI 141
           +  R  +P    G      L  MD  +  +  +++ ++ +   A+R++ Y E    VG++
Sbjct: 154 EEGRGVNPGRFEGEEFQVRLLEMDKRKRRLVLSRRSLLDEDLSAKREKFYSEVN--VGDV 211

Query: 142 ISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRG 195
           + GTV  V    + V++G  DG++   E        SRE  + GD VK  +  + +E   
Sbjct: 212 LDGTVSSVTTFGLFVNVGPLDGLVHVSEVSWQRSSKSRETYKKGDAVKVKVIGIDKENN- 270

Query: 196 PQVLLS 201
            ++ LS
Sbjct: 271 -KISLS 275


>gi|260590941|ref|ZP_05856399.1| ribosomal protein S1 [Prevotella veroralis F0319]
 gi|260536806|gb|EEX19423.1| ribosomal protein S1 [Prevotella veroralis F0319]
          Length = 591

 Score = 37.4 bits (86), Expect = 5.6,   Method: Composition-based stats.
 Identities = 36/196 (18%), Positives = 68/196 (34%), Gaps = 19/196 (9%)

Query: 29  SVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYTCQISLKVARDRD 88
               D + KA       + + +V      G +      EVV  +   +  I        +
Sbjct: 28  EASKDDLAKAYNETLNKIQEHQVV----EGTVISADKKEVVVNIGYKSDGIIPASEFRYN 83

Query: 89  PSIDIGGVVSDPLPPMDFGRV-AVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVK 147
           P +  G  V   +   +  R   V S K+  +QK  E        +      E+I G +K
Sbjct: 84  PDLKPGDKVEVYVESQEDKRGQLVLSHKKARLQKSWENINKALEND------EVIQGYIK 137

Query: 148 RVEYGNVIVDLGNSDGVIRRDET----ISRENLRPGDRVKSYIYDVRREQRGPQVLLSRT 203
               G +IVD+   +  +   +     I   ++  G  ++  +  + +E R   V++S  
Sbjct: 138 SRTKGGMIVDVFGIEAFLPGSQIDVHPIRDYDVFVGKTMEFKVVKINQEFRN--VVVS-- 193

Query: 204 HPQFMVKLFHMEVPEI 219
           H   +      +  EI
Sbjct: 194 HKALIEAELEAQRKEI 209


>gi|221194869|ref|ZP_03567926.1| DNA-directed RNA polymerase, beta' subunit [Atopobium rimae ATCC
            49626]
 gi|221185773|gb|EEE18163.1| DNA-directed RNA polymerase, beta' subunit [Atopobium rimae ATCC
            49626]
          Length = 1480

 Score = 37.4 bits (86), Expect = 5.6,   Method: Composition-based stats.
 Identities = 27/141 (19%), Positives = 51/141 (36%), Gaps = 15/141 (10%)

Query: 364  QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGR--AREYLEGID 421
              + V +   +     G   V +L      ++  I+G   +   E++    AR  L  ++
Sbjct: 1336 DDLGVSQRWTNKFSEVGIETVGDLIGKTEEDLLRIDGIGSKAIEELRQGLDARNLLYILE 1395

Query: 422  ITLQKKIRELGVSEELCSIPGI----DSKIKVALGENGIKTMEDLAGCSVDDLLGWSENK 477
                +       +E+L  +  +    D+   + LG     T ED    S  +L+G S   
Sbjct: 1396 PDEDEA-----DAEDLSQLLNMVFSPDADGGLMLGTAAPATHED----SDLELIGSSNTD 1446

Query: 478  GGNIEKFDGFLSSLGTPKDQV 498
              + +  +  L SL     QV
Sbjct: 1447 NLDSDIINEDLGSLDDLLSQV 1467


>gi|170726659|ref|YP_001760685.1| 30S ribosomal protein S1 [Shewanella woodyi ATCC 51908]
 gi|169812006|gb|ACA86590.1| ribosomal protein S1 [Shewanella woodyi ATCC 51908]
          Length = 555

 Score = 37.4 bits (86), Expect = 5.6,   Method: Composition-based stats.
 Identities = 21/79 (26%), Positives = 31/79 (39%), Gaps = 6/79 (7%)

Query: 128 DRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISR----ENLRPGDRVK 183
           ++   E + + G I++G V R+E G V+VD G         E          +  GD V 
Sbjct: 10  EQSLNELEFRPGSIVTGVVVRIENGTVLVDAGLKSESPIPAEQFKNAQGELEIAVGDSVD 69

Query: 184 SYIYDVRREQRGPQVLLSR 202
             +  V       Q  LSR
Sbjct: 70  VALDSVEDGFGETQ--LSR 86


>gi|148264978|ref|YP_001231684.1| 30S ribosomal protein S1 [Geobacter uraniireducens Rf4]
 gi|146398478|gb|ABQ27111.1| SSU ribosomal protein S1P [Geobacter uraniireducens Rf4]
          Length = 403

 Score = 37.4 bits (86), Expect = 5.6,   Method: Composition-based stats.
 Identities = 35/128 (27%), Positives = 55/128 (42%), Gaps = 16/128 (12%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPL-PPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
              QISL+  R  + +  IG  +S  +    + GR  V S + V+     E ER RQ  E
Sbjct: 144 PYSQISLR--RVENAADYIGKRLSFRISEYGENGRNIVLSHRSVL-----EEERLRQKEE 196

Query: 134 FKD--KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDE----TIS--RENLRPGDRVKSY 185
            K+  K G I+ GTV  +      + +G+ +G++   E     +    E L  G  V+  
Sbjct: 197 QKETLKEGMIVQGTVTSLRDFGAFISIGSVEGLLPISEIGWSRVKDIHEVLSVGQNVEVV 256

Query: 186 IYDVRREQ 193
           I  +  E 
Sbjct: 257 IKQIDWEN 264


>gi|71404106|ref|XP_804789.1| R27-2 protein [Trypanosoma cruzi strain CL Brener]
 gi|70867933|gb|EAN82938.1| R27-2 protein, putative [Trypanosoma cruzi]
          Length = 1597

 Score = 37.4 bits (86), Expect = 5.6,   Method: Composition-based stats.
 Identities = 43/210 (20%), Positives = 78/210 (37%), Gaps = 30/210 (14%)

Query: 294  AIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQK 353
            A + K+  D      ++    E L+    R   N +L   L     DI    ED + R+ 
Sbjct: 996  ADIEKLTEDLVQREADIEKLTEDLAQ---READNEKLTEDLAQREADIEKLTEDLVQREA 1052

Query: 354  DFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
            D  + T+  +Q                 AD+E+L      ++A  E  +E+ A E+  R 
Sbjct: 1053 DIEKLTEDLVQRE---------------ADIEKLT----EDLAQREADNEKLAEELAQRE 1093

Query: 414  REYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGI---KTMEDLAGCSVDDL 470
             +  +  +  +Q++     ++EEL      + K+   L +      K  EDLA    D  
Sbjct: 1094 ADNEKLAEELVQREADNEKLAEELAQWEADNEKLAEELAQREADIEKLTEDLAQREAD-- 1151

Query: 471  LGWSENKGGNIEKFDGFLSSLGTPKDQVES 500
               +E     + + +  +  L     Q E+
Sbjct: 1152 ---NEKLAEELVQREADIEKLAVDLSQKEA 1178


>gi|298491699|ref|YP_003721876.1| RNA-binding S1 domain-containing protein ['Nostoc azollae' 0708]
 gi|298233617|gb|ADI64753.1| RNA binding S1 domain protein ['Nostoc azollae' 0708]
          Length = 301

 Score = 37.4 bits (86), Expect = 5.6,   Method: Composition-based stats.
 Identities = 19/77 (24%), Positives = 38/77 (49%), Gaps = 9/77 (11%)

Query: 133 EFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISR------ENLRPGDRVKSY 185
           +++ + G+++ G V ++++    VD+ G S   + RDE   R      + L   + ++  
Sbjct: 28  DYQFQKGQVVHGKVFQLDHDGAYVDIGGKSSAFLPRDEVSLRVVTNLSDVLPMNEELEFL 87

Query: 186 IYDVRREQRGPQVLLSR 202
           I    ++  G QV LSR
Sbjct: 88  IIR-DQDAEG-QVTLSR 102


>gi|229917963|ref|YP_002886609.1| DNA ligase, NAD-dependent [Exiguobacterium sp. AT1b]
 gi|229469392|gb|ACQ71164.1| DNA ligase, NAD-dependent [Exiguobacterium sp. AT1b]
          Length = 664

 Score = 37.4 bits (86), Expect = 5.6,   Method: Composition-based stats.
 Identities = 20/74 (27%), Positives = 32/74 (43%), Gaps = 8/74 (10%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG-IDITLQKKIREL 431
           A  L+AE F  ++ +    + E+ SI+G   + A  I      Y E      L K++ E 
Sbjct: 515 AASLIAERFETMDAIIAATVEELTSIDGIGTKMAESIVL----YFEKPEARELVKELAES 570

Query: 432 GVSEELCSIPGIDS 445
           GV+    S  G+  
Sbjct: 571 GVN---LSFKGMKR 581


>gi|154497962|ref|ZP_02036340.1| hypothetical protein BACCAP_01942 [Bacteroides capillosus ATCC
           29799]
 gi|150272952|gb|EDN00109.1| hypothetical protein BACCAP_01942 [Bacteroides capillosus ATCC
           29799]
          Length = 649

 Score = 37.4 bits (86), Expect = 5.6,   Method: Composition-based stats.
 Identities = 17/67 (25%), Positives = 31/67 (46%), Gaps = 6/67 (8%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
            G+  +GTVK +      VD+G  DG++   E          E ++ GD V+ Y+    +
Sbjct: 477 EGKKYTGTVKSLTSYGAFVDIGGVDGMVHISELSWSRIKHPSEVVKVGDTVEVYVISFDK 536

Query: 192 EQRGPQV 198
           E++   +
Sbjct: 537 EKKKISL 543


>gi|227824088|ref|YP_002828061.1| 30S ribosomal protein S1 [Sinorhizobium fredii NGR234]
 gi|227343090|gb|ACP27308.1| 30S ribosomal protein S1 [Sinorhizobium fredii NGR234]
          Length = 568

 Score = 37.4 bits (86), Expect = 5.7,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 43/101 (42%), Gaps = 8/101 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD  R  +  +++ ++++ R  +R       +   G+++ G VK +      VDL
Sbjct: 160 FEILKMDKRRGNIVVSRRTVLEESRAEQRSEIVQNLE--EGQVVEGVVKNITDYGAFVDL 217

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   +          E L  G +VK  I  + +E 
Sbjct: 218 GGIDGLLHVTDMAWRRVNHPSEILSIGQQVKVQIIRINQET 258


>gi|227549900|ref|ZP_03979949.1| chaperonin GroEL [Corynebacterium lipophiloflavum DSM 44291]
 gi|227078046|gb|EEI16009.1| chaperonin GroEL [Corynebacterium lipophiloflavum DSM 44291]
          Length = 536

 Score = 37.4 bits (86), Expect = 5.7,   Method: Composition-based stats.
 Identities = 27/141 (19%), Positives = 54/141 (38%), Gaps = 15/141 (10%)

Query: 371 IIAHLLVAEGFADVEELACVKISEIAS-IEGFDEETAVEIQGRAREYLEGIDITLQKKIR 429
           ++A  LVAEG  +V   A     E+   I+   E+   E++ RA       +I     + 
Sbjct: 93  LLAQALVAEGLRNVA--AGANPIELNKGIKAAAEKAVEELKARATAVSASAEIANVATVS 150

Query: 430 ELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLS 489
                     +  + +     +G++G+ T+E+    +++  +  +E     I    GFLS
Sbjct: 151 SRDPE-----VGEMVAGAMDKVGKDGVVTVEE--SQTMESYVDLTEG----ISFDKGFLS 199

Query: 490 SLGTPKDQVESMII-HARYKM 509
                       ++  AR  +
Sbjct: 200 PYFMTDPDAGQAVLDDARVLL 220


>gi|198437907|ref|XP_002120889.1| PREDICTED: similar to DNA helicase HEL308 [Ciona intestinalis]
          Length = 1014

 Score = 37.4 bits (86), Expect = 5.7,   Method: Composition-based stats.
 Identities = 16/72 (22%), Positives = 33/72 (45%), Gaps = 1/72 (1%)

Query: 362  FMQAINVDEIIAHLLVAEGFADVEELACVKISEI-ASIEGFDEETAVEIQGRAREYLEGI 420
             M+   V    A  L++ GF  +  +A  +   +  SI+    + A ++   A+  LE  
Sbjct: 939  LMEIPGVRMTRAKQLLSSGFKTLAHIATAQPGALCQSIDHLSRKQAAQLIASAKILLEEK 998

Query: 421  DITLQKKIRELG 432
              +LQ+++ +L 
Sbjct: 999  VESLQEEVEDLK 1010


>gi|189461356|ref|ZP_03010141.1| hypothetical protein BACCOP_02011 [Bacteroides coprocola DSM 17136]
 gi|189431885|gb|EDV00870.1| hypothetical protein BACCOP_02011 [Bacteroides coprocola DSM 17136]
          Length = 667

 Score = 37.4 bits (86), Expect = 5.7,   Method: Composition-based stats.
 Identities = 24/115 (20%), Positives = 43/115 (37%), Gaps = 10/115 (8%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           V E +A   VA+ F  +E LA   + ++  ++   E+ A  I      +    +  L ++
Sbjct: 515 VGETVAKK-VAKAFRSIEALASANLDDLIHVDEIGEKIAGSIIQY---FANEKNRILVER 570

Query: 428 IRE--LGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +R+  L +  +   + G        L    I      A  S D+     E  GG 
Sbjct: 571 LRQSGLKLEADEEDLSGYSD----KLKGMSIVISGVFARHSRDEYKALIEKHGGK 621


>gi|50915014|ref|YP_060986.1| polynucleotide phosphorylase/polyadenylase [Streptococcus pyogenes
           MGAS10394]
 gi|81371590|sp|Q5X9W0|PNP_STRP6 RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|50904088|gb|AAT87803.1| Polyribonucleotide nucleotidyltransferase [Streptococcus pyogenes
           MGAS10394]
          Length = 710

 Score = 37.4 bits (86), Expect = 5.7,   Method: Composition-based stats.
 Identities = 30/185 (16%), Positives = 65/185 (35%), Gaps = 36/185 (19%)

Query: 29  SVMADSIQKAARSLYGTMSDIRVEINP------------ETGDISLFRLLEVVEEVENYT 76
            ++ +++ +A ++ +  +  I   I              +T  I + ++  V+ +     
Sbjct: 520 QILEEALAQAKKARFEILDVIEATIAEPRPELAPTAPKIDTIKIDVDKIKVVIGKGGETI 579

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +I  +     D   +        +      + A+   K++I   VREA           
Sbjct: 580 DKIIAETGVKIDIDDEGN------VSIYSSDQAAINRTKEIIAGLVREA----------- 622

Query: 137 KVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDET------ISRENLRPGDRVKSYIYDV 189
           KVGE+    V R+E     V+L   +D ++   E          + L  G+ V   +  +
Sbjct: 623 KVGEVYHAKVVRIEKFGAFVNLFDKTDALVHISEIAWTRTTNVSDVLEVGEDVDVKVIKI 682

Query: 190 RREQR 194
             + R
Sbjct: 683 DEKGR 687


>gi|27904178|gb|AAO27011.1| 30S ribosomal protein S1 [Buchnera aphidicola str. Bp (Baizongia
           pistaciae)]
          Length = 576

 Score = 37.4 bits (86), Expect = 5.7,   Method: Composition-based stats.
 Identities = 28/106 (26%), Positives = 45/106 (42%), Gaps = 8/106 (7%)

Query: 94  GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN 153
           G  +   +  +D  R  V  +++ +I+    AER+        + G I+SG VK +    
Sbjct: 159 GKELEFKVIKLDQKRNNVVVSRRAVIESEYNAERNLLLETL--QEGLIVSGIVKNLTDYG 216

Query: 154 VIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
             VDLG  DG++   +          E +  GD VK  I    RE+
Sbjct: 217 AFVDLGGVDGLLHITDMAWKRVKHPSEIVNIGDEVKIKILKFDREK 262


>gi|161511183|ref|NP_777906.2| 30S ribosomal protein S1 [Buchnera aphidicola str. Bp (Baizongia
           pistaciae)]
 gi|38503269|sp|Q89AJ3|RS1_BUCBP RecName: Full=30S ribosomal protein S1
          Length = 566

 Score = 37.4 bits (86), Expect = 5.7,   Method: Composition-based stats.
 Identities = 28/106 (26%), Positives = 45/106 (42%), Gaps = 8/106 (7%)

Query: 94  GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN 153
           G  +   +  +D  R  V  +++ +I+    AER+        + G I+SG VK +    
Sbjct: 149 GKELEFKVIKLDQKRNNVVVSRRAVIESEYNAERNLLLETL--QEGLIVSGIVKNLTDYG 206

Query: 154 VIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
             VDLG  DG++   +          E +  GD VK  I    RE+
Sbjct: 207 AFVDLGGVDGLLHITDMAWKRVKHPSEIVNIGDEVKIKILKFDREK 252


>gi|21729749|ref|NP_035260.1| DNA polymerase beta [Mus musculus]
 gi|48428077|sp|Q8K409|DPOLB_MOUSE RecName: Full=DNA polymerase beta
 gi|21359795|gb|AAM49616.1|AF513911_1 DNA polymerase beta [Mus musculus]
 gi|26345958|dbj|BAC36630.1| unnamed protein product [Mus musculus]
 gi|38511640|gb|AAH60998.1| Polymerase (DNA directed), beta [Mus musculus]
 gi|74145064|dbj|BAE27405.1| unnamed protein product [Mus musculus]
 gi|74191657|dbj|BAE30399.1| unnamed protein product [Mus musculus]
 gi|148700936|gb|EDL32883.1| polymerase (DNA directed), beta [Mus musculus]
          Length = 335

 Score = 37.4 bits (86), Expect = 5.7,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEE---LCSIPGIDSKIKV 449
           +E   + G   + A +I     E+L    +   +KIR+   S     L  + GI      
Sbjct: 57  AEAKKLPGVGTKIAEKI----DEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAAR 112

Query: 450 ALGENGIKTMEDL 462
              + GIKT+EDL
Sbjct: 113 KFVDEGIKTLEDL 125


>gi|94309667|ref|YP_582877.1| 30S ribosomal protein S1 [Cupriavidus metallidurans CH34]
 gi|93353519|gb|ABF07608.1| 30S ribosomal subunit protein S1 [Cupriavidus metallidurans CH34]
          Length = 564

 Score = 37.4 bits (86), Expect = 5.7,   Method: Composition-based stats.
 Identities = 28/137 (20%), Positives = 58/137 (42%), Gaps = 22/137 (16%)

Query: 74  NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
           + + Q S + A         G  V   +  +D         K+ I   +++   D  +  
Sbjct: 400 DLSWQESGEEAVR---KYKKGDEVEAVVLGIDVD-------KERISLGIKQLSGDP-FNN 448

Query: 134 FK--DKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETIS------RENLRPGDRVKS 184
           F   +  G +++GT+K V+    +V L  + +G +R  E  +      R  L+ G+++ +
Sbjct: 449 FISANDKGSLVNGTIKAVDAKGAVVQLADDVEGYLRASEISADRVEDARNVLKEGEQITA 508

Query: 185 YIYDVRREQRGPQVLLS 201
            + +V R+ R   + LS
Sbjct: 509 LVVNVDRKSRN--INLS 523



 Score = 37.4 bits (86), Expect = 6.0,   Method: Composition-based stats.
 Identities = 28/122 (22%), Positives = 48/122 (39%), Gaps = 9/122 (7%)

Query: 80  SLKVARDR-DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           SL   R   D +   G  +   +  +D  R  V  +++ +++     ER +     K   
Sbjct: 139 SLVDVRPIKDTTPYEGKTLEFKVIKLDRKRNNVVLSRRAVVEATLGEERQKLMETLK--E 196

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRRE 192
           G I++G VK +      VDLG  DG++       R      E L  G  + + I    +E
Sbjct: 197 GAIVNGIVKNITDYGAFVDLGGIDGLLHITDLAWRRVRHPSEVLSVGQEITAKILKFDQE 256

Query: 193 QR 194
           + 
Sbjct: 257 KN 258


>gi|104773910|ref|YP_618890.1| 30S ribosomal protein S1 [Lactobacillus delbrueckii subsp.
           bulgaricus ATCC 11842]
 gi|103422991|emb|CAI97673.1| 30S ribosomal protein S1 [Lactobacillus delbrueckii subsp.
           bulgaricus ATCC 11842]
          Length = 401

 Score = 37.4 bits (86), Expect = 5.7,   Method: Composition-based stats.
 Identities = 36/191 (18%), Positives = 71/191 (37%), Gaps = 35/191 (18%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG 152
           IG  +   +  +D  +  +  + + +I++ RE   +    +    VG+++ G V R+   
Sbjct: 153 IGKTIKVKITEIDPAKNRLILSHKELIEEEREQAFENVASQLV--VGDVVEGRVSRLTDF 210

Query: 153 NVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQ 206
              VD+G  DG++   E          + L+ G  VK  +  +  ++    + + +T P 
Sbjct: 211 GSFVDIGGVDGLVHISEISYKHVDKPSDVLKVGQDVKVKVIGIDNDRHRISLSIKQTEPS 270

Query: 207 FMVK---------LFHMEV---------PEIYNGIVQVKAVSRD-------PGSRAKLA- 240
              +         +   EV          E+ +GI  +  VS         P    K+  
Sbjct: 271 PFEQATSSLNEGDVIEGEVKSLTNFGAFVEVADGIQGLVHVSEIAYKHVDKPSDVLKVGQ 330

Query: 241 -VFSSDSSIDP 250
            V     +IDP
Sbjct: 331 DVKVKVLNIDP 341


>gi|300692113|ref|YP_003753108.1| 30S ribosomal subunit protein S1 [Ralstonia solanacearum PSI07]
 gi|299079173|emb|CBJ51841.1| 30S ribosomal subunit protein S1 [Ralstonia solanacearum PSI07]
          Length = 562

 Score = 37.4 bits (86), Expect = 5.8,   Method: Composition-based stats.
 Identities = 28/122 (22%), Positives = 48/122 (39%), Gaps = 9/122 (7%)

Query: 80  SLKVARDR-DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           SL   R   D +   G  +   +  +D  R  V  +++ +++     ER +     K   
Sbjct: 137 SLVDVRPIKDTTPYEGKTLEFKVIKLDRKRNNVVLSRRAVVEATLGEERQKLMETLK--E 194

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRRE 192
           G I++G VK +      VDLG  DG++       R      E L  G  + + I    +E
Sbjct: 195 GAIVNGIVKNITDYGAFVDLGGIDGLLHITDLAWRRVRHPSEVLSVGQEITAKILKFDQE 254

Query: 193 QR 194
           + 
Sbjct: 255 KN 256


>gi|237746992|ref|ZP_04577472.1| small subunit ribosomal protein S1 [Oxalobacter formigenes HOxBLS]
 gi|229378343|gb|EEO28434.1| small subunit ribosomal protein S1 [Oxalobacter formigenes HOxBLS]
          Length = 569

 Score = 37.4 bits (86), Expect = 5.8,   Method: Composition-based stats.
 Identities = 23/114 (20%), Positives = 46/114 (40%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +D +   G  +   +  +D  R  V  +++ +++     ER +     K   G I++G V
Sbjct: 152 KDTTPYEGKTLEFKVIKLDRKRNNVVLSRRAVVEASMGEERQKLMETLK--EGTIVNGVV 209

Query: 147 KRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
           K +      +DLG  DG++       R      E L  G  + + +    +E+ 
Sbjct: 210 KNITDYGAFIDLGGIDGLLHITDLAWRRVRHPSEMLTVGQEITAKVLKYDQEKN 263


>gi|323526954|ref|YP_004229107.1| 30S ribosomal protein S1 [Burkholderia sp. CCGE1001]
 gi|323383956|gb|ADX56047.1| ribosomal protein S1 [Burkholderia sp. CCGE1001]
          Length = 577

 Score = 37.4 bits (86), Expect = 5.8,   Method: Composition-based stats.
 Identities = 24/71 (33%), Positives = 36/71 (50%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G I+ GTVK V+    +V L G  +G +R  E         R  L+ GD+V + I ++ 
Sbjct: 465 KGSIVDGTVKSVDAKGAVVQLSGEVEGYLRASEIAQDRVEDARNVLKEGDKVNAMIINID 524

Query: 191 REQRGPQVLLS 201
           R+ RG  + LS
Sbjct: 525 RKSRG--INLS 533


>gi|206895761|ref|YP_002246502.1| DNA ligase, NAD-dependent [Coprothermobacter proteolyticus DSM
           5265]
 gi|254781298|sp|B5Y6V5|DNLJ_COPPD RecName: Full=DNA ligase; AltName: Full=Polydeoxyribonucleotide
           synthase [NAD+]
 gi|206738378|gb|ACI17456.1| DNA ligase, NAD-dependent [Coprothermobacter proteolyticus DSM
           5265]
          Length = 666

 Score = 37.4 bits (86), Expect = 5.8,   Method: Composition-based stats.
 Identities = 20/74 (27%), Positives = 34/74 (45%), Gaps = 4/74 (5%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELG 432
           A +L AE F  +  L    + E+ SIEG   +TA  I  +A +  +  ++  Q K   L 
Sbjct: 522 AQML-AEHFGSINALLNATMDELTSIEGIGTDTAETIL-KALQSPQVHELIDQLKTLGLK 579

Query: 433 VSEELCS--IPGID 444
           + +E     + G+ 
Sbjct: 580 MEQESIEGPLKGLT 593


>gi|76803074|ref|YP_331169.1| 50S ribosomal protein L32e [Natronomonas pharaonis DSM 2160]
 gi|76558939|emb|CAI50535.1| ribosomal protein L32.eR [Natronomonas pharaonis DSM 2160]
          Length = 240

 Score = 37.4 bits (86), Expect = 5.8,   Method: Composition-based stats.
 Identities = 15/83 (18%), Positives = 27/83 (32%), Gaps = 2/83 (2%)

Query: 351 RQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
              D  +  +       V E  A  L   G   V++L      E+A I+G     A  I+
Sbjct: 1   MSDDAADEYEELTDISGVGEAKAETLREAGIETVDDLREKSQDELADIDGVGNALAARIK 60

Query: 411 GRAREYLEGIDITLQKKIRELGV 433
               +    +D     ++ +   
Sbjct: 61  ADVGD--LEVDAETDTEVEDETP 81



 Score = 37.0 bits (85), Expect = 8.2,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 24/62 (38%)

Query: 435 EELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTP 494
           EEL  I G+       L E GI+T++DL   S D+L            +    +  L   
Sbjct: 10  EELTDISGVGEAKAETLREAGIETVDDLREKSQDELADIDGVGNALAARIKADVGDLEVD 69

Query: 495 KD 496
            +
Sbjct: 70  AE 71


>gi|270160087|ref|ZP_06188743.1| ribosomal protein S1 [Legionella longbeachae D-4968]
 gi|289165134|ref|YP_003455272.1| 30S ribosomal protein S1 [Legionella longbeachae NSW150]
 gi|269988426|gb|EEZ94681.1| ribosomal protein S1 [Legionella longbeachae D-4968]
 gi|288858307|emb|CBJ12175.1| 30S ribosomal protein S1 [Legionella longbeachae NSW150]
          Length = 559

 Score = 37.4 bits (86), Expect = 5.9,   Method: Composition-based stats.
 Identities = 25/114 (21%), Positives = 46/114 (40%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RDPS   G  +   +  MD  R  +  +++ ++++   A+R        D  G+ + G V
Sbjct: 142 RDPSYLEGKELEFKVIKMDLKRNNIVVSRRAVVEEESSADRQALLESLHD--GQELHGIV 199

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           K +      +DLG  DG++   +          E L  G  +K  +     E+ 
Sbjct: 200 KNLTDYGAFIDLGGIDGLLHITDISWKRVKHPSEVLSVGQDIKVKVLSFDSERN 253


>gi|182435433|ref|YP_001823152.1| putative ribosomal protein S1-like protein [Streptomyces griseus
           subsp. griseus NBRC 13350]
 gi|178463949|dbj|BAG18469.1| putative ribosomal protein S1-like protein [Streptomyces griseus
           subsp. griseus NBRC 13350]
          Length = 194

 Score = 37.4 bits (86), Expect = 5.9,   Method: Composition-based stats.
 Identities = 22/81 (27%), Positives = 37/81 (45%), Gaps = 11/81 (13%)

Query: 131 YLEFKDK--VGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDE------TISRENLRPGDR 181
              F D+  +G+ + GTV+R       VDLG+   G++   E      T  RE+   G+ 
Sbjct: 103 LQAFADRTALGQELRGTVERTVSFGAFVDLGDGIVGLLPLREAHGRPATGPREDFEAGEE 162

Query: 182 VKSYIYDVRREQRGPQVLLSR 202
           +   +  +    R  +VLL+R
Sbjct: 163 ITVVVTKIDPPTR--RVLLTR 181


>gi|20094878|ref|NP_614725.1| DNA repair and recombination protein RadA [Methanopyrus kandleri
           AV19]
 gi|19888111|gb|AAM02655.1| RadA recombinase [Methanopyrus kandleri AV19]
          Length = 317

 Score = 37.4 bits (86), Expect = 5.9,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 28/78 (35%), Gaps = 3/78 (3%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE---YLEGIDITL 424
           + +     L  +G   VE+        ++ + G  E    +IQ   R      E ++   
Sbjct: 12  LPDETVKKLEEKGIVTVEDFIYADPKYLSEVTGMSERDVEDIQEELRNIDVEFETLEKLE 71

Query: 425 QKKIRELGVSEELCSIPG 442
           +K+ R    S  L  I G
Sbjct: 72  RKRRRITTGSSALDEILG 89


>gi|83749856|ref|ZP_00946824.1| SSU ribosomal protein S1P [Ralstonia solanacearum UW551]
 gi|83723469|gb|EAP70679.1| SSU ribosomal protein S1P [Ralstonia solanacearum UW551]
          Length = 566

 Score = 37.4 bits (86), Expect = 5.9,   Method: Composition-based stats.
 Identities = 28/122 (22%), Positives = 48/122 (39%), Gaps = 9/122 (7%)

Query: 80  SLKVARDR-DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           SL   R   D +   G  +   +  +D  R  V  +++ +++     ER +     K   
Sbjct: 141 SLVDVRPIKDTTPYEGKTLEFKVIKLDRKRNNVVLSRRAVVEATLGEERQKLMETLK--E 198

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRRE 192
           G I++G VK +      VDLG  DG++       R      E L  G  + + I    +E
Sbjct: 199 GAIVNGIVKNITDYGAFVDLGGIDGLLHITDLAWRRVRHPSEVLSVGQEITAKILKFDQE 258

Query: 193 QR 194
           + 
Sbjct: 259 KN 260


>gi|226291917|gb|EEH47345.1| rRNA biogenesis protein RRP5 [Paracoccidioides brasiliensis Pb18]
          Length = 1780

 Score = 37.4 bits (86), Expect = 6.0,   Method: Composition-based stats.
 Identities = 27/103 (26%), Positives = 41/103 (39%), Gaps = 15/103 (14%)

Query: 127  RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-----GNSDGVIRRDET---ISRENLRP 178
              R   +F    GEI+ G V +V    V+V L     G  + +   D+    I   N   
Sbjct: 1097 NKRTISDFS--KGEILLGRVTKVSDRQVLVQLSDTTVGAINLIDMADDYTKVIPA-NFHK 1153

Query: 179  GDRVKSYIYDVRREQRGPQVLLS-RTHPQFMVKLFHMEVPEIY 220
             + ++  I DV    +  ++LLS R        L  +E PEI 
Sbjct: 1154 NEVLRVCILDVDVPNK--KILLSVRPSRVLSSSL-PIEDPEIK 1193


>gi|207725368|ref|YP_002255764.1| 30s ribosomal subunit protein s1 [Ralstonia solanacearum MolK2]
 gi|206590604|emb|CAQ37566.1| 30s ribosomal subunit protein s1 [Ralstonia solanacearum MolK2]
          Length = 562

 Score = 37.4 bits (86), Expect = 6.0,   Method: Composition-based stats.
 Identities = 28/122 (22%), Positives = 48/122 (39%), Gaps = 9/122 (7%)

Query: 80  SLKVARDR-DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           SL   R   D +   G  +   +  +D  R  V  +++ +++     ER +     K   
Sbjct: 137 SLVDVRPIKDTTPYEGKTLEFKVIKLDRKRNNVVLSRRAVVEATLGEERQKLMETLK--E 194

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRRE 192
           G I++G VK +      VDLG  DG++       R      E L  G  + + I    +E
Sbjct: 195 GAIVNGIVKNITDYGAFVDLGGIDGLLHITDLAWRRVRHPSEVLSVGQEITAKILKFDQE 254

Query: 193 QR 194
           + 
Sbjct: 255 KN 256


>gi|167751779|ref|ZP_02423906.1| hypothetical protein ALIPUT_00019 [Alistipes putredinis DSM 17216]
 gi|167660694|gb|EDS04824.1| hypothetical protein ALIPUT_00019 [Alistipes putredinis DSM 17216]
          Length = 323

 Score = 37.4 bits (86), Expect = 6.0,   Method: Composition-based stats.
 Identities = 21/113 (18%), Positives = 44/113 (38%), Gaps = 8/113 (7%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           V E  A  L A  F  ++ +      E+   +    + A  I      + +  ++ + ++
Sbjct: 72  VGETTAKYLAAH-FRTLDAVMHATREELIEADEVGGKIADAIIDY---FADAENLRIIER 127

Query: 428 IRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           +R+ G+  E  +   ++S+   +L           +G S D+L    E  GG 
Sbjct: 128 LRKAGLQTE-AAHKALESE---SLAGKNFVITGRFSGHSRDELKELIEAHGGK 176


>gi|94989291|ref|YP_597392.1| polynucleotide phosphorylase/polyadenylase [Streptococcus pyogenes
           MGAS9429]
 gi|122987076|sp|Q1JJX5|PNP_STRPC RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|94542799|gb|ABF32848.1| polyribonucleotide nucleotidyltransferase [Streptococcus pyogenes
           MGAS9429]
          Length = 710

 Score = 37.4 bits (86), Expect = 6.0,   Method: Composition-based stats.
 Identities = 30/185 (16%), Positives = 65/185 (35%), Gaps = 36/185 (19%)

Query: 29  SVMADSIQKAARSLYGTMSDIRVEINP------------ETGDISLFRLLEVVEEVENYT 76
            ++ +++ +A ++ +  +  I   I              +T  I + ++  V+ +     
Sbjct: 520 QILEEALAQAKKARFEILDVIEATIAEPRPELAPTAPKIDTIKIDVDKIKVVIGKGGETI 579

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +I  +     D   +        +      + A+   K++I   VREA           
Sbjct: 580 DKIIAETGVKIDIDDEGN------VSIYSSDQAAINRTKEIIAGLVREA----------- 622

Query: 137 KVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDET------ISRENLRPGDRVKSYIYDV 189
           KVGE+    V R+E     V+L   +D ++   E          + L  G+ V   +  +
Sbjct: 623 KVGEVYHAKVVRIEKFGAFVNLFDKTDALVHISEIAWTRTTNVSDVLEVGEDVDVKVIKI 682

Query: 190 RREQR 194
             + R
Sbjct: 683 DEKGR 687


>gi|54024639|ref|YP_118881.1| DNA polymerase IV [Nocardia farcinica IFM 10152]
 gi|54016147|dbj|BAD57517.1| putative DNA polymerase IV family protein [Nocardia farcinica IFM
           10152]
          Length = 433

 Score = 37.4 bits (86), Expect = 6.0,   Method: Composition-based stats.
 Identities = 23/121 (19%), Positives = 41/121 (33%), Gaps = 26/121 (21%)

Query: 377 VAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL----------------EGI 420
           V EG   ++E A + ++ +  I G   E A  ++ R R+ +                   
Sbjct: 131 VVEGI-SIDE-AFLDVAGLRRIAGEPIEIARRLRARVRDEVGLPISVGIARTKFLAKVAS 188

Query: 421 DITLQKKIRELGVSEELCSIP--------GIDSKIKVALGENGIKTMEDLAGCSVDDLLG 472
            +     +R +    EL  +         G+       L E+GI  +  LA      L G
Sbjct: 189 AVAKPDGLRLVEPERELEFLHPLPVERLWGVGDVTARTLHEHGITRIAQLAELGESGLRG 248

Query: 473 W 473
           +
Sbjct: 249 F 249


>gi|241662463|ref|YP_002980823.1| 30S ribosomal protein S1 [Ralstonia pickettii 12D]
 gi|309781045|ref|ZP_07675783.1| ribosomal protein S1 [Ralstonia sp. 5_7_47FAA]
 gi|240864490|gb|ACS62151.1| ribosomal protein S1 [Ralstonia pickettii 12D]
 gi|308920111|gb|EFP65770.1| ribosomal protein S1 [Ralstonia sp. 5_7_47FAA]
          Length = 562

 Score = 37.4 bits (86), Expect = 6.0,   Method: Composition-based stats.
 Identities = 28/122 (22%), Positives = 48/122 (39%), Gaps = 9/122 (7%)

Query: 80  SLKVARDR-DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           SL   R   D +   G  +   +  +D  R  V  +++ +++     ER +     K   
Sbjct: 137 SLVDVRPIKDTTPYEGKTLEFKVIKLDRKRNNVVLSRRAVVEATLGEERQKLMETLK--E 194

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRRE 192
           G I++G VK +      VDLG  DG++       R      E L  G  + + I    +E
Sbjct: 195 GAIVNGIVKNITDYGAFVDLGGIDGLLHITDLAWRRVRHPSEVLSVGQEITAKILKFDQE 254

Query: 193 QR 194
           + 
Sbjct: 255 KN 256


>gi|194288913|ref|YP_002004820.1| 30S ribosomal protein s1 [Cupriavidus taiwanensis LMG 19424]
 gi|193222748|emb|CAQ68751.1| 30S ribosomal subunit protein S1 [Cupriavidus taiwanensis LMG
           19424]
          Length = 564

 Score = 37.4 bits (86), Expect = 6.0,   Method: Composition-based stats.
 Identities = 28/122 (22%), Positives = 48/122 (39%), Gaps = 9/122 (7%)

Query: 80  SLKVARDR-DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           SL   R   D +   G  +   +  +D  R  V  +++ +++     ER +     K   
Sbjct: 139 SLVDVRPIKDTTPYEGKTLEFKVIKLDRKRNNVVLSRRAVVEATLGEERQKLMETLK--E 196

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRRE 192
           G I++G VK +      VDLG  DG++       R      E L  G  + + I    +E
Sbjct: 197 GAIVNGIVKNITDYGAFVDLGGIDGLLHITDLAWRRVRHPSEVLSVGQEITAKILKFDQE 256

Query: 193 QR 194
           + 
Sbjct: 257 KN 258



 Score = 36.6 bits (84), Expect = 9.6,   Method: Composition-based stats.
 Identities = 28/137 (20%), Positives = 57/137 (41%), Gaps = 22/137 (16%)

Query: 74  NYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLE 133
           + + Q S + A         G  V   +  +D         K+ I   +++   D  +  
Sbjct: 400 DLSWQESGEEAVR---KYKKGDEVEAVVLGIDVD-------KERISLGIKQLSGDP-FNN 448

Query: 134 FK--DKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETIS------RENLRPGDRVKS 184
           F   +  G ++ GT+K V+    +V L  + +G +R  E  +      R  L+ G+++ +
Sbjct: 449 FISANDKGSLVQGTIKAVDAKGAVVQLADDVEGYLRASEISADRVEDARNVLKEGEQITA 508

Query: 185 YIYDVRREQRGPQVLLS 201
            + +V R+ R   + LS
Sbjct: 509 LVVNVDRKSRN--INLS 523


>gi|170016835|ref|YP_001727754.1| DNA ligase, NAD-dependent [Leuconostoc citreum KM20]
 gi|254781358|sp|B1MXQ8|DNLJ_LEUCK RecName: Full=DNA ligase; AltName: Full=Polydeoxyribonucleotide
           synthase [NAD+]
 gi|169803692|gb|ACA82310.1| DNA ligase, NAD-dependent [Leuconostoc citreum KM20]
          Length = 681

 Score = 37.4 bits (86), Expect = 6.0,   Method: Composition-based stats.
 Identities = 18/67 (26%), Positives = 32/67 (47%), Gaps = 3/67 (4%)

Query: 373 AHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELG 432
           A  L+AE F  ++ +A   + +IASI G  E  A+ +    +         L  +++E G
Sbjct: 530 AARLIAEKFKTLQAIADASVIDIASIAGIGETIALSVVQYFK---TPEAKQLLIELQEAG 586

Query: 433 VSEELCS 439
           V++   S
Sbjct: 587 VNQTYLS 593


>gi|226312030|ref|YP_002771924.1| 30S ribosomal protein S1 homolog [Brevibacillus brevis NBRC 100599]
 gi|226094978|dbj|BAH43420.1| 30S ribosomal protein S1 homolog [Brevibacillus brevis NBRC 100599]
          Length = 389

 Score = 37.4 bits (86), Expect = 6.1,   Method: Composition-based stats.
 Identities = 23/85 (27%), Positives = 40/85 (47%), Gaps = 20/85 (23%)

Query: 115 KQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI--- 171
           KQ I+ K++              VG+++ GTV+R+    V VD+G  DG++   E     
Sbjct: 180 KQSIMDKIQ--------------VGQVLEGTVQRMTDFGVFVDIGGVDGLVHVSELAWNR 225

Query: 172 ---SRENLRPGDRVKSYIYDVRREQ 193
                + ++ GD+VK  +  + RE 
Sbjct: 226 VDKPSDVVKEGDKVKVKVLKIDREN 250


>gi|241647148|ref|XP_002409917.1| zinc finger protein, putative [Ixodes scapularis]
 gi|215501480|gb|EEC10974.1| zinc finger protein, putative [Ixodes scapularis]
          Length = 2424

 Score = 37.4 bits (86), Expect = 6.1,   Method: Composition-based stats.
 Identities = 24/131 (18%), Positives = 52/131 (39%), Gaps = 19/131 (14%)

Query: 381  FADVEELACV---KISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSEEL 437
            F DVE+   V    + E   ++  + ET   +     E +  ++   ++ +      ++L
Sbjct: 1790 FDDVEDEKEVYVDSVDE--DVDEIECETVALVDNMEEEEISVLEDEQEEHLESPSKRQDL 1847

Query: 438  CSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPK-- 495
                  D  I+  LGE  +   E L   +VD+     ENK G +++   ++S     +  
Sbjct: 1848 K-----DEPIENDLGE--VDKKESLENKAVDE-EKLVENKCG-VKQETQYISETLLTRNP 1898

Query: 496  ---DQVESMII 503
               +   + ++
Sbjct: 1899 SFLEDGNAEVM 1909


>gi|260819495|ref|XP_002605072.1| hypothetical protein BRAFLDRAFT_85218 [Branchiostoma floridae]
 gi|229290402|gb|EEN61082.1| hypothetical protein BRAFLDRAFT_85218 [Branchiostoma floridae]
          Length = 481

 Score = 37.4 bits (86), Expect = 6.1,   Method: Composition-based stats.
 Identities = 27/160 (16%), Positives = 54/160 (33%), Gaps = 20/160 (12%)

Query: 382 ADVEEL------ACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSE 435
           A VEEL      A   + E+ S +     T  E+  R  +    ++  + ++ +     E
Sbjct: 101 ATVEELVSRQNQATATVDELVSRQNQTAATVEELVSRQNQAAATVEDLVSRQNQAAATVE 160

Query: 436 ELCSIPGIDSKIKVALGENG---IKTMEDL------AGCSVDDLLGWSENKGGNIEKFDG 486
           EL S     +     L         T+E+L      A  +V++L+         +E    
Sbjct: 161 ELVSRENQTTATVEDLVSRQNQATATVEELVSRQNQAAATVEELVSRQNQAAATVEDLVS 220

Query: 487 FLSSLGTPKDQVESMIIHARYKMGWIEKEKVADEEVQDAS 526
             +      ++     + +R        E +   + Q A+
Sbjct: 221 RQNQAAATVEE-----LVSRENQTTATVEDLVSRQNQAAA 255


>gi|207743935|ref|YP_002260327.1| 30s ribosomal subunit protein s1 [Ralstonia solanacearum IPO1609]
 gi|300704750|ref|YP_003746353.1| 30S ribosomal protein S1 [Ralstonia solanacearum CFBP2957]
 gi|206595337|emb|CAQ62264.1| 30s ribosomal subunit protein s1 [Ralstonia solanacearum IPO1609]
 gi|299072414|emb|CBJ43759.1| 30S ribosomal subunit protein S1 [Ralstonia solanacearum CFBP2957]
          Length = 562

 Score = 37.4 bits (86), Expect = 6.1,   Method: Composition-based stats.
 Identities = 28/122 (22%), Positives = 48/122 (39%), Gaps = 9/122 (7%)

Query: 80  SLKVARDR-DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           SL   R   D +   G  +   +  +D  R  V  +++ +++     ER +     K   
Sbjct: 137 SLVDVRPIKDTTPYEGKTLEFKVIKLDRKRNNVVLSRRAVVEATLGEERQKLMETLK--E 194

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRRE 192
           G I++G VK +      VDLG  DG++       R      E L  G  + + I    +E
Sbjct: 195 GAIVNGIVKNITDYGAFVDLGGIDGLLHITDLAWRRVRHPSEVLSVGQEITAKILKFDQE 254

Query: 193 QR 194
           + 
Sbjct: 255 KN 256


>gi|218247654|ref|YP_002373025.1| hypothetical protein PCC8801_2870 [Cyanothece sp. PCC 8801]
 gi|257061011|ref|YP_003138899.1| nuclease (RecB family)-like protein [Cyanothece sp. PCC 8802]
 gi|218168132|gb|ACK66869.1| conserved hypothetical protein [Cyanothece sp. PCC 8801]
 gi|256591177|gb|ACV02064.1| nuclease (RecB family)-like protein [Cyanothece sp. PCC 8802]
          Length = 493

 Score = 37.4 bits (86), Expect = 6.1,   Method: Composition-based stats.
 Identities = 15/70 (21%), Positives = 23/70 (32%), Gaps = 2/70 (2%)

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
             +  Q       V       LV  G   VE LA      +  + G   E A ++Q +A 
Sbjct: 233 IAQSQQHLSLVPGVTPSRYQSLVEMGVETVESLADACPINMGEVIGM--EIASKLQQQAL 290

Query: 415 EYLEGIDITL 424
             ++   I  
Sbjct: 291 AIVDNRAIRQ 300


>gi|171691430|ref|XP_001910640.1| hypothetical protein [Podospora anserina S mat+]
 gi|170945663|emb|CAP71776.1| unnamed protein product [Podospora anserina S mat+]
          Length = 1421

 Score = 37.4 bits (86), Expect = 6.1,   Method: Composition-based stats.
 Identities = 37/219 (16%), Positives = 78/219 (35%), Gaps = 32/219 (14%)

Query: 295  IVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKD 354
             V ++ +DE  GR +  +P+E L      +G   RL  Q TG     I   +   +  ++
Sbjct: 1099 DVRRIAIDELQGRAD--LPEEIL------QGIAARLEDQDTGVRRAAIKALQGRADLPEE 1150

Query: 355  FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
              +     ++  +VD  +  + + E    ++  A +    +  I    E+ A  ++ RA 
Sbjct: 1151 VLQGIAAKLEDQDVD--VRRIAIDE----LQGRADLPEEMLQGIAARLEDQAAYVRLRAI 1204

Query: 415  EYLEGIDITLQKKIRELGVSEELCSIP-GIDSKIKVALGENGIKTMEDLAGCSVDDLLGW 473
              L+G     ++ ++  G++  L     G+       L           A    + L G 
Sbjct: 1205 NALQGRADLSEEVLQ--GIAARLEDQDTGVRRAAIEVLQGR--------ADLPEEVLQGI 1254

Query: 474  -----SENKGGNIEKFDGFLSSLGTPKDQVESMIIHARY 507
                  ++ G               P++ ++ +   AR 
Sbjct: 1255 AARLEDQDTGVRRAAIKALQGRADLPEEVLQGI--AARL 1291


>gi|114766578|ref|ZP_01445534.1| 30S ribosomal protein S1 [Pelagibaca bermudensis HTCC2601]
 gi|114541194|gb|EAU44246.1| 30S ribosomal protein S1 [Roseovarius sp. HTCC2601]
          Length = 553

 Score = 37.4 bits (86), Expect = 6.1,   Method: Composition-based stats.
 Identities = 39/197 (19%), Positives = 74/197 (37%), Gaps = 27/197 (13%)

Query: 9   LLQIADAVAYEKSIDRDVVLSVMADS---IQKAARSLYGTMSDIRVE---INPETGDISL 62
            L+ A+    E  I R+  ++   ++   ++KA         D RVE        G  ++
Sbjct: 70  FLRAAENARGEAVISRE--MARREEAWDRLEKAY------ADDARVEGAIFGRVKGGFTV 121

Query: 63  FRLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKV 122
                V         Q+ ++  RD  P + +       +  MD  R  +  +++ I+++ 
Sbjct: 122 DLGGAVA---FLPGSQVDVRPVRDAGPLMGLKQP--FQILKMDRRRGNIVVSRRAILEES 176

Query: 123 REAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENL 176
           R  +R           G+ + G VK +      VDLG  DG++   +          E L
Sbjct: 177 RAEQRAEVIANLS--EGQTVDGVVKNITEYGAFVDLGGVDGLLHVTDMAWRRVNHPSEIL 234

Query: 177 RPGDRVKSYIYDVRREQ 193
             G+ VK  +  + +E 
Sbjct: 235 SIGETVKVQVIKINKET 251


>gi|113866824|ref|YP_725313.1| 30S ribosomal protein S1 [Ralstonia eutropha H16]
 gi|113525600|emb|CAJ91945.1| SSU ribosomal protein S1 [Ralstonia eutropha H16]
          Length = 564

 Score = 37.4 bits (86), Expect = 6.1,   Method: Composition-based stats.
 Identities = 28/122 (22%), Positives = 48/122 (39%), Gaps = 9/122 (7%)

Query: 80  SLKVARDR-DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           SL   R   D +   G  +   +  +D  R  V  +++ +++     ER +     K   
Sbjct: 139 SLVDVRPIKDTTPYEGKTLEFKVIKLDRKRNNVVLSRRAVVEATLGEERQKLMETLK--E 196

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRRE 192
           G I++G VK +      VDLG  DG++       R      E L  G  + + I    +E
Sbjct: 197 GAIVNGIVKNITDYGAFVDLGGIDGLLHITDLAWRRVRHPSEVLSVGQEITAKILKFDQE 256

Query: 193 QR 194
           + 
Sbjct: 257 KN 258


>gi|310658769|ref|YP_003936490.1| 30S ribosomal protein s1 [Clostridium sticklandii DSM 519]
 gi|308825547|emb|CBH21585.1| 30S ribosomal protein S1 [Clostridium sticklandii]
          Length = 358

 Score = 37.4 bits (86), Expect = 6.2,   Method: Composition-based stats.
 Identities = 16/66 (24%), Positives = 33/66 (50%), Gaps = 3/66 (4%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
             G I+ G V   +  +  +DL   +DG++ +D+ I  E ++ GD ++  +  + +    
Sbjct: 20  YKGSIVKGRVMIEKDDSFYIDLNYKTDGILPKDQVIDSETIKVGDEIEVQVVKIDKNTGD 79

Query: 196 PQVLLS 201
             +LLS
Sbjct: 80  --ILLS 83


>gi|295398579|ref|ZP_06808611.1| 30S ribosomal protein S1 [Aerococcus viridans ATCC 11563]
 gi|294973180|gb|EFG48975.1| 30S ribosomal protein S1 [Aerococcus viridans ATCC 11563]
          Length = 428

 Score = 37.4 bits (86), Expect = 6.2,   Method: Composition-based stats.
 Identities = 25/114 (21%), Positives = 48/114 (42%), Gaps = 10/114 (8%)

Query: 94  GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN 153
           G  +   +  +D     +  + + I  + R AER  +   F  + G+ ++GTV R+    
Sbjct: 163 GQELEVKIVEIDPSENRLILSHKEIAAEKRIAERAEKLNSF--QEGDKVTGTVARLANFG 220

Query: 154 VIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
             +DLG  DG++   +          + L  G  V+  +  V  E+   ++ LS
Sbjct: 221 AFIDLGGIDGLVHISQIAQAHVNHPSDVLSEGQEVEVLVLSVDEERG--RISLS 272


>gi|291415744|ref|XP_002724109.1| PREDICTED: RAD51 homolog C-like [Oryctolagus cuniculus]
          Length = 126

 Score = 37.4 bits (86), Expect = 6.2,   Method: Composition-based stats.
 Identities = 15/33 (45%), Positives = 19/33 (57%)

Query: 376 LVAEGFADVEELACVKISEIASIEGFDEETAVE 408
           LV  GF   EEL  VK SE++   G  +E A+E
Sbjct: 18  LVTAGFQTAEELLEVKPSELSKEVGISKEEALE 50


>gi|269303032|gb|ACZ33132.1| DNA ligase, NAD-dependent [Chlamydophila pneumoniae LPCoLN]
          Length = 662

 Score = 37.4 bits (86), Expect = 6.2,   Method: Composition-based stats.
 Identities = 38/186 (20%), Positives = 64/186 (34%), Gaps = 36/186 (19%)

Query: 348 SINRQKDFNERTQFFMQAINVDEIIAHLLVAEGF-ADVEELACVKISEIASIEGFDEETA 406
           +I + + F  R    +  + V   +   L   G      +L  +   ++  I G  E +A
Sbjct: 431 AIEKIRFFVGRGALNIDHLGV--KVITKLFELGLVHTCADLFQLTTEDLMQIPGIRERSA 488

Query: 407 VEI---QGRAREY-LEGIDITLQKKIRELGVS------------------EELCSIPGID 444
             I     +A+   L+   + L   +  +GV+                  EEL S+ G+ 
Sbjct: 489 RNILESIEQAKHVDLDRFLVALGIPLIGIGVATVLAGHFETLDRVISATFEELLSLEGVG 548

Query: 445 SKIKVALGE--------NGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKD 496
            K+  A+ E        N IK M+DL G  +           G      G L   G  + 
Sbjct: 549 EKVAHAIAEYFSDSTHLNEIKKMQDL-GVCISPYHKSGSTCFGKAFVITGTLE--GMSRL 605

Query: 497 QVESMI 502
             E+ I
Sbjct: 606 DAETAI 611


>gi|17545628|ref|NP_519030.1| 30S ribosomal protein S1 [Ralstonia solanacearum GMI1000]
 gi|17427921|emb|CAD14611.1| probable 30s ribosomal subunit protein s1 [Ralstonia solanacearum
           GMI1000]
          Length = 562

 Score = 37.4 bits (86), Expect = 6.2,   Method: Composition-based stats.
 Identities = 28/122 (22%), Positives = 48/122 (39%), Gaps = 9/122 (7%)

Query: 80  SLKVARDR-DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           SL   R   D +   G  +   +  +D  R  V  +++ +++     ER +     K   
Sbjct: 137 SLVDVRPIKDTTPYEGKTLEFKVIKLDRKRNNVVLSRRAVVEATLGEERQKLMETLK--E 194

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRRE 192
           G I++G VK +      VDLG  DG++       R      E L  G  + + I    +E
Sbjct: 195 GAIVNGIVKNITDYGAFVDLGGIDGLLHITDLAWRRVRHPSEVLSVGQEITAKILKFDQE 254

Query: 193 QR 194
           + 
Sbjct: 255 KN 256


>gi|313889611|ref|ZP_07823255.1| polyribonucleotide nucleotidyltransferase [Streptococcus
           pseudoporcinus SPIN 20026]
 gi|313122038|gb|EFR45133.1| polyribonucleotide nucleotidyltransferase [Streptococcus
           pseudoporcinus SPIN 20026]
          Length = 742

 Score = 37.4 bits (86), Expect = 6.2,   Method: Composition-based stats.
 Identities = 33/185 (17%), Positives = 66/185 (35%), Gaps = 36/185 (19%)

Query: 29  SVMADSIQKAARSLYGTMSDIRVEINP------------ETGDISLFRLLEVVEEVENYT 76
            ++ +++ +A ++ +  +  I   I              +T  I + ++  V+ +     
Sbjct: 531 QILEEALAQAKKARFEILDVIEATIATPRPELAPTAPKIDTIKIDVDKIKVVIGKGGETI 590

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +I  +     D    I       +   D  + A+   K++I   VREA           
Sbjct: 591 DKIIAETGVKID----IDDEGMVQIFSSD--QAAINRTKEIIAGLVREA----------- 633

Query: 137 KVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDET------ISRENLRPGDRVKSYIYDV 189
           KVGE+    V R+E     V+L   +D ++   E          + L  G+ V   +  V
Sbjct: 634 KVGEVYRAKVVRIEKFGAFVNLFDKTDALVHISEIAWTRTANVSDVLEIGEEVDVKVIKV 693

Query: 190 RREQR 194
             + R
Sbjct: 694 DEKGR 698


>gi|289621121|emb|CBI51904.1| unnamed protein product [Sordaria macrospora]
          Length = 1776

 Score = 37.4 bits (86), Expect = 6.2,   Method: Composition-based stats.
 Identities = 19/67 (28%), Positives = 32/67 (47%), Gaps = 9/67 (13%)

Query: 137  KVGEIISGTVKRVEYGNVIVDLGNSD---GVIRRDETI------SRENLRPGDRVKSYIY 187
            K G+ I+G V++VE     +D+  SD   G+  R E        +R+    GD+VK+ + 
Sbjct: 1286 KEGQTITGRVRKVEEFGAFIDIDGSDNLSGLCHRSEMSDKAVKDARKLYEEGDKVKAKVL 1345

Query: 188  DVRREQR 194
             V    +
Sbjct: 1346 KVDATAK 1352


>gi|269986409|gb|EEZ92697.1| KH type 2 domain protein [Candidatus Parvarchaeum acidiphilum
           ARMAN-4]
          Length = 118

 Score = 37.4 bits (86), Expect = 6.2,   Method: Composition-based stats.
 Identities = 11/47 (23%), Positives = 22/47 (46%), Gaps = 1/47 (2%)

Query: 252 GACVGMRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTK 298
           G  +G  G +++ +   L+ E I ++ +S D      N +RP  +  
Sbjct: 44  GLSIGKNGMKIKMLQEMLKKEVI-VIEYSDDPVKLFENIIRPNKLIS 89


>gi|237802530|ref|YP_002887724.1| 30S ribosomal protein S1 [Chlamydia trachomatis B/Jali20/OT]
 gi|231273764|emb|CAX10545.1| SSU ribosomal protein S1P [Chlamydia trachomatis B/Jali20/OT]
          Length = 569

 Score = 37.4 bits (86), Expect = 6.2,   Method: Composition-based stats.
 Identities = 25/66 (37%), Positives = 36/66 (54%), Gaps = 4/66 (6%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI-SRENLRPGDRVKSYIYDVRREQRGP 196
           G I+ GTV  +    V+VD+G  S+GVI   E I S E L  G  V+ Y+     ++   
Sbjct: 52  GAILKGTVVDISKDFVVVDVGLKSEGVIPMSEFIDSSEGLTVGAEVEVYLDQTEDDEG-- 109

Query: 197 QVLLSR 202
           +V+LSR
Sbjct: 110 KVVLSR 115


>gi|220904477|ref|YP_002479789.1| 30S ribosomal protein S1 [Desulfovibrio desulfuricans subsp.
           desulfuricans str. ATCC 27774]
 gi|219868776|gb|ACL49111.1| RNA binding S1 domain protein [Desulfovibrio desulfuricans subsp.
           desulfuricans str. ATCC 27774]
          Length = 489

 Score = 37.4 bits (86), Expect = 6.2,   Method: Composition-based stats.
 Identities = 19/69 (27%), Positives = 39/69 (56%), Gaps = 8/69 (11%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI---SRENLRPGDRVKSYIYDVRREQR 194
           G+ ++GTV  +   +V VD+G   DG++ R + +    +E   PG+ V++++  V  ++ 
Sbjct: 35  GQKVTGTVIAITGDSVFVDVGIKVDGIMERKDILDADGKETTAPGEPVEAWVIGVSAQE- 93

Query: 195 GPQVLLSRT 203
              + LSR+
Sbjct: 94  ---IRLSRS 99


>gi|160887425|ref|ZP_02068428.1| hypothetical protein BACOVA_05444 [Bacteroides ovatus ATCC 8483]
 gi|156107836|gb|EDO09581.1| hypothetical protein BACOVA_05444 [Bacteroides ovatus ATCC 8483]
          Length = 1862

 Score = 37.4 bits (86), Expect = 6.2,   Method: Composition-based stats.
 Identities = 22/74 (29%), Positives = 36/74 (48%), Gaps = 14/74 (18%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGNS--DGVIRRDETISRENLR------PGDRVK-SYIYD 188
            G+II   VK +      +D+GN+   G I RDE    + +R      PG+ V+ +Y+ +
Sbjct: 263 KGDIIDAIVKNINNKFATIDIGNTGILGSIYRDELSPNKVIRASDEVFPGEHVRVAYMGE 322

Query: 189 VRREQRGPQVLLSR 202
                 G Q++ SR
Sbjct: 323 ----DNG-QLIFSR 331


>gi|78485542|ref|YP_391467.1| 30S ribosomal protein S1 [Thiomicrospira crunogena XCL-2]
 gi|78363828|gb|ABB41793.1| SSU ribosomal protein S1P [Thiomicrospira crunogena XCL-2]
          Length = 557

 Score = 37.4 bits (86), Expect = 6.2,   Method: Composition-based stats.
 Identities = 30/127 (23%), Positives = 55/127 (43%), Gaps = 19/127 (14%)

Query: 80  SLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVG 139
           S + A       D    V   + P           ++ I   +++ E+D  + EF  + G
Sbjct: 402 SGEEAVREFKKGDELETVILSIDPE----------RERISLGLKQLEQDP-FGEFVAENG 450

Query: 140 E--IISGTVKRVEYGNVIVDL-GNSDGVIRRDE-----TISRENLRPGDRVKSYIYDVRR 191
           +  I++GTVK V+    ++DL    +G +R  E       +   L+ GD V++ I +V R
Sbjct: 451 KNSIVTGTVKSVDEKGAVIDLAEEVEGYLRASELDEDTRDASSVLKVGDSVEAKIVNVDR 510

Query: 192 EQRGPQV 198
           + R   +
Sbjct: 511 KNRNVSL 517


>gi|71904310|ref|YP_281113.1| polynucleotide phosphorylase/polyadenylase [Streptococcus pyogenes
           MGAS6180]
 gi|94991237|ref|YP_599337.1| polynucleotide phosphorylase/polyadenylase [Streptococcus pyogenes
           MGAS10270]
 gi|122986981|sp|Q1JEW6|PNP_STRPD RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|123747743|sp|Q48RA2|PNP_STRPM RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|71803405|gb|AAX72758.1| polyribonucleotide nucleotidyltransferase [Streptococcus pyogenes
           MGAS6180]
 gi|94544745|gb|ABF34793.1| Polyribonucleotide nucleotidyltransferase [Streptococcus pyogenes
           MGAS10270]
          Length = 710

 Score = 37.4 bits (86), Expect = 6.2,   Method: Composition-based stats.
 Identities = 30/185 (16%), Positives = 65/185 (35%), Gaps = 36/185 (19%)

Query: 29  SVMADSIQKAARSLYGTMSDIRVEINP------------ETGDISLFRLLEVVEEVENYT 76
            ++ +++ +A ++ +  +  I   I              +T  I + ++  V+ +     
Sbjct: 520 QILEEALAQAKKARFEILDVIEATIAEPRPELAPTAPKIDTIKIDVDKIKVVIGKGGETI 579

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +I  +     D   +        +      + A+   K++I   VREA           
Sbjct: 580 DKIIAETGVKIDIDDEGN------VSIYSSDQAAINRTKEIIAGLVREA----------- 622

Query: 137 KVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDET------ISRENLRPGDRVKSYIYDV 189
           KVGE+    V R+E     V+L   +D ++   E          + L  G+ V   +  +
Sbjct: 623 KVGEVYHAKVVRIEKFGAFVNLFDKTDALVHISEIAWTRTTNVSDVLEVGEDVDVKVIKI 682

Query: 190 RREQR 194
             + R
Sbjct: 683 DEKGR 687


>gi|238023604|ref|YP_002907836.1| methyl-accepting chemotaxis protein [Burkholderia glumae BGR1]
 gi|237878269|gb|ACR30601.1| Methyl-accepting chemotaxis protein [Burkholderia glumae BGR1]
          Length = 516

 Score = 37.4 bits (86), Expect = 6.3,   Method: Composition-based stats.
 Identities = 24/153 (15%), Positives = 49/153 (32%), Gaps = 8/153 (5%)

Query: 348 SINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV 407
           + +  +  N          +V +     +V      +E+++    ++I+ I G  E  A 
Sbjct: 316 NADNARQANALATQATNMADVGDTAVQRMV----GSIEKISG-SSNKISEITGVIESIAF 370

Query: 408 EIQGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKV---ALGENGIKTMEDLAG 464
           +    A           ++      V+ E+ S+    +       AL E  + T+ED A 
Sbjct: 371 QTNILALNAAVEAARAGEQGRGFAVVASEVRSLAQRSAAAAKEIKALIEASVTTIEDGAR 430

Query: 465 CSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQ 497
            + D      E +       D          +Q
Sbjct: 431 QANDVGTTVGEVRQAIKRVSDLIGEIAAASDEQ 463


>gi|198283153|ref|YP_002219474.1| 30S ribosomal protein S1 [Acidithiobacillus ferrooxidans ATCC
           53993]
 gi|218667071|ref|YP_002425381.1| ribosomal protein S1 [Acidithiobacillus ferrooxidans ATCC 23270]
 gi|198247674|gb|ACH83267.1| ribosomal protein S1 [Acidithiobacillus ferrooxidans ATCC 53993]
 gi|218519284|gb|ACK79870.1| ribosomal protein S1 [Acidithiobacillus ferrooxidans ATCC 23270]
          Length = 568

 Score = 37.4 bits (86), Expect = 6.3,   Method: Composition-based stats.
 Identities = 22/68 (32%), Positives = 36/68 (52%), Gaps = 6/68 (8%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRE---NLRPGDRVKSYIYDVRREQR 194
           GE+++G V RV+   VIVD+G  S+G I  ++  + E    ++ GD V+  +  V     
Sbjct: 30  GELLTGIVTRVDNDFVIVDVGLKSEGPIPAEQFRNAEGEIEVKVGDSVEVCLELVEDGMG 89

Query: 195 GPQVLLSR 202
             +  LSR
Sbjct: 90  ETR--LSR 95


>gi|52628762|gb|AAU27503.1| 30S ribosomal protein S1 [Legionella pneumophila subsp. pneumophila
           str. Philadelphia 1]
          Length = 579

 Score = 37.4 bits (86), Expect = 6.3,   Method: Composition-based stats.
 Identities = 26/114 (22%), Positives = 46/114 (40%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RDPS   G  +   +  MD  R  +  +++ ++++   A+R        D  G+ + G V
Sbjct: 163 RDPSYLEGKELEFKVIKMDLKRNNIVVSRRAVVEEESSADRQALLESLHD--GQELHGIV 220

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           K +      +DLG  DG++   +          E L  G  VK  +     E+ 
Sbjct: 221 KNLTDYGAFIDLGGIDGLLHITDISWKRVKHPSEVLSVGQDVKVKVLSFDSERN 274


>gi|300710392|ref|YP_003736206.1| 50S ribosomal protein L32e [Halalkalicoccus jeotgali B3]
 gi|299124075|gb|ADJ14414.1| 50S ribosomal protein L32e [Halalkalicoccus jeotgali B3]
          Length = 234

 Score = 37.4 bits (86), Expect = 6.3,   Method: Composition-based stats.
 Identities = 23/117 (19%), Positives = 40/117 (34%), Gaps = 20/117 (17%)

Query: 355 FNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA- 413
             +          V +  A  L A G+ DVE++      ++A +EG     A  I+    
Sbjct: 1   MADNETELTDISGVGDSKADALRAAGYEDVEDVKAASQDDLAEVEGIGNALAARIKADVG 60

Query: 414 ----------------REYLEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGEN 454
                           RE  +     ++  +R  G++E     P +D +    LGE 
Sbjct: 61  GLEVDEETEAEVEDEGREDADEEAEDVETDLRPRGLTE---KTPELDDEKARLLGER 114


>gi|291405699|ref|XP_002719136.1| PREDICTED: RAD51 homolog C [Oryctolagus cuniculus]
          Length = 473

 Score = 37.4 bits (86), Expect = 6.3,   Method: Composition-based stats.
 Identities = 15/33 (45%), Positives = 19/33 (57%)

Query: 376 LVAEGFADVEELACVKISEIASIEGFDEETAVE 408
           LV  GF   EEL  VK SE++   G  +E A+E
Sbjct: 18  LVTAGFQTAEELLEVKPSELSKEVGISKEEALE 50


>gi|288931813|ref|YP_003435873.1| DNA repair and recombination protein RadA [Ferroglobus placidus DSM
           10642]
 gi|288894061|gb|ADC65598.1| DNA repair and recombination protein RadA [Ferroglobus placidus DSM
           10642]
          Length = 340

 Score = 37.4 bits (86), Expect = 6.3,   Method: Composition-based stats.
 Identities = 11/44 (25%), Positives = 18/44 (40%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEET 405
             +  NV    A  L   G++ +E +A     E++S     E T
Sbjct: 27  LEELPNVGPSTAEKLREAGYSTIEAIAVASPQELSSAADIPEST 70


>gi|88803478|ref|ZP_01119004.1| 30S ribosomal protein S1 [Polaribacter irgensii 23-P]
 gi|88781044|gb|EAR12223.1| 30S ribosomal protein S1 [Polaribacter irgensii 23-P]
          Length = 607

 Score = 37.4 bits (86), Expect = 6.3,   Method: Composition-based stats.
 Identities = 28/134 (20%), Positives = 50/134 (37%), Gaps = 10/134 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +K  RD D  ++            +F  V V   K +I   + E ++   
Sbjct: 172 EAFLPGSQIDVKPIRDYDQYVEKTMEFKVVKINHEFKNVVVSH-KALIEADI-ELQKKEI 229

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
             + +   G+++ G VK +    V VDLG  DG++   +          E +    ++  
Sbjct: 230 IGQLE--KGQVLEGIVKNITSYGVFVDLGGVDGLVHITDLSWSRINHPNEVVELDQKLNV 287

Query: 185 YIYDVRREQRGPQV 198
            I D    +   Q+
Sbjct: 288 VILDFDDNKSRIQL 301


>gi|320547742|ref|ZP_08042026.1| polyribonucleotide nucleotidyltransferase [Streptococcus equinus
           ATCC 9812]
 gi|320447502|gb|EFW88261.1| polyribonucleotide nucleotidyltransferase [Streptococcus equinus
           ATCC 9812]
          Length = 723

 Score = 37.4 bits (86), Expect = 6.4,   Method: Composition-based stats.
 Identities = 33/185 (17%), Positives = 66/185 (35%), Gaps = 36/185 (19%)

Query: 29  SVMADSIQKAARSLYGTMSDIRVEI------------NPETGDISLFRLLEVVEEVENYT 76
            ++ +++ +A ++ +  +  I   I              +T  I + ++  V+ +     
Sbjct: 520 QILKEALAQAKKARFEILDLIEATIPAPRTHLAPTAPKIDTIKIDVDKIKVVIGKGGETI 579

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +I  +     D   +        +      + A+  AK++I   VREA           
Sbjct: 580 DKIIEETGVKIDIDEEGN------VSIYSSDQAAIDRAKEIIAGLVREA----------- 622

Query: 137 KVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDET------ISRENLRPGDRVKSYIYDV 189
           KVGE+    V R+E     V+L   +D ++   E          + L  GD V   +  V
Sbjct: 623 KVGEVYHAKVVRIEKFGAFVNLFDTTDALVHISEIAWTRTANVSDVLEVGDEVDVKVIKV 682

Query: 190 RREQR 194
             + R
Sbjct: 683 DDKGR 687


>gi|187927875|ref|YP_001898362.1| 30S ribosomal protein S1 [Ralstonia pickettii 12J]
 gi|187724765|gb|ACD25930.1| ribosomal protein S1 [Ralstonia pickettii 12J]
          Length = 562

 Score = 37.4 bits (86), Expect = 6.4,   Method: Composition-based stats.
 Identities = 28/122 (22%), Positives = 48/122 (39%), Gaps = 9/122 (7%)

Query: 80  SLKVARDR-DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           SL   R   D +   G  +   +  +D  R  V  +++ +++     ER +     K   
Sbjct: 137 SLVDVRPIKDTTPYEGKTLEFKVIKLDRKRNNVVLSRRAVVEATLGEERQKLMETLK--E 194

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRRE 192
           G I++G VK +      VDLG  DG++       R      E L  G  + + I    +E
Sbjct: 195 GAIVNGIVKNITDYGAFVDLGGIDGLLHITDLAWRRVRHPSEVLSVGQEITAKILKFDQE 254

Query: 193 QR 194
           + 
Sbjct: 255 KN 256


>gi|163939412|ref|YP_001644296.1| 30S ribosomal protein S1 [Bacillus weihenstephanensis KBAB4]
 gi|229132404|ref|ZP_04261258.1| 30S ribosomal protein S1 [Bacillus cereus BDRD-ST196]
 gi|163861609|gb|ABY42668.1| RNA binding S1 domain protein [Bacillus weihenstephanensis KBAB4]
 gi|228651110|gb|EEL07091.1| 30S ribosomal protein S1 [Bacillus cereus BDRD-ST196]
          Length = 382

 Score = 37.4 bits (86), Expect = 6.4,   Method: Composition-based stats.
 Identities = 21/72 (29%), Positives = 35/72 (48%), Gaps = 10/72 (13%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVI-------RRDETISRENLRPGDRVKSYIYDV 189
           K G+I+ GTV+R+      V++G  DG++        R E    E L  G +VK  +  V
Sbjct: 187 KEGDIVEGTVQRLTDFGAFVNVGGVDGLVHISQISHERVEQ-PSEVLEQGQKVKVKVLSV 245

Query: 190 RREQRGPQVLLS 201
             + +  ++ LS
Sbjct: 246 DADTQ--RISLS 255


>gi|30578221|gb|AAP35107.1|AF486821_1 Rad51 [Entamoeba histolytica]
          Length = 366

 Score = 37.4 bits (86), Expect = 6.4,   Method: Composition-based stats.
 Identities = 9/53 (16%), Positives = 21/53 (39%)

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
            +  +    + E     L   GF  V+ +A     ++ +I+G  +  A ++  
Sbjct: 49  IRKLIGLAGITEGDCKKLEEAGFFTVQSIAFTPKKQLITIKGISDAKADKLLA 101


>gi|298529708|ref|ZP_07017111.1| ribosomal protein S1 [Desulfonatronospira thiodismutans ASO3-1]
 gi|298511144|gb|EFI35047.1| ribosomal protein S1 [Desulfonatronospira thiodismutans ASO3-1]
          Length = 582

 Score = 37.4 bits (86), Expect = 6.4,   Method: Composition-based stats.
 Identities = 22/99 (22%), Positives = 45/99 (45%), Gaps = 8/99 (8%)

Query: 88  DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVK 147
           D    +G  +   +  ++  R  V  +++V++++ RE  R       K   G+++ G VK
Sbjct: 160 DMDALVGQEMDFRILKINRRRSNVIISRRVLLEEERENMRQELLDTIK--EGQVVQGKVK 217

Query: 148 RVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGD 180
            +    V +DLG  DG++   +         +E ++ GD
Sbjct: 218 NITEYGVFIDLGGLDGLLHITDMSWKRIRHPKEMVQLGD 256



 Score = 37.0 bits (85), Expect = 8.2,   Method: Composition-based stats.
 Identities = 23/89 (25%), Positives = 41/89 (46%), Gaps = 12/89 (13%)

Query: 124 EAERDRQYLEFKD------KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRE-- 174
           E   +    ++ +      + G I++G V +VE   V+VD+   S+G I   E    E  
Sbjct: 17  EVSFESALEDYLNADFGEVQEGSIVTGEVVKVEKDYVLVDVNFKSEGQIPVSEFQDAEGN 76

Query: 175 -NLRPGDRVKSYIYDVRREQRGPQVLLSR 202
             ++ GD+V  ++   + E  G  + LSR
Sbjct: 77  LTVQEGDKVDVFVTQ-KDENEGA-ISLSR 103


>gi|15604379|ref|NP_220895.1| 30S ribosomal protein S1 [Rickettsia prowazekii str. Madrid E]
 gi|6226091|sp|Q9ZD28|RS1_RICPR RecName: Full=30S ribosomal protein S1
 gi|3861071|emb|CAA14971.1| 30S RIBOSOMAL PROTEIN S1 (rpsA) [Rickettsia prowazekii]
 gi|292572134|gb|ADE30049.1| 30S ribosomal protein S1 [Rickettsia prowazekii Rp22]
          Length = 568

 Score = 37.4 bits (86), Expect = 6.4,   Method: Composition-based stats.
 Identities = 20/67 (29%), Positives = 35/67 (52%), Gaps = 5/67 (7%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           K   ++ G V  ++   +IVD+G  ++G I + E +S      GD V+ +I  +  E R 
Sbjct: 37  KEKTVVKGQVIEIKNDMIIVDVGLKNEGRIPKSEFLS--LPEVGDVVEVFIEKI--EGRN 92

Query: 196 PQVLLSR 202
            + +LSR
Sbjct: 93  GRTILSR 99


>gi|167563628|ref|ZP_02356544.1| 30S ribosomal protein S1 [Burkholderia oklahomensis EO147]
 gi|167570790|ref|ZP_02363664.1| 30S ribosomal protein S1 [Burkholderia oklahomensis C6786]
          Length = 570

 Score = 37.4 bits (86), Expect = 6.5,   Method: Composition-based stats.
 Identities = 27/114 (23%), Positives = 47/114 (41%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +D +   G  +   +  +D  R  V  +++ +I+  +  ER +     K   G I++G V
Sbjct: 151 KDTTPYEGKTLEFRVIKLDRKRNNVVLSRRAVIEATQGEERAKLLETLK--EGAIVNGVV 208

Query: 147 KRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++       R      E L  G  V + I    +E+ 
Sbjct: 209 KNITDYGAFVDLGGIDGLLHITDIAWRRVRHPSEVLSVGQEVTAKILKFDQEKN 262


>gi|91089625|ref|XP_973443.1| PREDICTED: similar to tudor and KH domain-containing protein
           [Tribolium castaneum]
 gi|270012611|gb|EFA09059.1| hypothetical protein TcasGA2_TC006774 [Tribolium castaneum]
          Length = 460

 Score = 37.4 bits (86), Expect = 6.5,   Method: Composition-based stats.
 Identities = 26/105 (24%), Positives = 45/105 (42%), Gaps = 7/105 (6%)

Query: 306 GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQA 365
             +EV V K+ + + IGR G+N++L  + +   I+           Q++     +  ++A
Sbjct: 47  KILEVPVHKDMVKVLIGRGGKNIKLIQEQSNTRINFK-----EREGQQEAICVIRGTIEA 101

Query: 366 INVDEIIAHLLVAEGFADVE-ELACVKISEIASIEGFDEETAVEI 409
            N+ E +    V      +E E   V    IA I G D +   EI
Sbjct: 102 CNIAENLVQEFVNNQ-PVLECEDVYVPQGCIARIIGRDGDRIREI 145


>gi|15669384|ref|NP_248193.1| hypothetical protein MJ_1198 [Methanocaldococcus jannaschii DSM
           2661]
 gi|41018415|sp|Q58598|Y1198_METJA RecName: Full=Uncharacterized protein MJ1198
 gi|1591827|gb|AAB99202.1| conserved hypothetical protein [Methanocaldococcus jannaschii DSM
           2661]
          Length = 761

 Score = 37.4 bits (86), Expect = 6.5,   Method: Composition-based stats.
 Identities = 30/113 (26%), Positives = 48/113 (42%), Gaps = 19/113 (16%)

Query: 130 QYLE---FKDKV-GEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISR--ENLRPGDRV 182
            + E   F D   G+   G V R+E     ++L     G++R  + IS   ENL  GD +
Sbjct: 122 VFDELATFYDVEPGKFYKGVVTRIEKYGAFINLNEQVRGLLRPRDMISLRLENLNVGDEI 181

Query: 183 KSYIYDVRREQRGP---QVLLSRTHPQFMVKLFHMEVP-----EIYNGIVQVK 227
                DVR E+R      + L  T    +   +  EVP     +I   +V+++
Sbjct: 182 IVQAIDVRPEKREIDFKYIPL--TTYDLVK--YEKEVPLSQIKDISQNLVEMR 230


>gi|256839697|ref|ZP_05545206.1| DNA ligase, NAD-dependent [Parabacteroides sp. D13]
 gi|256738627|gb|EEU51952.1| DNA ligase, NAD-dependent [Parabacteroides sp. D13]
          Length = 664

 Score = 37.4 bits (86), Expect = 6.5,   Method: Composition-based stats.
 Identities = 20/119 (16%), Positives = 43/119 (36%), Gaps = 18/119 (15%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG--IDITLQ 425
           V E +A  LV+  F  +E L    + ++ +++   E  A  +     +      ++   +
Sbjct: 514 VGETVAKRLVSA-FHSIEALEQASLEDLVAVDEIGERIAQSVLSYFSDEKNRTLVNRLKE 572

Query: 426 KKIRELGVSEELCS----IPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           + +R     E+L +    + G+   I     ++           S D+     E  GG 
Sbjct: 573 QGLRMAVSEEQLANRSEKLKGLTIVISGTFSKH-----------SRDEYKAMIEQHGGK 620


>gi|229822930|ref|ZP_04449000.1| hypothetical protein GCWU000282_00222 [Catonella morbi ATCC 51271]
 gi|229787743|gb|EEP23857.1| hypothetical protein GCWU000282_00222 [Catonella morbi ATCC 51271]
          Length = 700

 Score = 37.4 bits (86), Expect = 6.5,   Method: Composition-based stats.
 Identities = 28/109 (25%), Positives = 48/109 (44%), Gaps = 21/109 (19%)

Query: 101 LPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVD-LG 159
           +      +  +  A+Q+I   VRE E           VG++ +G VKR+E     V+ L 
Sbjct: 599 VSIASSDQDMINKARQMIEDLVREVE-----------VGQVYTGKVKRIEKFGAFVEVLP 647

Query: 160 NSDGVIRRDETISR------ENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
             DG++   E   R      + L+ GD V+  + ++  + R   + LSR
Sbjct: 648 GKDGLVHISELEHRRVAQVEDVLKIGDVVEVKVIEIDNQGR---INLSR 693


>gi|205372598|ref|ZP_03225409.1| glutamate-1-semialdehyde aminotransferase [Bacillus coahuilensis
           m4-4]
          Length = 430

 Score = 37.4 bits (86), Expect = 6.5,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 31/70 (44%), Gaps = 10/70 (14%)

Query: 15  AVAYEKSI--DRDVVLSVMADSIQKAARSLYGTMSDIRVEINPETGDISLFRLLEVV--- 69
            V  EK I    D + +V+ + I KAA   +       + IN   G ++++   E V   
Sbjct: 316 EVLKEKGIYEKLDQLGAVLEEGILKAAEKHHTP-----ITINRLKGALTVYFTKEKVVNY 370

Query: 70  EEVENYTCQI 79
           E+ EN   ++
Sbjct: 371 EQAENTDGEM 380


>gi|167387582|ref|XP_001738222.1| DNA repair protein rad51 [Entamoeba dispar SAW760]
 gi|165898654|gb|EDR25461.1| DNA repair protein rad51, putative [Entamoeba dispar SAW760]
          Length = 365

 Score = 37.4 bits (86), Expect = 6.5,   Method: Composition-based stats.
 Identities = 9/53 (16%), Positives = 21/53 (39%)

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
            +  +    + E     L   GF  V+ +A     ++ +I+G  +  A ++  
Sbjct: 48  IRKLIGLAGITEGDCKKLEEAGFFTVQSIAFTPKKQLITIKGISDAKADKLLA 100


>gi|88608293|ref|YP_506295.1| ribosomal protein S1 [Neorickettsia sennetsu str. Miyayama]
 gi|88600462|gb|ABD45930.1| ribosomal protein S1 [Neorickettsia sennetsu str. Miyayama]
          Length = 553

 Score = 37.4 bits (86), Expect = 6.5,   Method: Composition-based stats.
 Identities = 19/83 (22%), Positives = 35/83 (42%), Gaps = 7/83 (8%)

Query: 124 EAERDRQYLE-FKD---KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRP 178
           E +      E F D   + G+++ G +K +    V+V+LG  S+G I   +      L  
Sbjct: 27  EEDFTTILEERFSDSLIREGDMVEGVIKSISPHFVLVNLGLKSEGKIPVQQFHDLGTLEV 86

Query: 179 GDRVKSYIYDVRREQRGPQVLLS 201
           G ++  Y+           ++LS
Sbjct: 87  GSKIIVYVEKTETGSGN--LVLS 107


>gi|121997364|ref|YP_001002151.1| 30S ribosomal protein S1 [Halorhodospira halophila SL1]
 gi|121588769|gb|ABM61349.1| SSU ribosomal protein S1P [Halorhodospira halophila SL1]
          Length = 560

 Score = 37.4 bits (86), Expect = 6.5,   Method: Composition-based stats.
 Identities = 24/114 (21%), Positives = 48/114 (42%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RD +   G  +   +  +D  R  V  +++ ++++   AER+    +   + GE + G V
Sbjct: 142 RDTTYLEGKDLEFKVIKLDARRNNVVVSRRAVVEEEYSAEREALLEKL--QEGETLKGIV 199

Query: 147 KRVEYGNVIVDLGNSDGVIRRDET------ISRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++   +          E +  G  ++  +    RE+ 
Sbjct: 200 KNLTDYGAFVDLGGIDGLLHITDMAWRRVKNPSEVVEVGQEIEVKVLKFDRERN 253


>gi|325915559|ref|ZP_08177870.1| polyribonucleotide nucleotidyltransferase (polynucleotide
           phosphorylase) [Xanthomonas vesicatoria ATCC 35937]
 gi|325538275|gb|EGD09960.1| polyribonucleotide nucleotidyltransferase (polynucleotide
           phosphorylase) [Xanthomonas vesicatoria ATCC 35937]
          Length = 704

 Score = 37.4 bits (86), Expect = 6.6,   Method: Composition-based stats.
 Identities = 24/109 (22%), Positives = 44/109 (40%), Gaps = 21/109 (19%)

Query: 100 PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDL 158
            +       +A Q+AK  I Q   + E  R Y            G V ++ ++G  +  L
Sbjct: 595 TIIIASVNAIAAQAAKSRIEQITSDVEPGRIYE-----------GKVAKIMDFGAFVTIL 643

Query: 159 GNSDGVIRRDETIS------RENLRPGDRVKSYIYDVRREQRGPQVLLS 201
              DG++   +  S       + L+ GD V+  + +V ++ R   + LS
Sbjct: 644 PGKDGLVHVSQISSERVEKVGDKLKEGDLVRVKVLEVDKQGR---IRLS 689


>gi|321309600|ref|YP_004191929.1| DNA ligase [Mycoplasma haemofelis str. Langford 1]
 gi|319801444|emb|CBY92090.1| DNA ligase [Mycoplasma haemofelis str. Langford 1]
          Length = 662

 Score = 37.4 bits (86), Expect = 6.6,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 33/65 (50%), Gaps = 4/65 (6%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           + E +A+ L+   F  ++E+      E+ SI+G  E+ A  I   +    +  +I L K+
Sbjct: 513 IGEEVAN-LIFGHFGSIDEVLSASKEELMSIDGIGEKCAESIIQWSS---QQENIDLVKR 568

Query: 428 IRELG 432
           ++E G
Sbjct: 569 LKEQG 573


>gi|302845196|ref|XP_002954137.1| rRNA processing protein Rrp5/programmed cell death protein 11 [Volvox
            carteri f. nagariensis]
 gi|300260636|gb|EFJ44854.1| rRNA processing protein Rrp5/programmed cell death protein 11 [Volvox
            carteri f. nagariensis]
          Length = 2192

 Score = 37.4 bits (86), Expect = 6.6,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 29/68 (42%), Gaps = 13/68 (19%)

Query: 137  KVGEIISGTVKRVEYGNVIVDLGNSDGVI-----------RRDETISRENLRPGDRVKSY 185
            + G+++SG V+RVE   V V++G + G++              +       +    V++ 
Sbjct: 1565 RPGQLVSGRVRRVERFGVFVEVGGNPGLVGLAHISELADGPVKDI--NSVFKSKQLVRAV 1622

Query: 186  IYDVRREQ 193
            +  V  E 
Sbjct: 1623 VTKVDVEA 1630


>gi|237804447|ref|YP_002888601.1| 30S ribosomal protein S1 [Chlamydia trachomatis B/TZ1A828/OT]
 gi|231272747|emb|CAX09651.1| SSU ribosomal protein S1P [Chlamydia trachomatis B/TZ1A828/OT]
          Length = 569

 Score = 37.4 bits (86), Expect = 6.6,   Method: Composition-based stats.
 Identities = 25/66 (37%), Positives = 36/66 (54%), Gaps = 4/66 (6%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI-SRENLRPGDRVKSYIYDVRREQRGP 196
           G I+ GTV  +    V+VD+G  S+GVI   E I S E L  G  V+ Y+     ++   
Sbjct: 52  GAILKGTVVDISKDFVVVDVGLKSEGVIPMSEFIDSSEGLTVGAEVEVYLDQTEDDEG-- 109

Query: 197 QVLLSR 202
           +V+LSR
Sbjct: 110 KVVLSR 115


>gi|256826829|ref|YP_003150788.1| DNA-directed RNA polymerase subunit beta' [Cryptobacterium curtum DSM
            15641]
 gi|256582972|gb|ACU94106.1| DNA-directed RNA polymerase subunit beta' [Cryptobacterium curtum DSM
            15641]
          Length = 1463

 Score = 37.4 bits (86), Expect = 6.6,   Method: Composition-based stats.
 Identities = 13/80 (16%), Positives = 29/80 (36%), Gaps = 4/80 (5%)

Query: 364  QAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDIT 423
              + V +  A+     G   V +L      ++  IEG   +   E+    +E LE  D+ 
Sbjct: 1320 DDLGVSQRWANKFSEAGIETVGDLIGYSEEDLLRIEGIGAKAIEEL----KEGLEKHDLL 1375

Query: 424  LQKKIRELGVSEELCSIPGI 443
               +       +++  +  +
Sbjct: 1376 HIIEDDLNATGDDMSQLLDM 1395


>gi|218193735|gb|EEC76162.1| hypothetical protein OsI_13469 [Oryza sativa Indica Group]
          Length = 2098

 Score = 37.4 bits (86), Expect = 6.6,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 23/58 (39%), Gaps = 3/58 (5%)

Query: 437  LCSIPGIDSKIKVALGENG---IKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSL 491
            L  +P    ++     EN    I+T+ DLA  S  ++    +     ++   GFL   
Sbjct: 1921 LLQLPHFTEELARRCQENEGKAIETIFDLAEMSTHEMQDLLQLPSSQLQDIVGFLRRF 1978


>gi|168205615|ref|ZP_02631620.1| ribosomal protein S1 family [Clostridium perfringens E str.
           JGS1987]
 gi|170662936|gb|EDT15619.1| ribosomal protein S1 family [Clostridium perfringens E str.
           JGS1987]
          Length = 378

 Score = 37.4 bits (86), Expect = 6.6,   Method: Composition-based stats.
 Identities = 20/104 (19%), Positives = 44/104 (42%), Gaps = 8/104 (7%)

Query: 96  VVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI 155
            +   +   +     V  +++VI +++R  E+   +     K GE   G V R+      
Sbjct: 154 TLEVRVIEFNKDNRKVVVSRRVIDEEIRNNEKKALWS--SIKEGEKRKGKVTRLAKFGAF 211

Query: 156 VDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           VD+G  +G++   +          E +  GD V+ ++ +V  ++
Sbjct: 212 VDIGGVEGLVHLSDMSWSRVHKPEEVVSVGDEVEVFVSEVDMDR 255


>gi|67477127|ref|XP_654076.1| DNA repair protein RAD51 [Entamoeba histolytica HM-1:IMSS]
 gi|56471096|gb|EAL48690.1| DNA repair protein RAD51, putative [Entamoeba histolytica
           HM-1:IMSS]
          Length = 366

 Score = 37.4 bits (86), Expect = 6.6,   Method: Composition-based stats.
 Identities = 9/53 (16%), Positives = 21/53 (39%)

Query: 359 TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
            +  +    + E     L   GF  V+ +A     ++ +I+G  +  A ++  
Sbjct: 49  IRKLIGLAGITEGDCKKLEEAGFFTVQSIAFTPKKQLITIKGISDAKADKLLA 101


>gi|229010903|ref|ZP_04168099.1| 30S ribosomal protein S1 [Bacillus mycoides DSM 2048]
 gi|228750303|gb|EEM00133.1| 30S ribosomal protein S1 [Bacillus mycoides DSM 2048]
          Length = 382

 Score = 37.4 bits (86), Expect = 6.7,   Method: Composition-based stats.
 Identities = 21/72 (29%), Positives = 35/72 (48%), Gaps = 10/72 (13%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVI-------RRDETISRENLRPGDRVKSYIYDV 189
           K G+I+ GTV+R+      V++G  DG++        R E    E L  G +VK  +  V
Sbjct: 187 KEGDIVEGTVQRLTDFGAFVNVGGVDGLVHISQISHERVEQ-PSEVLEQGQKVKVKVLSV 245

Query: 190 RREQRGPQVLLS 201
             + +  ++ LS
Sbjct: 246 DADTQ--RISLS 255


>gi|297566425|ref|YP_003685397.1| polyribonucleotide nucleotidyltransferase [Meiothermus silvanus DSM
           9946]
 gi|296850874|gb|ADH63889.1| polyribonucleotide nucleotidyltransferase [Meiothermus silvanus DSM
           9946]
          Length = 718

 Score = 37.4 bits (86), Expect = 6.7,   Method: Composition-based stats.
 Identities = 22/114 (19%), Positives = 46/114 (40%), Gaps = 22/114 (19%)

Query: 92  DIGGVVSDP----LPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVK 147
           ++G  V       +       +A + A+  I+ + +EA           ++GEI  GTV 
Sbjct: 595 ELGVEVDIEQDGTVRLFSANAIAAEEARSRILGQTQEA-----------RIGEIYEGTVS 643

Query: 148 RVEYGNVIVDL-GNSDGVIRRDETISR------ENLRPGDRVKSYIYDVRREQR 194
           R+      V L   +DG++   +          + L+ GD+++  +  +  + R
Sbjct: 644 RITNFGAFVTLFPGTDGLLHISQIAPGRVERVEDVLKLGDKIRVKVNKIDEKGR 697


>gi|167841227|ref|ZP_02467911.1| 30S ribosomal protein S1 [Burkholderia thailandensis MSMB43]
          Length = 570

 Score = 37.4 bits (86), Expect = 6.7,   Method: Composition-based stats.
 Identities = 27/114 (23%), Positives = 47/114 (41%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +D +   G  +   +  +D  R  V  +++ +I+  +  ER +     K   G I++G V
Sbjct: 151 KDTTPYEGKTLEFRVIKLDRKRNNVVLSRRAVIEATQGEERAKLLETLK--EGAIVNGVV 208

Query: 147 KRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++       R      E L  G  V + I    +E+ 
Sbjct: 209 KNITDYGAFVDLGGIDGLLHITDIAWRRVRHPSEVLSVGQEVTAKILKFDQEKN 262


>gi|163793689|ref|ZP_02187663.1| Ribosomal protein S1 [alpha proteobacterium BAL199]
 gi|159180800|gb|EDP65317.1| Ribosomal protein S1 [alpha proteobacterium BAL199]
          Length = 568

 Score = 37.4 bits (86), Expect = 6.7,   Method: Composition-based stats.
 Identities = 21/83 (25%), Positives = 39/83 (46%), Gaps = 6/83 (7%)

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDE-TISRE--NLRPG 179
           EA  +  + +     G ++ GT+  +E    ++D+G  S+G +   E T   +   L+PG
Sbjct: 12  EALLEESFGQVASIEGSVVKGTIVSIENDMALIDVGLKSEGRVAVKEFTSPGQKSELKPG 71

Query: 180 DRVKSYIYDVRREQRGPQVLLSR 202
           D V+ Y+  +         +LSR
Sbjct: 72  DIVEVYVERLEDRNGEA--MLSR 92


>gi|150007448|ref|YP_001302191.1| DNA ligase [Parabacteroides distasonis ATCC 8503]
 gi|298375424|ref|ZP_06985381.1| DNA ligase, NAD-dependent [Bacteroides sp. 3_1_19]
 gi|166216223|sp|A6LA55|DNLJ_PARD8 RecName: Full=DNA ligase; AltName: Full=Polydeoxyribonucleotide
           synthase [NAD+]
 gi|149935872|gb|ABR42569.1| DNA ligase [Parabacteroides distasonis ATCC 8503]
 gi|298267924|gb|EFI09580.1| DNA ligase, NAD-dependent [Bacteroides sp. 3_1_19]
          Length = 664

 Score = 37.4 bits (86), Expect = 6.7,   Method: Composition-based stats.
 Identities = 20/119 (16%), Positives = 43/119 (36%), Gaps = 18/119 (15%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG--IDITLQ 425
           V E +A  LV+  F  +E L    + ++ +++   E  A  +     +      ++   +
Sbjct: 514 VGETVAKRLVSA-FHSIEALEQASLEDLVAVDEIGERIAQSVLSYFSDEKNRTLVNRLKE 572

Query: 426 KKIRELGVSEELCS----IPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           + +R     E+L +    + G+   I     ++           S D+     E  GG 
Sbjct: 573 QGLRMAVSEEQLANRSEKLKGLTIVISGTFSKH-----------SRDEYKAMIEQHGGK 620


>gi|332159494|ref|YP_004424773.1| ski2-like helicase [Pyrococcus sp. NA2]
 gi|331034957|gb|AEC52769.1| ski2-like helicase [Pyrococcus sp. NA2]
          Length = 715

 Score = 37.4 bits (86), Expect = 6.7,   Method: Composition-based stats.
 Identities = 11/49 (22%), Positives = 22/49 (44%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
            M+  ++    A  L   GF D++ +   + SE+  +EG   +T   + 
Sbjct: 643 LMELPSIGRKRARALYNAGFKDLDSIRNARPSELLRVEGIGAKTVEAML 691


>gi|323697658|ref|ZP_08109570.1| RNA binding S1 domain protein [Desulfovibrio sp. ND132]
 gi|323457590|gb|EGB13455.1| RNA binding S1 domain protein [Desulfovibrio desulfuricans ND132]
          Length = 486

 Score = 37.4 bits (86), Expect = 6.7,   Method: Composition-based stats.
 Identities = 26/121 (21%), Positives = 49/121 (40%), Gaps = 21/121 (17%)

Query: 91  IDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE---RDRQYLEFKDKVGEIISGTVK 147
           +  G  V+  +  +D         K+ I   +++AE          ++   G+ + G V+
Sbjct: 338 VKEGDAVTVKIKSIDLD-------KRRIGLSMKDAEGDPWAGVADRYQA--GQKVEGVVE 388

Query: 148 RVEYGNVIVDLGNSDGVIRRDETISR-------ENLRPGDRVKSYIYDVRREQRGPQVLL 200
           + E   + V L      +     I+R       E LR GD V+  I +V+  +R  ++ L
Sbjct: 389 KQEQFGIFVQLEPGITGLLPKSVIARSEKPAAFEKLRAGDTVEVVIGEVKTGER--KISL 446

Query: 201 S 201
           S
Sbjct: 447 S 447


>gi|315053028|ref|XP_003175888.1| DNA repair protein RAD51 [Arthroderma gypseum CBS 118893]
 gi|311341203|gb|EFR00406.1| DNA repair protein RAD51 [Arthroderma gypseum CBS 118893]
          Length = 349

 Score = 37.4 bits (86), Expect = 6.7,   Method: Composition-based stats.
 Identities = 18/79 (22%), Positives = 28/79 (35%), Gaps = 7/79 (8%)

Query: 342 ITEEEDSINRQKDFN----ERTQFFMQAINVDEIIA---HLLVAEGFADVEELACVKISE 394
           +T EE S    ++                 V  + A    L+   GF  VE +A      
Sbjct: 1   MTAEEASQAELEENGLPGPGAPTPLSALEGVGGLTARDIKLITDGGFHTVEAVAYTPKRV 60

Query: 395 IASIEGFDEETAVEIQGRA 413
           +  I+G  E+ A +I   A
Sbjct: 61  LEQIKGISEQKATKILTEA 79


>gi|225027431|ref|ZP_03716623.1| hypothetical protein EUBHAL_01687 [Eubacterium hallii DSM 3353]
 gi|224955258|gb|EEG36467.1| hypothetical protein EUBHAL_01687 [Eubacterium hallii DSM 3353]
          Length = 628

 Score = 37.4 bits (86), Expect = 6.7,   Method: Composition-based stats.
 Identities = 29/118 (24%), Positives = 58/118 (49%), Gaps = 15/118 (12%)

Query: 97  VSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD------KVGEIISGTVKRVE 150
           + D       G  A  S    II++V E+  +  + +  +      + GE++ GT+  V+
Sbjct: 249 MEDFSNIGMLGITAGASTPNNIIKEVHESMAEMSFDQMLEESFKTIRNGEVVQGTIIDVK 308

Query: 151 YGNVIVDLG-NSDGVIRRDETISRENL------RPGDRVKSYIYDVRREQRGPQVLLS 201
              +I+++G  +DG+I R+E  + +NL      + GD +++ +  V   +   QVLL+
Sbjct: 309 EDEIILNIGYKADGIISRNEYSNDQNLDLTTVAKVGDEMEAKVLKVNDGEG--QVLLT 364


>gi|159903074|ref|YP_001550418.1| 30S ribosomal protein S1-like protein B, putative Nbp1
           [Prochlorococcus marinus str. MIT 9211]
 gi|159888250|gb|ABX08464.1| 30S ribosomal protein S1-like protein B, putative Nbp1
           [Prochlorococcus marinus str. MIT 9211]
          Length = 416

 Score = 37.4 bits (86), Expect = 6.7,   Method: Composition-based stats.
 Identities = 20/91 (21%), Positives = 37/91 (40%), Gaps = 4/91 (4%)

Query: 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR--PGDRVKSYIYDVRREQ 193
           +K G+ +  T+     G V  DL    G I R +    EN     G ++     +V  + 
Sbjct: 227 EKDGKTVEVTINGFNRGGVTCDLEGLRGFIPRSQLEQTENHESLVGKKLCVAFIEVNPDS 286

Query: 194 RGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           R  +++LS        +   +E+ +I  G +
Sbjct: 287 R--KLILSEKKAATAARFAELEIGQIVAGEI 315


>gi|322371388|ref|ZP_08045937.1| ski2-like helicase [Haladaptatus paucihalophilus DX253]
 gi|320548920|gb|EFW90585.1| ski2-like helicase [Haladaptatus paucihalophilus DX253]
          Length = 752

 Score = 37.4 bits (86), Expect = 6.8,   Method: Composition-based stats.
 Identities = 26/104 (25%), Positives = 38/104 (36%), Gaps = 6/104 (5%)

Query: 403 EETAVEIQGRAREYL---EGIDITLQKKIRELGVSEELCSIPGI---DSKIKVALGENGI 456
           E  A E+Q    E +       +   +K  E GV EEL  + G+     K    L E GI
Sbjct: 625 ERLAAELQRDDAEGIPSATTTAVREARKRVEYGVEEELLDLAGVRNVGRKRARRLYEAGI 684

Query: 457 KTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVES 500
           ++  DL       +LG    +    E     +       D VE+
Sbjct: 685 ESRADLREADKSVVLGALRGRKKTAENILENVGRQDPSLDDVEA 728


>gi|307178501|gb|EFN67190.1| DNA polymerase beta [Camponotus floridanus]
          Length = 337

 Score = 37.4 bits (86), Expect = 6.8,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 33/73 (45%), Gaps = 7/73 (9%)

Query: 393 SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIR--ELGVSEELCS-IPGIDSKIKV 449
            E   + G   + A +I     E+L+   +   + IR  E  ++  L + + GI      
Sbjct: 59  EEAKKLPGIGIKIAKKI----DEFLQTGKLQKLEDIRKDENNIAISLLARVSGIGPAKAK 114

Query: 450 ALGENGIKTMEDL 462
            L + GIKT+EDL
Sbjct: 115 ELVDAGIKTLEDL 127


>gi|255013963|ref|ZP_05286089.1| DNA ligase [Bacteroides sp. 2_1_7]
 gi|301310547|ref|ZP_07216486.1| DNA ligase, NAD-dependent [Bacteroides sp. 20_3]
 gi|300832121|gb|EFK62752.1| DNA ligase, NAD-dependent [Bacteroides sp. 20_3]
          Length = 664

 Score = 37.4 bits (86), Expect = 6.8,   Method: Composition-based stats.
 Identities = 20/119 (16%), Positives = 43/119 (36%), Gaps = 18/119 (15%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEG--IDITLQ 425
           V E +A  LV+  F  +E L    + ++ +++   E  A  +     +      ++   +
Sbjct: 514 VGETVAKRLVSA-FHSIEALEQASLEDLVAVDEIGERIAQSVLSYFSDEKNRTLVNRLKE 572

Query: 426 KKIRELGVSEELCS----IPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           + +R     E+L +    + G+   I     ++           S D+     E  GG 
Sbjct: 573 QGLRMAVSEEQLANRSEKLKGLTIVISGTFSKH-----------SRDEYKAMIEQHGGK 620


>gi|167622342|ref|YP_001672636.1| ERCC4 domain-containing protein [Shewanella halifaxensis HAW-EB4]
 gi|167352364|gb|ABZ74977.1| ERCC4 domain protein [Shewanella halifaxensis HAW-EB4]
          Length = 222

 Score = 37.4 bits (86), Expect = 6.8,   Method: Composition-based stats.
 Identities = 19/82 (23%), Positives = 34/82 (41%), Gaps = 8/82 (9%)

Query: 331 ASQLTGWTIDIITEEEDSINRQKDFNERTQFFM--QAINVDEIIAHLLVAEGFADVEELA 388
           A+QL  W   +I+       R+   ++  Q F+      V   +A  L+   F  +E + 
Sbjct: 132 ATQLNSWETGVIS-----NGRKPKRHKNRQLFILQSLPQVGPKLAKRLLIH-FESIEAVF 185

Query: 389 CVKISEIASIEGFDEETAVEIQ 410
                E+  +EG  +E A  I+
Sbjct: 186 TAPEEELLKVEGIGQEKARGIR 207


>gi|115927400|ref|XP_782196.2| PREDICTED: similar to putative RNA binding protein KOC
           [Strongylocentrotus purpuratus]
 gi|115931135|ref|XP_001193845.1| PREDICTED: similar to putative RNA binding protein KOC
           [Strongylocentrotus purpuratus]
          Length = 657

 Score = 37.4 bits (86), Expect = 6.8,   Method: Composition-based stats.
 Identities = 18/89 (20%), Positives = 38/89 (42%), Gaps = 4/89 (4%)

Query: 308 IEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAIN 367
           + ++V  E +   IG+ G N+R  ++ TG  +DI    +D+I   +          Q   
Sbjct: 203 VRILVRSEFVGAIIGKGGNNIRAITKETGCKVDIHR--KDNIGSSEKAVTICGEPQQVTE 260

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIA 396
             + I  +++ E  +  E    + +  +A
Sbjct: 261 TIKKIVEVMIKE--SSEESHTDMPLKVLA 287


>gi|195127341|ref|XP_002008127.1| GI13326 [Drosophila mojavensis]
 gi|193919736|gb|EDW18603.1| GI13326 [Drosophila mojavensis]
          Length = 1022

 Score = 37.4 bits (86), Expect = 6.8,   Method: Composition-based stats.
 Identities = 16/61 (26%), Positives = 27/61 (44%), Gaps = 1/61 (1%)

Query: 373  AHLLVAEGFADVEELACVKISEIA-SIEGFDEETAVEIQGRAREYLEGIDITLQKKIREL 431
            A  L A GF  +E++A  +  E+  ++E    + A EI   A+  L      L++    L
Sbjct: 953  AKQLYAAGFRTIEDVAKTRPFELVKAVEFMPLKVANEIISAAKIILMKKLDHLEEATEAL 1012

Query: 432  G 432
             
Sbjct: 1013 K 1013


>gi|162447732|ref|YP_001620864.1| 30S ribosomal protein S1 [Acholeplasma laidlawii PG-8A]
 gi|161985839|gb|ABX81488.1| small subunit ribosomal protein S1 [Acholeplasma laidlawii PG-8A]
          Length = 470

 Score = 37.4 bits (86), Expect = 6.8,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 41/73 (56%), Gaps = 7/73 (9%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGN-SDGVIRRD--ETISRENLRP----GDRVKSYIYDV 189
           K G+II G V +V+   V++D+   ++G I  +  +  + E+LR     GD+V++ +  +
Sbjct: 8   KKGQIIEGEVFQVKKNYVLLDINAATEGTIYAEYFDRPAPEDLRKVIKKGDKVRAKVEKI 67

Query: 190 RREQRGPQVLLSR 202
             + R   ++LSR
Sbjct: 68  SEDDRSSLIMLSR 80


>gi|76788812|ref|YP_327898.1| 30S ribosomal protein S1 [Chlamydia trachomatis A/HAR-13]
 gi|255310900|ref|ZP_05353470.1| 30S ribosomal protein S1 [Chlamydia trachomatis 6276]
 gi|255317200|ref|ZP_05358446.1| 30S ribosomal protein S1 [Chlamydia trachomatis 6276s]
 gi|76167342|gb|AAX50350.1| SSU ribosomal protein S1P [Chlamydia trachomatis A/HAR-13]
 gi|296435615|gb|ADH17789.1| 30S ribosomal protein S1 [Chlamydia trachomatis G/9768]
 gi|296436538|gb|ADH18708.1| 30S ribosomal protein S1 [Chlamydia trachomatis G/11222]
 gi|296437475|gb|ADH19636.1| 30S ribosomal protein S1 [Chlamydia trachomatis G/11074]
 gi|297139974|gb|ADH96732.1| 30S ribosomal protein S1 [Chlamydia trachomatis G/9301]
          Length = 569

 Score = 37.4 bits (86), Expect = 6.8,   Method: Composition-based stats.
 Identities = 25/66 (37%), Positives = 36/66 (54%), Gaps = 4/66 (6%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI-SRENLRPGDRVKSYIYDVRREQRGP 196
           G I+ GTV  +    V+VD+G  S+GVI   E I S E L  G  V+ Y+     ++   
Sbjct: 52  GAILKGTVVDISKDFVVVDVGLKSEGVIPMSEFIDSSEGLTVGAEVEVYLDQTEDDEG-- 109

Query: 197 QVLLSR 202
           +V+LSR
Sbjct: 110 KVVLSR 115


>gi|53720125|ref|YP_109111.1| 30S ribosomal protein S1 [Burkholderia pseudomallei K96243]
 gi|53724787|ref|YP_102241.1| 30S ribosomal protein S1 [Burkholderia mallei ATCC 23344]
 gi|67642915|ref|ZP_00441666.1| 30S ribosomal protein S1 [Burkholderia mallei GB8 horse 4]
 gi|76809559|ref|YP_334373.1| 30S ribosomal protein S1 [Burkholderia pseudomallei 1710b]
 gi|83719745|ref|YP_442175.1| 30S ribosomal protein S1 [Burkholderia thailandensis E264]
 gi|121599264|ref|YP_993874.1| 30S ribosomal protein S1 [Burkholderia mallei SAVP1]
 gi|124384139|ref|YP_001026937.1| 30S ribosomal protein S1 [Burkholderia mallei NCTC 10229]
 gi|126441941|ref|YP_001059901.1| 30S ribosomal protein S1 [Burkholderia pseudomallei 668]
 gi|126450751|ref|YP_001079776.1| 30S ribosomal protein S1 [Burkholderia mallei NCTC 10247]
 gi|126454931|ref|YP_001067190.1| 30S ribosomal protein S1 [Burkholderia pseudomallei 1106a]
 gi|134277319|ref|ZP_01764034.1| 30S ribosomal protein S1 [Burkholderia pseudomallei 305]
 gi|166999732|ref|ZP_02265566.1| 30S ribosomal protein S1 [Burkholderia mallei PRL-20]
 gi|167581053|ref|ZP_02373927.1| 30S ribosomal protein S1 [Burkholderia thailandensis TXDOH]
 gi|167619131|ref|ZP_02387762.1| 30S ribosomal protein S1 [Burkholderia thailandensis Bt4]
 gi|167720666|ref|ZP_02403902.1| 30S ribosomal protein S1 [Burkholderia pseudomallei DM98]
 gi|167739654|ref|ZP_02412428.1| 30S ribosomal protein S1 [Burkholderia pseudomallei 14]
 gi|167816859|ref|ZP_02448539.1| 30S ribosomal protein S1 [Burkholderia pseudomallei 91]
 gi|167825259|ref|ZP_02456730.1| 30S ribosomal protein S1 [Burkholderia pseudomallei 9]
 gi|167846763|ref|ZP_02472271.1| 30S ribosomal protein S1 [Burkholderia pseudomallei B7210]
 gi|167895351|ref|ZP_02482753.1| 30S ribosomal protein S1 [Burkholderia pseudomallei 7894]
 gi|167903737|ref|ZP_02490942.1| 30S ribosomal protein S1 [Burkholderia pseudomallei NCTC 13177]
 gi|167911986|ref|ZP_02499077.1| 30S ribosomal protein S1 [Burkholderia pseudomallei 112]
 gi|167919977|ref|ZP_02507068.1| 30S ribosomal protein S1 [Burkholderia pseudomallei BCC215]
 gi|217421085|ref|ZP_03452590.1| 30S ribosomal protein S1 [Burkholderia pseudomallei 576]
 gi|226197856|ref|ZP_03793430.1| 30S ribosomal protein S1 [Burkholderia pseudomallei Pakistan 9]
 gi|237813295|ref|YP_002897746.1| ribosomal protein S1 [Burkholderia pseudomallei MSHR346]
 gi|242316257|ref|ZP_04815273.1| 30S ribosomal protein S1 [Burkholderia pseudomallei 1106b]
 gi|254176819|ref|ZP_04883476.1| 30S ribosomal protein S1 [Burkholderia mallei ATCC 10399]
 gi|254181089|ref|ZP_04887687.1| 30S ribosomal protein S1 [Burkholderia pseudomallei 1655]
 gi|254192045|ref|ZP_04898545.1| 30S ribosomal protein S1 [Burkholderia pseudomallei Pasteur 52237]
 gi|254195641|ref|ZP_04902068.1| 30S ribosomal protein S1 [Burkholderia pseudomallei S13]
 gi|254203925|ref|ZP_04910285.1| 30S ribosomal protein S1 [Burkholderia mallei FMH]
 gi|254208905|ref|ZP_04915253.1| 30S ribosomal protein S1 [Burkholderia mallei JHU]
 gi|254258613|ref|ZP_04949667.1| 30S ribosomal protein S1 [Burkholderia pseudomallei 1710a]
 gi|254295621|ref|ZP_04963079.1| 30S ribosomal protein S1 [Burkholderia pseudomallei 406e]
 gi|254360040|ref|ZP_04976310.1| 30S ribosomal protein S1 [Burkholderia mallei 2002721280]
 gi|257138364|ref|ZP_05586626.1| 30S ribosomal protein S1 [Burkholderia thailandensis E264]
 gi|52210539|emb|CAH36522.1| 30S ribosomal protein S1 [Burkholderia pseudomallei K96243]
 gi|52428210|gb|AAU48803.1| ribosomal protein S1 [Burkholderia mallei ATCC 23344]
 gi|76579012|gb|ABA48487.1| ribosomal protein S1 [Burkholderia pseudomallei 1710b]
 gi|83653570|gb|ABC37633.1| ribosomal protein S1 [Burkholderia thailandensis E264]
 gi|121228074|gb|ABM50592.1| 30S ribosomal protein S1 [Burkholderia mallei SAVP1]
 gi|124292159|gb|ABN01428.1| 30S ribosomal protein S1 [Burkholderia mallei NCTC 10229]
 gi|126221434|gb|ABN84940.1| 30S ribosomal protein S1 [Burkholderia pseudomallei 668]
 gi|126228573|gb|ABN92113.1| 30S ribosomal protein S1 [Burkholderia pseudomallei 1106a]
 gi|126243621|gb|ABO06714.1| 30S ribosomal protein S1 [Burkholderia mallei NCTC 10247]
 gi|134250969|gb|EBA51048.1| 30S ribosomal protein S1 [Burkholderia pseudomallei 305]
 gi|147745437|gb|EDK52517.1| 30S ribosomal protein S1 [Burkholderia mallei FMH]
 gi|147750781|gb|EDK57850.1| 30S ribosomal protein S1 [Burkholderia mallei JHU]
 gi|148029280|gb|EDK87185.1| 30S ribosomal protein S1 [Burkholderia mallei 2002721280]
 gi|157805534|gb|EDO82704.1| 30S ribosomal protein S1 [Burkholderia pseudomallei 406e]
 gi|157987867|gb|EDO95632.1| 30S ribosomal protein S1 [Burkholderia pseudomallei Pasteur 52237]
 gi|160697860|gb|EDP87830.1| 30S ribosomal protein S1 [Burkholderia mallei ATCC 10399]
 gi|169652387|gb|EDS85080.1| 30S ribosomal protein S1 [Burkholderia pseudomallei S13]
 gi|184211628|gb|EDU08671.1| 30S ribosomal protein S1 [Burkholderia pseudomallei 1655]
 gi|217396497|gb|EEC36514.1| 30S ribosomal protein S1 [Burkholderia pseudomallei 576]
 gi|225930044|gb|EEH26057.1| 30S ribosomal protein S1 [Burkholderia pseudomallei Pakistan 9]
 gi|237504090|gb|ACQ96408.1| ribosomal protein S1 [Burkholderia pseudomallei MSHR346]
 gi|238524132|gb|EEP87567.1| 30S ribosomal protein S1 [Burkholderia mallei GB8 horse 4]
 gi|242139496|gb|EES25898.1| 30S ribosomal protein S1 [Burkholderia pseudomallei 1106b]
 gi|243064225|gb|EES46411.1| 30S ribosomal protein S1 [Burkholderia mallei PRL-20]
 gi|254217302|gb|EET06686.1| 30S ribosomal protein S1 [Burkholderia pseudomallei 1710a]
          Length = 570

 Score = 37.4 bits (86), Expect = 6.8,   Method: Composition-based stats.
 Identities = 27/114 (23%), Positives = 47/114 (41%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +D +   G  +   +  +D  R  V  +++ +I+  +  ER +     K   G I++G V
Sbjct: 151 KDTTPYEGKTLEFRVIKLDRKRNNVVLSRRAVIEATQGEERAKLLETLK--EGAIVNGVV 208

Query: 147 KRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
           K +      VDLG  DG++       R      E L  G  V + I    +E+ 
Sbjct: 209 KNITDYGAFVDLGGIDGLLHITDIAWRRVRHPSEVLSVGQEVTAKILKFDQEKN 262


>gi|15604817|ref|NP_219601.1| 30S ribosomal protein S1 [Chlamydia trachomatis D/UW-3/CX]
 gi|255506673|ref|ZP_05382312.1| 30S ribosomal protein S1 [Chlamydia trachomatis D(s)2923]
 gi|6831540|sp|O84100|RS1_CHLTR RecName: Full=30S ribosomal protein S1
 gi|3328495|gb|AAC67689.1| S1 Ribosomal Protein [Chlamydia trachomatis D/UW-3/CX]
 gi|289525142|emb|CBJ14614.1| SSU ribosomal protein S1P [Chlamydia trachomatis Sweden2]
 gi|296434686|gb|ADH16864.1| 30S ribosomal protein S1 [Chlamydia trachomatis E/150]
 gi|297748227|gb|ADI50773.1| SSU ribosomal protein S1P [Chlamydia trachomatis D-EC]
 gi|297749107|gb|ADI51785.1| SSU ribosomal protein S1P [Chlamydia trachomatis D-LC]
          Length = 569

 Score = 37.4 bits (86), Expect = 6.9,   Method: Composition-based stats.
 Identities = 25/66 (37%), Positives = 36/66 (54%), Gaps = 4/66 (6%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI-SRENLRPGDRVKSYIYDVRREQRGP 196
           G I+ GTV  +    V+VD+G  S+GVI   E I S E L  G  V+ Y+     ++   
Sbjct: 52  GAILKGTVVDISKDFVVVDVGLKSEGVIPMSEFIDSSEGLTVGAEVEVYLDQTEDDEG-- 109

Query: 197 QVLLSR 202
           +V+LSR
Sbjct: 110 KVVLSR 115


>gi|307212336|gb|EFN88140.1| Ankyrin repeat domain-containing protein 17 [Harpegnathos saltator]
          Length = 2982

 Score = 37.4 bits (86), Expect = 6.9,   Method: Composition-based stats.
 Identities = 20/81 (24%), Positives = 32/81 (39%), Gaps = 12/81 (14%)

Query: 306  GRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDI----ITEEEDSINRQKDFNERTQF 361
               +V VP   +S  IGR G N+      TG  I++     ++ E  I  +       Q 
Sbjct: 2087 RSKKVSVPPNAISRVIGRGGSNINAIRAATGAHIEVEKQSKSQGERIITIKGSSEAMKQA 2146

Query: 362  F------MQAINVDEIIAHLL 376
            F      ++  +VD  I  +L
Sbjct: 2147 FTLITALIKDPDVD--IIQML 2165


>gi|299066876|emb|CBJ38071.1| 30S ribosomal subunit protein S1 [Ralstonia solanacearum CMR15]
          Length = 562

 Score = 37.4 bits (86), Expect = 6.9,   Method: Composition-based stats.
 Identities = 28/122 (22%), Positives = 48/122 (39%), Gaps = 9/122 (7%)

Query: 80  SLKVARDR-DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           SL   R   D +   G  +   +  +D  R  V  +++ +++     ER +     K   
Sbjct: 137 SLVDVRPIKDTTPYEGKTLEFKVIKLDRKRNNVVLSRRAVVEATLGEERQKLMETLK--E 194

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRRE 192
           G I++G VK +      VDLG  DG++       R      E L  G  + + I    +E
Sbjct: 195 GAIVNGIVKNITDYGAFVDLGGIDGLLHITDLAWRRVRHPSEVLSVGQEITAKILKFDQE 254

Query: 193 QR 194
           + 
Sbjct: 255 KN 256


>gi|284053153|ref|ZP_06383363.1| RNA-binding S1 domain-containing protein [Arthrospira platensis
           str. Paraca]
 gi|291567299|dbj|BAI89571.1| 30S ribosomal protein S1 [Arthrospira platensis NIES-39]
          Length = 294

 Score = 37.4 bits (86), Expect = 6.9,   Method: Composition-based stats.
 Identities = 27/146 (18%), Positives = 57/146 (39%), Gaps = 22/146 (15%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  ++F R      +Q ++   R A +   + +   +VG+++ GTV  ++   V ++L
Sbjct: 160 ITVTIIEFNRD-----RQKLVLSQRMASQSVSFSQL--QVGQLVEGTVGSIKPFGVFIEL 212

Query: 159 GNSDGVIRRDETISR------ENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQFMVKLF 212
               G+I   E   +      +    G  VK+ +  +   ++  +V LS        +L 
Sbjct: 213 EGVTGLIHIKEVSQKYVGSLPDIFTLGQTVKALVISLEEGRQ--RVSLS-------TRLL 263

Query: 213 HMEVPEIYNGIVQVKAVSRDPGSRAK 238
                EI     +V   +     RA+
Sbjct: 264 ENYPGEIVEKFPEVMDSAEARAERAR 289


>gi|126460634|ref|YP_001056912.1| Rad51-like protein [Pyrobaculum calidifontis JCM 11548]
 gi|126250355|gb|ABO09446.1| Rad51-like protein [Pyrobaculum calidifontis JCM 11548]
          Length = 314

 Score = 37.4 bits (86), Expect = 6.9,   Method: Composition-based stats.
 Identities = 15/73 (20%), Positives = 31/73 (42%), Gaps = 6/73 (8%)

Query: 435 EELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTP 494
           + L  + G+  K    L E G+ ++E LA  +V++L+         ++     +  +GT 
Sbjct: 10  DPLEELEGVGPKTLERLRELGVTSVEHLAEFTVEELVEAGVEYDRAVKILQQAIQRVGTT 69

Query: 495 KDQVESMIIHARY 507
           +       + AR 
Sbjct: 70  RP------LTARE 76


>gi|303245616|ref|ZP_07331899.1| ribosomal protein S1 [Desulfovibrio fructosovorans JJ]
 gi|302492879|gb|EFL52744.1| ribosomal protein S1 [Desulfovibrio fructosovorans JJ]
          Length = 576

 Score = 37.4 bits (86), Expect = 7.0,   Method: Composition-based stats.
 Identities = 21/142 (14%), Positives = 54/142 (38%), Gaps = 17/142 (11%)

Query: 69  VEEVENYTCQISLKVARDRDPSIDI--GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAE 126
           V+       QI +   +D    +++  G  +   +   +     +  +++        A+
Sbjct: 54  VDVNFKSEGQIPVSEFQDGAGELEVAVGDQIDVYVVSKNESEGTIYLSRE-------RAK 106

Query: 127 RDRQYLEFKD--KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDET----ISRENLRPGD 180
           R + + + ++  +  ++I+G + R   G   VDLG  +  +         +   +   G 
Sbjct: 107 RMQLFDKLEEIQEKDDVITGRIVRRIKGGYTVDLGGVEAFLPGSHVDLRPVPDMDALVGQ 166

Query: 181 RVKSYIYDVRREQRGPQVLLSR 202
             +  +  + R  R   V++SR
Sbjct: 167 EFEFRVLKINR--RRSNVIVSR 186


>gi|255714000|ref|XP_002553282.1| KLTH0D13156p [Lachancea thermotolerans]
 gi|238934662|emb|CAR22844.1| KLTH0D13156p [Lachancea thermotolerans]
          Length = 1731

 Score = 37.4 bits (86), Expect = 7.0,   Method: Composition-based stats.
 Identities = 16/71 (22%), Positives = 34/71 (47%), Gaps = 4/71 (5%)

Query: 134  FKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISR-ENLRPGDRVKSYIYDVRRE 192
            + ++   I+S  V  ++  +  ++L +      RD T    E+L+ GD V+  +  +   
Sbjct: 1133 YANQKNSIVSAKVISIDKDDGKLNL-SLRSENPRDGTAKTHEDLKRGDVVRGLVKKI--T 1189

Query: 193  QRGPQVLLSRT 203
            ++G  + LS T
Sbjct: 1190 EKGIFIYLSST 1200


>gi|91788799|ref|YP_549751.1| exonuclease I [Polaromonas sp. JS666]
 gi|91698024|gb|ABE44853.1| Exodeoxyribonuclease I subunit C [Polaromonas sp. JS666]
          Length = 480

 Score = 37.4 bits (86), Expect = 7.0,   Method: Composition-based stats.
 Identities = 31/154 (20%), Positives = 59/154 (38%), Gaps = 27/154 (17%)

Query: 337 WTIDI---ITEEEDSINRQKDFNERTQFFM----QAINVDEIIAHLLV-AEGFADVEELA 388
           W +D+   +   E +           + F      A +VDE +    V       + +L 
Sbjct: 324 WGVDMDAALRNAEKAAGLPDMSAIWPEVFQRPKEAAPDVDEDLYGGFVGNADRRRLNQLR 383

Query: 389 CVKISEIA-SIEGFDEETAVEI--QGRAREYLEGIDITLQKKIRELGVSEELCSIPGIDS 445
            +  +E+A S  GFD++   E+  + RAR + E +    + +  E   +  L        
Sbjct: 384 ALSPAELAHSRTGFDDDRLQELLFRYRARNFAETLTPE-EAERWEAHRAARLLE------ 436

Query: 446 KIKVALGENGIKTMEDL-AGCSVDDLLGWSENKG 478
                 GE G + ++ L A   +D L   ++ +G
Sbjct: 437 ------GEGGARNVDALFAE--IDTLSETTDERG 462


>gi|332976846|gb|EGK13671.1| polyribonucleotide nucleotidyltransferase [Desmospora sp. 8437]
          Length = 697

 Score = 37.0 bits (85), Expect = 7.1,   Method: Composition-based stats.
 Identities = 29/126 (23%), Positives = 47/126 (37%), Gaps = 29/126 (23%)

Query: 92  DIGGVVSDPLPPMDFGRVAVQSA--------KQVIIQKVREAERDRQYLEFKDKVGEIIS 143
            I       +     GR+ + SA        K +I   VRE             VGEI  
Sbjct: 578 KIIDETGVKIDIEQDGRIFIASADPAQNEKAKSIIEDLVREVV-----------VGEIYI 626

Query: 144 GTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP-------GDRVKSYIYDVRREQRGP 196
           GTVKRVE     V++      +     + +E +         GD+++  + ++  + R  
Sbjct: 627 GTVKRVEKYGAFVEILPGKEGLVHISQLDKERVNKVSDVVNLGDQIQVKVTEIDNQGR-- 684

Query: 197 QVLLSR 202
            + LSR
Sbjct: 685 -INLSR 689


>gi|326803716|ref|YP_004321534.1| putative ribosomal protein S1 [Aerococcus urinae ACS-120-V-Col10a]
 gi|326650493|gb|AEA00676.1| putative ribosomal protein S1 [Aerococcus urinae ACS-120-V-Col10a]
          Length = 440

 Score = 37.0 bits (85), Expect = 7.1,   Method: Composition-based stats.
 Identities = 24/106 (22%), Positives = 46/106 (43%), Gaps = 8/106 (7%)

Query: 94  GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN 153
           G  +   +  ++     +  + + I ++  EAER  +  +F+   GE++ GTV R+    
Sbjct: 169 GKELEVKIVEINPQENRLILSHKEIAREQAEAERAEKLAQFE--EGEVVEGTVARLANFG 226

Query: 154 VIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
             VDLG  DG++   +          + L  G  VK  I  +  ++
Sbjct: 227 AFVDLGGIDGLVHISQIAHHHVNHPSDELEVGQTVKVKILSIDEDR 272


>gi|229096089|ref|ZP_04227062.1| 30S ribosomal protein S1 [Bacillus cereus Rock3-29]
 gi|229102201|ref|ZP_04232910.1| 30S ribosomal protein S1 [Bacillus cereus Rock3-28]
 gi|229115045|ref|ZP_04244455.1| 30S ribosomal protein S1 [Bacillus cereus Rock1-3]
 gi|228668185|gb|EEL23617.1| 30S ribosomal protein S1 [Bacillus cereus Rock1-3]
 gi|228681102|gb|EEL35270.1| 30S ribosomal protein S1 [Bacillus cereus Rock3-28]
 gi|228687049|gb|EEL40954.1| 30S ribosomal protein S1 [Bacillus cereus Rock3-29]
          Length = 382

 Score = 37.0 bits (85), Expect = 7.1,   Method: Composition-based stats.
 Identities = 21/72 (29%), Positives = 35/72 (48%), Gaps = 10/72 (13%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVI-------RRDETISRENLRPGDRVKSYIYDV 189
           K G+I+ GTV+R+      V++G  DG++        R E    E L  G +VK  +  V
Sbjct: 187 KEGDIVEGTVQRLTDFGAFVNVGGVDGLVHISQISHERVEQ-PSEVLEQGQKVKVKVLSV 245

Query: 190 RREQRGPQVLLS 201
             + +  ++ LS
Sbjct: 246 DADTQ--RISLS 255


>gi|313125807|ref|YP_004036077.1| LSU ribosomal protein l32e [Halogeometricum borinquense DSM 11551]
 gi|312292172|gb|ADQ66632.1| LSU ribosomal protein L32E [Halogeometricum borinquense DSM 11551]
          Length = 234

 Score = 37.0 bits (85), Expect = 7.1,   Method: Composition-based stats.
 Identities = 14/56 (25%), Positives = 21/56 (37%)

Query: 356 NERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
           +E  Q       V    A  L   G+  VE++     SE+A + G     A  I+ 
Sbjct: 3   DEEIQELEDISGVGPSKADALSEAGYESVEDVKAANQSELADVSGIGNALAARIKA 58


>gi|195052979|ref|XP_001993412.1| GH13085 [Drosophila grimshawi]
 gi|193900471|gb|EDV99337.1| GH13085 [Drosophila grimshawi]
          Length = 582

 Score = 37.0 bits (85), Expect = 7.1,   Method: Composition-based stats.
 Identities = 10/31 (32%), Positives = 19/31 (61%)

Query: 309 EVIVPKEQLSLAIGRRGQNVRLASQLTGWTI 339
           ++++  + + L IGR G N++L  + TG  I
Sbjct: 69  KIVLDNDHVPLIIGRGGANIKLIEEKTGAKI 99


>gi|126174291|ref|YP_001050440.1| 30S ribosomal protein S1 [Shewanella baltica OS155]
 gi|153000799|ref|YP_001366480.1| 30S ribosomal protein S1 [Shewanella baltica OS185]
 gi|160875508|ref|YP_001554824.1| 30S ribosomal protein S1 [Shewanella baltica OS195]
 gi|217973242|ref|YP_002357993.1| 30S ribosomal protein S1 [Shewanella baltica OS223]
 gi|304408840|ref|ZP_07390461.1| ribosomal protein S1 [Shewanella baltica OS183]
 gi|307302843|ref|ZP_07582598.1| ribosomal protein S1 [Shewanella baltica BA175]
 gi|125997496|gb|ABN61571.1| SSU ribosomal protein S1P [Shewanella baltica OS155]
 gi|151365417|gb|ABS08417.1| ribosomal protein S1 [Shewanella baltica OS185]
 gi|160861030|gb|ABX49564.1| ribosomal protein S1 [Shewanella baltica OS195]
 gi|217498377|gb|ACK46570.1| ribosomal protein S1 [Shewanella baltica OS223]
 gi|304352661|gb|EFM17058.1| ribosomal protein S1 [Shewanella baltica OS183]
 gi|306913203|gb|EFN43625.1| ribosomal protein S1 [Shewanella baltica BA175]
 gi|315267695|gb|ADT94548.1| ribosomal protein S1 [Shewanella baltica OS678]
          Length = 555

 Score = 37.0 bits (85), Expect = 7.1,   Method: Composition-based stats.
 Identities = 31/122 (25%), Positives = 50/122 (40%), Gaps = 21/122 (17%)

Query: 90  SIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFK--DKVGEIISGTVK 147
               G  +   +  +D  R       + I   V++ E D  +  +    K G I++GTV 
Sbjct: 408 EYKKGDEIHAVVLSVDPER-------ERISLGVKQTEDDP-FNAYLADKKKGTIVNGTVS 459

Query: 148 RVEYGNVIVDL-GNSDGVIRRDETISREN-------LRPGDRVKSYIYDVRREQRGPQVL 199
            V+   V V+L    +G IR  + ISRE           GD +++    V R+ R   + 
Sbjct: 460 AVDAKGVTVELADTVEGYIRVAD-ISRERIEDASTVYNVGDAIEAKFMGVDRKNR--SIS 516

Query: 200 LS 201
           LS
Sbjct: 517 LS 518


>gi|30017579|gb|AAP13001.1| putative Sec63 domain containing protein [Oryza sativa Japonica
            Group]
 gi|108711023|gb|ABF98818.1| U5 small nuclear ribonucleoprotein 200 kDa helicase, putative [Oryza
            sativa Japonica Group]
          Length = 2144

 Score = 37.0 bits (85), Expect = 7.1,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 23/58 (39%), Gaps = 3/58 (5%)

Query: 437  LCSIPGIDSKIKVALGENG---IKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSL 491
            L  +P    ++     EN    I+T+ DLA  S  ++    +     ++   GFL   
Sbjct: 1967 LLQLPHFTEELARRCQENEGKAIETIFDLAEMSTHEMQDLLQLPSSQLQDIVGFLRRF 2024


>gi|296438403|gb|ADH20556.1| 30S ribosomal protein S1 [Chlamydia trachomatis E/11023]
          Length = 569

 Score = 37.0 bits (85), Expect = 7.1,   Method: Composition-based stats.
 Identities = 25/66 (37%), Positives = 36/66 (54%), Gaps = 4/66 (6%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI-SRENLRPGDRVKSYIYDVRREQRGP 196
           G I+ GTV  +    V+VD+G  S+GVI   E I S E L  G  V+ Y+     ++   
Sbjct: 52  GAILKGTVVDISKDFVVVDVGLKSEGVIPMSEFIDSSEGLTVGAEVEVYLDQTEDDEG-- 109

Query: 197 QVLLSR 202
           +V+LSR
Sbjct: 110 KVVLSR 115


>gi|222084305|ref|YP_002542834.1| ribosomal protein S1 [Agrobacterium radiobacter K84]
 gi|221721753|gb|ACM24909.1| ribosomal protein S1 [Agrobacterium radiobacter K84]
          Length = 567

 Score = 37.0 bits (85), Expect = 7.1,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 43/101 (42%), Gaps = 8/101 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD  R  +  +++ ++++ R  +R       +   G+++ G VK +      VDL
Sbjct: 160 FEILKMDKRRGNIVVSRRTVLEESRAEQRSEIVQNLE--EGQVVDGVVKNITDYGAFVDL 217

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   +          E L  G +VK  I  + +E 
Sbjct: 218 GGIDGLLHVTDMAWRRVNHPSEILSIGQQVKVQIIRINQET 258


>gi|94993180|ref|YP_601279.1| polynucleotide phosphorylase/polyadenylase [Streptococcus pyogenes
           MGAS2096]
 gi|123382250|sp|Q1J9S6|PNP_STRPB RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|94546688|gb|ABF36735.1| Polyribonucleotide nucleotidyltransferase [Streptococcus pyogenes
           MGAS2096]
          Length = 701

 Score = 37.0 bits (85), Expect = 7.1,   Method: Composition-based stats.
 Identities = 30/185 (16%), Positives = 65/185 (35%), Gaps = 36/185 (19%)

Query: 29  SVMADSIQKAARSLYGTMSDIRVEINP------------ETGDISLFRLLEVVEEVENYT 76
            ++ +++ +A ++ +  +  I   I              +T  I + ++  V+ +     
Sbjct: 511 QILEEALAQAKKARFEILDVIEATIAEPRPELAPTAPKIDTIKIDVDKIKVVIGKGGETI 570

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +I  +     D   +        +      + A+   K++I   VREA           
Sbjct: 571 DKIIAETGVKIDIDDEGN------VSIYSSDQAAINRTKEIIAGLVREA----------- 613

Query: 137 KVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDET------ISRENLRPGDRVKSYIYDV 189
           KVGE+    V R+E     V+L   +D ++   E          + L  G+ V   +  +
Sbjct: 614 KVGEVYHAKVVRIEKFGAFVNLFDKTDALVHISEIAWTRTTNVSDVLEVGEDVDVKVIKI 673

Query: 190 RREQR 194
             + R
Sbjct: 674 DEKGR 678


>gi|312875976|ref|ZP_07735965.1| hydroxymethylbutenyl pyrophosphate reductase [Caldicellulosiruptor
           lactoaceticus 6A]
 gi|311797174|gb|EFR13514.1| hydroxymethylbutenyl pyrophosphate reductase [Caldicellulosiruptor
           lactoaceticus 6A]
          Length = 457

 Score = 37.0 bits (85), Expect = 7.2,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 32/57 (56%), Gaps = 7/57 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISR------ENLRPGDRVKSYIYD 188
           GE++ G + +VE   ++VD+G  ++G+I +DE I        +  + G+ +++ +  
Sbjct: 305 GEVVKGRIIKVEEDYLLVDIGYKAEGIIYKDEVIKNGNVNLKDLFKIGETIEAVVIK 361


>gi|217967867|ref|YP_002353373.1| excinuclease ABC, C subunit [Dictyoglomus turgidum DSM 6724]
 gi|217336966|gb|ACK42759.1| excinuclease ABC, C subunit [Dictyoglomus turgidum DSM 6724]
          Length = 598

 Score = 37.0 bits (85), Expect = 7.2,   Method: Composition-based stats.
 Identities = 11/48 (22%), Positives = 21/48 (43%), Gaps = 1/48 (2%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEI 409
             +   + E    +L+   F D+E L    + ++  I G  E+ A +I
Sbjct: 544 LEKIPGIGEKRMKILLEA-FNDLESLKKASLEDLKKIPGISEKIAEKI 590


>gi|166154319|ref|YP_001654437.1| 30S ribosomal protein S1 [Chlamydia trachomatis 434/Bu]
 gi|166155194|ref|YP_001653449.1| 30S ribosomal protein S1 [Chlamydia trachomatis
           L2b/UCH-1/proctitis]
 gi|255348460|ref|ZP_05380467.1| 30S ribosomal protein S1 [Chlamydia trachomatis 70]
 gi|255503002|ref|ZP_05381392.1| 30S ribosomal protein S1 [Chlamydia trachomatis 70s]
 gi|301335570|ref|ZP_07223814.1| 30S ribosomal protein S1 [Chlamydia trachomatis L2tet1]
 gi|165930307|emb|CAP03793.1| SSU ribosomal protein S1P [Chlamydia trachomatis 434/Bu]
 gi|165931182|emb|CAP06747.1| SSU ribosomal protein S1P [Chlamydia trachomatis
           L2b/UCH-1/proctitis]
          Length = 569

 Score = 37.0 bits (85), Expect = 7.2,   Method: Composition-based stats.
 Identities = 25/66 (37%), Positives = 36/66 (54%), Gaps = 4/66 (6%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI-SRENLRPGDRVKSYIYDVRREQRGP 196
           G I+ GTV  +    V+VD+G  S+GVI   E I S E L  G  V+ Y+     ++   
Sbjct: 52  GAILKGTVVDISKDFVVVDVGLKSEGVIPMSEFIDSSEGLTVGAEVEVYLDQTEDDEG-- 109

Query: 197 QVLLSR 202
           +V+LSR
Sbjct: 110 KVVLSR 115


>gi|58582837|ref|YP_201853.1| polynucleotide phosphorylase/polyadenylase [Xanthomonas oryzae pv.
           oryzae KACC10331]
 gi|84624704|ref|YP_452076.1| polynucleotide phosphorylase/polyadenylase [Xanthomonas oryzae pv.
           oryzae MAFF 311018]
 gi|188577676|ref|YP_001914605.1| polynucleotide phosphorylase/polyadenylase [Xanthomonas oryzae pv.
           oryzae PXO99A]
 gi|75434649|sp|Q5GXV3|PNP_XANOR RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|123739068|sp|Q2P0X5|PNP_XANOM RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|226704832|sp|B2SVJ9|PNP_XANOP RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|58427431|gb|AAW76468.1| polynucleotide phosphorylase [Xanthomonas oryzae pv. oryzae
           KACC10331]
 gi|84368644|dbj|BAE69802.1| polynucleotide phosphorylase [Xanthomonas oryzae pv. oryzae MAFF
           311018]
 gi|188522128|gb|ACD60073.1| polyribonucleotide nucleotidyltransferase [Xanthomonas oryzae pv.
           oryzae PXO99A]
          Length = 704

 Score = 37.0 bits (85), Expect = 7.2,   Method: Composition-based stats.
 Identities = 24/109 (22%), Positives = 44/109 (40%), Gaps = 21/109 (19%)

Query: 100 PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDL 158
            +       +A Q+AK  I Q   + E  R Y            G V ++ ++G  +  L
Sbjct: 595 TIIIASVNAIAAQAAKSRIEQITSDVEPGRIYE-----------GKVAKIMDFGAFVTIL 643

Query: 159 GNSDGVIRRDETIS------RENLRPGDRVKSYIYDVRREQRGPQVLLS 201
              DG++   +  S       + L+ GD V+  + +V ++ R   + LS
Sbjct: 644 PGKDGLVHVSQISSERVEKVGDKLKEGDLVRVKVLEVDKQGR---IRLS 689


>gi|312793510|ref|YP_004026433.1| hydroxymethylbutenyl pyrophosphate reductase [Caldicellulosiruptor
           kristjanssonii 177R1B]
 gi|312180650|gb|ADQ40820.1| hydroxymethylbutenyl pyrophosphate reductase [Caldicellulosiruptor
           kristjanssonii 177R1B]
          Length = 663

 Score = 37.0 bits (85), Expect = 7.2,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 32/57 (56%), Gaps = 7/57 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISR------ENLRPGDRVKSYIYD 188
           GE++ G + +VE   ++VD+G  ++G+I +DE I        +  + G+ +++ +  
Sbjct: 305 GEVVKGRIIKVEEDYLLVDIGYKAEGIIYKDEVIKNGNVNLKDLFKIGETIEAVVIK 361


>gi|289665195|ref|ZP_06486776.1| polynucleotide phosphorylase/polyadenylase [Xanthomonas campestris
           pv. vasculorum NCPPB702]
 gi|289667359|ref|ZP_06488434.1| polynucleotide phosphorylase/polyadenylase [Xanthomonas campestris
           pv. musacearum NCPPB4381]
          Length = 704

 Score = 37.0 bits (85), Expect = 7.2,   Method: Composition-based stats.
 Identities = 24/109 (22%), Positives = 44/109 (40%), Gaps = 21/109 (19%)

Query: 100 PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDL 158
            +       +A Q+AK  I Q   + E  R Y            G V ++ ++G  +  L
Sbjct: 595 TIIIASVNAIAAQAAKSRIEQITSDVEPGRIYE-----------GKVAKIMDFGAFVTIL 643

Query: 159 GNSDGVIRRDETIS------RENLRPGDRVKSYIYDVRREQRGPQVLLS 201
              DG++   +  S       + L+ GD V+  + +V ++ R   + LS
Sbjct: 644 PGKDGLVHVSQISSERVEKVGDKLKEGDLVRVKVLEVDKQGR---IRLS 689


>gi|188991049|ref|YP_001903059.1| polynucleotide phosphorylase/polyadenylase [Xanthomonas campestris
           pv. campestris str. B100]
 gi|167732809|emb|CAP51003.1| polyribonucleotide nucleotidyltransferase [Xanthomonas campestris
           pv. campestris]
          Length = 735

 Score = 37.0 bits (85), Expect = 7.2,   Method: Composition-based stats.
 Identities = 24/109 (22%), Positives = 44/109 (40%), Gaps = 21/109 (19%)

Query: 100 PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDL 158
            +       +A Q+AK  I Q   + E  R Y            G V ++ ++G  +  L
Sbjct: 626 TIIIASVNAIAAQAAKSRIEQITSDVEPGRIYE-----------GKVAKIMDFGAFVTIL 674

Query: 159 GNSDGVIRRDETIS------RENLRPGDRVKSYIYDVRREQRGPQVLLS 201
              DG++   +  S       + L+ GD V+  + +V ++ R   + LS
Sbjct: 675 PGKDGLVHVSQISSERVEKVGDKLKEGDLVRVKVLEVDKQGR---IRLS 720


>gi|166712594|ref|ZP_02243801.1| polynucleotide phosphorylase/polyadenylase [Xanthomonas oryzae pv.
           oryzicola BLS256]
          Length = 704

 Score = 37.0 bits (85), Expect = 7.2,   Method: Composition-based stats.
 Identities = 24/109 (22%), Positives = 44/109 (40%), Gaps = 21/109 (19%)

Query: 100 PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDL 158
            +       +A Q+AK  I Q   + E  R Y            G V ++ ++G  +  L
Sbjct: 595 TIIIASVNAIAAQAAKSRIEQITSDVEPGRIYE-----------GKVAKIMDFGAFVTIL 643

Query: 159 GNSDGVIRRDETIS------RENLRPGDRVKSYIYDVRREQRGPQVLLS 201
              DG++   +  S       + L+ GD V+  + +V ++ R   + LS
Sbjct: 644 PGKDGLVHVSQISSERVEKVGDKLKEGDLVRVKVLEVDKQGR---IRLS 689


>gi|110802114|ref|YP_699426.1| 30S ribosomal protein S1 [Clostridium perfringens SM101]
 gi|110682615|gb|ABG85985.1| ribosomal protein, S1 family [Clostridium perfringens SM101]
          Length = 378

 Score = 37.0 bits (85), Expect = 7.2,   Method: Composition-based stats.
 Identities = 20/107 (18%), Positives = 46/107 (42%), Gaps = 8/107 (7%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG 152
           +G  +   +   +     V  ++++I +++R  E+   +     K GE   G V R+   
Sbjct: 151 VGKTLEVRVIEFNKENRKVVVSRRIIDEEIRNNEKKALWS--SIKEGEKRKGKVTRLAKF 208

Query: 153 NVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
              VD+G  +G++   +          E +  GD V+ ++ +V  ++
Sbjct: 209 GAFVDIGGVEGLVHLSDMSWSRVHKPEEVVSVGDEVEVFVSEVDMDR 255


>gi|50954034|ref|YP_061322.1| O-succinylbenzoate synthase [Leifsonia xyli subsp. xyli str.
           CTCB07]
 gi|50950516|gb|AAT88217.1| O-succinylbenzoate-CoA synthase [Leifsonia xyli subsp. xyli str.
           CTCB07]
          Length = 330

 Score = 37.0 bits (85), Expect = 7.2,   Method: Composition-based stats.
 Identities = 30/94 (31%), Positives = 42/94 (44%), Gaps = 21/94 (22%)

Query: 216 VPEIYNGIVQVKAVSRDPGSR-AKLAV----FSSDSSIDPVGACVGMRGSRVQAVVTELR 270
           VP +  G V  + +SR PGSR AK+ V     +    I           +RV+AV   L 
Sbjct: 83  VPAVAAGEVP-RVLSRYPGSRTAKVKVAEPGQTLADDI-----------ARVRAVRERLG 130

Query: 271 DE---KIDI-VVWSPDSATFVINALRPAIVTKVV 300
            E   +ID   +W+ D A   I+AL P  +  V 
Sbjct: 131 PEGRLRIDANALWNVDEAEHAIHALAPFDLEYVE 164


>gi|294793636|ref|ZP_06758773.1| penicillin tolerance protein LytB [Veillonella sp. 3_1_44]
 gi|294455206|gb|EFG23578.1| penicillin tolerance protein LytB [Veillonella sp. 3_1_44]
          Length = 632

 Score = 37.0 bits (85), Expect = 7.3,   Method: Composition-based stats.
 Identities = 21/80 (26%), Positives = 38/80 (47%), Gaps = 13/80 (16%)

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDET------ISRENLRPGDRVKS 184
            EFK   G ++ GTV +VE     V  G  ++ ++ R E        +++ L+ GD +K+
Sbjct: 286 EEFK--KGNVVEGTVVQVEDERAYVSFGYKTEAILNRTEISYPAPESAKDVLKNGDEIKA 343

Query: 185 YIY-DVRREQRGPQVLLSRT 203
            I   ++ +     + LS T
Sbjct: 344 VIMNHIKEDN---PIYLSMT 360


>gi|125587883|gb|EAZ28547.1| hypothetical protein OsJ_12529 [Oryza sativa Japonica Group]
          Length = 2116

 Score = 37.0 bits (85), Expect = 7.3,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 23/58 (39%), Gaps = 3/58 (5%)

Query: 437  LCSIPGIDSKIKVALGENG---IKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSL 491
            L  +P    ++     EN    I+T+ DLA  S  ++    +     ++   GFL   
Sbjct: 1939 LLQLPHFTEELARRCQENEGKAIETIFDLAEMSTHEMQDLLQLPSSQLQDIVGFLRRF 1996


>gi|18976771|ref|NP_578128.1| s1p family ribosomal protein [Pyrococcus furiosus DSM 3638]
 gi|18892362|gb|AAL80523.1| member of s1p family of ribosomal proteins [Pyrococcus furiosus DSM
           3638]
          Length = 740

 Score = 37.0 bits (85), Expect = 7.3,   Method: Composition-based stats.
 Identities = 17/58 (29%), Positives = 30/58 (51%), Gaps = 1/58 (1%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDETISRENLRPGDRVKSYIYDVRREQR 194
           +G    G + RVE   V V L     G+I++ + + +   +PGD +   + DVR ++R
Sbjct: 132 IGSYYKGVIDRVERFGVFVKLNKHVIGLIKKKDLLGKREYKPGDEIIVQVLDVRPDKR 189


>gi|115522477|ref|YP_779388.1| 30S ribosomal protein S1 [Rhodopseudomonas palustris BisA53]
 gi|115516424|gb|ABJ04408.1| SSU ribosomal protein S1P [Rhodopseudomonas palustris BisA53]
          Length = 565

 Score = 37.0 bits (85), Expect = 7.3,   Method: Composition-based stats.
 Identities = 34/191 (17%), Positives = 68/191 (35%), Gaps = 29/191 (15%)

Query: 25  DVVLSVMADSIQKA---------------ARSLYGTMSDIR-VEINPETGDISLFRLLEV 68
           +V L  + +++ +A                   +     ++ V  N   G  ++     V
Sbjct: 78  EVFLDRIENALGEAVLSRDKARREESWGKLEKAFNNNEKVQGVIFNQVKGGFTVDLDGAV 137

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                    Q+ ++  RD  P ++        +  MD  R  +  +++ ++++ R  +R 
Sbjct: 138 A---FLPRSQVDIRPIRDVAPLMNNSQP--FQILKMDRRRGNIVVSRRTVLEETRAEQRQ 192

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRV 182
                 +   G++I G VK +      VDLG  DG++   +          E L  G  V
Sbjct: 193 ELVQNLE--EGQVIDGVVKNITDYGAFVDLGGIDGLLHVTDIAWRRVNHPTEVLTIGQTV 250

Query: 183 KSYIYDVRREQ 193
           K  I  +  E 
Sbjct: 251 KVKIIKINHET 261


>gi|322411051|gb|EFY01959.1| polynucleotide phosphorylase/polyadenylase [Streptococcus
           dysgalactiae subsp. dysgalactiae ATCC 27957]
          Length = 714

 Score = 37.0 bits (85), Expect = 7.4,   Method: Composition-based stats.
 Identities = 29/185 (15%), Positives = 65/185 (35%), Gaps = 36/185 (19%)

Query: 29  SVMADSIQKAARSLYGTMSDIRVEINP------------ETGDISLFRLLEVVEEVENYT 76
            ++ +++ +A ++ +  +  I   I              +T  I + ++  ++ +     
Sbjct: 520 QILEEALAQAKKARFEILDVIEATIAEPRPELAPTAPKIDTIKIDVDKIKVIIGKGGETI 579

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +I  +     D   +        +      + A+   K++I   VREA           
Sbjct: 580 DKIIAETGVKIDIDDEGN------VSIYSSDQAAINRTKEIIADLVREA----------- 622

Query: 137 KVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDET------ISRENLRPGDRVKSYIYDV 189
           KVGE+    V R+E     V+L   +D ++   E          + L  G+ V   +  +
Sbjct: 623 KVGEVYHAKVVRIEKFGAFVNLFDKTDALVHISEIAWTRTTNVSDVLEVGEEVDVKVIKI 682

Query: 190 RREQR 194
             + R
Sbjct: 683 DEKGR 687


>gi|319892466|ref|YP_004149341.1| SSU ribosomal protein S1p [Staphylococcus pseudintermedius
           HKU10-03]
 gi|317162162|gb|ADV05705.1| SSU ribosomal protein S1p [Staphylococcus pseudintermedius
           HKU10-03]
          Length = 394

 Score = 37.0 bits (85), Expect = 7.4,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 35/65 (53%), Gaps = 8/65 (12%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           K G+ I+G V+++E  +V+V +  G  +G+I   +        + E ++ GD + +Y+  
Sbjct: 15  KEGDKITGEVQQIEDKHVVVHINGGKYNGIIPISQLSTYHVENANEVVKVGDEIGAYVTK 74

Query: 189 VRREQ 193
           +  ++
Sbjct: 75  IEVDE 79


>gi|312622436|ref|YP_004024049.1| hydroxymethylbutenyl pyrophosphate reductase [Caldicellulosiruptor
           kronotskyensis 2002]
 gi|312202903|gb|ADQ46230.1| hydroxymethylbutenyl pyrophosphate reductase [Caldicellulosiruptor
           kronotskyensis 2002]
          Length = 663

 Score = 37.0 bits (85), Expect = 7.4,   Method: Composition-based stats.
 Identities = 14/57 (24%), Positives = 32/57 (56%), Gaps = 7/57 (12%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISR------ENLRPGDRVKSYIYD 188
           GE++ G + +VE   ++VD+G  ++G+I +DE I        +  + G+ +++ +  
Sbjct: 305 GEVVKGRIIKVEEDYLLVDIGYKAEGIIYKDEVIKNGNVNLKDLFKIGEVIEAVVIK 361


>gi|311267725|ref|XP_003131708.1| PREDICTED: DNA repair protein RAD51 homolog 3-like [Sus scrofa]
          Length = 315

 Score = 37.0 bits (85), Expect = 7.4,   Method: Composition-based stats.
 Identities = 15/33 (45%), Positives = 20/33 (60%)

Query: 376 LVAEGFADVEELACVKISEIASIEGFDEETAVE 408
           LV+ GF   EEL  VK SE++   G  +E A+E
Sbjct: 18  LVSAGFQTAEELLEVKPSELSKEVGISKEEALE 50


>gi|300709896|ref|YP_003735710.1| hypothetical protein HacjB3_02625 [Halalkalicoccus jeotgali B3]
 gi|299123579|gb|ADJ13918.1| hypothetical protein HacjB3_02625 [Halalkalicoccus jeotgali B3]
          Length = 171

 Score = 37.0 bits (85), Expect = 7.4,   Method: Composition-based stats.
 Identities = 11/68 (16%), Positives = 25/68 (36%)

Query: 344 EEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDE 403
           +E      Q+  +++   F +   +    A  L  +GF  V  +       + +I G   
Sbjct: 98  DEPKRTGDQEQTDDQEIEFEEIPGIGPRTASNLRRQGFVTVTSINTASDDVLRAIPGIGP 157

Query: 404 ETAVEIQG 411
           +   +I+ 
Sbjct: 158 DALAKIRA 165


>gi|255075467|ref|XP_002501408.1| Rad51 DNA recombinase 1 [Micromonas sp. RCC299]
 gi|226516672|gb|ACO62666.1| Rad51 DNA recombinase 1 [Micromonas sp. RCC299]
          Length = 344

 Score = 37.0 bits (85), Expect = 7.4,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 21/55 (38%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYL 417
           ++   V       L+  G   VE LA      +  I+G  E    +++  A + +
Sbjct: 32  LEEHGVAASDIKKLLEAGIHTVEGLAYASKKHLKDIKGLSEMKVEKLKMAATKVV 86


>gi|169344163|ref|ZP_02865145.1| ribosomal protein S1 family [Clostridium perfringens C str.
           JGS1495]
 gi|169297621|gb|EDS79721.1| ribosomal protein S1 family [Clostridium perfringens C str.
           JGS1495]
          Length = 378

 Score = 37.0 bits (85), Expect = 7.4,   Method: Composition-based stats.
 Identities = 21/107 (19%), Positives = 46/107 (42%), Gaps = 8/107 (7%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG 152
           +G  +   +   +     V  +++VI +++R  E+   +   K   GE   G V R+   
Sbjct: 151 VGKTLEVRVIEFNKDNRKVVVSRRVIDEEIRNNEKKALWSSIKS--GEKRKGKVTRLAKF 208

Query: 153 NVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
              VD+G  +G++   +          E +  GD V+ ++ +V  ++
Sbjct: 209 GAFVDIGGVEGLVHLSDMSWSRVHKPEEVVSVGDEVEVFVSEVDMDR 255


>gi|282848928|ref|ZP_06258318.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Veillonella
           parvula ATCC 17745]
 gi|282581433|gb|EFB86826.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Veillonella
           parvula ATCC 17745]
          Length = 632

 Score = 37.0 bits (85), Expect = 7.4,   Method: Composition-based stats.
 Identities = 21/80 (26%), Positives = 38/80 (47%), Gaps = 13/80 (16%)

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDET------ISRENLRPGDRVKS 184
            EFK   G ++ GTV +VE     V  G  ++ ++ R E        +++ L+ GD +K+
Sbjct: 286 EEFK--KGNVVEGTVVQVEDERAYVSFGYKTEAILNRTEISYPAPESAKDVLKNGDEIKA 343

Query: 185 YIY-DVRREQRGPQVLLSRT 203
            I   ++ +     + LS T
Sbjct: 344 VIMNHIKEDN---PIYLSMT 360


>gi|302891949|ref|XP_003044856.1| hypothetical protein NECHADRAFT_43434 [Nectria haematococca mpVI
           77-13-4]
 gi|256725781|gb|EEU39143.1| hypothetical protein NECHADRAFT_43434 [Nectria haematococca mpVI
           77-13-4]
          Length = 1773

 Score = 37.0 bits (85), Expect = 7.4,   Method: Composition-based stats.
 Identities = 14/71 (19%), Positives = 29/71 (40%), Gaps = 9/71 (12%)

Query: 142 ISGTVKRVEYGNVIVDL-GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           + GT+ +++     +   G   G +   E          E+ R G  V  ++ DV  E +
Sbjct: 630 VPGTIVKIQSSGAQIQFFGPVRGFLPISEMSEAYIKDPHEHFRVGQVVSVHVLDVEPESQ 689

Query: 195 GPQVLLSRTHP 205
             ++++S   P
Sbjct: 690 --KLIVSCKDP 698


>gi|289578945|ref|YP_003477572.1| excinuclease ABC, C subunit [Thermoanaerobacter italicus Ab9]
 gi|289528658|gb|ADD03010.1| excinuclease ABC, C subunit [Thermoanaerobacter italicus Ab9]
          Length = 615

 Score = 37.0 bits (85), Expect = 7.4,   Method: Composition-based stats.
 Identities = 12/65 (18%), Positives = 26/65 (40%), Gaps = 1/65 (1%)

Query: 351 RQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
           ++K         +    + E  A  L    F  +EE+    + ++  +EG +E+ A  + 
Sbjct: 552 KEKQSKRFKSELLNIPGIGEKRAKALYDA-FNSIEEIKRASVEDLKKVEGMNEKAAQAVY 610

Query: 411 GRARE 415
              R+
Sbjct: 611 EYFRK 615


>gi|168031842|ref|XP_001768429.1| predicted protein [Physcomitrella patens subsp. patens]
 gi|162680354|gb|EDQ66791.1| predicted protein [Physcomitrella patens subsp. patens]
          Length = 1785

 Score = 37.0 bits (85), Expect = 7.4,   Method: Composition-based stats.
 Identities = 18/71 (25%), Positives = 33/71 (46%), Gaps = 10/71 (14%)

Query: 131  YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGV--IRRDETISR------ENLRPGDRV 182
            + +FK   GE++ GT+KR+E   + V +  S  V      E          ++ + GDRV
Sbjct: 1316 FGDFK--EGEVVFGTIKRIEKFGIFVTIEQSSVVTMCHMSEVADHYFKDIDKHYKVGDRV 1373

Query: 183  KSYIYDVRREQ 193
            ++ +  V   +
Sbjct: 1374 RARVLKVDNTK 1384


>gi|21243412|ref|NP_642994.1| polynucleotide phosphorylase/polyadenylase [Xanthomonas axonopodis
           pv. citri str. 306]
 gi|81801072|sp|Q8PJ59|PNP_XANAC RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|21108963|gb|AAM37530.1| polynucleotide phosphorylase [Xanthomonas axonopodis pv. citri str.
           306]
          Length = 704

 Score = 37.0 bits (85), Expect = 7.4,   Method: Composition-based stats.
 Identities = 24/109 (22%), Positives = 44/109 (40%), Gaps = 21/109 (19%)

Query: 100 PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDL 158
            +       +A Q+AK  I Q   + E  R Y            G V ++ ++G  +  L
Sbjct: 595 TIIIASVNAIAAQAAKSRIEQITSDVEPGRIYE-----------GKVAKIMDFGAFVTIL 643

Query: 159 GNSDGVIRRDETIS------RENLRPGDRVKSYIYDVRREQRGPQVLLS 201
              DG++   +  S       + L+ GD V+  + +V ++ R   + LS
Sbjct: 644 PGKDGLVHVSQISSERVEKVGDKLKEGDLVRVKVLEVDKQGR---IRLS 689


>gi|294791775|ref|ZP_06756923.1| penicillin tolerance protein LytB [Veillonella sp. 6_1_27]
 gi|294457005|gb|EFG25367.1| penicillin tolerance protein LytB [Veillonella sp. 6_1_27]
          Length = 632

 Score = 37.0 bits (85), Expect = 7.5,   Method: Composition-based stats.
 Identities = 21/80 (26%), Positives = 38/80 (47%), Gaps = 13/80 (16%)

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDET------ISRENLRPGDRVKS 184
            EFK   G ++ GTV +VE     V  G  ++ ++ R E        +++ L+ GD +K+
Sbjct: 286 EEFK--KGNVVEGTVVQVEDERAYVSFGYKTEAILNRTEISYPAPESAKDVLKNGDEIKA 343

Query: 185 YIY-DVRREQRGPQVLLSRT 203
            I   ++ +     + LS T
Sbjct: 344 VIMNHIKEDN---PIYLSMT 360


>gi|257867115|ref|ZP_05646768.1| polyribonucleotide nucleotidyltransferase [Enterococcus
           casseliflavus EC30]
 gi|257877194|ref|ZP_05656847.1| polyribonucleotide nucleotidyltransferase [Enterococcus
           casseliflavus EC20]
 gi|257801171|gb|EEV30101.1| polyribonucleotide nucleotidyltransferase [Enterococcus
           casseliflavus EC30]
 gi|257811360|gb|EEV40180.1| polyribonucleotide nucleotidyltransferase [Enterococcus
           casseliflavus EC20]
          Length = 720

 Score = 37.0 bits (85), Expect = 7.5,   Method: Composition-based stats.
 Identities = 29/138 (21%), Positives = 53/138 (38%), Gaps = 20/138 (14%)

Query: 79  ISLKVARDRDPSIDIGGVV-------SDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
           I +  A+ +D     G  +          +     G+V++ SA   +IQK  +   +   
Sbjct: 577 IQIDPAKIKDVIGKGGDTINGIIDETGVKIDIDQDGKVSIASADAEMIQKAIKIIEELTK 636

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP-------GDRVKS 184
                KVGE+  G V R+E     V+L      +     ++ E +         GD +  
Sbjct: 637 E---VKVGEVYLGKVVRIEKFGAFVNLIKGKDGLVHISQLANERVNKVEDVVKEGDEILV 693

Query: 185 YIYDVRREQRGPQVLLSR 202
            + ++ ++ R   V LSR
Sbjct: 694 KVTEIDKQGR---VNLSR 708


>gi|7190413|gb|AAF39231.1| ribosomal protein S1 [Chlamydia muridarum Nigg]
          Length = 536

 Score = 37.0 bits (85), Expect = 7.5,   Method: Composition-based stats.
 Identities = 26/66 (39%), Positives = 36/66 (54%), Gaps = 4/66 (6%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI-SRENLRPGDRVKSYIYDVRREQRGP 196
           G I+ GTV  +    V+VD+G  S+GVI   E I S E L  G  V+ Y+     E+   
Sbjct: 18  GAILKGTVVDISKDFVVVDVGLKSEGVIPMSEFIDSSEGLSVGAEVEVYLDQTEDEEG-- 75

Query: 197 QVLLSR 202
           +V+LSR
Sbjct: 76  KVVLSR 81


>gi|295667623|ref|XP_002794361.1| rRNA biogenesis protein RRP5 [Paracoccidioides brasiliensis Pb01]
 gi|226286467|gb|EEH42033.1| rRNA biogenesis protein RRP5 [Paracoccidioides brasiliensis Pb01]
          Length = 1815

 Score = 37.0 bits (85), Expect = 7.5,   Method: Composition-based stats.
 Identities = 27/103 (26%), Positives = 41/103 (39%), Gaps = 15/103 (14%)

Query: 127  RDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL-----GNSDGVIRRDET---ISRENLRP 178
              R   +F    GEI+ G V +V    V+V L     G  + +   D+    I   N   
Sbjct: 1132 NKRTISDFS--KGEILLGRVTKVSERQVLVQLSDTTVGAINLIDMADDYTKVIPA-NFHK 1188

Query: 179  GDRVKSYIYDVRREQRGPQVLLS-RTHPQFMVKLFHMEVPEIY 220
             + ++  I DV    +  ++LLS R        L  +E PEI 
Sbjct: 1189 NEVLRVCILDVDVPNK--KILLSVRPSRVLSSSL-PIEDPEIK 1228


>gi|254303539|ref|ZP_04970897.1| bifunctional penicillin tolerance protein LytB/ribosomal protein S1
           RpsA [Fusobacterium nucleatum subsp. polymorphum ATCC
           10953]
 gi|148323731|gb|EDK88981.1| bifunctional penicillin tolerance protein LytB/ribosomal protein S1
           RpsA [Fusobacterium nucleatum subsp. polymorphum ATCC
           10953]
          Length = 827

 Score = 37.0 bits (85), Expect = 7.5,   Method: Composition-based stats.
 Identities = 24/120 (20%), Positives = 51/120 (42%), Gaps = 13/120 (10%)

Query: 86  DRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGT 145
           +  P  +IG  V   +  +D     ++ + +     +R++  +    E+K  VG  +   
Sbjct: 686 EETPKFEIGNEVELKITELDLNDKKIKGSLKA----LRKSPWEHAMEEYK--VGTTVEKK 739

Query: 146 VKRVEYGNVIVDLGN-SDGVIR----RDETIS--RENLRPGDRVKSYIYDVRREQRGPQV 198
           +K V    + ++L    DG I       E I   R+    GD VK+ + +V ++ +  ++
Sbjct: 740 IKTVADFGLFIELTKGIDGFIPTQFASKEFIKNIRDKFNEGDVVKAQVVEVNKDTQKIKL 799


>gi|114683634|ref|XP_001154607.1| PREDICTED: SAM domain, SH3 domain and nuclear localization signals,
           1 isoform 1 [Pan troglodytes]
          Length = 347

 Score = 37.0 bits (85), Expect = 7.5,   Method: Composition-based stats.
 Identities = 20/89 (22%), Positives = 44/89 (49%), Gaps = 8/89 (8%)

Query: 339 IDIITEEEDSINRQK-------DFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVK 391
           +D+I+EEE +  + K       + ++  Q F++ I++ E  + LL+  G+  +E+L  +K
Sbjct: 219 VDVISEEEAAPKKIKANRRSNSEKSKTLQEFLERIHLQEYTSTLLL-NGYETLEDLKDIK 277

Query: 392 ISEIASIEGFDEETAVEIQGRAREYLEGI 420
            S +  +   + +    +   A  +LE  
Sbjct: 278 ESHLIELNIENPDDRRRLLSAAENFLEEE 306


>gi|257873450|ref|ZP_05653103.1| polyribonucleotide nucleotidyltransferase [Enterococcus
           casseliflavus EC10]
 gi|257807614|gb|EEV36436.1| polyribonucleotide nucleotidyltransferase [Enterococcus
           casseliflavus EC10]
          Length = 705

 Score = 37.0 bits (85), Expect = 7.6,   Method: Composition-based stats.
 Identities = 29/138 (21%), Positives = 53/138 (38%), Gaps = 20/138 (14%)

Query: 79  ISLKVARDRDPSIDIGGVV-------SDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
           I +  A+ +D     G  +          +     G+V++ SA   +IQK  +   +   
Sbjct: 562 IQIDPAKIKDVIGKGGDTINGIIDETGVKIDIDQDGKVSIASADAEMIQKAIKIIEELTK 621

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP-------GDRVKS 184
                KVGE+  G V R+E     V+L      +     ++ E +         GD +  
Sbjct: 622 E---VKVGEVYLGKVVRIEKFGAFVNLIKGKDGLVHISQLANERVNKVEDVVKEGDEILV 678

Query: 185 YIYDVRREQRGPQVLLSR 202
            + ++ ++ R   V LSR
Sbjct: 679 KVTEIDKQGR---VNLSR 693


>gi|78048389|ref|YP_364564.1| polynucleotide phosphorylase/polyadenylase [Xanthomonas campestris
           pv. vesicatoria str. 85-10]
 gi|325924695|ref|ZP_08186133.1| polyribonucleotide nucleotidyltransferase (polynucleotide
           phosphorylase) [Xanthomonas perforans 91-118]
 gi|123730263|sp|Q3BRP9|PNP_XANC5 RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|78036819|emb|CAJ24512.1| polynucleotide phosphorylase [Xanthomonas campestris pv.
           vesicatoria str. 85-10]
 gi|325544901|gb|EGD16246.1| polyribonucleotide nucleotidyltransferase (polynucleotide
           phosphorylase) [Xanthomonas perforans 91-118]
          Length = 704

 Score = 37.0 bits (85), Expect = 7.6,   Method: Composition-based stats.
 Identities = 24/109 (22%), Positives = 44/109 (40%), Gaps = 21/109 (19%)

Query: 100 PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDL 158
            +       +A Q+AK  I Q   + E  R Y            G V ++ ++G  +  L
Sbjct: 595 TIIIASVNAIAAQAAKSRIEQITSDVEPGRIYE-----------GKVAKIMDFGAFVTIL 643

Query: 159 GNSDGVIRRDETIS------RENLRPGDRVKSYIYDVRREQRGPQVLLS 201
              DG++   +  S       + L+ GD V+  + +V ++ R   + LS
Sbjct: 644 PGKDGLVHVSQISSERVEKVGDKLKEGDLVRVKVLEVDKQGR---IRLS 689


>gi|326800528|ref|YP_004318347.1| RNA binding S1 domain protein [Sphingobacterium sp. 21]
 gi|326551292|gb|ADZ79677.1| RNA binding S1 domain protein [Sphingobacterium sp. 21]
          Length = 646

 Score = 37.0 bits (85), Expect = 7.7,   Method: Composition-based stats.
 Identities = 28/130 (21%), Positives = 57/130 (43%), Gaps = 10/130 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +K  RD D  I +G  +   +  ++     V  + +V+I+   E ++   
Sbjct: 194 EAFLPGSQIDIKPIRDYD--IYVGKTMEFKVVKINHEFKNVVVSHKVLIEDDLENQKSEI 251

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
             + +   G+++ GTVK +    V +DLG  DG++   +         +E L   +++  
Sbjct: 252 VAKLE--KGQVLEGTVKNITDFGVFIDLGGVDGLLHITDISWGRIEHPKEVLSLDEKINV 309

Query: 185 YIYDVRREQR 194
            + D   E++
Sbjct: 310 VVLDFDDEKK 319



 Score = 37.0 bits (85), Expect = 8.3,   Method: Composition-based stats.
 Identities = 24/83 (28%), Positives = 45/83 (54%), Gaps = 8/83 (9%)

Query: 126 ERDRQYLEFKD-----KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPG 179
           ER +   ++         GEI+ GTV  +   +V++++G  SDG++   E     +L+ G
Sbjct: 72  ERAKLEEQYAGTFNSVNKGEIVEGTVVSINNKDVVLNIGFKSDGLVSLSEFRDLPDLKVG 131

Query: 180 DRVKSYIYDVRREQRGPQVLLSR 202
           D+V  ++   R ++ G Q++LSR
Sbjct: 132 DKVDVFVES-REDENG-QLVLSR 152


>gi|307730620|ref|YP_003907844.1| 30S ribosomal protein S1 [Burkholderia sp. CCGE1003]
 gi|307585155|gb|ADN58553.1| ribosomal protein S1 [Burkholderia sp. CCGE1003]
          Length = 577

 Score = 37.0 bits (85), Expect = 7.7,   Method: Composition-based stats.
 Identities = 23/71 (32%), Positives = 35/71 (49%), Gaps = 9/71 (12%)

Query: 138 VGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETIS------RENLRPGDRVKSYIYDVR 190
            G I+ G VK V+    +V L G  +G +R  E         R  L+ GD+V + I ++ 
Sbjct: 465 KGSIVDGVVKSVDAKGAVVQLSGEVEGYLRASEIAQDRVEDARNVLKEGDKVNAMIINID 524

Query: 191 REQRGPQVLLS 201
           R+ RG  + LS
Sbjct: 525 RKSRG--INLS 533


>gi|126179950|ref|YP_001047915.1| ATPase [Methanoculleus marisnigri JR1]
 gi|125862744|gb|ABN57933.1| ATPase, PilT family [Methanoculleus marisnigri JR1]
          Length = 631

 Score = 37.0 bits (85), Expect = 7.7,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 27/65 (41%), Gaps = 4/65 (6%)

Query: 292 RPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINR 351
            P  V +++ D    +  V +  + +  AIG+ G+NV       G  IDI  + E    +
Sbjct: 496 GPVEV-RIISD---NKAVVYIEDKDVPAAIGKGGKNVSAIVNKLGIGIDIRPKSELEAQK 551

Query: 352 QKDFN 356
             +  
Sbjct: 552 PVEEE 556


>gi|303234054|ref|ZP_07320703.1| DNA ligase (NAD+) [Finegoldia magna BVS033A4]
 gi|302494979|gb|EFL54736.1| DNA ligase (NAD+) [Finegoldia magna BVS033A4]
          Length = 662

 Score = 37.0 bits (85), Expect = 7.7,   Method: Composition-based stats.
 Identities = 24/133 (18%), Positives = 49/133 (36%), Gaps = 12/133 (9%)

Query: 363 MQAINVDEIIAHLLVAE-GFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           M    + E    +L+ +     +EE+  VK  ++  ++GF E+ +  +     +     +
Sbjct: 444 MNIDGLSEKTLEVLLEKLNIKSIEEIYDVKKEQLMQLDGFKEKKSQNLINAIEK---SKN 500

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           + L   I  LG       IP I  K    L +   K+ ++L     ++L+   +      
Sbjct: 501 VDLANFIFALG-------IPEIGEKTSFELAQK-YKSFDNLREAKFEELIQIEDIGNVIA 552

Query: 482 EKFDGFLSSLGTP 494
           E+   F       
Sbjct: 553 EEIVEFFHDETIS 565


>gi|222055457|ref|YP_002537819.1| ribosomal protein S1 [Geobacter sp. FRC-32]
 gi|221564746|gb|ACM20718.1| ribosomal protein S1 [Geobacter sp. FRC-32]
          Length = 586

 Score = 37.0 bits (85), Expect = 7.7,   Method: Composition-based stats.
 Identities = 19/75 (25%), Positives = 33/75 (44%), Gaps = 6/75 (8%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
            G+++ G VK +      VDLG  DG++   +          E ++ GD +K  +    R
Sbjct: 218 EGDVLEGVVKNIADYGAFVDLGGVDGLLHVTDMSWGRLNHPSEAVKVGDALKVKVLKYDR 277

Query: 192 EQRGPQVLLSRTHPQ 206
           E+    + L +T P 
Sbjct: 278 EKGKISLGLKQTMPD 292


>gi|168212813|ref|ZP_02638438.1| ribosomal protein S1 family [Clostridium perfringens CPE str.
           F4969]
 gi|170715502|gb|EDT27684.1| ribosomal protein S1 family [Clostridium perfringens CPE str.
           F4969]
          Length = 378

 Score = 37.0 bits (85), Expect = 7.7,   Method: Composition-based stats.
 Identities = 21/107 (19%), Positives = 46/107 (42%), Gaps = 8/107 (7%)

Query: 93  IGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYG 152
           +G  +   +   +     V  +++VI +++R  E+   +     K GE   G V R+   
Sbjct: 151 VGKTLEVRVIEFNKENRKVVVSRRVIDEEIRNNEKKALWS--SIKEGEKRKGKVTRLAKF 208

Query: 153 NVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
              VD+G  +G++   +          E +  GD V+ ++ +V  ++
Sbjct: 209 GAFVDIGGVEGLVHLSDMSWSRVHKPEEVVSVGDEVEVFVSEVDIDR 255


>gi|46202410|ref|ZP_00208508.1| hypothetical protein Magn03007800 [Magnetospirillum magnetotacticum
           MS-1]
          Length = 282

 Score = 37.0 bits (85), Expect = 7.7,   Method: Composition-based stats.
 Identities = 18/89 (20%), Positives = 40/89 (44%), Gaps = 19/89 (21%)

Query: 148 RVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTHPQF 207
           + E  +VI++ G + G++       R  LR  + +++ + +V        V++SR  P  
Sbjct: 23  QAERDDVILEPGTAFGLV-------RNLLRINEGLEAPLVEV--------VVVSRNSPDV 67

Query: 208 MVKLFHMEVPEIYNGIVQVKAVSRDPGSR 236
            +++F      I +  + +K  +   G R
Sbjct: 68  AIRVFRS----IEHHRLAIKRAAFTSGHR 92


>gi|325278944|ref|YP_004251486.1| DNA ligase [Odoribacter splanchnicus DSM 20712]
 gi|324310753|gb|ADY31306.1| DNA ligase [Odoribacter splanchnicus DSM 20712]
          Length = 829

 Score = 37.0 bits (85), Expect = 7.8,   Method: Composition-based stats.
 Identities = 26/143 (18%), Positives = 50/143 (34%), Gaps = 18/143 (12%)

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQK 426
           N+    A  L    F  +E  A     E++++ G DE T      R  +Y         +
Sbjct: 511 NISSRNAETLAGH-FGSLEAYAAASKQELSAVIG-DETTV----NRILDYFRTPFNQTVE 564

Query: 427 KIRELGVSEEL--------CSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKG 478
           +++E G  E +         +IPGI+      L        + +   SV         +G
Sbjct: 565 RLKEAGAVENIPLDYVVYALNIPGINWHKADLLAAR----FDYIYELSVASAAEIRAVEG 620

Query: 479 GNIEKFDGFLSSLGTPKDQVESM 501
            + ++ D  +    + +  V  +
Sbjct: 621 IDADEADSIVRFFRSNEKLVRKL 643


>gi|295102762|emb|CBL00307.1| Ribosomal protein S1 [Faecalibacterium prausnitzii L2-6]
          Length = 360

 Score = 37.0 bits (85), Expect = 7.8,   Method: Composition-based stats.
 Identities = 22/83 (26%), Positives = 35/83 (42%), Gaps = 8/83 (9%)

Query: 119 IQKVREAERDRQYLEF--KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI----- 171
           I KV   +   +  EF    +VG+  +G VK +      VD+G  DG+    E       
Sbjct: 176 INKVTAEQNKAKREEFWASVEVGKTYTGVVKSLTSYGAFVDIGGVDGLCHISELSWNRIK 235

Query: 172 -SRENLRPGDRVKSYIYDVRREQ 193
              E +  GD ++ Y+ D+  E 
Sbjct: 236 HPSEVVSVGDTIEVYVKDIDTEN 258


>gi|269797892|ref|YP_003311792.1| hydroxymethylbutenyl pyrophosphate reductase [Veillonella parvula
           DSM 2008]
 gi|269094521|gb|ACZ24512.1| hydroxymethylbutenyl pyrophosphate reductase [Veillonella parvula
           DSM 2008]
          Length = 632

 Score = 37.0 bits (85), Expect = 7.8,   Method: Composition-based stats.
 Identities = 21/80 (26%), Positives = 38/80 (47%), Gaps = 13/80 (16%)

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDET------ISRENLRPGDRVKS 184
            EFK   G ++ GTV +VE     V  G  ++ ++ R E        +++ L+ GD +K+
Sbjct: 286 EEFK--KGNVVEGTVVQVEDERAYVSFGYKTEAILNRTEISYPAPESAKDVLKNGDEIKA 343

Query: 185 YIY-DVRREQRGPQVLLSRT 203
            I   ++ +     + LS T
Sbjct: 344 VIMNHIKEDN---PIYLSMT 360


>gi|187780230|ref|ZP_02996703.1| hypothetical protein CLOSPO_03826 [Clostridium sporogenes ATCC
           15579]
 gi|187773855|gb|EDU37657.1| hypothetical protein CLOSPO_03826 [Clostridium sporogenes ATCC
           15579]
          Length = 387

 Score = 37.0 bits (85), Expect = 7.8,   Method: Composition-based stats.
 Identities = 25/99 (25%), Positives = 47/99 (47%), Gaps = 11/99 (11%)

Query: 112 QSAKQVIIQKVREAERDRQYLE--FKDKV-GEIISGTVKRVEYGNVIVDLGNSDGVIRRD 168
           Q  K V+  ++ + E D +  E  +     G+ I G V+R+E     VD+G  DG++   
Sbjct: 168 QKGKVVLSSRIVKEEEDAKRKEELWNSLEKGQKIDGVVRRLEKFGAFVDIGGMDGLVHNS 227

Query: 169 ETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
           +          E +  GD+V+ Y+ D  ++ +  ++ LS
Sbjct: 228 QLSWGRVNHPSEVVSIGDKVEVYVLDFDKDTK--KIALS 264


>gi|115377075|ref|ZP_01464291.1| RNA binding S1 [Stigmatella aurantiaca DW4/3-1]
 gi|115365914|gb|EAU64933.1| RNA binding S1 [Stigmatella aurantiaca DW4/3-1]
          Length = 641

 Score = 37.0 bits (85), Expect = 7.8,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 26/62 (41%), Gaps = 6/62 (9%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
            G++I G +  V      VD+G  +G+I   E          E ++ GD V+  I  +  
Sbjct: 338 EGKVIKGKITGVRDFGAFVDVGGVEGMIPVSEMSYQRVGHPSEVVKVGDEVEVEILRMEA 397

Query: 192 EQ 193
            Q
Sbjct: 398 GQ 399


>gi|72383697|ref|YP_293052.1| SSU ribosomal protein S1P [Prochlorococcus marinus str. NATL2A]
 gi|72003547|gb|AAZ59349.1| SSU ribosomal protein S1P [Prochlorococcus marinus str. NATL2A]
          Length = 431

 Score = 37.0 bits (85), Expect = 7.8,   Method: Composition-based stats.
 Identities = 18/90 (20%), Positives = 36/90 (40%), Gaps = 4/90 (4%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR--PGDRVKSYIYDVRREQR 194
           K G++I   +     G V  D     G I R +    EN +      + +   +V  E+R
Sbjct: 234 KEGKVIRVKINGFNRGGVTCDFEGLRGFIPRSQLEDGENHQSLVSKTISTAFLEVNPERR 293

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
             +++LS        +   +E+ ++  G +
Sbjct: 294 --KLVLSEKKAAIASRFSELEIGQLIEGEI 321


>gi|326389756|ref|ZP_08211321.1| excinuclease ABC, C subunit [Thermoanaerobacter ethanolicus JW 200]
 gi|325994238|gb|EGD52665.1| excinuclease ABC, C subunit [Thermoanaerobacter ethanolicus JW 200]
          Length = 615

 Score = 37.0 bits (85), Expect = 7.9,   Method: Composition-based stats.
 Identities = 12/65 (18%), Positives = 26/65 (40%), Gaps = 1/65 (1%)

Query: 351 RQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
           ++K         +    + E  A  L    F  +EE+    + ++  +EG +E+ A  + 
Sbjct: 552 KEKQSKRFKSELLNIPGIGEKRAKALYDA-FKSIEEIKRASVEDLKKVEGMNEKAAQAVY 610

Query: 411 GRARE 415
              R+
Sbjct: 611 EYFRK 615


>gi|320093717|ref|ZP_08025582.1| 30S ribosomal protein S1 [Actinomyces sp. oral taxon 178 str.
           F0338]
 gi|319979338|gb|EFW10828.1| 30S ribosomal protein S1 [Actinomyces sp. oral taxon 178 str.
           F0338]
          Length = 479

 Score = 37.0 bits (85), Expect = 7.9,   Method: Composition-based stats.
 Identities = 24/94 (25%), Positives = 51/94 (54%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V++  V++D+G  ++GVI   E          + +  GD+V++ +   ++
Sbjct: 33  GDIVEGTVVKVDHDEVLLDIGYKTEGVILSRELSIKHDVNPDDVVAVGDQVEALVL--QK 90

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  ++LLS+   Q+      +E  +  +G+V 
Sbjct: 91  EDKEGRLLLSKKRAQYERAWGQIEKVKEEDGVVT 124


>gi|227538325|ref|ZP_03968374.1| 30S ribosomal protein S1 [Sphingobacterium spiritivorum ATCC 33300]
 gi|300774228|ref|ZP_07084095.1| 30S ribosomal protein S1 [Sphingobacterium spiritivorum ATCC 33861]
 gi|227241840|gb|EEI91855.1| 30S ribosomal protein S1 [Sphingobacterium spiritivorum ATCC 33300]
 gi|300758907|gb|EFK55736.1| 30S ribosomal protein S1 [Sphingobacterium spiritivorum ATCC 33861]
          Length = 644

 Score = 37.0 bits (85), Expect = 7.9,   Method: Composition-based stats.
 Identities = 28/130 (21%), Positives = 55/130 (42%), Gaps = 10/130 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +K  RD D  I +G  +   +  ++     V  + +V+I+   E ++   
Sbjct: 194 EAFLPGSQIDIKPIRDYD--IYVGKTMEFKVVKINHEFKNVVVSHKVLIEDDLENQKSEI 251

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
             + +   G+++ GTVK +    V +DLG  DG++   +         +E L     +  
Sbjct: 252 VAKLE--KGQVLEGTVKNITDFGVFIDLGGVDGLLHITDISWGRIEHPKEVLALDQTINV 309

Query: 185 YIYDVRREQR 194
            + D   E++
Sbjct: 310 VVLDFDDEKK 319



 Score = 37.0 bits (85), Expect = 8.8,   Method: Composition-based stats.
 Identities = 26/85 (30%), Positives = 45/85 (52%), Gaps = 8/85 (9%)

Query: 124 EAERDRQYLEFKD-----KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLR 177
           EAER +   ++         GEII G V  V   +V++++G  SDG++   E     +L+
Sbjct: 70  EAERSKLEEQYAGTFNQINQGEIIEGVVVSVNNKDVVLNVGFKSDGLVSLSEFRDLPDLK 129

Query: 178 PGDRVKSYIYDVRREQRGPQVLLSR 202
            GD+V  ++   + +  G Q++LSR
Sbjct: 130 VGDKVDVFVES-QEDANG-QLVLSR 152


>gi|154508851|ref|ZP_02044493.1| hypothetical protein ACTODO_01361 [Actinomyces odontolyticus ATCC
           17982]
 gi|293192694|ref|ZP_06609648.1| ribosomal protein S1 [Actinomyces odontolyticus F0309]
 gi|153798485|gb|EDN80905.1| hypothetical protein ACTODO_01361 [Actinomyces odontolyticus ATCC
           17982]
 gi|292820201|gb|EFF79198.1| ribosomal protein S1 [Actinomyces odontolyticus F0309]
          Length = 478

 Score = 37.0 bits (85), Expect = 7.9,   Method: Composition-based stats.
 Identities = 23/94 (24%), Positives = 51/94 (54%), Gaps = 9/94 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I+ GTV +V++  V++D+G  ++GVI   E          + +  GD++++ +   ++
Sbjct: 33  GDIVEGTVVKVDHDEVLLDIGYKTEGVILSRELSIKHDVNPDDVVAVGDQIEALVL--QK 90

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQ 225
           E +  ++LLS+   Q+      +E  +  +G+V 
Sbjct: 91  EDKEGRLLLSKKRAQYERAWGQIEKVKEEDGVVT 124


>gi|148358952|ref|YP_001250159.1| 30S ribosomal protein S1 [Legionella pneumophila str. Corby]
 gi|296107001|ref|YP_003618701.1| small subunit ribosomal protein S1 [Legionella pneumophila 2300/99
           Alcoy]
 gi|148280725|gb|ABQ54813.1| 30S ribosomal protein S1 [Legionella pneumophila str. Corby]
 gi|295648902|gb|ADG24749.1| small subunit ribosomal protein S1 [Legionella pneumophila 2300/99
           Alcoy]
          Length = 558

 Score = 37.0 bits (85), Expect = 7.9,   Method: Composition-based stats.
 Identities = 26/114 (22%), Positives = 46/114 (40%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RDPS   G  +   +  MD  R  +  +++ ++++   A+R        D  G+ + G V
Sbjct: 142 RDPSYLEGKELEFKVIKMDLKRNNIVVSRRAVVEEESSADRQALLESLHD--GQELHGIV 199

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           K +      +DLG  DG++   +          E L  G  VK  +     E+ 
Sbjct: 200 KNLTDYGAFIDLGGIDGLLHITDISWKRVKHPSEVLSVGQDVKVKVLSFDSERN 253


>gi|146184871|ref|XP_001030352.2| Zinc knuckle family protein [Tetrahymena thermophila]
 gi|146142641|gb|EAR82689.2| Zinc knuckle family protein [Tetrahymena thermophila SB210]
          Length = 1504

 Score = 37.0 bits (85), Expect = 7.9,   Method: Composition-based stats.
 Identities = 23/129 (17%), Positives = 52/129 (40%), Gaps = 23/129 (17%)

Query: 71   EVENYTCQISLKVARDRDPSIDIGGVVSDP-LPPMDFGRVAVQSAK-QVIIQKVREAERD 128
            ++E+Y  Q  L+  +++     +   V D  + P  + R   ++   Q +  K+ + E  
Sbjct: 989  DLEDYAQQ--LEEMKNQPNMAPVLDFVKDELINPFSYKRNTYEAISDQDLFFKMIK-ESP 1045

Query: 129  RQYLEFKDKVGEIISGTVKRVEYGN-----------VIVDLGNSDGVIRRDETISRENLR 177
            + +     + G I+S  + ++                IVD      ++  +E     N +
Sbjct: 1046 QTF-----RKGMIVSAKIIQIRPKENQQIKQHQLLVKIVDNDLKSSILVSEEESK--NYK 1098

Query: 178  PGDRVKSYI 186
             GD +K+Y+
Sbjct: 1099 VGDIIKAYV 1107


>gi|332711689|ref|ZP_08431620.1| SSU ribosomal protein S1P [Lyngbya majuscula 3L]
 gi|332349667|gb|EGJ29276.1| SSU ribosomal protein S1P [Lyngbya majuscula 3L]
          Length = 285

 Score = 37.0 bits (85), Expect = 7.9,   Method: Composition-based stats.
 Identities = 29/136 (21%), Positives = 55/136 (40%), Gaps = 26/136 (19%)

Query: 133 EFKDKVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETIS------RENLRPGDRVKSY 185
           +++ K G+++ G V   E     VD+ G S   +   E          E L   + +   
Sbjct: 12  DYEFKQGQVVRGRVHNYESDGAYVDIGGKSLAYLPISEVSLESDLDWSEVLPLNEEMDFL 71

Query: 186 IYDVRREQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSD 245
           I  +R +    QV LSR           +E+ ++++G+V+++    + G    + V   +
Sbjct: 72  I--IREQNADGQVTLSRR---------QLEIKQVWDGLVELQ----ENGKSLDVRVSGVN 116

Query: 246 SSIDPVGACVGMRGSR 261
                 G  V +RG R
Sbjct: 117 KG----GVTVDVRGLR 128


>gi|310821331|ref|YP_003953689.1| ribosomal protein S1 family protein [Stigmatella aurantiaca
           DW4/3-1]
 gi|309394403|gb|ADO71862.1| Ribosomal protein S1 family protein [Stigmatella aurantiaca
           DW4/3-1]
          Length = 640

 Score = 37.0 bits (85), Expect = 7.9,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 26/62 (41%), Gaps = 6/62 (9%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
            G++I G +  V      VD+G  +G+I   E          E ++ GD V+  I  +  
Sbjct: 337 EGKVIKGKITGVRDFGAFVDVGGVEGMIPVSEMSYQRVGHPSEVVKVGDEVEVEILRMEA 396

Query: 192 EQ 193
            Q
Sbjct: 397 GQ 398


>gi|169824266|ref|YP_001691877.1| NAD-dependent DNA ligase LigA [Finegoldia magna ATCC 29328]
 gi|254781333|sp|B0RZW0|DNLJ_FINM2 RecName: Full=DNA ligase; AltName: Full=Polydeoxyribonucleotide
           synthase [NAD+]
 gi|167831071|dbj|BAG07987.1| NAD-dependent DNA ligase [Finegoldia magna ATCC 29328]
          Length = 662

 Score = 37.0 bits (85), Expect = 7.9,   Method: Composition-based stats.
 Identities = 24/133 (18%), Positives = 49/133 (36%), Gaps = 12/133 (9%)

Query: 363 MQAINVDEIIAHLLVAE-GFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           M    + E    +L+ +     +EE+  VK  ++  ++GF E+ +  +     +     +
Sbjct: 444 MNIDGLSEKTLEVLLEKLNIKSIEEIYDVKKEQLMQLDGFKEKKSQNLINAIEK---SKN 500

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           + L   I  LG       IP I  K    L +   K+ ++L     ++L+   +      
Sbjct: 501 VDLANFIFALG-------IPEIGEKTSFELAQK-YKSFDNLREAKFEELIQIEDIGNVIA 552

Query: 482 EKFDGFLSSLGTP 494
           E+   F       
Sbjct: 553 EEIVEFFHDETIS 565


>gi|310815216|ref|YP_003963180.1| 30S ribosomal protein S1 [Ketogulonicigenium vulgare Y25]
 gi|308753951|gb|ADO41880.1| 30S ribosomal protein S1 [Ketogulonicigenium vulgare Y25]
          Length = 561

 Score = 37.0 bits (85), Expect = 8.0,   Method: Composition-based stats.
 Identities = 21/101 (20%), Positives = 42/101 (41%), Gaps = 8/101 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD  R  +  +++ I+++ R  +R           G+++ G VK +      VDL
Sbjct: 159 FQILKMDRRRGNIVVSRRAILEESRAEQRAEVIGNLT--EGQVVDGVVKNITEYGAFVDL 216

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   +          E L  G+ +K  +  + +E 
Sbjct: 217 GGVDGLLHVTDMAWRRVNHPSEILSIGETIKVQVIKINKET 257


>gi|302380539|ref|ZP_07269004.1| DNA ligase (NAD+) [Finegoldia magna ACS-171-V-Col3]
 gi|302311482|gb|EFK93498.1| DNA ligase (NAD+) [Finegoldia magna ACS-171-V-Col3]
          Length = 662

 Score = 37.0 bits (85), Expect = 8.0,   Method: Composition-based stats.
 Identities = 24/133 (18%), Positives = 49/133 (36%), Gaps = 12/133 (9%)

Query: 363 MQAINVDEIIAHLLVAE-GFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID 421
           M    + E    +L+ +     +EE+  VK  ++  ++GF E+ +  +     +     +
Sbjct: 444 MNIDGLSEKTLEVLLEKLNIKSIEEIYDVKKEQLMQLDGFKEKKSQNLINAIEK---SKN 500

Query: 422 ITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNI 481
           + L   I  LG       IP I  K    L +   K+ ++L     ++L+   +      
Sbjct: 501 VDLANFIFALG-------IPEIGEKTSFELAQK-YKSFDNLREAKFEELIQIEDIGNVIA 552

Query: 482 EKFDGFLSSLGTP 494
           E+   F       
Sbjct: 553 EEIVEFFHDETIS 565


>gi|296877279|ref|ZP_06901319.1| polyribonucleotide nucleotidyltransferase [Streptococcus
           parasanguinis ATCC 15912]
 gi|296431799|gb|EFH17606.1| polyribonucleotide nucleotidyltransferase [Streptococcus
           parasanguinis ATCC 15912]
          Length = 785

 Score = 37.0 bits (85), Expect = 8.0,   Method: Composition-based stats.
 Identities = 32/185 (17%), Positives = 64/185 (34%), Gaps = 36/185 (19%)

Query: 29  SVMADSIQKAARSLYGTMSDIRVEINP------------ETGDISLFRLLEVVEEVENYT 76
            ++ +++ +A ++ +  +  I   I              +T  I + ++  V+ +     
Sbjct: 565 EILTEALAQAKKARFEILDVIEATIPEVRPELAPTAPKIDTIKIDVDKIKIVIGKGGETI 624

Query: 77  CQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKD 136
            +I  +     D   +        +      + A+  AK++I   VREA           
Sbjct: 625 DKIIAETGVKIDIDEEGN------VSIYSSDQDAINRAKEIIAGLVREA----------- 667

Query: 137 KVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRP------GDRVKSYIYDV 189
           KV E+    V R+E     V+L   +D ++   E       R       GD V   I  +
Sbjct: 668 KVDEVYHAKVVRIEKFGAFVNLFDKTDALVHISEMAWTRTNRVEDLVAIGDEVDVKIIKI 727

Query: 190 RREQR 194
             + R
Sbjct: 728 DEKGR 732


>gi|54294307|ref|YP_126722.1| 30S ribosomal protein S1 [Legionella pneumophila str. Lens]
 gi|53754139|emb|CAH15612.1| 30S ribosomal protein S1 [Legionella pneumophila str. Lens]
          Length = 558

 Score = 37.0 bits (85), Expect = 8.0,   Method: Composition-based stats.
 Identities = 26/114 (22%), Positives = 46/114 (40%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RDPS   G  +   +  MD  R  +  +++ ++++   A+R        D  G+ + G V
Sbjct: 142 RDPSYLEGKELEFKVIKMDLKRNNIVVSRRAVVEEESSADRQALLESLHD--GQELHGIV 199

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           K +      +DLG  DG++   +          E L  G  VK  +     E+ 
Sbjct: 200 KNLTDYGAFIDLGGIDGLLHITDISWKRVKHPSEVLSVGQDVKVKVLSFDSERN 253


>gi|119357530|ref|YP_912174.1| ferredoxin [Chlorobium phaeobacteroides DSM 266]
 gi|119354879|gb|ABL65750.1| ferredoxin [Chlorobium phaeobacteroides DSM 266]
          Length = 355

 Score = 37.0 bits (85), Expect = 8.0,   Method: Composition-based stats.
 Identities = 14/70 (20%), Positives = 31/70 (44%), Gaps = 12/70 (17%)

Query: 436 ELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPK 495
           +L ++ GI     + L + G+KT++ L       LL  ++ KG  +             +
Sbjct: 224 DLAALEGISEAQAIKLIKAGVKTLDML-------LLKGADRKGRKL-----LADETALSE 271

Query: 496 DQVESMIIHA 505
           ++V +++  A
Sbjct: 272 EEVLTLVNRA 281


>gi|328772591|gb|EGF82629.1| hypothetical protein BATDEDRAFT_34351 [Batrachochytrium
           dendrobatidis JAM81]
          Length = 354

 Score = 37.0 bits (85), Expect = 8.1,   Method: Composition-based stats.
 Identities = 15/90 (16%), Positives = 36/90 (40%), Gaps = 10/90 (11%)

Query: 340 DIITEE----EDSINRQKDFNERTQF-FMQA-----INVDEIIAHLLVAEGFADVEELAC 389
           DI+T++    +D +  + D     Q  FM+      + +++     L  +G   +  +  
Sbjct: 202 DIMTDQLVADQDVMLDENDSTGEGQLDFMEIDRLQDVGINQADIAKLKTQGITTIRGIQM 261

Query: 390 VKISEIASIEGFDEETAVEIQGRAREYLEG 419
                +  ++GF E    +I+  A + +  
Sbjct: 262 ATSRNLLKVKGFSEIKVEKIKDAASKLIAN 291


>gi|324533916|gb|ADY49343.1| DNA-directed RNA polymerase subunit alpha [Ascaris suum]
          Length = 179

 Score = 37.0 bits (85), Expect = 8.1,   Method: Composition-based stats.
 Identities = 15/75 (20%), Positives = 33/75 (44%)

Query: 341 IITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEG 400
           +  E +  ++ Q       Q  ++ +++     + L   G   +E+L      EIA+++ 
Sbjct: 99  VFIESKVEVDTQIVNETDNQNAIETLDISNRAYNGLKKAGIDTIEDLCNKTKKEIAAVDN 158

Query: 401 FDEETAVEIQGRARE 415
              +T  EIQ + +E
Sbjct: 159 IGAKTVDEIQKQLQE 173


>gi|319954394|ref|YP_004165661.1| ssu ribosomal protein s1p [Cellulophaga algicola DSM 14237]
 gi|319423054|gb|ADV50163.1| SSU ribosomal protein S1P [Cellulophaga algicola DSM 14237]
          Length = 606

 Score = 37.0 bits (85), Expect = 8.1,   Method: Composition-based stats.
 Identities = 30/92 (32%), Positives = 49/92 (53%), Gaps = 5/92 (5%)

Query: 112 QSAKQVIIQKVREAERDRQYLEFKD-KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDE 169
           Q  +QV   K++E E       F D    E++ GTV  +     I+D+   S+GVI  +E
Sbjct: 39  QGIEQVDDAKLQEFE-QLVAENFVDTMDEEVVQGTVVYITDREAIIDINAKSEGVISLNE 97

Query: 170 TISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
                +L+ GD+V+  I D+R ++ G Q++LS
Sbjct: 98  FRYNPDLKVGDKVEVLI-DIREDKSG-QLVLS 127


>gi|185535577|gb|ACC77867.1| 30S ribosomal protein S1 [Staphylococcus xylosus]
          Length = 393

 Score = 37.0 bits (85), Expect = 8.1,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 32/65 (49%), Gaps = 8/65 (12%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           K G+ ++G V+ +E   VIV +  G  +G+I   +          + ++ GD + +Y+  
Sbjct: 14  KEGDKVTGEVQEIEEKQVIVHVNGGKFNGIIPISQLSTHHIDNPSDAVKVGDEIGAYVTK 73

Query: 189 VRREQ 193
           V  ++
Sbjct: 74  VEYDE 78


>gi|288572809|ref|ZP_06391166.1| DNA ligase, NAD-dependent [Dethiosulfovibrio peptidovorans DSM
           11002]
 gi|288568550|gb|EFC90107.1| DNA ligase, NAD-dependent [Dethiosulfovibrio peptidovorans DSM
           11002]
          Length = 674

 Score = 37.0 bits (85), Expect = 8.1,   Method: Composition-based stats.
 Identities = 19/85 (22%), Positives = 34/85 (40%), Gaps = 11/85 (12%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG--------RAREYLEG 419
           V + +A LLV   +  +E L      E+ SIEG     A  ++         R  + L  
Sbjct: 516 VGKGVAELLVER-YGSMEALRRADPEELGSIEGVGPAIAASLEAFFSDDGNIRTLDRLMD 574

Query: 420 IDITLQKKIRELGVSEELCSIPGID 444
             + ++++  E     +L S  G+ 
Sbjct: 575 HGVRMEERRPETSSDGKLLS--GMT 597


>gi|297588505|ref|ZP_06947148.1| possible 4-hydroxy-3-methylbut-2-enyl diphosphate reductase
           [Finegoldia magna ATCC 53516]
 gi|297573878|gb|EFH92599.1| possible 4-hydroxy-3-methylbut-2-enyl diphosphate reductase
           [Finegoldia magna ATCC 53516]
          Length = 675

 Score = 37.0 bits (85), Expect = 8.1,   Method: Composition-based stats.
 Identities = 21/108 (19%), Positives = 45/108 (41%), Gaps = 15/108 (13%)

Query: 97  VSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIV 156
           + +    +     AV  A+Q   +++ +   +         VGE I+G V+R+      +
Sbjct: 434 IDEKKRRLVLSHRAVVEAEQ---KEIEDKAWENI------TVGETITGKVQRLTDFGAFI 484

Query: 157 DLGNSDGVIRRDET------ISRENLRPGDRVKSYIYDVRREQRGPQV 198
           DLG  DG++   +          + L+ GD +++ +    RE+    +
Sbjct: 485 DLGGVDGLLHISDISWNRIESPEDVLKVGDEIETLVLKANREKNRISL 532


>gi|123408472|ref|XP_001303202.1| DNA repair protein RAD51 homolog [Trichomonas vaginalis G3]
 gi|84784038|gb|ABC61984.1| Rad51-like protein A [Trichomonas vaginalis]
 gi|121884563|gb|EAX90272.1| DNA repair protein RAD51 homolog, putative [Trichomonas vaginalis
           G3]
          Length = 329

 Score = 37.0 bits (85), Expect = 8.1,   Method: Composition-based stats.
 Identities = 10/51 (19%), Positives = 21/51 (41%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRA 413
           ++   +       L   G+  VE +A     ++ +++G  E  A +I   A
Sbjct: 19  LEKQGIAAGDIKKLQEAGYNTVESVAFTTKKQLITVKGISEAKADKIMAAA 69


>gi|114330421|ref|YP_746643.1| 30S ribosomal protein S1 [Nitrosomonas eutropha C91]
 gi|114307435|gb|ABI58678.1| SSU ribosomal protein S1P [Nitrosomonas eutropha C91]
          Length = 570

 Score = 37.0 bits (85), Expect = 8.1,   Method: Composition-based stats.
 Identities = 22/105 (20%), Positives = 45/105 (42%), Gaps = 8/105 (7%)

Query: 96  VVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVI 155
            +   +  +D  R  V  +++ ++++ + A+RD        + G ++ G VK +      
Sbjct: 160 EMEFKVIKLDRKRNNVVVSRRAVLEETQGADRDELLASL--QEGAVVQGIVKNITDYGAF 217

Query: 156 VDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           VDLG  DG++   +          E +  GD V + I    +E+ 
Sbjct: 218 VDLGGIDGLLHITDLAWRRVKHPTEVINVGDEVSAKILKFDQEKN 262


>gi|54297331|ref|YP_123700.1| 30S ribosomal protein S1 [Legionella pneumophila str. Paris]
 gi|161723255|ref|YP_095450.2| 30S ribosomal protein S1 [Legionella pneumophila subsp. pneumophila
           str. Philadelphia 1]
 gi|53751116|emb|CAH12527.1| 30S ribosomal protein S1 [Legionella pneumophila str. Paris]
          Length = 558

 Score = 37.0 bits (85), Expect = 8.1,   Method: Composition-based stats.
 Identities = 26/114 (22%), Positives = 46/114 (40%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           RDPS   G  +   +  MD  R  +  +++ ++++   A+R        D  G+ + G V
Sbjct: 142 RDPSYLEGKELEFKVIKMDLKRNNIVVSRRAVVEEESSADRQALLESLHD--GQELHGIV 199

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQR 194
           K +      +DLG  DG++   +          E L  G  VK  +     E+ 
Sbjct: 200 KNLTDYGAFIDLGGIDGLLHITDISWKRVKHPSEVLSVGQDVKVKVLSFDSERN 253


>gi|325568458|ref|ZP_08144825.1| polyribonucleotide nucleotidyltransferase [Enterococcus
           casseliflavus ATCC 12755]
 gi|325158227|gb|EGC70380.1| polyribonucleotide nucleotidyltransferase [Enterococcus
           casseliflavus ATCC 12755]
          Length = 715

 Score = 37.0 bits (85), Expect = 8.2,   Method: Composition-based stats.
 Identities = 30/138 (21%), Positives = 53/138 (38%), Gaps = 20/138 (14%)

Query: 79  ISLKVARDRDPSIDIGGVV-------SDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQY 131
           I +  A+ +D     G  +          +     G+V++ SA   +IQK  +   +   
Sbjct: 572 IQIDPAKIKDVIGKGGDTINGIIDETGVKIDIDQDGKVSIASADAEMIQKAIKIIEELTK 631

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP-------GDRVKS 184
                KVGE+  G V RVE     V+L      +     ++ E +         GD +  
Sbjct: 632 E---VKVGEVYLGKVVRVEKFGAFVNLIKGKDGLVHISQLANERVNKVEDVVKEGDEILV 688

Query: 185 YIYDVRREQRGPQVLLSR 202
            + ++ ++ R   V LSR
Sbjct: 689 KVTEIDKQGR---VNLSR 703


>gi|284097847|ref|ZP_06385823.1| PHP C-terminal domain protein [Candidatus Poribacteria sp. WGA-A3]
 gi|283830642|gb|EFC34776.1| PHP C-terminal domain protein [Candidatus Poribacteria sp. WGA-A3]
          Length = 160

 Score = 37.0 bits (85), Expect = 8.2,   Method: Composition-based stats.
 Identities = 24/121 (19%), Positives = 50/121 (41%), Gaps = 16/121 (13%)

Query: 389 CVKISEIA------SIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSE--ELCSI 440
              I+E+       ++ G  ++ AV+I    RE++E   +   ++++        E  ++
Sbjct: 46  ESPIAELVRAGDPRTLPGIGKDLAVKI----REFVETGTVQAYEELKTPLPPAIREWIAL 101

Query: 441 PGIDSKIKVALGEN-GIKTMEDLAGCSVDDLLGWSENKGGNIEKFDGFLSSLGTPKDQVE 499
           PG+   I   L    GI+T++DL   +          + G     D  L ++   ++Q  
Sbjct: 102 PGLSDPIVHDLYYRLGIRTLDDLETLAR---SHMLRTRPGVSVTADELLGAIQRLREQAR 158

Query: 500 S 500
           S
Sbjct: 159 S 159


>gi|237749145|ref|ZP_04579625.1| small subunit ribosomal protein S1 [Oxalobacter formigenes OXCC13]
 gi|229380507|gb|EEO30598.1| small subunit ribosomal protein S1 [Oxalobacter formigenes OXCC13]
          Length = 568

 Score = 37.0 bits (85), Expect = 8.2,   Method: Composition-based stats.
 Identities = 23/114 (20%), Positives = 46/114 (40%), Gaps = 8/114 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +D +   G  +   +  +D  R  V  +++ +++     ER +     K   G I++G V
Sbjct: 152 KDTTPYEGKTLEFKVIKLDRKRNNVVLSRRAVVEASMGEERQKLMETLK--EGTIVNGVV 209

Query: 147 KRVEYGNVIVDLGNSDGVI------RRDETISRENLRPGDRVKSYIYDVRREQR 194
           K +      +DLG  DG++       R      E L  G  + + +    +E+ 
Sbjct: 210 KNITDYGAFIDLGGIDGLLHITDLAWRRVRHPSEMLTVGQEITAKVLKYDQEKN 263


>gi|227432449|ref|ZP_03914436.1| NAD-dependent DNA ligase [Leuconostoc mesenteroides subsp. cremoris
           ATCC 19254]
 gi|227351770|gb|EEJ42009.1| NAD-dependent DNA ligase [Leuconostoc mesenteroides subsp. cremoris
           ATCC 19254]
          Length = 680

 Score = 37.0 bits (85), Expect = 8.2,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 28/65 (43%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
           D+IN  K+ +     F   I +    A  L+AE F  +  ++   + +IA+I G     A
Sbjct: 504 DAINSSKENSLERLLFGLGIRMVGAKAARLIAEKFRTLSAVSEASVEDIANINGIGHTIA 563

Query: 407 VEIQG 411
             I  
Sbjct: 564 QSIVQ 568


>gi|210630991|ref|ZP_03296716.1| hypothetical protein COLSTE_00601 [Collinsella stercoris DSM 13279]
 gi|210160207|gb|EEA91178.1| hypothetical protein COLSTE_00601 [Collinsella stercoris DSM 13279]
          Length = 1490

 Score = 37.0 bits (85), Expect = 8.2,   Method: Composition-based stats.
 Identities = 11/85 (12%), Positives = 29/85 (34%), Gaps = 1/85 (1%)

Query: 356  NERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRARE 415
            + R   F   + V +   +     G   V +L      ++  I+G   +   E++    E
Sbjct: 1339 DARLYLF-DDLGVSQRWTNKFSEVGIETVGDLVGKSEEDLLRIDGIGAKAIEELRDGLEE 1397

Query: 416  YLEGIDITLQKKIRELGVSEELCSI 440
            +     +   + + +     +L  +
Sbjct: 1398 HNLLYILDNSEDVADEEDLSQLLQM 1422


>gi|50365222|ref|YP_053647.1| class III heat shock DNA-binding ATP dependent Lon protease
           [Mesoplasma florum L1]
 gi|50363778|gb|AAT75763.1| class III heat shock DNA-binding ATP dependent Lon protease
           [Mesoplasma florum L1]
          Length = 787

 Score = 37.0 bits (85), Expect = 8.2,   Method: Composition-based stats.
 Identities = 17/81 (20%), Positives = 37/81 (45%), Gaps = 7/81 (8%)

Query: 381 FADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIREL--GVSEEL- 437
           F + +++   ++  I SI  F +E   E+  +  + ++     + K+I++L  G S++L 
Sbjct: 101 FENEDQVPYAEVELIESINDFSDEELKELIEKISDAIKTKASLVTKQIKQLISGESDDLS 160

Query: 438 CSIPGIDSKIKVALGENGIKT 458
            +       I   L  + I T
Sbjct: 161 LAFD----SIMFKLAPSKILT 177


>gi|32471711|ref|NP_864704.1| 30S ribosomal protein S1 [Rhodopirellula baltica SH 1]
 gi|32397082|emb|CAD72386.1| 30S ribosomal protein S1 [Rhodopirellula baltica SH 1]
 gi|327541012|gb|EGF27567.1| 30S ribosomal protein S1 [Rhodopirellula baltica WH47]
          Length = 560

 Score = 37.0 bits (85), Expect = 8.2,   Method: Composition-based stats.
 Identities = 22/86 (25%), Positives = 38/86 (44%), Gaps = 8/86 (9%)

Query: 122 VREAERDRQYLEFKDKV--GEIISGTVKRVEYGNVIVDLGNSDGVIRRD----ETI--SR 173
           + E ER+ +  E  +K+  G+I+ G V+ V      VD+G  DG+I       E I    
Sbjct: 336 ILEREREVKRQEQLEKIEPGDILEGVVRSVRDFGAFVDVGGLDGLIHVSKLSWERIKHPS 395

Query: 174 ENLRPGDRVKSYIYDVRREQRGPQVL 199
           E +  G  VK  +  + ++     + 
Sbjct: 396 EVIEEGQNVKVRVDKIDKQTGKMSLT 421


>gi|319407960|emb|CBI81614.1| 30S ribosomal protein S1 [Bartonella schoenbuchensis R1]
          Length = 566

 Score = 37.0 bits (85), Expect = 8.3,   Method: Composition-based stats.
 Identities = 25/125 (20%), Positives = 50/125 (40%), Gaps = 10/125 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ ++  RD  P +      S  +  MD  R  +  +++ ++++ R  +R       
Sbjct: 138 PRSQVDIRPIRDVAPLMHNPQ--SFEILKMDRRRGNIVVSRRTVLEESRAEQRSEIVQNL 195

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           +    +I+ G VK +      VDLG  DG++   +          E L  G  +K  I  
Sbjct: 196 E--ENQIVEGVVKNITDYGAFVDLGGIDGLLHVTDMAWRRINHPSEILTMGQTIKVQIIR 253

Query: 189 VRREQ 193
           + ++ 
Sbjct: 254 INQDT 258


>gi|297200946|ref|ZP_06918343.1| DNA gyrase, A subunit [Streptomyces sviceus ATCC 29083]
 gi|297147776|gb|EDY60917.2| DNA gyrase, A subunit [Streptomyces sviceus ATCC 29083]
          Length = 865

 Score = 37.0 bits (85), Expect = 8.3,   Method: Composition-based stats.
 Identities = 18/96 (18%), Positives = 44/96 (45%), Gaps = 5/96 (5%)

Query: 341 IITEEEDSINRQKDFNERTQFFMQAIN-VDEIIAHLLVAEGFADVEELACVKISEIASIE 399
           I+   +  + + ++     +  ++A++ +DE+IA  L+    +D  ++A   + E+  I+
Sbjct: 377 IVRRTKFRLRKAEERAHILRGLLKALDAIDEVIA--LIRR--SDTVDIARTGLMELLEID 432

Query: 400 GFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSE 435
                  +E+Q R    LE   I  +    +  ++E
Sbjct: 433 EIQANAILEMQLRRLAALERQKIVQEHDELQAKITE 468


>gi|294055034|ref|YP_003548692.1| ribosomal protein S1 [Coraliomargarita akajimensis DSM 45221]
 gi|293614367|gb|ADE54522.1| ribosomal protein S1 [Coraliomargarita akajimensis DSM 45221]
          Length = 552

 Score = 37.0 bits (85), Expect = 8.3,   Method: Composition-based stats.
 Identities = 16/62 (25%), Positives = 33/62 (53%), Gaps = 1/62 (1%)

Query: 138 VGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGP 196
            G IISG +  +    V+VD+ G S+G++   E +    L+ GD ++ ++  +  ++  P
Sbjct: 19  EGSIISGVIIEIRPTEVVVDIGGKSEGIVHASEFVDMSELQIGDTIEVFLEKLEDKEGNP 78

Query: 197 QV 198
            +
Sbjct: 79  VI 80


>gi|320537739|ref|ZP_08037664.1| ribosomal protein S1 [Treponema phagedenis F0421]
 gi|320145418|gb|EFW37109.1| ribosomal protein S1 [Treponema phagedenis F0421]
          Length = 803

 Score = 37.0 bits (85), Expect = 8.3,   Method: Composition-based stats.
 Identities = 17/89 (19%), Positives = 41/89 (46%), Gaps = 10/89 (11%)

Query: 124 EAERDRQYLEFKDK--VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SREN 175
           E   ++   EF     +G+++ G VK        +DLG  DG++  ++         ++ 
Sbjct: 417 EEVTEKTRDEFFQNTNIGDVVEGRVKSFTSFGAFIDLGGFDGLLHVNDMSWGHVMRPKDF 476

Query: 176 LRPGDRVKSYIYDVRREQRGPQVLLSRTH 204
           ++ G+++K  +  +   ++  ++ LS  H
Sbjct: 477 VKKGEKIKLMVIRLDMAEK--RINLSLKH 503


>gi|291547610|emb|CBL20718.1| Ribosomal protein S1 [Ruminococcus sp. SR1/5]
          Length = 300

 Score = 37.0 bits (85), Expect = 8.3,   Method: Composition-based stats.
 Identities = 25/74 (33%), Positives = 41/74 (55%), Gaps = 9/74 (12%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGN-SDGVIRRDE--TISR----ENLRPGDRVKSYIYDVR 190
            G+IISGTV  V+   V++DL   ++G I  +E   +      E ++PGD V++ +   R
Sbjct: 21  EGDIISGTVVSVDESGVVLDLKFYAEGFIPVEEFSRVPGFNIKEAVQPGDEVQAMVLR-R 79

Query: 191 REQRGPQVLLSRTH 204
            + +G  +LLSR  
Sbjct: 80  DDGQG-NILLSRAD 92


>gi|238019394|ref|ZP_04599820.1| hypothetical protein VEIDISOL_01258 [Veillonella dispar ATCC 17748]
 gi|237864093|gb|EEP65383.1| hypothetical protein VEIDISOL_01258 [Veillonella dispar ATCC 17748]
          Length = 632

 Score = 37.0 bits (85), Expect = 8.3,   Method: Composition-based stats.
 Identities = 21/80 (26%), Positives = 38/80 (47%), Gaps = 13/80 (16%)

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDET------ISRENLRPGDRVKS 184
            EFK   G ++ GTV +VE     V  G  ++ ++ R E        +++ L+ GD +K+
Sbjct: 286 EEFK--KGNVVEGTVVQVEDERAYVSFGYKTEAILNRTEISYPAPESAKDVLKNGDEIKA 343

Query: 185 YIY-DVRREQRGPQVLLSRT 203
            I   ++ +     + LS T
Sbjct: 344 VIMNHIKEDN---PIYLSMT 360


>gi|159028322|emb|CAO87220.1| unnamed protein product [Microcystis aeruginosa PCC 7806]
          Length = 669

 Score = 37.0 bits (85), Expect = 8.3,   Method: Composition-based stats.
 Identities = 17/42 (40%), Positives = 25/42 (59%), Gaps = 1/42 (2%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEI 409
           V  + A +L AE F  VEELA   ++++AS+ G  EE A  +
Sbjct: 520 VGSVNAKIL-AESFRTVEELANASVTDLASVYGIGEEIAQSV 560


>gi|312075410|ref|XP_003140404.1| KH domain-containing protein [Loa loa]
 gi|307764432|gb|EFO23666.1| KH domain-containing protein [Loa loa]
          Length = 642

 Score = 37.0 bits (85), Expect = 8.4,   Method: Composition-based stats.
 Identities = 17/63 (26%), Positives = 27/63 (42%)

Query: 301 LDEDVGRIEVIVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQ 360
           +DE     E+ VP   +   IG+ GQNVR   ++TG  + I  +  D   ++        
Sbjct: 524 MDEVRLCTEIAVPSRLVGRIIGKGGQNVRELQRMTGAQVKIPDDTGDDETQKATIVRVLG 583

Query: 361 FFM 363
            F 
Sbjct: 584 NFQ 586


>gi|220929150|ref|YP_002506059.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding
           domain protein [Clostridium cellulolyticum H10]
 gi|219999478|gb|ACL76079.1| hydroxymethylbutenyl pyrophosphate reductase [Clostridium
           cellulolyticum H10]
          Length = 672

 Score = 37.0 bits (85), Expect = 8.4,   Method: Composition-based stats.
 Identities = 58/275 (21%), Positives = 99/275 (36%), Gaps = 50/275 (18%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI------SRENLRPGDRVKSYIYDVRR 191
           G+I  G +       V +D+G  SDG+I   E          ++L+ GD +  ++  V  
Sbjct: 302 GQITKGKIIGYNNNEVFIDMGYKSDGIIPMQEFSDDPDFNPEKSLKVGDEIDVFVVRVND 361

Query: 192 EQRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIVQVKAVSRDPGSRAKLAVFSSDSSIDPV 251
            +    VLLS+     +  L   EV E        +A       + K+        ++  
Sbjct: 362 GEGN--VLLSKKRVDAVKGL---EVIE--------RAYENKQPVKVKI-----TEKVN-- 401

Query: 252 GACVG-MRGSRVQAVVTELRDEKIDIVVWSPDSATFVINALRPAIVTKVVLDEDVGRIEV 310
           G  +G   G RV    +++ D       +  D + FV        V +V + E   +   
Sbjct: 402 GGVIGNASGVRVFIPASQISD------RFVKDLSEFVK------QVLQVEIIELNKQKRK 449

Query: 311 IVPKEQLSLAIGRRGQNVRLASQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINVDE 370
           +V      + I +   N   AS L   +I+I    +  +    DF      F+    VD 
Sbjct: 450 VVGSA--RILIEK---NKEAASSLIWDSIEIGKTYKGQVKSLMDFGA----FVDIGGVDG 500

Query: 371 II-AHLLVAEGFADVEELACVKISEIASIEGFDEE 404
           ++    L         E+  V    I S+  FD+E
Sbjct: 501 LVHLSELSWNKIRHPSEVVKVGDEIIVSVLDFDKE 535


>gi|114683632|ref|XP_001154728.1| PREDICTED: SAM domain, SH3 domain and nuclear localization signals,
           1 isoform 3 [Pan troglodytes]
          Length = 309

 Score = 37.0 bits (85), Expect = 8.4,   Method: Composition-based stats.
 Identities = 20/89 (22%), Positives = 44/89 (49%), Gaps = 8/89 (8%)

Query: 339 IDIITEEEDSINRQK-------DFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVK 391
           +D+I+EEE +  + K       + ++  Q F++ I++ E  + LL+  G+  +E+L  +K
Sbjct: 219 VDVISEEEAAPKKIKANRRSNSEKSKTLQEFLERIHLQEYTSTLLL-NGYETLEDLKDIK 277

Query: 392 ISEIASIEGFDEETAVEIQGRAREYLEGI 420
            S +  +   + +    +   A  +LE  
Sbjct: 278 ESHLIELNIENPDDRRRLLSAAENFLEEE 306


>gi|110638350|ref|YP_678559.1| 30S ribosomal protein S1 [Cytophaga hutchinsonii ATCC 33406]
 gi|110281031|gb|ABG59217.1| SSU ribosomal protein S1P [Cytophaga hutchinsonii ATCC 33406]
          Length = 606

 Score = 37.0 bits (85), Expect = 8.4,   Method: Composition-based stats.
 Identities = 28/134 (20%), Positives = 58/134 (43%), Gaps = 10/134 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +K  RD D  I +G  +   +  +++    V  + +V+I+K  E ++   
Sbjct: 157 EAFLPGSQIDVKPIRDFD--IFVGKKMEVKVVKINYTNDNVVVSHKVLIEKDIEKQKAVI 214

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
               +   G+++ G +K +    V +DLG  DG++   +         +E L    +V+ 
Sbjct: 215 LNNLE--KGQVLEGVIKNMTNFGVFIDLGGVDGLLHITDISWGRISHPQEVLSLDQKVQV 272

Query: 185 YIYDVRREQRGPQV 198
            + D   E++   +
Sbjct: 273 VVLDFDEEKKRISL 286


>gi|86742328|ref|YP_482728.1| DNA ligase, NAD-dependent [Frankia sp. CcI3]
 gi|123750794|sp|Q2J6U3|DNLJ_FRASC RecName: Full=DNA ligase; AltName: Full=Polydeoxyribonucleotide
           synthase [NAD+]
 gi|86569190|gb|ABD12999.1| DNA ligase, NAD-dependent [Frankia sp. CcI3]
          Length = 706

 Score = 37.0 bits (85), Expect = 8.4,   Method: Composition-based stats.
 Identities = 19/89 (21%), Positives = 34/89 (38%), Gaps = 7/89 (7%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ-----GRAREYLEGIDI 422
           V    A  L  E    +E +A     ++A++EG   + A  +       R R+ L  I  
Sbjct: 534 VGPTAARALARE-LRSLEAIAATSAEDLAAVEGVGPKIAGAVLDWFADERHRDILARIA- 591

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVAL 451
               ++ ++G  E    + G+   I   L
Sbjct: 592 AGGARLADVGAEEGPRPLDGVTVVITGTL 620


>gi|15605776|ref|NP_213153.1| polynucleotide phosphorylase/polyadenylase [Aquifex aeolicus VF5]
 gi|81343315|sp|O66593|PNP_AQUAE RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|2982946|gb|AAC06562.1| polyribonucleotide nucleotidyltransferase [Aquifex aeolicus VF5]
          Length = 775

 Score = 37.0 bits (85), Expect = 8.4,   Method: Composition-based stats.
 Identities = 35/186 (18%), Positives = 65/186 (34%), Gaps = 25/186 (13%)

Query: 20  KSIDRDVVLSVMADS---IQKAARSLYGTMSDIRVEINPETGDISLFRLLEVVEEVENYT 76
           K I ++++L  +  +          +Y  + + R E +P T  + +   ++V EE     
Sbjct: 513 KGITKEIMLDALKQAREGRLYILEKMYEAIPEPRKEPHPYTPKVEV---VDVPEEKAPLI 569

Query: 77  CQISLKVARDRDPSIDIGGVVSDP--LPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
                   +       +   V +   +    F    V+ AKQ+I   VRE E    Y   
Sbjct: 570 IGPGGSTVKKIYDETGVKVWVGEQGKVYLFVFPGGDVEKAKQMIQDIVREVEVGAVYK-- 627

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
                    GT+ RVE   V V+L      +     +      + E  + G+ +   + D
Sbjct: 628 ---------GTITRVEPYGVFVELWPGKIGLLHVSKMAEPVRSATEKYKVGEEIIVKVLD 678

Query: 189 VRREQR 194
           +    R
Sbjct: 679 LDELGR 684


>gi|95929284|ref|ZP_01312028.1| RNA binding S1 [Desulfuromonas acetoxidans DSM 684]
 gi|95134782|gb|EAT16437.1| RNA binding S1 [Desulfuromonas acetoxidans DSM 684]
          Length = 399

 Score = 37.0 bits (85), Expect = 8.4,   Method: Composition-based stats.
 Identities = 20/127 (15%), Positives = 47/127 (37%), Gaps = 10/127 (7%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              QI L+  R  +P   IG      +         +  +++V++++ R+++ +      
Sbjct: 144 PYSQIGLR--RQDNPEELIGQSFQVKISQFSEQGRNIVVSRRVLLEEQRQSQAESLRETL 201

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETIS------RENLRPGDRVKSYIYD 188
           K   G  ++  V  +      VD+G  +G++   E          E L  G  ++  +  
Sbjct: 202 K--EGMRVTAEVTSIREFGAFVDIGGIEGLLPISEVAYSRVEDLNEVLHVGQSLELVVKS 259

Query: 189 VRREQRG 195
           +  +   
Sbjct: 260 LDWKNNK 266


>gi|331003128|ref|ZP_08326638.1| hypothetical protein HMPREF0491_01500 [Lachnospiraceae oral taxon
           107 str. F0167]
 gi|330412959|gb|EGG92336.1| hypothetical protein HMPREF0491_01500 [Lachnospiraceae oral taxon
           107 str. F0167]
          Length = 248

 Score = 37.0 bits (85), Expect = 8.5,   Method: Composition-based stats.
 Identities = 16/55 (29%), Positives = 25/55 (45%), Gaps = 9/55 (16%)

Query: 272 EKIDIVVWSPDSATFVINAL---RPAIVTKVVLDEDVGRIEVIVPKEQLSLAIGR 323
           EKIDI+  + D    + NAL   +P  V  + ++    +    +    L LAI R
Sbjct: 99  EKIDII--NDD----IANALKYIKPCSVDTISVNPPYMKDTTAIKNPDLPLAIAR 147


>gi|256851010|ref|ZP_05556399.1| ribosomal protein S1 [Lactobacillus jensenii 27-2-CHN]
 gi|260661222|ref|ZP_05862136.1| ribosomal protein S1 [Lactobacillus jensenii 115-3-CHN]
 gi|282932037|ref|ZP_06337495.1| 40S ribosomal protein S1 [Lactobacillus jensenii 208-1]
 gi|256616072|gb|EEU21260.1| ribosomal protein S1 [Lactobacillus jensenii 27-2-CHN]
 gi|260548159|gb|EEX24135.1| ribosomal protein S1 [Lactobacillus jensenii 115-3-CHN]
 gi|281303804|gb|EFA95948.1| 40S ribosomal protein S1 [Lactobacillus jensenii 208-1]
          Length = 402

 Score = 37.0 bits (85), Expect = 8.5,   Method: Composition-based stats.
 Identities = 21/92 (22%), Positives = 37/92 (40%), Gaps = 10/92 (10%)

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRRE 192
           G+I+ G V R+      VD+G  DG++   E          + L+ G  VK  +  +  +
Sbjct: 198 GDIVEGKVSRLTNFGAFVDVGGVDGLVHISEISYKHIDKPSDVLKTGQDVKVKVIGIDDD 257

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           +    + + +T P      F     E+  G V
Sbjct: 258 RHRISLSIKQTEPSP----FEQATSELSEGEV 285


>gi|159043574|ref|YP_001532368.1| 30S ribosomal protein S1 [Dinoroseobacter shibae DFL 12]
 gi|157911334|gb|ABV92767.1| ribosomal protein S1 [Dinoroseobacter shibae DFL 12]
          Length = 558

 Score = 37.0 bits (85), Expect = 8.5,   Method: Composition-based stats.
 Identities = 38/196 (19%), Positives = 72/196 (36%), Gaps = 30/196 (15%)

Query: 13  ADAVAYEKS---IDRDVVLSVMADS---IQKAARSLYGTMSDIRVE---INPETGDISLF 63
            D V   +    I RD   +   ++   ++KA         D RVE        G  ++ 
Sbjct: 77  LDRVENARGEAVISRDK--ARREEAWDRLEKAY------EDDARVEGAIFGRVKGGFTVD 128

Query: 64  RLLEVVEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVR 123
               V         Q+ ++  RD  P + +       +  MD  R  +  +++ I+++ R
Sbjct: 129 LGGAVA---FLPGSQVDVRPVRDAGPLMGLKQP--FQILKMDRRRGNIVVSRRAILEESR 183

Query: 124 EAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLR 177
             +R     +     G+ + G V+ +      VDLG  DG++   +          E L 
Sbjct: 184 AEQRAEVIGKLN--EGDAVDGVVENITEYGAFVDLGGVDGLLHVTDMAWRRVNHPSEILA 241

Query: 178 PGDRVKSYIYDVRREQ 193
            G+ VK  +  + +E 
Sbjct: 242 IGETVKVQVIKINKET 257


>gi|296202369|ref|XP_002748430.1| PREDICTED: DNA repair protein RAD51 homolog 3-like [Callithrix
           jacchus]
          Length = 304

 Score = 37.0 bits (85), Expect = 8.5,   Method: Composition-based stats.
 Identities = 18/46 (39%), Positives = 25/46 (54%), Gaps = 1/46 (2%)

Query: 376 LVAEGFADVEELACVKISEIASIEGFDEETAVE-IQGRAREYLEGI 420
           LV+ GF   EEL  VK SE++   G  ++ A+E +Q   RE L   
Sbjct: 95  LVSAGFQTAEELLEVKPSELSKEVGISKDEALETLQIIRRECLTNK 140


>gi|210630510|ref|ZP_03296493.1| hypothetical protein COLSTE_00378 [Collinsella stercoris DSM 13279]
 gi|210160444|gb|EEA91415.1| hypothetical protein COLSTE_00378 [Collinsella stercoris DSM 13279]
          Length = 756

 Score = 37.0 bits (85), Expect = 8.5,   Method: Composition-based stats.
 Identities = 23/107 (21%), Positives = 38/107 (35%), Gaps = 24/107 (22%)

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAV------------EIQGRAR 414
           +V E+IA       F  V+ LA     +IA  EG   + A             E+  R R
Sbjct: 590 SVAEVIAQR-----FLTVDALAAASEEDIAGCEGIGPKIAASVRQFLAVPENLEVLQRLR 644

Query: 415 EYLEGID----ITLQKKIRELGVSEELCS---IPGIDSKIKVALGEN 454
           E    ++        +  +E GV+ +L     + G+   +   L   
Sbjct: 645 EAGLSLEEDLGAAHAQAAQETGVAADLAEAQPLAGLTFVLTGTLVNR 691


>gi|56552694|ref|YP_163533.1| 30S ribosomal protein S1 [Zymomonas mobilis subsp. mobilis ZM4]
 gi|241762615|ref|ZP_04760688.1| ribosomal protein S1 [Zymomonas mobilis subsp. mobilis ATCC 10988]
 gi|260753664|ref|YP_003226557.1| 30S ribosomal protein S1 [Zymomonas mobilis subsp. mobilis NCIMB
           11163]
 gi|56544268|gb|AAV90422.1| ribosomal protein S1 [Zymomonas mobilis subsp. mobilis ZM4]
 gi|241372810|gb|EER62514.1| ribosomal protein S1 [Zymomonas mobilis subsp. mobilis ATCC 10988]
 gi|258553027|gb|ACV75973.1| ribosomal protein S1 [Zymomonas mobilis subsp. mobilis NCIMB 11163]
          Length = 568

 Score = 37.0 bits (85), Expect = 8.6,   Method: Composition-based stats.
 Identities = 28/125 (22%), Positives = 52/125 (41%), Gaps = 10/125 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ ++  RD  P +DI       +  MD  R  +  +++ ++++ R  +R       
Sbjct: 139 PGSQVDIRPVRDVAPLMDIPQP--FQILKMDRRRGNIVVSRRAVLEETRAEQRSGLIQSL 196

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
               G++I+G VK +      VDLG  DG++   +          E +  GD V   I  
Sbjct: 197 A--EGQVITGVVKNITDYGAFVDLGGIDGLLHVTDLSYRRVGHPSEMIAIGDSVTVQIIR 254

Query: 189 VRREQ 193
           + R+ 
Sbjct: 255 INRDT 259


>gi|116617684|ref|YP_818055.1| NAD-dependent DNA ligase [Leuconostoc mesenteroides subsp.
           mesenteroides ATCC 8293]
 gi|122272115|sp|Q03YP0|DNLJ_LEUMM RecName: Full=DNA ligase; AltName: Full=Polydeoxyribonucleotide
           synthase [NAD+]
 gi|116096531|gb|ABJ61682.1| NAD-dependent DNA ligase [Leuconostoc mesenteroides subsp.
           mesenteroides ATCC 8293]
          Length = 680

 Score = 37.0 bits (85), Expect = 8.6,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 28/65 (43%)

Query: 347 DSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETA 406
           D+IN  K+ +     F   I +    A  L+AE F  +  ++   + +IA+I G     A
Sbjct: 504 DAINSSKENSLERLLFGLGIRMVGAKAARLIAEKFRTLSAVSEASVEDIANINGIGHTIA 563

Query: 407 VEIQG 411
             I  
Sbjct: 564 QSIVQ 568


>gi|163848505|ref|YP_001636549.1| RNA-binding S1 domain-containing protein [Chloroflexus aurantiacus
           J-10-fl]
 gi|222526439|ref|YP_002570910.1| RNA binding S1 domain-containing protein [Chloroflexus sp.
           Y-400-fl]
 gi|163669794|gb|ABY36160.1| RNA binding S1 domain protein [Chloroflexus aurantiacus J-10-fl]
 gi|222450318|gb|ACM54584.1| RNA binding S1 domain protein [Chloroflexus sp. Y-400-fl]
          Length = 554

 Score = 37.0 bits (85), Expect = 8.6,   Method: Composition-based stats.
 Identities = 18/75 (24%), Positives = 37/75 (49%), Gaps = 6/75 (8%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDET------ISRENLRPGDRVKSYIYDVRR 191
           +G+I++G+V RV     +++LG  +G +   E        +R  L PG  +++ I  +  
Sbjct: 386 IGQIVNGSVLRVLRYGAVIELGGIEGFVHVGEIDWRWIGDARHALHPGQEIQAVITGIDE 445

Query: 192 EQRGPQVLLSRTHPQ 206
           ++    + + R HP 
Sbjct: 446 QRLRANLSMRRVHPD 460


>gi|323137931|ref|ZP_08073006.1| ribosomal protein S1 [Methylocystis sp. ATCC 49242]
 gi|322396934|gb|EFX99460.1| ribosomal protein S1 [Methylocystis sp. ATCC 49242]
          Length = 581

 Score = 37.0 bits (85), Expect = 8.7,   Method: Composition-based stats.
 Identities = 35/191 (18%), Positives = 69/191 (36%), Gaps = 29/191 (15%)

Query: 25  DVVLSVMADSIQKA---------------ARSLYGTMSDIR-VEINPETGDISLFRLLEV 68
           +V L  + +++ +A                   + T   +  V  N   G  ++     V
Sbjct: 79  EVYLERVENALGEAVISRDKARREESWVKLEKAFETNEKVDGVIFNQVKGGFTVDLDGAV 138

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                    Q+ ++  RD  P +++       +  MD  R  +  +++ ++++ R  +R 
Sbjct: 139 A---FLPRSQVDIRPIRDVAPLMNVPQP--FHILKMDRRRGNIVVSRRTVLEESRAEQRH 193

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRV 182
                 +   G++I G VK +      VDLG  DG++   +          E L  G  V
Sbjct: 194 EIVANLE--EGQVIDGVVKNITDYGAFVDLGGIDGLLHVTDIAWRRVNHPSEVLTIGQTV 251

Query: 183 KSYIYDVRREQ 193
           K  I  +  E 
Sbjct: 252 KVKIIKINHET 262


>gi|157803695|ref|YP_001492244.1| 30S ribosomal protein S1 [Rickettsia canadensis str. McKiel]
 gi|157784958|gb|ABV73459.1| 30S ribosomal protein S1 [Rickettsia canadensis str. McKiel]
          Length = 568

 Score = 37.0 bits (85), Expect = 8.8,   Method: Composition-based stats.
 Identities = 22/67 (32%), Positives = 35/67 (52%), Gaps = 5/67 (7%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRG 195
           K   ++ G V  ++   VIVD+G  ++G I + E +S      GD V+ YI  +  E R 
Sbjct: 37  KEKTVVKGQVIEIKNDMVIVDVGLKNEGRILKSEFLS--LPEVGDVVEVYIEKI--EGRN 92

Query: 196 PQVLLSR 202
            + +LSR
Sbjct: 93  GKTILSR 99


>gi|331239939|ref|XP_003332621.1| DNA repair protein RAD51 [Puccinia graminis f. sp. tritici CRL
           75-36-700-3]
 gi|309311611|gb|EFP88202.1| DNA repair protein RAD51 [Puccinia graminis f. sp. tritici CRL
           75-36-700-3]
          Length = 343

 Score = 37.0 bits (85), Expect = 8.8,   Method: Composition-based stats.
 Identities = 8/45 (17%), Positives = 16/45 (35%)

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQG 411
            +       L   G   +E +A      + +I+G  E  A ++  
Sbjct: 35  GISASDIKKLTEAGNDTIEAIAYQPRKALLAIKGISEAKADKLLS 79


>gi|294624709|ref|ZP_06703376.1| polynucleotide phosphorylase [Xanthomonas fuscans subsp.
           aurantifolii str. ICPB 11122]
 gi|294665176|ref|ZP_06730476.1| polynucleotide phosphorylase [Xanthomonas fuscans subsp.
           aurantifolii str. ICPB 10535]
 gi|292600982|gb|EFF45052.1| polynucleotide phosphorylase [Xanthomonas fuscans subsp.
           aurantifolii str. ICPB 11122]
 gi|292605040|gb|EFF48391.1| polynucleotide phosphorylase [Xanthomonas fuscans subsp.
           aurantifolii str. ICPB 10535]
          Length = 704

 Score = 37.0 bits (85), Expect = 8.8,   Method: Composition-based stats.
 Identities = 24/109 (22%), Positives = 44/109 (40%), Gaps = 21/109 (19%)

Query: 100 PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDL 158
            +       +A Q+AK  I Q   + E  R Y            G V ++ ++G  +  L
Sbjct: 595 TIIIASVNAIAAQAAKSRIEQITSDVEPGRIYE-----------GKVAKIMDFGAFVTIL 643

Query: 159 GNSDGVIRRDETIS------RENLRPGDRVKSYIYDVRREQRGPQVLLS 201
              DG++   +  S       + L+ GD V+  + +V ++ R   + LS
Sbjct: 644 PGKDGLVHVSQISSERVEKVGDKLKEGDLVRVKVLEVDKQGR---IRLS 689


>gi|191638372|ref|YP_001987538.1| 30S ribosomal protein S1 [Lactobacillus casei BL23]
 gi|227535138|ref|ZP_03965187.1| 30S ribosomal protein S1 [Lactobacillus paracasei subsp. paracasei
           ATCC 25302]
 gi|239631542|ref|ZP_04674573.1| 30S ribosomal protein S1 [Lactobacillus paracasei subsp. paracasei
           8700:2]
 gi|190712674|emb|CAQ66680.1| 30S Ribosomal protein S1 [Lactobacillus casei BL23]
 gi|227187183|gb|EEI67250.1| 30S ribosomal protein S1 [Lactobacillus paracasei subsp. paracasei
           ATCC 25302]
 gi|239526007|gb|EEQ65008.1| 30S ribosomal protein S1 [Lactobacillus paracasei subsp. paracasei
           8700:2]
 gi|327382400|gb|AEA53876.1| Hydroxymethylbutenyl pyrophosphate reductase [Lactobacillus casei
           LC2W]
 gi|327385601|gb|AEA57075.1| Hydroxymethylbutenyl pyrophosphate reductase [Lactobacillus casei
           BD-II]
          Length = 439

 Score = 37.0 bits (85), Expect = 8.8,   Method: Composition-based stats.
 Identities = 20/114 (17%), Positives = 47/114 (41%), Gaps = 10/114 (8%)

Query: 94  GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN 153
           G  +   +  ++     +  + + I++  +   R   + + +   G+ + G V R+    
Sbjct: 160 GKELEFKIIEIEPSENRLILSHRAIVEASKAEARKEIFAKIQP--GDTVEGKVARLTNFG 217

Query: 154 VIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
             VDLG  DG++   E          + L+ G  +K  + +V  ++   ++ LS
Sbjct: 218 AFVDLGGVDGLVHVSEISFDHVDKPSDVLKVGQEIKVKVLNVDPDRN--RISLS 269


>gi|94266273|ref|ZP_01289978.1| Ribosomal protein S1 [delta proteobacterium MLMS-1]
 gi|93453124|gb|EAT03595.1| Ribosomal protein S1 [delta proteobacterium MLMS-1]
          Length = 530

 Score = 37.0 bits (85), Expect = 8.8,   Method: Composition-based stats.
 Identities = 28/127 (22%), Positives = 51/127 (40%), Gaps = 14/127 (11%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              QI L+  RD D    IG      +   +  R  V  +++ I+    E  R +   E 
Sbjct: 101 PYSQIDLRPVRDLD--ALIGESFDFKILKFNRRRNNVVISRRAIM----EEARQQLRNEM 154

Query: 135 KD--KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYI 186
           +   + G++++GTV  +    V VDLG  DG+    +          +  + GD ++  +
Sbjct: 155 RGTLEEGQVLTGTVTNITDYGVFVDLGGMDGLCHITDLSWGRVSHPSKMFKVGDDIQVKV 214

Query: 187 YDVRREQ 193
               +E 
Sbjct: 215 LKYDQEN 221


>gi|85714048|ref|ZP_01045037.1| 30S ribosomal protein S1 [Nitrobacter sp. Nb-311A]
 gi|85699174|gb|EAQ37042.1| 30S ribosomal protein S1 [Nitrobacter sp. Nb-311A]
          Length = 567

 Score = 37.0 bits (85), Expect = 8.8,   Method: Composition-based stats.
 Identities = 34/191 (17%), Positives = 67/191 (35%), Gaps = 29/191 (15%)

Query: 25  DVVLSVMADSIQKA---------------ARSLYGTMSDIR-VEINPETGDISLFRLLEV 68
           +V L  + +++ +A                   +     +  V  N   G  ++     V
Sbjct: 78  EVFLDRIENALGEAVLSRDKARREESWGKLEKAFQNNEKVHGVIFNQVKGGFTVDLDGAV 137

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                    Q+ ++  RD  P ++        +  MD  R  +  +++ ++++ R  +R 
Sbjct: 138 A---FLPRSQVDIRPIRDVGPLMNNTQP--FQILKMDRRRGNIVVSRRTVLEETRAEQRQ 192

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRV 182
                 +   G++I G VK +      VDLG  DG++   +          E L  G  V
Sbjct: 193 ELVQNLE--EGQVIDGVVKNITDYGAFVDLGGIDGLLHVTDIAWRRVNHPTEVLAIGQTV 250

Query: 183 KSYIYDVRREQ 193
           K  I  +  E 
Sbjct: 251 KVKIIKINHET 261


>gi|261368404|ref|ZP_05981287.1| putative exonuclease SbcC [Subdoligranulum variabile DSM 15176]
 gi|282569556|gb|EFB75091.1| putative exonuclease SbcC [Subdoligranulum variabile DSM 15176]
          Length = 468

 Score = 37.0 bits (85), Expect = 8.9,   Method: Composition-based stats.
 Identities = 32/153 (20%), Positives = 56/153 (36%), Gaps = 16/153 (10%)

Query: 377 VAEGFADVEELACVKISEIASIEGFDEETAVEIQG--RAREYLEGIDITLQKKIRELGVS 434
             E    +EE+  + +  +    G DEETA E+Q    AR+   G    +    R L   
Sbjct: 195 ADEACRRLEEVLLMHVGSLLGA-GADEETAAELQKIQDARDAF-GAAGAVDLAKRLLEFD 252

Query: 435 EELCS-----IPGIDSKIK-----VALGENGIKTMEDLAGCSVDDLLGWSENKGGNIEKF 484
           E + +     +  +D KI      V L E  +     LAG   ++       +     + 
Sbjct: 253 EAIEARQNEVMADLDEKIARGDAGVKLAEERVARRRQLAGLVAEEARTAEVQRQTEALQT 312

Query: 485 DGFLSSLGTPKDQVESMIIHARYKMGWIEKEKV 517
           +    S    +   ++    AR  +G  + E+V
Sbjct: 313 ELQTRSDALKQTIADTE--AARDALGKTDTEQV 343


>gi|293604177|ref|ZP_06686585.1| 30S ribosomal protein S1 [Achromobacter piechaudii ATCC 43553]
 gi|292817402|gb|EFF76475.1| 30S ribosomal protein S1 [Achromobacter piechaudii ATCC 43553]
 gi|317402985|gb|EFV83524.1| 30S ribosomal protein S1 [Achromobacter xylosoxidans C54]
          Length = 575

 Score = 37.0 bits (85), Expect = 9.0,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 36/70 (51%), Gaps = 6/70 (8%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI--SRE-NLRPGDRVKSYIYDVRRE 192
           K GE+IS  V RV++  V+V+ G  S+ +I  +E +    E  ++PGD V   I  +   
Sbjct: 33  KSGEVISAEVVRVDHNFVVVNAGLKSEALIPLEEFLNDQGELEVQPGDFVSVAIDSLENG 92

Query: 193 QRGPQVLLSR 202
                 +LSR
Sbjct: 93  YGDT--ILSR 100


>gi|291234145|ref|XP_002737010.1| PREDICTED: predicted protein-like [Saccoglossus kowalevskii]
          Length = 3314

 Score = 37.0 bits (85), Expect = 9.0,   Method: Composition-based stats.
 Identities = 31/140 (22%), Positives = 64/140 (45%), Gaps = 24/140 (17%)

Query: 364  QAINVDEIIAHLLVAEGFADV------EELACVKISEIASIEGF-------DEETAVEIQ 410
            + + +++ +   +VA G   +      EE+    +SE   +EG        D+ET++E  
Sbjct: 2687 EELVLEKSLTAKVVASGIESLDVDLFDEEI---SVSEQMLVEGLVERRVIKDKETSLENH 2743

Query: 411  GRAREYLEGIDITLQKKIRELGVSEELCSIPG-----IDSKIKVALGENGIK--TMEDLA 463
                +  E  ++ L+++   L + +++ +  G     +D+ +  A GE   +  T+EDLA
Sbjct: 2744 TNKDDAGESHEVHLKEEDGCLDLEKQILTAEGDEETVLDTAVIEASGEKESEQPTLEDLA 2803

Query: 464  GCSV-DDLLGWSENKGGNIE 482
            G    ++  G  E   G+ E
Sbjct: 2804 GQPTPEEPSGSQEEPAGSQE 2823


>gi|6013217|gb|AAF01292.1|AF182427_5 ribosomal protein S1 [Bordetella bronchiseptica]
          Length = 230

 Score = 37.0 bits (85), Expect = 9.0,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 36/70 (51%), Gaps = 6/70 (8%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI--SRE-NLRPGDRVKSYIYDVRRE 192
           K GE+IS  V RV++  V+V+ G  S+ +I  +E +    E  ++PGD V   I  +   
Sbjct: 34  KSGEVISAEVVRVDHNFVVVNAGLKSEALIPLEEFLNDQGELEVQPGDFVSVAIDSLENG 93

Query: 193 QRGPQVLLSR 202
                 +LSR
Sbjct: 94  YGDT--ILSR 101


>gi|116207588|ref|XP_001229603.1| hypothetical protein CHGG_03087 [Chaetomium globosum CBS 148.51]
 gi|88183684|gb|EAQ91152.1| hypothetical protein CHGG_03087 [Chaetomium globosum CBS 148.51]
          Length = 1766

 Score = 37.0 bits (85), Expect = 9.0,   Method: Composition-based stats.
 Identities = 19/67 (28%), Positives = 31/67 (46%), Gaps = 9/67 (13%)

Query: 137  KVGEIISGTVKRVEYGNVIVDLGNSD---GVIRRDETISREN------LRPGDRVKSYIY 187
            K G+ I+G V++VE     +++  S    G+  R E   R           GDRVK+ + 
Sbjct: 1267 KEGQTITGKVRKVEEFGAFIEISGSMNLSGLCHRSEMADRNVKDARTLYNEGDRVKARVL 1326

Query: 188  DVRREQR 194
             V  E++
Sbjct: 1327 KVDLEKK 1333


>gi|319760512|ref|YP_004124450.1| 30S ribosomal protein S1 [Candidatus Blochmannia vafer str. BVAF]
 gi|318039226|gb|ADV33776.1| 30S ribosomal protein S1 [Candidatus Blochmannia vafer str. BVAF]
          Length = 575

 Score = 37.0 bits (85), Expect = 9.1,   Method: Composition-based stats.
 Identities = 25/121 (20%), Positives = 51/121 (42%), Gaps = 9/121 (7%)

Query: 80  SLKVARDRDPSIDI-GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
           SL   R    ++D+ G +    +  +D+ R  V  +++  I+    AERD+   +     
Sbjct: 134 SLVDVRPIKDTLDLEGQICEFKVIKLDYKRNNVVVSRRAAIESENSAERDQLLNKL--HE 191

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRRE 192
           G ++ G VK +      +DLG  DG++   +          + +  GD +   +    +E
Sbjct: 192 GVVLKGLVKNLTDYGAFIDLGGIDGLLHITDISWKRVKHPSDVINIGDSITVKVLKFDKE 251

Query: 193 Q 193
           +
Sbjct: 252 R 252


>gi|313893418|ref|ZP_07826990.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Veillonella sp.
           oral taxon 158 str. F0412]
 gi|313442059|gb|EFR60479.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase [Veillonella sp.
           oral taxon 158 str. F0412]
          Length = 632

 Score = 37.0 bits (85), Expect = 9.1,   Method: Composition-based stats.
 Identities = 21/80 (26%), Positives = 38/80 (47%), Gaps = 13/80 (16%)

Query: 132 LEFKDKVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDET------ISRENLRPGDRVKS 184
            EFK   G ++ GTV +VE     V  G  ++ ++ R E        +++ L+ GD +K+
Sbjct: 286 EEFK--KGNVVEGTVVQVEDERAYVSFGYKTEAILNRTEISYPAPESAKDVLKNGDEIKA 343

Query: 185 YIY-DVRREQRGPQVLLSRT 203
            I   ++ +     + LS T
Sbjct: 344 VIMNHIKEDN---PIYLSMT 360


>gi|296231910|ref|XP_002761357.1| PREDICTED: SAM domain-containing protein SAMSN-1-like [Callithrix
           jacchus]
          Length = 441

 Score = 37.0 bits (85), Expect = 9.1,   Method: Composition-based stats.
 Identities = 19/87 (21%), Positives = 42/87 (48%), Gaps = 8/87 (9%)

Query: 339 IDIITEEEDS-------INRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVK 391
           +D+I+EEE +            + ++  Q F++ I++ E  + LL+  G+  +E+L  +K
Sbjct: 287 VDVISEEEAAPKKIKANQRSNNEKSKTLQEFLERIHLQEYTSTLLL-NGYETLEDLKDIK 345

Query: 392 ISEIASIEGFDEETAVEIQGRAREYLE 418
            S +  +   + E    +   A  +L+
Sbjct: 346 ESHLIELNIENSEDRRRLLSAAENFLD 372


>gi|256750641|ref|ZP_05491527.1| excinuclease ABC, C subunit [Thermoanaerobacter ethanolicus CCSD1]
 gi|256750481|gb|EEU63499.1| excinuclease ABC, C subunit [Thermoanaerobacter ethanolicus CCSD1]
          Length = 615

 Score = 37.0 bits (85), Expect = 9.1,   Method: Composition-based stats.
 Identities = 12/65 (18%), Positives = 26/65 (40%), Gaps = 1/65 (1%)

Query: 351 RQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
           ++K         +    + E  A  L    F  +EE+    + ++  +EG +E+ A  + 
Sbjct: 552 KEKQSKRFKSELLNIPGIGEKRAKALYDA-FKSIEEIKRASVEDLKKVEGMNEKAAQAVY 610

Query: 411 GRARE 415
              R+
Sbjct: 611 EYFRK 615


>gi|126736966|ref|ZP_01752701.1| 30S ribosomal protein S1 [Roseobacter sp. SK209-2-6]
 gi|126721551|gb|EBA18254.1| 30S ribosomal protein S1 [Roseobacter sp. SK209-2-6]
          Length = 553

 Score = 37.0 bits (85), Expect = 9.1,   Method: Composition-based stats.
 Identities = 21/101 (20%), Positives = 42/101 (41%), Gaps = 8/101 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD  R  +  +++ I+++ R  +R     +     G+ + G VK +      VDL
Sbjct: 153 FQILKMDRRRGNIVVSRRAILEESRAEQRAEVIGKLS--EGDSVDGVVKNITEYGAFVDL 210

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   +          E L  G+ VK  +  + ++ 
Sbjct: 211 GGVDGLLHVTDMAWRRVNHPSEILSIGETVKVQVIKINKDT 251


>gi|311747945|ref|ZP_07721730.1| DNA ligase, NAD-dependent [Algoriphagus sp. PR1]
 gi|126574918|gb|EAZ79276.1| DNA ligase, NAD-dependent [Algoriphagus sp. PR1]
          Length = 791

 Score = 37.0 bits (85), Expect = 9.1,   Method: Composition-based stats.
 Identities = 25/144 (17%), Positives = 53/144 (36%), Gaps = 16/144 (11%)

Query: 367 NVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGID-ITLQ 425
           N+ E  A LL    F  +++L      E+  I G  E     I     E+    + + + 
Sbjct: 639 NIGENTAALLAQH-FGSIDKLNEASTEELLEINGVGETLVQSIH----EFFSRQENLDII 693

Query: 426 KKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN----- 480
            ++++ G+  +   I      +  AL    I     L     D+++ + ++ GG      
Sbjct: 694 SRLKKSGLQFDAEQIE--TVSLGNALEGKKILASGKLNQFKRDEIVDFIKSHGGQYVSSV 751

Query: 481 IEKFDGFLSSLGT---PKDQVESM 501
            +K D  +         K++ + +
Sbjct: 752 SKKLDFIIEGEDMGPSKKEKAQKL 775


>gi|156742579|ref|YP_001432708.1| hypothetical protein Rcas_2617 [Roseiflexus castenholzii DSM 13941]
 gi|156233907|gb|ABU58690.1| conserved hypothetical protein [Roseiflexus castenholzii DSM 13941]
          Length = 140

 Score = 37.0 bits (85), Expect = 9.1,   Method: Composition-based stats.
 Identities = 29/150 (19%), Positives = 46/150 (30%), Gaps = 32/150 (21%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELAC-----VKISEIASIEGFDEETAVEIQGRAREY 416
             Q   ++  +   L   G     +L          +EI    G  E T + +  RA   
Sbjct: 3   LAQVEGLEPDVIARLSTLGIDTTNDLLTRGAEPAGRAEITGAVGLSEPTLLALLFRA--- 59

Query: 417 LEGIDITLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSEN 476
                              +L  + G+       L E G+ T+ DLA    ++L     +
Sbjct: 60  -------------------DLERVRGVGWDYAGLLAEAGVSTVTDLAYRQAEEL-----H 95

Query: 477 KGGNIEKFDGFLSSLGTPKDQVESMIIHAR 506
           K       +  L        QV + I HAR
Sbjct: 96  KRMAAINAERSLVKRVPSLAQVSAWIDHAR 125


>gi|167036996|ref|YP_001664574.1| excinuclease ABC subunit C [Thermoanaerobacter pseudethanolicus
           ATCC 33223]
 gi|320115414|ref|YP_004185573.1| excinuclease ABC subunit C [Thermoanaerobacter brockii subsp.
           finnii Ako-1]
 gi|229557871|sp|B0K791|UVRC_THEP3 RecName: Full=UvrABC system protein C; Short=Protein uvrC; AltName:
           Full=Excinuclease ABC subunit C
 gi|166855830|gb|ABY94238.1| excinuclease ABC, C subunit [Thermoanaerobacter pseudethanolicus
           ATCC 33223]
 gi|319928505|gb|ADV79190.1| excinuclease ABC, C subunit [Thermoanaerobacter brockii subsp.
           finnii Ako-1]
          Length = 615

 Score = 37.0 bits (85), Expect = 9.1,   Method: Composition-based stats.
 Identities = 12/65 (18%), Positives = 26/65 (40%), Gaps = 1/65 (1%)

Query: 351 RQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQ 410
           ++K         +    + E  A  L    F  +EE+    + ++  +EG +E+ A  + 
Sbjct: 552 KEKQSKRFKSELLNIPGIGEKRAKALYDA-FKSIEEIKRASVEDLKKVEGMNEKAAQAVY 610

Query: 411 GRARE 415
              R+
Sbjct: 611 EYFRK 615


>gi|332521413|ref|ZP_08397867.1| RNA binding S1 domain protein [Lacinutrix algicola 5H-3-7-4]
 gi|332042812|gb|EGI79011.1| RNA binding S1 domain protein [Lacinutrix algicola 5H-3-7-4]
          Length = 630

 Score = 37.0 bits (85), Expect = 9.1,   Method: Composition-based stats.
 Identities = 27/134 (20%), Positives = 51/134 (38%), Gaps = 10/134 (7%)

Query: 71  EVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQ 130
           E      QI +K  RD D  ++            +F  V V   K +I   + E +++  
Sbjct: 195 EAFLPGSQIDVKPIRDYDQYVNKTMEFKVVKINHEFKNVVVSH-KALIEADIEEQKKEII 253

Query: 131 YLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKS 184
             + +   G+++ G VK +    V +DLG  DG++   +          E +    ++  
Sbjct: 254 -GQLE--KGQVLEGVVKNITSYGVFIDLGGVDGLVHITDLSWSRINHPNEIVELDQKLNV 310

Query: 185 YIYDVRREQRGPQV 198
            I D    +   Q+
Sbjct: 311 VILDFDENKSRIQL 324


>gi|325921391|ref|ZP_08183248.1| polyribonucleotide nucleotidyltransferase (polynucleotide
           phosphorylase) [Xanthomonas gardneri ATCC 19865]
 gi|325548149|gb|EGD19146.1| polyribonucleotide nucleotidyltransferase (polynucleotide
           phosphorylase) [Xanthomonas gardneri ATCC 19865]
          Length = 704

 Score = 37.0 bits (85), Expect = 9.1,   Method: Composition-based stats.
 Identities = 24/109 (22%), Positives = 44/109 (40%), Gaps = 21/109 (19%)

Query: 100 PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDL 158
            +       +A Q+AK  I Q   + E  R Y            G V ++ ++G  +  L
Sbjct: 595 TIIIASVNAIAAQAAKSRIEQITSDVEPGRIYE-----------GKVAKIMDFGAFVTIL 643

Query: 159 GNSDGVIRRDETIS------RENLRPGDRVKSYIYDVRREQRGPQVLLS 201
              DG++   +  S       + L+ GD V+  + +V ++ R   + LS
Sbjct: 644 PGKDGLVHVSQISSERVEKVGDKLKEGDLVRVKVLEVDKQGR---IRLS 689


>gi|182679847|ref|YP_001833993.1| 30S ribosomal protein S1 [Beijerinckia indica subsp. indica ATCC
           9039]
 gi|182635730|gb|ACB96504.1| ribosomal protein S1 [Beijerinckia indica subsp. indica ATCC 9039]
          Length = 577

 Score = 37.0 bits (85), Expect = 9.1,   Method: Composition-based stats.
 Identities = 32/191 (16%), Positives = 67/191 (35%), Gaps = 29/191 (15%)

Query: 25  DVVLSVMADSIQKA---------------ARSLYGTMSDIR-VEINPETGDISLFRLLEV 68
           +V L  + +++ +A                   +     +  +  N   G  ++     V
Sbjct: 78  EVYLERIENALGEAVISRDKARREESWVKLEKAFENQEKVEGIIFNQVKGGFTVDLDGAV 137

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
                    Q+ ++  RD  P + +       +  MD  R  +  +++ ++++ R  +R 
Sbjct: 138 A---FLPRSQVDIRPIRDVAPLMQVPQP--FQILKMDRRRGNIVVSRRTVLEESRAEQRH 192

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRV 182
                 +   G++I G VK +      VDLG  DG++   +          E L  G  V
Sbjct: 193 EIVANLE--EGQVIEGMVKNITDYGAFVDLGGIDGLLHVTDIAWRRVNHPTEVLTIGQTV 250

Query: 183 KSYIYDVRREQ 193
           +  I  +  E 
Sbjct: 251 RVKIIKINHET 261


>gi|220924267|ref|YP_002499569.1| molybdenum cofactor biosynthesis protein [Methylobacterium nodulans
           ORS 2060]
 gi|219948874|gb|ACL59266.1| molybdenum cofactor biosynthesis protein [Methylobacterium nodulans
           ORS 2060]
          Length = 134

 Score = 37.0 bits (85), Expect = 9.1,   Method: Composition-based stats.
 Identities = 23/110 (20%), Positives = 34/110 (30%), Gaps = 27/110 (24%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKIS-----EIASIEGFDEETAVEIQGRAREYLEGIDI 422
           +   +A  L   G A  E L           ++A   G D    +   GR          
Sbjct: 11  IGPFLADRLREAGIATTEALLTRAGDPDGRRQLAQATGIDAALLLRWVGRC--------- 61

Query: 423 TLQKKIRELGVSEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLG 472
                        +L  I G+   +   L   GI T+ DLA  + D L+ 
Sbjct: 62  -------------DLFRIHGLARPMTELLEAAGICTVADLARQNADSLVD 98


>gi|149916116|ref|ZP_01904638.1| 30S ribosomal protein S1 [Roseobacter sp. AzwK-3b]
 gi|149809971|gb|EDM69820.1| 30S ribosomal protein S1 [Roseobacter sp. AzwK-3b]
          Length = 562

 Score = 37.0 bits (85), Expect = 9.1,   Method: Composition-based stats.
 Identities = 22/101 (21%), Positives = 42/101 (41%), Gaps = 8/101 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD  R  +  +++ I+++ R  +R     +     G+ + G VK +      VDL
Sbjct: 159 FQILKMDRRRGNIVVSRRAILEESRAEQRAEVISQLT--EGDTVDGVVKNITEYGAFVDL 216

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   +          E L  G+ VK  +  + +E 
Sbjct: 217 GGVDGLLHVTDMAWRRVNHPSEILSIGETVKVQVIKINKET 257


>gi|116494865|ref|YP_806599.1| 30S ribosomal protein S1 [Lactobacillus casei ATCC 334]
 gi|116105015|gb|ABJ70157.1| SSU ribosomal protein S1P [Lactobacillus casei ATCC 334]
          Length = 439

 Score = 37.0 bits (85), Expect = 9.1,   Method: Composition-based stats.
 Identities = 20/114 (17%), Positives = 47/114 (41%), Gaps = 10/114 (8%)

Query: 94  GGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGN 153
           G  +   +  ++     +  + + I++  +   R   + + +   G+ + G V R+    
Sbjct: 160 GKELEFKIIEIEPSENRLILSHRAIVEASKAEARKEIFAKIQP--GDTVEGKVARLTNFG 217

Query: 154 VIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
             VDLG  DG++   E          + L+ G  +K  + +V  ++   ++ LS
Sbjct: 218 AFVDLGGVDGLVHVSEISFDHVDKPSDVLKVGQEIKVKVLNVDPDRN--RISLS 269


>gi|75763037|ref|ZP_00742826.1| SSU ribosomal protein S1P [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
 gi|74489469|gb|EAO52896.1| SSU ribosomal protein S1P [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
          Length = 313

 Score = 37.0 bits (85), Expect = 9.1,   Method: Composition-based stats.
 Identities = 20/72 (27%), Positives = 35/72 (48%), Gaps = 10/72 (13%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVI-------RRDETISRENLRPGDRVKSYIYDV 189
           K G+++ GTV+R+      V++G  DG++        R E    E L  G +VK  +  V
Sbjct: 118 KEGDVVEGTVQRLTDFGAFVNVGGVDGLVHISQISHERVEQ-PSEVLEQGQKVKVKVLSV 176

Query: 190 RREQRGPQVLLS 201
             + +  ++ LS
Sbjct: 177 DADTQ--RISLS 186


>gi|312863089|ref|ZP_07723327.1| conserved hypothetical protein [Streptococcus vestibularis F0396]
 gi|322517181|ref|ZP_08070064.1| hypothetical protein HMPREF9425_1341 [Streptococcus vestibularis
           ATCC 49124]
 gi|311100625|gb|EFQ58830.1| conserved hypothetical protein [Streptococcus vestibularis F0396]
 gi|322124240|gb|EFX95756.1| hypothetical protein HMPREF9425_1341 [Streptococcus vestibularis
           ATCC 49124]
          Length = 116

 Score = 36.6 bits (84), Expect = 9.2,   Method: Composition-based stats.
 Identities = 12/67 (17%), Positives = 25/67 (37%), Gaps = 3/67 (4%)

Query: 348 SINRQKDFNERTQFFMQAINVD---EIIAHLLVAEGFADVEELACVKISEIASIEGFDEE 404
           +       +   + F +   V+     +   L  EG   VE  A V   E+ +++G    
Sbjct: 43  AKEEVAAKDLSLETFAELPEVEGLRSNLVETLYNEGLTSVEAFATVTEEEVLALKGVGPA 102

Query: 405 TAVEIQG 411
           T  +++ 
Sbjct: 103 TVKKLKE 109


>gi|297205893|ref|ZP_06923288.1| 30S ribosomal protein S1 [Lactobacillus jensenii JV-V16]
 gi|297149019|gb|EFH29317.1| 30S ribosomal protein S1 [Lactobacillus jensenii JV-V16]
          Length = 402

 Score = 36.6 bits (84), Expect = 9.2,   Method: Composition-based stats.
 Identities = 21/92 (22%), Positives = 37/92 (40%), Gaps = 10/92 (10%)

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRRE 192
           G+I+ G V R+      VD+G  DG++   E          + L+ G  VK  +  +  +
Sbjct: 198 GDIVEGKVSRLTNFGAFVDVGGVDGLVHISEISYKHIDKPSDVLKTGQDVKVKVIGIDDD 257

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           +    + + +T P      F     E+  G V
Sbjct: 258 RHRISLSIKQTEPSP----FEQATSELSEGEV 285


>gi|225849605|ref|YP_002729839.1| ribosomal protein S01 [Persephonella marina EX-H1]
 gi|225646411|gb|ACO04597.1| ribosomal protein S01 [Persephonella marina EX-H1]
          Length = 550

 Score = 36.6 bits (84), Expect = 9.2,   Method: Composition-based stats.
 Identities = 18/80 (22%), Positives = 34/80 (42%), Gaps = 7/80 (8%)

Query: 138 VGEIISGTVKRVEYGNVIVDLGNSDGVIRRDET-ISRENLRPGDRVKSYIYDVRREQRGP 196
            GE I   + +      +VDLG     +   E+ + R+   P      YI  + R+++ P
Sbjct: 101 KGEKIGAKLDKKINKGFLVDLGGVKAFLPYSESGLRRDEELPPPEFDVYILRIDRDRKPP 160

Query: 197 QVLLSRTHPQFMVKLFHMEV 216
            +++SR       K+   E+
Sbjct: 161 GIVVSR------KKVLDEEI 174


>gi|254456336|ref|ZP_05069765.1| helicase, putative [Candidatus Pelagibacter sp. HTCC7211]
 gi|207083338|gb|EDZ60764.1| helicase, putative [Candidatus Pelagibacter sp. HTCC7211]
          Length = 826

 Score = 36.6 bits (84), Expect = 9.2,   Method: Composition-based stats.
 Identities = 27/155 (17%), Positives = 59/155 (38%), Gaps = 24/155 (15%)

Query: 30  VMAD---SIQKAARSLYGTMSDIRVEINPETG------DISLF------RLLEVVEEVEN 74
            +     S++KAAR   G   + R++I  +TG      D  ++        L V  +  N
Sbjct: 517 ALETDIKSLKKAARQSIGPELEKRIQIIIDTGLIELNDDFKIYWNNFPIAKLSVGNDYLN 576

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVI-IQKVREAERDRQYLE 133
              ++ +    +++P   +   +                 K +I ++ ++E     + L 
Sbjct: 577 PNFELIIDDTIEQNPKQKLVDFI-----HKWIQTKINSVLKSLIDLKNLKEKNSSIKALA 631

Query: 134 FKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRD 168
           ++       +G +KR +    +  LG ++  I RD
Sbjct: 632 YQLYEN---NGVLKREQVSEYLKSLGQNERKILRD 663


>gi|162455162|ref|YP_001617529.1| 30S ribosomal protein S1 [Sorangium cellulosum 'So ce 56']
 gi|161165744|emb|CAN97049.1| 30S ribosomal protein S1 [Sorangium cellulosum 'So ce 56']
          Length = 562

 Score = 36.6 bits (84), Expect = 9.2,   Method: Composition-based stats.
 Identities = 23/120 (19%), Positives = 47/120 (39%), Gaps = 10/120 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+ L+  R+ D    IG      +   +  R  +  +++V++++ R+  + +     
Sbjct: 133 PGSQVDLRPIRNLDKL--IGQTYKFKVIKFNKKRGNIVLSRRVLLERERDEMKAKTLETL 190

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
               G  + GT+K +      VDLG  DG++   +          E  + GD V   +  
Sbjct: 191 T--EGMTVKGTIKNITEYGAFVDLGGIDGLLHITDMSWGRVNHPSEVFQVGDEVLVKVLK 248



 Score = 36.6 bits (84), Expect = 9.6,   Method: Composition-based stats.
 Identities = 23/59 (38%), Positives = 31/59 (52%), Gaps = 10/59 (16%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL-GNSDGVIRRDE------TISRENLRPGDRVKSYIYD 188
           + GEIISGTV  V   +V+VD+ G S+GVI   E            ++ GD+V  YI  
Sbjct: 19  REGEIISGTVVAVNRDSVVVDIGGKSEGVIALREFADAAGQS---AVKAGDKVDVYIES 74


>gi|317477010|ref|ZP_07936252.1| DNA ligase [Bacteroides eggerthii 1_2_48FAA]
 gi|316906803|gb|EFV28515.1| DNA ligase [Bacteroides eggerthii 1_2_48FAA]
          Length = 666

 Score = 36.6 bits (84), Expect = 9.3,   Method: Composition-based stats.
 Identities = 24/118 (20%), Positives = 47/118 (39%), Gaps = 16/118 (13%)

Query: 368 VDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKK 427
           V E +A   +A+ F ++EEL    + ++ SI+   E+ A  I      +   +++ L ++
Sbjct: 516 VGETVAKK-IAKSFNNIEELENADLEKLTSIDEIGEKIAQSIL---IYFSSPLNVNLIER 571

Query: 428 IRELGV-----SEELCSIPGIDSKIKVALGENGIKTMEDLAGCSVDDLLGWSENKGGN 480
           ++  G+      E+L       ++    L    I         S D+     E  GG 
Sbjct: 572 LKSAGLQLYRKEEDL-------NEYTDKLAGQSIVISGVFTHHSRDEYKDLIEKNGGK 622


>gi|89898347|ref|YP_515457.1| 30S ribosomal protein S1 [Chlamydophila felis Fe/C-56]
 gi|89331719|dbj|BAE81312.1| 30S ribosomal protein S1 [Chlamydophila felis Fe/C-56]
          Length = 581

 Score = 36.6 bits (84), Expect = 9.3,   Method: Composition-based stats.
 Identities = 26/66 (39%), Positives = 36/66 (54%), Gaps = 4/66 (6%)

Query: 139 GEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI-SRENLRPGDRVKSYIYDVRREQRGP 196
           G I+ GTV  +    V+VD+G  S+GVI   E I S E L  G  V+ Y+     E+   
Sbjct: 52  GAILKGTVVDINKDFVVVDVGLKSEGVIPMSEFIESSEGLVLGAEVEVYLDQAEDEEG-- 109

Query: 197 QVLLSR 202
           +V+LSR
Sbjct: 110 KVVLSR 115


>gi|326791021|ref|YP_004308842.1| RNA binding S1 domain protein [Clostridium lentocellum DSM 5427]
 gi|326541785|gb|ADZ83644.1| RNA binding S1 domain protein [Clostridium lentocellum DSM 5427]
          Length = 382

 Score = 36.6 bits (84), Expect = 9.4,   Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 50/113 (44%), Gaps = 11/113 (9%)

Query: 95  GVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNV 154
            +  + +  +   +  V S K++  +K + AE+ ++        GE +SGTV ++     
Sbjct: 155 DIEVEIIEFVPKSKKLVLSGKRIATEKAQ-AEKTQKLAALV--EGEKVSGTVTKLMPYGA 211

Query: 155 IVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
            VDLG  +G++   +          + ++ GD+V   I  V +     ++ LS
Sbjct: 212 FVDLGGVEGLVHNTDLSWVRIKHPSDVVKEGDKVDVIISSVDQSTG--KIALS 262


>gi|124025297|ref|YP_001014413.1| 30S ribosomal protein S1 protein B, putative Nbp1 [Prochlorococcus
           marinus str. NATL1A]
 gi|123960365|gb|ABM75148.1| 30S ribosomal protein S1 protein B, putative Nbp1 [Prochlorococcus
           marinus str. NATL1A]
          Length = 465

 Score = 36.6 bits (84), Expect = 9.4,   Method: Composition-based stats.
 Identities = 18/90 (20%), Positives = 36/90 (40%), Gaps = 4/90 (4%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLR--PGDRVKSYIYDVRREQR 194
           K G++I   +     G V  D     G I R +    EN +      + +   +V  E+R
Sbjct: 268 KEGKVIRVKINGFNRGGVTCDFEGLRGFIPRSQLEDGENHQSLVSKTISTAFLEVNPERR 327

Query: 195 GPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
             +++LS        +   +E+ ++  G +
Sbjct: 328 --KLVLSEKKAAIASRFSELEIGQLIEGEI 355


>gi|311104916|ref|YP_003977769.1| 30S ribosomal protein S1 [Achromobacter xylosoxidans A8]
 gi|310759605|gb|ADP15054.1| ribosomal protein S1 [Achromobacter xylosoxidans A8]
          Length = 576

 Score = 36.6 bits (84), Expect = 9.4,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 36/70 (51%), Gaps = 6/70 (8%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI--SRE-NLRPGDRVKSYIYDVRRE 192
           K GE+IS  V RV++  V+V+ G  S+ +I  +E +    E  ++PGD V   I  +   
Sbjct: 34  KSGEVISAEVVRVDHNFVVVNAGLKSEALIPLEEFLNDQGELEVQPGDFVSVAIDSLENG 93

Query: 193 QRGPQVLLSR 202
                 +LSR
Sbjct: 94  YGDT--ILSR 101


>gi|260893633|ref|YP_003239730.1| DNA-directed DNA polymerase [Ammonifex degensii KC4]
 gi|260865774|gb|ACX52880.1| DNA-directed DNA polymerase [Ammonifex degensii KC4]
          Length = 576

 Score = 36.6 bits (84), Expect = 9.4,   Method: Composition-based stats.
 Identities = 21/86 (24%), Positives = 38/86 (44%), Gaps = 8/86 (9%)

Query: 385 EELACVKI-SEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSE--ELCSIP 441
           E++A +    E+  I G  +E A +I     E L    +   ++++        EL  +P
Sbjct: 42  EDIAVIAARGELTKIPGIGKELARKI----EEILATGTLQKYEELKRKVPPGLVELLQVP 97

Query: 442 GIDSKIKVALGEN-GIKTMEDLAGCS 466
           GI  K    L E  G+K++ +L   +
Sbjct: 98  GIGPKTAKLLYERLGVKSLAELEQLA 123


>gi|297566359|ref|YP_003685331.1| PHP domain-containing protein [Meiothermus silvanus DSM 9946]
 gi|296850808|gb|ADH63823.1| PHP domain protein [Meiothermus silvanus DSM 9946]
          Length = 576

 Score = 36.6 bits (84), Expect = 9.4,   Method: Composition-based stats.
 Identities = 18/70 (25%), Positives = 31/70 (44%), Gaps = 6/70 (8%)

Query: 384 VEELACVKISEIASIEGFDEETAVEIQGRAREYLEGIDITLQKKIRELGVSE--ELCSIP 441
           +E+LA    + +  I G   + A +IQ    EYL+   I   +++     +   E+  IP
Sbjct: 44  IEDLARQGPNTLEGIPGIGPDLAAKIQ----EYLQSGKIAAHEELARKVPAGVLEVMRIP 99

Query: 442 GIDSKIKVAL 451
           G+  K    L
Sbjct: 100 GVGPKTAQLL 109


>gi|21231940|ref|NP_637857.1| polynucleotide phosphorylase/polyadenylase [Xanthomonas campestris
           pv. campestris str. ATCC 33913]
 gi|66767933|ref|YP_242695.1| polynucleotide phosphorylase/polyadenylase [Xanthomonas campestris
           pv. campestris str. 8004]
 gi|81306090|sp|Q4UW98|PNP_XANC8 RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|81793552|sp|Q8P7V1|PNP_XANCP RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
 gi|21113669|gb|AAM41781.1| polynucleotide phosphorylase [Xanthomonas campestris pv. campestris
           str. ATCC 33913]
 gi|66573265|gb|AAY48675.1| polynucleotide phosphorylase [Xanthomonas campestris pv. campestris
           str. 8004]
          Length = 704

 Score = 36.6 bits (84), Expect = 9.4,   Method: Composition-based stats.
 Identities = 24/109 (22%), Positives = 44/109 (40%), Gaps = 21/109 (19%)

Query: 100 PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDL 158
            +       +A Q+AK  I Q   + E  R Y            G V ++ ++G  +  L
Sbjct: 595 TIIIASVNAIAAQAAKSRIEQITSDVEPGRIYE-----------GKVAKIMDFGAFVTIL 643

Query: 159 GNSDGVIRRDETIS------RENLRPGDRVKSYIYDVRREQRGPQVLLS 201
              DG++   +  S       + L+ GD V+  + +V ++ R   + LS
Sbjct: 644 PGKDGLVHVSQISSERVEKVGDKLKEGDLVRVKVLEVDKQGR---IRLS 689


>gi|295696379|ref|YP_003589617.1| RNA binding S1 domain protein [Bacillus tusciae DSM 2912]
 gi|295411981|gb|ADG06473.1| RNA binding S1 domain protein [Bacillus tusciae DSM 2912]
          Length = 383

 Score = 36.6 bits (84), Expect = 9.5,   Method: Composition-based stats.
 Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 6/61 (9%)

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRRE 192
           G+II+G V+R+      VD+G  DG++   E          E ++ GD V   +  V  E
Sbjct: 189 GDIITGKVQRLTNFGAFVDVGGVDGLVHISELAWHRVEHPSEVVKEGDEVTVKVLKVDPE 248

Query: 193 Q 193
           +
Sbjct: 249 R 249


>gi|168701504|ref|ZP_02733781.1| DNA-directed RNA polymerase subunit alpha [Gemmata obscuriglobus
           UQM 2246]
          Length = 336

 Score = 36.6 bits (84), Expect = 9.5,   Method: Composition-based stats.
 Identities = 13/77 (16%), Positives = 28/77 (36%)

Query: 339 IDIITEEEDSINRQKDFNERTQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIASI 398
           I+I         +  +   +    +  +++     + L  EG   V +L      E+  +
Sbjct: 246 IEIGPNASVRDQQDAELERKLNMSLAELDLSVRATNCLETEGIQTVRDLVIRTSEELLEV 305

Query: 399 EGFDEETAVEIQGRARE 415
             F E T  E++ +  E
Sbjct: 306 RNFGETTLREVKSKLEE 322


>gi|42522621|ref|NP_968001.1| 30S ribosomal protein S1 [Bdellovibrio bacteriovorus HD100]
 gi|39575153|emb|CAE78994.1| 30S ribosomal protein S1 [Bdellovibrio bacteriovorus HD100]
          Length = 595

 Score = 36.6 bits (84), Expect = 9.5,   Method: Composition-based stats.
 Identities = 23/125 (18%), Positives = 53/125 (42%), Gaps = 10/125 (8%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              QI L+  R+ D  + +G      +   +  R  +  +++ ++++ R++ R +     
Sbjct: 165 PGSQIDLRPVRNMD--VYLGKKFKFKVIKFNKKRGNIVLSRRALLEEERDSLRSQTLDTM 222

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
               G +++G VK +      +DLG  DG++   +          E L  GD ++  +  
Sbjct: 223 A--EGSVVTGVVKNITDYGAFIDLGGMDGLLHITDMSWGRVKHPSEMLNVGDEIQVKVLK 280

Query: 189 VRREQ 193
             +E+
Sbjct: 281 YDKEK 285


>gi|238855194|ref|ZP_04645513.1| putative ribosomal protein S1 [Lactobacillus jensenii 269-3]
 gi|260664557|ref|ZP_05865409.1| ribosomal protein S1 [Lactobacillus jensenii SJ-7A-US]
 gi|282932512|ref|ZP_06337937.1| 40S ribosomal protein S1 [Lactobacillus jensenii 208-1]
 gi|313471977|ref|ZP_07812469.1| ribosomal protein S1 [Lactobacillus jensenii 1153]
 gi|238832086|gb|EEQ24404.1| putative ribosomal protein S1 [Lactobacillus jensenii 269-3]
 gi|239529091|gb|EEQ68092.1| ribosomal protein S1 [Lactobacillus jensenii 1153]
 gi|260561622|gb|EEX27594.1| ribosomal protein S1 [Lactobacillus jensenii SJ-7A-US]
 gi|281303461|gb|EFA95638.1| 40S ribosomal protein S1 [Lactobacillus jensenii 208-1]
          Length = 402

 Score = 36.6 bits (84), Expect = 9.7,   Method: Composition-based stats.
 Identities = 21/92 (22%), Positives = 37/92 (40%), Gaps = 10/92 (10%)

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRRE 192
           G+I+ G V R+      VD+G  DG++   E          + L+ G  VK  +  +  +
Sbjct: 198 GDIVEGKVSRLTNFGAFVDVGGVDGLVHISEISYKHIDKPSDVLKTGQDVKVKVIGIDDD 257

Query: 193 QRGPQVLLSRTHPQFMVKLFHMEVPEIYNGIV 224
           +    + + +T P      F     E+  G V
Sbjct: 258 RHRISLSIKQTEPSP----FEQATSELSEGEV 285


>gi|257096716|sp|B0RRB8|PNP_XANCB RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName:
           Full=Polynucleotide phosphorylase; Short=PNPase
          Length = 704

 Score = 36.6 bits (84), Expect = 9.8,   Method: Composition-based stats.
 Identities = 24/109 (22%), Positives = 44/109 (40%), Gaps = 21/109 (19%)

Query: 100 PLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRV-EYGNVIVDL 158
            +       +A Q+AK  I Q   + E  R Y            G V ++ ++G  +  L
Sbjct: 595 TIIIASVNAIAAQAAKSRIEQITSDVEPGRIYE-----------GKVAKIMDFGAFVTIL 643

Query: 159 GNSDGVIRRDETIS------RENLRPGDRVKSYIYDVRREQRGPQVLLS 201
              DG++   +  S       + L+ GD V+  + +V ++ R   + LS
Sbjct: 644 PGKDGLVHVSQISSERVEKVGDKLKEGDLVRVKVLEVDKQGR---IRLS 689


>gi|254168485|ref|ZP_04875329.1| Type III restriction enzyme, res subunit family [Aciduliprofundum
           boonei T469]
 gi|197622540|gb|EDY35111.1| Type III restriction enzyme, res subunit family [Aciduliprofundum
           boonei T469]
          Length = 694

 Score = 36.6 bits (84), Expect = 9.8,   Method: Composition-based stats.
 Identities = 11/39 (28%), Positives = 18/39 (46%)

Query: 376 LVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAR 414
           L   GF  +E+L    +S +  I G   + A EI  + +
Sbjct: 656 LFDSGFDSIEKLKKANVSTLMRIPGIGRKLAEEILKQVK 694


>gi|219848347|ref|YP_002462780.1| RNA binding S1 domain-containing protein [Chloroflexus aggregans
           DSM 9485]
 gi|219542606|gb|ACL24344.1| RNA binding S1 domain protein [Chloroflexus aggregans DSM 9485]
          Length = 400

 Score = 36.6 bits (84), Expect = 9.8,   Method: Composition-based stats.
 Identities = 34/154 (22%), Positives = 67/154 (43%), Gaps = 14/154 (9%)

Query: 82  KVARDRDPSIDIGGVVSDPLPPMDFGR---VAVQSAKQVIIQKVREAERDRQYLEFKDKV 138
             A+ +     +   V  PL  ++  R     + S +Q +++  RE ++D        + 
Sbjct: 174 SEAQKQSEMARLVN-VELPLKVIEINRNRNRLILSERQALVET-RETKKDELLASL--QE 229

Query: 139 GEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRRE 192
           G++  G V  V    V VD+G +DG++   E          E L+ GD+VK  I ++  E
Sbjct: 230 GDVREGVVSSVCDFGVFVDIGGADGLVHLSEISWSRVKHPSEVLKVGDKVKVSILNIDHE 289

Query: 193 QRGPQVLLSRTHPQFMVKLFHM-EVPEIYNGIVQ 225
           ++   + + RT  +   ++    ++ +I  G V 
Sbjct: 290 RKRIALSIKRTQSEPWTRVAERYQLGQIVEGTVT 323


>gi|56695704|ref|YP_166055.1| 30S ribosomal protein S1 [Ruegeria pomeroyi DSS-3]
 gi|56677441|gb|AAV94107.1| ribosomal protein S1 [Ruegeria pomeroyi DSS-3]
          Length = 558

 Score = 36.6 bits (84), Expect = 9.8,   Method: Composition-based stats.
 Identities = 21/101 (20%), Positives = 41/101 (40%), Gaps = 8/101 (7%)

Query: 99  DPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVEYGNVIVDL 158
             +  MD  R  +  +++ I+++ R  +R           G+ + G VK +      VDL
Sbjct: 158 FQILKMDRRRGNIVVSRRAILEESRAEQRAEVIGNLT--EGQTVDGVVKNITEYGAFVDL 215

Query: 159 GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           G  DG++   +          E L  G+ VK  +  + ++ 
Sbjct: 216 GGVDGLLHVTDMAWRRVNHPNEILNIGETVKVQVIKINKDT 256


>gi|73670944|ref|YP_306959.1| ski2-like helicase [Methanosarcina barkeri str. Fusaro]
 gi|121723325|sp|Q465R3|HELS_METBF RecName: Full=Putative ski2-type helicase
 gi|72398106|gb|AAZ72379.1| helicase [Methanosarcina barkeri str. Fusaro]
          Length = 729

 Score = 36.6 bits (84), Expect = 9.8,   Method: Composition-based stats.
 Identities = 20/86 (23%), Positives = 35/86 (40%), Gaps = 6/86 (6%)

Query: 332 SQLTGWTIDIITEEEDSINRQKDFNERTQFFMQAINV---DEIIAHLLVAEGFADVEELA 388
           SQL G  +D+    E +   ++         +  +N+     + A  L   GF    ELA
Sbjct: 619 SQLAG-LLDLKGAREAAELEKRIHYGAAPELIDLLNIRGIGRVRARKLYEAGFKSSAELA 677

Query: 389 CVKISEIASIEGFDEETAVEIQGRAR 414
            V   ++A++ G   + A  I  + R
Sbjct: 678 EVDPEKVAALLG--PKIADRIFKQIR 701


>gi|333031496|ref|ZP_08459557.1| RNA binding S1 domain protein [Bacteroides coprosuis DSM 18011]
 gi|332742093|gb|EGJ72575.1| RNA binding S1 domain protein [Bacteroides coprosuis DSM 18011]
          Length = 597

 Score = 36.6 bits (84), Expect = 9.8,   Method: Composition-based stats.
 Identities = 29/103 (28%), Positives = 50/103 (48%), Gaps = 7/103 (6%)

Query: 102 PPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGE--IISGTVKRVEYGNVIVDLG 159
           P  DF   A +S        +      + Y +  +KV E  ++ G V  +    V+V++G
Sbjct: 9   PIEDFNWDAYESG--ETTTAIDRESLAKAYDDTLNKVSEREVVDGVVIAMNKREVVVNIG 66

Query: 160 -NSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLS 201
             SDG+I  +E      L+ GD V+ YI   + +++G Q++LS
Sbjct: 67  YKSDGIISLNEFRYNPELKVGDTVEVYIES-QEDKKG-QLVLS 107


>gi|323699942|ref|ZP_08111854.1| ribosomal protein S1 [Desulfovibrio sp. ND132]
 gi|323459874|gb|EGB15739.1| ribosomal protein S1 [Desulfovibrio desulfuricans ND132]
          Length = 614

 Score = 36.6 bits (84), Expect = 9.8,   Method: Composition-based stats.
 Identities = 19/99 (19%), Positives = 44/99 (44%), Gaps = 8/99 (8%)

Query: 88  DPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVK 147
           D    +       +  ++  R  V  +++V+++++R  +R +     +   G+++ G VK
Sbjct: 157 DMDALVNQEFDFKILKINRRRSNVIVSRRVLLEEMRSEQRGKLLETLE--EGQVVQGKVK 214

Query: 148 RVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGD 180
            +    V +DLG  DG++   +         +E +  GD
Sbjct: 215 NITEYGVFIDLGGLDGLLHITDMSWKRIKHPKEMVSLGD 253


>gi|194865309|ref|XP_001971365.1| GG14474 [Drosophila erecta]
 gi|190653148|gb|EDV50391.1| GG14474 [Drosophila erecta]
          Length = 1052

 Score = 36.6 bits (84), Expect = 9.8,   Method: Composition-based stats.
 Identities = 19/75 (25%), Positives = 32/75 (42%), Gaps = 1/75 (1%)

Query: 359  TQFFMQAINVDEIIAHLLVAEGFADVEELACVKISEIA-SIEGFDEETAVEIQGRAREYL 417
             +  M+   V    A  L A GF  +E++A V+ + +  S+E      A EI   A+  L
Sbjct: 969  LEPLMELPAVKINRARQLYAAGFQTIEDIARVRPTHLVQSLEHMPLRVATEIVSAAKIIL 1028

Query: 418  EGIDITLQKKIRELG 432
                  L+++   L 
Sbjct: 1029 MKKLDHLEEETENLK 1043


>gi|163856200|ref|YP_001630498.1| 30S ribosomal protein S1 [Bordetella petrii DSM 12804]
 gi|163259928|emb|CAP42229.1| 30S ribosomal protein S1 [Bordetella petrii]
          Length = 575

 Score = 36.6 bits (84), Expect = 9.8,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 36/70 (51%), Gaps = 6/70 (8%)

Query: 137 KVGEIISGTVKRVEYGNVIVDLG-NSDGVIRRDETI--SRE-NLRPGDRVKSYIYDVRRE 192
           K GE+IS  V RV++  V+V+ G  S+ +I  +E +    E  ++PGD V   I  +   
Sbjct: 33  KSGEVISAEVVRVDHNFVVVNAGLKSEALIPLEEFLNDQGELEVQPGDFVSVAIDSLENG 92

Query: 193 QRGPQVLLSR 202
                 +LSR
Sbjct: 93  YGDT--ILSR 100


>gi|153814811|ref|ZP_01967479.1| hypothetical protein RUMTOR_01026 [Ruminococcus torques ATCC 27756]
 gi|317500330|ref|ZP_07958555.1| hypothetical protein HMPREF1026_00498 [Lachnospiraceae bacterium
           8_1_57FAA]
 gi|145847842|gb|EDK24760.1| hypothetical protein RUMTOR_01026 [Ruminococcus torques ATCC 27756]
 gi|316898271|gb|EFV20317.1| hypothetical protein HMPREF1026_00498 [Lachnospiraceae bacterium
           8_1_57FAA]
          Length = 367

 Score = 36.6 bits (84), Expect = 9.8,   Method: Composition-based stats.
 Identities = 24/131 (18%), Positives = 52/131 (39%), Gaps = 8/131 (6%)

Query: 69  VEEVENYTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERD 128
           V+EV  +     +  + ++D     G  +   +   +  R  V   ++ ++   R  ++ 
Sbjct: 126 VDEVRVFIPASLVSDSYEKDLGKYEGQEIEFVISEFNPRRNRVIGDRRQLLVAERAEKQK 185

Query: 129 RQYLEFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRV 182
             +     +VG+ + G +K V      VDLG  DG++   E         ++N   GD +
Sbjct: 186 ELFARL--QVGDRVDGVIKNVTDFGAFVDLGGVDGLLHISEMSWGRIDNPKKNFHVGDTL 243

Query: 183 KSYIYDVRREQ 193
              + D+   +
Sbjct: 244 TVLVKDIHDTK 254


>gi|323464431|gb|ADX76584.1| ribosomal protein S1 [Staphylococcus pseudintermedius ED99]
          Length = 394

 Score = 36.6 bits (84), Expect = 9.9,   Method: Composition-based stats.
 Identities = 15/65 (23%), Positives = 35/65 (53%), Gaps = 8/65 (12%)

Query: 137 KVGEIISGTVKRVEYGNVIVDL--GNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
           K G+ I+G V+++E  +V+V +  G  +G+I   +        + E ++ GD + +Y+  
Sbjct: 15  KEGDKITGEVQQIEDKHVVVHVNGGKYNGIIPISQLSTYHVENANEVVKVGDEIGAYVTK 74

Query: 189 VRREQ 193
           +  ++
Sbjct: 75  IEVDE 79


>gi|308453438|ref|XP_003089441.1| hypothetical protein CRE_02731 [Caenorhabditis remanei]
 gi|308240341|gb|EFO84293.1| hypothetical protein CRE_02731 [Caenorhabditis remanei]
          Length = 390

 Score = 36.6 bits (84), Expect = 9.9,   Method: Composition-based stats.
 Identities = 11/56 (19%), Positives = 26/56 (46%)

Query: 363 MQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFDEETAVEIQGRAREYLE 418
           +++  +       L   G+   E LA     E+ +++G  ++ A +I   A +Y++
Sbjct: 59  LESTGISSGDISKLKEAGYYTYESLAFTTRRELRNVKGISDQKAEKIMKEAMKYVQ 114


>gi|299137403|ref|ZP_07030585.1| RNA binding S1 domain protein [Acidobacterium sp. MP5ACTX8]
 gi|298600808|gb|EFI56964.1| RNA binding S1 domain protein [Acidobacterium sp. MP5ACTX8]
          Length = 566

 Score = 36.6 bits (84), Expect = 9.9,   Method: Composition-based stats.
 Identities = 18/83 (21%), Positives = 36/83 (43%), Gaps = 9/83 (10%)

Query: 125 AERDRQYLE--FKD-KVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SREN 175
            E+ R   +  + + K G+I+SG V+ +      VDLG  DG++   +          + 
Sbjct: 193 EEQARVLEQSRYAELKEGDIVSGQVRSLASYGAFVDLGGIDGLLHISDISWSRVGTPEDV 252

Query: 176 LRPGDRVKSYIYDVRREQRGPQV 198
           L  G +++  +  V  E +   +
Sbjct: 253 LTVGQQLQLKVLKVEPESKRISL 275


>gi|255322491|ref|ZP_05363636.1| S1 RNA binding domain protein [Campylobacter showae RM3277]
 gi|255300399|gb|EET79671.1| S1 RNA binding domain protein [Campylobacter showae RM3277]
          Length = 556

 Score = 36.6 bits (84), Expect = 9.9,   Method: Composition-based stats.
 Identities = 26/115 (22%), Positives = 56/115 (48%), Gaps = 9/115 (7%)

Query: 91  IDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTVKRVE 150
             +G  V   +  +D     +      + QK  +    + Y + K  VG+I++G ++ ++
Sbjct: 418 FKVGDEVEVKIIKIDSNEQKIS-----LSQKDLKQSPVQAYAK-KFNVGDIVTGKIRDIK 471

Query: 151 YGNVIVDLG-NSDGVIRRDET--ISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202
              V V+LG N D +IR+++   +S ENL   D +++ I  +  ++   ++ + R
Sbjct: 472 DFGVFVELGDNVDALIRKEDLGGVSAENLNINDNIEAAIAFIDEKKNRIRLSVRR 526


>gi|256811072|ref|YP_003128441.1| DNA repair and recombination protein RadA [Methanocaldococcus
           fervens AG86]
 gi|256794272|gb|ACV24941.1| DNA repair and recombination protein RadA [Methanocaldococcus
           fervens AG86]
          Length = 320

 Score = 36.6 bits (84), Expect = 9.9,   Method: Composition-based stats.
 Identities = 12/41 (29%), Positives = 16/41 (39%)

Query: 362 FMQAINVDEIIAHLLVAEGFADVEELACVKISEIASIEGFD 402
             Q   V    A  L   G+ D  ++A   I E+  IEG  
Sbjct: 4   LTQLPGVGPSTAEKLKEAGYTDFMKIATATIGELTDIEGIS 44


>gi|269214552|ref|ZP_06158646.1| ribosomal protein S1 [Neisseria lactamica ATCC 23970]
 gi|269209601|gb|EEZ76056.1| ribosomal protein S1 [Neisseria lactamica ATCC 23970]
          Length = 326

 Score = 36.6 bits (84), Expect = 9.9,   Method: Composition-based stats.
 Identities = 25/113 (22%), Positives = 45/113 (39%), Gaps = 8/113 (7%)

Query: 87  RDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEFKDKVGEIISGTV 146
           +D S   G  +   +  +D  R  V  +++ +++     ER         + G II G V
Sbjct: 143 KDTSHFEGKEIEFKVIKLDKKRNNVVVSRRAVLEATLGEERKALLENL--QEGAIIKGVV 200

Query: 147 KRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQ 193
           K +      VDLG  DG++   +          E L  G  V++ +    +E+
Sbjct: 201 KNITDYGAFVDLGGIDGLLHITDLAWRRVKHPSEVLEVGQEVEAKVLKFDQEK 253


>gi|125973232|ref|YP_001037142.1| 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding
           domain protein [Clostridium thermocellum ATCC 27405]
 gi|281417431|ref|ZP_06248451.1| hydroxymethylbutenyl pyrophosphate reductase [Clostridium
           thermocellum JW20]
 gi|125713457|gb|ABN51949.1| hydroxymethylbutenyl pyrophosphate reductase [Clostridium
           thermocellum ATCC 27405]
 gi|281408833|gb|EFB39091.1| hydroxymethylbutenyl pyrophosphate reductase [Clostridium
           thermocellum JW20]
 gi|316940538|gb|ADU74572.1| hydroxymethylbutenyl pyrophosphate reductase [Clostridium
           thermocellum DSM 1313]
          Length = 694

 Score = 36.6 bits (84), Expect = 9.9,   Method: Composition-based stats.
 Identities = 34/130 (26%), Positives = 60/130 (46%), Gaps = 10/130 (7%)

Query: 75  YTCQISLKVARDRDPSIDIGGVVSDPLPPMDFGRVAVQSAKQVIIQKVREAERDRQYLEF 134
              Q+S +  +D +  +     V   L   +  R  V SA+ VII++ +EA  +R +   
Sbjct: 424 PASQVSDRYVKDLNEFLKRSITVRI-LELNEKRRKVVGSAR-VIIEEEKEALANRTWN-- 479

Query: 135 KDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETI------SRENLRPGDRVKSYIYD 188
             +VG++  GTVK +      VD+G  DG+I   E          E L+ GD V+  + +
Sbjct: 480 SMEVGKVFKGTVKSLTDFGAFVDIGGVDGLIHISELSWTRVKHPSEVLKVGDEVEVTVLE 539

Query: 189 VRREQRGPQV 198
             +E++   +
Sbjct: 540 FDKEKKKVSL 549


  Database: nr
    Posted date:  May 22, 2011 12:22 AM
  Number of letters in database: 999,999,966
  Number of sequences in database:  2,987,313
  
  Database: /data/usr2/db/fasta/nr.01
    Posted date:  May 22, 2011 12:30 AM
  Number of letters in database: 999,999,796
  Number of sequences in database:  2,903,041
  
  Database: /data/usr2/db/fasta/nr.02
    Posted date:  May 22, 2011 12:36 AM
  Number of letters in database: 999,999,281
  Number of sequences in database:  2,904,016
  
  Database: /data/usr2/db/fasta/nr.03
    Posted date:  May 22, 2011 12:41 AM
  Number of letters in database: 999,999,960
  Number of sequences in database:  2,935,328
  
  Database: /data/usr2/db/fasta/nr.04
    Posted date:  May 22, 2011 12:46 AM
  Number of letters in database: 842,794,627
  Number of sequences in database:  2,394,679
  
Lambda     K      H
   0.313    0.175    0.537 

Lambda     K      H
   0.267   0.0537    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,394,567,578
Number of Sequences: 14124377
Number of extensions: 727629825
Number of successful extensions: 2253369
Number of sequences better than 10.0: 8500
Number of HSP's better than 10.0 without gapping: 5119
Number of HSP's successfully gapped in prelim test: 6010
Number of HSP's that attempted gapping in prelim test: 2193427
Number of HSP's gapped (non-prelim): 40209
length of query: 526
length of database: 4,842,793,630
effective HSP length: 144
effective length of query: 382
effective length of database: 2,808,883,342
effective search space: 1072993436644
effective search space used: 1072993436644
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.0 bits)
S2: 85 (37.0 bits)